Modified sequence Experiment N duplicates Sequence Length Missed cleavages Proteins Leading proteins Gene names Protein names Phospho (STY) Acetyl (K) All Phospho (STY) Probabilities All Acetyl (K) Probabilities Max Score Min PEP Intensity Reporter intensity corrected 1 Reporter intensity corrected 2 Reporter intensity corrected 3 Reporter intensity corrected 4 Reporter intensity corrected 5 Reporter intensity corrected 6 Reporter intensity corrected 7 Reporter intensity corrected 8 Reporter intensity corrected 9 Reporter intensity corrected 10 Phosphoproteome Acetylproteome Fullproteome TMT Channel Normal 1 TMT Channel Normal 2 TMT Channel Normal 3 TMT Channel Normal 4 TMT Channel Normal 5 TMT Channel Normal 6 TMT Channel Normal 7 TMT Channel Normal 8 TMT Channel Normal 9 TMT Channel Normal 10 TMT Channel Ratio 1 TMT Channel Ratio 2 TMT Channel Ratio 3 TMT Channel Ratio 4 TMT Channel Ratio 5 TMT Channel Ratio 6 TMT Channel Ratio 7 TMT Channel Ratio 8 TMT Channel Ratio 9 TMT Channel Ratio 10 Curve signal Log EC50 Curve slope Curve top Curve bottom R2 Curve RMSE Log EC50 error Curve slope error Curve top error Curve bottom error EC50 pEC50 Curve effect size Regulation (ac)AAAAAAAAAAGAAGGRGS(ph)GPGR ddPTM_HeLa_SAHA_4h_R1 2 AAAAAAAAAAGAAGGRGSGPGR 22 1 Q86U42-2;Q86U42 Q86U42-2 PABPN1 Polyadenylate-binding protein 2 1 0 AAAAAAAAAAGAAGGRGS(1)GPGR;AAAAAAAAAAGAAGGRGS(1)GPGR ; 117.23 5.84E-21 17732300 435.89 226.85 310.21 390.521 457.36 540.17 384.52 389.493 325.45 146.65 TRUE FALSE FALSE 481.7389101 234.2000888 352.4838033 398.0800987 422.3171756 494.1444771 341.2527976 379.530333 323.185167 152.9727992 3.149180199 1.530991719 2.30422536 2.602293354 2.76073379 3.230276753 2.230807042 2.481031497 2.112696954 1 7.257131333 -9.461347426 1.085698618 0.960706988 2.579654752 0.24493707 0.565016043 0.296149263 0.599374596 0.379831126 0.084988683 3.46E-10 9.461347426 1.618947764 (ac)AAAAAAAGDS(ph)DSWDADAFSVEDPVRK ddPTM_HeLa_SAHA_4h_R1 9 AAAAAAAGDSDSWDADAFSVEDPVRK 26 1 O75822-2;O75822;O75822-3 O75822-2 EIF3J Eukaryotic translation initiation factor 3 subunit J 1 0 AAAAAAAGDS(0.967)DS(0.033)WDADAFSVEDPVRK;AAAAAAAGDS(0.991)DS(0.009)WDADAFSVEDPVRK;AAAAAAAGDS(0.96)DS(0.04)WDADAFSVEDPVRK;AAAAAAAGDS(0.973)DS(0.027)WDADAFSVEDPVRK;AAAAAAAGDS(0.963)DS(0.037)WDADAFSVEDPVRK;AAAAAAAGDS(0.965)DS(0.035)WDADAFSVEDPVRK;AAAAAAAGDS(0.98)DS(0.02)WDADAFSVEDPVRK;AAAAAAAGDS(0.918)DS(0.082)WDADAFSVEDPVRK;AAAAAAAGDS(0.806)DS(0.194)WDADAFSVEDPVRK ;;;;;;;; 134.86 1.36E-18 69964500 7450.68 8261.36 7243.63 7833.53 8188.91 8860.12 8713.748 8541.72 7996 7957.92 TRUE FALSE FALSE 8234.376707 8529.033484 8230.754173 7985.159301 7561.477485 8105.18793 7733.254142 8323.235171 7940.355185 8301.024876 0.991971092 1.027467525 0.991534696 0.961948605 0.910908906 0.9764081 0.931602333 1.002675609 0.956551185 1 13.01907375 -6.254895402 4.154012667 0.99881705 0.953362935 0.291592022 0.028178705 0.143549882 6.044659664 0.003495848 0.005702723 5.56E-07 6.254895402 -0.045454115 (ac)AAAAELSLLEK ddPTM_HeLa_SAHA_4h_R1 2 AAAAELSLLEK 11 0 D6RBD7;C9J1V9;O43324-2;O43324 D6RBD7 EEF1E1;EEF1E1-BLOC1S5 Eukaryotic translation elongation factor 1 epsilon-1 0 0 ; ; 141.88 4.19E-07 1258050 1847.79 2188.4 1616.76 1596.02 1671.5 2161.2 1790.84 2129 2338.2 1543.55 FALSE FALSE TRUE 2042.14903 2259.305596 1837.083633 1626.913275 1543.430031 1977.053601 1589.32997 2074.543263 2321.928276 1610.099994 1.268336772 1.40320825 1.140974871 1.010442383 0.958592657 1.22790734 0.987100165 1.288456164 1.442101909 1 10.65293457 -6.500807606 24.14667374 1.156758792 1.087125669 0.058226536 0.164906217 1510.895069 1652977.434 0.02481072 0.037674028 3.16E-07 6.500807606 -0.069633124 (ac)AAAAPDS(ph)RVSEEENLK ddPTM_HeLa_SAHA_4h_R1 1 AAAAPDSRVSEEENLK 16 1 Q9Y3B9 Q9Y3B9 RRP15 RRP15-like protein 1 0 AAAAPDS(0.638)RVS(0.362)EEENLK 89.9 0.00028824 7016600 903.75 1072 1040.8 968.06 1144.9 1180 1286.1 912.41 1080.3 1020.7 TRUE FALSE FALSE 998.8105716 1106.733503 1182.634804 986.7982011 1057.178009 1079.457362 1141.384643 889.0718734 1072.782104 1064.707372 0.938108064 1.039472002 1.110760416 0.926825743 0.992928233 1.013853562 1.072017226 0.835038713 1.007583992 1 10.05624125 -2.89699202 14.49932817 0.984601407 0.534760037 0 0.074918223 0 0 0.009352005 0 0.001267675 2.89699202 -0.44984137 (ac)AAADGDDSLYPIAVLIDELR ddPTM_HeLa_SAHA_4h_R1 1 AAADGDDSLYPIAVLIDELR 20 0 P30153;C9J9C1;M0QXG4;M0R0K6 P30153 PPP2R1A Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform 0 0 82.908 0.00026241 18127000 0 0 0 0 0 175.74 0 66.934 0 0 FALSE FALSE TRUE 0 0 0 0 0 160.7659633 0 65.2219252 0 0 0 (ac)AAAMDVDT(ph)PSGTNSGAGKK ddPTM_HeLa_SAHA_4h_R1 1 AAAMDVDTPSGTNSGAGKK 19 1 P62877 P62877 RBX1 "E3 ubiquitin-protein ligase RBX1;E3 ubiquitin-protein ligase RBX1, N-terminally processed" 1 0 AAAMDVDT(0.94)PS(0.058)GT(0.002)NS(0.001)GAGKK 72.207 0.00018383 0 497.02 313.33 287.15 378 519.31 447.81 349.58 548.09 426.76 455.99 TRUE FALSE FALSE 549.298844 323.4820976 326.2813066 385.3167366 479.52058 409.6540687 310.2443384 534.0706514 423.7901424 475.6499605 1.15483841 0.680084357 0.685969376 0.81008466 1.008137538 0.861251136 0.652253472 1.122822865 0.890970625 1 8.893756448 -7.270706271 24.98899635 1.07311814 0.82613486 0.202410128 0.154613574 496.6875416 1339359.495 0.024677134 0.028424545 5.36E-08 7.270706271 -0.24698328 (ac)AADVSVTHRPPLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 AADVSVTHRPPLSPK 15 1 A0A087WZ13;Q8IY67-2;Q8IY67-3;Q8IY67 A0A087WZ13 RAVER1 Ribonucleoprotein PTB-binding 1 1 0 AADVS(0.001)VT(0.087)HRPPLS(0.912)PK;AADVS(0.009)VT(0.099)HRPPLS(0.892)PK ; 56.514 0.011664 236329000 4610.2 5978.9 3529.14 5389.3 8576.1 11682.4 6788.8 8245.1 6243 7008.5 TRUE FALSE FALSE 5095.121988 6172.620283 4010.07282 5493.617695 7919.001071 10686.9938 6024.906357 8034.202281 6199.554455 7310.670734 0.696943163 0.844330227 0.548523243 0.751451938 1.083211289 1.461834924 0.824124978 1.098969243 0.848014455 1 12.83578806 -5.70206898 6.57498546 0.820340982 1.123923201 0.439896593 0.182512971 0.186907491 15.88117717 0.029312428 0.0586976 1.99E-06 5.70206898 0.303582219 (ac)AAGGAAPET(ph)PAISPSKR ddPTM_HeLa_SAHA_4h_R1 2 AAGGAAPETPAISPSKR 17 1 H0YNW5;H0YMM5 H0YNW5 DUT 1 0 AAGGAAPET(0.486)PAIS(0.32)PS(0.195)KR;AAGGAAPET(0.463)PAIS(0.449)PS(0.088)KR ; 86.539 0.0078761 33157000 2463.3 2655 2347.8 2736.8 3010.2 3049.8 3080.7 3015.7 3050.9 3057.6 TRUE FALSE FALSE 2722.401196 2741.023742 2667.745957 2789.774721 2779.559126 2789.939882 2734.051528 2938.562761 3029.668538 3189.4281 0.85357033 0.859409166 0.836433954 0.874694345 0.87149139 0.874746129 0.857223127 0.921344727 0.949909653 1 11.63908204 -9.212787166 0.846432868 1.004069766 0.866780357 0.72217307 0.025653562 0.188292557 0.231805476 0.01677065 0.004188416 6.13E-10 9.212787166 -0.137289409 (ac)AAGGAAPETPAIS(ph)PSKR ddPTM_HeLa_SAHA_4h_R1 2 AAGGAAPETPAISPSKR 17 1 H0YNW5;H0YMM5 H0YNW5 DUT 1 0 AAGGAAPET(0.037)PAIS(0.84)PS(0.124)KR;AAGGAAPETPAIS(0.919)PS(0.081)KR ; 130.47 1.27E-06 35165000 3583.6 3134.3 3102.6 3371.8 3589 3668.3 4198.8 3574.2 3165.4 3153 TRUE FALSE FALSE 3960.53949 3235.853376 3525.40617 3437.066065 3314.011595 3355.740203 3726.339973 3482.777139 3143.371724 3288.94126 1.204198913 0.983858671 1.07189697 1.04503723 1.007622616 1.020310166 1.132990734 1.058935646 0.955739697 1 11.68340753 -7.210057635 24.99966972 1.096427649 1.047685183 0 0.074250339 760.7495984 370141.6253 0.013801065 0.016902771 6.17E-08 7.210057635 -0.048742467 (ac)AAGGDHGS(ph)PDSYR ddPTM_HeLa_SAHA_4h_R1 4 AAGGDHGSPDSYR 13 0 A0A1B0GTG9;A0A1B0GWF8;A0A1B0GWJ0;A0A1B0GTJ7;A0A0A6YY92;P30566-2;P30566;B4DEP1;A0A1W2PRX2;A0A096LP72;A0A096LNY4;A0A096LNY5 A0A1B0GTG9 ADSL Adenylosuccinate lyase 1 0 AAGGDHGS(0.971)PDS(0.029)YR;AAGGDHGS(0.986)PDS(0.014)YR;AAGGDHGS(0.767)PDS(0.233)YR;AAGGDHGS(0.993)PDS(0.007)YR ;;; 129.76 4.20E-42 64178500 54.432 172.765 294.73 364.91 103.72 239.411 310.37 129.59 205.812 248.288 TRUE FALSE FALSE 60.1574075 178.3626994 334.8942695 371.9733607 95.77299601 219.0118359 275.4463508 126.2752754 204.3797375 258.9929108 0.23227434 0.688677921 1.293063461 1.436229894 0.369790029 0.84562869 1.063528534 0.487562671 0.789132556 1 8.016768798 -6.976286353 24.89322665 0.62814773 0.924347068 0.094664642 0.352528574 395.2300703 414888.7326 0.066493406 0.087387052 1.06E-07 6.976286353 0.296199338 (ac)AAGTLYTYPENWR ddPTM_HeLa_SAHA_4h_R1 1 AAGTLYTYPENWR 13 0 P26641 P26641 EEF1G Elongation factor 1-gamma 0 0 86.882 0.00207 4938400 285.91 176.58 219.24 270.48 242.36 172.96 293.53 237.84 298.27 293.91 FALSE FALSE TRUE 315.9833256 182.3013079 249.1168854 275.7155315 223.7904292 158.222835 260.5012319 231.7563972 296.1943148 306.5818985 1.030665304 0.594625152 0.812562277 0.899320974 0.729953172 0.516086683 0.84969541 0.755936337 0.966118079 1 8.260128708 -7.279821531 24.67561618 1.014480851 0.741621482 0.550113423 0.108262292 345.5059065 463795.0451 0.01816666 0.020796033 5.25E-08 7.279821531 -0.272859369 (ac)AALGHLAGEAAAAPGPGT(ph)PCASR ddPTM_HeLa_SAHA_4h_R1 4 AALGHLAGEAAAAPGPGTPCASR 23 0 A0A3B3IRR6;A0A3B3IT54;A0A3B3ITA3;Q9H7E9;Q9H7E9-2 A0A3B3IRR6 C8orf33 UPF0488 protein C8orf33 1 0 AALGHLAGEAAAAPGPGT(0.996)PCAS(0.004)R;AALGHLAGEAAAAPGPGT(0.989)PCAS(0.011)R;AALGHLAGEAAAAPGPGT(0.995)PCAS(0.005)R;AALGHLAGEAAAAPGPGT(0.997)PCAS(0.003)R ;;; 169.84 8.91E-70 70384000 0 0 70.645 136.83 0 0 0 0 0 129.85 TRUE FALSE FALSE 0 0 80.2721327 139.4785425 0 0 0 0 0 135.448469 0 0 0.592639646 1.029753556 0 0 0 0 0 1 7.081600276 -9.366070807 0.999510132 1.017796692 0.201238131 0 0.449329988 0.454226914 0.783843808 0.272749223 0.064849577 4.30E-10 9.366070807 -0.816558561 (ac)AALHTTPDS(ph)PAAQLER ddPTM_HeLa_SAHA_4h_R1 3 AALHTTPDSPAAQLER 16 0 A6NFI3 A6NFI3 ZNF316 Zinc finger protein 316 1 0 AALHT(0.114)T(0.067)PDS(0.819)PAAQLER;AALHT(0.006)T(0.024)PDS(0.97)PAAQLER;AALHT(0.004)T(0.03)PDS(0.965)PAAQLER ;; 135.57 2.28E-28 31417400 186.87 224.741 258.96 93.403 410.511 348.24 250.482 193.61 351.12 330.17 TRUE FALSE FALSE 206.525844 232.0227559 294.2497202 95.21095013 379.0577359 318.5679929 222.2971061 188.6577365 348.6765273 344.4052445 0.599659405 0.673691123 0.854370614 0.276450349 1.100615458 0.924980086 0.645452152 0.54777835 1.01240191 1 8.427963302 -9.425180606 1.128465421 1.00165039 0.70169575 0.243757936 0.212739846 0.622749688 1.406024816 0.147571546 0.036308381 3.76E-10 9.425180606 -0.299954641 (ac)AAPAQQTTQPGGGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 AAPAQQTTQPGGGKR 15 1 H3BNW0;Q9NXG2 H3BNW0 THUMPD1 THUMP domain-containing protein 1 0 1 ; AAPAQQTTQPGGGK(1)R;AAPAQQTTQPGGGK(1)R 108.56 2.03E-24 3541600 0 0 55.115 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 62.62578517 0 0 0 0 0 0 0 0 (ac)AAPEEHDS(ph)PTEASQPIVEEEETKTFK ddPTM_HeLa_SAHA_4h_R1 1 AAPEEHDSPTEASQPIVEEEETKTFK 26 1 F5H1N9;Q9H0S4-2;Q9H0S4 F5H1N9 DDX47 Probable ATP-dependent RNA helicase DDX47 1 0 AAPEEHDS(0.824)PT(0.168)EAS(0.008)QPIVEEEETKTFK 89.47 1.43E-06 10426000 1136 326.75 676.78 638.8 945.15 412.22 894.29 1260.6 332.75 648.03 TRUE FALSE FALSE 1255.489692 337.3369144 769.0080539 651.1648977 872.7328112 377.0965369 793.6621356 1228.355677 330.4343657 675.9697447 1.857316399 0.499041439 1.137636795 0.963304797 1.291082653 0.557860082 1.174108962 1.817175527 0.488830111 1 9.400814865 -7.272114014 24.99672629 1.404843833 1.055562451 0 0.492946224 1191.293825 2789640.073 0.077561491 0.089154286 5.34E-08 7.272114014 -0.349281382 (ac)AAPEEHDSPT(ph)EASQPIVEEEETKTFK ddPTM_HeLa_SAHA_4h_R1 1 AAPEEHDSPTEASQPIVEEEETKTFK 26 1 F5H1N9;Q9H0S4-2;Q9H0S4 F5H1N9 DDX47 Probable ATP-dependent RNA helicase DDX47 1 0 AAPEEHDS(0.17)PT(0.701)EAS(0.129)QPIVEEEETKTFK 65.365 1.14E-05 12005000 1445.1 315.73 1047.2 901.6 788.76 528.44 1507.2 1565.5 226.07 940.61 TRUE FALSE FALSE 1597.102248 325.9598592 1189.906962 919.0517717 728.3253792 483.4139391 1337.605889 1525.456777 224.4967605 981.1643003 1.62776229 0.332217406 1.212749956 0.936695079 0.742307256 0.492694179 1.363284303 1.554741419 0.228806491 1 9.938350932 -7.301323704 24.99994272 1.296443247 0.948145419 0 0.507653228 791.0643441 495846.1347 0.07086098 0.081033187 5.00E-08 7.301323704 -0.348297828 (ac)AAS(ph)PGSGSANPR ddPTM_HeLa_SAHA_4h_R1 2 AASPGSGSANPR 12 0 Q6UUV7;Q6UUV7-3;H0YK33 Q6UUV7 CRTC3 CREB-regulated transcription coactivator 3 1 0 AAS(1)PGSGSANPR;AAS(0.995)PGS(0.003)GS(0.001)ANPR ; 98.407 0.0085737 5467600 223.89 228.723 305.75 178.17 181.02 436.76 176.73 180.87 414.72 536.93 TRUE FALSE FALSE 247.4397774 236.1337753 347.4160177 181.618738 167.1502867 399.5455909 156.8438753 176.2436073 411.8339298 560.07968 0.441793884 0.421607467 0.620297486 0.324273036 0.298440191 0.713372767 0.280038503 0.314675953 0.735313107 1 9.129488277 -9.39426019 0.471140271 1.171157686 0.403239873 0.533534981 0.156773117 0.765021506 0.210661525 0.283467964 0.036556193 4.03E-10 9.39426019 -0.767917813 (ac)AASAAAAS(ph)AAAASAASGSPGPGEGSAGGEKR ddPTM_HeLa_SAHA_4h_R1 2 AASAAAASAAAASAASGSPGPGEGSAGGEKR 31 1 Q13263;Q13263-2 Q13263 TRIM28 Transcription intermediary factor 1-beta 1 0 AAS(0.04)AAAAS(0.785)AAAAS(0.031)AAS(0.083)GS(0.061)PGPGEGSAGGEKR;AAS(0.001)AAAAS(0.987)AAAAS(0.012)AASGSPGPGEGSAGGEKR ; 115.12 2.01E-14 453984000 2647.97 2646.4 1946.45 2354.28 2566.75 2498.1 2891.92 2779.9 2409.54 2271.1 TRUE FALSE FALSE 2926.495634 2732.145096 2211.702069 2399.850494 2370.08617 2285.247826 2566.51355 2708.794183 2392.771815 2369.018235 1.235320012 1.153281581 0.933594363 1.013014783 1.000450792 0.964639188 1.083365891 1.143424792 1.010026761 1 11.21007359 -6.782755706 24.92434359 1.117390126 1.021679062 0.15338622 0.084064546 317.536214 371281.408 0.01689549 0.0222169 1.65E-07 6.782755706 -0.095711064 (ac)AASAAAASAAAAS(ph)AASGSPGPGEGSAGGEKR ddPTM_HeLa_SAHA_4h_R1 1 AASAAAASAAAASAASGSPGPGEGSAGGEKR 31 1 Q13263;Q13263-2 Q13263 TRIM28 Transcription intermediary factor 1-beta 1 0 AAS(0.01)AAAAS(0.078)AAAAS(0.854)AAS(0.032)GS(0.026)PGPGEGS(0.001)AGGEKR 61.429 4.16E-10 6109300 458.47 611.14 548.35 656.66 483.6 698.02 530.81 542.37 473.89 672.67 TRUE FALSE FALSE 506.6939781 630.941337 623.0762823 669.3706038 446.5466725 638.544769 471.0818618 528.4969607 470.5921609 701.6720957 0.722123598 0.899196848 0.887987831 0.953964976 0.636403635 0.91003301 0.67137038 0.753196492 0.670672475 1 9.45465318 -9.4754318 1.131867171 1.00356403 0.799873733 0 0.144161649 0.4679289 1.041766051 0.077238036 0.017640612 3.35E-10 9.4754318 -0.203690297 (ac)AASAAAASAAAASAAS(ph)GSPGPGEGSAGGEKR ddPTM_HeLa_SAHA_4h_R1 1 AASAAAASAAAASAASGSPGPGEGSAGGEKR 31 1 Q13263;Q13263-2 Q13263 TRIM28 Transcription intermediary factor 1-beta 1 0 AAS(0.015)AAAAS(0.267)AAAAS(0.228)AAS(0.378)GS(0.112)PGPGEGSAGGEKR 59.888 6.38E-09 8472400 348.85 506.46 390.53 521.97 551.9 521.29 353.75 370.09 348.88 460.86 TRUE FALSE FALSE 385.5436436 522.8696363 443.7493946 532.0734841 509.6135412 476.8731593 313.945119 360.6236337 346.4521157 480.72993 0.801996338 1.087657755 0.923074198 1.106803323 1.060082823 0.991977261 0.653059232 0.75015848 0.720679313 1 8.909082817 -4.762168877 24.99984513 0.94861319 0.701608805 0.432440044 0.118372636 12.96096356 444257.7623 0.016137282 0.053044043 1.73E-05 4.762168877 -0.247004385 (ac)AASAAAASAAAASAASGS(ph)PGPGEGSAGGEKR ddPTM_HeLa_SAHA_4h_R1 5 AASAAAASAAAASAASGSPGPGEGSAGGEKR 31 1 Q13263;Q13263-2 Q13263 TRIM28 Transcription intermediary factor 1-beta 1 0 AASAAAASAAAAS(0.001)AAS(0.054)GS(0.944)PGPGEGSAGGEKR;AASAAAAS(0.101)AAAAS(0.211)AAS(0.217)GS(0.469)PGPGEGS(0.001)AGGEKR;AAS(0.012)AAAAS(0.349)AAAAS(0.111)AAS(0.077)GS(0.45)PGPGEGS(0.001)AGGEKR;AASAAAAS(0.001)AAAAS(0.006)AAS(0.023)GS(0.97)PGPGEGSAGGEKR;AASAAAAS(0.002)AAAAS(0.001)AAS(0.373)GS(0.622)PGPGEGS(0.002)AGGEKR ;;;; 126.31 1.85E-16 508115100 3443.12 3330.19 3047.95 3487.13 3893.83 4017.16 3612.81 3981.1 3487.98 3243.99 TRUE FALSE FALSE 3805.283159 3438.090341 3463.308753 3554.628444 3595.485587 3674.875368 3206.28711 3879.269227 3463.706863 3383.854285 1.124541082 1.016027894 1.023480464 1.05046735 1.062541494 1.086002841 0.947525171 1.146405519 1.023598114 1 11.72445173 -9.751178035 1.701049517 0.999978886 1.064907607 0.083152145 0.054014728 0.552633218 2.892661586 0.039315126 0.008469274 1.77E-10 9.751178035 0.064928721 (ac)AASSS(ph)S(ph)MTSSAAR ddPTM_HeLa_SAHA_4h_R1 1 AASSSSMTSSAAR 13 0 E9PN45 E9PN45 PLEKHA7 2 0 AAS(0.009)S(0.009)S(0.484)S(0.484)MT(0.484)S(0.484)S(0.047)AAR 50.034 0.015322 6188700 1467 1915.7 1281.9 1851.2 1788.8 2277.4 1724.7 1639.5 2039.7 1747.5 TRUE FALSE FALSE 1621.305791 1977.769937 1456.590656 1887.032653 1651.74253 2083.352708 1530.632217 1597.563964 2025.505562 1822.843277 0.889437842 1.084991761 0.799076187 1.035213875 0.90613524 1.142913784 0.839694907 0.87641323 1.111179215 1 10.83197481 -5.977877733 0.005153706 1.884229438 1.38E-07 0.029270491 0.11392653 48525.44983 83.11488782 14942.58444 15444.5886 1.05E-06 5.977877733 -1.8842293 (ac)AATDLERFS(ph)NAEPEPR ddPTM_HeLa_SAHA_4h_R1 1 AATDLERFSNAEPEPR 16 1 A0A087X142;A6NMH6;A6NFQ9;F8W8I8;Q92599-2;Q92599-4;Q92599 A0A087X142 8-Sep Septin-8 1 0 AAT(0.01)DLERFS(0.99)NAEPEPR 52.42 0.0053596 2613500 68.529 130.55 159.18 130.59 201.04 216.43 268.94 199.88 286.82 178.54 TRUE FALSE FALSE 75.73719464 134.7799057 180.8722214 133.1177583 185.6363586 197.9889464 238.6781634 194.767359 284.8239963 186.2377332 0.40666944 0.723698165 0.971189986 0.714773296 0.996770931 1.063097918 1.281577902 1.045799665 1.529357083 1 7.541001593 -5.568730307 1.246739372 0.725367157 1.173252534 0 0.30313782 0.38930213 1.166424079 0.037692997 0.120439064 2.70E-06 5.568730307 0.447885378 (ac)AATLGAGT(ph)PPRPQAR ddPTM_HeLa_SAHA_4h_R1 2 AATLGAGTPPRPQAR 15 1 A0A075B730 A0A075B730 EPPK1 1 0 AATLGAGT(1)PPRPQAR;AAT(0.004)LGAGT(0.996)PPRPQAR ; 88.092 0.0001234 27593000 355.69 175.867 266.65 362.05 386.41 349.36 419.36 402.12 303.69 314.27 TRUE FALSE FALSE 393.1031062 181.5652062 302.9876733 369.0580013 356.8033493 319.5925626 372.1725091 391.8343527 301.5765966 327.8197177 1.199144179 0.55385688 0.924250913 1.125795617 1.088413326 0.974903416 1.135296289 1.195273901 0.919946484 1 8.356758822 -4.574178778 5.743786886 1.040793145 1.181852497 0.072911349 0.174961734 0.362875725 25.96339041 0.0256174 0.1022892 2.67E-05 4.574178778 0.141059352 (ac)ACARPLISVYSEKGESSGK ddPTM_HeLa_SAHA_4h_R1 1 ACARPLISVYSEKGESSGK 19 2 P36578;H3BTP7;H3BU31 P36578 RPL4 60S ribosomal protein L4 0 0 46.621 0.00013067 2475000 236.34 174.78 372.95 209.04 151.78 261.11 308.91 311.02 190.37 315.29 FALSE FALSE TRUE 261.1993256 180.4429867 423.7736838 213.0862715 140.1506492 238.861959 274.1506338 303.0645588 189.0451997 328.8836949 0.794199681 0.548652881 1.288521415 0.647907679 0.42614046 0.72628094 0.833579281 0.92149463 0.574808671 1 8.361433675 (ac)ACGLVASNLNLKPGECLR ddPTM_HeLa_SAHA_4h_R1 2 ACGLVASNLNLKPGECLR 18 1 P09382;F8WEI7 P09382 LGALS1 Galectin-1 0 0 ; ; 117.93 1.13E-34 5244700 190.47 312.45 427.677 593.86 429.75 527.937 502.61 350.966 194.12 600.27 FALSE FALSE TRUE 210.5045085 322.573585 485.9585943 605.355019 396.8226478 482.9537975 446.055 341.9887979 192.7691031 626.1505774 0.336188317 0.515169349 0.776105001 0.966788247 0.633749552 0.77130616 0.712376569 0.546176607 0.307863811 1 9.290365829 -9.669114553 1.542538356 0.998838104 0.618504189 0 0.269848798 0.372651381 1.603907508 0.142380267 0.032311129 2.14E-10 9.669114553 -0.380333915 (ac)ACSPDAVVS(ph)PSSAFLR ddPTM_HeLa_SAHA_4h_R1 1 ACSPDAVVSPSSAFLR 16 0 Q93100-4;Q93100-2;I3L3F2;H3BV13;H3BQ89 Q93100-4 PHKB Phosphorylase b kinase regulatory subunit beta 1 0 ACSPDAVVS(0.978)PS(0.017)S(0.006)AFLR 92.427 2.37E-05 0 58.629 0 0 145.66 134.56 125.84 0 219.25 0 0 TRUE FALSE FALSE 64.79586722 0 0 148.4794599 124.2500419 115.117724 0 213.6419025 0 0 0 (ac)ADAWEEIRR ddPTM_HeLa_SAHA_4h_R1 1 ADAWEEIRR 9 1 O94874-3;O94874 O94874-3 UFL1 E3 UFM1-protein ligase 1 0 0 105.14 9.06E-05 2915200 70.871 0 0 245.87 179.34 219.46 164.65 268.15 165.5 123.06 FALSE FALSE TRUE 78.32553695 0 0 250.6291694 165.5990079 200.7607734 146.1231487 261.2911113 164.348272 128.3657188 0.610174879 0 0 1.952461854 1.290056328 1.563974986 1.138334674 2.03552096 1.280312793 1 7.00411616 -6.249766793 24.89739497 0.68143517 1.55185624 0.554820608 0.450336201 481.6597484 1027370.374 0.067942754 0.11205641 5.63E-07 6.249766793 0.87042107 (ac)ADEAALALQPGGS(ph)PSAAGADR ddPTM_HeLa_SAHA_4h_R1 2 ADEAALALQPGGSPSAAGADR 21 0 Q96EB6;Q96EB6-2 Q96EB6 SIRT1 NAD-dependent protein deacetylase sirtuin-1;SirtT1 75 kDa fragment 1 0 ADEAALALQPGGS(0.767)PS(0.233)AAGADR;ADEAALALQPGGS(0.663)PS(0.337)AAGADR ; 126.09 4.15E-21 24536000 0 0 0 0 0 0 0 76.491 69.94 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 74.53447098 69.45328185 0 0 (ac)ADEAALALQPGGS(ph)PSAAGADREAASSPAGEPLR ddPTM_HeLa_SAHA_4h_R1 1 ADEAALALQPGGSPSAAGADREAASSPAGEPLR 33 1 Q96EB6;Q96EB6-2 Q96EB6 SIRT1 NAD-dependent protein deacetylase sirtuin-1;SirtT1 75 kDa fragment 1 0 ADEAALALQPGGS(0.532)PS(0.443)AAGADREAAS(0.017)S(0.008)PAGEPLR 51.479 6.59E-06 9809100 0 0 0 0 0 0 0 135.52 0 60.844 TRUE FALSE FALSE 0 0 0 0 0 0 0 132.0535946 0 63.4672826 0 0 0 0 0 0 0 2.080656193 0 1 5.987941169 -9.332742514 1.052021349 1.000779212 0.196215382 0 0.688910802 0.676985045 1.339112221 0.402192057 0.105522729 4.65E-10 9.332742514 -0.80456383 (ac)ADEAALALQPGGSPS(ph)AAGADREAASSPAGEPLR ddPTM_HeLa_SAHA_4h_R1 1 ADEAALALQPGGSPSAAGADREAASSPAGEPLR 33 1 Q96EB6;Q96EB6-2 Q96EB6 SIRT1 NAD-dependent protein deacetylase sirtuin-1;SirtT1 75 kDa fragment 1 0 ADEAALALQPGGS(0.057)PS(0.943)AAGADREAASSPAGEPLR 94.016 3.78E-19 10989000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)ADEAALALQPGGSPSAAGADREAAS(ph)S(ph)PAGEPLR ddPTM_HeLa_SAHA_4h_R1 1 ADEAALALQPGGSPSAAGADREAASSPAGEPLR 33 1 Q96EB6;Q96EB6-2 Q96EB6 SIRT1 NAD-dependent protein deacetylase sirtuin-1;SirtT1 75 kDa fragment 2 0 ADEAALALQPGGS(0.025)PS(0.031)AAGADREAAS(0.966)S(0.977)PAGEPLR 40.952 0.0042617 6375700 0 0 0 0 0 0 0 61.153 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 59.58879481 0 0 0 (ac)ADEELEALRR ddPTM_HeLa_SAHA_4h_R1 2 ADEELEALRR 10 1 O14737;O14737-2;K7ESJ4;Q3HM38;X6R2P6 O14737 PDCD5 Programmed cell death protein 5 0 0 ; ; 73.665 0.0035267 13585900 625.9 836.75 1017.68 956.6 664.49 795.46 867.21 1198.51 865.39 679.04 FALSE FALSE TRUE 691.7350337 863.861249 1156.364131 975.1163763 613.5769198 727.6823329 769.6292484 1167.85385 859.3676805 708.3167375 0.976589987 1.219597397 1.632552316 1.376667139 0.866246535 1.027340305 1.086560867 1.648773476 1.213253386 1 9.468250823 -7.231740178 5.99747278 0.98877302 1.253376409 0.10325315 0.244021325 0.225881276 26.73050276 0.040345652 0.048863472 5.86E-08 7.231740178 0.264603389 (ac)ADEIAK ddPTM_HeLa_SAHA_4h_R1 1 ADEIAK 6 0 P49773;D6RC06;D6REP8;D6RE99;D6RD60 P49773 HINT1 Histidine triad nucleotide-binding protein 1 0 0 56.51 0.015413 6795900 1299.8 1071 1072.3 1357.4 1433.5 1320.2 1201.5 1216.8 1285.5 1134.8 FALSE FALSE TRUE 1436.518928 1105.701103 1218.42746 1383.67444 1323.66554 1207.711533 1066.304058 1185.676018 1276.554101 1183.726782 1.21355616 0.934084723 1.02931477 1.16891369 1.118218799 1.020262067 0.900802512 1.001646694 1.078419548 1 10.20912041 -5.011258146 4.687604454 1.090540117 0.951521123 0.275491369 0.079883252 0.194983526 11.43736412 0.013904488 0.040441647 9.74E-06 5.011258146 -0.139018994 (ac)ADEK(ac)PKEGVK ddPTM_HeLa_SAHA_4h_R1 1 ADEKPKEGVK 10 2 P61956-2;P61956 P61956-2 SUMO2 Small ubiquitin-related modifier 2 0 1 ADEK(0.972)PK(0.028)EGVK 74.464 0.0025182 17144000 7996.9 6665.8 8272.9 7962.6 8360.4 8306.7 9223.8 9362.1 5907.5 7079.7 FALSE TRUE FALSE 8838.050633 6881.776294 9400.287729 8116.727637 7719.827958 7598.922428 8185.913748 9122.631038 5866.389227 7384.940514 1.196766665 0.931866178 1.272899587 1.09909181 1.045347345 1.028975442 1.10846035 1.235301899 0.7943719 1 12.85037058 -9.614661887 1.416512308 0.999893572 1.120793144 0.274386104 0.117142459 0.585401652 2.105777977 0.066878007 0.015294839 2.43E-10 9.614661887 0.120899571 (ac)ADEKPKEGVK(ac)TENNDHINLK ddPTM_HeLa_SAHA_4h_R1 1 ADEKPKEGVKTENNDHINLK 20 3 P61956-2;P61956 P61956-2 SUMO2 Small ubiquitin-related modifier 2 0 1 ADEK(0.007)PK(0.022)EGVK(0.971)TENNDHINLK 47.752 0.0094591 6231600 3248.9 2293.5 3626.9 2470.5 2647.9 2715.1 3716.4 4557 1457.2 2283.9 FALSE TRUE FALSE 3590.634208 2367.810905 4121.155044 2518.3201 2445.018474 2483.758205 3298.220891 4440.438538 1447.059227 2382.370106 1.507168932 0.993888774 1.729855086 1.057065018 1.026296656 1.042557661 1.384428424 1.863874352 0.6074032 1 11.21818184 -9.565802004 1.333397642 0.999506976 1.328281659 0.2550905 0.31762909 0.690765887 2.195772206 0.2044455 0.047725865 2.72E-10 9.565802004 0.328774683 (ac)ADELS(ph)EKQVYDAHTK ddPTM_HeLa_SAHA_4h_R1 1 ADELSEKQVYDAHTK 15 1 C9JKI3;Q03135-2 C9JKI3 CAV1 Caveolin;Caveolin-1 1 0 ADELS(0.986)EKQVY(0.014)DAHTK 46.66 0.0014038 22842000 1889.6 3759.1 2604 1627.9 2562.5 1854.7 3216.5 1901.7 1445.6 2169.7 TRUE FALSE FALSE 2088.356798 3880.897306 2958.859559 1659.410358 2366.161804 1696.669126 2854.570955 1853.057268 1435.539952 2263.246385 0.922726227 1.714748041 1.307351943 0.733199164 1.045472477 0.749661697 1.261272733 0.818760732 0.63428355 1 11.14417793 -6.246031971 24.91651358 1.054320923 0.937861553 0.075633111 0.300758013 2546.195976 4117650.734 0.0435119 0.071997324 5.68E-07 6.246031971 -0.11645937 (ac)ADFDTYDDR ddPTM_HeLa_SAHA_4h_R1 1 ADFDTYDDR 9 0 Q15056-2;Q15056 Q15056-2 EIF4H Eukaryotic translation initiation factor 4H 0 0 128.61 2.48E-05 16598000 0 69.609 0 0 0 0 140.51 0 0 0 FALSE FALSE TRUE 0 71.86437727 0 0 0 0 124.699445 0 0 0 0 (ac)ADGDS(ph)GS(ph)ERGGGGGPCGFQPASR ddPTM_HeLa_SAHA_4h_R1 1 ADGDSGSERGGGGGPCGFQPASR 23 1 Q96QR8 Q96QR8 PURB Transcriptional activator protein Pur-beta 2 0 ADGDS(1)GS(1)ERGGGGGPCGFQPASR 70.134 0.00077941 23084000 64.677 0 0 0 0 113.08 0 0 0 0 TRUE FALSE FALSE 71.48002361 0 0 0 0 103.4449478 0 0 0 0 0 (ac)ADGDS(ph)GSERGGGGGPCGFQPASR ddPTM_HeLa_SAHA_4h_R1 2 ADGDSGSERGGGGGPCGFQPASR 23 1 Q96QR8 Q96QR8 PURB Transcriptional activator protein Pur-beta 1 0 ADGDS(0.5)GS(0.5)ERGGGGGPCGFQPASR;ADGDS(0.499)GS(0.499)ERGGGGGPCGFQPAS(0.001)R ; 50.534 0.00065497 71261000 294.22 564.23 614.31 476.91 606.78 603.34 655.21 777.56 665.15 541.61 TRUE FALSE FALSE 325.1674095 582.5114222 698.0249676 486.1412827 560.2886475 551.9320377 581.4840464 757.6711411 660.521167 564.9614577 0.575556801 1.031064003 1.235526704 0.860485748 0.991728975 0.976937506 1.029245515 1.341102355 1.169143767 1 9.142008638 -7.075000433 12.1764794 0.799691057 1.059572592 0.022525319 0.197246317 1.067461501 171.8255264 0.032730867 0.040094873 8.41E-08 7.075000433 0.259881535 (ac)ADGGS(ph)PFLGR ddPTM_HeLa_SAHA_4h_R1 1 ADGGSPFLGR 10 0 O60504-2;E5RIA0;E5RJP2 O60504-2 SORBS3 Vinexin 1 0 ADGGS(1)PFLGR 78.692 0.0059644 7254700 270.79 327.43 350.51 363.15 367.8 343.53 422.81 287.44 393.62 221.31 TRUE FALSE FALSE 299.2729346 338.0389468 398.2756774 370.1792934 339.6192435 314.2593114 375.234306 280.087701 390.8807664 230.8517572 1.296385777 1.464311777 1.725244297 1.603536823 1.471157281 1.361303527 1.625434048 1.213279485 1.693211138 1 7.850822904 -8.004686724 0.876882056 1.051737933 1.504964973 0 0.246753916 0.232570009 0.384754277 0.044160133 0.033545942 9.89E-09 8.004686724 0.45322704 (ac)ADGGS(ph)PFLGRR ddPTM_HeLa_SAHA_4h_R1 1 ADGGSPFLGRR 11 1 O60504-2;E5RIA0;E5RJP2 O60504-2 SORBS3 Vinexin 1 0 ADGGS(1)PFLGRR 62.166 0.0078601 45791000 92.045 171.32 138.49 172.26 177.69 117.18 148.4 281.69 189.61 223.14 TRUE FALSE FALSE 101.7267154 176.8708804 157.362696 175.5943414 164.0754306 107.1956048 131.7016414 274.4847777 188.2904886 232.7606574 0.437044286 0.759883059 0.676070852 0.754398717 0.704910496 0.46054005 0.565824323 1.179257615 0.80894465 1 7.862703416 -9.600246252 1.409804745 0.999268086 0.649973429 0.096363262 0.206338138 0.427015571 1.52804343 0.139497441 0.032543777 2.51E-10 9.600246252 -0.349294657 (ac)ADHNPDSDST(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 ADHNPDSDSTPR 12 0 Q96BT3;H3BMP6;H3BQS6;H3BN05;H3BTS2;H3BQJ0;I3L4F8;H3BUW2;H3BTR4;Q96BT3-3;Q96BT3-2;H3BQ71 Q96BT3 CENPT Centromere protein T 1 0 ADHNPDS(0.001)DS(0.177)T(0.822)PR;ADHNPDS(0.001)DS(0.174)T(0.825)PR ; 110.92 1.90E-06 6404100 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)ADHS(ph)FSDGVPSDSVEAAK ddPTM_HeLa_SAHA_4h_R1 6 ADHSFSDGVPSDSVEAAK 18 0 E9PNJ7;C9J6D1;Q99733;Q99733-2;E9PS34;E9PKT8;C9JZI7;E9PNW0;E9PJJ2;E9PKI2;E9PP22;C9J1B1 E9PNJ7 NAP1L4 Nucleosome assembly protein 1-like 4 1 0 ADHS(0.997)FS(0.003)DGVPSDSVEAAK;ADHS(1)FSDGVPSDSVEAAK;ADHS(1)FSDGVPSDSVEAAK;ADHS(0.976)FS(0.024)DGVPSDSVEAAK;ADHS(0.667)FS(0.333)DGVPSDSVEAAK;ADHS(0.997)FS(0.003)DGVPSDSVEAAK ;;;;; 138.73 1.24E-48 302275200 6778.91 7113.04 5634.58 6582.32 8026.95 8776.01 7212.9 7813.88 7013.39 7431.71 TRUE FALSE FALSE 7491.946857 7343.507163 6402.431219 6709.730322 7411.926825 8028.244576 6401.285509 7614.012264 6964.583248 7752.127388 0.966437531 0.947289279 0.825893448 0.865534064 0.9561152 1.035618247 0.825745655 0.982183584 0.898409288 1 12.92037656 -7.277797509 2.549538075 0.985727618 0.91517672 0.008434902 0.068951042 0.341738832 4.253455071 0.011216062 0.013206553 5.27E-08 7.277797509 -0.070550898 (ac)ADHSFS(ph)DGVPSDSVEAAK ddPTM_HeLa_SAHA_4h_R1 1 ADHSFSDGVPSDSVEAAK 18 0 E9PNJ7;C9J6D1;Q99733;Q99733-2;E9PS34;E9PKT8;C9JZI7;E9PNW0;E9PJJ2;E9PKI2;E9PP22;C9J1B1 E9PNJ7 NAP1L4 Nucleosome assembly protein 1-like 4 1 0 ADHS(0.259)FS(0.74)DGVPSDSVEAAK 123.02 1.07E-87 7144300 914.79 934.66 930.05 1062.7 981.37 1280.9 1137.3 1304.9 1027.8 1034 TRUE FALSE FALSE 1011.011809 964.9435973 1056.792371 1083.270095 906.1776426 1171.760114 1009.328011 1271.522547 1020.647456 1078.5808 0.937353798 0.894641919 0.979798982 1.004347653 0.840157402 1.086390666 0.935792674 1.178884834 0.946287432 1 10.07491854 (ac)ADKEAAFDDAVEER ddPTM_HeLa_SAHA_4h_R1 2 ADKEAAFDDAVEER 14 1 Q09028-3;Q09028;E9PNS2;E9PIC4;E9PNS6 Q09028-3 RBBP4 Histone-binding protein RBBP4 0 0 ; ; 110.08 1.52E-05 25943000 1859.26 1990.31 1587.07 1844.99 1830.19 1963.55 2010.54 2103.38 1765.63 1673.16 FALSE FALSE TRUE 2054.825497 2054.79735 1803.347634 1880.702449 1689.961238 1796.244493 1784.308748 2049.578585 1753.342837 1745.298116 1.17734929 1.177333162 1.033260518 1.077582352 0.968293739 1.029190645 1.022351844 1.174342977 1.004609368 1 10.76925777 (ac)ADKPDMGEIAS(ph)FDK ddPTM_HeLa_SAHA_4h_R1 2 ADKPDMGEIASFDK 14 1 P63313 P63313 TMSB10 Thymosin beta-10 1 0 ADKPDMGEIAS(1)FDK;ADKPDMGEIAS(1)FDK ; 65.219 0.00094838 15343100 1838.02 2489.1 1789.29 1544.14 2301.7 2747.6 2473.85 2073.91 2929.3 1867.55 TRUE FALSE FALSE 2031.351377 2569.748473 2033.125123 1574.029063 2125.344243 2513.489022 2195.485887 2020.862385 2908.914763 1948.06922 1.042751128 1.319125854 1.043661643 0.807994422 1.091000372 1.290246258 1.127006096 1.037366827 1.493229672 1 10.92782923 -9.760131733 0.145718508 0.874482173 1.150389989 0 0.207733498 42.80236852 1.42002754 2.497978109 0.587139308 1.74E-10 9.760131733 0.275907817 (ac)ADKPDMGEIASFDK ddPTM_HeLa_SAHA_4h_R1 7 ADKPDMGEIASFDK 14 1 P63313 P63313 TMSB10 Thymosin beta-10 0 0 ;;;;;; ;;;;;; 110.08 4.13E-24 89112400 9464.54 8449.84 9497.7 9359.35 10598.62 10343.09 9690.44 10988.94 10150.1 9741.78 FALSE FALSE TRUE 10460.06374 8723.62036 10791.99709 9540.513753 9786.556025 9461.800543 8600.046187 10707.85883 10079.46463 10161.79581 1.029351892 0.858472314 1.062016724 0.938860998 0.963073477 0.931115004 0.846311651 1.053736862 0.991897969 1 13.31086776 (ac)ADKPDMGEIASFDK(ac)AK ddPTM_HeLa_SAHA_4h_R1 2 ADKPDMGEIASFDKAK 16 2 P63313 P63313 TMSB10 Thymosin beta-10 0 1 ; ADKPDMGEIASFDK(1)AK;ADKPDMGEIASFDK(1)AK 70.628 0.00027159 8309100 1992.7 2108.91 2031.24 2477.35 2828.65 2342.98 2553.97 2722.05 1632.44 1053.286 FALSE TRUE FALSE 2202.301329 2177.240068 2308.046809 2525.302692 2611.919448 2143.344923 2266.590574 2652.423902 1621.079717 1098.698314 2.004464101 1.981654144 2.100710249 2.298449592 2.377285388 1.95080387 2.062978112 2.414151245 1.475454814 1 10.10157958 -9.105963102 0.431237796 0.721554116 2.22613715 0.763899303 0.199386358 0.382729848 0.103219758 0.256592329 0.046316206 7.83E-10 9.105963102 1.504583034 (ac)ADLEEQLS(ph)DEEKVR ddPTM_HeLa_SAHA_4h_R1 2 ADLEEQLSDEEKVR 14 1 P47755;C9JUG7;F8W9N7;P47755-2 P47755 CAPZA2 F-actin-capping protein subunit alpha-2 1 0 ADLEEQLS(1)DEEKVR;ADLEEQLS(1)DEEKVR ; 103.85 0.00027344 33956000 1973.09 1927.1 1967.22 1876.42 2021.99 2434 2252.98 2422.27 1788.99 1874.38 TRUE FALSE FALSE 2180.628659 1989.539304 2235.302497 1912.740822 1867.065563 2226.609507 1999.468761 2360.311841 1776.540273 1955.193695 1.115300579 1.017566346 1.143263965 0.978287127 0.954926137 1.138817864 1.022644849 1.207201029 0.908626229 1 10.93309582 -9.585589238 1.375779244 1.000033626 1.072946836 0.20694935 0.08162549 0.762730452 2.590947554 0.051159951 0.011931453 2.60E-10 9.585589238 0.07291321 (ac)ADLEEQLSDEEKVR ddPTM_HeLa_SAHA_4h_R1 2 ADLEEQLSDEEKVR 14 1 P47755;C9JUG7;F8W9N7;P47755-2 P47755 CAPZA2 F-actin-capping protein subunit alpha-2 0 0 ; ; 140.78 5.11E-08 3825800 868.32 1097.7 1404.51 1042.88 1396.15 1248.99 1094.39 1223.5 915.22 1045.6 FALSE FALSE TRUE 959.6538816 1133.2662 1595.909308 1063.06645 1289.177289 1142.569025 971.2463569 1192.204642 908.8509095 1090.680933 0.879866744 1.039044661 1.463222891 0.974681429 1.181993056 1.047574034 0.890495403 1.093082867 0.833287611 1 10.0910134 -7.005998101 24.99570304 0.944122256 1.106256665 0.262989779 0.148384118 321.2974915 1338939.885 0.023669818 0.030544211 9.86E-08 7.005998101 0.162134409 (ac)ADQLTEEQVTEFK ddPTM_HeLa_SAHA_4h_R1 2 ADQLTEEQVTEFK 13 0 P27482 P27482 CALML3 Calmodulin-like protein 3 0 0 ; ; 100.48 0.002338 7295300 2603.8 2933.26 2557.3 2788.7 2920.4 3270.2 3002.3 2986.3 2851.6 2831.86 FALSE FALSE TRUE 2877.679631 3028.299549 2905.795526 2842.679321 2696.639583 2991.560562 2664.473302 2909.91477 2831.755483 2953.955343 0.974178448 1.025167681 0.983696498 0.962329822 0.912891114 1.012730463 0.90200189 0.985090982 0.958631785 1 11.5284323 -6.236557616 3.962293646 0.990754672 0.952333746 0.196418774 0.033836336 0.231458241 8.262803055 0.004544718 0.007509918 5.80E-07 6.236557616 -0.038420926 (ac)ADRS(ph)LEGMALPLEVR ddPTM_HeLa_SAHA_4h_R1 2 ADRSLEGMALPLEVR 15 1 A0A0U1RQW6;Q9Y2E4 A0A0U1RQW6 DIP2C Disco-interacting protein 2 homolog C 1 0 ADRS(1)LEGMALPLEVR;ADRS(1)LEGMALPLEVR ; 82.651 0.00035856 2465100 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)AEAPAS(ph)PAPLSPLEVELDPEFEPQSRPR ddPTM_HeLa_SAHA_4h_R1 1 AEAPASPAPLSPLEVELDPEFEPQSRPR 28 1 O43524 O43524 FOXO3 Forkhead box protein O3 1 0 AEAPAS(1)PAPLSPLEVELDPEFEPQSRPR 126.9 1.79E-09 4292800 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)AEAPASPAPLS(ph)PLEVELDPEFEPQSRPR ddPTM_HeLa_SAHA_4h_R1 1 AEAPASPAPLSPLEVELDPEFEPQSRPR 28 1 O43524 O43524 FOXO3 Forkhead box protein O3 1 0 AEAPAS(0.279)PAPLS(0.721)PLEVELDPEFEPQSRPR 60.8 0.0019275 3847600 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)AEAS(ph)PHPGR ddPTM_HeLa_SAHA_4h_R1 2 AEASPHPGR 9 0 U3KQF4;K7EIY6;Q9BV68 U3KQF4 RNF126 E3 ubiquitin-protein ligase RNF126 1 0 AEAS(1)PHPGR;AEAS(1)PHPGR ; 94.692 0.00081546 9213200 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)AEDVSSAAPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 AEDVSSAAPSPR 12 0 E5RFJ5;P54274-2;P54274 E5RFJ5 TERF1 Telomeric repeat-binding factor 1 1 0 AEDVSSAAPS(1)PR;AEDVSSAAPS(1)PR ; 98.582 0.00085692 8960000 371.14 534.45 404.84 459.05 526.63 628.38 645.19 856.92 516.02 631.58 TRUE FALSE FALSE 410.1782081 551.7665307 460.0094869 467.9355765 486.2797232 574.8384888 572.5915232 835.0012272 512.4289748 658.8105047 0.622604232 0.837519327 0.698242489 0.710273399 0.738117744 0.872539956 0.869129316 1.267437634 0.777809357 1 9.363719749 -4.026383737 1.700607419 0.798072833 1.695128429 0.676224904 0.099965812 1.291405266 2.199535151 0.020931936 2.272593089 9.41E-05 4.026383737 0.897055596 (ac)AEEQPQVELFVK ddPTM_HeLa_SAHA_4h_R1 3 AEEQPQVELFVK 12 0 O00299 O00299 CLIC1 Chloride intracellular channel protein 1 0 0 ;; ;; 136.33 0.0015968 11755900 5361.7 5045.75 4786.6 5831.5 5790.7 6475.7 6065.8 5968.2 6500.7 5069.5 FALSE FALSE TRUE 5925.668206 5209.235611 5438.89292 5944.377115 5347.017817 5923.933929 5383.26022 5815.542086 6455.461099 5288.070955 1.120572749 0.985091852 1.028521169 1.124110695 1.011147139 1.120244789 1.018000754 1.099747363 1.220759168 1 12.36852582 -9.665443607 1.518726266 1.000036326 1.069778619 0 0.084410242 0.495428932 2.058244657 0.034462666 0.007745864 2.16E-10 9.665443607 0.069742293 (ac)AENHCELLS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 2 AENHCELLSPAR 12 0 H3BSS5;Q9NXV2 H3BSS5 KCTD5 BTB/POZ domain-containing protein KCTD5 1 0 AENHCELLS(1)PAR;AENHCELLS(1)PAR ; 94.122 2.64E-06 33899000 217.27 60.295 118.991 212.21 64.83 49.651 200.866 364.71 125.28 167.32 TRUE FALSE FALSE 240.1234555 62.24859756 135.2064738 216.3176314 59.86273941 45.42045547 178.264029 355.3812463 124.4081663 174.533984 1.375797709 0.356656028 0.774671331 1.239401212 0.342986151 0.260238461 1.021371454 2.0361722 0.712801962 1 7.447364165 -7.301891368 24.99263225 1.177460016 0.835890269 0 0.522721836 970.2351947 599442.5102 0.087109942 0.099614632 4.99E-08 7.301891368 -0.341569747 GQDGIGSK(ac)AEK ddPTM_HeLa_SAHA_4h_R1 2 GQDGIGSKAEK 11 1 P09874 P09874 PARP1 Poly [ADP-ribose] polymerase 1 0 1 ; GQDGIGSK(1)AEK;GQDGIGSK(1)AEK 138.63 4.06E-05 0 2306.7 2272.6 2208.8 2985.1 3520.1 3670.1 3367.2 3574.5 1862.25 1457.54 FALSE TRUE FALSE 2549.32929 2346.233731 2509.803761 3042.880927 3250.390698 3357.386833 2988.313794 3483.069466 1849.290451 1520.381682 1.676769274 1.543187318 1.650772165 2.001392783 2.137878097 2.208252619 1.965502366 2.290917804 1.216333025 1 10.57021783 -8.527536036 0.125012354 4.82E-20 2.839874356 0.888561868 0.136186451 2.700218792 0.144591038 2.062694111 1.116742799 2.97E-09 8.527536036 2.839874356 (ac)AEPDYIEDDNPELIRPQK ddPTM_HeLa_SAHA_4h_R1 1 AEPDYIEDDNPELIRPQK 18 1 F8WCJ2;C9JYP1;C9J6Y8;X6RET8;C9JP05;C9J3Q3;C9J6N5;C9JQ40;C9JW51;A0A1C7CYX8;Q9H098 F8WCJ2 FAM107B Protein FAM107B 0 0 85.258 0.0017605 0 252.11 305.43 209.3 295.29 206.8 130.41 247.66 392.95 260.03 203.23 FALSE FALSE TRUE 278.6280865 315.3261324 237.822314 301.0057649 190.9550287 119.2983343 219.792645 382.898908 258.2204301 211.9922399 1.314331537 1.487441864 1.121844432 1.419890488 0.900764239 0.562748591 1.036795711 1.806193039 1.218065483 1 7.727867645 -5.73934916 24.99380582 1.194891408 1.037075022 0.04546853 0.320849005 664.8944782 752285.8194 0.048093681 0.096124631 1.82E-06 5.73934916 -0.157816386 (ac)AEPPS(ph)PVHCVAAAAPTATVSEKEPFGK ddPTM_HeLa_SAHA_4h_R1 2 AEPPSPVHCVAAAAPTATVSEKEPFGK 27 1 Q6PCB5 Q6PCB5 RSBN1L Round spermatid basic protein 1-like protein 1 0 AEPPS(1)PVHCVAAAAPTATVSEKEPFGK;AEPPS(1)PVHCVAAAAPTATVSEKEPFGK ; 133.51 7.57E-12 182082000 4429.6 4387 3933.6 4449.9 4872.1 4823.7 5143.9 5249.6 4571.5 4459.7 TRUE FALSE FALSE 4895.525652 4529.141678 4469.650523 4536.034249 4498.800751 4412.693623 4565.094834 5115.322833 4539.686559 4651.979492 1.052353232 0.973594507 0.960806154 0.975076149 0.967072352 0.94856257 0.981323078 1.099601329 0.975861258 1 12.18362902 -7.244474725 24.20665421 1.02472236 0.982728795 0.014527601 0.044111551 719.1303979 1026119.499 0.007128685 0.00871703 5.70E-08 7.244474725 -0.041993565 (ac)AEQLS(ph)PGK ddPTM_HeLa_SAHA_4h_R1 1 AEQLSPGK 8 0 O15541 O15541 RNF113A RING finger protein 113A 1 0 AEQLS(1)PGK 80.688 0.012307 5697400 4141 5810 4227.4 5260.9 5364 6348.4 4790.8 5335.2 7529.2 5038 TRUE FALSE FALSE 4576.56938 5998.247812 4803.488057 5362.732327 4953.011479 5807.480605 4251.726575 5198.733309 7476.803684 5255.212835 0.870862803 1.141390083 0.914042534 1.020459588 0.942494935 1.105089515 0.809049359 0.989252666 1.422740414 1 12.35953348 -3.918395097 21.507938 0.957982054 2.768839035 0 0.175752564 6017.107772 1539569.295 0.012730457 15486.58707 0.000120672 3.918395097 1.810856981 (ac)AESDWDTVTVLR ddPTM_HeLa_SAHA_4h_R1 2 AESDWDTVTVLR 12 0 O60869-2;O60869-3;O60869 O60869-2 EDF1 Endothelial differentiation-related factor 1 0 0 ; ; 134.59 1.55E-09 1998380 0 356.45 71.115 384.6 132.41 292.14 209.096 340.59 325.37 349.22 FALSE FALSE TRUE 0 367.9992139 80.80618185 392.0444891 122.2647744 267.2480285 185.5679678 331.878201 323.1057237 364.2765832 0 1.010219242 0.221826452 1.076227535 0.335637205 0.733640428 0.509415033 0.911061035 0.886979121 1 8.508890447 -9.777872234 1.760501099 1.000729838 0.496307123 0.07860945 0.344256207 0.46448899 2.605261923 0.26459621 0.056044255 1.67E-10 9.777872234 -0.504422716 (ac)AESSESFTMAS(ph)SPAQR ddPTM_HeLa_SAHA_4h_R1 1 AESSESFTMASSPAQR 16 0 P49736;F8WDM3 P49736 MCM2 DNA replication licensing factor MCM2 1 0 AES(0.005)SESFT(0.01)MAS(0.646)S(0.339)PAQR 99.238 0.00030703 19819000 0 66.312 61.269 0 0 0 0 61.415 194.13 107.32 TRUE FALSE FALSE 0 68.46055231 69.61842024 0 0 0 0 59.84409323 192.7790335 111.9470904 0 0.611543829 0.621886822 0 0 0 0 0.534574798 1.722054882 1 6.806673222 -9.449269283 0.83650684 1.079004398 0.195455774 0.595252143 0.348222256 0.480165979 0.509190521 0.296051663 0.051883149 3.55E-10 9.449269283 -0.883548624 (ac)AESSESFTMASS(ph)PAQR ddPTM_HeLa_SAHA_4h_R1 3 AESSESFTMASSPAQR 16 0 P49736;F8WDM3 P49736 MCM2 DNA replication licensing factor MCM2 1 0 AESSESFT(0.002)MAS(0.057)S(0.941)PAQR;AESSESFTMAS(0.365)S(0.635)PAQR;AESSESFTMAS(0.31)S(0.69)PAQR ;; 197.17 8.03E-59 111500000 135.9 181.49 203.34 118.6 143.42 270.9 279.13 242.5 211.52 175.302 TRUE FALSE FALSE 150.1945855 187.3703951 231.0501163 120.8956745 132.4311906 247.817796 247.7215578 236.2972011 210.0480151 182.8601271 0.821363235 1.024665125 1.263534702 0.66113743 0.724221254 1.355231454 1.35470516 1.292229229 1.148681336 1 7.514596718 -5.24564484 24.55011624 0.918356751 1.33612034 0.498804683 0.174945573 360.5502402 560416.8819 0.023450422 0.059553745 5.68E-06 5.24564484 0.417763589 (ac)AESSESFTMASS(ph)PAQRR ddPTM_HeLa_SAHA_4h_R1 4 AESSESFTMASSPAQRR 17 1 P49736;F8WDM3 P49736 MCM2 DNA replication licensing factor MCM2 1 0 AES(0.118)S(0.118)ES(0.018)FT(0.061)MAS(0.15)S(0.536)PAQRR;AESSES(0.007)FT(0.14)MAS(0.155)S(0.698)PAQRR;AES(0.001)S(0.001)ES(0.014)FT(0.041)MAS(0.073)S(0.869)PAQRR;AESSES(0.002)FT(0.02)MAS(0.087)S(0.891)PAQRR ;;; 75.018 0.00012505 119988100 307.698 441.942 532.02 435.44 628.187 474.37 651.95 510.617 604.2 484 TRUE FALSE FALSE 340.0630874 456.2612108 604.520915 443.8685709 580.0554478 433.9510073 578.5908702 497.5561565 599.995323 504.8676086 0.673568836 0.903724467 1.197385027 0.879178151 1.148925853 0.859534262 1.146024939 0.98551808 1.188421108 1 8.97976131 -6.986840354 24.76904463 0.84284114 1.032686349 0 0.167937996 214.0658187 402912.29 0.02417488 0.031762066 1.03E-07 6.986840354 0.189845209 (ac)AETLSGLGDSGAAGAAALSSASSETGT(ph)RR ddPTM_HeLa_SAHA_4h_R1 1 AETLSGLGDSGAAGAAALSSASSETGTRR 29 1 Q15424-2;Q15424;Q15424-4;Q15424-3;K7ES42 Q15424-2 SAFB Scaffold attachment factor B1 1 0 AETLSGLGDSGAAGAAALS(0.022)S(0.012)AS(0.026)S(0.107)ET(0.107)GT(0.725)RR 43.803 6.83E-05 7045200 0 75.146 156.14 136.43 142.2 204.42 177.46 107.91 173.29 70.619 TRUE FALSE FALSE 0 77.58077971 177.4179461 139.0707999 131.3046667 187.002266 157.4917338 105.1498185 172.0840608 73.66373069 0 1.05317473 2.408484398 1.887914156 1.782487331 2.538593473 2.137982047 1.427429991 2.33607583 1 6.202882559 -6.931577302 4.77326587 0.526677064 2.034922448 0.183834078 0.681952527 0.083583471 3.706278439 0.075196283 0.09917056 1.17E-07 6.931577302 1.508245384 (ac)AETVADTRR ddPTM_HeLa_SAHA_4h_R1 1 AETVADTRR 9 1 O60493-4;O60493;O60493-3;O60493-2 O60493-4 SNX3 Sorting nexin-3 0 0 128.61 9.06E-05 1390700 271.35 300.71 480.29 333.17 357.62 452.76 328.43 560.31 284.03 178.02 FALSE FALSE TRUE 299.891838 310.4532013 545.74142 339.6189871 330.2192329 414.1823008 291.474192 545.9780815 282.0534121 185.6953134 1.614967187 1.671841877 2.938907881 1.828904461 1.778285229 2.230440248 1.56963677 2.940182342 1.518904311 1 7.536793595 -7.881663282 0.651636397 1.06700121 2.158225225 0.352699824 0.475106483 0.393404324 0.378102466 0.166272682 0.123882795 1.31E-08 7.881663282 1.091224014 (ac)AEVEETLKR ddPTM_HeLa_SAHA_4h_R1 1 AEVEETLKR 9 1 Q9NP97;Q8TF09;H3BNG9;H3BPA0;Q7Z4M1;Q9NP97-2 Q9NP97 DYNLRB1;DYNLRB2 Dynein light chain roadblock-type 1;Dynein light chain roadblock-type 2 0 0 58.815 0.015235 4531600 562 833.44 568.85 654.77 750.78 784.98 780.96 959.03 690.21 697.8 FALSE FALSE TRUE 621.1137385 860.4440028 646.3699156 667.4440202 693.2553986 718.0952878 693.0843254 934.4994013 685.4067724 727.885573 0.853312336 1.18211438 0.888010341 0.916962837 0.952423601 0.986549692 0.952188574 1.28385482 0.941640826 1 9.50756786 -4.261096845 7.143189426 0.948520508 1.288435679 0.554566414 0.085116143 0.06148176 25.26076141 0.012234588 0.099867571 5.48E-05 4.261096845 0.339915171 (ac)AFAETYPAASS(ph)LPNGDCGRPR ddPTM_HeLa_SAHA_4h_R1 2 AFAETYPAASSLPNGDCGRPR 21 1 P30520 P30520 ADSS Adenylosuccinate synthetase isozyme 2 1 0 AFAET(0.003)Y(0.003)PAAS(0.453)S(0.541)LPNGDCGRPR;AFAET(0.001)Y(0.002)PAAS(0.199)S(0.798)LPNGDCGRPR ; 55.291 0.0011128 8153700 225.62 466.49 219.47 394.71 476.07 398.03 512.82 607.86 358.02 297.35 TRUE FALSE FALSE 249.3517468 481.6045821 249.3782286 402.3501828 439.5936194 364.1156047 455.1161439 592.3118214 355.5285097 310.1702137 0.80391906 1.552710611 0.804004439 1.297191558 1.417265746 1.173921894 1.467310927 1.909634759 1.146236789 1 8.276916338 -1 0.305210984 0.909564991 9.195801626 0.486912811 0.235467488 23.95604999 0.306397071 0.081976751 110.5433407 0.1 1 8.286236635 (ac)AFK(ac)DTGKTPVEPEVAIHR ddPTM_HeLa_SAHA_4h_R1 1 AFKDTGKTPVEPEVAIHR 18 2 P60866;P60866-2;E5RIP1;E5RJX2 P60866 RPS20 40S ribosomal protein S20 0 1 AFK(0.958)DTGK(0.042)TPVEPEVAIHR 54.953 0.00069521 2222500 356.59 324.29 721.83 784.95 603.59 567.52 553.37 608.97 383.51 631.41 FALSE TRUE FALSE 394.0977723 334.7972088 820.1972333 800.1438423 557.3430646 519.1641032 491.1033512 593.3934292 380.8411227 658.6331751 0.598357002 0.508321204 1.245302035 1.214855055 0.846211648 0.78824469 0.745640168 0.900946766 0.578229487 1 9.363331372 -3.897006938 17.00795056 0.839768854 4.356617304 0.006285786 0.240607017 860.5432134 144121.4621 0.034770899 1650.038667 0.000126763 3.897006938 3.51684845 (ac)AFS(ph)QVQCLDDNHVNWR ddPTM_HeLa_SAHA_4h_R1 2 AFSQVQCLDDNHVNWR 16 0 A6ND36 A6ND36 FAM83G Protein FAM83G 1 0 AFS(1)QVQCLDDNHVNWR;AFS(1)QVQCLDDNHVNWR ; 176.95 1.11E-27 20045300 60.517 0 0 0 0 0 0 0 149.766 0 TRUE FALSE FALSE 66.88245572 0 0 0 0 0 0 0 148.7237662 0 0 ADK(ac)PDMGEIASFDK(ac)AK ddPTM_HeLa_SAHA_4h_R1 3 ADKPDMGEIASFDKAK 16 2 P63313 P63313 TMSB10 Thymosin beta-10 0 2 ;; ADK(1)PDMGEIASFDK(1)AK;ADK(1)PDMGEIASFDK(1)AK;ADK(1)PDMGEIASFDK(1)AK 204.67 6.47E-32 19927300 6066.7 7130.5 7103.7 7648.8 8852.1 10026.5 9524.2 9669.1 4747.09 3974.36 FALSE TRUE FALSE 6704.823341 7361.532878 8071.755242 7796.853584 8173.85401 9172.185792 8452.51195 9421.778423 4714.054614 4145.71411 1.61729033 1.775697186 1.947012029 1.880702185 1.971639576 2.212450147 2.038855485 2.272655126 1.137091099 1 12.01740492 -8.231347892 0.214266101 0.555148436 2.410402098 0.959867738 0.080617181 0.376655292 0.050237718 0.247577768 0.126365248 5.87E-09 8.231347892 1.855253662 (ac)AGITTIEAVKR ddPTM_HeLa_SAHA_4h_R1 1 AGITTIEAVKR 11 1 P06753-2;A0A087WWU8;P06753-5;P06753-3;P06753-6;P06753-4;D6R904;Q5VU61 P06753-2 TPM3 Tropomyosin alpha-3 chain 0 0 83.783 0.00097156 1709500 358.49 293.4 409.59 302.49 564.02 325.34 481 305.36 250.73 366.67 FALSE FALSE TRUE 396.197623 302.9063525 465.4067921 308.3451314 520.8049095 297.6192017 426.8766141 297.5493334 248.9851495 382.4789381 1.035867818 0.791955641 1.216816786 0.806175453 1.36165644 0.778132263 1.116078747 0.777949591 0.650977413 1 8.579236495 -4.243358516 22.39894681 1.013546716 0.777948737 0.041345167 0.212761745 1172.88733 1452896.486 0.020632099 0.737876514 5.71E-05 4.243358516 -0.235597979 (ac)AGS(ph)PELVVLDPPWDK ddPTM_HeLa_SAHA_4h_R1 2 AGSPELVVLDPPWDK 15 0 Q5SY74;Q96IY1-2;Q96IY1 Q5SY74 NSL1 Kinetochore-associated protein NSL1 homolog 1 0 AGS(1)PELVVLDPPWDK;AGS(1)PELVVLDPPWDK ; 75.695 0.0016912 8572200 1337.65 2880.2 2031.86 2442.4 2554.1 4010 2623.2 2601.4 4399.9 2827.9 TRUE FALSE FALSE 1478.350164 2973.52037 2308.751299 2489.676184 2358.40541 3668.32544 2328.030632 2534.859955 4369.280738 2949.824608 0.501165446 1.008032939 0.782674093 0.844008209 0.799506995 1.243574086 0.789209848 0.859325652 1.481200179 1 11.52641346 -5.478379363 24.99161853 0.787186789 0.959051663 0 0.279377674 773.3000099 434297.8119 0.031085836 0.069506514 3.32E-06 5.478379363 0.171864874 (ac)AGTVVLDDVELR ddPTM_HeLa_SAHA_4h_R1 1 AGTVVLDDVELR 12 0 P25205 P25205 MCM3 DNA replication licensing factor MCM3 0 0 104.22 0.00085204 838890 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 (ac)AHS(ph)PVAVQVPGMQNNIADPEELFTK ddPTM_HeLa_SAHA_4h_R1 3 AHSPVAVQVPGMQNNIADPEELFTK 25 0 Q8NBY1;B4E0Y9;Q9P289-3;Q9P289 Q8NBY1 STK26 Serine/threonine-protein kinase 26 1 0 AHS(1)PVAVQVPGMQNNIADPEELFTK;AHS(1)PVAVQVPGMQNNIADPEELFTK;AHS(1)PVAVQVPGMQNNIADPEELFTK ;; 74.222 6.57E-09 38959400 3605.8 4359.47 3850.58 4251.99 4777.5 4830.73 4747.45 3661.4 5032.61 4079.2 TRUE FALSE FALSE 3985.074588 4500.719688 4375.316989 4334.293415 4411.448982 4419.124627 4213.254431 3567.74669 4997.587657 4255.074275 0.936546422 1.057729994 1.028258664 1.018617569 1.036750171 1.038554051 0.990171771 0.838468722 1.174500687 1 12.0549686 -4.262005017 7.552227068 0.992522776 0.836854644 0.299918371 0.068257355 0.064566729 36.4919246 0.00648075 0.051436362 5.47E-05 4.262005017 -0.155668132 (ac)AHS(ph)PVQSGLPGMQNLK ddPTM_HeLa_SAHA_4h_R1 8 AHSPVQSGLPGMQNLK 16 0 B4DR80;Q9Y6E0-2 B4DR80 STK24 1 0 AHS(0.995)PVQS(0.005)GLPGMQNLK;AHS(1)PVQSGLPGMQNLK;AHS(1)PVQSGLPGMQNLK;AHS(1)PVQSGLPGMQNLK;AHS(1)PVQSGLPGMQNLK;AHS(1)PVQSGLPGMQNLK;AHS(1)PVQSGLPGMQNLK;AHS(1)PVQSGLPGMQNLK ;;;;;;; 188.28 1.66E-86 234291300 10052.19 11844.06 9450.82 11727.31 11885.88 14587.63 12121.29 12777.22 12590.54 11526.64 TRUE FALSE FALSE 11109.52547 12227.81532 10738.72853 11954.30904 10975.18644 13344.68186 10757.37055 12450.39721 12502.92141 12023.60986 0.923975877 1.016983706 0.893136808 0.994236272 0.912802941 1.109873159 0.894687259 1.035495775 1.039864197 1 13.55358248 (ac)AK(ac)HHPDLIFCR ddPTM_HeLa_SAHA_4h_R1 2 AKHHPDLIFCR 11 1 Q7RTV0 Q7RTV0 PHF5A PHD finger-like domain-containing protein 5A 0 1 ; AK(1)HHPDLIFCR;AK(1)HHPDLIFCR 70.488 1.95E-05 12000700 300.47 56.387 104.34 64.496 121.29 113.43 279.18 178.058 0 187.892 FALSE TRUE FALSE 332.0748132 58.2139758 118.5589118 65.74441334 111.9967864 103.7651259 247.7659316 173.5035342 0 195.9929436 1.69432025 0.297020774 0.604914185 0.335442757 0.571432748 0.529432968 1.264157408 0.885253984 0 1 7.614657904 -7.260496388 24.99993208 1.32787345 0.64493633 0 0.518015139 60.30641995 1598806.083 0.062576505 0.074312271 5.49E-08 7.260496388 -0.682937121 (ac)AK(ac)ISSPTETER ddPTM_HeLa_SAHA_4h_R1 2 AKISSPTETER 11 1 P31949 P31949 S100A11 "Protein S100-A11;Protein S100-A11, N-terminally processed" 0 1 ; AK(1)ISSPTETER;AK(1)ISSPTETER 86.344 4.13E-12 41510000 0 0 0 156.08 0 99.146 226.93 0 0 0 FALSE TRUE FALSE 0 0 0 159.1011541 0 90.69820302 201.3952392 0 0 0 0 (ac)AKS(ph)PENSTLEEILGQYQR ddPTM_HeLa_SAHA_4h_R1 3 AKSPENSTLEEILGQYQR 18 1 Q86SQ7-2;Q86SQ7-3;Q86SQ7-4;Q86SQ7 Q86SQ7-2 SDCCAG8 Serologically defined colon cancer antigen 8 1 0 AKS(1)PENSTLEEILGQYQR;AKS(0.999)PENS(0.001)TLEEILGQYQR;AKS(0.999)PENS(0.001)TLEEILGQYQR ;; 111.31 4.58E-16 17143800 1231.06 1138.59 1053.16 1174.39 1531.24 1538.01 1681.08 2056.2 1397.91 1422.76 TRUE FALSE FALSE 1360.548539 1175.481063 1196.67916 1197.122017 1413.916722 1406.962895 1491.920454 2003.605381 1388.18183 1484.102146 0.916748583 0.792048624 0.806332073 0.806630473 0.952708495 0.94802295 1.005268039 1.350045471 0.935368117 1 10.53537468 -4.149764408 1.940205053 0.923809492 1.571247109 0.775831919 0.072278653 0.508633558 1.561727546 0.012723194 0.646727537 7.08E-05 4.149764408 0.647437618 (ac)ALVT(ph)VSRSPPGSGASTPVGPWDQAVQR ddPTM_HeLa_SAHA_4h_R1 1 ALVTVSRSPPGSGASTPVGPWDQAVQR 27 1 C9JUG3;Q8TE77-4;Q8TE77-2;Q8TE77 C9JUG3 SSH3 Protein phosphatase Slingshot homolog 3 1 0 ALVT(0.65)VS(0.227)RS(0.116)PPGS(0.005)GAS(0.002)T(0.001)PVGPWDQAVQR 63.479 1.31E-08 4187700 595.32 499.05 489.79 625.32 601.84 751.52 593.4 461.96 801.28 632.12 TRUE FALSE FALSE 657.938489 515.2195474 556.5360305 637.4239728 555.7271492 687.4862681 526.6290703 450.1437321 795.7038272 659.3737867 0.997823241 0.781377055 0.844037239 0.966711121 0.842810497 1.042635121 0.798680628 0.682683693 1.20675684 1 9.364952724 -1.525601282 0.203538467 1.01742413 6.83E-15 0.40211988 0.113048981 33.30988433 0.465331065 0.089608034 10.47371155 0.029812522 1.525601282 -1.01742413 (ac)ALVTVSRSPPGS(ph)GASTPVGPWDQAVQR ddPTM_HeLa_SAHA_4h_R1 1 ALVTVSRSPPGSGASTPVGPWDQAVQR 27 1 C9JUG3;Q8TE77-4;Q8TE77-2;Q8TE77 C9JUG3 SSH3 Protein phosphatase Slingshot homolog 3 1 0 ALVT(0.233)VS(0.233)RS(0.233)PPGS(0.274)GAS(0.012)T(0.014)PVGPWDQAVQR 47.018 0.0060975 4592600 0 291.5 235.12 160.51 174.63 238.42 365.41 180.86 182.44 175.72 TRUE FALSE FALSE 0 300.9447913 267.1609291 163.6169032 161.2498871 218.1052747 324.2931051 176.2338631 181.1703852 183.2961492 0 1.641850048 1.457537053 0.892636882 0.879723267 1.189906475 1.769230323 0.961470625 0.988402572 1 7.518032667 -7.254717832 24.99608373 0.527777776 1.252542226 0.308837336 0.391336249 442.282613 1644760.936 0.077399904 0.093644829 5.56E-08 7.254717832 0.72476445 (ac)AMS(ph)SGGSGGGVPEQEDSVLFR ddPTM_HeLa_SAHA_4h_R1 1 AMSSGGSGGGVPEQEDSVLFR 21 0 B4DP61;A0A1W2PRV5;E7EQZ4;Q16637-4;Q16637-2;Q16637-3;Q16637 B4DP61 SMN2;SMN1 Survival motor neuron protein 1 0 AMS(0.499)S(0.499)GGS(0.001)GGGVPEQEDSVLFR 82.483 5.30E-05 0 0 0 0 0 226.49 278.95 212.74 182.62 188.14 198.12 TRUE FALSE FALSE 0 0 0 0 209.1363851 255.1818907 188.8019353 177.9488448 186.8307184 206.6619228 0 0 0 0 1.01197348 1.234779427 0.913578722 0.861062563 0.904040357 1 7.691128788 -5.733468434 23.76926701 0.395833385 1.015182366 0.451946831 0.365011982 127.7321861 108543.4799 0.068979812 0.137928121 1.85E-06 5.733468434 0.619348981 (ac)AMSSGGS(ph)GGGVPEQEDSVLFR ddPTM_HeLa_SAHA_4h_R1 1 AMSSGGSGGGVPEQEDSVLFR 21 0 B4DP61;A0A1W2PRV5;E7EQZ4;Q16637-4;Q16637-2;Q16637-3;Q16637 B4DP61 SMN2;SMN1 Survival motor neuron protein 1 0 AMS(0.154)S(0.154)GGS(0.691)GGGVPEQEDSVLFR 68.168 0.00043056 1495200 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)ANDSGGPGGPS(ph)PSERDR ddPTM_HeLa_SAHA_4h_R1 2 ANDSGGPGGPSPSERDR 17 1 Q9GZT9;Q9GZT9-2;Q9GZT9-3 Q9GZT9 EGLN1 Egl nine homolog 1 1 0 ANDSGGPGGPS(0.835)PS(0.165)ERDR;ANDSGGPGGPS(0.989)PS(0.011)ERDR ; 73.632 0.0073753 6581500 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)AQES(ph)PKNSAAEIPVTSNGEVDDSREHSFNR ddPTM_HeLa_SAHA_4h_R1 1 AQESPKNSAAEIPVTSNGEVDDSREHSFNR 30 2 P53367;P53367-2;P53367-3 P53367 ARFIP1 Arfaptin-1 1 0 AQES(0.786)PKNS(0.213)AAEIPVT(0.001)SNGEVDDSREHSFNR 43.241 7.20E-05 15837000 2853.5 2902.4 2855.6 3694.6 3919.9 4404.7 3412.7 4515.5 3686.8 3796.4 TRUE FALSE FALSE 3153.644222 2996.439664 3244.746297 3766.114325 3619.558109 4029.39478 3028.694014 4400.000048 3661.143259 3960.081383 0.796358437 0.756661133 0.819363539 0.951019426 0.914011041 1.017503023 0.764806003 1.111088289 0.924512126 1 11.95131436 -6.209485794 24.88512862 0.882254206 0.942866886 0.143468264 0.104513417 824.6504953 394997.0271 0.017740171 0.029418733 6.17E-07 6.209485794 0.06061268 MTVSGK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 MTVSGKK 7 1 E9PS53;E9PHZ9;B7Z524;H0YDX7;J3QT46;Q9Y450-4;Q9Y450 E9PS53 HBS1L HBS1-like protein 0 1 MTVSGK(1)K 84.916 0.01512 1750700 1690.2 2002.2 2240.3 2285 2398.7 2722.1 3179.8 2692.4 1817.1 1148 FALSE TRUE FALSE 1867.982991 2067.072594 2545.596417 2329.229479 2214.912124 2490.161766 2822.000535 2623.532307 1804.454653 1197.495898 1.559907632 1.726162567 2.125766294 1.945083472 1.8496198 2.079474151 2.356584719 2.190848679 1.506856646 1 10.225805 -7.664258302 0.259128043 0.759645281 2.413014138 0.727968947 0.198451477 0.356537552 0.086274822 0.233732386 0.184533165 2.17E-08 7.664258302 1.653368857 (ac)AQQTSPDTLT(ph)VPEVDNPHCPNPWLNEDLVK ddPTM_HeLa_SAHA_4h_R1 1 AQQTSPDTLTVPEVDNPHCPNPWLNEDLVK 30 0 Q08499-6;Q08499-12;Q08499-7 Q08499-6 PDE4D "cAMP-specific 3,5-cyclic phosphodiesterase 4D" 1 0 AQQT(0.066)S(0.066)PDT(0.22)LT(0.648)VPEVDNPHCPNPWLNEDLVK 42.885 0.010256 3712000 358.54 216.33 372.69 247.33 479.67 382.32 523.54 214.72 455.46 367.95 TRUE FALSE FALSE 396.2528822 223.3392339 423.4782523 252.1174298 442.9177882 349.7441851 464.6299013 209.2277733 452.2904168 383.8141252 1.032408284 0.581894254 1.10334202 0.656873766 1.153990328 0.91123323 1.210559671 0.545127862 1.178410035 1 8.584263997 (ac)AQS(ph)SPQLDIQVLHDLR ddPTM_HeLa_SAHA_4h_R1 2 AQSSPQLDIQVLHDLR 16 0 F6SS63;Q8N5C8-2;Q8N5C8;A0A0A0MQY2 F6SS63 TAB3 TGF-beta-activated kinase 1 and MAP3K7-binding protein 3 1 0 AQS(0.5)S(0.5)PQLDIQVLHDLR;AQS(0.5)S(0.5)PQLDIQVLHDLR ; 101.71 0.00049293 3922400 96.326 0 0 0 0 71.236 0 0 0 0 TRUE FALSE FALSE 106.4580106 0 0 0 0 65.16629204 0 0 0 0 0 (ac)AQSS(ph)PQLDIQVLHDLR ddPTM_HeLa_SAHA_4h_R1 2 AQSSPQLDIQVLHDLR 16 0 F6SS63;Q8N5C8-2;Q8N5C8;A0A0A0MQY2 F6SS63 TAB3 TGF-beta-activated kinase 1 and MAP3K7-binding protein 3 1 0 AQS(0.304)S(0.696)PQLDIQVLHDLR;AQS(0.074)S(0.926)PQLDIQVLHDLR ; 171.76 2.91E-06 3086400 0 62.975 0 0 0 187.74 145.07 0 62.146 116.42 TRUE FALSE FALSE 0 65.01543132 0 0 0 171.7434958 128.7463418 0 61.71352093 121.4394359 0 0.535373298 0 0 0 1.414231666 1.060169135 0 0.508183527 1 6.924093185 -5.27459416 24.9333869 0.406567192 0.848337217 0.191285147 0.460982922 1207.244939 2288194.668 0.078438282 0.176376905 5.31E-06 5.27459416 0.441770025 (ac)AQVAMSTLPVEDEES(ph)SESR ddPTM_HeLa_SAHA_4h_R1 2 AQVAMSTLPVEDEESSESR 19 0 P78347-2;P78347-4;P78347-3;P78347;P78347-5;C9J6M0 P78347-2 GTF2I General transcription factor II-I 1 0 AQVAMSTLPVEDEES(0.692)S(0.232)ES(0.076)R;AQVAMSTLPVEDEES(0.796)S(0.116)ES(0.088)R ; 101.54 0.00018816 4093600 365.9 0 141 217.99 0 259.79 193.037 161.11 231.95 241.71 TRUE FALSE FALSE 404.3870408 0 160.2147457 222.2095117 0 237.6544305 171.3159687 156.9890395 230.3358411 252.131301 1.603874803 0 0.635441713 0.881324575 0 0.942582018 0.679471244 0.622647957 0.91355512 1 7.978031423 -7.273084123 24.99864673 1.285163101 0.5547393 0.398049794 0.349316739 463.805823 995684.9138 0.060685424 0.069699202 5.33E-08 7.273084123 -0.730423802 (ac)AS(ph)CASIDIEDATQHLR ddPTM_HeLa_SAHA_4h_R1 1 ASCASIDIEDATQHLR 16 0 Q6P2E9 Q6P2E9 EDC4 Enhancer of mRNA-decapping protein 4 1 0 AS(0.959)CAS(0.041)IDIEDATQHLR 180.97 1.88E-20 6174100 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)AS(ph)EAPSPPRS(ph)PPPPTSPEPELAQLR ddPTM_HeLa_SAHA_4h_R1 3 ASEAPSPPRSPPPPTSPEPELAQLR 25 1 Q8N302-2;Q8N302-3;Q8N302 Q8N302-2 AGGF1 Angiogenic factor with G patch and FHA domains 1 2 0 AS(0.668)EAPS(0.43)PPRS(0.899)PPPPT(0.002)S(0.001)PEPELAQLR;AS(0.533)EAPS(0.533)PPRS(0.934)PPPPTSPEPELAQLR;AS(0.595)EAPS(0.412)PPRS(0.993)PPPPTSPEPELAQLR ;; 77.045 1.66E-05 6878200 183.37 0 244.484 166.69 227.056 137.11 237.08 204.35 144.9 0 TRUE FALSE FALSE 202.6576979 0 277.8010063 169.916526 209.6590183 125.4274566 210.4031344 199.1230229 143.8916291 0 0 (ac)AS(ph)EDNRVPSPPPTGDDGGGGGREETPTEGGALSLKPGLPIR ddPTM_HeLa_SAHA_4h_R1 1 ASEDNRVPSPPPTGDDGGGGGREETPTEGGALSLKPGLPIR 41 3 E9PEM5;A0A494C1L5;P50851-2;P50851;A0A494C0R9 E9PEM5 LRBA Lipopolysaccharide-responsive and beige-like anchor protein 1 0 AS(0.461)EDNRVPS(0.461)PPPT(0.055)GDDGGGGGREET(0.02)PT(0.003)EGGALSLKPGLPIR 51.886 1.98E-06 102980000 298.53 368.74 329.48 432.67 362.07 413.34 298.37 380.9 460.13 558.55 TRUE FALSE FALSE 329.9307551 380.6874179 374.3798185 441.0449535 334.3282748 378.1211066 264.7966223 371.1571295 456.9279179 582.631824 0.566276577 0.653392764 0.642566717 0.756987407 0.573824259 0.648988076 0.454483623 0.637035456 0.784248129 1 9.186440695 -9.339263629 0.728046973 1.04264494 0.61121448 0.508260027 0.09879795 0.313698225 0.250338664 0.084853346 0.015415723 4.58E-10 9.339263629 -0.43143046 (ac)AS(ph)EELQKDLEEVK ddPTM_HeLa_SAHA_4h_R1 1 ASEELQKDLEEVK 13 1 Q9HB71;B2ZWH1;Q9HB71-2 Q9HB71 CACYBP Calcyclin-binding protein 1 0 AS(1)EELQKDLEEVK 70.808 0.0016463 4017600 839.3 1164.9 788.97 904.2 1158.6 1060.9 1160.6 1032.3 1165.3 1104.5 TRUE FALSE FALSE 927.5814248 1202.643524 896.4867228 921.7020985 1069.828318 970.5053515 1030.006233 1005.895261 1157.190582 1152.1204 0.805108064 1.043852295 0.778118956 0.800005015 0.928573366 0.842364523 0.894009197 0.87308172 1.00440074 1 10.17007578 -9.513504048 1.188608901 1.002094372 0.865064043 0.339917498 0.072784912 0.462821731 1.140867682 0.053332743 0.012050868 3.07E-10 9.513504048 -0.137030329 (ac)AS(ph)ESDTEEFYDAPEDVHLGGGYPVGSPGK ddPTM_HeLa_SAHA_4h_R1 1 ASESDTEEFYDAPEDVHLGGGYPVGSPGK 29 0 Q5JSH3-2;Q5JSH3;Q5JSH3-4 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 AS(0.259)ES(0.259)DT(0.259)EEFY(0.223)DAPEDVHLGGGYPVGS(0.001)PGK 59.561 0.00014087 2934000 706.52 963.43 593.73 698.9 863.6 1047 833.84 1002.5 1164 661.57 TRUE FALSE FALSE 780.8350152 994.6457641 674.6404324 712.4282201 797.4311546 957.7897097 740.0141287 976.8575016 1155.899629 690.0935203 1.131491591 1.441320248 0.977607255 1.032364744 1.155540707 1.387912915 1.072338903 1.415543651 1.674989831 1 9.430648077 -1.000042176 0.025299067 2.75E-06 2.769678316 0 0.25860225 1790.394884 3.518112118 132.5746996 277.8244234 0.099990289 1.000042176 2.769675571 (ac)AS(ph)GVAVSDGVIK ddPTM_HeLa_SAHA_4h_R1 29 ASGVAVSDGVIK 12 0 P23528;E9PP50;E9PS23 P23528 CFL1 Cofilin-1 1 0 AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(0.999)GVAVS(0.001)DGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(0.999)GVAVS(0.001)DGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK;AS(0.999)GVAVS(0.001)DGVIK;AS(1)GVAVSDGVIK;AS(1)GVAVSDGVIK ;;;;;;;;;;;;;;;;;;;;;;;;;;;; 125.82 6.56E-23 5950456680 130986.92 131494.99 121554.82 114747.36 141862.24 134885.63 129457.51 128522.54 97536.03 120521.72 TRUE FALSE FALSE 144764.7252 135755.514 138119.6778 116968.4611 130992.7858 123392.6155 114890.6103 125235.1195 96857.26883 125718.0012 1.151503555 1.079841492 1.098646785 0.930403443 1.041957274 0.98150316 0.913875572 0.99615901 0.770432778 1 16.93983171 -6.268709434 24.61410106 1.075962963 0.973835076 0 0.107719214 369.818868 1252089.397 0.009892364 0.015306635 5.39E-07 6.268709434 -0.102127887 (ac)AS(ph)GVQVADEVCR ddPTM_HeLa_SAHA_4h_R1 4 ASGVQVADEVCR 12 0 P60981;F6RFD5 P60981 DSTN Destrin 1 0 AS(1)GVQVADEVCR;AS(1)GVQVADEVCR;AS(1)GVQVADEVCR;AS(1)GVQVADEVCR ;;; 147.2 5.78E-05 612417300 490.02 252.688 233.701 464.67 284.95 532.49 627.09 542.68 402.06 368.59 TRUE FALSE FALSE 541.5625519 260.875257 265.5485552 473.6643598 263.1171926 487.1188563 556.5281828 528.7990314 399.2620317 384.4817187 1.408552151 0.678511472 0.690666272 1.231955478 0.684342531 1.266949331 1.447476319 1.375355461 1.038442174 1 8.586771193 -5.005638527 23.98377321 1.088199838 1.397865318 0.277436022 0.250098478 201.0235915 855092.0617 0.040532398 0.116292614 9.87E-06 5.005638527 0.30966548 (ac)AS(ph)GVTVNDEVIK ddPTM_HeLa_SAHA_4h_R1 2 ASGVTVNDEVIK 12 0 Q9Y281;G3V2U0;F8WDN3 Q9Y281 CFL2 Cofilin-2 1 0 AS(1)GVTVNDEVIK;AS(1)GVTVNDEVIK ; 140.75 9.21E-05 340740000 9244.1 9759.7 9156 7438.3 11553.3 8867.4 9697.2 9431.3 7754.2 8446.7 TRUE FALSE FALSE 10216.43685 10075.92068 10403.732 7582.279052 10668.08865 8111.847633 8606.045534 9190.061002 7700.237891 8810.878574 1.159525326 1.143577295 1.180782587 0.860558795 1.210786026 0.920662743 0.976752257 1.043035711 0.873946659 1 13.10507017 -6.291090781 24.99948904 1.090638919 1.007977007 0.065115859 0.119806582 1113.417671 938734.8523 0.016016794 0.02446824 5.12E-07 6.291090781 -0.082661912 (ac)AS(ph)HLRPPSPLLVR ddPTM_HeLa_SAHA_4h_R1 1 ASHLRPPSPLLVR 13 1 Q8TDB6;Q8TDB6-2 Q8TDB6 DTX3L E3 ubiquitin-protein ligase DTX3L 1 0 AS(0.578)HLRPPS(0.422)PLLVR 62.338 0.0012628 48715000 145.16 116.54 180.26 251.15 184.56 306.14 231.67 208.86 245.44 113.32 TRUE FALSE FALSE 160.4285948 120.3159725 204.824894 256.0113714 170.4190527 280.0551497 205.6018819 203.5176636 243.7319631 118.2057798 1.357197551 1.017851857 1.732782394 2.165810943 1.441715058 2.369217057 1.739355574 1.721723456 2.06192932 1 6.885156769 -6.662637048 5.04024179 1.162689758 1.886500149 0.242240312 0.381736276 0.096854931 4.029882487 0.040116457 0.056914066 2.17E-07 6.662637048 0.723810391 (ac)AS(ph)KEMFEDTVEER ddPTM_HeLa_SAHA_4h_R1 2 ASKEMFEDTVEER 13 1 E9PC52;Q16576 E9PC52 RBBP7 Histone-binding protein RBBP7 1 0 AS(1)KEMFEDTVEER;AS(1)KEMFEDTVEER ; 69.672 0.001412 12381900 851.49 988.92 829.56 1043.02 788.76 1155.08 1250.14 1118.66 1348.41 1211.41 TRUE FALSE FALSE 941.053625 1020.961657 942.6081166 1063.20916 728.3253792 1056.660686 1109.470957 1090.046297 1339.026305 1263.639814 0.744716663 0.807953062 0.745946833 0.841386247 0.576371029 0.836204015 0.877996202 0.862624211 1.059658212 1 10.30336958 -9.304081721 0.903455025 1.007370314 0.783045833 0.555166265 0.085425789 0.429689584 0.595542831 0.066384795 0.015600637 4.96E-10 9.304081721 -0.224324481 (ac)AS(ph)PGHSDLGEVAPEIK ddPTM_HeLa_SAHA_4h_R1 2 ASPGHSDLGEVAPEIK 16 0 F8WDN0;S4R325;Q8TCY9-2 F8WDN0 URGCP;URGCP-MRPS24 Up-regulator of cell proliferation 1 0 AS(0.999)PGHS(0.001)DLGEVAPEIK;AS(0.997)PGHS(0.003)DLGEVAPEIK ; 84.289 1.75E-09 8649200 1579.92 1876.39 1564.93 1807.53 2118.12 2053.41 2298.13 1876.61 1546.62 2037.25 TRUE FALSE FALSE 1746.103235 1937.186267 1778.190511 1842.517357 1955.830103 1878.447916 2039.538364 1828.609033 1535.856945 2125.085818 0.821662457 0.911580253 0.836761742 0.867031977 0.920353469 0.883939792 0.959744001 0.860487148 0.722727023 1 11.05330539 -9.511943646 1.260144302 1.000073213 0.878189941 0 0.094098379 0.277910483 0.789182084 0.02904549 0.006986308 3.08E-10 9.511943646 -0.121883273 (ac)AS(ph)PGIEVELLGK ddPTM_HeLa_SAHA_4h_R1 2 ASPGIEVELLGK 12 0 Q8TCY9 Q8TCY9 URGCP Up-regulator of cell proliferation 1 0 AS(1)PGIEVELLGK;AS(1)PGIEVELLGK ; 98.048 2.33E-07 5145600 3953.8 4205.9 3580.7 4186.8 4671.7 4855.1 4781.7 4790 4496.4 3836 TRUE FALSE FALSE 4369.678825 4342.17392 4068.659149 4267.841568 4313.755355 4441.418166 4243.650531 4667.478736 4465.109186 4001.388733 1.092040568 1.085166728 1.016811767 1.06659009 1.078064553 1.109969179 1.06054443 1.166464707 1.115889878 1 11.96628508 -13.52287875 0.189812278 0.630194839 1.102245974 0 0.049628135 35.7869952 0.422974087 4.921074097 0.041030297 3.00E-14 13.52287875 0.472051134 (ac)AS(ph)PPESDGFSDVRK ddPTM_HeLa_SAHA_4h_R1 2 ASPPESDGFSDVRK 14 1 P35568 P35568 IRS1 Insulin receptor substrate 1 1 0 AS(1)PPESDGFSDVRK;AS(1)PPESDGFSDVRK ; 133.75 2.47E-06 32855000 5193.2 5336.3 4498.8 4435.8 4898.5 5314.3 5684.3 4944.9 4543.1 4476.2 TRUE FALSE FALSE 5739.444603 5509.199621 5111.873035 4521.661323 4523.177988 4861.491743 5044.687604 4818.416618 4511.484197 4669.190888 1.229216098 1.17990456 1.094809177 0.968403612 0.968728436 1.041185049 1.080420082 1.031959655 0.966223979 1 12.18895686 -6.436827061 6.637185336 1.117579432 1.020591137 0.161817997 0.079149678 0.32150495 20.93002263 0.014630602 0.022362849 3.66E-07 6.436827061 -0.096988295 (ac)AS(ph)PSRQPPPGGSGLLQGSR ddPTM_HeLa_SAHA_4h_R1 1 ASPSRQPPPGGSGLLQGSR 19 1 Q96S90 Q96S90 LYSMD1 LysM and putative peptidoglycan-binding domain-containing protein 1 1 0 AS(0.581)PS(0.419)RQPPPGGSGLLQGSR 78.287 0.00024838 16870000 534.78 750.78 720.12 535.85 706.36 923.38 585.72 457.22 694.29 654.83 TRUE FALSE FALSE 591.0306141 775.1057646 818.2542034 546.2221516 652.2388494 844.7028292 519.8132441 445.5249744 689.4583794 683.062926 0.865265251 1.13475016 1.197919214 0.799665932 0.954873738 1.236639843 0.761003451 0.652245873 1.009362905 1 9.41587468 -4.53990405 24.76937458 0.97639957 0.679435138 0.440766981 0.137223415 135.9704692 197817.6337 0.01952239 0.07308147 2.88E-05 4.53990405 -0.296964432 (ac)AS(ph)SVGNVADSTEPTKR ddPTM_HeLa_SAHA_4h_R1 2 ASSVGNVADSTEPTKR 16 1 O15294 O15294 OGT UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit 1 0 AS(0.5)S(0.5)VGNVADSTEPTKR;AS(0.5)S(0.5)VGNVADSTEPTKR ; 103.43 0.00095355 6219100 1051.87 1418.03 1093.88 1101.82 1154.38 1599.84 1302.82 1307.35 1272.51 1011.37 TRUE FALSE FALSE 1162.510513 1463.975102 1242.94827 1123.147319 1065.931654 1463.524632 1156.223265 1273.90988 1263.654499 1054.97511 1.101931696 1.387686864 1.178177815 1.064619732 1.010385594 1.387259867 1.095972079 1.207526005 1.197805035 1 10.04299325 -7.84155175 1.94703209 1.032088584 1.182711463 0.02186299 0.129692763 0.313473744 2.459771163 0.024633804 0.023362999 1.44E-08 7.84155175 0.150622879 (ac)ASAVS(ph)PANLPAVLLQPR ddPTM_HeLa_SAHA_4h_R1 1 ASAVSPANLPAVLLQPR 17 0 P51610-2;P51610;A6NEM2;P51610-4;P51610-3 P51610-2 HCFC1 Host cell factor 1;HCF N-terminal chain 1;HCF N-terminal chain 2;HCF N-terminal chain 3;HCF N-terminal chain 4;HCF N-terminal chain 5;HCF N-terminal chain 6;HCF C-terminal chain 1;HCF C-terminal chain 2;HCF C-terminal chain 3;HCF C-terminal chain 4;HCF C-terminal chain 5;HCF C-terminal chain 6 1 0 AS(0.079)AVS(0.921)PANLPAVLLQPR 89.232 0.00046368 23591000 162.33 202.33 166.58 166.54 275.21 260.56 222.05 282.31 171.98 251.63 TRUE FALSE FALSE 179.4046142 208.8856248 189.2806549 169.7636225 254.1234693 238.3588221 197.0643496 275.088919 170.7831772 262.4790007 0.683500827 0.795818424 0.72112685 0.646770302 0.968166857 0.908106254 0.750781392 1.048041627 0.65065463 1 8.036058196 -4.247855537 23.69937572 0.828588565 1.048041932 0.227026032 0.126345451 1545.937179 2697058.371 0.019718049 0.489187046 5.65E-05 4.247855537 0.219453367 (ac)ASCAS(ph)IDIEDATQHLR ddPTM_HeLa_SAHA_4h_R1 1 ASCASIDIEDATQHLR 16 0 Q6P2E9 Q6P2E9 EDC4 Enhancer of mRNA-decapping protein 4 1 0 AS(0.404)CAS(0.596)IDIEDATQHLR 171.21 9.91E-47 6312200 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)ASEAPS(ph)PPRS(ph)PPPPT(ph)SPEPELAQLR ddPTM_HeLa_SAHA_4h_R1 1 ASEAPSPPRSPPPPTSPEPELAQLR 25 1 Q8N302-2;Q8N302-3;Q8N302 Q8N302-2 AGGF1 Angiogenic factor with G patch and FHA domains 1 3 0 AS(0.525)EAPS(0.712)PPRS(0.763)PPPPT(0.739)S(0.261)PEPELAQLR 47.77 0.00049989 1981100 175.83 244.16 177.83 304.46 293.33 135.5 325.73 263.27 249.6 65.19 TRUE FALSE FALSE 194.3246061 252.0709442 202.0637463 310.3532636 270.8551188 123.9546377 289.0780031 256.5359346 247.8630133 68.00065993 2.857687063 3.706889675 2.971496843 4.563974289 3.983124856 1.822844629 4.251105848 3.772550662 3.645008939 1 6.087476842 -8.518565877 0.536530708 0.900539413 3.650981188 0 1.080669004 0.429952858 0.251369624 0.548597333 0.207516008 3.03E-09 8.518565877 2.750441774 (ac)ASEELQKDLEEVK ddPTM_HeLa_SAHA_4h_R1 1 ASEELQKDLEEVK 13 1 Q9HB71;B2ZWH1;Q9HB71-2 Q9HB71 CACYBP Calcyclin-binding protein 0 0 71.03 0.0068955 600020 369.92 404.45 373.69 293.18 417.72 484.65 521.8 362.34 403.91 230.21 FALSE FALSE TRUE 408.8298829 417.5544454 424.6145271 298.8549228 385.7143838 443.3550934 463.0856907 353.0718675 401.0991574 240.1354797 1.702496788 1.738828622 1.768229033 1.244526312 1.606236547 1.846270672 1.928435112 1.470302797 1.670303605 1 7.907704766 -9.20772732 0.719252622 0.947482845 1.674683604 0 0.276752248 0.423038387 0.351714692 0.185218189 0.03992119 6.20E-10 9.20772732 0.727200759 (ac)ASESDT(ph)EEFYDAPEDVHLGGGYPVGSPGK ddPTM_HeLa_SAHA_4h_R1 1 ASESDTEEFYDAPEDVHLGGGYPVGSPGK 29 0 Q5JSH3-2;Q5JSH3;Q5JSH3-4 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 AS(0.3)ES(0.3)DT(0.346)EEFY(0.054)DAPEDVHLGGGYPVGSPGK 78.752 3.60E-06 8398700 1319.1 1499.6 1288.5 1425.9 1244.8 1225.6 1467.6 1457.5 1360.6 1546.3 TRUE FALSE FALSE 1457.84899 1548.188024 1464.09007 1453.500356 1149.423693 1121.171985 1302.461785 1420.21926 1351.131474 1612.96856 0.903829762 0.959837694 0.907699075 0.901133718 0.712613823 0.695098474 0.807493597 0.880500275 0.837667582 1 10.6555026 -5.92124086 4.417491437 0.949217757 0.771272588 0.525340947 0.064645671 0.101647048 3.757290502 0.009303913 0.017200821 1.20E-06 5.92124086 -0.177945169 (ac)ASGEHS(ph)PGSGAAR ddPTM_HeLa_SAHA_4h_R1 6 ASGEHSPGSGAAR 13 0 A6NKB8;Q9H4A4 A6NKB8 RNPEP Aminopeptidase B 1 0 AS(0.174)GEHS(0.801)PGS(0.025)GAAR;ASGEHS(0.98)PGS(0.02)GAAR;ASGEHS(0.971)PGS(0.029)GAAR;AS(0.022)GEHS(0.946)PGS(0.032)GAAR;ASGEHS(0.824)PGS(0.175)GAAR;AS(0.05)GEHS(0.95)PGS(0.001)GAAR ;;;;; 122.66 2.37E-54 56474040 0 52.176 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 53.86653663 0 0 0 0 0 0 0 0 0 (ac)ASGRPEELWEAVVGAAER ddPTM_HeLa_SAHA_4h_R1 1 ASGRPEELWEAVVGAAER 18 1 Q96B36;H9KV91;M0R2V8 Q96B36 AKT1S1 Proline-rich AKT1 substrate 1 0 0 84.734 0.0017522 1506500 66.041 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 72.98749539 0 0 0 0 0 0 0 0 0 0 (ac)ASGVAVSDGVIK ddPTM_HeLa_SAHA_4h_R1 6 ASGVAVSDGVIK 12 0 P23528;E9PP50;E9PS23 P23528 CFL1 Cofilin-1 0 0 ;;;;; ;;;;; 102.06 5.22E-06 36889300 18702.6 18732.2 16074.1 17812.3 19998.1 18733.3 18984.9 19458.8 15893.3 16449.4 FALSE FALSE TRUE 20669.82528 19339.13557 18264.59464 18157.08282 18465.8499 17137.11745 16848.66909 18961.07207 15782.69723 17158.61414 1.20463256 1.127080277 1.064456284 1.058190521 1.076185393 0.998747178 0.981936475 1.105046825 0.919811886 1 14.06664541 -5.962695454 1.459223962 1.100046282 1.029159354 0 0.080864382 0.673086434 2.859502115 0.013381651 0.02930158 1.09E-06 5.962695454 -0.070886929 (ac)ASHLRPPS(ph)PLLVR ddPTM_HeLa_SAHA_4h_R1 1 ASHLRPPSPLLVR 13 1 Q8TDB6;Q8TDB6-2 Q8TDB6 DTX3L E3 ubiquitin-protein ligase DTX3L 1 0 AS(0.001)HLRPPS(0.999)PLLVR 49.223 0.003059 23501000 201.05 132.73 117.64 288.3 59.262 120.75 216.74 201.16 58.755 178.7 TRUE FALSE FALSE 222.1973615 137.0305391 133.6713666 293.8804634 54.72135836 110.4614207 192.3518448 196.0146185 58.34611917 186.4046315 1.192016312 0.735124111 0.717103247 1.576572754 0.293562225 0.592589464 1.031904858 1.051554443 0.313007883 1 7.542293896 -7.264042514 24.93620159 1.090674369 0.854114072 0 0.403898515 384.8449555 3686534.438 0.05351043 0.062694907 5.44E-08 7.264042514 -0.236560297 (ac)ASIWVGHR ddPTM_HeLa_SAHA_4h_R1 4 ASIWVGHR 8 0 P12429;D6RFG5;D6RCA8;D6RAZ8 P12429 ANXA3 Annexin A3;Annexin 0 0 ;;; ;;; 95.62 0.00010519 13017300 590.17 365.11 505.04 804.52 562.77 954.16 607.88 653.69 630.955 238.685 FALSE FALSE TRUE 652.2467884 376.9398036 573.8642211 820.092648 519.6506842 872.8602 539.4797425 636.9695563 626.5641328 248.9758784 2.619718796 1.513961135 2.304898871 3.29386386 2.087152729 3.505802271 2.166795217 2.558358506 2.516565607 1 7.959862166 -9.944084757 0.360735968 3.02E-19 2.653240916 0 0.71056306 2.568933999 0.298644049 2.834671029 0.194385016 1.14E-10 9.944084757 2.653240916 (ac)ASLEVSRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 ASLEVSRSPR 10 1 Q5QPJ9;Q5QPK2;O60762 Q5QPJ9 DPM1 Dolichol-phosphate mannosyltransferase subunit 1 1 0 ASLEVS(0.027)RS(0.973)PR;ASLEVS(0.239)RS(0.761)PR;ASLEVS(0.066)RS(0.934)PR ;; 101.56 3.43E-05 333818700 468.061 151.07 386.96 412.99 497.47 581.268 429.226 501.16 171.04 298.65 TRUE FALSE FALSE 517.2938035 155.9647671 439.6928936 420.9840186 459.3539561 531.7406963 380.9283608 488.3410529 169.8497187 311.5262631 1.660514264 0.500647251 1.41141517 1.35135964 1.474527225 1.706888822 1.222780889 1.56757587 0.545217976 1 8.283209984 -6.068276683 2.4567726 1.253286886 1.485192572 0.142206763 0.380295001 0.611282885 7.278169576 0.054584781 0.100294423 8.55E-07 6.068276683 0.231905686 (ac)ASPS(ph)RQPPPGGSGLLQGSR ddPTM_HeLa_SAHA_4h_R1 1 ASPSRQPPPGGSGLLQGSR 19 1 Q96S90 Q96S90 LYSMD1 LysM and putative peptidoglycan-binding domain-containing protein 1 1 0 AS(0.185)PS(0.815)RQPPPGGSGLLQGSR 84.734 0.00011769 18349000 994.69 1202.5 875.65 1139.3 1056.6 1162.6 1056.5 1227.5 1291 1194.1 TRUE FALSE FALSE 1099.316058 1241.461789 994.9790218 1161.352799 975.6435363 1063.539939 937.6198394 1196.102327 1282.015826 1245.583495 0.88257115 0.996690944 0.798805561 0.932376516 0.783282325 0.853848774 0.75275551 0.960274709 1.029249208 1 10.28260602 -9.482546788 0.218811579 1.099844478 0.82233575 0.407788379 0.072478422 6.051810688 0.392487447 0.475670442 0.08551997 3.29E-10 9.482546788 -0.277508728 (ac)ASYFDEHDCEPS(ph)DPEQETR ddPTM_HeLa_SAHA_4h_R1 1 ASYFDEHDCEPSDPEQETR 19 0 F8WBU5;C9J391;C9J1C6;Q9P0P0 F8WBU5 RNF181 E3 ubiquitin-protein ligase RNF181 1 0 AS(0.006)Y(0.005)FDEHDCEPS(0.495)DPEQET(0.495)R 63.76 8.29E-05 3487000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)ATAAETS(ph)ASEPEAESK ddPTM_HeLa_SAHA_4h_R1 1 ATAAETSASEPEAESK 16 0 A0A494C0L2;F8W667;A0A499FI31;Q15020-3;Q15020-2;Q15020-4;Q15020 A0A494C0L2 SART3 Squamous cell carcinoma antigen recognized by T-cells 3 1 0 ATAAET(0.095)S(0.849)AS(0.056)EPEAESK 132.44 2.16E-15 5650600 1735.1 1647.4 1511 1846.4 1738.4 2078.2 1996.9 1761 1686.1 1764.2 TRUE FALSE FALSE 1917.605779 1700.776841 1716.911211 1882.139742 1605.204168 1901.125668 1772.203556 1715.95617 1674.366293 1840.263296 1.042027944 0.92420299 0.932970415 1.022755682 0.872268752 1.033072644 0.963016303 0.932451445 0.909851485 1 10.84569648 -7.266970885 24.98509895 1.019846529 0.956396096 0 0.057050365 401.945058 1815530.695 0.007335732 0.00851729 5.41E-08 7.266970885 -0.063450434 (ac)ATAATS(ph)PALKR ddPTM_HeLa_SAHA_4h_R1 1 ATAATSPALKR 11 1 A0A087WVI0;Q8WTW3 A0A087WVI0 COG1 Conserved oligomeric Golgi complex subunit 1 1 0 AT(0.015)AAT(0.224)S(0.761)PALKR 54.784 0.014225 17038000 2171.2 2178.2 2079.8 2312.1 2185.6 2464 2608.8 2477.5 2069.2 2583.8 TRUE FALSE FALSE 2399.576778 2248.775109 2363.224313 2356.854039 2018.1398 2254.053338 2315.250958 2414.129137 2054.800269 2695.200263 0.890314835 0.834362901 0.876826982 0.87446342 0.748790295 0.836321282 0.859027431 0.895714196 0.762392427 1 11.39617676 -8.451533967 0.528279847 1.005141525 0.839003048 0 0.082380037 0.386483654 0.22471546 0.029304142 0.011772142 3.54E-09 8.451533967 -0.166138477 (ac)ATAEVLNIGK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 ATAEVLNIGKK 11 1 E9PBS1;P22234;P22234-2 E9PBS1 PAICS Multifunctional protein ADE2;Phosphoribosylaminoimidazole-succinocarboxamide synthase;Phosphoribosylaminoimidazole carboxylase 0 1 ATAEVLNIGK(1)K 76.17 1.47E-05 1318500 1063.8 1131.4 894.16 1169.1 1253.5 1678.4 1318.1 1268.3 1164.5 945.75 FALSE TRUE FALSE 1175.695365 1168.058102 1016.011468 1191.729621 1157.457101 1535.390878 1169.783919 1235.858722 1156.39615 986.5259109 1.191753153 1.18401158 1.029888275 1.208006407 1.173265789 1.55636143 1.185760968 1.252738229 1.172190347 1 9.946213133 -13.52287875 0.060183322 0.081013417 1.625621008 0.208004952 0.126038889 221.9426601 1.048450479 30.50299189 5.711328566 3.00E-14 13.52287875 1.544607591 (ac)ATEEK(ac)KPETEAAR ddPTM_HeLa_SAHA_4h_R1 2 ATEEKKPETEAAR 13 2 V9GYQ5;V9GZ59;P61964 V9GYQ5 WDR5 WD repeat-containing protein 5 0 1 ; ATEEK(0.998)K(0.002)PETEAAR;ATEEK(0.998)K(0.002)PETEAAR 118.03 2.96E-34 6624400 724.15 721.05 577.64 813.54 680.59 703.91 905.32 1007.97 651.64 451.43 FALSE TRUE FALSE 800.3194195 744.4124931 656.357771 829.2872431 628.4433412 643.9329079 803.4510109 982.1875869 647.1051842 470.8933565 1.69957679 1.580851551 1.393856511 1.761093529 1.334576784 1.367470785 1.70622711 2.085796228 1.374207504 1 8.879256559 -9.332849579 0.808099007 0.954794544 1.606555609 0.288489999 0.240514837 0.482710609 0.500975652 0.207925116 0.042031268 4.65E-10 9.332849579 0.651761065 (ac)ATEIGS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 1 ATEIGSPPR 9 0 Q9C0J8;B9A053;Q9C0J8-3;Q9C0J8-2 Q9C0J8 WDR33 pre-mRNA 3 end processing protein WDR33 1 0 AT(0.001)EIGS(0.999)PPR 42.809 0.019279 2873300 356.82 285.84 290.97 259.66 224.26 521.34 361.24 468.7 348.26 355.82 TRUE FALSE FALSE 394.3519647 295.1014035 330.6218763 264.6860948 207.0772472 476.918899 320.5923245 456.7113327 345.8364303 371.1611415 1.062481819 0.795076236 0.890777184 0.713129865 0.557917368 1.28493758 0.863755088 1.230493394 0.931768959 1 8.535901866 -2.781050694 2.195301472 0.960969266 128.8309201 0.137756404 0.196595961 1317.173966 15.60083237 0.028621484 844123.0372 0.001655577 2.781050694 127.8699509 (ac)ATFISVQLKK ddPTM_HeLa_SAHA_4h_R1 1 ATFISVQLKK 10 1 Q8WUM4;Q8WUM4-2;F8WEQ7;F8WBR8;C9IZF9;A0A3B3IT07;Q8WUM4-3 Q8WUM4 PDCD6IP Programmed cell death 6-interacting protein 0 0 46.891 0.006881 0 207.1 74.738 215.92 151.07 115.79 125.3 59.392 0 133.41 0 FALSE FALSE TRUE 228.8837282 77.15956024 245.3444531 153.9941783 106.9181952 114.6237351 52.70905585 0 132.4815889 0 0 (ac)ATFVELSTK ddPTM_HeLa_SAHA_4h_R1 1 ATFVELSTK 9 0 O60218;C9JRZ8 O60218 AKR1B10;AKR1B15 Aldo-keto reductase family 1 member B10;Aldo-keto reductase family 1 member B15 0 0 78.334 0.019364 3299500 4887.4 4851.4 4846.6 5711.5 4880.6 5854.4 5609.8 4983.9 4907 5161.2 FALSE FALSE TRUE 5401.479156 5008.588543 5507.069408 5822.054341 4506.649482 5355.572184 4978.57054 4856.419055 4872.851787 5383.72459 1.003297822 0.93032035 1.022910685 1.081417566 0.837087672 0.994770831 0.924744655 0.902055626 0.905107924 1 12.39438889 -5.763590725 24.99999998 1.002427863 0.921106569 0.272155341 0.058479087 42.7763223 497096.2624 0.006858068 0.012887948 1.72E-06 5.763590725 -0.081321294 (ac)ATGTGK(ac)HK ddPTM_HeLa_SAHA_4h_R1 1 ATGTGKHK 8 1 Q9H0E9-4;Q9H0E9-2;B5MCW3;Q9H0E9;F8WDX5;D6RID0;F8WCS7;F8WBH2;C9JV05 Q9H0E9-4 BRD8 Bromodomain-containing protein 8 0 1 ATGTGK(1)HK 42.109 0.0065235 447350 120.18 128.01 243.81 306.76 245.43 773.08 675.07 501.06 303.51 436.22 FALSE TRUE FALSE 132.8210838 132.157608 277.0351571 312.6977834 226.6252064 707.2092348 599.1093469 488.2436107 301.3978492 455.027579 0.291896777 0.290438677 0.608831574 0.687206222 0.498047189 1.554211805 1.316644033 1.072997843 0.662372707 1 8.829810179 -5.267523262 24.85550992 0.617195943 1.314820516 0.695152376 0.222739184 265.8235335 1086015.753 0.044033631 0.100891946 5.40E-06 5.267523262 0.697624573 (ac)ATNFLAHEK ddPTM_HeLa_SAHA_4h_R1 2 ATNFLAHEK 9 0 E9PQ49;E9PK01;P29692;E9PL71;P29692-3;E9PI39;E9PQZ1;P29692-4;E9PL12;E9PPR1;E9PK06;E9PMW7;E9PN91;E9PKK3;E9PK72;E9PJD0;E9PNW6 E9PQ49 EEF1D Elongation factor 1-delta 0 0 ; ; 58.981 0.0017773 2882000 2997.6 3379.3 2882.6 3050.3 3359.1 3271.2 3062 3010.7 2687.6 2803.4 FALSE FALSE TRUE 3312.901321 3488.791537 3275.425716 3109.342967 3101.726484 2992.475357 2717.455701 2933.690653 2668.896773 2924.268294 1.132899238 1.193047692 1.120083859 1.063289225 1.060684647 1.023324489 0.929277149 1.003222126 0.912671651 1 11.51385997 -5.107773745 2.346558622 1.079157457 0.966209153 0.223075034 0.074266746 0.28831151 3.0573302 0.010059491 0.033504278 7.80E-06 5.107773745 -0.112948304 (ac)ATS(ph)PQKSPSVPK ddPTM_HeLa_SAHA_4h_R1 1 ATSPQKSPSVPK 12 1 Q9NVD7-2;Q9NVD7 Q9NVD7-2 PARVA Alpha-parvin 1 0 AT(0.413)S(0.486)PQKS(0.046)PS(0.055)VPK 48.64 0.0086946 162350000 3293.2 3784.7 3211.6 3656.2 3414.8 4299.9 3384.9 3789.5 4202 3661.5 TRUE FALSE FALSE 3639.593886 3907.326763 3649.260123 3726.971038 3153.158762 3933.524329 3004.022143 3692.570077 4172.75794 3819.365184 0.952931629 1.023030419 0.955462478 0.975809031 0.825571426 1.02988956 0.786523938 0.966802047 1.092526569 1 11.89911715 -5.946591727 24.99507313 0.979185915 0.902759467 0.265975695 0.074957297 95.64397605 44760.80272 0.008634029 0.015650505 1.13E-06 5.946591727 -0.076426448 (ac)ATSATS(ph)PHAPGFPAEGR ddPTM_HeLa_SAHA_4h_R1 2 ATSATSPHAPGFPAEGR 17 0 Q5VVL2;Q9NUP7-2;Q9NUP7 Q5VVL2 TRMT13 tRNA:m(4)X modification enzyme TRM13 homolog 1 0 AT(0.136)S(0.136)AT(0.202)S(0.527)PHAPGFPAEGR;AT(0.065)S(0.065)AT(0.19)S(0.681)PHAPGFPAEGR ; 66.335 0.0029141 23169000 505.07 567.38 708.04 394.991 749.81 910.25 800.16 975.97 850.99 536.2 TRUE FALSE FALSE 558.1955799 585.7634843 804.5280039 402.636622 692.3597198 832.6915791 710.1238909 951.0061006 845.0678913 559.3182061 0.997992867 1.047281275 1.438408396 0.719870402 1.237863728 1.4887618 1.26962413 1.700295271 1.510889297 1 9.127525481 -1.000000002 0.352084616 0.991307598 9.078774966 0.222581719 0.25112796 28.96109863 0.362108899 0.051390626 157.854929 0.1 1.000000002 8.087467367 (ac)ATTATMATSGS(ph)AR ddPTM_HeLa_SAHA_4h_R1 2 ATTATMATSGSAR 13 0 P38919;I3L3H2 P38919 EIF4A3 "Eukaryotic initiation factor 4A-III;Eukaryotic initiation factor 4A-III, N-terminally processed" 1 0 ATTATMAT(0.001)S(0.004)GS(0.995)AR;ATTATMATS(0.001)GS(0.999)AR ; 188.63 8.73E-32 18142100 283.99 489.84 799.02 1186.137 643.55 286.34 452.602 1018.438 727.47 536.33 TRUE FALSE FALSE 313.8613712 505.7111374 907.9062845 1209.096397 594.241338 261.9422211 401.6740318 992.3878306 722.407477 559.453811 0.561013912 0.903937246 1.622844043 2.161208616 1.062181232 0.46821063 0.717975325 1.77385123 1.291272779 1 9.127875216 -6.973292409 18.67782966 0.789531252 1.264803142 0.083914623 0.501374488 18.91512116 13226.76031 0.083810224 0.110135207 1.06E-07 6.973292409 0.47527189 (ac)AVSVT(ph)PIRDTK ddPTM_HeLa_SAHA_4h_R1 1 AVSVTPIRDTK 11 1 C9JP00;A0A0A0MQX8;Q9NR56-3;Q9NR56-4;Q9NR56-7;Q9NR56-6;Q9NR56-2;Q9NR56-5;Q9NR56 C9JP00 MBNL1 Muscleblind-like protein 1 1 0 AVS(0.001)VT(0.987)PIRDT(0.013)K 62.408 0.014316 7027000 1001.4 724.78 736.95 1256.4 1019.8 876.44 947.05 1050.3 1106.5 1271.3 TRUE FALSE FALSE 1106.731847 748.2633475 837.3777081 1280.719439 941.6631443 801.7623813 840.4854415 1023.434847 1098.799776 1326.111965 0.834568932 0.564253523 0.631453249 0.965770216 0.710093242 0.604596296 0.633796741 0.771755986 0.828587484 1 10.37298687 -7.991724974 0.987182197 0.968257522 0.70076465 0.302966945 0.120249446 0.285702882 0.591331582 0.032614546 0.025945803 1.02E-08 7.991724974 -0.267492873 (ac)CDFTEDQTAEFK ddPTM_HeLa_SAHA_4h_R1 2 CDFTEDQTAEFK 12 0 P60660-2;F8W1R7;G3V1V0;P60660;G3V1Y7 P60660-2 MYL6 Myosin light polypeptide 6 0 0 ; ; 119.16 0.0013042 6540400 3044 3048.1 2702.5 2783.4 2930.9 3269.1 3388.6 3185.5 3599.3 2740.3 FALSE FALSE TRUE 3364.181886 3146.86044 3070.782626 2837.276732 2706.335075 2990.554289 3007.30581 3104.019523 3574.252178 2858.447744 1.176926146 1.100898362 1.074283283 0.992593528 0.94678487 1.046216183 1.052076539 1.085910886 1.250417184 1 11.4810162 -6.412755176 5.854166252 1.087197118 1.023336452 0.243151946 0.073871821 0.363766381 16.71537709 0.011635374 0.01782153 3.87E-07 6.412755176 -0.063860665 (ac)DDDIAALVVDNGS(ph)GMCK ddPTM_HeLa_SAHA_4h_R1 2 DDDIAALVVDNGSGMCK 17 0 P60709;A0A2R8Y793;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5 P60709 ACTB "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed" 1 0 DDDIAALVVDNGS(1)GMCK;DDDIAALVVDNGS(1)GMCK ; 148.41 1.59E-12 3697700 794.55 1088.25 1060.49 1077.24 1157.43 1156.54 1042.93 1108.25 1247.69 1162.65 TRUE FALSE FALSE 878.1244145 1123.510014 1205.008054 1098.091538 1068.747963 1057.996285 925.5767716 1079.90257 1239.007224 1212.777531 0.72406059 0.926394153 0.99359365 0.905435259 0.881239911 0.872374577 0.763187598 0.890437481 1.021627786 1 10.24409922 -4.974446299 24.1335529 0.883928104 0.824554607 0.055381823 0.089664739 414.586011 391537.6417 0.015392106 0.046173582 1.06E-05 4.974446299 -0.059373497 (ac)DDDIAALVVDNGSGMCK ddPTM_HeLa_SAHA_4h_R1 17 DDDIAALVVDNGSGMCK 17 0 P60709;A0A2R8Y793;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5 P60709 ACTB "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed" 0 0 ;;;;;;;;;;;;;;;; ;;;;;;;;;;;;;;;; 237.37 6.20E-182 485743100 19653.176 20426.24 18669.96 19872.07 21221.89 21964.94 23190.04 21921.81 21902.97 19523.2 FALSE FALSE TRUE 21720.38722 21088.06358 21214.20492 20256.72265 19595.87337 20093.40354 20580.63567 21361.08184 21750.54545 20364.9407 1.066557843 1.035508224 1.041702268 0.994686061 0.96223572 0.98666644 1.010591485 1.048914513 1.068038732 1 14.31379999 -6.256508702 24.3986169 1.033299566 0.998265349 0.338389839 0.02767674 359.6824101 1779823.083 0.004914215 0.007987744 5.54E-07 6.256508702 -0.035034217 (ac)DLSTFDFRT(ph)GK ddPTM_HeLa_SAHA_4h_R1 1 DLSTFDFRTGK 11 1 A0A087WZ12;A0A087WT34;A0A087X1H1;A0A0A0MTS6;K7EIE8 A0A087WZ12 MBD3 1 0 DLS(0.003)T(0.003)FDFRT(0.995)GK 53.013 0.0087275 0 2573.5 1984.9 763.79 1640.2 1588.5 4381 1931 2999.4 4623.6 3365.9 TRUE FALSE FALSE 2844.192538 2049.212062 867.8753236 1671.948443 1466.789473 4007.714153 1713.718798 2922.679691 4591.423991 3511.020421 0.81007576 0.583651422 0.247186065 0.476200148 0.417767286 1.141467059 0.488097075 0.832430274 1.307717826 1 11.77767467 -7.581963663 1.89175496 0.933502973 0.591934738 0.357597984 0.261909362 0.294926362 2.151583567 0.046807332 0.049119432 2.62E-08 7.581963663 -0.341568235 (ac)DNSLSVRK ddPTM_HeLa_SAHA_4h_R1 1 DNSLSVRK 8 1 H0YD57 H0YD57 CD82 0 0 57.811 0.0088578 0 1470.8 1456.4 1260.6 1559.4 1520.6 1733.2 1802 1571.6 1693.9 1583 FALSE FALSE TRUE 1625.505492 1503.588316 1432.388003 1589.584442 1404.091957 1585.521609 1599.234217 1531.400748 1682.112012 1651.250877 0.984408557 0.910575332 0.867456316 0.962654715 0.850320188 0.960194257 0.968498633 0.927418582 1.018689549 1 10.68934361 -7.320637593 5.195525181 0.993052908 0.921181849 0.481826776 0.03779987 0.140665262 7.978061315 0.006235899 0.007144516 4.78E-08 7.320637593 -0.071871059 (ac)EEEIAALVIDNGSGMCK ddPTM_HeLa_SAHA_4h_R1 8 EEEIAALVIDNGSGMCK 17 0 P63261;I3L3I0;I3L1U9;I3L4N8;K7EM38;I3L3R2;J3KT65 P63261 ACTG1 "Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;;;;;;; ;;;;;;; 110.64 1.22E-25 109008920 6441.079 6995.03 5861.53 7165.63 7255.5 7308.047 6377.61 7035.56 7723.48 6488.94 FALSE FALSE TRUE 7118.581242 7221.673562 6660.308783 7304.33113 6699.585157 6685.360282 5659.984538 6855.600563 7669.731674 6768.70996 1.051689507 1.066920226 0.983984958 1.079131943 0.989787596 0.987686032 0.836198415 1.012837099 1.133115722 1 12.72466518 -5.130950951 2.747879258 1.027820211 0.923884291 0.356193912 0.060387425 0.185497457 2.685378171 0.006669624 0.020366856 7.40E-06 5.130950951 -0.10393592 (ac)ENFILY(ph)EEIGR ddPTM_HeLa_SAHA_4h_R1 1 ENFILYEEIGR 11 0 C9JVZ3;A0A0C4DG77;Q96C45 C9JVZ3 ULK4 Serine/threonine-protein kinase ULK4 1 0 ENFILY(1)EEIGR 50.452 0.0070213 0 0 0 65.946 0 0 145.69 0 145.48 0 0 TRUE FALSE FALSE 0 0 74.93277745 0 0 133.2763924 0 141.7588323 0 0 0 (ac)FWEVISDEHGIDPTGTYHGDSDLQLDR ddPTM_HeLa_SAHA_4h_R1 1 FWEVISDEHGIDPTGTYHGDSDLQLDR 27 0 P07437;Q5JP53 P07437 TUBB Tubulin beta chain 0 0 54.656 0.0062205 2310700 318.83 469.28 302.06 325.74 446.73 378.47 321.65 453.71 284.66 373.85 FALSE FALSE TRUE 352.3660022 484.4849799 343.2231637 332.0451687 412.5016439 346.2222268 285.4570955 442.1047552 282.6790279 389.9685031 0.903575544 1.242369515 0.880130475 0.851466634 1.057781951 0.887821001 0.732000388 1.133693495 0.724876562 1 8.607213795 (ac)GDS(ph)DDEYDR ddPTM_HeLa_SAHA_4h_R1 3 GDSDDEYDR 9 0 Q9BXP5-5;Q9BXP5-4;Q9BXP5-2;Q9BXP5-3;Q9BXP5;A0A087X0F4 Q9BXP5-5 SRRT Serrate RNA effector molecule homolog 1 0 GDS(1)DDEYDR;GDS(1)DDEYDR;GDS(1)DDEYDR ;; 131.52 2.80E-07 85016700 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)GTRDDEYDYLFK ddPTM_HeLa_SAHA_4h_R1 2 GTRDDEYDYLFK 12 1 B4DQU5;H3BMH2;H3BSC1;P62491-2;Q15907-2;P62491;Q15907 B4DQU5 RAB11A;RAB11B Ras-related protein Rab-11A;Ras-related protein Rab-11B 0 0 ; ; 86.275 0.0002756 28349000 1584.11 2250.78 2170.44 2109.49 2171.11 2232.58 2660.9 2338.1 2040.08 1945.95 FALSE FALSE TRUE 1750.733958 2323.706749 2466.21626 2150.322229 2004.760021 2042.351624 2361.488529 2278.294788 2025.882917 2029.849428 0.862494495 1.144768039 1.214974976 1.05935061 0.987639769 1.006159174 1.163381134 1.122395955 0.998045909 1 10.987157 -7.256033856 24.99075088 0.935066845 1.097212103 0.437901885 0.07504791 308.5093131 1426296.934 0.014436336 0.017406809 5.55E-08 7.256033856 0.162145259 (ac)IVET(ph)EKCS(ph)ISMK ddPTM_HeLa_SAHA_4h_R1 1 IVETEKCSISMK 12 1 A0A0U1RR91 A0A0U1RR91 2 0 IVET(0.996)EKCS(0.691)IS(0.312)MK 48.64 0.008328 0 64.231 0 151.57 135.72 66.802 152.14 188.11 0 76.741 250.33 TRUE FALSE FALSE 70.98711128 0 172.2251703 138.3470569 61.68364519 139.1768161 166.9433677 0 76.20695313 261.1229514 0.271853205 0 0.65955585 0.529815767 0.236224525 0.532993425 0.639328588 0 0.291843182 1 8.028585459 -9.253264089 0.954863138 1.005003166 0.370898857 0 0.312068696 0.357366262 0.577969383 0.156311798 0.041589849 5.58E-10 9.253264089 -0.634104309 (ac)KKEHVFIHER ddPTM_HeLa_SAHA_4h_R1 1 KKEHVFIHER 10 2 A0A096LNG9 A0A096LNG9 RNASE11 0 0 63.076 0.019098 1215200 490.66 372.68 278.37 367.29 306.16 1227 476.87 2431.6 795.82 302.72 FALSE FALSE TRUE 542.26987 384.7550765 316.3048139 374.3994291 282.7020869 1122.452697 423.2113325 2369.403193 790.2818238 315.7717407 1.717284355 1.218459498 1.00168816 1.185664772 0.895273549 3.55463315 1.340244481 7.503531468 2.502699647 1 8.302738256 -2.772447808 1.223206401 1.334350095 200 0.800777754 0.865447938 13.23910707 0.736287207 0.106212229 6801.11959 0.001688699 2.772447808 198.6656499 (ac)LGFLS(ph)RGPS(ph)MK ddPTM_HeLa_SAHA_4h_R1 1 LGFLSRGPSMK 11 1 A0A5F9ZHM0;C9JY47;C9JL84 A0A5F9ZHM0 HHLA1 HERV-H LTR-associating protein 1 2 0 LGFLS(1)RGPS(1)MK 56.956 0.0084998 0 2239.3 2153.7 2115.8 2329.5 2270.9 2422.4 2560.9 2364.4 2618.6 2229.9 TRUE FALSE FALSE 2474.839848 2223.481293 2404.130205 2374.590841 2096.904133 2215.997892 2272.740792 2303.922072 2600.376949 2326.041902 1.06397045 0.955907669 1.033571323 1.020871911 0.901490266 0.952690444 0.97708506 0.990490356 1.117940716 1 11.18366137 -5.877873077 10.4055838 1.024561553 0.956843057 0.40391225 0.045050153 0.238791924 20.69932678 0.005610979 0.010179104 1.32E-06 5.877873077 -0.067718496 (ac)MAEMRAWR ddPTM_HeLa_SAHA_4h_R1 1 MAEMRAWR 8 1 E7EU14 E7EU14 PPP5D1 Protein PPP5D1 0 0 57.811 0.0084802 0 214.68 241.22 365.13 361.02 348.21 409.82 332.31 310.18 530.76 453.1 FALSE FALSE TRUE 237.2610274 249.0356863 414.8880149 368.0080641 321.530225 374.9010304 294.9176042 302.2460447 527.0663979 472.6353584 0.501995932 0.526908708 0.877818402 0.778629989 0.680292363 0.7932141 0.623985487 0.639490972 1.115164976 1 8.884583753 -9.519376112 1.291276447 0.998901568 0.663617729 0.606377204 0.118866894 0.299103976 0.897513676 0.087031056 0.021205483 3.02E-10 9.519376112 -0.335283839 (ac)MAGS(ph)GAKRS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 MAGSGAKRSR 10 2 A0A1B0GX20;Q5TB13;Q5TB12 A0A1B0GX20 C1orf51 2 0 MAGS(1)GAKRS(1)R;MAGS(1)GAKRS(1)R ; 61.419 0.018634 20492200 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)MALRVT(ph)RNS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 MALRVTRNSK 10 2 D6RHI0;E9PC90;P14635-2;P14635 D6RHI0 CCNB1 G2/mitotic-specific cyclin-B1 2 0 MALRVT(1)RNS(1)K 55.04 0.0087721 0 65.74 124.53 58.837 151.66 67.807 0 0 131.62 0 59.011 TRUE FALSE FALSE 72.65483483 128.5648537 66.85499995 154.5955986 62.61164231 0 0 128.253351 0 61.555253 1.180319003 2.088608972 1.086097395 2.511493188 1.017161643 0 0 2.083548434 0 1 5.943810074 -5.515097432 24.98807227 1.28015401 0.60565051 0.097217049 0.827798799 515.8962962 1656691.529 0.102572186 0.212737473 3.05E-06 5.515097432 -0.674503499 (ac)MAVS(ph)VLR ddPTM_HeLa_SAHA_4h_R1 1 MAVSVLR 7 0 Q6UWT4-2;Q6UWT4 Q6UWT4-2 C5orf46 Uncharacterized protein C5orf46 1 0 MAVS(1)VLR 47.849 0.020807 4268000 564.79 469.23 473.7 637.67 666.36 764.69 661 651.31 839.07 592.53 TRUE FALSE FALSE 624.1972035 484.4333599 538.2533691 650.0130249 615.3036408 699.53411 586.6225403 634.6504333 833.2308436 618.0768681 1.009902224 0.783775263 0.870851826 1.051670202 0.995513135 1.131791442 0.949109359 1.026814731 1.348102294 1 9.271642462 (ac)MCWPWPLSSKCRTSS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 MCWPWPLSSKCRTSSR 16 2 Q13105-3 Q13105-3 1 0 MCWPWPLSSKCRT(0.004)S(0.06)S(0.936)R 68.751 0.0067653 0 0 0 293.37 158.77 210.64 165.52 60.659 183.77 249.14 146.33 TRUE FALSE FALSE 0 0 333.3489358 161.8432229 194.5008087 151.4167648 53.83348967 179.0694295 247.4062145 152.6390024 0 0 2.183904051 1.060300581 1.274253668 0.991992626 0.35268502 1.173156445 1.620858434 1 7.253979837 (ac)MDAQCSAK(ac)VNAR ddPTM_HeLa_SAHA_4h_R1 2 MDAQCSAKVNAR 12 1 P49585;C9JEJ2;F8WBU2;C9JVS0;C9JPY0;F8WAZ5;C9J2E1;C9J050 P49585 PCYT1A Choline-phosphate cytidylyltransferase A 0 1 ; MDAQCSAK(1)VNAR;MDAQCSAK(1)VNAR 50.108 0.00011523 486110 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)MDDREDLVYQAK ddPTM_HeLa_SAHA_4h_R1 6 MDDREDLVYQAK 12 1 P62258;B4DJF2;I3L3T1;I3L0W5 P62258 YWHAE 14-3-3 protein epsilon 0 0 ;;;;; ;;;;; 93.598 0.00029139 35071500 7188.56 7035.24 6360.46 7376.19 7810.94 7651.26 7918.8 7309.5 7366.5 7001.72 FALSE FALSE TRUE 7944.685723 7263.186392 7227.230365 7518.966824 7212.467465 6999.329603 7027.755783 7122.533574 7315.235927 7303.598415 1.087776911 0.994466834 0.989543778 1.029487986 0.987522459 0.958339877 0.962231955 0.975208818 1.001593394 1 12.83439173 -5.984076074 0.899438338 1.03844439 0.963291918 0.296037628 0.029817827 0.465166436 0.728720602 0.006823128 0.018899221 1.04E-06 5.984076074 -0.075152471 (ac)MDEPS(ph)PLAQPLELNQHSR ddPTM_HeLa_SAHA_4h_R1 3 MDEPSPLAQPLELNQHSR 18 0 A0A087X2F8;A0A087X126;A0A0C4DGT1;Q13085 A0A087X2F8 ACACA Acetyl-CoA carboxylase 1;Biotin carboxylase 1 0 MDEPS(1)PLAQPLELNQHSR;MDEPS(1)PLAQPLELNQHSR;MDEPS(1)PLAQPLELNQHSR ;; 154.47 3.97E-09 36558400 0 108.28 0 138.48 181.47 173.06 0 164.75 127.63 126.69 TRUE FALSE FALSE 0 111.788343 0 141.1604806 167.5658078 158.3143144 0 160.5359336 126.7418124 132.1522259 0 0.845905866 0 1.068165744 1.267975675 1.197969337 0 1.214780398 0.959059233 1 7.046056915 -6.213754878 24.98677015 0.508718251 0.928478863 0.139812751 0.471898983 641.8259225 336317.8203 0.077886315 0.129159647 6.11E-07 6.213754878 0.419760612 (ac)MDFPT(ph)ISRSPSGPPAMDLEGPR ddPTM_HeLa_SAHA_4h_R1 1 MDFPTISRSPSGPPAMDLEGPR 22 1 O96018 O96018 APBA3 Amyloid beta A4 precursor protein-binding family A member 3 1 0 MDFPT(0.493)IS(0.493)RS(0.013)PS(0.002)GPPAMDLEGPR 53.3 0.0017431 1703000 0 0 0 0 0 0 0 116.96 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 113.9683326 0 0 0 (ac)MDHT(ph)EGSPAEEPPAHAPSPGK ddPTM_HeLa_SAHA_4h_R1 1 MDHTEGSPAEEPPAHAPSPGK 21 0 D6R946;Q06330 D6R946 RBPJ Recombining binding protein suppressor of hairless 1 0 MDHT(0.786)EGS(0.214)PAEEPPAHAPSPGK 48.376 0.017135 8776800 210.31 255.78 440.21 777.5 702.92 12890 410.74 311.3 727.35 495.17 TRUE FALSE FALSE 232.4313707 264.0674398 500.1995263 792.5496368 649.0624215 11791.69948 364.5224542 303.3373968 722.2883121 516.519202 0.449995605 0.511244188 0.968404513 1.534404982 1.256608504 22.82915996 0.705728757 0.587272255 1.398376497 1 9.012678173 -5.475554126 24.99972201 0.8082441 8.09649767 0.239159607 5.737750501 409.7562355 216457.5355 0.769555846 1.720734263 3.35E-06 5.475554126 7.28825357 (ac)MDLAAAAEPGAGS(ph)QHLEVR ddPTM_HeLa_SAHA_4h_R1 7 MDLAAAAEPGAGSQHLEVR 19 0 Q14566 Q14566 MCM6 DNA replication licensing factor MCM6 1 0 MDLAAAAEPGAGS(1)QHLEVR;MDLAAAAEPGAGS(1)QHLEVR;MDLAAAAEPGAGS(1)QHLEVR;MDLAAAAEPGAGS(1)QHLEVR;MDLAAAAEPGAGS(1)QHLEVR;MDLAAAAEPGAGS(1)QHLEVR;MDLAAAAEPGAGS(1)QHLEVR ;;;;;; 171.52 1.14E-32 59962000 73.865 159.19 132.71 0 62.052 69.077 62.25 0 122.59 62.699 TRUE FALSE FALSE 81.6344596 164.3478604 150.7950277 0 57.29758917 63.19125098 55.24546617 0 121.7368862 65.40226073 1.24819018 2.512877362 2.305654667 0 0.876079642 0.96619368 0.844702699 0 1.861355936 1 6.0312686 -6.241389257 24.99545757 1.328088625 0.59710585 0.430397072 0.612061091 961.7841416 1199007.135 0.098643256 0.163449334 5.74E-07 6.241389257 -0.730982774 (ac)MDLAAAAEPGAGS(ph)QHLEVRDEVAEK ddPTM_HeLa_SAHA_4h_R1 3 MDLAAAAEPGAGSQHLEVRDEVAEK 25 1 Q14566 Q14566 MCM6 DNA replication licensing factor MCM6 1 0 MDLAAAAEPGAGS(1)QHLEVRDEVAEK;MDLAAAAEPGAGS(1)QHLEVRDEVAEK;MDLAAAAEPGAGS(1)QHLEVRDEVAEK ;; 61.985 8.79E-07 40797100 4905.1 4126.3 4761.1 4290.8 4799.3 4508.9 5192.5 6392.5 3323.98 4370.2 TRUE FALSE FALSE 5421.040923 4259.994827 5409.917913 4373.854639 4431.578671 4124.716354 4608.226234 6228.989106 3300.848153 4558.620709 1.189184464 0.934492053 1.186744469 0.959468865 0.972131474 0.904816745 1.010881696 1.366419692 0.724089229 1 12.15438166 -7.265415867 24.95531568 1.089337103 1.039958012 0 0.179106317 1220.20225 7657623.722 0.02411925 0.028098779 5.43E-08 7.265415867 -0.049379091 (ac)MDLFGDLPEPERS(ph)PR ddPTM_HeLa_SAHA_4h_R1 6 MDLFGDLPEPERSPR 15 1 F8SNU6;E9PC05;F8SNU7;Q9H0C8 F8SNU6 ILKAP2;ILKAP;ILKAP3 Integrin-linked kinase-associated serine/threonine phosphatase 2C 1 0 MDLFGDLPEPERS(1)PR;MDLFGDLPEPERS(1)PR;MDLFGDLPEPERS(1)PR;MDLFGDLPEPERS(1)PR;MDLFGDLPEPERS(1)PR;MDLFGDLPEPERS(1)PR ;;;;; 95.067 0.00059191 8685100 525.05 358.75 822.103 958.589 1062.852 1480.21 1132.365 1225.44 1220.58 1056.58 TRUE FALSE FALSE 580.277168 370.3737354 934.1349155 977.1438762 981.4165094 1354.087781 1004.94831 1194.095019 1212.085884 1102.134335 0.526503122 0.336051354 0.847569018 0.886592356 0.890469046 1.228605024 0.911820164 1.083438726 1.099762385 1 10.10608436 -5.846366675 1.765989704 0.737372582 1.052337264 0.256676516 0.219581384 0.382541006 2.41690914 0.03750213 0.082266925 1.42E-06 5.846366675 0.314964682 (ac)MDLFGDLPEPERS(ph)PRPAAGK ddPTM_HeLa_SAHA_4h_R1 1 MDLFGDLPEPERSPRPAAGK 20 2 F8SNU6;E9PC05;F8SNU7;Q9H0C8 F8SNU6 ILKAP2;ILKAP;ILKAP3 Integrin-linked kinase-associated serine/threonine phosphatase 2C 1 0 MDLFGDLPEPERS(1)PRPAAGK 51.798 0.0030922 7689600 1368.3 1358.5 1320.5 1479.1 1503.6 1605 1578.9 1458.9 1424.7 1468.1 TRUE FALSE FALSE 1512.224072 1402.516291 1500.450863 1507.730119 1388.394493 1468.244971 1401.238017 1421.58345 1414.785397 1531.396976 0.987480122 0.9158411 0.979792233 0.984545577 0.906619586 0.958761832 0.915006389 0.928291928 0.923852808 1 10.5806326 -6.319058163 0.303216671 1.006082864 0.907036647 0 0.035273348 1.31816403 0.252632335 0.017595619 0.047797957 4.80E-07 6.319058163 -0.099046218 (ac)MDLVGVAS(ph)PEPGTAAAWGPSK ddPTM_HeLa_SAHA_4h_R1 1 MDLVGVASPEPGTAAAWGPSK 21 0 B4E1Q4;O14730-2;O14730 B4E1Q4 RIOK3 Serine/threonine-protein kinase RIO3 1 0 MDLVGVAS(1)PEPGTAAAWGPSK 81.878 0.0011204 0 552.47 597.29 659.05 693.86 715.79 946.22 748.01 644.63 769.71 510.59 TRUE FALSE FALSE 610.5813294 616.6425879 748.8619018 707.2906636 660.9463248 865.5967327 663.8419461 628.141298 764.3535254 532.6040337 1.146407633 1.157788054 1.406038735 1.327985931 1.240971309 1.625216254 1.246408033 1.179377658 1.435125303 1 9.056919545 -7.376857487 0.788685612 1.034680616 1.347136972 0 0.175490716 0.319663111 0.412850953 0.031419677 0.034820667 4.20E-08 7.376857487 0.312456356 (ac)MDRNPS(ph)PPPPGR ddPTM_HeLa_SAHA_4h_R1 5 MDRNPSPPPPGR 12 1 E9PL53;E9PMD2;J3KND1;E9PRZ1;Q96ER3 E9PL53 SAAL1 Protein SAAL1 1 0 MDRNPS(1)PPPPGR;MDRNPS(1)PPPPGR;MDRNPS(1)PPPPGR;MDRNPS(1)PPPPGR;MDRNPS(1)PPPPGR ;;;; 74.698 0.00066577 117491700 1006.108 944.133 1161.33 1466.95 732.77 1506.431 1311.86 1435.857 1273.155 1400.47 TRUE FALSE FALSE 1111.935056 974.7235287 1319.590004 1495.344938 676.6253209 1378.074604 1164.24606 1399.129857 1264.295011 1460.851115 0.761155633 0.66722989 0.903302185 1.023612141 0.463171992 0.943336791 0.796964213 0.957749795 0.865450967 1 10.51259344 -9.335026219 1.066933569 0.999658284 0.808759414 0.056624882 0.159122213 0.694862719 1.419994964 0.098517701 0.02612267 4.62E-10 9.335026219 -0.19089887 (ac)MDS(ph)AGQDINLNSPNKGLLSDSMTDVPVDTGVAAR ddPTM_HeLa_SAHA_4h_R1 3 MDSAGQDINLNSPNKGLLSDSMTDVPVDTGVAAR 34 1 O43399-2;O43399-4;O43399;O43399-3;O43399-5;O43399-7;A0A087WZ51;A0A087WYR3 O43399-2 TPD52L2 Tumor protein D54 1 0 MDS(0.492)AGQDINLNS(0.492)PNKGLLS(0.014)DS(0.001)MT(0.001)DVPVDTGVAAR;MDS(0.846)AGQDINLNS(0.134)PNKGLLS(0.006)DS(0.007)MT(0.007)DVPVDTGVAAR;MDS(0.824)AGQDINLNS(0.171)PNKGLLS(0.004)DS(0.002)MT(0.001)DVPVDTGVAAR ;; 61.725 1.94E-14 7330200 222.81 212.437 116.6 152.26 287.05 501.12 249.227 306.884 150.16 201.39 TRUE FALSE FALSE 246.2461781 219.3200982 132.4896408 155.2072125 265.056291 458.4217568 221.183322 299.0343516 149.1150243 210.0729085 1.172193882 1.044018954 0.630684088 0.738825456 1.261734761 2.182203122 1.052888369 1.423478895 0.709825105 1 7.71474631 -5.520447908 24.96994227 1.020306752 1.539378118 0.442659535 0.318560766 73.44596102 754445.4754 0.043889836 0.08899969 3.02E-06 5.520447908 0.519071366 (ac)MDSAGQDINLNS(ph)PNK ddPTM_HeLa_SAHA_4h_R1 3 MDSAGQDINLNSPNK 15 0 O43399-2;O43399-4;O43399;O43399-3;O43399-5;O43399-7;A0A087WZ51;A0A087WYR3 O43399-2 TPD52L2 Tumor protein D54 1 0 MDSAGQDINLNS(1)PNK;MDSAGQDINLNS(1)PNK;MDSAGQDINLNS(1)PNK ;; 170.74 1.23E-24 26891600 5532.39 7487.5 5080.76 6549 7166.34 8593.8 6728.68 6140.09 11487.5 6786.2 TRUE FALSE FALSE 6114.312164 7730.099913 5773.139513 6675.765365 6617.256577 7861.559893 5971.551217 5983.035389 11407.55755 7078.786293 0.863751484 1.092009222 0.815554994 0.94306638 0.93480101 1.110580199 0.843584051 0.845206387 1.6115132 1 12.78928631 -9.699068043 1.58176469 1.000028014 0.924172278 0.065393784 0.216772987 0.855776905 3.858723933 0.067055973 0.014784351 2.00E-10 9.699068043 -0.075855736 (ac)MDSAGQDINLNS(ph)PNKGLLSDSMTDVPVDTGVAAR ddPTM_HeLa_SAHA_4h_R1 3 MDSAGQDINLNSPNKGLLSDSMTDVPVDTGVAAR 34 1 O43399-2;O43399-4;O43399;O43399-3;O43399-5;O43399-7;A0A087WZ51;A0A087WYR3 O43399-2 TPD52L2 Tumor protein D54 1 0 MDS(0.151)AGQDINLNS(0.846)PNKGLLS(0.001)DS(0.001)MT(0.001)DVPVDTGVAAR;MDS(0.096)AGQDINLNS(0.893)PNKGLLS(0.005)DS(0.001)MT(0.005)DVPVDTGVAAR;MDS(0.089)AGQDINLNS(0.911)PNKGLLSDSMTDVPVDTGVAAR ;; 75.261 1.87E-19 68669000 70.264 166.4 115.727 230.813 303.553 117.7 322.218 303.53 0 488.31 TRUE FALSE FALSE 77.6546899 171.7914692 131.4976729 235.2807194 280.2948347 107.6712978 285.9611826 295.7661421 0 509.3634338 0.152454387 0.337266984 0.258160803 0.461911287 0.550284563 0.211384035 0.561408934 0.580658372 0 1 8.992551585 -9.425464398 1.13726926 1.002313296 0.369819197 0 0.338980136 0.222550961 0.511854245 0.11151862 0.027640714 3.75E-10 9.425464398 -0.632494098 (ac)MDYT(ph)VS(ph)MFLNTLT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 MDYTVSMFLNTLTPK 15 0 E7EPW5;B7Z4U3 E7EPW5 ST7 3 0 MDY(0.62)T(0.688)VS(0.688)MFLNT(0.152)LT(0.853)PK 48.44 0.0088292 0 203.98 193.14 287.51 263.46 320.78 218.21 214.03 243.65 285.36 212.47 TRUE FALSE FALSE 225.4355523 199.3978627 326.6903655 268.5596493 296.2019057 199.6172804 189.9467811 237.4177858 283.3741565 221.6306215 1.017167893 0.899685528 1.474030814 1.211744331 1.336466521 0.900675543 0.857042135 1.071231873 1.278587564 1 7.792013414 -3.228626856 14.04363959 1.050647429 1.088989985 0 0.206331964 0 0 0.026032356 0 0.000590708 3.228626856 0.038342556 (ac)MEDKVT(ph)SPEKAEEAK ddPTM_HeLa_SAHA_4h_R1 1 MEDKVTSPEKAEEAK 15 2 H3BTD3;P56211-2 H3BTD3 ARPP19 cAMP-regulated phosphoprotein 19 1 0 MEDKVT(0.586)S(0.414)PEKAEEAK 68.481 0.0024415 7452700 1265.3 1160 852.34 996.05 1256.5 1278.2 1051.7 1022.1 1101.5 1106.9 TRUE FALSE FALSE 1398.390059 1197.584761 968.4924564 1015.329988 1160.227241 1169.290169 933.3599481 995.956162 1093.834572 1154.623876 1.211121724 1.037207688 0.838794759 0.879359945 1.004852979 1.012702226 0.808367095 0.862580605 0.947351423 1 10.17320725 -6.934879998 5.707245728 1.100941259 0.906620398 0.350643838 0.091612398 0.136769306 8.522001879 0.016289948 0.021453767 1.16E-07 6.934879998 -0.194320861 (ac)MEDLDQS(ph)PLVSSSDSPPRPQPAFK ddPTM_HeLa_SAHA_4h_R1 4 MEDLDQSPLVSSSDSPPRPQPAFK 24 1 Q9NQC3-5;Q9NQC3;Q9NQC3-2;Q9NQC3-4 Q9NQC3-5 RTN4 Reticulon-4 1 0 MEDLDQS(0.832)PLVS(0.094)S(0.064)S(0.008)DS(0.002)PPRPQPAFK;MEDLDQS(0.71)PLVS(0.241)S(0.048)S(0.001)DSPPRPQPAFK;MEDLDQS(0.826)PLVS(0.085)S(0.085)S(0.002)DS(0.002)PPRPQPAFK;MEDLDQS(0.597)PLVS(0.123)S(0.111)S(0.092)DS(0.077)PPRPQPAFK ;;; 102.47 2.12E-07 253927000 5135.65 9850.4 6975 6184.72 8461.9 7814.9 9985.7 7281.6 5757.83 7604.1 TRUE FALSE FALSE 5675.84123 10169.55942 7925.516676 6304.434199 7813.55105 7149.026555 8862.082755 7095.347216 5717.760792 7931.949965 0.715566948 1.282100804 0.99918894 0.794815175 0.985073164 0.901294964 1.117264077 0.89452748 0.720851848 1 12.95345986 (ac)MEDLDQSPLVS(ph)SSDSPPRPQPAFK ddPTM_HeLa_SAHA_4h_R1 3 MEDLDQSPLVSSSDSPPRPQPAFK 24 1 Q9NQC3-5;Q9NQC3;Q9NQC3-2;Q9NQC3-4 Q9NQC3-5 RTN4 Reticulon-4 1 0 MEDLDQS(0.016)PLVS(0.45)S(0.45)S(0.069)DS(0.014)PPRPQPAFK;MEDLDQS(0.098)PLVS(0.734)S(0.156)S(0.012)DSPPRPQPAFK;MEDLDQS(0.004)PLVS(0.486)S(0.486)S(0.024)DS(0.001)PPRPQPAFK ;; 79.293 1.21E-05 30296400 1860.85 4126.77 3092.61 2392.57 3774.71 3746.18 4570 3406.81 2447.34 2804.93 TRUE FALSE FALSE 2056.582741 4260.480056 3514.054785 2438.881652 3485.492535 3426.984389 4055.771572 3319.668733 2430.308762 2925.864259 0.702897523 1.456144126 1.201031379 0.833559398 1.191269391 1.171272515 1.386178993 1.134594239 0.830629362 1 11.51464712 -7.273601983 24.9977041 0.859701609 1.188671614 0.475752268 0.16886635 555.6764313 1142075.17 0.032192364 0.036960698 5.33E-08 7.273601983 0.328970004 (ac)MEDLDQSPLVSSS(ph)DSPPRPQPAFK ddPTM_HeLa_SAHA_4h_R1 2 MEDLDQSPLVSSSDSPPRPQPAFK 24 1 Q9NQC3-5;Q9NQC3;Q9NQC3-2;Q9NQC3-4 Q9NQC3-5 RTN4 Reticulon-4 1 0 MEDLDQS(0.001)PLVS(0.023)S(0.25)S(0.524)DS(0.203)PPRPQPAFK;MEDLDQS(0.065)PLVS(0.326)S(0.144)S(0.442)DS(0.023)PPRPQPAFK ; 69.99 1.74E-05 43584000 1229.58 2008.52 1410.81 1488.42 2189.68 2080.98 2338.17 1901.92 1343.61 1632.87 TRUE FALSE FALSE 1358.912866 2073.597366 1603.06784 1517.230521 2021.907191 1903.668797 2075.072958 1853.27164 1334.259709 1703.271017 0.797825392 1.217420684 0.941170151 0.890774578 1.187073091 1.117654664 1.218287012 1.08806621 0.783351384 1 10.73409229 -5.760251405 24.99761145 0.93057383 1.154941785 0.441490472 0.117898989 22.76832499 479075.8609 0.017867396 0.034204992 1.74E-06 5.760251405 0.224367955 (ac)MEDLDQSPLVSSSDS(ph)PPRPQPAFK ddPTM_HeLa_SAHA_4h_R1 1 MEDLDQSPLVSSSDSPPRPQPAFK 24 1 Q9NQC3-5;Q9NQC3;Q9NQC3-2;Q9NQC3-4 Q9NQC3-5 RTN4 Reticulon-4 1 0 MEDLDQS(0.001)PLVS(0.003)S(0.003)S(0.017)DS(0.975)PPRPQPAFK 54.605 0.0041207 23784000 429.8 1124.1 814.1 661.93 1022.5 658.18 1102.4 861.87 707.86 742.11 TRUE FALSE FALSE 475.008336 1160.521578 925.0413083 674.7426123 944.1562709 602.0993612 978.3550506 839.8246134 702.9339446 774.1059939 0.613621829 1.499176581 1.194980165 0.871641116 1.219673118 0.777799637 1.263851538 1.084896151 0.908059039 1 9.59638731 -7.285038503 24.98473097 0.817543653 1.117846234 0.281345072 0.210582696 755.874146 800252.6536 0.039029406 0.044645066 5.19E-08 7.285038503 0.300302581 (ac)MEDMNEYSNIEEFAEGSK ddPTM_HeLa_SAHA_4h_R1 2 MEDMNEYSNIEEFAEGSK 18 0 O14979-3;O14979-2;A0A087WU03 O14979-3 HNRNPDL Heterogeneous nuclear ribonucleoprotein D-like 0 0 ; ; 206.69 7.42E-73 4465400 2649.8 2770.6 2524.2 2500.5 2549.7 3131 2903.6 3182.5 2977.7 2524.8 FALSE FALSE TRUE 2928.518122 2860.369258 2868.184831 2548.900793 2354.342537 2864.221185 2576.879286 3101.096258 2956.977943 2633.656484 1.111959035 1.086082895 1.08905047 0.967818244 0.893944427 1.087545473 0.978441684 1.177486995 1.122765236 1 11.36285147 -6.277097115 24.08127846 1.059698762 1.015313441 0.097099147 0.078545269 1149.175218 1767405.301 0.012328399 0.018879613 5.28E-07 6.277097115 -0.044385321 (ac)MEDS(ph)MDMDMSPLRPQNYLFGCELK ddPTM_HeLa_SAHA_4h_R1 18 MEDSMDMDMSPLRPQNYLFGCELK 24 1 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 1 0 MEDS(0.5)MDMDMS(0.5)PLRPQNYLFGCELK;MEDS(0.506)MDMDMS(0.494)PLRPQNY(0.001)LFGCELK;MEDS(0.627)MDMDMS(0.261)PLRPQNY(0.112)LFGCELK;MEDS(0.539)MDMDMS(0.46)PLRPQNY(0.001)LFGCELK;MEDS(0.833)MDMDMS(0.092)PLRPQNY(0.076)LFGCELK;MEDS(0.756)MDMDMS(0.24)PLRPQNY(0.004)LFGCELK;MEDS(0.734)MDMDMS(0.259)PLRPQNY(0.007)LFGCELK;MEDS(0.51)MDMDMS(0.489)PLRPQNY(0.001)LFGCELK;MEDS(0.51)MDMDMS(0.487)PLRPQNY(0.003)LFGCELK;MEDS(0.756)MDMDMS(0.229)PLRPQNY(0.015)LFGCELK;MEDS(0.506)MDMDMS(0.488)PLRPQNY(0.006)LFGCELK;MEDS(0.555)MDMDMS(0.441)PLRPQNY(0.003)LFGCELK;MEDS(0.915)MDMDMS(0.078)PLRPQNY(0.007)LFGCELK;MEDS(0.964)MDMDMS(0.036)PLRPQNYLFGCELK;MEDS(0.502)MDMDMS(0.487)PLRPQNY(0.012)LFGCELK;MEDS(0.528)MDMDMS(0.466)PLRPQNY(0.006)LFGCELK;MEDS(0.956)MDMDMS(0.043)PLRPQNY(0.001)LFGCELK;MEDS(0.944)MDMDMS(0.055)PLRPQNY(0.001)LFGCELK ;;;;;;;;;;;;;;;;; 80.847 5.40E-05 846830200 36146.17 39275.21 34854.43 36947.01 44348.16 44719.5 44064.68 37293.105 42682.89 39159.42 TRUE FALSE FALSE 39948.19001 40547.75257 39604.21021 37662.1728 40950.21356 40909.14701 39106.40623 36339.20137 42385.85629 40847.77424 0.977977154 0.992655128 0.969556137 0.922012852 1.002507831 1.001502475 0.95736933 0.889625005 1.037653999 1 15.31796985 -4.33058539 2.899311111 0.984859723 0.88027572 0.525079614 0.02821884 0.177518612 2.251200923 0.003320983 0.039631591 4.67E-05 4.33058539 -0.104584003 (ac)MEDSMDMDMS(ph)PLRPQNYLFGCELK ddPTM_HeLa_SAHA_4h_R1 5 MEDSMDMDMSPLRPQNYLFGCELK 24 1 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 1 0 MEDS(0.512)MDMDMS(0.488)PLRPQNY(0.001)LFGCELK;MEDS(0.49)MDMDMS(0.49)PLRPQNY(0.021)LFGCELK;MEDS(0.49)MDMDMS(0.469)PLRPQNY(0.041)LFGCELK;MEDS(0.458)MDMDMS(0.475)PLRPQNY(0.067)LFGCELK;MEDS(0.479)MDMDMS(0.52)PLRPQNY(0.001)LFGCELK ;;;; 71.174 0.00049478 205648000 7149.95 7247.82 7936.9 7909.67 8662.8 8062.8 8418.1 6699.53 7995.2 7783.95 TRUE FALSE FALSE 7902.014546 7482.654123 9018.499398 8062.7731 7999.058136 7375.80408 7470.873233 6528.165723 7939.560752 8119.554178 0.973207934 0.921559726 1.110713618 0.993006872 0.985159771 0.908400131 0.920108798 0.804005439 0.977832105 1 12.9871848 -4.239348336 0.953930446 0.991821715 0.708178829 0.602666745 0.047419157 1.076727467 0.717413901 0.007140891 0.317614746 5.76E-05 4.239348336 -0.283642886 (ac)MEDSMDMDMSPLRPQNY(ph)LFGCELK ddPTM_HeLa_SAHA_4h_R1 1 MEDSMDMDMSPLRPQNYLFGCELK 24 1 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 1 0 MEDS(0.322)MDMDMS(0.327)PLRPQNY(0.351)LFGCELK 44.105 0.0087156 0 178.41 0 0 227.49 143.91 0 207.2 85.663 160.44 208.04 TRUE FALSE FALSE 197.1759824 0 0 231.8933979 132.8836469 0 183.8853107 83.4718645 159.323485 217.0096225 0.908604789 0 0 1.068585785 0.612339883 0 0.84736017 0.384645914 0.734177052 1 7.761615205 -7.417944916 9.121072896 0.959811076 0.433486875 0.262191429 0.35004937 0.299059835 24.01045941 0.058092493 0.066315744 3.82E-08 7.417944916 -0.526324201 (ac)MEEGGRDKAPVQPQQS(ph)PAAAPGGTDEKPSGK ddPTM_HeLa_SAHA_4h_R1 2 MEEGGRDKAPVQPQQSPAAAPGGTDEKPSGK 31 3 Q13200;F8WBS8;C9JPC0 Q13200 PSMD2 26S proteasome non-ATPase regulatory subunit 2 1 0 MEEGGRDKAPVQPQQS(0.999)PAAAPGGT(0.001)DEKPSGK;MEEGGRDKAPVQPQQS(1)PAAAPGGTDEKPSGK ; 50.294 0.00062768 30586000 4465.4 2266.2 4049.3 3195.7 3396.6 2832.1 3957.5 3877.1 1504.02 2734.6 TRUE FALSE FALSE 4935.09126 2339.626367 4601.117516 3257.557395 3136.353242 2590.789147 3512.191684 3777.929396 1493.553402 2852.501989 1.730092136 0.820201485 1.613011151 1.142000043 1.099509572 0.908251478 1.231267041 1.32442656 0.523594167 1 11.47801218 -6.046824705 24.93005268 1.326445863 1.129461519 0 0.367515691 833.1190751 443561.6792 0.048962437 0.081196594 8.98E-07 6.046824705 -0.196984344 (ac)MEEKDYSEADGLS(ph)ER ddPTM_HeLa_SAHA_4h_R1 2 MEEKDYSEADGLSER 15 1 Q9H4G0-3;Q9H4G0-2;Q4VXN2;Q4VXN1;Q4VXN0 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 MEEKDYSEADGLS(1)ER;MEEKDYSEADGLS(1)ER ; 82.578 1.35E-06 9158000 860.49 1191.24 1006.61 908.97 1132.29 785.75 1015.34 1073.28 807.68 771.7 TRUE FALSE FALSE 951.0002863 1229.836958 1143.785569 926.5644287 1045.534185 718.7996795 901.091271 1045.827052 802.0592891 804.9717636 1.181408255 1.527801363 1.420901478 1.151052087 1.298845788 0.892950178 1.119407303 1.299209611 0.996381892 1 9.652794368 -8.515063432 1.144297818 1.02687606 1.230815417 0.243109616 0.1649748 0.52384055 1.389539884 0.056490498 0.034529606 3.05E-09 8.515063432 0.203939356 (ac)MEEVVIAGMSGK ddPTM_HeLa_SAHA_4h_R1 1 MEEVVIAGMSGK 12 0 A0A0U1RQF0;P49327;A0A1B0GTR5;A0A0U1RRG3 A0A0U1RQF0 FASN Fatty acid synthase;[Acyl-carrier-protein] S-acetyltransferase;[Acyl-carrier-protein] S-malonyltransferase;3-oxoacyl-[acyl-carrier-protein] synthase;3-oxoacyl-[acyl-carrier-protein] reductase;3-hydroxyacyl-[acyl-carrier-protein] dehydratase;Enoyl-[acyl-carrier-protein] reductase;Oleoyl-[acyl-carrier-protein] hydrolase 0 0 73.841 0.0058539 0 266.43 414.72 197.46 335.6 391.15 282.98 265.32 396.4 432.1 366.93 FALSE FALSE TRUE 294.4543298 428.1572001 224.3688205 342.0960233 361.1801715 258.868512 235.4654953 386.260662 429.0929809 382.750148 0.769312125 1.118633663 0.586201786 0.89378417 0.94364476 0.676338111 0.615193741 1.009171816 1.12107855 1 8.580259125 -13.52287874 0.274195818 2.385057946 0.797229996 0.227271697 0.166814935 63.67048669 0.856814912 48.19965648 0.076582427 3.00E-14 13.52287874 -1.58782795 (ac)MEGAAAPVAGDRPDLGLGAPGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 MEGAAAPVAGDRPDLGLGAPGSPR 24 1 O60285-2;O60285 O60285-2 NUAK1 NUAK family SNF1-like kinase 1 1 0 MEGAAAPVAGDRPDLGLGAPGS(1)PR;MEGAAAPVAGDRPDLGLGAPGS(1)PR;MEGAAAPVAGDRPDLGLGAPGS(1)PR ;; 78.057 4.92E-11 24289000 73.757 282.55 165.06 284 150.72 0 254.02 70.938 0 167.56 TRUE FALSE FALSE 81.51509967 291.7048054 187.5535172 289.4972307 139.1718662 0 225.4370011 69.12350868 0 174.7843316 0.466375326 1.66894139 1.073056809 1.656311112 0.796249097 0 1.289800973 0.395478863 0 1 7.449432051 -5.513801377 24.92504632 0.915684827 0.595157463 0.094807074 0.55360356 895.7781102 2459664.602 0.073395613 0.153387582 3.06E-06 5.513801377 -0.320527363 (ac)MEGIS(ph)NFKTPSK ddPTM_HeLa_SAHA_4h_R1 2 MEGISNFKTPSK 12 1 Q96KB5;Q96KB5-2;E5RIE1 Q96KB5 PBK Lymphokine-activated killer T-cell-originated protein kinase 1 0 MEGIS(0.707)NFKT(0.288)PS(0.005)K;MEGIS(0.996)NFKT(0.004)PSK ; 113.66 0.0016199 22147100 2814.7 2816.1 1954.39 2795.5 4016.7 3910.6 3498.7 2898.9 3805.2 3299.2 TRUE FALSE FALSE 3110.76306 2907.343488 2220.724091 2849.610945 3708.941314 3577.39488 3105.017068 2824.750336 3778.719303 3441.444658 0.903911982 0.844803208 0.645288334 0.828027537 1.077728013 1.039503823 0.902242336 0.82080365 1.098003798 1 11.74879859 -8.652660226 1.028859807 0.989428726 0.886286876 0.20567971 0.118599827 0.834474519 1.780209538 0.047007931 0.024611235 2.23E-09 8.652660226 -0.10314185 (ac)MEITIRNS(ph)PYR ddPTM_HeLa_SAHA_4h_R1 3 MEITIRNSPYR 11 1 P21127;A0A0D9SEN2;A0A0D9SER5;A0A0D9SEI3;P21127-6;P21127-9;P21127-2;P21127-8;P21127-3;A0A087X1I0;A0A087WYI9;Q9UQ88-9 P21127 CDK11B;CDK11A Cyclin-dependent kinase 11B;Cyclin-dependent kinase 11A 1 0 MEIT(0.012)IRNS(0.985)PY(0.004)R;MEIT(0.008)IRNS(0.992)PYR;MEITIRNS(1)PYR ;; 101.56 0.00025366 21474300 1286.23 1826.03 977.98 1188.2 1839.6 1758.89 1558.62 1414.4 1799.1 1335.99 TRUE FALSE FALSE 1421.521573 1885.19457 1111.254021 1211.199329 1698.650245 1609.022677 1383.239976 1378.221696 1786.579917 1393.591067 1.02004211 1.352760228 0.797403232 0.869121048 1.218901502 1.154587393 0.992572361 0.988971391 1.281997251 1 10.44459157 -7.503168016 24.8072296 1.008842034 1.054583523 0 0.175866666 605.4844056 762054.1077 0.026865361 0.028788138 3.14E-08 7.503168016 0.045741488 (ac)MEPETALWGPDLQGPEQS(ph)PNDAHR ddPTM_HeLa_SAHA_4h_R1 1 MEPETALWGPDLQGPEQSPNDAHR 24 0 Q9UEG4 Q9UEG4 ZNF629 Zinc finger protein 629 1 0 MEPETALWGPDLQGPEQS(1)PNDAHR 88.413 0.00025636 1566000 179.21 292.7 260.18 209.16 232.14 376.09 386.05 401.61 329.65 268.72 TRUE FALSE FALSE 198.06013 302.183672 295.6359754 213.2085943 214.3534834 344.0450162 342.610638 391.3373977 327.3559388 280.3058343 0.706585828 1.078049884 1.054690767 0.760628457 0.764712885 1.227391563 1.222274373 1.396108642 1.167852748 1 8.130857963 -5.164751619 5.048018487 0.876940515 1.288149516 0.490433929 0.15634739 0.118690209 4.811095031 0.021478799 0.056488115 6.84E-06 5.164751619 0.411209001 (ac)MEPSSWSGSES(ph)PAENMER ddPTM_HeLa_SAHA_4h_R1 2 MEPSSWSGSESPAENMER 18 0 P28347 P28347 TEAD1 Transcriptional enhancer factor TEF-1 1 0 MEPS(0.002)S(0.023)WS(0.036)GS(0.087)ES(0.852)PAENMER;MEPSSWS(0.002)GS(0.001)ES(0.997)PAENMER ; 216.71 1.97E-73 15438300 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)MERS(ph)PPQSPGPGK ddPTM_HeLa_SAHA_4h_R1 1 MERSPPQSPGPGK 13 1 Q86VQ6 Q86VQ6 TXNRD3 Thioredoxin reductase 3 1 0 MERS(0.995)PPQS(0.005)PGPGK 77.185 0.00054687 0 660.06 962.82 927.3 903.22 982.15 1336 1384.6 890.68 816.79 922.78 TRUE FALSE FALSE 729.4881393 994.0159997 1053.667615 920.7031292 906.8978792 1222.165284 1228.801164 867.8976953 811.1058919 962.5655618 0.757858133 1.032673554 1.094645037 0.956509526 0.942167386 1.269695626 1.276589578 0.901650474 0.842650022 1 9.910740998 -6.139318401 0.877076402 0.894380917 1.136718158 0.269892777 0.13698326 0.569663947 0.858363287 0.028333716 0.070189071 7.26E-07 6.139318401 0.242337241 (ac)MESDFYLR ddPTM_HeLa_SAHA_4h_R1 1 MESDFYLR 8 0 P61326;P61326-2 P61326 MAGOH Protein mago nashi homolog 0 0 73.616 0.00023803 1058400 0 0 130.21 56.54 164.35 137.08 141.9 141.29 143.01 55.953 FALSE FALSE TRUE 0 0 147.9543407 57.63441346 151.7575385 125.4000128 125.9330385 137.6760064 142.0147818 58.36540766 0 0 2.534966286 0.987475557 2.600128134 2.148533144 2.157665706 2.358863099 2.433201231 1 5.867041653 -6.760529555 24.9998968 0.474999964 2.102577275 0.343143301 0.794369463 10.86706532 298596.3969 0.089629241 0.122608827 1.74E-07 6.760529555 1.62757731 (ac)MESRDPAQPMS(ph)PGEATQSGARPADR ddPTM_HeLa_SAHA_4h_R1 1 MESRDPAQPMSPGEATQSGARPADR 25 2 Q9BQG0;Q9BQG0-2 Q9BQG0 MYBBP1A Myb-binding protein 1A 1 0 MESRDPAQPMS(0.867)PGEAT(0.125)QS(0.008)GARPADR 77.66 1.89E-06 7182000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)MET(ph)MASPGKDNYR ddPTM_HeLa_SAHA_4h_R1 12 METMASPGKDNYR 13 1 S4R3E5;O60684 S4R3E5 KPNA6 Importin subunit alpha-7 1 0 MET(0.528)MAS(0.472)PGKDNYR;MET(0.874)MAS(0.126)PGKDNYR;MET(0.969)MAS(0.031)PGKDNYR;MET(0.887)MAS(0.113)PGKDNYR;MET(0.992)MAS(0.008)PGKDNYR;MET(0.5)MAS(0.5)PGKDNYR;MET(0.99)MAS(0.01)PGKDNYR;MET(0.933)MAS(0.067)PGKDNYR;MET(0.996)MAS(0.004)PGKDNYR;MET(0.649)MAS(0.351)PGKDNYR;MET(0.692)MAS(0.308)PGKDNYR;MET(0.924)MAS(0.076)PGKDNYR ;;;;;;;;;;; 120.63 5.74E-06 544086400 19034.57 17975.99 16028.4 17485.05 19985.61 20731.5 20602.61 18308.66 17395.39 16766.99 TRUE FALSE FALSE 21036.71341 18558.42387 18212.66688 17823.49843 18454.31688 18965.05957 18284.3501 17840.35099 17274.33406 17489.89699 1.202792298 1.061093949 1.041324994 1.019073951 1.055141542 1.084343697 1.045423544 1.02003751 0.987675003 1 14.09423417 -7.015661283 24.42203412 1.097667243 1.04593488 0 0.0597178 991.8935421 1546748.756 0.012590969 0.01568675 9.65E-08 7.015661283 -0.051732363 (ac)MET(ph)PSQRR ddPTM_HeLa_SAHA_4h_R1 2 METPSQRR 8 1 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 MET(0.919)PS(0.081)QRR;MET(0.868)PS(0.132)QRR ; 57.59 0.0023303 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)METMAS(ph)PGKDNYR ddPTM_HeLa_SAHA_4h_R1 8 METMASPGKDNYR 13 1 S4R3E5;O60684 S4R3E5 KPNA6 Importin subunit alpha-7 1 0 MET(0.185)MAS(0.815)PGKDNYR;MET(0.416)MAS(0.583)PGKDNYR;MET(0.064)MAS(0.936)PGKDNYR;MET(0.493)MAS(0.507)PGKDNYR;MET(0.003)MAS(0.997)PGKDNYR;MET(0.018)MAS(0.982)PGKDNYR;MET(0.024)MAS(0.976)PGKDNYR;MET(0.05)MAS(0.95)PGKDNYR ;;;;;;; 135.04 1.03E-10 417530230 10647.57 12354.959 9611.63 11358.33 12646.78 12786.64 12987.12 12034.27 11969.59 11402.3 TRUE FALSE FALSE 11767.53027 12755.26778 10921.45288 11578.1869 11677.78645 11697.14634 11525.77508 11726.4508 11886.29265 11893.90895 0.989374503 1.072420163 0.918239153 0.973455148 0.981829144 0.983456859 0.969048537 0.98592068 0.999359647 1 13.53793532 -6.734452681 24.99986954 1.000650097 0.970165414 0.337105656 0.029239573 260.7600222 241561.6017 0.004434994 0.006271142 1.84E-07 6.734452681 -0.030484683 (ac)METPS(ph)QRR ddPTM_HeLa_SAHA_4h_R1 1 METPSQRR 8 1 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 MET(0.327)PS(0.673)QRR 61.56 0.0025435 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)MEVAEPS(ph)SPTEEEEEEEEHSAEPRPR ddPTM_HeLa_SAHA_4h_R1 4 MEVAEPSSPTEEEEEEEEHSAEPRPR 26 1 M0QXG9;M0R3F4;M0R2A4;M0R2K3;M0R193;M0R0I0;J3KQS6;Q9NWV8-3;Q9NWV8;M0R3H9 M0QXG9 BABAM1 BRISC and BRCA1-A complex member 1 1 0 MEVAEPS(0.349)S(0.349)PT(0.302)EEEEEEEEHSAEPRPR;MEVAEPS(0.453)S(0.453)PT(0.094)EEEEEEEEHSAEPRPR;MEVAEPS(0.333)S(0.333)PT(0.333)EEEEEEEEHSAEPRPR;MEVAEPS(0.45)S(0.45)PT(0.1)EEEEEEEEHSAEPRPR ;;; 95.591 2.09E-07 102586000 169.25 200.43 120.7 60.462 314.89 344.79 257.86 277.88 283.23 226.93 TRUE FALSE FALSE 187.0524915 206.9240635 137.1483674 61.63232944 290.7631962 315.4119523 228.8449141 270.772232 281.2589794 236.7140629 0.79020439 0.874151966 0.579384113 0.260366151 1.228330893 1.332459713 0.966756733 1.143878943 1.188180271 1 7.887001607 (ac)MEVAEPSSPT(ph)EEEEEEEEHSAEPRPR ddPTM_HeLa_SAHA_4h_R1 2 MEVAEPSSPTEEEEEEEEHSAEPRPR 26 1 M0QXG9;M0R3F4;M0R2A4;M0R2K3;M0R193;M0R0I0;J3KQS6;Q9NWV8-3;Q9NWV8;M0R3H9 M0QXG9 BABAM1 BRISC and BRCA1-A complex member 1 1 0 MEVAEPS(0.153)S(0.153)PT(0.694)EEEEEEEEHSAEPRPR;MEVAEPS(0.154)S(0.154)PT(0.692)EEEEEEEEHSAEPRPR ; 92.034 7.27E-07 80256000 68.397 0 0 0 0 51.999 0 0 0 0 TRUE FALSE FALSE 75.59131028 0 0 0 0 47.56839266 0 0 0 0 0 (ac)MEVKPPPGRPQPDS(ph)GR ddPTM_HeLa_SAHA_4h_R1 3 MEVKPPPGRPQPDSGR 16 2 P51991 P51991 HNRNPA3 Heterogeneous nuclear ribonucleoprotein A3 1 0 MEVKPPPGRPQPDS(1)GR;MEVKPPPGRPQPDS(1)GR;MEVKPPPGRPQPDS(1)GR ;; 70.987 0.0041579 57499000 3953.96 5255.31 3575.99 3799.61 5031.19 5334.88 4096.12 4462.2 5139.05 4989.84 TRUE FALSE FALSE 4369.855654 5425.585492 4063.307294 3873.156946 4645.701309 4880.318211 3635.213797 4348.063385 5103.286933 5204.976422 0.8395534 1.042384259 0.780658156 0.744125743 0.892549924 0.937625421 0.698411194 0.835366586 0.980463026 1 12.34567591 -13.52287875 0.148211312 1.585263159 0.783233801 0.329888876 0.089311849 61.45256218 0.623197355 10.51226681 0.219206833 3.00E-14 13.52287875 -0.802029359 (ac)MEVS(ph)PLQPVNENMQVNK ddPTM_HeLa_SAHA_4h_R1 1 MEVSPLQPVNENMQVNK 17 0 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 1 0 MEVS(1)PLQPVNENMQVNK 83.137 0.00057823 0 187.13 79.753 213.42 236.21 468.93 436.22 329.08 349.21 341.22 186.76 TRUE FALSE FALSE 206.813192 82.33704953 242.5037662 240.7821861 433.0006847 399.0516019 292.0510523 340.2777139 338.8454222 194.8121376 1.061603217 0.422648458 1.244808302 1.235971173 2.222657634 2.048391886 1.499141973 1.74669668 1.739344511 1 7.605939756 -5.931005257 4.772096814 0.997999734 1.862078884 0.517527523 0.355415398 0.08719025 3.84464873 0.040067345 0.073659775 1.17E-06 5.931005257 0.86407915 (ac)MGDPNS(ph)RK ddPTM_HeLa_SAHA_4h_R1 1 MGDPNSRK 8 1 Q9GZU0 Q9GZU0 C6orf62 Uncharacterized protein C6orf62 1 0 MGDPNS(1)RK 42.474 0.0084837 0 901.48 1122.7 1476.8 2443 864.22 1280.3 1350.8 1963.9 1959.2 1239.9 TRUE FALSE FALSE 996.3018025 1159.076217 1678.050613 2490.287798 798.0036503 1171.211237 1198.804429 1913.666282 1945.565768 1293.358157 0.77032166 0.89617575 1.297436912 1.9254433 0.617001289 0.905558318 0.926892851 1.479610479 1.504274556 1 10.33690613 -6.779933414 23.23356526 0.888857809 1.174123827 0 0.390107683 162.826886 204554.3023 0.055749062 0.073367652 1.66E-07 6.779933414 0.285266018 (ac)MGPRGAASLPR ddPTM_HeLa_SAHA_4h_R1 2 MGPRGAASLPR 11 1 E5RHC4;A0A2U3U034;P15848-2;P15848 E5RHC4 ARSB Arylsulfatase B 0 0 ; ; 70.816 0.011807 28830900 2894 2906 3487.4 3336.5 3517.8 2626.8 3714.7 2394.9 1911.98 2501.2 FALSE FALSE TRUE 3198.404198 3000.156307 3962.64471 3401.082782 3248.266924 2402.981862 3296.712179 2333.641926 1898.674376 2609.038973 1.225893607 1.149908583 1.51881392 1.303576841 1.245005137 0.921021835 1.263573375 0.894445024 0.727729404 1 11.34930278 -2.620475192 13.86238786 1.146203418 0.645925594 0 0.224519865 0 0 0.024953787 0 0.00239621 2.620475192 -0.500277824 (ac)MHRDS(ph)CPLDCK ddPTM_HeLa_SAHA_4h_R1 4 MHRDSCPLDCK 11 1 P84103;P84103-2;A0A087X2D0 P84103 SRSF3 Serine/arginine-rich splicing factor 3 1 0 MHRDS(1)CPLDCK;MHRDS(1)CPLDCK;MHRDS(1)CPLDCK;MHRDS(1)CPLDCK ;;; 68.515 0.0060505 35973800 6222.52 6422.22 6866.13 7452.1 8063.87 7419.6 7871.25 7577.18 7564.61 6663.94 TRUE FALSE FALSE 6877.033204 6630.304142 7801.810439 7596.346171 7446.018023 6787.408338 6985.556234 7383.366707 7511.967263 6951.255066 0.989322524 0.953828349 1.122359972 1.092802105 1.071176061 0.976429188 1.004934529 1.062163111 1.080663447 1 12.76305777 -6.78287925 24.99990275 0.991732266 1.05158807 0.166681648 0.049444751 218.174231 254400.7392 0.007007604 0.0092145 1.65E-07 6.78287925 0.059855804 (ac)MLLSPKFSLS(ph)TIHIR ddPTM_HeLa_SAHA_4h_R1 1 MLLSPKFSLSTIHIR 15 1 Q9ULD2-3 Q9ULD2-3 MTUS1 Microtubule-associated tumor suppressor 1 1 0 MLLSPKFS(0.185)LS(0.687)T(0.128)IHIR 52.5 0.0080982 0 321.66 259.29 352.52 398.88 502.46 529.46 542.19 467.66 802.83 698.11 TRUE FALSE FALSE 355.4936746 267.6911661 400.5595898 406.6008992 463.9616234 484.3470293 481.1813542 455.6979344 797.2430407 728.2089386 0.488175379 0.367602143 0.550061347 0.558357468 0.637127064 0.665120961 0.660773754 0.6257791 1.094799855 1 9.508208639 -9.27032777 0.999027068 1.000025439 0.567322923 0.797732077 0.094721854 0.222584604 0.398301887 0.067975654 0.018470381 5.37E-10 9.27032777 -0.432702516 (ac)MLTDSGGGGTS(ph)FEEDLDSVAPR ddPTM_HeLa_SAHA_4h_R1 1 MLTDSGGGGTSFEEDLDSVAPR 22 0 Q8IWZ3;Q8IWZ3-4;Q8IWZ3-6;D6RHC4;E9PDP5;Q8IWZ3-5;Q8IWZ3-3;Q8IWZ3-2 Q8IWZ3 ANKHD1 Ankyrin repeat and KH domain-containing protein 1 1 0 MLTDSGGGGT(0.207)S(0.793)FEEDLDSVAPR 119.38 2.24E-08 1017500 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)MNLLPNIES(ph)PVTR ddPTM_HeLa_SAHA_4h_R1 2 MNLLPNIESPVTR 13 0 E9PM69;P17980 E9PM69 PSMC3 26S protease regulatory subunit 6A 1 0 MNLLPNIES(0.964)PVT(0.036)R;MNLLPNIES(0.851)PVT(0.149)R ; 97.203 0.0040328 7248000 72.488 0 0 0 63.826 373.72 59.648 0 0 0 TRUE FALSE FALSE 80.11262043 0 0 0 58.93566567 341.8769535 52.93625006 0 0 0 0 (ac)MNTAPS(ph)RPSPTR ddPTM_HeLa_SAHA_4h_R1 2 MNTAPSRPSPTR 12 1 Q9HCD5 Q9HCD5 NCOA5 Nuclear receptor coactivator 5 1 0 MNT(0.001)APS(0.539)RPS(0.344)PT(0.116)R;MNT(0.003)APS(0.577)RPS(0.33)PT(0.09)R ; 75.102 6.48E-05 6929600 1197.14 1133.23 903.5 1115.17 1114.65 1392.84 1184.56 953.99 1272.81 804.77 TRUE FALSE FALSE 1323.060678 1169.947396 1026.624275 1136.755728 1029.245758 1274.162196 1051.270191 929.5883172 1263.952412 839.4675731 1.576071215 1.393677889 1.22294691 1.354138938 1.226069703 1.517821816 1.252305896 1.107354646 1.505659601 1 9.713330788 -9.584563933 1.39075086 1.001193852 1.363824987 0 0.206115291 0.314135629 1.095382555 0.105087277 0.024825396 2.60E-10 9.584563933 0.362631134 (ac)MNTAPSRPS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 8 MNTAPSRPSPTR 12 1 Q9HCD5 Q9HCD5 NCOA5 Nuclear receptor coactivator 5 1 0 MNTAPS(0.02)RPS(0.778)PT(0.202)R;MNTAPS(0.012)RPS(0.782)PT(0.206)R;MNTAPS(0.013)RPS(0.808)PT(0.178)R;MNTAPS(0.046)RPS(0.768)PT(0.186)R;MNTAPS(0.027)RPS(0.849)PT(0.124)R;MNTAPS(0.09)RPS(0.667)PT(0.243)R;MNTAPS(0.003)RPS(0.924)PT(0.073)R;MNTAPS(0.006)RPS(0.766)PT(0.228)R ;;;;;;; 95.183 0.00015894 156749700 3554.455 2192.35 4263.69 4520.48 2668.99 2473.54 2567.158 2837.11 3856.65 3535.64 TRUE FALSE FALSE 3928.328885 2263.383578 4844.723469 4607.980427 2464.492563 2262.780476 2278.294625 2764.540834 3829.811259 3688.078743 1.065142357 0.613702618 1.313617145 1.249425717 0.668232089 0.61353909 0.617745657 0.749588343 1.038429905 1 11.84865374 -5.731858209 20.48464808 1.033960543 0.655611228 0.528369876 0.177648601 17.68315134 12244.52968 0.025241341 0.050462906 1.85E-06 5.731858209 -0.378349315 (ac)MNVDHEVNLLVEEIHR ddPTM_HeLa_SAHA_4h_R1 5 MNVDHEVNLLVEEIHR 16 0 Q5SZC9;Q9P1F3 Q5SZC9 ABRACL Costars family protein ABRACL 0 0 ;;;; ;;;; 96.435 1.64E-15 10395660 55.242 153.26 142.41 105.16 220.65 145.86 102.92 104.52 108.99 137.86 FALSE FALSE TRUE 61.05260702 158.2257246 161.8168932 107.1955239 203.7438447 133.4319074 91.33917073 101.8465297 108.2315297 143.8038193 0.424554837 1.10028875 1.125261443 0.745428907 1.416818035 0.927874573 0.635165124 0.70823244 0.752633207 1 7.167958182 -7.231389329 24.98702951 0.728261934 0.954913675 0.143343771 0.252564311 1183.266743 983903.7827 0.05031671 0.061620739 5.87E-08 7.231389329 0.226651741 (ac)MNVT(ph)PEVK ddPTM_HeLa_SAHA_4h_R1 1 MNVTPEVK 8 0 Q5T3I0;F8W895;A0A0A0MRK1;E9PPY4;F2Z3C6 Q5T3I0 GPATCH4 G patch domain-containing protein 4 1 0 MNVT(1)PEVK 47.706 0.0065479 0 1269.8 1380.2 955.23 1388 1418.7 1715.5 1356.6 1351.1 1429 1427.5 TRUE FALSE FALSE 1403.36339 1424.919386 1085.40377 1414.866747 1309.999512 1569.329749 1203.951798 1316.540818 1419.055473 1489.046511 0.942457727 0.956934102 0.728925364 0.950183044 0.879757283 1.05391587 0.808538745 0.884150232 0.95299607 1 10.5401731 -7.723134363 1.108427479 0.984673006 0.893388622 0.138532996 0.082944803 0.52348927 1.340084974 0.018981192 0.017959729 1.89E-08 7.723134363 -0.091284383 (ac)MQNDAGEFVDLYVPR ddPTM_HeLa_SAHA_4h_R1 4 MQNDAGEFVDLYVPR 15 0 Q8WVC2;P63220;Q9BYK2;Q9BYK1 Q8WVC2 RPS21 40S ribosomal protein S21 0 0 ;;; ;;; 134.98 0.00026345 7861140 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 (ac)MQSNK(ac)TFNLEK ddPTM_HeLa_SAHA_4h_R1 1 MQSNKTFNLEK 11 1 Q15233;C9JYS8;C9IZL7;C9J4X2;C9JJ13 Q15233 NONO Non-POU domain-containing octamer-binding protein 0 1 MQSNK(1)TFNLEK 61.419 1.56E-11 1073300 471.28 504.72 461.94 353.2 693.67 748.72 535.31 537.63 231.74 333.22 FALSE TRUE FALSE 520.8513927 521.0732592 524.8907775 360.0366967 640.5211545 684.9248438 475.0755099 523.8782031 230.1273025 347.5867449 1.49847887 1.499117175 1.510100098 1.035818258 1.842766342 1.970514854 1.366782586 1.507186942 0.662071572 1 8.441229256 -10.65255185 0.2585004 0.322021174 1.613676812 0.529211165 0.256893831 8.117197661 0.389599192 3.427925727 0.16472264 2.23E-11 10.65255185 1.291655638 (ac)MQT(ph)PVNIPVPVLR ddPTM_HeLa_SAHA_4h_R1 1 MQTPVNIPVPVLR 13 0 Q9H840 Q9H840 GEMIN7 Gem-associated protein 7 1 0 MQT(1)PVNIPVPVLR 111.63 0.00077546 898780 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)MRASRS(ph)PPSPRR ddPTM_HeLa_SAHA_4h_R1 1 MRASRSPPSPRR 12 3 H3BNZ7;Q9H693 H3BNZ7 C16orf95 Uncharacterized protein C16orf95 1 0 MRAS(0.05)RS(0.935)PPS(0.014)PRR 58.04 0.015107 1101600 668.27 1087 611.93 509.47 1282.3 1595.9 1958.6 1178.7 1077.7 761.44 TRUE FALSE FALSE 738.5617047 1122.219513 695.3206336 519.3315286 1184.050451 1459.920342 1738.213173 1148.550561 1070.200198 794.2694048 0.929862966 1.412895305 0.875421651 0.653848084 1.49074161 1.838066949 2.188442816 1.446046585 1.347402017 1 9.633484622 -5.541588529 4.242943308 0.976497367 1.841997421 0.629987705 0.270190947 0.076212588 3.217570826 0.033760769 0.07243275 2.87E-06 5.541588529 0.865500054 (ac)MS(ph)ELTK ddPTM_HeLa_SAHA_4h_R1 1 MSELTK 6 0 Q9H8M7-2;Q9H8M7 Q9H8M7-2 FAM188A Protein FAM188A 1 0 MS(0.993)ELT(0.007)K 60.404 0.0031191 2659300 0 0 0 121.01 0 146.01 134.82 0 102.92 0 TRUE FALSE FALSE 0 0 0 123.3523235 0 133.5691266 119.6496988 0 102.2037713 0 0 (ac)MS(ph)PTPPLFSLPEAR ddPTM_HeLa_SAHA_4h_R1 2 MSPTPPLFSLPEAR 14 0 A0A087WWS1;Q96FV9;J3KRD7;J3QQZ3;J3KT14;Q96FV9-2 A0A087WWS1 THOC1 THO complex subunit 1 1 0 MS(0.872)PT(0.128)PPLFSLPEAR;MS(0.587)PT(0.413)PPLFSLPEAR ; 96.604 0.0054287 2946600 0 335.11 339.34 187.52 419.68 552.41 251.91 369.28 375.13 330.14 TRUE FALSE FALSE 0 345.9677839 385.583488 191.1497208 387.5242091 505.3415602 223.5644238 359.8343523 372.5194398 344.3739511 0 1.004628204 1.119665082 0.555064401 1.125300586 1.467420978 0.649190867 1.044894224 1.081729436 1 8.427832209 -7.123467981 19.37570393 0.526391232 0.993026364 0.071470541 0.371656194 3.89026409 594.2005519 0.071436125 0.087491277 7.53E-08 7.123467981 0.466635132 (ac)MST(ph)MRLLT(ph)LALLFSCS(ph)VAR ddPTM_HeLa_SAHA_4h_R1 1 MSTMRLLTLALLFSCSVAR 19 1 A2AVK2;Q5VSF9;Q05586-2;Q05586-3;Q05586-7;Q05586-4;Q05586;Q05586-6;Q05586-5 A2AVK2 GRIN1 "Glutamate receptor ionotropic, NMDA 1" 3 0 MS(0.47)T(0.532)MRLLT(0.959)LALLFS(0.167)CS(0.873)VAR 40.097 0.0085519 0 252.6 342.98 50.1 117.95 156.56 342.73 186.99 154.33 180.08 162.98 TRUE FALSE FALSE 279.169627 354.092777 56.92736709 120.2330928 144.5644066 313.5274759 165.9493931 150.3824621 178.8268086 170.0068654 1.64210796 2.082814575 0.334853342 0.707224926 0.850344522 1.844204792 0.97613348 0.884566995 1.051879924 1 7.409449198 -6.754070557 24.99985897 1.37015968 0.962267976 0.224365015 0.455567723 265.8752378 902018.9952 0.078465744 0.10968667 1.76E-07 6.754070557 -0.407891704 (ac)MSVIAGEAVAS(ph)VRT(ph)LDDK ddPTM_HeLa_SAHA_4h_R1 1 MSVIAGEAVASVRTLDDK 18 1 Q08EI0 Q08EI0 AOF1 2 0 MS(0.001)VIAGEAVAS(0.999)VRT(1)LDDK 45.357 0.0086515 0 270.26 338.95 272.22 175.48 427.01 566.38 348.18 366.8 357.31 302 TRUE FALSE FALSE 298.6871868 349.9322024 309.3167239 178.8766691 394.2925861 518.1212376 309.00187 357.4177871 354.8234506 315.020698 0.948150991 1.110822891 0.981893336 0.567825131 1.251640253 1.644721255 0.980893865 1.134585091 1.126349643 1 8.299302812 -5.579003227 24.99989487 0.959210247 1.263160412 0.320621872 0.211707253 70.36930137 31344.75228 0.028765412 0.05753083 2.64E-06 5.579003227 0.303950164 (ac)MTGGRAQS(ph)IGRR ddPTM_HeLa_SAHA_4h_R1 1 MTGGRAQSIGRR 12 2 G3V5N7;P01100-2 G3V5N7 FOS 1 0 MTGGRAQS(1)IGRR 59.864 0.015334 1516000 1220.2 1098.7 1593.1 2513.6 1102.5 1145.5 1641.2 1804.5 1082.7 1209.6 TRUE FALSE FALSE 1348.546234 1134.298601 1810.199371 2562.254363 1018.026688 1047.896956 1456.527857 1758.343503 1075.165403 1261.751776 1.068788854 0.898987125 1.434671547 2.030711914 0.806835947 0.830509595 1.154369572 1.393573234 0.852121173 1 10.3012124 -6.76848151 24.99729364 1.023379023 1.26247466 0.171876463 0.330200792 294.1166784 1044018.815 0.054375797 0.072321701 1.70E-07 6.76848151 0.239095637 (ac)MVNPTVFFDIAVDGEPLGR ddPTM_HeLa_SAHA_4h_R1 1 MVNPTVFFDIAVDGEPLGR 19 0 P62937;F8WE65;C9J5S7;E5RIZ5 P62937 PPIA "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed;Peptidyl-prolyl cis-trans isomerase" 0 0 104.09 0.0014857 10496000 164.31 58.222 131.66 127.64 0 186.84 128.14 0 140.08 0 FALSE FALSE TRUE 181.5928797 60.108431 149.6019391 130.1106568 0 170.9201809 113.72135 0 139.1051719 0 0 (ac)MVS(ph)RRPLS(ph)TPGR ddPTM_HeLa_SAHA_4h_R1 1 MVSRRPLSTPGR 12 2 O75791-2 O75791-2 2 0 MVS(0.999)RRPLS(0.5)T(0.5)PGR 42.336 0.017801 17481000 265.53 268.44 112.9 272.96 308.34 343.71 274.84 272.59 226.49 196.98 TRUE FALSE FALSE 293.4596637 277.1376321 128.285424 278.2435355 284.7150558 314.4239743 243.9142799 265.6175425 224.9138376 205.4727718 1.428216795 1.348780326 0.624342695 1.354162564 1.38565832 1.530246424 1.187088088 1.292714067 1.094616263 1 7.682803418 -9.544296216 1.306242677 0.999824068 1.283202725 0.118946591 0.23498434 0.673194237 2.05558548 0.168509382 0.039906204 2.86E-10 9.544296216 0.283378657 (ac)PCSEETPAIS(ph)PSKR ddPTM_HeLa_SAHA_4h_R1 1 PCSEETPAISPSKR 14 1 P33316-2;H0YNJ9 P33316-2 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 1 0 PCSEET(0.113)PAIS(0.771)PS(0.115)KR 98 1.23E-05 2885300 724.63 1008.3 776.08 849.86 1092.9 1069.3 1133.7 705.54 1258.8 736.75 TRUE FALSE FALSE 800.8499081 1040.969582 881.8401407 866.3102692 1009.162238 978.1896243 1006.133092 687.4933084 1250.039908 768.5148981 1.042074669 1.354521017 1.147460047 1.127252408 1.313132954 1.27283105 1.309191396 0.89457382 1.626565616 1 9.585929417 -7.420457035 8.09971885 1.018459159 1.208645577 0 0.229258133 0.24087749 17.18907358 0.020080206 0.022899077 3.80E-08 7.420457035 0.190186418 GPLATGGIK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 GPLATGGIKK 10 1 Q9Y2S6;A0A024R1R8 Q9Y2S6 TMA7;hCG_2014768 Translation machinery-associated protein 7 0 1 ; GPLATGGIK(1)K;GPLATGGIK(1)K 103.55 0.003936 11777100 4220.4 5428.2 4932.1 6753.7 7646.1 5477.9 8691.2 6808.2 2801.4 3042.4 FALSE TRUE FALSE 4664.321036 5604.077242 5604.220903 6884.42763 7060.25747 5011.152102 7713.243302 6634.056102 2781.904829 3173.572753 1.469738178 1.765857498 1.765902766 2.16929882 2.224703203 1.579025437 2.430460526 2.090406182 0.876584545 1 11.6318922 -7.41742605 0.460414906 1.009807383 2.181914941 0.797490374 0.221012364 0.268483671 0.144728611 0.100803326 0.10298565 3.82E-08 7.41742605 1.172107558 DYSSGFGGK(ac)YGVQADRVDK ddPTM_HeLa_SAHA_4h_R1 2 DYSSGFGGKYGVQADRVDK 19 2 Q14247;Q14247-3;Q14247-2 Q14247 CTTN Src substrate cortactin 0 1 ; DYSSGFGGK(1)YGVQADRVDK;DYSSGFGGK(1)YGVQADRVDK 186.17 6.19E-21 4716800 441.31 865.43 972.86 1278.07 1315.17 1361.55 1258.14 1101.03 365.04 321.05 FALSE TRUE FALSE 487.7290106 893.4704998 1105.436294 1302.808893 1214.401959 1245.53828 1116.570776 1072.867247 362.4996569 334.8920367 1.456376853 2.667935937 3.300873635 3.89023551 3.626249136 3.719223343 3.334121608 3.203621255 1.082437374 1 8.387552261 -7.118483254 1.646449392 1.167102504 3.564642876 0.96502931 0.199459787 0.047569891 0.247834785 0.042544658 0.053388009 7.61E-08 7.118483254 2.397540372 up (ac)RFKS(ph)HT(ph)VELRR ddPTM_HeLa_SAHA_4h_R1 1 RFKSHTVELRR 11 3 O14791-2 O14791-2 2 0 RFKS(1)HT(1)VELRR 46.159 0.017549 21447000 850.97 458.3 843.25 885.09 844.9 810.41 964.59 745.5 752.05 798.99 TRUE FALSE FALSE 940.478929 473.1492207 958.1637185 902.2221968 780.1639445 741.3585088 856.0517945 726.4311895 746.8164228 833.4383691 1.128432484 0.567707509 1.149651557 1.082530191 0.936078747 0.889518093 1.027132691 0.871607567 0.896066765 1 9.702931709 (ac)S(ph)AADEVDGLGVARPHYGSVLDNER ddPTM_HeLa_SAHA_4h_R1 1 SAADEVDGLGVARPHYGSVLDNER 24 1 P46940;H0YLE8;A0A0J9YXZ5 P46940 IQGAP1 Ras GTPase-activating-like protein IQGAP1 1 0 S(1)AADEVDGLGVARPHYGSVLDNER 78.419 1.07E-05 7039500 0 0 0 0 0 0 0 62.293 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 60.69963526 0 0 0 (ac)S(ph)DAAVDTSSEITTK ddPTM_HeLa_SAHA_4h_R1 6 SDAAVDTSSEITTK 14 0 B8ZZQ6;P06454-2;P06454 B8ZZQ6 PTMA "Prothymosin alpha;Prothymosin alpha, N-terminally processed;Thymosin alpha-1" 1 0 S(1)DAAVDTSSEITTK;S(1)DAAVDTSSEITTK;S(0.999)DAAVDT(0.001)SSEITTK;S(1)DAAVDTSSEITTK;S(1)DAAVDTSSEITTK;S(1)DAAVDTSSEITTK ;;;;; 136.49 1.64E-08 493422800 12318.66 14272.96 12076.98 13486.56 13591.04 15586.3 14927.99 14412.53 13559.59 14115.38 TRUE FALSE FALSE 13614.39318 14735.41327 13722.76794 13747.61187 12549.69745 14258.25955 13248.25328 14043.87835 13465.22771 14723.96311 0.924641897 1.000777655 0.932002331 0.933689644 0.852331492 0.968371046 0.899774957 0.953811025 0.914511101 1 13.84587842 -6.568469105 10.27092385 0.966180193 0.920495241 0.170130324 0.039227242 0.504646684 110.7323204 0.006203871 0.00877915 2.70E-07 6.568469105 -0.045684952 (ac)S(ph)DEFSLADALPEHSPAK ddPTM_HeLa_SAHA_4h_R1 6 SDEFSLADALPEHSPAK 17 0 Q8NDC0 Q8NDC0 MAPK1IP1L MAPK-interacting and spindle-stabilizing protein-like 1 0 S(0.999)DEFS(0.001)LADALPEHSPAK;S(0.341)DEFS(0.341)LADALPEHS(0.319)PAK;S(0.866)DEFS(0.134)LADALPEHSPAK;S(0.959)DEFS(0.01)LADALPEHS(0.031)PAK;S(0.64)DEFS(0.36)LADALPEHSPAK;S(0.994)DEFS(0.006)LADALPEHSPAK ;;;;; 163.46 2.77E-59 1317075000 13920.13 14288.64 13814.2 14826.1 14322.41 12161.77 13255.27 10810.57 14848.35 14804.63 TRUE FALSE FALSE 15384.31314 14751.60131 15696.72723 15113.0806 13225.03004 11125.51878 11763.75213 10534.05127 14745.01912 15442.93005 0.996204288 0.955233318 1.016434523 0.978640747 0.856380881 0.720427972 0.761756486 0.682127759 0.954807091 1 13.91465889 -5.531131107 2.094129557 0.996108328 0.720933123 0.949135594 0.027173611 0.03712211 0.323064797 0.003282111 0.008238479 2.94E-06 5.531131107 -0.275175205 (ac)S(ph)DFDEFER ddPTM_HeLa_SAHA_4h_R1 1 SDFDEFER 8 0 P26368;P26368-2 P26368 U2AF2 Splicing factor U2AF 65 kDa subunit 1 0 S(1)DFDEFER 127.12 9.16E-09 469570000 0 53.626 54.766 144.91 0 0 0 154.07 0 105.75 TRUE FALSE FALSE 0 55.36351759 62.22922527 147.7149426 0 0 0 150.1291125 0 110.3094 0 0.501893017 0.564133476 1.339096601 0 0 0 1.360982042 0 1 6.785411925 -9.618343042 1.443796839 0.998451963 0.390719776 0 0.586155972 0.607897945 2.284755503 0.351993681 0.081586899 2.41E-10 9.618343042 -0.607732187 (ac)S(ph)DKPDMAEIEKFDK ddPTM_HeLa_SAHA_4h_R1 4 SDKPDMAEIEKFDK 14 2 P62328 P62328 TMSB4X Thymosin beta-4;Hematopoietic system regulatory peptide 1 0 S(1)DKPDMAEIEKFDK;S(1)DKPDMAEIEKFDK;S(1)DKPDMAEIEKFDK;S(1)DKPDMAEIEKFDK ;;; 75.483 0.00046789 917644000 18469.3 18095.6 18864.1 20208.4 20152.2 22632.8 23018.9 20628.3 20400.3 19065.6 TRUE FALSE FALSE 20411.98571 18681.90931 21434.80131 20599.5628 18608.14279 20704.35811 20428.75279 20100.65796 20258.33265 19887.61132 1.026366887 0.939374217 1.077796673 1.035798743 0.935665047 1.041068119 1.027209978 1.01071253 1.018640817 1 14.27958239 (ac)S(ph)DNDDIEVES(ph)DADKR ddPTM_HeLa_SAHA_4h_R1 4 SDNDDIEVESDADKR 15 1 A0A494C130;Q6V3B1;G3V563;G3V2R5;P61244-2 A0A494C130 MAX Protein max 2 0 S(1)DNDDIEVES(1)DADKR;S(1)DNDDIEVES(1)DADKR;S(1)DNDDIEVES(1)DADKR;S(1)DNDDIEVES(1)DADKR ;;; 106.38 7.23E-05 46938800 5231.73 5480.42 4864.38 4716.23 4530.32 5599.31 4881.91 4496.17 5519.83 4965.17 TRUE FALSE FALSE 5782.027365 5657.989204 5527.272374 4807.519451 4183.20786 5122.217287 4332.584638 4381.164482 5481.417054 5179.242778 1.116384694 1.092435602 1.067197004 0.928228248 0.807687154 0.988989609 0.836528586 0.845908305 1.058343331 1 12.33852547 -6.152096244 3.770011945 1.060673854 0.875211516 0.757438057 0.053058477 0.10773269 2.767374223 0.009374526 0.015985047 7.05E-07 6.152096244 -0.185462338 (ac)S(ph)DNDDIEVES(ph)DEEQPR ddPTM_HeLa_SAHA_4h_R1 2 SDNDDIEVESDEEQPR 16 0 G3V5L1;P61244-6;P61244-5;P61244-3;P61244-4;P61244 G3V5L1 MAX Protein max 2 0 S(1)DNDDIEVES(1)DEEQPR;S(1)DNDDIEVES(1)DEEQPR ; 179.66 2.46E-36 18769300 0 0 0 57.981 0 66.664 0 69.366 0 0 TRUE FALSE FALSE 0 0 0 59.1033061 0 60.98385216 0 67.59171816 0 0 0 (ac)S(ph)DNDDIEVESDADKR ddPTM_HeLa_SAHA_4h_R1 2 SDNDDIEVESDADKR 15 1 A0A494C130;Q6V3B1;G3V563;G3V2R5;P61244-2 A0A494C130 MAX Protein max 1 0 S(1)DNDDIEVESDADKR;S(1)DNDDIEVESDADKR ; 124.67 9.79E-06 322270000 1981.35 2196.82 2517.04 2666.79 2475.12 2839.44 2546.12 2965.57 2251.81 2101.14 TRUE FALSE FALSE 2189.757484 2267.998409 2860.049103 2718.409577 2285.47684 2597.503738 2259.623877 2889.715013 2236.139471 2191.730428 0.999099823 1.034798067 1.304927406 1.240302887 1.042772784 1.185138329 1.030977098 1.318462789 1.020262092 1 11.09785465 -6.932870777 9.119644833 1.000475956 1.175669389 0.472539883 0.089645962 0.199196574 25.15262551 0.013663511 0.01796754 1.17E-07 6.932870777 0.175193433 (ac)S(ph)DNGELEDKPPAPPVR ddPTM_HeLa_SAHA_4h_R1 3 SDNGELEDKPPAPPVR 16 1 Q13177 Q13177 PAK2 Serine/threonine-protein kinase PAK 2;PAK-2p27;PAK-2p34 1 0 S(1)DNGELEDKPPAPPVR;S(1)DNGELEDKPPAPPVR;S(1)DNGELEDKPPAPPVR ;; 62.799 0.0011544 167852800 3940.14 4387.26 3789.95 3918.75 4359.78 4676.87 4605.6 3961.13 4068.43 4317.88 TRUE FALSE FALSE 4354.582003 4529.410103 4306.424649 3994.603073 4025.734598 4278.374365 4087.365767 3859.81003 4040.117464 4504.044938 0.966815843 1.005631641 0.956123819 0.886892366 0.89380427 0.949896021 0.907487786 0.856965258 0.896997592 1 12.13700551 -6.441469872 4.027340689 0.98542562 0.902353815 0.415136624 0.03676421 0.094621708 2.858199014 0.003948514 0.006064 3.62E-07 6.441469872 -0.083071805 (ac)S(ph)DQDHSMDEMTAVVK ddPTM_HeLa_SAHA_4h_R1 6 SDQDHSMDEMTAVVK 15 0 P08047;H3BUU5;P08047-3 P08047 SP1 Transcription factor Sp1 1 0 S(0.499)DQDHS(0.499)MDEMT(0.002)AVVK;S(0.5)DQDHS(0.5)MDEMT(0.001)AVVK;S(0.999)DQDHS(0.001)MDEMTAVVK;S(0.978)DQDHS(0.022)MDEMTAVVK;S(0.861)DQDHS(0.139)MDEMTAVVK;S(0.976)DQDHS(0.024)MDEMTAVVK ;;;;; 110.86 1.55E-33 68947400 7957.81 8487.7 7812.05 7807.36 9700.35 10902.11 10231.98 10391.6 8686.03 8522.67 TRUE FALSE FALSE 8794.848968 8762.707049 8876.635491 7958.482742 8957.111279 9973.188894 9080.650681 10125.79792 8625.58321 8890.124013 0.989283047 0.985667583 0.998482752 0.895204919 1.00753502 1.121827871 1.021431272 1.138994001 0.970243294 1 13.11798783 -5.386565045 5.698686445 0.98681917 1.086136216 0.616649834 0.041631702 0.123436246 5.227296615 0.005562883 0.01259529 4.11E-06 5.386565045 0.099317046 (ac)S(ph)DQEAKPSTEDLGDK ddPTM_HeLa_SAHA_4h_R1 1 SDQEAKPSTEDLGDK 15 1 B8ZZJ0;B9A032;B8ZZN6;P63165 B8ZZJ0 SUMO1 Small ubiquitin-related modifier 1 1 0 S(0.997)DQEAKPS(0.002)T(0.001)EDLGDK 69.216 0.0019459 23764000 2074.2 2516.7 1796.7 1994.8 2244.3 2904.2 2305.5 2092.2 3267.1 2339.3 TRUE FALSE FALSE 2292.373873 2598.242731 2041.544919 2033.412239 2072.342219 2656.745821 2046.079072 2038.684553 3244.363985 2440.158671 0.939436398 1.064784336 0.836644331 0.833311482 0.849265354 1.088759454 0.83850247 0.835472126 1.32957091 1 11.25275925 -6.745746125 24.99917618 0.977605214 0.884350204 0.225528475 0.136317437 264.6950665 421655.2578 0.012543326 0.017703827 1.80E-07 6.745746125 -0.093255009 (ac)S(ph)DQEAKPSTEDLGDKK ddPTM_HeLa_SAHA_4h_R1 4 SDQEAKPSTEDLGDKK 16 2 B8ZZJ0;B9A032;B8ZZN6;P63165 B8ZZJ0 SUMO1 Small ubiquitin-related modifier 1 1 0 S(0.999)DQEAKPS(0.001)TEDLGDKK;S(0.999)DQEAKPSTEDLGDKK;S(1)DQEAKPSTEDLGDKK;S(0.998)DQEAKPS(0.001)T(0.001)EDLGDKK ;;; 69.352 0.0021251 253830000 8304.49 13395.7 7362.8 9608.2 10676.9 12773.5 9988.5 9233.1 11865.4 8898 TRUE FALSE FALSE 9177.994361 13829.72947 8366.16404 9794.180605 9858.838229 11685.12594 8864.567692 8996.930671 11782.82772 9281.636326 0.988833654 1.490009841 0.901367361 1.055221327 1.062187516 1.258951065 0.955065183 0.96932592 1.269477418 1 13.18016346 (ac)S(ph)DQEAKPSTEDLGDKKEGEYIK ddPTM_HeLa_SAHA_4h_R1 3 SDQEAKPSTEDLGDKKEGEYIK 22 3 B8ZZJ0;B9A032;B8ZZN6;P63165 B8ZZJ0 SUMO1 Small ubiquitin-related modifier 1 1 0 S(0.983)DQEAKPS(0.009)T(0.009)EDLGDKKEGEYIK;S(1)DQEAKPSTEDLGDKKEGEYIK;S(0.49)DQEAKPS(0.255)T(0.255)EDLGDKKEGEYIK ;; 110.44 1.56E-05 571250000 8771.6 5937.6 8012.9 7194.7 7783.2 7742 8727.6 9871 4785.6 6573.8 TRUE FALSE FALSE 9694.237134 6129.982136 9104.856283 7333.963822 7186.852897 7082.338045 7745.547478 9618.514113 4752.29662 6857.228689 1.413725219 0.893944538 1.327774921 1.069523003 1.048069595 1.032828037 1.129544868 1.402682417 0.693034582 1 12.74340992 -7.269517513 24.95475021 1.195370229 1.127724712 0 0.229609585 2258.317654 6976328.18 0.033596498 0.038771239 5.38E-08 7.269517513 -0.067645516 (ac)S(ph)DSGEQNYGER ddPTM_HeLa_SAHA_4h_R1 1 SDSGEQNYGER 11 0 P62995;P62995-2 P62995 TRA2B Transformer-2 protein homolog beta 1 0 S(0.996)DS(0.004)GEQNYGER 147.2 9.82E-07 69400000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)S(ph)DTAVADTR ddPTM_HeLa_SAHA_4h_R1 1 SDTAVADTR 9 0 A0A087X0R6;Q9UMY4-3;Q9UMY4;Q9UMY4-1 A0A087X0R6 SNX12 Sorting nexin-12 1 0 S(1)DTAVADTR 78.149 0.0021766 4064600 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)S(ph)DVEENNFEGR ddPTM_HeLa_SAHA_4h_R1 2 SDVEENNFEGR 11 0 Q13595;F8WEH2 Q13595 TRA2A Transformer-2 protein homolog alpha 1 0 S(1)DVEENNFEGR;S(1)DVEENNFEGR ; 115.71 0.000762 22577000 995.34 1075.54 1173.18 1254.8 1170.76 2201.4 1291.54 1110.76 1425.75 1360.95 TRUE FALSE FALSE 1100.034428 1110.388202 1333.054861 1279.088468 1081.056622 2013.828335 1146.21252 1082.348368 1415.82809 1419.627215 0.774875556 0.782168861 0.939017544 0.901003063 0.761507395 1.418561376 0.807403879 0.762417314 0.997323857 1 10.47129642 (ac)S(ph)DVEENNFEGRES(ph)R ddPTM_HeLa_SAHA_4h_R1 2 SDVEENNFEGRESR 14 1 Q13595 Q13595 TRA2A Transformer-2 protein homolog alpha 2 0 S(1)DVEENNFEGRES(1)R;S(1)DVEENNFEGRES(1)R ; 103.79 0.0042975 99213000 108.36 0 0 0 120.43 134.71 177.85 147.57 63.469 0 TRUE FALSE FALSE 119.757802 0 0 0 111.2026794 123.2319501 157.8378499 143.7953731 63.02731406 0 0 (ac)S(ph)EGESQTVLSSGSDPK ddPTM_HeLa_SAHA_4h_R1 4 SEGESQTVLSSGSDPK 16 0 F8W6G1;Q9UHY1;C9JDW7;C9JHZ6 F8W6G1 NRBP1 Nuclear receptor-binding protein 1 0 S(0.969)EGES(0.031)QTVLSSGSDPK;S(0.808)EGES(0.189)QT(0.002)VLSSGSDPK;S(0.831)EGES(0.169)QTVLSSGSDPK;S(0.917)EGES(0.083)QTVLSSGSDPK ;;; 118.87 8.72E-12 42394100 9630 11862 10070.5 9764.6 12042.9 13797.8 12837.4 11692.3 12386.9 10121.5 TRUE FALSE FALSE 10642.92758 12246.33658 11442.8553 9953.607953 11120.1756 12622.14982 11392.90197 11393.2279 12300.69855 10557.8874 1.008054659 1.159923015 1.083820547 0.942765117 1.053257644 1.19551851 1.079089172 1.079120042 1.165071959 1 13.36603356 -6.834709385 0.346592046 0.989055849 1.112463358 0 0.084926161 1.608098128 0.49815726 0.044210048 0.07598918 1.46E-07 6.834709385 0.123407509 (ac)S(ph)EKSVEAAAELSAK ddPTM_HeLa_SAHA_4h_R1 4 SEKSVEAAAELSAK 14 1 P20962;F5H7R9;F5GXR3 P20962 PTMS Parathymosin 1 0 S(0.98)EKS(0.02)VEAAAELSAK;S(0.5)EKS(0.5)VEAAAELSAK;S(0.811)EKS(0.189)VEAAAELSAK;S(0.956)EKS(0.044)VEAAAELSAK ;;; 79.036 7.09E-06 240207800 7695.97 6789.69 8358.56 7298.41 7597 8153.61 9314.95 9139.5 6368.99 6594.04 TRUE FALSE FALSE 8505.467435 7009.680411 9497.621027 7439.681279 7014.919501 7458.876557 8266.80731 8905.724824 6324.66768 6878.341335 1.236557917 1.019094585 1.380801063 1.081609783 1.019856265 1.084400467 1.201860581 1.294748892 0.919504772 1 12.747845 -9.489529423 1.188362026 0.998490046 1.166542846 0.318930188 0.11560954 0.579466556 1.442833577 0.080889602 0.018991393 3.24E-10 9.489529423 0.1680528 (ac)S(ph)ESGHSQPGLYGIER ddPTM_HeLa_SAHA_4h_R1 2 SESGHSQPGLYGIER 15 0 Q9H0W8-2;Q9H0W8;M0QZH1;M0QX70;M0QYR7;M0R2N0;M0QZC7 Q9H0W8-2 SMG9 Protein SMG9 1 0 S(0.943)ES(0.057)GHSQPGLYGIER;S(0.906)ES(0.092)GHS(0.003)QPGLYGIER ; 124.12 2.71E-13 16820300 157.83 353.39 216.13 303.69 295.88 380.7 400.05 374.32 137.17 240.02 TRUE FALSE FALSE 174.4312835 364.8400679 245.5830708 309.5683591 273.2097383 348.2622182 355.0353211 364.7454364 136.2154228 250.3684368 0.696698377 1.457212708 0.980886704 1.23645122 1.091230755 1.390998892 1.418051435 1.456834739 0.544059884 1 7.967908887 -6.02158481 0.600416192 0.871390402 1.465244321 0.532845643 0.210437719 0.560306844 0.365041181 0.046367802 0.158753465 9.52E-07 6.02158481 0.593853919 (ac)S(ph)ESSSKSSQPLASKQEK ddPTM_HeLa_SAHA_4h_R1 1 SESSSKSSQPLASKQEK 17 2 P17096;P17096-2;P17096-3;A0A669KAX1 P17096 HMGA1 High mobility group protein HMG-I/HMG-Y 1 0 S(0.537)ES(0.101)S(0.09)S(0.09)KS(0.09)S(0.09)QPLASKQEK 42.913 0.0171 8173400 1960.5 1171.4 2031.8 1711.3 1751.3 1676 2150.6 2585.6 1037.5 1793.7 TRUE FALSE FALSE 2166.714385 1209.354129 2308.683123 1744.424686 1617.115772 1533.195371 1908.608828 2519.464096 1030.279953 1871.035185 1.158029738 0.646355631 1.233906845 0.93233131 0.864289344 0.819436953 1.02008174 1.34656158 0.550647022 1 10.86962097 (ac)S(ph)ETAPAAPAAAPPAEK ddPTM_HeLa_SAHA_4h_R1 2 SETAPAAPAAAPPAEK 16 0 P16403 P16403 HIST1H1C Histone H1.2 1 0 S(0.5)ET(0.5)APAAPAAAPPAEK;S(0.5)ET(0.5)APAAPAAAPPAEK ; 73.082 9.46E-05 24424000 5355.6 6817.4 5042.3 3817.7 7461.5 6841.7 7399.4 6123.3 5051.5 5783.9 TRUE FALSE FALSE 5918.92658 7038.288233 5729.438385 3891.597104 6889.801482 6258.74867 6566.800038 5966.674852 5016.3462 6033.272235 0.98104749 1.166578924 0.949640288 0.645022627 1.141967611 1.037372163 1.088430918 0.988961648 0.831447017 1 12.55872497 (ac)S(ph)ETAPAAPAAAPPAEKAPVK ddPTM_HeLa_SAHA_4h_R1 4 SETAPAAPAAAPPAEKAPVK 20 1 P16403 P16403 HIST1H1C Histone H1.2 1 0 S(0.5)ET(0.5)APAAPAAAPPAEKAPVK;S(0.5)ET(0.5)APAAPAAAPPAEKAPVK;S(0.5)ET(0.5)APAAPAAAPPAEKAPVK;S(0.5)ET(0.5)APAAPAAAPPAEKAPVK ;;; 92.935 5.68E-06 67370300 8095.63 5865.56 8976.2 4458.92 8406 6427.32 9150.7 9213 3220.59 7216.51 TRUE FALSE FALSE 8947.165507 6055.607993 10199.42979 4545.228844 7761.934096 5879.676177 8121.039153 8977.3448 3198.177652 7527.649063 1.188573675 0.804448765 1.35492897 0.603804562 1.031123267 0.781077349 1.078828076 1.1925828 0.424857432 1 12.87798366 -6.279184658 24.99867835 1.083566076 0.941848664 0 0.288647446 1407.45627 1982751.819 0.029409954 0.044983152 5.26E-07 6.279184658 -0.141717412 (ac)S(ph)ETAPAAPAAAPPAEKAPVKK ddPTM_HeLa_SAHA_4h_R1 3 SETAPAAPAAAPPAEKAPVKK 21 2 P16403 P16403 HIST1H1C Histone H1.2 1 0 S(0.5)ET(0.5)APAAPAAAPPAEKAPVKK;S(0.5)ET(0.5)APAAPAAAPPAEKAPVKK;S(0.5)ET(0.5)APAAPAAAPPAEKAPVKK ;; 82.01 1.20E-05 15189100 4024.26 3059.37 4651.7 2222.38 3932.12 3537.67 4402.01 5154.2 1473.93 3546.52 TRUE FALSE FALSE 4447.550131 3158.495595 5285.609451 2265.397379 3630.841815 3236.240614 3906.684249 5022.363027 1463.672801 3699.427833 1.202226488 0.853779486 1.428764038 0.612364258 0.981460371 0.874794903 1.056023911 1.357605352 0.395648426 1 11.85308644 -7.293464421 24.86975915 1.095495821 1.017222368 0 0.31768194 2229.79394 1731590.288 0.037913718 0.043358491 5.09E-08 7.293464421 -0.078273453 (ac)S(ph)ETAPAAPAAPAPAEKTPVK ddPTM_HeLa_SAHA_4h_R1 8 SETAPAAPAAPAPAEKTPVK 20 1 P10412 P10412 HIST1H1E Histone H1.4 1 0 S(0.5)ET(0.5)APAAPAAPAPAEKT(0.001)PVK;S(0.5)ET(0.5)APAAPAAPAPAEKTPVK;S(0.5)ET(0.5)APAAPAAPAPAEKTPVK;S(0.5)ET(0.5)APAAPAAPAPAEKTPVK;S(0.5)ET(0.5)APAAPAAPAPAEKTPVK;S(0.5)ET(0.5)APAAPAAPAPAEKTPVK;S(0.493)ET(0.493)APAAPAAPAPAEKT(0.015)PVK;S(0.5)ET(0.5)APAAPAAPAPAEKTPVK ;;;;;;; 144.15 1.96E-08 1410413900 19518.97 18741.9 20033.44 11298.02 22560.73 18808.04 24644.2 22685.09 12260.04 18261.24 TRUE FALSE FALSE 21572.06482 19349.14986 22763.49287 11516.70951 20832.13174 17205.48918 21871.16976 22104.83825 12174.72138 19048.57142 1.132476779 1.015779579 1.195023625 0.60459702 1.093632235 0.90324302 1.148179003 1.160445986 0.639140916 1 14.21739518 (ac)S(ph)ETAPAAPAAPAPAEKTPVKK ddPTM_HeLa_SAHA_4h_R1 1 SETAPAAPAAPAPAEKTPVKK 21 2 P10412 P10412 HIST1H1E Histone H1.4 1 0 S(0.41)ET(0.41)APAAPAAPAPAEKT(0.18)PVKK 53.188 0.00054984 157230000 3792 3947 4417 2269.7 4809.4 3955.3 5644.9 4618.6 2604.1 3708.8 TRUE FALSE FALSE 4190.859958 4074.88539 5018.925757 2313.633326 4440.904811 3618.286188 5009.720995 4500.4629 2585.977856 3868.704518 1.083272175 1.053294551 1.297314316 0.598038262 1.147904884 0.935270753 1.294935028 1.163299724 0.668435091 1 11.91763483 -4.756318336 24.99703718 1.030194989 1.229117403 0.156444161 0.206100737 148.2007568 723378.2689 0.021505605 0.075824859 1.75E-05 4.756318336 0.198922413 (ac)S(ph)ETAPAETATPAPVEK ddPTM_HeLa_SAHA_4h_R1 3 SETAPAETATPAPVEK 16 0 P16401 P16401 HIST1H1B Histone H1.5 1 0 S(0.925)ET(0.075)APAETATPAPVEK;S(0.922)ET(0.078)APAETATPAPVEK;S(0.982)ET(0.018)APAETATPAPVEK ;; 140.27 9.90E-05 28367100 8076.9 9378.9 7967.3 5210.02 9882.2 8954.3 10228.4 9620.4 5573.01 7579.6 TRUE FALSE FALSE 8926.4654 9682.782514 9053.042152 5310.867471 9125.027971 8191.343264 9077.473512 9374.324098 5534.22697 7906.39365 1.129018589 1.224677513 1.145028006 0.671718068 1.154132766 1.036040403 1.148118082 1.185663719 0.699968559 1 12.94880407 -4.642645943 4.152710984 1.057375688 1.178044611 0.060358824 0.181830224 0.41145881 12.34977119 0.01978258 0.083825998 2.28E-05 4.642645943 0.120668924 (ac)S(ph)ETAPAETATPAPVEKSPAK ddPTM_HeLa_SAHA_4h_R1 7 SETAPAETATPAPVEKSPAK 20 1 P16401 P16401 HIST1H1B Histone H1.5 1 0 S(0.634)ET(0.217)APAET(0.043)AT(0.002)PAPVEKS(0.104)PAK;S(0.828)ET(0.169)APAET(0.002)ATPAPVEKSPAK;S(0.884)ET(0.111)APAET(0.004)ATPAPVEKSPAK;S(0.564)ET(0.087)APAET(0.05)AT(0.024)PAPVEKS(0.275)PAK;S(0.966)ET(0.021)APAET(0.003)AT(0.002)PAPVEKS(0.008)PAK;S(0.639)ET(0.171)APAET(0.005)AT(0.019)PAPVEKS(0.167)PAK;S(0.93)ET(0.041)APAET(0.024)AT(0.004)PAPVEKS(0.001)PAK ;;;;;; 145.69 1.94E-09 3384283800 20655.5 33940.4 21457.3 11896.14 23142 21810.9 27286.7 24528.5 13813.29 18485.5 TRUE FALSE FALSE 22828.14026 35040.09123 24381.3891 12126.40699 21368.86496 19952.48862 24216.3287 23901.09649 13717.16219 19282.50037 1.183878637 1.81719645 1.26443089 0.62888146 1.108199899 1.034745922 1.255870776 1.239522677 0.711378811 1 14.23500452 -8.929584675 1.221016651 1.016975266 1.184633991 0.129401902 0.291130966 1.068453512 3.15838523 0.113514086 0.052600168 1.18E-09 8.929584675 0.167658724 (ac)S(ph)ETAPLAPTIPAPAEK ddPTM_HeLa_SAHA_4h_R1 2 SETAPLAPTIPAPAEK 16 0 P16402 P16402 HIST1H1D Histone H1.3 1 0 S(0.498)ET(0.498)APLAPT(0.004)IPAPAEK;S(0.5)ET(0.5)APLAPTIPAPAEK ; 75.479 0.00046553 6576600 3283 4063.4 3387.7 2136.36 4693.7 4013.3 4345.1 3869.5 3217.3 3691.6 TRUE FALSE FALSE 3628.321003 4195.056826 3849.358114 2177.712337 4334.06972 3671.344262 3856.177912 3770.523793 3194.910547 3850.762942 0.94223432 1.089409265 0.999635182 0.565527499 1.125509356 0.953406979 1.001406207 0.979162792 0.82968248 1 11.9109286 (ac)S(ph)FEGGDGAGPAMLATGTAR ddPTM_HeLa_SAHA_4h_R1 2 SFEGGDGAGPAMLATGTAR 19 0 Q96B36-3 Q96B36-3 AKT1S1 Proline-rich AKT1 substrate 1 1 0 S(1)FEGGDGAGPAMLATGTAR;S(1)FEGGDGAGPAMLATGTAR ; 205.12 2.10E-52 8469700 147.99 124.08 0 288.05 163.66 131.81 202.64 129.71 96.766 136.15 TRUE FALSE FALSE 163.5562672 128.1002734 0 293.6256243 151.1204062 120.5790465 179.8384139 126.392206 96.09259753 142.0200928 1.151641743 0.901986972 0 2.067493539 1.064077647 0.849028078 1.266288525 0.88996003 0.676612694 1 7.149951244 -6.24020536 24.9976141 0.984943049 1.199440784 0.121566765 0.457706509 2165.71803 2549578.831 0.065774948 0.109006835 5.75E-07 6.24020536 0.214497735 (ac)S(ph)FLFSSR ddPTM_HeLa_SAHA_4h_R1 1 SFLFSSR 7 0 Q9H8S9-2;Q9H8S9 Q9H8S9-2 MOB1A MOB kinase activator 1A 1 0 S(1)FLFSSR 76.035 0.0054796 2527700 0 0 0 0 0 0 55.578 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 49.32421717 0 0 0 0 (ac)S(ph)GDEMIFDPTMSK ddPTM_HeLa_SAHA_4h_R1 16 SGDEMIFDPTMSK 13 0 P20042 P20042 EIF2S2 Eukaryotic translation initiation factor 2 subunit 2 1 0 S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK;S(0.993)GDEMIFDPT(0.006)MSK;S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK ;;;;;;;;;;;;;;; 118.23 9.47E-05 823943200 67703.69 68594.4 58550.52 67632.59 75429.97 84601.22 78999.14 75254.49 76141.79 70649.25 TRUE FALSE FALSE 74825.07475 70816.90357 66529.47995 68941.71658 69650.54199 77392.7201 70109.94885 73329.58911 75611.91308 73695.28492 1.015330558 0.960942123 0.902764404 0.935496981 0.945115309 1.050171937 0.95134918 0.995037731 1.026007473 1 16.1692847 -7.255462339 23.25076231 1.007239431 0.961828104 0.274618396 0.037348878 201.2417216 782831.6446 0.006345671 0.007650209 5.55E-08 7.255462339 -0.045411327 (ac)S(ph)GDEMIFDPTMSKK ddPTM_HeLa_SAHA_4h_R1 12 SGDEMIFDPTMSKK 14 1 P20042 P20042 EIF2S2 Eukaryotic translation initiation factor 2 subunit 2 1 0 S(1)GDEMIFDPTMSKK;S(1)GDEMIFDPTMSKK;S(1)GDEMIFDPTMSKK;S(1)GDEMIFDPTMSKK;S(1)GDEMIFDPTMSKK;S(1)GDEMIFDPTMSKK;S(1)GDEMIFDPTMSKK;S(1)GDEMIFDPTMSKK;S(1)GDEMIFDPTMSKK;S(1)GDEMIFDPTMSKK;S(1)GDEMIFDPTMSKK;S(1)GDEMIFDPTMSKK ;;;;;;;;;;; 90.653 0.00070307 994609100 32867.28 26102.08 27937.7 29605.77 31873.9 33545.7 35227.2 34584.7 23849.23 29996.5 TRUE FALSE FALSE 36324.41131 26947.80452 31744.90426 30178.83249 29431.72867 30687.41764 31263.34274 33700.07345 23683.26127 31289.79591 1.160902788 0.861232991 1.014544945 0.964494386 0.94061747 0.980748411 0.999154575 1.077030785 0.756900471 1 14.93340463 -7.272857657 24.9976899 1.075981869 0.977424246 0 0.118996955 736.0686341 1611449.732 0.012989436 0.014925922 5.34E-08 7.272857657 -0.098557623 (ac)S(ph)GEDEQQEQTIAEDLVVTK ddPTM_HeLa_SAHA_4h_R1 16 SGEDEQQEQTIAEDLVVTK 19 0 Q9UQ80;F8VR77 Q9UQ80 PA2G4 Proliferation-associated protein 2G4 1 0 S(1)GEDEQQEQTIAEDLVVTK;S(1)GEDEQQEQTIAEDLVVTK;S(0.99)GEDEQQEQT(0.01)IAEDLVVTK;S(1)GEDEQQEQTIAEDLVVTK;S(1)GEDEQQEQTIAEDLVVTK;S(1)GEDEQQEQTIAEDLVVTK;S(1)GEDEQQEQTIAEDLVVTK;S(0.999)GEDEQQEQT(0.001)IAEDLVVTK;S(1)GEDEQQEQTIAEDLVVTK;S(1)GEDEQQEQTIAEDLVVTK;S(0.996)GEDEQQEQT(0.004)IAEDLVVTK;S(1)GEDEQQEQTIAEDLVVTK;S(1)GEDEQQEQTIAEDLVVTK;S(1)GEDEQQEQTIAEDLVVTK;S(1)GEDEQQEQTIAEDLVVTK;S(1)GEDEQQEQTIAEDLVVTK ;;;;;;;;;;;;;;; 169.62 7.04E-64 557238600 24436.492 30220.005 26371.71 28247.62 30827.17 36494.39 34734.91 32265.88 33533.04 30778.383 TRUE FALSE FALSE 27006.83435 31199.15299 29965.5093 28794.39353 28465.19889 33384.86266 30826.44651 31440.56551 33299.68084 32105.38972 0.841193164 0.971773066 0.93334825 0.896871017 0.886617454 1.039852279 0.960164221 0.979292442 1.037199085 1 14.97052789 -5.268535537 24.99542729 0.923255743 0.989809105 0.124085888 0.057961265 691.4808093 2435668.351 0.008990827 0.020518077 5.39E-06 5.268535537 0.066553362 (ac)S(ph)GGGVIRGPAGNNDCR ddPTM_HeLa_SAHA_4h_R1 1 SGGGVIRGPAGNNDCR 16 1 J3KTL2;Q07955;Q07955-3;Q07955-2;J3QQV5;J3KSW7 J3KTL2 SRSF1 Serine/arginine-rich splicing factor 1 1 0 S(1)GGGVIRGPAGNNDCR 59.709 0.00031594 14572000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)S(ph)GGKYVDSEGHLYTVPIR ddPTM_HeLa_SAHA_4h_R1 2 SGGKYVDSEGHLYTVPIR 18 1 Q03135 Q03135 CAV1 Caveolin-1 1 0 S(0.499)GGKY(0.499)VDS(0.001)EGHLYTVPIR;S(0.888)GGKY(0.112)VDSEGHLYTVPIR ; 86.455 0.00083696 15925400 1208.63 1821.66 1081.56 1307.01 1677.82 1676.86 1691.3 1228.32 906.31 1425.07 TRUE FALSE FALSE 1335.759249 1880.682979 1228.949364 1332.309069 1549.265794 1533.982094 1500.990473 1196.901353 900.0029149 1486.511742 0.89858641 1.265165236 0.826733708 0.896265419 1.042215645 1.031934058 1.009740072 0.805174503 0.60544622 1 10.53771514 (ac)S(ph)KGPAVGIDLGTTYSCVGVFQHGK ddPTM_HeLa_SAHA_4h_R1 1 SKGPAVGIDLGTTYSCVGVFQHGK 24 1 P11142;E9PKE3;P11142-2;E9PNE6;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;E9PN25;E9PI65 P11142 HSPA8 Heat shock cognate 71 kDa protein 1 0 S(0.964)KGPAVGIDLGT(0.03)T(0.005)Y(0.001)S(0.001)CVGVFQHGK 68.88 7.15E-06 3592900 1052.7 1442.7 1313.4 1750.2 1461 1734 1750.5 1424.2 1595.8 1527.4 TRUE FALSE FALSE 1163.427816 1489.444427 1492.383312 1784.077652 1349.058496 1586.253445 1553.529133 1387.771026 1584.694698 1593.253689 0.730221323 0.934844486 0.936689067 1.11976998 0.846731757 0.995606322 0.975067024 0.871029539 0.99462798 1 10.63776029 -7.016802626 24.13068801 0.870495482 0.960141261 0.00546067 0.10008578 788.5077403 1132397.029 0.019431395 0.024138486 9.62E-08 7.016802626 0.089645778 (ac)S(ph)KS(ph)ESPKEPEQLR ddPTM_HeLa_SAHA_4h_R1 1 SKSESPKEPEQLR 13 2 F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8W646 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 2 0 S(0.667)KS(0.667)ES(0.667)PKEPEQLR 85.807 0.0021155 4944100 2451.2 1715.8 1957.3 2149.6 2246.5 2362.1 1790.7 2029.7 2122.9 1898.5 TRUE FALSE FALSE 2709.028463 1771.393046 2224.030651 2191.208616 2074.373655 2160.835791 1589.205723 1977.783213 2108.126566 1980.353626 1.367951878 0.894483199 1.123047228 1.106473403 1.047476384 1.091136332 0.80248583 0.998702043 1.064520265 1 10.95154236 -5.224915747 0.781618421 1.154152531 0.885389648 0.115025739 0.133738288 1.157330308 1.026624111 0.028549084 0.204153631 5.96E-06 5.224915747 -0.268762883 (ac)S(ph)KSES(ph)PKEPEQLR ddPTM_HeLa_SAHA_4h_R1 1 SKSESPKEPEQLR 13 2 F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8W646 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 2 0 S(0.751)KS(0.251)ES(0.997)PKEPEQLR 67.646 0.010179 22084000 7133.2 7247.3 7010.9 6912.5 7035.5 7614.4 6432.5 6949.2 8337.2 7831 TRUE FALSE FALSE 7883.502704 7482.117275 7966.308941 7046.301433 6496.44151 6965.610283 5708.698171 6771.449526 8279.180746 8168.632734 0.965094522 0.915957115 0.975231621 0.862604754 0.795291173 0.852726583 0.698856021 0.828957519 1.013533233 1 12.9958789 -6.029115704 0.754846333 0.986296179 0.763751509 0.787221842 0.044317065 0.202964329 0.219409221 0.007742899 0.023032737 9.35E-07 6.029115704 -0.22254467 (ac)S(ph)KSESPKEPEQLR ddPTM_HeLa_SAHA_4h_R1 7 SKSESPKEPEQLR 13 2 F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8W646 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 S(0.65)KS(0.315)ES(0.035)PKEPEQLR;S(0.772)KS(0.228)ESPKEPEQLR;S(0.469)KS(0.469)ES(0.062)PKEPEQLR;S(0.998)KS(0.002)ESPKEPEQLR;S(0.5)KS(0.5)ES(0.001)PKEPEQLR;S(0.972)KS(0.028)ESPKEPEQLR;S(0.447)KS(0.447)ES(0.105)PKEPEQLR ;;;;;; 139.15 1.83E-10 691459200 21584.24 13091.86 20091.85 19501.06 18453.31 17930.01 21967.47 26301.17 10749.06 17019.67 TRUE FALSE FALSE 23854.5694 13516.04485 22829.86268 19878.53122 17039.42137 16402.27228 19495.63246 25628.42416 10674.25642 17753.47127 1.343656631 0.761318429 1.285937963 1.119698279 0.959779703 0.923890997 1.098130736 1.443572571 0.601248976 1 14.11581352 (ac)S(ph)LDIQSLDIQCEELSDAR ddPTM_HeLa_SAHA_4h_R1 2 SLDIQSLDIQCEELSDAR 18 0 P13489;E9PMA9;E9PMN0;E9PIK5;E9PMJ3;E9PLZ3;E9PIM9;E9PR82;E9PMI1 P13489 RNH1 Ribonuclease inhibitor 1 0 S(1)LDIQSLDIQCEELSDAR;S(0.614)LDIQS(0.386)LDIQCEELSDAR ; 141.38 5.17E-09 3225600 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)S(ph)LSHLYR ddPTM_HeLa_SAHA_4h_R1 2 SLSHLYR 7 0 Q9UBB9;F6XM96;F6SQZ1;F6UKU9;F6UQ07 Q9UBB9 TFIP11 Tuftelin-interacting protein 11 1 0 S(1)LSHLYR;S(1)LSHLYR ; 76.592 0.014598 2906300 750.96 1448.23 819.86 790.82 971.31 1129.74 864.12 670.89 1223.17 1072.23 TRUE FALSE FALSE 829.9494183 1495.153602 931.5862512 806.1274646 896.8884376 1033.479796 766.8869434 653.7296052 1214.65786 1118.459083 0.742047189 1.336797765 0.832919385 0.720748284 0.801896512 0.924021104 0.685663835 0.584491302 1.0860101 1 10.12729676 -6.524489311 24.99511061 0.917546643 0.755785583 0.307859479 0.175404066 78.00252427 1210547 0.028721068 0.040788555 2.99E-07 6.524489311 -0.161761061 (ac)S(ph)LYPSLEDLKVDK ddPTM_HeLa_SAHA_4h_R1 2 SLYPSLEDLKVDK 13 1 B4DHN5;E9PBU7;O00560-2;O00560 B4DHN5 SDCBP Syntenin-1 1 0 S(0.587)LY(0.41)PS(0.003)LEDLKVDK;S(0.598)LY(0.401)PS(0.001)LEDLKVDK ; 112.13 5.47E-05 11613500 1083.6 1278.28 904.09 1471.5 3834.1 1395.77 2591.6 3529.8 2407.17 1479.94 TRUE FALSE FALSE 1197.57802 1319.697111 1027.294677 1499.98301 3540.332086 1276.842544 2299.986347 3439.512827 2390.418308 1543.747456 0.77576032 0.854865934 0.665455138 0.971650515 2.293336305 0.827105845 1.489872154 2.228028175 1.548451658 1 10.59222104 -5.962645242 21.7294894 0.869926511 1.631066025 0.384228257 0.446034924 27.00069722 15705.86489 0.05437085 0.098554896 1.09E-06 5.962645242 0.761139514 (ac)S(ph)QGDSNPAAIPHAAEDIQGDDR ddPTM_HeLa_SAHA_4h_R1 2 SQGDSNPAAIPHAAEDIQGDDR 22 0 P68402-3;P68402-2;P68402-4;P68402 P68402-3 PAFAH1B2 Platelet-activating factor acetylhydrolase IB subunit beta 1 0 S(0.5)QGDS(0.5)NPAAIPHAAEDIQGDDR;S(0.5)QGDS(0.5)NPAAIPHAAEDIQGDDR ; 95.428 5.01E-08 17377800 59.781 147.97 349.595 132.95 98.471 156.8 323.91 162.76 254.35 210.72 TRUE FALSE FALSE 66.06903987 152.7643251 397.235986 135.5234395 90.92617325 143.4397579 287.4627943 158.5968349 252.5799576 219.8051704 0.300580008 0.694998779 1.807218571 0.616561654 0.413667127 0.652576814 1.307807245 0.721533686 1.149108354 1 7.780081513 -6.967444045 24.99876973 0.660668623 0.918788282 0 0.433623493 431.5348987 331362.2107 0.073077761 0.096042638 1.08E-07 6.967444045 0.258119659 (ac)S(ph)QKQEEENPAEETGEEK ddPTM_HeLa_SAHA_4h_R1 2 SQKQEEENPAEETGEEK 17 1 O43768;O43768-3;A0A1W2PRU0;A6NMQ3;Q5T5H1;O43768-2;O43768-9;O43768-4;O43768-8 O43768 ENSA Alpha-endosulfine 1 0 S(1)QKQEEENPAEETGEEK;S(1)QKQEEENPAEETGEEK ; 140.45 8.12E-13 14890300 2494.72 3626.9 2732.6 2976 3350 3726.1 3159.8 3431.3 5181.6 3029.2 TRUE FALSE FALSE 2757.126096 3744.41394 3104.984497 3033.604783 3093.323724 3408.615318 2804.250988 3343.532314 5145.540824 3159.803637 0.872562479 1.185014757 0.982651093 0.960061172 0.978960746 1.078742767 0.887476347 1.0581456 1.628436895 1 11.62561919 (ac)S(ph)QKQEEENPAEETGEEKQDTQEK ddPTM_HeLa_SAHA_4h_R1 3 SQKQEEENPAEETGEEKQDTQEK 23 2 O43768;O43768-3;A0A1W2PRU0;A6NMQ3;Q5T5H1;O43768-2;O43768-9;O43768-4;O43768-8 O43768 ENSA Alpha-endosulfine 1 0 S(0.957)QKQEEENPAEET(0.043)GEEKQDTQEK;S(1)QKQEEENPAEETGEEKQDTQEK;S(0.994)QKQEEENPAEET(0.006)GEEKQDTQEK ;; 106.39 6.10E-06 112196000 1861.45 2057.73 1910.1 1909.96 2172.1 2868.34 2202.12 2461.96 2932.99 1752.92 TRUE FALSE FALSE 2057.245852 2124.401802 2170.398481 1946.930038 2005.674167 2623.941295 1954.331662 2398.986628 2912.579084 1828.49696 1.125102145 1.161829551 1.186985009 1.064770727 1.096897732 1.435026337 1.068818655 1.311999244 1.592881557 1 10.83644251 -10.37679333 0.031928664 2.73E-08 2.021062435 0 0.211680587 367.3704823 1.924639752 75.47801661 48.62743922 4.20E-11 10.37679333 2.021062408 (ac)S(ph)RHEGVSCDACLK ddPTM_HeLa_SAHA_4h_R1 1 SRHEGVSCDACLK 13 1 Q9P0J7 Q9P0J7 KCMF1 E3 ubiquitin-protein ligase KCMF1 1 0 S(1)RHEGVSCDACLK 83.397 0.00014697 9431700 499.93 612.08 396.9 639.85 599.8 801.93 567.8 844.8 538.9 457.9 TRUE FALSE FALSE 552.5149312 631.9117936 450.987465 652.235222 553.8434536 733.6010525 503.9096496 823.1912393 535.149751 477.6423099 1.156754583 1.322981194 0.944194967 1.365530667 1.159536 1.535879543 1.054993746 1.723447069 1.120398549 1 8.899786827 -1 0.179406979 0.993994895 3.1307639 0.367268266 0.186704158 39.95217912 0.432969753 0.21136271 23.39234442 0.1 1 2.136769005 (ac)S(ph)RLSWGYR ddPTM_HeLa_SAHA_4h_R1 3 SRLSWGYR 8 1 Q8N1Q1 Q8N1Q1 CA13 Carbonic anhydrase 13 1 0 S(0.999)RLS(0.001)WGYR;S(0.998)RLS(0.002)WGYR;S(0.998)RLS(0.002)WGYR ;; 83.377 0.0088137 43086400 444.05 381.52 347.73 650.873 386.55 549.21 492.64 815.12 535.371 456.513 TRUE FALSE FALSE 490.7572164 393.8814983 395.1168335 663.4715881 356.9326225 502.4142182 437.2068506 794.2704107 531.6453096 476.1955096 1.030579261 0.827142404 0.82973658 1.393275608 0.749550584 1.055058706 0.918124682 1.667950232 1.116443349 1 8.895410206 -4.25741398 24.90142016 0.995397601 1.667950509 0.578784662 0.173188519 185.2436435 1145882.539 0.020837615 0.21243297 5.53E-05 4.25741398 0.672552908 (ac)S(ph)RPSSVSPR ddPTM_HeLa_SAHA_4h_R1 1 SRPSSVSPR 9 1 Q9H6S0;D6RF50;D6RA70 Q9H6S0 YTHDC2 Probable ATP-dependent RNA helicase YTHDC2 1 0 S(0.959)RPS(0.019)S(0.019)VS(0.004)PR 52.403 0.006491 0 573.37 585.83 345.46 502.26 736.59 664.07 566.12 713.11 541.17 610.01 TRUE FALSE FALSE 633.6796873 604.8112764 392.5374897 511.9819686 680.1526333 607.4875 502.4186877 694.8696788 537.4039539 636.3105164 0.995865495 0.950497062 0.616896122 0.804610258 1.068900507 0.954702907 0.78958099 1.092029223 0.844562427 1 9.313587155 -6.993146591 24.99864616 0.996738856 0.881889515 0.004898525 0.138678444 254.4265725 928046.4219 0.020899621 0.02743402 1.02E-07 6.993146591 -0.114849341 (ac)S(ph)S(ph)PASTPSRR ddPTM_HeLa_SAHA_4h_R1 1 SSPASTPSRR 10 1 A0A3B3ITP6;A0A3B3IT92;P33991;A0A3B3IS57;E5RFR3;E5RG53;A0A3B3IS88 A0A3B3ITP6 MCM4 DNA replication licensing factor MCM4 2 0 S(0.757)S(0.938)PAS(0.292)T(0.01)PS(0.003)RR 63.534 0.0097967 4031600 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)S(ph)SAPTTPPSVDKVDGFSR ddPTM_HeLa_SAHA_4h_R1 1 SSAPTTPPSVDKVDGFSR 18 1 Q16537-2;Q16537 Q16537-2 PPP2R5E Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform 1 0 S(0.468)S(0.468)APT(0.032)T(0.031)PPSVDKVDGFSR 94.547 0.00046518 18446000 612.31 575.42 577.23 623.64 403.25 681 513.99 552.89 403 549.19 TRUE FALSE FALSE 676.7155752 594.0639855 655.8918983 635.711454 372.3530721 622.9749688 456.1544925 538.7478744 400.1954902 572.8682686 1.181276067 1.036999286 1.144926215 1.109699191 0.64998027 1.087466357 0.796264198 0.940439371 0.698582051 1 9.162059618 -5.848637065 25 1.089996359 0.878943922 0.119728935 0.16804036 14.97292225 4289.719793 0.016678991 0.030233248 1.42E-06 5.848637065 -0.211052438 (ac)S(ph)SDASQGVITTPPPPSMPHK ddPTM_HeLa_SAHA_4h_R1 1 SSDASQGVITTPPPPSMPHK 20 0 Q9UEY8-2;Q9UEY8 Q9UEY8-2 ADD3 Gamma-adducin 1 0 S(0.263)S(0.263)DAS(0.263)QGVIT(0.019)T(0.191)PPPPSMPHK 69.108 5.31E-05 0 460.88 610.91 441.95 456.95 552.14 574.4 347.4 531.58 545.76 508.57 TRUE FALSE FALSE 509.357473 630.7038848 502.1766444 465.794928 509.8351525 525.4578885 308.3096377 517.9829533 541.9620117 530.4969416 0.960151573 1.188892594 0.946615532 0.878035087 0.961052011 0.990501259 0.581171376 0.976410819 1.021611944 1 9.051200624 -4.819464958 24.99946476 0.984868302 0.778789529 0.35055628 0.116360917 51.60579055 22233.37993 0.014587771 0.043763359 1.52E-05 4.819464958 -0.206078773 (ac)S(ph)SILPFTPPVVKR ddPTM_HeLa_SAHA_4h_R1 1 SSILPFTPPVVKR 13 1 Q15796;B7Z5N5;Q15796-2;K7EL92;K7ERC7;K7EJX0;K7ESI8 Q15796 SMAD2 Mothers against decapentaplegic homolog 2;Mothers against decapentaplegic homolog 1 0 S(0.5)S(0.5)ILPFTPPVVKR 106.18 0.0014453 52648000 2245.3 1643.3 2200.8 2028.2 2163.3 2061.9 2265 2610.5 1387.2 2210.7 TRUE FALSE FALSE 2481.470956 1696.543998 2500.713563 2067.458744 1997.548421 1886.21452 2010.136239 2543.72719 1377.546362 2306.014096 1.076086638 0.735704088 1.084431169 0.896550783 0.866234263 0.817954462 0.871692954 1.103083973 0.59737118 1 11.17118562 (ac)S(ph)SPAST(ph)PSRR ddPTM_HeLa_SAHA_4h_R1 1 SSPASTPSRR 10 1 A0A3B3ITP6;A0A3B3IT92;P33991;A0A3B3IS57;E5RFR3;E5RG53;A0A3B3IS88 A0A3B3ITP6 MCM4 DNA replication licensing factor MCM4 2 0 S(0.851)S(0.149)PAS(0.182)T(0.718)PS(0.1)RR 70.438 0.014481 2485700 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)S(ph)SPPEGKLETK ddPTM_HeLa_SAHA_4h_R1 2 SSPPEGKLETK 11 1 P51397;B4DQ75 P51397 DAP Death-associated protein 1 1 0 S(0.5)S(0.5)PPEGKLETK;S(0.5)S(0.5)PPEGKLETK ; 72.29 0.014383 1984100000 8069.9 6355.4 8706.4 7418.7 7995.4 7739.8 9808.3 9721.6 4895.1 6666.7 TRUE FALSE FALSE 8918.729108 6561.31913 9892.862851 7562.299666 7382.794179 7080.325497 8704.64427 9472.935549 4861.034601 6954.134063 1.282507502 0.943513466 1.422587307 1.087453822 1.061641049 1.018146247 1.25172224 1.362202032 0.699013645 1 12.76365516 -9.563443579 1.317480443 0.9993118 1.183733538 0.283920805 0.175696947 0.620622129 1.918819697 0.102491288 0.023724165 2.73E-10 9.563443579 0.184421738 (ac)S(ph)SSAGSGHQPSQSR ddPTM_HeLa_SAHA_4h_R1 1 SSSAGSGHQPSQSR 14 0 Q13542 Q13542 EIF4EBP2 Eukaryotic translation initiation factor 4E-binding protein 2 1 0 S(0.467)S(0.467)S(0.066)AGSGHQPSQSR 97.911 1.84E-08 137160 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)S(ph)STQFNKGPSYGLSAEVK ddPTM_HeLa_SAHA_4h_R1 1 SSTQFNKGPSYGLSAEVK 18 1 A0A087X271;H3BVI6;B4DDF4;B4DUT8;Q99439;K7ES69;Q99439-2 A0A087X271 CNN2 Calponin;Calponin-2 1 0 S(0.333)S(0.333)T(0.333)QFNKGPSYGLSAEVK 53.377 0.0019517 0 659.8 526.1 427.22 572.4 408.67 442.75 731.19 560.66 460.41 489.1 TRUE FALSE FALSE 729.2007913 543.1459852 485.4393167 583.4796297 377.3577929 405.0252092 648.9145768 546.319129 457.2059693 510.1874946 1.429280018 1.064600742 0.951491994 1.143657255 0.73964532 0.793875219 1.271913921 1.070820306 0.896152834 1 8.994883727 -7.012722658 23.95100211 1.205043191 0.994974825 0 0.199954331 465.8170741 876924.3141 0.035322028 0.044439885 9.71E-08 7.012722658 -0.210068366 (ac)S(ph)TEAQRVDDSPSTSGGSSDGDQR ddPTM_HeLa_SAHA_4h_R1 1 STEAQRVDDSPSTSGGSSDGDQR 23 1 C9J180;Q96LR5;F8WF15;F8W8F0 C9J180 UBE2E2 Ubiquitin-conjugating enzyme E2 E2 1 0 S(0.333)T(0.333)EAQRVDDS(0.05)PS(0.018)T(0.007)S(0.244)GGS(0.011)S(0.004)DGDQR 100.11 8.51E-15 3399300 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)S(ph)TGGDFGNPLRK ddPTM_HeLa_SAHA_4h_R1 1 STGGDFGNPLRK 12 1 F5H3K7;F5GX61;P20340-3;P20340-2;P20340 F5H3K7 RAB6A Ras-related protein Rab-6A 1 0 S(0.5)T(0.5)GGDFGNPLRK 67.897 0.014247 4526700 1205.2 1530.9 1264.6 1479.6 1679.2 1701.6 1456.6 1534.1 1410.9 1414 TRUE FALSE FALSE 1331.968466 1580.502164 1436.933102 1508.239798 1550.540059 1556.614107 1292.699534 1494.859943 1401.081432 1474.96446 0.903051227 1.07155271 0.974215407 1.022560094 1.051238929 1.055357027 0.876427582 1.013488788 0.949908605 1 10.52646448 -7.270719736 24.97105053 0.954218637 1.006704641 0.182443063 0.056225732 1002.47536 2697398.41 0.010521251 0.01211115 5.36E-08 7.270719736 0.052486004 (ac)S(ph)TVHEILCK ddPTM_HeLa_SAHA_4h_R1 1 STVHEILCK 9 0 P07355;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YNP5;H0YKS4;H0YMM1;H0YKX9;H0YMT9;H0YLV6;H0YKZ7;H0YKL9;H0YKV8;H0YMD9;H0YNB8;H0YKN4 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 1 0 S(0.5)T(0.5)VHEILCK 87.323 0.017313 1153900 1557.9 1594.8 1279.6 1603.6 1809.6 1957.7 1951 1645.2 1345.5 2046 TRUE FALSE FALSE 1721.76707 1646.472566 1453.977224 1634.639997 1670.948839 1790.892946 1731.468345 1603.118166 1336.136556 2134.213073 0.80674563 0.77146588 0.681270883 0.765921649 0.782934403 0.839135028 0.811291228 0.751151882 0.626055839 1 11.0594885 -8.801131003 0.694324158 1.001449546 0.773587228 0 0.12132376 0.247648615 0.225703514 0.030029009 0.010157584 1.58E-09 8.801131003 -0.227862319 (ac)S(ph)VAGGEIRGDTGGEDTAAPGR ddPTM_HeLa_SAHA_4h_R1 2 SVAGGEIRGDTGGEDTAAPGR 21 1 Q9H773 Q9H773 DCTPP1 dCTP pyrophosphatase 1 1 0 S(0.964)VAGGEIRGDT(0.036)GGEDTAAPGR;S(0.979)VAGGEIRGDT(0.021)GGEDTAAPGR ; 69.92 9.88E-07 16395100 124.363 341.78 162.16 284.25 346.566 395.85 313.09 320.22 274.746 311.15 TRUE FALSE FALSE 137.4440709 352.8538963 184.2583203 289.7520698 320.012188 362.121353 277.8602892 312.0292361 272.8340202 324.5651992 0.423471374 1.08715875 0.567708185 0.89273918 0.985971967 1.115712202 0.856100068 0.961376133 0.840613907 1 8.342364508 -6.02896109 8.546084337 0.741975511 0.9757695 0.175569719 0.190130162 0.407285625 112.3082016 0.036263364 0.061217584 9.35E-07 6.02896109 0.233793989 (ac)S(ph)VNYAAGLSPYADKGK ddPTM_HeLa_SAHA_4h_R1 2 SVNYAAGLSPYADKGK 16 1 Q8N6T7-2;Q8N6T7;M0R0B2;M0QXA0 Q8N6T7-2 SIRT6 NAD-dependent protein deacetylase sirtuin-6 1 0 S(0.593)VNY(0.407)AAGLSPYADKGK;S(0.585)VNY(0.414)AAGLS(0.001)PYADKGK ; 114.86 0.00019261 15117300 3346.2 3163.33 2947.91 3270.62 3868.7 4093.5 3577.1 3634.2 2920.5 3130 TRUE FALSE FALSE 3698.168669 3265.823968 3349.635823 3333.927579 3572.281042 3744.710771 3174.595294 3541.242426 2900.176003 3264.949618 1.132687821 1.000267799 1.025937982 1.021126807 1.094130526 1.146942896 0.972325967 1.084623912 0.888275882 1 11.67284501 -5.740280727 24.98612849 1.053262164 1.072381323 0 0.075595553 1090.023001 1287198.455 0.009581116 0.019148408 1.82E-06 5.740280727 0.019119159 (ac)S(ph)VPAFIDISEEDQAAELR ddPTM_HeLa_SAHA_4h_R1 2 SVPAFIDISEEDQAAELR 18 0 Q7L2H7;E9PRI2;E7ESM3 Q7L2H7 EIF3M Eukaryotic translation initiation factor 3 subunit M 1 0 S(1)VPAFIDISEEDQAAELR;S(1)VPAFIDISEEDQAAELR ; 165.73 4.10E-09 861050 0 0 0 0 0 0 0 0 71.907 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 71.40659333 0 0 (ac)S(ph)YAEKPDEITKDEWMEK ddPTM_HeLa_SAHA_4h_R1 3 SYAEKPDEITKDEWMEK 17 2 Q9NWU2 Q9NWU2 GID8 Glucose-induced degradation protein 8 homolog 1 0 S(0.519)Y(0.479)AEKPDEIT(0.001)KDEWMEK;S(0.541)Y(0.458)AEKPDEIT(0.001)KDEWMEK;S(0.53)Y(0.469)AEKPDEIT(0.001)KDEWMEK ;; 58.246 0.0023103 14946000 3144.51 2722.99 2789.53 3025.97 3031.55 3674.73 3581.31 3230.21 3071.77 2912.94 TRUE FALSE FALSE 3475.263989 2811.216663 3169.672621 3084.542025 2799.273294 3361.622331 3178.331573 3147.585905 3050.393302 3038.531099 1.143731585 0.925189367 1.043159513 1.01514249 0.921258728 1.106331389 1.046009229 1.035890634 1.003903927 1 11.56915834 -7.2715615 24.99729267 1.067873245 1.015801744 0.037293378 0.064701533 1215.84094 3002598.759 0.012349235 0.014205704 5.35E-08 7.2715615 -0.052071501 (ac)S(ph)YGRPPPDVEGMTSLK ddPTM_HeLa_SAHA_4h_R1 3 SYGRPPPDVEGMTSLK 16 1 Q01130-2;Q01130;J3QL05;J3KP15 Q01130-2 SRSF2 Serine/arginine-rich splicing factor 2 1 0 S(0.554)Y(0.446)GRPPPDVEGMTSLK;S(0.614)Y(0.386)GRPPPDVEGMTSLK;S(0.565)Y(0.435)GRPPPDVEGMTSLK ;; 112.64 0.00029989 25767300 2170.83 2516.01 1946.66 2312.28 2225.94 3085.94 3067.28 2049.21 2984.83 2876.36 TRUE FALSE FALSE 2399.16786 2597.530375 2211.940687 2357.037523 2055.388958 2823.000551 2722.141582 1996.794175 2964.058325 3000.373956 0.799622945 0.865735543 0.737221666 0.78558125 0.685044261 0.940882901 0.907267435 0.665515101 0.987896298 1 11.55092661 -9.184855388 0.634744343 1.022131528 0.798768937 0.463062975 0.08431057 0.742634655 0.462077249 0.093186612 0.018587082 6.53E-10 9.184855388 -0.223362591 (ac)S(ph)YGRPPPDVEGMTSLKVDNLTYR ddPTM_HeLa_SAHA_4h_R1 2 SYGRPPPDVEGMTSLKVDNLTYR 23 2 Q01130-2;Q01130;J3QL05;J3KP15 Q01130-2 SRSF2 Serine/arginine-rich splicing factor 2 1 0 S(0.529)Y(0.471)GRPPPDVEGMTSLKVDNLTYR;S(0.745)Y(0.255)GRPPPDVEGMTSLKVDNLTYR ; 68.369 0.00037913 15182500 1651.8 1365.71 1593.56 1399.94 1600.55 1378.1 2058.34 1454.18 1078.46 1386 TRUE FALSE FALSE 1825.543903 1409.9599 1810.722058 1427.037863 1477.916205 1260.678127 1826.730166 1416.984181 1070.954909 1445.757243 1.262690477 0.975239728 1.252438517 0.987052197 1.02224368 0.871984652 1.26351099 0.980098276 0.740757077 1 10.49760961 -6.200460724 24.99804077 1.122425714 1.029578257 0 0.174003197 462.9750868 189795.0007 0.020789117 0.034474847 6.30E-07 6.200460724 -0.092847457 NYVPPKGDK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 NYVPPKGDKK 10 2 D6R9A6;P26583 D6R9A6 HMGB2 High mobility group protein B2 0 1 ; NYVPPKGDK(1)K;NYVPPKGDK(1)K 104.05 0.0035093 6909600 5436.2 6684 7463.4 7065.8 8957.1 9802.5 9765.5 9410.7 5184.7 4220.7 FALSE TRUE FALSE 6008.004458 6900.565986 8480.473284 7202.568776 8270.808933 8967.271853 8666.660239 9169.987921 5148.619251 4402.675033 1.364625918 1.567357557 1.92620923 1.635952852 1.878587193 2.036778047 1.968498736 2.082821887 1.16942977 1 12.10416465 -7.104575033 0.379263106 0.973570498 2.12567044 0.908718691 0.109232257 0.189932107 0.073719566 0.059924747 0.080546412 7.86E-08 7.104575033 1.152099942 up (ac)SASAPAAEGEGT(ph)PTQPASEKEPEMPGPR ddPTM_HeLa_SAHA_4h_R1 1 SASAPAAEGEGTPTQPASEKEPEMPGPR 28 1 H0Y8X0;B4DFG0;H0Y993;P35659;D6R9L5;A0A494C198;P35659-2 H0Y8X0 DEK Protein DEK 1 0 S(0.275)AS(0.275)APAAEGEGT(0.442)PT(0.007)QPASEKEPEMPGPR 99.6 8.56E-11 26218000 722.83 863.23 612.66 515.61 743.43 1027.3 700.27 469.33 902.21 844.61 TRUE FALSE FALSE 798.8605759 891.1992184 696.1501142 525.5903771 686.468554 939.7682606 621.4737766 457.3252182 895.9314472 881.0252705 0.906739685 1.01154785 0.790159077 0.596566744 0.779170107 1.066675715 0.705398355 0.519082975 1.016919125 1 9.78303959 -6.663373794 5.546514852 0.95865391 0.747731962 0.419830284 0.138096624 0.183184374 8.623117018 0.02226377 0.031551392 2.17E-07 6.663373794 -0.210921948 (ac)SCINLPTVLPGS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 3 SCINLPTVLPGSPSK 15 0 K7ENW5;K7ES52;K7ERJ1;K7ERV3;P04183 K7ENW5 TK1 "Thymidine kinase;Thymidine kinase, cytosolic" 1 0 SCINLPT(0.003)VLPGS(0.771)PS(0.225)K;SCINLPTVLPGS(0.955)PS(0.044)K;SCINLPTVLPGS(0.91)PS(0.09)K ;; 122.16 4.09E-07 77313000 13134.1 14315 11346.9 14064.4 15247 16306.5 14485.9 13230.2 15977 13662.1 TRUE FALSE FALSE 14515.6049 14778.81539 12893.19644 14336.6368 14078.77815 14917.09446 12855.90841 12891.79064 15865.81476 14251.13999 1.018557456 1.037026891 0.904713339 1.005999296 0.9879054 1.046729909 0.902096844 0.904614694 1.113301446 1 13.79878971 -4.746106394 24.94013164 1.003871492 0.903355678 0.427175178 0.050236105 126.0134862 204965.8444 0.00483974 0.01796988 1.79E-05 4.746106394 -0.100515814 (ac)SCINLPTVLPGS(ph)PSKTR ddPTM_HeLa_SAHA_4h_R1 3 SCINLPTVLPGSPSKTR 17 1 K7ENW5;K7ES52;K7ERJ1;K7ERV3;P04183 K7ENW5 TK1 "Thymidine kinase;Thymidine kinase, cytosolic" 1 0 SCINLPT(0.16)VLPGS(0.477)PS(0.142)KT(0.22)R;SCINLPTVLPGS(0.798)PS(0.101)KT(0.101)R;SCINLPTVLPGS(0.696)PS(0.228)KT(0.075)R ;; 110.04 5.23E-06 127699500 3680.84 2733.11 3603.53 3515.57 3394.77 3497.76 3749.55 3591.62 2141.13 3131.68 TRUE FALSE FALSE 4068.007639 2821.664557 4094.600302 3583.618941 3134.663456 3199.73117 3327.640766 3499.751561 2126.229702 3266.702051 1.245294972 0.863765508 1.253435495 1.097014324 0.95958046 0.979498932 1.018654507 1.071340914 0.650879593 1 11.67361916 -5.844546647 7.573519592 1.108106877 1.006336446 0 0.181032843 0.370651082 29.01569147 0.018164927 0.033088574 1.43E-06 5.844546647 -0.10177043 (ac)SDAAVDT(ph)SSEITTK ddPTM_HeLa_SAHA_4h_R1 2 SDAAVDTSSEITTK 14 0 B8ZZQ6;P06454-2;P06454 B8ZZQ6 PTMA "Prothymosin alpha;Prothymosin alpha, N-terminally processed;Thymosin alpha-1" 1 0 SDAAVDT(0.889)S(0.093)S(0.016)EIT(0.001)TK;SDAAVDT(0.797)S(0.153)S(0.049)EITT(0.001)K ; 107.35 1.21E-07 53224000 4201.3 4308.5 4542.3 4464.8 5922.6 5512.9 5710 5223.7 4911.9 4919.9 TRUE FALSE FALSE 4643.21201 4448.098227 5161.300989 4551.22266 5468.811668 5043.169905 5067.495772 5090.085318 4877.717688 5132.020966 0.904753126 0.866734227 1.005705359 0.88682854 1.065625356 0.982686926 0.987426943 0.991828629 0.950447732 1 12.32531135 -5.762716858 24.99996142 0.946579175 1.003772665 0.334027167 0.047686109 42.07656077 823457.7327 0.007891919 0.014890263 1.73E-06 5.762716858 0.05719349 (ac)SDAAVDTS(ph)SEITTK ddPTM_HeLa_SAHA_4h_R1 2 SDAAVDTSSEITTK 14 0 B8ZZQ6;P06454-2;P06454 B8ZZQ6 PTMA "Prothymosin alpha;Prothymosin alpha, N-terminally processed;Thymosin alpha-1" 1 0 SDAAVDT(0.1)S(0.797)S(0.1)EIT(0.002)T(0.001)K;SDAAVDT(0.21)S(0.691)S(0.095)EIT(0.004)TK ; 120.29 3.08E-09 44563000 2549.37 2695 2718.1 2396.7 2893 3011.4 3599.2 3270 2990.9 2597 TRUE FALSE FALSE 2817.524434 2782.319768 3088.508513 2443.091594 2671.338965 2754.811778 3194.208543 3186.358135 2970.086083 2708.969379 1.040072455 1.027076862 1.140104623 0.90185279 0.986108955 1.01692245 1.179123163 1.176225231 1.096389685 1 11.40352837 -4.761580774 24.77641585 1.017725788 1.177674255 0.498095226 0.06041244 1.618421398 283913.5831 0.007466429 0.024730031 1.73E-05 4.761580774 0.159948467 (ac)SDAAVDTSSEITTK ddPTM_HeLa_SAHA_4h_R1 6 SDAAVDTSSEITTK 14 0 B8ZZQ6;P06454-2;P06454 B8ZZQ6 PTMA "Prothymosin alpha;Prothymosin alpha, N-terminally processed;Thymosin alpha-1" 0 0 ;;;;; ;;;;; 134.75 6.04E-25 46166100 8126.41 7848.34 6431.61 7290.05 8177.23 8289.91 7697.96 8100.13 7811.86 6511.89 FALSE FALSE TRUE 8981.183089 8102.631365 7308.076316 7431.159459 7550.692404 7583.56303 6831.765281 7892.940403 7757.49663 6792.649446 1.32219146 1.192852867 1.075880093 1.094000142 1.111597538 1.116436685 1.005758553 1.161982591 1.142042835 1 12.72975869 -6.752184575 24.55634843 1.159450123 1.092034527 0.148142062 0.08179678 378.5691307 1004475.488 0.019739507 0.027687586 1.77E-07 6.752184575 -0.067415596 (ac)SDAAVDTSSEITTK(ac)DLK ddPTM_HeLa_SAHA_4h_R1 1 SDAAVDTSSEITTKDLK 17 1 B8ZZQ6;P06454-2;P06454 B8ZZQ6 PTMA "Prothymosin alpha;Prothymosin alpha, N-terminally processed;Thymosin alpha-1" 0 1 SDAAVDTSSEITTK(1)DLK 132.14 8.70E-139 1938600 411.59 687.14 562.24 509.62 629.78 550.14 498.47 675.44 672.66 612.33 FALSE TRUE FALSE 454.8829246 709.4037868 638.8591392 519.484432 581.5263925 503.264977 442.3808437 658.1632228 667.9789043 638.730543 0.712167172 1.110646414 1.000201331 0.813307642 0.910440872 0.787914376 0.692593847 1.030423909 1.045791393 1 9.319063629 (ac)SDDDS(ph)RASTSSSSSSSSNQQTEKETNTPK ddPTM_HeLa_SAHA_4h_R1 1 SDDDSRASTSSSSSSSSNQQTEKETNTPK 29 2 C9J2P0;P51965-3;P51965 C9J2P0 UBE2E1 Ubiquitin-conjugating enzyme E2 E1 1 0 S(0.033)DDDS(0.108)RAS(0.108)T(0.108)S(0.108)S(0.089)S(0.089)S(0.089)S(0.108)S(0.108)S(0.036)S(0.013)NQQTEKETNTPK 43.732 0.006246 4044900 595.72 0 420.03 416.72 344.19 230.85 506.77 553.63 167.3 340.96 TRUE FALSE FALSE 658.3805629 0 477.269501 424.7862182 317.8182366 211.1802813 449.7469059 539.4689462 166.1357457 355.6604542 1.851149193 0 1.341924567 1.19435887 0.893600154 0.593769363 1.264540099 1.516808911 0.467118972 1 8.47435676 (ac)SDEFS(ph)LADALPEHSPAK ddPTM_HeLa_SAHA_4h_R1 2 SDEFSLADALPEHSPAK 17 0 Q8NDC0 Q8NDC0 MAPK1IP1L MAPK-interacting and spindle-stabilizing protein-like 1 0 S(0.076)DEFS(0.923)LADALPEHS(0.001)PAK;S(0.348)DEFS(0.652)LADALPEHSPAK ; 152.67 1.74E-28 305127300 7213.1 7285 6994 7227.9 6710 5764.4 7694.7 4989.58 7498.9 7401.8 TRUE FALSE FALSE 7971.806953 7521.03878 7947.105897 7367.806456 6195.88125 5273.24069 6828.872105 4861.953768 7446.714544 7720.927822 1.032493392 0.974110749 1.029294157 0.954264387 0.802478846 0.682980182 0.884462627 0.629711076 0.964484414 1 12.91455851 -5.771517539 2.640679171 1.012654249 0.74574914 0.776251079 0.064609066 0.079286312 1.130402971 0.008343658 0.017282437 1.69E-06 5.771517539 -0.266905109 (ac)SDEFSLADALPEHS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 4 SDEFSLADALPEHSPAK 17 0 Q8NDC0 Q8NDC0 MAPK1IP1L MAPK-interacting and spindle-stabilizing protein-like 1 0 S(0.363)DEFS(0.179)LADALPEHS(0.458)PAK;S(0.233)DEFS(0.05)LADALPEHS(0.717)PAK;S(0.001)DEFS(0.009)LADALPEHS(0.99)PAK;S(0.002)DEFS(0.017)LADALPEHS(0.981)PAK ;;; 80.238 6.36E-14 11899600 2646.82 2807.97 3008.9 3122.987 2786.345 2517.99 3086.1 1771.74 3471.99 3007.7 TRUE FALSE FALSE 2925.224672 2898.95007 3418.937222 3183.436929 2572.855848 2303.443086 2738.843906 1726.421456 3447.828139 3137.376666 0.932379176 0.924004472 1.089743944 1.014681139 0.820065973 0.734193988 0.872972613 0.550275482 1.098952566 1 11.61534303 -3.630223941 0.567276214 0.976465455 1.37E-15 0.689756004 0.089317695 2.889212109 0.38021491 0.015262811 2.182748795 0.000234302 3.630223941 -0.976465455 (ac)SDEREVAEAAT(ph)GEDASSPPPKTEAASDPQHPAASEGAAAAAASPPLLR ddPTM_HeLa_SAHA_4h_R1 1 SDEREVAEAATGEDASSPPPKTEAASDPQHPAASEGAAAAAASPPLLR 48 2 Q99536-3;Q99536;K7ERT7 Q99536-3 VAT1 Synaptic vesicle membrane protein VAT-1 homolog 1 0 S(0.103)DEREVAEAAT(0.266)GEDAS(0.229)S(0.229)PPPKT(0.131)EAAS(0.041)DPQHPAASEGAAAAAASPPLLR 47.793 1.90E-07 9345600 54.159 135.43 0 134.88 289.3 260.08 244.75 272.31 188.82 249.58 TRUE FALSE FALSE 59.85569211 139.8180209 0 137.4907974 267.1338965 237.9197208 217.2100859 265.3447045 187.5059862 260.3406152 0.229913001 0.537058041 0 0.528118893 1.026093821 0.913878615 0.834330385 1.019221316 0.720233322 1 8.024256591 -5.766696629 24.94136116 0.559812956 0.937770117 0.405829282 0.258641103 151.5079332 718785.8158 0.051747917 0.095860604 1.71E-06 5.766696629 0.377957161 (ac)SDKPDMAEIEK(ac)FDKSK ddPTM_HeLa_SAHA_4h_R1 1 SDKPDMAEIEKFDKSK 16 3 P62328 P62328 TMSB4X Thymosin beta-4;Hematopoietic system regulatory peptide 0 1 SDKPDMAEIEK(0.646)FDK(0.354)SK 54.501 0.0052441 27534000 4787.4 5469.2 5973.9 6382.1 7081.4 7668.6 6955.8 7341.4 3443.8 3445.1 FALSE TRUE FALSE 5290.960697 5646.405668 6787.991981 6505.634774 6538.824662 7015.192138 6173.115077 7153.617618 3419.834315 3593.635121 1.472314389 1.571223978 1.888892932 1.810321459 1.819557201 1.952115866 1.717791281 1.990635492 0.951636491 1 11.81122822 -7.882812344 0.434039384 0.974912127 1.922538435 0.930048893 0.093912533 0.168540493 0.081146565 0.062904585 0.041253775 1.31E-08 7.882812344 0.947626308 (ac)SDKPDMAEIEKFDK ddPTM_HeLa_SAHA_4h_R1 4 SDKPDMAEIEKFDK 14 2 P62328 P62328 TMSB4X Thymosin beta-4;Hematopoietic system regulatory peptide 0 0 ;;; ;;; 69.92 0.00015329 164024000 20908.4 20515.82 20583.77 20851.1 22819 24951.5 24710.3 24167.8 21579.7 20363.7 FALSE FALSE TRUE 23107.64144 21180.54603 23388.81898 21254.70319 21070.61315 22825.49183 21929.83201 23549.62267 21429.52511 21241.67876 1.087844407 0.997122038 1.101081475 1.000613154 0.9919467 1.074561577 1.032396368 1.108651672 1.008843291 1 14.37461017 -9.64016496 1.474372537 1.000059054 1.052303982 0.154867965 0.041373238 0.564420227 2.209224979 0.028670389 0.006536973 2.29E-10 9.64016496 0.052244927 (ac)SDKPDMAEIEKFDK(ac)SK ddPTM_HeLa_SAHA_4h_R1 2 SDKPDMAEIEKFDKSK 16 3 P62328 P62328 TMSB4X Thymosin beta-4;Hematopoietic system regulatory peptide 0 1 ; SDKPDMAEIEK(0.082)FDK(0.918)SK;SDKPDMAEIEK(0.083)FDK(0.917)SK 66.436 1.66E-06 59433000 10722.1 10821 12884 13492.4 13976.4 14756.3 14367 15302.4 7405.5 6814.5 FALSE TRUE FALSE 11849.89967 11171.6075 14639.76442 13753.56491 12905.53125 13498.98022 12750.38735 14910.98677 7353.964523 7108.306444 1.667049636 1.571627164 2.059529163 1.934858186 1.815556399 1.899043088 1.793730679 2.097684854 1.034559298 1 12.79529016 -8.803877832 0.365237227 0.793074569 1.965713847 0.890243871 0.12186553 0.464260885 0.106210919 0.219890425 0.055368569 1.57E-09 8.803877832 1.172639278 (ac)SDQDHS(ph)MDEMTAVVK ddPTM_HeLa_SAHA_4h_R1 1 SDQDHSMDEMTAVVK 15 0 P08047;H3BUU5;P08047-3 P08047 SP1 Transcription factor Sp1 1 0 S(0.411)DQDHS(0.527)MDEMT(0.062)AVVK 44.188 0.010235 2200500 461.38 431.51 469.59 336.69 575.13 432.64 727.22 677.51 466.06 426.84 TRUE FALSE FALSE 509.9100653 445.4912071 533.5832797 343.2071218 531.0636637 395.776638 645.3912917 660.1802752 462.8166505 445.2431613 1.145239522 1.000557102 1.198408703 0.770830754 1.192749737 0.888899982 1.449525445 1.482740966 1.03946942 1 8.798449642 -4.744999693 24.63193513 1.052342807 1.466133729 0.650297706 0.127193025 89.74195096 134459.5251 0.016217236 0.060302453 1.80E-05 4.744999693 0.413790922 (ac)SDQEAKPS(ph)TEDLGDK ddPTM_HeLa_SAHA_4h_R1 1 SDQEAKPSTEDLGDK 15 1 B8ZZJ0;B9A032;B8ZZN6;P63165 B8ZZJ0 SUMO1 Small ubiquitin-related modifier 1 1 0 S(0.384)DQEAKPS(0.463)T(0.153)EDLGDK 60.08 0.019846 13473000 478.98 529.21 370.55 665.98 644.48 603.13 766.39 723.41 765.79 638.69 TRUE FALSE FALSE 529.361314 546.3567512 421.0466243 678.8710059 595.1000816 551.7399309 680.1537802 704.9062197 760.460805 666.2270516 0.794565926 0.820075903 0.631986683 1.018978446 0.893239145 0.828156001 1.020903877 1.058057036 1.141443902 1 9.379870124 -4.668766822 5.778395426 0.879475392 1.047314934 0.162555838 0.133335068 0.227665631 11.28431516 0.016537481 0.063966422 2.14E-05 4.668766822 0.167839542 (ac)SDQQLDCALDLMR ddPTM_HeLa_SAHA_4h_R1 1 SDQQLDCALDLMR 13 0 B1AK87;P47756-2;P47756;B1AK85;A0A6I8PIN8 B1AK87 CAPZB F-actin-capping protein subunit beta 0 0 146.11 1.64E-10 1305400 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 (ac)SDS(ph)GEQNYGERES(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SDSGEQNYGERESR 14 1 P62995 P62995 TRA2B Transformer-2 protein homolog beta 2 0 S(0.355)DS(0.645)GEQNYGERES(1)R 93.738 4.39E-09 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)SDSGEQNYGERES(ph)R ddPTM_HeLa_SAHA_4h_R1 4 SDSGEQNYGERESR 14 1 P62995 P62995 TRA2B Transformer-2 protein homolog beta 1 0 SDSGEQNYGERES(1)R;SDSGEQNYGERES(1)R;SDSGEQNYGERES(1)R;SDSGEQNYGERES(1)R ;;; 112.44 1.27E-11 250382000 0 0 0 67.648 51.454 0 0 0 0 61.661 TRUE FALSE FALSE 0 0 0 68.95742486 47.51160564 0 0 0 0 64.31950747 0 0 0 1.072107477 0.738681117 0 0 0 0 1 6.007184454 -9.377792208 1.085344184 1.002936806 0.224063451 0 0.470554385 0.460001758 0.963748589 0.273012263 0.069283795 4.19E-10 9.377792208 -0.778873356 (ac)SDVEENNFEGRES(ph)R ddPTM_HeLa_SAHA_4h_R1 2 SDVEENNFEGRESR 14 1 Q13595 Q13595 TRA2A Transformer-2 protein homolog alpha 1 0 SDVEENNFEGRES(1)R;SDVEENNFEGRES(1)R ; 104.9 0.00019963 8584800 65.415 0 191.051 130.14 63.022 202.182 0 0 72.272 0 TRUE FALSE FALSE 72.29564983 0 217.0864353 132.6590479 58.19326798 184.9549562 0 0 71.76905327 0 0 (ac)SESS(ph)SKSSQPLASK ddPTM_HeLa_SAHA_4h_R1 1 SESSSKSSQPLASK 14 1 P17096;P17096-2;P17096-3;A0A669KAX1;A0A1W2PRV2 P17096 HMGA1 High mobility group protein HMG-I/HMG-Y 1 0 S(0.018)ES(0.018)S(0.449)S(0.449)KS(0.033)S(0.033)QPLASK 72.531 0.00091635 24174000 2142 2015.5 1899.5 2135.7 1856.1 2648.4 2171.4 2364.2 1830.1 2125.5 TRUE FALSE FALSE 2367.305388 2080.803522 2158.353968 2177.039562 1713.886019 2422.741421 1927.068357 2303.727187 1817.364185 2217.140707 1.067728981 0.938507654 0.973485337 0.981913126 0.773016351 1.092732371 0.869168272 1.039053218 0.81968825 1 11.11448462 -7.250297264 23.9419676 1.03198313 0.949767089 0 0.107350166 504.8937589 1084906.732 0.012907093 0.015726248 5.62E-08 7.250297264 -0.082216041 (ac)SESSSKSS(ph)QPLASKQEK ddPTM_HeLa_SAHA_4h_R1 1 SESSSKSSQPLASKQEK 17 2 P17096;P17096-2;P17096-3;A0A669KAX1 P17096 HMGA1 High mobility group protein HMG-I/HMG-Y 1 0 S(0.027)ES(0.027)S(0.024)S(0.024)KS(0.125)S(0.773)QPLASKQEK 72.644 0.0031491 8617600 2722 1943.3 2670 2637.7 2139.8 2453.3 3011.5 3367.3 1604.3 2658.9 TRUE FALSE FALSE 3008.312449 2006.264195 3033.853695 2688.756498 1975.848986 2244.265038 2672.638094 3281.169342 1593.135546 2773.538191 1.084647927 0.723359138 1.09385683 0.969431936 0.712392926 0.809170411 0.963620441 1.183026559 0.574405483 1 11.43751188 (ac)SETAPAAPAAAPPAEK(ac)APVK ddPTM_HeLa_SAHA_4h_R1 1 SETAPAAPAAAPPAEKAPVK 20 1 P16403 P16403 HIST1H1C Histone H1.2 0 1 SETAPAAPAAAPPAEK(1)APVK 50.155 3.81E-10 1948600 727.04 921.75 855.25 587.07 1352.6 1384.6 1533.7 1211.1 559.89 575.47 FALSE TRUE FALSE 803.513403 951.6153048 971.799016 598.4335888 1248.96408 1266.62429 1361.12404 1180.121816 555.9936799 600.281328 1.33856138 1.585282201 1.618905954 0.996921878 2.080631234 2.110051123 2.267476891 1.965947899 0.926221846 1 9.229494983 -5.169281382 0.265410445 0.982565857 2.830578653 0.695354217 0.265623509 2.372811582 0.196493647 0.189168089 1.397225543 6.77E-06 5.169281382 1.848012795 (ac)SETAPAAPAAAPPAEKAPVK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 SETAPAAPAAAPPAEKAPVKK 21 2 P16403 P16403 HIST1H1C Histone H1.2 0 1 ; SETAPAAPAAAPPAEK(0.004)APVK(0.996)K;SETAPAAPAAAPPAEKAPVK(1)K 79.81 6.53E-10 9184900 3467.1 3147 4102 2654.7 6015.9 5347.7 6315.9 6061 1636.91 2768.2 FALSE TRUE FALSE 3831.785486 3248.964865 4660.999198 2706.085557 5554.963042 4892.045875 5605.218309 5905.968396 1625.51861 2887.550649 1.327002 1.125162901 1.614170542 0.937156049 1.92376298 1.694185304 1.941167096 2.045321144 0.562940294 1 11.49563054 -1.000000001 0.205494225 1.006221086 6.57236831 0.661832913 0.276994737 19.95052529 0.231792484 0.187236894 36.34975425 0.1 1.000000001 5.566147224 (ac)SETAPAAPAAAPPAEKAPVK(ac)KK ddPTM_HeLa_SAHA_4h_R1 1 SETAPAAPAAAPPAEKAPVKKK 22 3 P16403 P16403 HIST1H1C Histone H1.2 0 1 SETAPAAPAAAPPAEK(0.02)APVK(0.754)K(0.226)K 57.171 4.99E-07 1505200 905.15 549.11 1219.8 620.97 976.13 893.33 1429.1 1738.9 281.85 791.5 FALSE TRUE FALSE 1000.35783 566.9015243 1386.027992 632.9897723 901.3391303 817.2132583 1268.293907 1694.421456 279.8885829 825.6254385 1.211636395 0.686632821 1.678761248 0.766679105 1.09170465 0.989811142 1.536161373 2.052288334 0.339001889 1 9.689343612 -4.46458908 2.592488225 1.083372125 2.080525036 0.47743685 0.347841013 0.163899893 1.814854542 0.032512818 0.287598768 3.43E-05 4.46458908 0.997152911 (ac)SETAPAAPAAPAPAEK(ac)TPVK ddPTM_HeLa_SAHA_4h_R1 2 SETAPAAPAAPAPAEKTPVK 20 1 P10412 P10412 HIST1H1E Histone H1.4 0 1 ; SETAPAAPAAPAPAEK(1)TPVK;SETAPAAPAAPAPAEK(1)TPVK 67.326 1.36E-48 8481100 2650.3 2726.9 2479.2 1877.04 3680.3 3172.1 3527.1 3193.2 1838.35 2380.1 FALSE TRUE FALSE 2929.070714 2815.253349 2817.052465 1913.372823 3398.316209 2901.819234 3130.221425 3111.522568 1825.556773 2482.717759 1.17978401 1.13394015 1.134664806 0.770676738 1.368788779 1.168807539 1.26080438 1.253272772 0.735305802 1 11.27770455 (ac)SETAPAAPAAPAPAEK(ac)TPVKK ddPTM_HeLa_SAHA_4h_R1 2 SETAPAAPAAPAPAEKTPVKK 21 2 P10412 P10412 HIST1H1E Histone H1.4 0 1 ; SETAPAAPAAPAPAEK(0.997)TPVK(0.003)K;SETAPAAPAAPAPAEK(0.849)TPVK(0.151)K 87.447 7.22E-11 9355200 4595.5 5102.5 5614.1 3500 7470.4 6586.6 7680.4 7524.3 3550.3 4469.8 FALSE TRUE FALSE 5078.875775 5267.824348 6379.160311 3567.747561 6898.019566 6025.384625 6816.181178 7331.839301 3525.593173 4662.514953 1.089299622 1.129824655 1.368180129 0.765198095 1.479463259 1.29230355 1.461910846 1.572507408 0.756156969 1 12.18689264 -1 0.26564506 1.00865009 5.178502449 0.53111559 0.189363973 24.9804694 0.315914991 0.074346224 48.10772847 0.1 1 4.169852359 (ac)SETAPAAPAAPAPAEKT(ph)PVK ddPTM_HeLa_SAHA_4h_R1 1 SETAPAAPAAPAPAEKTPVK 20 1 P10412 P10412 HIST1H1E Histone H1.4 1 0 S(0.032)ET(0.032)APAAPAAPAPAEKT(0.935)PVK 72.09 6.95E-08 0 435.61 430.26 391.04 269.25 447.29 335.34 400.29 481.96 291.28 339.57 TRUE FALSE FALSE 481.4294585 444.2007063 444.3288948 274.4617231 413.0187368 306.7671454 355.2483157 469.6321611 289.2529588 354.2105245 1.359161925 1.254058464 1.254420363 0.774854794 1.166026157 0.86605881 1.002929871 1.325856034 0.816613112 1 8.468463269 (ac)SETAPAAPAAPAPAEKT(ph)PVKK ddPTM_HeLa_SAHA_4h_R1 3 SETAPAAPAAPAPAEKTPVKK 21 2 P10412 P10412 HIST1H1E Histone H1.4 1 0 S(0.013)ET(0.013)APAAPAAPAPAEKT(0.974)PVKK;S(0.002)ET(0.002)APAAPAAPAPAEKT(0.997)PVKK;S(0.002)ET(0.002)APAAPAAPAPAEKT(0.996)PVKK ;; 63.122 0.00023783 277708000 9366.5 10179.5 9528.6 6390.8 12543.5 11312.4 13029.7 12096.4 7215.4 9088.6 TRUE FALSE FALSE 10351.71145 10509.32248 10827.10799 6514.503175 11582.41974 10348.51988 11563.56386 11786.9916 7165.187444 9480.454025 1.09190039 1.10852523 1.142045303 0.68715097 1.221715723 1.091563743 1.219726801 1.243294 0.755785264 1 13.21074044 -5.008458653 1.619580297 1.038445832 1.238882331 0.233742905 0.159348841 0.446795201 2.136610097 0.018647566 0.089144977 9.81E-06 5.008458653 0.200436499 (ac)SETAPAAPAAPAPAEKT(ph)PVKKK ddPTM_HeLa_SAHA_4h_R1 1 SETAPAAPAAPAPAEKTPVKKK 22 3 P10412 P10412 HIST1H1E Histone H1.4 1 0 SET(0.001)APAAPAAPAPAEKT(0.999)PVKKK 40.968 0.0010788 5462800 1413.9 1075 1763.6 804.18 1486.8 786.58 1575 1817.2 544.15 1100.7 TRUE FALSE FALSE 1562.620489 1109.830705 2003.934224 819.7460668 1372.881705 719.5589588 1397.776855 1770.718655 540.3632158 1148.156564 1.360982063 0.966619658 1.745349273 0.713967148 1.195726914 0.626708048 1.217409628 1.542227525 0.47063548 1 10.16510367 (ac)SETAPAETAT(ph)PAPVEKSPAKK ddPTM_HeLa_SAHA_4h_R1 1 SETAPAETATPAPVEKSPAKK 21 2 P16401 P16401 HIST1H1B Histone H1.5 1 0 S(0.276)ET(0.011)APAET(0.195)AT(0.298)PAPVEKS(0.219)PAKK 62.94 0.00039617 441510000 3565.3 3981.6 3968.7 2230.6 4345.7 3447.6 4870.2 3853 2029.2 2973.3 TRUE FALSE FALSE 3940.314612 4110.606452 4509.533768 2273.776489 4012.733405 3153.845084 4322.192278 3754.445839 2015.078632 3101.493514 1.270457151 1.325363549 1.453987812 0.733123084 1.293806802 1.016879471 1.393584174 1.210528354 0.649712348 1 11.59874739 -9.342921652 1.099840828 1.001602896 1.213857493 0.24844484 0.226616345 0.769164001 1.684085873 0.122916807 0.033202387 4.54E-10 9.342921652 0.212254598 (ac)SETAPAETATPAPVEKS(ph)PAKK ddPTM_HeLa_SAHA_4h_R1 3 SETAPAETATPAPVEKSPAKK 21 2 P16401 P16401 HIST1H1B Histone H1.5 1 0 S(0.035)ET(0.002)APAET(0.016)AT(0.092)PAPVEKS(0.855)PAKK;S(0.053)ET(0.003)APAET(0.005)AT(0.051)PAPVEKS(0.888)PAKK;S(0.036)ET(0.009)APAET(0.023)AT(0.023)PAPVEKS(0.91)PAKK ;; 77.19 0.00014536 583556000 12856.3 13566.8 13516.4 7312.1 16737.6 13612.2 17019 16038.7 8469.3 11965.2 TRUE FALSE FALSE 14208.58462 14006.37322 15358.3446 7453.636269 15455.1687 12452.36398 15103.97733 15628.45328 8410.361452 12481.07833 1.138410019 1.122208583 1.230530263 0.597194896 1.238287935 0.99769937 1.210150031 1.252171717 0.673848944 1 13.60745496 -4.660047306 5.699647537 1.057952291 1.240679185 0.118309605 0.209794427 0.279622173 13.0363143 0.022174891 0.086072567 2.19E-05 4.660047306 0.182726894 (ac)SETAPLAPT(ph)IPAPAEKTPVKK ddPTM_HeLa_SAHA_4h_R1 1 SETAPLAPTIPAPAEKTPVKK 21 2 P16402 P16402 HIST1H1D Histone H1.3 1 0 S(0.061)ET(0.061)APLAPT(0.724)IPAPAEKT(0.153)PVKK 61.815 6.46E-05 11942000 1280.9 1331.5 1172.3 924.29 1798.1 1235.1 1459.2 1683.4 932.46 1197.7 TRUE FALSE FALSE 1415.630939 1374.641474 1332.054939 942.1809695 1660.329966 1129.862532 1295.006976 1640.341066 925.9709349 1249.338708 1.133104201 1.100295272 1.066208011 0.754143743 1.328967041 0.904368466 1.036553952 1.312967456 0.741168851 1 10.28694894 -4.259264277 23.68915978 1.052024457 1.31296764 0.182502443 0.172021705 101.0401684 1100263.517 0.017919959 0.157856011 5.50E-05 4.259264277 0.260943184 (ac)SETAPLAPTIPAPAEKT(ph)PVK ddPTM_HeLa_SAHA_4h_R1 3 SETAPLAPTIPAPAEKTPVK 20 1 P16402 P16402 HIST1H1D Histone H1.3 1 0 S(0.001)ET(0.001)APLAPT(0.004)IPAPAEKT(0.994)PVK;SETAPLAPTIPAPAEKT(0.999)PVK;S(0.002)ET(0.002)APLAPT(0.001)IPAPAEKT(0.995)PVK ;; 89.946 4.60E-05 46249300 6623.8 8879.9 6975.7 4865.9 9159 8908.3 10043.5 9063.8 5154.6 6491.5 TRUE FALSE FALSE 7320.521675 9167.614586 7926.312068 4960.086531 8457.239399 8149.262723 8913.378947 8831.96112 5118.728719 6771.380334 1.0810974 1.353876778 1.170560754 0.732507448 1.248968302 1.203486191 1.316331163 1.304307347 0.755935787 1 12.72523424 -1 0.241598662 1.021331048 2.933624045 0.284214685 0.179845075 49.42843617 0.610921487 0.094728284 38.41298619 0.1 1 1.912292998 (ac)SETAPLAPTIPAPAEKT(ph)PVKK ddPTM_HeLa_SAHA_4h_R1 4 SETAPLAPTIPAPAEKTPVKK 21 2 P16402 P16402 HIST1H1D Histone H1.3 1 0 S(0.001)ET(0.001)APLAPT(0.001)IPAPAEKT(0.997)PVKK;S(0.002)ET(0.01)APLAPT(0.059)IPAPAEKT(0.929)PVKK;S(0.003)ET(0.003)APLAPT(0.03)IPAPAEKT(0.964)PVKK;S(0.002)ET(0.002)APLAPT(0.04)IPAPAEKT(0.956)PVKK ;;; 61.437 6.49E-05 33316100 7493.69 9926.08 8665.14 6003.98 11132.13 10309.79 12998.12 11985.91 6446.09 9167.15 TRUE FALSE FALSE 8281.910696 10247.6915 9845.980153 6120.195715 10279.1886 9431.337891 11535.53733 11679.32778 6401.231135 9562.390699 0.866092064 1.071666263 1.029656752 0.640027783 1.074960115 0.986294974 1.20634449 1.221381571 0.669417443 1 13.22315564 -4.819608348 1.881046392 0.937781624 1.240679857 0.392204574 0.146832988 0.264125143 1.714064239 0.01713129 0.095393975 1.51E-05 4.819608348 0.302898233 (ac)SGEDEQQEQTIAEDLVVTK ddPTM_HeLa_SAHA_4h_R1 1 SGEDEQQEQTIAEDLVVTK 19 0 Q9UQ80;F8VR77 Q9UQ80 PA2G4 Proliferation-associated protein 2G4 0 0 117.92 9.00E-25 1289200 616.87 598.7 523.71 736.33 762.18 631.27 606.22 833.79 721.58 534.17 FALSE FALSE TRUE 681.7552169 618.0982728 595.0784714 750.5827319 703.7819331 577.4822446 538.0065301 812.4628591 716.558466 557.2006829 1.223536219 1.109292023 1.067978719 1.347059964 1.263067248 1.036399025 0.965552532 1.458115333 1.285997107 1 9.122053216 -9.403576972 0.935583277 0.991078591 1.177713043 0 0.166345447 0.882807015 1.271977928 0.119620741 0.025155535 3.95E-10 9.403576972 0.186634452 (ac)SGFSTEER ddPTM_HeLa_SAHA_4h_R1 1 SGFSTEER 8 0 Q5SQT6;Q15181 Q5SQT6 PPA1 Inorganic pyrophosphatase 0 0 45.335 0.018281 3362000 318.11 261.64 238.55 317.78 208.9 326.05 416.77 222.28 347.71 285.64 FALSE FALSE TRUE 351.5702693 270.1173077 271.0583517 323.9310914 192.8941271 298.2687057 369.8739427 216.5943995 345.2902578 297.9553383 1.179942844 0.906569787 0.909728127 1.087180023 0.647392754 1.001051726 1.241373774 0.726935791 1.158865821 1 8.218952285 -7.245180087 24.13278943 1.084973012 0.940285469 0.196486168 0.16462056 750.9817496 1114642.15 0.02698518 0.032988772 5.69E-08 7.245180087 -0.144687543 (ac)SGGSSCSQTPS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SGGSSCSQTPSR 12 0 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 1 0 SGGSSCSQT(0.004)PS(0.996)R 160.84 1.86E-09 859300 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)SGYS(ph)SDRDR ddPTM_HeLa_SAHA_4h_R1 1 SGYSSDRDR 9 1 P17844-2;P17844;J3QRQ7;X6RLV5;J3QR02;J3KRX8;J3QKN9;J3QS79 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 1 0 SGYS(0.5)S(0.5)DRDR 45.598 0.0078819 0 0 0 0 0 65.548 118.39 52.41 142.95 0 49.475 TRUE FALSE FALSE 0 0 0 0 60.5257264 108.302506 46.51268886 139.293546 0 51.60810937 0 0 0 0 1.172794879 2.098555969 0.901267057 2.699063145 0 1 5.689525874 -5.54366327 4.568044567 0.397759107 1.78592361 0.668218401 0.536652105 0.114264062 5.898484486 0.085774369 0.18203818 2.86E-06 5.54366327 1.388164502 (ac)SGYSS(ph)DRDR ddPTM_HeLa_SAHA_4h_R1 4 SGYSSDRDR 9 1 P17844-2;P17844;J3QRQ7;X6RLV5;J3QR02;J3KRX8;J3QKN9;J3QS79 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 1 0 SGYS(0.006)S(0.994)DRDR;SGYS(0.018)S(0.982)DRDR;SGYS(0.007)S(0.993)DRDR;SGYS(0.003)S(0.997)DRDR ;;; 85.29 0.004079 417639000 0 0 0 0 0 0 61.917 0 65.507 109.53 TRUE FALSE FALSE 0 0 0 0 0 0 54.9499362 0 65.05113145 114.2523743 0 0 0 0 0 0 0.480952247 0 0.569363498 1 6.836080337 -9.182903385 0.794359848 1.039073934 0.0595621 0.675210959 0.192008181 0.204776849 0.219150986 0.12548628 0.03066508 6.56E-10 9.182903385 -0.979511835 (ac)SHPS(ph)PQAKPSNPSNPR ddPTM_HeLa_SAHA_4h_R1 2 SHPSPQAKPSNPSNPR 16 1 Q08752 Q08752 PPID Peptidyl-prolyl cis-trans isomerase D 1 0 S(0.175)HPS(0.824)PQAKPS(0.001)NPSNPR;S(0.033)HPS(0.967)PQAKPSNPSNPR ; 52.599 0.0055926 3767500 1599.02 1535.72 1172.55 1313.16 1492.89 1530.34 2164.98 1678.73 1447.3 1452.31 TRUE FALSE FALSE 1767.21226 1585.478336 1332.339008 1338.578111 1378.505091 1399.946423 1921.370752 1635.790517 1437.228121 1514.926192 1.166533571 1.046571341 0.879474535 0.883592955 0.909948682 0.924102065 1.268293309 1.07978232 0.948711646 1 10.56503179 -6.990709911 24.8656748 1.08010989 0.98948185 0.004777635 0.122864258 364.7779235 976352.6407 0.021375339 0.02807309 1.02E-07 6.990709911 -0.090628039 (ac)SHTILLVQPTK ddPTM_HeLa_SAHA_4h_R1 3 SHTILLVQPTK 11 0 P84090;G3V279 P84090 ERH Enhancer of rudimentary homolog 0 0 ;; ;; 98.044 4.52E-12 9063800 7468.1 10209.8 8020.9 10590.4 9690.5 10687.3 11204.5 11687.2 9203.2 8262.2 FALSE FALSE TRUE 8253.629023 10540.60422 9113.946481 10795.39251 8948.015984 9776.681915 9943.740171 11388.25835 9139.154182 8618.423876 0.957672672 1.223031539 1.057495734 1.252594751 1.038242736 1.134393255 1.153777108 1.321385268 1.060420596 1 13.07320834 -7.269268407 24.93656318 0.980012092 1.160740953 0.424793894 0.084791521 311.9577659 993628.013 0.012931555 0.014930694 5.38E-08 7.269268407 0.180728861 (ac)SIFT(ph)PTNQIR ddPTM_HeLa_SAHA_4h_R1 2 SIFTPTNQIR 10 0 Q9Y3A5;A0A087X020;F8WE72 Q9Y3A5 SBDS Ribosome maturation protein SBDS 1 0 SIFT(0.998)PT(0.001)NQIR;S(0.133)IFT(0.858)PT(0.009)NQIR ; 112.85 0.0014754 1988400 219.82 237.42 55.884 236.06 320.8 707.24 197.97 355.8 342.53 248.06 TRUE FALSE FALSE 242.9416762 245.1125638 63.49958049 240.6292826 296.2203733 646.9791732 175.6938946 346.6991512 340.1463058 258.7550806 0.938886594 0.947276333 0.245404188 0.929949982 1.144790559 2.500353507 0.678996888 1.339873793 1.314549284 1 8.01544338 -5.515988558 24.50710673 0.910705369 1.490151058 0.243267171 0.481378687 251.6301354 894998.956 0.064079093 0.132328607 3.05E-06 5.515988558 0.579445689 (ac)SK(ac)SESPKEPEQLR ddPTM_HeLa_SAHA_4h_R1 2 SKSESPKEPEQLR 13 2 F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8W646 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 0 1 ; SK(1)SESPKEPEQLR;SK(1)SESPKEPEQLR 110.53 4.00E-24 11664600 1237.32 1357.13 1378.44 1786.77 1645.3 1721.81 1805.33 3035.6 1880.33 1441.19 FALSE TRUE FALSE 1367.466995 1401.101902 1566.286625 1821.355517 1519.237469 1575.102101 1602.189517 2957.953747 1867.24463 1503.326754 0.909627259 0.93200091 1.041880363 1.211549992 1.010583671 1.047744343 1.065762658 1.967605339 1.242075035 1 10.5539429 -4.251846424 3.722599145 0.988753552 2.081673005 0.847780454 0.114196976 0.059241438 1.510538378 0.013078845 0.179827299 5.60E-05 4.251846424 1.092919453 (ac)SKS(ph)ESPKEPEQLR ddPTM_HeLa_SAHA_4h_R1 2 SKSESPKEPEQLR 13 2 F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8W646 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 S(0.47)KS(0.529)ES(0.001)PKEPEQLR;S(0.009)KS(0.885)ES(0.106)PKEPEQLR ; 126.5 9.92E-05 201225200 7169.7 3605.91 6617.7 5639 5301.7 4485.29 5690.4 7547.8 2632.24 5055 TRUE FALSE FALSE 7923.841942 3722.74385 7519.525693 5748.150999 4895.484891 4103.118058 5050.101216 7354.738205 2613.922028 5272.945789 1.502735332 0.706008368 1.426057842 1.090121391 0.928415555 0.778145314 0.957738126 1.394806338 0.495723289 1 12.36439345 -6.004475077 23.2737657 1.210165692 0.995733444 0 0.339640648 137.3540244 714364.0129 0.041406964 0.073602669 9.90E-07 6.004475077 -0.214432248 (ac)SLLDGLASS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 SLLDGLASSPR 11 0 E9PI10;E9PK87;F8W6N5;Q3YBR2 E9PI10 TBRG1 Transforming growth factor beta regulator 1 1 0 SLLDGLAS(0.054)S(0.946)PR;SLLDGLAS(0.262)S(0.738)PR ; 126.83 0.0001771 2469100 0 0 0 63.397 105.8 0 196.83 0 0 0 TRUE FALSE FALSE 0 0 0 64.62414061 97.69362686 0 174.6821704 0 0 0 0 (ac)SLYPS(ph)LEDLKVDK ddPTM_HeLa_SAHA_4h_R1 1 SLYPSLEDLKVDK 13 1 B4DHN5;E9PBU7;O00560-2;O00560 B4DHN5 SDCBP Syntenin-1 1 0 S(0.017)LY(0.004)PS(0.979)LEDLKVDK 89.46 0.00043057 0 393.02 430.03 492.88 358.44 386.8 448.32 400.12 674.63 523.37 364.02 TRUE FALSE FALSE 434.3596468 443.9632542 560.0471196 365.3781245 357.1634676 410.1206138 355.0974445 657.3739415 519.7278256 379.7146837 1.143910587 1.169202228 1.474915624 0.962243864 0.940610103 1.080075729 0.935169115 1.731231289 1.368732493 1 8.568771979 -1.000000035 0.019831239 6.31E-11 2.608423758 0 0.259035399 6064.462246 9.364018734 459.6784025 821.5538576 0.099999992 1.000000035 2.608423758 (ac)SNGYEDHMAEDCR ddPTM_HeLa_SAHA_4h_R1 1 SNGYEDHMAEDCR 13 0 M0QZR9;Q15717 M0QZR9 ELAVL1 ELAV-like protein 1 0 0 68.786 0.00044 0 179.58 292.88 299.69 323.97 236.2 308.76 253.83 242.47 243.29 220.56 FALSE FALSE TRUE 198.4690483 302.3695042 340.5301925 330.2409078 218.102407 282.451911 225.2683804 236.2679685 241.5969251 230.069421 0.862648532 1.314253336 1.480119309 1.435396788 0.947985204 1.227681235 0.979132209 1.026942075 1.05010446 1 7.845925434 -7.266366818 24.89718096 0.935139583 1.204032509 0.256596785 0.176816688 352.5938174 1781569.37 0.031884365 0.0370628 5.42E-08 7.266366818 0.268892927 (ac)SQPGQK(ac)PAASPRPR ddPTM_HeLa_SAHA_4h_R1 2 SQPGQKPAASPRPR 14 2 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;F8W7E0;E9PSG1 P20810-6 CAST Calpastatin 0 1 ; SQPGQK(1)PAASPRPR;SQPGQK(1)PAASPRPR 104.22 0.0011389 1210690 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)SQPGQKPAAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 SQPGQKPAASPR 12 1 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;F8W7E0;E9PSG1 P20810-6 CAST Calpastatin 1 0 SQPGQKPAAS(1)PR;SQPGQKPAAS(1)PR;SQPGQKPAAS(1)PR;SQPGQKPAAS(1)PR ;;; 145.14 1.95E-06 146770000 7074.2 9246.9 8230 7232 9040.6 9589.4 9098 7617 10359.8 8934.5 TRUE FALSE FALSE 7818.296814 9546.505627 9351.54154 7371.985818 8347.911181 8772.329172 8074.269095 7422.168169 10287.70531 9319.710019 0.83889915 1.02433505 1.003415505 0.791010214 0.895726494 0.941266322 0.866364842 0.796394754 1.103865387 1 13.18606935 -6.265076408 24.99656761 0.936540258 0.865313642 0.293570028 0.084085981 464.1334689 3189895.166 0.012387704 0.019395985 5.43E-07 6.265076408 -0.071226616 (ac)SQPGQKPAAS(ph)PRPR ddPTM_HeLa_SAHA_4h_R1 4 SQPGQKPAASPRPR 14 2 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;F8W7E0;E9PSG1 P20810-6 CAST Calpastatin 1 0 SQPGQKPAAS(1)PRPR;SQPGQKPAAS(1)PRPR;SQPGQKPAAS(1)PRPR;SQPGQKPAAS(1)PRPR ;;; 93.228 4.84E-06 1831599900 5247.83 5904.24 5679.38 4723.95 5685.14 5945.57 5865.69 5381.23 5214.12 5705.76 TRUE FALSE FALSE 5799.820837 6095.54125 6453.336329 4815.388883 5249.545801 5438.973987 5205.667124 5243.585929 5177.834514 5951.763237 0.974471028 1.024157213 1.084273025 0.809069295 0.882015227 0.913842465 0.874642844 0.881013864 0.86996648 1 12.53910142 -6.255499393 24.99824992 0.997498328 0.875125091 0.528950388 0.055665276 207.6321445 873812.4469 0.006007565 0.009794383 5.55E-07 6.255499393 -0.122373237 (ac)SS(ph)PASTPSRR ddPTM_HeLa_SAHA_4h_R1 1 SSPASTPSRR 10 1 A0A3B3ITP6;A0A3B3IT92;P33991;A0A3B3IS57;E5RFR3;E5RG53;A0A3B3IS88 A0A3B3ITP6 MCM4 DNA replication licensing factor MCM4 1 0 S(0.025)S(0.961)PAS(0.014)TPSRR 93.143 0.0030275 136350000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)SSAPRS(ph)PTPR ddPTM_HeLa_SAHA_4h_R1 2 SSAPRSPTPR 10 1 Q9HBI1 Q9HBI1 PARVB Beta-parvin 1 0 S(0.003)S(0.006)APRS(0.938)PT(0.053)PR;S(0.006)S(0.004)APRS(0.901)PT(0.089)PR ; 52.482 0.0061165 15270000 0 0 0 0 0 0 110.495 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 98.06181179 0 0 0 0 (ac)SSAPT(ph)TPPSVDKVDGFSR ddPTM_HeLa_SAHA_4h_R1 1 SSAPTTPPSVDKVDGFSR 18 1 Q16537-2;Q16537 Q16537-2 PPP2R5E Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform 1 0 S(0.066)S(0.066)APT(0.434)T(0.434)PPS(0.001)VDKVDGFSR 89.44 0.00031723 16962000 3460 3628.7 2892.5 3404.4 3393.9 4354.6 3172.1 3253.8 3637.8 3424.9 TRUE FALSE FALSE 3823.938675 3746.272261 3286.674837 3470.297085 3133.860115 3983.563582 2815.166959 3170.572507 3612.484254 3572.5642 1.070362479 1.048622796 0.919976424 0.97137431 0.877201903 1.115043246 0.787996185 0.887478105 1.011174062 1 11.80274422 -6.759905174 24.98116011 1.035309829 0.928582998 0.296110697 0.080001327 38.26830198 623107.9611 0.012406007 0.01701737 1.74E-07 6.759905174 -0.106726832 (ac)SSDASQGVITT(ph)PPPPSMPHK ddPTM_HeLa_SAHA_4h_R1 2 SSDASQGVITTPPPPSMPHK 20 0 Q9UEY8-2;Q9UEY8 Q9UEY8-2 ADD3 Gamma-adducin 1 0 S(0.024)S(0.024)DAS(0.024)QGVIT(0.176)T(0.751)PPPPSMPHK;S(0.013)S(0.013)DAS(0.013)QGVIT(0.088)T(0.874)PPPPSMPHK ; 67.727 0.00028489 21798000 1400.14 1353.79 1346.09 1763.24 1628.44 1747.31 1985.43 1787.67 1671.86 1326.65 TRUE FALSE FALSE 1547.413149 1397.653684 1529.528135 1797.37006 1503.669279 1598.429358 1762.024191 1741.94399 1660.22539 1383.848374 1.11819559 1.009976028 1.105271476 1.298820083 1.086585284 1.155061051 1.273278362 1.258767957 1.199716256 1 10.43447016 -1 0.114831066 0.939544188 1.956682273 0.213230008 0.089058497 52.5846663 0.419396648 0.353361483 8.547095924 0.1 1 1.017138084 (ac)SSDASQGVITT(ph)PPPPSMPHKER ddPTM_HeLa_SAHA_4h_R1 1 SSDASQGVITTPPPPSMPHKER 22 1 Q9UEY8-2;Q9UEY8 Q9UEY8-2 ADD3 Gamma-adducin 1 0 S(0.017)S(0.017)DAS(0.017)QGVIT(0.017)T(0.933)PPPPSMPHKER 69.081 1.43E-05 7957300 1181.2 850.6 933.62 1112.3 1046.2 901.63 1136.8 1329.6 707.22 916.18 TRUE FALSE FALSE 1305.444036 878.1599981 1060.848872 1133.830175 966.040382 824.8060516 1008.884272 1295.590757 702.2983984 955.6810035 1.365983033 0.918884016 1.11004495 1.186410707 1.010839787 0.863055819 1.055670531 1.355672816 0.734866965 1 9.900385332 -7.245448004 24.88358345 1.172825333 1.066452235 0 0.206223284 1714.956164 2668581.507 0.030545254 0.037336713 5.68E-08 7.245448004 -0.106373098 (ac)SSIGTGYDLSASTFS(ph)PDGR ddPTM_HeLa_SAHA_4h_R1 1 SSIGTGYDLSASTFSPDGR 19 0 P25788-2;P25788;G3V3W4;G3V5N4 P25788-2 PSMA3 Proteasome subunit alpha type-3 1 0 S(0.012)S(0.012)IGT(0.258)GYDLS(0.001)AS(0.019)T(0.048)FS(0.65)PDGR 78.78 0.0026902 835940 0 0 171.91 0 0 177.07 0 190.07 159.91 72.066 TRUE FALSE FALSE 0 0 195.3369995 0 0 161.9826398 0 185.2082846 158.7971733 75.17311794 0 0 2.598495378 0 0 2.154794749 0 2.463756855 2.112419674 1 6.232144938 (ac)SSILPFT(ph)PPVVK ddPTM_HeLa_SAHA_4h_R1 1 SSILPFTPPVVK 12 0 Q15796;B7Z5N5;Q15796-2;K7EL92;K7ERC7;K7EJX0;K7ESI8 Q15796 SMAD2 Mothers against decapentaplegic homolog 2;Mothers against decapentaplegic homolog 1 0 SSILPFT(1)PPVVK 108.32 0.017785 32720000 2445.4 2959.7 2289.9 2767.3 3087.4 3689.3 3312.3 2890.2 3698.4 3303.2 TRUE FALSE FALSE 2702.618392 3055.596222 2601.955647 2820.865093 2850.844079 3374.950885 2939.591287 2816.272869 3672.662533 3445.617117 0.784364107 0.886806664 0.755149385 0.81868211 0.827382725 0.979490979 0.853139274 0.817349338 1.065893977 1 11.75054668 -9.419981315 1.10199657 1.001641862 0.837866379 0.589637266 0.062370639 0.341038577 0.728798628 0.043646867 0.010567861 3.80E-10 9.419981315 -0.163775483 (ac)SSNSASAANGNDSK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 SSNSASAANGNDSKK 15 1 A6NLN1;K7ES59 A6NLN1 PTBP1 0 1 SSNSASAANGNDSK(1)K 103.88 8.84E-13 222500 0 0 0 0 0 0 0 225.17 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 219.4104774 0 0 0 (ac)SSSPVNVKK ddPTM_HeLa_SAHA_4h_R1 1 SSSPVNVKK 9 1 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 0 45.081 0.0074017 29105000 4051.6 3579.2 3704.6 3327.1 3670.7 4112.4 3683.5 3908.2 3494.2 3896.1 FALSE FALSE TRUE 4477.765877 3695.168428 4209.443595 3391.500832 3389.451759 3762.000384 3269.022886 3808.233903 3469.883578 4064.079938 1.101790798 0.909226316 1.035767913 0.834506428 0.834002237 0.925670863 0.804369731 0.937046997 0.853793142 1 11.98871306 -6.549282494 1.484379886 1.044085836 0.865694763 0.102260995 0.087670586 0.197709384 0.873586807 0.011197122 0.018178999 2.82E-07 6.549282494 -0.178391073 (ac)STEAQRVDDSPSTS(ph)GGSSDGDQR ddPTM_HeLa_SAHA_4h_R1 1 STEAQRVDDSPSTSGGSSDGDQR 23 1 C9J180;Q96LR5;F8WF15;F8W8F0 C9J180 UBE2E2 Ubiquitin-conjugating enzyme E2 E2 1 0 S(0.01)T(0.01)EAQRVDDS(0.305)PS(0.043)T(0.039)S(0.449)GGS(0.104)S(0.039)DGDQR 82.034 6.54E-08 2637100 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)STGPTAAT(ph)GSNRR ddPTM_HeLa_SAHA_4h_R1 1 STGPTAATGSNRR 13 1 Q15836 Q15836 VAMP3 Vesicle-associated membrane protein 3 1 0 STGPTAAT(0.659)GS(0.341)NRR 109.44 0.00082056 3088400 0 0 0 124.86 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 127.2768459 0 0 0 0 0 0 0 (ac)STNENANT(ph)PAAR ddPTM_HeLa_SAHA_4h_R1 2 STNENANTPAAR 12 0 P52292;J3QLL0;J3KS65;J3QL07 P52292 KPNA2 Importin subunit alpha-1 1 0 STNENANT(1)PAAR;STNENANT(1)PAAR ; 195.77 6.42E-31 25061800 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)STVHEILCK ddPTM_HeLa_SAHA_4h_R1 1 STVHEILCK 9 0 P07355;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YNP5;H0YKS4;H0YMM1;H0YKX9;H0YMT9;H0YLV6;H0YKZ7;H0YKL9;H0YKV8;H0YMD9;H0YNB8;H0YKN4 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 62.2 0.0076122 20778000 4002.8 4976.4 2441.9 4115.7 6076.5 5756.7 5565 5954.1 5351.5 3630.5 FALSE FALSE TRUE 4423.83287 5137.638625 2774.669415 4195.365325 5610.919883 5266.196774 4938.811554 5801.802743 5314.258476 3787.028622 1.168154062 1.356641087 0.73267717 1.10782509 1.481615388 1.390588057 1.304138956 1.532019776 1.403279195 1 11.88685061 -5.796979018 7.878006452 1.076826692 1.415640873 0.362209519 0.186904885 0.131723129 24.70109631 0.023151669 0.042461846 1.60E-06 5.796979018 0.338814181 (ac)SVPAFIDISEEDQAAELR ddPTM_HeLa_SAHA_4h_R1 2 SVPAFIDISEEDQAAELR 18 0 Q7L2H7;E9PRI2;E7ESM3 Q7L2H7 EIF3M Eukaryotic translation initiation factor 3 subunit M 0 0 ; ; 147.33 3.56E-12 2690500 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 (ac)T(ph)T(ph)EEAMPEKAK ddPTM_HeLa_SAHA_4h_R1 1 TTEEAMPEKAK 11 1 A0A1B0GVS1;A0A1B0GUF7;A0A1B0GVH7 A0A1B0GVS1 2 0 T(1)T(1)EEAMPEKAK 52.482 0.008605 0 206.11 234.17 237.38 266.01 229.19 233.4 219.29 167.68 367.26 144.1 TRUE FALSE FALSE 227.7895955 241.7572616 269.7289102 271.1590082 211.6295117 213.5130069 194.6149121 163.3909884 364.7042078 150.3128562 1.515436545 1.608360507 1.794450036 1.803964179 1.407926887 1.420457387 1.294732313 1.087006079 2.42630083 1 7.231824598 -9.061563562 0.895733589 1.007227939 1.500986988 0 0.487117576 0.447327109 0.663940745 0.138224042 0.043942488 8.68E-10 9.061563562 0.493759049 (ac)T(ph)T(ph)SQKHRDFVAEPMGEKPVGSLAGIGEVLGK ddPTM_HeLa_SAHA_4h_R1 2 TTSQKHRDFVAEPMGEKPVGSLAGIGEVLGK 31 3 O75531 O75531 BANF1 "Barrier-to-autointegration factor;Barrier-to-autointegration factor, N-terminally processed" 2 0 T(0.657)T(0.657)S(0.657)QKHRDFVAEPMGEKPVGS(0.03)LAGIGEVLGK;T(0.634)T(0.634)S(0.634)QKHRDFVAEPMGEKPVGS(0.099)LAGIGEVLGK ; 43.992 0.0026861 62928000 4650.84 2391.96 3858.87 3406.88 3634.53 3421.89 3746.2 4841 2259.83 3279.08 TRUE FALSE FALSE 5140.03669 2469.461073 4384.736707 3472.825089 3356.053097 3130.325721 3324.667717 4717.17423 2244.103659 3420.457186 1.502733819 0.721968129 1.28191539 1.015310206 0.981170912 0.915177577 0.971995127 1.379106351 0.656082955 1 11.73997346 -7.270297978 24.92108617 1.237402068 1.037134623 0 0.276334904 958.4569964 2696335.574 0.041184211 0.047461977 5.37E-08 7.270297978 -0.200267445 (ac)TECFLPPTS(ph)SPSEHR ddPTM_HeLa_SAHA_4h_R1 1 TECFLPPTSSPSEHR 15 0 J3QLT3;E7ENF8;A0A1W2PRI7;Q15311 J3QLT3 RALBP1 RalA-binding protein 1 1 0 T(0.294)ECFLPPT(0.022)S(0.66)S(0.021)PS(0.002)EHR 91.076 0.00043295 4697400 0 0 0 67.585 73.885 0 0 64.036 0 0 TRUE FALSE FALSE 0 0 0 68.8932054 68.22394726 0 0 62.39805184 0 0 0 (ac)TECFLPPTSS(ph)PSEHR ddPTM_HeLa_SAHA_4h_R1 1 TECFLPPTSSPSEHR 15 0 J3QLT3;E7ENF8;A0A1W2PRI7;Q15311 J3QLT3 RALBP1 RalA-binding protein 1 1 0 TECFLPPT(0.001)S(0.153)S(0.567)PS(0.279)EHR 81.703 0.00070461 5283500 119.6 57.741 0 111.15 173.92 206.21 189.9 0 63.958 58.449 TRUE FALSE FALSE 132.1800767 59.61184629 0 113.301469 160.5942872 188.6397479 168.5319522 0 63.51291107 60.96902243 2.167987471 0.977739906 0 1.858344852 2.63403087 3.09402612 2.764222641 0 1.041724281 1 5.930004509 -10.67361679 0.495069622 1.26E-14 1.813980492 0.055993945 1.028411687 12.85344768 1.682589182 14.60375956 0.256289971 2.12E-11 10.67361679 1.813980492 (ac)TEVMMNTQPMEEIGLS(ph)PR ddPTM_HeLa_SAHA_4h_R1 8 TEVMMNTQPMEEIGLSPR 18 0 B5MBX5 B5MBX5 LBH 1 0 T(0.002)EVMMNT(0.001)QPMEEIGLS(0.997)PR;TEVMMNTQPMEEIGLS(1)PR;TEVMMNTQPMEEIGLS(1)PR;TEVMMNTQPMEEIGLS(1)PR;TEVMMNTQPMEEIGLS(1)PR;TEVMMNTQPMEEIGLS(1)PR;TEVMMNTQPMEEIGLS(1)PR;TEVMMNTQPMEEIGLS(1)PR ;;;;;;; 203.93 3.53E-60 22825200 0 170.78 0 0 0 156.89 0 128.62 0 0 TRUE FALSE FALSE 0 176.3133841 0 0 0 143.5220894 0 125.3300866 0 0 0 (ac)TRKQAVNS(ph)S(ph)R ddPTM_HeLa_SAHA_4h_R1 1 TRKQAVNSSR 10 2 Q96NX9-4 Q96NX9-4 2 0 TRKQAVNS(1)S(1)R 51.463 0.022243 3189300 815.74 1195.1 1104.4 963.35 1010.9 1399.1 1267.9 1215.3 1050.4 1511.1 TRUE FALSE FALSE 901.5432759 1233.822024 1254.901881 981.9970323 933.4450604 1279.888809 1125.232555 1184.214386 1043.090181 1576.250916 0.571954165 0.782757372 0.796130786 0.622995376 0.592193191 0.811982912 0.713866392 0.751285454 0.661753893 1 10.62228149 -9.473928767 1.173892334 1.002472611 0.694362251 0 0.130918688 0.25353365 0.616967436 0.064098567 0.015231713 3.36E-10 9.473928767 -0.30811036 (ac)TS(ph)PAAAQSR ddPTM_HeLa_SAHA_4h_R1 1 TSPAAAQSR 9 0 Q32MZ4-3;Q32MZ4-2;Q32MZ4;C9JTC6 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 T(0.232)S(0.768)PAAAQSR 68.626 0.01612 2653900 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)TTYLEFIQQNEER ddPTM_HeLa_SAHA_4h_R1 1 TTYLEFIQQNEER 13 0 F5H365;Q15436;G3V5K1;G3V5X8;G3V4Q2;G3V4V1;G3V1W4;G3V3G5;G3V2R6 F5H365 SEC23A Protein transport protein Sec23A 0 0 99.788 0.00098769 0 219.47 250 192.63 0 161.94 288.27 283.51 287.48 356.77 264.97 FALSE FALSE TRUE 242.5548616 258.100164 218.8806132 0 149.5321922 263.7077742 251.6087086 280.1266779 354.2872085 276.3941534 0.877568713 0.933811952 0.791914773 0 0.541010692 0.954100407 0.910325727 1.013504354 1.281818751 1 8.110583288 -6.527104243 19.69491062 0.936271997 0.672709277 0.210966697 0.291304319 12.29363903 57297.1455 0.045269151 0.064335812 2.97E-07 6.527104243 -0.26356272 (ac)VAEVCSMPTAS(ph)T(ph)VK ddPTM_HeLa_SAHA_4h_R1 1 VAEVCSMPTASTVK 14 0 A0A087X1W7;Q86YR6 A0A087X1W7 POTED POTE ankyrin domain family member D 2 0 VAEVCS(0.039)MPT(0.269)AS(0.864)T(0.828)VK 71.806 0.0058294 3964700 582.84 644.44 832.53 1799.5 367.27 596.06 814.41 1321.6 1084.2 957.19 TRUE FALSE FALSE 644.1457854 665.3202788 945.9828528 1834.331925 339.1298519 545.2723347 722.7704434 1287.795386 1076.654964 998.4591453 0.645139852 0.666347023 0.947442724 1.837162725 0.339653208 0.546113817 0.723885846 1.289782754 1.078316493 1 9.963559587 -4.252096967 23.32387304 0.835517548 1.289783386 0.093002008 0.388430958 866.7519513 2163773.224 0.052271144 0.830450749 5.60E-05 4.252096967 0.454265838 (ac)VCS(ph)PVT(ph)LR ddPTM_HeLa_SAHA_4h_R1 1 VCSPVTLR 8 0 C9JER0;C9J370;A0A0J9YWR1;Q6PJE2-5;Q6PJE2 C9JER0 POMZP3 POM121 and ZP3 fusion protein 2 0 VCS(1)PVT(1)LR 44.318 0.0084339 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 (ac)VDYSVWDHIEVS(ph)DDEDETHPNIDTASLFR ddPTM_HeLa_SAHA_4h_R1 2 VDYSVWDHIEVSDDEDETHPNIDTASLFR 29 0 K7EQA9;K7EKQ2;Q16543;K7EJ06 K7EQA9 CDC37 "Hsp90 co-chaperone Cdc37;Hsp90 co-chaperone Cdc37, N-terminally processed" 1 0 VDY(0.069)S(0.08)VWDHIEVS(0.851)DDEDETHPNIDTASLFR;VDY(0.106)S(0.121)VWDHIEVS(0.772)DDEDET(0.001)HPNIDTASLFR ; 68.587 1.63E-07 24916700 0 57.383 0 50.205 0 62.176 0 0 0 0 TRUE FALSE FALSE 0 59.24224685 0 51.17679037 0 56.87825501 0 0 0 0 0 (ac)VNPTVFFDIAVDGEPLGR ddPTM_HeLa_SAHA_4h_R1 2 VNPTVFFDIAVDGEPLGR 18 0 P62937;F8WE65;C9J5S7;E5RIZ5 P62937 PPIA "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed;Peptidyl-prolyl cis-trans isomerase" 0 0 ; ; 234.49 2.65E-102 21931000 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 (ac)VSVINTVDTSHEDMIHDAQMDYYGTR ddPTM_HeLa_SAHA_4h_R1 3 VSVINTVDTSHEDMIHDAQMDYYGTR 26 0 P55735 P55735 SEC13 Protein SEC13 homolog 0 0 ;; ;; 128.88 9.42E-11 13269800 280.79 373.44 310.982 267.675 360.88 470.19 469.01 66.265 398.4 396.87 FALSE FALSE TRUE 310.3247805 385.539701 353.3610074 272.8562367 333.2294524 430.1271668 416.2357604 64.57003725 395.627502 413.9810079 0.749611153 0.931298039 0.853568161 0.659103272 0.804938985 1.039002173 1.005446512 0.155973429 0.955665826 1 8.693420773 -13.52287875 0.031540932 2.144633007 4.69E-14 0.171838814 0.226316061 1791.150063 4.532882119 239.0964476 98.27688568 3.00E-14 13.52287875 -2.144633007 AAAAAAALQAK ddPTM_HeLa_SAHA_4h_R1 3 AAAAAAALQAK 11 0 P36578;H3BM89;H3BU31 P36578 RPL4 60S ribosomal protein L4 0 0 ;; ;; 176.4 3.73E-11 2596900 4720.2 4611.2 5256.8 4624.8 5693.4 4268.4 6368.9 4385.9 3671.35 4427.3 FALSE FALSE TRUE 5216.692293 4760.605906 5973.169328 4714.319692 5257.172922 3904.708307 5652.25461 4273.715029 3645.800776 4618.18257 1.129598541 1.030839694 1.293402597 1.02081709 1.13836403 0.845507567 1.223913201 0.925410584 0.789444922 1 12.17310949 AAAAAAGSGT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 AAAAAAGSGTPR 12 0 Q9NR33 Q9NR33 POLE4 DNA polymerase epsilon subunit 4 1 0 AAAAAAGS(0.092)GT(0.908)PR;AAAAAAGS(0.003)GT(0.997)PR ; 128.88 0.001935 4671800 1629.8 1709.43 1253.61 2832.3 2079.58 3328.5 2273.92 3337.9 4734.9 3352.2 TRUE FALSE FALSE 1801.229842 1764.816654 1424.445442 2887.123262 1920.24303 3044.893074 2018.052537 3252.521351 4701.949445 3496.729747 0.515118403 0.504704905 0.407365037 0.825663826 0.549153972 0.870783073 0.577125681 0.930160918 1.344670531 1 11.77179058 -9.395602747 1.140704847 0.998434227 0.632589164 0.472132996 0.201844194 0.382673725 0.896498967 0.109409841 0.028421596 4.02E-10 9.395602747 -0.365845062 AAAAAATAPPS(ph)PGPAQPGPR ddPTM_HeLa_SAHA_4h_R1 2 AAAAAATAPPSPGPAQPGPR 20 0 Q6SPF0 Q6SPF0 SAMD1 Atherin 1 0 AAAAAAT(0.086)APPS(0.914)PGPAQPGPR;AAAAAAT(0.002)APPS(0.998)PGPAQPGPR ; 140.3 4.87E-05 103552000 3310.79 3789.4 3623.36 4130.3 4368.7 5072.7 4597.3 4444.4 4099.8 4001.6 TRUE FALSE FALSE 3659.034083 3912.179046 4117.132631 4210.247929 4033.97115 4640.477422 4079.999705 4330.718683 4071.269158 4174.128559 0.87659832 0.937244503 0.986345431 1.008653152 0.966422354 1.111723646 0.97744946 1.037514447 0.975357874 1 12.02725932 -6.331746957 1.592850331 0.940218529 1.025491861 0.341769195 0.047345573 0.351492184 1.747860449 0.009421965 0.016670712 4.66E-07 6.331746957 0.085273332 AAAAAPAS(ph)EDEDDEDDEDDEDDDDDEEDDS(ph)EEEAMETTPAK ddPTM_HeLa_SAHA_4h_R1 2 AAAAAPASEDEDDEDDEDDEDDDDDEEDDSEEEAMETTPAK 41 0 P19338 P19338 NCL Nucleolin 2 0 AAAAAPAS(1)EDEDDEDDEDDEDDDDDEEDDS(0.961)EEEAMET(0.027)T(0.012)PAK;AAAAAPAS(1)EDEDDEDDEDDEDDDDDEEDDS(0.993)EEEAMET(0.006)T(0.002)PAK ; 98.179 5.46E-14 18909000 19982.3 20475.7 19634.9 17649.8 24080 25655 25540 22861 21526 20893 TRUE FALSE FALSE 22084.13 21139.12611 22310.64192 17991.4374 22234.9956 23469.04967 22666.17198 22276.24872 21376.19881 21793.79948 1.013321703 0.969960568 1.023715114 0.825530097 1.020244112 1.076868202 1.040028473 1.022136996 0.980838556 1 14.41163011 -5.525114738 24.99923589 0.990737165 1.046186835 0.238348464 0.055735175 94.45856304 1056086.312 0.008125185 0.01634008 2.98E-06 5.525114738 0.05544967 AAAAWEERFS(ph)SLRR ddPTM_HeLa_SAHA_4h_R1 1 AAAAWEERFSSLRR 14 2 C9JY79;Q9H254-4;Q9H254;Q9H254-3 C9JY79 SPTBN4 "Spectrin beta chain, non-erythrocytic 4" 1 0 AAAAWEERFS(0.5)S(0.5)LRR 67.997 0.023345 3329400 0 0 65.93 66.856 0 0 0 73.116 118 0 TRUE FALSE FALSE 0 0 74.91459705 68.15009456 0 0 0 71.24579859 117.1788284 0 0 AAAAWEERFSS(ph)LRR ddPTM_HeLa_SAHA_4h_R1 1 AAAAWEERFSSLRR 14 2 C9JY79;Q9H254-4;Q9H254;Q9H254-3 C9JY79 SPTBN4 "Spectrin beta chain, non-erythrocytic 4" 1 0 AAAAWEERFS(0.371)S(0.629)LRR 84.365 0.0096868 4211200 0 0 0 0 127.86 290.11 0 222.63 62.551 0 TRUE FALSE FALSE 0 0 0 0 118.0633944 265.3909959 0 216.935447 62.1157025 0 0 AAAGEEETAAAGS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 2 AAAGEEETAAAGSPGR 16 0 Q9NS37;E9PIM0 Q9NS37 CREBZF CREB/ATF bZIP transcription factor 1 0 AAAGEEETAAAGS(1)PGR;AAAGEEETAAAGS(1)PGR ; 196.18 2.33E-12 13373300 765.41 749.2 588.6 784.04 926.7 710.64 681.97 733.16 591.18 772.25 TRUE FALSE FALSE 845.9193356 773.4745716 668.8113427 799.2162279 855.6964462 650.089474 605.2329408 714.4068288 587.0659302 805.5454768 1.0501199 0.960187344 0.830258951 0.992142903 1.062257155 0.80701772 0.751333051 0.886860952 0.728780618 1 9.653822228 -5.188744185 0.546856204 1.019038159 0.757633515 0 0.122866665 1.247094189 0.450756147 0.018221421 0.172833519 6.48E-06 5.188744185 -0.261404644 AAAGEEETAAAGS(ph)PGRK ddPTM_HeLa_SAHA_4h_R1 2 AAAGEEETAAAGSPGRK 17 1 Q9NS37;E9PIM0 Q9NS37 CREBZF CREB/ATF bZIP transcription factor 1 0 AAAGEEETAAAGS(1)PGRK;AAAGEEETAAAGS(1)PGRK ; 103.73 0.0011838 26527000 2249.53 2392.55 1981.08 2409.39 2207.54 3038.9 2241.22 2522.46 2664.8 2329.6 TRUE FALSE FALSE 2486.145887 2470.07019 2251.051265 2456.027227 2038.398762 2779.968624 1989.032027 2457.939126 2646.25544 2430.040457 1.02308827 1.016472867 0.926343123 1.010693966 0.838833262 1.144000963 0.818518071 1.011480743 1.088975878 1 11.24676462 -6.78021275 24.31110128 1.011625196 0.957348029 0.123069209 0.090094089 312.6513362 404875.452 0.012310739 0.016196522 1.66E-07 6.78021275 -0.054277167 AAAGELQEDSGLCVLAR ddPTM_HeLa_SAHA_4h_R1 1 AAAGELQEDSGLCVLAR 17 0 Q96C19;H0Y4Y4 Q96C19 EFHD2 EF-hand domain-containing protein D2 0 0 107.65 0.0030595 0 305.3 466.55 243.99 562.56 519.84 403.37 458.55 517.13 446.6 476.09 FALSE FALSE TRUE 337.4128548 481.6665261 277.2396866 573.4491623 480.0099715 369.0006067 406.9527472 503.9025634 443.4920742 496.6165698 0.679423272 0.969896204 0.55825702 1.1547121 0.966560523 0.743029188 0.819450602 1.014671266 0.893027138 1 8.955988588 -6.240806522 24.96807957 0.835999397 0.923572801 0.114444665 0.160232128 2140.622045 2590393.877 0.026796812 0.0444018 5.74E-07 6.240806522 0.087573404 AAAGQGS(ph)VAGK ddPTM_HeLa_SAHA_4h_R1 1 AAAGQGSVAGK 11 0 Q8N4M7 Q8N4M7 C10orf126 Putative uncharacterized protein C10orf126 1 0 AAAGQGS(1)VAGK 85.161 0.019405 8554100 1730.6 1573.9 1669.7 2038.9 1825.8 1813.7 1664 1822.9 1086.4 1163.2 TRUE FALSE FALSE 1912.632448 1624.895393 1897.238021 2078.365858 1685.907598 1659.162556 1476.762341 1776.272858 1078.839654 1213.351245 1.576322155 1.33917973 1.563634627 1.712913608 1.389463773 1.367421481 1.217093852 1.463939536 0.889140435 1 10.24478153 -9.367835527 1.004741083 0.990380561 1.458497294 0.674005782 0.139394362 0.313717301 0.547873256 0.108294013 0.025816668 4.29E-10 9.367835527 0.468116733 AAAPPQPS(ph)PPPTK ddPTM_HeLa_SAHA_4h_R1 1 AAAPPQPSPPPTK 13 0 J3KR72;P49848-4;P49848-2;P49848;P49848-3 J3KR72 TAF6 Transcription initiation factor TFIID subunit 6 1 0 AAAPPQPS(0.951)PPPT(0.049)K 101.2 0.0049376 9795600 1186.8 1233.6 1177.4 1068.4 1481.7 1365.2 1508.1 1458.2 1368.9 1197 TRUE FALSE FALSE 1311.633069 1273.569449 1337.84994 1089.080427 1368.172466 1248.87728 1338.404619 1420.901355 1359.373713 1248.608528 1.050475822 1.019990991 1.071472692 0.872235294 1.095757746 1.000215241 1.071916929 1.137987867 1.088710899 1 10.28610551 -4.414318641 2.39552183 1.020355485 1.147945893 0.246493329 0.060715428 0.367998094 3.153188889 0.007385309 0.083542446 3.85E-05 4.414318641 0.127590408 KGAAIPAK(ac)GAK ddPTM_HeLa_SAHA_4h_R1 1 KGAAIPAKGAK 11 2 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 KGAAIPAK(1)GAK 103.08 0.0052829 0 6232 7288.8 10004 12301 13175 12361 14866 11487 3356.3 4186.6 FALSE TRUE FALSE 6887.510353 7524.961902 11367.29302 12539.10364 12165.53435 11307.77326 13193.23855 11193.17917 3332.943235 4367.104815 1.577134199 1.723100823 2.602935699 2.871262352 2.785720715 2.589306586 3.021049211 2.563066299 0.763192865 1 12.09246144 -7.029698395 0.946521581 1.182586657 2.821623911 0.910658568 0.231681587 0.096262876 0.170478043 0.046019553 0.06204737 9.34E-08 7.029698395 1.639037253 up SSQPLASK(ac)QEK ddPTM_HeLa_SAHA_4h_R1 2 SSQPLASKQEK 11 1 P17096;P17096-2;P17096-3;A0A669KAX1 P17096 HMGA1 High mobility group protein HMG-I/HMG-Y 0 1 ; SSQPLASK(1)QEK;SSQPLASK(1)QEK 220.29 4.89E-34 527200000 6658.3 7475 8156.1 10357.7 11307.3 11013.5 12686.1 11123.3 5021.8 5144 FALSE TRUE FALSE 7358.650543 7717.194905 9267.570833 10558.18826 10440.93712 10075.08784 11258.62664 10838.78209 4986.852885 5365.783014 1.371402929 1.43822344 1.72716094 1.967688263 1.945836626 1.877654727 2.098226225 2.019981439 0.929380273 1 12.389573 -6.988424699 0.470358367 1.034730662 2.102563613 0.953064346 0.087914888 0.131459055 0.068270293 0.034583022 0.051915588 1.03E-07 6.988424699 1.06783295 up AAASK(ac)LGEFAK ddPTM_HeLa_SAHA_4h_R1 1 AAASKLGEFAK 11 1 P30153;C9J9C1;B3KQV6;P30154-4;P30154;P30154-3;P30154-2 P30153 PPP2R1A;PPP2R1B Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform;Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform 0 1 AAASK(1)LGEFAK 100.55 0.010398 963810 0 83.736 0 171.34 203.1 225.68 247.06 233.79 0 159.45 FALSE TRUE FALSE 0 86.44910134 0 174.6565335 187.5385219 206.4507944 219.2601586 227.8099903 0 166.3246698 0 0.519761148 0 1.050093974 1.127544832 1.241251791 1.318266008 1.36967048 0 1 7.37785836 -6.068978627 6.062457162 0.479017233 1.247056332 0.665580408 0.315804187 0.157068736 10.74466312 0.060853271 0.102249967 8.53E-07 6.068978627 0.768039099 AAASPPT(ph)PIR ddPTM_HeLa_SAHA_4h_R1 1 AAASPPTPIR 10 0 Q6PGN9-4;Q5T2Z1;Q6PGN9-2 Q6PGN9-4 PSRC1 1 0 AAAS(0.041)PPT(0.959)PIR 110.84 0.0094511 17633000 2258.6 2524.8 2456 2501.5 2660.7 3187.8 2805.4 3051.5 2544.3 2393.6 TRUE FALSE FALSE 2496.169911 2606.605177 2790.69089 2549.92015 2456.837741 2916.181506 2489.729009 2973.447049 2526.594009 2496.79981 0.999747717 1.043978442 1.117707106 1.02127537 0.983994684 1.16796769 0.997168054 1.190903266 1.011932955 1 11.28586444 -1 0.235958616 0.9930797 1.819791686 0.302821413 0.060624843 39.2929359 0.482086877 0.035280791 12.78855041 0.1 1 0.826711986 AAAT(ph)PESQEPQAK ddPTM_HeLa_SAHA_4h_R1 3 AAATPESQEPQAK 13 0 P49006 P49006 MARCKSL1 MARCKS-related protein 1 0 AAAT(1)PESQEPQAK;AAAT(0.533)PES(0.467)QEPQAK;AAAT(0.997)PES(0.003)QEPQAK ;; 175.21 2.73E-05 37571000 10598.8 10592.3 10382 10527.3 10913.4 12260 12538.8 12096 10915.6 10633.3 TRUE FALSE FALSE 11713.63041 10935.49747 11796.80489 10731.07111 10077.21765 11215.37903 11127.90122 11786.60183 10839.63745 11091.7536 1.056066591 0.985912405 1.063565358 0.967481924 0.908532412 1.011145706 1.003258964 1.06264548 0.977269947 1 13.43719985 -6.24456559 24.98297812 1.025989645 0.987896142 0.056568443 0.044778542 1248.790828 1848930.948 0.006691332 0.011081933 5.69E-07 6.24456559 -0.038093503 AAATGNAS(ph)PGKLEHSK ddPTM_HeLa_SAHA_4h_R1 1 AAATGNASPGKLEHSK 16 1 H0Y6H0;Q8NB78 H0Y6H0 KDM1B Lysine-specific histone demethylase 1B 1 0 AAATGNAS(0.999)PGKLEHS(0.001)K 61.495 0.013949 10246000 5482.7 4857.6 4678.2 5467.5 5649.1 5628.9 6360 6406.9 5841.9 4967.9 TRUE FALSE FALSE 6059.395542 5014.989427 5315.720733 5573.331369 5216.267178 5149.286053 5644.356061 6243.020775 5801.245742 5182.090481 1.169295589 0.967754123 1.025786939 1.07549866 1.006595156 0.993669653 1.089204459 1.204730176 1.119479824 1 12.33931849 -4.301599989 3.814277342 1.059052933 1.213942919 0.373666348 0.06016004 0.242992089 6.576233311 0.010374675 0.096960703 4.99E-05 4.301599989 0.154889986 GAAIPAK(ac)GAK ddPTM_HeLa_SAHA_4h_R1 2 GAAIPAKGAK 10 1 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 ; GAAIPAK(1)GAK;GAAIPAK(1)GAK 127.46 0.0011726 16619900 12405.7 15592.5 25503 29711 32321 21897 37357 20256.8 3970.3 8225.4 FALSE TRUE FALSE 13710.58845 16097.70723 28978.41603 30286.09937 29844.57196 20031.25241 33153.49204 19738.66039 3942.670359 8580.037248 1.597963744 1.876181509 3.377423103 3.529833087 3.47837324 2.334634668 3.864026587 2.300533181 0.459516695 1 13.0667682 -6.949104262 2.544473945 1.279607057 3.179577562 0.741592291 0.561296894 0.097337479 1.277656892 0.082723175 0.109600705 1.12E-07 6.949104262 1.899970504 up AAAYDIS(ph)EDEED ddPTM_HeLa_SAHA_4h_R1 2 AAAYDISEDEED 12 0 P49585 P49585 PCYT1A Choline-phosphate cytidylyltransferase A 1 0 AAAYDIS(1)EDEED;AAAYDIS(1)EDEED ; 106.29 0.0038735 53634000 4350.7 4960.2 3921.6 4156.3 5437.6 5794.4 4763.4 4231.2 5323.9 4282.3 TRUE FALSE FALSE 4808.326588 5120.913735 4456.015225 4236.751197 5020.972263 5300.684522 4227.409695 4122.972031 5286.850546 4466.93091 1.076427347 1.146405404 0.997556335 0.948470277 1.124031771 1.186650214 0.94637902 0.922998836 1.183553239 1 12.12506823 -4.55383964 24.99910122 1.050595317 0.928843572 0.28670895 0.082015381 158.4947796 127974.9444 0.010256659 0.038377693 2.79E-05 4.55383964 -0.121751745 AADAEAEVAS(ph)LNRR ddPTM_HeLa_SAHA_4h_R1 1 AADAEAEVASLNRR 14 1 J3KN67;A0A2R2Y2Q3;P06753;A0A494C0P6 J3KN67 TPM3 Tropomyosin alpha-3 chain 1 0 AADAEAEVAS(1)LNRR 77.191 0.010217 4574800 1216.3 1533.1 1235.7 1491.8 1374.2 1568.1 1669.6 1281 1340.9 1609.3 TRUE FALSE FALSE 1344.236015 1582.773446 1404.094761 1520.675946 1268.909093 1434.489058 1481.732214 1248.233875 1331.568568 1678.684799 0.800767372 0.942865181 0.836425493 0.905873424 0.75589479 0.854531511 0.882674469 0.74357847 0.793221318 1 10.71311565 -9.439454294 0.860534611 1.013721413 0.840496562 0 0.087108881 0.474679208 0.543820394 0.058058414 0.010622741 3.64E-10 9.439454294 -0.173224851 AADAEAEVASLNRR ddPTM_HeLa_SAHA_4h_R1 1 AADAEAEVASLNRR 14 1 J3KN67;A0A2R2Y2Q3;P06753;A0A494C0P6 J3KN67 TPM3 Tropomyosin alpha-3 chain 0 0 169.09 7.76E-06 10093000 1225.9 1307 1436.1 1538.1 1615.7 1608.1 1296.3 1519.1 1119.2 1351.3 FALSE FALSE TRUE 1354.845787 1349.347658 1631.804229 1567.87215 1491.905415 1471.080833 1150.436912 1480.243622 1111.411396 1409.561156 0.961182692 0.957282096 1.157668273 1.112312256 1.058418366 1.04364456 0.816166725 1.050145015 0.788480437 1 10.46103036 -3.922476794 21.03127186 0.99892585 3.237265382 0.019154364 0.111553946 2404.168818 696580.2387 0.012423119 17315.45019 0.000119543 3.922476794 2.238339532 AADEEAFEDNSEEYIRR ddPTM_HeLa_SAHA_4h_R1 2 AADEEAFEDNSEEYIRR 17 1 P55060-4;P55060-3;P55060 P55060-4 CSE1L Exportin-2 0 0 ; ; 202.92 3.32E-15 62811000 3218.4 3403.2 3341.5 3506.3 3695.6 3502.8 3853.2 3616.1 2475.7 3637.9 FALSE FALSE TRUE 3556.926079 3513.465913 3796.862218 3574.169507 3412.443926 3204.341734 3419.627795 3523.605398 2458.471402 3794.747672 0.937328746 0.925876031 1.00055723 0.941872771 0.899254501 0.844414968 0.90114761 0.92854801 0.647861627 1 11.88978824 -5.846580384 3.367890674 0.96775905 0.889636215 0 0.105323386 0.145383608 3.280163744 0.005160378 0.009979121 1.42E-06 5.846580384 -0.078122834 AADGGERPLAAS(ph)PPGTVK ddPTM_HeLa_SAHA_4h_R1 2 AADGGERPLAASPPGTVK 18 1 M0QXA7;A0A669KBH9;A0A669KAV7;O95785-3;B9EGQ5;A0A669KBG4;A0A2R8YFV2;O95785-4;O95785;O95785-2 M0QXA7 WIZ Protein Wiz 1 0 AADGGERPLAAS(1)PPGTVK;AADGGERPLAAS(1)PPGTVK ; 125.75 0.00017539 28579800 3527.1 3873.4 3449.52 3327 4247.18 4382.9 4627.5 4228.7 4441.3 3791.8 TRUE FALSE FALSE 3898.096561 3998.900701 3919.602621 3391.398896 3921.761986 4009.452262 4106.801521 4120.535977 4410.392632 3955.283055 0.985541744 1.011027693 0.990979044 0.857435195 0.991524989 1.013695406 1.038307869 1.041780302 1.115063719 1 11.94956523 -5.029161279 2.866408595 0.983852823 1.039512166 0.078716413 0.058576039 0.312102062 5.096160487 0.006138427 0.020108688 9.35E-06 5.029161279 0.055659343 AADIS(ph)LDNLVEGK ddPTM_HeLa_SAHA_4h_R1 4 AADISLDNLVEGK 13 0 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 AADIS(1)LDNLVEGK;AADIS(1)LDNLVEGK;AADIS(1)LDNLVEGK;AADIS(1)LDNLVEGK ;;; 191.63 1.64E-07 45527900 7861.78 8436.92 8436.63 9366.38 9745.6 11614.6 9242.12 8931.3 9881.1 9423.22 TRUE FALSE FALSE 8688.718092 8710.281744 9586.33 9547.679829 8998.894233 10624.97074 8202.172334 8702.850278 9812.336621 9829.50113 0.883942936 0.886136705 0.975261091 0.971329033 0.91549857 1.080926753 0.834444416 0.885380668 0.998253776 1 13.26290248 -5.153900422 0.007388966 1.843762032 3.04E-07 0.092122324 0.067206838 18157.62914 29.31047509 3520.536311 3796.3365 7.02E-06 5.153900422 -1.843761728 AADIS(ph)LDNLVEGKR ddPTM_HeLa_SAHA_4h_R1 2 AADISLDNLVEGKR 14 1 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 AADIS(1)LDNLVEGKR;AADIS(1)LDNLVEGKR ; 65.905 0.01873 19605100 5397.5 4917.4 5518.4 4653.3 5946 6276.9 5760.3 5734.2 5029.5 5516.5 TRUE FALSE FALSE 5965.233815 5076.726986 6270.418813 4743.37135 5490.418765 5742.072807 5112.135884 5587.527467 4994.4993 5754.343312 1.036648926 0.882242632 1.089684517 0.824311497 0.954134723 0.99786761 0.888396053 0.971010446 0.867952958 1 12.49043558 -7.286246415 24.63827683 1.01730644 0.945282179 0 0.083175482 713.1953573 708341.4657 0.010727167 0.012270004 5.17E-08 7.286246415 -0.072024261 AADKS(ph)PESQNLIDGTK ddPTM_HeLa_SAHA_4h_R1 2 AADKSPESQNLIDGTK 16 1 Q9HCE3 Q9HCE3 ZNF532 Zinc finger protein 532 1 0 AADKS(0.994)PES(0.006)QNLIDGTK;AADKS(0.93)PES(0.07)QNLIDGTK ; 133.52 0.00056042 23622000 4003.5 4313.7 3370 4211.7 4580.4 4895.7 4422.7 3895.9 5253.4 4061.2 TRUE FALSE FALSE 4424.606499 4453.46671 3829.24605 4293.223544 4229.450742 4478.558818 3925.046156 3796.248519 5216.841162 4236.298207 1.044451142 1.051263743 0.903913243 1.013437519 0.998383621 1.057186864 0.926527351 0.896124006 1.231462212 1 12.04858843 -4.634761979 5.653545994 1.014876809 0.903751913 0.253630897 0.079905742 0.117876524 5.251375126 0.005791731 0.022611591 2.32E-05 4.634761979 -0.111124896 AADPPAENS(ph)SAPEAEQGGAE ddPTM_HeLa_SAHA_4h_R1 1 AADPPAENSSAPEAEQGGAE 20 0 H0Y449;P67809 H0Y449 YBX1 Nuclease-sensitive element-binding protein 1 1 0 AADPPAENS(0.629)S(0.371)APEAEQGGAE 147.92 3.92E-05 39387000 1950.8 2145.4 1963.8 2116.7 2253.6 2533.6 2166.6 2117.1 2234 2065.5 TRUE FALSE FALSE 2155.994095 2214.912368 2231.416437 2157.671789 2080.929655 2317.723026 1922.808466 2062.947648 2218.453412 2154.553813 1.000668482 1.02801441 1.035674497 1.001447156 0.965828582 1.075732252 0.892439286 0.957482535 1.029657927 1 11.07317342 -4.744577245 24.99999722 1.00648372 0.924960903 0.546712933 0.032430649 131.9892768 195685.5877 0.003941571 0.014669595 1.80E-05 4.744577245 -0.081522817 AADPPAENSS(ph)APEAEQGGAE ddPTM_HeLa_SAHA_4h_R1 1 AADPPAENSSAPEAEQGGAE 20 0 H0Y449;P67809 H0Y449 YBX1 Nuclease-sensitive element-binding protein 1 1 0 AADPPAENS(0.206)S(0.794)APEAEQGGAE 112.67 0.00039299 34170000 2371.3 2316.7 2219.2 2553.1 2456 2228 2776.9 2459.6 2429.4 1971 TRUE FALSE FALSE 2620.724214 2391.7626 2521.621019 2602.518942 2267.821811 2038.161866 2464.435904 2396.686993 2412.493608 2055.979456 1.274684047 1.163320282 1.226481623 1.265829255 1.103037194 0.99133377 1.198667573 1.165715439 1.173403557 1 11.00561013 -2.141814096 1.659487911 1.142655926 41.55726166 0 0.09423506 15486.63417 44.71687861 0.017602137 2382099.627 0.007214162 2.141814096 40.41460573 AADRLPNLS(ph)SPSAEGPPGPPSGPAPR ddPTM_HeLa_SAHA_4h_R1 2 AADRLPNLSSPSAEGPPGPPSGPAPR 26 1 O60784-3;O60784-4;O60784;O60784-2 O60784-3 TOM1 Target of Myb protein 1 1 0 AADRLPNLS(0.771)S(0.206)PS(0.023)AEGPPGPPSGPAPR;AADRLPNLS(0.732)S(0.249)PS(0.019)AEGPPGPPSGPAPR ; 95.742 7.34E-06 17593600 1178.75 1170.19 966.25 1053.42 1532.37 1643.62 1652.91 1346.49 1431.17 1249.66 TRUE FALSE FALSE 1302.736333 1208.104924 1097.925518 1073.810467 1414.960142 1503.574329 1466.920217 1312.048735 1421.210371 1303.538958 0.999384272 0.926788506 0.842265213 0.823765535 1.085475914 1.153455614 1.12533669 1.006528211 1.09027073 1 10.34821799 -5.55723171 24.93937634 0.968913364 1.101685953 0.414368365 0.082340189 140.528111 102019.4183 0.012020088 0.02404025 2.77E-06 5.55723171 0.132772589 AADRLPNLSS(ph)PSAEGPPGPPSGPAPR ddPTM_HeLa_SAHA_4h_R1 2 AADRLPNLSSPSAEGPPGPPSGPAPR 26 1 O60784-3;O60784-4;O60784;O60784-2 O60784-3 TOM1 Target of Myb protein 1 1 0 AADRLPNLS(0.234)S(0.751)PS(0.015)AEGPPGPPSGPAPR;AADRLPNLS(0.213)S(0.758)PS(0.028)AEGPPGPPSGPAPR ; 117.33 7.17E-08 81095000 765.67 1201.87 631.36 1012.78 997.56 1187.51 1278.61 944.58 974.25 940.27 TRUE FALSE FALSE 846.2066836 1240.811377 717.3984528 1032.383821 921.1271683 1086.327467 1134.737438 920.4190113 967.4701149 980.8096413 0.862763423 1.265088886 0.731434952 1.052583272 0.93914979 1.10758237 1.156939522 0.938427777 0.986399475 1 9.93782935 -5.266619446 23.70090002 0.952761909 1.076578855 0.062908657 0.139517307 294.5108565 1347515.692 0.018712824 0.04310458 5.41E-06 5.266619446 0.123816946 AADS(ph)DDGAVSAPAASDGGVSK ddPTM_HeLa_SAHA_4h_R1 3 AADSDDGAVSAPAASDGGVSK 21 0 Q96GM8 Q96GM8 TOE1 Target of EGR1 protein 1 1 0 AADS(1)DDGAVSAPAASDGGVSK;AADS(1)DDGAVSAPAASDGGVSK;AADS(1)DDGAVSAPAASDGGVSK ;; 257.88 1.90E-93 10552100 1702.32 1617.41 1416.06 1546.44 1787.87 1879.33 1665.39 1484.43 1790.72 1522.73 TRUE FALSE FALSE 1881.377828 1669.815145 1609.033282 1576.373582 1650.883787 1719.200511 1477.995934 1446.46043 1778.258234 1588.382342 1.184461561 1.051267759 1.01300124 0.992439629 1.039349118 1.08235937 0.930503881 0.910650031 1.119540419 1 10.63334251 -3.382786817 0.533119228 1.079271005 0.516826811 0.451045587 0.058266773 7.588062779 0.739128402 0.015253484 3.288084542 0.000414203 3.382786817 -0.562444194 AADTEEMDIEMDS(ph)GDEA ddPTM_HeLa_SAHA_4h_R1 5 AADTEEMDIEMDSGDEA 17 0 Q9UBB5 Q9UBB5 MBD2 Methyl-CpG-binding domain protein 2 1 0 AADTEEMDIEMDS(1)GDEA;AADTEEMDIEMDS(1)GDEA;AADTEEMDIEMDS(1)GDEA;AADTEEMDIEMDS(1)GDEA;AADTEEMDIEMDS(1)GDEA ;;;; 143.4 0.00011709 46396500 9071.79 10938.59 10215.86 9506.68 10825.1 11233.11 12326.27 10817.3 11395.32 10584.65 TRUE FALSE FALSE 10026.0025 11293.00749 11608.0242 9690.695538 9995.683177 10275.98583 10939.28566 10540.60913 11316.01904 11041.00606 0.908069649 1.022824137 1.051355659 0.877700409 0.905323584 0.930711004 0.990787035 0.954678321 1.024908326 1 13.43058402 -6.223287704 24.9999077 0.967968631 0.933579062 0.203181377 0.050463364 1192.269703 781266.6684 0.008496826 0.014090131 5.98E-07 6.223287704 -0.034389569 AAEAAAAPAESAAPAAGEEPS(ph)KEEGEPK ddPTM_HeLa_SAHA_4h_R1 1 AAEAAAAPAESAAPAAGEEPSKEEGEPK 28 1 P80723 P80723 BASP1 Brain acid soluble protein 1 1 0 AAEAAAAPAESAAPAAGEEPS(1)KEEGEPK 124.32 1.31E-11 0 870.67 1341 1134.3 1096.6 1303.3 1062.7 1161.7 1257.2 1084.3 851.77 TRUE FALSE FALSE 962.2510654 1384.44928 1288.876497 1117.826279 1203.441436 972.1519814 1030.982459 1225.042644 1076.754268 888.4939732 1.08301361 1.558197716 1.450630545 1.258113518 1.354473381 1.094157091 1.160370796 1.378785542 1.211886969 1 9.79521818 -7.466869874 12.25714479 1.036581241 1.311594922 0.331826262 0.13841098 0.878497241 191.6355934 0.023090394 0.026289554 3.41E-08 7.466869874 0.275013681 AAEAGGAEEQYGFLT(ph)TPTK ddPTM_HeLa_SAHA_4h_R1 4 AAEAGGAEEQYGFLTTPTK 19 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 AAEAGGAEEQYGFLT(0.499)T(0.499)PT(0.003)K;AAEAGGAEEQYGFLT(0.912)T(0.088)PTK;AAEAGGAEEQYGFLT(0.898)T(0.102)PTK;AAEAGGAEEQYGFLT(0.488)T(0.488)PT(0.023)K ;;; 244.27 4.25E-41 371016000 7206.52 7788.97 6884.13 7962.88 7933.68 7592.3 7777.32 7836 8082.46 7179 TRUE FALSE FALSE 7964.534838 8041.337739 7822.263385 8117.013057 7325.803152 6945.393327 6902.195485 7635.566466 8026.213503 7488.521823 1.063565684 1.073821767 1.044567081 1.083927275 0.978270923 0.927471868 0.921703328 1.019636004 1.071802112 1 12.87046525 -5.580389215 6.711338062 1.038845906 0.952755255 0.612934215 0.035473449 0.123236062 11.22139947 0.00563401 0.011365488 2.63E-06 5.580389215 -0.086090651 AAEAGGAEEQYGFLTT(ph)PTK ddPTM_HeLa_SAHA_4h_R1 2 AAEAGGAEEQYGFLTTPTK 19 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 AAEAGGAEEQYGFLT(0.088)T(0.911)PT(0.001)K;AAEAGGAEEQYGFLT(0.103)T(0.896)PT(0.001)K ; 167.28 6.09E-10 47480000 2056.45 2230.14 1847.22 2086.15 2508.24 2494.62 2258.23 2274.39 2171.04 2033.31 TRUE FALSE FALSE 2272.756846 2302.397999 2098.949522 2126.53045 2316.059193 2282.064342 2004.128017 2216.214397 2155.931556 2120.975945 1.071561821 1.085537064 0.989614959 1.002618844 1.091978058 1.075950129 0.944908414 1.044903127 1.016480909 1 11.05051254 -4.772155155 24.99927736 1.039195691 0.994905754 0.159707175 0.042637794 283.9597761 662467.6772 0.006340613 0.019299117 1.69E-05 4.772155155 -0.044289937 AAEDDEDDDVDTK ddPTM_HeLa_SAHA_4h_R1 1 AAEDDEDDDVDTK 13 0 B8ZZQ6;P06454-2;P06454;B8ZZA1;B8ZZW7;H7C2N1 B8ZZQ6 PTMA "Prothymosin alpha;Prothymosin alpha, N-terminally processed;Thymosin alpha-1" 0 0 248.98 1.64E-31 214330000 2437.3 2755 2654.3 2474.4 2583.2 2371.5 2851.5 2594.3 2327.6 2137.3 FALSE FALSE TRUE 2693.666397 2844.263808 3016.014181 2522.29559 2385.275774 2169.434858 2530.641715 2527.941563 2311.402042 2229.449463 1.208220434 1.275769581 1.352806705 1.131353562 1.069894525 0.973080976 1.135097143 1.133886013 1.036759111 1 11.12247178 -3.283260087 2.810077391 1.122992733 2.400093395 0 0.114668858 5763.090229 456.5374391 0.018686156 46225.00346 0.000520883 3.283260087 1.277100662 AAEDDEDDDVDTKK ddPTM_HeLa_SAHA_4h_R1 7 AAEDDEDDDVDTKK 14 1 B8ZZQ6;P06454-2;P06454;B8ZZA1;B8ZZW7;H7C2N1 B8ZZQ6 PTMA "Prothymosin alpha;Prothymosin alpha, N-terminally processed;Thymosin alpha-1" 0 0 ;;;;;; ;;;;;; 245.94 3.71E-32 179082700 9642.91 9071.95 9473.22 10888.43 10280.67 11851.6 9664.62 11062.3 11237.97 10196.87 FALSE FALSE TRUE 10657.19552 9365.887132 10764.18109 11099.19131 9492.967286 10841.777 8577.131522 10779.34238 11159.76405 10636.50697 1.001945051 0.880541625 1.012003388 1.043499651 0.892489171 1.019298632 0.806386114 1.01342879 1.049194448 1 13.37673683 -5.52310864 0.423872809 1.001128682 0.908463777 0.10367492 0.073590785 3.302630819 0.797341936 0.020163289 0.132120508 3.00E-06 5.52310864 -0.092664905 AAEDS(ph)PYWVSPAYSK ddPTM_HeLa_SAHA_4h_R1 1 AAEDSPYWVSPAYSK 15 0 Q9NW82 Q9NW82 WDR70 WD repeat-containing protein 70 1 0 AAEDS(0.927)PYWVS(0.073)PAYSK 252.46 8.30E-44 11930000 1403.6 1225.3 1210.3 1317.3 1581.5 1702.9 1418 1458.5 1581.3 1413.8 TRUE FALSE FALSE 1551.237088 1265.000524 1375.233381 1342.798246 1460.325812 1557.80334 1258.442908 1421.193682 1570.295605 1474.755837 1.05186028 0.857769464 0.932515978 0.910522415 0.990215312 1.056312713 0.853322887 0.963680662 1.064783448 1 10.5262604 -7.288176046 24.97574436 1.024489578 0.939842588 0.37447908 0.058973266 648.1368319 605447.696 0.009971816 0.011404882 5.15E-08 7.288176046 -0.08464699 AAEDSPYWVS(ph)PAYSK ddPTM_HeLa_SAHA_4h_R1 3 AAEDSPYWVSPAYSK 15 0 Q9NW82 Q9NW82 WDR70 WD repeat-containing protein 70 1 0 AAEDS(0.044)PYWVS(0.956)PAYSK;AAEDSPYWVS(1)PAYSK;AAEDS(0.002)PY(0.003)WVS(0.994)PAYS(0.001)K ;; 260.49 3.04E-44 29608200 6885.9 6360.1 6577.4 6232.9 8088.2 8973.9 7798 7482.8 7434.2 7548 TRUE FALSE FALSE 7610.190556 6566.171413 7473.733818 6353.546792 7468.483863 8209.273234 6920.548517 7291.400811 7382.464797 7873.431219 0.966565954 0.833965679 0.949234662 0.806960347 0.948567868 1.042655102 0.878974912 0.92607665 0.937642635 1 12.94277678 -7.488262827 12.82947589 0.98526501 0.913791107 0.127874205 0.063800211 1.764499904 653.2964629 0.010611737 0.011802973 3.25E-08 7.488262827 -0.071473902 AAEEAFVNDIDESS(ph)PGTEWER ddPTM_HeLa_SAHA_4h_R1 2 AAEEAFVNDIDESSPGTEWER 21 0 P09496-2;P09496-5 P09496-2 CLTA Clathrin light chain A 1 0 AAEEAFVNDIDES(0.242)S(0.758)PGT(0.001)EWER;AAEEAFVNDIDES(0.072)S(0.902)PGT(0.026)EWER ; 197.47 2.40E-16 8426200 1701.94 1896.93 1810.17 2043.31 1921.03 2393.5 1952.21 2016.76 1891.74 1940.49 TRUE FALSE FALSE 1880.957858 1958.391777 2056.850541 2082.86122 1773.841096 2189.560335 1732.542193 1965.174199 1878.575227 2024.15402 0.929256291 0.967511245 1.016153178 1.029003326 0.876337017 1.081716269 0.855933973 0.97086199 0.928079192 1 10.98310336 -4.719283155 24.9999972 0.973710658 0.913398226 0.149980094 0.061153724 206.589558 122511.3753 0.007705264 0.028829945 1.91E-05 4.719283155 -0.060312432 AAEEAFVNDIDESSPGTEWER ddPTM_HeLa_SAHA_4h_R1 1 AAEEAFVNDIDESSPGTEWER 21 0 P09496-2;P09496-5 P09496-2 CLTA Clathrin light chain A 0 0 344.18 6.13E-145 3668100 1606.8 1533.9 1266.6 1299.9 1778.2 1925.4 1637.4 1701.9 1453.7 1554.6 FALSE FALSE TRUE 1775.810596 1583.599366 1439.205652 1325.061444 1641.9547 1761.345088 1453.155443 1658.367862 1443.583583 1621.626414 1.095079965 0.976550057 0.887507529 0.817118809 1.012535739 1.086159594 0.896109875 1.022657159 0.890207246 1 10.66322578 -7.067134616 7.145476746 1.044638734 0.951808749 0 0.089739197 0.302162455 27.98276626 0.013490511 0.016592765 8.57E-08 7.067134616 -0.092829985 AAEEEDEADPK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 AAEEEDEADPKR 12 1 P20962 P20962 PTMS Parathymosin 0 1 AAEEEDEADPK(1)R 159.94 2.74E-07 993540 309.05 687.88 383.58 347.99 784.93 584.16 614.48 503.15 431.8 270.28 FALSE TRUE FALSE 341.557297 710.1677633 435.8522848 354.7258497 724.788833 534.3862816 545.3370932 490.2801516 428.7950686 281.9330935 1.211483522 2.518923034 1.545942264 1.258191599 2.570783103 1.89543652 1.9342784 1.738994686 1.520910736 1 8.139209022 -7.427535298 7.765168622 1.092637478 1.907212467 0.364655968 0.398490539 0.168827084 12.26637168 0.062567716 0.07129721 3.74E-08 7.427535298 0.814574989 AAEEEDEADPKR ddPTM_HeLa_SAHA_4h_R1 5 AAEEEDEADPKR 12 1 P20962 P20962 PTMS Parathymosin 0 0 ;;;; ;;;; 173.71 0.00068375 65406400 8963.94 8949.16 8368.61 9210.8 8803.32 10360.81 9632.18 10268.25 9968.96 9090.33 FALSE FALSE TRUE 9906.808337 9239.118656 9509.040589 9389.088353 8128.811523 9478.0107 8548.341756 10005.60303 9899.585196 9482.258613 1.044773059 0.974358434 1.00282443 0.990174254 0.857265326 0.999552015 0.901509029 1.055191958 1.044011306 1 13.21101503 -6.449013929 1.617914784 1.019114542 0.953328065 0.204526068 0.053606276 0.389604844 2.020538532 0.008321642 0.01392847 3.56E-07 6.449013929 -0.065786478 AAEEPSK(ac)VEEK ddPTM_HeLa_SAHA_4h_R1 2 AAEEPSKVEEK 11 1 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 0 1 ; AAEEPSK(1)VEEK;AAEEPSK(1)VEEK 111.61 0.00093515 0 1618.88 3727.7 1702.08 1667.07 3692.5 3229.2 4009.6 2997.8 2901 1022.95 FALSE TRUE FALSE 1789.161226 3848.479926 1934.030598 1699.33855 3409.581448 2954.053993 3558.429255 2921.120617 2880.811705 1067.054381 1.676729189 3.606638982 1.812494877 1.592551028 3.195321166 2.768419348 3.334815282 2.737555526 2.699779652 1 10.05941799 -7.35974561 0.284173857 0.698770785 3.300277614 0 0.823657599 0.856904146 0.241043876 0.784021099 0.812158115 4.37E-08 7.35974561 2.601506829 AAEEQGDDQDSEKS(ph)KPAGSDGER ddPTM_HeLa_SAHA_4h_R1 1 AAEEQGDDQDSEKSKPAGSDGER 23 2 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 1 0 AAEEQGDDQDS(0.086)EKS(0.867)KPAGS(0.048)DGER 44.106 0.017542 4916400 691.35 597.64 521.72 666.37 715.35 686.74 661.28 440.66 842.08 605.97 TRUE FALSE FALSE 764.069365 617.0039281 592.8172846 679.2685549 660.5400375 628.2258885 586.871034 429.3885553 836.2198967 632.0963322 1.208786266 0.976123253 0.93785908 1.074628218 1.044999004 0.993876813 0.928451889 0.679308728 1.322931101 1 9.304000633 -3.672784783 0.802279677 1.078527514 1.33E-14 0.573445833 0.106341634 2.86419578 0.690409243 0.015489827 3.443215035 0.00021243 3.672784783 -1.078527514 AAEEQGDDQDSEKSKPAGS(ph)DGERR ddPTM_HeLa_SAHA_4h_R1 1 AAEEQGDDQDSEKSKPAGSDGERR 24 3 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 1 0 AAEEQGDDQDS(0.007)EKS(0.483)KPAGS(0.51)DGERR 45.659 0.01549 3255200 141.46 203.29 0 170.46 0 60.747 202.8 0 213.18 192.12 TRUE FALSE FALSE 156.3394118 209.8767294 0 173.7594998 0 55.57101385 179.9804103 0 211.696463 200.4032334 0.780124198 1.047272171 0 0.867049383 0 0.277295994 0.898091349 0 1.056352532 1 7.646761976 -6.777369755 24.99789381 0.904601331 0.371352088 0.478687627 0.318387055 165.6945886 260006.7625 0.046880756 0.061723696 1.67E-07 6.777369755 -0.533249242 AAEK(ac)QVPGGGGGGGSGGGGGSGGGGSGGGR ddPTM_HeLa_SAHA_4h_R1 1 AAEKQVPGGGGGGGSGGGGGSGGGGSGGGR 30 1 K7EN53;K7EQC2;Q9UHB9-4;Q9UHB9-2;Q9UHB9 K7EN53 SRP68 Signal recognition particle subunit SRP68 0 1 AAEK(1)QVPGGGGGGGSGGGGGSGGGGSGGGR 100.53 3.09E-13 0 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 AAEK(ac)RPAEDYVPR ddPTM_HeLa_SAHA_4h_R1 1 AAEKRPAEDYVPR 13 2 Q969E4;Q5H9L2 Q969E4 TCEAL3;TCEAL5 Transcription elongation factor A protein-like 3;Transcription elongation factor A protein-like 5 0 1 AAEK(1)RPAEDYVPR 107.39 0.003289 6384700 1673.5 1730.9 1637.4 1902.9 2207.9 2514.7 2158.5 2509.3 1979.4 1592.7 FALSE TRUE FALSE 1849.526408 1786.982296 1860.536345 1939.733381 2038.731179 2300.433413 1915.619899 2445.115739 1965.625194 1661.369091 1.113254374 1.075608247 1.1198814 1.167551143 1.227139225 1.384661256 1.153036919 1.471747459 1.183135767 1 10.6981569 -1 0.182307337 0.986264744 2.773159969 0.557822778 0.089353381 19.69264221 0.215329894 0.083450914 9.8445763 0.1 1 1.786895225 AAEK(ac)VSR ddPTM_HeLa_SAHA_4h_R1 2 AAEKVSR 7 1 Q14676;Q14676-3;Q14676-2;Q14676-4;H0Y6Z8 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 0 1 ; AAEK(1)VSR;AAEK(1)VSR 137.9 9.74E-05 2900300 1086.53 694.79 534.25 1171.91 975.1 1524.19 1602.14 1377.38 706.77 1111.19 FALSE TRUE FALSE 1200.816211 717.3016519 607.0548077 1194.594013 900.3880487 1394.320437 1421.862991 1342.148614 701.85153 1159.098839 1.035991212 0.61884425 0.523729977 1.030623078 0.776800061 1.202934892 1.226696933 1.157924216 0.605514824 1 10.17878788 -5.234998994 22.26782187 0.935981377 1.198936803 0.316402024 0.20750906 209.1402429 176133.5915 0.028691052 0.073102024 5.82E-06 5.234998994 0.262955425 AAEPHFGT(ph)LPK ddPTM_HeLa_SAHA_4h_R1 1 AAEPHFGTLPK 11 0 A0A2R8Y4X0;A0A0A0MQW1;A0A2R8Y5H9;Q8IVT5-4;Q8IVT5-3;Q8IVT5-2;Q8IVT5;A8MY87 A0A2R8Y4X0 KSR1 Kinase suppressor of Ras 1 1 0 AAEPHFGT(1)LPK 103.76 0.0064513 6936600 5709.4 5546.8 5534.5 6666.2 6233.8 7210.7 5527.8 8430.8 4647.6 5162.6 TRUE FALSE FALSE 6309.940888 5726.519959 6288.712838 6795.23394 5756.167591 6596.307794 4905.797396 8215.152344 4615.256973 5385.184951 1.171722224 1.063384083 1.167780289 1.261838544 1.068889489 1.224899025 0.910980299 1.525509786 0.857028499 1 12.39478018 -13.52287875 0.175294038 0.308344367 1.209658952 0.280488255 0.15486102 73.75317854 0.833508233 17.47496016 0.198990753 3.00E-14 13.52287875 0.901314586 AAES(ph)AEIEPR ddPTM_HeLa_SAHA_4h_R1 2 AAESAEIEPR 10 0 Q9NS91 Q9NS91 RAD18 E3 ubiquitin-protein ligase RAD18 1 0 AAES(1)AEIEPR;AAES(1)AEIEPR ; 100.04 0.010398 10919500 2605.1 3011.5 2277.27 2969.3 3033.1 3186.6 2642.5 2848.5 3853.2 2318.35 TRUE FALSE FALSE 2879.116371 3109.074576 2587.604496 3026.775095 2800.704533 2915.083753 2345.158945 2775.639495 3826.385267 2418.305414 1.190551183 1.285641821 1.07000732 1.25160994 1.158126892 1.205424152 0.969753006 1.14776218 1.582258901 1 11.23978074 -9.269540791 1.028701327 1.001152936 1.160120674 0 0.200182612 0.481712815 0.923783191 0.054553492 0.015262512 5.38E-10 9.269540791 0.158967738 AAES(ph)ETPGKSPEK ddPTM_HeLa_SAHA_4h_R1 1 AAESETPGKSPEK 13 1 O76021;J3QSV6;O76021-2 O76021 RSL1D1 Ribosomal L1 domain-containing protein 1 1 0 AAES(0.554)ET(0.337)PGKS(0.109)PEK 117.27 0.0056455 33113000 4085.3 5208.2 3178 4737.4 4486.8 4920.8 5045.4 4084.7 7740.7 4681.5 TRUE FALSE FALSE 4515.010598 5376.949097 3611.08129 4829.099227 4143.022353 4501.520156 4477.678313 3980.219289 7686.831838 4883.342376 0.924573837 1.101079688 0.739469202 0.988892209 0.848398911 0.921811294 0.916929015 0.815060461 1.574092342 1 12.25365321 -1.000000018 0.063368987 1.125123535 0.464245855 0.139529355 0.203401394 326.790732 1.557060828 3.193904659 19.78439679 0.099999996 1.000000018 -0.66087768 AAESETPGKS(ph)PEK ddPTM_HeLa_SAHA_4h_R1 2 AAESETPGKSPEK 13 1 O76021;J3QSV6;O76021-2 O76021 RSL1D1 Ribosomal L1 domain-containing protein 1 1 0 AAES(0.29)ET(0.334)PGKS(0.375)PEK;AAESET(0.001)PGKS(0.999)PEK ; 169.4 0.00012502 82396000 2716.2 3512.8 2398.1 3163.2 3596.4 3831.7 3541.2 3143 4955.9 3657.7 TRUE FALSE FALSE 3001.902378 3626.617025 2724.900579 3224.42831 3320.844609 3505.217603 3142.734856 3062.606611 4921.411488 3815.401347 0.786785479 0.950520455 0.71418452 0.845108553 0.870378843 0.918702198 0.823697056 0.802695793 1.289880419 1 11.89761911 -9.420002195 1.037171688 1.004218304 0.837140766 0.447046903 0.1131248 0.377404154 0.695976498 0.048155635 0.010964679 3.80E-10 9.420002195 -0.167077538 AAESETPGKS(ph)PEKKPK ddPTM_HeLa_SAHA_4h_R1 1 AAESETPGKSPEKKPK 16 3 O76021;O76021-2 O76021 RSL1D1 Ribosomal L1 domain-containing protein 1 1 0 AAESETPGKS(1)PEKKPK 91.589 0.021634 13916000 4925.5 4721 4598.1 4887.9 4964.6 4874.3 5346.5 5055.7 4765.9 5157.9 TRUE FALSE FALSE 5443.586689 4873.963498 5224.705122 4982.512373 4584.213421 4458.982218 4744.897749 4926.382515 4732.733714 5380.282311 1.011765996 0.905893635 0.971083824 0.926068947 0.852039569 0.828763615 0.881904977 0.915636435 0.879644123 1 12.39346616 -6.552308979 0.90482155 1.005809051 0.868519246 0.187491839 0.052276066 0.201525875 0.329670244 0.006782432 0.012332465 2.80E-07 6.552308979 -0.137289805 AAESETPGKSPEK(ac)KPK ddPTM_HeLa_SAHA_4h_R1 2 AAESETPGKSPEKKPK 16 3 O76021;O76021-2 O76021 RSL1D1 Ribosomal L1 domain-containing protein 1 0 1 ; AAESETPGKSPEK(0.5)K(0.5)PK;AAESETPGKSPEK(0.5)K(0.5)PK 67.846 0.0089832 7852900 3463.8 3529 3619.1 3659.9 4135.7 3842.7 5265.9 4722.8 3022.6 3085 FALSE TRUE FALSE 3828.138376 3643.341915 4112.292101 3730.742657 3818.823559 3515.280342 4673.367073 4601.997615 3001.565481 3218.009448 1.18959824 1.132172535 1.277899325 1.159332413 1.186703651 1.09237726 1.452253994 1.430075856 0.932739797 1 11.65195285 -1 0.12033184 0.944673954 2.329838048 0.63686392 0.095286166 50.34019238 0.416384454 0.42304937 11.74132759 0.1 1 1.385164094 AAFDDAIAELDTLSEESYK ddPTM_HeLa_SAHA_4h_R1 2 AAFDDAIAELDTLSEESYK 19 0 P62258;P62258-2;K7EM20 P62258 YWHAE 14-3-3 protein epsilon 0 0 ; ; 246.31 1.06E-40 187191000 871.87 438.14 477.744 695.08 673.69 1159.48 855.03 407.609 1075.63 814.16 FALSE FALSE TRUE 963.5772869 452.3360235 542.8484643 708.5342785 622.0720177 1060.685781 758.8197741 397.182952 1068.144603 849.262422 1.134604878 0.532622205 0.639199911 0.834293688 0.732485038 1.248949387 0.893504475 0.467679885 1.257732093 1 9.730066605 -7.288348972 24.88412284 1.063563425 0.784409057 0.364065178 0.215516247 677.934976 626905.3832 0.03632394 0.041543787 5.15E-08 7.288348972 -0.279154368 AAFK(ac)ELQSTFK ddPTM_HeLa_SAHA_4h_R1 1 AAFKELQSTFK 11 1 Q96C19 Q96C19 EFHD2 EF-hand domain-containing protein D2 0 1 AAFK(1)ELQSTFK 99.752 0.010728 557130 0 0 219.13 0 152.96 0 159.4 167.74 0 0 FALSE TRUE FALSE 0 0 248.9918952 0 141.2402378 0 141.4638925 163.4494537 0 0 0 AAFK(ac)EPK ddPTM_HeLa_SAHA_4h_R1 2 AAFKEPK 7 1 Q03111 Q03111 MLLT1 Protein ENL 0 1 ; AAFK(1)EPK;AAFK(1)EPK 106.04 0.0098944 85419000 10339 12212.2 15225.3 16207.8 17487.5 15175.6 20094.9 12176.6 3799.7 6503 FALSE TRUE FALSE 11426.50346 12607.88329 17300.12459 16521.52541 16147.61153 13882.5535 17833.76897 11865.1402 3773.257578 6783.376155 1.68448619 1.85864428 2.550370818 2.435590336 2.380468245 2.046555165 2.629040253 1.749149676 0.556250677 1 12.72778778 -7.780212372 0.695515686 1.10189181 2.318637492 0.747059964 0.325122667 0.201640265 0.217007305 0.091090159 0.075003153 1.66E-08 7.780212372 1.216745681 AMSTTSISSPQPGK(ac)LR ddPTM_HeLa_SAHA_4h_R1 2 AMSTTSISSPQPGKLR 16 1 B4DDD6;Q9UJU6-4;Q9UJU6-2;Q9UJU6-3;Q9UJU6-6;H0Y5J4;Q9UJU6-5;Q9UJU6 B4DDD6;H0Y5J4 DBNL Drebrin-like protein 0 1 ; AMSTTSISSPQPGK(1)LR;AMSTTSISSPQPGK(1)LR 229.56 1.33E-44 6209200 538.05 714.01 840.01 991.58 1244.4 1207.84 1280.24 1281.75 274.172 323.64 FALSE TRUE FALSE 594.6445677 737.1443925 954.4821882 1010.773465 1149.054341 1104.925237 1136.184026 1248.964691 272.2640147 337.5937043 1.761420785 2.183525294 2.827310392 2.994053064 3.403660454 3.272943846 3.365536772 3.699608954 0.806484278 1 8.399144189 -6.924943926 0.520398295 1.091176047 3.631695905 0.972304719 0.163964837 0.083139866 0.050178415 0.050246268 0.079112957 1.19E-07 6.924943926 2.540519858 up AAFQAS(ph)TR ddPTM_HeLa_SAHA_4h_R1 1 AAFQASTR 8 0 A6NFA1 A6NFA1 TRABD2B Metalloprotease TIKI2 1 0 AAFQAS(0.5)T(0.5)R 91.906 0.016591 1676200 0 118.6 134.88 184.62 0 213.01 237.83 279.34 282.72 297.26 TRUE FALSE FALSE 0 122.4427178 153.260744 188.1935871 0 194.8603496 211.0687425 272.1948873 280.7525285 310.0763334 0 0.394879275 0.49426779 0.60692664 0 0.628427031 0.680699298 0.877831869 0.905430368 1 8.276479606 -9.623024689 1.456938844 0.997987157 0.394378115 0.321692505 0.272429765 0.366170067 1.403414969 0.21179532 0.049152638 2.38E-10 9.623024689 -0.603609041 AAFTTPDHAPLS(ph)PQSSVASSGSEQTEEQGSSR ddPTM_HeLa_SAHA_4h_R1 2 AAFTTPDHAPLSPQSSVASSGSEQTEEQGSSR 32 0 M0QZ22;Q5PRF9;M0R0X3;A0A087WZT0 M0QZ22 SAMD4B Protein Smaug homolog 2 1 0 AAFTTPDHAPLS(0.982)PQS(0.017)S(0.001)VASSGSEQTEEQGSSR;AAFTTPDHAPLS(0.853)PQS(0.108)S(0.039)VASSGSEQTEEQGSSR ; 111.82 3.63E-10 37473000 1287.34 1296.68 1102.7 1374.43 1458.96 1895.47 1798.02 1635.62 1356.09 1406.78 TRUE FALSE FALSE 1422.748328 1338.693283 1252.970213 1401.03408 1347.1748 1733.965292 1595.702057 1593.783209 1346.652859 1467.43317 0.969548976 0.912268654 0.853851636 0.954751541 0.918048486 1.181631523 1.087410377 1.086102755 0.917692803 1 10.51907909 -5.266301283 24.99948185 0.96325989 1.115284436 0.715886828 0.05116929 200.9908448 1033480.46 0.008048119 0.018562119 5.42E-06 5.266301283 0.152024545 AAFTTPDHAPLSPQS(ph)SVASSGSEQTEEQGSSR ddPTM_HeLa_SAHA_4h_R1 1 AAFTTPDHAPLSPQSSVASSGSEQTEEQGSSR 32 0 M0QZ22;Q5PRF9;M0R0X3;A0A087WZT0 M0QZ22 SAMD4B Protein Smaug homolog 2 1 0 AAFTTPDHAPLS(0.287)PQS(0.332)S(0.332)VAS(0.035)S(0.011)GS(0.002)EQT(0.001)EEQGSSR 77.469 1.75E-06 3586300 235.46 364.83 268.11 140.47 251.19 514.75 273.43 247.01 208.3 217.18 TRUE FALSE FALSE 260.2267631 376.6507314 304.6466345 143.189 231.9438765 470.8904041 242.6629368 240.6918419 206.8504233 226.5436927 1.148682447 1.662596416 1.344758845 0.632059089 1.023837273 2.078585365 1.071152915 1.062452188 0.913070768 1 7.823645514 -7.788678751 2.470131753 1.051108543 1.265476117 0.083614785 0.373282957 0.604990313 7.636279057 0.074526257 0.073051407 1.63E-08 7.788678751 0.214367574 AAGARPLT(ph)SPESLSR ddPTM_HeLa_SAHA_4h_R1 1 AAGARPLTSPESLSR 15 1 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 1 0 AAGARPLT(0.5)S(0.5)PESLSR 149.35 0.0034513 30160000 1522.6 1484.6 1464.3 1289.8 1557.4 1606.4 1877 1685.5 1706.7 1827.4 TRUE FALSE FALSE 1682.754054 1532.702014 1663.847178 1314.765944 1438.072348 1469.525683 1665.79502 1642.387351 1694.822936 1906.188157 0.882784864 0.804066487 0.872866182 0.689735659 0.754423084 0.770923729 0.873888033 0.861608202 0.889116287 1 10.89647482 -7.99129065 0.680267184 0.986766646 0.795731471 0.416162491 0.063241738 0.29456482 0.305010829 0.022846791 0.015861305 1.02E-08 7.99129065 -0.191035176 AAGARPLTS(ph)PESLSR ddPTM_HeLa_SAHA_4h_R1 3 AAGARPLTSPESLSR 15 1 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 1 0 AAGARPLT(0.413)S(0.474)PES(0.112)LS(0.002)R;AAGARPLT(0.026)S(0.686)PES(0.287)LS(0.001)R;AAGARPLT(0.06)S(0.449)PES(0.449)LS(0.041)R ;; 139.64 4.19E-07 40299800 4285.6 4633.9 3835.9 4251.8 5148.8 4930 5150 4890 4585.9 4572.6 TRUE FALSE FALSE 4736.379071 4784.0414 4358.636475 4334.099737 4754.300056 4509.936265 4570.508446 4764.920881 4553.986349 4769.747164 0.993004222 1.002996854 0.913808704 0.908664461 0.996761441 0.945529419 0.958228663 0.998988147 0.954764727 1 12.21969708 -6.797032975 24.98904424 0.997076677 0.953414809 0.20407284 0.030761883 139.0268783 97605.47854 0.004436546 0.00583088 1.60E-07 6.797032975 -0.043661868 AAGDGGSGPPEK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 AAGDGGSGPPEKK 13 1 H3BQ99;H3BUL6;I3L332;H3BP71;O75150-3;O75150-4;O75150 H3BQ99 RNF40 E3 ubiquitin-protein ligase BRE1B 0 1 ; AAGDGGSGPPEK(1)K;AAGDGGSGPPEK(1)K 251.81 1.47E-69 23000000 5872.7 5879.1 6281.5 7690.8 8020.9 9178 8342.1 8845.3 5173.6 4595.2 FALSE TRUE FALSE 6490.417531 6069.586697 7137.510107 7839.666555 7406.340375 8395.982766 7403.424953 8619.050034 5137.596496 4793.32156 1.354054271 1.266259027 1.489053054 1.63553946 1.545137392 1.75160015 1.544529166 1.798137247 1.071823877 1 12.22681001 -7.403243793 0.16407924 0.701306677 2.020932029 0.886360364 0.086234949 0.800769161 0.120315213 0.427969491 0.421500539 3.95E-08 7.403243793 1.319625351 AAGGAPS(ph)PPPPVR ddPTM_HeLa_SAHA_4h_R1 4 AAGGAPSPPPPVR 13 0 Q4KMP7;Q4KMP7-2 Q4KMP7 TBC1D10B TBC1 domain family member 10B 1 0 AAGGAPS(1)PPPPVR;AAGGAPS(1)PPPPVR;AAGGAPS(1)PPPPVR;AAGGAPS(1)PPPPVR ;;; 146.5 0.00022147 131800000 5518.69 7109.9 5436.36 6169 7058.52 7610.6 8243.6 7124.3 6859.2 5624.1 TRUE FALSE FALSE 6099.171135 7340.265425 6177.198829 6288.409916 6517.697723 6962.134064 7316.008432 6942.070722 6811.466269 5866.582475 1.039646363 1.251199562 1.052946729 1.071903437 1.110987146 1.186744428 1.247064788 1.183324491 1.161062049 1 12.5183046 -2.613048782 0.134584092 0.938401194 1.656825905 0.047650463 0.081739873 26.70033423 0.365697724 0.228594424 3.483901912 0.002437537 2.613048782 0.718424711 AAGGAPS(ph)PPPPVRR ddPTM_HeLa_SAHA_4h_R1 2 AAGGAPSPPPPVRR 14 1 Q4KMP7;Q4KMP7-2 Q4KMP7 TBC1D10B TBC1 domain family member 10B 1 0 AAGGAPS(1)PPPPVRR;AAGGAPS(1)PPPPVRR ; 89.747 0.012515 21030200 2796.94 2742.67 2337.45 2344.16 2700.76 2556.73 3078.06 2879.21 2747.38 2381.27 TRUE FALSE FALSE 3091.134982 2831.534308 2655.985513 2389.534607 2493.828352 2338.88222 2731.708588 2805.563977 2728.260759 2483.938203 1.244449229 1.139937501 1.069263925 0.961994386 1.00398164 0.941602419 1.099749013 1.129482196 1.098360964 1 11.27841357 -6.54240498 5.689946544 1.120071633 1.024269462 0.247288625 0.076598312 0.248711166 25.73584966 0.016703506 0.024145081 2.87E-07 6.54240498 -0.095802172 AAGGS(ph)PAVGCTTR ddPTM_HeLa_SAHA_4h_R1 2 AAGGSPAVGCTTR 13 0 B5MC79;B5MC16;Q7Z624-2;Q7Z624 B5MC79 CAMKMT Calmodulin-lysine N-methyltransferase 1 0 AAGGS(1)PAVGCTTR;AAGGS(0.946)PAVGCT(0.027)T(0.027)R ; 123.95 0.00099272 5539900 1345.93 1472.63 1255.24 1272.89 1250.52 1888.45 1335.76 1383.82 1665.04 1418.84 TRUE FALSE FALSE 1487.501093 1520.344178 1426.29757 1297.528627 1154.705428 1727.543436 1185.456769 1348.423888 1653.452851 1480.013136 1.005059385 1.027250462 0.963706021 0.87670075 0.780199445 1.167248718 0.800977194 0.911089135 1.117187957 1 10.53139427 -6.49567393 4.894108639 1.004140003 0.909167393 0.232638383 0.104581129 0.252828522 15.69384862 0.014301047 0.021470817 3.19E-07 6.49567393 -0.09497261 AAGISLIVPGKS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 2 AAGISLIVPGKSPTR 15 1 F2Z357;J3KPC5;P47736;P47736-3;P47736-4 F2Z357 RAP1GAP Rap1 GTPase-activating protein 1 1 0 AAGISLIVPGKS(0.752)PT(0.248)R;AAGISLIVPGKS(0.759)PT(0.241)R ; 88.781 0.0052817 10416300 2260.14 1950.75 2448 2645.75 2422.1 2854.3 2729.9 3079.3 2574.3 2756.07 TRUE FALSE FALSE 2497.871895 2013.95558 2781.600691 2696.962317 2236.519221 2611.097582 2422.724467 3000.535965 2556.385237 2874.897666 0.868855934 0.700531224 0.967547723 0.938107241 0.77794742 0.908240183 0.842716767 1.043701834 0.889209125 1 11.48929489 -9.098889243 1.006554011 0.995893694 0.877361252 0.017033618 0.096830721 0.621564865 1.189070883 0.048362198 0.016355429 7.96E-10 9.098889243 -0.118532441 AAGISLIVPGKSPT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 AAGISLIVPGKSPTR 15 1 F2Z357;J3KPC5;P47736;P47736-3;P47736-4 F2Z357 RAP1GAP Rap1 GTPase-activating protein 1 1 0 AAGIS(0.234)LIVPGKS(0.274)PT(0.492)R 105.01 0.0032421 8750300 1870.2 2069.8 2105.9 2501.6 2493.7 2892.2 2668.9 2820.4 2351.6 2676.3 TRUE FALSE FALSE 2066.916217 2136.862878 2392.881085 2550.022085 2302.633245 2645.768289 2368.588348 2748.258252 2335.235024 2791.68839 0.740382137 0.765437463 0.857144763 0.913433639 0.82481743 0.94773052 0.848442955 0.984443056 0.836495589 1 11.4469222 -5.25436861 24.60951571 0.864334504 0.919029252 0.158255126 0.076442213 1235.497797 4300076.191 0.015177318 0.037812418 5.57E-06 5.25436861 0.054694747 AAGMAS(ph)PWGK ddPTM_HeLa_SAHA_4h_R1 2 AAGMASPWGK 10 0 M0QXA7;A0A669KBH9;A0A669KAV7;O95785-3 M0QXA7 WIZ Protein Wiz 1 0 AAGMAS(1)PWGK;AAGMAS(1)PWGK ; 104.82 0.0072486 5694400 2386.8 2635.7 2202.4 2178.7 3098.5 2732.8 2873.8 2109.53 2771.2 2688.2 TRUE FALSE FALSE 2637.854575 2721.098409 2502.531602 2220.871889 2861.093599 2499.950066 2550.432461 2055.571277 2751.914994 2804.101458 0.940712957 0.970399413 0.892454014 0.792008393 1.020324565 0.891533385 0.909536441 0.73305881 0.981389238 1 11.45332283 -1 0.176023413 1.002728996 0.221085728 0.412781393 0.066690238 43.47708659 0.466087887 0.088484359 9.086125992 0.1 1 -0.781643267 AAGMS(ph)SPGAQSHPEELPR ddPTM_HeLa_SAHA_4h_R1 1 AAGMSSPGAQSHPEELPR 18 0 M0R300;M0R0P8;Q13459-2;Q13459;M0QZY4;M0R2J3 M0R300 MYO9B Unconventional myosin-IXb 1 0 AAGMS(0.915)S(0.085)PGAQSHPEELPR 124.69 0.00026499 8466300 388.6 584.64 480.76 771.94 629.84 778.88 576.28 568.83 572.03 529.11 TRUE FALSE FALSE 429.474731 603.5827196 546.2754691 786.8820149 581.5817953 712.5150421 511.4354577 554.2801523 568.0491967 551.9225215 0.778143153 1.093600453 0.989768397 1.425711009 1.053738111 1.29096932 0.926643574 1.00427167 1.029219092 1 9.108321946 -7.140557109 6.138507531 0.895480688 1.119162184 0.202917347 0.154137375 0.217346897 10.15730281 0.026064082 0.032014842 7.24E-08 7.140557109 0.223681495 AAGMSS(ph)PGAQSHPEELPR ddPTM_HeLa_SAHA_4h_R1 1 AAGMSSPGAQSHPEELPR 18 0 M0R300;M0R0P8;Q13459-2;Q13459;M0QZY4;M0R2J3 M0R300 MYO9B Unconventional myosin-IXb 1 0 AAGMS(0.135)S(0.865)PGAQSHPEELPR 159.72 5.36E-06 10090000 739.53 846.95 948.73 959.13 919.05 1226.1 886.23 917.26 934.34 1022.8 TRUE FALSE FALSE 817.3171585 874.3917357 1078.017984 977.6953481 848.6325876 1121.629382 786.509068 893.7978174 927.8378519 1066.897913 0.766068757 0.819564576 1.010422806 0.916390721 0.795420609 1.05129963 0.737192432 0.837753834 0.869659449 1 10.05920642 -9.609242699 1.43294668 0.999516298 0.856153468 0 0.104108995 0.504838028 1.870775615 0.068408992 0.015981754 2.46E-10 9.609242699 -0.14336283 AAGS(ph)PSPLPAPDPAPK ddPTM_HeLa_SAHA_4h_R1 2 AAGSPSPLPAPDPAPK 16 0 J3KRY8;Q9BZE9-3;Q9BZE9;Q9BZE9-2;J3KRF7 J3KRY8 ASPSCR1 Tether containing UBX domain for GLUT4 1 0 AAGS(0.924)PS(0.076)PLPAPDPAPK;AAGS(0.565)PS(0.435)PLPAPDPAPK ; 148.7 6.93E-05 17683000 5186.4 4726.1 4658.7 5286 5839.9 5844.9 6039.1 5499.5 5615.9 5066.6 TRUE FALSE FALSE 5731.929348 4879.228741 5293.563375 5388.318174 5392.448124 5346.881637 5359.564574 5358.830753 5576.818495 5285.045921 1.084556205 0.923214067 1.001611614 1.019540465 1.020321905 1.011700128 1.014099906 1.013961058 1.055207197 1 12.36770029 AAHTEDINACTLT(ph)TSPR ddPTM_HeLa_SAHA_4h_R1 1 AAHTEDINACTLTTSPR 17 0 H7C155;P04049;P04049-2 H7C155 RAF1 RAF proto-oncogene serine/threonine-protein kinase 1 0 AAHTEDINACT(0.178)LT(0.274)T(0.274)S(0.274)PR 118.84 0.0007694 9785900 1044.1 1316.2 862.22 1077.8 1423.5 600.92 1061.6 1249.6 1490.5 1132.8 TRUE FALSE FALSE 1153.923229 1358.845744 979.7188514 1098.662378 1314.431738 549.7182353 942.145974 1217.637041 1480.127489 1181.640552 0.976543355 1.149965395 0.829117493 0.929777144 1.112378663 0.465216122 0.797320279 1.030463147 1.252603837 1 10.20657553 -5.300672048 24.99997785 0.991353006 0.767631266 0.319630335 0.173170509 434.860483 277102.6146 0.020389516 0.045593019 5.00E-06 5.300672048 -0.22372174 AAHTEDINACTLTTS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 AAHTEDINACTLTTSPR 17 0 H7C155;P04049;P04049-2 H7C155 RAF1 RAF proto-oncogene serine/threonine-protein kinase 1 0 AAHTEDINACT(0.176)LT(0.002)T(0.176)S(0.647)PR 159.14 6.03E-06 4120200 542.24 653.34 356.46 622.08 697.29 466.38 533.47 746.36 596.09 584.77 TRUE FALSE FALSE 599.2752911 674.5086447 405.0365124 634.1212579 643.8637908 426.6418002 473.4425516 727.2691919 591.9417612 609.9822965 0.982447023 1.105783969 0.664013554 1.039573216 1.055545045 0.699433086 0.776157856 1.192279179 0.970424494 1 9.252623562 AAHVPENS(ph)DTEQDVLTVKPVR ddPTM_HeLa_SAHA_4h_R1 3 AAHVPENSDTEQDVLTVKPVR 21 1 H3BSS6;Q9H2Y7;A0A0C4DGM5;Q9H2Y7-2;H3BS99 H3BSS6 ZNF106 Zinc finger protein 106 1 0 AAHVPENS(0.997)DT(0.003)EQDVLTVKPVR;AAHVPENS(0.986)DT(0.014)EQDVLTVKPVR;AAHVPENS(0.853)DT(0.147)EQDVLTVKPVR ;; 143.17 3.22E-06 38295000 4986.4 4680.6 4104.82 4590.6 5644.6 1909.88 5161.2 5661.6 5255.9 5008.2 TRUE FALSE FALSE 5510.89243 4832.254511 4664.203493 4679.457701 5212.111967 1747.147479 4580.448192 5516.78447 5219.323764 5224.128012 1.054892303 0.924987768 0.892819526 0.895739479 0.997699895 0.334438106 0.876787127 1.056020155 0.999080373 1 12.35097453 -6.424549046 1.024823172 1.024480128 0.792926188 0.162505936 0.182728049 0.564741255 1.180459131 0.032909405 0.062416106 3.76E-07 6.424549046 -0.23155394 AAIDWFDGK ddPTM_HeLa_SAHA_4h_R1 2 AAIDWFDGK 9 0 Q92804-2;Q92804;A0A075B7D9;H3BPE7;P35637-2;P35637 Q92804-2;H3BPE7 TAF15;FUS TATA-binding protein-associated factor 2N;RNA-binding protein FUS 0 0 ; ; 107.69 0.0059146 460870 1059.32 1516.36 1245.91 910.21 904.33 1483.77 1379.5 1217.15 1870.24 1259.86 FALSE FALSE TRUE 1170.744138 1565.491059 1415.696126 927.8284307 835.0404308 1357.344449 1224.275029 1186.017065 1857.224848 1314.17873 0.8908561 1.191231469 1.077247785 0.706013885 0.635408572 1.032846155 0.931589442 0.902477751 1.4132209 1 10.35994578 -6.272473741 24.96198706 0.978001793 0.845825083 0.204053249 0.190308922 982.0524538 2221601.122 0.021983337 0.033776032 5.34E-07 6.272473741 -0.13217671 AAIELPSLEVLS(ph)DQEEDREQCGVK ddPTM_HeLa_SAHA_4h_R1 2 AAIELPSLEVLSDQEEDREQCGVK 24 1 Q9BQI3-2;Q9BQI3 Q9BQI3-2 EIF2AK1 Eukaryotic translation initiation factor 2-alpha kinase 1 1 0 AAIELPS(0.04)LEVLS(0.96)DQEEDREQCGVK;AAIELPS(0.02)LEVLS(0.98)DQEEDREQCGVK ; 105.79 1.46E-05 19317700 1821.12 2065.98 1629.12 1928.63 2268.64 2371.75 2141.07 1901.29 3143.45 2208.89 TRUE FALSE FALSE 2012.673757 2132.919108 1851.12799 1965.961422 2094.817293 2169.663557 1900.151169 1852.657755 3121.574476 2304.126058 0.873508526 0.925695493 0.803397012 0.853235185 0.909159152 0.941642732 0.824673269 0.804060936 1.354775909 1 11.17000393 -9.634317411 0.38524106 1.06486199 0.858749436 0.387856129 0.120697166 1.939949819 0.304409292 0.170607399 0.016497289 2.32E-10 9.634317411 -0.206112553 AAILPTSIFLTNKK ddPTM_HeLa_SAHA_4h_R1 2 AAILPTSIFLTNKK 14 1 H0YJX6;O14744-3;O14744-5;O14744-2;O14744 H0YJX6 PRMT5 "Protein arginine N-methyltransferase 5;Protein arginine N-methyltransferase 5, N-terminally processed" 0 0 ; ; 153.75 5.91E-07 1530430 632.03 727.05 539.33 773.57 790 535.73 841.96 479.03 593.91 654.25 FALSE FALSE TRUE 698.5098153 750.606897 612.8270837 788.543566 729.4703707 490.0827901 747.2204449 466.7771062 589.776932 682.4579193 1.023520712 1.099858139 0.897970507 1.155446429 1.06888696 0.718114299 1.094895998 0.683964671 0.864195308 1 9.414596281 -3.541354195 0.948268587 1.016439202 3.15E-20 0.280422568 0.131735719 5.698657582 1.46623039 0.016971211 8.275871245 0.000287505 3.541354195 -1.016439202 AAK(ac)APPK ddPTM_HeLa_SAHA_4h_R1 2 AAKAPPK 7 1 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9;S4R3C2;S4R349 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 ; AAK(1)APPK;AAK(1)APPK 94.407 0.020062 4110200 2391.56 2501.26 3762 5216.3 4625.6 3343.2 6060.1 3113 869.17 1804.95 FALSE TRUE FALSE 2643.115254 2582.302465 4274.665768 5317.269029 4271.187527 3058.340552 5378.201599 3033.373968 863.1213752 1882.770228 1.40384377 1.371544136 2.270412876 2.824173099 2.26856547 1.624383319 2.856536352 1.611122761 0.458431604 1 10.87864123 -6.812560731 4.068443259 1.200051975 2.274178175 0.606984443 0.462521852 0.104268479 3.576642728 0.063451009 0.085915223 1.54E-07 6.812560731 1.0741262 AAKLS(ph)EGS(ph)QPAEEEEDQETPSR ddPTM_HeLa_SAHA_4h_R1 1 AAKLSEGSQPAEEEEDQETPSR 22 1 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 2 0 AAKLS(1)EGS(1)QPAEEEEDQETPSR 73.346 0.012762 7707400 753.28 692.08 756.14 814.9 796.3 930.94 808.19 1125.4 779.14 696.73 TRUE FALSE FALSE 832.5134466 714.5038461 859.1828214 830.6735679 735.287666 851.6186747 717.2503342 1096.613898 773.7179013 726.76944 1.145498697 0.983123129 1.182194482 1.142967112 1.011720672 1.171786577 0.986902165 1.50888829 1.064598838 1 9.505353947 -4.25419062 24.94394138 1.075780848 1.5088885 0.749017877 0.075081225 329.7556716 1134704.035 0.010717221 0.146424922 5.57E-05 4.25419062 0.433107652 AAKLS(ph)EGSQPAEEEEDQETPSR ddPTM_HeLa_SAHA_4h_R1 4 AAKLSEGSQPAEEEEDQETPSR 22 1 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 AAKLS(0.966)EGS(0.034)QPAEEEEDQETPSR;AAKLS(0.998)EGS(0.002)QPAEEEEDQETPSR;AAKLS(0.947)EGS(0.053)QPAEEEEDQETPSR;AAKLS(0.5)EGS(0.5)QPAEEEEDQETPSR ;;; 156.15 3.60E-07 42483100 3562.65 3161.93 3105.08 3372.3 3925.03 4668.56 4551.18 4679.4 3499.26 2963.67 TRUE FALSE FALSE 3937.385873 3264.378607 3528.224132 3437.575743 3624.295049 4270.772423 4039.069248 4559.707724 3474.908365 3091.448318 1.273637942 1.055938276 1.141285174 1.11196287 1.17236152 1.381479483 1.306529766 1.474942246 1.124038964 1 11.59406717 -1 0.271348616 1.09059256 3.725159389 0.688395088 0.079652334 28.29581756 0.35911581 0.04913027 35.43030655 0.1 1 2.634566829 AAKPGPAEAPS(ph)PTASPSGDASPPATAPYDPR ddPTM_HeLa_SAHA_4h_R1 1 AAKPGPAEAPSPTASPSGDASPPATAPYDPR 31 1 M0QY97;Q9UPT8 M0QY97 ZC3H4 Zinc finger CCCH domain-containing protein 4 1 0 AAKPGPAEAPS(0.693)PT(0.251)AS(0.046)PS(0.008)GDAS(0.001)PPATAPYDPR 69.576 0.0010228 0 433.95 429.11 424.2 460.23 387.33 426.27 308.1 345.37 311.18 394.13 TRUE FALSE FALSE 479.594852 443.0134455 482.0077669 469.1384172 357.6528591 389.9493979 273.4317771 336.5359355 309.014473 411.1228731 1.166548697 1.077569443 1.172417782 1.141114854 0.869941525 0.948498426 0.665085294 0.818577504 0.751635322 1 8.683425829 -5.328519346 1.508391157 1.090958615 0.755974997 0.379190932 0.135243737 0.179589946 0.768080848 0.013855729 0.048543234 4.69E-06 5.328519346 -0.334983618 AAKPGPAEAPSPT(ph)AS(ph)PSGDASPPATAPYDPR ddPTM_HeLa_SAHA_4h_R1 1 AAKPGPAEAPSPTASPSGDASPPATAPYDPR 31 1 M0QY97;Q9UPT8 M0QY97 ZC3H4 Zinc finger CCCH domain-containing protein 4 2 0 AAKPGPAEAPS(0.062)PT(0.929)AS(0.686)PS(0.276)GDAS(0.046)PPAT(0.002)APYDPR 88.567 4.52E-06 0 534.37 333.98 545.07 530.19 381.4 267.74 544 522.38 460.67 526.79 TRUE FALSE FALSE 590.5774884 344.8011711 619.349301 540.4525941 352.1772144 244.9270457 482.7876883 509.018276 457.46416 549.5024949 1.074749421 0.627478809 1.12710917 0.983530738 0.640901939 0.445725084 0.87859053 0.926325687 0.832506065 1 9.101982221 -5.796776752 8.911005686 1.006771374 0.714297015 0.203576607 0.185298349 0.222881846 52.1848506 0.02624089 0.047934047 1.60E-06 5.796776752 -0.292474359 AAKPGPAEAPSPT(ph)ASPS(ph)GDASPPATAPYDPR ddPTM_HeLa_SAHA_4h_R1 1 AAKPGPAEAPSPTASPSGDASPPATAPYDPR 31 1 M0QY97;Q9UPT8 M0QY97 ZC3H4 Zinc finger CCCH domain-containing protein 4 2 0 AAKPGPAEAPS(0.19)PT(0.795)AS(0.205)PS(0.545)GDAS(0.224)PPAT(0.04)APY(0.001)DPR 83.124 1.03E-05 19941000 1546.1 1611.4 1370.4 1355.7 1512.5 1656.7 1646.5 1843.9 1774.6 1798.2 TRUE FALSE FALSE 1708.725892 1663.610417 1557.150975 1381.941534 1396.612577 1515.53984 1461.231487 1796.735708 1762.250414 1875.729202 0.910966194 0.886913961 0.830157665 0.736748957 0.744570472 0.807973687 0.779020492 0.957886515 0.939501508 1 10.87323585 -7.426818349 0.851159582 0.977320897 0.800800621 0.516114849 0.061234203 0.266181096 0.396683954 0.015336157 0.016574563 3.74E-08 7.426818349 -0.176520276 AAKPGPAEAPSPT(ph)ASPSGDASPPATAPYDPR ddPTM_HeLa_SAHA_4h_R1 2 AAKPGPAEAPSPTASPSGDASPPATAPYDPR 31 1 M0QY97;Q9UPT8 M0QY97 ZC3H4 Zinc finger CCCH domain-containing protein 4 1 0 AAKPGPAEAPS(0.111)PT(0.753)AS(0.115)PS(0.008)GDAS(0.011)PPAT(0.001)APYDPR;AAKPGPAEAPS(0.189)PT(0.406)AS(0.245)PS(0.039)GDAS(0.097)PPAT(0.02)APY(0.003)DPR ; 94.031 4.41E-08 112324000 2314.68 2092.64 2407.36 2632.1 2355 3027.5 2830.4 2885.4 2351.23 2514.32 TRUE FALSE FALSE 2558.148663 2160.442909 2735.422484 2683.048102 2174.560409 2769.539968 2511.915943 2811.595646 2334.867599 2622.72464 0.975378285 0.823739891 1.042969758 1.023000303 0.829122652 1.055978171 0.957750541 1.072013281 0.890245039 1 11.35685063 -2.308033989 1.638114405 0.974873946 58.31511384 0.113346026 0.081286688 1381.994261 7.837013347 0.010293092 296709.2328 0.00492001 2.308033989 57.3402399 AAKPGPAEAPSPTASPS(ph)GDASPPATAPYDPR ddPTM_HeLa_SAHA_4h_R1 1 AAKPGPAEAPSPTASPSGDASPPATAPYDPR 31 1 M0QY97;Q9UPT8 M0QY97 ZC3H4 Zinc finger CCCH domain-containing protein 4 1 0 AAKPGPAEAPSPTAS(0.128)PS(0.484)GDAS(0.369)PPAT(0.018)APYDPR 100.75 8.24E-09 57252000 924.27 659.24 966.07 1086.6 830.04 984.14 1130 1111.2 1006.9 1279 TRUE FALSE FALSE 1021.488959 680.5998085 1097.720989 1107.632714 766.4425145 900.2857354 1002.849426 1082.777113 999.8929009 1334.143949 0.765651233 0.510139711 0.822790516 0.830219794 0.574482622 0.674804046 0.751680077 0.811589419 0.74946403 1 10.38169862 -8.70611801 0.759489362 0.992890232 0.712852124 0.085005297 0.12554572 0.378249506 0.430655452 0.055991184 0.022455827 1.97E-09 8.70611801 -0.280038108 AAKPGPAEAPSPTASPSGDAS(ph)PPATAPYDPR ddPTM_HeLa_SAHA_4h_R1 1 AAKPGPAEAPSPTASPSGDASPPATAPYDPR 31 1 M0QY97;Q9UPT8 M0QY97 ZC3H4 Zinc finger CCCH domain-containing protein 4 1 0 AAKPGPAEAPSPTASPS(0.037)GDAS(0.653)PPAT(0.276)APY(0.034)DPR 94.523 2.29E-08 53085000 2877 2884.5 2715.1 2683.5 2906.2 3567.4 3381.1 3114.3 3391.6 3033.2 TRUE FALSE FALSE 3179.61606 2977.959693 3085.099688 2735.443023 2683.527584 3263.43745 3000.649729 3034.640715 3367.997579 3163.976096 1.004943136 0.941208025 0.975070479 0.864558688 0.848150398 1.031435558 0.948379393 0.959122516 1.064482625 1 11.62752298 -7.209454673 3.245141819 1.002621225 0.936266914 0.32946448 0.052964303 0.254927235 5.34141085 0.008639851 0.010457433 6.17E-08 7.209454673 -0.066354311 AALAHSEEVTASQVAATK ddPTM_HeLa_SAHA_4h_R1 1 AALAHSEEVTASQVAATK 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 71.286 0.011456 0 366.61 339.63 319.46 593.35 428.64 543.32 409.74 312.09 370.76 364.53 FALSE FALSE TRUE 405.1717219 350.6342348 362.9943451 604.8351472 395.7976958 497.0260794 363.6349768 304.1071897 368.179851 380.2466723 1.065549685 0.922123086 0.954628591 1.590638897 1.040897198 1.307114869 0.956313371 0.799762922 0.968265807 1 8.570791812 AALAPAKES(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 AALAPAKESPR 11 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;H0YAB7;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 AALAPAKES(1)PR;AALAPAKES(1)PR;AALAPAKES(1)PR;AALAPAKES(1)PR ;;; 122.46 0.0011797 2979610000 32954.6 31946.8 29324 32698.2 35815.2 36312.9 39182.8 35241.9 34946.1 32875 TRUE FALSE FALSE 36420.91603 32981.89728 33320.12201 33331.12094 33071.04711 33218.83663 34773.84822 34340.46323 34702.90724 34292.40214 1.062069548 0.961784396 0.97164736 0.9719681 0.964384092 0.968693779 1.014039439 1.001401508 1.011970731 1 15.06560135 -7.250297359 24.96605391 1.02931062 0.978941876 0.47826693 0.021638813 512.5890116 1148565.187 0.004673202 0.005690476 5.62E-08 7.250297359 -0.050368744 AALAPAKES(ph)PRK ddPTM_HeLa_SAHA_4h_R1 2 AALAPAKESPRK 12 2 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;H0YAB7;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 AALAPAKES(1)PRK;AALAPAKES(1)PRK ; 60.167 0.018574 30616800 8317.7 7853.5 7005.5 8714.8 8956.6 9414.5 9254 8573.2 9921.2 8823.2 TRUE FALSE FALSE 9192.593849 8107.958553 7960.173057 8883.487556 8270.347243 8612.331635 8212.715565 8353.909958 9852.157561 9203.611332 0.998802917 0.880954036 0.864896699 0.965217591 0.898598055 0.935755686 0.8923362 0.907677395 1.070466495 1 13.16798434 -7.272164054 24.58761456 0.999434715 0.907427355 0.691172453 0.034646637 203.5067989 466563.1595 0.004339044 0.004989705 5.34E-08 7.272164054 -0.09200736 AALDGGVASAAS(ph)PESKPSPGTK ddPTM_HeLa_SAHA_4h_R1 1 AALDGGVASAASPESKPSPGTK 22 1 Q9Y4K1;A0A0J9YWL0;A0A494C1M5 Q9Y4K1 AIM1 Absent in melanoma 1 protein 1 0 AALDGGVAS(0.029)AAS(0.97)PES(0.002)KPSPGTK 77.939 0.00069215 3439100 674.87 711.67 554.32 798.11 532.7 726.97 649.97 544.97 582.72 675.13 TRUE FALSE FALSE 745.855923 734.7285749 629.8598428 813.5585731 491.8846411 665.0280662 576.833665 531.0304565 578.6648041 704.2381583 1.059096151 1.043295604 0.894384713 1.155232166 0.698463489 0.944322682 0.819088909 0.754049536 0.82168908 1 9.45991959 -5.759476489 25 1.026669759 0.81508468 0.421979754 0.105890637 25.11832268 319906.4496 0.011281663 0.021685678 1.74E-06 5.759476489 -0.211585079 AALLAQYADVTDEEDEADEKDDSGAT(ph)TMNIGSDK ddPTM_HeLa_SAHA_4h_R1 1 AALLAQYADVTDEEDEADEKDDSGATTMNIGSDK 34 1 Q96MW1 Q96MW1 CCDC43 Coiled-coil domain-containing protein 43 1 0 AALLAQY(0.001)ADVT(0.093)DEEDEADEKDDS(0.13)GAT(0.382)T(0.382)MNIGS(0.012)DK 51.089 0.0068461 11021000 1755.3 2200.9 1939.2 1856.7 2535.9 2522.6 2362.3 2304.1 2398.6 2169.7 TRUE FALSE FALSE 1939.930508 2272.210604 2203.464077 1892.639113 2341.59989 2307.660288 2096.487787 2245.164458 2381.907947 2263.246385 0.857145082 1.003960779 0.973585594 0.836249701 1.034619962 1.019623981 0.926318849 0.992010624 1.052429803 1 11.14417793 -5.695317424 25 0.934319827 0.990261413 0.028122682 0.068666586 92.92833227 35133.92879 0.009970167 0.019940331 2.02E-06 5.695317424 0.055941586 AALLNQHYQVNFK ddPTM_HeLa_SAHA_4h_R1 2 AALLNQHYQVNFK 13 0 P07814;V9GYZ6 P07814 EPRS Bifunctional glutamate/proline--tRNA ligase;Glutamate--tRNA ligase;Proline--tRNA ligase 0 0 ; ; 157.68 3.53E-07 5798700 3526.8 3330 3859.3 3195.5 4451.7 4237.1 4595.2 2658.4 3470.8 4045.1 FALSE FALSE TRUE 3897.765006 3437.894185 4385.225306 3257.353523 4110.611708 3876.075243 4078.136002 2590.401977 3446.64642 4219.504057 0.923749557 0.814762621 1.039275054 0.771975445 0.974193093 0.918609199 0.966496523 0.613911479 0.816836854 1 12.04285773 -4.258973739 24.76834487 0.943370723 0.613911346 0.488197838 0.087643979 97.98773893 984256.0036 0.010389049 0.093587442 5.51E-05 4.258973739 -0.329459377 AALPSLTNPPSLS(ph)PIR ddPTM_HeLa_SAHA_4h_R1 2 AALPSLTNPPSLSPIR 16 0 P42858 P42858 HTT Huntingtin 1 0 AALPSLT(0.046)NPPS(0.229)LS(0.725)PIR;AALPSLTNPPS(0.013)LS(0.987)PIR ; 123.92 0.00050032 7749200 947.41 1174.88 1246.24 1316.43 1257.49 1260.43 947.3 1168.85 969.95 1245.86 TRUE FALSE FALSE 1047.062931 1212.946883 1416.071097 1341.911406 1161.141388 1153.034273 840.7073108 1138.952509 963.200039 1299.575122 0.805696349 0.933341107 1.089641586 1.03257702 0.893477698 0.887239417 0.64690936 0.87640375 0.741165342 1 10.34382432 -4.941806754 7.926884104 0.929414965 0.761537344 0.264353942 0.109408044 0.238011829 28.22453877 0.015074028 0.045527874 1.14E-05 4.941806754 -0.167877621 AALQELLSK ddPTM_HeLa_SAHA_4h_R1 2 AALQELLSK 9 0 P62851 P62851 RPS25 40S ribosomal protein S25 0 0 ; ; 157.96 9.59E-07 3720100 1734.41 1899.83 1601.79 2206.6 1931.02 2297.97 2320.9 1619.18 2041.4 1868.22 FALSE FALSE TRUE 1916.843202 1961.385739 1820.073599 2249.311934 1783.065665 2102.170028 2059.746224 1577.76372 2027.193731 1948.768107 0.983617904 1.006474671 0.933961097 1.154222468 0.914970672 1.078717381 1.056947831 0.80962107 1.040243692 1 10.92834671 -4.251491506 24.50943623 1.003822515 0.80962093 0.450433216 0.067515429 708.071865 1744491.097 0.008203898 0.146822904 5.60E-05 4.251491506 -0.194201585 AALQTAPESADDS(ph)PSQLSK ddPTM_HeLa_SAHA_4h_R1 1 AALQTAPESADDSPSQLSK 19 0 O43524;O43524-2 O43524 FOXO3 Forkhead box protein O3 1 0 AALQTAPES(0.214)ADDS(0.782)PS(0.004)QLSK 188.09 4.24E-29 0 491.4 596.49 591.5 534.37 694.37 602.92 663.26 723.77 670.84 535.03 TRUE FALSE FALSE 543.0877066 615.8166674 672.1065396 544.7135041 641.1675206 551.5478241 588.6282392 705.2570114 666.1715698 558.0977617 0.973104972 1.10342078 1.204281016 0.976018077 1.148844458 0.988263817 1.054704533 1.263680057 1.193646733 1 9.12437405 -7.258120413 24.25530882 0.987299569 1.099605778 0 0.106275722 174.3622014 1274252.441 0.013213608 0.015831578 5.52E-08 7.258120413 0.11230621 AAMMNLLRNNS(ph)CLSK ddPTM_HeLa_SAHA_4h_R1 1 AAMMNLLRNNSCLSK 15 1 A0A499FJS7;O14920-4;O14920-2;O14920;G3V105 A0A499FJS7 IKBKB Inhibitor of nuclear factor kappa-B kinase subunit beta 1 0 AAMMNLLRNNS(1)CLSK 100.73 0.018704 8757100 938.98 795.59 1113.8 879.25 1127.1 916.09 1094.9 1026.5 1028.9 1042.1 TRUE FALSE FALSE 1037.746225 821.367638 1265.582864 896.2691552 1040.741841 838.0339782 971.6989704 1000.243616 1021.739801 1087.030031 0.954661964 0.755607126 1.164257498 0.824511862 0.957417746 0.770939123 0.8939026 0.920161898 0.939937051 1 10.08617608 -7.12147767 0.254411001 1.018638926 0.850450317 0.057212878 0.109882743 2.878710925 0.66667731 0.149006637 0.188502402 7.56E-08 7.12147767 -0.168188609 AAMQELAGGEWSKS(ph)HGSR ddPTM_HeLa_SAHA_4h_R1 1 AAMQELAGGEWSKSHGSR 18 1 J3QRE5 J3QRE5 DNHD1 1 0 AAMQELAGGEWS(0.134)KS(0.433)HGS(0.433)R 81.651 0.0036449 10233000 1670.7 2791.8 1757.7 2302.7 2407.2 2853.7 2113.2 1700 4148.5 2566.9 TRUE FALSE FALSE 1846.431891 2882.256152 1997.230202 2347.272088 2222.760856 2610.548706 1875.417174 1656.516462 4119.630251 2677.571621 0.689591971 1.076444092 0.745911029 0.87664213 0.830140579 0.974968768 0.700417184 0.618663736 1.538569582 1 11.38670945 -9.599699807 1.382272563 1.000471042 0.805987194 0.2717265 0.21701687 0.521015061 1.779166926 0.094144527 0.021539349 2.51E-10 9.599699807 -0.194483848 AAMYDIISS(ph)PSKDSTK ddPTM_HeLa_SAHA_4h_R1 4 AAMYDIISSPSKDSTK 16 1 A0A590UJS4;Q6KC79-2;Q6KC79-3;Q6KC79 A0A590UJS4;Q6KC79 NIPBL Nipped-B-like protein 1 0 AAMYDIIS(0.264)S(0.732)PS(0.004)KDSTK;AAMYDIIS(0.186)S(0.809)PS(0.004)KDS(0.001)TK;AAMYDIIS(0.014)S(0.888)PS(0.096)KDS(0.001)T(0.001)K;AAMY(0.001)DIIS(0.224)S(0.775)PSKDSTK ;;; 190.41 4.64E-11 55891200 8458.1 8121.6 6884.1 7146 8692.3 8989.4 8291.8 8889.7 7741.7 8621.5 TRUE FALSE FALSE 9347.761765 8384.745169 7822.229297 7284.321163 8026.297852 8223.452547 7358.784841 8662.314346 7687.824879 8993.215058 1.0394238 0.932341228 0.86979231 0.809979648 0.8924837 0.914406305 0.818259632 0.963205516 0.854847219 1 13.13462125 -7.048274093 3.336682141 1.018433409 0.875106791 0.130399602 0.066974938 0.094765649 2.124209566 0.006945201 0.008819937 8.95E-08 7.048274093 -0.143326619 AANGVVLATEK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 AANGVVLATEKK 12 1 P25787;A0A024RA52 P25787 PSMA2 Proteasome subunit alpha type-2;Proteasome subunit alpha type 0 1 AANGVVLATEK(1)K 177.57 4.35E-14 0 316.28 777.94 586.98 444.08 811.21 538.5 746.26 423.05 490.6 182.9 FALSE TRUE FALSE 349.5477815 803.1457664 666.9705775 452.6758106 749.0552651 492.6167705 662.2888608 412.2289936 487.1858747 190.7857141 1.832148613 4.209674557 3.495914674 2.372692383 3.926160135 2.582042229 3.471375537 2.160691095 2.553576283 1 7.575809337 -7.463696397 4.597534892 1.351881721 3.174135981 0.395723181 0.739550896 0.099600338 4.046380721 0.111215165 0.124239976 3.44E-08 7.463696397 1.82225426 AANMLQQSGS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 AANMLQQSGSK 11 0 P46063 P46063 RECQL ATP-dependent DNA helicase Q1 1 0 AANMLQQS(0.057)GS(0.943)K 110.15 0.0012346 0 1091 1251.1 953.29 1140.5 1481 1498.3 1320.5 1274.9 1172.6 1237.6 TRUE FALSE FALSE 1205.756386 1291.636461 1083.199397 1162.576027 1367.5261 1370.636411 1171.913865 1242.289904 1164.439781 1290.958993 0.934000532 1.000524779 0.839065689 0.900552251 1.059310255 1.061719558 0.907785508 0.962300051 0.901995949 1 10.33422746 AANQVEETLHTHLPQT(ph)PETNFR ddPTM_HeLa_SAHA_4h_R1 2 AANQVEETLHTHLPQTPETNFR 22 0 Q5VZL5-2;Q5VZL5-4;Q5VZL5 Q5VZL5-2 ZMYM4 Zinc finger MYM-type protein 4 1 0 AANQVEETLHTHLPQT(0.995)PET(0.004)NFR;AANQVEETLHTHLPQT(0.904)PET(0.095)NFR ; 90.712 0.00014678 16165000 1349.81 1334.11 1139.91 1630.82 1610.9 633.71 1344.69 1650.01 1381.85 1665.56 TRUE FALSE FALSE 1491.789209 1377.336039 1295.250998 1662.386879 1487.47319 579.7143428 1193.381942 1607.805133 1372.233593 1737.370443 0.858647743 0.792770503 0.745523791 0.956840774 0.856163518 0.333673423 0.686889746 0.925424477 0.789833624 1 10.76268968 -7.410301078 0.312655029 1.022195024 0.667849028 0.072945421 0.172239569 1.35809041 0.431819483 0.169204971 0.168293588 3.89E-08 7.410301078 -0.354345996 AAPAQVRPPS(ph)PGNIRPVK ddPTM_HeLa_SAHA_4h_R1 2 AAPAQVRPPSPGNIRPVK 18 2 A0A087WZ40;Q14244-5;Q14244-3;Q14244-6;Q14244;Q14244-7;Q14244-2;Q14244-4 A0A087WZ40 MAP7 Ensconsin 1 0 AAPAQVRPPS(1)PGNIRPVK;AAPAQVRPPS(1)PGNIRPVK ; 94.487 0.0018668 9964900 925.51 1156.31 868.08 1098.94 1423.52 1599.61 1317.36 1095.2 1784.98 867.28 TRUE FALSE FALSE 1022.859388 1193.775203 986.3774216 1120.211573 1314.450205 1463.314229 1169.127186 1067.18637 1772.558179 904.6726852 1.130640291 1.319565874 1.090314141 1.238250686 1.452956662 1.61750681 1.292320642 1.179638103 1.959336463 1 9.821252103 -7.058314317 0.54899945 1.02126188 1.385034054 0 0.323106224 0.4791547 0.322676515 0.045016294 0.063042204 8.74E-08 7.058314317 0.363772174 AAPEAS(ph)SPPAS(ph)PLQHLLPGK ddPTM_HeLa_SAHA_4h_R1 5 AAPEASSPPASPLQHLLPGK 20 0 Q96TA1-2;Q96TA1 Q96TA1-2 FAM129B Niban-like protein 1 2 0 AAPEAS(0.5)S(0.5)PPAS(0.999)PLQHLLPGK;AAPEAS(0.5)S(0.5)PPAS(1)PLQHLLPGK;AAPEAS(0.601)S(0.399)PPAS(1)PLQHLLPGK;AAPEAS(0.555)S(0.464)PPAS(0.982)PLQHLLPGK;AAPEAS(0.5)S(0.5)PPAS(1)PLQHLLPGK ;;;; 108.77 0.00077602 338722400 16743.81 17538.8 15852.09 18316.3 19667.74 20801.4 20032 19149.7 20232.2 17445.79 TRUE FALSE FALSE 18505.00076 18107.06863 18012.33027 18670.83847 18160.80201 19029.00369 17777.94664 18659.8784 20091.40247 18197.96338 1.016872073 0.995005224 0.989799237 1.025985055 0.997957938 1.045666666 0.976919574 1.025382786 1.104046758 1 14.15148938 -9.66870414 1.517419765 0.999993496 1.009739362 0 0.037961652 1.284883605 5.319418262 0.012513276 0.002793327 2.14E-10 9.66870414 0.009745865 AAPEAS(ph)SPPASPLQHLLPGK ddPTM_HeLa_SAHA_4h_R1 1 AAPEASSPPASPLQHLLPGK 20 0 Q96TA1-2;Q96TA1 Q96TA1-2 FAM129B Niban-like protein 1 1 0 AAPEAS(0.837)S(0.163)PPASPLQHLLPGK 121.46 0.00013666 1665900 572.47 662.28 355.9 422.2 798.56 762.11 666.78 781.39 585.42 418.54 TRUE FALSE FALSE 632.6850212 683.7383065 404.4001986 430.3722915 737.3745053 697.1739405 591.7521595 761.4031752 581.3460146 436.5853077 1.449167001 1.56610471 0.926279908 0.985769067 1.688958589 1.596879071 1.355410155 1.743996332 1.331574848 1 8.77011977 -12.46414177 0.107797291 2.32E-27 1.704098057 0.163164892 0.262051674 87.46320067 0.888520734 21.98105383 1.993273573 3.43E-13 12.46414177 1.704098057 AAPEASS(ph)PPAS(ph)PLQHLLPGK ddPTM_HeLa_SAHA_4h_R1 1 AAPEASSPPASPLQHLLPGK 20 0 Q96TA1-2;Q96TA1 Q96TA1-2 FAM129B Niban-like protein 1 2 0 AAPEAS(0.253)S(0.747)PPAS(1)PLQHLLPGK 110.83 0.00089332 11053000 5499.1 5638.9 5238.6 5848.4 6681.6 6711.6 6246.9 5974.4 6050.6 5632.4 TRUE FALSE FALSE 6077.520569 5821.60406 5952.489127 5961.604239 6169.657251 6139.733922 5543.982371 5821.583499 6008.493382 5875.240328 1.034429271 0.990870796 1.013148194 1.014699639 1.050111469 1.045018345 0.943617973 0.990867296 1.022680443 1 12.52043215 -4.759400065 24.99996753 1.018394684 0.967242634 0.521058201 0.020600029 33.94338315 416080.0261 0.003067611 0.010435254 1.74E-05 4.759400065 -0.05115205 GK(ac)GGK(ac)GLGK(ac)GGAK ddPTM_HeLa_SAHA_4h_R1 2 GKGGKGLGKGGAK 13 3 P62805 P62805 HIST1H4A Histone H4 0 3 ; GK(1)GGK(1)GLGK(1)GGAK;GK(1)GGK(1)GLGK(1)GGAK 191.52 4.86E-23 431730000 1139.7 1917.99 1541.91 2441.88 2577.5 3103.1 2537.3 2559.3 1044.93 945.54 FALSE TRUE FALSE 1259.578875 1980.134134 1752.033465 2489.146118 2380.012507 2838.698422 2251.796326 2493.836812 1037.658247 986.3068568 1.277065922 2.007624829 1.776357381 2.523703553 2.413054812 2.878108778 2.283058574 2.528459368 1.052064314 1 9.945892753 -6.90176956 0.829045891 1.065962531 2.572359431 0.897301573 0.203687563 0.106136103 0.146323618 0.042534811 0.063007205 1.25E-07 6.90176956 1.5063969 up AAPGAEFAPNKR ddPTM_HeLa_SAHA_4h_R1 1 AAPGAEFAPNKR 12 1 Q15233;Q15233-2 Q15233 NONO Non-POU domain-containing octamer-binding protein 0 0 95.477 0.0071353 1465100 989.99 1009.7 945.71 843.11 1234.6 913.9 1044.9 796.35 687.42 770.06 FALSE FALSE TRUE 1094.12169 1042.414942 1074.586434 859.4296132 1140.005215 836.0305785 927.325102 775.9805201 682.6361883 803.2610552 1.36209976 1.297728722 1.337779825 1.069925658 1.41922132 1.040795608 1.154450469 0.966037772 0.849831053 1 9.649725121 -4.125119346 1.238671538 1.200990404 0.818386316 0.102002797 0.174567174 2.975201272 3.073627346 0.024670893 1.566893157 7.50E-05 4.125119346 -0.382604087 AAPLEEMEAPAADAIMS(ph)PEEELDGY(ph)EPEPLGK ddPTM_HeLa_SAHA_4h_R1 1 AAPLEEMEAPAADAIMSPEEELDGYEPEPLGK 32 0 Q07820-2;Q07820 Q07820-2 MCL1 Induced myeloid leukemia cell differentiation protein Mcl-1 2 0 AAPLEEMEAPAADAIMS(1)PEEELDGY(1)EPEPLGK 43.936 0.0094356 3388900 751.65 1335.1 1113.2 1050.9 1395.7 1564 1636.7 990.84 1480.5 1559.1 TRUE FALSE FALSE 830.7119957 1378.358116 1264.901099 1071.241689 1288.761768 1430.738401 1452.534208 965.4957475 1470.19708 1626.320431 0.510792326 0.847531698 0.777768682 0.658690421 0.792440249 0.879739548 0.893141463 0.59366883 0.904002097 1 10.66739582 -9.667890073 1.533643573 0.999422612 0.7181394 0.287677666 0.12312452 0.351400721 1.492617145 0.099041239 0.022390155 2.15E-10 9.667890073 -0.281283212 AAPPPPPPPPPLES(ph)SPR ddPTM_HeLa_SAHA_4h_R1 4 AAPPPPPPPPPLESSPR 17 0 Q5T4S7-3;Q5T4S7-4;Q5T4S7;Q5T4S7-2;Q5T4S7-5 Q5T4S7-3 UBR4 E3 ubiquitin-protein ligase UBR4 1 0 AAPPPPPPPPPLES(0.5)S(0.5)PR;AAPPPPPPPPPLES(0.5)S(0.5)PR;AAPPPPPPPPPLES(0.5)S(0.5)PR;AAPPPPPPPPPLES(0.5)S(0.5)PR ;;; 165.24 2.90E-06 75062000 981.77 940.288 1158.34 1162.61 1108.22 1621.36 966.75 1438.3 1087.24 1205.81 TRUE FALSE FALSE 1085.037073 970.7539481 1316.192543 1185.113998 1023.308423 1483.211006 857.9687457 1401.510369 1079.673808 1257.79837 0.862647861 0.771788206 1.046425702 0.942213017 0.813571115 1.179212059 0.68211946 1.114256785 0.858383851 1 10.29668496 AAPQS(ph)PSVPK ddPTM_HeLa_SAHA_4h_R1 3 AAPQSPSVPK 10 0 E9PF10;O75694-2;O75694 E9PF10 NUP155 Nuclear pore complex protein Nup155 1 0 AAPQS(0.989)PS(0.011)VPK;AAPQS(0.945)PS(0.055)VPK;AAPQS(0.964)PS(0.036)VPK ;; 142.08 0.0010394 287663900 10233 11098.9 8974.4 11440.1 13029.2 14492.5 11264.6 11733.9 12712 10747.8 TRUE FALSE FALSE 11309.35389 11458.51164 10197.3845 11661.53968 12030.90551 13257.65747 9997.077561 11433.76383 12623.53616 11211.19026 1.008755862 1.022060226 0.909571978 1.040169635 1.07311581 1.182537908 0.891705281 1.019852805 1.125976446 1 13.45265183 -6.046354464 24.98477052 0.998354435 1.043072939 0.012535625 0.08285346 832.7328181 448836.8625 0.010653452 0.017667234 8.99E-07 6.046354464 0.044718504 AAPQSPS(ph)VPK ddPTM_HeLa_SAHA_4h_R1 1 AAPQSPSVPK 10 0 E9PF10;O75694-2;O75694 E9PF10 NUP155 Nuclear pore complex protein Nup155 1 0 AAPQS(0.202)PS(0.798)VPK 122.51 0.0027104 217730000 3016.8 3429.7 2845 3067.8 3265.4 3887.9 3591 2845.8 3676.1 3457 TRUE FALSE FALSE 3334.120866 3540.82453 3232.701784 3127.181705 3015.205757 3556.629047 3186.931229 2773.008557 3650.517721 3606.048188 0.924591323 0.981912705 0.896466607 0.867204636 0.836152375 0.986295485 0.883773888 0.768988214 1.01233193 1 11.81620296 -1.000000002 0.078121662 1.096618961 0.417916291 0.529973413 0.051979921 125.7174689 0.72450084 1.000741483 9.286016756 0.1 1.000000002 -0.67870267 AAPSTAPAEAT(ph)PPKPGEAEAPPK ddPTM_HeLa_SAHA_4h_R1 2 AAPSTAPAEATPPKPGEAEAPPK 23 1 O95817 O95817 BAG3 BAG family molecular chaperone regulator 3 1 0 AAPSTAPAEAT(0.999)PPKPGEAEAPPK;AAPSTAPAEAT(0.999)PPKPGEAEAPPK ; 108.47 6.70E-05 35424000 3910.8 5304.3 3236.19 4235.6 4685.5 5735.8 4662.2 4435.3 7363.8 4245.9 TRUE FALSE FALSE 4322.155887 5476.1628 3677.20112 4317.586163 4326.498002 5247.077571 4137.596986 4321.851448 7312.554716 4428.961528 0.975884722 1.236443976 0.830262601 0.974852939 0.976865113 1.184719609 0.934213802 0.975815983 1.651076594 1 12.11275275 AAPTT(ph)PPPPVK ddPTM_HeLa_SAHA_4h_R1 2 AAPTTPPPPVK 11 0 C9JC20;C9JMQ4;C9JSC3;Q9NZQ3-5;Q9NZQ3-4;Q9NZQ3-3;Q9NZQ3-2;Q9NZQ3 C9JC20 NCKIPSD NCK-interacting protein with SH3 domain 1 0 AAPT(0.156)T(0.844)PPPPVK;AAPT(0.06)T(0.94)PPPPVK ; 118.28 0.0040806 16814100 10041.9 10654.6 9677.3 10056.3 10478.3 12252 10880.6 11027.3 11142.2 10371.8 TRUE FALSE FALSE 11098.15312 10999.81603 10996.07205 10250.95423 9675.454918 11208.06067 9656.286252 10745.23763 11064.66052 10818.97906 1.025804104 1.016714791 1.016368734 0.947497372 0.894303877 1.035962877 0.892532114 0.993184068 1.022708378 1 13.40127674 -6.261473427 24.9993977 1.013191801 0.950735543 0.384442153 0.040117823 2.294760115 1684995.12 0.005522876 0.008773959 5.48E-07 6.261473427 -0.062456259 AAPWGSNPS(ph)PSAESTQAMDR ddPTM_HeLa_SAHA_4h_R1 5 AAPWGSNPSPSAESTQAMDR 20 0 Q96N67-2;Q96N67-6;Q96N67;A0A1B0GWE0 Q96N67-2 DOCK7 Dedicator of cytokinesis protein 7 1 0 AAPWGS(0.027)NPS(0.621)PS(0.295)AES(0.044)T(0.012)QAMDR;AAPWGSNPS(0.852)PS(0.136)AES(0.009)T(0.003)QAMDR;AAPWGS(0.002)NPS(0.865)PS(0.116)AES(0.012)T(0.004)QAMDR;AAPWGSNPS(0.758)PS(0.234)AES(0.003)T(0.005)QAMDR;AAPWGSNPS(0.975)PS(0.025)AESTQAMDR ;;;; 169.6 3.29E-22 15027300 1766.91 1868.9 1734.41 1624.03 2085.17 2406.64 2246.17 2165.31 1788.81 2076.32 TRUE FALSE FALSE 1952.761701 1929.453586 1970.766362 1655.465449 1925.404725 2201.580733 1993.42504 2109.924506 1776.361526 2165.840316 0.901618502 0.890856806 0.909931516 0.764352495 0.888987388 1.01650187 0.920393357 0.974182856 0.820171973 1 11.08071116 -9.11227379 0.879917065 0.999907359 0.906644222 0 0.082664169 0.717864606 1.006485217 0.042482146 0.012508303 7.72E-10 9.11227379 -0.093263138 AAQAGS(ph)LEISK ddPTM_HeLa_SAHA_4h_R1 2 AAQAGSLEISK 11 0 Q9BV73-2;Q9BV73 Q9BV73-2 CEP250 Centrosome-associated protein CEP250 1 0 AAQAGS(0.807)LEIS(0.193)K;AAQAGS(0.997)LEIS(0.003)K ; 89.44 0.0076985 4014000 1479.87 1633.24 1693.92 1854.9 1597.24 2328.9 1936.88 2241.38 1803.13 1735.4 TRUE FALSE FALSE 1635.529516 1686.158048 1924.758596 1890.804272 1474.859816 2130.464618 1718.937165 2184.048745 1790.581872 1810.221587 0.903496858 0.931464998 1.06327237 1.044515371 0.814739934 1.176908194 0.949572791 1.20650906 0.989150657 1 10.82195059 -1.000000001 0.655760369 0.960118566 21.1123779 0.300667216 0.095452986 181.6458754 1.064199954 0.015254012 5331.705676 0.1 1.000000001 20.15225934 AAQAPSSFQLLYDLK ddPTM_HeLa_SAHA_4h_R1 1 AAQAPSSFQLLYDLK 15 0 V9GZ78;V9GYY3;A0A384N5Y3;F5H2F4;P11586;A0A494C1T2 V9GZ78 MTHFD1 "C-1-tetrahydrofolate synthase, cytoplasmic;Methylenetetrahydrofolate dehydrogenase;Methenyltetrahydrofolate cyclohydrolase;Formyltetrahydrofolate synthetase;C-1-tetrahydrofolate synthase, cytoplasmic, N-terminally processed" 0 0 129.37 0.00061839 238220 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 AAQDRDQIYR ddPTM_HeLa_SAHA_4h_R1 2 AAQDRDQIYR 10 1 P62995;P62995-3;H7C2L4 P62995 TRA2B Transformer-2 protein homolog beta 0 0 ; ; 101.46 0.014086 35040300 2248.61 2405.7 1910.63 2292.58 2658.2 2504.9 2535.7 2338.85 2073.65 2081.87 FALSE FALSE TRUE 2485.129117 2483.646258 2171.000706 2336.956201 2454.52929 2291.468428 2250.376362 2279.025604 2059.219301 2171.629604 1.14436141 1.143678578 0.999710403 1.0761302 1.13027069 1.055183823 1.036261597 1.049454105 0.948236889 1 11.08456234 -5.009909815 23.5292694 1.075052752 1.043574038 0 0.063279595 631.400118 1499192.379 0.00897802 0.024920504 9.77E-06 5.009909815 -0.031478713 AAQEEYVK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 AAQEEYVKR 9 1 P04075;H3BQN4;J3KPS3;P04075-2;H3BR68 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 1 ; AAQEEYVK(1)R;AAQEEYVK(1)R 175.91 1.26E-11 30705000 3112.2 12054.2 4936.8 5187.4 8976.3 8509.7 10869.3 8093.6 6950.5 2966.5 FALSE TRUE FALSE 3439.555475 12444.76399 5609.561394 5287.809628 8288.537833 7784.625686 9646.257758 7886.577431 6902.130905 3094.400333 1.111541852 4.02170458 1.812810494 1.70883178 2.678560284 2.515713821 3.117327017 2.548660995 2.230522933 1 11.59544414 -7.42002749 13.31871029 1.049183751 2.578598586 0.322659301 0.716138577 0.494377395 62.43225728 0.100484246 0.114873803 3.80E-08 7.42002749 1.529414834 AAQEEYVKR ddPTM_HeLa_SAHA_4h_R1 2 AAQEEYVKR 9 1 P04075;H3BQN4;J3KPS3;P04075-2;H3BR68 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 ; ; 138.06 0.015642 12660400 2357.35 2489.39 2312.52 2424.55 2561.99 3025.28 3325.88 2492.55 2295.41 2479.07 FALSE FALSE TRUE 2605.306889 2570.047869 2627.658183 2471.480671 2365.69088 2767.509124 2951.643229 2428.79418 2279.436055 2585.95484 1.007483522 0.993848705 1.016126864 0.95573234 0.914822967 1.070207833 1.141413293 0.939225288 0.881467851 1 11.33648137 AAQK(ac)TLLVSTSAVDNNEAQKK ddPTM_HeLa_SAHA_4h_R1 2 AAQKTLLVSTSAVDNNEAQKK 21 2 A0A087X0H9;Q5T8P6-3;Q5T8P6-2;Q5T8P6;Q5T8P6-5;Q5T8P6-4 A0A087X0H9 RBM26 RNA-binding protein 26 0 1 ; AAQK(1)TLLVSTSAVDNNEAQKK;AAQK(1)TLLVSTSAVDNNEAQKK 328.15 5.43E-165 18990900 1805.67 1522.24 1606.24 2657.95 2473.2 2794.03 2360.75 3638.7 2525.08 1966.72 FALSE TRUE FALSE 1995.598655 1571.561575 1825.130022 2709.398466 2283.70395 2555.962925 2095.112197 3545.627323 2507.507763 2051.514924 0.972743913 0.766049302 0.889649888 1.320681821 1.113179302 1.245890486 1.021251258 1.728297114 1.222271275 1 11.00247393 -6.260385932 24.99940878 0.960057664 1.259345616 0.37136184 0.203720648 72.45066405 1719320.081 0.026461048 0.042283977 5.49E-07 6.260385932 0.299287952 AAQQAASSSGQGQQAQT(ph)PTGK ddPTM_HeLa_SAHA_4h_R1 1 AAQQAASSSGQGQQAQTPTGK 21 0 H0Y9X2;U3KQK7;U3KPX3;A0A590UJ43;P48729;P48729-2 H0Y9X2 CSNK1A1 Casein kinase I isoform alpha 1 0 AAQQAASSSGQGQQAQT(0.994)PT(0.006)GK 98.491 0.00055311 0 473.5 317.49 225.91 510.46 345.77 306.89 445.03 383.93 437.81 472.25 TRUE FALSE FALSE 523.3049025 327.7768843 256.6958383 520.3406914 319.2771773 280.7412455 394.9540531 374.1096265 434.7632446 492.6110086 1.062308583 0.665386844 0.521092371 1.056291237 0.648132445 0.56990453 0.801756449 0.759442278 0.88256908 1 8.944305059 -7.263627728 24.92539372 1.029423502 0.717815207 0.393851314 0.146642504 104.9632449 1195532.271 0.022863573 0.02682133 5.45E-08 7.263627728 -0.311608295 AAQQQQPSAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 AAQQQQPSASPR 12 0 Q86U86-8;Q86U86 Q86U86-8 PBRM1 Protein polybromo-1 1 0 AAQQQQPSAS(1)PR;AAQQQQPSAS(1)PR ; 209.19 5.00E-11 49582000 2421.9 2298.27 1891.15 2740.4 2461.7 2897.5 2946.6 2588.7 2464.8 2685.5 TRUE FALSE FALSE 2676.646554 2372.735456 2148.866073 2793.444405 2273.085078 2650.616699 2615.040813 2522.484802 2447.647256 2801.285048 0.955506672 0.847016785 0.767100112 0.997201055 0.811443691 0.94621456 0.933514715 0.900474161 0.873758727 1 11.45187308 -7.469923246 3.844293665 0.981556361 0.887259764 0.051433356 0.07202236 0.198967259 5.677315795 0.011027475 0.01223794 3.39E-08 7.469923246 -0.094296596 AARCT(ph)RRT(ph)S(ph)GSK ddPTM_HeLa_SAHA_4h_R1 1 AARCTRRTSGSK 12 3 A0A1W2PRB5;A0A0J9YVS1;A0A3B3IT55;A0A0G2JNB1;A0A0G2JNT7;Q7Z3B3;A0A0G2JQF5;A0A0G2JQF4;Q7Z3B3-4;Q7Z3B3-2 A0A1W2PRB5 KANSL1 KAT8 regulatory NSL complex subunit 1 3 0 AARCT(0.999)RRT(0.997)S(0.985)GS(0.02)K 49.482 0.0086707 0 491.3 461.18 442.36 555.99 530.36 779.94 486.78 549.3 991.55 507.23 TRUE FALSE FALSE 542.9771882 476.1225346 502.6425171 566.7519904 489.7239314 713.4847242 432.0062333 535.2497014 984.6497228 529.0991676 1.026229526 0.899873906 0.949996802 1.071164018 0.925580612 1.348489599 0.816493882 1.011624539 1.860992765 1 9.047394338 -6.250034239 24.1876268 0.998218578 1.033923437 0 0.302822366 2165.954487 4593469.242 0.01858225 0.030631904 5.62E-07 6.250034239 0.035704859 AAS(ph)AIYR ddPTM_HeLa_SAHA_4h_R1 1 AASAIYR 7 0 Q9UKM9-2;Q5QPL9 Q9UKM9-2 RALY RNA-binding protein Raly 1 0 AAS(1)AIYR 86.136 0.023249 11749000 1989.2 2212.9 1986.2 2610.3 2960.3 2717.8 2970.4 2961.4 2338.3 2356.5 TRUE FALSE FALSE 2198.433183 2284.599412 2256.868992 2660.826131 2733.482454 2486.22815 2636.162774 2885.651676 2322.02758 2458.100247 0.894362704 0.929416697 0.918135456 1.082472586 1.112030503 1.011442944 1.072439083 1.173935717 0.944643158 1 11.26332804 -6.253373197 23.5411736 0.944786405 1.086270854 0.737963371 0.04548765 139.6472137 407559.1119 0.008249028 0.013509091 5.58E-07 6.253373197 0.141484449 AAS(ph)DSNPAGPLR ddPTM_HeLa_SAHA_4h_R1 2 AASDSNPAGPLR 12 0 Q9BUU2-2;Q9BUU2 Q9BUU2-2 METTL22 Methyltransferase-like protein 22 1 0 AAS(0.688)DS(0.312)NPAGPLR;AAS(0.611)DS(0.389)NPAGPLR ; 133.04 0.00093232 10305500 1400.96 1610.42 1402.39 1452.11 1610.9 1805.8 1703.16 1776.96 1615.82 1790.74 TRUE FALSE FALSE 1548.319401 1662.598665 1593.500406 1480.217689 1487.47319 1651.935681 1511.515954 1731.507936 1604.575377 1867.947565 0.828888042 0.890067096 0.853075555 0.79243 0.79631421 0.8843587 0.80918543 0.926957463 0.859004507 1 10.86723824 -9.308873074 0.700556657 1.017658231 0.842849266 0.043359046 0.060005857 0.428770129 0.316532916 0.045661764 0.008371179 4.91E-10 9.308873074 -0.174808965 AAS(ph)DTERDGLAPEK ddPTM_HeLa_SAHA_4h_R1 1 AASDTERDGLAPEK 14 1 Q7L4I2;E9PI52 Q7L4I2 RSRC2 Arginine/serine-rich coiled-coil protein 2 1 0 AAS(0.626)DT(0.374)ERDGLAPEK 112.03 0.0086127 4536000 840.97 853.95 665.71 765.39 1067.7 1025.2 966.8 1026 936.23 814.13 TRUE FALSE FALSE 929.4270831 881.6185403 756.4294919 780.2052302 985.8930567 937.8471924 858.0131195 999.7564056 929.7146992 849.2311286 1.094433602 1.038137335 0.890722757 0.918719538 1.160924304 1.104348582 1.010341108 1.177248893 1.09477228 1 9.730013444 -1.000000586 0.834029448 1.032341976 41.37300838 0.204847189 0.080864094 847.6045035 2.393451345 0.013401713 64832.30439 0.099999865 1.000000586 40.3406664 AAS(ph)EELLEK ddPTM_HeLa_SAHA_4h_R1 1 AASEELLEK 9 0 F8VY01;Q6ZV73-2;Q6ZV73 F8VY01 FGD6 "FYVE, RhoGEF and PH domain-containing protein 6" 1 0 AAS(1)EELLEK 150.46 0.00041316 3373100 1143.8 1127.7 1017.2 1278.1 1189.9 1398.7 1016.8 1214.8 1178.3 1176.4 TRUE FALSE FALSE 1264.110132 1164.23822 1155.818719 1302.839474 1098.730119 1279.522891 902.3869879 1183.727175 1170.100114 1227.120361 1.030143556 0.948756338 0.941895152 1.061704715 0.895372739 1.042703659 0.735369583 0.964638199 0.953533289 1 10.26106105 -4.779761121 24.99912774 1.001100198 0.850003817 0.337267874 0.07226106 131.2800962 179125.8437 0.008807178 0.026492125 1.66E-05 4.779761121 -0.151096381 AAS(ph)GGSGSENVGPPAAAVPGPLSR ddPTM_HeLa_SAHA_4h_R1 1 AASGGSGSENVGPPAAAVPGPLSR 24 0 Q9UL54-2 Q9UL54-2 1 0 AAS(0.811)GGS(0.129)GS(0.06)ENVGPPAAAVPGPLSR 114.57 8.80E-06 5728700 599.55 640.07 558.23 573.02 478.2 693.51 795.14 430.72 613.31 668.05 TRUE FALSE FALSE 662.6134198 660.808688 634.3026773 584.1116307 441.5604193 634.4190464 705.6687545 419.7028061 609.0419258 696.8529049 0.950865549 0.948275717 0.91023898 0.83821367 0.633649392 0.910405972 1.012650948 0.602283212 0.873989219 1 9.444710347 -6.468643827 2.133221889 0.974755972 0.807750929 0.24367356 0.117224933 0.280462044 2.529989513 0.017666033 0.02815061 3.40E-07 6.468643827 -0.167005044 AAS(ph)KDTISNNR ddPTM_HeLa_SAHA_4h_R1 1 AASKDTISNNR 11 1 Q14669;Q14669-2;Q14669-3;Q14669-4 Q14669 TRIP12 E3 ubiquitin-protein ligase TRIP12 1 0 AAS(0.998)KDT(0.002)ISNNR 114.87 0.013221 4972100 1912.2 1936.9 1861.3 2076 2351.3 2246.4 2076.2 2381.8 1991.9 2445.7 TRUE FALSE FALSE 2113.333969 1999.656831 2114.948271 2116.183982 2171.143902 2054.994082 1842.580512 2320.877005 1978.038206 2551.146096 0.828386102 0.783826859 0.829018877 0.829503252 0.851046479 0.805517993 0.722255975 0.909738963 0.775352775 1 11.3169298 -9.040163202 0.628340333 1.015062859 0.813670991 0 0.082898803 0.384409316 0.251826383 0.042012309 0.009965092 9.12E-10 9.040163202 -0.201391868 AAS(ph)LDSVATSR ddPTM_HeLa_SAHA_4h_R1 2 AASLDSVATSR 11 0 Q9Y2J4;Q9Y2J4-2;Q9Y2J4-4;Q9Y2J4-3 Q9Y2J4 AMOTL2 Angiomotin-like protein 2 1 0 AAS(0.972)LDS(0.028)VATSR;AAS(0.999)LDS(0.001)VATSR ; 177.83 4.32E-05 32997000 1868.36 1828.18 1619.81 1515.44 1461.65 1515.49 1749 1578.12 1688.6 1849.98 TRUE FALSE FALSE 2064.882677 1887.414232 1840.549271 1544.773533 1349.658693 1386.361726 1552.197917 1537.753975 1676.848895 1929.741691 1.070030609 0.978065738 0.953780125 0.800507933 0.699398629 0.71841829 0.804355279 0.79687037 0.868949924 1 10.91419203 -6.364823774 1.982186634 1.030589765 0.753718345 0.720779418 0.063005292 0.071517982 0.550081015 0.007037128 0.011803071 4.32E-07 6.364823774 -0.276871421 AAS(ph)LGSSQSSR ddPTM_HeLa_SAHA_4h_R1 1 AASLGSSQSSR 11 0 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;F8W7E0;E9PSG1;H0YA91;H0Y944;E7EN75;D6RBR1;D6RGF7 P20810-6 CAST Calpastatin 1 0 AAS(0.994)LGS(0.005)S(0.001)QSSR 158.34 0.00023265 8220100 1203.8 1455.9 1224.9 1340.4 1130.5 1758.4 1847.8 1461.2 1710.7 1536.2 TRUE FALSE FALSE 1330.421207 1503.072115 1391.822993 1366.34538 1043.881334 1608.574428 1639.880681 1423.82462 1698.795099 1602.4331 0.830250703 0.937993677 0.868568549 0.852669219 0.651435205 1.003832502 1.023369201 0.888539197 1.060134803 1 10.64604841 AAS(ph)LNYLNQPSAAPLQVSR ddPTM_HeLa_SAHA_4h_R1 3 AASLNYLNQPSAAPLQVSR 19 0 Q9NSK0-5;Q9NSK0;Q9NSK0-3 Q9NSK0-5 KLC4 Kinesin light chain 4 1 0 AAS(0.801)LNYLNQPS(0.199)AAPLQVSR;AAS(0.999)LNYLNQPS(0.001)AAPLQVSR;AAS(0.995)LNYLNQPS(0.005)AAPLQVSR ;; 270.73 5.44E-64 142157000 2063.53 2212.62 1894.73 2587.45 2236.64 2631.21 2345.11 2400.91 2541.96 2512.71 TRUE FALSE FALSE 2280.581553 2284.31034 2152.933937 2637.533836 2065.269126 2407.016105 2081.232051 2339.498199 2524.270293 2621.045225 0.870103855 0.871526488 0.821402819 1.006290853 0.787956311 0.918342073 0.794046601 0.892582156 0.963077733 1 11.35592653 -9.247195331 0.573510748 1.022102322 0.866256246 0.336733593 0.061363839 0.91766745 0.432899513 0.076744163 0.0131001 5.66E-10 9.247195331 -0.155846075 AAS(ph)LTEDR ddPTM_HeLa_SAHA_4h_R1 1 AASLTEDR 8 0 Q04637-9;Q04637;E7EX73;E9PGM1;Q04637-3;Q04637-8;E7EUU4;Q04637-7;Q04637-4;Q04637-5;Q04637-6 Q04637-9 EIF4G1 Eukaryotic translation initiation factor 4 gamma 1 1 0 AAS(0.977)LT(0.023)EDR 123.86 0.0015533 0 898.19 1255.6 882.07 1225 1538.6 1717.4 1593.8 1274.5 1510.5 1081.1 TRUE FALSE FALSE 992.6657452 1296.282264 1002.273906 1248.711646 1420.7128 1571.067858 1414.461429 1241.900135 1499.988308 1127.711512 0.880247949 1.149480386 0.888768001 1.107297064 1.259819365 1.393146954 1.254275951 1.101256946 1.330117048 1 10.13918233 -5.973276973 3.122384321 0.957166935 1.262116087 0.170127442 0.152534577 0.112589777 2.265797022 0.01512141 0.028102506 1.06E-06 5.973276973 0.304949152 AAS(ph)PESASSTPESLQAR ddPTM_HeLa_SAHA_4h_R1 2 AASPESASSTPESLQAR 17 0 Q96BT3 Q96BT3 CENPT Centromere protein T 1 0 AAS(0.999)PES(0.001)ASSTPESLQAR;AAS(0.999)PES(0.001)ASSTPESLQAR ; 266.45 4.56E-59 34757000 908.12 856.99 623.91 1001.11 952.08 1025.05 1157.52 1048.39 846.16 932.9 TRUE FALSE FALSE 1003.640228 884.7570383 708.9332056 1020.487932 879.1318361 937.7099732 1027.272803 1021.573702 840.2715037 973.1218845 1.031361276 0.909194472 0.728514297 1.048674321 0.903413899 0.963609994 1.055646594 1.049790081 0.863480225 1 9.926476705 -3.049023936 13.38234787 0.986720117 0.967952801 0 0.104918415 0 0 0.013136772 0 0.000893256 3.049023936 -0.018767317 AAS(ph)PFR ddPTM_HeLa_SAHA_4h_R1 3 AASPFR 6 0 O95817;C9JFK9 O95817 BAG3 BAG family molecular chaperone regulator 3 1 0 AAS(1)PFR;AAS(1)PFR;AAS(1)PFR ;; 110.31 0.013008 676577000 14517.4 15236.8 13144.8 15129 16054.8 17216.2 16772.9 12589.7 11435.6 15151.9 TRUE FALSE FALSE 16044.40674 15730.48232 14936.10489 15421.84367 14824.68469 15749.2829 14885.56915 12267.6737 11356.01873 15805.17256 1.015136448 0.995274316 0.945013718 0.975746618 0.937964115 0.996463838 0.9418163 0.776180941 0.718500142 1 13.94810917 -3.480789695 1.0633414 0.996770012 2.66E-16 0.080854089 0.091827086 2.235852074 0.59581153 0.004429914 3.766422517 0.00033053 3.480789695 -0.996770012 AAS(ph)PHQVTPQADEK ddPTM_HeLa_SAHA_4h_R1 2 AASPHQVTPQADEK 14 0 Q96L73-2;Q96L73-3;Q96L73 Q96L73-2 NSD1 "Histone-lysine N-methyltransferase, H3 lysine-36 and H4 lysine-20 specific" 1 0 AAS(0.996)PHQVT(0.004)PQADEK;AAS(1)PHQVTPQADEK ; 169.09 3.38E-17 0 1224.67 1344.26 974.44 1199.12 1468.59 1210.31 1179.96 1178.33 1745.79 1247.95 TRUE FALSE FALSE 1353.48641 1387.814906 1107.231609 1222.330702 1356.066951 1107.184779 1047.187795 1148.190025 1733.640905 1301.755232 1.039739558 1.066110488 0.850568203 0.938986586 1.041721914 0.850532229 0.804442932 0.882032195 1.331771798 1 10.34624249 -5.3534328 0.602538519 1.019313058 0.806549146 0.339948486 0.119001121 0.851767083 0.424899585 0.01358637 0.099296616 4.43E-06 5.3534328 -0.212763912 AAS(ph)PPASASDLIEQQQK ddPTM_HeLa_SAHA_4h_R1 4 AASPPASASDLIEQQQK 17 0 Q5VSL9-3;Q5VSL9-2;Q5VSL9 Q5VSL9-3 STRIP1 Striatin-interacting protein 1 1 0 AAS(0.999)PPAS(0.001)ASDLIEQQQK;AAS(0.52)PPAS(0.475)AS(0.004)DLIEQQQK;AAS(1)PPASASDLIEQQQK;AAS(1)PPASASDLIEQQQK ;;; 243.9 1.27E-36 154783800 7033.46 6539.34 4618.16 6302.84 7399.7 8627.4 7696.55 7625.5 7658.95 7030.36 TRUE FALSE FALSE 7773.271593 6751.218907 5247.498794 6424.840582 6832.736585 7892.296984 6830.513938 7430.450752 7605.650743 7333.473225 1.059971361 0.920603198 0.715554367 0.876097912 0.931719033 1.076201786 0.931415951 1.013223956 1.037114408 1 12.84028092 -7.25001937 23.22654929 1.028319807 0.920209128 0.238581316 0.088856201 325.7657722 662556.7624 0.015882395 0.019346771 5.62E-08 7.25001937 -0.108110679 AAS(ph)PPASASDLIEQQQKR ddPTM_HeLa_SAHA_4h_R1 2 AASPPASASDLIEQQQKR 18 1 Q5VSL9-3;Q5VSL9-2;Q5VSL9 Q5VSL9-3 STRIP1 Striatin-interacting protein 1 1 0 AAS(0.999)PPASASDLIEQQQKR;AAS(0.999)PPAS(0.001)ASDLIEQQQKR ; 128.67 9.10E-05 81628000 5621 3619.9 5227.4 4817.1 4135.5 3979.2 4967.4 5864.4 2309.5 4752 TRUE FALSE FALSE 6212.24257 3737.187135 5939.762849 4910.341936 3818.638883 3640.149774 4408.455079 5714.39714 2293.428001 4956.881976 1.253256099 0.7539391 1.198286116 0.990611025 0.770371153 0.734362809 0.889360509 1.1528209 0.462675531 1 12.27521719 -5.99548944 9.002954337 1.09477896 0.876372484 0 0.258560858 0.128810758 122.7421243 0.025895776 0.045975544 1.01E-06 5.99548944 -0.218406476 AAS(ph)PSPQSVR ddPTM_HeLa_SAHA_4h_R1 4 AASPSPQSVR 10 0 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 AAS(0.938)PS(0.061)PQS(0.001)VR;AAS(0.969)PS(0.031)PQSVR;AAS(0.974)PS(0.026)PQSVR;AAS(0.803)PS(0.191)PQS(0.006)VR ;;; 124.39 0.0024436 518043400 8533.4 9089.9 8768.1 9978.6 10049.8 10884.6 10047.2 9806.6 9491.3 8183.3 TRUE FALSE FALSE 9430.982165 9384.418724 9962.971006 10171.75023 9279.786495 9957.170845 8916.662613 9555.761372 9425.249271 8536.122111 1.104832152 1.099377282 1.167154227 1.19161255 1.087119698 1.166474743 1.044580021 1.119449938 1.104160548 1 13.0593651 -8.754300267 0.654405713 0.998428823 1.125944036 0.132066241 0.051247776 0.434033769 0.353389761 0.028584257 0.00968417 1.76E-09 8.754300267 0.127515212 AAS(ph)PVLLSSNSQK ddPTM_HeLa_SAHA_4h_R1 4 AASPVLLSSNSQK 13 0 G3V1Z7;P41970 G3V1Z7 ELK3 ETS domain-containing protein Elk-3 1 0 AAS(1)PVLLSSNSQK;AAS(0.991)PVLLS(0.002)S(0.005)NS(0.001)QK;AAS(0.999)PVLLSS(0.001)NSQK;AAS(1)PVLLSSNSQK ;;; 190.27 1.99E-07 22528400 6211.32 6284.17 4894.09 5936.93 6544.85 5070.7 6270 4868.58 5415.54 5613.53 TRUE FALSE FALSE 6864.655136 6487.781231 5561.031098 6051.847865 6043.385007 4638.647833 5564.483098 4744.048773 5377.852816 5855.55675 1.172331757 1.107970003 0.949701512 1.033522195 1.032076925 0.792178785 0.950291037 0.810178942 0.9184187 1 12.51559063 -5.528949284 0.997279562 1.079867799 0.844322602 0.381422546 0.089308883 0.364358932 0.659097137 0.014313199 0.056600145 2.96E-06 5.528949284 -0.235545197 AAS(ph)QT(ph)S(ph)EMK ddPTM_HeLa_SAHA_4h_R1 1 AASQTSEMK 9 0 A0A0U1RQH1;A0A0U1RRJ3;Q9HCH5-12;Q9HCH5-11;Q9HCH5-7;Q9HCH5-8;A0A0U1RQP0;A0A0U1RR07 A0A0U1RQH1 3 0 AAS(1)QT(1)S(1)EMK 57.281 0.008009 0 250.99 212.31 108.12 225.8 318.03 313.05 285.43 242.03 274.47 0 TRUE FALSE FALSE 277.3902798 219.1889833 122.8540305 230.1706855 293.6626101 286.3763788 253.3126652 235.8392231 272.5599409 0 0 AAS(ph)SPDGFFWTQGSPKPGTASPK ddPTM_HeLa_SAHA_4h_R1 1 AASSPDGFFWTQGSPKPGTASPK 23 1 Q86YV5 Q86YV5 SGK223 Tyrosine-protein kinase SgK223 1 0 AAS(0.681)S(0.245)PDGFFWT(0.018)QGS(0.056)PKPGTASPK 60.51 0.0086606 0 345.32 404.49 369.27 415.92 402.27 550.88 556.13 411.76 283.18 451.84 TRUE FALSE FALSE 381.642342 417.5957414 419.5921925 423.970733 371.4481595 503.9419248 493.5527887 401.2277754 281.2093273 471.3210337 0.809729069 0.886011257 0.890247119 0.899537052 0.788100112 1.069211618 1.047169028 0.851283407 0.596640734 1 8.880566256 -5.248583242 24.97436357 0.896973177 0.995016108 0.136922851 0.122202684 1011.571774 1965077.571 0.012943787 0.032770237 5.64E-06 5.248583242 0.098042931 AAS(ph)SSS(ph)PGSPVASSPSR ddPTM_HeLa_SAHA_4h_R1 1 AASSSSPGSPVASSPSR 17 0 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 2 0 AAS(0.739)S(0.205)S(0.063)S(0.674)PGS(0.006)PVAS(0.297)S(0.017)PSR 170.42 2.89E-06 7069000 626.1 643.95 701.99 731.76 553.63 767.65 640.76 631.09 505.32 811.29 TRUE FALSE FALSE 691.9560706 664.8144025 797.6535414 745.9242729 511.210989 702.2419013 568.6599984 614.9476316 501.803437 846.2686823 0.817655297 0.785583133 0.942553539 0.881427245 0.604076459 0.829809629 0.67196153 0.726657673 0.592959952 1 9.724971968 -13.52287874 0.057756516 1.901990788 0.374194254 0 0.149406187 175.845685 0.799071188 23.22389528 4.642589352 3.00E-14 13.52287874 -1.527796534 AAS(ph)SSSPGS(ph)PVASSPSR ddPTM_HeLa_SAHA_4h_R1 1 AASSSSPGSPVASSPSR 17 0 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 2 0 AAS(0.572)S(0.285)S(0.143)S(0.42)PGS(0.577)PVAS(0.004)SPSR 206.13 1.13E-14 9325000 1138 1226.4 1104.9 1096.1 1435.9 1237 1191.6 1333.9 979.16 1133.6 TRUE FALSE FALSE 1257.700061 1266.136165 1255.470018 1117.3166 1325.881652 1131.600641 1057.518032 1299.780769 972.3459458 1182.475044 1.06361658 1.070750856 1.061730668 0.944896559 1.121276647 0.956976341 0.894325878 1.099203553 0.822297224 1 10.20759402 AAS(ph)SSSPGSPVASSPSR ddPTM_HeLa_SAHA_4h_R1 1 AASSSSPGSPVASSPSR 17 0 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 1 0 AAS(0.35)S(0.219)S(0.219)S(0.088)PGS(0.12)PVAS(0.005)SPSR 173.19 6.70E-09 15307000 1796.2 2023.3 2033 1854.2 2335.5 2670.6 2216.9 2348.1 2122.3 2319.6 TRUE FALSE FALSE 1985.132557 2088.856248 2310.046653 1890.090722 2156.554495 2443.049856 1967.448577 2288.039002 2107.530742 2419.609308 0.820435163 0.863303113 0.954718865 0.781155336 0.891282112 1.009687741 0.813126554 0.945623326 0.871021092 1 11.2405584 -9.512669623 1.270551632 0.999856337 0.877651747 0 0.077646776 0.432824087 1.253061105 0.045495503 0.011021993 3.07E-10 9.512669623 -0.12220459 AASAPAKES(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 AASAPAKESPR 11 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 AASAPAKES(1)PR;AASAPAKES(1)PR;AASAPAKES(1)PR;AASAPAKES(1)PR ;;; 112.02 0.002186 1015682000 14758.8 14988.2 11690.9 17116.8 17933.4 19335.5 19921.4 18202.4 18594.9 20886.3 TRUE FALSE FALSE 16311.1983 15473.82751 13284.07497 17448.12042 16559.34677 17688.00662 17679.79164 17736.80896 18465.49658 21786.81061 0.748673066 0.710238309 0.609730135 0.800857029 0.760062914 0.811867645 0.811490583 0.81410764 0.847553913 1 14.41116739 -9.093252583 0.866176992 0.999948489 0.757752417 0.384839708 0.07461103 0.284932664 0.387617681 0.043253419 0.012840633 8.07E-10 9.093252583 -0.242196072 AASDPLLSS(ph)VSPAVSK ddPTM_HeLa_SAHA_4h_R1 1 AASDPLLSSVSPAVSK 16 0 P19532 P19532 TFE3 Transcription factor E3 1 0 AASDPLLS(0.124)S(0.758)VS(0.117)PAVSK 201.4 3.72E-15 46070000 4939.1 4948.7 5083 4134 4668.7 6453.9 4838.6 4307.4 6210.1 5004.6 TRUE FALSE FALSE 5458.617199 5109.041127 5775.684769 4214.019548 4310.985215 5903.991411 4294.147994 4197.222945 6166.883408 5220.372798 1.045637431 0.978673617 1.106374007 0.807225788 0.82580026 1.130952068 0.822574969 0.804008278 1.181310923 1 12.34993712 -6.260569783 24.99964013 1.023983869 0.8861673 0.401195048 0.107343693 70.1269599 2016038.929 0.014150217 0.022614227 5.49E-07 6.260569783 -0.137816568 AASDPLLSSVS(ph)PAVSK ddPTM_HeLa_SAHA_4h_R1 1 AASDPLLSSVSPAVSK 16 0 P19532 P19532 TFE3 Transcription factor E3 1 0 AASDPLLS(0.049)S(0.381)VS(0.569)PAVS(0.001)K 265.77 9.33E-59 40546000 2445.1 2785.6 2579.7 2454.1 2423.1 2704.2 2519.5 2105.6 2464.3 2123 TRUE FALSE FALSE 2702.286837 2875.855268 2931.248081 2501.602654 2237.442601 2473.786947 2235.999229 2051.741801 2447.150736 2214.53292 1.220251373 1.298628366 1.323641683 1.129629924 1.010345153 1.117069394 1.00969338 0.926489637 1.10504148 1 11.11278673 -4.449404765 1.015546576 1.137174798 0.858731583 0.363330745 0.100752716 1.732379836 1.695348575 0.019988485 0.484378717 3.55E-05 4.449404765 -0.278443215 AASDS(ph)NPAGPLR ddPTM_HeLa_SAHA_4h_R1 1 AASDSNPAGPLR 12 0 Q9BUU2-2;Q9BUU2 Q9BUU2-2 METTL22 Methyltransferase-like protein 22 1 0 AAS(0.014)DS(0.986)NPAGPLR 139.19 0.00070366 4796400 957.33 1083.8 1049.2 1101.3 1192.4 1142.8 995.39 955.07 1152.7 1133.3 TRUE FALSE FALSE 1058.026362 1118.915831 1192.179512 1122.617254 1101.03857 1045.427011 883.3860975 930.6406923 1144.678267 1182.162109 0.894992619 0.946499488 1.008473798 0.94963055 0.931376975 0.884334731 0.747263079 0.787236103 0.96829213 1 10.20721217 -4.961937702 2.384493637 0.95265265 0.763912007 0.836570632 0.033080622 0.111770817 1.24754219 0.006342065 0.024337838 1.09E-05 4.961937702 -0.188740643 AASEQQADTS(ph)GGDSPK ddPTM_HeLa_SAHA_4h_R1 1 AASEQQADTSGGDSPK 16 0 U3KQ26;P85037;P85037-2 U3KQ26;P85037 FOXK1 Forkhead box protein K1 1 0 AASEQQADT(0.059)S(0.92)GGDS(0.02)PK 88.951 0.0053471 0 393.62 285.27 211.77 400.5 278.08 454.73 404.58 283.01 382.46 288.71 TRUE FALSE FALSE 435.0227576 294.5129352 240.6289127 408.2522566 256.7735705 415.9844458 359.0555936 275.771014 379.7984297 301.157701 1.444501522 0.977935926 0.799012982 1.355609554 0.852621632 1.381284438 1.192251078 0.915703012 1.261128068 1 8.234375341 -7.166934667 23.92309399 1.210009725 1.077078841 0.111596954 0.211817004 85.15010208 21546.82848 0.0396139 0.04851692 6.81E-08 7.166934667 -0.132930884 AASEQQADTSGGDS(ph)PKV ddPTM_HeLa_SAHA_4h_R1 4 AASEQQADTSGGDSPKV 17 1 U3KQ26 U3KQ26 FOXK1 1 0 AASEQQADT(0.001)S(0.009)GGDS(0.99)PKV;AASEQQADTSGGDS(1)PKV;AASEQQADTSGGDS(1)PKV;AASEQQADTSGGDS(1)PKV ;;; 188.9 1.69E-11 28114100 8643.5 8372.5 7676.6 9265.9 8779.5 9805.7 9447 9042.3 9467.6 8858 TRUE FALSE FALSE 9552.662988 8643.774493 8722.72707 9445.254893 8106.816607 8970.199195 8383.998697 8811.011059 9401.714201 9239.91173 1.033847862 0.935482367 0.944027099 1.022223498 0.877369486 0.970810053 0.907367834 0.953581735 1.017511257 1 13.17366335 -7.257065683 24.95108555 1.015983713 0.94439939 0.453781374 0.036550469 230.7677099 1316487.191 0.005864306 0.007052602 5.53E-08 7.257065683 -0.071584323 AASGEDSTEEALAAAAAPWEGGPVPGVDRS(ph)PFAK ddPTM_HeLa_SAHA_4h_R1 2 AASGEDSTEEALAAAAAPWEGGPVPGVDRSPFAK 34 1 E7ESD2;Q641Q2-2;Q641Q2;F8W7U3;A0A087WYF6 E7ESD2 FAM21A WASH complex subunit FAM21A 1 0 AASGEDSTEEALAAAAAPWEGGPVPGVDRS(1)PFAK;AASGEDSTEEALAAAAAPWEGGPVPGVDRS(1)PFAK ; 126.74 1.14E-16 58043000 1273.7 1671.5 1382.5 1716.69 1737.56 1874.37 2041.28 1641.61 1872.46 1638 TRUE FALSE FALSE 1407.67361 1725.657697 1570.8999 1749.919017 1604.428528 1714.663131 1811.589802 1599.619993 1859.429398 1708.622196 0.823864757 1.009970314 0.9193957 1.024169662 0.939018896 1.003535559 1.060263531 0.93620462 1.088262462 1 10.73861771 -6.638745792 1.67238282 0.919444296 0.992929457 0 0.080245468 0.513377641 2.912322239 0.013017363 0.019958906 2.30E-07 6.638745792 0.073485161 AASGGS(ph)GSENVGPPAAAVPGPLSR ddPTM_HeLa_SAHA_4h_R1 1 AASGGSGSENVGPPAAAVPGPLSR 24 0 Q9UL54-2 Q9UL54-2 1 0 AAS(0.075)GGS(0.768)GS(0.157)ENVGPPAAAVPGPLSR 157.38 4.62E-08 6638200 268.22 466.61 565.1 338.77 464.38 509.53 442.02 346.1 334 502.22 TRUE FALSE FALSE 296.4326102 481.7284702 642.1088851 345.3273832 428.7993047 466.1151775 392.2827463 337.2472631 331.6756668 523.873162 0.565848056 0.919551726 1.225695324 0.659181283 0.818517412 0.889748151 0.748812451 0.643757473 0.633122082 1 9.033073744 -4.4516466 3.487912224 0.827618151 0.648491075 0.098015166 0.183265047 0.579598252 12.54145326 0.028967052 0.202709125 3.53E-05 4.4516466 -0.179127076 AASLNYLNQPS(ph)AAPLQVSR ddPTM_HeLa_SAHA_4h_R1 1 AASLNYLNQPSAAPLQVSR 19 0 Q9NSK0-5;Q9NSK0;Q9NSK0-3 Q9NSK0-5 KLC4 Kinesin light chain 4 1 0 AAS(0.089)LNYLNQPS(0.876)AAPLQVS(0.035)R 185.59 1.11E-13 32185000 1059.7 1238.7 943.22 1052.7 1218.9 1410.4 1099.4 1437.2 1296.2 1272.9 TRUE FALSE FALSE 1171.164108 1278.834693 1071.75711 1073.076531 1125.508145 1290.225985 975.6926185 1400.438505 1287.179639 1327.780948 0.882046176 0.963136799 0.807179159 0.808172863 0.847661014 0.971715995 0.734829506 1.054721042 0.969421681 1 10.37480144 -9.077743139 0.575360088 1.01403842 0.873804155 0.166224754 0.089058777 1.272081222 0.665223694 0.093319148 0.019787838 8.36E-10 9.077743139 -0.140234265 AASLTEDRDR ddPTM_HeLa_SAHA_4h_R1 3 AASLTEDRDR 10 1 Q04637-9;Q04637;E7EX73;E9PGM1;Q04637-3;Q04637-8;E7EUU4;Q04637-7;Q04637-4;Q04637-5;Q04637-6 Q04637-9 EIF4G1 Eukaryotic translation initiation factor 4 gamma 1 0 0 ;; ;; 126.24 0.0010461 16889600 3121.77 2889.14 2773.48 3164.78 3126.24 2890.14 3044.67 2661.15 2271.84 2551.35 FALSE FALSE TRUE 3450.132092 2982.750032 3151.435411 3226.038893 2886.708167 2643.883813 2702.075718 2593.081636 2256.03008 2661.351185 1.296383623 1.12076529 1.184148649 1.212180832 1.084677657 0.993436653 1.015302202 0.974347787 0.847701008 1 11.37794318 -5.44036527 3.586647761 1.149904826 0.997100174 0.107088962 0.119348393 0.249186861 6.055891662 0.01616908 0.037689748 3.63E-06 5.44036527 -0.152804653 AASPYSQRPAS(ph)PTAIR ddPTM_HeLa_SAHA_4h_R1 2 AASPYSQRPASPTAIR 16 1 A0A0D9SF60;Q99569-2;Q99569 A0A0D9SF60 PKP4 Plakophilin-4 1 0 AASPYS(0.001)QRPAS(0.505)PT(0.494)AIR;AASPYS(0.001)QRPAS(0.968)PT(0.032)AIR ; 170.48 8.01E-07 9333100 1435.06 2149.54 1183.34 1811.54 1628.69 1808.43 1806.87 1894.05 1728.11 1475.93 TRUE FALSE FALSE 1586.006195 2219.186506 1344.599413 1846.604976 1503.900124 1654.34159 1603.556232 1845.602944 1716.083942 1539.564565 1.030165432 1.441437765 0.873363445 1.19943328 0.976834722 1.074551615 1.041564783 1.198782425 1.114655391 1 10.58830666 -7.495977705 24.92493693 1.013308173 1.109116234 0.025945863 0.146941774 504.7462788 467673.828 0.023067381 0.02493097 3.19E-08 7.495977705 0.095808061 AASQGSDS(ph)PLLPAQR ddPTM_HeLa_SAHA_4h_R1 1 AASQGSDSPLLPAQR 15 0 H0Y507;Q5TCZ1-2;Q5TCZ1-3;Q5TCZ1 H0Y507 SH3PXD2A SH3 and PX domain-containing protein 2A 1 0 AASQGS(0.002)DS(0.998)PLLPAQR 121.45 0.00074369 4945600 674.87 562.92 435.39 499.73 469.5 531.27 556.07 465.66 592.94 555.17 TRUE FALSE FALSE 745.855923 581.1589773 494.7226818 509.4029968 433.5270114 486.0028072 493.4995401 453.7490915 588.8136823 579.1060956 1.287943485 1.003544915 0.85428678 0.879636738 0.748614139 0.839229307 0.85217466 0.783533613 1.016763054 1 9.177683872 -6.890937721 3.220640227 1.13645338 0.825210141 0.687201136 0.083474188 0.117872221 2.444240196 0.018364041 0.024616735 1.29E-07 6.890937721 -0.311243239 AASS(ph)PDGFFWTQGSPKPGTASPK ddPTM_HeLa_SAHA_4h_R1 2 AASSPDGFFWTQGSPKPGTASPK 23 1 Q86YV5 Q86YV5 SGK223 Tyrosine-protein kinase SgK223 1 0 AAS(0.376)S(0.621)PDGFFWT(0.001)QGS(0.001)PKPGTASPK;AAS(0.401)S(0.511)PDGFFWT(0.088)QGSPKPGTASPK ; 143.47 3.40E-13 10558000 1870.42 2655.6 2417.2 1933.46 2720.1 3421.7 3343.9 2281.9 1789.62 2295.86 TRUE FALSE FALSE 2067.159357 2741.643182 2746.603428 1970.884914 2511.686526 3130.15191 2967.635571 2223.532302 1777.165889 2394.84576 0.863170143 1.14480992 1.146881137 0.822969457 1.04878843 1.307036955 1.239176076 0.928465766 0.742079477 1 11.22571703 -5.990404263 0.75874937 0.947326212 1.154623778 0.206945326 0.157345492 0.832969396 0.904256666 0.029049181 0.08927239 1.02E-06 5.990404263 0.207297566 AASSDQLRDNS(ph)PPPAFKPEPPK ddPTM_HeLa_SAHA_4h_R1 3 AASSDQLRDNSPPPAFKPEPPK 22 2 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 AAS(0.006)S(0.001)DQLRDNS(0.992)PPPAFKPEPPK;AAS(0.055)S(0.096)DQLRDNS(0.848)PPPAFKPEPPK;AAS(0.003)S(0.01)DQLRDNS(0.988)PPPAFKPEPPK ;; 68.895 0.002829 46921000 7150 8163.4 7500.85 5667.94 8101.6 8326.8 8574.7 6486.6 7928.3 7728.1 TRUE FALSE FALSE 7902.069805 8427.899516 8523.026775 5777.651175 7480.857158 7617.309795 7609.852189 6320.682164 7873.126315 8061.296211 0.980248039 1.045476967 1.057277459 0.716714908 0.927996809 0.944923694 0.943998582 0.784077647 0.976657613 1 12.97679612 -6.302084462 24.99993321 0.999959204 0.876113917 0.506332658 0.072251267 363.3945348 223515.6114 0.010729831 0.016390198 4.99E-07 6.302084462 -0.123845287 AASSLNLS(ph)NGETESVK ddPTM_HeLa_SAHA_4h_R1 2 AASSLNLSNGETESVK 16 0 O95819-3;E7EX83;G5E948;C9J840;H7C360;E7ENQ1;H7C0P6;G3XAA2;A0A0D9SG62;A0A0D9SEY1;O95819-4;O95819-2;O95819;O95819-5;O95819-6;E7EN19 O95819-3 MAP4K4 Mitogen-activated protein kinase kinase kinase kinase 4 1 0 AASSLNLS(0.988)NGET(0.012)ESVK;AASSLNLS(0.985)NGET(0.015)ESVK ; 197.1 1.04E-12 23067000 3740 3926.1 3702.8 3166.1 4309.2 4082.6 4520.6 4426.1 3468.2 4374.9 TRUE FALSE FALSE 4133.39036 4053.308216 4207.398301 3227.384444 3979.030027 3734.739512 4011.93019 4312.886771 3444.064514 4563.523349 0.905745417 0.888197103 0.921962698 0.707213308 0.871920602 0.818389482 0.87912998 0.945078274 0.75469418 1 12.1559324 -8.149496374 0.593642778 0.994578316 0.851949671 0 0.096121194 0.500543475 0.397203464 0.03058423 0.017434005 7.09E-09 8.149496374 -0.142628645 AASSS(ph)SPGSPVASSPSR ddPTM_HeLa_SAHA_4h_R1 1 AASSSSPGSPVASSPSR 17 0 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 1 0 AAS(0.002)S(0.03)S(0.802)S(0.1)PGS(0.065)PVASSPSR 167.18 1.92E-06 1992600 353.84 711.5 642.71 722.12 804.73 829.35 660.71 598.93 474.29 896.27 TRUE FALSE FALSE 391.0585147 734.5530668 730.2951717 736.0976768 743.0717613 758.6847142 586.3651719 583.6102378 470.9893773 934.9125859 0.418283506 0.785691708 0.781137384 0.787343852 0.794803463 0.81150337 0.627187162 0.624240433 0.503779053 1 9.86868767 -9.676590863 1.550810641 0.99933301 0.668252237 0 0.1934577 0.322872351 1.402880227 0.108098911 0.024335647 2.11E-10 9.676590863 -0.331080774 AASSSS(ph)PGSPVASSPSR ddPTM_HeLa_SAHA_4h_R1 1 AASSSSPGSPVASSPSR 17 0 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 1 0 AASS(0.001)S(0.024)S(0.757)PGS(0.218)PVASSPSR 172.32 7.22E-09 18914000 3167.2 3645.5 2838.5 3222.5 3782.4 4854.5 3917 3838.5 3585.9 3683.6 TRUE FALSE FALSE 3500.340628 3763.616592 3225.315998 3284.876147 3492.593329 4440.869289 3476.248851 3740.316728 3560.94543 3842.418023 0.910973404 0.979491708 0.839397478 0.854898173 0.908957148 1.15574861 0.904703452 0.973427853 0.926745973 1 11.90779877 AASSSSPGS(ph)PVASSPSR ddPTM_HeLa_SAHA_4h_R1 1 AASSSSPGSPVASSPSR 17 0 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 1 0 AASSSS(0.005)PGS(0.995)PVASSPSR 213 1.21E-20 2835800 245.95 394.02 444.02 380.67 306.79 466.45 329.14 376.35 293.2 395.29 TRUE FALSE FALSE 271.8201495 406.7865065 504.5287332 388.0384183 283.2838165 426.7058358 292.104301 366.7235119 291.1595973 412.3328864 0.659225006 0.986548781 1.223595667 0.94108045 0.687026977 1.034857635 0.708418636 0.889387008 0.706127517 1 8.687665721 -3.931051196 20.24888625 0.872283076 1.316256433 0 0.178360634 11574.4274 2585669.05 0.026067987 405555.0435 0.000117206 3.931051196 0.443973357 AASSSSPGSPVASS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 3 AASSSSPGSPVASSPSR 17 0 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 1 0 AASSSSPGSPVAS(0.003)S(0.997)PSR;AASSSSPGSPVAS(0.213)S(0.785)PS(0.002)R;AASSSSPGSPVAS(0.225)S(0.774)PSR ;; 307.07 4.36E-102 43383400 7742.2 8358.5 7309.6 7388.1 8548 9094.4 8155.4 8013.9 7325.4 8330.1 TRUE FALSE FALSE 8556.560118 8629.320884 8305.714221 7531.107359 7893.054087 8319.505956 7237.732928 7808.916042 7274.421945 8689.251378 0.984729265 0.993102916 0.955860736 0.866715328 0.908369863 0.957447954 0.832952416 0.898686861 0.837174761 1 13.08501617 -6.478101359 3.63659129 0.992345577 0.894183779 0.091530413 0.057477813 0.094164121 2.553445845 0.00459188 0.006993787 3.33E-07 6.478101359 -0.098161798 AASVAAATT(ph)SPTPR ddPTM_HeLa_SAHA_4h_R1 1 AASVAAATTSPTPR 14 0 Q9Y2D9 Q9Y2D9 ZNF652 Zinc finger protein 652 1 0 AASVAAAT(0.098)T(0.803)S(0.098)PTPR 146.84 0.00018187 10134000 1731 1796.4 1487 1759 2008.6 1651.1 1806.2 2010.6 1708.9 1670.8 TRUE FALSE FALSE 1913.074522 1854.604539 1689.640616 1793.047989 1854.701502 1510.416991 1602.961622 1959.171763 1697.007626 1742.836365 1.097678796 1.064130045 0.969477485 1.028810292 1.06418568 0.866643032 0.919743043 1.124128348 0.973704508 1 10.76722141 -5.349357479 25 1.042316339 0.965095541 0.096041566 0.072833103 86.16715073 24499.76737 0.010255707 0.022932458 4.47E-06 5.349357479 -0.077220798 AASVAAATTS(ph)PTPR ddPTM_HeLa_SAHA_4h_R1 1 AASVAAATTSPTPR 14 0 Q9Y2D9 Q9Y2D9 ZNF652 Zinc finger protein 652 1 0 AASVAAAT(0.024)T(0.203)S(0.757)PT(0.016)PR 139.77 0.00023467 10003000 1645.9 2205.2 1352.8 1512.3 1615.4 1664.5 1766.7 1929.9 1774.7 2156.2 TRUE FALSE FALSE 1819.023314 2276.649927 1537.152539 1541.572753 1491.628401 1522.675236 1567.906266 1880.535952 1762.349718 2249.164334 0.808755183 1.012220358 0.683432738 0.685398008 0.66319227 0.67699599 0.69710614 0.836104292 0.78355756 1 11.13517336 -6.747965432 24.99935842 0.914856359 0.70224454 0.575734184 0.08122263 122.2972484 226907.866 0.01365421 0.019247245 1.79E-07 6.747965432 -0.212611819 AASVVQPQPLVVVK(ac)EEK ddPTM_HeLa_SAHA_4h_R1 2 AASVVQPQPLVVVKEEK 17 1 O60885 O60885 BRD4 Bromodomain-containing protein 4 0 1 ; AASVVQPQPLVVVK(1)EEK;AASVVQPQPLVVVK(1)EEK 251.87 5.52E-71 1869510 611.66 693.62 541.69 440.38 483.05 749.59 516.78 984.49 796.23 530.1 FALSE TRUE FALSE 675.9972052 716.0937431 615.5086922 448.9041917 446.0388134 685.7207149 458.6305543 959.3081713 790.6889706 552.9552052 1.22251712 1.295030296 1.113125776 0.811827409 0.806645473 1.240101745 0.829417193 1.734875017 1.429933136 1 9.111018803 -1.000000036 0.009507508 4.81E-12 2.377118302 0 0.289576463 67707.25386 50.27688734 5464.797325 7221.874728 0.099999992 1.000000036 2.377118302 AAT(ph)PLPSLR ddPTM_HeLa_SAHA_4h_R1 3 AATPLPSLR 9 0 Q9Y3Q8 Q9Y3Q8 TSC22D4 TSC22 domain family protein 4 1 0 AAT(0.997)PLPS(0.003)LR;AAT(1)PLPSLR;AAT(0.998)PLPS(0.002)LR ;; 115.7 0.0079362 41997900 8433.3 10291.6 10480.9 7393.8 9697.8 8752.4 9611.2 7345.3 8151.3 8475.5 TRUE FALSE FALSE 9320.353187 10625.05459 11909.18247 7536.917691 8954.756659 8006.64628 8529.722481 7157.417862 8094.57444 8840.920283 1.054228846 1.201804139 1.347052353 0.85250375 1.012876078 0.905634937 0.964800293 0.809578373 0.915580526 1 13.10998084 AAT(ph)SPAPGPSDATAR ddPTM_HeLa_SAHA_4h_R1 1 AATSPAPGPSDATAR 15 0 Q8IXZ2-2;Q8IXZ2 Q8IXZ2-2 ZC3H3 Zinc finger CCCH domain-containing protein 3 1 0 AAT(0.589)S(0.398)PAPGPS(0.006)DAT(0.006)AR 113.37 0.0027801 2768700 781.11 806.37 877.66 1055.4 1049.9 1452 1182.9 971.63 1001.5 866.3 TRUE FALSE FALSE 863.2707337 832.4969171 997.2629341 1075.828793 969.4568888 1328.281431 1049.796979 946.7771115 994.53048 903.6504326 0.955314912 0.921259911 1.103593711 1.190536467 1.072822912 1.469906264 1.161729072 1.047724958 1.100569915 1 9.819620979 -6.530315527 3.21148409 0.974115455 1.195493559 0.376683592 0.115804171 0.160127405 3.430469443 0.016925603 0.025408711 2.95E-07 6.530315527 0.221378104 AAT(ph)SPGVGQSAPGTR ddPTM_HeLa_SAHA_4h_R1 1 AATSPGVGQSAPGTR 15 0 Q6IE81-2;Q6IE81 Q6IE81-2 JADE1 Protein Jade-1 1 0 AAT(0.596)S(0.404)PGVGQSAPGTR 132.65 0.000416 4775400 1865 1958.9 1377.2 1656.2 2056.2 1907 1422.3 1670.5 2541.8 2256.7 TRUE FALSE FALSE 2061.169257 2022.369645 1564.877644 1688.258146 1898.6544 1744.512872 1262.259061 1627.771029 2524.111407 2353.997381 0.875603887 0.859121451 0.66477459 0.717187776 0.806566063 0.741085307 0.536219399 0.691492285 1.072266022 1 11.200897 -6.80223219 0.271387552 1.037228831 0.565893624 0.773627788 0.072660576 0.723242926 0.154919095 0.07642986 0.129506665 1.58E-07 6.80223219 -0.471335207 AATAARPPAPPPAPQPPS(ph)PTPSPPRPTLAR ddPTM_HeLa_SAHA_4h_R1 3 AATAARPPAPPPAPQPPSPTPSPPRPTLAR 30 2 Q96B36;H9KV91;Q96B36-3 Q96B36;Q96B36-3 AKT1S1 Proline-rich AKT1 substrate 1 1 0 AATAARPPAPPPAPQPPS(0.276)PT(0.276)PS(0.224)PPRPT(0.224)LAR;AATAARPPAPPPAPQPPS(0.423)PT(0.423)PS(0.134)PPRPT(0.02)LAR;AATAARPPAPPPAPQPPS(0.423)PT(0.423)PS(0.118)PPRPT(0.035)LAR ;; 46.399 0.010205 17887300 1833.08 1423.36 1558.99 1481.27 1779.43 1729.47 1754.04 1833.73 1801.95 2241.13 TRUE FALSE FALSE 2025.891765 1469.477798 1771.441038 1509.942123 1643.090458 1582.109426 1556.670803 1786.825842 1789.410083 2337.756082 0.866596725 0.62858474 0.757752724 0.645893784 0.702849399 0.676764115 0.665882474 0.764333737 0.765439173 1 11.19090869 -7.64672484 1.103239578 0.966011406 0.687217498 0.419626479 0.082324018 0.114133633 0.286563377 0.012226677 0.012028417 2.26E-08 7.64672484 -0.278793907 AATAARPPAPPPAPQPPSPT(ph)PS(ph)PPRPTLAR ddPTM_HeLa_SAHA_4h_R1 1 AATAARPPAPPPAPQPPSPTPSPPRPTLAR 30 2 Q96B36;H9KV91;Q96B36-3 Q96B36;Q96B36-3 AKT1S1 Proline-rich AKT1 substrate 1 2 0 AATAARPPAPPPAPQPPS(0.127)PT(0.911)PS(0.862)PPRPT(0.1)LAR 45.941 0.015217 8371900 241.45 315.26 164.97 278.66 199.55 277.86 441.79 448.17 314.21 282.51 TRUE FALSE FALSE 266.8468188 325.4746308 187.4512525 284.0538672 184.2605221 254.1847648 392.0786265 436.7064603 312.023387 294.6903887 0.905515853 1.104463 0.636095576 0.963906114 0.625268177 0.862548541 1.330476465 1.481916198 1.058817658 1 8.203056197 -4.672687058 4.400292943 0.91438665 1.443847879 0.643126726 0.15320513 0.094217083 3.220898513 0.020476599 0.083524396 2.12E-05 4.672687058 0.529461228 AATEALGEKS(ph)PDSATVSGYDIMK ddPTM_HeLa_SAHA_4h_R1 3 AATEALGEKSPDSATVSGYDIMK 23 1 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;J3KSW8;Q6WCQ1-3;H0Y2S9;H0Y7E2;K7EL39;J3QRL2;H7C3G6 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 AATEALGEKS(0.527)PDS(0.424)AT(0.028)VS(0.015)GY(0.007)DIMK;AAT(0.002)EALGEKS(0.958)PDS(0.033)AT(0.003)VS(0.002)GY(0.002)DIMK;AAT(0.001)EALGEKS(0.997)PDS(0.001)AT(0.001)VSGYDIMK ;; 85.518 0.00024035 31160900 2659.71 2537.1 2121.96 2812.72 3160.1 3180.82 3059.07 3187.37 3031.4 2758.87 TRUE FALSE FALSE 2939.470501 2619.303705 2411.129658 2867.164263 2917.973821 2909.796241 2714.855393 3105.841691 3010.304241 2877.818387 1.021423212 0.910169911 0.83783246 0.996297847 1.013953429 1.011111839 0.943372731 1.079234779 1.046036906 1 11.49075983 -3.192150796 13.60969918 0.991785547 0.985138808 0 0.067177521 0 0 0.008804674 0 0.000642465 3.192150796 -0.006646739 AATEALGEKSPDS(ph)ATVSGYDIMK ddPTM_HeLa_SAHA_4h_R1 1 AATEALGEKSPDSATVSGYDIMK 23 1 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;J3KSW8;Q6WCQ1-3;H0Y2S9;H0Y7E2;K7EL39;J3QRL2;H7C3G6 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 AATEALGEKS(0.278)PDS(0.658)AT(0.042)VS(0.015)GY(0.007)DIMK 102.72 5.67E-05 17267000 1059.4 1103.6 1124.6 1156.6 1373.7 1734 1333.3 1108.6 1432.2 1214.9 TRUE FALSE FALSE 1170.832553 1139.357364 1277.854631 1178.987665 1268.447403 1586.253445 1183.273575 1080.243617 1422.233204 1267.280285 0.923893922 0.899057121 1.008344126 0.930329052 1.000920963 1.251698984 0.933711026 0.85241097 1.122272019 1 10.30751993 -5.532732299 23.76521558 0.959638642 1.024982784 0 0.112147018 227.5619225 548843.1273 0.014538867 0.029114118 2.93E-06 5.532732299 0.065344142 AATEALGEKSPDSATVSGY(ph)DIMK ddPTM_HeLa_SAHA_4h_R1 1 AATEALGEKSPDSATVSGYDIMK 23 1 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;J3KSW8;Q6WCQ1-3;H0Y2S9;H0Y7E2;K7EL39;J3QRL2;H7C3G6 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 AATEALGEKS(0.039)PDS(0.116)AT(0.152)VS(0.152)GY(0.541)DIMK 52.09 0.0087726 23463000 2692 2163.8 2612.6 2747.3 2831.4 3035.3 3177 2862.6 2906.9 2578.2 TRUE FALSE FALSE 2975.156911 2233.90854 2968.631522 2800.477964 2614.458744 2776.675364 2819.515599 2789.378837 2886.670646 2689.358819 1.106269974 0.830647262 1.1038436 1.041318081 0.972149467 1.032467421 1.048396956 1.037191027 1.073367609 1 11.39304654 AATESVPCS(ph)PSPLAGEIR ddPTM_HeLa_SAHA_4h_R1 1 AATESVPCSPSPLAGEIR 18 0 J3QKZ5;J9JIE4;J3QS16;Q8N9M1-2;Q8N9M1 J3QKZ5 C19orf47 Uncharacterized protein C19orf47 1 0 AATES(0.004)VPCS(0.965)PS(0.03)PLAGEIR 116.06 0.00073415 7175000 724.82 954.8 934.71 1027.7 1119.6 1113.8 1036.9 1240.3 1060.9 1151 TRUE FALSE FALSE 801.0598932 985.7361465 1062.087411 1047.59262 1033.81649 1018.897974 920.225283 1208.574922 1053.517111 1200.625243 0.667202275 0.821019008 0.884611928 0.872539226 0.861065096 0.848639473 0.766455052 1.006621283 0.87747373 1 10.22957019 -6.763880339 24.53357787 0.836817452 0.86674977 0.023379651 0.093614274 288.7966826 2902650.758 0.02134249 0.028794933 1.72E-07 6.763880339 0.029932318 AATS(ph)PAPGPSDATAR ddPTM_HeLa_SAHA_4h_R1 1 AATSPAPGPSDATAR 15 0 Q8IXZ2-2;Q8IXZ2 Q8IXZ2-2 ZC3H3 Zinc finger CCCH domain-containing protein 3 1 0 AAT(0.15)S(0.85)PAPGPSDATAR 122.63 0.00068092 2628000 806.66 879.44 776.48 1053.3 1437.5 1697.1 1229.3 1269.5 1204.6 1092.8 TRUE FALSE FALSE 891.5081999 907.934433 882.2946507 1073.688145 1327.359061 1552.497532 1090.975929 1237.028028 1196.217091 1139.915956 0.782082394 0.796492433 0.773999737 0.941901145 1.164435899 1.361940347 0.957066986 1.085192309 1.049390601 1 10.15471175 -5.853056264 4.490023798 0.876425808 1.14447099 0.493607362 0.125730063 0.142226828 5.128169565 0.019649901 0.03675607 1.40E-06 5.853056264 0.268045182 AATS(ph)PGVGQSAPGTR ddPTM_HeLa_SAHA_4h_R1 1 AATSPGVGQSAPGTR 15 0 Q6IE81-2;Q6IE81 Q6IE81-2 JADE1 Protein Jade-1 1 0 AAT(0.069)S(0.839)PGVGQS(0.024)APGT(0.068)R 74.133 0.021279 5531300 1634.3 1862.2 1525.2 1717.8 1786.6 2089.1 1794.5 1843.1 2225.6 1734.4 TRUE FALSE FALSE 1806.203172 1922.536502 1733.046313 1751.050503 1649.711094 1911.096927 1592.578137 1795.956171 2210.111868 1809.178472 0.998355442 1.062657185 0.957918934 0.967870517 0.911856469 1.056334108 0.880276966 0.992691544 1.221610749 1 10.82111902 -6.631505135 20.17071307 1.004264288 0.959848771 0.137563215 0.083543141 3.139796518 567.3603497 0.006722115 0.0095065 2.34E-07 6.631505135 -0.044415518 AATSEEPTGFSVDSNLLGSLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 AATSEEPTGFSVDSNLLGSLSPK 23 0 Q96PE2 Q96PE2 ARHGEF17 Rho guanine nucleotide exchange factor 17 1 0 AATSEEPTGFSVDSNLLGS(0.174)LS(0.826)PK 131.64 1.13E-06 3685100 1095.7 1114.4 876.28 1284.1 1330.4 1097.1 1450.6 1248.4 1196.9 1286.7 TRUE FALSE FALSE 1210.950753 1150.507291 995.6948749 1308.955612 1228.465039 1003.620908 1287.37467 1216.467736 1188.570675 1342.175934 0.902229523 0.85719559 0.741851236 0.975248907 0.915278697 0.747756596 0.959169836 0.90634 0.885555049 1 10.39035808 -8.547273302 0.810048324 0.992627192 0.873243443 0.039168694 0.081113283 0.539995099 0.726334186 0.032624411 0.015886092 2.84E-09 8.547273302 -0.119383748 AATTATPAATT(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 AATTATPAATTSPK 14 0 A0A087X055;Q92766;Q92766-2;Q92766-5;Q92766-3 A0A087X055 RREB1 Ras-responsive element-binding protein 1 1 0 AATTATPAAT(0.002)T(0.499)S(0.499)PK 214.48 5.39E-17 4644000 2886.3 2560.5 1950.1 1695.4 2214.9 2951.5 1941 2753 2411.1 2700.6 TRUE FALSE FALSE 3189.894277 2643.46188 2215.849472 1728.216919 2045.194841 2700.015595 1722.593572 2682.582246 2394.320959 2817.036082 1.132358331 0.938384104 0.786588956 0.613487676 0.726009458 0.958459713 0.611491483 0.95227117 0.849943305 1 11.45996233 -6.91397031 3.171838531 1.062001747 0.765465221 0.335914821 0.132408858 0.12652222 2.569946663 0.018685785 0.024899084 1.22E-07 6.91397031 -0.296536525 AATTATPAATTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 AATTATPAATTSPK 14 0 A0A087X055;Q92766;Q92766-2;Q92766-5;Q92766-3 A0A087X055 RREB1 Ras-responsive element-binding protein 1 1 0 AATTATPAATT(0.024)S(0.976)PK 191.19 1.29E-08 6081900 2876.8 2761.5 1874.5 1879.7 2321 3198.6 1803.2 2333.3 3015.1 2684.6 TRUE FALSE FALSE 3179.395023 2850.974412 2129.947098 1916.084312 2143.165481 2926.061285 1600.29919 2273.617565 2994.117674 2800.346244 1.135357826 1.018079253 0.760601337 0.684231214 0.765321605 1.044892678 0.571464759 0.811905874 1.069195525 1 11.4513895 -6.809239778 4.833568556 1.064134616 0.771266562 0.590021895 0.115758724 0.104769374 5.303088917 0.018933004 0.025433856 1.55E-07 6.809239778 -0.292868054 AAVAGKK(ac)PVVGK ddPTM_HeLa_SAHA_4h_R1 1 AAVAGKKPVVGK 12 2 P36578;H3BM89 P36578 RPL4 60S ribosomal protein L4 0 1 AAVAGK(0.282)K(0.718)PVVGK 100.82 0.010957 0 2387.7 2615.2 2012.7 2801.5 3062.7 3171.7 2787.4 3254.8 2209.6 2133.9 FALSE TRUE FALSE 2638.849241 2699.934196 2286.980274 2855.727084 2828.036588 2901.453317 2473.754416 3171.546929 2194.223214 2225.902872 1.185518593 1.212961369 1.027439383 1.282952244 1.270512125 1.303495023 1.111348769 1.424836173 0.985767727 1 11.12017493 -13.5228787 0.079535469 0.192980271 1.479988358 0.565719019 0.091602388 102.4594419 0.625857674 14.63282808 1.640224714 3.00E-14 13.5228787 1.287008087 AAVEEGIVLGGGCALLR ddPTM_HeLa_SAHA_4h_R1 3 AAVEEGIVLGGGCALLR 17 0 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ;; ;; 247.13 2.87E-58 3390340 585.259 887.04 772.44 540.97 960.64 608.124 850.32 695.02 785.427 1145.84 FALSE FALSE TRUE 646.8192269 915.780678 877.7041005 551.4412566 887.0359707 556.308414 754.6397557 677.2423948 779.9611496 1195.24277 0.54116138 0.766188009 0.734331236 0.46136339 0.742138746 0.465435498 0.631369438 0.566614927 0.652554585 1 10.22308796 -9.453969322 0.709247765 1.061064811 0.607237741 0.068089428 0.149560684 0.4743064 0.331050702 0.136806134 0.020486424 3.52E-10 9.453969322 -0.45382707 AAVELEEPEDAR ddPTM_HeLa_SAHA_4h_R1 2 AAVELEEPEDAR 12 0 O94906-2;O94906 O94906-2 PRPF6 Pre-mRNA-processing factor 6 0 0 ; ; 173.24 0.00034428 5046200 3140.5 3028.8 3484.7 3070.7 3435.3 3901.9 3613.7 3565.7 3692.9 3456.4 FALSE FALSE TRUE 3470.832199 3126.935107 3959.576768 3130.137839 3172.088056 3569.436169 3207.076965 3474.494557 3667.200808 3605.422319 0.962670082 0.867286778 1.098228284 0.868175088 0.879810401 0.990018881 0.889514925 0.963685874 1.017134883 1 11.81595254 AAVGQES(ph)PGGLEAGNAK ddPTM_HeLa_SAHA_4h_R1 2 AAVGQESPGGLEAGNAK 17 0 Q29RF7 Q29RF7 PDS5A Sister chromatid cohesion protein PDS5 homolog A 1 0 AAVGQES(1)PGGLEAGNAK;AAVGQES(1)PGGLEAGNAK ; 218.36 6.56E-21 185672000 3363 3209.8 3014.7 3225.1 3738.3 4062 3579.3 3961.5 3107.2 2975.5 TRUE FALSE FALSE 3716.73577 3313.799626 3425.527616 3287.526474 3451.872262 3715.894748 3176.547744 3860.170566 3085.576742 3103.788367 1.197483633 1.06766288 1.103660176 1.059198014 1.112148076 1.197212667 1.023442119 1.243696448 0.994132453 1 11.59981447 -9.555662043 1.320280062 0.999856402 1.12914054 0.375523944 0.065899572 0.391508432 1.220617609 0.045155772 0.010611566 2.78E-10 9.555662043 0.129284138 AAVGVK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 AAVGVKK 7 1 P36578;H3BM89 P36578 RPL4 60S ribosomal protein L4 0 1 ; AAVGVK(1)K;AAVGVK(1)K 86.086 0.013944 2909600 3511.7 3325.6 3089.8 3907.7 4151.3 4399.5 4429.4 4755.4 3405.5 2921.1 FALSE TRUE FALSE 3881.076718 3433.351622 3510.861853 3983.339184 3833.228291 4024.637849 3930.992254 4633.763754 3381.800848 3047.042917 1.273719086 1.126781511 1.152219365 1.307280302 1.258015852 1.320833989 1.290100718 1.520741217 1.109863215 1 11.5731941 -8.086338144 0.039926323 1.97E-13 2.331845751 0.692237761 0.076215646 40.90421194 0.900773486 27.8388186 24.43512063 8.20E-09 8.086338144 2.331845751 AAVLSDS(ph)EDEEKASAK ddPTM_HeLa_SAHA_4h_R1 1 AAVLSDSEDEEKASAK 16 1 Q96ST2-3;Q96ST2;Q96ST2-2 Q96ST2-3 IWS1 Protein IWS1 homolog 1 0 AAVLS(0.009)DS(0.991)EDEEKASAK 177.04 2.65E-18 0 260.61 279.09 127.78 440.16 331.09 310.78 437.46 384.34 440.48 201.17 TRUE FALSE FALSE 288.0221555 288.1326991 145.193193 448.6799333 305.7219557 284.2997956 388.2358495 374.5091393 437.4146638 209.8434232 1.372557458 1.373084249 0.691912049 2.138165335 1.456905111 1.354818708 1.850121598 1.784707539 2.084481168 1 7.713169438 -6.25978042 24.99773715 1.165320627 1.689777778 0.170213416 0.398072388 104.773722 1578760.353 0.042724788 0.068487848 5.50E-07 6.25978042 0.524457151 AAVPAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 AAVPAKR 7 1 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9;S4R3C2 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 ; AAVPAK(1)R;AAVPAK(1)R 97.596 0.0079953 6903800 398.24 669.74 850.34 1051.48 1758.45 1556.71 2189.27 1006.99 28.817 342.89 FALSE TRUE FALSE 440.1287104 691.4400154 966.2199068 1071.832916 1623.717941 1424.06955 1942.927578 981.2326539 28.61646015 357.673666 1.230531494 1.933158857 2.701400743 2.996678307 4.539663094 3.981477212 5.432123644 2.743374051 0.080007177 1 8.482500092 -6.478944655 0.997312837 1.07324242 4.28952966 0.785316148 0.733624 0.136327222 0.270394975 0.110545068 0.204448385 3.32E-07 6.478944655 3.21628724 EEYEGPNK(ac)KPR ddPTM_HeLa_SAHA_4h_R1 2 EEYEGPNKKPR 11 2 P23246 P23246 SFPQ "Splicing factor, proline- and glutamine-rich" 0 1 ; EEYEGPNK(0.776)K(0.224)PR;EEYEGPNK(0.7)K(0.3)PR 128.51 0.00037299 87042000 5867.7 8052.1 6670.9 8890.1 10808.4 11656.2 11166.9 10472.7 6992.5 4597.4 FALSE TRUE FALSE 6484.891608 8312.993323 7579.975511 9062.180741 9980.262727 10663.02618 9910.371022 10204.8235 6943.838623 4795.616413 1.352254027 1.733456684 1.580605048 1.889680066 2.08112198 2.223494389 2.066547899 2.127948238 1.447955388 1 12.22750055 -6.878358017 0.461162282 1.024702867 2.238129831 0.828437167 0.1570308 0.136386273 0.06687467 0.03781504 0.062745772 1.32E-07 6.878358017 1.213426963 up AAVPSGAS(ph)TGIYEALELR ddPTM_HeLa_SAHA_4h_R1 3 AAVPSGASTGIYEALELR 18 0 P06733;A0A2R8Y6G6;K7EM90;A0A2R8YEM5;A0A2R8Y879;K7ERS8;A0A2R8YEG5;A0A2R8Y798;P13929-3;P09104-2;P13929-2;P09104;F5H0C8;P13929;F5H1C3;E5RI09;E5RG95;K7EKN2;K7EPM1;E5RGZ4 P06733 ENO1;ENO3;ENO2 Alpha-enolase;Enolase;Beta-enolase;Gamma-enolase 1 0 AAVPS(0.018)GAS(0.788)T(0.193)GIYEALELR;AAVPSGAS(0.949)T(0.051)GIYEALELR;AAVPS(0.001)GAS(0.972)T(0.027)GIYEALELR ;; 163 4.84E-06 22655200 1236.57 1521.61 1237.93 1502.54 1441.54 1891.58 1540.9 1532.05 1596.32 1222.54 TRUE FALSE FALSE 1366.638106 1570.911162 1406.628654 1531.623834 1331.089517 1730.406742 1367.513877 1492.862379 1585.211079 1275.249682 1.071663161 1.231845955 1.103022156 1.201038397 1.043787374 1.356916035 1.072349906 1.170643208 1.24305938 1 10.31656403 -7.631010166 1.589517146 1.022582449 1.166353324 0 0.110340422 0.256384062 1.32919524 0.016210958 0.01654776 2.34E-08 7.631010166 0.143770874 AAVPSGASTGIY(ph)EALELR ddPTM_HeLa_SAHA_4h_R1 2 AAVPSGASTGIYEALELR 18 0 P06733;A0A2R8Y6G6;K7EM90;A0A2R8YEM5;A0A2R8Y879;K7ERS8;A0A2R8YEG5;A0A2R8Y798;P13929-3;P09104-2;P13929-2;P09104;F5H0C8;P13929;F5H1C3;E5RI09;E5RG95;K7EKN2;K7EPM1;E5RGZ4 P06733 ENO1;ENO3;ENO2 Alpha-enolase;Enolase;Beta-enolase;Gamma-enolase 1 0 AAVPSGAS(0.001)T(0.119)GIY(0.88)EALELR;AAVPSGAS(0.004)T(0.02)GIY(0.977)EALELR ; 139.64 0.00031312 11929300 1448.89 1529.13 1321.8 1440.91 1780.3 1903.23 1740.86 1445.74 1682.59 1427.86 TRUE FALSE FALSE 1601.290898 1578.674815 1501.92802 1468.800897 1643.893799 1741.064097 1544.973851 1408.760064 1670.880719 1489.422032 1.07510891 1.059924441 1.008396538 0.986154941 1.103712556 1.168952828 1.037297567 0.945843444 1.121831612 1 10.54053689 -5.748871925 24.99880048 1.032993937 1.069547813 0.01338422 0.064552322 519.3071627 1032983.851 0.009097239 0.018103981 1.78E-06 5.748871925 0.036553876 AAVPSGASTGIYEALELR ddPTM_HeLa_SAHA_4h_R1 3 AAVPSGASTGIYEALELR 18 0 P06733;A0A2R8Y6G6;K7EM90;A0A2R8YEM5;A0A2R8Y879;K7ERS8;A0A2R8YEG5;A0A2R8Y798;P13929-3;P09104-2;P13929-2;P09104;F5H0C8;P13929;F5H1C3;E5RI09;E5RG95;K7EKN2;K7EPM1;E5RGZ4 P06733 ENO1;ENO3;ENO2 Alpha-enolase;Enolase;Beta-enolase;Gamma-enolase 0 0 ;; ;; 271.04 1.95E-59 335885500 2948.7 2576.479 2656.8 2974 2636.1 2955.7 3022.5 3267.8 2670.3 2520.22 FALSE FALSE TRUE 3258.857795 2659.95861 3018.854868 3031.56607 2434.122588 2703.857732 2682.400345 3184.214408 2651.717165 2628.879018 1.239637797 1.011822374 1.148343019 1.153178237 0.925916549 1.028521173 1.020358992 1.211244179 1.008687409 1 11.36023203 TVVVEAGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 TVVVEAGKK 9 1 O94842-3;O94842-2;O94842 O94842-3 TOX4 TOX high mobility group box family member 4 0 1 ; TVVVEAGK(1)K;TVVVEAGK(1)K 149.72 2.96E-05 11672500 6784.4 8284.2 11340.4 15736.7 16507.9 14874.3 20902 15277.5 4350 4427.6 FALSE TRUE FALSE 7498.01432 8552.613515 12885.81065 16041.30658 15243.06827 13606.92596 18550.05195 14886.72367 4319.727996 4618.495504 1.623475505 1.851818088 2.790045079 3.473275349 3.300440209 2.946181489 4.016470717 3.223284218 0.935310642 1 12.17320725 -6.832141253 0.925272679 1.202092813 3.489754062 0.913128838 0.303139101 0.100772385 0.171868812 0.062651795 0.094965656 1.47E-07 6.832141253 2.287661249 up AAVVT(ph)SPPPTTAPHK ddPTM_HeLa_SAHA_4h_R1 1 AAVVTSPPPTTAPHK 15 0 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;A0A0A0MSR2;D6RJE2;D6RAH3;D6RF25 E7EV99 ADD1 Alpha-adducin 1 0 AAVVT(0.933)S(0.067)PPPTTAPHK 145.52 0.00016835 11626000 833.83 1100 934.69 919.5 1493.8 1261.3 1501.1 904.03 1435.5 1339.9 TRUE FALSE FALSE 921.5360651 1135.640722 1062.064686 937.2982521 1379.345367 1153.830144 1332.192277 880.9062216 1425.510239 1397.669646 0.659337539 0.812524422 0.759882486 0.670615016 0.986889406 0.825538529 0.953152471 0.630267835 1.019919294 1 10.44880769 -9.560524279 1.346712317 0.99949313 0.779122817 0.380806034 0.112495171 0.401026499 1.308152297 0.0795674 0.018929431 2.75E-10 9.560524279 -0.220370314 AAVVT(ph)SPPPTTAPHKER ddPTM_HeLa_SAHA_4h_R1 1 AAVVTSPPPTTAPHKER 17 1 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;A0A0A0MSR2;D6RJE2;D6RAH3;D6RF25 E7EV99 ADD1 Alpha-adducin 1 0 AAVVT(0.5)S(0.5)PPPTTAPHKER 51.888 0.019409 8975700 4203.1 2545.7 4214.4 3913.8 3548.7 3263.7 4406.2 3998.3 1989.8 3741.1 TRUE FALSE FALSE 4645.201343 2628.18235 4788.716484 3989.557258 3276.799373 2985.614399 3910.40278 3896.029275 1975.95282 3902.397129 1.190345623 0.673478957 1.227121773 1.022335023 0.839688854 0.765071903 1.00205147 0.99836822 0.506343346 1 11.93014489 -5.906619744 6.001651397 1.066133615 0.899940564 0 0.235662991 0.268436827 14.27297585 0.023511878 0.042998431 1.24E-06 5.906619744 -0.166193052 AAVVTS(ph)PPPTTAPHK ddPTM_HeLa_SAHA_4h_R1 4 AAVVTSPPPTTAPHK 15 0 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;A0A0A0MSR2;D6RJE2;D6RAH3;D6RF25 E7EV99 ADD1 Alpha-adducin 1 0 AAVVT(0.09)S(0.91)PPPTTAPHK;AAVVT(0.177)S(0.823)PPPTTAPHK;AAVVT(0.144)S(0.856)PPPTTAPHK;AAVVT(0.145)S(0.855)PPPTTAPHK ;;; 120.77 0.00061047 215625000 14053.5 17463.7 12330.9 13631.7 16359.2 19131.6 15934.3 14781.2 17350.1 14130.8 TRUE FALSE FALSE 15531.71161 18029.53534 14011.29084 13895.56127 15105.76163 17501.48005 14141.33063 14403.11831 17229.35924 14740.04794 1.053708351 1.223166669 0.95055938 0.94270801 1.024810889 1.187342139 0.95938159 0.97714189 1.168880814 1 13.8474536 AAVVTS(ph)PPPTTAPHKER ddPTM_HeLa_SAHA_4h_R1 1 AAVVTSPPPTTAPHKER 17 1 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;A0A0A0MSR2;D6RJE2;D6RAH3;D6RF25 E7EV99 ADD1 Alpha-adducin 1 0 AAVVT(0.079)S(0.92)PPPTTAPHKER 89.557 0.0030178 7533200 1849 1076.2 1467 1152.3 1442.7 1377.3 1608 1549.4 863.19 1279.2 TRUE FALSE FALSE 2043.486304 1111.069586 1666.91512 1174.604433 1332.160638 1259.946292 1427.063608 1509.768592 857.1829905 1334.352572 1.531444047 0.832665676 1.249231391 0.880280413 0.998357305 0.944237916 1.069480164 1.131461521 0.642396176 1 10.3819242 -7.246293747 24.93634737 1.2509597 1.017643486 0 0.253006356 943.3109026 1553104.063 0.036301843 0.044365547 5.67E-08 7.246293747 -0.233316213 AAYEAELGDAR ddPTM_HeLa_SAHA_4h_R1 3 AAYEAELGDAR 11 0 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ;; ;; 199.46 2.47E-09 68042000 6202 5691.9 5209.8 6429.9 6393.4 7268.4 6462.9 6570.1 7103.5 5539.4 FALSE FALSE TRUE 6854.354816 5876.321295 5919.764413 6554.360012 5903.539073 6649.091429 5735.677483 6402.046355 7054.066165 5778.230643 1.186237663 1.016975898 1.024494309 1.134319555 1.021686298 1.150714092 0.992635607 1.107959642 1.22080038 1 12.49641208 AAYLQETGKPLDETLK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 AAYLQETGKPLDETLKK 17 2 P04083;Q5T3N1;Q5T3N0 P04083 ANXA1 Annexin A1;Annexin 0 1 AAYLQETGKPLDETLK(1)K 102.15 0.0031689 5764600 638.14 1067.3 710.32 694.26 1155.1 925.6 1389.2 906.59 1135.8 519.35 FALSE TRUE FALSE 705.2624931 1101.88122 807.1187104 707.6984062 1066.596488 846.7336727 1232.88356 883.4007405 1127.895875 541.7417201 1.301842681 2.033960427 1.489858876 1.306339128 1.968828406 1.562984059 2.275777394 1.630667729 2.081980828 1 9.081461388 -7.42231585 0.318996107 0.901335172 1.964888531 0 0.443044085 0.718675557 0.23454163 0.268882884 0.264781412 3.78E-08 7.42231585 1.063553359 ACANPAAGSVILLENLR ddPTM_HeLa_SAHA_4h_R1 2 ACANPAAGSVILLENLR 17 0 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 0 0 ; ; 222.75 1.45E-44 5040400 177.2 186.34 152.29 175.09 133.55 0 197.035 0 157.32 133.02 FALSE FALSE TRUE 195.838709 192.3775383 173.0432881 178.4791201 123.3174279 0 174.8641032 0 156.2251973 138.7551432 1.411397837 1.386453387 1.247112605 1.286288321 0.888741311 0 1.260235111 0 1.125905633 1 7.116397438 -5.521534413 5.551440372 1.221463531 0.491939852 0.526927779 0.346782064 0.10275812 10.89934908 0.047561066 0.101203466 3.01E-06 5.521534413 -0.72952368 ACAS(ph)PSAQVEGSPVAGSDGSQPAVK ddPTM_HeLa_SAHA_4h_R1 2 ACASPSAQVEGSPVAGSDGSQPAVK 25 0 F8WDB4;Q9UFC0 F8WDB4 LRWD1 Leucine-rich repeat and WD repeat-containing protein 1 1 0 ACAS(0.982)PS(0.017)AQVEGS(0.001)PVAGSDGSQPAVK;ACAS(0.91)PS(0.09)AQVEGSPVAGSDGSQPAVK ; 166.24 6.73E-11 17852200 3811.1 4238.8 3197.71 3506.7 4349.5 4944.2 4345.3 3935.6 4562 4044.4 TRUE FALSE FALSE 4211.968984 4376.139901 3633.477266 3574.577249 4016.24225 4522.926345 3856.355408 3834.933051 4530.252671 4218.773877 0.998386997 1.037301365 0.861263811 0.847302404 0.951992775 1.072094992 0.914093886 0.909016023 1.073831593 1 12.04260805 -6.778643093 24.99647898 1.00207175 0.929671608 0.359178786 0.062709469 259.960523 377713.774 0.009908318 0.013039735 1.66E-07 6.778643093 -0.072400142 ACASPS(ph)AQVEGS(ph)PVAGSDGSQPAVK ddPTM_HeLa_SAHA_4h_R1 2 ACASPSAQVEGSPVAGSDGSQPAVK 25 0 F8WDB4;Q9UFC0 F8WDB4 LRWD1 Leucine-rich repeat and WD repeat-containing protein 1 2 0 ACAS(0.348)PS(0.652)AQVEGS(0.999)PVAGS(0.001)DGSQPAVK;ACAS(0.323)PS(0.677)AQVEGS(0.978)PVAGS(0.021)DGS(0.001)QPAVK ; 116.13 7.12E-07 13293500 4070 3702.8 3594.9 3873.1 4563.3 5072.2 4611.3 4207.1 4733.2 3979 TRUE FALSE FALSE 4498.101274 3822.773149 4084.794251 3948.069451 4213.66094 4640.020025 4092.424388 4099.488474 4700.261276 4150.554163 1.08373511 0.921027169 0.984156354 0.951215018 1.015204422 1.117927834 0.985994695 0.987696658 1.13244186 1 12.01908826 -7.297999662 24.99955653 1.039541573 0.997852426 0.208394731 0.059476691 1033.650873 706797.7848 0.009936873 0.011363378 5.04E-08 7.297999662 -0.041689147 ACDELVEEMEHYGK ddPTM_HeLa_SAHA_4h_R1 1 ACDELVEEMEHYGK 14 0 E7ETU9;O00469-3;O00469;O00469-2 E7ETU9 PLOD2 "Procollagen-lysine,2-oxoglutarate 5-dioxygenase 2" 0 0 128.54 0.0006062 1644600 589.85 378.01 426.12 453.95 539.08 594.04 664.27 600.17 582.35 527.98 FALSE FALSE TRUE 651.8931293 390.257772 484.1894145 462.7368587 497.7758069 543.42445 589.5245913 584.8185204 578.2973789 550.7438017 1.183659493 0.708601297 0.879155449 0.84020348 0.903824619 0.986710061 1.070415299 1.061870363 1.050029755 1 9.105237543 -7.293822091 24.99889048 1.086728089 0.924332631 0.30110945 0.108853702 639.0635995 493344.4271 0.021365688 0.024433604 5.08E-08 7.293822091 -0.162395458 ACGVSRPVIACSVTIK ddPTM_HeLa_SAHA_4h_R1 2 ACGVSRPVIACSVTIK 16 1 A0A3B3IRU2;B1AHD1;A0A3B3IUA2;P55769 A0A3B3IRU2 NHP2L1 "NHP2-like protein 1;NHP2-like protein 1, N-terminally processed" 0 0 ; ; 177.04 2.78E-12 8644200 906.185 962.48 900.1 1064.1 1184.5 1138.8 1242.5 1105.2 1053.5 1160.022 FALSE FALSE TRUE 1001.501696 993.6649835 1022.76094 1084.697194 1093.743866 1041.767833 1102.69063 1076.930584 1046.168608 1210.036225 0.827662573 0.821186145 0.845231671 0.896417125 0.903893489 0.860939376 0.911287288 0.889998631 0.864576271 1 10.24083452 -9.380704019 1.106881176 0.999943161 0.867186641 0 0.050550263 0.232828809 0.510631434 0.023744207 0.006118135 4.16E-10 9.380704019 -0.13275652 ACKVDSPT(ph)VTTTLK ddPTM_HeLa_SAHA_4h_R1 1 ACKVDSPTVTTTLK 14 1 Q07866-6;Q07866-4;G3V5R9;Q07866-7;H0YG16;Q07866-9;G3V3H3;H0YJT3;F8W6L3;E7EVH7;G5E9S8;H0YJU9;H0YJL0;G3V2E7;Q07866-8;Q07866-2;Q07866-3;Q07866-5;Q07866-10;Q07866 Q07866-6 KLC1 Kinesin light chain 1 1 0 ACKVDS(0.362)PT(0.636)VT(0.002)TTLK 140.84 0.0105 6214600 641.02 525.57 555.13 583.61 611.42 630.22 542.7 387.82 670.82 415.86 TRUE FALSE FALSE 708.4454247 542.5988128 630.7802254 594.9066155 564.5731317 576.5217105 481.6339677 377.900126 666.151709 433.7897598 1.633153869 1.250833614 1.454115067 1.371416918 1.301490224 1.329034855 1.110293539 0.871159628 1.535655681 1 8.760852186 -4.442417138 2.130376175 1.320405372 0.829299442 0.458754175 0.165570669 0.483445714 3.184601266 0.032819219 0.389305024 3.61E-05 4.442417138 -0.491105931 ACLISLGYDVENDR ddPTM_HeLa_SAHA_4h_R1 1 ACLISLGYDVENDR 14 0 O43707;O43707-2;F5GXS2;O43707-3 O43707 ACTN4 Alpha-actinin-4 0 0 185.99 1.38E-07 30952000 504.76 325.15 306.62 485.98 649.8 680.41 576.76 528.79 678.68 711.41 FALSE FALSE TRUE 557.8529727 335.6850733 348.4045768 495.3868456 600.0124644 622.4352401 511.8614469 515.2643175 673.9570106 742.0823667 0.751739966 0.452355545 0.46949583 0.667563155 0.808552381 0.838768401 0.689763657 0.694349227 0.908197042 1 9.535435516 -8.470554736 0.990307334 0.967786191 0.671607136 0.457272068 0.122129802 0.320278423 0.644462696 0.048046415 0.028177352 3.38E-09 8.470554736 -0.296179055 ACLISLGYDVENDRQGEAEFNR ddPTM_HeLa_SAHA_4h_R1 2 ACLISLGYDVENDRQGEAEFNR 22 1 O43707;O43707-2;F5GXS2;O43707-3 O43707 ACTN4 Alpha-actinin-4 0 0 ; ; 214.5 2.10E-29 34351000 1551.17 2033.65 2282.47 2371.33 2798.5 2164.38 2304.51 2040.03 2231.16 2280 FALSE FALSE TRUE 1714.329178 2099.541594 2593.513125 2417.230521 2584.079535 1979.962648 2045.20047 1987.848987 2215.633176 2378.301958 0.720820656 0.882790172 1.090489421 1.016368217 1.086522897 0.832511045 0.859941465 0.835826998 0.931602973 1 11.21571618 ACS(ph)VEELYAIPPDADVAK ddPTM_HeLa_SAHA_4h_R1 2 ACSVEELYAIPPDADVAK 18 0 Q9H792;H0YN99 Q9H792 PEAK1 Pseudopodium-enriched atypical kinase 1 1 0 ACS(1)VEELYAIPPDADVAK;ACS(1)VEELYAIPPDADVAK ; 211.12 3.80E-18 11209000 3634.6 3578.7 3653.6 3292.5 3446 3985.8 3777.6 3144.8 3246.4 3008.1 TRUE FALSE FALSE 4016.903904 3694.652228 4151.493581 3356.231099 3181.968224 3646.187417 3352.534506 3064.36057 3223.808038 3137.793912 1.280168174 1.177468097 1.323061264 1.069614893 1.014078143 1.162022592 1.068436806 0.976597143 1.027412293 1 11.61553489 -6.040004773 24.97874689 1.154668684 1.061097121 0.202873837 0.102143742 882.2206586 550852.5572 0.01902596 0.031554083 9.12E-07 6.040004773 -0.093571563 ACTGLSGPGSGS(ph)KSPPATR ddPTM_HeLa_SAHA_4h_R1 1 ACTGLSGPGSGSKSPPATR 19 1 I3L2J0;I3L2I4 I3L2J0 CIC 1 0 ACTGLS(0.001)GPGS(0.065)GS(0.756)KS(0.165)PPAT(0.013)R 67.136 0.0076497 7586700 1643.2 1590.5 1544.1 1832.3 1672.6 1612.2 1706.6 1952.1 1538.2 1278.1 TRUE FALSE FALSE 1816.039315 1642.033244 1754.521907 1867.766816 1544.445749 1474.83149 1514.568876 1902.168109 1527.495541 1333.205146 1.362160445 1.231643344 1.316017953 1.400959801 1.158445686 1.106229971 1.136035877 1.426763251 1.145731807 1 10.38068308 -9.432793814 1.134291686 0.998362151 1.268113108 0.291162366 0.113599044 0.368490172 0.839745688 0.078960785 0.019305636 3.69E-10 9.432793814 0.269750957 ACTGLSGPGSGSKS(ph)PPATR ddPTM_HeLa_SAHA_4h_R1 3 ACTGLSGPGSGSKSPPATR 19 1 I3L2J0;I3L2I4 I3L2J0 CIC 1 0 ACTGLSGPGS(0.04)GS(0.382)KS(0.456)PPAT(0.122)R;ACT(0.005)GLS(0.093)GPGS(0.102)GS(0.071)KS(0.691)PPAT(0.037)R;ACTGLS(0.005)GPGS(0.013)GS(0.115)KS(0.808)PPAT(0.058)R ;; 71.428 0.0057297 51326500 6253.5 6184.4 5900.4 6286.8 6336.3 7695.6 6919.3 7205.5 6202.4 6072.5 TRUE FALSE FALSE 6911.271822 6384.778618 6704.475784 6408.490105 5850.814063 7039.891586 6140.722153 7021.193743 6159.236993 6334.315193 1.091084294 1.007966674 1.05843735 1.011710013 0.92366955 1.11138953 0.969437416 1.108437697 0.972360359 1 12.62897294 ACTLTVFPPEENPGS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 ACTLTVFPPEENPGSPSR 18 0 Q9P2J3 Q9P2J3 KLHL9 Kelch-like protein 9 1 0 ACTLT(0.001)VFPPEENPGS(0.98)PS(0.02)R 102.58 0.0011278 0 419.71 488.41 500.49 456.74 472.29 438.02 399.75 522.39 599.21 540.57 TRUE FALSE FALSE 463.8570235 504.2348045 568.6941708 465.5808632 436.1032422 400.6982318 354.7690779 509.0280202 595.0400488 563.8766182 0.822621489 0.894228965 1.008543629 0.825678611 0.77340189 0.710613313 0.629160824 0.902729434 1.0552664 1 9.139235711 -5.917044922 2.945379143 0.918492341 0.740139506 0.497266957 0.092016348 0.184501619 3.239514554 0.013956166 0.026717629 1.21E-06 5.917044922 -0.178352835 ADAASSLT(ph)VDVTPPTAK ddPTM_HeLa_SAHA_4h_R1 1 ADAASSLTVDVTPPTAK 17 0 Q9H8Y8-2;Q9H8Y8;Q9H8Y8-3 Q9H8Y8-2 GORASP2 Golgi reassembly-stacking protein 2 1 0 ADAAS(0.066)S(0.013)LT(0.56)VDVT(0.358)PPT(0.004)AK 207.92 1.14E-15 21106000 2387.1 2408.6 2707.2 2996.6 3037 3234.8 3115.9 2735.3 2871.1 2787 TRUE FALSE FALSE 2638.18613 2486.64022 3076.123118 3054.603526 2804.305716 2959.176842 2765.290731 2665.334987 2851.119781 2907.161209 0.907478444 0.855349959 1.058119208 1.050716939 0.964619955 1.017892242 0.951199652 0.916817058 0.980722972 1 11.50539536 -6.737292974 24.99999618 0.947516497 0.99375105 0.194128529 0.055230593 400.9112754 415082.7548 0.009821123 0.013885303 1.83E-07 6.737292974 0.046234553 ADAASSLTVDVT(ph)PPTAK ddPTM_HeLa_SAHA_4h_R1 4 ADAASSLTVDVTPPTAK 17 0 Q9H8Y8-2;Q9H8Y8;Q9H8Y8-3 Q9H8Y8-2 GORASP2 Golgi reassembly-stacking protein 2 1 0 ADAAS(0.003)S(0.001)LT(0.049)VDVT(0.818)PPT(0.129)AK;ADAASSLTVDVT(1)PPTAK;ADAASSLTVDVT(0.998)PPT(0.002)AK;ADAASSLT(0.005)VDVT(0.882)PPT(0.113)AK ;;; 234.82 5.72E-28 106105800 12167.4 11697.7 9837.85 12271 14633.1 14305.3 13039.4 12692.2 12541 12513.3 TRUE FALSE FALSE 13447.22296 12076.71316 11178.50096 12508.52295 13511.91504 13086.40796 11572.17239 12367.5519 12453.72616 13052.8096 1.03021674 0.925219437 0.856405732 0.958301188 1.035172921 1.002574033 0.886565632 0.947501134 0.954103104 1 13.67207276 -7.263451856 24.98339164 1.014269017 0.945163066 0.131892352 0.052309669 174.4219873 2165307.499 0.008866056 0.01040856 5.45E-08 7.263451856 -0.06910595 ADADPSPT(ph)SPPTAR ddPTM_HeLa_SAHA_4h_R1 1 ADADPSPTSPPTAR 14 0 Q9NWZ5;Q9NWZ5-3;Q9NWZ5-2 Q9NWZ5 UCKL1 Uridine-cytidine kinase-like 1 1 0 ADADPS(0.103)PT(0.447)S(0.447)PPT(0.003)AR 86.738 0.020248 23725000 2275.3 2594.6 2294 2442.1 2317.4 3029.5 2865.7 2654.7 2454.4 2454.5 TRUE FALSE FALSE 2514.626493 2678.666742 2606.614373 2489.370377 2139.841313 2771.369556 2543.243894 2586.796618 2437.319631 2560.325507 0.982151092 1.046221168 1.01807929 0.972286676 0.835769244 1.082428601 0.993328343 1.010338963 0.951956938 1 11.32211152 -6.228469188 23.62988888 0.998132783 0.977443422 0.027584016 0.061282923 1229.137234 880926.965 0.008819367 0.014624276 5.91E-07 6.228469188 -0.02068936 ADAPDAGAQS(ph)DSELPSYHQNDVSLDR ddPTM_HeLa_SAHA_4h_R1 5 ADAPDAGAQSDSELPSYHQNDVSLDR 26 0 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 1 0 ADAPDAGAQS(0.944)DS(0.056)ELPSYHQNDVSLDR;ADAPDAGAQS(0.999)DS(0.001)ELPSYHQNDVSLDR;ADAPDAGAQS(0.671)DS(0.329)ELPSYHQNDVSLDR;ADAPDAGAQS(0.981)DS(0.019)ELPSYHQNDVSLDR;ADAPDAGAQS(0.742)DS(0.258)ELPSYHQNDVSLDR ;;;; 201.51 1.71E-24 110377200 4508.42 7111.62 3033.28 6036.03 9946.5 14811.4 6640.58 8381.19 5951.23 7050.28 TRUE FALSE FALSE 4982.636301 7342.041154 3446.639602 6152.866089 9184.401319 13549.38539 5893.364461 8166.811296 5909.814906 7354.252074 0.677517748 0.998339611 0.468659432 0.83664063 1.248855931 1.842387949 0.8013547 1.110488356 0.803591561 1 12.84436291 -5.761301761 7.473629143 0.824138796 1.261968124 0.384691741 0.279575316 0.110147195 39.087221 0.04181651 0.079931573 1.73E-06 5.761301761 0.437829327 ADAPDAGAQSDS(ph)ELPSYHQNDVSLDR ddPTM_HeLa_SAHA_4h_R1 1 ADAPDAGAQSDSELPSYHQNDVSLDR 26 0 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 1 0 ADAPDAGAQS(0.362)DS(0.638)ELPSYHQNDVSLDR 161.68 9.13E-11 22626000 842.66 1744.2 766.9 1609.6 2929.2 3948.6 1679.1 2067.1 1291.5 1756.8 TRUE FALSE FALSE 931.2948451 1800.713224 871.4091382 1640.756136 2704.765329 3612.157066 1490.163249 2014.226575 1282.512346 1832.544246 0.508197741 0.982630149 0.475518744 0.895343258 1.475961814 1.971115881 0.813166314 1.099142124 0.699853414 1 10.83963232 -5.872914835 5.190720326 0.758830677 1.344808853 0.448260929 0.317929407 0.163886639 6.856867045 0.050658604 0.093455571 1.34E-06 5.872914835 0.585978175 ADDADEFGYSR ddPTM_HeLa_SAHA_4h_R1 3 ADDADEFGYSR 11 0 Q7KZF4 Q7KZF4 SND1 Staphylococcal nuclease domain-containing protein 1 0 0 ;; ;; 261.03 7.92E-41 70995000 4656.43 5478.02 4240.04 4611.2 5141.54 5678.53 5178.45 5253.42 4911.24 4419.11 FALSE FALSE TRUE 5146.214672 5655.511442 4817.85057 4700.456444 4747.596316 5194.687297 4595.757177 5119.045123 4877.062281 4609.639459 1.116402859 1.226888023 1.045168633 1.019701538 1.029927906 1.126918351 0.996988424 1.110508787 1.058013826 1 12.1704382 -9.423026194 1.235428544 1.00140416 1.085071181 0.077880841 0.065609213 0.60683747 1.698406455 0.041247993 0.01113112 3.78E-10 9.423026194 0.083667021 ADDGRPFPQVIK ddPTM_HeLa_SAHA_4h_R1 2 ADDGRPFPQVIK 12 1 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7;H3BR04;H3BMQ8;H3BU78 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 ; ; 137.4 0.00014982 12936900 9512.6 9386.1 10141 11020.2 10831.9 11248.2 11929.3 10116 9775.6 9644.9 FALSE FALSE TRUE 10513.17891 9690.215798 11522.96267 11233.51191 10001.96216 10289.79008 10586.98377 9857.247368 9707.570804 10060.73884 1.04497086 0.963171389 1.145339607 1.116569278 0.994157817 1.022766841 1.052306787 0.979773705 0.964896411 1 13.29644864 -4.245577626 22.06286684 1.032240258 0.979773499 0.07451586 0.056879466 1206.480367 1678001.262 0.007415127 0.206016005 5.68E-05 4.245577626 -0.052466759 ADDLGKGGNEESTK ddPTM_HeLa_SAHA_4h_R1 4 ADDLGKGGNEESTK 14 1 P00441;H7BYH4 P00441 SOD1 Superoxide dismutase [Cu-Zn] 0 0 ;;; ;;; 101.39 0.0065016 20656300 5017.41 5301.88 5966.7 5443.79 5718.42 5037.09 5976.02 6111.6 3534.12 5393.97 FALSE FALSE TRUE 5545.164205 5473.664391 6779.810803 5549.162427 5280.275895 4607.901594 5303.582502 5955.274121 3509.525771 5626.530444 0.985538825 0.972831205 1.204971851 0.986249427 0.938460379 0.818959684 0.942602649 1.058427424 0.623745984 1 12.45802985 -5.811369773 4.935436439 1.008986101 0.930927397 0 0.14762527 0.284983861 14.87720948 0.012431196 0.023351688 1.54E-06 5.811369773 -0.078058703 ADDTDSQSWRS(ph)PLK ddPTM_HeLa_SAHA_4h_R1 2 ADDTDSQSWRSPLK 14 1 O75369-8 O75369-8 FLNB Filamin-B 1 0 ADDT(0.001)DS(0.007)QS(0.215)WRS(0.778)PLK;ADDT(0.001)DS(0.001)QS(0.013)WRS(0.985)PLK ; 113.65 0.0073525 185316000 6709.8 5140.9 5242.6 5273 6412.7 6309.8 6307.3 6519.8 5490.4 5553.5 TRUE FALSE FALSE 7415.56755 5307.468533 5957.034226 5375.06654 5921.360311 5772.169542 5597.586004 6353.032957 5452.191859 5792.938563 1.280104643 0.916196241 1.028326843 0.927865276 1.022168671 0.996414769 0.966277467 1.096685713 0.941178954 1 12.50007965 -7.241783734 24.98928085 1.132271646 0.992417617 0.031863168 0.099794411 830.1577703 1055425.04 0.018379758 0.022492088 5.73E-08 7.241783734 -0.139854029 ADEASELACPT(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 ADEASELACPTPK 13 0 A0A0U1RQF0;P49327 A0A0U1RQF0 FASN Fatty acid synthase;[Acyl-carrier-protein] S-acetyltransferase;[Acyl-carrier-protein] S-malonyltransferase;3-oxoacyl-[acyl-carrier-protein] synthase;3-oxoacyl-[acyl-carrier-protein] reductase;3-hydroxyacyl-[acyl-carrier-protein] dehydratase;Enoyl-[acyl-carrier-protein] reductase;Oleoyl-[acyl-carrier-protein] hydrolase 1 0 ADEASELACPT(1)PK;ADEASELACPT(1)PK ; 113.69 0.00334 37435000 5242.4 6838.6 4967.2 6117.2 7119.4 8739.7 6107.6 6134.4 8044.3 7138.9 TRUE FALSE FALSE 5793.819685 7060.175127 5644.104148 6235.607252 6573.91311 7995.028392 5420.356774 5977.490931 7988.319061 7446.692916 0.778039292 0.948095377 0.757934322 0.837365972 0.882796321 1.073634764 0.72788778 0.802704099 1.072733783 1 12.86238415 -9.504453382 1.224516014 1.000860891 0.846505579 0.340943086 0.099179675 0.525060528 1.396343457 0.068554558 0.016206839 3.13E-10 9.504453382 -0.154355313 ADEEEMLDNLPEAGDSR ddPTM_HeLa_SAHA_4h_R1 1 ADEEEMLDNLPEAGDSR 17 0 Q9NPD8 Q9NPD8 UBE2T Ubiquitin-conjugating enzyme E2 T 0 0 107.17 0.0082076 1228000 0 74.954 0 0 74.047 0 68.196 0 0 166.09 FALSE FALSE TRUE 0 77.38255878 0 0 68.37353486 0 60.5224066 0 0 173.2509527 0 0.44665012 0 0 0.394650268 0 0.349333759 0 0 1 7.436719476 -9.340510984 0.828178968 1.058701741 0.145099774 0 0.353515966 0.253316677 0.278319655 0.155182654 0.031768632 4.57E-10 9.340510984 -0.913601967 ADEGIS(ph)FR ddPTM_HeLa_SAHA_4h_R1 1 ADEGISFR 8 0 Q06830;A0A0A0MSI0 Q06830 PRDX1 Peroxiredoxin-1 1 0 ADEGIS(1)FR 95.483 0.014145 4935400 1785.1 1810.7 1124 1554.4 1563.3 2321.5 1877.6 1778.6 2819.9 1600.4 TRUE FALSE FALSE 1972.865008 1869.367868 1277.172866 1584.48766 1443.520292 2123.69514 1666.327506 1733.105987 2800.276086 1669.401076 1.181780123 1.119783553 0.765048546 0.949135401 0.864693519 1.272129969 0.998158879 1.038160339 1.67741361 1 10.70511489 ADEGISFR ddPTM_HeLa_SAHA_4h_R1 7 ADEGISFR 8 0 Q06830;A0A0A0MSI0 Q06830 PRDX1 Peroxiredoxin-1 0 0 ;;;;;; ;;;;;; 166.68 4.39E-05 334361900 21624.8 22614.6 20074.1 22315.5 24135.6 25004.3 25894 21873.9 23334 21586.9 FALSE FALSE TRUE 23899.39568 23347.32788 22809.69381 22747.44877 22286.33554 22873.79297 22980.33897 21314.39731 23171.61679 22517.6169 1.061364344 1.036847193 1.01297104 1.010206758 0.98972887 1.015817663 1.020549336 0.946565412 1.029043921 1 14.45876653 -6.318672309 1.996056542 1.030153421 0.997203127 0.331302744 0.023639976 0.40162067 3.124570994 0.004683162 0.007997145 4.80E-07 6.318672309 -0.032950293 ADEGKKETS(ph)PESSLIQDEIAVK ddPTM_HeLa_SAHA_4h_R1 2 ADEGKKETSPESSLIQDEIAVK 22 2 A0A669KB77;P11137-3;P11137 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 ADEGKKET(0.204)S(0.75)PES(0.033)S(0.014)LIQDEIAVK;ADEGKKET(0.134)S(0.853)PES(0.011)S(0.003)LIQDEIAVK ; 93.776 0.00019269 27872000 2827.1 2267.1 2562.1 2450.4 2558.1 2682.4 2835.5 2886.7 2173.68 2650 TRUE FALSE FALSE 3124.467349 2340.555527 2911.249645 2497.831035 2362.098931 2453.844429 2516.442077 2812.862394 2158.553184 2764.254469 1.130311042 0.846722165 1.053177151 0.90361834 0.854515732 0.887705693 0.910351093 1.017584461 0.780880779 1 11.43267472 -7.263656321 24.99979236 1.06153577 0.924245843 0 0.112002345 141.0271381 1590317.512 0.012826164 0.015036882 5.45E-08 7.263656321 -0.137289927 ADEHVIDQGDDGDNFYVIER ddPTM_HeLa_SAHA_4h_R1 2 ADEHVIDQGDDGDNFYVIER 20 0 P13861-2;P13861;H7C1L0 P13861-2 PRKAR2A cAMP-dependent protein kinase type II-alpha regulatory subunit 0 0 ; ; 264.01 7.32E-53 32193000 4607.6 4708.1 3943.2 4421.6 5033.7 4998.1 5159.8 3703.6 5314.4 4837.4 FALSE FALSE TRUE 5092.248508 4860.645529 4480.558761 4507.186462 4648.018993 4572.233761 4579.205724 3608.867275 5277.416658 5045.963988 1.009172582 0.963273924 0.887949017 0.893226046 0.921135982 0.906117002 0.907498693 0.715198777 1.045868871 1 12.30091419 -1.94906166 0.264066844 1.013612321 2.31E-17 0.743933715 0.04407427 11.25831825 0.222127132 0.022394978 4.72246021 0.011244453 1.94906166 -1.013612321 ADEK(ac)PKEGVK(ac)TENNDHINLK ddPTM_HeLa_SAHA_4h_R1 1 ADEKPKEGVKTENNDHINLK 20 3 P61956-2;P61956 P61956-2 SUMO2 Small ubiquitin-related modifier 2 0 2 ADEK(0.759)PK(0.288)EGVK(0.953)TENNDHINLK 96.805 0.00068745 6101200 4047.6 2812.2 4125.3 3411.6 3977.7 3522.4 4624 5013.2 2368.3 3334 FALSE TRUE FALSE 4473.345139 2903.317125 4687.4744 3477.636451 3672.929485 3222.271704 4103.69535 4884.969603 2351.818807 3477.745056 1.286277478 0.834827475 1.347848771 0.999968771 1.056123846 0.926540517 1.179987401 1.404637063 0.676248192 1 11.76393646 -4.322581162 3.830730329 1.103922937 1.418093638 0.172458303 0.201156121 0.240615093 6.209033149 0.021706727 0.18460574 4.76E-05 4.322581162 0.314170701 ADEVAPAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 ADEVAPAKK 9 1 P53396;P53396-2;P53396-3 P53396 ACLY ATP-citrate synthase 0 1 ; ADEVAPAK(1)K;ADEVAPAK(1)K 104.17 0.0029937 16163400 6236.2 7736.8 6338.1 10380.5 10407.8 11498.5 9761 11849.8 8015.3 5972.6 FALSE TRUE FALSE 6892.152129 7987.477396 7201.823261 10581.42959 9610.356612 10518.76311 8662.66659 11546.69927 7959.520875 6230.108015 1.106265271 1.282076872 1.15597085 1.698434371 1.542566612 1.688375721 1.390452071 1.853370639 1.277589547 1 12.60504146 -6.554930375 0.963616502 1.040026157 1.642609538 0.657234891 0.158497193 0.159905672 0.296619856 0.024436537 0.04353218 2.79E-07 6.554930375 0.602583381 ADFCIIHYAGK ddPTM_HeLa_SAHA_4h_R1 1 ADFCIIHYAGK 11 0 P35579;P35579-2;P35580;P35580-5;P35580-2;P35580-3;P35580-4 P35579;P35580 MYH9;MYH10 Myosin-9;Myosin-10 0 0 112.36 0.0021077 1455300 1457.7 2155.2 2080.4 2132.7 2357.5 2038.1 2311 1310.5 2117 1930 FALSE FALSE TRUE 1611.027574 2225.029894 2363.906078 2173.981492 2176.868859 1864.442414 2050.960198 1276.979308 2102.267625 2013.211745 0.800227586 1.105214044 1.174196447 1.079857346 1.081291555 0.926103485 1.018750364 0.634299552 1.044235724 1 10.9752832 -2.743567836 10.75617099 0.950760127 0.686159939 0 0.157061951 0 0 0.021774763 0 0.001804813 2.743567836 -0.264600188 ADFDNTVAIHPTSSEELVTLR ddPTM_HeLa_SAHA_4h_R1 2 ADFDNTVAIHPTSSEELVTLR 21 0 P00390-5;P00390-4;P00390-2;P00390-3;P00390 P00390-5 GSR "Glutathione reductase, mitochondrial" 0 0 ; ; 83.082 0.001262 11243000 2055.89 2050.8 1144.14 2186 2710 2794.9 2853 2610.9 2413.7 1862.64 FALSE FALSE TRUE 2272.137943 2117.247266 1300.057441 2228.313191 2502.360385 2556.758796 2531.972931 2544.116959 2396.902865 1942.947526 1.169428362 1.089708928 0.669116084 1.146872554 1.287919695 1.315917575 1.303160738 1.309411049 1.233642614 1 10.92403122 -5.86226374 4.291682161 1.049760131 1.305120326 0.445699141 0.141286066 0.161686148 5.359119263 0.020862781 0.039101446 1.37E-06 5.86226374 0.255360195 ADGGTGDSS(ph)PSPGSSLPSPLSDPR ddPTM_HeLa_SAHA_4h_R1 2 ADGGTGDSSPSPGSSLPSPLSDPR 24 0 Q8TD16;Q8TD16-2 Q8TD16 BICD2 Protein bicaudal D homolog 2 1 0 ADGGT(0.01)GDS(0.159)S(0.754)PS(0.062)PGS(0.014)SLPSPLSDPR;ADGGTGDS(0.048)S(0.798)PS(0.131)PGS(0.018)S(0.005)LPSPLSDPR ; 140.8 6.03E-07 16198900 1542.92 2116.62 1636.94 2012.71 1854.47 2310.58 2122.34 1736.87 1784.3 1703.32 TRUE FALSE FALSE 1705.211405 2185.199877 1860.013658 2051.668912 1712.380909 2113.705585 1883.528718 1692.44338 1771.882911 1776.758461 0.959731692 1.229880102 1.046857915 1.154725843 0.963766852 1.189641491 1.060092724 0.952545558 0.99725593 1 10.79503185 ADGGTGDSSPSPGSSLPS(ph)PLSDPR ddPTM_HeLa_SAHA_4h_R1 1 ADGGTGDSSPSPGSSLPSPLSDPR 24 0 Q8TD16;Q8TD16-2 Q8TD16 BICD2 Protein bicaudal D homolog 2 1 0 ADGGTGDSSPSPGS(0.006)S(0.045)LPS(0.946)PLS(0.003)DPR 165.19 1.83E-08 2460500 496.96 599.59 328.81 486.78 579.78 664.15 633.28 611.1 738.15 715.72 TRUE FALSE FALSE 549.2325329 619.0171094 373.6185144 496.2023308 535.3573817 607.5606836 562.0216677 595.4689469 733.0131541 746.5781918 0.735666457 0.829139019 0.500441238 0.664635448 0.717081462 0.813793773 0.752796792 0.797597564 0.981830386 1 9.544149557 -9.000217081 0.694853806 1.010862972 0.720490616 0.583689875 0.089200073 0.456344707 0.385251727 0.074422491 0.02016145 1.00E-09 9.000217081 -0.290372355 ADGK(ac)ISEQSDAK ddPTM_HeLa_SAHA_4h_R1 1 ADGKISEQSDAK 12 1 P25705-2;P25705;P25705-3 P25705-2 ATP5A1 "ATP synthase subunit alpha, mitochondrial" 0 1 ADGK(1)ISEQSDAK 158.01 7.27E-07 743270 201.58 248.1 214.63 219.96 249.16 218.91 245.09 177.43 235.68 213.37 FALSE TRUE FALSE 222.7831093 256.1386028 243.8786587 224.2176439 230.0694146 200.2576364 217.5118282 172.8915975 234.0398837 222.5694249 1.00096008 1.150825649 1.095741963 1.007405415 1.033697305 0.899753578 0.977276318 0.776798509 1.051536543 1 7.798111608 -3.38275796 0.858802122 1.020336897 9.58E-13 0.632546826 0.059437465 4.827650382 0.870987333 0.009814504 6.677383388 0.00041423 3.38275796 -1.020336897 ADGRAS(ph)PLYASYK ddPTM_HeLa_SAHA_4h_R1 2 ADGRASPLYASYK 13 1 A0A1B0GTT1;A0A1B0GVM0;Q9BUH8 A0A1B0GTT1 BEGAIN Brain-enriched guanylate kinase-associated protein 1 0 ADGRAS(1)PLYASYK;ADGRAS(1)PLYASYK ; 130.95 0.0031382 55846000 5528.4 5385.7 5558.8 5260.1 6087.9 5455.2 6478.4 5512.4 3692.5 5200.2 TRUE FALSE FALSE 6109.902477 5560.200214 6316.324315 5361.916842 5621.446417 4990.38627 5749.433382 5371.40079 3666.803592 5424.406071 1.12637262 1.025033919 1.164426894 0.988479987 1.036324778 0.91998759 1.059919428 0.990228371 0.675982503 1 12.40524947 ADGYEPPVQES(ph)V ddPTM_HeLa_SAHA_4h_R1 2 ADGYEPPVQESV 12 0 D6R9B6;H0Y9Y4;D6RAT0;P61247 D6R9B6 RPS3A 40S ribosomal protein S3a 1 0 ADGYEPPVQES(1)V;ADGYEPPVQES(1)V ; 139.89 0.00067787 26933000 4349.8 4476.4 4019.8 3908.8 4684 4750.5 4763.1 4660.7 4857.6 4028.3 TRUE FALSE FALSE 4807.331922 4621.438297 4567.59741 3984.460476 4325.112932 4345.730674 4227.143452 4541.486043 4823.795566 4201.979727 1.144063569 1.099824035 1.087010815 0.948234103 1.029303617 1.034210291 1.00598854 1.080796752 1.147981637 1 12.03685349 ADGYVLEGK ddPTM_HeLa_SAHA_4h_R1 2 ADGYVLEGK 9 0 P62241;Q5JR95 P62241 RPS8 40S ribosomal protein S8 0 0 ; ; 127.3 0.0026665 3960700 2805 2833.4 2792.9 2922 2981.1 3174.8 3245.9 3191 3084.6 2873.3 FALSE FALSE TRUE 3100.04277 2925.204019 3173.501867 2978.559535 2752.688762 2904.289179 2880.662789 3109.378841 3063.134017 2997.182025 1.034319152 0.975984773 1.05882854 0.993786667 0.918425621 0.969006605 0.961123737 1.037434101 1.022004667 1 11.54939099 -5.998184583 24.99855341 1.016321406 0.96876955 0.297681166 0.033711057 54.94831919 756619.0988 0.004809529 0.008672589 1.00E-06 5.998184583 -0.047551857 ADHDFVVQEDFMK ddPTM_HeLa_SAHA_4h_R1 2 ADHDFVVQEDFMK 13 0 A0A087X2I1;P62333 A0A087X2I1 PSMC6 26S protease regulatory subunit 10B 0 0 ; ; 107.53 0.00088106 5830700 3868.3 4321.7 4007.4 4314.9 4109.3 2435.47 4556.6 4328.1 4427.1 4271.3 FALSE FALSE TRUE 4275.185542 4461.725916 4553.507602 4398.421129 3794.446322 2227.954254 4043.879376 4217.393469 4396.291451 4455.456646 0.959539253 1.001407099 1.022006938 0.987198727 0.851640275 0.500050709 0.907623998 0.946568176 0.986720734 1 12.12135759 -5.653079705 4.547969851 0.985858545 0.779906123 0.41633323 0.112207436 0.155586985 5.520897182 0.01600644 0.032670731 2.22E-06 5.653079705 -0.205952422 ADHGEPIGR ddPTM_HeLa_SAHA_4h_R1 5 ADHGEPIGR 9 0 P08238 P08238 HSP90AB1 Heat shock protein HSP 90-beta 0 0 ;;;; ;;;; 117.53 0.0020093 86308900 16901.46 16260.54 15908.3 18647.34 17339.6 2111.91 20478.66 18701.01 16298.7 18742.97 FALSE FALSE TRUE 18679.23311 16787.39216 18076.20028 19008.28623 16011.04359 1931.963387 18174.34728 18222.66524 16185.27602 19551.07116 0.955407146 0.85864309 0.924563167 0.972237586 0.818934342 0.098816242 0.929583199 0.932054571 0.827845998 1 14.25496003 -5.519133572 24.27991138 0.960760804 0.644058036 0.217281435 0.222004498 95.07577377 616372.4881 0.030490122 0.062126048 3.03E-06 5.519133572 -0.316702768 ADIDVSGPKVDIDT(ph)PDIDIHGPEGK ddPTM_HeLa_SAHA_4h_R1 3 ADIDVSGPKVDIDTPDIDIHGPEGK 25 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 ADIDVS(0.006)GPKVDIDT(0.994)PDIDIHGPEGK;ADIDVS(0.221)GPKVDIDT(0.779)PDIDIHGPEGK;ADIDVS(0.002)GPKVDIDT(0.998)PDIDIHGPEGK ;; 108.14 8.03E-07 641271300 15464.1 23405.1 22406.9 8826.92 18213.1 20739.8 22534.6 10020.7 10273.2 20602.4 TRUE FALSE FALSE 17090.68499 24163.4406 25460.39564 8997.777801 16817.61621 18972.65236 19998.9475 9764.385004 10201.70796 21490.67029 0.795260676 1.124368867 1.184718545 0.418682976 0.782554289 0.882832043 0.930587424 0.454354605 0.474704038 1 14.39142286 -6.271118092 24.99629749 0.940143703 0.722389313 0.168873698 0.239113379 785.0706232 2027525.276 0.030238827 0.0465466 5.36E-07 6.271118092 -0.217754389 ADIEVACYGYEGIDAVK ddPTM_HeLa_SAHA_4h_R1 1 ADIEVACYGYEGIDAVK 17 0 P05198;H0YJS4;G3V4T5 P05198 EIF2S1 Eukaryotic translation initiation factor 2 subunit 1 0 0 190.27 1.08E-27 0 933.36 591.09 545.28 768.04 668.21 716.88 786.07 862.15 899.35 706.22 FALSE FALSE TRUE 1031.535087 610.2417038 619.5879187 782.9065248 617.0118942 655.7977909 697.6193348 840.0974514 893.0913501 736.6686004 1.400270198 0.828380229 0.841067365 1.062766249 0.837570508 0.890220909 0.946992086 1.140400787 1.212338017 1 9.524871941 -7.245832245 24.89841886 1.189016489 0.931569673 0.468457161 0.130898598 665.3110239 1061386.9 0.028583048 0.034939644 5.68E-08 7.245832245 -0.257446816 ADIKS(ph)PSLDVTVPEAELNLETPEISVGGK ddPTM_HeLa_SAHA_4h_R1 1 ADIKSPSLDVTVPEAELNLETPEISVGGK 29 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 ADIKS(0.737)PS(0.263)LDVTVPEAELNLETPEISVGGK 114.01 7.35E-10 58772000 3645.8 3218.8 4077.8 3525.4 4991.9 4693.3 4837.5 4261.8 3596.8 4324.4 TRUE FALSE FALSE 4029.281972 3323.091232 4633.501348 3593.639215 4609.4217 4293.404436 4293.171768 4152.789327 3571.769576 4510.846047 0.89324307 0.736689126 1.027191196 0.796666341 1.02185303 0.951795825 0.951744246 0.920623157 0.791818107 1 12.13918233 -3.934025019 14.02811656 0.934560698 0.80325869 0 0.100660615 7619682.926 42255912.07 0.012213935 28133773.73 0.000116406 3.934025019 -0.131302008 GAADACTTEK(ac)SNK ddPTM_HeLa_SAHA_4h_R1 2 GAADACTTEKSNK 13 1 Q9Y3Y4-2;Q9Y3Y4 Q9Y3Y4-2 PYGO1 Pygopus homolog 1 0 1 ; GAADACTTEK(1)SNK;GAADACTTEK(1)SNK 265.72 1.32E-83 1922870 358.13 497.49 591.82 832.74 853.53 759.82 883.17 1025.12 264.926 316.264 FALSE TRUE FALSE 395.7997566 513.6090024 672.4701475 848.8588869 788.1327158 695.0790614 783.7933872 998.8989148 263.0823584 329.8996888 1.199757896 1.556864162 2.038407948 2.573081805 2.389007151 2.10694064 2.375853673 3.027886805 0.797461675 1 8.365883607 -6.816223191 1.341758975 1.074786752 2.480090439 0.882395065 0.239710863 0.090975594 0.328405606 0.041040444 0.059487367 1.53E-07 6.816223191 1.405303688 up ADKDYHFKVDNDENEHQLSLR ddPTM_HeLa_SAHA_4h_R1 1 ADKDYHFKVDNDENEHQLSLR 21 2 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 0 0 38.991 0.017852 9547800 2466.9 1829.9 2073.6 2499.1 2294 2174.9 2804.6 2109.7 1732.8 2464.3 FALSE FALSE TRUE 2726.379861 1889.189961 2356.179409 2547.473694 2118.234216 1989.586284 2489.019027 2055.736929 1720.741304 2570.548033 1.060622025 0.73493665 0.916605867 0.991023572 0.824039928 0.773993039 0.968283415 0.799727102 0.6694064 1 11.32786026 -7.285757303 24.92694423 1.028627074 0.865375935 0 0.138299731 452.4437775 463773.5543 0.01320844 0.015108256 5.18E-08 7.285757303 -0.163251139 ADLDVSGPK ddPTM_HeLa_SAHA_4h_R1 2 ADLDVSGPK 9 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ; ; 125.82 0.016308 39226000 6813.1 5776.3 5046.2 5722.6 5536.3 7197.8 6172.8 6466.6 7582.7 5905.1 FALSE FALSE TRUE 7529.733118 5963.45591 5733.869857 5833.369198 5112.10989 6584.506946 5478.220298 6301.193736 7529.931373 6159.69776 1.22241925 0.968140994 0.930868702 0.947021985 0.82992869 1.068965914 0.889365114 1.022971253 1.222451436 1 12.58864385 -7.099300355 8.018502332 1.104926234 0.945894992 0.499221296 0.08752119 0.238577462 17.35728404 0.01626505 0.019949169 7.96E-08 7.099300355 -0.159031242 ADLINNLGTIAK ddPTM_HeLa_SAHA_4h_R1 4 ADLINNLGTIAK 12 0 P07900;P07900-2;Q14568;P08238;Q58FF8 P07900;P08238;Q58FF8 HSP90AA1;HSP90AA2P;HSP90AB1;HSP90AB2P Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-alpha A2;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta 2 0 0 ;;; ;;; 244.95 5.98E-56 282797500 13124 11898 11150.3 11885.8 12323 13328.2 13399.3 12676.6 12717.6 11139.7 FALSE FALSE TRUE 14504.44254 12283.50301 12669.80482 12115.86685 11378.8144 12192.56238 11891.5755 12352.35093 12629.09719 11619.98698 1.248232253 1.057101271 1.09034587 1.042674735 0.979245021 1.049275046 1.023372532 1.063026228 1.086842628 1 13.50432083 -6.480086344 1.997108465 1.116200598 1.0288671 0.199822051 0.062493775 0.485949172 3.85101651 0.015504132 0.024801924 3.31E-07 6.480086344 -0.087333497 ADLNQGIGEPQS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 5 ADLNQGIGEPQSPSR 15 0 Q96C19 Q96C19 EFHD2 EF-hand domain-containing protein D2 1 0 ADLNQGIGEPQS(0.995)PS(0.005)R;ADLNQGIGEPQS(0.871)PS(0.129)R;ADLNQGIGEPQS(0.963)PS(0.037)R;ADLNQGIGEPQS(0.998)PS(0.002)R;ADLNQGIGEPQS(0.913)PS(0.087)R ;;;; 224.64 1.25E-19 144719500 7201.91 8301.83 6945.64 7422.85 8451.99 9665.79 8476.82 8109.36 10589.6 8240.39 TRUE FALSE FALSE 7959.439937 8570.814739 7892.155648 7566.529995 7804.400352 8842.210314 7522.985904 7901.934313 10515.90611 8595.67354 0.925982112 0.997107987 0.918154419 0.880271914 0.907945179 1.028681496 0.875206099 0.919292046 1.223395242 1 13.06939498 -12.04975293 0.251335057 1.194026865 0.92192828 0.288148826 0.083230768 23.90835537 0.606163252 2.355305992 0.028369777 8.92E-13 12.04975293 -0.272098585 ADNSSDS(ph)PTTLK ddPTM_HeLa_SAHA_4h_R1 1 ADNSSDSPTTLK 12 0 A0A2R8YH03;Q5VWN6;J3KPH3 A0A2R8YH03 FAM208B Protein FAM208B 1 0 ADNS(0.004)S(0.02)DS(0.592)PT(0.373)T(0.011)LK 86.738 0.0078425 0 1213 1279.7 1108.6 1202.6 1397.4 1282.8 1461.7 1461.8 1276.4 1236 TRUE FALSE FALSE 1340.588905 1321.16312 1259.674235 1225.878062 1290.331514 1173.498223 1297.225669 1424.409273 1267.517428 1289.290009 1.039788485 1.024721444 0.977029393 0.950816382 1.000807813 0.910189496 1.006155062 1.104801296 0.983112736 1 10.3323611 -6.767060207 24.66484867 1.019758929 0.987153048 0.025259907 0.048881529 218.7603231 959948.6938 0.007716333 0.010299318 1.71E-07 6.767060207 -0.03260588 ADPSLLGFSVNAS(ph)SER ddPTM_HeLa_SAHA_4h_R1 2 ADPSLLGFSVNASSER 16 0 Q6Y7W6;I1E4Y6;Q6Y7W6-4;Q6Y7W6-5;Q6Y7W6-3 Q6Y7W6 GIGYF2 PERQ amino acid-rich with GYF domain-containing protein 2 1 0 ADPSLLGFSVNAS(0.866)S(0.134)ER;ADPSLLGFSVNAS(0.768)S(0.232)ER ; 154.51 2.69E-05 11199100 1272.33 1367 1629.78 1620.09 1785.53 1763.47 1816.84 1608.35 1925.25 1600.54 TRUE FALSE FALSE 1406.159507 1411.291697 1851.877931 1651.449185 1648.723077 1613.212435 1612.404382 1567.210736 1911.852028 1669.547112 0.842240088 0.845314089 1.109209748 0.989159978 0.987527135 0.96625751 0.965773514 0.93870411 1.145132123 1 10.70524109 -6.788401416 24.99986968 0.917406619 0.98993715 0 0.093557344 291.0686805 269885.0829 0.012340019 0.01622027 1.63E-07 6.788401416 0.072530531 ADQEQQDPLEYLQS(ph)DEEDDEKR ddPTM_HeLa_SAHA_4h_R1 2 ADQEQQDPLEYLQSDEEDDEKR 22 1 Q7RTV3 Q7RTV3 ZNF367 Zinc finger protein 367 1 0 ADQEQQDPLEY(0.012)LQS(0.988)DEEDDEKR;ADQEQQDPLEYLQS(1)DEEDDEKR ; 123.03 7.75E-06 11929000 931.74 1089.97 905.25 760.27 941.44 1250.76 883.85 1123.25 1611.77 1207.4 TRUE FALSE FALSE 1029.744688 1125.285743 1028.612756 774.9861252 869.3070706 1144.188211 784.3968718 1094.518891 1600.553561 1259.456923 0.81761009 0.89346902 0.816711344 0.61533357 0.690223742 0.908477448 0.622805638 0.869040355 1.270828349 1 10.29858606 -8.668187337 0.376246097 1.04204452 0.74209553 0.495379175 0.130915296 1.188944962 0.312032514 0.146572651 0.042557954 2.15E-09 8.668187337 -0.29994899 ADQLYK(ac)QK ddPTM_HeLa_SAHA_4h_R1 2 ADQLYKQK 8 1 P08559-3;P08559;P08559-2;P08559-4;P29803;Q5JPU2;Q5JPU0;Q5JPT9;Q5JPU1 P08559-3 PDHA1;PDHA2 "Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial;Pyruvate dehydrogenase E1 component subunit alpha, testis-specific form, mitochondrial" 0 1 ; ADQLYK(1)QK;ADQLYK(1)QK 145.92 5.20E-05 11536700 5671.8 8813.5 8070.2 5393.3 8142.9 4695.5 8932.3 4791.2 3249.5 6340.4 FALSE TRUE FALSE 6268.385947 9099.063183 9169.964828 5497.69512 7518.992761 4295.416984 7927.214095 4668.648042 3226.886465 6613.765673 0.947778657 1.375776469 1.386496783 0.831250364 1.136870148 0.649466158 1.198593129 0.705898617 0.487904565 1 12.69125622 ADRDESSPYAAMLAAQDVAQR ddPTM_HeLa_SAHA_4h_R1 3 ADRDESSPYAAMLAAQDVAQR 21 1 P62263;A0A2R8Y811;E5RH77 P62263 RPS14 40S ribosomal protein S14 0 0 ;; ;; 130.38 4.82E-06 65600000 4687.5 5155.12 4151.42 4928.74 5663.46 6244.19 5649.89 4740.92 5533.58 5131.53 FALSE FALSE TRUE 5180.552757 5322.14927 4717.153898 5024.14289 5229.526918 5712.149883 5014.149508 4619.654131 5495.071366 5352.775371 0.967825548 0.994278463 0.881253849 0.938605217 0.976974851 1.067137977 0.936738264 0.863039042 1.026583592 1 12.3860714 -10.89940513 0.007465361 2.000337185 2.69E-08 0.175328462 0.054002331 19340.83621 20.19978515 2874.579885 2546.267385 1.26E-11 10.89940513 -2.000337158 ADRDQS(ph)PFSK ddPTM_HeLa_SAHA_4h_R1 1 ADRDQSPFSK 10 1 Q13427;E9PG73 Q13427 PPIG Peptidyl-prolyl cis-trans isomerase G 1 0 ADRDQS(1)PFSK 117.2 0.015418 65679000 3222.7 3440.5 2525.8 3220 3466.8 3440.1 3430 3516.1 3729.9 3452.2 TRUE FALSE FALSE 3561.678372 3551.974457 2870.00287 3282.327756 3201.174533 3146.984127 3044.047373 3426.163253 3703.943322 3601.041237 0.989069033 0.98637428 0.796992503 0.911494076 0.888958033 0.873909494 0.845324219 0.951436828 1.028575648 1 11.81419841 -6.866806378 8.984096356 0.994414744 0.878473228 0.699690056 0.039403188 0.103764414 8.123084582 0.00555318 0.007305241 1.36E-07 6.866806378 -0.115941516 ADREVQAEQPSSSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 ADREVQAEQPSSSSPR 16 1 Q9Y388;A0A1W2PP04 Q9Y388 RBMX2 "RNA-binding motif protein, X-linked 2" 1 0 ADREVQAEQPS(0.001)S(0.029)S(0.304)S(0.667)PR 118.52 0.00047741 13258000 1337.1 1029.8 987.37 1072.1 1055.2 1263.6 1076.1 1228.4 908.46 1296.3 TRUE FALSE FALSE 1477.742313 1063.166196 1121.923642 1092.852046 974.350804 1155.934171 955.0143959 1196.979307 902.1379529 1352.189837 1.09285122 0.78625513 0.829708678 0.808209037 0.720572495 0.854860863 0.706272425 0.885215429 0.667168121 1 10.40108199 -7.255873252 24.99348894 1.043846411 0.79588098 0 0.131438123 135.1593286 606903.9053 0.009435063 0.011385113 5.55E-08 7.255873252 -0.247965431 ADS(ph)PAGPESSR ddPTM_HeLa_SAHA_4h_R1 1 ADSPAGPESSR 11 0 J3KQR7;Q9Y4F5-3;Q9Y4F5-2;Q9Y4F5 J3KQR7 CEP170B Centrosomal protein of 170 kDa protein B 1 0 ADS(0.94)PAGPES(0.011)S(0.05)R 95.273 0.011473 5208100 1332.7 1522.2 1030.1 1743.9 1213.4 1571.4 1024 1257.7 1885.5 1372 TRUE FALSE FALSE 1472.879501 1571.520279 1170.476663 1777.655706 1120.429554 1437.50788 908.776825 1225.529855 1872.378652 1431.153634 1.029155407 1.098079368 0.817855355 1.242113819 0.782885588 1.004439946 0.634995994 0.856323057 1.308300246 1 10.48296284 -5.13436608 1.475080618 1.01587599 0.756285763 0.304836454 0.165338481 0.336706096 1.328094298 0.017726825 0.078078379 7.34E-06 5.13436608 -0.259590227 ADS(ph)PLEQPEGSPLTQDDR ddPTM_HeLa_SAHA_4h_R1 1 ADSPLEQPEGSPLTQDDR 18 0 P09603-3;P09603-2;P09603 P09603-3 CSF1 Macrophage colony-stimulating factor 1;Processed macrophage colony-stimulating factor 1 1 0 ADS(1)PLEQPEGSPLTQDDR 140.89 0.00013347 1619200 264.76 518.25 371.9 286.09 509.99 374.89 456.99 293.1 553.3 463.07 TRUE FALSE FALSE 292.6086716 535.04164 422.5805952 291.6276856 470.9146764 342.9472629 405.5682825 285.6029264 549.4495403 483.0352139 0.60577089 1.107665911 0.874844283 0.603740012 0.974907549 0.709983978 0.839624671 0.591267299 1.137493757 1 8.915984557 -9.66146279 1.507571091 0.999998012 0.770671157 0.279924355 0.168524676 0.511748232 2.092692917 0.116482767 0.026167201 2.18E-10 9.66146279 -0.229326855 ADS(ph)VPGTYR ddPTM_HeLa_SAHA_4h_R1 1 ADSVPGTYR 9 0 H0YKX3;H0YMA4;A0A0U1RQM0;Q15004;A0A0U1RQC1;Q15004-2 H0YKX3 KIAA0101 PCNA-associated factor 1 0 ADS(1)VPGTYR 92.611 0.01581 4106900 1323.8 1549.5 1664.1 1404.6 2000.4 2148.9 1821.4 1764.8 2290 1936.7 TRUE FALSE FALSE 1463.043358 1599.704817 1890.874882 1431.788064 1847.129784 1965.801631 1616.451278 1719.658971 2274.063704 2020.200615 0.724206966 0.791854435 0.935983718 0.708735585 0.914329879 0.973072484 0.800143939 0.851231783 1.125662316 1 10.98028285 -9.580551487 1.385697663 0.999382938 0.825115743 0.446375271 0.093004114 0.379683238 1.31469306 0.060823046 0.014411633 2.63E-10 9.580551487 -0.174267195 ADSEAS(ph)SGPLLDDK ddPTM_HeLa_SAHA_4h_R1 1 ADSEASSGPLLDDK 14 0 O43295-2;O43295 O43295-2 SRGAP3 SLIT-ROBO Rho GTPase-activating protein 3 1 0 ADS(0.003)EAS(0.498)S(0.498)GPLLDDK 85.731 0.012402 2434500 74.554 163.74 0 126.28 0 157.54 0 145.15 79.618 0 TRUE FALSE FALSE 82.39593179 169.0452834 0 128.724332 0 144.1167057 0 141.4372732 79.06393186 0 0 ADSEGSNSGGT(ph)WPK ddPTM_HeLa_SAHA_4h_R1 1 ADSEGSNSGGTWPK 14 0 Q8TDM6-4;Q8TDM6;Q8TDM6-3 Q8TDM6-4 DLG5 Disks large homolog 5 1 0 ADSEGS(0.001)NS(0.007)GGT(0.993)WPK 101.61 0.0073532 4979600 1266.7 1661.2 1352.4 1169 1360.1 1136.2 1625.8 1222.4 1919.5 1435.3 TRUE FALSE FALSE 1399.937318 1715.02397 1536.698029 1191.627685 1255.889432 1039.389368 1442.860705 1191.132778 1906.142043 1497.182807 0.935047685 1.145500711 1.026393051 0.795913284 0.838835061 0.694230099 0.963717121 0.795582725 1.273152506 1 10.54803467 -6.258587068 24.94298234 0.988455463 0.820089837 0.464515785 0.12171545 159.017213 1390575.757 0.012662555 0.020400305 5.51E-07 6.258587068 -0.168365625 ADSEPES(ph)PLNASYVYK ddPTM_HeLa_SAHA_4h_R1 2 ADSEPESPLNASYVYK 16 0 Q5T1V6-2;Q5T1V6 Q5T1V6-2 DDX59 Probable ATP-dependent RNA helicase DDX59 1 0 ADSEPES(0.997)PLNAS(0.003)YVYK;ADSEPES(1)PLNASYVYK ; 147.83 7.57E-05 10470600 2145.16 2380.76 1709.24 1936.63 2376.03 2428.79 2107.82 2005.8 2994.5 2005.29 TRUE FALSE FALSE 2370.797771 2457.898186 1942.166326 1974.116274 2193.979095 2221.843428 1870.642546 1954.49454 2973.661031 2091.747866 1.133405135 1.175045151 0.928489689 0.943763972 1.048873591 1.062194667 0.894296381 0.934383428 1.421615425 1 11.03049325 -6.738576827 24.98600749 1.073160723 0.972051535 0.272687178 0.128441824 236.8384397 258835.1829 0.012522133 0.01770209 1.83E-07 6.738576827 -0.101109188 LLPAELPAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 LLPAELPAKR 10 1 P78527-2;P78527 P78527-2 PRKDC DNA-dependent protein kinase catalytic subunit 0 1 ; LLPAELPAK(1)R;LLPAELPAK(1)R 97.431 0.0060372 3114600 1074.11 1748.58 1382.55 1814.82 2146.3 2455.9 2245.7 2221.9 755.37 985.84 FALSE TRUE FALSE 1187.089818 1805.235139 1570.956714 1849.948465 1981.850958 2246.643503 1993.007926 2165.067015 750.1133187 1028.344387 1.154369911 1.755477214 1.527656235 1.798958101 1.927224948 2.184718983 1.938074395 2.105390998 0.72943785 1 10.00610778 -6.804873616 0.641874758 1.013644595 2.090521912 0.889789253 0.155806936 0.125664799 0.107375802 0.031587891 0.05284884 1.57E-07 6.804873616 1.076877317 up ADSGPTQPPLS(ph)LSPAPETK ddPTM_HeLa_SAHA_4h_R1 1 ADSGPTQPPLSLSPAPETK 19 0 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;X6RGP5;A0A0C4DH09;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 ADSGPT(0.001)QPPLS(0.74)LS(0.259)PAPETK 144.82 9.68E-05 8722500 3405 4003.1 3659.4 3134.1 4201.8 4522.7 4017.3 3358.5 3862.5 3535.9 TRUE FALSE FALSE 3763.153523 4132.803067 4158.083975 3194.765037 3879.858992 4137.340516 3565.262831 3272.594433 3835.620548 3688.349953 1.020281039 1.120501883 1.127356142 0.866177309 1.051922687 1.121732094 0.966628134 0.887278722 1.039928585 1 11.84875983 -6.288192871 24.99228694 1.027934867 0.990083252 0.139291736 0.081892106 2108.795806 1969968.914 0.013115329 0.020036946 5.15E-07 6.288192871 -0.037851615 ADSGPTQPPLSLS(ph)PAPETK ddPTM_HeLa_SAHA_4h_R1 5 ADSGPTQPPLSLSPAPETK 19 0 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;X6RGP5;A0A0C4DH09;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 ADSGPTQPPLS(0.171)LS(0.828)PAPETK;ADSGPTQPPLS(0.315)LS(0.685)PAPETK;ADSGPTQPPLS(0.399)LS(0.601)PAPETK;ADSGPTQPPLS(0.22)LS(0.775)PAPET(0.005)K;ADSGPTQPPLS(0.057)LS(0.943)PAPETK ;;;; 198.35 2.27E-38 424971100 10943.69 13185 12394.26 11679.75 13547.9 16514 14847.2 12511.51 13735.95 12074.7 TRUE FALSE FALSE 12094.79753 13612.20265 14083.28521 11905.82845 12509.86283 15106.91429 13176.55398 12191.48369 13640.36041 12595.29941 0.960262804 1.080736726 1.118138184 0.945259661 0.993216788 1.199408907 1.046148531 0.967939173 1.082972303 1 13.6205978 -7.265228377 24.87342161 0.981235212 1.052104461 0 0.077475218 396.2822986 2601451.857 0.012044195 0.014075091 5.43E-08 7.265228377 0.070869249 ADSHEGEVAEGKLPS(ph)PPGPQELLDSPPALYAEPLDSLR ddPTM_HeLa_SAHA_4h_R1 1 ADSHEGEVAEGKLPSPPGPQELLDSPPALYAEPLDSLR 38 1 Q99704-3;Q99704 Q99704-3 DOK1 Docking protein 1 1 0 ADSHEGEVAEGKLPS(0.938)PPGPQELLDS(0.061)PPALYAEPLDSLR 62.51 8.91E-05 8320900 662.5 795.81 728.51 580.04 625.82 634.93 782.13 518.36 663.08 767.59 TRUE FALSE FALSE 732.1847897 821.5947661 827.7875489 591.267513 577.8698068 580.830392 694.1226739 505.1011018 658.4655723 800.6845614 0.914448492 1.026115409 1.033849769 0.738452496 0.721719682 0.725417249 0.866911525 0.630836569 0.822378255 1 9.645090179 -6.25189248 24.67913456 0.969683723 0.742447819 0.66661005 0.078520491 212.601127 549582.4724 0.009752452 0.016030759 5.60E-07 6.25189248 -0.227235904 ADSLLAVVK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 ADSLLAVVKR 10 1 Q15424-2;Q15424;Q15424-4;Q15424-3;Q14151 Q15424-2;Q14151 SAFB;SAFB2 Scaffold attachment factor B1;Scaffold attachment factor B2 0 1 ; ADSLLAVVK(1)R;ADSLLAVVK(1)R 166.09 1.03E-08 18614100 2296.3 3074.8 2949.7 3612.4 3338 3225.1 3439 2152.75 2434.8 2412.2 FALSE TRUE FALSE 2537.83537 3174.425537 3351.669755 3682.323226 3082.243161 2950.303336 3052.034669 2097.685772 2417.856029 2516.201747 1.00859773 1.261594203 1.332035382 1.463445143 1.224958676 1.172522569 1.212953084 0.833671535 0.960915011 1 11.29703189 -7.268144224 22.76549376 1.004060017 1.227286796 0.313684435 0.150983964 135.7763511 461011.3904 0.025683384 0.029763032 5.39E-08 7.268144224 0.223226778 ADSLLAVVK(ac)REPAEQPGDGER ddPTM_HeLa_SAHA_4h_R1 1 ADSLLAVVKREPAEQPGDGER 21 2 Q15424-2;Q15424;Q15424-4;Q15424-3;Q14151 Q15424-2;Q14151 SAFB;SAFB2 Scaffold attachment factor B1;Scaffold attachment factor B2 0 1 ADSLLAVVK(1)REPAEQPGDGER 169.58 8.75E-16 1392500 241.49 307.35 399.02 337.39 294.64 421.57 439.28 470.84 310.23 266.98 FALSE TRUE FALSE 266.8910262 317.3083417 453.3963676 343.9206713 272.0647469 385.6498643 389.8510583 458.7965946 308.0710842 278.4908144 0.958347681 1.139385306 1.628047836 1.234944399 0.976925388 1.384784863 1.399870438 1.647438877 1.106216321 1 8.121485933 -1.000000002 0.195022039 0.918539206 4.031073499 0.397641658 0.189588042 32.99953073 0.373888573 0.201889003 31.37945567 0.1 1.000000002 3.112534293 ADT(ph)PGPEDGGVK ddPTM_HeLa_SAHA_4h_R1 1 ADTPGPEDGGVK 12 0 O14686;O14686-3 O14686 KMT2D Histone-lysine N-methyltransferase 2D 1 0 ADT(1)PGPEDGGVK 131.79 0.0017128 5358300 1560.3 2115.6 1239.1 1900.4 2097.8 1926.1 1715.8 1945.5 2440.8 1584.8 TRUE FALSE FALSE 1724.419513 2184.146828 1407.958095 1937.18499 1937.067017 1761.985444 1522.733668 1895.736927 2423.814274 1653.128484 1.043124917 1.32122025 0.851693083 1.171829661 1.171758297 1.065849062 0.921122395 1.146757161 1.466198361 1 10.69098314 -7.507480982 18.21492728 1.019023639 1.089188351 0 0.188765032 11.57294127 13694.27586 0.020748939 0.022254405 3.11E-08 7.507480982 0.070164712 ADT(ph)SQEICSPR ddPTM_HeLa_SAHA_4h_R1 1 ADTSQEICSPR 11 0 P52948-6;P52948-2;P52948-5;P52948;A0A3B3ITD8;H7C3P6 P52948-6 NUP98 Nuclear pore complex protein Nup98-Nup96;Nuclear pore complex protein Nup98;Nuclear pore complex protein Nup96 1 0 ADT(0.887)S(0.113)QEICSPR 115.24 0.0050424 6208600 1005.9 996.89 961.95 1229.4 1147.1 1073.4 1098.6 1134.3 1107.8 781.52 TRUE FALSE FALSE 1111.705177 1029.18989 1093.039536 1253.196815 1059.209446 981.9402812 974.9826366 1105.286248 1100.09073 815.2151519 1.36369543 1.2624764 1.340798848 1.537258982 1.299300489 1.20451672 1.195981986 1.355821523 1.349448335 1 9.671037056 -9.272144753 0.843929352 0.985545969 1.320422794 0 0.140633174 0.373000275 0.444037589 0.082601008 0.018981557 5.34E-10 9.272144753 0.334876825 ADTQTYQPYNK ddPTM_HeLa_SAHA_4h_R1 1 ADTQTYQPYNK 11 0 P84090 P84090 ERH Enhancer of rudimentary homolog 0 0 114.89 0.017798 3646800 1847.4 1241.1 1339.9 1786.8 1445.6 1836.2 1981.5 1554.3 1970 1929.7 FALSE FALSE TRUE 2041.718008 1281.312454 1522.494594 1821.386098 1334.83844 1679.74543 1758.536405 1514.543257 1956.29061 2012.898811 1.014317261 0.636550853 0.756369166 0.904857258 0.663142346 0.834490746 0.873633784 0.752418973 0.971877274 1 10.97505893 -7.285882849 24.84638774 1.006760944 0.780649335 0.6131204 0.08015675 307.6039238 312673.4997 0.012991354 0.014859881 5.18E-08 7.285882849 -0.226111609 ADVDISGPK ddPTM_HeLa_SAHA_4h_R1 2 ADVDISGPK 9 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ; ; 169.12 1.09E-10 5676600 5242.8 6162 7278.8 6045.2 7937.9 6724.4 7573 5579.9 6994.2 5294.7 FALSE FALSE TRUE 5794.261759 6361.652843 8270.716958 6162.213588 7329.699817 6151.44329 6720.866109 5437.174238 6945.526793 5522.980429 1.049118648 1.151851419 1.497509735 1.115740616 1.32712761 1.113790528 1.216891169 0.984463789 1.257568605 1 12.4312313 -7.21605279 3.828533954 1.02221919 1.213788554 0.012777534 0.149424916 0.19692133 6.0712905 0.02094946 0.025351449 6.08E-08 7.21605279 0.191569364 ADVDVSGPK ddPTM_HeLa_SAHA_4h_R1 2 ADVDVSGPK 9 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ; ; 120.12 0.021772 14685800 8477.2 7126.3 6023.3 8117.8 7428.8 9241.8 7943.5 7699 9059.3 7514.3 FALSE FALSE TRUE 9368.870791 7357.196796 6844.123956 8274.931758 6859.606949 8454.346647 7049.676474 7502.070728 8996.255594 7838.278247 1.195271525 0.938624091 0.873166752 1.055707835 0.875142057 1.078597414 0.899390944 0.957106968 1.147733636 1 12.93632107 -7.235166246 24.69032105 1.092211557 0.954431264 0.450610808 0.080036477 551.1506224 517947.3012 0.015210437 0.018625568 5.82E-08 7.235166246 -0.137780293 ADVLEAHEAEAEEPEAGKS(ph)EAEDDEDEVDDLPSSR ddPTM_HeLa_SAHA_4h_R1 2 ADVLEAHEAEAEEPEAGKSEAEDDEDEVDDLPSSR 35 1 A0A2R8Y4X0;A0A0A0MQW1;A0A2R8Y5H9;Q8IVT5-4;Q8IVT5-3;Q8IVT5-2;Q8IVT5;A8MY87 A0A2R8Y4X0 KSR1 Kinase suppressor of Ras 1 1 0 ADVLEAHEAEAEEPEAGKS(1)EAEDDEDEVDDLPSSR;ADVLEAHEAEAEEPEAGKS(1)EAEDDEDEVDDLPSSR ; 88.409 1.33E-08 70189000 3531.6 4038.3 3436.9 3810.1 5178.4 5073.3 4343.5 4439.9 4929.9 4121.5 TRUE FALSE FALSE 3903.069892 4169.14357 3905.262833 3883.849995 4781.632111 4641.026298 3854.757949 4326.333787 4895.592425 4299.198035 0.907859991 0.969749134 0.908370073 0.903389414 1.1122149 1.079509774 0.89662256 1.006311817 1.138722242 1 12.06985185 -5.790837092 24.99928196 0.94925261 1.018579442 0.046881841 0.084785866 250.7860714 213263.3077 0.009786255 0.017740894 1.62E-06 5.790837092 0.069326832 ADVVPQQADPEFPRAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 ADVVPQQADPEFPRASPR 18 1 Q5T5Y3-2;Q5T5Y3;Q5T5Y3-3 Q5T5Y3-2 CAMSAP1 Calmodulin-regulated spectrin-associated protein 1 1 0 ADVVPQQADPEFPRAS(1)PR;ADVVPQQADPEFPRAS(1)PR;ADVVPQQADPEFPRAS(1)PR ;; 140.04 7.77E-05 211387800 11429.4 9879.3 8585.5 9312.8 11361.5 11428.9 11413.3 10635.2 10358.4 10259.3 TRUE FALSE FALSE 12631.59673 10199.3958 9755.487229 9493.062711 10490.98432 10455.09342 10129.04545 10363.16698 10286.31505 10701.62863 1.180343401 0.953069496 0.911589027 0.887067103 0.980316612 0.976962833 0.946495697 0.968372884 0.961191554 1 13.38554275 -7.158592633 8.438731345 1.085090213 0.944661375 0.304870415 0.062436522 0.210787848 15.76605967 0.011859867 0.014536997 6.94E-08 7.158592633 -0.140428838 ADY(ph)DTLSLR ddPTM_HeLa_SAHA_4h_R1 2 ADYDTLSLR 9 0 Q9Y446;Q9Y446-2;E9PKC4;E9PK71;E9PJR7;E9PRW6;E9PQ15 Q9Y446 PKP3 Plakophilin-3 1 0 ADY(0.999)DT(0.001)LSLR;ADY(0.997)DT(0.003)LSLR ; 224.51 5.06E-17 9533000 1456.24 1562.4 744.15 1933.97 3758.3 1869.28 2479.4 3431.4 2244.94 1795.47 TRUE FALSE FALSE 1609.414005 1613.022785 845.5588866 1971.404786 3470.339866 1710.006828 2200.411387 3343.629757 2229.31728 1872.881499 0.859325059 0.861251919 0.451474846 1.05260519 1.852941507 0.91303525 1.174880198 1.78528634 1.190314113 1 10.8710439 -5.987896474 24.93485042 0.886333972 1.385743344 0.422687436 0.306856624 166.7556612 343536.0947 0.041591802 0.075354438 1.03E-06 5.987896474 0.499409372 ADYDTLS(ph)LR ddPTM_HeLa_SAHA_4h_R1 3 ADYDTLSLR 9 0 Q9Y446;Q9Y446-2;E9PKC4;E9PK71;E9PJR7;E9PRW6;E9PQ15 Q9Y446 PKP3 Plakophilin-3 1 0 ADYDT(0.002)LS(0.998)LR;ADYDTLS(1)LR;ADYDTLS(1)LR ;; 131.42 0.0018816 14987800 7094.1 6068.4 5844.6 6890 7056.8 6732 5825 8840.3 5065.23 7571 TRUE FALSE FALSE 7840.289987 6265.020142 6641.071651 7023.365913 6516.109509 6158.395727 5169.555669 8614.177927 5029.980652 7897.422862 0.992765631 0.793299314 0.840916305 0.889323775 0.82509315 0.779798149 0.654587675 1.090758096 0.636914186 1 12.94716623 -7.270925721 23.60166679 0.996583782 0.831194171 0 0.153473164 230.1742067 572663.7762 0.016078546 0.018528196 5.36E-08 7.270925721 -0.16538961 AEAAVVAVAEK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 AEAAVVAVAEKR 12 1 A0A087WYP2;Q8IZQ5 A0A087WYP2 C11orf31;SELH Selenoprotein H 0 1 ; AEAAVVAVAEK(1)R;AEAAVVAVAEK(1)R 140.24 7.17E-05 9178900 960.17 1650.36 1446.3 1650.65 1533 1812.163 2064.24 2059.38 1140.7 1297.5 FALSE TRUE FALSE 1061.165086 1703.832747 1643.394232 1682.600718 1415.541871 1657.756517 1831.966282 2006.704042 1132.761776 1353.441575 0.784049423 1.258889027 1.214233597 1.24320159 1.045883249 1.224845275 1.353561407 1.482667652 0.83694915 1 10.4024169 -7.250462112 24.70706442 0.898023339 1.251983499 0.697276512 0.1163685 303.5871119 683298.473 0.022256798 0.027116866 5.62E-08 7.250462112 0.353960159 AEADKIYSFTDNAPS(ph)PSIGGSSR ddPTM_HeLa_SAHA_4h_R1 2 AEADKIYSFTDNAPSPSIGGSSR 23 1 O15014 O15014 ZNF609 Zinc finger protein 609 1 0 AEADKIYSFTDNAPS(0.848)PS(0.152)IGGSSR;AEADKIYSFTDNAPS(0.942)PS(0.058)IGGSSR ; 187.01 1.72E-15 68958000 4014.9 4234.9 3678.5 3432.6 3512.7 3663.7 3846.1 3271.1 3402.4 3968.7 TRUE FALSE FALSE 4437.205603 4372.113539 4179.786823 3499.042937 3243.557685 3351.532149 3413.326706 3187.429998 3378.722421 4139.810079 1.071837963 1.056114521 1.009656661 0.845218227 0.783503983 0.809585968 0.824512874 0.769945949 0.816153968 1 12.01534887 -6.230194164 2.991637356 1.036672224 0.800489855 0.58860681 0.073214007 0.046683786 0.841271937 0.004775016 0.008054353 5.89E-07 6.230194164 -0.236182369 AEAEAGS(ph)PRPDPR ddPTM_HeLa_SAHA_4h_R1 2 AEAEAGSPRPDPR 13 1 A0A075B730;P58107 A0A075B730;P58107 EPPK1 Epiplakin 1 0 AEAEAGS(1)PRPDPR;AEAEAGS(1)PRPDPR ; 112.62 0.0012559 239550000 14938.7 14995.7 14444.6 14523.8 16322.9 17909.1 16238.5 14976.2 14029.2 13519.6 TRUE FALSE FALSE 16510.02101 15481.57052 16413.03486 14804.92915 15072.24293 16383.14393 14411.30124 14593.13049 13931.56965 14102.49612 1.170716224 1.097789383 1.163838992 1.049809128 1.068764196 1.161719442 1.021897196 1.034790605 0.987879701 1 13.78366292 -4.657551776 22.64916177 1.090741409 1.028329288 0.127377392 0.061549659 9.643886298 2081.754745 0.009662499 0.036153761 2.20E-05 4.657551776 -0.062412121 AEAGAGS(ph)ATEFQFR ddPTM_HeLa_SAHA_4h_R1 1 AEAGAGSATEFQFR 14 0 P46783;Q9NQ39 P46783 RPS10;RPS10P5 40S ribosomal protein S10;Putative 40S ribosomal protein S10-like 1 0 AEAGAGS(0.997)AT(0.003)EFQFR 147.1 0.00010181 15910000 982.96 1055.6 1019 907.85 1092.3 1388.7 1389.7 995.92 1090.5 1058.9 TRUE FALSE FALSE 1086.352243 1089.802133 1157.864013 925.4227495 1008.60821 1270.374947 1233.327299 970.4458085 1082.911122 1104.554361 0.983520849 0.986644181 1.048263493 0.83782454 0.913135872 1.150124423 1.116583612 0.878585828 0.980405456 1 10.10924871 -5.275205036 24.98331454 0.979494459 1.055246531 0.151126205 0.085828148 1116.219674 2025827.223 0.011926615 0.026781667 5.31E-06 5.275205036 0.075752072 AEAGAGSAT(ph)EFQFR ddPTM_HeLa_SAHA_4h_R1 1 AEAGAGSATEFQFR 14 0 P46783;Q9NQ39 P46783 RPS10;RPS10P5 40S ribosomal protein S10;Putative 40S ribosomal protein S10-like 1 0 AEAGAGS(0.461)AT(0.539)EFQFR 140.31 0.00038688 14972000 949.71 997.33 596.91 712.73 1054.2 986.86 1107.7 1005 1021.8 902.94 TRUE FALSE FALSE 1049.604855 1029.644146 678.2537862 726.5259198 973.4274237 902.7739761 983.0586807 979.2935552 1014.689211 941.8701623 1.114383805 1.093191172 0.72011389 0.771365257 1.033504896 0.958490896 1.043730569 1.03973307 1.077313255 1 9.879384386 -10.3467846 22.27535534 0.999998828 1.011127512 0 0.130652626 310.0763496 603757.8401 0.354718854 0.020008244 4.50E-11 10.3467846 0.011128683 AEAGAGSATEFQFR ddPTM_HeLa_SAHA_4h_R1 2 AEAGAGSATEFQFR 14 0 P46783;Q9NQ39 P46783 RPS10;RPS10P5 40S ribosomal protein S10;Putative 40S ribosomal protein S10-like 0 0 ; ; 137.01 0.0018295 8112700 1170.09 1239.62 1034.24 2015.09 1283.2 1515.41 1623.98 1806.95 2516.34 1303.49 FALSE FALSE TRUE 1293.165435 1279.784501 1175.180841 2054.094981 1184.881493 1386.288543 1441.245496 1760.730835 2498.828585 1359.689833 0.951073843 0.941232677 0.864300675 1.510708495 0.871435135 1.019562336 1.059981079 1.294950358 1.837793094 1 10.40906187 AEAGVPAEFSIWTR ddPTM_HeLa_SAHA_4h_R1 2 AEAGVPAEFSIWTR 14 0 P21333-2;P21333;Q60FE5;H0Y5C6 P21333-2 FLNA Filamin-A 0 0 ; ; 236.11 2.08E-55 3816900 707.07 905.88 950.11 1075.37 1112.18 1053.53 1112.57 739.59 1048.51 998.36 FALSE FALSE TRUE 781.4428668 935.2311064 1079.586043 1096.185341 1026.965009 963.763317 987.3806955 720.6723587 1041.213334 1041.404185 0.750374233 0.898048154 1.036663822 1.052603165 0.986134897 0.92544598 0.948124378 0.692019841 0.999816736 1 10.02431439 -4.256259919 24.41335589 0.915778224 0.692019709 0.373014162 0.090140341 450.8542472 2125001.551 0.016255915 0.180752474 5.54E-05 4.256259919 -0.223758515 AEAIK(ac)ALVKPK ddPTM_HeLa_SAHA_4h_R1 1 AEAIKALVKPK 11 2 A0A3B3ITT5;P47914 A0A3B3ITT5 RPL29 60S ribosomal protein L29 0 1 AEAIK(1)ALVKPK 92.112 0.016216 0 896.46 713.78 946.67 983.57 976.54 878.33 946.5 981.87 1035.8 705.25 FALSE TRUE FALSE 990.7537759 736.9069403 1075.677258 1002.60842 901.7177162 803.4913427 839.9973289 956.7551871 1028.591783 735.6567789 1.346760887 1.001699381 1.462199885 1.362875254 1.22573154 1.092209527 1.141833193 1.3005456 1.398195209 1 9.522889023 -9.479619233 1.151480402 0.996437855 1.247766726 0 0.178390252 0.4781053 1.107758589 0.098197729 0.022675723 3.31E-10 9.479619233 0.251328871 AEAPAGPALGLPS(ph)PEAESGVDR ddPTM_HeLa_SAHA_4h_R1 5 AEAPAGPALGLPSPEAESGVDR 22 0 Q53F19 Q53F19 C17orf85 Uncharacterized protein C17orf85 1 0 AEAPAGPALGLPS(0.974)PEAES(0.026)GVDR;AEAPAGPALGLPS(0.957)PEAES(0.043)GVDR;AEAPAGPALGLPS(0.915)PEAES(0.085)GVDR;AEAPAGPALGLPS(0.77)PEAES(0.23)GVDR;AEAPAGPALGLPS(0.978)PEAES(0.022)GVDR ;;;; 161.96 1.68E-07 53696900 3393.431 5614.59 3564.688 4384.85 4921.665 5947.75 4539.51 3768.58 6782.56 4717.31 TRUE FALSE FALSE 3750.367642 5796.5064 4050.465117 4469.725112 4544.568091 5440.968239 4028.712387 3672.18518 6735.359613 4920.69632 0.762161978 1.177984989 0.823148769 0.908352156 0.923561991 1.105731361 0.818728108 0.746273483 1.368781809 1 12.26464677 -4.533539287 24.8910761 0.918840706 0.764387031 0.05359634 0.185817996 230.5694071 538353.1915 0.018075997 0.067772817 2.93E-05 4.533539287 -0.154453675 AEAPAGPALGLPS(ph)PEAESGVDRGEPEPMEVEEGELEIVPVRR ddPTM_HeLa_SAHA_4h_R1 2 AEAPAGPALGLPSPEAESGVDRGEPEPMEVEEGELEIVPVRR 42 2 Q53F19 Q53F19 C17orf85 Uncharacterized protein C17orf85 1 0 AEAPAGPALGLPS(0.812)PEAES(0.188)GVDRGEPEPMEVEEGELEIVPVRR;AEAPAGPALGLPS(0.5)PEAES(0.5)GVDRGEPEPMEVEEGELEIVPVRR ; 55.117 0.0005304 23616200 335.83 717.32 840.09 773.07 947.02 1058.18 764.32 873.04 743.19 972.63 TRUE FALSE FALSE 371.1541402 740.5616387 954.5730902 788.0338877 874.4595322 968.0171108 678.316702 850.7089009 738.0180803 1014.564839 0.365825944 0.729930321 0.940869478 0.77672107 0.86190601 0.954120499 0.668578957 0.838496337 0.727423277 1 9.986645353 -6.980225013 22.77698853 0.692494683 0.835591929 0.144526343 0.161147247 190.812508 219776.7597 0.039466507 0.051862801 1.05E-07 6.980225013 0.143097246 AEAPAGPALGLPSPEAES(ph)GVDRGEPEPMEVEEGELEIVPVRR ddPTM_HeLa_SAHA_4h_R1 2 AEAPAGPALGLPSPEAESGVDRGEPEPMEVEEGELEIVPVRR 42 2 Q53F19 Q53F19 C17orf85 Uncharacterized protein C17orf85 1 0 AEAPAGPALGLPS(0.473)PEAES(0.527)GVDRGEPEPMEVEEGELEIVPVRR;AEAPAGPALGLPS(0.218)PEAES(0.782)GVDRGEPEPMEVEEGELEIVPVRR ; 64.685 2.87E-06 122245000 882.03 1179.91 1132.52 1019.69 1238.38 1409.57 1471.3 1291.52 1104.84 1246.75 TRUE FALSE FALSE 974.8059623 1218.139858 1286.853928 1039.427574 1143.495592 1289.466706 1305.745452 1258.484788 1097.151328 1300.503494 0.749560433 0.936667886 0.989504399 0.799250121 0.879271449 0.99151345 1.004030714 0.967690432 0.843635818 1 10.34485456 -5.260078567 23.32085487 0.885222917 0.989373462 0.285757063 0.074124961 63.48625251 1087941.158 0.01433137 0.034437845 5.49E-06 5.260078567 0.104150545 AEAPLPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 AEAPLPSPK 9 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 AEAPLPS(1)PK;AEAPLPS(1)PK;AEAPLPS(1)PK ;; 110.08 0.0062561 249406600 13627.1 18535.2 14771.1 14919.8 19554.7 21919.1 20301.9 16292.7 17716 17041.7 TRUE FALSE FALSE 15060.4609 19135.75264 16784.02858 15208.5943 18056.42311 20051.46937 18017.47678 15875.95633 17592.71291 17776.45109 0.84721415 1.076466419 0.944172068 0.855547276 1.015749602 1.127979329 1.013558707 0.893089191 0.989663956 1 14.11767971 -5.589310662 16.95209264 0.935402771 1.02176339 0.089193463 0.083158438 4.493262248 1145.148791 0.013091535 0.026183254 2.57E-06 5.589310662 0.086360619 AEAPPLEREDS(ph)GTFSLGK ddPTM_HeLa_SAHA_4h_R1 3 AEAPPLEREDSGTFSLGK 18 1 G5E9Q4;O75569 G5E9Q4 PRKRA Interferon-inducible double-stranded RNA-dependent protein kinase activator A 1 0 AEAPPLEREDS(0.691)GT(0.211)FS(0.098)LGK;AEAPPLEREDS(0.956)GT(0.044)FSLGK;AEAPPLEREDS(0.723)GT(0.219)FS(0.059)LGK ;; 148.19 0.00045371 89198000 4141.13 4034.3 3999.5 4869.26 4745.18 7317.91 4664.31 4967.49 4244.43 4259.05 TRUE FALSE FALSE 4576.713054 4165.013967 4544.531031 4963.511568 4381.605334 6694.382899 4139.469563 4840.428799 4214.892666 4442.678489 1.030169765 0.937500649 1.022925932 1.117234025 0.986253078 1.506834878 0.931750874 1.089529393 0.948727817 1 12.11721402 -5.922392189 1.811915382 1.008988666 1.146843642 0.179813021 0.145710684 0.476986461 3.153809233 0.021053197 0.043973368 1.20E-06 5.922392189 0.137854977 AEAPSS(ph)PDVAPAGK ddPTM_HeLa_SAHA_4h_R1 3 AEAPSSPDVAPAGK 14 0 A0A0J9YX88;E9PJ24;B7ZM65;F8WEF5;A0A0J9YYB5;A0A0J9YWD5;Q9P1Y6-2;Q9P1Y6-3;Q9P1Y6 A0A0J9YX88 PHRF1 PHD and RING finger domain-containing protein 1 1 0 AEAPS(0.033)S(0.967)PDVAPAGK;AEAPS(0.016)S(0.984)PDVAPAGK;AEAPS(0.027)S(0.973)PDVAPAGK ;; 237.48 2.23E-25 28802700 10031.7 17562.2 9402.1 13254.6 15891.8 20678.7 14435 11685 27834 14054.7 TRUE FALSE FALSE 11086.88023 18131.2268 10683.36922 13511.16195 14674.17372 18916.75842 12810.73581 11386.11462 27640.30093 14660.6669 0.756233008 1.236725923 0.728709635 0.921592588 1.000921296 1.290306816 0.873816716 0.776643702 1.885337217 1 13.83966311 -5.813396163 5.514649993 0.900354572 0.999263228 0 0.359678639 0.484878176 31.74501853 0.027546916 0.051210462 1.54E-06 5.813396163 0.098908656 AEAS(ph)MRAR ddPTM_HeLa_SAHA_4h_R1 1 AEASMRAR 8 1 Q9HAY2 Q9HAY2 MAGEF1 Melanoma-associated antigen F1 1 0 AEAS(1)MRAR 69.176 0.023491 3427700 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 AEAS(ph)PNDTAGAR ddPTM_HeLa_SAHA_4h_R1 2 AEASPNDTAGAR 12 0 I3L2J0;A0A0A0MQR4;Q96RK0 I3L2J0 CIC Protein capicua homolog 1 0 AEAS(0.989)PNDT(0.011)AGAR;AEAS(0.772)PNDT(0.228)AGAR ; 145.61 0.00048446 11283900 3186 3624.2 2706.8 3744.6 3583.6 3869.8 3596.4 3268.9 4324 3523 TRUE FALSE FALSE 3521.118098 3741.626458 3075.668608 3817.082148 3309.025342 3540.071269 3191.723607 3185.286271 4293.908932 3674.893771 0.95815507 1.018159079 0.83694082 1.038691833 0.900441087 0.963312544 0.868521325 0.866769618 1.168444369 1 11.84348683 -1 0.231878669 0.992540691 0.256516818 0.304470045 0.079273108 38.3518215 0.467806091 0.032500892 10.85572203 0.1 1 -0.736023874 AECLEELGCLVESY(ph)GMNVCQPTPGK ddPTM_HeLa_SAHA_4h_R1 1 AECLEELGCLVESYGMNVCQPTPGK 25 0 Q14008-2;Q14008;Q14008-3 Q14008-2 CKAP5 Cytoskeleton-associated protein 5 1 0 AECLEELGCLVES(0.047)Y(0.936)GMNVCQPT(0.016)PGK 57.293 0.0046243 0 507.43 542.55 520.65 516.32 822.06 656.41 638.59 711 733.25 612.69 TRUE FALSE FALSE 560.8038156 560.128976 591.6014706 526.3141202 759.0739404 600.4801751 566.7341725 692.8136495 728.1472535 639.1060643 0.877481606 0.876425694 0.92567025 0.823516079 1.187711998 0.939562631 0.886760749 1.08403548 1.139321459 1 9.319911567 -5.817773982 24.99999884 0.926533501 1.008620161 0.107045917 0.111169575 120.5570475 53499.94096 0.013698312 0.024830313 1.52E-06 5.817773982 0.08208666 AECSAEQCYK ddPTM_HeLa_SAHA_4h_R1 1 AECSAEQCYK 10 0 P48163;P48163-2 P48163 ME1 NADP-dependent malic enzyme 0 0 130.41 0.00030641 0 510.36 561.98 395.35 300.17 672.71 692.83 572.69 590.72 601.36 641.05 FALSE FALSE TRUE 564.0420064 580.1885207 449.2262391 305.9802244 621.1671051 633.7969862 508.249414 575.6102378 597.1750868 668.6888027 0.843504488 0.867651018 0.671801647 0.457582396 0.928933014 0.947820546 0.760068678 0.860804361 0.893053816 1 9.385191149 -8.352402078 0.76508032 0.984593075 0.782211347 0.165423095 0.137711078 0.625965287 0.778013538 0.059433943 0.032803054 4.44E-09 8.352402078 -0.202381728 AEDEALLS(ph)EEDDPIDR ddPTM_HeLa_SAHA_4h_R1 1 AEDEALLSEEDDPIDR 16 0 Q04721 Q04721 NOTCH2 Neurogenic locus notch homolog protein 2;Notch 2 extracellular truncation;Notch 2 intracellular domain 1 0 AEDEALLS(1)EEDDPIDR 134.85 0.00012315 2660900 841.25 2519.7 1178 855 1225.2 1255.7 1620 764.31 1474.8 1189.4 TRUE FALSE FALSE 929.7365348 2601.339933 1338.531705 871.5497614 1131.325441 1148.707296 1437.713336 744.7600569 1464.536747 1240.680855 0.749376063 2.096703534 1.078868671 0.702476997 0.911858546 0.925868479 1.158809964 0.600283348 1.180429875 1 10.27691634 -4.24202033 22.76037858 0.980471724 0.600282148 0.06893048 0.382909933 2669.765813 3128965.732 0.052914684 2.238873719 5.73E-05 4.24202033 -0.380189576 AEDGAT(ph)PSPSNET(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 AEDGATPSPSNETPK 15 0 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 2 0 AEDGAT(0.999)PS(0.005)PSNET(0.995)PK;AEDGAT(0.995)PS(0.006)PS(0.004)NET(0.996)PK ; 130.47 0.0011018 19599700 2301 2708.6 2167.38 2431.7 2655.9 2806.9 2554.8 1789.92 3151.4 2984.3 TRUE FALSE FALSE 2543.029737 2796.360417 2462.739259 2478.76907 2452.405516 2567.736329 2267.32718 1744.136438 3129.469151 3112.967778 0.816914892 0.898294045 0.791122631 0.796271997 0.787803052 0.82485156 0.728349068 0.560280916 1.005300849 1 11.60407493 -2.917760058 0.071057894 1.25995093 2.84E-14 0.788066181 0.05660373 56.96064393 0.449069302 1.904546796 7.892517261 0.001208481 2.917760058 -1.25995093 AEDGATPS(ph)PSNET(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 AEDGATPSPSNETPK 15 0 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 2 0 AEDGAT(0.018)PS(0.981)PS(0.019)NET(0.981)PK 147.75 4.96E-08 0 2231.9 2891.9 2234.1 2305.5 2668.9 2779.3 2382 2271.5 3394.8 2709.3 TRUE FALSE FALSE 2466.661482 2985.599457 2538.551513 2350.126286 2464.409459 2542.488004 2113.971091 2213.398319 3371.17531 2826.111182 0.872811197 1.056433829 0.898248989 0.831576019 0.872014333 0.89964189 0.748014128 0.783195769 1.192867192 1 11.46460251 -1 0.17790545 0.987071363 0.044747397 0.469918789 0.092322978 35.74608154 0.385549371 0.08528182 9.130415075 0.1 1 -0.942323966 AEDGATPS(ph)PSNETPK ddPTM_HeLa_SAHA_4h_R1 4 AEDGATPSPSNETPK 15 0 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 AEDGAT(0.001)PS(0.977)PS(0.019)NET(0.003)PK;AEDGAT(0.003)PS(0.481)PS(0.347)NET(0.169)PK;AEDGAT(0.015)PS(0.976)PS(0.009)NET(0.001)PK;AEDGAT(0.126)PS(0.87)PS(0.004)NETPK ;;; 230.97 8.21E-25 322649900 8122.17 9504.7 7617.36 8582.6 9574.9 9743.5 9086.41 8862.5 9923 8624.7 TRUE FALSE FALSE 8976.497106 9812.658516 8655.414151 8748.728634 8841.273231 8913.298985 8063.983233 8635.810083 9853.945035 8996.553025 0.997770711 1.090713131 0.962081158 0.972453406 0.982740079 0.990746007 0.896341433 0.959902093 1.095302279 1 13.13515663 -5.150930497 0.932301 1.003509997 0.925833837 0.3103656 0.046961952 0.676361921 0.897634869 0.005777695 0.038775095 7.06E-06 5.150930497 -0.07767616 AEDGATPS(ph)PSNETPKK ddPTM_HeLa_SAHA_4h_R1 2 AEDGATPSPSNETPKK 16 1 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 AEDGAT(0.002)PS(0.995)PS(0.003)NETPKK;AEDGAT(0.287)PS(0.633)PS(0.079)NETPKK ; 226.39 5.72E-27 34618900 3528 7183.4 3266.2 3983.9 4242.7 4192.4 4310.6 3651.1 4514.1 4315.3 TRUE FALSE FALSE 3899.091227 7416.146873 3711.300726 4061.014145 3917.625243 3835.183934 3825.559943 3557.710149 4482.686011 4501.353702 0.866204143 1.647537022 0.824485471 0.902176193 0.870321575 0.852006794 0.849868772 0.790364496 0.995852872 1 12.13614322 AEDGATPSPS(ph)NETPKK ddPTM_HeLa_SAHA_4h_R1 1 AEDGATPSPSNETPKK 16 1 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 AEDGAT(0.001)PS(0.007)PS(0.885)NET(0.107)PKK 74.325 0.0094645 797720000 2703.2 3145.9 2666.9 2851.4 3264.1 3108.5 3440.1 3435.7 4201.4 3785.2 TRUE FALSE FALSE 2987.534979 3247.829224 3030.331243 2906.59297 3014.005363 2843.638312 3053.010894 3347.819769 4172.162115 3948.398496 0.756644746 0.822568752 0.767483638 0.736144787 0.763348828 0.720200434 0.773227651 0.847893082 1.056671995 1 11.94705189 -9.286436614 0.643531144 1.031364062 0.766752798 0.857993683 0.040963362 0.295098251 0.179290925 0.045130619 0.007949523 5.17E-10 9.286436614 -0.264611264 AEDGATPSPS(ph)NETPKKK ddPTM_HeLa_SAHA_4h_R1 2 AEDGATPSPSNETPKKK 17 2 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 AEDGAT(0.001)PS(0.015)PS(0.522)NET(0.463)PKKK;AEDGAT(0.001)PS(0.034)PS(0.532)NET(0.433)PKKK ; 67.153 0.0084404 645499000 12780.6 9562.6 13231.2 11028.9 11155.2 8827.1 11268.5 12223.1 7585.3 9750.6 TRUE FALSE FALSE 14124.92215 9872.434514 15034.27903 11242.38031 10300.49099 8074.98142 10000.53872 11910.4508 7532.51328 10170.99608 1.388745215 0.970645789 1.478152081 1.105337197 1.012731782 0.79392238 0.983240839 1.171021078 0.740587571 1 13.31217335 -5.842883295 3.869650324 1.19225379 0.974206799 0.01009739 0.220158275 0.269939397 7.831704107 0.028691713 0.05464495 1.44E-06 5.842883295 -0.218046991 AEDGATPSPSNET(ph)PK ddPTM_HeLa_SAHA_4h_R1 11 AEDGATPSPSNETPK 15 0 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 AEDGATPSPS(0.001)NET(0.999)PK;AEDGATPSPSNET(1)PK;AEDGATPS(0.001)PS(0.003)NET(0.996)PK;AEDGATPSPSNET(1)PK;AEDGATPSPS(0.005)NET(0.995)PK;AEDGATPSPSNET(1)PK;AEDGATPSPS(0.001)NET(0.999)PK;AEDGATPSPSNET(1)PK;AEDGATPSPS(0.005)NET(0.995)PK;AEDGATPSPS(0.001)NET(0.999)PK;AEDGATPSPS(0.007)NET(0.993)PK ;;;;;;;;;; 251.28 1.33E-34 5640340900 32393 51370.4 30544.7 33796.4 36778.3 36557.3 33737.8 31046.5 45916.7 38694.2 TRUE FALSE FALSE 35800.24436 53034.83467 34707.17265 34450.57819 33960.3546 33442.41237 29941.53395 30252.37548 45597.16195 40362.49633 0.886968043 1.313963196 0.859886672 0.853529423 0.841383901 0.828551636 0.741815712 0.749516959 1.129691325 1 15.30072778 -6.537363682 24.97058752 0.978122946 0.808477943 0.46222248 0.124893999 212.6508114 366587.6969 0.01895836 0.026817499 2.90E-07 6.537363682 -0.169645003 AEDGATPSPSNET(ph)PKK ddPTM_HeLa_SAHA_4h_R1 3 AEDGATPSPSNETPKK 16 1 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 AEDGATPSPSNET(1)PKK;AEDGATPSPS(0.003)NET(0.997)PKK;AEDGAT(0.006)PS(0.009)PS(0.006)NET(0.979)PKK ;; 123.42 0.00071514 1443280000 8597.4 9903.5 8063.3 8685.7 11285.4 10064.2 10820.5 9883.9 12696.4 11034.2 TRUE FALSE FALSE 9501.713978 10224.3799 9162.124532 8853.824283 10420.71509 9206.67354 9602.948862 9631.08415 12608.04472 11509.93836 0.825522577 0.888308832 0.796018558 0.769232988 0.905366715 0.799889039 0.834318009 0.836762444 1.09540506 1 13.49059249 -9.277439534 0.599674908 1.026871298 0.827629759 0.738000698 0.049609146 0.456623121 0.235276753 0.05038151 0.008517565 5.28E-10 9.277439534 -0.199241539 AEDGATPSPSNET(ph)PKKK ddPTM_HeLa_SAHA_4h_R1 3 AEDGATPSPSNETPKKK 17 2 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 AEDGATPSPS(0.281)NET(0.719)PKKK;AEDGATPSPS(0.004)NET(0.996)PKKK;AEDGATPS(0.003)PS(0.017)NET(0.98)PKKK ;; 117.55 0.0043706 694639000 13593.4 10942.8 13970.8 13339.7 12664.6 10938.9 13366.3 14216.8 8630.7 11691.3 TRUE FALSE FALSE 15023.21618 11297.3539 15874.66787 13597.90918 11694.24108 10006.84418 11862.28875 13853.15484 8570.638256 12195.36916 1.231878755 0.926364241 1.301696378 1.115005951 0.958908331 0.820544589 0.97268796 1.13593567 0.702778091 1 13.57404581 -5.761555866 23.53568442 1.113147468 0.961247264 0 0.177818519 1.703653652 344402.5533 0.01942062 0.036902291 1.73E-06 5.761555866 -0.151900204 AEDGATPSPSNETPK ddPTM_HeLa_SAHA_4h_R1 2 AEDGATPSPSNETPK 15 0 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 0 0 ; ; 177.83 2.12E-06 6428300 3723.2 2956.8 2874.2 3351.4 2966.9 3569.3 2988.9 3466.6 4078.5 3154.8 FALSE FALSE TRUE 4114.823259 3052.60226 3265.881008 3416.271193 2739.576763 3265.17556 2652.581106 3377.929392 4050.117386 3290.818867 1.25039494 0.927611754 0.99242199 1.038121918 0.832490901 0.992207621 0.806055031 1.026470775 1.230732395 1 11.6842309 -7.233146669 24.72616528 1.118242059 0.942593729 0.488840871 0.098079025 519.8402672 454310.3662 0.018685739 0.022882867 5.85E-08 7.233146669 -0.175648331 AEDGENYDIK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 AEDGENYDIKK 11 1 E5RIW3;E5RJD8;E5RHG6;O75347;A0A494C144;E5RIX8;O75347-2 E5RIW3 TBCA Tubulin-specific chaperone A 0 1 ; AEDGENYDIK(1)K;AEDGENYDIK(1)K 189.17 2.96E-17 3546100 669.08 2598.66 1152.08 1237.23 1802.89 1783.15 1808.26 1635.18 2011.84 712.69 FALSE TRUE FALSE 739.4569042 2682.858289 1309.079463 1261.178376 1664.752958 1631.215588 1604.789826 1593.354463 1997.839442 743.4175537 0.994672376 3.608817515 1.760893936 1.696460313 2.239324252 2.194211826 2.158665501 2.143283348 2.687371897 1 9.538028944 -7.416100075 22.65907535 0.997230454 2.216381091 0.010317067 0.726842137 6.973640339 1474.36795 0.078841212 0.0901579 3.84E-08 7.416100075 1.219150637 AEDGS(ph)VIDYELIDQDAR ddPTM_HeLa_SAHA_4h_R1 1 AEDGSVIDYELIDQDAR 17 0 P07355;P07355-2;H0YN42;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YNA0 P07355 ANXA2 Annexin A2;Annexin 1 0 AEDGS(1)VIDYELIDQDAR 172.2 7.29E-09 6838600 315.86 343.63 378.22 317.03 594.02 423.48 600.47 352.31 317.61 380.09 TRUE FALSE FALSE 349.083604 354.7638375 429.7618519 323.1665741 548.5063159 387.3971216 532.9035352 343.2984203 315.3997262 396.47754 0.880462495 0.894789242 1.083950057 0.815094278 1.383448646 0.977097269 1.344095142 0.865871041 0.795504649 1 8.631095331 -5.782841093 24.99859489 0.941845116 1.145195091 0.312485596 0.164208467 207.6708136 242572.5684 0.020684934 0.037519955 1.65E-06 5.782841093 0.203349975 AEDGSVIDY(ph)ELIDQDAR ddPTM_HeLa_SAHA_4h_R1 2 AEDGSVIDYELIDQDAR 17 0 P07355;P07355-2;H0YN42;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YNA0 P07355 ANXA2 Annexin A2;Annexin 1 0 AEDGS(0.376)VIDY(0.624)ELIDQDAR;AEDGS(0.484)VIDY(0.516)ELIDQDAR ; 112.94 0.00031599 4341800 788.7 1180.62 639.35 914.14 1142.42 1000.2 1117.23 1012.37 913.16 975.864 TRUE FALSE FALSE 871.6590847 1218.872863 726.4772884 931.8345016 1054.888026 914.977333 991.51634 986.4750413 906.8052452 1017.938273 0.856298567 1.197393688 0.713675188 0.915413563 1.036298619 0.898853455 0.974043679 0.969091219 0.890825377 1 9.991434365 AEDGSVIDYELIDQDAR ddPTM_HeLa_SAHA_4h_R1 6 AEDGSVIDYELIDQDAR 17 0 P07355;P07355-2;H0YN42;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YNA0 P07355 ANXA2 Annexin A2;Annexin 0 0 ;;;;; ;;;;; 406.58 2.00E-259 187250000 7809.29 7288.14 7137.51 7189.36 8774.43 9728.81 9677.76 8589.97 8457.09 8177.63 FALSE FALSE TRUE 8630.706953 7524.280518 8110.172692 7328.520459 8102.135069 8899.860655 8588.792974 8370.251006 8398.236422 8530.20765 1.011781578 0.882074719 0.950759117 0.859125681 0.949816863 1.043334585 1.006867983 0.981248212 0.984528955 1 13.05836515 AEDNADTLALVFEAPNQEK ddPTM_HeLa_SAHA_4h_R1 5 AEDNADTLALVFEAPNQEK 19 0 P12004 P12004 PCNA Proliferating cell nuclear antigen 0 0 ;;;; ;;;; 290.37 2.97E-77 29595800 8293.09 7878.75 6955.5 8195.6 8146.72 8566.75 8036.94 9065.91 8781.84 7671.92 FALSE FALSE TRUE 9165.395256 8134.026669 7903.359317 8354.237689 7522.520074 7836.814705 7132.602359 8834.017149 8720.72646 8002.694017 1.145288729 1.016411055 0.987587343 1.043928166 0.939998463 0.979272066 0.891275156 1.10388041 1.089723841 1 12.96627003 -7.013364372 19.41933595 1.069252878 0.987345526 0.275421042 0.062701631 38.02968321 55261.26556 0.011813771 0.014849093 9.70E-08 7.013364372 -0.081907352 AEDQTES(ph)SCESHR ddPTM_HeLa_SAHA_4h_R1 4 AEDQTESSCESHR 13 0 Q9BU76 Q9BU76 MMTAG2 Multiple myeloma tumor-associated protein 2 1 0 AEDQTES(0.968)S(0.032)CESHR;AEDQTES(0.987)S(0.013)CESHR;AEDQT(0.002)ES(0.961)S(0.038)CESHR;AEDQT(0.002)ES(0.958)S(0.04)CESHR ;;; 181.51 4.00E-06 21728700 5251.15 6299.11 3927.9 7685.22 7916.48 9780.2 8000.72 7581.78 6208.17 8350.51 TRUE FALSE FALSE 5803.49005 6503.205297 4463.173756 7833.978546 7309.921013 8946.871938 7100.457929 7387.849046 6164.96684 8710.541353 0.666260547 0.746590256 0.512387643 0.899367586 0.839203985 1.027131561 0.815156905 0.84815039 0.707759322 1 13.08854667 -4.237757188 18.38491705 0.825614759 0.848151162 0 0.148456228 2138.248847 1658911.823 0.02352007 0.965774669 5.78E-05 4.237757188 0.022536404 AEDQTESS(ph)CESHR ddPTM_HeLa_SAHA_4h_R1 1 AEDQTESSCESHR 13 0 Q9BU76 Q9BU76 MMTAG2 Multiple myeloma tumor-associated protein 2 1 0 AEDQT(0.001)ES(0.149)S(0.843)CES(0.007)HR 178.01 1.09E-05 1931900 273.14 444.89 136.69 426.31 341.01 488.74 573.59 393.59 266.57 320.45 TRUE FALSE FALSE 301.8701184 459.3047279 155.3174013 434.5618465 314.8818875 447.0966024 509.0481436 383.5225377 264.7149177 334.2661677 0.903083074 1.374068848 0.464651874 1.300047353 0.942009446 1.337546679 1.522882639 1.147356732 0.791928538 1 8.384853532 -5.255868609 20.10605614 0.973780659 1.354624721 0.307566454 0.252432235 24.73778026 89274.73843 0.030943346 0.076031434 5.55E-06 5.255868609 0.380844062 AEDS(ph)DS(ph)EPEPEDNVR ddPTM_HeLa_SAHA_4h_R1 1 AEDSDSEPEPEDNVR 15 0 Q9H0D6-2;Q9H0D6 Q9H0D6-2 XRN2 5-3 exoribonuclease 2 2 0 AEDS(1)DS(1)EPEPEDNVR 113.43 0.017773 3570900 1340.9 1478.4 1231.6 1292.4 1421.8 2217.8 1680.8 1677.1 2201.4 1428.8 TRUE FALSE FALSE 1481.942014 1526.30113 1399.436034 1317.416271 1312.861991 2028.830963 1491.67196 1634.20221 2186.080278 1490.40256 0.994323315 1.024086492 0.93896513 0.883933177 0.880877439 1.36126374 1.000851716 1.096483765 1.466771687 1 10.54148634 -5.298689981 24.99982121 0.979392143 1.137665343 0.048071133 0.181946736 426.2092538 286039.1718 0.01327847 0.02969218 5.03E-06 5.298689981 0.1582732 AEEDAALQAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 AEEDAALQAKK 11 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;A0A2R8Y857;H0YA99;A0A2R8Y4M7;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8 E7ETY2;Q13428 TCOF1 Treacle protein 0 1 ; AEEDAALQAK(1)K;AEEDAALQAK(1)K 151.15 7.73E-06 2802900 2246.69 2148.96 1927.33 2018.33 2374.9 2838.2 2483.5 2252.97 1909.78 1820.44 FALSE TRUE FALSE 2483.007162 2218.587714 2189.976495 2057.397696 2192.935675 2596.369393 2204.050044 2195.34229 1896.489685 1898.928077 1.307583574 1.168336885 1.153269848 1.083452143 1.15482819 1.367281586 1.16068116 1.156095545 0.998715911 1 10.89096955 -9.534267104 1.292877287 0.99992636 1.20542272 0.484708347 0.07932953 0.337108233 1.008528851 0.060644488 0.014445429 2.92E-10 9.534267104 0.20549636 AEEDEILNRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 11 AEEDEILNRSPR 12 1 P27824;P27824-2;P27824-3 P27824 CANX Calnexin 1 0 AEEDEILNRS(1)PR;AEEDEILNRS(1)PR;AEEDEILNRS(1)PR;AEEDEILNRS(1)PR;AEEDEILNRS(1)PR;AEEDEILNRS(1)PR;AEEDEILNRS(1)PR;AEEDEILNRS(1)PR;AEEDEILNRS(1)PR;AEEDEILNRS(1)PR;AEEDEILNRS(1)PR ;;;;;;;;;; 219.97 3.22E-15 1669253900 24745.6 78788 38926.1 29467.3 44604.1 39839 49812.5 35726.5 39920 41920.3 TRUE FALSE FALSE 27348.45574 81340.78289 44230.74619 30037.6822 41186.54349 36444.49307 44207.4664 34812.66786 39642.19347 43727.68929 0.625426502 1.860166504 1.01150431 0.686925897 0.941887032 0.833442006 1.010971929 0.796124113 0.906569593 1 15.41625949 AEEDVEPECIMEK ddPTM_HeLa_SAHA_4h_R1 2 AEEDVEPECIMEK 13 0 B4DDD6;Q9UJU6-4;Q9UJU6-2;Q9UJU6-3;H0Y5J4;Q9UJU6-5;Q9UJU6 B4DDD6;H0Y5J4 DBNL Drebrin-like protein 0 0 ; ; 103.7 0.016575 4858000 2293.9 2368.3 2083 2048.84 2523.7 2890.9 2616.6 2593.6 2465.3 2070.21 FALSE FALSE TRUE 2535.182927 2445.034474 2366.860392 2088.498261 2330.334651 2644.579056 2322.173281 2527.259467 2448.143777 2159.466884 1.173985554 1.132239856 1.096039217 0.967136045 1.079124977 1.224644414 1.075345632 1.17031638 1.133679703 1 11.07645948 -9.515281563 1.272892584 1.000108047 1.118279131 0 0.077729716 0.476382024 1.383785854 0.048519693 0.011727794 3.05E-10 9.515281563 0.118171084 AEEGKSPFRESS(ph)GDGMK ddPTM_HeLa_SAHA_4h_R1 2 AEEGKSPFRESSGDGMK 17 2 O15014 O15014 ZNF609 Zinc finger protein 609 1 0 AEEGKS(0.077)PFRES(0.383)S(0.54)GDGMK;AEEGKS(0.001)PFRES(0.37)S(0.629)GDGMK ; 74.966 0.0079361 28526000 8150.4 7031.8 7774.8 8075.8 7628.9 8490.4 8765.7 8350.4 6328.1 7509.5 TRUE FALSE FALSE 9007.696467 7259.634934 8834.309255 8232.118787 7044.37533 7766.970154 7779.360366 8136.808859 6284.062237 7833.271296 1.149927805 0.926769246 1.127793092 1.050917104 0.899289079 0.991535957 0.993117699 1.038749783 0.802227064 1 12.93539921 -5.971583277 24.92463975 1.064518855 0.981433537 0 0.106538435 247.406636 217001.9544 0.011175323 0.020256704 1.07E-06 5.971583277 -0.083085317 AEEILEK ddPTM_HeLa_SAHA_4h_R1 1 AEEILEK 7 0 P62913;Q5VVC8;P62913-2 P62913 RPL11 60S ribosomal protein L11 0 0 124.08 0.0022326 1727800 1979.3 2006.1 1827.5 1748.2 1902 2212.1 2319.1 1861.2 1793.5 1961 FALSE FALSE TRUE 2187.491855 2071.098956 2076.542183 1782.038939 1756.269171 2023.616635 2058.148764 1813.593199 1781.018887 2045.548307 1.069391443 1.012490856 1.015151867 0.871179103 0.858581127 0.989278341 1.006159941 0.886604923 0.870680434 1 10.99827189 -6.402212471 6.078244409 1.031336404 0.927451487 0.104305273 0.069449633 0.157790239 7.283239724 0.008119667 0.012436269 3.96E-07 6.402212471 -0.103884917 AEEKENDTVTIS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 AEEKENDTVTISPK 14 1 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 1 0 AEEKENDT(0.06)VT(0.123)IS(0.817)PK;AEEKENDTVT(0.025)IS(0.975)PK;AEEKENDTVT(0.001)IS(0.999)PK;AEEKENDT(0.001)VT(0.141)IS(0.857)PK ;;; 173.03 7.22E-06 74554000 9624.52 11607.55 9453.74 10405.57 12149.65 12841.65 10869.31 10355.97 13228.99 11420.14 TRUE FALSE FALSE 10636.87117 11983.64224 10742.04645 10606.98485 11218.74644 11747.46917 9646.266632 10091.07928 13136.92838 11912.51812 0.892915424 1.005970535 0.901744395 0.890406608 0.941761123 0.986144915 0.809758821 0.847098756 1.102783496 1 13.54019079 -12.92616446 0.014050178 2.043219246 2.32E-07 0.40361407 0.063808763 4464.519915 5.60987868 487.6088015 340.503563 1.19E-13 12.92616446 -2.043219014 AEEKS(ph)PISINVK ddPTM_HeLa_SAHA_4h_R1 2 AEEKSPISINVK 12 1 Q9UK58-6;Q9UK58 Q9UK58-6 CCNL1 Cyclin-L1 1 0 AEEKS(0.744)PIS(0.256)INVK;AEEKS(0.993)PIS(0.007)INVK ; 122.33 0.0063316 88780000 4362.36 4375.34 4229.56 4720.31 5054.42 6221.44 5353.66 5136.86 5809.76 5802.18 TRUE FALSE FALSE 4821.21304 4517.103887 4805.94241 4811.678426 4667.151432 5691.338311 4751.252087 5005.466559 5769.329407 6052.340375 0.796586567 0.746340028 0.794063472 0.795011207 0.771131685 0.940353311 0.785027244 0.827029917 0.953239416 1 12.56327741 -9.130356555 0.854619005 1.002056545 0.806935578 0.63290577 0.051128192 0.285937863 0.372094404 0.035283728 0.009884794 7.41E-10 9.130356555 -0.195120966 AEELSPAALS(ph)PSLEPIR ddPTM_HeLa_SAHA_4h_R1 1 AEELSPAALSPSLEPIR 17 0 A0A2R8YFR7;Q12774;A0A2R8YF49;A0A5F9ZGZ6 A0A2R8YFR7 ARHGEF5 Rho guanine nucleotide exchange factor 5 1 0 AEELSPAALS(0.5)PS(0.5)LEPIR 157.91 6.66E-06 3433500 615.27 521.86 552.93 688.39 584.66 731.53 842.93 535.73 561.94 412.16 TRUE FALSE FALSE 679.9869216 538.7686064 628.2804209 701.7147839 539.8634771 669.1995285 748.0812979 522.0268023 558.0294138 429.9302347 1.581621544 1.253153565 1.461354355 1.632159656 1.255700189 1.556530513 1.740006256 1.214212819 1.297953409 1 8.747958761 -9.391675483 0.868841902 0.967292207 1.476376861 0.247549323 0.189663196 0.425559388 0.512899396 0.151253891 0.030078443 4.06E-10 9.391675483 0.509084654 AEENTDQAS(ph)PQEDYAGFER ddPTM_HeLa_SAHA_4h_R1 2 AEENTDQASPQEDYAGFER 19 0 Q9NU22 Q9NU22 MDN1 Midasin 1 0 AEENTDQAS(1)PQEDYAGFER;AEENT(0.029)DQAS(0.971)PQEDYAGFER ; 237.16 2.09E-33 30842000 3200.1 3259.9 2676.4 2909.6 4007.5 4528.9 3683.3 4403 3335.6 3841.3 TRUE FALSE FALSE 3536.701201 3365.522899 3041.125854 2965.919515 3700.446216 4143.012241 3268.84539 4290.377635 3312.387288 4006.917242 0.882648926 0.839928228 0.75896897 0.740199844 0.923514511 1.033965014 0.815800575 1.070742762 0.826667258 1 11.968277 -4.236993079 23.17432067 0.908689814 1.070743287 0.190024559 0.097887078 3692.483874 3500211.346 0.014848736 1.102754625 5.79E-05 4.236993079 0.162053473 AEEPLK(ac)TVQEK ddPTM_HeLa_SAHA_4h_R1 1 AEEPLKTVQEK 11 1 Q96PN7;Q05GC8;Q96PN7-2;Q96PN7-3;Q96PN7-4;Q96PN7-5 Q96PN7 TRERF1;BCAR2 Transcriptional-regulating factor 1 0 1 AEEPLK(1)TVQEK 214.26 5.18E-33 1719300 848.1 673.42 573.21 1069.2 1001.9 1007.9 743.59 1070.8 982.49 876.28 FALSE TRUE FALSE 937.3070492 695.2392498 651.3240737 1089.895912 925.1346384 922.0212497 659.9192962 1043.410486 975.6527721 914.0607192 1.025431932 0.760605106 0.712561059 1.192367082 1.012115081 1.008708973 0.721964397 1.141511132 1.06738289 1 9.836146194 AEEPPS(ph)PPVPK ddPTM_HeLa_SAHA_4h_R1 1 AEEPPSPPVPK 11 0 Q96JK2-2;Q96JK2-3;Q96JK2 Q96JK2-2 DCAF5 DDB1- and CUL4-associated factor 5 1 0 AEEPPS(1)PPVPK 128.36 0.0014852 6775200 3481.5 3352.4 3436.3 3367.3 3712.5 4073.4 3878.4 3645.6 3533.2 3436.5 TRUE FALSE FALSE 3847.700144 3461.01996 3904.581069 3432.478961 3428.049052 3726.323404 3441.992225 3552.350831 3508.612174 3584.664333 1.073378087 0.965507406 1.089245939 0.957545433 0.956309638 1.039518085 0.960199312 0.990985627 0.978784022 1 11.80762232 -6.235783055 24.92923287 1.032967574 0.981650074 0.156114628 0.043003519 785.8045505 763535.2689 0.006268164 0.01039205 5.81E-07 6.235783055 -0.0513175 AEEQQLPPPLS(ph)PPSPSTPNHR ddPTM_HeLa_SAHA_4h_R1 1 AEEQQLPPPLSPPSPSTPNHR 21 0 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;A0A1W2PPU9;J3KSW8;Q6WCQ1-3 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 AEEQQLPPPLS(0.806)PPS(0.01)PS(0.023)T(0.161)PNHR 52.329 0.022308 4609600 365.97 505.38 421.75 619.05 748.43 939.48 749.99 984.59 842.54 594.33 TRUE FALSE FALSE 404.4644037 521.7546436 479.2238936 631.0326079 691.0854551 859.4310186 665.5991513 959.4056135 836.6766955 619.9544749 0.652409846 0.841601545 0.772998523 1.017869269 1.114735812 1.386280854 1.073625852 1.547542041 1.349577637 1 9.276018468 -5.733261835 1.579713185 0.827745152 1.31760082 0.363301599 0.215635935 0.184605317 0.928673126 0.025376851 0.062251346 1.85E-06 5.733261835 0.489855667 AEEQQLPPPLSPPS(ph)PSTPNHR ddPTM_HeLa_SAHA_4h_R1 2 AEEQQLPPPLSPPSPSTPNHR 21 0 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;A0A1W2PPU9;J3KSW8;Q6WCQ1-3 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 AEEQQLPPPLS(0.004)PPS(0.579)PS(0.075)T(0.342)PNHR;AEEQQLPPPLS(0.421)PPS(0.503)PS(0.046)T(0.03)PNHR ; 122.22 2.28E-05 13987500 1609.88 2765 1390.54 2454 2706.2 3885.1 2795.6 2449.5 3051 2290.63 TRUE FALSE FALSE 1779.214565 2854.587814 1580.03555 2501.500719 2498.851541 3554.067623 2481.03173 2386.845337 3029.767843 2389.390269 0.744631209 1.194692994 0.661271442 1.046920108 1.045811382 1.487437054 1.038353492 0.998934903 1.268008781 1 11.2224268 -5.85301367 2.787226765 0.889733308 1.166308752 0.04610402 0.220440323 0.248272345 3.908038979 0.028146115 0.055707167 1.40E-06 5.85301367 0.276575444 AEESIEDIY(ph)ANIPDLPK ddPTM_HeLa_SAHA_4h_R1 4 AEESIEDIYANIPDLPK 17 0 S4R313;Q9NP74-2;Q9NP74 S4R313 PALMD Palmdelphin 1 0 AEESIEDIY(1)ANIPDLPK;AEESIEDIY(1)ANIPDLPK;AEESIEDIY(1)ANIPDLPK;AEESIEDIY(1)ANIPDLPK ;;; 206.18 2.31E-20 12529700 6072.29 6855.9 4898.24 10685.4 14426.2 9078 10990.4 13787.7 11322 6880.95 TRUE FALSE FALSE 6711.001323 7078.035658 5565.746638 10892.23137 13320.86767 8304.503329 9753.731267 13435.0306 11243.20928 7177.621429 0.934989591 0.986125519 0.775430509 1.51752659 1.855888863 1.15699935 1.358908569 1.871794261 1.566425506 1 12.80929012 -6.248285932 23.79804527 0.956831965 1.536397294 0.419599963 0.282502501 184.955996 334633.4192 0.029858925 0.049292337 5.65E-07 6.248285932 0.579565329 AEEYEFLTPVEEAPK ddPTM_HeLa_SAHA_4h_R1 5 AEEYEFLTPVEEAPK 15 0 J3KRE2;J3KTF8;J3QQX2;P52565 J3KRE2 ARHGDIA Rho GDP-dissociation inhibitor 1 0 0 ;;;; ;;;; 237.53 1.22E-55 50000600 8812.66 8729.58 7788.23 9334.06 9257.43 9836.59 9525.21 9569.13 9995.65 8339.39 FALSE FALSE TRUE 9739.616013 9012.42412 8849.569425 9514.734229 8548.127713 8998.457193 8453.408302 9324.365511 9926.089458 8698.941915 1.119632262 1.03603682 1.017315613 1.093780637 0.982662926 1.034431231 0.971774313 1.071896514 1.141068598 1 13.08662422 -5.754853165 24.99032017 1.055169424 1.013464328 0.189063354 0.049404763 255.2340279 968435.3975 0.007508692 0.014752144 1.76E-06 5.754853165 -0.041705096 AEFEDQDDEAR ddPTM_HeLa_SAHA_4h_R1 1 AEFEDQDDEAR 11 0 Q14692 Q14692 BMS1 Ribosome biogenesis protein BMS1 homolog 0 0 133.42 0.0071108 3512000 360.07 466.72 451.37 399.62 410.92 527.12 498.98 449.18 369.51 545.72 FALSE FALSE TRUE 397.9438147 481.8420342 512.880353 407.355223 379.4353984 482.2064105 442.8334572 437.690626 366.9385498 569.2486599 0.699068514 0.846452646 0.900977708 0.715601549 0.66655475 0.847092746 0.777926218 0.768891799 0.644601517 1 9.15291518 -9.434198681 1.059231422 1.005480869 0.77335191 0 0.129278027 0.315733428 0.609087598 0.056796678 0.012927485 3.68E-10 9.434198681 -0.232128959 AEFT(ph)SPPSLFK ddPTM_HeLa_SAHA_4h_R1 1 AEFTSPPSLFK 11 0 Q6UN15-5;Q6UN15;Q6UN15-3;A0A0B4J203;Q6UN15-4 Q6UN15-5 FIP1L1 Pre-mRNA 3-end-processing factor FIP1 1 0 AEFT(0.499)S(0.499)PPS(0.002)LFK 163.12 0.00031062 14925000 2630.7 2948 2614.3 2697.1 2837.8 3106.8 2747.5 2715.9 3246 3373.4 TRUE FALSE FALSE 2907.409096 3043.517134 2970.563189 2749.306271 2620.368377 2842.083162 2438.344069 2646.431211 3223.410822 3518.843783 0.826239889 0.86491965 0.844187288 0.781309555 0.744667436 0.807675287 0.692938993 0.752074083 0.916042604 1 11.78088575 -13.52287875 0.09505889 1.748441755 0.605471582 0.777166402 0.040126649 28.70535651 0.20517375 4.293774461 0.322837781 3.00E-14 13.52287875 -1.142970172 AEFTS(ph)PPSLFK ddPTM_HeLa_SAHA_4h_R1 1 AEFTSPPSLFK 11 0 Q6UN15-5;Q6UN15;Q6UN15-3;A0A0B4J203;Q6UN15-4 Q6UN15-5 FIP1L1 Pre-mRNA 3-end-processing factor FIP1 1 0 AEFT(0.017)S(0.982)PPS(0.001)LFK 131.17 0.0012771 15044000 5669.7 5007.4 4721.4 4955.9 5388.3 5451.5 5479.5 5266.6 6129.3 5466.1 TRUE FALSE FALSE 6266.06506 5169.643045 5364.807804 5051.828611 4975.449618 4987.001531 4862.932239 5131.887998 6086.645702 5701.770321 1.098968339 0.906673323 0.940902124 0.886010542 0.872614879 0.874640901 0.852881117 0.900051687 1.067501032 1 12.47719421 -7.172838626 5.661529537 1.046582452 0.888236196 0.849136894 0.031828834 0.081587353 4.139180352 0.007173539 0.008803344 6.72E-08 7.172838626 -0.158346256 AEFTVETR ddPTM_HeLa_SAHA_4h_R1 1 AEFTVETR 8 0 P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98 P21333-2 FLNA Filamin-A 0 0 138.83 0.0061129 13362000 1424.8 1580 1434.7 1201.9 1272.3 1377.1 1570.2 1499 1394.7 1325.5 FALSE FALSE TRUE 1574.667001 1631.193037 1630.213444 1225.164512 1174.816649 1259.763333 1393.516963 1460.657751 1384.994169 1382.648792 1.138877067 1.179759492 1.179051003 0.886099579 0.849685514 0.911123157 1.007860399 1.056419938 1.001696293 1 10.43321903 -6.251493483 24.9918291 1.085363141 0.939013045 0.484515168 0.080573117 581.3620904 1460833.254 0.014105576 0.023212791 5.60E-07 6.251493483 -0.146350097 AEGAAT(ph)EEEGTPK ddPTM_HeLa_SAHA_4h_R1 4 AEGAATEEEGTPK 13 0 P80723;P80723-2;U3KQP0 P80723 BASP1 Brain acid soluble protein 1 1 0 AEGAAT(0.999)EEEGT(0.001)PK;AEGAAT(0.911)EEEGT(0.089)PK;AEGAAT(0.725)EEEGT(0.275)PK;AEGAAT(0.999)EEEGT(0.001)PK ;;; 188.13 4.48E-07 26881700 5846.03 8656.9 6744.3 6814.8 6495.02 7190.72 8282.1 6178.43 8876.4 6767.7 TRUE FALSE FALSE 6460.942258 8937.38924 7663.378081 6946.710308 5997.372971 6578.030202 7350.176311 6020.394707 8814.62841 7059.488667 0.915213915 1.266010849 1.08554294 0.984024571 0.849547786 0.93179981 1.041176869 0.852808892 1.24862137 1 12.78534797 -5.973858643 24.52258199 0.997045452 0.927034287 0.103603902 0.132187204 395.3552987 370870.8243 0.017182464 0.031145203 1.06E-06 5.973858643 -0.070011165 AEGAATEEEGT(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 AEGAATEEEGTPK 13 0 P80723;P80723-2;U3KQP0 P80723 BASP1 Brain acid soluble protein 1 1 0 AEGAAT(0.002)EEEGT(0.998)PK;AEGAATEEEGT(1)PK;AEGAAT(0.285)EEEGT(0.715)PK;AEGAAT(0.008)EEEGT(0.992)PK ;;; 174.94 2.81E-05 72671100 6205.26 11729.8 7143.36 7129.38 8636.5 9224.3 8941.2 6747.34 12341.7 9110.8 TRUE FALSE FALSE 6857.957718 12109.85322 8116.8199 7267.379459 7974.773236 8438.337746 7935.112644 6574.752813 12255.8131 9503.611175 0.721615983 1.274237023 0.85407744 0.764696632 0.839130841 0.887908563 0.834957628 0.691816268 1.289595384 1 13.2142601 -6.525539228 24.99987075 0.903336007 0.811815019 0.12451034 0.187835505 192.1189882 1805284.797 0.025582685 0.036302902 2.98E-07 6.525539228 -0.091520988 AEGAATEEEGT(ph)PKESEPQAAAEPAEAK ddPTM_HeLa_SAHA_4h_R1 2 AEGAATEEEGTPKESEPQAAAEPAEAK 27 1 P80723;P80723-2 P80723 BASP1 Brain acid soluble protein 1 1 0 AEGAAT(0.003)EEEGT(0.74)PKES(0.257)EPQAAAEPAEAK;AEGAATEEEGT(0.897)PKES(0.103)EPQAAAEPAEAK ; 128.01 1.50E-08 78139000 3692.4 4555.7 3845.6 3421.5 4184 3830.9 5297.2 4404.6 3756.3 3733.8 TRUE FALSE FALSE 4080.783573 4703.307669 4369.658341 3487.72808 3863.422824 3504.485768 4701.145115 4291.93671 3730.159602 3894.782391 1.047756502 1.2075919 1.121926183 0.895487278 0.991948313 0.899789877 1.207036656 1.101970862 0.957732481 1 11.92732701 -8.644144168 1.269771069 1.006847505 1.056183618 0.072733009 0.104479913 1.232129961 3.986089127 0.034508521 0.020273484 2.27E-09 8.644144168 0.049336113 AEGAATEEEGTPKES(ph)EPQAAAEPAEAK ddPTM_HeLa_SAHA_4h_R1 1 AEGAATEEEGTPKESEPQAAAEPAEAK 27 1 P80723;P80723-2 P80723 BASP1 Brain acid soluble protein 1 1 0 AEGAATEEEGT(0.054)PKES(0.946)EPQAAAEPAEAK 109.5 3.91E-07 11264000 1490.1 1849.4 1500.5 1474.5 1731.6 1496.8 2007.8 1820.8 1626.5 1301.5 TRUE FALSE FALSE 1646.835555 1909.321773 1704.980326 1503.04108 1598.925182 1369.264219 1781.87706 1774.226572 1615.181054 1357.614034 1.213036631 1.406380403 1.255865277 1.10711958 1.177746503 1.008581367 1.312506364 1.306871119 1.189720357 1 10.40685767 -8.968715686 0.914106195 1.007126373 1.218194027 0.078522287 0.119812382 0.475186752 0.756360349 0.060842245 0.021839879 1.07E-09 8.968715686 0.211067654 AEGDEEGPSGAS(ph)EEEDT ddPTM_HeLa_SAHA_4h_R1 1 AEGDEEGPSGASEEEDT 17 0 Q96DX7 Q96DX7 TRIM44 Tripartite motif-containing protein 44 1 0 AEGDEEGPS(0.171)GAS(0.828)EEEDT(0.001) 87.566 0.006031 3075100 1170 1587.3 877.22 1313 1328.9 1490.2 1516.2 1291.3 2131.6 1140.3 TRUE FALSE FALSE 1293.065968 1638.729561 996.7629732 1338.415014 1227.079969 1363.226576 1345.593186 1258.270416 2116.766022 1189.463913 1.087099788 1.377704311 0.837993454 1.125225405 1.031624377 1.146084855 1.131260201 1.05784665 1.779596672 1 10.21609579 -8.762396985 1.099611022 1.008828542 1.098191355 0 0.273692892 0.871717632 2.105905501 0.045003848 0.022490293 1.73E-09 8.762396985 0.089362813 AEGDVAALNRR ddPTM_HeLa_SAHA_4h_R1 2 AEGDVAALNRR 11 1 P67936;A0A2R8Y5V9;A0A2R8YH90;A0A2R8YGX3 P67936 TPM4 Tropomyosin alpha-4 chain 0 0 ; ; 143.5 0.0015777 4606700 4669.5 4240.2 4661.8 4742.8 5360.1 4501.8 4777 4327.1 3326.9 3920.7 FALSE FALSE TRUE 5160.659434 4377.585262 5297.085826 4834.603752 4949.410296 4118.221314 4239.479388 4216.419048 3303.747832 4089.740564 1.261854964 1.070382141 1.295213166 1.182129692 1.210201532 1.00696395 1.036613282 1.030974699 0.807813547 1 11.99779361 -5.246622379 24.06641183 1.144901807 1.026026891 0.068015045 0.13512945 655.3152818 1064386.989 0.015793278 0.04006182 5.67E-06 5.246622379 -0.118874917 AEGEAEEESDFDVFPSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 AEGEAEEESDFDVFPSSPR 19 0 B1AL69;Q7L3B6 B1AL69 CDC37L1 Hsp90 co-chaperone Cdc37-like 1 1 0 AEGEAEEESDFDVFPS(0.026)S(0.974)PR;AEGEAEEESDFDVFPS(0.034)S(0.966)PR ; 218.83 1.27E-25 12227800 1087.39 1239.88 1033.85 1088.19 1140.93 1306.48 1346.05 1358.14 1152.94 1243.64 TRUE FALSE FALSE 1201.766669 1280.052926 1174.737694 1109.253491 1053.51219 1195.160554 1194.588911 1323.400745 1144.916597 1297.259407 0.926388865 0.986736283 0.905553421 0.85507454 0.812106033 0.921296502 0.920855848 1.020151204 0.882565654 1 10.34125128 -8.645637417 0.520223465 1.004094343 0.908295188 0 0.065467358 1.145306562 0.594054196 0.051472984 0.016756494 2.26E-09 8.645637417 -0.095799156 AEGEPQEES(ph)PLK ddPTM_HeLa_SAHA_4h_R1 4 AEGEPQEESPLK 12 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 AEGEPQEES(1)PLK;AEGEPQEES(1)PLK;AEGEPQEES(1)PLK;AEGEPQEES(1)PLK ;;; 201.48 2.33E-10 103731500 7427.8 10060.6 6966.8 8906.7 9427.1 12147.2 9413 8210.6 14967.9 9360 TRUE FALSE FALSE 8209.090084 10386.57004 7916.199222 9079.102058 8704.797635 11112.19022 8353.824466 8000.584741 14863.73717 9763.555407 0.84078901 1.063810222 0.810790628 0.92989712 0.891560223 1.138129478 0.855612952 0.819433537 1.522369316 1 13.25319089 -9.693457541 1.574771284 0.999964068 0.910870646 0.10859142 0.194792936 0.77416041 3.462784491 0.070877975 0.015718282 2.03E-10 9.693457541 -0.089093422 AEGEPQEES(ph)PLKSK ddPTM_HeLa_SAHA_4h_R1 2 AEGEPQEESPLKSK 14 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 AEGEPQEES(0.981)PLKS(0.019)K;AEGEPQEES(0.875)PLKS(0.125)K ; 188.58 8.00E-08 131588000 6972.6 6586.2 6650.5 7081.7 7165.9 6834.8 7789.1 7404.6 7282.9 6577.3 TRUE FALSE FALSE 7706.010059 6799.597201 7556.795506 7218.776544 6616.85029 6252.436588 6912.649968 7215.201054 7232.217706 6860.879592 1.123181067 0.991067852 1.101432463 1.052164879 0.964431776 0.911317056 1.007545735 1.051643737 1.054123981 1 12.74417783 -5.773430059 20.11692845 1.057161674 0.980262734 0.318657615 0.049831963 21.0565268 35327.95844 0.00880827 0.01611334 1.68E-06 5.773430059 -0.07689894 AEGEWEDQEALDYFS(ph)DKESGK ddPTM_HeLa_SAHA_4h_R1 7 AEGEWEDQEALDYFSDKESGK 21 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 AEGEWEDQEALDY(0.263)FS(0.703)DKES(0.034)GK;AEGEWEDQEALDY(0.005)FS(0.926)DKES(0.069)GK;AEGEWEDQEALDY(0.226)FS(0.739)DKES(0.034)GK;AEGEWEDQEALDY(0.088)FS(0.909)DKES(0.003)GK;AEGEWEDQEALDY(0.002)FS(0.94)DKES(0.058)GK;AEGEWEDQEALDY(0.002)FS(0.919)DKES(0.079)GK;AEGEWEDQEALDYFS(0.986)DKES(0.013)GK ;;;;;; 115.79 3.71E-05 614564400 13371.98 16399.6 15107.39 15061.36 16588.41 19222.51 17486.07 16191.28 18028.48 15680.58 TRUE FALSE FALSE 14778.50621 16930.9578 17166.14643 15352.8944 15317.40961 17584.64401 15518.49138 15777.1305 17903.01834 16356.64654 0.903516877 1.035111797 1.049490578 0.938633378 0.936463937 1.075076359 0.948757518 0.964569997 1.094540882 1 13.99758938 -7.254055258 24.88961487 0.954438525 0.992028169 0 0.067020409 1051.993466 3545952.129 0.009492394 0.011499647 5.57E-08 7.254055258 0.037589643 AEGEWEDQEALDYFS(ph)DKESGKQK ddPTM_HeLa_SAHA_4h_R1 1 AEGEWEDQEALDYFSDKESGKQK 23 2 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 AEGEWEDQEALDY(0.167)FS(0.792)DKES(0.04)GKQK 57.293 0.0052877 25933000 4654.5 1457.5 4665.3 3119.6 2876.8 2264 3369.6 4824.1 814.61 2542.4 TRUE FALSE FALSE 5144.081666 1504.723956 5301.062788 3179.984369 2656.380206 2071.094463 2990.44374 4700.706507 808.9410627 2652.015306 1.939687774 0.567388866 1.998880917 1.199082208 1.00164588 0.780951173 1.127611795 1.772503536 0.305028806 1 11.37287339 -6.021764892 24.75896037 1.421272629 1.134839163 0 0.574858176 1534.309348 1745375.127 0.075359206 0.125752432 9.51E-07 6.021764892 -0.286433466 AEGFVDALHR ddPTM_HeLa_SAHA_4h_R1 2 AEGFVDALHR 10 0 Q96I24;A0A494C1K6 Q96I24 FUBP3 Far upstream element-binding protein 3 0 0 ; ; 163.66 0.00019251 8915800 11452.2 12024.8 11942.2 12570.6 13519.6 12581.3 14318.1 9962.1 11170.2 10999.7 FALSE FALSE TRUE 12656.79494 12414.41141 13569.62082 12813.92214 12483.73117 11509.30246 12706.9897 9707.283907 11092.46567 11473.9509 1.103089516 1.081964837 1.182645886 1.11678377 1.088006327 1.003081028 1.107464187 0.846028015 0.96675206 1 13.48607463 -4.254995404 24.37023755 1.067798855 0.846027871 0.546800542 0.061654433 319.5983304 1208629.657 0.008689891 0.109051494 5.56E-05 4.254995404 -0.221770983 AEGPEVDVNLPK ddPTM_HeLa_SAHA_4h_R1 3 AEGPEVDVNLPK 12 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ;; ;; 177.44 6.00E-11 16576000 3969.5 3998.4 3550.7 3802.7 3991 4604.8 4141.2 4593.7 4684.3 3871.1 FALSE FALSE TRUE 4387.030223 4127.950783 4034.570905 3876.306757 3685.210442 4212.445134 3675.221277 4476.199806 4651.701575 4038.002066 1.086435854 1.02227555 0.999150283 0.959956606 0.912632134 1.043200342 0.910158345 1.108518454 1.15198098 1 11.97942593 -6.761881361 3.1221852 1.041192362 0.981838625 0.202674315 0.068144955 0.328010682 6.640871741 0.009567247 0.013354876 1.73E-07 6.761881361 -0.059353737 AEGPGLSR ddPTM_HeLa_SAHA_4h_R1 2 AEGPGLSR 8 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 124.59 0.0020345 1766790 963.78 1315.99 858.64 1005.97 1366.18 1412.4 1022 1048.46 1307.69 1130.42 FALSE FALSE TRUE 1065.154802 1358.628939 975.6509876 1025.442004 1261.503584 1292.055574 907.0018702 1021.641911 1298.589679 1179.157938 0.90331818 1.152202682 0.827413323 0.869639232 1.06983428 1.095744287 0.769194559 0.866416515 1.101285618 1 10.20354125 AEGSSTASSGS(ph)QLAEGK ddPTM_HeLa_SAHA_4h_R1 1 AEGSSTASSGSQLAEGK 17 0 Q9NZB2-4;Q9NZB2;Q9NZB2-6;A0A0C4DH52;Q9NZB2-2;Q9NZB2-5 Q9NZB2-4 FAM120A Constitutive coactivator of PPAR-gamma-like protein 1 1 0 AEGSST(0.001)AS(0.011)S(0.001)GS(0.987)QLAEGK 267.62 4.12E-59 4755000 1132 806.23 1075.5 1080.8 1171 1820.1 1207.5 878.53 1114.5 832.55 TRUE FALSE FALSE 1251.068954 832.352381 1222.063539 1101.720447 1081.278233 1665.01724 1071.628922 856.0584747 1106.744104 868.4453049 1.440584625 0.958439612 1.407185383 1.268612359 1.245073497 1.917239037 1.23396248 0.985736776 1.274397014 1 9.76229118 AEGVS(ph)TPLAGR ddPTM_HeLa_SAHA_4h_R1 1 AEGVSTPLAGR 11 0 P29590;P29590-11 P29590;P29590-11 PML Protein PML 1 0 AEGVS(0.5)T(0.5)PLAGR 100.82 0.0076535 8516300 2234.5 2164.2 2292.8 2361.8 2446.8 2944.7 2369.1 2343.4 2120.4 2357 TRUE FALSE FALSE 2469.534962 2234.3215 2605.250844 2407.516054 2259.326713 2693.794994 2102.522633 2283.459221 2105.643964 2458.621805 1.00443873 0.908769903 1.059638712 0.979213659 0.918940322 1.095652446 0.855163095 0.928755784 0.85643264 1 11.26363412 -4.737971194 24.99996711 0.997019746 0.891959407 0.149892456 0.070984273 169.2597151 180304.5237 0.006754755 0.025243503 1.83E-05 4.737971194 -0.105060339 AEGVST(ph)PLAGR ddPTM_HeLa_SAHA_4h_R1 1 AEGVSTPLAGR 11 0 P29590;P29590-11 P29590;P29590-11 PML Protein PML 1 0 AEGVS(0.124)T(0.876)PLAGR 114.89 0.0051911 6267000 1836.5 1853.9 1676.1 2042.5 1720 2109.1 1809 1919.7 2031.1 2006.7 TRUE FALSE FALSE 2029.671496 1913.967576 1904.510179 2082.035541 1588.213972 1929.392815 1605.446559 1870.596854 2016.96541 2093.218658 0.969641413 0.914365811 0.909847699 0.994657454 0.758742507 0.921734959 0.766975086 0.893646178 0.963571294 1 11.03150731 -6.311987482 0.511844246 0.994938268 0.822905353 0.407695349 0.062261866 0.584115328 0.295593969 0.015643689 0.042991791 4.88E-07 6.311987482 -0.172032915 AEHLES(ph)PQLGGK ddPTM_HeLa_SAHA_4h_R1 3 AEHLESPQLGGK 12 0 Q9NYD6;D6RAG4 Q9NYD6 HOXC10 Homeobox protein Hox-C10 1 0 AEHLES(1)PQLGGK;AEHLES(1)PQLGGK;AEHLES(1)PQLGGK ;; 128.76 0.00087003 32948100 16018.2 18097.6 17265.5 15049.6 16985.5 6442.79 18022.9 15147.8 17600.8 17548.2 TRUE FALSE FALSE 17703.06777 18683.97411 19618.35243 15340.90677 15684.07466 5893.828046 15994.91586 14760.34121 17478.3146 18304.78878 0.967127673 1.020715089 1.071760656 0.838081606 0.856829043 0.321982849 0.873810457 0.806365011 0.954849292 1 14.15993351 -5.79987721 2.344388092 0.99148721 0.684854995 0.467225253 0.146442201 0.184636734 2.070409042 0.020873757 0.043633286 1.59E-06 5.79987721 -0.306632215 AEHMETNAVGPS(ph)PSSDTR ddPTM_HeLa_SAHA_4h_R1 4 AEHMETNAVGPSPSSDTR 18 0 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;A0A1W2PPU9;J3KSW8;Q6WCQ1-3 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 AEHMETNAVGPS(0.497)PS(0.104)S(0.294)DT(0.104)R;AEHMETNAVGPS(0.448)PS(0.235)S(0.235)DT(0.081)R;AEHMETNAVGPS(0.977)PS(0.011)S(0.011)DTR;AEHMETNAVGPS(0.56)PS(0.435)S(0.004)DT(0.001)R ;;; 227.41 1.20E-28 38380300 5913.56 6827.27 5613.63 5321.65 6659.51 4822.3 6514.16 5866.41 7484.67 6291.87 TRUE FALSE FALSE 6535.575373 7048.478028 6378.626262 5424.658231 6149.259783 4411.41291 5781.169572 5716.355727 7432.583572 6563.143307 0.995799584 1.073948518 0.971885873 0.826533564 0.936938216 0.672149411 0.880853777 0.87097835 1.13247315 1 12.68017122 -6.327390988 4.121714055 1.004355331 0.835641456 0.601081186 0.078750407 0.113816506 3.849607552 0.009846545 0.015467141 4.71E-07 6.327390988 -0.168713875 AEIDMLDIR ddPTM_HeLa_SAHA_4h_R1 1 AEIDMLDIR 9 0 P09525;P09525-2;Q6P452 P09525 ANXA4 Annexin A4;Annexin 0 0 112.41 0.0074315 0 928.14 1319.4 1280.4 1184.6 1135.4 1431.6 1198.9 1066.8 1117.3 1108.7 FALSE FALSE TRUE 1025.766024 1362.149426 1454.886244 1207.529646 1048.405897 1309.619626 1063.996617 1039.512801 1109.524618 1156.501483 0.886956082 1.177819005 1.25800638 1.044122869 0.906532255 1.132397706 0.920013188 0.898842601 0.959380195 1 10.1755514 -1.002292048 16.51488544 0.990895358 0.000937315 0 0.127137496 0 0 0.018184542 0 0.099473627 1.002292048 -0.989958042 AEIKEMLAS(ph)DDEEDVSSK ddPTM_HeLa_SAHA_4h_R1 1 AEIKEMLASDDEEDVSSK 18 1 E7ETM8;Q0ZGT2-4 E7ETM8 NEXN Nexilin 1 0 AEIKEMLAS(0.539)DDEEDVS(0.376)S(0.085)K 79.029 0.0042123 23331000 2004 1929 2168.1 1740.3 2480.5 2437.2 2438.7 2366.9 2020.6 1882.8 TRUE FALSE FALSE 2214.789915 1991.500866 2463.557377 1773.986023 2290.444626 2229.536849 2164.291058 2306.358125 2006.53848 1963.976722 1.127706805 1.014014496 1.254371984 0.903262245 1.16622799 1.135215516 1.101994251 1.174330683 1.021671213 1 10.93956212 -13.52287875 0.253291577 0.280678699 1.121959635 0.166627694 0.089892819 56.80088988 0.753077535 20.45629285 0.047935393 3.00E-14 13.52287875 0.841280935 AEIKEMLAS(ph)DDEEDVSSKVEK ddPTM_HeLa_SAHA_4h_R1 1 AEIKEMLASDDEEDVSSKVEK 21 2 E7ETM8;Q0ZGT2-4 E7ETM8 NEXN Nexilin 1 0 AEIKEMLAS(0.999)DDEEDVS(0.001)SKVEK 68.625 0.0028939 10593000 1603.5 1193.7 1577.2 1395.6 1395.2 1273.2 1625.4 1162.9 808.07 951.21 TRUE FALSE FALSE 1772.163487 1232.376663 1792.132602 1422.613856 1288.300077 1164.716197 1442.505714 1133.154702 802.4465751 992.2213182 1.786056653 1.242038082 1.80618232 1.433766671 1.298399917 1.173847181 1.453814474 1.142038254 0.808737487 1 9.954518144 -4.25091823 22.2637868 1.388789994 1.142037622 0.006257555 0.300302138 854.6060719 1808250.868 0.043115729 0.733789333 5.61E-05 4.25091823 -0.246752372 AEISFEDRK ddPTM_HeLa_SAHA_4h_R1 2 AEISFEDRK 9 1 P21333-2;P21333;Q60FE5;H0Y5C6 P21333-2 FLNA Filamin-A 0 0 ; ; 106.68 0.01492 56140900 3480.5 3249.7 2673.38 3482.4 3627.9 3928.5 3459.5 3041.54 4039.5 3184.2 FALSE FALSE TRUE 3846.594959 3354.992412 3037.694304 3549.806888 3349.931086 3593.769699 3070.227955 2963.741811 4011.388791 3321.486445 1.158094432 1.010087642 0.914558694 1.068740441 1.008563829 1.081976325 0.924353601 0.892293815 1.207708915 1 11.69761331 -2.717514902 0.542041074 1.062225867 4.69E-13 0.334485744 0.080463926 15.42676949 0.844271159 0.015213646 15.10998207 0.001916395 2.717514902 -1.062225867 AEISS(ph)IRENK ddPTM_HeLa_SAHA_4h_R1 1 AEISSIRENK 10 1 Q9P0K7-3;Q9P0K7;Q9P0K7-2;Q9P0K7-4 Q9P0K7-3 RAI14 Ankycorbin 1 0 AEIS(0.049)S(0.951)IRENK 113.67 0.0063345 0 1258.2 1566.3 1331.6 2241.2 2134.9 2168.7 1824 2068.8 2237.6 1658.5 TRUE FALSE FALSE 1390.543249 1617.049148 1513.063513 2284.581667 1971.324423 1983.914559 1618.758719 2015.883092 2222.028359 1730.006052 0.803779413 0.93470722 0.874600128 1.320562818 1.1394899 1.14676741 0.935695409 1.165246266 1.284404963 1 10.75656137 -6.292243163 24.97681221 0.905242231 1.130291036 0.134738708 0.155078701 422.3298575 342439.3351 0.017187149 0.026255625 5.10E-07 6.292243163 0.225048805 AEITFDDHK ddPTM_HeLa_SAHA_4h_R1 4 AEITFDDHK 9 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7 O75369-8 FLNB Filamin-B 0 0 ;;; ;;; 176.33 1.79E-05 35594000 14585.7 15189 12171.1 15622.7 14793.6 16101.1 17042.3 14146.3 16921.1 14114.7 FALSE FALSE TRUE 16119.89085 15681.13357 13829.71412 15925.09995 13660.11756 14729.1957 15124.65555 13784.45813 16803.34469 14723.25379 1.094859266 1.065058973 0.939310992 1.081629114 0.927792033 1.000403573 1.027263115 0.936237215 1.141279294 1 13.84580892 -6.783997123 24.95822247 1.047566097 0.989772526 0.33049744 0.057269123 267.5481614 296018.1586 0.008574444 0.011273412 1.64E-07 6.783997123 -0.057793571 AEKDEPGAWEETFK ddPTM_HeLa_SAHA_4h_R1 2 AEKDEPGAWEETFK 14 1 Q14697;Q14697-2;F5H6X6;E9PKU7 Q14697 GANAB Neutral alpha-glucosidase AB 0 0 ; ; 194.23 1.06E-08 19096800 6984.2 6702.3 6155.8 7218.2 7185.9 9481.8 7051.1 8403.9 8627 7252.1 FALSE FALSE TRUE 7718.830201 6919.458918 6994.680366 7357.918699 6635.317894 8673.897297 6257.691671 8188.940407 8566.964005 7564.773522 1.020365009 0.914694789 0.924638437 0.972655517 0.877133714 1.146616917 0.827214675 1.082509659 1.132481228 1 12.88508118 -7.294669073 24.24796601 1.009616813 0.960948077 0.104273874 0.096466627 904.3614882 659917.4106 0.013360751 0.01527928 5.07E-08 7.294669073 -0.048668737 AELDDTPMR ddPTM_HeLa_SAHA_4h_R1 2 AELDDTPMR 9 0 P23246;P23246-2 P23246 SFPQ "Splicing factor, proline- and glutamine-rich" 0 0 ; ; 141.52 0.0055996 14540700 3109.2 3333.1 3346.5 3503.6 3484.2 4010.9 3630.8 3701.5 3635.3 3429.7 FALSE FALSE TRUE 3436.239922 3441.094627 3802.543592 3571.417244 3217.241349 3669.148755 3222.252828 3606.82099 3610.001651 3577.571152 0.960495201 0.961852184 1.062884128 0.998279864 0.899280884 1.025597703 0.900681689 1.008175893 1.009064949 1 11.80476474 AELEEMEEVHPS(ph)DEEEEDATKAEGFYQK ddPTM_HeLa_SAHA_4h_R1 2 AELEEMEEVHPSDEEEEDATKAEGFYQK 28 1 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 AELEEMEEVHPS(1)DEEEEDATKAEGFYQK;AELEEMEEVHPS(0.999)DEEEEDAT(0.001)KAEGFY(0.001)QK ; 95.209 7.69E-07 10852600 1854.19 2722.31 2221.49 2608.76 3346.14 3913.6 3353.4 3031.08 3607.5 2949.49 TRUE FALSE FALSE 2049.222212 2810.51463 2524.223088 2659.256322 3089.759476 3580.139263 2976.066606 2953.549363 3582.395114 3076.656948 0.666054827 0.913496265 0.820443465 0.864333062 1.00425869 1.163645906 0.967305311 0.959986574 1.164379121 1 11.58714787 -5.753315494 4.211570066 0.843361031 1.032735706 0.059574281 0.138328801 0.197935754 8.083025871 0.019656631 0.038834761 1.76E-06 5.753315494 0.189374675 AELELELGR ddPTM_HeLa_SAHA_4h_R1 2 AELELELGR 9 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 145.16 0.0038973 7669300 3718.6 4071.9 3462.1 3724 3933.1 4711.8 3541.1 4201.4 4392.8 4021.2 FALSE FALSE TRUE 4109.73941 4203.832232 3933.896958 3796.083405 3631.746728 4310.328132 3142.646108 4093.934272 4362.230147 4194.573611 0.97977525 1.002207285 0.937853838 0.904998638 0.865820239 1.027596254 0.74921706 0.976007254 1.039969864 1 12.03430845 -6.549027869 2.873548423 0.991115167 0.901023349 0.307522499 0.069846074 0.240518937 4.051925289 0.009773108 0.014685085 2.82E-07 6.549027869 -0.090091818 AELGMGDSTSQS(ph)PPIKR ddPTM_HeLa_SAHA_4h_R1 1 AELGMGDSTSQSPPIKR 17 1 Q9NR19;Q9NR19-2 Q9NR19 ACSS2 "Acetyl-coenzyme A synthetase, cytoplasmic" 1 0 AELGMGDST(0.004)S(0.01)QS(0.985)PPIKR 98.292 0.0017118 18801000 1774.9 1653.7 1589 1913.1 2167.5 2190.3 2169.3 2042.9 1876.3 1930.1 TRUE FALSE FALSE 1961.592126 1707.280965 1805.540645 1950.130817 2001.426618 2003.674118 1925.204655 1990.645576 1863.242676 2013.316057 0.974309085 0.847994511 0.896799407 0.968616333 0.994094599 0.995210916 0.956235683 0.988739731 0.925459602 1 10.97535795 -7.506783207 14.865426 0.98867138 0.949156163 0 0.048202867 2.238316772 2067.209621 0.00844011 0.009082439 3.11E-08 7.506783207 -0.039515217 AELNEFLTR ddPTM_HeLa_SAHA_4h_R1 3 AELNEFLTR 9 0 E9PPU1;P23396;F2Z2S8;H0YCJ7;E9PL09;P23396-2;E9PQ96;E9PJH4;E9PK82;E9PQX2;H0YF32;H0YEU2;H0YES8 E9PPU1 RPS3 40S ribosomal protein S3 0 0 ;; ;; 183.43 1.40E-05 54083000 6004.3 5587 4480.41 5321.6 5937.1 5508.1 6056.5 5366.7 4963 4850.7 FALSE FALSE TRUE 6635.859823 5768.022466 5090.976942 5424.607263 5482.200681 5038.778892 5375.00668 5229.427585 4928.462079 5059.837416 1.311476887 1.139962017 1.006154254 1.072091219 1.083473683 0.995838103 1.062288417 1.033516921 0.97403566 1 12.30487531 -6.824297295 7.65236868 1.15092498 1.044362714 0.02199561 0.092993488 0.338570642 35.48685099 0.018986855 0.025039084 1.50E-07 6.824297295 -0.106562266 AELNPWPEYIYTR ddPTM_HeLa_SAHA_4h_R1 1 AELNPWPEYIYTR 13 0 P26639;P26639-2;D6RCA5;D6R9F8;D6RDJ6 P26639 TARS "Threonine--tRNA ligase, cytoplasmic" 0 0 114.24 0.0051521 610190 147.45 163.94 59.176 186.02 144.75 248.95 209.73 112.03 265.83 200.27 FALSE FALSE TRUE 162.9594675 169.2517636 67.2401971 189.6206861 133.6592863 227.7380594 186.1306284 109.1644348 263.9800674 208.9046198 0.780066366 0.810186791 0.321870321 0.907690248 0.639810103 1.090153294 0.890983783 0.522556346 1.263639204 1 7.706700587 -8.801779788 0.82281539 0.991213668 0.752462009 0.281534059 0.221944639 0.800323598 1.054410719 0.106175854 0.041385566 1.58E-09 8.801779788 -0.238751659 AELPGSS(ph)SPLLAQPR ddPTM_HeLa_SAHA_4h_R1 2 AELPGSSSPLLAQPR 15 0 Q9C0H5;Q9C0H5-2 Q9C0H5 ARHGAP39 Rho GTPase-activating protein 39 1 0 AELPGS(0.087)S(0.456)S(0.456)PLLAQPR;AELPGS(0.052)S(0.474)S(0.474)PLLAQPR ; 165.78 3.85E-06 18857400 2250.77 2943.3 2459.6 2120.05 2645.3 2622 2778.4 2571.8 2912.3 2630.2 TRUE FALSE FALSE 2487.516316 3038.664851 2794.781479 2161.086633 2442.617685 2398.590849 2465.76712 2506.01708 2892.033067 2743.600794 0.906661174 1.107546279 1.018654567 0.78768261 0.890296318 0.874249218 0.898733928 0.913404416 1.054101265 1 11.42185486 -6.277400976 24.99359273 0.972864771 0.87535438 0.502439706 0.06469904 714.3991435 1118645.835 0.010345372 0.015835764 5.28E-07 6.277400976 -0.097510391 AEMELSDLIRK ddPTM_HeLa_SAHA_4h_R1 2 AEMELSDLIRK 11 1 B4DFN3;Q13563-5;Q13563-3;Q13563 B4DFN3 PKD2 Polycystin-2 0 0 ; ; 141.39 0.00032638 12648800 1144.35 1399.83 2526.47 3785.23 2759.23 4500.8 2041.35 1657.53 2550.27 3464.44 FALSE FALSE TRUE 1264.717983 1445.18541 2870.764174 3858.4986 2547.818394 4117.306519 1811.651925 1615.132783 2532.522463 3613.808963 0.349968135 0.399906422 0.794387364 1.067709622 0.705022988 1.139326002 0.501313695 0.446933637 0.700790354 1 11.81930453 -9.694078483 1.593127084 0.99895955 0.637302694 0.00300105 0.272013344 0.546133038 2.510301788 0.203763172 0.045689571 2.02E-10 9.694078483 -0.361656855 AEMEVLLASK ddPTM_HeLa_SAHA_4h_R1 1 AEMEVLLASK 10 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 117.7 0.00066624 0 179.67 0 312.61 134.23 117.38 0 206.94 0 0 136.7 FALSE FALSE TRUE 198.568515 0 355.2108628 136.8282157 108.3863698 0 183.6545666 0 0 142.593806 1.392546567 0 2.49106797 0.959566335 0.760105735 0 1.28795613 0 0 1 7.155767505 -5.722885427 3.457766553 1.188957614 0.505635886 0.049553286 0.759853122 0.288163704 7.117897142 0.089981501 0.183623294 1.89E-06 5.722885427 -0.683321727 AENGERS(ph)DLEEDNER ddPTM_HeLa_SAHA_4h_R1 3 AENGERSDLEEDNER 15 1 Q8WU90 Q8WU90 ZC3H15 Zinc finger CCCH domain-containing protein 15 1 0 AENGERS(1)DLEEDNER;AENGERS(1)DLEEDNER;AENGERS(1)DLEEDNER ;; 125.67 0.00030947 40810300 2489 3492.26 2461.08 2718.48 3027.26 3538.37 3352.5 3354.21 4567.4 3086.36 TRUE FALSE FALSE 2750.80444 3605.411515 2796.463166 2771.100111 2795.311993 3236.88097 2975.267877 3268.414165 4535.615092 3219.428084 0.854438853 1.119891925 0.868621101 0.860742976 0.86826353 1.005421114 0.924160379 1.015215771 1.408826342 1 11.65258871 -1.868476188 1.261373543 0.932916522 40.45764114 0 0.170626116 1713.9399 7.132619549 0.012611676 195032.4411 0.013537043 1.868476188 39.52472462 AENNS(ph)EVGASGYGVPGPTWDR ddPTM_HeLa_SAHA_4h_R1 2 AENNSEVGASGYGVPGPTWDR 21 0 Q08211 Q08211 DHX9 ATP-dependent RNA helicase A 1 0 AENNS(0.994)EVGAS(0.006)GYGVPGPTWDR;AENNS(0.598)EVGAS(0.401)GYGVPGPT(0.001)WDR ; 255.63 2.54E-53 17795500 1266.49 1333.03 1247.49 1180.78 1223.05 1815.28 1168.24 1144.9 1016.37 1317.39 TRUE FALSE FALSE 1399.705229 1376.221047 1417.491441 1203.635704 1129.340173 1660.607932 1036.786561 1115.615116 1009.296998 1374.18913 1.018568113 1.001478629 1.031511172 0.875887953 0.821822956 1.208427497 0.754471519 0.811835206 0.734467313 1 10.42436486 -6.262262369 24.92809405 1.009878957 0.900114298 0 0.143993641 93.1833039 2822508.217 0.0167405 0.026536928 5.47E-07 6.262262369 -0.109764659 AENNSEVGASGYGVPGPTWDR ddPTM_HeLa_SAHA_4h_R1 2 AENNSEVGASGYGVPGPTWDR 21 0 Q08211 Q08211 DHX9 ATP-dependent RNA helicase A 0 0 ; ; 220.78 3.96E-40 4801500 876.72 1063.81 853.9 790.52 925.38 1032.09 1013.93 1053.96 1015.34 936.12 FALSE FALSE TRUE 968.9374321 1098.278142 970.2650451 805.8216577 854.4775843 944.1501256 899.8399279 1027.001229 1008.274166 976.4807145 0.992275032 1.124731012 0.993634621 0.825230489 0.875058331 0.966890704 0.921513261 1.05173734 1.032559221 1 9.931447741 -6.496172836 24.9248654 1.008416889 0.925180883 0.343623838 0.066869485 740.7695798 691367.3549 0.010246198 0.015620324 3.19E-07 6.496172836 -0.083236006 AENSAALGKPTAGTTDAGEAAK(ac)ILAEK ddPTM_HeLa_SAHA_4h_R1 2 AENSAALGKPTAGTTDAGEAAKILAEK 27 2 Q96T17-2;Q96T17;Q96T17-5;Q96T17-4 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 0 1 ; AENSAALGKPTAGTTDAGEAAK(1)ILAEK;AENSAALGKPTAGTTDAGEAAK(1)ILAEK 116.6 1.77E-10 21170800 784.33 835.38 803.96 730.71 1010.7 1059.8 1229.56 969.65 946.53 776.916 FALSE TRUE FALSE 866.829428 862.4468601 913.519482 744.8539487 933.2603844 969.4990777 1091.206673 944.847757 939.9430207 810.4126509 1.069614877 1.064207054 1.127227569 0.919104542 1.151586643 1.19630299 1.346482772 1.165884758 1.159832611 1 9.662512885 -5.410903509 2.802923914 1.037017932 1.250675618 0.496907584 0.078430001 0.119208547 1.799770948 0.009463769 0.023452635 3.88E-06 5.410903509 0.213657686 AENSAALGKPTAGTTDAGEAAK(ac)ILAEKR ddPTM_HeLa_SAHA_4h_R1 1 AENSAALGKPTAGTTDAGEAAKILAEKR 28 3 Q96T17-2;Q96T17;Q96T17-5;Q96T17-4 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 0 1 AENSAALGKPTAGTTDAGEAAK(0.968)ILAEK(0.032)R 106.06 6.48E-09 2381700 524.77 635.87 557.68 794.11 646.16 568.63 638.5 848.67 344.27 557.61 FALSE TRUE FALSE 579.9677163 656.4726052 633.6777261 809.4811474 596.6513604 520.179525 566.6542996 826.9622503 341.874197 581.651296 0.997105517 1.128636023 1.089446083 1.391694909 1.025788758 0.894315079 0.974216517 1.421749175 0.587764868 1 9.184010696 -7.263244908 22.89477773 0.998633154 1.121269273 0.18870461 0.203850774 82.09285499 1040967.581 0.026257736 0.030866342 5.45E-08 7.263244908 0.122636119 AENYDIPSADR ddPTM_HeLa_SAHA_4h_R1 2 AENYDIPSADR 11 0 P22314-2;P22314;Q5JRR6 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 ; ; 240 4.10E-30 36132000 7742.6 7423.9 6357 7706.6 7883.3 8626.5 8541.9 7967.8 8581.4 7377.1 FALSE FALSE TRUE 8557.002192 7664.439231 7223.298854 7855.772387 7279.283257 7891.473669 7580.742931 7763.995213 8521.681339 7695.162884 1.111997539 0.996007407 0.938680436 1.020871488 0.945955708 1.025510933 0.985130925 1.008944883 1.107407532 1 12.90973615 -7.033750873 23.69366725 1.052946411 0.986976668 0.457058593 0.040486263 303.9978382 213410.976 0.007838698 0.009604573 9.25E-08 7.033750873 -0.065969743 AEPAK(ac)IEAFR ddPTM_HeLa_SAHA_4h_R1 2 AEPAKIEAFR 10 1 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 0 1 ; AEPAK(1)IEAFR;AEPAK(1)IEAFR 130.94 0.00087218 11024000 2025.34 4352.7 3042.7 2679.54 4307.1 3883.1 4533.3 3515.3 2705.7 1734.67 FALSE TRUE FALSE 2238.374554 4493.730336 3457.34331 2731.406371 3977.090929 3552.238034 4023.201153 3425.383716 2686.870813 1809.460113 1.237040009 2.483464711 1.910704351 1.509514552 2.197943409 1.963148018 2.223426272 1.893041848 1.48490193 1 10.82134359 -7.396509473 5.905481157 1.103369553 2.01185946 0.627981303 0.272221498 0.082637493 3.638481725 0.042275584 0.048079463 4.01E-08 7.396509473 0.908489907 AEPEAGEEQAGDDRDS(ph)GGPVLQFDYEAVANR ddPTM_HeLa_SAHA_4h_R1 2 AEPEAGEEQAGDDRDSGGPVLQFDYEAVANR 31 1 P56182 P56182 RRP1 Ribosomal RNA processing protein 1 homolog A 1 0 AEPEAGEEQAGDDRDS(0.999)GGPVLQFDY(0.001)EAVANR;AEPEAGEEQAGDDRDS(1)GGPVLQFDYEAVANR ; 89.684 1.25E-07 7624600 203.34 499.48 167.53 260.473 275.2 538.23 362.22 483.28 427.97 379.62 TRUE FALSE FALSE 224.7282342 515.6634797 190.3601159 265.5148316 254.1142355 492.369776 321.4620523 470.9183974 424.9917219 395.987276 0.567513776 1.302222346 0.48072281 0.670513543 0.641723234 1.243397972 0.811798943 1.189226084 1.073245904 1 8.629310264 -5.267091285 24.99365908 0.787581779 1.054506794 0.165194073 0.261129999 588.3905825 2601965.268 0.036681267 0.084175638 5.41E-06 5.267091285 0.266925015 AEPSEVDMNS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 AEPSEVDMNSPK 12 0 Q9NR30 Q9NR30 DDX21 Nucleolar RNA helicase 2 1 0 AEPSEVDMNS(1)PK;AEPS(0.02)EVDMNS(0.98)PK;AEPS(0.001)EVDMNS(0.999)PK;AEPS(0.001)EVDMNS(0.999)PK ;;; 192.4 4.40E-07 137658600 14305.8 12096.1 10605 12144.8 13242.2 14635.9 13855.5 14056.9 13080.5 12037.1 TRUE FALSE FALSE 15810.54968 12488.02158 12050.19417 12379.88017 12227.5855 13388.83898 12296.44267 13697.34485 12989.47174 12556.07829 1.259194895 0.99457978 0.959710022 0.985967105 0.973837946 1.066323311 0.979321918 1.090893553 1.034516625 1 13.61609831 AEPVPGGQTS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 AEPVPGGQTSSPR 13 0 O15018-2;O15018 O15018-2 PDZD2 PDZ domain-containing protein 2;Processed PDZ domain-containing protein 2 1 0 AEPVPGGQT(0.009)S(0.763)S(0.228)PR 131.08 0.00070108 6765300 868.8 1169.5 1104.7 1056.6 1072 1436.4 1224.9 1332.9 1512.6 1129.3 TRUE FALSE FALSE 960.1843702 1207.392567 1255.242763 1077.052021 989.8635916 1314.010639 1087.071028 1298.806348 1502.073693 1177.98965 0.81510425 1.024960251 1.065580469 0.914313654 0.840299057 1.115468747 0.922818828 1.102561766 1.275116207 1 10.20211115 -1 0.487423921 0.926327045 5.393421688 0 0.143984669 125.9579158 1.248280466 0.020987754 576.2611064 0.1 1 4.467094643 AEPVPGGQTSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 AEPVPGGQTSSPR 13 0 O15018-2;O15018 O15018-2 PDZD2 PDZ domain-containing protein 2;Processed PDZ domain-containing protein 2 1 0 AEPVPGGQT(0.075)S(0.33)S(0.595)PR 97.273 0.0031813 0 759.7 626.89 421.19 509.68 675.57 834.46 683.34 788.93 736.1 487.63 TRUE FALSE FALSE 839.6087316 647.2016473 478.5875797 519.5455934 623.8079725 763.3593135 606.4487847 768.750313 730.9774202 508.6541157 1.650647671 1.272380636 0.940890017 1.021412346 1.226389315 1.500743413 1.192261629 1.511341969 1.437081501 1 8.990541148 -4.248795733 22.49379657 1.268928434 1.511342604 0.109082566 0.21831593 1192.228166 2120880.38 0.038660675 0.811142367 5.64E-05 4.248795733 0.242414169 AEPYVAS(ph)EYK ddPTM_HeLa_SAHA_4h_R1 1 AEPYVASEYK 10 0 A0A0A0MT38;Q6ZSL5;A0A088AWN3;A0A0A0MSY4;Q9BZ29-6;Q9BZ29-3;Q9BZ29-5;Q9BZ29;Q9BZ29-4 A0A0A0MT38 DOCK9 Dedicator of cytokinesis protein 9 1 0 AEPYVAS(1)EYK 136.96 0.0012746 5425500 868.72 1562.5 1048.1 1414.1 1666.9 1472.6 1418.9 1598.4 1555 1479.9 TRUE FALSE FALSE 960.0959554 1613.126025 1190.92961 1441.47195 1539.182482 1347.126195 1259.241638 1557.515242 1544.178628 1543.705731 0.62194234 1.044969901 0.771474502 0.933773789 0.997069876 0.872657378 0.815726477 1.008945689 1.000306339 1 10.59218205 -6.237847153 23.6687986 0.833846934 0.92055409 0 0.13259253 966.7257905 969861.8814 0.023960194 0.039713059 5.78E-07 6.237847153 0.086707156 AEQGS(ph)EEEGEGEEEEEEGGESK ddPTM_HeLa_SAHA_4h_R1 4 AEQGSEEEGEGEEEEEEGGESK 22 0 Q8NE71;Q5STZ8 Q8NE71 ABCF1 ATP-binding cassette sub-family F member 1 1 0 AEQGS(1)EEEGEGEEEEEEGGESK;AEQGS(1)EEEGEGEEEEEEGGESK;AEQGS(1)EEEGEGEEEEEEGGESK;AEQGS(1)EEEGEGEEEEEEGGESK ;;; 189.12 3.16E-15 20196600 5572.1 6701.9 3898.02 6102 5961.38 7840.6 6621 6391.12 9570.7 6292.8 TRUE FALSE FALSE 6158.199044 6919.045957 4429.221866 6220.113034 5504.620352 7172.53677 5875.987654 6227.644405 9504.096719 6564.113404 0.938161586 1.054071667 0.674763154 0.94759378 0.838593122 1.092689344 0.895168516 0.948741135 1.447887344 1 12.68038445 -8.368383613 0.750738737 0.993657819 0.919217404 0.102319988 0.180142406 1.272183796 1.520691044 0.044589061 0.024006233 4.28E-09 8.368383613 -0.074440415 AEQGS(ph)EEEGEGEEEEEEGGESKADDPYAHLSK ddPTM_HeLa_SAHA_4h_R1 2 AEQGSEEEGEGEEEEEEGGESKADDPYAHLSK 32 1 Q8NE71;Q5STZ8 Q8NE71 ABCF1 ATP-binding cassette sub-family F member 1 1 0 AEQGS(0.997)EEEGEGEEEEEEGGES(0.002)KADDPYAHLSK;AEQGS(0.948)EEEGEGEEEEEEGGES(0.052)KADDPY(0.001)AHLSK ; 80.87 6.41E-07 18088900 1452.74 1858.19 559.17 1635.87 2846.09 3835.6 1834.17 2727.63 1778.58 1929.9 TRUE FALSE FALSE 1605.545859 1918.396575 635.3707756 1667.534629 2628.023199 3508.785302 1627.784364 2657.861174 1766.202717 2013.107434 0.797546038 0.952952904 0.315616924 0.828338618 1.30545601 1.742969721 0.808592893 1.32027786 0.877351446 1 10.97520845 -5.760625754 24.98245731 0.852398398 1.291675215 0.431280715 0.276095168 18.0398019 553880.7365 0.040753288 0.077849672 1.74E-06 5.760625754 0.439276817 AEQLVLSGADS(ph)DEDTSR ddPTM_HeLa_SAHA_4h_R1 2 AEQLVLSGADSDEDTSR 17 0 H7C1N2;J3KR05;O75128-2 H7C1N2 COBL Protein cordon-bleu 1 0 AEQLVLS(0.001)GADS(0.999)DEDTSR;AEQLVLSGADS(0.972)DEDT(0.014)S(0.014)R ; 162.81 4.15E-06 4928400 1254.58 1323.2 1033.8 1279.75 1543.97 1723.31 1588.7 1319.59 1463.74 1455.38 TRUE FALSE FALSE 1386.542481 1366.072548 1174.68088 1304.521412 1425.671352 1576.474293 1409.935295 1285.836799 1453.553714 1518.128554 0.913323497 0.899839835 0.773769044 0.859295748 0.93909791 1.038432673 0.928732478 0.846988086 0.957464182 1 10.56807825 -8.778101438 0.875509107 0.99498104 0.902080473 0.176830969 0.06601139 0.664299253 1.003268385 0.034428346 0.014440298 1.67E-09 8.778101438 -0.092900567 AEQLVLSGADSDEDT(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 AEQLVLSGADSDEDTSR 17 0 H7C1N2;J3KR05;O75128-2 H7C1N2 COBL Protein cordon-bleu 1 0 AEQLVLS(0.002)GADS(0.283)DEDT(0.705)S(0.011)R 201.9 3.19E-15 4485700 776.87 1136.7 878.06 1048.3 1150.8 1287.2 1039.8 1064.9 1261.2 1177.1 TRUE FALSE FALSE 858.584751 1173.529826 997.7174441 1068.591362 1062.625953 1177.523318 922.7989674 1037.6614 1252.423207 1227.850542 0.699258356 0.955759505 0.812572386 0.870294328 0.865435911 0.959011931 0.751556428 0.845103997 1.020012749 1 10.26191925 -9.665003623 1.525448296 0.999706073 0.826080452 0.396380919 0.078149083 0.350608115 1.47225123 0.060781007 0.013735529 2.16E-10 9.665003623 -0.173625621 AEQPS(ph)PPNS(ph)DSGQDAHPDPDANPDAAR ddPTM_HeLa_SAHA_4h_R1 1 AEQPSPPNSDSGQDAHPDPDANPDAAR 27 0 Q9BUA3 Q9BUA3 C11orf84 Uncharacterized protein C11orf84 2 0 AEQPS(0.884)PPNS(0.648)DS(0.468)GQDAHPDPDANPDAAR 81.06 0.00010195 9264200 689.82 740.54 567.02 458.37 760.5 846.5 792.4 838.83 696.51 643.93 TRUE FALSE FALSE 762.3784326 764.5339819 644.2905327 467.2424142 702.2306543 774.3734377 703.2370665 817.3739432 691.6629302 671.6929736 1.135010284 1.138219413 0.959203919 0.695619029 1.045463749 1.152868153 1.046962071 1.216886249 1.029730781 1 9.391658127 -2.97882152 0.005283239 0.367636182 1.77280984 0.01100874 0.136925237 266363.4351 158.7646056 20011.08318 22269.2739 0.001049974 2.97882152 1.405173658 AES(ph)GPDLR ddPTM_HeLa_SAHA_4h_R1 1 AESGPDLR 8 0 P15924-2;P15924-3;P15924 P15924-2 DSP Desmoplakin 1 0 AES(1)GPDLR 89.886 0.018045 14106000 4311.8 3372.1 3295.2 4776.6 4680.3 4679.4 4523.9 6426.3 5352.1 4627 TRUE FALSE FALSE 4765.334907 3481.358253 3744.252695 4869.058 4321.696425 4280.688794 4014.858866 6261.924551 5314.8543 4826.492614 0.987328747 0.721301892 0.775770937 1.008819113 0.895411383 0.88691502 0.831837773 1.297406844 1.101183556 1 12.23675946 -3.262348364 16.51298013 0.955380663 0.934303213 0 0.159595381 0 0 0.019475922 0 0.000546577 3.262348364 -0.02107745 AES(ph)PAEKVPEESVLPLVQK ddPTM_HeLa_SAHA_4h_R1 2 AESPAEKVPEESVLPLVQK 19 1 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 AES(0.994)PAEKVPEES(0.006)VLPLVQK;AES(0.986)PAEKVPEES(0.014)VLPLVQK ; 121.14 0.00019923 57914000 4713.3 6266.7 4386 5728.3 6504.8 7554.7 6307.1 4878.5 8596.2 6768.9 TRUE FALSE FALSE 5209.066519 6469.745192 4983.701239 5839.17953 6006.403629 6910.997058 5597.408509 4753.715034 8536.378344 7060.740405 0.737750749 0.916298408 0.705832668 0.826992524 0.850676173 0.978792118 0.792750928 0.673260134 1.208991955 1 12.78560376 -9.459346343 1.139278169 1.002242921 0.809480881 0.475004627 0.11157491 0.418327284 0.952900058 0.064993049 0.015325155 3.47E-10 9.459346343 -0.19276204 AES(ph)PDLR ddPTM_HeLa_SAHA_4h_R1 2 AESPDLR 7 0 Q6UN15-5;Q6UN15;A0A0B4J203;Q6UN15-4 Q6UN15-5 FIP1L1 Pre-mRNA 3-end-processing factor FIP1 1 0 AES(1)PDLR;AES(1)PDLR ; 114.89 0.00567 403660000 17534.8 17457.4 15984.4 17990.4 18194.1 20737.4 17570.9 18664.8 17940 17089.5 TRUE FALSE FALSE 19379.19072 18023.03121 18162.67079 18338.63021 16800.07199 18970.45685 15593.77609 18187.38144 17815.15408 17826.31198 1.08711161 1.01103533 1.018868671 1.02873944 0.942431166 1.064182927 0.874761763 1.020254861 0.999374077 1 14.12172064 -5.919047141 1.083444763 1.039762116 0.968840522 0.115711653 0.053363128 0.567001661 1.309124782 0.008938109 0.023269975 1.20E-06 5.919047141 -0.070921593 AES(ph)PEEVACR ddPTM_HeLa_SAHA_4h_R1 2 AESPEEVACR 10 0 Q7Z6Z7-2;Q7Z6Z7-3;Q7Z6Z7 Q7Z6Z7-2 HUWE1 E3 ubiquitin-protein ligase HUWE1 1 0 AES(1)PEEVACR;AES(1)PEEVACR ; 147.62 0.0007638 120895000 2945.8 3727.1 3059.5 3411.2 3530.1 4206.7 3719.5 3611.2 3309.2 3295.7 TRUE FALSE FALSE 3255.65276 3847.860485 3476.432727 3477.228709 3259.624501 3848.265494 3300.972071 3518.830733 3286.171008 3437.793756 0.947018056 1.119281946 1.011239467 1.011471006 0.948173373 1.119399757 0.960200729 1.023572379 0.955895333 1 11.74726728 AES(ph)PESSAIESTQS(ph)TPQK ddPTM_HeLa_SAHA_4h_R1 1 AESPESSAIESTQSTPQK 18 0 Q9NTI5-2;Q9NTI5 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 2 0 AES(0.885)PES(0.112)S(0.003)AIESTQS(0.93)T(0.07)PQK 178 4.67E-08 19101000 4621.5 4375.4 2972.2 4242 4716.7 5624.3 4911.6 5384.9 5406.7 3749.8 TRUE FALSE FALSE 5107.610574 4517.165831 3377.235937 4324.110044 4355.307465 5145.077999 4358.933841 5247.162055 5369.074334 3911.472229 1.305802592 1.154850544 0.863418104 1.105494246 1.113470123 1.315381446 1.114397236 1.341480074 1.372647949 1 11.93349601 -9.661858117 1.521367773 1.00035555 1.177443247 0 0.175324548 0.566597555 2.367338403 0.099894141 0.022639627 2.18E-10 9.661858117 0.177087697 AES(ph)PESSAIESTQST(ph)PQK ddPTM_HeLa_SAHA_4h_R1 1 AESPESSAIESTQSTPQK 18 0 Q9NTI5-2;Q9NTI5 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 2 0 AES(0.687)PES(0.172)S(0.165)AIES(0.331)T(0.331)QS(0.043)T(0.27)PQK 60.33 0.021654 3691800 2419.2 2413 1705.6 2063.5 2828.8 3399.7 2676.2 2812.8 3100.7 2310.5 TRUE FALSE FALSE 2673.662556 2491.182783 1938.030286 2103.442026 2612.057955 3110.026434 2375.066933 2740.852649 3079.121976 2410.116962 1.109349711 1.033635638 0.804122918 0.872755165 1.083788877 1.290404774 0.985457125 1.137228065 1.27758197 1 11.23488745 -5.527869598 24.98876697 1.017882771 1.1332434 0.136896154 0.137727803 189.9161678 950892.8985 0.01768988 0.035478206 2.97E-06 5.527869598 0.115360629 AES(ph)PESSAIESTQSTPQK ddPTM_HeLa_SAHA_4h_R1 2 AESPESSAIESTQSTPQK 18 0 Q9NTI5-2;Q9NTI5 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 1 0 AES(0.975)PES(0.023)S(0.002)AIESTQSTPQK;AES(0.823)PES(0.159)S(0.019)AIESTQSTPQK ; 307.92 4.65E-103 87508000 2082.01 1764.44 1275.408 1427.14 1970.58 1978.81 1918.45 2472.15 1367.63 1507.71 TRUE FALSE FALSE 2301.005364 1821.609014 1449.21396 1454.764358 1819.594586 1810.204256 1702.580957 2408.915983 1358.112551 1572.714757 1.463078638 1.158257723 0.921472857 0.92500204 1.156976863 1.151006085 1.082574542 1.531692872 0.863546645 1 10.61904132 -9.840088126 1.913442323 0.99900839 1.214418482 0.152294559 0.195247915 0.627242921 4.159649353 0.16432772 0.033378039 1.45E-10 9.840088126 0.215410092 AES(ph)PSPAPPPGLR ddPTM_HeLa_SAHA_4h_R1 2 AESPSPAPPPGLR 13 0 Q9BUA3 Q9BUA3 C11orf84 Uncharacterized protein C11orf84 1 0 AES(0.771)PS(0.229)PAPPPGLR;AES(0.993)PS(0.007)PAPPPGLR ; 161.25 5.68E-05 204921000 3205.8 3304.7 3251 3229.3 3578.1 3531 3429.1 3710.6 3575 3621.9 TRUE FALSE FALSE 3543.000753 3411.774448 3694.02935 3291.807771 3303.946751 3230.138935 3043.248643 3615.688225 3550.121284 3778.057834 0.93778362 0.90304982 0.977758815 0.871296289 0.87450931 0.854973396 0.805506103 0.957022995 0.939668327 1 11.88342907 -7.243658758 0.35293765 1.00240076 0.854025347 0.344471698 0.046694114 0.666710881 0.242524378 0.030408862 0.035672397 5.71E-08 7.243658758 -0.148375413 AES(ph)PTPGMAQGMEPGAGQEGAMFVHAR ddPTM_HeLa_SAHA_4h_R1 2 AESPTPGMAQGMEPGAGQEGAMFVHAR 27 0 A0A0A0MSQ9;Q86VX9-5;Q86VX9 A0A0A0MSQ9 MON1A Vacuolar fusion protein MON1 homolog A 1 0 AES(0.928)PT(0.072)PGMAQGMEPGAGQEGAMFVHAR;AES(0.806)PT(0.194)PGMAQGMEPGAGQEGAMFVHAR ; 149.96 6.17E-10 28535000 1645.03 1511.08 1391.32 1692.2 1522.9 1839.37 1590.63 1625.09 2132.2 1505.39 TRUE FALSE FALSE 1818.061803 1560.039983 1580.921844 1724.954978 1406.215731 1682.645328 1411.648126 1583.522551 2117.361847 1570.29473 1.157783802 0.99346954 1.006767592 1.098491223 0.895510699 1.071547459 0.898970174 1.008423782 1.348384992 1 10.61681965 -6.087917373 1.072377655 1.069688128 0.971374177 0.194378712 0.11331876 0.603093744 1.36794467 0.013855546 0.032067948 8.17E-07 6.087917373 -0.098313952 AESCGS(ph)FDETESEESSK ddPTM_HeLa_SAHA_4h_R1 2 AESCGSFDETESEESSK 17 0 A8MXB7;Q9Y343-2;Q9Y343 A8MXB7 SNX24 Sorting nexin-24 1 0 AESCGS(0.995)FDET(0.005)ESEESSK;AES(0.039)CGS(0.707)FDET(0.254)ESEESSK ; 203.99 1.42E-15 11195800 1768.95 1480.43 1487.81 1506.86 1897.35 1670.2 1835.01 1385.83 1795.5 1703.51 TRUE FALSE FALSE 1955.016277 1528.396903 1690.560999 1536.027454 1751.975453 1527.889564 1628.529845 1350.382475 1783.004969 1776.956653 1.100204822 0.860120533 0.951379988 0.864414701 0.985941582 0.859835023 0.91647134 0.759941146 1.00340375 1 10.79519277 -7.256559459 24.98082697 1.047318944 0.891244442 0.534012975 0.063324891 215.7536563 1104466.3 0.010710498 0.012894906 5.54E-08 7.256559459 -0.156074502 AESGDS(ph)LGSEDRDLLYSIDAYR ddPTM_HeLa_SAHA_4h_R1 1 AESGDSLGSEDRDLLYSIDAYR 22 1 Q9NQW6;Q9NQW6-2 Q9NQW6 ANLN Actin-binding protein anillin 1 0 AES(0.098)GDS(0.668)LGS(0.233)EDRDLLYSIDAYR 63.479 0.0034727 16514000 662.66 629.21 563.07 538.36 913.93 793.06 707.39 621.16 719.04 710.22 TRUE FALSE FALSE 732.3616192 649.5968168 639.8022473 548.7807363 843.9048808 725.4868264 627.7926155 605.2716266 714.0361421 740.8410599 0.988554305 0.876836952 0.863616073 0.740753673 1.139117317 0.979274592 0.847405266 0.817006048 0.963818261 1 9.53302025 -7.275179548 18.78222796 0.994595232 0.898546069 0.138723383 0.1006273 39.96975864 54636.3411 0.017275829 0.019869395 5.31E-08 7.275179548 -0.096049162 AESPES(ph)SAIESTQSTPQK ddPTM_HeLa_SAHA_4h_R1 2 AESPESSAIESTQSTPQK 18 0 Q9NTI5-2;Q9NTI5 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 1 0 AES(0.243)PES(0.708)S(0.049)AIESTQSTPQK;AES(0.156)PES(0.688)S(0.156)AIESTQSTPQK ; 239.58 2.27E-37 96360700 10831.1 8386.2 7629.6 9435.8 9398.8 10805.3 11469 13178.2 8544.1 9110.8 TRUE FALSE FALSE 11970.36479 8657.918382 8669.322155 9618.443553 8678.665975 9884.627651 10178.47794 12841.12073 8484.640912 9503.611175 1.259559611 0.911013532 0.912213473 1.012083026 0.913196659 1.040091758 1.071011613 1.351183302 0.892780729 1 13.2142601 -4.261631769 7.367732786 1.067210219 1.354535347 0.324747784 0.121596619 0.110052555 53.88159264 0.019537509 0.156904745 5.47E-05 4.261631769 0.287325127 AESPESSAIEST(ph)QST(ph)PQK ddPTM_HeLa_SAHA_4h_R1 1 AESPESSAIESTQSTPQK 18 0 Q9NTI5-2;Q9NTI5 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 2 0 AESPESS(0.001)AIES(0.242)T(0.756)QS(0.103)T(0.897)PQK 163.9 1.78E-05 8955100 1208.1 1210.4 802.26 1110.1 1453.9 1357 1195.3 1356.6 1385 976.3 TRUE FALSE FALSE 1335.173501 1249.617754 911.5878148 1131.587591 1342.502496 1241.375966 1060.801698 1321.900136 1375.361672 1018.393071 1.311059098 1.227048563 0.89512374 1.111150128 1.318255725 1.218955628 1.04164269 1.298025462 1.350521436 1 9.992078793 -9.617427519 1.443818108 1.000527844 1.18967819 0 0.166309367 0.519800386 1.954457656 0.093624517 0.021735495 2.41E-10 9.617427519 0.189150346 AESPS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 2 AESPSPPR 8 0 P50219 P50219 MNX1 Motor neuron and pancreas homeobox protein 1 1 0 AESPS(1)PPR;AESPS(1)PPR ; 110.53 0.0062609 10792400 4668 3262.5 2672.6 5508.9 3819.1 4685.7 4318.9 4618.6 5140.5 4923 TRUE FALSE FALSE 5159.001658 3368.207141 3036.80801 5615.532726 3526.481383 4286.451999 3832.926005 4500.4629 5104.726842 5135.254623 1.004624315 0.65589876 0.591364642 1.093525665 0.686719869 0.834710704 0.746394539 0.876385541 0.994055255 1 12.3262201 -7.285695056 23.86057425 1.00218373 0.784912104 0.363619487 0.130918604 317.8890111 312709.9284 0.021154382 0.024198696 5.18E-08 7.285695056 -0.217271626 AESSQTCHSEQGDK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 AESSQTCHSEQGDKK 15 1 P46063 P46063 RECQL ATP-dependent DNA helicase Q1 0 1 ; AESSQTCHSEQGDK(1)K;AESSQTCHSEQGDK(1)K 130.47 0.00010347 873740 233.99 187.32 0 390.27 200.08 722.5 280.63 430.22 426.67 257.17 FALSE TRUE FALSE 258.6021418 193.3892909 0 397.8242402 184.7499136 660.9389353 249.0527738 419.2155954 423.7007687 268.2578573 0.964005843 0.720908207 0 1.48299194 0.688702711 2.463819484 0.928408123 1.562733706 1.57945334 1 8.067476618 AESSSGGGTVPSSAGILEQGPS(ph)PGDGSPPKPK ddPTM_HeLa_SAHA_4h_R1 1 AESSSGGGTVPSSAGILEQGPSPGDGSPPKPK 32 1 Q68EM7-7;Q68EM7-3;Q68EM7-6;Q68EM7-5;Q68EM7 Q68EM7-7 ARHGAP17 Rho GTPase-activating protein 17 1 0 AESSSGGGTVPSSAGILEQGPS(0.524)PGDGS(0.476)PPKPK 99.048 5.76E-09 48652000 1687.6 1843.8 1494.7 1975.2 2189.6 2442.6 2057.4 1770.9 2649.2 1649 TRUE FALSE FALSE 1865.109511 1903.54033 1698.389932 2013.432852 2021.833321 2234.476738 1825.895937 1725.602942 2630.764002 1720.09646 1.084305185 1.106647432 0.987380633 1.17053485 1.17541857 1.299041531 1.061507875 1.003201264 1.529428182 1 10.74827376 -6.249778495 24.6653651 1.043323294 1.148060018 0 0.173065963 657.779664 1391349.755 0.01267426 0.020900871 5.63E-07 6.249778495 0.104736723 AESSSGGGTVPSSAGILEQGPSPGDGS(ph)PPKPK ddPTM_HeLa_SAHA_4h_R1 1 AESSSGGGTVPSSAGILEQGPSPGDGSPPKPK 32 1 Q68EM7-7;Q68EM7-3;Q68EM7-6;Q68EM7-5;Q68EM7 Q68EM7-7 ARHGAP17 Rho GTPase-activating protein 17 1 0 AESSSGGGTVPSSAGILEQGPS(0.078)PGDGS(0.922)PPKPK 81.304 9.34E-07 44467000 1049 1722.4 995.82 1280.5 1364.5 1716.5 1554.5 1171 2025.9 1328.7 TRUE FALSE FALSE 1159.338633 1778.20689 1131.525164 1305.285929 1259.952305 1570.244543 1379.583569 1141.047516 2011.801597 1385.986759 0.836471651 1.282989811 0.816404021 0.941773736 0.909065181 1.132943394 0.995380049 0.823274471 1.45153017 1 10.43669776 AESSSGGGTVPSSAGILEQGPSPGDGS(ph)PPKPKDPVSAAVPAPGR ddPTM_HeLa_SAHA_4h_R1 1 AESSSGGGTVPSSAGILEQGPSPGDGSPPKPKDPVSAAVPAPGR 44 2 Q68EM7-7;Q68EM7-3;Q68EM7-6;Q68EM7-5;Q68EM7 Q68EM7-7 ARHGAP17 Rho GTPase-activating protein 17 1 0 AESSSGGGTVPSS(0.001)AGILEQGPS(0.085)PGDGS(0.912)PPKPKDPVS(0.002)AAVPAPGR 74.699 1.79E-07 6463300 719.25 394.64 506.74 496.39 611.39 854.73 570.58 597.73 508.29 379.29 TRUE FALSE FALSE 794.904015 407.4265949 575.7958882 505.9983462 564.5454303 781.9021954 506.3768367 582.4409321 504.7527685 395.6430481 2.009144401 1.029783278 1.455341857 1.278926418 1.426905977 1.976281902 1.279883064 1.47213741 1.275778182 1 8.628055597 -9.696277631 1.584547939 1.000519576 1.562748951 0.127287254 0.302648678 0.398429266 1.806313989 0.231074312 0.051309196 2.01E-10 9.696277631 0.562229375 AET(ph)PPLPIPPPPPDIQPLER ddPTM_HeLa_SAHA_4h_R1 3 AETPPLPIPPPPPDIQPLER 20 0 U3KPW8;A0A669KB72;Q8IX15;Q8IX15-3 U3KPW8 HOMEZ Homeobox and leucine zipper protein Homez 1 0 AET(1)PPLPIPPPPPDIQPLER;AET(1)PPLPIPPPPPDIQPLER;AET(1)PPLPIPPPPPDIQPLER ;; 152.37 3.91E-05 17235600 3404.77 3686.1 3175.61 3490.4 3777.2 4248 3844.2 3337.55 3987.6 3426.42 TRUE FALSE FALSE 3762.89933 3805.532059 3608.365593 3557.961739 3487.791752 3886.046501 3411.640499 3252.180304 3959.849967 3574.149735 1.05280965 1.064737725 1.009573146 0.995470812 0.975838174 1.087264606 0.954532057 0.909917196 1.107913843 1 11.80338436 -4.565020907 7.327571924 1.024894756 0.920599607 0.497445929 0.041711615 0.094611933 13.28931309 0.00475851 0.018302622 2.72E-05 4.565020907 -0.104295149 AET(ph)PTESVSEPEVATK ddPTM_HeLa_SAHA_4h_R1 2 AETPTESVSEPEVATK 16 0 M0R0Q7;P18858-2;P18858-3;P18858;B4E135 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 AET(0.992)PT(0.008)ESVSEPEVATK;AET(1)PTESVSEPEVATK ; 257.54 1.44E-46 52258000 5843.7 6489.5 4828 5994.2 7288.6 7766.7 6783.3 5698.5 7583.5 6228.5 TRUE FALSE FALSE 6458.367178 6699.764058 5485.934697 6110.226409 6730.149043 7104.933466 6020.025231 5552.740621 7530.725806 6497.041117 0.994047454 1.031202349 0.844374323 0.940462943 1.03587909 1.093564492 0.926579519 0.854656839 1.159100839 1 12.66556712 -4.526529427 24.98138601 0.993127011 0.872637471 0.258016781 0.081353995 74.96894963 513014.859 0.00862028 0.032570395 2.97E-05 4.526529427 -0.12048954 AETAAK(ac)HGEAQVK ddPTM_HeLa_SAHA_4h_R1 1 AETAAKHGEAQVK 13 1 P18669;Q8N0Y7 P18669 PGAM1;PGAM4 Phosphoglycerate mutase 1;Probable phosphoglycerate mutase 4 0 1 AETAAK(1)HGEAQVK 98.337 0.02066 967560 592.92 608.39 596.66 840.65 696.79 902.2 810.26 605.8 668.59 763.44 FALSE TRUE FALSE 655.286046 628.1022352 677.9697175 856.9219964 643.4021007 825.3274844 719.0874123 590.3045132 663.9372278 796.3556346 0.822856043 0.788720777 0.851340391 1.076054415 0.80793313 1.036380542 0.902972719 0.741257408 0.833719508 1 9.63726904 -9.496058302 1.280401426 0.99911616 0.878055894 0 0.112203122 0.642884655 1.907704668 0.066496945 0.016664172 3.19E-10 9.496058302 -0.121060266 AETNS(ph)RVSGVDGYETEGIR ddPTM_HeLa_SAHA_4h_R1 1 AETNSRVSGVDGYETEGIR 19 1 Q14566 Q14566 MCM6 DNA replication licensing factor MCM6 1 0 AET(0.022)NS(0.977)RVS(0.002)GVDGYETEGIR 86.179 0.001862 6846200 197.32 246.86 409.25 239.33 274.93 244.62 280.49 328.35 255.22 256.41 TRUE FALSE FALSE 218.0750229 254.858426 465.0204587 243.9625782 253.8649228 223.7769998 248.928527 319.9512824 253.4439032 267.4650899 0.815340136 0.952866133 1.738621137 0.912128675 0.949151618 0.83665872 0.930695393 1.196235675 0.947577507 1 8.06320679 -6.980078132 24.99998711 0.911289024 1.083774681 0.09918936 0.243300087 451.2097434 566222.3598 0.040302191 0.052964047 1.05E-07 6.980078132 0.172485657 AETNSRVS(ph)GVDGYETEGIR ddPTM_HeLa_SAHA_4h_R1 1 AETNSRVSGVDGYETEGIR 19 1 Q14566 Q14566 MCM6 DNA replication licensing factor MCM6 1 0 AETNS(0.005)RVS(0.995)GVDGYETEGIR 90.581 0.0075652 0 269.29 268.68 303.59 227.44 199.47 221.47 383.92 194.86 296.33 354.49 TRUE FALSE FALSE 297.6151577 277.3854083 344.9616642 231.8424301 184.1866517 202.59951 340.7203112 189.8757634 294.2678154 369.7737987 0.804857345 0.7501489 0.932899154 0.626984472 0.498106281 0.547901205 0.921429026 0.513491664 0.795804939 1 8.530499192 -7.706729311 0.322776527 1.031391305 0.604861972 0.286817393 0.147397861 0.918484752 0.294615515 0.152069729 0.11475343 1.96E-08 7.706729311 -0.426529333 AETSEGSGSAPAVPEAS(ph)ASPK ddPTM_HeLa_SAHA_4h_R1 1 AETSEGSGSAPAVPEASASPK 21 0 I6LM39;A0A087X1U4;P51608;P51608-2;A0A087WVW7;A0A0D9SFX7;B5MCB4 I6LM39 MECP2 Methyl-CpG-binding protein 2 1 0 AETSEGSGSAPAVPEAS(0.743)AS(0.257)PK 291.28 5.09E-80 10824000 1163.4 1265.3 1319.8 757.23 1329.3 1542.4 1061.3 851.96 921.69 1344 TRUE FALSE FALSE 1285.77175 1306.29655 1499.655471 771.8872816 1227.449321 1410.978843 941.8797308 830.1680968 915.2758842 1401.946417 0.917133304 0.931773521 1.069695284 0.550582584 0.875532264 1.006442775 0.671837182 0.592153942 0.652860818 1 10.4532155 -3.008970518 0.300427317 0.980238842 2.76E-13 0.105488191 0.171405455 12.37547437 0.453121599 0.055257321 5.160071952 0.000979556 3.008970518 -0.980238842 AETSEGSGSAPAVPEASAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 AETSEGSGSAPAVPEASASPK 21 0 I6LM39;A0A087X1U4;P51608;P51608-2;A0A087WVW7;A0A0D9SFX7;B5MCB4 I6LM39 MECP2 Methyl-CpG-binding protein 2 1 0 AETSEGSGSAPAVPEAS(0.082)AS(0.918)PK;AETSEGSGSAPAVPEAS(0.005)AS(0.995)PK;AETSEGSGSAPAVPEAS(0.034)AS(0.966)PK ;; 247 1.35E-92 12984000 3059.04 3927.47 3469.15 2268.2 3500.31 3913.6 3288.64 2788.39 3570.06 4044.46 TRUE FALSE FALSE 3380.803863 4054.722605 3941.907695 2312.104291 3232.117004 3580.139263 2918.593572 2717.067021 3545.215662 4218.836464 0.801359306 0.961099734 0.934358971 0.548043118 0.766115736 0.848608211 0.691800594 0.644032317 0.840330193 1 12.04262945 -6.291815054 24.7788298 0.910725998 0.711240227 0.568286429 0.090217474 404.7587272 330179.3513 0.015909859 0.024304725 5.11E-07 6.291815054 -0.199485771 AETWS(ph)LLSDSTMDT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 AETWSLLSDSTMDTR 15 0 O75923-5;O75923-11;O75923-2;O75923-8;O75923-7;O75923-13 O75923-5 2 0 AET(0.009)WS(0.991)LLSDSTMDT(1)R 130.66 0.0062286 16911000 877.12 1286.1 743.5 1075.4 1423.1 1657.3 1221.2 1057.2 1734.7 1127.9 TRUE FALSE FALSE 969.379506 1327.770484 844.820308 1096.215922 1314.062385 1516.088716 1083.787362 1030.158355 1722.628081 1176.529289 0.82393147 1.128548602 0.718061434 0.931737044 1.116897299 1.288611113 0.921173295 0.875590914 1.464160814 1 10.20032152 -5.836145834 7.572926328 0.916566754 1.058036733 0 0.225503141 0.323072994 28.04913094 0.021978253 0.040052007 1.46E-06 5.836145834 0.141469979 AEVLGHKT(ph)PEPAPR ddPTM_HeLa_SAHA_4h_R1 2 AEVLGHKTPEPAPR 14 1 Q9UHD8;Q9UHD8-5;Q9UHD8-2;Q9UHD8-7;K7ENL0;K7ER34;K7EJ51 Q9UHD8 9-Sep Septin-9 1 0 AEVLGHKT(1)PEPAPR;AEVLGHKT(1)PEPAPR ; 55.899 0.021646 68514000 6353.7 6901.2 6685.6 7279.5 7508.5 7620.9 6463.8 6449.1 7747.7 6881.5 TRUE FALSE FALSE 7022.011318 7124.803408 7596.678751 7420.405249 6933.200352 6971.556446 5736.476212 6284.14136 7693.783125 7178.195142 0.978241909 0.992561956 1.05829928 1.03374248 0.965869583 0.971213001 0.799153004 0.875448666 1.071826967 1 12.80940543 -4.849118948 5.299990922 0.995935999 0.838039923 0.748943304 0.039337763 0.0599486 2.730797932 0.004499596 0.014236951 1.42E-05 4.849118948 -0.157896076 AEVVETTQVYTEEETRR ddPTM_HeLa_SAHA_4h_R1 1 AEVVETTQVYTEEETRR 17 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 120.32 0.0012434 5030900 832.32 1272.4 811.56 1341.7 1069.6 1574.2 1021.7 1832.8 1858.4 1184.6 FALSE FALSE TRUE 919.8672364 1313.626595 922.1551704 1367.670544 987.6474791 1440.069304 906.735627 1785.91963 1845.467243 1235.673903 0.744425559 1.063085165 0.746277127 1.106821581 0.799278415 1.165412088 0.733798476 1.445300111 1.493490506 1 10.27108235 -4.25013536 24.61127808 0.902075884 1.445300508 0.18419727 0.241777305 815.1673827 1774754.019 0.020495963 0.41914363 5.62E-05 4.25013536 0.543224624 AEVYGS(ph)ENESER ddPTM_HeLa_SAHA_4h_R1 1 AEVYGSENESER 12 0 Q9BVS4-2;Q9BVS4 Q9BVS4-2 RIOK2 Serine/threonine-protein kinase RIO2 1 0 AEVYGS(0.999)ENES(0.001)ER 147.52 0.00043643 9010300 738.3 1289 769.24 1150.3 1195.9 1348.5 1258.1 971.89 1710.5 920.83 TRUE FALSE FALSE 815.9577814 1330.764446 874.0680212 1172.56572 1104.2704 1233.600214 1116.535277 947.0304611 1698.596491 960.5314877 0.849485719 1.385445936 0.909983725 1.220746779 1.149645185 1.284289197 1.162414029 0.985944212 1.768392305 1 9.907689098 -7.289613507 24.99906837 0.928923807 1.154711044 0 0.29646554 522.18056 463332.5639 0.02190121 0.025047373 5.13E-08 7.289613507 0.225787236 AEYEGDGIPTVFVAVAGR ddPTM_HeLa_SAHA_4h_R1 1 AEYEGDGIPTVFVAVAGR 18 0 E9PBS1;P22234;P22234-2;D6RF62 E9PBS1 PAICS Multifunctional protein ADE2;Phosphoribosylaminoimidazole-succinocarboxamide synthase;Phosphoribosylaminoimidazole carboxylase 0 0 149.57 0.00052837 1812500 410.63 315.95 306.75 411.69 384.71 581.32 463.18 569.26 685.07 352.04 FALSE FALSE TRUE 453.8219474 326.1869873 348.5522925 419.6588553 355.2336029 531.7882656 411.0617674 554.6991535 680.3025421 367.2181672 1.235837407 0.888264842 0.949169523 1.142805266 0.967363912 1.448153477 1.119393875 1.510543875 1.852584112 1 8.520493624 -2.892619736 0.671354111 1.081926641 3.655143883 0.046944425 0.284261648 12.47376195 0.952087148 0.026018245 37.34072498 0.001280502 2.892619736 2.573217242 AFAAVPTSHPPEDAPAQPPTPGPAAS(ph)PEQLSFR ddPTM_HeLa_SAHA_4h_R1 3 AFAAVPTSHPPEDAPAQPPTPGPAASPEQLSFR 33 0 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;A0A0G2JPP5;Q14160-3;H0YCG0 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 AFAAVPTSHPPEDAPAQPPT(0.032)PGPAAS(0.936)PEQLS(0.032)FR;AFAAVPTSHPPEDAPAQPPT(0.001)PGPAAS(0.962)PEQLS(0.038)FR;AFAAVPTSHPPEDAPAQPPT(0.033)PGPAAS(0.908)PEQLS(0.058)FR ;; 137.38 3.11E-19 46438000 3419.44 4349.7 2914.62 4102.93 3997.13 4187.76 5180.9 3804.45 4365.2 3397.76 TRUE FALSE FALSE 3779.112388 4490.633134 3311.809235 4182.348143 3690.870763 3830.939288 4597.931497 3707.137678 4334.822218 3544.254062 1.066264529 1.267017842 0.934416432 1.180036214 1.041367435 1.080887324 1.297291734 1.045957094 1.223056288 1 11.79126631 -10.18833122 0.128277066 0.815065583 1.196742183 0 0.126143209 36.22789074 0.869919442 2.571281741 0.552318936 6.48E-11 10.18833122 0.3816766 AFAVGVQQVLLK ddPTM_HeLa_SAHA_4h_R1 2 AFAVGVQQVLLK 12 0 O95373 O95373 IPO7 Importin-7 0 0 ; ; 181.41 2.40E-13 0 396.93 379.04 415.06 631.03 661.36 618.1 423.708 404.09 363.85 425.13 FALSE FALSE TRUE 438.6809186 391.3211447 471.6222153 643.2444981 610.6867397 565.4344027 376.0312607 393.7539629 361.3179382 443.4594348 0.989224457 0.882428276 1.063507005 1.450514856 1.377097186 1.27505327 0.847949623 0.887914276 0.814771115 1 8.792658331 -6.51632448 24.70793072 0.985696666 1.176485476 0.248435955 0.188774693 344.2663622 1297798.409 0.030416545 0.043950771 3.05E-07 6.51632448 0.190788811 AFDFLSEETEASLASR ddPTM_HeLa_SAHA_4h_R1 1 AFDFLSEETEASLASR 16 0 O60271-3;O60271;A0A087X2D8;O60271-5;O60271-9;O60271-4;O60271-2 O60271-3 SPAG9 C-Jun-amino-terminal kinase-interacting protein 4 0 0 102.62 0.0066184 0 125.91 322.43 137.03 188.94 180.28 144.84 208.46 290.66 167.82 179.55 FALSE FALSE TRUE 139.1537915 332.8769436 155.7037348 192.5972069 166.4669853 132.4988172 185.0035322 283.2253381 166.652127 187.2912792 0.742980624 1.777322174 0.831345354 1.028329817 0.888813329 0.707447873 0.987785085 1.512218504 0.889801851 1 7.549139915 -4.269653437 4.856090572 0.936577079 1.539858611 0.220582127 0.287264005 0.174928077 11.97309404 0.039144072 0.350540098 5.37E-05 4.269653437 0.603281532 AFDGAGSS(ph)LGR ddPTM_HeLa_SAHA_4h_R1 2 AFDGAGSSLGR 11 0 Q8WUF5 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 AFDGAGS(0.111)S(0.889)LGR;AFDGAGS(0.128)S(0.872)LGR ; 117.25 0.00054871 7773200 4225.2 4681.1 3982.5 4567.1 5686.3 5031.9 4239 4762.5 5024.8 4559.7 TRUE FALSE FALSE 4669.625922 4832.770711 4525.21436 4655.502825 5250.616922 4603.153811 3762.016564 4640.682146 4989.832008 4756.290982 0.981778857 1.0160797 0.951416635 0.978809506 1.103930971 0.967803238 0.790955931 0.97569349 1.049101501 1 12.21562126 -4.980960432 24.45869261 0.997051295 0.882338314 0.415460952 0.058495919 121.3803864 155925.6102 0.007008436 0.021020306 1.04E-05 4.980960432 -0.114712981 AFEDDDITHVEGSVDPIR ddPTM_HeLa_SAHA_4h_R1 1 AFEDDDITHVEGSVDPIR 18 0 J3KQ32;Q9NTK5;Q9NTK5-3 J3KQ32 OLA1 Obg-like ATPase 1 0 0 129.05 0.00017149 2083300 1076.6 743.9 666.27 762.59 917.73 1265.9 1007.2 874.3 1112.3 1142.8 FALSE FALSE TRUE 1189.841728 768.0028481 757.0658058 777.3510322 847.4137257 1158.038198 893.8672052 851.936672 1104.559414 1192.071701 0.99812933 0.644258938 0.635084119 0.652100903 0.710874795 0.971450121 0.749843491 0.714668985 0.926588068 1 10.2192553 -7.273220368 24.23928146 0.999116642 0.729007597 0.597074071 0.093235004 227.2467477 467557.233 0.016440567 0.018885392 5.33E-08 7.273220368 -0.270109045 AFEVMDEFDGR ddPTM_HeLa_SAHA_4h_R1 1 AFEVMDEFDGR 11 0 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1;B1AN86;A0A3B3IU26;U3KQJ2 Q9UDY2-7 TJP2 Tight junction protein ZO-2 0 0 159.34 0.0013269 2029500 686.87 726.04 584.25 660.63 715.6 850.04 597.11 679 581.09 606.83 FALSE FALSE TRUE 759.1181381 749.5641724 663.8685474 673.4174489 660.7708826 777.6118098 529.9216113 661.6321632 577.0461474 632.9934111 1.199251248 1.184157938 1.048776394 1.063861704 1.043882718 1.228467463 0.837167658 1.045243365 0.911614777 1 9.306046672 -4.75621075 24.9996799 1.100618569 0.941205549 0.224076023 0.103828978 117.6957238 562720.0643 0.013418057 0.047367559 1.75E-05 4.75621075 -0.15941302 AFFDEEEDHWK ddPTM_HeLa_SAHA_4h_R1 1 AFFDEEEDHWK 11 0 O15066-2;O15066 O15066-2 KIF3B "Kinesin-like protein KIF3B;Kinesin-like protein KIF3B, N-terminally processed" 0 0 86.014 0.005444 0 925.81 1022 958.77 1124.7 1234.2 1272.5 1358.3 935.57 1252.3 1218.6 FALSE FALSE TRUE 1023.190944 1055.113471 1089.426183 1146.470195 1139.635863 1164.075841 1205.460509 911.6394741 1243.585142 1271.13981 0.804939737 0.830053046 0.857046703 0.901922972 0.896546433 0.915773255 0.948330388 0.717182695 0.978322867 1 10.311907 -9.456438018 1.193489688 0.999937382 0.859609818 0.411106788 0.06219415 0.375585276 0.957673598 0.043106134 0.010700893 3.50E-10 9.456438018 -0.140327564 AFFSEVER ddPTM_HeLa_SAHA_4h_R1 1 AFFSEVER 8 0 Q9UQ80;Q9UQ80-2;F8VR77 Q9UQ80 PA2G4 Proliferation-associated protein 2G4 0 0 141.39 0.0045054 26833000 3374.1 3269.2 3155.1 3618.2 3584.3 3555.5 3817.2 3065.4 3020.2 3364.5 FALSE FALSE TRUE 3729.003319 3375.124225 3585.060597 3688.235493 3309.671708 3252.551397 3387.67861 2986.991507 2999.182182 3509.56006 1.062527284 0.961694391 1.021512821 1.050911063 0.943044613 0.92676898 0.965271587 0.851101407 0.85457497 1 11.77707448 -4.403544696 0.57416436 1.027211797 0.78821787 0.108796307 0.065687769 1.553644211 0.381640826 0.007572472 0.238024925 3.95E-05 4.403544696 -0.238993927 AFGPGLQGGSAGS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 8 AFGPGLQGGSAGSPAR 16 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 1 0 AFGPGLQGGSAGS(1)PAR;AFGPGLQGGSAGS(1)PAR;AFGPGLQGGSAGS(1)PAR;AFGPGLQGGSAGS(1)PAR;AFGPGLQGGS(0.001)AGS(0.999)PAR;AFGPGLQGGS(0.161)AGS(0.839)PAR;AFGPGLQGGSAGS(1)PAR;AFGPGLQGGSAGS(1)PAR ;;;;;;; 247.44 1.34E-36 1754968300 7010.84 7578.45 6563.78 7429.7 7936.62 7436.36 7539.36 7357.81 7190.31 6633.88 TRUE FALSE FALSE 7748.272318 7823.996752 7458.257756 7573.512587 7328.51789 6802.740292 6691.01137 7169.607874 7140.272047 6919.899032 1.119708869 1.130651866 1.077798639 1.094454204 1.059049829 0.983069299 0.966923266 1.036085619 1.031846276 1 12.75653527 -5.308421003 5.671437406 1.068348367 0.992477398 0.440919077 0.039986793 0.195607858 15.60740561 0.007708506 0.017747366 4.92E-06 5.308421003 -0.075870969 AFGPGLQGGSAGSPAR ddPTM_HeLa_SAHA_4h_R1 2 AFGPGLQGGSAGSPAR 16 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 221.09 4.38E-20 13972100 642.92 594.17 562.15 680.53 721.65 600.43 849.19 801.19 593.58 505.92 FALSE FALSE TRUE 710.5452754 613.4214978 638.7568744 693.7026422 666.3573329 549.2699861 753.6369063 780.6967199 589.4492285 527.7326871 1.346411342 1.162371619 1.210379592 1.314496258 1.262679666 1.040811001 1.428065619 1.479341225 1.116946596 1 9.043663535 -9.409420096 0.895176536 0.981913995 1.278423364 0.32165523 0.12469409 0.541695859 0.696899757 0.114479447 0.022824433 3.90E-10 9.409420096 0.296509369 AFGS(ph)GYRR ddPTM_HeLa_SAHA_4h_R1 2 AFGSGYRR 8 1 E7EX17;P23588-2;P23588;F8VP89;F8VX11 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 AFGS(1)GYRR;AFGS(1)GYRR ; 67.207 0.021898 10000400 2685.3 2427.5 2626.6 2797.1 2935.2 2774.6 3189.8 2856.4 2378.7 2312.32 TRUE FALSE FALSE 2967.752175 2506.152593 2984.539369 2851.241915 2710.30561 2538.188471 2830.875309 2783.337424 2362.146433 2412.015431 1.230403477 1.039028424 1.237363298 1.182099367 1.123668437 1.052310212 1.173655555 1.153946773 0.97932476 1 11.23602342 -9.52412263 1.25744576 0.999320608 1.156069854 0.500139226 0.062884989 0.336689759 0.946452598 0.045522453 0.010714096 2.99E-10 9.52412263 0.156749246 AFHNEAQVNPER ddPTM_HeLa_SAHA_4h_R1 1 AFHNEAQVNPER 12 0 P17987;E7EQR6;F5H282 P17987 TCP1 T-complex protein 1 subunit alpha 0 0 168.83 9.51E-05 3928500 2040.3 2246.4 1641 2074.6 2156.5 772.81 2455.3 2021.2 3014.9 2093.5 FALSE FALSE TRUE 2254.908115 2319.184834 1864.626934 2114.756883 1991.269436 706.9622403 2179.023182 1969.500631 2993.919065 2183.76103 1.032580069 1.062014022 0.853860339 0.968401237 0.911853178 0.323736082 0.997830418 0.901884686 1.370992075 1 11.09259927 -5.511486551 24.70425104 1.000707956 0.741981114 0.290103936 0.207472882 404.1052834 876310.7877 0.023507609 0.049858691 3.08E-06 5.511486551 -0.258726842 AFITNIPFDVK ddPTM_HeLa_SAHA_4h_R1 2 AFITNIPFDVK 11 0 A0A087X0X3;P52272-2;P52272;M0R019;M0R2T0;M0QYQ7;M0R0N3;M0R0Y6 A0A087X0X3 HNRNPM Heterogeneous nuclear ribonucleoprotein M 0 0 ; ; 152.62 1.15E-05 1869270 624 604.35 575.47 410.1 757.32 512.37 730.95 328.26 664.59 601.93 FALSE FALSE TRUE 689.635183 623.9313365 653.8920547 418.0380785 699.2943052 468.7131935 648.7015822 319.8635845 659.9650641 627.8821481 1.098351315 0.993707718 1.041424823 0.665790674 1.11373497 0.746498678 1.033158188 0.509432519 1.051097035 1 9.294349984 -3.399206515 0.445514466 1.040000109 9.53E-14 0.389069299 0.154143466 6.99180939 0.534002933 0.032042396 4.550340369 0.000398835 3.399206515 -1.040000109 AFKPEETSSNSDPPS(ph)PPVLNNSHPVPR ddPTM_HeLa_SAHA_4h_R1 2 AFKPEETSSNSDPPSPPVLNNSHPVPR 27 1 O60293-2;O60293 O60293-2 ZFC3H1 Zinc finger C3H1 domain-containing protein 1 0 AFKPEETSSNSDPPS(1)PPVLNNSHPVPR;AFKPEETSSNSDPPS(1)PPVLNNSHPVPR ; 122.38 1.65E-08 27214000 6184.9 4790.2 4392.3 6010 6382.2 6258 6046.6 6415.2 6414.1 6023.1 TRUE FALSE FALSE 6835.456159 4945.405623 4990.85977 6126.332241 5893.197215 5724.783193 5366.220654 6251.108473 6369.463756 6282.785317 1.087965896 0.78713586 0.794370573 0.975098134 0.93799118 0.91118555 0.854114916 0.994958153 1.01379618 1 12.61718857 -7.276465763 24.98474929 1.041539453 0.893743207 0.46934255 0.068254157 501.0257104 833066.4581 0.012352458 0.014154828 5.29E-08 7.276465763 -0.147796246 AFLAELEQNS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 AFLAELEQNSPK 12 0 H3BPE1;H3BQK9;H0Y390;A0A590UJG2;Q9UPN3-4;Q9UPN3-3;Q9UPN3-2;Q9UPN3;Q9UPN3-5 H3BPE1 MACF1 "Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5" 1 0 AFLAELEQNS(1)PK;AFLAELEQNS(1)PK;AFLAELEQNS(1)PK;AFLAELEQNS(1)PK ;;; 144.51 0.00051232 35026700 6535.2 7249.4 6369.8 7462.2 7805.1 8177 7793.1 7244.4 7392.7 6801.8 TRUE FALSE FALSE 7222.602321 7484.285317 7237.843172 7606.641672 7207.074924 7480.273597 6916.199878 7059.098738 7341.253599 7095.058885 1.017976374 1.054858802 1.020124468 1.072104093 1.015787894 1.054293378 0.974791047 0.994931663 1.03469946 1 12.79259894 -4.73301358 24.99962196 1.02032065 0.98486133 0.28845155 0.024242815 245.6332396 216023.6064 0.003634811 0.013594609 1.85E-05 4.73301358 -0.03545932 AFLASPEYVNLPINGNGK ddPTM_HeLa_SAHA_4h_R1 2 AFLASPEYVNLPINGNGK 18 0 P09211;A8MX94 P09211 GSTP1 Glutathione S-transferase P 0 0 ; ; 252.08 3.68E-71 63041800 3610.93 2781.17 2587.2 2957.17 2994.53 3727.49 3247.29 2736.74 4052.69 3985.67 FALSE FALSE TRUE 3990.744185 2871.281733 2939.770142 3014.410301 2765.089758 3409.886882 2881.896383 2666.738154 4024.487 4157.511739 0.959887653 0.690625045 0.707098459 0.725051543 0.66508285 0.820174926 0.693178171 0.641426488 0.968003761 1 12.02150462 -7.289360659 5.643563572 0.981920554 0.708873532 0.881404446 0.045359834 0.040269336 4.044240131 0.007705989 0.008923215 5.14E-08 7.289360659 -0.273047022 AFLASPEYVNLPINGNGKQ ddPTM_HeLa_SAHA_4h_R1 2 AFLASPEYVNLPINGNGKQ 19 1 P09211;A8MX94 P09211 GSTP1 Glutathione S-transferase P 0 0 ; ; 273.27 2.44E-88 1176310 266.55 276.25 276.53 281.35 380.23 363.709 455.24 235.15 308.09 355.84 FALSE FALSE TRUE 294.586952 285.2006813 314.2140683 286.7959361 351.0968595 332.718947 404.0151971 229.1352035 305.9459766 371.1820038 0.793645567 0.768358052 0.846522905 0.772655821 0.94588869 0.896376828 1.088455779 0.617312265 0.824247872 1 8.535982955 -9.40907407 1.158482326 0.999266342 0.845554455 0 0.128837424 0.618810227 1.496443355 0.075211053 0.019452699 3.90E-10 9.40907407 -0.153711887 AFMGT(ph)PVQK ddPTM_HeLa_SAHA_4h_R1 1 AFMGTPVQK 9 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 AFMGT(1)PVQK 119.27 0.0065862 30189000 3894.9 2650.7 2020.2 3190.9 3069.4 3274.5 2850.3 3843.5 3437.1 2817.2 TRUE FALSE FALSE 4304.583452 2736.584419 2295.502335 3252.664484 2834.223235 2995.494178 2529.576742 3745.188835 3413.180941 2938.663279 1.464810032 0.931234428 0.781138265 1.106851713 0.964460017 1.019339031 0.860791626 1.274453205 1.161473982 1 11.52094434 -7.22134612 24.97691416 1.219493707 0.982591721 0.265904878 0.164949409 571.7216346 356166.1169 0.034072469 0.041729803 6.01E-08 7.22134612 -0.236901986 AFNQGK(ac)IFK ddPTM_HeLa_SAHA_4h_R1 1 AFNQGKIFK 9 1 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 0 1 AFNQGK(1)IFK 205.57 4.59E-25 14962000 2506.6 2542.2 2813.8 2083.2 2836.4 2525.2 3369.6 2231.2 1189 2030.5 FALSE TRUE FALSE 2770.255689 2624.568948 3197.25001 2123.523348 2619.075645 2310.038754 2990.44374 2174.129135 1180.725652 2118.044792 1.307930644 1.239147046 1.509528987 1.00258661 1.236553474 1.09064679 1.411888809 1.0264793 0.55746019 1 11.04851738 -9.380488724 1.098148138 0.999668878 1.237714326 0.327107689 0.20928986 0.53348525 1.148255182 0.097283402 0.024879283 4.16E-10 9.380488724 0.238045448 AFQLEEGEET(ph)EPDCK ddPTM_HeLa_SAHA_4h_R1 5 AFQLEEGEETEPDCK 15 0 P38432 P38432 COIL Coilin 1 0 AFQLEEGEET(1)EPDCK;AFQLEEGEET(1)EPDCK;AFQLEEGEET(1)EPDCK;AFQLEEGEET(1)EPDCK;AFQLEEGEET(1)EPDCK ;;;; 218.34 1.25E-17 73306400 10709.79 14384.97 11745.32 12377.15 13250.4 15907.14 12335.11 13948.5 13762.97 13216.69 TRUE FALSE FALSE 11836.29485 14851.05247 13345.91104 12616.72764 12235.15721 14551.76218 10947.13096 13591.71757 13667.19237 13786.52619 0.858540773 1.077214975 0.968040162 0.915149144 0.88747209 1.055506078 0.794045636 0.985869637 0.991344171 1 13.75097136 -4.753355751 24.99986391 0.94663853 0.889957735 0.084407872 0.080534549 399.0642527 1234136.597 0.011390313 0.041182439 1.76E-05 4.753355751 -0.056680796 AFQLEEGEET(ph)EPDCKYSK ddPTM_HeLa_SAHA_4h_R1 2 AFQLEEGEETEPDCKYSK 18 1 P38432 P38432 COIL Coilin 1 0 AFQLEEGEET(1)EPDCKYSK;AFQLEEGEET(0.642)EPDCKY(0.065)S(0.293)K ; 104.23 0.0018152 81068000 4405.7 3644 4289.6 4049.2 3865.8 4354 3783.9 5029.5 2355.6 3801.6 TRUE FALSE FALSE 4869.11174 3762.067991 4874.164349 4127.578121 3569.603239 3983.014705 3358.125613 4900.852673 2339.207188 3965.505581 1.227866571 0.948698196 1.229140711 1.040870587 0.900163464 1.004415357 0.846834167 1.23587083 0.589888765 1 11.9532891 -6.002425037 24.95795391 1.105517925 0.984633429 0 0.205301496 136.7954257 1407900.548 0.019121261 0.034251133 9.94E-07 6.002425037 -0.120884496 AFRLHS(ph)S(ph)LIQHQR ddPTM_HeLa_SAHA_4h_R1 1 AFRLHSSLIQHQR 13 1 Q9Y2G7 Q9Y2G7 ZFP30 Zinc finger protein 30 homolog 2 0 AFRLHS(1)S(1)LIQHQR 108.06 0.015698 9569600 3224.6 1775.9 1408.8 2663.2 3513 2913 4040.4 2130.8 1672.4 3251.9 TRUE FALSE FALSE 3563.778223 1833.440325 1600.783927 2714.750087 3243.834699 2664.796012 3585.763558 2076.297221 1660.761632 3392.105323 1.050609543 0.540502181 0.471914571 0.800314208 0.956289499 0.785587639 1.057090867 0.61209692 0.489596128 1 11.72796525 -7.293613287 24.85009594 1.023898973 0.759330149 0 0.238486641 513.422616 396549.9137 0.029861096 0.034148926 5.09E-08 7.293613287 -0.264568824 AFS(ph)DPFVEAEK ddPTM_HeLa_SAHA_4h_R1 2 AFSDPFVEAEK 11 0 A0A087WYC1;P34932;A0A087WTS8;P34932-2 A0A087WYC1 HSPA4 Heat shock 70 kDa protein 4 1 0 AFS(1)DPFVEAEK;AFS(1)DPFVEAEK ; 148.13 0.00059504 9745400 4983.3 5168.3 4183.3 4643.4 5480.2 6260.9 5386.6 4341.6 6120.7 4838.3 TRUE FALSE FALSE 5507.466358 5335.756311 4753.378338 4733.279721 5060.30826 5727.436097 4780.485591 4230.548159 6078.10555 5046.902791 1.091256675 1.057233819 0.941840676 0.93785831 1.002656177 1.13484177 0.947211743 0.838246412 1.20432388 1 12.30118258 -6.77170922 24.91099518 1.045358045 0.974115148 0.261641291 0.088183421 278.1163571 674610.7785 0.012668993 0.016752992 1.69E-07 6.77170922 -0.071242897 AFS(ph)EDEALAQQENR ddPTM_HeLa_SAHA_4h_R1 1 AFSEDEALAQQENR 14 0 Q9C0H5;Q9C0H5-2 Q9C0H5 ARHGAP39 Rho GTPase-activating protein 39 1 0 AFS(1)EDEALAQQENR 112.62 0.0018329 2584300 554.67 398.66 641.1 588.64 650.09 589.62 647.48 463.66 550.88 541.59 TRUE FALSE FALSE 613.0127355 411.5768456 728.4657693 600.0339784 600.2802446 539.3810589 574.6238463 451.8002486 547.0463812 564.9405954 1.085092381 0.728531192 1.28945552 1.062118714 1.062554629 0.954757125 1.017140299 0.799730542 0.968325494 1 9.141955363 -3.574724565 1.258809279 1.036853131 3.68E-16 0.189124731 0.132294833 7.68839695 2.949377817 0.017844488 15.78707854 0.000266241 3.574724565 -1.036853131 AFS(ph)SPQEEEEAGFTGR ddPTM_HeLa_SAHA_4h_R1 2 AFSSPQEEEEAGFTGR 16 0 A0A024RAC6;Q14241 A0A024RAC6 TCEB3 Transcription elongation factor B polypeptide 3 1 0 AFS(0.903)S(0.097)PQEEEEAGFTGR;AFS(0.913)S(0.087)PQEEEEAGFTGR ; 204.17 2.68E-15 11806700 1881.41 1678.77 1321.56 1740.03 2064.03 2137.93 2203.31 2174.14 1882.81 1767.3 TRUE FALSE FALSE 2079.305336 1733.163249 1501.655314 1773.710797 1905.884467 1955.766336 1955.38776 2118.528647 1869.707372 1843.496952 1.127913628 0.940149778 0.814568916 0.962144686 1.033841941 1.060900228 1.06069487 1.149190209 1.014217772 1 10.84822932 -4.151131541 1.355888414 1.025620473 1.222744047 0.192053002 0.082422103 2.89378959 3.824793052 0.014795093 0.835219955 7.06E-05 4.151131541 0.197123574 AFSDPFVEAEK ddPTM_HeLa_SAHA_4h_R1 1 AFSDPFVEAEK 11 0 A0A087WYC1;P34932;A0A087WTS8;P34932-2 A0A087WYC1 HSPA4 Heat shock 70 kDa protein 4 0 0 156.48 0.0016771 5213700 1898.8 1937.8 1415.6 1694.5 1836.4 2303.5 1893.2 1692.3 1810.6 2003.6 FALSE FALSE TRUE 2098.524496 2000.585991 1608.510596 1727.299498 1695.695429 2107.228841 1680.172153 1649.013416 1797.999887 2089.985001 1.004085912 0.957225047 0.769627818 0.826465021 0.811343348 1.0082507 0.80391589 0.789007297 0.860293201 1 11.02927687 -6.924697415 5.616239654 1.000957846 0.840223516 0.326992152 0.076226748 0.102620754 5.681641359 0.009949984 0.01311873 1.19E-07 6.924697415 -0.16073433 AFSIGK(ac)MSTAK ddPTM_HeLa_SAHA_4h_R1 1 AFSIGKMSTAK 11 1 O15042-2;O15042;U3KPT1;C9JDJ7;C9J5L1;E7EW00;H0Y8D9;E7ET15 O15042-2 U2SURP U2 snRNP-associated SURP motif-containing protein 0 1 AFSIGK(1)MSTAK 181.68 1.58E-16 1696100 1146.7 842.44 1089.6 1989.7 2449.3 852.24 2619.7 873.4 282.87 388.36 FALSE TRUE FALSE 1267.315167 869.7356087 1238.085014 2028.213521 2261.635163 779.6243574 2324.924461 851.0596927 280.9014846 405.1041002 3.128369144 2.146943485 3.056214472 5.006647723 5.582849352 1.924503744 5.739079067 2.100841962 0.693405681 1 8.662148877 -8.552577693 0.366275322 0.545054517 4.096494251 0.426453584 1.316507147 1.289674556 0.343250668 1.865420944 0.611405002 2.80E-09 8.552577693 3.551439734 AFSVNIFK ddPTM_HeLa_SAHA_4h_R1 1 AFSVNIFK 8 0 P11279;P11279-2 P11279 LAMP1 Lysosome-associated membrane glycoprotein 1 0 0 101.6 0.014023 594100 309.15 437.9 288.51 413.46 510.39 519.52 487.89 452.89 555.52 556.2 FALSE FALSE TRUE 341.6678154 452.0882473 327.8266403 421.4631162 471.2840285 475.2539733 432.9913331 441.3057296 551.6540911 580.180504 0.588899167 0.779219991 0.565042496 0.726434469 0.812305869 0.819148472 0.746304521 0.760635227 0.950831831 1 9.180358007 -9.490429871 1.228567994 1.000326845 0.713094741 0.592684852 0.082476308 0.263029879 0.709115667 0.063505081 0.015401353 3.23E-10 9.490429871 -0.287232104 AFT(ph)NTSQLT(ph)VHQR ddPTM_HeLa_SAHA_4h_R1 1 AFTNTSQLTVHQR 13 0 Q9P2J8-2;Q9P2J8 Q9P2J8-2 ZNF624 Zinc finger protein 624 2 0 AFT(0.95)NT(0.025)S(0.025)QLT(1)VHQR 81.625 0.013494 7471600 953.52 791.6 823.17 1035.2 1092.2 1394.3 1248.1 1076.5 1090.5 1245.7 TRUE FALSE FALSE 1053.815609 817.2483594 935.3473207 1055.237793 1008.515872 1275.497796 1107.660503 1048.964689 1082.911122 1299.408223 0.810996567 0.628938885 0.719825613 0.812091053 0.776134746 0.981598987 0.85243458 0.807263391 0.833387924 1 10.34363903 -8.902438721 0.957419446 0.989644359 0.801325531 0.110744995 0.098209751 0.406485925 0.725086694 0.045677654 0.018244717 1.25E-09 8.902438721 -0.188318828 AFTTTLNLLPYHK ddPTM_HeLa_SAHA_4h_R1 2 AFTTTLNLLPYHK 13 0 O43847;O43847-2;H0Y5G9;G3V1R5 O43847 NRD1 Nardilysin 0 0 ; ; 131.17 0.0002174 3219100 3174.3 3244.3 4254.7 3905.8 4370.7 2313.35 4892.3 1381.36 1432.17 3014.3 FALSE FALSE TRUE 3508.187438 3349.417449 4834.508358 3981.402407 4035.81791 2116.239565 4341.805528 1346.026811 1422.203412 3144.261225 1.115742996 1.065247831 1.537565747 1.266244158 1.28355045 0.673048266 1.38086667 0.428090008 0.452317193 1 11.61850537 -4.246496541 24.6021784 1.108809993 0.428089402 0.288850846 0.30786727 1554.668426 2559584.865 0.030531098 0.919184616 5.67E-05 4.246496541 -0.680720591 AFVEDS(ph)EDEDGAGEGGSSLLQK ddPTM_HeLa_SAHA_4h_R1 4 AFVEDSEDEDGAGEGGSSLLQK 22 0 A0A494C108;Q8N9T8;H0YFD2;F8WFC1 A0A494C108 KRI1 Protein KRI1 homolog 1 0 AFVEDS(1)EDEDGAGEGGSSLLQK;AFVEDS(1)EDEDGAGEGGSSLLQK;AFVEDS(1)EDEDGAGEGGSSLLQK;AFVEDS(1)EDEDGAGEGGSSLLQK ;;; 190.97 2.49E-15 30273200 6601 6824.9 6359.2 6531.6 6928.1 7522.7 6565.5 8200 7711 6690.5 TRUE FALSE FALSE 7295.323466 7046.031238 7225.798659 6658.028563 6397.270475 6881.723638 5826.732661 7990.255873 7657.338523 6978.960198 1.045331003 1.009610463 1.035368945 0.954014405 0.916650947 0.986067185 0.834899827 1.144906354 1.097203352 1 12.76879639 -6.255973594 23.57264774 1.021829699 0.958179667 0.151826702 0.077218605 281.0546877 1212117.494 0.00997163 0.016223372 5.55E-07 6.255973594 -0.063650032 AFVEDS(ph)EDEDGAGEGGSSLLQKR ddPTM_HeLa_SAHA_4h_R1 4 AFVEDSEDEDGAGEGGSSLLQKR 23 1 A0A494C108;Q8N9T8;H0YFD2;F8WFC1 A0A494C108 KRI1 Protein KRI1 homolog 1 0 AFVEDS(1)EDEDGAGEGGSSLLQKR;AFVEDS(1)EDEDGAGEGGSSLLQKR;AFVEDS(1)EDEDGAGEGGSSLLQKR;AFVEDS(1)EDEDGAGEGGSSLLQKR ;;; 104.7 1.10E-05 17831800 3997.52 1897.9 3760.87 3066.59 2962.09 2888.52 3320.62 3928.23 2030.92 2949.65 TRUE FALSE FALSE 4417.997495 1959.393205 4273.381778 3125.948284 2735.135304 2642.401846 2946.975098 3827.751565 2016.786662 3076.823847 1.435895493 0.636823329 1.388893869 1.015965957 0.888947642 0.858808296 0.957797796 1.244059379 0.655476804 1 11.58722613 -6.023681283 23.84470947 1.173151177 0.973147401 0 0.281955151 677.6089183 682285.6108 0.037561837 0.062575767 9.47E-07 6.023681283 -0.200003776 AFYPEEISSMVLTK ddPTM_HeLa_SAHA_4h_R1 1 AFYPEEISSMVLTK 14 0 A0A0G2JIW1;P0DMV9;P0DMV8 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 0 0 184.87 1.51E-07 116460000 3139.9 2797.4 2483.1 3062 2833.9 3001.5 3239.9 3659.9 3716.6 2771.2 FALSE FALSE TRUE 3470.169088 2888.037595 2821.483937 3121.269438 2616.767194 2745.755314 2875.337925 3566.285057 3690.735878 2890.679994 1.200468089 0.99908589 0.97606236 1.079769966 0.90524278 0.949864848 0.994692574 1.233718386 1.276770824 1 11.49719319 AGAAAGDS(ph)DEESRADDK ddPTM_HeLa_SAHA_4h_R1 2 AGAAAGDSDEESRADDK 17 1 O95365 O95365 ZBTB7A Zinc finger and BTB domain-containing protein 7A 1 0 AGAAAGDS(1)DEESRADDK;AGAAAGDS(1)DEESRADDK ; 79.462 0.0059307 11012000 2294.37 3039.8 2401.9 2431.14 2914.6 3769.7 2891.6 2536.26 3086.8 2830.1 TRUE FALSE FALSE 2535.702364 3138.291514 2729.218423 2478.19823 2691.283978 3448.500352 2566.229558 2471.386142 3065.318707 2952.119461 0.858943006 1.063063862 0.924494574 0.839464074 0.911644672 1.168143904 0.869283778 0.837156549 1.038345076 1 11.52753539 -9.741002696 1.674763792 1.000040964 0.925494741 0.088800304 0.101266968 0.913066147 4.627299474 0.073682417 0.015927216 1.82E-10 9.741002696 -0.074546223 AGAAAGDS(ph)DEESRADDKGVMDYYLK ddPTM_HeLa_SAHA_4h_R1 1 AGAAAGDSDEESRADDKGVMDYYLK 25 2 O95365 O95365 ZBTB7A Zinc finger and BTB domain-containing protein 7A 1 0 AGAAAGDS(0.772)DEES(0.218)RADDKGVMDY(0.007)Y(0.002)LK 55.686 0.0085723 26658000 773.17 703.25 682.56 582.88 639.19 855.9 675.91 656.05 315.44 622.91 TRUE FALSE FALSE 854.495568 726.0357614 775.5757222 594.1624853 590.2154003 782.9725048 599.8548279 639.2691909 313.2448274 649.7666985 1.315080582 1.11737915 1.19362184 0.914424341 0.908349722 1.205005591 0.923184936 0.98384419 0.482088153 1 9.343777995 -6.269434234 24.53499409 1.152768924 0.99116481 0 0.237816673 517.4056559 1587837.911 0.021341902 0.032969076 5.38E-07 6.269434234 -0.161604115 AGAAAGDSDEES(ph)RADDKGVMDYYLK ddPTM_HeLa_SAHA_4h_R1 3 AGAAAGDSDEESRADDKGVMDYYLK 25 2 O95365 O95365 ZBTB7A Zinc finger and BTB domain-containing protein 7A 1 0 AGAAAGDS(0.05)DEES(0.867)RADDKGVMDY(0.063)Y(0.02)LK;AGAAAGDS(0.039)DEES(0.961)RADDKGVMDYYLK;AGAAAGDS(0.072)DEES(0.665)RADDKGVMDY(0.212)Y(0.05)LK ;; 76.492 7.47E-05 106836000 6304.7 5921.4 5543.8 4653.2 6088.5 5830.9 6689.8 5709.2 4493.1 5966.8 TRUE FALSE FALSE 6967.857273 6113.257245 6299.280193 4743.269415 5622.000445 5334.074516 5937.046097 5563.166931 4461.832151 6224.057949 1.11950392 0.982197996 1.012085724 0.76208632 0.903269297 0.857009135 0.9538867 0.893816699 0.716868671 1 12.60363978 -6.447001677 6.3124123 1.050070968 0.878915922 0 0.119832341 0.120593479 8.141860694 0.01011388 0.015448079 3.57E-07 6.447001677 -0.171155047 AGAAS(ph)PLNSPLSSAVPSLGK ddPTM_HeLa_SAHA_4h_R1 2 AGAASPLNSPLSSAVPSLGK 20 0 E7EPJ7;O75962-5;O75962-4;O75962 E7EPJ7 TRIO Triple functional domain protein 1 0 AGAAS(0.942)PLNS(0.058)PLSSAVPSLGK;AGAAS(0.958)PLNS(0.041)PLS(0.001)SAVPSLGK ; 197.05 3.79E-15 12651200 3592.8 4303.3 2876.7 3884.3 4635.6 4500.4 4573 3717.3 4915.4 3630 TRUE FALSE FALSE 3970.707188 4442.729743 3268.721695 3959.486243 4280.421329 4116.940601 4058.434005 3622.216849 4881.193331 3786.507065 1.048646449 1.173305547 0.863255142 1.045683047 1.130440603 1.087266056 1.071814719 0.95661167 1.289101868 1 11.88665191 -6.000837695 24.99673416 1.023207869 1.067100222 0 0.116896597 75.95980709 2266766.211 0.011626924 0.020903226 9.98E-07 6.000837695 0.043892354 AGAES(ph)PTMSVDGR ddPTM_HeLa_SAHA_4h_R1 3 AGAESPTMSVDGR 13 0 O75362 O75362 ZNF217 Zinc finger protein 217 1 0 AGAES(0.5)PT(0.5)MSVDGR;AGAES(0.652)PT(0.348)MSVDGR;AGAES(0.437)PT(0.437)MS(0.127)VDGR ;; 195.72 5.56E-08 60693900 5004.17 5255.47 4164.59 4695.08 5226.21 5686.16 6073.26 4942.22 5313.63 5127.19 TRUE FALSE FALSE 5530.531561 5425.750676 4732.118637 4785.960063 4825.778919 5201.667179 5389.880801 4815.805169 5276.652016 5348.248253 1.034082806 1.014491179 0.884797865 0.894864979 0.902310194 0.972592694 1.007784334 0.900445331 0.986613143 1 12.38485072 -6.783558931 24.29594333 1.016424126 0.930269938 0.524145228 0.037770605 99.63158259 109434.1497 0.006405393 0.00842256 1.65E-07 6.783558931 -0.086154189 AGAGK(ac)IGR ddPTM_HeLa_SAHA_4h_R1 2 AGAGKIGR 8 1 A0A669KBF4;O00327-4;O00327-9;O00327-1;O00327-7;O00327-8;O00327 A0A669KBF4 ARNTL Aryl hydrocarbon receptor nuclear translocator-like protein 1 0 1 ; AGAGK(1)IGR;AGAGK(1)IGR 134.66 0.00037479 8241400 2435.7 2937.9 2568.3 3481.3 3864.6 4420.4 3992.5 3237.2 1724.66 1906.53 FALSE TRUE FALSE 2691.898101 3033.089888 2918.294549 3548.685596 3568.495183 4043.757052 3543.253392 3154.397111 1712.657951 1988.729839 1.353576564 1.525139226 1.467416284 1.784398025 1.794358949 2.033336541 1.781666531 1.586136563 0.861181804 1 10.95763159 -7.338435558 0.48431545 1.028498387 1.851871596 0.843890619 0.137803953 0.22500123 0.129674553 0.056349968 0.0620805 4.59E-08 7.338435558 0.823373208 AGAHLQGGAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 AGAHLQGGAKR 11 1 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 1 ; AGAHLQGGAK(1)R;AGAHLQGGAK(1)R 102.06 0.0029633 3454600 1244.34 1280.36 1624.8 1361.4 1558.12 1216.76 1581.46 1245.6 1080.78 1130.05 FALSE TRUE FALSE 1375.22539 1321.844504 1846.219282 1387.751866 1438.737182 1113.085203 1403.509959 1213.739356 1073.258764 1178.771986 1.166659377 1.12137421 1.566222564 1.177286093 1.220539001 0.944275242 1.190654321 1.029664235 0.910488862 1 10.20306896 -8.843339776 0.884526288 1.008374201 1.180865526 0.225935798 0.156248012 0.790558198 1.204331249 0.078159061 0.031035218 1.43E-09 8.843339776 0.172491325 AGAPGALS(ph)PSYDGGLHGLQSK ddPTM_HeLa_SAHA_4h_R1 1 AGAPGALSPSYDGGLHGLQSK 21 0 K7ENH8;A0A0A0MRB7;P15923-2;X6REB3;P15923;P15923-3 K7ENH8 TCF3 Transcription factor E2-alpha 1 0 AGAPGALS(0.994)PS(0.006)YDGGLHGLQSK 156.92 6.00E-07 26497000 3249.4 3526 2343.9 3002.1 4014.9 4529.1 3786.8 3722.6 3479.6 2994.7 TRUE FALSE FALSE 3591.186801 3640.244713 2663.314485 3060.209987 3707.279229 4143.1952 3360.699298 3627.381282 3455.38518 3123.816173 1.149615279 1.16531976 0.852583615 0.979638307 1.186778935 1.326324909 1.075831327 1.161201902 1.106142292 1 11.60909384 -13.52269422 0.018179232 5.26E-06 1.933989199 0.076442744 0.119857988 5693.937131 8.352989013 573.5446398 342.9825776 3.00E-14 13.52269422 1.933983944 AGASIPSSGAAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 AGASIPSSGAASPR 14 0 Q9P270 Q9P270 SLAIN2 SLAIN motif-containing protein 2 1 0 AGASIPSSGAAS(1)PR;AGASIPSSGAAS(1)PR;AGASIPSSGAAS(1)PR ;; 209.22 1.07E-12 125440000 10861.8 10873.5 11291.2 11911.8 12392.4 13821.6 13052.9 11330.2 13674.5 11588.9 TRUE FALSE FALSE 12004.29396 11225.80853 12829.90593 12142.37011 11442.89699 12643.92192 11584.15334 11040.38989 13579.33804 12088.55419 0.993029751 0.928631196 1.06132675 1.004451808 0.946589378 1.045941617 0.958274509 0.913292832 1.123321931 1 13.56135409 -4.52493575 24.79788451 0.996216778 0.924538229 0.213458676 0.054878978 38.48437847 463955.4404 0.004684143 0.017773657 2.99E-05 4.52493575 -0.07167855 AGCFS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 AGCFSPK 7 0 H3BQ41;Q6P4F7-3;Q6P4F7;H3BR51;Q6P4F7-2 H3BQ41 ARHGAP11A Rho GTPase-activating protein 11A 1 0 AGCFS(1)PK 88.948 0.02091 17803000 3959.9 3436.5 2861.8 3419.9 3994.2 4540.4 3932.3 4571.7 4661 3830.4 TRUE FALSE FALSE 4376.420451 3547.844855 3251.7912 3486.09711 3688.165259 4153.532376 3489.827255 4454.762534 4628.563722 3995.54729 1.095324403 0.887949659 0.813853764 0.87249552 0.923068854 1.039540287 0.873429095 1.114931751 1.158430469 1 11.96417741 -7.258069323 24.95617817 1.045014302 0.926853627 0.338900315 0.092519235 277.1414162 2052307.445 0.014695749 0.017603141 5.52E-08 7.258069323 -0.118160675 AGDGS(ph)SVKEVETYHR ddPTM_HeLa_SAHA_4h_R1 1 AGDGSSVKEVETYHR 15 1 Q6PL18 Q6PL18 ATAD2 ATPase family AAA domain-containing protein 2 1 0 AGDGS(0.5)S(0.5)VKEVETYHR 68.044 0.011691 7029100 1227.2 1102.3 1222.6 1440.9 1320.6 1560.1 1470.5 1570.1 1234 1264.3 TRUE FALSE FALSE 1356.282527 1138.015243 1389.209561 1468.790703 1219.415913 1427.170703 1305.03547 1529.939115 1225.412494 1318.81016 1.028413768 0.862910582 1.053380997 1.113724134 0.924633393 1.082165384 0.989555214 1.160090483 0.929180355 1 10.36502119 AGDLLEDS(ph)PK ddPTM_HeLa_SAHA_4h_R1 8 AGDLLEDSPK 10 0 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 1 0 AGDLLEDS(1)PK;AGDLLEDS(1)PK;AGDLLEDS(1)PK;AGDLLEDS(1)PK;AGDLLEDS(1)PK;AGDLLEDS(1)PK;AGDLLEDS(1)PK;AGDLLEDS(1)PK ;;;;;;; 148.78 0.00070375 5230399600 29750.9 38063.3 29596.3 35503.3 35689.4 43470.5 30832.4 30252.7 50500.1 38378 TRUE FALSE FALSE 32880.23616 39296.57589 33629.52963 36190.51771 32954.88588 39766.56884 27363.05721 29478.87974 50148.66569 40032.6634 0.821335214 0.981612827 0.840052267 0.90402473 0.823199934 0.993353064 0.683518279 0.736370684 1.252693711 1 15.28888998 -13.52287875 0.023352061 2.111096089 2.60E-10 0.375810035 0.122132878 1700.921549 3.199249497 200.5370015 103.6739418 3.00E-14 13.52287875 -2.111096089 AGDLLEDS(ph)PKRPK ddPTM_HeLa_SAHA_4h_R1 2 AGDLLEDSPKRPK 13 2 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 1 0 AGDLLEDS(1)PKRPK;AGDLLEDS(1)PKRPK ; 81.656 0.012725 180731300 12103.1 10389.7 11947.8 12618.1 12828 13355.7 13814.2 14710.6 11249.1 12631.3 TRUE FALSE FALSE 13376.15959 10726.3331 13575.98396 12862.34157 11845.12141 12217.71922 12259.78986 14334.32415 11170.8166 13175.89716 1.015199149 0.814087494 1.030365052 0.976202335 0.898999231 0.927277974 0.930470974 1.087920161 0.847822085 1 13.68561358 AGDPGEMPQS(ph)PTGLGQPK ddPTM_HeLa_SAHA_4h_R1 3 AGDPGEMPQSPTGLGQPK 18 0 J3KPG5;F8VU39;Q9UIF9-2;Q9UIF9-3;Q9UIF9;A0A0C4DGI9;H0YHL2 J3KPG5 BAZ2A Bromodomain adjacent to zinc finger domain protein 2A 1 0 AGDPGEMPQS(0.771)PT(0.229)GLGQPK;AGDPGEMPQS(0.989)PT(0.011)GLGQPK;AGDPGEMPQS(0.918)PT(0.082)GLGQPK ;; 182.47 1.24E-09 19204300 9130.4 8549.7 7575.6 8788.9 9067.7 9848.2 10504 10004.1 8748.7 8034.7 TRUE FALSE FALSE 10090.77736 8826.71589 8607.963316 8959.021868 8372.934785 9009.077956 9322.062275 9748.209608 8687.817084 8381.115238 1.203989812 1.053167226 1.027066574 1.068953429 0.999023942 1.074925914 1.112269908 1.163116045 1.036594396 1 13.03292651 -4.412520444 2.800374451 1.080309242 1.16622734 0.178815091 0.058351476 0.663044207 8.290619133 0.011437462 0.108433029 3.87E-05 4.412520444 0.085918098 AGDRAS(ph)GLSAGERR ddPTM_HeLa_SAHA_4h_R1 1 AGDRASGLSAGERR 14 2 Q86SQ6-1 Q86SQ6-1 1 0 AGDRAS(0.648)GLS(0.352)AGERR 74.537 0.016484 6480400 2394.7 2348.3 2721 2319.4 2638.2 2517.6 2753.4 2633.1 2101.5 2921.6 TRUE FALSE FALSE 2646.585533 2424.386461 3091.80371 2364.295341 2436.061686 2303.086316 2443.580185 2565.749115 2086.87549 3047.564474 0.868426429 0.795516053 1.014516259 0.775798301 0.799347055 0.75571373 0.801814106 0.841901504 0.684768282 1 11.57344103 -9.896177678 0.176281527 1.186179756 0.757895915 0 0.118495592 8.201999924 0.325731975 0.831710553 0.140533225 1.27E-10 9.896177678 -0.428283841 AGDRNS(ph)EDDGVVMTFSSVK ddPTM_HeLa_SAHA_4h_R1 2 AGDRNSEDDGVVMTFSSVK 19 1 Q9NY61 Q9NY61 AATF Protein AATF 1 0 AGDRNS(1)EDDGVVMTFSSVK;AGDRNS(1)EDDGVVMTFSSVK ; 113.08 0.00039983 14721000 2064.49 3387.3 2875.9 2950.6 3724.8 4352.4 2998.5 2685.6 5223.8 3606.7 TRUE FALSE FALSE 2281.64253 3497.050742 3267.812675 3007.71313 3439.406629 3981.551034 2661.100888 2616.906241 5187.44715 3762.202488 0.606464574 0.929522202 0.868590323 0.799455409 0.914200296 1.058303227 0.707325269 0.695578255 1.378832524 1 11.87736178 -4.570366928 24.99992597 0.843171992 0.698509899 0.028327235 0.207100527 171.9651975 90529.82035 0.022331662 0.083557495 2.69E-05 4.570366928 -0.144662093 AGDT(ph)SDQEGHSLEEK ddPTM_HeLa_SAHA_4h_R1 1 AGDTSDQEGHSLEEK 15 0 A0A087WU18;Q99607 A0A087WU18 ELF4 ETS-related transcription factor Elf-4 1 0 AGDT(0.614)S(0.386)DQEGHSLEEK 162.64 1.01E-05 5639400 2089 2778.9 1863.6 1719.9 2734 2384 2109.9 2122.4 2532.6 2755.9 TRUE FALSE FALSE 2308.730605 2868.938183 2117.561703 1753.191152 2524.521511 2180.869788 1872.488499 2068.112081 2514.97543 2874.720336 0.803114855 0.997988621 0.736614855 0.609864942 0.878179863 0.758637201 0.651363709 0.719413313 0.874859164 1 11.4892059 -13.52287875 0.081521241 1.845773245 0.506523624 0.38230978 0.099817112 100.3386386 0.62661716 15.23879418 1.622074453 3.00E-14 13.52287875 -1.339249621 AGDTS(ph)DQEGHSLEEK ddPTM_HeLa_SAHA_4h_R1 1 AGDTSDQEGHSLEEK 15 0 A0A087WU18;Q99607 A0A087WU18 ELF4 ETS-related transcription factor Elf-4 1 0 AGDT(0.038)S(0.962)DQEGHSLEEK 229.92 9.41E-25 7665100 3442.8 3312.6 2824 3150.6 3545.1 3569.9 3181.1 3416 3499.6 3312.8 TRUE FALSE FALSE 3804.9295 3419.930413 3208.840013 3211.584419 3273.475204 3265.724436 2823.154256 3328.623666 3475.245999 3455.63102 1.101080954 0.98966886 0.92858294 0.929377124 0.947287249 0.945044311 0.816972136 0.963246263 1.005676236 1 11.75473346 -6.915766475 3.249387059 1.047780906 0.919161783 0.551028672 0.046022184 0.131782626 2.805230111 0.008543629 0.011371917 1.21E-07 6.915766475 -0.128619123 AGEARPGPTAESASGPSEDPSVNFLK ddPTM_HeLa_SAHA_4h_R1 1 AGEARPGPTAESASGPSEDPSVNFLK 26 1 E7EMC7;Q13501;Q13501-2;E9PFW8 E7EMC7 SQSTM1 Sequestosome-1 0 0 133.51 2.86E-09 8207800 782.97 917.9 596.7 969.01 1048.2 710.46 935.1 1256.7 769.97 846.52 FALSE FALSE TRUE 865.326377 947.6405623 678.0151685 987.7665898 967.8871425 649.9248111 829.880087 1224.555434 764.6117161 883.01762 0.979965017 1.073184205 0.767838776 1.118626138 1.096113057 0.736027001 0.939822794 1.386784823 0.865907654 1 9.786298416 -4.258240742 24.77695664 0.977099921 1.386784995 0.506931926 0.126340136 161.4366219 1250433.706 0.015598447 0.149224108 5.52E-05 4.258240742 0.409685075 GGK(ac)GLGK(ac)GGAK(ac)R ddPTM_HeLa_SAHA_4h_R1 4 GGKGLGKGGAKR 12 3 P62805 P62805 HIST1H4A Histone H4 0 3 ;;; GGK(1)GLGK(1)GGAK(1)R;GGK(1)GLGK(1)GGAK(1)R;GGK(1)GLGK(1)GGAK(1)R;GGK(1)GLGK(1)GGAK(1)R 205.18 8.68E-33 2773579900 2245.83 12595.6 11296 21966.06 25500.45 22585.72 29245.26 20402.8 730.63 2014.718 FALSE TRUE FALSE 2482.056704 13003.7057 12835.36005 22391.24485 23546.61103 20661.28959 25954.50638 19880.92592 725.5454863 2101.582353 1.181041847 6.187578463 6.107474226 10.65446939 11.20422952 9.831301431 12.34998302 9.459979473 0.345237714 1 11.03726028 -6.788220332 1.148562876 0.963262586 10.91851884 0.933205088 1.123700421 0.064668599 0.170264137 0.190593417 0.285739962 1.63E-07 6.788220332 9.955256251 up AGEK(ac)VEKPDTK ddPTM_HeLa_SAHA_4h_R1 2 AGEKVEKPDTK 11 2 Q02878;F8VZ45;U3KQR5;F8VZA3;F8VWR1;F8VU16 Q02878 RPL6 60S ribosomal protein L6 0 1 ; AGEK(0.999)VEK(0.001)PDTK;AGEK(1)VEKPDTK 132.86 0.00024752 28703000 11317.5 12422.8 12561 14040 15131.2 15231.9 15407.8 14334.7 7423.5 6723.4 FALSE TRUE FALSE 12507.92658 12825.30687 14272.74767 14311.7645 13971.85072 13934.05643 13674.07379 13968.03913 7371.839259 7013.278678 1.783463506 1.828717703 2.035103455 2.040666735 1.992199564 1.986810601 1.949740545 1.991656082 1.051125957 1 12.77587334 -8.831243171 0.463129791 0.862184904 2.021659743 0.98294527 0.049462163 0.134945405 0.04961244 0.071290206 0.017958528 1.47E-09 8.831243171 1.159474839 AGELTEDEVER ddPTM_HeLa_SAHA_4h_R1 2 AGELTEDEVER 11 0 P62269 P62269 RPS18 40S ribosomal protein S18 0 0 ; ; 179.42 0.00019853 35892000 2526.7 2379.7 2198.8 2456.6 2439.4 2797.3 3019.2 2295.4 2413 2150.67 FALSE FALSE TRUE 2792.469899 2456.803841 2498.441013 2504.151045 2252.493699 2558.954303 2679.47167 2236.686992 2396.207737 2243.395909 1.244751267 1.095127183 1.113687068 1.116232331 1.004055365 1.140661037 1.19438199 0.997009481 1.0681163 1 11.13146853 -5.926554272 24.99981077 1.116462078 1.091478679 0.005629946 0.078991773 224.758865 76498.26642 0.015252636 0.027647778 1.18E-06 5.926554272 -0.024983399 AGEPDGES(ph)LDEQPSSSSSK ddPTM_HeLa_SAHA_4h_R1 3 AGEPDGESLDEQPSSSSSK 19 0 Q9H3Q1;J3KRZ9 Q9H3Q1 CDC42EP4 Cdc42 effector protein 4 1 0 AGEPDGES(1)LDEQPSSSSSK;AGEPDGES(1)LDEQPSSSSSK;AGEPDGES(1)LDEQPSSSSSK ;; 277.07 1.05E-64 59097000 6607.25 8526.68 5988.94 7605.58 8909.66 9895.36 8648.27 8139.87 10670.44 7488.01 TRUE FALSE FALSE 7302.23087 8802.950027 6805.081554 7752.796999 8227.003776 9052.219658 7675.143899 7931.663912 10596.18354 7810.854757 0.934882429 1.127014943 0.871233913 0.992567042 1.053278294 1.158928176 0.982625351 1.015466829 1.35659718 1 12.93126472 -5.811421843 4.939270357 0.974523142 1.055404237 0 0.14136169 0.234061749 12.23557388 0.010581392 0.019874968 1.54E-06 5.811421843 0.080881095 AGEPNS(ph)PDAEEANS(ph)PDVTAGCDPAGVHPPR ddPTM_HeLa_SAHA_4h_R1 6 AGEPNSPDAEEANSPDVTAGCDPAGVHPPR 30 0 Q08J23-3;Q08J23-2;Q08J23 Q08J23-3 NSUN2 tRNA (cytosine(34)-C(5))-methyltransferase 2 0 AGEPNS(1)PDAEEANS(1)PDVTAGCDPAGVHPPR;AGEPNS(0.932)PDAEEANS(0.987)PDVT(0.08)AGCDPAGVHPPR;AGEPNS(0.965)PDAEEANS(0.994)PDVT(0.041)AGCDPAGVHPPR;AGEPNS(1)PDAEEANS(0.998)PDVT(0.002)AGCDPAGVHPPR;AGEPNS(0.996)PDAEEANS(1)PDVT(0.004)AGCDPAGVHPPR;AGEPNS(1)PDAEEANS(1)PDVTAGCDPAGVHPPR ;;;;; 173.69 6.97E-18 613636800 3533.79 3499.9 3240.49 3642.92 3670.9 4703.74 4438.37 4032.63 3389.448 3893.22 TRUE FALSE FALSE 3905.490246 3613.299056 3682.087101 3713.433984 3389.636435 4302.954889 3938.952926 3929.481164 3365.860555 4061.075767 0.961688594 0.889739385 0.906677765 0.914396627 0.834664663 1.059560357 0.969928451 0.967596122 0.828810086 1 11.98764623 -7.981745819 1.45032815 0.989956709 0.935809961 0 0.075956154 0.518407007 2.253332896 0.013465798 0.011688811 1.04E-08 7.981745819 -0.054146748 AGEPNS(ph)PDAEEANSPDVTAGCDPAGVHPPR ddPTM_HeLa_SAHA_4h_R1 1 AGEPNSPDAEEANSPDVTAGCDPAGVHPPR 30 0 Q08J23-3;Q08J23-2;Q08J23 Q08J23-3 NSUN2 tRNA (cytosine(34)-C(5))-methyltransferase 1 0 AGEPNS(0.97)PDAEEANS(0.03)PDVTAGCDPAGVHPPR 183.57 2.08E-19 605840000 5331.4 4635.1 4592.6 4932.4 5681.3 6078.4 4955.7 5004.7 5276.9 5092.2 TRUE FALSE FALSE 5892.181113 4785.280281 5218.455611 5027.873734 5246.000021 5560.486124 4398.071593 4876.687021 5240.177623 5311.749663 1.109273119 0.900885882 0.982436286 0.946556983 0.987621849 1.046827595 0.827989245 0.918094287 0.986525713 1 12.37497144 -7.257588593 24.97465702 1.051601195 0.947025706 0.270307671 0.063420612 275.4900375 1786718.665 0.011282011 0.013548396 5.53E-08 7.257588593 -0.104575489 AGEPNSPDAEEANS(ph)PDVTAGCDPAGVHPPR ddPTM_HeLa_SAHA_4h_R1 4 AGEPNSPDAEEANSPDVTAGCDPAGVHPPR 30 0 Q08J23-3;Q08J23-2;Q08J23 Q08J23-3 NSUN2 tRNA (cytosine(34)-C(5))-methyltransferase 1 0 AGEPNSPDAEEANS(0.999)PDVT(0.001)AGCDPAGVHPPR;AGEPNS(0.18)PDAEEANS(0.82)PDVTAGCDPAGVHPPR;AGEPNSPDAEEANS(0.999)PDVT(0.001)AGCDPAGVHPPR;AGEPNS(0.027)PDAEEANS(0.967)PDVT(0.006)AGCDPAGVHPPR ;;; 175.99 2.18E-18 859128700 2334.56 2177.23 2116.84 2108.65 2548.48 2682.9 2553.97 2509 2303.88 2505.62 TRUE FALSE FALSE 2580.119732 2247.773681 2405.311931 2149.46597 2353.216013 2454.301826 2266.590574 2444.823413 2287.847111 2613.64954 0.987171268 0.86001342 0.920288621 0.822400225 0.90035637 0.939032486 0.867212891 0.935405981 0.875345786 1 11.35184999 -7.296424516 10.0023901 0.993978651 0.891678703 0.11527406 0.050601602 0.243078286 68.48218956 0.005442811 0.006235503 5.05E-08 7.296424516 -0.102299949 AGEPNSPDAEEANSPDVT(ph)AGCDPAGVHPPR ddPTM_HeLa_SAHA_4h_R1 1 AGEPNSPDAEEANSPDVTAGCDPAGVHPPR 30 0 Q08J23-3;Q08J23-2;Q08J23 Q08J23-3 NSUN2 tRNA (cytosine(34)-C(5))-methyltransferase 1 0 AGEPNSPDAEEANS(0.18)PDVT(0.82)AGCDPAGVHPPR 152.92 1.54E-14 36772000 457.94 228.79 135.44 215.66 375.5 309.47 403.52 474.46 237.38 298.78 TRUE FALSE FALSE 506.1082303 236.2029461 153.8970579 219.8344111 346.7292711 283.101415 358.1148676 462.3240002 235.7280533 311.661868 1.623901678 0.757882084 0.493794954 0.705361912 1.112517464 0.908360772 1.149049352 1.483415354 0.75635834 1 8.283837841 -7.245269583 24.69175024 1.294620249 0.930778085 0 0.33811169 870.3003715 1328974.749 0.058770115 0.071854791 5.68E-08 7.245269583 -0.363842164 AGEQQLS(ph)EPEDMEMEAGDTDDPPR ddPTM_HeLa_SAHA_4h_R1 2 AGEQQLSEPEDMEMEAGDTDDPPR 24 0 H3BMF6;Q93009 H3BMF6 USP7 Ubiquitin carboxyl-terminal hydrolase 7 1 0 AGEQQLS(1)EPEDMEMEAGDTDDPPR;AGEQQLS(1)EPEDMEMEAGDTDDPPR ; 141.38 3.77E-07 34109000 3749.44 4407.73 3151.98 3864.28 4922.76 5021.5 4620.34 4478.17 5041.02 4333.49 TRUE FALSE FALSE 4143.823302 4550.543344 3581.51542 3939.078727 4545.579192 4593.63995 4100.447183 4363.624896 5005.939131 4520.327961 0.916708552 1.006684334 0.79231318 0.871414367 1.00558615 1.01621829 0.907112762 0.965333695 1.107428305 1 12.14221173 -9.364804138 0.986262998 1.00164377 0.933423942 0.224320518 0.0744235 1.04150733 1.740755057 0.051946852 0.012209416 4.32E-10 9.364804138 -0.068219828 AGFAGDDAPR ddPTM_HeLa_SAHA_4h_R1 11 AGFAGDDAPR 10 0 P60709;A0A2R8Y793;P63267-2;Q6S8J3;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5;A5A3E0;P0CG38;P0CG39;F8WCH0;P63267;P68133;P68032;P62736;A6NL76;F8WB63;B8ZZJ2;C9JFL5;F6UVQ4;F6QUT6;P63261;I3L3I0;I3L1U9;I3L4N8;K7EM38;I3L3R2;J3KT65 P60709;P63267;P63261 ACTB;ACTG2;POTEE;POTEF;POTEI;POTEJ;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;POTE ankyrin domain family member E;POTE ankyrin domain family member F;POTE ankyrin domain family member I;POTE ankyrin domain family member J;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;;;;;;;;;; ;;;;;;;;;; 245.16 7.18E-31 504546200 45338.3 42245.4 38983.08 43291.4 46344.7 46510.9 46970.3 43163.1 41700.8 41595.8 FALSE FALSE TRUE 50107.19041 43614.17868 44295.49113 44129.36765 42793.7791 42547.90966 41685.07822 42059.0504 41410.60074 43389.1985 1.154830975 1.005185166 1.020887517 1.017058834 0.986277244 0.980610639 0.960724781 0.969343796 0.95439884 1 15.40504832 -6.419132908 1.267962646 1.070675649 0.974819139 0.001127111 0.054384082 0.387512959 1.2357957 0.010506828 0.01878969 3.81E-07 6.419132908 -0.09585651 AGFNYESPS(ph)KGGNFPSFPHDEVTDR ddPTM_HeLa_SAHA_4h_R1 2 AGFNYESPSKGGNFPSFPHDEVTDR 25 1 Q9UHF7;Q9UHF7-3;Q9UHF7-2;E5RJ97;H0YC29 Q9UHF7 TRPS1 Zinc finger transcription factor Trps1 1 0 AGFNY(0.098)ES(0.156)PS(0.642)KGGNFPS(0.104)FPHDEVTDR;AGFNY(0.293)ES(0.276)PS(0.41)KGGNFPS(0.021)FPHDEVTDR ; 47.807 0.010684 14657200 2949.4 2906.84 2802.77 2878.68 3284.4 4063.4 3307.9 3123.02 3765.3 3428.5 TRUE FALSE FALSE 3259.631424 3001.023523 3184.716899 2934.401014 3032.749982 3717.17546 2935.686386 3043.13767 3739.096971 3576.319414 0.911448628 0.839137442 0.890501248 0.82050865 0.848008701 1.039385757 0.820868062 0.850913277 1.045515386 1 11.80425988 -8.422173711 0.73959807 0.99384805 0.875000621 0.443811222 0.063185979 0.483274286 0.555819023 0.027502377 0.014013506 3.78E-09 8.422173711 -0.118847429 AGFSPDS(ph)SKADSDAASSGGSDSK ddPTM_HeLa_SAHA_4h_R1 1 AGFSPDSSKADSDAASSGGSDSK 23 1 O95402;B8ZZF3 O95402 MED26 Mediator of RNA polymerase II transcription subunit 26 1 0 AGFS(0.007)PDS(0.496)S(0.496)KADS(0.001)DAASSGGSDSK 85.518 0.00024035 8361900 2254.1 1919.2 2393.7 2637.5 2316.7 3210.3 2880.9 2893.9 2268.8 2216.9 TRUE FALSE FALSE 2491.19658 1981.383339 2719.90097 2688.552626 2139.194946 2936.764379 2556.73355 2819.878228 2253.011236 2312.481408 1.077282858 0.856821306 1.176182849 1.162626699 0.925064711 1.269962374 1.105623397 1.219416605 0.974282962 1 11.17522605 -1 0.247870109 1.013610204 2.274695615 0.29545719 0.10734349 48.74024591 0.606811901 0.056351478 25.85617256 0.1 1 1.261085411 AGFSPDSS(ph)KADSDAASSGGSDSK ddPTM_HeLa_SAHA_4h_R1 1 AGFSPDSSKADSDAASSGGSDSK 23 1 O95402;B8ZZF3 O95402 MED26 Mediator of RNA polymerase II transcription subunit 26 1 0 AGFS(0.123)PDS(0.35)S(0.526)KADS(0.001)DAASSGGSDSK 74.703 0.00079218 8624900 2238.1 1778.4 1766.1 2495.2 1976.5 2810.3 2645.1 2808.4 1799.4 1947.5 TRUE FALSE FALSE 2473.513627 1836.021327 2006.774911 2543.498204 1825.060997 2570.84663 2347.466386 2736.565195 1786.877829 2031.466256 1.217600154 0.903791201 0.987845555 1.252050432 0.898395921 1.265512839 1.155552734 1.347088679 0.879600054 1 10.98830569 -4.242086045 1.048106785 1.082220299 1.468245342 0.298529417 0.139626124 1.978688567 1.644633402 0.01985093 0.858595386 5.73E-05 4.242086045 0.386025043 AGGAS(ph)PAASSTAQPPTQHR ddPTM_HeLa_SAHA_4h_R1 4 AGGASPAASSTAQPPTQHR 19 0 Q8IU81 Q8IU81 IRF2BP1 Interferon regulatory factor 2-binding protein 1 1 0 AGGAS(1)PAASSTAQPPTQHR;AGGAS(1)PAASSTAQPPTQHR;AGGAS(1)PAASSTAQPPTQHR;AGGAS(1)PAASSTAQPPTQHR ;;; 161.96 3.07E-06 218027300 2346.61 2639.86 1907.05 2161.21 2712.53 2785.83 2544.33 2554.36 2410.29 2776.7 TRUE FALSE FALSE 2593.437206 2725.393196 2166.932843 2203.043345 2504.696537 2548.461611 2258.035292 2489.02317 2393.516596 2896.417126 0.895394929 0.94095328 0.748142532 0.760609832 0.864756846 0.879866919 0.77959603 0.859345551 0.826371511 1 11.50005367 -7.924578482 0.580857508 0.99119495 0.819793205 0.051944192 0.073902363 0.372902183 0.292305559 0.025207418 0.017363761 1.19E-08 7.924578482 -0.171401745 AGGASPAASS(ph)TAQPPTQHR ddPTM_HeLa_SAHA_4h_R1 1 AGGASPAASSTAQPPTQHR 19 0 Q8IU81 Q8IU81 IRF2BP1 Interferon regulatory factor 2-binding protein 1 1 0 AGGAS(0.223)PAAS(0.22)S(0.277)T(0.277)AQPPT(0.004)QHR 84.892 0.0034713 20700000 229.06 195.09 127.91 229.53 288.47 377.7 175.22 285.71 189.95 203.67 TRUE FALSE FALSE 253.1535818 201.411044 145.3409087 233.9728851 266.3674909 345.5178351 155.5037844 278.4019519 188.6281225 212.4512104 1.191584558 0.948034344 0.684114289 1.101301727 1.253781941 1.626339687 0.731950569 1.310427704 0.887865605 1 7.730987753 -5.893654737 5.689883502 1.045790954 1.221670548 0.178982212 0.245294958 0.386388811 18.20648393 0.035904154 0.065832802 1.28E-06 5.893654737 0.175879594 AGGDLSLS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 4 AGGDLSLSPGR 11 0 A0A1B0GTT1;A0A1B0GVM0;Q9BUH8 A0A1B0GTT1 BEGAIN Brain-enriched guanylate kinase-associated protein 1 0 AGGDLSLS(1)PGR;AGGDLSLS(1)PGR;AGGDLSLS(1)PGR;AGGDLS(0.002)LS(0.998)PGR ;;; 166.24 0.00014146 96615000 9689 9133.6 8613.4 7839.5 9272.9 9644.6 10080.5 8736.9 9173.5 9375.7 TRUE FALSE FALSE 10708.13347 9429.534633 9787.189295 7991.244859 8562.412405 8822.825821 8946.21561 8513.422749 9109.660867 9779.932311 1.094908751 0.964171769 1.000742028 0.817106357 0.875508351 0.902135673 0.914752304 0.870499149 0.931464613 1 13.25560876 -6.5875055 2.059458284 1.042295195 0.880775407 0.480236935 0.054917228 0.130791954 1.122568419 0.008042237 0.012289461 2.59E-07 6.5875055 -0.161519787 AGGEPWGAK(ac)KPR ddPTM_HeLa_SAHA_4h_R1 2 AGGEPWGAKKPR 12 2 E5RHJ4;Q8N163-2;Q8N163 E5RHJ4 CCAR2 Cell cycle and apoptosis regulator protein 2 0 1 ; AGGEPWGAK(0.97)K(0.03)PR;AGGEPWGAK(0.967)K(0.033)PR 175.49 2.52E-11 10800900 3927.7 3891.1 4778.9 5945.9 6236.6 6083.8 7122.6 5643.1 1899.53 2713.5 FALSE TRUE FALSE 4340.833507 4017.174193 5430.143605 6060.991492 5758.753055 5565.426013 6321.146302 5498.757673 1886.311016 2830.492265 1.533596668 1.41924931 1.918444955 2.141320635 2.034541174 1.966239613 2.233232142 1.942685992 0.666425074 1 11.46683727 -7.442048884 0.405891812 0.998452145 2.173712544 0.852850459 0.189143703 0.233165375 0.105098306 0.091373298 0.090041897 3.61E-08 7.442048884 1.175260399 AGGFLMK ddPTM_HeLa_SAHA_4h_R1 1 AGGFLMK 7 0 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 0 0 112.27 0.0091351 1497600 1092.2 1153.5 1021.8 1170.1 1323.2 1205.5 1280.6 817.82 980.05 1201.9 FALSE FALSE TRUE 1207.082607 1190.874157 1161.045583 1192.748977 1221.816702 1102.784618 1136.503518 796.9013486 973.2297523 1253.719791 0.962800951 0.949872663 0.926080605 0.95136807 0.974553254 0.879610122 0.906505206 0.635629552 0.776273741 1 10.29199922 -3.699185819 1.024253141 0.972259958 4.95E-22 0.565702889 0.069377156 1.093157119 0.40116506 0.005020483 1.537853199 0.000199901 3.699185819 -0.972259958 AGGGCVMT(ph)IGEMLRSFLTK ddPTM_HeLa_SAHA_4h_R1 1 AGGGCVMTIGEMLRSFLTK 19 1 A0A0A0MRN0;Q5VTL8 A0A0A0MRN0 PRPF38B Pre-mRNA-splicing factor 38B 1 0 AGGGCVMT(0.997)IGEMLRS(0.001)FLT(0.001)K 42.314 0.0088519 0 561.24 446.02 317.96 306.32 529.45 396.13 453.31 369.35 459.23 428.94 TRUE FALSE FALSE 620.2737983 460.4713406 361.2899329 312.2492665 488.8836554 362.3774954 402.3023658 359.9025618 456.034181 447.4337026 1.38629208 1.029138704 0.807471433 0.697867114 1.092639317 0.8099021 0.899132907 0.804370703 1.019221794 1 8.80553012 -6.977036073 5.207000947 1.183940054 0.858645122 0.451718087 0.138793919 0.12394995 9.3786535 0.027376126 0.035629202 1.05E-07 6.977036073 -0.325294931 AGGGDLLLPPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 AGGGDLLLPPSPK 13 0 Q5TH69 Q5TH69 ARFGEF3 Brefeldin A-inhibited guanine nucleotide-exchange protein 3 1 0 AGGGDLLLPPS(1)PK;AGGGDLLLPPS(1)PK ; 120.84 0.0011214 5334800 4445.4 4774.1 4447.4 4951.2 5682.6 4893.6 4436.9 4973.9 4044.7 5037.5 TRUE FALSE FALSE 4912.987568 4928.783972 5053.468511 5047.037636 5247.200416 4476.637749 3937.648335 4846.67484 4016.552603 5254.691278 0.934971687 0.93797784 0.961706072 0.960482237 0.998574443 0.851931638 0.749358645 0.922351968 0.764374611 1 12.35939029 -5.176265072 5.394557433 0.966571621 0.828728551 0.176470064 0.077576621 0.101334166 4.883548912 0.006159599 0.016074454 6.66E-06 5.176265072 -0.13784307 AGGGGGLGAGS(ph)PALSGGQGR ddPTM_HeLa_SAHA_4h_R1 4 AGGGGGLGAGSPALSGGQGR 20 0 A0A3B3ITT1;Q6IQ22 A0A3B3ITT1 RAB12 Ras-related protein Rab-12 1 0 AGGGGGLGAGS(1)PALSGGQGR;AGGGGGLGAGS(0.987)PALS(0.013)GGQGR;AGGGGGLGAGS(1)PALSGGQGR;AGGGGGLGAGS(1)PALSGGQGR ;;; 240.34 1.86E-41 78461700 4442.23 7091.3 5207.1 5716.2 5984.45 5461.8 6232.01 6090.6 6103.1 6751.2 TRUE FALSE FALSE 4909.484133 7321.062773 5916.696471 5826.845317 5525.922734 4996.423913 5530.767833 5934.811271 6060.62803 7042.277272 0.697144396 1.039587408 0.840168065 0.827409244 0.784678382 0.709489803 0.785366384 0.842740358 0.860606278 1 12.78182632 -5.994052646 2.470272983 0.868563604 0.775886477 0.217444856 0.092566816 0.538951427 6.608665694 0.019275953 0.036540976 1.01E-06 5.994052646 -0.092677127 AGGIETIANEFSDR ddPTM_HeLa_SAHA_4h_R1 4 AGGIETIANEFSDR 14 0 Q92598-2;Q92598-3;Q92598;R4GN69 Q92598-2 HSPH1 Heat shock protein 105 kDa 0 0 ;;; ;;; 194.39 4.01E-08 18280000 2362.72 2263.74 2098.47 2322.91 2348.37 2327.85 2390.28 2589.58 2456.4 2182.88 FALSE FALSE TRUE 2611.24173 2337.086661 2384.438563 2367.873282 2168.438398 2129.504084 2121.319404 2523.342293 2439.305712 2276.99464 1.146793095 1.026390937 1.047186727 1.039911663 0.952324771 0.935225778 0.931631268 1.108189826 1.071283028 1 11.15291518 -5.921952756 3.899749351 1.065074378 0.975178563 0.268320954 0.058821831 0.240226908 7.185081467 0.010568634 0.019682991 1.20E-06 5.921952756 -0.089895815 AGGIETIANEYSDR ddPTM_HeLa_SAHA_4h_R1 4 AGGIETIANEYSDR 14 0 A0A087WYC1;P34932;A0A087WTS8;P34932-2 A0A087WYC1 HSPA4 Heat shock 70 kDa protein 4 0 0 ;;; ;;; 171.32 1.12E-05 26681600 2296.47 1929.13 1894.36 2145.41 1992.29 2713.45 2272.24 2433.26 2331.67 2234.45 FALSE FALSE TRUE 2538.023251 1991.635078 2152.513515 2186.937513 1839.641171 2482.248795 2016.561575 2371.020733 2315.443719 2330.788075 1.088912063 0.85448999 0.923513184 0.938282436 0.78927861 1.064982622 0.86518444 1.017261397 0.993416666 1 11.18660212 -7.267044985 24.96459897 1.041986252 0.920777666 0.270137399 0.078433816 359.5126149 1601089.81 0.01259923 0.014616512 5.41E-08 7.267044985 -0.121208586 QNTVSK(ac)GPFSK ddPTM_HeLa_SAHA_4h_R1 2 QNTVSKGPFSK 11 1 A5PLL3;A0A3B3IS53;A0A3F2YNX6;Q92794 A5PLL3 MYST3;KAT6A Histone acetyltransferase;Histone acetyltransferase KAT6A 0 1 ; QNTVSK(1)GPFSK;QNTVSK(1)GPFSK 160.15 2.77E-07 3369300 880.88 1315.56 1705.11 2666.2 2960.9 2859 3767.8 2155.3 593 795.6 FALSE TRUE FALSE 973.535 1358.185007 1937.473511 2717.808156 2734.036482 2615.397116 3343.837228 2100.170547 588.8732647 829.9022096 1.173071946 1.636560298 2.334580495 3.274853501 3.294408004 3.151452166 4.02919427 2.530624118 0.709569462 1 9.696797538 -6.649779733 1.43271764 1.069545018 3.333870268 0.884991589 0.36582622 0.075313469 0.312182928 0.054445755 0.084788401 2.24E-07 6.649779733 2.264325249 up VVTVVTTK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 VVTVVTTKK 9 1 D6RJA6;A0A0C4DG89;Q7L014 D6RJA6 DDX46 Probable ATP-dependent RNA helicase DDX46 0 1 ; VVTVVTTK(1)K;VVTVVTTK(1)K 193.1 3.70E-18 18480800 4129.3 4806.5 6051 7671.1 8787.5 8012.7 10889.3 8062.3 3178.4 3756 FALSE TRUE FALSE 4563.63872 4962.233754 6875.598768 7819.585233 8114.203648 7329.972882 9664.007305 7856.07804 3156.281256 3917.939541 1.164805805 1.266541686 1.754901702 1.99584122 2.071038504 1.870874424 2.4666045 2.005155505 0.805597234 1 11.93587942 -6.648050295 1.123856956 1.058664559 2.137267009 0.896700379 0.165970892 0.084892858 0.21472828 0.025830993 0.041955678 2.25E-07 6.648050295 1.07860245 up AGGLDWPEATEVS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 4 AGGLDWPEATEVSPSR 16 0 Q9Y446;Q9Y446-2;E9PKC4;E9PK71;E9PJR7;E9PRW6 Q9Y446 PKP3 Plakophilin-3 1 0 AGGLDWPEATEVS(0.978)PS(0.022)R;AGGLDWPEATEVS(0.981)PS(0.019)R;AGGLDWPEAT(0.027)EVS(0.954)PS(0.018)R;AGGLDWPEATEVS(0.976)PS(0.024)R ;;; 232.26 1.11E-27 111125800 9034.7 9516 8223 8804 9765.9 10286.7 10098.2 10252.5 10543.4 9524.5 TRUE FALSE FALSE 9985.011199 9824.324644 9343.587616 8974.414151 9017.638852 9410.215289 8961.923959 9990.255895 10470.02762 9935.147807 1.005018888 0.988845343 0.940457837 0.903299511 0.907650196 0.947164096 0.902042338 1.005546781 1.053837127 1 13.27832572 -6.782203338 3.353786535 1.002142774 0.929972093 0.570435693 0.032711374 0.11508859 2.707088971 0.004256033 0.005880332 1.65E-07 6.782203338 -0.072170681 AGGPAT(ph)PLSPTR ddPTM_HeLa_SAHA_4h_R1 3 AGGPATPLSPTR 12 0 Q03252 Q03252 LMNB2 Lamin-B2 1 0 AGGPAT(1)PLSPTR;AGGPAT(0.725)PLS(0.258)PT(0.017)R;AGGPAT(0.975)PLS(0.023)PT(0.002)R ;; 107.97 0.0061821 34260500 7284.1 7329.6 6616.1 7008.4 8479.5 7964.4 7739.1 7460.2 7940.4 7664.9 TRUE FALSE FALSE 8050.275059 7567.083849 7517.707653 7144.057716 7829.802542 7285.788314 6868.2761 7269.378886 7885.14211 7995.37135 1.006866937 0.94643307 0.940257472 0.893524191 0.979291918 0.911250772 0.859031532 0.909198406 0.986213368 1 12.96494933 -6.952485815 1.488765246 1.004047973 0.911091177 0.611496884 0.029355046 0.165728481 0.726663446 0.005336648 0.007204205 1.12E-07 6.952485815 -0.092956795 AGGPATPLS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 3 AGGPATPLSPTR 12 0 Q03252 Q03252 LMNB2 Lamin-B2 1 0 AGGPATPLS(0.886)PT(0.114)R;AGGPATPLS(0.587)PT(0.413)R;AGGPATPLS(0.945)PT(0.055)R ;; 112.02 0.0027058 73862000 4601.65 4287.53 3741.76 4026.01 4596.8 4737.2 5018.6 4302.1 4839.7 4541.1 TRUE FALSE FALSE 5085.67266 4426.448785 4251.667567 4103.939245 4244.594177 4333.563909 4453.89392 4192.058511 4806.020134 4736.889045 1.073631367 0.934463261 0.89756537 0.866378589 0.896072113 0.914854426 0.940257177 0.884981361 1.014594196 1 12.20972416 -7.11155874 4.537479351 1.034533926 0.901770662 0.836670747 0.025499354 0.075492237 2.521399076 0.005533074 0.006842676 7.73E-08 7.11155874 -0.132763264 AGGPGLER ddPTM_HeLa_SAHA_4h_R1 1 AGGPGLER 8 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;H7C5L4;P21333-2;P21333;Q60FE5;H0Y5C6 O75369-8;P21333-2 FLNB;FLNA Filamin-B;Filamin-A 0 0 119.57 0.021961 25686000 3068 2814 3030.7 3437.6 3150.6 3191.2 3206.1 3309.4 2948.8 2630.9 FALSE FALSE TRUE 3390.706316 2905.175446 3443.708013 3504.139719 2909.201709 2919.291807 2845.34119 3224.75034 2928.279061 2744.330974 1.235531118 1.058609721 1.254844275 1.276864836 1.060076841 1.063753547 1.036806864 1.175058829 1.06702839 1 11.42223877 -3.929695095 18.90523546 1.119652296 2.357520108 0.031653992 0.095273275 490.4272172 212800.6776 0.015324482 15490.08458 0.000117572 3.929695095 1.237867812 AGGPS(ph)DDDNADKPK ddPTM_HeLa_SAHA_4h_R1 3 AGGPSDDDNADKPK 14 1 E7EVA0 E7EVA0 MAP4 Microtubule-associated protein 1 0 AGGPS(1)DDDNADKPK;AGGPS(1)DDDNADKPK;AGGPS(1)DDDNADKPK ;; 121.82 0.00050612 62192000 6268.1 6521.4 4968.24 6524 6976.4 8426.5 7654.3 7973.3 6905 7987.3 TRUE FALSE FALSE 6927.407517 6732.697639 5645.285874 6650.281454 6441.869739 7708.514794 6793.018019 7769.354531 6856.947543 8331.671592 0.831454702 0.808084856 0.677569418 0.798192941 0.773178547 0.92520627 0.815324745 0.932508494 0.822997818 1 13.02439026 -8.880653135 0.811971095 0.996189983 0.816697818 0.012264354 0.086630413 0.404407359 0.507198357 0.041347889 0.014701523 1.32E-09 8.880653135 -0.179492165 AGGPTT(ph)PLSPTR ddPTM_HeLa_SAHA_4h_R1 2 AGGPTTPLSPTR 12 0 P20700;E9PBF6;A0A0D9SFE5;A0A0D9SFY5 P20700 LMNB1 Lamin-B1 1 0 AGGPT(0.127)T(0.873)PLSPTR;AGGPT(0.03)T(0.966)PLS(0.003)PTR ; 135.1 0.0014979 51388000 4520.5 3994.1 3827.2 4581.4 3876.1 4478.1 4478.9 4152.4 4049 4334.9 TRUE FALSE FALSE 4995.986931 4123.511461 4348.750885 4670.079622 3579.114055 4096.540687 3974.922384 4046.187621 4020.822679 4521.798753 1.104867156 0.911918395 0.961730303 1.032792452 0.791524402 0.905953783 0.879057782 0.894818156 0.889208675 1 12.14268107 -6.393414363 0.971430265 1.045319848 0.876778635 0.099167686 0.080598576 0.315347423 0.591817278 0.012841944 0.025309452 4.04E-07 6.393414363 -0.168541213 AGGPTTPLS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 2 AGGPTTPLSPTR 12 0 P20700;E9PBF6;A0A0D9SFE5;A0A0D9SFY5 P20700 LMNB1 Lamin-B1 1 0 AGGPTTPLS(0.925)PT(0.075)R;AGGPTT(0.001)PLS(0.767)PT(0.232)R ; 119.21 0.0015745 368330000 3639.9 3728.7 2752.5 2921.5 3376.6 3534.1 3500.4 3169.8 2980.5 3445.6 TRUE FALSE FALSE 4022.761382 3849.512326 3127.596366 2978.049857 3117.885637 3232.974798 3106.525779 3088.721106 2959.758458 3594.156678 1.119250423 1.071047445 0.870189211 0.828580978 0.867487401 0.899508588 0.864326755 0.859372972 0.823491774 1 11.81143759 -6.758281548 24.61761223 1.058991257 0.864922761 0.340548754 0.080807715 21.43807937 167124.1593 0.007549155 0.010418369 1.74E-07 6.758281548 -0.194068496 AGGPTTPLSPT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 AGGPTTPLSPTR 12 0 P20700;E9PBF6;A0A0D9SFE5;A0A0D9SFY5 P20700 LMNB1 Lamin-B1 1 0 AGGPTTPLS(0.17)PT(0.83)R 94.538 0.017108 37475000 2108.8 2162.5 2444.5 2104.6 2809.4 3016.2 2483 2356.3 2961.7 2256.6 TRUE FALSE FALSE 2330.61326 2232.566419 2777.62373 2145.337576 2594.144379 2759.202791 2203.606305 2296.029258 2941.089289 2353.89307 0.990110082 0.948457025 1.180012706 0.911399759 1.102065515 1.172186973 0.936153954 0.975417825 1.249457474 1 11.20083307 AGGQPAS(ph)S(ph)S(ph)TRWT(ph)TCRAACLLT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 AGGQPASSSTRWTTCRAACLLTK 23 2 H3BUN2 H3BUN2 5 0 AGGQPAS(0.758)S(0.776)S(0.776)T(0.687)RWT(0.502)T(0.502)CRAACLLT(0.999)K 49.888 0.0076557 0 159.08 711.76 223.94 614 367.83 108.6 203.18 0 317.77 233.55 TRUE FALSE FALSE 175.8127643 734.821491 254.457377 625.8848579 339.6469449 99.34666903 180.3176517 0 315.5586127 243.6194835 0.721669555 3.016267339 1.044486973 2.569108386 1.394169875 0.407794433 0.740161046 0 1.295293005 1 7.928485707 -5.252957606 23.55479705 1.205615625 0.418402571 0.260153341 0.759098993 417.9519776 1160687.674 0.116245189 0.290655807 5.59E-06 5.252957606 -0.787213054 AGGSAALS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 4 AGGSAALSPSK 11 0 Q92522 Q92522 H1FX Histone H1x 1 0 AGGS(0.006)AALS(0.718)PS(0.276)K;AGGS(0.003)AALS(0.694)PS(0.303)K;AGGSAALS(0.933)PS(0.067)K;AGGSAALS(0.996)PS(0.004)K ;;; 195.77 2.20E-07 979870000 20371.4 21375.8 21098.1 20181.8 26381.4 20756.1 29654.2 18167.1 9409.9 16950 TRUE FALSE FALSE 22514.15732 22068.38995 23973.23919 20572.44792 24360.06283 18987.56351 26317.43137 17702.41189 9344.41574 17680.79745 1.273367753 1.248155803 1.355891286 1.163547514 1.377769464 1.073908774 1.488475361 1.001222481 0.528506464 1 14.10989573 -9.184596054 0.797416526 0.989560198 1.256441538 0.374774216 0.204753317 0.577361159 0.623165233 0.096608027 0.023642439 6.54E-10 9.184596054 0.26688134 AGGSPAPGPET(ph)PAISPSKR ddPTM_HeLa_SAHA_4h_R1 1 AGGSPAPGPETPAISPSKR 19 1 P33316;H0YKI0 P33316 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 1 0 AGGSPAPGPET(0.548)PAIS(0.401)PS(0.051)KR 178.22 1.39E-07 5589300 840.12 991.37 1029.3 1110.5 928.58 1237.9 1132 1045 1120.6 1011.1 TRUE FALSE FALSE 928.4876762 1023.491038 1169.567644 1131.995333 857.432401 1132.423956 1004.624381 1018.270413 1112.801653 1054.693469 0.880338888 0.970415641 1.108917119 1.073293204 0.812968342 1.0736996 0.952527355 0.965465742 1.055094855 1 10.04260805 -7.000171347 24.99997036 0.942539882 0.998018132 0 0.089946846 12.76637986 1862987.942 0.014128608 0.018466537 1.00E-07 7.000171347 0.05547825 AGGSPAPGPETPAISPS(ph)KR ddPTM_HeLa_SAHA_4h_R1 1 AGGSPAPGPETPAISPSKR 19 1 P33316;H0YKI0 P33316 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 1 0 AGGS(0.001)PAPGPET(0.001)PAIS(0.266)PS(0.732)KR 94.456 0.00093697 17130000 1802.1 2132.7 1894.9 1771.1 2139.5 2691 2181.5 1815.7 1997.8 2313.1 TRUE FALSE FALSE 1991.653146 2201.800879 2153.127104 1805.382202 1975.571972 2461.711661 1936.031879 1769.257023 1983.897147 2412.829061 0.825443119 0.912539108 0.892366201 0.748242895 0.818778257 1.020259454 0.802390816 0.73327077 0.822228636 1 11.23650999 -9.606252679 0.556284473 1.048428123 0.842459348 0 0.096651269 1.595438184 0.56016669 0.183246167 0.018624702 2.48E-10 9.606252679 -0.205968776 AGGTEIGK(ac)TLAEK ddPTM_HeLa_SAHA_4h_R1 2 AGGTEIGKTLAEK 13 1 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 0 1 ; AGGTEIGK(1)TLAEK;AGGTEIGK(1)TLAEK 264.3 1.53E-83 12718400 2354.2 2634.6 2410.9 2524.3 2921.2 2640.8 2857.6 2950.5 2419 2213.23 FALSE TRUE FALSE 2601.825557 2719.962769 2739.444897 2573.161477 2697.378287 2415.788983 2536.055327 2875.030482 2402.165982 2308.653177 1.12698849 1.178159975 1.186598717 1.114572558 1.168377439 1.046406194 1.098499919 1.245328017 1.04050535 1 11.17283574 -8.860193481 0.741938885 1.000041352 1.143213647 0.465567138 0.052988963 0.421979637 0.436340526 0.033349892 0.011205346 1.38E-09 8.860193481 0.143172295 AGHPPAVK(ac)AGGMR ddPTM_HeLa_SAHA_4h_R1 3 AGHPPAVKAGGMR 13 1 P51397;B4DQ75 P51397 DAP Death-associated protein 1 0 1 ;; AGHPPAVK(1)AGGMR;AGHPPAVK(1)AGGMR;AGHPPAVK(1)AGGMR 122.69 0.0020723 8835080 181.49 169.03 147.32 0 128.96 117.52 263.92 219.43 99.049 0 FALSE TRUE FALSE 200.5799509 174.5066829 167.3960024 0 119.0791127 107.5066349 234.223027 213.8172983 98.35970994 0 0 AGIIASAR ddPTM_HeLa_SAHA_4h_R1 1 AGIIASAR 8 0 P13639 P13639 EEF2 Elongation factor 2 0 0 119.56 0.02197 8649700 1199.1 1034.9 1235.5 1344.7 1229.9 1162.9 1152.4 1088.9 1177.1 1071.1 FALSE FALSE TRUE 1325.22684 1068.431439 1403.867506 1370.728613 1135.665328 1063.814378 1022.728919 1061.047515 1168.908465 1117.280363 1.186118439 0.956278723 1.256504233 1.226843914 1.016455104 0.952146313 0.915373574 0.949669886 1.046208726 1 10.12577554 -5.526035176 24.85062207 1.102501895 0.944628673 0.423944189 0.090644332 76.61452978 603186.9199 0.014994074 0.030116081 2.98E-06 5.526035176 -0.157873222 AGK(ac)DSGK(ac)AK ddPTM_HeLa_SAHA_4h_R1 1 AGKDSGKAK 9 2 P0C0S5;A0A494C189;Q71UI9;C9J0D1;Q71UI9-3;Q71UI9-2;C9J386;Q71UI9-5 P0C0S5;Q71UI9 H2AFZ;H2AFV Histone H2A.Z;Histone H2A.V;Histone H2A 0 2 AGK(1)DSGK(1)AK 150.27 2.36E-05 59761000 935.5 1276.5 2262 4362.3 2274.7 1574.5 1441.9 854.24 441.64 760.19 FALSE TRUE FALSE 1033.900182 1317.859438 2570.25358 4446.738624 2100.412977 1440.343742 1279.653617 832.3897777 438.5665913 792.9655112 1.303840038 1.661937901 3.241318246 5.607732697 2.64880748 1.816401498 1.613756966 1.049717505 0.553071458 1 9.631114309 -6.94394818 4.59731757 1.156365877 2.70578952 0.29713601 1.177644171 0.221155914 9.78210539 0.205173365 0.269945727 1.14E-07 6.94394818 1.549423643 AGK(ac)DSGK(ac)AK(ac)AK ddPTM_HeLa_SAHA_4h_R1 1 AGKDSGKAKAK 11 3 Q71UI9;C9J0D1;Q71UI9-3;Q71UI9-2;C9J386;Q71UI9-5 Q71UI9 H2AFV Histone H2A.V;Histone H2A 0 3 AGK(1)DSGK(1)AK(1)AK 153.54 5.75E-07 2589300 899.49 1467.6 2669.7 2828.7 1951 1100.1 898.65 527.26 352.29 399.31 FALSE TRUE FALSE 994.1024852 1515.151203 3033.512813 2883.453579 1801.514801 1006.365291 797.5315369 513.7734527 349.8383852 416.5262083 2.386650505 3.637589119 7.282885813 6.922622206 4.325093513 2.416091163 1.914721141 1.23347209 0.839895253 1 8.702263464 -4.672933204 2.807785858 2.825003474 1.370087304 0.041152077 2.17177481 0.858277358 12.88923565 0.369818261 1.884645107 2.12E-05 4.672933204 -1.45491617 AGK(ac)DSGK(ac)AK(ac)TK ddPTM_HeLa_SAHA_4h_R1 2 AGKDSGKAKTK 11 3 P0C0S5;A0A494C189 P0C0S5 H2AFZ Histone H2A.Z 0 3 ; AGK(1)DSGK(1)AK(1)TK;AGK(1)DSGK(1)AK(1)TK 142.76 2.94E-05 60700000 4287 7932.3 13980.4 13507.4 9053.2 5416.2 3974.1 3498.5 2685.2 2260.75 FALSE TRUE FALSE 4737.926329 8189.311725 15885.57611 13768.85526 8359.545772 4954.709289 3526.923809 3409.013436 2666.513475 2358.221996 2.009109548 3.472663616 6.736251349 5.838659499 3.544851072 2.101035991 1.495586003 1.445586311 1.130730474 1 11.20348382 -4.891530153 4.255222532 2.509229467 1.477319997 0.025953731 1.881696706 0.726238391 23.26845169 0.324130115 1.059393311 1.28E-05 4.891530153 -1.03190947 AGKPVICATQMLESMIK ddPTM_HeLa_SAHA_4h_R1 5 AGKPVICATQMLESMIK 17 1 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BR70 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;;;; ;;;; 169.02 9.16E-13 12960100 3588.27 3670.49 4014.84 4249.23 4309.27 4446.64 5004.87 3693.97 3824.22 4661.59 FALSE FALSE TRUE 3965.700702 3789.416284 4561.961487 4331.479991 3979.094664 4067.761256 4441.708856 3599.483596 3797.606942 4862.573958 0.815555863 0.77930255 0.938178324 0.890779252 0.818310364 0.836544861 0.913448082 0.740242437 0.780986978 1 12.24750448 -9.299471095 0.942059069 1.003418813 0.844295592 0 0.088096594 0.377049663 0.57970812 0.041950929 0.010341933 5.02E-10 9.299471095 -0.159123221 AGLES(ph)GAEPGDGDS(ph)DTTK ddPTM_HeLa_SAHA_4h_R1 2 AGLESGAEPGDGDSDTTK 18 0 O60832 O60832 DKC1 H/ACA ribonucleoprotein complex subunit 4 2 0 AGLES(1)GAEPGDGDS(0.841)DT(0.13)T(0.029)K;AGLES(1)GAEPGDGDS(0.885)DT(0.098)T(0.018)K ; 149.42 0.0010085 16649400 2043.14 2341.4 2000.13 2430.81 2304.46 3048.3 2616.3 2247.18 2577.38 2017.24 TRUE FALSE FALSE 2258.046839 2417.262896 2272.6973 2477.861843 2127.892773 2788.567691 2321.907038 2189.700389 2559.443803 2104.213089 1.073107496 1.148772864 1.080069938 1.177571728 1.011253463 1.325230656 1.103456228 1.040626732 1.216342497 1 11.03906509 -7.982483877 0.577006357 1.003507583 1.136207351 0 0.105176882 0.682683455 0.526332568 0.036543881 0.023868776 1.04E-08 7.982483877 0.132699768 AGLESGAEPGDGDS(ph)DTTK ddPTM_HeLa_SAHA_4h_R1 3 AGLESGAEPGDGDSDTTK 18 0 O60832 O60832 DKC1 H/ACA ribonucleoprotein complex subunit 4 1 0 AGLES(0.001)GAEPGDGDS(0.999)DTTK;AGLESGAEPGDGDS(0.979)DT(0.02)T(0.001)K;AGLESGAEPGDGDS(0.84)DT(0.143)T(0.017)K ;; 276.14 1.06E-60 152098000 6136.2 6087.7 5042.52 6698.3 6326 7433.61 7315.7 6585.1 7149.17 6515.82 TRUE FALSE FALSE 6781.63367 6284.945474 5729.688365 6827.955282 5841.303247 6800.224608 6492.518182 6416.662677 7099.418344 6796.748888 0.997776111 0.92469879 0.843004275 1.004591371 0.859426079 1.00051138 0.95523879 0.944078233 1.044531505 1 12.73062911 -7.266847134 23.16950111 0.998949835 0.932977639 0.335321618 0.050952784 144.9743799 621140.9178 0.007712476 0.008965855 5.41E-08 7.266847134 -0.065972196 AGLESGAEPGDGDS(ph)DTTKK ddPTM_HeLa_SAHA_4h_R1 2 AGLESGAEPGDGDSDTTKK 19 1 O60832 O60832 DKC1 H/ACA ribonucleoprotein complex subunit 4 1 0 AGLESGAEPGDGDS(0.616)DT(0.192)T(0.192)KK;AGLESGAEPGDGDS(0.649)DT(0.176)T(0.176)KK ; 128.67 6.24E-05 66958000 6162.6 5624.2 4761.4 6517 6699.1 7052.5 6946.6 6550.2 6910.9 6168.5 TRUE FALSE FALSE 6810.810543 5806.42777 5410.258796 6643.145959 6185.816405 6451.587324 6164.950286 6382.655369 6862.806484 6434.454223 1.058490791 0.902396314 0.840826371 1.032433479 0.961358367 1.002662712 0.958115494 0.991949767 1.066571654 1 12.65160207 -7.273125925 24.94286308 1.027620651 0.956331689 0.342178448 0.053589828 726.7894127 1551200.483 0.009437498 0.010839618 5.33E-08 7.273125925 -0.071288963 AGLESGAEPGDGDS(ph)DTTKKK ddPTM_HeLa_SAHA_4h_R1 3 AGLESGAEPGDGDSDTTKKK 20 2 O60832 O60832 DKC1 H/ACA ribonucleoprotein complex subunit 4 1 0 AGLESGAEPGDGDS(0.763)DT(0.118)T(0.118)KKK;AGLESGAEPGDGDS(0.752)DT(0.112)T(0.136)KKK;AGLESGAEPGDGDS(0.983)DT(0.008)T(0.008)KKK ;; 92.428 0.00082541 96837300 18885.8 11911.9 16823.3 17954.2 15772.7 14825.5 19675.8 20594.2 10796 14762.1 TRUE FALSE FALSE 20872.2951 12297.85338 19115.89171 18301.7295 14564.19913 13562.28399 17461.8272 20067.43018 10720.86976 15398.56637 1.355470021 0.798636255 1.241407235 1.188534637 0.945815265 0.880749783 1.133990449 1.3032012 0.696225187 1 13.91050842 -5.798531533 24.99696863 1.148421632 1.05757173 0 0.226255179 464.7563188 313205.2129 0.029378349 0.05325387 1.59E-06 5.798531533 -0.090849902 AGLESGAEPGDGDSDT(ph)TK ddPTM_HeLa_SAHA_4h_R1 1 AGLESGAEPGDGDSDTTK 18 0 O60832 O60832 DKC1 H/ACA ribonucleoprotein complex subunit 4 1 0 AGLES(0.06)GAEPGDGDS(0.159)DT(0.626)T(0.155)K 128.71 5.66E-06 0 772.15 766.71 920.55 1047.4 1077.1 1331.1 940.76 1055.7 1095.9 1020.8 TRUE FALSE FALSE 853.3682798 791.5519071 1045.99776 1067.673942 994.5728307 1217.682791 834.9032089 1028.696723 1088.273543 1064.811684 0.80142648 0.743372673 0.98233122 1.002688041 0.934036361 1.143566332 0.784085319 0.966083241 1.022033811 1 10.05638259 AGLGS(ph)PERPPKT(ph)SPGSPR ddPTM_HeLa_SAHA_4h_R1 1 AGLGSPERPPKTSPGSPR 18 2 Q9H6F5;H0YG79 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 2 0 AGLGS(0.931)PERPPKT(0.538)S(0.461)PGS(0.07)PR 78.354 0.0073376 28713000 4490.3 4406.6 4331.1 3776 3826.2 4170.3 4313.2 4270 4610.3 4781.5 TRUE FALSE FALSE 4962.610356 4549.376731 4921.319753 3849.08994 3533.037383 3814.966979 3827.867384 4160.779583 4578.216547 4987.653865 0.9949789 0.912127596 0.986700338 0.771723549 0.70835657 0.764882063 0.767468531 0.834215785 0.917909837 1 12.28414563 -6.2586894 6.230245164 0.989280443 0.764970305 0.823242132 0.043826295 0.034754047 6.631688434 0.005904989 0.009475802 5.51E-07 6.2586894 -0.224310139 AGLLNTS(ph)GTK ddPTM_HeLa_SAHA_4h_R1 2 AGLLNTSGTK 10 0 A0A087WT26;H3BQD9;Q08AM6 A0A087WT26 VAC14 Protein VAC14 homolog 1 0 AGLLNT(0.004)S(0.85)GT(0.145)K;AGLLNT(0.002)S(0.879)GT(0.119)K ; 116.54 0.0036475 8391500 5895.8 6911.9 5532.5 6142.6 7532.9 7721 7491 6419.9 6764 6405.1 TRUE FALSE FALSE 6515.947295 7135.850095 6286.440288 6261.498905 6955.730829 7063.127363 6648.092965 6255.688254 6716.928773 6681.255207 0.975257956 1.068040342 0.940907074 0.937174036 1.041081446 1.057155751 0.995036525 0.936304341 1.005339351 1 12.70590345 -5.716706008 24.99956577 0.987540486 1.010066089 0.041467462 0.045454013 350.2175764 195719.9991 0.006537922 0.013075799 1.92E-06 5.716706008 0.022525603 AGLLQVYIHTQK ddPTM_HeLa_SAHA_4h_R1 2 AGLLQVYIHTQK 12 0 A0A087WVM7;V9GYP5;A0A087WWQ2;Q92979 A0A087WVM7 EMG1 Ribosomal RNA small subunit methyltransferase NEP1 0 0 ; ; 113.61 0.0014412 3464500 2443.37 3129.6 3547.62 3239.9 3996.6 3743.6 3746.1 2396.14 3803.6 3827.6 FALSE FALSE TRUE 2700.374867 3231.001093 4031.071178 3302.612949 3690.381371 3424.624219 3324.578969 2334.850208 3777.130438 3992.626568 0.676340454 0.809241996 1.009628902 0.827178023 0.924299157 0.857737171 0.832679669 0.58479053 0.946026475 1 11.96312243 -9.629312655 1.464255921 0.999478443 0.805223691 0.231719181 0.112813999 0.450651676 1.743286036 0.084349421 0.019462947 2.35E-10 9.629312655 -0.194254752 AGLQFPVGR ddPTM_HeLa_SAHA_4h_R1 6 AGLQFPVGR 9 0 P16104;A0A0U1RR32;A0A0U1RRH7;Q99878;Q96KK5;Q16777;Q6FI13;P20671;P0C0S8;Q9BTM1;Q9BTM1-2;A0A3B3IS11;Q96QV6;Q8IUE6;Q93077;Q7L7L0;P04908;P0C0S5;A0A494C189;Q71UI9;C9J0D1;Q71UI9-2;Q71UI9-5 P16104;A0A0U1RR32;Q93077;P0C0S5;Q71UI9 H2AFX;HIST1H2AJ;HIST1H2AH;HIST2H2AC;HIST2H2AA3;HIST1H2AD;HIST1H2AG;H2AFJ;HIST1H2AA;HIST2H2AB;HIST1H2AC;HIST3H2A;HIST1H2AB;H2AFZ;H2AFV Histone H2AX;Histone H2A type 1-J;Histone H2A type 1-H;Histone H2A type 2-C;Histone H2A type 2-A;Histone H2A type 1-D;Histone H2A type 1;Histone H2A.J;Histone H2A type 1-A;Histone H2A type 2-B;Histone H2A type 1-C;Histone H2A type 3;Histone H2A type 1-B/E;Histone H2A.Z;Histone H2A.V;Histone H2A 0 0 ;;;;; ;;;;; 153.73 3.15E-05 85358400 19306.2 18111.5 18310 20398.8 20496.8 16500.4 23058.9 17119.4 13846.9 16710.1 FALSE FALSE TRUE 21336.9147 18698.32448 20805.19145 20793.64827 18926.33961 15094.47309 20464.25188 16681.51054 13750.5383 17430.55419 1.224109943 1.072732644 1.193604702 1.192942465 1.085813991 0.865977807 1.174044822 0.957026974 0.788875566 1 14.08933082 -5.50839956 24.75253098 1.119138247 1.009748783 0.017725761 0.140668079 809.7782131 1384334.375 0.015686593 0.033915297 3.10E-06 5.50839956 -0.109389464 AGLREGS(ph)EEK ddPTM_HeLa_SAHA_4h_R1 1 AGLREGSEEK 10 1 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 AGLREGS(1)EEK 113.61 0.02023 15989000 1435.2 1415.1 1275.8 1364.4 1752.3 1545.7 1576 1346.1 1536.1 1363.8 TRUE FALSE FALSE 1586.160921 1460.950168 1449.65938 1390.809935 1618.039153 1413.997664 1398.664332 1311.668711 1525.410155 1422.600092 1.11497316 1.026957735 1.019021008 0.977653483 1.137381588 0.993953024 0.983174639 0.922022091 1.072269124 1 10.47431445 -4.697086747 1.971221289 1.049551372 0.929498838 0.402245799 0.04839576 0.337418955 2.312928312 0.008017179 0.053482496 2.01E-05 4.697086747 -0.120052534 AGLS(ph)PAEPLLSR ddPTM_HeLa_SAHA_4h_R1 2 AGLSPAEPLLSR 12 0 O95402;B8ZZF3 O95402 MED26 Mediator of RNA polymerase II transcription subunit 26 1 0 AGLS(0.98)PAEPLLS(0.02)R;AGLS(1)PAEPLLSR ; 108.32 0.0034593 11860900 2749.83 2511.23 2580.62 2629.85 2592.58 3869.6 3161.52 3196.32 2507.61 2691.46 TRUE FALSE FALSE 3039.069736 2592.5955 2932.293454 2680.75455 2393.93708 3539.88831 2805.777449 3114.562763 2490.159338 2807.502012 1.082481766 0.923452766 1.04444928 0.954854008 0.852692917 1.260867595 0.99938573 1.109371516 0.886966181 1 11.45507134 -5.257330186 24.97934106 1.014111054 1.110826006 0.270885182 0.097303437 439.1882624 2669759.71 0.012606548 0.030841697 5.53E-06 5.257330186 0.096714952 AGLS(ph)PANCQSDR ddPTM_HeLa_SAHA_4h_R1 4 AGLSPANCQSDR 12 0 Q14692 Q14692 BMS1 Ribosome biogenesis protein BMS1 homolog 1 0 AGLS(0.959)PANCQS(0.041)DR;AGLS(0.969)PANCQS(0.031)DR;AGLS(0.999)PANCQS(0.001)DR;AGLS(1)PANCQSDR ;;; 190.35 6.06E-07 46401500 4749.42 5945.83 4674.75 5710.19 6928.41 7499.1 7039.99 5911.42 8683.2 6375.57 TRUE FALSE FALSE 5248.985787 6138.478793 5311.800585 5820.718985 6397.556723 6860.134491 6247.831797 5760.214436 8622.772904 6650.452024 0.789267522 0.923016777 0.798712714 0.875236595 0.961973216 1.031529055 0.93945972 0.866138785 1.296569447 1 12.69923669 -5.757288513 24.79875321 0.889988398 0.954877946 0 0.145338651 178.1623048 1064388.341 0.013289424 0.025823723 1.75E-06 5.757288513 0.064889548 AGLS(ph)PANCQSDRVNLEK ddPTM_HeLa_SAHA_4h_R1 2 AGLSPANCQSDRVNLEK 17 1 Q14692 Q14692 BMS1 Ribosome biogenesis protein BMS1 homolog 1 0 AGLS(0.997)PANCQS(0.003)DRVNLEK;AGLS(0.991)PANCQS(0.009)DRVNLEK ; 127.88 0.0010758 12086900 2490.8 1897.17 2259.17 2107.5 2321.8 2175.35 2359.3 2555.6 1828.36 2159.02 TRUE FALSE FALSE 2752.793772 1958.639553 2567.037922 2148.29371 2143.904186 1989.997942 2093.825355 2490.231452 1815.636294 2252.105918 1.222319852 0.869692467 1.139838896 0.953904385 0.951955309 0.883616497 0.929718863 1.105734607 0.806194895 1 11.13705896 -6.597846677 1.278258228 1.097130215 0.959954637 0 0.139013643 0.515603431 1.690961469 0.021022236 0.034217929 2.52E-07 6.597846677 -0.137175578 AGMSSNQS(ph)ISSPVLDAVPR ddPTM_HeLa_SAHA_4h_R1 4 AGMSSNQSISSPVLDAVPR 19 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 AGMS(0.001)S(0.001)NQS(0.611)IS(0.346)S(0.041)PVLDAVPR;AGMSSNQS(0.512)IS(0.244)S(0.244)PVLDAVPR;AGMSSNQS(0.848)IS(0.037)S(0.114)PVLDAVPR;AGMSS(0.002)NQS(0.616)IS(0.096)S(0.286)PVLDAVPR ;;; 128.82 0.00020247 177831000 4999.54 5968.2 4739.32 5921.4 5704.2 7254.6 5694.32 5520.8 7073 6771.9 TRUE FALSE FALSE 5525.414556 6161.573596 5385.169848 6036.017259 5267.145428 6636.467267 5053.580127 5379.58593 7023.778417 7063.86975 0.782207876 0.872266026 0.762354069 0.854491585 0.745645887 0.939494569 0.715412416 0.761563579 0.994324452 1 12.78624303 -9.386638471 0.658929217 1.03137204 0.801781925 0.593009577 0.063934438 0.594700081 0.36070345 0.081724149 0.012740432 4.11E-10 9.386638471 -0.229590115 AGMSSNQSIS(ph)SPVLDAVPR ddPTM_HeLa_SAHA_4h_R1 1 AGMSSNQSISSPVLDAVPR 19 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 AGMSSNQS(0.011)IS(0.494)S(0.494)PVLDAVPR 231.86 1.26E-32 37221000 1698.4 1736.9 1381.4 1937.9 1999.1 2496 1800.2 2214.2 2544.6 2232.8 TRUE FALSE FALSE 1877.045505 1793.1767 1569.649998 1975.410857 1845.92939 2283.326758 1597.636758 2157.56397 2526.891921 2329.066935 0.805921666 0.76991205 0.673939411 0.848155468 0.79256176 0.980361158 0.685955708 0.926364089 1.084937441 1 11.18553639 -9.046325898 0.854365207 0.998966567 0.807641516 0.469962086 0.094819555 0.462778514 0.619373015 0.054304139 0.016825403 8.99E-10 9.046325898 -0.191325051 AGMSSNQSIS(ph)SPVLDAVPRT(ph)PSR ddPTM_HeLa_SAHA_4h_R1 3 AGMSSNQSISSPVLDAVPRTPSR 23 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 AGMSSNQSIS(0.792)S(0.208)PVLDAVPRT(0.751)PS(0.249)R;AGMSSNQSIS(0.556)S(0.444)PVLDAVPRT(0.89)PS(0.11)R;AGMSSNQSIS(0.805)S(0.194)PVLDAVPRT(0.888)PS(0.112)R ;; 165.94 2.31E-07 118851000 3591.85 3592.48 3204.83 3750.83 3973.2 4297.9 3917.15 3548.33 4295.4 3523.52 TRUE FALSE FALSE 3969.657263 3708.878709 3641.567542 3823.432738 3668.774274 3931.694741 3476.381973 3457.568857 4265.507962 3675.436191 1.080050654 1.009098925 0.990785135 1.04026639 0.998187449 1.069721942 0.945842015 0.940723407 1.160544692 1 11.84369976 -4.744103882 24.3297954 1.03220409 0.943282577 0.37887261 0.049688942 109.9804875 154350.3061 0.004902867 0.018246221 1.80E-05 4.744103882 -0.088921513 AGMSSNQSISS(ph)PVLDAVPR ddPTM_HeLa_SAHA_4h_R1 7 AGMSSNQSISSPVLDAVPR 19 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 AGMS(0.331)S(0.037)NQS(0.031)IS(0.031)S(0.57)PVLDAVPR;AGMSSNQS(0.001)IS(0.239)S(0.76)PVLDAVPR;AGMS(0.007)S(0.022)NQS(0.256)IS(0.162)S(0.553)PVLDAVPR;AGMSSNQS(0.084)IS(0.138)S(0.777)PVLDAVPR;AGMSSNQSIS(0.003)S(0.997)PVLDAVPR;AGMSSNQS(0.001)IS(0.026)S(0.973)PVLDAVPR;AGMSSNQSIS(0.009)S(0.991)PVLDAVPR ;;;;;; 276.3 1.58E-64 458158000 6670.97 8275.14 7250.64 8054.28 8512.11 8939.84 7565.16 6873.16 11071.34 7916.85 TRUE FALSE FALSE 7372.653232 8543.259966 8238.719459 8210.182236 7859.913971 8178.115338 6713.908286 6697.354519 10994.29364 8258.184148 0.892769294 1.0345204 0.997642982 0.994187353 0.951772669 0.990304308 0.813000554 0.810996025 1.33132096 1 13.01160887 -4.754974302 24.99483039 0.963450963 0.811998204 0.221398157 0.122345514 75.68405121 292595.8507 0.006864456 0.024498429 1.76E-05 4.754974302 -0.151452759 AGMSSNQSISS(ph)PVLDAVPRT(ph)PSR ddPTM_HeLa_SAHA_4h_R1 3 AGMSSNQSISSPVLDAVPRTPSR 23 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 AGMS(0.002)S(0.005)NQS(0.013)IS(0.451)S(0.53)PVLDAVPRT(0.852)PS(0.148)R;AGMS(0.002)S(0.003)NQS(0.031)IS(0.438)S(0.526)PVLDAVPRT(0.847)PS(0.153)R;AGMSSNQSIS(0.431)S(0.569)PVLDAVPRT(0.896)PS(0.104)R ;; 171.56 6.63E-10 113476000 2412.37 2991.25 2360.42 2304.97 2988.87 3530.56 2767.15 2730.11 3011.84 2604 TRUE FALSE FALSE 2666.114145 3088.168463 2682.085745 2349.586027 2759.863426 3229.736426 2455.782999 2660.277739 2990.88036 2716.271184 0.981534598 1.136914635 0.987414571 0.865004217 1.016048561 1.189033129 0.904100818 0.979385915 1.10109785 1 11.40741181 -5.53559094 24.97888329 0.99282011 1.027228546 0 0.096261319 756.8320055 1487137.393 0.01286103 0.02573361 2.91E-06 5.53559094 0.034408436 AGMSSNQSISS(ph)PVLDAVPRT(ph)PSRER ddPTM_HeLa_SAHA_4h_R1 1 AGMSSNQSISSPVLDAVPRTPSRER 25 2 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 AGMSS(0.001)NQS(0.019)IS(0.234)S(0.663)PVLDAVPRT(0.809)PS(0.274)RER 59.918 0.0064269 11650000 862.7 576.81 1169.5 899.99 729.29 993.67 1055.9 1144.5 549.66 897.09 TRUE FALSE FALSE 953.4427442 595.4990225 1328.87337 917.4106079 673.4119578 909.0037258 937.087353 1115.225347 545.8348713 935.7679402 1.018888021 0.636374679 1.420088584 0.980382602 0.719635637 0.971398663 1.001409979 1.191775545 0.58330153 1 9.870006992 -4.262971267 4.564203715 0.987106782 1.204638694 0.052020328 0.233785835 0.364438092 19.65712646 0.025049247 0.252871646 5.46E-05 4.262971267 0.217531912 AGMSSNQSISSPVLDAVPRT(ph)PSR ddPTM_HeLa_SAHA_4h_R1 3 AGMSSNQSISSPVLDAVPRTPSR 23 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 AGMSSNQSISSPVLDAVPRT(0.5)PS(0.5)R;AGMSSNQS(0.001)IS(0.021)S(0.001)PVLDAVPRT(0.731)PS(0.245)R;AGMSSNQSISSPVLDAVPRT(0.5)PS(0.5)R ;; 186.31 3.36E-15 47523000 2740.69 3005.58 2387.33 2686.58 3351.89 3792.09 3062.18 2996.18 3485.51 3223.04 TRUE FALSE FALSE 3028.968349 3102.962764 2712.6629 2738.582641 3095.068912 3468.982598 2717.615447 2919.542054 3461.254052 3362.001028 0.900942125 0.922951165 0.806859628 0.814569246 0.920603202 1.031820803 0.808332724 0.868394159 1.029522009 1 11.71510445 -8.77662654 0.640577419 1.00258695 0.881565379 0.382568305 0.065459103 0.778927816 0.599990469 0.048631758 0.0158215 1.67E-09 8.77662654 -0.121021571 AGMSSNQSISSPVLDAVPRT(ph)PSRER ddPTM_HeLa_SAHA_4h_R1 1 AGMSSNQSISSPVLDAVPRTPSRER 25 2 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 AGMSSNQSISSPVLDAVPRT(0.5)PS(0.5)RER 84.03 0.0001506 5270200 1231.6 737.37 1240.9 1133.4 1038.4 987.37 1177 1134.4 669.1 1046.5 TRUE FALSE FALSE 1361.145339 761.2612718 1410.00339 1155.338596 958.8380163 903.2405212 1044.560862 1105.383691 664.4436786 1091.619736 1.246904296 0.697368549 1.291661686 1.05837093 0.878362661 0.827431468 0.956890781 1.012608744 0.608676865 1 10.09225467 -5.852652916 5.556540239 1.096489284 0.915582006 0 0.220903055 0.250530758 12.15250045 0.024330937 0.044814778 1.40E-06 5.852652916 -0.180907277 AGMTSS(ph)PDATTGQTFG ddPTM_HeLa_SAHA_4h_R1 1 AGMTSSPDATTGQTFG 16 0 Q9UQR1;G5E9X2;Q9UQR1-2 Q9UQR1 ZNF148 Zinc finger protein 148 1 0 AGMT(0.026)S(0.12)S(0.854)PDATTGQTFG 97.957 0.0030568 0 1939.3 1960.6 1709.8 1503.8 1505.7 1816 1558.1 1773 1680.2 1907.1 TRUE FALSE FALSE 2143.284472 2024.124726 1942.80264 1532.908224 1390.333591 1661.266583 1382.778487 1727.649227 1668.507351 1989.324414 1.077393137 1.017493533 0.976614285 0.77056724 0.698897365 0.835090834 0.695099541 0.868460275 0.838730646 1 10.95806285 -6.347329161 3.169009985 1.035184991 0.766854926 0.592713218 0.081820615 0.068705369 1.336449488 0.008309761 0.013265694 4.49E-07 6.347329161 -0.268330065 AGNNMLLVGVHGPR ddPTM_HeLa_SAHA_4h_R1 4 AGNNMLLVGVHGPR 14 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ;;; ;;; 156.14 4.69E-07 36971100 6448.88 6460.01 7089.52 7577.18 8060.58 7724.48 7952.77 5318.67 5696.57 6563.61 FALSE FALSE TRUE 7127.202787 6669.318563 8055.642865 7723.847276 7442.980102 7066.310847 7057.903389 5182.626123 5656.927106 6846.599349 1.040984352 0.974106739 1.176590371 1.128129 1.087106127 1.032090603 1.030862627 0.756963546 0.826238957 1 12.74117188 -4.260698452 5.401769973 1.0407549 0.745858924 0.458383426 0.089682541 0.07504364 8.037996543 0.008892756 0.08152111 5.49E-05 4.260698452 -0.294895975 AGNS(ph)DSEEDDANGRVELILEPK ddPTM_HeLa_SAHA_4h_R1 1 AGNSDSEEDDANGRVELILEPK 22 1 A0A0A0MR88;A0A096LPC5;Q9Y4E1-6;Q9Y4E1;J3KP36;Q9Y4E1-3;Q9Y4E1-2;Q9Y4E1-1;Q9Y4E1-5;A0A0A0MT65;E7ESD2;Q641Q2-2;Q641Q2;F8W7U3;A0A087WYF6 A0A0A0MR88;E7ESD2 FAM21C;FAM21A WASH complex subunit FAM21C;WASH complex subunit FAM21A 1 0 AGNS(0.867)DS(0.133)EEDDANGRVELILEPK 65.125 0.0031327 7992500 570.39 631.55 1034.6 612.59 933.94 927.54 930.93 824.78 937.24 799.3 TRUE FALSE FALSE 630.3862372 652.0126344 1175.5899 624.4475653 862.381719 848.5083738 826.1793063 803.6833219 930.7176705 833.7617347 0.756074801 0.782013143 1.409983034 0.748952056 1.034326335 1.017686874 0.990905761 0.96392445 1.116287342 1 9.703491351 AGNWPGS(ph)PQVSGPSPAAR ddPTM_HeLa_SAHA_4h_R1 1 AGNWPGSPQVSGPSPAAR 18 0 H7C3E5;O60244 H7C3E5 MED14 Mediator of RNA polymerase II transcription subunit 14 1 0 AGNWPGS(0.965)PQVS(0.023)GPS(0.013)PAAR 138.77 0.00012584 6733500 1174.8 1298 1176.8 1296 1331.8 1486.1 1372.5 1257.6 1095.1 1468.2 TRUE FALSE FALSE 1298.370854 1340.056052 1337.168175 1321.085954 1229.757772 1359.475919 1218.062688 1225.432413 1087.47911 1531.501287 0.847776535 0.874995054 0.873109404 0.862608452 0.802975343 0.887675336 0.795338991 0.800151083 0.710073912 1 10.58073086 -13.52287875 0.184235578 1.699481014 0.806643713 0 0.096326331 15.2788327 0.177675067 3.822939748 0.035892334 3.00E-14 13.52287875 -0.8928373 AGPDLPSLPSHALEDEGWAAAAPS(ph)PGSAR ddPTM_HeLa_SAHA_4h_R1 2 AGPDLPSLPSHALEDEGWAAAAPSPGSAR 29 0 Q9H3Q1;Q9H3Q1-2 Q9H3Q1 CDC42EP4 Cdc42 effector protein 4 1 0 AGPDLPSLPSHALEDEGWAAAAPS(0.91)PGS(0.09)AR;AGPDLPSLPSHALEDEGWAAAAPS(0.656)PGS(0.344)AR ; 223.49 1.09E-37 124555000 2163.31 2174.67 2252.5 2328.05 2674.23 2774.57 2722.22 2512.3 1759.7 2083.67 TRUE FALSE FALSE 2390.856871 2245.130735 2559.458969 2373.112774 2469.331075 2538.161027 2415.908641 2448.039004 1747.454104 2173.507211 1.099999512 1.032952973 1.177570958 1.091835703 1.136104386 1.167772075 1.111525478 1.126308204 0.803978977 1 11.08580917 -9.401450032 0.257624452 0.927069467 1.145972292 0.528579528 0.071545381 2.48265051 0.215831688 0.172776539 0.028371963 3.97E-10 9.401450032 0.218902825 AGPDLPSLPSHALEDEGWAAAAPSPGS(ph)AR ddPTM_HeLa_SAHA_4h_R1 2 AGPDLPSLPSHALEDEGWAAAAPSPGSAR 29 0 Q9H3Q1;Q9H3Q1-2 Q9H3Q1 CDC42EP4 Cdc42 effector protein 4 1 0 AGPDLPSLPSHALEDEGWAAAAPS(0.346)PGS(0.654)AR;AGPDLPSLPSHALEDEGWAAAAPS(0.211)PGS(0.789)AR ; 230.52 7.19E-47 119098000 2847.2 3197 2603.3 3329.8 4101.8 4320.4 3709.6 4112.3 3426.7 3634.7 TRUE FALSE FALSE 3146.681559 3300.584898 2958.064167 3394.253094 3787.52097 3952.277614 3292.186045 4007.113321 3402.853316 3791.409705 0.829950284 0.870542926 0.780201666 0.8952483 0.99897433 1.042429577 0.868327694 1.056892721 0.897516644 1 11.88851865 -5.764356437 24.90608624 0.900579753 0.986473595 0.34439485 0.072462722 98.19876816 838440.6475 0.013099712 0.024514898 1.72E-06 5.764356437 0.085893841 AGPGS(ph)SPLFSLLPGYR ddPTM_HeLa_SAHA_4h_R1 1 AGPGSSPLFSLLPGYR 16 0 Q9H0W8-2;Q9H0W8 Q9H0W8-2 SMG9 Protein SMG9 1 0 AGPGS(0.5)S(0.5)PLFS(0.001)LLPGYR 178.67 3.12E-09 38417000 721.12 983.91 791.21 776.57 948.28 873.97 957.51 845.02 866.46 1140 TRUE FALSE FALSE 796.9707102 1015.78933 899.0319784 791.6016353 875.6229913 799.5028392 849.7684548 823.405612 860.4302343 1189.150979 0.67020145 0.854213929 0.756028456 0.665686401 0.736342993 0.672330809 0.71460098 0.692431513 0.723566855 1 10.21571618 -9.49771799 0.658373195 1.056643507 0.714257106 0 0.101283312 0.417969884 0.235892857 0.087680206 0.011579512 3.18E-10 9.49771799 -0.3423864 AGPGTLSVTIEGPSK ddPTM_HeLa_SAHA_4h_R1 1 AGPGTLSVTIEGPSK 15 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7 O75369-8 FLNB Filamin-B 0 0 106.26 0.011984 869290 0 191.67 0 0 135 0 72.344 79.437 0 0 FALSE FALSE TRUE 0 197.8802338 0 0 124.6563292 0 64.20366272 77.40511656 0 0 0 AGPLSGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 AGPLSGKK 8 1 P17844-2;P17844;J3KTA4;J3QRQ7;X6RLV5;J3QR02;J3KRX8;J3QKN9;J3KTQ4 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 0 1 ; AGPLSGK(1)K;AGPLSGK(1)K 128.61 0.00032962 95949000 7101.8 7102.6 8906.5 9672.7 10772.3 7035.1 12863.7 7494.7 2594.7 3787 FALSE TRUE FALSE 7848.799908 7332.7289 10120.23144 9859.929095 9946.928701 6435.669902 11416.24262 7302.996426 2576.643271 3950.276103 1.986899068 1.856257312 2.561904832 2.496010111 2.518033788 1.629169641 2.889985997 1.848730629 0.652269159 1 11.94773778 -8.648704286 0.489344763 0.894142612 2.33454186 0.676459071 0.385295148 0.506272236 0.230260804 0.334715719 0.105363604 2.25E-09 8.648704286 1.440399248 AGQAVDDFIEK ddPTM_HeLa_SAHA_4h_R1 2 AGQAVDDFIEK 11 0 P52209-2;P52209;K7EMN2;K7EM49;K7EPF6 P52209-2 PGD "6-phosphogluconate dehydrogenase, decarboxylating" 0 0 ; ; 167.6 0.00075478 25450000 4254.2 3836.2 3701.7 4162.3 3839.3 5070 4534.2 4513.4 4097.3 3747.2 FALSE FALSE TRUE 4701.676275 3960.495397 4206.148398 4242.867335 3545.133663 4638.007477 4023.999883 4397.953763 4068.786556 3908.76013 1.202856179 1.013235723 1.076082506 1.085476518 0.906971404 1.186567434 1.029482431 1.125153147 1.040940457 1 11.93249534 AGQCVIGLQMGTNK ddPTM_HeLa_SAHA_4h_R1 1 AGQCVIGLQMGTNK 14 0 A0A087X271;H3BVI6;B4DDF4;B4DUT8;Q99439;A0A087X1X5 A0A087X271 CNN2 Calponin;Calponin-2 0 0 143.31 0.00030475 819080 314.56 227.99 479.56 313.04 533.98 301.35 496.49 187.2 294.5 463.99 FALSE FALSE TRUE 347.6468641 235.3770256 544.9119394 319.0993419 493.0665678 275.6732847 440.6236385 182.4116951 292.4505505 483.9948796 0.718286244 0.486321314 1.125863025 0.659303136 1.018743356 0.569578928 0.91038905 0.376887655 0.604243067 1 8.918847974 -13.52287867 0.263165675 2.802621057 0.719838038 0 0.255460511 59.69934149 0.798058914 56.06400743 0.109171186 3.00E-14 13.52287867 -2.082783019 AGQDMGLEHGFEKPLDS(ph)AMSAEEDTDVR ddPTM_HeLa_SAHA_4h_R1 1 AGQDMGLEHGFEKPLDSAMSAEEDTDVR 28 1 Q99549-2;Q99549;A0A0A0MT47 Q99549-2 MPHOSPH8 M-phase phosphoprotein 8 1 0 AGQDMGLEHGFEKPLDS(0.56)AMS(0.437)AEEDT(0.003)DVR 111.49 7.82E-08 5113500 558.17 650.1 650.06 297.8 541.27 474.44 622.2 540.13 464.1 658.34 TRUE FALSE FALSE 616.8808816 671.1636665 738.6467914 303.5643496 499.7980095 434.0150429 552.1884185 526.3142567 460.8702903 686.7242592 0.898294873 0.977340843 1.075608997 0.442046929 0.727800136 0.632007734 0.80409045 0.766412792 0.671114038 1 9.423587119 -6.278376296 24.96389999 0.961488593 0.68227623 0.443218335 0.136856097 372.8363374 549535.2675 0.015654096 0.023949466 5.27E-07 6.278376296 -0.279212363 AGQEHLLR ddPTM_HeLa_SAHA_4h_R1 2 AGQEHLLR 8 0 Q16222-2;Q3KQV9;Q16222-3;Q16222;A0A087X226 Q16222-2 UAP1;UAP1L1 UDP-N-acetylhexosamine pyrophosphorylase;UDP-N-acetylgalactosamine pyrophosphorylase;UDP-N-acetylglucosamine pyrophosphorylase;UDP-N-acetylhexosamine pyrophosphorylase-like protein 1 0 0 ; ; 112.41 0.0020682 1946000 2889.4 2498.8 2999.6 3248.3 3224.1 3038.6 3188 2463.9 2349.3 3013.3 FALSE FALSE TRUE 3193.320349 2579.76276 3408.369867 3311.175544 2977.070155 2779.694185 2829.27785 2400.877006 2332.95103 3143.21811 1.015939791 0.820739341 1.08435678 1.053434865 0.947140813 0.88434658 0.900121389 0.763827683 0.742217354 1 11.61802667 -4.232847543 0.771909434 1.00135646 0.630694805 0.103843677 0.107377528 1.577946624 0.647146575 0.011097617 0.508210913 5.85E-05 4.232847543 -0.370661654 AGQS(ph)AAGAAPGGGVDTR ddPTM_HeLa_SAHA_4h_R1 1 AGQSAAGAAPGGGVDTR 17 0 P21333-2;P21333 P21333-2 FLNA Filamin-A 1 0 AGQS(1)AAGAAPGGGVDTR 126.4 0.0003135 3369800 442.2 539.08 484.98 538.93 649.98 714.86 710.9 663.52 608.07 420.92 TRUE FALSE FALSE 488.7126249 556.5465457 551.0705487 549.3617695 600.1786728 653.9499063 630.907661 646.5481192 603.8383914 439.0679211 1.113068392 1.26756367 1.255091803 1.251199969 1.366938107 1.489404884 1.436924974 1.47254693 1.375273306 1 8.778300323 -6.351473842 0.365592443 0.993965868 1.556204226 0.338454515 0.121964433 0.248942072 0.0671229 0.019847669 0.054403222 4.45E-07 6.351473842 0.562238358 AGQSAAGAAPGGGVDTR ddPTM_HeLa_SAHA_4h_R1 3 AGQSAAGAAPGGGVDTR 17 0 P21333-2;P21333 P21333-2 FLNA Filamin-A 0 0 ;; ;; 208.79 9.27E-34 4320660 1310.89 1154.46 1079.05 1355.12 1624.45 1826.04 1581.3 1480.3 1579.49 1762.49 FALSE FALSE TRUE 1448.775425 1191.865261 1226.097315 1381.350307 1499.984992 1670.451119 1403.367962 1442.436069 1568.4982 1838.479569 0.788029113 0.648288554 0.666908317 0.751354723 0.815883416 0.908604668 0.763330736 0.784580962 0.85314965 1 10.84429743 -8.846760699 0.871959169 0.990660458 0.767016756 0.337267977 0.081267587 0.318533672 0.470284682 0.040759492 0.015941005 1.42E-09 8.846760699 -0.223643701 AGQTQPNPGILPIQPALT(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 AGQTQPNPGILPIQPALTPR 20 0 Q2M2I8-2;Q2M2I8;E9PG46 Q2M2I8-2 AAK1 AP2-associated protein kinase 1 1 0 AGQT(0.012)QPNPGILPIQPALT(0.988)PR;AGQTQPNPGILPIQPALT(1)PR;AGQTQPNPGILPIQPALT(1)PR ;; 183.27 4.72E-10 12859600 1833.13 2019.34 1778 2301.67 2339.6 2005.82 2085.32 2083.92 2133.63 2120.11 TRUE FALSE FALSE 2025.947024 2084.767941 2020.296581 2346.222151 2160.340353 1834.912852 1850.674305 2030.616344 2118.781895 2211.518318 0.916088738 0.942686264 0.913533731 1.060910114 0.976858449 0.829707282 0.836834265 0.918200102 0.958066627 1 11.11082148 -1 0.196298261 0.981081918 0.441406479 0.224612825 0.05857188 61.81940402 0.702703465 0.064358337 10.28027536 0.1 1 -0.539675439 AGS(ph)EECVFYTDETASPLAPDLAK ddPTM_HeLa_SAHA_4h_R1 4 AGSEECVFYTDETASPLAPDLAK 23 0 A0A087WXN9;Q765P7 A0A087WXN9 MTSS1L MTSS1-like protein 1 0 AGS(1)EECVFYTDETASPLAPDLAK;AGS(1)EECVFYTDETASPLAPDLAK;AGS(1)EECVFYTDETASPLAPDLAK;AGS(1)EECVFYTDETASPLAPDLAK ;;; 215.51 5.65E-30 20090500 8343.99 10298.48 8930.84 9800.52 11425.75 11223.7 11095.34 9888.94 10486.24 10186.88 TRUE FALSE FALSE 9221.649152 10632.15751 10147.88837 9990.223236 10550.3115 10267.37762 9846.863142 9635.995234 10413.2654 10626.08625 0.867831197 1.000571354 0.954997741 0.940160187 0.992868988 0.966242639 0.926668852 0.906824489 0.97997185 1 13.37532271 -9.777568951 1.759834713 1.000095044 0.933402693 0.128973402 0.038715974 0.445880226 2.498998616 0.033570556 0.007112109 1.67E-10 9.777568951 -0.066692351 AGS(ph)ISPGSPPYPQSR ddPTM_HeLa_SAHA_4h_R1 1 AGSISPGSPPYPQSR 15 0 Q63HR2-6;Q63HR2;Q63HR2-4;Q63HR2-5 Q63HR2-6 TNS2 Tensin-2 1 0 AGS(0.985)IS(0.015)PGS(0.001)PPYPQSR 140.33 0.00014945 6333500 523.21 436.66 416.77 740.12 839.22 861.59 636.48 779.46 538.45 574.18 TRUE FALSE FALSE 578.2436284 450.8080705 473.5652452 754.4460928 774.9191449 788.1776848 564.8615953 759.5225418 534.7028826 598.9357098 0.965451916 0.752681904 0.790677927 1.259644534 1.29382692 1.315963754 0.943108895 1.268120317 0.892755055 1 9.226257341 -6.245851004 24.86679322 0.949111268 1.210827392 0.610049654 0.128452215 514.1186744 820129.4146 0.020285861 0.033559385 5.68E-07 6.245851004 0.261716124 AGS(ph)ISTLDSLDFAR ddPTM_HeLa_SAHA_4h_R1 1 AGSISTLDSLDFAR 14 0 A0A075B785;A0A2R8Y566;Q9P260;Q9P260-2 A0A075B785 KIAA1468 LisH domain and HEAT repeat-containing protein KIAA1468 1 0 AGS(0.999)IS(0.001)TLDSLDFAR 155.14 3.49E-05 7871900 489.05 536.59 664.36 536.36 883.21 674.38 839.99 844.59 494.68 424.3 TRUE FALSE FALSE 540.4905228 553.9758681 754.895521 546.7420234 815.5386406 616.91903 745.4721145 822.9866108 491.2374816 442.5936495 1.22118906 1.251657968 1.705617606 1.235313756 1.842635206 1.393872304 1.684326278 1.859463216 1.109906304 1 8.789838941 -6.06002386 0.229849229 0.9054488 2.051691536 0.642648652 0.179070163 1.757047569 0.186225162 0.212922427 0.637764755 8.71E-07 6.06002386 1.146242737 AGS(ph)IVLK ddPTM_HeLa_SAHA_4h_R1 1 AGSIVLK 7 0 B1ALC0;O15511;O15511-2 B1ALC0 ARPC5 Actin-related protein 2/3 complex subunit 5 1 0 AGS(1)IVLK 87.308 0.022274 4068400 1914.2 2086 1875.5 1886.2 2886.6 2667.5 2438.1 2809.2 2177.9 2290.5 TRUE FALSE FALSE 2115.544339 2153.587769 2131.083373 1922.710128 2665.429332 2440.213993 2163.758571 2737.344732 2162.743817 2389.254664 0.885441125 0.901363844 0.891944841 0.804732186 1.115590302 1.021328546 0.905620737 1.145689814 0.905196021 1 11.22234492 -1.000000017 0.837518208 0.937704481 59.48942129 0.331625914 0.084841081 632.7601439 1.762663425 0.013981643 70559.27543 0.099999996 1.000000017 58.55171681 AGS(ph)PDVLR ddPTM_HeLa_SAHA_4h_R1 2 AGSPDVLR 8 0 Q8NDX6 Q8NDX6 ZNF740 Zinc finger protein 740 1 0 AGS(1)PDVLR;AGS(1)PDVLR ; 112.11 0.0057317 60218100 8698.3 8299.9 8008.6 5180.2 8207.2 9791.9 8078.4 8911.6 6043.6 8256.9 TRUE FALSE FALSE 9613.227103 8568.822206 9099.970301 5280.470262 7578.366109 8957.575032 7169.397171 8683.654176 6001.542096 8612.895367 1.116143491 0.994882887 1.056551823 0.613088867 0.879886006 1.040019024 0.832402678 1.00821545 0.696808894 1 13.07228259 AGS(ph)PGEEQAHSCSTLSLLSEK ddPTM_HeLa_SAHA_4h_R1 3 AGSPGEEQAHSCSTLSLLSEK 21 0 A0A0C4DGC7;Q9NZ71-5;Q9NZ71-9;Q9NZ71-8;Q9NZ71-4;Q9NZ71;Q9NZ71-7;Q9NZ71-6;Q9NZ71-2 A0A0C4DGC7 RTEL1 Regulator of telomere elongation helicase 1 1 0 AGS(1)PGEEQAHSCSTLSLLSEK;AGS(0.999)PGEEQAHS(0.001)CSTLSLLSEK;AGS(0.725)PGEEQAHS(0.226)CS(0.019)T(0.026)LS(0.003)LLS(0.001)EK ;; 114.01 6.85E-05 14325600 1989.27 2589.68 1944.31 2866 2836.17 3565 2559.61 3329.92 2848.07 3213.43 TRUE FALSE FALSE 2198.510546 2673.587331 2209.270441 2921.475574 2618.863267 3261.241944 2271.595946 3244.745468 2828.250049 3351.976693 0.655884795 0.797615132 0.65909481 0.871567986 0.781289223 0.972930972 0.677688467 0.968009555 0.843755881 1 11.7107964 -9.567189963 1.362725924 0.999272231 0.778659802 0.080223281 0.119753532 0.377015673 1.261455783 0.075458735 0.017971244 2.71E-10 9.567189963 -0.220612429 AGS(ph)PLCNSNLQDSEEDIEPSYSLFR ddPTM_HeLa_SAHA_4h_R1 2 AGSPLCNSNLQDSEEDIEPSYSLFR 25 0 Q9NRY4 Q9NRY4 ARHGAP35 Rho GTPase-activating protein 35 1 0 AGS(1)PLCNSNLQDSEEDIEPSYSLFR;AGS(1)PLCNSNLQDSEEDIEPSYSLFR ; 227.25 3.26E-42 24552000 1509.34 1870.02 1403.54 1666.44 1991.51 2201.69 2254.6 1672.11 1897.81 1561.85 TRUE FALSE FALSE 1668.099306 1930.609875 1594.807122 1698.696356 1838.920934 2014.093626 2000.906474 1629.339847 1884.602986 1629.188997 1.023883238 1.185012837 0.978896325 1.042663779 1.128733951 1.236255357 1.228161053 1.000092592 1.156773701 1 10.66993826 -5.718151722 3.583924269 1.024703547 1.164572653 0.084626762 0.090743982 0.178006703 4.719894213 0.011586215 0.023610623 1.91E-06 5.718151722 0.139869106 AGS(ph)PNTPPPR ddPTM_HeLa_SAHA_4h_R1 1 AGSPNTPPPR 10 0 Q1RMZ1 Q1RMZ1 C7orf60 Probable methyltransferase BTM2 homolog 1 0 AGS(0.931)PNT(0.069)PPPR 88.155 0.019718 4712800 1560.5 1723.5 1422.5 2080.7 2315.9 3123.9 2231.2 2308.7 1930.4 1685.9 TRUE FALSE FALSE 1724.64055 1779.342531 1616.350892 2120.974957 2138.456242 2857.726145 1980.139504 2249.646797 1916.966189 1758.5874 0.980696524 1.011802161 0.919118886 1.206067414 1.216007941 1.625012295 1.125982993 1.279235139 1.090060232 1 10.78020132 -6.002628961 2.436901099 0.987795683 1.323354019 0.573424 0.126875906 0.137144537 1.632677523 0.017628598 0.03336003 9.94E-07 6.002628961 0.335558336 AGS(ph)PSPQPSGELPR ddPTM_HeLa_SAHA_4h_R1 2 AGSPSPQPSGELPR 14 0 Q92619 Q92619 HMHA1 Minor histocompatibility protein HA-1;Minor histocompatibility antigen HA-1 1 0 AGS(0.999)PS(0.001)PQPSGELPR;AGS(0.999)PS(0.001)PQPSGELPR ; 172.43 1.71E-06 101691000 1631 1794.37 1757.61 1752.8 1860.59 2197.51 1876.35 1633.34 1778.37 1830.31 TRUE FALSE FALSE 1802.556063 1852.508765 1997.127938 1786.727979 1718.031996 2010.269785 1665.21816 1591.561528 1765.994178 1909.223621 0.944130401 0.970294283 1.046041917 0.935840076 0.899858967 1.052925264 0.8721965 0.833617136 0.924980269 1 10.89877038 -4.599853939 7.117318296 0.97421456 0.843026425 0.507621135 0.047416494 0.10563715 7.935161281 0.006112983 0.023303767 2.51E-05 4.599853939 -0.131188135 AGS(ph)PSRDVGPSLGLK ddPTM_HeLa_SAHA_4h_R1 1 AGSPSRDVGPSLGLK 15 1 Q5VWV2;Q8TEW0-4;Q8TEW0-11;Q8TEW0-2;Q8TEW0;Q8TEW0-8;Q8TEW0-3;Q8TEW0-7;Q8TEW0-6;Q5VWU8;Q8TEW0-9;Q8TEW0-10;F5GZI3 Q5VWV2 PARD3 Partitioning defective 3 homolog 1 0 AGS(0.81)PS(0.171)RDVGPS(0.019)LGLK 105.17 0.0088555 0 762.28 1056.4 686.16 1117 1230.4 1139.7 1204.5 1265.9 1167.6 1109.4 TRUE FALSE FALSE 842.4601079 1090.628053 779.6663114 1138.62115 1136.127018 1042.591148 1068.96649 1233.520111 1159.474577 1157.231663 0.727996074 0.942445742 0.673733995 0.983918075 0.981762817 0.900935553 0.923727309 1.065923229 1.001938171 1 10.17646199 AGS(ph)SPAQGAQNEPPR ddPTM_HeLa_SAHA_4h_R1 2 AGSSPAQGAQNEPPR 15 0 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 1 0 AGS(0.5)S(0.5)PAQGAQNEPPR;AGS(0.614)S(0.386)PAQGAQNEPPR ; 148.85 7.18E-05 10045600 781.33 1250.37 815.59 1046.26 1141.49 1214.21 1219.92 1033.26 1329.43 1012.18 TRUE FALSE FALSE 863.5138743 1290.882808 926.7343578 1066.511875 1054.029283 1110.752477 1082.651391 1006.830705 1320.178388 1055.820033 0.817860854 1.222635267 0.877738941 1.010126576 0.998303925 1.052028226 1.025412814 0.953600683 1.250382022 1 10.04414823 AGSATVLSGS(ph)IAGLEGGSQLALR ddPTM_HeLa_SAHA_4h_R1 1 AGSATVLSGSIAGLEGGSQLALR 23 0 Q92614;A0A0D9SFK2;Q92614-3;Q92614-4;Q92614-2;Q92614-5 Q92614 MYO18A Unconventional myosin-XVIIIa 1 0 AGSATVLS(0.004)GS(0.995)IAGLEGGS(0.001)QLALR 123.43 6.79E-08 0 470.48 346.72 352.3 442.3 531.88 420.37 457.47 436.58 178.83 341.95 TRUE FALSE FALSE 519.967245 357.9539555 400.3096093 450.8613561 491.1274693 384.5521111 405.9942716 425.4129158 177.5855075 356.693138 1.457743897 1.00353474 1.122280097 1.264003447 1.376890714 1.078103474 1.138217219 1.192657975 0.497866341 1 8.478539651 -9.739279108 1.674368096 0.999989095 1.242184491 0.292924361 0.209834805 0.42534654 2.156105916 0.11137009 0.024149197 1.82E-10 9.739279108 0.242195396 AGSCCLS(ph)PGGR ddPTM_HeLa_SAHA_4h_R1 1 AGSCCLSPGGR 11 0 E7ER32;A0A087X287;A0A087WU73;A0A494BZX7;W0Z7M9;B0QY83;A0A499FIJ6;Q969V6 E7ER32 MKL1;mkl1 MKL/myocardin-like protein 1 1 0 AGSCCLS(1)PGGR 132.03 0.001242 25421000 1438.1 1801.2 1252.4 1759.3 2112.8 2158.2 2334.7 1695.8 1424.3 1372.8 TRUE FALSE FALSE 1589.365956 1859.560062 1423.07055 1793.353795 1950.91772 1974.309218 2071.993411 1652.423891 1414.38818 1431.988126 1.10990163 1.29858623 0.99377259 1.25235242 1.362384006 1.378718987 1.446934771 1.153936867 0.987709433 1 10.48380381 -6.703571567 0.459410152 1.015208713 1.370411806 0.534970612 0.111960829 0.55649756 0.258487393 0.039787153 0.077473255 1.98E-07 6.703571567 0.355203093 AGSEECVFYTDETASPLAPDLAKAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 AGSEECVFYTDETASPLAPDLAKASPK 27 1 A0A087WXN9;Q765P7 A0A087WXN9 MTSS1L MTSS1-like protein 1 0 AGSEECVFYTDET(0.01)AS(0.142)PLAPDLAKAS(0.847)PK 83.479 2.45E-05 4375200 1451 1406.3 1552.1 1439.6 1662.7 1855.7 1736.7 1526.9 1512 1713.4 TRUE FALSE FALSE 1603.622837 1451.865043 1763.612105 1467.46554 1535.304285 1697.58392 1541.281945 1487.844109 1501.477869 1787.273059 0.897245572 0.812335326 0.986761422 0.821063985 0.859020549 0.949817887 0.86236512 0.83246603 0.840094277 1 10.80354435 -8.926131974 0.536292331 1.013905294 0.874470394 0 0.072260663 0.795579499 0.383989536 0.054778647 0.013290251 1.19E-09 8.926131974 -0.1394349 AGSIS(ph)PGSPPYPQSR ddPTM_HeLa_SAHA_4h_R1 1 AGSISPGSPPYPQSR 15 0 Q63HR2-6;Q63HR2;Q63HR2-4;Q63HR2-5 Q63HR2-6 TNS2 Tensin-2 1 0 AGS(0.052)IS(0.913)PGS(0.035)PPYPQSR 134.37 1.20E-05 0 576.06 629.27 729.76 796.14 875.16 905.46 1040.8 864.26 706.11 892.4 TRUE FALSE FALSE 636.6526339 649.6587609 829.2078924 811.5504409 808.1054299 828.309714 923.6864448 842.1534806 701.196123 930.8757313 0.683928705 0.697900632 0.890782587 0.871813942 0.868113114 0.889817713 0.992276857 0.904689479 0.753265016 1 9.862444776 -5.26884954 1.339909036 0.838128728 0.948747172 0.220716106 0.092409361 0.916878061 2.998266549 0.020027179 0.081818936 5.38E-06 5.26884954 0.110618445 AGSIS(ph)SEEVDGSQGNMMR ddPTM_HeLa_SAHA_4h_R1 1 AGSISSEEVDGSQGNMMR 18 0 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 AGS(0.028)IS(0.797)S(0.174)EEVDGSQGNMMR 145.69 2.04E-09 0 237.59 390.95 378.1 424.69 321.95 597.42 576.3 396.2 421.95 412.32 TRUE FALSE FALSE 262.5808063 403.6170365 429.6254989 432.9104891 297.2822606 546.516455 511.4532073 386.0657777 419.0136156 430.097133 0.610515128 0.938432288 0.998903424 1.006541211 0.691197959 1.270681465 1.189157444 0.897624625 0.974230199 1 8.748518704 -5.686529158 0.91954164 0.829510883 1.103403062 0.091291237 0.179156648 0.757746047 1.187140945 0.035081772 0.12586257 2.06E-06 5.686529158 0.273892179 AGSIS(ph)TLDSLDFAR ddPTM_HeLa_SAHA_4h_R1 1 AGSISTLDSLDFAR 14 0 A0A075B785;A0A2R8Y566;Q9P260;Q9P260-2 A0A075B785 KIAA1468 LisH domain and HEAT repeat-containing protein KIAA1468 1 0 AGS(0.191)IS(0.801)T(0.008)LDSLDFAR 253.97 1.97E-43 7969800 908.55 1266.5 1052.9 1104.6 1149.1 1406.1 1409.6 1298.4 1227.2 1112.2 TRUE FALSE FALSE 1004.115458 1307.535431 1196.383729 1125.98113 1061.056206 1286.292369 1250.988098 1265.188808 1218.659815 1160.152385 0.865503076 1.127037662 1.031229814 0.970545891 0.914583481 1.108727083 1.078296364 1.090536747 1.050430815 1 10.1800986 -4.847649207 0.51059818 0.948760365 1.160802761 0.011147313 0.081059514 2.578859836 0.651888164 0.018930158 0.291854905 1.42E-05 4.847649207 0.212042395 AGSNEDPILAPS(ph)GTPPPTIPPDETFGGR ddPTM_HeLa_SAHA_4h_R1 1 AGSNEDPILAPSGTPPPTIPPDETFGGR 28 0 E7EV54;C9JFV4;Q8IZL8 E7EV54 PELP1 "Proline-, glutamic acid- and leucine-rich protein 1" 1 0 AGSNEDPILAPS(0.536)GT(0.464)PPPTIPPDETFGGR 83.764 1.10E-05 24057000 2094.4 2398.2 1849.2 2107.9 2663.9 3076.4 2340.4 2404.2 2527.5 2280.7 TRUE FALSE FALSE 2314.698601 2475.903254 2101.199346 2148.701453 2459.792558 2814.273413 2077.052032 2342.704045 2509.910922 2379.032138 0.972958105 1.040718708 0.883216041 0.903183029 1.033946754 1.182948884 0.873065983 0.984729885 1.055013457 1 11.21615905 AGSNEDPILAPS(ph)GTPPPTIPPDETFGGRVPR ddPTM_HeLa_SAHA_4h_R1 1 AGSNEDPILAPSGTPPPTIPPDETFGGRVPR 31 1 E7EV54;C9JFV4;Q8IZL8 E7EV54 PELP1 "Proline-, glutamic acid- and leucine-rich protein 1" 1 0 AGSNEDPILAPS(0.742)GT(0.128)PPPT(0.128)IPPDET(0.002)FGGRVPR 113.91 3.59E-10 31735000 808.51 532.78 799.79 610.41 757.71 696.63 950.18 829.79 280.53 867.91 TRUE FALSE FALSE 893.5527914 550.0424216 908.7812161 622.2253682 699.6544235 637.2732049 843.2632457 808.5651733 278.5777689 905.3298475 0.98699142 0.607560242 1.003812277 0.687291345 0.77281714 0.70391273 0.931443107 0.893116664 0.307708588 1 9.822299709 -7.466773461 24.99557145 0.994261005 0.803345934 0 0.244675552 201.2332041 89652.17212 0.017815832 0.020364489 3.41E-08 7.466773461 -0.190915072 AGSNEDPILAPSGT(ph)PPPTIPPDETFGGR ddPTM_HeLa_SAHA_4h_R1 2 AGSNEDPILAPSGTPPPTIPPDETFGGR 28 0 E7EV54;C9JFV4;Q8IZL8 E7EV54 PELP1 "Proline-, glutamic acid- and leucine-rich protein 1" 1 0 AGSNEDPILAPS(0.045)GT(0.955)PPPTIPPDETFGGR;AGSNEDPILAPS(0.049)GT(0.951)PPPTIPPDETFGGR ; 153.21 1.42E-10 37165000 4291 4651.3 3599.4 4441.5 4582.6 5882.7 4504.8 4666.2 5302.8 4856.3 TRUE FALSE FALSE 4742.347068 4802.005172 4089.907487 4527.471655 4231.482178 5381.460865 3997.908048 4546.845361 5265.897383 5065.678859 0.936172071 0.947948993 0.807375991 0.89375418 0.835323813 1.062337549 0.789214666 0.897578683 1.03952452 1 12.3065399 -7.87175975 0.720239191 0.990414329 0.885748344 0.306055155 0.074569686 0.582002563 0.668993095 0.023595796 0.01835492 1.34E-08 7.87175975 -0.104665984 AGSNEDPILAPSGT(ph)PPPTIPPDETFGGRVPR ddPTM_HeLa_SAHA_4h_R1 1 AGSNEDPILAPSGTPPPTIPPDETFGGRVPR 31 1 E7EV54;C9JFV4;Q8IZL8 E7EV54 PELP1 "Proline-, glutamic acid- and leucine-rich protein 1" 1 0 AGSNEDPILAPS(0.37)GT(0.623)PPPT(0.007)IPPDETFGGRVPR 125.98 7.67E-12 29033000 1459.3 834.4 1331.1 980.6 901.19 878.29 1418.1 1601.7 452 1284.5 TRUE FALSE FALSE 1612.79587 861.4351075 1512.495376 999.580931 832.1410169 803.4547509 1258.531656 1560.730833 448.8544952 1339.881081 1.203685829 0.642919077 1.128828071 0.746022125 0.621055875 0.599646314 0.939286085 1.164827876 0.334995771 1 10.38788925 -7.272033724 24.98986485 1.096184975 0.829330564 0 0.308607711 693.2069971 1635129.02 0.034387522 0.039541014 5.35E-08 7.272033724 -0.266854411 AGSPEVQGAMGS(ph)PAPK ddPTM_HeLa_SAHA_4h_R1 1 AGSPEVQGAMGSPAPK 16 0 O43593-2;O43593 O43593-2 HR Lysine-specific demethylase hairless 1 0 AGSPEVQGAMGS(1)PAPK 103.66 0.0050393 34192000 1042.5 1051.3 880.84 1074 1370 1276.3 1505 1134.8 1187.6 1211.3 TRUE FALSE FALSE 1152.154933 1085.36281 1000.876288 1094.788823 1265.030896 1167.55206 1335.653439 1105.773459 1179.335395 1263.525071 0.911857596 0.858995864 0.792130137 0.866455956 1.001191765 0.924043445 1.057085031 0.875149599 0.933369208 1 10.30323858 -3.965645266 17.05185314 0.940132227 0.62477118 0.016593 0.074840055 16493169.96 215987233.6 0.01131489 157862464.7 0.000108232 3.965645266 -0.315361047 AGSPS(ph)RDVGPSLGLK ddPTM_HeLa_SAHA_4h_R1 2 AGSPSRDVGPSLGLK 15 1 Q5VWV2;Q8TEW0-4;Q8TEW0-11;Q8TEW0-2;Q8TEW0;Q8TEW0-8;Q8TEW0-3;Q8TEW0-7;Q8TEW0-6;Q5VWU8;Q8TEW0-9;Q8TEW0-10;F5GZI3 Q5VWV2 PARD3 Partitioning defective 3 homolog 1 0 AGS(0.237)PS(0.763)RDVGPSLGLK;AGS(0.037)PS(0.963)RDVGPSLGLK ; 83.243 0.0076696 16143600 5369.6 5508.6 5263.9 5956.5 7121.6 6771.9 6405.6 6254 5754.5 6017.6 TRUE FALSE FALSE 5934.399165 5687.082254 5981.236879 6071.796671 6575.944547 6194.896022 5684.825029 6094.031736 5714.453966 6277.048185 0.945412396 0.906012203 0.952874138 0.967301268 1.047617344 0.986912294 0.905652603 0.970843549 0.910372805 1 12.61587057 -9.400777518 1.205932587 0.999345165 0.959285678 0 0.0472705 0.807297892 2.151245505 0.025782641 0.007017586 3.97E-10 9.400777518 -0.040059488 AGSQEAEVGS(ph)DGER ddPTM_HeLa_SAHA_4h_R1 1 AGSQEAEVGSDGER 14 0 J3KN78;Q9UK96 J3KN78 FBXO10 F-box only protein 10 1 0 AGSQEAEVGS(1)DGER 106.82 0.0015302 0 196.55 421.81 328.52 208.84 368.58 528.62 321.72 426.69 387.03 356.67 TRUE FALSE FALSE 217.2240308 435.4769208 373.2889947 212.8824002 340.33948 483.5786021 285.5192189 415.7758876 384.3366267 372.0477892 0.583860561 1.170486517 1.003336145 0.57219101 0.914773558 1.299775502 0.767426194 1.117533553 1.033030266 1 8.539344136 -5.51573494 24.64774647 0.828166368 1.044681762 0.05870096 0.221770852 399.9342883 1379860.738 0.033901924 0.070074762 3.05E-06 5.51573494 0.216515394 AGSQRMT(ph)STGLPGSNPWRVLQT(ph)TQ ddPTM_HeLa_SAHA_4h_R1 1 AGSQRMTSTGLPGSNPWRVLQTTQ 24 2 J3KRU0 J3KRU0 PLEKHM1 2 0 AGS(0.18)QRMT(0.629)S(0.151)T(0.048)GLPGS(0.068)NPWRVLQT(0.906)T(0.019)Q 47.499 0.0076318 0 146.1 196.07 67.18 142.32 67.155 349.98 228.77 237.17 246.31 214.72 TRUE FALSE FALSE 161.4674683 202.4227966 76.33494054 145.0748094 62.00959841 320.1597351 203.0281975 231.1035348 244.5959087 223.97763 0.720908906 0.903763455 0.34081502 0.647720084 0.276856213 1.429427283 0.906466407 1.031815252 1.09205508 1 7.807210839 -5.241060857 24.99940212 0.776463877 1.100959242 0.294546332 0.278447533 993.6738889 1218989.976 0.039614802 0.100865245 5.74E-06 5.241060857 0.324495365 AGSS(ph)PAQGAQNEPPR ddPTM_HeLa_SAHA_4h_R1 5 AGSSPAQGAQNEPPR 15 0 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 1 0 AGS(0.366)S(0.634)PAQGAQNEPPR;AGS(0.172)S(0.828)PAQGAQNEPPR;AGS(0.083)S(0.917)PAQGAQNEPPR;AGS(0.131)S(0.869)PAQGAQNEPPR;AGS(0.176)S(0.824)PAQGAQNEPPR ;;;; 195.23 2.38E-34 10593000 1613.88 2140.78 1885.96 2861.54 2209.97 4575.01 1986.89 2163.4 3227.08 2503.47 TRUE FALSE FALSE 1783.635303 2210.142677 2142.968807 2916.929245 2040.642576 4185.19341 1763.319908 2108.063361 3204.622488 2611.406843 0.683017013 0.846341765 0.820618515 1.116995328 0.781434184 1.602658513 0.67523753 0.807251986 1.227163242 1 11.35061152 -6.286667825 23.54534345 0.844125643 1.000559066 0 0.276555007 752.7020623 702484.2015 0.038781926 0.059260018 5.17E-07 6.286667825 0.156433423 AGSSPCLGSSSAASS(ph)PPPPASR ddPTM_HeLa_SAHA_4h_R1 2 AGSSPCLGSSSAASSPPPPASR 22 0 A0A0A0MS59;A0A0C4DFX4;Q6ZRS2-3;Q6ZRS2-2;Q6ZRS2 A0A0A0MS59 SRCAP Helicase SRCAP 1 0 AGSSPCLGSS(0.003)S(0.003)AAS(0.035)S(0.959)PPPPASR;AGSSPCLGSSSAAS(0.227)S(0.773)PPPPASR ; 276.05 9.02E-71 16208200 1333.08 1177.94 1275.06 991.4 1273.66 1069.08 1189.96 1290.04 1304.5 1356.32 TRUE FALSE FALSE 1473.299471 1216.106029 1448.818537 1010.589981 1176.072446 977.9883695 1056.062569 1257.042645 1295.421878 1414.797593 1.041349998 0.859561845 1.024046509 0.714300042 0.831265512 0.691256738 0.746440745 0.888496454 0.915623468 1 10.46637995 -6.453236072 1.420568367 1.01474263 0.768252847 0.495403917 0.085675123 0.16822865 0.674031094 0.012573393 0.021535306 3.52E-07 6.453236072 -0.246489783 AGSST(ph)PGDAPPAVAEVQGR ddPTM_HeLa_SAHA_4h_R1 4 AGSSTPGDAPPAVAEVQGR 19 0 Q7Z6Z7-2;Q7Z6Z7-3;Q7Z6Z7 Q7Z6Z7-2 HUWE1 E3 ubiquitin-protein ligase HUWE1 1 0 AGS(0.002)S(0.007)T(0.991)PGDAPPAVAEVQGR;AGS(0.02)S(0.076)T(0.904)PGDAPPAVAEVQGR;AGSS(0.003)T(0.997)PGDAPPAVAEVQGR;AGSST(1)PGDAPPAVAEVQGR ;;; 232.01 2.16E-32 60353200 6189.97 6969.26 6517.68 7174.97 7958.01 8620.25 8471.27 8108.19 6704.69 7461.44 TRUE FALSE FALSE 6841.059445 7195.068597 7405.875488 7313.85192 7348.268993 7885.756204 7518.060404 7900.79424 6658.031516 7783.139194 0.878958898 0.924443007 0.951528079 0.939704628 0.944126632 1.013184527 0.965941918 1.015116657 0.855442945 1 12.92613644 -5.294335885 11.33694311 0.940692599 0.994860201 0.356585726 0.040709336 1.160949389 399.0616444 0.006595209 0.014810295 5.08E-06 5.294335885 0.054167602 AGT(ph)EDEEEEEEGRR ddPTM_HeLa_SAHA_4h_R1 2 AGTEDEEEEEEGRR 14 1 F8WBH7;O95456-2;O95456 F8WBH7 PSMG1 Proteasome assembly chaperone 1 1 0 AGT(1)EDEEEEEEGRR;AGT(1)EDEEEEEEGRR ; 134.25 0.00050762 45319000 3534.8 4060 3229.9 3426.4 3654.8 5028.8 3630.4 3686.8 5326 3736.4 TRUE FALSE FALSE 3906.606482 4191.546664 3670.053951 3492.722927 3374.770014 4600.317949 3221.897837 3592.496994 5288.935932 3897.494489 1.00233791 1.075446463 0.941644423 0.8961457 0.86588192 1.180326992 0.826658728 0.92174524 1.357009214 1 11.92833127 -6.579578987 24.97466028 1.006798008 0.939146537 0.119029137 0.143446054 132.8206049 58502.56332 0.013619649 0.019261093 2.63E-07 6.579578987 -0.067651471 AGT(ph)PVSELTK ddPTM_HeLa_SAHA_4h_R1 4 AGTPVSELTK 10 0 O75113 O75113 N4BP1 NEDD4-binding protein 1 1 0 AGT(1)PVSELTK;AGT(0.992)PVS(0.005)ELT(0.003)K;AGT(1)PVSELTK;AGT(0.995)PVS(0.005)ELTK ;;; 145.28 0.0015497 92357900 12058 15683.7 12308.9 13154.7 14601.6 15963.7 13981.7 12634.8 18534.2 14317 TRUE FALSE FALSE 13326.31576 16191.86217 13986.29279 13409.32824 13482.82856 14603.50295 12408.44232 12311.62011 18405.21899 14934.27594 0.892330892 1.084208049 0.936522992 0.897889412 0.902810998 0.977851421 0.830870032 0.824386811 1.232414552 1 13.86633967 -2.401582286 0.468720486 0.958853704 8.57E-13 0.225312232 0.103708944 18.50099676 0.696449211 0.013128394 14.43768352 0.003966594 2.401582286 -0.958853704 AGTDS(ph)PVSCASVTEER ddPTM_HeLa_SAHA_4h_R1 4 AGTDSPVSCASVTEER 16 0 E9PEI0;Q69YH5 E9PEI0 CDCA2 Cell division cycle-associated protein 2 1 0 AGTDS(1)PVSCASVTEER;AGTDS(1)PVSCASVTEER;AGTDS(1)PVSCASVTEER;AGT(0.02)DS(0.98)PVSCASVTEER ;;; 319.91 3.71E-119 78171400 4956.2 4869.5 5138.45 5018.52 5220.98 6030.65 5900.63 5739.62 5707.18 5038.16 TRUE FALSE FALSE 5477.515856 5027.274995 5838.691206 5115.660712 4820.94964 5516.804692 5236.675583 5592.808831 5667.46327 5255.379734 1.042268329 0.956595955 1.110993211 0.973414096 0.917336117 1.049744257 0.996440952 1.064206416 1.078411753 1 12.3595793 AGTEDEEEEEEGRR ddPTM_HeLa_SAHA_4h_R1 2 AGTEDEEEEEEGRR 14 1 F8WBH7;O95456-2;O95456 F8WBH7 PSMG1 Proteasome assembly chaperone 1 0 0 ; ; 169.09 7.76E-06 8213400 1925.94 2547.3 2054.42 2581.4 2557.2 3696.3 2715.9 2491.8 3614.5 2684.7 FALSE FALSE TRUE 2128.519206 2629.834191 2334.385659 2631.36673 2361.267888 3381.354445 2410.299784 2428.063364 3589.3464 2800.450556 0.760063127 0.939075388 0.833575031 0.939622635 0.843174283 1.207432296 0.860682857 0.867025972 1.281703186 1 11.45144324 AGTEDEEEEEEGRRETPEDR ddPTM_HeLa_SAHA_4h_R1 1 AGTEDEEEEEEGRRETPEDR 20 2 F8WBH7;O95456-2;O95456 F8WBH7 PSMG1 Proteasome assembly chaperone 1 0 0 49.036 0.020789 5749700 1098.4 803.9 1122.6 935.76 1166.1 1201.2 1155.3 1005 828.17 883.79 FALSE FALSE TRUE 1213.934752 829.9468875 1275.582082 953.8729879 1076.75367 1098.851002 1025.302603 979.2935552 822.4066975 921.8945121 1.316782708 0.900262315 1.383652972 1.034687782 1.16797926 1.19194874 1.112169115 1.062262051 0.892083299 1 9.848457869 -4.453433712 4.107947661 1.147042685 1.067098726 0 0.157332253 0.797646044 24.61516112 0.02029198 0.127951862 3.52E-05 4.453433712 -0.079943959 AGTQIENIDEDFRDGLK ddPTM_HeLa_SAHA_4h_R1 1 AGTQIENIDEDFRDGLK 17 1 O43707;F5GXS2;O43707-3;K7EP19 O43707 ACTN4 Alpha-actinin-4 0 0 224.55 3.19E-22 13203000 1039.9 986.71 1043.9 1050 1068.8 1098.2 858.08 873.63 808.21 724.74 FALSE FALSE TRUE 1149.281453 1018.680051 1186.157256 1070.324268 986.9087749 1004.627182 761.5265801 851.2838096 802.5856008 755.9870882 1.520239527 1.347483399 1.569017876 1.415797022 1.305457183 1.32889463 1.007327495 1.126056017 1.061639297 1 9.562217784 -4.76630587 24.66684157 1.301821749 1.066691729 0.25450773 0.170515061 131.6197436 667162.8953 0.030932162 0.097353592 1.71E-05 4.76630587 -0.23513002 AGTQIENIEEDFR ddPTM_HeLa_SAHA_4h_R1 1 AGTQIENIEEDFR 13 0 P12814-4;P12814-3;P12814;P12814-2;G3V2N5;P35609-2;P35609;A0A494C1A0;Q08043;A0A087WSZ2;G3V5M4;A0A494C166;A0A494C033;G3V380;A0A494C0Q3 P12814-4 ACTN1;ACTN2;ACTN3 Alpha-actinin-1;Alpha-actinin-2;Alpha-actinin-3 0 0 172.99 0.00011582 1535900 423.73 212.5 164.29 289.41 283.35 354.04 452.35 291.35 318.3 206.33 FALSE FALSE TRUE 468.2998655 219.3851394 186.6785856 295.011949 261.6397842 323.8738002 401.4503875 283.8976889 316.0849244 215.2258961 2.175852786 1.019325014 0.867361173 1.370708425 1.215651969 1.504808697 1.865251324 1.319068449 1.468619391 1 7.749707864 -4.991522632 24.53989898 1.436339715 1.615377379 0.014498167 0.379367667 663.0004809 1919176.934 0.071727042 0.214649432 1.02E-05 4.991522632 0.179037665 AGTQIENIEEDFRDGLK ddPTM_HeLa_SAHA_4h_R1 3 AGTQIENIEEDFRDGLK 17 1 P12814-4;P12814-3;P12814;P12814-2;G3V2N5;G3V5M4;G3V380 P12814-4 ACTN1 Alpha-actinin-1 0 0 ;; ;; 246.38 1.31E-36 16260900 2088.11 2616.05 2431.91 2586.37 2658.45 2570.32 2642.04 2416.64 2687.66 2135.65 FALSE FALSE TRUE 2307.74699 2700.811736 2763.31803 2636.432931 2454.760135 2351.314276 2344.750706 2354.825848 2668.956355 2227.728323 1.035919401 1.212361359 1.240419669 1.1834625 1.101911804 1.055476223 1.052529916 1.057052525 1.198061868 1 11.12135759 -7.439178882 7.425598951 1.015700504 1.128633798 0 0.085445508 0.231213046 18.01870595 0.012346794 0.01404731 3.64E-08 7.439178882 0.112933294 AGVAPLQVK ddPTM_HeLa_SAHA_4h_R1 2 AGVAPLQVK 9 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 160.91 0.00049447 7796000 4834.1 4648.4 4357.2 5156.4 4067.8 4825 5028.2 4718.7 4572.7 4367.4 FALSE FALSE TRUE 5342.572818 4799.01121 4950.976525 5256.209578 3756.126043 4413.882855 4462.413703 4598.002487 4540.878208 4555.699988 1.172722706 1.053408087 1.086765269 1.153765523 0.824489333 0.968870397 0.979523172 1.00928562 0.996746542 1 12.15345703 -5.777038037 24.99984593 1.086062471 0.949635616 0.455949834 0.070019718 177.4582384 284410.7331 0.011727013 0.021310766 1.67E-06 5.777038037 -0.136426855 AGVDYAPNLPPFPS(ph)PADVK ddPTM_HeLa_SAHA_4h_R1 1 AGVDYAPNLPPFPSPADVK 19 0 Q68CZ2;Q68CZ2-2;E9PCX8 Q68CZ2 TNS3 Tensin-3 1 0 AGVDYAPNLPPFPS(1)PADVK 81.723 0.0034122 0 348.66 484.12 358.61 377.33 672.9 539.37 444.03 381.12 683.39 512.83 TRUE FALSE FALSE 385.3336585 499.8058056 407.4795032 384.6337678 621.3425474 493.4126416 394.0665758 371.3715023 678.6342333 534.940611 0.720329791 0.934320176 0.761728489 0.719021439 1.161516876 0.92236901 0.736654813 0.694229405 1.268616028 1 9.063234923 -9.586744412 1.381192748 0.999820343 0.823365504 0.286234095 0.162171912 0.612021221 2.097526545 0.099539039 0.023263078 2.59E-10 9.586744412 -0.176454839 AGVLAGHDNR ddPTM_HeLa_SAHA_4h_R1 3 AGVLAGHDNR 10 0 Q9HAV0;P62879;B3KVK2;E7EP32;P62879-2;P62873-2;P62873 Q9HAV0 GNB4;GNB2;GNB1 Guanine nucleotide-binding protein subunit beta-4;Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-2;Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 0 0 ;; ;; 162.64 0.00020665 6789200 10402.9 12292 14791.7 11197.5 13433.2 8312.1 14424.5 6650.4 4822.57 8797.2 FALSE FALSE TRUE 11497.12475 12690.26887 16807.43584 11414.2438 12403.95112 7603.862317 12801.4173 6480.292398 4789.009343 9176.490344 1.252889103 1.382910937 1.831575604 1.243857224 1.351709712 0.828624238 1.395023241 0.70618419 0.5218781 1 13.16372677 -5.272007846 24.39228359 1.220009766 1.018451812 0.09253469 0.350811629 983.2934384 2269467.326 0.042525053 0.096034719 5.35E-06 5.272007846 -0.201557953 AGVLAHLEEER ddPTM_HeLa_SAHA_4h_R1 5 AGVLAHLEEER 11 0 P35579;P35579-2;P35580;P35580-5;P35580-2;P35580-3;P35580-4 P35579;P35580 MYH9;MYH10 Myosin-9;Myosin-10 0 0 ;;;; ;;;; 206.49 1.82E-10 53784600 22193.1 20582.6 19855.6 24910.4 23241.9 23449.4 24708.7 18938.9 22746.8 19727.3 FALSE FALSE TRUE 24527.47208 21249.48974 22561.41776 25392.57681 21461.11064 21451.3792 21928.41205 18454.47036 22588.50317 20577.84045 1.191936158 1.032639445 1.096393853 1.233976757 1.042923367 1.042450458 1.065632329 0.896812783 1.097710094 1 14.32880397 -3.385698823 1.07974573 1.095155262 1.05E-09 0.427640392 0.068098289 8.872331055 2.011770075 0.012705829 17.51461806 0.000411435 3.385698823 -1.095155261 AGVLT(ph)PPDLGPHPPPPAPR ddPTM_HeLa_SAHA_4h_R1 2 AGVLTPPDLGPHPPPPAPR 19 0 I3L2J0 I3L2J0 CIC 1 0 AGVLT(1)PPDLGPHPPPPAPR;AGVLT(1)PPDLGPHPPPPAPR ; 122.94 0.00032037 4552900 4664.1 3969.7 4784.8 5637.2 4618.3 5230 5100.8 5739.3 5007.4 5167.2 TRUE FALSE FALSE 5154.691438 4098.320885 5436.847626 5746.316158 4264.446852 4784.374577 4526.844559 5592.497016 4972.553096 5389.98328 0.956346462 0.760358738 1.008694711 1.066110201 0.791179978 0.887641822 0.839862449 1.037572238 0.922554457 1 12.39606508 -7.504057164 14.47703901 0.980752141 0.910161245 0.037606882 0.098013438 2.619749591 2014.904318 0.016507915 0.017819983 3.13E-08 7.504057164 -0.070590896 AGVNTVTTLVENK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 AGVNTVTTLVENKK 14 1 P62424;Q5T8U2;Q5T8U3 P62424 RPL7A 60S ribosomal protein L7a 0 1 AGVNTVTTLVENK(1)K 212.1 7.41E-33 923210 122.35 510.16 421.85 221.41 480.19 433.73 531.53 475.51 630.92 230.64 FALSE TRUE FALSE 135.2193344 526.6895187 479.3375211 225.6957107 443.3979459 396.7737639 471.7208455 463.3471427 626.5293764 240.5840191 0.562046203 2.189212403 1.99239136 0.938115971 1.843006645 1.649210805 1.960732251 1.92592652 2.604201969 1 7.910397004 -7.268453873 24.99821226 0.793188473 1.764586346 0 0.661452101 256.4176223 913818.0594 0.059840557 0.069204918 5.39E-08 7.268453873 0.971397873 AGVNTVTTLVENKK ddPTM_HeLa_SAHA_4h_R1 2 AGVNTVTTLVENKK 14 1 P62424;Q5T8U2;Q5T8U3 P62424 RPL7A 60S ribosomal protein L7a 0 0 ; ; 105.99 0.0031359 2504200 77.464 0 0 0 0 132.19 70.633 800.85 569.4 0 FALSE FALSE TRUE 85.61201894 0 0 0 0 120.9266683 62.68518894 780.3654166 565.437499 0 0 AGVVNGTGAPGQS(ph)PGAGR ddPTM_HeLa_SAHA_4h_R1 2 AGVVNGTGAPGQSPGAGR 18 0 H0Y4T7;E7ESY4;Q13330-3;Q13330;Q13330-2 H0Y4T7 MTA1 Metastasis-associated protein MTA1 1 0 AGVVNGTGAPGQS(1)PGAGR;AGVVNGTGAPGQS(1)PGAGR ; 176.85 4.88E-09 9444500 2533.93 2130.27 2366.03 2610.83 2392.51 2777.55 2617.23 2534.84 2461.19 2672.12 TRUE FALSE FALSE 2800.460383 2199.292146 2688.460247 2661.36639 2209.196401 2540.887114 2322.732392 2470.002463 2444.062378 2787.32817 1.004711398 0.789032368 0.9645295 0.954809132 0.792585683 0.911585202 0.833318594 0.886154164 0.87684773 1 11.44466715 -7.29296992 24.40176675 1.002224843 0.878956617 0.169739995 0.068958282 273.5908655 211733.6654 0.009114297 0.010423164 5.09E-08 7.29296992 -0.123268226 AGYTDKVVIGMDVAASEFFR ddPTM_HeLa_SAHA_4h_R1 1 AGYTDKVVIGMDVAASEFFR 20 1 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 66.201 0.014933 557770 0 0 0 63.796 0 105.11 0 0 0 0 FALSE FALSE TRUE 0 0 0 65.03086383 0 96.15403667 0 0 0 0 0 AHAS(ph)PFSGALTPSAPPGPEMNR ddPTM_HeLa_SAHA_4h_R1 1 AHASPFSGALTPSAPPGPEMNR 22 0 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;O15027-4 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 AHAS(0.808)PFS(0.191)GALTPS(0.001)APPGPEMNR 76.98 0.00096196 6595800 588.18 657.71 660.65 598.55 784.32 159.96 905.78 580.88 682.07 771.43 TRUE FALSE FALSE 650.0474711 679.0202355 750.6799415 610.1358008 724.225571 146.3305081 803.8592505 566.0219307 677.3234193 804.6901226 0.807823351 0.843828222 0.93288077 0.758224543 0.900005543 0.181847029 0.998967463 0.703403602 0.841719564 1 9.652289514 -5.416113975 22.24471627 0.891971131 0.644453865 0.233428634 0.196570134 13.17082408 2734.084819 0.026858514 0.060057449 3.84E-06 5.416113975 -0.247517266 AHEAQDAGYR ddPTM_HeLa_SAHA_4h_R1 1 AHEAQDAGYR 10 0 Q08209-3;Q08209;Q08209-2;Q08209-5;E5RJH4;E7ETC2;Q5F2F8;H0YC26;H0YB04;G3V111;P48454-2;P48454;P16298-2;P16298-3;P48454-3;P16298;P16298-4 Q08209-3 PPP3CA;PPP3CC;PPP3CB Serine/threonine-protein phosphatase 2B catalytic subunit alpha isoform;Serine/threonine-protein phosphatase;Serine/threonine-protein phosphatase 2B catalytic subunit gamma isoform;Serine/threonine-protein phosphatase 2B catalytic subunit beta isoform 0 0 174.86 6.60E-05 869310 181.93 214.82 592.63 587.74 216.12 36.133 250.33 323.03 258.69 328.24 FALSE FALSE TRUE 201.0662321 221.7803089 673.3905301 599.1165576 199.5609323 33.05426512 222.1622096 314.7673603 256.8897552 342.3920328 0.58723981 0.647737937 1.966723713 1.749797017 0.582843388 0.096539236 0.648853327 0.919318589 0.750279594 1 8.419505321 -5.55565166 24.99892409 0.95220388 0.526862411 0.200754516 0.478376749 303.4910623 231499.7423 0.077568633 0.155138033 2.78E-06 5.55565166 -0.425341469 AHFS(ph)S(ph)EDQAMLQAMLR ddPTM_HeLa_SAHA_4h_R1 1 AHFSSEDQAMLQAMLR 16 0 A2A304;Q96NH3-5;Q96NH3;Q96NH3-4 A2A304 TBC1D32 Protein broad-minded 2 0 AHFS(1)S(1)EDQAMLQAMLR 77.288 0.019802 47294000 1806.8 1608.8 1159.6 1533.7 1606.6 1939.4 1776.9 1513.9 1591.7 1551.2 TRUE FALSE FALSE 1996.847514 1660.926176 1317.624249 1563.386981 1483.502655 1774.152209 1576.958535 1475.17663 1580.62323 1618.079823 1.234084676 1.026479752 0.814313503 0.966198922 0.916829092 1.096455307 0.974586366 0.911683471 0.976851208 1 10.66006707 -7.002192339 24.97568958 1.111579054 0.95146095 0.230584922 0.094326824 75.42901771 859321.1 0.017349948 0.022596936 9.95E-08 7.002192339 -0.160118103 AHGELHEQFK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 AHGELHEQFKR 11 1 Q96N67-2;Q96N67-6;Q96N67;Q96N67-4;Q96N67-3;Q96N67-5;A0A1B0GWE0 Q96N67-2 DOCK7 Dedicator of cytokinesis protein 7 0 1 ; AHGELHEQFK(1)R;AHGELHEQFK(1)R 98.754 0.0022049 4225500 1580.98 1401.36 1786.57 1549.64 1817.81 401.88 1860.25 1229.99 1621.88 1521.15 FALSE TRUE FALSE 1747.27473 1446.764983 2030.034456 1579.635523 1678.529791 367.6375631 1650.929774 1198.528637 1610.593205 1586.734221 1.101176686 0.91178785 1.279379009 0.995526221 1.057851888 0.231694482 1.04045766 0.755343032 1.015036535 1 10.63184478 AHGPGLEGGLVGKPAEFTIDTK ddPTM_HeLa_SAHA_4h_R1 1 AHGPGLEGGLVGKPAEFTIDTK 22 1 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 99.813 0.00018943 1893300 1289.7 1797.1 1459.5 1626.3 2032.1 25.762 1644.3 1497.8 1700.7 1719.7 FALSE FALSE TRUE 1425.356563 1855.327219 1658.393059 1657.779388 1876.400937 23.56693267 1459.279036 1459.488445 1688.86469 1793.844683 0.794581926 1.034274169 0.924490885 0.924148787 1.046021963 0.013137666 0.813492411 0.813609148 0.941477658 1 10.80883927 AHGS(ph)FSHVR ddPTM_HeLa_SAHA_4h_R1 2 AHGSFSHVR 9 0 Q8N3D4 Q8N3D4 EHBP1L1 EH domain-binding protein 1-like protein 1 1 0 AHGS(0.979)FS(0.021)HVR;AHGS(0.963)FS(0.037)HVR ; 111.63 0.0045257 10821900 929.35 1173.58 733.12 991.22 910.02 333.9 1315.61 1044.55 812.74 1078.54 TRUE FALSE FALSE 1027.103297 1211.604762 833.0257757 1010.406496 840.2944642 305.4498415 1167.5741 1017.831923 807.0840762 1125.041138 0.912947325 1.07694263 0.740440281 0.898106267 0.746901101 0.271501042 1.037805695 0.904706405 0.717381835 1 10.13576204 -6.745210573 24.96811533 0.966596995 0.761486163 0.112602639 0.208458411 287.0762019 441667.3953 0.030206606 0.042644111 1.80E-07 6.745210573 -0.205110832 AHLDHIPDYTPPLLTTISPEQES(ph)DER ddPTM_HeLa_SAHA_4h_R1 1 AHLDHIPDYTPPLLTTISPEQESDER 26 0 F5H0Q6;A0A0A0MQS2;Q8N2M8-3;Q8N2M8;K7EM61 F5H0Q6 CLASRP CLK4-associating serine/arginine rich protein 1 0 AHLDHIPDYTPPLLT(0.04)T(0.032)IS(0.272)PEQES(0.656)DER 123.18 5.31E-08 4571200 1103.6 1041 903.39 1028.7 1143.2 198.69 1353.6 1045.6 1359 985.14 TRUE FALSE FALSE 1219.681711 1074.729083 1026.499285 1048.611976 1055.608263 181.7604942 1201.289366 1018.855066 1349.542608 1027.614207 1.186906237 1.045848798 0.998915038 1.020433514 1.027241796 0.176876198 1.169008133 0.991476236 1.313277492 1 10.00508303 -5.493734511 24.99558328 1.073046935 0.78210068 0.23416642 0.253938209 773.1166429 663063.7989 0.03341395 0.074592289 3.21E-06 5.493734511 -0.290946255 AHLS(ph)ENELEALEK ddPTM_HeLa_SAHA_4h_R1 2 AHLSENELEALEK 13 0 P98175-2;P98175;P98175-5;P98175-4;P98175-3 P98175-2 RBM10 RNA-binding protein 10 1 0 AHLS(1)ENELEALEK;AHLS(1)ENELEALEK ; 168.5 3.13E-05 9721500 5816.9 6689.67 6102.46 5601.62 7323.8 3335.63 7185.2 6571.18 8894.2 6130.24 TRUE FALSE FALSE 6428.748231 6906.419697 6934.071469 5710.047455 6762.652026 3051.415558 6376.702386 6403.098731 8832.304538 6394.544647 1.005348869 1.08004871 1.084372985 0.89295607 1.057565847 0.477190438 0.997209768 1.001337716 1.381224939 1 12.64262591 AHPEVNGDTK(ac)WHSFK ddPTM_HeLa_SAHA_4h_R1 2 AHPEVNGDTKWHSFK 15 1 E7EPB1;E7EQS8;Q6N021-2;Q6N021-3;Q6N021;D6RE87 E7EPB1 TET2 Methylcytosine dioxygenase TET2 0 1 ; AHPEVNGDTK(1)WHSFK;AHPEVNGDTK(1)WHSFK 109.95 0.00082782 11390100 7204.4 8655.9 8633.4 9088.3 14936.7 1455.37 16339.4 11194.7 8185.1 8100.6 FALSE TRUE FALSE 7962.191847 8936.356839 9809.914791 9264.217188 13792.25327 1331.364288 14500.84771 10908.35578 8128.139223 8449.856509 0.942287226 1.057574981 1.160956376 1.096375681 1.63224704 0.15756058 1.716105793 1.2909516 0.961926302 1 13.04471113 -6.912289674 2.58284621 0.972860179 1.173170063 0.053448179 0.39483429 0.685054451 9.292362181 0.061696787 0.082740119 1.22E-07 6.912289674 0.200309885 AHQGTGAGIS(ph)PVILNSGEGK ddPTM_HeLa_SAHA_4h_R1 2 AHQGTGAGISPVILNSGEGK 20 0 F5GZK9;Q8IZD4-2;Q8IZD4 F5GZK9 DCP1B mRNA-decapping enzyme 1B 1 0 AHQGTGAGIS(1)PVILNSGEGK;AHQGTGAGIS(1)PVILNSGEGK ; 113.52 0.00028475 14036200 4622 5643.5 4625.9 4500.3 5364.2 898.39 5664.1 3853.3 6879.9 5826.5 TRUE FALSE FALSE 5108.163166 5826.353103 5256.293561 4587.409814 4953.196155 821.8421178 5026.760561 3754.738166 6832.022216 6077.708929 0.840475124 0.958642997 0.86484786 0.754792615 0.814977521 0.135222356 0.827081491 0.617788415 1.124111453 1 12.56931187 -5.796368 1.831127347 0.920385881 0.560452954 0.458828596 0.18810133 0.231290015 1.575666523 0.026277418 0.058641198 1.60E-06 5.796368 -0.359932927 AHS(ph)GAAPWQPLAAPSGASAQAAEQLQR ddPTM_HeLa_SAHA_4h_R1 1 AHSGAAPWQPLAAPSGASAQAAEQLQR 27 0 H7C3C1;H7C2I6;H7C224;D3YTB5;P51617-4;P51617-2;P51617-3;P51617 H7C3C1 IRAK1 Interleukin-1 receptor-associated kinase 1 1 0 AHS(1)GAAPWQPLAAPSGASAQAAEQLQR 54.388 0.0090881 6958300 363.5 506.37 432.46 528.34 855.74 103.5 760.52 537.81 579.94 496.92 TRUE FALSE FALSE 401.7345978 522.7767202 491.3933966 538.5667847 790.1733861 94.68121772 674.944288 524.0535989 575.9041503 518.3446531 0.775033745 1.008550425 0.948005142 1.039012907 1.524416971 0.18266074 1.302114884 1.011013803 1.111044837 1 9.017767871 -7.142072495 18.75133154 0.893630967 1.001690126 0 0.333371912 11.22736871 1719.818939 0.051245215 0.062762573 7.21E-08 7.142072495 0.108059159 AHS(ph)HEEASRPAATSTR ddPTM_HeLa_SAHA_4h_R1 1 AHSHEEASRPAATSTR 16 1 Q96FS4;F6RY50;E9PIB3 Q96FS4 SIPA1 Signal-induced proliferation-associated protein 1 1 0 AHS(0.999)HEEAS(0.001)RPAATSTR 48.704 0.022553 3969300 0 0 0 0 0 0 65.739 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 58.3418747 0 0 0 0 AHS(ph)LLFENSDSFSEDSSTLGR ddPTM_HeLa_SAHA_4h_R1 2 AHSLLFENSDSFSEDSSTLGR 21 0 Q8IZ21-3;Q8IZ21;Q8IZ21-2 Q8IZ21-3 PHACTR4 Phosphatase and actin regulator 4 1 0 AHS(1)LLFENSDSFSEDSSTLGR;AHS(1)LLFENSDSFSEDSSTLGR ; 188.23 6.37E-15 14451900 3082.6 4440.7 3579.1 4743.3 4814.4 462.71 5803.5 5101.9 4239.6 4247.6 TRUE FALSE FALSE 3406.842011 4584.581594 4066.841109 4835.11343 4445.521712 423.2845049 5150.474906 4971.400785 4210.096278 4430.734823 0.768911286 1.034722631 0.917870573 1.091266714 1.003337345 0.095533703 1.1624426 1.122026252 0.950202719 1 12.11333027 AHS(ph)PAEGASVESSSPGPK ddPTM_HeLa_SAHA_4h_R1 1 AHSPAEGASVESSSPGPK 18 0 C9J4C4;Q8NFG4-3;Q8NFG4-2;Q8NFG4 C9J4C4 FLCN Folliculin 1 0 AHS(1)PAEGASVESSSPGPK 168.62 1.10E-06 8129900 4279.1 4741.8 3682.1 4601.9 4983.6 1067 5115.9 5077.4 4779.2 4415.2 TRUE FALSE FALSE 4729.195371 4895.437431 4183.877412 4690.976429 4601.757645 976.0855972 4540.245468 4947.52746 4745.941158 4605.560879 1.026844611 1.062940554 0.908440366 1.018546177 0.999174208 0.211936314 0.985818142 1.0742508 1.030480604 1 12.16916115 -5.466564306 24.99994629 1.008842823 0.751078752 0.219383345 0.215450493 310.2519101 137731.138 0.029055472 0.064969771 3.42E-06 5.466564306 -0.257764071 AHSAPSSGTSSRPGS(ph)IR ddPTM_HeLa_SAHA_4h_R1 1 AHSAPSSGTSSRPGSIR 17 1 Q9BVG8-2;Q9BVG8;Q9BVG8-6;B7Z896;F5H3M2;Q9BVG8-5 Q9BVG8-2 KIFC3 Kinesin-like protein KIFC3;Kinesin-like protein 1 0 AHSAPS(0.001)S(0.003)GT(0.011)S(0.031)S(0.031)RPGS(0.923)IR 62.468 0.016546 1261400 130.45 181.32 0 280.83 332.46 199.82 315.56 316.04 180.82 237.25 TRUE FALSE FALSE 144.1713295 187.194887 0 286.2658707 306.9869866 182.7942118 280.0523583 307.9561544 179.5616589 247.4790086 0.582559831 0.756407131 0 1.156727887 1.240456669 0.738625118 1.131620657 1.244372831 0.72556319 1 7.951162349 AHSIQIMK ddPTM_HeLa_SAHA_4h_R1 2 AHSIQIMK 8 0 M0R3D6;M0R1A7;M0R117;Q02543;M0R0P7 M0R3D6 RPL18A 60S ribosomal protein L18a 0 0 ; ; 82.279 0.013 2597700 3477.1 3286 4027.6 4132.4 4301 351.67 4577.6 2653.6 2391.8 3328 FALSE FALSE TRUE 3842.837332 3392.468556 4576.460353 4212.388578 3971.458309 321.7057376 4062.5164 2585.724754 2375.155269 3471.486367 1.106971748 0.977238047 1.318299964 1.213425067 1.144022442 0.092670892 1.170252731 0.744846582 0.684189715 1 11.76133779 AHT(ph)PLNTPDPSTK ddPTM_HeLa_SAHA_4h_R1 5 AHTPLNTPDPSTK 13 0 Q9BYW2;H7C3H4;A0A1W2PPX9 Q9BYW2 SETD2 Histone-lysine N-methyltransferase SETD2 1 0 AHT(1)PLNTPDPSTK;AHT(1)PLNTPDPSTK;AHT(0.999)PLNT(0.001)PDPSTK;AHT(1)PLNTPDPSTK;AHT(0.999)PLNT(0.001)PDPSTK ;;;; 130.19 0.0012853 66904800 24542.4 25674.9 23811.9 23964.3 25965.5 1852.75 27526.8 26731.8 29289.1 24510.8 TRUE FALSE FALSE 27123.88224 26506.78361 27056.86172 24428.16368 23976.029 1694.885277 24429.41202 26048.03926 29085.27477 25567.58054 1.06087012 1.036734139 1.058248812 0.955435093 0.937751187 0.066290405 0.955483918 1.018791716 1.137584165 1 14.64202802 -5.50351651 24.93732954 1.024701741 0.673435313 0.306119934 0.242523447 664.0793616 855291.2486 0.032654432 0.072009252 3.14E-06 5.50351651 -0.351266429 AHT(ph)PTPGIYMGR ddPTM_HeLa_SAHA_4h_R1 2 AHTPTPGIYMGR 12 0 Q13595;Q13595-4;Q13595-3;Q13595-2 Q13595 TRA2A Transformer-2 protein homolog alpha 1 0 AHT(0.989)PT(0.011)PGIYMGR;AHT(0.988)PT(0.012)PGIYMGR ; 82.483 0.021909 20467500 1550.61 2339.22 1510.5 2278.52 2238.83 189.436 1988.99 2084.07 3676.2 1720.1 TRUE FALSE FALSE 1713.710274 2415.012263 1716.343074 2322.624049 2067.291329 173.2949871 1765.18361 2030.762507 3650.617025 1794.261929 0.955105967 1.345964167 0.956573311 1.294473238 1.152168084 0.096582881 0.983793716 1.131809394 2.034606523 1 10.8091748 AHT(ph)PTPGIYMGRPTHSGGGGGGGGGGGGGGGGR ddPTM_HeLa_SAHA_4h_R1 4 AHTPTPGIYMGRPTHSGGGGGGGGGGGGGGGGR 33 1 Q13595;Q13595-4;Q13595-3 Q13595 TRA2A Transformer-2 protein homolog alpha 1 0 AHT(0.452)PT(0.452)PGIY(0.094)MGRPT(0.002)HSGGGGGGGGGGGGGGGGR;AHT(0.729)PT(0.237)PGIY(0.024)MGRPT(0.009)HS(0.002)GGGGGGGGGGGGGGGGR;AHT(0.868)PT(0.131)PGIY(0.002)MGRPTHSGGGGGGGGGGGGGGGGR;AHT(0.618)PT(0.381)PGIYMGRPTHSGGGGGGGGGGGGGGGGR ;;; 82.169 1.07E-07 157894000 4244.08 4070.28 3575.54 4754.18 4833.03 531.524 4665.5 4499.35 4025.91 4544.59 TRUE FALSE FALSE 4690.491807 4202.159743 4062.795971 4846.204029 4462.724286 486.2351649 4140.525661 4384.263142 3997.893365 4740.529516 0.989444701 0.886432566 0.85703421 1.022291711 0.941397848 0.1025698 0.873431048 0.924846713 0.843343207 1 12.2108325 -5.4851166 24.98624993 0.976288833 0.634995072 0.276674631 0.216139833 446.6636452 295545.6007 0.028616943 0.063974427 3.27E-06 5.4851166 -0.341293761 AHT(ph)SPAPAPRPTPR ddPTM_HeLa_SAHA_4h_R1 1 AHTSPAPAPRPTPR 14 1 Q96P48-3;Q96P48 Q96P48-3 ARAP1 "Arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1" 1 0 AHT(0.842)S(0.148)PAPAPRPT(0.011)PR 85.28 0.013927 3340700 341.69 401.12 356.87 428.36 437.77 0 361.45 436.21 555.31 329.28 TRUE FALSE FALSE 377.6305219 414.1165512 405.5023851 436.6515272 404.2281572 0 320.7786947 425.0523798 551.4455525 343.4768723 1.099435078 1.205660656 1.180581337 1.271269079 1.176871545 0 0.933916431 1.237499273 1.605480884 1 8.424069149 AHTPT(ph)PGIYMGRPTHSGGGGGGGGGGGGGGGGR ddPTM_HeLa_SAHA_4h_R1 4 AHTPTPGIYMGRPTHSGGGGGGGGGGGGGGGGR 33 1 Q13595;Q13595-4;Q13595-3 Q13595 TRA2A Transformer-2 protein homolog alpha 1 0 AHT(0.192)PT(0.783)PGIY(0.024)MGRPTHSGGGGGGGGGGGGGGGGR;AHT(0.031)PT(0.741)PGIY(0.228)MGRPTHSGGGGGGGGGGGGGGGGR;AHT(0.309)PT(0.673)PGIY(0.018)MGRPTHSGGGGGGGGGGGGGGGGR;AHT(0.2)PT(0.752)PGIY(0.047)MGRPTHSGGGGGGGGGGGGGGGGR ;;; 94.037 8.99E-11 85705000 5727.15 5761.59 5179.88 6783.32 6409.83 247.225 6049.64 6565.04 6085.81 6179.01 TRUE FALSE FALSE 6329.557914 5948.269296 5885.767071 6914.620967 5918.71021 226.1600392 5368.918585 6397.115783 6043.458353 6445.41736 0.982024524 0.922867979 0.913170822 1.072796466 0.918281917 0.035088502 0.832982301 0.992506059 0.937636466 1 12.65405807 -5.496406785 24.99307524 0.984601325 0.614006928 0.313610387 0.23355931 600.1326157 566605.1955 0.031429911 0.070066046 3.19E-06 5.496406785 -0.370594398 AHTS(ph)PAPAPRPTPR ddPTM_HeLa_SAHA_4h_R1 1 AHTSPAPAPRPTPR 14 1 Q96P48-3;Q96P48 Q96P48-3 ARAP1 "Arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1" 1 0 AHT(0.051)S(0.791)PAPAPRPT(0.158)PR 71.545 0.016326 3921700 330.46 367.27 316.89 617.71 485.19 179.88 508.15 467.61 588.27 569.74 TRUE FALSE FALSE 365.219299 379.169789 360.0741189 629.6666703 448.014847 164.553212 450.9716246 455.6492133 584.1761812 594.3042796 0.614532507 0.638006156 0.605875023 1.059502164 0.753847587 0.276883774 0.758822778 0.766693475 0.982958059 1 9.21505796 -9.320565124 0.954396974 1.00747429 0.679870122 0.306854512 0.183964872 0.61361644 0.965058962 0.142472296 0.034538968 4.78E-10 9.320565124 -0.327604168 AHVIVMAATNRPNSIDPALRR ddPTM_HeLa_SAHA_4h_R1 1 AHVIVMAATNRPNSIDPALRR 21 2 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 46.121 0.014227 5951100 632.32 522.76 1085.5 962.98 1011.2 194.56 1013.6 509.05 630.09 919.15 FALSE FALSE TRUE 698.8303188 539.697767 1233.426287 981.6198704 933.7220745 177.9823934 899.5470604 496.0292381 625.7051524 958.7790547 0.728875245 0.562901082 1.286455186 1.023822815 0.973865741 0.18563442 0.938221435 0.517355105 0.652606197 1 9.905054582 AIACLLFGGSR ddPTM_HeLa_SAHA_4h_R1 2 AIACLLFGGSR 11 0 B1AHB1;P33992 B1AHB1 MCM5 DNA helicase;DNA replication licensing factor MCM5 0 0 ; ; 140.5 0.00014 5014600 754.46 643.62 1251.52 969.61 875.37 574.18 876.64 271.39 640.09 757.55 FALSE FALSE TRUE 833.8175644 664.4737103 1422.070628 988.3782036 808.2993397 525.2566338 777.99816 264.4482368 635.6355616 790.2116879 1.055182525 0.840880641 1.799607181 1.250776493 1.022889628 0.664703701 0.98454398 0.33465493 0.804386434 1 9.626095375 -4.168537225 1.036299915 1.081237984 1.66E-14 0.363077617 0.28983228 1.870666151 1.379703841 0.042525963 2.330348224 6.78E-05 4.168537225 -1.081237984 AIACLLFGGSRK ddPTM_HeLa_SAHA_4h_R1 2 AIACLLFGGSRK 12 1 B1AHB1;P33992 B1AHB1 MCM5 DNA helicase;DNA replication licensing factor MCM5 0 0 ; ; 125.68 0.00038728 2613300 1023.69 586.61 1012.89 989.86 987.54 874.58 1051.7 436.9 378.64 816.69 FALSE FALSE TRUE 1131.366411 605.6165489 1150.921374 1009.020172 911.8748985 800.0608637 933.3599481 425.7247306 376.0050134 851.9015027 1.328048381 0.710899731 1.351002869 1.184432905 1.070399448 0.939147145 1.095619558 0.499734687 0.441371464 1 9.734542825 -4.036447439 1.693369916 1.128018129 1.56E-16 0.126872735 0.282519908 1.265135031 2.186268197 0.027132303 2.763995897 9.20E-05 4.036447439 -1.128018129 AIADTGANVVVTGGK ddPTM_HeLa_SAHA_4h_R1 2 AIADTGANVVVTGGK 15 0 P50990-2;P50990;P50990-3;H7C4C8 P50990-2 CCT8 T-complex protein 1 subunit theta 0 0 ; ; 258.23 8.08E-70 3426600 1590.22 1632.71 1641.6 1510.58 1831.19 2038.48 1657.06 1541.08 1951.39 1869.11 FALSE FALSE TRUE 1757.486636 1685.610875 1865.308699 1539.81946 1690.884618 1864.790036 1470.603248 1501.661405 1937.810118 1949.696479 0.901415505 0.864550402 0.956717478 0.789773935 0.867255307 0.956451456 0.754272915 0.770202655 0.993903481 1 10.92903383 -1.000000042 0.051914273 1.269751786 0.1299334 0.565109641 0.057365684 221.4542804 0.875263857 4.467398665 20.08355315 0.09999999 1.000000042 -1.139818386 AIAELGIYPAVDPLDSTSR ddPTM_HeLa_SAHA_4h_R1 1 AIAELGIYPAVDPLDSTSR 19 0 P06576;H0YH81 P06576 ATP5B "ATP synthase subunit beta, mitochondrial;ATP synthase subunit beta" 0 0 188.63 1.65E-20 733370 174.67 296.52 212.83 61.895 332.4 269.61 244.73 151.94 213.04 236.93 FALSE FALSE TRUE 193.042592 306.1274426 241.833364 63.09306723 306.9315838 246.6377112 217.1923363 148.0535948 211.5574373 247.1452118 0.781089751 1.238654151 0.978507179 0.255287435 1.241907871 0.997946549 0.878804549 0.599055081 0.856004596 1 7.949215146 AIAINTFLPK ddPTM_HeLa_SAHA_4h_R1 1 AIAINTFLPK 10 0 Q92615 Q92615 LARP4B La-related protein 4B 0 0 145.17 8.04E-05 190530 0 59.895 74.924 74.734 0 0 72.796 0 0 0 FALSE FALSE TRUE 0 61.8356373 85.13425253 76.18058464 0 0 64.60480249 0 0 0 0 AIANECQANFISIK ddPTM_HeLa_SAHA_4h_R1 2 AIANECQANFISIK 14 0 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 ; ; 211.67 2.73E-32 1994090 147.17 159.87 70.301 0 149.14 203.83 202.25 208.403 159.79 364.64 FALSE FALSE TRUE 162.6500158 165.0498929 79.88125417 0 137.7129254 186.4625373 179.4922977 203.072353 158.6780084 380.3614149 0.427619652 0.433929117 0.210014084 0 0.362058085 0.490224639 0.471899332 0.533893148 0.417176933 1 8.571227092 -8.865563032 0.673684522 1.01514012 0.349102109 0.089847888 0.229550638 0.343009436 0.285311572 0.122509905 0.037686675 1.36E-09 8.865563032 -0.666038011 AIAVDPIAGK ddPTM_HeLa_SAHA_4h_R1 1 AIAVDPIAGK 10 0 Q9NZR2 Q9NZR2 LRP1B Low-density lipoprotein receptor-related protein 1B 0 0 101.64 0.014472 2777900 1456.5 1627.4 2212.2 2879.1 3597.9 3332.6 4033.8 3647.8 937.46 1199.7 FALSE FALSE TRUE 1609.701353 1680.128828 2513.667095 2934.829144 3322.229679 3048.643731 3579.906208 3554.494558 930.9361395 1251.424938 1.28629477 1.342572596 2.008643922 2.345189914 2.654757451 2.436137908 2.860663951 2.840357779 0.743900901 1 10.28935604 -6.489306466 0.878503843 1.09223395 2.777440966 0.9519379 0.165243627 0.065574337 0.100990493 0.026069652 0.049942575 3.24E-07 6.489306466 1.685207016 up AICDHVR ddPTM_HeLa_SAHA_4h_R1 3 AICDHVR 7 0 B8ZZ51;B9A041;A0A5K1VW95;P40925-2;P40925;P40925-3 B8ZZ51 MDH1 "Malate dehydrogenase, cytoplasmic" 0 0 ;; ;; 131.04 0.0013123 4716700 2213.7 2342.62 3048.96 2844.04 2624.31 1930.69 3303.94 1737.81 1536.68 2109.51 FALSE FALSE TRUE 2446.547123 2418.522425 3464.45639 2899.090507 2423.235935 1766.18435 2932.171976 1693.359337 1525.986119 2200.4613 1.111833743 1.099097914 1.574422777 1.317492158 1.10123997 0.802642769 1.332526037 0.769547429 0.693484643 1 11.10359028 -2.856274379 13.78363619 1.097362052 0.659979407 0 0.264289991 0 0 0.029879222 0 0.001392277 2.856274379 -0.437382644 AIDGLDR ddPTM_HeLa_SAHA_4h_R1 1 AIDGLDR 7 0 A0A0A0MSS8;P42330;S4R3Z2;P42330-2 A0A0A0MSS8 AKR1C3 Aldo-keto reductase family 1 member C3 0 0 110.34 0.0098048 2073800 1425.9 1517.1 1428.7 1600.8 1561.1 1812.3 2030.5 1755.6 1782.2 1637.9 FALSE FALSE TRUE 1575.882704 1566.255035 1623.395796 1631.785799 1441.488855 1657.881844 1802.022796 1710.694294 1769.797525 1708.517885 0.922368281 0.916733181 0.950177818 0.955088509 0.843707209 0.970362593 1.05472867 1.001273858 1.035867134 1 10.73852963 -4.912340021 6.238441251 0.948908203 1.026493588 0.29668299 0.04948683 0.19003308 10.94078356 0.006702376 0.020556047 1.22E-05 4.912340021 0.077585385 AIDLFTDAIK ddPTM_HeLa_SAHA_4h_R1 2 AIDLFTDAIK 10 0 Q8NFI4;P50502;H7C3I1;Q3KNR6;F6VDH7;Q8IZP2 Q8NFI4 ST13P5;ST13;ST13P4 Putative protein FAM10A5;Hsc70-interacting protein;Putative protein FAM10A4 0 0 ; ; 159.37 2.82E-07 1513690 1669.95 1529.16 1880.61 1834.9 1904.78 1461.86 2059.73 1337.12 986.87 1301.73 FALSE FALSE TRUE 1845.603003 1578.705787 2136.889737 1870.417143 1758.836168 1337.301304 1827.963759 1302.918407 980.0022913 1357.853951 1.359205828 1.162647711 1.573725757 1.377480355 1.295305851 0.984863875 1.346215297 0.959542376 0.721728792 1 10.4071126 -3.246825509 14.15420973 1.207895117 1.20434262 0 0.24602981 0 0 0.02777873 0 0.000566467 3.246825509 -0.003552497 AIEEGTLEEIEEEVR ddPTM_HeLa_SAHA_4h_R1 2 AIEEGTLEEIEEEVR 15 0 P51532;P51532-4;P51532-3;P51532-2;P51532-5;A0A0A0MT49;Q9HBD4;A0A2R8Y4P4;A0A2R8Y7S2;A0A2R8YGG3;A0A2R8Y440;A0A2R8Y4C5;A0A2R8Y6N0;A0A2R8YG32;A0A2R8Y7F3;K7EP28;A0A2R8YF58;A0A2R8Y7Y7;A0A2R8Y526;A0A2R8YF80;A0A2R8Y6V2;A0A2R8YDA1;A0A2R8Y523;A0A2R8Y5K3;K7EQF0;A0A2R8YFK5 P51532 SMARCA4 Transcription activator BRG1 0 0 ; ; 304.38 1.72E-83 2359300 652.87 579.03 541.63 731.33 639.59 868.59 721.21 642.81 662.2 721.23 FALSE FALSE TRUE 721.5418621 597.7909519 615.4405157 745.4859497 590.5847524 794.5812454 640.0575527 626.367851 657.5916963 752.3257549 0.959081697 0.794590572 0.818050574 0.990908453 0.785012009 1.056166481 0.850771821 0.832575313 0.874078406 1 9.55521367 -7.462954184 8.351793191 0.982073095 0.879830573 0.072161966 0.088641024 0.342417702 44.41069743 0.01335237 0.015142982 3.44E-08 7.462954184 -0.102242522 AIEINPDSAQPYK ddPTM_HeLa_SAHA_4h_R1 1 AIEINPDSAQPYK 13 0 Q8NFI4;P50502;H7C3I1;Q3KNR6;F6VDH7;Q8IZP2 Q8NFI4 ST13P5;ST13;ST13P4 Putative protein FAM10A5;Hsc70-interacting protein;Putative protein FAM10A4 0 0 201.46 1.90E-23 1127500 224.85 154.14 201.64 363.23 362.18 371.93 350.47 376.29 296.49 314.72 FALSE FALSE TRUE 248.5007546 159.1342371 229.1184491 370.2608419 334.4298466 340.2394716 311.0341932 366.6650467 294.4267019 328.2891194 0.756957023 0.484738079 0.69791667 1.127849874 1.018705241 1.036401914 0.947439847 1.116896738 0.896851844 1 8.358823125 -6.253147902 24.97608427 0.833134744 1.041357103 0.469656442 0.141391819 674.8171305 2032722.981 0.026397272 0.043293817 5.58E-07 6.253147902 0.208222359 AIENLIGKPTEK(ac)SQTPK ddPTM_HeLa_SAHA_4h_R1 2 AIENLIGKPTEKSQTPK 17 2 Q96T23-3;Q96T23-2;Q96T23 Q96T23-3 RSF1 Remodeling and spacing factor 1 0 1 ; AIENLIGKPTEK(1)SQTPK;AIENLIGK(0.001)PTEK(0.999)SQTPK 137.32 5.05E-06 3045600 505.02 572.28 794.14 719.75 819.38 882.64 839.71 824.25 559.02 512.37 FALSE TRUE FALSE 558.1403207 590.8222475 902.3612635 733.681802 756.5992814 807.4341064 745.2236208 803.1668785 555.1297343 534.4607782 1.044305482 1.105454828 1.688358249 1.372751438 1.415631067 1.510745296 1.394346697 1.502761122 1.038672541 1 9.061940268 -6.893724897 6.32394914 1.02373845 1.469257487 0.865209174 0.084113925 0.049281093 2.623355364 0.012758753 0.016827633 1.28E-07 6.893724897 0.445519037 AIEPPPLDAVIEAEHTLR ddPTM_HeLa_SAHA_4h_R1 4 AIEPPPLDAVIEAEHTLR 18 0 Q08211 Q08211 DHX9 ATP-dependent RNA helicase A 0 0 ;;; ;;; 216.71 7.86E-35 12311980 5072.1 5432.04 5580.22 6211.86 6271.1 6534.84 6418.51 6517.49 6105.75 6303.25 FALSE FALSE TRUE 5605.60675 5608.04166 6340.663321 6332.099533 5790.609673 5978.034868 5696.282362 6350.782043 6063.259589 6575.013955 0.852561955 0.852932283 0.964357394 0.963054919 0.880699222 0.909204894 0.866352893 0.96589636 0.922166802 1 12.68277824 -9.519075926 1.293153725 0.999633796 0.900420354 0.07940974 0.048797226 0.362180769 1.090667177 0.031193453 0.007615214 3.03E-10 9.519075926 -0.099213442 AIEQADLLQEEDES(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 AIEQADLLQEEDESPR 16 0 A0A2R8YGH5;H7C1E4;P61966 A0A2R8YGH5 AP1S1 AP-1 complex subunit sigma-1A 1 0 AIEQADLLQEEDES(1)PR 272.13 4.70E-59 3148100 343.5 594.93 444.75 487.86 497.32 529.56 524.89 542.13 844.08 596.19 TRUE FALSE FALSE 379.630906 614.2061223 505.3582138 497.3032358 459.215449 484.4385088 465.8279958 528.2630996 838.2059786 621.8946686 0.610442451 0.9876369 0.812610623 0.799658304 0.738413549 0.77897196 0.749046453 0.849441435 1.347826281 1 9.280526439 -9.637480579 1.467209077 0.99982317 0.76724737 0.431143178 0.146104722 0.322808445 1.250397895 0.072760891 0.016584367 2.30E-10 9.637480579 -0.2325758 AIESLVK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 AIESLVKK 8 1 K7ENG1;K7EL15;K7EL18;K7EIJ2;K7ES96;K7EIU8;Q13485 K7ENG1 SMAD4 Mothers against decapentaplegic homolog;Mothers against decapentaplegic homolog 4 0 1 ; AIESLVK(1)K;AIESLVK(1)K 103.56 0.003607 2140450 1151.63 1376.04 1173.7 1588.16 1383.92 1465.67 1425.63 1442.43 1278.26 1318.38 FALSE TRUE FALSE 1272.763727 1420.624599 1333.645724 1618.901133 1277.884349 1340.78667 1265.21436 1405.534729 1269.364485 1375.221814 0.925497047 1.033014881 0.969767721 1.177192739 0.929220534 0.974960299 0.920007484 1.022042201 0.923025269 1 10.42544862 -3.891802863 18.59250295 0.978994237 5.444650057 0.020316709 0.073955968 861.2068656 149546.0867 0.009682489 1715.196764 0.000128291 3.891802863 4.465655819 AIGALASS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 AIGALASSR 9 0 Q86V48-2;Q86V48-3;Q86V48 Q86V48-2 LUZP1 Leucine zipper protein 1 1 0 AIGALAS(0.049)S(0.951)R;AIGALAS(0.049)S(0.951)R ; 94.409 0.014572 18761300 8779.8 7720.3 8122 7277.6 8814.4 7579.5 8362.4 6760.9 5503.3 6441.2 TRUE FALSE FALSE 9703.299647 7970.442785 9228.823862 7418.468472 8139.042576 6933.683959 7421.440743 6587.965968 5465.002087 6718.911654 1.444177293 1.186269919 1.373559341 1.104117579 1.211363238 1.031965341 1.104559953 0.980510878 0.81337609 1 12.71401185 -5.266237215 20.39631522 1.217020587 1.0455668 0.032189291 0.175429055 42.53104727 180817.9378 0.024554949 0.05689512 5.42E-06 5.266237215 -0.171453787 AIGGIILTAS(ph)HNPGGPNGDFGIK ddPTM_HeLa_SAHA_4h_R1 7 AIGGIILTASHNPGGPNGDFGIK 23 0 A0A3B3ITK7;P36871;P36871-2 A0A3B3ITK7 PGM1 Phosphoglucomutase-1 1 0 AIGGIILT(0.445)AS(0.555)HNPGGPNGDFGIK;AIGGIILT(0.018)AS(0.982)HNPGGPNGDFGIK;AIGGIILT(0.079)AS(0.921)HNPGGPNGDFGIK;AIGGIILT(0.089)AS(0.911)HNPGGPNGDFGIK;AIGGIILT(0.11)AS(0.89)HNPGGPNGDFGIK;AIGGIILT(0.002)AS(0.998)HNPGGPNGDFGIK;AIGGIILT(0.063)AS(0.937)HNPGGPNGDFGIK ;;;;;; 145.19 1.61E-06 781114800 6257.98 8057.5 7216.09 7249.32 8021.56 8916.33 8899.39 6380.5 8007.49 7857.73 TRUE FALSE FALSE 6916.223049 8318.568287 8199.461165 7389.641071 7406.949806 8156.608522 7898.007215 6217.296049 7951.765225 8196.515195 0.84380043 1.014890852 1.000359417 0.901558881 0.9036706 0.995131263 0.963581111 0.758529192 0.970139753 1 13.00079495 -4.256481887 23.98165543 0.939026587 0.758529057 0.522178539 0.054475176 238.7023891 1154641.28 0.009384527 0.101905869 5.54E-05 4.256481887 -0.18049753 AIGNNSATS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 AIGNNSATSPR 11 0 A0A1B0GV57;Q9NYJ8;Q9NYJ8-2 A0A1B0GV57 TAB2 TGF-beta-activated kinase 1 and MAP3K7-binding protein 2 1 0 AIGNNSAT(0.006)S(0.994)PR;AIGNNSAT(0.014)S(0.986)PR;AIGNNS(0.011)AT(0.192)S(0.797)PR;AIGNNS(0.001)AT(0.033)S(0.967)PR ;;; 132.86 0.0012078 105934200 12038.4 17139.4 15345.3 8635.9 13995.1 17611.1 16253.5 8145.1 10131.2 15572.1 TRUE FALSE FALSE 13304.65415 17694.72781 17436.47757 8803.060332 12922.79846 16110.5352 14424.6134 7936.760136 10060.69615 16243.48944 0.81907611 1.089342772 1.07344408 0.541943919 0.79556788 0.991814921 0.888024304 0.488611771 0.619367913 1 13.98757397 -6.28153476 24.9637198 0.939115296 0.766294159 0.174863655 0.188399215 982.1246111 1220053.573 0.02567517 0.039249499 5.23E-07 6.28153476 -0.172821138 AIGSGESET(ph)PPSTPTAQEPSSSGGFEFFR ddPTM_HeLa_SAHA_4h_R1 1 AIGSGESETPPSTPTAQEPSSSGGFEFFR 29 0 Q4ADV7-2;Q4ADV7-3;Q4ADV7;H0YFN7 Q4ADV7-2 RIC1 RAB6A-GEF complex partner protein 1 1 0 AIGS(0.234)GES(0.181)ET(0.574)PPS(0.007)T(0.004)PTAQEPSSSGGFEFFR 92.48 1.11E-07 3342700 222.65 341.38 205.18 244.15 442.37 448.26 251.32 356.64 335.54 309.91 TRUE FALSE FALSE 246.0693486 352.440936 233.1408619 248.8758763 408.4757062 410.0657262 223.0408122 347.5176652 333.2049498 323.2717368 0.761184232 1.090231208 0.721191602 0.769865868 1.263567642 1.268486167 0.689948383 1.075001696 1.030727131 1 8.33660357 -5.781105864 24.99993992 0.880345948 1.060674852 0.173639997 0.188338377 323.3303042 411015.3744 0.028142003 0.051062546 1.66E-06 5.781105864 0.180328904 AIGSVPERS(ph)PAGVDLSLTGLPPPVSR ddPTM_HeLa_SAHA_4h_R1 1 AIGSVPERSPAGVDLSLTGLPPPVSR 26 1 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 AIGS(0.023)VPERS(0.965)PAGVDLS(0.003)LT(0.007)GLPPPVSR 60.33 0.0031228 17235000 365.81 256.63 243.94 294.66 435 361.28 385.5 440.63 385.36 261.92 TRUE FALSE FALSE 404.2875742 264.9449804 277.1828728 300.3635704 401.670394 330.4969115 342.1225254 429.3593226 382.6782484 273.212653 1.479754213 0.969739057 1.01453161 1.099376501 1.470174934 1.209669127 1.252220648 1.571520638 1.400660783 1 8.093880489 -9.664137566 1.516687109 1.000166753 1.278045409 0 0.227092896 0.528250716 2.188844327 0.14622248 0.032896679 2.17E-10 9.664137566 0.277878656 AILGSYDSELT(ph)PAEYSPQLTR ddPTM_HeLa_SAHA_4h_R1 1 AILGSYDSELTPAEYSPQLTR 21 0 C9J9H5;C9JX80;Q9Y6D9-3;Q9Y6D9 C9J9H5 MAD1L1 Mitotic spindle assembly checkpoint protein MAD1 1 0 AILGSYDSELT(0.515)PAEY(0.037)S(0.353)PQLT(0.095)R 115.99 6.73E-05 7160800 837.72 801.1 818.52 879.53 989.86 831.24 938.9 730.43 723.33 860.7 TRUE FALSE FALSE 925.8352332 827.0561656 930.0636429 896.554575 914.0171406 760.4136756 833.252501 711.7466582 718.2962876 897.8089892 1.031216266 0.921193902 1.035925964 0.998602805 1.018053006 0.846965986 0.92809552 0.792759559 0.800054685 1 9.810264731 -5.263013786 24.99581174 1.008441203 0.863155866 0.234395967 0.078744204 52.17650135 828378.7581 0.005704218 0.013418024 5.46E-06 5.263013786 -0.145285337 AILGSYDSELTPAEYS(ph)PQLTR ddPTM_HeLa_SAHA_4h_R1 3 AILGSYDSELTPAEYSPQLTR 21 0 C9J9H5;C9JX80;Q9Y6D9-3;Q9Y6D9 C9J9H5 MAD1L1 Mitotic spindle assembly checkpoint protein MAD1 1 0 AILGSYDSELTPAEY(0.036)S(0.918)PQLT(0.046)R;AILGSYDS(0.001)ELT(0.103)PAEY(0.129)S(0.728)PQLT(0.039)R;AILGSYDSELTPAEY(0.001)S(0.995)PQLT(0.004)R ;; 143.35 5.93E-06 17645100 2372.51 2547.34 2272.99 2682.62 2859.8 3196.63 2994.82 2459.57 3268.52 2610.06 TRUE FALSE FALSE 2622.061487 2629.875487 2582.74124 2734.545989 2640.682742 2924.25914 2657.834972 2396.657761 3245.774103 2722.59246 0.963075277 0.965945336 0.948633069 1.004390495 0.969914808 1.074071564 0.97621477 0.880285168 1.19216304 1 11.41076533 -8.484643486 0.00270749 1.965898046 1.37E-07 0.025534354 0.078559226 121445.8319 131.6472612 48124.96809 47462.10553 3.28E-09 8.484643486 -1.965897909 AILGSYDSELTPAEYS(ph)PQLTRR ddPTM_HeLa_SAHA_4h_R1 2 AILGSYDSELTPAEYSPQLTRR 22 1 C9J9H5;C9JX80;Q9Y6D9-3;Q9Y6D9 C9J9H5 MAD1L1 Mitotic spindle assembly checkpoint protein MAD1 1 0 AILGSYDSELT(0.002)PAEY(0.042)S(0.587)PQLT(0.369)RR;AILGSYDSELTPAEYS(0.992)PQLT(0.008)RR ; 151.85 9.28E-07 13997600 1375.62 813.1 1419.43 1073.26 1445.63 1061.71 1290.83 1143.74 557.23 1236.6 TRUE FALSE FALSE 1520.314023 839.4449735 1612.862528 1094.034499 1334.866142 971.246335 1145.582411 1114.484787 553.3521911 1289.915878 1.178614861 0.650774975 1.250362567 0.848144067 1.034847438 0.752953237 0.888106295 0.863998037 0.428983161 1 10.33306127 -5.955191199 0.713436704 1.069296344 0.835806653 0 0.26103356 0.879041839 0.826544796 0.031871674 0.105389132 1.11E-06 5.955191199 -0.233489691 AILPCIK ddPTM_HeLa_SAHA_4h_R1 2 AILPCIK 7 0 P60842;P60842-2;J3KT12;J3QS69;J3QL43;J3KTB5;J3QR64;J3QLN6;J3KS25;J3QKZ9;J3KS93;J3KT04;J3QQP0 P60842 EIF4A1 Eukaryotic initiation factor 4A-I 0 0 ; ; 110.24 0.011575 3835200 6939.1 6583.3 6642.2 6540.8 7057.3 7706.6 7858.7 7227.5 7219.1 6816.8 FALSE FALSE TRUE 7668.986376 6796.603239 7547.364425 6667.406642 6516.571199 7049.954324 6974.418393 7042.631015 7168.861695 7110.705609 1.07851271 0.955826835 1.061408648 0.937657528 0.916445084 0.991456363 0.980833517 0.990426464 1.008178666 1 12.79577701 -6.259681446 24.99546204 1.032290047 0.963288435 0.333604936 0.038915339 128.103057 1821444.911 0.006598531 0.010572586 5.50E-07 6.259681446 -0.069001612 AILVDLEPGT(ph)MDSVR ddPTM_HeLa_SAHA_4h_R1 1 AILVDLEPGTMDSVR 15 0 A0A0B4J269;Q13509;G3V5W4;G3V2R8;G3V3R4;G3V2N6;P07437;Q5JP53;Q9BVA1;Q13885 A0A0B4J269;P07437;Q9BVA1 TUBB3;TUBB;TUBB2B;TUBB2A Tubulin beta-3 chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain 1 0 AILVDLEPGT(0.98)MDS(0.02)VR 155.09 4.58E-05 1911900 410.55 342.78 277.22 303.55 351.97 526.49 459.53 342.88 393.81 557.64 TRUE FALSE FALSE 453.7335327 353.8862969 314.9980979 309.4256492 325.0021346 481.63009 407.822475 334.1096261 391.0694441 581.6825894 0.780036296 0.608383856 0.541529184 0.531949305 0.55872763 0.827994681 0.701108272 0.57438478 0.672307288 1 9.184088313 -8.017202446 0.871789351 0.962659289 0.623500178 0.201540496 0.128529638 0.219144182 0.358518504 0.031260848 0.023503593 9.61E-09 8.017202446 -0.339159112 AILVDLEPGTMDS(ph)VR ddPTM_HeLa_SAHA_4h_R1 1 AILVDLEPGTMDSVR 15 0 A0A0B4J269;Q13509;G3V5W4;G3V2R8;G3V3R4;G3V2N6;P07437;Q5JP53;Q9BVA1;Q13885 A0A0B4J269;P07437;Q9BVA1 TUBB3;TUBB;TUBB2B;TUBB2A Tubulin beta-3 chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain 1 0 AILVDLEPGT(0.029)MDS(0.971)VR 107.11 0.0046466 1574500 857.71 780.51 734.89 795.81 1019.1 952.65 586.4 679.35 1075.5 856.93 TRUE FALSE FALSE 947.9278731 805.7990361 835.0369821 811.2140533 941.0167782 871.4788605 520.4167287 661.9732107 1068.015508 893.876446 1.060468566 0.901465789 0.934174948 0.907523693 1.052736966 0.974943309 0.582202083 0.740564553 1.194813347 1 9.803931622 -4.800265205 7.989897215 1.003872778 0.661676816 0.700525506 0.08943347 0.063345552 11.35512431 0.009858058 0.030251141 1.58E-05 4.800265205 -0.342195962 AILVDLEPGTMDSVR ddPTM_HeLa_SAHA_4h_R1 9 AILVDLEPGTMDSVR 15 0 A0A0B4J269;Q13509;G3V5W4;G3V2R8;G3V3R4;G3V2N6;P07437;Q5JP53;Q9BVA1;Q13885 A0A0B4J269;P07437;Q9BVA1 TUBB3;TUBB;TUBB2B;TUBB2A Tubulin beta-3 chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain 0 0 ;;;;;;;; ;;;;;;;; 285.32 9.77E-69 163583400 12246.36 13157.64 11142.76 13760.51 13222.58 13809.39 13647.98 12486.53 12955.96 11682.4 FALSE FALSE TRUE 13534.48833 13583.95617 12661.2373 14026.86457 12209.46878 12632.75228 12112.27337 12167.14264 12865.79842 12186.08544 1.110651029 1.1147104 1.038991345 1.15105582 1.001918856 1.036653842 0.993942922 0.998445539 1.055777796 1 13.57294714 AIMTYVSSFYHAFSGAQK ddPTM_HeLa_SAHA_4h_R1 3 AIMTYVSSFYHAFSGAQK 18 0 O43707;P12814-4;P12814-3;P12814;P12814-2;H9KV75;G3V2N5;G3V2W4 O43707;P12814-4 ACTN4;ACTN1 Alpha-actinin-4;Alpha-actinin-1 0 0 ;; ;; 223.36 7.21E-45 15859360 1090.87 2106.56 2076.01 2152.99 1429.29 985.23 3981.06 882.051 1015.61 740.15 FALSE FALSE TRUE 1205.612712 2174.813926 2358.917831 2194.664235 1319.778109 901.2828612 3533.100651 859.4894126 1008.542287 772.0614887 1.561550122 2.816892123 3.055349692 2.84260291 1.709420983 1.167371867 4.576190761 1.113239587 1.306297882 1 9.592571941 -7.450933071 3.125620465 1.227153058 2.505306663 0.241781766 0.963095501 0.239892166 4.425198319 0.164318937 0.182734504 3.54E-08 7.450933071 1.278153605 AINGPTSAS(ph)GDDISK ddPTM_HeLa_SAHA_4h_R1 1 AINGPTSASGDDISK 15 0 B4DXZ6;P51114;P51114-3;H7C4S4 B4DXZ6 FXR1 Fragile X mental retardation syndrome-related protein 1 1 0 AINGPT(0.011)S(0.039)AS(0.947)GDDIS(0.003)K 133.86 0.00022377 5795800 380.67 459.73 637.37 525.06 336.57 547.42 504.82 977.4 649.92 464.54 TRUE FALSE FALSE 420.7106172 474.6255536 724.2274643 535.2232955 310.7820793 500.7767363 448.016325 952.3995233 645.3971538 484.5685928 0.86821685 0.979480636 1.494581933 1.10453567 0.64135828 1.033448605 0.924567402 1.965458631 1.331900506 1 8.92055709 -4.259711815 24.86713246 0.973587092 1.965458988 0.57090709 0.2334886 63.82229525 918593.6971 0.028653913 0.245244922 5.50E-05 4.259711815 0.991871896 AINQGGLTSVAVR ddPTM_HeLa_SAHA_4h_R1 1 AINQGGLTSVAVR 13 0 G3V5Z7;P60900;G3V295;P60900-2;G3V3U4;G3V3I1 G3V5Z7 PSMA6 Proteasome subunit alpha type;Proteasome subunit alpha type-6 0 0 116.74 0.0043961 1343200 0 0 65.893 77.697 132.23 141.67 103.85 0 0 0 FALSE FALSE TRUE 0 0 74.87255488 79.20093779 122.098566 129.598919 92.16452468 0 0 0 0 AIPELDAYEAEGLALDDEDVEELTAS(ph)QR ddPTM_HeLa_SAHA_4h_R1 1 AIPELDAYEAEGLALDDEDVEELTASQR 28 0 P49736;F8WDM3;C9J013;C9JZ21;H7C4N9 P49736 MCM2 DNA replication licensing factor MCM2 1 0 AIPELDAYEAEGLALDDEDVEELT(0.172)AS(0.828)QR 189.88 4.21E-19 10286000 282.92 629.2 413.26 632.4 606.25 760.52 744.31 592.07 660.69 686.82 TRUE FALSE FALSE 312.6788237 649.5864928 469.5769206 644.6410165 559.799256 695.7194174 660.5582799 576.9257067 656.0922045 716.4321714 0.436438837 0.906696431 0.655438071 0.899793508 0.781370908 0.971089023 0.922010912 0.805276103 0.915777139 1 9.484686313 -6.244695916 23.90591638 0.737477249 0.878505136 0.042863536 0.158875428 935.1887536 1335238.159 0.03262941 0.053996504 5.69E-07 6.244695916 0.141027887 AIPGDQHPES(ph)PVHTEPMGIQGR ddPTM_HeLa_SAHA_4h_R1 6 AIPGDQHPESPVHTEPMGIQGR 22 0 Q14676;Q14676-3 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 1 0 AIPGDQHPES(0.999)PVHT(0.001)EPMGIQGR;AIPGDQHPES(0.986)PVHT(0.014)EPMGIQGR;AIPGDQHPES(1)PVHTEPMGIQGR;AIPGDQHPES(0.999)PVHT(0.001)EPMGIQGR;AIPGDQHPES(1)PVHTEPMGIQGR;AIPGDQHPES(1)PVHTEPMGIQGR ;;;;; 175.99 1.37E-10 137532000 9758.93 7284.74 5138.15 6896.6 6923.13 7317.29 7187.09 9230 8637.22 7845.99 TRUE FALSE FALSE 10785.41903 7520.770356 5838.350324 7030.093666 6392.681275 6693.815726 6378.379718 8993.909965 8577.112883 8184.269026 1.317823131 0.918930002 0.713362465 0.858976366 0.781093737 0.817888037 0.779346292 1.098926482 1.047999871 1 12.99863785 -7.071579444 6.439444642 1.149440837 0.834041877 0.503398326 0.123510836 0.143627021 10.56474094 0.024162248 0.029761628 8.48E-08 7.071579444 -0.31539896 AIPNGFGTS(ph)PLTPSAR ddPTM_HeLa_SAHA_4h_R1 2 AIPNGFGTSPLTPSAR 16 0 J3QSD2;J3QRZ1;A6NIZ0;Q9GZM8-3;Q9GZM8;Q9GZM8-2 J3QSD2 NDEL1 Nuclear distribution protein nudE-like 1 1 0 AIPNGFGT(0.05)S(0.874)PLT(0.05)PS(0.027)AR;AIPNGFGT(0.015)S(0.985)PLTPSAR ; 101.04 0.0024748 1666000 998.96 1036.4 859.07 896.69 1024.5 1412.91 1032.96 1351.09 1016.26 1053.27 TRUE FALSE FALSE 1104.035196 1069.98004 976.1395858 914.0467316 946.0030313 1292.522119 916.7286222 1316.531074 1009.187764 1098.681624 1.004872724 0.973876341 0.888464469 0.831948684 0.861034726 1.176430087 0.834389692 1.198282601 0.918544319 1 10.10155767 -4.233912028 23.49490511 0.97529826 1.198283317 0.317108232 0.103035172 3992.369673 3407411.503 0.013564325 1.46091364 5.84E-05 4.233912028 0.222985057 AIPQLQGYLR ddPTM_HeLa_SAHA_4h_R1 1 AIPQLQGYLR 10 0 Q02878 Q02878 RPL6 60S ribosomal protein L6 0 0 131.03 0.0092799 9529300 838.32 890.36 852.79 893.53 884.74 804.88 972.55 813.94 831.3 880.23 FALSE FALSE TRUE 926.4983439 919.2082482 969.0037801 910.8255652 816.9514123 736.2996959 863.1161144 793.1205934 825.5149156 918.181023 1.009058476 1.001118761 1.055351565 0.991989098 0.889749833 0.801911254 0.940028265 0.863795454 0.899076429 1 9.842634805 -5.757833545 4.286406074 1.008142794 0.871460973 0.579850583 0.048901861 0.065718796 2.823928152 0.004780274 0.009404569 1.75E-06 5.757833545 -0.136681822 AIPTVNHSGTFS(ph)PQAPVPTTVPVVDVR ddPTM_HeLa_SAHA_4h_R1 2 AIPTVNHSGTFSPQAPVPTTVPVVDVR 27 0 Q16513-3;Q16513-2;Q16513;Q16513-4;B1AL79;Q16513-5 Q16513-3 PKN2 Serine/threonine-protein kinase N2 1 0 AIPTVNHS(0.031)GT(0.12)FS(0.849)PQAPVPTTVPVVDVR;AIPT(0.001)VNHS(0.019)GT(0.076)FS(0.904)PQAPVPTTVPVVDVR ; 124.96 2.29E-08 17391900 2641.75 1887.01 2186.3 2108.05 3135.38 2875.1 2415.32 2257.71 2307.64 2145.88 TRUE FALSE FALSE 2919.621386 1948.150362 2484.237578 2148.854356 2895.147862 2630.125305 2143.541837 2199.961047 2291.580945 2238.399388 1.304334428 0.870331886 1.10982767 0.959995954 1.293400935 1.175002691 0.957622598 0.982827756 1.023758743 1 11.12825176 -7.273643233 24.91547047 1.143713468 1.059341465 0.016615853 0.139049362 1750.584027 3573995.764 0.027095971 0.031096984 5.33E-08 7.273643233 -0.084372002 AIPVPNK(ac)LGLK ddPTM_HeLa_SAHA_4h_R1 1 AIPVPNKLGLK 11 1 Q9NYZ3 Q9NYZ3 GTSE1 G2 and S phase-expressed protein 1 0 1 AIPVPNK(1)LGLK 154.49 1.80E-06 0 0 170.7 124.87 429.84 537.38 517.12 990.77 621.17 142.86 0 FALSE TRUE FALSE 0 176.230792 141.8866333 438.1601748 496.2060605 473.0584668 879.285952 605.2813708 141.8658256 0 0 SAPGGGSK(ac)VPQK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 SAPGGGSKVPQKK 13 2 P06748;P06748-3;P06748-2;E5RI98 P06748 NPM1 Nucleophosmin 0 2 ; SAPGGGSK(1)VPQK(1)K;SAPGGGSK(1)VPQK(1)K 163.71 6.21E-09 16378600 2960.2 4195.8 4511.1 5914.4 6287.8 7275.7 7651.7 7022.9 2708.3 2610.5 FALSE TRUE FALSE 3271.567418 4331.746673 5125.849215 6028.881764 5806.030122 6655.769428 6790.710578 6843.264387 2689.45272 2723.05143 1.201434311 1.59076932 1.882391628 2.214016855 2.132177915 2.444231994 2.493787118 2.51308672 0.987661375 1 11.41100852 -6.642374601 0.718228417 1.036210349 2.503255519 0.982371786 0.07712448 0.054824124 0.057128012 0.018200206 0.033412526 2.28E-07 6.642374601 1.46704517 up AIPVS(ph)PSAVEEDEDEDGHTVVATAR ddPTM_HeLa_SAHA_4h_R1 1 AIPVSPSAVEEDEDEDGHTVVATAR 25 0 G3V1L9;Q07157;A0A087X0K9;G5E9E7;Q07157-2;H0Y3R8 G3V1L9 TJP1 Tight junction protein ZO-1 1 0 AIPVS(0.5)PS(0.5)AVEEDEDEDGHTVVATAR 120.4 1.05E-07 7099100 602.95 539.86 737.63 592.41 816.21 849.77 710.33 682.63 769.73 610.7 TRUE FALSE FALSE 666.3710474 557.3518182 838.150375 603.8769522 753.6721661 777.3648153 630.4017989 665.169313 764.3733863 637.0302657 1.046058693 0.874922038 1.315715155 0.947956455 1.183102604 1.220294949 0.989594738 1.04417223 1.199901209 1 9.315218107 -6.790508577 24.99999916 1.011345622 1.11106659 0.092640819 0.126623351 276.1296321 237475.0749 0.016874292 0.022179132 1.62E-07 6.790508577 0.099720968 AIPVSPS(ph)AVEEDEDEDGHTVVATAR ddPTM_HeLa_SAHA_4h_R1 4 AIPVSPSAVEEDEDEDGHTVVATAR 25 0 G3V1L9;Q07157;A0A087X0K9;G5E9E7;Q07157-2;H0Y3R8 G3V1L9 TJP1 Tight junction protein ZO-1 1 0 AIPVS(0.233)PS(0.767)AVEEDEDEDGHTVVATAR;AIPVS(0.035)PS(0.965)AVEEDEDEDGHTVVATAR;AIPVS(0.198)PS(0.802)AVEEDEDEDGHTVVATAR;AIPVS(0.126)PS(0.874)AVEEDEDEDGHTVVATAR ;;; 226.9 3.36E-42 214488000 4772.07 5042.35 4779.62 4517.18 5902.87 5384.46 5858.53 5095.56 4921.73 4542.55 TRUE FALSE FALSE 5274.018218 5205.725448 5430.961722 4604.616551 5450.593376 4925.673716 5199.312786 4965.222953 4887.47928 4738.401561 1.113037413 1.098624796 1.146159027 0.971765793 1.150302123 1.039522221 1.097271457 1.047868757 1.031461605 1 12.21018475 -9.401628394 1.123530769 0.999926311 1.085626109 0.208391211 0.051200677 0.478711878 1.079389617 0.031994464 0.008116102 3.97E-10 9.401628394 0.085699797 AIS(ph)DY(ph)T(ph)QTLS(ph)KR ddPTM_HeLa_SAHA_4h_R1 1 AISDYTQTLSKR 12 1 J3KSX5;Q9Y662;Q9Y663 J3KSX5 HS3ST3A1;HS3ST3B1 Sulfotransferase;Heparan sulfate glucosamine 3-O-sulfotransferase 3B1;Heparan sulfate glucosamine 3-O-sulfotransferase 3A1 4 0 AIS(1)DY(1)T(0.999)QT(0.366)LS(0.635)KR 51.466 0.008786 0 614.77 327.31 234.2 317.24 460.7 402.01 439.15 385.67 451.72 351.41 TRUE FALSE FALSE 679.4343293 337.9150588 266.1155563 323.3806389 425.4012655 367.7564864 389.7356862 375.8051198 448.5764437 366.5610049 1.853536847 0.921852173 0.725978903 0.88220142 1.160519695 1.003261344 1.063221895 1.02521849 1.223742945 1 8.517909508 -7.204011843 24.99689362 1.40305964 0.968536141 0.378151994 0.227211463 268.3987223 116827.7993 0.055013012 0.067376892 6.25E-08 7.204011843 -0.434523499 AIS(ph)ETEENSDELSGER ddPTM_HeLa_SAHA_4h_R1 1 AISETEENSDELSGER 16 0 A7UKX8;F5GWH7;J3KN53;E7EPE2;Q00987-8;Q00987-9;Q00987;Q00987-11 A7UKX8 mdm2;MDM2 E3 ubiquitin-protein ligase Mdm2 1 0 AIS(0.972)ET(0.028)EENSDELSGER 125.45 0.00041517 4561900 480.8 437.79 258.28 231.99 307.27 291.37 323.72 360.03 376.05 270.11 TRUE FALSE FALSE 531.37275 451.9746832 293.4770533 236.4805019 283.727039 266.5436368 287.2941736 350.8209539 373.4330374 281.755764 1.885933911 1.604136422 1.041600886 0.839310254 1.006996396 0.946009526 1.019656775 1.24512432 1.32537852 1 8.138301314 -6.703356792 7.946850576 1.443790437 1.003290447 0.467272562 0.228526805 0.258711745 31.06976004 0.054933547 0.077612295 1.98E-07 6.703356792 -0.440499991 AIS(ph)PTSSSR ddPTM_HeLa_SAHA_4h_R1 2 AISPTSSSR 9 0 A0A0U1RRL2;B1AM27;O14795;O14795-2 A0A0U1RRL2 UNC13B Protein unc-13 homolog B 1 0 AIS(0.794)PT(0.205)S(0.001)SSR;AIS(0.496)PT(0.496)S(0.008)SSR ; 136.96 0.0013614 35928100 3681.2 3810.4 3799.9 4057.7 3665.3 4969.4 5125.6 4685 3960 4117.4 TRUE FALSE FALSE 4068.405506 3933.85946 4317.730583 4136.242651 3384.465506 4545.979163 4548.853998 4565.164484 3932.442038 4294.921264 0.947259625 0.915932847 1.005310765 0.96305436 0.788015728 1.058454599 1.059123956 1.062921577 0.915602824 1 12.06841597 -5.06746036 24.99999843 0.959229293 1.060470578 0.439499974 0.060863301 138.3811991 51282.05624 0.008503963 0.021680959 8.56E-06 5.06746036 0.101241285 AIS(ph)SDMFFGR ddPTM_HeLa_SAHA_4h_R1 1 AISSDMFFGR 10 0 E9PMU9;H0YDN9;A0A0D9SF70;G5E9L0;Q8N6H7-3;Q8N6H7-2;Q8N6H7 E9PMU9 ARFGAP2 ADP-ribosylation factor GTPase-activating protein 2 1 0 AIS(0.5)S(0.5)DMFFGR 139.31 0.0011668 10644000 1324.1 901.01 954.79 1981.2 1257.4 1606.7 1629.4 2249.5 1437.4 998.31 TRUE FALSE FALSE 1463.374913 930.2033152 1084.903809 2019.548991 1161.058284 1469.800121 1446.055624 2191.961047 1427.397016 1041.35203 1.405264379 0.893264995 1.04182234 1.939352816 1.114952725 1.411434442 1.388632837 2.104918399 1.370715162 1 10.02424214 -1 0.543597346 1.185040508 35.95324607 0.421712621 0.284983299 85.61294015 0.728846785 0.053571555 3482.604268 0.1 1 34.76820556 AIS(ph)TGSLASSTLNK ddPTM_HeLa_SAHA_4h_R1 1 AISTGSLASSTLNK 14 0 Q12923-3;Q12923;Q12923-4 Q12923-3 PTPN13 Tyrosine-protein phosphatase non-receptor type 13 1 0 AIS(0.954)T(0.042)GS(0.005)LASSTLNK 168.67 4.22E-06 6447400 1062.3 841.02 845.49 948.05 888.24 1184.9 1300.5 1076.8 676.46 1008.2 TRUE FALSE FALSE 1174.037588 868.2695998 960.7089741 966.4008787 820.1832431 1083.939854 1154.164317 1049.257015 671.7524598 1051.668436 1.11635716 0.825611543 0.913509373 0.918921635 0.779887667 1.030685924 1.097460262 0.997707052 0.638749283 1 10.03846422 -7.278711278 24.81170147 1.054946435 0.939685194 0 0.160067317 838.3478685 1204313.966 0.017317311 0.019828881 5.26E-08 7.278711278 -0.115261241 AIS(ph)TPEK ddPTM_HeLa_SAHA_4h_R1 2 AISTPEK 7 0 P42695 P42695 NCAPD3 Condensin-2 complex subunit D3 1 0 AIS(0.63)T(0.37)PEK;AIS(0.722)T(0.278)PEK ; 117.81 0.0043738 22189600 8682.6 9176.1 5835.1 9175 11404.5 11787.6 10003.1 9409.7 10114.4 11354 TRUE FALSE FALSE 9595.875705 9473.411661 6630.27704 9352.595392 10530.68967 10783.23016 8877.524861 9169.013499 10044.01307 11843.52651 0.810221153 0.799880986 0.559822873 0.789679948 0.889151527 0.910474609 0.749567695 0.774179337 0.848059323 1 13.5318111 -8.813898343 0.779619503 0.995519032 0.784840663 0.184298975 0.099696703 0.474906152 0.555311455 0.055137716 0.020291601 1.53E-09 8.813898343 -0.210678369 AIS(ph)TPETPLTK ddPTM_HeLa_SAHA_4h_R1 1 AISTPETPLTK 11 0 E9PIQ6;A0A3B3ITS5;Q14181 E9PIQ6 POLA2 DNA polymerase alpha subunit B 1 0 AIS(0.617)T(0.383)PET(0.001)PLTK 132.17 0.0012361 35410000 2055.1 2510.9 1920.9 1926 2214.7 2924.8 2547.9 1908.8 3000.7 2703.4 TRUE FALSE FALSE 2271.264847 2592.254807 2182.670248 1963.280515 2045.010164 2675.590586 2261.203586 1859.97566 2979.817884 2819.956804 0.805425404 0.919253374 0.774008398 0.696209429 0.725192018 0.948805521 0.801857526 0.65957594 1.056689195 1 11.46145735 -10.49527928 0.262374801 1.238205449 0.761857784 0.571359178 0.083861682 6.626160423 0.348612705 1.035384753 0.056882152 3.20E-11 10.49527928 -0.476347664 AISPT(ph)SSSR ddPTM_HeLa_SAHA_4h_R1 2 AISPTSSSR 9 0 A0A0U1RRL2;B1AM27;O14795;O14795-2 A0A0U1RRL2 UNC13B Protein unc-13 homolog B 1 0 AIS(0.24)PT(0.734)S(0.02)S(0.006)SR;AIS(0.023)PT(0.959)S(0.018)SSR ; 140.17 0.0018552 34261600 4891.7 4850.3 4193.3 5063.9 5455.6 6325.8 5974.1 5230.2 4589.4 4902.1 TRUE FALSE FALSE 5406.23145 5007.452902 4764.741086 5161.919107 5037.593107 5786.806252 5301.878545 5096.419057 4557.461992 5113.453521 1.057256398 0.979270249 0.931804908 1.009478053 0.985164544 1.131682576 1.036848878 0.996668697 0.89126888 1 12.32008227 -4.231104825 20.605355 1.021512714 0.996668322 0 0.065095622 3928.761615 2668206.815 0.007281764 0.691937197 5.87E-05 4.231104825 -0.024844392 AISS(ph)DMFFGR ddPTM_HeLa_SAHA_4h_R1 1 AISSDMFFGR 10 0 E9PMU9;H0YDN9;A0A0D9SF70;G5E9L0;Q8N6H7-3;Q8N6H7-2;Q8N6H7 E9PMU9 ARFGAP2 ADP-ribosylation factor GTPase-activating protein 2 1 0 AIS(0.071)S(0.929)DMFFGR 163.84 0.00017435 10473000 804.53 530.89 582.83 1138.3 556.67 991.31 573.25 1143.2 821.7 717.63 TRUE FALSE FALSE 889.1541567 548.0911843 662.2550372 1160.333443 514.0180649 906.844811 508.7464013 1113.958599 815.9817228 748.5705413 1.187802762 0.732183748 0.884692892 1.550065596 0.686666168 1.211435344 0.679623861 1.488114397 1.090053212 1 9.547994464 AISS(ph)PTVSR ddPTM_HeLa_SAHA_4h_R1 1 AISSPTVSR 9 0 O94811 O94811 TPPP Tubulin polymerization-promoting protein 1 0 AIS(0.108)S(0.834)PT(0.058)VSR 123.86 0.0030298 14190000 2672.9 2914.9 2770 3513.2 3305 3604.4 3349.1 3765.5 3514.7 3339.9 TRUE FALSE FALSE 2954.047886 3009.344673 3147.481174 3581.203066 3051.771614 3297.284842 2972.250454 3669.183962 3490.240917 3483.899434 0.847914224 0.86378632 0.903436289 1.027929518 0.875964324 0.946435138 0.853138993 1.053183087 1.001820225 1 11.76648726 AIST(ph)PET(ph)PLTK ddPTM_HeLa_SAHA_4h_R1 2 AISTPETPLTK 11 0 E9PIQ6;A0A3B3ITS5;Q14181 E9PIQ6 POLA2 DNA polymerase alpha subunit B 2 0 AIS(0.05)T(0.95)PET(0.996)PLT(0.004)K;AIS(0.015)T(0.985)PET(0.998)PLT(0.001)K ; 110.66 0.00071604 0 3364.3 3883.7 2695.7 3978.3 3748.5 4299.9 3898.5 3738.3 4441.9 3560.2 TRUE FALSE FALSE 3718.17251 4009.534428 3063.055957 4055.305749 3461.29074 3933.524329 3459.83052 3642.679699 4410.988456 3713.697645 1.001204962 1.079660977 0.824799499 1.091985976 0.932033534 1.059193479 0.931640335 0.980876756 1.187761869 1 11.85864065 AIST(ph)PETPLTK ddPTM_HeLa_SAHA_4h_R1 1 AISTPETPLTK 11 0 E9PIQ6;A0A3B3ITS5;Q14181 E9PIQ6 POLA2 DNA polymerase alpha subunit B 1 0 AIS(0.001)T(0.999)PETPLTK 190.26 1.41E-06 41391000 5430.5 6320.2 4992.3 5244.6 5903.7 7041.5 6150 4752.8 7577.5 5401 TRUE FALSE FALSE 6001.704906 6524.978627 5672.624645 5346.116817 5451.359781 6441.524586 5457.985814 4631.230258 7524.767561 5633.863542 1.065291138 1.158171223 1.006880022 0.948925507 0.967605932 1.14335829 0.96878204 0.82203451 1.335631846 1 12.45990891 -6.52771923 24.99261771 1.043209649 0.979383522 0.151891877 0.124059179 234.0511945 1208459.232 0.013488504 0.01911498 2.97E-07 6.52771923 -0.063826127 AISTGS(ph)LASSTLNK ddPTM_HeLa_SAHA_4h_R1 1 AISTGSLASSTLNK 14 0 Q12923-3;Q12923;Q12923-4 Q12923-3 PTPN13 Tyrosine-protein phosphatase non-receptor type 13 1 0 AIS(0.262)T(0.262)GS(0.271)LAS(0.175)S(0.03)T(0.001)LNK 148.85 8.72E-05 5450700 1060.8 1141.8 1199.6 1170.1 745.51 1160.6 1274.2 1274.6 1099.6 1081.9 TRUE FALSE FALSE 1172.379811 1178.795069 1363.075241 1192.748977 688.3891849 1061.710351 1130.823662 1241.997578 1091.947794 1128.546004 1.038840958 1.044525491 1.207815398 1.056889993 0.609978842 0.940777201 1.002018224 1.100528976 0.967570476 1 10.14024951 AISTICSLEK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 AISTICSLEKK 11 1 Q9UJX3-2;Q9UJX3 Q9UJX3-2 ANAPC7 Anaphase-promoting complex subunit 7 0 1 AISTICSLEK(1)K 147.12 1.99E-05 713640 0 0 0 142.59 143.14 155.3 0 0 0 0 FALSE TRUE FALSE 0 0 0 145.3500356 132.1726441 142.0675663 0 0 0 0 0 AIT(ph)GASLADIMAK ddPTM_HeLa_SAHA_4h_R1 2 AITGASLADIMAK 13 0 C9JXB8;C9JNW5;P83731 C9JXB8 RPL24 60S ribosomal protein L24 1 0 AIT(1)GASLADIMAK;AIT(1)GASLADIMAK ; 172.57 3.50E-05 20096100 1891.74 1919.74 1570.83 1420.47 2171.64 2127.96 2318.43 2105.29 1346.67 1801.86 TRUE FALSE FALSE 2090.721893 1981.940836 1784.894532 1447.965251 2005.249412 1946.645836 2057.554155 2051.43973 1337.298414 1879.547003 1.112354142 1.054477932 0.949640807 0.77037991 1.066879099 1.035699471 1.094707476 1.091454338 0.711500384 1 10.87616928 -4.824540085 2.871223028 1.02594981 1.095530322 0 0.134433339 0.625943937 10.19288397 0.014530574 0.058867581 1.50E-05 4.824540085 0.069580512 AIT(ph)IAS(ph)QTNCPLYVT(ph)KVMS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 AITIASQTNCPLYVTKVMSK 20 1 Q14195-2;Q14195 Q14195-2 DPYSL3 Dihydropyrimidinase-related protein 3 4 0 AIT(0.978)IAS(0.98)QT(0.043)NCPLY(0.041)VT(0.981)KVMS(0.978)K 42.068 0.0087156 0 410.86 309.46 344.18 269.41 399.07 404.1 284.8 180.33 290.98 298.75 TRUE FALSE FALSE 454.0761399 319.486707 391.083058 274.6248201 368.4933428 369.6684066 252.7535544 175.7174197 288.9550465 311.6305745 1.457097528 1.025209762 1.254957279 0.881251208 1.182468515 1.18623921 0.811067896 0.563864505 0.927235869 1 8.283692975 -4.579719812 2.489139543 1.183033192 0.565249115 0.484495216 0.17283764 0.193799998 2.147250413 0.027736688 0.18813294 2.63E-05 4.579719812 -0.617784077 AIT(ph)PPQQPYK ddPTM_HeLa_SAHA_4h_R1 2 AITPPQQPYK 10 0 Q9NYV4-2;J3QSD7;Q9NYV4-3;Q9NYV4 Q9NYV4-2 CDK12 Cyclin-dependent kinase 12 1 0 AIT(1)PPQQPYK;AIT(1)PPQQPYK ; 114.71 0.0073678 61498000 5799.2 4505.8 4673.7 5071.6 5266.1 4442.3 5784.3 4369.8 4075.2 4155.7 TRUE FALSE FALSE 6409.186464 4651.790876 5310.607496 5169.768152 4862.612556 4063.791048 5133.435341 4258.026843 4046.840351 4334.872565 1.47851785 1.073109026 1.225089646 1.1925998 1.121742908 0.93746494 1.184218282 0.982272669 0.93355463 1 12.08177387 -5.645449782 3.13109998 1.216930395 1.047077025 0 0.15895771 0.382993805 7.471599891 0.027582826 0.058837288 2.26E-06 5.645449782 -0.16985337 AITGASLADIMAK ddPTM_HeLa_SAHA_4h_R1 2 AITGASLADIMAK 13 0 C9JXB8;C9JNW5;P83731 C9JXB8 RPL24 60S ribosomal protein L24 0 0 ; ; 163.46 6.47E-07 2060540 1505.33 1517.78 1613.28 1403.43 1677.04 1634.22 1803.07 1399.43 1275.36 1593.25 FALSE FALSE TRUE 1663.667516 1566.957068 1833.129397 1430.595417 1548.545558 1494.975262 1600.183818 1363.634607 1266.484666 1661.942805 1.001037768 0.942846567 1.103003901 0.860797022 0.931768261 0.899534724 0.962839283 0.820506339 0.762050693 1 10.69865502 -6.237485565 24.99024059 1.002251775 0.90113773 0.031629767 0.091793115 464.1240316 484205.7522 0.006884128 0.01141234 5.79E-07 6.237485565 -0.101114045 AITHLNNNFMFGQK ddPTM_HeLa_SAHA_4h_R1 1 AITHLNNNFMFGQK 14 0 P14866;M0QXS5;A0A3B3ITJ4;P14866-2;M0QYT0 P14866 HNRNPL Heterogeneous nuclear ribonucleoprotein L 0 0 133.32 0.00018294 1409800 1167.4 1124.6 1408.2 1492.6 1601.7 997.1 1672.3 693.85 1033.8 1479.5 FALSE FALSE TRUE 1290.192488 1161.037778 1600.102162 1521.491431 1478.978092 912.1414705 1484.128403 676.1023217 1026.605702 1543.288485 0.836002148 0.752314158 1.036813387 0.985876228 0.958328988 0.591037566 0.961666219 0.438091989 0.66520661 1 10.59179205 -3.878665998 1.009510488 0.916769163 6.90E-23 0.332117578 0.1578648 2.582539274 1.213204627 0.020568412 3.073870179 0.000132231 3.878665998 -0.916769163 AITIAGVPQSVTECVK ddPTM_HeLa_SAHA_4h_R1 1 AITIAGVPQSVTECVK 16 0 Q15365 Q15365 PCBP1 Poly(rC)-binding protein 1 0 0 164.88 4.28E-08 902370 1017.5 1081.8 1099.1 1057.6 907.18 1207.8 1325.3 1168.3 806.15 1107.2 FALSE FALSE TRUE 1124.525318 1116.85103 1248.879624 1078.071377 837.6720644 1104.888645 1176.173756 1138.416578 800.5399365 1154.936811 0.973668263 0.967023494 1.081340219 0.9334462 0.725296879 0.956665884 1.018387972 0.985695986 0.693146092 1 10.1735982 -6.023607479 24.95274171 0.992454998 0.918246076 0 0.123217855 1033.393263 1092280.18 0.01213861 0.020211852 9.47E-07 6.023607479 -0.074208921 AITSLLGGGS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 AITSLLGGGSPK 12 0 A0A590UJS4;Q6KC79-2;Q6KC79 A0A590UJS4;Q6KC79 NIPBL Nipped-B-like protein 1 0 AITS(0.001)LLGGGS(0.999)PK;AITSLLGGGS(1)PK;AITSLLGGGS(1)PK;AITSLLGGGS(1)PK ;;; 180.84 1.89E-05 159476000 17310.72 16788.58 15595.16 17188.46 18978.08 19348.9 18235.05 19018.79 16004.24 17541.76 TRUE FALSE FALSE 19131.54095 17332.54101 17720.38719 17521.1675 17523.98361 17700.26487 16183.19418 18532.31689 15892.86519 18298.07112 1.045549601 0.94723323 0.968429244 0.957541775 0.957695677 0.967329548 0.884420772 1.012801665 0.868554127 1 14.15940396 -7.252574245 24.84221188 1.021509534 0.954683565 0 0.057595252 359.3795356 1007067.319 0.005201843 0.00632247 5.59E-08 7.252574245 -0.066825969 AIVAIENPADVSVISSR ddPTM_HeLa_SAHA_4h_R1 3 AIVAIENPADVSVISSR 17 0 C9J9K3;A0A0C4DG17;P08865;F8WD59 C9J9K3 RPSA 40S ribosomal protein SA 0 0 ;; ;; 185.32 1.43E-17 4886700 1962.65 1903.7 2094.7 2079.21 1967.01 2067.11 2458.1 2219.93 2285.94 1889.32 FALSE FALSE TRUE 2169.090532 1965.381129 2380.154807 2119.456116 1816.298119 1890.980599 2181.508119 2163.147405 2270.031957 1970.777831 1.100626614 0.997261638 1.207723554 1.075441423 0.921614852 0.959509778 1.10692747 1.097610989 1.151845693 1 10.94454943 AIVTEPK(ac)TEK(ac)PERPSR ddPTM_HeLa_SAHA_4h_R1 1 AIVTEPKTEKPERPSR 16 3 Q02241-2;H7BYN4;Q02241-3;Q02241 Q02241-2 KIF23 Kinesin-like protein KIF23;Kinesin-like protein 0 2 AIVTEPK(1)TEK(1)PERPSR 76.522 0.006237 0 0 0 0 0 0 0 0 0 0 111.53 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 116.3386041 0 0 0 0 0 0 0 0 0 1 6.862186089 -9.157829429 0.677150941 1.083625666 2.50E-23 0 0.307667284 0.066591669 0.049088893 0.041658111 0.0090835 6.95E-10 9.157829429 -1.083625666 AIYHDLEQSIR ddPTM_HeLa_SAHA_4h_R1 2 AIYHDLEQSIR 11 0 A0A0U1RR22;Q9UNF0;Q9UNF0-2 A0A0U1RR22 PACSIN2 Protein kinase C and casein kinase substrate in neurons protein 2 0 0 ; ; 183.85 5.16E-06 7507500 4657.5 4557.5 4403.7 5534.8 5527.1 5711.3 6092.5 4946.8 5489.7 4895.5 FALSE FALSE TRUE 5147.397219 4705.16599 5003.813303 5641.934057 5103.614792 5224.665109 5406.955865 4820.268019 5451.496731 5106.568963 1.007995242 0.921394781 0.979877749 1.104838513 0.999421496 1.02312632 1.058823626 0.943934774 1.067545894 1 12.31813857 AK(ac)EQSQAK(ac)SEK ddPTM_HeLa_SAHA_4h_R1 1 AKEQSQAKSEK 11 2 Q92613 Q92613 JADE3 Protein Jade-3 0 2 AK(1)EQSQAK(1)SEK 129.34 0.019679 695420 0 0 129.45 157.68 184.87 301.78 196.95 130.73 0 0 FALSE TRUE FALSE 0 0 147.0907719 160.7321244 170.7053005 276.0666462 174.7886677 127.3861159 0 0 0 AK(ac)FENLCK ddPTM_HeLa_SAHA_4h_R1 2 AKFENLCK 8 1 P08238;Q58FF8 P08238;Q58FF8 HSP90AB1;HSP90AB2P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta 2 0 1 ; AK(1)FENLCK;AK(1)FENLCK 147.51 4.14E-05 10570600 2439.7 6364.7 4519.1 3969.3 6691.6 2368.6 7497.5 1863.84 946.4 925.29 FALSE TRUE FALSE 2696.31884 6570.920456 5134.939414 4046.131541 6178.891054 2166.781955 6653.861568 1816.165672 939.8139253 965.1837802 2.793580762 6.807947451 5.320167536 4.192084061 6.401776719 2.244942361 6.893880424 1.881678608 0.973715001 1 9.914659861 -7.599573469 2.509205164 1.664715965 4.853098095 0.435753579 1.692480715 0.172654025 2.26340123 0.295536243 0.310328698 2.51E-08 7.599573469 3.188382129 AK(ac)LVPSQEETK ddPTM_HeLa_SAHA_4h_R1 2 AKLVPSQEETK 11 1 P49321-4;P49321;P49321-3 P49321-4 NASP Nuclear autoantigenic sperm protein 0 1 ; AK(1)LVPSQEETK;AK(1)LVPSQEETK 147.72 3.78E-05 4830100 2720.5 3295.3 2810.6 4030.1 3965.7 5131 4109.2 3813.5 4392.9 2826.4 FALSE TRUE FALSE 3006.654672 3402.069882 3193.613931 4108.108413 3661.848923 4693.809934 3646.822001 3715.956192 4362.329451 2948.259936 1.019806509 1.153924673 1.083219933 1.393401024 1.242037338 1.592061092 1.23694046 1.26038961 1.479628508 1 11.52564801 -6.531391533 1.272875036 1.009986871 1.354519424 0.020349148 0.183315757 0.175820746 0.569534666 0.017661651 0.029771822 2.94E-07 6.531391533 0.344532554 AK(ac)WDAWNELK ddPTM_HeLa_SAHA_4h_R1 2 AKWDAWNELK 10 1 B8ZWD1;A0A0A0MTI5;P07108;P07108-3;P07108-2;P07108-4;P07108-5 B8ZWD1 DBI Acyl-CoA-binding protein 0 1 ; AK(1)WDAWNELK;AK(1)WDAWNELK 134.2 0.00059104 1418490 359.64 1106.62 652.07 402.586 709.98 993.42 937.86 467.44 1097.67 575.71 FALSE TRUE FALSE 397.4685853 1142.475214 740.9307038 410.3786342 655.5814858 908.7750272 832.3295245 455.4835616 1090.031225 600.5316756 0.66186115 1.902439556 1.233791212 0.683358848 1.091668454 1.513284085 1.385987714 0.758467172 1.815110292 1 9.230096534 AK(ac)WDAWNELKGTSK ddPTM_HeLa_SAHA_4h_R1 1 AKWDAWNELKGTSK 14 2 B8ZWD1;A0A0A0MTI5;P07108;P07108-3;P07108-2;P07108-4;P07108-5 B8ZWD1 DBI Acyl-CoA-binding protein 0 1 AK(1)WDAWNELKGTSK 94.532 0.008895 1066900 169.74 165.4 218.35 152.67 207.77 410.94 376.88 261.76 195.29 186.45 FALSE TRUE FALSE 187.594032 170.7590685 248.1056009 155.6251486 191.8507075 375.9256001 334.4724705 255.0645582 193.930961 194.488772 0.964549419 0.87798934 1.275680845 0.800175491 0.986435903 1.932891016 1.719752082 1.311461611 0.997131912 1 7.603543059 -5.2764878 24.81851229 0.983395748 1.661206604 0.739636071 0.181796909 234.1288237 386135.3198 0.024015427 0.053902231 5.29E-06 5.2764878 0.677810857 AKADS(ph)PVNGLPK ddPTM_HeLa_SAHA_4h_R1 2 AKADSPVNGLPK 12 1 Q96S94;Q96S94-3;A0A0A0MSF3 Q96S94 CCNL2 Cyclin-L2 1 0 AKADS(1)PVNGLPK;AKADS(1)PVNGLPK ; 105.14 0.010006 59114000 6295.1 5053.52 4723.29 5814.65 6078.53 6208.27 5703.61 6289.95 5587.56 5532.46 TRUE FALSE FALSE 6957.247501 5217.257364 5366.955363 5927.200959 5612.794345 5679.290469 5061.824792 6129.062187 5548.675715 5770.991426 1.205554988 0.904048712 0.929988449 1.027068058 0.972587538 0.984110017 0.877115285 1.062046663 0.961477033 1 12.49460347 -7.248134995 24.99293004 1.097067635 0.963913982 0.154034785 0.081207656 671.36927 1261200.821 0.014707903 0.017958587 5.65E-08 7.248134995 -0.133153654 AKAGLESGAEPGDGDS(ph)DTTK ddPTM_HeLa_SAHA_4h_R1 3 AKAGLESGAEPGDGDSDTTK 20 1 O60832 O60832 DKC1 H/ACA ribonucleoprotein complex subunit 4 1 0 AKAGLES(0.113)GAEPGDGDS(0.374)DT(0.374)T(0.139)K;AKAGLESGAEPGDGDS(0.979)DT(0.01)T(0.01)K;AKAGLESGAEPGDGDS(0.934)DT(0.051)T(0.015)K ;; 163.6 1.01E-06 29096000 6025 4374.31 5232.77 6504.7 5952.6 6556 6629.7 6884.5 5301.26 5925.39 TRUE FALSE FALSE 6658.737144 4516.040514 5945.864645 6630.607874 5496.513074 5997.391917 5883.708708 6708.404459 5264.3681 6180.862561 1.077315193 0.730648913 0.961979754 1.072764167 0.889279291 0.970316337 0.951923562 1.085350854 0.851720621 1 12.59359247 PEPAK(ac)SAPAPK(ac)KGSK ddPTM_HeLa_SAHA_4h_R1 2 PEPAKSAPAPKKGSK 15 3 O60814;P57053;P62807;Q16778 O60814;P62807;Q16778 HIST1H2BK;H2BFS;HIST1H2BC;HIST2H2BE Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E 0 2 ; PEPAK(1)SAPAPK(0.914)K(0.086)GSK;PEPAK(1)SAPAPK(0.798)K(0.202)GSK 139.08 6.78E-05 59189000 3347.8 3520.6 6640.6 12242.4 11697.5 10302.1 12145.3 11694.5 1594.48 2114.28 FALSE TRUE FALSE 3699.936964 3634.66975 7545.546385 12479.36935 10801.24008 9424.303122 10778.67888 11395.37162 1583.383884 2205.436958 1.677643494 1.648049715 3.421338505 5.65845662 4.897551045 4.273213564 4.887321236 5.166945073 0.717945656 1 11.10684881 -6.620919861 2.593344358 1.332509828 4.92632624 0.944400376 0.424348914 0.044483696 0.608185892 0.069307552 0.102381251 2.39E-07 6.620919861 3.593816412 up AKDQNES(ph)LDEEMFYK ddPTM_HeLa_SAHA_4h_R1 2 AKDQNESLDEEMFYK 15 1 A0A0U1RRM8;H0YJ34;Q96AC1;Q96AC1-3 A0A0U1RRM8 FERMT2 Fermitin family homolog 2 1 0 AKDQNES(1)LDEEMFYK;AKDQNES(1)LDEEMFYK ; 139.81 9.25E-05 104068000 8477.8 7597.1 7255.1 7987 9814.3 10027.5 9505.3 9215.1 9604.1 8183.2 TRUE FALSE FALSE 9369.533902 7843.251025 8243.787245 8141.599934 9062.330454 9173.100587 8435.738627 8979.391085 9537.264286 8536.0178 1.09764695 0.918841925 0.965765002 0.953793692 1.061657868 1.07463466 0.98825223 1.051941467 1.117296673 1 13.05934747 -7.297206369 24.99894947 1.046111051 1.003413928 0.203967229 0.056507665 1064.483497 744006.8049 0.010293987 0.011771851 5.04E-08 7.297206369 -0.042697123 AKEAAEQDVEK ddPTM_HeLa_SAHA_4h_R1 1 AKEAAEQDVEK 11 1 P26373;P26373-2;J3KS98 P26373 RPL13 60S ribosomal protein L13 0 0 101.56 0.0052633 1362900 475.03 404.13 373.14 473.86 473.2 323.68 623.61 507.06 372.47 402.65 FALSE FALSE TRUE 524.9958349 417.2240772 423.989576 483.0322455 436.9435182 296.100643 553.4397615 494.0901394 369.8779509 420.010212 1.249959691 0.993366507 1.009474446 1.150048812 1.040316415 0.70498439 1.317681679 1.176376491 0.880640376 1 8.714280595 AKEAAGPAPS(ph)PMR ddPTM_HeLa_SAHA_4h_R1 1 AKEAAGPAPSPMR 13 1 Q12834 Q12834 CDC20 Cell division cycle protein 20 homolog 1 0 AKEAAGPAPS(1)PMR 110.35 0.0048924 0 888.38 778.5 828.6 875.56 1024.6 791.61 829.7 1123 665.5 616.46 TRUE FALSE FALSE 981.8238844 803.7239108 941.5172928 892.5077299 946.0953694 724.1603745 736.3399723 1094.275286 660.8687313 643.0386075 1.526850601 1.249884379 1.464169152 1.387953568 1.471288595 1.126153805 1.145094499 1.70172564 1.027727921 1 9.328761548 -9.453356866 1.142788333 0.996367619 1.384012406 0.440435346 0.166716849 0.383228743 0.881688316 0.119516295 0.028532974 3.52E-10 9.453356866 0.387644786 AKEGVVAAAEK(ac)TK ddPTM_HeLa_SAHA_4h_R1 2 AKEGVVAAAEKTK 13 2 D6RA31;H6UYS7;E7EPV7;A0A669KB41;A0A669KBH5;P37840-2;P37840-3;P37840 D6RA31 SNCA Alpha-synuclein 0 1 ; AKEGVVAAAEK(1)TK;AKEGVVAAAEK(1)TK 125.22 0.00047098 4467800 5391.7 4162.9 4662.6 5393.3 5454.4 6021.4 6015.9 7606 4087.9 3817.6 FALSE TRUE FALSE 5958.823744 4297.780691 5297.994846 5497.69512 5036.48505 5508.342845 5338.975099 7411.449533 4059.451971 3982.195419 1.496366481 1.079249067 1.330420607 1.380568893 1.264750852 1.383242725 1.340711476 1.861146617 1.019400492 1 11.95934831 -11.70089381 0.31677429 2.86E-15 1.421123685 0.426026282 0.183355722 12.65666451 0.475544886 8.240546899 0.074190823 1.99E-12 11.70089381 1.421123685 AKGLPSNDTDCPQK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 AKGLPSNDTDCPQKK 15 2 A0A669KB96;A0A0A0MT63;F5H5K5;A0A0A0MSR0;A0A087WZQ2;Q6P1L6-3;Q6P1L6 A0A669KB96 ZNF343 Zinc finger protein 343 0 1 AKGLPSNDTDCPQK(1)K 74.678 0.0164 115310000 3505.8 2878.2 6686.4 10727 7828.1 15292 5347.9 5370.6 10293 11383 FALSE TRUE FALSE 3874.556129 2971.455568 7597.587771 10934.6366 7228.312669 13989.03557 4746.140217 5233.227829 10221.37017 11873.77684 0.326312022 0.250253614 0.639862773 0.920906359 0.608762719 1.178145401 0.399716138 0.440738267 0.860835631 1 13.53549128 -9.5760655 1.394099738 0.997350467 0.571949795 0.190953168 0.268414731 0.499577434 1.757908718 0.195197223 0.046885568 2.65E-10 9.5760655 -0.425400672 AKLEQLFQDEVAK ddPTM_HeLa_SAHA_4h_R1 1 AKLEQLFQDEVAK 13 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 154.1 7.25E-07 928410 1502.7 1292.9 1282.5 1395.2 1472.9 1536.4 1663.3 1498.8 1342.4 1580.8 FALSE FALSE TRUE 1660.760881 1334.790808 1457.272421 1422.206113 1360.04672 1405.490076 1476.141106 1460.462866 1333.058129 1648.956024 1.007158988 0.809476292 0.883754569 0.862488807 0.824792596 0.852351461 0.895197376 0.885689397 0.808425519 1 10.68733721 -7.273206377 24.97232867 1.003380638 0.859993704 0.013854275 0.066598129 162.9795821 345880.2507 0.004245631 0.004875061 5.33E-08 7.273206377 -0.143386933 AKLQIELGK ddPTM_HeLa_SAHA_4h_R1 1 AKLQIELGK 9 1 P20700;E9PBF6;A0A0D9SFE5;A0A0D9SFY5 P20700 LMNB1 Lamin-B1 0 0 85.807 0.021485 0 2210.7 1453.4 1992.4 2182.2 2354.6 2212.9 2322.6 1720.6 1452.8 2105.3 FALSE FALSE TRUE 2443.231569 1500.491114 2263.913896 2224.439637 2174.191057 2024.348471 2061.254935 1676.589543 1442.689847 2196.069786 1.112547326 0.683262036 1.030893422 1.012918465 0.990037325 0.921805165 0.938610853 0.76345003 0.656941713 1 11.10070819 -2.338109249 0.345894644 1.036341759 2.23E-14 0 0.164132128 22.70290272 0.667261815 0.035876751 13.08351121 0.004590825 2.338109249 -1.036341759 AKPAMPQDSVPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 6 AKPAMPQDSVPSPR 14 1 P53396 P53396 ACLY ATP-citrate synthase 1 0 AKPAMPQDSVPS(1)PR;AKPAMPQDSVPS(1)PR;AKPAMPQDSVPS(1)PR;AKPAMPQDSVPS(1)PR;AKPAMPQDSVPS(1)PR;AKPAMPQDSVPS(1)PR ;;;;; 145.17 7.02E-05 504335900 17772.8 17294.2 15110.5 16688.8 17646.3 20941.2 18505.8 17397.6 18564.8 19251 TRUE FALSE FALSE 19642.22465 17854.54343 17169.68025 17011.83586 16294.24431 19156.89195 16423.47868 16952.59458 18435.60605 20081.00482 0.978149491 0.889125997 0.855020971 0.847160588 0.811425745 0.953980745 0.817861398 0.844210473 0.91806193 1 14.29354384 -7.196696854 2.300172505 0.991493421 0.855249162 0.544530635 0.043352049 0.105149061 1.064295457 0.006250949 0.007590413 6.36E-08 7.196696854 -0.13624426 AKPPADPAAAAS(ph)PCR ddPTM_HeLa_SAHA_4h_R1 4 AKPPADPAAAASPCR 15 1 Q9GZT9;Q9GZT9-2 Q9GZT9 EGLN1 Egl nine homolog 1 1 0 AKPPADPAAAAS(1)PCR;AKPPADPAAAAS(1)PCR;AKPPADPAAAAS(1)PCR;AKPPADPAAAAS(1)PCR ;;; 153.48 0.00016897 52114600 10312.4 10105.99 9997.7 11411.9 10707.3 12194 10825.6 11879.7 11686.8 11242 TRUE FALSE FALSE 11397.10555 10433.43071 11360.13449 11632.79383 9886.908987 11155.0026 9607.474997 11575.83448 11605.47061 11726.69764 0.97189387 0.889716016 0.968741145 0.991992306 0.843111104 0.95124842 0.819282231 0.987135069 0.989662304 1 13.51750917 -7.082667103 0.421272628 1.001179673 0.898795122 0.218677333 0.05550697 0.917258914 0.411734803 0.024866262 0.034286906 8.27E-08 7.082667103 -0.102384552 AKPS(ph)PAPPSTTTAPDASGPQKR ddPTM_HeLa_SAHA_4h_R1 2 AKPSPAPPSTTTAPDASGPQKR 22 2 Q5QNY5;P40855;E9PS71;B7Z8B3 Q5QNY5 PEX19 Peroxisomal biogenesis factor 19 1 0 AKPS(1)PAPPSTTTAPDASGPQKR;AKPS(0.998)PAPPS(0.001)T(0.001)TTAPDASGPQKR ; 80.02 0.00039043 7690200 3022.2 3641.2 3259.5 3350.4 4639.5 5466.1 3965.7 3717.7 3886 3525.8 TRUE FALSE FALSE 3340.088862 3759.177269 3703.687685 3415.251837 4284.022512 5000.357529 3519.468999 3622.606617 3858.95701 3677.814493 0.908172195 1.022122588 1.007034937 0.928609054 1.16482833 1.359600257 0.956945764 0.984988945 1.049252761 1 11.844633 -5.763048599 24.99908332 0.963532429 1.122545432 0.236017425 0.110731851 39.03545294 606428.8299 0.016285366 0.030684137 1.73E-06 5.763048599 0.159013004 AKPTGSGKEEGPAPCK(ac)QMK ddPTM_HeLa_SAHA_4h_R1 4 AKPTGSGKEEGPAPCKQMK 19 3 D6RCB6;Q8IUF8-2;Q8IUF8-4;Q8IUF8 D6RCB6 MINA Bifunctional lysine-specific demethylase and histidyl-hydroxylase MINA 0 1 ;;; AKPTGSGKEEGPAPCK(1)QMK;AKPTGSGKEEGPAPCK(1)QMK;AKPTGSGKEEGPAPCK(1)QMK;AKPTGSGKEEGPAPCK(1)QMK 156.11 6.48E-06 52943200 17952.37 16889.8 19624.7 25309.07 24933.38 24410.44 29195.46 21575.28 11715.8 11842.63 FALSE TRUE FALSE 19840.68265 17437.0406 22299.05191 25798.96365 23022.98981 22330.53318 25910.31 21023.41558 11634.26879 12353.22374 1.606113762 1.411537666 1.805120055 2.088439763 1.863723211 1.807668481 2.097453309 1.701856619 0.941800217 1 13.59259996 -8.474768994 0.323021457 0.817464615 1.9809397 0.826851838 0.15951006 0.623285392 0.137433945 0.282060752 0.101370366 3.35E-09 8.474768994 1.163475085 AKPVTTNLK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 AKPVTTNLKK 10 2 E5RGR5;A0A087WWE7;Q8N0T1-2;Q8N0T1 E5RGR5 C8orf59 Uncharacterized protein C8orf59 0 1 AKPVTTNLK(1)K 107.34 0.0021899 0 796.91 619.74 587.09 1672.8 1157.8 938.62 1225.9 1319.8 546.54 324.87 FALSE TRUE FALSE 880.7326502 639.8199826 667.0955678 1705.179463 1069.089614 858.6442955 1087.958506 1286.041427 542.7365836 338.8767356 2.598976435 1.888061101 1.968549321 5.031857557 3.154803803 2.533795346 3.210484496 3.79501244 1.601575224 1 8.404616787 -8.769379056 0.228906715 1.43E-19 3.742329184 0.481325947 0.802874277 2.921392387 0.301317044 3.481988068 1.10247905 1.70E-09 8.769379056 3.742329184 AKS(ph)PQPPVEEEDEHFDDTVVCLDTYNCDLHFK ddPTM_HeLa_SAHA_4h_R1 10 AKSPQPPVEEEDEHFDDTVVCLDTYNCDLHFK 32 1 Q00839;Q00839-2;A0A1W2PPS1;A0A1W2PP35;Q5RI18;A0A1W2PRI6 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 1 0 AKS(0.994)PQPPVEEEDEHFDDT(0.006)VVCLDTYNCDLHFK;AKS(0.776)PQPPVEEEDEHFDDT(0.22)VVCLDT(0.003)Y(0.001)NCDLHFK;AKS(0.5)PQPPVEEEDEHFDDT(0.5)VVCLDT(0.001)YNCDLHFK;AKS(0.782)PQPPVEEEDEHFDDT(0.218)VVCLDTYNCDLHFK;AKS(0.996)PQPPVEEEDEHFDDT(0.004)VVCLDTYNCDLHFK;AKS(0.962)PQPPVEEEDEHFDDT(0.038)VVCLDTYNCDLHFK;AKS(0.996)PQPPVEEEDEHFDDT(0.004)VVCLDTYNCDLHFK;AKS(0.984)PQPPVEEEDEHFDDT(0.016)VVCLDTYNCDLHFK;AKS(1)PQPPVEEEDEHFDDTVVCLDTYNCDLHFK;AKS(0.917)PQPPVEEEDEHFDDT(0.083)VVCLDTYNCDLHFK ;;;;;;;;; 103.12 7.14E-10 2885469000 14296.4 16802.29 20513.47 19514.94 21418.6 17320.45 23322.9 15079.29 19571.04 21410 TRUE FALSE FALSE 15800.16095 17346.69522 23308.93886 19892.67988 19777.5115 15844.65022 20698.54591 14693.5836 19434.84354 22333.08988 0.707477605 0.776726164 1.043695207 0.890726719 0.88556987 0.709469684 0.926810666 0.657928826 0.870226361 1 14.44689525 -9.59295102 1.402371477 0.99947048 0.81682483 0.083864457 0.117801018 0.471484044 1.671126622 0.080050931 0.018805514 2.55E-10 9.59295102 -0.18264565 AKS(ph)PTPESSTIASYVTLR ddPTM_HeLa_SAHA_4h_R1 3 AKSPTPESSTIASYVTLR 18 1 B4DJX4;Q9HAU0-8;Q9HAU0;Q9HAU0-2;Q9HAU0-4;Q9HAU0-6;A0JP02;Q9HAU0-5;H0YGJ6 B4DJX4 PLEKHA5 Pleckstrin homology domain-containing family A member 5 1 0 AKS(0.627)PT(0.365)PES(0.008)STIASYVTLR;AKS(0.655)PT(0.344)PES(0.001)STIASYVTLR;AKS(0.948)PT(0.051)PES(0.001)STIASYVTLR ;; 80.453 0.0039041 113059100 1166.99 1374.99 1064.65 1429.63 1259.435 1187.81 1173.16 1112.762 1494.12 1106.61 TRUE FALSE FALSE 1289.739363 1419.540578 1209.734958 1457.302556 1162.937362 1086.601906 1041.152949 1084.299159 1483.722297 1154.321373 1.117313941 1.229762016 1.048005336 1.26247559 1.007464117 0.941333957 0.901961078 0.939339065 1.285363273 1 10.17282922 -5.523766962 24.99990566 1.085601736 0.933221765 0.435918516 0.101389589 23.66286657 666022.4624 0.013123755 0.026430662 2.99E-06 5.523766962 -0.152379972 AKSPQPPVEEEDEHFDDT(ph)VVCLDTYNCDLHFK ddPTM_HeLa_SAHA_4h_R1 4 AKSPQPPVEEEDEHFDDTVVCLDTYNCDLHFK 32 1 Q00839;Q00839-2;A0A1W2PPS1;A0A1W2PP35;Q5RI18;A0A1W2PRI6 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 1 0 AKS(0.004)PQPPVEEEDEHFDDT(0.996)VVCLDTYNCDLHFK;AKS(0.355)PQPPVEEEDEHFDDT(0.571)VVCLDT(0.039)Y(0.035)NCDLHFK;AKS(0.031)PQPPVEEEDEHFDDT(0.966)VVCLDT(0.002)YNCDLHFK;AKS(0.37)PQPPVEEEDEHFDDT(0.606)VVCLDT(0.019)Y(0.005)NCDLHFK ;;; 79.784 7.56E-07 1051456000 5071.3 5902.04 7676.4 6778.9 7046.3 6887.4 8469.9 5799.2 6728.7 7722.9 TRUE FALSE FALSE 5604.722602 6093.269968 8722.499815 6910.115412 6506.414016 6300.554773 7516.84456 5650.864861 6681.874429 8055.872014 0.695731336 0.756376213 1.082750545 0.857773733 0.807661046 0.782107109 0.933088876 0.701459116 0.829441483 1 12.97582505 -9.62103274 1.453706505 0.999376442 0.815327461 0 0.120520822 0.458111368 1.74801422 0.080638505 0.018735966 2.39E-10 9.62103274 -0.184048981 AKT(ph)QTPPVS(ph)PAPQPTEER ddPTM_HeLa_SAHA_4h_R1 2 AKTQTPPVSPAPQPTEER 18 1 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 2 0 AKT(0.855)QT(0.155)PPVS(0.99)PAPQPTEER;AKT(0.832)QT(0.275)PPVS(0.893)PAPQPTEER ; 112.47 0.0043727 59630000 4855.5 6461.8 5581.5 5752.8 7172 7692.6 6503.9 6476.8 7882.3 5731.9 TRUE FALSE FALSE 5366.223768 6671.16656 6342.117753 5864.153763 6622.482909 7037.147203 5772.064055 6311.132834 7827.446433 5979.03026 0.897507377 1.115760628 1.06072682 0.980786768 1.107618229 1.176971331 0.965384653 1.055544555 1.309149827 1 12.5456958 -7.260534376 24.99963615 0.951600706 1.06461026 0 0.129294387 63.96233167 1766879.082 0.011525099 0.013681752 5.49E-08 7.260534376 0.113009554 AKTQT(ph)PPVS(ph)PAPQPTEER ddPTM_HeLa_SAHA_4h_R1 2 AKTQTPPVSPAPQPTEER 18 1 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 2 0 AKT(0.145)QT(0.903)PPVS(0.952)PAPQPTEER;AKT(0.08)QT(0.92)PPVS(0.999)PAPQPTEER ; 98.135 0.0096793 29840000 2109.7 2438.47 1728.87 2406.7 2351.5 2922 2958.7 2197.67 2715.4 2248.4 TRUE FALSE FALSE 2331.607926 2517.478028 1964.4714 2453.285159 2171.328578 2673.029161 2625.779289 2141.456784 2696.50331 2345.339527 0.994145154 1.073395983 0.837606401 1.046025588 0.925805647 1.139719486 1.119573204 0.913068986 1.149728335 1 11.19558108 -5.26692607 24.988896 0.99038734 1.063665822 0.046992987 0.097254381 610.5326949 2780653.818 0.010784254 0.024834533 5.41E-06 5.26692607 0.073278483 AKTQT(ph)PPVSPAPQPTEER ddPTM_HeLa_SAHA_4h_R1 2 AKTQTPPVSPAPQPTEER 18 1 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 1 0 AKT(0.029)QT(0.95)PPVS(0.021)PAPQPTEER;AKT(0.115)QT(0.885)PPVS(0.001)PAPQPTEER ; 99.964 0.002258 235180000 4547 4962.9 4645.9 4904.1 5431.6 6457.2 5111.9 5450.7 6705.6 4805.1 TRUE FALSE FALSE 5025.274322 5123.701216 5279.019057 4999.025947 5015.431981 5907.010233 4536.695558 5311.278987 6658.935184 5012.271377 1.002594222 1.022231406 1.053218922 0.9973574 1.000630573 1.178509659 0.905117704 1.059655112 1.328526467 1 12.29124881 -7.188015929 3.796394396 1.001140377 1.030677362 0 0.121729514 0.628288102 17.59113582 0.01002286 0.012245423 6.49E-08 7.188015929 0.029536985 AKVVSQSQPGS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 AKVVSQSQPGSR 12 1 Q7Z460-4 Q7Z460-4 CLASP1 CLIP-associating protein 1 1 0 AKVVSQSQPGS(1)R 70.134 0.020092 9817600 2211.9 1767.6 2146.3 2185.8 2207 2028.4 3115.2 2817.4 1710.2 2395.4 TRUE FALSE FALSE 2444.557791 1824.8714 2438.786587 2228.10932 2037.900137 1855.568909 2764.669497 2745.334988 1698.298579 2498.677417 0.978340691 0.730334931 0.976030987 0.891715475 0.81559153 0.742620434 1.106453149 1.098715252 0.679679004 1 11.28694894 -7.491235168 24.81879697 0.990444503 0.904481166 0 0.156491399 678.4676657 532143.3382 0.021566011 0.023628421 3.23E-08 7.491235168 -0.085963337 ALAAAGYDVEK ddPTM_HeLa_SAHA_4h_R1 1 ALAAAGYDVEK 11 0 P10412;P22492;Q02539;P16403;P16402 P10412;P16403;P16402 HIST1H1E;HIST1H1T;HIST1H1A;HIST1H1C;HIST1H1D Histone H1.4;Histone H1t;Histone H1.1;Histone H1.2;Histone H1.3 0 0 167.12 1.21E-10 2670000 2448.3 2348.8 2421.9 1377.8 3139.1 2424.8 3008.8 2667.7 1458.9 2267.8 FALSE FALSE TRUE 2705.823427 2424.902661 2751.943919 1404.469311 2898.582836 2218.193398 2670.241905 2599.464097 1448.747396 2365.575956 1.143832824 1.02507918 1.163329341 0.593711357 1.225318015 0.937696967 1.128791446 1.098871541 0.612429033 1 11.20797577 ALAAFLK ddPTM_HeLa_SAHA_4h_R1 1 ALAAFLK 7 0 P39019;M0R2L9;M0QYF7;M0R140 P39019 RPS19 40S ribosomal protein S19 0 0 114.67 0.0072109 241950 208.39 323.29 868.73 428.64 546.59 94.993 636.54 61.951 0 0 FALSE FALSE TRUE 230.3094163 333.7648081 987.1160002 436.936947 504.7103923 86.89906198 564.9148439 60.36638312 0 0 0 ALAAFLK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 ALAAFLKK 8 1 P39019;M0R2L9;M0QYF7;M0R140 P39019 RPS19 40S ribosomal protein S19 0 1 ; ALAAFLK(1)K;ALAAFLK(1)K 140.53 4.22E-05 1346660 1159.69 1840.01 3397.9 2396.47 3701.2 879.11 2838.7 704.59 274.72 618.07 FALSE TRUE FALSE 1281.671515 1899.627531 3860.948116 2442.857142 3417.614856 804.2048823 2519.282005 686.567608 272.8082012 644.7180225 1.987956704 2.946447075 5.988584128 3.789031882 5.300945121 1.247374595 3.907571864 1.064911456 0.423143439 1 9.332524503 ALAAFLKK ddPTM_HeLa_SAHA_4h_R1 1 ALAAFLKK 8 1 P39019;M0R2L9;M0QYF7;M0R140 P39019 RPS19 40S ribosomal protein S19 0 0 82.305 0.0095974 0 649.94 446.42 1269.2 888.16 836.14 336.91 863.81 217.05 0 225.57 FALSE FALSE TRUE 718.3036712 460.8843009 1442.159966 905.3516211 772.0751338 308.2033726 766.6118254 211.4981753 0 235.2954266 3.05277362 1.958747382 6.12914576 3.847722984 3.281301065 1.309857047 3.258082133 0.898862244 0 1 7.878329469 -4.241378719 22.41403713 2.497187754 0.898856131 0.087167201 1.633852051 2319.834513 2591808.171 0.223216022 9.770493126 5.74E-05 4.241378719 -1.598331623 ALAAGADS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 ALAAGADSPK 10 0 Q4KMP7 Q4KMP7 TBC1D10B TBC1 domain family member 10B 1 0 ALAAGADS(1)PK;ALAAGADS(1)PK ; 124.42 0.0024383 20230600 7186.7 9278.6 5822.5 8415.2 9568.8 11038.7 8303.6 7753.5 11412.4 9443.5 TRUE FALSE FALSE 7942.63008 9579.232728 6615.959978 8578.088365 8835.640611 10098.14066 7369.257074 7555.176697 11332.98018 9850.6555 0.806304726 0.972446222 0.671626368 0.870813964 0.89695966 1.025123725 0.748098142 0.766971974 1.150479801 1 13.26600401 -9.390198284 0.938930245 1.007007646 0.845134654 0.367070726 0.111202796 0.715156492 1.046577493 0.083751368 0.01803886 4.07E-10 9.390198284 -0.161872992 ALAAGADS(ph)PKTEEARPSPAPGPGTPTGTPTR ddPTM_HeLa_SAHA_4h_R1 3 ALAAGADSPKTEEARPSPAPGPGTPTGTPTR 31 2 Q4KMP7 Q4KMP7 TBC1D10B TBC1 domain family member 10B 1 0 ALAAGADS(0.66)PKT(0.247)EEARPS(0.081)PAPGPGT(0.008)PT(0.002)GT(0.001)PTR;ALAAGADS(0.84)PKT(0.158)EEARPS(0.002)PAPGPGTPTGTPTR;ALAAGADS(0.756)PKT(0.201)EEARPS(0.026)PAPGPGT(0.005)PT(0.005)GT(0.005)PT(0.002)R ;; 72.035 5.13E-05 73188000 1820.5 2006.28 1689.33 1797.72 1964.71 2124.48 1974.08 2009.07 1626.95 1570.29 TRUE FALSE FALSE 2011.988543 2071.284788 1919.543095 1832.51747 1814.174344 1943.462352 1751.951323 1957.680898 1615.627922 1637.992887 1.228325568 1.264526119 1.17188732 1.118757893 1.107559354 1.186490105 1.069571997 1.195170574 0.986346116 1 10.67771338 -9.413778398 1.16403139 1.000815658 1.170163963 0.610745206 0.055346209 0.299364779 0.730927542 0.040243365 0.010386047 3.86E-10 9.413778398 0.169348306 ALAAGIS(ph)MALAASTSSLGCYALCGR ddPTM_HeLa_SAHA_4h_R1 1 ALAAGISMALAASTSSLGCYALCGR 25 0 Q6PIS1;Q6PIS1-5 Q6PIS1 SLC23A3 Solute carrier family 23 member 3 1 0 ALAAGIS(0.368)MALAAS(0.313)T(0.313)S(0.004)S(0.001)LGCY(0.001)ALCGR 53.909 0.0097635 11026000 2989.1 2681.8 3058.4 3053.4 3282.6 3450.1 3444.1 3369 2855.3 2916.2 TRUE FALSE FALSE 3303.507252 2768.69208 3475.182825 3112.502972 3031.087897 3156.13207 3056.560804 3282.825858 2835.429735 3041.931654 1.085989966 0.910175637 1.142426333 1.023199508 0.99643524 1.037542072 1.004809165 1.079191196 0.932114872 1 11.57077202 -4.231007523 20.82167643 1.033356039 1.079191903 0.014059902 0.065955454 2682.953029 1835397.15 0.007732877 0.785976552 5.87E-05 4.231007523 0.045835865 ALADDDFLTVTGK(ac)TVR ddPTM_HeLa_SAHA_4h_R1 2 ALADDDFLTVTGKTVR 16 1 A0A3B3ITP6;A0A3B3IT92;P33991;A0A3B3IS57;A0A3B3IU45;E5RG31 A0A3B3ITP6 MCM4 DNA replication licensing factor MCM4 0 1 ; ALADDDFLTVTGK(1)TVR;ALADDDFLTVTGK(1)TVR 230.96 2.61E-48 1105600 77.951 79.92 150.63 188.39 225.73 132.98 302.213 0 221.98 138.3 FALSE TRUE FALSE 86.15024383 82.50946044 171.157072 192.0365609 208.4346162 121.6493559 268.2071979 0 220.4352231 144.2627898 0.597175779 0.571938617 1.186425635 1.331157959 1.444825907 0.843248325 1.859157155 0 1.528011647 1 7.172555419 -6.742016056 24.64466052 0.786624495 1.157856216 0 0.521708584 308.1225869 390950.2403 0.068042516 0.096139921 1.81E-07 6.742016056 0.371231721 ALAGCDFLTISPK ddPTM_HeLa_SAHA_4h_R1 2 ALAGCDFLTISPK 13 0 P37837;F2Z393 P37837 TALDO1 Transaldolase 0 0 ; ; 225.31 4.60E-43 1321370 509.19 574.62 501.71 480.75 576.45 766.82 719.86 424.45 453.49 437.03 FALSE FALSE TRUE 562.7489404 593.238065 570.080426 490.0556114 532.2825255 701.482622 638.8594582 413.5931836 450.3341262 455.8725021 1.234443705 1.30132452 1.250526021 1.074983925 1.167612706 1.538769324 1.401399416 0.907256265 0.987851042 1 8.832486579 -9.107341987 0.6135616 0.973852849 1.249772908 0.253386022 0.162773413 1.171396897 0.700951286 0.175689312 0.037653508 7.81E-10 9.107341987 0.27592006 ALAITSK(ac)APPAK ddPTM_HeLa_SAHA_4h_R1 2 ALAITSKAPPAK 12 1 Q92541 Q92541 RTF1 RNA polymerase-associated protein RTF1 homolog 0 1 ; ALAITSK(1)APPAK;ALAITSK(1)APPAK 172.8 8.91E-11 2509200 1612.87 1673.96 1468.59 2633.4 2963.4 3311.3 3135.4 2703.2 1780.54 1533.85 FALSE TRUE FALSE 1782.519067 1728.197402 1668.721797 2684.373265 2736.344932 3029.158611 2782.59654 2634.056058 1768.149077 1599.98178 1.114087103 1.080135677 1.042963 1.677752396 1.710235058 1.893245691 1.739142642 1.646303784 1.105105758 1 10.64383976 -6.230667836 4.553158986 1.055723385 1.748754065 0.961273751 0.066759525 0.029288789 1.504660225 0.011170287 0.018434609 5.88E-07 6.230667836 0.69303068 ALALDLGS(ph)PAALR ddPTM_HeLa_SAHA_4h_R1 2 ALALDLGSPAALR 13 0 Q8TER5-4;Q8TER5-3;Q8TER5;Q8TER5-2 Q8TER5-4 ARHGEF40 Rho guanine nucleotide exchange factor 40 1 0 ALALDLGS(1)PAALR;ALALDLGS(1)PAALR ; 140.82 4.79E-07 0 1221.31 1121.35 1007.68 1507.01 1403.08 1895.75 1543.24 1679.37 1611.18 1587.4 TRUE FALSE FALSE 1349.772989 1157.682476 1145.001383 1536.180358 1295.576314 1734.221435 1369.590574 1636.414147 1599.967667 1655.840583 0.81515878 0.699150925 0.691492523 0.927734453 0.782428168 1.047335989 0.827127073 0.988267931 0.966257069 1 10.69334807 -4.241466336 22.51602725 0.879113462 0.988268309 0.078903285 0.116875725 2810.759011 3168427.358 0.017611751 0.767558185 5.74E-05 4.241466336 0.109154847 ALAMPGRPES(ph)PPVFR ddPTM_HeLa_SAHA_4h_R1 6 ALAMPGRPESPPVFR 15 1 Q63ZY3-3;Q63ZY3;Q63ZY3-2;K7ERU2 Q63ZY3-3 KANK2 KN motif and ankyrin repeat domain-containing protein 2 1 0 ALAMPGRPES(1)PPVFR;ALAMPGRPES(1)PPVFR;ALAMPGRPES(1)PPVFR;ALAMPGRPES(1)PPVFR;ALAMPGRPES(1)PPVFR;ALAMPGRPES(1)PPVFR ;;;;; 128.74 0.0015875 165048000 7084.97 6595.32 6837.19 7321.39 7093.2 8016.56 8313.34 7189.05 7380.65 6860.32 TRUE FALSE FALSE 7830.199652 6809.012695 7768.926647 7463.10609 6549.720548 7333.503988 7377.901104 7005.164511 7329.287456 7156.101969 1.094199005 0.951497439 1.085636661 1.042901027 0.915263726 1.024790315 1.030994407 0.978907866 1.024201093 1 12.80495823 ALANSLACQGK ddPTM_HeLa_SAHA_4h_R1 4 ALANSLACQGK 11 0 P04075;J3KPS3;P04075-2;H3BR68 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 ;;; ;;; 197.79 1.28E-16 38428600 7660.4 7748.1 6982.2 8410 7674.5 7449.9 8224.9 7316.9 6847.2 6282.3 FALSE FALSE TRUE 8466.156019 7999.143524 7933.697854 8572.787711 7086.481468 6815.126608 7299.412605 7129.744293 6799.549778 6553.160698 1.291919489 1.22065426 1.210667374 1.308191285 1.081383747 1.039975505 1.113876638 1.087985572 1.03759851 1 12.67797519 -5.593482252 24.99999651 1.165879794 1.080044654 0.199000955 0.093771071 85.53502412 30285.63804 0.018061091 0.036122187 2.55E-06 5.593482252 -0.085835139 ALAPS(ph)PPAEFIYYCVDEDELKR ddPTM_HeLa_SAHA_4h_R1 2 ALAPSPPAEFIYYCVDEDELKR 22 1 K7EN65;K7EPZ6;A0A0A0MS90;Q9UIS9-4;Q9UIS9-11;Q9UIS9-7 K7EN65 MBD1 Methyl-CpG-binding domain protein 1 1 0 ALAPS(1)PPAEFIYYCVDEDELKR;ALAPS(1)PPAEFIYYCVDEDELKR ; 149.95 1.20E-06 44300000 3174.2 4287.2 4548.1 2670.6 4499.3 4848.5 5504.7 3390 2827.9 4844.1 TRUE FALSE FALSE 3508.07692 4426.108093 5167.891383 2722.293325 4154.564606 4435.380523 4885.296668 3303.288709 2808.220414 5052.952857 0.694262745 0.875944862 1.022746803 0.538752963 0.822205297 0.877779914 0.966820156 0.653734322 0.555758285 1 12.302911 -9.555688717 1.319247101 1.000263243 0.800029465 0 0.194800463 0.540588749 1.682242938 0.096544375 0.022668612 2.78E-10 9.555688717 -0.200233778 ALAPS(ph)PPAEFIYYCVDEDELQPYTNRR ddPTM_HeLa_SAHA_4h_R1 1 ALAPSPPAEFIYYCVDEDELQPYTNRR 27 1 Q9UIS9-6;Q9UIS9-5;Q9UIS9;Q9UIS9-9;Q9UIS9-12 Q9UIS9-6 MBD1 Methyl-CpG-binding domain protein 1 1 0 ALAPS(0.992)PPAEFIY(0.006)Y(0.002)CVDEDELQPYTNRR 107.25 4.36E-07 7047600 520.8 844.07 846.23 353.84 717.78 864.3 804.05 552.87 340.2 778.45 TRUE FALSE FALSE 575.5801335 871.4184218 961.5498174 360.6890849 662.7838515 790.6567776 713.5761779 538.7283859 337.8325205 812.0127891 0.708831365 1.073158494 1.184156001 0.444191384 0.816223415 0.973699907 0.878774556 0.663448154 0.416043349 1 9.66535864 -6.276301276 24.99723476 0.900092404 0.777650529 0.052574799 0.237885757 1700.487242 2860160.362 0.031265572 0.047876074 5.29E-07 6.276301276 -0.122441875 ALASNTSFFSGCS(ph)PIEEEAH ddPTM_HeLa_SAHA_4h_R1 4 ALASNTSFFSGCSPIEEEAH 20 0 O95239;Q2VIQ3 O95239 KIF4A;KIF4B Chromosome-associated kinesin KIF4A;Chromosome-associated kinesin KIF4B 1 0 ALASNTSFFS(0.004)GCS(0.996)PIEEEAH;ALASNTSFFSGCS(1)PIEEEAH;ALASNTSFFS(0.01)GCS(0.99)PIEEEAH;ALASNTSFFS(0.002)GCS(0.998)PIEEEAH ;;; 186.58 2.49E-30 69238300 4582.88 3941.66 3181.54 4083.88 4727.98 4446.8 4802.3 4110.32 4814.79 4135.69 TRUE FALSE FALSE 5064.928345 4069.37237 3615.103702 4162.929403 4365.723194 4067.907623 4261.932565 4005.183966 4781.283484 4313.999835 1.174067811 0.943294512 0.837993472 0.964981354 1.011989652 0.942954979 0.987930628 0.928415419 1.108317957 1 12.07481041 -7.232981408 23.89777178 1.082198687 0.946097286 0.572767052 0.058603784 302.6035155 254113.2647 0.012777558 0.015646967 5.85E-08 7.232981408 -0.136101402 ALASVPS(ph)PALPR ddPTM_HeLa_SAHA_4h_R1 1 ALASVPSPALPR 12 0 O60336-3;O60336-6;O60336;O60336-4;O60336-2 O60336-3 MAPKBP1 Mitogen-activated protein kinase-binding protein 1 1 0 ALAS(0.001)VPS(0.999)PALPR 89.189 0.01324 1775500 673.51 806.23 678.95 1086.3 987.15 832.07 856.87 1147.3 815.48 947.67 TRUE FALSE FALSE 744.352872 832.352381 771.4737702 1107.326907 911.5147803 761.1729549 760.4527324 1117.953727 809.8050083 988.5286915 0.75299066 0.842011353 0.780426281 1.120176801 0.922092387 0.77000593 0.76927735 1.130926939 0.819202331 1 9.94913903 ALATPPK(ac)LHTCEK ddPTM_HeLa_SAHA_4h_R1 2 ALATPPKLHTCEK 13 1 Q96JY6-5;E5RGS7;H0YBP7;B3KPU0;A0A087WVI1;Q96JY6;Q96JY6-3 Q96JY6-5 PDLIM2 PDZ and LIM domain protein 2 0 1 ; ALATPPK(1)LHTCEK;ALATPPK(1)LHTCEK 201.09 1.61E-23 804610000 10907.5 11234.1 10737.3 12220.9 12878.4 13144.1 13103 12388.5 9588.1 8817.5 FALSE TRUE FALSE 12054.8009 11598.09221 12200.52333 12457.45319 11891.65977 12024.14873 11628.61595 12071.62011 9521.375631 9197.665577 1.310637008 1.260982161 1.326480423 1.35441467 1.292899777 1.307304406 1.264300801 1.312465648 1.035194806 1 13.16705203 -9.203964253 0.645991777 0.966007141 1.308573421 0.94269517 0.028151459 0.161447126 0.103695 0.03148662 0.006213461 6.25E-10 9.203964253 0.34256628 ALAVGGLGSIIR ddPTM_HeLa_SAHA_4h_R1 1 ALAVGGLGSIIR 12 0 Q9BPX5 Q9BPX5 ARPC5L Actin-related protein 2/3 complex subunit 5-like protein 0 0 152.06 3.09E-05 506740 158.34 182.67 215.54 248.6 287.16 605.73 166.64 576.23 485.17 256.57 FALSE FALSE TRUE 174.9949277 188.5886279 244.9126687 253.4120125 265.1578628 554.1183963 147.8892286 561.490871 481.7936625 267.6319883 0.65386402 0.704656529 0.91510985 0.946867428 0.990755494 2.070449051 0.552584276 2.097996112 1.800209554 1 8.064106752 -5.499958755 22.42415368 0.84053675 1.481406789 0.161638679 0.510533286 163.8554914 160309.5267 0.052896753 0.117266912 3.16E-06 5.499958755 0.640870039 ALDEGDIALLK ddPTM_HeLa_SAHA_4h_R1 2 ALDEGDIALLK 11 0 C9JLS9;P35998 C9JLS9 PSMC2 26S protease regulatory subunit 7 0 0 ; ; 166.07 4.06E-09 0 693.44 774.79 719.3 693.91 703.43 771.62 1048.15 711.37 600.14 606.58 FALSE FALSE TRUE 766.3792008 799.8937044 817.322458 707.3416315 649.5333454 705.873635 930.2094034 693.1741855 595.9635769 632.7326323 1.211221236 1.264189112 1.291734322 1.117915523 1.026552626 1.115595433 1.470146087 1.095524634 0.941888479 1 9.305452193 -9.12446011 0.848248442 0.99763275 1.201733412 0.352317379 0.120846463 0.656123861 0.840751843 0.084285196 0.023617654 7.51E-10 9.12446011 0.204100662 ALDFIASK ddPTM_HeLa_SAHA_4h_R1 2 ALDFIASK 8 0 O43707;G3V2E8;P12814-4;P12814-3;P12814;P12814-2;H9KV75;G3V2N5;G3V2W4;Q08043;A0A087WSZ2;G3V5M4;G3V2X9 O43707;P12814-4 ACTN4;ACTN1;ACTN3 Alpha-actinin-4;Alpha-actinin-1;Alpha-actinin-3 0 0 ; ; 117.04 0.0045949 2376200 3670.6 4055 4074 4664.1 4724.6 2874.8 5065.6 2328.4 2406.5 2979.1 FALSE FALSE TRUE 4056.690549 4186.384661 4629.183504 4754.3804 4362.602169 2629.850867 4495.605356 2268.842899 2389.752971 3107.54358 1.305433196 1.347168447 1.489660043 1.529948101 1.403874815 0.846279641 1.446674919 0.730108152 0.76901672 1 11.60155891 -3.230903119 13.77929136 1.202229056 1.191904355 0 0.300042882 0 0 0.035686776 0 0.00058762 3.230903119 -0.010324701 ALDGAFTEENR ddPTM_HeLa_SAHA_4h_R1 3 ALDGAFTEENR 11 0 Q9Y490 Q9Y490 TLN1 Talin-1 0 0 ;; ;; 166.34 0.0002087 9827200 2393.25 2553.25 2466.36 2697.81 3208.86 3551.66 3227.8 3517.25 3088.73 2612.11 FALSE FALSE TRUE 2644.983016 2635.976975 2802.462697 2750.030014 2962.99784 3249.038587 2864.599449 3427.283838 3067.235276 2724.730845 0.97073185 0.967426555 1.028528268 1.009285016 1.087446066 1.192425517 1.051332998 1.25784308 1.125702115 1 11.41189801 -5.62525744 1.280627683 0.985448813 1.166646909 0.469713737 0.067019495 0.173907706 0.557536789 0.007173351 0.021409089 2.37E-06 5.62525744 0.181198096 ALDIDS(ph)DEESEPK ddPTM_HeLa_SAHA_4h_R1 4 ALDIDSDEESEPK 13 0 Q96DR7-3;Q96DR7-4;Q96DR7 Q96DR7-3 ARHGEF26 Rho guanine nucleotide exchange factor 26 1 0 ALDIDS(1)DEESEPK;ALDIDS(0.976)DEES(0.024)EPK;ALDIDS(0.998)DEES(0.002)EPK;ALDIDS(0.981)DEES(0.019)EPK ;;; 193.51 1.14E-07 10773500 4407.2 5650.88 3904.02 4653.74 5736.19 6642.43 5709.79 4937.82 6834.67 4619.82 TRUE FALSE FALSE 4870.769517 5833.97222 4436.039514 4743.819867 5296.684361 6076.457595 5067.309402 4811.517714 6787.106975 4819.003049 1.010742153 1.21061808 0.920530547 0.984398603 1.099124509 1.260936657 1.051526498 0.998446705 1.40840479 1 12.234519 -5.69723412 7.112721036 1.014030533 1.111057488 0 0.155813918 0.284109437 25.85523748 0.01332703 0.026689572 2.01E-06 5.69723412 0.097026955 ALDLDSSCK ddPTM_HeLa_SAHA_4h_R1 1 ALDLDSSCK 9 0 P31948-3;P31948;P31948-2;H0YGI8 P31948-3 STIP1 Stress-induced-phosphoprotein 1 0 0 120.12 0.021772 7014100 1072.8 1068.3 1072.3 1253.7 1103 1342.6 1430.1 1465.9 1355.2 1373.2 FALSE FALSE TRUE 1185.642026 1102.913621 1218.42746 1277.967176 1018.488378 1228.202927 1269.181384 1428.404401 1345.769053 1432.405372 0.827727995 0.769973111 0.850616371 0.892182619 0.711033621 0.857440883 0.886049025 0.997206816 0.939516899 1 10.48422412 -9.189963262 0.931535356 1.000111527 0.844925346 0.286967565 0.073691181 0.467976792 0.730180245 0.048410123 0.013659164 6.46E-10 9.189963262 -0.155186181 ALDMSLPSLVLKAT(ph)RNDLPVVPS(ph)S(ph)K ddPTM_HeLa_SAHA_4h_R1 1 ALDMSLPSLVLKATRNDLPVVPSSK 25 2 Q12923-3;Q12923;Q12923-4;Q12923-2 Q12923-3 PTPN13 Tyrosine-protein phosphatase non-receptor type 13 3 0 ALDMS(0.06)LPS(0.065)LVLKAT(0.889)RNDLPVVPS(0.989)S(0.997)K 42.123 0.018498 5514100 552.31 380.76 406.4 647.86 495.25 482.39 552.29 734.41 686.27 412.49 TRUE FALSE FALSE 610.4044999 393.0968738 461.7820756 660.4002671 457.304052 441.2876581 490.1448757 715.6248556 681.4941912 430.2744626 1.418639852 0.913595642 1.073226779 1.534834913 1.062819414 1.025595745 1.139144705 1.663182266 1.583859258 1 8.749113407 -9.669022675 1.524050173 1.00005928 1.241339108 0 0.291165735 0.676218813 2.828386952 0.163294455 0.036598266 2.14E-10 9.669022675 0.241279828 ALDQASEEIWNDFR ddPTM_HeLa_SAHA_4h_R1 2 ALDQASEEIWNDFR 14 0 G3V1U3;P50579-3;P50579;F8VY03;F8VRR3;F8VQZ7;P50579-2;F8VZX9 G3V1U3 METAP2 Methionine aminopeptidase 2 0 0 ; ; 312.34 8.91E-98 8095200 1078.33 1254.77 1018.79 1008.64 1337.56 1304.59 1034.63 1068.29 998.74 905.71 FALSE FALSE TRUE 1191.753697 1295.425371 1157.625396 1028.163686 1235.076442 1193.431593 918.2107094 1040.964689 991.789687 944.7595905 1.261435934 1.371169326 1.22531214 1.088280761 1.307291775 1.263211937 0.971898797 1.101830242 1.049779962 1 9.883803449 -9.356063526 1.128382513 1.00216566 1.203826363 0.274481373 0.112030497 0.494706777 1.145269475 0.076203547 0.020718171 4.40E-10 9.356063526 0.201660703 ALDSNS(ph)LENDDLSAPGR ddPTM_HeLa_SAHA_4h_R1 1 ALDSNSLENDDLSAPGR 17 0 Q32MZ4-3;Q32MZ4-2;Q32MZ4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 ALDS(0.025)NS(0.974)LENDDLSAPGR 122.13 9.08E-05 0 171.33 320.27 123.27 93.86 214.46 381.42 262.09 254.84 334.83 194.65 TRUE FALSE FALSE 189.3512755 330.6469581 140.0685936 95.67679602 198.0281211 348.9208702 232.5989434 248.3215618 332.4998908 203.0423141 0.932570515 1.628463306 0.689849277 0.471216044 0.97530469 1.718463817 1.145568816 1.223003998 1.637589151 1 7.665636607 -5.466949427 23.8819032 0.95839373 1.341704697 0.096137671 0.376385756 196.5947603 83945.58087 0.043721469 0.097763617 3.41E-06 5.466949427 0.383310967 ALDSNS(ph)LENDDLSAPGREPGHFNPESR ddPTM_HeLa_SAHA_4h_R1 1 ALDSNSLENDDLSAPGREPGHFNPESR 27 1 Q32MZ4-3;Q32MZ4-2;Q32MZ4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 ALDS(0.089)NS(0.91)LENDDLS(0.001)APGREPGHFNPESR 65.134 0.00042142 10424000 258.13 325.23 199.38 265.69 385.89 404.23 320.33 329.23 355.43 390.12 TRUE FALSE FALSE 285.2812977 335.7676654 226.5504681 270.8328141 356.3231916 369.7873299 284.2856253 320.8087733 352.9565337 406.9399824 0.701040227 0.825103651 0.556717152 0.665535032 0.875616078 0.908702378 0.698593497 0.788344196 0.867342972 1 8.668672224 -9.30945818 0.945608733 1.005682831 0.749975566 0.288996897 0.106291898 0.436776485 0.67485304 0.078519144 0.019159233 4.90E-10 9.30945818 -0.255707265 ALDTMNFDVIK ddPTM_HeLa_SAHA_4h_R1 1 ALDTMNFDVIK 11 0 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YBN4;E5RH24;E5RJB9;E5RGH3;B1ANR1;H0YEQ8;B1ANR0;Q13310-2;Q13310;Q13310-3 P11940;B1ANR0 PABPC1;PABPC4 Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 4 0 0 117.52 0.0069962 455030 146.05 72.644 227.67 198.22 160.99 152.46 374.59 140.06 129.88 0 FALSE FALSE TRUE 161.4122091 74.99771326 258.6956819 202.0568347 148.654981 139.4695503 332.4401473 136.477468 128.9761545 0 0 ALDVMVSTFHK ddPTM_HeLa_SAHA_4h_R1 2 ALDVMVSTFHK 11 0 P26447 P26447 S100A4 Protein S100-A4 0 0 ; ; 134.75 0.00015733 1769780 1081.54 2058.13 1253.99 2197.9 3999 2704 2776.9 828.44 1133.37 1942.34 FALSE FALSE TRUE 1195.301339 2124.814762 1424.877227 2240.443533 3692.597484 2473.603988 2464.435904 807.2497044 1125.482786 2026.083783 0.589956521 1.048729959 0.703266686 1.105800042 1.82252951 1.220879417 1.21635439 0.39842859 0.555496666 1 10.98447812 -6.131261262 5.679100451 0.817256724 1.205060088 0.210798426 0.354226457 0.280365929 11.87347419 0.053385018 0.089392637 7.39E-07 6.131261262 0.387803364 ALDVS(ph)ASDDEIAR ddPTM_HeLa_SAHA_4h_R1 2 ALDVSASDDEIAR 13 0 C9JLK2;H7C393;H7C1U0;C9JIF9;P13798 C9JLK2 APEH Acylamino-acid-releasing enzyme 1 0 ALDVS(0.648)AS(0.352)DDEIAR;ALDVS(0.93)AS(0.07)DDEIAR ; 203.74 5.81E-11 56457000 4734.1 4788 4941 4723.6 4967.5 4126 5472.5 3403.7 3344.6 3990.8 TRUE FALSE FALSE 5232.054359 4943.134342 5614.333748 4815.032108 4586.891223 3774.441588 4856.719897 3316.638282 3321.324656 4162.862919 1.256840415 1.187436252 1.348671301 1.156663624 1.101859781 0.906693701 1.166677835 0.796720514 0.797846271 1 12.02336034 -5.442657863 4.841632235 1.150193142 0.978527917 0.159660877 0.165136129 0.255012241 10.60180683 0.020318682 0.04608219 3.61E-06 5.442657863 -0.171665225 ALDVSAS(ph)DDEIAR ddPTM_HeLa_SAHA_4h_R1 1 ALDVSASDDEIAR 13 0 C9JLK2;H7C393;H7C1U0;C9JIF9;P13798 C9JLK2 APEH Acylamino-acid-releasing enzyme 1 0 ALDVS(0.163)AS(0.837)DDEIAR 92.939 0.0088667 4500000 599.61 835.28 547.32 876.84 986.23 780.69 886.86 717.72 506.23 709.53 TRUE FALSE FALSE 662.6797309 862.34362 621.9059193 893.8125061 910.6652705 714.17082 787.0681787 699.3617616 502.7071042 740.1213107 0.895366369 1.165138211 0.840275655 1.207656763 1.230427036 0.964937517 1.063431315 0.944928556 0.679222577 1 9.531617947 -7.278842135 24.67486874 0.950589676 1.059888986 0.219543816 0.145465218 945.1629287 1340117.143 0.019915877 0.022806748 5.26E-08 7.278842135 0.10929931 ALEAELDAQHLSETFDNIDNLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 ALEAELDAQHLSETFDNIDNLSPK 24 0 P25054-2;P25054-3;P25054;A0A2Q2SV78;E9PFT7 P25054-2 APC Adenomatous polyposis coli protein 1 0 ALEAELDAQHLSET(0.001)FDNIDNLS(0.999)PK;ALEAELDAQHLSETFDNIDNLS(1)PK ; 152.12 2.27E-07 11524200 1219.95 1859.51 1578.18 1743.74 2753.5 3983.1 2050 1911.73 2674.5 2138.72 TRUE FALSE FALSE 1348.269938 1919.759344 1793.246152 1777.492609 2542.527425 3643.717472 1819.328605 1862.830715 2655.887937 2230.930686 0.604353128 0.860519494 0.803810788 0.796749366 1.139671188 1.63327238 0.815502076 0.83500161 1.190484291 1 11.12342997 -5.761736781 24.99700524 0.810956769 1.122794055 0.131355086 0.257545871 8.492626122 713916.6245 0.037077479 0.070386198 1.73E-06 5.761736781 0.311837285 ALEATTEHIR ddPTM_HeLa_SAHA_4h_R1 2 ALEATTEHIR 10 0 Q9Y490 Q9Y490 TLN1 Talin-1 0 0 ; ; 176.6 5.42E-05 5757800 3701.2 4814.7 3414.3 4054.5 4472 3410.8 4722.4 4398.3 4154.5 4403.1 FALSE FALSE TRUE 4090.509198 4970.699439 3879.583023 4132.98071 4129.356326 3120.180651 4191.023123 4285.797855 4125.588496 4592.939189 0.890608177 1.082248041 0.844684169 0.899855308 0.899066187 0.679342905 0.912492622 0.933127498 0.898245835 1 12.16520197 -6.650006167 21.56382056 0.957268909 0.858918683 0.277258861 0.083362482 3.704449436 699.0768119 0.013275784 0.018774788 2.24E-07 6.650006167 -0.098350226 ALEAVFGK ddPTM_HeLa_SAHA_4h_R1 1 ALEAVFGK 8 0 P38159;P38159-2;H0Y6E7;H3BT71;H3BR27;P38159-3;H3BNC1 P38159 RBMX "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed" 0 0 136.11 0.00050374 1271600 1998.9 1851.6 1935.6 2048.6 2047.9 1738.6 2444.1 1798.2 1636.3 1672.7 FALSE FALSE TRUE 2209.153473 1911.593055 2199.373488 2088.253615 1890.990344 1590.461499 2169.083435 1752.204648 1624.912855 1744.818283 1.266122378 1.095582889 1.260517218 1.196831576 1.083774948 0.911534178 1.243157214 1.004233315 0.931279131 1 10.76886108 -5.539805721 22.41220878 1.141714125 1.059603411 0.053173317 0.125620753 143.6214459 190161.4416 0.018533994 0.037081437 2.89E-06 5.539805721 -0.082110714 ALEEALEAKEEFER ddPTM_HeLa_SAHA_4h_R1 1 ALEEALEAKEEFER 14 1 P35580;P35580-5;P35580-2;P35580-3;P35580-4 P35580 MYH10 Myosin-10 0 0 143.58 2.18E-07 0 507.69 355.54 456.76 562.77 562.45 492.13 532.79 510.01 495.03 441.42 FALSE FALSE TRUE 561.0911636 367.0597293 519.0048741 573.6632271 519.3552025 450.1977554 472.839067 496.9646827 491.5850459 460.4517765 1.218566617 0.797173011 1.127164452 1.245870374 1.127925288 0.977730521 1.026902471 1.079298003 1.067614615 1 8.846906259 -5.271299857 24.25697666 1.09613089 1.027869544 0.035803016 0.119990114 1174.924522 2890342.766 0.01889317 0.042760947 5.35E-06 5.271299857 -0.068261346 ALEEAMEQK ddPTM_HeLa_SAHA_4h_R1 3 ALEEAMEQK 9 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ;; ;; 127.3 0.014887 41209500 4464.2 4476.5 3728.47 4344.8 4196.4 4783.3 4665.2 4421.23 4629.8 4134.95 FALSE FALSE TRUE 4933.765038 4621.541537 4236.566475 4428.899887 3874.872739 4375.73593 4140.259418 4308.141338 4597.580845 4313.22793 1.143868378 1.071480945 0.982226431 1.026817956 0.898369574 1.014492162 0.959898128 0.998820699 1.06592578 1 12.07455224 -6.755496143 8.011027494 1.070145745 0.979034155 0.479627171 0.046029939 0.111506881 52.07389147 0.009725544 0.01337237 1.76E-07 6.755496143 -0.09111159 ALEEGDGSVSGSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 ALEEGDGSVSGSSPR 15 0 Q8N3X1-2;Q8N3X1 Q8N3X1-2 FNBP4 Formin-binding protein 4 1 0 ALEEGDGSVSGSS(1)PR;ALEEGDGSVSGS(0.021)S(0.979)PR ; 278.62 3.25E-69 192059000 2968.5 3434.3 2551.4 3274 3284.8 3399.1 3531.3 2735.1 3457.6 2729.7 TRUE FALSE FALSE 3280.74045 3545.573573 2899.091505 3337.373004 3033.119334 3109.477557 3133.94883 2665.140102 3433.53828 2847.390726 1.152191872 1.245200928 1.018157248 1.172081153 1.065227651 1.092044562 1.100638842 0.935993813 1.205854275 1 11.47542476 -4.258947407 23.61722687 1.090203608 0.935993692 0.271006019 0.078745905 117.7218557 1115527.089 0.011074425 0.099451712 5.51E-05 4.258947407 -0.154209917 ALEENNNFSK ddPTM_HeLa_SAHA_4h_R1 2 ALEENNNFSK 10 0 E5RGX5;Q93045;Q93045-2 E5RGX5 STMN2 Stathmin;Stathmin-2 0 0 ; ; 179.42 0.00019324 18466300 2802.54 2390.91 3333.2 4525.2 2054.92 2459.48 2633.76 3183.33 3406.3 2700.16 FALSE FALSE TRUE 3097.324016 2468.377053 3787.431137 4612.79179 1897.472474 2249.918467 2337.402393 3101.905028 3382.595281 2816.577112 1.099676626 0.876374747 1.344692862 1.637729629 0.673680286 0.798813019 0.829873389 1.101303073 1.200959586 1 11.45972725 ALEESESSQLIS(ph)PPLAQAIR ddPTM_HeLa_SAHA_4h_R1 1 ALEESESSQLISPPLAQAIR 20 0 P42166 P42166 TMPO "Lamina-associated polypeptide 2, isoform alpha;Thymopoietin;Thymopentin" 1 0 ALEESESSQLIS(1)PPLAQAIR 223.65 1.17E-26 3376000 650.02 738.73 835.95 586.93 1024.7 878.78 785.53 667.29 1155.4 732.75 TRUE FALSE FALSE 718.392086 762.6653367 949.8689126 598.2908789 946.1877074 803.9030001 697.140097 650.221688 1147.359477 764.3424385 0.939882505 0.997805824 1.242726904 0.782752401 1.237910732 1.051757641 0.912078228 0.850694211 1.501106598 1 9.578075325 -4.573456851 5.013225169 1.001941448 0.863520228 0.014047622 0.204326854 0.258220553 13.81004021 0.016969116 0.07079776 2.67E-05 4.573456851 -0.13842122 ALEGHERQHLEARLQS(ph)LR ddPTM_HeLa_SAHA_4h_R1 1 ALEGHERQHLEARLQSLR 18 2 Q86TM6-2;Q86TM6-3;Q86TM6 Q86TM6-2 SYVN1 E3 ubiquitin-protein ligase synoviolin 1 0 ALEGHERQHLEARLQS(1)LR 47.113 0.020036 21878000 1653.5 1868 2252 4679.4 2113.1 1463 2115.3 3063.4 3360.7 2086.6 TRUE FALSE FALSE 1827.422717 1928.524426 2558.890832 4769.976554 1951.194735 1338.344169 1877.280877 2985.042664 3337.312615 2176.563538 0.839590798 0.88604095 1.17565639 2.191517257 0.896456594 0.614888629 0.862497623 1.371447519 1.533294369 1 11.08783642 -6.756357773 23.27934651 0.919268923 1.177397912 0 0.441769253 110.3021705 505297.9782 0.065596578 0.091038811 1.75E-07 6.756357773 0.258128989 ALEIIPR ddPTM_HeLa_SAHA_4h_R1 1 ALEIIPR 7 0 Q99832-3;Q99832;Q99832-4;Q99832-2 Q99832-3 CCT7 T-complex protein 1 subunit eta 0 0 114.72 0.0071825 953450 864.33 705.9 942.68 1094.2 1065.3 911.9 914.92 612.21 759.1 925.58 FALSE FALSE TRUE 955.2441951 728.7716232 1071.143521 1115.379823 983.6769441 834.2009898 811.9707937 596.5505547 753.8173613 965.4862835 0.989391783 0.754823383 1.109434219 1.155251858 1.018840931 0.864021586 0.840996716 0.617875743 0.780764444 1 9.915111953 -4.395062987 1.30980909 0.997017049 0.522587721 0.413845776 0.123228724 0.605583582 1.058273022 0.015224795 0.356820258 4.03E-05 4.395062987 -0.474429328 ALEIS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 ALEISPR 7 0 Q8IY92-2;Q8IY92 Q8IY92-2 SLX4 Structure-specific endonuclease subunit SLX4 1 0 ALEIS(1)PR;ALEIS(1)PR ; 95.358 0.016638 8921600 3609.2 3337.6 2800.9 3290.2 3442.1 3942.2 3466.3 3855 4787.7 3376.8 TRUE FALSE FALSE 3988.832216 3445.74043 3182.592066 3353.886579 3178.367042 3606.302382 3076.262801 3756.394682 4754.382006 3522.390374 1.132421961 0.978239225 0.9035319 0.95216209 0.902332423 1.023822461 0.873345222 1.066433383 1.349760107 1 11.78233909 -7.064974291 7.505660588 1.062358524 0.949922591 0.326239951 0.109875516 0.222354628 22.96729816 0.011198004 0.013765598 8.61E-08 7.064974291 -0.112435933 ALELDSNLYR ddPTM_HeLa_SAHA_4h_R1 4 ALELDSNLYR 10 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ;;; ;;; 145.46 0.0015068 45302500 5662.46 5212.75 4698.53 6368.05 5875.08 5178.71 5916.12 5651.92 5352.55 4475.53 FALSE FALSE TRUE 6258.063523 5381.64652 5338.8212 6491.312816 5424.93264 4737.454773 5250.422607 5507.35207 5315.301169 4668.492001 1.340489289 1.152759075 1.143585809 1.390451738 1.162031045 1.014771959 1.124650659 1.179685446 1.138547773 1 12.1887409 -3.886974614 17.25187154 1.165507967 2.444205926 0.001444726 0.115924014 2632.280762 415971.844 0.019908573 4668.658902 0.000129726 3.886974614 1.278697959 ALELDSNNEK ddPTM_HeLa_SAHA_4h_R1 2 ALELDSNNEK 10 0 Q02790 Q02790 FKBP4 "Peptidyl-prolyl cis-trans isomerase FKBP4;Peptidyl-prolyl cis-trans isomerase FKBP4, N-terminally processed" 0 0 ; ; 194.94 1.91E-06 20805000 3596.7 2924.3 2736 3207.8 2741.4 3328.7 3136.3 3701.8 2838.6 3140.5 FALSE FALSE TRUE 3975.017408 3019.049239 3108.847832 3269.891608 2531.354524 3045.076033 2783.39527 3607.113316 2818.845951 3275.902324 1.213411456 0.921593179 0.949005045 0.998165172 0.77271978 0.929538103 0.849657589 1.101105271 0.860479243 1 11.67767663 -7.235116451 23.93350375 1.10077763 0.925555281 0.003295321 0.120986128 349.8139613 318060.265 0.017955264 0.021986093 5.82E-08 7.235116451 -0.175222349 ALELNMLSLK ddPTM_HeLa_SAHA_4h_R1 2 ALELNMLSLK 10 0 Q9Y617 Q9Y617 PSAT1 Phosphoserine aminotransferase 0 0 ; ; 134.68 0.00092334 575430 77.141 67.835 207.92 213.16 174.21 0 168.26 0 0 0 FALSE FALSE TRUE 85.25504432 70.03289851 236.2542548 217.28602 160.8620674 0 149.326942 0 0 0 0 ALELTGLK ddPTM_HeLa_SAHA_4h_R1 2 ALELTGLK 8 0 P19338 P19338 NCL Nucleolin 0 0 ; ; 126.67 0.0013322 4547400 3123.8 2494.2 3553.8 3739.2 3428.5 2040.63 3795.2 1843.19 1336.77 1747.41 FALSE FALSE TRUE 3452.375617 2575.013717 4038.093357 3811.577623 3165.809071 1866.756844 3368.154108 1796.043869 1327.467309 1822.749397 1.894048421 1.412708583 2.215385924 2.091114461 1.736831775 1.024143443 1.847842668 0.985348766 0.728277464 1 10.83190051 -9.401285734 1.080313419 0.992858259 1.683579627 0.363550681 0.401878798 0.527855013 1.08352954 0.280416708 0.068437208 3.97E-10 9.401285734 0.690721367 ALENDFFNS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 3 ALENDFFNSPPR 12 0 F5H148;H3BMT1;Q9NYV6-2;A6NIE6;Q9NYV6-3;Q9NYV6 F5H148 RRN3;RRN3P2 RNA polymerase I-specific transcription initiation factor RRN3;Putative RRN3-like protein RRN3P2 1 0 ALENDFFNS(1)PPR;ALENDFFNS(1)PPR;ALENDFFNS(1)PPR ;; 153 0.00029849 27629300 4017.04 4117.27 4627.69 4737.76 4814.8 6277.7 5530.2 5725.8 4981.3 5050.47 TRUE FALSE FALSE 4439.570698 4250.672249 5258.327493 4829.466196 4445.891064 5742.804643 4907.927341 5579.342327 4946.634728 5268.220478 0.84270784 0.806851624 0.998122139 0.916716796 0.843907555 1.09008434 0.931610088 1.059056346 0.938957424 1 12.36310001 -5.26193779 24.99982606 0.915138962 1.017386238 0.36654191 0.071472169 49.76623711 2496321.311 0.011687171 0.027722843 5.47E-06 5.26193779 0.102247276 ALENDFFNS(ph)PPRK ddPTM_HeLa_SAHA_4h_R1 1 ALENDFFNSPPRK 13 1 F5H148;H3BMT1;Q9NYV6-2;A6NIE6;Q9NYV6-3;Q9NYV6 F5H148 RRN3;RRN3P2 RNA polymerase I-specific transcription initiation factor RRN3;Putative RRN3-like protein RRN3P2 1 0 ALENDFFNS(1)PPRK 76.574 0.011747 9311800 1226.3 1150.6 1075.1 1491.9 1307.1 1350.7 1089.5 1518.4 1547.2 1373.3 TRUE FALSE FALSE 1355.28786 1187.880195 1221.609029 1520.777882 1206.95028 1235.612761 966.9065926 1479.561527 1536.432909 1432.509684 0.946093332 0.829230133 0.852775407 1.061617872 0.842542493 0.86255107 0.674973861 1.032845742 1.072546264 1 10.48432918 -7.581237265 0.336724241 1.014826606 0.845647744 0.22365584 0.106163173 1.512924855 0.526511794 0.095094814 0.080904546 2.62E-08 7.581237265 -0.169178861 ALENDPDCR ddPTM_HeLa_SAHA_4h_R1 2 ALENDPDCR 9 0 P13796;Q5TBN3;P13797-3;P13797;A0A0A0MSQ0;P13797-2;U3KQI3 P13796;P13797-3 LCP1;PLS3 Plastin-2;Plastin-3 0 0 ; ; 164.68 0.00036951 33356000 8221.4 7971.5 7828.2 6592.6 8935 9185.9 8555.7 6989.1 8213.8 6979.2 FALSE FALSE TRUE 9086.164573 8229.78183 8894.986328 6720.209306 8250.40223 8403.209642 7592.990119 6810.328942 8156.639497 7280.107467 1.248081105 1.130447849 1.221820745 0.923092047 1.13328028 1.154269999 1.042977752 0.935470935 1.120400974 1 12.82974403 -6.277373219 24.76432824 1.128470756 1.049877823 0.23289332 0.093091091 1358.032619 2110647.001 0.018061775 0.027642513 5.28E-07 6.277373219 -0.078592934 ALEQQVEEMK ddPTM_HeLa_SAHA_4h_R1 2 ALEQQVEEMK 10 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ; ; 167.09 0.0008 14306500 2548.5 1891.35 2018.07 2566.8 2109.1 2781 2655.8 2829.6 2805.1 2301.6 FALSE FALSE TRUE 2816.562923 1952.630981 2293.08207 2616.484126 1947.501214 2544.043155 2356.962394 2757.222929 2785.579081 2400.83324 1.173160583 0.813313873 0.955119261 1.089823351 0.811177212 1.059650088 0.981726825 1.148444167 1.160255129 1 11.22931948 -7.294229052 24.98681085 1.081770265 0.979817647 0.211935724 0.111751784 915.3914654 697556.1733 0.019515136 0.022317162 5.08E-08 7.294229052 -0.101952618 ALES(ph)PERPFLAILGGAK ddPTM_HeLa_SAHA_4h_R1 1 ALESPERPFLAILGGAK 17 1 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 1 0 ALES(1)PERPFLAILGGAK 136.34 0.00052709 30806000 417.81 541.14 423.53 744.86 453.79 521.07 655.51 404.77 343.23 405.39 TRUE FALSE FALSE 461.7571728 558.6732911 481.2464628 759.2778424 419.0207082 476.6719045 581.7502896 394.4165695 340.8414345 422.8683468 1.091964381 1.321151832 1.138052697 1.795541918 0.990901096 1.127234772 1.375724369 0.932717174 0.806022577 1 8.724064763 -7.462604078 3.04590261 1.036782095 1.248887889 0.200892569 0.238816644 0.344091364 6.113731873 0.039027492 0.043221901 3.45E-08 7.462604078 0.212105794 ALESPERPFLAILGGAK ddPTM_HeLa_SAHA_4h_R1 2 ALESPERPFLAILGGAK 17 1 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 0 0 ; ; 242.19 7.15E-58 11105700 1705.7 1854.44 1838.65 1928.4 2177.9 2077.88 2346.33 1328.22 2040.62 1966.75 FALSE FALSE TRUE 1885.113352 1914.525073 2089.211647 1965.726971 2011.029773 1900.832934 2082.314773 1294.246056 2026.419159 2051.546218 0.918874426 0.933210793 1.018359532 0.958168504 0.980250776 0.926536735 1.014997739 0.630863709 0.987752136 1 11.00249594 -4.256090161 24.95043916 0.964180639 0.630863565 0.895629805 0.034755752 139.5685849 650970.969 0.005286975 0.060327519 5.55E-05 4.256090161 -0.333317074 ALEVEESNS(ph)EDEASFK ddPTM_HeLa_SAHA_4h_R1 1 ALEVEESNSEDEASFK 16 0 Q03111 Q03111 MLLT1 Protein ENL 1 0 ALEVEES(0.34)NS(0.659)EDEASFK 196.64 1.68E-12 2472200 449.7 671.02 609.83 598.08 720.73 813.16 751.07 741.63 774.83 615.15 TRUE FALSE FALSE 497.0015093 692.7614883 692.9344565 609.6567032 665.5078231 743.8741933 666.5576269 722.6601785 769.4378949 641.672127 0.774541216 1.079619106 1.079888665 0.950106258 1.037146223 1.159274592 1.038782267 1.126214071 1.199113788 1 9.325692506 -7.236705633 24.76588321 0.89353335 1.06454969 0 0.121088222 501.733994 502386.4027 0.016131409 0.019752239 5.80E-08 7.236705633 0.17101634 ALGLAVPPS(ph)PPSAATAASK ddPTM_HeLa_SAHA_4h_R1 2 ALGLAVPPSPPSAATAASK 19 0 Q9H4Z2-2;Q9H4Z2 Q9H4Z2-2 ZNF335 Zinc finger protein 335 1 0 ALGLAVPPS(0.971)PPS(0.012)AAT(0.012)AAS(0.004)K;ALGLAVPPS(0.995)PPS(0.005)AATAASK ; 138.91 6.98E-10 0 1118.75 1284.09 968.71 1279.97 1449.08 1388.4 1123.93 1266.23 1527.05 1326.45 TRUE FALSE FALSE 1236.425258 1325.695359 1100.720754 1304.74567 1338.051803 1270.100509 997.4624384 1233.84167 1516.423135 1383.639751 0.893603452 0.958121764 0.795525536 0.942980765 0.967052155 0.917941616 0.720897501 0.891736212 1.095966731 1 10.43425265 -13.52287875 0.08518509 1.394721026 0.767870714 0.396334615 0.076981304 146.1909242 0.949420022 10.81170936 1.046622209 3.00E-14 13.52287875 -0.626850313 ALGQNPTNAEVLK ddPTM_HeLa_SAHA_4h_R1 5 ALGQNPTNAEVLK 13 0 P60660-2;F8W1R7;G8JLA2;G3V1V0;P60660;J3KND3;B7Z6Z4;F8VPF3;F8W1I5;P14649 P60660-2 MYL6;MYL6B Myosin light polypeptide 6;Myosin light chain 6B 0 0 ;;;; ;;;; 252.97 4.52E-69 9507500 3832.93 3842.38 4309.28 4211.03 4957.26 4350.79 4819.9 4225.2 3818.53 3994.16 FALSE FALSE TRUE 4236.095164 3966.875633 4896.526237 4292.540575 4577.43581 3980.078215 4277.552167 4117.125502 3791.956539 4166.367785 1.016735771 0.952118449 1.1752506 1.030283642 1.098663403 0.955287296 1.026686166 0.988181004 0.910134855 1 12.02457448 -1.114144403 17.93374938 1.019046018 0.019088949 0 0.072560532 0 0 0.007935081 0 0.076887475 1.114144403 -0.999957069 ALHSFIT(ph)PPT(ph)TPQLR ddPTM_HeLa_SAHA_4h_R1 1 ALHSFITPPTTPQLR 15 0 A0A2R8Y4X0;A0A0A0MQW1;A0A2R8Y5H9;Q8IVT5-4;Q8IVT5-3;Q8IVT5-2;Q8IVT5;J3QR75 A0A2R8Y4X0 KSR1 Kinase suppressor of Ras 1 2 0 ALHS(0.143)FIT(0.857)PPT(0.64)T(0.359)PQLR 89.913 0.0061001 7241300 1283.3 1421.1 1310.9 1379.3 1306.5 950.51 1218.1 1303.5 1740.9 1322.2 TRUE FALSE FALSE 1418.283382 1467.144572 1489.542625 1405.998346 1206.396252 869.5212006 1081.036182 1270.158357 1728.784935 1379.206513 1.028332863 1.063759893 1.079999704 1.019425541 0.874703129 0.63045033 0.783810236 0.920934136 1.253463437 1 10.42962278 -5.620564852 3.80439151 1.023773674 0.775204411 0.623547103 0.100674674 0.087069617 2.40608082 0.010132513 0.021214191 2.40E-06 5.620564852 -0.248569262 ALHSFIT(ph)PPTT(ph)PQLR ddPTM_HeLa_SAHA_4h_R1 1 ALHSFITPPTTPQLR 15 0 A0A2R8Y4X0;A0A0A0MQW1;A0A2R8Y5H9;Q8IVT5-4;Q8IVT5-3;Q8IVT5-2;Q8IVT5;J3QR75 A0A2R8Y4X0 KSR1 Kinase suppressor of Ras 1 2 0 ALHS(0.035)FIT(0.966)PPT(0.314)T(0.686)PQLR 73.735 0.016562 6951600 1136.9 825.84 786.22 876.08 866.34 604.34 807.6 860.78 1089.4 865.96 TRUE FALSE FALSE 1256.484358 852.5977579 893.3619671 893.0377952 799.9612164 552.8468321 716.7267225 838.762494 1081.818777 903.2957735 1.390999931 0.943874402 0.989002709 0.988643832 0.885602745 0.612033011 0.793457407 0.928557975 1.197635158 1 9.819054648 -6.339080013 1.131483835 1.175389296 0.791457966 0.544640173 0.134860986 0.31301117 0.793686665 0.031233642 0.060350266 4.58E-07 6.339080013 -0.38393133 ALHSFIT(ph)PPTTPQLR ddPTM_HeLa_SAHA_4h_R1 1 ALHSFITPPTTPQLR 15 0 A0A2R8Y4X0;A0A0A0MQW1;A0A2R8Y5H9;Q8IVT5-4;Q8IVT5-3;Q8IVT5-2;Q8IVT5;J3QR75 A0A2R8Y4X0 KSR1 Kinase suppressor of Ras 1 1 0 ALHSFIT(1)PPTTPQLR 87.157 0.011374 4320200 594.37 761.47 546.16 621.94 712.3 700.47 693.49 553.1 799.45 684.5 TRUE FALSE FALSE 656.8885637 786.1421276 620.5878405 633.978548 657.7237279 640.7860153 615.45668 538.9525029 793.8865624 714.0121449 0.919996345 1.101020666 0.869155861 0.887910034 0.921166023 0.89744414 0.861969484 0.754822599 1.111867029 1 9.479804804 -2.160642968 0.333618347 0.97510046 8.05E-14 0.519095407 0.072462522 14.62159734 0.377329482 0.018972204 7.764656536 0.006908075 2.160642968 -0.97510046 ALIAAQYSGAQVR ddPTM_HeLa_SAHA_4h_R1 1 ALIAAQYSGAQVR 13 0 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 0 0 197.73 3.08E-23 6183000 1606.9 1659.8 1924.1 1786.4 2039.1 1260.4 1877 944.15 886.74 1013.5 FALSE FALSE TRUE 1775.921115 1713.578609 2186.306328 1820.978355 1882.864599 1153.006829 1665.79502 920.0000101 880.5691041 1057.196945 1.679839431 1.620869808 2.068021799 1.722458965 1.780997011 1.090626335 1.575671428 0.870225755 0.832928158 1 10.04602845 -5.226955813 24.90697962 1.465875144 1.218524228 0.131955093 0.384760602 1394.256342 1007049.022 0.058564852 0.149303777 5.93E-06 5.226955813 -0.247350917 ALIAGGGAPEIELALR ddPTM_HeLa_SAHA_4h_R1 2 ALIAGGGAPEIELALR 16 0 P50991-2;P50991 P50991-2 CCT4 T-complex protein 1 subunit delta 0 0 ; ; 208.72 3.31E-33 1266400 132.21 200.29 0 172.4 193.53 66.197 165.73 0 137.23 0 FALSE FALSE TRUE 146.1164544 206.7795274 0 175.7370513 178.7017732 60.55664319 147.0816242 0 136.2750053 0 0 ALINADELASDVAGAEALLDR ddPTM_HeLa_SAHA_4h_R1 1 ALINADELASDVAGAEALLDR 21 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 86.378 0.0050133 44521000 232.29 151.97 0 159.38 182.1 197.16 165.33 162.86 139.24 216.53 FALSE FALSE TRUE 256.723328 156.8939277 0 162.4650304 168.1475373 180.3608588 146.7266333 158.694277 138.2710175 225.865668 1.136619524 0.694633802 0 0.71929936 0.74445815 0.798531536 0.649619017 0.702604687 0.612182536 1 7.819321185 -7.188029653 5.493274244 1.064267319 0.605503737 0.161153127 0.257857894 0.140910024 7.798442227 0.036916567 0.045235714 6.49E-08 7.188029653 -0.458763582 ALIQTCLNSPDS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 2 ALIQTCLNSPDSPPR 15 0 P11831 P11831 SRF Serum response factor 1 0 ALIQTCLNS(0.43)PDS(0.57)PPR;ALIQTCLNS(0.116)PDS(0.884)PPR ; 148.33 7.57E-05 16798500 1576.04 1741.48 1304.58 1493.41 1731.72 1938.08 1699.6 1429.02 2210.68 1549.86 TRUE FALSE FALSE 1741.815118 1797.905095 1482.361368 1522.31711 1599.035988 1772.944681 1508.356535 1392.467738 2195.295698 1616.682049 1.077401162 1.112095662 0.916915833 0.94163049 0.989085014 1.096656378 0.932995165 0.861312055 1.357901944 1 10.65882026 -6.751149546 24.99980097 1.0432377 0.962552361 0.235446205 0.11795049 230.5394598 560108.5527 0.010886824 0.01530012 1.77E-07 6.751149546 -0.080685339 ALIQTCLNSPDSPPRS(ph)DPTTDQR ddPTM_HeLa_SAHA_4h_R1 1 ALIQTCLNSPDSPPRSDPTTDQR 23 1 P11831 P11831 SRF Serum response factor 1 0 ALIQTCLNSPDS(0.004)PPRS(0.813)DPT(0.091)T(0.091)DQR 109.37 3.37E-05 43725000 715.67 452.89 522.65 521.18 667.43 722.33 669.83 639.78 634.32 686.16 TRUE FALSE FALSE 790.9474542 467.5639332 593.8740202 531.2681925 616.2916576 660.7834203 594.4589655 623.415354 629.9057155 715.7437156 1.105070763 0.653256079 0.829729982 0.742260366 0.861050742 0.923212326 0.830547237 0.871003601 0.880071598 1 9.483299288 -7.279870777 24.93272522 1.049616755 0.819999288 0.412086105 0.091254992 348.4229868 471321.4839 0.013454348 0.015401248 5.25E-08 7.279870777 -0.229617466 ALIQTCLNSPDSPPRSDPTT(ph)DQR ddPTM_HeLa_SAHA_4h_R1 1 ALIQTCLNSPDSPPRSDPTTDQR 23 1 P11831 P11831 SRF Serum response factor 1 0 ALIQTCLNSPDS(0.066)PPRS(0.294)DPT(0.266)T(0.374)DQR 78.708 0.00077527 46602000 547.56 567.37 572.26 399.41 673.92 584.7 430.69 703.88 554.97 550.85 TRUE FALSE FALSE 605.1548731 585.7531603 650.2446126 407.1411581 622.2843952 534.8802706 382.2276277 685.8757688 551.1079186 574.5998393 1.053176196 1.019410588 1.131647745 0.708564692 1.082987416 0.930874382 0.665206639 1.193658128 0.959116033 1 9.166413779 -6.307944755 24.99956405 1.032494463 0.912384999 0.12908404 0.15102058 590.0851858 317206.7718 0.020693998 0.031610647 4.92E-07 6.307944755 -0.120109464 ALIRDY(ph)EDGILHENET(ph)S(ph)HEMKK ddPTM_HeLa_SAHA_4h_R1 1 ALIRDYEDGILHENETSHEMKK 22 2 Q9UKK3 Q9UKK3 PARP4 Poly [ADP-ribose] polymerase 4 3 0 ALIRDY(1)EDGILHENET(1)S(1)HEMKK 45.436 0.013221 15070000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 ALLELQLEPEELYQTFQR ddPTM_HeLa_SAHA_4h_R1 1 ALLELQLEPEELYQTFQR 18 0 P13639 P13639 EEF2 Elongation factor 2 0 0 108.17 0.0081322 24373000 393.01 361.66 275.59 491.02 378.18 477.39 502.37 338.7 504.98 376.32 FALSE FALSE TRUE 434.348595 373.3780213 313.14597 500.5244021 349.2039301 436.7136863 445.8420054 330.0365444 501.4658031 392.5449969 1.106493774 0.951172539 0.797732674 1.27507523 0.889589558 1.112518793 1.135772992 0.840761052 1.277473429 1 8.616714227 -7.262305331 24.62295859 1.050288724 1.008406071 0.059909267 0.156638521 257.2950656 7316102.291 0.022480752 0.026535001 5.47E-08 7.262305331 -0.041882653 ALLETAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 ALLETASPR 9 0 Q96BT3;H3BMP6;H3BQS6;H3BN05;H3BTS2;H3BQJ0;I3L4F8;H3BUW2;H3BTR4;Q96BT3-3;Q96BT3-2 Q96BT3 CENPT Centromere protein T 1 0 ALLETAS(1)PR;ALLETAS(1)PR;ALLETAS(1)PR ;; 152.69 0.00031348 39265800 6110.8 6100.7 5782.1 7044.2 6317.5 7058.4 6960.8 6502.2 6643.1 6360.7 TRUE FALSE FALSE 6753.561981 6298.366683 6570.054476 7180.550677 5833.454515 6456.984611 6177.552464 6335.883139 6596.870126 6634.940906 1.017878241 0.949272461 0.990220496 1.0822328 0.879202181 0.973178918 0.931063675 0.954926838 0.994262077 1 12.6958679 -5.752506794 24.99924186 1.006801639 0.937096976 0.452684526 0.038221244 131.4039648 367751.9949 0.005200532 0.010276507 1.77E-06 5.752506794 -0.069704663 ALLFIPR ddPTM_HeLa_SAHA_4h_R1 2 ALLFIPR 7 0 P08238 P08238 HSP90AB1 Heat shock protein HSP 90-beta 0 0 ; ; 119.23 0.0047956 8134000 2475.9 2975.3 4116.1 2618.8 3017.7 2555.4 3626.4 1735.16 1661.47 2117 FALSE FALSE TRUE 2736.326522 3071.701672 4677.020672 2669.490661 2786.484478 2337.665544 3218.347928 1690.77712 1649.907695 2208.27423 1.239124419 1.390996476 2.117952838 1.208858313 1.261838063 1.058593861 1.457404105 0.765655414 0.747148009 1 11.10870363 -4.241018739 22.69700465 1.230490157 0.765653818 0.154277747 0.343898411 2026.710938 2252508.706 0.046079418 2.147907008 5.74E-05 4.241018739 -0.464836339 ALLFVPR ddPTM_HeLa_SAHA_4h_R1 1 ALLFVPR 7 0 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 0 0 152.49 2.30E-06 2506300 559.23 692.45 951.78 597.37 646.99 642.53 917.57 411.9 420.94 690.51 FALSE FALSE TRUE 618.0523772 714.8858343 1081.483622 608.9329602 597.417766 587.7828292 814.3226087 401.3641944 418.0106443 720.2812654 0.858070877 0.992509272 1.50147404 0.845409966 0.829422886 0.816046255 1.130561973 0.557232589 0.58034363 1 9.49241657 ALLQSS(ph)ASR ddPTM_HeLa_SAHA_4h_R1 1 ALLQSSASR 9 0 Q9UQ80;Q9UQ80-2 Q9UQ80 PA2G4 Proliferation-associated protein 2G4 1 0 ALLQS(0.225)S(0.775)AS(0.001)R 110.54 0.0061141 17825000 2925.8 2687.5 2683.6 2883.6 2951.1 2433.3 2996 2219.7 1424.1 2477.6 TRUE FALSE FALSE 3233.549068 2774.576763 3049.307032 2939.416248 2724.987356 2225.969151 2658.882195 2162.923288 1414.189572 2584.421461 1.251169407 1.073577512 1.179879938 1.137359479 1.054389695 0.861302688 1.028811374 0.836908113 0.547197736 1 11.33562565 -5.458757402 4.059388942 1.123385844 0.921992496 0 0.198020649 0.162021927 5.240753291 0.0147945 0.033765234 3.48E-06 5.458757402 -0.201393348 ALLSS(ph)PEGEEK ddPTM_HeLa_SAHA_4h_R1 2 ALLSSPEGEEK 11 0 A0A499FJI4;O75592-2;O75592;H7C3U4 A0A499FJI4 MYCBP2 E3 ubiquitin-protein ligase MYCBP2 1 0 ALLS(0.029)S(0.971)PEGEEK;ALLS(0.07)S(0.93)PEGEEK ; 169.82 0.00010009 8439900 3804 4617.9 3389 4538.8 4250.1 5788.1 4210 4367.2 5458.4 4403.5 TRUE FALSE FALSE 4204.122173 4767.52299 3850.835271 4626.655037 3924.458256 5294.921317 3736.27972 4255.493348 5420.41455 4593.356435 0.915261472 1.037917056 0.83834889 1.007249296 0.854377036 1.152734692 0.813409491 0.926445271 1.180055288 1 12.16533302 -9.51519391 1.184851342 1.000985559 0.941353151 0.119702791 0.112770025 1.324062725 3.236297011 0.066377618 0.014908146 3.05E-10 9.51519391 -0.059632408 ALLVTASQCQQPAENK ddPTM_HeLa_SAHA_4h_R1 1 ALLVTASQCQQPAENK 16 0 Q01518-2;Q01518;Q5T0R7;Q5T0R6;Q5T0R5;Q5T0R4;Q5T0R3;Q5T0R2;Q5T0R1;Q5T0R9 Q01518-2 CAP1 Adenylyl cyclase-associated protein 1;Adenylyl cyclase-associated protein 0 0 308.74 3.77E-126 0 378.21 390.95 283.29 349.96 577.59 515.4 457.41 334.1 482.16 366.45 FALSE FALSE TRUE 417.9918631 403.6170365 321.8952859 356.7339819 533.335179 471.4850204 405.941023 325.5542058 478.8046093 382.2494529 1.093505458 1.055899579 0.842107905 0.933249163 1.395254264 1.233448516 1.061979343 0.851679978 1.252597239 1 8.578370626 ALMDEVVK ddPTM_HeLa_SAHA_4h_R1 2 ALMDEVVK 8 0 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 0 0 ; ; 136.16 0.00050011 6425000 5292 5169.7 4734 5022.1 5467.4 5496.3 5317.5 4808.2 5134.6 4792.1 FALSE FALSE TRUE 5848.636841 5337.201672 5379.124866 5119.310008 5048.488993 5027.984319 4719.160905 4685.213206 5098.867901 4998.710883 1.170029029 1.067715616 1.076102418 1.024126045 1.009958189 1.005856197 0.944075586 0.937284295 1.020036569 1 12.28734037 -5.401818173 0.922671529 1.080748664 0.935480348 0.508372994 0.044870349 0.536408221 0.775206837 0.010709248 0.052376066 3.96E-06 5.401818173 -0.145268316 ALNESK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 ALNESKR 7 1 E9PJ27;G3V167;Q9UGN5-2;Q9UGN5 E9PJ27 PARP2 Poly [ADP-ribose] polymerase 2 0 1 ALNESK(1)R 84.568 0.01547 645950 232.29 147.06 223.22 349.78 313.68 384.66 376.11 146.02 127.14 178.95 FALSE TRUE FALSE 256.723328 151.8248405 253.6392591 356.5504977 289.6459062 351.884804 333.7891129 142.2850198 126.2552224 186.6654103 1.3753128 0.813352834 1.358790891 1.910104808 1.551684941 1.885109852 1.788167998 0.762246308 0.676371815 1 7.544310806 -6.519566733 24.89579289 1.151615053 1.60929003 0.343127899 0.365057545 121.77693 915377.1935 0.051597215 0.073835531 3.02E-07 6.519566733 0.457674978 ALNHSVEDIEPDLLT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 ALNHSVEDIEPDLLTPR 17 0 I3L2K5;Q8IWR0 I3L2K5 ZC3H7A Zinc finger CCCH domain-containing protein 7A 1 0 ALNHSVEDIEPDLLT(1)PR;ALNHSVEDIEPDLLT(1)PR ; 168.4 1.46E-06 16409000 1726.33 1763.94 1723.62 1851.85 2196.1 2309.6 2223.02 2108.09 1989.2 1656.82 TRUE FALSE FALSE 1907.91331 1821.092813 1958.505957 1887.695235 2027.835292 2112.809087 1972.879939 2054.16811 1975.356995 1728.253618 1.103954472 1.053718502 1.133228327 1.092255913 1.173343583 1.222511016 1.141545383 1.188580246 1.142978654 1 10.75509923 -11.20074899 0.025763442 1.37E-11 1.968790101 0.237149274 0.054385901 309.040247 1.029138537 49.13941525 31.24363659 6.30E-12 11.20074899 1.968790101 ALPASET(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 ALPASETPK 9 0 O76021;J3QSV6;O76021-2 O76021 RSL1D1 Ribosomal L1 domain-containing protein 1 1 0 ALPAS(0.002)ET(0.998)PK;ALPAS(0.001)ET(0.999)PK ; 123.62 0.0053714 105460000 10714 11780.9 8715.8 11523.1 14736.2 16229.2 12875.6 10656.5 18251.2 14004.8 TRUE FALSE FALSE 11840.94768 12162.60889 9903.543834 11746.14626 13607.11554 14846.38086 11426.8036 10383.92216 18124.18841 14608.61547 0.81054551 0.832564107 0.677924876 0.804056092 0.931444569 1.016275696 0.782196207 0.710808097 1.24065066 1 13.83453183 -9.167582964 0.865165201 1.002563365 0.824585212 0.426309346 0.121554051 0.618090408 0.816533218 0.070827526 0.019158165 6.80E-10 9.167582964 -0.177978153 ALPFWNEEIVPQIK ddPTM_HeLa_SAHA_4h_R1 1 ALPFWNEEIVPQIK 14 0 P18669;Q8N0Y7;P15259 P18669 PGAM1;PGAM4;PGAM2 Phosphoglycerate mutase 1;Probable phosphoglycerate mutase 4;Phosphoglycerate mutase 2 0 0 144.7 0.00073056 45507000 1905.5 1438.7 1640 1687.4 1566.5 1928.2 1904.1 1921.2 1896.7 1684.2 FALSE FALSE TRUE 2105.929233 1485.314824 1863.490659 1720.062067 1446.475108 1763.906512 1689.845657 1872.058486 1883.50071 1756.814104 1.198720586 0.845459301 1.060721595 0.979080292 0.823351261 1.004037085 0.961880743 1.065598507 1.07211156 1 10.77874583 -7.264942726 24.99312563 1.093840275 0.963440668 0.310453847 0.086958369 305.0026588 2175906.464 0.017011069 0.019873764 5.43E-08 7.264942726 -0.130399607 ALPGQLKPFETLLSQNQGGK ddPTM_HeLa_SAHA_4h_R1 2 ALPGQLKPFETLLSQNQGGK 20 1 P09211;A0A087X243 P09211 GSTP1 Glutathione S-transferase P 0 0 ; ; 247.44 3.23E-62 5762500 1004.2 666.58 892.656 971.11 927.53 641.25 992.18 535.3 721.53 779.75 FALSE FALSE TRUE 1109.826363 688.1776294 1014.302511 989.9072383 856.4628518 586.6118924 880.5372951 521.6078011 716.508814 813.3688385 1.364481046 0.846083101 1.247038813 1.217045935 1.05298213 0.721212646 1.082580563 0.641293072 0.880915004 1 9.66776591 -5.460207558 4.930422613 1.15751478 0.843862518 0.25946327 0.191379212 0.178826241 8.69237501 0.026830182 0.060463089 3.47E-06 5.460207558 -0.313652262 ALPLIVGAQLIHADK ddPTM_HeLa_SAHA_4h_R1 1 ALPLIVGAQLIHADK 15 0 Q5SSJ5;B0QZK9;B0QZK8;Q5SSJ5-5 Q5SSJ5 HP1BP3 Heterochromatin protein 1-binding protein 3 0 0 75.102 0.01747 0 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 ALPNNTSSS(ph)PQPK ddPTM_HeLa_SAHA_4h_R1 2 ALPNNTSSSPQPK 13 0 A0A087WXZ1;A0A087WT22;E7ESS1;A0A087X1Q1;J3KP33;A0A087WZU8;A0A0U1RQC9;P04637-8;P04637-9;P04637-7;P04637-5;P04637-6;P04637-2;P04637-3;P04637-4;P04637 A0A087WXZ1 TP53 Cellular tumor antigen p53 1 0 ALPNNT(0.006)S(0.021)S(0.082)S(0.891)PQPK;ALPNNT(0.01)S(0.05)S(0.193)S(0.747)PQPK ; 187.63 2.69E-07 10492400 2995.6 3549.3 2882.4 3922.3 3439.8 4144.4 4525.4 4381.9 3200.2 2434.6 TRUE FALSE FALSE 3310.690952 3664.299649 3275.198461 3998.221788 3176.243267 3791.273804 4016.190082 4269.817343 3177.929548 2539.567521 1.303643603 1.442883333 1.289667801 1.57437113 1.250702429 1.492881671 1.581446466 1.681316724 1.251366432 1 11.31036712 -8.828622972 0.069760203 2.18E-12 2.33775849 0.588620966 0.124541307 15.69461492 0.361034004 7.407720576 4.693252783 1.48E-09 8.828622972 2.33775849 ALPPLPRPPT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 ALPPLPRPPTPK 12 1 Q8N6T7-2;Q8N6T7;M0QZ09 Q8N6T7-2 SIRT6 NAD-dependent protein deacetylase sirtuin-6 1 0 ALPPLPRPPT(1)PK 82.651 0.020923 9621000 6441.8 6425.5 6262.9 7080.8 7012.9 7976.8 7972 7749 7397.3 6820.5 TRUE FALSE FALSE 7119.37808 6633.690416 7116.375396 7217.859123 6475.573117 7297.131764 7074.969579 7550.7918 7345.821587 7114.565134 1.000676492 0.932409823 1.000254445 1.014518665 0.910185373 1.025660968 0.994434578 1.061314593 1.032504651 1 12.79655986 -3.938143111 1.725001997 0.991395076 1.150966235 0.248641548 0.03705372 2.67947577 3.779379092 0.004733564 0.922134768 0.000115307 3.938143111 0.159571159 ALPQT(ph)PRPR ddPTM_HeLa_SAHA_4h_R1 3 ALPQTPRPR 9 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 ALPQT(1)PRPR;ALPQT(1)PRPR;ALPQT(1)PRPR ;; 111.5 0.0063467 1518814000 2682.84 2385.08 2248.34 2756.8 3109.96 2782.79 2861.95 2771.52 2271.09 2662.28 TRUE FALSE FALSE 2965.033421 2462.358157 2554.732066 2810.16185 2871.675537 2545.680636 2539.915854 2700.628532 2255.2853 2777.06392 1.067686415 0.886676803 0.919939958 1.011918318 1.034068937 0.916680606 0.914604751 0.972476187 0.812111412 1 11.43934467 -7.27532993 24.99115227 1.031963029 0.952550354 0 0.083263845 657.0106443 1182057.15 0.008760607 0.01004475 5.30E-08 7.27532993 -0.079412675 ALPSLNTGS(ph)SSPR ddPTM_HeLa_SAHA_4h_R1 1 ALPSLNTGSSSPR 13 0 O14545 O14545 TRAFD1 TRAF-type zinc finger domain-containing protein 1 1 0 ALPSLNT(0.028)GS(0.615)S(0.178)S(0.178)PR 97.223 0.0068299 80972000 3739.1 3549.9 4709 4542 4564.2 4514.9 4907 4860.4 4226.8 3500.2 TRUE FALSE FALSE 4132.395694 3664.919089 5350.717997 4629.916978 4214.491982 4130.20512 4354.851445 4736.078006 4197.385355 3651.110752 1.131818774 1.003781955 1.46550416 1.268084507 1.154304065 1.131218799 1.192747014 1.297160872 1.149618744 1 11.83411972 -7.806052026 0.694018336 1.021324572 1.227270052 0.194646329 0.11800051 0.502761965 0.539635021 0.03888279 0.031381987 1.56E-08 7.806052026 0.20594548 ALPSLNTGSS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 2 ALPSLNTGSSSPR 13 0 O14545 O14545 TRAFD1 TRAF-type zinc finger domain-containing protein 1 1 0 ALPSLNT(0.005)GS(0.137)S(0.429)S(0.429)PR;ALPSLNT(0.016)GS(0.196)S(0.394)S(0.394)PR ; 99.161 0.0059086 82732700 4072.13 3494.48 4465.34 5347.51 4799.66 5487.6 5659.3 5132.32 4125.89 3808.83 TRUE FALSE FALSE 4500.455317 3607.703445 5073.853281 5451.018789 4431.911088 5020.025608 5022.50067 5001.042686 4097.177596 3973.047301 1.132746473 0.908044423 1.27706843 1.371999469 1.115494166 1.263520222 1.264143185 1.258742297 1.031243095 1 11.95603025 -6.736690436 24.99981199 1.052839235 1.257639174 0.675486999 0.08021734 121.3625335 122592.4652 0.013304733 0.018810916 1.83E-07 6.736690436 0.204799939 ALPSLNTGSSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 ALPSLNTGSSSPR 13 0 O14545 O14545 TRAFD1 TRAF-type zinc finger domain-containing protein 1 1 0 ALPSLNT(0.001)GS(0.031)S(0.104)S(0.864)PR;ALPSLNTGS(0.003)S(0.096)S(0.901)PR ; 154.23 0.00011466 583870000 4341.7 3999.6 4200.1 4676.5 5084.6 5502.8 5740.7 5242.8 4345.1 3556.3 TRUE FALSE FALSE 4798.379926 4129.189664 4772.467755 4767.02042 4695.019046 5033.930482 5094.741327 5108.696767 4314.862095 3709.629497 1.293493038 1.113100289 1.286507927 1.285039496 1.26563018 1.356990095 1.373382795 1.377144745 1.163151765 1 11.85705939 -13.2604708 0.144803233 1.39E-12 1.415747148 0.607678664 0.073124385 20.74153879 0.222102407 6.010178587 0.160245233 5.49E-14 13.2604708 1.415747148 ALPSMDK(ac)YAVFK ddPTM_HeLa_SAHA_4h_R1 1 ALPSMDKYAVFK 12 1 Q9UMZ2-6;Q9UMZ2-9;Q9UMZ2-4;Q9UMZ2-8;Q9UMZ2-3;Q9UMZ2-7;Q9UMZ2-5;Q9UMZ2 Q9UMZ2-6 SYNRG Synergin gamma 0 1 ALPSMDK(1)YAVFK 153.95 1.05E-06 620950 184.69 159.91 271.16 184.66 273.94 159.41 291.16 197.49 0 133.78 FALSE TRUE FALSE 204.1165416 165.0911889 308.1122727 188.2343613 252.9507764 145.8273712 258.3979105 192.4384918 0 139.5479105 1.462698659 1.183043073 2.207931825 1.348886993 1.812644671 1.044998601 1.851678822 1.379013781 0 1 7.124616712 -8.754796151 0.577617894 0.974599142 1.566519623 0.358102311 0.458628013 0.844458986 0.522807009 0.247800619 0.07647932 1.76E-09 8.754796151 0.591920482 ALQASALK ddPTM_HeLa_SAHA_4h_R1 1 ALQASALK 8 0 P04075;H3BQN4;J3KPS3;P04075-2;H3BR68 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 103.74 0.012527 1153400 532.81 613.64 1884.7 803.85 963.64 37.114 1275.5 214.67 148.97 297.65 FALSE FALSE TRUE 588.8534004 633.5223386 2141.537101 819.4096791 889.8061114 33.9516784 1131.977383 209.1790522 147.9333056 310.4831482 1.896571211 2.040440334 6.897434252 2.639143812 2.865875706 0.109351115 3.645857721 0.673721113 0.476461626 1 8.278371156 -4.673927207 18.33305864 1.982671969 2.158295098 0 1.911491002 50.46107659 10517.95246 0.265319154 0.992747913 2.12E-05 4.673927207 0.175623128 ALQASALK(ac)AWGGKK ddPTM_HeLa_SAHA_4h_R1 1 ALQASALKAWGGKK 14 2 P04075;H3BQN4;J3KPS3;P04075-2;H3BR68 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 1 ALQASALK(1)AWGGKK 138.55 0.00013102 1206400 435.19 263.57 321.75 562.19 535.67 266.55 573.12 491.54 357.91 435.47 FALSE TRUE FALSE 480.9652809 272.1098409 365.5964144 573.0720004 494.6270803 243.8384404 508.6310292 478.9671185 355.4192752 454.2452428 1.058822934 0.599037294 0.804843683 1.261591639 1.088898757 0.536799106 1.119727806 1.054424072 0.78243918 1 8.827327595 ALQATVGNSYK ddPTM_HeLa_SAHA_4h_R1 1 ALQATVGNSYK 11 0 P11279;P11279-2 P11279 LAMP1 Lysosome-associated membrane glycoprotein 1 0 0 108.9 0.0033798 0 199.14 330.8 463.13 524.84 982.34 880.38 1303.2 1013.9 258.82 277.05 FALSE FALSE TRUE 220.0864589 341.518137 526.2429445 534.9990371 907.0733214 805.3666711 1156.560506 987.9659061 257.0188505 288.9949813 0.761558065 1.181744179 1.820941464 1.851239889 3.138716517 2.78678428 4.002008965 3.418626516 0.889354027 1 8.174900629 -5.898810824 0.827402773 0.874208771 3.71440305 0.927458715 0.299371971 0.105034407 0.135667134 0.051531982 0.162787428 1.26E-06 5.898810824 2.840194279 up ALQESATGQPEPTS(ph)SPDNKPFK ddPTM_HeLa_SAHA_4h_R1 2 ALQESATGQPEPTSSPDNKPFK 22 1 Q15911;Q15911-2 Q15911 ZFHX3 Zinc finger homeobox protein 3 1 0 ALQESATGQPEPT(0.003)S(0.653)S(0.344)PDNKPFK;ALQESATGQPEPT(0.032)S(0.484)S(0.484)PDNKPFK ; 105.73 7.79E-05 7010700 1189.04 1212.67 1215.77 906.28 1048.64 1121.82 1357.82 1154.13 1044.32 1344.33 TRUE FALSE FALSE 1314.108683 1251.961304 1381.448804 923.8223599 968.2934297 1026.234625 1205.03452 1124.609026 1037.052492 1402.290645 0.937115773 0.892797301 0.985137289 0.65879521 0.690508371 0.731827334 0.859332924 0.801979981 0.73954176 1 10.45356968 -6.273313602 24.99587528 0.963515573 0.750500005 0.381395818 0.091931029 292.8853048 616538.4447 0.010012515 0.015370602 5.33E-07 6.273313602 -0.213015568 ALQESATGQPEPTSS(ph)PDNKPFK ddPTM_HeLa_SAHA_4h_R1 1 ALQESATGQPEPTSSPDNKPFK 22 1 Q15911;Q15911-2 Q15911 ZFHX3 Zinc finger homeobox protein 3 1 0 ALQES(0.006)AT(0.04)GQPEPT(0.031)S(0.17)S(0.753)PDNKPFK 75.896 0.0009072 5744800 873.96 709.11 708.47 740.74 987.86 1015.8 705.44 814.98 764.29 771.44 TRUE FALSE FALSE 965.8871227 732.0856293 805.016602 755.0780938 912.1703802 929.2481253 626.0620346 794.1339917 758.9712437 804.7005537 1.200306273 0.909761558 1.000392753 0.938334254 1.133552569 1.154775054 0.778006218 0.986868951 0.943172265 1 9.652308215 -7.252489498 24.97636013 1.094589074 0.988851346 0.009701115 0.120382464 972.6461027 2714358.167 0.020726141 0.025176623 5.59E-08 7.252489498 -0.105737728 ALQEVGSGGTLGLSS(ph)PKS ddPTM_HeLa_SAHA_4h_R1 2 ALQEVGSGGTLGLSSPKS 18 1 A0A0M3HER3 A0A0M3HER3 1 0 ALQEVGSGGTLGLS(0.241)S(0.759)PKS;ALQEVGSGGTLGLS(0.142)S(0.855)PKS(0.003) ; 127.49 0.0005744 2084300 1533.83 1578.06 1355.68 1306.79 1473.55 1580.9 1946.33 1568.11 1639.01 1323.01 TRUE FALSE FALSE 1695.165277 1629.190179 1540.42501 1332.08481 1360.646917 1446.198426 1727.323826 1528.000017 1627.603996 1380.051436 1.228334853 1.180528593 1.116208404 0.965242871 0.985939279 1.047930815 1.25163728 1.107205121 1.179379227 1 10.43050632 -4.772536522 24.98169863 1.09366958 1.179421223 0.136653975 0.091065348 367.4587257 827223.304 0.015653168 0.047604459 1.69E-05 4.772536522 0.085751643 ALQLEEER ddPTM_HeLa_SAHA_4h_R1 1 ALQLEEER 8 0 E7EQR4;P15311 E7EQR4 EZR Ezrin 0 0 124.08 0.017578 31668000 3188.1 2926.8 2554.3 2722.9 3061.3 2899.7 2982.7 3061.2 2725 2388.1 FALSE FALSE TRUE 3523.438986 3021.63024 2902.386702 2775.605667 2826.743855 2652.629247 2647.078746 2982.898937 2706.036503 2491.062678 1.414432088 1.212988443 1.165119901 1.114225544 1.134754208 1.064858492 1.062630326 1.197440339 1.086298039 1 11.28254561 -6.412992928 2.946652257 1.202135848 1.109695432 0.058601721 0.105887212 0.616263776 10.30699403 0.02494297 0.039245048 3.86E-07 6.412992928 -0.092440416 ALQLSNS(ph)PGASSAFLK ddPTM_HeLa_SAHA_4h_R1 1 ALQLSNSPGASSAFLK 16 0 Q12802-2;Q12802;Q12802-4;H0YMW2 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 ALQLS(0.04)NS(0.954)PGAS(0.006)S(0.001)AFLK 156.17 1.48E-05 21322000 1720.1 2087.7 1845.3 1894.4 2389 2267.5 2091.4 1845 2076.4 1780.7 TRUE FALSE FALSE 1901.02801 2155.34285 2096.767874 1931.068851 2205.955336 2074.296243 1856.070168 1797.807572 2061.950163 1857.474692 1.023447597 1.160361893 1.128827156 1.039620545 1.187609902 1.116729209 0.999243853 0.96787729 1.110082508 1 10.85912684 -7.475898325 14.65616084 1.010340221 1.087740911 0.00406088 0.072350575 4.425009842 1380.213123 0.011545727 0.013095672 3.34E-08 7.475898325 0.077400689 ALQS(ph)PALGLR ddPTM_HeLa_SAHA_4h_R1 2 ALQSPALGLR 10 0 P46940;A0A0J9YXZ5 P46940 IQGAP1 Ras GTPase-activating-like protein IQGAP1 1 0 ALQS(1)PALGLR;ALQS(1)PALGLR ; 85.973 0.021506 14064900 2756.1 3853.8 2581.6 4122.7 3802.5 3777.4 3626.1 3896.1 4312.6 3219 TRUE FALSE FALSE 3045.999243 3978.665649 2933.407004 4202.50082 3511.153271 3455.544269 3218.081685 3796.443403 4282.588265 3357.786843 0.90714491 1.184907153 0.873613228 1.251568672 1.045674855 1.029113648 0.958393679 1.130638596 1.275419931 1 11.71329493 -7.292842673 24.99460588 0.956151763 1.060772868 0 0.144806971 795.0974751 632834.6823 0.016729655 0.019131801 5.10E-08 7.292842673 0.104621105 ALQSGQCAGAALDVFTEEPPRDR ddPTM_HeLa_SAHA_4h_R1 1 ALQSGQCAGAALDVFTEEPPRDR 23 1 A0A286YF22;A0A2C9F2M7;O43175;A0A286YFL2;A0A286YFA2;A0A286YF78 A0A286YF22 PHGDH D-3-phosphoglycerate dehydrogenase 0 0 83.727 0.00073433 2674400 154.92 317.28 368.99 603.71 548.44 643.71 385.46 564.49 458.75 232.03 FALSE FALSE TRUE 171.2151964 327.5600802 419.2740356 615.39568 506.4186457 588.8622866 342.0870263 550.0511632 455.5575214 242.0339488 0.707401574 1.353364194 1.732294323 2.542600668 2.092345508 2.432973926 1.413384478 2.272619878 1.882205053 1 7.919065611 -6.821428763 2.227846287 0.864716087 2.119238682 0.430315261 0.441554956 0.096953235 0.985354666 0.05034166 0.070098217 1.51E-07 6.821428763 1.254522595 ALQT(ph)SPQPPEGPGLPR ddPTM_HeLa_SAHA_4h_R1 1 ALQTSPQPPEGPGLPR 16 0 H7C398;A0A2R8YGT1;F8W9A8;B7WPL9;Q6PFW1-5;Q6PFW1-7;Q6PFW1-4;Q6PFW1-3;Q6PFW1-2;Q6PFW1 H7C398 PPIP5K1 Inositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 1 1 0 ALQT(0.953)S(0.047)PQPPEGPGLPR 148.57 0.00012294 5549300 1115.2 1450.2 1312.2 1391.6 1588.6 1851.5 1617.5 1709.3 1451.5 1264.5 TRUE FALSE FALSE 1232.501853 1497.187432 1491.019782 1418.53643 1466.881811 1693.741784 1435.494643 1665.578581 1441.398893 1319.018783 0.934408113 1.135076657 1.13040072 1.075448241 1.112100775 1.28409224 1.088304929 1.262740608 1.092781173 1 10.36524939 -7.214035469 6.249147969 0.969045274 1.152855257 0.403997878 0.077030049 0.102002133 10.07165147 0.010966425 0.013385088 6.11E-08 7.214035469 0.183809982 ALQTS(ph)PQPPEGPGLPR ddPTM_HeLa_SAHA_4h_R1 1 ALQTSPQPPEGPGLPR 16 0 H7C398;A0A2R8YGT1;F8W9A8;B7WPL9;Q6PFW1-5;Q6PFW1-7;Q6PFW1-4;Q6PFW1-3;Q6PFW1-2;Q6PFW1 H7C398 PPIP5K1 Inositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 1 1 0 ALQT(0.094)S(0.906)PQPPEGPGLPR 97.2 0.0046544 7656100 1786.2 2083.6 2061.1 1879.6 1857.3 2360.5 2012.8 2081.2 2054.3 2071.7 TRUE FALSE FALSE 1974.080711 2151.110007 2341.975974 1915.982376 1714.994075 2159.37212 1786.314447 2027.965918 2040.003959 2161.021126 0.913494407 0.995413687 1.083735807 0.886609739 0.793603568 0.999236932 0.826606656 0.938429474 0.944000008 1 11.07749746 -6.088365 24.99998934 0.970567654 0.886215233 0.331773298 0.067737851 72.96802328 20641.84176 0.010294884 0.017072137 8.16E-07 6.088365 -0.084352422 ALRATFREALSS(ph)LHSRR ddPTM_HeLa_SAHA_4h_R1 1 ALRATFREALSSLHSRR 17 3 G3V262;G3V258;Q8NFM4 G3V262 ADCY4 Adenylate cyclase type 4 1 0 ALRATFREALS(0.127)S(0.52)LHS(0.353)RR 48.391 0.022183 12158000 229.11 173.82 199.55 384.26 393.75 391.78 314.9 384.62 489.83 398.21 TRUE FALSE FALSE 253.208841 179.451882 226.7436348 391.6979079 363.5809601 358.3981399 279.4666232 374.7819773 486.4212331 415.3787819 0.6095854 0.432019857 0.545871972 0.942989688 0.875299789 0.862822454 0.672799467 0.902265579 1.171030525 1 8.698283713 -4.209987699 20.25047576 0.777115866 0.902272528 0.020680249 0.214676337 11719.31244 4611097.435 0.029556452 19.4311279 6.17E-05 4.209987699 0.125156662 ALRPGDLPPS(ph)PDDVKR ddPTM_HeLa_SAHA_4h_R1 1 ALRPGDLPPSPDDVKR 16 2 O75382-3;O75382-2;O75382;A0A1W2PPI7;O75382-4 O75382-3 TRIM3 Tripartite motif-containing protein 3 1 0 ALRPGDLPPS(1)PDDVKR 78.917 0.0096772 3998700 746.87 745.73 648.2 808.4 659.53 919.76 762.18 667.92 773.85 776.68 TRUE FALSE FALSE 825.4292134 769.8921413 736.5333203 824.047751 608.9969539 841.3912736 676.4175005 650.8355735 768.4647148 810.1664758 1.018839014 0.950288816 0.909113549 1.017133855 0.751693599 1.038541212 0.834911738 0.803335602 0.948526924 1 9.662074578 -2.202353001 0.248360278 1.020289492 0.250306178 0.275172957 0.0808394 18.85532308 0.396645689 0.042505536 5.405989535 0.006275481 2.202353001 -0.769983313 ALS(ph)DREEEEEDDEEEEEEVEAAAQR ddPTM_HeLa_SAHA_4h_R1 1 ALSDREEEEEDDEEEEEEVEAAAQR 25 1 Q8N3E9 Q8N3E9 PLCD3 "1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase delta-3" 1 0 ALS(1)DREEEEEDDEEEEEEVEAAAQR 67.552 0.00086534 10966000 195.77 246.57 216.03 127.77 383.98 228.16 346.59 343.06 275.95 160.85 TRUE FALSE FALSE 216.3619868 254.5590298 245.4694434 130.2431731 354.5595354 208.7194844 307.590781 334.2850219 274.0296415 167.7850307 1.289519011 1.517173664 1.462999663 0.776250257 2.113177403 1.243969641 1.833243286 1.992341156 1.633218651 1 7.390470198 -1 0.169678206 0.965900746 4.876003529 0.170711691 0.367728806 40.02108751 0.419875868 0.447944388 39.91657721 0.1 1 3.910102783 ALS(ph)DVTDEEEVQVDPR ddPTM_HeLa_SAHA_4h_R1 1 ALSDVTDEEEVQVDPR 16 0 Q16659 Q16659 MAPK6 Mitogen-activated protein kinase 6 1 0 ALS(0.995)DVT(0.005)DEEEVQVDPR 177.39 3.81E-09 1388300 0 164.08 232.99 255.37 226.72 193.05 232.84 208.83 151.63 0 TRUE FALSE FALSE 0 169.3962997 264.7406638 260.3130556 209.3487626 176.6010539 206.6402304 203.488431 150.5747945 0 0 ALS(ph)EGEEITAAPER ddPTM_HeLa_SAHA_4h_R1 1 ALSEGEEITAAPER 14 0 O43822-2;O43822-3;O43822;O43822-4 O43822-2 C21orf2 Protein C21orf2 1 0 ALS(1)EGEEITAAPER 155.14 3.49E-05 2216600 224.63 152.11 176.69 374.64 223.13 338.98 399.9 130.01 294.73 282.01 TRUE FALSE FALSE 248.257614 157.0384638 200.768393 381.8916989 206.0338276 310.096997 354.9021995 126.6845325 292.6789499 294.1688312 0.843929022 0.533837875 0.682493765 1.298205855 0.700393127 1.054146341 1.206457523 0.430652466 0.994935285 1 8.200500583 -9.121763214 1.156206322 0.991794712 0.859525962 0.048096912 0.26422351 1.363810422 3.524008462 0.123670795 0.045797675 7.56E-10 9.121763214 -0.13226875 ALS(ph)GHSAADR ddPTM_HeLa_SAHA_4h_R1 1 ALSGHSAADR 10 0 A0A0U1RQE4 A0A0U1RQE4 1 0 ALS(0.987)GHS(0.013)AADR 95.483 0.013938 3616200 807.19 1032.4 616.61 1171.6 1142.7 1714.7 1176.9 785.22 1294.3 1277.1 TRUE FALSE FALSE 892.0939477 1065.850437 700.6383996 1194.278012 1055.146573 1568.597913 1044.472115 765.1352094 1285.292861 1332.162031 0.66965874 0.800090689 0.525940827 0.89649606 0.792055732 1.177482826 0.784042849 0.574355965 0.964817215 1 10.37955385 -9.509053143 1.27333629 0.999401981 0.774464614 0.186343727 0.170881391 0.619866172 1.806501391 0.119777287 0.029249273 3.10E-10 9.509053143 -0.224937367 ALS(ph)ISPLSDASLDLQR ddPTM_HeLa_SAHA_4h_R1 2 ALSISPLSDASLDLQR 16 0 P10070 P10070 GLI2 Zinc finger protein GLI2 1 0 ALS(0.739)IS(0.241)PLS(0.005)DAS(0.016)LDLQR;ALS(0.772)IS(0.228)PLSDASLDLQR ; 177.39 3.81E-09 10210400 839.15 1041.37 1196.6 785.83 1071.63 1333.19 1243.87 906.23 866.64 981.64 TRUE FALSE FALSE 927.4156472 1075.111071 1359.666416 801.040876 989.5219409 1219.594712 1103.906474 883.0499488 860.6089817 1023.963304 0.9057118 1.049950781 1.327846819 0.782294514 0.966364651 1.191053143 1.078072299 0.86238437 0.840468577 1 9.999948299 -7.241442144 23.25378623 0.955475016 1.043058904 0.101779246 0.15115839 707.2118931 822380.9212 0.024075573 0.029459334 5.74E-08 7.241442144 0.087583888 ALS(ph)PAELR ddPTM_HeLa_SAHA_4h_R1 1 ALSPAELR 8 0 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;A0A0G2JPP5;Q14160-3;H0YCG0 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 ALS(1)PAELR 94.409 0.014879 8904400 1299.4 1412 1536.2 1545.7 1541.3 1675.3 1838.3 1419.3 1576.7 1460.7 TRUE FALSE FALSE 1436.076854 1457.749726 1745.545336 1575.619259 1423.205927 1532.555015 1631.449646 1382.996361 1565.727616 1523.677925 0.942506832 0.956730883 1.145613063 1.034089444 0.934059556 1.005826093 1.0707313 0.90766975 1.027597493 1 10.57334226 ALS(ph)PEGALRR ddPTM_HeLa_SAHA_4h_R1 1 ALSPEGALRR 10 1 K7EPS7;I3L2Z9;I3L100;I3L2W2;Q96JN8-2;Q96JN8 K7EPS7 NEURL4 Neuralized-like protein 4 1 0 ALS(1)PEGALRR 86.114 0.01123 3534700 1069.4 1234.4 1346.2 1282.7 1493.1 1600.5 1477.3 1875.6 1146.1 1133.5 TRUE FALSE FALSE 1181.884399 1274.39537 1529.653125 1307.528513 1378.699001 1464.128396 1311.070316 1827.624868 1138.124197 1182.370732 0.999588679 1.077830612 1.293717007 1.105853247 1.166046286 1.238298916 1.108848756 1.545729117 0.96257812 1 10.20746675 -1 0.234637703 0.976089536 3.459408358 0.61885159 0.102269966 22.95057609 0.281063988 0.063080572 22.26914765 0.1 1 2.483318821 ALS(ph)PGLEESGLGLLAR ddPTM_HeLa_SAHA_4h_R1 4 ALSPGLEESGLGLLAR 16 0 H9KVB4;O15417-2;O15417 H9KVB4 TNRC18 Trinucleotide repeat-containing gene 18 protein 1 0 ALS(1)PGLEESGLGLLAR;ALS(1)PGLEESGLGLLAR;ALS(1)PGLEESGLGLLAR;ALS(1)PGLEESGLGLLAR ;;; 272.96 4.10E-59 66661200 2674.98 2867.41 2118.08 2596.83 3331.66 3276.84 3212.43 2968.52 3387.93 2818.35 TRUE FALSE FALSE 2956.34667 2960.315965 2406.720912 2647.0954 3076.388931 2997.634797 2850.958922 2892.589557 3364.353119 2939.862861 1.005606999 1.006957163 0.818650742 0.900414586 1.046439605 1.019651235 0.969759154 0.983919895 1.144391177 1 11.52153314 ALS(ph)PLPTR ddPTM_HeLa_SAHA_4h_R1 1 ALSPLPTR 8 0 Q86UU1-3;Q86UU1-2;Q86UU1 Q86UU1-3 PHLDB1 Pleckstrin homology-like domain family B member 1 1 0 ALS(0.99)PLPT(0.01)R 94.409 0.014879 13232000 3267.8 4746 4098.5 2162.4 4028.7 3903 3952.4 2660.5 3559.2 3908.1 TRUE FALSE FALSE 3611.522197 4899.773514 4657.022236 2204.256379 3720.021876 3570.442442 3507.66555 2592.448262 3534.431237 4076.597317 0.885915855 1.201927277 1.142379753 0.540709864 0.91253111 0.875838883 0.860439547 0.635934349 0.867005241 1 11.99314974 -6.277097874 24.9836513 0.981393943 0.784731691 0.421793504 0.14462042 761.5627077 1215096.898 0.022452714 0.034368694 5.28E-07 6.277097874 -0.196662252 ALS(ph)PVIPLIPR ddPTM_HeLa_SAHA_4h_R1 3 ALSPVIPLIPR 11 0 O14686;O14686-3 O14686 KMT2D Histone-lysine N-methyltransferase 2D 1 0 ALS(1)PVIPLIPR;ALS(1)PVIPLIPR;ALS(1)PVIPLIPR ;; 139.32 0.00094282 453148100 4498.69 4517.95 4139.6 4105.6 4719.04 5617.35 4973.99 4850.02 4697.15 3755.53 TRUE FALSE FALSE 4971.882855 4664.334544 4703.72313 4185.069825 4357.468175 5138.720178 4414.303554 4725.963511 4664.462151 3917.449277 1.269163301 1.190656015 1.200710666 1.068315 1.112322807 1.311751554 1.126831068 1.206387927 1.190688589 1 11.93569888 -9.473238644 1.20140354 0.999580296 1.191188151 0 0.08912707 0.316532192 0.814536896 0.05014683 0.012212607 3.36E-10 9.473238644 0.191607856 ALS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 2 ALSPVR 6 0 Q02535 Q02535 ID3 DNA-binding protein inhibitor ID-3 1 0 ALS(1)PVR;ALS(1)PVR ; 104.75 0.018293 33260000 6505.1 8418.6 7108.8 5678.1 5892.3 3833 5276.4 2455.5 2718.9 5757.8 TRUE FALSE FALSE 7189.336264 8691.368164 8077.550243 5788.007836 5440.833247 3506.406836 4682.685585 2392.691866 2699.978954 6006.046936 1.197016331 1.447102937 1.34490295 0.963696737 0.905892562 0.58381276 0.779661837 0.398380481 0.449543432 1 12.55220003 -5.528521417 1.695035439 1.142501834 0.588349903 0.375728642 0.270035641 0.178274203 1.008513075 0.027273195 0.075000183 2.96E-06 5.528521417 -0.554151932 ALS(ph)PVRGCYEAVCCLSER ddPTM_HeLa_SAHA_4h_R1 2 ALSPVRGCYEAVCCLSER 18 1 Q02535 Q02535 ID3 DNA-binding protein inhibitor ID-3 1 0 ALS(0.997)PVRGCY(0.003)EAVCCLSER;ALS(1)PVRGCYEAVCCLSER ; 90.882 0.0017635 36936000 1362.12 795.23 1087.71 970.11 1035.83 930.27 908.43 822.14 683.71 1278.4 TRUE FALSE FALSE 1505.394031 820.9959738 1235.937454 988.8878819 956.4649292 851.0057624 806.2110655 801.1108492 678.9520064 1333.51808 1.128889104 0.615661674 0.92682467 0.74156316 0.717249315 0.638165897 0.604574529 0.600749897 0.509143458 1 10.38102167 -6.682845412 0.822320285 1.060658618 0.628399497 0 0.207427041 0.237507008 0.322149097 0.025149819 0.043084271 2.08E-07 6.682845412 -0.432259121 ALS(ph)PVTSR ddPTM_HeLa_SAHA_4h_R1 3 ALSPVTSR 8 0 Q96L91-4;Q96L91-3;Q96L91-5;Q96L91-2;Q96L91;A0A0A0MR72;A0A0A0MR80 Q96L91-4 EP400 E1A-binding protein p400 1 0 ALS(0.986)PVT(0.014)SR;ALS(1)PVTSR;ALS(0.999)PVTS(0.001)R ;; 117.53 0.0039898 76324500 13659.7 13552.8 11005.3 11620.6 13682 15761.5 12699.6 15607.8 14470.4 13557.3 TRUE FALSE FALSE 15096.48992 13991.91961 12505.04497 11845.53352 12633.68812 14418.53153 11270.60758 15208.57508 14369.69931 14141.82155 1.067506747 0.989400097 0.884259848 0.83762431 0.893356494 1.019566785 0.796970004 1.07543254 1.016113749 1 13.78768034 -6.935121973 4.69911779 1.031819379 0.91271212 0.291431734 0.077942675 0.168079119 7.390034528 0.011939526 0.015737421 1.16E-07 6.935121973 -0.119107258 ALS(ph)SDSILSPAPDAR ddPTM_HeLa_SAHA_4h_R1 3 ALSSDSILSPAPDAR 15 0 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 ALS(0.468)S(0.468)DS(0.063)ILSPAPDAR;ALS(0.942)S(0.052)DS(0.006)ILSPAPDAR;ALS(0.478)S(0.478)DS(0.044)ILSPAPDAR ;; 213.99 1.20E-17 61254000 2547.56 3043.77 2535.31 2471.83 3015.53 3349.35 3459.1 3413.62 3100.12 2894.82 TRUE FALSE FALSE 2815.524049 3142.390145 2880.808843 2519.675844 2784.480743 3063.966537 3069.872964 3326.304543 3078.546013 3019.629857 0.932407011 1.040654085 0.954027142 0.834432021 0.92212651 1.014682819 1.01663883 1.101560357 1.019511052 1 11.560156 -4.480158654 1.607787968 0.960055089 1.11600613 0.372946005 0.056167595 0.575303756 1.911905809 0.008364626 0.122216136 3.31E-05 4.480158654 0.155951042 ALS(ph)TPVVEKR ddPTM_HeLa_SAHA_4h_R1 1 ALSTPVVEKR 10 1 E5RK24;E5RIW4;E5RH41;P29084 E5RK24 GTF2E2 Transcription initiation factor IIE subunit beta 1 0 ALS(0.861)T(0.139)PVVEKR 74.237 0.017053 8758200 5040.1 4781.7 4814.8 5132.8 6018.6 5667.5 5809.6 5640.2 4720.2 5411.1 TRUE FALSE FALSE 5570.240843 4936.630217 5470.93587 5232.152766 5557.456168 5184.597116 5155.888518 5495.931851 4687.351744 5644.399002 0.986861638 0.874606883 0.969268095 0.926963662 0.984596618 0.91853838 0.91345217 0.973696553 0.830443018 1 12.46260426 -7.488087172 23.71488828 0.994203713 0.937773364 0 0.060327715 157.2005694 107153.5451 0.004927602 0.005465229 3.25E-08 7.488087172 -0.056430349 ALS(ph)TTSSSTTNGNR ddPTM_HeLa_SAHA_4h_R1 1 ALSTTSSSTTNGNR 14 0 A0A0A0MT72;Q9BSQ5-4;Q9BSQ5;Q9BSQ5-2;C9JUH3;Q9BSQ5-3 A0A0A0MT72 CCM2 Cerebral cavernous malformations 2 protein 1 0 ALS(0.654)T(0.07)T(0.172)S(0.029)S(0.029)S(0.045)TTNGNR 147.52 9.83E-05 3878600 778.31 949.38 1144.3 741.16 844.64 1156.6 1165.4 884.68 856.41 945.42 TRUE FALSE FALSE 860.1762168 980.1405349 1300.239245 755.5062235 779.9238657 1058.051173 1034.266125 862.0511666 850.4501731 986.181683 0.872228953 0.993874204 1.318458117 0.76609233 0.790852111 1.072876521 1.048758198 0.874130174 0.862366629 1 9.945709647 -9.956571463 2.277067334 1.000621812 0.950552487 0 0.158679321 1.728665988 16.27376609 0.123116292 0.022915986 1.11E-10 9.956571463 -0.050069325 ALSAAVADSLTNS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 ALSAAVADSLTNSPR 15 0 H7C3B5;Q14687-2;Q14687-3;Q14687 H7C3B5 GSE1 Genetic suppressor element 1 1 0 ALSAAVADSLT(0.002)NS(0.998)PR;ALSAAVADS(0.001)LT(0.128)NS(0.871)PR ; 158.91 8.05E-06 34411000 3378.1 3873 3414.6 4059.6 4677.8 4698.5 4729.3 4560.8 4219.7 3888.9 TRUE FALSE FALSE 3733.424057 3998.487741 3879.923906 4138.179428 4319.387975 4298.161367 4197.146717 4444.14134 4190.334764 4056.569511 0.920340215 0.985682047 0.956454436 1.020117964 1.064788355 1.059555705 1.034654209 1.095541769 1.032974969 1 11.98604449 -6.050783149 2.653548511 0.962982564 1.06143237 0.575533073 0.032652877 0.126348686 1.764477844 0.004992442 0.009141581 8.90E-07 6.050783149 0.098449805 ALSAGS(ph)PPVPPGWNPNSSSGK ddPTM_HeLa_SAHA_4h_R1 2 ALSAGSPPVPPGWNPNSSSGK 21 0 P56177 P56177 DLX1 Homeobox protein DLX-1 1 0 ALS(0.006)AGS(0.994)PPVPPGWNPNSSSGK;ALS(0.001)AGS(0.999)PPVPPGWNPNSSSGK ; 153.68 2.51E-06 5964700 1287.85 1235.78 1212.51 937.18 1135.74 1179.33 1411.02 1188.9 1182.77 1403.6 TRUE FALSE FALSE 1423.311972 1275.820083 1377.744548 955.3204741 1048.719847 1078.844449 1252.248316 1158.48966 1174.539007 1464.116065 0.972130561 0.871392722 0.941007739 0.652489578 0.716281907 0.73685719 0.855293064 0.791255343 0.802217143 1 10.51581421 -6.674533111 1.591975922 0.985238516 0.75729703 0.363903626 0.087008906 0.145760594 0.749872243 0.011263976 0.017104851 2.12E-07 6.674533111 -0.227941486 ALSAS(ph)HTDLAH ddPTM_HeLa_SAHA_4h_R1 1 ALSASHTDLAH 11 0 Q07866-6;Q07866-4;Q07866-7;H0YG16;H0YJK1 Q07866-6 KLC1 Kinesin light chain 1 1 0 ALS(0.053)AS(0.733)HT(0.214)DLAH 156.16 0.00029154 53352000 3728.2 4089.7 2958.1 3916.4 4892.7 2528.6 4198.6 4472.7 3602.9 3839.5 TRUE FALSE FALSE 4120.349182 4222.208963 3361.214463 3992.207585 4517.822383 2313.149054 3726.162478 4358.29481 3577.827126 4005.039635 1.028791112 1.054224015 0.839246242 0.996796024 1.128034375 0.577559591 0.93036844 1.088202667 0.893331265 1 11.9676008 -6.247094888 0.912133958 1.014503286 0.90704892 0.000597728 0.150619542 1.108054011 1.821332826 0.026259723 0.058766771 5.66E-07 6.247094888 -0.107454366 ALSASHT(ph)DLAH ddPTM_HeLa_SAHA_4h_R1 2 ALSASHTDLAH 11 0 Q07866-6;Q07866-4;Q07866-7;H0YG16;H0YJK1 Q07866-6 KLC1 Kinesin light chain 1 1 0 ALS(0.005)AS(0.349)HT(0.645)DLAH;ALSAS(0.002)HT(0.998)DLAH ; 191.4 1.20E-06 60009100 4400.3 4220.9 3564.2 4289.3 5058.8 2980.6 4765.6 5213.6 4192.6 4267.4 TRUE FALSE FALSE 4863.143743 4357.659929 4049.910614 4372.325604 4671.195837 2726.636112 4229.362146 5080.243661 4163.423355 4451.388498 1.092500406 0.97894397 0.909808393 0.982238599 1.0493795 0.612536091 0.950122001 1.141271687 0.935308917 1 12.1200397 -7.026427139 5.373487609 1.043567361 0.933723172 0.030826898 0.133736696 0.290290085 24.29131607 0.021419193 0.026979704 9.41E-08 7.026427139 -0.109844189 ALSGGGSVAS(ph)PPPSPAMPK ddPTM_HeLa_SAHA_4h_R1 2 ALSGGGSVASPPPSPAMPK 19 0 O75420 O75420 GIGYF1 PERQ amino acid-rich with GYF domain-containing protein 1 1 0 ALS(0.004)GGGS(0.02)VAS(0.976)PPPSPAMPK;ALSGGGS(0.001)VAS(0.998)PPPS(0.001)PAMPK ; 171.71 5.83E-09 10582200 5986.1 5681.4 6260.5 6485.6 6863.3 7374.8 6734.2 6557.6 7074.5 6368.4 TRUE FALSE FALSE 6615.745463 5865.481088 7113.648337 6611.138166 6337.435437 6746.425551 5976.450093 6389.866087 7025.267978 6642.97289 0.995901319 0.882960263 1.070853134 0.995207759 0.954005916 1.015573247 0.899664983 0.961898565 1.057548795 1 12.69761331 -4.766040213 24.98869506 0.992590211 0.930781771 0.204616015 0.051370841 109.5423272 594977.6609 0.006039102 0.019049345 1.71E-05 4.766040213 -0.06180844 ALSLAR ddPTM_HeLa_SAHA_4h_R1 1 ALSLAR 6 0 P35579;P35579-2;P35749-4;P35749-3;P35749;P35749-2;P35580;P35580-5;P35580-2;P35580-3;P35580-4 P35579;P35749-4;P35580 MYH9;MYH11;MYH10 Myosin-9;Myosin-11;Myosin-10 0 0 124.32 0.019777 11741000 3738.6 3978.1 4128.8 4233.1 3784.4 4246.4 4068 4690.4 4268 3484.5 FALSE FALSE TRUE 4131.843101 4106.99305 4691.451362 4315.037772 3494.44009 3884.58283 3610.257934 4570.42636 4238.298641 3634.733848 1.136766342 1.129929514 1.290727618 1.187167466 0.961401917 1.068739279 0.993266106 1.257430819 1.166054742 1 11.82763401 -9.17150308 0.960188351 1.001332693 1.123291813 0 0.110426426 0.78194611 1.317413033 0.063717165 0.018934824 6.74E-10 9.17150308 0.12195912 ALSQTVPSSGTNGVSLPADCTGAVPAAS(ph)PDTAAWR ddPTM_HeLa_SAHA_4h_R1 1 ALSQTVPSSGTNGVSLPADCTGAVPAASPDTAAWR 35 0 B7Z7F3;Q9H6Z4-3;Q9H6Z4-2;Q9H6Z4;K7EN31 B7Z7F3 RANBP3 Ran-binding protein 3 1 0 ALSQTVPSSGTNGVSLPADCT(0.001)GAVPAAS(0.946)PDT(0.053)AAWR 124.63 1.75E-16 12432000 1513.9 1578.4 1751.6 1721.4 1639.9 1709.4 1722.6 1820 1978.4 1753.7 TRUE FALSE FALSE 1673.138948 1629.541196 1990.298926 1754.720186 1514.251216 1563.749503 1528.768514 1773.447035 1964.632153 1829.310589 0.914628143 0.890795256 1.088004923 0.959224856 0.827771525 0.854829963 0.835707464 0.969461963 1.073974078 1 10.83708433 -5.781814764 21.68849606 0.963670539 0.868132231 0.365217758 0.070573711 44.55061596 47421.7844 0.009482061 0.017214738 1.65E-06 5.781814764 -0.095538308 ALSS(ph)DSILS(ph)PAPDAR ddPTM_HeLa_SAHA_4h_R1 1 ALSSDSILSPAPDAR 15 0 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 2 0 ALS(0.208)S(0.791)DS(0.001)ILS(1)PAPDAR 170.42 1.14E-05 3984700 1151 1222.8 1094.2 903.87 1330.9 1179.6 1461.4 1004.2 1013.1 1062.7 TRUE FALSE FALSE 1272.067461 1262.419522 1243.311878 921.3657109 1228.92673 1079.091444 1296.959426 978.5140181 1006.049755 1108.518198 1.147538636 1.138835181 1.121598076 0.831168774 1.108621159 0.973453973 1.169993807 0.882722557 0.907562687 1 10.11441674 ALSS(ph)DSILSPAPDAR ddPTM_HeLa_SAHA_4h_R1 1 ALSSDSILSPAPDAR 15 0 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 ALS(0.215)S(0.738)DS(0.034)ILS(0.013)PAPDAR 238.65 2.51E-33 31801000 1334.9 1431.5 1074.3 1265.1 1545.9 1377.3 1353.6 1298.8 1385.5 1241 TRUE FALSE FALSE 1475.310907 1477.881539 1220.700009 1289.58784 1427.453476 1259.946292 1201.289366 1265.578577 1375.858193 1294.505583 1.139671335 1.141657138 0.942985511 0.996201064 1.102701676 0.973303096 0.927990872 0.977654012 1.062844541 1 10.33818547 -5.188114341 0.818718502 1.065544402 0.934862309 0.284517121 0.063699307 1.052468548 1.028352781 0.012970472 0.093604246 6.48E-06 5.188114341 -0.130682093 ALSSDS(ph)ILSPAPDAR ddPTM_HeLa_SAHA_4h_R1 2 ALSSDSILSPAPDAR 15 0 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 ALS(0.062)S(0.003)DS(0.92)ILS(0.014)PAPDAR;ALS(0.092)S(0.092)DS(0.815)ILS(0.001)PAPDAR ; 171.11 7.07E-07 26297900 1431.43 1953.72 1606.83 1843.17 1774.36 2161.76 2065.94 1988.37 1745.13 2082.12 TRUE FALSE FALSE 1581.994375 2017.02181 1825.800424 1878.847221 1638.40892 1977.565886 1833.474994 1937.510375 1732.985498 2171.890383 0.728395129 0.928694112 0.840650356 0.865074608 0.754369987 0.910527484 0.844183946 0.892084789 0.797915729 1 11.08473558 -9.601234572 1.405959187 0.999800274 0.831153359 0 0.086625222 0.296389301 1.053305405 0.046736958 0.010854373 2.50E-10 9.601234572 -0.168646914 ALSSDSILS(ph)PAPDAR ddPTM_HeLa_SAHA_4h_R1 2 ALSSDSILSPAPDAR 15 0 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 ALSSDSILS(1)PAPDAR;ALSSDSILS(1)PAPDAR ; 274.38 2.04E-56 46407000 2041.78 2055.93 1969.45 1647.12 3134.8 2669.89 2183.89 2142.9 2300.31 2190.11 TRUE FALSE FALSE 2256.543788 2122.543481 2237.83639 1679.002389 2894.612301 2442.400352 1938.15295 2088.087721 2284.301955 2284.53636 0.987746935 0.929091573 0.979558228 0.734942292 1.267045844 1.069101107 0.848379121 0.914009406 0.999897395 1 11.15768569 -7.082065282 0.005628301 1.957086905 6.24E-05 0.009761924 0.131648191 19607.06493 86.49865517 14979.79646 15091.8686 8.28E-08 7.082065282 -1.957024459 ALSSGGSIT(ph)SPPLS(ph)PALPK ddPTM_HeLa_SAHA_4h_R1 2 ALSSGGSITSPPLSPALPK 19 0 Q6Y7W6;I1E4Y6;Q6Y7W6-4;Q6Y7W6-5;Q6Y7W6-3;E7ESB6;C9JHW1;C9JW88;F8WCD5;C9JPV7;C9JXQ0;C9J0V6;C9JHT0;C9JRZ2 Q6Y7W6 GIGYF2 PERQ amino acid-rich with GYF domain-containing protein 2 2 0 ALSSGGS(0.211)IT(0.631)S(0.161)PPLS(0.997)PALPK;ALS(0.002)S(0.005)GGS(0.071)IT(0.874)S(0.266)PPLS(0.782)PALPK ; 149.47 0.0015141 7329000 2271 2786.9 2186.77 2216.54 2599.4 2803.3 2952.4 2102.78 2392.92 2304.7 TRUE FALSE FALSE 2509.8742 2877.197389 2484.771627 2259.444337 2400.234534 2564.443069 2620.188182 2048.993932 2376.267475 2404.066896 1.044011797 1.196804213 1.033570086 0.93984254 0.998405884 1.066710362 1.0898982 0.85230321 0.988436503 1 11.23126133 -6.48810204 24.74667214 1.038404749 0.998495379 0.113586574 0.081800766 1450.337505 1032042.556 0.012641392 0.019304168 3.25E-07 6.48810204 -0.03990937 ALSSGGSIT(ph)SPPLSPALPK ddPTM_HeLa_SAHA_4h_R1 2 ALSSGGSITSPPLSPALPK 19 0 Q6Y7W6;I1E4Y6;Q6Y7W6-4;Q6Y7W6-5;Q6Y7W6-3;E7ESB6;C9JHW1;C9JW88;F8WCD5;C9JPV7;C9JXQ0;C9J0V6;C9JHT0;C9JRZ2 Q6Y7W6 GIGYF2 PERQ amino acid-rich with GYF domain-containing protein 2 1 0 ALSSGGS(0.007)IT(0.491)S(0.491)PPLS(0.01)PALPK;ALSSGGS(0.001)IT(0.897)S(0.102)PPLSPALPK ; 185.63 1.94E-13 145033000 6880.1 7449.2 6704.4 7664.7 8154.6 8578.7 8545.9 8026.2 7930.7 6717.7 TRUE FALSE FALSE 7603.780485 7690.558968 7618.040717 7813.061352 7529.79631 7847.746498 7584.29284 7820.901426 7875.509613 7007.332923 1.085117629 1.097501582 1.087152673 1.114983609 1.074559521 1.119933445 1.082336593 1.116102448 1.123895454 1 12.77464973 -9.05945232 0.471434898 0.981247163 1.102204689 0 0.041096526 0.333807387 0.112211388 0.018897124 0.003684456 8.72E-10 9.05945232 0.120957526 ALSSGGSITS(ph)PPLS(ph)PALPK ddPTM_HeLa_SAHA_4h_R1 1 ALSSGGSITSPPLSPALPK 19 0 Q6Y7W6;I1E4Y6;Q6Y7W6-4;Q6Y7W6-5;Q6Y7W6-3;E7ESB6;C9JHW1;C9JW88;F8WCD5;C9JPV7;C9JXQ0;C9J0V6;C9JHT0;C9JRZ2 Q6Y7W6 GIGYF2 PERQ amino acid-rich with GYF domain-containing protein 2 2 0 ALSSGGS(0.002)IT(0.164)S(0.834)PPLS(1)PALPK 117.18 0.00013042 0 216.12 239.84 387.26 306.76 323.38 266.32 224.77 257.58 468.21 139.65 TRUE FALSE FALSE 238.8524932 247.6109734 440.033776 312.6977834 298.6026943 243.6280377 199.478288 250.9914766 464.9516885 145.6709949 1.639670913 1.699795992 3.020737081 2.146602922 2.049843172 1.672453997 1.369375476 1.723002419 3.191793182 1 7.186569836 -8.211052451 0.897275192 1.09836103 1.951121444 0 0.783441142 0.392843892 0.671240907 0.152187761 0.101675507 6.15E-09 8.211052451 0.852760414 ALSSLHGDDQDS(ph)EDEVLTIPEVK ddPTM_HeLa_SAHA_4h_R1 2 ALSSLHGDDQDSEDEVLTIPEVK 23 0 P11717 P11717 IGF2R Cation-independent mannose-6-phosphate receptor 1 0 ALSSLHGDDQDS(1)EDEVLTIPEVK;ALSSLHGDDQDS(1)EDEVLTIPEVK ; 127.49 3.35E-06 118898000 1326.52 3184.6 1332.18 2384.1 4004.8 6044.2 3042.2 3636.4 1918.15 2817.5 TRUE FALSE FALSE 1466.04946 3287.783129 1513.722553 2430.247703 3697.953089 5529.200156 2699.883649 3543.386153 1904.801438 2938.976214 0.498829985 1.118683137 0.515050971 0.826902815 1.258245328 1.881335456 0.91864767 1.205653226 0.648117337 1 11.52109797 -5.754617573 4.754105071 0.769051204 1.33469889 0.470377717 0.286046055 0.13754607 7.970753674 0.044583499 0.087307181 1.76E-06 5.754617573 0.565647686 ALSSSK(ac)QSSSSR ddPTM_HeLa_SAHA_4h_R1 2 ALSSSKQSSSSR 12 1 P53999;D6RC37;D6R970 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 0 1 ; ALSSSK(1)QSSSSR;ALSSSK(1)QSSSSR 322.27 1.43E-157 9393600 561.36 692.4 506.14 762.34 895.12 1087.29 1114.16 494.55 663.63 567.16 FALSE TRUE FALSE 620.4064204 714.8342143 575.1141233 777.0961931 826.536099 994.6467751 988.7917845 481.9001271 659.0117448 591.6130432 1.048669274 1.208280011 0.972111974 1.313521062 1.397089041 1.681245514 1.671348859 0.814552912 1.113923623 1 9.208510049 -6.096168617 3.091835032 1.036638043 1.429136722 0.294319726 0.23333172 0.197728742 3.635738637 0.033566677 0.059243672 8.01E-07 6.096168617 0.392498678 ALSSSK(ac)QSSSSRDDNMFQIGK ddPTM_HeLa_SAHA_4h_R1 3 ALSSSKQSSSSRDDNMFQIGK 21 2 P53999 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 0 1 ;; ALSSSK(1)QSSSSRDDNMFQIGK;ALSSSK(1)QSSSSRDDNMFQIGK;ALSSSK(1)QSSSSRDDNMFQIGK 233.57 8.67E-50 5721600 1476.51 977.7 1308.199 1386.52 1759.9 1898.62 1937.17 1959.74 1106.82 1377.94 FALSE TRUE FALSE 1631.816096 1009.378121 1486.473547 1413.3581 1625.056842 1736.846895 1719.194533 1909.612688 1099.11755 1437.349737 1.135295088 0.702249491 1.034176658 0.983308421 1.130592507 1.20836763 1.196086442 1.328565094 0.764683446 1 10.48919543 -5.318214258 1.765508399 1.027845109 1.259836729 0.423844248 0.141455656 0.302088388 1.793701802 0.018478225 0.059071443 4.81E-06 5.318214258 0.23199162 ALSTGEK(ac)GFGYK ddPTM_HeLa_SAHA_4h_R1 2 ALSTGEKGFGYK 12 1 P62937;F8WE65;C9J5S7 P62937 PPIA "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed;Peptidyl-prolyl cis-trans isomerase" 0 1 ; ALSTGEK(1)GFGYK;ALSTGEK(1)GFGYK 196.11 1.81E-23 15559300 3760.8 3980.6 4074.8 3933.6 4438.1 4787.9 4737.2 4310.4 4264 4051.3 FALSE TRUE FALSE 4156.378199 4109.574052 4630.092523 4009.740516 4098.053737 4379.943984 4204.157788 4200.146209 4234.326477 4225.97137 0.98353203 0.972456671 1.095627991 0.948832864 0.969730596 1.036434846 0.994838209 0.993888941 1.001977086 1 12.04506728 -5.276328041 24.74997318 0.993854587 1.007032426 0.018715044 0.038497881 2489.807294 4138890.126 0.005242293 0.01176584 5.29E-06 5.276328041 0.013177839 ALSTGLDYS(ph)PPSAPR ddPTM_HeLa_SAHA_4h_R1 1 ALSTGLDYSPPSAPR 15 0 P54253 P54253 ATXN1 Ataxin-1 1 0 ALST(0.002)GLDY(0.003)S(0.988)PPS(0.008)APR 80.507 0.014856 6834800 639.33 832.04 965.48 1448.5 1002.5 771.71 913.58 1401.7 1506.1 713.2 TRUE FALSE FALSE 706.5776628 858.9986419 1097.050586 1476.537812 925.6886666 705.9559665 810.781574 1365.846544 1495.618927 743.9495423 0.949765572 1.154646375 1.474630367 1.984728437 1.244289584 0.948929902 1.089834092 1.835939759 2.010376837 1 9.539060965 -6.964606211 3.74525353 0.978008975 1.407684291 0 0.439067787 0.212354356 6.393809799 0.050115267 0.065570565 1.08E-07 6.964606211 0.429675316 ALSTGLDYSPPS(ph)APR ddPTM_HeLa_SAHA_4h_R1 1 ALSTGLDYSPPSAPR 15 0 P54253 P54253 ATXN1 Ataxin-1 1 0 ALSTGLDY(0.001)S(0.071)PPS(0.928)APR 88.78 0.0088681 6685900 491.97 459.06 452.31 668.76 498.08 669.1 538.04 584.37 723.46 549.07 TRUE FALSE FALSE 543.7176618 473.9338452 513.9484513 681.7048168 459.917218 612.0889157 477.4983232 569.4226616 718.425383 572.7430948 0.949322073 0.827480679 0.897345522 1.19024537 0.803007879 1.068697155 0.833704199 0.994202578 1.254358873 1 9.16174435 -7.052880501 0.006962719 1.915298625 2.01E-07 0.044375053 0.142225776 8795.165591 46.90482494 6416.811365 6482.535685 8.85E-08 7.052880501 -1.915298424 ALSTTSSS(ph)TTNGNR ddPTM_HeLa_SAHA_4h_R1 1 ALSTTSSSTTNGNR 14 0 A0A0A0MT72;Q9BSQ5-4;Q9BSQ5;Q9BSQ5-2;C9JUH3;Q9BSQ5-3 A0A0A0MT72 CCM2 Cerebral cavernous malformations 2 protein 1 0 ALST(0.01)T(0.063)S(0.053)S(0.085)S(0.727)T(0.008)T(0.053)NGNR 91.858 0.0057669 0 559.15 588.94 565.76 601.84 580.84 590.45 775.17 776.68 797.68 766.71 TRUE FALSE FALSE 617.9639625 608.0220424 642.8588264 613.4894835 536.3361647 540.1403382 687.9458315 756.8136502 792.1288799 799.7666203 0.772680363 0.760249336 0.803808024 0.767085632 0.670615841 0.675372446 0.860183226 0.94629312 0.990450039 1 9.643435259 -9.130132515 0.727925718 1.012291176 0.775162703 0.548369668 0.076889546 0.502362937 0.446475527 0.070640334 0.017024075 7.41E-10 9.130132515 -0.237128473 ALSYAS(ph)LDKEDLLSPINQNTLQR ddPTM_HeLa_SAHA_4h_R1 1 ALSYASLDKEDLLSPINQNTLQR 23 1 Q6R327-3;Q6R327 Q6R327-3 RICTOR Rapamycin-insensitive companion of mTOR 1 0 ALS(0.011)Y(0.01)AS(0.978)LDKEDLLSPINQNTLQR 93.255 0.00010121 33550000 948.02 994.34 831.38 847.29 966.9 1185.6 969.2 939.01 940.32 886.29 TRUE FALSE FALSE 1047.737093 1026.557268 944.6761368 863.6905232 892.8163309 1084.58021 860.1430652 914.9914839 933.7762366 924.5022993 1.133298526 1.110389092 1.021821295 0.934222147 0.965726458 1.173150365 0.930384993 0.989712502 1.010031275 1 9.852533097 -6.541788383 17.55240909 1.06816123 1.00024487 0.145181059 0.073816847 11.99233869 11130.48163 0.012688264 0.01795578 2.87E-07 6.541788383 -0.06791636 ALT(ph)TPTHYK ddPTM_HeLa_SAHA_4h_R1 2 ALTTPTHYK 9 0 P52948-6;P52948-2;P52948-5;P52948;A0A3B3ITD8;P52948-4;P52948-3;H0YEN4;H0YCR0 P52948-6 NUP98 Nuclear pore complex protein Nup98-Nup96;Nuclear pore complex protein Nup98;Nuclear pore complex protein Nup96 1 0 ALT(0.997)T(0.003)PTHYK;ALT(0.955)T(0.045)PTHYK ; 121.61 0.0038396 41910000 11018.2 11030.5 10618.1 13142.8 13176.2 13023.6 13661 12703.7 11511 10273.5 TRUE FALSE FALSE 12177.14483 11387.89544 12065.07937 13397.1979 12166.6424 11913.91601 12123.82833 12378.75775 11430.89401 10716.44086 1.136304953 1.062656491 1.125847614 1.250153672 1.135324924 1.111741871 1.131329747 1.155118374 1.066668884 1 13.38753822 -9.499883909 0.407134845 0.944176447 1.148822752 0.423370939 0.047649797 1.472897684 0.279227144 0.13258561 0.014899234 3.16E-10 9.499883909 0.204646304 ALTDDS(ph)DENEEEDAFTDQK ddPTM_HeLa_SAHA_4h_R1 2 ALTDDSDENEEEDAFTDQK 19 0 A0A2R8Y549;Q8NI35-4;Q8NI35-3;Q8NI35-2;Q8NI35;A0A0U1RRD7;A0A0U1RQW4;Q8NI35-5 A0A2R8Y549;Q8NI35-5 INADL InaD-like protein 1 0 ALT(0.007)DDS(0.993)DENEEEDAFTDQK;ALT(0.016)DDS(0.984)DENEEEDAFTDQK ; 133.98 2.82E-05 2385500 1762.94 1977.97 1729.16 1714.48 2039.33 2282.47 2067.7 1912.13 2032.83 1915.57 TRUE FALSE FALSE 1948.374118 2042.057526 1964.80092 1747.66624 1883.076976 2087.990715 1835.036954 1863.220483 2018.683371 1998.159597 0.975084333 1.02196918 0.983305299 0.874637963 0.942405691 1.044956928 0.918363556 0.9324683 1.010271338 1 10.9644561 -6.494981273 24.90851832 0.991016672 0.945108336 0.299986701 0.041810899 816.3053258 728845.8923 0.006381753 0.009734712 3.20E-07 6.494981273 -0.045908336 ALTGGIAHLFK(ac)QNK ddPTM_HeLa_SAHA_4h_R1 2 ALTGGIAHLFKQNK 14 1 E9PEX6;P09622-2;P09622-3;P09622 E9PEX6 DLD "Dihydrolipoyl dehydrogenase;Dihydrolipoyl dehydrogenase, mitochondrial" 0 1 ; ALTGGIAHLFK(1)QNK;ALTGGIAHLFK(1)QNK 196.27 3.04E-23 4161400 3990.3 5879.5 7251.2 4671.9 6025.4 2316.38 7688.6 1523.58 1029.79 3275.51 FALSE TRUE FALSE 4410.018062 6069.999658 8239.355773 4762.33138 5563.735154 2119.011392 6823.458493 1484.60903 1022.623608 3416.733266 1.290711835 1.776550636 2.411471757 1.393825918 1.628378548 0.620186367 1.997070875 0.434511246 0.299298636 1 11.73840191 -5.316054132 24.99979 1.335487245 1.115228414 0.05720474 0.6415451 1030.926675 471902.9818 0.082842363 0.185241233 4.83E-06 5.316054132 -0.220258831 ALTHNGT(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 ALTHNGTPR 9 0 Q9HB90 Q9HB90 RRAGC Ras-related GTP-binding protein C 1 0 ALTHNGT(1)PR;ALTHNGT(1)PR;ALTHNGT(1)PR;ALTHNGT(1)PR ;;; 134.49 0.0027884 18499500 5489.3 4971.83 5808.8 7883 5955.8 7487.2 8424 7159.7 5853.12 7680.9 TRUE FALSE FALSE 6066.68976 5132.920554 6600.393013 8035.586864 5499.467891 6849.248438 7476.109349 6976.565241 5812.387661 8012.061188 0.757194637 0.640649195 0.823807115 1.002936283 0.686398638 0.854867215 0.933106871 0.870757858 0.725454727 1 12.96795772 -9.393533252 1.169822532 0.998048926 0.816766496 0 0.132054472 0.480173434 1.194630088 0.068504453 0.01829378 4.04E-10 9.393533252 -0.18128243 ALTVPELTQQMFDAK ddPTM_HeLa_SAHA_4h_R1 1 ALTVPELTQQMFDAK 15 0 P68371;A0A0B4J269;Q13509;Q13509-2;P04350 P68371;A0A0B4J269;P04350 TUBB4B;TUBB3;TUBB4A Tubulin beta-4B chain;Tubulin beta-3 chain;Tubulin beta-4A chain 0 0 189.99 1.39E-16 1268200 494.23 482.1 447.83 413.07 404.16 449.17 613.95 396.64 521.58 319.94 FALSE FALSE TRUE 546.215379 497.7203563 508.8579402 421.0655672 373.1933481 410.898189 544.8667302 386.4945231 517.9502823 333.7341791 1.63667797 1.491367644 1.524740263 1.261679485 1.118235324 1.231213986 1.632636884 1.158090922 1.551984527 1 8.382555636 -9.557145727 1.352332569 1.001733057 1.413459568 0 0.246484963 0.364344619 1.201924652 0.134972407 0.032426577 2.77E-10 9.557145727 0.411726511 ALTVPELTQQVFDAK ddPTM_HeLa_SAHA_4h_R1 4 ALTVPELTQQVFDAK 15 0 P07437;Q5JP53;Q5ST81 P07437 TUBB Tubulin beta chain 0 0 ;;; ;;; 174.9 8.57E-11 252050680 4208.76 4128.84 3248.18 3537.73 4074.86 4047.23 3646.24 4222.74 3817.59 3758.14 FALSE FALSE TRUE 4651.456687 4262.617125 3690.825055 3606.20788 3762.645107 3702.383235 3235.955479 4114.728425 3791.02308 3920.171807 1.186544089 1.087354671 0.941495739 0.919910672 0.959816378 0.944444126 0.825462668 1.049629615 0.96705534 1 11.93670117 -6.757791384 6.58890364 1.09068423 0.934667548 0.343699136 0.076675707 0.100503479 19.53850365 0.013221991 0.018142292 1.75E-07 6.757791384 -0.156016683 ALVADSHPESER ddPTM_HeLa_SAHA_4h_R1 2 ALVADSHPESER 12 0 A0A087WUZ3;Q01082;Q01082-2;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 0 0 ; ; 151.55 0.00036533 8404900 4567.6 4581.7 3572.2 4832.6 5080 5423.3 5226.7 5551.4 4756.2 4416.6 FALSE FALSE TRUE 5048.041125 4730.150086 4059.000813 4926.141961 4690.771497 4961.204329 4638.57796 5409.403226 4723.101217 4607.02124 1.095727773 1.026726346 0.88104669 1.069268342 1.01817883 1.076878979 1.006849701 1.174165029 1.025196319 1 12.16961853 -4.254480693 24.34120386 1.033867429 1.174165124 0.375459873 0.057038037 539.1803268 1885959.701 0.008415525 0.111615319 5.57E-05 4.254480693 0.140297694 ALVAT(ph)PGKK ddPTM_HeLa_SAHA_4h_R1 1 ALVATPGKK 9 1 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 1 0 ALVAT(1)PGKK 85.533 0.005504 0 1275 1368.6 1124.2 1587.7 1524.5 1611.3 1640.7 1462.1 1402.9 1449.9 TRUE FALSE FALSE 1409.11035 1412.943538 1277.400121 1618.432229 1407.693139 1474.008175 1456.084118 1424.701599 1393.137105 1512.412285 0.931697239 0.934231725 0.844611046 1.070099897 0.930760186 0.974607381 0.962756077 0.942006101 0.921135803 1 10.56263576 -9.391541984 1.1559983 0.999564511 0.948273938 0 0.05754491 0.813974691 1.970649567 0.032701031 0.008656816 4.06E-10 9.391541984 -0.051290573 ALVATPGK ddPTM_HeLa_SAHA_4h_R1 1 ALVATPGK 8 0 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 0 128.57 0.013221 5598200 5177 4532.2 3978.9 4834.7 4749.2 4834.8 5020.7 4592.4 4677.4 4092 FALSE FALSE TRUE 5721.540613 4679.046254 4521.123771 4928.28261 4385.317322 4422.84784 4455.757622 4474.933058 4644.849593 4268.426146 1.340433316 1.096199417 1.059201592 1.154590109 1.027385076 1.036177666 1.043887716 1.048380107 1.088187879 1 12.0594885 -6.154729205 1.255795088 1.157208481 1.040585247 0.113031533 0.087668426 0.713123372 2.216609246 0.02200576 0.045584424 7.00E-07 6.154729205 -0.116623234 ALVATPGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 ALVATPGKK 9 1 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 ; ALVATPGK(1)K;ALVATPGK(1)K 154.12 3.89E-07 643460000 15882.3 19032.2 24720.3 33434 36315 38109 43900 39840 12214.3 11551.6 FALSE TRUE FALSE 17552.87318 19648.85577 28089.05375 34081.16342 33532.55255 34861.8988 38960.25646 38820.95049 12129.29969 12049.64601 1.456712768 1.630658341 2.331110285 2.828395406 2.782866196 2.893188628 3.233311289 3.221750287 1.006610458 1 13.55670314 -6.607125832 0.673514984 1.108338406 3.215761341 0.975119794 0.132628753 0.077432996 0.071123962 0.035255678 0.067910023 2.47E-07 6.607125832 2.107422936 up ALVATPGKK ddPTM_HeLa_SAHA_4h_R1 1 ALVATPGKK 9 1 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 0 101.72 0.0043813 0 2575.3 1944.8 2153.9 2581.7 2538.2 2265.5 2680.7 2999.9 2679.8 2336.7 FALSE FALSE TRUE 2846.18187 2007.812796 2447.422275 2631.672537 2343.723664 2072.466655 2379.060581 2923.166902 2661.151054 2437.446573 1.167689951 0.823736126 1.004092686 1.079684193 0.961548733 0.850261367 0.976046248 1.199274247 1.091778209 1 11.25115488 -7.294002065 24.99960422 1.079186911 0.982906228 0.158060756 0.10692281 982.3246184 754165.0472 0.019604391 0.022419331 5.08E-08 7.294002065 -0.096280683 ALVEFESNPEET(ph)REPGSPPSVQR ddPTM_HeLa_SAHA_4h_R1 2 ALVEFESNPEETREPGSPPSVQR 23 1 Q9H6F5;H0YG79 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 1 0 ALVEFES(0.023)NPEET(0.668)REPGS(0.277)PPS(0.032)VQR;ALVEFES(0.005)NPEET(0.885)REPGS(0.105)PPS(0.006)VQR ; 68.411 0.0032763 1102040000 1842.32 1822.17 1741.61 1912.23 2029.45 1926.07 2226.19 1996.13 2070.27 1936.9 TRUE FALSE FALSE 2036.10367 1881.209504 1978.947541 1949.243977 1873.953979 1761.958 1975.693242 1945.071885 2055.862823 2020.409238 1.007767947 0.931103198 0.979478565 0.964776809 0.927512082 0.872079758 0.977867852 0.962711835 1.017547724 1 10.98043183 -7.267316214 24.71410962 1.003668199 0.944934822 0.48128335 0.030022013 270.5883679 1137916.538 0.005161711 0.005986715 5.40E-08 7.267316214 -0.058733377 ALVEFESNPEETREPGS(ph)PPSVQR ddPTM_HeLa_SAHA_4h_R1 4 ALVEFESNPEETREPGSPPSVQR 23 1 Q9H6F5;H0YG79 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 1 0 ALVEFES(0.022)NPEET(0.159)REPGS(0.681)PPS(0.138)VQR;ALVEFES(0.096)NPEET(0.046)REPGS(0.595)PPS(0.264)VQR;ALVEFESNPEET(0.171)REPGS(0.779)PPS(0.05)VQR;ALVEFESNPEET(0.014)REPGS(0.921)PPS(0.065)VQR ;;; 100.01 6.95E-05 1035213200 4817.38 4844.97 4610.34 4650.59 5491.91 5883.16 6118.01 5246.96 5296.44 4997.77 TRUE FALSE FALSE 5324.094131 5001.950207 5238.613126 4740.608894 5071.121042 5381.88167 5429.595413 5112.750361 5259.581643 5213.248323 1.02126233 0.95946901 1.004865451 0.909338785 0.972737289 1.032347077 1.041499479 0.980722583 1.00888761 1 12.34796687 -11.18094893 10.39499739 0.692988423 1.00009247 0 0.037832795 1582470 7371952.723 16214255.45 0.00539473 6.59E-12 11.18094893 0.307104047 ALVHERDEAAYGELR ddPTM_HeLa_SAHA_4h_R1 1 ALVHERDEAAYGELR 15 1 H0YM70;A0A087X1Z3;Q9UL46 H0YM70 PSME2 Proteasome activator complex subunit 2 0 0 88.706 0.0054549 9717500 3373.5 3138.2 3858.5 4618.1 3954.8 3898.2 4297.7 3621.1 3206.6 3888.4 FALSE FALSE TRUE 3728.340208 3239.879739 4384.316286 4707.490003 3651.784078 3566.051429 3814.111485 3528.477505 3184.28501 4056.047953 0.91920516 0.798777474 1.08093305 1.160610046 0.900330598 0.879193607 0.940351675 0.869929928 0.785070849 1 11.98585899 -5.590279327 24.99999363 0.972146025 0.899001072 0.058037586 0.109056417 90.00166198 33382.06952 0.014109957 0.028219918 2.57E-06 5.590279327 -0.073144952 ALVILAK ddPTM_HeLa_SAHA_4h_R1 2 ALVILAK 7 0 Q99497;K7ELW0 Q99497 PARK7 Protein deglycase DJ-1 0 0 ; ; 140.79 2.48E-05 21577000 13540.4 17213.6 19895.5 18655.6 20645.1 17056.6 20961 12380.8 12699.3 15956.6 FALSE FALSE TRUE 14964.6414 17771.33193 22606.75513 19016.70611 19063.2769 15603.28172 18602.41311 12064.11706 12610.92454 16644.56712 0.899070627 1.067695652 1.358206253 1.142517314 1.145315271 0.937439923 1.11762673 0.7248081 0.757660109 1 14.02276373 -3.180044431 12.54672451 1.006764065 1.030583784 0 0.183068729 0 0 0.022745713 0 0.000660626 3.180044431 0.023819719 ALVIVMGK ddPTM_HeLa_SAHA_4h_R1 1 ALVIVMGK 8 0 C9J0J7;G5E9Q6;P35080-2 C9J0J7 PFN2 Profilin;Profilin-2 0 0 163.41 1.84E-07 1477300 1809.9 2064 3703.1 3333.3 2725.4 1609.5 3621.1 1170.8 1061.8 1921.3 FALSE FALSE TRUE 2000.273586 2130.874954 4207.739183 3397.820842 2516.580441 1472.361545 3213.644298 1140.852631 1054.410847 2004.136646 0.998072457 1.063238357 2.099527092 1.695403778 1.255693042 0.734661256 1.603505582 0.569248925 0.526117243 1 10.96876516 -6.973719355 24.99835206 1.000750837 1.346922763 0.169303906 0.443501458 338.224454 321720.8753 0.066327954 0.087170701 1.06E-07 6.973719355 0.346171926 ALVLDCHYPEDEVGQEDEAES(ph)DIFSIR ddPTM_HeLa_SAHA_4h_R1 1 ALVLDCHYPEDEVGQEDEAESDIFSIR 27 0 I3L3Q7;I3L3B0;Q07021 I3L3Q7 C1QBP "Complement component 1 Q subcomponent-binding protein, mitochondrial" 1 0 ALVLDCHYPEDEVGQEDEAES(0.925)DIFS(0.075)IR 74.568 0.00020095 4474000 598.04 766.95 940.26 765.79 866.61 792.21 980.11 626.92 821.95 1004.8 TRUE FALSE FALSE 660.9445911 791.7996832 1068.393736 780.6129728 800.210529 724.7092511 869.8254433 610.8842942 816.229983 1048.121845 0.630599003 0.755446217 1.019341159 0.744773116 0.7634709 0.691436071 0.829889623 0.582837097 0.778754862 1 10.03359073 -9.511752114 1.247770418 1.000755606 0.746992161 0.058124803 0.129963298 0.377675128 1.047563069 0.081904702 0.019509608 3.08E-10 9.511752114 -0.253763445 ALVLDCHYPEDEVGQEDEAESDIFSIR ddPTM_HeLa_SAHA_4h_R1 3 ALVLDCHYPEDEVGQEDEAESDIFSIR 27 0 I3L3Q7;I3L3B0;Q07021 I3L3Q7 C1QBP "Complement component 1 Q subcomponent-binding protein, mitochondrial" 0 0 ;; ;; 139.12 1.12E-09 43672700 2554.03 2960.58 3530.16 2617.46 3302.18 3348.02 3559.87 2816.86 3264.17 3011.1 FALSE FALSE TRUE 2822.674594 3056.504735 4011.231821 2668.124723 3049.167682 3062.749861 3159.304059 2744.8088 3241.454375 3140.923257 0.898676715 0.973123023 1.27708686 0.849471479 0.970787069 0.975111332 1.005852038 0.87388598 1.032006869 1 11.61697298 -4.247938303 22.22048581 0.972934265 0.873885665 0.064724974 0.108894968 1041.402588 1713822.078 0.014568783 0.325887256 5.65E-05 4.247938303 -0.099048601 ALVVPEPEPDS(ph)DSNQER ddPTM_HeLa_SAHA_4h_R1 3 ALVVPEPEPDSDSNQER 17 0 C9J0A5;C9JXC9;Q5VTR2 C9J0A5 RNF20 E3 ubiquitin-protein ligase BRE1A 1 0 ALVVPEPEPDS(0.995)DS(0.005)NQER;ALVVPEPEPDS(0.995)DS(0.005)NQER;ALVVPEPEPDS(0.986)DS(0.014)NQER ;; 193.54 6.53E-37 50461700 3513.46 4032.46 4045 3743.17 3642.33 4231.81 4341.5 4358.9 4582 3453.44 TRUE FALSE FALSE 3883.021843 4163.11435 4596.231535 3815.624468 3363.255462 3871.23598 3852.982994 4247.40565 4550.113489 3602.334699 1.077918119 1.155671168 1.275903523 1.05920876 0.933632142 1.07464639 1.069579402 1.179070243 1.263101258 1 11.81471652 -8.507303535 1.051299611 1.010580651 1.099922 0 0.116382241 0.664448844 1.49610184 0.030789448 0.018159261 3.11E-09 8.507303535 0.089341349 ALVVPEPEPDSDS(ph)NQER ddPTM_HeLa_SAHA_4h_R1 1 ALVVPEPEPDSDSNQER 17 0 C9J0A5;C9JXC9;Q5VTR2 C9J0A5 RNF20 E3 ubiquitin-protein ligase BRE1A 1 0 ALVVPEPEPDS(0.078)DS(0.922)NQER 109.14 0.0016502 3827400 1107 1040.7 1264.4 1465.3 1806 1840.3 1852.2 1463.9 1341.4 1390.2 TRUE FALSE FALSE 1223.439339 1074.419363 1436.705847 1493.663 1667.62467 1683.496087 1643.785581 1426.455558 1332.065088 1450.138325 0.843670785 0.740908191 0.990737106 1.030014154 1.149976275 1.160921036 1.133537093 0.983668615 0.918577949 1 10.50197481 -6.21733534 2.519791202 0.909908271 1.109733773 0.596033855 0.081751094 0.190412113 2.376320744 0.015008002 0.025888664 6.06E-07 6.21733534 0.199825502 ALYDYEGQEHDELSFK ddPTM_HeLa_SAHA_4h_R1 1 ALYDYEGQEHDELSFK 16 0 A0A0U1RR22;Q9UNF0;Q9UNF0-2;H0Y923 A0A0U1RR22 PACSIN2 Protein kinase C and casein kinase substrate in neurons protein 2 0 0 76.82 0.016138 5121700 1800.3 1868.2 1646.6 2110.5 1843 1803.9 1903.2 2107.6 1797.1 1804.3 FALSE FALSE TRUE 1989.663814 1928.730906 1870.990073 2151.351779 1701.789738 1650.197572 1689.046927 2053.690644 1784.593835 1882.092203 1.057155335 1.024780243 0.994101176 1.143063967 0.904201046 0.87678891 0.89743049 1.091174301 0.948196816 1 10.87812159 -5.720244015 24.99983425 1.031948353 0.934500204 0.246054711 0.072574458 132.3291628 80304.62646 0.009457706 0.018915249 1.90E-06 5.720244015 -0.097448149 ALYEAGER ddPTM_HeLa_SAHA_4h_R1 2 ALYEAGER 8 0 P04083 P04083 ANXA1 Annexin A1 0 0 ; ; 133.81 0.0092566 105050000 4442.8 4157.7 4102.4 4705.2 4535.7 5170.8 5331.6 4993.2 4330.1 3963.9 FALSE FALSE TRUE 4910.114088 4292.412208 4661.453708 4796.27595 4188.175646 4730.21875 4731.674336 4865.481174 4299.966482 4134.803128 1.187508555 1.038117675 1.127370171 1.15997686 1.012908116 1.144000961 1.144352993 1.176714108 1.039944672 1 12.01360292 -9.520061364 1.241107008 0.99916974 1.127815541 0.358057486 0.054763397 0.358009868 0.97693392 0.039463789 0.00922478 3.02E-10 9.520061364 0.128645801 ALYEAGERR ddPTM_HeLa_SAHA_4h_R1 1 ALYEAGERR 9 1 P04083 P04083 ANXA1 Annexin A1 0 0 132.76 0.00014965 0 1440.2 1208.8 1579.2 1445.4 1310.1 1567.8 1387.2 1205.1 923.75 1362.9 FALSE FALSE TRUE 1591.686844 1247.965913 1794.405152 1473.377807 1209.720421 1434.21462 1231.108605 1174.275287 917.3215485 1421.661289 1.119596388 0.877822251 1.262188938 1.036377524 0.850920279 1.008830043 0.86596478 0.825988086 0.645246203 1 10.47336207 -5.830503698 6.514892312 1.059366837 0.895295426 0 0.165388958 0.166657931 12.32740178 0.014693179 0.026925547 1.48E-06 5.830503698 -0.164071412 ALYETELADAR ddPTM_HeLa_SAHA_4h_R1 2 ALYETELADAR 11 0 P20700;E9PBF6;A0A0D9SFE5;A0A0D9SFY5 P20700 LMNB1 Lamin-B1 0 0 ; ; 159.79 0.0012953 16738200 2166.83 1784.92 1659.26 2017.78 2233 2381.9 2013.68 1947.1 2223.2 1925.57 FALSE FALSE TRUE 2394.747121 1842.752579 1885.375312 2056.83705 2061.908022 2178.94872 1787.095427 1897.296001 2207.72857 2008.590746 1.192252392 0.917435562 0.938655779 1.024019977 1.026544619 1.084814676 0.889726008 0.944590631 1.099143056 1 10.97196793 -7.24834812 24.98946357 1.090785854 0.978504725 0.389759665 0.069740854 801.8166762 1530561.655 0.014940524 0.018241928 5.64E-08 7.24834812 -0.112281129 ALYETELADARR ddPTM_HeLa_SAHA_4h_R1 2 ALYETELADARR 12 1 P20700;E9PBF6;A0A0D9SFE5;A0A0D9SFY5 P20700 LMNB1 Lamin-B1 0 0 ; ; 218.55 1.92E-15 19858900 4060.3 3129.4 4469 4842.9 4151.4 3793 4523.9 4199 3212.1 3763.6 FALSE FALSE TRUE 4487.380983 3230.794613 5078.012046 4936.641332 3833.320629 3469.815061 4014.858866 4091.59566 3189.746735 3925.867215 1.143029231 0.822950558 1.293475242 1.257465182 0.976426461 0.883834035 1.022668024 1.042214481 0.812494809 1 11.93879566 AMAATLGAGT(ph)PPRPQAR ddPTM_HeLa_SAHA_4h_R1 2 AMAATLGAGTPPRPQAR 17 1 P58107 P58107 EPPK1 Epiplakin 1 0 AMAATLGAGT(1)PPRPQAR;AMAATLGAGT(1)PPRPQAR ; 84.208 0.0083485 26484000 863.27 861.56 818.3 1068.44 1185.63 1268.7 924.89 984.59 769.54 865.71 TRUE FALSE FALSE 954.0726994 889.4751093 929.8136625 1089.121201 1094.787286 1160.599622 820.818943 959.4056135 764.1847085 903.0349948 1.05651797 0.984984097 1.029654075 1.206067547 1.212342038 1.285221092 0.908955852 1.062423515 0.846240415 1 9.818638086 -6.351335488 8.629458163 1.023606341 1.134989873 0.283796999 0.111612606 0.404473193 35.83838926 0.015440177 0.023601602 4.45E-07 6.351335488 0.111383532 AMADELS(ph)EK ddPTM_HeLa_SAHA_4h_R1 2 AMADELSEK 9 0 Q03135;E9PCT5 Q03135 CAV1 Caveolin-1;Caveolin 1 0 AMADELS(1)EK;AMADELS(1)EK ; 120.06 0.0036372 29719000 3155.7 6223.1 4131.3 3839.6 5639.1 4095.1 5837.8 4331.6 5378.5 5515 TRUE FALSE FALSE 3487.631005 6424.732523 4694.292049 3913.92101 5207.033376 3746.174442 5180.91538 4220.803944 5341.070581 5752.77864 0.606251557 1.1168051 0.81600429 0.68035314 0.905133624 0.651193914 0.900593557 0.733698306 0.928433182 1 12.49004324 -6.513449313 24.82209771 0.837994098 0.778309803 0.083917739 0.149882308 1649.408287 4341918.562 0.028069151 0.041021051 3.07E-07 6.513449313 -0.059684295 AMEAVAAQGK ddPTM_HeLa_SAHA_4h_R1 2 AMEAVAAQGK 10 0 P18669;P15259 P18669 PGAM1;PGAM2 Phosphoglycerate mutase 1;Phosphoglycerate mutase 2 0 0 ; ; 158.07 7.45E-09 3405900 2635.6 2636.5 3100.7 3096.2 3179.7 3077.7 3628 2881.1 2355.23 2574.5 FALSE FALSE TRUE 2912.824501 2721.92433 3523.247248 3156.131428 2936.072073 2815.462645 3219.767892 2807.405634 2338.839763 2685.499294 1.08464914 1.013563599 1.311952401 1.175249398 1.093305844 1.048394483 1.198945722 1.045394292 0.870914309 1 11.39097463 -8.00853868 0.777317834 1.013563025 1.133397746 0.333357045 0.094433017 0.564952673 0.746611855 0.027951628 0.020236767 9.81E-09 8.00853868 0.119834722 AMEVDERPTEQYSDIGGLDK ddPTM_HeLa_SAHA_4h_R1 1 AMEVDERPTEQYSDIGGLDK 20 1 E9PM69;P17980;E9PN50;E9PMD8;R4GNH3 E9PM69 PSMC3 26S protease regulatory subunit 6A 0 0 88.781 0.0022611 7211500 1068.2 1068.8 954.81 1138.8 1231.1 1211.7 1229.9 1141.8 1257.9 968.12 FALSE FALSE TRUE 1180.558177 1103.429821 1084.926534 1160.843121 1136.773384 1108.456343 1091.508415 1112.594409 1249.146171 1009.860391 1.169031074 1.092655808 1.074333189 1.149508517 1.1256738 1.09763325 1.080850803 1.101730912 1.236949367 1 9.979940145 -9.505279906 1.240825628 0.999695474 1.116455805 0 0.078515919 0.23483514 0.644429359 0.02330774 0.005577636 3.12E-10 9.505279906 0.116760331 AMGDS(ph)DDEYDR ddPTM_HeLa_SAHA_4h_R1 1 AMGDSDDEYDR 11 0 C9JUL9 C9JUL9 SRRT 1 0 AMGDS(1)DDEYDR 203.61 2.80E-31 0 697 804.47 676.77 674.2 810.23 877.01 840.46 762.39 733.7 738.01 TRUE FALSE FALSE 770.313658 830.5353558 768.9966911 687.2501159 748.1503524 802.2838141 745.8892288 742.8891677 728.594122 769.8292228 1.000629276 1.078856623 0.99891855 0.892730615 0.971839377 1.04215817 0.968902202 0.965005154 0.946436041 1 9.588394627 -6.502157383 24.97864408 1.007754097 0.969822775 0.145150776 0.044866576 1108.546727 1336303.329 0.006389578 0.009697666 3.15E-07 6.502157383 -0.037931322 AMGEQLLPGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 AMGEQLLPGKK 11 1 Q5T1Z4;Q5T1Z8;Q14671-2;Q14671;Q14671-3;H0YEH2 Q5T1Z4 PUM1 Pumilio homolog 1 0 1 ; AMGEQLLPGK(1)K;AMGEQLLPGK(1)K 127.42 0.00044784 2171010 3502.5 3425.3 3736.9 3765 4356 4781 4939.9 4746.8 2682 2706 FALSE TRUE FALSE 3870.90902 3536.281967 4246.145271 3837.877019 4022.244221 4373.631903 4384.049451 4625.383729 2663.335744 2822.668903 1.371364887 1.252815009 1.504301573 1.359662487 1.42497911 1.549466853 1.553157526 1.63865614 0.943552303 1 11.4628442 -11.27452968 0.102712125 4.52E-14 1.867236985 0.905705085 0.068011908 13.74144423 0.181700284 3.764490593 0.650204271 5.31E-12 11.27452968 1.867236985 AMGIMNSFVNDIFER ddPTM_HeLa_SAHA_4h_R1 3 AMGIMNSFVNDIFER 15 0 O60814;P57053;P33778;P58876;P62807;Q16778;Q5QNW6;Q5QNW6-2;Q8N257;Q93079;U3KQK0;Q99877;Q99879;Q99880 O60814;P33778;P58876;P62807;Q16778;Q5QNW6;Q8N257;Q93079;U3KQK0;Q99879;Q99880 HIST1H2BK;H2BFS;HIST1H2BB;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST2H2BF;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BM;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-B;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 2-F;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-M;Histone H2B type 1-L 0 0 ;; ;; 108.32 0.0080086 20212930 1193.8 992.25 1227.26 1358.26 1540.67 1285.86 1559.69 763.63 942.34 1298.87 FALSE FALSE TRUE 1319.369361 1024.399551 1394.504602 1384.551086 1422.624197 1176.297494 1384.189576 744.0974503 935.7821792 1354.870642 0.973797291 0.75608661 1.029252947 1.021906478 1.050007398 0.868199116 1.021639656 0.54920184 0.690680092 1 10.4039394 -4.257597068 24.90980531 0.974918009 0.549201668 0.436566108 0.123967415 149.9388868 972015.2768 0.011247495 0.112926881 5.53E-05 4.257597068 -0.425716341 AMLDSGIYPPGS(ph)PGK ddPTM_HeLa_SAHA_4h_R1 6 AMLDSGIYPPGSPGK 15 0 O95295 O95295 SNAPIN SNARE-associated protein Snapin 1 0 AMLDS(0.001)GIY(0.001)PPGS(0.998)PGK;AMLDS(0.001)GIYPPGS(0.999)PGK;AMLDS(0.001)GIY(0.006)PPGS(0.994)PGK;AMLDSGIYPPGS(1)PGK;AMLDS(0.001)GIYPPGS(0.999)PGK;AMLDSGIY(0.001)PPGS(0.999)PGK ;;;;; 194.58 2.35E-09 112559300 26802.4 26575.5 24988.5 25994.2 27937.1 28798.9 29918.8 24567.2 26091 25819.1 TRUE FALSE FALSE 29621.59941 27436.56364 28393.80265 26497.35533 25796.56543 26345.0717 26552.25788 23938.8066 25909.43061 26932.28776 1.099854556 1.018723841 1.054266273 0.983850892 0.957830455 0.978196577 0.985889432 0.888851583 0.962021156 1 14.71704916 -6.109214535 2.730488782 1.046479941 0.956843431 0.350366901 0.043612642 0.185288151 2.685576112 0.006755077 0.012039599 7.78E-07 6.109214535 -0.089636509 AMLGTHT(ph)MEVTVYHR ddPTM_HeLa_SAHA_4h_R1 1 AMLGTHTMEVTVYHR 15 0 F8W1D1;H0YIJ2;P40967-3;P40967-4;P40967-5;P40967;P40967-2 F8W1D1 PMEL Melanocyte protein PMEL;M-alpha;M-beta 1 0 AMLGT(0.004)HT(0.787)MEVT(0.209)VYHR 109.6 0.0038728 5288000 1145.6 1342.7 1307 1353.2 1339.6 1543.3 1256.2 1429 1378 1287.6 TRUE FALSE FALSE 1266.099464 1386.204361 1485.111153 1379.393143 1236.960137 1411.802158 1114.84907 1392.448249 1368.410386 1343.114737 0.9426592 1.032081863 1.105721732 1.027010652 0.920963863 1.051140397 0.83004753 1.036730676 1.018833572 1 10.39136684 -3.945309484 22.37148505 0.981813878 1.955528784 0.015363208 0.073958753 82.3183343 1065849.955 0.009623372 127218.8789 0.00011342 3.945309484 0.973714907 AMLPGS(ph)PLFTR ddPTM_HeLa_SAHA_4h_R1 2 AMLPGSPLFTR 11 0 Q8WUF5 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 AMLPGS(1)PLFTR;AMLPGS(1)PLFTR ; 132.56 0.00122 20963600 4363.7 4586.4 4367 4148.8 4431 4048.2 3116.3 3576.1 4801 4458.3 TRUE FALSE FALSE 4822.693987 4735.002369 4962.112018 4229.106023 4091.497737 3703.270585 2765.645722 3484.62854 4767.58945 4650.519131 1.037022717 1.01816641 1.067001743 0.909383642 0.879793765 0.796313375 0.594696128 0.749298829 1.025173602 1 12.18317606 -5.415275573 1.204108164 1.020583638 0.666831856 0.882008207 0.050117306 0.10830771 0.290155679 0.007344869 0.027998609 3.84E-06 5.415275573 -0.353751782 AMNGESLDGR ddPTM_HeLa_SAHA_4h_R1 2 AMNGESLDGR 10 0 P98179 P98179 RBM3 RNA-binding protein 3 0 0 ; ; 147.73 0.00455 11826800 2885.5 3118.6 2734.4 3727.7 2973.9 3670 3374.2 3669.8 3273.6 3320.2 FALSE FALSE TRUE 3189.010129 3219.644686 3107.029792 3799.855024 2746.040424 3357.295353 2994.526136 3575.93183 3250.818751 3463.350071 0.920787695 0.929633049 0.897116875 1.097161692 0.792885607 0.969377997 0.864632819 1.032506607 0.938634179 1 11.75795251 -9.325556149 0.963125845 1.001444025 0.93457681 0 0.082025613 1.145132548 1.837347008 0.054573423 0.013256004 4.73E-10 9.325556149 -0.066867216 AMPEDAK(ac)GQVK ddPTM_HeLa_SAHA_4h_R1 1 AMPEDAKGQVK 11 1 A8MUE8;A8MW92-4;A8MW92 A8MUE8 PHF20L1 PHD finger protein 20-like protein 1 0 1 AMPEDAK(1)GQVK 98.033 0.013441 5359000 1295 1524 1159.6 1385.5 1821.1 1710.9 1472.2 1276 1830.4 1244.3 FALSE TRUE FALSE 1431.214042 1573.3786 1317.624249 1412.318356 1681.567711 1565.121695 1306.544181 1243.361768 1817.662097 1297.947862 1.102674524 1.212204778 1.015159612 1.0881164 1.295558751 1.20584327 1.006623008 0.957944309 1.400412258 1 10.34201672 -8.84374966 0.807796679 1.002586352 1.115152524 0 0.158887875 0.925099318 1.158885405 0.058481189 0.021511966 1.43E-09 8.84374966 0.112566173 AMS(ph)LNTLNVDAPR ddPTM_HeLa_SAHA_4h_R1 1 AMSLNTLNVDAPR 13 0 Q6P597;Q6P597-3;Q6P597-2 Q6P597 KLC3 Kinesin light chain 3 1 0 AMS(0.962)LNT(0.038)LNVDAPR 169.37 2.82E-05 11712000 498.94 246.63 351.83 414.46 384.03 472.22 279.5 397.07 411.13 208.46 TRUE FALSE FALSE 551.4207984 254.6209738 399.7755601 422.4824726 354.6057044 431.9841994 248.0499244 386.9135244 408.2689129 217.4477308 2.535877456 1.170952545 1.838490375 1.942915068 1.630762957 1.986611669 1.140733562 1.779340364 1.877549659 1 7.764524843 AMS(ph)TTSISSPQPGK ddPTM_HeLa_SAHA_4h_R1 2 AMSTTSISSPQPGK 14 0 B4DDD6;Q9UJU6-4;Q9UJU6-2;Q9UJU6-3;Q9UJU6-6;H0Y5J4;Q9UJU6-5;Q9UJU6 B4DDD6;H0Y5J4 DBNL Drebrin-like protein 1 0 AMS(0.941)T(0.054)T(0.003)S(0.002)ISSPQPGK;AMS(0.925)T(0.05)T(0.014)S(0.01)ISSPQPGK ; 111.07 0.0037229 14715200 4514.1 4340.5 3298.5 5823.4 5240.9 5492.1 5718.2 8026.3 4410.5 4185.3 TRUE FALSE FALSE 4988.913749 4481.135048 3748.002402 5936.120328 4839.343374 5024.142182 5074.773087 7820.998868 4379.806971 4365.748765 1.142739543 1.026429895 0.858501623 1.359702687 1.108479584 1.150808819 1.162406121 1.791445016 1.003220113 1 12.09201339 -1.847654299 1.133864641 1.072821285 199.9999999 0.7441005 0.123969702 157.9218595 0.941888803 0.018200094 80843.45155 0.014201876 1.847654299 198.9271786 AMST(ph)TSISSPQPGK ddPTM_HeLa_SAHA_4h_R1 1 AMSTTSISSPQPGK 14 0 B4DDD6;Q9UJU6-4;Q9UJU6-2;Q9UJU6-3;Q9UJU6-6;H0Y5J4;Q9UJU6-5;Q9UJU6 B4DDD6;H0Y5J4 DBNL Drebrin-like protein 1 0 AMS(0.239)T(0.759)T(0.002)SISSPQPGK 215.09 5.07E-17 16273000 2371.8 1960.3 1677.5 2883.2 2326.4 2573.8 2570.2 3365.7 1821.6 1684.1 TRUE FALSE FALSE 2621.276806 2023.815006 1906.100964 2939.008505 2148.151735 2354.49776 2280.994332 3279.610267 1808.923337 1756.709793 1.492151303 1.152048571 1.085040325 1.673018798 1.222826755 1.340288402 1.29844687 1.866904984 1.029722351 1 10.77866016 -11.67463055 0.323942446 4.24E-12 1.417235686 0.327852292 0.222055842 14.58905273 0.569154992 9.693534811 0.084740456 2.12E-12 11.67463055 1.417235686 AMSTT(ph)SISSPQPGK ddPTM_HeLa_SAHA_4h_R1 1 AMSTTSISSPQPGK 14 0 B4DDD6;Q9UJU6-4;Q9UJU6-2;Q9UJU6-3;Q9UJU6-6;H0Y5J4;Q9UJU6-5;Q9UJU6 B4DDD6;H0Y5J4 DBNL Drebrin-like protein 1 0 AMS(0.07)T(0.217)T(0.71)S(0.003)ISSPQPGK 201.08 9.23E-12 21491000 2297.9 2278.1 1682.6 3231.7 2557.2 2635.6 3056.1 4062 1953.3 2033.5 TRUE FALSE FALSE 2539.603665 2351.911935 1911.895965 3294.254227 2361.267888 2411.032053 2712.219585 3958.099922 1939.706826 2121.174137 1.197263167 1.108778338 0.901338524 1.553033374 1.113189081 1.13664975 1.278640701 1.865994806 0.914449593 1 11.05064735 -1.610032261 1.011340363 1.111455604 199.9990899 0.629022996 0.172757475 199.211661 1.000036296 0.024611466 90880.6619 0.024545266 1.610032261 198.8876343 AMSTTSIS(ph)SPQPGK ddPTM_HeLa_SAHA_4h_R1 4 AMSTTSISSPQPGK 14 0 B4DDD6;Q9UJU6-4;Q9UJU6-2;Q9UJU6-3;Q9UJU6-6;H0Y5J4;Q9UJU6-5;Q9UJU6 B4DDD6;H0Y5J4 DBNL Drebrin-like protein 1 0 AMSTT(0.025)S(0.025)IS(0.623)S(0.327)PQPGK;AMSTTS(0.026)IS(0.652)S(0.321)PQPGK;AMST(0.001)T(0.014)S(0.073)IS(0.705)S(0.207)PQPGK;AMST(0.001)T(0.023)S(0.023)IS(0.655)S(0.298)PQPGK ;;; 144.27 0.00012533 136865200 13620.7 15276.8 13061.7 11852.6 13384.5 14455.2 14165 11519.64 12775.4 14281.5 TRUE FALSE FALSE 15053.38772 15771.77834 14841.68045 12082.02421 12358.9825 13223.53564 12571.11692 11224.98429 12686.49495 14897.24536 1.010481291 1.058704342 0.996270122 0.811024047 0.829615288 0.887649718 0.84385513 0.753493953 0.851600054 1 13.86275797 -6.284453017 7.392924495 1.009536515 0.829820199 0.612974808 0.061100579 0.050905942 12.76776963 0.00536802 0.008339099 5.19E-07 6.284453017 -0.179716316 AMSTTSISS(ph)PQPGK ddPTM_HeLa_SAHA_4h_R1 3 AMSTTSISSPQPGK 14 0 B4DDD6;Q9UJU6-4;Q9UJU6-2;Q9UJU6-3;Q9UJU6-6;H0Y5J4;Q9UJU6-5;Q9UJU6 B4DDD6;H0Y5J4 DBNL Drebrin-like protein 1 0 AMSTTS(0.004)IS(0.088)S(0.908)PQPGK;AMSTTSIS(0.107)S(0.893)PQPGK;AMSTTS(0.002)IS(0.198)S(0.8)PQPGK ;; 241.76 5.15E-33 210800000 10250.3 11529.7 12045.5 10398 10319 13780.8 11222.9 8752.7 11778.7 12298.1 TRUE FALSE FALSE 11328.47358 11903.26984 13686.99801 10599.26833 9528.360449 12606.59831 9960.069755 8528.818608 11696.73107 12828.33128 0.883082401 0.927889184 1.066935185 0.826239056 0.742759151 0.98271537 0.776411954 0.664842404 0.911788978 1 13.64704589 -2.713617174 0.354213265 0.957486914 5.00E-21 0.463243917 0.0872813 11.77879051 0.441208781 0.026721343 6.099269973 0.001933672 2.713617174 -0.957486914 NSK(ac)LLSTSAK ddPTM_HeLa_SAHA_4h_R1 2 NSKLLSTSAK 10 1 C9J2P0;P51965-3;P51965 C9J2P0 UBE2E1 Ubiquitin-conjugating enzyme E2 E1 0 1 ; NSK(1)LLSTSAK;NSK(1)LLSTSAK 193.96 1.03E-19 4209900 1730.75 2338.5 2828.3 5341.4 5566.5 5601.4 6977.8 4683.7 1102.03 1138.66 FALSE TRUE FALSE 1912.798226 2414.268934 3213.725995 5444.790521 5139.995973 5124.129207 6192.639579 4563.897736 1094.360884 1187.753205 1.610434068 2.032635167 2.705718647 4.584109306 4.32749493 4.314136292 5.213742681 3.842462994 0.9213706 1 10.21401938 -6.583451797 1.267990846 1.259830666 4.570480217 0.929232116 0.402147188 0.070099584 0.226018718 0.068438247 0.112394704 2.61E-07 6.583451797 3.310649551 up AMT(ph)LSPQEEVAAGQMASSSR ddPTM_HeLa_SAHA_4h_R1 2 AMTLSPQEEVAAGQMASSSR 20 0 A0A494BZT8;Q9Y6A5 A0A494BZT8 TACC3 Transforming acidic coiled-coil-containing protein 3 1 0 AMT(0.957)LS(0.043)PQEEVAAGQMASSSR;AMT(0.984)LS(0.016)PQEEVAAGQMASSSR ; 174.65 7.95E-08 16823400 4104.9 3904.7 3679.1 3739.3 4695.6 4722.7 4450.2 4323.6 4259.1 4772 TRUE FALSE FALSE 4536.672216 4031.214842 4180.468588 3811.679559 4335.824142 4320.299391 3949.451784 4213.008572 4229.460576 4977.744274 0.911391178 0.809847718 0.839831932 0.765744351 0.871041963 0.86792313 0.793421993 0.846369026 0.849674138 1 12.2812764 -7.836507609 0.871953655 0.983288492 0.825523003 0.231195804 0.054585961 0.1658663 0.270632203 0.010231528 0.008647012 1.46E-08 7.836507609 -0.157765489 AMT(ph)RCPRASSMS(ph)GSCGRR ddPTM_HeLa_SAHA_4h_R1 1 AMTRCPRASSMSGSCGRR 18 3 Q9Y250-7 Q9Y250-7 2 0 AMT(1)RCPRAS(0.165)S(0.165)MS(0.426)GS(0.244)CGRR 51.127 0.021134 18522000 1106.1 1246.2 1158.3 1482.5 1445.3 1643.9 1506.3 1329.2 1618.6 1544.6 TRUE FALSE FALSE 1222.444673 1286.577698 1316.147092 1511.195931 1334.561426 1503.830472 1336.80716 1295.200989 1607.336031 1611.195265 0.758719132 0.798523758 0.816876216 0.93793469 0.828305206 0.933363264 0.829699037 0.803875866 0.997604738 1 10.65391563 -9.495818496 1.25443584 0.999586835 0.833080753 0.583066766 0.053969409 0.289936412 0.81968954 0.040975286 0.010063409 3.19E-10 9.495818496 -0.166506082 AMT(ph)S(ph)HINICSK ddPTM_HeLa_SAHA_4h_R1 1 AMTSHINICSK 11 0 A0A1B0GUR4;A0A1B0GVZ9 A0A1B0GUR4 2 0 AMT(1)S(0.968)HINICS(0.033)K 101.54 0.010447 3165800 326.04 370.38 283.81 451.27 545.01 562.32 361.89 407.27 344.09 522.01 TRUE FALSE FALSE 360.3343831 382.380555 322.4861488 460.0049834 503.2514515 514.4071725 321.1691848 396.8526231 341.6954497 544.5164058 0.661751197 0.702238814 0.592243219 0.844795453 0.924217243 0.944704635 0.589824625 0.728816651 0.627520945 1 9.088831706 -9.405182936 1.131369014 1.000003581 0.744797214 0 0.163730984 0.436492675 0.999287243 0.087228291 0.022164702 3.93E-10 9.405182936 -0.255206367 AMTLS(ph)PQEEVAAGQMASSSR ddPTM_HeLa_SAHA_4h_R1 1 AMTLSPQEEVAAGQMASSSR 20 0 A0A494BZT8;Q9Y6A5 A0A494BZT8 TACC3 Transforming acidic coiled-coil-containing protein 3 1 0 AMT(0.002)LS(0.998)PQEEVAAGQMASSSR 190.25 6.51E-14 7660400 1523.4 1579.3 1183.1 1430.6 2005.1 2063.4 1671.4 1771.4 1613.1 1402.1 TRUE FALSE FALSE 1683.638202 1630.470356 1344.326707 1458.291332 1851.469671 1887.586712 1483.329673 1726.090153 1601.874306 1462.551393 1.151165156 1.114812351 0.919165448 0.99708724 1.265917684 1.290612228 1.014206872 1.180191111 1.095260183 1 10.51427161 -13.52287875 0.225512417 0.362926775 1.13851022 0.046147216 0.112939339 78.12506102 0.999166987 22.17462537 0.088962785 3.00E-14 13.52287875 0.775583445 AMTLSPQEEVAAGQMAS(ph)SSR ddPTM_HeLa_SAHA_4h_R1 4 AMTLSPQEEVAAGQMASSSR 20 0 A0A494BZT8;Q9Y6A5 A0A494BZT8 TACC3 Transforming acidic coiled-coil-containing protein 3 1 0 AMT(0.001)LS(0.167)PQEEVAAGQMAS(0.311)S(0.311)S(0.209)R;AMT(0.012)LS(0.199)PQEEVAAGQMAS(0.513)S(0.201)S(0.076)R;AMTLSPQEEVAAGQMAS(0.378)S(0.378)S(0.244)R;AMT(0.001)LS(0.008)PQEEVAAGQMAS(0.934)S(0.044)S(0.013)R ;;; 105.39 0.00034602 16393200 2560.25 2764.33 2839.32 2776.8 3310.5 3486.31 3429.27 3410.65 3127.75 3001.03 TRUE FALSE FALSE 2829.548842 2853.896106 3226.247743 2830.548979 3056.850205 3189.256775 3043.399514 3323.410512 3105.983733 3130.41909 0.903888189 0.911665826 1.030612084 0.904207679 0.976498711 1.018795466 0.972201941 1.061650346 0.992194222 1 11.6121401 -2.732967096 0.628332045 0.953405434 1.679029093 0.294803475 0.044023164 17.94410194 1.092556368 0.008409449 14.468205 0.001849409 2.732967096 0.725623659 AMTVEKAS(ph)PVGDGNFR ddPTM_HeLa_SAHA_4h_R1 1 AMTVEKASPVGDGNFR 16 1 Q86YS7;H0YFC4 Q86YS7 C2CD5 C2 domain-containing protein 5 1 0 AMTVEKAS(1)PVGDGNFR 81.51 0.0071049 13126000 1813 1467.1 1471.5 1521.2 1917.2 1753.7 1913.4 1715 1661 1328.8 TRUE FALSE FALSE 2003.699658 1514.635003 1672.028357 1550.645026 1770.30455 1604.274894 1698.099196 1671.132783 1649.440966 1386.091071 1.445575764 1.092738446 1.206290403 1.118717996 1.277192089 1.157409443 1.225099297 1.205644289 1.189994655 1 10.43680634 -9.697479579 1.589667428 1.000328695 1.247993525 0.011496589 0.111749442 0.326042782 1.488724397 0.083446233 0.018550354 2.01E-10 9.697479579 0.24766483 ANAEK(ac)TSGSNVK ddPTM_HeLa_SAHA_4h_R1 1 ANAEKTSGSNVK 12 1 P56381 P56381 ATP5E "ATP synthase subunit epsilon, mitochondrial" 0 1 ANAEK(1)TSGSNVK 124.38 0.0013887 532100 197.88 123.2 171.68 115.6 52.917 0 177 0 0 154.56 FALSE TRUE FALSE 218.6939263 127.1917608 195.0756563 117.8376052 48.86251089 0 157.0834942 0 0 161.223838 1.356461483 0.788914111 1.209967823 0.73089443 0.303072495 0 0.974319283 0 0 1 7.332921261 -6.014801539 2.866041388 1.141208443 0.344220285 0.12697894 0.462687829 0.130112719 2.161487025 0.043487625 0.080079064 9.66E-07 6.014801539 -0.796988158 ANAS(ph)PQKPLDLK ddPTM_HeLa_SAHA_4h_R1 1 ANASPQKPLDLK 12 1 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;C9JQE8 C9JE98 NCOR2 Nuclear receptor corepressor 2 1 0 ANAS(1)PQKPLDLK 65.695 0.023769 72042000 5851.8 5747.7 5466.6 5578.2 6006.7 6011 5859 5535.1 5553.2 5232.3 TRUE FALSE FALSE 6467.319173 5933.929251 6211.559779 5686.174127 5546.467944 5498.828983 5199.7299 5393.520157 5514.554829 5457.890059 1.184948598 1.08722037 1.138088109 1.041826432 1.016229327 1.00750087 0.952699641 0.988206083 1.010382175 1 12.41412762 -5.739100379 1.755616144 1.092810858 0.980008048 0.401381434 0.053151546 0.321541314 2.008734558 0.010984473 0.025734195 1.82E-06 5.739100379 -0.112802809 ANASAIPGK(ac)TILENSVK ddPTM_HeLa_SAHA_4h_R1 1 ANASAIPGKTILENSVK 17 1 Q8WWQ0 Q8WWQ0 PHIP PH-interacting protein 0 1 ANASAIPGK(1)TILENSVK 187.08 6.77E-18 637210 242.72 171.99 232.2 308.44 431.84 261.6 405.61 307.99 221.5 312.3 FALSE TRUE FALSE 268.2504032 177.5625888 263.8430068 314.4103022 398.7525125 239.3102083 359.9696953 300.1120618 219.9585635 325.7647814 0.82344814 0.545063798 0.809918757 0.965145161 1.224050405 0.734610437 1.104998809 0.921253858 0.675206701 1 8.347686831 -6.018021077 23.86330986 0.87406829 0.998971533 0.17981737 0.175543542 755.6264122 1000594.151 0.026354036 0.044322088 9.59E-07 6.018021077 0.124903244 ANASNS(ph)PSSLR ddPTM_HeLa_SAHA_4h_R1 2 ANASNSPSSLR 11 0 Q5T5X7 Q5T5X7 BEND3 BEN domain-containing protein 3 1 0 ANAS(0.033)NS(0.75)PS(0.208)S(0.008)LR;ANAS(0.066)NS(0.924)PS(0.006)S(0.003)LR ; 116.71 0.0025197 8253800 2448.4 1959.41 1660.8 1998.81 2563.92 2406.2 2291.49 2162.13 2320.27 2166.54 TRUE FALSE FALSE 2705.933946 2022.89617 1887.125175 2037.499858 2367.473004 2201.178223 2033.645514 2106.825845 2304.123052 2259.950142 1.19734232 0.895106548 0.835029561 0.901568499 1.047577537 0.973994152 0.899863 0.932244392 1.019545967 1 11.14207523 -7.245216547 24.83370237 1.09318943 0.927468603 0.451724594 0.072521874 531.0136506 812869.5007 0.015161184 0.018536361 5.69E-08 7.245216547 -0.165720828 ANASPQK(ac)PLDLK ddPTM_HeLa_SAHA_4h_R1 1 ANASPQKPLDLK 12 1 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;C9JQE8 C9JE98 NCOR2 Nuclear receptor corepressor 2 0 1 ANASPQK(1)PLDLK 132.86 0.00050643 1438900 464.17 579.23 434.04 555.36 729.6 756.52 610.53 744.19 683.33 418.22 FALSE TRUE FALSE 512.9935303 597.997432 493.1887108 566.1097959 673.6982056 692.0602399 541.8315576 725.1546974 678.5746509 436.2515109 1.175912329 1.370763005 1.130514619 1.29766839 1.544288533 1.58637901 1.242016461 1.662239968 1.555466592 1 8.769016318 -6.352507734 0.252909127 0.952198963 1.680744493 0 0.214718428 1.366275307 0.200224603 0.140496905 0.345153189 4.44E-07 6.352507734 0.72854553 ANDDIIVNWVNR ddPTM_HeLa_SAHA_4h_R1 2 ANDDIIVNWVNR 12 0 P13797-3;P13797;A0A0A0MSQ0;P13797-2 P13797-3 PLS3 Plastin-3 0 0 ; ; 194.48 1.63E-06 12884900 2943.6 2850.35 2821.72 2766.7 3231.6 3288.9 3162.9 2477.49 3156.9 2813.01 FALSE FALSE TRUE 3253.221354 2942.70321 3206.249307 2820.253479 2983.995506 3008.667217 2807.002168 2414.119393 3134.930876 2934.292628 1.108690157 1.002866307 1.092682194 0.961135727 1.016938624 1.025346685 0.956619712 0.82272619 1.068377041 1 11.51879704 -3.243270774 0.7620918 1.046605479 1.49E-12 0.708978265 0.041970221 4.782633488 0.628425717 0.008026862 6.159253109 0.000571122 3.243270774 -1.046605479 ANDEANQS(ph)DTSVSLSEPK ddPTM_HeLa_SAHA_4h_R1 1 ANDEANQSDTSVSLSEPK 18 0 O95684;O95684-2;A0A087WV25 O95684 FGFR1OP FGFR1 oncogene partner 1 0 ANDEANQS(0.586)DT(0.065)S(0.349)VSLSEPK 161.51 3.48E-14 0 775.77 811.54 639.25 625.66 638.34 994.43 833.13 720.88 529.82 688.85 TRUE FALSE FALSE 857.369048 837.8344285 726.3636609 637.770554 589.4305271 909.6989695 739.3840197 702.4409334 526.1329395 718.5496947 1.19319381 1.166007633 1.010874636 0.887580301 0.820305863 1.266020953 1.028994968 0.977581563 0.732215104 1 9.488944126 -6.633255478 8.155343495 1.099283471 0.997889701 0 0.165789886 0.415002787 28.52087516 0.020939625 0.02962812 2.33E-07 6.633255478 -0.10139377 ANEAGGQVGPEAPRPPET(ph)SPEMR ddPTM_HeLa_SAHA_4h_R1 4 ANEAGGQVGPEAPRPPETSPEMR 23 1 Q8N3D4;E9PIH6 Q8N3D4 EHBP1L1 EH domain-binding protein 1-like protein 1 1 0 ANEAGGQVGPEAPRPPET(0.559)S(0.441)PEMR;ANEAGGQVGPEAPRPPET(0.5)S(0.5)PEMR;ANEAGGQVGPEAPRPPET(0.5)S(0.5)PEMR;ANEAGGQVGPEAPRPPET(0.5)S(0.5)PEMR ;;; 67.728 0.0034747 64733900 3996.23 4089.2 3150.24 4163.34 4508.54 4877.27 3952.71 4778.84 3864.11 3862.52 TRUE FALSE FALSE 4416.571807 4221.692763 3579.538301 4243.927466 4163.096639 4461.699157 3507.940668 4656.604192 3837.219344 4029.05214 1.096181348 1.047812889 0.888431864 1.053331483 1.033269487 1.107381836 0.870661522 1.155756746 0.952387611 1 11.97622476 ANEGKKETWDT(ph)AEEDSGTDSEYDES(ph)GKSR ddPTM_HeLa_SAHA_4h_R1 1 ANEGKKETWDTAEEDSGTDSEYDESGKSR 29 3 Q96K76-2;Q96K76-4;Q96K76 Q96K76-2 USP47 Ubiquitin carboxyl-terminal hydrolase 47 2 0 ANEGKKET(0.016)WDT(0.899)AEEDS(0.078)GT(0.051)DS(0.225)EY(0.209)DES(0.262)GKS(0.26)R 40.756 0.023329 36079000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 ANGLPAGPEPASEPGS(ph)PYPEGPR ddPTM_HeLa_SAHA_4h_R1 2 ANGLPAGPEPASEPGSPYPEGPR 23 0 Q5VTI5;A0A1B0GUN5;Q9Y2H5;A0A5F9ZH45 Q5VTI5 PLEKHA6 Pleckstrin homology domain-containing family A member 6 1 0 ANGLPAGPEPASEPGS(1)PYPEGPR;ANGLPAGPEPAS(0.051)EPGS(0.949)PYPEGPR ; 195.05 7.42E-16 8421200 2772 3805.4 2958.8 3291.8 3716.2 4365.1 4090.2 3020.4 3946.8 3649.5 TRUE FALSE FALSE 3063.571678 3928.697457 3362.009855 3355.517549 3431.465559 3993.168923 3629.959931 2943.142541 3919.333897 3806.847805 0.804752865 1.032008018 0.883147955 0.881442527 0.901392894 1.048943674 0.953534293 0.773117995 1.029548355 1 11.89438118 -7.266065719 24.73574345 0.907799972 0.926508589 0 0.094267523 2388.1991 12769007.78 0.017071491 0.019879487 5.42E-08 7.266065719 0.018708617 ANGMELDGRR ddPTM_HeLa_SAHA_4h_R1 1 ANGMELDGRR 10 1 P62995;P62995-3;H7BXF3;Q13595;Q13595-4;Q13595-3;Q13595-2 P62995;Q13595 TRA2B;TRA2A Transformer-2 protein homolog beta;Transformer-2 protein homolog alpha 0 0 107.55 0.013107 4871700 1752.7 1768.4 1834.9 2042.8 2075.7 1778.1 1652.6 1937.1 1342.7 1904.3 FALSE FALSE TRUE 1937.057028 1825.69732 2084.950616 2082.341348 1916.660314 1626.595877 1466.645099 1887.551787 1333.356041 1986.403692 0.975157786 0.919096822 1.049610723 1.048297159 0.964889625 0.818864707 0.738341911 0.950235742 0.671241222 1 10.95594313 -5.311569328 4.755173142 0.991400347 0.825555341 0.081088818 0.117531972 0.096917875 4.899351222 0.008042835 0.018882593 4.88E-06 5.311569328 -0.165845007 ANGPHLYSS(ph)PTDSTDPR ddPTM_HeLa_SAHA_4h_R1 1 ANGPHLYSSPTDSTDPR 17 0 Q96QT6;C9J9G2;Q96QT6-4;Q96QT6-2;Q96QT6-5;Q96QT6-3;K7EPF7 Q96QT6 PHF12 PHD finger protein 12 1 0 ANGPHLYS(0.186)S(0.782)PT(0.01)DS(0.01)T(0.01)DPR 75.319 0.010048 2895800 492.2 651.07 326.99 638.81 527.65 712.13 756.05 622.52 851.22 712.46 TRUE FALSE FALSE 543.9718543 672.1650952 371.5504943 651.1750913 487.221571 651.4525177 670.9772642 606.5968398 845.2962907 743.1776373 0.731954013 0.904447418 0.499948432 0.876203829 0.655592346 0.876577126 0.902849104 0.816220523 1.137408135 1 9.537563281 -9.336823843 0.956257749 1.005776733 0.780118174 0.411448987 0.129895446 0.555763998 0.872096876 0.089536115 0.021249192 4.60E-10 9.336823843 -0.22565856 ANIVHLMLSSPEQIQK ddPTM_HeLa_SAHA_4h_R1 1 ANIVHLMLSSPEQIQK 16 0 P55060-4;P55060-3;P55060;P55060-2 P55060-4 CSE1L Exportin-2 0 0 114.69 0.00034976 904610 225.84 452.68 139.41 289.44 492.42 573.2 396.49 442.18 272.84 370.62 FALSE FALSE TRUE 249.5948874 467.347129 158.4080688 295.0425297 454.690886 524.3601353 351.8759017 430.8696759 270.9412842 386.599242 0.645616598 1.208867163 0.409747489 0.763174103 1.176129792 1.356340309 0.910182596 1.114512469 0.700832425 1 8.594694999 -5.75928937 24.99999932 0.820522486 1.138429928 0.366191644 0.223951256 54.82187927 637445.5305 0.033822029 0.065088811 1.74E-06 5.75928937 0.317907442 ANK(ac)ITITNDK ddPTM_HeLa_SAHA_4h_R1 2 ANKITITNDK 10 1 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37;P17066 A0A0G2JIW1;P17066 HSPA1B;HSPA1A;HSPA6 Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A;Heat shock 70 kDa protein 6 0 1 ; ANK(1)ITITNDK;ANK(1)ITITNDK 190.57 1.01E-17 12072700 4286.9 5405 3326.3 4341.8 5157.9 6767.1 5254.7 4957.4 5940.6 4369.5 FALSE TRUE FALSE 4737.815811 5580.125546 3779.590841 4425.841817 4762.702816 6190.505009 4663.427326 4830.596886 5899.258881 4557.890529 1.03947556 1.224278098 0.82924125 0.971028547 1.044935763 1.358195194 1.023154746 1.059831704 1.294295869 1 12.15415056 -5.500447981 24.91174011 1.017073738 1.145819218 0.026227709 0.150174663 915.4385446 1016690.812 0.016664404 0.036982525 3.16E-06 5.500447981 0.12874548 ANK(ac)ITITNDKGR ddPTM_HeLa_SAHA_4h_R1 2 ANKITITNDKGR 12 2 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37;P17066 A0A0G2JIW1;P17066 HSPA1B;HSPA1A;HSPA6 Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A;Heat shock 70 kDa protein 6 0 1 ; ANK(1)ITITNDKGR;ANK(1)ITITNDKGR 153.81 4.60E-07 13493100 2035.51 1314.45 2238.41 2461.7 2559.7 2494.95 2490.65 2799.16 1527.66 2094.8 FALSE TRUE FALSE 2249.614281 1357.039042 2543.448858 2509.349763 2363.576339 2282.366224 2210.395507 2727.56154 1517.02889 2185.11708 1.029516588 0.621037223 1.16398745 1.148382293 1.081670342 1.044505233 1.011568454 1.248245033 0.694255197 1 11.09349487 ANK(ac)K(ac)KPSMPNVSNDLSQK ddPTM_HeLa_SAHA_4h_R1 2 ANKKKPSMPNVSNDLSQK 18 3 Q92793;Q92793-2 Q92793 CREBBP CREB-binding protein 0 2 ; ANK(0.979)K(0.623)K(0.398)PSMPNVSNDLSQK;ANK(0.858)K(0.834)K(0.309)PSMPNVSNDLSQK 93.342 0.0060154 7610900 0 69.419 0 834.34 670.02 825.58 735.19 712.42 220.51 194.15 FALSE TRUE FALSE 0 71.66822115 0 850.4898572 618.6832124 755.2359394 652.4644863 694.197328 218.975453 202.5207566 0 0.353880868 0 4.199519453 3.054912605 3.729177947 3.221716614 3.427783598 1.081249431 1 7.661925969 -6.264205674 24.99999308 0.463989136 3.494729921 0.922671527 0.439905344 50.13135898 453055.1768 0.072950172 0.114570437 5.44E-07 6.264205674 3.030740785 ANK(ac)KK(ac)PSMPNVSNDLSQK ddPTM_HeLa_SAHA_4h_R1 1 ANKKKPSMPNVSNDLSQK 18 3 Q92793;Q92793-2 Q92793 CREBBP CREB-binding protein 0 2 ANK(0.825)K(0.306)K(0.869)PSMPNVSNDLSQK 92.427 0.0046193 1924600 0 0 0 147.93 176.29 262.25 190.42 303.78 0 0 FALSE TRUE FALSE 0 0 0 150.7933991 162.7826983 239.9048246 168.9934404 296.0097475 0 0 0 ANKK(ac)K(ac)PSMPNVSNDLSQK ddPTM_HeLa_SAHA_4h_R1 1 ANKKKPSMPNVSNDLSQK 18 3 Q92793;Q92793-2 Q92793 CREBBP CREB-binding protein 0 2 ANK(0.136)K(0.919)K(0.945)PSMPNVSNDLSQK 193.64 1.51E-25 6331800 258.58 340.08 673.96 1804.9 2453.9 2670.1 3023 3153.5 231.15 84.831 FALSE TRUE FALSE 285.7786308 351.0988151 765.803759 1839.836449 2265.882712 2442.592458 2682.844084 3072.838036 229.5414083 88.48847956 3.229557477 3.967734748 8.654276384 20.79181899 25.6065278 27.60350806 30.31856912 34.72585416 2.594025906 1 6.467417736 -6.102085161 0.989642833 1.760018111 31.91619723 0.984651828 1.553237703 0.042420195 0.081753316 0.283247053 0.676245704 7.91E-07 6.102085161 30.15617911 ANLQIDQINTDLNLER ddPTM_HeLa_SAHA_4h_R1 2 ANLQIDQINTDLNLER 16 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ; ; 264.58 3.59E-47 33286000 3784.1 3034.2 2726.4 2815.4 3012.3 3835.7 3639.3 3553.6 3863 3239.1 FALSE FALSE TRUE 4182.129 3132.510071 3097.939594 2869.896138 2781.498225 3508.876781 3229.796386 3462.704058 3836.117068 3378.753453 1.237772764 0.92712005 0.916888325 0.849394955 0.823232078 1.038512229 0.955913603 1.02484662 1.135364602 1 11.72227537 -7.231574839 23.67702154 1.112281581 0.930448601 0.525840442 0.082695383 277.4210556 219943.2679 0.017938606 0.021968063 5.87E-08 7.231574839 -0.18183298 ANLQQAIVT(ph)PLKPVDNTYYK ddPTM_HeLa_SAHA_4h_R1 1 ANLQQAIVTPLKPVDNTYYK 20 1 Q9ULW0;Q9ULW0-2 Q9ULW0 TPX2 Targeting protein for Xklp2 1 0 ANLQQAIVT(0.997)PLKPVDNT(0.002)Y(0.002)YK 73.809 0.0058566 9241200 838.32 754.93 787.43 1106.2 972.56 897.85 925.97 749.49 652.15 731.59 TRUE FALSE FALSE 926.4983439 779.3902273 894.7368596 1127.612101 898.0426629 821.3481288 821.7774186 730.319131 647.6116351 763.1324252 1.214072831 1.021304038 1.172452945 1.477609997 1.176784832 1.076285192 1.076847728 0.957001835 0.848622878 1 9.575789617 -4.347389845 1.725497708 1.134108028 0.919483334 0.094496205 0.155673787 1.348078324 4.471601878 0.020990835 0.447722188 4.49E-05 4.347389845 -0.214624694 ANNSQEPS(ph)PQLASSVASTR ddPTM_HeLa_SAHA_4h_R1 2 ANNSQEPSPQLASSVASTR 19 0 Q96HC4;H0Y8Y3;Q96HC4-7;Q96HC4-4 Q96HC4 PDLIM5 PDZ and LIM domain protein 5 1 0 ANNSQEPS(0.993)PQLAS(0.007)SVASTR;ANNSQEPS(0.995)PQLAS(0.004)SVASTR ; 293.01 3.56E-91 25094000 1499.65 1597.07 1728.7 1768.91 2251.31 1959.54 2032.77 1713.97 1766.98 1835.42 TRUE FALSE FALSE 1657.390068 1648.816116 1964.278233 1803.149811 2078.815114 1792.576168 1804.03737 1670.129129 1754.683442 1914.553939 0.865679485 0.861201183 1.025971739 0.941811967 1.085796055 0.936289196 0.942275552 0.872333286 0.916497262 1 10.90279259 -4.250979398 3.858443607 0.947141223 0.864212379 0.113745245 0.065834726 0.58468462 16.80928034 0.010334309 0.138117346 5.61E-05 4.250979398 -0.082928843 ANPFGGASHAK ddPTM_HeLa_SAHA_4h_R1 1 ANPFGGASHAK 11 0 P62266;D6RD47;D6RDJ2;D6RIX0;D6R9I7 P62266 RPS23 40S ribosomal protein S23 0 0 110.98 0.0042808 2743600 2571.2 2999 2758.5 3100 3096.7 3041.9 3524.4 3178.1 2627.3 2889 FALSE FALSE TRUE 2841.650613 3096.169568 3134.414014 3160.004983 2859.431515 2782.713007 3127.825236 3096.808804 2609.016405 3013.558928 0.942955051 1.027412983 1.040103774 1.048595716 0.948855351 0.923397575 1.037917396 1.027625103 0.865759213 1 11.55725256 -8.054233406 0.003201445 5.27E-05 1.970347929 0.09452762 0.056128802 57877.91388 104.1013474 32194.30162 31871.04983 8.83E-09 8.054233406 1.970295206 ANPQVGVAFPHIK ddPTM_HeLa_SAHA_4h_R1 1 ANPQVGVAFPHIK 13 0 P13010 P13010 XRCC5 X-ray repair cross-complementing protein 5 0 0 121.02 0.00065036 1893400 1255 1247.3 1104.7 1241.4 1187.1 1190.1 1451 1145 1070.9 1109.8 FALSE FALSE TRUE 1387.006658 1287.713338 1255.242763 1265.429092 1096.144654 1088.696785 1287.729661 1115.712558 1063.44752 1157.648909 1.198123755 1.112352224 1.084303499 1.093102651 0.94687141 0.940437792 1.112366324 0.963774551 0.918626979 1 10.17698207 -5.783515707 22.76975257 1.096503355 0.995939646 0.112807073 0.084716652 91.33620684 94204.98769 0.012547263 0.022764305 1.65E-06 5.783515707 -0.100563709 ANQISPSNSSLKNPQAGVPPFSSLK(ac)GK ddPTM_HeLa_SAHA_4h_R1 1 ANQISPSNSSLKNPQAGVPPFSSLKGK 27 2 Q86UU0-3;Q86UU0-4;Q86UU0-2;Q86UU0;A0A087WZX0 Q86UU0-3 BCL9L B-cell CLL/lymphoma 9-like protein 0 1 ANQISPSNSSLKNPQAGVPPFSSLK(1)GK 133.1 1.26E-13 2675300 122.23 74.934 60.889 162.81 169 159.32 130.32 124.48 0 162.3 FALSE TRUE FALSE 135.0867122 77.36191077 69.18663582 165.961423 156.0512565 145.7450397 115.6560506 121.2959818 0 169.2975473 0.797924804 0.456958249 0.408668861 0.980294314 0.921757338 0.860880988 0.683152547 0.716466268 0 1 7.403417262 -8.437470219 1.132547502 0.968018033 0.731327975 0 0.352008011 0.485153366 1.267213823 0.0589333 0.037697182 3.65E-09 8.437470219 -0.236690059 ANS(ph)DIISLNFR ddPTM_HeLa_SAHA_4h_R1 2 ANSDIISLNFR 11 0 Q8TC76 Q8TC76 FAM110B Protein FAM110B 1 0 ANS(1)DIISLNFR;ANS(1)DIISLNFR ; 177.93 4.26E-05 10560100 1184.66 1375.19 1456.83 1476.15 1551.44 1704.35 1683.48 1313.87 1290.87 1463.87 TRUE FALSE FALSE 1309.267974 1419.747058 1655.359206 1504.723018 1432.569002 1559.129792 1494.0504 1280.263108 1281.886731 1526.9846 0.857420549 0.929771694 1.084070662 0.985421214 0.938168599 1.021051419 0.978431872 0.838425684 0.839488971 1 10.5764698 ANS(ph)FVGTAQYVSPELLTEK ddPTM_HeLa_SAHA_4h_R1 1 ANSFVGTAQYVSPELLTEK 19 0 E9PER6;Q6A1A2;O15530-4;O15530-5;O15530;O15530-2 E9PER6 PDPK1;PDPK2P Putative 3-phosphoinositide-dependent protein kinase 2;3-phosphoinositide-dependent protein kinase 1 1 0 ANS(0.997)FVGT(0.003)AQYVSPELLTEK 140.04 7.20E-05 8917700 1317.3 1213.3 1397.7 1223 1390.4 1322.1 1509.9 1267.3 1253.1 1164.6 TRUE FALSE FALSE 1455.859658 1252.611716 1588.171277 1246.672933 1283.867852 1209.449642 1340.002078 1234.884301 1244.379575 1214.811605 1.198424226 1.031116027 1.307339566 1.026227382 1.056845232 0.995586177 1.103053405 1.016523299 1.024339552 1 10.24651688 ANS(ph)PEKPPEAGAAHKPR ddPTM_HeLa_SAHA_4h_R1 4 ANSPEKPPEAGAAHKPR 17 2 F8WDB4;Q9UFC0 F8WDB4 LRWD1 Leucine-rich repeat and WD repeat-containing protein 1 1 0 ANS(1)PEKPPEAGAAHKPR;ANS(1)PEKPPEAGAAHKPR;ANS(1)PEKPPEAGAAHKPR;ANS(1)PEKPPEAGAAHKPR ;;; 82.837 0.003194 308421000 18564.7 17577.2 16438.2 19265.3 18537.4 20805.8 21409 20795.3 19812.4 19057.8 TRUE FALSE FALSE 20517.42032 18146.71281 18678.31229 19638.20774 17117.06842 19033.02879 19000.00297 20263.38634 19674.5239 19879.47502 1.032090651 0.912836621 0.939577744 0.987863498 0.861042276 0.957421097 0.955759795 1.019311944 0.989690315 1 14.27899204 -7.269934307 24.97777074 1.015153919 0.946273205 0.300623266 0.041073979 464.6612482 1366248.244 0.006767961 0.007806273 5.37E-08 7.269934307 -0.068880714 ANS(ph)TSDSVFTETPSPVLK ddPTM_HeLa_SAHA_4h_R1 2 ANSTSDSVFTETPSPVLK 18 0 C9JEZ4;Q9UKI2 C9JEZ4 CDC42EP3 Cdc42 effector protein 3 1 0 ANS(0.573)T(0.019)S(0.36)DS(0.048)VFTETPSPVLK;ANS(0.493)T(0.493)S(0.015)DSVFTETPSPVLK ; 231.42 7.52E-29 23075000 1584.36 2028.17 2026.1 1145.54 2174.2 2322.5 2235.5 1182.79 974.87 1552.68 TRUE FALSE FALSE 1751.010254 2093.884039 2302.206357 1167.713583 2007.613266 2124.609934 1983.955656 1152.535944 968.0858003 1619.623633 1.081121699 1.292821366 1.421445272 0.720978355 1.239555428 1.311792376 1.224948572 0.711607265 0.597722693 1 10.66144288 -7.826449893 2.169895805 1.026626084 1.142157963 0.086963217 0.263725346 0.706064549 6.869173724 0.044545229 0.042785455 1.49E-08 7.826449893 0.115531879 ANSGGVDLDS(ph)SGEFASIEK ddPTM_HeLa_SAHA_4h_R1 2 ANSGGVDLDSSGEFASIEK 19 0 A0A087X055;Q92766;Q92766-2;Q92766-5;Q92766-3 A0A087X055 RREB1 Ras-responsive element-binding protein 1 1 0 ANS(0.182)GGVDLDS(0.409)S(0.409)GEFASIEK;ANS(0.014)GGVDLDS(0.483)S(0.483)GEFAS(0.019)IEK ; 120.9 0.00034129 6481900 2056.34 1665.83 1302.93 1172.67 1506.64 1746.57 1381.11 1777.92 1409.7 1519.5 TRUE FALSE FALSE 2272.635276 1719.803985 1480.486515 1195.368724 1391.201569 1597.75241 1225.703868 1732.443381 1399.889783 1585.013081 1.433827457 1.085040878 0.934053184 0.754169627 0.877722452 1.008037365 0.773308361 1.093015194 0.88320393 1 10.63027903 -6.864962125 3.620912637 1.206780125 0.895859375 0.16559351 0.170019629 0.180867072 4.604650639 0.02968543 0.039878853 1.36E-07 6.864962125 -0.31092075 ANSPS(ph)LFGTEGKPK ddPTM_HeLa_SAHA_4h_R1 3 ANSPSLFGTEGKPK 14 1 Q5JPT2;Q96B97-2;Q96B97;Q96B97-3 Q5JPT2 SH3KBP1 SH3 domain-containing kinase-binding protein 1 1 0 ANS(0.236)PS(0.764)LFGTEGKPK;ANS(0.099)PS(0.888)LFGT(0.012)EGKPK;ANS(0.072)PS(0.92)LFGT(0.008)EGKPK ;; 93.738 0.0043639 68480000 22634.7 21704 21031.6 22373.5 23880.6 25906.6 24078.1 23233.9 25294.3 23020.9 TRUE FALSE FALSE 25015.5216 22407.22384 23897.67692 22806.57145 22050.87359 23699.21193 21368.76882 22639.61048 25118.27491 24013.44366 1.041729872 0.933111642 0.995179086 0.94974181 0.918272027 0.986914341 0.889866906 0.942788998 1.046008863 1 14.55155469 -6.805597753 1.16518967 1.018812909 0.93651028 0.529688806 0.033840902 0.254886717 0.690190559 0.006280637 0.009310867 1.56E-07 6.805597753 -0.082302629 ANSTS(ph)DSVFTETPSPVLK ddPTM_HeLa_SAHA_4h_R1 2 ANSTSDSVFTETPSPVLK 18 0 C9JEZ4;Q9UKI2 C9JEZ4 CDC42EP3 Cdc42 effector protein 3 1 0 ANS(0.032)T(0.085)S(0.881)DS(0.001)VFTETPSPVLK;ANS(0.007)T(0.002)S(0.825)DS(0.009)VFT(0.157)ETPSPVLK ; 244.27 1.39E-37 118379000 7061.4 9882.1 8617.4 4850.1 10489.8 12254.6 11006.9 5312.2 4734.9 7223.7 TRUE FALSE FALSE 7804.150451 10202.28652 9791.734395 4943.980699 9686.07379 11210.43914 9768.374643 5176.321616 4701.949445 7535.149059 1.035699545 1.353959483 1.299474545 0.656122481 1.285452181 1.487752804 1.29637444 0.686956764 0.624002181 1 12.87942034 -7.488359458 23.47638329 1.015749607 1.164754073 0.105056348 0.288249699 474.6010951 322778.1413 0.044353206 0.049145358 3.25E-08 7.488359458 0.149004465 ANSTSDSVFTETPS(ph)PVLK ddPTM_HeLa_SAHA_4h_R1 4 ANSTSDSVFTETPSPVLK 18 0 C9JEZ4;Q9UKI2 C9JEZ4 CDC42EP3 Cdc42 effector protein 3 1 0 ANSTSDSVFTET(0.179)PS(0.821)PVLK;ANSTSDSVFTET(0.337)PS(0.663)PVLK;ANSTSDSVFTET(0.347)PS(0.653)PVLK;ANSTSDSVFTET(0.364)PS(0.636)PVLK ;;; 194.1 3.56E-13 23560500 6116.3 5352.84 5506.43 8551.96 8679.36 6894.97 8186.81 7788.42 7179.35 5640.06 TRUE FALSE FALSE 6759.640497 5526.275528 6256.817604 8717.495552 8014.349312 6307.479766 7265.608592 7589.203494 7129.388319 5883.230588 1.148967458 0.939326692 1.063500318 1.481753166 1.362236137 1.072111601 1.234969203 1.28997213 1.211815211 1 12.52239287 -6.388951859 13.12698648 1.059584893 1.277337352 0.446289122 0.119265407 0.503035327 50.56705567 0.018162218 0.027743675 4.08E-07 6.388951859 0.217752459 ANSWQLVET(ph)PEK ddPTM_HeLa_SAHA_4h_R1 2 ANSWQLVETPEK 12 0 F8WF49;A0A0B4J2C2;Q9Y2H0-3;Q9Y2H0-1;Q9Y2H0 F8WF49 DLGAP4 Disks large-associated protein 4 1 0 ANSWQLVET(1)PEK;ANSWQLVET(1)PEK ; 175.66 7.90E-05 24301000 3956.3 3825.6 2953.4 3544.2 3952.9 4279.8 4131.3 3631.7 5134.4 4221.3 TRUE FALSE FALSE 4372.441786 3949.55195 3355.873971 3612.803116 3650.029656 3915.136963 3666.435251 3538.806373 5098.669292 4403.300902 0.992991822 0.896952545 0.762126879 0.820476092 0.828930327 0.88913682 0.832656076 0.803671257 1.157919798 1 12.10436972 -7.101543366 3.304231972 0.996834016 0.826364619 0.728292312 0.059311695 0.061035836 1.261034977 0.005235032 0.006542541 7.92E-08 7.101543366 -0.170469397 ANSWQLVET(ph)PEKR ddPTM_HeLa_SAHA_4h_R1 1 ANSWQLVETPEKR 13 1 F8WF49;A0A0B4J2C2;Q9Y2H0-3;Q9Y2H0-1;Q9Y2H0 F8WF49 DLGAP4 Disks large-associated protein 4 1 0 ANSWQLVET(1)PEKR 125.96 0.0012315 31137000 2261.9 2211.2 2335.4 2578.7 2398 2642.5 2643.6 2244.9 2808.2 2364.5 TRUE FALSE FALSE 2499.81702 2282.844331 2653.65615 2628.614467 2214.265758 2417.344134 2346.13517 2187.478709 2788.657508 2466.445167 1.013530345 0.925560544 1.07590316 1.065750215 0.897755923 0.980092388 0.951221297 0.886895334 1.130638356 1 11.2682175 -5.751969079 24.99946723 1.009305244 0.934229182 0.393113216 0.059517752 156.823098 413974.4008 0.006443881 0.012749226 1.77E-06 5.751969079 -0.075076063 ANTFVAELK ddPTM_HeLa_SAHA_4h_R1 2 ANTFVAELK 9 0 P40926;G3XAL0 P40926 MDH2 "Malate dehydrogenase, mitochondrial;Malate dehydrogenase" 0 0 ; ; 163.88 3.37E-07 3064400 1742.93 2337.2 2302.9 1824.07 2400.7 1954.01 2729.5 1561.31 2088.45 2323.2 FALSE FALSE TRUE 1926.259374 2412.926813 2616.727219 1859.377512 2216.758885 1787.517355 2422.369476 1521.373951 2073.916306 2423.364521 0.794869842 0.995692886 1.079791008 0.76727108 0.914744301 0.737618026 0.999589395 0.627794101 0.855800392 1 11.24279572 -4.248690838 24.30102591 0.904781575 0.62779384 0.368838786 0.108802592 1259.473427 2400721.801 0.015754993 0.371938166 5.64E-05 4.248690838 -0.276987735 ANTIPIIGS(ph)PSSK ddPTM_HeLa_SAHA_4h_R1 1 ANTIPIIGSPSSK 13 0 E9PGM7;O94988-6;O94988-5;O94988-1;O94988 E9PGM7 FAM13A Protein FAM13A 1 0 ANTIPIIGS(0.89)PS(0.093)S(0.018)K 132.84 0.0006406 5938000 3022.2 3042.5 3189.7 4140.5 3898.3 4006.4 3969.2 4587.6 3330.2 2984.7 TRUE FALSE FALSE 3340.088862 3141.078996 3624.375705 4220.645365 3599.613096 3665.032181 3522.57517 4470.255835 3307.024867 3113.385024 1.07281587 1.008895133 1.164127044 1.355645168 1.156173447 1.177185652 1.131429342 1.435818506 1.062195919 1 11.60426829 -6.610782793 4.401908242 1.033773733 1.237424275 0.561277103 0.089103769 0.119633753 4.269846169 0.013588872 0.019470401 2.45E-07 6.610782793 0.203650542 APAGPSLEETSVSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 APAGPSLEETSVSSPK 16 0 A0A087WXZ7;K7EIX2;Q6AI08 A0A087WXZ7 HEATR6 HEAT repeat-containing protein 6 1 0 APAGPSLEETSVS(0.021)S(0.979)PK 134.68 0.00012352 10599000 1317.7 1043.5 1062.2 1693.2 990.14 1952.2 1348.2 2035.1 1637.1 1059.3 TRUE FALSE FALSE 1456.301732 1077.310085 1206.951084 1725.974334 914.2756871 1785.861577 1196.496988 1983.045089 1625.707288 1104.971607 1.317953984 0.974966305 1.092291491 1.562007859 0.827420072 1.616205852 1.082830527 1.794657054 1.471266119 1 10.10979358 -1.197913206 0.904823789 1.155098698 199.9997421 0.263608019 0.263863994 514.9716464 1.585239076 0.035556218 210807.7592 0.06339964 1.197913206 198.8446434 APAPAAPRS(ph)PNLAGK ddPTM_HeLa_SAHA_4h_R1 2 APAPAAPRSPNLAGK 15 1 Q9Y4B5 Q9Y4B5 MTCL1 Microtubule cross-linking factor 1 1 0 APAPAAPRS(1)PNLAGK;APAPAAPRS(1)PNLAGK ; 106.82 0.0015923 24447000 6356.8 5358.6 6306.7 5771.4 5773.1 5173 6158.7 5984.8 3972.5 5624.2 TRUE FALSE FALSE 7025.43739 5532.222156 7166.144232 5883.113793 5330.766325 4732.231297 5465.706867 5831.717482 3944.855049 5866.686786 1.19751363 0.942989179 1.221497669 1.002800048 0.908650235 0.806627569 0.931651385 0.994039344 0.672416168 1 12.51833026 -5.945634558 4.144347995 1.091593448 0.905857838 0 0.159104281 0.156711675 5.626813795 0.014870139 0.027393878 1.13E-06 5.945634558 -0.18573561 APAQK(ac)APAPK ddPTM_HeLa_SAHA_4h_R1 2 APAQKAPAPK 10 1 P50914 P50914 RPL14 60S ribosomal protein L14 0 1 ; APAQK(1)APAPK;APAQK(1)APAPK 153.08 3.31E-06 17097800 7528 9354.4 11787 9871.1 11898.7 5995.6 12989.7 5529.8 1042.16 2368.4 FALSE TRUE FALSE 8319.82958 9657.488698 13393.27098 10062.16941 10987.02418 5484.74115 11528.06477 5388.355723 1034.907524 2470.513315 3.367652192 3.909102064 5.421250271 4.072906369 4.447263697 2.220081599 4.666262959 2.181067267 0.418903844 1 11.27059512 -8.691609383 0.745318772 1.076351695 3.874740562 0.595536512 0.99538985 0.353530244 0.388348821 0.518447509 0.207735331 2.03E-09 8.691609383 2.798388867 APASVLPAAT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 APASVLPAATPR 12 0 P13861-2;P13861;C9J830 P13861-2 PRKAR2A cAMP-dependent protein kinase type II-alpha regulatory subunit 1 0 APASVLPAAT(1)PR;APASVLPAAT(1)PR ; 149.69 0.00066818 27162000 3588.1 3459.8 3167.6 3327.9 4305.9 4368.3 4022 4026.4 3394.6 3809 TRUE FALSE FALSE 3965.512821 3571.89979 3599.264032 3392.316317 3975.982872 3996.096265 3569.433975 3923.410518 3370.976702 3973.224631 0.998059055 0.898992663 0.905879825 0.853794243 1.000694207 1.005756441 0.898372055 0.987462548 0.848423388 1 11.95609464 -7.287698709 22.15411552 0.999083466 0.935282805 0 0.066972053 172.0094876 145118.0246 0.00811227 0.009279668 5.16E-08 7.287698709 -0.063800661 APDSGLPSGGGGRPGCAYPGS(ph)PGPGAR ddPTM_HeLa_SAHA_4h_R1 1 APDSGLPSGGGGRPGCAYPGSPGPGAR 27 1 Q6PJ61 Q6PJ61 FBXO46 F-box only protein 46 1 0 APDS(0.001)GLPS(0.099)GGGGRPGCAY(0.34)PGS(0.561)PGPGAR 56.041 0.0057599 5841300 544.57 440.68 437.8 421.45 594.03 655.43 557.67 630.96 571.22 371.88 TRUE FALSE FALSE 601.8503712 454.9583211 497.461104 429.6077742 548.5155497 599.5836767 494.9195039 614.8209568 567.2448335 387.9135667 1.551506374 1.17283426 1.282401923 1.107483241 1.414014865 1.545663076 1.275849948 1.584943167 1.462296971 1 8.599591423 -9.518888045 1.240761575 0.997642044 1.376307247 0 0.208552473 0.358468819 0.978019654 0.116225409 0.02721186 3.03E-10 9.518888045 0.378665203 APEEGDAEVMQLGSS(ph)SPPPAR ddPTM_HeLa_SAHA_4h_R1 1 APEEGDAEVMQLGSSSPPPAR 21 0 Q6NUJ5-2;Q6NUJ5 Q6NUJ5-2 PWWP2B PWWP domain-containing protein 2B 1 0 APEEGDAEVMQLGS(0.119)S(0.44)S(0.44)PPPAR 117.29 4.35E-05 2422600 307.79 406.81 289.47 365.88 394.01 412.94 389.11 251.44 494.9 252.47 TRUE FALSE FALSE 340.1647644 419.9909109 328.9174641 372.9621365 363.8210389 377.7551889 345.3263187 245.0085289 491.4559506 263.3552173 1.291657587 1.594769662 1.248949869 1.41619422 1.381484076 1.434394172 1.311256797 0.930334821 1.866133338 1 8.04086623 -8.759724796 0.868707801 1.016608206 1.33686286 0 0.311407694 0.435338727 0.649128624 0.07712394 0.03271149 1.74E-09 8.759724796 0.320254654 APEEGDAEVMQLGSSS(ph)PPPAR ddPTM_HeLa_SAHA_4h_R1 1 APEEGDAEVMQLGSSSPPPAR 21 0 Q6NUJ5-2;Q6NUJ5 Q6NUJ5-2 PWWP2B PWWP domain-containing protein 2B 1 0 APEEGDAEVMQLGS(0.42)S(0.144)S(0.436)PPPAR 101.38 0.00019079 0 248 203.25 176.06 170.39 183.48 164.83 208.39 319.17 228.12 283.17 TRUE FALSE FALSE 274.0857779 209.8354334 200.0525399 173.6881448 169.421802 150.7855567 184.9414087 311.0060936 226.5324943 295.3788445 0.927912689 0.710394252 0.677274435 0.588018228 0.573574598 0.51048191 0.62611596 1.052905783 0.766921865 1 8.206422691 -7.249326861 2.064440329 0.972637098 0.652677001 0.26920633 0.153563804 0.185730234 1.500105391 0.025056522 0.029841562 5.63E-08 7.249326861 -0.319960096 APELPNTSS(ph)SPSLK ddPTM_HeLa_SAHA_4h_R1 2 APELPNTSSSPSLK 14 0 Q9UN79 Q9UN79 SOX13 Transcription factor SOX-13 1 0 APELPNT(0.033)S(0.007)S(0.767)S(0.187)PS(0.006)LK;APELPNTS(0.001)S(0.499)S(0.499)PSLK ; 191.01 1.33E-08 22085000 3973 4175.8 4063.3 4123.6 3969 3593.3 3386 3616.8 3946 3454.7 TRUE FALSE FALSE 4390.898369 4311.09866 4617.025363 4203.418241 3664.896077 3287.130625 3004.998369 3524.287493 3918.539465 3603.649024 1.21845894 1.1963148 1.28120839 1.16643386 1.016995843 0.912167251 0.833876537 0.977977453 1.087380996 1 11.81524279 -5.484789749 3.009060839 1.131796187 0.901268062 0.652143683 0.081091919 0.175236322 3.165193222 0.016015127 0.037524505 3.27E-06 5.484789749 -0.230528125 APEPPKTDK(ac)PGAAPPSTEER ddPTM_HeLa_SAHA_4h_R1 1 APEPPKTDKPGAAPPSTEER 20 2 Q93074-3;Q93074;Q93074-2;Q7Z3Z5 Q93074-3 MED12;TNRC11 Mediator of RNA polymerase II transcription subunit 12 0 1 APEPPKTDK(1)PGAAPPSTEER 105.99 1.66E-05 0 388.33 246.22 269.15 365.3 384.68 362.07 377.5 422.84 467.9 307.53 FALSE TRUE FALSE 429.1763311 254.1976896 305.8283603 372.3709097 355.2059015 331.219599 335.0227065 412.0243651 464.6438458 320.7891233 1.337876817 0.79241368 0.953362624 1.160796557 1.107287859 1.032515054 1.044370529 1.284408775 1.44844015 1 8.325481416 -9.945740195 2.232999263 0.998365561 1.133254594 0 0.207226695 0.736016905 6.655775867 0.138933984 0.026021815 1.13E-10 9.945740195 0.134889033 APES(ph)DTGDEDQDQERDTVFLK ddPTM_HeLa_SAHA_4h_R1 1 APESDTGDEDQDQERDTVFLK 21 1 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 APES(0.977)DT(0.021)GDEDQDQERDT(0.002)VFLK 68.705 0.0031268 16313000 660.45 1006.3 772.55 750.34 930.51 1124.3 1090.6 834.86 805.03 609.01 TRUE FALSE FALSE 729.9191613 1038.90478 877.8290907 764.8639157 859.2145248 1028.503315 967.8828177 813.5054901 799.4277307 635.2674015 1.148995147 1.635381853 1.381826123 1.204003092 1.352524186 1.619008487 1.523583322 1.280571753 1.258411385 1 9.31122018 -7.447148211 5.195256604 1.063855343 1.425813657 0.445786737 0.145401396 0.11297275 5.290335771 0.024440463 0.027539478 3.57E-08 7.447148211 0.361958314 APES(ph)PPSADPALVAGPAEEAECPPPR ddPTM_HeLa_SAHA_4h_R1 2 APESPPSADPALVAGPAEEAECPPPR 26 0 Q6EEV4-2;Q6EEV4 Q6EEV4-2 POLR2M "DNA-directed RNA polymerase II subunit GRINL1A, isoforms 4/5" 1 0 APES(0.976)PPS(0.024)ADPALVAGPAEEAECPPPR;APES(0.607)PPS(0.393)ADPALVAGPAEEAECPPPR ; 127.42 2.33E-08 6938200 668.82 972.75 654.4 759.64 832.51 1089.33 664.53 878.61 1143.15 846.06 TRUE FALSE FALSE 739.1695563 1004.267738 743.578224 774.3439307 768.7232637 996.5129556 589.7553355 856.1364284 1135.194726 882.5377871 0.837550037 1.137931716 0.842545481 0.877405978 0.871037223 1.129144803 0.668249387 0.970084727 1.286284556 1 9.785514241 APEYLHR ddPTM_HeLa_SAHA_4h_R1 4 APEYLHR 7 0 Q9UN86-2;Q9UN86;D6RB17;D6RGJ4;D6R9A4;D6RBM9;D6REX8;D6RBR0;D6RE13;D6RBW8;D6R9X5;D6RAC7 Q9UN86-2 G3BP2 Ras GTPase-activating protein-binding protein 2 0 0 ;;; ;;; 128.86 0.0018013 10018800 6658.2 6456.3 6820.7 6961 7596.9 6440.8 7794.1 5699.3 5441.4 5861.2 FALSE FALSE TRUE 7358.540025 6665.488356 7750.189475 7095.740221 7014.827163 5892.007605 6917.087355 5553.520158 5403.532854 6113.905016 1.203574476 1.090217846 1.267633281 1.160590523 1.147356255 0.963706108 1.131369777 0.908342564 0.883810403 1 12.57787842 -4.257534214 24.13450131 1.109607767 0.908342439 0.190749056 0.110887853 255.6872165 1580074.003 0.013865004 0.138675744 5.53E-05 4.257534214 -0.201265328 APGAPPRS(ph)PPQR ddPTM_HeLa_SAHA_4h_R1 1 APGAPPRSPPQR 12 1 H3BN50;Q15599-3 H3BN50 SLC9A3R2 Na(+)/H(+) exchange regulatory cofactor NHE-RF2 1 0 APGAPPRS(1)PPQR 88.596 0.0082074 64264000 1467.4 1425.1 1187.4 1162.8 1434 1488.4 1418.6 1155.4 1238.3 1295.6 TRUE FALSE FALSE 1621.747865 1471.274175 1349.212688 1185.307675 1324.12723 1361.579946 1258.975394 1125.846541 1229.682569 1351.459657 1.199997245 1.088655638 0.998337377 0.877057387 0.979775625 1.007488414 0.931567131 0.833059674 0.909892177 1 10.40030273 -6.61906712 3.446416088 1.096727681 0.933665644 0.246543277 0.087269152 0.170668481 4.011795855 0.013961597 0.020227561 2.40E-07 6.61906712 -0.163062037 APGASPGNPLS(ph)PSLSDKDR ddPTM_HeLa_SAHA_4h_R1 1 APGASPGNPLSPSLSDKDR 19 1 A0A1W2PQJ7;Q7Z5J4-3;Q7Z5J4-2;Q7Z5J4 A0A1W2PQJ7 RAI1 Retinoic acid-induced protein 1 1 0 APGASPGNPLS(0.978)PS(0.018)LS(0.004)DKDR 96.467 0.00055722 0 1045 1058.3 1080.1 1085.7 1241.2 1450.2 1454.7 1110.3 1225.7 1131.4 TRUE FALSE FALSE 1154.917895 1092.589614 1227.290403 1106.715293 1146.099524 1326.634801 1291.013327 1081.900134 1217.170254 1180.180191 0.978594543 0.925782031 1.039917813 0.937751118 0.971122489 1.124095127 1.093912046 0.916724532 1.031342725 1 10.20479143 -5.319973953 24.99976062 0.983497546 1.049811325 0.176865838 0.060432443 276.441572 118066.1817 0.007823657 0.017494235 4.79E-06 5.319973953 0.066313779 APGYPS(ph)SPVTTASGTTLR ddPTM_HeLa_SAHA_4h_R1 1 APGYPSSPVTTASGTTLR 18 0 Q9HCK8-2;Q9HCK8;H0YJG4;H0YJA4 Q9HCK8-2 CHD8 Chromodomain-helicase-DNA-binding protein 8 1 0 APGYPS(0.935)S(0.065)PVTTASGTTLR 160.8 6.18E-06 19454000 1199.6 1051 918.72 1187.3 1466.6 1225 1311.6 1110.2 955.71 1075.1 TRUE FALSE FALSE 1325.779432 1085.05309 1043.918377 1210.281908 1354.229425 1120.623108 1164.015316 1081.802692 949.0591363 1121.452822 1.182198132 0.967542341 0.930862499 1.079208937 1.207567004 0.999260144 1.037952995 0.96464396 0.84627647 1 10.13115321 -7.237727154 24.8967064 1.086038022 1.031383287 0 0.112770654 1769.971736 1858389.874 0.016670957 0.020410808 5.78E-08 7.237727154 -0.054654735 APGYPSS(ph)PVTTASGTTLR ddPTM_HeLa_SAHA_4h_R1 3 APGYPSSPVTTASGTTLR 18 0 Q9HCK8-2;Q9HCK8;H0YJG4;H0YJA4 Q9HCK8-2 CHD8 Chromodomain-helicase-DNA-binding protein 8 1 0 APGYPS(0.012)S(0.979)PVT(0.007)T(0.001)ASGTTLR;APGYPS(0.137)S(0.862)PVT(0.001)TASGTTLR;APGYPS(0.133)S(0.824)PVT(0.021)T(0.021)AS(0.001)GTTLR ;; 217.32 8.77E-22 126221000 4074.92 3639.8 3388.38 3486.87 3969.86 3358.88 3892.83 3401.92 3390.33 3592.44 TRUE FALSE FALSE 4503.538782 3757.731908 3850.13078 3554.363411 3665.690184 3072.684527 3454.798523 3314.903812 3366.736417 3747.327669 1.201800104 1.002776442 1.027433713 0.948506169 0.978214479 0.819966867 0.921936598 0.884604738 0.898436623 1 11.87164642 -6.222779167 1.16264929 1.092036634 0.888614852 0.228234062 0.086406712 0.276669511 0.738058662 0.014421681 0.0295523 5.99E-07 6.222779167 -0.203421782 APIDTS(ph)DVEEK ddPTM_HeLa_SAHA_4h_R1 2 APIDTSDVEEK 11 0 D6RIY6;Q06265-3;Q06265-4;Q06265;Q06265-2 D6RIY6 EXOSC9 Exosome complex component RRP45 1 0 APIDT(0.042)S(0.958)DVEEK;APIDT(0.231)S(0.769)DVEEK ; 149.57 0.00054063 48654000 2486 3719.7 2401.1 2528.1 3168.4 4199.8 2506.7 2381.8 5336.9 3181.7 TRUE FALSE FALSE 2747.488886 3840.220721 2728.309404 2577.035031 2925.637876 3841.953413 2224.639519 2320.877005 5299.760078 3318.878658 0.827836498 1.157083797 0.822057594 0.776477629 0.881513962 1.157605869 0.67029854 0.699295528 1.596852619 1 11.69648017 -4.711908005 24.99978493 0.92718599 0.684795702 0.150633906 0.246138862 89.80761838 45326.88578 0.017512442 0.065525357 1.94E-05 4.711908005 -0.242390288 APIIAVTR ddPTM_HeLa_SAHA_4h_R1 2 APIIAVTR 8 0 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BR70 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ; ; 119.56 0.003741 15292300 2827.3 2978.5 3441.1 3402.4 3148.1 2691.64 3959.4 2329.68 1312.7 2534.46 FALSE FALSE TRUE 3124.688386 3075.005354 3910.035188 3468.258372 2906.893258 2462.297129 3513.877891 2270.090159 1303.564814 2643.732974 1.181922841 1.163130083 1.478982645 1.311879228 1.099541174 0.931371343 1.329134949 0.858668474 0.493077337 1 11.36836075 -2.798482137 13.35496243 1.126668347 0.515127599 0 0.270552555 0 0 0.024406866 0 0.001590442 2.798482137 -0.611540749 APIRPDIVNFVHTNLRK ddPTM_HeLa_SAHA_4h_R1 1 APIRPDIVNFVHTNLRK 17 2 P36578;H3BTP7;H3BU31 P36578 RPL4 60S ribosomal protein L4 0 0 37.654 0.023313 2984800 3002.7 1571 2703.3 2219.3 2325.8 1284.8 3298.1 611.49 1176.5 2293.1 FALSE FALSE TRUE 3318.537763 1621.901431 3071.691646 2262.257761 2147.597706 1175.327812 2926.989108 595.8489712 1168.312641 2391.966763 1.387367841 0.678061859 1.284169869 0.945773075 0.897837604 0.491364608 1.223674657 0.249104202 0.488431804 1 11.22398163 -4.138136805 0.438737888 1.164445795 2.71E-13 0.032932185 0.354394628 4.577814709 0.548826364 0.068496771 2.833512637 7.28E-05 4.138136805 -1.164445795 APKPDGPGGGPGGSHMGGNYGDDR ddPTM_HeLa_SAHA_4h_R1 1 APKPDGPGGGPGGSHMGGNYGDDR 24 1 H3BPE7;P35637-2;P35637 H3BPE7 FUS RNA-binding protein FUS 0 0 73.994 0.00054004 5711300 1794.1 1700.8 1768.6 1707 1532.3 1827.4 1763.9 1869.2 1947.5 2051 FALSE FALSE TRUE 1982.81167 1755.907036 2009.615598 1740.041453 1414.895505 1671.695239 1565.42133 1821.388571 1933.947189 2139.428647 0.926794952 0.820736433 0.939323496 0.813320629 0.661342694 0.781374617 0.731700649 0.851343452 0.903954984 1 11.06300985 -6.92268813 0.613946362 0.984504382 0.753091411 0.53215017 0.06677109 0.300440789 0.240041005 0.016992951 0.02617876 1.19E-07 6.92268813 -0.231412971 APLATGEDDDDEVPDLVENFDEASK ddPTM_HeLa_SAHA_4h_R1 1 APLATGEDDDDEVPDLVENFDEASK 25 0 P20290;P20290-2 P20290 BTF3 Transcription factor BTF3 0 0 88.222 5.28E-05 1598400 191.36 167.42 0 138.52 162.41 153.73 212.02 170.13 263.38 217.88 FALSE FALSE TRUE 211.4881228 172.8445178 0 141.2012549 149.9661809 140.6313391 188.1629516 165.7783209 261.5471171 227.2738731 0.930543049 0.760512044 0 0.621282389 0.659847869 0.618774773 0.827912813 0.729420935 1.150801514 1 7.828288034 -7.113974341 4.316313277 0.966185168 0.581686376 0.450061419 0.217817315 0.17075873 5.307443663 0.035895583 0.044432018 7.69E-08 7.113974341 -0.384498791 APLATGEDDDDEVPDLVENFDEASKNEAN ddPTM_HeLa_SAHA_4h_R1 3 APLATGEDDDDEVPDLVENFDEASKNEAN 29 1 P20290;P20290-2 P20290 BTF3 Transcription factor BTF3 0 0 ;; ;; 143.05 8.18E-14 23516000 4857.5 5197.4 4672.7 5299.5 5477.8 6704.1 5521.4 5445.2 5192.7 5158.5 FALSE FALSE TRUE 5368.434137 5365.79917 5309.471222 5402.079486 5058.092147 6132.872964 4900.11754 5305.919669 5156.563578 5380.90818 0.997681796 0.997192108 0.986723996 1.003934523 0.940007147 1.139746816 0.910648793 0.986063967 0.958307298 1 12.39363397 -7.321128993 0.003027344 1.342290321 0.651738867 0 0.057527942 126107.0121 336.0161184 38308.22247 38334.8539 4.77E-08 7.321128993 -0.690551454 APLKPYPVSPS(ph)DK ddPTM_HeLa_SAHA_4h_R1 1 APLKPYPVSPSDK 13 1 J3KR24;A0A0A0MSX9;P41252;Q5TCC6 J3KR24 IARS "Isoleucine--tRNA ligase, cytoplasmic" 1 0 APLKPYPVS(0.098)PS(0.902)DK 95.236 0.0046309 7649300 2252.9 2514.5 2010.2 2417.2 2223.9 2971.8 2557.6 2162.9 3531.6 2556.8 TRUE FALSE FALSE 2489.870359 2595.97145 2284.139587 2463.988401 2053.505262 2718.585921 2269.812117 2107.57615 3507.023308 2667.036161 0.933572029 0.973354425 0.856433678 0.923867639 0.769957788 1.019328482 0.85106162 0.790231562 1.314951541 1 11.38102167 -1 0.071701039 1.126452893 0.375885737 0.334419907 0.120463381 166.4465738 0.888082584 1.620826533 12.63025802 0.1 1 -0.750567156 APLNVQFNS(ph)PLPGDAVK ddPTM_HeLa_SAHA_4h_R1 1 APLNVQFNSPLPGDAVK 17 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 1 0 APLNVQFNS(1)PLPGDAVK 105.9 0.0012828 0 338.78 425.63 134.88 408.87 553.05 632.08 507.5 484 649.88 466.54 TRUE FALSE FALSE 374.4144348 439.4206913 153.260744 416.7842701 510.6754285 578.223228 450.3947643 471.6199808 645.3574322 486.6548226 0.769363453 0.902941204 0.314927001 0.856426877 1.049358611 1.188158837 0.925491218 0.969105738 1.326109189 1 8.926755042 -5.780070396 7.837152803 0.839179002 1.036589564 0.103121678 0.242283774 0.228544426 67.93998378 0.030370225 0.056438447 1.66E-06 5.780070396 0.197410561 APLSPS(ph)LNSRPSPISATPPALVPETR ddPTM_HeLa_SAHA_4h_R1 2 APLSPSLNSRPSPISATPPALVPETR 26 1 X6RKU3;Q6P3S6 X6RKU3 FBXO42 F-box only protein 42 1 0 APLS(0.031)PS(0.564)LNS(0.401)RPS(0.004)PISATPPALVPETR;APLS(0.002)PS(0.269)LNS(0.269)RPS(0.237)PIS(0.096)AT(0.128)PPALVPET(0.001)R ; 76.049 0.00011369 10386000 211.61 306.08 399.68 319.12 388.5 247.78 147.36 395.12 339.54 314.87 TRUE FALSE FALSE 233.8681107 315.9971928 454.146309 325.2970291 358.7332139 226.66775 130.778665 385.0134025 337.1771135 328.4455866 0.712045222 0.962099068 1.382713994 0.990413762 1.092215053 0.690122685 0.398174524 1.172228881 1.026584394 1 8.35951057 -3.943900602 22.01702334 0.887935462 6.059202992 0.073188297 0.2538214 1601.705926 627890.1062 0.03566586 456.8106037 0.000113789 3.943900602 5.17126753 APNPTATS(ph)PPASAPR ddPTM_HeLa_SAHA_4h_R1 1 APNPTATSPPASAPR 15 0 Q8IV32 Q8IV32 CCDC71 Coiled-coil domain-containing protein 71 1 0 APNPT(0.172)AT(0.272)S(0.541)PPAS(0.015)APR 103.66 0.0031971 6955400 1220.2 965.3 1327.6 1544.9 1720 1754.9 1971.9 1655.2 1642.4 1712.1 TRUE FALSE FALSE 1348.546234 996.5763534 1508.518414 1574.803773 1588.213972 1605.372647 1750.016622 1612.862381 1630.970405 1785.91701 0.755100168 0.558019408 0.84467442 0.881790007 0.889298866 0.898906634 0.979898065 0.903100408 0.913239751 1 10.80244933 -5.404301614 1.647466017 0.850811063 0.938048987 0.127653485 0.112035799 0.953889029 4.97200054 0.02141548 0.066116562 3.94E-06 5.404301614 0.087237924 APPEAPHPGK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 APPEAPHPGKR 11 1 A0A669KBI3;F5GXF9;P51825;P51825-3;P51825-2 A0A669KBI3 AFF1 AF4/FMR2 family member 1 0 1 APPEAPHPGK(1)R 106.62 0.002449 1365200 300.18 209.2 398.07 530.72 719.05 761.24 580.2 897.32 294.37 370.18 FALSE TRUE FALSE 331.7543097 215.9782173 452.3169065 540.992853 663.9565443 696.3780694 514.914369 874.3678537 292.3214552 386.1402714 0.859154909 0.559325803 1.171379781 1.401026759 1.719469824 1.8034329 1.333490462 2.264378824 0.757034365 1 8.592981214 -6.137245941 1.877371611 0.904616556 1.75479017 0.750719911 0.250304316 0.129408299 0.893662254 0.036779571 0.068662787 7.29E-07 6.137245941 0.850173613 APPPESWNTVSGK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 APPPESWNTVSGKK 14 1 Q01804-5;Q01804-3;Q01804;D6RI06 Q01804-5 OTUD4 OTU domain-containing protein 4 0 1 APPPESWNTVSGK(1)K 80.522 0.019214 2200600 0 247.46 172.38 263.23 358.56 414.7 344.51 312.19 228.84 191.93 FALSE TRUE FALSE 0 255.4778664 195.8710487 268.3251973 331.0872103 379.365227 305.7448281 304.2046318 227.2474838 200.2050416 0 1.276081083 0.978352229 1.34025195 1.653740623 1.894883485 1.527158486 1.519465391 1.135073732 1 7.645334494 -6.534977936 1.337044101 0.547883975 1.639907842 0.466265063 0.361324635 0.226240136 0.809140838 0.073987202 0.12325987 2.92E-07 6.534977936 1.092023867 APPQTHLPS(ph)GASSGTGSASATHGGGSPPGTR ddPTM_HeLa_SAHA_4h_R1 1 APPQTHLPSGASSGTGSASATHGGGSPPGTR 31 0 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6;P46379-5;A0A0G2JL47;P46379-4;F6S6P2;X6REW1;A0A0G2JJM1;F6VEM6;F6U341;F6TC96;F6X9W3;A0A1B0GX79;A0A0G2JJR8;F6XTU0;F6U1F2;F6UR09;F6WML8 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 1 0 APPQT(0.001)HLPS(0.527)GAS(0.046)S(0.03)GT(0.009)GS(0.009)AS(0.006)AT(0.04)HGGGS(0.301)PPGT(0.031)R 75.717 2.46E-05 3671400 282.12 168.16 0 240.44 421.66 658.44 335.2 487.75 377.65 476.89 TRUE FALSE FALSE 311.794676 173.6084943 0 245.0940639 389.3525019 602.3372077 297.4824138 475.2740613 375.0219029 497.4510617 0.626784623 0.348996128 0 0.492699851 0.782695087 1.210847165 0.598013426 0.955418729 0.753887029 1 8.958410793 -8.9487472 1.03130602 0.976848002 0.62315888 0.072988847 0.318248228 0.723438522 1.500804732 0.158136568 0.063986004 1.13E-09 8.9487472 -0.353689122 APPQTHLPSGASSGTGSASAT(ph)HGGGSPPGTR ddPTM_HeLa_SAHA_4h_R1 1 APPQTHLPSGASSGTGSASATHGGGSPPGTR 31 0 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6;P46379-5;A0A0G2JL47;P46379-4;F6S6P2;X6REW1;A0A0G2JJM1;F6VEM6;F6U341;F6TC96;F6X9W3;A0A1B0GX79;A0A0G2JJR8;F6XTU0;F6U1F2;F6UR09;F6WML8 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 1 0 APPQTHLPS(0.022)GAS(0.093)S(0.093)GT(0.007)GS(0.015)AS(0.084)AT(0.49)HGGGS(0.174)PPGT(0.023)R 90.659 6.09E-08 3425400 281.77 268.06 158.73 154.36 387.3 599.92 227.9 355.39 214.47 285.47 TRUE FALSE FALSE 311.4078614 276.7453199 180.3608978 157.347861 357.6251577 548.8034409 202.2560922 346.2996384 212.9774858 297.7780088 1.045771858 0.929367891 0.605689112 0.528406586 1.200979076 1.8429952 0.679217693 1.162945645 0.715222345 1 8.218093403 -5.559746987 24.99997968 0.945574496 1.231556638 0.223180061 0.32241595 239.9782895 162726.1348 0.04639173 0.092783626 2.76E-06 5.559746987 0.285982142 APPQTHLPSGASSGTGSASATHGGGS(ph)PPGTR ddPTM_HeLa_SAHA_4h_R1 1 APPQTHLPSGASSGTGSASATHGGGSPPGTR 31 0 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6;P46379-5;A0A0G2JL47;P46379-4;F6S6P2;X6REW1;A0A0G2JJM1;F6VEM6;F6U341;F6TC96;F6X9W3;A0A1B0GX79;A0A0G2JJR8;F6XTU0;F6U1F2;F6UR09;F6WML8 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 1 0 APPQTHLPSGAS(0.003)S(0.003)GT(0.014)GS(0.012)AS(0.062)AT(0.046)HGGGS(0.667)PPGT(0.192)R 59.491 0.0014513 5308600 495.67 766.75 307.46 661.37 1374.4 1729.4 835.93 987.19 730.44 661.12 TRUE FALSE FALSE 547.8068448 791.5932031 349.3590476 674.1717727 1269.093769 1582.045391 741.8689564 961.9391092 725.3568086 689.6241186 0.794355693 1.14786183 0.50659343 0.977593089 1.840268829 2.294069114 1.075758426 1.394874517 1.051814734 1 9.429666421 -5.816526592 6.824217549 0.890709742 1.655197749 0.540427641 0.333433061 0.117466327 11.40313287 0.048711295 0.089304945 1.53E-06 5.816526592 0.764488007 APPS(ph)PGSLAAPGR ddPTM_HeLa_SAHA_4h_R1 2 APPSPGSLAAPGR 13 0 Q9Y4B5 Q9Y4B5 MTCL1 Microtubule cross-linking factor 1 1 0 APPS(0.714)PGS(0.286)LAAPGR;APPS(0.876)PGS(0.124)LAAPGR ; 103.13 0.0040192 21918000 1242.25 1193.48 1217.41 908.09 1198.76 1208.13 1181.61 1065.34 1141.19 1178.78 TRUE FALSE FALSE 1372.915555 1232.149535 1383.312295 925.6673951 1106.911268 1105.190527 1048.652133 1038.090145 1133.248366 1229.602975 1.116551914 1.002071043 1.125007277 0.752818116 0.900218437 0.898819009 0.852837993 0.844248239 0.921637626 1 10.26397684 -6.267385286 24.99894483 1.056391829 0.855483378 0.632205071 0.068679984 188.1843584 791201.1423 0.009218378 0.014308954 5.40E-07 6.267385286 -0.200908451 APQCLGK(ac)FIEIAAR ddPTM_HeLa_SAHA_4h_R1 2 APQCLGKFIEIAAR 14 1 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;Q5RI18;A0A1W2PP34;A0A1W2PPH7;A0A1W2PPL4;A0A1W2PQL0;A0A1W2PQ74;A0A1W2PQD4;A0A1W2PRZ7;A0A1W2PPE9 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 1 ; APQCLGK(1)FIEIAAR;APQCLGK(1)FIEIAAR 139.78 0.0002519 5845600 191.05 0 0 196.17 193.32 185.4 280.37 126.68 170.33 121.15 FALSE TRUE FALSE 211.1455156 0 0 199.967154 178.5078634 169.602877 248.8220297 123.439709 169.1446597 126.3733694 1.670807043 0 0 1.582352002 1.412543356 1.342077669 1.968943543 0.976785771 1.338451768 1 6.981548667 APQTS(ph)S(ph)SPPPVRR ddPTM_HeLa_SAHA_4h_R1 1 APQTSSSPPPVRR 13 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 2 0 APQT(0.012)S(0.765)S(0.859)S(0.365)PPPVRR 99.834 0.010454 4445600 1310.7 1275.2 1274.6 1229.3 1404.4 1220.5 1345.8 1434.9 1330.6 1466.7 TRUE FALSE FALSE 1448.56544 1316.517317 1448.29585 1253.094879 1296.795175 1116.506534 1194.367042 1398.197336 1321.340246 1529.936615 0.946814022 0.860504484 0.946637812 0.819050193 0.847613661 0.729773066 0.780664395 0.913892329 0.863656856 1 10.57925617 -6.866813759 0.610043697 0.989121928 0.802146168 0.285804992 0.066255429 0.319130999 0.250573632 0.014154454 0.022808438 1.36E-07 6.866813759 -0.18697576 APQTSS(ph)SPPPVR ddPTM_HeLa_SAHA_4h_R1 1 APQTSSSPPPVR 12 0 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 APQTS(0.003)S(0.721)S(0.275)PPPVR 144.51 0.00051232 15016000 1212 856.19 892.03 930.14 1119.3 1158.8 1138.2 1224 1039.2 832.48 TRUE FALSE FALSE 1339.483721 883.9311178 1013.591203 948.1442047 1033.539476 1060.063721 1010.12674 1192.691852 1031.968123 868.3722869 1.542522419 1.017917236 1.167231173 1.091863731 1.190203201 1.220747987 1.163241568 1.373479866 1.188393663 1 9.762169874 APQTSSS(ph)PPPVR ddPTM_HeLa_SAHA_4h_R1 7 APQTSSSPPPVR 12 0 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 APQT(0.022)S(0.008)S(0.076)S(0.893)PPPVR;APQT(0.016)S(0.016)S(0.139)S(0.829)PPPVR;APQT(0.003)S(0.003)S(0.01)S(0.984)PPPVR;APQT(0.029)S(0.087)S(0.045)S(0.838)PPPVR;APQT(0.009)S(0.003)S(0.03)S(0.958)PPPVR;APQT(0.018)S(0.007)S(0.028)S(0.947)PPPVR;APQTS(0.002)S(0.01)S(0.988)PPPVR ;;;;;; 180.3 2.17E-05 1936873900 23892.4 22835.5 21471.03 21796.01 23922.9 27313.1 24541.22 24445.9 24360.8 23336.2 TRUE FALSE FALSE 26405.51225 23575.38518 24396.99015 22217.90329 22089.93257 24985.87022 21779.77734 23820.60928 24191.27121 24342.33779 1.084756628 0.968493059 1.002245157 0.912726768 0.907469643 1.026436756 0.894728252 0.978567033 0.993794081 1 14.57118011 -6.85565187 2.011380713 1.039163503 0.946788949 0.296109725 0.046947578 0.226822939 1.869081004 0.00826746 0.011429845 1.39E-07 6.85565187 -0.092374554 APQTSSS(ph)PPPVRR ddPTM_HeLa_SAHA_4h_R1 1 APQTSSSPPPVRR 13 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 APQTS(0.003)S(0.009)S(0.989)PPPVRR 99.915 0.0016468 0 327.08 353.03 319.9 304.26 226.75 316.57 398.81 399.54 337.96 353.91 TRUE FALSE FALSE 361.4837751 364.4684036 363.494306 310.1493923 209.376464 289.596455 353.9348492 389.3203453 335.6081088 369.1687921 0.979182918 0.987267644 0.98462902 0.840128957 0.567156457 0.784455407 0.958734478 1.054586286 0.909091223 1 8.528136789 -6.255471296 6.261756291 0.989436145 0.82872315 0.219305501 0.12042868 0.156143902 29.93542885 0.018802105 0.030277277 5.55E-07 6.255471296 -0.160712995 APQVVAEAAK(ac)TAK ddPTM_HeLa_SAHA_4h_R1 2 APQVVAEAAKTAK 13 1 O60832 O60832 DKC1 H/ACA ribonucleoprotein complex subunit 4 0 1 ; APQVVAEAAK(1)TAK;APQVVAEAAK(1)TAK 171.29 1.39E-10 2045010 409.75 453.01 248.59 392.94 512 563.06 656.28 609.75 619.76 472.26 FALSE TRUE FALSE 452.849385 467.6878212 282.4665506 400.5459219 472.7706706 515.0841203 582.4336472 594.1534779 615.4470397 492.6214398 0.919264466 0.949385844 0.573394757 0.813090722 0.959703806 1.04559826 1.182314857 1.206105601 1.249330602 1 8.944335608 -4.970304678 2.094884285 0.918230639 1.204979056 0.322345365 0.157606921 0.251573912 2.126809582 0.019353391 0.07968459 1.07E-05 4.970304678 0.286748416 APS(ph)APPGTGALPPAAPSGR ddPTM_HeLa_SAHA_4h_R1 3 APSAPPGTGALPPAAPSGR 19 0 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 APS(0.989)APPGT(0.011)GALPPAAPSGR;APS(0.994)APPGT(0.006)GALPPAAPSGR;APS(1)APPGTGALPPAAPSGR ;; 137.52 8.49E-05 36119000 1101.96 1438.27 946.32 939.27 1120.89 921.23 803.261 592.24 1020.05 1359.37 TRUE FALSE FALSE 1217.869209 1484.870892 1075.279561 957.4509291 1035.00765 842.7360213 712.8759582 577.0913584 1012.951389 1417.979093 0.858876703 1.047174037 0.758318346 0.675222176 0.729917426 0.594321895 0.50274081 0.406981571 0.714362711 1 10.46962055 -4.426077347 0.329375193 0.977927968 4.67E-21 0.690488067 0.106802 1.533724601 0.128207834 0.028924933 0.589143064 3.75E-05 4.426077347 -0.977927968 APS(ph)DS(ph)SLGTPSDGRPELR ddPTM_HeLa_SAHA_4h_R1 1 APSDSSLGTPSDGRPELR 18 1 M0R0F9;W4VSQ9;Q15642-4;Q15642-2;Q15642-3;Q15642;M0R2H7;Q15642-5 M0R0F9 TRIP10 Cdc42-interacting protein 4 2 0 APS(0.643)DS(0.836)S(0.515)LGT(0.001)PS(0.006)DGRPELR 86.777 0.022564 20299000 1511.9 1721.4 1355.8 1855.3 1858.7 1818.7 1344.1 1804.9 1674.7 1592 TRUE FALSE FALSE 1670.928579 1777.174489 1540.561363 1891.212014 1716.286808 1663.736528 1192.858331 1758.733271 1663.045626 1660.638911 1.00619621 1.070175146 0.927691958 1.13884602 1.033509932 1.001865317 0.718312887 1.059070253 1.001449271 1 10.69752269 -4.961137134 24.99982197 1.014709138 0.88154073 0.249132355 0.0922153 139.6455992 89830.24075 0.011145619 0.033436779 1.09E-05 4.961137134 -0.133168408 APS(ph)DSSLGTPSDGRPELR ddPTM_HeLa_SAHA_4h_R1 3 APSDSSLGTPSDGRPELR 18 1 M0R0F9;W4VSQ9;Q15642-4;Q15642-2;Q15642-3;Q15642;M0R2H7;Q15642-5 M0R0F9 TRIP10 Cdc42-interacting protein 4 1 0 APS(0.985)DS(0.014)S(0.001)LGTPSDGRPELR;APS(0.8)DS(0.084)S(0.116)LGTPSDGRPELR;APS(0.875)DS(0.101)S(0.024)LGTPSDGRPELR ;; 150.61 4.61E-05 205302000 1737.63 1889.48 1575.06 1587.33 1994.98 2290.57 2426.71 2385.93 2247.58 2005.91 TRUE FALSE FALSE 1920.401896 1950.700392 1789.700974 1618.055067 1842.125063 2095.40055 2153.650204 2324.901365 2231.938908 2092.394597 0.91780102 0.932281318 0.855336263 0.773303023 0.880390853 1.001436609 1.029275361 1.111119943 1.066691202 1 11.03093923 -4.724485629 2.038806774 0.931570504 1.098109977 0.389803388 0.076906085 0.317147745 2.389803403 0.011331708 0.069289816 1.89E-05 4.724485629 0.166539473 APS(ph)IDGKEELDLAEK ddPTM_HeLa_SAHA_4h_R1 1 APSIDGKEELDLAEK 15 1 Q9H0E9-4;Q9H0E9-2;H7C179;B5MCW3;H7C127;Q9H0E9;H7C128;H0YAH7;H0YA84;Q9H0E9-3 Q9H0E9-4;Q9H0E9-3 BRD8 Bromodomain-containing protein 8 1 0 APS(1)IDGKEELDLAEK 121.72 0.0032427 6536900 608.46 829 535.18 720.49 827.66 874.23 947.53 479.23 1072.4 688.37 TRUE FALSE FALSE 672.4606145 855.8601439 608.1115433 734.4361258 764.2448696 799.7406857 840.9114306 466.9719905 1064.937081 718.0489995 0.93651076 1.191924429 0.846894214 1.022821738 1.064335261 1.113768958 1.171105915 0.650334435 1.483098064 1 9.487938486 APS(ph)LTNDEVEEFR ddPTM_HeLa_SAHA_4h_R1 2 APSLTNDEVEEFR 13 0 Q13206;A0A3B3ISR7;E9PIF2 Q13206 DDX10 Probable ATP-dependent RNA helicase DDX10 1 0 APS(0.5)LT(0.5)NDEVEEFR;APS(0.946)LT(0.054)NDEVEEFR ; 99.238 0.005872 8208200 569.93 468.66 561.69 477.81 397.76 683.08 675.06 553.53 661.98 494.62 TRUE FALSE FALSE 629.8778523 483.8448915 638.234188 487.0587035 367.2837147 624.8777411 599.1004721 539.3715041 657.3732273 515.9454888 1.220822482 0.937782967 1.237018642 0.944011943 0.711865348 1.21113132 1.161170095 1.045404051 1.274113722 1 9.011074838 -7.252968512 24.70594303 1.104277284 1.038859643 0.083770076 0.162291715 1782.78321 5199633.643 0.027583335 0.033495976 5.59E-08 7.252968512 -0.065417641 APS(ph)PDPDLVQR ddPTM_HeLa_SAHA_4h_R1 1 APSPDPDLVQR 11 0 A0A087WVB5;Q75MD7;A0A2R8Y8C6;Q8WXX7-2;Q8WXX7 A0A087WVB5 AUTS2 Autism susceptibility gene 2 protein 1 0 APS(1)PDPDLVQR 87.216 0.017591 6073400 1289.4 1535.9 1488.5 1524.3 1865.8 1999.1 1531.1 1663 2040.6 1849.8 TRUE FALSE FALSE 1425.025008 1585.664168 1691.345028 1553.805031 1722.842807 1828.765433 1358.816598 1620.462868 2026.399298 1929.553931 0.738525617 0.821777584 0.876547165 0.805266443 0.892871031 0.947765908 0.704212811 0.839812167 1.050190547 1 10.91405165 -9.506839027 1.255166767 1.000043009 0.820557025 0.545968052 0.070066517 0.324311462 0.914164036 0.049711249 0.01200605 3.11E-10 9.506839027 -0.179485984 APS(ph)PEPAAPR ddPTM_HeLa_SAHA_4h_R1 1 APSPEPAAPR 10 0 P20749 P20749 BCL3 B-cell lymphoma 3 protein 1 0 APS(1)PEPAAPR 125.72 0.0022536 46958000 1466.4 1627.1 1347.7 1209.9 1973.8 2103.7 1615.8 1604.9 1997.8 1796.2 TRUE FALSE FALSE 1620.64268 1679.819108 1531.357537 1233.319364 1822.56787 1924.452925 1433.985931 1563.848982 1983.897147 1873.642972 0.864968782 0.896552402 0.817315551 0.658246732 0.972740216 1.027118268 0.765346415 0.834656872 1.058844815 1 10.87163035 -8.966110185 0.654865461 1.007291242 0.852473565 0.321151138 0.09904829 1.004153165 0.750215301 0.084531829 0.022653202 1.08E-09 8.966110185 -0.154817677 APS(ph)PHVVQENLHSEVVEVCTSSTLK ddPTM_HeLa_SAHA_4h_R1 1 APSPHVVQENLHSEVVEVCTSSTLK 25 0 A0A499FJI4;O75592-2;O75592 A0A499FJI4 MYCBP2 E3 ubiquitin-protein ligase MYCBP2 1 0 APS(0.895)PHVVQENLHS(0.105)EVVEVCTSSTLK 89.356 2.87E-05 4384400 354.97 377.14 335.86 576.09 687.46 362.56 513.76 390.96 602.14 509.95 TRUE FALSE FALSE 392.3073733 389.3595835 381.6292517 587.241055 634.7869633 331.6678483 455.9503727 380.9598093 597.9496587 531.9364401 0.737507987 0.731966367 0.717433932 1.103968464 1.193351151 0.623510298 0.85715198 0.716175431 1.124099824 1 9.055110061 -9.552374374 1.357777142 0.998902486 0.829085986 0.187335754 0.176682054 0.79722622 2.660023515 0.121622893 0.029567821 2.80E-10 9.552374374 -0.169816501 APS(ph)PPEAALQPAPTEPR ddPTM_HeLa_SAHA_4h_R1 2 APSPPEAALQPAPTEPR 17 0 Q9NVR5-2;Q9NVR5 Q9NVR5-2 DNAAF2 Protein kintoun 1 0 APS(1)PPEAALQPAPTEPR;APS(1)PPEAALQPAPTEPR ; 163 4.05E-06 10218200 228.26 436.24 506.76 422.1 499.86 481.53 628.77 449.12 466.41 501.09 TRUE FALSE FALSE 252.2694341 450.3744622 575.8186137 430.2703559 461.5608348 440.500935 558.0191448 437.6321607 463.1642148 522.6944422 0.482632708 0.861640044 1.101635233 0.823177599 0.883041405 0.842750371 1.067581936 0.837261936 0.886108934 1 9.029824009 -7.00918561 24.81583534 0.751290232 0.926923838 0.125598565 0.151766811 621.2544864 1678383.939 0.033686168 0.04297825 9.79E-08 7.00918561 0.175633607 APS(ph)PPLSQVFQTR ddPTM_HeLa_SAHA_4h_R1 1 APSPPLSQVFQTR 13 0 B1AKL4;Q9NRA8;Q9NRA8-3;Q9NRA8-2 B1AKL4 EIF4ENIF1 Eukaryotic translation initiation factor 4E transporter 1 0 APS(0.998)PPLS(0.002)QVFQTR 104.94 0.0035458 36410000 425.91 634.66 377.7 445.56 542.02 498.6 664.07 548.98 451.17 648.07 TRUE FALSE FALSE 470.7091679 655.2234004 429.170989 454.1844581 500.4905447 456.116475 589.3470959 534.9378865 448.0302712 676.0114693 0.696303523 0.969248941 0.634857556 0.671859101 0.740358067 0.674717066 0.871800439 0.791314809 0.662755429 1 9.400903913 -9.418623727 0.823731933 1.02312795 0.75088019 0 0.142062312 0.541583046 0.562430943 0.101069761 0.018306828 3.81E-10 9.418623727 -0.272247761 APS(ph)PPPTASNSSNSQSEK ddPTM_HeLa_SAHA_4h_R1 1 APSPPPTASNSSNSQSEK 18 0 Q8N108-19;Q8N108-16;Q8N108-14;Q8N108-18;Q8N108-17;Q8N108-15;Q8N108;Q8N108-13;Q8N108-12 Q8N108-19 MIER1 Mesoderm induction early response protein 1 1 0 APS(0.941)PPPT(0.059)ASNSSNSQSEK 95.9 0.0024691 8691100 325.61 684.13 369.16 554.2 652.67 958.83 501.14 453.67 863.86 533.16 TRUE FALSE FALSE 359.8591538 706.2962609 419.4672023 564.9273424 602.6625656 877.1322898 444.7504083 442.0657783 857.8483279 556.1471368 0.64705746 1.269980935 0.754237817 1.015787559 1.083638709 1.57715869 0.799699178 0.794871984 1.542484481 1 9.119322809 -6.593723914 1.216272844 0.848430264 1.066397205 0 0.337940939 0.779876659 2.312538981 0.049193478 0.08101125 2.55E-07 6.593723914 0.217966941 APS(ph)PPVEHPR ddPTM_HeLa_SAHA_4h_R1 4 APSPPVEHPR 10 0 Q86WR7-2;Q86WR7 Q86WR7-2 PROSER2 Proline and serine-rich protein 2 1 0 APS(1)PPVEHPR;APS(1)PPVEHPR;APS(1)PPVEHPR;APS(1)PPVEHPR ;;; 122.18 0.0021591 66227800 1173.96 1458.16 1334.75 1433.93 1475.13 1756.39 1398.02 1465.92 1540.99 1544.58 TRUE FALSE FALSE 1297.442499 1505.405341 1516.642779 1461.685789 1362.105858 1606.735691 1240.71111 1428.423889 1530.266125 1611.174403 0.805277502 0.934352816 0.941327504 0.907217609 0.845411804 0.997245046 0.7700663 0.886573103 0.949783042 1 10.65389695 -9.588851655 1.381968313 0.999925756 0.877248779 0.210440846 0.065146043 0.402684243 1.380718651 0.045597873 0.010624832 2.58E-10 9.588851655 -0.122676976 APS(ph)PSINR ddPTM_HeLa_SAHA_4h_R1 1 APSPSINR 8 0 E9PFK9;Q9UJ41;Q9UJ41-4;Q9UJ41-3 E9PFK9 RABGEF1 Rab5 GDP/GTP exchange factor 1 0 APS(1)PSINR 134.23 0.001168 3122900 1512.4 1396.6 1702.6 1539 1174.1 1424.5 1292.4 1375.1 1811.8 1325.6 TRUE FALSE FALSE 1671.481171 1441.850756 1934.621461 1568.78957 1084.140712 1303.124586 1146.975751 1339.926933 1799.191536 1382.753103 1.208806668 1.042739122 1.399108385 1.134540625 0.78404504 0.942413062 0.82948702 0.969028332 1.301166153 1 10.43332786 -5.774536261 24.95701552 1.123531937 0.881915751 0.550016166 0.126591032 151.016324 287772.1362 0.018792062 0.034213495 1.68E-06 5.774536261 -0.241616186 APS(ph)PTAEQPPGGGDSAR ddPTM_HeLa_SAHA_4h_R1 3 APSPTAEQPPGGGDSAR 17 0 Q15742-2;Q15742-3;Q15742 Q15742-2 NAB2 NGFI-A-binding protein 2 1 0 APS(0.659)PT(0.341)AEQPPGGGDSAR;APS(0.648)PT(0.352)AEQPPGGGDSAR;APS(0.922)PT(0.078)AEQPPGGGDSAR ;; 170.79 6.71E-08 32089900 877.35 1000.36 1004.79 866.04 754.95 1212.83 984.37 984.6 1065.29 1013.55 TRUE FALSE FALSE 969.6336984 1032.77232 1141.717548 882.8034565 697.1058941 1109.490061 873.6060969 959.4153577 1057.87656 1057.249101 0.917128894 0.976848616 1.079894556 0.835000433 0.659358228 1.049412158 0.826301102 0.907463867 1.000593483 1 10.04609962 -6.223630211 24.77562396 0.969440889 0.853759913 0.318516618 0.098467062 546.8608577 358347.4237 0.014459372 0.023977807 5.98E-07 6.223630211 -0.115680976 APS(ph)PTAEQPPGGGDSARR ddPTM_HeLa_SAHA_4h_R1 1 APSPTAEQPPGGGDSARR 18 1 Q15742-2;Q15742-3;Q15742 Q15742-2 NAB2 NGFI-A-binding protein 2 1 0 APS(0.564)PT(0.431)AEQPPGGGDS(0.006)ARR 52.095 0.021871 3386600 707.53 469.62 675.8 588.85 573.27 752.08 760.76 688.99 441.29 506.37 TRUE FALSE FALSE 781.9512517 484.8359961 767.8945046 600.2480432 529.3461764 687.9985529 675.1572826 671.3666334 438.219027 528.2020888 1.480401665 0.917898672 1.453789224 1.136398466 1.002166004 1.302529027 1.278217744 1.271041231 0.829642738 1 9.044946197 -9.707637093 1.606803278 1.000160419 1.264284859 0.288405025 0.179717555 0.459665356 2.143297455 0.12675831 0.027960475 1.96E-10 9.707637093 0.26412444 APS(ph)PTGPALISGAS(ph)PVHCAADGTVELK ddPTM_HeLa_SAHA_4h_R1 1 APSPTGPALISGASPVHCAADGTVELK 27 0 E7EWD6;Q76L83 E7EWD6 ASXL2 Putative Polycomb group protein ASXL2 2 0 APS(0.83)PT(0.17)GPALIS(0.466)GAS(0.523)PVHCAADGT(0.011)VELK 73.839 0.00062825 4355300 1038 1197.9 767.35 822.75 1141.6 1189.6 1139.8 1058.6 1079 1000.5 TRUE FALSE FALSE 1147.181603 1236.712746 871.9204618 838.675516 1054.130855 1088.239387 1011.546704 1031.522545 1071.491151 1043.636451 1.099215729 1.185003403 0.835463787 0.803608876 1.010055612 1.042738001 0.969251987 0.988392599 1.026690041 1 10.02740352 -6.75602415 24.99999041 1.058522332 0.944281248 0.379290911 0.083851617 139.9291534 645994.7872 0.014750566 0.020514865 1.75E-07 6.75602415 -0.114241083 APS(ph)PTLGSPR ddPTM_HeLa_SAHA_4h_R1 2 APSPTLGSPR 10 0 C9JFF0;Q9ULI4 C9JFF0 KIF26A Kinesin-like protein;Kinesin-like protein KIF26A 1 0 APS(0.685)PT(0.3)LGS(0.014)PR;APS(0.76)PT(0.239)LGSPR ; 103.43 0.0077574 29412000 2631.2 2603.3 2089.9 1863.31 2742.6 2614.2 2810.9 2436.4 2383.6 2418 TRUE FALSE FALSE 2907.961688 2687.648628 2374.700688 1899.377059 2532.462581 2391.455453 2494.610134 2374.080416 2367.012334 2522.251813 1.152922826 1.06557506 0.94150024 0.753048149 1.004048274 0.948143021 0.989040872 0.94125432 0.93845203 1 11.3004966 -6.754885526 5.66959837 1.074029624 0.927748377 0.25492301 0.084168241 0.126066114 13.25101528 0.013548252 0.018659759 1.76E-07 6.754885526 -0.146281247 APS(ph)RQDVYGPQPQVR ddPTM_HeLa_SAHA_4h_R1 2 APSRQDVYGPQPQVR 15 1 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-8;O60716-9;O60716-17;O60716-7;O60716-4;O60716-6;A0A669KB62;O60716-11;O60716-13;O60716-19;O60716-21;O60716-20;O60716-22;O60716-23;O60716-14;O60716-24;O60716-16;O60716-15;O60716-12 O60716 CTNND1 Catenin delta-1 1 0 APS(1)RQDVYGPQPQVR;APS(1)RQDVYGPQPQVR ; 111.81 0.0082152 9899600 1668.05 1710.69 1539.78 2053.2 2256.5 2224.64 2512.2 2213.5 2282 1973.74 TRUE FALSE FALSE 1843.503152 1766.117478 1749.6132 2092.942655 2083.607457 2035.088157 2229.520644 2156.881875 2266.119376 2058.837591 0.895409701 0.857822631 0.849806322 1.016565204 1.012030996 0.988464639 1.082902631 1.047621184 1.100679037 1 11.00761431 -6.053527759 14.24063695 0.934005413 1.030816609 0.275753775 0.071875068 2.677577605 711.9385288 0.009462164 0.015697191 8.84E-07 6.053527759 0.096811196 APS(ph)VANVGSHCDLSLK ddPTM_HeLa_SAHA_4h_R1 3 APSVANVGSHCDLSLK 16 0 P21333-2;P21333;Q60FE5 P21333-2 FLNA Filamin-A 1 0 APS(0.992)VANVGS(0.008)HCDLSLK;APS(1)VANVGSHCDLSLK;APS(0.977)VANVGS(0.023)HCDLSLK ;; 92.098 0.0047659 9877200 2668.84 5236.9 3010.73 2929.99 5324.5 6565.9 4378.7 3771.9 7242.8 3639.11 TRUE FALSE FALSE 2949.560836 5406.578996 3421.016605 2986.704193 4916.53796 6006.448381 3885.997152 3675.42026 7192.396765 3796.009841 0.777016119 1.424279499 0.90121384 0.786800962 1.295185778 1.582305798 1.023705763 0.968232542 1.894725532 1 11.89026802 -5.752166984 24.90723975 0.930180547 1.229592986 0 0.382572788 200.7990552 539376.2613 0.034868282 0.068973365 1.77E-06 5.752166984 0.299412439 APS(ph)VATVGSICDLNLK ddPTM_HeLa_SAHA_4h_R1 2 APSVATVGSICDLNLK 16 0 O75369-8;O75369-2;O75369-9;O75369;E7EN95;O75369-7;O75369-5;O75369-4;A0A0C4DGA1 O75369-8 FLNB Filamin-B 1 0 APS(1)VATVGSICDLNLK;APS(1)VATVGSICDLNLK ; 209.6 6.34E-16 18556500 2396.4 4733 2434.2 3094.8 3744.8 4613 3791.4 3471.5 5056.7 3804.1 TRUE FALSE FALSE 2648.464347 4886.352305 2765.920099 3154.704329 3457.874233 4219.946448 3364.781694 3382.704057 5021.510013 3968.113368 0.667436664 1.231404411 0.697036562 0.795013659 0.871415182 1.063464185 0.847955031 0.852471626 1.26546536 1 11.95423753 -5.501823671 24.308016 0.855581865 0.922875564 0 0.206068523 1951.352537 2252827.081 0.025324542 0.05604223 3.15E-06 5.501823671 0.067293699 APS(ph)WFDTGLSEMR ddPTM_HeLa_SAHA_4h_R1 1 APSWFDTGLSEMR 13 0 E9PS12;E9PJL7;E9PRA8;P02511 E9PS12 CRYAB Alpha-crystallin B chain 1 0 APS(0.987)WFDT(0.013)GLSEMR 103.13 0.0040192 2926800 146.96 173.33 222.74 212.97 65.901 148.69 223.94 230.17 178.44 202.74 TRUE FALSE FALSE 162.4179271 178.9460057 253.0938472 217.0923423 60.85167962 136.0207755 198.7416818 224.2825847 177.1982215 211.4811136 0.768002042 0.846155965 1.196768085 1.026533002 0.287740492 0.643181669 0.939760901 1.060532455 0.837891472 1 7.724385018 APS(ph)YSGLSMVSGVK ddPTM_HeLa_SAHA_4h_R1 2 APSYSGLSMVSGVK 14 0 A0A2R8Y7K2;A0A2R8Y5N9;A0A2R8Y481;A0A2R8YFW8;A0A2R8YGN6;A0A2R8YCL5;A0A2R8Y4I8;A0A2U3TZR0;Q9UBP0-4;Q9UBP0-3;Q9UBP0-2;Q9UBP0 A0A2R8Y7K2 SPAST Spastin 1 0 APS(0.995)YS(0.005)GLSMVSGVK;APS(0.998)YS(0.002)GLSMVSGVK ; 191.06 1.32E-08 20874100 1556.34 1757.62 2079.05 1321.21 1289.82 1403.71 1940.07 1155.85 1247.65 1598.52 TRUE FALSE FALSE 1720.042982 1814.568041 2362.372107 1346.78393 1190.99427 1284.106011 1721.768218 1126.285031 1238.967502 1667.44002 1.031547139 1.08823587 1.416765868 0.807695578 0.714265134 0.770106268 1.0325818 0.675457598 0.743035724 1 10.70341915 -6.086099515 24.99999887 1.052077424 0.806324838 0.34444773 0.176366312 59.63444109 17314.39306 0.022084466 0.036622955 8.20E-07 6.086099515 -0.245752586 APSAS(ph)PLALHASR ddPTM_HeLa_SAHA_4h_R1 1 APSASPLALHASR 13 0 Q8N3F8;H0Y6J8 Q8N3F8 MICALL1 MICAL-like protein 1 1 0 APS(0.439)AS(0.561)PLALHASR 82.774 0.013134 4413900 1139 1256.7 716.69 1096.7 1321.7 1378.6 1145.2 898.35 958.63 1180.8 TRUE FALSE FALSE 1258.805246 1297.417905 814.3567808 1117.928214 1220.431632 1261.135524 1016.339082 875.3715078 951.9588158 1231.710067 1.021998017 1.053346838 0.661159475 0.907622861 0.990843271 1.023889922 0.825144739 0.710696073 0.772875729 1 10.26644698 APSDSS(ph)LGTPSDGRPELR ddPTM_HeLa_SAHA_4h_R1 1 APSDSSLGTPSDGRPELR 18 1 M0R0F9;W4VSQ9;Q15642-4;Q15642-2;Q15642-3;Q15642;M0R2H7;Q15642-5 M0R0F9 TRIP10 Cdc42-interacting protein 4 1 0 APS(0.014)DS(0.222)S(0.756)LGT(0.004)PS(0.003)DGRPELR 151.11 0.00032226 60386000 893.29 989.34 910.27 779.62 1276.1 961.22 1156.3 1213 1148.3 995.93 TRUE FALSE FALSE 987.2503408 1021.395265 1034.316855 794.7106724 1178.325494 879.3186483 1026.190081 1181.973216 1140.308887 1038.869416 0.950312258 0.983179646 0.995617773 0.764976483 1.134238313 0.846418842 0.987795063 1.137749555 1.097644101 1 10.02079861 -4.27904721 4.733456449 0.965652413 1.145528934 0.189859974 0.101525676 0.167462301 10.04260868 0.011276898 0.095255504 5.26E-05 4.27904721 0.179876521 APSDSSLGT(ph)PSDGRPELR ddPTM_HeLa_SAHA_4h_R1 4 APSDSSLGTPSDGRPELR 18 1 M0R0F9;W4VSQ9;Q15642-4;Q15642-2;Q15642-3;Q15642;M0R2H7;Q15642-5 M0R0F9 TRIP10 Cdc42-interacting protein 4 1 0 APS(0.002)DS(0.121)S(0.163)LGT(0.515)PS(0.199)DGRPELR;APSDSS(0.002)LGT(0.965)PS(0.033)DGRPELR;APSDS(0.002)S(0.002)LGT(0.724)PS(0.271)DGRPELR;APSDS(0.027)S(0.063)LGT(0.91)PSDGRPELR ;;; 233.48 2.65E-27 45856300 3424.96 3438.28 2890.44 3022.78 3539.81 4700.09 3861.37 3966.44 3402.06 2904.14 TRUE FALSE FALSE 3785.213007 3549.682528 3284.33411 3081.290278 3268.590523 4299.61589 3426.878485 3864.984208 3378.384787 3029.351688 1.249512568 1.171763101 1.084170624 1.017145117 1.078973609 1.419318829 1.13122504 1.275845331 1.115217094 1 11.56479336 -9.462285441 1.153091747 0.998269241 1.180435332 0.123072219 0.114556914 0.55549039 1.301096677 0.082031039 0.019492098 3.45E-10 9.462285441 0.182166092 FAQK(ac)IGGSER ddPTM_HeLa_SAHA_4h_R1 1 FAQKIGGSER 10 1 E9PP21;P21291;E9PND2;E9PS42 E9PP21 CSRP1 Cysteine and glycine-rich protein 1 0 1 FAQK(1)IGGSER 145.46 4.62E-05 17139000 1057.2 1043.1 1606.5 2211.3 2229.5 2500.4 2553.9 2728.3 932.65 908.82 FALSE TRUE FALSE 1168.401147 1076.897124 1825.425454 2254.102909 2058.676192 2287.351853 2266.528451 2658.514037 926.1596127 948.0036779 1.232485879 1.135963024 1.925546806 2.37773646 2.171590933 2.41280905 2.39084352 2.804328821 0.976957827 1 9.888748846 -6.580242359 1.850510491 1.102247565 2.434445257 0.936728294 0.164618633 0.058445478 0.404026439 0.027961504 0.043387772 2.63E-07 6.580242359 1.332197693 up APSLEDGS(ph)DAFMS(ph)PQDVRGT(ph)SENLPERSVPLRK ddPTM_HeLa_SAHA_4h_R1 1 APSLEDGSDAFMSPQDVRGTSENLPERSVPLRK 33 3 O75387;O75387-2 O75387 SLC43A1 Large neutral amino acids transporter small subunit 3 3 0 APS(0.215)LEDGS(0.889)DAFMS(0.888)PQDVRGT(0.496)S(0.496)ENLPERS(0.016)VPLRK 44.301 0.0092149 2684200 245.03 289.82 454.54 305.12 338.61 349.92 502.12 320.03 379.22 274.14 TRUE FALSE FALSE 270.8033796 299.2103582 516.4823441 311.0260388 312.665775 320.1048474 445.6201361 311.844096 376.5809771 285.959517 0.94699901 1.046338172 1.806137979 1.087657589 1.093391744 1.119406169 1.558332944 1.090518334 1.31690311 1 8.15966711 -6.97833665 24.99981724 0.976113598 1.290733288 0.109993863 0.245851524 204.7818293 236320.5528 0.033937842 0.04460115 1.05E-07 6.97833665 0.31461969 APSLPAPPYAGAPGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 APSLPAPPYAGAPGSPR 17 0 Q69YU3 Q69YU3 ANKRD34A Ankyrin repeat domain-containing protein 34A 1 0 APSLPAPPYAGAPGS(1)PR;APSLPAPPY(0.001)AGAPGS(0.999)PR;APSLPAPPYAGAPGS(1)PR ;; 129.42 0.00016742 19466500 1798.23 2079.37 2276 2039.93 1848.52 1922.33 2275.81 2277.67 2212.74 1812.65 TRUE FALSE FALSE 1987.376082 2146.742952 2586.161427 2079.415795 1706.886797 1758.536669 2019.729869 2219.410499 2197.341362 1890.802212 1.051075606 1.135360927 1.367758833 1.099753206 0.902731542 0.930047922 1.068186749 1.173793052 1.162121214 1 10.88478274 -7.77165275 2.152385586 1.017197801 1.091277461 0 0.130161227 0.67633789 6.524601071 0.026824435 0.026277594 1.69E-08 7.77165275 0.074079661 APSLT(ph)NDEVEEFR ddPTM_HeLa_SAHA_4h_R1 2 APSLTNDEVEEFR 13 0 Q13206;A0A3B3ISR7;E9PIF2 Q13206 DDX10 Probable ATP-dependent RNA helicase DDX10 1 0 APS(0.041)LT(0.959)NDEVEEFR;APS(0.062)LT(0.938)NDEVEEFR ; 150.12 0.00030008 19271200 595.31 744.63 615.94 738.53 765 732.34 811.42 862.44 666.41 699.29 TRUE FALSE FALSE 657.9274372 768.7565006 699.8770955 752.8253161 706.3858653 669.940512 720.1168861 840.3800336 661.7723986 729.4398141 0.901962608 1.053899836 0.959472025 1.032059536 0.968394995 0.918431513 0.987219058 1.152089614 0.907233723 1 9.510645136 -4.272533402 4.113081166 0.964764555 1.165971906 0.564798353 0.048170427 0.123636292 4.524795669 0.00701838 0.072066335 5.34E-05 4.272533402 0.20120735 APSPAPS(ph)SVPLGSEKPSNVSQDR ddPTM_HeLa_SAHA_4h_R1 4 APSPAPSSVPLGSEKPSNVSQDR 23 1 O75179-4;O75179-6;O75179-2;O75179;H0YM23;O75179-7 O75179-4 ANKRD17 Ankyrin repeat domain-containing protein 17 1 0 APSPAPS(0.828)S(0.171)VPLGSEKPSNVSQDR;APS(0.012)PAPS(0.494)S(0.494)VPLGSEKPSNVSQDR;APS(0.015)PAPS(0.492)S(0.492)VPLGSEKPSNVSQDR;APS(0.149)PAPS(0.657)S(0.19)VPLGS(0.004)EKPSNVSQDR ;;; 150.13 7.68E-07 507772000 4514.52 4891.34 4470.56 3912.75 5266.77 5573.06 4576.42 4561.18 5414.48 5557.48 TRUE FALSE FALSE 4989.377927 5049.822625 5079.784635 3988.486934 4863.23122 5098.203935 4061.469177 4444.51162 5376.800193 5797.09016 0.860669368 0.871096099 0.876264556 0.688015336 0.838909019 0.879441891 0.700604797 0.766679747 0.927499839 1 12.50111321 -13.52287875 0.083992804 1.701561126 0.607209232 0.538253379 0.062803246 70.96089621 0.455117857 9.045262455 0.903030937 3.00E-14 13.52287875 -1.094351894 APSPT(ph)GPALIS(ph)GASPVHCAADGTVELK ddPTM_HeLa_SAHA_4h_R1 1 APSPTGPALISGASPVHCAADGTVELK 27 0 E7EWD6;Q76L83 E7EWD6 ASXL2 Putative Polycomb group protein ASXL2 2 0 APS(0.49)PT(0.592)GPALIS(0.815)GAS(0.103)PVHCAADGTVELK 102.46 1.65E-06 4592500 607.69 756.35 720.07 857.78 982.67 655.75 963.66 678.19 808.61 803.96 TRUE FALSE FALSE 671.6096224 780.8562363 818.1973896 874.3835723 907.3780369 599.8764109 855.2264406 660.8428818 802.9828172 838.6226501 0.800848418 0.931117513 0.975644278 1.042642447 1.081986084 0.715311482 1.019798882 0.788009818 0.957501943 1 9.711877986 -4.22772698 22.34392311 0.924357917 0.788008706 0.134643897 0.107887949 6292.938259 4170534.215 0.015979946 2.793828185 5.92E-05 4.22772698 -0.136349211 APSPT(ph)GPALISGAS(ph)PVHCAADGTVELK ddPTM_HeLa_SAHA_4h_R1 1 APSPTGPALISGASPVHCAADGTVELK 27 0 E7EWD6;Q76L83 E7EWD6 ASXL2 Putative Polycomb group protein ASXL2 2 0 APS(0.339)PT(0.562)GPALIS(0.614)GAS(0.48)PVHCAADGT(0.005)VELK 55.985 0.0081403 5406700 903.79 1240 919.93 920.36 1150.5 1232.9 1232.5 1060.1 1321.7 1436.1 TRUE FALSE FALSE 998.8547789 1280.176814 1045.29327 938.1748987 1062.348939 1127.849984 1093.815856 1032.984177 1312.502182 1498.017299 0.666784542 0.854580794 0.697784512 0.626277747 0.709170007 0.752895167 0.730175718 0.689567589 0.876159563 1 10.54883857 -9.38877167 0.747622487 1.03316918 0.7122465 0.611260652 0.06800421 0.327345566 0.271193126 0.067716699 0.011719332 4.09E-10 9.38877167 -0.32092268 APSQLPLS(ph)GSR ddPTM_HeLa_SAHA_4h_R1 2 APSQLPLSGSR 11 0 A0A140T9E6;A2AB20;Q9BW19 A0A140T9E6 KIFC1 Kinesin-like protein KIFC1 1 0 APSQLPLS(0.991)GS(0.008)R;APS(0.001)QLPLS(0.893)GS(0.105)R ; 83.204 0.021133 14400800 2204.78 2234.24 2196.19 2577.4 3053.1 3193.6 2761.6 2874.2 2981.5 2937.5 TRUE FALSE FALSE 2436.688876 2306.630842 2495.475336 2627.289304 2819.172138 2921.487313 2450.8575 2800.682126 2960.751499 3064.150001 0.795225063 0.752780001 0.814410305 0.857428423 0.920050303 0.95344135 0.799849061 0.914016 0.966255405 1 11.58127121 -9.402769551 1.162224304 0.998918567 0.846218773 0.426187759 0.060851504 0.360431966 0.880264839 0.043426682 0.01137133 3.96E-10 9.402769551 -0.152699794 APSQVSISAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 APSQVSISASPR 12 0 A0A0A0MTL4;A0A0A0MTE8;Q8IVL1-4;Q8IVL1-8;Q8IVL1-9;Q8IVL1-10;Q8IVL1-13;Q8IVL1-12;Q8IVL1-11;Q8IVL1-3;Q8IVL1-2;Q8IVL1;Q8IVL1-5;Q8IVL1-6;Q8IVL1-7 A0A0A0MTL4 NAV2 Neuron navigator 2 1 0 APSQVSISAS(1)PR 128.73 0.0011129 21112000 942.14 757.02 675.3 928.32 979.85 925.18 1254.7 871.06 758.63 759.12 TRUE FALSE FALSE 1041.238608 781.5479447 767.3263672 946.288976 904.7741047 846.3494591 1113.517854 848.7795465 753.3506321 791.8493782 1.314945287 0.986990665 0.969030712 1.195036584 1.142608847 1.068826323 1.40622432 1.071895199 0.951381226 1 9.629082224 -9.718949556 1.630497153 1.000067225 1.170891085 0.177406261 0.132508206 0.551330802 2.64822049 0.099551009 0.021827385 1.91E-10 9.718949556 0.17082386 APSSSS(ph)LNSATSSQSK ddPTM_HeLa_SAHA_4h_R1 1 APSSSSLNSATSSQSK 16 0 Q5F1R6;Q5F1R6-3;Q5F1R6-2;A0A2R8Y534;A0A2R8Y4Q0 Q5F1R6 DNAJC21 DnaJ homolog subfamily C member 21 1 0 APSS(0.001)S(0.033)S(0.918)LNS(0.018)AT(0.018)S(0.01)S(0.002)QSK 128.06 1.47E-05 0 299.23 279.59 254.84 380.03 319.03 412.03 314.46 420.47 333.79 246.1 TRUE FALSE FALSE 330.7043843 288.6488994 289.5682681 387.3860302 294.5859903 376.922726 279.0761332 409.7149862 331.4671282 256.7105754 1.288238258 1.124413745 1.127995088 1.509038066 1.147541311 1.468278918 1.087123632 1.596019118 1.291209479 1 8.00399892 -13.50588564 0.129324851 2.63E-15 1.431431235 0.086518007 0.182814063 65.0568461 0.59996508 16.90040898 0.55302287 3.12E-14 13.50588564 1.431431235 APSSSSLNS(ph)ATSSQSKK ddPTM_HeLa_SAHA_4h_R1 1 APSSSSLNSATSSQSKK 17 1 Q5F1R6;Q5F1R6-3;Q5F1R6-2;A0A2R8Y534;A0A2R8Y4Q0 Q5F1R6 DNAJC21 DnaJ homolog subfamily C member 21 1 0 APS(0.004)S(0.004)S(0.029)S(0.225)LNS(0.722)AT(0.005)S(0.005)S(0.001)QS(0.002)KK 53.254 0.023417 4394100 585.99 952.29 559.81 830.81 894.16 1036 766.21 794.74 946.74 1007.7 TRUE FALSE FALSE 647.6271168 983.1448208 636.0979914 846.8915289 825.649654 947.7269716 679.9940342 774.4117016 940.1515593 1051.146879 0.61611477 0.935306798 0.60514663 0.805683341 0.785475057 0.901612316 0.646906772 0.736730249 0.894405509 1 10.03774856 -9.532002106 1.271543371 1.000968564 0.742163969 0.31236941 0.110161461 0.334038136 0.961258499 0.075171305 0.017668275 2.94E-10 9.532002106 -0.258804596 APSTPVPPSPAPAPGLTK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 APSTPVPPSPAPAPGLTKR 19 1 F8W126;Q96EZ8-3;Q96EZ8;Q96EZ8-2;F8W0I9;F8VVA6;F8VP44 F8W126 MCRS1 Microspherule protein 1 0 1 APSTPVPPSPAPAPGLTK(1)R 118.13 6.97E-05 0 0 0 61.081 72.064 0 65.501 136.61 231.83 0 0 FALSE TRUE FALSE 0 0 69.40480058 73.45890293 0 59.9199463 121.2382833 225.9001243 0 0 0 APSTSPS(ph)FEGTQETYTVAHEENVR ddPTM_HeLa_SAHA_4h_R1 1 APSTSPSFEGTQETYTVAHEENVR 24 0 Q9BUT9 Q9BUT9 FAM195A Protein FAM195A 1 0 APS(0.022)T(0.079)S(0.388)PS(0.51)FEGT(0.001)QETYTVAHEENVR 138.59 4.39E-07 3518900 328 383.72 298.02 401.34 468.89 456.35 511.2 346.14 459.4 326.34 TRUE FALSE FALSE 362.5005449 396.1527798 338.6326136 409.108516 432.9637495 417.4664126 453.6784306 337.28624 456.202998 340.4101145 1.064893578 1.163751495 0.994778355 1.201810694 1.271888616 1.226363128 1.332740748 0.990823203 1.340157001 1 8.411130094 -6.212626321 7.144546933 1.041110374 1.21744994 0 0.132957154 0.171861077 21.54511222 0.013397747 0.022212314 6.13E-07 6.212626321 0.176339566 APTK(ac)PPVGPK ddPTM_HeLa_SAHA_4h_R1 1 APTKPPVGPK 10 1 Q96JC9-2;Q96JC9 Q96JC9-2 EAF1 ELL-associated factor 1 0 1 APTK(1)PPVGPK 98.048 0.011654 30907000 5846.6 6143 5305.5 6243 6799.2 7549.4 7122.7 6938.6 6809.6 5770 FALSE TRUE FALSE 6461.572213 6342.037231 6028.50591 6363.842293 6278.246765 6906.148648 6321.23505 6761.120659 6762.211439 6018.772938 1.073569693 1.053709335 1.001617102 1.057332177 1.043110752 1.147434655 1.050253119 1.123338715 1.123519945 1 12.55525368 -13.52286997 0.011536698 3.14E-08 1.944284641 0 0.049794056 6119.55412 5.706632816 565.7773783 408.122535 3.00E-14 13.52286997 1.944284609 APVDEDRLS(ph)PLVAADSLLEHVR ddPTM_HeLa_SAHA_4h_R1 4 APVDEDRLSPLVAADSLLEHVR 22 1 Q01094 Q01094 E2F1 Transcription factor E2F1 1 0 APVDEDRLS(1)PLVAADSLLEHVR;APVDEDRLS(1)PLVAADSLLEHVR;APVDEDRLS(1)PLVAADSLLEHVR;APVDEDRLS(1)PLVAADSLLEHVR ;;; 147.91 1.11E-06 14482600 2171.93 2156.01 1552.96 2143.46 2471.17 2677.99 2360.61 1834.47 2332.58 2203.83 TRUE FALSE FALSE 2400.383563 2225.866139 1764.589301 2184.949768 2281.829488 2449.810186 2094.98795 1787.546914 2316.347386 2298.847897 1.044168066 0.968252898 0.76759724 0.950454256 0.992596984 1.065668672 0.91132082 0.777583813 1.007612287 1 11.1666953 -7.000822082 24.99999613 1.02008627 0.918814848 0.23939394 0.084864023 34.88283013 1060850.164 0.014163446 0.018489759 9.98E-08 7.000822082 -0.101271423 APVHFVEPLS(ph)PTGVAGHR ddPTM_HeLa_SAHA_4h_R1 1 APVHFVEPLSPTGVAGHR 18 0 Q5T5Y3-2;Q5T5Y3;Q5T5Y3-3 Q5T5Y3-2 CAMSAP1 Calmodulin-regulated spectrin-associated protein 1 1 0 APVHFVEPLS(0.998)PT(0.002)GVAGHR 89.557 0.001509 10835000 1352.7 1343.7 1256.5 1629.3 1471.1 1668.7 2084.5 1848.7 1974.3 1574.2 TRUE FALSE FALSE 1494.983192 1387.236762 1427.729276 1660.837458 1358.384636 1526.517372 1849.946574 1801.412931 1960.560686 1642.071466 0.910425169 0.844809005 0.869468416 1.011428243 0.827238439 0.929629071 1.126593216 1.097036864 1.19395576 1 10.6813012 -4.763195019 24.99999999 0.935505648 1.111815085 0.288539506 0.101058977 24.8553801 353963.8205 0.009369768 0.030421952 1.73E-05 4.763195019 0.176309438 APVPASELLASGVLSR ddPTM_HeLa_SAHA_4h_R1 2 APVPASELLASGVLSR 16 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 164.48 5.07E-08 1492690 0 125.29 0 146.08 174.44 224.06 116.38 0 160.25 139.01 FALSE FALSE TRUE 0 129.3494782 0 148.9075896 161.0744449 204.9688275 103.2846161 0 159.1348072 145.0034014 0 0.892044441 0 1.026924805 1.110832183 1.413544962 0.712290988 0 1.097455685 1 7.179942932 APVPEPGLDLSLS(ph)PRPDSPQPR ddPTM_HeLa_SAHA_4h_R1 2 APVPEPGLDLSLSPRPDSPQPR 22 1 Q8TAP8 Q8TAP8 PPP1R35 Protein phosphatase 1 regulatory subunit 35 1 0 APVPEPGLDLS(0.079)LS(0.92)PRPDS(0.001)PQPR;APVPEPGLDLS(0.227)LS(0.772)PRPDS(0.001)PQPR ; 92.886 0.00016671 13729800 995.28 1401.21 1363.71 648.6 1378.13 1426.41 1425.81 919.5 1241.22 1321.01 TRUE FALSE FALSE 1099.968117 1446.610123 1549.549297 661.1545909 1272.537977 1304.871843 1265.374106 895.9805214 1232.582249 1377.965206 0.798255364 1.049816147 1.124519901 0.479804997 0.923490645 0.946955582 0.918291769 0.650219989 0.894494464 1 10.42832374 APVPEPGLDLSLSPRPDS(ph)PQPR ddPTM_HeLa_SAHA_4h_R1 2 APVPEPGLDLSLSPRPDSPQPR 22 1 Q8TAP8 Q8TAP8 PPP1R35 Protein phosphatase 1 regulatory subunit 35 1 0 APVPEPGLDLSLSPRPDS(1)PQPR;APVPEPGLDLSLS(0.003)PRPDS(0.997)PQPR ; 193.02 1.33E-15 199250000 2841.6 2376 2457.9 2888.5 2612 2731.9 2857.3 2567.1 2539.8 2640.7 TRUE FALSE FALSE 3140.492526 2452.983959 2792.849812 2944.411094 2411.869124 2499.126751 2535.789084 2501.437299 2522.125325 2754.5535 1.140109468 0.890519628 1.013902911 1.068924998 0.875593494 0.907271088 0.920580807 0.908109898 0.915620381 1 11.42760277 -6.027823062 0.887317887 1.057639368 0.898924736 0.042818329 0.081616772 0.458282955 0.700673993 0.014327563 0.038582061 9.38E-07 6.027823062 -0.158714632 APVPGT(ph)PDSLSSGSSR ddPTM_HeLa_SAHA_4h_R1 1 APVPGTPDSLSSGSSR 16 0 Q9UJZ1;Q9UJZ1-2;A0A087WYB4 Q9UJZ1 STOML2 "Stomatin-like protein 2, mitochondrial" 1 0 APVPGT(0.937)PDS(0.058)LS(0.003)S(0.001)GSS(0.001)R 134.02 0.00021865 10921000 1185.8 1389.4 1433.9 1001.2 1700 1289 1620.2 1330.2 1154.6 1457.3 TRUE FALSE FALSE 1310.527885 1434.417472 1629.304425 1020.579674 1569.746367 1179.169948 1437.890832 1296.17541 1146.565045 1520.131335 0.862114907 0.943614172 1.071818196 0.671375986 1.032638649 0.775702679 0.94589908 0.852673306 0.754253937 1 10.56998026 APVPSTCSSTFPEELS(ph)PPSHQAK ddPTM_HeLa_SAHA_4h_R1 3 APVPSTCSSTFPEELSPPSHQAK 23 0 A0A087WY61;Q14980-5;Q14980-2;Q14980;F5H0Z7;F5H763;F5H6Y5;F5H4J1;Q14980-4;Q14980-3 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 1 0 APVPSTCSSTFPEELS(1)PPSHQAK;APVPS(0.001)TCSST(0.001)FPEELS(0.958)PPS(0.04)HQAK;APVPSTCSSTFPEELS(0.999)PPS(0.001)HQAK ;; 137.62 1.43E-06 312851000 3292.96 3292.96 2602.53 3543.5 3576.6 3799.52 3430.81 3726.52 3715.62 4116.9 TRUE FALSE FALSE 3639.328641 3399.654065 2957.189235 3612.089566 3302.561681 3475.77952 3044.766229 3631.201014 3689.762698 4294.399707 0.847459224 0.791648262 0.688615275 0.841116294 0.769039192 0.809374944 0.709008578 0.845566613 0.859203369 1 12.06824076 -8.36707913 0.613962139 0.996706983 0.773223829 0.399453218 0.064247649 0.260625644 0.210403666 0.026773793 0.012728494 4.29E-09 8.36707913 -0.223483154 APVPTGEVYFADSFDR ddPTM_HeLa_SAHA_4h_R1 1 APVPTGEVYFADSFDR 16 0 P27824;P27824-2;D6RHJ3;D6RD16;D6RAQ8;D6RAU8;D6RB85;D6RDP7;H0Y9Q7 P27824 CANX Calnexin 0 0 113.07 0.0088108 4822300 334.79 524.99 456.7 383.71 525.63 522.02 505.35 781.55 807.4 584.99 FALSE FALSE TRUE 370.0047483 542.0000205 518.9366976 391.1372619 485.356343 477.5409592 448.486688 761.5590827 801.7812377 610.2117818 0.606354645 0.88821625 0.850420646 0.640986086 0.79538999 0.782582332 0.73496891 1.248024219 1.313939294 1 9.253166225 -4.256300588 24.33861158 0.79916119 1.248024495 0.247664344 0.195574675 272.4592917 1290373.416 0.020651999 0.230126373 5.54E-05 4.256300588 0.448863305 APVQPQQS(ph)PAAAPGGTDEKPSGK ddPTM_HeLa_SAHA_4h_R1 2 APVQPQQSPAAAPGGTDEKPSGK 23 1 Q13200;F8WBS8;C9JPC0 Q13200 PSMD2 26S proteasome non-ATPase regulatory subunit 2 1 0 APVQPQQS(1)PAAAPGGTDEKPSGK;APVQPQQS(1)PAAAPGGTDEKPSGK ; 164.12 4.37E-08 36309000 4210 4537.6 3266.1 4180.2 4786.9 5050.4 4564.3 4257 4793.1 3844.7 TRUE FALSE FALSE 4652.827116 4684.621217 3711.187099 4261.113816 4420.128756 4620.077507 4050.712951 4148.112104 4759.744427 4010.463833 1.160171818 1.168099605 0.92537603 1.062499001 1.102149013 1.152005778 1.010036026 1.034322282 1.186831405 1 11.96955339 -9.693574666 1.592191016 1.000257064 1.089427412 0 0.092510107 0.592906781 2.7220991 0.054514313 0.012227571 2.03E-10 9.693574666 0.089170348 APVSSTESVIQSNT(ph)PTPPPSQPLNETAEEESR ddPTM_HeLa_SAHA_4h_R1 1 APVSSTESVIQSNTPTPPPSQPLNETAEEESR 32 0 B5MBZ0;Q9HC35;Q9HC35-2 B5MBZ0 EML4 Echinoderm microtubule-associated protein-like 4 1 0 APVSSTESVIQS(0.024)NT(0.488)PT(0.488)PPPSQPLNETAEEESR 151.41 5.92E-15 5493400 0 0 0 0 115.57 63.823 0 0 0 122.59 TRUE FALSE FALSE 0 0 0 0 106.7150516 58.38492134 0 0 0 127.8754548 0 0 0 0 0.834523339 0.456576451 0 0 0 1 6.998595561 -9.296208177 0.981954451 1.008413935 0.164198917 0 0.403080961 0.342697863 0.582995445 0.205202689 0.052936269 5.06E-10 9.296208177 -0.844215018 APVSSTESVIQSNTPT(ph)PPPSQPLNETAEEESR ddPTM_HeLa_SAHA_4h_R1 2 APVSSTESVIQSNTPTPPPSQPLNETAEEESR 32 0 B5MBZ0;Q9HC35;Q9HC35-2 B5MBZ0 EML4 Echinoderm microtubule-associated protein-like 4 1 0 APVSSTESVIQSNT(0.008)PT(0.992)PPPSQPLNETAEEESR;APVSSTESVIQS(0.022)NT(0.134)PT(0.843)PPPS(0.001)QPLNETAEEESR ; 160.33 7.07E-28 8489800 903.44 835.18 765.08 663.51 783.48 1106.54 952.33 809.26 845.21 839.48 TRUE FALSE FALSE 998.4679643 862.24038 869.341118 676.3531955 723.4499317 1012.256567 845.171322 788.560301 839.3281148 875.6740911 1.140227825 0.984659006 0.992767888 0.772380047 0.826163454 1.155974097 0.965166528 0.900518023 0.958493717 1 9.774250216 -6.895533728 2.769575198 1.06581077 0.933109523 0.118186454 0.107035928 0.301012409 4.689614513 0.01857671 0.024991927 1.27E-07 6.895533728 -0.132701246 APVVTGK(ac)FGERPPPK ddPTM_HeLa_SAHA_4h_R1 2 APVVTGKFGERPPPK 15 2 D6RIV8;Q06330-7 D6RIV8 RBPJ Recombining binding protein suppressor of hairless 0 1 ; APVVTGK(1)FGERPPPK;APVVTGK(1)FGERPPPK 132.65 0.0001274 5614800 994.95 1067.87 952.62 1834.23 2014.37 2088.54 2129.68 2534.9 952.21 961.9 FALSE TRUE FALSE 1099.603406 1102.469689 1082.438093 1869.734174 1860.029406 1910.584642 1890.042801 2470.060928 945.5834931 1003.372216 1.095907768 1.098764417 1.078800145 1.863450217 1.853778065 1.904163391 1.883690589 2.461759343 0.942405498 1 9.97064118 -6.213593037 2.928455424 1.048553519 2.000738274 0.890231383 0.167372843 0.060766346 1.037004498 0.024674568 0.041986227 6.12E-07 6.213593037 0.952184755 APWIEQEGPEYWDR ddPTM_HeLa_SAHA_4h_R1 2 APWIEQEGPEYWDR 14 0 P01889;F6U0H7;Q5SS57;S6AU73;A0A1W2PNR7;A0A1W2PPR8;A0A140T9D4;A0A140T953;D9J307;A0A140TA13;A0A140TA21;A0A140TA02;Q5SPM2;A0A140T8Y4;Q2L6G2;A0A0G2JPD3;D5H3J5;A0A140TA14;A0A140TA11;A0A140T9Y5;A0A140T997;A0A140T8W8;A0A1W2PR61;A0A1W2PPF8 P01889 HLA-B;HLA-A "HLA class I histocompatibility antigen, B-7 alpha chain" 0 0 ; ; 138.2 0.0016469 9049200 453.11 553 592.56 628.1 691.1 558.41 700.74 629.58 623.4 411.96 FALSE FALSE TRUE 500.7701887 570.9175628 673.3109909 640.2577837 638.1480673 510.8303265 621.890891 613.4762552 619.0617086 429.7216117 1.16533629 1.328575402 1.566853918 1.489936197 1.485026701 1.188747116 1.447194821 1.427613223 1.440611065 1 8.747258525 -7.406559778 1.553478967 1.057746853 1.429366242 0.172897551 0.15525383 0.14284048 0.667687732 0.020988087 0.023507365 3.92E-08 7.406559778 0.371619389 APYS(ph)PTTSK ddPTM_HeLa_SAHA_4h_R1 4 APYSPTTSK 9 0 Q96JH7 Q96JH7 VCPIP1 Deubiquitinating protein VCIP135 1 0 APYS(0.866)PT(0.031)T(0.043)S(0.06)K;APY(0.001)S(0.987)PT(0.007)TS(0.004)K;APYS(0.901)PT(0.086)T(0.009)S(0.004)K;APY(0.002)S(0.47)PT(0.47)T(0.048)S(0.011)K ;;; 149.94 0.00043603 96215000 11569.2 14581.6 10634.3 13775 14546.7 18034.7 14879.2 14100.9 17763.2 13480.6 TRUE FALSE FALSE 12786.10154 15054.05341 12083.48702 14041.63504 13432.13499 16498.0421 13204.95326 13740.2194 17639.58444 14061.81464 0.909278202 1.07056264 0.859312068 0.998564937 0.955220598 1.173251285 0.939064665 0.97712989 1.254431586 1 13.77949516 APYTCGGDSDQYVLMSS(ph)PVGR ddPTM_HeLa_SAHA_4h_R1 1 APYTCGGDSDQYVLMSSPVGR 21 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 APYTCGGDSDQYVLMS(0.085)S(0.915)PVGR 281.53 2.05E-127 0 307.26 297.86 352.33 382.67 274.49 487.38 532.81 364.28 466.73 481.27 TRUE FALSE FALSE 339.5790166 307.5108594 400.3436975 390.0771312 253.4586355 445.8524821 472.8568165 354.9622451 463.4819879 502.019905 0.676425403 0.612547145 0.797465785 0.777015268 0.504877661 0.88811714 0.941908502 0.70706807 0.923234285 1 8.971600758 -9.323962926 1.042761868 1.000329845 0.737833587 0.343903407 0.121993076 0.43846252 0.851991432 0.084394921 0.022221948 4.74E-10 9.323962926 -0.262496258 AQAAAPASVPAQAPK ddPTM_HeLa_SAHA_4h_R1 2 AQAAAPASVPAQAPK 15 0 A0A3B3ITT5;P47914 A0A3B3ITT5 RPL29 60S ribosomal protein L29 0 0 ; ; 220.53 2.82E-17 12041700 8430 7436.6 6952.6 8618.6 7729.3 7642.7 7648.5 8674.7 8217.8 7219.2 FALSE FALSE TRUE 9316.706078 7677.550719 7900.06412 8785.425466 7137.082704 6991.498963 6787.87065 8452.813735 8160.611661 7530.455042 1.237203599 1.019533438 1.049081905 1.166652668 0.947762474 0.928429813 0.901389174 1.122483793 1.083681081 1 12.87852133 -5.750324235 24.99732174 1.105085087 0.966429595 0.303210831 0.085777591 221.5206947 498184.0364 0.015434583 0.030638096 1.78E-06 5.750324235 -0.138655492 AQAEAQQPTFDALRDELR ddPTM_HeLa_SAHA_4h_R1 1 AQAEAQQPTFDALRDELR 18 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 138.98 0.00019193 16086000 1321.9 1384.9 1583.2 1325.6 1481.8 1808.5 1745.5 1582 1589 1423.7 FALSE FALSE TRUE 1460.943507 1429.771669 1798.950251 1351.258905 1368.264804 1654.405626 1549.091746 1541.534731 1577.94202 1485.082674 0.983745573 0.962755605 1.211346871 0.909888 0.921339147 1.114015842 1.043101352 1.038012736 1.062528064 1 10.53632753 AQAVS(ph)EDAGGNEGR ddPTM_HeLa_SAHA_4h_R1 2 AQAVSEDAGGNEGR 14 0 P55884;P55884-2;C9JZG1 P55884 EIF3B Eukaryotic translation initiation factor 3 subunit B 1 0 AQAVS(1)EDAGGNEGR;AQAVS(1)EDAGGNEGR ; 149.6 8.10E-05 15633200 1244.56 1510.29 1220.76 1185.67 1317.07 1714.14 1757.41 1796.13 1386.17 1316.33 TRUE FALSE FALSE 1375.468531 1559.224387 1387.118815 1208.620357 1216.156381 1568.085629 1559.661602 1750.187595 1376.52353 1373.083428 1.001737041 1.135564202 1.010221802 0.880223541 0.885711936 1.142017736 1.13588262 1.274640389 1.002505384 1 10.42320357 -5.072075448 5.18516655 0.996021832 1.191585819 0.597246729 0.074554772 0.117860708 5.858939984 0.010839776 0.029008986 8.47E-06 5.072075448 0.195563987 AQAVS(ph)EEEEEEEGK ddPTM_HeLa_SAHA_4h_R1 2 AQAVSEEEEEEEGK 14 0 Q9GZR7-2;Q9GZR7;G3V529 Q9GZR7-2 DDX24 ATP-dependent RNA helicase DDX24 1 0 AQAVS(1)EEEEEEEGK;AQAVS(1)EEEEEEEGK ; 224.06 2.06E-18 49957000 2194.3 3065.6 1962.2 2445.1 2555.9 2743.4 2260.94 2290.77 3244.5 2403.9 TRUE FALSE FALSE 2425.106542 3164.927451 2229.598397 2492.428446 2360.067494 2509.646886 2006.533081 2232.17542 3221.92126 2507.543893 0.967124264 1.262162333 0.889156279 0.993972011 0.941186912 1.000838666 0.800198587 0.890183987 1.284891271 1 11.29205924 -4.770863398 24.97906664 0.995654704 0.845191287 0.2046362 0.131872678 154.3294246 409066.0443 0.012504498 0.038246458 1.69E-05 4.770863398 -0.150463418 AQAVSEDAGGNEGR ddPTM_HeLa_SAHA_4h_R1 3 AQAVSEDAGGNEGR 14 0 P55884;P55884-2;C9JZG1 P55884 EIF3B Eukaryotic translation initiation factor 3 subunit B 0 0 ;; ;; 139.78 0.00042326 5745510 1603.22 1517.675 1377.796 1660.58 1805.9 1670.5 1706.31 1544.15 1575.34 1783.54 FALSE FALSE TRUE 1771.854035 1566.848666 1565.554864 1692.722927 1667.532332 1528.164002 1514.311508 1504.652879 1564.377081 1860.437138 0.952385866 0.842193823 0.841498394 0.909852256 0.896312108 0.821400504 0.813954676 0.808763085 0.840865326 1 10.86142593 -6.988610099 0.307544786 1.019122275 0.790982235 0.016871572 0.060784114 0.544697371 0.152175986 0.032442097 0.047552364 1.03E-07 6.988610099 -0.22814004 AQAVSEEEEEEEGKSS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 AQAVSEEEEEEEGKSSSPK 19 1 Q9GZR7-2;Q9GZR7;G3V529 Q9GZR7-2 DDX24 ATP-dependent RNA helicase DDX24 1 0 AQAVSEEEEEEEGKS(0.075)S(0.463)S(0.463)PK 64.83 0.0086808 35668000 2805.5 2392.3 1719.6 2524.8 2780.5 2267.2 2566 2918.1 2745 3036.3 TRUE FALSE FALSE 3100.595362 2469.81209 1953.938133 2573.671155 2567.458691 2074.021805 2277.266927 2843.459227 2725.897322 3167.209752 0.978967484 0.779806922 0.616927291 0.812598898 0.810637404 0.654841948 0.719013613 0.897780523 0.860662076 1 11.6289967 -7.242239402 4.390039877 0.990930503 0.747824501 0.487550248 0.086311244 0.082536068 3.978543611 0.012423144 0.014876927 5.72E-08 7.242239402 -0.243106002 AQAVSEEEEEEEGKSSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 AQAVSEEEEEEEGKSSSPK 19 1 Q9GZR7-2;Q9GZR7;G3V529 Q9GZR7-2 DDX24 ATP-dependent RNA helicase DDX24 1 0 AQAVSEEEEEEEGKS(0.018)S(0.251)S(0.73)PK 87.748 0.0016114 39482000 1902.9 1853.9 1600.2 2319.1 1989.7 2102.3 2218.8 2348 2427.5 2137.2 TRUE FALSE FALSE 2103.055753 1913.967576 1818.266923 2363.989534 1837.249616 1923.172213 1969.134784 2287.94156 2410.60683 2229.345151 0.943351348 0.858533536 0.815605839 1.060396383 0.824120758 0.862662388 0.883279461 1.026284135 1.08130714 1 11.12240428 -7.988031216 1.240420539 0.986527537 0.90287707 0.24365815 0.082531836 0.481447349 1.544770147 0.018309664 0.015426251 1.03E-08 7.988031216 -0.083650467 AQEEAERLEADR ddPTM_HeLa_SAHA_4h_R1 2 AQEEAERLEADR 12 1 E7EQR4;P15311 E7EQR4 EZR Ezrin 0 0 ; ; 117.95 0.0024799 8297400 2638.5 2921.1 2926.5 2807.6 3304.1 3121 3838 3243.8 2789.4 2945.7 FALSE FALSE TRUE 2916.029536 3015.745557 3325.308179 2861.945158 3050.940572 2855.073242 3406.138139 3160.828293 2769.988338 3072.703543 0.949011024 0.981463234 1.082209244 0.931409463 0.992917322 0.929173024 1.108515056 1.028679874 0.901482457 1 11.58529287 -4.757598784 24.99984537 0.978959188 1.068597466 0.360672981 0.051117913 70.34847846 457903.9401 0.006024929 0.020965238 1.75E-05 4.757598784 0.089638278 AQENYEGSEEVS(ph)PPQTK ddPTM_HeLa_SAHA_4h_R1 4 AQENYEGSEEVSPPQTK 17 0 Q93008;Q93008-3 Q93008 USP9X Probable ubiquitin carboxyl-terminal hydrolase FAF-X 1 0 AQENYEGSEEVS(1)PPQTK;AQENYEGS(0.004)EEVS(0.996)PPQTK;AQENYEGS(0.003)EEVS(0.997)PPQTK;AQENYEGS(0.001)EEVS(0.999)PPQTK ;;; 188.96 6.49E-12 24161000 3366.01 3907.96 3091.24 4278.02 4540.47 4365.3 4033.31 3976.37 3598.81 3850.5 TRUE FALSE FALSE 3720.062376 4034.580468 3512.498089 4360.827263 4192.58017 3993.351881 3579.471344 3874.660213 3573.765588 4016.513899 0.926191834 1.004498072 0.874514113 1.08572443 1.043835594 0.994233303 0.891188586 0.964682386 0.889768012 1 11.97172815 -6.696027805 0.001800763 1.579734421 0.359931044 0 0.067725842 685405.1266 699.6989114 236316.4354 237640.2037 2.01E-07 6.696027805 -1.219803377 AQFEGIVTDLIR ddPTM_HeLa_SAHA_4h_R1 1 AQFEGIVTDLIR 12 0 P38646;H0YBG6 P38646 HSPA9 "Stress-70 protein, mitochondrial" 0 0 134.13 0.00074703 548400 195.71 213.87 294.72 157.16 349.56 232.06 248.54 206.46 0 251.72 FALSE FALSE TRUE 216.2956757 220.7995283 334.8829068 160.2020591 322.7767883 212.2871825 220.5736251 201.1790522 0 262.5728811 0.823754818 0.840907589 1.275390305 0.610124162 1.229284559 0.808488605 0.840047244 0.766183664 0 1 8.03657411 -5.087429037 24.71036559 0.934424025 0.808249103 0 0.347792125 115.4071733 32614.54147 0.023898254 0.060928864 8.18E-06 5.087429037 -0.126174922 AQGAGVTLPPT(ph)PSGSR ddPTM_HeLa_SAHA_4h_R1 2 AQGAGVTLPPTPSGSR 16 0 H3BND4;Q6P996-3;Q6P996-4;Q6P996-5;Q6P996 H3BND4 PDXDC1 Pyridoxal-dependent decarboxylase domain-containing protein 1 1 0 AQGAGVTLPPT(0.941)PS(0.055)GS(0.004)R;AQGAGVTLPPT(0.999)PS(0.001)GSR ; 163.34 5.39E-06 15172800 4713.8 4942.3 4568 4229 4927.8 5045.1 5107.5 4621.4 4016 4772.8 TRUE FALSE FALSE 5209.619112 5102.433763 5190.503251 4310.85841 4550.233029 4615.229097 4532.790658 4503.19128 3988.052329 4978.578766 1.046406888 1.024877581 1.042567266 0.865881331 0.913962246 0.927017391 0.910458762 0.904513415 0.801042329 1 12.28151824 -6.26807376 24.99957122 1.024148549 0.906496545 0.115307839 0.073034804 131.4001414 495139.6782 0.003524775 0.005461415 5.39E-07 6.26807376 -0.117652004 AQGEPVAGHES(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 AQGEPVAGHESPK 13 0 D6REX3;O94979-3;O94979-9;O94979-2;O94979;O94979-8;D6RHZ5;H7BXG7;O94979-7;O94979-6;O94979-10;O94979-4;H0YAB3 D6REX3 SEC31A Protein transport protein Sec31A 1 0 AQGEPVAGHES(1)PK;AQGEPVAGHES(1)PK;AQGEPVAGHES(1)PK ;; 172.26 2.05E-05 34825400 5812.6 7318.34 5499.76 6944.42 7863.13 8464.87 6492.84 6107.3 9655.61 7424.64 TRUE FALSE FALSE 6423.995937 7555.459018 6249.238651 7078.839291 7260.658678 7743.615454 5762.248555 5951.084109 9588.415824 7744.752566 0.829464322 0.975558477 0.806899717 0.914017489 0.93749395 0.999853176 0.74401971 0.768402097 1.238053216 1 12.91900343 -9.44855317 1.046566945 1.003987352 0.872336742 0.347134423 0.112042492 0.653275287 1.215385484 0.066752675 0.01467625 3.56E-10 9.44855317 -0.13165061 AQGEPVAGHES(ph)PKIPYEK ddPTM_HeLa_SAHA_4h_R1 4 AQGEPVAGHESPKIPYEK 18 1 D6REX3;O94979-3;O94979-9;O94979-2;O94979;O94979-8;D6RHZ5;H7BXG7;O94979-7;O94979-6;O94979-10;O94979-4;H0YAB3 D6REX3 SEC31A Protein transport protein Sec31A 1 0 AQGEPVAGHES(0.942)PKIPY(0.058)EK;AQGEPVAGHES(1)PKIPYEK;AQGEPVAGHES(1)PKIPYEK;AQGEPVAGHES(1)PKIPYEK ;;; 98.533 0.0013171 1361399000 20823 17984.1 18606 21404.3 22044.1 21527 23387.8 23681.2 17632.3 17699.4 TRUE FALSE FALSE 23013.25868 18566.79664 21141.52878 21818.61118 20355.08582 19692.77849 20756.14319 23075.46919 17509.59539 18462.50775 1.246486067 1.005648685 1.145106021 1.181779392 1.102509263 1.066636166 1.124232064 1.249855626 0.948386623 1 14.17231091 -9.623507425 1.440815846 1.000085621 1.149622492 0.430652017 0.073828044 0.377491165 1.408754882 0.053922017 0.012360084 2.38E-10 9.623507425 0.149536871 AQGGQTQSPTKS(ph)HTPSPTSPK ddPTM_HeLa_SAHA_4h_R1 1 AQGGQTQSPTKSHTPSPTSPK 21 1 B7Z385;A0A087X0J3;A0A087WZ15;E9PDI2;P40123-2;P40123 B7Z385 CAP2 Adenylyl cyclase-associated protein;Adenylyl cyclase-associated protein 2 1 0 AQGGQT(0.004)QS(0.013)PT(0.011)KS(0.753)HT(0.213)PS(0.004)PT(0.002)S(0.001)PK 49.188 0.013707 5996400 2411.1 2098.1 2055.4 2511.5 2549.7 2606 2725.7 3158.2 1579.2 2517.7 TRUE FALSE FALSE 2664.710561 2166.079817 2335.499208 2560.113714 2354.342537 2383.954139 2418.997062 3077.417817 1568.210219 2626.250368 1.014644526 0.824780395 0.889290388 0.97481708 0.896465381 0.907740621 0.92108395 1.171791484 0.597128986 1 11.35878874 AQHEDQVEQYK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 AQHEDQVEQYKK 12 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 1 ; AQHEDQVEQYK(1)K;AQHEDQVEQYK(1)K 160.56 1.57E-07 9667800 2977.1 10993.1 4994.1 5481.2 10707 2321.1 10354.8 9070 8962.3 2882.3 FALSE TRUE FALSE 3290.245037 11349.28365 5674.66994 5587.296552 9886.631973 2123.329222 9189.650652 8838.002533 8899.930625 3006.570059 1.094351694 3.774827605 1.887423153 1.858362334 3.288342457 0.70622975 3.056523039 2.939563144 2.960160732 1 11.55390286 -7.436660138 16.29399204 1.041618589 2.435848432 0.012478635 1.023081345 2.535451645 477.9959442 0.130510168 0.149228229 3.66E-08 7.436660138 1.394229843 AQKLPDLS(ph)PVENK ddPTM_HeLa_SAHA_4h_R1 2 AQKLPDLSPVENK 13 1 E7EPN9;Q9Y520-2;Q9Y520-6;Q9Y520-4;Q9Y520-5;Q9Y520;Q9Y520-7;Q9Y520-3;A0A2R8Y7F4;A0A2R8YET2;H7C5N8 E7EPN9 PRRC2C Protein PRRC2C 1 0 AQKLPDLS(1)PVENK;AQKLPDLS(1)PVENK ; 76.586 0.013316 6528200 4535.9 4126.3 3822.8 4611.1 4711.3 5387.7 5110.9 4794.8 4853.9 4483.2 TRUE FALSE FALSE 5013.006773 4259.994827 4343.751276 4700.354508 4350.321212 4928.63765 4535.808081 4672.155959 4820.121315 4676.492692 1.071958646 0.910937984 0.928848084 1.005102503 0.930252969 1.053917535 0.96991664 0.999072653 1.030712894 1 12.19121122 -7.275395485 24.98286928 1.033980471 0.972391645 0.310931881 0.0430005 755.4055044 1352251.031 0.007965439 0.009131698 5.30E-08 7.275395485 -0.061588825 AQLEPVAS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 5 AQLEPVASPAK 11 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 AQLEPVAS(1)PAK;AQLEPVAS(1)PAK;AQLEPVAS(1)PAK;AQLEPVAS(1)PAK;AQLEPVAS(1)PAK ;;;; 131.35 0.0012697 1232400000 25427.3 30793.7 24236.5 26103.1 29377.2 31441.8 29382.5 23446.7 29577.5 24903.2 TRUE FALSE FALSE 28101.86008 31791.43608 27539.324 26608.36325 27126.32528 28762.78175 26076.30377 22846.96736 29371.66777 25976.89883 1.081801961 1.223834927 1.060146717 1.024308692 1.044248025 1.107244631 1.003826667 0.879510965 1.13068415 1 14.66494159 -4.343447821 3.133138078 1.057241657 0.867386443 0.453199258 0.064125355 0.231488268 3.57976175 0.009322763 0.095317076 4.53E-05 4.343447821 -0.189855214 AQLEPVAS(ph)PAKKPK ddPTM_HeLa_SAHA_4h_R1 2 AQLEPVASPAKKPK 14 2 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 AQLEPVAS(1)PAKKPK;AQLEPVAS(1)PAKKPK ; 91.317 0.0059332 32377000 8916.9 6435.2 9163.7 7012.2 8668.2 8109.7 8503.2 8517.8 5834 8426 TRUE FALSE FALSE 9854.820454 6643.704702 10412.48131 7147.931271 8004.044389 7418.707936 7546.397557 8299.92701 5793.400719 8789.286096 1.121231047 0.755886727 1.184678846 0.813255046 0.910659216 0.84406263 0.858590501 0.944323227 0.659143491 1 13.10153027 -6.489993557 0.995649091 1.04923269 0.874034736 0 0.170710596 0.481561227 0.952264289 0.021325692 0.039189597 3.24E-07 6.489993557 -0.175197954 AQLGGPEAAK ddPTM_HeLa_SAHA_4h_R1 2 AQLGGPEAAK 10 0 P04792;C9J3N8 P04792 HSPB1 Heat shock protein beta-1 0 0 ; ; 166.19 3.27E-08 6444600 5001.4 5306 4738 5158.8 6094.4 6483.6 6392.7 5752.7 5954.8 5678.6 FALSE FALSE TRUE 5527.470199 5477.917881 5383.669966 5258.656034 5627.448389 5931.160804 5673.376571 5605.554264 5913.360062 5923.432236 0.933153276 0.924787803 0.908876771 0.887771789 0.950031699 1.001304745 0.957785342 0.94633551 0.998299605 1 12.53221765 -9.156688866 0.93526443 0.999556698 0.938862814 0.411307962 0.028723758 0.514745843 0.819679532 0.020575417 0.006075778 6.97E-10 9.156688866 -0.060693883 AQLGGPEAAKS(ph)DETAAK ddPTM_HeLa_SAHA_4h_R1 3 AQLGGPEAAKSDETAAK 17 1 P04792;C9J3N8 P04792 HSPB1 Heat shock protein beta-1 1 0 AQLGGPEAAKS(1)DETAAK;AQLGGPEAAKS(0.674)DET(0.326)AAK;AQLGGPEAAKS(0.981)DET(0.019)AAK ;; 94.707 0.0023406 96533000 4197.2 3970 3755.2 4054.02 4003 4727.4 4579.6 4870.5 4227.6 4453 TRUE FALSE FALSE 4638.680753 4098.630605 4266.9391 4132.491419 3696.291005 4324.598924 4064.291355 4745.919662 4198.179787 4644.990622 0.998641576 0.882376508 0.918610918 0.889666257 0.79575855 0.931024253 0.874983759 1.021728578 0.903808022 1 12.18145997 -7.267573091 23.31660753 0.999358529 0.898172699 0.135700931 0.061026298 125.3466341 476490.1986 0.008523867 0.009886825 5.40E-08 7.267573091 -0.10118583 AQLGGPEAAKSDET(ph)AAK ddPTM_HeLa_SAHA_4h_R1 1 AQLGGPEAAKSDETAAK 17 1 P04792;C9J3N8 P04792 HSPB1 Heat shock protein beta-1 1 0 AQLGGPEAAKS(0.406)DET(0.594)AAK 94.45 0.0043366 8443400 1791.9 1775.2 1759.4 1776.9 1702.5 1803.3 1513 1691.1 1799.7 1390.7 TRUE FALSE FALSE 1980.380264 1832.717645 1999.161869 1811.294469 1572.054818 1649.648695 1342.753258 1647.844111 1787.175741 1450.659883 1.36515822 1.263368255 1.37810516 1.248600372 1.083682562 1.137171238 0.92561549 1.135927263 1.231974333 1 10.50249359 -5.663732301 5.38953357 1.205797868 1.061627138 0.32721447 0.115405546 0.31745533 14.36648607 0.023593991 0.047665673 2.17E-06 5.663732301 -0.14417073 AQLGVQAFADALLIIPK ddPTM_HeLa_SAHA_4h_R1 1 AQLGVQAFADALLIIPK 17 0 P40227;P40227-2 P40227 CCT6A T-complex protein 1 subunit zeta 0 0 104.87 0.012766 599980 0 0 0 0 139.34 184.84 131.44 71.034 78.297 72.104 FALSE FALSE TRUE 0 0 0 0 128.6637993 169.0905921 116.6500253 69.21705314 77.7521248 75.21275631 0 0 0 0 1.710664595 2.248163748 1.550934057 0.920283427 1.033762471 1 6.232905463 -5.75193969 24.99890143 0.395833331 1.649231406 0.624921357 0.479815535 117.6845162 309690.29 0.080461098 0.159256979 1.77E-06 5.75193969 1.253398075 AQLS(ph)PGIYDDTSAR ddPTM_HeLa_SAHA_4h_R1 2 AQLSPGIYDDTSAR 14 0 A0A088AWL3;O75376;O75376-2;E7EVK1 A0A088AWL3 NCOR1 Nuclear receptor corepressor 1 1 0 AQLS(0.984)PGIY(0.001)DDT(0.015)SAR;AQLS(1)PGIYDDTSAR ; 221.34 1.02E-17 202200000 4263.8 4700 4452.6 5299.7 5027.9 6325.5 5483.4 5156.7 5088.5 4468.3 TRUE FALSE FALSE 4712.286047 4852.283084 5059.37714 5402.283357 4642.663388 5786.531814 4866.3934 5024.799081 5053.088714 4660.95028 1.011014013 1.04105017 1.085481894 1.159051917 0.996076574 1.241491856 1.044077518 1.078063223 1.084132722 1 12.18640841 -6.895697427 2.180229006 1.005050147 1.103718039 0.165513921 0.066525716 0.234955428 2.268569612 0.009564852 0.012979993 1.27E-07 6.895697427 0.098667892 AQLSVQTS(ph)PVPTPDPK ddPTM_HeLa_SAHA_4h_R1 1 AQLSVQTSPVPTPDPK 16 0 A0A0D9SGJ6;J3KQV8;O43426 A0A0D9SGJ6 SYNJ1 Synaptojanin-1 1 0 AQLSVQT(0.183)S(0.787)PVPT(0.029)PDPK 107.34 0.0023081 3660400 992.19 1238.5 1004.1 1134.5 1300.8 1438.3 1393.8 1231.1 1454.7 1114.2 TRUE FALSE FALSE 1096.553097 1278.628213 1140.933519 1156.459888 1201.132985 1315.748748 1236.965956 1199.610245 1444.576624 1162.238615 0.943483621 1.100142601 0.981668914 0.995027934 1.033465047 1.132081426 1.06429604 1.032154869 1.242926027 1 10.18269058 -6.039959034 0.804743615 0.978433858 1.075397583 0 0.09598581 0.533702148 0.663681275 0.00943871 0.026718824 9.12E-07 6.039959034 0.096963726 AQLYLPS(ph)TSPPHEGLDGFAQELSR ddPTM_HeLa_SAHA_4h_R1 1 AQLYLPSTSPPHEGLDGFAQELSR 24 0 Q8N137;Q8N137-3;Q8N137-2;I3L465;I3L1Z8;I3L1A6;Q8N137-4;Q8N137-5 Q8N137 CNTROB Centrobin 1 0 AQLY(0.006)LPS(0.542)T(0.113)S(0.339)PPHEGLDGFAQELSR 98.376 3.82E-05 5758800 2581.7 2835.3 2072.6 3023.7 3368.5 4134.4 4094.8 2727.4 3387.2 2767.2 TRUE FALSE FALSE 2853.255051 2927.16558 2355.043134 3082.228086 3110.406258 3782.125861 3634.042327 2657.637057 3363.628199 2886.507534 0.988480029 1.01408555 0.815879781 1.067805315 1.077567344 1.310277495 1.258975521 0.920710244 1.165293407 1 11.49510928 -5.722993339 2.728994689 0.983811377 1.172366361 0.218062354 0.12613503 0.21040691 3.195796407 0.015814219 0.033327707 1.89E-06 5.722993339 0.188554984 AQLYLPSTS(ph)PPHEGLDGFAQELSR ddPTM_HeLa_SAHA_4h_R1 1 AQLYLPSTSPPHEGLDGFAQELSR 24 0 Q8N137;Q8N137-3;Q8N137-2;I3L465;I3L1Z8;I3L1A6;Q8N137-4;Q8N137-5 Q8N137 CNTROB Centrobin 1 0 AQLY(0.001)LPS(0.178)T(0.213)S(0.608)PPHEGLDGFAQELSR 82.216 0.00019892 5590800 895.95 827.15 685.91 931.15 1302.4 1647.3 1285 976.77 1197.2 1252.2 TRUE FALSE FALSE 990.1901318 853.9502027 779.3822427 949.1737547 1202.610393 1506.940773 1140.408418 951.7856377 1188.868588 1306.18847 0.758076001 0.653772577 0.596684369 0.726674424 0.920702043 1.153693213 0.873081063 0.728674046 0.910181505 1 10.35114736 -4.256715868 21.74917168 0.857845296 0.728673755 0.038527946 0.158640016 236.3992152 1088216.147 0.025137195 0.259125129 5.54E-05 4.256715868 -0.129171541 AQMVQEDLEK ddPTM_HeLa_SAHA_4h_R1 1 AQMVQEDLEK 10 0 P26038 P26038 MSN Moesin 0 0 158.79 0.0010448 10599000 1162.3 1413.3 1539.9 1041.5 1426.6 1478.1 1733.6 1583.5 1370 1556.9 FALSE FALSE TRUE 1284.556047 1459.091847 1749.749553 1061.659739 1317.294216 1352.157564 1538.530765 1542.996363 1360.466058 1624.025578 0.79097033 0.89844142 1.077415021 0.65372107 0.811128983 0.832596224 0.94735624 0.950105949 0.837712211 1 10.66535864 -9.538156601 1.284698093 1.000411459 0.860574247 0 0.117950959 0.629298468 1.851357252 0.077042195 0.018117561 2.90E-10 9.538156601 -0.139837213 AQNTWGCGNSLR ddPTM_HeLa_SAHA_4h_R1 1 AQNTWGCGNSLR 12 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 190.66 3.49E-06 7399400 248.9 281.56 241.24 256.43 263.19 291.4 208.32 356.99 298.76 312.49 FALSE FALSE TRUE 275.080444 290.6827287 274.1149309 261.3935735 243.0244391 266.5710806 184.8792853 347.8587127 296.6809048 325.9629732 0.843900892 0.891766098 0.840938859 0.801911858 0.745558419 0.817795586 0.567178792 1.067172475 0.910167501 1 8.348564285 -8.89189112 0.332222173 1.056128113 0.781650051 0.157193259 0.11947808 2.337712578 0.423103441 0.245470583 0.057382908 1.28E-09 8.89189112 -0.274478062 AQPGS(ph)PESSGQPK ddPTM_HeLa_SAHA_4h_R1 6 AQPGSPESSGQPK 13 0 Q96PN7;Q05GC8;Q96PN7-2;Q96PN7-3;Q96PN7-4;Q96PN7-5 Q96PN7 TRERF1;BCAR2 Transcriptional-regulating factor 1 1 0 AQPGS(0.895)PES(0.101)S(0.004)GQPK;AQPGS(0.957)PES(0.022)S(0.022)GQPK;AQPGS(0.675)PES(0.322)S(0.003)GQPK;AQPGS(0.975)PES(0.025)SGQPK;AQPGS(0.939)PES(0.049)S(0.011)GQPK;AQPGS(0.906)PES(0.088)S(0.006)GQPK ;;;;; 225.21 6.56E-23 95072400 11570.39 12250.84 10824.8 11401.53 12433.24 13079.35 12875.1 12297.49 11047.64 11176.41 TRUE FALSE FALSE 12787.41671 12647.77525 12299.94737 11622.2231 11480.60784 11964.9158 11426.35986 11982.93801 10970.75857 11658.27973 1.096852795 1.084874917 1.05503965 0.996907208 0.984760025 1.026301999 0.980106853 1.027847872 0.941027221 1 13.5090673 -6.262377085 24.71673884 1.051090203 1.002163374 0.065702253 0.044760082 77.76580277 2049808.788 0.006191417 0.009796927 5.47E-07 6.262377085 -0.048926829 AQPLSLEELLAK ddPTM_HeLa_SAHA_4h_R1 1 AQPLSLEELLAK 12 0 Q9BUQ8;F8VVA2 Q9BUQ8 DDX23 Probable ATP-dependent RNA helicase DDX23 0 0 128.85 0.00077878 0 0 0 0 0 0 146.87 0 0 0 134.17 FALSE FALSE TRUE 0 0 0 0 0 134.3558497 0 0 0 139.9547253 0 0 0 0 0 0.959995094 0 0 0 1 7.128816387 -9.24579128 0.911615051 1.015771246 0.123577281 0 0.416685754 0.356205088 0.517142997 0.214863451 0.055194779 5.68E-10 9.24579128 -0.892193964 AQPSDNAPAKGNKS(ph)PSPPDGSPAATPEIR ddPTM_HeLa_SAHA_4h_R1 2 AQPSDNAPAKGNKSPSPPDGSPAATPEIR 29 2 O00499-6;O00499-2;O00499;O00499-9;O00499-7;O00499-4;O00499-3;O00499-5 O00499-6 BIN1 Myc box-dependent-interacting protein 1 1 0 AQPS(0.108)DNAPAKGNKS(0.853)PS(0.039)PPDGSPAATPEIR;AQPS(0.055)DNAPAKGNKS(0.938)PS(0.007)PPDGSPAATPEIR ; 103.75 2.01E-09 22184600 2582.9 1285.44 2532.1 1900.23 1894.53 1687.1 2281.1 2292.25 842.34 1857.31 TRUE FALSE FALSE 2854.581273 1327.089099 2877.161401 1937.011699 1749.371521 1543.349589 2024.424624 2233.617564 836.4780874 1937.387724 1.473417653 0.684988907 1.485072588 0.999805912 0.902953755 0.796613693 1.044924875 1.152901681 0.431755646 1 10.91989699 -6.03107536 24.36376084 1.200034137 0.964779933 0 0.335475471 674.5770118 528882.4856 0.038289408 0.063550515 9.31E-07 6.03107536 -0.235254204 AQPSMS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 AQPSMSPK 8 0 Q969S3 Q969S3 ZNF622 Zinc finger protein 622 1 0 AQPS(0.151)MS(0.849)PK;AQPS(0.436)MS(0.564)PK;AQPS(0.163)MS(0.837)PK;AQPS(0.016)MS(0.984)PK ;;; 107.03 0.0074404 405006000 26232.3 24777.5 25038.5 29556.6 30407.1 26512 31342.3 23997.5 14306.9 21246.4 TRUE FALSE FALSE 28991.53367 25580.30726 28450.61639 30128.71073 28077.31457 24253.02845 27815.58192 23383.6787 14207.33712 22162.43628 1.308138388 1.1542191 1.283731446 1.359449401 1.266887548 1.094330431 1.255077807 1.055104159 0.641054843 1 14.43582886 -9.421131738 1.091857247 0.997037717 1.23205262 0.456234297 0.148297152 0.367127253 0.766864234 0.067234005 0.016099829 3.79E-10 9.421131738 0.235014903 AQPSSS(ph)EDELDNVFFK ddPTM_HeLa_SAHA_4h_R1 1 AQPSSSEDELDNVFFK 16 0 Q5T5U3;A0A087WW76;A0A452Q6Z5 Q5T5U3 ARHGAP21 Rho GTPase-activating protein 21 1 0 AQPS(0.033)S(0.228)S(0.74)EDELDNVFFK 145.79 1.64E-08 0 564.47 629.42 414.45 744.07 713.59 1025.6 788.65 619.96 803 713 TRUE FALSE FALSE 623.8435445 649.813621 470.9290876 758.4725508 658.9148884 938.2131101 699.9090264 604.1023209 797.4118576 743.7409193 0.838791477 0.873709654 0.633189697 1.019807477 0.885946801 1.261478407 0.941065643 0.812248332 1.072163487 1 9.538656339 AQPSVS(ph)LGAPYR ddPTM_HeLa_SAHA_4h_R1 1 AQPSVSLGAPYR 12 0 Q96PK6 Q96PK6 RBM14 RNA-binding protein 14 1 0 AQPS(0.138)VS(0.862)LGAPYR 99.161 0.0070449 6832800 1386.4 1690.1 1450.5 854.45 1079 1931.8 1478 1117.8 1125.4 1239.3 TRUE FALSE FALSE 1532.227913 1744.860349 1648.166586 870.9891153 996.3272531 1767.199772 1311.69155 1089.208295 1117.56825 1292.732288 1.185263126 1.349746088 1.274948109 0.673758305 0.770714294 1.367026869 1.014666039 0.842562922 0.864500918 1 10.33620782 -6.29573853 24.99962821 1.126331008 0.953254898 0.177350113 0.214163412 969.3593972 706535.1463 0.032964487 0.050355573 5.06E-07 6.29573853 -0.173076109 AQPT(ph)PISFSPDHR ddPTM_HeLa_SAHA_4h_R1 1 AQPTPISFSPDHR 13 0 Q7Z4H2 Q7Z4H2 HBCBP 1 0 AQPT(0.948)PIS(0.051)FS(0.001)PDHR 78.705 0.023114 33881000 3721.5 5009.5 3816.5 3780.5 4542.2 4879.9 5183.5 4365.8 5108.5 4592.2 TRUE FALSE FALSE 4112.944445 5171.811087 4336.592745 3853.677044 4194.177617 4464.105066 4600.238938 4254.129158 5072.949533 4790.192216 0.85861783 1.079666714 0.905306624 0.804493196 0.875576058 0.931926083 0.960345375 0.888091535 1.059028386 1 12.22586783 -6.543035581 24.99496657 0.944740333 0.89294715 0.208093021 0.074799008 452.7972183 561477.6819 0.012131586 0.017157883 2.86E-07 6.543035581 -0.051793183 AQQELEEQTRR ddPTM_HeLa_SAHA_4h_R1 2 AQQELEEQTRR 11 1 P26038 P26038 MSN Moesin 0 0 ; ; 137.01 0.0021225 21213000 3336.3 3635.9 3469.8 2656.2 3257.9 3329.6 4108 3203.8 3252 3171.7 FALSE FALSE TRUE 3687.227341 3753.705546 3942.646274 2707.614592 3008.280406 3045.899348 3645.757028 3121.851435 3229.369067 3308.447509 1.114488693 1.134582167 1.191690744 0.818394303 0.909272521 0.920643093 1.101954019 0.943600111 0.976098021 1 11.69193867 -6.263425206 24.99994252 1.072140848 0.945192323 0.400600889 0.087727065 167.8380874 2112947.605 0.014140348 0.022272518 5.45E-07 6.263425206 -0.126948524 AQQELVPPQQQAS(ph)PPQLPK ddPTM_HeLa_SAHA_4h_R1 2 AQQELVPPQQQASPPQLPK 19 0 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 AQQELVPPQQQAS(1)PPQLPK;AQQELVPPQQQAS(1)PPQLPK ; 100.44 0.0010951 32396000 7550.2 8296.3 7327.7 8397.3 8930.2 9360.9 9105.2 8166 8657.5 7507.4 TRUE FALSE FALSE 8344.364678 8565.105563 8326.280795 8559.841884 8245.970005 8563.298657 8080.658932 7957.125544 8597.251753 7831.080754 1.065544455 1.093732249 1.063235211 1.093060096 1.05297982 1.093501513 1.031870209 1.016095453 1.097837198 1 12.93499571 -9.0455859 0.865119548 1.000539974 1.064883063 0 0.038738187 0.400278654 0.551417259 0.015853152 0.004972995 9.00E-10 9.0455859 0.064343089 AQQEQELAADAFK ddPTM_HeLa_SAHA_4h_R1 1 AQQEQELAADAFK 13 0 K7ELL7;P14314-2;P14314 K7ELL7 PRKCSH Glucosidase 2 subunit beta 0 0 214.81 1.01E-43 0 1051.9 818.82 723.36 893.2 631.11 1046.5 1079.2 1160.6 1198.2 1017.2 FALSE FALSE TRUE 1162.543668 845.3503052 821.9357337 910.4891776 582.7544881 957.3323126 957.7655757 1130.913533 1189.861629 1061.05647 1.095647311 0.796706235 0.77463901 0.858096815 0.549220993 0.902244451 0.902652783 1.065837271 1.121393311 1 10.05128572 -7.258384859 24.8598609 1.045166787 0.828271024 0.417633339 0.126677732 188.4837782 1534015.881 0.021321265 0.025517997 5.52E-08 7.258384859 -0.216895763 AQRPQSCTS(ph)VGR ddPTM_HeLa_SAHA_4h_R1 1 AQRPQSCTSVGR 12 1 Q9NYZ3 Q9NYZ3 GTSE1 G2 and S phase-expressed protein 1 1 0 AQRPQSCT(0.021)S(0.979)VGR 109.84 0.014009 1855800 913.88 934.95 825.62 985.08 995.53 1456.8 996.67 1026.3 951.26 963.23 TRUE FALSE FALSE 1010.006091 965.2429934 938.131194 1004.147648 919.2527065 1332.672444 884.5220685 1000.048732 944.6401042 1004.759559 1.005221679 0.960670625 0.933687254 0.999390987 0.914898194 1.326359557 0.880332076 0.995311488 0.940165332 1 9.972634588 AQS(ph)LEPYGTGLR ddPTM_HeLa_SAHA_4h_R1 2 AQSLEPYGTGLR 12 0 Q63ZY3-3;Q63ZY3;Q63ZY3-2;K7ERU2 Q63ZY3-3 KANK2 KN motif and ankyrin repeat domain-containing protein 2 1 0 AQS(0.856)LEPYGT(0.144)GLR;AQS(0.94)LEPYGT(0.06)GLR ; 130.27 0.0010382 16444700 1685.52 2305.51 1961.28 1013.17 1885.79 2522.1 2297.1 1464.33 1299.52 2172.69 TRUE FALSE FALSE 1862.810727 2380.210037 2228.553024 1032.78137 1741.301178 2307.202891 2038.624262 1426.874559 1290.476535 2266.365299 0.821937544 1.050232298 0.983315896 0.455699428 0.768323261 1.018018981 0.899512653 0.62958719 0.569403589 1 11.1461647 AQS(ph)LLSTDR ddPTM_HeLa_SAHA_4h_R1 1 AQSLLSTDR 9 0 J3QRY4;O00231;O00231-2 J3QRY4 PSMD11 26S proteasome non-ATPase regulatory subunit 11 1 0 AQS(0.815)LLS(0.184)T(0.001)DR 117.95 0.0039748 13458000 1106.4 1776.2 924.08 520.32 1287.8 1735 1501.9 917.43 1017.5 1431.4 TRUE FALSE FALSE 1222.776228 1833.750045 1050.00881 530.391546 1189.129042 1587.168239 1332.902259 893.963469 1010.419135 1493.114659 0.818943288 1.22813746 0.703233877 0.355224927 0.79640839 1.062991532 0.892699198 0.598723925 0.676719051 1 10.54410924 -8.91472275 0.311163237 1.059519568 0.770783839 0 0.243243729 5.84020605 0.923727769 0.621027704 0.14511256 1.22E-09 8.91472275 -0.288735729 AQS(ph)PGAVEEILDR ddPTM_HeLa_SAHA_4h_R1 2 AQSPGAVEEILDR 13 0 H7BXT7;E9PHY4;A0A0C4DH16;B8ZZS0;Q9NYM9 H7BXT7 BET1L BET1-like protein 1 0 AQS(1)PGAVEEILDR;AQS(1)PGAVEEILDR ; 208.38 2.24E-11 13040100 1627.42 2332.4 1680.85 1754.98 2224.6 2361.5 2011.99 1492.23 1948.26 1685.92 TRUE FALSE FALSE 1798.599502 2407.97129 1909.907485 1788.950176 2054.151629 2160.286915 1785.59559 1454.060917 1934.7019 1758.608262 1.022740278 1.369248253 1.086033499 1.017253367 1.168055259 1.228407122 1.015345844 0.826824796 1.100132384 1 10.78021844 -7.489674391 24.98431535 1.010032366 1.108592415 0.02387423 0.138199552 743.4564553 559411.9518 0.023415585 0.025798107 3.24E-08 7.489674391 0.098560049 AQS(ph)PGAVEEILDRENKR ddPTM_HeLa_SAHA_4h_R1 1 AQSPGAVEEILDRENKR 17 2 H7BXT7;E9PHY4;A0A0C4DH16;B8ZZS0;Q9NYM9 H7BXT7 BET1L BET1-like protein 1 0 AQS(1)PGAVEEILDRENKR 54.225 0.016438 5161900 1431.2 1759.3 1982.8 1917.9 1773.2 1740.5 1988.4 2142.5 1436.6 1748.8 TRUE FALSE FALSE 1581.740183 1816.302474 2253.005658 1955.023728 1637.337799 1592.199608 1764.659999 2087.697952 1426.602584 1824.199326 0.867087362 0.995671059 1.235065503 1.071716067 0.897565181 0.87282107 0.967361392 1.144446181 0.782043148 1 10.83304766 -7.011994727 24.78528514 0.936927459 1.025296921 0.20594165 0.116670426 906.2030725 1872533.941 0.019377549 0.024439343 9.73E-08 7.011994727 0.088369463 AQS(ph)SPAAPASLSAPEPASQAR ddPTM_HeLa_SAHA_4h_R1 2 AQSSPAAPASLSAPEPASQAR 21 0 J3KPH8;Q8WUI4-8;Q8WUI4-5;Q8WUI4-6;Q8WUI4-7;Q8WUI4;Q8WUI4-4;Q8WUI4-3;Q8WUI4-10;H0YI15 J3KPH8 HDAC7 Histone deacetylase;Histone deacetylase 7 1 0 AQS(0.5)S(0.5)PAAPASLSAPEPASQAR;AQS(0.909)S(0.091)PAAPASLSAPEPASQAR ; 304.29 7.81E-94 15504500 1054.78 1438.72 973.31 1073.67 1143.96 1081.86 1200.69 1132.33 939.32 1147.69 TRUE FALSE FALSE 1165.7266 1485.335472 1105.947618 1094.452435 1056.310032 989.6794416 1065.585201 1103.366638 932.7831956 1197.172533 0.973733166 1.240702933 0.923799693 0.91419775 0.882337343 0.826680712 0.890084906 0.921643797 0.779155193 1 10.22541537 -6.537680868 24.99965852 1.009852574 0.88709665 0.193299579 0.106547875 197.0409115 332786.0313 0.012476571 0.017648182 2.90E-07 6.537680868 -0.122755925 AQS(ph)SPASATFPVSVQEPPTKPR ddPTM_HeLa_SAHA_4h_R1 4 AQSSPASATFPVSVQEPPTKPR 22 1 P56524-2;P56524 P56524-2 HDAC4 Histone deacetylase 4 1 0 AQS(0.762)S(0.235)PAS(0.003)ATFPVSVQEPPTKPR;AQS(0.758)S(0.242)PASATFPVSVQEPPTKPR;AQS(0.737)S(0.263)PASATFPVSVQEPPTKPR;AQS(0.736)S(0.263)PAS(0.001)ATFPVSVQEPPTKPR ;;; 204.33 7.91E-22 32874700 4656.8 5078.21 4866.4 4099.58 4890.91 6642.42 5622.43 5568.74 4827.21 5340.21 TRUE FALSE FALSE 5146.62359 5242.747336 5529.567649 4178.933299 4516.169532 6076.448447 4989.779379 5426.299694 4793.617053 5570.452587 0.9239148 0.941170803 0.992660392 0.750196368 0.810736554 1.090835682 0.895758343 0.974121871 0.860543551 1 12.44357883 -9.013161673 0.63191609 1.005427821 0.918732251 0 0.098849999 1.791982262 1.20552992 0.084055869 0.02069077 9.70E-10 9.013161673 -0.08669557 AQS(ph)YPDNHQEFSDYDNPIFEK ddPTM_HeLa_SAHA_4h_R1 2 AQSYPDNHQEFSDYDNPIFEK 21 0 Q9Y2U5 Q9Y2U5 MAP3K2 Mitogen-activated protein kinase kinase kinase 2 1 0 AQS(0.836)YPDNHQEFS(0.158)DY(0.006)DNPIFEK;AQS(0.992)Y(0.008)PDNHQEFSDYDNPIFEK ; 153.87 1.88E-06 40592800 5086.8 4967.6 4566 4415.6 4952.2 5138.5 5232.6 4921.6 5263.6 4776.3 TRUE FALSE FALSE 5621.852963 5128.553499 5188.230701 4501.070323 4572.763506 4700.670892 4643.814077 4795.712598 5226.970179 4982.229668 1.128380933 1.029369146 1.041347157 0.903424897 0.917814676 0.943487395 0.932075473 0.962563534 1.049122688 1 12.28257581 -6.347041415 4.877591884 1.058829781 0.931898764 0.749603753 0.033902669 0.11688086 4.82352851 0.00776925 0.012017521 4.50E-07 6.347041415 -0.126931017 AQSGS(ph)DSSPEPK ddPTM_HeLa_SAHA_4h_R1 1 AQSGSDSSPEPK 12 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 AQS(0.077)GS(0.441)DS(0.289)S(0.193)PEPK 95.651 0.0039884 0 517.24 212.42 471.77 503.41 442.46 867.12 631.44 374.18 651.65 926.08 TRUE FALSE FALSE 571.6456764 219.3025474 536.0603587 513.1542285 408.5588104 793.2364977 560.3887093 364.6090174 647.1151146 966.0078409 0.591760907 0.227019428 0.554923403 0.531211246 0.422935294 0.82114913 0.580107827 0.377438983 0.669885986 1 9.915891089 -8.741831662 0.810778025 0.982443986 0.517674915 0.288105856 0.176181734 0.313350943 0.405822544 0.07897241 0.032248434 1.81E-09 8.741831662 -0.46476907 AQSGSDS(ph)SPEPK ddPTM_HeLa_SAHA_4h_R1 1 AQSGSDSSPEPK 12 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 AQSGS(0.006)DS(0.658)S(0.336)PEPK 107.46 0.0036343 2454200 1001.9 791.11 1136.6 959.32 1004.9 1595.7 1158.4 1169 1172.5 1458.3 TRUE FALSE FALSE 1107.284439 816.7424831 1291.489929 977.8890258 927.9047791 1459.737383 1028.053783 1139.098673 1164.340477 1521.17445 0.727914171 0.536915725 0.849008428 0.642851335 0.609992351 0.959612083 0.675828984 0.748828429 0.765422057 1 10.5709699 -8.990949167 0.828994573 0.9981646 0.719334401 0.103976254 0.13350857 0.416435385 0.5295127 0.069164598 0.022212937 1.02E-09 8.990949167 -0.2788302 AQSLLS(ph)TDR ddPTM_HeLa_SAHA_4h_R1 1 AQSLLSTDR 9 0 J3QRY4;O00231;O00231-2 J3QRY4 PSMD11 26S proteasome non-ATPase regulatory subunit 11 1 0 AQS(0.166)LLS(0.824)T(0.01)DR 92.943 0.015581 3390600 1223.1 1623.6 1074.9 964.1 1272.9 1853.6 1587.5 894.9 1328.8 1514.1 TRUE FALSE FALSE 1351.75127 1676.205705 1221.381774 982.7615496 1175.370677 1695.662852 1408.870322 872.0097538 1319.552773 1579.380261 0.855874487 1.061305974 0.77332977 0.62224505 0.744197396 1.073625455 0.892039971 0.552121472 0.835487694 1 10.62514285 -6.730710766 24.91743508 0.939741485 0.786581071 0.225561438 0.14621123 243.0869553 197115.5133 0.023449279 0.033160128 1.86E-07 6.730710766 -0.153160414 AQSLLST(ph)DR ddPTM_HeLa_SAHA_4h_R1 1 AQSLLSTDR 9 0 J3QRY4;O00231;O00231-2 J3QRY4 PSMD11 26S proteasome non-ATPase regulatory subunit 11 1 0 AQS(0.033)LLS(0.242)T(0.725)DR 131.42 0.0032932 3095700 1656.4 2283.7 1980.8 1729.7 2192.5 2707.8 2417.5 1904.3 2093.4 1968.7 TRUE FALSE FALSE 1830.627752 2357.693378 2250.733108 1763.180845 2024.511124 2477.080206 2145.476537 1855.590763 2078.831859 2053.580292 0.891432275 1.148089212 1.096004436 0.858588706 0.98584464 1.206225155 1.044749283 0.903588124 1.012296362 1 11.00392564 -7.287756785 24.96067927 0.948731911 1.035410828 0.071933078 0.103288411 1154.986317 1095440.695 0.018191263 0.020805486 5.16E-08 7.287756785 0.086678917 AQSNGSGNGS(ph)DSEMDTSSLER ddPTM_HeLa_SAHA_4h_R1 2 AQSNGSGNGSDSEMDTSSLER 21 0 Q9NRY4 Q9NRY4 ARHGAP35 Rho GTPase-activating protein 35 1 0 AQSNGSGNGS(0.999)DS(0.001)EMDTSSLER;AQSNGS(0.002)GNGS(0.782)DS(0.209)EMDT(0.006)S(0.001)SLER ; 275.41 4.92E-66 17485900 1337.47 1450.8 1201.98 1408.9 1569.64 1479.14 1544.05 1370.72 1145.87 1312.81 TRUE FALSE FALSE 1478.151231 1497.806872 1365.779575 1436.171297 1449.374522 1353.108951 1370.30943 1335.658967 1137.895797 1369.411664 1.079406047 1.093759394 0.997347701 1.048750595 1.058392126 0.988095097 1.000655586 0.97535241 0.830937714 1 10.41934049 -5.250341898 24.03121821 1.041613769 0.989296476 0 0.072718891 428.7689768 928480.7811 0.005215894 0.013148215 5.62E-06 5.250341898 -0.052317293 AQSNGSGNGSDS(ph)EMDTSSLER ddPTM_HeLa_SAHA_4h_R1 1 AQSNGSGNGSDSEMDTSSLER 21 0 Q9NRY4 Q9NRY4 ARHGAP35 Rho GTPase-activating protein 35 1 0 AQSNGSGNGS(0.064)DS(0.933)EMDT(0.001)S(0.001)S(0.001)LER 122.01 2.97E-05 10929000 176.5 181.32 268.69 191.11 193.7 199.5 160.03 338.03 142.72 257.53 TRUE FALSE FALSE 195.0650798 187.194887 305.3056739 194.8092104 178.8587478 182.5014776 142.0230032 329.3836821 141.7267999 268.6333786 0.726138653 0.696841502 1.136514291 0.725186168 0.665809844 0.679370072 0.528687105 1.226145774 0.527584475 1 8.069494765 AQSPSYVIS(ph)TGVSPSR ddPTM_HeLa_SAHA_4h_R1 1 AQSPSYVISTGVSPSR 16 0 A0A0D9SF60;Q99569-2;Q99569 A0A0D9SF60 PKP4 Plakophilin-4 1 0 AQS(0.02)PS(0.011)YVIS(0.872)T(0.032)GVS(0.061)PS(0.003)R 117 0.00089262 7653100 1190 1323.3 1241.1 1374.8 1596.5 1706.5 1496.2 1682.4 1553.4 1533.7 TRUE FALSE FALSE 1315.16966 1366.175788 1410.230645 1401.411242 1474.176515 1561.096599 1327.843638 1639.366644 1542.589763 1599.825313 0.822070791 0.853953102 0.881490394 0.875977665 0.921460926 0.975791911 0.829992892 1.024716031 0.964223875 1 10.64369867 -3.542615789 4.205656854 0.905722266 11.0457641 0.276749854 0.058709639 756.5791133 128.8259858 0.010238905 72061.22712 0.000286671 3.542615789 10.14004184 AQSS(ph)PAAPASLSAPEPASQAR ddPTM_HeLa_SAHA_4h_R1 5 AQSSPAAPASLSAPEPASQAR 21 0 J3KPH8;Q8WUI4-8;Q8WUI4-5;Q8WUI4-6;Q8WUI4-7;Q8WUI4;Q8WUI4-4;Q8WUI4-3;Q8WUI4-10;H0YI15 J3KPH8 HDAC7 Histone deacetylase;Histone deacetylase 7 1 0 AQS(0.287)S(0.713)PAAPASLSAPEPASQAR;AQS(0.076)S(0.923)PAAPASLSAPEPASQAR;AQS(0.048)S(0.952)PAAPAS(0.001)LSAPEPASQAR;AQS(0.045)S(0.955)PAAPASLSAPEPASQAR;AQS(0.054)S(0.946)PAAPASLSAPEPASQAR ;;;; 216.61 3.91E-27 74726500 3423.43 3513.31 3166.2 2941.34 2939.88 3321.24 3445.13 2674.07 3132.77 3200.29 TRUE FALSE FALSE 3783.522075 3627.143549 3597.673247 2998.273889 2714.62703 3038.251667 3057.474905 2605.671161 3110.968799 3338.270164 1.133378034 1.086533855 1.077705839 0.89815196 0.813183744 0.910127557 0.915885999 0.780545322 0.931910434 1 11.704885 -6.201457377 4.353119447 1.067923192 0.862965363 0.657402688 0.06519285 0.08982565 3.50314584 0.009402911 0.015729141 6.29E-07 6.201457377 -0.204957829 AQST(ph)DSLGTSGSLQSK ddPTM_HeLa_SAHA_4h_R1 1 AQSTDSLGTSGSLQSK 16 0 I3L456;Q15276-2;Q15276 I3L456 RABEP1 Rab GTPase-binding effector protein 1 1 0 AQS(0.093)T(0.879)DS(0.027)LGTSGSLQSK 227.41 3.53E-27 29460000 2105.2 2709.6 2241 1910.9 2212.4 3739.1 2839.3 2476.5 3052.5 2740.9 TRUE FALSE FALSE 2326.634595 2797.392818 2546.391809 1947.888233 2042.88639 3420.507644 2519.814491 2413.154716 3031.257404 2859.073613 0.81377219 0.978426301 0.890635274 0.681300483 0.714527384 1.196369212 0.881339494 0.844033783 1.06022363 1 11.48133205 -9.506236062 1.20730298 1.00123616 0.870928191 0.16035804 0.136689106 0.91456196 2.348865459 0.10040587 0.023328244 3.12E-10 9.506236062 -0.130307969 AQST(ph)IPEPMIIRSRFS(ph)GS(ph)LK ddPTM_HeLa_SAHA_4h_R1 1 AQSTIPEPMIIRSRFSGSLK 20 2 Q9BXD7 Q9BXD7 CDRT1 3 0 AQS(0.466)T(0.513)IPEPMIIRS(0.072)RFS(0.965)GS(0.984)LK 41.047 0.023125 6863700 210.3 459.74 298.54 417.43 475.65 483.85 454.15 537.99 593.53 293.45 TRUE FALSE FALSE 232.4203189 474.6358776 339.2234765 425.5099613 439.2057998 442.6232579 403.0478467 524.2289948 589.3995764 306.1020656 0.759290266 1.550580447 1.108203814 1.390091767 1.434834485 1.445998925 1.31671064 1.712595417 1.92550016 1 8.25786897 -7.26256756 24.99997172 0.88633151 1.406649471 0 0.363734292 41.11250045 911030.9676 0.027335026 0.032200856 5.46E-08 7.26256756 0.520317961 AQSTDS(ph)LGTSGSLQSK ddPTM_HeLa_SAHA_4h_R1 1 AQSTDSLGTSGSLQSK 16 0 I3L456;Q15276-2;Q15276 I3L456 RABEP1 Rab GTPase-binding effector protein 1 1 0 AQSTDS(1)LGTSGSLQSK 202.79 3.20E-15 7168700 1951 1561.4 1390.9 1732.7 1669.4 1583.1 1569.3 2067.2 2002.3 1731.2 TRUE FALSE FALSE 2156.215132 1611.990384 1580.444609 1766.238914 1541.490933 1448.210974 1392.718234 2014.324017 1988.365831 1805.840504 1.194023019 0.892653798 0.875185048 0.978070272 0.853614109 0.801959514 0.771229923 1.115449572 1.101074999 1 10.81845476 -7.239585397 22.93991939 1.091621973 0.890174778 0.452564588 0.100469703 198.8334546 208713.4023 0.018389028 0.022506658 5.76E-08 7.239585397 -0.201447195 AQSVS(ph)PVQAPPPGGSAQLLPGK ddPTM_HeLa_SAHA_4h_R1 2 AQSVSPVQAPPPGGSAQLLPGK 22 0 I3L2J0;A0A0A0MQR4;Q96RK0 I3L2J0 CIC Protein capicua homolog 1 0 AQS(0.123)VS(0.877)PVQAPPPGGSAQLLPGK;AQS(0.213)VS(0.786)PVQAPPPGGSAQLLPGK ; 54.675 0.016344 7027200 2806.02 2233.47 2610.61 3278.4 2803.34 3463.2 2993.13 3462.96 3119.95 2738.35 TRUE FALSE FALSE 3101.170058 2305.835893 2966.370335 3341.858173 2588.548695 3168.115877 2656.335135 3374.382498 3098.238014 2856.41367 1.085686605 0.807248585 1.038494657 1.16994895 0.906223326 1.109123622 0.929954636 1.181335369 1.084660127 1 11.47998921 -6.528778495 24.9927754 1.019282109 1.052175163 0.051181933 0.111377648 638.1601348 2703396.512 0.016739634 0.023710114 2.96E-07 6.528778495 0.032893054 AQSYPDNHQEFS(ph)DYDNPIFEK ddPTM_HeLa_SAHA_4h_R1 2 AQSYPDNHQEFSDYDNPIFEK 21 0 Q9Y2U5 Q9Y2U5 MAP3K2 Mitogen-activated protein kinase kinase kinase 2 1 0 AQS(0.076)YPDNHQEFS(0.922)DY(0.002)DNPIFEK;AQS(0.012)Y(0.011)PDNHQEFS(0.92)DY(0.057)DNPIFEK ; 97.384 0.00026792 40300000 4001.9 4298.8 3808.9 4104.4 4114.4 4889.3 5215.5 4740.6 4722.7 4840.8 TRUE FALSE FALSE 4422.838203 4438.083941 4327.957056 4183.846597 3799.155561 4472.704134 4628.638214 4619.342316 4689.834346 5049.510578 0.875894433 0.878913683 0.857104266 0.828564775 0.752380949 0.885769831 0.91665086 0.91480991 0.92877008 1 12.30192785 -8.895291859 0.627772723 1.006778552 0.858519135 0.37442077 0.049197395 0.522791883 0.366074886 0.040783781 0.011456031 1.27E-09 8.895291859 -0.148259417 AQT(ph)APTKTS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 AQTAPTKTSPR 11 1 Q14669;Q14669-2;Q14669-3;Q14669-4 Q14669 TRIP12 E3 ubiquitin-protein ligase TRIP12 2 0 AQT(0.926)APT(0.073)KT(0.088)S(0.914)PR 91.969 0.0087545 0 628.99 635.77 668.93 882.93 950.88 1091.5 655.77 1007.6 713.65 840.54 TRUE FALSE FALSE 695.1500541 656.3693651 760.0882968 900.0203869 878.0237798 998.4980594 581.9810337 981.827051 708.6836515 876.7797929 0.79284452 0.7486137 0.866909004 1.026506763 1.001418813 1.138824215 0.663771039 1.119810309 0.808280092 1 9.776070739 -6.272650465 23.98014432 0.883326888 0.980833749 0.190319874 0.138983054 805.6317342 1723218.694 0.022261456 0.034216235 5.34E-07 6.272650465 0.097506862 AQT(ph)PPGPSLSGSK ddPTM_HeLa_SAHA_4h_R1 4 AQTPPGPSLSGSK 13 0 Q9UQ35;Q9UQ35-2;I3L4D8 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 AQT(0.993)PPGPS(0.007)LSGSK;AQT(0.968)PPGPS(0.026)LS(0.005)GS(0.002)K;AQT(0.958)PPGPS(0.036)LS(0.006)GSK;AQT(0.918)PPGPS(0.07)LS(0.011)GS(0.001)K ;;; 130.95 0.0012348 228000000 12482.1 15150.2 12570.4 13539.1 14794.4 16883.2 16061.8 14415.4 18023.4 14764.5 TRUE FALSE FALSE 13795.02455 15641.07642 14283.42865 13801.16886 13660.85627 15444.65638 14254.48399 14046.67494 17897.97369 15401.06985 0.895718588 1.01558376 0.927430937 0.896117542 0.887006968 1.002830097 0.925551545 0.912058388 1.16212535 1 13.91074295 -9.538751698 1.249502703 1.000694767 0.929993472 0.319450118 0.066717281 0.502429889 1.382221368 0.030816145 0.007035353 2.89E-10 9.538751698 -0.070701295 AQT(ph)PPISSLPTSPSDEVGR ddPTM_HeLa_SAHA_4h_R1 2 AQTPPISSLPTSPSDEVGR 19 0 Q15751 Q15751 HERC1 Probable E3 ubiquitin-protein ligase HERC1 1 0 AQT(1)PPISSLPTSPSDEVGR;AQT(0.793)PPIS(0.16)S(0.039)LPT(0.006)S(0.002)PSDEVGR ; 133.35 0.00012845 11638400 2965.1 7368.4 3632.2 3647.1 4764.2 5662.1 5508.3 5404.2 3814.8 3004.2 TRUE FALSE FALSE 3276.982822 7607.140995 4127.1773 3717.694894 4399.168025 5179.657226 4888.491587 5265.968389 3788.252496 3133.725764 1.045714612 2.427506925 1.317019296 1.186349787 1.403813976 1.652875081 1.559961514 1.680417747 1.208865351 1 11.61366322 -7.470034327 24.99977593 1.020166976 1.581324183 0.349433701 0.320125939 227.6251958 107686.0749 0.052207343 0.05964805 3.39E-08 7.470034327 0.561157207 AQTLPTSVVTITS(ph)ESSPGKR ddPTM_HeLa_SAHA_4h_R1 1 AQTLPTSVVTITSESSPGKR 20 1 A0A087WUZ3;Q01082 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 AQTLPTSVVTIT(0.004)S(0.463)ES(0.463)S(0.071)PGKR 191.9 1.51E-14 3253800 941.12 1038.3 961.31 1052.1 838.84 1352.2 1118.3 1228.5 1167 1015.3 TRUE FALSE FALSE 1040.11132 1071.941601 1092.312321 1072.464917 774.5682604 1236.984953 992.4659408 1197.076749 1158.878752 1059.074552 0.982094526 1.012149333 1.031383786 1.012643458 0.731363301 1.167986664 0.937106778 1.130304516 1.094237181 1 10.04858843 -2.626427945 2.100782036 0.988181387 109.7756231 0.111188572 0.10783396 1802.214057 12.1815665 0.012880276 943061.4153 0.00236359 2.626427945 108.7874418 AQTLPTSVVTITSESS(ph)PGK ddPTM_HeLa_SAHA_4h_R1 2 AQTLPTSVVTITSESSPGK 19 0 A0A087WUZ3;Q01082 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 AQTLPTSVVTITSES(0.209)S(0.791)PGK;AQTLPTSVVTITS(0.001)ES(0.094)S(0.905)PGK ; 235.72 4.95E-33 4873600 3878 5070.3 4099.8 4771.4 5208.9 6197.9 5601.8 4842.9 6036.5 5240.7 TRUE FALSE FALSE 4285.905833 5234.581047 4658.499393 4863.757347 4809.795207 5669.804052 4971.470721 4719.02563 5994.491505 5466.652224 0.784009236 0.957547843 0.852166774 0.88971406 0.879842911 1.037162018 0.909417778 0.863238676 1.096556221 1 12.41644188 AQTLPTSVVTITSESS(ph)PGKR ddPTM_HeLa_SAHA_4h_R1 4 AQTLPTSVVTITSESSPGKR 20 1 A0A087WUZ3;Q01082 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 AQTLPTSVVTITS(0.002)ES(0.042)S(0.956)PGKR;AQTLPTSVVTITS(0.069)ES(0.069)S(0.862)PGKR;AQTLPTSVVTIT(0.002)S(0.034)ES(0.239)S(0.725)PGKR;AQTLPTSVVTITSES(0.084)S(0.915)PGKR ;;; 262.06 9.66E-53 484357000 16425.1 17576.1 17194.4 19194.1 19598.1 21990.4 19906.1 18728.5 21399.4 20316 TRUE FALSE FALSE 18152.76738 18145.57717 19537.56329 19565.62956 18096.49781 20116.69421 17666.21324 18249.45209 21250.47983 21191.92218 0.856588998 0.856249708 0.921934458 0.923258843 0.853933761 0.949262367 0.833629582 0.861151335 1.002763206 1 14.37122683 -9.330485733 0.96490829 1.002695879 0.881926307 0.636361649 0.035928657 0.315554833 0.507518493 0.027235153 0.006581305 4.67E-10 9.330485733 -0.120769571 AQTPPGPSLSGS(ph)KSPCPQEK ddPTM_HeLa_SAHA_4h_R1 1 AQTPPGPSLSGSKSPCPQEK 20 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 AQT(0.002)PPGPS(0.056)LS(0.096)GS(0.493)KS(0.353)PCPQEK 53.381 0.018157 146650000 1933.8 1579.8 1947 1877 2078.1 2230.7 2033.6 1928.1 2145.4 1824.9 TRUE FALSE FALSE 2137.205957 1630.986557 2212.32702 1913.332049 1918.876427 2040.63181 1804.773976 1878.781994 2130.469987 1903.58037 1.122729563 0.85679942 1.162192601 1.005122809 1.008035414 1.071996666 0.948094446 0.986972772 1.119190984 1 10.89449977 -4.758335738 24.99981575 1.045602199 0.967533592 0.119644533 0.081966818 119.7415594 964464.394 0.010884237 0.037524047 1.74E-05 4.758335738 -0.078068607 AQTPPGPSLSGSKS(ph)PCPQEK ddPTM_HeLa_SAHA_4h_R1 2 AQTPPGPSLSGSKSPCPQEK 20 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 AQT(0.002)PPGPS(0.016)LS(0.012)GS(0.091)KS(0.879)PCPQEK;AQTPPGPS(0.003)LS(0.032)GS(0.11)KS(0.856)PCPQEK ; 71.002 0.004184 146994000 3953.7 4038.5 3594.2 3888.5 3698.1 4922.5 4859.9 3963.8 3654.8 3822.5 TRUE FALSE FALSE 4369.568306 4169.35005 4083.998858 3963.76754 3414.752377 4503.075307 4313.051261 3862.411736 3629.365949 3987.306682 1.095869632 1.045655723 1.024249997 0.994096481 0.856405752 1.129352635 1.081695391 0.968676865 0.910229947 1 11.96119886 -6.606087593 3.90908081 1.046501128 1.008815034 0 0.08251312 0.601193091 17.882497 0.012073527 0.017420834 2.48E-07 6.606087593 -0.037686094 AQVARPGGDTIFGK ddPTM_HeLa_SAHA_4h_R1 2 AQVARPGGDTIFGK 14 1 P49773;D6RC06;D6REP8;D6RE99;D6RD60 P49773 HINT1 Histidine triad nucleotide-binding protein 1 0 0 ; ; 108.66 0.0033148 5513600 3079.3 3137 3159.7 2649.6 3061.9 3347.9 3208.5 2826.7 2534.5 2924.6 FALSE FALSE TRUE 3403.194902 3238.640858 3590.287461 2700.886839 2827.297883 3062.640085 2847.471136 2754.397107 2516.862208 3050.693819 1.115547841 1.061607966 1.176875712 0.885335271 0.926772089 1.003915918 0.933384766 0.902875631 0.825013049 1 11.57492168 -6.243152906 24.92474989 1.064930007 0.934495765 0.215701086 0.092291789 494.8720553 674518.4877 0.009358415 0.015499663 5.71E-07 6.243152906 -0.130434242 AQVARPGGDTIFGK(ac)IIR ddPTM_HeLa_SAHA_4h_R1 1 AQVARPGGDTIFGKIIR 17 2 P49773;D6RC06;D6REP8;D6RE99;D6RD60 P49773 HINT1 Histidine triad nucleotide-binding protein 1 0 1 AQVARPGGDTIFGK(1)IIR 154.81 1.82E-08 5411300 1224.7 1179.8 1338.6 1732.6 1357.4 1545.9 1575.2 1687.3 1345.5 1642.3 FALSE TRUE FALSE 1353.519565 1218.026294 1521.017437 1766.136978 1253.396305 1414.180623 1397.95435 1644.141309 1336.136556 1713.10759 0.790096065 0.711003968 0.887870351 1.030955083 0.731650664 0.825506017 0.816034182 0.959742003 0.779949002 1 10.74240005 -9.376706714 1.125265349 0.999150226 0.838381878 0 0.113937717 0.498502601 1.13847567 0.061781535 0.016271759 4.20E-10 9.376706714 -0.160768348 AQVEQELTTLR ddPTM_HeLa_SAHA_4h_R1 1 AQVEQELTTLR 11 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 147.62 0.0036855 3810600 992.73 959.31 1226.6 1072.4 978.99 1315.4 1080.1 1289.6 1058.3 1370.8 FALSE FALSE TRUE 1097.149896 990.3922734 1393.75466 1093.157853 903.9799977 1203.32052 958.5643053 1256.613899 1050.935204 1429.901897 0.767290329 0.692629526 0.974720478 0.764498498 0.632197216 0.841540614 0.670370679 0.878811268 0.734970145 1 10.48170045 -9.257914644 0.633190562 1.030657859 0.770774449 0 0.127231224 0.769939155 0.457225013 0.113924034 0.020592766 5.52E-10 9.257914644 -0.25988341 AQVPGPLT(ph)PEMEAR ddPTM_HeLa_SAHA_4h_R1 4 AQVPGPLTPEMEAR 14 0 B8ZZS4;Q9H8Y5 B8ZZS4 ANKZF1 Ankyrin repeat and zinc finger domain-containing protein 1 1 0 AQVPGPLT(1)PEMEAR;AQVPGPLT(1)PEMEAR;AQVPGPLT(1)PEMEAR;AQVPGPLT(1)PEMEAR ;;; 166.04 1.22E-05 53381800 8839.1 8195.6 7757.4 8238.2 9215.4 10715.1 9176.5 9651.2 9526.7 9127.3 TRUE FALSE FALSE 9768.837093 8461.142817 8814.538073 8397.662274 8509.318043 9802.113198 8143.936069 9404.336279 9460.402919 9520.822571 1.026049695 0.888698718 0.925816862 0.88203117 0.893758704 1.029544782 0.855381561 0.987765102 0.993653946 1 13.21687051 -7.269222639 24.76579709 1.012301246 0.92213553 0.370795854 0.049531124 336.9630246 1072191.685 0.007746243 0.008945133 5.38E-08 7.269222639 -0.090165717 AQYDELAR ddPTM_HeLa_SAHA_4h_R1 5 AQYDELAR 8 0 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 ;;;; ;;;; 168.27 1.18E-07 224425800 17167.8 16198 15678.6 17176 17308.8 17423.7 19018.7 17071.8 16615.2 15456.4 FALSE FALSE TRUE 18973.58797 16722.82583 17815.19796 17508.46632 15982.60348 15939.10274 16878.66582 16635.12808 16499.57347 16122.80105 1.1768171 1.037215914 1.104969162 1.08594445 0.991304392 0.988606303 1.046881728 1.031776552 1.023368919 1 13.97681479 -5.772944458 24.37777444 1.083526705 1.015085356 0.218554017 0.049462475 203.7894314 431804.0297 0.009990634 0.018229998 1.69E-06 5.772944458 -0.068441349 AQYSWTINGK ddPTM_HeLa_SAHA_4h_R1 1 AQYSWTINGK 10 0 M0R2Y7;M0R2A2;M0R0B3;Q00888-3;Q00888-2;Q00888 M0R2Y7 PSG4 Pregnancy-specific beta-1-glycoprotein 4 0 0 98.033 0.01962 1765400 196.84 422.95 252.65 249.28 270.18 411.83 418.57 250.11 258.33 340.83 FALSE FALSE TRUE 217.5445343 436.6538575 287.0798263 254.1051749 249.4788668 376.7397671 371.471402 243.7125484 256.5322605 355.5248493 0.611896847 1.228195043 0.807481747 0.71473253 0.701719914 1.05967211 1.044853553 0.685500743 0.721559298 1 8.47380659 -5.258528201 24.91042336 0.829248853 0.941493264 0.056640031 0.19162102 634.906347 5432737.526 0.029846391 0.072606386 5.51E-06 5.258528201 0.112244411 ARAEEAEAQK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 ARAEEAEAQKR 11 2 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 1 ARAEEAEAQK(1)R 78.324 0.023205 285240 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 ARAVS(ph)PAPQSSSR ddPTM_HeLa_SAHA_4h_R1 3 ARAVSPAPQSSSR 13 1 A0A075B784;Q9P275 A0A075B784 USP36 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 36 1 0 ARAVS(1)PAPQSSSR;ARAVS(0.993)PAPQSSS(0.006)R;ARAVS(1)PAPQSSSR ;; 87.157 0.0076615 6537700 846.25 424.309 787.55 853.02 680.66 595.98 411.16 778.99 93.696 517.56 TRUE FALSE FALSE 935.2624577 438.05689 894.8732126 869.5314356 628.5079778 545.1991511 364.8951947 759.0645638 93.04396191 539.8745445 1.732369987 0.811404973 1.657557708 1.610617586 1.164174129 1.009862674 0.675888868 1.406001768 0.172343673 1 9.076480384 -5.526651037 23.83097088 1.353303116 1.010432054 0 0.488263254 84.97128646 536795.8204 0.052273879 0.10499928 2.97E-06 5.526651037 -0.342871061 ARAVSPAPQSSS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 ARAVSPAPQSSSR 13 1 A0A075B784;Q9P275 A0A075B784 USP36 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 36 1 0 ARAVSPAPQS(0.005)S(0.021)S(0.974)R 136.6 0.0022719 981050 314.33 56.568 413.36 179.46 278.06 141.3 356 420.51 0 298 TRUE FALSE FALSE 347.3926716 58.40084032 469.6905481 182.9337078 256.7551029 129.2604451 315.9419431 409.7539631 0 310.8482384 1.117563585 0.187875732 1.510996332 0.588498454 0.825982171 0.415831358 1.016386468 1.318180104 0 1 8.280066593 ARDEERRR ddPTM_HeLa_SAHA_4h_R1 1 ARDEERRR 8 3 A8MQ02;P55196-6;H0Y8L4 A8MQ02 MLLT4 Afadin 0 0 96.19 0.0039843 0 657.75 444.33 265.53 455.17 388.34 527.69 505 519.13 464.17 431.25 FALSE FALSE TRUE 726.9351629 458.7265835 301.7150456 463.9804735 358.5854731 482.7278433 448.1760709 505.8514063 460.9398032 449.843298 1.615974198 1.019747511 0.670711439 1.031426889 0.79713419 1.073102224 0.99629376 1.124505819 1.02466749 1 8.813278719 -7.023041899 24.25731155 1.292296949 0.944497453 0.225580721 0.204373798 489.5340232 515355.3283 0.0420063 0.051657273 9.48E-08 7.023041899 -0.347799496 AREEAERELER ddPTM_HeLa_SAHA_4h_R1 1 AREEAERELER 11 2 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 79.07 0.013049 11781000 2031.5 1017.1 1719.3 1682.7 1837.4 1470.8 1547.8 1523.3 905.78 1408.3 FALSE FALSE TRUE 2245.182491 1050.054707 1953.59725 1715.271092 1696.618809 1345.479566 1373.63747 1484.336192 899.4766032 1469.018705 1.528355278 0.714800093 1.32986547 1.167630532 1.154933428 0.915903631 0.935071463 1.010427019 0.612297584 1 10.52063705 -5.38442665 3.476733855 1.211237411 0.951605414 0 0.27788749 0.330569792 7.313640456 0.035535575 0.08508723 4.13E-06 5.38442665 -0.259631998 AREEEEQKEGGDGAAGDPK ddPTM_HeLa_SAHA_4h_R1 2 AREEEEQKEGGDGAAGDPK 19 2 Q13442 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 0 0 ; ; 70.334 0.0054976 7800500 3684.1 4175.8 3814.4 4249.4 4306.4 4878.4 4904.6 4279.9 4722 4271.4 FALSE FALSE TRUE 4071.610541 4311.09866 4334.206567 4331.653282 3976.444562 4462.732875 4352.7215 4170.426355 4689.139218 4455.560958 0.913826694 0.96757708 0.972763387 0.972190331 0.892467772 1.001609655 0.976918853 0.93600478 1.052423985 1 12.12139136 -9.654695594 1.509107403 0.999887739 0.949590138 0.340494503 0.035455564 0.458717265 1.885901388 0.022806527 0.0051917 2.21E-10 9.654695594 -0.050297601 AREEEEQKEGGDGAAGDPKK ddPTM_HeLa_SAHA_4h_R1 1 AREEEEQKEGGDGAAGDPKK 20 3 Q13442 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 0 0 47.916 0.012523 4381500 3299.4 2711.8 2978.9 3156.9 3899.3 3519.6 3188.1 3720.4 2725.9 3104.5 FALSE FALSE TRUE 3646.44603 2799.664099 3384.848979 3218.006364 3600.536476 3219.710279 2829.366597 3625.237555 2706.93024 3238.350188 1.126019676 0.86453408 1.045238712 0.993717843 1.111842842 0.994244011 0.873706188 1.119470516 0.835897937 1 11.66104329 AREES(ph)WGPPR ddPTM_HeLa_SAHA_4h_R1 1 AREESWGPPR 10 1 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 1 0 AREES(1)WGPPR 80.318 0.015569 5269900 517.68 501.42 605.27 476.44 480.12 731.16 698.8 646.4 511.84 645.43 TRUE FALSE FALSE 572.1319576 517.666337 687.7530435 485.6621851 443.3333093 668.8610546 620.1691849 629.866024 508.2780638 673.257646 0.84979645 0.768897821 1.021530238 0.721361559 0.658489825 0.993469675 0.921146887 0.935549752 0.754953274 1 9.395014899 -9.126517167 0.847684778 1.001740582 0.856768878 0 0.133637444 0.858266776 1.097225646 0.078350517 0.02188505 7.47E-10 9.126517167 -0.144971704 AREETDKEEPASK(ac)QQK ddPTM_HeLa_SAHA_4h_R1 2 AREETDKEEPASKQQK 16 3 P05455 P05455 SSB Lupus La protein 0 1 ; AREETDKEEPASK(1)QQK;AREETDKEEPASK(1)QQK 133.66 1.14E-05 22841000 7099 6117.8 6205.2 6784.1 6627.6 7471.6 8109.2 7428.9 5904 5494.7 FALSE TRUE FALSE 7845.705391 6316.020734 7050.812341 6915.416065 6119.79472 6834.977646 7196.731474 7238.879495 5862.913583 5731.603407 1.368850012 1.10196402 1.230164029 1.206541272 1.067728223 1.19250708 1.255622722 1.26297634 1.02290985 1 12.48472307 -9.609213289 1.421679429 1.000350832 1.227227854 0.48469065 0.080768251 0.304554599 1.107634589 0.065148974 0.015097365 2.46E-10 9.609213289 0.226877022 ARENPSEEAQNLVEFTDEEGYGR ddPTM_HeLa_SAHA_4h_R1 1 ARENPSEEAQNLVEFTDEEGYGR 23 1 Q12874 Q12874 SF3A3 Splicing factor 3A subunit 3 0 0 126.51 3.49E-09 0 186.15 335.53 317.11 196.44 327.65 301.45 289.03 221.87 259.23 292.39 FALSE FALSE TRUE 205.7301111 346.4013921 360.3240994 200.2423803 302.5455278 275.7647641 256.5075837 216.1948867 257.4259973 304.9963638 0.674532996 1.13575581 1.181404574 0.656540221 0.991964376 0.904157547 0.841018498 0.708844145 0.844029726 1 8.252648233 -4.310844749 2.808324358 0.887613647 0.686412613 0.109795855 0.165079315 0.813636824 9.336254131 0.025912348 0.352692023 4.89E-05 4.310844749 -0.201201034 ARFEELNADLFR ddPTM_HeLa_SAHA_4h_R1 3 ARFEELNADLFR 12 1 P11142;E9PKE3;P11142-2;E9PNE6;E9PN89;A8K7Q2;P54652 P11142 HSPA8;HSPA2 Heat shock cognate 71 kDa protein;Heat shock-related 70 kDa protein 2 0 0 ;; ;; 141.34 0.00094554 10169400 4194.9 4093.8 6153.9 4939.3 5152.2 3875.74 5614.4 2753.71 2820.59 3565.49 FALSE FALSE TRUE 4636.138829 4226.441806 6992.521444 5034.907294 4757.439549 3545.505148 4982.652936 2683.274086 2800.961285 3719.215723 1.246536683 1.13637985 1.880106443 1.353755111 1.279151279 0.953293762 1.339705278 0.721462342 0.753105357 1 11.86078271 -4.250250101 23.84926815 1.19779203 0.721461804 0.209375156 0.286257053 1055.50849 2249669.739 0.036907118 0.7217554 5.62E-05 4.250250101 -0.476330226 ARGCLGAAGPT(ph)SSGRAAR ddPTM_HeLa_SAHA_4h_R1 1 ARGCLGAAGPTSSGRAAR 18 2 Q8NEG7 Q8NEG7 DENND6B Protein DENND6B 1 0 ARGCLGAAGPT(0.333)S(0.333)S(0.333)GRAAR 89.356 0.0076542 6275600 562.58 470.49 406.21 584.04 595.14 713 570.46 627.84 683.4 578.26 TRUE FALSE FALSE 621.7547456 485.7341847 461.5661833 595.3449387 549.5405018 652.2483888 506.2703394 611.7807619 678.6441638 603.1916185 1.030774843 0.805273432 0.76520656 0.986991398 0.911054605 1.081328667 0.839319254 1.014239494 1.125088849 1 9.236472572 -7.322500381 24.99981544 1.014532601 0.915158848 0.269733149 0.097783436 272.606358 111610.8177 0.015403813 0.017614927 4.76E-08 7.322500381 -0.099373753 ARGQGSS(ph)PVAMQK ddPTM_HeLa_SAHA_4h_R1 1 ARGQGSSPVAMQK 13 1 P18206;P18206-2 P18206 VCL Vinculin 1 0 ARGQGS(0.05)S(0.95)PVAMQK 98.408 0.0017617 0 2263.1 2415.4 2317.2 1482.3 2623 2629.1 2917.7 1899.5 2188.5 2486.6 TRUE FALSE FALSE 2501.143241 2493.660545 2632.975949 1510.99206 2422.026307 2405.085889 2589.392717 1850.91354 2173.27005 2593.809495 0.964274071 0.961389242 1.015099973 0.582537793 0.933771856 0.927240761 0.998297185 0.713588852 0.837868029 1 11.34085681 ARGS(ph)PHFQHAEVR ddPTM_HeLa_SAHA_4h_R1 1 ARGSPHFQHAEVR 13 1 Q9Y2J4;Q9Y2J4-2;Q9Y2J4-4;Q9Y2J4-3 Q9Y2J4 AMOTL2 Angiomotin-like protein 2 1 0 ARGS(1)PHFQHAEVR 60.628 0.018058 1482700 254.92 243.84 396.7 349.22 325.28 248.88 371.56 173.3 331.29 394.11 TRUE FALSE FALSE 281.7336552 251.740576 450.7602101 355.9796581 300.3571167 227.6740238 329.7510909 168.8672369 328.9845259 411.1020108 0.68531325 0.612355497 1.096468025 0.865915633 0.730614565 0.553813939 0.802115004 0.410767237 0.800250345 1 8.683352618 -13.52287874 0.041842905 2.210560423 6.64E-09 0.231156415 0.170467557 610.8979753 2.037868727 95.97042558 29.63519853 3.00E-14 13.52287874 -2.210560416 ARGS(ph)PPTSSNIVQGQIK ddPTM_HeLa_SAHA_4h_R1 2 ARGSPPTSSNIVQGQIK 17 1 A2RRE0;Q9Y4E6-2;Q9Y4E6 A2RRE0 WDR7 WD repeat-containing protein 7 1 0 ARGS(0.984)PPT(0.012)S(0.004)SNIVQGQIK;ARGS(0.767)PPT(0.147)S(0.04)S(0.046)NIVQGQIK ; 123.61 0.00026714 12043200 4039.3 3862.1 3532 4470 4659.2 4359.6 4569.2 4241.6 3506.5 4269.9 TRUE FALSE FALSE 4464.172107 3987.234574 4013.322566 4556.523314 4302.213103 3988.137554 4055.061591 4133.106014 3482.097981 4453.996285 1.00228465 0.895203839 0.901061049 1.02301911 0.965922023 0.895406574 0.91043219 0.927954526 0.781791847 1 12.12088464 -7.283269504 23.64582919 1.00107887 0.932801497 0 0.078529551 288.8217145 312843.2545 0.006566137 0.007512919 5.21E-08 7.283269504 -0.068277373 ARHDS(ph)PDLAPNVTYSLPR ddPTM_HeLa_SAHA_4h_R1 2 ARHDSPDLAPNVTYSLPR 18 1 Q9BRD0;H7C462 Q9BRD0 BUD13 BUD13 homolog 1 0 ARHDS(1)PDLAPNVTYSLPR;ARHDS(1)PDLAPNVTYSLPR ; 75.225 0.005523 43454600 1248.45 1250.77 1436.9 1276.78 1518.11 942.93 1444.41 1653.64 1640.3 1207.81 TRUE FALSE FALSE 1379.767699 1291.295769 1632.713249 1301.493923 1401.79274 862.5870592 1281.881185 1611.342283 1628.885019 1259.8846 1.095154032 1.024931782 1.295922856 1.033026297 1.112635824 0.68465561 1.017459206 1.278960218 1.2928843 1 10.29907588 -4.258032972 23.5174607 1.039497325 1.278960421 0.124529642 0.163284511 179.8835622 1241753.13 0.019284657 0.184965808 5.52E-05 4.258032972 0.239463095 ARLCS(ph)SSSSDTSSR ddPTM_HeLa_SAHA_4h_R1 1 ARLCSSSSSDTSSR 14 1 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 ARLCS(0.38)S(0.118)S(0.118)S(0.38)S(0.001)DT(0.003)SSR 108.36 0.011468 1755800 537.14 293.25 481.67 550.62 555.38 532.55 648.79 737.24 105.33 248.97 TRUE FALSE FALSE 593.6388497 302.7514924 547.3094792 561.2780463 512.8269044 487.173744 575.7864417 718.3824683 104.597 259.7043151 2.285825899 1.165754571 2.107433136 2.161219562 1.974656848 1.875878511 2.217084616 2.766155302 0.402754186 1 8.020726175 -10.38218811 0.384270114 3.45E-16 2.138320277 0.628970206 0.413085244 3.368466371 0.34222281 3.337639127 0.122321712 4.15E-11 10.38218811 2.138320277 ARLGEAS(ph)DSELADADK ddPTM_HeLa_SAHA_4h_R1 1 ARLGEASDSELADADK 16 1 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 ARLGEAS(0.943)DS(0.057)ELADADK 163.56 1.61E-12 0 602.37 573.97 389.4 486.94 688.42 544.33 620.31 668.86 651.74 617.04 TRUE FALSE FALSE 665.7300404 592.5670046 442.4654041 496.3654278 635.6734083 497.9500217 550.5110862 651.7515297 647.2044883 643.6436141 1.034314682 0.92064458 0.687438505 0.771180537 0.987617051 0.773642449 0.8553042 1.012596902 1.005532369 1 9.330118278 -7.003489752 24.98103125 1.01416603 0.844131926 0.393273263 0.091988007 101.6325765 727532.2911 0.014693176 0.019093598 9.92E-08 7.003489752 -0.170034103 ARLGEASDSELADADKAS(ph)VASEVSTTSSTSKPPTGR ddPTM_HeLa_SAHA_4h_R1 1 ARLGEASDSELADADKASVASEVSTTSSTSKPPTGR 36 3 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 ARLGEAS(0.012)DS(0.076)ELADADKAS(0.904)VAS(0.007)EVS(0.001)T(0.001)TSSTSKPPTGR 62.039 0.0002083 7442500 316.3 192.94 181.23 470.2 339.85 432.77 146.45 400.37 213.83 213.96 TRUE FALSE FALSE 349.5698852 199.1913826 205.9270806 479.3014009 313.8107664 395.8955613 129.9710606 390.1291151 212.3419396 223.1848627 1.566279545 0.892495038 0.922674944 2.147553356 1.406057573 1.773845934 0.582347113 1.74800885 0.951417301 1 7.802095371 ARLS(ph)YSDK ddPTM_HeLa_SAHA_4h_R1 1 ARLSYSDK 8 1 Q05655;Q05655-2 Q05655 PRKCD Protein kinase C delta type;Protein kinase C delta type regulatory subunit;Protein kinase C delta type catalytic subunit 1 0 ARLS(0.993)YS(0.007)DK 115.91 0.0198 9002700 1228.1 1406.7 1149.1 1611.7 1634.1 1893.2 1595.3 1428.6 1637.1 1593.7 TRUE FALSE FALSE 1357.277193 1452.278003 1305.693364 1642.896784 1508.895611 1731.888709 1415.792645 1392.058481 1625.707288 1662.412206 0.816450449 0.873596812 0.785420944 0.98826078 0.907654314 1.041792585 0.851649573 0.83737263 0.977920688 1 10.69906244 -9.566792683 1.368210478 0.999492641 0.882002044 0.227655066 0.073763968 0.496590499 1.677710004 0.052986468 0.012679388 2.71E-10 9.566792683 -0.117490597 ARPATDS(ph)FDDYPPR ddPTM_HeLa_SAHA_4h_R1 2 ARPATDSFDDYPPR 14 1 E7EX17;P23588-2;P23588;F8VP89;F8W0K0;F8VSC7 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 ARPAT(0.001)DS(0.999)FDDYPPR;ARPAT(0.004)DS(0.996)FDDYPPR ; 121.03 0.00052655 11725900 2551.03 2740.42 2807.67 2557.21 3070.88 3047.05 3211.9 3742.8 3691.5 3068.02 TRUE FALSE FALSE 2819.35904 2829.211406 3190.284646 2606.708497 2835.589838 2787.424198 2850.488559 3647.064596 3665.810551 3200.297357 0.880967837 0.884046415 0.996871319 0.814520717 0.88603949 0.870989126 0.890694908 1.13960179 1.145459357 1 11.64399024 -9.425518032 1.139920446 1.00027511 0.911543616 0.203950572 0.097803474 0.809401357 1.871935187 0.056945764 0.014146219 3.75E-10 9.425518032 -0.088731495 ARPEDVISEGR ddPTM_HeLa_SAHA_4h_R1 1 ARPEDVISEGR 11 1 P25325-2;P25325 P25325-2 MPST 3-mercaptopyruvate sulfurtransferase 0 0 122.33 0.0030195 2785100 581.15 664.4 607.28 690.54 865.02 1147.9 964.96 734.74 733.34 725.44 FALSE FALSE TRUE 642.2780234 685.9269959 690.0369558 703.9064002 798.7423545 1050.092462 856.3801612 715.9464147 728.2366272 756.7172686 0.84876882 0.90645083 0.911882131 0.930210568 1.055536047 1.387694593 1.131704266 0.946121417 0.962362903 1 9.563610558 -5.601946815 4.240473698 0.92421417 1.162478521 0.482575536 0.10636796 0.138041897 4.734322434 0.016292536 0.033860978 2.50E-06 5.601946815 0.238264351 ARPFPDGLAEDIDKGEVSAR ddPTM_HeLa_SAHA_4h_R1 3 ARPFPDGLAEDIDKGEVSAR 20 2 P13639 P13639 EEF2 Elongation factor 2 0 0 ;; ;; 122.46 8.38E-05 33034600 3298.67 3293.39 3641.7 3289.84 3728.78 3982.72 4329.7 3533.12 3576.59 3654.86 FALSE FALSE TRUE 3645.639245 3400.097997 4137.971911 3353.51961 3443.081682 3643.36985 3842.510761 3442.747906 3551.700219 3812.438901 0.95624857 0.891843275 1.085387076 0.879625798 0.903117865 0.955653309 1.007887827 0.903030316 0.93160843 1 11.8964985 ARPS(ph)PGHCLPEDEDPEER ddPTM_HeLa_SAHA_4h_R1 2 ARPSPGHCLPEDEDPEER 18 1 H3BPY8;H3BPM3;H3BRE8;Q9BWH6-2;Q9BWH6 H3BPY8 RPAP1 RNA polymerase II-associated protein 1 1 0 ARPS(1)PGHCLPEDEDPEER;ARPS(1)PGHCLPEDEDPEER ; 77.505 0.0045422 10493200 1153.45 1334.37 1344.39 1606.13 1686.73 1564.92 1892.8 1607.21 1632.25 1321.49 TRUE FALSE FALSE 1274.775163 1377.604464 1527.596468 1637.218969 1557.493112 1431.580012 1679.817162 1566.099895 1620.891039 1378.465901 0.924778163 0.999375075 1.108185895 1.187710895 1.12987424 1.03853132 1.218613504 1.13611798 1.175865894 1 10.42884786 -6.767800833 3.232613653 0.964415932 1.140569566 0.204072026 0.081636759 0.09269391 2.02083421 0.008186525 0.011386546 1.71E-07 6.767800833 0.176153634 ARPSAWEPAAGNS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 1 ARPSAWEPAAGNSPAR 16 1 Q8IY33-4;Q8IY33-2;Q8IY33;Q8IY33-5 Q8IY33-4 MICALL2 MICAL-like protein 2 1 0 ARPSAWEPAAGNS(1)PAR 133.96 3.21E-05 0 193.48 539.1 355.18 384.62 343.08 309.77 416.04 260.66 238.8 337.41 TRUE FALSE FALSE 213.8311141 556.5671937 403.5820807 392.0648763 316.7932845 283.3758533 369.2260842 253.9926946 237.1381714 351.9573963 0.607548289 1.581348196 1.146678788 1.113955497 0.900089863 0.805142487 1.049064711 0.7216575 0.673769535 1 8.459256994 ARQPLSEASNQQPLS(ph)GGEEK ddPTM_HeLa_SAHA_4h_R1 5 ARQPLSEASNQQPLSGGEEK 20 1 Q9NQW6;Q9NQW6-2;C9JJT6 Q9NQW6 ANLN Actin-binding protein anillin 1 0 ARQPLS(0.004)EAS(0.013)NQQPLS(0.983)GGEEK;ARQPLSEASNQQPLS(1)GGEEK;ARQPLSEAS(0.001)NQQPLS(0.999)GGEEK;ARQPLSEASNQQPLS(1)GGEEK;ARQPLSEASNQQPLS(1)GGEEK ;;;; 131.97 2.18E-05 64663000 13644.8 11550.27 11499.9 11648.28 13014.5 14629.6 13377.9 12995.8 11271.49 11423.9 TRUE FALSE FALSE 15080.02267 11924.50633 13067.04648 11873.7493 12017.33182 13383.07578 11872.58348 12663.38625 11193.05078 11916.44024 1.265480493 1.000676888 1.096556205 0.996417476 1.008466588 1.12307665 0.996319643 1.062681976 0.939294837 1 13.54066571 ARQYT(ph)SPEEIDAQLQAEK ddPTM_HeLa_SAHA_4h_R1 1 ARQYTSPEEIDAQLQAEK 18 1 Q13442;F8WBW6 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 1 0 ARQY(0.027)T(0.743)S(0.231)PEEIDAQLQAEK 96.723 0.0026041 9437900 1617.1 1415 1918 2027.2 2238.2 2378.5 2459.1 2874.1 1393.3 1386.5 TRUE FALSE FALSE 1787.193998 1460.846928 2179.375051 2066.439387 2066.7096 2175.838419 2182.395596 2800.584684 1383.603912 1446.2788 1.235718865 1.010072835 1.506884462 1.428797398 1.428984231 1.504439129 1.508972956 1.936407201 0.956664726 1 10.49812997 -1 0.17102237 0.955965495 4.433374404 0.809227338 0.126276574 18.29844677 0.192882934 0.178519578 16.39541773 0.1 1 3.477408909 ARS(ph)KT(ph)FINLREVSDR ddPTM_HeLa_SAHA_4h_R1 1 ARSKTFINLREVSDR 15 3 E7ESS6;O14815-2;O14815 E7ESS6 CAPN9 Calpain-9 2 0 ARS(1)KT(1)FINLREVSDR 81.017 0.014389 1391900 342.22 596.23 533.78 371.01 666.83 513.36 575.58 548.14 561.39 559.01 TRUE FALSE FALSE 378.2162698 615.5482432 606.5207586 378.191435 615.7376295 469.6188399 510.8142236 534.1193725 557.4832413 583.1116568 0.648617234 1.055626716 1.040145145 0.648574644 1.055951501 0.805366921 0.876014426 0.915981298 0.956048871 1 9.187628353 -7.241625942 24.92911238 0.834069228 0.908424385 0.003118754 0.147254167 2298.659226 2892157.291 0.028107238 0.034398463 5.73E-08 7.241625942 0.074355158 ARS(ph)MDSSDLSDGAVTLQEYLELK ddPTM_HeLa_SAHA_4h_R1 1 ARSMDSSDLSDGAVTLQEYLELK 23 1 J3QRU8;A0A0C4DGN6;Q9Y2X7;Q9Y2X7-3;J3QLH1 J3QRU8 GIT1 ARF GTPase-activating protein GIT1 1 0 ARS(0.349)MDS(0.349)S(0.263)DLS(0.039)DGAVTLQEYLELK 72.145 0.00075476 0 275.22 154.37 367.08 229.76 519.86 685.11 453.16 219.55 239.68 320.25 TRUE FALSE FALSE 304.1689024 159.3716893 417.1037507 234.207337 480.0284391 626.7347737 402.1692441 213.9342289 238.0120474 334.0575448 0.910528462 0.477078551 1.248598504 0.70109878 1.436963322 1.876128181 1.203892115 0.640411307 0.712488166 1 8.383952833 -5.751448122 24.99325237 0.924906597 1.325157545 0.264782234 0.34728027 227.5897136 569314.3404 0.048399206 0.095889303 1.77E-06 5.751448122 0.400250948 ARS(ph)PDLGPQEQMNPK ddPTM_HeLa_SAHA_4h_R1 2 ARSPDLGPQEQMNPK 15 1 H3BUW4;H3BMU4;A0A0C4DGM2;C9K0J8;Q8IWY8-4;Q8IWY8-3;Q8IWY8-2;Q8IWY8 H3BUW4 ZSCAN29 Zinc finger and SCAN domain-containing protein 29 1 0 ARS(1)PDLGPQEQMNPK;ARS(1)PDLGPQEQMNPK ; 114.56 0.0061873 10865700 2644.68 3067.1 2663.48 3237.9 3386.7 3534.5 3128.9 3401.5 3569.2 3289.9 TRUE FALSE FALSE 2922.859577 3166.476052 3026.445184 3300.574237 3127.211778 3233.340715 2776.827937 3314.494555 3544.361647 3431.743689 0.851712669 0.922701792 0.88189721 0.961777608 0.911260298 0.942185958 0.809159479 0.965833948 1.032816541 1 11.74472609 -9.518617205 1.268805695 1.000072569 0.899365626 0.4427109 0.047987011 0.362690359 1.044089341 0.031505358 0.007550074 3.03E-10 9.518617205 -0.100706942 ARS(ph)PSVAAMASPQLCR ddPTM_HeLa_SAHA_4h_R1 4 ARSPSVAAMASPQLCR 16 1 P25325-2 P25325-2 MPST 3-mercaptopyruvate sulfurtransferase 1 0 ARS(0.997)PS(0.003)VAAMASPQLCR;ARS(0.986)PS(0.014)VAAMASPQLCR;ARS(0.999)PS(0.001)VAAMASPQLCR;ARS(0.995)PS(0.005)VAAMASPQLCR ;;; 104.94 0.0015844 114924900 2884.63 3138.08 3034.11 2453.91 3053.21 3293.42 2964.82 2527.14 2316.35 2433.47 TRUE FALSE FALSE 3188.048619 3239.755851 3447.58271 2501.408976 2819.273709 3012.802088 2631.210651 2462.499418 2300.230332 2538.388801 1.255933928 1.276304028 1.358177561 0.985431773 1.110654801 1.186895438 1.036567231 0.970103326 0.906177309 1 11.30969735 -4.589846803 4.309508957 1.144311542 0.982693693 0.13683616 0.134815351 0.279071559 9.927031287 0.018936535 0.082688952 2.57E-05 4.589846803 -0.161617849 ARSDEGQLS(ph)PATR ddPTM_HeLa_SAHA_4h_R1 3 ARSDEGQLSPATR 13 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;E9PMV1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 ARS(0.001)DEGQLS(0.998)PAT(0.001)R;ARSDEGQLS(0.974)PAT(0.026)R;ARSDEGQLS(0.964)PAT(0.036)R ;; 146.84 1.10E-06 85851000 6031.25 4720.6 5239.42 5804.83 5975.15 6489.87 5585.39 6777.32 5551.41 5784.47 TRUE FALSE FALSE 6665.644547 4873.550537 5953.420872 5917.190879 5517.335298 5936.896565 4956.907217 6603.965968 5512.777286 6033.86681 1.104705284 0.807699389 0.986667598 0.980663158 0.914394612 0.983929005 0.821514192 1.094483219 0.913639207 1 12.55886714 -7.292482548 24.99700538 1.04944416 0.940585422 0.035712208 0.092605145 624.7140302 503039.3267 0.013555931 0.015502623 5.10E-08 7.292482548 -0.108858738 ARSDEGQLSPAT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 ARSDEGQLSPATR 13 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;E9PMV1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 ARS(0.001)DEGQLS(0.206)PAT(0.794)R 86.411 0.01475 67139000 3186.2 2797.1 2457.6 2860.3 2981.5 3163.7 3225.5 3254 3052.5 2517.2 TRUE FALSE FALSE 3521.339135 2887.727875 2792.508929 2915.665243 2753.058114 2894.134962 2862.558251 3170.767392 3031.257404 2625.728811 1.341090184 1.099781464 1.063517648 1.110421316 1.048492938 1.102221581 1.090195697 1.207576113 1.154444203 1 11.3585022 ARTDEVPAGGSRS(ph)EAEDEDDEDYVPYVPLR ddPTM_HeLa_SAHA_4h_R1 2 ARTDEVPAGGSRSEAEDEDDEDYVPYVPLR 30 2 D6RD33;D6RGI7;A0A499FJW5;Q9UJV9 D6RD33 DDX41 Probable ATP-dependent RNA helicase DDX41 1 0 ARTDEVPAGGS(0.184)RS(0.816)EAEDEDDEDYVPYVPLR;ARTDEVPAGGS(0.205)RS(0.783)EAEDEDDEDY(0.012)VPYVPLR ; 93.179 2.60E-08 23798000 1416.21 1194.97 948.2 1407.29 1598.44 1497.58 1484.24 1733.14 1226.16 1328.96 TRUE FALSE FALSE 1565.173466 1233.687812 1077.415758 1434.530133 1475.967873 1369.977759 1317.229409 1688.808788 1217.627053 1386.257969 1.129063638 0.889941006 0.777211588 1.03482192 1.064713715 0.988256002 0.950205112 1.218250012 0.878355313 1 10.43698004 -2.973524304 13.28317372 1.028101459 1.010647239 0 0.126743282 0 0 0.01627435 0 0.001062859 2.973524304 -0.01745422 ARTSS(ph)FAEPGGGGGGGGGGPGGSASGPGGTGGGK ddPTM_HeLa_SAHA_4h_R1 2 ARTSSFAEPGGGGGGGGGGPGGSASGPGGTGGGK 34 1 P49840 P49840 GSK3A Glycogen synthase kinase-3 alpha 1 0 ART(0.205)S(0.205)S(0.563)FAEPGGGGGGGGGGPGGS(0.017)AS(0.01)GPGGTGGGK;ART(0.305)S(0.305)S(0.381)FAEPGGGGGGGGGGPGGS(0.005)AS(0.005)GPGGTGGGK ; 57.443 0.0016303 15101000 1968.93 2573.7 1938.48 2694.6 2697.4 2428.9 2515.55 3212 2024.41 2308.91 TRUE FALSE FALSE 2176.031091 2657.089569 2202.645959 2746.757879 2490.725795 2221.944055 2232.493693 3129.841691 2010.321966 2408.45841 0.903495399 1.10323249 0.914545981 1.140463073 1.034157694 0.922558615 0.92693886 1.299520755 0.834692415 1 11.2338943 -7.267946144 24.95159498 0.954428384 1.037035255 0.185811626 0.119676102 868.0234188 3328613.118 0.018616364 0.021538555 5.40E-08 7.267946144 0.082606871 ARTSS(ph)TDEVLSLEEK ddPTM_HeLa_SAHA_4h_R1 1 ARTSSTDEVLSLEEK 15 1 K7ENH8;A0A0A0MRB7;P15923-2;K7EMM4 K7ENH8 TCF3 Transcription factor E2-alpha 1 0 ART(0.001)S(0.014)S(0.931)T(0.045)DEVLS(0.01)LEEK 135.69 0.00090182 6921000 2385 2200.5 2224.6 2700.8 2527.3 3321.8 3378.8 3350.9 2063.9 1897.3 TRUE FALSE FALSE 2635.865243 2271.797644 2527.756903 2753.077889 2333.65882 3038.763952 2998.608531 3265.18883 2049.537152 1979.101888 1.331849188 1.147893222 1.277224239 1.391074358 1.179150419 1.535425725 1.515136007 1.649833619 1.035589509 1 10.95063017 -1 0.091970986 0.791754835 3.01527909 0.773387139 0.098848251 57.11450121 0.379539927 1.198472924 16.09427472 0.1 1 2.223524255 ARTT(ph)AVLVFDERT(ph)ADR ddPTM_HeLa_SAHA_4h_R1 1 ARTTAVLVFDERTADR 16 2 Q7Z7M1 Q7Z7M1 GPR144 Probable G-protein coupled receptor 144 2 0 ART(0.446)T(0.554)AVLVFDERT(1)ADR 82.59 0.01038 206990000 545.62 408.31 422.48 346.61 416.34 505.24 280.07 443.46 468.38 434.86 TRUE FALSE FALSE 603.010815 421.5395119 480.0533742 353.3191378 384.4401191 462.1907096 248.5557865 432.1169353 465.1205054 453.6089428 1.329362713 0.92930159 1.058297862 0.778906905 0.847514418 1.018918866 0.547951689 0.952619965 1.025377724 1 8.825305273 -6.616256418 1.622884886 1.150205686 0.825189737 0.337493406 0.156653575 0.264842563 1.410774495 0.029089155 0.045212842 2.42E-07 6.616256418 -0.325015949 ARVDHGAEIITQS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 3 ARVDHGAEIITQSPGR 16 1 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 ARVDHGAEIITQS(1)PGR;ARVDHGAEIIT(0.087)QS(0.913)PGR;ARVDHGAEIITQS(1)PGR ;; 171.39 4.22E-09 193702500 3474.72 3373.61 3346.78 3493.87 3629.27 4238.82 4076.96 3775.44 3399.07 3635.1 TRUE FALSE FALSE 3840.206992 3482.917178 3802.861749 3561.498906 3351.196117 3877.648689 3618.209731 3678.869712 3375.415595 3791.826951 1.012759032 0.918532734 1.002910153 0.93925671 0.883794582 1.022633348 0.954212779 0.970210339 0.890181867 1 11.88867741 -7.288166332 24.71845868 1.006025101 0.956825363 0 0.052201785 588.8744306 544619.8537 0.006038258 0.006906319 5.15E-08 7.288166332 -0.049199738 ARVGGS(ph)DEEASGIPSR ddPTM_HeLa_SAHA_4h_R1 2 ARVGGSDEEASGIPSR 16 1 H7C446;A8MV53;A0A0A6YYI3;A0A0B4J1V8;Q9NQ55-2;Q9NQ55;Q9NQ55-3 H7C446 PPAN;PPAN-P2RY11 Suppressor of SWI4 1 homolog 1 0 ARVGGS(0.928)DEEAS(0.062)GIPS(0.01)R;ARVGGS(0.993)DEEAS(0.007)GIPSR ; 120.08 0.003178 13077800 2053.3 1081.74 1844.62 2028.93 1951.14 2066.98 2127.17 2269.7 1544.06 1641.73 TRUE FALSE FALSE 2269.275515 1116.789086 2095.995207 2068.202874 1801.644075 1890.861675 1887.815233 2211.64436 1533.314761 1712.513015 1.325114318 0.652134656 1.223929505 1.207700529 1.052046939 1.104144412 1.102365481 1.291461345 0.895359479 1 10.74189924 -4.257865957 22.96849865 1.118649636 1.291461559 0.051302642 0.186581224 254.7919606 1637447.193 0.025253625 0.244809474 5.52E-05 4.257865957 0.172811923 ARVS(ph)SGYVPPPVATPFSSK ddPTM_HeLa_SAHA_4h_R1 1 ARVSSGYVPPPVATPFSSK 19 1 Q15942;Q15942-2;H7C3R3 Q15942 ZYX Zyxin 1 0 ARVS(0.5)S(0.5)GYVPPPVATPFSSK 106.7 0.0045538 2804300 455.39 492.07 431.54 487.81 391.51 651.61 488.79 462.8 422.47 503.08 TRUE FALSE FALSE 503.2900096 508.0133909 490.3480238 497.2522679 361.5125884 596.0891621 433.7900628 450.9622461 419.5299969 524.7702408 0.95906736 0.968068216 0.934405166 0.947561865 0.688896893 1.135905041 0.826628549 0.859351791 0.799454627 1 9.035542098 -6.47123725 1.842435445 0.979770922 0.889900664 0 0.119148569 0.509235369 3.431175949 0.015993433 0.025965672 3.38E-07 6.47123725 -0.089870259 ARWLAEELNLFGQS(ph)IDYR ddPTM_HeLa_SAHA_4h_R1 1 ARWLAEELNLFGQSIDYR 18 1 C9JR62;B8ZZB3;Q6ZP82;Q6ZP82-2 C9JR62 CCDC141 Coiled-coil domain-containing protein 141 1 0 ARWLAEELNLFGQS(0.821)IDY(0.179)R 53.718 0.022963 4921000 501.65 1042.2 733.71 795.26 896.77 1159.9 971.99 740.49 1626.1 1032.2 TRUE FALSE FALSE 554.4158487 1075.967964 833.6961778 810.6534073 828.0596763 1061.069995 862.6191271 721.549338 1614.783838 1076.703193 0.514919852 0.999317147 0.774304546 0.752903318 0.769069583 0.985480494 0.801167055 0.670146929 1.49974835 1 10.07240489 -9.747613243 1.692531803 1.000073311 0.746031985 0.309262571 0.211386963 0.413869451 2.144171272 0.114727146 0.024756324 1.79E-10 9.747613243 -0.254041325 AS(ph)ASPSTSSTSSRPK ddPTM_HeLa_SAHA_4h_R1 1 ASASPSTSSTSSRPK 15 1 J3KP75;F6TH74;O75167-5;O75167-2;O75167;O75167-4;F5H858 J3KP75 PHACTR2 Phosphatase and actin regulator;Phosphatase and actin regulator 2 1 0 AS(0.488)AS(0.488)PS(0.017)T(0.006)SSTSSRPK 87.088 0.0060119 29867000 1942.5 1898.7 1868.2 2121.3 1948.6 1968.1 1951.6 2052.4 1791.1 2216.2 TRUE FALSE FALSE 2146.821063 1960.219126 2122.788567 2162.360829 1799.298689 1800.406808 1732.000832 1999.90258 1778.635589 2311.751228 0.928655747 0.847936881 0.91825995 0.935377822 0.778327126 0.778806468 0.749215924 0.865102852 0.769388837 1 11.17477044 -6.558478946 0.329935461 1.002989854 0.753971663 0 0.085627341 0.738879218 0.18556692 0.031633255 0.070043892 2.76E-07 6.558478946 -0.249018191 AS(ph)DKDITVSK ddPTM_HeLa_SAHA_4h_R1 2 ASDKDITVSK 10 1 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 AS(1)DKDITVSK;AS(0.928)DKDIT(0.072)VSK ; 134.99 0.00023545 5418700 1205.88 1087.39 961.96 1280.58 1422.56 1424.1 1183.16 1113.08 1715.25 1134.94 TRUE FALSE FALSE 1332.719991 1122.622149 1093.050899 1305.367478 1313.56376 1302.758668 1050.027723 1084.609025 1703.313436 1183.872818 1.125729024 0.948262459 0.923284058 1.102624757 1.109548036 1.100421134 0.886943012 0.916153331 1.438763869 1 10.20929839 -4.753423956 24.99103474 1.051772555 0.901548101 0.188465129 0.139231154 138.0478764 430404.5086 0.010562829 0.038132559 1.76E-05 4.753423956 -0.150224455 AS(ph)DLEDEESAAR ddPTM_HeLa_SAHA_4h_R1 2 ASDLEDEESAAR 12 0 E7ERS3;Q86VM9;H3BPD0 E7ERS3 ZC3H18 Zinc finger CCCH domain-containing protein 18 1 0 AS(1)DLEDEESAAR;AS(1)DLEDEESAAR ; 225.79 1.95E-22 98946000 1366.91 2134.9 1645.96 2087.74 1986.45 2763.38 2187.7 1754.44 3852 1927.84 TRUE FALSE FALSE 1510.687865 2204.072161 1870.262857 2128.151227 1834.24863 2527.924478 1941.534238 1709.563965 3825.193618 2010.958617 0.751227724 1.096030591 0.930035477 1.058276987 0.912126493 1.257074341 0.965476973 0.850123892 1.90217421 1 10.97366768 -7.247937028 24.87416541 0.882524199 1.012708631 0 0.344249235 981.3470262 1807848.237 0.022504249 0.027479592 5.65E-08 7.247937028 0.130184432 AS(ph)DPGLPAEEPK ddPTM_HeLa_SAHA_4h_R1 4 ASDPGLPAEEPK 12 0 P27708;F8VPD4 P27708 CAD CAD protein;Glutamine-dependent carbamoyl-phosphate synthase;Aspartate carbamoyltransferase;Dihydroorotase 1 0 AS(1)DPGLPAEEPK;AS(1)DPGLPAEEPK;AS(1)DPGLPAEEPK;AS(1)DPGLPAEEPK ;;; 190.34 6.07E-07 111822800 9015 15987.6 9254.1 10341.4 13745.3 17834.6 13713.2 11089.6 15727.7 12720.8 TRUE FALSE FALSE 9963.239062 16505.60873 10515.20055 10541.57275 12692.13808 16314.99175 12170.15464 10805.94409 15618.24966 13269.25594 0.750851374 1.243898588 0.792448394 0.79443586 0.956507142 1.229533277 0.917169335 0.814359459 1.177025277 1 13.69579986 -5.529161757 24.76085947 0.895899261 0.99886633 0 0.186261255 313.4891379 1235434.724 0.02502727 0.050159739 2.96E-06 5.529161757 0.102967069 AS(ph)DPGLPAEEPKEK ddPTM_HeLa_SAHA_4h_R1 1 ASDPGLPAEEPKEK 14 1 P27708;F8VPD4 P27708 CAD CAD protein;Glutamine-dependent carbamoyl-phosphate synthase;Aspartate carbamoyltransferase;Dihydroorotase 1 0 AS(1)DPGLPAEEPKEK 94.882 0.0040934 42079000 3338 3903.2 3488.5 3483.3 4693.6 5216.3 4970.8 4922.4 3003.5 3710.8 TRUE FALSE FALSE 3689.106155 4029.666241 3963.894613 3550.724308 4333.977382 4771.841894 4411.472502 4796.492136 2982.598399 3870.790748 0.953062667 1.041044712 1.024052931 0.917312389 1.119662018 1.23278219 1.139682506 1.23915046 0.770539818 1 11.9184126 -5.578142696 4.74548525 0.982949053 1.195152204 0.671599771 0.079000313 0.053002683 2.496904986 0.00598837 0.0123933 2.64E-06 5.578142696 0.212203151 AS(ph)FDER ddPTM_HeLa_SAHA_4h_R1 1 ASFDER 6 0 C9J5X1;P08069 C9J5X1 IGF1R Tyrosine-protein kinase receptor;Insulin-like growth factor 1 receptor;Insulin-like growth factor 1 receptor alpha chain;Insulin-like growth factor 1 receptor beta chain 1 0 AS(1)FDER 95.815 0.022045 2804600 1872.6 6381.5 3236.7 1859.9 4626.8 3240.1 4878.4 2646.4 2688.8 3485.3 TRUE FALSE FALSE 2069.56866 6588.264787 3677.78062 1895.901054 4272.295584 2964.025252 4329.469593 2578.70892 2670.088422 3635.56834 0.569255881 1.81216915 1.011610916 0.521486842 1.175138296 0.815285252 1.190864588 0.709300082 0.734434942 1 11.8279652 AS(ph)GEMASAQYITAALR ddPTM_HeLa_SAHA_4h_R1 3 ASGEMASAQYITAALR 16 0 A6NJA2;P54578-2;P54578-3;P54578 A6NJA2 USP14 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 14 1 0 AS(0.995)GEMAS(0.005)AQYITAALR;AS(0.999)GEMAS(0.001)AQYITAALR;AS(0.999)GEMAS(0.001)AQYITAALR ;; 227.41 2.02E-27 44297000 1291.93 2907.96 1959.54 2357.31 2448.99 2720.29 2883.28 2057.8 3724.13 2142.38 TRUE FALSE FALSE 1427.821125 3002.179812 2226.575906 2402.939144 2261.348915 2488.505988 2558.845746 2005.164456 3698.213476 2234.748486 0.638918041 1.343408366 0.996342953 1.07526156 1.011903097 1.11355081 1.14502628 0.897266278 1.654867874 1 11.12589675 -7.271766603 24.99232545 0.829489081 1.080398571 0 0.294348821 588.5567681 1424330.071 0.028035794 0.032249565 5.35E-08 7.271766603 0.250909491 AS(ph)GQAFELILS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 ASGQAFELILSPR 13 0 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 2 0 AS(1)GQAFELILS(1)PR 117.27 0.014294 10968000 391.38 884.21 707.89 713.74 976.87 1123.4 962.28 890.26 1061.6 694.99 TRUE FALSE FALSE 432.5471441 912.8589842 804.3575627 727.5554698 902.0224316 1027.68 854.0017218 867.4884383 1054.212239 724.9544201 0.596654261 1.259195004 1.109528462 1.00358788 1.244247096 1.417578777 1.178007469 1.196611006 1.45417727 1 9.501746482 -7.246985454 24.91246611 0.809531178 1.199200659 0 0.244385437 455.5754046 785220.3063 0.029952636 0.036595366 5.66E-08 7.246985454 0.389669481 AS(ph)GQAFELILSPR ddPTM_HeLa_SAHA_4h_R1 2 ASGQAFELILSPR 13 0 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 1 0 AS(0.999)GQAFELILS(0.001)PR;AS(0.99)GQAFELILS(0.01)PR ; 121.32 0.0011014 24501000 1114.63 1183 1120.85 1329.41 1333.67 1668.68 1628.97 1779.98 1632.55 1234.08 TRUE FALSE FALSE 1231.871898 1221.329976 1273.593601 1355.142653 1231.484493 1526.499076 1445.674008 1734.450689 1621.188952 1287.287228 0.956951852 0.948762599 0.989362415 1.052711954 0.956650906 1.18582632 1.123039192 1.347368832 1.25938401 1 10.33011828 -3.586133058 0.615843691 0.97627914 1.966077296 0.425263612 0.101602786 1.691053661 0.244086068 0.007922674 1.434921037 0.000259338 3.586133058 0.989798156 AS(ph)GVAVSDGVIK ddPTM_HeLa_SAHA_4h_R1 1 ASGVAVSDGVIK 12 0 P23528;E9PP50;E9PS23 P23528 CFL1 Cofilin-1 1 0 AS(1)GVAVSDGVIK 116.63 0.0017665 26301000 1145.1 1445.7 1019.4 1205.1 1404.7 1315.7 1260.1 1313.7 1029.4 1089.7 TRUE FALSE FALSE 1265.546872 1492.541629 1158.318523 1228.426453 1297.072189 1203.594958 1118.310232 1280.097456 1022.236322 1136.6823 1.113369032 1.313068417 1.019034539 1.080712221 1.141103534 1.058866632 0.983837112 1.126169957 0.899315773 1 10.15061337 -3.880445739 19.19936074 1.07344035 11.53743871 0.024530283 0.105148027 1448.096132 231763.05 0.012805125 2260.725279 0.00013169 3.880445739 10.46399836 AS(ph)ISEPSDTDPEPR ddPTM_HeLa_SAHA_4h_R1 2 ASISEPSDTDPEPR 14 0 Q8N1F8 Q8N1F8 STK11IP Serine/threonine-protein kinase 11-interacting protein 1 0 AS(0.892)IS(0.081)EPS(0.016)DT(0.011)DPEPR;AS(0.861)IS(0.139)EPSDTDPEPR ; 187.74 1.96E-08 7840700 1039.73 1235.18 1009.05 1009.68 1148.18 1310.67 1124.62 1567.23 1293.97 1218.41 TRUE FALSE FALSE 1149.093572 1275.200642 1146.558079 1029.223816 1060.206696 1198.993542 998.0747978 1527.142526 1284.965157 1270.941618 0.904127739 1.003351078 0.902132768 0.809812034 0.834189928 0.943389945 0.785303419 1.201583538 1.011033976 1 10.31168204 -9.36942396 0.614521667 1.015232041 0.911365083 0.073030873 0.11223471 2.60267853 1.346073258 0.154512919 0.02342796 4.27E-10 9.36942396 -0.103866957 AS(ph)LEDAPVDDLTR ddPTM_HeLa_SAHA_4h_R1 2 ASLEDAPVDDLTR 13 0 C9J6P4;Q7Z2W4;Q7Z2W4-3;Q7Z2W4-2 C9J6P4 ZC3HAV1 Zinc finger CCCH-type antiviral protein 1 1 0 AS(1)LEDAPVDDLTR;AS(1)LEDAPVDDLTR ; 260.5 2.08E-42 94801000 2115.02 3295 1451.44 2812.4 3193.46 3664.3 2758.4 2626.19 4280.2 2379.18 TRUE FALSE FALSE 2337.487508 3401.760162 1649.234684 2866.838069 2948.777785 3352.081025 2448.017572 2559.015862 4250.41374 2481.758093 0.941867587 1.37070578 0.664542886 1.155164186 1.188180989 1.35068806 0.986404589 1.031130258 1.712662387 1 11.27714678 AS(ph)LEDAPVDDLTRK ddPTM_HeLa_SAHA_4h_R1 2 ASLEDAPVDDLTRK 14 1 C9J6P4;Q7Z2W4;Q7Z2W4-3;Q7Z2W4-2 C9J6P4 ZC3HAV1 Zinc finger CCCH-type antiviral protein 1 1 0 AS(0.998)LEDAPVDDLT(0.002)RK;AS(1)LEDAPVDDLTRK ; 73.593 0.012815 5731800 1956.99 2205.07 2097.9 2537.4 2792.67 3576.7 2655.5 2791.9 3261.6 2640.5 TRUE FALSE FALSE 2162.835187 2276.515715 2383.790887 2586.515046 2578.696228 3271.945038 2356.696151 2720.487241 3238.90226 2754.344877 0.785244871 0.826518035 0.865465653 0.939067242 0.93622852 1.187921333 0.855628564 0.987707554 1.175924731 1 11.4274935 -5.776277534 2.658384531 0.888184696 1.000415115 0.001688106 0.130261371 0.373389984 5.395483626 0.016599456 0.034265851 1.67E-06 5.776277534 0.112230419 AS(ph)LSSAPVVLVGDHA ddPTM_HeLa_SAHA_4h_R1 2 ASLSSAPVVLVGDHA 15 0 Q9HBH9 Q9HBH9 MKNK2 MAP kinase-interacting serine/threonine-protein kinase 2 1 0 AS(0.993)LS(0.004)S(0.004)APVVLVGDHA;AS(0.948)LS(0.026)S(0.026)APVVLVGDHA ; 151.99 4.88E-05 4953300 947.93 995.17 1282.82 1762.82 2159.2 2103.16 2147.31 2580.1 1572.99 1484.62 TRUE FALSE FALSE 1047.637627 1027.414161 1457.636029 1796.94193 1993.762562 1923.958936 1905.689027 2514.104778 1562.043435 1548.629234 0.67649351 0.663434564 0.941242744 1.160343542 1.287436992 1.242362532 1.230565061 1.623438796 1.008661983 1 10.59677607 -6.130386537 1.91930999 0.828571575 1.336387366 0.71140022 0.148179182 0.154419381 1.115057413 0.026517821 0.049441487 7.41E-07 6.130386537 0.50781579 AS(ph)MAGASSS(ph)KESS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 ASMAGASSSKESSR 14 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 3 0 AS(0.992)MAGAS(0.023)S(0.218)S(0.762)KES(0.317)S(0.688)R 62.237 0.0073391 0 250.19 286.73 215.32 183.94 339.96 186.28 332.41 363.87 295.14 210.65 TRUE FALSE FALSE 276.5061321 296.0202401 244.6626883 187.5004247 313.9123382 170.407896 295.0063519 354.5627323 293.0860967 219.7321524 1.258378117 1.347186731 1.113458752 0.853313558 1.428613586 0.775525539 1.342572531 1.61361334 1.333833458 1 7.779602178 -4.524310996 24.99583185 1.121823634 1.545853266 0.337568657 0.204945437 28.86430209 503762.6771 0.026150641 0.099420589 2.99E-05 4.524310996 0.424029632 AS(ph)PAPGSGHPEGPGAHLDMNSLDR ddPTM_HeLa_SAHA_4h_R1 3 ASPAPGSGHPEGPGAHLDMNSLDR 24 0 O94826 O94826 TOMM70A Mitochondrial import receptor subunit TOM70 1 0 AS(0.843)PAPGS(0.157)GHPEGPGAHLDMNSLDR;AS(0.751)PAPGS(0.249)GHPEGPGAHLDMNSLDR;AS(0.998)PAPGS(0.002)GHPEGPGAHLDMNSLDR ;; 109.32 8.44E-06 58903000 577.74 1607.66 580.45 742.05 1679.81 969.18 1152.51 1162.2 1075.77 1038.47 TRUE FALSE FALSE 638.509344 1659.749239 659.5507031 756.4134508 1551.103321 886.6004115 1022.826542 1132.472607 1068.283629 1083.243524 0.589442106 1.532203242 0.608866509 0.698285689 1.431906387 0.818468232 0.944225854 1.045445998 0.986189721 1 10.0811419 AS(ph)PCSFSER ddPTM_HeLa_SAHA_4h_R1 2 ASPCSFSER 9 0 A0A1B0GTT1;A0A1B0GVM0;Q9BUH8 A0A1B0GTT1 BEGAIN Brain-enriched guanylate kinase-associated protein 1 0 AS(1)PCSFSER;AS(1)PCSFSER ; 152.04 0.00034254 26714000 2420.04 2632.15 2251.53 1843.61 2628.24 2420.49 2334.67 2008.44 2004.84 2394.11 TRUE FALSE FALSE 2674.590911 2717.433387 2558.356783 1879.295737 2426.864819 2214.250635 2071.966787 1957.067013 1990.888155 2497.331799 1.0709794 1.0881347 1.024436074 0.752521446 0.971783093 0.886646555 0.829672208 0.783663194 0.797206105 1 11.2861718 -6.353298152 7.500653905 1.039177677 0.853642785 0.335738047 0.097133672 0.120703631 8.718473157 0.009508683 0.014547479 4.43E-07 6.353298152 -0.185534892 AS(ph)PEMSDR ddPTM_HeLa_SAHA_4h_R1 2 ASPEMSDR 8 0 X6RM00;G8JLD3;X6RLX0;Q8IUD2-5;Q8IUD2-4;Q8IUD2-2;Q8IUD2-3;Q8IUD2 X6RM00 ERC1 ELKS/Rab6-interacting/CAST family member 1 1 0 AS(0.999)PEMS(0.001)DR;AS(1)PEMSDR ; 95.775 0.0052385 3465600 1733.28 1902.08 1830.15 2250.7 2285.8 2976.1 2439.8 2530.2 2367.1 2465.4 TRUE FALSE FALSE 1915.594343 1963.70864 2079.553311 2294.265553 2110.662498 2722.519537 2165.267283 2465.481148 2350.627158 2571.695459 0.744876045 0.763585219 0.808631249 0.892121789 0.82072801 1.058647721 0.841961001 0.958698721 0.914037916 1 11.32850409 -5.322860519 24.99964575 0.860140497 0.941991055 0.22450089 0.086138132 411.3159932 167413.2578 0.016165386 0.036146911 4.75E-06 5.322860519 0.081850558 AS(ph)PEPPDSAEGALK ddPTM_HeLa_SAHA_4h_R1 2 ASPEPPDSAEGALK 14 0 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 AS(1)PEPPDSAEGALK;AS(1)PEPPDSAEGALK ; 173.25 1.59E-06 18969200 1950.15 2605.4 1882.17 2222.59 2174.39 2899.3 2316.1 1877.55 2603.8 2229.1 TRUE FALSE FALSE 2155.275725 2689.816669 2138.662326 2265.611443 2007.788708 2652.263329 2055.486332 1829.52499 2585.679944 2325.20741 0.926917623 1.156807198 0.919772712 0.974369613 0.863488005 1.140656665 0.884001282 0.786822277 1.112021204 1 11.1831437 -4.527504999 24.99273035 0.979118887 0.811116968 0.320917706 0.09797799 86.17152611 465534.854 0.011436652 0.043123894 2.97E-05 4.527504999 -0.168001919 AS(ph)PEPPGPESSSR ddPTM_HeLa_SAHA_4h_R1 4 ASPEPPGPESSSR 13 0 Q9C0C2;Q9C0C2-2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 AS(1)PEPPGPESSSR;AS(1)PEPPGPESSSR;AS(0.999)PEPPGPESS(0.001)SR;AS(1)PEPPGPESSSR ;;; 164.92 4.39E-05 382311000 3308.57 4126.32 3151.92 3534.88 4206.38 5115.52 4450.28 3757.72 4904.96 4091.87 TRUE FALSE FALSE 3656.580573 4260.015475 3581.447243 3603.302714 3884.088073 4679.648917 3949.522782 3661.602964 4870.825984 4268.290541 0.856685021 0.998061269 0.839082347 0.844202774 0.909986805 1.096375439 0.92531723 0.857861696 1.141165518 1 12.05944267 -4.273060887 6.360087528 0.932523858 0.856571703 0.033513069 0.101018273 0.268235926 57.97675507 0.011583575 0.084147674 5.33E-05 4.273060887 -0.075952154 AS(ph)PEPQRENAS(ph)PAPGTTAEEAMSR ddPTM_HeLa_SAHA_4h_R1 2 ASPEPQRENASPAPGTTAEEAMSR 24 1 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6;P46379-5;A0A0G2JL47;H0Y710 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 2 0 AS(0.999)PEPQRENAS(0.803)PAPGT(0.14)T(0.054)AEEAMS(0.004)R;AS(0.999)PEPQRENAS(0.811)PAPGT(0.135)T(0.054)AEEAMS(0.001)R ; 72.949 0.0057283 30037000 1495.42 2010.87 1792.33 1844.66 1800.85 2344.1 1871.62 1768.16 2628.46 1902.09 TRUE FALSE FALSE 1652.715137 2076.023507 2036.579398 1880.366062 1662.869262 2144.369492 1661.020392 1722.933027 2610.168333 1984.098409 0.832980426 1.046330917 1.0264508 0.947718144 0.838098178 1.08077779 0.837166334 0.868370752 1.315543786 1 10.95426787 AS(ph)PFEEDQNR ddPTM_HeLa_SAHA_4h_R1 2 ASPFEEDQNR 10 0 C9JW01;A0A0A0MR59;Q8TB72-2;Q8TB72-4;Q8TB72-3;Q8TB72;A0A0C4DG68 C9JW01 PUM2 Pumilio homolog 2 1 0 AS(1)PFEEDQNR;AS(1)PFEEDQNR ; 110.98 0.0053571 8561700 1024.04 1092.82 971.41 1107.91 921.4 1432.79 1058.47 1153.8 1259.51 1067.62 TRUE FALSE FALSE 1131.753226 1128.228085 1103.788696 1129.3552 850.8025311 1310.708231 939.3681699 1124.287467 1250.744967 1113.650323 1.016255464 1.013090071 0.991144772 1.014102162 0.76397637 1.17694774 0.843503702 1.009551601 1.123103852 1 10.12108059 AS(ph)PGGVSTSSSDGK ddPTM_HeLa_SAHA_4h_R1 2 ASPGGVSTSSSDGK 14 0 P54259 P54259 ATN1 Atrophin-1 1 0 AS(0.997)PGGVS(0.002)TS(0.001)SSDGK;AS(1)PGGVSTSSSDGK ; 98.676 0.0028994 2763500 2025.8 2313.86 1702.86 2213.9 2395.8 2900.3 2432.5 2083.5 3289.1 2265.37 TRUE FALSE FALSE 2238.882939 2388.830582 1934.916893 2256.753236 2212.234322 2653.178123 2158.788698 2030.207087 3266.210885 2363.041187 0.94745828 1.010913646 0.81882487 0.955020695 0.936181025 1.122781159 0.91356372 0.859150106 1.382206499 1 11.20642906 -9.101613909 0.702988382 1.002898216 0.94754401 0.094850963 0.144278581 2.128531218 1.764157622 0.068272946 0.016524267 7.91E-10 9.101613909 -0.055354206 AS(ph)PGGVSTSSSDGKAEK ddPTM_HeLa_SAHA_4h_R1 2 ASPGGVSTSSSDGKAEK 17 1 P54259 P54259 ATN1 Atrophin-1 1 0 AS(1)PGGVSTSSSDGKAEK;AS(1)PGGVSTSSSDGKAEK ; 188.44 3.36E-27 2657900 409.56 600.73 491.24 363.77 397.95 477.51 445.89 384.53 522.32 304.43 TRUE FALSE FALSE 452.6393999 620.1940462 558.1836289 370.8112944 367.459157 436.8234616 395.7172837 374.6942794 518.6851326 317.5554671 1.425386891 1.953025882 1.757751595 1.167705591 1.157149522 1.375581613 1.24613595 1.179933329 1.633368612 1 8.310864798 AS(ph)PGLLPVANGNSLNK ddPTM_HeLa_SAHA_4h_R1 2 ASPGLLPVANGNSLNK 16 0 Q14814-4;Q14814;Q14814-6;Q14814-3;Q14814-5;Q14814-2 Q14814-4 MEF2D Myocyte-specific enhancer factor 2D 1 0 AS(1)PGLLPVANGNSLNK;AS(1)PGLLPVANGNSLNK ; 258.12 7.57E-47 76509000 3432.6 3929.6 3537.2 2857 4023.5 3362.1 3667.7 2724.3 3772 3395.1 TRUE FALSE FALSE 3793.656617 4056.921618 4019.231195 2912.301366 3715.220299 3075.630165 3255.000743 2654.616351 3745.750345 3541.479376 1.071206751 1.14554433 1.134901765 0.822340343 1.049058855 0.868459149 0.919107638 0.749578374 1.057679559 1 11.79013643 -4.550969237 0.668138116 1.044570916 0.674390237 0.54804953 0.086352199 1.399109777 0.539627167 0.015232289 0.363035781 2.81E-05 4.550969237 -0.370180679 AS(ph)PLYASYK ddPTM_HeLa_SAHA_4h_R1 1 ASPLYASYK 9 0 A0A1B0GTT1;A0A1B0GVM0;Q9BUH8 A0A1B0GTT1 BEGAIN Brain-enriched guanylate kinase-associated protein 1 0 AS(1)PLYASYK 131.42 0.0018816 12585000 2626.2 4094 3315.5 3121.5 3749.8 2741.9 3733.6 1883.6 1659.9 2216.1 TRUE FALSE FALSE 2902.435765 4226.648286 3767.319074 3181.921146 3462.491134 2508.274694 3313.485502 1835.420239 1648.348621 2311.646916 1.255570539 1.828414303 1.629712153 1.376473684 1.49784602 1.085059607 1.433387373 0.793988142 0.713062453 1 11.17470534 -8.198252041 1.353561648 1.056472305 1.380696422 0.278243506 0.291152796 0.43198864 1.613798578 0.069811324 0.054037316 6.34E-09 8.198252041 0.324224117 AS(ph)PNLIGATGANSLGK ddPTM_HeLa_SAHA_4h_R1 2 ASPNLIGATGANSLGK 16 0 Q02078-3;Q02078-5;Q02078;Q02078-8;Q02078-7;Q02078-4;Q02078-6;Q02078-2 Q02078-3 MEF2A Myocyte-specific enhancer factor 2A 1 0 AS(0.999)PNLIGAT(0.001)GANSLGK;AS(1)PNLIGATGANSLGK ; 199.09 4.59E-15 27551000 1693.72 2213.8 2171.7 1847.45 1779.26 1627.8 1595.46 1651.15 2108.74 2029.19 TRUE FALSE FALSE 1871.873241 2285.528573 2467.647966 1883.210066 1642.933483 1489.102282 1415.934642 1608.915974 2094.065107 2116.678312 0.884344697 1.079771338 1.165811523 0.889700648 0.776184777 0.703509019 0.66894182 0.760113601 0.989316655 1 11.04758631 -5.768905336 2.927237442 0.972709182 0.71249123 0.739800083 0.080252481 0.128003361 2.252995473 0.013954014 0.028460805 1.70E-06 5.768905336 -0.260217952 AS(ph)PNPVAMETR ddPTM_HeLa_SAHA_4h_R1 1 ASPNPVAMETR 11 0 H7BXF5;A0A2R8YDB8;Q9H0E3;Q9H0E3-3 H7BXF5 SAP130 Histone deacetylase complex subunit SAP130 1 0 AS(0.997)PNPVAMET(0.003)R 85.163 0.019404 5565400 682.16 701.61 647 880.25 507.5 721.46 573.86 700.25 719.18 647.4 TRUE FALSE FALSE 753.9127187 724.3426243 735.1697906 897.2885116 468.6154596 659.9875492 509.2877625 682.3386189 714.1751678 675.3125823 1.116390748 1.072603478 1.088636299 1.328701012 0.69392378 0.977306756 0.754151153 1.010404125 1.057547551 1 9.399411628 -5.747099443 24.9997541 1.077627014 0.859915442 0.498659676 0.120947704 169.1484894 294885.9413 0.016872413 0.03362097 1.79E-06 5.747099443 -0.217711572 AS(ph)PPAESMSVYR ddPTM_HeLa_SAHA_4h_R1 1 ASPPAESMSVYR 12 0 Q9HCD6;Q9HCD6-2 Q9HCD6 TANC2 Protein TANC2 1 0 AS(1)PPAESMSVYR 93.766 0.010231 10425000 209.7 230.31 234.41 183.91 205.07 281.74 201.92 198.76 256.61 225.09 TRUE FALSE FALSE 231.7572081 237.7721951 266.354174 187.469844 189.3575809 257.734167 179.1994302 193.676007 254.8242301 234.7947315 0.987063069 1.012681135 1.134412908 0.798441442 0.806481388 1.097699958 0.763217424 0.824873735 1.085306423 1 7.875256226 -6.244361405 24.98964757 1.00502497 0.863307813 0.446334569 0.09872421 700.5830272 1025140.48 0.013895703 0.023004184 5.70E-07 6.244361405 -0.141717157 AS(ph)PPGDLQNPK ddPTM_HeLa_SAHA_4h_R1 3 ASPPGDLQNPK 11 0 O00273 O00273 DFFA DNA fragmentation factor subunit alpha 1 0 AS(1)PPGDLQNPK;AS(1)PPGDLQNPK;AS(1)PPGDLQNPK ;; 149.41 7.06E-05 27899000 3217.29 4736.73 3390.3 3942.54 4151.14 5123.74 3762.52 2944.02 6541.9 3801.07 TRUE FALSE FALSE 3555.699324 4890.20316 3852.312428 4018.853563 3833.08055 4687.168527 3339.151347 2868.716231 6496.374385 3964.95273 0.896782274 1.233357241 0.97159101 1.013594319 0.966740542 1.182149914 0.842166748 0.723518394 1.638449391 1 11.95308795 -4.531870496 24.70671501 0.990585871 0.753180404 0.103560656 0.229475103 104.2838851 286543.0548 0.014799767 0.055544961 2.94E-05 4.531870496 -0.237405467 AS(ph)PPPQGPLPGPPGALHR ddPTM_HeLa_SAHA_4h_R1 2 ASPPPQGPLPGPPGALHR 18 0 A0A087WXV6;Q96G74-2;Q96G74-3;Q96G74-5;Q96G74 A0A087WXV6 OTUD5 OTU domain-containing protein 5 1 0 AS(1)PPPQGPLPGPPGALHR;AS(1)PPPQGPLPGPPGALHR ; 152.94 5.39E-05 38737000 272.16 279.035 129.49 221.358 261.23 67.452 182.147 236.842 269.648 186.062 TRUE FALSE FALSE 300.7870375 288.0759171 147.1362228 225.6427042 241.2146138 61.70471013 161.6513402 230.7839246 267.7714976 194.0840434 1.549777263 1.484284396 0.758105717 1.162603067 1.242835885 0.317927786 0.83289351 1.189092728 1.379667761 1 7.600537702 -5.959498293 1.162044265 1.264719118 0.82618547 0.259023973 0.306719671 0.544628195 1.454989809 0.056904587 0.138286543 1.10E-06 5.959498293 -0.438533648 AS(ph)PSPQPSSQPLQIHR ddPTM_HeLa_SAHA_4h_R1 1 ASPSPQPSSQPLQIHR 16 0 B5MBZ0;Q9HC35 B5MBZ0 EML4 Echinoderm microtubule-associated protein-like 4 1 0 AS(0.5)PS(0.5)PQPSSQPLQIHR 94.532 0.0042308 80839000 784.17 772.66 676.48 619.99 992.12 1080.8 870.65 992.96 891.41 930.6 TRUE FALSE FALSE 866.6525985 797.694691 768.6671714 631.990803 916.1039799 988.7097596 772.6821706 967.561521 885.2066052 970.7227202 0.892791093 0.821753395 0.791850397 0.65105183 0.943733943 1.018529534 0.79598649 0.996743458 0.911904694 1 9.922915449 -8.472444609 0.934414402 0.987122008 0.85917017 0.093170251 0.105630682 0.603650215 1.085589364 0.038799396 0.021995441 3.37E-09 8.472444609 -0.127951838 AS(ph)PSTAGETPSGVK ddPTM_HeLa_SAHA_4h_R1 2 ASPSTAGETPSGVK 14 0 A0A087WW69;F8W8L6;A0A087WTA5;E7ERK9;Q9UI10-3;Q9UI10;Q9UI10-2 A0A087WW69 EIF2B4 Translation initiation factor eIF-2B subunit delta 1 0 AS(0.903)PS(0.086)T(0.011)AGETPSGVK;AS(0.974)PS(0.023)T(0.003)AGETPSGVK ; 138.31 0.00027185 13009500 1890.13 2336.8 1645.16 2240.42 2404.7 3036.5 2344.94 2241.7 2977.3 2045.21 TRUE FALSE FALSE 2088.942546 2412.513853 1869.353837 2283.786569 2220.452406 2777.773117 2081.08118 2184.36056 2956.580727 2133.389012 0.979166263 1.130836355 0.876236742 1.070497015 1.040809901 1.302047166 0.975481343 1.023892289 1.385861046 1 11.05893134 -6.026232898 23.97642345 0.99399526 1.088470517 0 0.158502594 555.7179541 507916.6324 0.0140118 0.023295337 9.41E-07 6.026232898 0.094475257 AS(ph)PSYSALDK ddPTM_HeLa_SAHA_4h_R1 1 ASPSYSALDK 10 0 Q9NYD6;D6RAG4 Q9NYD6 HOXC10 Homeobox protein Hox-C10 1 0 AS(0.99)PS(0.01)YSALDK 160.67 2.49E-09 0 997.72 1581.9 1196 1342.2 1546.2 1807.2 1005.8 1183.6 1817.5 1548.2 TRUE FALSE FALSE 1102.664767 1633.154598 1358.984651 1368.180222 1427.73049 1653.216393 892.6247369 1153.325226 1804.85187 1614.950479 0.682785498 1.011272246 0.841502368 0.847196394 0.884070756 1.023694791 0.552725764 0.714155165 1.117589606 1 10.65727421 -9.620771762 1.432147414 1.000009457 0.806736787 0.28532444 0.142278031 0.548055022 2.018440471 0.100819326 0.023075269 2.39E-10 9.620771762 -0.19327267 AS(ph)PTLDFTER ddPTM_HeLa_SAHA_4h_R1 2 ASPTLDFTER 10 0 A0A0D9SGJ6;J3KQV8;O43426 A0A0D9SGJ6 SYNJ1 Synaptojanin-1 1 0 AS(0.926)PT(0.074)LDFTER;AS(0.851)PT(0.146)LDFT(0.003)ER ; 97.452 0.012408 21680000 1574.32 1626.94 1371.05 1629.03 1758.69 1983.78 1748.1 1851.56 2162.03 1668.85 TRUE FALSE FALSE 1739.914201 1679.653923 1557.889554 1660.562231 1623.939552 1814.750784 1551.399187 1804.199776 2146.984257 1740.802291 0.999489839 0.964873457 0.894926186 0.953906277 0.93286846 1.042479547 0.891197809 1.036418544 1.233330326 1 10.76553664 -7.217632507 4.896567791 0.999821295 0.956026406 0.125934802 0.087733934 0.267381242 15.28636516 0.00722647 0.008778329 6.06E-08 7.217632507 -0.043794889 AS(ph)PTSTEEEQVMLR ddPTM_HeLa_SAHA_4h_R1 1 ASPTSTEEEQVMLR 14 0 Q96PE3-2;Q96PE3-4;Q96PE3-3;Q96PE3 Q96PE3-2 INPP4A "Type I inositol 3,4-bisphosphate 4-phosphatase" 1 0 AS(0.992)PT(0.004)S(0.003)T(0.001)EEEQVMLR 151.07 6.88E-05 4239200 221.11 209.34 51.085 204.05 229.84 382.38 204.1 212.92 279.05 129.01 TRUE FALSE FALSE 244.3673643 216.1227534 58.04659776 207.9996828 212.2297089 349.7990728 181.1341308 207.4738147 277.1080683 134.5722525 1.815882248 1.605997889 0.431341504 1.545635738 1.577068861 2.599340253 1.345999101 1.541728038 2.05917686 1 7.07223716 -9.486255924 1.174224638 0.993431739 1.577863996 0 0.594885085 0.779016942 1.887082052 0.375951307 0.087645656 3.26E-10 9.486255924 0.584432257 AS(ph)PVPAPSSGLHAAVR ddPTM_HeLa_SAHA_4h_R1 1 ASPVPAPSSGLHAAVR 16 0 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 AS(1)PVPAPSSGLHAAVR 128.85 1.36E-05 0 0 160.56 0 279.18 328.82 439.2 112.97 180.07 291.84 204.8 TRUE FALSE FALSE 0 165.7622493 0 284.5839326 303.6258826 401.7776891 100.2583183 175.4640701 289.8090617 213.6299303 0 0.775931767 0 1.332135119 1.421270335 1.880718159 0.469308388 0.821345913 1.356593907 1 7.738969977 -6.240779331 24.73029757 0.50235742 1.196979525 0.202534022 0.525700969 713.4981685 854064.7876 0.08004247 0.132634113 5.74E-07 6.240779331 0.694622105 AS(ph)PVSFQELNR ddPTM_HeLa_SAHA_4h_R1 2 ASPVSFQELNR 11 0 F5H212;P15822 F5H212 HIVEP1 Zinc finger protein 40 1 0 AS(1)PVSFQELNR;AS(0.998)PVS(0.002)FQELNR ; 156.52 0.00027807 15330900 1069.27 883.35 942.36 981.48 800.29 1291.6 1164.28 1009.69 968.41 1076.9 TRUE FALSE FALSE 1181.740725 911.9711196 1070.779913 1000.477965 738.9719531 1181.548414 1033.27215 983.8635918 961.670756 1123.330429 1.05199743 0.811845825 0.953219004 0.890635505 0.657840235 1.051826233 0.919829218 0.875845224 0.85608894 1 10.13356665 -7.272551007 24.90536506 1.024554345 0.882941304 0.058795931 0.109723765 588.0832942 1318115.135 0.015881982 0.018250953 5.34E-08 7.272551007 -0.14161304 AS(ph)QEANLLTLAQK ddPTM_HeLa_SAHA_4h_R1 1 ASQEANLLTLAQK 13 0 A0A0A0MSU2;A0A1C7CYX1;Q6PJG2;H7C1L3 A0A0A0MSU2 ELMSAN1 ELM2 and SANT domain-containing protein 1 1 0 AS(1)QEANLLTLAQK 92.265 0.0091872 1912100 368.35 502.9 395.47 467.9 660.72 617.2 558.09 642.36 438.58 474.95 TRUE FALSE FALSE 407.0947431 519.19429 449.3625921 476.9568811 610.0957763 564.6110877 495.2922444 625.9293613 435.5278861 495.4274188 0.821704103 1.047972458 0.90702003 0.962717974 1.231453394 1.139644409 0.999727156 1.263412838 0.879095241 1 8.952529905 -5.87273809 6.017815108 0.925606117 1.145032133 0.605973993 0.087613682 0.122329295 6.051182216 0.014172394 0.025961405 1.34E-06 5.87273809 0.219426016 AS(ph)QSPQKQHPLLDGVDGECPFPSR ddPTM_HeLa_SAHA_4h_R1 1 ASQSPQKQHPLLDGVDGECPFPSR 24 1 E9PD99;Q96II8-3;Q96II8-4;Q96II8;Q96II8-2;H7C1G3;H7C0J8 E9PD99 LRCH3 Leucine-rich repeat and calponin homology domain-containing protein 3 1 0 AS(0.532)QS(0.468)PQKQHPLLDGVDGECPFPSR 67.413 0.00082885 4756400 692.6 638.87 610.55 601.91 921.1 827.97 698.47 456.82 815.75 840.27 TRUE FALSE FALSE 765.4508458 659.5698072 693.7525744 613.5608384 850.525517 757.422298 619.8763173 445.1352059 810.0731293 876.4981519 0.873305716 0.752505645 0.791504891 0.700013842 0.970367724 0.864145916 0.707219195 0.507856411 0.924215445 1 9.775607239 -2.342790978 0.099591992 1.139426591 7.57E-13 0.455626908 0.104184743 58.90497826 0.563843736 1.019026846 9.22027054 0.004541601 2.342790978 -1.139426591 AS(ph)S(ph)HSSQTQGGGSVTK ddPTM_HeLa_SAHA_4h_R1 2 ASSHSSQTQGGGSVTK 16 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 2 0 AS(0.988)S(0.503)HS(0.503)S(0.006)QT(0.001)QGGGSVTK;AS(0.947)S(0.606)HS(0.428)S(0.015)QT(0.005)QGGGSVTK ; 106.6 0.0047366 6223000 2466.21 2913.77 2127.89 2970.96 3260.5 3318.8 3499.3 3122.45 3665.7 3527.2 TRUE FALSE FALSE 2725.617283 3008.17806 2417.867768 3028.467227 3010.681194 3036.019569 3105.549554 3042.58225 3640.190095 3679.274854 0.740802846 0.817600799 0.657158778 0.823115246 0.818281133 0.825167918 0.844065659 0.826951606 0.989377048 1 11.84520574 -9.344803554 1.014161797 1.002701388 0.791381797 0.690798254 0.053485666 0.261823427 0.472201513 0.040541847 0.010085807 4.52E-10 9.344803554 -0.211319591 AS(ph)S(ph)S(ph)KES(ph)PSPS(ph)VREQLALLEARK ddPTM_HeLa_SAHA_4h_R1 1 ASSSKESPSPSVREQLALLEARK 23 3 H0Y517;H7C1U3;Q5T0F9-3;Q5T0F9-2;Q5T0F9 H0Y517 CC2D1B Coiled-coil and C2 domain-containing protein 1B 5 0 AS(0.999)S(0.999)S(0.995)KES(0.995)PS(0.029)PS(0.984)VREQLALLEARK 52.391 0.0076317 0 1066.2 1350.2 968.84 1116.7 1697.7 1498.8 1319.2 1213.8 1495.9 1316.6 TRUE FALSE FALSE 1178.347808 1393.947366 1100.86847 1138.315343 1567.622593 1371.093808 1170.760144 1182.752754 1485.48991 1373.365069 0.858000421 1.014986763 0.801584731 0.828851242 1.141446384 0.998346207 0.852475551 0.861207832 1.081642415 1 10.42349946 -9.625130598 1.447082032 0.999902835 0.914011487 0.153275553 0.102972403 0.874996665 3.297021388 0.071960823 0.016522625 2.37E-10 9.625130598 -0.085891348 AS(ph)SASVPAVGASAEGTR ddPTM_HeLa_SAHA_4h_R1 1 ASSASVPAVGASAEGTR 17 0 A0A2R8YFI4;V9GYZ0;Q9BZ23-3;Q9BZ23-4;Q9BZ23 A0A2R8YFI4 PANK2 "Pantothenate kinase 2, mitochondrial" 1 0 AS(0.566)S(0.429)AS(0.005)VPAVGASAEGTR 84.046 0.0077359 15012000 1717.6 2034.3 2029.8 2235.6 2290.2 2798.6 2398.5 2308.6 2806.8 2609.8 TRUE FALSE FALSE 1898.265049 2100.212655 2306.410573 2278.873271 2114.725371 2560.143536 2128.614467 2249.549355 2787.26725 2722.32125 0.697296489 0.771478625 0.847222044 0.837106668 0.776809633 0.94042668 0.781911564 0.826335009 1.023856847 1 11.41062161 -9.536671239 1.313148212 0.999454353 0.798954578 0.62635754 0.061465652 0.267510372 0.829708334 0.047253861 0.011391143 2.91E-10 9.536671239 -0.200499775 AS(ph)SHSS(ph)QTQGGGSVTK ddPTM_HeLa_SAHA_4h_R1 1 ASSHSSQTQGGGSVTK 16 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 2 0 AS(0.841)S(0.158)HS(0.152)S(0.666)QT(0.183)QGGGSVTK 99.407 0.0079101 49998000 1748.2 3263.5 1234.9 2556.4 4478.7 6149 2908.3 3602.7 3259.4 3203.3 TRUE FALSE FALSE 1932.083697 3369.239541 1403.185741 2605.882819 4135.542974 5625.070607 2581.05043 3510.548151 3236.71757 3341.40994 0.578224083 1.0083287 0.41993822 0.779875222 1.237664055 1.683442232 0.772443512 1.050618815 0.968668206 1 11.70624127 -5.765280997 24.86199247 0.780431783 1.192028004 0.331930983 0.273137761 82.43218723 533485.7884 0.041904227 0.078094945 1.72E-06 5.765280997 0.411596221 AS(ph)SLGEIDESSELR ddPTM_HeLa_SAHA_4h_R1 2 ASSLGEIDESSELR 14 0 Q16513-3;Q16513-2;Q16513;Q16513-4;Q16513-5 Q16513-3 PKN2 Serine/threonine-protein kinase N2 1 0 AS(0.675)S(0.325)LGEIDESSELR;AS(0.929)S(0.071)LGEIDESSELR ; 273.07 7.20E-56 23859100 1847.61 1802.52 1823.16 1879.18 1823.23 2434.2 2358.11 2263 2113.36 1975.98 TRUE FALSE FALSE 2041.950097 1860.922831 2071.61075 1915.554246 1683.534511 2226.792466 2092.769257 2205.115737 2098.652956 2061.174168 0.990673243 0.902845989 1.005063416 0.929350986 0.816784208 1.080351433 1.015328685 1.069834743 1.018183222 1 11.0092507 AS(ph)SLNENVDHSALLK ddPTM_HeLa_SAHA_4h_R1 3 ASSLNENVDHSALLK 15 0 Q96SB3 Q96SB3 PPP1R9B Neurabin-2 1 0 AS(0.583)S(0.417)LNENVDHSALLK;AS(0.873)S(0.127)LNENVDHSALLK;AS(0.656)S(0.344)LNENVDHS(0.001)ALLK ;; 133.35 0.00017973 20137900 5278.68 7587.3 6369.8 3768.32 5872.36 7753.5 8262.8 4429.29 4914.74 6905.39 TRUE FALSE FALSE 5833.915782 7833.133498 7237.843172 3841.261283 5422.421045 7092.85818 7333.047998 4315.995175 4880.537924 7203.115157 0.809915662 1.087464705 1.004821249 0.533277783 0.752788332 0.984693154 1.018038423 0.599184531 0.677559336 1 12.81440525 AS(ph)SMPATLLHSR ddPTM_HeLa_SAHA_4h_R1 2 ASSMPATLLHSR 12 0 Q5T7N3 Q5T7N3 KANK4 KN motif and ankyrin repeat domain-containing protein 4 1 0 AS(0.5)S(0.5)MPATLLHSR;AS(0.5)S(0.5)MPATLLHSR ; 195.87 1.24E-07 8147400 9554.2 11935 11767.1 11822.8 13942.9 11826.8 13028.2 10565.3 9203.1 10162.1 TRUE FALSE FALSE 10559.15459 12321.70183 13370.65911 12051.64739 12874.59801 10819.0901 11562.23265 10295.05492 9139.054878 10600.23786 0.996124307 1.162398617 1.26135463 1.136922355 1.214557464 1.020645975 1.090752188 0.971209803 0.862155642 1 13.37180902 -7.271140029 23.86984207 0.998169805 1.126836757 0.396706355 0.090808624 301.3318089 741468.4484 0.013950593 0.016066482 5.36E-08 7.271140029 0.128666953 AS(ph)SPEKAEEDR ddPTM_HeLa_SAHA_4h_R1 1 ASSPEKAEEDR 11 1 Q8N3D4;H0YDZ9 Q8N3D4 EHBP1L1 EH domain-binding protein 1-like protein 1 1 0 AS(0.503)S(0.497)PEKAEEDR 69.864 0.02157 6508700 2494.7 2383.5 1558.2 2657.4 2501.7 3056 2568.9 2831.9 3071.9 2881.6 TRUE FALSE FALSE 2757.103992 2460.726964 1770.543381 2708.83782 2310.020286 2795.611607 2279.840611 2759.464099 3050.522398 3005.839878 0.917249123 0.818648718 0.589034497 0.901191657 0.768510759 0.930060057 0.758470412 0.918034297 1.014865236 1 11.55355244 -7.493194773 2.229956734 0.968725462 0.808303877 0.390994414 0.095774577 0.226838104 2.227365723 0.017376102 0.018947093 3.21E-08 7.493194773 -0.160421585 AS(ph)SPIKQSHEPVPDTSVEK ddPTM_HeLa_SAHA_4h_R1 2 ASSPIKQSHEPVPDTSVEK 19 1 Q9ULM3 Q9ULM3 YEATS2 YEATS domain-containing protein 2 1 0 AS(0.377)S(0.377)PIKQS(0.246)HEPVPDTSVEK;AS(0.333)S(0.333)PIKQS(0.333)HEPVPDTSVEK ; 78.441 0.0020269 42831000 9751.6 8587.5 8338.3 9322.5 10232.5 10164.5 10487.4 11167.4 9060.3 9568.7 TRUE FALSE FALSE 10777.31803 8865.740634 9474.6001 9502.950468 9448.488061 9298.427416 9307.330151 10881.75408 8997.248635 9981.253485 1.079755969 0.888239202 0.949239503 0.952079865 0.946623395 0.931589147 0.932481092 1.090219189 0.901414702 1 13.28500529 -7.271103085 24.96908817 1.03766254 0.953208737 0 0.067604841 543.7520729 1404944.703 0.009237309 0.010631703 5.36E-08 7.271103085 -0.084453804 AS(ph)SPSPLTIGTPESQR ddPTM_HeLa_SAHA_4h_R1 1 ASSPSPLTIGTPESQR 16 0 Q9NPI6-2;Q9NPI6 Q9NPI6-2 DCP1A mRNA-decapping enzyme 1A 1 0 AS(0.557)S(0.395)PS(0.043)PLT(0.002)IGT(0.003)PESQR 109.55 0.0019836 3748000 328.84 316.02 340.12 402.29 433 623.22 378.67 559.06 458.35 534.84 TRUE FALSE FALSE 363.4289 326.2592553 386.4697823 410.0769047 399.8236335 570.1181499 336.061055 544.7600547 455.160305 557.8995698 0.651423517 0.58479926 0.692722854 0.735037141 0.716658795 1.021901039 0.602368371 0.976448243 0.815846309 1 9.123861629 -9.394387569 1.150478315 0.998265315 0.736162928 0.111362883 0.148042531 0.432169315 1.033524623 0.088713942 0.023279928 4.03E-10 9.394387569 -0.262102387 AS(ph)SRVSGSFPEDSSK ddPTM_HeLa_SAHA_4h_R1 1 ASSRVSGSFPEDSSK 15 1 O15400-2;O15400 O15400-2 STX7 Syntaxin-7 1 0 AS(0.416)S(0.295)RVS(0.273)GS(0.016)FPEDSSK 67.645 0.01821 6814000 1044.3 1789.5 1337.6 1139 1348.6 1280.1 1756.9 1346.1 1201.6 1225.9 TRUE FALSE FALSE 1154.144265 1847.480974 1519.881162 1161.046992 1245.270559 1171.028278 1559.208988 1311.668711 1193.237968 1278.754548 0.9025534 1.444750266 1.188563641 0.907951407 0.973815155 0.915756882 1.21931843 1.025739234 0.933125101 1 10.32052366 AS(ph)SVISTAEGTTR ddPTM_HeLa_SAHA_4h_R1 1 ASSVISTAEGTTR 13 0 Q3V6T2;A0A2R8Y820;Q3V6T2-3;Q3V6T2-2;Q3V6T2-4;A0A2R8Y7B1;H0Y7K3;A0A2R8Y5D7;H7C2C6;H0Y470;A0A2R8Y885;A0A2R8YCU9;A0A2R8Y4Z5 Q3V6T2 CCDC88A Girdin 1 0 AS(0.582)S(0.409)VIS(0.004)T(0.004)AEGTTR 86.262 0.013662 1765400 707 1249.1 688.9 840.8 1145.9 1049.7 994.28 990.53 855.06 923.31 TRUE FALSE FALSE 781.3655038 1289.57166 782.7797044 857.0748998 1058.10139 960.2596545 882.4009976 965.1936769 849.1095678 963.1184127 0.811287058 1.338954424 0.812755414 0.889895664 1.098620248 0.997031769 0.916191598 1.002154734 0.881625309 1 9.911569374 AS(ph)SVNEMR ddPTM_HeLa_SAHA_4h_R1 1 ASSVNEMR 8 0 P0CG00 P0CG00 ZSCAN5D Putative zinc finger and SCAN domain-containing protein 5D 1 0 AS(0.998)S(0.002)VNEMR 81.338 0.017937 1945500 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 AS(ph)TPDWVSEGPQPGLRR ddPTM_HeLa_SAHA_4h_R1 1 ASTPDWVSEGPQPGLRR 17 1 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 AS(0.5)T(0.5)PDWVSEGPQPGLRR 120.08 0.00032529 6076700 971.69 883.63 1005.1 756.3 851.83 908.96 873.87 826.12 802.51 808.14 TRUE FALSE FALSE 1073.896812 912.2601918 1142.069794 770.9392801 786.5629694 831.5114943 775.5398477 804.9890466 796.9252676 842.9828703 1.273924833 1.082181173 1.354795968 0.914537302 0.933071118 0.986391923 0.919994789 0.954929305 0.945363537 1 9.719359505 -6.208381324 24.99935956 1.143721975 0.942568299 0.408624502 0.113469482 254.7564105 120033.471 0.01803551 0.02990849 6.19E-07 6.208381324 -0.201153676 AS(ph)VSPMDEPVPDSESPIEK ddPTM_HeLa_SAHA_4h_R1 1 ASVSPMDEPVPDSESPIEK 19 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 AS(0.556)VS(0.444)PMDEPVPDSESPIEK 130.83 5.20E-05 8228700 1633.2 1913.3 1604.4 1913.7 2040.1 2150.7 1735.3 1637.5 1772.1 1867.3 TRUE FALSE FALSE 1804.987469 1975.292175 1823.039277 1950.742431 1883.787979 1967.44826 1540.039477 1595.615121 1759.767812 1947.808441 0.926676069 1.014110081 0.935943822 1.001506303 0.967132054 1.010083034 0.79065243 0.819184827 0.903460409 1 10.92763609 -4.756248845 24.99974212 0.971164062 0.804918559 0.765406198 0.036521178 38.95019052 187593.6768 0.004666662 0.016460217 1.75E-05 4.756248845 -0.166245504 AS(ph)WESLDEEWR ddPTM_HeLa_SAHA_4h_R1 3 ASWESLDEEWR 11 0 Q00587-2;Q00587 Q00587-2 CDC42EP1 Cdc42 effector protein 1 1 0 AS(0.914)WES(0.086)LDEEWR;AS(0.649)WES(0.351)LDEEWR;AS(0.92)WES(0.08)LDEEWR ;; 176.87 4.94E-05 7807400 958.26 1470.12 1308.7 1296.97 1536.27 1832.72 1197.57 1349.03 2004.41 1307.3 TRUE FALSE FALSE 1059.054183 1517.752853 1487.042821 1322.07473 1418.561324 1676.561945 1062.816272 1314.523766 1990.461148 1363.664101 0.776623938 1.11299612 1.090475888 0.969501748 1.040257145 1.229453752 0.779382746 0.963964487 1.459641818 1 10.41327261 -7.253156844 24.89124512 0.894516859 1.025660263 0 0.215772544 789.5883015 2372926.511 0.022572968 0.027397549 5.58E-08 7.253156844 0.131143405 ASAETVDPASLWEY ddPTM_HeLa_SAHA_4h_R1 2 ASAETVDPASLWEY 14 0 Q16658 Q16658 FSCN1 Fascin 0 0 ; ; 142.92 0.00092814 13041300 4328.9 4196.5 3690.4 4513.5 4429 4690.7 4687.3 5083.4 4938 4135.7 FALSE FALSE TRUE 4784.233564 4332.469353 4193.308493 4600.865319 4089.650977 4291.025971 4159.872668 4953.373989 4903.636056 4314.010267 1.108999114 1.004278869 0.972020981 1.066493827 0.947992871 0.994672174 0.964270461 1.148206352 1.136676956 1 12.07481389 ASAGTPSLSAGVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 ASAGTPSLSAGVSPK 15 0 Q8TEK3-1;Q8TEK3 Q8TEK3-1 DOT1L "Histone-lysine N-methyltransferase, H3 lysine-79 specific" 1 0 ASAGTPSLS(0.004)AGVS(0.996)PK 143.93 0.00010806 8779900 3054.2 2735.2 2650.5 2864.3 3064 3290 3049.8 3259.9 3202.8 2767.8 TRUE FALSE FALSE 3375.454769 2823.822275 3011.696337 2919.742668 2829.236982 3009.673491 2706.628477 3176.516478 3180.511454 2887.133403 1.169137098 0.978071284 1.043144156 1.011294686 0.979946745 1.042443514 0.937479534 1.100231972 1.101615689 1 11.49542206 -7.221521041 24.99778489 1.079870349 1.01123632 0.272923818 0.056790798 698.5289042 437435.2726 0.011851381 0.014514846 6.00E-08 7.221521041 -0.068634029 ASAISIK(ac)LGSSKPK ddPTM_HeLa_SAHA_4h_R1 2 ASAISIKLGSSKPK 14 2 Q8WW12;Q8WW12-2 Q8WW12 PCNP PEST proteolytic signal-containing nuclear protein 0 1 ; ASAISIK(1)LGSSKPK;ASAISIK(1)LGSSKPK 129.29 0.00029651 6217200 3280 3565.3 3317.9 4618.6 4732.4 3303.8 5502.2 5003.6 3905.7 3770.9 FALSE TRUE FALSE 3625.005449 3680.818059 3770.046133 4707.999682 4369.804534 3022.297653 4883.077975 4875.615157 3878.519916 3933.481953 0.921576733 0.935765844 0.95845009 1.196903847 1.110925278 0.768351727 1.241413596 1.239516341 0.986027129 1 11.94159125 -6.2935771 22.81874673 0.959245301 1.099556819 0.256423756 0.127813758 263.6494451 187198.3566 0.019755632 0.030180009 5.09E-07 6.2935771 0.140311518 ASALLFS(ph)SDEEDQWNIPASQTHLASDSR ddPTM_HeLa_SAHA_4h_R1 1 ASALLFSSDEEDQWNIPASQTHLASDSR 28 0 A0A0A0MR88;A0A096LPC5;Q9Y4E1-6;Q9Y4E1;Q9Y4E1-5;E7ESD2;Q641Q2-2;Q641Q2;F8W7U3;A0A087WYF6 A0A0A0MR88;E7ESD2 FAM21C;FAM21A WASH complex subunit FAM21C;WASH complex subunit FAM21A 1 0 AS(0.014)ALLFS(0.493)S(0.493)DEEDQWNIPASQTHLASDSR 58.349 0.0048947 6589800 589.18 753.46 429.93 732.6 1091 1566.6 845.29 1052.6 965.49 782.23 TRUE FALSE FALSE 651.1526557 777.8725984 488.5186214 746.7805324 1007.407816 1433.116867 750.1757445 1025.676016 958.7710765 815.9557634 0.798024458 0.953326924 0.598707238 0.915221837 1.234635333 1.756365885 0.919382861 1.257024047 1.175028255 1 9.672347129 -5.741589335 4.836303329 0.880681567 1.3042591 0.393322983 0.234265099 0.129829749 7.648019576 0.031311823 0.061853385 1.81E-06 5.741589335 0.423577532 ASALLFSS(ph)DEEDQWNIPASQTHLASDSR ddPTM_HeLa_SAHA_4h_R1 1 ASALLFSSDEEDQWNIPASQTHLASDSR 28 0 A0A0A0MR88;A0A096LPC5;Q9Y4E1-6;Q9Y4E1;Q9Y4E1-5;E7ESD2;Q641Q2-2;Q641Q2;F8W7U3;A0A087WYF6 A0A0A0MR88;E7ESD2 FAM21C;FAM21A WASH complex subunit FAM21C;WASH complex subunit FAM21A 1 0 ASALLFS(0.21)S(0.79)DEEDQWNIPASQTHLASDSR 121.07 9.92E-09 6078200 550.64 1051.3 510.88 1022.3 1314.9 2277.6 1037.9 1369.4 916.32 1029.5 TRUE FALSE FALSE 608.5588416 1085.36281 580.5000659 1042.088095 1214.152646 2083.535667 921.1127604 1334.372731 909.9432545 1073.886783 0.566688082 1.01068644 0.540559838 0.970389161 1.130615131 1.940181869 0.85773731 1.242563696 0.847336301 1 10.06862619 -5.769137767 3.094991914 0.792759658 1.323335249 0.402790207 0.289367575 0.191919416 3.795712219 0.044095858 0.089218563 1.70E-06 5.769137767 0.53057559 ASAPS(ph)PNAQVACDHCLK ddPTM_HeLa_SAHA_4h_R1 4 ASAPSPNAQVACDHCLK 17 0 A0A3B3IUA7;Q14258 A0A3B3IUA7 TRIM25 E3 ubiquitin/ISG15 ligase TRIM25 1 0 AS(0.009)APS(0.991)PNAQVACDHCLK;AS(0.003)APS(0.997)PNAQVACDHCLK;AS(0.006)APS(0.994)PNAQVACDHCLK;AS(0.001)APS(0.999)PNAQVACDHCLK ;;; 154.42 2.62E-05 141957200 9225.9 8201.4 8636.1 8263.79 10056.6 10258.1 10028.8 10451.1 8319.3 8494.5 TRUE FALSE FALSE 10196.32249 8467.130741 9812.982733 8423.747605 9286.065481 9384.05217 8900.33303 10183.776 8261.405314 8860.739466 1.150730425 0.955578343 1.107467697 0.950682236 1.048001187 1.05905971 1.004468427 1.14931446 0.932360707 1 13.11321139 -7.264692063 24.9919787 1.071178253 1.038207519 0 0.079977649 822.4779222 6319443.383 0.012719675 0.014842812 5.44E-08 7.264692063 -0.032970734 ASAS(ph)PDRIPSLPQETVDQEPK ddPTM_HeLa_SAHA_4h_R1 4 ASASPDRIPSLPQETVDQEPK 21 1 A0A494C1R1;A0A2R8Y5U1;Q76L82;Q8IXJ9 A0A494C1R1 ASXH1;ASXL1 Putative Polycomb group protein ASXL1 1 0 AS(0.012)AS(0.988)PDRIPSLPQETVDQEPK;AS(0.063)AS(0.937)PDRIPSLPQETVDQEPK;AS(0.114)AS(0.878)PDRIPS(0.003)LPQET(0.005)VDQEPK;AS(0.237)AS(0.752)PDRIPS(0.011)LPQETVDQEPK ;;; 126.93 9.11E-06 39421200 5457.43 5424.36 4131.75 4781.87 5353.56 5873.2 5499.57 5127.83 6593 6054.43 TRUE FALSE FALSE 6031.467527 5600.112823 4694.803373 4874.430009 4943.371389 5372.770318 4880.74391 4996.667534 6547.118776 6315.466107 0.955031256 0.886729931 0.743381928 0.771824269 0.782740546 0.850732191 0.772824021 0.791179534 1.036680217 1 12.6246735 -7.07948477 2.394482409 0.980262469 0.787248347 0.885241827 0.033929966 0.064363621 0.721144447 0.005429858 0.006876582 8.33E-08 7.07948477 -0.193014123 ASAS(ph)PGENDSGTGGEEPQR ddPTM_HeLa_SAHA_4h_R1 2 ASASPGENDSGTGGEEPQR 19 0 Q15911;Q15911-2 Q15911 ZFHX3 Zinc finger homeobox protein 3 1 0 AS(0.002)AS(0.998)PGENDSGTGGEEPQR;AS(0.029)AS(0.971)PGENDSGTGGEEPQR ; 227.64 2.10E-32 8374100 1471.79 1442.74 1170.27 1613.01 1305.5 1424.29 1366.31 1509.49 1515.33 1436.14 TRUE FALSE FALSE 1626.599625 1489.485723 1329.748301 1644.232141 1205.472872 1302.932479 1212.569203 1470.879432 1504.784695 1498.059024 1.085804764 0.994277061 0.887647469 1.097575005 0.804689837 0.869747092 0.809426854 0.981856795 1.00448959 1 10.54887875 -6.080809574 1.059175313 1.036508831 0.866445267 0.326987282 0.08193221 0.350759277 0.775787679 0.013783281 0.032258595 8.30E-07 6.080809574 -0.170063564 ASAS(ph)PSTSSTSSRPK ddPTM_HeLa_SAHA_4h_R1 2 ASASPSTSSTSSRPK 15 1 J3KP75;F6TH74;O75167-5;O75167-2;O75167;O75167-4;F5H858 J3KP75 PHACTR2 Phosphatase and actin regulator;Phosphatase and actin regulator 2 1 0 AS(0.006)AS(0.981)PS(0.011)T(0.002)SSTSSRPK;AS(0.006)AS(0.99)PS(0.002)T(0.002)SSTSSRPK ; 132.24 9.07E-05 29380000 1206.59 1265.96 1113 1142.55 1353.01 1608.91 1282.1 1098.769 1664.82 1360.7 TRUE FALSE FALSE 1333.504672 1306.977935 1264.673844 1164.665707 1249.342666 1471.821817 1137.834734 1070.66408 1653.234382 1419.366436 0.939506979 0.920817839 0.891012928 0.820553226 0.880211504 1.036956898 0.801649739 0.754325347 1.164769252 1 10.47103138 -1 0.112290581 1.052556037 0.318414886 0.46217639 0.084934382 74.68701231 0.585234468 0.37681978 8.549042821 0.1 1 -0.734141151 ASASGSGAQVGGPISSGS(ph)SASSVTVTR ddPTM_HeLa_SAHA_4h_R1 2 ASASGSGAQVGGPISSGSSASSVTVTR 27 0 P02545;P02545-3;P02545-5;P02545-4;A0A0C4DGC5 P02545 LMNA Prelamin-A/C;Lamin-A/C 1 0 ASASGSGAQVGGPIS(0.035)S(0.256)GS(0.339)S(0.339)AS(0.022)S(0.007)VT(0.001)VTR;ASASGSGAQVGGPIS(0.001)S(0.001)GS(0.406)S(0.406)AS(0.131)S(0.043)VT(0.01)VT(0.001)R ; 162.49 4.71E-11 12690700 1448.89 1840.26 1509.07 1782.92 1697.81 1945.78 2024.82 2039.33 1704.95 1544.81 TRUE FALSE FALSE 1601.290898 1899.885631 1714.718201 1817.430995 1567.724165 1779.988597 1796.981925 1987.166892 1693.085114 1611.414319 0.993717679 1.179017469 1.064107586 1.127848358 0.972887076 1.104612623 1.11515822 1.23318185 1.050682679 1 10.65411177 -1 0.203463474 0.983444091 1.968991916 0.296694428 0.06691248 35.10459227 0.40598721 0.060089702 11.17700388 0.1 1 0.985547825 ASASPS(ph)TSSTSSRPK ddPTM_HeLa_SAHA_4h_R1 1 ASASPSTSSTSSRPK 15 1 J3KP75;F6TH74;O75167-5;O75167-2;O75167;O75167-4;F5H858 J3KP75 PHACTR2 Phosphatase and actin regulator;Phosphatase and actin regulator 2 1 0 ASAS(0.381)PS(0.596)T(0.019)SS(0.001)T(0.001)SSRPK 118.52 0.0039976 965390 357.89 403.62 364.12 299.74 346.78 456.01 470.66 369.37 368.11 401.22 TRUE FALSE FALSE 395.5345123 416.6975528 413.7403773 305.5419011 320.2097913 417.1553826 417.7000981 359.9220502 365.5482925 418.5185577 0.945082374 0.995648927 0.98858311 0.730055802 0.76510297 0.996742856 0.998044389 0.859990659 0.873433892 1 8.709147785 ASASRPQPAPADGADPPPAEEPEARPDGEGS(ph)PGK ddPTM_HeLa_SAHA_4h_R1 2 ASASRPQPAPADGADPPPAEEPEARPDGEGSPGK 34 2 P11274-2;P11274 P11274-2 BCR Breakpoint cluster region protein 1 0 ASASRPQPAPADGADPPPAEEPEARPDGEGS(1)PGK;ASASRPQPAPADGADPPPAEEPEARPDGEGS(1)PGK ; 75.661 3.48E-06 15318000 3086.3 3457.7 2739.8 3362.7 3791.1 3814.3 3464.3 3566.7 4029.3 3220.1 TRUE FALSE FALSE 3410.931194 3569.731749 3113.165676 3427.789921 3500.626737 3489.300181 3074.487846 3475.468979 4001.259773 3358.93427 1.015480185 1.06275725 0.926831377 1.020499255 1.042183757 1.038811689 0.915316466 1.034693953 1.191228959 1 11.71378785 -4.809908886 24.99986789 1.010788646 0.975002531 0.011591169 0.071719899 163.1784792 84164.66297 0.00553228 0.016596912 1.55E-05 4.809908886 -0.035786115 ASATCSSATAAASSGLEEWTS(ph)RSPR ddPTM_HeLa_SAHA_4h_R1 1 ASATCSSATAAASSGLEEWTSRSPR 25 1 A0A087WXV6;Q96G74-2;Q96G74-3;Q96G74-5;Q96G74;H7BZQ3;Q96G74-4 A0A087WXV6 OTUD5 OTU domain-containing protein 5 1 0 ASATCSSAT(0.001)AAAS(0.185)S(0.185)GLEEWT(0.069)S(0.28)RS(0.28)PR 50.036 0.011558 4153600 484.04 536.17 424.54 367.17 463.18 496.97 590.79 457.71 547.95 365.53 TRUE FALSE FALSE 534.9535481 553.5422598 482.3941003 374.2771063 427.6912485 454.6253601 524.3127543 446.002441 544.1367713 381.2897872 1.40301043 1.451762618 1.265163969 0.981608002 1.121696051 1.192335529 1.375103063 1.169720396 1.427095059 1 8.574744079 -9.551702879 1.357061691 1.001695958 1.262594387 0 0.187564452 0.4390592 1.463519818 0.102850713 0.025018021 2.81E-10 9.551702879 0.260898428 ASAVSELS(ph)PR ddPTM_HeLa_SAHA_4h_R1 6 ASAVSELSPR 10 0 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 ASAVSELS(1)PR;ASAVSELS(1)PR;ASAVSELS(1)PR;ASAVSELS(1)PR;ASAVSELS(1)PR;ASAVSELS(1)PR ;;;;; 132.03 0.0015007 5349582000 14321.5 13466.9 13597.21 14764.7 15078.6 17158.7 15284.7 14974.1 14520.4 13985 TRUE FALSE FALSE 15827.90108 13903.2364 15450.16697 15050.49212 13923.28093 15696.68223 13564.82533 14591.0842 14419.35135 14587.96179 1.084997432 0.953062299 1.059103882 1.031706302 0.954436345 1.076002423 0.929864331 1.00021404 0.98844181 1 13.83249071 -5.170255102 0.692772761 1.035632052 0.968449768 0 0.051425269 1.908625753 1.215259714 0.009330015 0.079490167 6.76E-06 5.170255102 -0.067182284 ASAYVFAS(ph)PGCK ddPTM_HeLa_SAHA_4h_R1 1 ASAYVFASPGCK 12 0 A6NF51;O95861-3;O95861-4;O95861;O95861-2 A6NF51 BPNT1 "3(2),5-bisphosphate nucleotidase 1" 1 0 ASAYVFAS(1)PGCK 96.464 0.0086373 2540300 962.67 1051.9 919.77 822.8 994.33 1065.7 870.06 1000.8 1079.3 1067.5 TRUE FALSE FALSE 1063.928047 1085.98225 1045.111466 838.7264838 918.1446502 974.8963645 772.1585589 975.2009851 1071.789063 1113.525149 0.955459379 0.975265131 0.938561169 0.75321737 0.824538764 0.875504577 0.69343612 0.875778141 0.962518955 1 10.12091843 -6.400113043 4.492512142 0.977332185 0.803863233 0.71013944 0.051950195 0.086456484 2.797574872 0.007582067 0.011688838 3.98E-07 6.400113043 -0.173468953 ASCGPPS(ph)LPDPTFLPDAER ddPTM_HeLa_SAHA_4h_R1 2 ASCGPPSLPDPTFLPDAER 19 0 J3KQR7;Q9Y4F5-3;Q9Y4F5-2;Q9Y4F5 J3KQR7 CEP170B Centrosomal protein of 170 kDa protein B 1 0 ASCGPPS(0.995)LPDPT(0.005)FLPDAER;ASCGPPS(0.999)LPDPT(0.001)FLPDAER ; 140.28 9.26E-05 5009500 831.06 737.02 879.64 1050.57 950.22 868.4 1044.57 962.35 824.32 980.44 TRUE FALSE FALSE 918.4747038 760.8999316 999.5127582 1070.905301 877.4143489 794.4074345 927.0322344 937.7344805 818.58349 1022.711567 0.898077947 0.74400247 0.977316372 1.047123487 0.857929428 0.776765865 0.906445439 0.916910018 0.800405038 1 9.998183607 -8.921161088 0.867716181 0.997152437 0.890927056 0 0.102984358 0.767155115 1.101456386 0.047907408 0.01728993 1.20E-09 8.921161088 -0.106225381 ASCTSSSSSTNYS(ph)IQNTPSK ddPTM_HeLa_SAHA_4h_R1 1 ASCTSSSSSTNYSIQNTPSK 20 0 O15063 O15063 KIAA0355 Uncharacterized protein KIAA0355 1 0 ASCTSSSSSTNY(0.049)S(0.95)IQNT(0.001)PSK 81.01 0.0022679 8216300 0 0 0 0 0 0 0 0 0 55.485 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 57.87722989 0 0 0 0 0 0 0 0 0 1 5.854923968 -9.157829429 0.677150941 1.083625666 2.50E-23 0 0.307667284 0.066591669 0.049088893 0.041658111 0.0090835 6.95E-10 9.157829429 -1.083625666 ASDPAS(ph)PHIGR ddPTM_HeLa_SAHA_4h_R1 2 ASDPASPHIGR 11 0 O95425-3;O95425-2;O95425-4;O95425;A0A6I8PIX7 O95425-3 SVIL Supervillin 1 0 ASDPAS(1)PHIGR;ASDPAS(1)PHIGR ; 112.84 0.0020572 18162000 4762.5 4658.9 4546.4 5090.3 5603.9 6596.8 5596.2 5327.9 5757.4 5036.4 TRUE FALSE FALSE 5263.441601 4809.851417 5165.959715 5188.830117 5174.530393 6034.715527 4966.500848 5191.620033 5717.333785 5253.543852 1.001884014 0.915544165 0.983328561 0.987681889 0.98495997 1.148694233 0.945362024 0.988212943 1.088281348 1 12.35907523 ASDPQS(ph)PPQVSR ddPTM_HeLa_SAHA_4h_R1 2 ASDPQSPPQVSR 12 0 Q7L7X3;Q7L7X3-3;Q7L7X3-2 Q7L7X3 TAOK1 Serine/threonine-protein kinase TAO1 1 0 ASDPQS(1)PPQVSR;AS(0.002)DPQS(0.998)PPQVS(0.001)R ; 174.24 5.23E-05 59047000 3563.81 3852.64 3581.31 2954.56 4432.3 4293.9 4221.13 3939 4076.5 4513.87 TRUE FALSE FALSE 3938.667887 3977.468064 4069.352276 3011.749781 4092.698132 3928.035563 3746.157343 3838.246084 4048.131305 4708.485026 0.836504282 0.844744762 0.864259364 0.639643062 0.869217616 0.834246162 0.795618404 0.815176445 0.859752401 1 12.20104723 -8.952384644 0.473686506 1.030280606 0.799852048 0.213720218 0.074221648 0.750286694 0.270863206 0.080420575 0.017800352 1.12E-09 8.952384644 -0.230428558 ASDSSS(ph)PSCSSGPR ddPTM_HeLa_SAHA_4h_R1 2 ASDSSSPSCSSGPR 14 0 H0YM74;Q92610 H0YM74 ZNF592 Zinc finger protein 592 1 0 AS(0.129)DS(0.006)S(0.065)S(0.792)PS(0.006)CS(0.003)SGPR;AS(0.034)DS(0.001)S(0.037)S(0.518)PS(0.008)CS(0.074)S(0.327)GPR ; 230.69 2.30E-24 6865700 2146.3 2406.45 1693.43 2679.94 2353.3 2806.93 2386.9 2388.3 2868.3 2621.5 TRUE FALSE FALSE 2372.057682 2484.420559 1924.201821 2731.814114 2172.990662 2567.763773 2118.31973 2327.210744 2848.339267 2734.525694 0.867447575 0.90853802 0.703669315 0.999008391 0.794649934 0.939016144 0.774657095 0.851047313 1.041620956 1 11.4170749 -9.092216009 0.50655781 1.025068748 0.84819285 0.397250048 0.080987405 1.180317513 0.457089375 0.102100002 0.019723516 8.09E-10 9.092216009 -0.176875898 ASEAAS(ph)PLPDSPGDK ddPTM_HeLa_SAHA_4h_R1 2 ASEAASPLPDSPGDK 15 0 Q68CZ2;Q68CZ2-2 Q68CZ2 TNS3 Tensin-3 1 0 AS(0.003)EAAS(0.997)PLPDSPGDK;AS(0.079)EAAS(0.921)PLPDSPGDK ; 211.75 1.45E-17 13694400 4544.4 6039.3 4460.8 4065.9 5683.3 5497 5526.2 3601 5753.3 4677.3 TRUE FALSE FALSE 5022.400842 6234.977283 5068.694593 4144.601374 5247.846782 5028.624675 4904.377432 3508.891634 5713.262317 4878.961293 1.029399608 1.277931287 1.038888052 0.849484373 1.075607382 1.030675255 1.005209334 0.71918825 1.170999722 1 12.25235832 -6.447327462 24.9969377 1.039996062 0.952017748 0.228284362 0.128257754 230.514683 76267.31212 0.018863832 0.028814974 3.57E-07 6.447327462 -0.087978314 ASEAAS(ph)PLPDSPGDKLVIVK ddPTM_HeLa_SAHA_4h_R1 1 ASEAASPLPDSPGDKLVIVK 20 1 Q68CZ2;Q68CZ2-2 Q68CZ2 TNS3 Tensin-3 1 0 AS(0.066)EAAS(0.752)PLPDS(0.182)PGDKLVIVK 53.444 0.018085 6494200 1485.5 1657.7 1871.4 1546.4 1788.1 1948.2 1990.3 1714.8 1370.7 1633.5 TRUE FALSE FALSE 1641.751706 1711.410568 2126.424646 1576.332808 1651.096164 1782.2024 1766.346206 1670.937899 1361.161187 1703.928179 0.963509921 1.004391258 1.247954387 0.925116931 0.96899399 1.045937512 1.036631841 0.980638691 0.798837183 1 10.73464881 -6.993798703 24.99809885 0.982830774 1.03520189 0.125283347 0.099690506 320.7952568 1293150.845 0.012831464 0.016839503 1.01E-07 6.993798703 0.052371116 ASEDTTS(ph)GSPPK ddPTM_HeLa_SAHA_4h_R1 1 ASEDTTSGSPPK 12 0 H0YER7;G3V1C3;Q9BZZ5-1;Q9BZZ5-5;Q9BZZ5-2;Q9BZZ5-6;Q9BZZ5 H0YER7 API5 Apoptosis inhibitor 5 1 0 ASEDT(0.153)T(0.153)S(0.347)GS(0.347)PPK 164.13 0.00012826 65209000 3072.2 2453.8 2417.9 2890.1 3227.7 3495 3260 3513.1 3007.5 3114.9 TRUE FALSE FALSE 3395.348092 2533.30473 2747.39882 2946.042065 2980.394323 3197.206338 2893.17622 3423.239989 2986.570563 3249.198583 1.044980171 0.779670637 0.84556199 0.906698064 0.917270597 0.98399844 0.890427638 1.05356441 0.919171447 1 11.6658682 -7.333123198 24.99996361 1.021240699 0.910595345 0.134097634 0.07687537 121.3023346 42304.10773 0.011973269 0.013691954 4.64E-08 7.333123198 -0.110645354 ASEDTTSGS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 5 ASEDTTSGSPPK 12 0 H0YER7;G3V1C3;Q9BZZ5-1;Q9BZZ5-5;Q9BZZ5-2;Q9BZZ5-6;Q9BZZ5 H0YER7 API5 Apoptosis inhibitor 5 1 0 ASEDTT(0.01)S(0.025)GS(0.964)PPK;ASEDTTS(0.001)GS(0.999)PPK;ASEDTTS(0.003)GS(0.997)PPK;ASEDTT(0.001)S(0.001)GS(0.999)PPK;ASEDTTS(0.001)GS(0.998)PPK ;;;; 216.68 1.22E-15 142230100 11132.2 10643.7 8761.9 11521.7 12067.4 13540.9 11831.7 12849.5 12415.8 11660.9 TRUE FALSE FALSE 12303.13587 10988.56286 9955.926102 11744.71916 11142.79842 12387.13914 10500.36598 12520.8284 12329.39744 12163.65847 1.011466732 0.903392914 0.818497669 0.965558117 0.916072944 1.018372817 0.863257219 1.029363693 1.01362575 1 13.57028959 -7.270151898 24.19305201 1.005414848 0.927896341 0.254526925 0.060761738 384.4670823 1067592.375 0.009692918 0.011175023 5.37E-08 7.270151898 -0.077518507 ASEDTTSGS(ph)PPKK ddPTM_HeLa_SAHA_4h_R1 3 ASEDTTSGSPPKK 13 1 H0YER7;G3V1C3;Q9BZZ5-1;Q9BZZ5-5;Q9BZZ5-2;Q9BZZ5-6;Q9BZZ5 H0YER7 API5 Apoptosis inhibitor 5 1 0 ASEDT(0.069)T(0.031)S(0.099)GS(0.801)PPKK;ASEDT(0.004)T(0.001)S(0.008)GS(0.987)PPKK;ASEDT(0.01)T(0.008)S(0.029)GS(0.953)PPKK ;; 161.04 0.00014891 1464809800 5252.54 6730.06 4231 6694.3 5656.9 7510.3 7279.7 6861.6 6326.5 6864.2 TRUE FALSE FALSE 5805.026257 6948.11836 4807.578646 6823.877857 5223.469544 6870.380188 6460.568997 6686.090207 6282.473371 7160.149255 0.810740957 0.970387364 0.671435535 0.9530357 0.729519645 0.959530304 0.902295297 0.933792016 0.877422125 1 12.80577395 -9.446565613 1.118844774 1.001811108 0.860725818 0.018895849 0.103203082 0.582721299 1.277447019 0.065422694 0.015447456 3.58E-10 9.446565613 -0.141085289 ASEDTTSGSPPKKSS(ph)AGPK ddPTM_HeLa_SAHA_4h_R1 1 ASEDTTSGSPPKKSSAGPK 19 2 H0YER7;G3V1C3;Q9BZZ5-1;Q9BZZ5-5;Q9BZZ5-2;Q9BZZ5-6;Q9BZZ5 H0YER7 API5 Apoptosis inhibitor 5 1 0 ASEDTT(0.001)S(0.001)GS(0.003)PPKKS(0.414)S(0.58)AGPK 46.121 0.019578 7812100 7148.7 1930.4 5776.8 4465.9 3845 3047.6 4979.8 5949.7 1426.9 3673.9 TRUE FALSE FALSE 7900.633065 1992.946227 6564.03222 4552.343952 3550.396931 2787.927335 4419.459798 5797.515289 1416.970087 3832.299809 2.061590549 0.520039226 1.712818033 1.18788826 0.926440286 0.727481532 1.15321348 1.512803167 0.369744059 1 11.90399472 -6.013922943 21.04404743 1.439738067 1.059677204 0 0.546585226 142.5805264 215510.3636 0.076574448 0.130767659 9.68E-07 6.013922943 -0.380060864 ASEENLLSSSSVPSADRDS(ph)SPTTNSK ddPTM_HeLa_SAHA_4h_R1 1 ASEENLLSSSSVPSADRDSSPTTNSK 26 1 B1AKL4;Q9NRA8;Q9NRA8-3;Q9NRA8-2 B1AKL4 EIF4ENIF1 Eukaryotic translation initiation factor 4E transporter 1 0 ASEENLLSSSSVPS(0.001)ADRDS(0.41)S(0.41)PT(0.132)T(0.043)NS(0.005)K 88.244 2.01E-05 54199000 2115.9 2302.7 1794.2 2320.4 2419.8 3172.1 2150.3 2874.3 3152.7 2680.5 TRUE FALSE FALSE 2338.46007 2377.308991 2038.704232 2365.314697 2234.395447 2901.819234 1908.342585 2800.779568 3130.760104 2796.069473 0.836338329 0.850232447 0.729132181 0.845942749 0.799120146 1.037820863 0.682509002 1.001684541 1.119700399 1 11.44918449 -9.116734377 0.835576568 1.002064522 0.843130454 0.340304565 0.109808017 0.660485756 0.819258557 0.065533966 0.018277207 7.64E-10 9.116734377 -0.158934067 ASEGLDACASPT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 ASEGLDACASPTK 13 0 Q92618 Q92618 ZNF516 Zinc finger protein 516 1 0 ASEGLDACAS(0.332)PT(0.668)K 108.17 0.0023321 0 678.41 711.72 627.9 875.05 959.88 865.68 962.75 971.07 630.47 752.54 TRUE FALSE FALSE 749.7682765 734.780195 713.466942 891.9878581 886.3342018 791.9191938 854.4188362 946.2314355 626.0825079 784.9856822 0.955136244 0.936042799 0.908891663 1.13631099 1.129108749 1.00883266 1.088451491 1.205412349 0.797571882 1 9.61652253 -6.253296307 24.99912812 0.969620422 1.107263427 0.590187933 0.075196776 316.3240923 971110.909 0.008179458 0.013414593 5.58E-07 6.253296307 0.137643005 ASEIDQVVPAAQS(ph)SPINCEK ddPTM_HeLa_SAHA_4h_R1 2 ASEIDQVVPAAQSSPINCEK 20 0 O94782;C9JWX4;C9JC88 O94782 USP1 Ubiquitin carboxyl-terminal hydrolase 1 1 0 ASEIDQVVPAAQS(0.565)S(0.435)PINCEK;AS(0.002)EIDQVVPAAQS(0.499)S(0.499)PINCEK ; 93.966 0.00085415 11162600 2735.5 3524.7 2394.8 2987.93 3018.3 3715.4 3594.5 3056.6 4034 3307.1 TRUE FALSE FALSE 3023.232441 3638.902593 2721.150872 3045.765706 2787.038506 3398.827018 3190.0374 2978.416598 4005.927066 3449.685266 0.876379208 1.054850606 0.788811344 0.882911185 0.807910952 0.985257134 0.924732883 0.863387923 1.161244217 1 11.75224903 -9.718275933 0.558770725 1.037489976 0.894655883 0.335565084 0.089740254 2.355503797 0.775579249 0.191950707 0.016487676 1.91E-10 9.718275933 -0.142834092 ASEIDQVVPAAQS(ph)SPINCEKR ddPTM_HeLa_SAHA_4h_R1 1 ASEIDQVVPAAQSSPINCEKR 21 1 O94782;C9JWX4;C9JC88 O94782 USP1 Ubiquitin carboxyl-terminal hydrolase 1 1 0 ASEIDQVVPAAQS(0.608)S(0.392)PINCEKR 93.388 0.00021591 35558000 1420.6 784.44 1115.1 1095.8 1098.3 1360.2 1402.4 1234.2 788.31 1132.1 TRUE FALSE FALSE 1570.025226 809.8563707 1267.060021 1117.010794 1014.148491 1244.303308 1244.598261 1202.630951 782.8240865 1180.910371 1.329504139 0.685789871 1.072951895 0.945889562 0.85878532 1.053681412 1.05393118 1.018393081 0.662898816 1 10.20568376 -7.28248932 24.99569872 1.155599165 0.963596362 0 0.204186212 844.2723891 1002526.636 0.026907851 0.030787124 5.22E-08 7.28248932 -0.192002804 ASEIDQVVPAAQSS(ph)PINCEKR ddPTM_HeLa_SAHA_4h_R1 1 ASEIDQVVPAAQSSPINCEKR 21 1 O94782;C9JWX4;C9JC88 O94782 USP1 Ubiquitin carboxyl-terminal hydrolase 1 1 0 ASEIDQVVPAAQS(0.057)S(0.943)PINCEKR 152.57 1.63E-06 33480000 5757.5 4460.4 5685.2 4859.1 4818 4849.2 5706.6 6495.3 4096.6 5042.5 TRUE FALSE FALSE 6363.100266 4604.919887 6459.949449 4953.154907 4448.845881 4436.020879 5064.478349 6329.159631 4068.091427 5259.906852 1.209736302 0.875475558 1.228149021 0.941681107 0.845803168 0.843364912 0.962845634 1.203283596 0.773415108 1 12.36082154 -6.203477314 24.68156204 1.090036488 0.946830359 0 0.165758273 299.2986157 127447.8438 0.020993337 0.0348135 6.26E-07 6.203477314 -0.143206128 ASEIGEK(ac)YR ddPTM_HeLa_SAHA_4h_R1 2 ASEIGEKYR 9 1 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 0 1 ; ASEIGEK(1)YR;ASEIGEK(1)YR 137.13 0.00053501 10842600 2230.69 2490.4 2476.8 2968.8 3245.5 3396 3275.8 3204.9 1646.91 1907.35 FALSE TRUE FALSE 2465.324209 2571.090594 2814.325405 3026.265417 2996.830491 3106.641695 2907.198363 3122.923299 1635.449019 1989.585193 1.239114675 1.292274693 1.414528725 1.521053448 1.506258944 1.561451958 1.461208283 1.569635374 0.822005021 1 10.95825196 -7.397114301 0.436118305 1.004186062 1.570399172 0.898579015 0.076617571 0.13160114 0.065450667 0.023859007 0.02469157 4.01E-08 7.397114301 0.56621311 ASEK(ac)ILQVR ddPTM_HeLa_SAHA_4h_R1 2 ASEKILQVR 9 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 0 1 ; ASEK(1)ILQVR;ASEK(1)ILQVR 117.31 0.003475 6332100 2474 2532.7 3181.9 3247.1 3128.6 2215.9 3385.9 2123.2 1650.58 1760.85 FALSE TRUE FALSE 2734.226671 2614.761142 3615.512761 3309.952316 2888.887344 2027.092854 3004.909621 2068.891618 1639.093479 1836.768861 1.48860683 1.423565696 1.96840922 1.802051628 1.572809408 1.103618913 1.635975917 1.126375595 0.892378739 1 10.84295437 -8.894520975 0.779091431 1.005211761 1.529700754 0.43036102 0.256952608 0.542003396 0.61782848 0.160886838 0.054365473 1.27E-09 8.894520975 0.524488993 ASEK(ac)VEPR ddPTM_HeLa_SAHA_4h_R1 1 ASEKVEPR 8 1 A0A088AWL3;O75376;O75376-2;O75376-3 A0A088AWL3 NCOR1 Nuclear receptor corepressor 1 0 1 ASEK(1)VEPR 80.688 0.016071 0 300.51 399.92 315.34 395.1 419.55 411.99 507.89 538.65 342.1 359.05 FALSE TRUE FALSE 332.1190206 412.8776704 358.312893 402.7477318 387.4041696 376.8861342 450.7408805 524.872113 339.7192982 374.5304026 0.886761177 1.102387597 0.956699084 1.075340557 1.034373089 1.006289827 1.203482754 1.401413902 0.907053996 1 8.548939025 -1 0.551222523 0.959728339 21.3436449 0.802311722 0.064482524 38.43399633 0.319860625 0.012770494 932.0501339 0.1 1 20.38391657 ASEPLLS(ph)PPPFGESR ddPTM_HeLa_SAHA_4h_R1 2 ASEPLLSPPPFGESR 15 0 O14686;O14686-3 O14686 KMT2D Histone-lysine N-methyltransferase 2D 1 0 ASEPLLS(1)PPPFGESR;ASEPLLS(1)PPPFGESR ; 247.17 8.69E-34 32707000 2537.36 3118.68 2505.58 2434.76 2778.59 3223.26 3071.65 2328.85 2877.95 2953.74 TRUE FALSE FALSE 2804.251167 3219.727278 2847.027394 2481.888301 2565.695034 2948.620114 2726.019858 2269.281389 2857.922112 3081.090187 0.910149005 1.044996116 0.924032476 0.80552277 0.83272312 0.957005455 0.884758216 0.736518976 0.92756847 1 11.5892252 -6.485788572 7.588918519 0.963962005 0.852405832 0.472914704 0.063321074 0.200338506 35.5365383 0.010171738 0.015394106 3.27E-07 6.485788572 -0.111556173 ASES(ph)PARGPSGSPR ddPTM_HeLa_SAHA_4h_R1 1 ASESPARGPSGSPR 14 1 O43237;O43237-2;J3KRZ2 O43237 DYNC1LI2 Cytoplasmic dynein 1 light intermediate chain 2 1 0 ASES(0.984)PARGPS(0.005)GS(0.01)PR 125.36 0.0030918 16786000 722.97 742.34 807.4 834.69 662.61 720.19 806.3 830.06 620.92 834.12 TRUE FALSE FALSE 799.0153017 766.3923031 917.4282672 850.8466319 611.8409649 658.8257603 715.5730019 808.8282671 616.5989672 870.0829953 0.918320788 0.880826665 1.054414662 0.977891347 0.703198394 0.757198754 0.822419247 0.929598983 0.70866684 1 9.765009213 -5.78110717 24.99967118 0.962591967 0.801204575 0.185618769 0.105671779 137.3058838 174528.8713 0.010695063 0.01940585 1.66E-06 5.78110717 -0.161387391 ASES(ph)SSEEKDDYEIFVK ddPTM_HeLa_SAHA_4h_R1 1 ASESSSEEKDDYEIFVK 17 1 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;H7C1M2 P18583-10 SON Protein SON 1 0 AS(0.026)ES(0.694)S(0.04)S(0.231)EEKDDY(0.009)EIFVK 59.281 0.020011 24370000 529.57 696.41 667.49 882.79 630.9 962.1 1027.1 845.77 752.87 703.69 TRUE FALSE FALSE 585.2726024 718.9741409 758.4520611 899.877677 582.5605783 880.1236674 911.5280048 824.1364281 747.6307164 734.0295197 0.797342051 0.97948941 1.033271879 1.225942081 0.793647343 1.199030344 1.241813824 1.122756519 1.018529496 1 9.519694273 -6.751000975 2.643472247 0.904404454 1.11085019 0.24329488 0.132716769 0.244587606 3.513707763 0.022650509 0.032001579 1.77E-07 6.751000975 0.206445736 ASESSKPWPDATYGTGS(ph)ASR ddPTM_HeLa_SAHA_4h_R1 2 ASESSKPWPDATYGTGSASR 20 1 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 ASESSKPWPDAT(0.001)YGT(0.013)GS(0.825)AS(0.16)R;ASESSKPWPDATYGT(0.003)GS(0.942)AS(0.055)R ; 160.15 1.48E-06 74310000 5007.7 4497.3 4545.9 5157.4 5998.6 6397.8 5257.3 5309.7 5583 4929.2 TRUE FALSE FALSE 5534.432862 4643.015471 5165.391578 5257.228935 5538.988564 5852.671447 4665.734768 5173.885562 5544.147448 5141.721935 1.076377317 0.903007889 1.004603447 1.022464653 1.077263344 1.138270704 0.907426505 1.006255419 1.078266682 1 12.32803588 ASESSS(ph)EEKDDYEIFVK ddPTM_HeLa_SAHA_4h_R1 1 ASESSSEEKDDYEIFVK 17 1 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;H7C1M2 P18583-10 SON Protein SON 1 0 AS(0.002)ES(0.194)S(0.039)S(0.758)EEKDDY(0.007)EIFVK 66.536 0.013511 29486000 1400 1445.4 1445.6 1553.1 1355.9 1527.4 1520.2 1294.6 1626.1 1500.1 TRUE FALSE FALSE 1547.258423 1492.231908 1642.59884 1583.162496 1252.011235 1397.256927 1349.143095 1261.486007 1614.783838 1564.776652 0.988804646 0.953638915 1.049733735 1.01174982 0.800121368 0.892943364 0.862195313 0.806176399 1.031958034 1 10.61174103 -5.768577185 24.99950859 0.996817169 0.845674853 0.840898545 0.03512723 44.77282209 156813.212 0.004700894 0.00865088 1.70E-06 5.768577185 -0.151142315 ASET(ph)PPPVAQPKPEAPHPGLETTLQER ddPTM_HeLa_SAHA_4h_R1 1 ASETPPPVAQPKPEAPHPGLETTLQER 27 1 Q6P1N0;Q6P1N0-2 Q6P1N0 CC2D1A Coiled-coil and C2 domain-containing protein 1A 1 0 AS(0.102)ET(0.898)PPPVAQPKPEAPHPGLETTLQER 87.704 9.13E-06 19460000 672.92 921.69 678.4 1129.2 1021.2 1025.6 886.64 1067.7 1283.7 967.74 TRUE FALSE FALSE 743.7008131 951.5533607 770.848819 1151.057299 942.9558766 938.2131101 786.8729337 1040.38978 1274.766627 1009.464007 0.73672841 0.942632282 0.763621896 1.140265815 0.934115402 0.9294171 0.77949578 1.030635835 1.262815334 1 9.979373757 ASGDPGASGMS(ph)PR ddPTM_HeLa_SAHA_4h_R1 7 ASGDPGASGMSPR 13 0 Q8NDT2 Q8NDT2 RBM15B Putative RNA-binding protein 15B 1 0 ASGDPGAS(0.002)GMS(0.998)PR;ASGDPGASGMS(1)PR;ASGDPGASGMS(1)PR;ASGDPGAS(0.001)GMS(0.999)PR;ASGDPGASGMS(1)PR;ASGDPGASGMS(1)PR;ASGDPGASGMS(1)PR ;;;;;; 219.84 2.39E-16 241679880 23588.67 24280.91 20651.69 22833.76 24751 27978.28 25595.94 23399.74 26235.1 23415.64 TRUE FALSE FALSE 26069.83454 25067.62742 23465.99476 23275.74044 22854.58373 25594.37314 22715.81747 22801.20853 26052.5278 24425.20283 1.06733339 1.026301709 0.960728757 0.952939495 0.935696783 1.047867374 0.93001551 0.933511533 1.066624829 1 14.57608292 -6.778019026 5.943014558 1.032458782 0.961146132 0.5298039 0.036633968 0.118899153 13.96624849 0.006321724 0.008543768 1.67E-07 6.778019026 -0.07131265 ASGGAQS(ph)PLR ddPTM_HeLa_SAHA_4h_R1 3 ASGGAQSPLR 10 0 H7BZV9;C9JU48;D3YTC9;Q6NXT1 H7BZV9 ANKRD54 Ankyrin repeat domain-containing protein 54 1 0 ASGGAQS(1)PLR;ASGGAQS(1)PLR;ASGGAQS(1)PLR ;; 97.957 0.012015 93161000 7566.8 9417.4 8281 9482.9 9933.3 9446.8 10974 6839.2 4545.5 8947.9 TRUE FALSE FALSE 8362.710742 9722.529939 9409.491554 9666.455242 9172.2127 8641.879494 9739.176638 6664.263167 4513.867495 9333.687759 0.895970699 1.04166008 1.008121527 1.035652305 0.982699758 0.9258805 1.043443587 0.714001083 0.483610296 1 13.18823149 -4.251218069 24.82155567 0.970564333 0.714000926 0.111394213 0.161775091 647.0323123 1571227.448 0.008039369 0.147374502 5.61E-05 4.251218069 -0.256563407 ASGGQDGAASSAGAAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 ASGGQDGAASSAGAAKR 17 1 O60287 O60287 URB1 Nucleolar pre-ribosomal-associated protein 1 0 1 ; ASGGQDGAASSAGAAK(1)R;ASGGQDGAASSAGAAK(1)R 198.74 2.34E-25 574910 0 224.699 0 249.788 464.36 397.38 304.91 235.03 0 58.947 FALSE TRUE FALSE 0 231.979395 0 254.6230079 428.7808371 363.5209884 270.6007243 229.0182729 0 61.48849365 0 3.772728543 0 4.14098627 6.973350812 5.91201649 4.400835152 3.724571206 0 1 5.942244559 -6.14217749 4.323491152 0.77734035 5.270583822 0.705853851 1.324640561 0.092505344 2.861950736 0.202421917 0.342855009 7.21E-07 6.14217749 4.493243472 ASGNYATVISHNPETK ddPTM_HeLa_SAHA_4h_R1 2 ASGNYATVISHNPETK 16 0 E9PKZ0;P62917;G3V1A1 E9PKZ0 RPL8 60S ribosomal protein L8 0 0 ; ; 66.289 0.016427 3500600 822.57 1010.29 1362.16 1369.47 2605.9 3126.9 2390.7 1973.75 1072.09 1082.26 FALSE FALSE TRUE 909.0916867 1043.024059 1547.788071 1395.978072 2406.236505 2860.470529 2121.692144 1923.264333 1064.629238 1128.921525 0.805274473 0.923911925 1.371032474 1.236559 2.131447095 2.533808121 1.879397369 1.703629783 0.943049818 1 10.14072949 -6.030615163 1.666208672 0.920544997 2.085699285 0.791474048 0.253895919 0.115263103 0.634930627 0.041418622 0.08369114 9.32E-07 6.030615163 1.165154288 ASGNYATVISHNPETK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 ASGNYATVISHNPETKK 17 1 E9PKZ0;P62917;G3V1A1 E9PKZ0 RPL8 60S ribosomal protein L8 0 1 ASGNYATVISHNPETK(1)K 118.5 0.00040783 0 308.76 990.67 462.66 724.68 799.98 974.83 752.39 637.35 571.28 410.31 FALSE TRUE FALSE 341.2367934 1022.768358 525.7088954 738.7072293 738.6857052 891.7689998 667.729097 621.0475099 567.304416 428.0004721 0.797281348 2.38964306 1.228290457 1.725949567 1.725899277 2.083570131 1.560112992 1.451043983 1.325476145 1 8.741468578 -7.29047169 24.91874653 0.904271695 1.723744316 0.462708168 0.334297001 304.8341127 261641.6139 0.049210301 0.056279007 5.12E-08 7.29047169 0.819472621 ASGQAFELILS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 ASGQAFELILSPR 13 0 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 1 0 ASGQAFELILS(1)PR;ASGQAFELILS(1)PR;ASGQAFELILS(1)PR;ASGQAFELILS(1)PR ;;; 135.61 0.00054486 1538086000 6139.14 10003.7 7964.7 8211.1 8919.5 10372.9 10158.9 7997.6 8963.5 8799.22 TRUE FALSE FALSE 6784.882913 10327.82644 9050.087838 8370.037714 8236.089837 9489.070564 9015.793835 7793.032972 8901.122274 9178.597437 0.739206939 1.125207475 0.985998994 0.91190814 0.897314638 1.03382577 0.982262693 0.849043988 0.969769329 1 13.164058 -7.269034701 24.93512147 0.876847728 0.967999821 0.070606576 0.097269612 939.9063998 3085669.823 0.020039301 0.023151093 5.38E-08 7.269034701 0.091152093 ASGQAFELILSPR ddPTM_HeLa_SAHA_4h_R1 3 ASGQAFELILSPR 13 0 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 0 0 ;; ;; 161.25 1.04E-06 48141200 1056.5 1213.68 1049.78 1442.62 1128.95 1231.79 1442.43 787.48 1073.88 1039.83 FALSE FALSE TRUE 1167.627517 1253.004028 1192.838551 1470.543996 1042.450095 1126.834562 1280.12398 767.3374019 1066.406782 1084.66216 1.076489584 1.155202121 1.099732797 1.355762237 0.961082753 1.03888068 1.180205254 0.707443691 0.983169526 1 10.08303004 -4.250620686 24.36051029 1.072667843 0.707443389 0.508557396 0.112316135 729.1967831 1641890.893 0.015317136 0.295155852 5.62E-05 4.250620686 -0.365224454 ASGS(ph)ENEGDYNPGR ddPTM_HeLa_SAHA_4h_R1 2 ASGSENEGDYNPGR 14 0 Q02880-2;Q02880 Q02880-2 TOP2B DNA topoisomerase 2-beta 1 0 AS(0.085)GS(0.915)ENEGDYNPGR;AS(0.001)GS(0.999)ENEGDYNPGR ; 151.11 6.85E-05 20959500 1993.24 2060.7 1319.89 1132.2 1709.95 2208.01 1977.44 1431.33 1551.52 1871.63 TRUE FALSE FALSE 2202.898129 2127.468032 1499.757736 1154.115368 1578.934 2019.875126 1754.933247 1394.718651 1540.722846 1952.325129 1.128345938 1.089709906 0.768190561 0.591149164 0.808745417 1.034599768 0.89889395 0.714388516 0.78917329 1 10.93097762 -6.76345159 24.99980515 1.064483928 0.808240459 0.282193308 0.14200934 33.43724046 415428.0519 0.019972061 0.026994287 1.72E-07 6.76345159 -0.256243468 ASGS(ph)ENEGDYNPGRK ddPTM_HeLa_SAHA_4h_R1 1 ASGSENEGDYNPGRK 15 1 Q02880-2;Q02880 Q02880-2 TOP2B DNA topoisomerase 2-beta 1 0 ASGS(1)ENEGDYNPGRK 214.65 2.91E-17 5546800 1621.3 827.01 770.46 593.9 1149.6 1028.8 1113.1 1247.8 659.19 1073.9 TRUE FALSE FALSE 1791.835773 853.8056666 875.4542764 605.3957933 1061.517896 941.1404521 987.8510585 1215.883083 654.6026431 1120.201085 1.599566183 0.762189645 0.781515291 0.540434929 0.947613702 0.840153134 0.881851546 1.08541502 0.584361729 1 10.12954201 -7.239681756 24.76600455 1.283128483 0.827272603 0 0.290075724 513.2433762 584209.0548 0.04222777 0.051693166 5.76E-08 7.239681756 -0.45585588 ASHGYGGK(ac)FGVEQDR ddPTM_HeLa_SAHA_4h_R1 2 ASHGYGGKFGVEQDR 15 1 Q14247;Q14247-3;Q14247-2 Q14247 CTTN Src substrate cortactin 0 1 ; ASHGYGGK(1)FGVEQDR;ASHGYGGK(1)FGVEQDR 149.22 5.61E-05 9656700 2933.6 4281.2 4604.7 5735.6 6547.4 1487.15 7075.7 6258.3 3016.2 2078.8 FALSE TRUE FALSE 3242.169508 4419.913689 5232.204536 5846.620832 6045.739626 1360.436454 6279.523614 6098.221748 2995.210019 2168.427241 1.495170991 2.038303894 2.412902972 2.696249485 2.788075851 0.627383953 2.895888547 2.812278702 1.381282231 1 11.08243332 -7.02887586 0.758525301 1.113895882 2.897437406 0.373666303 0.11340421 0.048818577 0.057223277 0.023549781 0.032679868 9.36E-08 7.02887586 1.783541524 up ASHGYGGK(ac)FGVEQDRMDK ddPTM_HeLa_SAHA_4h_R1 1 ASHGYGGKFGVEQDRMDK 18 2 Q14247;Q14247-3;Q14247-2 Q14247 CTTN Src substrate cortactin 0 1 ASHGYGGK(1)FGVEQDRMDK 108.06 0.00067602 2024200 1338.2 1276.2 2213.8 2620.6 2330.6 494.1 3208 2593.7 521.71 672.3 FALSE TRUE FALSE 1478.958016 1317.549717 2515.485135 2671.325502 2152.029932 451.9999003 2847.027397 2527.35691 518.0793776 701.2861432 2.108922343 1.878761944 3.586959702 3.809180501 3.068690224 0.644529918 4.059722875 3.603888276 0.738756045 1 9.453859412 -7.818052884 0.54882451 1.074685069 3.101138854 0.433544609 0.957315084 0.582913595 0.416943953 0.446996262 0.331389525 1.52E-08 7.818052884 2.026453785 ASIANSDGPTAGSQT(ph)PPFK ddPTM_HeLa_SAHA_4h_R1 1 ASIANSDGPTAGSQTPPFK 19 0 J3KP75;F6TH74;O75167-5;O75167-2;O75167;O75167-4;H9KVA6 J3KP75 PHACTR2 Phosphatase and actin regulator;Phosphatase and actin regulator 2 1 0 ASIANSDGPT(0.001)AGS(0.023)QT(0.976)PPFK 167.97 2.26E-06 6115200 4418.5 5176.5 4034.3 4580.5 4695.9 5658.3 4945 4660.9 6101.5 5064.3 TRUE FALSE FALSE 4883.258103 5344.221996 4584.073394 4669.162201 4336.101156 5176.181007 4388.575585 4541.680927 6059.039165 5282.646757 0.924396108 1.011656134 0.867760728 0.883867958 0.820819819 0.979846135 0.830753179 0.859735874 1.146970343 1 12.36704523 ASIDS(ph)SLENLSTASSR ddPTM_HeLa_SAHA_4h_R1 1 ASIDSSLENLSTASSR 16 0 Q9UJF2-2;H0Y638;Q9UJF2 Q9UJF2-2 RASAL2 Ras GTPase-activating protein nGAP 1 0 AS(0.001)IDS(0.876)S(0.122)LENLSTASSR 97.214 0.0046506 2457500 211.97 217.85 384.5 373.62 586.54 413.83 437.78 406.27 623.51 312.99 TRUE FALSE FALSE 234.2659772 224.9084829 436.8976576 380.8519554 541.5994319 378.5693559 388.5198422 395.8782017 619.1709431 326.4845306 0.717540818 0.688879447 1.338187928 1.166523739 1.65888237 1.159532291 1.190009957 1.212548113 1.896478654 1 8.350870826 -6.752444772 24.99972521 0.849559324 1.2887274 0 0.367226651 100.7478953 280019.1096 0.028018532 0.039293454 1.77E-07 6.752444772 0.439168076 ASIGQS(ph)PGLPSTTFK ddPTM_HeLa_SAHA_4h_R1 2 ASIGQSPGLPSTTFK 15 0 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 AS(0.084)IGQS(0.887)PGLPS(0.012)T(0.014)T(0.003)FK;ASIGQS(0.992)PGLPS(0.008)T(0.001)TFK ; 172.93 6.12E-07 35217000 2960 3299.9 2430.1 3236.4 2594.1 3796.1 3342.8 2823.8 3688.4 3043.6 TRUE FALSE FALSE 3271.346381 3406.818925 2761.261373 3299.045202 2395.340618 3472.650924 2966.659346 2751.571285 3662.732124 3174.824491 1.030402276 1.073073152 0.869736699 1.039126796 0.754479697 1.093808786 0.93443255 0.866684534 1.153680191 1 11.63246112 -6.764632094 24.99980056 1.019161509 0.931666139 0.274250243 0.099395103 99.67042567 780446.9882 0.013113248 0.0176388 1.72E-07 6.764632094 -0.08749537 ASIPFSVVGSNQLIEAK ddPTM_HeLa_SAHA_4h_R1 1 ASIPFSVVGSNQLIEAK 17 0 B5MCX3;Q15019;Q15019-3;Q15019-2;H7C2Y0 B5MCX3 2-Sep Septin-2 0 0 200.44 6.61E-25 275750 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 ASITPGTILIILTGR ddPTM_HeLa_SAHA_4h_R1 1 ASITPGTILIILTGR 15 0 Q02878;F8VZ45;U3KQR5;F8VR69 Q02878 RPL6 60S ribosomal protein L6 0 0 139.76 0.00022653 3059400 274.17 436.26 399.44 498.13 367.34 150.6 487.06 527.36 325.05 557.27 FALSE FALSE TRUE 303.0084585 450.3951102 453.873603 507.7720265 339.1944886 137.7680327 432.2547269 513.8708948 322.7879506 581.2966369 0.521263051 0.774811141 0.780795164 0.873516195 0.583513592 0.237001255 0.743604383 0.88400803 0.555289555 1 9.183130752 -9.475288443 1.160057856 1.003923927 0.657413326 0 0.2279599 0.500998299 1.184092408 0.141946956 0.033254597 3.35E-10 9.475288443 -0.346510602 ASITPVLGS(ph)PSTK ddPTM_HeLa_SAHA_4h_R1 1 ASITPVLGSPSTK 13 0 Q9NYF5-3;Q9NYF5-2;Q9NYF5 Q9NYF5-3 FAM13B Protein FAM13B 1 0 ASITPVLGS(0.496)PS(0.15)T(0.354)K 135.86 0.00053654 5394600 3175.6 3295.5 3261.5 3334.5 3433.5 3636.8 3527.6 3580.1 3532.7 3361.5 TRUE FALSE FALSE 3509.624178 3402.276362 3705.960235 3399.044069 3170.425972 3326.92418 3130.665164 3488.526226 3508.115653 3506.430716 1.000910744 0.970296189 1.056903882 0.969374371 0.904174709 0.948806479 0.892835312 0.994893813 1.000480528 1 11.77578751 -5.998162588 21.478838 1.002055827 0.93358253 0.510720899 0.032466907 5.706411861 66690.60348 0.004222593 0.007597934 1.00E-06 5.998162588 -0.068473297 ASITPVLGSPST(ph)K ddPTM_HeLa_SAHA_4h_R1 1 ASITPVLGSPSTK 13 0 Q9NYF5-3;Q9NYF5-2;Q9NYF5 Q9NYF5-3 FAM13B Protein FAM13B 1 0 ASITPVLGS(0.347)PS(0.088)T(0.565)K 183.06 4.42E-06 4660400 1644.2 1436.8 1501.8 1728.5 1812.9 1545.3 1598.2 1769.8 1702.3 1486.5 TRUE FALSE FALSE 1817.1445 1483.353263 1706.457483 1761.957617 1673.995994 1413.631746 1418.36633 1724.531079 1690.453556 1550.59029 1.171904991 0.956637787 1.100521198 1.136314105 1.079586274 0.911673287 0.914726694 1.112177143 1.090200014 1 10.59860182 -5.286057055 23.03487005 1.078979649 0.97304582 0.245085995 0.077616503 303.7421026 284212.6172 0.01252159 0.028016701 5.18E-06 5.286057055 -0.105933829 ASLAS(ph)LDSNPSTNEK ddPTM_HeLa_SAHA_4h_R1 1 ASLASLDSNPSTNEK 15 0 H7C0I3;A0A2R8YD85;Q96BY6-3;Q96BY6 H7C0I3 DOCK10 Dedicator of cytokinesis protein 10 1 0 AS(0.006)LAS(0.994)LDSNPSTNEK 175.26 4.89E-07 5969400 1575.8 2005.5 1408.1 1467.7 2055.7 1811.5 2179.1 1853 1719 1762.8 TRUE FALSE FALSE 1741.549874 2070.479516 1599.988535 1496.109456 1898.19271 1657.150009 1933.901933 1805.602943 1707.037339 1838.802935 0.947110667 1.125993154 0.870125071 0.813632297 1.032298064 0.901211314 1.051717885 0.98194478 0.928341644 1 10.84455116 -9.926490196 0.657114774 1.015635476 0.962440129 0 0.089294391 7.614462753 3.143089773 0.273251245 0.017407017 1.18E-10 9.926490196 -0.053195347 ASLASLDS(ph)NPSTNEK ddPTM_HeLa_SAHA_4h_R1 1 ASLASLDSNPSTNEK 15 0 H7C0I3;A0A2R8YD85;Q96BY6-3;Q96BY6 H7C0I3 DOCK10 Dedicator of cytokinesis protein 10 1 0 AS(0.001)LAS(0.021)LDS(0.927)NPS(0.047)T(0.004)NEK 153.75 3.60E-05 6600800 3960 5527.3 3852.5 3184.7 4881.5 5510.1 5191.7 3927.6 5295.5 4307.9 TRUE FALSE FALSE 4376.530969 5706.388147 4377.498637 3246.344474 4507.480525 5040.608481 4607.516252 3827.137679 5258.648184 4493.634651 0.973940097 1.269882531 0.974155439 0.722431779 1.003081219 1.121721918 1.02534287 0.851679759 1.170243821 1 12.13366712 -6.532256675 24.98840684 1.013919201 0.950975262 0.116324323 0.138288973 557.6478642 1485901.559 0.021034856 0.029771042 2.94E-07 6.532256675 -0.062943939 ASLCISTK ddPTM_HeLa_SAHA_4h_R1 1 ASLCISTK 8 0 P09874 P09874 PARP1 Poly [ADP-ribose] polymerase 1 0 0 116.37 0.0042644 0 877.75 793.33 745.92 1052 1109.4 1114.6 1039.2 726.93 733.63 959.38 FALSE FALSE TRUE 970.0757723 819.0344125 847.570093 1072.362981 1024.398012 1019.629809 922.266481 708.3361832 728.5246091 1000.743567 0.969354992 0.818425858 0.846940336 1.0715662 1.023636869 1.01887221 0.921581224 0.707809879 0.727983305 1 9.966856626 -4.288163707 3.250407462 0.974044055 0.678148195 0.222753842 0.107613725 0.189618484 3.240575296 0.010880136 0.135620704 5.15E-05 4.288163707 -0.29589586 ASLENSLR ddPTM_HeLa_SAHA_4h_R1 2 ASLENSLR 8 0 P05783;F8VZY9;CON__H-INV:HIT000015463 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 ; ; 141.52 0.0044229 57886600 4307.2 4201 4732.3 4530.2 5112.2 4285.5 5098.3 4313.62 4066.14 3788.2 FALSE FALSE TRUE 4760.251058 4337.115156 5377.193199 4617.888572 4720.50434 3920.35129 4524.625866 4203.283846 4037.843401 3951.527841 1.204660893 1.097579299 1.360788388 1.168633692 1.194602324 0.992110254 1.14503201 1.063711054 1.021843591 1 11.94819486 -3.402575435 23.80411581 1.120468955 1.130050601 0 0.108499649 0 0 0.015463326 0 0.000395753 3.402575435 0.009581646 ASLGS(ph)LEGEAEAEAS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 ASLGSLEGEAEAEASSPK 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 2 0 AS(0.003)LGS(0.997)LEGEAEAEAS(0.922)S(0.078)PK 139.32 0.0011785 27391000 4399 5707.8 4308.9 4578.6 5447.8 5752.7 5127.2 5443.9 6036.3 5138.9 TRUE FALSE FALSE 4861.707003 5892.736465 4896.094452 4667.225424 5030.390741 5262.537596 4550.273962 5304.652921 5994.292897 5360.463128 0.906956524 1.099296147 0.913371538 0.870675782 0.938424651 0.98173189 0.848858364 0.989588547 1.118241606 1 12.38814194 ASLGS(ph)LEGEAEAEAS(ph)SPKGK ddPTM_HeLa_SAHA_4h_R1 2 ASLGSLEGEAEAEASSPKGK 20 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 2 0 AS(0.006)LGS(0.994)LEGEAEAEAS(0.741)S(0.259)PKGK;AS(0.002)LGS(0.998)LEGEAEAEAS(0.61)S(0.39)PKGK ; 125.37 0.00060498 39954000 6516.3 4778.3 6426.9 5340.5 5557.5 5016.1 7412.7 7151.1 3920.1 5282.4 TRUE FALSE FALSE 7201.714332 4933.120055 7302.724462 5443.8731 5131.685551 4588.70006 6578.603487 6968.185217 3892.819705 5510.150115 1.306990587 0.895278704 1.325322234 0.987971831 0.931315017 0.832772241 1.1939064 1.264608962 0.706481606 1 12.42787591 ASLGS(ph)LEGEAEAEASS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 ASLGSLEGEAEAEASSPK 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 2 0 ASLGS(0.999)LEGEAEAEAS(0.006)S(0.995)PK;AS(0.002)LGS(0.998)LEGEAEAEAS(0.068)S(0.932)PK;ASLGS(0.61)LEGEAEAEAS(0.522)S(0.867)PK ;; 173.49 8.93E-14 49184000 4233.68 5730.92 4848.52 4595.54 5432.27 6162.85 5205.89 4907.93 6689.14 4884.08 TRUE FALSE FALSE 4678.997887 5916.605568 5509.251056 4684.493322 5016.050646 5637.740509 4620.109556 4782.392257 6642.58973 5094.656591 0.918412812 1.161335502 1.081378295 0.919491479 0.984570904 1.106598729 0.90685397 0.938707481 1.303834638 1 12.31476919 -2.921430335 14.49385702 0.984194822 0.479401267 0 0.132208253 0 0 0.011610167 0 0.001198311 2.921430335 -0.504793555 ASLGS(ph)LEGEAEAEASS(ph)PKGK ddPTM_HeLa_SAHA_4h_R1 5 ASLGSLEGEAEAEASSPKGK 20 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 2 0 AS(0.011)LGS(0.989)LEGEAEAEAS(0.318)S(0.682)PKGK;AS(0.002)LGS(0.998)LEGEAEAEAS(0.346)S(0.654)PKGK;AS(0.009)LGS(0.99)LEGEAEAEAS(0.291)S(0.71)PKGK;AS(0.015)LGS(0.985)LEGEAEAEAS(0.143)S(0.857)PKGK;AS(0.009)LGS(0.991)LEGEAEAEAS(0.289)S(0.711)PKGK ;;;; 120.27 0.0010231 58323900 18873.8 15077 21408.6 15702.3 17906.2 16219.3 21281.6 21536.6 11306.9 16305.5 TRUE FALSE FALSE 20859.03288 15565.50469 24326.05252 16006.24072 16534.23082 14837.32439 18886.93836 20985.72496 11228.21436 17008.5099 1.226388026 0.91515981 1.430228318 0.941072488 0.972115189 0.872347106 1.110440507 1.233836772 0.660152737 1 14.05396913 ASLGS(ph)LEGEAEAEASSPK ddPTM_HeLa_SAHA_4h_R1 5 ASLGSLEGEAEAEASSPK 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 ASLGS(1)LEGEAEAEASSPK;ASLGS(1)LEGEAEAEASSPK;AS(0.031)LGS(0.969)LEGEAEAEASSPK;AS(0.004)LGS(0.996)LEGEAEAEASSPK;ASLGS(0.983)LEGEAEAEAS(0.017)SPK ;;;; 203.23 1.41E-16 916010000 20883 21776.5 21015 19077.9 22840.3 21775.2 25524 21652.6 22612.6 19652.3 TRUE FALSE FALSE 23079.56975 22482.07289 23878.81476 19447.18034 21090.28115 19919.83046 22651.97234 21098.75784 22455.23708 20499.60683 1.125854264 1.096707516 1.164842573 0.948661138 1.028813934 0.971717683 1.104995453 1.029227439 1.095398427 1 14.32330862 -6.245484338 24.99568796 1.071516698 1.019765232 0.280301101 0.057255402 1408.841219 2207136.35 0.010260393 0.0169844 5.68E-07 6.245484338 -0.051751466 ASLGSLEGEAEAEAS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 4 ASLGSLEGEAEAEASSPK 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 ASLGSLEGEAEAEAS(0.5)S(0.5)PK;ASLGSLEGEAEAEAS(0.5)S(0.5)PK;ASLGSLEGEAEAEAS(0.5)S(0.5)PK;ASLGSLEGEAEAEAS(0.5)S(0.5)PK ;;; 370.52 9.06E-184 1005748000 7323.7 8876.58 6429.2 7079.43 8430.59 9543.84 8385.27 7549.85 9517.62 7542.33 TRUE FALSE FALSE 8094.040368 9164.187016 7305.337894 7216.462605 7784.640016 8730.65114 7441.737351 7356.735769 9451.386107 7867.516758 1.028792263 1.164813155 0.928544307 0.917247821 0.989465959 1.109708617 0.945881347 0.935077229 1.201317569 1 12.94169263 ASLGSLEGEAEAEAS(ph)SPKGK ddPTM_HeLa_SAHA_4h_R1 2 ASLGSLEGEAEAEASSPKGK 20 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 ASLGSLEGEAEAEAS(0.87)S(0.13)PKGK;ASLGSLEGEAEAEAS(0.5)S(0.5)PKGK ; 179.85 6.58E-10 706680000 8050.4 6279.5 8787.9 7509.1 7921.4 7571.3 8967.6 9449.2 5027.4 6973.3 TRUE FALSE FALSE 8897.178009 6482.95992 9985.469247 7654.449489 7314.464043 6926.182645 7958.542047 9207.503146 4992.413914 7273.95309 1.223155814 0.891256768 1.372770641 1.052309438 1.005569317 0.952189622 1.094115119 1.265818329 0.686341231 1 12.82852391 -4.263056728 7.4824822 1.089856538 1.267698264 0.051894355 0.183199702 0.159473269 86.56707229 0.018616614 0.14544449 5.46E-05 4.263056728 0.177841726 ASLGSLEGEAEAEASS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 ASLGSLEGEAEAEASSPK 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 ASLGSLEGEAEAEAS(0.005)S(0.995)PK;ASLGSLEGEAEAEAS(0.074)S(0.926)PK;ASLGSLEGEAEAEAS(0.234)S(0.766)PK ;; 311.81 3.01E-103 239265200 7554.5 9410.7 7939 7615.9 9372.7 10723.1 9322.6 7603.3 10736.1 8230.6 TRUE FALSE FALSE 8349.116971 9715.612855 9020.885575 7763.316757 8654.565751 9809.431553 8273.596512 7408.818595 10661.38661 8585.461446 0.972471547 1.131635488 1.05071645 0.904239895 1.008048991 1.142563113 0.963675228 0.862949376 1.241795409 1 13.06767996 ASLGSLEGEAEAEASS(ph)PKGK ddPTM_HeLa_SAHA_4h_R1 2 ASLGSLEGEAEAEASSPKGK 20 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 ASLGSLEGEAEAEAS(0.208)S(0.792)PKGK;ASLGSLEGEAEAEAS(0.039)S(0.961)PKGK ; 181.23 4.58E-10 799656000 5256.1 4024 4971.4 5100.6 5129.5 4444.2 5399.4 5605.1 3337.58 4302.6 TRUE FALSE FALSE 5808.960714 4154.38024 5648.876502 5199.329489 4736.478818 4065.529158 4791.845302 5461.729658 3314.353509 4488.106142 1.294301099 0.925642155 1.258632555 1.158468477 1.055340196 0.905845145 1.067676465 1.216934155 0.73847485 1 12.13189108 -5.747740286 21.22049381 1.135623399 1.050779012 0 0.176058017 87.13741935 134972.3399 0.020900109 0.041520777 1.79E-06 5.747740286 -0.084844387 ASLLT(ph)DEEDVDMALDQR ddPTM_HeLa_SAHA_4h_R1 3 ASLLTDEEDVDMALDQR 17 0 P52948-6;P52948-2;P52948-5;P52948;A0A3B3ITD8;H7C3P6 P52948-6 NUP98 Nuclear pore complex protein Nup98-Nup96;Nuclear pore complex protein Nup98;Nuclear pore complex protein Nup96 1 0 AS(0.002)LLT(0.998)DEEDVDMALDQR;AS(0.001)LLT(0.999)DEEDVDMALDQR;ASLLT(1)DEEDVDMALDQR ;; 299.31 1.50E-86 11195000 369.23 626.59 412.3 703.976 501.76 978.58 582.675 748.59 478.59 809.96 TRUE FALSE FALSE 408.0673055 646.8919271 468.4860968 717.6024734 463.3152572 895.1994787 517.1108755 729.4421517 475.2594532 844.8813394 0.482987713 0.765660096 0.554499283 0.849352968 0.548379087 1.059556457 0.612051481 0.86336639 0.562516215 1 9.722604924 -9.619537313 1.448513079 0.999069825 0.685547971 0 0.21575434 0.393704882 1.49048101 0.117812593 0.027342852 2.40E-10 9.619537313 -0.313521854 ASLSLIEK ddPTM_HeLa_SAHA_4h_R1 1 ASLSLIEK 8 0 P52292 P52292 KPNA2 Importin subunit alpha-1 0 0 109.21 0.0086963 729310 397.57 633.23 410.08 462.26 352.8 324.96 645.56 444.86 340.04 314.31 FALSE FALSE TRUE 439.3882367 653.7470675 465.9635668 471.2077107 325.7685402 297.2715798 572.9198898 433.4811253 337.673634 327.8614423 1.340164411 1.993973622 1.421221 1.437216 0.993616504 0.906698811 1.747445158 1.322147314 1.029927861 1 8.356942435 -8.726455634 1.064253964 1.034903596 1.389647295 0.200214923 0.299989887 0.597816206 1.356023468 0.120005359 0.060505872 1.88E-09 8.726455634 0.354743699 ASLVS(ph)EEEEDEEEDKATPR ddPTM_HeLa_SAHA_4h_R1 4 ASLVSEEEEDEEEDKATPR 19 1 Q96GN5-5;Q96GN5-2;Q96GN5;C9IZR6;Q96GN5-4;C9J8L0 Q96GN5-5 CDCA7L Cell division cycle-associated 7-like protein 1 0 AS(0.006)LVS(0.994)EEEEDEEEDKATPR;AS(0.007)LVS(0.993)EEEEDEEEDKATPR;ASLVS(1)EEEEDEEEDKATPR;AS(0.004)LVS(0.996)EEEEDEEEDKATPR ;;; 199.75 5.31E-20 151235800 3788.05 3928.01 3722.58 3653.4 4068.62 4409.26 4285.31 3670.44 5126.3 4280.42 TRUE FALSE FALSE 4186.494479 4055.280101 4229.873816 3724.11684 3756.883215 4033.566242 3803.11564 3576.55546 5090.625661 4464.969854 0.937631074 0.908243557 0.947346556 0.834074352 0.841412896 0.903380398 0.851767372 0.801025668 1.140125427 1 12.12443472 -5.727853999 0.160636993 1.048117664 0.707362315 0.674936845 0.053658797 3.512002366 0.187271997 0.102296583 0.300413518 1.87E-06 5.727853999 -0.340755349 ASMLS(ph)KHT(ph)AFSS(ph)PMEKDIT(ph)PDPK ddPTM_HeLa_SAHA_4h_R1 1 ASMLSKHTAFSSPMEKDITPDPK 23 2 A0A669KB44;A0A669KAW0;A0A669KBE2;O60312 A0A669KB44 ATP10A Probable phospholipid-transporting ATPase VA 4 0 AS(0.174)MLS(0.833)KHT(0.95)AFS(0.06)S(0.985)PMEKDIT(0.998)PDPK 48.315 0.008225 0 204.47 74.898 214.21 205.9 297.25 251.43 184.75 333.09 229.04 136.46 TRUE FALSE FALSE 225.9770927 77.32474434 243.4014232 209.8854922 274.4747692 230.0067495 163.9614438 324.5700401 227.446092 142.3434584 1.587548141 0.54322654 1.709958617 1.474500441 1.928256994 1.615857533 1.151871997 2.280189365 1.597868244 1 7.153232383 ASMSEFLES(ph)EDGEVEQQR ddPTM_HeLa_SAHA_4h_R1 7 ASMSEFLESEDGEVEQQR 18 0 J3QQW9;Q15022 J3QQW9 SUZ12 Polycomb protein SUZ12 1 0 ASMSEFLES(1)EDGEVEQQR;ASMS(0.001)EFLES(0.999)EDGEVEQQR;ASMSEFLES(1)EDGEVEQQR;ASMSEFLES(1)EDGEVEQQR;ASMS(0.484)EFLES(0.515)EDGEVEQQR;ASMSEFLES(1)EDGEVEQQR;ASMSEFLES(1)EDGEVEQQR ;;;;;; 340.9 8.87E-140 68872400 5660.33 5887.47 5385.35 6313.26 6934.53 7764.21 7692.69 7097.35 6417.24 5762.05 TRUE FALSE FALSE 6255.70948 6078.227891 6119.237452 6435.462276 6403.20781 7102.655628 6827.088275 6915.810064 6372.581904 6010.480174 1.040800285 1.011271598 1.018094607 1.070706847 1.065340476 1.181711847 1.135864037 1.150625219 1.060245059 1 12.55326454 -5.609381035 1.461808656 1.019257958 1.156012225 0.824181758 0.024881222 0.102005706 0.431059553 0.003533081 0.009865381 2.46E-06 5.609381035 0.136754267 ASNTAEVFFDGVR ddPTM_HeLa_SAHA_4h_R1 1 ASNTAEVFFDGVR 13 0 P49748-2;P49748;P49748-3 P49748-2 ACADVL "Very long-chain specific acyl-CoA dehydrogenase, mitochondrial" 0 0 128.36 0.0048599 5394900 448.59 516.29 364.99 315.68 519.51 668.1 480.62 522.05 533.53 379.3 FALSE FALSE TRUE 495.7747544 533.0181348 414.7289364 321.7904429 479.705256 611.1741214 426.5393727 508.6967169 529.8171213 395.6534792 1.253052937 1.347184248 1.048212535 0.813313821 1.212437856 1.544720705 1.07806299 1.285712735 1.339093801 1 8.628093634 -9.373247786 1.081684105 0.999265815 1.197232979 0 0.21141081 0.880058106 1.832162816 0.132321973 0.033688199 4.23E-10 9.373247786 0.197967165 ASPAPGS(ph)GHPEGPGAHLDMNSLDR ddPTM_HeLa_SAHA_4h_R1 1 ASPAPGSGHPEGPGAHLDMNSLDR 24 0 O94826 O94826 TOMM70A Mitochondrial import receptor subunit TOM70 1 0 AS(0.055)PAPGS(0.945)GHPEGPGAHLDMNSLDR 56.684 0.0095774 10279000 229.69 272.35 252.02 352.01 183.29 332.02 261.86 310.97 451.51 557.54 TRUE FALSE FALSE 253.8498481 281.1743187 286.3639731 358.8236626 169.2463598 303.7300281 232.3948236 303.0158377 448.3679051 581.5782779 0.436484404 0.483467711 0.492391109 0.616982573 0.291012175 0.522251328 0.399593369 0.521023307 0.770950227 1 9.183829575 -9.26302896 0.672916387 1.061163138 0.461336863 0.68757487 0.107170794 0.25229725 0.173160918 0.089220072 0.016833184 5.46E-10 9.26302896 -0.599826275 ASPDQNASTHT(ph)PQSSVK ddPTM_HeLa_SAHA_4h_R1 1 ASPDQNASTHTPQSSVK 17 0 Q14677-2;Q14677;Q14677-3;H0YD52 Q14677-2 CLINT1 Clathrin interactor 1 1 0 ASPDQNASTHT(0.983)PQS(0.016)S(0.002)VK 163.15 4.50E-06 5488700 919.39 2196.5 876.41 1462.9 3000.2 4857.7 2225.4 2573.2 2164.8 2069.8 TRUE FALSE FALSE 1016.095659 2267.668041 995.8425907 1491.216545 2770.325324 4443.796631 1974.992135 2507.38127 2149.734981 2159.039207 0.470623996 1.050313507 0.461243403 0.690685255 1.283128771 2.058228779 0.914755104 1.16134124 0.995690571 1 11.07617373 -5.715849785 5.714093913 0.741259299 1.381308826 0.416119864 0.33318556 0.139373925 10.54636342 0.050115181 0.100092626 1.92E-06 5.715849785 0.640049527 ASPEPQRENASPAPGT(ph)TAEEAMSR ddPTM_HeLa_SAHA_4h_R1 2 ASPEPQRENASPAPGTTAEEAMSR 24 1 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6;P46379-5;A0A0G2JL47;H0Y710 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 1 0 ASPEPQRENAS(0.115)PAPGT(0.435)T(0.435)AEEAMS(0.014)R;AS(0.001)PEPQRENAS(0.308)PAPGT(0.529)T(0.162)AEEAMSR ; 127.5 1.41E-06 78102000 1575.92 1289.09 1387.16 1164.82 1629.86 1638.36 1705.13 1382.56 1285.96 1554.12 TRUE FALSE FALSE 1741.682496 1330.857362 1576.194941 1187.366775 1504.980479 1498.762511 1513.264285 1347.196117 1277.0109 1621.125719 1.074366088 0.820946424 0.972284211 0.732433495 0.928355193 0.924519606 0.933465102 0.831025072 0.787730948 1 10.66278026 -7.266300948 24.99866509 1.035117321 0.881544034 0 0.103633811 227.8803796 1171781.003 0.011290739 0.013129641 5.42E-08 7.266300948 -0.153573286 ASPIKMDLAPS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 ASPIKMDLAPSK 12 1 E7EVA0;P27816;P27816-6;P27816-2 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 ASPIKMDLAPS(1)K 124.92 0.0057716 11722000 1570.1 2144.4 1370.4 1609.5 2285.5 2302.2 2011.6 1501.5 2869.5 1936.8 TRUE FALSE FALSE 1735.250322 2213.879967 1557.150975 1640.6542 2110.385484 2106.039608 1785.249474 1463.093804 2849.530916 2020.304926 0.858905158 1.095814764 0.770750472 0.812082463 1.044587605 1.042436506 0.883653477 0.724194544 1.410445957 1 10.98035734 -9.54244173 1.229205945 1.001428538 0.905144277 0.156731828 0.175695413 1.062478134 2.804497998 0.088403941 0.019720868 2.87E-10 9.54244173 -0.096284261 ASPS(ph)CSSPTRDSSGVPVSK ddPTM_HeLa_SAHA_4h_R1 1 ASPSCSSPTRDSSGVPVSK 19 1 Q8N5I9;J3KN91;A0A087WT30 Q8N5I9 C12orf45 Uncharacterized protein C12orf45 1 0 AS(0.002)PS(0.33)CS(0.33)S(0.33)PT(0.005)RDS(0.001)S(0.002)GVPVSK 85.881 0.0019096 10275000 1964.6 1467.2 1640.5 1910.1 2212.7 2621.3 3254.1 3206.2 2029.7 3058.2 TRUE FALSE FALSE 2171.245642 1514.738243 1864.058797 1947.072748 2043.163404 2397.950493 2887.940104 3124.190047 2015.575152 3190.053968 0.680629752 0.474831541 0.584334565 0.610357306 0.64047926 0.751695901 0.905295062 0.979353352 0.631831051 1 11.63936512 -4.636210383 3.697786578 0.763323392 0.965113196 0.182171187 0.153161677 0.380617258 9.531891505 0.028399654 0.127715749 2.31E-05 4.636210383 0.201789804 ASPS(ph)PQPSSQPLQIHR ddPTM_HeLa_SAHA_4h_R1 5 ASPSPQPSSQPLQIHR 16 0 B5MBZ0;Q9HC35 B5MBZ0 EML4 Echinoderm microtubule-associated protein-like 4 1 0 ASPS(0.987)PQPS(0.003)S(0.01)QPLQIHR;AS(0.155)PS(0.844)PQPS(0.001)SQPLQIHR;ASPS(0.964)PQPS(0.027)S(0.008)QPLQIHR;ASPS(0.993)PQPS(0.003)S(0.003)QPLQIHR;ASPS(0.999)PQPSSQPLQIHR ;;;; 279.91 3.65E-72 169058000 3856.73 4416.94 3777.07 4496.72 5187.94 5811.11 5030.53 4773.6 4623.21 4658.18 TRUE FALSE FALSE 4262.398557 4560.051754 4291.789429 4583.760518 4790.441158 5315.970736 4464.481525 4651.498224 4591.036705 4859.016936 0.87721418 0.938472085 0.883262908 0.943351418 0.985886903 1.094042438 0.91880345 0.957292038 0.944848879 1 12.24644875 -5.77093109 5.200688196 0.935387475 0.991894976 0.224998243 0.052327667 0.264720389 20.37701867 0.009260757 0.017788581 1.69E-06 5.77093109 0.056507502 ASPSCS(ph)SPTRDSSGVPVSK ddPTM_HeLa_SAHA_4h_R1 2 ASPSCSSPTRDSSGVPVSK 19 1 Q8N5I9;J3KN91;A0A087WT30 Q8N5I9 C12orf45 Uncharacterized protein C12orf45 1 0 ASPS(0.004)CS(0.497)S(0.497)PT(0.001)RDS(0.001)SGVPVSK;ASPS(0.035)CS(0.83)S(0.134)PT(0.001)RDSSGVPVSK ; 180.31 8.30E-09 123094000 4401.8 2994.1 4956.5 4147.1 4221.3 3650 5298 5391.7 2763 3888.2 TRUE FALSE FALSE 4864.80152 3091.110805 5631.946008 4227.373117 3897.864906 3338.999466 4701.855096 5253.788121 2743.772058 4055.83933 1.199456173 0.762138377 1.388601853 1.042293043 0.961050128 0.823257332 1.159280414 1.295363966 0.676499199 1 11.98578479 ASPSCSS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 3 ASPSCSSPTR 10 0 Q8N5I9;J3KN91;A0A087WT30 Q8N5I9 C12orf45 Uncharacterized protein C12orf45 1 0 ASPS(0.007)CS(0.033)S(0.957)PT(0.003)R;ASPS(0.002)CS(0.004)S(0.955)PT(0.039)R;ASPSCS(0.003)S(0.961)PT(0.036)R ;; 123.62 0.0025528 52582400 1659.13 2616.27 1649.4 2635.84 3162.87 4376.65 3279.91 2782.63 3844.7 3707.95 TRUE FALSE FALSE 1833.644906 2701.038865 1874.171642 2686.860495 2920.531584 4003.734798 2910.845895 2711.454354 3817.94442 3867.817871 0.474077365 0.698336622 0.484555298 0.694670893 0.755085085 1.035140467 0.75258091 0.701029481 0.987105533 1 11.91730415 -4.24840883 19.72593213 0.741038138 0.701029115 0 0.188536995 1209.639273 1830475.215 0.031020696 0.579785937 5.64E-05 4.24840883 -0.040009022 ASPSCSSPT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 ASPSCSSPTR 10 0 Q8N5I9;J3KN91;A0A087WT30 Q8N5I9 C12orf45 Uncharacterized protein C12orf45 1 0 ASPSCS(0.001)S(0.472)PT(0.526)R 134.38 0.0024376 43354000 2600.2 3971.5 2263.3 4080.6 4392.3 6670.6 5071.3 3760.1 5495.1 5602.1 TRUE FALSE FALSE 2873.700966 4100.179206 2571.730737 4159.585914 4055.762923 6102.227352 4500.663977 3663.922087 5456.859152 5843.633947 0.491766081 0.701648879 0.440091005 0.711814934 0.69404808 1.044252157 0.770182393 0.626993771 0.933812624 1 12.51265009 -4.251385575 21.41885458 0.742162611 0.626993329 0.036094923 0.188169096 755.1237793 1608461.845 0.031183226 0.489948515 5.61E-05 4.251385575 -0.115169282 ASPT(ph)STEEEQVMLR ddPTM_HeLa_SAHA_4h_R1 1 ASPTSTEEEQVMLR 14 0 Q96PE3-2;Q96PE3-4;Q96PE3-3;Q96PE3 Q96PE3-2 INPP4A "Type I inositol 3,4-bisphosphate 4-phosphatase" 1 0 AS(0.105)PT(0.747)S(0.14)T(0.008)EEEQVMLR 154.13 7.59E-05 3209200 323.27 376.59 274.41 336.23 387.83 431.26 307.89 340.1 534.72 480.65 TRUE FALSE FALSE 357.2730218 388.7917631 311.8051657 342.7382178 358.1145492 394.5142218 273.2454069 331.4007345 530.99884 501.3731737 0.712589027 0.77545386 0.621902371 0.683599035 0.714267472 0.786867432 0.544994071 0.660986171 1.059089053 1 8.969740996 -9.811317277 0.322707018 1.208102203 0.652667591 0.815069592 0.065660575 1.613549166 0.165213489 0.337156171 0.029607723 1.54E-10 9.811317277 -0.555434612 ASPTGTPSRAS(ph)PTGTPSR ddPTM_HeLa_SAHA_4h_R1 1 ASPTGTPSRASPTGTPSR 18 1 Q9UF83 Q9UF83 Uncharacterized protein DKFZp434B061 1 0 ASPTGTPS(0.377)RAS(0.607)PT(0.013)GT(0.002)PSR 109.16 0.0056817 1178200 452.74 351.49 180.88 313.7 288.72 246.64 387.34 478.74 333.68 228.57 TRUE FALSE FALSE 500.3612704 362.8785066 205.5293844 319.7721171 266.598336 225.6248844 343.7554838 466.494524 331.3578937 238.4247713 2.098612773 1.521983243 0.862030331 1.341186637 1.118165426 0.946314778 1.441777555 1.956569032 1.389779644 1 7.897390323 -6.946675499 24.99740949 1.534133753 1.259565959 0.07496647 0.377704225 218.8537807 102593.2798 0.079596266 0.104609993 1.13E-07 6.946675499 -0.274567794 ASPVTTS(ph)PTAATTQNPVLSK ddPTM_HeLa_SAHA_4h_R1 1 ASPVTTSPTAATTQNPVLSK 20 0 Q96JN0-2;Q96JN0;Q96JN0-3 Q96JN0-2 LCOR Ligand-dependent corepressor 1 0 ASPVTT(0.184)S(0.73)PT(0.085)AAT(0.001)T(0.001)QNPVLSK 135.09 4.11E-05 2450000 979.73 671.4 483.72 641.95 682.77 748.69 834.96 722.03 676.22 530.23 TRUE FALSE FALSE 1082.782497 693.1538005 549.6388425 654.3758705 630.4563101 684.8974 741.0081033 703.5615181 671.51413 553.0908102 1.957693884 1.253236879 0.993758769 1.183125553 1.139878477 1.23830913 1.33975848 1.272054254 1.214111892 1 9.111372561 -7.021938003 24.67408269 1.460308595 1.19369667 0.095285723 0.24337964 1133.650916 1275037.011 0.059846955 0.073660974 9.51E-08 7.021938003 -0.266611925 ASQEPS(ph)PKPGTEVIPAAPR ddPTM_HeLa_SAHA_4h_R1 4 ASQEPSPKPGTEVIPAAPR 19 1 I3L4I0;I3L1Y9;Q96CP2 I3L4I0 FLYWCH2 FLYWCH family member 2 1 0 AS(0.01)QEPS(0.99)PKPGTEVIPAAPR;ASQEPS(0.999)PKPGTEVIPAAPR;AS(0.075)QEPS(0.925)PKPGTEVIPAAPR;AS(0.004)QEPS(0.897)PKPGT(0.098)EVIPAAPR ;;; 187.5 4.17E-13 77253000 6647.14 6710.3 6063.92 6940.4 7792.7 7828.2 8099.3 7912.1 8490.7 7254.2 TRUE FALSE FALSE 7346.316683 6927.718123 6890.279438 7074.741478 7195.62501 7161.19332 7187.945448 7709.719939 8431.612527 7566.964063 0.970840699 0.915521478 0.910573829 0.934951114 0.950926283 0.946376018 0.949911403 1.018865674 1.114266231 1 12.88549888 -7.782488063 1.806653414 0.990774302 0.945576852 0.296676776 0.048278202 0.272972801 1.856481067 0.006107687 0.005897648 1.65E-08 7.782488063 -0.045197449 ASQGLLSSIENS(ph)ESDSSEAKEEGSR ddPTM_HeLa_SAHA_4h_R1 1 ASQGLLSSIENSESDSSEAKEEGSR 25 1 Q5UIP0;Q5UIP0-2 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 ASQGLLSSIENS(0.686)ES(0.312)DS(0.001)SEAKEEGSR 112.88 6.01E-07 7247900 1043.8 1051.2 605.11 676 1335.2 1184.9 812.57 1195.5 810.62 1118.9 TRUE FALSE FALSE 1153.591673 1085.25957 687.5712395 689.0849575 1232.897264 1083.939854 721.137485 1164.920841 804.9788294 1167.141255 0.988390795 0.929844237 0.589107134 0.590404079 1.056339376 0.928713512 0.617866503 0.998097562 0.68970129 1 10.18876346 -6.986460241 24.76271467 0.992654713 0.793910782 0 0.183012785 211.1990944 386258.0645 0.024845322 0.032643697 1.03E-07 6.986460241 -0.198743931 ASQGLLSSIENSES(ph)DSSEAKEEGSR ddPTM_HeLa_SAHA_4h_R1 1 ASQGLLSSIENSESDSSEAKEEGSR 25 1 Q5UIP0;Q5UIP0-2 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 ASQGLLS(0.02)S(0.293)IENS(0.066)ES(0.614)DS(0.006)S(0.001)EAKEEGSR 78.642 8.77E-05 9791400 611.59 501.97 234.69 498.75 671.8 561.48 435.25 565.96 402.07 404.83 TRUE FALSE FALSE 675.9198423 518.2341574 266.672331 508.4040275 620.3268291 513.6387452 386.2745245 551.4835627 399.2719621 422.2842025 1.60062782 1.227216539 0.631499662 1.203938069 1.468979482 1.216334265 0.914726438 1.305953572 0.945505325 1 8.722070467 -6.990881556 24.98859712 1.290487327 1.120291258 0 0.274414237 473.3413667 1297159.778 0.049569889 0.065098269 1.02E-07 6.990881556 -0.170196069 ASQKQMEVVTK ddPTM_HeLa_SAHA_4h_R1 1 ASQKQMEVVTK 11 1 B0QYM2;B0QYM1;A0A087X0J6;Q9BZE7 B0QYM2 C22orf23 UPF0193 protein EVG1 0 0 116.05 0.012449 1198000 189.33 192.33 276.13 651.08 759.49 1502.1 1202.4 1221.8 112.25 105.76 FALSE FALSE TRUE 209.2445981 198.5616182 313.7595584 663.6825949 701.2980403 1374.112629 1067.102787 1190.548125 111.4688431 110.3198312 1.896708831 1.79987239 2.844090269 6.015986317 6.35695353 12.4557173 9.672810193 10.79178705 1.01041528 1 6.785548344 -5.844966503 1.050005089 1.401878977 11.09869501 0.934836868 1.048784562 0.08070732 0.173600635 0.164298564 0.462886798 1.43E-06 5.844966503 9.696816033 ASQLGIFISK ddPTM_HeLa_SAHA_4h_R1 1 ASQLGIFISK 10 0 Q5EBL8;Q5EBL8-2 Q5EBL8 PDZD11 PDZ domain-containing protein 11 0 0 121.29 0.0054264 398230 306.03 414.23 426.5 349.98 528.86 360.91 566.68 401.8 439.67 607.35 FALSE FALSE TRUE 338.2196395 427.6513238 484.6211989 356.754369 488.3388611 330.1584376 502.915675 391.5225378 436.6103007 633.5358308 0.533860317 0.675023105 0.764946788 0.563116325 0.770814905 0.521136172 0.79382357 0.617995887 0.689164337 1 9.307282406 -9.422335838 1.095465508 1.004317634 0.649391827 0.093074961 0.132418463 0.241512541 0.508260763 0.066914963 0.016047693 3.78E-10 9.422335838 -0.354925807 ASQLVGIEK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 ASQLVGIEKK 10 1 Q9NPD8 Q9NPD8 UBE2T Ubiquitin-conjugating enzyme E2 T 0 1 ASQLVGIEK(1)K 109.16 0.0033748 2115400 1188.7 1412.7 1363.4 2041.4 1880.7 1634.2 2085.3 2427.1 1365.9 1238.7 FALSE TRUE FALSE 1313.73292 1458.472407 1549.197052 2080.914249 1736.601172 1494.956966 1850.656556 2365.018296 1356.394591 1292.106419 1.016737399 1.128755639 1.198970169 1.610482092 1.344007852 1.156992136 1.432278742 1.830358755 1.049754549 1 10.33550918 -1 0.205950838 0.935142417 4.677061363 0.637639147 0.157502003 23.26723145 0.270601579 0.145823635 28.58305061 0.1 1 3.741918946 ASQPDLVDT(ph)PTSSKPQPK ddPTM_HeLa_SAHA_4h_R1 2 ASQPDLVDTPTSSKPQPK 18 1 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 AS(0.007)QPDLVDT(0.638)PT(0.337)S(0.013)S(0.005)KPQPK;ASQPDLVDT(0.993)PT(0.006)S(0.001)SKPQPK ; 114.01 0.00097607 14101300 5979 3683.9 3756.1 4323.1 4559 5769.3 4620.2 6210.9 4728.8 5038.2 TRUE FALSE FALSE 6607.898653 3803.260777 4267.961747 4406.779852 4209.690405 5277.723183 4100.322936 6052.034171 4695.891896 5255.421458 1.25734895 0.723683306 0.812106466 0.838520733 0.801018613 1.004243565 0.780208204 1.151579225 0.893532885 1 12.35959075 -7.262615685 24.99958415 1.121525893 0.868083767 0.18610616 0.148722977 77.66882886 1650659.969 0.024078447 0.028364128 5.46E-08 7.262615685 -0.253442126 ASQS(ph)RPNS(ph)SALETLGGEK ddPTM_HeLa_SAHA_4h_R1 1 ASQSRPNSSALETLGGEK 18 1 O94804 O94804 STK10 Serine/threonine-protein kinase 10 2 0 AS(0.009)QS(0.991)RPNS(0.822)S(0.062)ALET(0.116)LGGEK 106.7 0.020328 13217000 2518.3 2690.1 2067.1 2681.4 2749.9 2805.1 3178.4 2651.2 2154.6 2304 TRUE FALSE FALSE 2783.186348 2777.261005 2348.793623 2733.302374 2539.203256 2566.089699 2820.758067 2583.386143 2139.605963 2403.336716 1.158050942 1.155585477 0.977305264 1.13729481 1.056532462 1.067719593 1.17368409 1.074916439 0.890264751 1 11.23082307 -9.526494875 1.299599135 1.000309427 1.106040812 0.4042325 0.067447105 0.423509626 1.286752816 0.039095246 0.009479575 2.98E-10 9.526494875 0.105731385 ASQSRPNS(ph)SALETLGGEK ddPTM_HeLa_SAHA_4h_R1 2 ASQSRPNSSALETLGGEK 18 1 O94804 O94804 STK10 Serine/threonine-protein kinase 10 1 0 ASQSRPNS(0.5)S(0.5)ALETLGGEK;ASQS(0.003)RPNS(0.992)S(0.005)ALETLGGEK ; 226.14 5.95E-28 22229000 2431 2508.54 1872.71 2611.4 2864.9 2857.5 3308.7 3080.1 2493.2 2532.2 TRUE FALSE FALSE 2686.703734 2589.818342 2127.913166 2661.947423 2645.391981 2614.024924 2936.396368 3001.315502 2475.849618 2641.375534 1.017160831 0.980480931 0.805607964 1.007788324 1.001520589 0.989645316 1.11169212 1.136269895 0.937333441 1 11.36707371 -4.727450971 4.540475812 0.990119752 1.129662444 0.479343804 0.061899195 0.13942704 6.448406591 0.008709169 0.033591243 1.87E-05 4.727450971 0.139542693 ASS(ph)CETYEYPQR ddPTM_HeLa_SAHA_4h_R1 2 ASSCETYEYPQR 12 0 Q9UQC2-2;Q9UQC2 Q9UQC2-2 GAB2 GRB2-associated-binding protein 2 1 0 AS(0.046)S(0.954)CETYEYPQR;AS(0.048)S(0.937)CET(0.014)YEYPQR ; 152.96 0.00029956 10948500 2191.15 2632.2 2078.3 1795.61 2488.93 2701.4 2501.15 2131.73 2144.54 2214.74 TRUE FALSE FALSE 2421.62521 2717.485007 2361.519901 1830.366628 2298.228721 2471.225522 2219.714019 2077.203433 2129.615972 2310.22828 1.048219014 1.176284193 1.022201971 0.79228821 0.994805899 1.069688889 0.960820209 0.899133411 0.921820579 1 11.1738197 -6.496323211 24.98156059 1.03798289 0.949500752 0.207053603 0.088344178 904.4965647 850887.1748 0.012862746 0.019611209 3.19E-07 6.496323211 -0.088482138 ASS(ph)FADMMGILK ddPTM_HeLa_SAHA_4h_R1 2 ASSFADMMGILK 12 0 E9PPF9;E9PLD2;Q9H019-3;Q9H019 E9PPF9 MTFR1L Mitochondrial fission regulator 1-like 1 0 AS(0.035)S(0.965)FADMMGILK;ASS(1)FADMMGILK ; 262.11 4.30E-42 239921000 5536.7 6282.7 6955 6544.8 7090.6 6026.9 7202.8 5271.1 3701.1 5200.1 TRUE FALSE FALSE 6119.075509 6486.263602 7902.79118 6671.484068 6547.31976 5513.374214 6392.321987 5136.272894 3675.343744 5424.30176 1.12808538 1.195778533 1.456923219 1.22992495 1.207034573 1.016420999 1.178459878 0.946900287 0.677569926 1 12.40522172 -8.329744801 1.045446585 1.020971467 1.178361656 0.276761405 0.168072996 0.542641953 1.225678745 0.041536017 0.027479012 4.68E-09 8.329744801 0.157390189 ASS(ph)FLDTSK ddPTM_HeLa_SAHA_4h_R1 2 ASSFLDTSK 9 0 F5H269;Q9Y485 F5H269 DMXL1 DmX-like protein 1 1 0 AS(0.006)S(0.992)FLDT(0.001)SK;AS(0.004)S(0.996)FLDTSK ; 120.06 0.0036372 12200300 5287.1 9613.7 5699.5 4576.3 8251.6 11253.3 8790 4803.3 4551.9 8648 TRUE FALSE FALSE 5843.221436 9925.190188 6476.198178 4664.880904 7619.364191 10294.45553 7800.926066 4680.438541 4520.222957 9020.857602 0.647745668 1.10024907 0.717913802 0.517121665 0.844638562 1.141183686 0.864765459 0.518846295 0.501085723 1 13.13904888 -9.619493599 1.425621545 1.000164715 0.784927367 0 0.253164254 0.715123347 2.606635555 0.146176435 0.033372132 2.40E-10 9.619493599 -0.215237348 ASS(ph)FSGISVLTR ddPTM_HeLa_SAHA_4h_R1 2 ASSFSGISVLTR 12 0 H7C1X4;H7BZ47;H7C207;Q15032-2;Q15032-4;Q15032;Q15032-3 H7C1X4 R3HDM1 R3H domain-containing protein 1 1 0 AS(0.006)S(0.973)FS(0.019)GIS(0.001)VLTR;AS(0.053)S(0.936)FS(0.011)GISVLTR ; 103.46 0.0045054 14055600 3065.1 2875 2956.3 3009.9 3523.4 4304.1 3546 3601.8 3116.1 3448.5 TRUE FALSE FALSE 3387.501281 2968.151886 3359.169168 3068.160967 3253.437853 3937.366466 3146.994747 3509.671171 3094.414806 3597.181712 0.941709803 0.825132597 0.933833606 0.852934662 0.904440786 1.0945698 0.874850091 0.975672472 0.860233109 1 11.81265132 -8.496640586 1.1144308 0.991462634 0.924753069 0 0.081934335 0.647518618 1.633489185 0.022565905 0.013793711 3.19E-09 8.496640586 -0.066709564 ASS(ph)HS(ph)SQTQGGGSVTK ddPTM_HeLa_SAHA_4h_R1 2 ASSHSSQTQGGGSVTK 16 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 2 0 AS(0.023)S(0.968)HS(0.52)S(0.246)QT(0.243)QGGGSVTK;AS(0.006)S(0.994)HS(0.87)S(0.065)QT(0.065)QGGGSVTK ; 181.51 1.77E-08 44308800 4475.58 7515.5 2656.12 6267.7 10997.1 17486.5 8906.4 9153.9 7981.4 8675.6 TRUE FALSE FALSE 4946.342039 7759.007131 3018.082201 6389.020397 10154.50457 15996.55182 7904.228432 8919.756493 7925.856788 9049.647573 0.546578416 0.857382243 0.333502733 0.705996598 1.122088401 1.767643623 0.87342942 0.985646835 0.875819387 1 13.14364589 -5.700009233 5.37554568 0.744164091 1.21450422 0.400614562 0.279739183 0.175172101 9.97132691 0.044155495 0.08871851 2.00E-06 5.700009233 0.470340129 ASS(ph)HSS(ph)QTQGGGSVTK ddPTM_HeLa_SAHA_4h_R1 1 ASSHSSQTQGGGSVTK 16 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 2 0 AS(0.017)S(0.98)HS(0.054)S(0.534)QT(0.364)QGGGS(0.038)VT(0.012)K 130.47 0.0015252 39985000 593.58 1132.9 354.2 853.81 1253.7 2182.9 1061.9 1249.1 1132.7 1036.2 TRUE FALSE FALSE 656.0154678 1169.606703 402.4685314 870.3367272 1157.641777 1996.904639 942.4122172 1217.149831 1124.817448 1080.875653 0.606929637 1.082091821 0.372354147 0.80521448 1.07102216 1.847487853 0.87189698 1.126077572 1.040653886 1 10.07798485 -5.615691961 4.502570521 0.79595254 1.27166392 0.319452486 0.302798831 0.181465243 6.563734396 0.043405642 0.08929614 2.42E-06 5.615691961 0.47571138 ASS(ph)HSSQTQGGGSVTK ddPTM_HeLa_SAHA_4h_R1 2 ASSHSSQTQGGGSVTK 16 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 AS(0.105)S(0.719)HS(0.153)S(0.023)QTQGGGSVTK;AS(0.085)S(0.847)HS(0.063)S(0.005)QTQGGGSVTK ; 169.25 5.31E-07 44534000 5664.3 8623.1 4303.1 11547.6 16379.5 44844 16177.2 15936.5 11754.9 17308.5 TRUE FALSE FALSE 6260.097063 8902.494098 4889.504058 11771.1205 15124.50625 41023.03891 14356.89888 15528.86741 11673.09669 18054.75414 0.346728458 0.493083098 0.270815322 0.65196792 0.837702144 2.272146084 0.795186618 0.860098525 0.646538668 1 14.14009115 -5.508057368 24.59348299 0.634845547 1.307277378 0.3781473 0.419829873 505.6135677 838976.0818 0.064551388 0.139682997 3.10E-06 5.508057368 0.672431831 ASS(ph)LEDLVLK ddPTM_HeLa_SAHA_4h_R1 5 ASSLEDLVLK 10 0 Q15477 Q15477 SKIV2L Helicase SKI2W 1 0 AS(0.025)S(0.975)LEDLVLK;ASS(1)LEDLVLK;ASS(1)LEDLVLK;ASS(1)LEDLVLK;AS(0.003)S(0.997)LEDLVLK ;;;; 237.84 1.24E-23 1828081600 31378 35758.8 30068.8 31682.5 33856 36104.8 36323.9 33783.2 27675 30645.2 TRUE FALSE FALSE 34678.48201 36917.40858 34166.41947 32295.7606 31261.96059 33028.46792 32236.63917 32919.07466 27482.40742 31966.46455 1.084839456 1.154879312 1.068820714 1.010301297 0.977961155 1.033222422 1.008451814 1.029800296 0.85972621 1 14.96427157 -6.24778306 22.79279862 1.053479308 1.01104701 0 0.07338016 391.3661331 653197.9916 0.00777894 0.012835517 5.65E-07 6.24778306 -0.042432299 ASS(ph)LGEIDESSELR ddPTM_HeLa_SAHA_4h_R1 4 ASSLGEIDESSELR 14 0 Q16513-3;Q16513-2;Q16513;Q16513-4;Q16513-5 Q16513-3 PKN2 Serine/threonine-protein kinase N2 1 0 AS(0.003)S(0.997)LGEIDESSELR;AS(0.131)S(0.869)LGEIDESSELR;AS(0.316)S(0.684)LGEIDESSELR;AS(0.003)S(0.997)LGEIDESSELR ;;; 318.46 1.14E-99 287662400 7397.89 7259.9 7186.85 8058.11 9048.71 9436 9082.32 9349.32 7682.49 7673.48 TRUE FALSE FALSE 8176.034013 7495.125523 8166.23649 8214.086371 8355.399795 8631.999715 8060.35345 9110.177932 7629.026927 8004.321276 1.021452504 0.936384893 1.020228475 1.026206481 1.043861123 1.078417447 1.007000241 1.138157455 0.953113533 1 12.96656336 -1 0.481226627 1.005543109 4.088238749 0.522059779 0.037838351 53.65113233 0.539777656 0.006686463 166.7167032 0.1 1 3.082695641 ASS(ph)LNENVDHSALLK ddPTM_HeLa_SAHA_4h_R1 1 ASSLNENVDHSALLK 15 0 Q96SB3 Q96SB3 PPP1R9B Neurabin-2 1 0 AS(0.043)S(0.956)LNENVDHSALLK 199.05 2.35E-12 5507700 623.26 1412.7 958.09 451.56 1041.2 1393.8 1132.5 518.1 735.52 1041.5 TRUE FALSE FALSE 688.8173464 1458.472407 1088.653516 460.3005968 961.4234809 1275.040399 1005.068119 504.8477522 730.4014564 1086.404162 0.634034156 1.342476822 1.002070458 0.423691857 0.884959313 1.173633573 0.925132796 0.464696077 0.672310989 1 10.0853452 ASS(ph)LNFLNK ddPTM_HeLa_SAHA_4h_R1 2 ASSLNFLNK 9 0 Q9H0B6;Q9H0B6-2;A8MZ87 Q9H0B6 KLC2 Kinesin light chain 2 1 0 AS(0.002)S(0.998)LNFLNK;ASS(1)LNFLNK ; 163.9 6.59E-05 245450000 10114.3 9157.3 9373.5 9709.4 10443.2 10060.8 10542.7 9974.1 8786.2 8412.5 TRUE FALSE FALSE 11178.16848 9454.002528 10650.87176 9897.339477 9643.044272 9203.563239 9356.407649 9718.976964 8725.056119 8775.204045 1.273835733 1.077354154 1.213746337 1.127875708 1.098896872 1.048814728 1.066232489 1.107549969 0.99428527 1 13.09921696 -5.624080125 3.462201857 1.134953174 1.073417773 0.010220663 0.082899905 0.558664511 13.11378646 0.015348771 0.032517208 2.38E-06 5.624080125 -0.061535401 ASS(ph)LNVLNVGGK ddPTM_HeLa_SAHA_4h_R1 2 ASSLNVLNVGGK 12 0 Q07866-6;Q07866-4;G3V5R9;Q07866-7;H0YG16;Q07866-9;H0YJK1 Q07866-6 KLC1 Kinesin light chain 1 1 0 AS(0.139)S(0.861)LNVLNVGGK;AS(0.084)S(0.916)LNVLNVGGK ; 203.85 1.77E-10 216930000 9804.6 9517 9105.3 10456.3 10436.7 10992.5 10706.4 9898.2 9731.1 8822.8 TRUE FALSE FALSE 10835.89281 9825.357044 10346.12287 10658.69681 9637.042301 10055.87716 9501.687694 9645.018376 9663.380483 9203.194086 1.177405661 1.067602938 1.124188273 1.15815191 1.047141048 1.092650776 1.032433697 1.048007712 1.0500029 1 13.16791894 ASS(ph)LPGSLQR ddPTM_HeLa_SAHA_4h_R1 2 ASSLPGSLQR 10 0 E3W994;J3KR49;O75122;A0A0U1RQI6;B3KR06;E7ENG2;O75122-2;E7ERI8;E7EW49;O75122-3 E3W994;E7ERI8 CLASP2 CLIP-associating protein 2 1 0 AS(0.105)S(0.895)LPGSLQR;AS(0.15)S(0.846)LPGS(0.003)LQR ; 136.02 3.48E-05 7511700 3295.8 3070.1 2791.1 3402.9 3151.4 3400 3439.2 3551 3059.4 2993.7 TRUE FALSE FALSE 3642.467366 3169.573254 3171.456573 3468.76805 2909.940413 3110.300872 3052.212165 3460.170562 3038.109386 3122.773058 1.166420774 1.014986743 1.015589834 1.110797354 0.931844985 0.996006054 0.977404412 1.108044196 0.972888305 1 11.60861201 -6.400467644 1.321641957 1.07551096 1.00963834 0 0.073284447 0.721760158 2.49526013 0.013695279 0.024472507 3.98E-07 6.400467644 -0.065872621 ASS(ph)PAESS(ph)PEDSGYMR ddPTM_HeLa_SAHA_4h_R1 1 ASSPAESSPEDSGYMR 16 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 2 0 AS(0.192)S(0.808)PAES(0.228)S(0.772)PEDSGYMR 177.39 4.29E-08 9667000 744.09 955.39 709.42 780.33 1054.8 1046.5 845.61 995.51 1026.3 1006.4 TRUE FALSE FALSE 822.3568002 986.3452629 806.0960631 795.4344155 973.9814519 957.3323126 750.4597373 970.0462957 1019.157895 1049.790829 0.783353005 0.939563612 0.767863503 0.757707529 0.927786207 0.911926725 0.714865968 0.924037693 0.970819964 1 10.03588618 -9.423334489 1.041417408 1.004239625 0.835036911 0.348294117 0.078491922 0.453332503 0.843122466 0.058760846 0.013366803 3.77E-10 9.423334489 -0.169202714 ASS(ph)PAESSPEDSGYMR ddPTM_HeLa_SAHA_4h_R1 2 ASSPAESSPEDSGYMR 16 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 AS(0.138)S(0.854)PAES(0.007)S(0.001)PEDSGYMR;AS(0.001)S(0.984)PAES(0.004)S(0.011)PEDSGYMR ; 214.58 2.03E-20 16100200 1178.21 1343.3 1323.74 1412.4 1516.98 1592.54 1326.61 1497.29 1150.57 1359.11 TRUE FALSE FALSE 1302.139534 1386.823801 1504.132393 1439.739044 1400.74932 1456.846633 1177.336351 1458.99149 1142.56309 1417.707883 0.918482255 0.978215483 1.060960732 1.015539986 0.988038041 1.027607062 0.830450592 1.029119967 0.805922788 1 10.46934458 -2.759403882 14.88093049 0.972238876 0.929928426 0 0.082315487 0 0 0.008428355 0 0.001740188 2.759403882 -0.04231045 ASS(ph)PEKAEEDR ddPTM_HeLa_SAHA_4h_R1 1 ASSPEKAEEDR 11 1 Q8N3D4;H0YDZ9 Q8N3D4 EHBP1L1 EH domain-binding protein 1-like protein 1 1 0 AS(0.014)S(0.986)PEKAEEDR 161.25 0.00088502 14746000 1393.8 1611 1108.6 1383.2 1289.3 1702.2 1751.5 1550.7 1687.3 1454.8 TRUE FALSE FALSE 1540.406279 1663.197457 1259.674235 1409.973836 1190.514113 1557.162984 1554.41661 1511.035339 1675.557942 1517.523548 1.015078996 1.095994497 0.830085462 0.929128143 0.78451113 1.026121134 1.024311361 0.995724476 1.104139665 1 10.56750319 -6.770819306 24.99967551 1.013985125 0.933350761 0.300213825 0.082858696 246.9337809 658134.8106 0.012768535 0.016907037 1.70E-07 6.770819306 -0.080634364 ASS(ph)PFR ddPTM_HeLa_SAHA_4h_R1 4 ASSPFR 6 0 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 1 0 AS(0.003)S(0.997)PFR;AS(0.019)S(0.981)PFR;AS(0.102)S(0.898)PFR;AS(0.04)S(0.96)PFR ;;; 124.34 0.003287 286321000 4263.42 4581.5 3474.64 5745.5 5400.79 8405.3 6529.5 5167.7 6356 6814.4 TRUE FALSE FALSE 4711.866077 4729.943606 3948.145844 5856.712461 4986.982637 7689.121153 5794.783475 5035.517717 6311.768078 7108.202133 0.662877334 0.665420527 0.555435224 0.823937242 0.701581433 1.081725169 0.815224914 0.708409472 0.887955627 1 12.79526899 -4.259879628 20.08253642 0.81149776 0.708409034 0.025294973 0.15350785 32.59285592 418853.0543 0.02481823 0.206150232 5.50E-05 4.259879628 -0.103088726 ASS(ph)PGYIDSPTYSR ddPTM_HeLa_SAHA_4h_R1 4 ASSPGYIDSPTYSR 14 0 A0A0C4DGA7;O94929-2;O94929-3;O94929 A0A0C4DGA7 ABLIM3 Actin-binding LIM protein 3 1 0 AS(0.072)S(0.928)PGYIDSPTYSR;AS(0.225)S(0.775)PGYIDSPTYSR;AS(0.008)S(0.992)PGYIDSPTYSR;AS(0.218)S(0.782)PGYIDSPTYSR ;;; 236.42 5.47E-25 89391000 7348 7913.1 6693.4 6612.4 8230.7 8850.5 7980.2 7892.9 8308.3 7403 TRUE FALSE FALSE 8120.896354 8169.489632 7605.541694 6740.392564 7600.065544 8096.387608 7082.246893 7691.011047 8250.481864 7722.179559 1.051632676 1.057925365 0.984895733 0.872861413 0.984186587 1.048458864 0.917130564 0.995963767 1.068413626 1 12.91479239 -6.5499276 10.98811187 1.027303422 0.963176723 0.369711673 0.047991454 0.512654694 205.2168676 0.007492526 0.010617052 2.82E-07 6.5499276 -0.064126699 ASS(ph)PIKQSHEPVPDTSVEK ddPTM_HeLa_SAHA_4h_R1 2 ASSPIKQSHEPVPDTSVEK 19 1 Q9ULM3 Q9ULM3 YEATS2 YEATS domain-containing protein 2 1 0 AS(0.206)S(0.787)PIKQS(0.006)HEPVPDTSVEK;AS(0.053)S(0.839)PIKQS(0.108)HEPVPDTSVEK ; 98.376 0.00091251 41580000 6046.2 5431.4 5178.2 5555.8 6411.3 5800.8 6352.1 6895.4 5526.8 5432.6 TRUE FALSE FALSE 6682.167057 5607.380924 5883.858129 5663.340543 5920.067579 5306.539206 5637.34499 6719.025652 5488.338549 5666.825972 1.179172801 0.989509992 1.038298716 0.999384941 1.044688439 0.93642177 0.99479762 1.185677077 0.968503105 1 12.46832518 ASS(ph)PPDRIDIFGR ddPTM_HeLa_SAHA_4h_R1 2 ASSPPDRIDIFGR 13 1 Q9NWB6-2;Q9NWB6 Q9NWB6-2 ARGLU1 Arginine and glutamate-rich protein 1 1 0 AS(0.168)S(0.832)PPDRIDIFGR;AS(0.086)S(0.914)PPDRIDIFGR ; 99.732 0.0033577 1384890000 5682.7 4819.2 5773.5 5793.6 5934.8 6482.1 6804.3 5649.2 4850.9 5701.3 TRUE FALSE FALSE 6280.432459 4975.345242 6560.282513 5905.743506 5480.076906 5929.788613 6038.662256 5504.701644 4817.142192 5947.110944 1.056047637 0.836598693 1.103104108 0.993044112 0.921468753 0.997087269 1.01539425 0.925609375 0.809997028 1 12.53797327 ASS(ph)PSPLTIGTPESQRK ddPTM_HeLa_SAHA_4h_R1 1 ASSPSPLTIGTPESQRK 17 1 Q9NPI6-2;Q9NPI6 Q9NPI6-2 DCP1A mRNA-decapping enzyme 1A 1 0 AS(0.22)S(0.735)PS(0.043)PLT(0.001)IGTPESQRK 68.625 0.01068 6018200 893.3 1457.3 1308.3 1682.7 1306.9 1606.1 1339.1 1564 1521.4 1085.7 TRUE FALSE FALSE 987.2613926 1504.517476 1486.588311 1715.271092 1206.765604 1469.251244 1188.420944 1523.995145 1510.812454 1132.50984 0.871746414 1.32848071 1.312649354 1.514575 1.065567434 1.29734082 1.049369199 1.345679384 1.33403914 1 10.14530787 -7.260627213 24.99536727 0.939435804 1.268480294 0.104019205 0.180568874 37.8913453 1166152.551 0.0220277 0.026142776 5.49E-08 7.260627213 0.32904449 ASS(ph)VTTFTGEPNTCPR ddPTM_HeLa_SAHA_4h_R1 5 ASSVTTFTGEPNTCPR 16 0 H0YFA4;P52943;P52943-2 H0YFA4 CRIP2 Cysteine-rich protein 2 1 0 ASS(0.5)VT(0.5)T(0.001)FTGEPNTCPR;AS(0.001)S(0.998)VT(0.001)TFTGEPNTCPR;ASS(0.993)VT(0.007)TFTGEPNTCPR;AS(0.002)S(0.926)VT(0.072)TFTGEPNTCPR;AS(0.115)S(0.542)VT(0.216)T(0.036)FT(0.022)GEPNT(0.069)CPR ;;;; 287.43 1.39E-72 187369200 6533.57 7037 6110.69 5445.85 7451.28 8762.56 8749.86 6697.4 5166.15 6216.44 TRUE FALSE FALSE 7220.80087 7265.003417 6943.42301 5551.262302 6880.364536 8015.940591 7765.302724 6526.090206 5130.198342 6484.461151 1.113554496 1.120371184 1.07077872 0.856086909 1.061054169 1.236176824 1.197524751 1.006419817 0.791152607 1 12.66277098 -9.403969882 1.089073092 0.999191349 1.086612977 0.184819524 0.119355057 1.109997707 2.320720746 0.074943371 0.018365775 3.94E-10 9.403969882 0.087421627 ASSDGEGTMSRPASVDGSPVS(ph)PSTNR ddPTM_HeLa_SAHA_4h_R1 2 ASSDGEGTMSRPASVDGSPVSPSTNR 26 1 P35568 P35568 IRS1 Insulin receptor substrate 1 1 0 ASS(0.001)DGEGT(0.008)MS(0.023)RPAS(0.02)VDGS(0.104)PVS(0.606)PS(0.209)T(0.029)NR;AS(0.005)S(0.011)DGEGT(0.016)MS(0.016)RPAS(0.047)VDGS(0.22)PVS(0.491)PS(0.141)T(0.054)NR ; 49.432 0.011737 14014900 895.3 1150.38 713.62 792.82 1073.27 1117.98 926.21 929.63 1390.26 1068.74 TRUE FALSE FALSE 989.4717618 1187.653067 810.8684172 808.1661775 991.0362845 1022.721814 821.9904131 905.8514107 1380.585067 1114.818612 0.887563009 1.06533301 0.727354575 0.724930647 0.888966397 0.917388536 0.737331082 0.812554976 1.238394348 1 10.12259328 -6.753401228 24.99995851 0.954303332 0.804281609 0.448120379 0.116750875 125.3277976 389788.4104 0.012791265 0.017907696 1.76E-07 6.753401228 -0.150021723 ASSDLSIAS(ph)SEEDKLSQNACILESVSEK ddPTM_HeLa_SAHA_4h_R1 1 ASSDLSIASSEEDKLSQNACILESVSEK 28 1 Q9H2G2-2;Q9H2G2 Q9H2G2-2 SLK STE20-like serine/threonine-protein kinase 1 0 AS(0.001)S(0.002)DLS(0.015)IAS(0.49)S(0.114)EEDKLS(0.378)QNACILES(0.001)VSEK 58.47 0.0036438 3057500 198.96 283.34 241.81 350.93 294.96 405.66 285.21 293.38 355.67 260.76 TRUE FALSE FALSE 219.8875257 292.5204019 274.7626075 357.7227576 272.3602285 371.0954858 253.1174202 285.8757644 353.1948635 272.0026397 0.808402175 1.075432217 1.010146842 1.315144434 1.001314652 1.364308399 0.93056972 1.05100364 1.298497926 1 8.087476842 -7.099792099 4.891906964 0.909709919 1.114301908 0 0.182813711 0.200499622 7.690544967 0.022960844 0.028380618 7.95E-08 7.099792099 0.204591989 ASSDLSIASSEEDKLS(ph)QNACILESVSEK ddPTM_HeLa_SAHA_4h_R1 1 ASSDLSIASSEEDKLSQNACILESVSEK 28 1 Q9H2G2-2;Q9H2G2 Q9H2G2-2 SLK STE20-like serine/threonine-protein kinase 1 0 AS(0.004)S(0.004)DLS(0.101)IAS(0.092)S(0.112)EEDKLS(0.593)QNACILES(0.077)VS(0.018)EK 45.745 0.019538 2891600 78.417 272.07 264.5 137.97 231.87 253.05 208.65 193.73 254.33 276.65 TRUE FALSE FALSE 86.66525985 280.8852465 300.5446825 140.6406089 214.1041707 231.4887164 185.1721529 188.7746671 252.5600968 288.5777354 0.300318594 0.973343443 1.041468713 0.487357795 0.741928931 0.802171089 0.641671654 0.654155342 0.875189129 1 8.172816186 ASSEDAGPS(ph)PQTR ddPTM_HeLa_SAHA_4h_R1 2 ASSEDAGPSPQTR 13 0 Q5T5P2;Q5T5P2-9;Q5T5P2-2;Q5T5P2-7;Q5T5P2-10;Q5T5P2-3;Q5T5P2-4;Q5T5P2-8;Q5T5P2-6 Q5T5P2 KIAA1217 Sickle tail protein homolog 1 0 ASSEDAGPS(0.736)PQT(0.264)R;ASSEDAGPS(1)PQTR ; 143.64 0.00026835 8214500 9837.7 6599.2 13837.1 9737.3 7009.3 14030.4 9050.1 6932.1 9376.1 9733.4 TRUE FALSE FALSE 10872.47442 6813.01841 15722.74793 9925.779522 6472.248948 12834.93099 8031.758929 6754.78692 9310.850957 10153.05451 1.070857486 0.671031403 1.548573182 0.977615112 0.637468157 1.264144793 0.791068237 0.665296036 0.917049244 1 13.3096262 -4.54749412 16.03373294 1.025208107 0.696731506 0.17570209 0.249891195 3.84407941 2504.304311 0.031172689 0.116829494 2.83E-05 4.54749412 -0.328476601 ASSEDVASS(ph)PER ddPTM_HeLa_SAHA_4h_R1 2 ASSEDVASSPER 12 0 M0R2H0;A0A087WWI0;Q9H2I8 M0R2H0 C10orf11 Leucine-rich repeat-containing protein C10orf11 1 0 ASSEDVAS(0.003)S(0.997)PER;ASSEDVAS(0.002)S(0.998)PER ; 191.48 5.14E-07 39793000 7829.1 8588.4 7090.5 8623.7 8349.8 10794.9 9339.1 8753.7 8910.7 8908.1 TRUE FALSE FALSE 8652.600659 8866.669795 8056.756414 8790.624184 7710.040128 9875.11379 8288.239889 8529.793029 8848.689713 9292.171786 0.931170975 0.954208553 0.867047726 0.946024717 0.829734997 1.062734742 0.891959391 0.917954729 0.952273582 1 13.18180011 -8.942857202 0.638240411 1.003971164 0.923608027 0.085468628 0.059863116 1.07815946 0.767283937 0.046373692 0.012500073 1.14E-09 8.942857202 -0.080363137 ASSHSS(ph)QTQGGGSVTK ddPTM_HeLa_SAHA_4h_R1 2 ASSHSSQTQGGGSVTK 16 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 ASSHS(0.069)S(0.925)QT(0.005)QGGGSVTK;AS(0.002)S(0.31)HS(0.073)S(0.612)QT(0.002)QGGGSVTK ; 293.77 3.14E-86 4479900 1252.67 1965.18 945.82 2353.81 3113.81 7413.58 3084.64 2876.15 2640.82 3742.51 TRUE FALSE FALSE 1384.431578 2028.853121 1074.711424 2399.371396 2875.230551 6781.901276 2737.548189 2802.582248 2622.442319 3903.867921 0.354630742 0.51970332 0.275294002 0.614613876 0.736508153 1.737226108 0.701239961 0.717898839 0.671754878 1 11.93068853 -5.502912634 24.81640804 0.635166093 1.053672408 0.291480353 0.325668965 857.4850611 1065789.903 0.053418175 0.11794124 3.14E-06 5.502912634 0.418506316 ASSK(ac)RPATADSPKPSAK ddPTM_HeLa_SAHA_4h_R1 2 ASSKRPATADSPKPSAK 17 3 Q03111 Q03111 MLLT1 Protein ENL 0 1 ; ASSK(0.984)RPATADSPK(0.016)PSAK;ASSK(0.972)RPATADSPK(0.028)PSAK 64.476 0.0091248 22536000 2095.23 2197.53 2402.94 3383.2 3608.9 3838.8 3916.2 4137.9 1824.8 2017.67 FALSE TRUE FALSE 2315.615905 2268.731414 2730.400149 3448.686728 3332.386862 3511.712644 3475.538869 4032.05851 1812.101068 2104.661628 1.10023192 1.077955422 1.297310747 1.638594386 1.583336161 1.668540252 1.651352798 1.91577518 0.860994016 1 11.03937259 -6.366188946 1.151594304 1.038824593 1.729630982 0.914585812 0.098775183 0.078181359 0.205494764 0.014283572 0.027016753 4.30E-07 6.366188946 0.690806389 ASSLEDLVLK ddPTM_HeLa_SAHA_4h_R1 1 ASSLEDLVLK 10 0 Q15477 Q15477 SKIV2L Helicase SKI2W 0 0 166.07 6.21E-13 0 751.6 567.85 856.16 992.66 895.09 1001.2 864.48 956.46 764.95 847.34 FALSE FALSE TRUE 830.6567365 586.2487126 972.8330261 1011.87437 826.5083976 915.8921274 767.2064352 931.9951381 759.6266507 883.8729742 0.939791985 0.663272585 1.100648005 1.144818768 0.935098619 1.036225967 0.86800531 1.05444466 0.859429661 1 9.787695237 ASSLSES(ph)SPPKAMK ddPTM_HeLa_SAHA_4h_R1 2 ASSLSESSPPKAMK 14 1 Q9UHB6;F8VQE1;Q9UHB6-2;F8VS07;Q9UHB6-3;F8VRN8;Q9UHB6-4;Q9UHB6-5 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 ASS(0.007)LS(0.232)ES(0.38)S(0.38)PPKAMK;ASSLS(0.092)ES(0.499)S(0.409)PPKAMK ; 75.968 0.012466 12229800 7487.1 1827.72 7059.8 3362.1 4010.6 2248.24 4363.3 5775.3 618.4 2903.25 TRUE FALSE FALSE 8274.62753 1886.939327 8021.872778 3427.178307 3703.308694 2056.677304 3872.33 5627.576189 614.0965041 3028.423316 2.73232196 0.623076476 2.648861121 1.131670823 1.22285041 0.679124775 1.278662062 1.858252827 0.20277763 1 11.56435117 ASSLSESS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 4 ASSLSESSPPK 11 0 Q9UHB6;F8VQE1;Q9UHB6-2;F8VS07;Q9UHB6-3;F8VRN8;Q9UHB6-4;Q9UHB6-5 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 ASSLS(0.001)ES(0.079)S(0.92)PPK;ASSLSES(0.08)S(0.92)PPK;ASSLSES(0.085)S(0.915)PPK;ASSLSES(0.065)S(0.935)PPK ;;; 172.13 7.98E-05 1051037200 15104.8 14179.7 12507.9 12762.9 14825.6 15040.3 14746.4 13745.4 15817.4 12600.1 TRUE FALSE FALSE 16693.59217 14639.13158 14212.41147 13009.94438 13689.66573 13758.78183 13087.09626 13393.81257 15707.32543 13143.35197 1.270116801 1.113805033 1.081338421 0.989849805 1.041565786 1.046824421 0.995719835 1.019056067 1.195077592 1 13.68204564 -6.538572531 3.148081178 1.129913443 1.020457653 0.439264149 0.066234402 0.312422408 6.404953547 0.016184732 0.024250818 2.89E-07 6.538572531 -0.10945579 ASSPAES(ph)SPEDSGYMR ddPTM_HeLa_SAHA_4h_R1 2 ASSPAESSPEDSGYMR 16 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 AS(0.001)SPAES(0.912)S(0.087)PEDSGYMR;AS(0.003)S(0.147)PAES(0.424)S(0.424)PEDS(0.001)GYMR ; 198.81 4.70E-15 17314800 2127.42 1975.09 1969.89 2008.61 2554.58 2797.58 2617.4 2535.2 2371.97 2380.72 TRUE FALSE FALSE 2351.191797 2039.084212 2238.33635 2047.489551 2358.848632 2559.210445 2322.883263 2470.353255 2355.463268 2483.36449 0.946776764 0.821097435 0.901332188 0.824482092 0.949860015 1.030541612 0.935377498 0.994760642 0.948496798 1 11.27808031 -3.229178868 16.53851974 0.951203548 0.935531756 0 0.068062556 0 0 0.009820959 0 0.000589958 3.229178868 -0.015671791 ASSPHGLGSPLVAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 ASSPHGLGSPLVASPR 16 0 Q8IZW8 Q8IZW8 TNS4 Tensin-4 1 0 ASSPHGLGS(0.009)PLVAS(0.991)PR 77.554 0.011237 6804000 996.34 1547.5 873.81 959.19 1970.7 1722.4 1571.9 1580.2 1390.3 1563.2 TRUE FALSE FALSE 1101.139613 1597.640015 992.8882762 977.7565095 1819.705392 1575.64183 1395.025675 1539.780772 1380.624789 1630.597202 0.675298358 0.979788272 0.608910818 0.599630926 1.115974803 0.966297396 0.855530522 0.944304804 0.846698858 1 10.67118473 -5.744305742 24.99885664 0.818938705 0.962010658 0.266342448 0.144097735 391.7015689 571509.5624 0.025002726 0.049907757 1.80E-06 5.744305742 0.143071953 ASSPS(ph)PLTIGTPESQR ddPTM_HeLa_SAHA_4h_R1 3 ASSPSPLTIGTPESQR 16 0 Q9NPI6-2;Q9NPI6 Q9NPI6-2 DCP1A mRNA-decapping enzyme 1A 1 0 AS(0.001)S(0.226)PS(0.772)PLT(0.001)IGTPESQR;AS(0.001)S(0.014)PS(0.985)PLTIGTPESQR;AS(0.259)S(0.206)PS(0.505)PLT(0.025)IGT(0.005)PESQR ;; 268.5 7.35E-59 78176000 1754.64 1841.21 1876.25 1583.64 2265.36 2539.92 2006.11 2028.23 2884.84 1830.89 TRUE FALSE FALSE 1939.201086 1900.866412 2131.935579 1614.293642 2091.788606 2323.504527 1780.377223 1976.350813 2864.764164 1909.828628 1.01537963 0.995307319 1.116296796 0.845255757 1.095275553 1.216603675 0.932218314 1.034831495 1.500011112 1 10.89922747 ASSSGPRS(ph)PLDQR ddPTM_HeLa_SAHA_4h_R1 2 ASSSGPRSPLDQR 13 1 O14646-2;O14646 O14646-2 CHD1 Chromodomain-helicase-DNA-binding protein 1 1 0 ASS(0.001)S(0.018)GPRS(0.981)PLDQR;ASS(0.001)S(0.071)GPRS(0.928)PLDQR ; 132.51 0.0028997 30416300 2256 2380.6 1900.18 2360.47 2708.1 2556.4 2263.6 2538.34 2329.51 2099.6 TRUE FALSE FALSE 2493.296431 2457.733002 2159.126635 2406.16031 2500.605963 2338.580338 2008.893771 2473.412938 2313.29875 2190.124031 1.138427046 1.122188957 0.985846739 1.098641116 1.141764543 1.067784429 0.917251143 1.12934834 1.056240979 1 11.09679686 -4.96067789 24.99730092 1.073208175 1.015604232 0.083029943 0.069202474 297.8128827 189318.4374 0.010449163 0.031347433 1.09E-05 4.96067789 -0.057603942 ASSSKES(ph)PSPSVR ddPTM_HeLa_SAHA_4h_R1 2 ASSSKESPSPSVR 13 1 H0Y517;H7C1U3;Q5T0F9-3;Q5T0F9-2;Q5T0F9 H0Y517 CC2D1B Coiled-coil and C2 domain-containing protein 1B 1 0 ASS(0.124)S(0.026)KES(0.848)PS(0.003)PSVR;AS(0.001)S(0.028)S(0.028)KES(0.915)PS(0.028)PSVR ; 205.33 2.04E-10 11896600 1736.82 1848.68 1786.67 1707.98 1817.53 1905.41 2003.58 1931.05 2111.11 1504.46 TRUE FALSE FALSE 1919.506696 1908.578445 2030.148083 1741.040423 1678.271244 1743.058348 1778.131905 1881.656537 2096.418614 1569.324633 1.223141889 1.216178224 1.293644438 1.109420184 1.069422609 1.11070604 1.133055499 1.199023132 1.335873132 1 10.61592811 -9.385836704 1.123540965 1.000494376 1.170764521 0 0.121190223 0.361593234 0.820122107 0.047649356 0.01236794 4.11E-10 9.385836704 0.170270146 ASST(ph)STPEPTR ddPTM_HeLa_SAHA_4h_R1 1 ASSTSTPEPTR 11 0 A0A0U1RRM6;Q8N8S7-3;Q8N8S7-2;Q8N8S7 A0A0U1RRM6 ENAH Protein enabled homolog 1 0 AS(0.003)S(0.015)T(0.328)S(0.328)T(0.328)PEPTR 105.13 0.0093806 348400 136.38 348.78 216.9 382.99 340.59 285.05 310.51 224.33 381.07 325.43 TRUE FALSE FALSE 150.7250741 360.0807008 246.4580024 390.4033253 314.4940678 260.7621364 275.5705976 218.5919634 378.4181028 339.4608799 0.44401309 1.060742849 0.726027702 1.150068678 0.926451578 0.768165499 0.811788969 0.643938599 1.11476204 1 8.407101515 -4.258012565 20.52343396 0.799223803 0.64393788 0 0.219135013 90.81712373 543532.9596 0.033994286 0.315962164 5.52E-05 4.258012565 -0.155285923 ASSTS(ph)TPEPTR ddPTM_HeLa_SAHA_4h_R1 5 ASSTSTPEPTR 11 0 A0A0U1RRM6;Q8N8S7-3;Q8N8S7-2;Q8N8S7 A0A0U1RRM6 ENAH Protein enabled homolog 1 0 AS(0.013)S(0.008)T(0.052)S(0.587)T(0.34)PEPTR;AS(0.121)S(0.185)T(0.121)S(0.286)T(0.286)PEPT(0.001)R;AS(0.001)S(0.012)T(0.084)S(0.451)T(0.451)PEPT(0.002)R;AS(0.046)S(0.033)T(0.082)S(0.419)T(0.419)PEPT(0.001)R;ASS(0.013)T(0.027)S(0.476)T(0.476)PEPT(0.007)R ;;;; 135.8 0.0010875 238372900 7246.56 8637.71 5950.87 8072.68 7737.82 9315.97 8037.87 6737.95 9505.06 9348.2 TRUE FALSE FALSE 8008.786429 8917.577471 6761.823573 8228.938395 7144.949903 8522.196946 7133.427713 6565.602995 9438.913514 9751.246651 0.821308979 0.9145064 0.693431703 0.843885781 0.732721688 0.873959736 0.731540076 0.673309089 0.967969927 1 13.25137096 -13.52287874 0.114401388 1.750107045 0.655882467 0.627033431 0.066736327 43.04044612 0.359071111 7.45972389 0.346431217 3.00E-14 13.52287874 -1.094224577 ASSTST(ph)PEPTR ddPTM_HeLa_SAHA_4h_R1 2 ASSTSTPEPTR 11 0 A0A0U1RRM6;Q8N8S7-3;Q8N8S7-2;Q8N8S7 A0A0U1RRM6 ENAH Protein enabled homolog 1 0 ASS(0.001)T(0.005)S(0.03)T(0.964)PEPTR;AS(0.009)S(0.157)T(0.031)S(0.169)T(0.632)PEPT(0.002)R ; 115.91 0.0047529 287432100 7340.22 8526.39 6608.11 8271.02 8486.99 9382.33 7938.74 7234.25 8772.9 9160.17 TRUE FALSE FALSE 8112.298018 8802.65063 7508.628817 8431.117552 7836.71866 8582.9027 7045.452082 7049.20836 8711.848675 9555.109757 0.849001029 0.921250603 0.785823398 0.882367421 0.820159983 0.898252654 0.737349152 0.73774227 0.91174763 1 13.22205673 -13.52287875 0.078867904 1.601165031 0.634334268 0.528630121 0.055299952 79.44319927 0.481597595 8.460892135 0.96506763 3.00E-14 13.52287875 -0.966830763 ASSVGVLS(ph)PQKK ddPTM_HeLa_SAHA_4h_R1 1 ASSVGVLSPQKK 12 1 Q9UGU5 Q9UGU5 HMGXB4 HMG domain-containing protein 4 1 0 ASSVGVLS(1)PQKK 136.3 0.0020981 3920500 827.61 638.76 656.77 843.24 687.04 827.71 690.38 759.76 801.47 834.63 TRUE FALSE FALSE 914.661817 659.4562431 746.2711953 859.5621295 634.3991436 757.1844514 612.6966254 740.3264393 795.892505 870.6149839 1.050592781 0.75746025 0.857177063 0.987304544 0.728679331 0.869712175 0.703751528 0.850348837 0.914172763 1 9.76589104 -7.268345363 24.98239139 1.023891039 0.823458685 0.42994265 0.084755801 258.5128872 935168.6598 0.012783492 0.014784981 5.39E-08 7.268345363 -0.200432354 ASSVS(ph)TKESPAR ddPTM_HeLa_SAHA_4h_R1 1 ASSVSTKESPAR 12 1 E7ETY2;Q13428-6;Q13428-7;H0Y8Y7;Q13428-5;Q13428;Q13428-3;Q13428-4 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 ASS(0.008)VS(0.763)T(0.057)KES(0.172)PAR 128.57 0.0049856 21981000 4411.3 4308.8 3766.9 4075.3 4947.6 5050.1 5137.3 4598.1 4924.4 4993.8 TRUE FALSE FALSE 4875.300774 4448.407947 4280.233515 4154.183324 4568.515957 4619.803069 4559.237483 4480.48726 4890.130699 5209.107157 0.935918695 0.853967448 0.821682754 0.797484713 0.877024761 0.886870423 0.875243558 0.860125761 0.938765618 1 12.3468204 -7.564350984 1.470447276 0.979526034 0.852258477 0.703295571 0.030870763 0.130749025 0.570617878 0.00687588 0.007194946 2.73E-08 7.564350984 -0.127267558 ASSVSTKES(ph)PAR ddPTM_HeLa_SAHA_4h_R1 3 ASSVSTKESPAR 12 1 E7ETY2;Q13428-6;Q13428-7;H0Y8Y7;Q13428-5;Q13428;Q13428-3;Q13428-4 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 ASSVS(0.001)T(0.002)KES(0.997)PAR;ASSVS(0.007)T(0.004)KES(0.989)PAR;ASSVSTKES(1)PAR ;; 225.21 9.08E-22 382960300 6512.1 6064.1 5173.4 6020 6432.4 7084.9 7020.4 7030.4 6612.3 5815.6 TRUE FALSE FALSE 7197.072557 6260.580819 5878.40401 6136.525805 5939.550902 6481.226661 6230.446115 6850.572548 6566.284466 6066.338977 1.186394724 1.032019616 0.969020035 1.011569882 0.979099738 1.068391774 1.027052088 1.129276253 1.082413049 1 12.5666104 -7.041506071 24.80029733 1.089134863 1.02668254 0.16720905 0.059609088 729.9934828 436177.1557 0.013226609 0.016200324 9.09E-08 7.041506071 -0.062452323 AST(ph)PDWVSEGPQPGLR ddPTM_HeLa_SAHA_4h_R1 4 ASTPDWVSEGPQPGLR 16 0 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 AS(0.01)T(0.99)PDWVSEGPQPGLR;AS(0.1)T(0.9)PDWVSEGPQPGLR;AS(0.172)T(0.828)PDWVSEGPQPGLR;AS(0.069)T(0.931)PDWVSEGPQPGLR ;;; 249.39 1.27E-36 227573000 4396.7 5720.68 4126.91 3997.67 5319.6 5125.64 4780.04 3929.58 5162.13 4491.8 TRUE FALSE FALSE 4859.165079 5906.033785 4689.303803 4075.050684 4912.013397 4688.906636 4242.177319 3829.067034 5126.206317 4685.46348 1.037072447 1.260501509 1.000819625 0.869722003 1.048351656 1.000734859 0.905391182 0.817222682 1.094066006 1 12.19397605 -6.514818668 24.91779907 1.040717366 0.937464315 0.361228909 0.094444299 452.718854 1399585.148 0.01515449 0.022020345 3.06E-07 6.514818668 -0.103253052 AST(ph)PDWVSEGPQPGLRR ddPTM_HeLa_SAHA_4h_R1 1 ASTPDWVSEGPQPGLRR 17 1 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 AS(0.172)T(0.828)PDWVSEGPQPGLRR 141.22 0.00016589 47861000 1777.8 1190.9 1915.9 1248.4 1643.9 1443 1691 1455.9 1085.9 1652.5 TRUE FALSE FALSE 1964.797161 1229.485941 2176.988874 1272.564587 1517.944737 1320.048282 1500.72423 1418.660186 1078.343133 1723.747362 1.139840561 0.713263422 1.262939641 0.738254697 0.880607432 0.76580148 0.870617274 0.823009344 0.62558073 1 10.75133263 -6.238528139 24.97907442 1.049068255 0.819549821 0 0.19087707 584.4936106 637246.8582 0.019530515 0.032373388 5.77E-07 6.238528139 -0.229518435 AST(ph)PVLK ddPTM_HeLa_SAHA_4h_R1 1 ASTPVLK 7 0 A0A669KBK8;Q04724;F6T2C8;A0A669KAE5 A0A669KBK8 TLE1 Transducin-like enhancer protein 1 1 0 AS(0.003)T(0.997)PVLK 112.41 0.012151 8182800 9466 9893 9133.9 9897.9 9012.6 9442.9 9072.4 8998.6 10222 9555.8 TRUE FALSE FALSE 10461.67731 10213.53969 10378.62032 10089.48817 8322.056535 8638.311796 8051.549675 8768.428842 10150.86427 9967.797303 1.049547557 1.02465363 1.041215026 1.012208401 0.834894238 0.866621936 0.80775616 0.879675677 1.01836584 1 13.28305902 -5.780541126 6.903494587 1.025089319 0.845520275 0.939925222 0.021936908 0.028488646 5.525526427 0.003601361 0.006731226 1.66E-06 5.780541126 -0.179569044 AST(ph)PYIEK ddPTM_HeLa_SAHA_4h_R1 2 ASTPYIEK 8 0 C9J618;C9J5A2;C9J347;C9J7P5;C9IZN7;Q969Z0-2;Q969Z0 C9J618 TBRG4 Protein TBRG4 1 0 AS(0.001)T(0.999)PYIEK;AS(0.015)T(0.985)PYIEK ; 148.91 0.00054488 25095000 8621.1 10667 10041 7481.4 9754.9 9248.8 11486.6 9646.6 9077.9 9442.4 TRUE FALSE FALSE 9527.906853 11012.6178 11409.33519 7626.213315 9007.481669 8460.750208 10194.09754 9399.85394 9014.726155 9849.508074 0.967348499 1.118088103 1.158365992 0.774273523 0.914510816 0.859002312 1.034985449 0.954347554 0.915246334 1 13.26583596 -6.256979487 24.99697919 1.00817553 0.912214317 0.299367315 0.09149858 477.2874714 2675116.911 0.013852074 0.022475368 5.53E-07 6.256979487 -0.095961213 ASTAPGAEAS(ph)PSPCITER ddPTM_HeLa_SAHA_4h_R1 1 ASTAPGAEASPSPCITER 18 0 Q66PJ3 Q66PJ3 ARL6IP4 ADP-ribosylation factor-like protein 6-interacting protein 4 1 0 ASTAPGAEAS(0.996)PS(0.004)PCITER 113.14 0.00020466 0 358.8 686.73 663.97 614.08 743.71 679.85 752.48 572.46 619.06 652.47 TRUE FALSE FALSE 396.5402302 708.9805026 754.4523738 625.9664064 686.7271005 621.9229553 667.80897 557.8173021 614.7519111 680.6011748 0.582632303 1.041697442 1.108508774 0.919725721 1.009000757 0.913784722 0.981204551 0.819594974 0.903248384 1 9.410665831 -7.211786509 24.99685904 0.802909357 0.973568293 0.209479692 0.123198989 468.1363785 235675.188 0.027864456 0.034126822 6.14E-08 7.211786509 0.170658935 ASTAPGAEASPS(ph)PCITER ddPTM_HeLa_SAHA_4h_R1 1 ASTAPGAEASPSPCITER 18 0 Q66PJ3 Q66PJ3 ARL6IP4 ADP-ribosylation factor-like protein 6-interacting protein 4 1 0 ASTAPGAEAS(0.234)PS(0.762)PCIT(0.003)ER 157.37 7.14E-14 0 1033.7 829.97 848.3 1038.7 1141.7 1222.9 1215.3 1153.9 971.98 843.41 TRUE FALSE FALSE 1142.429309 856.8615726 963.9019062 1058.80554 1054.223193 1118.70204 1078.551246 1124.384909 965.215912 879.7735326 1.298549304 0.97395698 1.095625034 1.203497833 1.19828928 1.271579558 1.225941911 1.278039026 1.097118606 1 9.780988389 -9.540594068 1.244192023 0.997689401 1.200398908 0.24620408 0.095666941 0.419137296 1.140320722 0.073668945 0.01669358 2.88E-10 9.540594068 0.202709507 ASTAS(ph)PCNNNINAATAVALQEPR ddPTM_HeLa_SAHA_4h_R1 1 ASTASPCNNNINAATAVALQEPR 23 0 Q71RC2-6;Q71RC2-5;Q71RC2-3;Q71RC2;Q71RC2-4 Q71RC2-6 LARP4 La-related protein 4 1 0 AS(0.038)T(0.034)AS(0.928)PCNNNINAATAVALQEPR 109.14 7.76E-06 0 805.68 968.75 582.82 755.67 859.16 827.72 719.4 834.13 694.38 670.65 TRUE FALSE FALSE 890.425119 1000.138136 662.2436744 770.2970856 793.3313464 757.1935994 638.4512186 812.7941624 689.547753 699.5650036 1.272826849 1.429657188 0.946650663 1.101108663 1.134035211 1.082377757 0.912640306 1.161856523 0.985680744 1 9.450314309 ASTNAMLISAGLPPLK ddPTM_HeLa_SAHA_4h_R1 1 ASTNAMLISAGLPPLK 16 0 O43143 O43143 DHX15 Pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15 0 0 192.65 3.49E-18 0 254.44 136.87 0 207.82 196.92 204.58 129.92 0 0 242.28 FALSE FALSE TRUE 281.2031666 141.3046778 0 211.8426566 181.8320321 187.1486331 115.3010597 0 0 252.7258765 1.112680547 0.559122318 0 0.83823097 0.719483239 0.740520265 0.456229735 0 0 1 7.981429579 -7.219442347 5.883517523 1.053361646 0.485674508 0 0.428460737 0.128120277 11.9421427 0.045300118 0.055154448 6.03E-08 7.219442347 -0.567687138 ASTNS(ph)ETNRGESEK ddPTM_HeLa_SAHA_4h_R1 1 ASTNSETNRGESEK 14 1 J3QKN5;J3KS94;J3QQK6;P02686-2;P02686 J3QKN5 MBP Myelin basic protein 1 0 ASTNS(0.997)ET(0.002)NRGESEK 125.5 0.0003196 0 381.02 503.32 267.41 312.24 461.87 645.14 417.28 542.57 484.04 420.49 TRUE FALSE FALSE 421.0974318 519.6278982 303.8512422 318.2838567 426.4816204 590.1704425 370.3265562 528.691845 480.6715262 438.6193817 0.960052039 1.184689779 0.692744678 0.725649321 0.972327348 1.345518386 0.844300484 1.205354499 1.095873886 1 8.776825753 -5.487847143 24.74660815 0.953311953 1.112305549 0.175483278 0.181847033 794.4422329 561199.7152 0.02449657 0.054751187 3.25E-06 5.487847143 0.158993596 ASTSDYQVISDRQT(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 ASTSDYQVISDRQTPK 16 1 Q8NFH5-2;Q8NFH5;Q8NFH5-3 Q8NFH5-2 NUP35 Nucleoporin NUP53 1 0 ASTSDYQVISDRQT(1)PK;ASTSDYQVIS(0.014)DRQT(0.986)PK ; 108.25 0.0023714 90209000 5795.4 5510.3 5090.1 5630.3 6819.9 7173 6458.6 6350.3 6591 6347.5 TRUE FALSE FALSE 6404.986762 5688.837335 5783.75232 5739.282598 6297.360735 6561.820046 5731.86133 6187.868521 6545.132694 6621.171789 0.967349431 0.859188904 0.873523978 0.866807686 0.9510946 0.991036067 0.865686847 0.934557918 0.988515765 1 12.69287085 -7.44808889 5.378652755 0.985971566 0.906677746 0.446537895 0.04091249 0.158439552 7.959177112 0.007486943 0.008442287 3.56E-08 7.44808889 -0.079293819 ASTSSSSSSSSNQQTEKET(ph)NTPK ddPTM_HeLa_SAHA_4h_R1 1 ASTSSSSSSSSNQQTEKETNTPK 23 1 C9J2P0;P51965-3;P51965 C9J2P0 UBE2E1 Ubiquitin-conjugating enzyme E2 E1 1 0 ASTSSSSSS(0.001)S(0.001)S(0.001)NQQT(0.006)EKET(0.495)NT(0.495)PK 99.836 0.00012859 9503100 1510.7 1834 1731.2 1273.9 1478.4 1475.5 1774.2 1636.1 1842.7 1756 TRUE FALSE FALSE 1669.602357 1893.422803 1967.11892 1298.558177 1365.125311 1349.779099 1574.562347 1594.250931 1829.876501 1831.709754 0.911499409 1.0336915 1.073925013 0.708932283 0.745273812 0.736895732 0.859613453 0.8703622 0.998999157 1 10.8389752 -6.256357186 24.99964596 0.971898418 0.783611968 0.733340907 0.064754247 216.354848 1064262.471 0.010951629 0.01780155 5.54E-07 6.256357186 -0.188286451 ASTSSSSSSSSNQQTEKETNT(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 ASTSSSSSSSSNQQTEKETNTPK 23 1 C9J2P0;P51965-3;P51965 C9J2P0 UBE2E1 Ubiquitin-conjugating enzyme E2 E1 1 0 ASTSSSSSSSSNQQTEKET(0.07)NT(0.929)PK;ASTSSSSSS(0.002)S(0.008)S(0.029)NQQT(0.18)EKET(0.043)NT(0.737)PK;ASTSSSSSSSSNQQT(0.003)EKET(0.032)NT(0.965)PK ;; 105.17 8.68E-05 46327000 2852.71 2830.26 2617.93 3018.78 2999.85 2914.64 2971.77 3054.12 3625.17 2900.86 TRUE FALSE FALSE 3152.771127 2921.962281 2974.687867 3077.212852 2770.002141 2666.296275 2637.378618 2976.000033 3599.942147 3025.930271 1.04191797 0.965640983 0.98306557 1.016947707 0.91542167 0.881149278 0.871592661 0.983499211 1.189697655 1 11.56316303 -5.741204083 6.25480408 1.012580667 0.906980093 0.424590619 0.065804337 0.075919369 10.20678839 0.005255945 0.010325506 1.81E-06 5.741204083 -0.105600575 ASTVS(ph)PGGYMVPK ddPTM_HeLa_SAHA_4h_R1 3 ASTVSPGGYMVPK 13 0 Q5TGY3 Q5TGY3 AHDC1 AT-hook DNA-binding motif-containing protein 1 1 0 AST(0.017)VS(0.983)PGGYMVPK;AS(0.004)T(0.025)VS(0.971)PGGYMVPK;AS(0.001)T(0.003)VS(0.991)PGGY(0.005)MVPK ;; 225.63 6.35E-23 28903300 4990 5634.1 5892.9 5922.8 6158 6613.7 5834.7 5838.4 5172.9 5360 TRUE FALSE FALSE 5514.871095 5816.648537 6695.953723 6037.444359 5686.17537 6050.175552 5178.1642 5689.062182 5136.901368 5591.095831 0.986366763 1.040341413 1.197610258 1.079832029 1.017005528 1.082109078 0.926144777 1.017521851 0.918764679 1 12.44891536 -3.371504586 11.15088245 1.018427182 1.036140741 0 0.077609069 209610.7846 12675.29694 0.010140211 477437.6534 0.000425104 3.371504586 0.017713559 ASVALT(ph)PTAPSR ddPTM_HeLa_SAHA_4h_R1 2 ASVALTPTAPSR 12 0 E9PHV5;P28290-3;P28290;P28290-2;E7EUL7;H7BZ26 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 ASVALT(0.995)PT(0.005)APSR;AS(0.002)VALT(0.998)PTAPSR ; 179.67 4.35E-05 92720000 2667.24 2812.61 2753.44 3392.68 3285.18 3819.62 3203.26 2781.7 3354.22 2918.45 TRUE FALSE FALSE 2947.792541 2903.740409 3128.664464 3458.350227 3033.470218 3494.166887 2842.820754 2710.548142 3330.87771 3044.278662 0.968305753 0.953835286 1.027719474 1.136016315 0.996449588 1.147781552 0.933824091 0.890374517 1.0941435 1 11.57188471 -4.536950102 24.99945706 1.007078217 0.901236807 0.271340847 0.070034319 197.9825533 351740.1361 0.009275851 0.03473804 2.90E-05 4.536950102 -0.10584141 ASVALTPTAPS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 ASVALTPTAPSR 12 0 E9PHV5;P28290-3;P28290;P28290-2;E7EUL7;H7BZ26 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 ASVALTPT(0.001)APS(0.999)R;ASVALTPT(0.001)APS(0.999)R ; 117.27 0.0016688 24057000 2024.7 2541.7 1989.29 2580 2492.5 3392.6 2177.8 2556.2 2854 2593.4 TRUE FALSE FALSE 2237.667236 2624.052748 2260.380081 2629.939631 2301.525188 3103.531394 1932.748212 2490.816105 2834.138782 2705.214166 0.827168238 0.969998154 0.835564189 0.972174279 0.850773746 1.147240552 0.714452939 0.920746363 1.047657822 1 11.4015271 -9.62348972 1.447727159 0.99982504 0.895197942 0.143068224 0.110159247 0.711505349 2.685688203 0.071215896 0.016406046 2.38E-10 9.62348972 -0.104627098 ASVGMYLIS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 ASVGMYLISK 10 0 F8WEJ5;P08243-3;P08243-2;P08243 F8WEJ5 ASNS Asparagine synthetase [glutamine-hydrolyzing] 1 0 ASVGMYLIS(1)K 84.476 0.022732 9198600 1223.4 1259.3 998.98 1174.2 1524.4 1408.1 1480.2 1541.9 1199.7 1211.5 TRUE FALSE FALSE 1352.082825 1300.102146 1135.115792 1196.928339 1407.600801 1288.121958 1313.644 1502.460431 1191.35119 1263.733694 1.069911194 1.028778573 0.898223888 0.947136525 1.113842899 1.019298579 1.039494323 1.188905889 0.942723293 1 10.30347676 -4.256222944 3.595635527 1.022720067 1.208933803 0.418409177 0.062218454 0.230948005 5.287323008 0.008456769 0.116109704 5.54E-05 4.256222944 0.186213736 ASVITQVFHVPLEER ddPTM_HeLa_SAHA_4h_R1 2 ASVITQVFHVPLEER 15 0 A0A024R4E5;Q00341-2;Q00341;C9JT62;C9JHS7;C9JK79;C9JHZ8;C9JES8;C9JZI8;C9J5E5;C9JIZ1 A0A024R4E5 HDLBP Vigilin 0 0 ; ; 88.561 0.0085613 687600 0 0 0 76.027 176.36 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 77.49861252 162.8473349 0 0 0 0 0 0 ASVLDTSMS(ph)AGSGSPSK ddPTM_HeLa_SAHA_4h_R1 3 ASVLDTSMSAGSGSPSK 17 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 ASVLDT(0.01)S(0.041)MS(0.906)AGS(0.014)GS(0.027)PS(0.002)K;ASVLDT(0.001)S(0.019)MS(0.654)AGS(0.312)GS(0.014)PSK;ASVLDT(0.009)S(0.027)MS(0.931)AGS(0.033)GSPSK ;; 166.04 4.42E-06 102715900 5744.8 6516.4 4911.9 5626.6 6644.2 6876.2 6407.6 5403.1 9284.9 6060.3 TRUE FALSE FALSE 6349.064422 6727.535636 5581.268152 5735.510979 6135.122831 6290.309076 5686.599984 5264.896526 9220.285625 6321.589191 1.004346254 1.064215885 0.882890043 0.907289418 0.970503246 0.995051859 0.899552282 0.832843826 1.458539197 1 12.62607157 -6.753096258 24.9997916 1.006772007 0.919854037 0.183012666 0.150057441 129.0177584 386594.6307 0.00744079 0.01042162 1.77E-07 6.753096258 -0.08691797 ASVLDTSMSAGS(ph)GSPSK ddPTM_HeLa_SAHA_4h_R1 2 ASVLDTSMSAGSGSPSK 17 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 ASVLDTSMS(0.006)AGS(0.927)GS(0.06)PS(0.007)K;ASVLDTSMSAGS(0.884)GS(0.116)PSK ; 219.03 5.87E-21 126480000 4130.54 4915.12 3882.31 4276.27 5121.13 5569.38 4320.03 4426.43 6844.64 5045.9 TRUE FALSE FALSE 4565.009149 5074.373113 4411.370989 4359.043389 4728.750126 5094.837492 3833.928855 4313.20833 6797.007593 5263.453443 0.867303036 0.964076755 0.838113424 0.828171739 0.898412074 0.967964768 0.728405579 0.819463566 1.291358927 1 12.36179397 -13.52287875 0.118554934 1.46612378 0.784291312 0.400357798 0.113212847 66.93220635 0.574542465 7.515670338 0.315441576 3.00E-14 13.52287875 -0.681832468 ASVLDTSMSAGS(ph)GSPSKTVTPK ddPTM_HeLa_SAHA_4h_R1 1 ASVLDTSMSAGSGSPSKTVTPK 22 1 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 ASVLDT(0.007)S(0.033)MS(0.029)AGS(0.638)GS(0.274)PS(0.014)KT(0.005)VTPK 97.542 0.00013328 13350000 2620.5 1368.8 2626.5 1930.3 1610.2 1669.1 1885.9 1792.1 1244.6 2177 TRUE FALSE FALSE 2896.136213 1413.150018 2984.425742 1967.663748 1486.826824 1526.88329 1673.693569 1746.260677 1235.938727 2270.861124 1.275347128 0.622296979 1.314226445 0.866483523 0.654741414 0.672380743 0.73703035 0.768986117 0.544259935 1 11.14902376 -6.02624156 5.793799978 1.099954749 0.712437455 0.031624256 0.251528696 0.115645205 12.41630497 0.027971255 0.048150062 9.41E-07 6.02624156 -0.387517294 ASVLDTSMSAGSGS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 6 ASVLDTSMSAGSGSPSK 17 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 ASVLDT(0.002)S(0.009)MS(0.302)AGS(0.055)GS(0.632)PSK;ASVLDTSMSAGS(0.001)GS(0.976)PS(0.023)K;ASVLDTSMSAGS(0.012)GS(0.951)PS(0.037)K;ASVLDTSMSAGS(0.002)GS(0.773)PS(0.225)K;ASVLDTSMSAGS(0.036)GS(0.943)PS(0.021)K;ASVLDTSMSAGS(0.003)GS(0.975)PS(0.021)K ;;;;; 278.79 2.06E-72 185584100 12559.73 16303.7 11446.64 13187.9 14639.5 15547 13956.19 12197.74 19485.8 14025.6 TRUE FALSE FALSE 13880.82003 16831.95058 13006.52849 13443.17087 13517.82467 14222.30813 12385.80277 11885.73947 19350.19673 14630.31226 0.948771276 1.150484712 0.889012364 0.918857413 0.923960093 0.972112412 0.846584991 0.812405044 1.322609962 1 13.83667294 -2.500844836 0.438496454 0.985210815 2.59E-18 0.241813493 0.125853044 14.02998513 0.548728164 0.014644954 10.13971406 0.003156132 2.500844836 -0.985210815 ASVLDTSMSAGSGS(ph)PSKTVTPK ddPTM_HeLa_SAHA_4h_R1 3 ASVLDTSMSAGSGSPSKTVTPK 22 1 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 ASVLDT(0.006)S(0.023)MS(0.082)AGS(0.049)GS(0.828)PS(0.01)KT(0.001)VTPK;ASVLDT(0.008)S(0.037)MS(0.045)AGS(0.1)GS(0.797)PS(0.01)KT(0.003)VTPK;ASVLDTSMS(0.001)AGS(0.028)GS(0.965)PS(0.005)KT(0.001)VTPK ;; 97.999 0.00012999 33704000 7344.1 4314 5888.3 6352.4 5944.6 5365.9 6139.2 6361.3 4125.5 5462 TRUE FALSE FALSE 8116.586134 4453.776431 6690.726859 6475.359888 5489.126032 4908.695132 5448.401059 6198.587157 4096.79031 5697.49355 1.424588911 0.781708025 1.174328115 1.136527814 0.963428213 0.861553434 0.956280338 1.087949833 0.719051329 1 12.47611167 -6.293361236 1.011777785 1.180872439 0.964883739 0 0.220912545 0.712633753 1.445213897 0.036900456 0.076427086 5.09E-07 6.293361236 -0.2159887 ASVS(ph)GPNS(ph)PSETRR ddPTM_HeLa_SAHA_4h_R1 1 ASVSGPNSPSETRR 14 1 A0A087X0X0;C9J453;A0A087X255;O15344-2;O15344 A0A087X0X0 MID1 E3 ubiquitin-protein ligase Midline-1 2 0 AS(0.055)VS(0.837)GPNS(0.561)PS(0.34)ET(0.207)RR 88.768 0.018502 11208000 1382.7 1268.6 1406.4 1485.7 1744.6 1788.3 1443.7 1861.5 1360.5 1380.6 TRUE FALSE FALSE 1528.13873 1309.703472 1598.056868 1514.457872 1610.929125 1635.926779 1281.251076 1813.885525 1351.03217 1440.124422 1.061115766 0.909437721 1.109665834 1.051615991 1.118604129 1.135962111 0.88968082 1.259533897 0.938135725 1 10.49197775 ASVS(ph)GPNSPSET(ph)RR ddPTM_HeLa_SAHA_4h_R1 1 ASVSGPNSPSETRR 14 1 A0A087X0X0;C9J453;A0A087X255;O15344-2;O15344 A0A087X0X0 MID1 E3 ubiquitin-protein ligase Midline-1 2 0 AS(0.005)VS(0.748)GPNS(0.386)PS(0.421)ET(0.441)RR 82.837 0.021608 8398800 2052.6 1845.8 1943.5 2064.7 1760.7 2129 1869.7 1913.3 1855.7 1581.9 TRUE FALSE FALSE 2268.501886 1905.605131 2208.350059 2104.665254 1625.795546 1947.597223 1659.316435 1864.360556 1842.786033 1650.103451 1.374763434 1.154839795 1.338310066 1.275474731 0.98526886 1.180287952 1.005583277 1.12984465 1.116770001 1 10.68834076 -4.788156449 20.85727493 1.183967661 1.067714499 0.110570757 0.124507596 61.98871664 48393.93899 0.022323989 0.067045823 1.63E-05 4.788156449 -0.116253161 ASVS(ph)PMDEPVPDS(ph)ESPIEK ddPTM_HeLa_SAHA_4h_R1 2 ASVSPMDEPVPDSESPIEK 19 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 AS(0.141)VS(0.859)PMDEPVPDS(0.808)ES(0.192)PIEK;AS(0.13)VS(0.87)PMDEPVPDS(0.812)ES(0.188)PIEK ; 133.53 0.00014487 7092200 2765.51 2939.76 2425.06 3406.46 3429.92 3953.1 3043.16 2985.34 3764.3 3295.2 TRUE FALSE FALSE 3056.39903 3035.010153 2755.534548 3472.396959 3167.120271 3616.27364 2700.735628 2908.979326 3738.10393 3437.272198 0.88919319 0.882970559 0.801663176 1.010218789 0.92140514 1.052076598 0.785720616 0.846304615 1.087520485 1 11.74704839 -9.20360666 0.917632624 1.000723448 0.900674426 0.289435424 0.083974282 0.815645486 1.222372393 0.054407349 0.014869263 6.26E-10 9.20360666 -0.100049022 ASVS(ph)PMDEPVPDSESPIEK ddPTM_HeLa_SAHA_4h_R1 8 ASVSPMDEPVPDSESPIEK 19 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 AS(0.001)VS(0.999)PMDEPVPDSESPIEK;AS(0.011)VS(0.989)PMDEPVPDSESPIEK;AS(0.02)VS(0.98)PMDEPVPDSESPIEK;AS(0.017)VS(0.983)PMDEPVPDSESPIEK;AS(0.031)VS(0.969)PMDEPVPDSESPIEK;AS(0.005)VS(0.995)PMDEPVPDSESPIEK;AS(0.007)VS(0.993)PMDEPVPDSESPIEK;AS(0.008)VS(0.992)PMDEPVPDSESPIEK ;;;;;;; 311.24 4.87E-107 235512000 26713.82 29126.71 26027.18 28144.18 31609.89 33954.37 31285.97 29545.65 32047.47 27987.45 TRUE FALSE FALSE 29523.70215 30070.43451 29574.02855 28688.9513 29187.94706 31061.26665 27765.59032 28789.91505 31824.44905 29194.12594 1.011289128 1.030016606 1.013012981 0.982696018 0.999788352 1.063956041 0.951067704 0.986154376 1.090097683 1 14.8333905 ASVS(ph)QTSPQSASSPR ddPTM_HeLa_SAHA_4h_R1 2 ASVSQTSPQSASSPR 15 0 Q8TDY2-2;Q8TDY2 Q8TDY2-2 RB1CC1 RB1-inducible coiled-coil protein 1 1 0 ASVS(0.998)QT(0.002)SPQSASSPR;AS(0.469)VS(0.531)QTSPQSASSPR ; 193.32 3.26E-09 7683700 699.88 489.64 461.18 688.82 728.08 812.77 624.63 926.37 685.39 822.76 TRUE FALSE FALSE 773.4965896 505.5046573 524.0272087 702.1531072 672.2946677 743.5174235 554.3449885 902.6747968 680.6203152 858.2332101 0.901266207 0.589006171 0.610588361 0.818137889 0.7833473 0.866334948 0.645914166 1.051782646 0.793048215 1 9.745225918 -7.477588129 6.868883441 0.957101935 0.760791406 0.129197724 0.139191852 0.19007051 22.16817098 0.021912653 0.024546972 3.33E-08 7.477588129 -0.196310529 ASVSGPNS(ph)PSETR ddPTM_HeLa_SAHA_4h_R1 2 ASVSGPNSPSETR 13 0 A0A087X0X0;C9J453;A0A087X255;O15344-2;O15344 A0A087X0X0 MID1 E3 ubiquitin-protein ligase Midline-1 1 0 ASVSGPNS(0.964)PS(0.034)ET(0.002)R;ASVSGPNS(0.914)PS(0.085)ETR ; 206.67 3.56E-11 20319100 2872.2 3058.9 2482.89 2699.9 3705.9 3673.6 3166.8 3241 3746.4 3040.7 TRUE FALSE FALSE 3174.311174 3158.010367 2821.245319 2752.160469 3421.954743 3360.588613 2810.463329 3158.099913 3720.328497 3171.799458 1.00079189 0.995652597 0.889477836 0.867696872 1.078868569 1.059521151 0.886078507 0.995680829 1.172939382 1 11.63108584 -6.965929772 24.99964995 1.00026076 0.962886122 0.098504073 0.086042539 428.3243172 314289.8385 0.010945187 0.014384747 1.08E-07 6.965929772 -0.037374638 ASVSGPNS(ph)PSETRR ddPTM_HeLa_SAHA_4h_R1 3 ASVSGPNSPSETRR 14 1 A0A087X0X0;C9J453;A0A087X255;O15344-2;O15344 A0A087X0X0 MID1 E3 ubiquitin-protein ligase Midline-1 1 0 ASVSGPNS(0.987)PS(0.012)ETRR;ASVS(0.001)GPNS(0.863)PS(0.105)ET(0.031)RR;ASVS(0.036)GPNS(0.858)PS(0.076)ET(0.03)RR ;; 190.18 3.85E-08 11882800 1999.38 2071.42 1821.84 2053.99 2374.71 2217.24 2236.91 2497.18 1867.59 1877.33 TRUE FALSE FALSE 2209.683962 2138.535367 2070.110867 2093.747947 2192.760233 2028.318678 1985.207 2433.305751 1854.593289 1958.270884 1.12838524 1.092052884 1.0571116 1.069181983 1.119743061 1.035770227 1.013755051 1.242578732 0.947056561 1 10.93536463 -9.459964661 1.168865329 0.999481601 1.092663076 0.355174233 0.062545607 0.533036735 1.291240326 0.040409907 0.00977032 3.47E-10 9.459964661 0.093181474 ASVSGPNSPS(ph)ESRR ddPTM_HeLa_SAHA_4h_R1 1 ASVSGPNSPSESRR 14 1 A6PVI4;Q9UJV3-2;Q9UJV3 A6PVI4 MID2 Probable E3 ubiquitin-protein ligase MID2 1 0 ASVS(0.001)GPNS(0.181)PS(0.792)ES(0.026)RR 66.939 0.017934 1972400 693.71 638.66 690.17 737.17 568.26 791.27 675.93 643.01 623 635.06 TRUE FALSE FALSE 766.6776007 659.353003 784.2227733 751.4389913 524.7200416 723.8493444 599.8725774 626.5627353 618.6644923 662.4405445 1.157353074 0.995339142 1.183838731 1.134349335 0.792101338 1.092700848 0.905549309 0.945839956 0.933917009 1 9.371647165 -5.792537427 24.99984653 1.082335733 0.943344345 0.287703844 0.100810802 169.4722733 136239.0169 0.013823527 0.025059129 1.61E-06 5.792537427 -0.138991388 ASVSGPNSPS(ph)ET(ph)RR ddPTM_HeLa_SAHA_4h_R1 1 ASVSGPNSPSETRR 14 1 A0A087X0X0;C9J453;A0A087X255;O15344-2;O15344 A0A087X0X0 MID1 E3 ubiquitin-protein ligase Midline-1 2 0 AS(0.001)VS(0.275)GPNS(0.511)PS(0.543)ET(0.67)RR 104.41 0.0047728 9245200 2576.6 2528.5 2279.2 2585.8 2318 2809.5 2510.2 2812.1 1883.7 2274 TRUE FALSE FALSE 2847.61861 2610.425059 2589.797506 2635.851898 2140.395341 2570.114794 2227.74569 2740.170554 1870.591178 2372.043269 1.200491849 1.100496392 1.091800281 1.111215775 0.902342453 1.083502493 0.939167392 1.15519417 0.788599096 1 11.21191461 ASVSGPNSPSES(ph)RR ddPTM_HeLa_SAHA_4h_R1 1 ASVSGPNSPSESRR 14 1 A6PVI4;Q9UJV3-2;Q9UJV3 A6PVI4 MID2 Probable E3 ubiquitin-protein ligase MID2 1 0 ASVSGPNS(0.001)PS(0.055)ES(0.944)RR 154.13 0.00011213 644120 225.52 280.42 409.03 400.28 504.34 358.46 380.09 320.89 213.7 240.46 TRUE FALSE FALSE 249.2412283 289.505792 464.7704783 408.0279982 465.6975782 327.9171914 337.3212729 312.6820984 212.2128443 250.8274074 0.993676213 1.154203183 1.852949337 1.626728125 1.856645504 1.307341948 1.344834188 1.246602601 0.846051261 1 7.970551187 -6.943879111 6.910256539 1.000765802 1.53768625 0.639560247 0.202100524 0.105840973 10.40831079 0.033044894 0.043459935 1.14E-07 6.943879111 0.536920448 ASVSGPNSPSET(ph)RR ddPTM_HeLa_SAHA_4h_R1 1 ASVSGPNSPSETRR 14 1 A0A087X0X0;C9J453;A0A087X255;O15344-2;O15344 A0A087X0X0 MID1 E3 ubiquitin-protein ligase Midline-1 1 0 ASVSGPNS(0.181)PS(0.016)ET(0.803)RR 88.319 0.013898 13335000 1067.3 1156.7 1033.6 1300.9 1391.6 1427.2 1260.4 1260.1 1457.4 1263.8 TRUE FALSE FALSE 1179.563511 1194.177839 1174.453625 1326.080801 1284.975909 1305.594531 1118.576475 1227.868467 1447.257835 1318.288603 0.8947688 0.905854633 0.890892649 1.005910844 0.974730348 0.990370794 0.84850652 0.93141097 1.097830802 1 10.36445053 -9.497190683 1.265112932 0.99969921 0.927418897 0.346493834 0.056413503 0.540607818 1.558603422 0.033280997 0.008226035 3.18E-10 9.497190683 -0.072280313 ASVSPMDEPVPDS(ph)ESPIEK ddPTM_HeLa_SAHA_4h_R1 6 ASVSPMDEPVPDSESPIEK 19 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 ASVSPMDEPVPDS(0.945)ES(0.055)PIEK;ASVSPMDEPVPDS(0.937)ES(0.063)PIEK;ASVSPMDEPVPDS(0.987)ES(0.013)PIEK;ASVS(0.001)PMDEPVPDS(0.638)ES(0.361)PIEK;ASVSPMDEPVPDS(0.879)ES(0.121)PIEK;ASVS(0.001)PMDEPVPDS(0.598)ES(0.4)PIEK ;;;;; 193.27 7.32E-14 81915400 16003.5 17991.4 17127.9 17742.9 19032.7 21747.3 20878.4 19119.9 20387.5 17639.7 TRUE FALSE FALSE 17686.82156 18574.33316 19462.00101 18086.33949 17574.41864 19894.30769 18529.10748 18630.84064 20245.62173 18400.23379 0.961228088 1.009461802 1.057704007 0.982940744 0.955119312 1.081198637 1.007003916 1.012532822 1.100291548 1 14.16743648 -7.097338944 7.40812558 0.981769775 1.015897167 0 0.050681756 0.363501036 24.42807421 0.005817348 0.007139688 7.99E-08 7.097338944 0.034127392 ASVSPMDEPVPDSES(ph)PIEK ddPTM_HeLa_SAHA_4h_R1 3 ASVSPMDEPVPDSESPIEK 19 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 ASVSPMDEPVPDS(0.23)ES(0.77)PIEK;ASVSPMDEPVPDS(0.08)ES(0.92)PIEK;ASVSPMDEPVPDS(0.052)ES(0.948)PIEK ;; 257.06 9.69E-52 119307000 11888.8 12795.7 11577.6 13194.6 13980.4 14910.1 13835.9 13531.9 13908.6 12038.9 TRUE FALSE FALSE 13139.31853 13210.28908 13155.33503 13450.00056 12909.22477 13639.6756 12279.04812 13185.77359 13811.80892 12557.9559 1.046294368 1.051945809 1.047569775 1.071034225 1.02797182 1.086138199 0.977790352 1.049993622 1.099845312 1 13.61631403 -9.111455253 0.831742377 0.999395321 1.044594657 0 0.041015206 0.642097488 0.789442105 0.018055012 0.005046361 7.74E-10 9.111455253 0.045199336 ASVSQT(ph)SPQSASSPR ddPTM_HeLa_SAHA_4h_R1 3 ASVSQTSPQSASSPR 15 0 Q8TDY2-2;Q8TDY2 Q8TDY2-2 RB1CC1 RB1-inducible coiled-coil protein 1 1 0 AS(0.026)VS(0.026)QT(0.456)S(0.456)PQS(0.012)AS(0.012)S(0.012)PR;ASVS(0.001)QT(0.699)S(0.29)PQS(0.009)AS(0.001)SPR;ASVS(0.006)QT(0.92)S(0.02)PQS(0.013)AS(0.013)S(0.028)PR ;; 187.56 1.30E-08 27580500 3176.43 2606.15 2814.79 3219.32 3439.54 4109.13 3637.23 3324.24 3400.98 2858.57 TRUE FALSE FALSE 3510.541481 2690.59097 3198.374922 3281.634594 3176.003188 3759.009007 3227.959308 3239.210754 3377.312303 2981.816942 1.17731623 0.902332713 1.072626182 1.100548644 1.065123463 1.260643789 1.082547779 1.086321131 1.132635695 1 11.54197598 ASVSQTSPQS(ph)ASSPR ddPTM_HeLa_SAHA_4h_R1 1 ASVSQTSPQSASSPR 15 0 Q8TDY2-2;Q8TDY2 Q8TDY2-2 RB1CC1 RB1-inducible coiled-coil protein 1 1 0 ASVSQT(0.056)S(0.136)PQS(0.541)AS(0.15)S(0.116)PR 137.17 3.99E-06 0 205.01 237.65 227.38 325.97 430.39 359.96 490.31 443.37 339.84 452.51 TRUE FALSE FALSE 226.5738924 245.3500159 258.3661623 332.2796207 397.4136112 329.2893829 435.1390284 432.0292374 337.4750258 472.0199206 0.480009174 0.519787418 0.547362836 0.703952537 0.841942456 0.697617555 0.921865814 0.915277552 0.714959287 1 8.882703937 -4.75851365 24.68862906 0.717592831 0.918571782 0.26141325 0.148452546 103.3635551 872170.133 0.030091913 0.103473986 1.74E-05 4.75851365 0.200978951 ASVVDPSTESSPAPQEGSEQPASPAS(ph)PLSSR ddPTM_HeLa_SAHA_4h_R1 2 ASVVDPSTESSPAPQEGSEQPASPASPLSSR 31 0 Q66K14;Q66K14-2 Q66K14 TBC1D9B TBC1 domain family member 9B 1 0 ASVVDPSTESSPAPQEGSEQPAS(0.002)PAS(0.778)PLS(0.11)S(0.11)R;ASVVDPSTESSPAPQEGS(0.001)EQPAS(0.385)PAS(0.458)PLS(0.078)S(0.078)R ; 145.46 1.59E-14 6454200 2546 2722.3 2313.1 2279.76 2531.6 3128.1 2388.8 2243.48 2739.2 2701.4 TRUE FALSE FALSE 2813.799961 2810.504306 2628.317222 2323.888051 2337.629355 2861.568282 2120.005937 2186.09503 2720.137684 2817.870574 0.998555429 0.997385874 0.932731704 0.824696518 0.829573003 1.015507351 0.752343261 0.77579682 0.965316757 1 11.46038963 -6.49776976 2.849180374 0.999174276 0.844033277 0.531134009 0.066701909 0.15119204 2.469740044 0.010365714 0.015886071 3.18E-07 6.49776976 -0.155140999 ASWES(ph)LDEEWR ddPTM_HeLa_SAHA_4h_R1 1 ASWESLDEEWR 11 0 Q00587-2;Q00587 Q00587-2 CDC42EP1 Cdc42 effector protein 1 1 0 AS(0.035)WES(0.965)LDEEWR 137.01 0.0010379 1047800 388.57 346.76 349.93 341.1 259.5 323.96 401.76 374.76 469.85 490.84 TRUE FALSE FALSE 429.4415754 357.9952515 397.616638 347.7024837 239.6171661 296.3567855 356.5529074 365.1741818 466.5802756 512.0025145 0.838748958 0.699206042 0.776591182 0.679103078 0.467999979 0.578819004 0.696388977 0.713227321 0.911285125 1 9.000007085 -7.468457562 0.592898018 0.978724527 0.616742873 0.717694888 0.078058381 0.246309902 0.197337749 0.028536545 0.028809966 3.40E-08 7.468457562 -0.361981654 ASWES(ph)LDEEWRAPQAGSR ddPTM_HeLa_SAHA_4h_R1 1 ASWESLDEEWRAPQAGSR 18 1 Q00587-2;Q00587 Q00587-2 CDC42EP1 Cdc42 effector protein 1 1 0 AS(0.003)WES(0.997)LDEEWRAPQAGSR 133.23 0.00047108 4702200 676.05 690.1 688 502.05 751.45 708.46 816.33 680.29 889.95 827.56 TRUE FALSE FALSE 747.1600408 712.4596928 781.7570571 511.7679037 693.8740633 648.0952223 724.4743999 662.8891668 883.7567655 863.2401616 0.86552975 0.825331958 0.905607839 0.592845336 0.803801878 0.750770471 0.839250109 0.767908163 1.023766971 1 9.753618176 -7.971780664 0.493722285 0.998480175 0.7632428 0.598728551 0.074960981 0.449327579 0.264033412 0.042562185 0.026524038 1.07E-08 7.971780664 -0.235237375 ASYDDPYK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 ASYDDPYKK 9 1 Q96PK6 Q96PK6 RBM14 RNA-binding protein 14 0 1 ASYDDPYK(1)K 129.1 0.0006681 1385600 454.57 1133.8 785.92 875.61 1238.8 1216.1 1324.3 1169.5 1212 517.9 FALSE TRUE FALSE 502.3837582 1170.535864 893.0210847 892.5586977 1143.883412 1112.481438 1175.286279 1139.585883 1203.565593 540.2292035 0.929945577 2.166739333 1.653041114 1.652185206 2.11740388 2.05927675 2.175532665 2.109448871 2.227879547 1 9.07742782 -7.266661618 24.93050865 0.966918722 1.97916628 0.110981038 0.438406459 103.1189637 492280.0274 0.032732735 0.03802687 5.41E-08 7.266661618 1.012247558 ASYDVSDSGQLEHVQPWSV ddPTM_HeLa_SAHA_4h_R1 1 ASYDVSDSGQLEHVQPWSV 19 0 Q01813;Q01813-2;B1APP6 Q01813 PFKP "ATP-dependent 6-phosphofructokinase, platelet type" 0 0 95.264 0.010397 4423400 525.75 512.42 455.36 560.22 512.68 681.76 553.42 463.42 800.99 573.71 FALSE FALSE TRUE 581.0507972 529.0227442 517.4140894 571.0638682 473.3985692 623.6702125 491.1477251 451.5663874 795.4158454 598.4454458 0.97093361 0.883994937 0.86459692 0.954245491 0.791047158 1.042150487 0.820705928 0.754565668 1.329136768 1 9.225075927 -1 0.149063088 1.031061031 0.209628482 0.343565641 0.12713662 49.14027477 0.474643313 0.15766005 8.753512669 0.1 1 -0.821432548 AT(ph)GAALTPTEER ddPTM_HeLa_SAHA_4h_R1 1 ATGAALTPTEER 12 0 M0R300;M0R0P8;Q13459-2;Q13459 M0R300 MYO9B Unconventional myosin-IXb 1 0 AT(0.888)GAALT(0.105)PT(0.008)EER 140.63 0.0011381 5427400 3669.9 3869.8 3466 2917.8 3912.7 4342.9 3604.6 3121 2976.4 4036.1 TRUE FALSE FALSE 4055.91692 3995.184059 3938.32843 2974.278238 3612.909771 3972.860488 3199.000921 3041.169339 2955.68699 4210.116023 0.963374144 0.948948684 0.935444156 0.706459922 0.858149693 0.943646319 0.759836761 0.722348107 0.70204407 1 12.03964428 -6.448989518 5.753056187 0.978186385 0.807458562 0.072684099 0.108964234 0.117176888 6.922986717 0.010330774 0.015777618 3.56E-07 6.448989518 -0.170727823 AT(ph)GHS(ph)GDPVMLVT(ph)LCNT(ph)LAR ddPTM_HeLa_SAHA_4h_R1 1 ATGHSGDPVMLVTLCNTLAR 20 0 Q8IYW2 Q8IYW2 CFAP46 Cilia- and flagella-associated protein 46 4 0 AT(1)GHS(1)GDPVMLVT(1)LCNT(1)LAR 52.927 0.0099688 4447800 391.32 320.52 330.23 390.94 416.21 405.64 399.64 473.92 366.24 313.95 TRUE FALSE FALSE 432.480833 330.9050583 375.2320246 398.507209 384.3200797 371.0771899 354.6714554 461.7978126 363.691306 327.4859209 1.320608934 1.010440563 1.145795897 1.216868218 1.173546877 1.133108834 1.083012834 1.410130278 1.110555547 1 8.355289074 -9.618469294 1.428881676 1.000009216 1.195824299 0.152564673 0.11238441 0.417710065 1.531550098 0.077685334 0.017809549 2.41E-10 9.618469294 0.195815083 AT(ph)LTWTPPLEDGGS(ph)PIK ddPTM_HeLa_SAHA_4h_R1 1 ATLTWTPPLEDGGSPIK 17 0 A0A0A0MRA3;A0A0A0MTS7;Q8WZ42-3;Q8WZ42-10;Q8WZ42-9;Q8WZ42-5;Q8WZ42-11;Q8WZ42-4;Q8WZ42-7;Q8WZ42-2;Q8WZ42;Q8WZ42-8;Q8WZ42-13;Q8WZ42-12 A0A0A0MRA3 TTN Titin 2 0 AT(0.333)LT(0.333)WT(0.333)PPLEDGGS(1)PIK 47.301 0.023625 2141300 1532.9 1643.1 1421.9 1824.7 1745.9 1646.7 1612.4 2189.6 1882 1770.1 TRUE FALSE FALSE 1694.137455 1696.337518 1615.669127 1860.019707 1612.129519 1506.391896 1430.968508 2133.593203 1868.903009 1846.417674 0.917526668 0.918718198 0.875029063 1.007366715 0.873112049 0.815845687 0.77499719 1.155531185 1.012177816 1 10.85051322 -9.036853535 0.529184439 1.012643139 0.905726202 0.104228292 0.100095113 2.229163134 0.983347354 0.118607082 0.025062485 9.19E-10 9.036853535 -0.106916938 AT(ph)PPPS(ph)PLLSELLKK ddPTM_HeLa_SAHA_4h_R1 2 ATPPPSPLLSELLKK 15 1 Q9H0E9-4;Q9H0E9-2;H7C179;H7C127;H7C128;Q9H0E9-3 Q9H0E9-4;Q9H0E9-3 BRD8 Bromodomain-containing protein 8 2 0 AT(1)PPPS(1)PLLSELLKK;AT(1)PPPS(1)PLLSELLKK ; 112.91 0.0013787 3384130 1374.92 1101.21 992.73 978.34 1237.12 1181.94 1324.31 1085.07 1385.97 1204.92 TRUE FALSE FALSE 1519.540394 1136.889927 1128.014074 997.2771854 1142.332133 1081.232063 1175.295153 1057.315481 1376.324922 1256.869998 1.208987721 0.904540588 0.897478718 0.793460889 0.908870555 0.860257675 0.935096832 0.841228991 1.095041591 1 10.29561972 -7.14213502 6.199578467 1.09840175 0.875460867 0.749488744 0.059524393 0.116527256 5.52843504 0.013873356 0.017038565 7.21E-08 7.14213502 -0.222940883 AT(ph)PSENLVPSSAR ddPTM_HeLa_SAHA_4h_R1 2 ATPSENLVPSSAR 13 0 Q8N684-2;Q8N684;Q8N684-3;F5H6M0;F5H047;F5H669 Q8N684-2 CPSF7 Cleavage and polyadenylation specificity factor subunit 7 1 0 AT(0.987)PS(0.008)ENLVPS(0.001)S(0.004)AR;AT(0.964)PS(0.019)ENLVPS(0.008)S(0.008)AR ; 115.1 0.0028796 24650700 759.14 1292.99 731.18 1112.03 1418.19 1322.47 1095.93 1298.23 1768.08 978.2 TRUE FALSE FALSE 838.9898283 1334.883724 830.8214026 1133.554949 1309.528589 1209.788116 972.6130721 1265.023156 1755.775787 1020.374989 0.822236763 1.308228581 0.814231446 1.110919966 1.28337974 1.185630899 0.953191799 1.239762999 1.720716213 1 9.994883727 -6.618615455 1.029106206 0.925902494 1.148151326 0 0.296709614 0.509090593 1.07800648 0.030276064 0.050986611 2.41E-07 6.618615455 0.222248832 AT(ph)QFIQR ddPTM_HeLa_SAHA_4h_R1 1 ATQFIQR 7 0 J9JIG6;Q96EG1 J9JIG6 ARSG Arylsulfatase G 1 0 AT(1)QFIQR 107.74 0.016337 54824000 0 0 0 0 0 53.389 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 48.83995684 0 0 0 0 0 AT(ph)SNVFAMFDQSQIQEFK ddPTM_HeLa_SAHA_4h_R1 5 ATSNVFAMFDQSQIQEFK 18 0 J3QRS3;P19105;O14950;J3KTJ1;P24844;P24844-2 J3QRS3;P24844;P24844-2 MYL12A;MYL12B;MYL9 Myosin regulatory light chain 12A;Myosin regulatory light chain 12B;Myosin regulatory light polypeptide 9 1 0 AT(0.565)S(0.435)NVFAMFDQSQIQEFK;AT(0.5)S(0.5)NVFAMFDQSQIQEFK;AT(0.5)S(0.5)NVFAMFDQSQIQEFK;AT(0.568)S(0.432)NVFAMFDQSQIQEFK;AT(0.564)S(0.436)NVFAMFDQSQIQEFK ;;;; 159.16 8.14E-06 497595000 7929.99 11505.78 10708.7 11097.4 12574.2 8914.38 12934.7 7789.58 9595 9659.75 TRUE FALSE FALSE 8764.102732 11878.57482 12168.02587 11312.20622 11610.76751 8154.824673 11479.25351 7590.333823 9528.227614 10076.2291 0.869780019 1.178871055 1.207597183 1.122662666 1.152292926 0.809313146 1.13924102 0.753291112 0.945614428 1 13.29866821 -3.26762965 14.08365011 0.989934788 1.01339217 0 0.159521226 0 0 0.021490609 0 0.000539971 3.26762965 0.023457382 AT(ph)SPLVSLYPALECR ddPTM_HeLa_SAHA_4h_R1 3 ATSPLVSLYPALECR 15 0 A0A087WXV6;Q96G74-2;Q96G74-3;Q96G74-5;Q96G74;H7BZQ3;Q96G74-4 A0A087WXV6 OTUD5 OTU domain-containing protein 5 1 0 AT(0.5)S(0.5)PLVSLYPALECR;AT(0.628)S(0.372)PLVSLYPALECR;AT(0.68)S(0.32)PLVSLYPALECR ;; 193.51 5.47E-09 213786000 4115.7 4089.46 3388.8 4330.7 4385.4 4189.1 4470.9 4190 4001.2 4030.9 TRUE FALSE FALSE 4548.60821 4221.961187 3850.608016 4414.526961 4049.391599 3832.165113 3967.822565 4082.825867 3973.355323 4204.691826 1.081793482 1.004107165 0.915788404 1.049904997 0.963065016 0.911402136 0.943665488 0.971016673 0.944981342 1 12.03778435 -6.995740005 23.11035107 1.038852367 0.960519199 0.106721505 0.049969082 36.87738836 200053.5538 0.007431695 0.009739425 1.01E-07 6.995740005 -0.078333168 AT(ph)T(ph)PPNQGRPDSPVYANLQELK ddPTM_HeLa_SAHA_4h_R1 2 ATTPPNQGRPDSPVYANLQELK 22 1 Q1RLN5;Q8IWW6-3;Q8IWW6-2;Q8IWW6-4;Q8IWW6 Q1RLN5 ARHGAP12 Rho GTPase-activating protein 12 2 0 AT(0.579)T(0.901)PPNQGRPDS(0.515)PVY(0.005)ANLQELK;AT(0.855)T(0.972)PPNQGRPDS(0.172)PVY(0.001)ANLQELK ; 65.855 0.0043575 41872000 2966.2 3236.9 2825.01 3004.5 3326.9 4194.1 3805.7 3935 3135 2943.3 TRUE FALSE FALSE 3278.198525 3341.777684 3209.987651 3062.656442 3071.993641 3836.739085 3377.47262 3834.348398 3113.18328 3070.200067 1.067747526 1.088456 1.045530448 0.997542953 1.000584188 1.249670706 1.100082257 1.248892031 1.014000134 1 11.58411696 -5.267526496 24.99593368 1.033602415 1.189601726 0.71848003 0.048330434 204.7371071 840727.4647 0.006946553 0.015916272 5.40E-06 5.267526496 0.155999311 ATAGDTHLGGEDFDNR ddPTM_HeLa_SAHA_4h_R1 4 ATAGDTHLGGEDFDNR 16 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37;P17066;P48741 A0A0G2JIW1;P17066 HSPA1B;HSPA1A;HSPA6;HSPA7 Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A;Heat shock 70 kDa protein 6;Putative heat shock 70 kDa protein 7 0 0 ;;; ;;; 214.65 2.19E-20 234689000 15586.8 16456.8 14222.1 16989.1 18041 19748.6 19464.9 17070.1 17274.2 15856.5 FALSE FALSE TRUE 17226.29114 16990.01112 16160.21372 17317.9486 16658.70248 18065.90818 17274.65822 16633.47156 17153.98744 16540.15131 1.041483286 1.027198046 0.977029376 1.047024798 1.007167478 1.092245641 1.044407508 1.005642043 1.037111881 1 14.01368481 ATAPQT(ph)QHVSPMR ddPTM_HeLa_SAHA_4h_R1 1 ATAPQTQHVSPMR 13 0 E9PQ49;E9PK01;P29692;E9PL71;P29692-3;E9PI39;E9PQZ1;P29692-2;A0A087X1X7;E9PRY8;P29692-4;E9PL12;E9PPR1;E9PK06 E9PQ49 EEF1D Elongation factor 1-delta 1 0 ATAPQT(0.5)QHVS(0.5)PMR 92.773 0.0097912 189190000 2587.3 2643.6 2292.4 2599.9 2596 2964.5 2979.8 2476.9 2463.9 2973.5 TRUE FALSE FALSE 2859.444085 2729.254375 2604.796334 2650.224824 2397.095041 2711.907922 2644.505062 2413.544485 2446.753519 3101.702137 0.921895127 0.879921493 0.83979577 0.85444208 0.772832121 0.874328934 0.852598007 0.778135481 0.788842194 1 11.59884443 -7.539768272 0.526767594 0.99456912 0.817442179 0 0.070609114 0.216512726 0.144421001 0.012823919 0.011981422 2.89E-08 7.539768272 -0.17712694 ATAPQTQHVS(ph)PMR ddPTM_HeLa_SAHA_4h_R1 32 ATAPQTQHVSPMR 13 0 E9PQ49;E9PK01;P29692;E9PL71;P29692-3;E9PI39;E9PQZ1;P29692-2;A0A087X1X7;E9PRY8;P29692-4;E9PL12;E9PPR1;E9PK06 E9PQ49 EEF1D Elongation factor 1-delta 1 0 ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQT(0.001)QHVS(0.999)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQT(0.001)QHVS(0.999)PMR;ATAPQT(0.002)QHVS(0.998)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQT(0.053)QHVS(0.947)PMR;ATAPQTQHVS(1)PMR;ATAPQT(0.174)QHVS(0.826)PMR;ATAPQT(0.003)QHVS(0.997)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQT(0.006)QHVS(0.994)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR;ATAPQTQHVS(1)PMR ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; 207.08 3.24E-11 13124370600 76526.54 77663.93 67757.9 76379.48 84415.81 90395.33 82339.83 82583.6 83728.53 76906.54 TRUE FALSE FALSE 84575.95259 80180.29229 76991.59374 77857.91528 77947.88887 82693.13933 73074.73562 80471.23109 83145.85634 80222.35731 1.054269102 0.999475645 0.959727392 0.970526396 0.971647948 1.03079917 0.910902373 1.0031023 1.036442447 1 16.29171674 -6.998938606 6.299767568 1.025737766 0.974131853 0.385695559 0.031415846 0.12463197 22.18620545 0.005355356 0.006876395 1.00E-07 6.998938606 -0.051605913 ATAPQTQHVS(ph)PMRQVEPPAK ddPTM_HeLa_SAHA_4h_R1 5 ATAPQTQHVSPMRQVEPPAK 20 1 E9PQ49;E9PK01;P29692;E9PL71;P29692-3;E9PI39;E9PQZ1;P29692-2;A0A087X1X7;E9PRY8;P29692-4;E9PL12;E9PPR1;E9PK06 E9PQ49 EEF1D Elongation factor 1-delta 1 0 ATAPQT(0.001)QHVS(0.999)PMRQVEPPAK;ATAPQT(0.003)QHVS(0.997)PMRQVEPPAK;ATAPQT(0.001)QHVS(0.999)PMRQVEPPAK;ATAPQT(0.027)QHVS(0.972)PMRQVEPPAK;ATAPQT(0.107)QHVS(0.893)PMRQVEPPAK ;;;; 85.11 0.0012839 207033000 13619 8497.23 12287.35 9811.13 9999.87 8377.51 12368.5 13247.1 4738.89 9480.18 TRUE FALSE FALSE 15051.50891 8772.545827 13961.80607 10001.03861 9233.682121 7663.699017 10976.76383 12908.25836 4705.911679 9888.916955 1.522058379 0.887108858 1.411864022 1.011338113 0.933740486 0.7749786 1.110006675 1.305325793 0.475877358 1 13.27159681 -6.21583741 21.98378867 1.231388135 1.01249373 0 0.319030127 165.3678352 79719.66529 0.03798597 0.062992087 6.08E-07 6.21583741 -0.218894405 ATAS(ph)SPTQQDGR ddPTM_HeLa_SAHA_4h_R1 1 ATASSPTQQDGR 12 0 Q9BV73-2;Q9BV73 Q9BV73-2 CEP250 Centrosome-associated protein CEP250 1 0 ATAS(0.498)S(0.498)PT(0.004)QQDGR 113.99 0.0023057 1711600 728.87 572.82 725.63 1161.3 714.34 995.83 1039.6 969.86 1035.6 1053 TRUE FALSE FALSE 805.5358908 591.3797438 824.5150775 1183.778641 659.6074235 910.9796816 922.6214719 945.0523855 1028.393175 1098.399983 0.733372089 0.538401086 0.750651029 1.077730024 0.6005166 0.829369715 0.839968578 0.860390022 0.93626474 1 10.10118779 -9.26201608 1.068674282 0.996063171 0.776710706 0.220318995 0.140763327 0.545049178 1.145017075 0.085891044 0.025159493 5.47E-10 9.26201608 -0.219352465 ATATISAK(ac)PQITNPK ddPTM_HeLa_SAHA_4h_R1 2 ATATISAKPQITNPK 15 1 Q9Y2W2 Q9Y2W2 WBP11 WW domain-binding protein 11 0 1 ; ATATISAK(1)PQITNPK;ATATISAK(1)PQITNPK 265.77 6.11E-84 4479000 1736.38 1775.46 1704.9 1487.24 1791.88 1804.61 1839.42 1712.33 1649.34 1704.17 FALSE TRUE FALSE 1919.020415 1832.986069 1937.234893 1516.027681 1654.586542 1650.847076 1632.443621 1668.531078 1637.862109 1777.645109 1.079529545 1.031131613 1.089775953 0.852829214 0.93077439 0.928670783 0.918318067 0.938618777 0.921366194 1 10.79575162 -6.26553362 24.99971208 1.041486049 0.915855385 0.538257949 0.049919598 140.3710793 857115.2909 0.005899531 0.009215033 5.43E-07 6.26553362 -0.125630664 ATAVMPDGQFK ddPTM_HeLa_SAHA_4h_R1 7 ATAVMPDGQFK 11 0 Q06830;A0A0A0MSI0 Q06830 PRDX1 Peroxiredoxin-1 0 0 ;;;;;; ;;;;;; 164.66 1.63E-07 67452600 29325.3 29680.5 28121.2 29695.8 30863.5 31857.9 33409.3 26813.2 30261.5 28242.4 FALSE FALSE TRUE 32409.8696 30642.16767 31953.41069 30270.60515 28498.7453 29143.42769 29649.99764 26127.35717 30050.90776 29460.06808 1.100128809 1.040125488 1.084634652 1.027513075 0.967368616 0.989251879 1.006447017 0.886873618 1.020055611 1 14.84647314 -5.846797118 3.683991536 1.050592056 0.966947989 0.515161796 0.039682798 0.175057496 4.637552282 0.006962683 0.013318112 1.42E-06 5.846797118 -0.083644066 ATAVVDGAFK ddPTM_HeLa_SAHA_4h_R1 1 ATAVVDGAFK 10 0 P32119;A6NIW5;P32119-2 P32119 PRDX2 Peroxiredoxin-2 0 0 127.4 0.0019796 1765200 1576.6 1392.9 2071 2100.9 1910.4 1401.2 2221.7 1422.3 1116 1305.3 FALSE FALSE TRUE 1742.434022 1438.030874 2353.225095 2141.565957 1764.025565 1281.809877 1971.708469 1385.919625 1108.233665 1361.577871 1.27971676 1.056150298 1.728307389 1.572856025 1.295574497 0.941415034 1.448105548 1.017877607 0.81393337 1 10.41106378 -8.880924821 0.722242761 0.998864637 1.305824333 0.265107253 0.24286027 0.947808244 0.916367838 0.160293584 0.051447543 1.32E-09 8.880924821 0.306959696 ATCAPQHGAPGPGPADASK ddPTM_HeLa_SAHA_4h_R1 2 ATCAPQHGAPGPGPADASK 19 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 153.04 2.05E-10 4234300 2441.2 2565 2002.01 2516.2 2470.45 2901.5 2652.2 2648 2547 2482.1 FALSE FALSE TRUE 2697.976617 2648.107683 2274.833497 2564.904689 2281.164655 2654.275877 2353.767476 2580.267994 2529.27522 2589.115478 1.042045687 1.022784694 0.878614151 0.990649012 0.881059448 1.02516705 0.909101002 0.996582816 0.97688776 1 11.3382436 -6.81616321 24.99912928 1.020629498 0.947704297 0.280976674 0.048725001 66.1674022 30226.50537 0.006865076 0.009022482 1.53E-07 6.81616321 -0.072925201 ATCFLPS(ph)PGEK ddPTM_HeLa_SAHA_4h_R1 2 ATCFLPSPGEK 11 0 Q8IZW8 Q8IZW8 TNS4 Tensin-4 1 0 ATCFLPS(1)PGEK;AT(0.004)CFLPS(0.996)PGEK ; 105.65 0.0052324 6800900 4237.3 6038.3 4814.4 4494 5591.1 5841.7 5220.1 3650.4 5067.5 5110.9 TRUE FALSE FALSE 4682.998655 6233.944882 5470.48136 4580.987868 5162.711126 5343.954295 4632.720609 3557.028054 5032.234855 5331.255911 0.878404401 1.169320135 1.026114944 0.859269925 0.968385538 1.002381875 0.868973594 0.667202647 0.943911705 1 12.38025972 -4.339957738 2.654036956 0.962564457 0.633795457 0.566223141 0.082803907 0.243877845 2.480125556 0.012475479 0.161820354 4.57E-05 4.339957738 -0.328769 ATDDDMQSLASLMSVKPSDVGNLDDFAES(ph)DEDEAHGPGAPEAR ddPTM_HeLa_SAHA_4h_R1 2 ATDDDMQSLASLMSVKPSDVGNLDDFAESDEDEAHGPGAPEAR 43 1 Q8N3D4;E9PIH6;A0A0U1RQH4 Q8N3D4 EHBP1L1 EH domain-binding protein 1-like protein 1 1 0 ATDDDMQSLAS(0.001)LMS(0.004)VKPS(0.082)DVGNLDDFAES(0.913)DEDEAHGPGAPEAR;ATDDDMQS(0.001)LAS(0.001)LMS(0.03)VKPS(0.057)DVGNLDDFAES(0.911)DEDEAHGPGAPEAR ; 71.093 1.09E-06 14031200 796.61 1024.35 983.57 1001.96 1067.62 1110.68 1203.75 1021.13 1267.51 1059.86 TRUE FALSE FALSE 880.4010948 1057.539612 1117.605797 1021.354385 985.8191862 1016.043815 1068.300882 995.0109732 1258.689295 1105.555751 0.796342558 0.956568324 1.010899537 0.923837973 0.891695588 0.919034444 0.966302134 0.900009766 1.138512728 1 10.11055606 ATDQPVIR ddPTM_HeLa_SAHA_4h_R1 1 ATDQPVIR 8 0 Q86UR5 Q86UR5 RIMS1 Regulating synaptic membrane exocytosis protein 1 0 0 117.93 0.023546 10148000 2852.5 3518.7 3771.9 1771 3418.8 3080.5 3693.8 2790.2 2126.1 3085.4 FALSE FALSE TRUE 3152.539038 3632.708189 4285.914889 1805.280266 3156.852283 2818.02407 3278.163902 2718.830724 2111.304297 3218.426694 0.979527992 1.128721743 1.331680133 0.560920113 0.980868164 0.875590572 1.018560997 0.844770126 0.656005091 1 11.65213989 -6.262922259 24.99995802 1.025941612 0.873174993 0.147378487 0.19358997 172.8234965 2913649.023 0.023246755 0.036707283 5.46E-07 6.262922259 -0.152766619 ATDS(ph)FSGR ddPTM_HeLa_SAHA_4h_R1 2 ATDSFSGR 8 0 Q9HBH9;K7EK27;Q9HBH9-2 Q9HBH9 MKNK2 MAP kinase-interacting serine/threonine-protein kinase 2 1 0 AT(0.001)DS(0.998)FS(0.001)GR;ATDS(0.998)FS(0.002)GR ; 121.5 0.0033463 12807600 2323.8 2968 2829.7 3790.1 4326.7 5611 4793.1 4841.1 3725.8 2935.6 TRUE FALSE FALSE 2568.227946 3064.165147 3215.31678 3863.462866 3995.189181 5132.911233 4253.767773 4717.271672 3699.871854 3062.168082 0.838695942 1.000652174 1.050013158 1.261675637 1.304692973 1.67623432 1.389135952 1.540500568 1.208252374 1 11.58033776 -6.030671754 1.197235254 0.925225105 1.520991687 0.745389335 0.125524099 0.106515598 0.30204232 0.015777817 0.035990246 9.32E-07 6.030671754 0.595766582 ATDSDLSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 ATDSDLSSPR 10 0 Q9BRD0;Q9BRD0-2 Q9BRD0 BUD13 BUD13 homolog 1 0 ATDSDLS(0.07)S(0.93)PR;ATDSDLS(0.002)S(0.998)PR ; 177.57 4.37E-05 60773000 9185.4 9106.8 8374.8 9056.7 9392.6 9695.3 9307.6 8864.2 10397.9 9074.9 TRUE FALSE FALSE 10151.56252 9401.866295 9516.07413 9232.005525 8672.941017 8869.205896 8260.284352 8637.466599 10325.54017 9466.16335 1.07240517 0.993207696 1.005272546 0.975263703 0.916204453 0.936937761 0.872611643 0.912456956 1.090784068 1 13.2085641 -5.979509069 1.07477906 1.032719581 0.898342536 0.790677441 0.030349737 0.175960485 0.40028143 0.005338156 0.013336304 1.05E-06 5.979509069 -0.134377045 ATEDGEEDEEMIES(ph)IENLEDLKGHSVR ddPTM_HeLa_SAHA_4h_R1 2 ATEDGEEDEEMIESIENLEDLKGHSVR 27 1 P49736;H0Y8E6 P49736 MCM2 DNA replication licensing factor MCM2 1 0 ATEDGEEDEEMIES(1)IENLEDLKGHSVR;ATEDGEEDEEMIES(1)IENLEDLKGHSVR ; 118.08 2.50E-08 5820700 1664.52 1756.1 1969.45 1675.37 1899.75 1938.83 2181.9 1720.7 1748.42 2009.53 TRUE FALSE FALSE 1839.601851 1812.998792 2237.83639 1707.799209 1754.191565 1773.630776 1936.38687 1676.686986 1736.252603 2096.170673 0.877601178 0.864909912 1.067583102 0.814723358 0.836855313 0.846128991 0.923773476 0.799880948 0.828297345 1 11.03354047 ATEDGEEDEEMIESIENLEDLKGHSVR ddPTM_HeLa_SAHA_4h_R1 2 ATEDGEEDEEMIESIENLEDLKGHSVR 27 1 P49736;H0Y8E6 P49736 MCM2 DNA replication licensing factor MCM2 0 0 ; ; 125.35 2.56E-08 4854900 1394.86 1163.82 1051.33 1203.26 1454.18 1740.65 1442.12 1218.03 933.13 1346.85 FALSE FALSE TRUE 1541.577775 1201.528532 1194.599777 1226.550837 1342.761043 1592.336827 1279.848862 1186.874556 926.6362724 1404.919295 1.097271409 0.855229575 0.850297794 0.873040068 0.95575671 1.133400924 0.910976785 0.8447991 0.659565482 1 10.45627154 -7.266074562 24.92733504 1.045933721 0.922845198 0 0.14764497 364.7570073 1961606.436 0.015547012 0.018096312 5.42E-08 7.266074562 -0.123088523 ATEMVEVGADDDEGGAERGEAGDLR ddPTM_HeLa_SAHA_4h_R1 1 ATEMVEVGADDDEGGAERGEAGDLR 25 1 Q6NZI2-3;Q6NZI2-2;Q6NZI2 Q6NZI2-3 PTRF Polymerase I and transcript release factor 0 0 88.57 6.79E-05 4573100 597.25 850.22 664.74 431.81 797.92 932.66 836.15 946.99 686.38 765.27 FALSE FALSE TRUE 660.0714953 877.7676858 755.3273054 440.168307 736.783542 853.192121 742.0642014 922.767367 681.6034257 798.2645348 0.826883153 1.099594993 0.946211779 0.551406567 0.922981681 1.068808752 0.929596855 1.155966884 0.85385658 1 9.640723106 -5.313812469 6.920168372 0.904430741 1.039139752 0.20783282 0.144548708 0.360503216 40.23682252 0.021436308 0.04851364 4.85E-06 5.313812469 0.134709012 ATENDIANFFS(ph)PLNPIR ddPTM_HeLa_SAHA_4h_R1 1 ATENDIANFFSPLNPIR 17 0 P31942-4;P31942-3;P31942;P31942-5;P31942-2;P31942-6 P31942-4 HNRNPH3 Heterogeneous nuclear ribonucleoprotein H3 1 0 ATENDIANFFS(1)PLNPIR 161.75 4.69E-06 47693000 898.53 934.95 887.94 950.21 1163.7 1159.1 1043.3 991.21 1000.4 1008.4 TRUE FALSE FALSE 993.041508 965.2429934 1008.943839 968.6026886 1074.537557 1060.338159 925.9051382 965.8562835 993.4381349 1051.877059 0.944066134 0.917638602 0.959184184 0.920832601 1.021542915 1.008043811 0.880240833 0.918221645 0.944443199 1 10.03875038 -7.7499309 0.00762779 1.927046972 3.56E-07 0.021532581 0.042994323 2862.646982 15.94253797 2026.646751 1999.827647 1.78E-08 7.7499309 -1.927046617 ATENDIYNFFS(ph)PLNPVR ddPTM_HeLa_SAHA_4h_R1 1 ATENDIYNFFSPLNPVR 17 0 P31943;G8JLB6;E9PCY7;H0YB39;H0YBD7;H0YBG7;P52597 P31943;P52597 HNRNPH1;HNRNPF "Heterogeneous nuclear ribonucleoprotein H;Heterogeneous nuclear ribonucleoprotein H, N-terminally processed;Heterogeneous nuclear ribonucleoprotein F;Heterogeneous nuclear ribonucleoprotein F, N-terminally processed" 1 0 ATENDIYNFFS(1)PLNPVR 112.91 0.0012288 68461000 402.42 376.62 411.57 364.39 455.19 574.54 580.71 538.33 570.57 478.8 TRUE FALSE FALSE 444.748382 388.8227351 467.6566162 371.4432954 420.3134405 525.5859597 515.3669825 524.5602981 566.5993569 499.4434112 0.890488035 0.778512092 0.936355563 0.743714477 0.841563691 1.052343365 1.031882634 1.050289755 1.134461571 1 8.964177414 -5.243490578 24.1145642 0.911303928 1.043543019 0.274603179 0.104675568 513.9882392 690550.6909 0.013161626 0.033470013 5.71E-06 5.243490578 0.132239091 ATENDIYNFFSPLNPVR ddPTM_HeLa_SAHA_4h_R1 2 ATENDIYNFFSPLNPVR 17 0 P31943;G8JLB6;E9PCY7;H0YB39;H0YBD7;H0YBG7;P52597 P31943;P52597 HNRNPH1;HNRNPF "Heterogeneous nuclear ribonucleoprotein H;Heterogeneous nuclear ribonucleoprotein H, N-terminally processed;Heterogeneous nuclear ribonucleoprotein F;Heterogeneous nuclear ribonucleoprotein F, N-terminally processed" 0 0 ; ; 132.51 0.00069101 98548000 1059.05 995.2 1049.78 1165.38 1260.66 1359.58 1298.58 1301.44 1281.02 1292.27 FALSE FALSE TRUE 1170.445738 1027.445133 1192.838551 1187.937615 1164.068503 1243.736135 1152.460361 1268.151049 1272.105278 1347.986084 0.868292152 0.762207522 0.884904203 0.881268456 0.863561217 0.922662444 0.854949746 0.940774585 0.943708019 1 10.39658989 -9.048791052 0.932473819 0.996798629 0.871565542 0.392604932 0.04766922 0.331096472 0.540155013 0.026113193 0.008735702 8.94E-10 9.048791052 -0.125233087 ATEPPS(ph)PDAGELSLASR ddPTM_HeLa_SAHA_4h_R1 2 ATEPPSPDAGELSLASR 17 0 Q8IYB8 Q8IYB8 SUPV3L1 "ATP-dependent RNA helicase SUPV3L1, mitochondrial" 1 0 AT(0.018)EPPS(0.982)PDAGELSLASR;ATEPPS(1)PDAGELSLASR ; 249.86 2.97E-37 16834500 1820 2259.4 2183.8 1706.52 2341.2 2136.3 2800 2246.5 2160.7 1990.52 TRUE FALSE FALSE 2011.43595 2332.606042 2481.396891 1739.552162 2161.817762 1954.275222 2484.936631 2189.037783 2145.663513 2076.341059 0.968740633 1.123421431 1.19508155 0.837796929 1.041166986 0.941211085 1.196786347 1.054276596 1.033386834 1 11.01982772 -1 0.336301508 0.994243563 2.225869246 0 0.106414388 96.10208921 1.215583324 0.032078938 75.05370106 0.1 1 1.231625683 ATEVSK(ac)TPEAR ddPTM_HeLa_SAHA_4h_R1 2 ATEVSKTPEAR 11 1 Q5H909;Q9UNF1-2;Q9UNF1 Q5H909 MAGED2 Melanoma-associated antigen D2 0 1 ; ATEVSK(1)TPEAR;ATEVSK(1)TPEAR 108.9 0.007271 1557270 130.42 130.28 215.78 275.08 370.7 416.61 432.07 321.58 0 0 FALSE TRUE FALSE 144.138174 134.5011575 245.1853747 280.4045712 342.2970461 381.1124842 383.4523465 313.3544492 0 0 0 ATFIK(ac)VPQNQNGK ddPTM_HeLa_SAHA_4h_R1 1 ATFIKVPQNQNGK 13 1 P19338;H7BY16 P19338 NCL Nucleolin 0 1 ATFIK(1)VPQNQNGK 193.3 2.45E-17 1467200 82.306 374.17 124.86 179.37 388.97 294.19 249.8 368.18 156.51 173.35 FALSE TRUE FALSE 90.96332271 386.2933535 141.8752706 182.8419657 359.1672026 269.1233569 221.6918466 358.7624887 155.4208342 180.8239669 0.503049039 2.136295095 0.784604348 1.011160019 1.986280961 1.488316851 1.226009198 1.984042796 0.85951457 1 7.498442099 -6.649940404 0.800225174 0.789289454 1.594642626 0.236028562 0.474523908 0.537861677 0.691380223 0.103457841 0.182718937 2.24E-07 6.649940404 0.805353172 ATFIKVPQNQNGK ddPTM_HeLa_SAHA_4h_R1 1 ATFIKVPQNQNGK 13 1 P19338;H7BY16 P19338 NCL Nucleolin 0 0 80.17 0.023695 1730600 873.19 764.59 832.71 796.4 838.01 755.43 822.54 788.34 537.04 766.91 FALSE FALSE TRUE 965.0361305 789.3632177 946.1873822 811.8154736 773.8018548 691.0631141 729.9856344 768.1754043 533.3026949 799.9752433 1.206332494 0.986734557 1.18277083 1.014800746 0.967282252 0.863855625 0.912510281 0.960248971 0.666648999 1 9.643811544 -5.830247698 2.464797069 1.095727426 0.91447881 0 0.152308956 0.191557534 2.370823214 0.013236933 0.027008613 1.48E-06 5.830247698 -0.181248616 ATFSGS(ph)AGR ddPTM_HeLa_SAHA_4h_R1 3 ATFSGSAGR 9 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 ATFSGS(1)AGR;ATFSGS(1)AGR;ATFS(0.001)GS(0.999)AGR ;; 117.71 0.0040136 36647000 4294.89 4606.6 4211.4 5308.1 5244.8 6031.1 5898.5 5135.5 5327.4 4936.8 TRUE FALSE FALSE 4746.646236 4755.856863 4785.30766 5410.845951 4842.944557 5517.21635 5234.785256 5004.141346 5290.32619 5149.649608 0.921741594 0.923530186 0.929249177 1.050721187 0.940441569 1.071377039 1.016532319 0.971744046 1.0273177 1 12.33025856 -6.270501187 24.97174068 0.956209477 1.010044412 0.219563311 0.046611885 705.7672913 1944889.858 0.007036773 0.010847011 5.36E-07 6.270501187 0.053834936 ATGAALT(ph)PTEER ddPTM_HeLa_SAHA_4h_R1 3 ATGAALTPTEER 12 0 M0R300;M0R0P8;Q13459-2;Q13459 M0R300 MYO9B Unconventional myosin-IXb 1 0 ATGAALT(0.648)PT(0.352)EER;ATGAALT(0.633)PT(0.367)EER;ATGAALT(0.888)PT(0.112)EER ;; 120.6 0.0026378 21928700 4533.6 5310.5 4183.7 3656.17 4684.8 4937.6 4665.1 3835.14 3751.55 5175 TRUE FALSE FALSE 5010.464849 5482.563684 4753.832848 3726.940457 4325.851636 4516.888702 4140.17067 3737.042672 3725.442658 5398.119576 0.92818708 1.015643245 0.880646081 0.69041458 0.801362692 0.83675225 0.76696535 0.692286012 0.690137113 1 12.39824122 -6.50006836 4.894852075 0.968432065 0.765585065 0.278702736 0.099920405 0.064514777 4.104513418 0.007900745 0.011829926 3.16E-07 6.50006836 -0.202847001 ATGDETGAK(ac)VER ddPTM_HeLa_SAHA_4h_R1 2 ATGDETGAKVER 12 1 D6R9B6;H0Y9Y4;D6RAT0;P61247 D6R9B6 RPS3A 40S ribosomal protein S3a 0 1 ; ATGDETGAK(1)VER;ATGDETGAK(1)VER 147.62 6.77E-05 1208180 210.285 298.326 321.2 238.703 271.29 328.92 489.06 430.82 62.908 295.01 FALSE TRUE FALSE 232.4037411 307.9919581 364.9714633 243.3234417 250.5038188 300.8941655 434.0296817 419.8002482 62.47021811 307.7293248 0.755221301 1.000853456 1.186014571 0.790706059 0.814039478 0.977788404 1.410426783 1.364186687 0.203003786 1 8.265518121 -4.809190352 4.678740614 0.902912493 1.391925579 0.415515033 0.251815655 0.082522764 3.837751938 0.019447558 0.065232563 1.55E-05 4.809190352 0.489013086 ATGDGSS(ph)PELPSLER ddPTM_HeLa_SAHA_4h_R1 2 ATGDGSSPELPSLER 15 0 H3BSS6;Q9H2Y7;A0A0C4DGM5;Q9H2Y7-2;H3BS99 H3BSS6 ZNF106 Zinc finger protein 106 1 0 ATGDGS(0.028)S(0.972)PELPSLER;ATGDGS(0.041)S(0.959)PELPSLER ; 191.01 4.93E-09 32485000 3407.2 3417.3 2484.89 3352.5 3660.4 3827.3 3888 3572.4 3723.9 3166.7 TRUE FALSE FALSE 3765.584929 3528.022762 2823.517868 3417.392485 3379.940943 3501.192508 3450.512007 3481.023181 3697.985077 3303.231934 1.139969885 1.068051784 0.854774331 1.034560259 1.023222411 1.059929359 1.044586658 1.053823422 1.119505124 1 11.68966256 ATGEPGTFVCTSHLPAAAS(ph)ASPK ddPTM_HeLa_SAHA_4h_R1 5 ATGEPGTFVCTSHLPAAASASPK 23 0 Q8IY33-4;Q8IY33-2;Q8IY33 Q8IY33-4 MICALL2 MICAL-like protein 2 1 0 ATGEPGTFVCTSHLPAAAS(0.911)AS(0.089)PK;ATGEPGTFVCTS(0.001)HLPAAAS(0.613)AS(0.386)PK;ATGEPGTFVCT(0.002)S(0.007)HLPAAAS(0.806)AS(0.185)PK;ATGEPGTFVCTSHLPAAAS(0.958)AS(0.042)PK;ATGEPGTFVCT(0.001)S(0.005)HLPAAAS(0.639)AS(0.355)PK ;;;; 133.98 1.25E-06 32908300 7834.8 7522.7 7079.2 8070.5 9032.6 9891 8169.4 8756.9 8885.3 8597.8 TRUE FALSE FALSE 8658.900211 7766.440416 8043.916509 8226.716198 8340.524139 9048.231155 7250.157611 8532.911178 8823.466474 8968.493235 0.965479929 0.865969368 0.896908354 0.917290785 0.929980535 1.008890894 0.808403086 0.951431969 0.983829306 1 13.13064991 -7.467856895 4.772189822 0.985363262 0.911365312 0.311098233 0.049663202 0.181973129 8.199977229 0.008382105 0.009358137 3.41E-08 7.467856895 -0.07399795 ATGGLCLLGAYADS(ph)DDDDNDVSEK ddPTM_HeLa_SAHA_4h_R1 1 ATGGLCLLGAYADSDDDDNDVSEK 24 0 Q8N3X1-2;Q8N3X1 Q8N3X1-2 FNBP4 Formin-binding protein 4 1 0 ATGGLCLLGAY(0.002)ADS(0.998)DDDDNDVSEK 133.46 3.61E-07 10392000 2065 2669.4 2272.1 2557.6 3393.3 3995.3 3309.4 3293.2 3047.9 2885.9 TRUE FALSE FALSE 2282.206175 2755.890311 2581.729955 2607.106046 3133.306087 3654.877963 2937.017602 3208.964712 3026.689416 3010.325272 0.758126105 0.915479246 0.857624915 0.866054599 1.040852999 1.214113969 0.975647924 1.065986039 1.005436005 1 11.55570367 -5.691733081 4.888933249 0.881975166 1.081568485 0.484218727 0.087165922 0.143963911 6.498684242 0.014961221 0.030204517 2.03E-06 5.691733081 0.199593319 ATGNDLRPPPPS(ph)PSSDLTHPMK ddPTM_HeLa_SAHA_4h_R1 1 ATGNDLRPPPPSPSSDLTHPMK 22 1 A0A075B784;Q9P275 A0A075B784 USP36 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 36 1 0 AT(0.001)GNDLRPPPPS(0.693)PS(0.077)S(0.216)DLT(0.013)HPMK 50.956 0.01067 7438300 1178.9 2058.7 1256.3 1159 1668.1 1607 1546.1 1461.6 1311.4 1537.1 TRUE FALSE FALSE 1302.902111 2125.403231 1427.502021 1181.434121 1540.290538 1470.074559 1372.128759 1424.214388 1302.273861 1603.371903 0.812601311 1.325583432 0.890312484 0.736843472 0.96065706 0.916864363 0.855776976 0.888262034 0.81220948 1 10.64689338 -6.542629042 24.99970908 0.948082567 0.871783136 0.104504574 0.145150386 598.0440804 756995.1787 0.023464301 0.033185656 2.87E-07 6.542629042 -0.076299431 ATGPEAAGGGGAGGGGGGYRPIIQS(ph)PGYK ddPTM_HeLa_SAHA_4h_R1 2 ATGPEAAGGGGAGGGGGGYRPIIQSPGYK 29 1 Q9ULL5;Q9ULL5-2 Q9ULL5 PRR12 Proline-rich protein 12 1 0 ATGPEAAGGGGAGGGGGGY(0.034)RPIIQS(0.961)PGY(0.006)K;ATGPEAAGGGGAGGGGGGY(0.007)RPIIQS(0.993)PGYK ; 74.282 7.27E-05 15080500 2115.81 2037.34 1604.1 1620.51 1852.42 1706.76 1825.42 1446.07 2168.75 1904.82 TRUE FALSE FALSE 2338.360603 2103.351153 1822.698394 1651.877314 1710.48798 1561.334446 1620.018937 1409.081623 2153.657492 1986.946112 1.176861611 1.058584901 0.917336602 0.831364929 0.860862793 0.78579607 0.815331089 0.709169521 1.083903322 1 10.95633703 -6.546517875 1.984194224 1.085327821 0.799893722 0.858288946 0.053644504 0.116742441 0.923738464 0.012319831 0.019212105 2.84E-07 6.546517875 -0.285434099 ATGYPLAFIAAK ddPTM_HeLa_SAHA_4h_R1 1 ATGYPLAFIAAK 12 0 P31327;P31327-3;P31327-2;A0A669KBF2 P31327 CPS1 "Carbamoyl-phosphate synthase [ammonia], mitochondrial" 0 0 128.27 0.0012273 182280 0 198.9 0 0 173.49 0 77.65 0 0 78.014 FALSE FALSE TRUE 0 205.3444905 0 0 160.1972337 0 68.91261764 0 0 81.37756533 0 2.523355051 0 0 1.968567541 0 0.846825748 0 0 1 6.346559213 -4.249896566 22.13479143 0.658469451 1.97E-06 0.053833786 0.866844094 887.0231474 1700806.876 0.111508612 2.072127262 5.62E-05 4.249896566 -0.658467485 ATHGSNS(ph)LPSSAR ddPTM_HeLa_SAHA_4h_R1 1 ATHGSNSLPSSAR 13 0 Q8TDM6-4;Q8TDM6;A0A0J9YYG8;A0A0A0MSL1;Q8TDM6-2;Q8TDM6-5 Q8TDM6-4 DLG5 Disks large homolog 5 1 0 AT(0.003)HGS(0.387)NS(0.604)LPS(0.002)S(0.003)AR 100.18 0.0024913 0 386.68 647.93 499.78 746.41 499.75 476.53 625.63 546.03 468.93 606.86 TRUE FALSE FALSE 427.3527766 668.9233571 567.8874157 760.8578449 461.459263 435.9269631 555.2324658 532.0633432 465.6666779 633.0247045 0.675096522 1.056709718 0.897101506 1.201940208 0.728975125 0.688641312 0.877110264 0.840509603 0.735621651 1 9.306117993 ATIAGGGVIPHIHK ddPTM_HeLa_SAHA_4h_R1 2 ATIAGGGVIPHIHK 14 0 P0C0S5;Q71UI9-4;Q71UI9;Q71UI9-3 P0C0S5;Q71UI9 H2AFZ;H2AFV Histone H2A.Z;Histone H2A.V 0 0 ; ; 77.674 0.0099234 7444300 7437.3 6697.2 5693.9 7487.6 8437.6 565.74 9437.1 8212.5 5400.3 6654.6 FALSE FALSE TRUE 8219.589338 6914.193674 6469.835039 7632.533325 7791.112911 517.5357692 8375.212671 8002.436142 5362.718873 6941.512373 1.184120822 0.996064446 0.932049774 1.099549049 1.122394155 0.07455663 1.206540048 1.152837554 0.772557706 1 12.76103431 ATIS(ph)DEEIER ddPTM_HeLa_SAHA_4h_R1 4 ATISDEEIER 10 0 C9J0A7;Q9UQN3-2;Q9UQN3 C9J0A7 CHMP2B Charged multivesicular body protein 2b 1 0 AT(0.002)IS(0.998)DEEIER;AT(0.007)IS(0.993)DEEIER;AT(0.042)IS(0.958)DEEIER;AT(0.006)IS(0.994)DEEIER ;;; 147.33 0.00077921 514291200 3204.06 3407.33 3315.18 3702.09 3729.18 4040.19 3725.74 3960.33 3602.53 3354.65 TRUE FALSE FALSE 3541.077732 3517.729728 3766.955466 3773.749305 3443.451034 3695.943083 3306.50993 3859.030493 3577.4597 3499.285379 1.011943111 1.00527089 1.076492786 1.078434279 0.984044072 1.05619939 0.944910052 1.102805309 1.022340082 1 11.77284461 -6.899240203 22.70432621 1.005762187 1.03641839 0.095745635 0.044309482 10.82621971 2418.126056 0.006574854 0.008641048 1.26E-07 6.899240203 0.030656203 ATISNDGATILK ddPTM_HeLa_SAHA_4h_R1 1 ATISNDGATILK 12 0 Q99832-3;Q99832;F8WAM2 Q99832-3 CCT7 T-complex protein 1 subunit eta 0 0 116.84 0.0055086 1395100 209.09 270.05 164.57 190.77 224.8 243.07 167.78 175.63 247.63 122.21 FALSE FALSE TRUE 231.0830455 278.7997972 186.9967426 194.4626292 207.5758726 222.3590685 148.9009528 171.1376389 245.9067227 127.4790712 1.812713596 2.187024071 1.466881903 1.52544749 1.628313343 1.744279014 1.168042342 1.342476356 1.928996818 1 6.994116602 -9.37202538 1.142500498 1.006238263 1.625377339 0 0.386359899 0.382521075 0.906903976 0.183038296 0.049252239 4.25E-10 9.37202538 0.619139076 ATKVPLVAEK(ac)PLKEPK ddPTM_HeLa_SAHA_4h_R1 1 ATKVPLVAEKPLKEPK 16 3 P41250 P41250 GARS Glycine--tRNA ligase 0 1 ATKVPLVAEK(0.998)PLK(0.002)EPK 73.296 0.005914 1006900 206.3 230.66 64.06 209.69 467.89 230.4 270.34 428.97 360.62 56.249 FALSE TRUE FALSE 227.9995805 238.1335353 72.78976319 213.7488532 432.0403693 210.7686238 239.9206317 417.9975685 358.1104161 58.67416967 3.885859516 4.058575293 1.24057594 3.642980453 7.363382758 3.592187585 4.089033267 7.124047446 6.103374246 1 5.874653615 -5.993658601 24.87783857 2.473588143 5.324596562 0.206998838 1.824728833 116.8569314 458434.0446 0.236649998 0.428169653 1.01E-06 5.993658601 2.851008419 ATLLEDQQDPSPS(ph)S ddPTM_HeLa_SAHA_4h_R1 2 ATLLEDQQDPSPSS 14 0 B5MBZ0;Q9HC35;Q9HC35-2 B5MBZ0 EML4 Echinoderm microtubule-associated protein-like 4 1 0 ATLLEDQQDPS(0.303)PS(0.41)S(0.287);ATLLEDQQDPS(0.116)PS(0.534)S(0.35) ; 119.25 0.00096156 4382300 2536.9 2752 2553 3162.4 3090.6 3646.7 2974.5 3426.8 3240.4 3477.9 TRUE FALSE FALSE 2803.742782 2841.166606 2900.909545 3223.612825 2853.798896 3335.980644 2639.801432 3339.147418 3217.849793 3627.849289 0.772838825 0.78315453 0.799622397 0.888574075 0.786636563 0.919547748 0.727649144 0.920420655 0.886985521 1 11.82489881 -9.357195176 1.050377876 1.001274004 0.820028017 0.262067133 0.070354174 0.300917996 0.587575411 0.040698329 0.010299234 4.39E-10 9.357195176 -0.181245988 ATLPDADKER ddPTM_HeLa_SAHA_4h_R1 2 ATLPDADKER 10 1 P12814-4;P12814-3;P12814;P12814-2;H9KV75;H7C5W8 P12814-4 ACTN1 Alpha-actinin-1 0 0 ; ; 100.02 0.015786 13858000 5682.5 5162.3 5156.6 5852.4 5786.6 5082.2 5650.7 5308.7 4603.6 5176.9 FALSE FALSE TRUE 6280.211422 5329.561907 5859.314594 5965.681665 5343.231958 4649.167968 5014.868364 5172.911141 4571.563173 5400.101494 1.162980257 0.986937359 1.085037865 1.1047351 0.989468802 0.86094085 0.928661872 0.957928503 0.846569861 1 12.39877081 -5.54597533 4.561526501 1.073330417 0.91736025 0.166266674 0.08861842 0.118033417 6.015733176 0.009934154 0.021049213 2.84E-06 5.54597533 -0.155970167 ATLPSPDK(ac)LPGFK ddPTM_HeLa_SAHA_4h_R1 1 ATLPSPDKLPGFK 13 1 P22314-2;P22314;Q5JRR6 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 1 ATLPSPDK(1)LPGFK 153.54 2.69E-06 1779900 485.39 1361.4 644.37 582.85 1334.7 1443.2 1394.6 1407.8 1128.5 571.84 FALSE TRUE FALSE 536.4455472 1405.510253 732.1813879 594.1319046 1232.435574 1320.231241 1237.675938 1371.790514 1120.646677 596.4948209 0.899329765 2.356282408 1.227473169 0.996038664 2.066129547 2.213315513 2.074914809 2.299752599 1.878719877 1 9.220365802 -5.695112892 0.402708536 0.910825186 2.597848609 0.170140158 0.516153697 1.143689786 0.269961601 0.147847403 0.798428758 2.02E-06 5.695112892 1.687023423 ATLPSPDKLPGFK ddPTM_HeLa_SAHA_4h_R1 1 ATLPSPDKLPGFK 13 1 P22314-2;P22314;Q5JRR6 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 85.973 0.017748 1511900 543.01 623.27 543.69 625.67 755.82 778.53 661.81 531.89 592.92 681.56 FALSE FALSE TRUE 600.1262832 643.4643569 617.7812418 637.7807476 697.9092349 712.1948641 587.341397 518.285024 588.7938214 710.9453871 0.844124308 0.905082681 0.868957381 0.897088242 0.981663638 1.001757487 0.826141371 0.72900821 0.828184319 1 9.47359493 -9.433258166 1.114571063 1.001235242 0.884112361 0 0.089979286 0.603748282 1.318739435 0.05583599 0.013402978 3.69E-10 9.433258166 -0.117122881 ATLSSTSGLDLMSESGEGEIS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 4 ATLSSTSGLDLMSESGEGEISPQR 24 0 E9PMS6;Q8WWI1-3;E9PMP7;H0YDG6;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 ATLSSTSGLDLMSESGEGEIS(1)PQR;ATLSSTSGLDLMSESGEGEIS(1)PQR;ATLSSTSGLDLMS(0.003)ES(0.002)GEGEIS(0.994)PQR;ATLSSTSGLDLMS(0.006)ES(0.303)GEGEIS(0.691)PQR ;;; 188.37 5.87E-16 21039600 4226.33 5527.89 3983.74 5328.09 5595.53 6845.44 5896.3 5011.07 7430.72 5155.71 TRUE FALSE FALSE 4670.87478 5706.997263 4526.623341 5431.222886 5166.8017 6262.170001 5232.832806 4882.894085 7379.009015 5377.99789 0.868515547 1.061175066 0.84169303 1.009896805 0.960729589 1.16440544 0.973007597 0.907939011 1.372073617 1 12.39285347 -6.111641542 23.16325526 0.940317891 1.008133834 0 0.160439536 22.35932511 4605.46582 0.013160149 0.021823643 7.73E-07 6.111641542 0.067815943 ATLSSTSGLDLMSESGEGEIS(ph)PQREVSR ddPTM_HeLa_SAHA_4h_R1 5 ATLSSTSGLDLMSESGEGEISPQREVSR 28 1 E9PMS6;Q8WWI1-3;E9PMP7;H0YDG6;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 ATLSSTSGLDLMS(0.097)ES(0.064)GEGEIS(0.83)PQREVS(0.008)R;ATLSSTSGLDLMS(0.088)ES(0.259)GEGEIS(0.648)PQREVS(0.005)R;ATLSSTSGLDLMSES(0.041)GEGEIS(0.958)PQREVSR;ATLSSTSGLDLMSES(0.005)GEGEIS(0.991)PQREVS(0.004)R;ATLSSTS(0.001)GLDLMS(0.035)ES(0.031)GEGEIS(0.926)PQREVS(0.007)R ;;;; 138.46 1.84E-10 230738000 3025.25 2748.68 3320.88 3573.03 2954.41 3025.46 3701.39 3764.8 2528.75 3267.89 TRUE FALSE FALSE 3343.459675 2837.739035 3773.432232 3642.191162 2728.043744 2767.673787 3284.899856 3668.501867 2511.152223 3408.784731 0.980836263 0.832478217 1.106972875 1.068472036 0.800298042 0.811923898 0.963657173 1.076190536 0.736670814 1 11.73504178 -5.775977066 24.9991402 0.992047348 0.909413535 0 0.127312382 359.9743273 619014.8802 0.01461155 0.026569663 1.68E-06 5.775977066 -0.082633813 ATLT(ph)WTPPLEDGGS(ph)PIK ddPTM_HeLa_SAHA_4h_R1 1 ATLTWTPPLEDGGSPIK 17 0 A0A0A0MRA3;A0A0A0MTS7;Q8WZ42-3;Q8WZ42-10;Q8WZ42-9;Q8WZ42-5;Q8WZ42-11;Q8WZ42-4;Q8WZ42-7;Q8WZ42-2;Q8WZ42;Q8WZ42-8;Q8WZ42-13;Q8WZ42-12 A0A0A0MRA3 TTN Titin 2 0 AT(0.121)LT(0.546)WT(0.333)PPLEDGGS(1)PIK 72.615 0.0067106 1864600 1539.8 1334 1476.9 1883.8 1950.5 1732.7 1911.5 1898.4 1764.4 1347 TRUE FALSE FALSE 1701.763229 1377.222475 1678.164241 1920.263673 1801.053111 1585.064212 1696.412989 1849.841677 1752.121397 1405.075762 1.211154071 0.980176666 1.194358543 1.366662016 1.281819216 1.128098751 1.207346276 1.316542301 1.24699425 1 10.45643221 -13.52287875 0.154411147 0.180894557 1.286071854 0 0.121469745 47.70788948 0.497545973 11.8223801 0.214046818 3.00E-14 13.52287875 1.105177296 ATLTAS(ph)PLGAS ddPTM_HeLa_SAHA_4h_R1 1 ATLTASPLGAS 11 0 Q13111;Q13111-3 Q13111 CHAF1A Chromatin assembly factor 1 subunit A 1 0 ATLT(0.011)AS(0.987)PLGAS(0.002) 89.171 0.015865 8594700 2817.1 2508.8 2746.3 2597.8 2824.3 2742.9 3031 2890.5 3055.6 2315.2 TRUE FALSE FALSE 3113.415503 2590.086766 3120.551462 2648.084175 2607.902744 2509.189489 2689.943903 2816.565195 3034.335831 2415.019602 1.289188502 1.072490991 1.292143326 1.096506286 1.079868148 1.038993425 1.113839366 1.166270118 1.256443562 1 11.23781918 -6.065610571 24.99955624 1.146965988 1.095379223 0.109594365 0.094456772 571.8450888 217889.0089 0.01796139 0.029785605 8.60E-07 6.065610571 -0.051586765 ATLYVTAIEDR ddPTM_HeLa_SAHA_4h_R1 1 ATLYVTAIEDR 11 0 E9PKG1;Q99873-2;Q99873-3;Q99873;E9PNR9;E9PQ98;E9PIX6;H0YDE4 E9PKG1 PRMT1 Protein arginine N-methyltransferase 1 0 0 169.37 0.00063166 6306200 1674 1493.1 1427.6 1950.7 1779.5 1646.6 1619.7 1853.2 1599.7 1361.5 FALSE FALSE TRUE 1850.079001 1541.47742 1622.145893 1988.458619 1643.155094 1506.300416 1437.447093 1805.797827 1588.567557 1420.200928 1.302688207 1.085393897 1.142194644 1.400124856 1.156987763 1.060624864 1.012143468 1.271508694 1.118551274 1 10.47187934 -3.893307078 16.90200923 1.147576861 9.155005452 0.095420609 0.118468791 233.1235037 36997.23471 0.019251965 128.3469059 0.000127848 3.893307078 8.007428591 ATMAQNENVVVQPVVAENIPVIPLSDS(ph)PPPSR ddPTM_HeLa_SAHA_4h_R1 1 ATMAQNENVVVQPVVAENIPVIPLSDSPPPSR 32 0 A0A087WYW3;P30414 A0A087WYW3 NKTR NK-tumor recognition protein;Putative peptidyl-prolyl cis-trans isomerase 1 0 ATMAQNENVVVQPVVAENIPVIPLS(0.063)DS(0.598)PPPS(0.338)R 108.61 5.06E-10 6921700 649.91 457.06 604.88 725.77 532.37 701.55 700.49 444.09 638.76 619.16 TRUE FALSE FALSE 718.2705157 471.8690439 687.3098963 739.8183278 491.5799256 641.7739932 621.6690216 432.7308208 634.3148172 645.8550177 1.112123458 0.730611408 1.064186044 1.145486692 0.761130458 0.993681206 0.962551973 0.670012323 0.982131902 1 9.335066533 -3.218227688 0.536338206 1.032828167 8.27E-26 0.238189281 0.13654005 9.54365433 0.81536844 0.025631242 7.971512494 0.000605024 3.218227688 -1.032828167 ATMAQNENVVVQPVVAENIPVIPLSDSPPPS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 ATMAQNENVVVQPVVAENIPVIPLSDSPPPSR 32 0 A0A087WYW3;P30414 A0A087WYW3 NKTR NK-tumor recognition protein;Putative peptidyl-prolyl cis-trans isomerase 1 0 ATMAQNENVVVQPVVAENIPVIPLS(0.302)DS(0.198)PPPS(0.5)R;ATMAQNENVVVQPVVAENIPVIPLS(0.369)DS(0.187)PPPS(0.444)R ; 101.53 3.95E-09 15543600 1414.78 1609.57 1498.13 1492.06 1905.6 2012.47 1703.84 1869.51 1945.04 1704.26 TRUE FALSE FALSE 1563.593052 1661.721124 1702.287354 1520.940979 1759.59334 1840.996234 1512.119439 1821.690641 1931.504308 1777.738989 0.879540282 0.934738527 0.95755753 0.855547968 0.98979285 1.035582977 0.850585743 1.024723344 1.086494879 1 10.79582781 ATMILT(ph)VGGT(ph)AY(ph)AIY(ph)QLAVAS(ph)FPNK ddPTM_HeLa_SAHA_4h_R1 1 ATMILTVGGTAYAIYQLAVASFPNK 25 0 O60397 O60397 COX7A2P2 "Putative cytochrome c oxidase subunit 7A3, mitochondrial" 5 0 AT(0.192)MILT(0.823)VGGT(0.994)AY(0.993)AIY(0.999)QLAVAS(1)FPNK 43.579 0.0081893 0 311.86 283.94 372.21 332.09 443.07 448.06 311.62 186.77 355.6 179.24 TRUE FALSE FALSE 344.6628657 293.1398423 422.9328404 338.5180822 409.1220723 409.8827673 276.5556975 181.9926938 353.1253506 186.9679136 1.843433234 1.567861761 2.262061079 1.81056779 2.18819403 2.192262616 1.479161275 0.973389981 1.888694931 1 7.546646894 -9.141338527 0.738541275 0.957368245 1.822303348 0 0.458908501 0.632232083 0.578703327 0.32737605 0.078823145 7.22E-10 9.141338527 0.864935103 ATNES(ph)EDEIPQLVPIGK ddPTM_HeLa_SAHA_4h_R1 11 ATNESEDEIPQLVPIGK 17 0 O76021;J3QSV6;O76021-2 O76021 RSL1D1 Ribosomal L1 domain-containing protein 1 1 0 AT(0.006)NES(0.994)EDEIPQLVPIGK;ATNES(1)EDEIPQLVPIGK;AT(0.009)NES(0.991)EDEIPQLVPIGK;AT(0.008)NES(0.992)EDEIPQLVPIGK;AT(0.002)NES(0.998)EDEIPQLVPIGK;ATNES(1)EDEIPQLVPIGK;AT(0.012)NES(0.988)EDEIPQLVPIGK;AT(0.003)NES(0.997)EDEIPQLVPIGK;AT(0.015)NES(0.985)EDEIPQLVPIGK;AT(0.046)NES(0.954)EDEIPQLVPIGK;AT(0.019)NES(0.981)EDEIPQLVPIGK ;;;;;;;;;; 192.85 2.13E-13 2492014800 36695.53 40636.1 34400.75 39677.34 45337.19 46910.35 47866.33 44545.49 42833.7 41567.4 TRUE FALSE FALSE 40555.33421 41952.7363 39088.70506 40445.35229 41863.4643 42913.32427 42480.28457 43406.08087 42535.61679 43359.57404 0.935325937 0.967554161 0.901501132 0.932789429 0.965495285 0.989708161 0.979720985 1.001072585 0.980997109 1 15.40406296 -5.306446744 4.735052739 0.960261087 0.989277094 0.254309178 0.026706175 0.332101229 17.28147194 0.004867742 0.011476297 4.94E-06 5.306446744 0.029016007 ATNES(ph)EDEIPQLVPIGKK ddPTM_HeLa_SAHA_4h_R1 2 ATNESEDEIPQLVPIGKK 18 1 O76021;J3QSV6;O76021-2 O76021 RSL1D1 Ribosomal L1 domain-containing protein 1 1 0 AT(0.036)NES(0.964)EDEIPQLVPIGKK;AT(0.031)NES(0.969)EDEIPQLVPIGKK ; 107.25 0.00074968 254210000 5714.1 3127.14 5560.1 4622.4 4888.9 3671.5 5652.8 5886.3 1788.67 4382.7 TRUE FALSE FALSE 6315.135255 3228.461388 6317.801472 4711.873236 4514.313538 3358.667545 5016.732067 5735.736969 1776.2225 4571.659645 1.381366013 0.706190232 1.381949218 1.030670173 0.987456173 0.73467139 1.097354671 1.254629044 0.388529033 1 12.15850229 -6.027816391 24.66533358 1.157561225 1.004530329 0 0.326296105 1179.783107 1046135.767 0.035103638 0.058311792 9.38E-07 6.027816391 -0.153030896 ATPATAPGT(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 ATPATAPGTSPR 12 0 H0Y873;Q96P47;Q96P47-2;Q96P47-4;Q96P47-5 H0Y873 AGAP3 "Arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3" 1 0 ATPATAPGT(0.608)S(0.392)PR 108.68 0.005926 3469200 1848.2 1550.9 1521.4 1926 1845.2 1961.6 1940.6 1630.7 1887.9 1751.8 TRUE FALSE FALSE 2042.602156 1601.150178 1728.728469 1963.280515 1703.821175 1794.460644 1722.238581 1588.989055 1874.76195 1827.328671 1.117807753 0.876224514 0.946041342 1.074399229 0.932410902 0.982013073 0.942489771 0.869569378 1.025957716 1 10.83552043 -4.030764394 0.36355996 1.046731235 0.74040414 0.212381367 0.0676455 6.691232063 0.541065665 0.024360341 0.926227146 9.32E-05 4.030764394 -0.306327095 ATPATAPGTS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 ATPATAPGTSPR 12 0 H0Y873;Q96P47;Q96P47-2;Q96P47-4;Q96P47-5 H0Y873 AGAP3 "Arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3" 1 0 ATPATAPGT(0.175)S(0.825)PR;ATPATAPGT(0.081)S(0.919)PR ; 129.76 0.0010628 26440200 5815.1 5751 5572.3 5285.6 6606.6 7731.7 6770.5 6008 6182.5 5938 TRUE FALSE FALSE 6426.758899 5937.336173 6331.664025 5387.910431 6100.403735 7072.915663 6008.665521 5854.324059 6139.475479 6194.01624 1.037575403 0.958559995 1.022222703 0.86985733 0.984886623 1.141894917 0.970075842 0.945158009 0.991194605 1 12.59665945 -7.271947837 24.48577999 1.017743939 0.987188602 0.023948707 0.065746008 1482.620307 3454649.767 0.011302187 0.013000777 5.35E-08 7.271947837 -0.030555337 ATPELGSSENSAS(ph)SPPR ddPTM_HeLa_SAHA_4h_R1 2 ATPELGSSENSASSPPR 17 0 Q9BX63 Q9BX63 BRIP1 Fanconi anemia group J protein 1 0 ATPELGSSENSAS(0.861)S(0.139)PPR;ATPELGSSENS(0.001)AS(0.896)S(0.103)PPR ; 193.54 3.14E-12 29432000 3429.99 3756.6 2890.34 4019.9 3696.77 4091.9 3892.3 3778.6 4495.9 3588.8 TRUE FALSE FALSE 3790.772086 3878.316305 3284.220483 4097.710977 3413.524281 3743.2471 3454.32816 3681.948883 4464.612666 3743.530731 1.012619465 1.036004933 0.877305602 1.094611283 0.911846203 0.999924234 0.922746041 0.983549795 1.192620813 1 11.87018388 -5.927892044 0.650773316 1.006331539 0.955032338 0.096691034 0.08311523 1.534442318 1.164942049 0.010979328 0.039515821 1.18E-06 5.927892044 -0.051299201 ATPELGSSENSAS(ph)SPPRFK ddPTM_HeLa_SAHA_4h_R1 1 ATPELGSSENSASSPPRFK 19 1 Q9BX63 Q9BX63 BRIP1 Fanconi anemia group J protein 1 0 ATPELGSS(0.002)ENS(0.021)AS(0.497)S(0.48)PPRFK 68.552 0.0070161 9211200 911.61 619.5 1037.2 1004.6 774.52 811.89 1001.2 1099.4 611.41 868.98 TRUE FALSE FALSE 1007.497322 639.5722065 1178.544214 1024.045486 715.1764449 742.7124044 888.542341 1071.27894 607.155148 906.4459805 1.111480821 0.705582263 1.300181412 1.129736915 0.788989593 0.81936753 0.980248531 1.18184532 0.66981945 1 9.824077235 -5.785437999 24.99977484 1.05039416 0.936497618 0 0.208873227 431.1531888 449138.8333 0.024833573 0.045031318 1.64E-06 5.785437999 -0.113896541 ATPELGSSENSASS(ph)PPRFK ddPTM_HeLa_SAHA_4h_R1 1 ATPELGSSENSASSPPRFK 19 1 Q9BX63 Q9BX63 BRIP1 Fanconi anemia group J protein 1 0 ATPELGSSENS(0.001)AS(0.348)S(0.65)PPRFK 96.128 0.00099878 11463000 1525.6 1058.5 1391.8 1054.1 1156.7 1118.6 1594.8 1278.2 897.47 1162.9 TRUE FALSE FALSE 1686.069608 1092.796095 1581.467256 1074.50363 1068.073896 1023.288987 1415.348907 1245.505495 891.2244332 1213.03831 1.389955778 0.900875171 1.303724081 0.885795297 0.880494777 0.84357516 1.166780055 1.026765177 0.734704276 1 10.2444094 -6.251554779 24.51283015 1.171224477 0.961171187 0 0.207593985 619.1507588 1535431.48 0.028161577 0.046321382 5.60E-07 6.251554779 -0.21005329 ATPGAPALTSMT(ph)PTAVER ddPTM_HeLa_SAHA_4h_R1 1 ATPGAPALTSMTPTAVER 18 0 P54198-2;P54198 P54198-2 HIRA Protein HIRA 1 0 AT(0.001)PGAPALT(0.149)S(0.068)MT(0.742)PT(0.041)AVER 87.419 0.0070423 6804900 857.1 1026.6 657.5 895.53 1047.6 1278 935.54 1056.7 990.39 1138.6 TRUE FALSE FALSE 947.2537105 1059.862514 747.1006759 912.8642781 967.3331143 1169.10721 830.270577 1029.671144 983.4977954 1187.690618 0.79755931 0.892372557 0.629036438 0.768604436 0.814465568 0.984353326 0.699063009 0.866952326 0.828075747 1 10.21394336 -9.149724993 0.731521806 1.011147076 0.802911111 0.048771543 0.107080069 0.646858206 0.576409718 0.08048436 0.019003696 7.08E-10 9.149724993 -0.208235965 ATQASQEY(ph) ddPTM_HeLa_SAHA_4h_R1 1 ATQASQEY 8 0 P16104 P16104 H2AFX Histone H2AX 1 0 ATQAS(0.061)QEY(0.939) 111.65 0.0027314 15067000 6075.8 5590.8 4187.7 6905.9 6843 8258 7802 8295.7 6332.1 5957.2 TRUE FALSE FALSE 6714.880521 5771.945588 4758.377947 7039.573681 6318.690818 7554.371942 6924.098426 8083.508006 6288.034401 6214.044046 1.08059751 0.928854953 0.765745771 1.132849016 1.016840365 1.215693337 1.114266068 1.300844981 1.011906957 1 12.60131675 -5.218180843 1.502712116 1.012220821 1.224644067 0.47548585 0.103029195 0.347532165 1.447569419 0.016034631 0.06314368 6.05E-06 5.218180843 0.212423246 ATQCLVKS(ph)PEVK ddPTM_HeLa_SAHA_4h_R1 1 ATQCLVKSPEVK 12 1 O43379;O43379-4 O43379 WDR62 WD repeat-containing protein 62 1 0 ATQCLVKS(1)PEVK 140.1 0.0029791 3448100 314.19 402.81 446.88 285.48 530.82 492.16 561.5 352.56 401.97 248.51 TRUE FALSE FALSE 347.2379458 415.8613083 507.7784791 291.0058782 490.1486863 450.2251992 498.3185422 343.5420257 399.172658 259.2244823 1.339526046 1.604251669 1.958836892 1.12260183 1.890827139 1.736815887 1.922343668 1.325268442 1.539872525 1 8.018058169 -7.828953346 0.661502264 1.037424283 1.691155358 0.136617737 0.299582616 0.358102181 0.353306716 0.088648907 0.069219797 1.48E-08 7.828953346 0.653731075 ATQVGEK(ac)TPKDESANQEEPEAR ddPTM_HeLa_SAHA_4h_R1 1 ATQVGEKTPKDESANQEEPEAR 22 2 P50552;K7EM16 P50552 VASP Vasodilator-stimulated phosphoprotein 0 1 ATQVGEK(1)TPKDESANQEEPEAR 198.49 4.48E-33 1341800 406.12 403.02 567.93 301.91 467.44 398.74 617.34 645.74 154.22 0 FALSE TRUE FALSE 448.8375649 416.0781124 645.3245427 307.7539046 431.6248482 364.7651087 547.8752785 629.2229058 153.1467705 0 0 ATRPASTSQPDPS(ph)PDR ddPTM_HeLa_SAHA_4h_R1 2 ATRPASTSQPDPSPDR 16 1 P20749;H7C0A2 P20749 BCL3 B-cell lymphoma 3 protein 1 0 ATRPASTSQPDPS(1)PDR;ATRPASTSQPDPS(1)PDR ; 122.96 0.0024642 7597100 558.73 468.78 193.36 493.59 422.53 560.95 455.5 414.43 717.56 507.2 TRUE FALSE FALSE 617.4997849 483.9687796 219.7100938 503.1441482 390.1558427 513.1539042 404.2459412 403.8294807 712.5664415 529.0678742 1.167146627 0.91475745 0.415277707 0.951001134 0.737440056 0.96992074 0.764071986 0.763284827 1.346833698 1 9.047309007 -7.002355322 24.99857541 1.076931505 0.773144106 0.511608992 0.169346164 59.06451582 626898.7905 0.023539035 0.03064905 9.95E-08 7.002355322 -0.303787399 ATS(ph)DEEDSVLNIAR ddPTM_HeLa_SAHA_4h_R1 1 ATSDEEDSVLNIAR 14 0 Q5JPF3-3;Q5JPF3 Q5JPF3-3 ANKRD36C Ankyrin repeat domain-containing protein 36C 1 0 AT(0.063)S(0.937)DEEDSVLNIAR 101.45 0.0042631 1046600 240.53 161.38 178.41 236.41 200.66 285.7 268.57 332.48 134.93 239.51 TRUE FALSE FALSE 265.830049 166.6088179 202.7227857 240.9860574 185.2854742 261.3567527 238.3497968 323.975643 133.9910111 249.8364482 1.064016283 0.666871544 0.811421981 0.964575262 0.741627074 1.046111384 0.954023316 1.296750916 0.536314906 1 7.964840155 -4.260168145 23.90440539 0.965613196 1.296751101 0.173577823 0.191041696 56.93345926 1070337.529 0.020426473 0.169327235 5.49E-05 4.260168145 0.331137905 ATS(ph)FEESER ddPTM_HeLa_SAHA_4h_R1 2 ATSFEESER 9 0 Q52LW3;F8VWZ8 Q52LW3 ARHGAP29 Rho GTPase-activating protein 29 1 0 AT(0.017)S(0.982)FEES(0.001)ER;AT(0.11)S(0.889)FEES(0.001)ER ; 163.9 6.59E-05 105606000 5181.7 8149.6 6949.2 3777.9 6224 7177.8 7827.5 5691.6 4837.9 6470.1 TRUE FALSE FALSE 5726.73498 8413.652387 7896.200786 3851.026717 5747.118465 6566.211059 6946.729099 5546.017113 4804.23266 6749.057675 0.848523639 1.246641056 1.169970856 0.570602135 0.851543836 0.97290783 1.029288744 0.821746884 0.711837547 1 12.72047037 -6.317198967 24.99999324 0.972043136 0.866218784 0.131280597 0.180522014 614.4674873 275497.3835 0.02697065 0.04119836 4.82E-07 6.317198967 -0.105824352 ATS(ph)PEAGGGGGALK ddPTM_HeLa_SAHA_4h_R1 2 ATSPEAGGGGGALK 14 0 Q13233 Q13233 MAP3K1 Mitogen-activated protein kinase kinase kinase 1 1 0 AT(0.099)S(0.901)PEAGGGGGALK;AT(0.08)S(0.92)PEAGGGGGALK ; 146.67 0.00010533 45653000 9415.3 8961.2 8131.9 9209.8 9152.5 9700.9 9174 8910.3 7773.4 8449 TRUE FALSE FALSE 10405.64445 9251.54876 9240.072983 9388.068997 8451.237427 8874.328744 8141.717375 8682.387428 7719.304276 8813.277738 1.18067815 1.049728493 1.048426392 1.065218784 0.958921037 1.006927162 0.923801294 0.98514851 0.875872122 1 13.10546296 -5.868489865 1.422989323 1.083529163 0.962120706 0 0.08160683 0.344336626 1.398019657 0.011282618 0.026468154 1.35E-06 5.868489865 -0.121408457 ATS(ph)PGPTDLETR ddPTM_HeLa_SAHA_4h_R1 1 ATSPGPTDLETR 12 0 Q5VT06 Q5VT06 CEP350 Centrosome-associated protein 350 1 0 AT(0.009)S(0.991)PGPTDLETR 138.42 0.00073224 4755400 1058.7 1342.7 1056.4 1152.1 1245 1537.8 1259.4 1272.8 1321.7 1399.6 TRUE FALSE FALSE 1170.058923 1386.204361 1200.360691 1174.400561 1149.608369 1406.770789 1117.688997 1240.243619 1312.502182 1459.943605 0.801441178 0.949491717 0.822196615 0.804415018 0.787433408 0.963578856 0.76556998 0.849514745 0.899008823 1 10.51169693 -9.417565349 0.874314979 1.011871393 0.84008878 0.2243059 0.069303228 0.48098733 0.580671079 0.058380344 0.011227582 3.82E-10 9.417565349 -0.171782613 ATS(ph)PLVSLYPALECR ddPTM_HeLa_SAHA_4h_R1 1 ATSPLVSLYPALECR 15 0 A0A087WXV6;Q96G74-2;Q96G74-3;Q96G74-5;Q96G74;H7BZQ3;Q96G74-4 A0A087WXV6 OTUD5 OTU domain-containing protein 5 1 0 AT(0.254)S(0.745)PLVSLYPALECR 160.87 6.86E-06 55043000 1631.2 1624.7 1296.3 1393.7 1650 1662.1 1749.5 1623.4 1270.6 1575.6 TRUE FALSE FALSE 1802.7771 1677.341346 1472.953013 1420.677079 1523.577356 1520.479729 1552.641656 1581.875779 1261.757791 1643.531827 1.096892114 1.020571259 0.896212041 0.86440497 0.927014209 0.925129471 0.944698259 0.962485638 0.7677112 1 10.68258368 -6.852162693 5.140754506 1.046239034 0.919325254 0 0.094131241 0.09573167 4.21191756 0.007203928 0.009566719 1.41E-07 6.852162693 -0.12691378 ATS(ph)TATSGFAGAIGQK ddPTM_HeLa_SAHA_4h_R1 2 ATSTATSGFAGAIGQK 16 0 E7ER27;A0A2R8YD50;P51659-3;P51659;P51659-2;E7EPL9;A0A2R8Y7L2;E7ET17 E7ER27 HSD17B4 Peroxisomal multifunctional enzyme type 2;(3R)-hydroxyacyl-CoA dehydrogenase;Enoyl-CoA hydratase 2 1 0 ATS(0.789)T(0.21)ATSGFAGAIGQK;ATS(0.771)T(0.228)AT(0.001)SGFAGAIGQK ; 292.16 3.57E-86 12247700 3288.1 3756.1 3208.2 3289.5 3727.1 4537.9 3910.4 3659.9 3085.2 3624.2 TRUE FALSE FALSE 3633.957444 3877.800104 3645.396788 3353.173029 3441.530403 4151.24539 3470.3915 3566.285057 3063.729842 3780.456998 0.961248189 1.025749031 0.964274105 0.886975577 0.910347718 1.098080309 0.917982006 0.943347606 0.810412562 1 11.88434493 -6.532573274 24.91037249 0.984993754 0.952392966 0 0.078400636 438.5746937 1126928.161 0.008778347 0.012423208 2.93E-07 6.532573274 -0.032600788 ATS(ph)VDYSSFADR ddPTM_HeLa_SAHA_4h_R1 2 ATSVDYSSFADR 12 0 Q86YS7-3;Q86YS7-2;Q86YS7-4 Q86YS7-3 C2CD5 C2 domain-containing protein 5 1 0 AT(0.023)S(0.974)VDYS(0.002)S(0.001)FADR;AT(0.094)S(0.902)VDYS(0.004)SFADR ; 160.56 0.00015939 7387600 1659.5 1889.9 1633.8 1689.54 2122.11 2272.53 2329.83 1877.89 1869.14 1973.08 TRUE FALSE FALSE 1834.053824 1951.134 1856.445756 1722.24349 1959.51439 2078.897659 2067.671397 1829.856293 1856.132503 2058.149135 0.89111804 0.948004188 0.901997685 0.836792369 0.952075997 1.010081157 1.004626614 0.889078572 0.901845484 1 11.00713181 -3.938837913 13.29031543 0.9442509 0.530651267 0.061302679 0.053959357 570720.3593 3751633.142 0.008439049 6070988.859 0.000115123 3.938837913 -0.413599633 ATSACAPISS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 ATSACAPISSPK 12 0 H7C211;A0A087X1U1;F5GXM9;E7EUN2;Q9UPQ3-2;Q9UPQ3 H7C211 AGAP1 "Arf-GAP with GTPase, ANK repeat and PH domain-containing protein 1" 1 0 ATSACAPIS(0.076)S(0.924)PK;ATSACAPIS(0.055)S(0.945)PK;ATSACAPIS(0.003)S(0.997)PK ;; 190.46 5.97E-07 10722500 4942.1 4951.3 4195.7 4216.3 5088.3 5482.7 4938.2 4159.1 5038.6 5028 TRUE FALSE FALSE 5461.932753 5111.725369 4767.468146 4297.912583 4698.435553 5015.543115 4382.540739 4052.716244 5003.535972 5244.781686 1.041403261 0.974630723 0.908992677 0.819464535 0.895830529 0.956292066 0.835600222 0.772714002 0.954002716 1 12.35666701 -6.762749655 2.413605321 1.019240112 0.862622528 0.602138001 0.051265589 0.121440903 1.452982234 0.008145525 0.011524204 1.73E-07 6.762749655 -0.156617584 ATSAGS(ph)SPSCSLAGR ddPTM_HeLa_SAHA_4h_R1 1 ATSAGSSPSCSLAGR 15 0 Q9BXB5-2;Q9BXB5 Q9BXB5-2 OSBPL10 Oxysterol-binding protein-related protein 10 1 0 ATS(0.004)AGS(0.49)S(0.49)PS(0.015)CS(0.001)LAGR 183.28 6.71E-08 38620000 2190.2 2431.9 1974.7 1622.1 2386.8 2432.8 2106.5 2381 1725.8 1842 TRUE FALSE FALSE 2420.575285 2510.695156 2243.801832 1653.498091 2203.9239 2225.511753 1869.471076 2320.097468 1713.790017 1921.417635 1.25978613 1.306688931 1.167784552 0.860561526 1.14703012 1.158265498 0.972964462 1.207492544 0.891940402 1 10.90795542 ATSAGSS(ph)PSCSLAGR ddPTM_HeLa_SAHA_4h_R1 4 ATSAGSSPSCSLAGR 15 0 Q9BXB5-2;Q9BXB5 Q9BXB5-2 OSBPL10 Oxysterol-binding protein-related protein 10 1 0 ATSAGS(0.274)S(0.67)PS(0.022)CS(0.033)LAGR;ATSAGS(0.001)S(0.994)PS(0.005)CSLAGR;ATSAGS(0.143)S(0.852)PS(0.004)CSLAGR;ATS(0.001)AGS(0.411)S(0.573)PS(0.008)CS(0.008)LAGR ;;; 196.37 1.06E-09 83617600 7303.82 7453.9 6717.78 7205.23 8307.5 9083.99 7435.16 8055.55 6977.36 7521.44 TRUE FALSE FALSE 8072.069299 7695.411251 7633.244074 7344.697646 7670.981145 8309.982947 6598.536229 7849.500695 6928.803984 7845.726087 1.028849237 0.980841182 0.972917483 0.936139952 0.977727371 1.059173218 0.841035763 1.000481104 0.883131007 1 12.93769125 -7.017328968 3.11661243 1.013551946 0.9627182 0 0.06636917 0.328568588 6.535168604 0.00829419 0.010673688 9.61E-08 7.017328968 -0.050833746 ATSDTLES(ph)PPKIIPK ddPTM_HeLa_SAHA_4h_R1 2 ATSDTLESPPKIIPK 15 1 O94782 O94782 USP1 Ubiquitin carboxyl-terminal hydrolase 1 1 0 ATS(0.002)DT(0.013)LES(0.984)PPKIIPK;AT(0.004)S(0.013)DT(0.017)LES(0.966)PPKIIPK ; 71.933 0.014552 21649200 4208.3 3594.9 3694.3 3871.4 3885.4 4136 4751.3 4170.4 4170 4322.7 TRUE FALSE FALSE 4650.948302 3711.377119 4197.739965 3946.336545 3587.701491 3783.589531 4216.671219 4063.727207 4140.98063 4509.072752 1.031464463 0.823090982 0.930954144 0.875199129 0.795662809 0.839105896 0.935152625 0.901233453 0.918366338 1 12.13861507 -7.269502715 24.98382019 1.014858221 0.872202758 0.458663385 0.052382369 241.0050739 746740.2818 0.007520259 0.008677346 5.38E-08 7.269502715 -0.142655463 ATSEEDVSIKS(ph)PICEK ddPTM_HeLa_SAHA_4h_R1 1 ATSEEDVSIKSPICEK 16 1 Q5UIP0;Q5UIP0-2 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 ATSEEDVS(0.088)IKS(0.911)PICEK 75.215 0.010032 15517000 1306.8 1575.5 1004.7 915.02 1397.6 1516.4 1261.4 1394.9 1772.7 1438.6 TRUE FALSE FALSE 1444.25522 1626.547234 1141.615284 932.7315352 1290.51619 1387.194189 1119.463952 1359.220478 1760.363636 1500.625086 0.962435743 1.08391313 0.760759829 0.621562004 0.85998575 0.924410902 0.745998426 0.905769529 1.173086904 1 10.55134787 -6.751041854 24.99999407 0.989389571 0.80033709 0.550780995 0.104912539 124.8311922 300145.4526 0.013782698 0.019370288 1.77E-07 6.751041854 -0.189052481 ATSEVPGSQAS(ph)PNPVPGDGLHR ddPTM_HeLa_SAHA_4h_R1 2 ATSEVPGSQASPNPVPGDGLHR 22 0 Q96GM8;Q96GM8-2 Q96GM8 TOE1 Target of EGR1 protein 1 1 0 AT(0.001)S(0.001)EVPGS(0.014)QAS(0.984)PNPVPGDGLHR;ATSEVPGS(0.042)QAS(0.958)PNPVPGDGLHR ; 90.744 0.00023933 11184600 2438.5 2497.5 1880.32 2141.89 2130.21 2588.9 2940.2 2495.2 2133.9 2725.7 TRUE FALSE FALSE 2694.992618 2578.420639 2136.560217 2183.349378 1966.99377 2368.311155 2609.360958 2431.376397 2119.050016 2843.218266 0.947866947 0.906866936 0.751458389 0.767914797 0.691819476 0.832968465 0.917749083 0.855149401 0.745299804 1 11.47330914 -7.030156284 2.752803261 0.975806308 0.803132092 0.036678952 0.094122001 0.140317242 2.127619566 0.011291641 0.014510325 9.33E-08 7.030156284 -0.172674216 ATSS(ph)SNPSS(ph)PAPDWYKDFVTDADAEVLEHSGK ddPTM_HeLa_SAHA_4h_R1 1 ATSSSNPSSPAPDWYKDFVTDADAEVLEHSGK 32 1 P46100-5;P46100-3;P46100-4;P46100;P46100-2 P46100-5 ATRX Transcriptional regulator ATRX 2 0 AT(0.025)S(0.083)S(0.292)S(0.349)NPS(0.224)S(0.747)PAPDWY(0.246)KDFVT(0.035)DADAEVLEHSGK 72.731 3.27E-05 31274000 722.73 802.34 568.77 872.1 596.71 702.02 744.91 695.02 652.37 578.28 TRUE FALSE FALSE 798.7500574 828.3363424 646.2790136 888.9807566 550.9902087 642.2039465 661.0907663 677.2423948 647.8301041 603.2124808 1.324160363 1.373208229 1.071395295 1.473743971 0.913426406 1.064639687 1.095950079 1.122726098 1.073966678 1 9.236522469 ATSS(ph)SSGSLSATGR ddPTM_HeLa_SAHA_4h_R1 1 ATSSSSGSLSATGR 14 0 Q03252 Q03252 LMNB2 Lamin-B2 1 0 ATS(0.01)S(0.434)S(0.434)S(0.106)GS(0.015)LSATGR 140.82 0.00020795 1707400 697.2 722.54 613.83 702.51 756.77 767.09 949.75 768.31 999.74 698.37 TRUE FALSE FALSE 770.5346949 745.9507701 697.4795557 716.1080969 698.7864461 701.7296165 842.8816304 748.6577427 992.7827279 728.4801484 1.057729159 1.023982289 0.957444835 0.983016625 0.959238831 0.963278983 1.157041317 1.027698207 1.362813702 1 9.508745848 -4.76873575 24.99998855 1.011137361 1.092369767 0 0.119648846 134.1167819 459539.4559 0.006792952 0.020993691 1.70E-05 4.76873575 0.081232406 ATSS(ph)TQSLAR ddPTM_HeLa_SAHA_4h_R1 1 ATSSTQSLAR 10 0 A0A087WY61;Q14980-5;Q14980-2;Q14980;H0YFY6 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 1 0 AT(0.001)S(0.045)S(0.902)T(0.045)QS(0.006)LAR 137.4 0.0012545 8072600 1531.3 1446.5 1368.3 2346.9 2017.2 2107.4 2241.2 2040.7 1292.8 1369 TRUE FALSE FALSE 1692.36916 1493.367549 1554.764798 2392.327643 1862.642572 1927.837664 1989.014277 1988.501849 1283.8033 1428.02429 1.185112307 1.045757807 1.088752348 1.675270974 1.304349362 1.350003412 1.392843449 1.392484612 0.899006627 1 10.4798048 -6.32815053 15.22110302 1.085922582 1.410662691 0.71508709 0.118079437 1.632800128 372.2177379 0.01681915 0.025691962 4.70E-07 6.32815053 0.324740109 ATSSS(ph)SGSLSATGR ddPTM_HeLa_SAHA_4h_R1 3 ATSSSSGSLSATGR 14 0 Q03252 Q03252 LMNB2 Lamin-B2 1 0 ATS(0.002)S(0.243)S(0.454)S(0.132)GS(0.132)LS(0.038)ATGR;ATSS(0.002)S(0.919)S(0.077)GS(0.002)LSATGR;ATSS(0.021)S(0.888)S(0.071)GS(0.021)LSATGR ;; 217.46 2.18E-17 64848600 4422.5 4213.6 3552.5 3875.78 4982.4 5172.5 4294.5 4446.7 4814.7 3931.7 TRUE FALSE FALSE 4887.678841 4350.123405 4036.616199 3950.801326 4600.649588 4731.7739 3811.271557 4332.959853 4781.194111 4101.214828 1.191763671 1.060691426 0.984248904 0.963324647 1.121777274 1.15374934 0.929303077 1.056506434 1.165799479 1 12.0018356 -7.003682138 24.90386053 1.092432566 1.034992651 0.157330194 0.080481199 327.1192186 2212466.597 0.015449622 0.020068989 9.92E-08 7.003682138 -0.057439914 ATSSSNPS(ph)SPAPDWYKDFVT(ph)DADAEVLEHSGK ddPTM_HeLa_SAHA_4h_R1 1 ATSSSNPSSPAPDWYKDFVTDADAEVLEHSGK 32 1 P46100-5;P46100-3;P46100-4;P46100;P46100-2 P46100-5 ATRX Transcriptional regulator ATRX 2 0 AT(0.006)S(0.015)S(0.042)S(0.138)NPS(0.665)S(0.249)PAPDWY(0.336)KDFVT(0.549)DADAEVLEHSGK 79.67 1.06E-06 21393000 1571.1 1312.8 1370.2 1780 1725.6 1627.7 1945.5 2225.3 1625.5 1580.2 TRUE FALSE FALSE 1736.355506 1355.335581 1556.92372 1814.454474 1593.384901 1489.010803 1726.58722 2168.380048 1614.188013 1648.330155 1.053402743 0.822247641 0.94454604 1.100783401 0.966666111 0.903344999 1.047476571 1.315501049 0.97928683 1 10.68678952 -4.281001301 3.91137107 0.999508331 1.339684889 0.630352347 0.076563301 0.120386648 3.674268313 0.011008134 0.112541686 5.24E-05 4.281001301 0.340176558 ATSSSNPS(ph)SPAPDWYKDFVTDADAEVLEHSGK ddPTM_HeLa_SAHA_4h_R1 1 ATSSSNPSSPAPDWYKDFVTDADAEVLEHSGK 32 1 P46100-5;P46100-3;P46100-4;P46100;P46100-2 P46100-5 ATRX Transcriptional regulator ATRX 1 0 AT(0.002)S(0.006)S(0.02)S(0.02)NPS(0.59)S(0.349)PAPDWY(0.013)KDFVTDADAEVLEHSGK 137.31 7.98E-15 16556000 2437.5 2605.6 2481.6 3173.1 2911.8 3625.6 3483.2 3249.8 2724.9 2485.5 TRUE FALSE FALSE 2693.887434 2690.02315 2819.779524 3234.519939 2688.698513 3316.678483 3091.261169 3166.674822 2705.937199 2592.662069 1.039043023 1.037552553 1.0876001 1.247567116 1.037041636 1.279255991 1.192311642 1.221398986 1.043690665 1 11.34021846 -6.294216451 0.616399772 1.008769692 1.228396944 0.602448589 0.06261892 0.350691028 0.258554131 0.013280458 0.034567013 5.08E-07 6.294216451 0.219627252 ATSSSNPSSPAPDWY(ph)KDFVTDADAEVLEHSGK ddPTM_HeLa_SAHA_4h_R1 1 ATSSSNPSSPAPDWYKDFVTDADAEVLEHSGK 32 1 P46100-5;P46100-3;P46100-4;P46100;P46100-2 P46100-5 ATRX Transcriptional regulator ATRX 1 0 ATSSS(0.001)NPS(0.249)S(0.153)PAPDWY(0.541)KDFVT(0.056)DADAEVLEHSGK 127.25 9.75E-13 19926000 3254.9 3941.3 3454.7 4557.1 4146.5 4957.3 5023.3 5095.8 3675.9 3340 TRUE FALSE FALSE 3597.265316 4069.000706 3925.488525 4645.30926 3828.796066 4534.910151 4458.065063 4965.456815 3650.319113 3484.003746 1.032509027 1.167909395 1.126717653 1.33332499 1.098964394 1.301637565 1.279581019 1.425215694 1.047736851 1 11.76653046 -4.810030491 0.25982862 0.969590739 1.625968702 0.720777413 0.072747238 2.348929721 0.158686972 0.04779523 0.484745365 1.55E-05 4.810030491 0.656377963 ATSSSS(ph)GSLSATGR ddPTM_HeLa_SAHA_4h_R1 1 ATSSSSGSLSATGR 14 0 Q03252 Q03252 LMNB2 Lamin-B2 1 0 ATS(0.002)S(0.007)S(0.164)S(0.699)GS(0.127)LSAT(0.001)GR 85.909 0.012254 3077600 623.19 626.37 604.91 556.14 749.76 889.68 689.05 706.09 618.8 647.27 TRUE FALSE FALSE 688.7399835 646.664799 687.3439846 566.9048939 692.3135508 813.8742588 611.5162805 688.0292402 614.4937204 675.1769774 1.020088076 0.957770808 1.018020471 0.839638958 1.025380862 1.205423594 0.905712578 1.019035399 0.910122443 1 9.399121901 -5.53258105 24.99911965 0.992973751 1.04391934 0.098295818 0.088786813 436.0072255 1123419.602 0.011983644 0.023990778 2.93E-06 5.53258105 0.050945589 ATSSSSGS(ph)LSATGR ddPTM_HeLa_SAHA_4h_R1 2 ATSSSSGSLSATGR 14 0 Q03252 Q03252 LMNB2 Lamin-B2 1 0 ATSS(0.002)S(0.303)S(0.183)GS(0.509)LS(0.003)ATGR;ATSS(0.001)S(0.01)S(0.187)GS(0.797)LS(0.005)ATGR ; 164.92 8.09E-06 10156800 1227.13 1369.61 1345.25 1293.61 1563.65 1785.26 1595.98 1681.25 1433 1571.02 TRUE FALSE FALSE 1356.205164 1413.986263 1528.573664 1318.649692 1443.843475 1633.145804 1416.39613 1638.246059 1423.027636 1638.754361 0.827582947 0.862842105 0.932765582 0.804665863 0.881061561 0.996577549 0.864312654 0.999689825 0.868359329 1 10.6783839 -4.242840379 22.9571313 0.906684696 0.999690071 0.176462216 0.063227017 2252.368121 2780006.963 0.010612831 0.417746601 5.72E-05 4.242840379 0.093005375 ATSTS(ph)TSGAGDVGK ddPTM_HeLa_SAHA_4h_R1 1 ATSTSTSGAGDVGK 14 0 Q96T17-2;Q96T17;Q96T17-5;Q96T17-4 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 ATS(0.19)T(0.19)S(0.446)T(0.134)S(0.04)GAGDVGK 120.6 0.00090265 2202400 1123.8 1085.8 968.83 1578.4 1859.9 2241.5 1687.4 1688.1 1523.5 1502.4 TRUE FALSE FALSE 1242.00644 1120.980632 1100.857107 1608.952214 1717.394864 2050.51159 1497.529311 1644.920846 1512.897839 1567.175817 0.79251251 0.715287092 0.702446462 1.026657123 1.095853347 1.308411965 0.955559226 1.049608365 0.965365738 1 10.61395133 -6.040789293 7.460220534 0.868563646 1.101382388 0.512107119 0.122629837 0.201055505 32.09128422 0.021222182 0.035682309 9.10E-07 6.040789293 0.232818742 ATSVALPGWS(ph)PSETR ddPTM_HeLa_SAHA_4h_R1 3 ATSVALPGWSPSETR 15 0 Q16513-3;Q16513-2;Q16513;Q16513-4;B1AL79;Q16513-5 Q16513-3 PKN2 Serine/threonine-protein kinase N2 1 0 ATSVALPGWS(0.943)PS(0.054)ET(0.003)R;ATSVALPGWS(0.845)PS(0.12)ET(0.035)R;ATS(0.002)VALPGWS(0.985)PS(0.012)ET(0.001)R ;; 146.27 9.07E-05 30354500 3458.91 3825.74 3945.37 4029.03 4537.81 4836.92 4422.48 4428.4 4976.2 4404.36 TRUE FALSE FALSE 3822.734024 3949.696486 4483.024477 4107.017702 4190.123978 4424.787204 3924.850911 4315.12794 4941.570219 4594.253514 0.832068586 0.859703644 0.97578953 0.893946686 0.912035865 0.963113418 0.854295676 0.93924463 1.075598071 1 12.16561475 -9.592686851 1.408764375 0.999575045 0.89494185 0.475673552 0.051842965 0.345762735 1.238947497 0.033672913 0.00795099 2.55E-10 9.592686851 -0.104633195 ATSVALPGWSPS(ph)ETR ddPTM_HeLa_SAHA_4h_R1 1 ATSVALPGWSPSETR 15 0 Q16513-3;Q16513-2;Q16513;Q16513-4;B1AL79;Q16513-5 Q16513-3 PKN2 Serine/threonine-protein kinase N2 1 0 ATSVALPGWS(0.448)PS(0.508)ET(0.043)R 223.68 1.19E-18 24923000 2458 2255 2562.6 2441.7 2877.3 3164.1 2505.1 2500.7 2683.3 2319.3 TRUE FALSE FALSE 2716.543718 2328.06348 2911.817783 2488.962634 2656.841896 2894.500879 2223.219555 2436.735715 2664.626697 2419.296373 1.122865205 0.962289493 1.203580435 1.028796084 1.098187855 1.196422609 0.918952956 1.007208435 1.101405651 1 11.2403718 -4.727289472 24.99990268 1.070933242 0.963080661 0.274465895 0.077599157 207.5970639 151971.4512 0.010777804 0.040322848 1.87E-05 4.727289472 -0.107852581 ATT(ph)PADGEEPAPEAEALAAAR ddPTM_HeLa_SAHA_4h_R1 3 ATTPADGEEPAPEAEALAAAR 21 0 Q5JZ02;Q96S44 Q5JZ02 TP53RK TP53-regulating kinase 1 0 AT(0.015)T(0.985)PADGEEPAPEAEALAAAR;AT(0.001)T(0.999)PADGEEPAPEAEALAAAR;ATT(1)PADGEEPAPEAEALAAAR ;; 235.02 3.50E-40 20676300 2685.98 2282.52 1817.3 2430.69 2596.97 2526.14 2291.47 2417.97 2435.28 2301.9 TRUE FALSE FALSE 2968.5037 2356.475146 2064.95218 2477.73952 2397.99072 2310.89866 2033.627765 2356.121829 2418.332688 2401.146174 1.236286125 0.981395956 0.859986036 1.03189866 0.998685855 0.962414819 0.846940426 0.981248811 1.007157629 1 11.22950752 -7.027376833 21.0353465 1.111435534 0.946868577 0.330243061 0.08231189 78.71655134 60482.85691 0.016674862 0.020474542 9.39E-08 7.027376833 -0.164566958 ATT(ph)PSLPSVDNEFK ddPTM_HeLa_SAHA_4h_R1 2 ATTPSLPSVDNEFK 14 0 A0A087WU78;A0A087WWC4;Q6T4R5-4;Q6T4R5-3;Q6T4R5-2;Q6T4R5 A0A087WU78 NHS Nance-Horan syndrome protein 1 0 AT(0.002)T(0.984)PS(0.012)LPS(0.002)VDNEFK;ATT(0.997)PS(0.003)LPSVDNEFK ; 173.33 2.77E-06 8693300 1520.07 1859.42 1589.13 1400.94 1805.01 1863.82 2019.57 1720.61 1806.03 1688.46 TRUE FALSE FALSE 1679.957937 1919.666428 1805.688361 1428.057219 1666.710524 1705.01205 1792.322668 1676.599288 1793.46169 1761.257774 0.953839899 1.089940642 1.025226624 0.810816702 0.946318335 0.968065025 1.017637904 0.951932938 1.018284613 1 10.78239036 ATTAALLLEAQAATGFLVDPVR ddPTM_HeLa_SAHA_4h_R1 1 ATTAALLLEAQAATGFLVDPVR 22 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 176.42 9.95E-10 1493500 516.78 560.49 540.38 622.33 611.59 787.43 750.94 520.6 665.41 655.12 FALSE FALSE TRUE 571.1372915 578.6502438 614.0201722 634.3760971 564.7301063 720.336534 666.4422548 507.2838058 660.7793576 683.3654293 0.835771415 0.846765462 0.898523902 0.928311661 0.826395486 1.054101515 0.975235542 0.742331678 0.966948765 1 9.416513455 -9.511240782 1.284909935 0.999528564 0.888284524 0.174315151 0.081970256 0.579250012 1.723310003 0.055582314 0.013650248 3.08E-10 9.511240782 -0.11124404 ATTITSVLPKPALVASR ddPTM_HeLa_SAHA_4h_R1 2 ATTITSVLPKPALVASR 17 1 P31327;P31327-3;Q5R211 P31327 CPS1 "Carbamoyl-phosphate synthase [ammonia], mitochondrial" 0 0 ; ; 99.344 0.004755 1426330 498 908.64 652.88 513.97 741.55 597.3 752.55 548.09 570.07 856.67 FALSE FALSE TRUE 550.3819249 938.0805322 741.8510863 523.9186326 684.7325992 546.4066797 667.8710934 534.0706514 566.1028365 893.6052361 0.615911705 1.049770631 0.83017764 0.586297631 0.76625849 0.611463158 0.747389414 0.597658373 0.633504386 1 9.803493829 -6.286751395 20.4824298 0.835818897 0.669572986 0.2563018 0.138902728 98.41590566 79637.62037 0.024853809 0.037990102 5.17E-07 6.286751395 -0.166245911 ATTKPPPAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 ATTKPPPAKK 10 2 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 ; ATTKPPPAK(1)K;ATTKPPPAK(1)K 92.538 0.014715 0 11744.1 10736.1 9058.8 12492.1 12146.8 13268.1 13637.1 12566.2 10785.1 11071.6 FALSE TRUE FALSE 12979.39832 11083.95668 10293.28609 12733.90266 11216.11481 12137.58324 12102.61762 12244.7748 10710.04561 11548.95086 1.123859516 0.959737107 0.891274559 1.102602549 0.971180408 1.050968472 1.047940871 1.06024997 0.927360913 1 13.49547418 -7.25137215 24.78854153 1.058489217 1.01214726 0 0.075636312 1253.099107 3085507.23 0.011976905 0.014574213 5.61E-08 7.25137215 -0.046341957 ATTPPNQGRPDSPVY(ph)ANLQELK ddPTM_HeLa_SAHA_4h_R1 1 ATTPPNQGRPDSPVYANLQELK 22 1 Q1RLN5;Q8IWW6-3;Q8IWW6-2;Q8IWW6-4;Q8IWW6 Q1RLN5 ARHGAP12 Rho GTPase-activating protein 12 1 0 ATTPPNQGRPDS(0.431)PVY(0.569)ANLQELK 97.621 0.00031183 9058700 485.12 555.73 508.05 377.44 460.63 711.02 660.9 726.96 589 568.03 TRUE FALSE FALSE 536.1471474 573.7360166 577.2844082 384.745897 425.3366289 650.4370959 586.5337926 708.3654158 584.901101 592.5205532 0.904858312 0.968297241 0.974285879 0.649337639 0.717842827 1.097746049 0.989896113 1.195511973 0.987140611 1 9.210721388 -5.133040139 19.28221702 0.918950093 1.084009924 0.354623967 0.123102037 3.31402105 490.9061653 0.018602437 0.047427651 7.36E-06 5.133040139 0.16505983 ATVPVAAATAAEGEGS(ph)PPAVAAVAGPPAAAEVGGGVGGSSR ddPTM_HeLa_SAHA_4h_R1 3 ATVPVAAATAAEGEGSPPAVAAVAGPPAAAEVGGGVGGSSR 41 0 O75179-4;O75179-6;O75179-2;O75179;H0YLQ3;A0A1W2PQ15;O75179-5;O75179-3 O75179-4 ANKRD17 Ankyrin repeat domain-containing protein 17 1 0 ATVPVAAATAAEGEGS(1)PPAVAAVAGPPAAAEVGGGVGGSSR;ATVPVAAAT(0.001)AAEGEGS(0.999)PPAVAAVAGPPAAAEVGGGVGGSSR;ATVPVAAAT(0.01)AAEGEGS(0.99)PPAVAAVAGPPAAAEVGGGVGGSSR ;; 144.49 9.30E-29 21425700 1912.48 2162.66 1531.66 1858.87 1843.01 2151.42 1905.9 2143.87 2025.64 1606.69 TRUE FALSE FALSE 2113.643421 2232.731603 1740.386648 1894.851117 1701.798972 1968.106912 1691.443116 2089.03291 2011.543406 1675.962269 1.261152151 1.332208752 1.038440233 1.130604878 1.015416041 1.174314571 1.00923699 1.246467745 1.200231917 1 10.71077395 ATVT(ph)PSPVK ddPTM_HeLa_SAHA_4h_R1 2 ATVTPSPVK 9 0 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 AT(0.002)VT(0.905)PS(0.092)PVK;ATVT(0.734)PS(0.266)PVK ; 152.04 0.00059954 673110000 9473.1 14289 10162.1 12181.7 13167 10766.1 12736.8 6382.4 8574.9 7963 TRUE FALSE FALSE 10469.52412 14751.97298 11546.93807 12417.49442 12158.1473 9848.767712 11303.62174 6219.14745 8515.226573 8306.3239 1.260428109 1.775992985 1.390138189 1.494944643 1.463721792 1.18569512 1.360845288 0.748724409 1.025149835 1 13.01999441 -8.414334199 1.140896575 1.042412925 1.350809639 0.205503411 0.248718709 0.481303646 1.276885456 0.075687139 0.049269703 3.85E-09 8.414334199 0.308396714 ATVTPS(ph)PVK ddPTM_HeLa_SAHA_4h_R1 4 ATVTPSPVK 9 0 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 ATVT(0.005)PS(0.995)PVK;ATVT(0.008)PS(0.992)PVK;AT(0.001)VT(0.379)PS(0.62)PVK;ATVT(0.008)PS(0.992)PVK ;;; 121.36 0.0034297 720078600 14202.9 20117.2 15252.6 15974.4 17894.2 14101.9 17640 9603.3 12263.3 11808.6 TRUE FALSE FALSE 15696.82619 20769.01048 17331.1449 16283.60761 16523.15026 12900.33878 15655.10077 9357.661491 12177.9587 12317.72654 1.274328192 1.68610745 1.407008416 1.321965345 1.341412331 1.047298684 1.270940764 0.759690635 0.988653114 1 13.58844838 -5.2306515 22.50638247 1.22350902 1.050472903 0.181235143 0.22630308 411.8917233 301095.4277 0.035472218 0.090414295 5.88E-06 5.2306515 -0.173036118 ATVTPS(ph)PVKGK ddPTM_HeLa_SAHA_4h_R1 2 ATVTPSPVKGK 11 1 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 AT(0.038)VT(0.038)PS(0.924)PVKGK;AT(0.002)VT(0.237)PS(0.762)PVKGK ; 115.92 0.012073 2432500000 8685 8330.9 8460 7641.5 8303.8 8196.3 8181.1 7738.9 10025.5 8071.1 TRUE FALSE FALSE 9598.528148 8600.826626 9612.884742 7789.412282 7667.564638 7497.929129 7260.541097 7540.950144 9955.731729 8419.08462 1.140091659 1.021586908 1.141796903 0.925208931 0.910736141 0.890587216 0.862390797 0.895697155 1.182519499 1 13.03944767 -6.120748369 5.137928265 1.068731289 0.891228488 0.7532511 0.05636903 0.098906596 3.775872748 0.008729348 0.014687319 7.57E-07 6.120748369 -0.177502801 FVTPVPGPQGK(ac)EGK ddPTM_HeLa_SAHA_4h_R1 1 FVTPVPGPQGKEGK 14 1 O15014;E7ERY8;O15014-2 O15014 ZNF609 Zinc finger protein 609 0 1 FVTPVPGPQGK(1)EGK 120.53 0.0015282 911860 304.72 250.54 416.26 659.08 562.49 752.35 767.05 586.8 334.29 193.88 FALSE TRUE FALSE 336.7718477 258.6576604 472.985745 671.8374464 519.3921377 688.2455474 680.7395152 571.7905057 331.9636487 202.2391156 1.665216181 1.278969499 2.338745121 3.321995571 2.568208114 3.403127754 3.366013113 2.827299278 1.641441358 1 7.65991825 -6.577452243 2.699732931 1.314933202 3.100811997 0.87127786 0.306571939 0.069380485 1.027559782 0.054383378 0.081289675 2.65E-07 6.577452243 1.785878795 up AVAEQIPLLVQGVR ddPTM_HeLa_SAHA_4h_R1 2 AVAEQIPLLVQGVR 14 0 Q9Y490 Q9Y490 TLN1 Talin-1 0 0 ; ; 130.1 0.0010956 713820 0 116.8 0 0 198.417 439.88 0 593.64 310.21 211.539 FALSE FALSE TRUE 0 120.5843966 0 0 183.2143323 402.3997493 0 578.4555484 308.0512234 220.6594815 0 0.546472763 0 0 0.830303466 1.823623198 0 2.621485124 1.396047979 1 7.78567793 -5.518025437 22.60058966 0.440323803 1.33243787 0.255166077 0.741475922 60.6486371 282421.748 0.097730627 0.200350932 3.03E-06 5.518025437 0.892114067 AVAGVMITAS(ph)HNR ddPTM_HeLa_SAHA_4h_R1 2 AVAGVMITASHNR 13 0 Q6PCE3 Q6PCE3 PGM2L1 "Glucose 1,6-bisphosphate synthase" 1 0 AVAGVMIT(0.048)AS(0.952)HNR;AVAGVMIT(0.022)AS(0.978)HNR ; 127.03 0.00067741 13460000 3685.7 3963.5 3538 4574.6 5042.4 4683 4162.3 4446.9 3322 4046.7 TRUE FALSE FALSE 4073.378837 4091.920001 4020.140215 4663.147998 4656.052401 4283.982054 3693.947049 4333.154737 3298.881932 4221.173041 0.964987409 0.969379829 0.952375128 1.104704297 1.103023344 1.014879516 0.87509965 1.026528573 0.781508339 1 12.04342826 AVAISLPK ddPTM_HeLa_SAHA_4h_R1 2 AVAISLPK 8 0 P50454;E9PPV6;E9PKH2 P50454 SERPINH1 Serpin H1 0 0 ; ; 129.4 0.0010874 2706100 5384.9 5345.5 7030.2 5528.7 6917.6 4386.1 7000.6 2929.9 1442.06 4345.6 FALSE FALSE TRUE 5951.308489 5518.697707 7988.239044 5635.715983 6387.574982 4012.379604 6212.874063 2854.9574 1432.024587 4532.960083 1.312896734 1.217460028 1.762256649 1.243275008 1.409139914 0.885156615 1.370599774 0.629821871 0.315913787 1 12.14623774 -5.250818537 24.74594815 1.225990919 1.002733467 0.050936039 0.38685578 1069.351628 2491519.653 0.038456598 0.096908238 5.61E-06 5.250818537 -0.223257452 AVALDSDNIS(ph)LK ddPTM_HeLa_SAHA_4h_R1 1 AVALDSDNISLK 12 0 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-6;Q8NEY1-5;H0Y6F6 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 AVALDSDNIS(1)LK 132.86 0.0009391 4550200 1705.9 1736.5 1792.1 1608.3 1552.9 1796.1 1983.8 1802.5 1666.2 2062.3 TRUE FALSE FALSE 1885.334389 1792.763739 2036.318055 1639.430972 1433.917137 1643.062175 1760.577603 1756.39466 1654.604779 2151.215846 0.876404101 0.83337232 0.946589371 0.762095061 0.666561257 0.763783039 0.818410485 0.816466029 0.769148657 1 11.07093657 -7.733560809 0.390854662 1.006272631 0.760791837 0 0.092210458 0.538378981 0.226419779 0.050290773 0.03743924 1.85E-08 7.733560809 -0.245480794 AVAQALEVIPR ddPTM_HeLa_SAHA_4h_R1 1 AVAQALEVIPR 11 0 B4DUR8;P49368-2;P49368 B4DUR8 CCT3 T-complex protein 1 subunit gamma 0 0 105.98 0.01406 965440 217.24 236.9 194.08 196.37 276.36 176.56 200.75 289.2 234.15 186.68 FALSE FALSE TRUE 240.0902999 244.5757154 220.5282117 200.1710253 255.1853565 161.5160947 178.1610817 281.8026828 232.5205311 194.7286884 1.232947759 1.255981938 1.132489586 1.027948306 1.31046616 0.829441702 0.914919538 1.44715545 1.194074345 1 7.605321634 -6.402348901 14.27041102 1.127623733 1.09023733 0.001877527 0.180783116 6.295890355 717.6159702 0.028588904 0.043670487 3.96E-07 6.402348901 -0.037386404 AVAS(ph)PEATVSQTDENK ddPTM_HeLa_SAHA_4h_R1 3 AVASPEATVSQTDENK 16 0 A0A0A0MR88;A0A096LPC5;Q9Y4E1-6;Q9Y4E1;J3KP36;Q9Y4E1-3;Q9Y4E1-2;Q9Y4E1-1;Q9Y4E1-5;E7ESD2;Q641Q2-2;Q641Q2;F8W7U3;A0A087WYF6 A0A0A0MR88;E7ESD2 FAM21C;FAM21A WASH complex subunit FAM21C;WASH complex subunit FAM21A 1 0 AVAS(0.999)PEAT(0.001)VSQTDENK;AVAS(0.997)PEAT(0.003)VSQTDENK;AVAS(1)PEATVSQTDENK ;; 264.92 2.24E-48 72611200 2524.45 3205.43 2291.64 2700.63 3310.06 3408.6 2975.68 2749.74 3113.44 2678.52 TRUE FALSE FALSE 2789.983234 3309.288035 2603.932765 2752.904599 3056.443918 3118.168104 2640.848655 2679.405632 3091.773318 2794.004106 0.998560893 1.184424901 0.931971703 0.985290105 1.093929644 1.116021303 0.945184243 0.958984143 1.106574365 1 11.44811843 AVAS(ph)PEATVSQTDENKAR ddPTM_HeLa_SAHA_4h_R1 2 AVASPEATVSQTDENKAR 18 1 A0A0A0MR88;A0A096LPC5;Q9Y4E1-6;Q9Y4E1;J3KP36;Q9Y4E1-3;Q9Y4E1-2;Q9Y4E1-1;Q9Y4E1-5;E7ESD2;Q641Q2-2;Q641Q2;F8W7U3;A0A087WYF6 A0A0A0MR88;E7ESD2 FAM21C;FAM21A WASH complex subunit FAM21C;WASH complex subunit FAM21A 1 0 AVAS(0.823)PEAT(0.177)VSQTDENKAR;AVAS(0.889)PEAT(0.11)VSQTDENKAR ; 83.359 0.0032752 10936700 1796.78 1042.36 1370.97 1292.35 1279.86 1293.51 1447.24 1407.6 785.13 1370.91 TRUE FALSE FALSE 1985.773564 1076.133148 1557.798652 1317.365303 1181.797403 1183.295671 1284.392746 1371.59563 779.6662164 1430.016639 1.388636684 0.752531907 1.089357011 0.921223758 0.826422134 0.827469862 0.898166295 0.959146623 0.545214786 1 10.48181622 -7.254218327 24.99677299 1.183522879 0.899445842 0 0.235667702 417.8814966 1446561.783 0.027160168 0.032907998 5.57E-08 7.254218327 -0.284077037 AVAVVVDPIQSVK ddPTM_HeLa_SAHA_4h_R1 1 AVAVVVDPIQSVK 13 0 O00487 O00487 PSMD14 26S proteasome non-ATPase regulatory subunit 14 0 0 177.44 7.85E-11 1254900 361.13 370.56 395.75 281.82 331.69 442.38 399.93 505.55 521.78 441.65 FALSE FALSE TRUE 399.1153103 382.5663871 449.680749 287.2750336 306.2759839 404.6867352 354.9288238 492.618763 518.1488905 460.6916929 0.866339282 0.830417377 0.976099105 0.623573288 0.664817683 0.87843289 0.770425925 1.069302465 1.124719413 1 8.847657774 -8.451913482 0.58746772 0.999054286 0.816048271 0.293632754 0.131838793 0.911312588 0.657223086 0.077858884 0.033214089 3.53E-09 8.451913482 -0.183006015 AVCSTY(ph)LQSR ddPTM_HeLa_SAHA_4h_R1 2 AVCSTYLQSR 10 0 Q5SQL3;J3KP92;Q86Z02;H7BXX9;Q9H2X6-2;Q86Z02-2;Q9H2X6-3;Q9H2X6 Q5SQL3 HIPK1;HIPK2 Homeodomain-interacting protein kinase 1;Homeodomain-interacting protein kinase 2 1 0 AVCST(0.189)Y(0.81)LQSR;AVCST(0.005)Y(0.995)LQSR ; 212.03 8.25E-15 48649000 912.17 1123.54 850.49 1275.17 1128.49 1428.37 1301.88 1214.73 1055.93 914.41 TRUE FALSE FALSE 1008.116226 1159.943433 966.390348 1299.852759 1042.02534 1306.66484 1155.389036 1183.658966 1048.581697 953.8346901 1.056908746 1.216084344 1.013163348 1.362765239 1.092459051 1.369907022 1.211309515 1.240947701 1.099332733 1 9.897595443 -6.865553815 0.598768136 1.008362655 1.264226196 0.376274988 0.100873774 0.396845995 0.301492256 0.023957251 0.038781331 1.36E-07 6.865553815 0.25586354 AVDDGVNTFK ddPTM_HeLa_SAHA_4h_R1 1 AVDDGVNTFK 10 0 P50990-2;P50990;P50990-3 P50990-2 CCT8 T-complex protein 1 subunit theta 0 0 148.32 0.004367 6549900 1884.6 1946.3 1882 2191.7 2658.4 2736.9 2348.7 2145 2948.1 2266.8 FALSE FALSE TRUE 2082.830875 2009.361397 2138.469159 2234.123523 2454.713966 2503.700723 2084.418095 2090.134006 2927.583932 2364.532841 0.880863585 0.849792129 0.904393934 0.944847745 1.038139087 1.058856396 0.881534846 0.883952199 1.238123608 1 11.20733946 -5.990248402 24.93447452 0.930807312 0.969426598 0 0.116934325 546.5747684 1397561.007 0.011522173 0.02086799 1.02E-06 5.990248402 0.038619286 AVDDGVNTFK(ac)VLTR ddPTM_HeLa_SAHA_4h_R1 2 AVDDGVNTFKVLTR 14 1 P50990-2;P50990;P50990-3 P50990-2 CCT8 T-complex protein 1 subunit theta 0 1 ; AVDDGVNTFK(1)VLTR;AVDDGVNTFK(1)VLTR 212.59 1.46E-32 4395100 572.76 433.86 508.25 541 527.04 518.98 718.95 574.14 491.46 602.46 FALSE TRUE FALSE 633.0055247 447.9173487 577.5116631 551.4718373 486.6583091 474.7599843 638.0518538 559.4543301 488.0398898 628.434999 1.00727287 0.712750482 0.918968014 0.877532025 0.774397209 0.755463946 1.015302863 0.890234203 0.776595655 1 9.29561972 -7.314471172 24.60959168 1.003434469 0.852908046 0 0.109325848 187.8630927 87178.08474 0.013830997 0.015816351 4.85E-08 7.314471172 -0.150526423 AVDIPHMDIEALKK ddPTM_HeLa_SAHA_4h_R1 2 AVDIPHMDIEALKK 14 1 P62906 P62906 RPL10A 60S ribosomal protein L10a 0 0 ; ; 56.122 0.018503 1887200 2522.6 2667 3165.2 3621.7 3411.7 2730.6 3665.5 3564.9 3129.8 3138 FALSE FALSE TRUE 2787.938642 2753.41255 3596.536972 3691.803241 3150.296283 2497.937518 3253.048293 3473.71502 3108.019467 3273.294537 0.851722511 0.8411747 1.098751405 1.127855498 0.962423713 0.763126413 0.99381472 1.061228979 0.949508036 1 11.67652771 -6.773642349 24.99919872 0.921363245 0.994037403 0.15155977 0.102937996 457.5510423 937344.6564 0.018865382 0.024895781 1.68E-07 6.773642349 0.072674158 AVDITT(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 AVDITTPK 8 0 O75475;O75475-3;O75475-2 O75475 PSIP1 PC4 and SFRS1-interacting protein 1 0 AVDIT(0.091)T(0.909)PK;AVDIT(0.095)T(0.905)PK;AVDIT(0.023)T(0.977)PK ;; 125.71 0.0046642 421042000 31658.7 27029.6 26114.8 30568.9 33741 34606 34433 34158 29811.6 27497.6 TRUE FALSE FALSE 34988.70732 27905.37677 29673.58894 31160.60526 31155.77187 31657.37411 30558.50822 33284.28782 29604.13865 28683.15611 1.219834637 0.97288376 1.034530121 1.086372962 1.086204452 1.103692146 1.065381651 1.160412323 1.032108829 1 14.80791616 -9.784026416 1.773568503 0.999794289 1.109861117 0.122142721 0.065559131 0.451287863 2.568548515 0.056483945 0.01190815 1.64E-10 9.784026416 0.110066828 AVDK(ac)LK(ac)EK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 AVDKLKEKK 9 3 Q14683;G8JLG1 Q14683 SMC1A Structural maintenance of chromosomes protein 1A;Structural maintenance of chromosomes protein 0 3 AVDK(1)LK(1)EK(1)K 70.977 0.0078721 0 0 0 0 0 0 648.34 126.09 332.92 152.61 183.83 FALSE TRUE FALSE 0 0 0 0 0 593.0977845 111.9020213 324.4043885 151.5479746 191.7558109 0 0 0 0 0 3.092984675 0.583565217 1.691757798 0.790317508 1 7.583126487 -5.30082645 24.99827242 0.365384558 1.668850747 0.519118766 0.667634915 361.2051481 229249.9308 0.099210943 0.221845399 5.00E-06 5.30082645 1.303466189 AVDS(ph)SSEEIEVEVPVVDRR ddPTM_HeLa_SAHA_4h_R1 2 AVDSSSEEIEVEVPVVDRR 19 1 D6RB01;Q9Y6X4 D6RB01 FAM169A Soluble lamin-associated protein of 75 kDa 1 0 AVDS(0.894)S(0.075)S(0.031)EEIEVEVPVVDRR;AVDS(0.933)S(0.066)SEEIEVEVPVVDRR ; 237.16 1.10E-33 14146100 1264.92 1172.91 1064.79 1401.94 1367.71 1373.32 1474.37 1355.71 1369.31 1451.25 TRUE FALSE FALSE 1397.970089 1210.913054 1209.894036 1429.076576 1262.916355 1256.30541 1308.470007 1321.032901 1359.78086 1513.82049 0.923471507 0.799905314 0.799232171 0.94401984 0.83425767 0.82989061 0.864349516 0.872648316 0.898244455 1 10.56397842 -7.808536089 1.323505142 0.97926757 0.851184552 0.35476859 0.049806581 0.180526853 0.660120322 0.010118995 0.009392592 1.55E-08 7.808536089 -0.128083018 AVEES(ph)SDEER ddPTM_HeLa_SAHA_4h_R1 1 AVEESSDEER 10 0 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 1 0 AVEES(0.583)S(0.417)DEER 112.13 0.0014147 0 763.24 896.83 637.53 927.65 1003.8 1407.3 1111.1 845.48 1970.8 1163.6 TRUE FALSE FALSE 843.5210851 925.8878804 724.4092683 945.6060072 926.8890609 1287.390123 986.0761037 823.8538458 1957.085042 1213.768491 0.694960441 0.762820824 0.596826556 0.779066201 0.763645677 1.060655416 0.812408718 0.678756989 1.612403895 1 10.24527756 -9.396689133 1.116082824 1.000292427 0.767870105 0.332770948 0.228168543 0.461616585 1.026390242 0.083284804 0.021140308 4.01E-10 9.396689133 -0.232422322 AVEES(ph)SDEERQR ddPTM_HeLa_SAHA_4h_R1 1 AVEESSDEERQR 12 1 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 1 0 AVEES(0.833)S(0.167)DEERQR 66.215 0.023338 3569200 385.91 495.18 333.97 348.91 311.91 364.14 381.91 516.09 346.23 439 TRUE FALSE FALSE 426.5017844 511.2241569 379.4816924 355.6636576 288.0115232 333.1132234 338.9364817 502.8891651 343.8205572 457.9274384 0.931374162 1.11638682 0.828693938 0.776681255 0.628945765 0.727436697 0.74015325 1.098185265 0.75081886 1 8.838975202 -6.578338858 8.833684101 0.977815781 0.780753726 0.200615765 0.142022882 0.235499575 34.77289186 0.018843712 0.026674675 2.64E-07 6.578338858 -0.197062055 AVEHINK(ac)TIAPALVSK ddPTM_HeLa_SAHA_4h_R1 1 AVEHINKTIAPALVSK 16 1 P06733;K7EM90;A0A2R8YEM5;A0A2R8Y879;K7ERS8;A0A2R8Y6I8 P06733 ENO1 Alpha-enolase;Enolase 0 1 AVEHINK(1)TIAPALVSK 130.29 9.36E-05 5033700 4436 4826.1 5095 5558.8 5388.5 4308 6117.5 5348.6 4156.2 4169.6 FALSE TRUE FALSE 4902.598833 4982.468807 5789.320066 5666.398612 4975.634294 3940.934164 5429.1428 5211.790557 4127.276666 4349.371862 1.127196981 1.145560546 1.331070382 1.302808496 1.143989167 0.906092716 1.248259053 1.198285804 0.94893626 1 12.08659135 -8.34147003 0.832793146 1.014879388 1.179317269 0.327253553 0.112740109 0.573904865 0.840346782 0.044519276 0.026057426 4.56E-09 8.34147003 0.164437881 AVELAANTK ddPTM_HeLa_SAHA_4h_R1 2 AVELAANTK 9 0 P29401;P29401-2;A0A0B4J1R6 P29401 TKT Transketolase 0 0 ; ; 190.62 4.88E-17 16200600 9279.2 8481.3 10788.5 10517.1 10564.3 7678.4 10824.2 6490.4 4313.2 7516.3 FALSE FALSE TRUE 10255.22883 8756.099685 12258.7006 10720.67368 9754.865616 7024.157123 9606.232528 6324.384966 4283.18409 7840.364477 1.308004094 1.11679753 1.563537082 1.367369299 1.244185222 0.895896759 1.225227801 0.806644255 0.546299104 1 12.93670501 -5.272908159 24.24695834 1.201297022 1.000853421 0.07695352 0.273456317 653.0976846 1380760.799 0.029254186 0.065995117 5.33E-06 5.272908159 -0.200443601 AVFPS(ph)IVGRPR ddPTM_HeLa_SAHA_4h_R1 4 AVFPSIVGRPR 11 1 P60709;A0A2R8Y793;P63267-2;Q6S8J3;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5;A5A3E0;P0CG38;F8WCH0;P63267;P68133;P68032;P62736;A6NL76;F8WB63;B8ZZJ2;C9JFL5;F6UVQ4;F6QUT6;P63261;I3L3I0;I3L1U9;I3L4N8;K7EM38;I3L3R2;J3KT65 P60709;P63267;P63261 ACTB;ACTG2;POTEE;POTEF;POTEI;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;POTE ankyrin domain family member E;POTE ankyrin domain family member F;POTE ankyrin domain family member I;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 AVFPS(1)IVGRPR;AVFPS(1)IVGRPR;AVFPS(1)IVGRPR;AVFPS(1)IVGRPR ;;; 117.27 0.0014392 28500400 6730.3 5950.7 5195.92 7042.64 8017.8 8125.9 7938.02 7999.83 7176.38 6417.09 TRUE FALSE FALSE 7438.223834 6143.506584 5903.992918 7178.960481 7403.477896 7433.527605 7044.813098 7795.205932 7126.438987 6693.762154 1.111217229 0.917795769 0.882014147 1.072485146 1.106026436 1.110515646 1.05244449 1.164547791 1.064638812 1 12.70860157 -6.006938641 24.79449524 1.027687718 1.102629693 0.32700165 0.069880136 425.2645657 1519648.284 0.012118912 0.021354258 9.84E-07 6.006938641 0.074941975 AVFPSIVGR ddPTM_HeLa_SAHA_4h_R1 2 AVFPSIVGR 9 0 P60709;A0A2R8Y793;P63267-2;Q6S8J3;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5;A5A3E0;P0CG38;F8WCH0;P63267;P68133;P68032;P62736;A6NL76;F8WB63;B8ZZJ2;C9JFL5;F6UVQ4;F6QUT6;P63261;I3L3I0;I3L1U9;I3L4N8;K7EM38;I3L3R2;J3KT65 P60709;P63267;P63261 ACTB;ACTG2;POTEE;POTEF;POTEI;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;POTE ankyrin domain family member E;POTE ankyrin domain family member F;POTE ankyrin domain family member I;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ; ; 153.04 0.0017895 48452400 3755.54 2446.54 2709.55 3362.13 3075.9 3959.09 3314.05 2839.6 3687.6 3258.81 FALSE FALSE TRUE 4150.564928 2525.809501 3078.793363 3427.208888 2840.225207 3621.753259 2941.144372 2766.967144 3661.937691 3399.313247 1.221001016 0.74303523 0.905710401 1.008206258 0.83552912 1.06543675 0.865217224 0.813978278 1.077258089 1 11.7310276 -7.268317751 24.99556439 1.104361589 0.899670751 0.471154079 0.100848704 390.8024439 1420148.931 0.019664646 0.022749185 5.39E-08 7.268317751 -0.204690838 AVFPSIVGRPR ddPTM_HeLa_SAHA_4h_R1 4 AVFPSIVGRPR 11 1 P60709;A0A2R8Y793;P63267-2;Q6S8J3;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5;A5A3E0;P0CG38;F8WCH0;P63267;P68133;P68032;P62736;A6NL76;F8WB63;B8ZZJ2;C9JFL5;F6UVQ4;F6QUT6;P63261;I3L3I0;I3L1U9;I3L4N8;K7EM38;I3L3R2;J3KT65 P60709;P63267;P63261 ACTB;ACTG2;POTEE;POTEF;POTEI;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;POTE ankyrin domain family member E;POTE ankyrin domain family member F;POTE ankyrin domain family member I;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;;; ;;; 211.78 4.72E-24 109696100 8588.7 8058.5 9310.8 8758 10487.1 7792.1 9727.4 5909.1 5064.52 8004 FALSE FALSE TRUE 9492.098872 8319.600687 10579.62734 8927.523754 9683.580664 7128.169243 8632.847351 5757.953778 5029.275593 8349.091611 1.136901991 0.996467769 1.267159091 1.069280848 1.159836437 0.853765844 1.033986421 0.689650329 0.602373986 1 13.02740352 -3.694802581 0.968687494 1.07803027 2.88E-11 0.16574943 0.181254998 2.964915761 0.991630975 0.015409452 4.352631804 0.000201928 3.694802581 -1.07803027 AVFVDLEPTVIDEIR ddPTM_HeLa_SAHA_4h_R1 2 AVFVDLEPTVIDEIR 15 0 P68366-2;P68366;C9JEV8;C9JQ00;C9JJQ8;C9JDL2 P68366-2 TUBA4A Tubulin alpha-4A chain 0 0 ; ; 260.57 1.79E-43 215104000 2891 3364.8 2922.39 3634.95 3495.9 3645 3702.5 3976.8 3836.6 3432 FALSE FALSE TRUE 3195.088644 3473.821728 3320.63809 3705.309713 3228.044897 3334.425494 3285.884956 3875.079214 3809.900788 3579.970316 0.892490262 0.970349311 0.92756023 1.035011295 0.901695995 0.931411492 0.91785257 1.082433337 1.064226921 1 11.80573191 AVFVDLEPTVIDEVR ddPTM_HeLa_SAHA_4h_R1 6 AVFVDLEPTVIDEVR 15 0 Q9BQE3;F5H5D3;A0A1W2PQM2;F8VQQ4;F8VVB9;F8VS66;F8VRZ4;F8VWV9;F8VX09;F8VRK0;P68363;P68363-2 Q9BQE3;P68363 TUBA1C;TUBA1A;TUBA1B Tubulin alpha-1C chain;Tubulin alpha-1B chain 0 0 ;;;;; ;;;;; 312.95 3.00E-98 586562860 11515.062 11393.77 10914.1 11414.26 11465.14 13587.9 13146.45 12710.67 13208.4 10507.9 FALSE FALSE TRUE 12726.26905 11762.93562 12401.41671 11635.19951 10586.68345 12430.13448 11667.17685 12385.54947 13116.48167 10960.94699 1.161055615 1.073167823 1.131418364 1.061514075 0.965854817 1.134038371 1.064431463 1.129970747 1.19665588 1 13.42008483 -9.624536477 1.457409296 1.000289304 1.097408409 0 0.080442314 0.421405658 1.615337746 0.039259005 0.009090213 2.37E-10 9.624536477 0.097119106 AVGDGIVLCK ddPTM_HeLa_SAHA_4h_R1 1 AVGDGIVLCK 10 0 P13797-3;P13797;A0A0A0MSQ0;P13797-2;U3KQI3 P13797-3 PLS3 Plastin-3 0 0 107.69 0.012349 975960 864.6 914.05 1013.4 684.53 915.81 1057.4 1103 686.85 711 955.31 FALSE FALSE TRUE 955.5425949 943.6658197 1151.500874 697.780068 845.6408357 967.3035712 978.8875371 669.2813715 706.0520931 996.4980893 0.958900579 0.946982066 1.155547499 0.700232219 0.848612601 0.970702886 0.98232756 0.671633372 0.708533314 1 9.960723229 -6.257492869 24.99449241 0.988972298 0.851231618 0.125523424 0.139894669 340.3399613 2155477.508 0.015776336 0.02554225 5.53E-07 6.257492869 -0.137740681 KSASDSGCDPASK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 KSASDSGCDPASKK 14 2 Q7LBC6;H0Y9V5 Q7LBC6 KDM3B Lysine-specific demethylase 3B 0 1 KSASDSGCDPASK(1)K 121.95 0.00058762 1400300 494.26 514.33 586.73 945.59 678.93 1012.4 973.96 952.06 436.32 365.23 FALSE TRUE FALSE 546.2485345 530.9946295 666.6865088 963.8932618 626.9105301 926.1378244 864.3674575 927.7076838 433.2836136 380.9768527 1.433810298 1.393771369 1.749939673 2.530057286 1.645534435 2.430955629 2.268818831 2.435076245 1.137296428 1 8.573559535 -6.576986296 0.40572555 1.027127235 2.52910138 0.783381679 0.253165841 0.389892948 0.139824349 0.104162666 0.230514861 2.65E-07 6.576986296 1.501974144 AVGK(ac)VIPELNGK ddPTM_HeLa_SAHA_4h_R1 2 AVGKVIPELNGK 12 1 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 1 ; AVGK(1)VIPELNGK;AVGK(1)VIPELNGK 186.74 2.03E-16 4817100 3986.2 3519.6 3248.5 3686 3774.8 3502.6 4542.6 3516.1 3411.7 3550.4 FALSE TRUE FALSE 4405.486805 3633.637349 3691.188663 3757.34786 3485.57564 3204.158775 4031.454693 3426.163253 3387.957702 3703.475119 1.189554854 0.981142638 0.996682452 1.014546538 0.941163509 0.865176266 1.088559951 0.925121175 0.914805039 1 11.85466393 -7.117194476 10.1940459 1.089492484 0.974207335 0 0.088958863 0.399160822 32.58517922 0.014346499 0.017577527 7.63E-08 7.117194476 -0.115285149 AVGMPS(ph)PVSPK ddPTM_HeLa_SAHA_4h_R1 2 AVGMPSPVSPK 11 0 Q9UHB7 Q9UHB7 AFF4 AF4/FMR2 family member 4 1 0 AVGMPS(0.975)PVS(0.025)PK;AVGMPS(0.998)PVS(0.002)PK ; 124.12 0.0018413 23219300 7323.7 6626.3 5946 8473.4 8175.4 8869.7 8218.3 8070.4 6417.8 6965.9 TRUE FALSE FALSE 8094.040368 6840.996468 6756.289915 8637.41491 7549.002618 8113.95166 7293.555255 7863.970854 6373.138007 7266.234039 1.113925085 0.941477584 0.929820025 1.18870585 1.038915424 1.116665334 1.003760024 1.082262257 0.877089559 1 12.82699212 -6.262586831 24.99978371 1.036500501 1.080570409 0.135928439 0.085896879 236.5209231 5153141.406 0.011797776 0.018639723 5.46E-07 6.262586831 0.044069908 AVGMPSPVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 AVGMPSPVSPK 11 0 Q9UHB7 Q9UHB7 AFF4 AF4/FMR2 family member 4 1 0 AVGMPS(0.015)PVS(0.985)PK;AVGMPS(0.024)PVS(0.976)PK ; 133.98 0.0011621 83917000 11104.1 9105.3 9356.2 11561.6 11162.8 11399.1 11075.1 10101.5 8685.2 9010.6 TRUE FALSE FALSE 12272.08019 9400.317694 10631.21421 11785.39149 10307.50868 10427.83255 9828.9006 9843.118257 8624.758986 9399.091063 1.305666697 1.000130505 1.131089606 1.253886297 1.096649517 1.109451167 1.045728841 1.047241504 0.917616281 1 13.19830553 -4.956672459 1.93232535 1.141207878 1.042690328 0 0.114689508 0.737850604 5.224406395 0.017849326 0.079234813 1.10E-05 4.956672459 -0.09851755 AVGPTAEADK(ac)SAAEK ddPTM_HeLa_SAHA_4h_R1 2 AVGPTAEADKSAAEK 15 1 D6REL4;E7EQZ7;Q13123 D6REL4 IK Protein Red 0 1 ; AVGPTAEADK(1)SAAEK;AVGPTAEADK(1)SAAEK 189.99 8.26E-17 3508400 864.49 1014.88 807.14 1111.79 1490.9 1498.22 1764.13 1659.14 1160.97 803.2 FALSE TRUE FALSE 955.4210246 1047.762778 917.1328358 1133.310303 1376.667564 1370.563227 1565.625449 1616.701601 1152.890715 837.8298828 1.14035205 1.250567447 1.09465281 1.352673528 1.643134952 1.635849061 1.868667473 1.92962991 1.376043919 1 9.710513531 -5.353536221 0.528596917 1.043618256 2.122626017 0.829206104 0.127525965 0.24523832 0.089438354 0.017239934 0.133751553 4.43E-06 5.353536221 1.079007761 AVGS(ph)PLCVPAR ddPTM_HeLa_SAHA_4h_R1 2 AVGSPLCVPAR 11 0 Q9NYZ3 Q9NYZ3 GTSE1 G2 and S phase-expressed protein 1 1 0 AVGS(1)PLCVPAR;AVGS(1)PLCVPAR ; 92.866 0.013131 57161000 2485.96 2380.07 2490.8 2551.66 2979.9 2385.41 3032.5 2385.62 2290.42 1918.55 TRUE FALSE FALSE 2747.444679 2457.18583 2830.233252 2601.051069 2751.580706 2182.159648 2691.275119 2324.599295 2274.480781 2001.26808 1.372851897 1.227814432 1.414219954 1.299701472 1.3749186 1.090388474 1.344784912 1.16156317 1.136519792 1 10.96669872 -9.375494907 1.03027698 0.995214275 1.293335679 0.386821434 0.104381895 0.308988009 0.571647341 0.068810988 0.016634507 4.21E-10 9.375494907 0.298121404 AVGT(ph)PGGGGGGAVPGISAMSR ddPTM_HeLa_SAHA_4h_R1 2 AVGTPGGGGGGAVPGISAMSR 21 0 P48634;P48634-2;P48634-3 P48634 PRRC2A Protein PRRC2A 1 0 AVGT(1)PGGGGGGAVPGISAMSR;AVGT(1)PGGGGGGAVPGISAMSR ; 114.55 3.67E-05 3985700 972.51 1062.71 1059.09 1001.06 1159.07 1181.13 1029.32 743.98 1054.15 968.45 TRUE FALSE FALSE 1074.803064 1097.142501 1203.41727 1020.436964 1070.262307 1080.491079 913.4982046 724.9500689 1046.814084 1010.204619 1.063945901 1.086059676 1.191260906 1.010128982 1.059451013 1.069576459 0.904270469 0.717626959 1.036239653 1 9.980431828 -4.427430125 2.353797803 1.049224383 0.692687248 0.810488619 0.05239273 0.146656454 1.222183213 0.00824285 0.091197073 3.74E-05 4.427430125 -0.356537135 AVIFCLSADKK ddPTM_HeLa_SAHA_4h_R1 2 AVIFCLSADKK 11 1 P60981;P60981-2;F6RFD5 P60981 DSTN Destrin 0 0 ; ; 106.4 0.0029945 7834200 3716.4 3163.1 4658 5276.4 6403.9 3535.5 6563.1 2731.6 2322.8 3089.9 FALSE FALSE TRUE 4107.308003 3265.586515 5292.767982 5378.532352 5913.234565 3234.25551 5824.602715 2661.729627 2306.635446 3223.120711 1.274326459 1.013175369 1.642125275 1.668734383 1.834630191 1.003454664 1.807131423 0.825823749 0.715652826 1 11.65424251 -7.707452296 0.727270049 1.055407283 1.455522979 0.242605087 0.350128905 0.684237742 0.793361994 0.098675135 0.086721367 1.96E-08 7.707452296 0.400115695 AVIVS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 AVIVSSPK 8 0 Q14966-3;Q14966;Q14966-5 Q14966-3 ZNF638 Zinc finger protein 638 1 0 AVIVS(0.5)S(0.5)PK 131.62 0.0017721 23215000 9011.3 5890 5331 6719.4 6129.7 6802.1 6849.5 6733.6 5757 6173.2 TRUE FALSE FALSE 9959.149879 6080.839865 6057.480917 6849.463703 5660.04371 6222.522812 6078.776233 6561.364262 5716.936568 6439.356863 1.546606298 0.944324099 0.940696571 1.063687547 0.878976555 0.966326754 0.944003627 1.018947141 0.887811732 1 12.65270089 -7.207553657 24.99797658 1.258119794 0.964022102 0.086334047 0.175641475 279.5843394 129701.2202 0.033697767 0.041271152 6.20E-08 7.207553657 -0.294097693 AVIVSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 AVIVSSPK 8 0 Q14966-3;Q14966;Q14966-5 Q14966-3 ZNF638 Zinc finger protein 638 1 0 AVIVS(0.243)S(0.757)PK;AVIVS(0.046)S(0.954)PK ; 120.99 0.0034294 174207000 29918 19215.2 17816.3 23551 19211.7 20281.1 22944 23090 19965.8 19119.7 TRUE FALSE FALSE 33064.91251 19837.78509 20244.21258 24006.86366 17739.7037 18553.03618 20362.28073 22499.39123 19826.85637 19944.04384 1.657884067 0.994672156 1.015050546 1.203710935 0.889473762 0.930254483 1.020970516 1.128125841 0.994124187 1 14.28367034 AVLFCLSEDKK ddPTM_HeLa_SAHA_4h_R1 3 AVLFCLSEDKK 11 1 P23528;G3V1A4;E9PP50;E9PK25;E9PQB7;E9PLJ3;E9PS23 P23528 CFL1 Cofilin-1 0 0 ;; ;; 211.27 3.15E-32 46848700 5117.94 5996.12 6861.67 7684.88 7974.45 7319.66 8033.7 5336.41 6930.8 7437.2 FALSE FALSE TRUE 5656.268411 6190.398222 7796.742654 7833.631965 7363.449364 6695.983789 7129.726932 5199.912359 6882.567998 7757.854089 0.729102191 0.797952391 1.005012799 1.009767891 0.94916059 0.863123193 0.919033389 0.670277154 0.8871742 1 12.92144193 -9.72017141 1.64165793 0.999769013 0.853418013 0.020263912 0.111503998 0.548588591 2.676622606 0.085110888 0.018752816 1.90E-10 9.72017141 -0.146351 AVLHVALR ddPTM_HeLa_SAHA_4h_R1 2 AVLHVALR 8 0 A0A2U3TZU2;P06744-2;P06744;K7EQ48;A0A0J9YXP8;A0A0J9YX90;A0A0J9YYH3;A0A2R8Y6C7;K7EP41;K7EPY4;K7ERC6;CON__Q3ZBD7;K7ELR7;A0A2R8YF08 A0A2U3TZU2 GPI Glucose-6-phosphate isomerase 0 0 ; ; 116.54 0.00099934 31727000 7226.1 6982.7 16660.2 12780.7 10416.2 3094.4 12294.2 1584.63 1317.45 3826.2 FALSE FALSE TRUE 7986.174353 7208.944062 18930.56529 13028.08893 9618.113006 2830.739711 10910.82426 1544.097459 1308.281758 3991.166207 2.000962611 1.80622497 4.74311625 3.264231118 2.409850281 0.709251273 2.733743396 0.386878767 0.327794356 1 11.96259464 -5.280020444 24.54853978 1.951945487 1.422336099 0.07279831 1.288043495 2117.124266 2797055.565 0.192180469 0.430486752 5.25E-06 5.280020444 -0.529609388 AVLIDK(ac)DQSPK ddPTM_HeLa_SAHA_4h_R1 1 AVLIDKDQSPK 11 1 B9A058;Q6NVY1 B9A058 HIBCH "3-hydroxyisobutyryl-CoA hydrolase, mitochondrial" 0 1 AVLIDK(1)DQSPK 162.38 1.88E-07 915650 650.9 758.28 558.03 290.55 562.48 689.93 776.47 616.67 559.95 514.19 FALSE TRUE FALSE 719.3646484 782.8487695 634.0754223 296.1740154 519.3829039 631.1440826 689.099552 600.8964743 556.0532624 536.3592473 1.341199303 1.459560497 1.18218419 0.552193361 0.968348931 1.176718936 1.28477239 1.120324628 1.036717956 1 9.067055815 -6.478260009 24.9993937 1.194334025 1.023564688 0.148396283 0.219274009 844.1368806 472960.6878 0.03822453 0.058386944 3.32E-07 6.478260009 -0.170769337 AVLSAEQLRDEEVHAGLGELLR ddPTM_HeLa_SAHA_4h_R1 1 AVLSAEQLRDEEVHAGLGELLR 22 1 P50454;E9PPV6;E9PR70;E9PJH8;E9PIG2;E9PRS3;E9PNX1;E9PK86;E9PMI5;E9PQ34 P50454 SERPINH1 Serpin H1 0 0 51.524 0.016133 2961200 344.02 427.87 427.25 406.3 630.07 660.52 521.78 424.44 643.42 516.53 FALSE FALSE TRUE 380.205602 441.7332687 485.473405 414.164524 581.7941727 604.23998 463.0679412 413.5834394 638.9423878 538.8001361 0.705652387 0.819846246 0.901026879 0.768679323 1.07979589 1.121454765 0.859442881 0.767600844 1.185861593 1 9.073606405 -5.772805209 24.99703646 0.851901538 0.961841504 0 0.159003981 374.3627833 823342.1765 0.02185504 0.039869219 1.69E-06 5.772805209 0.109939967 AVLSDS(ph)PQLSEGK ddPTM_HeLa_SAHA_4h_R1 4 AVLSDSPQLSEGK 13 0 Q5VY60;Q7Z4H7-3;Q7Z4H7;Q5SYF9;Q7Z4H7-2 Q5VY60 HAUS6 HAUS augmin-like complex subunit 6 1 0 AVLS(0.008)DS(0.693)PQLS(0.299)EGK;AVLS(0.011)DS(0.986)PQLS(0.003)EGK;AVLS(0.072)DS(0.838)PQLS(0.09)EGK;AVLS(0.001)DS(0.876)PQLS(0.123)EGK ;;; 203.11 6.29E-11 87742600 11744.7 11851.8 9712.8 11756.8 13156.4 13916.5 12365.4 12804.7 11873.5 11483.6 TRUE FALSE FALSE 12980.06143 12235.8061 11036.4098 11984.36986 12148.35947 12730.73591 10974.01265 12477.17431 11790.87135 11978.7142 1.083593883 1.021462395 0.921335097 1.000472143 1.014162228 1.062779836 0.916126094 1.041612156 0.984318613 1 13.54818544 -6.992047614 24.99628643 1.040161906 0.991908353 0.044305601 0.05040152 258.2676806 811794.8803 0.008194477 0.010759744 1.02E-07 6.992047614 -0.048253552 AVLVDLEPGTMDSVR ddPTM_HeLa_SAHA_4h_R1 7 AVLVDLEPGTMDSVR 15 0 P68371;Q3ZCM7;M0QY85;M0QZL7;M0R278;M0R0X0;M0QY37;M0QX14;A0A075B724;P04350 P68371;P04350 TUBB4B;TUBB8;TUBB4A Tubulin beta-4B chain;Tubulin beta-8 chain;Tubulin beta-4A chain 0 0 ;;;;;; ;;;;;; 265 5.09E-45 72246100 6640.08 6487.12 7000.56 7222.36 6411.94 7350.83 6975.63 7194.03 7352.01 6441.87 FALSE FALSE TRUE 7338.51408 6697.306944 7954.559859 7362.159222 5920.658542 6724.497929 6190.713754 7010.017129 7300.846764 6719.610541 1.092104079 0.99668082 1.183782871 1.095622905 0.881101443 1.000727332 0.921290559 1.043217771 1.086498499 1 12.7141619 -5.777377215 24.98461132 1.055554102 0.961502064 0.400410855 0.065720039 220.099276 345033.6872 0.010058415 0.018275086 1.67E-06 5.777377215 -0.094052039 AVNPTPSS(ph)WSLDSGK ddPTM_HeLa_SAHA_4h_R1 1 AVNPTPSSWSLDSGK 15 0 C9J637;A0A590UJ51;H0Y599;Q8N1I0;Q8N1I0-3;Q8N1I0-4 C9J637 DOCK4 Dedicator of cytokinesis protein 4 1 0 AVNPT(0.017)PS(0.042)S(0.846)WS(0.095)LDSGK 122.08 0.00071007 2392600 1135.6 1292.1 1250.9 1255.3 1387.6 1947.5 1336.9 1446.2 1256.6 1401.9 TRUE FALSE FALSE 1255.047618 1333.964888 1421.366138 1279.598147 1281.282388 1781.562044 1186.468493 1409.208298 1247.855218 1462.34277 0.858244486 0.912210814 0.971978777 0.875032977 0.876184718 1.218293057 0.811347735 0.963664831 0.853326077 1 10.5140658 AVNPTPSSWS(ph)LDSGK ddPTM_HeLa_SAHA_4h_R1 1 AVNPTPSSWSLDSGK 15 0 C9J637;A0A590UJ51;H0Y599;Q8N1I0;Q8N1I0-3;Q8N1I0-4 C9J637 DOCK4 Dedicator of cytokinesis protein 4 1 0 AVNPT(0.072)PS(0.042)S(0.127)WS(0.725)LDS(0.034)GK 121.03 0.00076577 3033100 2164.9 2132.4 1690.2 1575.8 2009.6 2106.9 2583.9 2053.1 1687.7 2228.1 TRUE FALSE FALSE 2392.614115 2201.491159 1920.531654 1606.301888 1855.624882 1927.380267 2293.152772 2000.584675 1675.955158 2324.164295 1.029451369 0.947218389 0.826332139 0.691130954 0.79840521 0.829278838 0.986656914 0.860775927 0.721100123 1 11.18249634 -6.917218633 3.397570798 1.013302072 0.831137383 0 0.114816953 0.130487058 3.024015457 0.012244592 0.016274866 1.21E-07 6.917218633 -0.182164689 AVNTQALS(ph)GAGILR ddPTM_HeLa_SAHA_4h_R1 2 AVNTQALSGAGILR 14 0 O60749;O60749-2 O60749 SNX2 Sorting nexin-2 1 0 AVNTQALS(1)GAGILR;AVNT(0.002)QALS(0.998)GAGILR ; 128.74 0.00054727 13655400 1314.91 1585.21 1174.21 1605.09 1768.02 1758.01 1597.89 1803.31 1751.79 1462.14 TRUE FALSE FALSE 1453.218267 1636.571844 1334.225224 1636.158838 1632.55469 1608.217658 1418.091212 1757.183941 1739.599151 1525.180011 0.95281754 1.073035204 0.874798525 1.072764412 1.070401315 1.054444489 0.929786125 1.152115769 1.14058612 1 10.57476381 AVPIAVADEGES(ph)ESEDDDLKPR ddPTM_HeLa_SAHA_4h_R1 4 AVPIAVADEGESESEDDDLKPR 22 1 Q9Y2K6 Q9Y2K6 USP20 Ubiquitin carboxyl-terminal hydrolase 20 1 0 AVPIAVADEGES(1)ESEDDDLKPR;AVPIAVADEGES(0.999)ES(0.001)EDDDLKPR;AVPIAVADEGES(0.996)ES(0.004)EDDDLKPR;AVPIAVADEGES(0.977)ES(0.023)EDDDLKPR ;;; 161.53 1.05E-07 50553000 6031.1 5717.97 6655.5 6589.3 8130.8 7990.7 8218.2 8534.8 6879.3 7098.3 TRUE FALSE FALSE 6665.47877 5903.23598 7562.47688 6716.84543 7507.819861 7309.847406 7293.466507 8316.492174 6831.426391 7404.342451 0.900212114 0.797266742 1.021356985 0.907149483 1.013975233 0.987237888 0.985025552 1.123191185 0.922624316 1 12.85415591 -1.00000008 0.715078865 0.943986687 25.09044572 0.441673444 0.062599963 238.4337651 1.112795118 0.011001665 9239.831083 0.099999982 1.00000008 24.14645903 AVPMAPAPAS(ph)PGSSNDSSAR ddPTM_HeLa_SAHA_4h_R1 11 AVPMAPAPASPGSSNDSSAR 20 0 Q66K74-2;Q66K74 Q66K74-2 MAP1S Microtubule-associated protein 1S;MAP1S heavy chain;MAP1S light chain 1 0 AVPMAPAPAS(0.966)PGS(0.029)S(0.004)NDSSAR;AVPMAPAPAS(0.973)PGS(0.018)S(0.008)NDSSAR;AVPMAPAPAS(0.956)PGS(0.034)S(0.01)NDSSAR;AVPMAPAPAS(0.476)PGS(0.476)S(0.048)NDS(0.001)SAR;AVPMAPAPAS(0.984)PGS(0.007)S(0.002)NDS(0.004)S(0.001)AR;AVPMAPAPAS(0.997)PGS(0.002)SNDSSAR;AVPMAPAPAS(0.99)PGS(0.001)SNDS(0.004)S(0.004)AR;AVPMAPAPAS(0.622)PGS(0.187)S(0.187)NDS(0.002)S(0.002)AR;AVPMAPAPAS(0.999)PGS(0.001)SNDSSAR;AVPMAPAPAS(0.996)PGS(0.004)SNDSSAR;AVPMAPAPAS(0.993)PGS(0.006)S(0.002)NDSSAR ;;;;;;;;;; 248.46 5.26E-42 219881200 10551.87 9830.76 9454.11 9958.06 11801.25 12218.95 11644.4 10939.65 11096.46 9486.2 TRUE FALSE FALSE 11661.7641 10149.28307 10742.46688 10150.81265 10897.04077 11177.82672 10334.14147 10659.82959 11019.23883 9895.196506 1.178527793 1.025677769 1.085624411 1.025832346 1.101245515 1.1296215 1.044359398 1.077273158 1.113594745 1 13.27251264 AVPPGNDPVS(ph)PAMVR ddPTM_HeLa_SAHA_4h_R1 2 AVPPGNDPVSPAMVR 15 0 A0A0A0MR08;E7ESU0;O94966-2;O94966-4;O94966-3;O94966;O94966-7;O94966-6;O94966-5;H0YB23 A0A0A0MR08 USP19 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 19 1 0 AVPPGNDPVS(1)PAMVR;AVPPGNDPVS(1)PAMVR ; 110.22 0.0021106 22481000 1669.86 1780.11 2004.51 1483.38 1810.75 2059.5 1956.44 1684.71 1845.3 2005 TRUE FALSE FALSE 1845.503536 1837.786732 2277.674184 1512.092965 1672.010726 1884.019014 1736.296222 1641.617558 1832.458407 2091.445362 0.882405809 0.87871611 1.089043121 0.722989466 0.799452262 0.900821531 0.830189616 0.784920126 0.876168434 1 11.03028459 -6.247257429 24.93176764 0.946938603 0.813643473 0.466278275 0.073453927 574.7098731 1010335.543 0.01140376 0.0188516 5.66E-07 6.247257429 -0.133295129 AVPPVS(ph)PELR ddPTM_HeLa_SAHA_4h_R1 6 AVPPVSPELR 10 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 AVPPVS(1)PELR;AVPPVS(1)PELR;AVPPVS(1)PELR;AVPPVS(1)PELR;AVPPVS(1)PELR;AVPPVS(1)PELR ;;;;; 152.67 0.00050241 317992500 19392.7 21481.7 18010.4 21514.3 20816 23734 22848.1 22143.2 22666.1 20424.7 TRUE FALSE FALSE 21432.51316 22177.72117 20464.76352 21930.74039 19221.08258 21711.72968 20277.17166 21576.80901 22508.36476 21305.30877 1.005970549 1.040948123 0.960547614 1.02935567 0.902173387 1.019076039 0.951742679 1.012743314 1.056467428 1 14.37892534 AVPS(ph)PPPPPIVK ddPTM_HeLa_SAHA_4h_R1 1 AVPSPPPPPIVK 12 0 A0A286YF23;A0A0J9YY01;A0A2R8YFM0;Q96JP2 A0A286YF23 MYO15B Unconventional myosin-XVB 1 0 AVPS(1)PPPPPIVK 91.858 0.011357 6468900 2722.4 2491.2 2065.3 2187 2762.5 2871 2869.2 2506.9 1823.2 2437.5 TRUE FALSE FALSE 3008.754523 2571.916515 2346.748328 2229.332547 2550.837847 2626.374648 2546.350065 2442.777128 1810.512203 2542.592554 1.1833412 1.011533095 0.922974593 0.876795043 1.003242868 1.032951443 1.001477827 0.960742658 0.712073273 1 11.31208458 -7.010253739 23.85406907 1.087149339 0.968480328 0 0.132106232 239.6216608 557452.388 0.013118385 0.016659506 9.77E-08 7.010253739 -0.118669011 AVPVES(ph)PVQKV ddPTM_HeLa_SAHA_4h_R1 1 AVPVESPVQKV 11 1 Q8TB61-5;Q8TB61-4;Q8TB61-3;Q8TB61-2;Q8TB61 Q8TB61-5 SLC35B2 Adenosine 3-phospho 5-phosphosulfate transporter 1 1 0 AVPVES(1)PVQKV 103.21 0.015531 15834000 2991.8 2745 2650.4 3176.9 3357.4 3100.7 3275.5 3156.5 3144.8 2789.6 TRUE FALSE FALSE 3306.491251 2833.939801 3011.582709 3238.393493 3100.156737 2836.502916 2906.932119 3075.761301 3122.915081 2909.873308 1.13630076 0.973904875 1.034953206 1.11289845 1.065392342 0.974785709 0.998989238 1.057008665 1.073213419 1 11.50674063 -5.285146425 23.8298601 1.060319558 1.009134004 0.155376954 0.049044645 665.0012891 668445.434 0.008764609 0.019612375 5.19E-06 5.285146425 -0.051185554 AVQQHQHGYDS(ph)DEEVDSELGTWEHQLR ddPTM_HeLa_SAHA_4h_R1 4 AVQQHQHGYDSDEEVDSELGTWEHQLR 27 0 Q8IWZ8 Q8IWZ8 SUGP1 SURP and G-patch domain-containing protein 1 1 0 AVQQHQHGY(0.001)DS(0.999)DEEVDSELGTWEHQLR;AVQQHQHGYDS(1)DEEVDSELGTWEHQLR;AVQQHQHGY(0.037)DS(0.963)DEEVDSELGTWEHQLR;AVQQHQHGY(0.309)DS(0.517)DEEVDS(0.173)ELGT(0.001)WEHQLR ;;; 179.17 2.21E-14 47647100 2044.18 2519.12 2385.25 2598.87 2816.47 2497.21 2987.47 2379.22 3032.38 2613.91 TRUE FALSE FALSE 2259.196231 2600.741141 2710.299448 2649.174887 2600.672677 2284.433659 2651.312013 2318.362997 3011.277421 2726.608452 0.828573765 0.953837409 0.994018575 0.971600776 0.953812299 0.837829743 0.972384579 0.850273531 1.104404051 1 11.41289183 -4.236305372 22.49755809 0.927931276 0.850273159 0.037901274 0.079948954 3705.685028 3316769.082 0.010057812 0.75055428 5.80E-05 4.236305372 -0.077658117 AVS(ph)LDSPVSVGSSPPVK ddPTM_HeLa_SAHA_4h_R1 1 AVSLDSPVSVGSSPPVK 17 0 Q9Y6Q9-2;Q9Y6Q9-3;Q9Y6Q9-5;Q9Y6Q9 Q9Y6Q9-2 NCOA3 Nuclear receptor coactivator 3 1 0 AVS(0.996)LDS(0.004)PVSVGSSPPVK 313.92 1.85E-102 18694000 2497.6 3172 2446.6 1571.2 2605.3 3350.2 3451.2 1657.1 1649.1 2493.3 TRUE FALSE FALSE 2760.309027 3274.774881 2780.009907 1601.612848 2405.682477 3064.744112 3062.861893 1614.713781 1637.623779 2600.798365 1.061331422 1.259142164 1.068906357 0.615815847 0.924978464 1.178385896 1.177662188 0.620853121 0.629661953 1 11.34473884 AVS(ph)PAPQSSSR ddPTM_HeLa_SAHA_4h_R1 4 AVSPAPQSSSR 11 0 A0A075B784;Q9P275 A0A075B784 USP36 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 36 1 0 AVS(0.999)PAPQSS(0.001)SR;AVS(1)PAPQSSSR;AVS(1)PAPQSSSR;AVS(0.997)PAPQSS(0.002)SR ;;; 153.49 7.36E-11 0 6550.5 6917.3 5181.6 7163.2 6972.4 7732.4 7254.8 6620.1 6317.3 6577.7 TRUE FALSE FALSE 7239.511645 7141.425059 5887.721463 7301.854094 6438.176218 7073.556019 6438.47081 6450.767428 6273.337395 6861.296837 1.055122933 1.0408273 0.858106216 1.064209036 0.938332267 1.030935723 0.938375203 0.940167374 0.914307826 1 12.74426557 AVS(ph)PAVPFSR ddPTM_HeLa_SAHA_4h_R1 3 AVSPAVPFSR 10 0 I3L2J0 I3L2J0 CIC 1 0 AVS(1)PAVPFSR;AVS(1)PAVPFSR;AVS(0.994)PAVPFS(0.006)R ;; 121.29 0.0028845 94481000 7355 7193.4 6827.5 6785.9 7863.7 8503.5 7678.3 7324.6 6744.2 7548.8 TRUE FALSE FALSE 8128.632646 7426.47088 7757.916144 6917.250907 7261.185005 7778.953961 6814.317476 7137.247338 6697.266563 7874.265711 1.032303575 0.943131862 0.985224074 0.878462978 0.922141222 0.987895792 0.865390847 0.906401638 0.850525853 1 12.94292968 -6.800078441 1.465029994 1.014737754 0.915730538 0 0.063828857 0.198292 0.858654557 0.006555132 0.009489265 1.58E-07 6.800078441 -0.099007216 AVS(ph)PLDPSKEVSGK ddPTM_HeLa_SAHA_4h_R1 2 AVSPLDPSKEVSGK 14 1 Q14865-2;Q14865 Q14865-2 ARID5B AT-rich interactive domain-containing protein 5B 1 0 AVS(0.982)PLDPS(0.018)KEVSGK;AVS(0.986)PLDPS(0.014)KEVSGK ; 72.489 0.015503 21014200 16480.4 12950.7 15703.3 14934.3 16311.2 17738.6 19018 17562.1 12675.6 14631.6 TRUE FALSE FALSE 18213.88409 13370.31118 17843.26394 15223.37497 15061.43938 16227.17149 16878.04459 17112.88691 12587.38947 15262.43988 1.193379579 0.876027115 1.169096428 0.997440454 0.986830382 1.063209527 1.105854943 1.121241888 0.824729831 1 13.89769799 AVS(ph)PPHLDGPPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 AVSPPHLDGPPSPR 14 0 P29590;P29590-4;P29590-5;P29590-9;P29590-3;P29590-8;H3BVD2;H3BRN3;P29590-11;H3BT57;P29590-12;P29590-13;H3BUJ5;P29590-2 P29590;P29590-11;P29590-2 PML Protein PML 2 0 AVS(1)PPHLDGPPS(1)PR;AVS(1)PPHLDGPPS(1)PR ; 151.73 0.00071309 33097700 4575.8 5101 4781.6 5139.4 6254.6 6715.9 5453.8 6164.4 6278.9 5882.6 TRUE FALSE FALSE 5057.103639 5266.275747 5433.211546 5238.880519 5775.373899 6143.667537 4840.12407 6006.723574 6235.204624 6136.227675 0.824138853 0.858226915 0.88543187 0.853762409 0.941192897 1.001212449 0.788778436 0.97889516 1.016129934 1 12.5831363 -9.532044721 1.311745947 0.999568431 0.882766009 0.335916815 0.064004733 0.421570899 1.306610201 0.043253408 0.010493352 2.94E-10 9.532044721 -0.116802421 AVSEGCAS(ph)EDEVEGEA ddPTM_HeLa_SAHA_4h_R1 4 AVSEGCASEDEVEGEA 16 0 Q9BYX2-6;Q9BYX2-5;Q9BYX2-4;Q9BYX2-2;Q9BYX2 Q9BYX2-6 TBC1D2 TBC1 domain family member 2A 1 0 AVSEGCAS(1)EDEVEGEA;AVSEGCAS(1)EDEVEGEA;AVSEGCAS(1)EDEVEGEA;AVSEGCAS(1)EDEVEGEA ;;; 164.64 2.55E-06 34554500 6238.8 6529.5 5678.09 6427 7034.8 7380.9 6812.3 6958.6 7616.7 5975.7 TRUE FALSE FALSE 6895.025609 6741.060084 6451.870535 6551.403879 6495.795144 6752.005796 6045.762075 6780.609088 7563.694765 6233.341671 1.106152361 1.081452043 1.03505806 1.051025954 1.042104779 1.083208037 0.969907057 1.087796794 1.213425344 1 12.60579008 AVSILPLLGHGVPR ddPTM_HeLa_SAHA_4h_R1 1 AVSILPLLGHGVPR 14 0 Q9Y2W2 Q9Y2W2 WBP11 WW domain-binding protein 11 0 0 115.92 0.0007326 379420 315.09 198.89 283.21 265.77 228.67 287.28 437.73 200.98 243.22 312.97 FALSE FALSE TRUE 348.2326119 205.3341665 321.8043839 270.9143627 211.149354 262.8021278 388.4754684 195.8392226 241.5274122 326.4636683 1.06668106 0.628964833 0.985728015 0.829845367 0.646777496 0.804996553 1.18995008 0.599880604 0.739829377 1 8.350778635 -7.299716592 24.99164759 1.031488297 0.827527876 0.007045037 0.191861002 540.4487676 352864.1049 0.02701955 0.03089837 5.02E-08 7.299716592 -0.203960422 AVSLDS(ph)PVSVGSSPPVK ddPTM_HeLa_SAHA_4h_R1 2 AVSLDSPVSVGSSPPVK 17 0 Q9Y6Q9-2;Q9Y6Q9-3;Q9Y6Q9-5;Q9Y6Q9 Q9Y6Q9-2 NCOA3 Nuclear receptor coactivator 3 1 0 AVS(0.357)LDS(0.625)PVS(0.018)VGSSPPVK;AVS(0.367)LDS(0.633)PVSVGSSPPVK ; 233.84 4.21E-28 33330000 6022.5 7503.3 6457.8 4509.4 6745.7 8426.8 7268.5 5280.2 4993.7 6954.5 TRUE FALSE FALSE 6655.974182 7746.411843 7337.835353 4596.685958 6228.845923 7708.789232 6450.62925 5145.14013 4958.948435 7254.342529 0.91751584 1.067831001 1.011509358 0.633646115 0.858636864 1.062644781 0.889209356 0.709249682 0.683583442 1 12.82462915 AVSLDSPVSVGS(ph)SPPVK ddPTM_HeLa_SAHA_4h_R1 1 AVSLDSPVSVGSSPPVK 17 0 Q9Y6Q9-2;Q9Y6Q9-3;Q9Y6Q9-5;Q9Y6Q9 Q9Y6Q9-2 NCOA3 Nuclear receptor coactivator 3 1 0 AVSLDS(0.012)PVS(0.009)VGS(0.894)S(0.086)PPVK 192.54 3.87E-12 18993000 890.32 936.55 827.86 1172.1 911.47 826.84 947.82 977.55 1020.8 953.07 TRUE FALSE FALSE 983.9679425 966.8948345 940.6764495 1194.78769 841.6333655 756.3885803 841.1687991 952.5456865 1013.69617 994.1615119 0.989746566 0.972573191 0.946200832 1.201804411 0.84657609 0.760830681 0.846108795 0.958139774 1.01964938 1 9.957336441 -5.606279053 25 1.002887156 0.845668174 0.507722499 0.080006205 15.90412936 4765.57555 0.010871347 0.021742695 2.48E-06 5.606279053 -0.157218983 AVSPPHLDGPPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 AVSPPHLDGPPSPR 14 0 P29590;P29590-4;P29590-5;P29590-9;P29590-3;P29590-8;H3BVD2;H3BRN3;P29590-11;H3BT57;P29590-12;P29590-13;H3BUJ5;P29590-2 P29590;P29590-11;P29590-2 PML Protein PML 1 0 AVSPPHLDGPPS(1)PR;AVSPPHLDGPPS(1)PR;AVSPPHLDGPPS(1)PR;AVSPPHLDGPPS(1)PR ;;; 186.29 2.24E-08 73308000 5669.06 7207.58 5822.08 6740.02 8095.5 8308.92 6798.43 6837.66 6950.48 6100.42 TRUE FALSE FALSE 6265.357741 7441.110321 6615.482742 6870.482833 7475.224539 7600.953271 6033.452764 6662.762558 6902.111044 6363.438961 0.984586759 1.16935361 1.039608109 1.079680795 1.174714582 1.194472567 0.948143418 1.047038024 1.084651096 1 12.63559093 -7.292090908 24.2907 0.992721514 1.092140498 0.116422778 0.075833165 436.5307277 345940.4548 0.01210298 0.013841337 5.10E-08 7.292090908 0.099418984 AVSTVVVTT(ph)APSPK ddPTM_HeLa_SAHA_4h_R1 1 AVSTVVVTTAPSPK 14 0 Q6P4R8-3;Q6P4R8;Q6P4R8-2 Q6P4R8-3 NFRKB Nuclear factor related to kappa-B-binding protein 1 0 AVSTVVVT(0.01)T(0.946)APS(0.045)PK 224.16 3.11E-18 19453000 3670.8 4082.6 3727.2 3939.3 3993 4309 3848.3 4265.4 4422.4 3920.7 TRUE FALSE FALSE 4056.911586 4214.878919 4235.123406 4015.550848 3687.057203 3941.848958 3415.279156 4156.297244 4391.624158 4089.740564 0.991972846 1.030598116 1.035548182 0.981859554 0.901538165 0.963838389 0.835084549 1.016274059 1.073814852 1 11.99779361 -5.901240107 5.313243338 1.002185401 0.925343837 0.411719997 0.050664799 0.148004617 6.591170591 0.006010965 0.01104635 1.26E-06 5.901240107 -0.076841565 AVSTVVVTTAPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 AVSTVVVTTAPSPK 14 0 Q6P4R8-3;Q6P4R8;Q6P4R8-2 Q6P4R8-3 NFRKB Nuclear factor related to kappa-B-binding protein 1 0 AVSTVVVT(0.003)T(0.164)APS(0.833)PK 192.32 1.07E-08 20386000 3478.6 3986.1 3862.2 4251.9 4474.9 4133.2 4096.6 4313 4258.1 4182.3 TRUE FALSE FALSE 3844.495108 4115.252255 4388.520503 4334.201673 4132.034129 3781.028107 3635.639786 4202.679705 4228.467535 4362.619421 0.8812355 0.943298477 1.005937048 0.993486081 0.947145219 0.866687589 0.833361665 0.963338605 0.969249693 1 12.09097891 -5.274605299 19.61281351 0.951433911 0.882352547 0.33377309 0.046509869 48.07082048 71611.45414 0.008175369 0.018469235 5.31E-06 5.274605299 -0.069081363 AVSY(ph)T(ph)MVYS(ph)AVK ddPTM_HeLa_SAHA_4h_R1 1 AVSYTMVYSAVK 12 0 C9JS30;Q6ZVC0;Q6ZVC0-2 C9JS30 NYAP1 Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter 1 3 0 AVS(0.507)Y(0.913)T(0.562)MVY(0.035)S(0.982)AVK 63.662 0.0078222 0 450.81 581.49 410.51 370.4 559.28 767.23 620.31 694.31 889.37 760.12 TRUE FALSE FALSE 498.2282642 600.3306575 466.452165 377.5696276 516.4280872 701.8576877 550.5110862 676.5505555 883.1808018 792.8924931 0.628367993 0.757140044 0.588291816 0.476192713 0.651321701 0.885186446 0.694307351 0.853268963 1.113872069 1 9.630981457 -9.299318502 0.918570551 1.008844983 0.685001892 0.576847604 0.121777351 0.418274007 0.604913506 0.093759798 0.022549022 5.02E-10 9.299318502 -0.323843091 AVT(ph)PSSEAK ddPTM_HeLa_SAHA_4h_R1 3 AVTPSSEAK 9 0 Q99700;H0YH87;A0A5F9ZHW5;A0A5F9ZHX3;A0A2R8Y5A6;A0A2R8Y7E6;A0A5F9ZI57;V9GY86;F8VQP2;A0A2R8YDM9;A0A2R8Y7P6;Q99700-5;Q99700-2;Q99700-4;A0A5F9ZHH4;F8W0B5 Q99700 ATXN2 Ataxin-2 1 0 AVT(0.926)PS(0.029)S(0.045)EAK;AVT(0.703)PS(0.092)S(0.205)EAK;AVT(0.962)PS(0.031)S(0.007)EAK ;; 110.54 0.010701 151198000 16555 19825 14668 22278.1 22650.2 26754.3 24685.3 21067.2 23447.6 22363.3 TRUE FALSE FALSE 18296.33086 20467.34301 16666.87865 22709.32484 20914.74657 24474.68312 21907.64508 20528.33153 23284.42624 23327.49131 0.784324839 0.877391518 0.714473684 0.973500517 0.896570758 1.049177676 0.939134208 0.880005966 0.998153892 1 14.50974354 AVT(ph)PVPTKTEEVSNLK ddPTM_HeLa_SAHA_4h_R1 2 AVTPVPTKTEEVSNLK 16 1 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50;H0YBW1 Q6PKG0 LARP1 La-related protein 1 1 0 AVT(0.998)PVPT(0.002)KTEEVSNLK;AVT(0.671)PVPT(0.32)KT(0.009)EEVSNLK ; 127.2 0.016079 283138100 7920.4 6342.2 6613.8 7496.7 6916.2 6890.7 7516 8351 5883.4 7076 TRUE FALSE FALSE 8753.504012 6547.691441 7515.094221 7641.809469 6386.28225 6303.573594 6670.279899 8137.393512 5842.45694 7381.080989 1.185937944 0.887091125 1.018156315 1.035323888 0.865223164 0.854017671 0.903699595 1.102466363 0.79154489 1 12.8496164 -7.252141688 24.95058034 1.08780403 0.949013654 0 0.127600959 613.6843895 1646837.762 0.016887973 0.020537528 5.60E-08 7.252141688 -0.138790376 AVT(ph)PVSQGSNSSSADPK ddPTM_HeLa_SAHA_4h_R1 2 AVTPVSQGSNSSSADPK 17 0 O00512 O00512 BCL9 B-cell CLL/lymphoma 9 protein 1 0 AVT(1)PVSQGSNSSSADPK;AVT(0.999)PVS(0.001)QGSNSSSADPK ; 246.42 1.50E-36 36630000 9430.2 10432.7 10161 11053.7 11123.2 12453.7 11996.2 11634.4 11016.6 9366 TRUE FALSE FALSE 10422.1117 10770.72633 11545.68816 11267.66035 10270.94282 11392.5747 10646.356 11336.80889 10939.93458 9769.814096 1.066766635 1.102449465 1.181771531 1.15331369 1.051293578 1.166099435 1.089719405 1.160391465 1.119768961 1 13.25411539 -7.786299018 0.854539706 1.01307167 1.130901896 0.148465698 0.051117597 0.241591027 0.378334972 0.010855883 0.009423028 1.64E-08 7.786299018 0.117830226 AVTELNEPLSNEDR ddPTM_HeLa_SAHA_4h_R1 1 AVTELNEPLSNEDR 14 0 Q04917 Q04917 YWHAH 14-3-3 protein eta 0 0 168.83 2.44E-05 5914300 613.69 685.78 512.69 502.91 598.93 901.41 579.76 668.01 788.91 524.73 FALSE FALSE TRUE 678.2407299 707.999722 582.5567232 512.6445503 553.0401128 824.6047968 514.523879 650.9232715 783.4199111 547.3536783 1.239127016 1.293495869 1.064314987 0.936587385 1.010388958 1.506530109 0.940020867 1.189218776 1.431286465 1 9.096329536 -9.555305851 1.362086923 1.000987602 1.155250478 0 0.212914381 0.801408796 2.691026976 0.111362526 0.027031297 2.78E-10 9.555305851 0.154262876 AVTEMNGR ddPTM_HeLa_SAHA_4h_R1 1 AVTEMNGR 8 0 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YAR2;Q9H361;H0YB86;Q4VXU2;A0A6I8PS38;A0A6I8PLA1;B1ANR0;Q13310-2;Q13310;Q13310-3;H0Y5F5;H0YEU6 P11940;B1ANR0 PABPC1;PABPC3;PABPC1L;PABPC4 Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 3;Polyadenylate-binding protein 1-like;Polyadenylate-binding protein 4 0 0 117.4 0.0044721 591740 282 60.611 112.67 65.638 163.72 173.79 274.86 159.36 138.61 0 FALSE FALSE TRUE 311.6620539 62.57483617 128.0240808 66.9085184 151.175809 158.9821143 243.9320294 155.283802 137.6454017 0 0 AVTEQGAELSNEER ddPTM_HeLa_SAHA_4h_R1 4 AVTEQGAELSNEER 14 0 P27348;E9PG15 P27348 YWHAQ 14-3-3 protein theta 0 0 ;;; ;;; 317.81 1.80E-157 55682300 1670.24 1807.15 1449.01 1615.58 2058.33 2316.73 2160.41 2494.28 2680.32 2218.05 FALSE FALSE TRUE 1845.923507 1865.702846 1646.473537 1646.851887 1900.6212 2119.33157 1917.314981 2430.479929 2661.667435 2313.68099 0.797829742 0.806378603 0.71162513 0.711788658 0.821470725 0.915999906 0.828685972 1.050481868 1.150403814 1 11.17597424 -4.254939595 23.81350753 0.861934088 1.050482038 0.168488616 0.126599775 504.8425689 1849508.436 0.015978787 0.198777765 5.56E-05 4.254939595 0.18854795 AVTEQGHELSNEER ddPTM_HeLa_SAHA_4h_R1 4 AVTEQGHELSNEER 14 0 P31946-2;P31946;Q4VY20;Q4VY19;A0A0J9YWE8;A0A0J9YWZ2 P31946-2 YWHAB "14-3-3 protein beta/alpha;14-3-3 protein beta/alpha, N-terminally processed" 0 0 ;;; ;;; 256.57 1.64E-43 71236600 5523.36 5574.98 4457 5869.75 6558.49 7561.79 7020.74 7369.08 6019.29 6086.67 FALSE FALSE TRUE 6104.332347 5755.61301 5064.376749 5983.367499 6055.979913 6917.482951 6230.747858 7180.589604 5977.401271 6349.096131 0.961449035 0.906524786 0.797653185 0.94239674 0.953833394 1.089522478 0.981359823 1.130962495 0.941457043 1 12.63233551 -5.271577889 24.03920581 0.956805413 1.058689421 0.449019705 0.065077544 377.0178259 893940.3616 0.010253359 0.023201205 5.35E-06 5.271577889 0.101884008 AVTGQTTQVS(ph)PPVIAGR ddPTM_HeLa_SAHA_4h_R1 1 AVTGQTTQVSPPVIAGR 17 0 Q6MZP7;Q6MZP7-3 Q6MZP7 LIN54 Protein lin-54 homolog 1 0 AVT(0.003)GQT(0.037)T(0.061)QVS(0.899)PPVIAGR 101.53 0.001967 0 575.69 505.13 422.86 537.23 611.2 689.94 583.68 581.98 597.22 366.59 TRUE FALSE FALSE 636.2437156 521.4965434 480.4851586 547.6288635 564.369988 631.1532305 518.0027902 567.0937943 593.0638974 382.3954889 1.663836876 1.363762279 1.256513669 1.432100742 1.47588035 1.650524781 1.354625787 1.483003358 1.550917609 1 8.578921694 -9.474396669 1.171667028 0.995876645 1.474108059 0 0.205710788 0.246956815 0.598103926 0.096867478 0.022957349 3.35E-10 9.474396669 0.478231414 AVTIANS(ph)PSKPSEK ddPTM_HeLa_SAHA_4h_R1 1 AVTIANSPSKPSEK 14 1 Q8NEF9 Q8NEF9 SRFBP1 Serum response factor-binding protein 1 1 0 AVT(0.021)IANS(0.881)PS(0.083)KPS(0.015)EK 65.47 0.021628 67645000 2890.5 3706.1 2270 3015.9 3327.1 4136.5 3832.8 3002.4 4859.5 3167 TRUE FALSE FALSE 3194.536052 3826.180072 2579.343778 3074.277106 3072.178317 3784.046929 3401.523257 2925.602955 4825.682344 3303.544869 0.967002471 1.15820436 0.78078061 0.93059947 0.929964156 1.145450442 1.029658561 0.885595042 1.460758832 1 11.68979922 -4.244954703 22.81165558 0.987916936 0.885594781 0 0.181457744 1880.21472 2601712.124 0.013429669 0.420707804 5.69E-05 4.244954703 -0.102322156 AVTK(ac)AQK ddPTM_HeLa_SAHA_4h_R1 2 AVTKAQK 7 1 O60814;P57053;P58876;P62807;Q16778;Q8N257;Q93079;U3KQK0;Q99877;Q99880 O60814;P58876;P62807;Q16778;Q8N257;Q93079;U3KQK0;Q99880 HIST1H2BK;H2BFS;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-L 0 1 ; AVTK(1)AQK;AVTK(1)AQK 122.74 0.0017496 57461000 3495.7 4521.1 10752.6 15205.9 12763 14666.1 33936 11060 2020.18 3609.8 FALSE TRUE FALSE 3863.393765 4667.586606 12217.90833 15500.23218 11785.1017 13416.46577 30117.43197 10777.10121 2006.121403 3765.436144 1.026014947 1.239587242 3.244752497 4.116450682 3.129810531 3.563057574 7.998391372 2.86211233 0.532772653 1 11.87860126 -6.274426499 0.774428218 0.925311224 5.068774114 0.58498548 1.344552082 0.302284636 0.356384538 0.249842872 0.592859631 5.32E-07 6.274426499 4.14346289 AVTK(ac)AQK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 AVTKAQKK 8 2 O60814;P57053;P58876;P62807;Q16778;Q8N257;Q93079;U3KQK0;Q99877;Q99880 O60814;P58876;P62807;Q16778;Q8N257;Q93079;U3KQK0;Q99880 HIST1H2BK;H2BFS;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-L 0 2 AVTK(1)AQK(1)K 138.4 0.0020086 229170000 3945.6 3508.4 8746.5 10097 11545 4481.5 17685 4316.4 390.1 1579.1 FALSE TRUE FALSE 4360.616311 3622.074462 9938.42747 10292.44204 10660.42459 4099.650988 15695.03726 4205.992738 387.3852623 1647.182729 2.647317893 2.198951214 6.033591353 6.2485126 6.471913776 2.488886579 9.528412956 2.553446357 0.235180503 1 10.68578489 -6.79681088 5.932309819 1.817959657 5.672221736 0.492803741 1.994771449 0.109380973 10.30459316 0.286650242 0.383260072 1.60E-07 6.79681088 3.85426208 GKVGRPTASK(ac)ASK ddPTM_HeLa_SAHA_4h_R1 2 GKVGRPTASKASK 13 3 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 0 1 ; GK(0.002)VGRPTASK(0.998)ASK;GKVGRPTASK(1)ASK 66.004 0.016283 23777000 3263.8 3329.4 7125.2 10343.9 11255.2 11199 14325.5 12085.6 1217.25 2617.2 FALSE TRUE FALSE 3607.101459 3437.274744 8096.18515 10544.12114 10392.82901 10244.7822 12713.55704 11776.46785 1208.779058 2730.0403 1.321263081 1.259056412 2.965591808 3.862258422 3.806840876 3.752612075 4.656911854 4.31366081 0.442769676 1 11.41470653 -6.565811929 1.716636061 1.132651306 4.138299544 0.946475838 0.344208382 0.046293265 0.274582678 0.047867823 0.075460708 2.72E-07 6.565811929 3.005648239 up AVTK(ac)VQK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 AVTKVQKK 8 2 Q5QNW6;Q5QNW6-2 Q5QNW6 HIST2H2BF Histone H2B type 2-F 0 2 AVTK(1)VQK(1)K 133.57 0.0069343 9987400 2000.3 1521.1 3078.8 3516.2 4672.8 2181.7 6192.6 2410.1 304.52 990.95 FALSE TRUE FALSE 2210.700732 1570.384638 3498.36283 3584.261136 4314.771074 1995.806886 5495.79235 2348.453132 302.4008205 1033.674704 2.138681273 1.51922518 3.384394352 3.467494291 4.174205924 1.930788166 5.31675229 2.271946022 0.292549309 1 10.01356653 -7.147108391 0.555075362 1.204096215 3.657225164 0.51169815 1.01316671 0.445744862 0.309419083 0.296650084 0.386061647 7.13E-08 7.147108391 2.453128949 AVTK(ac)YTSAK ddPTM_HeLa_SAHA_4h_R1 2 AVTKYTSAK 9 1 O60814;P57053 O60814 HIST1H2BK;H2BFS Histone H2B type 1-K;Histone H2B type F-S 0 1 ; AVTK(1)YTSAK;AVTK(1)YTSAK 125.75 0.0018362 2440000 2064.2 2187.56 2202.13 2501.69 2841.22 2333.16 2893.39 2167.37 1559.32 1600.18 FALSE TRUE FALSE 2281.322027 2258.438379 2502.224808 2550.113827 2623.526337 2134.361642 2567.818142 2111.931814 1548.468565 1669.171591 1.366739069 1.353029486 1.499081833 1.527772124 1.571753528 1.278695165 1.538378772 1.265257464 0.927686868 1 10.70491656 -8.801376384 0.560777273 0.970978135 1.449729169 0.751607894 0.105600739 0.375291972 0.213050358 0.088802644 0.025527726 1.58E-09 8.801376384 0.478751034 AVTK(ac)YTSSK ddPTM_HeLa_SAHA_4h_R1 2 AVTKYTSSK 9 1 P33778;P58876;P62807;Q16778;Q5QNW6;Q5QNW6-2;Q8N257;Q93079;U3KQK0;Q99877;Q99879;Q99880 P33778;P58876;P62807;Q16778;Q5QNW6;Q8N257;Q93079;U3KQK0;Q99879;Q99880 HIST1H2BB;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST2H2BF;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BM;HIST1H2BL Histone H2B type 1-B;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 2-F;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-M;Histone H2B type 1-L 0 1 ; AVTK(1)YTSSK;AVTK(1)YTSSK 170.99 4.54E-17 0 5194.1 4966.5 6145.8 6024.2 6207.2 4175.3 7166.7 5598.5 2498.6 3668.6 FALSE TRUE FALSE 5740.439269 5127.417859 6983.317618 6140.807102 5731.605677 3819.54095 6360.284054 5455.298477 2481.212039 3826.7713 1.500073775 1.339880922 1.824858888 1.604696654 1.497765408 0.998110588 1.662049691 1.425561668 0.64838263 1 11.90191197 -9.136347385 0.7560118 0.978467446 1.486177124 0.520581814 0.237494111 0.559319097 0.542677757 0.171495367 0.042466293 7.31E-10 9.136347385 0.507709678 AVTPSS(ph)EAK ddPTM_HeLa_SAHA_4h_R1 1 AVTPSSEAK 9 0 Q99700;H0YH87;A0A5F9ZHW5;A0A5F9ZHX3;A0A2R8Y5A6;A0A2R8Y7E6;A0A5F9ZI57;V9GY86;F8VQP2;A0A2R8YDM9;A0A2R8Y7P6;Q99700-5;Q99700-2;Q99700-4;A0A5F9ZHH4;F8W0B5 Q99700 ATXN2 Ataxin-2 1 0 AVT(0.146)PS(0.24)S(0.614)EAK 104.05 0.0081025 57929000 7619.5 9360.8 7219.7 10187 10422 12574 10600 11093 11276 10021 TRUE FALSE FALSE 8420.95397 9664.096062 8203.563117 10384.18412 9623.468612 11502.62446 9407.260102 10809.25712 11197.5294 10453.05435 0.805597454 0.924523659 0.78480058 0.993411473 0.920637001 1.100407984 0.899953237 1.03407643 1.071220815 1 13.35163693 AVTSGLPGDTALLLPPS(ph)PRPSPR ddPTM_HeLa_SAHA_4h_R1 1 AVTSGLPGDTALLLPPSPRPSPR 23 1 Q6W2J9-4;Q6W2J9-2;Q6W2J9;H7BYY2;Q6W2J9-3 Q6W2J9-4 BCOR BCL-6 corepressor 1 0 AVTSGLPGDTALLLPPS(0.992)PRPS(0.008)PR 89.08 0.0001445 19331000 698.43 911.66 908.98 765.93 819.79 1029 976.65 595.36 942.05 982.36 TRUE FALSE FALSE 771.8940719 941.1983822 1032.851061 780.7556827 756.9778673 941.323411 866.7547716 580.1315533 935.4941973 1024.714347 0.753277315 0.918498296 1.00794047 0.761925199 0.738720863 0.91862031 0.845850138 0.566139778 0.912931687 1 10.00100608 -13.52287875 0.299555117 2.619863396 0.800029588 0.185556359 0.117776611 49.48004382 0.669698063 48.41423249 0.048793603 3.00E-14 13.52287875 -1.819833809 (ac)AENVVEPGPPSAK(ac)RPK ddPTM_HeLa_SAHA_4h_R1 2 AENVVEPGPPSAKRPK 16 2 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 0 1 ; AENVVEPGPPSAK(1)RPK;AENVVEPGPPSAK(1)RPK 128.85 1.67E-06 64884000 1146.08 1447.76 1661.04 2023.82 2426.1 2878.6 2978.2 2596 1082.21 698.35 FALSE TRUE FALSE 1266.629953 1494.668374 1887.397881 2062.993963 2240.212742 2633.327085 2643.085098 2529.598079 1074.678812 728.4592861 1.738779335 2.05182143 2.590944912 2.831996244 3.075275152 3.614926923 3.628322335 3.472531859 1.475276426 1 9.508704532 -6.561521373 0.434493427 1.061584497 3.888326058 0.964960614 0.167099088 0.105784811 0.042550867 0.053220933 0.119063925 2.74E-07 6.561521373 2.826741561 up AVTTVTQSTPVPGPSVPPPEELQVS(ph)PGPR ddPTM_HeLa_SAHA_4h_R1 3 AVTTVTQSTPVPGPSVPPPEELQVSPGPR 29 0 P51610-2;P51610;H7C1C4 P51610-2 HCFC1 Host cell factor 1;HCF N-terminal chain 1;HCF N-terminal chain 2;HCF N-terminal chain 3;HCF N-terminal chain 4;HCF N-terminal chain 5;HCF N-terminal chain 6;HCF C-terminal chain 1;HCF C-terminal chain 2;HCF C-terminal chain 3;HCF C-terminal chain 4;HCF C-terminal chain 5;HCF C-terminal chain 6 1 0 AVTTVTQSTPVPGPSVPPPEELQVS(1)PGPR;AVTTVTQSTPVPGPSVPPPEELQVS(1)PGPR;AVTTVTQSTPVPGPSVPPPEELQVS(1)PGPR ;; 162.19 1.93E-15 55768400 2952.48 2904.34 2738.21 3115.68 2674.7 3490.28 3287.52 2947.46 3218.18 2956.14 TRUE FALSE FALSE 3263.035393 2998.442522 3111.358999 3175.988492 2469.765064 3192.888508 2917.599597 2872.068241 3195.784423 3083.593662 1.058192405 0.972385745 1.009004214 1.029963361 0.800937262 1.035443984 0.946168632 0.931402952 1.036383121 1 11.59039695 AVVGVVAGGGR ddPTM_HeLa_SAHA_4h_R1 2 AVVGVVAGGGR 11 0 E9PKZ0;P62917;E9PKU4;E9PP36 E9PKZ0 RPL8 60S ribosomal protein L8 0 0 ; ; 173.68 6.19E-11 11989000 3291.4 3609.9 3265.6 3994.6 4683.4 4218.3 4580.7 3958.9 3288 3807.7 FALSE FALSE TRUE 3637.604553 3726.863129 3710.618961 4071.921259 4324.558904 3858.877108 4065.26758 3857.63707 3265.11854 3971.868581 0.915842123 0.938314814 0.934225009 1.025190329 1.088797078 0.971552062 1.023515128 0.971239856 0.822061071 1 11.95560217 -6.253301903 24.48588654 0.955479375 1.018041538 0.343219566 0.056159677 435.8451619 1311468.288 0.006674187 0.010935873 5.58E-07 6.253301903 0.062562163 AVVIVDDR ddPTM_HeLa_SAHA_4h_R1 6 AVVIVDDR 8 0 Q15233;Q15233-2;C9IZL7;H7C367;P23246;P23246-2 Q15233;P23246 NONO;SFPQ "Non-POU domain-containing octamer-binding protein;Splicing factor, proline- and glutamine-rich" 0 0 ;;;;; ;;;;; 138.83 0.0061129 93669800 18593.1 20862.3 19101.1 23290.5 22286.9 24890.5 24843 21158.7 23480.6 20406.7 FALSE FALSE TRUE 20548.80757 21538.25221 21704.09843 23741.32131 20579.28254 22769.68937 22047.60026 20617.49109 23317.19659 21286.5327 0.965343105 1.011825294 1.019616428 1.115321205 0.96677476 1.069675822 1.035753477 0.968569723 1.095396649 1 14.37765335 -6.964588483 3.162135982 0.983718163 1.032368455 0 0.054713666 0.274132478 5.666453032 0.006674762 0.008753609 1.08E-07 6.964588483 0.048650292 AVVLPGGTAT(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 AVVLPGGTATSPK 13 0 Q8N1G0;H0Y5I5;F8WCX2;Q8N1G0-2 Q8N1G0 ZNF687 Zinc finger protein 687 1 0 AVVLPGGT(0.05)AT(0.786)S(0.164)PK 92.792 0.015642 5690700 4959.2 5092.2 4399.8 5222.4 4874.4 5897.1 4982.9 4684.3 6271.3 5540.8 TRUE FALSE FALSE 5480.83141 5257.190621 4999.381831 5323.487104 4500.924525 5394.633904 4422.210978 4564.482389 6227.657513 5779.691004 0.948291424 0.909597177 0.864991195 0.92106777 0.778748297 0.933377563 0.765129308 0.789745055 1.077507 1 12.49677665 -3.716798127 0.162421891 1.039719898 0.50037544 0.700489341 0.052421849 9.378055127 0.219152526 0.095025806 1.082436677 0.000191956 3.716798127 -0.539344458 TAELLAK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 TAELLAKK 8 1 Q92541 Q92541 RTF1 RNA polymerase-associated protein RTF1 homolog 0 1 TAELLAK(1)K 78.334 0.022071 1599000 491.46 550.02 971.25 1367.4 1561.9 1669.6 1922.5 1491.7 631.51 393.73 FALSE TRUE FALSE 543.1540177 567.8410089 1103.606892 1393.868004 1442.227559 1527.340687 1706.17524 1453.544474 627.1152705 410.7056272 1.322489836 1.38259856 2.687099516 3.393837123 3.51158461 3.718820941 4.154253381 3.539139417 1.526921544 1 8.681960904 -6.548569482 1.342662074 1.126209681 3.785922998 0.959699489 0.227461102 0.042673771 0.154077088 0.034180284 0.056513892 2.83E-07 6.548569482 2.659713316 up AVVQS(ph)PQVTEVL ddPTM_HeLa_SAHA_4h_R1 1 AVVQSPQVTEVL 12 0 Q3KQU3-4;Q3KQU3;Q3KQU3-2;Q3KQU3-3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 AVVQS(0.979)PQVT(0.021)EVL 90.731 0.012023 2277100 1047.3 919.4 923.93 1090.2 1210.9 1266.4 988.26 1025.3 1125 1052.3 TRUE FALSE FALSE 1157.459819 949.1891632 1049.838369 1111.302397 1118.121104 1158.495595 877.0583838 999.0743106 1117.171033 1097.669803 1.054469947 0.864731052 0.95642457 1.012419577 1.01863156 1.055413561 0.799018413 0.910177458 1.017766026 1 10.10022842 -4.763698671 24.99997608 1.009920124 0.85459792 0.477305594 0.058665394 32.86944601 363735.8103 0.008562467 0.027648157 1.72E-05 4.763698671 -0.155322204 AVVS(ph)PPKFVFGSESVK ddPTM_HeLa_SAHA_4h_R1 1 AVVSPPKFVFGSESVK 16 1 P49792;A0A1W2PNU4;P0DJD1;P0DJD0;A0A286YES2;F8VYC4;J3KNE0;Q7Z3J3;A6NKT7 P49792;J3KNE0 RANBP2;RGPD2;RGPD1;RGPD3;RGPD4 E3 SUMO-protein ligase RanBP2;RANBP2-like and GRIP domain-containing protein 2;RANBP2-like and GRIP domain-containing protein 1;RanBP2-like and GRIP domain-containing protein 4;RanBP2-like and GRIP domain-containing protein 3 1 0 AVVS(1)PPKFVFGSESVK 110.56 0.0081673 163990000 1241.1 1287 1376.2 1277.8 1461 1646.1 1587 1242.7 1248.7 1223.2 TRUE FALSE FALSE 1371.644592 1328.699644 1563.741369 1302.533667 1349.058496 1505.843019 1408.426583 1210.913533 1240.010195 1275.938138 1.075008695 1.041351148 1.225562057 1.020843901 1.057307134 1.180184975 1.103836104 0.949037808 0.97184194 1 10.31734267 -8.776637491 0.698537174 1.000169439 1.08755946 0.197207584 0.074702094 0.992783296 0.92473636 0.045930651 0.016022423 1.67E-09 8.776637491 0.087390021 AVVSK(ac)ATTKPPPAKK ddPTM_HeLa_SAHA_4h_R1 1 AVVSKATTKPPPAKK 15 3 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 AVVSK(0.978)ATTK(0.022)PPPAKK 63.16 0.013968 1864900 135.25 277.58 448.95 493.29 468.09 495.28 702.18 628.69 279.98 329.93 FALSE TRUE FALSE 149.4762155 286.5737741 510.130568 502.8383413 432.2250453 453.0793576 623.1688584 612.6090201 278.0315964 344.1548969 0.434328312 0.832688352 1.482270258 1.461081466 1.255902645 1.316498361 1.810722044 1.780038656 0.807867617 1 8.426914228 -6.784891081 4.54743174 0.728606393 1.511625998 0.756137509 0.208672872 0.0912049 4.460688584 0.044017782 0.059905142 1.64E-07 6.784891081 0.783019605 AVVVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 AVVVSPK 7 0 G3V5E1;O75909-1;O75909 G3V5E1 CCNK Cyclin-K 1 0 AVVVS(1)PK 88.948 0.02091 80374000 6320 7354.5 5130.1 6341.4 7670.7 9506.7 6848.2 6269.1 10281 7839.8 TRUE FALSE FALSE 6984.766597 7592.790625 5829.203312 6464.146967 7082.972623 8696.675677 6077.622513 6108.7455 10209.45368 8177.812145 0.854111891 0.928462343 0.712807192 0.790449432 0.86612073 1.06344772 0.743184412 0.746990196 1.248433383 1 12.99749921 -9.05577577 0.516919757 1.024324906 0.833679931 0.38453589 0.125771925 1.397952521 0.578567236 0.131268843 0.026769285 8.79E-10 9.05577577 -0.190644976 AVVVS(ph)PKEENK ddPTM_HeLa_SAHA_4h_R1 1 AVVVSPKEENK 11 1 G3V5E1;O75909-1;O75909 G3V5E1 CCNK Cyclin-K 1 0 AVVVS(1)PKEENK 120.57 0.0095135 38475000 2183.1 1972.2 1844.1 2297.5 2055.7 2263.5 2177.6 2522.7 2048.4 1963 TRUE FALSE FALSE 2412.728474 2036.100574 2095.404344 2341.971435 1898.19271 2070.637066 1932.570717 2458.172987 2034.145018 2047.634537 1.178300342 0.994367177 1.023329264 1.14374484 0.927017334 1.011233708 0.943806467 1.200494006 0.993412145 1 10.99974253 AVYDEQGTVDEDSPVLTQDRDWEAYWR ddPTM_HeLa_SAHA_4h_R1 3 AVYDEQGTVDEDSPVLTQDRDWEAYWR 27 1 Q8WXX5 Q8WXX5 DNAJC9 DnaJ homolog subfamily C member 9 0 0 ;; ;; 247.58 3.32E-54 28034300 1339.21 1211.33 929.25 1363.95 1179.03 1631.68 1459.76 898.41 1171.93 1449.74 FALSE FALSE TRUE 1480.074252 1250.577887 1055.883351 1390.351225 1088.692976 1492.651684 1295.503963 875.4299731 1163.774444 1512.245386 0.978726248 0.826967566 0.698222233 0.91939525 0.7199182 0.987043305 0.856675758 0.578894127 0.769567197 1 10.56247654 -7.249332722 4.340832535 0.990720835 0.804229688 0.07096901 0.129480386 0.151447767 7.17408815 0.017507873 0.020875537 5.63E-08 7.249332722 -0.186491147 AWDIAIATMK ddPTM_HeLa_SAHA_4h_R1 1 AWDIAIATMK 10 0 Q02790;F5H1U3 Q02790 FKBP4 "Peptidyl-prolyl cis-trans isomerase FKBP4;Peptidyl-prolyl cis-trans isomerase FKBP4, N-terminally processed;Peptidyl-prolyl cis-trans isomerase" 0 0 149.72 3.74E-05 223650 217.21 334.43 612.99 413.55 613.39 112.26 623.17 126.89 287.97 245.46 FALSE FALSE TRUE 240.0571444 345.2657514 696.5250849 421.5548583 566.3921907 102.6948164 553.0492715 123.6443375 285.9659933 256.0429819 0.937565805 1.348467937 2.720344373 1.646422234 2.212098088 0.401084286 2.15998606 0.482904615 1.116867142 1 8.000242205 -7.00409905 24.97646742 0.979596078 1.639871685 0.126857923 0.682614048 218.5044887 1331407.905 0.102670409 0.133191467 9.91E-08 7.00409905 0.660275607 AWEDYYK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 AWEDYYKK 8 1 Q96I24 Q96I24 FUBP3 Far upstream element-binding protein 3 0 1 AWEDYYK(1)K 89.298 0.011205 4102200 1054 718.15 2178.4 3128 2170.4 2635.5 1214.5 812.46 1065.1 1908.4 FALSE TRUE FALSE 1164.864556 741.4185312 2475.261007 3188.546963 2004.104421 2410.940573 1077.841264 791.6784496 1057.687882 1990.680463 0.585158983 0.372444772 1.243424574 1.601737206 1.006743401 1.211113796 0.541443634 0.397692379 0.531319768 1 10.95904595 -2.581116713 6.81348542 0.853649505 0.736501883 0 0.399638307 0 0 0.054294516 0 0.002623513 2.581116713 -0.117147623 AWGPGLEGGVVGK ddPTM_HeLa_SAHA_4h_R1 2 AWGPGLEGGVVGK 13 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 176.48 1.03E-10 4397300 3062.7 2761.6 2665.5 2528.9 3264 3336.8 3373 2608.8 2562.7 2637.2 FALSE FALSE TRUE 3384.848838 2851.077652 3028.740459 2577.850516 3013.913025 3052.485868 2993.461163 2542.070673 2544.865962 2750.902598 1.230450268 1.03641534 1.1009988 0.937092618 1.095608775 1.109630661 1.088174174 0.924086035 0.92510217 1 11.42568934 AWLDEDSNLSPS(ph)PLR ddPTM_HeLa_SAHA_4h_R1 1 AWLDEDSNLSPSPLR 15 0 B8ZZ93;B8ZZH7;F8WCL7;J3KQ70;Q9C086 B8ZZ93 INO80B;INO80B-WBP1 INO80 complex subunit B 1 0 AWLDEDSNLSPS(1)PLR 130.47 0.00026516 4131600 533.51 718.95 552.77 598.5 694.27 865.83 626.88 588.51 857.75 803.25 TRUE FALSE FALSE 589.6270296 742.2444517 628.0986169 610.0848329 641.0751826 792.056413 556.3418125 573.4567664 851.7808479 837.8820385 0.703711265 0.885857934 0.749626544 0.728127356 0.765113886 0.945307784 0.663985844 0.684412292 1.016588026 1 9.710603338 -9.403011464 0.941538592 1.011335226 0.764838846 0.571016205 0.083726192 0.403061752 0.59015049 0.072323214 0.015320105 3.95E-10 9.403011464 -0.246496381 AWNDIK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 AWNDIKK 7 1 P36578;H3BM89;H3BTP7 P36578 RPL4 60S ribosomal protein L4 0 1 AWNDIK(1)K 91.853 0.0053015 0 472.18 1363.1 616.96 565.65 1222.8 970.05 1346.1 915.56 861.09 402.93 FALSE TRUE FALSE 521.8460588 1407.265334 701.0360958 576.5989737 1129.109328 887.3962826 1194.633285 892.1413009 855.0976046 420.3022842 1.241597009 3.348221952 1.66793311 1.371867333 2.68642206 2.111328718 2.842319279 2.122618255 2.034482411 1 8.715283487 -7.465279856 15.32667742 1.106555451 2.275839367 0.263253074 0.612302278 2.666550591 709.3315372 0.088862964 0.101416891 3.43E-08 7.465279856 1.169283916 AWVESR ddPTM_HeLa_SAHA_4h_R1 1 AWVESR 6 0 Q9HB71;Q9HB71-3 Q9HB71 CACYBP Calcyclin-binding protein 0 0 150.07 5.61E-05 13431000 2416.9 2720.1 2440.4 2658.4 2494.4 2773.7 2859.7 2405.4 2391.3 2455.1 FALSE FALSE TRUE 2671.120631 2808.233025 2772.965003 2709.857176 2303.279611 2537.365156 2537.91903 2343.873351 2374.658749 2560.951376 1.043018878 1.09655851 1.082787057 1.05814472 0.899384359 0.990790055 0.991006332 0.915235398 0.927256476 1 11.32246415 -5.77636775 24.99999215 1.034711591 0.95507462 0.39417078 0.051731203 168.9292956 282899.613 0.006586947 0.01197469 1.67E-06 5.77636775 -0.079636971 AYEEAQK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 AYEEAQKR 8 1 A2AB15;A0A140T947;O60231 A2AB15 DHX16 Putative pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 0 1 ; AYEEAQK(1)R;AYEEAQK(1)R 124.98 0.00054255 3117100 1271.61 1348.21 1404.19 1651.61 1805.32 1666.76 1724.75 1418.89 784.08 1005.21 FALSE TRUE FALSE 1405.363774 1391.892889 1595.5457 1683.5793 1666.996772 1524.742671 1530.676591 1382.596848 778.6235234 1048.549522 1.34029318 1.327446018 1.521669379 1.605626881 1.589812151 1.454144643 1.459803813 1.3185804 0.742572007 1 10.03417929 -8.385581524 0.540022022 0.99427753 1.495217917 0.762099791 0.125904343 0.288555786 0.179601186 0.065392821 0.028390997 4.12E-09 8.385581524 0.500940387 AYEFAER ddPTM_HeLa_SAHA_4h_R1 1 AYEFAER 7 0 A0A087WVQ6;Q00610-2;Q00610;A0A087WX41;P53675-2;P53675 A0A087WVQ6 CLTC;CLTCL1 Clathrin heavy chain;Clathrin heavy chain 1;Clathrin heavy chain 2 0 0 162.31 1.06E-05 20987000 3036.5 3248.8 3154.3 3156.4 3395.9 3601.6 3465.9 3330.7 2875.9 3126.2 FALSE FALSE TRUE 3355.893002 3354.063252 3584.151577 3217.496686 3135.706876 3294.723418 3075.90781 3245.505517 2855.886378 3260.985781 1.029103844 1.02854274 1.099100645 0.986663819 0.961582505 1.01034584 0.943244778 0.995252888 0.875773944 1 11.67109244 -6.022749594 24.99526984 1.022197968 0.977069675 0.02123148 0.055458653 687.9109014 755816.1574 0.004755918 0.007926611 9.49E-07 6.022749594 -0.045128294 AYFHLLNQIAPK ddPTM_HeLa_SAHA_4h_R1 2 AYFHLLNQIAPK 12 0 P13797-3;P13797;A0A0A0MSQ0;P13797-2;H7C4N2;C9JAM8;Q14651 P13797-3 PLS3;PLS1 Plastin-3;Plastin-1 0 0 ; ; 141.95 4.61E-05 14766800 13963.6 14607.2 18412.2 12865.7 18748.3 14255.4 18013.7 7598.7 10337.6 15412.5 FALSE FALSE TRUE 15432.35552 15080.48286 20921.31873 13114.73423 17311.8093 13040.75972 15986.75107 7404.336257 10265.6598 16077.0083 0.959902192 0.938015493 1.301319147 0.815744695 1.076805397 0.811143434 0.994385943 0.460554359 0.638530478 1 13.97271135 -4.026295289 2.079135994 0.987430352 4.06E-13 0.3965356 0.172437176 0.887739871 2.287065592 0.016659534 2.06845082 9.41E-05 4.026295289 -0.987430352 AYGELPEHAK ddPTM_HeLa_SAHA_4h_R1 2 AYGELPEHAK 10 0 X6RAC9;A6NJH9;P47813;O14602 X6RAC9 EIF1AX;EIF1AY "Eukaryotic translation initiation factor 1A, X-chromosomal;Eukaryotic translation initiation factor 1A, Y-chromosomal" 0 0 ; ; 99.788 0.011547 17605600 15936.3 15908.5 15335.5 17418.7 16107.3 18032.9 18318 17857 17285.8 16093.5 FALSE FALSE TRUE 17612.55315 16423.94584 17425.34208 17755.86413 14873.16215 16496.39547 16256.81043 17400.2438 17165.50671 16787.36954 1.049155027 0.978351361 1.038003127 1.05769186 0.885973357 0.982667083 0.96839534 1.036508057 1.022525099 1 14.03508857 -5.814388384 24.99998739 1.023401735 0.969404358 0.315255746 0.040337121 90.79945037 42870.81338 0.005945432 0.010777018 1.53E-06 5.814388384 -0.053997377 AYGPGIEPTGNMVK ddPTM_HeLa_SAHA_4h_R1 1 AYGPGIEPTGNMVK 14 0 P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98 P21333-2 FLNA Filamin-A 0 0 257.42 4.91E-75 0 83.005 279.06 241.54 296.74 294.43 259.53 297.85 199.13 220.16 223.67 FALSE FALSE TRUE 91.73584674 288.1017271 274.4558133 302.4838318 271.870837 237.4165839 264.3351341 194.0365429 218.6278886 233.3135083 0.393187036 1.234826604 1.176339147 1.296469433 1.165259736 1.017586104 1.132961122 0.831655845 0.937056282 1 7.866126028 -7.241588702 24.98043853 0.713449423 1.128996532 0.386358682 0.194505108 628.0567227 790358.2788 0.041584647 0.050895102 5.73E-08 7.241588702 0.415547109 AYGVPVKPMT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 AYGVPVKPMTPK 12 1 H3BT74;F8W872;Q15131-4;Q15131-3;Q15131-2;Q15131 H3BT74 CDK10 Cyclin-dependent kinase 10 1 0 AYGVPVKPMT(1)PK 114.72 0.00089797 0 290.65 262.4 230.87 222.15 236.63 331.82 292.87 240.96 271.94 222.53 TRUE FALSE FALSE 321.2219005 270.9019322 262.3317613 226.4500345 218.4994605 303.5470692 259.9154968 234.7965921 270.0475474 232.1243573 1.38383539 1.167055174 1.130134572 0.975554815 0.941303459 1.307691587 1.119725219 1.011512083 1.163374454 1 7.858754106 -6.609649381 3.975578803 1.185036148 1.077772444 0.133015611 0.127669434 0.473115097 14.38337519 0.027217639 0.039202845 2.46E-07 6.609649381 -0.107263703 AYLGYQAVPSGSSGSLST(ph)SSSSSPPGTPSPADAK ddPTM_HeLa_SAHA_4h_R1 1 AYLGYQAVPSGSSGSLSTSSSSSPPGTPSPADAK 34 0 P17676-3;P17676-2;P17676 P17676-3 CEBPB CCAAT/enhancer-binding protein beta 1 0 AYLGYQAVPSGSSGS(0.004)LS(0.058)T(0.177)S(0.177)S(0.177)S(0.177)S(0.177)S(0.051)PPGTPSPADAK 113.35 1.38E-13 8906800 1326.1 1406.2 1530.3 1738 1806.8 2482 2124.7 2695.2 1645.1 1629 TRUE FALSE FALSE 1465.585282 1451.761803 1738.841315 1771.641503 1668.363374 2270.519637 1885.623164 2626.260687 1633.651615 1699.234162 0.862497539 0.854362415 1.023308825 1.04261175 0.981832529 1.336201736 1.109690004 1.545555489 0.961404644 1 10.73066896 -3.398062648 0.513526582 0.929193526 2.609159208 0.759322281 0.10000256 3.119187553 0.291720022 0.01999136 3.853049489 0.000399887 3.398062648 1.679965682 AYLGYQAVPSGSSGSLSTSSSS(ph)SPPGTPSPADAK ddPTM_HeLa_SAHA_4h_R1 1 AYLGYQAVPSGSSGSLSTSSSSSPPGTPSPADAK 34 0 P17676-3;P17676-2;P17676 P17676-3 CEBPB CCAAT/enhancer-binding protein beta 1 0 AYLGYQAVPSGSSGSLS(0.006)T(0.093)S(0.093)S(0.093)S(0.093)S(0.311)S(0.311)PPGTPSPADAK 139.75 1.63E-19 6363100 6675.7 6782.6 5889.6 8358.3 8152.7 11099 9616.4 9970.4 7552.8 6844.1 TRUE FALSE FALSE 7377.880755 7002.36069 6692.204016 8520.086983 7528.041887 10153.30276 8534.337363 9715.371605 7500.23945 7139.182645 1.033434935 0.980835067 0.937390784 1.193426111 1.054468314 1.422194005 1.195422191 1.360852087 1.050573969 1 12.8015432 -5.591244196 1.424856878 1.01034948 1.314973403 0.686423349 0.087480493 0.15955019 0.637216125 0.01196307 0.034397719 2.56E-06 5.591244196 0.304623924 AYQHGGVTGLS(ph)QY ddPTM_HeLa_SAHA_4h_R1 2 AYQHGGVTGLSQY 13 0 Q92900-2;Q92900 Q92900-2 UPF1 Regulator of nonsense transcripts 1 1 0 AYQHGGVTGLS(0.999)QY(0.001);AYQHGGVTGLS(1)QY ; 103.14 0.004019 30243000 3750.9 3277.8 3233.9 4110.9 4972.9 3914.9 4567.2 5014.8 2757.7 4083.4 TRUE FALSE FALSE 4145.436872 3384.002871 3674.599051 4190.472414 4591.877476 3581.328495 4053.286636 4886.528677 2738.508941 4259.455358 0.973231675 0.794468444 0.862692232 0.98380475 1.078043339 0.840794936 0.951597398 1.147219132 0.642924673 1 12.05645325 -4.259784214 24.1626901 0.96020295 1.147219233 0.126096571 0.129680784 90.11407946 1315319.486 0.011846543 0.101050527 5.50E-05 4.259784214 0.187016283 AYQQKPYPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 AYQQKPYPSPK 11 1 A0A2R8YDI1;A0A2R8Y852;P39880-6;P39880-4;P39880-5;P39880-2;P39880;P39880-3 A0A2R8YDI1 CUX1 Homeobox protein cut-like 1 1 0 AYQQKPY(0.001)PS(0.999)PK 110.8 0.017657 6798100 833.49 749.55 794.64 561.67 636.67 958.3 693.57 761.97 664.15 584.49 TRUE FALSE FALSE 921.1603024 773.8359118 902.9294009 572.541935 587.8884821 876.6474488 615.5276782 742.4799107 659.5281261 609.6902243 1.510866118 1.269228013 1.480964209 0.939070223 0.96424128 1.437857151 1.009574459 1.217798615 1.08174299 1 9.251932604 -6.252799388 24.94749693 1.266258974 1.117627688 0.132872233 0.197622523 1290.327916 3725746.143 0.035868719 0.058855917 5.59E-07 6.252799388 -0.148631286 AYS(ph)FCGTVEYMAPEVVNR ddPTM_HeLa_SAHA_4h_R1 5 AYSFCGTVEYMAPEVVNR 18 0 B4DG22;B1AXG1;B7ZB17;P51812;Q9UK32-2;Q9UK32;E9PGT3;Q15418-3;Q15418-4;Q15418;Q15418-2 B4DG22;E9PGT3 RPS6KA3;RPS6KA6;RPS6KA1 Ribosomal protein S6 kinase alpha-3;Ribosomal protein S6 kinase alpha-6;Ribosomal protein S6 kinase;Ribosomal protein S6 kinase alpha-1 1 0 AYS(0.999)FCGT(0.001)VEYMAPEVVNR;AYS(1)FCGTVEYMAPEVVNR;AYS(0.999)FCGT(0.001)VEYMAPEVVNR;AYS(1)FCGTVEYMAPEVVNR;AYS(1)FCGTVEYMAPEVVNR ;;;; 246.38 9.95E-38 149795000 4546.83 4836.31 4415.08 4766.28 5238.04 6541.31 5698.79 5801.64 5748.1 4758.98 TRUE FALSE FALSE 5025.086441 4993.009617 5016.74411 4858.538242 4836.702507 5983.953588 5057.547151 5653.242449 5708.098504 4964.162918 1.012272668 1.00581099 1.010592157 0.978722561 0.974323886 1.20543054 1.018811678 1.138810821 1.149861235 1 12.27733475 -5.286294456 24.99974943 1.002391969 1.110797102 0.322507586 0.064404277 355.8142015 357884.8305 0.005598782 0.012523698 5.17E-06 5.286294456 0.108405132 AYS(ph)GSDLPSSSSGGANGTAGGGGGAR ddPTM_HeLa_SAHA_4h_R1 2 AYSGSDLPSSSSGGANGTAGGGGGAR 26 0 Q8NHG8 Q8NHG8 ZNRF2 E3 ubiquitin-protein ligase ZNRF2 1 0 AYS(0.77)GS(0.23)DLPSSSSGGANGTAGGGGGAR;AYS(0.999)GS(0.001)DLPSSSSGGANGTAGGGGGAR ; 271.42 4.03E-78 35013000 2678.8 3185.2 2906.1 3166.5 3360.6 3349.7 3239.9 3373.6 3961.3 3167.7 TRUE FALSE FALSE 2960.568475 3288.40257 3302.128174 3227.792186 3103.111554 3064.286715 2875.337925 3287.308197 3933.732991 3304.275049 0.895981246 0.995196381 0.999350273 0.976853361 0.939120233 0.927370352 0.870187222 0.994865182 1.190498046 1 11.69011807 -5.543352247 5.345055915 0.959117655 0.925857213 0 0.083844328 0.35977064 30.05004995 0.007272462 0.015174985 2.86E-06 5.543352247 -0.033260442 AYS(ph)NSIVR ddPTM_HeLa_SAHA_4h_R1 1 AYSNSIVR 8 0 Q9H1Z4 Q9H1Z4 WDR13 WD repeat-containing protein 13 1 0 AYS(0.961)NS(0.039)IVR 89.561 0.018359 16561000 1390.1 1047.7 1113.8 1353.9 1470.6 1938.2 1459.4 1391.5 1264.4 1390.7 TRUE FALSE FALSE 1536.317096 1081.646167 1265.582864 1380.106692 1357.922946 1773.054456 1295.184471 1355.907445 1255.600937 1450.659883 1.059047068 0.745623547 0.872418737 0.951364761 0.936072584 1.222239945 0.892824353 0.934683216 0.865537782 1 10.50249359 AYS(ph)PEYR ddPTM_HeLa_SAHA_4h_R1 1 AYSPEYR 7 0 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1;A0A3B3IT83 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 AYS(0.999)PEY(0.001)R 98.033 0.014957 7772400 2128.1 2439.2 2010.8 2049.3 2502.1 2896.8 3050.3 2335.3 3004.5 2393.2 TRUE FALSE FALSE 2351.943322 2518.23168 2284.821352 2088.967165 2310.389639 2649.976343 2707.072216 2275.566407 2983.59144 2496.382564 0.942140582 1.008752311 0.915252888 0.836797691 0.925495023 1.061526539 1.084397983 0.911545546 1.19516595 1 11.28562333 -5.263509563 24.97083177 0.957273598 1.025680818 0.018875566 0.098156472 238.7932123 2880381.908 0.009489655 0.0222204 5.45E-06 5.263509563 0.068407219 AYS(ph)PEYRR ddPTM_HeLa_SAHA_4h_R1 2 AYSPEYRR 8 1 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1;A0A3B3IT83 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 AYS(1)PEYRR;AYS(1)PEYRR ; 102.06 0.0050647 147047000 4070.6 2961.6 3900.9 3171.6 3582.8 3072.6 4139.1 3649.1 2426.1 2895.2 TRUE FALSE FALSE 4498.764385 3057.557783 4432.494337 3232.990904 3308.286638 2810.797194 3673.357574 3555.761306 2409.216573 3020.026241 1.489644137 1.012427555 1.467700604 1.070517488 1.095449633 0.930719461 1.216332999 1.177394176 0.7977469 1 11.56034537 AYS(ph)PTCSPTLGFK ddPTM_HeLa_SAHA_4h_R1 2 AYSPTCSPTLGFK 13 0 Q5TGY3 Q5TGY3 AHDC1 AT-hook DNA-binding motif-containing protein 1 1 0 AYS(0.758)PT(0.076)CS(0.156)PT(0.01)LGFK;AYS(0.912)PT(0.056)CS(0.032)PT(0.001)LGFK ; 127.71 0.00083669 6153800 2123.81 2949.11 2588.18 2958.87 2924.4 2854.48 2987.98 2637.19 3133.15 2970.97 TRUE FALSE FALSE 2347.20208 3044.663099 2940.883692 3016.143207 2700.333104 2611.262245 2651.764626 2569.734498 3111.346154 3099.063056 0.757390875 0.982446321 0.948958972 0.973243575 0.871338548 0.842597326 0.855666561 0.829197229 1.003963488 1 11.59761639 -5.526482474 24.75660392 0.902459394 0.845998803 0.174147465 0.074040512 215.0531844 1477354.592 0.01421248 0.028533101 2.98E-06 5.526482474 -0.056460592 AYSDQAIVNLLK ddPTM_HeLa_SAHA_4h_R1 1 AYSDQAIVNLLK 12 0 Q92616 Q92616 GCN1L1 Translational activator GCN1 0 0 101.93 0.016831 0 0 0 0 0 0 0 0 0 71.172 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 70.67670826 0 0 AYSFCGT(ph)VEYMAPEVVNR ddPTM_HeLa_SAHA_4h_R1 1 AYSFCGTVEYMAPEVVNR 18 0 B4DG22;B1AXG1;B7ZB17;P51812;Q9UK32-2;Q9UK32;E9PGT3;Q15418-3;Q15418-4;Q15418;Q15418-2 B4DG22;E9PGT3 RPS6KA3;RPS6KA6;RPS6KA1 Ribosomal protein S6 kinase alpha-3;Ribosomal protein S6 kinase alpha-6;Ribosomal protein S6 kinase;Ribosomal protein S6 kinase alpha-1 1 0 AYS(0.002)FCGT(0.884)VEY(0.113)MAPEVVNR 123.63 0.012796 14868000 678.14 681.23 572.77 636.64 683.66 783.66 702.87 662.26 662.64 548.64 TRUE FALSE FALSE 749.4698766 703.302299 650.8241127 648.9630878 631.2781185 716.8877592 623.7812177 645.3203481 658.0286343 572.2945554 1.309587641 1.228916635 1.137218774 1.133966909 1.103065043 1.252655215 1.089965319 1.12760176 1.149807609 1 9.160614071 -9.611431745 1.440182796 1.000744965 1.189796008 0.062631227 0.081784317 0.314330112 1.177748209 0.056331592 0.013179125 2.45E-10 9.611431745 0.189051043 AYSFCGTVEY(ph)MAPEVVNR ddPTM_HeLa_SAHA_4h_R1 2 AYSFCGTVEYMAPEVVNR 18 0 B4DG22;B1AXG1;B7ZB17;P51812;Q9UK32-2;Q9UK32;E9PGT3;Q15418-3;Q15418-4;Q15418;Q15418-2 B4DG22;E9PGT3 RPS6KA3;RPS6KA6;RPS6KA1 Ribosomal protein S6 kinase alpha-3;Ribosomal protein S6 kinase alpha-6;Ribosomal protein S6 kinase;Ribosomal protein S6 kinase alpha-1 1 0 AYS(0.009)FCGT(0.343)VEY(0.648)MAPEVVNR;AYS(0.244)FCGT(0.233)VEY(0.523)MAPEVVNR ; 158.56 1.38E-05 34627000 1504.97 2001.06 1673.6 1854.73 2010.91 2194.6 2168.93 1806.6 1805.18 1905.91 TRUE FALSE FALSE 1663.26965 2065.895657 1901.669492 1890.630981 1856.83451 2007.607734 1924.876288 1760.389788 1792.617605 1988.083107 0.836619779 1.039139485 0.956534204 0.950981865 0.933982339 1.00982083 0.968207154 0.885470925 0.901681423 1 10.95716235 -7.252113526 24.89622155 0.922848228 0.963536024 0.149770221 0.053749398 1384.278509 3695464.789 0.011627093 0.014129991 5.60E-08 7.252113526 0.040687796 AYSGS(ph)DLPSSSSGGANGTAGGGGGAR ddPTM_HeLa_SAHA_4h_R1 2 AYSGSDLPSSSSGGANGTAGGGGGAR 26 0 Q8NHG8 Q8NHG8 ZNRF2 E3 ubiquitin-protein ligase ZNRF2 1 0 AYS(0.101)GS(0.899)DLPSSSSGGANGTAGGGGGAR;AYS(0.108)GS(0.891)DLPSSSSGGANGTAGGGGGAR ; 275.65 1.66E-78 34337000 3145 3278.5 2978.5 2943.8 3125.4 3331.3 3477.2 3795.6 3237.4 3136.4 TRUE FALSE FALSE 3475.80553 3384.725551 3384.394469 3000.781506 2885.932527 3047.454499 3085.936305 3698.514048 3214.87067 3271.625553 1.062409335 1.03456997 1.034468772 0.917214228 0.882109667 0.931480223 0.943242512 1.130482076 0.98265239 1 11.67579192 -6.278299354 23.76526579 1.031023965 0.953912142 0.1744296 0.06527487 456.2830359 643160.5486 0.009937545 0.015208523 5.27E-07 6.278299354 -0.077111823 AYSS(ph)PSTTPEAR ddPTM_HeLa_SAHA_4h_R1 2 AYSSPSTTPEAR 12 0 G3V2R1;Q9UPU9-2;Q9UPU9-3;Q9UPU9 G3V2R1 SAMD4A Protein Smaug homolog 1 1 0 AYS(0.029)S(0.788)PS(0.114)T(0.066)T(0.003)PEAR;AYS(0.02)S(0.954)PS(0.012)T(0.014)TPEAR ; 167.84 9.59E-05 54508000 4805.2 4163.8 4059.6 4197.3 4378.2 4588.2 4447.6 4376.5 4613.9 3871.7 TRUE FALSE FALSE 5310.632983 4298.709852 4612.821147 4278.544811 4042.743262 4197.259547 3947.144343 4264.555467 4581.791494 4038.627935 1.314959701 1.064398583 1.142175318 1.059405541 1.001018991 1.039278591 0.977347853 1.055941655 1.134492102 1 11.97964953 -6.162856267 2.042193082 1.145938579 1.015937216 0.311648048 0.077878198 0.412952204 3.366609566 0.018837096 0.034236917 6.87E-07 6.162856267 -0.130001363 AYSSFGGGRGS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 AYSSFGGGRGSR 12 1 Q15056-2;Q15056 Q15056-2 EIF4H Eukaryotic translation initiation factor 4H 1 0 AYSSFGGGRGS(1)R 122.52 0.0062899 17315000 3685.7 3786.9 3794.3 4924.7 4537 4603.3 4848.1 4694.7 3328.2 3403.4 TRUE FALSE FALSE 4073.378837 3909.598045 4311.367444 5020.02469 4189.37604 4211.072943 4302.579028 4574.616372 3305.038785 3550.13723 1.147386304 1.101252654 1.214422757 1.4140368 1.18006031 1.186171877 1.211947243 1.288574519 0.930960853 1 11.79365908 -8.001546942 0.452148934 0.996343518 1.253459339 0.649956065 0.076896436 0.502750322 0.252203886 0.052524713 0.031010863 9.96E-09 8.001546942 0.257115821 AYT(ph)HQVVTR ddPTM_HeLa_SAHA_4h_R1 2 AYTHQVVTR 9 0 D6REC6;D6R9G1;D6RAD4;P50613 D6REC6 CDK7 Cyclin-dependent kinase 7 1 0 AYT(0.999)HQVVT(0.001)R;AYT(0.993)HQVVT(0.007)R ; 144.7 0.0011724 106779000 2822.3 4613.1 4066.1 2214.86 2423.5 4601.3 3003 4926.9 4656.9 4050.6 TRUE FALSE FALSE 3119.162463 4762.567467 4620.206933 2257.731818 2237.811954 4209.243354 2665.094537 4800.877032 4624.492254 4225.241189 0.738221163 1.127170558 1.09347768 0.534343891 0.529629399 0.996213746 0.630755599 1.136237393 1.094491899 1 12.04481798 -6.270906868 24.97386986 0.910843088 0.757674374 0.17581203 0.21675506 1199.96735 3165337.22 0.033311114 0.051297521 5.36E-07 6.270906868 -0.153168714 AYT(ph)PPPPLGPHPNLGK ddPTM_HeLa_SAHA_4h_R1 4 AYTPPPPLGPHPNLGK 16 0 J3QS41;P42694 J3QS41 HELZ Probable helicase with zinc finger domain 1 0 AY(0.003)T(0.997)PPPPLGPHPNLGK;AY(0.212)T(0.788)PPPPLGPHPNLGK;AY(0.033)T(0.967)PPPPLGPHPNLGK;AY(0.007)T(0.993)PPPPLGPHPNLGK ;;; 110.25 0.0021305 34103600 18642.2 18603.4 17940.3 20519.4 21403 21870.6 21064.6 21793.2 19318.4 18223 TRUE FALSE FALSE 20603.07213 19206.16237 20385.11065 20916.58266 19763.10676 20007.10184 18694.35577 21235.7615 19183.96168 19008.68271 1.083876902 1.010388918 1.072410485 1.100369919 1.039688392 1.052524372 0.983464033 1.117161132 1.009220995 1 14.21437094 -9.508672659 1.217783711 0.999530448 1.057911714 0.23617164 0.037968934 0.533395626 1.397315616 0.026349035 0.006152349 3.10E-10 9.508672659 0.058381267 AYT(ph)PVVVTLWYR ddPTM_HeLa_SAHA_4h_R1 2 AYTPVVVTLWYR 12 0 P21127;A0A0D9SEN2;A0A0D9SER5;A0A0D9SEI3;P21127-6;P21127-9;P21127-2;P21127-8;P21127-3;P21127-10;P21127-5;P21127-12;P21127-4 P21127 CDK11B Cyclin-dependent kinase 11B 1 0 AY(0.005)T(0.989)PVVVT(0.006)LWYR;AYT(0.988)PVVVT(0.012)LWYR ; 131.79 0.0017128 59085000 2725.2 4012 3782.8 4773.1 4971.1 2700.3 5042.4 854.2 3138.3 3035.3 TRUE FALSE FALSE 3011.84904 4141.991432 4298.300284 4865.490253 4590.215392 2470.219249 4475.015881 832.3508009 3116.460315 3166.166637 0.951260431 1.308203865 1.357572351 1.536713259 1.449770627 0.780192432 1.413386089 0.262889133 0.984300788 1 11.62852147 -2.961760746 13.93356338 1.067112246 1.079676757 0 0.371918216 0 0 0.04683248 0 0.001092042 2.961760746 0.012564511 AYTNFDAER ddPTM_HeLa_SAHA_4h_R1 4 AYTNFDAER 9 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YKS4;H0YMM1;H0YKX9;H0YMT9;H0YLV6;H0YKZ7;H0YMW4;H0YKL9;H0YKV8;H0YMD9;H0YNB8;H0YKN4 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ;;; ;;; 191.45 1.35E-06 186041800 8477.5 8784 9164.4 8756.8 9797.1 7920.3 10349.4 6449.91 5708.38 6794.4 FALSE FALSE TRUE 9369.202346 9068.607363 10413.27671 8926.300527 9046.448315 7245.445882 9184.858274 6284.930642 5668.654919 7087.339835 1.321963186 1.279550237 1.469278594 1.259471217 1.276423669 1.022308236 1.295952852 0.88678274 0.799828293 1 12.79102851 -4.249788727 24.1071016 1.198522061 0.88678243 0.194880277 0.18542051 1265.371306 2618179.418 0.023184439 0.483098846 5.63E-05 4.249788727 -0.311739631 AYTPSK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 AYTPSKR 7 1 Q8WWQ0 Q8WWQ0 PHIP PH-interacting protein 0 1 AYTPSK(1)R 124.59 0.0005589 4779900 2049.3 1920.8 2004 3152 3128.7 2448.9 3276.5 2485.7 896.48 1468.3 FALSE TRUE FALSE 2264.854777 1983.03518 2277.094684 3213.011518 2888.979682 2240.239943 2907.819597 2422.119393 890.2413227 1531.605599 1.478745428 1.294742708 1.486736981 2.097806067 1.886242571 1.462674167 1.898543332 1.581425006 0.581247107 1 10.58082912 -8.131458665 0.367554047 0.934222218 1.796578348 0.647505281 0.252233967 0.67379115 0.225409086 0.236965493 0.118970657 7.39E-09 8.131458665 0.86235613 AYTTGS(ph)PGSR ddPTM_HeLa_SAHA_4h_R1 1 AYTTGSPGSR 10 0 H3BMG9;H3BSV5;A0A0A0MTL6;Q6ZS17-2;Q6ZS17;Q6ZS17-3;Q6ZS17-4 H3BMG9 FAM65A Protein FAM65A 1 0 AYT(0.002)T(0.228)GS(0.77)PGS(0.001)R 96.756 0.012949 6620600 1604 1631.8 1421.3 1670.4 1397.3 2057.2 1677.5 1687 1759.8 1772.8 TRUE FALSE FALSE 1772.716079 1684.671391 1614.987362 1702.733007 1290.239176 1881.914987 1488.743285 1643.848983 1747.553409 1849.234084 0.958621786 0.91101035 0.873327707 0.92077743 0.697715442 1.017672669 0.805059402 0.888935045 0.945014708 1 10.85271214 -7.19453815 1.001499194 0.987905963 0.861338973 0.247053605 0.077900401 0.380032316 0.749063127 0.015078867 0.018554322 6.39E-08 7.19453815 -0.126566991 CAADLGLNK ddPTM_HeLa_SAHA_4h_R1 1 CAADLGLNK 9 0 P49773 P49773 HINT1 Histidine triad nucleotide-binding protein 1 0 0 127.02 0.0011104 0 596.86 886.09 583.1 514.58 591.3 606.65 617.05 567.9 623.58 514.19 FALSE FALSE TRUE 659.6404733 914.7998974 662.5618313 524.54044 545.9947217 554.9600071 547.61791 553.3739403 619.240456 536.3592473 1.229848234 1.705573087 1.235294879 0.977964755 1.017964591 1.034679666 1.020990899 1.031722569 1.154525552 1 9.067055815 -6.256648904 24.5894587 1.174214664 1.01797792 0.259735236 0.179439148 577.4446143 2964010.247 0.032358665 0.052537093 5.54E-07 6.256648904 -0.156236744 CAAPRPPSS(ph)SPEQR ddPTM_HeLa_SAHA_4h_R1 1 CAAPRPPSSSPEQR 14 1 H0YEN2;E9PQP7;H7BXH2;E9PKF6;Q5H9R7-4;Q5H9R7-6;Q5H9R7-2;Q5H9R7;Q5H9R7-5 H0YEN2 PPP6R3 Serine/threonine-protein phosphatase 6 regulatory subunit 3 1 0 CAAPRPPS(0.039)S(0.825)S(0.136)PEQR 87.138 0.0066939 24359000 728.16 985.77 767.7 850.33 913.88 983.73 834.6 942.73 1091.4 829.65 TRUE FALSE FALSE 804.7512097 1017.709595 872.318158 866.7893667 843.8587118 899.9106697 740.6886115 918.6163317 1083.804859 865.4202717 0.929896417 1.175971523 1.007970562 1.001582 0.975085446 1.039853929 0.855871576 1.06146847 1.252345125 1 9.757257105 -3.949316262 20.90760373 0.984273286 1.947124058 0 0.115037678 335.267512 327441.852 0.010406495 48138.87459 0.000112379 3.949316262 0.962850772 CAAPRPPSSS(ph)PEQR ddPTM_HeLa_SAHA_4h_R1 3 CAAPRPPSSSPEQR 14 1 H0YEN2;E9PQP7;H7BXH2;E9PKF6;Q5H9R7-4;Q5H9R7-6;Q5H9R7-2;Q5H9R7;Q5H9R7-5 H0YEN2 PPP6R3 Serine/threonine-protein phosphatase 6 regulatory subunit 3 1 0 CAAPRPPS(0.002)S(0.076)S(0.922)PEQR;CAAPRPPS(0.032)S(0.303)S(0.665)PEQR;CAAPRPPS(0.01)S(0.231)S(0.759)PEQR ;; 145.52 0.00051113 15590400 1201.29 1346.36 1205.61 1684.44 1285.76 1629.26 1584.21 1299.53 1660.91 1342.76 TRUE FALSE FALSE 1327.647194 1389.982947 1369.904252 1717.044772 1187.245347 1490.437882 1405.950521 1266.289904 1649.351592 1400.652955 0.947877338 0.992382119 0.97804688 1.225888801 0.847637056 1.064102194 1.003782212 0.904071133 1.177559071 1 10.45188382 -4.256258322 23.13569286 0.991756116 0.904071024 0.022273436 0.108476441 397.7848018 1776104.238 0.011570103 0.126675162 5.54E-05 4.256258322 -0.087685092 CALQNS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 CALQNSPR 8 0 E9PKY2;A0A0C4DFM7;Q5TAX3;X6R5G7;E9PRG2;Q5TAX3-2 E9PKY2 ZCCHC11 Terminal uridylyltransferase 4 1 0 CALQNS(1)PR;CALQNS(1)PR ; 102.06 0.0096464 14448800 5555 5134.6 4795.4 5466.8 6056.1 6336.5 6133.4 5733.6 5689.1 4939.6 TRUE FALSE FALSE 6139.300387 5300.964409 5448.892139 5572.617819 5592.082926 5796.594552 5443.25369 5586.942814 5649.50909 5152.57033 1.191502492 1.02880001 1.057509513 1.081521932 1.085299679 1.124990865 1.056415214 1.084302097 1.096444828 1 12.33107658 CALSSPS(ph)LAFTPPIK ddPTM_HeLa_SAHA_4h_R1 1 CALSSPSLAFTPPIK 15 0 Q8NFH5-2;Q8NFH5;Q8NFH5-3 Q8NFH5-2 NUP35 Nucleoporin NUP53 1 0 CALS(0.016)S(0.018)PS(0.899)LAFT(0.067)PPIK 72.848 0.02312 5694600 1950.8 2033.5 2140.5 2065.3 2356.5 2395.8 2417.7 2517.6 2108.8 1569.6 TRUE FALSE FALSE 2155.994095 2099.386734 2432.196193 2105.276868 2175.945479 2191.664362 2145.654033 2453.203437 2094.124689 1637.273137 1.31682005 1.28224588 1.485516459 1.285843406 1.32900579 1.338606437 1.310504634 1.498347088 1.279031972 1 10.6770793 -9.129737957 0.467935003 0.923997545 1.371336112 0.254858967 0.11116816 0.523643564 0.166248401 0.109793469 0.019637227 7.42E-10 9.129737957 0.447338567 CALSSPSLAFT(ph)PPIK ddPTM_HeLa_SAHA_4h_R1 1 CALSSPSLAFTPPIK 15 0 Q8NFH5-2;Q8NFH5;Q8NFH5-3 Q8NFH5-2 NUP35 Nucleoporin NUP53 1 0 CALSS(0.001)PS(0.122)LAFT(0.877)PPIK 133.04 0.0004081 5287200 2454.8 2582.3 2446.2 2768.8 2920 2937.8 3473.7 2575.6 2556.3 2433.3 TRUE FALSE FALSE 2713.007127 2665.968214 2779.555397 2822.394128 2696.270231 2687.482912 3082.830134 2509.719881 2538.5105 2538.211471 1.068865679 1.050333372 1.095084247 1.111961773 1.062271706 1.058809694 1.214567883 0.988774935 1.000117811 1 11.30959656 -8.897014254 0.347784244 0.975802041 1.09715349 0.270006591 0.054037953 2.230145493 0.439094849 0.106180948 0.024401715 1.27E-09 8.897014254 0.121351448 CAPSAGS(ph)PAAAVGR ddPTM_HeLa_SAHA_4h_R1 4 CAPSAGSPAAAVGR 14 0 Q7L2J0 Q7L2J0 MEPCE 7SK snRNA methylphosphate capping enzyme 1 0 CAPS(0.015)AGS(0.985)PAAAVGR;CAPS(0.016)AGS(0.984)PAAAVGR;CAPS(0.039)AGS(0.961)PAAAVGR;CAPS(0.001)AGS(0.999)PAAAVGR ;;; 180.3 1.55E-24 50981000 4877.6 5227.62 4482.46 5081.54 5274.41 6013.3 5508.51 4920.4 5366.48 5360.5 TRUE FALSE FALSE 5390.648347 5396.998318 5093.306305 5179.900555 4870.285845 5500.93301 4888.677957 4794.543293 5329.134229 5591.617389 0.964058871 0.965194494 0.910882478 0.926368919 0.870997693 0.983782084 0.874286922 0.857451961 0.95305774 1 12.44904993 -1 0.113810691 1.03993886 0.512088719 0.459045385 0.035231905 46.10641647 0.365151213 0.163354656 3.851004146 0.1 1 -0.527850141 GSADYSMEAK(ac)KR ddPTM_HeLa_SAHA_4h_R1 1 GSADYSMEAKKR 12 2 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726;A0A0D9SES8 H0YKH0 TLE3 Transducin-like enhancer protein 3 0 1 GSADYSMEAK(0.791)K(0.209)R 114.76 0.0016433 2539600 873.21 910.3 1020.7 1899.9 1613.8 1692.7 1929 1633.9 585.6 674.17 FALSE TRUE FALSE 965.0582342 939.7943173 1159.79568 1936.675312 1490.150993 1548.472437 1711.943843 1592.107204 581.5247619 703.236768 1.372309126 1.336383932 1.649225031 2.753944901 2.118989024 2.201921895 2.434377611 2.263970367 0.826925992 1 9.457866692 -6.531745527 2.996968563 1.191768437 2.336897747 0.86615781 0.225471208 0.065642883 1.207943536 0.034532257 0.052060205 2.94E-07 6.531745527 1.14512931 up CCANLTGGYMVMGDSFNTSLFK ddPTM_HeLa_SAHA_4h_R1 1 CCANLTGGYMVMGDSFNTSLFK 22 0 A0A2R8YFH5;Q15437 A0A2R8YFH5 SEC23B Protein transport protein Sec23B 0 0 42.529 0.0087576 0 578.59 732.28 697.06 574.61 807.59 734.86 862.07 878.57 663.8 784.88 FALSE FALSE TRUE 639.4487509 756.0063525 792.0517067 585.7324075 745.7126287 672.2457938 765.0676148 856.0974516 659.1805618 818.7200179 0.781034709 0.923400352 0.967426824 0.715424559 0.910827404 0.821093633 0.934467948 1.045653499 0.805135513 1 9.67722636 -4.351079574 3.395886487 0.885359139 1.052787609 0.274545801 0.085236512 0.330944273 6.151050935 0.013569809 0.122091169 4.46E-05 4.351079574 0.16742847 CCLTYCFNKPEDK ddPTM_HeLa_SAHA_4h_R1 1 CCLTYCFNKPEDK 13 1 P62979;A0A2R8Y422 P62979 RPS27A Ubiquitin-40S ribosomal protein S27a;Ubiquitin;40S ribosomal protein S27a 0 0 124.48 0.00064091 2425800 1102.5 1148.4 1257.9 1204 1242.8 1076.2 1274.9 1050.1 1262.8 1137 FALSE FALSE TRUE 1218.466008 1185.608913 1429.320061 1227.305161 1147.576932 984.5017055 1131.444897 1023.239963 1254.012072 1186.021634 1.027355634 0.999652012 1.20513827 1.034808409 0.96758516 0.830087476 0.953983354 0.862749829 1.057326473 1 10.21191461 -5.516784654 4.25959445 1.029043589 0.889469654 0.569498613 0.064896242 0.135300781 5.886083913 0.009553278 0.020902715 3.04E-06 5.516784654 -0.139573935 CCSGAIIVLT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 CCSGAIIVLTK 11 0 P14618;P14618-3;B4DNK4 P14618 PKM Pyruvate kinase PKM;Pyruvate kinase 1 0 CCSGAIIVLT(1)K 96.745 0.018308 3512400 1053.5 1117.7 854.22 1367.9 1230.8 1448 1383.9 952.46 1476.8 1098.9 TRUE FALSE FALSE 1164.311964 1153.914213 970.628653 1394.377683 1136.49637 1324.622254 1228.17993 928.0974523 1466.522829 1146.278957 1.015731779 1.006660906 0.846764784 1.21643835 0.991465789 1.155584551 1.071449425 0.809661075 1.279376909 1 10.16274246 -6.270068518 24.99714459 0.996593416 1.05290541 0 0.142641829 1506.820633 4365001.403 0.015931453 0.024600726 5.37E-07 6.270068518 0.056311994 CCSGAIIVLTK ddPTM_HeLa_SAHA_4h_R1 2 CCSGAIIVLTK 11 0 P14618;P14618-3;B4DNK4 P14618 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ; ; 180.07 4.27E-12 35142000 2220.06 2774.2 3702.6 3008.4 3261.9 3124.8 3672.5 1667.89 2491.8 2907.9 FALSE FALSE TRUE 2453.576097 2864.0859 4207.171046 3066.631932 3011.973927 2858.54946 3259.260635 1625.227789 2474.459361 3033.2738 0.808887116 0.944222675 1.387006688 1.010997402 0.992977926 0.942397439 1.074502616 0.535799897 0.815771844 1 11.56666001 -4.2521585 24.44675183 0.964898074 0.535799587 0.429756341 0.155514126 759.4667281 2000452.173 0.022791245 0.374653462 5.60E-05 4.2521585 -0.429098488 CCSGAIIVLTK(ac)SGR ddPTM_HeLa_SAHA_4h_R1 2 CCSGAIIVLTKSGR 14 1 P14618;P14618-3;B4DNK4 P14618 PKM Pyruvate kinase PKM;Pyruvate kinase 0 1 ; CCSGAIIVLTK(1)SGR;CCSGAIIVLTK(1)SGR 179.59 1.63E-11 4194700 646.53 1079.98 977.56 968.5 1241.97 976.75 1435.16 581.38 1024.78 1042.13 FALSE TRUE FALSE 714.5349918 1114.972061 1110.776786 987.246718 1146.810527 893.525405 1273.67202 566.5091414 1017.648473 1087.061324 0.657308816 1.025675402 1.021816121 0.908179415 1.054963967 0.82196412 1.171665288 0.521138163 0.936146333 1 10.08621761 -7.201911371 24.99997759 0.838172365 0.944415203 0.018757451 0.184506738 582.1738548 244495.4222 0.031726382 0.038856721 6.28E-08 7.201911371 0.106242838 CDAVMPPGRS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 CDAVMPPGRSR 11 1 K7EKX9;K7EN83;B4DKV7;Q8TE68-3;Q8TE68 K7EKX9 EPS8L1 Epidermal growth factor receptor kinase substrate 8-like protein 1 1 0 CDAVMPPGRS(1)R 126.66 0.015197 3260200 145.59 268.86 174.81 145.27 227.77 206.17 107.99 179.32 241.66 196.07 TRUE FALSE FALSE 160.9038242 277.5712404 198.6321964 148.0819109 210.3183118 188.6031561 95.83868099 174.7332541 239.9782684 204.5235372 0.786725217 1.357160375 0.971194803 0.72403359 1.028333045 0.922158685 0.468594873 0.854343008 1.173352816 1 7.676123073 -4.847851279 10.19818941 0.933316403 0.661976091 0.273624527 0.197971054 0.325739209 35.56363501 0.025652951 0.077165783 1.42E-05 4.847851279 -0.271340312 CDECGKT(ph)FQT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 CDECGKTFQTK 11 1 Q8TBZ5 Q8TBZ5 ZNF502 Zinc finger protein 502 2 0 CDECGKT(1)FQT(1)K 82.505 0.0048822 0 1249.2 1735.3 1267.4 1110.5 1424.4 1532.6 1884.7 1528.6 1524.3 1621.1 TRUE FALSE FALSE 1380.596588 1791.524859 1440.114672 1131.995333 1315.26278 1402.013858 1672.628596 1489.500625 1513.692272 1690.993554 0.81644107 1.059451027 0.851638179 0.669426167 0.777804727 0.829106565 0.989139545 0.880843467 0.89514964 1 10.72365545 -9.606289582 0.698938645 1.032083059 0.853583617 0.060733003 0.106549079 1.611105725 0.980012477 0.187833978 0.021807535 2.48E-10 9.606289582 -0.178499443 CDENILWLDYK ddPTM_HeLa_SAHA_4h_R1 4 CDENILWLDYK 11 0 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BQ34;H3BUW1;H3BTJ2 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;;; ;;; 191.53 5.53E-23 11506980 5432.58 4944.306 5370.14 6508.36 5984.8 7031.27 6291.22 5618.24 6161.47 5388.72 FALSE FALSE TRUE 6004.00369 5104.504758 6101.954713 6634.338719 5526.245917 6432.166239 5583.315368 5474.533556 6118.591829 5621.054091 1.06812772 0.908104543 1.085553459 1.180265945 0.983133382 1.14429894 0.993286184 0.973933619 1.088513245 1 12.45662498 -9.560627354 1.110658535 0.997778991 1.046540447 0 0.082625156 1.649311275 3.356519683 0.067335841 0.013085535 2.75E-10 9.560627354 0.048761456 CDEPILSNR ddPTM_HeLa_SAHA_4h_R1 1 CDEPILSNR 9 0 P30086 P30086 PEBP1 Phosphatidylethanolamine-binding protein 1;Hippocampal cholinergic neurostimulating peptide 0 0 128.12 0.0010099 0 707.54 793.05 733.17 715.58 761.39 951.33 818.98 806.55 1050.4 655.23 FALSE FALSE TRUE 781.9623035 818.7453403 833.0825894 729.4310856 703.0524627 870.271332 726.826215 785.9196189 1043.090181 683.4801719 1.14408923 1.1979065 1.218883332 1.067230793 1.028636223 1.27329419 1.063419606 1.149879179 1.526145489 1 9.416755675 -9.059732307 0.863624411 1.000721816 1.14180323 0 0.178855562 0.516832494 0.706015134 0.045094378 0.013892263 8.72E-10 9.059732307 0.141081414 CDGDASPPS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 1 CDGDASPPSPAR 12 0 E7EUV9;F8W8D3;Q14493 E7EUV9 SLBP Histone RNA hairpin-binding protein 1 0 CDGDAS(0.005)PPS(0.995)PAR 134.18 0.00088984 19707000 812.86 664.25 1020.5 1345.5 1349.1 950.14 1403.3 1523.5 806.51 719.21 TRUE FALSE FALSE 898.3603443 685.7721358 1159.568425 1371.544098 1245.732249 869.1827267 1245.396991 1484.531076 800.8974312 750.2186628 1.197464671 0.914096343 1.545640602 1.828192454 1.660492215 1.15857252 1.660045334 1.978797849 1.067551996 1 9.551167342 -6.670173648 5.920984889 1.082991206 1.634044346 0.660099498 0.208662703 0.107199639 5.67191166 0.033994556 0.048133007 2.14E-07 6.670173648 0.55105314 CDILVQEELLAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 CDILVQEELLASPK 14 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 CDILVQEELLAS(1)PK;CDILVQEELLAS(1)PK;CDILVQEELLAS(1)PK;CDILVQEELLAS(1)PK ;;; 203.99 3.77E-12 69420500 6178.7 10852.6 7435.7 8561.9 8807.6 9209.9 9002 6724.8 14009.8 8429 TRUE FALSE FALSE 6828.604015 11204.23136 8448.998473 8727.627955 8132.763591 8425.164707 7989.071268 6552.789353 13912.30466 8792.415441 0.776647107 1.274306411 0.960941681 0.992631435 0.9249749 0.958230962 0.908632141 0.745277495 1.582307473 1 13.10204384 -4.269788644 3.414207293 0.936882203 0.722536674 0 0.237572742 0.454227243 8.937199043 0.018985971 0.249471861 5.37E-05 4.269788644 -0.214345529 CDSRASTVSPGGY(ph)MVPK ddPTM_HeLa_SAHA_4h_R1 3 CDSRASTVSPGGYMVPK 17 1 Q5TGY3 Q5TGY3 AHDC1 AT-hook DNA-binding motif-containing protein 1 1 0 CDS(0.002)RAS(0.011)T(0.011)VS(0.071)PGGY(0.905)MVPK;CDSRASTVS(0.028)PGGY(0.971)MVPK;CDSRASTVS(0.006)PGGY(0.994)MVPK ;; 63.864 0.015954 315232600 12377.65 12005.5 10280.78 14562.8 12109.7 8906.08 14532.2 12399.5 13780.1 14601.4 TRUE FALSE FALSE 13679.58802 12394.48608 11681.79116 14844.68405 11181.8574 8147.23188 12896.99861 12082.33874 13684.20316 15230.93781 0.898144828 0.813770382 0.766977799 0.974640185 0.734154229 0.534913344 0.846763264 0.793276087 0.898447839 1 13.89471715 -7.296936906 0.408321843 1.002280264 0.728051982 0.320233874 0.104655491 0.688603117 0.3083137 0.057884553 0.065346302 5.05E-08 7.296936906 -0.274228282 CEFQDAYVLLSEK ddPTM_HeLa_SAHA_4h_R1 1 CEFQDAYVLLSEK 13 0 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 182.37 6.85E-16 478370 149.2 166.44 0 189.62 295.29 238.22 278.18 0 181.42 309.04 FALSE FALSE TRUE 164.8935406 171.8327652 0 193.2903693 272.664944 217.9223158 246.8784543 0 180.1574834 322.3642268 0.511513148 0.533039186 0 0.599602416 0.84582879 0.676012714 0.765837006 0 0.558863138 1 8.332547845 -9.038693715 0.805537114 1.003870678 0.507856778 0.052761986 0.301833289 0.627150236 0.73487001 0.186655031 0.055263302 9.15E-10 9.038693715 -0.4960139 CEFQDAYVLLSEKK ddPTM_HeLa_SAHA_4h_R1 1 CEFQDAYVLLSEKK 14 1 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 144.29 5.99E-05 1409800 285.8 222.56 410.4 313.73 273.45 285.64 394.26 344.11 255.54 424.71 FALSE FALSE TRUE 315.8617553 229.77109 466.3271747 319.8026978 252.4983201 261.301865 349.8968272 335.3081645 253.7616763 443.0213266 0.712971896 0.518645664 1.052606605 0.721867501 0.569946197 0.589817802 0.789796802 0.756866869 0.572797879 1 8.79123234 -9.163099818 0.669725977 1.026320379 0.70980016 0 0.193322041 0.787515816 0.56381978 0.14329025 0.030738752 6.87E-10 9.163099818 -0.316520219 CELLYEGPPDDEAAMGIK ddPTM_HeLa_SAHA_4h_R1 3 CELLYEGPPDDEAAMGIK 18 0 P13639 P13639 EEF2 Elongation factor 2 0 0 ;; ;; 183.89 1.87E-09 12401800 2939.47 2710.93 2587.64 3053.66 3261.6 3396.96 2914.49 3198.54 3652.34 2739.87 FALSE FALSE TRUE 3248.656941 2798.765911 2940.270103 3112.768005 3011.696913 3107.519897 2586.543915 3116.725978 3626.923069 2857.999204 1.136689239 0.979274559 1.028786187 1.089142362 1.053778079 1.087306075 0.905019116 1.090527238 1.269042715 1 11.4807898 CFSIDNPGYEPEVVAVHPGGDTVAIGGVDGNVR ddPTM_HeLa_SAHA_4h_R1 1 CFSIDNPGYEPEVVAVHPGGDTVAIGGVDGNVR 33 0 O75083;O75083-3 O75083 WDR1 WD repeat-containing protein 1 0 0 176.52 2.47E-24 4391500 391.64 512.38 324.89 372.19 515.04 429.57 522.11 528.58 595.27 352.62 FALSE FALSE TRUE 432.8344921 528.9814482 369.1643172 379.3942756 475.5777465 392.9682193 463.3608087 515.059689 591.1274676 367.8231739 1.176746118 1.438140622 1.003646163 1.031458327 1.292952104 1.068361776 1.259737944 1.400291568 1.60709686 1 8.522868566 -13.52287875 0.153268416 0.226283595 1.270010274 0 0.236222264 71.3749902 0.740653877 16.55221405 0.307548768 3.00E-14 13.52287875 1.043726678 CGDLEEELKNVTNNLK ddPTM_HeLa_SAHA_4h_R1 1 CGDLEEELKNVTNNLK 16 1 P67936;A0A2R8Y5V9;A0A2R8YH90;P67936-2;K7ENT6;A0A2R8YE05;A0A2R8YGX3;A0A2R8YHD2;A0A2R8YEU4;A0A5F9UN72;K7EPB9 P67936 TPM4 Tropomyosin alpha-4 chain 0 0 95.854 0.0073856 454370 82.454 246.32 201.17 183.05 131.84 133.68 0 0 145.4 0 FALSE FALSE TRUE 91.12689003 254.3009296 228.5844 186.5931974 121.7384477 122.2897119 0 0 144.3881496 0 0 CGEDDETIPSEYR ddPTM_HeLa_SAHA_4h_R1 1 CGEDDETIPSEYR 13 0 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;F8W7E0;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;P20810-2;E9PCH5;P20810-3;H0Y7F0;H0Y9H6;E7EQ12;E7EQA0;H0YD33;A0A0A0MR45;D6RAA8 P20810-6 CAST Calpastatin 0 0 152.54 0.00082861 2793700 298.42 467.36 374.21 429.68 521.38 551.44 380.52 421.57 566.58 480.2 FALSE FALSE TRUE 329.8091848 482.5027706 425.20539 437.9970777 481.431977 504.4542097 337.7028881 410.7868498 562.6371236 500.903772 0.658428232 0.963264398 0.848876398 0.874413614 0.961126675 1.007088063 0.674187153 0.820091348 1.123243934 1 8.968389666 -9.753481843 1.705603227 1.000089202 0.822470622 0.277341269 0.11948776 0.475152896 2.500280206 0.092702645 0.019935811 1.76E-10 9.753481843 -0.17761858 CGGVEQASSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 6 CGGVEQASSSPR 12 0 Q5VZL5-2;Q5VZL5-4;Q5VZL5;H7C1I7;Q5VZL5-3 Q5VZL5-2 ZMYM4 Zinc finger MYM-type protein 4 1 0 CGGVEQAS(0.013)S(0.105)S(0.881)PR;CGGVEQAS(0.021)S(0.129)S(0.849)PR;CGGVEQASS(0.003)S(0.996)PR;CGGVEQASS(0.009)S(0.991)PR;CGGVEQAS(0.014)S(0.108)S(0.878)PR;CGGVEQAS(0.023)S(0.094)S(0.883)PR ;;;;; 164.22 9.05E-08 68980900 12409.24 12364.73 10038.58 12042.45 12167.99 14715.57 12648.52 12952.18 11415.32 11456.84 TRUE FALSE FALSE 13714.5008 12765.35536 11406.5854 12275.54903 11235.68123 13461.72065 11225.27524 12620.88199 11335.87986 11950.80044 1.147580103 1.068159027 0.954462043 1.027173794 0.940161397 1.126428369 0.939290661 1.056070014 0.948545657 1 13.54481963 -6.879325055 10.60934933 1.071684553 1.007480576 0 0.07413047 0.486131833 42.9912924 0.011666289 0.015338208 1.32E-07 6.879325055 -0.064203976 CGMEPGGGDASLTLHGLQNRS(ph)HGK ddPTM_HeLa_SAHA_4h_R1 1 CGMEPGGGDASLTLHGLQNRSHGK 24 1 H3BRK6;H3BQU3;H3BS45;F5H1S1;Q92521 H3BRK6 PIGB GPI mannosyltransferase 3 1 0 CGMEPGGGDAS(0.001)LT(0.001)LHGLQNRS(0.997)HGK 47.75 0.017659 7411100 167.76 408.04 281.87 416.66 414.28 450.59 432.53 380.66 283.2 428.58 TRUE FALSE FALSE 185.4057665 421.2607637 320.2817757 424.7250568 382.5379559 412.197197 383.860586 370.9232684 281.2291881 447.0581812 0.414724021 0.942295167 0.716420791 0.950044255 0.855678236 0.922021371 0.858636755 0.829697977 0.629066193 1 8.804318789 -6.273965669 23.59047133 0.735988072 0.882476231 0.176250179 0.154107735 700.872644 1319935.717 0.034377258 0.052770337 5.32E-07 6.273965669 0.146488159 CGSGPVHISGQHLVAVEEDAES(ph)EDEEEEDVK ddPTM_HeLa_SAHA_4h_R1 4 CGSGPVHISGQHLVAVEEDAESEDEEEEDVK 31 0 P06748;P06748-3;P06748-2;E5RI98 P06748 NPM1 Nucleophosmin 1 0 CGSGPVHISGQHLVAVEEDAES(1)EDEEEEDVK;CGSGPVHIS(0.002)GQHLVAVEEDAES(0.998)EDEEEEDVK;CGSGPVHISGQHLVAVEEDAES(1)EDEEEEDVK;CGSGPVHISGQHLVAVEEDAES(1)EDEEEEDVK ;;; 120.92 6.88E-12 328482200 1577.84 3114.27 2320.87 3129.75 3460.09 8534.2 3167.38 2955.59 4369.66 3133.03 TRUE FALSE FALSE 1743.804451 3215.174391 2637.146077 3190.330837 3194.978652 7807.038148 2810.978066 2879.990287 4339.25118 3268.110256 0.533581891 0.983802301 0.80693302 0.976200491 0.977622663 2.388853966 0.860123388 0.881240246 1.327755443 1 11.67424094 -5.507076191 24.88413013 0.812996748 1.384771034 0.1325391 0.443942237 667.5711586 1051216.822 0.059656362 0.129758489 3.11E-06 5.507076191 0.571774286 CGSPS(ph)DSSTTEEMEVAVSK ddPTM_HeLa_SAHA_4h_R1 1 CGSPSDSSTTEEMEVAVSK 19 0 P31751;P31751-2;M0R0P9;C9JHS6;J3QLS6;M0QZK3;J3QKW1;M0R275 P31751 AKT2 RAC-beta serine/threonine-protein kinase 1 0 CGS(0.367)PS(0.617)DS(0.005)S(0.004)T(0.005)T(0.001)EEMEVAVSK 107.03 0.001006 3539800 1542.8 1749 1667.3 1865.1 1800.5 2050.7 2245.6 2189.9 1858 1688.4 TRUE FALSE FALSE 1705.078783 1805.668748 1894.510961 1901.201707 1662.546079 1875.968823 1992.919178 2133.885529 1845.070027 1761.195187 0.968137317 1.02525192 1.075696195 1.079495176 0.943987408 1.065168039 1.13157201 1.211612174 1.047623818 1 10.78233909 -1 0.463411836 0.990900235 6.686902255 0.604959042 0.046762879 33.17810643 0.347833613 0.009627244 181.7265528 0.1 1 5.696002019 CHGT(ph)QCGFCTPGMVMS(ph)IY(ph)TLLR ddPTM_HeLa_SAHA_4h_R1 1 CHGTQCGFCTPGMVMSIYTLLR 22 0 C9J244;Q06278 C9J244 AOX1 Aldehyde oxidase 3 0 CHGT(0.943)QCGFCT(0.084)PGMVMS(0.91)IY(0.9)T(0.163)LLR 44.641 0.0086654 0 0 81.138 74.375 0 149.62 161.9 0 0 0 0 TRUE FALSE FALSE 0 83.76692444 84.51043767 0 138.1561479 148.1052092 0 0 0 0 0 ADSEQPSK(ac)RPR ddPTM_HeLa_SAHA_4h_R1 2 ADSEQPSKRPR 11 2 A0A2R8YCS7;Q9Y3Z3-3;Q9Y3Z3-4;Q9Y3Z3;A0A2R8Y7R5;A0A2R8Y755;A0A2R8Y586;A0A2R8YF51;A0A2R8Y5D2 A0A2R8YCS7 SAMHD1 Deoxynucleoside triphosphate triphosphohydrolase SAMHD1 0 1 ; ADSEQPSK(1)RPR;ADSEQPSK(1)RPR 103.43 0.0040324 5602800 1480.57 1928.39 2357.4 4128.4 4555.4 5080.5 4819.2 4667.4 1212.33 1108.77 FALSE TRUE FALSE 1636.303146 1990.871101 2678.654195 4208.311152 4206.366236 4647.612818 4276.930933 4548.014666 1203.893297 1156.574501 1.414784041 1.72135137 2.316023908 3.638599285 3.636917668 4.018429262 3.697929471 3.932314488 1.040912882 1 10.17564249 -6.511841813 1.206000384 1.172463079 3.896011769 0.983316232 0.154875413 0.040075791 0.116363921 0.030772401 0.053036647 3.08E-07 6.511841813 2.72354869 up CIACQAAKLS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 CIACQAAKLSPR 12 1 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 CIACQAAKLS(1)PR;CIACQAAKLS(1)PR ; 82.515 0.011505 48562000 6120.9 4844.1 6032.5 6077.5 6506.8 4888.5 6928.4 4764.6 4130.4 6285 TRUE FALSE FALSE 6764.724346 5001.052018 6854.577684 6195.138801 6008.25039 4471.972298 6148.798197 4642.728431 4101.65621 6555.977108 1.031840751 0.762823289 1.045546312 0.944960408 0.916453839 0.682121402 0.937891957 0.708167273 0.62563614 1 12.6785951 -5.301793935 0.434586351 1.016043347 0.702059858 0 0.159477144 1.64934548 0.375042658 0.027297372 0.231759057 4.99E-06 5.301793935 -0.313983489 CIFMSETQSS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 2 CIFMSETQSSPTK 13 0 B4DGW0;A0A087WUY7;O75928-2;O75928 B4DGW0 PIAS2 E3 SUMO-protein ligase PIAS2 1 0 CIFMSETQS(0.16)S(0.84)PTK;CIFMSETQS(0.019)S(0.98)PTK ; 208.68 2.01E-11 8063500 2797.4 3421.58 2406.87 2996.86 3086.23 3632.6 3161.4 2653.13 4211.8 3123.81 TRUE FALSE FALSE 3091.643367 3532.441437 2734.865709 3054.868559 2849.763724 3323.082044 2805.670952 2585.266776 4182.489741 3258.492737 0.948795537 1.084072215 0.839303914 0.937509703 0.874565007 1.019821835 0.861033361 0.793393445 1.283565771 1 11.66998906 -1.817491917 0.32962359 0.982974191 3.97E-21 0.256116963 0.117355435 24.51581605 0.514011389 0.02130409 13.53109332 0.015223275 1.817491917 -0.982974191 CIPALDSLTPANEDQK ddPTM_HeLa_SAHA_4h_R1 2 CIPALDSLTPANEDQK 16 0 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ; ; 265.22 1.93E-84 1951100 665.249 684.76 746.62 502.36 940.76 349.73 1191.26 830.83 803.61 840.48 FALSE FALSE TRUE 735.2229421 706.9466733 848.3654854 512.0839042 868.679172 319.9310365 1057.21629 809.5785716 798.0176126 876.717206 0.838609003 0.806356563 0.967661499 0.584092454 0.990831669 0.364919308 1.205880622 0.923420421 0.910233776 1 9.775967752 -9.027815462 0.687746649 1.008207242 0.830290762 0.039719272 0.21891182 1.701777854 1.385625496 0.17054146 0.044306905 9.38E-10 9.027815462 -0.17791648 CLEEFELLGK ddPTM_HeLa_SAHA_4h_R1 1 CLEEFELLGK 10 0 Q99613-2;Q99613;B5ME19;H3BPE4;H3BPE3;H3BTY8 Q99613-2 EIF3C;EIF3CL Eukaryotic translation initiation factor 3 subunit C;Eukaryotic translation initiation factor 3 subunit C-like protein 0 0 123.35 1.26E-05 0 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 CLELFSELAEDKENYKK ddPTM_HeLa_SAHA_4h_R1 1 CLELFSELAEDKENYKK 17 2 P08238 P08238 HSP90AB1 Heat shock protein HSP 90-beta 0 0 99.161 0.0028354 1571700 255.13 564.65 861.87 597.93 604.96 626.29 1042.7 530.73 720.96 699.51 FALSE FALSE TRUE 281.965744 582.9450305 979.3211552 609.5037998 558.6080955 572.9265686 925.3726518 517.1546951 715.9427807 729.6692994 0.386429502 0.798916757 1.34214384 0.835315122 0.76556338 0.785186617 1.268208286 0.708752164 0.981188028 1 9.511098944 -6.991386819 24.99141895 0.704069661 0.954618416 0.056488398 0.255521353 298.3724193 865732.6299 0.047177671 0.061951503 1.02E-07 6.991386819 0.250548755 CLLADLPLPPELPGGDDLS(ph)KSPEEK ddPTM_HeLa_SAHA_4h_R1 2 CLLADLPLPPELPGGDDLSKSPEEK 25 1 Q14004-2;Q14004;A0A2R8Y7W5;A0A2R8Y4Z0;A0A2R8YCQ1;A0A2R8YF61;A0A2R8Y7Y0;A0A2R8YD28;Q9BVE2;A0A087X209 Q14004-2 CDK13 Cyclin-dependent kinase 13 1 0 CLLADLPLPPELPGGDDLS(0.849)KS(0.151)PEEK;CLLADLPLPPELPGGDDLS(0.5)KS(0.5)PEEK ; 90.974 1.61E-05 80004000 3306.9 3676.8 3289.1 3564.2 3676.7 3926.4 3945.9 4114.1 4236.7 3722.8 TRUE FALSE FALSE 3654.734915 3795.930732 3737.321419 3633.190245 3394.99204 3591.848631 3501.896947 4008.867279 4207.21646 3883.308127 0.941139563 0.977499237 0.962406612 0.935591544 0.874252552 0.924945565 0.901781891 1.032333039 1.083410413 1 11.92307047 -6.289333657 3.685678773 0.971652961 0.927819103 0.182056177 0.053646542 0.29863928 8.782065652 0.00647568 0.010439525 5.14E-07 6.289333657 -0.043833858 CLPTSDSS(ph)PEPQQPPEDR ddPTM_HeLa_SAHA_4h_R1 1 CLPTSDSSPEPQQPPEDR 18 0 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 CLPTSDS(0.032)S(0.968)PEPQQPPEDR 220.34 5.21E-22 5197800 416.64 439.87 459.46 482.98 774.03 639.9 606.17 588.84 563.48 611.69 TRUE FALSE FALSE 460.4641068 454.1220766 522.072816 492.3287763 714.7239886 585.37692 537.9621562 573.7783254 559.5586968 638.0629494 0.721659371 0.711719866 0.818215219 0.771599067 1.120146514 0.917428164 0.843117684 0.899250342 0.876964722 1 9.317554953 CLQEGAEIS(ph)SPAVER ddPTM_HeLa_SAHA_4h_R1 1 CLQEGAEISSPAVER 15 0 E7ES68;G5E9D5;Q9BQ52;Q9BQ52-3;Q9BQ52-4 E7ES68 ELAC2 Zinc phosphodiesterase ELAC protein 2 1 0 CLQEGAEIS(0.5)S(0.5)PAVER 123.76 9.56E-05 0 388.7 453.56 524.86 391.19 530.83 471.03 621.32 457.83 536.59 411.31 TRUE FALSE FALSE 429.5852494 468.2556416 596.3851874 398.7620481 490.1579201 430.8955941 551.4074384 446.1193715 532.8558265 429.043587 1.001262488 1.091394105 1.390034033 0.929420833 1.14244318 1.004316594 1.285201446 1.03979965 1.241961989 1 8.74498041 -7.181641147 4.754501479 1.000578359 1.132356435 0 0.146614011 0.257361645 10.57766672 0.019311779 0.023673552 6.58E-08 7.181641147 0.131778076 CLTT(ph)VEVLS(ph)FSSIT(ph)FPMIGTGSLQFPK ddPTM_HeLa_SAHA_4h_R1 1 CLTTVEVLSFSSITFPMIGTGSLQFPK 27 0 Q460N3 Q460N3 PARP15 Poly [ADP-ribose] polymerase 15 3 0 CLT(0.466)T(0.501)VEVLS(0.648)FS(0.202)S(0.206)IT(0.777)FPMIGT(0.15)GS(0.05)LQFPK 44.616 0.0081538 0 197.97 203.92 190.63 269.11 348.95 315.71 372.13 256.94 281.59 139.76 TRUE FALSE FALSE 218.7933929 210.5271418 216.6080636 274.3190132 322.2135264 288.8097319 330.256953 250.3678468 279.6303923 145.7857376 1.500787365 1.444085994 1.485797358 1.881658781 2.210185521 1.981056149 2.265358454 1.717368592 1.918091556 1 7.187705775 -7.057725762 0.350217876 0.998395382 2.187987376 0.204686759 0.329422654 0.417288408 0.142936997 0.13339623 0.18617472 8.76E-08 7.057725762 1.189591994 CLYASVLTAQPR ddPTM_HeLa_SAHA_4h_R1 1 CLYASVLTAQPR 12 0 P13639 P13639 EEF2 Elongation factor 2 0 0 169.99 2.04E-10 15226000 1664.6 1862.7 2532.6 2267.3 2258.8 1274.6 2485.7 1083.4 807.1 1263.5 FALSE FALSE TRUE 1839.690265 1923.052702 2877.729539 2311.18687 2085.731232 1165.996909 2206.002494 1055.688197 801.4833254 1317.975668 1.395845393 1.459095754 2.183446635 1.75358842 1.582526356 0.884687735 1.673780895 0.800992175 0.608116936 1 10.36410802 -8.584663177 0.914961866 1.039383483 1.488521526 0.260912401 0.404950222 0.658122928 1.120867609 0.154342529 0.079167217 2.60E-09 8.584663177 0.449138043 CMIDQAHQEERPIR ddPTM_HeLa_SAHA_4h_R1 1 CMIDQAHQEERPIR 14 1 A0A087WVB9;K7ERF1;Q9UBQ5;K7ES31;K7EQM4;Q9UBQ5-2 A0A087WVB9 EIF3K Eukaryotic translation initiation factor 3 subunit K 0 0 86.114 0.011358 7566200 1328.7 1176.2 1514.6 1900.6 1502.7 1641.5 1537.9 1693.1 1894.7 1568.8 FALSE FALSE TRUE 1468.458762 1214.309652 1721.0018 1937.388861 1387.563451 1501.634965 1364.851444 1649.792954 1881.514628 1636.438646 0.897350332 0.742044106 1.051675115 1.183905591 0.847916574 0.917623749 0.834037651 1.008160592 1.149761791 1 10.6763438 -5.661495077 0.006643214 1.862700777 4.38E-05 0.027834311 0.132289695 33502.86928 61.78856387 8436.851759 8889.539689 2.18E-06 5.661495077 -1.862656965 CMPTFQFFK ddPTM_HeLa_SAHA_4h_R1 3 CMPTFQFFK 9 0 P10599;P10599-2 P10599 TXN Thioredoxin 0 0 ;; ;; 149.94 9.80E-05 2352200 856.81 791 3218.77 1998.07 1409.97 199.015 1852.992 165.64 258.93 436.52 FALSE FALSE TRUE 946.933207 816.628919 3657.407213 2036.745534 1301.938403 182.0578024 1644.488463 161.4031686 257.128085 455.3405135 2.079615538 1.793446651 8.032246428 4.47301629 2.859263265 0.399827815 3.611557537 0.354466962 0.564694064 1 8.830802017 CMPTFQFFKK ddPTM_HeLa_SAHA_4h_R1 2 CMPTFQFFKK 10 1 P10599;P10599-2 P10599 TXN Thioredoxin 0 0 ; ; 105.17 0.0028737 1406540 737.44 346.92 680.12 600.41 643.28 316.09 802.43 543.04 585.13 477.32 FALSE FALSE TRUE 815.0073227 358.1604356 772.8032117 612.0318038 593.9920254 289.1573537 712.1384645 529.1498231 581.0580327 497.8996011 1.636890893 0.719342684 1.552126593 1.229227343 1.192995584 0.580754339 1.430285268 1.062764103 1.167018474 1 8.959711049 -5.510815555 24.30570899 1.27319639 1.035453888 0.05541088 0.311136998 773.7919517 1559083.464 0.048545012 0.103372376 3.08E-06 5.510815555 -0.237742501 CMVEVPQELETS(ph)TGHSLEK ddPTM_HeLa_SAHA_4h_R1 2 CMVEVPQELETSTGHSLEK 19 0 Q32MZ4-3;Q32MZ4-2;Q32MZ4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 CMVEVPQELET(0.113)S(0.71)T(0.113)GHS(0.065)LEK;CMVEVPQELET(0.2)S(0.729)T(0.031)GHS(0.041)LEK ; 90.193 0.0016123 6808200 2148.03 3964.9 2570.8 2799.3 4181.9 4152.3 3531.1 3176.6 4512.6 3438 TRUE FALSE FALSE 2373.969651 4093.365361 2921.135236 2853.484499 3861.483725 3798.50068 3133.771335 3095.347172 4481.196449 3586.229005 0.661968226 1.141412151 0.814542304 0.795678272 1.076753247 1.059190775 0.873834697 0.863120333 1.249556691 1 11.8082519 -5.777360315 24.99638125 0.856797518 0.967980224 0 0.184190577 450.9803878 708053.1238 0.024271796 0.044100959 1.67E-06 5.777360315 0.111182706 CNEIINWLDK ddPTM_HeLa_SAHA_4h_R1 1 CNEIINWLDK 10 0 P11142;E9PKE3;E9PNE6;A8K7Q2;E9PS65;E9PM13 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 102.4 0.014206 485500 91.711 75.477 0 288.82 286.01 226.94 0 167.56 198.52 174.61 FALSE FALSE TRUE 101.3575838 77.92250432 0 294.4105287 264.0959756 207.6034353 0 163.2740578 197.1384832 182.1382916 0.556486958 0.427820551 0 1.616412047 1.449975034 1.139812136 0 0.896429062 1.082356057 1 7.508890447 -9.623907241 1.485260062 0.997993441 0.732822444 0.040342842 0.519147532 1.44264461 5.784606926 0.368914968 0.087195987 2.38E-10 9.623907241 -0.265170997 CPGNITEESHDSVY(ph)S(ph)S(ph)VT(ph)QNR ddPTM_HeLa_SAHA_4h_R1 2 CPGNITEESHDSVYSSVTQNR 21 0 Q9P2P6 Q9P2P6 STARD9 StAR-related lipid transfer protein 9 4 0 CPGNITEESHDS(0.013)VY(0.988)S(0.999)S(1)VT(1)QNR;CPGNIT(0.001)EES(0.001)HDS(0.008)VY(0.993)S(0.999)S(0.999)VT(0.999)QNR ; 58.418 0.006214 52188000 0 71.976 0 0 0 62.908 124.66 0 0 123.55 TRUE FALSE FALSE 0 74.30806963 0 0 0 57.54788449 110.6329287 0 0 128.8768451 0 0.576582004 0 0 0 0.446533933 0.858439145 0 0 1 7.009849273 -9.406315685 1.039410642 1.016758697 0.23000905 0 0.419927163 0.380059747 0.708920563 0.227178417 0.052928242 3.92E-10 9.406315685 -0.786749647 CPQEGFDHRDS(ph)KVSLQEK ddPTM_HeLa_SAHA_4h_R1 1 CPQEGFDHRDSKVSLQEK 18 2 Q16655 Q16655 MLANA Melanoma antigen recognized by T-cells 1 1 0 CPQEGFDHRDS(0.569)KVS(0.431)LQEK 44.998 0.0219 8645700 1576 1685.7 1992.6 1870.5 1717.5 670.65 2187.8 1392.8 1678 1950.2 TRUE FALSE FALSE 1741.770911 1740.317786 2264.141151 1906.706232 1585.905521 613.506847 1941.622986 1357.174193 1666.322661 2034.282666 0.856208894 0.855494576 1.112992402 0.937286771 0.779589556 0.301583874 0.954450932 0.667151235 0.819120513 1 10.99030444 -5.598514726 4.68566529 0.938676617 0.653298818 0.374965004 0.166906023 0.155952511 6.400899651 0.022994628 0.047325664 2.52E-06 5.598514726 -0.285377799 CPS(ph)PTMSLPSSWK ddPTM_HeLa_SAHA_4h_R1 3 CPSPTMSLPSSWK 13 0 Q8N3V7-2;Q8N3V7-3;Q8N3V7 Q8N3V7-2 SYNPO Synaptopodin 1 0 CPS(0.688)PT(0.294)MS(0.018)LPSSWK;CPS(0.841)PT(0.145)MS(0.01)LPS(0.003)S(0.001)WK;CPS(0.5)PT(0.5)MSLPSSWK ;; 120.6 0.0011312 39871000 3104.49 4527.6 3582.69 3459.29 4495.34 4858.53 4345.34 3535.95 5490.6 3479.53 TRUE FALSE FALSE 3431.034502 4674.297211 4070.920335 3526.24956 4150.90802 4444.555911 3856.390907 3445.505519 5452.390468 3629.549567 0.945305868 1.287844986 1.121604833 0.971539166 1.143642742 1.224547517 1.062498483 0.949292868 1.502222347 1 11.8255748 CPSIAAAIAAVNALHGR ddPTM_HeLa_SAHA_4h_R1 1 CPSIAAAIAAVNALHGR 17 0 Q14498-2;Q14498;Q14498-3 Q14498-2 RBM39 RNA-binding protein 39 0 0 141.34 2.16E-06 648660 153.76 262.23 287.76 0 215.75 352.75 312.17 123.58 250.95 318.87 FALSE FALSE TRUE 169.9331823 270.7264241 326.9744342 0 199.2192816 322.6937155 277.04381 120.4190025 249.2036185 332.6180462 0.510895859 0.813925844 0.983032755 0 0.598943094 0.970162982 0.832918758 0.362033882 0.749218575 1 8.377722634 -9.446425222 1.056895942 1.010247366 0.634326946 0.07363435 0.292435104 0.76704018 1.46342611 0.224482579 0.05002055 3.58E-10 9.446425222 -0.37592042 CPSLDNLAVPES(ph)PGVGGGK ddPTM_HeLa_SAHA_4h_R1 1 CPSLDNLAVPESPGVGGGK 19 0 O14686;O14686-3 O14686 KMT2D Histone-lysine N-methyltransferase 2D 1 0 CPSLDNLAVPES(1)PGVGGGK 139.17 8.95E-05 4734800 767.91 1017.3 668.31 661.58 791.92 850.01 1108.3 880.59 863.84 975.64 TRUE FALSE FALSE 848.6822971 1050.261187 759.3838064 674.3858376 731.2432607 777.584366 983.5911671 858.0657829 857.8284671 1017.704615 0.833918098 1.031990198 0.746173099 0.662653807 0.718522103 0.76405703 0.966480011 0.843138343 0.842905156 1 9.99110317 -8.87375487 0.448303673 1.026632772 0.802062028 0.07430561 0.113548641 1.517871149 0.508295523 0.153242866 0.036422855 1.34E-09 8.87375487 -0.224570745 CPT(ph)PDFEDLPER ddPTM_HeLa_SAHA_4h_R1 1 CPTPDFEDLPER 12 0 H7C4C9;Q3B820-2;Q3B820;Q3B820-3 H7C4C9 FAM161A Protein FAM161A 1 0 CPT(1)PDFEDLPER 92.295 0.019426 2712400 246.44 387.75 356.13 470.92 222.95 551.61 267.28 290.49 398.72 271.29 TRUE FALSE FALSE 272.3616899 400.3133544 404.6615418 480.0353376 205.8676192 504.6097247 237.204951 283.0596864 395.9452751 282.9866396 0.962454236 1.414601605 1.42996695 1.696318025 0.727481762 1.783157415 0.838219611 1.000258128 1.399165967 1 8.144590132 -7.277497316 23.56211266 0.982270034 1.274813621 0 0.349251929 508.4157116 746006.0481 0.051910556 0.059483322 5.28E-08 7.277497316 0.292543587 CPT(ph)PVGDGSSSR ddPTM_HeLa_SAHA_4h_R1 2 CPTPVGDGSSSR 12 0 Q5TGY3 Q5TGY3 AHDC1 AT-hook DNA-binding motif-containing protein 1 1 0 CPT(1)PVGDGSSSR;CPT(0.454)PVGDGS(0.454)S(0.084)S(0.008)R ; 151.16 0.00060339 11819200 2113.92 2071.38 1911.09 2120.9 2271.8 2043.67 2404 2330.1 2355.6 1975.6 TRUE FALSE FALSE 2336.271805 2138.494071 2171.523393 2161.953086 2097.735175 1869.537819 2133.495593 2270.499416 2339.207188 2060.777784 1.133684487 1.037712114 1.053739714 1.049095687 1.01793371 0.907200103 1.035286584 1.101768193 1.135108892 1 11.00897323 -5.809367756 3.659466218 1.061328614 1.008748234 0.15500835 0.058965739 0.391620246 10.7960941 0.009851507 0.019142005 1.55E-06 5.809367756 -0.052580381 CQLEINFNTLQTK ddPTM_HeLa_SAHA_4h_R1 2 CQLEINFNTLQTK 13 0 O43707;O43707-2;K7EJH8;F6THM6;P12814-4;P12814-3;P12814;P12814-2;H9KV75;P35609-2;P35609;A0A494C1A0;Q08043;A0A087WSZ2 O43707;P12814-4 ACTN4;ACTN2;ACTN1;ACTN3 Alpha-actinin-4;Alpha-actinin-1;Alpha-actinin-2;Alpha-actinin-3 0 0 ; ; 274.59 4.24E-85 3652100 1146.52 929.28 1277.46 1413.73 1211.82 1369.72 1506.1 1000.12 1293.88 1225.92 FALSE FALSE TRUE 1267.116234 959.3892817 1451.545596 1441.094788 1118.970613 1253.01215 1336.629664 974.5383786 1284.875784 1278.775411 0.990882545 0.750240639 1.135105965 1.126933452 0.875032945 0.979853178 1.045241919 0.762087205 1.00477048 1 10.32054719 -4.252645872 24.04487573 0.990671272 0.762087001 0.29042262 0.106765503 632.9784209 1730743.453 0.013830417 0.213739898 5.59E-05 4.252645872 -0.22858427 CQSVSS(ph)AGELETENYER ddPTM_HeLa_SAHA_4h_R1 1 CQSVSSAGELETENYER 17 0 Q96RS0 Q96RS0 TGS1 Trimethylguanosine synthase 1 0 CQSVS(0.207)S(0.793)AGELETENYER 242.9 1.43E-36 4221300 351.69 448.2 337.24 359.81 414.12 541.07 497.77 386.31 540.86 389.68 TRUE FALSE FALSE 388.6823678 462.7219741 383.1973109 366.7746428 382.3902151 494.967792 441.7596095 376.4287496 537.0961112 406.4810118 0.956212852 1.138360614 0.942718847 0.902316793 0.940733279 1.217689825 1.086790272 0.926067242 1.321331367 1 8.66704415 CQVLY(ph)KT(ph)ELS(ph)KEECCS(ph)T(ph)GR ddPTM_HeLa_SAHA_4h_R1 1 CQVLYKTELSKEECCSTGR 19 2 P19883-2;P19883 P19883-2 FST Follistatin 5 0 CQVLY(1)KT(1)ELS(1)KEECCS(1)T(1)GR 40.52 0.018144 23473000 700.55 940.18 834.76 958.62 1072 1039.8 895.61 702.65 1034.9 770.24 TRUE FALSE FALSE 774.2370632 970.6424489 948.5167456 977.1754763 989.8635916 951.2031902 794.8336057 684.6772304 1027.698047 803.4488159 0.963642049 1.20809494 1.180556529 1.21622617 1.232018234 1.183900171 0.989277213 0.852172804 1.279108297 1 9.650062309 -7.276228585 24.6765304 0.982830963 1.130335251 0 0.14658431 703.0959682 1173147.872 0.020390259 0.023367222 5.29E-08 7.276228585 0.147504288 CQYVTEK ddPTM_HeLa_SAHA_4h_R1 1 CQYVTEK 7 0 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;P09972 P04075;P09972 ALDOA;ALDOC Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase;Fructose-bisphosphate aldolase C 0 0 119.27 0.0047739 2363300 851.98 1212 939 1129.6 1021.2 1036 1278 1130.1 1145.5 874.07 FALSE FALSE TRUE 941.5951654 1251.269595 1066.96203 1151.465041 942.9558766 947.7269716 1134.196076 1101.193678 1137.528372 911.7554353 1.032727779 1.372374155 1.170228318 1.262909983 1.034220187 1.039453054 1.243969635 1.207773089 1.247624449 1 9.832503085 -7.485666552 24.64766251 1.014438641 1.18388104 0.006634807 0.119993751 284.1054756 188180.1686 0.01647093 0.018421326 3.27E-08 7.485666552 0.1694424 CREMDEQIR ddPTM_HeLa_SAHA_4h_R1 3 CREMDEQIR 9 1 J3KN67;A0A2R2Y2Q3;A0A494C0P6;P06753-2;A0A087WWU8;P06753-3;P06753-6 J3KN67;P06753-2 TPM3 Tropomyosin alpha-3 chain 0 0 ;; ;; 122.19 0.0030656 93018000 3579.91 2936.19 3558.34 3332.49 3566.67 3586.74 3451.4 2833.13 2375.85 2839.65 FALSE FALSE TRUE 3956.461359 3031.324483 4043.252044 3396.995163 3293.392515 3281.129574 3063.039388 2760.662637 2359.316266 2962.081208 1.335703203 1.023376562 1.365003779 1.146827154 1.111850852 1.107710877 1.034083529 0.932000996 0.796506274 1 11.53239548 -4.462219477 1.081761733 1.16529901 0.865556621 0.045737746 0.159490692 1.514198041 1.762240211 0.021218171 0.47540743 3.45E-05 4.462219477 -0.299742389 CRS(ph)PGMLEPLGSSR ddPTM_HeLa_SAHA_4h_R1 6 CRSPGMLEPLGSSR 14 1 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 CRS(1)PGMLEPLGSSR;CRS(1)PGMLEPLGSSR;CRS(1)PGMLEPLGSSR;CRS(1)PGMLEPLGSSR;CRS(1)PGMLEPLGSSR;CRS(1)PGMLEPLGSSR ;;;;; 122.5 0.00048822 310768300 2153.5 2844.23 2300.43 2608.37 3294.23 3414.61 3150.92 2853.93 3071.55 2533.02 TRUE FALSE FALSE 2380.015011 2936.384918 2613.92062 2658.858773 3041.826809 3123.666018 2796.370189 2780.930603 3050.174833 2642.230888 0.900759665 1.111327905 0.989285468 1.006293123 1.151234293 1.18220782 1.058336802 1.052493412 1.154393754 1 11.36754083 -6.458881772 1.040317827 0.957931896 1.105944135 0 0.089467397 0.344862026 0.743651123 0.013090328 0.024193862 3.48E-07 6.458881772 0.14801224 CS(ph)PLEPDFVPDEK ddPTM_HeLa_SAHA_4h_R1 1 CSPLEPDFVPDEK 13 0 Q5JSZ5;A0A494C0D3 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 CS(1)PLEPDFVPDEK 87.498 0.012558 3957700 1058.9 1120.6 1053.9 1313.5 1094.7 1397.8 1237.6 1235.5 1616.1 1003.2 TRUE FALSE FALSE 1170.27996 1156.908175 1197.520004 1338.924692 1010.824322 1278.699576 1098.341991 1203.897699 1604.853429 1046.452862 1.118330317 1.105552116 1.144361153 1.279488777 0.96595304 1.221937101 1.04958573 1.150455738 1.533612729 1 10.03129161 -8.945808143 0.638583731 0.992995167 1.131615425 0 0.185603148 0.860403366 0.612244229 0.063890937 0.017170626 1.13E-09 8.945808143 0.138620258 CS(ph)PPSFTYK ddPTM_HeLa_SAHA_4h_R1 1 CSPPSFTYK 9 0 E9PHV5;P28290-3;P28290;P28290-2;E7EUL7 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 CS(0.999)PPS(0.001)FTYK 106.62 0.0073153 9235900 3324.2 3593.7 3218.7 3607.8 3548.8 3544.8 4033.4 3615.1 2815.3 2569.3 TRUE FALSE FALSE 3673.854608 3710.138238 3657.327674 3677.634186 3276.891711 3242.763097 3579.551217 3522.630977 2795.708098 2680.075097 1.37080286 1.384341149 1.364636266 1.372213111 1.222686526 1.209952326 1.335616013 1.314377713 1.043145433 1 11.38805771 -9.253022889 0.929276525 0.995292086 1.322150077 0.800976754 0.059594152 0.216528816 0.328225556 0.048332784 0.01252829 5.58E-10 9.253022889 0.326857991 CS(ph)PTVAFVEFPSS(ph)PQLK ddPTM_HeLa_SAHA_4h_R1 1 CSPTVAFVEFPSSPQLK 17 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 2 0 CS(0.977)PT(0.023)VAFVEFPS(0.278)S(0.722)PQLK 158.64 7.08E-05 2984300 551.53 1194 1066.3 1220.8 1174.4 1407.7 1164.1 943.57 1436.9 1148 TRUE FALSE FALSE 609.5424559 1232.686383 1211.609811 1244.430349 1084.417726 1287.75604 1033.112404 919.4348457 1426.900496 1197.495898 0.509014233 1.029386727 1.011786189 1.03919383 0.90557114 1.075374072 0.862727301 0.767797908 1.191570258 1 10.225805 CS(ph)PTVSQGKS(ph)SDCLNT(ph)VKSNSSSK ddPTM_HeLa_SAHA_4h_R1 1 CSPTVSQGKSSDCLNTVKSNSSSK 24 2 Q5SY34;O43781-2;O43781 Q5SY34 DYRK3 Dual specificity tyrosine-phosphorylation-regulated kinase 3 3 0 CS(0.97)PT(0.041)VS(0.432)QGKS(0.483)S(0.098)DCLNT(0.72)VKS(0.071)NS(0.065)S(0.062)S(0.059)K 51.025 0.011947 1686200 156.56 232.69 305.02 226.88 335.58 247.3 189.97 277.93 387.53 383.14 TRUE FALSE FALSE 173.0276991 240.2293087 346.5865371 231.2715905 309.8679329 226.2286487 168.5940756 270.820953 384.8331472 399.6590404 0.432938284 0.601085636 0.867205548 0.578672236 0.775330723 0.566054126 0.421844769 0.677629994 0.962903646 1 8.642625914 -9.481665825 1.202120884 1.001695349 0.599593303 0.554234571 0.130669134 0.296665379 0.761908876 0.099082786 0.023830348 3.30E-10 9.481665825 -0.402102046 CS(ph)QVQQDHLNQTDAS(ph)AT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 CSQVQQDHLNQTDASATK 18 0 Q9UJC3-2;Q9UJC3 Q9UJC3-2 HOOK1 Protein Hook homolog 1 3 0 CS(1)QVQQDHLNQT(0.171)DAS(0.914)AT(0.914)K 52.887 0.022599 2246400 623.89 1132.9 677.85 900.24 901.7 797.17 1049.6 1049.3 1138.9 962.36 TRUE FALSE FALSE 689.5136127 1169.606703 770.2238679 917.665447 832.6119408 729.2466312 931.4962456 1022.460425 1130.974302 1003.852049 0.686867764 1.165118609 0.767268313 0.914144119 0.829416986 0.726448317 0.927921845 1.018536971 1.126634451 1 9.971330941 -7.441709252 0.006128979 1.740097224 8.36E-07 0 0.159798341 19045.90874 101.4517855 14413.31131 14384.37027 3.62E-08 7.441709252 -1.740096387 CS(ph)VSLSNVEAR ddPTM_HeLa_SAHA_4h_R1 2 CSVSLSNVEAR 11 0 P47712 P47712 PLA2G4A Cytosolic phospholipase A2;Phospholipase A2;Lysophospholipase 1 0 CS(0.98)VS(0.004)LS(0.016)NVEAR;CS(0.962)VS(0.038)LSNVEAR ; 153 7.66E-11 5875800 1203.93 1129.5 1228.54 1481.46 1274.41 1401.04 1425.13 1928.38 1111.82 1335.34 TRUE FALSE FALSE 1330.564881 1166.096541 1395.959033 1510.135801 1176.764981 1281.66351 1264.770622 1879.054832 1104.082754 1392.913042 0.955239014 0.837163919 1.002186777 1.084156551 0.844823004 0.920131746 0.908004005 1.349010868 0.792642987 1 10.44388948 -4.256594366 24.74845921 0.961202703 1.349011051 0.651211394 0.089552949 178.0791396 909596.755 0.009964406 0.108986379 5.54E-05 4.256594366 0.387808349 CSATPSAQVKPIVSAS(ph)PPSR ddPTM_HeLa_SAHA_4h_R1 3 CSATPSAQVKPIVSASPPSR 20 1 Q96EV2;H0Y3K4 Q96EV2 RBM33 RNA-binding protein 33 1 0 CSATPSAQVKPIVS(0.122)AS(0.616)PPS(0.262)R;CSATPS(0.001)AQVKPIVS(0.16)AS(0.744)PPS(0.095)R;CSATPSAQVKPIVS(0.056)AS(0.825)PPS(0.119)R ;; 107.98 0.00032953 43009500 4581.33 4458.66 3596.55 4231.08 4470.29 4326.85 4303.55 4013.25 4492.6 3819.23 TRUE FALSE FALSE 5063.215309 4603.123509 4086.669104 4312.978672 4127.777346 3958.178038 3819.303228 3910.596876 4461.335631 3983.895696 1.27092065 1.155432737 1.025797213 1.082603311 1.036115817 0.993544595 0.958685548 0.98160122 1.119842479 1 11.95996416 -5.812201287 1.098937401 1.129057931 0.971725265 0.451658919 0.067784854 0.51765336 1.223756758 0.01755317 0.049352164 1.54E-06 5.812201287 -0.157332666 CSDVSELS(ph)SSPPGPYHQEPYVCKPEER ddPTM_HeLa_SAHA_4h_R1 1 CSDVSELSSSPPGPYHQEPYVCKPEER 27 1 F5H610;F5H2X8;Q9Y478 F5H610 PRKAB1 5-AMP-activated protein kinase subunit beta-1 1 0 CS(0.001)DVS(0.011)ELS(0.367)S(0.308)S(0.308)PPGPY(0.004)HQEPYVCKPEER 59.561 0.0021604 12144000 578.52 493.99 377.88 575.37 446.8 383.76 542.05 643.75 648.09 470.64 TRUE FALSE FALSE 639.3713879 509.9956001 429.3755185 586.5071183 412.5662805 351.061489 481.0571074 627.2838071 643.5798889 490.9315937 1.302363499 1.038832307 0.874613743 1.19468196 0.840374272 0.715092476 0.979886228 1.277741778 1.310935978 1 8.939378203 -7.007886694 23.82589905 1.144246723 0.970443831 0.223533111 0.175983827 284.361257 859066.9882 0.030588669 0.039202094 9.82E-08 7.007886694 -0.173802892 CSDVSELSS(ph)SPPGPYHQEPYVCKPEER ddPTM_HeLa_SAHA_4h_R1 2 CSDVSELSSSPPGPYHQEPYVCKPEER 27 1 F5H610;F5H2X8;Q9Y478 F5H610 PRKAB1 5-AMP-activated protein kinase subunit beta-1 1 0 CSDVS(0.017)ELS(0.313)S(0.32)S(0.32)PPGPY(0.029)HQEPYVCKPEER;CSDVS(0.014)ELS(0.118)S(0.396)S(0.396)PPGPY(0.076)HQEPYVCKPEER ; 116.45 7.00E-08 51932000 2951.17 3430.19 2757.32 2779.02 3833.33 2568.22 3770.4 3503.97 3305.87 3205.97 TRUE FALSE FALSE 3261.587601 3541.330407 3133.07321 2832.811951 3539.621084 2349.393208 3346.144669 3414.343521 3282.864182 3344.195056 0.975298254 1.05894852 0.936869159 0.84708335 1.058437389 0.70252876 1.000582984 1.020976188 0.981660497 1 11.70744328 -6.546504208 24.24244209 0.993524585 0.921716374 0.12672679 0.096526455 259.0954092 265860.3722 0.014093867 0.019932468 2.84E-07 6.546504208 -0.071808212 CSGPGLS(ph)PGMVR ddPTM_HeLa_SAHA_4h_R1 6 CSGPGLSPGMVR 12 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 1 0 CSGPGLS(1)PGMVR;CS(0.001)GPGLS(0.999)PGMVR;CSGPGLS(1)PGMVR;CS(0.001)GPGLS(0.999)PGMVR;CSGPGLS(1)PGMVR;CSGPGLS(1)PGMVR ;;;;; 174.46 5.12E-05 2177175000 20949.6 20879.2 18215.9 20711.8 22982.6 23485.7 23951.4 21676.5 20289.4 17514.3 TRUE FALSE FALSE 23153.17505 21555.69978 20698.26799 21112.70684 21221.67815 21484.58623 21256.32544 21122.04652 20148.20441 18269.42719 1.267318062 1.17987825 1.132945646 1.155630476 1.161595158 1.175985761 1.16349162 1.156141695 1.102837227 1 14.15714378 -9.511690965 1.263227766 1.000006975 1.182526586 0.487662564 0.045681426 0.198029215 0.565688814 0.031013963 0.007481327 3.08E-10 9.511690965 0.182519612 PCSEETPAISPSK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 PCSEETPAISPSKR 14 1 P33316-2;H0YNJ9 P33316-2 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 0 1 ; PCSEETPAISPSK(1)R;PCSEETPAISPSK(1)R 261.22 1.22E-71 18891600 1040.58 1198.97 1408.93 2707.6 2218.8 3207.6 2684.5 2981.7 1088.84 779.23 FALSE TRUE FALSE 1150.032979 1237.817415 1600.931643 2760.009513 2048.796023 2934.294435 2382.432995 2905.432431 1081.262674 812.8264188 1.414856791 1.522855786 1.969586133 3.395570628 2.520582471 3.609989005 2.931047687 3.574480805 1.330250406 1 9.666803484 -6.508226318 1.175513056 1.170694145 3.265968212 0.873735503 0.339105916 0.096803365 0.266981853 0.056357256 0.097915635 3.10E-07 6.508226318 2.095274067 up CSLHSAS(ph)PASVR ddPTM_HeLa_SAHA_4h_R1 1 CSLHSASPASVR 12 0 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 CSLHS(0.068)AS(0.929)PAS(0.003)VR 113.07 0.0024929 3172800 977.05 1041.7 1000.1 1035.8 1373.2 1842.5 1460 1310.9 1341.2 1584.5 TRUE FALSE FALSE 1079.820602 1075.451763 1136.38842 1055.849407 1267.985713 1685.508634 1295.716957 1277.369076 1331.86648 1652.815549 0.653321904 0.650678634 0.687547029 0.638818655 0.767167101 1.019780238 0.783945285 0.7728443 0.805816766 1 10.69071002 -9.4124299 1.156019052 0.999094449 0.741026716 0.145466608 0.119818368 0.387664483 0.931619381 0.079183311 0.020337029 3.87E-10 9.4124299 -0.258067733 CSLHSASPAS(ph)VR ddPTM_HeLa_SAHA_4h_R1 1 CSLHSASPASVR 12 0 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 CSLHS(0.212)AS(0.266)PAS(0.522)VR 78.932 0.017677 4598300 2366.7 3829.8 2752.2 3264 4165.3 5389.2 3948.8 3447.1 3982.4 3457.2 TRUE FALSE FALSE 2615.640365 3953.888033 3127.255483 3327.17944 3846.155614 4930.009841 3504.470631 3358.928173 3954.686154 3606.256811 0.725306184 1.096396691 0.867174926 0.922613007 1.066522939 1.367071204 0.971775116 0.931416798 1.096618006 1 11.81628642 -5.772835765 4.14531813 0.887968889 1.099029322 0.073100911 0.155889376 0.213972305 8.353188918 0.023547528 0.046014294 1.69E-06 5.772835765 0.211060433 CSMCKY(ph)ASVEVK ddPTM_HeLa_SAHA_4h_R1 1 CSMCKYASVEVK 12 1 V9GYX4 V9GYX4 CTCFL 1 0 CS(0.009)MCKY(0.99)ASVEVK 65.347 0.0083743 0 120.24 267.45 152.59 342.61 208.15 296.86 183.59 281.36 200.16 264.29 TRUE FALSE FALSE 132.8873949 276.1155555 173.3841705 349.241712 192.201592 271.5658579 162.93197 274.1632186 198.7670703 275.6848353 0.482026495 1.001562364 0.628921683 1.266815099 0.697178689 0.985059108 0.591008097 0.994480593 0.720993848 1 8.1068761 CSPTVAFVEFPS(ph)SPQLK ddPTM_HeLa_SAHA_4h_R1 2 CSPTVAFVEFPSSPQLK 17 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 CSPTVAFVEFPS(0.581)S(0.419)PQLK;CSPTVAFVEFPS(0.951)S(0.049)PQLK ; 143.5 0.00012436 34379000 1909.52 2404.7 2077.45 2228.18 2504.3 3174.8 2378.55 2424.6 3178 2242.65 TRUE FALSE FALSE 2110.372075 2482.613858 2360.554067 2271.309646 2312.421075 2904.289179 2110.909294 2362.582243 3155.884039 2339.341617 0.902122229 1.061244685 1.009067701 0.970918326 0.988492257 1.24149853 0.902351875 1.009934687 1.349047961 1 11.19188684 -7.253523217 24.74477339 0.953779942 1.02549434 0 0.151327863 816.3276101 2551722.813 0.014420135 0.01748787 5.58E-08 7.253523217 0.071714398 CSS(ph)VTGVQR ddPTM_HeLa_SAHA_4h_R1 1 CSSVTGVQR 9 0 A0A3B3IRT3;O60343-2;O60343-3;O60343 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 1 0 CS(0.023)S(0.941)VT(0.037)GVQR 121.61 0.0033902 5672300 2343.3 2142.8 2318.6 2386.7 2457.9 2394.1 2291.9 2387.8 2446.5 2192.3 TRUE FALSE FALSE 2589.779045 2212.228126 2634.566733 2432.89803 2269.576233 2190.109211 2034.00938 2326.723533 2429.474607 2286.820782 1.132480108 0.967381503 1.15206524 1.063877873 0.99245916 0.95770916 0.889448529 1.017449007 1.062380851 1 11.15912759 -5.585411814 2.946534834 1.063641488 0.949802755 0.415500967 0.058498775 0.210731998 3.699804974 0.00972362 0.021578325 2.60E-06 5.585411814 -0.113838733 CSSSS(ph)GGGSSGDEDGLELDGAPGGGKR ddPTM_HeLa_SAHA_4h_R1 1 CSSSSGGGSSGDEDGLELDGAPGGGKR 27 1 Q9P258 Q9P258 RCC2 Protein RCC2 1 0 CS(0.026)S(0.022)S(0.112)S(0.49)GGGS(0.333)S(0.018)GDEDGLELDGAPGGGKR 117.57 3.51E-08 11745000 2152.9 1829 1164.8 1350.4 2071.6 2823.5 1705.8 3408.1 4331.6 2663.5 TRUE FALSE FALSE 2379.3519 1888.2608 1323.532878 1376.538945 1912.874456 2582.921915 1513.858895 3320.925737 4301.456043 2778.33652 0.856394423 0.679637181 0.476376014 0.495454361 0.688496315 0.92966489 0.544879601 1.195292836 1.548212757 1 11.44000564 -7.621247267 1.816440926 0.951106088 0.700662903 0.257233409 0.279053041 0.346085195 2.348549182 0.040285936 0.041546487 2.39E-08 7.621247267 -0.250443186 CSSTPCS(ph)PMRR ddPTM_HeLa_SAHA_4h_R1 1 CSSTPCSPMRR 11 1 Q96GV9 Q96GV9 C5orf30 UNC119-binding protein C5orf30 1 0 CSS(0.001)T(0.022)PCS(0.976)PMRR 107.17 0.012573 1736100 710.61 507.2 625.74 622.25 749.13 567.44 709.17 538.68 608 677.76 TRUE FALSE FALSE 785.3552202 523.6336128 711.0125885 634.2945485 691.7318212 519.0909197 629.3723252 524.9013456 603.7688785 706.9815505 1.11085674 0.74066093 1.005701758 0.897186848 0.978429806 0.734235454 0.890224539 0.742454093 0.854009384 1 9.465528756 -6.000252648 0.523951906 1.047743317 0.773835748 0.058989863 0.119390696 0.80983056 0.387610989 0.027160864 0.101075127 9.99E-07 6.000252648 -0.273907569 CSVCPDYDLCS(ph)VCEGK ddPTM_HeLa_SAHA_4h_R1 2 CSVCPDYDLCSVCEGK 16 0 E7EMC7;Q13501;Q13501-2;E9PFW8;E3W990;C9JRJ8 E7EMC7 SQSTM1 Sequestosome-1 1 0 CSVCPDYDLCS(1)VCEGK;CSVCPDYDLCS(1)VCEGK ; 153.23 2.08E-12 4048700 1943.16 1944.65 2122.8 2005.42 1980.02 1586.83 1659.31 1885.67 1801.49 1815.95 TRUE FALSE FALSE 2147.550484 2007.657936 2412.084129 2044.237804 1828.311295 1451.623157 1472.600072 1837.437292 1788.953284 1894.244492 1.133724022 1.059872654 1.27337529 1.079183713 0.96519288 0.766333577 0.777407604 0.97001063 0.944415197 1 10.88740684 -5.533078464 3.485487242 1.082426858 0.833245569 0.563523838 0.096131856 0.124818469 3.214320237 0.013825282 0.030684867 2.93E-06 5.533078464 -0.249181289 CSVS(ph)LSNVEAR ddPTM_HeLa_SAHA_4h_R1 2 CSVSLSNVEAR 11 0 P47712 P47712 PLA2G4A Cytosolic phospholipase A2;Phospholipase A2;Lysophospholipase 1 0 CS(0.236)VS(0.505)LS(0.258)NVEAR;CS(0.077)VS(0.874)LS(0.049)NVEAR ; 129.76 0.0013678 6701800 1117.14 916.02 830.94 1233.06 1128.06 1482.26 1224.45 1602.22 759.4 923.89 TRUE FALSE FALSE 1234.645911 945.699649 944.1761759 1256.927659 1041.628287 1355.963109 1086.671663 1561.237532 754.1152736 963.7234193 1.281120585 0.981297777 0.979716957 1.304241066 1.080837371 1.407004418 1.127576275 1.620005804 0.782501762 1 9.912475354 -1 0.661205883 1.120410051 43.6101618 0.439258176 0.175267773 153.6706045 0.882539096 0.025333643 9599.724935 0.1 1 42.48975175 CT(ph)AWARYSHR ddPTM_HeLa_SAHA_4h_R1 1 CTAWARYSHR 10 1 U3KQG1 U3KQG1 DUSP13 1 0 CT(0.879)AWARY(0.066)S(0.055)HR 55.567 0.023489 2263300 1275 1401.5 1345 2115.9 2169.8 747.08 1924.7 808.47 1504.1 1566.5 TRUE FALSE FALSE 1409.11035 1446.90952 1528.289596 2156.856304 2003.550393 683.424581 1708.12769 787.7905081 1493.632846 1634.039481 0.862347799 0.885480147 0.935283151 1.319953605 1.226133405 0.418242392 1.045340526 0.482112285 0.914073903 1 10.67422713 -3.865428337 1.033875524 0.960143921 1.95E-16 0.260898204 0.231140337 4.271634258 2.055729787 0.034131943 5.495141168 0.000136324 3.865428337 -0.960143921 CT(ph)FCYDVCK ddPTM_HeLa_SAHA_4h_R1 1 CTFCYDVCK 9 0 A6NMZ7 A6NMZ7 COL6A6 Collagen alpha-6(VI) chain 1 0 CT(1)FCYDVCK 113.89 0.0089066 3888100 628.06 1141 1288.3 2261.9 829.07 1020.3 1153.7 1915 1944 1276 TRUE FALSE FALSE 694.1222324 1177.969149 1463.862815 2305.682345 765.5468357 933.3646999 1023.88264 1866.017073 1930.471546 1331.014605 0.521498585 0.885015945 1.099809731 1.732274265 0.575160357 0.701243019 0.769249741 1.401950862 1.450375931 1 10.37831069 -6.989145911 9.236380482 0.770327184 1.025313412 0 0.399695567 0.330245073 226.4659784 0.059303907 0.077128567 1.03E-07 6.989145911 0.254986227 CTELNQAWSS(ph)LGK ddPTM_HeLa_SAHA_4h_R1 1 CTELNQAWSSLGK 13 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 1 0 CTELNQAWS(0.189)S(0.811)LGK 87.083 0.012929 3277300 933.13 918.16 882.95 1067.3 945.6 973.9 966.02 1050.8 1331.7 832.35 TRUE FALSE FALSE 1031.280895 947.9089864 1003.273828 1087.959135 873.1483323 890.918241 857.3208872 1023.922058 1322.432591 868.2366819 1.18778775 1.091763348 1.155530339 1.253067461 1.005657041 1.026123705 0.987427628 1.179312138 1.523124534 1 9.761944566 -3.932412914 18.51398001 1.090931731 2.756542343 0 0.160339299 257.0480574 90572.5618 0.01326571 4948.189014 0.000116839 3.932412914 1.665610611 CTGDFS(ph)PSPEK ddPTM_HeLa_SAHA_4h_R1 1 CTGDFSPSPEK 11 0 A0A2R8YH03;Q5VWN6;Q5VWN6-2 A0A2R8YH03 FAM208B Protein FAM208B 1 0 CT(0.009)GDFS(0.777)PS(0.214)PEK 114.76 0.0029978 18540000 3263.2 4150.7 2889.1 2944.7 3761.7 3965.6 3946.2 3484.7 4087.7 3281.6 TRUE FALSE FALSE 3606.438348 4285.185403 3282.811502 3001.698927 3473.479359 3627.70857 3502.16319 3395.56642 4059.253363 3423.085836 1.053563516 1.251848656 0.959021088 0.876898527 1.014721665 1.059777272 1.023101189 0.991960641 1.185846209 1 11.74108175 CTGDFSPS(ph)PEK ddPTM_HeLa_SAHA_4h_R1 1 CTGDFSPSPEK 11 0 A0A2R8YH03;Q5VWN6;Q5VWN6-2 A0A2R8YH03 FAM208B Protein FAM208B 1 0 CTGDFS(0.003)PS(0.997)PEK 95.273 0.011473 15868000 2887.4 2830.8 2263.7 2604.6 2927.9 3212.6 2900 2706.7 3227.3 2514.7 TRUE FALSE FALSE 3191.10998 2922.519777 2572.185247 2655.015799 2703.564935 2938.868406 2573.684368 2637.466533 3204.840957 2623.121024 1.216531739 1.114138368 0.980581995 1.012159094 1.030667251 1.120370879 0.981153498 1.005468871 1.221766334 1 11.35706866 -6.778010065 24.50912748 1.105999672 1.024343431 0.359599828 0.071040719 262.1799874 387780.3981 0.0142568 0.018768204 1.67E-07 6.778010065 -0.081656241 CTGGEVGATSALAPK ddPTM_HeLa_SAHA_4h_R1 2 CTGGEVGATSALAPK 15 0 P30050;P30050-2 P30050 RPL12 60S ribosomal protein L12 0 0 ; ; 157.68 3.42E-06 4466700 1173.44 1245.76 1120.34 1067.83 1006.06 969.97 972.55 1147.41 923.18 949.73 FALSE FALSE TRUE 1296.867803 1286.123441 1273.014101 1088.499394 928.9759001 887.3230991 863.1161144 1118.060914 916.7555152 990.6775082 1.309071613 1.298226144 1.284993442 1.098742411 0.937717766 0.895673003 0.871238226 1.128582111 0.925382385 1 9.952271688 -5.884916423 4.061488373 1.173640412 0.947829592 0.33970413 0.134183816 0.195422473 5.921230535 0.02176812 0.040788596 1.30E-06 5.884916423 -0.225810821 CTKEEHLCTQR ddPTM_HeLa_SAHA_4h_R1 2 CTKEEHLCTQR 11 1 J3KN67;P06753-7;P06753-2;A0A087WWU8;P06753-5 J3KN67;P06753-2 TPM3 Tropomyosin alpha-3 chain 0 0 ; ; 84.821 0.012049 8030600 8349.2 8091 8889.1 9487.9 9271.8 8769.6 10122.9 8778.1 7390.3 7476.5 FALSE FALSE TRUE 9227.407164 8353.153709 10100.46026 9671.552024 8561.396687 8022.380744 8983.84465 8553.568913 7338.870301 7798.848504 1.183175588 1.071075262 1.295121998 1.240125644 1.097777022 1.028662211 1.151945014 1.096773313 0.941019728 1 12.92904541 -9.34604741 0.980170409 0.996741498 1.148479394 0.430165596 0.078239058 0.544838678 0.904320794 0.059828303 0.014361156 4.51E-10 9.34604741 0.151737897 CTLPEHES(ph)PSQDISDACEAESTER ddPTM_HeLa_SAHA_4h_R1 5 CTLPEHESPSQDISDACEAESTER 24 0 Q32MZ4-3;Q32MZ4-2;Q32MZ4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 CTLPEHES(0.983)PS(0.017)QDISDACEAESTER;CTLPEHES(0.981)PS(0.019)QDISDACEAESTER;CTLPEHES(0.999)PS(0.001)QDISDACEAESTER;CTLPEHES(0.985)PS(0.014)QDISDACEAESTER;CTLPEHES(0.755)PS(0.245)QDISDACEAESTER ;;;; 164.89 1.51E-08 79200800 4262.58 4527.14 3351.43 4037.56 4939.69 5183.88 4891.15 5228.19 5566.85 4042.68 TRUE FALSE FALSE 4710.937722 4673.822306 3808.145427 4115.712812 4561.212019 4742.18426 4340.784929 5094.46047 5528.109838 4216.979719 1.117135494 1.108334073 0.903050449 0.975985916 1.081630058 1.12454519 1.02935874 1.208082753 1.310916866 1 12.04199437 CTYLVLDEADR ddPTM_HeLa_SAHA_4h_R1 2 CTYLVLDEADR 11 0 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 0 0 ; ; 181.87 0.00010438 10814800 1271.82 1052.47 1312.95 1435.3 1456.42 1513.49 1666.05 1244.82 1653.23 1569.69 FALSE FALSE TRUE 1405.595863 1086.570719 1491.871988 1463.082307 1344.829414 1384.532137 1478.581669 1212.979307 1641.725038 1637.367018 0.858448868 0.663608529 0.911140857 0.893557945 0.821336572 0.845584479 0.903023973 0.740810883 1.002661602 1 10.67716202 -8.745721553 0.85640133 0.992311528 0.833597856 0.458685684 0.073524112 0.402077616 0.583535171 0.035022451 0.014883125 1.80E-09 8.745721553 -0.158713672 CVACQNPDKPS(ph)PSTSVPAPASFK ddPTM_HeLa_SAHA_4h_R1 1 CVACQNPDKPSPSTSVPAPASFK 23 1 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 1 0 CVACQNPDKPS(0.904)PS(0.065)T(0.015)S(0.015)VPAPASFK 89.831 0.00015243 0 587.17 376.48 451.51 363.96 474.85 663.07 524.8 386.19 422.13 488.45 TRUE FALSE FALSE 648.9312346 388.678199 513.0394314 371.0049721 438.4670956 606.5727057 465.7481228 376.311819 419.192363 509.5094699 1.273639202 0.762847841 1.006928157 0.728161092 0.860567117 1.190503301 0.914110827 0.738576692 0.822737138 1 8.992965151 -7.259810404 24.99761886 1.129218511 0.896359831 0.04967071 0.174022805 133.3733155 2046693.507 0.027256617 0.032465657 5.50E-08 7.259810404 -0.23285868 CVACQNPDKPSPST(ph)SVPAPASFK ddPTM_HeLa_SAHA_4h_R1 1 CVACQNPDKPSPSTSVPAPASFK 23 1 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 1 0 CVACQNPDKPS(0.128)PS(0.138)T(0.418)S(0.315)VPAPAS(0.002)FK 60.814 0.0089422 2019700 227.03 277.92 274.52 367.69 274.3 482.04 403.46 200.71 403.04 391.22 TRUE FALSE FALSE 250.9100571 286.9247903 311.930156 374.8071716 253.2831933 440.9674801 358.061619 195.5761288 400.2352118 408.0874088 0.614843908 0.703096406 0.764370939 0.918448263 0.620659172 1.080571149 0.877414032 0.479250584 0.980758541 1 8.672734388 -9.562450016 1.358231617 0.999060334 0.751142461 0.246128361 0.162725331 0.504087767 1.676634499 0.112947355 0.027019449 2.74E-10 9.562450016 -0.247917873 CVEDPETGLR ddPTM_HeLa_SAHA_4h_R1 1 CVEDPETGLR 10 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 118.5 0.019695 2365500 1850.8 1506 1376.8 1574.9 1612.7 2065.1 2214.1 2290.7 2002.1 1725.3 FALSE FALSE TRUE 2045.475636 1554.795388 1564.423134 1605.384467 1489.135274 1889.141862 1964.963641 2232.107211 1988.167223 1799.686126 1.136573542 0.863925862 0.869275543 0.892035807 0.827441659 1.049706298 1.091836855 1.240275834 1.104729983 1 10.8135296 -4.386591369 2.129890254 1.007510189 1.268478932 0.353385359 0.106290719 0.583009881 3.560723582 0.018114673 0.260799975 4.11E-05 4.386591369 0.260968743 CVGAELEYDS(ph)EHSDWHGFD ddPTM_HeLa_SAHA_4h_R1 2 CVGAELEYDSEHSDWHGFD 19 0 H7BYU9;Q9GZN8;Q9GZN8-2 H7BYU9 C20orf27 UPF0687 protein C20orf27 1 0 CVGAELEYDS(0.995)EHS(0.005)DWHGFD;CVGAELEYDS(0.55)EHS(0.45)DWHGFD ; 98.132 0.0012117 7284700 1212.82 1752.17 1449.26 1522.91 1997.8 1807.56 2034.87 1846.35 1958.81 1912.62 TRUE FALSE FALSE 1340.389972 1808.941458 1646.757605 1552.388125 1844.728996 1653.545719 1805.901072 1799.12304 1945.178482 1995.082408 0.671846921 0.906700119 0.825408313 0.77810727 0.924637994 0.828810736 0.905176179 0.90177881 0.974986534 1 10.96223262 -4.730107326 1.145259865 0.843133308 0.915873948 0 0.093489715 2.956113835 5.160774341 0.018852258 0.210264767 1.86E-05 4.730107326 0.07274064 CVMDDDNEVRDR ddPTM_HeLa_SAHA_4h_R1 2 CVMDDDNEVRDR 12 1 Q9Y678 Q9Y678 COPG1 Coatomer subunit gamma-1 0 0 ; ; 141.08 0.00058876 8658100 2411.14 2232.17 2308.4 2466 2364.8 2219.1 2946.5 2997.8 2304.6 2679.6 FALSE FALSE TRUE 2664.754768 2304.493773 2622.97673 2513.732996 2183.609535 2030.020196 2614.952065 2921.120617 2288.562101 2795.13067 0.953356062 0.824467277 0.938409341 0.899325754 0.781219125 0.72627023 0.935538397 1.045074797 0.818767482 1 11.44870001 -7.45801013 3.960803818 0.980582662 0.874331699 0 0.09876378 0.250832121 7.359205565 0.015592736 0.017385557 3.48E-08 7.45801013 -0.106250963 CVNTTLQIK ddPTM_HeLa_SAHA_4h_R1 2 CVNTTLQIK 9 0 Q01518-2;Q01518 Q01518-2 CAP1 Adenylyl cyclase-associated protein 1 0 0 ; ; 130.66 0.0020631 7403500 3534.2 3442.7 3627.2 3296 4011.3 3351.1 4377.6 2762.2 2571.5 2519.7 FALSE FALSE TRUE 3905.943371 3554.245739 4121.495926 3359.798846 3703.955061 3065.567427 3885.020927 2691.546924 2553.604722 2628.336598 1.486089481 1.352279514 1.568100497 1.278298544 1.409239236 1.166352677 1.478129144 1.024049555 0.971566855 1 11.35993433 -9.41975389 1.134862866 0.999001701 1.362922783 0.459947753 0.153831646 0.350288052 0.803362061 0.100638777 0.025104413 3.80E-10 9.41975389 0.363921081 CYEMASHLR ddPTM_HeLa_SAHA_4h_R1 5 CYEMASHLR 9 0 P07737;K7EJ44;CON__P02584 P07737 PFN1 Profilin-1 0 0 ;;;; ;;;; 173.39 2.43E-05 64218800 24429.9 23662.3 25065.6 28736.2 27955.1 22039.3 29586.7 16364.9 16707.31 18235.5 FALSE FALSE TRUE 26999.54897 24428.97405 28481.40943 29292.4307 25813.18628 20161.42765 26257.52665 15946.30955 16591.04247 19021.72165 1.419406165 1.284267244 1.497309758 1.539946344 1.357037326 1.059916028 1.380396955 0.838321044 0.872215606 1 14.21536021 -3.126702491 13.30013048 1.242809674 1.238462108 0 0.247245101 0 0 0.031928658 0 0.00074696 3.126702491 -0.004347565 CYFSSARIRLTSQGQASRR ddPTM_HeLa_SAHA_4h_R1 1 CYFSSARIRLTSQGQASRR 19 3 A0A286YFC2;A6NNM8 A0A286YFC2 TTLL13P Tubulin polyglutamylase TTLL13P 0 0 38.777 0.020522 76184000 3099.4 2284.6 3053.2 3215 3271.6 3194.5 3362.4 2485.6 2712.8 2878.6 FALSE FALSE TRUE 3425.409113 2358.622539 3469.274196 3277.230974 3020.930715 2922.310628 2984.053903 2422.021951 2693.921404 3002.710534 1.140772337 0.785497807 1.155380832 1.091424211 1.006067911 0.973224224 0.993786737 0.806611868 0.897163204 1 11.55204969 -3.325372692 0.80992352 1.052059875 4.51E-14 0.153645469 0.110720181 8.337009737 1.301863557 0.016097771 11.3064473 0.000472745 3.325372692 -1.052059875 DAAGSGDK(ac)PGADTGR ddPTM_HeLa_SAHA_4h_R1 2 DAAGSGDKPGADTGR 15 1 Q96EL3 Q96EL3 MRPL53 "39S ribosomal protein L53, mitochondrial" 0 1 ; DAAGSGDK(1)PGADTGR;DAAGSGDK(1)PGADTGR 153.81 3.85E-05 208420 0 0 0 0 144.95 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 133.8439623 0 0 0 0 0 0 DAAS(ph)PHQDGAPGPGPR ddPTM_HeLa_SAHA_4h_R1 1 DAASPHQDGAPGPGPR 16 0 A0A1B0GUL3 A0A1B0GUL3 1 0 DAAS(1)PHQDGAPGPGPR 122.46 0.00011605 0 154.36 263.25 141.6 207.91 182.33 312.61 340.05 280.77 302.87 201.63 TRUE FALSE FALSE 170.596293 271.7794727 160.8965106 211.9343987 168.3599148 285.9738693 301.786679 273.58831 300.762303 210.3232561 0.811114739 1.292198865 0.76499629 1.007660316 0.800481687 1.359687344 1.434870707 1.300799137 1.430000223 1 7.716464572 -5.249623084 23.99911585 0.928094853 1.372094328 0.306278189 0.214879079 196.5624323 399219.9866 0.019990457 0.050465834 5.63E-06 5.249623084 0.443999475 DADAGDEDEESEEPR ddPTM_HeLa_SAHA_4h_R1 1 DADAGDEDEESEEPR 15 0 Q9NZT2-2;Q9NZT2;A0A087X028 Q9NZT2-2 OGFR Opioid growth factor receptor 0 0 274.8 1.10E-55 3353600 254 323.37 305.26 412.16 387.04 217.96 272.08 256.53 406.23 221.92 FALSE FALSE TRUE 280.7168854 333.8474002 346.8592431 420.1379528 357.3850788 199.3885818 241.4648423 249.9683341 403.4030124 231.4880573 1.212662496 1.4421798 1.498389365 1.814944398 1.543859684 0.861334205 1.043098487 1.079832528 1.742651509 1 7.854793955 -3.079169314 11.21328988 1.201291349 1.164653029 0 0.336048215 0 0 0.04313693 0 0.000833356 3.079169314 -0.03663832 DADDAVYELDGK ddPTM_HeLa_SAHA_4h_R1 2 DADDAVYELDGK 12 0 B4DJK0;B4DUA4;Q13243;G3V5K8;Q13243-2;Q13243-3 B4DJK0 SRSF5 Serine/arginine-rich splicing factor 5 0 0 ; ; 138.99 0.0042673 5875000 2102.75 1964.39 1931.89 2332.26 2101.42 2442.8 2245.8 2041.5 2570.3 2271.94 FALSE FALSE TRUE 2323.926893 2028.037525 2195.157908 2377.404265 1940.409654 2234.659697 1993.096673 1989.281386 2552.413073 2369.894452 0.980603542 0.855750147 0.926268217 1.003168839 0.818774715 0.942936381 0.841006515 0.839396617 1.077015506 1 11.21060709 -2.030218631 0.147419497 1.035447268 0.459172367 0.529854531 0.056790582 29.52391943 0.374746142 0.125626705 3.458171834 0.009327846 2.030218631 -0.576274901 DADEGQDMSQVS(ph)VIK ddPTM_HeLa_SAHA_4h_R1 1 DADEGQDMSQVSVIK 15 0 A0A0A0MST1 A0A0A0MST1 IKZF1 1 0 DADEGQDMS(0.01)QVS(0.99)VIK 75.669 0.019079 6381700 1563.6 1170.8 1258 1205.1 1522.3 1641.9 1662.1 1780.8 1516 1474.3 TRUE FALSE FALSE 1728.066622 1208.734688 1429.433689 1228.426453 1405.661703 1502.000883 1475.076134 1735.249715 1505.450033 1537.864288 1.123679531 0.785982676 0.929492739 0.798787294 0.914034947 0.976679733 0.95917185 1.128350354 0.978922551 1 10.58671248 -7.283348221 24.81881803 1.058404222 0.925217882 0.189528916 0.097245947 702.0863751 795336.9106 0.01701574 0.019467215 5.21E-08 7.283348221 -0.13318634 DADETKEWIEEK ddPTM_HeLa_SAHA_4h_R1 1 DADETKEWIEEK 12 1 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 101.38 0.0086936 8278700 1854.6 1829.2 1903 1619.7 2134.5 2450.3 1907.3 2394.5 1815.9 1876.1 FALSE FALSE TRUE 2049.675337 1888.46728 2162.33093 1651.051636 1970.955071 2241.520655 1692.685584 2333.252157 1803.263004 1956.987852 1.04736232 0.964986716 1.104928131 0.843669844 1.0071371 1.145393239 0.864944349 1.192267062 0.921448236 1 10.93441909 -4.219107379 23.38803869 1.011863587 1.192268406 0.269198957 0.093894196 13353.40853 7377267.728 0.011003797 6.013003986 6.04E-05 4.219107379 0.18040482 DADLS(ph)PVNASIIK ddPTM_HeLa_SAHA_4h_R1 4 DADLSPVNASIIK 13 0 F5H1U9;O75970-5;O75970-3;O75970-2;O75970 F5H1U9 MPDZ Multiple PDZ domain protein 1 0 DADLS(1)PVNASIIK;DADLS(1)PVNASIIK;DADLS(1)PVNASIIK;DADLS(0.999)PVNAS(0.001)IIK ;;; 177.39 1.20E-05 21579400 4975.83 7634.55 4933.78 7428.3 6862.5 8283.7 7178.7 6623.59 11218 6471.7 TRUE FALSE FALSE 5499.210629 7881.914429 5606.129844 7572.085488 6336.696733 7577.882157 6370.933783 6454.168159 11139.93302 6750.726659 0.814610176 1.167565334 0.830448354 1.121669691 0.938668836 1.122528365 0.943740445 0.956070137 1.650182801 1 12.72082709 -7.288494731 24.99399135 0.912454815 1.007658861 0 0.256155039 1074.424013 992560.189 0.018541077 0.021205856 5.15E-08 7.288494731 0.095204046 DADLTDTAQTR ddPTM_HeLa_SAHA_4h_R1 1 DADLTDTAQTR 11 0 Q13630;E9PLH9;E9PP14;A0A0J9YX13;E9PKL9 Q13630 TSTA3 GDP-L-fucose synthase 0 0 109.83 0.0039819 0 883.03 1044.2 1040.4 1500.5 1021.6 1281 984.02 1207.1 1079.6 1211.6 FALSE FALSE TRUE 975.9111469 1078.032765 1182.180294 1529.544347 943.3252287 1171.851593 873.2954798 1176.22413 1072.086976 1263.838005 0.772180566 0.852983342 0.9353891 1.210237658 0.746397263 0.927216612 0.69098688 0.93067634 0.848278791 1 10.30359584 DADPILISLR ddPTM_HeLa_SAHA_4h_R1 1 DADPILISLR 10 0 Q9BR76 Q9BR76 CORO1B Coronin-1B 0 0 126.24 0.013078 2814800 1731.1 1808.3 1549.6 1632.7 1636.5 1714.3 1942.8 1657.9 1987.4 1753.4 FALSE FALSE TRUE 1913.185041 1866.890106 1760.771418 1664.303269 1511.111724 1568.231996 1724.191031 1615.493319 1973.569522 1828.997655 1.046029247 1.020717605 0.962697472 0.909953747 0.826196644 0.857427013 0.942697234 0.883267026 1.079044315 1 10.83683751 -6.413817883 2.189718345 1.022260908 0.880362938 0.808979675 0.03481826 0.100575443 0.947207364 0.005392031 0.008747028 3.86E-07 6.413817883 -0.141897969 DAEDAIYGR ddPTM_HeLa_SAHA_4h_R1 1 DAEDAIYGR 9 0 Q13242;S4R3G0;H0YIB4 Q13242 SRSF9 Serine/arginine-rich splicing factor 9 0 0 131.06 0.011492 7443000 2618.2 2606.7 2258 2343.7 2830.4 2585.9 2918.5 2227.7 2624.6 2438.6 FALSE FALSE TRUE 2893.594289 2691.15879 2565.708481 2389.065703 2613.535363 2365.566772 2590.102699 2170.71866 2606.335195 2543.73998 1.137535405 1.057953569 1.0086363 0.939194148 1.027438097 0.929956202 1.018226202 0.853357134 1.024607552 1 11.31273549 -6.579213609 2.941663047 1.066330239 0.960186335 0.408831457 0.056577081 0.214285664 3.779667221 0.010462343 0.01552172 2.64E-07 6.579213609 -0.106143904 DAEDAMDAMDGAVLDGR ddPTM_HeLa_SAHA_4h_R1 3 DAEDAMDAMDGAVLDGR 17 0 Q01130-2;Q01130;J3QL05;J3KP15 Q01130-2 SRSF2 Serine/arginine-rich splicing factor 2 0 0 ;; ;; 211.82 7.98E-20 17209800 3163.51 3192.13 3238.79 3449.04 2999.64 3508.11 3381.68 3433.86 3151.79 3202.34 FALSE FALSE TRUE 3496.262497 3295.557106 3680.155434 3515.801157 2769.808231 3209.199292 3001.164466 3346.026833 3129.856437 3340.408549 1.046657151 0.986573067 1.101708183 1.052506334 0.829182476 0.960720596 0.898442338 1.001681915 0.936968155 1 11.70580885 -5.789528135 24.99999985 1.02813486 0.923517415 0.400245174 0.058482508 126.5055781 112594.2084 0.007239514 0.013124587 1.62E-06 5.789528135 -0.104617446 DAEDDGEEEDD ddPTM_HeLa_SAHA_4h_R1 2 DAEDDGEEEDD 11 0 H0YCE2;Q5TB25;Q5TB19;Q9BTT0-3;Q9BTT0-2;Q9BTT0 H0YCE2 ANP32E Acidic leucine-rich nuclear phosphoprotein 32 family member E 0 0 ; ; 222.55 2.92E-15 41567000 12394 15242.1 9925.9 15507.9 16838.6 22522 17910.8 15734.1 17502 20551 FALSE FALSE TRUE 13697.65779 15735.95404 11278.54996 15808.07783 15548.43011 20602.99889 15895.42965 15331.6445 17380.20216 21437.05418 0.638971086 0.734053938 0.526124059 0.737418383 0.725306284 0.961092822 0.741493188 0.715193626 0.810755154 1 14.38781905 -9.376359159 1.076275057 1.001514701 0.719211161 0.228643255 0.116080494 0.353616248 0.726538852 0.075795723 0.019115248 4.20E-10 9.376359159 -0.282303539 DAEFYEHR ddPTM_HeLa_SAHA_4h_R1 3 DAEFYEHR 8 0 O95340;O95340-2 O95340 PAPSS2 Bifunctional 3-phosphoadenosine 5-phosphosulfate synthase 2;Sulfate adenylyltransferase;Adenylyl-sulfate kinase 0 0 ;; ;; 154.12 0.00014603 11084200 12686.3 12432.4 12054.5 11132.3 13549 13450.5 14967.5 10867.1 11879 13018.6 FALSE FALSE TRUE 14020.70324 12835.21792 13697.22448 11347.78176 12510.87855 12304.44173 13283.31751 10589.13532 11796.33307 13579.89556 1.032460315 0.945163228 1.008639899 0.835631004 0.921279438 0.906077788 0.978160506 0.779765593 0.868661546 1 13.72918476 -6.280801435 24.22685904 1.00888315 0.892681155 0.188360227 0.069760931 303.7705095 380093.4826 0.007794857 0.011918906 5.24E-07 6.280801435 -0.116201995 DAELQDQEFGKRDS(ph)LGTYSSR ddPTM_HeLa_SAHA_4h_R1 3 DAELQDQEFGKRDSLGTYSSR 21 2 Q9C0C2;Q9C0C2-2;A0A2R8Y5C4 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 DAELQDQEFGKRDS(0.984)LGT(0.014)Y(0.001)SSR;DAELQDQEFGKRDS(0.694)LGT(0.273)Y(0.018)S(0.01)S(0.005)R;DAELQDQEFGKRDS(0.937)LGT(0.055)Y(0.006)S(0.001)S(0.001)R ;; 70.02 0.0020818 131916000 7323.4 6317.74 6603.9 7048.7 7383.5 7366.3 8008.4 7255.7 6245.2 6735.5 TRUE FALSE FALSE 8093.708813 6522.438921 7503.8451 7185.137781 6817.777825 6738.649798 7107.273755 7070.1097 6201.739145 7025.900368 1.151981723 0.928342074 1.068026119 1.022664343 0.970377812 0.959115479 1.011581916 1.006292337 0.882696711 1 12.7784674 -7.256165667 24.99728691 1.071769147 0.997344845 0 0.077590605 496.1380891 2351685.462 0.010868447 0.013115897 5.54E-08 7.256165667 -0.074424302 DAFVAIVQSVK ddPTM_HeLa_SAHA_4h_R1 1 DAFVAIVQSVK 11 0 E5RK69;P08133-2;P08133;E7EMC6 E5RK69 ANXA6 Annexin;Annexin A6 0 0 103.34 0.015717 269120 0 209.68 248.7 203.32 133.06 66.094 156.21 0 0 220.45 FALSE FALSE TRUE 0 216.4737696 282.5915408 207.2555526 122.8649715 60.46241937 138.6328397 0 0 229.9546784 0 0.941375801 1.228901029 0.901288698 0.534300813 0.262931895 0.602870273 0 0 1 7.845205739 -5.413623587 4.797137272 0.635837898 0.323016784 0.149176897 0.405526526 0.477097236 17.09274199 0.067933114 0.155014252 3.86E-06 5.413623587 -0.312821114 DAFYSK(ac)TK ddPTM_HeLa_SAHA_4h_R1 1 DAFYSKTK 8 1 Q05BQ5-2;Q05BQ5 Q05BQ5-2 MBTD1 MBT domain-containing protein 1 0 1 DAFYSK(1)TK 85.731 0.013499 0 452.44 772.31 686.51 1046.5 1340 844.6 1106.8 713.16 251.55 267.55 FALSE TRUE FALSE 500.0297151 797.3333507 780.0640076 1066.756521 1237.329489 772.6353284 982.2599511 694.9183998 249.7994431 279.0853899 1.791672847 2.85695124 2.795072892 3.822330224 4.433515814 2.768454948 3.519567798 2.489984876 0.895064565 1 8.124562791 -7.29799604 1.065053261 1.233378911 3.416090947 0.751001343 0.545538127 0.162864948 0.362603447 0.11776829 0.137513915 5.04E-08 7.29799604 2.182712036 DAGDPS(ph)PPNK ddPTM_HeLa_SAHA_4h_R1 2 DAGDPSPPNK 10 0 A0A0A0MRT2;Q9BTA9-5;Q9BTA9-2;Q9BTA9;E9PMZ7;C9JMU2;A0A494C0B7;A0A494C0C1;A0A494C0S5;C9JVK6;C9JD58;J3QTA0;Q9BTA9-3 A0A0A0MRT2 WAC WW domain-containing adapter protein with coiled-coil 1 0 DAGDPS(1)PPNK;DAGDPS(1)PPNK ; 128.68 0.001833 51564000 15481.7 16275.8 13555.1 16020.8 16652.1 19424.4 17917.4 16819.1 17693.6 16605 TRUE FALSE FALSE 17110.13624 16803.1466 15402.31844 16330.90575 15376.2197 17769.33184 15901.287 16388.89178 17570.4688 17320.92281 0.987830523 0.970106892 0.889231977 0.942842707 0.887725202 1.025888287 0.91803925 0.946190451 1.014407199 1 14.08022817 -6.993325616 24.70713265 0.993448853 0.935982825 0.388756034 0.036857012 113.9004985 421631.9677 0.005516566 0.007240239 1.02E-07 6.993325616 -0.057466027 DAGGPRPES(ph)PVPAGR ddPTM_HeLa_SAHA_4h_R1 1 DAGGPRPESPVPAGR 15 1 E9PS47;E9PLE4;Q9BVG9 E9PS47 PTDSS2 Phosphatidylserine synthase 2 1 0 DAGGPRPES(1)PVPAGR 69.111 0.01696 11182000 1470.1 3945.6 2087 1374.7 1921.8 1925.9 2513.2 1934.9 1763.8 2137.5 TRUE FALSE FALSE 1624.731863 4073.440029 2371.405491 1401.309306 1774.552099 1761.802485 2230.408122 1885.40806 1751.525572 2229.658086 0.728691037 1.826934836 1.063573606 0.628486186 0.795885302 0.79016711 1.000336391 0.845604118 0.785557922 1 11.12260678 -6.289143035 24.54202205 0.968520422 0.820434696 0.114142128 0.30153872 1619.992563 1435110.02 0.050024921 0.076425889 5.14E-07 6.289143035 -0.148085726 DAGT(ph)IAGLNVLR ddPTM_HeLa_SAHA_4h_R1 2 DAGTIAGLNVLR 12 0 P11142;E9PKE3;P11142-2;E9PN89;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PI65 P11142 HSPA8 Heat shock cognate 71 kDa protein 1 0 DAGT(1)IAGLNVLR;DAGT(1)IAGLNVLR ; 109.95 0.0054734 3925300 1046.18 1009.48 1043.49 1239.54 1041.17 1571.11 1764.9 1207.28 946.59 954.1 TRUE FALSE FALSE 1156.222012 1042.187814 1185.691383 1263.533089 961.3957795 1437.242589 1566.308807 1176.399526 940.0026031 995.2359203 1.161756714 1.047176647 1.191367151 1.269581477 0.96599787 1.444122504 1.573806547 1.182030815 0.944502287 1 9.958894746 -3.937323029 0.208377055 0.998307332 1.802269317 0.414533974 0.150055714 11.70165809 0.399816898 0.160811353 2.513874793 0.000115525 3.937323029 0.803961985 DAGTIAGLNVLR ddPTM_HeLa_SAHA_4h_R1 4 DAGTIAGLNVLR 12 0 P11142;E9PKE3;P11142-2;E9PN89;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PI65 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ;;; ;;; 173.24 2.05E-10 101052900 6790.73 6714.58 7269.9 8777.5 8063.9 7110.56 8612.5 6998.8 6493.49 6602.54 FALSE FALSE TRUE 7505.010138 6932.136798 8260.604112 8947.401205 7446.045724 6504.700285 7643.398833 6819.78083 6448.301274 6887.207811 1.089702873 1.006523542 1.199412641 1.299133328 1.081141433 0.944461161 1.109796458 0.990209823 0.936272209 1 12.74970349 -1.612837674 13.31983315 1.064799304 0.114149227 0 0.109592094 0 0 0.014109385 0 0.024387222 1.612837674 -0.950650076 DAGVIAGLNVLR ddPTM_HeLa_SAHA_4h_R1 2 DAGVIAGLNVLR 12 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 0 0 ; ; 157.75 1.26E-06 6074100 1314.51 1743.01 2565.9 1969.39 2279.91 1520.35 2212.09 1104.97 1105.13 1344.94 FALSE FALSE TRUE 1452.776193 1799.484668 2915.567489 2007.510391 2105.223788 1390.807627 1963.179811 1076.706467 1097.43931 1402.926945 1.035532319 1.282664556 2.078203358 1.430944354 1.500594023 0.991361404 1.399345716 0.767471514 0.782249791 1 10.45422417 -7.211752835 4.699142111 1.016146989 1.37839496 0.235808218 0.330167167 0.247894454 12.23581241 0.053942262 0.06562315 6.14E-08 7.211752835 0.362247971 DAHDVS(ph)PTST(ph)DTEAQLTVER ddPTM_HeLa_SAHA_4h_R1 1 DAHDVSPTSTDTEAQLTVER 20 0 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 2 0 DAHDVS(0.999)PT(0.002)S(0.057)T(0.938)DT(0.003)EAQLTVER 137.9 3.78E-05 8817100 2029.9 2505.7 2104.6 2367.2 2938.3 273.16 2500.9 2671.9 2243.4 2236.6 TRUE FALSE FALSE 2243.414196 2586.886324 2391.403928 2413.020579 2713.168089 249.8852312 2219.49215 2603.556667 2227.787997 2333.030772 0.961587915 1.108809346 1.025020311 1.034285792 1.162937121 0.107107559 0.95133428 1.115954705 0.954890104 1 11.18798962 DAHDVS(ph)PTSTDTEAQLTVER ddPTM_HeLa_SAHA_4h_R1 10 DAHDVSPTSTDTEAQLTVER 20 0 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 DAHDVS(0.991)PT(0.008)S(0.001)TDTEAQLTVER;DAHDVS(0.893)PT(0.097)S(0.006)T(0.002)DT(0.001)EAQLTVER;DAHDVS(1)PTSTDTEAQLTVER;DAHDVS(0.999)PT(0.001)STDTEAQLTVER;DAHDVS(0.493)PT(0.493)S(0.011)T(0.003)DT(0.001)EAQLTVER;DAHDVS(0.996)PT(0.004)STDTEAQLTVER;DAHDVS(0.993)PT(0.004)S(0.001)T(0.001)DT(0.001)EAQLTVER;DAHDVS(0.982)PT(0.012)S(0.004)T(0.001)DT(0.001)EAQLTVER;DAHDVS(0.997)PT(0.002)S(0.002)TDTEAQLTVER;DAHDVS(0.65)PT(0.259)S(0.068)T(0.021)DT(0.001)EAQLTVER ;;;;;;;;; 223.93 8.76E-27 694540400 14815.14 16039.19 14241.69 14432.28 17672.67 1271.435 17934.22 17900.31 17330.16 15849.75 TRUE FALSE FALSE 16373.4644 16558.87028 16182.47335 14711.63765 16318.59384 1163.101585 15916.21437 17442.44599 17209.55801 16533.11029 0.990343868 1.001558085 0.978791834 0.889828798 0.98702504 0.070349835 0.962687243 1.055000885 1.040914728 1 14.01307054 DAINQGMDEELER ddPTM_HeLa_SAHA_4h_R1 2 DAINQGMDEELER 13 0 P11177-2;P11177;F8WF02;C9J634;P11177-3 P11177-2 PDHB "Pyruvate dehydrogenase E1 component subunit beta, mitochondrial" 0 0 ; ; 221.55 6.85E-16 3079600 934.93 1647.84 1193.74 954.63 1602.65 1373.29 1478.03 1188.61 1568.24 1414.61 FALSE FALSE TRUE 1033.270227 1701.231097 1356.41667 973.1082441 1479.855303 1256.277966 1311.718174 1158.207077 1557.32649 1475.60076 0.700236985 1.152907442 0.919230125 0.659465806 1.002883262 0.851367118 0.888938397 0.784905449 1.055384717 1 10.52708672 DAINQGMDEELERDEK ddPTM_HeLa_SAHA_4h_R1 1 DAINQGMDEELERDEK 16 1 P11177-2;P11177;F8WF02;C9J634;P11177-3 P11177-2 PDHB "Pyruvate dehydrogenase E1 component subunit beta, mitochondrial" 0 0 70.47 0.021527 18560000 596.67 699.6 541.7 596.76 617.58 572.87 796.11 519.3 684.25 740.52 FALSE FALSE TRUE 659.4304882 722.267499 615.5200549 608.3111527 570.2611538 524.0582531 706.5296076 506.0170579 679.4882485 772.4474412 0.853689783 0.935037726 0.79684393 0.787511383 0.73825237 0.67843872 0.914663665 0.655082833 0.879656288 1 9.593292962 -8.147916716 0.190295728 1.105946357 0.678350989 0.424722514 0.081211946 2.202271082 0.264427328 0.332548387 0.189244689 7.11E-09 8.147916716 -0.427595368 DALDGPAAEAEPEHSFDGLR ddPTM_HeLa_SAHA_4h_R1 1 DALDGPAAEAEPEHSFDGLR 20 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 144.17 5.82E-05 7279600 1044.3 897.94 749.3 1065.5 1018.8 1062.1 962.16 1179.3 1114.2 1030.4 FALSE FALSE TRUE 1154.144265 927.0338452 851.4107018 1086.124293 940.7397641 971.6031048 853.8952245 1149.135214 1106.446191 1074.825587 1.073796791 0.862497001 0.792138476 1.01051213 0.875248762 0.903963505 0.794450035 1.069136451 1.029419289 1 10.06988686 -7.260114458 24.99703379 1.034848485 0.89615969 0.351291005 0.082797899 87.83881402 1657241.37 0.013243416 0.015753639 5.49E-08 7.260114458 -0.138688795 DALDGPAAEAEPEHSFDGLRR ddPTM_HeLa_SAHA_4h_R1 4 DALDGPAAEAEPEHSFDGLRR 21 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ;;; ;;; 137.73 2.89E-06 40577700 12551.1 11850.7 12860.2 13397.9 14189.7 14842.5 13946.6 12586.3 12422.4 12817.4 FALSE FALSE TRUE 13871.28228 12234.67046 14612.72108 13657.23573 13102.48825 13577.8355 12377.29186 12264.36067 12335.95151 13370.02084 1.037491448 0.915082377 1.092946769 1.021482007 0.979990114 1.015543331 0.925749631 0.917303033 0.922657612 1 13.70671409 -4.749147948 6.492783735 1.013627561 0.920391263 0.221829359 0.051242376 0.097828232 16.73714722 0.005579558 0.019756019 1.78E-05 4.749147948 -0.093236298 DALGDSLQVPVS(ph)PSSTTSSR ddPTM_HeLa_SAHA_4h_R1 5 DALGDSLQVPVSPSSTTSSR 20 0 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 DALGDSLQVPVS(0.393)PS(0.026)S(0.026)T(0.079)T(0.214)S(0.214)S(0.048)R;DALGDSLQVPVS(0.968)PS(0.029)S(0.003)TTSSR;DALGDSLQVPVS(0.917)PS(0.037)S(0.013)T(0.009)T(0.009)S(0.009)S(0.006)R;DALGDSLQVPVS(0.994)PS(0.004)S(0.002)TTSSR;DALGDSLQVPVS(0.93)PS(0.052)S(0.014)T(0.002)TSS(0.001)R ;;;; 282.97 1.34E-77 579577600 3751.8 3760.2 3161.73 3388 3920.43 4217.26 4003.25 3954.97 3891.14 3584.75 TRUE FALSE FALSE 4146.431538 3882.032947 3592.594099 3453.579639 3620.0475 3857.925722 3552.793774 3853.807594 3864.06124 3739.306116 1.108877265 1.038169336 0.960764909 0.92358837 0.968106752 1.031722358 0.950121136 1.03062105 1.033363175 1 11.86855487 -6.843191525 5.578489497 1.052384826 0.975946203 0.402294062 0.04020634 0.177487568 9.206241145 0.008157514 0.010815809 1.43E-07 6.843191525 -0.076438623 DALGDSLQVPVSPS(ph)STTSSR ddPTM_HeLa_SAHA_4h_R1 1 DALGDSLQVPVSPSSTTSSR 20 0 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 DALGDSLQVPVS(0.431)PS(0.437)S(0.104)T(0.012)T(0.012)S(0.003)S(0.001)R 205 2.51E-20 202560000 444.43 894.73 515.74 704.93 820.67 697.3 830.69 613.84 598.11 556.1 TRUE FALSE FALSE 491.1771865 923.7198391 586.0223613 718.5749395 757.7904419 637.8861171 737.2185749 598.1388616 593.9477038 580.0761925 0.846745984 1.592411223 1.010250669 1.238759578 1.306363632 1.099659192 1.270899555 1.031138442 1.023913257 1 9.180098599 DALNIETAIK ddPTM_HeLa_SAHA_4h_R1 6 DALNIETAIK 10 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YKS4;H0YMM1;H0YKX9;H0YMT9;H0YLV6;H0YKZ7;H0YMW4;H0YKL9;H0YKV8;H0YMD9;H0YNB8;H0YKN4 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ;;;;; ;;;;; 187.99 2.97E-17 87788800 11871.83 13768.63 10303.53 11386.9 13770.93 15927.3 13543.37 14787.48 15332.74 12067.85 FALSE FALSE TRUE 13120.56355 14214.74265 11707.64141 11607.30992 12715.80432 14570.20444 12019.43436 14409.23767 15226.03821 12588.15407 1.042294484 1.129215814 0.930052281 0.922081971 1.010140506 1.157453615 0.95482104 1.144666453 1.209552896 1 13.61977912 -4.239720928 23.44764857 1.020359011 1.144666755 0.069127289 0.094629828 2917.494046 3149668.122 0.009778016 0.565750829 5.76E-05 4.239720928 0.124307744 DALQDS(ph)LAR ddPTM_HeLa_SAHA_4h_R1 3 DALQDSLAR 9 0 Q96A99-2;Q96A99 Q96A99-2 PTX4 Pentraxin-4 1 0 DALQDS(1)LAR;DALQDS(1)LAR;DALQDS(1)LAR ;; 118.74 0.0038479 12445300 5008.9 5041.6 4236.7 5622.6 5436.1 5949.4 5554.7 5086 5042.1 4682.3 TRUE FALSE FALSE 5535.759084 5204.951148 4814.055412 5731.433553 5019.587192 5442.47765 4929.670537 4955.907484 5007.011616 4884.176868 1.133406761 1.065676221 0.985643138 1.173469698 1.027724288 1.11430806 1.009314501 1.014686327 1.025149529 1 12.25389973 -4.721656624 24.60333082 1.067041068 1.012000204 0.124174557 0.056923423 233.1053914 144158.4283 0.008651224 0.032368934 1.90E-05 4.721656624 -0.055040864 DAMAPGT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 DAMAPGTPK 9 0 Q5VTB9-3;Q5VTB9 Q5VTB9-3 RNF220 E3 ubiquitin-protein ligase RNF220 1 0 DAMAPGT(1)PK 107.06 0.012569 3765900 3218.4 3137.5 2739.8 3398.7 3200.1 4086.7 3080 3072.4 3130.8 2944.2 TRUE FALSE FALSE 3556.926079 3239.157059 3113.165676 3464.486753 2954.909029 3738.490169 2733.430294 2993.812457 3109.012508 3071.138871 1.158178197 1.054708756 1.013684437 1.128078833 0.962154156 1.217297663 0.890037999 0.974821583 1.012332115 1 11.58455803 -4.730261119 24.99772334 1.073814433 0.932429682 0.328368676 0.077408544 173.2395715 138895.5242 0.010897023 0.040764328 1.86E-05 4.730261119 -0.141384751 DAMEQCHNYNAR ddPTM_HeLa_SAHA_4h_R1 1 DAMEQCHNYNAR 12 0 J3KMZ8;Q92785;Q92785-2;E9PN04 J3KMZ8 DPF2 Zinc finger protein ubi-d4 0 0 98.898 0.0017032 0 849.19 609.24 692.81 959.18 951.91 1141.2 909.22 1010.8 974.98 983.44 FALSE FALSE TRUE 938.5117004 628.9797757 787.2225388 977.7463159 878.9748615 1043.96334 806.9121727 984.9451996 968.1950348 1025.840911 0.91487061 0.613135788 0.767392419 0.953116907 0.856833503 1.017665925 0.786586072 0.960134451 0.943806222 1 10.0025913 -7.83986368 2.337425142 0.971733998 0.852714389 0.149894756 0.110467676 0.336217483 3.775463852 0.022699733 0.021790883 1.45E-08 7.83986368 -0.11901961 DANGNSFATR ddPTM_HeLa_SAHA_4h_R1 2 DANGNSFATR 10 0 P62701;C9JEH7;Q8TD47;P22090 P62701 RPS4X;RPS4Y1;RPS4Y2 "40S ribosomal protein S4, X isoform;40S ribosomal protein S4, Y isoform 2;40S ribosomal protein S4, Y isoform 1" 0 0 ; ; 141.91 0.0062854 21365200 2412.2 2604.6 2062.97 2209.82 2439.8 2799.8 2918.5 2457.3 2333.84 2590.3 FALSE FALSE TRUE 2665.926264 2688.990749 2344.100808 2252.594262 2252.863051 2561.241289 2590.102699 2394.445824 2317.598617 2701.98051 0.986656363 0.995192504 0.867549118 0.833682646 0.833782125 0.94791257 0.958594146 0.886181753 0.857740687 1 11.39980155 -6.768113256 24.98426399 0.99363481 0.888958114 0.190356087 0.057835528 80.81838059 302550.8701 0.006826187 0.00908561 1.71E-07 6.768113256 -0.104676696 DANQAK(ac)LSER ddPTM_HeLa_SAHA_4h_R1 1 DANQAKLSER 10 1 O95239;O95239-2 O95239 KIF4A Chromosome-associated kinesin KIF4A 0 1 DANQAK(1)LSER 119.22 0.0039889 805880 68.634 0 0 193.29 364.23 270.46 501.42 450.92 0 0 FALSE TRUE FALSE 75.85323902 0 0 197.0314075 336.3227761 247.4152864 444.9989019 439.3861193 0 0 0 DANSS(ph)FFDNSSS(ph)PHLLDQLK ddPTM_HeLa_SAHA_4h_R1 1 DANSSFFDNSSSPHLLDQLK 20 0 P49454 P49454 CENPF Centromere protein F 2 0 DANS(0.406)S(0.494)FFDNS(0.104)S(0.082)S(0.914)PHLLDQLK 86.641 0.0036829 2973200 810.24 1065.3 680.34 699.48 1333.3 1435.6 858.95 914 889.32 1177.3 TRUE FALSE FALSE 895.4647607 1099.816419 773.0531921 713.0194469 1231.142842 1313.278804 762.2986854 890.6212035 883.1311497 1228.059165 0.7291707 0.895572828 0.629491815 0.580606755 1.002511017 1.069393757 0.620734495 0.725226625 0.719127527 1 10.26216435 -9.358813987 0.965323082 1.00641584 0.781153086 0 0.177216847 0.776793701 1.235265599 0.126519179 0.029359616 4.38E-10 9.358813987 -0.225262754 DANVSGTLVSSST(ph)LEK ddPTM_HeLa_SAHA_4h_R1 2 DANVSGTLVSSSTLEK 16 0 Q96IZ0 Q96IZ0 PAWR PRKC apoptosis WT1 regulator protein 1 0 DANVSGTLVSS(0.019)S(0.019)T(0.961)LEK;DANVSGTLVS(0.001)S(0.006)S(0.053)T(0.94)LEK ; 201.18 6.66E-15 8336900 1601.44 1913.94 1608.54 2260.9 1640.03 1745.57 1922.88 1866.6 1832.12 1780.25 TRUE FALSE FALSE 1769.886807 1975.952912 1827.743454 2304.662989 1514.371256 1596.837616 1706.512482 1818.855075 1819.370128 1857.00529 0.953086573 1.064053464 0.98424246 1.24106431 0.815491083 0.859899336 0.918959408 0.979456055 0.979733411 1 10.85876221 DAPIS(ph)PASIASSSSTPSSK ddPTM_HeLa_SAHA_4h_R1 3 DAPISPASIASSSSTPSSK 19 0 Q04727-4;Q04727;Q04727-3;H0Y5S0;H7C4E4 Q04727-4 TLE4 Transducin-like enhancer protein 4 1 0 DAPIS(0.999)PAS(0.001)IASSSSTPSSK;DAPIS(1)PASIASSSSTPSSK;DAPIS(1)PASIASSSSTPSSK ;; 210.98 4.74E-49 15480300 5110.59 5117.19 4162.17 4932.39 5204.07 5385.52 5018.16 5158.47 5523.06 4705.63 TRUE FALSE FALSE 5648.145304 5282.990314 4729.368852 5027.863541 4805.335281 4926.643398 4453.50343 5026.523807 5484.624576 4908.512738 1.15068364 1.076291454 0.963503428 1.024315064 0.978979894 1.003693718 0.907302001 1.024042123 1.117369938 1 12.26107024 -6.767825026 24.91733112 1.073529504 0.982718151 0.513762099 0.048205485 128.7710146 502475.796 0.010102399 0.013458104 1.71E-07 6.767825026 -0.090811353 DAPQDFHPDR ddPTM_HeLa_SAHA_4h_R1 6 DAPQDFHPDR 10 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ;;;;; ;;;;; 155.33 0.00029299 241366900 30081.1 30511.4 29164.8 28720.3 33941.5 33048.9 33587.6 28782.1 26850.3 29828.3 FALSE FALSE TRUE 33245.16812 31499.98938 33139.22706 29276.22294 31340.9096 30232.94779 29808.23485 28045.89556 26663.44658 31114.34399 1.068483659 1.012394457 1.065078765 0.940923676 1.007281709 0.971672352 0.958022283 0.901381548 0.856950305 1 14.92529221 -4.598439663 0.588970083 1.032143092 0.861917159 0 0.063858548 1.447176431 0.431308097 0.006868774 0.154305373 2.52E-05 4.598439663 -0.170225932 DAPSGIGSIFLSASELEDGSEEMGQGAVS(ph)SSPR ddPTM_HeLa_SAHA_4h_R1 1 DAPSGIGSIFLSASELEDGSEEMGQGAVSSSPR 33 0 O14879 O14879 IFIT3 Interferon-induced protein with tetratricopeptide repeats 3 1 0 DAPSGIGSIFLSAS(0.006)ELEDGS(0.02)EEMGQGAVS(0.492)S(0.349)S(0.133)PR 76.267 0.00013037 0 0 260.8 261.51 193.33 234.87 220.35 239.62 277.61 228.55 178.8 TRUE FALSE FALSE 0 269.2500911 297.1472209 197.0721817 216.8743113 201.5749403 212.657327 270.5091382 226.9595019 186.508943 0 1.443630996 1.593206289 1.056636634 1.162809181 1.080778954 1.140199089 1.450381594 1.216882677 1 7.543100999 -7.243574219 24.89720977 0.527777764 1.262175342 0.272264867 0.354152649 549.4833881 765770.6718 0.066764261 0.081675983 5.71E-08 7.243574219 0.734397578 DAPSLEEVEGHVADGS(ph)ATEMGTTK ddPTM_HeLa_SAHA_4h_R1 5 DAPSLEEVEGHVADGSATEMGTTK 24 0 C9J470;E9PHA2;Q15003;Q15003-2 C9J470 NCAPH Condensin complex subunit 2 1 0 DAPSLEEVEGHVADGS(0.705)AT(0.242)EMGT(0.041)T(0.012)K;DAPSLEEVEGHVADGS(0.934)AT(0.065)EMGT(0.001)TK;DAPSLEEVEGHVADGS(0.926)AT(0.07)EMGT(0.003)T(0.001)K;DAPSLEEVEGHVADGS(0.997)AT(0.003)EMGTTK;DAPSLEEVEGHVADGS(0.936)AT(0.064)EMGTTK ;;;; 219.58 9.39E-31 49104300 4162.73 4320.36 3868.59 4640.45 5844.97 6616.3 5717.05 5759.2 5055.67 3636.2 TRUE FALSE FALSE 4600.585041 4460.342499 4395.781298 4730.27262 5397.129661 6052.554018 5073.752488 5611.888003 5020.487181 3792.974377 1.212922784 1.175948492 1.158927233 1.247114309 1.422928057 1.595727631 1.337671174 1.479548092 1.323628024 1 11.88911391 -5.169108385 0.16952352 0.918065886 1.860702325 0.39592812 0.12823973 4.812711943 0.208057065 0.237628014 1.070326181 6.77E-06 5.169108385 0.942636439 DAPSLEEVEGHVADGS(ph)ATEMGTTKK ddPTM_HeLa_SAHA_4h_R1 1 DAPSLEEVEGHVADGSATEMGTTKK 25 1 C9J470;E9PHA2;Q15003;Q15003-2 C9J470 NCAPH Condensin complex subunit 2 1 0 DAPSLEEVEGHVADGS(0.948)AT(0.047)EMGT(0.004)T(0.001)KK 85.814 6.80E-05 0 276.52 296.66 299.13 426.39 543.17 475.32 466.58 227.67 401.79 388.72 TRUE FALSE FALSE 305.6056423 306.2719786 339.8938786 434.643395 501.5524319 434.8200619 414.0791904 221.8465311 398.9939107 405.4796215 0.753689276 0.755332605 0.838251445 1.071924141 1.236936224 1.07235984 1.021208387 0.547121284 0.984004841 1 8.6634856 -6.270230911 23.96116558 0.865965718 1.009953005 0.098596333 0.181963871 623.1763207 1698455.501 0.029502317 0.045531911 5.37E-07 6.270230911 0.143987287 DAPSLEEVEGHVADGSAT(ph)EMGTTK ddPTM_HeLa_SAHA_4h_R1 1 DAPSLEEVEGHVADGSATEMGTTK 24 0 C9J470;E9PHA2;Q15003;Q15003-2 C9J470 NCAPH Condensin complex subunit 2 1 0 DAPSLEEVEGHVADGS(0.096)AT(0.624)EMGT(0.229)T(0.051)K 88.708 0.00012306 4564500 645.79 956.38 502.04 701.61 868.2 936.61 725.85 864.01 777.69 711.63 TRUE FALSE FALSE 713.7171552 987.3673395 570.4553967 715.1906761 801.6787036 856.8055588 644.1754477 841.9098753 772.277992 742.3118519 0.961478863 1.330124714 0.768484829 0.963463906 1.079975621 1.154239363 0.867796258 1.134172751 1.040368667 1 9.535881593 -5.761305524 24.99999992 0.991488529 1.052184829 0.014432117 0.148479432 10.88909526 2032916.13 0.020379609 0.038783754 1.73E-06 5.761305524 0.0606963 DAPT(ph)SPASVASSSSTPSSK ddPTM_HeLa_SAHA_4h_R1 1 DAPTSPASVASSSSTPSSK 19 0 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726;A0A0D9SES8 H0YKH0 TLE3 Transducin-like enhancer protein 3 1 0 DAPT(0.5)S(0.5)PASVASSSSTPSSK 164.82 4.67E-06 95505000 4247.3 3773.1 3406.3 3662.9 4381.6 5514.4 4559.4 4626.8 4128 3770.5 TRUE FALSE FALSE 4694.050501 3895.350916 3870.492825 3733.800726 4045.882755 5044.542097 4046.364312 4508.453156 4099.272912 3933.064707 1.193484179 0.990411093 0.984090808 0.949336206 1.028684513 1.282598297 1.028806952 1.14629519 1.042259209 1 11.94143821 DAPTS(ph)PASVASSSST(ph)PSSK ddPTM_HeLa_SAHA_4h_R1 2 DAPTSPASVASSSSTPSSK 19 0 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726;A0A0D9SES8 H0YKH0 TLE3 Transducin-like enhancer protein 3 2 0 DAPT(0.068)S(0.932)PASVASS(0.001)S(0.001)S(0.196)T(0.795)PS(0.006)S(0.001)K;DAPT(0.1)S(0.865)PAS(0.03)VAS(0.005)S(0.001)S(0.001)S(0.079)T(0.913)PS(0.005)S(0.001)K ; 170.61 1.39E-06 12876000 2324.95 2034.1 1420.74 1579.94 2107.8 2362.31 2048.06 2393 1959.28 1720.66 TRUE FALSE FALSE 2569.498908 2100.006175 1614.351048 1610.522023 1946.300819 2161.027898 1817.606899 2331.790525 1945.645211 1794.846073 1.431598479 1.170020207 0.899437045 0.8973037 1.084383139 1.204018512 1.012681213 1.299159053 1.084017866 1 10.80964441 -6.981956294 24.8543284 1.208915612 1.060782968 0.084423474 0.155499564 389.2660345 536193.4744 0.031652694 0.041595575 1.04E-07 6.981956294 -0.148132644 DAPTS(ph)PASVASSSSTPS(ph)SK ddPTM_HeLa_SAHA_4h_R1 1 DAPTSPASVASSSSTPSSK 19 0 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726;A0A0D9SES8 H0YKH0 TLE3 Transducin-like enhancer protein 3 2 0 DAPT(0.084)S(0.908)PAS(0.008)VASS(0.013)S(0.004)S(0.018)T(0.196)PS(0.639)S(0.131)K 186.74 1.13E-12 12429000 2331.5 2618.3 2248.5 2313.3 2735.5 2609.7 2525.6 2599.6 2512.8 2755.3 TRUE FALSE FALSE 2576.737867 2703.134638 2554.91387 2358.077267 2525.906581 2387.338878 2241.412841 2533.105996 2495.31322 2874.094467 0.896539031 0.940516976 0.888945683 0.820459207 0.878853013 0.830640365 0.779867491 0.881357946 0.868208491 1 11.48889177 -8.782311604 0.155334724 1.118780576 0.769375896 0.186721899 0.053004209 3.60743443 0.21419139 0.334854628 0.136945061 1.65E-09 8.782311604 -0.34940468 DAPTS(ph)PASVASSSSTPSSK ddPTM_HeLa_SAHA_4h_R1 2 DAPTSPASVASSSSTPSSK 19 0 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726;A0A0D9SES8 H0YKH0 TLE3 Transducin-like enhancer protein 3 1 0 DAPT(0.023)S(0.968)PAS(0.009)VASSSSTPSSK;DAPT(0.003)S(0.995)PAS(0.001)VASSSSTPSSK ; 254.59 1.26E-51 247060000 3478.2 3090.3 3056.5 2977.13 4323.3 4014.2 4007.1 3565.5 3534.9 3341.8 TRUE FALSE FALSE 3844.053035 3190.427748 3473.023902 3034.756656 3992.049688 3672.167577 3556.210562 3474.299673 3510.300343 3485.881352 1.102749246 0.915242782 0.996311564 0.870585183 1.145205268 1.053440208 1.020175446 0.996677546 1.007005112 1 11.76730775 -7.294276492 24.99261591 1.04852047 1.003024243 0.040797077 0.074431806 1418.82452 1079875.576 0.013381908 0.015303206 5.08E-08 7.294276492 -0.045496227 DAQHYGGWEHR ddPTM_HeLa_SAHA_4h_R1 2 DAQHYGGWEHR 11 0 Q14697;Q14697-2;F5H6X6;E9PKU7 Q14697 GANAB Neutral alpha-glucosidase AB 0 0 ; ; 119.74 0.00090788 34155000 8966.2 8290.8 9164.7 12906.2 12925.2 3195.8 12366.5 5044.7 9238.3 8907.1 FALSE FALSE TRUE 9909.306054 8559.42736 10413.61759 13156.01816 11934.87397 2923.499861 10974.98887 4915.663879 9174.009918 9291.128671 1.066534154 0.921247317 1.120812977 1.415976318 1.284545117 0.314654975 1.181233116 0.529070692 0.987394561 1 13.18163815 -5.284252563 24.99792958 1.074680698 0.725610807 0.385754166 0.247903769 683.2888177 748724.1623 0.033447467 0.074837588 5.20E-06 5.284252563 -0.349069891 DAQRLS(ph)PIPEEVPK ddPTM_HeLa_SAHA_4h_R1 3 DAQRLSPIPEEVPK 14 1 Q96T23-3;Q96T23-2;Q96T23;H0YER1;H0YCN2 Q96T23-3 RSF1 Remodeling and spacing factor 1 1 0 DAQRLS(1)PIPEEVPK;DAQRLS(1)PIPEEVPK;DAQRLS(1)PIPEEVPK ;; 99.238 0.0043602 126109000 11075.1 14545.3 10548.2 12227.4 14025.2 15756.9 13398.9 11423.7 16350.8 12969.1 TRUE FALSE FALSE 12240.02983 15016.57726 11985.65376 12464.07901 12950.59221 14414.32347 11891.22051 11131.4983 16237.01345 13528.26137 0.904774789 1.110015312 0.885971481 0.921336354 0.957299083 1.065497116 0.878991038 0.822832882 1.200229136 1 13.72368882 -4.113925645 0.008924269 1.841524606 1.97E-05 0.120131505 0.105372904 16975.93938 22.91528237 2210.328386 2526.752682 7.69E-05 4.113925645 -1.841504949 DAS(ph)LVLEESGLK ddPTM_HeLa_SAHA_4h_R1 1 DASLVLEESGLK 12 0 Q9P219 Q9P219 CCDC88C Protein Daple 1 0 DAS(1)LVLEESGLK 93.348 0.0049841 0 329.24 392.1 233.78 301.95 511.66 386.49 294.51 363.98 423.08 380.68 TRUE FALSE FALSE 363.8709738 404.8042973 265.6383209 307.7946789 472.4567213 353.5588777 261.3709597 354.6699186 420.1357518 397.0929778 0.916336964 1.01941943 0.668957488 0.775119924 1.189788658 0.890367993 0.658210984 0.89316593 1.058028662 1 8.633333038 -11.07127552 0.022325269 2.023353907 4.73E-07 0.15204048 0.148645935 2050.246429 6.118368995 334.2893028 228.727936 8.49E-12 11.07127552 -2.023353434 DAS(ph)PTPS(ph)TDAEYPANGSGADR ddPTM_HeLa_SAHA_4h_R1 1 DASPTPSTDAEYPANGSGADR 21 0 E9PEE2;E7EPF5;O43639 E9PEE2 NCK2 Cytoplasmic protein NCK2 2 0 DAS(1)PT(0.008)PS(0.58)T(0.412)DAEYPANGSGADR 182.82 6.85E-10 5557400 768.12 923.34 650.08 621.06 842.95 760.27 694.56 783.14 756.06 641.03 TRUE FALSE FALSE 848.9143859 953.2568218 738.6695169 633.0815144 778.3633531 695.4907188 616.4062808 763.1084128 750.7985169 668.6679404 1.269560472 1.425605692 1.1046881 0.946780122 1.164050654 1.04011375 0.921842134 1.141236728 1.122827149 1 9.385146138 -6.519961563 24.9961755 1.158552356 1.040977235 0.239021747 0.125825861 200.863633 1721124.928 0.024013508 0.034338681 3.02E-07 6.519961563 -0.117575121 DAS(ph)PTPSTDAEYPANGSGADR ddPTM_HeLa_SAHA_4h_R1 1 DASPTPSTDAEYPANGSGADR 21 0 E9PEE2;E7EPF5;O43639 E9PEE2 NCK2 Cytoplasmic protein NCK2 1 0 DAS(0.999)PT(0.001)PSTDAEYPANGSGADR 171.04 5.24E-10 8244900 613.14 736.64 768.03 576.23 642.16 864.26 603.25 576.48 1204.5 828.83 TRUE FALSE FALSE 677.6328784 760.5076193 872.6931287 587.3837649 592.9578395 790.6201858 535.3707223 561.7344763 1196.117786 864.5649175 0.783784843 0.879642007 1.009401505 0.679398103 0.685845363 0.914471742 0.619237158 0.649730824 1.383491005 1 9.755830485 -7.276758597 0.045724337 1.666944031 1.65E-16 0.436128758 0.166264147 32.61893567 1.294827046 23.1120985 23.57233953 5.29E-08 7.276758597 -1.666944031 DAS(ph)SPVPPPHVPPPVPPLRPR ddPTM_HeLa_SAHA_4h_R1 2 DASSPVPPPHVPPPVPPLRPR 21 1 O94875-11;O94875-9;O94875-12;O94875-8;O94875-7;H7BZX1;H7BZK1;H7C1R7;O94875-4;O94875;O94875-10;O94875-2;O94875-5;O94875-3;H7BXR3;O94875-6 O94875-11 SORBS2 Sorbin and SH3 domain-containing protein 2 1 0 DAS(0.5)S(0.5)PVPPPHVPPPVPPLRPR;DAS(0.5)S(0.5)PVPPPHVPPPVPPLRPR ; 72.184 0.0014567 8060200 1668.38 2109.45 1867.84 2234.2 2228.38 2421.1 2133.95 2390.8 2446.1 2493.7 TRUE FALSE FALSE 1843.867863 2177.797564 2122.379508 2277.446172 2057.642006 2214.808659 1893.83233 2329.646798 2429.077391 2601.215611 0.70884853 0.83722301 0.815918334 0.875531487 0.791030931 0.851451394 0.728056652 0.895599268 0.933823932 1 11.34497027 -9.515014002 1.261961325 1.000214089 0.801628808 0.499776564 0.059790005 0.245535551 0.698781686 0.041900826 0.010043877 3.05E-10 9.515014002 -0.198585281 DASS(ph)SPASTASSASSTSLK ddPTM_HeLa_SAHA_4h_R1 2 DASSSPASTASSASSTSLK 19 0 A0A669KBK8;Q04724 A0A669KBK8 TLE1 Transducin-like enhancer protein 1 1 0 DAS(0.044)S(0.478)S(0.478)PASTASSASSTSLK;DASS(0.5)S(0.5)PASTASSASSTSLK ; 251.04 2.08E-42 32921000 6126.2 6319 4714.3 5414 5936.3 6424.9 6179.9 6100.4 6151.4 6062.5 TRUE FALSE FALSE 6770.581824 6523.739746 5356.740253 5518.795799 5481.461976 5877.462374 5484.521387 5944.360601 6108.591907 6323.884044 1.070636618 1.031603315 0.847064908 0.872690859 0.866787237 0.929407044 0.867271023 0.939985705 0.965955711 1 12.6265952 -6.771644459 24.99124202 1.034156742 0.886626205 0.732346901 0.037894993 64.13268573 157054.4434 0.005836668 0.007718932 1.69E-07 6.771644459 -0.147530537 DASSQDCY(ph)DIPR ddPTM_HeLa_SAHA_4h_R1 1 DASSQDCYDIPR 12 0 Q13480-2;B7Z3B9;Q13480 Q13480-2 GAB1 GRB2-associated-binding protein 1 1 0 DASSQDCY(1)DIPR 120.86 0.00363 3695200 382.16 243.1 213.5 195.22 443.75 376.05 313.47 332.5 299.22 258.87 TRUE FALSE FALSE 422.3573422 250.9765995 242.5946681 198.9987654 409.7499709 344.0084244 278.1975306 323.9951315 297.1377037 270.0311526 1.564105986 0.929435723 0.898395114 0.736947435 1.517417405 1.273958286 1.030242355 1.19984353 1.100383051 1 8.076982045 -7.224804005 24.99433589 1.266383553 1.085218496 0.052792612 0.24621109 1204.920424 822053.1793 0.048912667 0.059904458 5.96E-08 7.224804005 -0.181165056 DASSS(ph)PASTASSASSTSLK ddPTM_HeLa_SAHA_4h_R1 2 DASSSPASTASSASSTSLK 19 0 A0A669KBK8;Q04724 A0A669KBK8 TLE1 Transducin-like enhancer protein 1 1 0 DAS(0.013)S(0.118)S(0.869)PASTASSASSTSLK;DASS(0.003)S(0.997)PASTASSASSTSLK ; 238.05 3.14E-34 11834300 2996.4 2567 2979.6 2495.62 2904 2893.4 2803.4 2917 2951.3 2845.4 TRUE FALSE FALSE 3311.5751 2650.172484 3385.644371 2543.926334 2681.496147 2646.866042 2487.954054 2842.387364 2930.761663 2968.079119 1.115730062 0.892891455 1.140685351 0.857095189 0.903444969 0.891777455 0.838237107 0.957652155 0.987427068 1 11.53531383 -6.246819322 24.77075317 1.04719916 0.887671112 0.468186631 0.071825571 416.3333655 705393.0672 0.010679421 0.017660117 5.66E-07 6.246819322 -0.159528048 DASVPLIDVTNLPT(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 DASVPLIDVTNLPTPR 16 0 Q96A65;Q96A65-2 Q96A65 EXOC4 Exocyst complex component 4 1 0 DASVPLIDVT(0.001)NLPT(0.999)PR;DASVPLIDVTNLPT(1)PR;DASVPLIDVTNLPT(1)PR;DASVPLIDVTNLPT(1)PR ;;; 223.68 3.73E-21 31053300 6862.1 6951.87 5539.47 6805.8 9620.4 7951.2 7264.2 7917.9 7274.1 7438.61 TRUE FALSE FALSE 7583.887162 7177.115149 6294.360123 6937.5361 8883.28703 7273.713028 6446.813098 7715.371583 7223.478946 7759.324881 0.97739008 0.924966445 0.811199456 0.89409017 1.144853085 0.937415708 0.830847167 0.994335422 0.930941681 1 12.92171542 -7.394012085 3.823664602 0.990400439 0.932151176 0.017821693 0.088990224 0.482396388 12.07637905 0.015641139 0.017700696 4.04E-08 7.394012085 -0.058249264 DAT(ph)PPVS(ph)PINMEDQER ddPTM_HeLa_SAHA_4h_R1 1 DATPPVSPINMEDQER 16 0 P17275 P17275 JUNB Transcription factor jun-B 2 0 DAT(1)PPVS(1)PINMEDQER 183.76 8.37E-09 5774100 1173.4 1388 1093.4 922.6 1144.8 1248.7 1594 1506.6 1160.2 1031.9 TRUE FALSE FALSE 1296.823596 1432.972111 1242.402858 940.4582571 1057.085671 1142.303735 1414.638925 1468.063354 1152.126074 1076.390259 1.20478942 1.331275621 1.154230863 0.873714946 0.982065438 1.061235668 1.314243522 1.363876476 1.070360925 1 10.07198552 -4.710341513 5.656970525 1.093461981 1.347040358 0.416859304 0.120203535 0.167078419 11.51490835 0.019415572 0.073989522 1.95E-05 4.710341513 0.253578378 DAT(ph)PPVSPINMEDQER ddPTM_HeLa_SAHA_4h_R1 1 DATPPVSPINMEDQER 16 0 P17275 P17275 JUNB Transcription factor jun-B 1 0 DAT(1)PPVSPINMEDQER 133.23 0.00022161 5434900 1969.5 2082.6 2032.3 1689.4 1825.9 2112.7 1693.5 2172.3 2440.5 2172.5 TRUE FALSE FALSE 2176.661046 2150.077606 2309.25126 1722.10078 1685.999936 1932.686074 1502.942923 2116.735711 2423.516362 2266.167107 0.960503327 0.948772754 1.019011905 0.759917825 0.743987472 0.852843583 0.663209222 0.934059852 1.069434092 1 11.14603853 -6.25896953 24.96935246 0.980481515 0.78456078 0.659613627 0.0742798 88.40785392 893772.6289 0.009287067 0.014938567 5.51E-07 6.25896953 -0.195920736 DATNVGDEGGFAPNILENK ddPTM_HeLa_SAHA_4h_R1 6 DATNVGDEGGFAPNILENK 19 0 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 ;;;;; ;;;;; 320.78 1.44E-162 117203500 10243.56 10032.09 9288.07 10489.59 10068.26 11101.4 10630.7 9846.9 11441.3 9983.84 FALSE FALSE TRUE 11321.02464 10357.1363 10553.79981 10692.63118 9296.832094 10155.49827 9434.505658 9595.030556 11361.67906 10414.2922 1.087066161 0.994511782 1.013395784 1.026726634 0.892699371 0.975150118 0.905919046 0.92133295 1.090969875 1 13.34627717 -5.805670346 8.508710712 1.035093856 0.926235061 0.693935314 0.036319943 0.128070638 22.4549151 0.005886132 0.010735857 1.56E-06 5.805670346 -0.108858795 DATNVGDEGGFAPNILENKEGLELLK ddPTM_HeLa_SAHA_4h_R1 1 DATNVGDEGGFAPNILENKEGLELLK 26 1 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 201.29 1.21E-39 1147700 176.96 241.45 144.23 223.58 218.91 62.733 160.04 157.51 0 66.236 FALSE FALSE TRUE 195.5734647 249.2731384 163.8849133 227.9077142 202.1371631 57.38779547 142.031878 153.4811223 0 69.09175811 2.830633784 3.607856353 2.371989334 3.29862375 2.925633514 0.830602622 2.055699289 2.221409998 0 1 6.110441718 -5.27740384 24.84899007 2.227734313 1.737883295 0.056741723 1.074755659 2097.436906 3264698.669 0.152008226 0.340937197 5.28E-06 5.27740384 -0.489851018 DAVLLVFANK ddPTM_HeLa_SAHA_4h_R1 1 DAVLLVFANK 10 0 P61204-2;P84077;P61204;F5H423;C9J1Z8;P84085 P61204-2 ARF3;ARF1;ARF5 ADP-ribosylation factor 3;ADP-ribosylation factor 1;ADP-ribosylation factor 5 0 0 101.54 0.014507 554020 0 57.917 116.01 0 53.756 59.411 0 131.71 0 0 FALSE FALSE TRUE 0 59.7935488 131.8192386 0 49.63722689 54.34884856 0 128.3410489 0 0 0 DAYCCAQQGK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 DAYCCAQQGKR 11 1 Q9NR33 Q9NR33 POLE4 DNA polymerase epsilon subunit 4 0 1 DAYCCAQQGK(1)R 123.75 0.00096071 1268300 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 DCCVEPGTELS(ph)PTLPHQL ddPTM_HeLa_SAHA_4h_R1 2 DCCVEPGTELSPTLPHQL 18 0 Q14012 Q14012 CAMK1 Calcium/calmodulin-dependent protein kinase type 1 1 0 DCCVEPGT(0.012)ELS(0.794)PT(0.194)LPHQL;DCCVEPGT(0.002)ELS(0.944)PT(0.055)LPHQL ; 145.86 0.00010098 12027600 3599.5 3429.5 3312.7 3815.9 4368.4 5072.6 4651 3793.8 3857.5 3770 TRUE FALSE FALSE 3978.111925 3540.61805 3764.137504 3889.762262 4033.694136 4640.385942 4127.657239 3696.760089 3830.655343 3932.54315 1.01158761 0.900338004 0.957176402 0.989121318 1.02572152 1.179996192 1.049615244 0.940043109 0.974091115 1 11.94124688 -5.520460448 23.51663164 0.992416814 1.063691361 0.236309466 0.062853759 52.28458895 508435.4324 0.009179654 0.018647364 3.02E-06 5.520460448 0.071274547 DCDLQEDACYNCGR ddPTM_HeLa_SAHA_4h_R1 2 DCDLQEDACYNCGR 14 0 P62633-2;P62633;P62633-7;P62633-3 P62633-2 CNBP Cellular nucleic acid-binding protein 0 0 ; ; 173.76 9.13E-06 7152100 1283.53 1496.16 1474.23 2253.2 1557.06 1417.45 1646.59 2124.82 1905.83 1555.39 FALSE FALSE TRUE 1418.537574 1544.636566 1675.130387 2296.813944 1437.758399 1296.675286 1461.31136 2070.470181 1892.567174 1622.450475 0.874317951 0.95203927 1.03246935 1.415645026 0.886164738 0.79920793 0.900681643 1.276137678 1.166486869 1 10.66395873 -6.767909148 5.814456485 0.939575019 1.042718618 0 0.18895731 0.371913374 43.01369613 0.028980749 0.039494205 1.71E-07 6.767909148 0.103143599 DCEQAENWMAAR ddPTM_HeLa_SAHA_4h_R1 1 DCEQAENWMAAR 12 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 107.21 0.016178 24226000 514.27 508.77 573.86 386.55 430.98 456.04 414.78 525 538.57 507.42 FALSE FALSE TRUE 568.3632782 525.2544818 652.0626523 394.0322342 397.9584055 417.1828264 368.1078628 511.5712602 534.8220475 529.2973595 1.073807129 0.992361803 1.23194012 0.744443983 0.751861687 0.788182331 0.695465141 0.966510131 1.010437777 1 9.047934646 -6.239132845 24.99715774 1.045313547 0.781938811 0.68236772 0.092524948 343.5416847 384979.911 0.012956785 0.021474985 5.77E-07 6.239132845 -0.263374736 DCGATWVVLGHSER ddPTM_HeLa_SAHA_4h_R1 4 DCGATWVVLGHSER 14 0 P60174;P60174-3;P60174-4;U3KPZ0;U3KQF3;U3KPS5 P60174 TPI1 Triosephosphate isomerase 0 0 ;;; ;;; 143.46 0.00015378 104075700 9439.81 10546.59 11096.86 9575.07 12467.2 14391.9 12227.64 11226 11335.3 10451.66 FALSE FALSE TRUE 10432.73253 10888.30644 12609.08229 9760.409326 11511.96583 13165.62915 10851.75377 10938.85518 11256.41672 10902.28221 0.956931065 0.998718087 1.156554384 0.895262949 1.055922568 1.207603041 0.995365333 1.003354615 1.032482604 1 13.41234255 -6.982111337 24.90709142 0.979565178 1.052150629 0.085919172 0.08308389 328.8507544 457870.4139 0.012821921 0.016849622 1.04E-07 6.982111337 0.072585451 DCGEYAHTR ddPTM_HeLa_SAHA_4h_R1 2 DCGEYAHTR 9 0 Q5T8A0;Q9Y399 Q5T8A0 MRPS2 "28S ribosomal protein S2, mitochondrial" 0 0 ; ; 90.149 0.019086 2419320 1830.09 2473.94 1805.52 1854.97 2272.22 2340.47 3008.3 2026.06 1883.04 2813.5 FALSE FALSE TRUE 2022.587263 2554.097279 2051.566863 1890.875627 2098.122994 2141.048789 2669.798167 1974.236319 1869.935771 2934.803754 0.689172917 0.870278728 0.699047376 0.64429372 0.714910832 0.729537294 0.90970245 0.672697899 0.637158709 1 11.51904832 -9.364933279 0.853036402 1.017237446 0.740360826 0 0.137950015 0.396515715 0.462988891 0.07528218 0.015304082 4.32E-10 9.364933279 -0.27687662 DCLIEDS(ph)DDEAGQS ddPTM_HeLa_SAHA_4h_R1 2 DCLIEDSDDEAGQS 14 0 H3BSW6;Q2VPK5-3;Q2VPK5;H3BPG4 H3BSW6 CTU2 Cytoplasmic tRNA 2-thiolation protein 2 1 0 DCLIEDS(1)DDEAGQS;DCLIEDS(1)DDEAGQS ; 160.86 1.23E-05 30880000 5159.1 5702.4 5322.7 5417.4 6326.4 6893.4 6200.8 5918.7 5734 4984.7 TRUE FALSE FALSE 5701.757809 5887.161501 6048.049837 5522.261611 5841.672599 6306.043539 5503.069664 5767.308224 5694.096627 5199.614812 1.096573115 1.132230312 1.163172669 1.062052058 1.123481798 1.212790518 1.058361026 1.109179898 1.095099701 1 12.34418904 -8.671461898 0.623952423 0.997884731 1.124065121 0.158788804 0.051326019 0.465914162 0.352929062 0.029346967 0.010455176 2.13E-09 8.671461898 0.12618039 DCNDTLEEENTNLET(ph)PTKR ddPTM_HeLa_SAHA_4h_R1 2 DCNDTLEEENTNLETPTKR 19 1 A0A087WY59;Q9BZE2 A0A087WY59 PUS3 tRNA pseudouridine synthase;tRNA pseudouridine(38/39) synthase 1 0 DCNDTLEEENTNLET(0.938)PT(0.062)KR;DCNDTLEEENT(0.052)NLET(0.928)PT(0.021)KR ; 117.51 0.0005937 16824600 2274.58 1904.1 2003.4 2104.95 2107.61 2350.15 2401.7 2004.88 2644.5 2200.57 TRUE FALSE FALSE 2513.830761 1965.794089 2276.412919 2145.694351 1946.125377 2149.903998 2131.454395 1953.598073 2626.096709 2295.447342 1.095137629 0.856388231 0.99170775 0.934760869 0.847819657 0.93659478 0.928557304 0.851075098 1.144045721 1 11.16455962 -7.262521134 24.99855755 1.044926103 0.910775054 0.642068703 0.057409006 50.19639886 1159999.534 0.009024438 0.010633696 5.46E-08 7.262521134 -0.134151049 DCRS(ph)PGLLDTTPIR ddPTM_HeLa_SAHA_4h_R1 1 DCRSPGLLDTTPIR 14 1 Q8IY92-2;Q8IY92 Q8IY92-2 SLX4 Structure-specific endonuclease subunit SLX4 1 0 DCRS(1)PGLLDTTPIR 63.691 0.023181 7501000 491.79 487.69 534.87 644.44 614.91 435.33 689.81 602.33 568.65 528.11 TRUE FALSE FALSE 543.5187286 503.491476 607.7592981 656.9140681 567.7957286 398.2374349 612.1907633 586.9232708 564.6927184 550.8794066 0.986638313 0.913977669 1.103252891 1.192482529 1.03070785 0.722912184 1.111297239 1.065429682 1.025075019 1 9.105592722 DCS(ph)PTCWEQGK ddPTM_HeLa_SAHA_4h_R1 2 DCSPTCWEQGK 11 0 Q86YV5 Q86YV5 SGK223 Tyrosine-protein kinase SgK223 1 0 DCS(0.982)PT(0.018)CWEQGK;DCS(0.997)PT(0.003)CWEQGK ; 154.36 0.0003597 15050600 2595.9 2375.8 2545.4 2933.6 3545.2 3533.7 3048.1 2856.5 2943.6 2340.5 TRUE FALSE FALSE 2868.948672 2452.777479 2892.273856 2990.38407 3273.567542 3232.60888 2705.119766 2783.434866 2923.115248 2441.410409 1.175119374 1.004655944 1.184673353 1.224859228 1.340850981 1.324074342 1.108015168 1.140092979 1.197305966 1 11.25349912 -6.581749068 5.781211448 1.079275452 1.230174983 0.328327302 0.088989191 0.167259584 11.36902918 0.015385151 0.021921648 2.62E-07 6.581749068 0.15089953 DCSYGAVTS(ph)PTSTLESR ddPTM_HeLa_SAHA_4h_R1 2 DCSYGAVTSPTSTLESR 17 0 Q9HCD6;Q9HCD6-2;Q9HCD6-3;Q9HCD6-4;J3KRP9 Q9HCD6 TANC2 Protein TANC2 1 0 DCSYGAVT(0.122)S(0.419)PT(0.419)S(0.039)TLESR;DCSYGAVT(0.072)S(0.464)PT(0.464)S(0.001)TLESR ; 268.18 3.91E-59 80246000 3679.2 3707.1 3316.1 3340.7 4011.9 4761.8 4234.1 3934.9 4503.9 3896.5 TRUE FALSE FALSE 4066.195137 3827.212472 3768.000838 3405.364079 3704.509089 4356.067851 3757.667924 3834.250956 4472.556993 4064.497184 1.000417752 0.941620156 0.927052146 0.837831575 0.911431088 1.071735975 0.92450991 0.943351854 1.100396135 1 11.98886117 -7.242376058 5.095785398 1.000319954 0.936035282 0.295963863 0.062415265 0.213850217 16.67345678 0.009380614 0.011255205 5.72E-08 7.242376058 -0.064284671 DDAT(ph)PVRDEPMDAESITFK ddPTM_HeLa_SAHA_4h_R1 4 DDATPVRDEPMDAESITFK 19 1 A0A2R8Y880;Q7Z6E9-2;Q7Z6E9;H3BSK8 A0A2R8Y880 RBBP6 E3 ubiquitin-protein ligase RBBP6 1 0 DDAT(1)PVRDEPMDAESITFK;DDAT(1)PVRDEPMDAESITFK;DDAT(0.981)PVRDEPMDAES(0.018)IT(0.001)FK;DDAT(0.997)PVRDEPMDAES(0.003)ITFK ;;; 100.85 0.0014966 33118800 4486.33 6302.7 4624.72 5617.1 5897.4 7174.7 6699.4 5688 8605.2 5076.1 TRUE FALSE FALSE 4958.222773 6506.911615 5254.952757 5725.827093 5445.542486 6563.375196 5945.56588 5542.509196 8545.315713 5294.955513 0.936404992 1.228888817 0.99244512 1.081373975 1.028439705 1.239552472 1.122873623 1.046752741 1.613859775 1 12.37040285 -7.290948042 24.97404792 0.969969019 1.103294799 0 0.217466211 494.8127934 418773.1781 0.012788233 0.014625312 5.12E-08 7.290948042 0.13332578 DDATESEVES(ph)LQY(ph)DKDT(ph)KPNPK ddPTM_HeLa_SAHA_4h_R1 1 DDATESEVESLQYDKDTKPNPK 22 2 D6REX9;Q8N960-2;Q8N960 D6REX9 CEP120 Centrosomal protein of 120 kDa 3 0 DDAT(0.056)ES(0.202)EVES(0.807)LQY(0.939)DKDT(0.996)KPNPK 45.094 0.0088535 0 0 0 138.24 0 0 0 0 75.955 167.1 0 TRUE FALSE FALSE 0 0 157.0786273 0 0 0 0 74.01218108 165.9371375 0 0 DDATLSGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 DDATLSGKR 9 1 Q13442 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 0 1 ; DDATLSGK(1)R;DDATLSGK(1)R 177.7 7.71E-12 98757000 6044.9 5560.2 4402.2 7685.1 8351.9 7904.2 8705.3 9735.6 7038.2 4437.8 FALSE TRUE FALSE 6680.730317 5740.354128 5002.10889 7833.856223 7711.979226 7230.717692 7725.756733 9486.577449 6989.220593 4629.135276 1.443191853 1.240048905 1.080570904 1.692293648 1.665965405 1.562001813 1.668941665 2.049319556 1.509832869 1 12.17652701 -1 0.130427844 0.898843704 4.263902669 0.502016978 0.211080241 34.91212913 0.306848914 0.610008608 21.70316606 0.1 1 3.365058965 DDDDIDLFGS(ph)DDEEESEEAKR ddPTM_HeLa_SAHA_4h_R1 1 DDDDIDLFGSDDEEESEEAKR 21 1 P24534;C9JZW3 P24534 EEF1B2 Elongation factor 1-beta 1 0 DDDDIDLFGS(1)DDEEESEEAKR 104.67 0.00011536 3795000 485.48 490.52 389.94 423.48 554.1 654.85 687.11 355.71 844.54 456.51 TRUE FALSE FALSE 536.5450139 506.4131698 443.0789925 431.6770678 511.6449777 599.0530959 609.7945744 346.6114533 838.6627774 476.1923802 1.126740024 1.063463404 0.930462164 0.906518218 1.074450157 1.258006471 1.280563486 0.727881141 1.761184791 1 8.895400725 -9.741859796 1.682886787 1.000021793 1.066801131 0 0.286312803 1.540328313 7.893389842 0.111579738 0.024203278 1.81E-10 9.741859796 0.066779337 DDDHGILDQFSR ddPTM_HeLa_SAHA_4h_R1 1 DDDHGILDQFSR 12 0 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 0 0 103.14 0.0051222 3667900 1729.8 1967.9 1645.2 1854.7 2173.8 2189.1 1749.6 1303 2361.2 2079.9 FALSE FALSE TRUE 1911.748301 2031.661251 1869.399288 1890.6004 2007.243914 2002.576364 1552.730403 1269.671147 2344.768217 2169.574668 0.881162713 0.936432971 0.861643213 0.871415226 0.925178535 0.923027169 0.715684243 0.585216617 1.080750182 1 11.08319652 -4.59958922 2.453956027 0.929848397 0.586672059 0.778396856 0.062460344 0.097603649 1.05772468 0.007833372 0.051515274 2.51E-05 4.59958922 -0.343176338 DDDKNNDGYIDYAEFAK ddPTM_HeLa_SAHA_4h_R1 3 DDDKNNDGYIDYAEFAK 17 1 Q8NI22-2;Q8NI22-3;Q8NI22 Q8NI22-2 MCFD2 Multiple coagulation factor deficiency protein 2 0 0 ;; ;; 149.22 0.00011971 17318200 5027.7 6682.3 6223.7 6779.8 7111.8 8312.7 7672.3 6240.6 8326.4 7372.9 FALSE FALSE TRUE 5556.536554 6898.810904 7071.833424 6911.032833 6566.89542 7604.411194 6808.992612 6080.974488 8268.455904 7690.781801 0.72249307 0.897023356 0.919520747 0.898612522 0.853865782 0.988769593 0.885344662 0.790683528 1.075112533 1 12.90891455 DDDVPLDWR ddPTM_HeLa_SAHA_4h_R1 2 DDDVPLDWR 9 0 O95340;O95340-2 O95340 PAPSS2 Bifunctional 3-phosphoadenosine 5-phosphosulfate synthase 2;Sulfate adenylyltransferase;Adenylyl-sulfate kinase 0 0 ; ; 153.08 0.001779 9415100 4638.4 5170.2 4129.8 4941.3 5627.1 4467.5 5074 3683.31 5099.7 4537.3 FALSE FALSE TRUE 5126.288194 5337.717872 4692.587637 5036.946007 5195.952814 4086.843867 4503.060166 3589.096264 5064.210772 4732.925208 1.083112022 1.127784116 0.991477243 1.064235285 1.097831169 0.863492172 0.951432775 0.75832516 1.069995943 1 12.20851641 -4.409023502 0.955961563 1.048058988 0.67720961 0.699268157 0.060397548 0.7393646 0.596806121 0.009566054 0.266934331 3.90E-05 4.409023502 -0.370849378 DDDVPLMWR ddPTM_HeLa_SAHA_4h_R1 3 DDDVPLMWR 9 0 O43252 O43252 PAPSS1 Bifunctional 3-phosphoadenosine 5-phosphosulfate synthase 1;Sulfate adenylyltransferase;Adenylyl-sulfate kinase 0 0 ;; ;; 151.04 0.0023245 10948900 4204.3 4513.4 3691 4275.1 4703.6 3701.8 4805 2535.74 4139.5 3812.8 FALSE FALSE TRUE 4646.527564 4659.637121 4193.990258 4357.850742 4343.211184 3386.385814 4264.328754 2470.879443 4110.692882 3977.188467 1.168294538 1.171590725 1.054511319 1.0957114 1.092030518 0.851452186 1.072196802 0.62126285 1.033567536 1 11.95753321 -3.775507588 0.990297945 1.084880289 3.32E-19 0.666699905 0.090849901 2.1615156 0.844340262 0.014609327 3.14383717 0.000167684 3.775507588 -1.084880289 DDEENYLDLFSHK ddPTM_HeLa_SAHA_4h_R1 2 DDEENYLDLFSHK 13 0 Q07666-3;Q07666-2;Q07666 Q07666-3 KHDRBS1 "KH domain-containing, RNA-binding, signal transduction-associated protein 1" 0 0 ; ; 157.33 7.83E-05 4700700 3603.2 4008.9 3322.2 3991.6 3812.8 4426.3 3933.9 3444.1 4306.8 4095.6 FALSE FALSE TRUE 3982.201108 4138.79099 3774.932115 4068.86319 3520.664088 4049.154338 3491.247219 3356.004909 4276.828628 4272.181359 0.932123609 0.968776988 0.883607646 0.952408816 0.824090504 0.947795517 0.817204825 0.785548325 1.001087798 1 12.06075718 -1 0.178988089 1.002701922 0.132501924 0.685053311 0.041894465 23.13518042 0.250390177 0.050156241 5.49991143 0.1 1 -0.870199997 DDEKEAEEGEDDRDS(ph)ANGEDDS ddPTM_HeLa_SAHA_4h_R1 1 DDEKEAEEGEDDRDSANGEDDS 22 2 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;G3V2D6 P07910 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 1 0 DDEKEAEEGEDDRDS(0.595)ANGEDDS(0.405) 63.701 0.004119 29235000 959.5 1302.1 735.43 1018.5 1082.6 943.33 1298.5 939.67 1684.4 864.97 TRUE FALSE FALSE 1060.424612 1344.288894 835.6505704 1038.21454 999.6514219 862.952977 1152.389363 915.634602 1672.678123 902.2630898 1.17529424 1.489907888 0.926171734 1.15067828 1.107937843 0.956431651 1.277220996 1.01481997 1.853869611 1 9.817404358 -9.29380251 1.173984166 1.004552807 1.141237679 0 0.308611852 0.825638293 2.132447982 0.084534612 0.025917368 5.08E-10 9.29380251 0.136684872 DDEKEAEEGEDDRDSANGEDDS(ph) ddPTM_HeLa_SAHA_4h_R1 1 DDEKEAEEGEDDRDSANGEDDS 22 2 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;G3V2D6 P07910 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 1 0 DDEKEAEEGEDDRDS(0.332)ANGEDDS(0.668) 51.264 0.019217 20072000 675.94 729.14 460.25 647.54 596.59 766.02 787.73 438.85 945.26 628.44 TRUE FALSE FALSE 747.0384705 752.7646144 522.9704731 660.0740731 550.8794031 700.7507865 699.0925472 427.6248524 938.6818587 655.5351239 1.139585727 1.148320795 0.797776433 1.006924037 0.840350704 1.068975194 1.066445598 0.652329428 1.43193221 1 9.356529273 -6.773228848 24.99978934 1.073937634 0.921868158 0.317990197 0.169688563 231.8369646 491613.8637 0.020229036 0.026705158 1.69E-07 6.773228848 -0.152069477 DDGELGGNFLHSFQNDNYS(ph)PSMTMSV ddPTM_HeLa_SAHA_4h_R1 2 DDGELGGNFLHSFQNDNYSPSMTMSV 26 0 Q9NW25;Q9BWW4-2;Q9BWW4-3;Q9BWW4 Q9NW25 SSBP3 Single-stranded DNA-binding protein 3 1 0 DDGELGGNFLHS(0.001)FQNDNY(0.188)S(0.226)PS(0.179)MT(0.194)MS(0.212)V;DDGELGGNFLHS(0.008)FQNDNY(0.39)S(0.449)PS(0.112)MT(0.03)MS(0.01)V ; 67.895 0.00087437 4720400 1527.82 1631.88 1288.11 1441.65 2013.72 1703.85 1798.82 1560.62 2055.04 1420.24 TRUE FALSE FALSE 1688.523117 1684.753983 1463.646923 1469.55522 1859.429209 1558.672394 1596.412039 1520.7016 2040.738809 1481.473497 1.139759247 1.137215067 0.987966998 0.99195512 1.25512148 1.052109537 1.077583934 1.026479112 1.377506121 1 10.5328171 -9.557792244 1.351804781 1.000354172 1.09073201 0 0.140277605 0.645222992 2.125991231 0.052481508 0.012590125 2.77E-10 9.557792244 0.090377838 DDGLFSGDPNWFPK ddPTM_HeLa_SAHA_4h_R1 1 DDGLFSGDPNWFPK 14 0 P37802;P37802-2;X6RJP6 P37802 TAGLN2 Transgelin-2 0 0 184.55 1.01E-11 0 0 0 168.48 0 138 155.09 62.832 0 0 133.59 FALSE FALSE TRUE 0 0 191.439577 0 127.4264698 141.8754595 55.761978 0 0 139.3497187 0 0 1.373806699 0 0.914436506 1.018125195 0.400158526 0 0 1 7.12256628 -9.656828745 1.524026105 0.99773468 0.417497564 0 0.562507622 0.584880433 2.459118264 0.336929939 0.077193598 2.20E-10 9.656828745 -0.580237116 DDGLFSGDPNWFPKK ddPTM_HeLa_SAHA_4h_R1 1 DDGLFSGDPNWFPKK 15 1 P37802;P37802-2;X6RJP6 P37802 TAGLN2 Transgelin-2 0 0 81.185 0.011544 1359000 917.8 851.03 850.56 1081.8 1317.4 1362.1 1117.9 1016.8 895.9 1126.6 FALSE FALSE TRUE 1014.338415 878.6039304 966.4698873 1102.739803 1216.461097 1246.041417 992.1109498 990.7917283 889.665359 1175.173239 0.863139477 0.747637796 0.82240631 0.93836361 1.035133422 1.060304451 0.844225274 0.843102698 0.75705039 1 10.19865773 DDGSSMSFY(ph)VRPSPAK ddPTM_HeLa_SAHA_4h_R1 1 DDGSSMSFYVRPSPAK 16 1 Q9NYB0;A0A590UJT3 Q9NYB0 TERF2IP Telomeric repeat-binding factor 2-interacting protein 1 1 0 DDGSS(0.011)MS(0.063)FY(0.907)VRPS(0.018)PAK 76.332 0.014051 3907400 1178.5 1389.8 1213.9 1217.9 1430.6 1404.3 1350.5 1238.5 1338.9 1459.4 TRUE FALSE FALSE 1302.460037 1434.830432 1379.32397 1241.474216 1320.987737 1284.64574 1198.538186 1206.820963 1329.582486 1522.321876 0.85557467 0.942527631 0.906065919 0.815513614 0.867745355 0.843872613 0.78730931 0.792750194 0.873391171 1 10.57205772 -13.52287875 0.08147622 1.515771753 0.687239615 0.397347265 0.049171023 65.73843699 0.410335129 6.173575327 0.657907901 3.00E-14 13.52287875 -0.828532138 DDGSSMSFYVRPS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 2 DDGSSMSFYVRPSPAK 16 1 Q9NYB0;A0A590UJT3 Q9NYB0 TERF2IP Telomeric repeat-binding factor 2-interacting protein 1 1 0 DDGSS(0.001)MSFYVRPS(0.999)PAK;DDGSS(0.001)MSFYVRPS(0.999)PAK ; 125.5 9.13E-05 7345400 1325.9 1641.09 1374.39 1490.94 1588.68 1557.29 1482.42 1450.52 1313.66 1435.67 TRUE FALSE FALSE 1465.364245 1694.262393 1561.684712 1519.7993 1466.955682 1424.600131 1315.6142 1413.417799 1304.518133 1497.56876 0.978495469 1.131341971 1.042813361 1.01484442 0.979558149 0.951275273 0.87850003 0.943808282 0.871090643 1 10.54840653 -5.211124914 2.202813236 1.007002338 0.911708492 0.263583796 0.062331309 0.251525496 2.347606898 0.007256041 0.02271461 6.15E-06 5.211124914 -0.095293845 DDGSWEVIEGYR ddPTM_HeLa_SAHA_4h_R1 3 DDGSWEVIEGYR 12 0 P00367;P49448 P00367 GLUD1;GLUD2 "Glutamate dehydrogenase 1, mitochondrial;Glutamate dehydrogenase 2, mitochondrial" 0 0 ;; ;; 235.01 3.01E-22 30206000 3382.19 4277.1 3599.5 3174.37 4508.9 4092 4827.2 3295.53 4241.7 4449.8 FALSE FALSE TRUE 3737.944262 4415.680846 4090.021115 3235.814522 4163.429056 3743.338579 4284.030752 3211.235114 4212.181664 4641.652655 0.805304606 0.951316519 0.881156221 0.69712552 0.896971266 0.80646676 0.922953756 0.69183012 0.907474552 1 12.18042285 -13.52287874 0.25995991 2.148589974 0.815534148 0.218220909 0.08684886 34.97092793 0.466354551 20.67274645 0.042735226 3.00E-14 13.52287874 -1.333055826 DDGTGQLLLPLSDAR ddPTM_HeLa_SAHA_4h_R1 1 DDGTGQLLLPLSDAR 15 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 154.23 0.00019477 1343900 534 538.91 466.41 502.99 609.21 499.65 715.89 648.99 551.58 507.9 FALSE FALSE TRUE 590.1685701 556.3710376 529.9699258 512.7260988 562.5324614 457.077009 635.3361731 632.3897755 547.7415099 529.7980546 1.113950051 1.050156815 1.000324409 0.967776485 1.061786574 0.862738179 1.199204428 1.193643068 1.033868481 1 9.049298736 -4.639267781 22.94122588 1.03484401 1.196534394 0.535212104 0.066151892 2.65604923 511.8189339 0.009917462 0.037107811 2.29E-05 4.639267781 0.161690384 DDGVFVQEVTQNS(ph)PAAR ddPTM_HeLa_SAHA_4h_R1 5 DDGVFVQEVTQNSPAAR 17 0 Q09666;E9PJZ0;E9PKR9;E9PJC6;E9PLK4;Q09666-2;E9PQE3 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 DDGVFVQEVTQNS(1)PAAR;DDGVFVQEVTQNS(1)PAAR;DDGVFVQEVTQNS(1)PAAR;DDGVFVQEVTQNS(1)PAAR;DDGVFVQEVTQNS(1)PAAR ;;;; 372.59 7.59E-184 278144600 12752.56 14113 12874.78 13642.02 17911.94 17285.7 15815.47 14452.3 16533.68 14043.7 TRUE FALSE FALSE 14093.93277 14570.27046 14629.28797 13906.08102 16539.53103 15812.86111 14035.87169 14082.63109 16418.62077 14649.19264 0.962096214 0.994612524 0.998641245 0.949272862 1.129040449 1.079435673 0.958132782 0.961324726 1.120786734 1 13.83853353 DDGYSTKDS(ph)YSSR ddPTM_HeLa_SAHA_4h_R1 1 DDGYSTKDSYSSR 13 1 P38159;P38159-2;H3BUY5;H0Y6E7;H3BT71;Q96E39 P38159;Q96E39 RBMX;RBMXL1 "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed;RNA binding motif protein, X-linked-like-1" 1 0 DDGYS(0.006)T(0.092)KDS(0.558)YS(0.303)S(0.042)R 134.88 0.0025358 7150600 804.65 948.7 830.18 1476.7 864.98 767.4 808.2 1140 1146.9 901.05 TRUE FALSE FALSE 889.2867789 979.4385025 943.312607 1505.283664 798.7054193 702.0132027 717.2592089 1110.840451 1138.91863 939.8986751 0.946151753 1.042068181 1.003632234 1.601538234 0.849778216 0.746903067 0.763123971 1.181872557 1.21174618 1 9.876361427 -3.953240794 18.30800329 0.987754406 2.575503045 0.027228279 0.236535697 6.689109152 75506.43063 0.030141332 10936.53411 0.000111368 3.953240794 1.587748639 DDKHGS(ph)YEDAVHSGALND ddPTM_HeLa_SAHA_4h_R1 1 DDKHGSYEDAVHSGALND 18 1 P17987;E7EQR6;F5H282 P17987 TCP1 T-complex protein 1 subunit alpha 1 0 DDKHGS(0.624)YEDAVHS(0.376)GALND 103.99 0.0074915 5519300 698.53 570.82 658.42 388.73 675.06 515.87 573.97 535.9 598.17 465.19 TRUE FALSE FALSE 772.0045904 589.3149425 748.1460487 396.2544313 623.3370486 471.9149738 509.385385 522.192454 594.0072863 485.2466175 1.590953059 1.214464813 1.541785191 0.816604211 1.284577834 0.972526045 1.04974536 1.076138267 1.224134831 1 8.922574346 -6.260052881 24.99991707 1.298190222 1.050312474 0.339401265 0.190441078 163.8002969 2953475.492 0.037610531 0.060178539 5.49E-07 6.260052881 -0.247877748 DDMIVRR ddPTM_HeLa_SAHA_4h_R1 2 DDMIVRR 7 1 F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 F8WD26 LMO7 LIM domain only protein 7 0 0 ; ; 81.381 0.012532 8907100 387.86 338.416 469.08 1229.57 1531.64 2750.95 2181.92 2524.37 373.55 428.07 FALSE FALSE TRUE 428.6568944 349.3809004 533.0037795 1253.370105 1414.286074 2516.553584 1936.404619 2459.800271 370.9504351 446.5261926 0.959981523 0.782442119 1.193667445 2.806935239 3.167308206 5.635847628 4.336598056 5.508748 0.830747314 1 8.802600994 -5.768748578 1.259260279 0.952017359 5.168768032 0.939061547 0.459935895 0.065048676 0.204575399 0.065302751 0.175019993 1.70E-06 5.768748578 4.216750674 up DDNMFQIGK ddPTM_HeLa_SAHA_4h_R1 1 DDNMFQIGK 9 0 P53999 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 0 0 121.09 0.015237 13896000 1214.5 1052.7 806.08 923.11 926.08 2177.7 908.35 3907.4 1955.7 1558.1 FALSE FALSE TRUE 1342.246682 1086.808171 915.9283845 940.9781289 855.1239505 1992.147709 806.1400674 3807.454366 1942.090124 1625.277316 0.825857021 0.668690912 0.563552063 0.57896466 0.526140334 1.225727874 0.49600155 2.342649053 1.194928462 1 10.66647019 -4.253723758 24.96494552 0.826762238 2.342649795 0.760897492 0.260802266 326.5291918 1056504.362 0.033548791 0.480997282 5.58E-05 4.253723758 1.515887558 DDNMFQIGK(ac)MR ddPTM_HeLa_SAHA_4h_R1 2 DDNMFQIGKMR 11 1 P53999 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 0 1 ; DDNMFQIGK(1)MR;DDNMFQIGK(1)MR 147.74 3.76E-05 2747900 307.11 395.41 416.46 554.71 436.79 462 527.13 265.8 542.88 607.32 FALSE TRUE FALSE 339.4132389 408.2215434 473.213 565.4472142 403.3232446 422.6350009 467.8159451 259.0012209 539.1020539 633.5045374 0.53577081 0.64438614 0.746976497 0.892570109 0.636654074 0.66713808 0.738457134 0.408838778 0.85098373 1 9.307211142 -9.441974011 1.140212364 1.002455562 0.658743333 0.391604108 0.128643713 0.326869747 0.751473071 0.089811868 0.021768903 3.61E-10 9.441974011 -0.343712229 DDPDGKQEAKPQQAAGMLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 DDPDGKQEAKPQQAAGMLSPK 21 2 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 DDPDGKQEAKPQQAAGMLS(1)PK 40.519 0.023723 17557000 4403.9 4946.2 4475 4730 5368.6 5798.9 4709.3 4419.2 6926.9 5093.5 TRUE FALSE FALSE 4867.122408 5106.460125 5084.829695 4821.55599 4957.259028 5304.801096 4179.39717 4306.163263 6878.695139 5313.105712 0.916059772 0.961106442 0.957035296 0.907483542 0.933024731 0.998436956 0.786620368 0.8104795 1.29466559 1 12.3753397 -4.754537809 24.9996139 0.955696194 0.79854986 0.285786761 0.111092331 57.52297305 208360.1691 0.005132098 0.01838003 1.76E-05 4.754537809 -0.157146334 FGFGGK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 FGFGGKK 7 1 H7C2Q8;Q99848 H7C2Q8 EBNA1BP2 Probable rRNA-processing protein EBP2 0 1 FGFGGK(1)K 102.98 0.005791 2012000 728.64 986.14 1232.2 1665.5 2077.4 1983.8 2306.6 2011.2 776.62 774.11 FALSE TRUE FALSE 805.2816983 1018.091583 1400.117799 1697.738161 1918.230061 1814.769079 2047.055297 1959.756416 771.2154382 807.4856705 0.997270574 1.260816904 1.73392278 2.102499429 2.375559259 2.247431931 2.535097986 2.426985998 0.955082507 1 9.657292848 -6.504013029 1.198412835 0.988127761 2.417859399 0.987074888 0.070417698 0.029953473 0.085843234 0.012008486 0.020815106 3.13E-07 6.504013029 1.429731637 up DDSFDSLDS(ph)FGSR ddPTM_HeLa_SAHA_4h_R1 2 DDSFDSLDSFGSR 13 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46;D6RJ93;D6R8Y0;Q9UPQ0-7;Q6NVB9 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 DDSFDSLDS(1)FGSR;DDSFDS(0.008)LDS(0.992)FGSR ; 233.28 2.49E-23 11981500 2221.5 2882.9 2382.4 2297.2 2620.2 2910.5 2917.1 2601.2 2582.9 2568.3 TRUE FALSE FALSE 2455.167563 2976.307852 2707.061065 2341.665628 2419.440842 2662.509026 2588.860231 2534.66507 2564.925389 2679.031982 0.916438318 1.110963912 1.010462392 0.874071547 0.903102635 0.99383249 0.966341667 0.946112285 0.957407528 1 11.38749609 -6.306134269 24.99984663 0.976616643 0.939647517 0.178064037 0.057496134 989.941284 553716.0699 0.010016365 0.015300296 4.94E-07 6.306134269 -0.036969126 DDSFLGK(ac)LGGTLAR ddPTM_HeLa_SAHA_4h_R1 1 DDSFLGKLGGTLAR 14 1 Q9NVD7-2;Q9NVD7 Q9NVD7-2 PARVA Alpha-parvin 0 1 DDSFLGK(1)LGGTLAR 141.73 0.00020895 700940 183.72 265.16 235.59 355.65 578.5 594.54 401.32 319.44 118.48 263.79 FALSE TRUE FALSE 203.0445125 273.751358 267.6949783 362.53412 534.175455 543.8818472 356.1624174 311.2691873 117.655488 275.1632779 0.73790556 0.994868792 0.972858662 1.317523628 1.941303575 1.976578603 1.294367548 1.131216308 0.427584265 1 8.104144137 -6.159017201 2.986648164 0.887258785 1.595106144 0.600956435 0.290831879 0.139035146 2.393532205 0.041915791 0.072670354 6.93E-07 6.159017201 0.707847358 DDSHSAEDS(ph)EDEKEDHK ddPTM_HeLa_SAHA_4h_R1 1 DDSHSAEDSEDEKEDHK 17 1 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 DDSHSAEDS(0.999)EDEKEDHK 80.596 0.003666 14231000 3378.6 5239.9 2283.3 5883.2 5290 5916.2 5409.5 4938.6 7991.6 5352.9 TRUE FALSE FALSE 3733.97665 5409.676198 2594.456233 5997.077843 4884.681343 5412.106476 4800.808823 4812.277763 7935.985805 5583.689715 0.668729252 0.968835389 0.46464907 1.074034939 0.874812461 0.969270635 0.859791476 0.861845484 1.421279872 1 12.44700306 DDSLDLS(ph)PQGR ddPTM_HeLa_SAHA_4h_R1 3 DDSLDLSPQGR 11 0 Q14669;Q14669-2;Q14669-3;Q14669-4 Q14669 TRIP12 E3 ubiquitin-protein ligase TRIP12 1 0 DDS(0.003)LDLS(0.997)PQGR;DDS(0.315)LDLS(0.685)PQGR;DDS(0.007)LDLS(0.993)PQGR ;; 115.34 0.002856 14626700 6468.6 6634.6 6105.2 7798.1 6718.1 6888.4 6913.3 7223.8 8095.9 6736.9 TRUE FALSE FALSE 7148.997027 6849.565393 6937.184861 7949.043502 6203.360629 6301.469567 6135.397289 7039.025656 8039.559973 7027.360729 1.017308959 0.974699558 0.98716789 1.13115632 0.882744016 0.896705009 0.873072769 1.00165993 1.144036899 1 12.77876724 -5.70829799 24.99997925 1.011510961 0.909451483 0.432453333 0.066853285 60.68155931 28546.79916 0.007000304 0.014000599 1.96E-06 5.70829799 -0.102059478 DDTIYEDEDVKEAIR ddPTM_HeLa_SAHA_4h_R1 1 DDTIYEDEDVKEAIR 15 1 E5RHG9;B7Z2R2;P14927;P14927-2 E5RHG9 UQCRB Cytochrome b-c1 complex subunit 7 0 0 143.25 0.00017567 4470500 623.85 1125 819.89 539.61 1168 898.85 993.42 744.24 749.01 844.69 FALSE FALSE TRUE 689.4694053 1161.450738 931.6203394 550.0549318 1078.508092 822.2629232 881.6377671 725.2034184 743.7975784 881.1087197 0.782502079 1.318169611 1.057327341 0.624275892 1.224035205 0.933213921 1.000600434 0.823057816 0.844160955 1 9.783176234 DDYSRDDYR ddPTM_HeLa_SAHA_4h_R1 2 DDYSRDDYR 9 1 E7EX17;P23588-2;P23588;F8VX11 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 0 0 ; ; 106.68 0.01106 87500000 5449.5 4290.1 5905.6 4671.6 5191.9 6139.8 6405 5626.8 4802.1 5324 FALSE FALSE TRUE 6022.703413 4429.102055 6710.384413 4762.025573 4794.097744 5616.654498 5684.292543 5482.874604 4768.681795 5553.543695 1.084479342 0.797527182 1.208306764 0.857475125 0.863250207 1.01136406 1.023543318 0.987274955 0.858673679 1 12.43919293 DDYVHEFCR ddPTM_HeLa_SAHA_4h_R1 3 DDYVHEFCR 9 0 Q13564;Q13564-4;Q13564-3;Q13564-2 Q13564 NAE1 NEDD8-activating enzyme E1 regulatory subunit 0 0 ;; ;; 112.3 0.00608 9088200 7784.1 8315.7 7374.9 8690.5 8960.5 6601.4 8664.7 5882.3 7955.8 7025.6 FALSE FALSE TRUE 8602.867353 8585.134136 8379.912965 8858.717194 8273.948426 6038.923582 7689.725152 5731.839283 7900.43494 7328.507998 1.173890696 1.171470938 1.143467806 1.208802282 1.129008582 0.824031792 1.049289317 0.782129089 1.078041389 1 12.8393038 -5.271394335 24.49003153 1.107923512 0.90156399 0.617870712 0.086552641 328.5800886 808335.4903 0.014210068 0.032148225 5.35E-06 5.271394335 -0.206359521 DEALQNIS(ph)ADDLPDSASQAAHPQDSAFSYR ddPTM_HeLa_SAHA_4h_R1 2 DEALQNISADDLPDSASQAAHPQDSAFSYR 30 0 Q14C86-4;Q14C86-5;Q14C86-2;Q14C86;Q14C86-6;F8W9S7;Q14C86-3 Q14C86-4 GAPVD1 GTPase-activating protein and VPS9 domain-containing protein 1 1 0 DEALQNIS(0.938)ADDLPDS(0.062)ASQAAHPQDSAFSYR;DEALQNIS(1)ADDLPDSASQAAHPQDSAFSYR ; 175.12 2.41E-18 23341000 1399.14 1926.41 1220.29 1848.4 2728.5 4208.3 2388.03 2437.57 2086.11 2644.2 TRUE FALSE FALSE 1546.307965 1988.826948 1386.584766 1884.178455 2519.442919 3849.729165 2119.322579 2375.220489 2071.592591 2758.204402 0.560621237 0.721058579 0.502712839 0.683117775 0.9134359 1.395737445 0.768370385 0.861147378 0.751065653 1 11.42951366 -5.564277585 7.054331288 0.752073509 1.011957788 0.315663422 0.198884649 0.242343924 32.04346382 0.034618978 0.069939744 2.73E-06 5.564277585 0.259884279 DEDDDEEEEEEGGSWGR ddPTM_HeLa_SAHA_4h_R1 1 DEDDDEEEEEEGGSWGR 17 0 Q5VYD6;O00165-4;O00165-6;O00165-3;O00165;O00165-2 Q5VYD6 HAX1 HCLS1-associated protein X-1 0 0 258.23 2.31E-46 4471300 335.33 354.54 295.43 549.76 368.9 366.55 226.78 472.44 229.71 418.63 FALSE FALSE TRUE 370.6015479 366.0273286 335.6896619 560.4013998 340.6349617 335.3178778 201.2621175 460.3556689 228.1114294 436.679188 0.848681499 0.838206488 0.768732908 1.283325185 0.780057697 0.767881518 0.460892397 1.054219394 0.522377607 1 8.770429964 -13.52287875 0.025441283 2.151402706 1.50E-08 0 0.24657384 2899.374333 5.936107143 358.2182194 174.6426577 3.00E-14 13.52287875 -2.151402691 DEDEGIPS(ph)ENEEEKK ddPTM_HeLa_SAHA_4h_R1 2 DEDEGIPSENEEEKK 15 1 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 DEDEGIPS(1)ENEEEKK;DEDEGIPS(1)ENEEEKK ; 67.252 0.016348 20311900 3241.8 4825.4 3380.8 3982.3 4634.9 5222.8 4311 3683 6268.6 4632.6 TRUE FALSE FALSE 3582.787398 4981.746126 3841.517818 4059.383175 4279.774963 4777.788057 3825.914934 3588.794193 6224.976302 4832.334057 0.741419644 1.030919234 0.794961145 0.840046058 0.885653788 0.988712287 0.791732295 0.742662686 1.288192461 1 12.23850448 -9.619969495 1.429490123 1.000042723 0.842278548 0.343470313 0.130920746 0.447365336 1.640893528 0.067104204 0.015350448 2.40E-10 9.619969495 -0.157764176 DEDMLYS(ph)PELAQR ddPTM_HeLa_SAHA_4h_R1 3 DEDMLYSPELAQR 13 0 Q9Y2W2 Q9Y2W2 WBP11 WW domain-binding protein 11 1 0 DEDMLYS(1)PELAQR;DEDMLYS(1)PELAQR;DEDMLYS(1)PELAQR ;; 240.11 1.17E-31 46130600 5302.4 6531.2 4941.6 4318 5708.6 5946.1 5588 4731.2 6185.1 5656.5 TRUE FALSE FALSE 5860.13076 6742.815165 5615.015513 4401.581134 5271.208301 5439.458828 4959.223533 4610.182755 6142.057386 5900.379397 0.993178636 1.142776542 0.95163635 0.745982731 0.893367688 0.921882893 0.840492314 0.781336664 1.040959737 1 12.52659201 -6.512205411 24.8104445 1.009522809 0.84512743 0.688306748 0.064219619 235.5833956 547620.0267 0.009774786 0.014361434 3.07E-07 6.512205411 -0.164395379 DEEDT(ph)SFESLSK ddPTM_HeLa_SAHA_4h_R1 1 DEEDTSFESLSK 12 0 H7C3L4;E7EQA9;Q92844 H7C3L4 TANK TRAF family member-associated NF-kappa-B activator 1 0 DEEDT(0.933)S(0.066)FESLSK 189.3 1.21E-06 1650400 569.58 805.85 638.95 720.78 926.05 1333.9 961.71 845.97 1082.7 740.79 TRUE FALSE FALSE 629.4910377 831.9600687 726.0227785 734.7317392 855.0962491 1220.244216 853.4958597 824.3313123 1075.165403 772.7290822 0.814633553 1.076651685 0.93955669 0.950827083 1.106592555 1.579135875 1.104521467 1.0667792 1.391387263 1 9.593818886 -5.618860598 4.034594053 0.928985775 1.250014549 0.077436335 0.205000987 0.140811717 4.286266868 0.021747563 0.045227381 2.41E-06 5.618860598 0.321028774 DEEERYFDEEEPEDAPS(ph)PELDGD ddPTM_HeLa_SAHA_4h_R1 1 DEEERYFDEEEPEDAPSPELDGD 23 1 Q96F63 Q96F63 CCDC97 Coiled-coil domain-containing protein 97 1 0 DEEERYFDEEEPEDAPS(1)PELDGD 70.02 0.0015348 3038000 641.7 692.28 618.28 688.49 794.19 910.08 680.21 753.53 540.92 674.34 TRUE FALSE FALSE 709.1969502 714.7103262 702.5359785 701.8167195 733.3393338 832.536064 603.6709806 734.2557937 537.1556937 703.4140975 1.008221121 1.016059145 0.998751633 0.997729107 1.042542844 1.183564656 0.858201425 1.043845718 0.763640785 1 9.458230439 -5.769125932 24.69591904 1.00417522 1.030445001 0.012624507 0.105613554 503.0260259 1616160.429 0.010178158 0.018720046 1.70E-06 5.769125932 0.026269781 DEELEKDTMDNWDEK ddPTM_HeLa_SAHA_4h_R1 1 DEELEKDTMDNWDEK 15 1 Q8WU90 Q8WU90 ZC3H15 Zinc finger CCCH domain-containing protein 15 0 0 134.81 0.00032269 5725900 1830.8 1981.3 1684.9 1826.2 1835.1 2002.8 2041.2 1872.6 1943.8 1858.3 FALSE FALSE TRUE 2023.371944 2045.49542 1914.509397 1861.548742 1694.495034 1832.150173 1811.518804 1824.701603 1930.272938 1938.420407 1.043825135 1.055238282 0.987664693 0.960343141 0.874162812 0.94517689 0.934533498 0.941334293 0.995796851 1 10.92066578 -6.283803147 2.534142314 1.023570448 0.926201457 0.737345553 0.026343637 0.111048837 1.405480557 0.004318888 0.007241672 5.20E-07 6.283803147 -0.097368991 DEEPSGWEEPS(ph)PQSISR ddPTM_HeLa_SAHA_4h_R1 3 DEEPSGWEEPSPQSISR 17 0 Q9UPQ9-1;Q9UPQ9;H0Y720 Q9UPQ9-1 TNRC6B Trinucleotide repeat-containing gene 6B protein 1 0 DEEPS(0.001)GWEEPS(0.972)PQS(0.007)IS(0.02)R;DEEPSGWEEPS(1)PQSISR;DEEPSGWEEPS(0.86)PQS(0.14)IS(0.001)R ;; 221.34 3.51E-21 15561800 1059.53 1393.03 1045.4 1233.82 1418.2 1960.41 1379.52 1354.16 1986.57 1418.62 TRUE FALSE FALSE 1170.976227 1438.165086 1187.861668 1257.70237 1309.537822 1793.372039 1224.292779 1319.522548 1972.745298 1479.783651 0.791315829 0.971875237 0.802726579 0.849923142 0.884952217 1.211915024 0.827345794 0.89169964 1.333130892 1 10.53117055 DEEPSGWEEPSPQS(ph)ISR ddPTM_HeLa_SAHA_4h_R1 1 DEEPSGWEEPSPQSISR 17 0 Q9UPQ9-1;Q9UPQ9;H0Y720 Q9UPQ9-1 TNRC6B Trinucleotide repeat-containing gene 6B protein 1 0 DEEPSGWEEPS(0.345)PQS(0.515)IS(0.14)R 166.9 2.06E-06 5242000 365.56 404.17 322.19 572.27 472 426.77 482.52 363.98 667.55 507.61 TRUE FALSE FALSE 404.011278 417.2653732 366.0963753 583.3471134 435.835462 390.4067951 428.2255797 354.6699186 662.9044652 529.4955513 0.763011657 0.788043209 0.691405951 1.101703521 0.823114492 0.737318367 0.808742545 0.669826059 1.25195474 1 9.048474753 -9.310584144 0.937775438 1.005108004 0.8010958 0.410741593 0.139392068 0.600826421 0.909330076 0.085929087 0.020762246 4.89E-10 9.310584144 -0.204012204 DEEVHAGLGELLR ddPTM_HeLa_SAHA_4h_R1 4 DEEVHAGLGELLR 13 0 P50454;E9PPV6;E9PR70;E9PJH8;E9PIG2;E9PRS3;E9PNX1;E9PK86;E9PMI5;E9PQ34 P50454 SERPINH1 Serpin H1 0 0 ;;; ;;; 162.31 5.79E-05 24973400 13018.9 14853.5 10953.9 12539.5 15139.7 19911.3 15106.6 11742.3 20267.5 16928.4 FALSE FALSE TRUE 14388.28763 15334.76315 12446.64045 12782.22015 13979.69946 18214.74522 13406.76561 11441.94897 20126.45682 17658.26617 0.814818822 0.868418394 0.704861979 0.723866094 0.791680187 1.031513799 0.759234541 0.647965596 1.139775368 1 14.10805607 -9.030639991 0.535702769 1.027088158 0.789047091 0.488424834 0.108565197 1.036297699 0.471679463 0.123456675 0.026469407 9.32E-10 9.030639991 -0.238041067 DEFEGLFK ddPTM_HeLa_SAHA_4h_R1 1 DEFEGLFK 8 0 P22314-2;P22314;Q5JRR6 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 129.47 0.012348 6814200 1270.6 1400.9 1455.8 1647.5 1537 1718.8 1731.6 1545 1913.1 1584.1 FALSE FALSE TRUE 1404.247538 1446.290079 1654.188843 1679.389745 1419.235392 1572.34857 1536.755811 1505.481137 1899.786581 1652.398303 0.84982388 0.875267226 1.0010836 1.016334707 0.858894244 0.951555425 0.930015365 0.911088528 1.149714677 1 10.69034577 -9.679317623 1.562499604 0.999749681 0.914718237 0.307443784 0.072090077 0.483282049 2.135087954 0.04172685 0.009420776 2.09E-10 9.679317623 -0.085031444 DEGNYLDDALVR ddPTM_HeLa_SAHA_4h_R1 2 DEGNYLDDALVR 12 0 P09525;P09525-2;Q6P452 P09525 ANXA4 Annexin A4;Annexin 0 0 ; ; 161.93 0.00088479 4162100 1264.42 1367.25 1074.8 1057.45 1290.71 1512.68 1534.1 1281.13 1603.28 1048.47 FALSE FALSE TRUE 1397.417497 1411.549797 1221.268147 1077.918474 1191.816079 1383.791154 1361.47903 1248.36055 1592.122644 1093.674673 1.277726852 1.290648702 1.116664925 0.98559334 1.089735465 1.265267623 1.244866563 1.141436828 1.455755247 1 10.09496794 -9.523845034 1.3059619 1.00088745 1.186484312 0 0.168703362 0.438982875 1.350698168 0.071137738 0.017407876 2.99E-10 9.523845034 0.185596862 DEILEWESR ddPTM_HeLa_SAHA_4h_R1 3 DEILEWESR 9 0 H0YK42;Q13596-2;Q13596;Q13596-3 H0YK42 SNX1 Sorting nexin-1 0 0 ;; ;; 175.91 0.0001036 10139700 2356.73 3374.39 3152.63 3609.95 3672.16 4429.9 3872.64 3017.96 4538.5 3375.15 FALSE FALSE TRUE 2604.621674 3483.72245 3582.253998 3679.825802 3390.799894 4052.447598 3436.880355 2940.764953 4506.916209 3520.669234 0.739808684 0.98950575 1.017492346 1.045206339 0.963112314 1.151044682 0.976200866 0.835285782 1.28013054 1 11.78163398 -7.035975366 24.39758169 0.876475301 1.004482915 0 0.158530985 519.1032674 352041.8326 0.019678814 0.024107349 9.21E-08 7.035975366 0.128007614 DEILPT(ph)TPISEQK ddPTM_HeLa_SAHA_4h_R1 2 DEILPTTPISEQK 13 0 E9PPU1;P23396;E9PL09;P23396-2;H0YEU2;E9PSF4 E9PPU1 RPS3 40S ribosomal protein S3 1 0 DEILPT(0.95)T(0.05)PISEQK;DEILPT(0.5)T(0.5)PISEQK ; 238.88 2.27E-31 702641000 10042.6 12176.8 7596.9 10688.9 11960 13234.4 11876.2 9678.6 12923.5 11130.7 TRUE FALSE FALSE 11098.92675 12571.33631 8632.165969 10895.79912 11043.62738 12106.75467 10539.85872 9431.035426 12833.56431 11610.59895 0.955930594 1.08274658 0.743472926 0.938435576 0.951167759 1.042732999 0.90777907 0.812278115 1.105331807 1 13.50315478 -1 0.110624918 1.028397459 0.610915359 0.198412877 0.096537791 176.6828581 1.368063346 0.52021681 11.31492315 0.1 1 -0.4174821 DEILPTT(ph)PISEQK ddPTM_HeLa_SAHA_4h_R1 6 DEILPTTPISEQK 13 0 E9PPU1;P23396;E9PL09;P23396-2;H0YEU2;E9PSF4 E9PPU1 RPS3 40S ribosomal protein S3 1 0 DEILPT(0.122)T(0.873)PIS(0.005)EQK;DEILPT(0.002)T(0.998)PISEQK;DEILPT(0.044)T(0.954)PIS(0.002)EQK;DEILPT(0.039)T(0.961)PISEQK;DEILPT(0.234)T(0.756)PIS(0.01)EQK;DEILPT(0.114)T(0.771)PIS(0.114)EQK ;;;;; 244.23 1.32E-31 1024985500 18057.2 21765.2 13564.3 18601.4 21862.2 25680.6 21093.7 18165.6 24837 20014.8 TRUE FALSE FALSE 19956.53915 22470.40676 15412.77216 18961.457 20187.12296 23492.4684 18720.18136 17700.95026 24664.15729 20877.73598 0.955876593 1.076285608 0.738239634 0.908214234 0.966921077 1.125240229 0.896657635 0.847838591 1.181361682 1 14.34967765 DEILPTTPISEQK ddPTM_HeLa_SAHA_4h_R1 3 DEILPTTPISEQK 13 0 E9PPU1;P23396;E9PL09;P23396-2;H0YEU2;E9PSF4 E9PPU1 RPS3 40S ribosomal protein S3 0 0 ;; ;; 196.24 3.56E-23 25668100 8144.87 7889.16 6629.6 8489.77 6808.45 9030.5 8565.68 8225.6 8473.43 7495.79 FALSE FALSE TRUE 9001.584797 8144.77396 7533.047363 8654.101775 6286.788032 8261.050596 7601.847143 8015.201063 8414.462711 7818.97019 1.151249407 1.041668373 0.963432163 1.106808386 0.804042972 1.056539467 0.972231248 1.025096767 1.076159968 1 12.93276289 -6.944820379 5.923533449 1.072671355 0.98803922 0.193061768 0.081475682 0.266900451 19.86891481 0.014124518 0.018576369 1.14E-07 6.944820379 -0.084632135 DELADEIANSS(ph)GKGALALEEK ddPTM_HeLa_SAHA_4h_R1 2 DELADEIANSSGKGALALEEK 21 1 P35579;P35579-2 P35579 MYH9 Myosin-9 1 0 DELADEIANS(0.164)S(0.836)GKGALALEEK;DELADEIANS(0.221)S(0.779)GKGALALEEK ; 83.776 0.00064905 17927500 2390.69 3164.4 2621.52 2316.2 3448.2 3563.6 3499 2815.6 4185.7 3316.7 TRUE FALSE FALSE 2642.153743 3266.928636 2978.767093 2361.0334 3183.999661 3259.961232 3105.283311 2743.581029 4156.571373 3459.699169 0.763694649 0.944281129 0.860990204 0.68243893 0.920311133 0.942267253 0.897558764 0.793011443 1.201425665 1 11.75643088 -9.547315417 1.302583714 1.000324018 0.843994191 0.414623835 0.103754838 0.427326171 1.294496896 0.059055032 0.013876373 2.84E-10 9.547315417 -0.156329827 DELADEIANSSGK ddPTM_HeLa_SAHA_4h_R1 2 DELADEIANSSGK 13 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ; ; 222.2 7.47E-16 15421300 7038.5 4458.4 3968.1 4508.5 3796.8 6356.3 4906.9 4714.6 6809 5449.7 FALSE FALSE TRUE 7778.841724 4602.855085 4508.852003 4595.768537 3505.890004 5814.70748 4354.762698 4594.007359 6761.615615 5684.663237 1.368390949 0.809697056 0.793160793 0.808450447 0.616727827 1.022876332 0.766054648 0.808140635 1.189448756 1 12.47285917 -7.23891122 23.39935406 1.17396238 0.803176587 0.667222675 0.12365665 194.7022696 202231.584 0.026359374 0.032266129 5.77E-08 7.23891122 -0.370785793 DELHIVEAEAMNY(ph)EGSPIKVTLATLK ddPTM_HeLa_SAHA_4h_R1 1 DELHIVEAEAMNYEGSPIKVTLATLK 26 1 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 1 0 DELHIVEAEAMNY(0.826)EGS(0.174)PIKVTLATLK 112.47 2.45E-07 7504300 447.78 495.97 427.55 714.29 806.28 656.8 854 421.38 788.32 400.72 TRUE FALSE FALSE 494.8795549 512.0397534 485.8142874 728.1161158 744.5030006 600.8369449 757.9056724 410.6017098 782.8340169 417.9970003 1.183930876 1.224984278 1.162243478 1.741917084 1.781120439 1.437419275 1.813184477 0.98230779 1.872822093 1 8.707348779 -6.359551869 5.656893269 1.104224879 1.571155423 0.001462366 0.334741026 0.141803477 6.682392131 0.033878767 0.052054502 4.37E-07 6.359551869 0.466930544 DELHIVEAEAMNYEGS(ph)PIK ddPTM_HeLa_SAHA_4h_R1 8 DELHIVEAEAMNYEGSPIK 19 0 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 1 0 DELHIVEAEAMNYEGS(1)PIK;DELHIVEAEAMNY(0.012)EGS(0.988)PIK;DELHIVEAEAMNY(0.001)EGS(0.999)PIK;DELHIVEAEAMNY(0.013)EGS(0.987)PIK;DELHIVEAEAMNYEGS(1)PIK;DELHIVEAEAMNYEGS(1)PIK;DELHIVEAEAMNY(0.014)EGS(0.986)PIK;DELHIVEAEAMNY(0.001)EGS(0.999)PIK ;;;;;;; 220.69 6.81E-26 172678700 16102.8 38261 18142.3 25583.4 30476.5 38009.4 27824.7 18899.9 65164.7 30204.7 TRUE FALSE FALSE 17796.56639 39500.6815 20614.63816 26078.6037 28141.39715 34770.78528 24693.79153 18416.46792 64711.21355 31506.97244 0.564845335 1.253712383 0.654288133 0.82770897 0.893179985 1.103590177 0.783756407 0.584520393 2.053869621 1 14.94338351 -9.825216493 1.873606848 1.000811561 0.794253138 0.105118312 0.395419066 0.660265814 4.196275055 0.162844099 0.033396292 1.50E-10 9.825216493 -0.206558423 DELHIVEAEAMNYEGSPIK ddPTM_HeLa_SAHA_4h_R1 7 DELHIVEAEAMNYEGSPIK 19 0 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 0 0 ;;;;;; ;;;;;; 243.01 3.10E-41 91136200 26874 16997.1 15803.9 20582.6 17650.1 25182.9 23078.8 19072.1 27753.1 20951.6 FALSE FALSE TRUE 29700.73062 17547.81719 17957.57319 20981.00599 16297.75315 23037.17524 20481.91268 18584.2633 27559.96392 21854.92601 1.358994792 0.802922745 0.821671653 0.960012675 0.745724472 1.054095321 0.937176025 0.850346658 1.261041282 1 14.41567087 -7.24769382 24.9387686 1.169525321 0.88594341 0.606109453 0.11889096 531.4658219 964247.0817 0.025345967 0.030955603 5.65E-08 7.24769382 -0.283581911 DELT(ph)ESPK ddPTM_HeLa_SAHA_4h_R1 1 DELTESPK 8 0 Q8NC51-2;Q8NC51 Q8NC51-2 SERBP1 Plasminogen activator inhibitor 1 RNA-binding protein 1 0 DELT(0.712)ES(0.288)PK 101.97 0.016988 55081000 3140.5 5186.1 3028.4 4499.3 4862.8 5994.2 3412.8 2990.5 9104.8 4679.1 TRUE FALSE FALSE 3470.832199 5354.133043 3441.094581 4586.390458 4490.213315 5483.460438 3028.782762 2914.00734 9041.438955 4880.8389 0.711113862 1.096969835 0.705021135 0.939672575 0.919967532 1.123466795 0.62054553 0.597030019 1.85243544 1 12.25291342 -13.52287862 0.019542352 1.988922499 6.57E-07 0.055043133 0.339446983 6523.801825 10.28314384 688.3963242 396.1473029 3.00E-14 13.52287862 -1.988921842 DELTES(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 DELTESPK 8 0 Q8NC51-2;Q8NC51 Q8NC51-2 SERBP1 Plasminogen activator inhibitor 1 RNA-binding protein 1 0 DELT(0.015)ES(0.985)PK;DELT(0.003)ES(0.997)PK;DELT(0.136)ES(0.864)PK ;; 120.27 0.0035453 72526000 7095.6 11263.3 5298.4 8686.9 9417 12609.1 8364 7013.3 17442.1 9648.7 TRUE FALSE FALSE 7841.947764 11628.23831 6020.438359 8855.047511 8695.471494 11534.73374 7422.860707 6833.909941 17320.71901 10064.70268 0.779153445 1.155348418 0.598173493 0.879812131 0.863957116 1.146058072 0.737514157 0.678997697 1.720936978 1 13.29701693 -9.549589515 1.246780954 1.001983416 0.85284486 0.14510946 0.286624483 0.948615689 2.583306979 0.123352554 0.027595689 2.82E-10 9.549589515 -0.149138556 DELTES(ph)PKYIQK ddPTM_HeLa_SAHA_4h_R1 1 DELTESPKYIQK 12 1 Q8NC51-2;Q8NC51 Q8NC51-2 SERBP1 Plasminogen activator inhibitor 1 RNA-binding protein 1 0 DELT(0.003)ES(0.997)PKYIQK 155.42 0.001057 4371300 664.05 725.84 558.29 622.48 1255.8 1046.1 791.11 608.86 884.54 860.74 TRUE FALSE FALSE 733.8978258 749.3576922 634.3708538 634.5290005 1159.580875 956.9663948 702.0922207 593.2862428 878.3844141 897.8507138 0.817394044 0.834612793 0.706543798 0.706719938 1.291507438 1.065841325 0.781969886 0.660784954 0.978319002 1 9.810331777 -9.398275796 1.153391203 0.999126949 0.862266045 0.077313354 0.180092322 1.172971685 2.818052737 0.1260742 0.032980395 4.00E-10 9.398275796 -0.136860904 DENPFASLTATSQPIAAAARS(ph)PDR ddPTM_HeLa_SAHA_4h_R1 2 DENPFASLTATSQPIAAAARSPDR 24 1 O95155-2;O95155;O95155-4;O95155-3 O95155-2 UBE4B Ubiquitin conjugation factor E4 B 1 0 DENPFASLTAT(0.002)S(0.015)QPIAAAARS(0.984)PDR;DENPFASLTATSQPIAAAARS(0.999)PDR ; 90.799 4.68E-05 9759700 1021.45 727.73 912.73 948.65 1020.61 797.25 802.08 820.5 656.92 826.83 TRUE FALSE FALSE 1128.890798 751.3089295 1037.112091 967.0124925 942.4110823 729.3198148 711.8278474 799.5127981 652.3484402 862.4786877 1.308891238 0.871104342 1.202478514 1.121201609 1.09267753 0.845609086 0.825328043 0.926994266 0.756364707 1 9.752344997 -5.3118836 4.480318511 1.128533525 0.860731169 0.099553168 0.16300858 0.151556449 6.638025598 0.019782049 0.046863038 4.88E-06 5.3118836 -0.267802357 DENSVELTMAEGPYK ddPTM_HeLa_SAHA_4h_R1 2 DENSVELTMAEGPYK 15 0 Q14697;Q14697-2;F5H6X6;E9PKU7;E9PNH1 Q14697 GANAB Neutral alpha-glucosidase AB 0 0 ; ; 264.09 7.42E-58 4421000 2634.6 3404.6 2124.51 2595.84 2698.1 3226.5 3085.7 3128.5 3414.4 2257.31 FALSE FALSE TRUE 2911.719316 3514.911274 2414.027159 2646.086237 2491.372161 2951.584048 2738.488915 3048.4775 3390.638912 2354.633681 1.236591211 1.492763525 1.025224084 1.123778301 1.058072082 1.253521544 1.163021211 1.294671661 1.439985735 1 11.20128692 -9.235399093 1.056913711 1.004064612 1.20203323 0 0.184452412 0.543980415 1.122596792 0.076172366 0.02284936 5.82E-10 9.235399093 0.197968617 DENVEFDS(ph)DEEEPPDLPLD ddPTM_HeLa_SAHA_4h_R1 1 DENVEFDSDEEEPPDLPLD 19 0 Q9BWG6-2;Q9BWG6 Q9BWG6-2 SCNM1 Sodium channel modifier 1 1 0 DENVEFDS(1)DEEEPPDLPLD 146.76 8.29E-05 2815000 215.14 521.44 371.98 383.12 375.28 565.94 277.46 436.54 335.77 240.8 TRUE FALSE FALSE 237.7694123 538.3349981 422.6714972 390.5358416 346.5261275 517.7187281 246.2394706 425.3739389 333.4333492 251.1820664 0.946601864 2.143206343 1.682729596 1.554791897 1.379581482 2.061129345 0.980322656 1.693488492 1.327456828 1 7.972589654 -7.29705933 24.5638806 0.974784122 1.620934816 0.355725661 0.327786503 275.3766204 189901.8362 0.049437062 0.056534667 5.05E-08 7.29705933 0.646150694 DEST(ph)DSGLSMSSYSVPR ddPTM_HeLa_SAHA_4h_R1 1 DESTDSGLSMSSYSVPR 17 0 P46937-6;P46937-7;P46937;P46937-9;P46937-5;P46937-3;P46937-2;P46937-8;H0YCI3;P46937-4 P46937-6 YAP1 Transcriptional coactivator YAP1 1 0 DES(0.083)T(0.34)DS(0.307)GLS(0.004)MS(0.1)S(0.131)Y(0.001)S(0.034)VPR 88.108 0.010096 3665200 297.58 422.5 222.35 381.68 324.3 222.18 215.03 405.53 365.86 419.79 TRUE FALSE FALSE 328.8808297 436.1892772 252.6507001 389.0679683 299.4522041 203.249014 190.8342585 395.1571298 363.3139505 437.8892013 0.751059466 0.996117913 0.576974037 0.888507794 0.683853822 0.46415626 0.435804897 0.902413507 0.829693789 1 8.774422062 -8.759300446 0.142550687 1.276448957 0.468214106 0.223648523 0.173221763 9.503883861 0.513412963 1.984923672 0.872626809 1.74E-09 8.759300446 -0.808234851 DET(ph)PTLEASLDNANSR ddPTM_HeLa_SAHA_4h_R1 1 DETPTLEASLDNANSR 16 0 H0Y9X0;A0A286YEZ9;A0A2C9F2R7;O94915 H0Y9X0 FRYL Protein furry homolog-like 1 0 DET(0.773)PT(0.227)LEASLDNANSR 206.13 3.40E-15 3339500 692.91 1070.8 589.24 717.91 957.92 1297.3 940.68 486.7 989.22 835.85 TRUE FALSE FALSE 765.793453 1105.494623 669.5385586 731.8061862 884.5243765 1186.762742 834.8322107 474.2509187 982.3359375 871.8875841 0.878316731 1.267932521 0.767918446 0.839335483 1.014493603 1.361141922 0.957499827 0.543935855 1.126677287 1 9.767998324 DETDSKTAS(ph)PWK ddPTM_HeLa_SAHA_4h_R1 1 DETDSKTASPWK 12 1 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2;A0A1B0GTD1 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 1 0 DETDS(0.01)KT(0.231)AS(0.759)PWK 115.12 0.0092341 8094000 769.3 418.36 717.78 858.95 616.44 432.97 838.29 808.36 146.6 773.22 TRUE FALSE FALSE 850.2185037 431.9151385 815.5953204 875.5762193 569.2085004 396.0785202 743.9634029 787.6833217 145.5797987 806.5572982 1.054132801 0.535504594 1.011205679 1.085572248 0.705726055 0.49107301 0.92239374 0.976599336 0.180495296 1 9.655633217 DETEFYLGK ddPTM_HeLa_SAHA_4h_R1 4 DETEFYLGK 9 0 F8WBS5;F8WB72;C9K025;P18077 F8WBS5 RPL35A 60S ribosomal protein L35a 0 0 ;;; ;;; 170.3 0.00018339 46043100 11679.4 11273.6 8740.54 11914.2 11664 13543.3 12809.9 11323.4 13783.5 11156.2 FALSE FALSE TRUE 12907.89288 11638.87204 9931.655272 12144.81657 10770.30684 12389.33465 11368.49634 11033.76382 13687.5795 11637.19838 1.109192476 1.00014382 0.853440403 1.043620309 0.925506852 1.064632074 0.976910075 0.948146063 1.176191988 1 13.50645616 -7.009861796 24.95621187 1.051726539 0.970875874 0.336824764 0.072079185 492.1798179 1245509.962 0.010581424 0.013467714 9.78E-08 7.009861796 -0.080850665 DETNYGIPQR ddPTM_HeLa_SAHA_4h_R1 2 DETNYGIPQR 10 0 P63244;D6RAC2;D6REE5;D6R9L0;D6R9Z1;D6RHH4;D6RFX4;D6RFZ9;D6RBD0;E9PD14;D6RAU2;D6R909;D6RGK8 P63244 GNB2L1 "Guanine nucleotide-binding protein subunit beta-2-like 1;Guanine nucleotide-binding protein subunit beta-2-like 1, N-terminally processed" 0 0 ; ; 144.65 0.0055078 20543000 3148.9 3025.2 2952.9 2985.8 3499.3 4057.9 3296 2853.4 3446.6 3292.2 FALSE FALSE TRUE 3480.11575 3123.218465 3355.305834 3043.594477 3231.18439 3712.144091 2925.125405 2780.41416 3422.61483 3434.142854 1.013387007 0.909460846 0.977043174 0.88627486 0.940899819 1.080952147 0.851777439 0.809638468 0.996643115 1 11.74573434 -4.619549424 6.77234109 0.988039432 0.8201821 0.536297903 0.053442904 0.103973741 6.042662567 0.007685721 0.029365679 2.40E-05 4.619549424 -0.167857332 DEVQEVVYFSAADHEPESK ddPTM_HeLa_SAHA_4h_R1 2 DEVQEVVYFSAADHEPESK 19 0 Q12765-2;B8ZZP4;C9J7U9;C9K052;Q12765 Q12765-2 SCRN1 Secernin-1 0 0 ; ; 112.14 0.00078838 9429500 2703.8 2687.5 2537.3 3154.8 2990.4 4394.4 3238.4 3682.9 3939.9 3101.5 FALSE FALSE TRUE 2988.198089 2774.576763 2883.07003 3215.865716 2761.276198 4019.972398 2874.006709 3588.696751 3912.481915 3235.220843 0.923645783 0.857615878 0.89115092 0.994017371 0.853504701 1.242565065 0.888349466 1.109258664 1.209339982 1 11.65964848 -5.29754052 24.99972148 0.945332216 1.060887237 0.14328878 0.126375328 585.260001 405286.4366 0.012863261 0.028764041 5.04E-06 5.29754052 0.115555021 DEVVS(ph)PLPSALQGPSGSLSAPPAASVISAPPSSSSR ddPTM_HeLa_SAHA_4h_R1 2 DEVVSPLPSALQGPSGSLSAPPAASVISAPPSSSSR 36 0 Q7L2J0 Q7L2J0 MEPCE 7SK snRNA methylphosphate capping enzyme 1 0 DEVVS(0.994)PLPS(0.004)ALQGPS(0.001)GS(0.001)LSAPPAASVISAPPSSSSR;DEVVS(0.943)PLPS(0.023)ALQGPS(0.013)GS(0.013)LS(0.008)APPAASVISAPPSSSSR ; 93.059 2.60E-11 15902100 1492.89 1554.32 1303.95 1408.35 1730.42 1714.58 1723.47 1446.3 1654.21 1814.72 TRUE FALSE FALSE 1649.91902 1604.680988 1481.645515 1435.610651 1597.835593 1568.488138 1529.54062 1409.30574 1642.698218 1892.96146 0.871607296 0.847709275 0.782712985 0.75839402 0.84409304 0.828589578 0.808014665 0.744497852 0.867792743 1 10.88642932 -8.282301584 0.447558268 1.012718543 0.788190367 0.471436152 0.050078101 0.293593591 0.13163628 0.028231519 0.012590022 5.22E-09 8.282301584 -0.224528176 DFAYGETDPLIR ddPTM_HeLa_SAHA_4h_R1 3 DFAYGETDPLIR 12 0 Q14166 Q14166 TTLL12 Tubulin--tyrosine ligase-like protein 12 0 0 ;; ;; 159.83 1.84E-06 6929900 3053.08 3300.39 3010.97 3239.98 3030.98 3984.25 3436.33 3500.53 3640.95 3492.92 FALSE FALSE TRUE 3374.216962 3407.324801 3421.289311 3302.694498 2798.746967 3644.769485 3049.665104 3410.991511 3615.612333 3643.516875 0.926087919 0.9351747 0.939007401 0.906457857 0.768144368 1.000343791 0.837011385 0.936181066 0.992341316 1 11.83111596 -8.531873189 0.340951814 1.019741074 0.886225371 0.295329321 0.058727325 1.749345467 0.411589076 0.092443996 0.03111404 2.94E-09 8.531873189 -0.133515703 DFEIIDNHDYSYTVK ddPTM_HeLa_SAHA_4h_R1 1 DFEIIDNHDYSYTVK 15 0 Q14315-2;Q14315 Q14315-2 FLNC Filamin-C 0 0 75.998 0.020286 3807700 1039.5 1678.1 1359.2 1631.9 2104.1 1720.5 1759.1 1444.9 1633.2 1888.8 FALSE FALSE TRUE 1148.839379 1732.471541 1544.424698 1663.487784 1942.884313 1573.903721 1561.161438 1407.94155 1621.834428 1970.235412 0.583097519 0.879322101 0.783878256 0.844309149 0.986117852 0.798840439 0.792373048 0.714605748 0.82316784 1 10.9441523 -9.705017201 1.606902153 0.999669358 0.770109598 0.018974516 0.114594306 0.368481928 1.720394711 0.0881561 0.019543239 1.97E-10 9.705017201 -0.22955976 DFERLGR ddPTM_HeLa_SAHA_4h_R1 1 DFERLGR 7 1 Q96P48-3;Q96P48;F5GWN4;F8WBT0;A0A0A0MSJ2;E7EU13;Q96P48-5;Q96P48-7;Q96P48-2;Q96P48-4;Q96P48-1 Q96P48-3 ARAP1 "Arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1" 0 0 127.12 0.0031557 2025300 483.21 788.11 682.49 587.52 635.57 942.89 803.03 751.52 564.68 740.39 FALSE FALSE TRUE 534.0362448 813.6452811 775.4961829 598.8922992 586.8727639 862.5504674 712.6709509 732.2972066 560.7503459 772.3118363 0.691477483 1.053519113 1.004123136 0.775453995 0.759890936 1.116842222 0.92277616 0.948188506 0.726067269 1 9.593039672 -5.267658693 24.96839694 0.86651255 0.988619682 0.191916326 0.128124976 787.8915433 3163118.737 0.021089778 0.048269447 5.40E-06 5.267658693 0.122107133 DFK(ac)PGDLIFAK ddPTM_HeLa_SAHA_4h_R1 1 DFKPGDLIFAK 11 1 O75475;O75475-3;O75475-2 O75475 PSIP1 PC4 and SFRS1-interacting protein 0 1 DFK(1)PGDLIFAK 134.2 0.00048314 417870 268.53 531.44 338.1 338.22 327.36 559.37 517.4 445.49 428.03 0 FALSE TRUE FALSE 296.7752175 548.6590047 384.1745073 344.7667372 302.2777475 511.7085291 459.1807903 434.0950109 425.0513044 0 0 DFLIPIGK(ac)AK ddPTM_HeLa_SAHA_4h_R1 1 DFLIPIGKAK 10 1 P11177-2;P11177;F8WF02;C9J634;P11177-3 P11177-2 PDHB "Pyruvate dehydrogenase E1 component subunit beta, mitochondrial" 0 1 DFLIPIGK(1)AK 113.22 0.00043764 0 417.1 567.91 578.29 256.99 703.99 383.77 673.47 365.32 471.67 435.79 FALSE TRUE FALSE 460.9724917 586.3106566 657.0963496 261.9644131 650.0504383 351.070637 597.6893831 355.9756434 468.3876101 454.5790396 1.014064555 1.289788146 1.445505165 0.576279129 1.430005305 0.772298338 1.314819495 0.783088555 1.030376611 1 8.828387354 -7.481871499 24.77602576 1.006204801 1.095646867 0.012985424 0.281520241 1498.182096 905188.2988 0.043471242 0.049146397 3.30E-08 7.481871499 0.089442066 DFLLK(ac)PELLR ddPTM_HeLa_SAHA_4h_R1 2 DFLLKPELLR 10 1 O00148;O00148-2;O00148-3;K7EQN7;K7EPJ3;F6QYI9;F6WLT2;F6TRA5;A0A0A0MT12;F6S4E6;F6R6M7;K7ENP6;A0A0G2JHN7;F6SXL5;F6S2B7;K7EN69;F6U6E2;K7EIL8;K7EL56;A0A0G2JJL7;Q13838;Q13838-2;Q5STU3 O00148;Q13838 DDX39A;DDX39B ATP-dependent RNA helicase DDX39A;Spliceosome RNA helicase DDX39B 0 1 ; DFLLK(1)PELLR;DFLLK(1)PELLR 107.45 0.0073991 838490 0 552.86 0 0 398.12 162.41 237.37 0 189.1 0 FALSE TRUE FALSE 0 570.7730267 0 0 367.6161316 148.5717543 210.6605029 0 187.7840377 0 0 DFMIQGGDFTR ddPTM_HeLa_SAHA_4h_R1 3 DFMIQGGDFTR 11 0 P23284 P23284 PPIB Peptidyl-prolyl cis-trans isomerase B 0 0 ;; ;; 182.46 5.98E-05 32078200 3573.7 4381.1 3267.7 4160.4 4479 4988.5 4365.6 3314.3 5107.3 4091.5 FALSE FALSE TRUE 3949.598163 4523.050515 3713.005139 4240.930558 4135.819988 4563.451735 3874.371198 3229.525005 5071.757883 4267.904588 0.92541857 1.059782481 0.869983164 0.993679795 0.969051651 1.069248771 0.907792365 0.756700376 1.188348469 1 12.05931221 -4.347742785 3.503639426 0.972420508 0.747881621 0.390018388 0.08844651 0.131356551 2.622365653 0.00755003 0.066029083 4.49E-05 4.347742785 -0.224538887 DFQDYMEPEEGCQGS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 12 DFQDYMEPEEGCQGSPQR 18 0 O43237;O43237-2;H3BUM4;B4E2E0 O43237 DYNC1LI2 Cytoplasmic dynein 1 light intermediate chain 2 1 0 DFQDYMEPEEGCQGS(1)PQR;DFQDYMEPEEGCQGS(1)PQR;DFQDY(0.001)MEPEEGCQGS(0.999)PQR;DFQDYMEPEEGCQGS(1)PQR;DFQDYMEPEEGCQGS(1)PQR;DFQDY(0.37)MEPEEGCQGS(0.63)PQR;DFQDYMEPEEGCQGS(1)PQR;DFQDYMEPEEGCQGS(1)PQR;DFQDYMEPEEGCQGS(1)PQR;DFQDYMEPEEGCQGS(1)PQR;DFQDYMEPEEGCQGS(1)PQR;DFQDYMEPEEGCQGS(1)PQR ;;;;;;;;;;; 234.51 4.10E-29 165295100 15114.51 16408.74 13231.17 14388.06 17478.71 19472.34 17201.83 16606.36 18943.67 15539.96 TRUE FALSE FALSE 16704.32351 16940.39394 15034.24494 14666.56171 16139.49502 17813.18708 15266.23482 16181.59336 18811.83946 16209.96373 1.030497279 1.045060571 0.927469376 0.904786831 0.995652753 1.098903575 0.941780936 0.998249819 1.160510892 1 13.98459324 -6.786953017 24.99991841 1.017103313 0.979166044 0.159282375 0.068113737 396.9042132 388911.0044 0.008544783 0.011232223 1.63E-07 6.786953017 -0.037937269 DFQDYMEPEEGCQGS(ph)PQRR ddPTM_HeLa_SAHA_4h_R1 7 DFQDYMEPEEGCQGSPQRR 19 1 O43237;O43237-2;H3BUM4;B4E2E0 O43237 DYNC1LI2 Cytoplasmic dynein 1 light intermediate chain 2 1 0 DFQDY(0.001)MEPEEGCQGS(0.999)PQRR;DFQDYMEPEEGCQGS(1)PQRR;DFQDYMEPEEGCQGS(1)PQRR;DFQDYMEPEEGCQGS(1)PQRR;DFQDYMEPEEGCQGS(1)PQRR;DFQDYMEPEEGCQGS(1)PQRR;DFQDYMEPEEGCQGS(1)PQRR ;;;;;; 133.15 3.82E-05 193747200 10601.67 10901.3 9508.15 9763.89 11359.05 12004 11956.46 11056.98 11822.15 10539.57 TRUE FALSE FALSE 11716.80229 11254.50927 10803.87117 9952.88421 10488.72204 10981.19167 10611.08765 10774.15846 11739.8787 10993.98244 1.065746862 1.023697221 0.982707697 0.905302902 0.954042095 0.998836566 0.96517233 0.980005064 1.067845865 1 13.42442646 -6.696398927 3.837415821 1.031574784 0.961308688 0.61399226 0.029246599 0.142043622 4.194203745 0.00535042 0.007576393 2.01E-07 6.696398927 -0.070266096 DFQEYVEPGEDFPAS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 4 DFQEYVEPGEDFPASPQR 18 0 Q9Y6G9;C9JGM7;E9PHI6 Q9Y6G9 DYNC1LI1 Cytoplasmic dynein 1 light intermediate chain 1 1 0 DFQEYVEPGEDFPAS(1)PQR;DFQEYVEPGEDFPAS(1)PQR;DFQEY(0.001)VEPGEDFPAS(0.999)PQR;DFQEYVEPGEDFPAS(1)PQR ;;; 212.85 1.41E-21 72500400 5367.93 6522.27 4799.81 5191.25 6322.16 6819.32 6462.45 5510.17 8039.99 5368.35 TRUE FALSE FALSE 5932.553506 6733.595827 5453.90311 5291.73415 5837.757467 6238.275572 5735.278118 5369.22783 7984.039055 5599.805841 1.059421286 1.202469518 0.973945038 0.944985291 1.042492835 1.114016405 1.024192317 0.958823928 1.425770693 1 12.45116109 -9.407422124 1.292271218 1.001297445 1.043502968 0 0.152162564 1.26370221 3.941008567 0.043509442 0.012523821 3.91E-10 9.407422124 0.042205524 DFQEYVEPGEDFPAS(ph)PQRR ddPTM_HeLa_SAHA_4h_R1 5 DFQEYVEPGEDFPASPQRR 19 1 Q9Y6G9;C9JGM7;E9PHI6 Q9Y6G9 DYNC1LI1 Cytoplasmic dynein 1 light intermediate chain 1 1 0 DFQEYVEPGEDFPAS(1)PQRR;DFQEYVEPGEDFPAS(1)PQRR;DFQEYVEPGEDFPAS(1)PQRR;DFQEYVEPGEDFPAS(1)PQRR;DFQEYVEPGEDFPAS(1)PQRR ;;;; 145.72 4.74E-05 597783500 10710.54 12236.81 10437.74 10532.71 12538.2 13040.2 12799.3 12292.9 12413.53 11644.3 TRUE FALSE FALSE 11837.12374 12633.29067 11860.14085 10736.58583 11577.52582 11929.1016 11359.08908 11978.46542 12327.14323 12146.34276 0.974542212 1.040090085 0.976437195 0.883935687 0.953169695 0.982114685 0.935185949 0.986178775 1.014885178 1 13.56823437 -6.512563516 24.99686281 0.992346604 0.947629879 0.406445866 0.031750131 458.3252134 1110658.767 0.004772883 0.007000128 3.07E-07 6.512563516 -0.044716725 DFS(ph)ASYFSGEQEVTPSR ddPTM_HeLa_SAHA_4h_R1 1 DFSASYFSGEQEVTPSR 17 0 P49454 P49454 CENPF Centromere protein F 1 0 DFS(0.999)AS(0.001)YFSGEQEVTPSR 152.68 4.86E-05 3381100 472.86 625.82 457.66 323.19 473.71 698.06 803.85 291.61 289.44 577.88 TRUE FALSE FALSE 522.5975844 646.0969786 520.0275214 329.4458098 437.4144421 638.5813608 713.3986824 284.1510384 287.4257635 602.7952349 0.86695706 1.071834914 0.862693484 0.546530216 0.725643497 1.059366969 1.183484276 0.471388992 0.476821559 1 9.235524202 -9.092250409 0.361790153 1.042280534 0.840031142 0 0.267974745 6.293796934 1.193673101 0.509424048 0.094019451 8.09E-10 9.092250409 -0.202249392 DFS(ph)LTS(ph)SSQTPGATKS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 DFSLTSSSQTPGATKSR 17 1 Q9NZ53-2;Q9NZ53 Q9NZ53-2 PODXL2 Podocalyxin-like protein 2 3 0 DFS(0.935)LT(0.487)S(0.562)S(0.015)S(0.008)QT(0.013)PGAT(0.006)KS(0.974)R 60.635 0.017878 29626000 1194.1 1144.3 936.17 1209.9 1251.2 1366.3 1271.1 1146.4 1318 1165.4 TRUE FALSE FALSE 1319.700917 1181.376071 1063.746372 1233.319364 1155.333326 1249.883553 1128.072483 1117.076748 1308.827931 1215.646097 1.085596309 0.971809208 0.875046097 1.014538168 0.950386242 1.028163999 0.927961259 0.918916081 1.076652106 1 10.24750757 -7.10698922 6.654149697 1.040229118 0.954873786 0.474453785 0.047295549 0.190678855 10.37326601 0.008397896 0.010315635 7.82E-08 7.10698922 -0.085355332 DFSALESQLQDTQELLQEENR ddPTM_HeLa_SAHA_4h_R1 4 DFSALESQLQDTQELLQEENR 21 0 P35579 P35579 MYH9 Myosin-9 0 0 ;;; ;;; 257.06 2.36E-53 11249700 3854.9 3755.47 3281.08 3941.17 3493.96 4159.75 4470.62 4303.33 4604.21 3560.84 FALSE FALSE TRUE 4260.376069 3877.149692 3728.208495 4017.457044 3226.25354 3805.315898 3967.574072 4193.25705 4572.168928 3714.365239 1.146999768 1.043825645 1.003726951 1.081599893 0.868588125 1.024486192 1.068170149 1.12892965 1.230942202 1 11.85889997 -7.007167978 24.0518433 1.070784774 1.025704153 0.112403313 0.087876468 486.9640658 1633994.112 0.013539438 0.017393489 9.84E-08 7.007167978 -0.045080621 DFSASYFSGEQEVT(ph)PSR ddPTM_HeLa_SAHA_4h_R1 2 DFSASYFSGEQEVTPSR 17 0 P49454 P49454 CENPF Centromere protein F 1 0 DFSASYFSGEQEVT(1)PSR;DFSASYFSGEQEVT(0.999)PS(0.001)R ; 244.54 2.04E-36 30551000 2056.68 2458 2093.9 2590.8 2987.9 3239.2 2926.9 2496.63 2849 2161.45 TRUE FALSE FALSE 2273.011039 2537.640813 2379.245787 2640.94868 2758.967748 2963.201937 2597.557509 2432.76982 2829.173577 2254.640687 1.008147796 1.125518947 1.055266057 1.17133905 1.223684006 1.314267925 1.152093779 1.079005552 1.254822373 1 11.13868182 -6.69448818 1.067004998 1.002393407 1.197147542 0 0.10174309 0.224702153 0.511472862 0.012190025 0.019488409 2.02E-07 6.69448818 0.194754135 DFT(ph)PVCTTELGR ddPTM_HeLa_SAHA_4h_R1 3 DFTPVCTTELGR 12 0 P30041 P30041 PRDX6 Peroxiredoxin-6 1 0 DFT(0.754)PVCT(0.243)T(0.003)ELGR;DFT(0.993)PVCT(0.006)TELGR;DFT(0.989)PVCT(0.01)TELGR ;; 167.22 0.00017726 28948500 3294.81 2957.24 3074.96 3122.36 3829.46 2901.63 3848.67 2483.6 3412.47 3194.54 TRUE FALSE FALSE 3641.373233 3053.056516 3493.999535 3182.797793 3536.047602 2654.3948 3415.607522 2420.073108 3388.722343 3332.272253 1.092759822 0.916208606 1.048533634 0.955143383 1.061152071 0.796572008 1.025008542 0.726253116 1.01694042 1 11.70229056 -2.940472837 0.479063017 1.036565247 1.29E-16 0.435261104 0.084989043 8.549473601 0.509730853 0.016535797 6.664974492 0.001146904 2.940472837 -1.036565247 DFTNEAPPAPLPDAS(ph)ASPLSPHRR ddPTM_HeLa_SAHA_4h_R1 1 DFTNEAPPAPLPDASASPLSPHRR 24 1 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;A0A1W2PPU9 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 DFTNEAPPAPLPDAS(0.537)AS(0.114)PLS(0.349)PHRR 138.36 2.92E-07 85040000 985.18 1271.4 1101.5 1273.8 1318.7 1192.5 1556.3 1444.8 1210.1 1627.9 TRUE FALSE FALSE 1088.805753 1312.594194 1251.606684 1298.456241 1217.661491 1090.892291 1381.181028 1407.844108 1201.678816 1698.086736 0.641195605 0.772984187 0.737068759 0.764658373 0.717078501 0.642424364 0.813374841 0.829076677 0.707666334 1 10.72969444 -9.426195046 1.103784649 1.003048935 0.731342047 0 0.106809103 0.221892594 0.474818599 0.047279676 0.01135919 3.75E-10 9.426195046 -0.271706888 DFTNEAPPAPLPDASAS(ph)PLSPHR ddPTM_HeLa_SAHA_4h_R1 1 DFTNEAPPAPLPDASASPLSPHR 23 0 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;A0A1W2PPU9 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 DFTNEAPPAPLPDAS(0.256)AS(0.543)PLS(0.201)PHR 173.11 1.06E-10 21328000 2079.6 2193.7 1871.4 2124.9 2737 2541.2 2297.6 2375.5 2760.3 1977.6 TRUE FALSE FALSE 2298.34187 2264.777319 2126.424646 2166.030512 2527.291651 2324.675464 2039.068001 2314.73815 2741.090848 2062.864014 1.114150935 1.097880085 1.030811838 1.050011294 1.225137301 1.126916485 0.988464575 1.122099243 1.328779226 1 11.01043301 -9.35714032 0.898253164 0.995321539 1.094450923 0 0.119350945 0.767620024 1.023112189 0.053308407 0.011538557 4.39E-10 9.35714032 0.099129385 DFTNEAPPAPLPDASASPLS(ph)PHR ddPTM_HeLa_SAHA_4h_R1 2 DFTNEAPPAPLPDASASPLSPHR 23 0 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;A0A1W2PPU9 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 DFTNEAPPAPLPDAS(0.001)AS(0.17)PLS(0.829)PHR;DFTNEAPPAPLPDAS(0.374)AS(0.242)PLS(0.383)PHR ; 211.78 7.93E-30 52276000 6036.2 7008.6 5072.6 6037.2 7463.5 7520.5 6990.1 6274.7 8252.6 6529 TRUE FALSE FALSE 6671.115211 7235.683239 5763.867511 6154.058736 6891.648242 6879.711091 6203.555551 6114.20226 8195.169485 6810.497142 0.97953425 1.062430993 0.846321111 0.903613731 1.011915591 1.010162834 0.910881456 0.897761519 1.20331443 1 12.7335444 -6.774852237 24.99946144 0.995472725 0.935388271 0.252819446 0.083882502 262.9682142 490130.5252 0.008689373 0.011456172 1.68E-07 6.774852237 -0.060084454 DFTNEAPPAPLPDASASPLS(ph)PHRR ddPTM_HeLa_SAHA_4h_R1 1 DFTNEAPPAPLPDASASPLSPHRR 24 1 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;A0A1W2PPU9 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 DFTNEAPPAPLPDAS(0.147)AS(0.147)PLS(0.706)PHRR 125.42 9.99E-07 93456000 1667.9 1883.6 1265.2 1634.9 1948.4 2151 1580.2 1818.8 2249.6 1844.6 TRUE FALSE FALSE 1843.337375 1944.629876 1437.614867 1666.545854 1799.114013 1967.722699 1402.391737 1772.27773 2233.94485 1924.129733 0.958010961 1.010654241 0.747150695 0.866129671 0.935027395 1.022655939 0.728844689 0.921080164 1.161015711 1 10.90999036 -6.812363423 24.99958946 0.981904051 0.873422798 0.348264429 0.099520639 96.51132781 47378.85327 0.012862388 0.016904503 1.54E-07 6.812363423 -0.108481252 DFTPVCTT(ph)ELGR ddPTM_HeLa_SAHA_4h_R1 1 DFTPVCTTELGR 12 0 P30041 P30041 PRDX6 Peroxiredoxin-6 1 0 DFT(0.473)PVCT(0.052)T(0.475)ELGR 118.76 0.0027945 10065000 1125.7 1273.2 1039.2 1440.4 1341.6 1165.4 1259.5 932.34 1205.7 1296.5 TRUE FALSE FALSE 1244.106291 1314.452515 1180.816764 1468.281025 1238.806898 1066.101364 1117.777745 908.4920928 1197.309436 1352.39846 0.919925841 0.971941742 0.873127853 1.085686703 0.916007327 0.788304183 0.826515098 0.671763626 0.885322981 1 10.40130456 -5.264590616 2.8512929 0.963589657 0.759554667 0.626280197 0.067200509 0.11900201 1.929797849 0.008904093 0.024251384 5.44E-06 5.264590616 -0.20403499 DFTPVCTTELGR ddPTM_HeLa_SAHA_4h_R1 4 DFTPVCTTELGR 12 0 P30041 P30041 PRDX6 Peroxiredoxin-6 0 0 ;;; ;;; 155.53 0.00024147 28321200 1583.8 1519.53 1466.02 2021.67 1916.22 1646.12 1774.56 1721.09 1855.8 1721.74 FALSE FALSE TRUE 1750.391351 1568.763769 1665.801571 2060.802346 1769.399638 1505.861315 1574.881838 1677.06701 1842.885337 1795.972637 0.974620278 0.873489794 0.927520574 1.147457541 0.985204118 0.838465622 0.876896343 0.933793185 1.026121055 1 10.81054965 -5.278700824 23.41561641 0.986397104 0.882436187 0.331935038 0.06975655 308.9232418 419062.8193 0.009952145 0.022318057 5.26E-06 5.278700824 -0.103960917 DFTVSAMHGDMDQK ddPTM_HeLa_SAHA_4h_R1 4 DFTVSAMHGDMDQK 14 0 P60842;P60842-2;J3KT12;J3KSZ0;J3QL52 P60842 EIF4A1 Eukaryotic initiation factor 4A-I 0 0 ;;; ;;; 161.87 5.63E-05 38714300 8886.08 12504 6512.59 10577.3 17115 18377.4 13218.9 13108.21 13891.5 12364.87 FALSE FALSE TRUE 9820.758665 12909.1378 7400.091849 10782.03894 15803.6524 16811.54213 11731.47458 12772.92097 13794.82792 12897.98006 0.761418348 1.000865077 0.57374037 0.835947868 1.225281193 1.303424417 0.909559057 0.990303979 1.069533978 1 13.65485752 -5.774916935 24.94922089 0.864829058 1.107049246 0.317746229 0.167366516 201.464129 372943.966 0.025020937 0.045536946 1.68E-06 5.774916935 0.242220189 DFVAEPMGEKPVGSLAGIGEVLGK ddPTM_HeLa_SAHA_4h_R1 1 DFVAEPMGEKPVGSLAGIGEVLGK 24 1 O75531 O75531 BANF1 "Barrier-to-autointegration factor;Barrier-to-autointegration factor, N-terminally processed" 0 0 129.51 5.15E-10 243080 75.361 0 0 0 0 130.2 67.59 0 0 0 FALSE FALSE TRUE 83.28781575 0 0 0 0 119.1062275 59.98459531 0 0 0 0 DFVDDDDDDDLER ddPTM_HeLa_SAHA_4h_R1 2 DFVDDDDDDDLER 13 0 G3V4K3;Q9H9C1-2;Q9H9C1 G3V4K3 VIPAS39 Spermatogenesis-defective protein 39 homolog 0 0 ; ; 215.04 2.84E-15 16457300 1585.4 1712.16 1359.21 1945.81 2021.59 2194.11 1702.54 2016.56 2073.52 1852.03 FALSE FALSE TRUE 1752.159646 1767.635107 1544.43606 1983.473966 1866.696211 2007.159484 1510.965718 1964.979315 2059.090205 1931.880077 0.906971228 0.914981799 0.79944717 1.026706569 0.966258845 1.038966915 0.782121901 1.017133174 1.065847839 1 10.91578983 -9.368112503 1.122442086 0.999508189 0.927992698 0.153610473 0.086491169 0.952341144 2.168616274 0.052241862 0.01389405 4.28E-10 9.368112503 -0.07151549 DGADFAK(ac)WR ddPTM_HeLa_SAHA_4h_R1 2 DGADFAKWR 9 1 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7;H3BR04;H3BMQ8;H3BU78;P09972;K7EKH5;C9J8F3;J3KSV6;J3QKP5;A8MVZ9 P04075;P09972 ALDOA;ALDOC Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase;Fructose-bisphosphate aldolase C 0 1 ; DGADFAK(1)WR;DGADFAK(1)WR 112.11 0.0045135 16222400 5151.2 5292.3 5818.3 6899.5 6175 5443.7 6243.2 4990.8 4984.7 4320.9 FALSE TRUE FALSE 5693.026851 5463.773992 6611.187624 7033.049799 5701.872834 4979.866135 5540.698705 4863.142563 4950.011067 4507.195145 1.263097485 1.212233732 1.466807496 1.560404991 1.265060121 1.104870318 1.229300824 1.078973154 1.09824645 1 12.1380142 -8.928898034 0.782659226 1.001608533 1.279764941 0.277168224 0.141390149 0.602254081 0.68598401 0.096018089 0.031379106 1.18E-09 8.928898034 0.278156408 DGAEQQGPEATVEEAEAAAFGSEKPQSMFEPPQVS(ph)SPVQEK ddPTM_HeLa_SAHA_4h_R1 2 DGAEQQGPEATVEEAEAAAFGSEKPQSMFEPPQVSSPVQEK 41 1 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 DGAEQQGPEATVEEAEAAAFGS(0.011)EKPQS(0.011)MFEPPQVS(0.778)S(0.199)PVQEK;DGAEQQGPEATVEEAEAAAFGS(0.002)EKPQS(0.002)MFEPPQVS(0.82)S(0.176)PVQEK ; 111.03 4.21E-19 11663000 2181.47 3059.7 2366.14 2610.21 2970.8 3473.7 3429.6 2408.9 3808.2 2801.1 TRUE FALSE FALSE 2410.927024 3158.836288 2688.585237 2660.734389 2743.177946 3177.721217 3043.692382 2347.283826 3781.698426 2921.869129 0.825131762 1.081101222 0.920159363 0.910627503 0.938843536 1.087564527 1.041693603 0.803350089 1.29427372 1 11.51267585 -5.494629675 24.6301168 0.928775342 0.988827193 0 0.148309283 1375.803398 1199549.717 0.014424359 0.03218252 3.20E-06 5.494629675 0.060051851 DGAGLGLSGGSPGAS(ph)TPVLLTR ddPTM_HeLa_SAHA_4h_R1 1 DGAGLGLSGGSPGASTPVLLTR 22 0 Q8N612;Q8N612-2 Q8N612 FAM160A2 FTS and Hook-interacting protein 1 0 DGAGLGLS(0.026)GGS(0.157)PGAS(0.637)T(0.18)PVLLTR 178.84 1.15E-10 8080700 699.53 741.72 676.2 590.98 841.71 747.93 642.77 709.74 795.96 798.09 TRUE FALSE FALSE 773.109775 765.7522147 768.3490145 602.4192725 777.2183616 684.2021563 570.4438279 691.5858785 790.4208496 832.4995657 0.928660875 0.91982296 0.922942241 0.723627131 0.933596117 0.821864881 0.685218169 0.830734221 0.949454969 1 9.701305709 -6.069819357 0.300105037 1.005109877 0.706458189 0.516248513 0.067928958 1.364748776 0.223365297 0.042504649 0.145427297 8.51E-07 6.069819357 -0.298651688 DGASS(ph)SPESASR ddPTM_HeLa_SAHA_4h_R1 1 DGASSSPESASR 12 0 A0A075B6E4;A0A0A6YYI5;G5E9M7;Q14135-2;Q14135;Q14135-4;G5E9M9;Q14135-5;Q14135-6 A0A075B6E4 VGLL4 Transcription cofactor vestigial-like protein 4 1 0 DGAS(0.002)S(0.623)S(0.37)PES(0.005)ASR 145.81 0.00047956 4906300 691.77 875.06 556.41 614.69 721.1 1249.4 689 766.44 999.51 1299.7 TRUE FALSE FALSE 764.5335426 903.4125181 632.2346571 626.5882138 665.8494738 1142.944091 611.4719067 746.8355746 992.5543285 1355.736428 0.56392491 0.666362945 0.466340392 0.462175539 0.491134899 0.84304299 0.451025652 0.550870774 0.732114523 1 10.40486101 -9.166415664 0.613755586 1.052218371 0.552486429 0.381013375 0.138611351 0.468212478 0.271586242 0.128639736 0.025591548 6.82E-10 9.166415664 -0.499731942 DGASSS(ph)PESASR ddPTM_HeLa_SAHA_4h_R1 1 DGASSSPESASR 12 0 A0A075B6E4;A0A0A6YYI5;G5E9M7;Q14135-2;Q14135;Q14135-4;G5E9M9;Q14135-5;Q14135-6 A0A075B6E4 VGLL4 Transcription cofactor vestigial-like protein 4 1 0 DGAS(0.001)S(0.348)S(0.651)PESASR 190.34 6.07E-07 6056000 1527.4 1940.5 1280.5 1824.9 2291.2 3755.7 2280.5 1997.6 2781.5 3881.6 TRUE FALSE FALSE 1688.05894 2003.373473 1454.999871 1860.223578 2115.648751 3435.693231 2023.892138 1946.504284 2762.143315 4048.954772 0.416912274 0.494787812 0.359351969 0.459433035 0.522517259 0.848538308 0.499855457 0.480742412 0.682186754 1 11.98333381 -9.295534358 0.957388665 1.008030441 0.509554287 0.361976475 0.154780514 0.278428371 0.445811845 0.097493328 0.024554361 5.06E-10 9.295534358 -0.498476153 DGDGVPGGGPLS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 2 DGDGVPGGGPLSPAR 15 0 M0QZR4;Q92888-2;Q92888;Q92888-3 M0QZR4 ARHGEF1 Rho guanine nucleotide exchange factor 1 1 0 DGDGVPGGGPLS(1)PAR;DGDGVPGGGPLS(1)PAR ; 162.64 5.77E-06 25167000 2831.6 3392.7 2604.1 2858.7 3605.9 3854.3 3053 2899.3 3640.9 3038.1 TRUE FALSE FALSE 3129.44068 3502.625706 2958.973186 2914.034272 3329.616721 3525.891956 2709.468405 2825.140104 3615.56268 3169.087359 0.987489559 1.105247445 0.933698839 0.919518442 1.050654761 1.11258907 0.854968039 0.891468042 1.140884511 1 11.62985171 -4.730710515 24.97664238 1.002661756 0.873217848 0.371301931 0.075225549 143.5155839 116648.4368 0.008251253 0.030866511 1.86E-05 4.730710515 -0.129443908 DGDILGK ddPTM_HeLa_SAHA_4h_R1 1 DGDILGK 7 0 P61604;B8ZZ54 P61604 HSPE1 "10 kDa heat shock protein, mitochondrial" 0 0 107.32 0.015091 3832400 5640.4 5777.2 4346.3 3568.8 5673.5 5425.4 6232.2 4745 5397.9 5044.7 FALSE FALSE TRUE 6233.683151 5964.385071 4938.591129 3637.879285 5238.797656 4963.125398 5530.936454 4623.629771 5360.335574 5262.201705 1.184615015 1.133439082 0.938502818 0.691322661 0.995552423 0.943165176 1.05106888 0.878649286 1.018648823 1 12.36145083 -6.705830119 6.785432169 1.093015299 0.916055105 0.39875592 0.100849733 0.173758733 16.55149344 0.017696357 0.024976785 1.97E-07 6.705830119 -0.176960194 DGDKS(ph)PMSSLQISNEK ddPTM_HeLa_SAHA_4h_R1 4 DGDKSPMSSLQISNEK 16 1 Q9UER7-3;Q9UER7;Q9UER7-5;Q9UER7-4;Q9UER7-2 Q9UER7-3 DAXX Death domain-associated protein 6 1 0 DGDKS(0.981)PMS(0.008)S(0.01)LQIS(0.001)NEK;DGDKS(0.913)PMS(0.023)S(0.061)LQIS(0.003)NEK;DGDKS(0.899)PMS(0.05)S(0.05)LQISNEK;DGDKS(0.998)PMS(0.001)SLQISNEK ;;; 174.78 2.33E-08 50823000 4770.44 6173.17 5024.31 5882.63 6209.11 7057.01 6019.83 5588.14 8341 5582.47 TRUE FALSE FALSE 5272.216767 6373.184758 5708.996801 5996.49681 5733.369333 6455.713046 5342.462885 5445.20347 8282.954302 5823.157602 0.905387957 1.094455138 0.980395379 1.029767219 0.984580828 1.108627567 0.917451192 0.935094642 1.422416302 1 12.50758595 -7.294400435 24.99119595 0.955322098 1.006613053 0 0.15986349 1031.12657 781801.3392 0.011069203 0.012658368 5.08E-08 7.294400435 0.051290955 DGDSYDPYDFS(ph)DT(ph)EEEMPQVHTPK ddPTM_HeLa_SAHA_4h_R1 3 DGDSYDPYDFSDTEEEMPQVHTPK 24 0 P25205;P25205-2;J3KQ69;A0A499FHX9;Q7Z6P5 P25205 MCM3 DNA replication licensing factor MCM3 2 0 DGDSYDPY(0.014)DFS(0.997)DT(0.988)EEEMPQVHT(0.001)PK;DGDSYDPY(0.03)DFS(0.943)DT(0.751)EEEMPQVHT(0.275)PK;DGDS(0.001)Y(0.001)DPY(0.059)DFS(0.812)DT(0.911)EEEMPQVHT(0.217)PK ;; 96.234 4.79E-05 39835400 9033.4 9278.8 8344.5 8872.6 10008.9 8855.2 9513.2 9693.4 8812.1 9684.1 TRUE FALSE FALSE 9983.574459 9579.439208 9481.645004 9044.342003 9242.020244 8100.687142 8442.749699 9445.456864 8750.775879 10101.62894 0.988313322 0.948306383 0.93862535 0.895335005 0.914903952 0.801918897 0.835781016 0.935042944 0.866273739 1 13.30230033 -6.4620931 0.859017475 0.99669137 0.859304933 0.20109668 0.053946662 0.209098249 0.307645773 0.006624756 0.013039015 3.45E-07 6.4620931 -0.137386437 DGDSYDPYDFS(ph)DTEEEMPQVHT(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 DGDSYDPYDFSDTEEEMPQVHTPK 24 0 P25205;P25205-2;J3KQ69;A0A499FHX9;Q7Z6P5 P25205 MCM3 DNA replication licensing factor MCM3 2 0 DGDSYDPY(0.058)DFS(0.748)DT(0.21)EEEMPQVHT(0.984)PK;DGDSYDPY(0.032)DFS(0.921)DT(0.125)EEEMPQVHT(0.92)PK;DGDSYDPYDFS(0.945)DT(0.057)EEEMPQVHT(0.997)PK ;; 90.98 6.51E-05 37801500 4773.32 4339.96 4240.92 3917.75 4349.27 4724.21 4821.62 4697.79 4755.18 4060.73 TRUE FALSE FALSE 5275.399698 4480.577552 4818.850492 3993.583716 4016.029872 4321.68073 4279.078628 4577.627334 4722.088315 4235.807943 1.245429389 1.057785814 1.137646125 0.942815106 0.94811425 1.02027306 1.01021545 1.080697566 1.114802271 1 12.04842146 -6.272033134 24.5833726 1.115041152 0.999163836 0.393886767 0.06857223 611.5038111 1419024.829 0.015079411 0.023183545 5.35E-07 6.272033134 -0.115877316 DGDSYDPYDFS(ph)DTEEEMPQVHTPK ddPTM_HeLa_SAHA_4h_R1 5 DGDSYDPYDFSDTEEEMPQVHTPK 24 0 P25205;P25205-2;J3KQ69;A0A499FHX9;Q7Z6P5 P25205 MCM3 DNA replication licensing factor MCM3 1 0 DGDS(0.001)YDPYDFS(0.5)DT(0.5)EEEMPQVHTPK;DGDSYDPY(0.01)DFS(0.489)DT(0.489)EEEMPQVHT(0.011)PK;DGDSYDPYDFS(0.985)DT(0.015)EEEMPQVHTPK;DGDSYDPYDFS(0.841)DT(0.158)EEEMPQVHTPK;DGDSYDPYDFS(0.991)DT(0.009)EEEMPQVHTPK ;;;; 112.11 1.03E-05 306063100 10549.9 10625.35 8342.98 9591.48 10313.22 10415.8 11207.64 12216.78 10095.74 9470.03 TRUE FALSE FALSE 11659.58689 10969.61831 9479.917866 9777.136965 9523.023312 9528.315242 9946.52685 11904.29246 10025.48292 9878.329339 1.180319717 1.11047303 0.959668132 0.989756125 0.964031769 0.964567481 1.00690375 1.205091676 1.014896606 1 13.27005135 -6.774124701 24.99649726 1.089429354 1.008877993 0.107721532 0.082171902 335.9565529 662002.9396 0.015175257 0.020017413 1.68E-07 6.774124701 -0.08055136 DGDSYDPYDFSDT(ph)EEEMPQVHT(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 DGDSYDPYDFSDTEEEMPQVHTPK 24 0 P25205;P25205-2;J3KQ69;A0A499FHX9;Q7Z6P5 P25205 MCM3 DNA replication licensing factor MCM3 2 0 DGDSYDPY(0.014)DFS(0.469)DT(0.704)EEEMPQVHT(0.814)PK;DGDSYDPYDFS(0.084)DT(0.918)EEEMPQVHT(0.998)PK ; 86.076 0.00012876 27995000 4794.4 4384.2 3562.2 4481 4333.1 4654.6 5153.9 4812.8 4829.3 4798.4 TRUE FALSE FALSE 5298.696989 4526.250957 4047.638065 4567.736235 4001.098814 4258.001894 4573.969608 4689.695545 4795.692508 5005.282507 1.058620963 0.904294803 0.808673249 0.912583102 0.799375222 0.850701611 0.913828461 0.936949221 0.95812624 1 12.28923578 -7.151751357 4.730346778 1.027494071 0.869355261 0.591202126 0.049160884 0.088478914 3.1473607 0.007768853 0.009560119 7.05E-08 7.151751357 -0.158138809 DGDSYDPYDFSDT(ph)EEEMPQVHTPK ddPTM_HeLa_SAHA_4h_R1 9 DGDSYDPYDFSDTEEEMPQVHTPK 24 0 P25205;P25205-2;J3KQ69;A0A499FHX9;Q7Z6P5 P25205 MCM3 DNA replication licensing factor MCM3 1 0 DGDSYDPYDFS(0.043)DT(0.957)EEEMPQVHTPK;DGDSYDPY(0.003)DFS(0.201)DT(0.79)EEEMPQVHT(0.007)PK;DGDS(0.001)YDPY(0.004)DFS(0.445)DT(0.548)EEEMPQVHT(0.002)PK;DGDSYDPYDFS(0.034)DT(0.966)EEEMPQVHTPK;DGDS(0.001)Y(0.002)DPY(0.016)DFS(0.217)DT(0.76)EEEMPQVHT(0.004)PK;DGDSYDPYDFS(0.048)DT(0.888)EEEMPQVHT(0.063)PK;DGDSYDPYDFS(0.011)DT(0.989)EEEMPQVHTPK;DGDSYDPYDFS(0.253)DT(0.747)EEEMPQVHTPK;DGDSYDPYDFS(0.075)DT(0.925)EEEMPQVHTPK ;;;;;;;; 125.92 1.99E-06 443657400 24832.1 27137.7 23620.26 24913.6 27958.8 29861.2 29334.7 28747.8 28262.8 25943.1 TRUE FALSE FALSE 27444.05421 28016.97929 26839.10602 25395.83875 25816.60278 27316.85777 26033.88235 28012.4729 28066.11687 27061.634 1.014131453 1.035302572 0.991776994 0.938444395 0.953992755 1.009431203 0.962021818 1.035136049 1.037118338 1 14.72396133 -6.5265305 24.98675555 1.009222702 0.977637291 0.285644156 0.028676524 119.2930308 816245.5427 0.004167548 0.005909484 2.97E-07 6.5265305 -0.031585411 DGEEAGAYDGPR ddPTM_HeLa_SAHA_4h_R1 2 DGEEAGAYDGPR 12 0 H7BZJ3;P30101 H7BZJ3;P30101 PDIA3 Protein disulfide-isomerase A3 0 0 ; ; 173.24 0.00034428 32062000 4300.3 4355.8 3240.6 4892.2 5243.8 6001.6 5172.2 5356.6 5466.6 4728.3 FALSE FALSE TRUE 4752.625284 4496.930778 3682.212092 4986.895605 4842.021177 5490.229916 4590.210444 5219.585928 5428.557486 4932.160153 0.963599141 0.911756845 0.746571883 1.011097663 0.98172424 1.113149157 0.930669382 1.05827584 1.100645015 1 12.26800393 -6.035989897 24.98873464 0.956286904 1.018006207 0.130060381 0.094013196 1042.397358 723762.5505 0.01305979 0.021662576 9.20E-07 6.035989897 0.061719303 DGEQS(ph)PNVSLMQR ddPTM_HeLa_SAHA_4h_R1 1 DGEQSPNVSLMQR 13 0 F2Z305;Q58WW2;Q58WW2-2;Q58WW2-4;Q58WW2-3 F2Z305 DCAF6 DDB1- and CUL4-associated factor 6 1 0 DGEQS(0.957)PNVS(0.043)LMQR 120.21 0.0011476 5674200 571.26 1026.5 745.49 751.43 1091.3 1142.3 1197.7 999.57 956.82 763.75 TRUE FALSE FALSE 631.3477478 1059.759274 847.0814949 765.9750142 1007.68483 1044.969614 1062.931644 974.0024468 950.1614117 796.6790002 0.792474444 1.330221172 1.06326575 0.961460028 1.264856774 1.311657033 1.334203165 1.222578286 1.192652764 1 9.637854737 -6.225152711 0.706407089 0.913376794 1.310350789 0.123615253 0.163799217 0.446781731 0.432591008 0.03228597 0.083682856 5.95E-07 6.225152711 0.396973994 DGES(ph)DGFADEEES(ph)GEEGEEDQEEGREPGAGR ddPTM_HeLa_SAHA_4h_R1 1 DGESDGFADEEESGEEGEEDQEEGREPGAGR 31 1 P48681 P48681 NES Nestin 2 0 DGES(1)DGFADEEES(1)GEEGEEDQEEGREPGAGR 105.1 1.18E-08 16358000 382.06 615.02 444.77 485.28 763.95 329.62 447.38 406.55 826.83 382.7 TRUE FALSE FALSE 422.2468238 634.9470515 505.3809393 494.6732961 705.416316 301.5345216 397.039625 396.1510397 821.0760227 399.2000699 1.057732339 1.590548448 1.265984095 1.239161347 1.767074631 0.755346866 0.994588065 0.99236215 2.056803304 1 8.640968163 -2.84849979 13.77916682 1.116670889 1.115326015 0 0.417938997 0 0 0.039503322 0 0.001417425 2.84849979 -0.001344874 DGESDGFADEEES(ph)GEEGEEDQEEGREPGAGR ddPTM_HeLa_SAHA_4h_R1 2 DGESDGFADEEESGEEGEEDQEEGREPGAGR 31 1 P48681 P48681 NES Nestin 1 0 DGES(0.001)DGFADEEES(0.999)GEEGEEDQEEGREPGAGR;DGESDGFADEEES(1)GEEGEEDQEEGREPGAGR ; 114.05 3.44E-10 22130800 498.9 906.11 652.4 729.76 689.85 1043.07 677.44 705.78 1298.09 824.26 TRUE FALSE FALSE 551.376591 935.4685585 741.3056744 743.8855601 636.993842 954.1945678 601.2126683 687.7271696 1289.056486 859.7978824 0.641286286 1.088009842 0.862185974 0.865186546 0.740864632 1.10978939 0.699248836 0.799870741 1.499255246 1 9.747853747 DGFQHPAR ddPTM_HeLa_SAHA_4h_R1 1 DGFQHPAR 8 0 F5H3E1;F5H2E6;A0A0C4DGG8;Q8IX12-2;Q8IX12;F5H1H2 F5H3E1 CCAR1 Cell division cycle and apoptosis regulator protein 1 0 0 118.74 0.0041351 764120 1955.1 1833.2 1624.8 1951.3 1824.1 1797.5 1884.2 1604.5 1234 1600.8 FALSE FALSE TRUE 2160.746388 1892.596883 1846.219282 1989.070233 1684.337852 1644.342888 1672.184857 1563.459213 1225.412494 1669.818322 1.294000886 1.13341485 1.10564081 1.191189608 1.008695275 0.984743589 1.001417241 0.936304982 0.733859772 1 10.70547543 -5.658389224 5.475317021 1.141970631 0.980337878 0 0.147061174 0.19271273 8.727876422 0.016045412 0.032411915 2.20E-06 5.658389224 -0.161632753 DGGAWGTEQR ddPTM_HeLa_SAHA_4h_R1 2 DGGAWGTEQR 10 0 P09382 P09382 LGALS1 Galectin-1 0 0 ; ; 152.06 0.0032047 183494000 4434.7 4018.4 3881.3 3689.4 4159.3 4264.9 4543.9 3761.1 3671.4 3899.5 FALSE FALSE TRUE 4901.162093 4148.598797 4410.223351 3760.813672 3840.615333 3901.506526 4032.608413 3664.896508 3645.850428 4067.626529 1.204919394 1.019906515 1.08422524 0.924572019 0.944190747 0.959160459 0.99139102 0.900991397 0.89630904 1 11.98997151 -6.269943116 21.70853902 1.091383 0.947536616 0.135092013 0.083197768 75.28401955 192187.4385 0.012346981 0.019093612 5.37E-07 6.269943116 -0.143846383 DGGFCEVCK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 DGGFCEVCKK 10 1 P07602;Q5BJH1;C9JIZ6;P07602-2;P07602-3 P07602 PSAP Prosaposin;Saposin-A;Saposin-B-Val;Saposin-B;Saposin-C;Saposin-D 0 1 ; DGGFCEVCK(1)K;DGGFCEVCK(1)K 132.78 0.00034178 3593000 326.39 1270.47 580.03 551.79 959.77 702.42 1167.7 860.14 937.78 209.13 FALSE TRUE FALSE 360.7211977 1311.634062 659.0734677 562.4706934 886.2326299 642.5698643 1036.307323 838.1388643 931.2539126 218.1466178 1.653572269 6.012626164 3.021240827 2.578406666 4.062554987 2.945587105 4.750508321 3.842089659 4.268935829 1 7.769154295 -7.454076161 11.07680088 1.287804397 3.81067369 0.11150216 1.328777418 0.375684135 59.73424496 0.155242376 0.177141638 3.51E-08 7.454076161 2.522869292 DGGGLAPPPGS(ph)CSPSLSPSSNR ddPTM_HeLa_SAHA_4h_R1 1 DGGGLAPPPGSCSPSLSPSSNR 22 0 A8MUP8;P10276-3;P10276-2;P10276 A8MUP8 RARA Retinoic acid receptor alpha 1 0 DGGGLAPPPGS(0.94)CS(0.06)PS(0.001)LSPSSNR 141.74 3.65E-06 5171400 1610.3 1585.9 1488.1 2219.8 2848.8 3440.3 2727.5 2712.4 1377.2 1468.4 TRUE FALSE FALSE 1779.678742 1637.284201 1690.890518 2262.767439 2630.525559 3147.167085 2420.594522 2643.020736 1367.615953 1531.70991 1.161890206 1.068925774 1.10392347 1.477281973 1.717378429 2.05467567 1.580321773 1.725536094 0.892868776 1 10.58092738 -6.048926069 2.204611151 1.076841122 1.780468572 0.874330519 0.129778747 0.074418802 0.716538456 0.019000228 0.035805646 8.93E-07 6.048926069 0.70362745 DGGQTES(ph)NEEGKENR ddPTM_HeLa_SAHA_4h_R1 2 DGGQTESNEEGKENR 15 1 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5;Q5VU81;Q5VU80;Q5VU79;Q5VU78;Q5VU77 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 DGGQT(0.008)ES(0.992)NEEGKENR;DGGQT(0.006)ES(0.994)NEEGKENR ; 86.213 0.0063891 15490900 2593.4 3632.3 2218.2 3723.2 3696.4 5097.1 3702.7 3424.2 4013.6 4153.5 TRUE FALSE FALSE 2866.185711 3749.988903 2520.484744 3795.26792 3413.182631 4662.798404 3286.062451 3336.613922 3985.669031 4332.577712 0.661542828 0.865532981 0.581751768 0.875983807 0.787794901 1.076218066 0.758454359 0.770122118 0.919930188 1 12.08100991 -9.575029916 1.370250187 0.999474209 0.783895255 0.194610155 0.127384456 0.452213304 1.528124606 0.089008128 0.021042195 2.66E-10 9.575029916 -0.215578954 DGGRS(ph)SPGGQDEGGFMAQGK ddPTM_HeLa_SAHA_4h_R1 3 DGGRSSPGGQDEGGFMAQGK 20 1 A0A1B0GTU4;F5GZ78;P49023;A0A1B0GV30 A0A1B0GTU4 PXN Paxillin 1 0 DGGRS(0.5)S(0.5)PGGQDEGGFMAQGK;DGGRS(0.5)S(0.5)PGGQDEGGFMAQGK;DGGRS(0.5)S(0.5)PGGQDEGGFMAQGK ;; 156.08 3.69E-05 34088500 6412.5 4262.4 5982.6 5543.9 5829 6134.9 6790 6710.2 4342.9 4898 TRUE FALSE FALSE 7086.996172 4400.504557 6797.877572 5651.210201 5382.383279 5612.172006 6025.97133 6538.5628 4312.677405 5109.17675 1.387111176 0.86129425 1.330523077 1.106090174 1.053473689 1.098449375 1.179440764 1.27976837 0.844104171 1 12.31887513 DGGRSS(ph)PGGQDEGGFMAQGK ddPTM_HeLa_SAHA_4h_R1 1 DGGRSSPGGQDEGGFMAQGK 20 1 A0A1B0GTU4;F5GZ78;P49023;A0A1B0GV30 A0A1B0GTU4 PXN Paxillin 1 0 DGGRS(0.03)S(0.97)PGGQDEGGFMAQGK 135.86 2.51E-05 55875000 2372.4 1799.1 1883.6 1645.4 2148.1 1678.4 2504.4 2423.6 1186 1333.7 TRUE FALSE FALSE 2621.939917 1857.39202 2140.287199 1677.249096 1983.513042 1535.390878 2222.598321 2361.607821 1177.746529 1391.202334 1.884657503 1.335098407 1.538444227 1.205611186 1.425754539 1.103643115 1.597609684 1.697530089 0.84656739 1 10.44211654 -9.652211217 1.50509163 1.001240541 1.518859508 0.463135081 0.227622249 0.350884488 1.434996351 0.179095555 0.040837414 2.23E-10 9.652211217 0.517618967 DGGS(ph)GNSTIIVSR ddPTM_HeLa_SAHA_4h_R1 2 DGGSGNSTIIVSR 13 0 Q7Z6Z7-2;Q7Z6Z7-3;Q7Z6Z7 Q7Z6Z7-2 HUWE1 E3 ubiquitin-protein ligase HUWE1 1 0 DGGS(0.982)GNS(0.016)T(0.002)IIVSR;DGGS(0.939)GNS(0.058)T(0.003)IIVSR ; 134.76 0.00057448 18169000 1614.61 1866.13 1929.4 2037.85 2100.91 2529.4 2268.47 2148.91 2097.96 2003.67 TRUE FALSE FALSE 1784.442088 1926.593836 2192.328584 2077.295534 1939.93873 2313.88089 2013.215785 2093.943994 2083.360126 2090.058019 0.853776341 0.921789643 1.048931926 0.993893717 0.928174583 1.10708931 0.963234401 1.001859266 0.996795355 1 11.02932728 -6.779723537 24.67249537 0.928333565 1.005542801 0.201612712 0.059618894 233.2429331 314735.1633 0.011035761 0.014520158 1.66E-07 6.779723537 0.077209236 DGGSGNS(ph)TIIVSR ddPTM_HeLa_SAHA_4h_R1 2 DGGSGNSTIIVSR 13 0 Q7Z6Z7-2;Q7Z6Z7-3;Q7Z6Z7 Q7Z6Z7-2 HUWE1 E3 ubiquitin-protein ligase HUWE1 1 0 DGGS(0.053)GNS(0.912)T(0.035)IIVSR;DGGS(0.003)GNS(0.945)T(0.051)IIVSR ; 148.18 0.00019831 11481700 1939.61 1946.29 1662.02 2063.85 2438.5 2353.2 1981.76 2375.5 2328.7 2126.55 TRUE FALSE FALSE 2143.627079 2009.351073 1888.51143 2103.798801 2251.662657 2152.694121 1758.767149 2314.73815 2312.494387 2218.235978 0.966365662 0.905832875 0.851357317 0.948410729 1.015069037 0.970453163 0.792867471 1.043504015 1.042492508 1 11.11519713 -7.603552054 2.419618837 0.987603289 0.929625292 0.160628447 0.07153195 0.41764339 5.083903791 0.012794679 0.013404088 2.49E-08 7.603552054 -0.057977997 DGIDDES(ph)YEAIFK ddPTM_HeLa_SAHA_4h_R1 1 DGIDDESYEAIFK 13 0 Q13547 Q13547 HDAC1 Histone deacetylase 1 1 0 DGIDDES(1)YEAIFK 77.279 0.021682 7330400 0 0 0 0 0 109.79 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 100.4352743 0 0 0 0 0 DGIVLGADTR ddPTM_HeLa_SAHA_4h_R1 1 DGIVLGADTR 10 0 Q5TBG5;Q99436-2;Q99436 Q5TBG5 PSMB7 Proteasome subunit beta type;Proteasome subunit beta type-7 0 0 117.53 0.020523 4267700 1563.9 1479.4 1615.5 1949.8 1507.1 1816.7 1839.1 1631.1 1780.4 1351 FALSE FALSE TRUE 1728.398177 1527.333531 1835.651927 1987.541198 1391.626324 1661.90694 1632.159628 1589.378824 1768.010051 1409.248222 1.226468234 1.083793123 1.302575301 1.410355655 0.987495533 1.179286171 1.158177532 1.127820351 1.254576748 1 10.46071003 -9.335130781 0.91979331 0.99315087 1.187911724 0 0.134501376 0.649714884 0.927732575 0.088841958 0.020332086 4.62E-10 9.335130781 0.194760854 DGIY(ph)MVHIQVTLAICSST(ph)TAS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 DGIYMVHIQVTLAICSSTTASR 22 0 P32970;P32970-2 P32970 CD70 CD70 antigen 3 0 DGIY(0.965)MVHIQVT(0.039)LAICS(0.138)S(0.166)T(0.553)T(0.239)AS(0.9)R 41.188 0.0088627 0 117.6 0 0 65.45 134.68 132 167.67 0 160.1 154.76 TRUE FALSE FALSE 129.9697076 0 0 66.71687939 124.3608475 120.7528574 148.8033303 0 158.9858511 161.432461 0.805102684 0 0 0.413280446 0.77035837 0.748008527 0.921768332 0 0.984844375 1 7.334786896 -7.473165578 10.31096846 0.914266228 0.436207916 0.35999364 0.32067896 0.606677614 124.0209569 0.058432558 0.066138028 3.36E-08 7.473165578 -0.478058312 DGKKVS(ph)S(ph)T(ph)HYY(ph)LLPER ddPTM_HeLa_SAHA_4h_R1 1 DGKKVSSTHYYLLPER 16 2 A0A5F9ZHD0;A0A5F9ZHP4;C9J1X3;A0A5F9ZI29;A0A5F9ZHJ2;Q07912;A0A5F9ZGX5;A0A499FJ16;Q07912-3 A0A5F9ZHD0 TNK2 Activated CDC42 kinase 1 4 0 DGKKVS(1)S(1)T(1)HY(0.158)Y(0.843)LLPER 50.397 0.023536 8538700 556.96 719.68 684.46 1655.8 474 537.38 639.29 1447.2 1072.9 770.31 TRUE FALSE FALSE 615.5436082 742.9981042 777.7346443 1687.850403 437.6822224 491.5922008 567.3554067 1410.18272 1065.433602 803.5218339 0.766057103 0.924676932 0.967907294 2.1005657 0.544704828 0.611796942 0.706085862 1.755002366 1.325954761 1 9.650193416 -6.512668768 24.80700784 0.891800984 1.104276327 0 0.484493305 1278.797211 3107073.149 0.07190065 0.105429268 3.07E-07 6.512668768 0.212475343 DGKS(ph)PTVPCLQEEAGEPLGGK ddPTM_HeLa_SAHA_4h_R1 1 DGKSPTVPCLQEEAGEPLGGK 21 1 A1L390-3;A1L390;G3V311;A1L390-2 A1L390-3 PLEKHG3 Pleckstrin homology domain-containing family G member 3 1 0 DGKS(0.98)PT(0.02)VPCLQEEAGEPLGGK 92.416 0.00025493 9707300 1694.8 2043.1 1902.2 2150.8 2427.8 3086.4 2520.9 2406 2394.6 2110.3 TRUE FALSE FALSE 1873.06684 2109.297781 2161.42191 2192.431844 2241.782489 2823.421356 2237.241697 2344.458004 2377.935784 2201.285361 0.850896878 0.958211879 0.98189083 0.995978024 1.018397037 1.282623965 1.016334246 1.065040474 1.080248761 1 11.10413046 -5.850987186 1.717187728 0.933305432 1.110991976 0.266317511 0.08952622 0.245722949 1.466101085 0.013354462 0.029481986 1.41E-06 5.850987186 0.177686544 DGLAFNALIHR ddPTM_HeLa_SAHA_4h_R1 1 DGLAFNALIHR 11 0 O43707;M0QZQ3;Q9H254-2;C9JY79;Q9H254-4;Q9H254 O43707;C9JY79 ACTN4;SPTBN4 "Alpha-actinin-4;Spectrin beta chain, non-erythrocytic 4" 0 0 157.38 7.19E-07 0 1155.9 1168.8 1451.8 1321.3 1747.4 801.57 1508.7 438.19 743.89 1004.8 FALSE FALSE TRUE 1277.482865 1206.669887 1649.643743 1346.875672 1613.51459 733.2717265 1338.937105 426.9817343 738.7132089 1048.121845 1.218830493 1.151268712 1.573904552 1.285037306 1.539434176 0.699605423 1.277463218 0.407377955 0.704797073 1 10.03359073 -4.256069145 24.74010826 1.162805656 0.407377582 0.392011854 0.28161005 347.7687823 1602076.006 0.033493021 0.381955011 5.55E-05 4.256069145 -0.755428074 DGLGFCALIHR ddPTM_HeLa_SAHA_4h_R1 2 DGLGFCALIHR 11 0 P12814-4;P12814-3;P12814;P12814-2;H9KV75;G3V2N5;G3V2W4;G3V2X9 P12814-4 ACTN1 Alpha-actinin-1 0 0 ; ; 117.67 0.0014494 3141700 2166.29 2236.1 2541.7 3051.6 3035.5 2117.6 3125.4 1089.34 1736.8 2050.2 FALSE FALSE TRUE 2394.150321 2308.551107 2888.069639 3110.668131 2802.920646 1937.168567 2773.721766 1061.47626 1724.713467 2138.594155 1.119497271 1.079471344 1.350452414 1.454538779 1.310637008 0.905814019 1.296983703 0.49634301 0.806470673 1 11.06244701 -4.251400028 24.45966866 1.124092604 0.496342541 0.490425968 0.197753385 665.9043088 1622351.201 0.025722501 0.456544194 5.61E-05 4.251400028 -0.627750063 DGLGGLPDIVR ddPTM_HeLa_SAHA_4h_R1 1 DGLGGLPDIVR 11 0 P45974-2;P45974 P45974-2 USP5 Ubiquitin carboxyl-terminal hydrolase 5 0 0 115.78 0.016492 2974700 1576.6 1404.8 1621.5 1392.3 1415.6 1688.6 1721.8 1750.9 1539.1 1333.7 FALSE FALSE TRUE 1742.434022 1450.316442 1842.469576 1419.24998 1307.137034 1544.72178 1528.058532 1706.114513 1528.389278 1391.202334 1.252466287 1.042491381 1.324372114 1.020160724 0.939573635 1.110350193 1.098372606 1.226359726 1.098610346 1 10.44211654 DGLLPENTFIVGYAR ddPTM_HeLa_SAHA_4h_R1 1 DGLLPENTFIVGYAR 15 0 P11413-3;P11413;P11413-2;E7EM57;E7EUI8;E9PD92 P11413-3 G6PD Glucose-6-phosphate 1-dehydrogenase 0 0 152.38 2.08E-05 954110 112.77 58.783 150.39 0 108.16 0 70.289 0 160.24 127.61 FALSE FALSE TRUE 124.631666 60.68760777 170.884366 0 99.87280417 0 62.37989673 0 159.1248768 133.1118916 0.936292502 0.455914247 1.283764838 0 0.750292126 0 0.468627528 0 1.195421948 1 7.056495651 -6.021812282 0.581618117 0.990665595 0.099856258 0.506839108 0.331992149 0.550916461 0.334515708 0.06657911 0.23156549 9.51E-07 6.021812282 -0.890809336 DGLNDDDFEPYLS(ph)PQAR ddPTM_HeLa_SAHA_4h_R1 4 DGLNDDDFEPYLSPQAR 17 0 Q9Y5A9;S4R3J8 Q9Y5A9 YTHDF2 YTH domain-containing family protein 2 1 0 DGLNDDDFEPYLS(1)PQAR;DGLNDDDFEPYLS(1)PQAR;DGLNDDDFEPYLS(1)PQAR;DGLNDDDFEPYLS(1)PQAR ;;; 250.1 2.56E-37 33478900 3388.29 3662.09 3035.98 4461.35 4781.25 2199.66 4009.87 1470.19 3597.86 2489.55 TRUE FALSE FALSE 3744.685888 3780.744119 3449.707544 4547.70588 4414.911658 2012.236593 3558.668874 1432.584669 3572.822199 2596.886684 1.441990485 1.455875661 1.32840126 1.751214602 1.700078669 0.774864997 1.370359707 0.551654671 1.375809819 1 11.34256735 -4.045538649 2.198952281 1.289616609 9.55E-32 0.390998502 0.285579539 1.576649891 4.835026367 0.044465277 4.93423057 9.00E-05 4.045538649 -1.289616609 DGLNQTTIPVS(ph)PPSTTKPSR ddPTM_HeLa_SAHA_4h_R1 5 DGLNQTTIPVSPPSTTKPSR 20 1 Q71RC2-6;Q71RC2-5;Q71RC2-3;Q71RC2;Q71RC2-4;X6RLN4;Q71RC2-2 Q71RC2-6 LARP4 La-related protein 4 1 0 DGLNQT(0.007)T(0.007)IPVS(0.984)PPS(0.001)T(0.001)T(0.001)KPS(0.001)R;DGLNQT(0.001)T(0.02)IPVS(0.975)PPS(0.001)T(0.001)T(0.001)KPS(0.001)R;DGLNQTTIPVS(0.999)PPSTTKPSR;DGLNQTTIPVS(0.977)PPS(0.006)T(0.006)T(0.006)KPS(0.006)R;DGLNQTTIPVS(0.999)PPSTTKPSR ;;;; 167.57 4.62E-07 213626000 12638.49 14541.54 12320.23 14571.54 15273.77 16600 16331.77 14619.94 17251.1 14504.63 TRUE FALSE FALSE 13967.86437 15012.69544 13999.16678 14853.59323 14103.49704 15185.58661 14494.07626 14245.9831 17131.04819 15129.99558 0.923190247 0.992247179 0.925259145 0.981731498 0.932154736 1.003674226 0.957969629 0.941572192 1.132257316 1 13.88512395 -9.627750579 1.45333966 0.999936384 0.953632745 0.273707909 0.050246016 0.416787679 1.584914327 0.018533916 0.004255079 2.36E-10 9.627750579 -0.046303639 DGLQNEK(ac)NIVSTPVK ddPTM_HeLa_SAHA_4h_R1 2 DGLQNEKNIVSTPVK 15 1 P35914-3;P35914-2;P35914 P35914-3 HMGCL "Hydroxymethylglutaryl-CoA lyase, mitochondrial" 0 1 ; DGLQNEK(1)NIVSTPVK;DGLQNEK(1)NIVSTPVK 312.91 1.60E-137 9936800 2846.18 3676.44 3073.01 2464.92 3541.95 3461.9 3625.7 2862.37 2887.94 2947.39 FALSE TRUE FALSE 3145.554271 3795.559068 3491.783799 2512.632091 3270.566556 3166.926644 3217.726694 2789.15472 2867.84259 3074.466407 1.023122017 1.234542378 1.135736527 0.817257943 1.063783474 1.030073588 1.046596797 0.907199608 0.932793601 1 11.58612033 DGMDNQGGYGS(ph)VGR ddPTM_HeLa_SAHA_4h_R1 2 DGMDNQGGYGSVGR 14 0 P31942-4;P31942-3;P31942;P31942-2 P31942-4 HNRNPH3 Heterogeneous nuclear ribonucleoprotein H3 1 0 DGMDNQGGYGS(1)VGR;DGMDNQGGYGS(1)VGR ; 149.31 8.35E-05 14471400 1407.16 1182.68 1081.22 983.57 1269.86 1575.96 1717.46 1307.22 1339.23 1333.13 TRUE FALSE FALSE 1555.171545 1220.999608 1228.563031 1002.60842 1172.563601 1441.679342 1524.206881 1273.783205 1329.910189 1390.607758 1.118339471 0.878033076 0.88347201 0.72098578 0.843202257 1.036726088 1.09607247 0.915990291 0.956351769 1 10.44149983 -7.254385479 24.93040927 1.055882528 0.911688633 0.182906875 0.104674358 546.8382681 1932676.121 0.019075992 0.023101488 5.57E-08 7.254385479 -0.144193895 DGPEPPS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 1 DGPEPPSPAK 10 0 Q9H4Z2-2;Q9H4Z2 Q9H4Z2-2 ZNF335 Zinc finger protein 335 1 0 DGPEPPS(1)PAK 130.44 0.0015825 12096000 3280.9 3702.1 3082.3 3237.5 3364.9 4106.1 3628.6 3749.1 4043 3287.5 TRUE FALSE FALSE 3626.000115 3822.050469 3502.339792 3300.166494 3107.082089 3756.23718 3220.300378 3653.203451 4014.864434 3429.240214 1.057377113 1.114547314 1.021316552 0.96236084 0.906055539 1.095355515 0.9390711 1.065309871 1.170773753 1 11.74367325 -6.510273919 24.46337364 1.036006992 0.991430902 0.145923715 0.072950562 791.0881714 1535341.749 0.00916826 0.013567273 3.09E-07 6.510273919 -0.04457609 DGPSS(ph)APATPTK ddPTM_HeLa_SAHA_4h_R1 2 DGPSSAPATPTK 12 0 Q96JH7 Q96JH7 VCPIP1 Deubiquitinating protein VCIP135 1 0 DGPS(0.141)S(0.857)APAT(0.001)PTK;DGPS(0.022)S(0.976)APAT(0.001)PT(0.001)K ; 169.09 8.50E-05 18364900 4760.9 6919.6 5072.7 5533.1 6729.9 8407 6378.1 5386.1 7841.2 5925.9 TRUE FALSE FALSE 5261.673306 7143.79958 5763.981139 5640.201151 6214.256516 7690.676304 5660.419402 5248.331361 7786.632451 6181.39455 0.851211367 1.155693836 0.932472615 0.912448009 1.005316271 1.244165251 0.915718833 0.849052964 1.259688633 1 12.59371664 DGPSSAPATPTKAPYS(ph)PTTSK ddPTM_HeLa_SAHA_4h_R1 2 DGPSSAPATPTKAPYSPTTSK 21 1 Q96JH7 Q96JH7 VCPIP1 Deubiquitinating protein VCIP135 1 0 DGPSSAPATPT(0.006)KAPY(0.007)S(0.928)PT(0.044)T(0.012)S(0.003)K;DGPSSAPAT(0.001)PT(0.114)KAPY(0.059)S(0.677)PT(0.087)T(0.047)S(0.015)K ; 90.694 0.00043607 16108000 4085.3 2513.29 3493.16 4270.9 3859.9 4037.4 3829.7 4729.6 2558.95 3468.1 TRUE FALSE FALSE 4515.010598 2594.722245 3969.189653 4353.569445 3564.155296 3693.390806 3398.772077 4608.62368 2541.142059 3617.626763 1.248058712 0.717244319 1.097180531 1.203432452 0.985219186 1.020943024 0.939503243 1.273935644 0.702433453 1 11.82082786 DGQAMLWDLNEGK ddPTM_HeLa_SAHA_4h_R1 5 DGQAMLWDLNEGK 13 0 P63244;H0YAF8;J3KPE3;H0Y8W2;D6RAC2;H0YAM7;D6REE5;D6R9L0;D6R9Z1;D6RFX4;H0Y8R5 P63244 GNB2L1 "Guanine nucleotide-binding protein subunit beta-2-like 1;Guanine nucleotide-binding protein subunit beta-2-like 1, N-terminally processed" 0 0 ;;;; ;;;; 168.76 0.00018213 34832710 4073.59 4777.4 4234.36 4564.42 4866.09 4940.15 4747.3 4358.49 5320.7 4221.88 FALSE FALSE TRUE 4502.068887 4932.190895 4811.396529 4652.770949 4493.251235 4519.221427 4213.12131 4247.006137 5283.672815 4403.905908 1.022289981 1.119958282 1.092529366 1.056510072 1.020287747 1.026184828 0.956678321 0.964372588 1.199769688 1 12.10456793 -4.770741655 9.676397826 1.029247542 0.96045796 0.134366668 0.065633035 0.147037168 129.7318917 0.006292495 0.020131058 1.70E-05 4.770741655 -0.068789582 DGQDAIAQS(ph)PEK ddPTM_HeLa_SAHA_4h_R1 4 DGQDAIAQSPEK 12 0 Q9NWH9;H0YL55;H7BXE3 Q9NWH9 SLTM SAFB-like transcription modulator 1 0 DGQDAIAQS(1)PEK;DGQDAIAQS(1)PEK;DGQDAIAQS(1)PEK;DGQDAIAQS(1)PEK ;;; 184 2.96E-06 129241000 13856.6 18896.5 11456.6 14774.3 16917.8 21553.6 17354 15368.4 25109.5 16844 TRUE FALSE FALSE 15314.10076 19508.759 13017.84578 15060.27794 15621.56182 19717.11202 15401.28225 14975.29858 24934.76095 17570.22727 0.871593778 1.110330487 0.740903665 0.857147589 0.889092758 1.122188787 0.876555665 0.852311034 1.419148458 1 14.10084523 -9.537605256 1.204100693 1.001648732 0.91291134 0.136669148 0.173671976 1.098084754 2.762559723 0.083358341 0.01834662 2.90E-10 9.537605256 -0.088737393 DGQDAIAQS(ph)PEKESK ddPTM_HeLa_SAHA_4h_R1 5 DGQDAIAQSPEKESK 15 1 Q9NWH9;H0YL55;H7BXE3 Q9NWH9 SLTM SAFB-like transcription modulator 1 0 DGQDAIAQS(1)PEKESK;DGQDAIAQS(0.999)PEKES(0.001)K;DGQDAIAQS(1)PEKESK;DGQDAIAQS(1)PEKESK;DGQDAIAQS(0.999)PEKES(0.001)K ;;;; 109.5 0.0013281 432685000 14549.3 16043.1 11598.1 14219 15691.5 18137.4 15922.2 15163.9 19148.2 14799.5 TRUE FALSE FALSE 16079.66213 16562.90697 13178.62867 14494.22931 14489.22066 16591.99148 14130.59215 14776.0294 19014.94612 15437.57887 1.041592225 1.072895375 0.853671989 0.938892648 0.938568203 1.074779382 0.915337325 0.957146812 1.231731107 1 13.91415889 -6.788054707 24.99929266 1.024183646 0.950125664 0.302312632 0.085263046 206.0485192 193536.8679 0.008863855 0.011651138 1.63E-07 6.788054707 -0.074057982 DGQDAIAQS(ph)PEKESKDYEMNANHK ddPTM_HeLa_SAHA_4h_R1 2 DGQDAIAQSPEKESKDYEMNANHK 24 2 Q9NWH9;H0YL55;H7BXE3 Q9NWH9 SLTM SAFB-like transcription modulator 1 0 DGQDAIAQS(0.998)PEKES(0.001)KDYEMNANHK;DGQDAIAQS(0.703)PEKES(0.28)KDY(0.018)EMNANHK ; 65.365 0.00096484 47396000 4491.6 3734.7 3937.3 3941.5 4362.4 4591.4 4940.1 5249.5 3328.7 4135.6 TRUE FALSE FALSE 4964.047096 3855.70673 4473.854739 4017.793432 4028.153854 4200.186889 4384.226946 5115.225391 3305.535306 4313.905955 1.150708232 0.893785532 1.037077485 0.931358605 0.933760239 0.973638956 1.016301002 1.185752644 0.766251128 1 12.07477901 -7.270130861 24.99746096 1.071167773 0.992583063 0 0.127102666 950.8045961 2734593.896 0.015589468 0.01797141 5.37E-08 7.270130861 -0.07858471 DGQRS(ph)S(ph)IMDVR ddPTM_HeLa_SAHA_4h_R1 1 DGQRSSIMDVR 11 1 K7EQ66;K7ELZ9;K7ENM2;A0A0C4DGP7;K7EMW4;Q969V3-2;Q969V3 K7EQ66 NCLN Nicalin 2 0 DGQRS(1)S(1)IMDVR 94.688 0.0026113 0 0 271.08 77.42 0 60.611 168.74 131.15 154.87 170.13 177.35 TRUE FALSE FALSE 0 279.8631699 87.97039441 0 55.96699827 154.3624027 116.3926568 150.9086496 168.9460515 184.9964264 0 1.512803113 0.475524831 0 0.302530159 0.834407484 0.62916165 0.815738188 0.913239541 1 7.531353592 -9.750503423 1.695102847 1.000467431 0.478061389 0.083875842 0.427435484 0.578426314 3.003497118 0.330579562 0.071042035 1.78E-10 9.750503423 -0.522406042 DGQS(ph)SPQPSPR ddPTM_HeLa_SAHA_4h_R1 1 DGQSSPQPSPR 11 0 Q5VZK9;Q5VZK9-2;A0A0U1RQQ1 Q5VZK9 LRRC16A Leucine-rich repeat-containing protein 16A 1 0 DGQS(0.5)S(0.5)PQPSPR 141.73 0.00084424 19274000 1472.6 2168.9 1358.6 1831.8 2163.1 2589.4 2304.5 2069.1 2228.7 2627.3 TRUE FALSE FALSE 1627.494825 2239.173783 1543.742933 1867.257138 1997.363745 2368.768552 2045.191595 2016.175418 2213.190295 2740.575761 0.593851426 0.817045022 0.563291464 0.681337537 0.728811724 0.864332447 0.746263477 0.735675856 0.80756399 1 11.4202633 -9.462039159 1.167777605 1.001837353 0.707300849 0.282821655 0.102976661 0.27336168 0.660158592 0.065552694 0.015783833 3.45E-10 9.462039159 -0.294536504 DGQSS(ph)PQPSPR ddPTM_HeLa_SAHA_4h_R1 1 DGQSSPQPSPR 11 0 Q5VZK9;Q5VZK9-2;A0A0U1RQQ1 Q5VZK9 LRRC16A Leucine-rich repeat-containing protein 16A 1 0 DGQS(0.186)S(0.814)PQPSPR 164.53 0.00016119 13674000 1374.7 1616.7 1238 1526.7 1931 2047.4 1916.9 1738.5 1876 2532.2 TRUE FALSE FALSE 1519.297253 1669.082141 1406.708193 1556.251486 1783.047197 1872.950002 1701.205367 1694.031687 1862.944763 2641.375534 0.575191688 0.631898842 0.532566526 0.589182214 0.675044943 0.709081302 0.644060394 0.641344506 0.705293412 1 11.36707371 -9.248814169 0.866355576 1.012188728 0.623405825 0.315866752 0.100980521 0.171782462 0.220284516 0.044300209 0.0107837 5.64E-10 9.248814169 -0.388782904 DGQVINETS(ph)QHHDDLE ddPTM_HeLa_SAHA_4h_R1 2 DGQVINETSQHHDDLE 16 0 P08670 P08670 VIM Vimentin 1 0 DGQVINET(0.09)S(0.91)QHHDDLE;DGQVINET(0.204)S(0.796)QHHDDLE ; 132.13 0.00010096 318928400 9138.5 8654.8 8201.5 8421.8 10473.3 8296 10514 9587.2 8870.3 8818.5 TRUE FALSE FALSE 10099.72936 8935.221199 9319.157708 8584.816117 9670.838017 7589.134128 9330.937049 9341.973306 8808.57086 9198.708692 1.097950777 0.971356035 1.013094122 0.933263179 1.051325609 0.825021683 1.014374665 1.015574427 0.957587761 1 13.16721564 -7.230210844 23.13169272 1.046254534 0.973427222 0.034199578 0.068855013 310.4268398 229940.0619 0.010806974 0.013234588 5.89E-08 7.230210844 -0.072827311 DGQWFTDWDAVPHSR ddPTM_HeLa_SAHA_4h_R1 2 DGQWFTDWDAVPHSR 15 0 Q08J23-3;Q08J23-2;Q08J23 Q08J23-3 NSUN2 tRNA (cytosine(34)-C(5))-methyltransferase 0 0 ; ; 207.66 7.60E-13 49219000 8490.8 7329.5 7585.8 8278.6 8823.5 9413.5 9830.6 6593.7 8514.4 8579.1 FALSE FALSE TRUE 9383.901301 7566.980609 8619.553319 8438.844274 8147.445336 8611.416841 8724.435015 6425.042702 8455.147597 8948.986986 1.048599279 0.8455684 0.963187602 0.942994362 0.910432136 0.962278396 0.974907554 0.717963129 0.944816169 1 13.12750867 -1.966290842 0.306032749 1.017601123 1.23E-17 0.294449548 0.073214328 19.73727672 0.432535364 0.026768304 10.03760721 0.0108071 1.966290842 -1.017601123 DGREVEGTRTR ddPTM_HeLa_SAHA_4h_R1 1 DGREVEGTRTR 11 2 P14543-2;P14543 P14543-2 NID1 Nidogen-1 0 0 93.598 0.022544 83280000 812.1 986.6 802.65 844.87 992.99 955.81 1103.9 1034.3 835.92 758.27 FALSE FALSE TRUE 897.520404 1018.566487 912.030962 861.2236806 916.9073207 874.3696108 979.6862667 1007.844104 830.1027647 790.9627306 1.134718956 1.287755349 1.153064394 1.088829659 1.159229487 1.105449823 1.238599783 1.274199232 1.049484043 1 9.627465908 -13.52287875 0.151183442 0.307535505 1.236158344 0.457485649 0.066250092 39.54226991 0.406524986 8.023240371 0.156316165 3.00E-14 13.52287875 0.92862284 DGRHPQGEQMYR ddPTM_HeLa_SAHA_4h_R1 4 DGRHPQGEQMYR 12 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;E9PMV1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ;;; ;;; 112.94 0.0015406 6609100 2043.82 1993.38 2082.12 2579.69 2372.92 2214.18 2438.12 2368.71 2284.99 2206.7 FALSE FALSE TRUE 2258.798365 2057.96682 2365.86047 2629.62363 2191.107382 2025.519407 2163.776321 2308.121828 2269.088569 2301.841636 0.981300507 0.894052305 1.027812006 1.142399889 0.951893192 0.879956021 0.940019629 1.002728334 0.985770929 1 11.16857287 -5.541912668 24.99984098 0.997447175 0.936664986 0.177621646 0.063732962 328.5298213 431501.646 0.00936756 0.018737285 2.87E-06 5.541912668 -0.060782189 DGS(ph)FGEGLTMK ddPTM_HeLa_SAHA_4h_R1 2 DGSFGEGLTMK 11 0 Q9ULT0;Q9ULT0-4;G5E9G4 Q9ULT0 TTC7A Tetratricopeptide repeat protein 7A 1 0 DGS(1)FGEGLTMK;DGS(1)FGEGLTMK ; 166.24 0.00014146 10005300 1654.83 1911.36 1051.1 1323.33 1781.25 1833.63 1418.38 1847.02 2171 1909.62 TRUE FALSE FALSE 1828.892612 1973.289318 1194.338434 1348.944966 1644.77101 1677.394408 1258.780149 1799.775903 2155.891834 1991.953064 0.918140415 0.990630429 0.599581615 0.677197164 0.825707714 0.842085308 0.631932636 0.903523248 1.082300519 1 10.95996794 -6.782821613 24.99808867 0.962460498 0.746227524 0.59863533 0.099050502 125.3938064 146598.1283 0.014546718 0.019128063 1.65E-07 6.782821613 -0.216232974 DGS(ph)LEDDEDEEDDLDEGVGGK ddPTM_HeLa_SAHA_4h_R1 1 DGSLEDDEDEEDDLDEGVGGK 21 0 Q12789-3;Q12789 Q12789-3 GTF3C1 General transcription factor 3C polypeptide 1 1 0 DGS(1)LEDDEDEEDDLDEGVGGK 86.182 0.0011545 0 522.67 595.25 426.77 494.22 807.39 775.3 538.82 607.82 728.38 625.49 TRUE FALSE FALSE 577.6468287 614.5364906 484.9279931 503.7863428 745.5279526 709.2400783 478.1905555 592.2728445 723.3111443 652.457935 0.885339572 0.941879097 0.743232578 0.772136127 1.142645238 1.087028052 0.732906338 0.907756367 1.108594295 1 9.349741082 -9.25367613 0.955890066 1.000682374 0.901360581 0.145043719 0.133322753 1.354564294 2.196017839 0.092854191 0.024717901 5.58E-10 9.25367613 -0.099321793 DGS(ph)MGLWEVT(ph)DDVLTK ddPTM_HeLa_SAHA_4h_R1 1 DGSMGLWEVTDDVLTK 16 0 X6RBJ8;Q5T6F0 X6RBJ8 DCAF12 DDB1- and CUL4-associated factor 12 2 0 DGS(0.999)MGLWEVT(0.999)DDVLT(0.002)K 43.81 0.020144 1648700 559.98 644.02 611.74 525.66 615.83 706.41 659.73 386.63 648.95 585.36 TRUE FALSE FALSE 618.8812657 664.8866706 695.1047414 535.8349094 568.6452384 646.2198938 585.4954441 376.7405644 644.4339041 610.5977343 1.013566266 1.088911133 1.13840046 0.877557972 0.931292742 1.058339816 0.958888989 0.617002886 1.05541483 1 9.254078426 -4.268199024 3.625928074 1.010157213 0.57548974 0.738217376 0.071450426 0.102072854 2.435223122 0.009620926 0.118567515 5.39E-05 4.268199024 -0.434667474 DGS(ph)PEAPAS(ph)PEREEVALSEYK ddPTM_HeLa_SAHA_4h_R1 2 DGSPEAPASPEREEVALSEYK 21 1 A0A669KB77;P11137-3;P11137 A0A669KB77 MAP2 Microtubule-associated protein 2 2 0 DGS(1)PEAPAS(0.999)PEREEVALSEYK;DGS(1)PEAPAS(1)PEREEVALSEYK ; 87.92 0.0036291 42182000 6489.1 9263.3 7241.6 9139.7 8486.2 10215.2 8121.4 7079.3 12665.8 9318.7 TRUE FALSE FALSE 7171.653311 9563.436998 8228.447535 9316.61211 7835.989189 9344.807491 7207.558698 6898.221757 12577.65767 9720.474762 0.737788378 0.983844641 0.846506754 0.958452374 0.806132353 0.961352991 0.741482168 0.709658934 1.293934502 1 13.24681106 -9.594857848 1.383157263 1.000148417 0.835507012 0.355940699 0.133949663 0.450339698 1.54337872 0.068702657 0.01585996 2.54E-10 9.594857848 -0.164641405 LQVVK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 LQVVKR 6 1 F8WCC1;E7EXA6;A0A0D9SF58;Q8WVB6;Q8WVB6-2 F8WCC1 CHTF18 Chromosome transmission fidelity protein 18 homolog 0 1 LQVVK(1)R 117.7 0.0018563 5513700 1817.1 1562.9 1989.4 2394.1 3293.4 3057.3 3584.6 2759.8 1172.1 1248.6 FALSE TRUE FALSE 2008.230915 1613.538985 2260.505072 2440.441267 3041.060404 2796.80084 3181.251374 2689.208312 1163.943261 1302.433257 1.541906969 1.238865007 1.735601468 1.873755339 2.334906905 2.14736596 2.442544643 2.064757099 0.893668259 1 10.34699373 -6.475822395 0.365474243 1.052489876 2.505972331 0.853935045 0.198200809 0.431473863 0.123460216 0.100174776 0.243454115 3.34E-07 6.475822395 1.453482455 DGSIS(ph)PVSSECSVVER ddPTM_HeLa_SAHA_4h_R1 2 DGSISPVSSECSVVER 16 0 H0YCZ0;H7BY22;H0YEM9;Q8NCP5-3;Q8NCP5-4;Q8NCP5-2;Q8NCP5 H0YCZ0 ZBTB44 Zinc finger and BTB domain-containing protein 44 1 0 DGS(0.272)IS(0.726)PVS(0.002)SECSVVER;DGS(0.029)IS(0.971)PVSSECSVVER ; 241.66 3.17E-36 20732300 2265 1878.25 1779.74 1589.66 1904.73 2016.3 2171 1850.28 1840.47 1923.56 TRUE FALSE FALSE 2503.243092 1939.106532 2022.273699 1620.430168 1758.789999 1844.499897 1926.713366 1802.952517 1827.662019 2006.494085 1.247570631 0.966415275 1.007864271 0.807592796 0.876548808 0.919265055 0.960238747 0.8985586 0.910873365 1 10.97046119 -6.884140601 2.404506096 1.115784488 0.903058581 0.196641657 0.100075852 0.189416095 2.231082111 0.017442301 0.023675421 1.31E-07 6.884140601 -0.212725907 DGSPEAPAS(ph)PEREEVALSEYK ddPTM_HeLa_SAHA_4h_R1 2 DGSPEAPASPEREEVALSEYK 21 1 A0A669KB77;P11137-3;P11137 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 DGS(0.009)PEAPAS(0.991)PEREEVALSEYK;DGS(0.159)PEAPAS(0.831)PEREEVALS(0.01)EY(0.001)K ; 83.948 0.00063907 39182000 2968.5 3626.3 2840.8 3189.3 3886.6 5028.3 3281.8 3215.3 5054.7 4249.5 TRUE FALSE FALSE 3280.74045 3743.794499 3227.92943 3251.033513 3588.809548 4599.860552 2912.523227 3133.057282 5019.523931 4432.716742 0.740119579 0.84458239 0.728205662 0.733417834 0.809618515 1.037706856 0.65705151 0.706802953 1.132380936 1 12.11397546 -9.335425154 0.901545437 1.00922223 0.782857268 0.497798198 0.108902199 0.530687907 0.721248959 0.08362651 0.018752437 4.62E-10 9.335425154 -0.226364962 DGT(ph)SPEEEIEIER ddPTM_HeLa_SAHA_4h_R1 1 DGTSPEEEIEIER 13 0 Q9H501 Q9H501 ESF1 ESF1 homolog 1 0 DGT(0.5)S(0.5)PEEEIEIER 193.45 2.02E-07 8970300 1146 1605.6 959.74 971.47 1308.6 1472 1332.4 1150.8 1382.1 1325.8 TRUE FALSE FALSE 1266.541538 1657.622493 1090.528369 990.2742066 1208.335351 1346.577319 1182.474845 1121.364202 1372.481854 1382.961726 0.915818214 1.198603303 0.788545589 0.716053227 0.873730146 0.973690951 0.855030781 0.810842542 0.992422153 1 10.43354551 DGTAPPPQSPGSPGTGQDEEWS(ph)DEESPRK ddPTM_HeLa_SAHA_4h_R1 5 DGTAPPPQSPGSPGTGQDEEWSDEESPRK 29 1 A0A0C4DGG1;Q9UKS6 A0A0C4DGG1 PACSIN3 Protein kinase C and casein kinase substrate in neurons protein 3 1 0 DGTAPPPQS(0.001)PGS(0.005)PGT(0.066)GQDEEWS(0.92)DEES(0.008)PRK;DGTAPPPQSPGS(0.005)PGT(0.387)GQDEEWS(0.603)DEES(0.004)PRK;DGTAPPPQSPGSPGT(0.001)GQDEEWS(0.992)DEES(0.006)PRK;DGTAPPPQSPGSPGT(0.011)GQDEEWS(0.984)DEES(0.005)PRK;DGTAPPPQSPGS(0.001)PGT(0.015)GQDEEWS(0.976)DEES(0.008)PRK ;;;; 128.62 3.31E-12 140075400 8208.89 8098.74 7681.25 8235.5 8435.4 9145.49 9580.13 9874.91 8130.17 8035.95 TRUE FALSE FALSE 9072.338714 8361.14449 8728.010748 8394.910011 7789.081474 8366.242801 8502.148559 9622.324101 8073.591485 8382.419131 1.082305546 0.997461993 1.041228148 1.001490128 0.929216417 0.998070207 1.014283398 1.14791732 0.963157695 1 13.03315094 DGTDTS(ph)QSGEDGGCWQR ddPTM_HeLa_SAHA_4h_R1 2 DGTDTSQSGEDGGCWQR 17 0 Q9NPI1;Q9NPI1-2 Q9NPI1 BRD7 Bromodomain-containing protein 7 1 0 DGT(0.025)DT(0.075)S(0.895)QS(0.006)GEDGGCWQR;DGTDT(0.206)S(0.645)QS(0.148)GEDGGCWQR ; 102.15 0.0025391 6456300 814.75 645.19 380.18 794.4 676.02 599.24 607.09 567.33 620.8 721.69 TRUE FALSE FALSE 900.4491432 666.0945793 431.9889505 809.7767607 624.2234936 548.1813808 538.7786354 552.8185201 616.4798023 752.8055878 1.196124415 0.8848162 0.573838661 1.075678467 0.829196148 0.728184527 0.715694257 0.734344337 0.818909706 1 9.556133526 -7.070649324 5.620726396 1.091424698 0.782716379 0.259557676 0.153457007 0.127403108 7.476045545 0.022537719 0.027860854 8.50E-08 7.070649324 -0.308708319 DGTFLIR ddPTM_HeLa_SAHA_4h_R1 2 DGTFLIR 7 0 O00459 O00459 PIK3R2 Phosphatidylinositol 3-kinase regulatory subunit beta 0 0 ; ; 132.8 0.0041948 3396800 3122.6 4325.4 3387.7 4198.3 5413.6 4918.8 5033.2 3836.5 4174.7 3979.4 FALSE FALSE TRUE 3451.049395 4465.545798 3849.358114 4279.564167 4998.811138 4499.690568 4466.851089 3738.367885 4145.647923 4150.971409 0.831383562 1.075783319 0.927339106 1.030978956 1.20425092 1.084009049 1.076097773 0.900600731 0.998717533 1 12.01923328 -6.499031218 1.526201388 0.926291112 1.068673432 0.128672861 0.094824067 0.382131785 1.775094513 0.01732175 0.028643305 3.17E-07 6.499031218 0.14238232 KKDDSFLGK(ac)LGGTLAR ddPTM_HeLa_SAHA_4h_R1 2 KKDDSFLGKLGGTLAR 16 3 Q9NVD7-2;Q9NVD7 Q9NVD7-2 PARVA Alpha-parvin 0 1 ; KKDDSFLGK(1)LGGTLAR;KKDDSFLGK(1)LGGTLAR 104.16 0.0015853 27174800 4455 5107 7823.2 14292 16745 16374.2 21099.1 14918.7 3148.4 2175.2 FALSE TRUE FALSE 4923.59734 5272.470151 8889.304955 14568.64233 15462.00172 14979.02604 18724.97374 14537.10126 3126.490028 2268.983517 2.169957297 2.323714611 3.917747699 6.420779268 6.814505967 6.601646036 8.252582532 6.406878299 1.377925403 1 11.14783041 -6.469594135 1.123763082 1.479072418 7.265809336 0.955833955 0.530307957 0.06588278 0.165765695 0.10230959 0.183749858 3.39E-07 6.469594135 5.786736918 up DGVDT(ph)ELLVY(ph)AMT(ph)LVNK ddPTM_HeLa_SAHA_4h_R1 1 DGVDTELLVYAMTLVNK 17 0 K7ER94;Q2V2M9-2;Q2V2M9;Q2V2M9-3;Q2V2M9-4 K7ER94 FHOD3 FH1/FH2 domain-containing protein 3 3 0 DGVDT(1)ELLVY(1)AMT(1)LVNK 51.03 0.020207 6759600 1920.5 1982.3 2472.1 2602.9 3007.7 2970.3 2837.1 2676.1 2819.1 2562.1 TRUE FALSE FALSE 2122.507002 2046.527821 2808.984914 2653.282893 2777.250676 2717.21373 2517.862041 2607.649237 2799.481654 2672.56467 0.794183589 0.765754275 1.051044693 0.992785291 1.039170617 1.016706447 0.942114543 0.975710435 1.047488835 1 11.38400914 -6.733362315 24.99998576 0.889814126 1.001971501 0.255012104 0.083608797 228.5825793 203530.7921 0.014639579 0.020701062 1.85E-07 6.733362315 0.112157375 DGVLTLANNVT(ph)PAK ddPTM_HeLa_SAHA_4h_R1 3 DGVLTLANNVTPAK 14 0 E7EVA0;P27816;P27816-6 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 DGVLT(0.002)LANNVT(0.998)PAK;DGVLT(0.001)LANNVT(0.999)PAK;DGVLT(0.002)LANNVT(0.998)PAK ;; 140.77 0.00036632 9479000 2603.89 3205.87 2087.34 3099.67 3766.05 4051.71 3628.93 3158.86 4763.2 3519.71 TRUE FALSE FALSE 2877.779097 3309.742291 2371.791825 3159.668595 3477.496063 3706.481514 3220.593246 3078.060935 4730.052503 3671.461923 0.783823762 0.901478038 0.646007469 0.860602305 0.947169312 1.009538323 0.877196417 0.83837474 1.288329445 1 11.84213892 -4.294740689 5.494479803 0.886767974 0.837493083 0 0.161959375 0.712116771 62.74009711 0.016134043 0.109336975 5.07E-05 4.294740689 -0.04927489 DGWQVEEADDWLR ddPTM_HeLa_SAHA_4h_R1 2 DGWQVEEADDWLR 13 0 E9PK47;P06737-2;P06737 E9PK47 PYGL "Alpha-1,4 glucan phosphorylase;Glycogen phosphorylase, liver form" 0 0 ; ; 247.13 2.76E-31 11626400 1455.62 1671.47 1785.35 1724.27 1828.52 2182.6 2189.3 1110.57 2348.7 1804.95 FALSE FALSE TRUE 1608.72879 1725.626725 2028.6482 1757.645739 1688.419193 1996.630201 1942.954202 1082.163227 2332.355205 1882.770228 0.854447753 0.916536017 1.077480497 0.933542348 0.896773896 1.060474705 1.03196565 0.574771797 1.238789084 1 10.87864123 -4.25367543 24.74182899 0.950253106 0.574771587 0.511137461 0.115842613 393.4746249 1253874.082 0.011383563 0.162229562 5.58E-05 4.25367543 -0.375481519 DGWS(ph)LDRDR ddPTM_HeLa_SAHA_4h_R1 1 DGWSLDRDR 9 1 A0A494C001;A0A499FJY3;A0A087WWP4;Q96T37-4;Q96T37-2;Q96T37-3;Q96T37 A0A494C001 RBM15 Putative RNA-binding protein 15 1 0 DGWS(1)LDRDR 152.64 0.0014052 5834800 3035.8 2811.8 1910.6 3631.4 2997.9 5024.1 3077.9 2400.8 4212 2820.9 TRUE FALSE FALSE 3355.119373 2902.904165 2170.966618 3701.690998 2768.20155 4596.018415 2731.566591 2339.391012 4182.688349 2942.522804 1.140218648 0.986535826 0.737790924 1.257999086 0.940757892 1.561931282 0.928307705 0.795029017 1.421463359 1 11.52283788 -4.529628062 24.99952164 1.075729357 0.828348451 0.155329747 0.232492091 177.3957241 657078.9319 0.026763134 0.10061739 2.95E-05 4.529628062 -0.247380906 DGYDYDGYR ddPTM_HeLa_SAHA_4h_R1 3 DGYDYDGYR 9 0 J3KTL2;Q07955;Q07955-3;Q07955-2 J3KTL2 SRSF1 Serine/arginine-rich splicing factor 1 0 0 ;; ;; 153.08 0.0010503 222525000 8117 7266.8 7531.9 7355.7 8210.3 9102 8812.8 8436 8458.6 7236.9 FALSE FALSE TRUE 8970.783302 7502.249088 8558.308108 7498.08021 7581.228588 8326.458394 7821.16055 8220.219335 8399.735914 7548.918176 1.188353496 0.993817778 1.13371319 0.99326553 1.004280138 1.103000218 1.03606376 1.088926803 1.112707241 1 12.88205419 -6.265083208 24.98168443 1.08560849 1.045552971 0.095440078 0.062504588 826.0932871 5663611.718 0.012228923 0.019173943 5.43E-07 6.265083208 -0.040055518 DGYGGSRDS(ph)YSSSR ddPTM_HeLa_SAHA_4h_R1 2 DGYGGSRDSYSSSR 14 1 P38159;P38159-2;H3BUY5;Q96E39 P38159;Q96E39 RBMX;RBMXL1 "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed;RNA binding motif protein, X-linked-like-1" 1 0 DGYGGS(0.089)RDS(0.911)YSSSR;DGYGGS(0.001)RDS(0.996)Y(0.002)S(0.001)SSR ; 138.81 0.0011523 65077000 3374.6 3388 2629.4 3646.3 3849.2 3652 3830.8 4064.8 3570.3 3599.6 TRUE FALSE FALSE 3729.555911 3497.773423 2987.720939 3716.879409 3554.275128 3340.829054 3399.748302 3960.828302 3545.453992 3754.796372 0.993277808 0.931548099 0.795707847 0.989901726 0.946595974 0.889749729 0.905441458 1.054871665 0.944246676 1 11.87451896 -7.257031277 5.824803192 0.996952401 0.925545546 0.083257701 0.065313822 0.180521479 25.43842703 0.010225682 0.012144701 5.53E-08 7.257031277 -0.071406854 DGYNYTLSK ddPTM_HeLa_SAHA_4h_R1 2 DGYNYTLSK 9 0 P31949 P31949 S100A11 "Protein S100-A11;Protein S100-A11, N-terminally processed" 0 0 ; ; 151.83 0.0021131 47929000 3844.8 3461.9 3347.6 3342.1 3502.5 4083.6 3786.4 3283.3 3613.2 2896 FALSE FALSE TRUE 4249.213705 3574.067831 3803.793494 3406.791178 3234.139207 3735.654306 3360.344307 3199.31794 3588.055447 3020.860733 1.406623503 1.183128965 1.259175391 1.127755127 1.070601889 1.236619175 1.11237975 1.059074954 1.187759306 1 11.56074396 -6.151679384 9.335578937 1.20064304 1.124060492 0.146385595 0.103186733 0.982515223 77.44225324 0.023582373 0.039150627 7.05E-07 6.151679384 -0.076582548 DHANYEEDENGDIT(ph)PIK ddPTM_HeLa_SAHA_4h_R1 2 DHANYEEDENGDITPIK 17 0 H3BSB3;H3BNT4;Q99547 H3BSB3 MPHOSPH6 M-phase phosphoprotein 6 1 0 DHANYEEDENGDIT(1)PIK;DHANYEEDENGDIT(1)PIK ; 136.49 0.00020762 26546600 5074.1 5649.7 4203 4768.1 6038.9 3178.58 6234 6102.9 7863.6 6547.5 TRUE FALSE FALSE 5607.817119 5832.753987 4775.762952 4860.39347 5576.200787 2907.747102 5532.533913 5946.796655 7808.876567 6829.794768 0.821081352 0.854015997 0.69925424 0.711645611 0.816452174 0.425744433 0.810058589 0.870713815 1.143354498 1 12.73762651 -8.145046815 0.459760451 1.006909756 0.70937875 0.493470482 0.127777023 0.689635908 0.341858012 0.086216767 0.044452456 7.16E-09 8.145046815 -0.297531006 DHANYEEDENGDIT(ph)PIKAK ddPTM_HeLa_SAHA_4h_R1 1 DHANYEEDENGDITPIKAK 19 1 H3BSB3;H3BNT4;Q99547 H3BSB3 MPHOSPH6 M-phase phosphoprotein 6 1 0 DHANYEEDENGDIT(1)PIKAK 47.222 0.019857 8059500 2038.6 1772.5 2246 2388.6 2480.6 289.51 2775.4 2692.7 2101.8 2336.5 TRUE FALSE FALSE 2253.029301 1829.930163 2552.073183 2434.834807 2290.536964 264.8421193 2463.104688 2623.824633 2087.173403 2437.23795 0.924419096 0.750821299 1.047116956 0.999013989 0.939808509 0.108664859 1.010613136 1.076556613 0.856368334 1 11.25103139 -5.476908636 24.99997885 0.955343679 0.720549312 0.108344563 0.254987504 601.0586519 326873.8273 0.034640104 0.077454859 3.33E-06 5.476908636 -0.234794367 DHAPSIPT(ph)SPFGDSLESSTELRR ddPTM_HeLa_SAHA_4h_R1 1 DHAPSIPTSPFGDSLESSTELRR 23 1 Q9Y4B5;Q9Y4B5-2;Q9Y4B5-3;J3QL92 Q9Y4B5 MTCL1 Microtubule cross-linking factor 1 1 0 DHAPS(0.006)IPT(0.497)S(0.497)PFGDSLESSTELRR 75.483 0.00152 9801300 908.08 1075.3 758.85 956.27 1532.7 173.94 967.79 1340.4 1312 1163.7 TRUE FALSE FALSE 1003.596021 1110.140426 862.2621261 974.7799886 1415.264857 159.1193334 858.8917221 1306.114509 1302.869685 1213.872802 0.826771981 0.914544278 0.710339769 0.803033058 1.165908697 0.131084026 0.707563198 1.075989599 1.073316482 1 10.24540154 -8.488766859 0.273819185 1.067243689 0.716213749 0.123781466 0.262423803 5.055743736 0.829895817 0.644917462 0.239487022 3.25E-09 8.488766859 -0.351029939 DHCVAHK(ac)LFNNLK ddPTM_HeLa_SAHA_4h_R1 1 DHCVAHKLFNNLK 13 1 P07919;A0A096LP55 P07919 UQCRH;UQCRHL "Cytochrome b-c1 complex subunit 6, mitochondrial;Cytochrome b-c1 complex subunit 6" 0 1 DHCVAHK(1)LFNNLK 46.592 0.022515 2752600 1431.2 1178.4 2233.1 1908.4 2570 763.61 2804.4 1264.1 1110.8 1633.8 FALSE TRUE FALSE 1581.740183 1216.580933 2537.415239 1945.339842 2373.087155 698.546132 2488.841531 1231.766152 1103.069852 1704.241114 0.928119953 0.713854937 1.488882775 1.141469846 1.39245975 0.409886915 1.460381111 0.72276519 0.647249878 1 10.73491375 DHFEEAMR ddPTM_HeLa_SAHA_4h_R1 4 DHFEEAMR 8 0 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 ;;; ;;; 199.29 8.60E-12 61053000 22443.4 20564.1 22485 22800.2 23758.1 1660.51 25794.2 17316.8 15318.5 17909.8 FALSE FALSE TRUE 24804.09979 21230.39033 25549.1387 23241.53084 21937.75951 1519.025206 22891.76873 16873.86133 15211.89731 18681.97913 1.327701932 1.13641013 1.367582017 1.244061493 1.174273848 0.081309651 1.225339595 0.90321594 0.814255128 1 14.18935968 -5.452371788 24.99999738 1.181307593 0.759209447 0.276816095 0.304507239 142.5280748 50536.32573 0.039511698 0.088350825 3.53E-06 5.452371788 -0.422098146 DHFGLEGDEESTMLEDS(ph)VSPK ddPTM_HeLa_SAHA_4h_R1 3 DHFGLEGDEESTMLEDSVSPK 21 0 Q9Y490 Q9Y490 TLN1 Talin-1 1 0 DHFGLEGDEESTMLEDS(0.563)VS(0.436)PK;DHFGLEGDEES(0.001)T(0.11)MLEDS(0.445)VS(0.445)PK;DHFGLEGDEESTMLEDS(0.508)VS(0.492)PK ;; 161.56 2.29E-07 40599000 7060.85 8570.78 7249.85 7360 8501.04 428.82 8455.36 6812.45 10212.73 8374.23 TRUE FALSE FALSE 7803.542599 8848.478895 8237.821802 7502.463443 7849.692152 392.2821235 7503.94064 6638.197393 10141.65878 8735.284038 0.893335874 1.012958349 0.943051396 0.85886886 0.898618994 0.04490777 0.859037967 0.759929198 1.160999315 1 13.0926389 -5.488529037 24.96567674 0.944763649 0.5661824 0.435940789 0.214362903 418.7092233 304321.3322 0.027177196 0.060738627 3.25E-06 5.488529037 -0.378581248 DHFGLEGDEESTMLEDS(ph)VSPKK ddPTM_HeLa_SAHA_4h_R1 1 DHFGLEGDEESTMLEDSVSPKK 22 1 Q9Y490 Q9Y490 TLN1 Talin-1 1 0 DHFGLEGDEES(0.012)T(0.039)MLEDS(0.542)VS(0.407)PKK 47.088 0.011284 7370300 1402.5 1962 1341.3 1398.5 2290.4 1192.1 1728.2 1596.1 2115.3 1716.4 TRUE FALSE FALSE 1550.021385 2025.570087 1524.085379 1425.56999 2114.910047 1090.526373 1533.738388 1555.274073 2100.579455 1790.402404 0.865739111 1.131349066 0.851252978 0.796228818 1.18124844 0.609095682 0.856644509 0.868672914 1.173244322 1 10.80606816 -5.248484597 24.99859481 0.946968712 0.785988413 0.27103766 0.149832718 854.2343305 1648396.514 0.017758452 0.044966012 5.64E-06 5.248484597 -0.160980298 DHFGLEGDEESTMLEDSVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 DHFGLEGDEESTMLEDSVSPK 21 0 Q9Y490 Q9Y490 TLN1 Talin-1 1 0 DHFGLEGDEEST(0.005)MLEDS(0.05)VS(0.945)PK;DHFGLEGDEEST(0.001)MLEDS(0.367)VS(0.632)PK;DHFGLEGDEESTMLEDS(0.318)VS(0.682)PK ;; 96.723 0.00027685 29896000 3111.93 4309.39 3157.67 3755.37 3832.08 468.482 3662.97 3315.64 5117.74 4395.35 TRUE FALSE FALSE 3439.257075 4449.017063 3587.980823 3828.060617 3538.466858 428.564698 3250.802975 3230.83073 5082.125231 4584.855049 0.750134309 0.970372458 0.782572357 0.834936018 0.771772896 0.093473991 0.709030698 0.704674563 1.108459303 1 12.16266041 -5.505859103 24.56082687 0.8725143 0.507984588 0.473581936 0.188918747 392.6943898 566691.4215 0.025509511 0.055771096 3.12E-06 5.505859103 -0.364529712 DHFGLEGDEESTMLEDSVS(ph)PKK ddPTM_HeLa_SAHA_4h_R1 2 DHFGLEGDEESTMLEDSVSPKK 22 1 Q9Y490 Q9Y490 TLN1 Talin-1 1 0 DHFGLEGDEESTMLEDS(0.034)VS(0.966)PKK;DHFGLEGDEESTMLEDS(0.04)VS(0.96)PKK ; 88.571 0.00022179 18240100 1651.06 2072.15 1857.93 2226.3 2041.17 691.95 2310.6 1899.48 2598.5 2138.58 TRUE FALSE FALSE 1824.726066 2139.28902 2111.119025 2269.393256 1884.775996 632.9919672 2050.605207 1850.894052 2580.416827 2230.78465 0.817974997 0.958985001 0.94635716 1.017307187 0.844893744 0.283753058 0.919230463 0.829705392 1.156730582 1 11.12333553 -5.510230256 24.95364188 0.925180832 0.678828673 0.345608283 0.178164602 531.4885166 1048548.768 0.02326353 0.049723696 3.09E-06 5.510230256 -0.24635216 DHFGRTFYNQAIMS(ph)SK ddPTM_HeLa_SAHA_4h_R1 1 DHFGRTFYNQAIMSSK 16 1 A0A0G2JM88;D6R9R1;D6RDF7;Q9HCC0-2;Q9HCC0 A0A0G2JM88 MCCC2 "Methylcrotonoyl-CoA carboxylase beta chain, mitochondrial" 1 0 DHFGRTFYNQAIMS(0.5)S(0.5)K 61.657 0.021154 10612000 1241.2 1771.7 1302.9 1514.3 2068.9 2465.4 1794 1416.9 3491.8 1914.3 TRUE FALSE FALSE 1371.755111 1829.104242 1480.452427 1543.611466 1910.381329 2255.33405 1592.134398 1380.65775 3467.500279 1996.834841 0.686964732 0.916001767 0.741399537 0.773029113 0.956704726 1.129454476 0.797329036 0.691423107 1.736498286 1 10.9634993 -4.520354691 24.99890233 0.866018144 0.71789951 0 0.302116835 144.1241653 1427406.586 0.021002128 0.08150496 3.02E-05 4.520354691 -0.148118634 DHFLGPQESFPEENASS(ph)PFTQAR ddPTM_HeLa_SAHA_4h_R1 1 DHFLGPQESFPEENASSPFTQAR 23 0 A0A0U1RRL2;B1AM27;O14795;O14795-2;A0A1B0GUS7 A0A0U1RRL2 UNC13B Protein unc-13 homolog B 1 0 DHFLGPQESFPEENAS(0.268)S(0.545)PFT(0.187)QAR 101.71 2.92E-05 0 251.49 351.99 379.49 517.99 373.01 173.67 271.61 332.16 401.33 350.62 TRUE FALSE FALSE 277.9428721 363.3947069 431.2049209 528.0164455 344.4300544 158.872339 241.047728 323.6638282 398.5371119 365.7369441 0.759952957 0.993595842 1.179002909 1.443705521 0.941742583 0.434389639 0.659074047 0.884963451 1.089682402 1 8.514662554 -5.378049919 9.013309763 0.961519093 0.660022805 0.378673259 0.209990891 0.35265023 25.12371994 0.034095324 0.076343931 4.19E-06 5.378049919 -0.301496288 DHGFEVASTSPEDES(ph)PGSNPEPDATPFQEGLR ddPTM_HeLa_SAHA_4h_R1 1 DHGFEVASTSPEDESPGSNPEPDATPFQEGLR 32 0 Q5JRU2;F8VVS7;P55211-2;P55211-4;P55211 Q5JRU2 CASP9 Caspase;Caspase-9;Caspase-9 subunit p35;Caspase-9 subunit p10 1 0 DHGFEVAS(0.055)T(0.167)S(0.153)PEDES(0.44)PGS(0.182)NPEPDAT(0.004)PFQEGLR 46.15 0.018863 6855300 444.31 539.67 423.09 518.37 696.71 647.1 624.75 457.96 647.75 468.37 TRUE FALSE FALSE 491.0445644 557.1556621 480.7465018 528.4038009 643.3282303 591.9634395 554.4514857 446.2460463 643.242255 488.5637228 1.005077826 1.140395072 0.983999588 1.081545306 1.316774456 1.211640185 1.134860121 0.913383506 1.31659848 1 8.932402933 -5.998471305 24.99987368 1.014576622 1.15467468 0 0.140150133 49.94752986 816792.6546 0.015024636 0.027089416 1.00E-06 5.998471305 0.140098059 DHIKDEWEGLR ddPTM_HeLa_SAHA_4h_R1 2 DHIKDEWEGLR 11 1 H0YH15;O60306 H0YH15 AQR Intron-binding protein aquarius 0 0 ; ; 98.943 0.0054699 6349700 5063.9 4700.1 4932.6 5759.4 6453.3 1274.13 6373.1 5070.6 6335.3 6681.8 FALSE FALSE TRUE 5596.544236 4852.386324 5604.78904 5870.881515 5958.849548 1165.566956 5655.982015 4940.901394 6291.212131 6969.885098 0.80296076 0.696193159 0.804143678 0.842321133 0.854942293 0.167229006 0.811488559 0.708892805 0.902627811 1 12.76691916 -8.174491576 0.191837789 1.153227927 0.544613922 0.24957098 0.1854373 4.021636795 0.478806288 0.857876054 0.477225282 6.69E-09 8.174491576 -0.608614004 DHNVEFR ddPTM_HeLa_SAHA_4h_R1 1 DHNVEFR 7 0 E7ESL0;J3KQY1;Q9NWU5-2;Q9NWU5-3;Q9NWU5 E7ESL0 MRPL22 "39S ribosomal protein L22, mitochondrial" 0 0 120.62 0.0040139 1020800 747.58 819.63 657.43 465.54 846.13 115.32 951.29 746.27 679.13 772.46 FALSE FALSE TRUE 826.2138944 846.1865498 747.0211367 474.5511999 781.2997022 105.4940872 844.2483455 727.181494 674.403879 805.7645309 1.025378833 1.050166044 0.927096078 0.588945258 0.969637744 0.130924213 1.047760621 0.902473944 0.836973896 1 9.65421449 -6.457425372 5.399686637 1.014304904 0.726739894 0.189686945 0.245004547 0.224071109 12.81287206 0.034443756 0.052526418 3.49E-07 6.457425372 -0.28756501 DHPYTWR ddPTM_HeLa_SAHA_4h_R1 1 DHPYTWR 7 0 Q9Y570;Q9Y570-4;Q9Y570-2;Q9Y570-3 Q9Y570 PPME1 Protein phosphatase methylesterase 1 0 0 94.407 0.018791 1558200 1010.4 885.97 1004.4 1232 1198.2 223.17 1251.5 920.57 924.81 778.69 FALSE FALSE TRUE 1116.678508 914.6760093 1141.274401 1255.847142 1106.394175 204.1546605 1110.677926 897.0231524 918.3741719 812.2631367 1.374774328 1.126083369 1.405055024 1.546108748 1.362112996 0.251340546 1.367386843 1.10435044 1.130636281 1 9.665803361 DHQPCIIFMDEIDAIGGR ddPTM_HeLa_SAHA_4h_R1 2 DHQPCIIFMDEIDAIGGR 18 0 A0A087X2I1;P62333;H0YJX2 A0A087X2I1 PSMC6 26S protease regulatory subunit 10B 0 0 ; ; 140.96 0.00014578 4925500 2011.01 1944.48 1854.45 2397.86 1949.98 1660.89 2691.91 2231.91 2973.7 2254.55 FALSE FALSE TRUE 2222.537259 2007.482428 2107.164788 2444.274048 1800.572954 1519.372828 2389.009202 2174.820974 2953.00578 2351.754684 0.945054888 0.853610473 0.89599685 1.039340567 0.765629581 0.646059233 1.015841158 0.924765235 1.255660635 1 11.19952186 -7.556501678 0.578796082 0.994898873 0.863838138 0.245252702 0.135979555 0.944883252 0.73345232 0.041425416 0.038816097 2.78E-08 7.556501678 -0.131060735 DHS(ph)PPSQGSPGNSAAR ddPTM_HeLa_SAHA_4h_R1 1 DHSPPSQGSPGNSAAR 16 0 A0A1W2PRA3;A0A2R8Y701;Q18PE1-2;Q18PE1;Q18PE1-3 A0A1W2PRA3 DOK7 Protein Dok-7 1 0 DHS(1)PPSQGSPGNSAAR 132.14 0.00010095 3575700 1889.6 1724.1 1643.2 2032.3 1838.1 844.25 1974.5 1765.8 2066.6 1816.2 TRUE FALSE FALSE 2088.356798 1779.961971 1867.126739 2071.638105 1697.265175 772.3151504 1752.324063 1720.633393 2052.218362 1894.50527 1.102323034 0.939539203 0.985548453 1.093498201 0.895888337 0.407660597 0.924950746 0.90822307 1.08324764 1 10.88760544 -5.521433713 19.89751537 1.036241212 0.745916932 0.459314053 0.139965343 2.48059039 34148.68058 0.01967131 0.040016186 3.01E-06 5.521433713 -0.29032428 DHS(ph)PTPSVFNR ddPTM_HeLa_SAHA_4h_R1 1 DHSPTPSVFNR 11 0 H0Y8P7 H0Y8P7 FIP1L1 1 0 DHS(0.985)PT(0.014)PSVFNR 91.123 0.0067527 0 1449.3 1396.9 1181.2 1287.8 1667.4 1146.5 1438.2 1533.7 1658.3 1362.1 TRUE FALSE FALSE 1601.744024 1442.160477 1342.167785 1312.727231 1539.644172 1048.81175 1276.369951 1494.470175 1646.759755 1420.826797 1.127332358 1.015014976 0.944638564 0.923917844 1.083625517 0.738170023 0.898329025 1.051831355 1.15901513 1 10.47251498 -6.86240431 3.449960675 1.060538386 0.934143127 0.322108462 0.097004873 0.241284728 5.660521245 0.015754168 0.021219699 1.37E-07 6.86240431 -0.126395259 DHS(ph)PTPSVFNS(ph)DEERYR ddPTM_HeLa_SAHA_4h_R1 2 DHSPTPSVFNSDEERYR 17 1 Q6UN15-5;Q6UN15;Q6UN15-3 Q6UN15-5 FIP1L1 Pre-mRNA 3-end-processing factor FIP1 2 0 DHS(0.915)PT(0.062)PS(0.023)VFNS(1)DEERYR;DHS(0.998)PT(0.002)PSVFNS(1)DEERYR ; 132.67 0.00061223 48072000 3364.7 4179.2 3304.4 3789.6 2850.84 457.03 3706.6 3478.1 4011.9 3754.6 TRUE FALSE FALSE 3718.614584 4314.608822 3754.706423 3862.953188 2632.409255 418.0884728 3289.523613 3389.135238 3983.980861 3916.479181 0.949478961 1.101654987 0.95869434 0.986333135 0.672136665 0.106751103 0.839918575 0.865352548 1.017235297 1 11.93534157 -5.713664507 4.906136319 0.985660424 0.592844516 0.471718174 0.197516787 0.132816329 6.933833872 0.028199322 0.056538395 1.93E-06 5.713664507 -0.392815908 DHS(ph)PTPSVFNSDEER ddPTM_HeLa_SAHA_4h_R1 4 DHSPTPSVFNSDEER 15 0 Q6UN15-5;Q6UN15;Q6UN15-3 Q6UN15-5 FIP1L1 Pre-mRNA 3-end-processing factor FIP1 1 0 DHS(0.94)PT(0.06)PSVFNSDEER;DHS(0.939)PT(0.061)PSVFNSDEER;DHS(0.989)PT(0.011)PSVFNSDEER;DHS(0.925)PT(0.075)PSVFNSDEER ;;; 154.72 2.26E-05 196691000 4311.67 6012.8 3707.63 5404.5 4917.99 273.077 4828.9 4399.77 6854.6 4701.79 TRUE FALSE FALSE 4765.191233 6207.618665 4212.886508 5509.111913 4541.174669 249.8093033 4285.539463 4287.230254 6806.898281 4904.507177 0.971594303 1.265696724 0.858982637 1.123275329 0.925918651 0.050934639 0.873796145 0.874140887 1.387886292 1 12.25989246 -5.499049368 24.88092693 1.008128724 0.603938676 0.392254698 0.264406311 536.4015698 560071.5751 0.031323968 0.069659549 3.17E-06 5.499049368 -0.404190048 DHS(ph)PTPSVFNSDEERYR ddPTM_HeLa_SAHA_4h_R1 4 DHSPTPSVFNSDEERYR 17 1 Q6UN15-5;Q6UN15;Q6UN15-3 Q6UN15-5 FIP1L1 Pre-mRNA 3-end-processing factor FIP1 1 0 DHS(0.924)PT(0.062)PS(0.014)VFNSDEERYR;DHS(0.891)PT(0.109)PSVFNSDEERYR;DHS(0.968)PT(0.032)PSVFNSDEERYR;DHS(0.819)PT(0.179)PS(0.002)VFNSDEERYR ;;; 103.79 0.00087576 76694000 3161.63 2803.45 2784.39 3000.95 2964.04 908.44 3516.89 3058.06 2684.54 3102.17 TRUE FALSE FALSE 3494.184749 2894.283619 3163.832169 3059.037727 2736.935896 831.0358013 3121.160281 2979.839253 2665.858068 3235.91973 1.079811936 0.894423799 0.977722698 0.945337951 0.845798451 0.25681595 0.964535755 0.920863155 0.823833188 1 11.65996011 -5.717130842 3.307804308 1.017949868 0.716557948 0.186639756 0.195316747 0.200847302 4.500729702 0.026921134 0.055342911 1.92E-06 5.717130842 -0.301391921 DHS(ph)VSLSPSLFK ddPTM_HeLa_SAHA_4h_R1 1 DHSVSLSPSLFK 12 0 P47989 P47989 XDH Xanthine dehydrogenase/oxidase;Xanthine dehydrogenase;Xanthine oxidase 1 0 DHS(0.685)VS(0.307)LS(0.004)PS(0.004)LFK 92.439 0.011014 3471100 430.7 272.87 603.69 548.46 588.06 612.29 521.75 461.34 501.16 326.97 TRUE FALSE FALSE 476.0030021 281.711167 685.9577293 559.0762364 543.0029698 560.1194474 463.0413168 449.5395908 497.6723868 341.0672769 1.395627885 0.825969497 2.011209447 1.639196353 1.592069972 1.642255019 1.357624575 1.318037881 1.459161932 1 8.413912534 -8.367810223 0.471385832 0.985823897 1.541169856 0.060373033 0.309901814 0.961516693 0.460197433 0.234004726 0.097320912 4.29E-09 8.367810223 0.555345959 DHT(ph)VSGDEDYCPR ddPTM_HeLa_SAHA_4h_R1 1 DHTVSGDEDYCPR 13 0 Q9UIG0-2;Q9UIG0 Q9UIG0-2 BAZ1B Tyrosine-protein kinase BAZ1B 1 0 DHT(0.707)VS(0.293)GDEDYCPR 190.34 3.46E-07 7148500 367.07 140.63 187.62 282.65 270.75 136.82 250.91 316.05 317.07 207.12 TRUE FALSE FALSE 405.6801068 145.1865043 213.1878765 288.1210995 250.0051935 125.1621663 222.6769464 307.9658986 314.8634841 216.0499568 1.877714362 0.67200432 0.986752692 1.333585545 1.157163821 0.579320487 1.030673413 1.425438372 1.457364254 1 7.755221132 -7.251302026 24.98374632 1.414476233 1.024704322 0.270259277 0.314006467 919.907987 2267136.393 0.06664595 0.08112497 5.61E-08 7.251302026 -0.38977191 DHTVS(ph)GDEDYCPR ddPTM_HeLa_SAHA_4h_R1 1 DHTVSGDEDYCPR 13 0 Q9UIG0-2;Q9UIG0 Q9UIG0-2 BAZ1B Tyrosine-protein kinase BAZ1B 1 0 DHT(0.02)VS(0.98)GDEDYCPR 143.93 0.00020218 6033400 987.97 813.23 645.11 534.26 678.73 152.32 776.82 732.13 709.67 891.47 TRUE FALSE FALSE 1091.889218 839.5791856 733.0222312 544.6013749 626.725854 139.3414791 689.4101691 713.4031747 704.7313487 929.9056344 1.174193571 0.90286493 0.788275933 0.585652301 0.673967154 0.149844752 0.741376483 0.767178032 0.757852542 1 9.860940511 -6.66471066 1.668566695 1.081177886 0.569120757 0.417810768 0.196097632 0.164985045 0.933438932 0.029284678 0.044413855 2.16E-07 6.66471066 -0.512057129 DHYEATAMHR ddPTM_HeLa_SAHA_4h_R1 5 DHYEATAMHR 10 0 B1AJY5;B1AJY7;O75832;B1AJY6;O75832-2 B1AJY5 PSMD10 26S proteasome non-ATPase regulatory subunit 10 0 0 ;;;; ;;;; 132.88 0.00060094 9854240 5970.39 5202.04 4948.07 6287.09 7009.24 672.868 7025.1 4507.91 4957.14 5323.99 FALSE FALSE TRUE 6598.383013 5370.589509 5622.367211 6408.785718 6472.193545 615.5358609 6234.617259 4392.60419 4922.642859 5553.533264 1.188141441 0.967058133 1.012394622 1.1540015 1.165419065 0.110836801 1.122639762 0.790956672 0.886398375 1 12.43919022 DHYQDPVPGIT(ph)PSSSSR ddPTM_HeLa_SAHA_4h_R1 2 DHYQDPVPGITPSSSSR 17 0 Q7KZ85;Q7KZ85-2 Q7KZ85;Q7KZ85-2 SUPT6H Transcription elongation factor SPT6 1 0 DHYQDPVPGIT(0.547)PS(0.156)S(0.045)S(0.156)S(0.097)R;DHYQDPVPGIT(0.453)PS(0.453)S(0.067)S(0.021)S(0.006)R ; 174.02 1.09E-08 12379900 1963.5 2415.11 1655.58 1733.44 2584.23 382.57 2309.66 1644.67 2327.62 2148.33 TRUE FALSE FALSE 2170.029939 2493.361149 1881.193821 1766.993238 2386.226856 349.9728837 2049.770978 1602.601723 2311.421903 2240.95502 0.968350511 1.112633286 0.839460767 0.788500091 1.06482586 0.156171311 0.914686355 0.715142298 1.031445023 1 11.12989798 DHYQDPVPGITPSSSS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 DHYQDPVPGITPSSSSR 17 0 Q7KZ85;Q7KZ85-2 Q7KZ85;Q7KZ85-2 SUPT6H Transcription elongation factor SPT6 1 0 DHYQDPVPGIT(0.129)PS(0.039)S(0.012)S(0.039)S(0.78)R 140.47 9.54E-05 7625500 1630.8 1962.6 1209.9 1602.1 2125 264.93 1806.3 1270.8 1777.9 1931.8 TRUE FALSE FALSE 1802.335026 2026.189528 1374.778871 1633.110962 1962.182959 242.3564735 1603.05037 1238.294776 1765.527449 2015.089352 0.894419409 1.005508528 0.68224214 0.810440967 0.97374489 0.120270832 0.79552322 0.614511101 0.876153431 1 10.9766281 -5.986916837 0.748822122 0.958188349 0.556972661 0.320437512 0.207306707 0.566423082 0.596963508 0.037692372 0.117199929 1.03E-06 5.986916837 -0.401215688 DIAAHIK ddPTM_HeLa_SAHA_4h_R1 2 DIAAHIK 7 0 F8VXL2;F8VRV5;P63167 F8VXL2 DYNLL1 "Dynein light chain 1, cytoplasmic" 0 0 ; ; 71.296 0.021461 2902000 6213.1 6106.4 4916.9 7364.6 7334.7 6930.4 6900.3 5785.9 6317.9 6197.2 FALSE FALSE TRUE 6866.622365 6304.251367 5586.949526 7507.152482 6772.716871 6339.890931 6123.860083 5637.905056 6273.933219 6464.39162 1.062222521 0.975227328 0.864265325 1.16130843 1.047695942 0.98074054 0.947321951 0.872147819 0.970537305 1 12.65829889 -4.566392421 1.757358179 1.023768116 0.865543549 0.244796253 0.072790691 0.488427971 2.260164082 0.010227378 0.105316511 2.71E-05 4.566392421 -0.158224567 DIAWTEDSKR ddPTM_HeLa_SAHA_4h_R1 2 DIAWTEDSKR 10 1 O75083;D6RD66 O75083 WDR1 WD repeat-containing protein 1 0 0 ; ; 131.12 0.0031546 20067300 1898.24 2168.6 1869.54 2033.43 2338.9 2611.5 2295.37 2060.77 2660.5 2126.44 FALSE FALSE TRUE 2097.905593 2238.864063 2124.311175 2072.789978 2159.693987 2388.985508 2037.088927 2008.058487 2641.985364 2218.121235 0.945802943 1.00935153 0.957707424 0.934480021 0.973659128 1.077031079 0.918384845 0.905296994 1.191091507 1 11.11512251 -8.359002776 0.004279332 1.951877565 1.43E-08 0.057577638 0.079532841 29544.46317 55.42480135 12762.48613 12516.4358 4.38E-09 8.359002776 -1.95187755 DIDDDLEGEVTEECGK ddPTM_HeLa_SAHA_4h_R1 2 DIDDDLEGEVTEECGK 16 0 Q9UHX1;A0A0J9YYL3;Q9UHX1-2;Q9UHX1-5;Q9UHX1-3;Q9UHX1-6;Q9UHX1-4;A0A0J9YXX5;A0A0J9YVP6;A0A0J9YXJ8 Q9UHX1 PUF60 Poly(U)-binding-splicing factor PUF60 0 0 ; ; 252.37 8.27E-46 12803900 2246.1 3202 2492.4 2473.7 3152.8 3828.1 2983.51 2465.6 3360 2613.6 FALSE FALSE TRUE 2482.355103 3305.746901 2832.051292 2521.582041 2911.233145 3501.924344 2647.797603 2402.533522 3336.617486 2726.285087 0.910526605 1.212546302 1.038794991 0.924915026 1.067838855 1.28450409 0.97121083 0.881248089 1.223869618 1 11.41272072 DIDEVSSLLR ddPTM_HeLa_SAHA_4h_R1 5 DIDEVSSLLR 10 0 P50990-2;P50990;P50990-3;H7C4C8 P50990-2 CCT8 T-complex protein 1 subunit theta 0 0 ;;;; ;;;; 224.86 2.68E-21 34661110 4506.9 4659.4 4651.48 5159.89 5377.41 5679.34 5161.49 4971.61 5303.4 4797.02 FALSE FALSE TRUE 4980.95642 4810.367617 5285.359471 5259.767132 4965.394008 5195.428281 4580.705561 4844.443415 5266.493208 5003.843008 0.995426198 0.96133464 1.056260051 1.051145514 0.992316106 1.038287627 0.915437505 0.968144565 1.052489696 1 12.28882081 -4.757576814 24.99987646 1.004942137 0.941791033 0.404201781 0.034214041 70.40711413 455679.328 0.004219253 0.014653405 1.75E-05 4.757576814 -0.063151105 DIDHETVVEEQIIGENS(ph)PPDYSEYMTGK ddPTM_HeLa_SAHA_4h_R1 1 DIDHETVVEEQIIGENSPPDYSEYMTGK 28 0 A0A494C032;H0YJU4;H0YJV7;P25490 A0A494C032 YY1 Transcriptional repressor protein YY1 1 0 DIDHETVVEEQIIGENS(1)PPDYSEYMTGK 162.01 1.28E-11 5763800 893.18 1696.5 963.38 996.62 1652.9 1869.7 1377.5 1265.4 1612.2 1447.8 TRUE FALSE FALSE 987.1287705 1751.467713 1094.664409 1015.911021 1526.255159 1710.391041 1222.500075 1233.0329 1600.980569 1510.221743 0.653631677 1.159742085 0.724836875 0.672689971 1.010616597 1.132542985 0.809483826 0.816458183 1.060096357 1 10.56054468 DIDIHEVR ddPTM_HeLa_SAHA_4h_R1 3 DIDIHEVR 8 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;Q5RI18;A0A1W2PP34;A0A1W2PPH7;A0A1W2PPL4;A0A1W2PQL0;A0A1W2PQ74;A0A1W2PRZ7 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 0 ;; ;; 141.52 0.00080354 40650000 18470.7 19346.9 19891.9 18652 19835.9 20078.1 21193.8 16400.7 20182.9 19219.5 FALSE FALSE TRUE 20413.53297 19973.75225 22602.66454 19013.03643 18316.07763 18367.33292 18809.01784 15981.19384 20042.44556 20048.1467 1.018225439 0.996289211 1.127419151 0.94836878 0.913604529 0.916161139 0.938192349 0.797140707 0.999715627 1 14.29118126 -6.015392575 8.450728519 1.0167794 0.900502431 0.614467108 0.050754922 0.106660185 48.59064023 0.007210415 0.012392779 9.65E-07 6.015392575 -0.116276969 DIDILNSAGK(ac)MDK ddPTM_HeLa_SAHA_4h_R1 3 DIDILNSAGKMDK 13 1 O60264 O60264 SMARCA5 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5 0 1 ;; DIDILNSAGK(1)MDK;DIDILNSAGK(1)MDK;DIDILNSAGK(1)MDK 176.99 5.34E-11 3065170 903.35 726.632 1022.85 888.3 1206.17 1210.09 1034.14 998.02 946.3 938.21 FALSE TRUE FALSE 998.3684977 750.1753536 1162.238671 905.494331 1113.753515 1106.983524 917.7758455 972.4920935 939.7146213 978.6608246 1.020137388 0.766532526 1.187580663 0.92523815 1.138038314 1.131120707 0.937787457 0.993696763 0.960204596 1 9.93466514 DIDIS(ph)SPEFK ddPTM_HeLa_SAHA_4h_R1 3 DIDISSPEFK 10 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 DIDIS(0.536)S(0.464)PEFK;DIDIS(0.684)S(0.316)PEFK;DIDIS(0.636)S(0.364)PEFK ;; 225.55 4.23E-22 805615000 16390 19248.5 16853.8 16144 18678.2 19209.6 18542.4 17047.3 19629.8 17064.7 TRUE FALSE FALSE 18113.9754 19872.16403 19150.54809 16456.49046 17247.08035 17572.83401 16455.96035 16611.25475 19493.19462 17800.44273 1.017613757 1.116385942 1.075846729 0.924498942 0.968912999 0.987213311 0.924469161 0.933193348 1.095096056 1 14.1196255 -6.247623845 24.97207852 1.022957537 0.949747707 0.546728831 0.045395197 626.0384264 1131586.991 0.006730308 0.011126146 5.65E-07 6.247623845 -0.073209829 DIDISS(ph)PEFK ddPTM_HeLa_SAHA_4h_R1 3 DIDISSPEFK 10 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 DIDIS(0.041)S(0.959)PEFK;DIDIS(0.352)S(0.648)PEFK;DIDIS(0.108)S(0.892)PEFK ;; 193.62 4.64E-07 908370000 26915.6 31651.1 27059.8 25763.4 31299.3 30839.8 31122.7 26840.9 31805 26668.1 TRUE FALSE FALSE 29746.7063 32676.61641 30747.36862 26262.08786 28901.1544 28212.07554 27620.69189 26154.34864 31583.66642 27817.8923 1.069337173 1.174661835 1.105309068 0.944071807 1.0389412 1.014170133 0.992911022 0.940198789 1.135372374 1 14.76372549 -6.257384805 24.96908393 1.051423719 0.990938958 0.361880507 0.059768571 477.3957832 2939923.843 0.009566862 0.015512135 5.53E-07 6.257384805 -0.060484761 DIDNNLITS(ph)TPR ddPTM_HeLa_SAHA_4h_R1 1 DIDNNLITSTPR 12 0 Q05D32;H0YMH7;Q05D32-2;H0YNU2;H0YNW9 Q05D32 CTDSPL2 CTD small phosphatase-like protein 2 1 0 DIDNNLIT(0.001)S(0.499)T(0.499)PR 203.85 1.77E-10 27132000 2978.7 2577 2425.4 2882.3 3025.1 3006.8 2866.2 3084.9 2780.7 2904.9 TRUE FALSE FALSE 3292.013333 2660.496491 2755.920881 2938.091084 2793.317492 2750.603724 2543.687633 3005.992725 2761.348882 3030.144455 1.086421252 0.878009788 0.909501485 0.969620798 0.921843012 0.907746731 0.839460848 0.992029512 0.911292819 1 11.56517086 -7.259182201 24.99465989 1.040810036 0.915492668 0.197994324 0.060522992 102.186327 1131553.246 0.008244244 0.009835959 5.51E-08 7.259182201 -0.125317368 DIDNNLITST(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 DIDNNLITSTPR 12 0 Q05D32;H0YMH7;Q05D32-2;H0YNU2;H0YNW9 Q05D32 CTDSPL2 CTD small phosphatase-like protein 2 1 0 DIDNNLITS(0.003)T(0.997)PR;DIDNNLIT(0.01)S(0.22)T(0.77)PR ; 177.36 6.39E-05 10498300 3723.1 3070.6 2986.1 3725.2 4165.8 4090.8 4021 3985.9 4142.1 4107.9 TRUE FALSE FALSE 4114.71274 3170.089455 3393.030157 3797.306633 3846.617304 3742.240826 3568.546497 3883.94645 4113.274789 4285.011673 0.960257067 0.739808826 0.791836853 0.886183498 0.897691208 0.873332703 0.832797381 0.90640277 0.95992149 1 12.06508342 -7.445635162 8.750433638 0.982557701 0.848568646 0.586041926 0.048890955 0.186354194 19.81743502 0.008744583 0.009964783 3.58E-08 7.445635162 -0.133989055 DIDPQNDLTFLR ddPTM_HeLa_SAHA_4h_R1 1 DIDPQNDLTFLR 12 0 Q9NP97;Q8TF09;H3BQI1;B1AKR6 Q9NP97 DYNLRB1;DYNLRB2 Dynein light chain roadblock-type 1;Dynein light chain roadblock-type 2 0 0 126.71 0.0072666 2552900 1074 1048.7 1009.2 1129.2 1340.4 1036.5 1202.6 1054.3 1145.8 1079.4 FALSE FALSE TRUE 1186.968248 1082.678568 1146.72852 1151.057299 1237.698842 948.1843688 1067.280283 1027.332533 1137.826285 1125.938216 1.054203712 0.961579021 1.018464871 1.022309468 1.099259998 0.84212824 0.947903062 0.912423539 1.010558366 1 10.13691195 -5.25816617 24.99900762 1.024670389 0.90552676 0.648982559 0.041389498 138.0948559 1054687.619 0.005826435 0.014211249 5.52E-06 5.25816617 -0.119143629 DIDVLNSSGK(ac)MDK ddPTM_HeLa_SAHA_4h_R1 1 DIDVLNSSGKMDK 13 1 A0A0A0MRP6;B7ZLQ5;P28370-2;P28370 A0A0A0MRP6 SMARCA1 Probable global transcription activator SNF2L1 0 1 DIDVLNSSGK(1)MDK 158.2 6.16E-05 0 359.13 195.72 158.45 138.11 159.06 107.31 277.68 323.65 0 186.52 FALSE TRUE FALSE 396.9049411 202.0614564 180.0427408 140.7833188 146.8728572 98.16658429 246.4347156 315.3715016 0 194.56179 2.039994292 1.038546451 0.925375639 0.723591815 0.754890553 0.504552226 1.266614146 1.620932361 0 1 7.604084597 -7.028541682 23.54606992 1.493643329 0.941726605 0 0.601157647 384.1783811 316935.6234 0.080026415 0.098148129 9.36E-08 7.028541682 -0.551916724 DIEDVFYK ddPTM_HeLa_SAHA_4h_R1 1 DIEDVFYK 8 0 J3KTL2;Q07955;Q07955-3;Q07955-2;J3QQV5;J3KSW7 J3KTL2 SRSF1 Serine/arginine-rich splicing factor 1 0 0 125.96 0.01575 2490000 577.95 502.12 380.56 613.8 686.12 715.32 537.02 663.63 736.12 665.04 FALSE FALSE TRUE 638.7414327 518.3890175 432.4207349 625.6809866 633.5496338 654.3707117 476.5930962 646.6553055 730.997281 693.713129 0.920757307 0.747267128 0.623342296 0.901930438 0.913273235 0.943287195 0.687017553 0.932165298 1.053745778 1 9.438195379 -7.524644488 3.236419662 0.968397909 0.820026005 0.345616182 0.106921087 0.224991308 4.846927294 0.019304468 0.020929914 2.99E-08 7.524644488 -0.148371905 DIEIS(ph)T(ph)EEEKDTGDLKDSSLLK ddPTM_HeLa_SAHA_4h_R1 1 DIEISTEEEKDTGDLKDSSLLK 22 2 Q4G0J3;Q4G0J3-3 Q4G0J3 LARP7 La-related protein 7 2 0 DIEIS(0.987)T(0.987)EEEKDT(0.026)GDLKDSSLLK 68.952 0.0039427 16876000 2867.7 2760.8 2672.3 2668.2 3053.9 3151.2 3187.5 3272.8 2620.5 2811.2 TRUE FALSE FALSE 3169.337843 2850.251731 3036.467127 2719.846869 2819.910842 2882.700032 2828.834111 3189.086515 2602.263727 2932.40459 1.080798282 0.971984474 1.035487101 0.927514191 0.961637713 0.983049898 0.9646807 1.087532916 0.887416333 1 11.51786845 -7.240065682 24.43544384 1.038154747 0.987231944 0 0.065852093 747.729778 854841.2014 0.008136829 0.009959392 5.75E-08 7.240065682 -0.050922803 DIEIS(ph)TEEEKDTGDLK ddPTM_HeLa_SAHA_4h_R1 1 DIEISTEEEKDTGDLK 16 1 Q4G0J3;Q4G0J3-3 Q4G0J3 LARP7 La-related protein 7 1 0 DIEIS(0.483)T(0.483)EEEKDT(0.033)GDLK 61.102 0.021727 6546900 483.66 779.26 514.32 714.15 766.69 802.03 688.5 644.85 969.53 481.72 TRUE FALSE FALSE 534.5335779 804.5085353 584.4088511 727.9734059 707.9463778 733.6925319 611.028168 628.3556707 962.7829618 502.4893067 1.063771051 1.601046081 1.163027438 1.448734125 1.408878494 1.460115712 1.21600233 1.250485657 1.916026767 1 8.972949085 -7.406257151 7.782796584 1.027999944 1.359042136 0 0.306506636 0.127103492 7.779361677 0.01987539 0.022665215 3.92E-08 7.406257151 0.331042191 DIELVMSQANVSR ddPTM_HeLa_SAHA_4h_R1 2 DIELVMSQANVSR 13 0 F8VZJ2;F8W0W4;H0YHX9;Q13765;E9PAV3-2;E9PAV3 F8VZJ2 NACA "Nascent polypeptide-associated complex subunit alpha;Nascent polypeptide-associated complex subunit alpha, muscle-specific form" 0 0 ; ; 168.98 2.93E-10 2353380 435.65 590.91 416.9 501.84 339.77 690.03 730.29 376.92 484.95 581.72 FALSE FALSE TRUE 481.4736658 610.0558717 473.7129609 511.5538389 313.736896 631.235562 648.1158472 367.2789322 481.5751935 606.8007961 0.793462482 1.005364323 0.780672939 0.843034225 0.517034417 1.040268184 1.068086679 0.605271012 0.793629798 1 9.245079168 -9.456650957 0.845431907 1.015900178 0.835488013 0 0.180270328 1.39305928 1.510830535 0.176798579 0.030939915 3.49E-10 9.456650957 -0.180412164 DIERDS(ph)RES(ph)AS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 DIERDSRESASSR 13 2 Q2M3C7-2;Q2M3C7 Q2M3C7-2 SPHKAP A-kinase anchor protein SPHKAP 3 0 DIERDS(1)RES(1)AS(0.591)S(0.41)R 111.81 0.0018778 8079400 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 DIEREDIEFICK ddPTM_HeLa_SAHA_4h_R1 2 DIEREDIEFICK 12 1 P50991-2;P50991 P50991-2 CCT4 T-complex protein 1 subunit delta 0 0 ; ; 209.19 7.58E-11 46542000 5261.6 6373.5 6108.2 6821.2 6728.2 7573.5 7211 5695.6 7062.5 5802 FALSE FALSE TRUE 5815.039229 6580.005582 6940.593686 6953.23419 6212.68677 6928.195193 6399.599302 5549.914799 7013.351487 6052.152614 0.960821645 1.087217392 1.146797533 1.148886129 1.026525133 1.144748924 1.057408778 0.917015011 1.158819338 1 12.56323265 -7.25616154 24.3124642 0.98149911 1.081160127 0 0.086994448 259.3880733 1194876.7 0.011103822 0.013383902 5.54E-08 7.25616154 0.099661018 DIICQIAYAR ddPTM_HeLa_SAHA_4h_R1 1 DIICQIAYAR 10 0 P46777;A0A2R8Y6J3;A0A2R8Y4A2;Q5T7N0 P46777 RPL5 60S ribosomal protein L5 0 0 117.53 0.020523 10355000 847.07 725.25 702.22 816.46 756.01 694.85 724.59 568.05 709.75 730.31 FALSE FALSE TRUE 936.1687091 748.7485759 797.9148846 832.2637639 698.0846771 635.6448709 643.0572262 553.5201035 704.810792 761.7972382 1.228894858 0.982871213 1.047411102 1.092500369 0.916365461 0.834401648 0.844131737 0.726597677 0.925194732 1 9.573263247 -5.428072618 1.01153934 1.100423085 0.758080346 0.569705461 0.089562328 0.288166378 0.522001951 0.015567144 0.067951857 3.73E-06 5.428072618 -0.34234274 DIIFAIK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 DIIFAIKK 8 1 P11177-2;P11177;P11177-3 P11177-2 PDHB "Pyruvate dehydrogenase E1 component subunit beta, mitochondrial" 0 1 DIIFAIK(1)K 92.439 0.0091536 245560 296.21 526.02 789.97 506.8 513.88 278.63 607.68 167.6 50.636 233.6 FALSE TRUE FALSE 327.3667269 543.0633931 897.6229976 516.6098468 474.5066254 254.8891565 539.3022471 163.3130347 50.28361995 243.6716392 1.343474883 2.228668855 3.683740137 2.120106585 1.947319873 1.046035383 2.21323355 0.670217655 0.206358114 1 7.928794536 -4.225292712 21.97415474 1.565428797 0.670208486 0.081640676 0.910280494 7360.388421 4474088.869 0.127547771 27.02409946 5.95E-05 4.225292712 -0.895220312 DIIHDPGR ddPTM_HeLa_SAHA_4h_R1 4 DIIHDPGR 8 0 E9PKZ0;P62917;G3V1A1;E9PKU4 E9PKZ0 RPL8 60S ribosomal protein L8 0 0 ;;; ;;; 99.136 0.0081139 100668000 24831.7 25070.4 24119.8 25371.5 26496.3 26345.4 28549.1 27729.6 26094.6 24691.6 FALSE FALSE TRUE 27443.61214 25882.69741 27406.72073 25862.60207 24466.15922 24100.6237 25336.68013 27020.31698 25913.00555 25756.17571 1.065515799 1.004912286 1.064083466 1.004132071 0.949914284 0.935722134 0.983712816 1.049081094 1.006089019 1 14.65263078 -6.000176258 23.29283929 1.031726076 0.976798253 0.295446699 0.035005919 2.486653048 328866.8116 0.005635667 0.010121658 1.00E-06 6.000176258 -0.054927823 DIILYVK ddPTM_HeLa_SAHA_4h_R1 1 DIILYVK 7 0 Q7L1Q6-2;Q7L1Q6;Q7L1Q6-4;Q7L1Q6-3;H0Y503;C9IZ80 Q7L1Q6-2 BZW1 Basic leucine zipper and W2 domain-containing protein 1 0 0 100.74 0.023002 273210 297.67 437.01 304.79 562.48 679.64 405.44 432.28 283.44 511.04 375.21 FALSE FALSE TRUE 328.9802964 451.1694107 346.3251939 573.3676138 627.56613 370.8942311 383.6387167 276.1900152 507.483631 391.3871393 0.840549582 1.152744598 0.884866055 1.464962836 1.603440857 0.947640313 0.980202664 0.705669623 1.296628274 1 8.612452541 -7.251659245 23.65803495 0.924703969 1.119218993 0 0.279449802 585.6398465 1416655.354 0.044386247 0.053962236 5.60E-08 7.251659245 0.194515024 DIINEEEVQFLK ddPTM_HeLa_SAHA_4h_R1 1 DIINEEEVQFLK 12 0 P49588;P49588-2 P49588 AARS "Alanine--tRNA ligase, cytoplasmic" 0 0 197.31 2.52E-07 3615800 954.29 459.43 551.19 809.35 522.17 832.79 686.42 559.42 989.94 781.11 FALSE FALSE TRUE 1054.666601 474.3158334 626.3033027 825.0161396 482.1614474 761.8316069 609.182215 545.1108464 983.0509269 814.7874748 1.294406987 0.582134419 0.768670754 1.012553783 0.59176345 0.935006527 0.747657805 0.669022123 1.206512075 1 9.670279993 -7.264332151 24.99990025 1.139025523 0.768310726 0.621873703 0.145459143 142.8509523 1234543.262 0.027085319 0.031701914 5.44E-08 7.264332151 -0.370714796 DIIRQPS(ph)EEEIIK ddPTM_HeLa_SAHA_4h_R1 4 DIIRQPSEEEIIK 13 1 B1AKZ5;Q15121;Q15121-2 B1AKZ5 PEA15 Astrocytic phosphoprotein PEA-15 1 0 DIIRQPS(1)EEEIIK;DIIRQPS(1)EEEIIK;DIIRQPS(1)EEEIIK;DIIRQPS(1)EEEIIK ;;; 186.05 1.38E-06 51949300 6247.49 5803.77 6454.03 5757.21 7736.15 6111.29 8488.4 10308.3 5946.34 6578.96 TRUE FALSE FALSE 6904.629663 5991.815956 7333.551597 5868.649125 7143.407858 5590.573711 7533.262892 10044.62861 5904.958936 6862.611162 1.006122815 0.873110222 1.068624088 0.855162705 1.040916889 0.814642354 1.097725445 1.463674449 0.860453666 1 12.7445419 -4.31477179 3.426988273 0.979886494 1.499225945 0.741192784 0.091178979 0.085215261 1.675113569 0.010375347 0.104994218 4.84E-05 4.31477179 0.519339451 DIISDTSGDFR ddPTM_HeLa_SAHA_4h_R1 1 DIISDTSGDFR 11 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YKS4;H0YNA0;H0YN52 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 145.25 0.0042241 30878000 3938 3136.2 2556 2991.8 3003.6 4185 3320.6 2931.2 4720.6 3393.4 FALSE FALSE TRUE 4352.216908 3237.814938 2904.318369 3049.710615 2773.464817 3828.414456 2946.957349 2856.224148 4687.74896 3539.706081 1.229541891 0.914712935 0.820497042 0.861571708 0.783529692 1.08156281 0.832542952 0.806909976 1.324332827 1 11.78941386 -7.111277976 6.027283413 1.107987123 0.868973945 0.587207837 0.115556575 0.144252767 6.827481483 0.018646421 0.022930434 7.74E-08 7.111277976 -0.239013178 DIISDTSGDFRK ddPTM_HeLa_SAHA_4h_R1 2 DIISDTSGDFRK 12 1 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YKS4;H0YNA0;H0YN52 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ; ; 171.67 0.00013356 30775000 5967 5991.8 5321.1 5511.7 6541.9 7471.4 6442.8 5829.1 7276.4 6272.3 FALSE FALSE TRUE 6594.636438 6185.938251 6046.231797 5618.386924 6040.661035 6834.794687 5717.839187 5680.000062 7225.76294 6542.729549 1.007933522 0.945467516 0.924114584 0.858722171 0.923263141 1.044639647 0.873922595 0.86813921 1.104395786 1 12.67567692 -7.099439426 2.839254319 1.003923075 0.917564788 0.435585739 0.058493922 0.209511262 3.267885746 0.00853928 0.010712586 7.95E-08 7.099439426 -0.086358287 DIISIAEDEDLR ddPTM_HeLa_SAHA_4h_R1 4 DIISIAEDEDLR 12 0 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 0 ;;; ;;; 265.01 1.02E-42 31565900 4074.97 4590.51 3951.82 4394.69 4197.21 5429.7 5187 3586.04 7025.3 5155.08 FALSE FALSE TRUE 4503.594041 4739.245536 4490.353449 4479.75558 3875.620677 4967.059013 4603.345109 3494.314289 6976.410365 5377.340727 0.837513237 0.881336292 0.835050944 0.833080105 0.72073184 0.923701745 0.856063497 0.649821997 1.297371827 1 12.39267717 -13.52287875 0.145859334 1.675235591 0.752045047 0.502623901 0.11702435 40.67600478 0.407917281 7.856062592 0.172913739 3.00E-14 13.52287875 -0.923190544 DIKEES(ph)DEEEEDDEESGR ddPTM_HeLa_SAHA_4h_R1 2 DIKEESDEEEEDDEESGR 18 1 Q96EV2;H7BXM6;A8MTF7;H7C0H2;Q96EV2-2 Q96EV2 RBM33 RNA-binding protein 33 1 0 DIKEES(1)DEEEEDDEESGR;DIKEES(1)DEEEEDDEESGR ; 131.3 5.89E-05 62177000 2663.7 2881.8 2337.46 2865.8 3103.9 3743.8 2762.4 2639.5 4208.3 3062.6 TRUE FALSE FALSE 2943.880187 2975.172211 2655.996876 2921.271703 2866.079853 3424.807178 2451.567482 2571.985412 4179.014098 3194.643674 0.921505021 0.931300174 0.831390648 0.914428024 0.897151653 1.07204669 0.767399351 0.805093048 1.308131524 1 11.64143931 -1.000005849 0.023923087 1.581281838 9.03E-10 0.286689691 0.124990823 1896.828322 3.526915594 81.89501102 164.8898856 0.099998653 1.000005849 -1.581281837 DIKEES(ph)DEEEEDDEESGRLR ddPTM_HeLa_SAHA_4h_R1 2 DIKEESDEEEEDDEESGRLR 20 2 Q96EV2;H7BXM6;A8MTF7;H7C0H2;Q96EV2-2 Q96EV2 RBM33 RNA-binding protein 33 1 0 DIKEES(0.999)DEEEEDDEES(0.001)GRLR;DIKEES(1)DEEEEDDEESGRLR ; 79.92 0.002215 46204700 3657.18 2697.87 3364.1 2966.25 3458.7 3697.7 4176.6 3905.7 2407.62 3315.46 TRUE FALSE FALSE 4041.858972 2785.282758 3822.542029 3023.666058 3193.695153 3382.635157 3706.637976 3805.797849 2390.865176 3458.405706 1.168705848 0.805366112 1.105290227 0.874294781 0.923458791 0.978090902 1.071776504 1.100448638 0.691320042 1 11.75589141 -7.311609112 24.99998347 1.079666625 0.981887402 0 0.157676011 501.6514555 249975.7504 0.018158555 0.020765102 4.88E-08 7.311609112 -0.097779224 DILIQYDR ddPTM_HeLa_SAHA_4h_R1 2 DILIQYDR 8 0 M0R210;P62249 M0R210 RPS16 40S ribosomal protein S16 0 0 ; ; 149.57 0.0017336 13944000 4193.4 3991 3175.6 4066.6 4340.7 5039.4 4355.9 3750.7 4529.6 4120.8 FALSE FALSE TRUE 4634.481052 4120.311019 3608.35423 4145.314923 4008.116504 4610.014769 3865.762668 3654.762525 4498.078145 4298.467855 1.078170457 0.95855341 0.839451254 0.964370344 0.932452362 1.072478596 0.899335019 0.850247727 1.046437544 1 12.0696068 -7.099693141 5.856120997 1.036593558 0.931157491 0.394786145 0.063465488 0.192587738 9.392631868 0.011123001 0.013693035 7.95E-08 7.099693141 -0.105436067 DILLRPELEELR ddPTM_HeLa_SAHA_4h_R1 2 DILLRPELEELR 12 1 P00387-2;P00387;P00387-3 P00387-2 CYB5R3 NADH-cytochrome b5 reductase 3;NADH-cytochrome b5 reductase 3 membrane-bound form;NADH-cytochrome b5 reductase 3 soluble form 0 0 ; ; 105.36 0.0040052 1949400 1287.77 2038.2 1296.49 1661.85 2233.2 2177.3 2669.8 1879.06 1968.73 1711.58 FALSE FALSE TRUE 1423.223557 2104.239017 1473.168905 1694.01751 2062.092698 1991.781791 2369.387077 1830.996366 1955.029448 1785.37459 0.797156835 1.178598054 0.825131551 0.948830301 1.154991625 1.115610025 1.327109219 1.025553055 1.095024797 1 10.80201108 -5.776323918 4.46263231 0.91999525 1.167723083 0.260083051 0.132816518 0.136345002 6.47003024 0.018545352 0.035912557 1.67E-06 5.776323918 0.247727832 DILSFDK(ac)IK ddPTM_HeLa_SAHA_4h_R1 2 DILSFDKIK 9 1 Q14151 Q14151 SAFB2 Scaffold attachment factor B2 0 1 ; DILSFDK(1)IK;DILSFDK(1)IK 140.75 0.0002017 978830 594.08 792.3 1441.52 1357.31 1370.44 943.66 1451.4 623.36 194.876 661.95 FALSE TRUE FALSE 656.5680601 817.9710398 1637.962838 1383.582698 1265.437183 863.2548591 1288.084652 607.4153538 193.519842 690.489904 0.950872788 1.184624185 2.372174928 2.003769628 1.832665729 1.250206345 1.86546486 0.879687524 0.28026455 1 9.43147651 -6.983338116 24.94720275 0.981587713 1.713367336 0.464057717 0.442538521 155.8431256 233337.2346 0.060060413 0.078924189 1.04E-07 6.983338116 0.731779622 DIMLATGK(ac)LSPDAIPGK ddPTM_HeLa_SAHA_4h_R1 1 DIMLATGKLSPDAIPGK 17 1 A0A0U1RQF0;P49327 A0A0U1RQF0 FASN Fatty acid synthase;[Acyl-carrier-protein] S-acetyltransferase;[Acyl-carrier-protein] S-malonyltransferase;3-oxoacyl-[acyl-carrier-protein] synthase;3-oxoacyl-[acyl-carrier-protein] reductase;3-hydroxyacyl-[acyl-carrier-protein] dehydratase;Enoyl-[acyl-carrier-protein] reductase;Oleoyl-[acyl-carrier-protein] hydrolase 0 1 DIMLATGK(1)LSPDAIPGK 167.61 6.82E-12 405470 155.88 0 0 166.87 0 0 0 0 0 0 FALSE TRUE FALSE 172.2761736 0 0 170.1000101 0 0 0 0 0 0 0 DINAVLIDMER ddPTM_HeLa_SAHA_4h_R1 2 DINAVLIDMER 11 0 A0A3B3ITG9;A0A3B3ISX1;A0A3B3IRQ9;P55265-5;P55265-3;P55265-2;P55265;P55265-4 A0A3B3ITG9 ADAR Double-stranded RNA-specific adenosine deaminase 0 0 ; ; 121.02 0.01261 3110200 1060.39 843.87 886.46 1173.76 1137.38 1142.54 1076.18 1087.38 1496.25 1006.4 FALSE FALSE TRUE 1171.926685 871.2119417 1007.262152 1196.479822 1050.23419 1045.189164 955.085394 1059.566394 1485.837474 1049.790829 1.11634304 0.829890982 0.959488428 1.139731639 1.000422333 0.995616589 0.909786376 1.009311917 1.415365264 1 10.03588618 -5.172938259 0.466737213 1.041985929 0.94087855 0.068422972 0.146465423 4.963633923 1.233870793 0.023999096 0.239280993 6.72E-06 5.172938259 -0.101107379 DINAYNCEEPTEKLPFPIIDDR ddPTM_HeLa_SAHA_4h_R1 2 DINAYNCEEPTEKLPFPIIDDR 22 1 P30041 P30041 PRDX6 Peroxiredoxin-6 0 0 ; ; 168.17 7.82E-08 12234800 1603.68 1789.65 1505.86 1765.46 1831.61 1785.13 1636.28 1421.34 1571.38 1576.38 FALSE FALSE TRUE 1772.36242 1847.635834 1711.070759 1799.633031 1691.272438 1633.026881 1452.161468 1384.984181 1560.444639 1644.345456 1.07785284 1.123629969 1.04057864 1.094437318 1.028538396 0.993116668 0.883124323 0.842270811 0.948976161 1 10.68329771 -4.793960804 1.856669867 1.048770959 0.837848716 0.712103552 0.046096814 0.143009193 0.891626861 0.006184832 0.036435752 1.61E-05 4.793960804 -0.210922243 DINTFLGT(ph)PVQK ddPTM_HeLa_SAHA_4h_R1 1 DINTFLGTPVQK 12 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 DINTFLGT(1)PVQK 104.09 0.0035839 0 492.6 548.05 428.38 394.58 516.47 739.18 449.86 752.04 778.98 598.21 TRUE FALSE FALSE 544.4139281 565.8071796 486.7573955 402.2176665 476.8981802 676.1977055 399.2405688 732.8039057 773.5590148 624.0017607 0.872455756 0.906739717 0.780057728 0.644577775 0.764257748 1.083647111 0.639806799 1.17436192 1.23967441 1 9.28540629 -8.645621246 0.734393266 0.994741601 0.844745963 0.185467712 0.180462712 1.060225957 1.143099277 0.081875624 0.033900177 2.26E-09 8.645621246 -0.149995639 DINTFVGT(ph)PVEK ddPTM_HeLa_SAHA_4h_R1 2 DINTFVGTPVEK 12 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 DINT(0.005)FVGT(0.995)PVEK;DINT(0.003)FVGT(0.997)PVEK ; 156.6 0.00036383 13694800 2115.14 2242.79 977.37 2315.33 2274.98 2853 1915.11 2289.94 3736.4 2359.5 TRUE FALSE FALSE 2337.62013 2315.457868 1110.560894 2360.14656 2100.671524 2609.908349 1699.616783 2231.366651 3710.398088 2461.229592 0.949777354 0.940772805 0.451221982 0.958929865 0.853504903 1.060408325 0.690555968 0.906606461 1.507538387 1 11.26516353 -6.978156068 24.99996872 0.974651805 0.821628224 0.193942461 0.228848246 295.1558729 337799.4825 0.023837264 0.031327006 1.05E-07 6.978156068 -0.153023581 DIPGLTDTTVPR ddPTM_HeLa_SAHA_4h_R1 3 DIPGLTDTTVPR 12 0 P62753;A2A3R5 P62753 RPS6 40S ribosomal protein S6 0 0 ;; ;; 152.7 0.0005516 23506900 2373.89 2250.77 2208.73 2799.92 2183.56 2870.06 3040.91 2727.16 2639.94 2380.43 FALSE FALSE TRUE 2623.586642 2323.696425 2509.724222 2854.1165 2016.256105 2625.514741 2698.738804 2657.403196 2621.568443 2483.061987 1.056593293 0.935818935 1.010737644 1.149434253 0.812003935 1.057369794 1.086859216 1.070212186 1.055780507 1 11.27790456 -5.014207825 24.957988 1.013111636 1.076930443 0.120282234 0.08308723 1078.664681 1894833.623 0.010936764 0.029217844 9.68E-06 5.014207825 0.063818808 DIPYHNR ddPTM_HeLa_SAHA_4h_R1 1 DIPYHNR 7 0 Q14432;Q13370-2;Q13370 Q14432 PDE3A;PDE3B "cGMP-inhibited 3,5-cyclic phosphodiesterase A;cGMP-inhibited 3,5-cyclic phosphodiesterase B" 0 0 100.74 0.014451 2427300 2118.9 2324.3 2130.3 2554 2537.6 2410.9 2314 2081.9 2345.4 2280.9 FALSE FALSE TRUE 2341.775624 2399.608845 2420.60619 2603.436363 2343.169636 2205.477757 2053.62263 2028.648013 2329.07817 2379.240761 0.984253322 1.008560749 1.017385978 1.094229893 0.984839229 0.926967036 0.863142 0.852645115 0.978916555 1 11.21628555 -5.018548622 2.282005575 1.003061173 0.855328671 0.795364046 0.031209708 0.110725245 1.120797493 0.004829995 0.017842401 9.58E-06 5.018548622 -0.147732501 DIQLAR ddPTM_HeLa_SAHA_4h_R1 2 DIQLAR 6 0 K7EK07;P84243;Q6NXT2;Q71DI3;P68431;Q16695 K7EK07 H3F3B;H3F3A;H3F3C;HIST2H3A;HIST1H3A;HIST3H3 Histone H3;Histone H3.3;Histone H3.3C;Histone H3.2;Histone H3.1;Histone H3.1t 0 0 ; ; 128.82 0.007544 53928000 4225.7 9024.2 5901.1 4598.9 7926.5 8473.1 7389.8 8557.8 6739.5 5632.6 FALSE FALSE TRUE 4670.178514 9316.590001 6705.271176 4687.91836 7319.173282 7751.144212 6558.280255 8338.903868 6692.599271 5875.448951 0.794863261 1.58568138 1.141235543 0.797882579 1.245721534 1.319242883 1.116217724 1.419279435 1.139078788 1 12.52048338 -7.306773822 24.99953071 0.903129855 1.211388269 0.201945062 0.213978714 366.8930304 202321.0865 0.03502442 0.040052036 4.93E-08 7.306773822 0.308258414 DIQMPDGIRR ddPTM_HeLa_SAHA_4h_R1 2 DIQMPDGIRR 10 1 Q14204;A0A2R8Y706;A0A2R8Y5T0;A0A2R8Y542;A0A2R8Y6I5 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 ; ; 117.31 0.0039784 8034700 3006.2 2548.04 3135.6 3338.6 3639.2 3754.3 3337 3356.8 2830.23 3743.9 FALSE FALSE TRUE 3322.405909 2630.598168 3562.903238 3403.223431 3360.365282 3434.412519 2961.511977 3270.937917 2810.534199 3905.317851 0.850738925 0.673593871 0.912320936 0.871433148 0.860458844 0.879419461 0.758328026 0.837559974 0.71966849 1 11.93122426 -8.829211171 0.825554848 0.995237719 0.8311447 0 0.107428185 0.388102855 0.511537538 0.035764111 0.013600317 1.48E-09 8.829211171 -0.164093019 DIS(ph)LDSELHDLR ddPTM_HeLa_SAHA_4h_R1 2 DISLDSELHDLR 12 0 H0YJ97;Q15643-2;Q15643 H0YJ97 TRIP11 Thyroid receptor-interacting protein 11 1 0 DIS(1)LDSELHDLR;DIS(1)LDSELHDLR ; 127.03 0.00093603 7365100 2596.07 3032.9 2319.3 2681.4 3287.3 4411.9 3065.9 3127.4 3362.7 3156.5 TRUE FALSE FALSE 2869.136554 3131.16795 2635.362126 2733.302374 3035.427784 4035.981299 2720.916863 3047.405636 3339.298697 3292.592163 0.871391418 0.950973517 0.800391301 0.830136938 0.921896073 1.225776258 0.826375308 0.925533891 1.014185339 1 11.68500811 -5.469461755 24.99991622 0.918658528 0.992258569 0.093615493 0.112846535 678.0526384 317337.2423 0.016169488 0.036155794 3.39E-06 5.469461755 0.073600041 DIS(ph)LSDYK ddPTM_HeLa_SAHA_4h_R1 1 DISLSDYK 8 0 Q06830;A0A0A0MSI0 Q06830 PRDX1 Peroxiredoxin-1 1 0 DIS(0.669)LS(0.33)DY(0.001)K 112.36 0.0056476 6456500 1857.7 2068.2 1463.9 1917.3 2236.7 2777.8 2122.6 1827.7 2805.3 2020.1 TRUE FALSE FALSE 2053.101409 2135.211037 1663.392668 1954.412114 2065.324529 2541.115813 1883.759462 1780.95008 2785.777689 2107.196397 0.974328455 1.013294746 0.789386633 0.927494047 0.98012911 1.205922626 0.893964827 0.845175173 1.322030397 1 11.04110907 DISEASVFDAYVLPK ddPTM_HeLa_SAHA_4h_R1 1 DISEASVFDAYVLPK 15 0 P62854 P62854 RPS26 40S ribosomal protein S26 0 0 202.05 1.06E-11 27747000 1123.6 946.85 919.1 1117.9 995.07 1029.7 996.92 1095.2 1244.7 923.52 FALSE FALSE TRUE 1241.785403 977.5285613 1044.350162 1139.538571 918.8279516 941.9637671 884.7439379 1067.18637 1236.038031 963.3374668 1.289045061 1.014731177 1.084095862 1.182906936 0.953796549 0.977812864 0.918415372 1.107801167 1.283078956 1 9.911897467 -5.755344409 24.99999999 1.128059169 0.983550417 0.343162246 0.102337719 161.9582921 664304.7218 0.017408386 0.034120854 1.76E-06 5.755344409 -0.144508752 DISEGGES(ph)PVVQS(ph)DEEEVQVDTALATSHTDR ddPTM_HeLa_SAHA_4h_R1 1 DISEGGESPVVQSDEEEVQVDTALATSHTDR 31 0 D6RJC6;A0A087WYP9;A6NFV8;Q96EV8-3;Q96EV8 D6RJC6 DTNBP1 Dysbindin 2 0 DIS(0.006)EGGES(0.994)PVVQS(1)DEEEVQVDTALATSHTDR 86.144 2.73E-06 5467300 212.29 311.99 287.23 200.09 231.49 399.97 297.02 269.63 540.25 264.29 TRUE FALSE FALSE 234.6196362 322.0986807 326.3722086 203.9630313 213.7532862 365.8903058 263.5985279 262.733255 536.4903563 275.6848353 0.851042953 1.168358355 1.183859853 0.739841316 0.775353806 1.327205051 0.956158969 0.953020338 1.94602781 1 8.1068761 -5.295570541 24.98784976 0.94255911 1.066531703 0 0.359152505 1104.022167 808267.1552 0.024689131 0.055209335 5.06E-06 5.295570541 0.123972593 DISEGGESPVVQS(ph)DEEEVQVDTALATSHTDR ddPTM_HeLa_SAHA_4h_R1 2 DISEGGESPVVQSDEEEVQVDTALATSHTDR 31 0 D6RJC6;A0A087WYP9;A6NFV8;Q96EV8-3;Q96EV8 D6RJC6 DTNBP1 Dysbindin 1 0 DISEGGES(0.001)PVVQS(0.999)DEEEVQVDTALATSHTDR;DISEGGESPVVQS(1)DEEEVQVDTALATSHTDR ; 135.41 3.88E-14 19786200 1206.5 1629.48 1155.15 1414.95 1747.97 1581.05 2082.82 1572.46 1937.3 1427.44 TRUE FALSE FALSE 1333.405206 1682.276221 1312.567826 1442.338403 1614.040916 1446.335645 1848.455612 1532.23875 1923.818172 1488.983924 0.8955135 1.129814899 0.881519139 0.968672918 1.083988141 0.971357462 1.241420798 1.029049895 1.292034212 1 10.54011246 -5.334826355 1.186879958 0.959516232 1.12307868 0 0.138994235 0.467594817 1.186259542 0.013702515 0.057690858 4.63E-06 5.334826355 0.163562448 NVMILTNPVAAK(ac)K ddPTM_HeLa_SAHA_4h_R1 4 NVMILTNPVAAKK 13 1 F8W7T0;Q9UGI8-2;Q9UGI8 F8W7T0 TES Testin 0 1 ;;; NVMILTNPVAAK(1)K;NVMILTNPVAAK(1)K;NVMILTNPVAAK(1)K;NVMILTNPVAAK(1)K 186.58 1.25E-16 10148000 3309.67 4433.96 4834.78 6488.1 8076.4 8506.3 8850 8079.5 3075.11 3080.1 FALSE TRUE FALSE 3657.796276 4577.623213 5493.63864 6613.686557 7457.587977 7781.515385 7854.174708 7872.838089 3053.710059 3212.898185 1.138472515 1.424764481 1.709870131 2.05847997 2.321140462 2.4219614 2.444576285 2.450385178 0.950453417 1 11.64965955 -6.465223689 0.871509331 1.03801578 2.477769594 0.99592477 0.037827972 0.019960846 0.030231343 0.006689707 0.013068445 3.43E-07 6.465223689 1.439753814 up DISGPS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 4 DISGPSPSK 9 0 S4R3D6;Q96GX9-3;Q96GX9 S4R3D6 APIP Methylthioribulose-1-phosphate dehydratase 1 0 DIS(0.002)GPS(0.581)PS(0.418)K;DIS(0.001)GPS(0.706)PS(0.293)K;DIS(0.002)GPS(0.888)PS(0.109)K;DIS(0.001)GPS(0.95)PS(0.049)K ;;; 124.39 0.0029464 353120000 16649.8 18703.6 15721 18082.5 18839.3 22673.1 19493.1 17068.5 25053.6 18419.5 TRUE FALSE FALSE 18401.10236 19309.60891 17863.37601 18432.51294 17395.8369 20741.22432 17299.68508 16631.91248 24879.24996 19213.65479 0.957709637 1.004994059 0.92972296 0.959344442 0.905389271 1.079504371 0.900384923 0.865629817 1.294873372 1 14.22984435 DISGPS(ph)PSKK ddPTM_HeLa_SAHA_4h_R1 1 DISGPSPSKK 10 1 S4R3D6;Q96GX9-3;Q96GX9 S4R3D6 APIP Methylthioribulose-1-phosphate dehydratase 1 0 DIS(0.021)GPS(0.795)PS(0.184)KK 124.21 0.006386 55027000 2502.6 2677.8 1891.3 2269.5 2668.6 2814.2 2543.9 2202.3 3121.8 2192.1 TRUE FALSE FALSE 2765.83495 2764.562477 2149.036515 2313.429454 2464.132445 2574.414328 2257.653677 2145.968355 3100.07514 2286.612159 1.209577645 1.209021157 0.93983429 1.01172796 1.077634629 1.125864007 0.987335639 0.938492497 1.355750308 1 11.15899597 -6.75412047 24.9991413 1.109986528 1.02023771 0.29086671 0.109989286 247.7280788 846158.9989 0.016147461 0.022577306 1.76E-07 6.75412047 -0.089748817 DISLS(ph)DYK ddPTM_HeLa_SAHA_4h_R1 1 DISLSDYK 8 0 Q06830;A0A0A0MSI0 Q06830 PRDX1 Peroxiredoxin-1 1 0 DIS(0.006)LS(0.994)DYK 115.7 0.0045238 4297500 2610.2 2530.2 2357 2744.6 2647.8 3259.3 2580.5 2696.8 3212.8 2360 TRUE FALSE FALSE 2884.752812 2612.18014 2678.199685 2797.725702 2444.926136 2981.589304 2290.135348 2627.819761 3190.441863 2461.75115 1.171829579 1.061106498 1.087924621 1.13647787 0.993165429 1.211166004 0.930287104 1.067459545 1.296005026 1 11.26546922 -4.735044928 24.99999364 1.086448765 0.998873429 0.131925936 0.097718367 312.6511252 296128.4843 0.010936965 0.040895493 1.84E-05 4.735044928 -0.087575336 DISLSDYK ddPTM_HeLa_SAHA_4h_R1 2 DISLSDYK 8 0 Q06830;A0A0A0MSI0 Q06830 PRDX1 Peroxiredoxin-1 0 0 ; ; 128.69 0.0011491 11840100 15554.5 16518.4 18225.2 17699.4 17360.2 12403.2 20263.8 8629.9 8981.2 12601.9 FALSE FALSE TRUE 17190.59368 17053.607 20708.83534 18041.99748 16030.06523 11346.37758 17983.66389 8409.159654 8918.699098 13145.22958 1.307743891 1.297322872 1.575387879 1.372512923 1.219458749 0.863155528 1.368075299 0.63971189 0.678474198 1 13.68225172 -4.250405984 24.51550918 1.199249461 0.639711462 0.293404726 0.254099733 1039.965788 2310680.988 0.030030316 0.588645289 5.62E-05 4.250405984 -0.559538 DISMEIDS(ph)PENMMR ddPTM_HeLa_SAHA_4h_R1 3 DISMEIDSPENMMR 14 0 Q16204 Q16204 CCDC6 Coiled-coil domain-containing protein 6 1 0 DISMEIDS(1)PENMMR;DISMEIDS(1)PENMMR;DISMEIDS(1)PENMMR ;; 283.66 5.46E-69 9034700 2453.99 2710.33 2380.6 2870.03 3169.19 3141.69 3006.15 2797.03 3200.36 2523.05 TRUE FALSE FALSE 2712.111928 2798.14647 2705.01577 2925.583581 2926.367347 2874.000337 2667.89009 2725.486023 3178.088434 2631.831033 1.030503818 1.063193813 1.027807536 1.111615276 1.111913079 1.092015521 1.013701129 1.035585487 1.20755793 1 11.36185115 -7.533396046 0.896650148 1.007415728 1.069426692 0 0.07075984 0.400518971 0.666176345 0.008579885 0.008758469 2.93E-08 7.533396046 0.062010964 DISTNYYASQK ddPTM_HeLa_SAHA_4h_R1 2 DISTNYYASQK 11 0 P14625;H0YIV0 P14625 HSP90B1 Endoplasmin 0 0 ; ; 206.97 9.03E-10 11786100 2009.01 2205.79 1539.5 1957.93 1903.71 1888.75 2348.71 1764.22 1985.93 1884 FALSE FALSE TRUE 2220.326889 2277.259043 1749.295043 1995.828566 1757.848151 1727.817874 2084.426969 1719.093807 1972.109751 1965.22846 1.129805992 1.15877573 0.890122995 1.015570763 0.894475216 0.879194409 1.060653767 0.874755196 1.003501522 1 10.94048132 -6.750963847 24.98350991 1.070320879 0.940645961 0.456563813 0.073205481 160.7947445 383484.4927 0.012220479 0.017175477 1.77E-07 6.750963847 -0.129674918 DITDPLSLNTCTDEGHVVLAS(ph)PLK ddPTM_HeLa_SAHA_4h_R1 2 DITDPLSLNTCTDEGHVVLASPLK 24 0 Q7L2J0 Q7L2J0 MEPCE 7SK snRNA methylphosphate capping enzyme 1 0 DITDPLSLNTCTDEGHVVLAS(1)PLK;DITDPLSLNTCTDEGHVVLAS(1)PLK ; 176.28 2.26E-11 236870000 11532.8 12969.5 9377.5 12214 12427.3 14475.2 12696.6 12204 17269.1 13752 TRUE FALSE FALSE 12745.87282 13389.72031 10655.41686 12450.41963 11475.12296 13241.83152 11267.94515 11891.83935 17148.92293 14344.91602 0.888528926 0.933412248 0.742800923 0.867932556 0.799943544 0.923102757 0.785500949 0.828993306 1.19547043 1 13.8082519 -8.365755474 0.412771537 1.01579767 0.823956158 0.544842517 0.083414548 0.6558559 0.242699485 0.053293884 0.021407032 4.31E-09 8.365755474 -0.191841512 DITQDNS(ph)ELK ddPTM_HeLa_SAHA_4h_R1 2 DITQDNSELK 10 0 Q6NXT6-2;Q6NXT6 Q6NXT6-2 TAPT1 Transmembrane anterior posterior transformation protein 1 homolog 1 0 DIT(0.001)QDNS(0.999)ELK;DIT(0.001)QDNS(0.999)ELK ; 97.798 0.0056529 13437000 1686.74 1814.87 1961.35 1759.08 2132.36 1521.71 2219.17 1416.46 1252.43 1497.34 TRUE FALSE FALSE 1864.159052 1873.672979 2228.632564 1793.129537 1968.979037 1392.051747 1969.463151 1380.229004 1243.714238 1561.897655 1.193521897 1.199613158 1.426874902 1.148045476 1.260632559 0.891256698 1.260942511 0.883687225 0.79628408 1 10.60908421 -3.106148397 12.13930342 1.123186131 0.595370256 0 0.193569669 0 0 0.02156162 0 0.000783162 3.106148397 -0.527815875 DITSDTSGDFR ddPTM_HeLa_SAHA_4h_R1 6 DITSDTSGDFR 11 0 P04083;Q5T3N1 P04083 ANXA1 Annexin A1;Annexin 0 0 ;;;;; ;;;;; 192.64 5.16E-07 164311000 12482.6 12933.61 11344.17 13038.8 13291.5 14490 13811.3 14782.5 14132.9 13137.8 FALSE FALSE TRUE 13795.57714 13352.66745 12890.09441 13291.18483 12273.10814 13255.37048 12257.21617 14404.38505 14034.548 13704.23485 1.00666526 0.974346076 0.940592054 0.96985968 0.895570477 0.967246302 0.894410838 1.051090062 1.024102998 1 13.74233416 -7.034957897 3.163085873 1.003104725 0.949302785 0.262323457 0.041931361 0.231865079 4.702388088 0.006228043 0.007960148 9.23E-08 7.034957897 -0.05380194 DITTS(ph)ADQIAEVK ddPTM_HeLa_SAHA_4h_R1 1 DITTSADQIAEVK 13 0 F5H527;Q76I76;A0A3B3IS79 F5H527 SSH2 Protein phosphatase Slingshot homolog 2 1 0 DITT(0.009)S(0.991)ADQIAEVK 180.95 6.05E-06 5508900 1861.1 2096.9 1707.3 2139.5 2312.9 2534.7 2248.8 2239.8 3204.7 2294 TRUE FALSE FALSE 2056.859037 2164.840936 1939.961953 2180.913116 2135.686102 2318.7293 1995.759105 2182.509159 3182.398232 2392.905567 0.859565486 0.904691337 0.810713962 0.911407933 0.892507474 0.969001591 0.834031703 0.912074923 1.329930556 1 11.22454775 -9.332275714 0.980699015 1.00214522 0.885136305 0.335494683 0.114107513 0.359306981 0.600635291 0.030257914 0.007411825 4.65E-10 9.332275714 -0.117008915 DIVEAHYR ddPTM_HeLa_SAHA_4h_R1 1 DIVEAHYR 8 0 A0A2R8YDT1;P15104 A0A2R8YDT1 GLUL Glutamine synthetase 0 0 152.63 0.00020133 1665000 1932.9 1990.9 2135.3 2082.7 2500.7 1563.3 2514.4 1162.8 1466.9 1578.8 FALSE FALSE TRUE 2136.21129 2055.406466 2426.287564 2123.01367 2309.096906 1430.098045 2231.473094 1133.05726 1456.691723 1646.869794 1.297134295 1.248068592 1.473272248 1.289120535 1.40211261 0.868373474 1.354978458 0.688006583 0.884521489 1 10.68551078 -5.25080935 24.9859269 1.203780784 1.008905415 0.201977452 0.227126685 1118.690411 2629479.369 0.030832983 0.077695333 5.61E-06 5.25080935 -0.194875369 DIYLS(ph)PDR ddPTM_HeLa_SAHA_4h_R1 2 DIYLSPDR 8 0 Q15696 Q15696 ZRSR2 U2 small nuclear ribonucleoprotein auxiliary factor 35 kDa subunit-related protein 2 1 0 DIYLS(1)PDR;DIYLS(1)PDR ; 103.26 0.0088302 23747000 3254.9 4468.6 2841.3 3995.5 4159 4189 3431.6 3160 5700.2 3460.7 TRUE FALSE FALSE 3597.265316 4613.385572 3228.497567 4072.83868 3840.338319 3832.073633 3045.467337 3079.171776 5660.531844 3609.907713 0.996497861 1.277978812 0.894343519 1.128239003 1.063832824 1.061543379 0.843641328 0.852977976 1.568054447 1 11.81774624 -4.755851989 24.99398197 1.028199436 0.848309562 0.11123571 0.196464716 106.3186993 475578.2456 0.012951485 0.045850519 1.75E-05 4.755851989 -0.179889874 DK(ac)GEYTLVVK ddPTM_HeLa_SAHA_4h_R1 2 DKGEYTLVVK 10 1 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 1 ; DK(1)GEYTLVVK;DK(1)GEYTLVVK 133.42 0.00065804 11185200 1670.23 5903.9 2105.53 3099.1 4379.7 5779.3 4887.4 4967.4 5430.4 2116.4 FALSE TRUE FALSE 1845.912455 6095.190234 2392.460663 3159.087562 4044.128332 5286.871127 4337.456889 4840.341101 5392.609404 2207.648361 0.836144237 2.760942522 1.083714556 1.43097407 1.831871598 2.394797658 1.964740837 2.192532645 2.442693999 1 11.10829468 -6.673484682 0.527810153 0.881528663 2.183463505 0 0.703095031 0.58429408 0.343934542 0.155036182 0.302965416 2.12E-07 6.673484682 1.301934842 DK(ac)HIEEVR ddPTM_HeLa_SAHA_4h_R1 1 DKHIEEVR 8 1 P16949 P16949 STMN1 Stathmin 0 1 DK(1)HIEEVR 71.349 0.015568 0 333.16 271.29 305.53 343.13 360.71 178.67 329.43 197.64 276.71 239.82 FALSE TRUE FALSE 368.2032974 280.079974 347.1660373 349.7717773 333.0724777 163.4463108 292.3616694 192.584655 274.7843526 250.1598139 1.471872287 1.119604183 1.387777005 1.398193307 1.331438781 0.653367575 1.16869958 0.769846491 1.09843523 1 7.966706241 -5.278597753 24.67920309 1.252121458 0.894444033 0.481665838 0.186527526 541.7743664 779243.4335 0.031058298 0.069613433 5.27E-06 5.278597753 -0.357677426 DK(ac)KAEGAATEEEGTPK ddPTM_HeLa_SAHA_4h_R1 1 DKKAEGAATEEEGTPK 16 2 P80723;P80723-2;U3KQP0 P80723 BASP1 Brain acid soluble protein 1 0 1 DK(0.77)K(0.23)AEGAATEEEGTPK 169.15 7.46E-12 1631900 249.45 455.27 300.29 279.29 472.34 577.74 659.47 678.45 296.07 132.82 FALSE TRUE FALSE 275.6882955 470.0210467 341.2119574 284.6960618 436.1494112 528.5133017 585.2647 661.0962314 294.0096248 138.5465202 1.989860843 3.392514269 2.462797022 2.054877029 3.148035841 3.814699214 4.224319016 4.771655256 2.122100391 1 7.114226666 -1 0.145255993 0.478909904 16.03075986 0.752076853 0.553261629 17.7312959 0.168276066 1.141229413 57.93571273 0.1 1 15.55184996 DK(ac)LNNLVLFDK ddPTM_HeLa_SAHA_4h_R1 1 DKLNNLVLFDK 11 1 P62851 P62851 RPS25 40S ribosomal protein S25 0 1 DK(1)LNNLVLFDK 104.17 0.0090419 280190 0 370.67 181.29 207.51 319.48 216.48 318.42 172.34 181.08 0 FALSE TRUE FALSE 0 382.6799512 205.9952571 211.5266561 295.0015114 198.0346861 282.5905436 167.9317923 179.8198495 0 0 DK(ac)LSGEYEK ddPTM_HeLa_SAHA_4h_R1 1 DKLSGEYEK 9 1 A0A087WYC1;P34932 A0A087WYC1 HSPA4 Heat shock 70 kDa protein 4 0 1 DK(1)LSGEYEK 96.015 0.013702 1568200 609.14 1440 615.15 653.42 1301.9 1127.4 1426.9 1183.3 1144.6 570.19 FALSE TRUE FALSE 673.21214 1486.656945 698.9794384 666.067889 1202.148703 1031.339177 1266.341457 1153.032899 1136.634635 594.7736813 1.131879505 2.499533842 1.175202367 1.119867791 2.021186782 1.734002714 2.129114815 1.938607803 1.911037208 1 9.216197 -6.143236439 0.245837717 0.845252718 2.382832394 0 0.511173795 2.70658326 0.333980313 0.473784084 1.375706652 7.19E-07 6.143236439 1.537579676 DK(ac)TVVAYNWK(ac)TGNVVK ddPTM_HeLa_SAHA_4h_R1 1 DKTVVAYNWKTGNVVK 16 2 Q8NA23-2;Q8NA23 Q8NA23-2 WDR31 WD repeat-containing protein 31 0 2 DK(1)TVVAYNWK(1)TGNVVK 117.09 0.01877 2848100 0 126.67 431.58 550.53 3698.1 4557.4 2793.7 3203.2 366.56 0 FALSE TRUE FALSE 0 130.7741911 490.3934748 561.1863042 3414.752377 4169.083881 2479.345523 3121.266782 364.0090791 0 0 DKALQLSNS(ph)PGASSAFLK ddPTM_HeLa_SAHA_4h_R1 1 DKALQLSNSPGASSAFLK 18 1 Q12802-2;Q12802;Q12802-4;H0YMW2 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 DKALQLS(0.001)NS(0.998)PGAS(0.001)S(0.001)AFLK 96.128 0.0014574 4551400 1317.4 1061.2 1097 1242.5 1292.8 1354.6 1417.2 1305.2 935.68 1315.5 TRUE FALSE FALSE 1455.970176 1095.583576 1246.493447 1266.550384 1193.745943 1239.180459 1257.732926 1271.814874 929.1685267 1372.217643 1.061034439 0.798403651 0.908378823 0.922995263 0.869939218 0.903049502 0.916569564 0.926831746 0.677129121 1 10.42229361 -7.27945823 24.99955818 1.028821821 0.894593676 0 0.117476335 313.0528891 434332.1484 0.006863988 0.007857561 5.25E-08 7.27945823 -0.134228145 DKAPVQPQQS(ph)PAAAPGGTDEKPSGK ddPTM_HeLa_SAHA_4h_R1 6 DKAPVQPQQSPAAAPGGTDEKPSGK 25 2 Q13200;F8WBS8;C9JPC0 Q13200 PSMD2 26S proteasome non-ATPase regulatory subunit 2 1 0 DKAPVQPQQS(1)PAAAPGGTDEKPSGK;DKAPVQPQQS(0.996)PAAAPGGT(0.002)DEKPS(0.001)GK;DKAPVQPQQS(1)PAAAPGGTDEKPSGK;DKAPVQPQQS(1)PAAAPGGTDEKPSGK;DKAPVQPQQS(1)PAAAPGGTDEKPSGK;DKAPVQPQQS(1)PAAAPGGTDEKPSGK ;;;;; 130.45 1.38E-09 114858400 17163.9 17183 15595.97 17808.3 18437.4 21653 18852.1 18990.7 20813.8 17054.22 TRUE FALSE FALSE 18969.27775 17739.74047 17721.30757 18153.0054 17024.7304 19808.04258 16730.81209 18504.94539 20668.95507 17789.51089 1.066318117 0.997202261 0.996166094 1.020433081 0.957009471 1.113467521 0.94048747 1.040216649 1.161861909 1 14.11873922 DKAS(ph)PEPEKDFSEK ddPTM_HeLa_SAHA_4h_R1 1 DKASPEPEKDFSEK 14 2 Q9ULU4-19;Q9ULU4-16;H7C4X9;A0A087WVZ6;Q9ULU4-22;Q9ULU4-7;Q9ULU4-11;Q9ULU4-10;Q9ULU4-13;Q9ULU4;Q9ULU4-20;Q9ULU4-5;Q9ULU4-9;Q9ULU4-14;Q9ULU4-12;Q9ULU4-4;Q9ULU4-21;Q9ULU4-23;Q9ULU4-6;Q9ULU4-3;Q9ULU4-18;Q9ULU4-15;Q9ULU4-2;A0A087WYS3;Q9ULU4-8;Q9ULU4-17;A0A087WV57 Q9ULU4-19 ZMYND8 Protein kinase C-binding protein 1 1 0 DKAS(0.909)PEPEKDFS(0.091)EK 75.91 0.015044 30811000 2659 2759.2 2292.3 3146.9 3664.5 3592.3 3373.9 3209 3514.6 3228.7 TRUE FALSE FALSE 2938.68582 2848.59989 2604.682706 3207.8128 3383.726802 3286.21583 2994.259892 3126.918427 3490.141612 3367.905058 0.872556016 0.845807658 0.77338365 0.952465329 1.0046978 0.975744795 0.889057097 0.928446133 1.036294537 1 11.71763575 -2.688807439 14.17736724 0.925874563 1.547069376 0 0.078079163 0 0 0.010713363 0 0.002047352 2.688807439 0.621194814 DKDDDGGEDDDANCNLICGDEYGPETR ddPTM_HeLa_SAHA_4h_R1 3 DKDDDGGEDDDANCNLICGDEYGPETR 27 1 Q08211 Q08211 DHX9 ATP-dependent RNA helicase A 0 0 ;; ;; 167.72 3.47E-11 49224000 2888.67 2905.84 2728.43 2536.12 3029.17 3505.64 3486.4 3168.13 3142.27 3447.2 FALSE FALSE TRUE 3192.513564 2999.991123 3100.246231 2585.21027 2797.075649 3206.93975 3094.101096 3087.093822 3120.402687 3595.825662 0.887838806 0.834298268 0.862179239 0.718947611 0.777867425 0.891850732 0.860470275 0.85852155 0.867784754 1 11.81210736 -8.203754186 0.676767901 0.990781067 0.825328339 0.238874602 0.060818352 0.312501412 0.314319588 0.02275812 0.013240341 6.26E-09 8.203754186 -0.165452729 DKDDQEWESPS(ph)PPKPTVFISGVIAR ddPTM_HeLa_SAHA_4h_R1 1 DKDDQEWESPSPPKPTVFISGVIAR 25 2 P51397 P51397 DAP Death-associated protein 1 1 0 DKDDQEWES(0.036)PS(0.862)PPKPT(0.047)VFIS(0.055)GVIAR 48.867 0.0089307 8717100 269.64 572.99 479.31 505.46 642.97 704.2 378.24 459.81 892.44 719.17 TRUE FALSE FALSE 298.0019724 591.555252 544.6278707 515.2439092 593.7057775 644.1981983 335.6794397 448.048726 886.2294374 750.1769382 0.397242247 0.788554302 0.725999218 0.686829844 0.791420993 0.858728342 0.447467021 0.597257398 1.181360546 1 9.551087102 -9.618989009 1.440987509 0.99929678 0.632787177 0.520236918 0.156022046 0.330815584 1.237279946 0.115498414 0.026687013 2.40E-10 9.618989009 -0.366509603 DKDSGSSS(ph)PLPK ddPTM_HeLa_SAHA_4h_R1 4 DKDSGSSSPLPK 12 1 Q86VQ1;H7C0B2 Q86VQ1 GLCCI1 Glucocorticoid-induced transcript 1 protein 1 0 DKDS(0.027)GS(0.019)S(0.036)S(0.919)PLPK;DKDS(0.064)GS(0.026)S(0.291)S(0.62)PLPK;DKDS(0.023)GS(0.013)S(0.172)S(0.792)PLPK;DKDS(0.329)GS(0.035)S(0.133)S(0.502)PLPK ;;; 133.98 0.0034238 46178400 17804.3 22617.3 17444.6 20261.1 22820 25481.4 20533.9 18329.9 29521.2 22070.3 TRUE FALSE FALSE 19677.03796 23350.11536 19821.85924 20653.28289 21071.53653 23310.24137 18223.37153 17861.0477 29315.75957 23021.85864 0.854711093 1.01425848 0.861001692 0.897116224 0.915283899 1.012526474 0.791568214 0.775829961 1.273388045 1 14.49071669 -13.27859908 0.015736247 2.043383308 1.17E-06 0.256676757 0.118987336 4747.791948 6.282371003 504.4453484 328.9396361 5.27E-14 13.27859908 -2.043382137 DKDVTLS(ph)PVK ddPTM_HeLa_SAHA_4h_R1 1 DKDVTLSPVK 10 1 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 DKDVTLS(1)PVK 78.615 0.0164 32203000 4419.6 6835.4 3695.2 5791.2 6774 5976.2 5733.6 4387.6 7142.3 4715.5 TRUE FALSE FALSE 4884.473806 7056.871445 4198.762612 5903.29705 6254.977583 5466.994139 5088.440238 4275.371545 7092.596153 4918.808282 0.993019757 1.434670969 0.853613797 1.200147823 1.271644924 1.111446884 1.034486393 0.86918849 1.441933848 1 12.26409311 DKEDPQEMPHS(ph)PLGSMPEIR ddPTM_HeLa_SAHA_4h_R1 2 DKEDPQEMPHSPLGSMPEIR 20 1 G5E9C0;Q9HB58-2;Q9HB58-5;Q9HB58-3;Q9HB58-7;Q9HB58;Q9HB58-6 G5E9C0 SP110 Sp110 nuclear body protein 1 0 DKEDPQEMPHS(0.969)PLGS(0.031)MPEIR;DKEDPQEMPHS(0.978)PLGS(0.022)MPEIR ; 89.201 0.00055166 8876200 6216.1 6493.8 4920.3 8068 9116.2 9818.5 8407.1 8584.9 11044.3 7748.9 TRUE FALSE FALSE 6869.937918 6704.203381 5590.81286 8224.167807 8417.718725 8981.908563 7461.110982 8365.310689 10967.44182 8082.993001 0.849925011 0.829420906 0.691676073 1.01746566 1.041411111 1.111210731 0.923062903 1.03492737 1.356854053 1 12.98067388 -6.044435189 24.99987392 0.900010947 1.026561949 0.019469442 0.169636775 468.878818 263797.1811 0.01576092 0.026137534 9.03E-07 6.044435189 0.126551003 DKEIS(ph)PSVTK ddPTM_HeLa_SAHA_4h_R1 1 DKEISPSVTK 10 1 Q8N488 Q8N488 RYBP RING1 and YY1-binding protein 1 0 DKEIS(0.925)PS(0.075)VTK 112.44 0.021832 11189000 1459.5 2206.3 1541 2234.1 2214.9 2270.7 2268.1 1747.3 2740.1 1846.7 TRUE FALSE FALSE 1613.016906 2277.785568 1750.999455 2277.344236 2045.194841 2077.223585 2012.887419 1702.606596 2721.031421 1926.320275 0.837356554 1.182454236 0.908986672 1.18222513 1.061710697 1.078337602 1.044939123 0.883864754 1.412554006 1 10.91163187 -7.27481536 24.92642386 0.923196153 1.050144384 0 0.183362963 780.2060967 1453927.909 0.017429926 0.019992863 5.31E-08 7.27481536 0.126948231 DKEISPS(ph)VTK ddPTM_HeLa_SAHA_4h_R1 1 DKEISPSVTK 10 1 Q8N488 Q8N488 RYBP RING1 and YY1-binding protein 1 0 DKEIS(0.015)PS(0.905)VT(0.08)K 119.21 0.014144 13161000 1636.8 1871.3 1375.3 1384.5 2027.6 2030 1575.8 1377.1 2198.3 1822.7 TRUE FALSE FALSE 1808.966134 1931.931348 1562.718722 1411.299 1872.245726 1857.03258 1398.486837 1341.875776 2183.001851 1901.285517 0.951443704 1.016118479 0.821927432 0.742286725 0.984726234 0.976724728 0.735548041 0.705772891 1.148171504 1 10.89275948 -2.086047818 0.243626122 0.99761267 1.31E-13 0.470819883 0.10180043 20.56565394 0.405663067 0.056327764 7.550529821 0.008202612 2.086047818 -0.99761267 DKENGNNS(ph)PLPK ddPTM_HeLa_SAHA_4h_R1 2 DKENGNNSPLPK 12 1 Q6P1L5 Q6P1L5 FAM117B Protein FAM117B 1 0 DKENGNNS(1)PLPK;DKENGNNS(1)PLPK ; 121.18 0.0065785 10354300 2253.87 2185 2048.65 1973.64 1787.42 2247.2 2154 1923.89 2376.8 2075.05 TRUE FALSE FALSE 2490.942388 2255.795434 2327.829353 2011.842656 1650.468266 2055.725918 1911.626251 1874.67968 2360.259655 2164.515561 1.150808261 1.04217104 1.075450505 0.929465555 0.76251162 0.949739496 0.883165862 0.866096652 1.090433212 1 11.07982846 -6.158187637 3.831111289 1.070820628 0.870266399 0.753876675 0.056044166 0.110403557 2.936193236 0.010464541 0.017800034 6.95E-07 6.158187637 -0.200554229 DKEVS(ph)DDEAEEK ddPTM_HeLa_SAHA_4h_R1 4 DKEVSDDEAEEK 12 1 P07900;P07900-2;G3V2J8 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 1 0 DKEVS(1)DDEAEEK;DKEVS(1)DDEAEEK;DKEVS(1)DDEAEEK;DKEVS(1)DDEAEEK ;;; 153.23 0.0013016 97302000 6179.76 8348.11 6187.74 7245.87 7656.85 9472.37 7137.43 6545.53 11512.4 7740.48 TRUE FALSE FALSE 6829.775511 8618.594241 7030.972983 7386.124292 7070.183807 8665.270786 6334.307592 6378.10482 11432.28427 8074.209974 0.84587539 1.067422605 0.870793924 0.914779813 0.875650228 1.073203547 0.78451113 0.789935466 1.415901284 1 12.97910539 -13.23846035 0.013248201 2.014981066 6.09E-07 0.116722012 0.169042731 9964.231391 11.18203185 1015.922108 710.4458769 5.77E-14 13.23846035 -2.014980457 DKFQETSDEFEAAR ddPTM_HeLa_SAHA_4h_R1 1 DKFQETSDEFEAAR 14 1 Q14683;G8JLG1;V9GY57 Q14683 SMC1A Structural maintenance of chromosomes protein 1A;Structural maintenance of chromosomes protein 0 0 135.02 0.00053841 4393600 513.84 441.86 290 497.91 567.57 652.89 589.64 798.81 506.96 474.38 FALSE FALSE TRUE 567.8880488 456.1765539 329.5196897 507.547768 524.0829092 597.2600989 523.2921554 778.3775969 503.4320241 494.8328434 1.147636129 0.921880106 0.665921218 1.025695394 1.059111003 1.206993648 1.057512981 1.573011184 1.017377951 1 8.950797449 -1.654120444 1.095454627 1.029358815 199.9999999 0.595717951 0.138266545 365.9751108 1.524853963 0.022763346 181627.1715 0.022175813 1.654120444 198.9706411 DKGEYTLVVK ddPTM_HeLa_SAHA_4h_R1 2 DKGEYTLVVK 10 1 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 129.89 0.00050569 9322700 1785.06 2465.5 2141.89 2343.67 2214.1 2419.07 2194.04 2036.68 1824.04 2808.3 FALSE FALSE TRUE 1972.820801 2545.383818 2433.775615 2389.035122 2044.456136 2212.951627 1947.160845 1984.584675 1811.346357 2929.379556 0.673460288 0.868915676 0.830816071 0.815543044 0.697914387 0.75543356 0.664700769 0.677476113 0.618337884 1 11.51637942 -9.432207489 0.947574977 1.013929494 0.745576809 0 0.136164403 0.337911629 0.495225791 0.066949772 0.013644042 3.70E-10 9.432207489 -0.268352685 DKLESEMEDAYHEHQANLLR ddPTM_HeLa_SAHA_4h_R1 4 DKLESEMEDAYHEHQANLLR 20 1 P23246;P23246-2;H0Y9K7 P23246 SFPQ "Splicing factor, proline- and glutamine-rich" 0 0 ;;; ;;; 156.17 2.40E-06 40663300 12284 11063.8 11210.6 13297.7 12819.7 4447.49 13310.4 10028.3 13893.9 12936.4 FALSE FALSE TRUE 13576.08748 11422.27438 12738.32219 13555.09621 11837.45736 4068.538831 11812.67876 9771.790607 13797.21122 13494.15151 1.006071961 0.846461103 0.943988377 1.004516379 0.877228727 0.301503865 0.87539248 0.724150058 1.022458597 1 13.72004665 -5.509119559 24.52679175 0.983327768 0.646438669 0.529751767 0.141596059 270.2865513 481805.4558 0.018969511 0.040808803 3.10E-06 5.509119559 -0.336889099 DKLPDSGDS(ph)MLR ddPTM_HeLa_SAHA_4h_R1 1 DKLPDSGDSMLR 12 1 K7ELX0;Q8TEP8;H0Y966;A0A0A0MR42;K7ENP4;Q8TEP8-2;Q8TEP8-1 K7ELX0 CEP192 Centrosomal protein of 192 kDa 1 0 DKLPDS(0.012)GDS(0.988)MLR 87.149 0.0074638 0 145.02 211.39 206.84 185.08 156.77 295.57 157.78 136.76 229.21 186.67 TRUE FALSE FALSE 160.273869 218.2391747 235.027078 188.662491 144.7583165 270.3857732 140.0261791 133.2618772 227.6149089 194.7182572 0.82310653 1.120794618 1.207010998 0.968899854 0.743424466 1.388600006 0.719121982 0.684383063 1.168944875 1 7.605244351 -4.562199831 24.99993665 0.96982692 0.693063552 0.279463612 0.191791022 133.999089 85194.95411 0.025132196 0.094036367 2.74E-05 4.562199831 -0.276763368 DKPASSMS(ph)DDEMPVLEIPR ddPTM_HeLa_SAHA_4h_R1 1 DKPASSMSDDEMPVLEIPR 19 1 Q96PN7 Q96PN7 TRERF1 Transcriptional-regulating factor 1 1 0 DKPAS(0.099)S(0.251)MS(0.65)DDEMPVLEIPR 59.07 0.014154 2125000 361.33 424.92 352.55 302.23 420.49 543.46 308.67 443.2 512.36 369.39 TRUE FALSE FALSE 399.3363472 438.6876868 400.593678 308.0800987 388.272147 497.1541506 273.9376392 431.8635857 508.794445 385.3162107 1.036386054 1.138513446 1.039649168 0.799551356 1.007671456 1.290249766 0.71094242 1.120803054 1.320459485 1 8.589899073 DKPLKDVIIADCGK ddPTM_HeLa_SAHA_4h_R1 2 DKPLKDVIIADCGK 14 2 P23284 P23284 PPIB Peptidyl-prolyl cis-trans isomerase B 0 0 ; ; 85.536 0.0099327 2958300 2786.6 2648.9 2350.7 2580.2 2889.7 3500.6 3085.8 3104.9 2653.7 3090.9 FALSE FALSE TRUE 3079.707373 2734.726098 2671.041154 2630.143502 2668.29181 3202.329186 2738.577663 3025.481154 2635.232686 3224.163825 0.955195685 0.848197004 0.828444613 0.815759882 0.827591883 0.993227813 0.849391598 0.938376992 0.817338333 1 11.65470934 -7.421172023 3.284605508 0.981598088 0.870020884 0 0.074061313 0.162183566 3.190151589 0.009705356 0.010895144 3.79E-08 7.421172023 -0.111577204 DKPTYDEIFYT(ph)LSPVNGK ddPTM_HeLa_SAHA_4h_R1 1 DKPTYDEIFYTLSPVNGK 18 1 Q9H4M9;A0A024R571 Q9H4M9 EHD1 EH domain-containing protein 1 1 0 DKPTYDEIFY(0.002)T(0.827)LS(0.171)PVNGK 97.974 0.0024705 128650000 3146.6 2914 3331 2915.2 3414.1 3831.2 3727.4 2887.3 3132.1 3090.4 TRUE FALSE FALSE 3477.573825 3008.415512 3784.931333 2971.627911 3152.512396 3504.760206 3307.983142 2813.447047 3110.303461 3223.642268 1.07877163 0.933234913 1.174116424 0.921823101 0.977934936 1.087205066 1.026163224 0.872754113 0.964841382 1 11.65447594 DKPVPLPAPEMTVK(ac)QER ddPTM_HeLa_SAHA_4h_R1 2 DKPVPLPAPEMTVKQER 17 2 Q9H0E9-4;Q9H0E9-2;H7C179;B5MCW3;H7C127;Q9H0E9;H7C128;H0YAH7;Q9H0E9-3 Q9H0E9-4;Q9H0E9-3 BRD8 Bromodomain-containing protein 8 0 1 ; DKPVPLPAPEMTVK(1)QER;DKPVPLPAPEMTVK(1)QER 144.5 1.97E-06 8118100 2617.33 2838 2107.33 2746.36 2882.1 3094.2 2903.09 3494.7 3342.5 2662.52 FALSE TRUE FALSE 2892.632778 2929.953062 2394.505958 2799.519769 2661.274121 2830.556753 2576.426673 3405.310634 3319.23927 2777.314267 1.041521592 1.054959137 0.862166009 1.007995315 0.958218575 1.019170494 0.927668396 1.226116423 1.195125561 1 11.43947472 -4.249221371 24.66688398 1.002340533 1.226116589 0.383014779 0.083043495 888.5838254 1793919.929 0.007745701 0.177729161 5.63E-05 4.249221371 0.223776056 DKS(ph)DSDTEGLLFSR ddPTM_HeLa_SAHA_4h_R1 1 DKSDSDTEGLLFSR 14 1 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 DKS(0.725)DS(0.269)DT(0.006)EGLLFSR 73.597 0.014536 10989000 1397 2216.9 1312.5 1489.1 1814.7 1545.1 1705.2 1330.1 2696.8 1890.2 TRUE FALSE FALSE 1543.94287 2288.729015 1491.360665 1517.923684 1675.658078 1413.448788 1513.326408 1296.077968 2678.032749 1971.695772 0.783053294 1.16079217 0.756384776 0.769856945 0.849856302 0.716869614 0.76752531 0.657341759 1.358238318 1 10.94522125 -1.133800004 0.081486306 1.127913054 1.98E-15 0.37541203 0.167365449 147.6222788 0.906238835 1.94787023 18.84526494 0.07348522 1.133800004 -1.127913054 DKS(ph)FDDEESVDGNRPSSAASAFK ddPTM_HeLa_SAHA_4h_R1 1 DKSFDDEESVDGNRPSSAASAFK 23 2 E7ERI8;E7EW49;O75122-3 E7ERI8 CLASP2 CLIP-associating protein 2 1 0 DKS(0.983)FDDEES(0.003)VDGNRPS(0.006)S(0.006)AAS(0.001)AFK 47.979 0.022916 10520000 301.37 482.31 341.7 449.29 595.27 534.26 500.65 459.78 545.19 406.62 TRUE FALSE FALSE 333.0694793 497.9371605 388.2650965 457.9866576 549.6605412 488.7380423 444.3155444 448.0194934 541.3959784 424.1513781 0.785260868 1.173960963 0.91539275 1.079771707 1.295906531 1.152272673 1.047540023 1.056272634 1.276421594 1 8.728435439 -7.254257747 24.99125651 0.898595409 1.102085983 0 0.158605736 434.2844652 1511260.702 0.020460826 0.024789042 5.57E-08 7.254257747 0.203490574 DKS(ph)PSSLLEDAK ddPTM_HeLa_SAHA_4h_R1 1 DKSPSSLLEDAK 12 1 P42684-2;P42684-6;P42684-3;P42684;P42684-4;P42684-7;P42684-10;P42684-5 P42684-2 ABL2 Abelson tyrosine-protein kinase 2 1 0 DKS(0.999)PSSLLEDAK 168.93 0.00038437 17987000 1608.2 1643 1411.6 1366 1790.5 1886.5 1603.8 1613.6 2025.1 1497.7 TRUE FALSE FALSE 1777.357855 1696.234278 1603.965497 1392.440905 1653.312277 1725.759587 1423.336203 1572.326448 2011.007164 1562.273177 1.13767418 1.085747553 1.026686959 0.891291565 1.058273484 1.104646494 0.911067427 1.006435028 1.287231449 1 10.60943103 -6.532018514 13.15115987 1.067810148 0.995358084 0.219292257 0.095867839 0.969220011 1386.90851 0.012063902 0.017178286 2.94E-07 6.532018514 -0.072452065 DKS(ph)PVREPIDNLTPEER ddPTM_HeLa_SAHA_4h_R1 5 DKSPVREPIDNLTPEER 17 2 Q14498-2;Q14498;G3XAC6;Q14498-3;Q5QP22;Q5QP23;H0Y4X3 Q14498-2 RBM39 RNA-binding protein 39 1 0 DKS(1)PVREPIDNLTPEER;DKS(1)PVREPIDNLTPEER;DKS(1)PVREPIDNLTPEER;DKS(1)PVREPIDNLTPEER;DKS(0.994)PVREPIDNLT(0.006)PEER ;;;; 97.957 0.010095 2493263000 7019.89 6293.85 6446.07 6680.13 7169.03 7941.57 7562.42 7585.61 7687.79 7555.8 TRUE FALSE FALSE 7758.274239 6497.77487 7324.50685 6809.433576 6619.74047 7264.903558 6711.476598 7391.58108 7634.290043 7881.567515 0.984356757 0.824426722 0.929321082 0.863969453 0.839901512 0.921758717 0.851540837 0.937831347 0.968625851 1 12.94426687 -7.349619178 7.230466941 0.992978748 0.881366917 0.613041545 0.037363854 0.103132329 7.400358112 0.005645232 0.006440606 4.47E-08 7.349619178 -0.111611831 DKSDS(ph)PAIQLR ddPTM_HeLa_SAHA_4h_R1 1 DKSDSPAIQLR 11 1 Q96ST3 Q96ST3 SIN3A Paired amphipathic helix protein Sin3a 1 0 DKSDS(1)PAIQLR 98 0.0057156 10148000 4259.8 4066.1 3664.1 4172.1 4432 4219.2 4322.3 4474.5 4620.6 4714 TRUE FALSE FALSE 4707.865309 4197.844308 4163.424466 4252.857028 4092.421117 3859.700423 3835.943428 4360.048769 4588.444868 4917.24361 0.957419579 0.853698666 0.846698841 0.864886381 0.832259177 0.784931708 0.780100343 0.886685533 0.933133526 1 12.26363412 -7.233916663 0.961922549 0.989836269 0.820850358 0.708205907 0.036726529 0.134582658 0.24642182 0.007129393 0.00860391 5.84E-08 7.233916663 -0.16898591 DKSPS(ph)SLLEDAK ddPTM_HeLa_SAHA_4h_R1 1 DKSPSSLLEDAK 12 1 P42684-2;P42684-6;P42684-3;P42684;P42684-4;P42684-7;P42684-10;P42684-5 P42684-2 ABL2 Abelson tyrosine-protein kinase 2 1 0 DKS(0.134)PS(0.433)S(0.433)LLEDAK 106.55 0.016994 19309000 2011.6 2164.5 1559.7 1745.8 2709.9 2695.7 2428.2 2021.5 2511.2 2472.9 TRUE FALSE FALSE 2223.189318 2234.63122 1772.247793 1779.592483 2502.268047 2466.011194 2154.972545 1969.792957 2493.724355 2579.518821 0.861862026 0.866297699 0.687045886 0.689893196 0.970052254 0.955996589 0.835416485 0.763628062 0.966740128 1 11.33288626 -8.623673602 0.750611145 0.993533905 0.827961683 0.317194794 0.090934223 0.595828245 0.675870195 0.050636993 0.021768964 2.38E-09 8.623673602 -0.165572222 DKVTIADDYS(ph)DPFDAK ddPTM_HeLa_SAHA_4h_R1 1 DKVTIADDYSDPFDAK 16 1 Q15464;Q15464-2 Q15464 SHB SH2 domain-containing adapter protein B 1 0 DKVT(0.002)IADDY(0.31)S(0.688)DPFDAK 71.316 0.013123 2595500 536.89 397.87 555.97 654.53 916.75 820.93 761.98 987.77 828.95 690.42 TRUE FALSE FALSE 593.3625535 410.7612491 631.7346962 667.1993746 846.5088131 750.9821456 676.240005 962.5042737 823.1812695 720.187385 0.823900232 0.570353296 0.877181008 0.92642469 1.175400779 1.042759372 0.938977854 1.336463667 1.143009842 1 9.492228519 -5.879643315 5.343454953 0.88144052 1.103632444 0.3227343 0.165278538 0.196720776 8.474577121 0.023080848 0.042484559 1.32E-06 5.879643315 0.222191924 DKYPNLQVIGGNVVTAAQAK ddPTM_HeLa_SAHA_4h_R1 1 DKYPNLQVIGGNVVTAAQAK 20 1 P12268;H0Y4R1 P12268 IMPDH2 Inosine-5-monophosphate dehydrogenase 2 0 0 196.76 2.69E-28 1616900 811.09 573.19 843.95 940.02 1051.3 647.94 1167.3 753.31 775.72 878.77 FALSE FALSE TRUE 896.4041676 591.7617321 958.9591109 958.2154464 970.7496211 592.7318668 1035.952332 734.041421 770.3217014 916.6580753 0.977904621 0.645564304 1.046147017 1.045335739 1.059009512 0.646622642 1.130140409 0.800779964 0.840358823 1 9.840239881 -7.161200358 0.013367389 1.902944735 6.97E-05 0 0.170726106 1704.138051 18.75725995 1325.223387 1342.407689 6.90E-08 7.161200358 -1.902875044 DLADELALVDVIEDK ddPTM_HeLa_SAHA_4h_R1 4 DLADELALVDVIEDK 15 0 P00338-3;P00338;P00338-2;P00338-5;F5GXY2;P00338-4;F5GYU2;F5GXH2;F5GZQ4;F5H6W8;F5H5J4 P00338-3 LDHA L-lactate dehydrogenase A chain 0 0 ;;; ;;; 286.61 7.90E-69 900240000 10966.78 6792.07 8031.84 9508.9 8295.21 11517.51 8837.13 6661.45 11751.715 9539.3 FALSE FALSE TRUE 12120.31624 7012.137524 9126.377327 9692.95851 7659.632802 10536.15335 7842.752874 6491.059755 11669.93386 9950.585907 1.21805051 0.704695944 0.917169844 0.974109324 0.769767014 1.058847534 0.788169958 0.652329402 1.172788614 1 13.28056576 -7.265631523 24.99117782 1.102968296 0.850128105 0.519978686 0.127562767 248.4534919 1481135.963 0.023127538 0.026949773 5.42E-08 7.265631523 -0.252840191 DLAEDAPWK ddPTM_HeLa_SAHA_4h_R1 1 DLAEDAPWK 9 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;O75369-5;O75369-4;P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98;Q14315-2;Q14315 O75369-8;P21333-2;Q14315-2 FLNB;FLNA;FLNC Filamin-B;Filamin-A;Filamin-C 0 0 135.79 0.0088274 8511000 3130.4 2450 2044.2 2356.9 2862.6 3554.8 2950.6 2426.4 3939.1 2718.3 FALSE FALSE TRUE 3459.669835 2529.381608 2322.77293 2402.521208 2643.268206 3251.911041 2618.590722 2364.336201 3911.687482 2835.499216 1.220127241 0.892041018 0.819176009 0.84730096 0.932205585 1.146856618 0.923502538 0.833834193 1.379541021 1 11.46938704 -7.242850619 24.84481087 1.103948976 0.917453548 0.451683197 0.132420392 637.5704463 852145.5456 0.02021157 0.024730246 5.72E-08 7.242850619 -0.186495429 DLAEDAPWK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 DLAEDAPWKK 10 1 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;O75369-5;O75369-4;P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98;Q14315-2;Q14315 O75369-8;P21333-2;Q14315-2 FLNB;FLNA;FLNC Filamin-B;Filamin-A;Filamin-C 0 1 ; DLAEDAPWK(1)K;DLAEDAPWK(1)K 147.95 1.54E-05 5434500 2251.4 7758.1 2841.8 3057.1 6228.9 5621.1 5710.2 4186.1 6761.2 2269 FALSE TRUE FALSE 2488.212582 8009.46753 3229.065705 3116.274591 5751.643028 5142.150657 5067.673268 4079.025623 6714.148259 2366.827694 1.0512859 3.384051805 1.364301133 1.316646158 2.430106358 2.172591891 2.141124713 1.723414693 2.83677104 1 11.20873897 -7.461197773 24.99999484 1.022622621 2.052029724 0 0.797062835 150.4319644 60971.95785 0.089617065 0.102468696 3.46E-08 7.461197773 1.029407103 DLAEITTLDR ddPTM_HeLa_SAHA_4h_R1 1 DLAEITTLDR 10 0 Q9BS26 Q9BS26 ERP44 Endoplasmic reticulum resident protein 44 0 0 134.77 0.008252 2351100 459.14 597.79 627.8 552.62 688.78 745.99 610.14 399.78 539.92 583.23 FALSE FALSE TRUE 507.4344518 617.1587882 713.3533146 563.3167592 636.0058252 682.4274552 541.4854414 389.5542065 536.1626528 608.3758996 0.834080463 1.014436615 1.17255354 0.925935363 1.045415878 1.121720068 0.890050776 0.640318275 0.881301598 1 9.248819192 -4.312285055 3.748885552 0.965452574 0.621681052 0.510454791 0.102099855 0.171233865 4.298751869 0.016096559 0.146358504 4.87E-05 4.312285055 -0.343771522 DLAFTLEER ddPTM_HeLa_SAHA_4h_R1 2 DLAFTLEER 9 0 P48163 P48163 ME1 NADP-dependent malic enzyme 0 0 ; ; 155.58 0.0011077 13301700 3652.9 3573.2 3730.7 4238.9 3968.9 4402.2 4333.8 3680.6 4583.6 3742.3 FALSE FALSE TRUE 4037.128782 3688.974024 4239.100367 4320.950039 3664.803739 4027.107794 3846.149418 3586.455581 4551.702354 3903.648867 1.034193627 0.945006621 1.085932806 1.106900284 0.938814905 1.031626545 0.985270333 0.918744412 1.166012239 1 11.93060757 -3.954963373 1.284490659 1.018986189 0.80151354 0.191491476 0.068250128 2.763912684 2.313867487 0.007104321 0.951937499 0.000110927 3.954963373 -0.217472649 DLAGAPPGEVVGCFT(ph)PQSR ddPTM_HeLa_SAHA_4h_R1 3 DLAGAPPGEVVGCFTPQSR 19 0 Q9Y446;Q9Y446-2 Q9Y446 PKP3 Plakophilin-3 1 0 DLAGAPPGEVVGCFT(0.977)PQS(0.023)R;DLAGAPPGEVVGCFT(0.919)PQS(0.081)R;DLAGAPPGEVVGCFT(0.981)PQS(0.019)R ;; 103.99 0.0020545 2960300 1557.63 1904.1 1538.13 1736.15 1926.76 1884.68 1794.2 1771.67 1612.6 1748.46 TRUE FALSE FALSE 1721.46867 1965.794089 1747.738346 1769.755694 1779.132065 1724.094661 1592.311894 1726.353247 1601.377785 1823.844667 0.943868028 1.077829776 0.95827149 0.970343432 0.975484424 0.945307839 0.873052362 0.946546204 0.87802312 1 10.83276715 -5.055186914 3.525761848 0.97955654 0.909133599 0.183450038 0.050046017 0.195299722 4.830725297 0.005595039 0.016624013 8.81E-06 5.055186914 -0.070422941 DLAGS(ph)IIGK ddPTM_HeLa_SAHA_4h_R1 1 DLAGSIIGK 9 0 P61978;P61978-2;P61978-3;S4R359 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 1 0 DLAGS(1)IIGK 87.184 0.020381 2244800 966.32 1011.7 873.06 1278.7 1100.6 1196.5 1236.5 1314.2 1424.7 934.46 TRUE FALSE FALSE 1067.961971 1044.479744 992.0360701 1303.451088 1016.272266 1094.551469 1097.365766 1280.584667 1414.785397 974.7491437 1.095627504 1.07153697 1.017734744 1.337216961 1.042598778 1.122905802 1.125793003 1.313758186 1.451435383 1 9.928887172 -1.000000001 0.100687118 0.928050416 1.770118196 0 0.165546373 99.3098033 0.712199069 0.68858016 11.61006672 0.1 1.000000001 0.84206778 DLAGSIIGK ddPTM_HeLa_SAHA_4h_R1 2 DLAGSIIGK 9 0 P61978;P61978-2;P61978-3;S4R359 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 ; ; 130.75 0.0020466 5168200 4869.4 4864.4 5105 5621.4 5470.3 6030.7 5149.5 5265.8 5368.5 5126.3 FALSE FALSE TRUE 5381.585834 5022.009752 5800.682814 5730.210326 5051.166796 5516.850432 4570.064707 5131.108461 5331.140171 5347.319881 1.006408061 0.939163892 1.084783208 1.071604178 0.944616539 1.031703836 0.854645843 0.959566395 0.99697424 1 12.38460027 -4.771252042 24.99995031 1.006627287 0.907106111 0.400260332 0.049997148 124.5720778 317378.3369 0.006478573 0.019784595 1.69E-05 4.771252042 -0.099521175 DLAVPAALT(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 DLAVPAALTPR 11 0 Q8TEM1 Q8TEM1 NUP210 Nuclear pore membrane glycoprotein 210 1 0 DLAVPAALT(1)PR 118.61 0.0040323 5560600 1682.5 5226.5 2766.6 1896.4 3037.1 2939.9 2679.6 2375.5 3482.4 2992.2 TRUE FALSE FALSE 1859.47307 5395.842029 3143.61784 1933.107564 2804.398054 2689.403981 2378.084356 2314.73815 3458.165695 3121.208385 0.595754221 1.728766991 1.007179737 0.619345883 0.898497539 0.861654734 0.761911434 0.741616023 1.107957325 1 11.60788897 -4.7656746 3.167970872 0.881674717 0.743914282 0.009121974 0.308122489 0.935124813 18.91913015 0.045522733 0.18879783 1.72E-05 4.7656746 -0.137760436 DLDAPDDVDFF ddPTM_HeLa_SAHA_4h_R1 2 DLDAPDDVDFF 11 0 Q9BXP5-5;Q9BXP5-4;Q9BXP5-2;Q9BXP5-3;Q9BXP5;H7C3A1 Q9BXP5-5 SRRT Serrate RNA effector molecule homolog 0 0 ; ; 128.1 0.009045 3704400 2613.71 2629.19 2264.03 2969.28 3137.5 2913.52 2923.58 3312.93 2590.82 2715.74 FALSE FALSE TRUE 2888.63201 2714.377481 2572.560218 3026.754708 2897.105428 2665.271705 2594.611084 3228.190048 2572.790273 2832.828842 1.019698743 0.958186192 0.908124127 1.068456612 1.022689894 0.940851655 0.915908171 1.139564099 0.908205337 1 11.46802772 DLDCS(ph)LEAAAELR ddPTM_HeLa_SAHA_4h_R1 1 DLDCSLEAAAELR 13 0 Q5T282;Q92966 Q5T282 SNAPC3 snRNA-activating protein complex subunit 3 1 0 DLDCS(1)LEAAAELR 110.44 0.00096375 0 189.59 171.11 200.82 110.61 244.74 492.85 258.45 202.88 304.02 147.19 TRUE FALSE FALSE 209.5319461 176.6540763 228.1867038 112.7510165 225.9880741 450.8564073 229.3685258 197.6906234 301.9043001 153.5360812 1.364708181 1.150570438 1.486208987 0.734361693 1.471889033 2.936485051 1.493906344 1.287584142 1.966341056 1 7.262433921 -5.515870751 24.7505268 1.170423989 1.921350588 0.211091041 0.510431757 218.8204828 772819.0688 0.06226408 0.128604666 3.05E-06 5.515870751 0.750926599 DLDEDELLGNLSET(ph)ELK ddPTM_HeLa_SAHA_4h_R1 1 DLDEDELLGNLSETELK 17 0 Q9NYL9;H0YNU8 Q9NYL9 TMOD3 Tropomodulin-3 1 0 DLDEDELLGNLS(0.063)ET(0.937)ELK 154.31 6.01E-05 1555000 224.51 681.15 328.83 377.41 417.57 614.36 420.09 345.16 430.13 432.23 TRUE FALSE FALSE 248.1249919 703.2197069 373.6412399 384.7153163 385.5758768 562.0130717 372.8203676 336.331307 427.1366903 450.8655506 0.55033034 1.559710441 0.828719869 0.853281684 0.85519037 1.246520323 0.82689921 0.745968075 0.94737043 1 8.816553472 DLDEEGS(ph)EK ddPTM_HeLa_SAHA_4h_R1 1 DLDEEGSEK 9 0 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 DLDEEGS(1)EK 136.5 0.0014044 11751000 1342.4 2738.1 1310.9 2378 1891 2794.1 1738.2 1300.6 4884.6 3124.5 TRUE FALSE FALSE 1483.599791 2826.816237 1489.542625 2424.029629 1746.111989 2556.026961 1542.613161 1267.332535 4850.607671 3259.212486 0.455201923 0.867331065 0.457025319 0.743747037 0.535746594 0.784246799 0.473308558 0.388846245 1.488275984 1 11.6703077 -9.435537987 1.022154655 1.014115044 0.586064902 0.531260007 0.22066261 0.365163115 0.644960774 0.119466654 0.026165527 3.67E-10 9.435537987 -0.428050142 DLDEEGS(ph)EKELHENVLDK ddPTM_HeLa_SAHA_4h_R1 2 DLDEEGSEKELHENVLDK 18 1 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 DLDEEGS(1)EKELHENVLDK;DLDEEGS(1)EKELHENVLDK ; 79.341 0.0041449 19321900 1492.2 2602.7 1836.77 2388.2 1843.66 2372 2175.62 1525.97 4551.1 2416.8 TRUE FALSE FALSE 1649.156442 2687.029188 2087.07545 2434.427064 1702.399169 2169.892255 1930.813512 1486.937897 4519.428525 2521.000076 0.65416755 1.065858432 0.827875997 0.965659259 0.675287234 0.860726771 0.76589189 0.589820648 1.79271257 1 11.29978045 -3.599965053 0.921711509 0.852893059 1.56E-16 0.030715527 0.321549523 7.413234481 2.002888469 0.023191928 8.506347934 0.000251209 3.599965053 -0.852893059 DLDEEIFDDDDFYHQLLR ddPTM_HeLa_SAHA_4h_R1 2 DLDEEIFDDDDFYHQLLR 18 0 Q9NY61;A0A087WTH8;A0A087WWS8 Q9NY61 AATF Protein AATF 0 0 ; ; 241.39 2.11E-37 11348100 1387.46 1685.69 1360.46 1754.28 2028.32 2064.76 1753.02 1491.09 2306.23 1667.09 FALSE FALSE TRUE 1533.399409 1740.307462 1545.856404 1788.236626 1872.91056 1888.830832 1555.765576 1452.950077 2290.180758 1738.966408 0.881787826 1.000771179 0.888951274 1.028333047 1.077025152 1.086180172 0.894649585 0.835525097 1.316978147 1 10.76401435 DLDELSR ddPTM_HeLa_SAHA_4h_R1 1 DLDELSR 7 0 A0A0R4J2E8;A8MXP9;P43243;D6REM6;D6R991 A0A0R4J2E8 MATR3 Matrin-3 0 0 129.68 0.0087005 4485800 3119.1 2911.3 2396 2910.2 3550.2 4087.3 3258.8 3209.6 4398 2993.5 FALSE FALSE TRUE 3447.181249 3005.62803 2722.514402 2966.531129 3278.184443 3739.039045 2892.111247 3127.503079 4367.39396 3122.564435 1.103958404 0.962551164 0.871884138 0.950030397 1.049837245 1.197425745 0.92619746 1.001581599 1.398656153 1 11.60851563 -7.246027116 24.73721225 1.049091471 0.995149934 0.097358683 0.139502956 1586.737318 2546768.976 0.015564303 0.019024677 5.68E-08 7.246027116 -0.053941537 DLDEMDDDDDDDDVGDHDDDHPGMEVVLHEDK ddPTM_HeLa_SAHA_4h_R1 3 DLDEMDDDDDDDDVGDHDDDHPGMEVVLHEDK 32 0 Q15029-3;Q15029;K7EIV5;K7EIT3 Q15029-3 EFTUD2 116 kDa U5 small nuclear ribonucleoprotein component 0 0 ;; ;; 131.94 1.05E-14 45407100 9641.3 9801.9 10750.6 12180.6 13065.4 7184.4 13743.5 9530.1 13267.8 11442.6 FALSE FALSE TRUE 10655.41617 10119.48799 12215.63578 12416.37313 12064.33187 6572.248702 12197.04521 9286.333841 13175.4683 11935.94648 0.892716483 0.847816133 1.023432519 1.040250402 1.010756197 0.550626522 1.021874991 0.778014031 1.103847803 1 13.54302535 DLDEMDDDDDDDDVGDHDDDHPGMEVVLHEDKK ddPTM_HeLa_SAHA_4h_R1 4 DLDEMDDDDDDDDVGDHDDDHPGMEVVLHEDKK 33 1 Q15029-3;Q15029;K7EIV5;K7EIT3 Q15029-3 EFTUD2 116 kDa U5 small nuclear ribonucleoprotein component 0 0 ;;; ;;; 123.36 3.11E-15 54549000 5993.82 5626.48 6738.14 6594.59 7916.85 4519.49 8262.7 5385.16 7968.66 7143.65 FALSE FALSE TRUE 6624.277488 5808.781644 7656.378628 6722.237825 7310.262663 4134.404026 7332.95925 5247.415405 7913.205446 7451.647712 0.888968151 0.779529826 1.027474583 0.902114282 0.981026338 0.554830849 0.984072186 0.704195315 1.061940359 1 12.86334375 -1.000000005 0.083620297 1.106490454 0.223879598 0.26769004 0.131709582 194.0953004 1.187829559 1.842948241 19.82746849 0.099999999 1.000000005 -0.882610855 DLDIIDNYDYSHTVK ddPTM_HeLa_SAHA_4h_R1 2 DLDIIDNYDYSHTVK 15 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 ; ; 130.21 0.00030371 57452000 11074.1 10905.2 10331.5 11289.6 11760.1 12792.7 12591.7 10806.4 12422.7 12143.5 FALSE FALSE TRUE 12238.92465 11258.53564 11739.42302 11508.12653 10859.04368 11702.68999 11174.84878 10529.98794 12336.24942 12667.06571 0.966200454 0.88880376 0.926767357 0.908507684 0.857265915 0.923867473 0.882197111 0.831288648 0.973883747 1 13.62879475 -7.028634647 0.409887557 1.004029399 0.860298301 0.712468498 0.027167032 0.348088915 0.148021099 0.01279332 0.018529729 9.36E-08 7.028634647 -0.143731098 DLDKELDEYMHGGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 DLDKELDEYMHGGKK 15 2 Q9H814 Q9H814 PHAX Phosphorylated adapter RNA export protein 0 1 ; DLDKELDEYMHGGK(1)K;DLDKELDEYMHGGK(1)K 62.68 0.015115 4137600 4040.7 4095.9 2989.6 5198.9 5574.4 6302 5475.6 5462.6 7628 4286.7 FALSE TRUE FALSE 4465.719365 4228.609847 3397.007119 5299.532227 5147.290676 5765.034146 4859.471077 5322.874602 7574.916127 4471.520616 0.998702623 0.945676026 0.759698414 1.185174504 1.151127574 1.289278221 1.086760298 1.190394736 1.694035828 1 12.12654981 -6.130413107 20.95330271 0.97788342 1.179781996 0 0.241670907 2.459306274 394.0879676 0.012603671 0.020900872 7.41E-07 6.130413107 0.201898576 DLDLLASVPS(ph)PSSSGSR ddPTM_HeLa_SAHA_4h_R1 4 DLDLLASVPSPSSSGSR 17 0 A0A087WV97;Q8WU79-3;Q8WU79-2;Q8WU79 A0A087WV97 SMAP2 Stromal membrane-associated protein 2 1 0 DLDLLAS(0.001)VPS(0.998)PS(0.001)SSGSR;DLDLLAS(0.005)VPS(0.989)PS(0.005)SSGSR;DLDLLASVPS(0.986)PS(0.013)S(0.001)SGSR;DLDLLASVPS(0.995)PS(0.005)SSGSR ;;; 276.14 9.21E-60 124752000 8505.6 9853.9 8657.6 8641.3 10108.2 10925.7 10172.4 10263.5 12046.7 10669.1 TRUE FALSE FALSE 9400.258033 10173.17283 9837.412641 8808.564857 9333.7119 9994.768894 9027.77478 10000.97453 11962.86603 11129.09711 0.844655944 0.914105854 0.883936274 0.791489621 0.838676472 0.89807545 0.81118663 0.898633054 1.07491793 1 13.44204893 -9.468081878 0.568497319 1.0350139 0.854423104 0.703557579 0.044682085 0.689108994 0.278286608 0.068836189 0.008643121 3.40E-10 9.468081878 -0.180590796 DLDRPESQS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 DLDRPESQSPK 11 1 Q8WUA4;A0A087WZD8;Q8WUA4-2 Q8WUA4 GTF3C2 General transcription factor 3C polypeptide 2 1 0 DLDRPES(0.006)QS(0.994)PK;DLDRPES(0.032)QS(0.968)PK;DLDRPES(0.007)QS(0.993)PK ;; 132.24 0.0054851 92957000 3482.25 4017.56 3464.47 4539.44 4348.74 4858.88 4124.09 3818.28 4269.05 3493.99 TRUE FALSE FALSE 3848.529032 4147.73158 3936.589929 4627.307425 4015.540481 4444.876089 3660.036539 3720.613926 4239.341333 3644.633008 1.055944185 1.138038198 1.080105986 1.269622323 1.101768126 1.219567534 1.00422636 1.020847344 1.16317372 1 11.83155784 -7.637605815 1.281330449 1.016196413 1.123108327 0 0.089896034 0.393713107 1.325484386 0.016993404 0.017045549 2.30E-08 7.637605815 0.106911914 DLDSLHR ddPTM_HeLa_SAHA_4h_R1 4 DLDSLHR 7 0 Q8NBS9-2;Q8NBS9 Q8NBS9-2 TXNDC5 Thioredoxin domain-containing protein 5 0 0 ;;; ;;; 129.68 0.0015807 21914900 19893.4 25498.8 13571 24844.3 34021 40706.3 27256.1 30281.3 27356.9 28557.2 FALSE FALSE TRUE 21985.87909 26324.97785 15420.38521 25325.19735 31414.31833 37237.89423 24189.17189 29506.74819 27166.52111 29788.44065 0.738067472 0.883731316 0.517663391 0.850168616 1.054580826 1.250078669 0.812032163 0.990543565 0.911981981 1 14.86246498 -5.768588602 23.14431919 0.842527026 1.027415476 0.292749477 0.156809587 79.89484057 258648.3282 0.025729373 0.047429316 1.70E-06 5.768588602 0.184888449 DLEAEHVEVEDTTLNR ddPTM_HeLa_SAHA_4h_R1 2 DLEAEHVEVEDTTLNR 16 0 H3BV85;H3BTW0;A0A0B4J295;A0A087WZT3;H3BVE0;Q9H3K6-2;Q9H3K6 H3BV85 BOLA2B;BOLA2 BolA-like protein 2 0 0 ; ; 191.63 9.51E-12 32887000 3237.5 4293 3448.6 4514.8 4151.6 4203.7 4389.7 4049.5 4127.8 4043.7 FALSE FALSE TRUE 3578.035104 4432.096017 3918.557248 4602.190483 3833.505305 3845.521111 3895.759403 3945.919654 4099.074304 4218.043696 0.848268857 1.050746824 0.928998733 1.091072263 0.908834896 0.911683564 0.923593894 0.935485722 0.971795126 1 12.04235833 DLEALLNSK ddPTM_HeLa_SAHA_4h_R1 1 DLEALLNSK 9 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 100.48 0.011854 449200 0 258.72 157 172.4 221.49 365.3 179.11 322.37 165.48 194.91 FALSE FALSE TRUE 0 267.1026978 178.3951424 175.7370513 204.5194841 334.1743849 158.9560714 314.1242422 164.3284112 203.313524 0 1.313747814 0.877438642 0.864364789 1.005931529 1.64364071 0.781827339 1.545023843 0.808251256 1 7.667562373 -7.239011581 24.97467433 0.527777747 1.125735668 0.313164939 0.363617626 752.142168 837555.5766 0.073511108 0.089996347 5.77E-08 7.239011581 0.597957921 DLEDFFS(ph)AVGK ddPTM_HeLa_SAHA_4h_R1 1 DLEDFFSAVGK 11 0 Q86U06-3;Q86U06-5;Q86U06-2;Q86U06;G3V225;G3V2B4;G3V546;G3XAP0;Q86U06-4 Q86U06-3 RBM23 Probable RNA-binding protein 23 1 0 DLEDFFS(1)AVGK 90.601 0.0069448 0 426.14 449.35 313.5 337.54 406.57 2733.4 610.98 3326.1 1835.3 535.65 TRUE FALSE FALSE 470.9633604 463.9092348 356.2221474 344.0735748 375.4186944 2500.498942 542.2309224 3241.023178 1822.527998 558.7444929 0.842895754 0.830270796 0.637540328 0.615797702 0.671896903 4.47521 0.97044522 5.80054608 3.261827223 1 9.126044897 -5.272771422 24.87609602 0.856197055 3.470904908 0.42456521 1.365148741 333.2612712 731575.0541 0.13943932 0.314404912 5.34E-06 5.272771422 2.614707853 DLEDGEVPQHAGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 DLEDGEVPQHAGKK 14 1 Q15059;Q15059-2 Q15059 BRD3 Bromodomain-containing protein 3 0 1 ; DLEDGEVPQHAGK(1)K;DLEDGEVPQHAGK(1)K 115.24 0.00065056 10166300 8174.5 9264.7 7479.8 9848.5 9891.5 10737.7 10106.2 10002 10084.1 7743.2 FALSE TRUE FALSE 9034.331416 9564.882359 8499.108191 10039.13196 9133.615407 9822.787551 8969.023778 9746.163323 10013.92393 8077.047246 1.118519075 1.184205325 1.052254361 1.242921039 1.13081119 1.216135953 1.110433492 1.20664929 1.239800093 1 12.97961226 -8.795622381 0.348906597 0.957989171 1.179704027 0 0.091266716 1.050461324 0.220939569 0.091884747 0.023483039 1.60E-09 8.795622381 0.221714856 DLEDSLAR ddPTM_HeLa_SAHA_4h_R1 4 DLEDSLAR 8 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ;;; ;;; 143.89 0.0029389 54643900 13184.9 12943.1 11525.4 12215.5 12734.2 14727.1 13831.4 13091.9 16229.1 13308.1 FALSE FALSE TRUE 14571.74828 13362.46493 13096.02149 12451.94867 11758.50835 13472.26823 12275.05447 12757.02815 16116.16037 13881.87732 1.049695797 0.962583419 0.943389802 0.896993136 0.847040215 0.970493249 0.884250321 0.918969954 1.160949632 1 13.76091506 -6.853954241 2.046748401 1.023166414 0.904836332 0.601513845 0.054468397 0.123518692 1.054691652 0.005816671 0.008039494 1.40E-07 6.853954241 -0.118330082 DLEEDHACIPIK ddPTM_HeLa_SAHA_4h_R1 2 DLEEDHACIPIK 12 0 P13639 P13639 EEF2 Elongation factor 2 0 0 ; ; 127.87 0.0012589 10748700 5642.1 5472 4668.2 5353.9 5069.6 5851.1 5523.5 5492.9 6581.3 4937.6 FALSE FALSE TRUE 6235.561965 5649.29639 5304.357985 5457.532476 4681.168343 5352.553363 4901.981243 5352.399572 6535.500197 5150.4841 1.210674928 1.096847652 1.029875616 1.05961544 0.908879292 1.039233062 0.951751553 1.039203203 1.268909887 1 12.33049232 -6.379763664 1.85580655 1.101154585 0.989881888 0.372362195 0.082189708 0.367922064 2.485645088 0.014092093 0.023735731 4.17E-07 6.379763664 -0.111272697 DLEEDHACIPIK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 DLEEDHACIPIKK 13 1 P13639 P13639 EEF2 Elongation factor 2 0 1 ; DLEEDHACIPIK(1)K;DLEEDHACIPIK(1)K 130.1 0.00020066 14353100 6126.6 24937 10264.3 10406.3 19343.3 19101.6 20779 14503.6 18035.4 5980.5 FALSE TRUE FALSE 6771.023898 25744.97516 11663.06535 10607.72898 17861.22053 17474.03622 18440.89223 14132.61891 17909.89018 6238.348623 1.085387225 4.126889457 1.869575757 1.70040657 2.863132796 2.801067602 2.956053492 2.26544231 2.870934484 1 12.60694846 -7.421165592 14.78965066 1.037660105 2.612994174 0.116030732 0.858842535 0.764296065 109.4206437 0.103398624 0.118221796 3.79E-08 7.421165592 1.575334069 DLEEWNQR ddPTM_HeLa_SAHA_4h_R1 2 DLEEWNQR 8 0 P09497-2;P09497 P09497-2 CLTB Clathrin light chain B 0 0 ; ; 136.8 0.0073852 17121400 3657.9 3987.2 3222.1 3816.7 3882.3 4430.1 4280 4184.6 4381.8 3904.8 FALSE FALSE TRUE 4042.654705 4116.387896 3661.191008 3890.577748 3584.839013 4052.630557 3798.403136 4077.563991 4351.306697 4073.155038 0.992511866 1.010614096 0.898858741 0.955175463 0.880113568 0.994961036 0.93254568 1.001082442 1.068288994 1 11.99193101 -6.784212464 24.99801396 0.997426402 0.943227557 0.396998835 0.041783452 176.6860817 193947.66 0.005214628 0.006855943 1.64E-07 6.784212464 -0.054198845 DLEGLSQR ddPTM_HeLa_SAHA_4h_R1 2 DLEGLSQR 8 0 P35579 P35579 MYH9 Myosin-9 0 0 ; ; 136.27 0.0077167 44082000 6391 6259.1 5716.6 6442.5 6867.4 7280.8 7020 6868.6 6131.3 5642.9 FALSE FALSE TRUE 7063.234703 6461.898947 6495.628477 6567.203904 6341.221296 6660.434879 6230.091124 6692.911158 6088.631784 5886.193035 1.199966542 1.097806156 1.103536435 1.115696319 1.077304339 1.131535245 1.058424535 1.137052611 1.034392136 1 12.52311914 -9.602228571 1.416192455 1.000322977 1.123996886 0.499379692 0.038086875 0.265202063 0.958468102 0.030755537 0.007184235 2.50E-10 9.602228571 0.123673909 DLELALS(ph)PIHNSSALPTTGR ddPTM_HeLa_SAHA_4h_R1 2 DLELALSPIHNSSALPTTGR 20 0 A0A087WUU7;Q96GX5-2;Q96GX5-3;Q96GX5 A0A087WUU7 MASTL Serine/threonine-protein kinase greatwall 1 0 DLELALS(1)PIHNSSALPTTGR;DLELALS(1)PIHNSSALPTTGR ; 103.92 0.00054192 8887400 1490.5 1494.91 1182.97 1486.1 1688.37 1979.72 1431.68 1566.35 1328.5 1619.48 TRUE FALSE FALSE 1647.277629 1543.346065 1344.178991 1514.865614 1559.007455 1811.036718 1270.583598 1526.285035 1319.25486 1689.303708 0.975122247 0.913598933 0.795700018 0.896739649 0.922869847 1.072061057 0.752134499 0.903499488 0.780945933 1 10.72221301 -7.251782184 3.553009123 0.989058403 0.891662773 0 0.102945266 0.252306047 6.798171567 0.013422916 0.015965961 5.60E-08 7.251782184 -0.09739563 DLENGSHIR ddPTM_HeLa_SAHA_4h_R1 2 DLENGSHIR 9 0 P25205;P25205-2;J3KQ69;A0A499FHX9 P25205 MCM3 DNA replication licensing factor MCM3 0 0 ; ; 162.64 7.95E-05 7112500 6499.5 6465.1 6147.1 6054.2 6764.8 7180.8 7380.5 6403.7 6481.4 6412.4 FALSE FALSE TRUE 7183.147231 6674.573482 6984.794775 6171.387796 6246.482485 6568.955442 6550.026716 6239.902626 6436.29541 6688.869946 1.073895484 0.997862649 1.044241379 0.92263534 0.933862153 0.982072532 0.979242648 0.93287845 0.96223958 1 12.70754678 -6.269726853 24.96051073 1.033052125 0.952625038 0.426359721 0.035150459 334.9152334 1008708.563 0.005234865 0.008082095 5.37E-07 6.269726853 -0.080427087 DLESCS(ph)DDDNQGSK ddPTM_HeLa_SAHA_4h_R1 2 DLESCSDDDNQGSK 14 0 Q5T3I0;F8W895;A0A0A0MRK1;Q5T3I0-3;E9PAV9 Q5T3I0 GPATCH4 G patch domain-containing protein 4 1 0 DLES(0.002)CS(0.998)DDDNQGSK;DLES(0.003)CS(0.997)DDDNQGSK ; 166.52 6.44E-06 14873600 1641.4 2184.12 1462.91 2020.48 1828.36 1978.24 1713.8 1631.3 3148.8 1834.55 TRUE FALSE FALSE 1814.049983 2254.886921 1662.267756 2059.589312 1688.271452 1809.682823 1520.958714 1589.573708 3126.887244 1913.646429 0.947954625 1.178319509 0.868638914 1.076264289 0.882227472 0.945672511 0.794796098 0.830651726 1.633994241 1 10.90210858 -5.014754124 1.308210122 0.988047563 0.801947137 0.102405947 0.221099756 0.398776162 1.152671668 0.011744275 0.068042795 9.67E-06 5.014754124 -0.186100427 DLEVTCDPDSGGS(ph)QGLR ddPTM_HeLa_SAHA_4h_R1 1 DLEVTCDPDSGGSQGLR 17 0 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 DLEVTCDPDS(0.029)GGS(0.971)QGLR 149.99 7.22E-05 2173200 442.95 417.61 335.46 493.85 509.91 466.04 292.26 461.46 499.8 372.29 TRUE FALSE FALSE 489.5415133 431.140838 381.1747418 503.4091809 470.840806 426.3307701 259.3741356 449.6565214 496.3218511 388.3412438 1.260596244 1.110211302 0.981545864 1.296306248 1.212440897 1.097825114 0.667902624 1.157890202 1.278055985 1 8.601181127 -4.970554222 24.99796947 1.133158819 0.905388013 0.282004199 0.152164132 198.8396986 168802.6684 0.020854657 0.062562778 1.07E-05 4.970554222 -0.227770806 DLEWVER ddPTM_HeLa_SAHA_4h_R1 2 DLEWVER 7 0 H7C2Q8;Q99848 H7C2Q8 EBNA1BP2 Probable rRNA-processing protein EBP2 0 0 ; ; 129.68 0.0087005 38295000 4788.7 4565.9 4537.4 5496 5476.4 5849.8 5783.3 4768.7 6302.4 5036 FALSE FALSE TRUE 5292.397437 4713.838156 5155.733242 5602.383027 5056.799415 5351.36413 5132.547863 4646.723559 6258.541085 5253.126606 1.007475706 0.897339529 0.981459925 1.066485438 0.962626602 1.018700772 0.97704629 0.884563405 1.191393537 1 12.35896064 -4.281948869 3.400777762 0.996885027 0.872559986 0.191571413 0.073910664 0.215001708 4.204146252 0.005512014 0.067064236 5.22E-05 4.281948869 -0.124325041 DLFAFQES(ph)PPR ddPTM_HeLa_SAHA_4h_R1 2 DLFAFQESPPR 11 0 E7EX48;P51957-3;P51957-2;P51957 E7EX48 NEK4 Serine/threonine-protein kinase Nek4 1 0 DLFAFQES(1)PPR;DLFAFQES(1)PPR ; 145.81 0.00068272 13208500 1868.79 2281.3 1489.81 1766.38 2234.9 2286.6 2078.24 2025.29 2464.5 1946.65 TRUE FALSE FALSE 2065.357907 2355.215617 1692.833548 1800.570839 2063.662445 2091.768816 1844.390966 1973.486014 2447.349344 2030.579608 1.017127276 1.159873569 0.833670121 0.886727529 1.016292312 1.030133863 0.908307637 0.971883105 1.205246686 1 10.98767587 -6.747175872 24.99999195 1.019697811 0.944659362 0.287253067 0.092003668 291.5258984 510963.1444 0.011310353 0.015952076 1.79E-07 6.747175872 -0.075038449 DLFDLNS(ph)SEEDDTEGFSER ddPTM_HeLa_SAHA_4h_R1 1 DLFDLNSSEEDDTEGFSER 19 0 Q9Y3T9 Q9Y3T9 NOC2L Nucleolar complex protein 2 homolog 1 0 DLFDLNS(0.5)S(0.5)EEDDTEGFSER 264.01 1.35E-52 7170500 886.65 1268.3 1019.8 1073.1 1392.5 1249.3 1368.2 1291.6 1133.5 1208.7 TRUE FALSE FALSE 979.9119151 1309.393752 1158.773033 1093.871402 1285.806951 1142.852612 1214.246535 1258.562742 1125.611881 1260.812972 0.777206403 1.038531314 0.91906814 0.867592122 1.0198237 0.906441032 0.96306634 0.998215255 0.892766735 1 10.30013857 -5.795474907 0.96424379 0.903349758 0.970338209 0.055620609 0.07471519 1.309860076 2.329509947 0.016607277 0.051785858 1.60E-06 5.795474907 0.066988451 DLFDLNSS(ph)EEDDTEGFSER ddPTM_HeLa_SAHA_4h_R1 1 DLFDLNSSEEDDTEGFSER 19 0 Q9Y3T9 Q9Y3T9 NOC2L Nucleolar complex protein 2 homolog 1 0 DLFDLNS(0.082)S(0.918)EEDDTEGFSER 300.28 1.49E-91 8740200 1487.3 1573.5 1402.2 1780.9 1934.8 1821.2 1994.7 1850.9 1699.2 1707.8 TRUE FALSE FALSE 1643.741038 1624.482432 1593.284514 1815.371895 1786.556042 1666.023514 1770.251106 1803.556658 1687.375129 1781.431616 0.922707907 0.911897161 0.894384325 1.019052249 1.002876578 0.935216092 0.993723863 1.01241981 0.947201742 1 10.79882139 -6.222487038 24.98638197 0.953170055 0.990093453 0.339551563 0.035834366 853.0789769 547216.051 0.006745664 0.011186258 5.99E-07 6.222487038 0.036923398 DLFDPIIEDR ddPTM_HeLa_SAHA_4h_R1 2 DLFDPIIEDR 10 0 P12277;G3V4N7;G3V461 P12277 CKB Creatine kinase B-type 0 0 ; ; 150.08 0.0038217 8401400 711 744.8 638.74 969.54 1005.63 1144.58 1159.56 730.45 1194.23 940.28 FALSE FALSE TRUE 785.7862422 768.9320087 725.7841608 988.3068487 928.5788467 1047.055345 1029.083257 711.7661467 1185.919256 980.8200724 0.801152285 0.783968467 0.739976863 1.00763318 0.946737198 1.067530502 1.049206971 0.725684727 1.209109896 1 9.937844694 DLFDYS(ph)PPLHK ddPTM_HeLa_SAHA_4h_R1 2 DLFDYSPPLHK 11 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 DLFDYS(1)PPLHK;DLFDYS(1)PPLHK ; 148.13 0.00059504 178822000 5038.5 6679 4773.5 5171.2 6048.1 6652.7 5767.4 4643.3 7113.2 5604.9 TRUE FALSE FALSE 5568.472547 6895.403982 5424.007721 5271.296054 5584.695885 6085.852533 5118.436973 4524.531109 7063.698662 5846.554669 0.952436582 1.179396135 0.927727188 0.901607246 0.955211437 1.040929723 0.875462091 0.773879894 1.20818141 1 12.51337099 -4.527810235 3.829814736 0.984214181 0.787135232 0.346843756 0.102093989 0.140745447 4.429862739 0.010038756 0.053746901 2.97E-05 4.527810235 -0.19707895 DLFPYEESK ddPTM_HeLa_SAHA_4h_R1 3 DLFPYEESK 9 0 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 0 0 ;; ;; 158.76 0.00056604 27369350 10130.24 10815.3 8272.83 10205.85 10053.2 13180.8 10690.5 10724.1 13807.1 10141.69 FALSE FALSE TRUE 11195.78512 11165.72282 9400.208189 10403.39898 9282.925988 12057.72169 9487.576804 10449.79305 13711.01527 10578.94789 1.058307994 1.055466284 0.88857685 0.983405826 0.877490473 1.139784581 0.896835574 0.987791334 1.296066056 1 13.36890853 -6.797053514 24.99675406 1.030398574 0.9645076 0.177017198 0.11065663 229.1913462 160863.3286 0.011014708 0.014476466 1.60E-07 6.797053514 -0.065890974 DLFPYEESK(ac)EK ddPTM_HeLa_SAHA_4h_R1 2 DLFPYEESKEK 11 1 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 0 1 ; DLFPYEESK(1)EK;DLFPYEESK(1)EK 123.96 0.0019331 1580740 57.826 715.91 482.88 235.36 665.49 606.27 587.7 395.74 533.37 0 FALSE TRUE FALSE 63.908404 739.1059537 548.6843717 239.9157331 614.5003 554.6123852 521.5704493 385.6175438 529.6582347 0 0 DLFSLDSEDPSPAS(ph)PPLR ddPTM_HeLa_SAHA_4h_R1 5 DLFSLDSEDPSPASPPLR 18 0 H3BTX0;Q9BTK6 H3BTX0 PAGR1 PAXIP1-associated glutamate-rich protein 1 1 0 DLFSLDSEDPS(0.001)PAS(0.999)PPLR;DLFSLDSEDPSPAS(1)PPLR;DLFSLDSEDPS(0.002)PAS(0.998)PPLR;DLFSLDSEDPSPAS(1)PPLR;DLFSLDSEDPSPAS(1)PPLR ;;;; 289.58 4.41E-74 142647000 8678.4 9896.63 9929.44 9373.34 9656.8 11059.36 10026.12 10198.4 10529.83 9188.53 TRUE FALSE FALSE 9591.23393 10217.28731 11282.57237 9554.77455 8916.89807 10117.04031 8897.95459 9937.539695 10456.55206 9584.692496 1.000682488 1.066000533 1.17714495 0.99687857 0.930326985 1.05554146 0.928350554 1.036813617 1.090963749 1 13.22651643 -3.877338643 20.32869101 1.010743075 9.159900071 0 0.072697559 3713.448978 623795.5199 0.009116427 19188.78497 0.000132636 3.877338643 8.149156996 DLGEELEALK ddPTM_HeLa_SAHA_4h_R1 2 DLGEELEALK 10 0 P35579;P35749-4;P35749-3;P35749;P35749-2 P35579;P35749-4 MYH9;MYH11 Myosin-9;Myosin-11 0 0 ; ; 147.4 0.0046517 5017200 2358.9 1148.24 1099.09 1568.69 1285.47 2128.91 1703.47 1604.77 2357.7 1650.48 FALSE FALSE TRUE 2607.019925 1185.443729 1248.868261 1599.054263 1186.977566 1947.514891 1511.791072 1563.722307 2341.292574 1721.64027 1.514265187 0.688554833 0.725394429 0.928796968 0.689445749 1.131197338 0.878110891 0.908274704 1.359919731 1 10.74956801 -7.251718869 24.99549674 1.242847452 0.853933466 0.569987462 0.174153494 504.6339349 1297625.782 0.037178558 0.045231448 5.60E-08 7.251718869 -0.388913986 DLGGACPPQDHDMQGLAERIS(ph)VL ddPTM_HeLa_SAHA_4h_R1 1 DLGGACPPQDHDMQGLAERISVL 23 1 Q9BZL6-2;Q9BZL6;Q9BZL6-3 Q9BZL6-2 PRKD2 Serine/threonine-protein kinase D2 1 0 DLGGACPPQDHDMQGLAERIS(1)VL 89.08 0.0001445 2609700 613.11 843.59 616.25 706.38 714.34 1151.1 1150 631.58 693.93 747.64 TRUE FALSE FALSE 677.5997228 870.9228695 700.2293407 720.0530063 659.6074235 1053.019804 1020.598973 615.4250981 689.1008846 779.8744193 0.86885748 1.116747579 0.897874483 0.923293531 0.845786715 1.35024278 1.30867092 0.789133587 0.883604934 1 9.60709802 -5.276261722 24.84944636 0.940931868 1.165281296 0.278215288 0.158226872 640.5003674 1073788.988 0.021426739 0.048094145 5.29E-06 5.276261722 0.224349427 DLGHPVEEEDELES(ph)GDQEDEDDESEDPGKDLDHI ddPTM_HeLa_SAHA_4h_R1 1 DLGHPVEEEDELESGDQEDEDDESEDPGKDLDHI 34 1 O60763;O60763-2 O60763 USO1 General vesicular transport factor p115 1 0 DLGHPVEEEDELES(0.999)GDQEDEDDES(0.001)EDPGKDLDHI 70.461 2.08E-05 32073000 671.11 641.85 690.4 712.9 861.5 780.81 1102.9 752.54 751.92 801.69 TRUE FALSE FALSE 741.700429 662.6463611 784.4841166 726.6992104 795.4920561 714.2805953 978.7987893 733.2911165 746.6873275 836.2547793 0.886931169 0.792397697 0.938092237 0.868992595 0.951255617 0.854142318 1.170455241 0.876875247 0.892894541 1 9.707798741 DLGHPVEEEDELESGDQEDEDDESEDPGKDLDHI ddPTM_HeLa_SAHA_4h_R1 1 DLGHPVEEEDELESGDQEDEDDESEDPGKDLDHI 34 1 O60763;O60763-2 O60763 USO1 General vesicular transport factor p115 0 0 85.745 6.98E-08 2282200 350.9 324.53 296.11 256.08 437.36 339.55 327.13 372.58 338.86 324.41 FALSE FALSE TRUE 387.809272 335.0449849 336.4623287 261.0367987 403.8495713 310.6184297 290.3204714 363.0499431 336.5018457 338.3969027 1.146018976 0.990094715 0.994283121 0.771392399 1.193419822 0.917911563 0.857928867 1.072852441 0.994399898 1 8.402572554 -7.062503487 7.212017904 1.069084401 0.964351112 0.076014925 0.114950124 0.374592952 37.76220864 0.018745275 0.023066013 8.66E-08 7.062503487 -0.104733288 DLGLPTEAYIS(ph)VEEVHDDGTPTSK ddPTM_HeLa_SAHA_4h_R1 1 DLGLPTEAYISVEEVHDDGTPTSK 24 0 H3BNT7;H3BTM8;P51665 H3BNT7 PSMD7 26S proteasome non-ATPase regulatory subunit 7 1 0 DLGLPT(0.008)EAY(0.128)IS(0.748)VEEVHDDGT(0.071)PT(0.031)S(0.014)K 56.766 0.009485 3109900 1288.4 1674.7 1333.4 1667.2 1696.6 1933.6 1490.5 1585.3 1565.8 1429.5 TRUE FALSE FALSE 1423.919823 1728.961379 1515.108808 1699.471067 1566.606875 1768.846402 1322.785017 1544.750321 1554.90347 1491.132741 0.954924927 1.159495283 1.016079096 1.139718162 1.050615302 1.18624342 0.88710078 1.035957617 1.042766635 1 10.54219298 -7.300391118 24.94003651 0.978714543 1.065591808 0.110241637 0.083309139 595.4965434 381283.58 0.013282313 0.015189009 5.01E-08 7.300391118 0.086877264 DLGLPTEAYISVEEVHDDGTPTSK ddPTM_HeLa_SAHA_4h_R1 1 DLGLPTEAYISVEEVHDDGTPTSK 24 0 H3BNT7;H3BTM8;P51665 H3BNT7 PSMD7 26S proteasome non-ATPase regulatory subunit 7 0 0 141.08 6.64E-07 6126200 1548.8 1661.5 1281.9 1768.9 1847.3 1895.8 2123.4 1788.7 1944 1474.9 FALSE FALSE TRUE 1711.70989 1715.33369 1456.590656 1803.139617 1705.760273 1734.267175 1884.469444 1742.947644 1930.471546 1538.490157 1.112590732 1.114946158 0.946766315 1.172018949 1.108723553 1.127252694 1.224882353 1.132894894 1.254783163 1 10.5872995 -1.000000074 0.016671834 1.77E-11 2.47326505 0 0.097468406 2806.922945 3.648112461 211.6515016 344.9331868 0.099999983 1.000000074 2.47326505 DLGLSESGEDVNAAILDESGKK ddPTM_HeLa_SAHA_4h_R1 1 DLGLSESGEDVNAAILDESGKK 22 1 A0A499FI48;P13667 A0A499FI48 PDIA4 Protein disulfide-isomerase A4 0 0 172.57 5.03E-10 10560000 1534.2 1173.6 1164.9 1446.3 1230.1 1782.6 1529.4 1370.6 1451.2 1605.2 FALSE FALSE TRUE 1695.574195 1211.62541 1323.646505 1474.295228 1135.850004 1630.712451 1357.307887 1335.542037 1441.100981 1674.408028 1.012640985 0.723614191 0.790516101 0.880487434 0.678359148 0.973903866 0.810619553 0.797620421 0.860662967 1 10.70943542 -7.27701611 24.80789352 1.005969362 0.811509549 0.338473143 0.088551121 338.8752237 539700.0836 0.012019285 0.013770912 5.28E-08 7.27701611 -0.194459813 DLGSTEDGDGT(ph)DDFLTDKEDEK ddPTM_HeLa_SAHA_4h_R1 1 DLGSTEDGDGTDDFLTDKEDEK 22 1 Q15527 Q15527 SURF2 Surfeit locus protein 2 1 0 DLGST(0.001)EDGDGT(0.994)DDFLT(0.005)DKEDEK 117.22 2.66E-05 4731900 788.02 1042.4 1002.6 923.81 1026.8 1211.6 1171.2 1350.8 1504.6 825.54 TRUE FALSE FALSE 870.9075592 1076.174444 1139.229107 941.6916784 948.1268058 1108.364864 1039.413494 1316.248492 1494.129366 861.1330695 1.011350731 1.249719099 1.322942002 1.093549547 1.101022408 1.287100569 1.207030052 1.528507659 1.735073729 1 9.750092382 -1 0.186663944 0.95590524 2.999664266 0 0.258631484 28.20066245 0.312343461 0.128143138 16.62716519 0.1 1 2.043759026 DLGSTEDGDGTDDFLT(ph)DKEDEK ddPTM_HeLa_SAHA_4h_R1 2 DLGSTEDGDGTDDFLTDKEDEK 22 1 Q15527 Q15527 SURF2 Surfeit locus protein 2 1 0 DLGSTEDGDGT(0.03)DDFLT(0.969)DKEDEK;DLGSTEDGDGTDDFLT(1)DKEDEK ; 102.72 0.00017594 18828500 3135.5 3827.8 2692.3 3708.8 4006.7 8199 4270.8 7441.2 7389.7 4868.9 TRUE FALSE FALSE 3465.306276 3951.823232 3059.192623 3780.589187 3699.707512 7500.399074 3790.238344 7250.864879 7338.274476 5078.822107 0.68230511 0.778098376 0.602342937 0.744383069 0.728457787 1.476798934 0.74628295 1.427666637 1.444877242 1 12.31027823 -5.287196893 24.96950822 0.807041584 1.16985292 0.229357062 0.291986745 567.6522576 550285.1173 0.030785632 0.068860596 5.16E-06 5.287196893 0.362811336 DLGSTEDGDGTDDFLT(ph)DKEDEKAKPPR ddPTM_HeLa_SAHA_4h_R1 1 DLGSTEDGDGTDDFLTDKEDEKAKPPR 27 3 Q15527 Q15527 SURF2 Surfeit locus protein 2 1 0 DLGS(0.001)T(0.005)EDGDGT(0.05)DDFLT(0.944)DKEDEKAKPPR 41.853 0.014364 24192000 2616.2 2081.1 2466.6 2977.2 2824 2746.8 3210.8 2726.2 1602.8 2408.9 TRUE FALSE FALSE 2891.38392 2148.529005 2802.735402 3034.828011 2607.62573 2512.757187 2849.512334 2656.467751 1591.645984 2512.759468 1.150680738 0.855047621 1.11540139 1.207767019 1.037753817 0.999999092 1.134017151 1.057191421 0.633425525 1 11.29505686 -9.720543723 1.624586911 0.9999252 1.081704812 0.12335381 0.149095851 0.777416674 3.699356268 0.067204759 0.01463357 1.90E-10 9.720543723 0.081779611 DLHILPPPLIPT(ph)PPPDDPR ddPTM_HeLa_SAHA_4h_R1 2 DLHILPPPLIPTPPPDDPR 19 0 E9PK26;E9PMW6;Q9NRS6-2;Q9NRS6 E9PK26 SNX15 Sorting nexin-15 1 0 DLHILPPPLIPT(1)PPPDDPR;DLHILPPPLIPT(1)PPPDDPR ; 85.387 0.0037811 17301100 2307.4 3467.5 2818.6 3303 3377.7 194.557 3503.8 3194.6 4268.2 3169.4 TRUE FALSE FALSE 2550.102919 3579.849275 3202.704129 3366.934341 3118.901356 177.9796491 3109.543203 3112.886758 4238.497249 3306.048345 0.771344715 1.082818187 0.968740864 1.018416548 0.943392543 0.053834557 0.940561927 0.941573272 1.282043336 1 11.69089211 DLHQGIEAAS(ph)DEEDLR ddPTM_HeLa_SAHA_4h_R1 1 DLHQGIEAASDEEDLR 16 0 A0A0C4DGG1;Q9UKS6;E9PIY1 A0A0C4DGG1 PACSIN3 Protein kinase C and casein kinase substrate in neurons protein 3 1 0 DLHQGIEAAS(1)DEEDLR 91.276 0.0049468 3103200 1964.8 2536.1 1792.2 2478.7 2612.2 1154.8 2894.3 1990.2 3154.7 2139.9 TRUE FALSE FALSE 2171.466679 2618.271304 2036.431683 2526.678823 2412.0538 1056.404543 2568.625747 1939.293566 3132.746186 2232.161561 0.97280892 1.172975715 0.912313749 1.131942627 1.080591048 0.47326527 1.150734692 0.868796237 1.403458531 1 11.12422574 DLHQGIEAASDEEDLRWWR ddPTM_HeLa_SAHA_4h_R1 1 DLHQGIEAASDEEDLRWWR 19 1 A0A0C4DGG1;Q9UKS6;E9PIY1 A0A0C4DGG1 PACSIN3 Protein kinase C and casein kinase substrate in neurons protein 3 0 0 93.181 0.0011414 3461200 290.54 185.2 192.51 304.61 247.7 184.46 530.08 440.4 390.85 276.59 FALSE FALSE TRUE 321.1003302 191.2006015 218.7442603 310.506167 228.7212795 168.7429703 470.4340033 429.1352057 388.130043 288.5151485 1.112940974 0.662705589 0.758172531 1.076221365 0.792753104 0.584866934 1.630534846 1.487392284 1.345267467 1 8.172503259 -4.741640406 24.99994077 0.963338359 1.558964065 0.563729284 0.223023722 131.5291663 166077.7478 0.028688771 0.107048392 1.81E-05 4.741640406 0.595625706 DLIDFDDR ddPTM_HeLa_SAHA_4h_R1 2 DLIDFDDR 8 0 P15924-2;P15924-3;P15924 P15924-2 DSP Desmoplakin 0 0 ; ; 131.03 0.011001 3684800 4400.2 4977.8 3448.9 4920.6 5874.8 6432.1 5545.7 5412.1 6347 5637.9 FALSE FALSE TRUE 4863.033225 5139.083986 3918.898131 5015.845328 5424.674093 5884.048894 4921.683241 5273.666319 6302.83071 5880.97746 0.826909006 0.873848611 0.6663685 0.852893139 0.922410285 1.000522266 0.83688184 0.896732959 1.071731826 1 12.52184025 -9.306588778 1.023989932 1.000227968 0.857826729 0.39232723 0.084195037 0.55971114 1.048244762 0.057633301 0.015270601 4.94E-10 9.306588778 -0.142401238 DLIDNS(ph)FNR ddPTM_HeLa_SAHA_4h_R1 2 DLIDNSFNR 9 0 Q8IY81 Q8IY81 FTSJ3 pre-rRNA processing protein FTSJ3 1 0 DLIDNS(1)FNR;DLIDNS(1)FNR ; 122.18 0.0032991 10020600 1836.25 2349.29 1856.87 2517.4 2903 3050.3 2772.1 2724.5 3044.4 2436.7 TRUE FALSE FALSE 2029.3952 2425.408537 2109.914573 2566.127917 2680.572767 2790.397279 2460.176012 2654.811235 3023.213773 2541.758062 0.79842186 0.954224784 0.830100475 1.009587795 1.054613658 1.097821748 0.967903299 1.044478338 1.189418386 1 11.311611 -6.097453015 5.908747364 0.901959101 1.039162976 0.025499535 0.109411435 0.183924899 9.190636102 0.012424698 0.0208198 7.99E-07 6.097453015 0.137203875 DLIHDQDEDEEEEEGQR ddPTM_HeLa_SAHA_4h_R1 1 DLIHDQDEDEEEEEGQR 17 0 F2Z2K0;Q9UNZ2-4;Q9UNZ2;Q9UNZ2-5;R4GNE6 F2Z2K0 NSFL1C NSFL1 cofactor p47 0 0 194.58 2.60E-12 6022600 2043.1 2329 2003.1 2197.3 2151.3 2686.1 2310.1 2160.4 2536.2 2116.3 FALSE FALSE TRUE 2258.002632 2404.461128 2276.072036 2239.831919 1986.467859 2457.229168 2050.161468 2105.140096 2518.550378 2207.54405 1.022857339 1.089201879 1.031042636 1.014626149 0.899854233 1.113105384 0.928706935 0.953611819 1.140883407 1 11.10822651 -5.965556785 24.99996646 1.019718232 0.97763299 0.150413251 0.068854166 313.0516784 227221.3477 0.00808828 0.014661206 1.08E-06 5.965556785 -0.042085241 DLIQAAQK(ac)QMAHAVR ddPTM_HeLa_SAHA_4h_R1 2 DLIQAAQKQMAHAVR 15 1 E7EWD6;Q76L83;Q76L83-2 E7EWD6 ASXL2 Putative Polycomb group protein ASXL2 0 1 ; DLIQAAQK(1)QMAHAVR;DLIQAAQK(1)QMAHAVR 168.5 1.46E-10 1373300 861.83 748.54 797.47 961.19 1013.57 1086.27 1018.11 885.83 789.31 914.12 FALSE TRUE FALSE 952.4812336 772.7931871 906.1450586 979.7952224 935.9104856 993.7136848 903.5495833 863.1717513 783.8171274 953.5321868 0.998897831 0.810453174 0.950303588 1.027542894 0.981519553 1.042139635 0.947581629 0.905236093 0.822014336 1 9.897137828 DLISHDEMFSDIYK ddPTM_HeLa_SAHA_4h_R1 5 DLISHDEMFSDIYK 14 0 Q5W0H4;A0A0B4J2C3;P13693 Q5W0H4 TPT1 Translationally-controlled tumor protein 0 0 ;;;; ;;;; 194.86 6.29E-09 32093900 14178.26 15964.06 14004.72 16550.57 16383.24 17900.84 18679.48 14044.96 15610.49 14560.49 FALSE FALSE TRUE 15669.59444 16481.30602 15913.21031 16870.93021 15127.95969 16375.58772 16577.61575 13685.71026 15501.85533 15188.26398 1.031690946 1.085134288 1.04773069 1.110787265 0.996029547 1.078173763 1.09147535 0.901071398 1.020646951 1 13.89066936 -8.208437046 1.156654317 1.006211238 1.047712632 0.042858957 0.057342468 0.742385599 2.051097234 0.01472049 0.010860242 6.19E-09 8.208437046 0.041501394 DLISNS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 DLISNSPR 8 0 P19387 P19387 POLR2C DNA-directed RNA polymerase II subunit RPB3 1 0 DLIS(0.004)NS(0.996)PR 95.483 0.014145 6693100 2149 1797.2 1974.4 2147.1 1986.2 2018 2422.4 2464.9 1900.5 1817.5 TRUE FALSE FALSE 2375.04168 1855.430459 2243.46095 2188.660225 1834.017785 1846.055047 2149.825177 2401.851427 1887.274266 1895.86132 1.252750745 0.978674147 1.183346549 1.154441099 0.967379716 0.973728947 1.13395698 1.266891941 0.995470632 1 10.88863772 DLKIESDVQEPT(ph)EPEDDLDIMLGNK ddPTM_HeLa_SAHA_4h_R1 1 DLKIESDVQEPTEPEDDLDIMLGNK 25 1 P20042 P20042 EIF2S2 Eukaryotic translation initiation factor 2 subunit 2 1 0 DLKIESDVQEPT(1)EPEDDLDIMLGNK 71.946 0.00056033 3581300 671.89 606.92 641.77 581.92 797.6 710.07 684.84 598.14 616.54 365.28 TRUE FALSE FALSE 742.5624729 626.5846062 729.2270734 593.1839031 736.4880603 649.5680413 607.7800008 582.8404449 612.2494479 381.0290084 1.948834489 1.644453814 1.913836105 1.556794601 1.932892363 1.704773198 1.595101652 1.529648483 1.606831591 1 8.573757027 -9.379630016 1.034187407 0.987785425 1.744043691 0.20035735 0.235246892 0.201885439 0.37629123 0.114421682 0.027597786 4.17E-10 9.379630016 0.756258266 DLLEEEEAWEASHKNDLQDT(ph)EISPR ddPTM_HeLa_SAHA_4h_R1 1 DLLEEEEAWEASHKNDLQDTEISPR 25 1 Q9NS91 Q9NS91 RAD18 E3 ubiquitin-protein ligase RAD18 1 0 DLLEEEEAWEAS(0.011)HKNDLQDT(0.495)EIS(0.495)PR 61.963 0.0015334 4167700 701.58 1182.3 771.71 931.63 1026.6 1117.3 1233 990.6 1215 882.68 TRUE FALSE FALSE 775.3754034 1220.607296 876.8746199 949.6630458 947.9421298 1022.099754 1094.259595 965.2618864 1206.544716 920.7366545 0.842125052 1.325685569 0.95236202 1.031416574 1.02954751 1.110089133 1.188460989 1.04835827 1.310412386 1 9.846644771 -7.315025703 24.99993572 0.925447943 1.091140751 0 0.159370836 262.1357648 122295.1044 0.01829392 0.020919893 4.84E-08 7.315025703 0.165692808 DLLEEEEAWEASHKNDLQDTEIS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 DLLEEEEAWEASHKNDLQDTEISPR 25 1 Q9NS91 Q9NS91 RAD18 E3 ubiquitin-protein ligase RAD18 1 0 DLLEEEEAWEAS(0.02)HKNDLQDT(0.438)EIS(0.542)PR 65.795 0.0006625 2559200 389.11 664.91 704.27 632.01 791.49 824.88 735.66 529.73 1106 566.53 TRUE FALSE FALSE 430.0383751 686.4535203 800.2442479 644.2434675 730.8462072 754.5955834 652.8816006 516.1802736 1098.303256 590.9558808 0.727699629 1.161598594 1.354152271 1.090171853 1.236718731 1.276906801 1.104789074 0.873466684 1.858519885 1 9.206906616 -7.240945175 23.58617296 0.871413721 1.16754431 0 0.340525515 265.7307033 305821.5243 0.025797887 0.031570332 5.74E-08 7.240945175 0.296130589 DLLHNEDRHDDYFQER ddPTM_HeLa_SAHA_4h_R1 4 DLLHNEDRHDDYFQER 16 1 Q8N684-2;Q8N684;Q8N684-3 Q8N684-2 CPSF7 Cleavage and polyadenylation specificity factor subunit 7 0 0 ;;; ;;; 81.703 0.0035549 25312100 8109.8 7275.2 8171.2 8499.2 9123.3 5218.48 9367 6901 9546.8 8711.7 FALSE FALSE TRUE 8962.825973 7510.921253 9284.728582 8663.714306 8424.274725 4773.836146 8313.000507 6724.482413 9480.363042 9087.304021 0.986301983 0.826529104 1.021725317 0.953386646 0.927037844 0.5253303 0.914792824 0.739986513 1.043253645 1 13.14963663 -5.499496481 24.01562641 0.97774077 0.742290761 0.529463842 0.103483114 253.1223323 259978.126 0.0133551 0.029664444 3.17E-06 5.499496481 -0.235450009 DLLHPS(ph)PEEEK ddPTM_HeLa_SAHA_4h_R1 3 DLLHPSPEEEK 11 0 P42677 P42677 RPS27 40S ribosomal protein S27 1 0 DLLHPS(1)PEEEK;DLLHPS(1)PEEEK;DLLHPS(1)PEEEK ;; 117.27 0.0024162 53458000 12456.6 15343.6 9836.4 11392.6 14933.8 18527.7 14482 12819 19905.7 14235.9 TRUE FALSE FALSE 13766.84234 15840.74271 11176.85337 11613.12025 13789.57547 16949.03573 12852.44725 12491.10854 19767.17461 14849.67932 0.92708011 1.066739717 0.752666312 0.782045188 0.928610994 1.141373855 0.865503353 0.841170255 1.331151615 1 13.85814416 -8.54703923 0.567703483 1.000226342 0.908930141 0.155484177 0.154673577 1.926938681 1.252735658 0.083286795 0.031627467 2.84E-09 8.54703923 -0.091296201 DLLHPS(ph)PEEEKR ddPTM_HeLa_SAHA_4h_R1 2 DLLHPSPEEEKR 12 1 P42677 P42677 RPS27 40S ribosomal protein S27 1 0 DLLHPS(1)PEEEKR;DLLHPS(1)PEEEKR ; 102.5 0.0026621 29742000 4603.4 4762.8 4038.8 4802.1 4996.5 4910.6 5207.2 5004 5593.6 5301.4 TRUE FALSE FALSE 5087.606733 4917.117845 4589.186631 4895.051589 4613.669249 4492.189254 4621.272151 4876.004926 5554.673682 5529.969298 0.920006325 0.889176337 0.829875607 0.885186034 0.834302869 0.812335297 0.835677723 0.881741772 1.004467364 1 12.43305576 -7.755323001 0.519744815 0.996429908 0.836413653 0.861854058 0.024055991 0.194649259 0.127518524 0.011526042 0.008892313 1.76E-08 7.755323001 -0.160016254 DLLPSGSRDEPPPASQSTS(ph)QDCSQALKQSP ddPTM_HeLa_SAHA_4h_R1 1 DLLPSGSRDEPPPASQSTSQDCSQALKQSP 30 2 Q5JRA6-4;Q5JRA6-2;Q5JRA6 Q5JRA6-4 MIA3 Melanoma inhibitory activity protein 3 1 0 DLLPSGSRDEPPPAS(0.001)QS(0.004)T(0.076)S(0.415)QDCS(0.415)QALKQS(0.09)P 73.655 8.56E-05 5781100 191.53 406.89 276.36 282.24 409.39 393.18 328.79 279.76 313.05 424.12 TRUE FALSE FALSE 211.6760042 420.073503 314.0209016 287.7031633 378.0226266 359.678852 291.7936839 272.6041443 310.8714596 442.4058888 0.478465612 0.949520595 0.709802716 0.65031495 0.854470151 0.813006475 0.65956103 0.616185614 0.702683819 1 8.789226779 -9.641809273 1.478114488 0.999613423 0.690089853 0 0.155737547 0.337036425 1.326254823 0.101614153 0.023162178 2.28E-10 9.641809273 -0.30952357 DLLSDLQDIS(ph)DSER ddPTM_HeLa_SAHA_4h_R1 7 DLLSDLQDISDSER 14 0 P21127;A0A0D9SEN2;A0A0D9SER5;A0A0D9SEI3;P21127-6;P21127-9;P21127-2;P21127-8;P21127-3;Q9UQ88-3;Q5QPR3;Q5QPR4;Q9UQ88;Q9UQ88-2;Q9UQ88-4;P21127-10;P21127-5;E7ESP2;J3KS35;Q9UQ88-9 P21127 CDK11B;CDK11A Cyclin-dependent kinase 11B;Cyclin-dependent kinase 11A 1 0 DLLSDLQDIS(1)DSER;DLLSDLQDIS(0.92)DS(0.08)ER;DLLSDLQDIS(0.889)DS(0.111)ER;DLLSDLQDIS(0.773)DS(0.227)ER;DLLSDLQDIS(0.991)DS(0.009)ER;DLLSDLQDIS(0.934)DS(0.066)ER;DLLSDLQDIS(0.967)DS(0.033)ER ;;;;;; 262.73 4.23E-44 53348100 5471.29 7394.31 5936.607 6786.2 7961.112 8412.08 6949.09 7145.29 7730.81 7106.404 TRUE FALSE FALSE 6046.785385 7633.890496 6745.616885 6917.556714 7351.133318 7695.323459 6167.160104 6962.523828 7677.010664 7412.795854 0.815722637 1.02982608 0.909996312 0.933191315 0.991681609 1.038113501 0.831961412 0.939257463 1.035643071 1 12.85580207 -7.242968515 24.91643031 0.912980125 0.951039497 0 0.079900049 2304.516057 3108701.063 0.014360952 0.017574023 5.72E-08 7.242968515 0.038059373 DLLSDLQDISDS(ph)ER ddPTM_HeLa_SAHA_4h_R1 2 DLLSDLQDISDSER 14 0 P21127;A0A0D9SEN2;A0A0D9SER5;A0A0D9SEI3;P21127-6;P21127-9;P21127-2;P21127-8;P21127-3;Q9UQ88-3;Q5QPR3;Q5QPR4;Q9UQ88;Q9UQ88-2;Q9UQ88-4;P21127-10;P21127-5;E7ESP2;J3KS35;Q9UQ88-9 P21127 CDK11B;CDK11A Cyclin-dependent kinase 11B;Cyclin-dependent kinase 11A 1 0 DLLSDLQDIS(0.278)DS(0.722)ER;DLLSDLQDIS(0.214)DS(0.786)ER ; 180.56 5.62E-07 35106800 2501.14 2847.78 3047.48 2747.79 3365.7 3902.88 2987.11 3123.92 3701.63 3143.47 TRUE FALSE FALSE 2764.221381 2940.04994 3462.774704 2800.977449 3107.820793 3570.332667 2650.992521 3044.01465 3675.870055 3279.000375 0.843007339 0.896629949 1.056045839 0.854216873 0.947795193 1.088847898 0.808475821 0.92833617 1.12103374 1 11.67904035 DLLVSSGSNNSLPCGS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 DLLVSSGSNNSLPCGSPK 18 0 Q5THK1-3;Q5THK1-2;Q5THK1-4;Q5THK1 Q5THK1-3 PRR14L Protein PRR14L 1 0 DLLVSSGSNNSLPCGS(0.999)PK;DLLVSSGSNNS(0.023)LPCGS(0.977)PK ; 237 1.34E-29 11287800 3532.7 3413.6 2736.4 3437.4 3663 3561.2 3626.4 3596 3472.9 3501.7 TRUE FALSE FALSE 3904.285595 3524.20288 3109.302341 3503.935848 3382.341731 3257.765725 3218.347928 3504.019527 3448.731806 3652.675424 1.068883802 0.964827824 0.851239703 0.959279279 0.925990223 0.89188481 0.881093323 0.959302188 0.944165962 1 11.83473785 -7.023111045 5.891554204 1.032011208 0.911512164 0.43651864 0.044555613 0.074262638 8.699669885 0.006326972 0.007965234 9.48E-08 7.023111045 -0.120499044 DLMVGDEASELR ddPTM_HeLa_SAHA_4h_R1 3 DLMVGDEASELR 12 0 P61160 P61160 ACTR2 Actin-related protein 2 0 0 ;; ;; 206.73 6.51E-10 17858800 8787.27 9818.58 10587.14 11644.69 11621.62 12574.23 13628.48 12726.4 13865.65 12037.17 FALSE FALSE TRUE 9711.555376 10136.70843 12029.9003 11870.08981 10731.17399 11502.83486 12094.96756 12400.87712 13769.15781 12556.15131 0.773450012 0.807310153 0.958088192 0.945360527 0.854654721 0.91611152 0.963270294 0.987633616 1.096606554 1 13.6161067 DLNES(ph)PVK ddPTM_HeLa_SAHA_4h_R1 2 DLNESPVK 8 0 Q96RL1-2;Q96RL1;Q96RL1-3;Q96RL1-4 Q96RL1-2 UIMC1 BRCA1-A complex subunit RAP80 1 0 DLNES(1)PVK;DLNES(1)PVK ; 110.93 0.0061269 138302000 7995.6 10243.1 7089.3 8012.3 9337.3 10257.5 9107 7673.9 12237 9250.8 TRUE FALSE FALSE 8836.613893 10574.98316 8055.392885 8167.389652 8621.878091 9383.503293 8082.256392 7477.61275 12151.84172 9649.64726 0.915744758 1.095893236 0.834786254 0.84639256 0.89349153 0.972419306 0.837570138 0.774910476 1.259304241 1 13.23626049 -6.705285457 24.99999965 0.969278178 0.864935544 0.338564202 0.112441418 71.71923472 31929.39717 0.010740853 0.015189856 1.97E-07 6.705285457 -0.104342634 DLNHVCVISETGK(ac)AK ddPTM_HeLa_SAHA_4h_R1 2 DLNHVCVISETGKAK 15 1 P00492 P00492 HPRT1 Hypoxanthine-guanine phosphoribosyltransferase 0 1 ; DLNHVCVISETGK(1)AK;DLNHVCVISETGK(1)AK 161.84 4.56E-07 4659700 1567.76 1678.9 1659.88 1699.51 1846.07 2089.8 2189.89 1795.47 1963.34 1974.53 FALSE TRUE FALSE 1732.66419 1733.297462 1886.079802 1732.406474 1704.624515 1911.737283 1943.477814 1749.544477 1949.676957 2059.661651 0.841237292 0.841544756 0.915723124 0.841112166 0.827623563 0.928180258 0.943590814 0.849432952 0.946600601 1 11.00819164 -9.350781421 1.034764091 1.001185897 0.873247095 0.455450494 0.042278279 0.313648421 0.592300808 0.029698228 0.007473026 4.46E-10 9.350781421 -0.127938802 DLNT(ph)ATRMTAQNAMT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 DLNTATRMTAQNAMTK 16 1 H3BVF2;H3BQA9;H3BST3;Q9UBI4-6;Q9UBI4-4;Q9UBI4-2;Q9UBI4-5;Q9UBI4-3;Q9UBI4 H3BVF2 STOML1 Stomatin-like protein 1 2 0 DLNT(0.465)AT(0.465)RMT(0.07)AQNAMT(1)K 70.412 0.0073161 0 574.97 859.38 577.3 752.08 646.32 511.12 673.09 498.29 558.42 467.2 TRUE FALSE FALSE 635.4479827 887.2244759 655.9714376 766.6375959 596.7991012 467.5697005 597.3521417 485.5444633 554.5339098 487.3432784 1.30390222 1.820532908 1.346015153 1.573095659 1.224596968 0.959425771 1.225731775 0.996308936 1.137871259 1 8.928794536 -3.219299294 14.39667875 1.21964149 1.142861302 0 0.261084387 0 0 0.037743915 0 0.000603533 3.219299294 -0.076780189 DLNYCFSGMSDHR ddPTM_HeLa_SAHA_4h_R1 1 DLNYCFSGMSDHR 13 0 P31943;G8JLB6;E9PCY7;H0YB39;H0YBD7;P55795;H0YBG7 P31943 HNRNPH1;HNRNPH2 "Heterogeneous nuclear ribonucleoprotein H;Heterogeneous nuclear ribonucleoprotein H, N-terminally processed;Heterogeneous nuclear ribonucleoprotein H2" 0 0 94.692 0.0083895 0 225.58 154.92 159.37 219.82 363.98 355.08 334.65 336.85 359.69 284.04 FALSE FALSE TRUE 249.3075394 159.9395096 181.0881136 224.074934 336.091931 324.8251864 296.9943012 328.2338648 357.186888 296.2863545 0.841441179 0.539813958 0.611192891 0.756278278 1.134348329 1.09632179 1.002389401 1.107826465 1.205546198 1 8.210848374 -5.754567583 24.99613939 0.854558404 1.08009782 0.326777972 0.179577687 169.6086962 616945.4367 0.025992613 0.051075453 1.76E-06 5.754567583 0.225539417 DLPEHAVLK ddPTM_HeLa_SAHA_4h_R1 4 DLPEHAVLK 9 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;Q5RI18;A0A1W2PP34;A0A1W2PPH7;A0A1W2PPL4;A0A1W2PQL0;A0A1W2PQ74;A0A1W2PQD4;A0A1W2PRZ7 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 0 ;;; ;;; 124.92 0.0031188 19613000 20740.7 20803 21938.5 23446.3 21158.5 17805.9 23487.1 19566.88 16667.64 16859.3 FALSE FALSE TRUE 22922.30199 21477.03085 24928.16453 23900.13704 19537.3403 16288.73715 20844.26969 19066.38754 16551.64854 17586.18693 1.303426495 1.221244317 1.417485475 1.359028943 1.110948063 0.92622336 1.18526374 1.084168366 0.94117324 1 14.10215509 -5.533561454 24.93362669 1.191273198 1.067450101 0.153139905 0.150343136 365.3216915 852665.8562 0.024193905 0.048427863 2.93E-06 5.533561454 -0.123823097 DLPEHAVLK(ac)MK ddPTM_HeLa_SAHA_4h_R1 1 DLPEHAVLKMK 11 1 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;Q5RI18;A0A1W2PP34;A0A1W2PPH7;A0A1W2PPL4;A0A1W2PQL0;A0A1W2PQ74;A0A1W2PQD4;A0A1W2PRZ7 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 1 DLPEHAVLK(1)MK 110.39 0.0090148 1369100 2655.6 2679.7 2126.3 2568.8 2445.4 2421 3166.2 2951.8 2473.3 2511.7 FALSE TRUE FALSE 2934.928192 2766.524038 2416.061091 2618.522839 2258.03398 2214.71718 2809.930843 2876.29723 2456.088104 2619.991679 1.120205158 1.055928559 0.92216365 0.999439372 0.861847768 0.845314585 1.072496094 1.097826857 0.937441185 1 11.35534651 -6.779180266 23.52633594 1.058286996 0.962561958 0.065245017 0.088940923 144.8404515 192073.4802 0.014539877 0.01913777 1.66E-07 6.779180266 -0.095725038 DLPEWEPR ddPTM_HeLa_SAHA_4h_R1 1 DLPEWEPR 8 0 O94964-2;H0YDM2;O94964;X6R3R3;O94964-4 O94964-2 SOGA1 Protein SOGA1;N-terminal form;C-terminal 80 kDa form 0 0 98.299 0.0027051 0 3772.7 3237.2 3424 3372.1 3764.7 3976.5 3679.5 3454.7 3612.6 3741 FALSE FALSE TRUE 4169.529896 3342.087404 3890.604889 3437.371872 3476.249499 3637.679829 3265.472976 3366.333776 3587.459622 3902.292818 1.068482067 0.856441984 0.997004856 0.880859544 0.890822309 0.932190381 0.836808801 0.86265535 0.919320971 1 11.93010632 -7.262431257 24.99713968 1.032338755 0.896462905 0.35067853 0.057522877 41.02843709 1033987.917 0.008089428 0.009536425 5.46E-08 7.262431257 -0.135875849 DLPPFGINS(ph)PQALK ddPTM_HeLa_SAHA_4h_R1 1 DLPPFGINSPQALK 14 0 A0A2R8Y661;A0A2R8YGD3;Q9Y4G8;H0Y8H7 A0A2R8Y661 RAPGEF2 Rap guanine nucleotide exchange factor 2 1 0 DLPPFGINS(1)PQALK 95.067 0.0067985 1984300 735.45 663.03 392.24 634.14 826.01 825.09 662.72 836.46 823.83 811.32 TRUE FALSE FALSE 812.8080054 684.512607 445.6924245 646.4146967 762.7212923 754.7876902 588.1490014 815.0645644 818.0969 846.2999757 0.960425415 0.808829761 0.526636461 0.763812732 0.901242248 0.891867791 0.694965164 0.963091797 0.966674848 1 9.725025315 -7.265922448 4.473846046 0.982300444 0.784825382 0.346310494 0.115236973 0.156834544 8.248085781 0.019821871 0.023389265 5.42E-08 7.265922448 -0.197475063 DLPS(ph)PDSR ddPTM_HeLa_SAHA_4h_R1 1 DLPSPDSR 8 0 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 1 0 DLPS(1)PDSR 125.68 0.0026699 21047000 2782.5 2936.7 2403.7 2456.6 2721.2 3507.2 3202.2 2718.8 2752.7 2959 TRUE FALSE FALSE 3075.176117 3031.851007 2731.263718 2504.151045 2512.702244 3208.366829 2841.880028 2649.257033 2733.543737 3086.576971 0.996306311 0.982269691 0.88488437 0.811303612 0.814074059 1.039457904 0.920722229 0.858315557 0.885623058 1 11.59179205 -6.806512195 4.965566515 0.997646513 0.889439347 0.179942688 0.069923259 0.148683806 8.150204663 0.010085684 0.013543143 1.56E-07 6.806512195 -0.108207166 DLPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 DLPSPK 6 0 C9JA69;Q8WY36-2;Q8WY36;C9JYU6;C9JZA0;C9J8D0;Q8WY36-3 C9JA69 BBX HMG box transcription factor BBX 1 0 DLPS(1)PK 109.48 0.01075 4698100 3692.5 3983.6 3423.3 3554 3840.6 3672.7 3386.9 3542.2 3848.8 3382.7 TRUE FALSE FALSE 4080.894092 4112.671254 3889.809496 3622.792809 3546.334058 3359.765298 3005.797098 3451.595653 3822.015887 3528.544752 1.156537434 1.165543175 1.102383495 1.026710178 1.005041542 0.952167405 0.851851772 0.978192398 1.083170586 1 11.78485759 -5.558224474 1.544456947 1.084985674 0.915136682 0.654065497 0.054039248 0.253615474 1.191086117 0.011180871 0.031539548 2.77E-06 5.558224474 -0.169848992 DLPS(ph)PLPTK ddPTM_HeLa_SAHA_4h_R1 2 DLPSPLPTK 9 0 H7C4E7;Q9Y534 H7C4E7 CSDC2 Cold shock domain-containing protein C2 1 0 DLPS(0.967)PLPT(0.033)K;DLPS(0.993)PLPT(0.007)K ; 118.77 0.0038442 30728000 6377.3 7204.1 5568.4 7782 8266.9 8404.7 7029 7835.9 9745.4 6687.3 TRUE FALSE FALSE 7048.093674 7437.517567 6327.232553 7932.631863 7633.491908 7688.572276 6238.078421 7635.469024 9677.580968 6975.62223 1.010389244 1.066215647 0.907049199 1.137193443 1.09430982 1.102205943 0.894268384 1.094593252 1.387343043 1 12.7681062 -6.249251128 24.99618564 1.003932193 1.058805362 0 0.14070133 1251.100162 2565809.227 0.010302873 0.017009811 5.63E-07 6.249251128 0.054873169 DLPTIPGVTSPSSDEPPMEAS(ph)QSHLRNSPEDK ddPTM_HeLa_SAHA_4h_R1 2 DLPTIPGVTSPSSDEPPMEASQSHLRNSPEDK 32 1 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 1 0 DLPTIPGVT(0.005)S(0.005)PS(0.015)S(0.015)DEPPMEAS(0.752)QS(0.181)HLRNS(0.026)PEDK;DLPTIPGVT(0.001)S(0.001)PS(0.004)S(0.004)DEPPMEAS(0.548)QS(0.221)HLRNS(0.221)PEDK ; 59.372 0.0011956 13828000 2275.53 3019.1 1741.79 2866 4085.7 5715.6 3174.3 4108.4 4132.3 3083.7 TRUE FALSE FALSE 2514.880686 3116.920821 1979.15207 2921.475574 3772.654549 5228.598725 2817.11941 4003.313077 4103.542988 3216.653398 0.781831417 0.968994926 0.615282974 0.908234495 1.172850812 1.625477811 0.87579203 1.244558422 1.275718108 1 11.65134478 -5.737706211 4.722433798 0.876989342 1.238204091 0.281315802 0.23299654 0.142347375 7.707918371 0.028630295 0.056757586 1.83E-06 5.737706211 0.361214749 DLPTIPGVTSPSSDEPPMEASQS(ph)HLRNSPEDKR ddPTM_HeLa_SAHA_4h_R1 1 DLPTIPGVTSPSSDEPPMEASQSHLRNSPEDKR 33 2 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 1 0 DLPTIPGVTSPS(0.001)S(0.003)DEPPMEAS(0.313)QS(0.37)HLRNS(0.313)PEDKR 55.046 0.0016174 16378000 1301.7 1846.1 794.36 1697 2564.5 2962.6 1708 2042 2310.4 1754.4 TRUE FALSE FALSE 1438.618778 1905.914851 902.611244 1729.847889 2368.008564 2710.169813 1515.811345 1989.768597 2294.321738 1830.04077 0.786112967 1.041460323 0.4932192 0.945251012 1.293964923 1.480934118 0.828293757 1.087281021 1.253699795 1 10.83766007 -5.905955777 6.551740972 0.87502047 1.167985358 0.201536768 0.240110358 0.208491048 12.30124758 0.031456866 0.057392398 1.24E-06 5.905955777 0.292964888 DLPTIPGVTSPSSDEPPMEASQSHLRNS(ph)PEDKR ddPTM_HeLa_SAHA_4h_R1 2 DLPTIPGVTSPSSDEPPMEASQSHLRNSPEDKR 33 2 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 1 0 DLPTIPGVT(0.006)S(0.006)PS(0.03)S(0.03)DEPPMEAS(0.192)QS(0.214)HLRNS(0.523)PEDKR;DLPTIPGVT(0.001)S(0.001)PS(0.003)S(0.021)DEPPMEAS(0.179)QS(0.179)HLRNS(0.618)PEDKR ; 46.252 0.012076 25083100 1389.44 2266.99 1325.43 2023.98 3447.9 3903.2 2390.78 2487.69 2790.8 2540.43 TRUE FALSE FALSE 1535.587674 2340.441963 1506.052698 2063.15706 3183.722647 3570.625401 2121.763142 2424.058492 2771.378596 2649.96037 0.579475713 0.883198855 0.568330272 0.778561477 1.201422739 1.347425962 0.800677311 0.914752733 1.045818884 1 11.37175507 -5.778831218 24.65058607 0.782757537 1.067209942 0.275819515 0.201151972 201.8685788 286121.2818 0.032518459 0.05904866 1.66E-06 5.778831218 0.284452405 DLQAALTPGALTAAAAGTGT(ph)QGPR ddPTM_HeLa_SAHA_4h_R1 2 DLQAALTPGALTAAAAGTGTQGPR 24 0 P55042 P55042 RRAD GTP-binding protein RAD 1 0 DLQAALTPGALT(0.002)AAAAGT(0.005)GT(0.993)QGPR;DLQAALTPGALTAAAAGT(0.001)GT(0.999)QGPR ; 91.076 0.00013555 26115000 3826 3326.53 3036.99 3494.91 3509.24 3795.95 3755.35 3628.8 3701.51 3597.8 TRUE FALSE FALSE 4228.436234 3434.311755 3450.855181 3562.559037 3240.362789 3472.513705 3332.788134 3535.98055 3675.750891 3752.918765 1.126706038 0.915104208 0.919512357 0.949276885 0.863424708 0.925283472 0.888052298 0.942194801 0.979437904 1 11.87379735 -7.243089376 23.99332042 1.059833405 0.913619056 0.590658831 0.044664982 217.6004208 284520.8374 0.00842414 0.010305565 5.71E-08 7.243089376 -0.146214348 DLQEQDADAGS(ph)ER ddPTM_HeLa_SAHA_4h_R1 3 DLQEQDADAGSER 13 0 A0A087WW12;A0A087WZ11;Q6P158-3;Q6P158-2;Q6P158 A0A087WW12 DHX57 Putative ATP-dependent RNA helicase DHX57 1 0 DLQEQDADAGS(1)ER;DLQEQDADAGS(1)ER;DLQEQDADAGS(1)ER ;; 276.75 5.91E-55 86638000 4869.62 5307.75 3890.37 5441.58 5932.6 6599.66 5192.62 5338.01 7061.72 5430.22 TRUE FALSE FALSE 5381.828974 5479.724583 4420.529363 5546.90965 5478.04547 6037.331839 4608.332731 5201.471434 7012.576916 5664.343359 0.950124071 0.967406853 0.780413383 0.979267904 0.967110417 1.065848494 0.813568747 0.918283216 1.238021156 1 12.46769301 -8.308855292 0.802873825 0.994354397 0.928302493 0.175887825 0.109490209 0.96797075 1.327293427 0.029684274 0.017448471 4.91E-09 8.308855292 -0.066051905 DLQS(ph)PDFTTGFHSDK ddPTM_HeLa_SAHA_4h_R1 1 DLQSPDFTTGFHSDK 15 0 E9PDR5;E7EPI0;Q9P2D0-2;Q9P2D0 E9PDR5 IBTK Inhibitor of Bruton tyrosine kinase 1 0 DLQS(0.989)PDFT(0.006)T(0.005)GFHSDK 78.674 0.012671 3775200 755.57 904.02 648.17 972.83 871.54 1264.1 1020.4 702.57 1206 1092.5 TRUE FALSE FALSE 835.0443193 933.3108411 736.4992321 991.6605314 804.7627935 1156.391568 905.5819065 684.5992767 1197.607348 1139.603022 0.73275018 0.818978911 0.646277009 0.870180679 0.706178185 1.014731925 0.794646811 0.600734873 1.050898712 1 10.15431564 -9.319390392 0.940426677 1.005962447 0.777279676 0.438518572 0.112521996 0.513132415 0.778997888 0.082640764 0.019775863 4.79E-10 9.319390392 -0.22868277 DLS(ph)LEEIQK ddPTM_HeLa_SAHA_4h_R1 4 DLSLEEIQK 9 0 P16949;P16949-2;A2A2D0;E5RGX5;Q93045;Q93045-2 P16949;E5RGX5 STMN1;STMN2 Stathmin;Stathmin-2 1 0 DLS(1)LEEIQK;DLS(1)LEEIQK;DLS(1)LEEIQK;DLS(1)LEEIQK ;;; 154.15 0.00024855 34467900 5818.8 6122.9 5612.1 5879.1 6651 6515.9 6835.2 6263 6869.3 6371.2 TRUE FALSE FALSE 6430.848082 6321.285977 6376.887761 5992.898482 6141.401817 5960.708663 6066.085307 6102.801529 6821.495982 6645.893612 0.967642345 0.951156661 0.959522998 0.901744571 0.924089697 0.896901005 0.912756908 0.918281556 1.026422688 1 12.69824748 -6.950173653 0.517372546 0.995151002 0.903604422 0.846174353 0.016068094 0.188019563 0.11291128 0.004155428 0.006406594 1.12E-07 6.950173653 -0.09154658 DLS(ph)MSEEDQMMR ddPTM_HeLa_SAHA_4h_R1 2 DLSMSEEDQMMR 12 0 Q7Z6Z7-2;Q7Z6Z7-3;Q7Z6Z7 Q7Z6Z7-2 HUWE1 E3 ubiquitin-protein ligase HUWE1 1 0 DLS(0.998)MS(0.002)EEDQMMR;DLS(0.553)MS(0.447)EEDQMMR ; 192.4 4.40E-07 9921900 1275.15 909.79 855.4 832.24 1264.67 1182.89 1170.04 1146.78 919.34 922.57 TRUE FALSE FALSE 1409.276128 939.2677929 971.9694573 848.3492086 1167.771258 1082.101117 1038.38402 1117.447028 912.9422381 962.3465076 1.464416524 0.97601829 1.009999464 0.881542357 1.213462353 1.124440218 1.079012613 1.1611691 0.948662702 1 9.910412642 DLS(ph)PEPAPDEGPR ddPTM_HeLa_SAHA_4h_R1 1 DLSPEPAPDEGPR 13 0 Q8TBE0-3;Q8TBE0-2;Q8TBE0 Q8TBE0-3 BAHD1 Bromo adjacent homology domain-containing 1 protein 1 0 DLS(1)PEPAPDEGPR 139.86 0.00039858 8321000 675.97 483 387.71 503.07 671.96 840.21 639.23 627.49 737.82 503.99 TRUE FALSE FALSE 747.0716261 498.6495169 440.5450997 512.8076473 620.47457 768.6193811 567.302158 611.4397144 732.6854505 525.7194754 1.42104613 0.948508739 0.837985124 0.9754397 1.18023889 1.462033303 1.079096713 1.163053193 1.393681393 1 9.038149371 -9.876421021 2.013788392 0.998720934 1.185000863 0 0.226624146 0.716390538 5.26480412 0.169943057 0.033624177 1.33E-10 9.876421021 0.186279929 DLS(ph)PEPAPDEGPRR ddPTM_HeLa_SAHA_4h_R1 1 DLSPEPAPDEGPRR 14 1 Q8TBE0-3;Q8TBE0-2;Q8TBE0 Q8TBE0-3 BAHD1 Bromo adjacent homology domain-containing 1 protein 1 0 DLS(1)PEPAPDEGPRR 158.86 3.71E-05 6635400 525.24 503.72 487.57 697.8 661.05 943.95 689.26 731.26 663.13 434.5 TRUE FALSE FALSE 580.4871531 520.0408585 554.0135004 711.306928 610.4004918 863.5201495 611.7026508 712.5554281 658.5152243 453.2334214 1.280768641 1.147401833 1.222358004 1.569405288 1.346768493 1.905243763 1.349641535 1.572159939 1.452927329 1 8.824110439 -6.681668973 0.279752464 0.980570268 1.707209293 0.236318188 0.212088191 1.110885527 0.23166896 0.15915237 0.302701803 2.08E-07 6.681668973 0.726639025 DLS(ph)PQHMVVR ddPTM_HeLa_SAHA_4h_R1 1 DLSPQHMVVR 10 0 A0A2R8Y5E8;A0A2R8Y3N3;A0A2R8Y5P7;P49590-2;P49590;D6RB22 A0A2R8Y5E8 HARS2 "Probable histidine--tRNA ligase, mitochondrial" 1 0 DLS(1)PQHMVVR 78.964 0.021332 11581000 2403.8 2802.4 2321.2 1638.9 2247.7 2286.7 3052.4 2218.7 2444 2357.1 TRUE FALSE FALSE 2656.642713 2893.199599 2637.521048 1670.623279 2075.481712 2091.860295 2708.935919 2161.948867 2426.992005 2458.726116 1.080495585 1.176706742 1.072718523 0.679467009 0.844128875 0.850790286 1.101763999 0.879296337 0.987093271 1 11.26369532 DLS(ph)PTLIDNSAAK ddPTM_HeLa_SAHA_4h_R1 2 DLSPTLIDNSAAK 13 0 Q9P2B4 Q9P2B4 CTTNBP2NL CTTNBP2 N-terminal-like protein 1 0 DLS(1)PTLIDNSAAK;DLS(0.991)PT(0.006)LIDNS(0.003)AAK ; 222.56 1.07E-16 59640000 3940.6 4550 3870.8 4835.9 5448.2 6472.9 5249.4 4937.5 6017.6 4443.7 TRUE FALSE FALSE 4355.090388 4697.422985 4398.292466 4929.505837 5030.760093 5921.372504 4658.723696 4811.205899 5975.723032 4635.289654 0.939550862 1.013404412 0.948871116 1.063473096 1.085317309 1.277454689 1.005055572 1.037951511 1.289180068 1 12.17844378 -6.071047513 3.027511803 0.972984965 1.106030981 0 0.122041948 0.18811767 3.380765649 0.010749051 0.019198115 8.49E-07 6.071047513 0.133046015 DLS(ph)SEGQTK ddPTM_HeLa_SAHA_4h_R1 1 DLSSEGQTK 9 0 Q7L2Z9 Q7L2Z9 CENPQ Centromere protein Q 1 0 DLS(0.986)S(0.014)EGQTK 100.09 0.0061661 0 963.83 1135.7 893.2 1159.4 1214.6 1590.9 1430.1 1344.2 1421.9 1351.2 TRUE FALSE FALSE 1065.210062 1172.497425 1014.920644 1181.841864 1121.53761 1455.34637 1269.181384 1309.81731 1412.004882 1409.456845 0.75575926 0.831878911 0.720079262 0.838508726 0.795723271 1.032558305 0.900475519 0.929306431 1.001807815 1 10.46092359 -5.270241136 24.92421748 0.856782772 0.948749631 0.21073969 0.092115022 963.4084973 2728116.662 0.015817256 0.035862358 5.37E-06 5.270241136 0.091966858 DLS(ph)TPGLEK ddPTM_HeLa_SAHA_4h_R1 3 DLSTPGLEK 9 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 DLS(0.932)T(0.068)PGLEK;DLS(0.939)T(0.061)PGLEK;DLS(0.5)T(0.5)PGLEK ;; 139.86 0.0010892 135530000 14947.9 17059 14743.6 10690.7 14620.3 19139.1 16510.8 8706.3 10465.5 14628.7 TRUE FALSE FALSE 16520.18871 17611.72279 16752.78103 10897.63396 13500.09577 17508.34101 14652.96133 8483.605453 10392.66973 15259.41485 1.082622687 1.154154531 1.097865232 0.71415805 0.884705993 1.14737958 0.960257092 0.555958766 0.681066072 1 13.89741202 -6.289654286 24.9465564 1.054486873 0.87665114 0.10027895 0.190949003 760.7257684 672603.4831 0.023263587 0.03554022 5.13E-07 6.289654286 -0.177835733 DLSELGSVR ddPTM_HeLa_SAHA_4h_R1 2 DLSELGSVR 9 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 129.42 0.012853 8443400 3789 3802.9 3955.9 3698.1 3560 4071.7 4390.2 3594.8 3848.6 3039.5 FALSE FALSE TRUE 4187.544405 3926.116455 4494.989451 3769.682073 3287.233569 3724.768253 3896.203142 3502.850221 3821.817279 3170.54772 1.320763721 1.238308583 1.417732785 1.188968723 1.036803057 1.174802773 1.228873837 1.104809178 1.205412319 1 11.63051638 -9.479922864 1.236883349 1.000716964 1.225148047 0.014271576 0.1175059 0.392511833 1.07975099 0.073797215 0.018316187 3.31E-10 9.479922864 0.224431082 DLSLEEIQK ddPTM_HeLa_SAHA_4h_R1 4 DLSLEEIQK 9 0 P16949;P16949-2;A2A2D0;E5RGX5;Q93045;Q93045-2 P16949;E5RGX5 STMN1;STMN2 Stathmin;Stathmin-2 0 0 ;;; ;;; 146.69 0.00018309 29743000 5458.81 5446.93 5047.14 5672.77 5149.37 6349.46 5727.17 6244.91 6448.16 4752.06 FALSE FALSE TRUE 6032.992682 5623.414106 5734.937955 5782.574666 4754.826383 5808.450287 5082.733759 6085.174245 6403.28673 4956.944563 1.217078909 1.134451684 1.15695019 1.166560286 0.959225249 1.171780361 1.025376357 1.22760587 1.291780985 1 12.27523541 -9.575561327 1.37572384 1.000444061 1.138424768 0 0.119367785 0.428858777 1.462675423 0.05411191 0.01283343 2.66E-10 9.575561327 0.137980707 DLSQESSSTAPGSEVTIKQEPVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 DLSQESSSTAPGSEVTIKQEPVSPK 25 1 E7EWM1;Q15596 E7EWM1 NCOA2 Nuclear receptor coactivator 2 1 0 DLSQESSSTAPGSEVT(0.003)IKQEPVS(0.997)PK 109.92 9.51E-07 6616000 1963.4 1086.1 1798.4 1259.9 1432.3 1463.4 1721.4 2085.9 746.56 1348 TRUE FALSE FALSE 2169.91942 1121.290353 2043.476586 1284.287186 1322.557483 1338.710087 1527.703542 2032.545698 741.3646282 1406.118877 1.543197703 0.797436384 1.453274414 0.913356052 0.940573023 0.952060391 1.086468268 1.445500613 0.527241786 1 10.45750285 -7.260863872 24.99999565 1.25651002 1.081220763 0 0.331081111 106.1758015 4612277.401 0.046245057 0.054835491 5.48E-08 7.260863872 -0.175289258 DLSS(ph)SPPGPYGQEMYAFR ddPTM_HeLa_SAHA_4h_R1 3 DLSSSPPGPYGQEMYAFR 18 0 O43741;O43741-2 O43741 PRKAB2 5-AMP-activated protein kinase subunit beta-2 1 0 DLSS(0.569)S(0.431)PPGPYGQEMYAFR;DLS(0.005)S(0.497)S(0.497)PPGPYGQEMYAFR;DLS(0.005)S(0.498)S(0.498)PPGPYGQEMYAFR ;; 195.89 1.86E-13 56581800 5124.92 5445.02 4312.59 4716 5719.3 6520.8 5809.3 5477.7 5269.96 5595.9 TRUE FALSE FALSE 5663.9826 5621.442221 4900.287306 4807.284999 5281.08847 5965.191155 5155.622275 5337.588366 5233.285919 5837.166635 0.970330805 0.963042958 0.839497587 0.823564805 0.904734917 1.021932648 0.883240551 0.914414253 0.896545575 1 12.51105254 -6.947699186 8.628335427 0.984995495 0.899757055 0.152218809 0.057568757 0.235425706 35.63378037 0.00863595 0.011352771 1.13E-07 6.947699186 -0.08523844 DLST(ph)PGLEK ddPTM_HeLa_SAHA_4h_R1 2 DLSTPGLEK 9 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 DLS(0.074)T(0.926)PGLEK;DLS(0.071)T(0.929)PGLEK ; 153.1 0.00051676 27039000 13268.9 13147.1 11279.5 14587 14734.7 14939.3 12544.6 13098.2 14229.1 12539.3 TRUE FALSE FALSE 14664.58378 13573.07467 12816.61152 14869.35248 13605.73047 13666.38759 11133.04859 12763.16701 14130.07853 13079.93059 1.121151499 1.037702347 0.979868466 1.136806681 1.040198981 1.0448364 0.851155021 0.975782472 1.080286966 1 13.67506726 -4.826754881 8.224173469 1.055444544 0.91389945 0.527790469 0.053609778 0.14701381 16.42754555 0.008271274 0.025074419 1.49E-05 4.826754881 -0.141545095 DLT(ph)DYLMK ddPTM_HeLa_SAHA_4h_R1 1 DLTDYLMK 8 0 P60709;A0A2R8Y793;P63267-2;Q562R1;A0A2R8YEA7;P63267;P68133;P68032;P62736;P63261;I3L3I0;I3L1U9;I3L4N8 P60709;P63267;P63261 ACTB;ACTG2;ACTBL2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Beta-actin-like protein 2;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 DLT(1)DYLMK 117.7 0.0069344 3040200 1242.1 1532.2 1089.2 1247.8 1138 1488.5 1417.5 1088.5 1657.8 1338.9 TRUE FALSE FALSE 1372.749777 1581.844285 1237.630504 1271.952973 1050.806686 1361.671426 1257.999169 1060.657746 1646.263235 1396.626531 0.98290398 1.132617955 0.886157091 0.910732357 0.752389177 0.974971759 0.90074128 0.759442644 1.178742633 1 10.44773057 -6.553590247 24.79372713 1.002592911 0.865991135 0.493917031 0.093634249 120.8080952 97529.20048 0.011229749 0.015881362 2.80E-07 6.553590247 -0.136601776 DLTDGHFENILADNSVNDQTK ddPTM_HeLa_SAHA_4h_R1 1 DLTDGHFENILADNSVNDQTK 21 0 P36952;P36952-2 P36952 SERPINB5 Serpin B5 0 0 177 3.16E-10 5754900 1334.2 1581.5 1207.7 1521.3 1645.1 1755.2 1631.8 1326.1 1510.6 1260.1 FALSE FALSE TRUE 1474.537278 1632.741638 1372.279067 1550.746961 1519.052793 1605.647086 1448.185569 1292.180282 1500.087612 1314.429078 1.121808169 1.242167923 1.044011495 1.179787474 1.155674976 1.221554752 1.101760143 0.983073415 1.141246521 1 10.36022059 -8.853627029 0.820213481 1.00333761 1.135484784 0 0.084948176 0.542458102 0.700632361 0.0405474 0.014957749 1.40E-09 8.853627029 0.132147174 DLTDYLMK ddPTM_HeLa_SAHA_4h_R1 8 DLTDYLMK 8 0 P60709;A0A2R8Y793;P63267-2;Q562R1;A0A2R8YEA7;P63267;P68133;P68032;P62736;P63261;I3L3I0;I3L1U9;I3L4N8 P60709;P63267;P63261 ACTB;ACTG2;ACTBL2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Beta-actin-like protein 2;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;;;;;;; ;;;;;;; 148.38 0.00013751 754034600 21068.08 21173.15 23817.36 21396.12 23762.38 19504.24 24175.82 17354.22 15912.6 16329.66 FALSE FALSE TRUE 23284.11732 21859.17395 27063.06579 21810.27284 21941.71158 17842.36902 21455.49311 16910.32418 15801.86292 17033.71156 1.366943267 1.283288958 1.588794415 1.280418115 1.288134503 1.047473944 1.259590021 0.992756284 0.927681725 1 14.0561052 -4.255233007 22.94532862 1.222269811 0.992755962 0.128010801 0.182987931 397.6968874 1470165.437 0.026731108 0.317183985 5.56E-05 4.255233007 -0.229513849 DLTEYLSR ddPTM_HeLa_SAHA_4h_R1 2 DLTEYLSR 8 0 O14979-3;O14979-2;A0A087WUK2;O14979 O14979-3 HNRNPDL Heterogeneous nuclear ribonucleoprotein D-like 0 0 ; ; 134.48 0.0088391 15555800 3254.2 3144.4 3539.1 4026.3 3826.7 3468.6 3744.2 3355.9 3137.7 3113.2 FALSE FALSE TRUE 3596.491687 3246.280623 4021.390117 4104.234859 3533.499073 3173.055766 3322.892762 3270.060937 3115.86449 3247.425288 1.107490202 0.999647516 1.238331836 1.263842735 1.088092492 0.977098928 1.023239172 1.006970337 0.95948766 1 11.66508062 -5.271373728 23.69960645 1.080892107 1.004516449 0.156740424 0.093813137 581.9394704 1388291.219 0.014310961 0.03239753 5.35E-06 5.271373728 -0.076375658 DLTGQVPT(ph)PVVK ddPTM_HeLa_SAHA_4h_R1 2 DLTGQVPTPVVK 12 0 P46821;D6RA40;D6RA32 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 DLT(0.042)GQVPT(0.958)PVVK;DLTGQVPT(1)PVVK ; 109.99 0.0054603 14590200 4095.4 4617.2 3893.1 3846.5 5358.8 5450.1 4534.7 4560.8 4789.3 4234.2 TRUE FALSE FALSE 4526.172962 4766.800309 4423.631394 3920.95457 4948.209902 4985.720819 4024.443621 4444.14134 4755.970871 4416.757084 1.024772899 1.079253448 1.001556416 0.887745125 1.120326477 1.128819341 0.911176129 1.006200082 1.076801549 1 12.10877177 DLTQMADELRR ddPTM_HeLa_SAHA_4h_R1 4 DLTQMADELRR 11 1 P41227;P41227-2;C9JN83 P41227 NAA10 N-alpha-acetyltransferase 10 0 0 ;;; ;;; 158.06 0.00048232 30830000 6256.2 5861.9 6224.5 7220.8 6804.2 7680.6 7179.4 5171.1 7337.9 6601.8 FALSE FALSE TRUE 6914.25582 6051.829406 7072.742444 7360.569025 6282.863666 7026.16967 6371.555017 5038.83075 7286.834956 6886.435906 1.004039813 0.878804288 1.027054131 1.068850291 0.912353466 1.020291159 0.925232603 0.731703717 1.058143146 1 12.74954179 -4.285243557 2.451797692 0.994420668 0.679844017 0.665749944 0.056431103 0.200943014 1.532069889 0.006948041 0.129242654 5.19E-05 4.285243557 -0.314576651 DLTSLETTSEMEAGS(ph)PENKK ddPTM_HeLa_SAHA_4h_R1 1 DLTSLETTSEMEAGSPENKK 20 1 Q5VYS8-5;Q5VYS8-3;Q5VYS8-2;Q5VYS8-4;Q5VYS8-6;Q5VYS8 Q5VYS8-5 ZCCHC6 Terminal uridylyltransferase 7 1 0 DLT(0.001)S(0.001)LET(0.006)T(0.008)S(0.03)EMEAGS(0.954)PENKK 63.883 0.0055177 6475200 967.58 684.5 677.64 1159.7 917.23 1346.4 923.27 984.79 878.66 1003 TRUE FALSE FALSE 1069.354504 706.6782491 769.9852502 1182.14767 846.9520356 1231.679145 819.3812297 959.6004978 872.5453335 1046.244239 1.022088786 0.675442906 0.735951723 1.129896469 0.809516559 1.177238641 0.783164389 0.917185933 0.833978627 1 10.03100396 DLVLPTQALPAS(ph)PALK ddPTM_HeLa_SAHA_4h_R1 2 DLVLPTQALPASPALK 16 0 J3KSZ6;U3KQ35;H3BR06;Q15554 J3KSZ6 TERF2 Telomeric repeat-binding factor 2 1 0 DLVLPTQALPAS(1)PALK;DLVLPTQALPAS(1)PALK ; 229.4 1.65E-27 57771000 5296.3 4411.1 4017.8 4580.4 5015.1 5391.5 4793.7 4927.1 5148.5 4644.1 TRUE FALSE FALSE 5853.389134 4554.022534 4565.32486 4669.060265 4630.844121 4932.113868 4254.30026 4801.071916 5112.671169 4844.329879 1.208296974 0.940072755 0.942405859 0.963819637 0.955930797 1.018120977 0.878202015 0.991070393 1.055392861 1 12.24208139 -7.233381394 24.70500274 1.098362465 0.954897931 0.507937486 0.059373001 459.3183615 404429.2079 0.013565645 0.016612571 5.84E-08 7.233381394 -0.143464534 DLVMGS(ph)SPQLK ddPTM_HeLa_SAHA_4h_R1 3 DLVMGSSPQLK 11 0 Q53LP3 Q53LP3 SOWAHC Ankyrin repeat domain-containing protein SOWAHC 1 0 DLVMGS(0.5)S(0.5)PQLK;DLVMGS(0.5)S(0.5)PQLK;DLVMGS(0.734)S(0.266)PQLK ;; 166.7 0.00013608 21826200 8500.8 10657.8 7787.2 9165.9 10321.9 11596.5 8968.7 8673.2 13796.9 9446 TRUE FALSE FALSE 9394.953147 11003.11971 8848.399062 9343.319249 9531.038252 10608.41296 7959.518272 8451.352103 13700.88625 9853.263288 0.953486462 1.116698031 0.898017114 0.948246178 0.967297633 1.076639551 0.807805297 0.857721128 1.390492251 1 13.26638589 -4.744776767 24.99657676 0.984173409 0.832763121 0.174374731 0.142353162 143.8010929 215720.9793 0.007988551 0.029721261 1.80E-05 4.744776767 -0.151410289 DLVMGSS(ph)PQLK ddPTM_HeLa_SAHA_4h_R1 1 DLVMGSSPQLK 11 0 Q53LP3 Q53LP3 SOWAHC Ankyrin repeat domain-containing protein SOWAHC 1 0 DLVMGS(0.241)S(0.759)PQLK 177.1 4.79E-05 9756300 1959.9 2488.4 2065.7 2016.7 2411.2 2860.6 2112.1 2323.5 2972.7 2214.8 TRUE FALSE FALSE 2166.051274 2569.025793 2347.202838 2055.736145 2226.454377 2616.860787 1874.440949 2264.068234 2952.012739 2310.290867 0.937566479 1.11199236 1.015977197 0.889817024 0.963711716 1.132697542 0.811344137 0.979992722 1.277766701 1 11.17385878 DLVMGSS(ph)PQLKR ddPTM_HeLa_SAHA_4h_R1 1 DLVMGSSPQLKR 12 1 Q53LP3 Q53LP3 SOWAHC Ankyrin repeat domain-containing protein SOWAHC 1 0 DLVMGS(0.236)S(0.764)PQLKR 68.262 0.019078 18573000 2566.7 2371.9 2307.7 2290.6 2591.6 2667.4 2448.3 2196.5 2383.2 2518.8 TRUE FALSE FALSE 2836.677282 2448.751116 2622.181338 2334.937875 2393.032168 2440.122514 2172.81084 2140.31671 2366.615117 2627.397795 1.079652761 0.932006231 0.998014592 0.888688374 0.910799336 0.928722144 0.82698206 0.814614641 0.900744882 1 11.35941893 -5.967705438 0.670172602 1.036210069 0.830292742 0.390064365 0.059859306 0.330771441 0.271257509 0.010060368 0.034170597 1.08E-06 5.967705438 -0.205917327 DLVQPDKPAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 DLVQPDKPASPK 12 1 Q6PJT7;Q6PJT7-5;H0YJA2;Q6PJT7-2;Q6PJT7-9;G3V411;G3V4R5 Q6PJT7 ZC3H14 Zinc finger CCCH domain-containing protein 14 1 0 DLVQPDKPAS(1)PK;DLVQPDKPAS(1)PK;DLVQPDKPAS(1)PK ;; 143.93 0.0023466 64450000 2846.33 2690.96 2635.3 2645.84 3035.51 3126.58 2663.14 2611.03 3327.6 2691.95 TRUE FALSE FALSE 3145.720049 2778.14887 2994.42496 2697.054059 2802.92988 2860.177794 2363.476478 2544.243633 3304.442961 2808.013139 1.120265431 0.989364626 1.066385666 0.960484843 0.998189731 1.01857707 0.841689964 0.906065431 1.17679042 1 11.45533397 -4.893158855 0.702219745 1.052514101 0.831621794 0.519500545 0.064069137 0.901261377 0.500554104 0.010381752 0.133000206 1.28E-05 4.893158855 -0.220892307 DLYANT(ph)VLSGGTTMYPGIADR ddPTM_HeLa_SAHA_4h_R1 1 DLYANTVLSGGTTMYPGIADR 21 0 P60709;A0A2R8Y793;P63261 P60709;P63261 ACTB;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 DLYANT(0.765)VLS(0.055)GGT(0.158)T(0.022)MYPGIADR 96.455 0.00082812 0 449.3 320.36 450.27 367.98 472.6 425.06 503.57 387.11 369.86 288.48 TRUE FALSE FALSE 496.5594355 330.7398742 511.6304507 375.102785 436.3894901 388.8424967 446.9069783 377.2082867 367.2861141 300.9177846 1.650149845 1.099103779 1.700233342 1.246529133 1.450195078 1.292188487 1.485146446 1.253526066 1.220553031 1 8.233225564 -9.554380921 1.315763282 0.999327342 1.425900797 0.233572984 0.188898218 0.319319692 0.987961495 0.121295272 0.028464264 2.79E-10 9.554380921 0.426573455 DLYANTVLSGGT(ph)TMYPGIADR ddPTM_HeLa_SAHA_4h_R1 1 DLYANTVLSGGTTMYPGIADR 21 0 P60709;A0A2R8Y793;P63261 P60709;P63261 ACTB;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 DLYANT(0.097)VLS(0.012)GGT(0.445)T(0.445)MYPGIADR 205.92 4.11E-21 11386000 2655.1 2097.5 2364 1820.7 2122.3 2012.5 2139.3 1968.9 1650.2 1905.9 TRUE FALSE FALSE 2934.3756 2165.460376 2686.153609 1855.942281 1959.689833 1841.023678 1898.580334 1918.538389 1638.716124 1988.072676 1.475990106 1.089225963 1.351134514 0.933538448 0.985723438 0.926034395 0.954985377 0.965024273 0.824273752 1 10.95715478 -6.247075729 24.33690474 1.226775665 0.953481142 0.170525438 0.176707104 489.1852345 828845.2514 0.027198016 0.044955574 5.66E-07 6.247075729 -0.273294524 DLYANTVLSGGTTMYPGIADR ddPTM_HeLa_SAHA_4h_R1 8 DLYANTVLSGGTTMYPGIADR 21 0 P60709;A0A2R8Y793;P63261 P60709;P63261 ACTB;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;;;;;;; ;;;;;;; 331.56 3.02E-126 840845950 8331.97 8767.89 7684.78 8228.83 7617.855 8527.02 9323.353 8155.05 8785.43 8375.06 FALSE FALSE TRUE 9208.364833 9051.975389 8732.021798 8388.110904 7034.176596 7800.469924 8274.264783 7946.455629 8724.291477 8736.149823 1.054052989 1.036151574 0.999527478 0.960161063 0.805180398 0.892895621 0.947129451 0.909606153 0.998642612 1 13.09278188 -6.120795673 3.032797477 1.025767623 0.892616584 0.709172516 0.03831458 0.109102355 1.919754612 0.00621655 0.010901871 7.57E-07 6.120795673 -0.133151039 DLYDAGVK ddPTM_HeLa_SAHA_4h_R1 4 DLYDAGVK 8 0 P07355;P07355-2;H0YN42;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33 P07355 ANXA2 Annexin A2;Annexin 0 0 ;;; ;;; 133.55 0.0038366 75680000 21099.2 21490.3 17924.9 17136.7 21823.4 23469.7 22034.4 20928.1 20226.9 20876.1 FALSE FALSE TRUE 23318.51066 22186.59982 20367.61202 17468.40561 20151.29581 21469.94952 19555.03132 20392.78951 20086.13936 21776.17084 1.070826953 1.01884762 0.935316506 0.802179857 0.925382886 0.98593778 0.898001374 0.9364727 0.922390787 1 14.41046267 -6.740391752 4.134584347 1.033832171 0.910356288 0.320750698 0.05795593 0.114264186 4.377322084 0.00811641 0.011313371 1.82E-07 6.740391752 -0.123475883 DLYDAGVK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 DLYDAGVKR 9 1 P07355;P07355-2;H0YN42;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33 P07355 ANXA2 Annexin A2;Annexin 0 1 ; DLYDAGVK(1)R;DLYDAGVK(1)R 137.14 0.00025609 16969300 4785.1 15410.4 7257.8 7408.2 14052.6 10629.1 15368.8 10145.4 10149.9 3930.5 FALSE TRUE FALSE 5288.418773 15909.70707 8246.855187 7551.596423 12975.89282 9723.440882 13639.46218 9885.895358 10079.26602 4099.96309 1.289869849 3.880451292 2.011446202 1.841869367 3.1648804 2.371592297 3.32672804 2.411215696 2.458379697 1 12.00139521 -7.41139325 8.267116165 1.127335426 2.681513488 0.286600229 0.721102512 0.140059151 9.474626175 0.095170967 0.108575163 3.88E-08 7.41139325 1.554178062 DLYEDELVPLFEK ddPTM_HeLa_SAHA_4h_R1 1 DLYEDELVPLFEK 13 0 O43390;B4DT28;O43390-4;O43390-3;O43390-2 O43390 HNRNPR Heterogeneous nuclear ribonucleoprotein R 0 0 104.82 0.021408 28860000 348.35 306.96 449.04 309.12 616.55 695.21 378.44 476.73 463.38 443.16 FALSE FALSE TRUE 384.9910513 316.9057054 510.2328327 315.1034646 569.3100722 635.9741969 335.8569352 464.5359369 460.1553009 462.2667964 0.832833018 0.685547195 1.103762668 0.681648492 1.23156168 1.375773042 0.726543498 1.004908725 0.995432301 1 8.85258193 -5.747959085 24.99999191 0.899857884 1.079905469 0.193108113 0.199950846 342.2008461 634627.5369 0.028690878 0.057123616 1.79E-06 5.747959085 0.180047585 DLYIRPNIAQK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 DLYIRPNIAQKR 12 2 Q9Y5B9 Q9Y5B9 SUPT16H FACT complex subunit SPT16 0 1 ; DLYIRPNIAQK(1)R;DLYIRPNIAQK(1)R 105.2 0.0038904 8453300 3428.3 2766.9 3049.3 3597.4 4039.9 3222.5 4258.3 2184.13 2140.51 2724.1 FALSE TRUE FALSE 3788.904324 2856.549375 3464.842724 3667.032879 3730.363735 2947.924871 3779.144877 2128.263117 2125.614017 2841.549282 1.333393845 1.005278843 1.219349861 1.290504761 1.3127922 1.037435771 1.329959294 0.748979837 0.748047563 1 11.47246202 -4.247823822 24.50382531 1.174206879 0.748979463 0.273751795 0.185356716 1332.64192 2398292.792 0.020505549 0.530883942 5.65E-05 4.247823822 -0.425227416 DMAECSTPLPEDCS(ph)PTHSPR ddPTM_HeLa_SAHA_4h_R1 2 DMAECSTPLPEDCSPTHSPR 20 0 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 DMAECSTPLPEDCS(0.996)PT(0.004)HSPR;DMAECSTPLPEDCS(0.888)PT(0.109)HS(0.003)PR ; 159.53 2.06E-06 19560900 3372.2 3691.5 2816.6 3074.68 3811 4659.3 3892.2 4040.3 4495.4 3541.6 TRUE FALSE FALSE 3726.903468 3811.107022 3200.43158 3134.194877 3519.002003 4262.301427 3454.239412 3936.954976 4464.116145 3694.295708 1.008826516 1.031619373 0.86631711 0.848387656 0.95255017 1.153752099 0.93501974 1.065684852 1.208380838 1 11.85108364 -1.030827987 0.879314004 0.987324556 27.20151362 0.011439715 0.108592644 2086.298848 5.116618751 0.013254609 109597.4163 0.093147674 1.030827987 26.21418906 DMDDEESWIK ddPTM_HeLa_SAHA_4h_R1 1 DMDDEESWIK 10 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 155.42 0.0021607 6106300 770.46 950.32 716.04 818.75 1116.6 1075.1 924.06 786.79 873.97 705.14 FALSE FALSE TRUE 851.5005178 981.1109915 813.6182022 834.5980902 1031.046349 983.4954317 820.0823368 766.6650511 867.8879716 735.5420363 1.15765038 1.333861211 1.106147796 1.134670826 1.401750408 1.337102957 1.114936056 1.042313033 1.179929805 1 9.522663984 -8.529577892 0.709894963 1.00625254 1.213714053 0.051539772 0.123618837 0.588007287 0.609011941 0.060171987 0.027087099 2.95E-09 8.529577892 0.207461513 DMDDEESWIKEK ddPTM_HeLa_SAHA_4h_R1 1 DMDDEESWIKEK 12 1 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 98.182 0.011556 9029200 1500.2 1115.2 1415.3 1657.5 1260.8 1517.5 1812.7 1826.8 1100.2 1369.3 FALSE FALSE TRUE 1657.997919 1151.333212 1608.169713 1689.583309 1164.197776 1388.200463 1608.730225 1780.073101 1092.543619 1428.337224 1.160788847 0.806065397 1.125903383 1.182902245 0.815072069 0.97189966 1.126295806 1.246255486 0.764905934 1 10.48012092 -4.436346438 3.625849012 1.04516014 1.240858304 0.145215294 0.153489788 0.32514133 7.351542543 0.017996107 0.126504813 3.66E-05 4.436346438 0.195698164 DMDEPS(ph)PVPNVEEVTLPK ddPTM_HeLa_SAHA_4h_R1 6 DMDEPSPVPNVEEVTLPK 18 0 F8VXC8;Q8TAQ2-2;Q8TAQ2-3;Q8TAQ2 F8VXC8 SMARCC2 SWI/SNF complex subunit SMARCC2 1 0 DMDEPS(1)PVPNVEEVTLPK;DMDEPS(1)PVPNVEEVTLPK;DMDEPS(1)PVPNVEEVTLPK;DMDEPS(1)PVPNVEEVTLPK;DMDEPS(1)PVPNVEEVTLPK;DMDEPS(1)PVPNVEEVTLPK ;;;;; 186.94 1.04E-12 47228700 14664.08 18049.45 13409.42 16042.98 18494.61 21959.35 17029.31 16864.74 23256.2 16682.36 TRUE FALSE FALSE 16206.51522 18634.26402 15236.78592 16353.51508 17077.55698 20088.28984 15113.12722 16433.36437 23094.35821 17401.61818 0.931322308 1.070835127 0.875595923 0.939769791 0.981377525 1.154392059 0.868489761 0.944358404 1.327138544 1 14.08693385 -2.996528339 13.48107201 0.971232492 0.974464433 0 0.139310834 0 0 0.010246044 0 0.001008026 2.996528339 0.003231941 DMDLWEQQEEER ddPTM_HeLa_SAHA_4h_R1 1 DMDLWEQQEEER 12 0 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 106.18 0.017096 4260200 654.24 631.75 802.91 748.44 1021.2 931.17 756.7 682.81 1143.8 614.73 FALSE FALSE TRUE 723.055965 652.2191145 912.3263934 762.9271385 942.9558766 851.8290774 671.5541245 665.3447089 1135.840203 641.2340187 1.127600757 1.017131181 1.422766676 1.189779575 1.470533142 1.328421532 1.047283994 1.037600454 1.77133491 1 9.324707155 -6.789976757 24.99761974 1.058705151 1.25114438 0 0.263105621 198.6783553 174033.6966 0.023148105 0.030425504 1.62E-07 6.789976757 0.19243923 DMDRDVDR ddPTM_HeLa_SAHA_4h_R1 1 DMDRDVDR 8 1 H0YIQ2;P49750-3;P49750-1;P49750 H0YIQ2 YLPM1 YLP motif-containing protein 1 0 0 101.6 0.0068231 0 1022.5 996.96 1264.1 1163 1111.6 1419.9 1273 904.36 797.92 1498.4 FALSE FALSE TRUE 1130.051241 1029.262158 1436.364965 1185.511547 1026.429448 1298.916532 1129.75869 881.2277807 792.3672098 1563.003357 0.722999881 0.658515641 0.91897753 0.758483046 0.656703291 0.831038862 0.722812708 0.563804151 0.506951701 1 10.61010516 -13.52287875 0.229607865 2.53150784 0.697101858 0 0.18281893 26.12814152 0.336366966 17.96970253 0.066489136 3.00E-14 13.52287875 -1.834405982 DMES(ph)PTKLDVTLAK ddPTM_HeLa_SAHA_4h_R1 5 DMESPTKLDVTLAK 14 1 E7EVA0;P27816;P27816-6;P27816-2;P27816-5;H7C456 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 DMES(0.988)PT(0.012)KLDVTLAK;DMES(0.97)PT(0.024)KLDVT(0.007)LAK;DMES(0.851)PT(0.148)KLDVT(0.001)LAK;DMES(0.635)PT(0.109)KLDVT(0.255)LAK;DMES(0.964)PT(0.031)KLDVT(0.005)LAK ;;;; 160.81 5.49E-05 701366900 6796.83 6407.07 5645.11 6448.83 7232.61 7093.66 6936.96 6790.45 7390.21 6093.02 TRUE FALSE FALSE 7511.751764 6614.663272 6414.396192 6573.65643 6678.448984 6489.24026 6156.395004 6616.760121 7338.780927 6355.719911 1.18188842 1.040741783 1.009232043 1.034289824 1.050777737 1.021007903 0.9686385 1.041071698 1.154673433 1 12.63383983 -7.015161268 24.27231772 1.087229824 1.020822527 0.369474287 0.050462055 646.0962828 1034364.121 0.011461771 0.014304851 9.66E-08 7.015161268 -0.066407298 DMFEEALR ddPTM_HeLa_SAHA_4h_R1 2 DMFEEALR 8 0 A0A3B3ITP6;A0A3B3IT92;P33991;A0A3B3IS57;A0A3B3IU45;E5RG31 A0A3B3ITP6 MCM4 DNA replication licensing factor MCM4 0 0 ; ; 131.03 0.011001 8325100 4106.7 4098.1 4746.6 5196.9 4535.1 4405.8 4912.2 4258.3 3896.2 3988.9 FALSE FALSE TRUE 4538.661548 4230.881129 5393.441929 5297.493514 4187.621618 4030.401054 4359.466328 4149.378852 3869.086027 4160.881 1.090793404 1.016823391 1.29622595 1.273166311 1.006426672 0.968641269 1.04772675 0.997235646 0.929871829 1 12.02267331 DMGEDLECLCQIMR ddPTM_HeLa_SAHA_4h_R1 1 DMGEDLECLCQIMR 14 0 H0Y3P2;D3DQV9;P78344-2;P78344;H0YCH5;H0YD77 H0Y3P2 EIF4G2 Eukaryotic translation initiation factor 4 gamma 2 0 0 116.77 0.0048682 2660100 172.08 250.04 271.45 156.71 326.06 240.14 254.91 113.8 273.24 66.697 FALSE FALSE TRUE 190.1801639 258.1414601 308.4417923 159.7433487 301.0773532 219.678721 226.2268559 110.8891608 271.3385006 69.57263408 2.73354842 3.710387906 4.433378101 2.296065842 4.327525574 3.157544973 3.251664378 1.593861757 3.90007514 1 6.120448038 -8.533312107 0.784068578 1.120614607 3.273804303 0 1.190346594 0.342071295 0.432275678 0.369207579 0.177835879 2.93E-09 8.533312107 2.153189697 DMLLELEEQLAESR ddPTM_HeLa_SAHA_4h_R1 2 DMLLELEEQLAESR 14 0 Q32MZ4-3;Q32MZ4-2;Q32MZ4;Q32MZ4-4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 0 0 ; ; 168.61 2.58E-05 30411000 978.63 725.9 734.17 746.81 761.81 1193.2 1048.88 858.44 1087.45 755.98 FALSE FALSE TRUE 1081.566794 749.4196363 834.2188642 761.2655875 703.4402824 1091.532647 930.8572619 836.4823478 1079.882347 788.5739975 1.371547625 0.950347892 1.057882795 0.965369883 0.89204093 1.384185442 1.180431088 1.060753145 1.369411559 1 9.623102329 -7.230546524 24.99196214 1.175453114 1.075113241 0.154186587 0.165862238 1641.012908 1327561.601 0.031507957 0.038587524 5.88E-08 7.230546524 -0.100339872 DMPGGFLFEGLS(ph)DDEDDFHPNTR ddPTM_HeLa_SAHA_4h_R1 19 DMPGGFLFEGLSDDEDDFHPNTR 23 0 H3BUV9;Q96S82 H3BUV9 UBL7 Ubiquitin-like protein 7 1 0 DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(1)DDEDDFHPNTR;DMPGGFLFEGLS(0.99)DDEDDFHPNT(0.01)R ;;;;;;;;;;;;;;;;;; 183.58 7.46E-12 273808610 19734.04 21319.75 21060.25 21968.82 24830.691 28966.91 25752.217 21878.9 27548.11 24991.27 TRUE FALSE FALSE 21809.75687 22010.52389 23930.23119 22394.05828 22928.16882 26498.7663 22854.50977 21319.26942 27356.40046 26068.76595 0.836624062 0.844325502 0.917965631 0.859037912 0.879526436 1.016494849 0.876700869 0.817808923 1.049393765 1 14.67003467 -9.437662619 1.167438284 1.000032153 0.880262141 0.502490315 0.055433794 0.393038623 0.957744005 0.037855617 0.009457066 3.65E-10 9.437662619 -0.119770012 DMS(ph)PLSETEMALGK ddPTM_HeLa_SAHA_4h_R1 7 DMSPLSETEMALGK 14 0 E7EVA0;P27816;P27816-6;P27816-2 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 DMS(0.999)PLS(0.001)ETEMALGK;DMS(0.999)PLS(0.001)ETEMALGK;DMS(0.993)PLS(0.004)ET(0.004)EMALGK;DMS(0.993)PLS(0.007)ET(0.001)EMALGK;DMS(1)PLSETEMALGK;DMS(1)PLSETEMALGK;DMS(0.997)PLS(0.003)ETEMALGK ;;;;;; 269.78 1.15E-55 127300100 12659.07 15947.53 10387.68 13816.07 15023.48 16898 14952.42 12953.39 19958.6 13250.56 TRUE FALSE FALSE 13990.60906 16464.24044 11803.25893 14083.50001 13872.38421 15458.19533 13269.93435 12622.06104 19819.70648 13821.85649 1.012209111 1.191174315 0.85395612 1.018929695 1.003655639 1.118387776 0.960068885 0.913195782 1.433939536 1 13.75466378 -4.530936276 24.96552591 1.015935296 0.924914011 0.006370277 0.155799523 205.7465119 637489.5586 0.010491982 0.039402716 2.94E-05 4.530936276 -0.091021284 DMSPLSETEMALGKDVT(ph)PPPETEVVLIK ddPTM_HeLa_SAHA_4h_R1 3 DMSPLSETEMALGKDVTPPPETEVVLIK 28 1 E7EVA0;P27816;P27816-6;P27816-2 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 DMSPLS(0.002)ET(0.007)EMALGKDVT(0.989)PPPET(0.002)EVVLIK;DMS(0.044)PLS(0.291)ET(0.262)EMALGKDVT(0.401)PPPET(0.002)EVVLIK;DMS(0.01)PLS(0.152)ET(0.136)EMALGKDVT(0.701)PPPET(0.001)EVVLIK ;; 84.318 1.43E-05 172403000 7730.8 7388.9 7705.1 9345.1 8563.1 9509.5 10087.9 10448 8494.1 8999.6 TRUE FALSE FALSE 8543.961014 7628.305208 8755.110902 9525.987924 7906.997128 8699.237101 8952.782942 10180.75529 8434.988867 9387.616799 0.910130995 0.812592309 0.932623379 1.01473975 0.842279494 0.926671517 0.953680059 1.084487736 0.898522921 1 13.19654324 -4.2647152 3.950983586 0.938785331 1.097523102 0.364348338 0.061145299 0.232314895 7.394750731 0.009171169 0.105148428 5.44E-05 4.2647152 0.158737771 DNDFIYHDR ddPTM_HeLa_SAHA_4h_R1 1 DNDFIYHDR 9 0 Q8WUM4;Q8WUM4-2 Q8WUM4 PDCD6IP Programmed cell death 6-interacting protein 0 0 119.34 0.0040919 10887000 7179.3 7550 6428.1 7922.2 7901 4911.2 8683 6277 9778.1 7471.5 FALSE FALSE TRUE 7934.451714 7794.624954 7304.087992 8075.545637 7295.627087 4492.73813 7705.965988 6116.443429 9710.053406 7793.63293 1.018068439 1.000127286 0.937186554 1.036172182 0.936100937 0.576462629 0.988751466 0.784800039 1.245895655 1 12.92808027 -5.509951723 24.79181981 1.003105548 0.795946443 0.450689981 0.122515027 311.2804782 596981.9438 0.01228085 0.026301166 3.09E-06 5.509951723 -0.207159105 DNEESEQPPVPGT(ph)PTLR ddPTM_HeLa_SAHA_4h_R1 2 DNEESEQPPVPGTPTLR 17 0 A0A2R8YDC1;A0A2R8Y6V8;O15439-4;O15439-3;O15439-2;O15439 A0A2R8YDC1 ABCC4 Multidrug resistance-associated protein 4 1 0 DNEESEQPPVPGT(0.949)PT(0.051)LR;DNEESEQPPVPGT(0.996)PT(0.004)LR ; 159.5 1.02E-05 6207100 1043.31 1542.41 1143.15 828.32 1245.74 1161.66 1506.4 1015.48 1228.53 1226.61 TRUE FALSE FALSE 1153.050133 1592.385096 1298.932529 844.3533314 1150.29167 1062.680033 1336.895907 989.505492 1219.98056 1279.49516 0.901175846 1.244541711 1.015191436 0.659911313 0.899019947 0.830546348 1.044862028 0.773356182 0.953485873 1 10.32135897 DNFTLIPEGTNGTEER ddPTM_HeLa_SAHA_4h_R1 1 DNFTLIPEGTNGTEER 16 0 A0A1C7CYX9;Q16555-2;Q16555 A0A1C7CYX9 DPYSL2 Dihydropyrimidinase-related protein 2 0 0 118.13 0.0049394 2154400 1097.7 874.15 666.85 709.12 858.27 1200.2 819.56 783.95 881.57 1039.8 FALSE FALSE TRUE 1213.161122 902.4730336 757.7248452 722.846043 792.509538 1097.936208 727.3409518 763.8976941 875.4350826 1084.630867 1.118501381 0.832055459 0.698601587 0.666444286 0.730672123 1.012267161 0.670588469 0.704292785 0.807127208 1 10.08298842 -7.121366464 4.315266379 1.055488482 0.752143363 0.347856994 0.125268401 0.105018548 3.234486168 0.01738879 0.021501913 7.56E-08 7.121366464 -0.30334512 DNFWEMGDTGPCGPCSEIHYDR ddPTM_HeLa_SAHA_4h_R1 2 DNFWEMGDTGPCGPCSEIHYDR 22 0 P49588;P49588-2 P49588 AARS "Alanine--tRNA ligase, cytoplasmic" 0 0 ; ; 68.569 0.020382 12721700 1473.11 1684.26 1294.8 1745.03 1903.41 2667.4 1980.96 1232.82 1881.78 2104.9 FALSE FALSE TRUE 1628.058469 1738.831129 1471.248601 1778.807579 1757.571137 2440.122514 1758.057167 1201.28625 1868.68454 2195.65254 0.741491852 0.791942758 0.670073508 0.810149851 0.80047781 1.111342742 0.80069917 0.547120379 0.851083906 1 11.10043405 -9.333074342 1.013797294 1.002156471 0.790405776 0.103649388 0.141196382 0.632718295 1.145461616 0.097662062 0.024695383 4.64E-10 9.333074342 -0.211750696 DNGNGTYSCSYVPR ddPTM_HeLa_SAHA_4h_R1 2 DNGNGTYSCSYVPR 14 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 211.83 2.32E-16 20143500 1448.16 1018.25 1266.99 1535.35 1262.78 1435.76 1550.67 1278.22 908.48 1378.3 FALSE FALSE TRUE 1600.484113 1051.241968 1439.648799 1565.068919 1166.026069 1313.425171 1376.18453 1245.524983 902.1578137 1437.725258 1.113205812 0.731184183 1.001337906 1.088573015 0.811021482 0.913543922 0.957195766 0.866316409 0.627489716 1 10.4895723 -7.323024637 24.99999698 1.053458308 0.918428788 0 0.16569226 213.2657658 86572.85563 0.016735184 0.019137409 4.75E-08 7.323024637 -0.13502952 DNLAEDIMR ddPTM_HeLa_SAHA_4h_R1 6 DNLAEDIMR 9 0 P08670;B0YJC4 P08670 VIM Vimentin 0 0 ;;;;; ;;;;; 185.81 2.54E-06 82316400 13831.9 16976.9 13754.7 14632 17490.5 17704.3 18282 14275.6 18529.4 15865.3 FALSE FALSE TRUE 15286.80271 17526.9627 15629.11888 14915.22352 16150.38167 16195.79404 16224.86124 13910.45082 18400.4524 16549.33073 0.923711234 1.059073807 0.944395827 0.901258411 0.975893342 0.978637403 0.9803938 0.840544615 1.111854775 1 14.01448525 -5.054201232 0.007184692 1.882620618 3.67E-05 0.182944612 0.066073226 15042.69077 22.66479859 2857.02607 3084.475191 8.83E-06 5.054201232 -1.882583956 DNLTLWTSDQQDDDGGEGNN ddPTM_HeLa_SAHA_4h_R1 3 DNLTLWTSDQQDDDGGEGNN 20 0 P61981 P61981 YWHAG "14-3-3 protein gamma;14-3-3 protein gamma, N-terminally processed" 0 0 ;; ;; 270.45 1.69E-63 57624000 12648.31 14181.11 13692.52 14581.22 14957.88 16736.55 17608.88 15180.22 14631.22 14494.84 FALSE FALSE TRUE 13978.71728 14640.58727 15558.46532 14863.4606 13811.81047 15310.50178 15627.48248 14791.93195 14529.40015 15119.78349 0.924531577 0.968306674 1.029013764 0.983047185 0.913492609 1.012613824 1.033578456 0.978316387 0.960952924 1 13.88414986 DNLTLWTSDQQDEEAGEGN ddPTM_HeLa_SAHA_4h_R1 1 DNLTLWTSDQQDEEAGEGN 19 0 Q04917 Q04917 YWHAH 14-3-3 protein eta 0 0 154.65 3.62E-14 0 883.9 1363.6 952.37 957.68 1061.8 1015.7 1137.2 987.01 1010.3 1035.5 FALSE FALSE TRUE 976.8726575 1407.781535 1082.154024 976.2172812 980.4451134 929.1566458 1009.239263 961.7637134 1003.26924 1080.145473 0.904389901 1.303325867 1.001859519 0.903783153 0.907697285 0.860214359 0.934354944 0.890402022 0.92882789 1 10.07700991 -6.252586344 19.5511755 0.988588645 0.899534414 0.229104821 0.106279469 56.49325858 124754.8363 0.017167428 0.02806516 5.59E-07 6.252586344 -0.089054231 DNLTLWTSENQGDEGDAGEGEN ddPTM_HeLa_SAHA_4h_R1 4 DNLTLWTSENQGDEGDAGEGEN 22 0 P31946-2;P31946 P31946-2 YWHAB "14-3-3 protein beta/alpha;14-3-3 protein beta/alpha, N-terminally processed" 0 0 ;;; ;;; 324.48 5.50E-130 28445900 19046.3 21092.2 19011.1 21540.6 23054.7 24683 24780.8 22533.3 22288.3 21265.7 FALSE FALSE TRUE 21049.67722 21775.60112 21601.8337 21957.54946 21288.25387 22579.86954 21992.39916 21956.93081 22133.19391 22182.5684 0.948928764 0.981653735 0.973820223 0.989856047 0.959683905 1.017910511 0.991427087 0.989828158 0.997774176 1 14.4371388 -5.265842201 24.99786435 0.975790183 0.998892435 0.234102301 0.016691465 425.11405 2413678.037 0.002920158 0.006740473 5.42E-06 5.265842201 0.023102252 DNMAQEGVILDDVDSSVCR ddPTM_HeLa_SAHA_4h_R1 2 DNMAQEGVILDDVDSSVCR 19 0 S4R338;Q9BV86 S4R338 NTMT1 "N-terminal Xaa-Pro-Lys N-methyltransferase 1;N-terminal Xaa-Pro-Lys N-methyltransferase 1, N-terminally processed" 0 0 ; ; 162.7 1.58E-05 7066800 516.45 497.13 470.41 568.58 461.04 662.87 628.9 639.1 583.99 597.18 FALSE FALSE TRUE 570.7725806 513.2373382 534.515025 579.5856881 425.7152148 606.3897468 558.1345168 622.7527474 579.925966 622.9273523 0.916274712 0.823912028 0.858069602 0.930422602 0.683410695 0.973451791 0.89598653 0.999719703 0.930968858 1 9.282920111 -8.333708965 0.914367894 0.98875336 0.87971236 0.112204832 0.08529555 0.538280914 0.942378999 0.027948202 0.017309207 4.64E-09 8.333708965 -0.109041 DNPAQDFSTLYGS(ph)SPLER ddPTM_HeLa_SAHA_4h_R1 1 DNPAQDFSTLYGSSPLER 18 0 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 1 0 DNPAQDFSTLYGS(0.685)S(0.315)PLER 172.99 7.39E-09 9809800 727.85 665.54 611.08 751.68 729.81 827.19 831.95 716.28 1048.8 835.51 TRUE FALSE FALSE 804.4086025 687.1039327 694.3548 766.2298533 673.8921155 756.7087584 738.3367964 697.9585948 1041.501315 871.532925 0.922981312 0.788385514 0.796705185 0.879174878 0.773226227 0.86825034 0.847170285 0.800840192 1.19502234 1 9.767411358 -7.600977714 1.670976846 0.974686949 0.824160262 0.582206505 0.078948746 0.117149911 0.667571271 0.007820615 0.008105 2.51E-08 7.600977714 -0.150526687 DNPAQDFSTLYGSS(ph)PLER ddPTM_HeLa_SAHA_4h_R1 1 DNPAQDFSTLYGSSPLER 18 0 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 1 0 DNPAQDFSTLYGS(0.019)S(0.981)PLER 273.82 2.06E-60 10239000 721.87 607.98 776.34 678.15 617.77 860.31 580.45 734.99 760.85 809.87 TRUE FALSE FALSE 797.7995987 627.6789509 882.1355722 691.2765739 570.4365961 787.006748 515.1362383 716.1900201 755.5551829 844.7874591 0.944379074 0.743002212 1.04421007 0.818284607 0.675242737 0.931603257 0.609782061 0.847775393 0.894373105 1 9.722444608 -6.534572848 0.402726189 1.000838758 0.725780227 0.223585056 0.117707675 0.952260777 0.331369438 0.044835567 0.103345508 2.92E-07 6.534572848 -0.275058531 DNPGVVTCLDEAR ddPTM_HeLa_SAHA_4h_R1 1 DNPGVVTCLDEAR 13 0 P22314-2;P22314;Q5JRR9;Q5JRS0 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 115.57 0.0093412 6016400 180.87 440.43 350.4 343.13 490.6 413.24 473.32 436.98 505.75 357.97 FALSE FALSE TRUE 199.8947365 454.700221 398.1506872 349.7717773 453.010334 378.0296272 420.0607879 425.8026843 502.2304446 373.4038386 0.535331231 1.217717051 1.066273686 0.936711788 1.213191422 1.012388166 1.124950374 1.14032755 1.345006111 1 8.544592948 -7.247076804 24.97748419 0.780573076 1.09569983 0 0.221698014 599.0084298 1041716.688 0.030685939 0.037488946 5.66E-08 7.247076804 0.315126755 DNQES(ph)SDAELSSSEYIK ddPTM_HeLa_SAHA_4h_R1 1 DNQESSDAELSSSEYIK 17 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 DNQES(0.963)S(0.037)DAELSSSEYIK 238.05 1.53E-29 14098000 1604.7 1662.5 1196 1384.1 1488 1900.7 1935.2 1282.5 2145.3 1631 TRUE FALSE FALSE 1773.489709 1716.366091 1358.984651 1410.891257 1373.989761 1738.749667 1717.446203 1249.695507 2130.370683 1701.320392 1.042419592 1.008843542 0.798782321 0.829291922 0.807602006 1.022000133 1.009478409 0.734544483 1.25218665 1 10.73243914 -6.844534925 8.160020826 1.020146235 0.876231072 0.420129624 0.112606974 0.19696422 17.09182569 0.013963779 0.018385209 1.43E-07 6.844534925 -0.143915163 DNQESS(ph)DAELS(ph)SSEYIK ddPTM_HeLa_SAHA_4h_R1 1 DNQESSDAELSSSEYIK 17 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 2 0 DNQES(0.11)S(0.89)DAELS(0.525)S(0.388)S(0.087)EYIK 123.42 0.0051538 4377100 1395.9 1544.6 1200.4 1146.8 1283.8 1920.8 1543.6 1277 1912 1322 TRUE FALSE FALSE 1542.727167 1594.646053 1363.984261 1168.997972 1185.435521 1757.137034 1369.910065 1244.336189 1898.694236 1378.99789 1.118730622 1.156380344 0.989112653 0.847715563 0.859635486 1.274212997 0.993409835 0.902348146 1.376865223 1 10.42940453 -6.559695985 24.82689027 1.065518727 0.979802567 0.1578113 0.153969358 290.3907333 195817.4709 0.019714668 0.027880797 2.76E-07 6.559695985 -0.08571616 DNQESS(ph)DAELSS(ph)SEYIK ddPTM_HeLa_SAHA_4h_R1 1 DNQESSDAELSSSEYIK 17 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 2 0 DNQES(0.024)S(0.975)DAELS(0.129)S(0.736)S(0.129)EY(0.006)IK 130.01 0.0015629 2471000 529.32 579.17 417 588.49 472.18 494.66 622.11 544.65 703.76 534.66 TRUE FALSE FALSE 584.9963062 597.935488 473.8265884 599.8810749 436.0016704 452.5121851 552.1085455 530.7186416 698.8624769 557.7118092 1.048922215 1.072122695 0.849590381 1.075611212 0.781768762 0.811372787 0.98995312 0.951600151 1.253088899 1 9.123376009 -6.766404046 24.99965345 1.0274242 0.91083614 0.346516052 0.10932118 111.0416187 559151.8732 0.013139525 0.017572524 1.71E-07 6.766404046 -0.11658806 DNQESS(ph)DAELSSSEYIK ddPTM_HeLa_SAHA_4h_R1 3 DNQESSDAELSSSEYIK 17 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 DNQES(0.021)S(0.979)DAELSSSEYIK;DNQES(0.202)S(0.795)DAELS(0.003)SSEYIK;DNQES(0.022)S(0.978)DAELSSSEYIK ;; 307.57 4.17E-102 40263000 4592.4 5140.5 3896.82 4819.68 5028.9 5590.8 4897.4 5035.3 6779.8 4597.01 TRUE FALSE FALSE 5075.449703 5307.055573 4427.858336 4912.971876 4643.586768 5114.432387 4346.331663 4906.504317 6732.61882 4795.209598 1.05844168 1.106741106 0.923392032 1.024558317 0.968380354 1.066571186 0.906390341 1.023209563 1.404030143 1 12.22737816 -6.754582766 24.99998879 1.034304339 0.98651845 0.070489207 0.127921784 221.9680483 809317.1158 0.008083922 0.011288726 1.76E-07 6.754582766 -0.047785889 DNQTTLQT(ph)LADMGGDLR ddPTM_HeLa_SAHA_4h_R1 2 DNQTTLQTLADMGGDLR 17 0 Q15751 Q15751 HERC1 Probable E3 ubiquitin-protein ligase HERC1 1 0 DNQT(0.177)T(0.177)LQT(0.645)LADMGGDLR;DNQT(0.206)T(0.206)LQT(0.587)LADMGGDLR ; 87.138 0.010918 11633900 1960.76 1901.4 2115.02 2190.92 2548.7 2118.73 2472.21 2218.27 2576.4 2302.16 TRUE FALSE FALSE 2167.001733 1963.006608 2403.243911 2233.328425 2353.419157 1938.202284 2194.030424 2161.529865 2558.470623 2401.417384 0.902384462 0.817436661 1.000760604 0.930004271 0.980012543 0.807107626 0.913639769 0.900105862 1.065400226 1 11.22967046 -9.136554237 0.854205513 1.001239857 0.907106729 0.373262864 0.061531506 0.66475045 0.86209227 0.039654609 0.011018941 7.30E-10 9.136554237 -0.094133128 DNS(ph)PEPNDPEEPQEVSSTPSDKK ddPTM_HeLa_SAHA_4h_R1 1 DNSPEPNDPEEPQEVSSTPSDKK 23 1 G5E9C0;Q9HB58-2;Q9HB58-5;Q9HB58-3;Q9HB58-7;Q9HB58;Q9HB58-6 G5E9C0 SP110 Sp110 nuclear body protein 1 0 DNS(1)PEPNDPEEPQEVSSTPSDKK 120.57 5.72E-06 4918300 473.31 501.62 474.87 682.24 437.41 545.58 548.6 395.18 779.45 543.19 TRUE FALSE FALSE 523.0949174 517.8728171 539.5828106 695.4457417 403.8957403 499.0935147 486.8700842 385.0718678 774.025744 566.6095792 0.923201684 0.913985284 0.952300897 1.227380841 0.712829001 0.880841999 0.859269066 0.679607056 1.366065404 1 9.146211182 -3.348161158 0.596434089 0.968486035 0.028560796 0.269247806 0.170309545 7.116422986 0.784362814 0.019783417 5.925176298 0.000448579 3.348161158 -0.93992524 DNS(ph)PPPAFKPEPPK ddPTM_HeLa_SAHA_4h_R1 2 DNSPPPAFKPEPPK 14 1 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 DNS(1)PPPAFKPEPPK;DNS(1)PPPAFKPEPPK ; 91.622 0.0048643 72610000 7774.5 11667.8 8312.8 7532 10938.3 10563.3 10582.6 7833 15111.3 10346.6 TRUE FALSE FALSE 8592.257581 12045.84438 9445.625093 7677.792751 10100.20982 9663.247412 9391.817996 7632.643202 15006.13923 10792.69256 0.796118071 1.116111138 0.87518708 0.711388072 0.935837814 0.895350938 0.870201569 0.707204728 1.3903981 1 13.39776721 -6.523952896 24.99999561 0.920708491 0.832395733 0.127211494 0.180833897 61.78683538 1438023.31 0.018183994 0.025837255 2.99E-07 6.523952896 -0.088312758 DNSTMGYMAAK ddPTM_HeLa_SAHA_4h_R1 4 DNSTMGYMAAK 11 0 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 0 0 ;;; ;;; 145.55 0.0041546 32965500 4170.08 4575.96 3224.14 3894.11 4377.76 5726 4576.61 5682.2 6132 4779.51 FALSE FALSE TRUE 4608.708147 4724.224106 3663.509009 3969.48613 4042.336975 5238.112586 4061.637798 5536.857552 6089.326913 4985.578066 0.92440798 0.947578003 0.734821311 0.796193757 0.810806073 1.050653007 0.814677404 1.110574838 1.221388339 1 12.28354508 -8.160864043 0.94879736 0.98667546 0.888076611 0.185782171 0.133711725 0.753478106 1.435568375 0.033445507 0.023654635 6.90E-09 8.160864043 -0.098598849 DNTFFRES(ph)PVGR ddPTM_HeLa_SAHA_4h_R1 1 DNTFFRESPVGR 12 1 F8WF16;B7Z8L1;F8W6A0;F8W0Q9;Q8NEY8-5;Q8NEY8-6;Q8NEY8-9;Q8NEY8-8;Q8NEY8-2;Q8NEY8-3;Q8NEY8;F8VWU8;F8VPY7 F8WF16 PPHLN1 Periphilin-1 1 0 DNTFFRES(1)PVGR 79.804 0.012976 49204000 2729 2997.3 2325.5 2937.4 3239.1 3478.9 3316 3145.4 3155.3 3109.3 TRUE FALSE FALSE 3016.048741 3094.414487 2642.407029 2994.257625 2990.920858 3182.478148 2942.874953 3064.945222 3133.34201 3243.35714 0.929915705 0.954077628 0.814713556 0.923197013 0.922168213 0.981229637 0.907354579 0.944991591 0.96607986 1 11.66327218 -8.818880599 0.741822763 0.999197599 0.920621809 0.239725871 0.042134414 0.593412895 0.621699805 0.025411006 0.008919087 1.52E-09 8.818880599 -0.07857579 DNTRPGANS(ph)PEMWSEAIK ddPTM_HeLa_SAHA_4h_R1 1 DNTRPGANSPEMWSEAIK 18 1 F1T0B3;A0A087X2G1;Q92499-3;Q92499-2;Q92499 F1T0B3 DDX1 ATP-dependent RNA helicase DDX1 1 0 DNTRPGANS(0.932)PEMWS(0.068)EAIK 105.65 0.00092538 19592000 1218.6 1468.1 1182.8 1419 1325.4 1568.2 1430.6 1381.5 1390.9 1317.5 TRUE FALSE FALSE 1346.777939 1515.667403 1343.985824 1446.466797 1223.848138 1434.580538 1269.625123 1346.16323 1381.220614 1374.303873 0.979970999 1.102861917 0.977939341 1.052508711 0.890522222 1.04385978 0.923831438 0.979523712 1.005032905 1 10.42448532 -5.783717307 24.99997322 1.002504345 0.962921534 0.201694011 0.052242014 369.0735489 414168.3878 0.007241289 0.013133085 1.65E-06 5.783717307 -0.039582811 DNWTDAEGYYR ddPTM_HeLa_SAHA_4h_R1 1 DNWTDAEGYYR 11 0 Q13523;H0YDJ3 Q13523 PRPF4B Serine/threonine-protein kinase PRP4 homolog 0 0 204.69 1.38E-09 7117200 633.98 730.7 513.85 807.2 655.25 856.7 741.62 754.53 701.49 691.37 FALSE FALSE TRUE 700.6649252 754.3751594 583.874802 822.8245232 605.0448866 783.7043403 658.1709658 735.2302151 696.608274 721.1783442 0.971555692 1.046031353 0.809612222 1.14094458 0.838967076 1.086699769 0.912632737 1.019484599 0.96593066 1 9.494212265 -9.397145412 0.808491173 1.002119502 0.976457226 0 0.098919694 5.218914957 5.235195238 0.090302632 0.016602435 4.01E-10 9.397145412 -0.025662276 DNYVPEVSALDQEIIEVDPDTK ddPTM_HeLa_SAHA_4h_R1 1 DNYVPEVSALDQEIIEVDPDTK 22 0 H0YN88;A0A075B716;H3BNC9;P08708 H0YN88 RPS17 40S ribosomal protein S17 0 0 122.65 1.68E-05 3757200 4378.8 3746.9 3440.9 4843.2 4337.9 4281.1 4441.4 4029.4 5051.7 4451 FALSE FALSE TRUE 4839.382275 3868.302018 3909.807933 4936.947139 4005.531039 3916.326195 3941.641983 3926.333783 5016.544808 4642.904393 1.042317882 0.833164263 0.842103908 1.063331639 0.862720982 0.843507827 0.848960403 0.845663285 1.080475578 1 12.18081186 -7.267574051 24.9917431 1.019983447 0.879960833 0.546955085 0.067504644 303.8482078 1237830.737 0.01127624 0.01307269 5.40E-08 7.267574051 -0.140022613 DPAQPMS(ph)PGEATQSGAR ddPTM_HeLa_SAHA_4h_R1 2 DPAQPMSPGEATQSGAR 17 0 Q9BQG0;Q9BQG0-2 Q9BQG0 MYBBP1A Myb-binding protein 1A 1 0 DPAQPMS(1)PGEATQSGAR;DPAQPMS(1)PGEATQSGAR ; 212.34 1.28E-20 19217100 1506.04 1978.9 1371.33 1878.45 2028.09 2275.83 1933.91 1932.55 3156.5 1788.43 TRUE FALSE FALSE 1664.452197 2043.017658 1558.207711 1914.810116 1872.698182 2081.916481 1716.301357 1883.118169 3134.533659 1865.53797 0.892210303 1.095135929 0.835259178 1.026411763 1.003838149 1.115987192 0.920003444 1.009423662 1.680230427 1 10.86537601 DPAQPMS(ph)PGEATQSGARPADR ddPTM_HeLa_SAHA_4h_R1 2 DPAQPMSPGEATQSGARPADR 21 1 Q9BQG0;Q9BQG0-2 Q9BQG0 MYBBP1A Myb-binding protein 1A 1 0 DPAQPMS(0.997)PGEAT(0.003)QS(0.001)GARPADR;DPAQPMS(0.998)PGEAT(0.001)QSGARPADR ; 90.978 0.00026973 50187000 2064.85 2432.74 1590.36 1682.09 2382.83 2704.11 2115.49 1775.17 2527.95 2266.88 TRUE FALSE FALSE 2282.040397 2511.562372 1807.085979 1714.649284 2200.25808 2473.704615 1877.449498 1729.763722 2510.35779 2364.616291 0.965078523 1.062143732 0.764219542 0.725127917 0.930492651 1.046133626 0.793976386 0.731519836 1.061634313 1 11.20739038 -6.761935849 24.99999999 0.988946115 0.839551839 0.464233317 0.097362957 11.37171821 572642.5039 0.015794456 0.021478859 1.73E-07 6.761935849 -0.149394276 DPAQPMSPGEAT(ph)QSGARPADR ddPTM_HeLa_SAHA_4h_R1 1 DPAQPMSPGEATQSGARPADR 21 1 Q9BQG0;Q9BQG0-2 Q9BQG0 MYBBP1A Myb-binding protein 1A 1 0 DPAQPMS(0.026)PGEAT(0.487)QS(0.487)GARPADR 88.781 0.00065468 18566000 1160.8 1245.2 891.88 1043.9 1393 1570.5 1309.6 1320.2 1345.3 1151 TRUE FALSE FALSE 1282.89827 1285.545297 1013.420762 1064.106194 1286.268641 1436.684565 1162.240361 1286.431196 1335.937948 1200.625243 1.068525152 1.070729859 0.844077507 0.886293371 1.071332332 1.196613659 0.968029257 1.071467723 1.112701866 1 10.22957019 -5.559651139 24.99956105 1.01018376 1.078692656 0.141339254 0.09318116 295.4778343 200878.4484 0.013645449 0.027290924 2.76E-06 5.559651139 0.068508896 DPAQPMSPGEATQS(ph)GARPADR ddPTM_HeLa_SAHA_4h_R1 1 DPAQPMSPGEATQSGARPADR 21 1 Q9BQG0;Q9BQG0-2 Q9BQG0 MYBBP1A Myb-binding protein 1A 1 0 DPAQPMS(0.303)PGEAT(0.244)QS(0.453)GARPADR 54.537 0.014454 24635000 1302.2 1445.2 1218.7 1394.7 1638.6 1974.1 1572 1479.7 1785 1676.4 TRUE FALSE FALSE 1439.171371 1492.025428 1384.778089 1421.696435 1513.050822 1805.895574 1395.114423 1441.851417 1772.57804 1748.677808 0.823005452 0.853230607 0.791900076 0.813012225 0.865254202 1.032720588 0.797811018 0.824538065 1.013667602 1 10.77204878 -9.290965544 0.951851696 1.00250934 0.85053983 0.472388772 0.065707296 0.465391278 0.736184565 0.049480524 0.012469574 5.12E-10 9.290965544 -0.15196951 DPDASKPEDWDER ddPTM_HeLa_SAHA_4h_R1 1 DPDASKPEDWDER 13 1 P27797;K7EJB9 P27797 CALR Calreticulin 0 0 89.356 0.016523 5805500 1435.1 1317.4 905.88 1294.1 1402.6 1815.2 1730.7 1714.3 1701.1 1503.8 FALSE FALSE TRUE 1586.050402 1360.084624 1029.328609 1319.149177 1295.133091 1660.534748 1535.957081 1670.450688 1689.261907 1568.636177 1.011101507 0.867049125 0.656193338 0.840952922 0.825642752 1.058585013 0.979167192 1.06490639 1.076898475 1 10.61529506 DPGLGS(ph)VSSCSQRLASSSK ddPTM_HeLa_SAHA_4h_R1 1 DPGLGSVSSCSQRLASSSK 19 1 Q86Y22-2 Q86Y22-2 1 0 DPGLGS(0.903)VS(0.071)S(0.023)CS(0.003)QRLASSSK 52.365 0.021829 6887200 791.91 903.82 707.09 756.97 897.38 1030.4 871.43 903.51 844.04 1068.3 TRUE FALSE FALSE 875.2067272 933.104361 803.4485428 771.6222489 828.6229383 942.6041231 773.3744029 880.3995225 838.1662569 1114.359641 0.785389828 0.837345796 0.72099573 0.692435566 0.743586637 0.845870658 0.694007908 0.79004972 0.752150586 1 10.1219992 -9.062609494 0.479989288 1.043637085 0.748856165 0 0.09097965 0.515697101 0.180054812 0.071898463 0.014058567 8.66E-10 9.062609494 -0.29478092 DPGPPRPPAGATQDEELQGS(ph)PLSR ddPTM_HeLa_SAHA_4h_R1 2 DPGPPRPPAGATQDEELQGSPLSR 24 1 H3BPQ5;H3BME5;H3BQE6;H3BQP9;Q58EX7-3;Q58EX7-2;Q58EX7 H3BPQ5 PLEKHG4 Puratrophin-1 1 0 DPGPPRPPAGATQDEELQGS(0.922)PLS(0.078)R;DPGPPRPPAGATQDEELQGS(0.845)PLS(0.155)R ; 71.864 0.00076582 9651500 577.717 792.53 516.11 682.38 751.84 1037.75 854.21 757.25 659.27 627.53 TRUE FALSE FALSE 638.4839247 818.208492 586.442783 695.5884516 694.2341816 949.3278618 758.0920426 737.8806415 654.6820864 654.5858894 0.975401296 1.249963535 0.895898907 1.062638934 1.060570038 1.45027242 1.158124633 1.127248011 1.000146959 1 9.354438693 -5.498285816 21.99466838 1.009035926 1.239658712 0.395490272 0.117751194 110.4610503 98789.7544 0.015986766 0.035514206 3.17E-06 5.498285816 0.230622786 DPHLACVAYER ddPTM_HeLa_SAHA_4h_R1 1 DPHLACVAYER 11 0 A0A087WVQ6;Q00610-2;Q00610;A0A087WX41;P53675-2;P53675 A0A087WVQ6 CLTC;CLTCL1 Clathrin heavy chain;Clathrin heavy chain 1;Clathrin heavy chain 2 0 0 95.477 0.012356 3473900 728.11 1160.7 776.99 892.57 914.14 1138.6 1242.2 1124.5 751.52 990.49 FALSE FALSE TRUE 804.6959505 1198.307442 882.8741508 909.846983 844.0987907 1041.584874 1102.424387 1095.736918 746.2901111 1033.194871 0.778842378 1.159807772 0.85450884 0.880615079 0.816979269 1.008120446 1.067005284 1.060532673 0.722313023 1 10.01289667 -5.048220377 5.897363265 0.904804887 1.058427455 0.279502143 0.115850979 0.208145622 17.66019142 0.016023763 0.042726816 8.95E-06 5.048220377 0.153622567 DPIPYLPPLEK ddPTM_HeLa_SAHA_4h_R1 1 DPIPYLPPLEK 11 0 P08621-2;P08621;P08621-3 P08621-2 SNRNP70 U1 small nuclear ribonucleoprotein 70 kDa 0 0 106.29 0.013861 206970 159.68 195.2 198.96 231.24 250.74 0 248.3 64.791 155.49 171.94 FALSE FALSE TRUE 176.475875 201.5246081 226.0732327 235.7159846 231.5283554 0 220.3606305 63.13374004 154.4079324 179.3531749 0.983957352 1.12361885 1.260491947 1.314255991 1.290907482 0 1.228640813 0.352007931 0.860915524 1 7.486659473 -5.298953826 24.99995657 1.064950421 0.597057754 0.406790063 0.319800265 450.5172506 300227.9513 0.041838617 0.093556083 5.02E-06 5.298953826 -0.467892667 DPLEEMVPLSHLEEEQPPAPES(ph)PESR ddPTM_HeLa_SAHA_4h_R1 1 DPLEEMVPLSHLEEEQPPAPESPESR 26 0 O60307 O60307 MAST3 Microtubule-associated serine/threonine-protein kinase 3 1 0 DPLEEMVPLSHLEEEQPPAPES(0.92)PES(0.08)R 73.164 0.00040589 823640 146.88 272.7 179.63 187.23 163.42 149.92 135.53 274.19 210.29 234.58 TRUE FALSE FALSE 162.3295123 281.5356589 204.1090409 190.8541074 150.8987949 137.1459726 120.2798077 267.1766168 208.8265748 244.6938918 0.663398302 1.150562676 0.834140319 0.779970869 0.616683947 0.560479755 0.491552146 1.091881023 0.853419647 1 7.934834278 -6.010156165 3.317768691 0.863973316 0.667574857 0.195750031 0.191736308 0.347837942 7.989846967 0.031178172 0.056615478 9.77E-07 6.010156165 -0.196398459 DPLQNS(ph)PGSEGK ddPTM_HeLa_SAHA_4h_R1 1 DPLQNSPGSEGK 12 0 Q6IE81-2;Q6IE81 Q6IE81-2 JADE1 Protein Jade-1 1 0 DPLQNS(0.5)PGS(0.5)EGK 94.023 0.010079 8800400 1378.7 1386.3 1122.1 1109 1055.9 1720.5 1143.2 1317 1489.3 1420.2 TRUE FALSE FALSE 1523.717992 1431.21703 1275.013944 1130.466299 974.9971701 1573.903721 1014.564127 1283.313047 1478.93584 1481.431772 1.028544156 0.966103911 0.860663291 0.763090356 0.658145173 1.06242066 0.684853765 0.866265373 0.998315189 1 10.53277647 -6.753325535 2.63218368 1.012987349 0.806444262 0.432387882 0.104368543 0.171784097 2.446778777 0.015885249 0.022431333 1.76E-07 6.753325535 -0.206543087 DPQRS(ph)PLLEVK ddPTM_HeLa_SAHA_4h_R1 2 DPQRSPLLEVK 11 1 A0A140T9E6;A2AB20;Q9BW19 A0A140T9E6 KIFC1 Kinesin-like protein KIFC1 1 0 DPQRS(1)PLLEVK;DPQRS(1)PLLEVK ; 120.87 0.0094034 11624500 2786 2724 2674.3 3020.7 3553.1 3367.3 2923.4 3307.5 3232.2 2890.5 TRUE FALSE FALSE 3079.044263 2812.259387 3038.739677 3079.170017 3280.862246 3080.387096 2594.451338 3222.898939 3209.706857 3015.123601 1.021200014 0.932717779 1.00783254 1.021241721 1.088135241 1.02164538 0.860479264 1.068911052 1.064535748 1 11.55800143 DPQTLTDT(ph)T(ph)EEKRR ddPTM_HeLa_SAHA_4h_R1 1 DPQTLTDTTEEKRR 14 2 Q8NFW9-5;Q8NFW9-4;Q8NFW9-3;Q8NFW9-6;Q8NFW9-2;Q8NFW9 Q8NFW9-5 MYRIP Rab effector MyRIP 2 0 DPQTLT(0.001)DT(1)T(1)EEKRR 90.05 0.0081367 18934000 1487.8 1443.5 1187.2 1277.1 1556.6 1788 1510.1 1457.3 1560.2 1235.6 TRUE FALSE FALSE 1644.29363 1490.270347 1348.985433 1301.820117 1437.333644 1635.652341 1340.179574 1420.024376 1549.342441 1288.872763 1.27576102 1.156258701 1.046639724 1.010045487 1.115186608 1.269056487 1.039807506 1.101756835 1.202091072 1 10.33189413 -6.808467126 24.9981659 1.135811856 1.099161996 0.074828595 0.092839979 507.9041792 269980.215 0.019809534 0.026034873 1.55E-07 6.808467126 -0.03664986 DPRGTK(ac)RGAEK ddPTM_HeLa_SAHA_4h_R1 1 DPRGTKRGAEK 11 3 F8WC68;O77932 F8WC68 DXO Decapping and exoribonuclease protein 0 1 DPRGTK(1)RGAEK 96.665 0.010867 4314000 96.193 172.86 145.94 450.84 990.77 1598.5 1532.5 1445.8 0 158.83 FALSE TRUE FALSE 106.3110211 178.4607774 165.8279432 459.5666601 914.8574166 1462.298807 1360.059067 1408.818529 0 165.6779386 0.641672766 1.077154743 1.000905399 2.773855494 5.52190246 8.826152833 8.20905353 8.503356219 0 1 7.372237698 -5.681264422 1.620819896 0.845917694 8.614850902 0.985900637 0.408449861 0.021388367 0.112972971 0.046767437 0.117553941 2.08E-06 5.681264422 7.768933208 DPS(ph)ASPGDAGEQAIR ddPTM_HeLa_SAHA_4h_R1 1 DPSASPGDAGEQAIR 15 0 P18206;P18206-2 P18206 VCL Vinculin 1 0 DPS(0.681)AS(0.319)PGDAGEQAIR 127.05 0.00044652 13959000 410.42 817.14 803.46 386.46 543.96 725.71 572.63 198.18 526.15 575.37 TRUE FALSE FALSE 453.5898587 843.6158721 912.9513446 393.9404921 502.2819023 663.8754253 508.1961653 193.1108426 522.4884793 600.1770165 0.755760128 1.405611759 1.521136797 0.656373839 0.836889598 1.106132703 0.846743796 0.321756477 0.870557294 1 9.229244262 -4.284099403 3.537746145 0.957750071 0.261136068 0.369898741 0.263969649 0.247098074 5.456892318 0.038728425 0.440928142 5.20E-05 4.284099403 -0.696614003 DPS(ph)PESNKKGESPSLESR ddPTM_HeLa_SAHA_4h_R1 1 DPSPESNKKGESPSLESR 18 2 E7EX82;Q8NDX5-2;Q8NDX5;Q8NDX5-7;Q8NDX5-3 E7EX82 PHC3 Polyhomeotic-like protein 3 1 0 DPS(0.587)PES(0.412)NKKGESPSLESR 76.678 0.0056774 17035000 2182.5 2133.8 2143 2390.9 2422.3 2914.1 2889.2 2757.9 2695.2 2162.2 TRUE FALSE FALSE 2412.065364 2202.93652 2435.03688 2437.179327 2236.703897 2665.802286 2564.099612 2687.356911 2676.443884 2255.423024 1.069451424 0.976728754 1.079636438 1.080586347 0.991700392 1.181952236 1.136859731 1.191509035 1.186670463 1 11.13918233 -5.254206969 24.99818131 1.034096787 1.166782283 0.402499768 0.060623308 230.9756628 798343.8019 0.005550062 0.013827203 5.57E-06 5.254206969 0.132685495 DPSAS(ph)PGDAGEQAIR ddPTM_HeLa_SAHA_4h_R1 1 DPSASPGDAGEQAIR 15 0 P18206;P18206-2 P18206 VCL Vinculin 1 0 DPS(0.101)AS(0.899)PGDAGEQAIR 182.7 9.77E-08 14282000 333.76 691.85 543.22 183.03 418.6 620.5 407.24 242.69 325.49 606.69 TRUE FALSE FALSE 368.8664081 714.2663939 617.2471926 186.5728103 386.5269584 567.6299092 361.4162834 236.4823412 323.2248886 632.847375 0.582867881 1.128655063 0.975349219 0.29481486 0.610774373 0.89694598 0.571095493 0.373679896 0.510746985 1 9.305713794 -6.282433034 24.76414854 0.839370219 0.573374825 0.283125395 0.229203107 820.6575476 968047.0125 0.036799094 0.056248126 5.22E-07 6.282433034 -0.265995394 DPSASNGGGS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 1 DPSASNGGGSPAR 13 0 O60504-2;O60504;E5RIA0;E5RJP2 O60504-2 SORBS3 Vinexin 1 0 DPSASNGGGS(1)PAR 122.96 0.0002253 0 246.67 399.5 173.61 424.83 475.02 760.23 427.5 195.02 733.47 514.87 TRUE FALSE FALSE 272.6158824 412.4440621 197.2686667 433.053199 438.6240702 695.4541271 379.3965749 190.0316708 728.3657226 537.0685654 0.507599774 0.767954203 0.367306298 0.806327584 0.816700322 1.294907526 0.706421115 0.353831304 1.356187588 1 9.068962473 -9.59185463 1.403544961 0.998953231 0.691471576 0.265404212 0.281160328 0.648117164 2.30277908 0.185177117 0.043619826 2.56E-10 9.59185463 -0.307481655 DPSASNGGGS(ph)PARR ddPTM_HeLa_SAHA_4h_R1 2 DPSASNGGGSPARR 14 1 O60504-2;O60504;E5RIA0;E5RJP2 O60504-2 SORBS3 Vinexin 1 0 DPSASNGGGS(1)PARR;DPSASNGGGS(1)PARR ; 77.051 0.010278 591810 0 0 0 0 0 0 0 63.965 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 62.32886792 0 0 0 DPSEEIEILLR ddPTM_HeLa_SAHA_4h_R1 1 DPSEEIEILLR 11 0 E9PGT3;Q15418-3;Q15418-4;Q15418;Q15418-2;Q5SVM6;B7Z3B5;F2Z2J1;Q15349;Q15349-3;Q15349-2 E9PGT3 RPS6KA1;RPS6KA2 Ribosomal protein S6 kinase;Ribosomal protein S6 kinase alpha-1;Ribosomal protein S6 kinase alpha-2 0 0 123.86 0.011178 955410 181.6 210.65 118.1 274.58 252.77 381.34 193.45 361.65 224.04 297.29 FALSE FALSE TRUE 200.7015212 217.4751982 134.194053 279.8948929 233.4028172 348.8476866 171.6824969 352.3995167 222.4808874 310.1076268 0.647199565 0.701289422 0.432733804 0.902573393 0.752651006 1.124924563 0.553622298 1.136378103 0.717431202 1 8.276625198 -4.226087157 22.79860606 0.799452474 1.136380466 0.223822059 0.198352011 7124.01969 4594004.477 0.028952998 6.532763711 5.94E-05 4.226087157 0.336927992 DPTVHDDVLELEMDELNR ddPTM_HeLa_SAHA_4h_R1 1 DPTVHDDVLELEMDELNR 18 0 P78527-2;P78527 P78527-2 PRKDC DNA-dependent protein kinase catalytic subunit 0 0 139.34 2.58E-09 0 561.54 407.06 244.2 599.99 500.04 674.67 757.44 586.78 636.1 412.83 FALSE FALSE TRUE 620.6053536 420.2490111 277.4783043 611.6036741 461.7270432 617.1843204 672.2108577 571.7710172 631.6733283 430.6291216 1.441159742 0.975895475 0.644355642 1.420256186 1.072215092 1.433215473 1.560997211 1.327757433 1.466861614 1 8.750302076 -5.229975384 10.75694377 1.159999292 1.452925219 0.230927171 0.245310301 1.011140423 341.245479 0.036198743 0.091830469 5.89E-06 5.229975384 0.292925927 DPVQEAWAEDVDLR ddPTM_HeLa_SAHA_4h_R1 3 DPVQEAWAEDVDLR 14 0 P14618;P14618-3;B4DNK4;P14618-2;H3BR70 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;; ;; 257.02 8.58E-43 55809600 2107.05 1787.08 1549.36 2011.9 1422.48 2709.35 2338.43 1425.92 3113.38 2129.22 FALSE FALSE TRUE 2328.679186 1844.982565 1760.498712 2050.843234 1313.48989 2478.498138 2075.303702 1389.447031 3091.713735 2221.021094 1.048472341 0.830691149 0.792652855 0.923378548 0.591390101 1.115927329 0.934391712 0.6255893 1.39202358 1 11.11700738 -7.257943202 24.07722275 1.022889719 0.838453974 0.325169575 0.184216136 173.0072231 1191454.185 0.022588216 0.027067836 5.52E-08 7.257943202 -0.184435745 DQALTEEHAR ddPTM_HeLa_SAHA_4h_R1 2 DQALTEEHAR 10 0 P12814-4;P12814-3;P12814;P12814-2;H9KV75;H0YJ11 P12814-4 ACTN1 Alpha-actinin-1 0 0 ; ; 166.29 0.00015633 4865200 4881.1 4320.8 3897.9 4324.3 4910.9 5464.7 5231.8 4916.4 4965.2 4558.1 FALSE FALSE TRUE 5394.516493 4460.796755 4429.085513 4408.00308 4534.627903 4999.076816 4643.104095 4790.645607 4930.646769 4754.621998 1.134583674 0.938202187 0.931532625 0.927098533 0.953730476 1.051414144 0.976545369 1.007576545 1.037021822 1 12.21511493 -7.245686893 24.98188831 1.063553403 0.969177721 0.416741628 0.047398058 683.0833821 1083304.119 0.010268625 0.01255371 5.68E-08 7.245686893 -0.094375682 DQCCSGKGDMS(ph)DEDDENEFFDAPEIITMPENLGHK ddPTM_HeLa_SAHA_4h_R1 1 DQCCSGKGDMSDEDDENEFFDAPEIITMPENLGHK 35 1 P22059 P22059 OSBP Oxysterol-binding protein 1 1 0 DQCCS(0.05)GKGDMS(0.932)DEDDENEFFDAPEIIT(0.018)MPENLGHK 48.088 0.0050257 4600400 182.45 314.17 224.35 136.07 252.21 152.62 167.13 362.49 175.29 206.01 TRUE FALSE FALSE 201.6409281 324.3493141 254.9232496 138.7038316 232.8857243 139.6159174 148.3240925 353.2180307 174.0701426 214.8920993 0.938335699 1.509358954 1.186284887 0.645458033 1.083733302 0.649702422 0.6902259 1.643699475 0.810035098 1 7.747468631 DQDMS(ph)SPTTMK ddPTM_HeLa_SAHA_4h_R1 4 DQDMSSPTTMK 11 0 Q5VW31;A0A1B0GWB8;A0A2R8Y7V8;Q5VW30;Q5VW27;A0A1B0GWI9;A0A1B0GU97;A0A0A0MRX8;A0A1B0GWJ4;A0A1B0GVN4;U3KQE8;A0A1B0GW37;Q5VW26;O00712-4;O00712;O00712-5;O00712-6 Q5VW31 NFIB Nuclear factor 1;Nuclear factor 1 B-type 1 0 DQDMS(0.666)S(0.064)PT(0.135)T(0.135)MK;DQDMS(0.887)S(0.088)PT(0.026)TMK;DQDMS(0.828)S(0.082)PT(0.082)T(0.009)MK;DQDMS(0.921)S(0.006)PT(0.073)TMK ;;; 212.1 2.79E-15 60806000 9234.7 12766.9 7731.6 9798.1 12214.7 13255.9 11149.6 9503.8 14943.8 10766.6 TRUE FALSE FALSE 10206.04812 13180.55594 8785.222184 9987.756394 11278.81232 12126.42274 9895.017664 9260.706557 14839.80488 11230.80082 0.908755153 1.173607844 0.782243611 0.889318274 1.004274985 1.079746934 0.881060739 0.824581142 1.321348773 1 13.45517318 -4.938956843 0.008745893 1.858963759 1.23E-06 0.061339437 0.153454342 18164.60446 31.82063257 3218.928319 3549.953129 1.15E-05 4.938956843 -1.858962531 DQDNMQAELNR ddPTM_HeLa_SAHA_4h_R1 1 DQDNMQAELNR 11 0 P33176 P33176 KIF5B Kinesin-1 heavy chain 0 0 175.65 0.00025116 7322700 623.43 636.57 668.38 709.62 798.16 902.7 930.22 745.45 699.15 688.44 FALSE FALSE TRUE 689.0052278 657.1952857 759.4633456 723.3557212 737.0051532 825.7848815 825.5491974 726.3824684 694.2845582 718.1220175 0.959454258 0.915158246 1.057568668 1.007288042 1.026295163 1.149922801 1.149594605 1.011502851 0.966805837 1 9.488085186 -5.682587062 1.556483629 0.979772467 1.10658913 0.518517279 0.050542942 0.22240125 1.080804941 0.007705529 0.01971337 2.08E-06 5.682587062 0.126816663 DQDS(ph)SDDERALEDWVSSETSALPRPR ddPTM_HeLa_SAHA_4h_R1 2 DQDSSDDERALEDWVSSETSALPRPR 26 2 Q5TAQ8;V9GY54;Q5TAQ9-2;Q5TAQ9 Q5TAQ8 DCAF8 DDB1- and CUL4-associated factor 8 1 0 DQDS(0.825)S(0.175)DDERALEDWVSSETSALPRPR;DQDS(0.788)S(0.212)DDERALEDWVSSETSALPRPR ; 124.45 2.16E-08 6439500 1402.89 1190.93 1263.36 1388.29 1438.39 1883.24 1298.62 1326.18 1248.72 1182.23 TRUE FALSE FALSE 1550.452407 1229.516913 1435.524122 1415.16236 1328.180869 1722.777357 1152.49586 1292.258236 1240.030056 1233.201721 1.257257739 0.997011999 1.164062697 1.147551399 1.077018339 1.396995583 0.934555832 1.047888771 1.005537079 1 10.26819309 DQEPKPS(ph)PEPAAVSR ddPTM_HeLa_SAHA_4h_R1 1 DQEPKPSPEPAAVSR 15 1 Q9H7S9 Q9H7S9 ZNF703 Zinc finger protein 703 1 0 DQEPKPS(1)PEPAAVSR 161.94 2.76E-05 4179700 300.02 426.29 322.51 575.84 666.97 563.16 759.57 472.38 749.96 502.75 TRUE FALSE FALSE 331.5774801 440.1020757 366.4599832 586.9862159 615.8669027 515.1755997 674.1011845 460.2972036 744.7409673 524.4260129 0.632267416 0.839207181 0.698783001 1.119292715 1.174363757 0.98236088 1.285407604 0.877716193 1.420106839 1 9.034595439 -6.249037817 24.17284281 0.814408892 1.097753119 0.031284095 0.234894205 376.3604668 733592.215 0.02487007 0.041038244 5.64E-07 6.249037817 0.283344228 DQGGELLSLR ddPTM_HeLa_SAHA_4h_R1 1 DQGGELLSLR 10 0 A0A2R8Y5E8;A0A2R8Y3N3;A0A2R8Y5P7;P49590-2;P49590;A0A2R8Y4X6;D6RJE6;A0A2R8Y6I1;B3KWE1;P12081-3;P12081-2;P12081-4;P12081 A0A2R8Y5E8;B3KWE1 HARS2;HARS "Probable histidine--tRNA ligase, mitochondrial;Histidine--tRNA ligase, cytoplasmic" 0 0 120.63 0.001797 0 1432.1 1251.2 1242.2 1306.9 1541.9 1304.5 1304.6 1250.3 1350 1401.6 FALSE FALSE TRUE 1582.734849 1291.739701 1411.480547 1332.196939 1423.759955 1193.349261 1157.802974 1218.319136 1340.60524 1462.029835 1.082559884 0.883524857 0.965425269 0.911196822 0.973824146 0.816227708 0.791914738 0.833306617 0.916947936 1 10.51375704 -5.741468215 0.581362998 1.035582291 0.782120396 0.419236904 0.065481478 0.492918698 0.270254589 0.013313582 0.062421202 1.81E-06 5.741468215 -0.253461895 DQGGFGDRNEYGSR ddPTM_HeLa_SAHA_4h_R1 1 DQGGFGDRNEYGSR 14 1 A0A087WTP3;Q92945;M0R0I5 A0A087WTP3 KHSRP Far upstream element-binding protein 2 0 0 92.939 0.011587 11175000 1045.9 1085.6 1180.5 1277.8 1351 1482.6 1180.3 1201.2 1177 1310.6 FALSE FALSE TRUE 1155.912561 1120.774152 1341.372392 1302.533667 1247.486672 1356.274139 1047.489538 1170.475043 1168.809161 1367.10638 0.845517641 0.81981488 0.981176309 0.95276687 0.912501536 0.992076519 0.766209238 0.856169688 0.854951142 1 10.41690979 -9.45489894 1.199698967 0.999773952 0.888809704 0 0.081285458 0.535036059 1.382007261 0.048601645 0.012156316 3.51E-10 9.45489894 -0.110964248 DQGSTYSGDLESEAVST(ph)PHSWEEELNHYALK ddPTM_HeLa_SAHA_4h_R1 1 DQGSTYSGDLESEAVSTPHSWEEELNHYALK 31 0 Q5VZL5-2;Q5VZL5-4;Q5VZL5;H7C1I7;Q5VZL5-3 Q5VZL5-2 ZMYM4 Zinc finger MYM-type protein 4 1 0 DQGSTYSGDLES(0.007)EAVS(0.247)T(0.733)PHS(0.013)WEEELNHYALK 117.62 9.52E-12 4242600 492.64 518.4 447.98 384.99 460.97 718.58 596.6 311.27 587.47 349.1 TRUE FALSE FALSE 544.4581355 535.1965001 509.0283814 392.4420382 425.6505782 657.3529414 529.4689978 303.3081641 583.3817484 364.1514095 1.495142189 1.469708715 1.39784817 1.077689192 1.168883511 1.805163798 1.453980361 0.832917727 1.60203073 1 8.508394619 -9.437787752 1.171274504 1.000178481 1.362577594 0 0.312269556 0.593093319 1.456500008 0.173045253 0.043363722 3.65E-10 9.437787752 0.362399114 DQGTYEDYVEGLR ddPTM_HeLa_SAHA_4h_R1 4 DQGTYEDYVEGLR 13 0 P60660-2;F8W1R7;G8JLA2;G3V1V0;P60660;J3KND3;B7Z6Z4;G3V1Y7;F8VPF3;F8VZU9;F8W180;H0YI43 P60660-2 MYL6 Myosin light polypeptide 6 0 0 ;;; ;;; 209.67 7.47E-11 55903600 4257.99 4176.53 3313.34 4155.42 4068.95 5723.3 4951.02 4173.16 4782.4 4307.88 FALSE FALSE TRUE 4705.864925 4311.852312 3764.86472 4235.854163 3757.18793 5235.642642 4393.918199 4066.41661 4749.118889 4493.613789 1.047233951 0.959551157 0.837825611 0.942638678 0.836117234 1.165129646 0.977813939 0.904932378 1.056859604 1 12.13366042 -7.167845339 6.179432242 1.022210314 0.946796017 0.172565789 0.087700058 0.361024116 19.85727091 0.014559339 0.017866425 6.79E-08 7.167845339 -0.075414296 DQHLNNS(ph)SSSPQR ddPTM_HeLa_SAHA_4h_R1 2 DQHLNNSSSSPQR 13 0 A0A5H1ZRS1;A0A4W8VX11;E7EV93;E9PGW9 A0A5H1ZRS1 PCM1 1 0 DQHLNNS(0.344)S(0.219)S(0.219)S(0.219)PQR;DQHLNNS(0.341)S(0.22)S(0.22)S(0.22)PQR ; 106.36 0.0025686 222220 152.87 226 311.98 367.13 267.19 0 167.53 234.2 67.632 0 TRUE FALSE FALSE 168.949568 233.3225483 354.4950097 374.236332 246.7179599 0 148.6790835 228.2095031 67.16134341 0 0 DQHLNNSS(ph)SSPQR ddPTM_HeLa_SAHA_4h_R1 3 DQHLNNSSSSPQR 13 0 A0A5H1ZRS1;A0A4W8VX11;E7EV93;E9PGW9 A0A5H1ZRS1 PCM1 1 0 DQHLNNS(0.15)S(0.395)S(0.228)S(0.228)PQR;DQHLNNS(0.102)S(0.299)S(0.299)S(0.299)PQR;DQHLNNS(0.216)S(0.261)S(0.261)S(0.261)PQR ;; 106.6 0.0025332 3171300 1952.76 1722.49 1419.22 4014.57 2093.44 835.56 2135.97 2440.76 3235 2047.325 TRUE FALSE FALSE 2158.160256 1778.299806 1612.623911 4092.277808 1933.041079 764.3655873 1895.625034 2378.328893 3212.487372 2135.5952 1.010566167 0.832695169 0.755116845 1.916223546 0.905153317 0.357916888 0.887633122 1.11366091 1.504258565 1 11.0604225 -5.522999318 25 1.042229696 0.769027947 0.130995084 0.375274796 6.922178707 1435259.627 0.048869277 0.098533305 3.00E-06 5.522999318 -0.27320175 DQHLNNSSS(ph)SPQR ddPTM_HeLa_SAHA_4h_R1 2 DQHLNNSSSSPQR 13 0 A0A5H1ZRS1;A0A4W8VX11;E7EV93;E9PGW9 A0A5H1ZRS1 PCM1 1 0 DQHLNNS(0.02)S(0.002)S(0.971)S(0.007)PQR;DQHLNNS(0.125)S(0.071)S(0.679)S(0.125)PQR ; 232.78 2.74E-23 8611060 1141.5 1597.4 844.37 1044 1660.5 36.734 1680.84 1365.4 1521.7 1594.82 TRUE FALSE FALSE 1261.568207 1649.156808 959.4363463 1064.20813 1533.272849 33.60405654 1491.707459 1330.475045 1511.110366 1663.580495 0.758345154 0.991329733 0.57672974 0.63970943 0.921670369 0.020199838 0.89668487 0.799765956 0.908348211 1 10.70007596 -8.177476557 0.339513052 1.038650214 0.619482597 0.166323065 0.25404156 1.929483134 0.550315801 0.325361533 0.156007646 6.65E-09 8.177476557 -0.419167617 DQHLNNSSSS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 2 DQHLNNSSSSPQR 13 0 A0A5H1ZRS1;A0A4W8VX11;E7EV93;E9PGW9 A0A5H1ZRS1 PCM1 1 0 DQHLNNS(0.009)S(0.075)S(0.075)S(0.842)PQR;DQHLNNSSS(0.193)S(0.807)PQR ; 152.11 6.38E-11 5600700 1152.51 1743.55 672.39 1465.47 2034.65 0 1833.8 1564.48 1648.57 1620.42 TRUE FALSE FALSE 1273.73629 1800.042164 764.0198075 1493.836291 1878.755557 0 1627.455998 1524.462867 1637.097467 1690.284236 0.753563373 1.064934598 0.452006705 0.883778159 1.111502738 0 0.962829779 0.901897346 0.968533831 1 10.72305015 -10.61753747 0.270810606 1.294893931 0.723258439 0.077201547 0.310062582 20.46691897 1.065093739 3.988848439 0.182807706 2.41E-11 10.61753747 -0.571635492 DQIIDS(ph)LKR ddPTM_HeLa_SAHA_4h_R1 1 DQIIDSLKR 9 1 Q6P3W7;A0A0U1RQQ9;F8VSC5 Q6P3W7 SCYL2 SCY1-like protein 2 1 0 DQIIDS(1)LKR 80.916 0.0078947 0 998.34 915.09 821.46 991.33 1253.5 1317.3 1386.9 1103.1 999.9 1135.1 TRUE FALSE FALSE 1103.349982 944.7395164 933.4042908 1010.518626 1157.457101 1205.058629 1230.842362 1074.884299 992.9416145 1184.039716 0.931852173 0.797895124 0.788321775 0.853449941 0.97754922 1.017751865 1.039527936 0.907811017 0.83860499 1 10.20950176 -3.900204363 13.92557715 0.944824779 5.67E-05 0 0.091806345 1225888.5 2490072.821 0.013320745 35162887.25 0.000125833 3.900204363 -0.944768047 DQITAGNAAR ddPTM_HeLa_SAHA_4h_R1 2 DQITAGNAAR 10 0 E9PBS1;P22234;P22234-2 E9PBS1 PAICS Multifunctional protein ADE2;Phosphoribosylaminoimidazole-succinocarboxamide synthase;Phosphoribosylaminoimidazole carboxylase 0 0 ; ; 128.35 0.01128 14617400 2057.9 2393.8 2097.61 2246.54 2358.5 2473.4 2374.69 2412 2748.7 2444.3 FALSE FALSE TRUE 2274.359364 2471.360691 2383.461367 2290.02503 2177.79224 2262.652405 2107.483631 2350.304533 2729.571573 2549.685735 0.892015566 0.96928051 0.934805939 0.898159722 0.854141438 0.887424036 0.826566036 0.921801656 1.070552161 1 11.31610372 -13.52287874 0.145378652 1.386910433 0.853156898 0.630864911 0.041566424 37.54987553 0.375693717 4.176372472 0.092946444 3.00E-14 13.52287874 -0.533753535 DQLIYNLLK ddPTM_HeLa_SAHA_4h_R1 2 DQLIYNLLK 9 0 P00338-3;P00338;P00338-2;P00338-5;F5GXY2;P00338-4;F5GYU2;F5GXH2;F5GZQ4;F5H6W8;F5H5J4;F5GXU1;F5GWW2;F5GXC7;F5H8H6 P00338-3 LDHA L-lactate dehydrogenase A chain 0 0 ; ; 158.76 8.75E-07 3045200 1648.24 2338.61 2013.18 2216.25 2307.28 1639.02 2564.07 704.6 1262.62 1421.81 FALSE FALSE TRUE 1821.609446 2414.382498 2287.525686 2259.148724 2130.496705 1499.366275 2275.554095 686.5773522 1253.833325 1483.111187 1.228235254 1.627917394 1.542383137 1.523249735 1.436505046 1.010960128 1.534311193 0.462930465 0.845407502 1 10.53441104 -2.749532252 10.88635269 1.206223945 1.163518105 0 0.36274217 0 0 0.045249257 0 0.001780196 2.749532252 -0.04270584 DQLIYNLLKEEQTPQNK ddPTM_HeLa_SAHA_4h_R1 1 DQLIYNLLKEEQTPQNK 17 1 P00338-3;P00338;P00338-2;P00338-5;F5GXY2;P00338-4;F5GYU2;F5GXH2;F5GZQ4;F5H6W8;F5H5J4;F5GXU1;F5GWW2;F5GXC7;F5H8H6 P00338-3 LDHA L-lactate dehydrogenase A chain 0 0 169.02 2.43E-12 1987000 877.63 698.01 644.96 827.49 625.47 399.6 847.97 506.98 448.02 769.76 FALSE FALSE TRUE 969.9431501 720.625982 732.85179 843.5072655 577.5466237 365.5518319 752.5541839 494.0121857 444.9021923 802.9481207 1.207977359 0.897475146 0.912701295 1.050512784 0.719282615 0.45526208 0.937238863 0.615247951 0.55408585 1 9.649162967 -6.011752015 1.128338106 1.085151992 0.675922866 0.033404284 0.223756329 0.270821475 0.681020586 0.026249337 0.062428295 9.73E-07 6.011752015 -0.409229126 DQMEGSPNSSES(ph)FEHIAR ddPTM_HeLa_SAHA_4h_R1 1 DQMEGSPNSSESFEHIAR 18 0 E7EPN9;Q9Y520-2;Q9Y520-6;Q9Y520-4;Q9Y520-5;Q9Y520;Q9Y520-7;Q9Y520-3 E7EPN9 PRRC2C Protein PRRC2C 1 0 DQMEGS(0.06)PNS(0.393)S(0.114)ES(0.433)FEHIAR 133.32 0.00010622 3180100 392.7 639.36 244.01 639.47 475.11 883.2 644.63 747.19 574.65 679.49 TRUE FALSE FALSE 434.0059878 660.0756835 277.2624121 651.8478665 438.7071744 807.9463913 572.0945358 728.0779617 570.6509639 708.7861392 0.612322905 0.93127623 0.391179224 0.919667909 0.618955634 1.139901511 0.807146901 1.027218115 0.805110219 1 9.469206581 -5.261502375 24.99999999 0.785522552 0.97299464 0.236046438 0.188991079 8.541873037 3390873.791 0.02924934 0.069625167 5.48E-06 5.261502375 0.187472087 DQNES(ph)LDEEMFYK ddPTM_HeLa_SAHA_4h_R1 1 DQNESLDEEMFYK 13 0 A0A0U1RRM8;H0YJ34;Q96AC1;Q96AC1-3 A0A0U1RRM8 FERMT2 Fermitin family homolog 2 1 0 DQNES(0.524)LDEEMFY(0.476)K 131.4 0.00069026 6683100 903.59 836.91 1008.2 1167.1 1515.9 1444.9 1287.2 1450.1 1441 1302.6 TRUE FALSE FALSE 998.633742 864.0264331 1145.592246 1189.690908 1399.752069 1321.786391 1142.360868 1413.008542 1430.971964 1358.761461 0.734958836 0.635892655 0.843115056 0.8755701 1.030167627 0.972787667 0.840736878 1.039923918 1.053144356 1 10.40807649 -5.930981869 7.192640348 0.848253233 0.961462856 0.172531555 0.121886876 0.359925217 31.31197724 0.019952895 0.036303959 1.17E-06 5.930981869 0.113209623 DQNESLDEEMFY(ph)K ddPTM_HeLa_SAHA_4h_R1 1 DQNESLDEEMFYK 13 0 A0A0U1RRM8;H0YJ34;Q96AC1;Q96AC1-3 A0A0U1RRM8 FERMT2 Fermitin family homolog 2 1 0 DQNES(0.117)LDEEMFY(0.883)K 145.99 0.00055511 7871400 1077.9 1414.8 1326.9 1282.8 1526.6 1622.3 1567.5 1352.9 1859.1 1372.7 TRUE FALSE FALSE 1191.278468 1460.640448 1507.723022 1307.630449 1409.632238 1484.070913 1391.120775 1318.294777 1846.162372 1431.883815 0.831965873 1.020083077 1.052964637 0.913223849 0.984459928 1.036446462 0.97153188 0.92067161 1.289324143 1 10.48369872 -7.219307417 24.99996411 0.920650484 0.986798887 0 0.129636749 697.4788087 413865.5827 0.01228634 0.015047567 6.04E-08 7.219307417 0.066148403 DQQEAALVDMVNDGVEDLR ddPTM_HeLa_SAHA_4h_R1 20 DQQEAALVDMVNDGVEDLR 19 0 P09211;A8MX94 P09211 GSTP1 Glutathione S-transferase P 0 0 ;;;;;;;;;;;;;;;;;;; ;;;;;;;;;;;;;;;;;;; 400.82 3.82E-264 275892100 23490.88 26738.88 24136.65 26000.33 26259.44 28741.71 29330.09 20414.89 28817.88 26546.53 FALSE FALSE TRUE 25961.75854 27605.23726 27425.86696 26503.60398 24247.44738 26292.75461 26029.79108 19892.70667 28617.33403 27691.08082 0.937549484 0.996899956 0.990422409 0.957116992 0.875641061 0.94950265 0.940006324 0.718379568 1.033449514 1 14.75713374 -3.653740944 1.3495175 0.966402681 9.02E-19 0.763625382 0.041185161 2.040775822 1.007070091 0.005802593 4.048141465 0.000221952 3.653740944 -0.966402681 DQQGLSSTST(ph)LT(ph)VAVK ddPTM_HeLa_SAHA_4h_R1 1 DQQGLSSTSTLTVAVK 16 0 A0A087X0U9;Q5VV43-4;Q5VV43-3;Q5VV43-2;Q5VV43 A0A087X0U9 KIAA0319 Dyslexia-associated protein KIAA0319 2 0 DQQGLS(0.001)S(0.001)T(0.001)S(0.178)T(0.848)LT(0.97)VAVK 65.472 0.022595 3532800 611.6 692.74 531.03 552.47 780.65 891.78 851.65 668.47 589.07 686.37 TRUE FALSE FALSE 675.9308941 715.1852305 603.3960029 563.1638557 720.8367657 815.795327 755.8201006 651.3715053 584.9706139 715.9627697 0.944086652 0.998913995 0.84277567 0.786582598 1.006807611 1.139438196 1.055669558 0.909784046 0.817040548 1 9.483740759 -5.530604823 24.99660701 0.950269132 1.043049255 0.217557346 0.093907083 230.6130981 746114.7667 0.012994319 0.026027392 2.95E-06 5.530604823 0.092780123 DQQYEMLK ddPTM_HeLa_SAHA_4h_R1 1 DQQYEMLK 8 0 A0A3B3ISD9;Q93038-8;Q93038-9;Q93038-10;Q93038;Q93038-2;Q93038-11 A0A3B3ISD9 TNFRSF25 Tumor necrosis factor receptor superfamily member 25 0 0 132.57 0.010038 7701000 882.2 665.52 1073.2 2151.9 667.13 803.77 1000.2 1616.7 1404.5 1128.9 FALSE FALSE TRUE 974.9938437 687.0832847 1219.450107 2193.553136 616.0146435 735.2842741 887.6548636 1575.347155 1394.72597 1177.572404 0.827969338 0.583474343 1.035562742 1.862775596 0.52312252 0.624406849 0.753800667 1.337792182 1.184407826 1 10.20160005 -4.246993614 23.32115601 0.911370308 1.33779295 0.094443858 0.370861779 1749.31136 2823953.449 0.048698848 1.287467852 5.66E-05 4.246993614 0.426422642 DQS(ph)PFSK ddPTM_HeLa_SAHA_4h_R1 2 DQSPFSK 7 0 Q13427;E9PG73 Q13427 PPIG Peptidyl-prolyl cis-trans isomerase G 1 0 DQS(0.769)PFS(0.231)K;DQS(0.913)PFS(0.087)K ; 117.53 0.004444 339830000 14401.5 17538.8 11524.7 15938.3 16654.1 18830.5 18067.6 14949.7 19458.3 16324.4 TRUE FALSE FALSE 15916.31585 18107.06863 13095.2261 16246.80884 15378.06646 17226.03546 16034.5861 14567.30832 19322.88811 17028.22477 0.934702006 1.063356214 0.769030611 0.954110546 0.903092757 1.011616636 0.941647548 0.855480152 1.134756462 1 14.05564042 -9.659477494 0.304900765 1.042397095 0.920573369 0.230028352 0.086433591 8.302546118 0.834795527 0.361947068 0.039440872 2.19E-10 9.659477494 -0.121823726 DQS(ph)PSRAPGLR ddPTM_HeLa_SAHA_4h_R1 2 DQSPSRAPGLR 11 1 P09601 P09601 HMOX1 Heme oxygenase 1 1 0 DQS(0.941)PS(0.059)RAPGLR;DQS(0.811)PS(0.189)RAPGLR ; 135.94 0.0048113 137657000 7897.9 10069.7 7236.1 6250.7 7903.8 7128.1 11742.3 7389.3 6092.2 7459.4 TRUE FALSE FALSE 8728.637359 10395.96489 8222.198024 6371.691337 7298.212552 6520.745778 10421.0255 7200.292406 6049.803884 7781.011239 1.121787013 1.336068612 1.056700443 0.818877025 0.937951678 0.838033204 1.339289352 0.925367177 0.777508694 1 12.92574195 -6.505338825 24.69895028 1.085550975 0.978470348 0.043243015 0.186044574 1287.171464 1812539.341 0.025278112 0.038098202 3.12E-07 6.505338825 -0.107080626 DQSPS(ph)RAPGLR ddPTM_HeLa_SAHA_4h_R1 1 DQSPSRAPGLR 11 1 P09601 P09601 HMOX1 Heme oxygenase 1 1 0 DQS(0.413)PS(0.587)RAPGLR 116.9 0.011002 10058000 3516 4110.3 2886.9 2754.4 3459.4 3195.9 4928 3365 2482.3 3094.4 TRUE FALSE FALSE 3885.829012 4243.476417 3280.311698 2807.715395 3194.341519 2923.59134 4373.48847 3278.928172 2465.025472 3227.814728 1.203857513 1.314659228 1.016263935 0.869850234 0.989629762 0.905749427 1.354937888 1.015835309 0.763682454 1 11.65634206 DQTAS(ph)APATPLVNK ddPTM_HeLa_SAHA_4h_R1 2 DQTASAPATPLVNK 14 0 A0A0X1KG75;A0A590PXD8;A0A0D9SG04;Q53SF7;Q53SF7-3;Q53SF7-2;A0A0B4J1Z0 A0A0X1KG75 COBLL1 Cordon-bleu protein-like 1 1 0 DQT(0.005)AS(0.498)APAT(0.498)PLVNK;DQT(0.009)AS(0.979)APAT(0.013)PLVNK ; 200.81 5.41E-12 24644500 3637.72 3640.04 3766.8 3489.66 3587.73 4220.8 4185.63 3731.6 3727.1 3436.25 TRUE FALSE FALSE 4020.35208 3757.979684 4280.119887 3557.207415 3312.838902 3861.164094 3714.651896 3636.151075 3701.162808 3584.403554 1.121623729 1.048425387 1.194095426 0.992412646 0.924237144 1.077212439 1.036337522 1.014436857 1.032574249 1 11.80751736 DQTASAPAT(ph)PLVNK ddPTM_HeLa_SAHA_4h_R1 1 DQTASAPATPLVNK 14 0 A0A0X1KG75;A0A590PXD8;A0A0D9SG04;Q53SF7;Q53SF7-3;Q53SF7-2;A0A0B4J1Z0 A0A0X1KG75 COBLL1 Cordon-bleu protein-like 1 1 0 DQT(0.001)AS(0.001)APAT(0.998)PLVNK 173.19 2.80E-06 20609000 3174.2 3404.2 3359.8 3411.8 3341.6 4194.1 4032.1 2949.2 3436.5 3650.4 TRUE FALSE FALSE 3508.07692 3514.498314 3817.656047 3477.840323 3085.56733 3836.739085 3578.397496 2873.763734 3412.585117 3807.786609 0.921290314 0.922976699 1.00259191 0.913349586 0.810330947 1.007603492 0.939757887 0.754707138 0.89621228 1 11.89473692 -1 0.092430498 1.044525732 0.542251462 0.126275783 0.073099756 152.9602683 1.020786441 0.719829935 9.784293285 0.1 1 -0.502274269 DQVANSAFVER ddPTM_HeLa_SAHA_4h_R1 1 DQVANSAFVER 11 0 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 0 0 125.36 0.010425 78346000 1342.3 1065 1235.8 1881.9 1204.1 1564.7 1427.9 1851.7 1480.5 1548.2 FALSE FALSE TRUE 1483.489273 1099.506699 1404.208388 1918.326896 1111.842118 1431.378757 1267.228934 1804.336195 1470.19708 1614.950479 0.918597376 0.680829978 0.86950554 1.187854935 0.688468243 0.886329814 0.78468594 1.117270293 0.910366664 1 10.65727421 -8.334074653 1.278519535 0.984423603 0.885686817 0.016960621 0.155988634 0.808915252 2.684209787 0.040793039 0.028973939 4.63E-09 8.334074653 -0.098736786 DQVTAQEIFQDNHEDGPTAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 DQVTAQEIFQDNHEDGPTAKK 21 1 P13010 P13010 XRCC5 X-ray repair cross-complementing protein 5 0 1 ; DQVTAQEIFQDNHEDGPTAK(1)K;DQVTAQEIFQDNHEDGPTAK(1)K 208.98 7.56E-38 7463100 2347.4 2142.25 2102.4 2202.7 2525.8 2740.8 2726.8 2863.7 2284.3 1873.52 FALSE TRUE FALSE 2594.310302 2211.660306 2388.904123 2245.336444 2332.27375 2507.268421 2419.973287 2790.450701 2268.40337 1954.296616 1.327490556 1.131691212 1.222385642 1.148923058 1.193408273 1.28295183 1.238283517 1.427854236 1.160726244 1 10.93243374 -9.439541238 1.054311352 0.993389182 1.24613391 0.275720577 0.094803634 0.336608958 0.640416449 0.065965597 0.014820143 3.63E-10 9.439541238 0.252744728 DQWEDR ddPTM_HeLa_SAHA_4h_R1 1 DQWEDR 6 0 E7EQR4;P15311 E7EQR4 EZR Ezrin 0 0 147.69 7.38E-05 40345000 4091.8 5150.9 3944.3 3873.5 4881.5 4509.1 5024.3 4061.6 4187.9 4222.8 FALSE FALSE TRUE 4522.194298 5317.79254 4481.808663 3948.477194 4507.480525 4124.899312 4458.952541 3957.710153 4158.756063 4404.865574 1.026636164 1.207254217 1.01746775 0.896389941 1.023295819 0.936441588 1.012278914 0.898486023 0.944127804 1 12.10488228 -6.497645002 24.37860064 1.031569887 0.959327531 0.248999972 0.073901615 697.6063237 673965.853 0.010781384 0.01642379 3.18E-07 6.497645002 -0.072242356 DQYSVIFESGDR ddPTM_HeLa_SAHA_4h_R1 4 DQYSVIFESGDR 12 0 P55884;P55884-2;C9JZG1;C9JQN7 P55884 EIF3B Eukaryotic translation initiation factor 3 subunit B 0 0 ;;; ;;; 193.28 2.21E-06 36945200 2162.99 2621.7 2129.07 2701.94 2656.76 2975.61 2572 2376.84 3272.18 2410.84 FALSE FALSE TRUE 2390.503212 2706.6448 2419.208572 2754.239956 2453.199623 2722.071288 2282.591791 2316.043874 3249.408633 2514.783111 0.950580272 1.076293533 0.961994918 1.095219681 0.975511412 1.082427855 0.907669445 0.92097162 1.292122815 1 11.29621826 -1.077275659 14.25971213 0.988591723 0.847265678 0 0.115573297 0 0 0.008143811 0 0.083699785 1.077275659 -0.141326046 DRAS(ph)PAAAEEVVPEWAS(ph)CLKSPR ddPTM_HeLa_SAHA_4h_R1 1 DRASPAAAEEVVPEWASCLKSPR 23 2 Q8N3V7-2;Q8N3V7-3;Q8N3V7 Q8N3V7-2 SYNPO Synaptopodin 2 0 DRAS(1)PAAAEEVVPEWAS(0.807)CLKS(0.193)PR 63.052 0.0024439 2710900 539.54 857.93 708 464.57 797.06 952.45 644.24 565.2 656.46 557.55 TRUE FALSE FALSE 596.2912927 885.7274949 804.4825529 473.5624241 735.989435 871.2959017 571.7484197 550.7430024 651.8916414 581.5887091 1.025280036 1.522944791 1.38324995 0.814256564 1.265480955 1.498130703 0.983080329 0.946963024 1.120880841 1 9.183855451 -7.478689225 24.98200053 1.011152724 1.204812237 0.082533905 0.224302115 629.4685384 355864.6119 0.038095636 0.043302061 3.32E-08 7.478689225 0.193659513 DRAS(ph)PAAAEEVVPEWASCLK ddPTM_HeLa_SAHA_4h_R1 4 DRASPAAAEEVVPEWASCLK 20 1 Q8N3V7-2;Q8N3V7-3;Q8N3V7 Q8N3V7-2 SYNPO Synaptopodin 1 0 DRAS(1)PAAAEEVVPEWASCLK;DRAS(1)PAAAEEVVPEWASCLK;DRAS(1)PAAAEEVVPEWASCLK;DRAS(1)PAAAEEVVPEWASCLK ;;; 136.71 2.26E-05 182835000 14978.9 16281.6 14901.4 15611.9 18253 18474.9 18054.8 16595.9 17113.6 15245.2 TRUE FALSE FALSE 16554.44943 16809.13452 16932.08519 15914.0909 16854.45908 16900.73458 16023.22639 16171.40091 16994.50506 15902.49518 1.040996978 1.057012395 1.064743928 1.000729176 1.059862549 1.062772502 1.007591966 1.016909656 1.068669091 1 13.95696553 -9.08962608 0.910608653 1.000501018 1.039215523 0 0.030607052 0.562804777 0.860212684 0.013854451 0.00432716 8.14E-10 9.08962608 0.038714505 DRDDRDFDFCR ddPTM_HeLa_SAHA_4h_R1 1 DRDDRDFDFCR 11 2 A0A0A0MT33;Q9UPN6;Q9UPN6-2 A0A0A0MT33 SCAF8 Protein SCAF8 0 0 79.07 0.013049 8169800 1238.6 1107.2 1116.5 1390 1175.7 1348.9 1412.2 1031.9 1253.4 1302.5 FALSE FALSE TRUE 1368.881631 1143.074006 1268.650806 1416.90546 1085.61812 1233.966131 1253.295539 1005.505492 1244.677487 1358.657149 1.007525432 0.84132631 0.933753454 1.042871972 0.79903758 0.90822481 0.922451657 0.740073015 0.916108591 1 10.40796573 -1.367707525 0.221066342 1.017378486 5.26E-15 0.266796604 0.07749951 27.75648852 0.384299272 0.052381832 9.849210589 0.042883722 1.367707525 -1.017378486 DRDGYS(ph)YGSR ddPTM_HeLa_SAHA_4h_R1 1 DRDGYSYGSR 10 1 Q13247;Q13247-3;A0A590UJK4;A0A590UK01;A0A590UJP7;A0A590UK80;Q13247-2 Q13247 SRSF6 Serine/arginine-rich splicing factor 6 1 0 DRDGYS(1)YGSR 122.18 0.012266 2577900 1318.7 997.92 1119.6 1086.3 1331.4 1236.3 1132.7 1368.5 1150.7 1029.2 TRUE FALSE FALSE 1457.406916 1030.253263 1272.173257 1107.326907 1229.38842 1130.960285 1005.245615 1333.495752 1142.692185 1073.573849 1.357528332 0.959648248 1.184989052 1.031439904 1.145136332 1.053453646 0.936354417 1.242109011 1.064381539 1 10.06820572 -7.22546918 24.998508 1.168832942 1.077337151 0.034730545 0.124402522 1262.912429 877697.9213 0.025282795 0.030964382 5.95E-08 7.22546918 -0.091495791 DRDGYSYGSR ddPTM_HeLa_SAHA_4h_R1 2 DRDGYSYGSR 10 1 Q13247;Q13247-3;A0A590UJK4;A0A590UK01;A0A590UJP7;A0A590UK80;Q13247-2 Q13247 SRSF6 Serine/arginine-rich splicing factor 6 0 0 ; ; 128.91 0.0027292 22585400 3345.9 3199.1 3599.1 3364.4 3633 3434.4 4073.9 3105.3 2889.4 3333.7 FALSE FALSE TRUE 3697.837114 3302.752939 4089.566605 3429.522827 3354.640325 3141.769799 3615.49405 3025.870922 2869.29243 3477.432122 1.063381537 0.949767766 1.176030606 0.986222795 0.964688945 0.903474083 1.039702264 0.870145215 0.82511817 1 11.76380664 -6.006476316 23.89240505 1.035440953 0.951757439 0.023024715 0.095011109 169.5002738 625328.1226 0.009461048 0.016698929 9.85E-07 6.006476316 -0.083683514 DRDYFDYSR ddPTM_HeLa_SAHA_4h_R1 1 DRDYFDYSR 9 1 Q9HCG8;B7WP74 Q9HCG8 CWC22 Pre-mRNA-splicing factor CWC22 homolog 0 0 102.06 0.014101 6775600 3384.6 2696.1 2398.5 3128.4 3484.8 3046.3 3567.7 2965.5 3080.8 3337.1 FALSE FALSE TRUE 3740.607757 2783.455409 2725.355089 3188.954706 3217.795377 2786.738102 3166.253006 2889.646804 3059.360462 3480.978712 1.074585071 0.799618624 0.782927824 0.916108649 0.924393868 0.800561662 0.909587006 0.830124813 0.878879394 1 11.76527728 -7.264482932 24.99987753 1.03522073 0.854751781 0.365435428 0.071130629 105.3418164 865280.2362 0.009328472 0.010908083 5.44E-08 7.264482932 -0.180468949 DREAAEGLGSHDR ddPTM_HeLa_SAHA_4h_R1 2 DREAAEGLGSHDR 13 1 P17655 P17655 CAPN2 Calpain-2 catalytic subunit 0 0 ; ; 115.12 0.0010043 15808700 6415.3 6463 6015.2 6182 6975.7 6414.9 6902.5 6045.8 6304.5 6563.9 FALSE FALSE TRUE 7090.090688 6672.405441 6834.92013 6301.661549 6441.223373 5868.314431 6125.812534 5891.15719 6260.626471 6846.901852 1.035518084 0.974514545 0.998250052 0.920366859 0.940750067 0.85707588 0.894683854 0.860412098 0.914373626 1 12.74123562 -5.97765164 0.921136468 1.016175852 0.869170371 0.551558282 0.03882475 0.135697181 0.223483241 0.003962451 0.010869952 1.05E-06 5.97765164 -0.14700548 DREDYVPYTGEK ddPTM_HeLa_SAHA_4h_R1 2 DREDYVPYTGEK 12 1 Q9NYL9 Q9NYL9 TMOD3 Tropomodulin-3 0 0 ; ; 164.53 0.00018916 18915600 7970.5 9592.5 8145.3 8961.8 9440.3 10627.9 9937.9 9433.4 11174.9 9268.8 FALSE FALSE TRUE 8808.87376 9903.303294 9255.299065 9135.268598 8716.986253 9722.343129 8819.661337 9192.107287 11097.13296 9668.423328 0.911097235 1.024293513 0.957270772 0.944856083 0.901593358 1.005576897 0.912212988 0.950734879 1.147770695 1 13.23906493 -6.297198736 5.203068242 0.963005821 0.94241028 0.009053158 0.069726967 0.556413563 40.36626495 0.006796951 0.01063828 5.04E-07 6.297198736 -0.020595541 DREEALHQFR ddPTM_HeLa_SAHA_4h_R1 4 DREEALHQFR 10 1 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;F6S8Q4;A0A2R8YDT5;A0A2R8Y7T2;A0A0J9YVQ7;A0A2R8YDH3;A0A087WVZ1;O15523-2;O15523 A0A2R8Y5G6 DDX3X;DDX3Y ATP-dependent RNA helicase DDX3X;ATP-dependent RNA helicase DDX3Y 0 0 ;;; ;;; 122.96 0.0016179 60550800 6245.31 5190.97 6355.55 6576.08 6814.07 6706.78 7174.85 4148.66 5297.41 6238.8 FALSE FALSE TRUE 6902.22036 5359.160834 7221.651256 6703.369538 6291.977429 6135.324613 6367.516995 4042.543284 5260.544892 6507.7852 1.060609739 0.823499957 1.109694164 1.030053902 0.966838523 0.942766921 0.978446092 0.621185728 0.808346424 1 12.66795092 -3.864874238 1.524160113 1.013617741 1.55E-13 0.48245465 0.099023112 1.332996062 1.267596555 0.010429656 2.728235627 0.000136498 3.864874238 -1.013617741 DREEDEEDAYER ddPTM_HeLa_SAHA_4h_R1 2 DREEDEEDAYER 12 1 P49756 P49756 RBM25 RNA-binding protein 25 0 0 ; ; 182.71 1.43E-05 15875500 3506.4 3419.4 3137.2 3183.5 3431.9 3347 3761.2 3657.3 3314.9 3670.6 FALSE FALSE TRUE 3875.21924 3530.190804 3564.721278 3245.121246 3168.948563 3061.81677 3337.979877 3563.751562 3291.831341 3828.857529 1.012108497 0.921995863 0.931014343 0.847542961 0.827648597 0.799668503 0.871795268 0.930761078 0.859742447 1 11.90269826 -6.793699005 1.391929393 1.006148379 0.852475228 0.24481284 0.058572389 0.132043038 0.514914492 0.006598203 0.009630029 1.61E-07 6.793699005 -0.153673151 DREPYFDR ddPTM_HeLa_SAHA_4h_R1 1 DREPYFDR 8 1 H0YIQ2;P49750-3;P49750-1;P49750;F8VU51;H0YI23 H0YIQ2 YLPM1 YLP motif-containing protein 1 0 0 136.27 0.0019494 6732400 2571.1 2031.5 3024.9 5103.8 2330.8 2564.8 2872.3 3765.5 3392.5 2745.1 FALSE FALSE TRUE 2841.540095 2097.321933 3437.117619 5202.591429 2152.214608 2346.264611 2549.101245 3669.183962 3368.891316 2863.454695 0.992346797 0.732444601 1.200339445 1.816893223 0.751614688 0.81938248 0.890218815 1.281383627 1.176512875 1 11.48354106 -4.242370256 22.6919868 1.013593281 1.28138449 0.046348381 0.301323812 2646.000479 3148522.397 0.040117657 1.620217115 5.72E-05 4.242370256 0.267791209 DRERQQEKE ddPTM_HeLa_SAHA_4h_R1 1 DRERQQEKE 9 3 A0A0A0MS30 A0A0A0MS30 PRRC2C 0 0 41.876 0.023784 5481000 1398.2 1070.2 1487.8 1448.4 1556 690.08 1508.1 1608.8 1537.7 1485.5 FALSE FALSE TRUE 1545.269091 1104.875182 1690.549636 1476.435876 1436.779616 631.2813017 1338.404619 1567.649226 1526.999021 1549.547175 0.997239139 0.713031007 1.090995914 0.952817636 0.927225476 0.407397278 0.863739188 1.011682155 0.985448553 1 10.59763096 -5.501386731 24.76974771 0.978098185 0.753901483 0.208958609 0.168263504 678.417984 781882.4015 0.023015271 0.050992933 3.15E-06 5.501386731 -0.224196702 DRFGLEGDEESTMLEES(ph)VSPK ddPTM_HeLa_SAHA_4h_R1 1 DRFGLEGDEESTMLEESVSPK 21 1 Q9Y4G6 Q9Y4G6 TLN2 Talin-2 1 0 DRFGLEGDEESTMLEES(0.832)VS(0.168)PK 85.387 0.0036813 4203700 407.65 630.81 514.87 548.8 684.34 513.39 749.58 650.86 623.19 546.48 TRUE FALSE FALSE 450.5284974 651.2486579 585.0338023 559.4228176 631.906017 469.6462837 665.2352856 634.2119436 618.8531701 570.0414272 0.790343431 1.142458472 1.026300501 0.981372214 1.108526481 0.82388097 1.166994632 1.112571672 1.085628413 1 9.154922959 -7.258048155 24.98914002 0.90099551 1.045899598 0.05308063 0.119302218 307.9912534 2269517.365 0.019476797 0.023330231 5.52E-08 7.258048155 0.144904089 DRFGLEGDEESTMLEESVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 DRFGLEGDEESTMLEESVSPK 21 1 Q9Y4G6 Q9Y4G6 TLN2 Talin-2 1 0 DRFGLEGDEESTMLEES(0.001)VS(0.999)PK;DRFGLEGDEESTMLEES(0.01)VS(0.99)PK ; 147.45 3.49E-06 12430100 2163.97 2639.4 2411.5 2526.5 2745.5 2807.5 2721.9 2669.9 3374.2 2799.3 TRUE FALSE FALSE 2391.586293 2724.918292 2740.126661 2575.404061 2535.140383 2568.285205 2415.624648 2601.607824 3350.718667 2919.991522 0.81903878 0.933193905 0.938402266 0.881990253 0.868201282 0.879552281 0.827271117 0.89096417 1.147509725 1 11.51174847 -9.504500586 1.212782252 1.001010347 0.874534438 0.561629558 0.060701159 0.277633279 0.721413527 0.029604042 0.006929485 3.13E-10 9.504500586 -0.126475909 DRFS(ph)AEDEALSNIAR ddPTM_HeLa_SAHA_4h_R1 2 DRFSAEDEALSNIAR 15 1 C9JSU1;Q9Y608-4;Q9Y608;Q9Y608-2;Q9Y608-5;C9JJC9;C9JC17;C9J321;C9J0U5 C9JSU1 LRRFIP2 Leucine-rich repeat flightless-interacting protein 2 1 0 DRFS(1)AEDEALSNIAR;DRFS(1)AEDEALSNIAR ; 121.82 0.00043124 4940300 526.62 671.63 606.68 701.3 750.46 1084.41 840.64 789.87 977.24 487.41 TRUE FALSE FALSE 582.0123078 693.3912527 689.3551909 714.8746756 692.9599169 992.0121673 746.0489748 769.6662691 970.4393073 508.4246304 1.144736649 1.363803426 1.355865058 1.406058308 1.362955049 1.951148917 1.467373786 1.513825694 1.908718125 1 8.989890113 -6.778115361 0.535100193 1.018073908 1.62828305 0 0.315060798 0.325484728 0.200439273 0.043400428 0.077197428 1.67E-07 6.778115361 0.610209141 DRFVGQSEGK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 DRFVGQSEGKK 11 2 Q9NWH9;H7C3F4;Q9NWH9-3;H0YMM0 Q9NWH9 SLTM SAFB-like transcription modulator 0 1 DRFVGQSEGK(1)K 113.61 0.002388 5700000 992.39 764.73 718.69 1350.8 1330.5 1381.3 1253.8 1655.4 958.49 847.45 FALSE TRUE FALSE 1096.774133 789.5077538 816.6293304 1376.946687 1228.557377 1263.605469 1112.719124 1613.057265 951.8197901 883.9877168 1.240711961 0.893120729 0.923801672 1.557653643 1.3897901 1.429437813 1.258749531 1.824750768 1.076734181 1 9.787882513 -6.254877925 24.97917524 1.083561436 1.469951288 0.651289958 0.16726148 309.4055323 1177892.934 0.026417388 0.043136667 5.56E-07 6.254877925 0.386389852 DRHDDYYR ddPTM_HeLa_SAHA_4h_R1 1 DRHDDYYR 8 1 F8WJN3;Q16630-3;Q16630;Q16630-2 F8WJN3 CPSF6 Cleavage and polyadenylation specificity factor subunit 6 0 0 109.48 0.010029 2736500 406.53 315.64 484.25 560.95 269.37 0 430.32 194.91 282.67 305.11 FALSE FALSE TRUE 449.2906906 325.8669431 550.2410681 571.8079984 248.7309288 0 381.8992611 189.9244844 280.7028765 318.2647853 1.411688353 1.023886268 1.72887826 1.796642371 0.781521991 0 1.199941931 0.596749918 0.881979061 1 8.314083727 -5.542179962 24.01652331 1.267790929 0.614294911 0.413856561 0.389062026 114.4908183 142460.5873 0.055500886 0.111017186 2.87E-06 5.542179962 -0.653496018 DRLGS(ph)YSGPTSVSR ddPTM_HeLa_SAHA_4h_R1 2 DRLGSYSGPTSVSR 14 1 A0A2R8YFI4;V9GYZ0;Q9BZ23-3;Q9BZ23-4;Q9BZ23 A0A2R8YFI4 PANK2 "Pantothenate kinase 2, mitochondrial" 1 0 DRLGS(0.971)YS(0.029)GPTSVSR;DRLGS(0.973)YS(0.024)GPT(0.002)S(0.001)VSR ; 127.05 0.0027631 27551000 2788 2692.4 2614.3 3281.6 3340.1 3453.8 3522.9 3864.1 3250.7 2869.2 TRUE FALSE FALSE 3081.254632 2779.635527 2970.563189 3345.120113 3084.18226 3159.516809 3126.49402 3765.261917 3228.078114 2992.905254 1.029519604 0.928741571 0.992534991 1.117683264 1.030497793 1.055668837 1.044635147 1.258062517 1.078576781 1 11.54733089 -1.000000016 0.97282258 1.013993795 198.0088162 0.644527865 0.049856244 564.1334701 0.833246451 0.006916213 247563.3057 0.099999996 1.000000016 196.9948224 DRMEEKDY(ph)T(ph)VTQVPSM ddPTM_HeLa_SAHA_4h_R1 1 DRMEEKDYTVTQVPSM 16 2 H7C323 H7C323 KCTD17 2 0 DRMEEKDY(0.829)T(0.846)VT(0.241)QVPS(0.083)M 45.257 0.0088232 0 152.68 138.82 195.42 0 0 114.2 282.99 0 99.482 130.22 TRUE FALSE FALSE 168.7395829 143.3178591 222.0508199 0 0 104.4695175 251.1472204 0 98.78969666 135.8344215 1.242244647 1.055092351 1.634716867 0 0 0.769094581 1.84892178 0 0.727280284 1 7.085705306 -6.267299944 24.98261486 1.147384617 0.581781417 0.225794336 0.557616268 587.019735 2502366.274 0.083050052 0.128965526 5.40E-07 6.267299944 -0.5656032 DRMEMPTAT(ph)QK ddPTM_HeLa_SAHA_4h_R1 1 DRMEMPTATQK 11 1 Q96C74 Q96C74 ROPN1L Ropporin-1-like protein 1 0 DRMEMPT(0.008)AT(0.992)QK 55.806 0.0085875 0 1413.6 1072.6 1068.7 972.66 1309.8 1210.5 1301.8 1312.4 880.97 1376 TRUE FALSE FALSE 1562.288934 1107.352944 1214.33687 991.4872408 1209.443407 1107.35859 1155.318038 1278.830708 874.839258 1435.326094 1.088455746 0.771499207 0.846035528 0.690774901 0.842626224 0.771503141 0.804916766 0.890968759 0.609505576 1 10.48716283 -7.258877023 24.99985815 1.041770771 0.800416539 0 0.147157631 69.4146481 677250.668 0.009525716 0.011381809 5.51E-08 7.258877023 -0.241354232 DRMYQMDIQQELQR ddPTM_HeLa_SAHA_4h_R1 1 DRMYQMDIQQELQR 14 1 P04114 P04114 APOB Apolipoprotein B-100;Apolipoprotein B-48 0 0 49.243 0.021259 8659100 2605.2 2833.3 2585.4 2781.2 2743.5 2922.5 3248.9 3178 3580.2 3367.8 FALSE FALSE TRUE 2879.226889 2925.100779 2937.724848 2835.034148 2533.293623 2673.486558 2883.325221 3096.711362 3555.285097 3513.00234 0.819591509 0.832649824 0.836243351 0.807011745 0.721119253 0.761026125 0.820758127 0.881499943 1.012036074 1 11.77848882 -9.168359462 0.489897967 1.039562872 0.797886898 0.786891801 0.040871398 0.594189919 0.204225101 0.06942692 0.012043904 6.79E-10 9.168359462 -0.241675974 DRNVIPDT(ph)PPSTPLVPSR ddPTM_HeLa_SAHA_4h_R1 2 DRNVIPDTPPSTPLVPSR 18 1 Q9UKA4 Q9UKA4 AKAP11 A-kinase anchor protein 11 1 0 DRNVIPDT(0.999)PPS(0.001)TPLVPSR;DRNVIPDT(0.997)PPS(0.001)T(0.001)PLVPS(0.001)R ; 127.07 0.00026146 10440100 1643.22 1584.36 1707.71 1976.21 1705.54 1990.61 2084.49 2225.24 2093.39 1783.71 TRUE FALSE FALSE 1816.061419 1635.694304 1940.427825 2014.462402 1574.861894 1820.998829 1849.937699 2168.321583 2078.821929 1860.614467 0.976054659 0.879115116 1.042896236 1.082686627 0.84642032 0.978708304 0.994261698 1.165379299 1.117277096 1 10.86156343 -4.260393841 4.245963318 0.980658019 1.179878874 0.301918628 0.078536117 0.158897121 6.520984183 0.008642981 0.09571801 5.49E-05 4.260393841 0.199220855 DRPFFAGLVK ddPTM_HeLa_SAHA_4h_R1 2 DRPFFAGLVK 10 1 P15531;P15531-2;E7ERL0;E5RHP0;Q32Q12;P22392-2;J3KPD9 P15531;Q32Q12 NME1;NME1-NME2;NME2 Nucleoside diphosphate kinase A;Nucleoside diphosphate kinase;Nucleoside diphosphate kinase B 0 0 ; ; 126.39 0.0007104 1903340 1698.21 1412.13 3029.5 2685.9 2541.2 925.71 2224.2 793.37 553.59 890.65 FALSE FALSE TRUE 1876.835519 1457.883939 3442.344483 2737.889478 2346.493805 846.8343001 1973.927162 773.0767442 549.7375221 929.0502802 2.020165711 1.569219632 3.705229476 2.946976646 2.525690864 0.911505349 2.124672049 0.832115076 0.591719882 1 9.859612867 -5.243169785 24.32716906 1.842803094 1.372955125 0.09407183 0.927713396 1726.001663 2298278.135 0.139789928 0.355541342 5.71E-06 5.243169785 -0.46984797 DRPFFPGLVK ddPTM_HeLa_SAHA_4h_R1 2 DRPFFPGLVK 10 1 Q32Q12;P22392-2;J3KPD9;P22392;F6XY72;O60361 Q32Q12 NME1-NME2;NME2;NME2P1 Nucleoside diphosphate kinase;Nucleoside diphosphate kinase B;Putative nucleoside diphosphate kinase 0 0 ; ; 142.43 3.32E-05 3755800 3649 2305.6 4570.9 3700.3 3091 1855.89 4060.6 1230.09 983.86 2081.11 FALSE FALSE TRUE 4032.818562 2380.302953 5193.798448 3771.924657 2854.168248 1697.757731 3603.690601 1198.626079 977.0132382 2170.836837 1.857725322 1.096490953 2.392532852 1.737544063 1.314777877 0.782075236 1.660046734 0.552149318 0.450062953 1 11.08403558 -5.516325788 23.16456085 1.493202125 1.061642726 0.090985978 0.564444168 178.5127123 631034.3228 0.073069364 0.150829832 3.05E-06 5.516325788 -0.431559399 DRPGDEDWVHR ddPTM_HeLa_SAHA_4h_R1 2 DRPGDEDWVHR 11 1 O60826 O60826 CCDC22 Coiled-coil domain-containing protein 22 0 0 ; ; 84.507 0.012218 6876400 3716.6 3346.3 3414.5 3794.1 4304.2 4561.5 3651 2895.3 4414.1 4202.1 FALSE FALSE TRUE 4107.52904 3454.722316 3879.810278 3867.540292 3974.413126 4172.834538 3240.179871 2821.242418 4383.381919 4383.273096 0.937091746 0.788160409 0.885139984 0.882340709 0.906722679 0.951990544 0.739214692 0.643638294 1.000024827 1 12.09779285 -2.356065104 0.259695891 0.983237341 2.28E-38 0.603863358 0.069428905 13.1414463 0.306850077 0.039674277 4.9995967 0.004404888 2.356065104 -0.983237341 DRPGS(ph)PESPLLDAPFSR ddPTM_HeLa_SAHA_4h_R1 4 DRPGSPESPLLDAPFSR 17 1 A0A2R8Y5P9;Q8TF72 A0A2R8Y5P9 SHROOM3 Protein Shroom3 1 0 DRPGS(1)PESPLLDAPFSR;DRPGS(1)PESPLLDAPFSR;DRPGS(0.917)PES(0.083)PLLDAPFSR;DRPGS(1)PESPLLDAPFSR ;;; 144.95 6.93E-05 49183900 3417.1 3308.42 3551.5 3636.78 3339.34 3828.39 3628.51 3529.93 3793.84 3501.35 TRUE FALSE FALSE 3776.526256 3415.614979 4035.479925 3707.175136 3083.480491 3502.189634 3220.220505 3439.639502 3767.438359 3652.310334 1.034010232 0.935192978 1.104911564 1.015021944 0.844254789 0.958897058 0.881694109 0.941770876 1.031521972 1 11.83459364 -5.787317092 23.90238066 1.017034793 0.908603008 0.565233962 0.04868991 71.32426632 65879.66945 0.006611336 0.011987797 1.63E-06 5.787317092 -0.108431785 DRPQEADGIDSVIVVDNVPQVGPDR ddPTM_HeLa_SAHA_4h_R1 1 DRPQEADGIDSVIVVDNVPQVGPDR 25 1 P55884;P55884-2;C9JZG1 P55884 EIF3B Eukaryotic translation initiation factor 3 subunit B 0 0 146.45 4.33E-09 6430600 807.3 701.77 675.19 851.06 732.04 946.66 870.95 769.64 1019.9 736.92 FALSE FALSE TRUE 892.215518 724.5078084 767.201377 867.533497 675.9512533 865.9992422 772.9484138 749.9537232 1012.802433 768.6922276 1.160692779 0.942520013 0.998060536 1.128583672 0.879352268 1.126587744 1.005536918 0.975622878 1.317565596 1 9.586262271 -7.252849601 24.99721411 1.075882702 1.011804359 0.181634996 0.110478661 1112.20571 3236643.568 0.014545926 0.017663629 5.59E-08 7.252849601 -0.064078343 DRPVGGS(ph)PGGPR ddPTM_HeLa_SAHA_4h_R1 2 DRPVGGSPGGPR 12 1 Q8NHG8 Q8NHG8 ZNRF2 E3 ubiquitin-protein ligase ZNRF2 1 0 DRPVGGS(1)PGGPR;DRPVGGS(1)PGGPR ; 99.796 0.0039728 231850000 2173.1 1905.02 1719.57 2358.49 2409.7 2275.5 2629.2 2457.38 2212 1910.51 TRUE FALSE FALSE 2401.676629 1966.743898 1953.904044 2404.141984 2225.069307 2081.614598 2333.355496 2394.523778 2196.606512 1992.881436 1.205127704 0.986884549 0.980441691 1.206364785 1.116508622 1.044525058 1.170845116 1.201538503 1.102226391 1 10.96064017 -4.621593219 5.79432151 1.089161539 1.194069284 0.226251008 0.077745432 0.277552941 13.21799924 0.013095577 0.051050422 2.39E-05 4.621593219 0.104907745 DRRPS(ph)VDAPVTDVGFLR ddPTM_HeLa_SAHA_4h_R1 1 DRRPSVDAPVTDVGFLR 17 2 A0A1B0GTT1;A0A1B0GVM0;Q9BUH8;G3V536;G3V3S3 A0A1B0GTT1 BEGAIN Brain-enriched guanylate kinase-associated protein 1 0 DRRPS(1)VDAPVTDVGFLR 71.535 0.012226 58546000 1236.8 1314.7 1124.3 1457.3 1501.6 1334.7 1683.3 1211.6 1317.7 1226.4 TRUE FALSE FALSE 1366.892299 1357.297143 1277.513749 1485.508149 1386.547732 1220.976051 1493.890654 1180.609026 1308.530018 1279.276106 1.068488884 1.060988426 0.99862238 1.161209955 1.083853381 0.954427309 1.167762492 0.922872725 1.022867552 1 10.32111196 -3.915781445 9.805646907 1.046192026 0.097165476 0.258469001 0.065958009 17268.98831 80563.29926 0.008682751 309049.7644 0.0001214 3.915781445 -0.94902655 DRS(ph)SPPPGYIPDELHQVAR ddPTM_HeLa_SAHA_4h_R1 4 DRSSPPPGYIPDELHQVAR 19 1 Q9Y2U5 Q9Y2U5 MAP3K2 Mitogen-activated protein kinase kinase kinase 2 1 0 DRS(0.356)S(0.356)PPPGY(0.287)IPDELHQVAR;DRS(0.5)S(0.5)PPPGY(0.001)IPDELHQVAR;DRS(0.5)S(0.5)PPPGYIPDELHQVAR;DRS(0.779)S(0.221)PPPGYIPDELHQVAR ;;; 157.53 2.28E-06 142801000 6575.9 5895.56 5729.5 6032.8 6222.7 6883.5 7027.8 6757.5 6469.05 6507.9 TRUE FALSE FALSE 7267.583333 6086.580012 6510.286422 6149.573568 5745.91807 6296.987074 6237.013448 6584.652935 6424.031354 6788.487418 1.070574767 0.896603269 0.959018706 0.905882738 0.846420965 0.927597959 0.918763351 0.969973505 0.946312626 1 12.72887444 -7.256248436 24.9661967 1.033326974 0.916556351 0.406723622 0.045037586 194.1920932 933980.5027 0.00680578 0.008204988 5.54E-08 7.256248436 -0.116770622 DRS(ph)SSAPNVHINTIEPVNIDDLIR ddPTM_HeLa_SAHA_4h_R1 3 DRSSSAPNVHINTIEPVNIDDLIR 24 1 H7C560;A0A2U3TZI2;A0A2R8Y8E0;P15056;A0A2R8Y679;A0A2R8Y492;A0A2R8YDP5 H7C560 BRAF Serine/threonine-protein kinase B-raf 1 0 DRS(0.333)S(0.333)S(0.333)APNVHINTIEPVNIDDLIR;DRS(0.333)S(0.333)S(0.333)APNVHINTIEPVNIDDLIR;DRS(0.333)S(0.333)S(0.333)APNVHINTIEPVNIDDLIR ;; 109.85 6.71E-06 16638000 3341.8 3110.14 3079.83 3857.13 4119.31 4537 3898.78 4046.69 3611.13 3576.64 TRUE FALSE FALSE 3693.305857 3210.910577 3499.533193 3931.790329 3803.689358 4150.422076 3460.079013 3943.181529 3585.999852 3730.846454 0.98993778 0.860638629 0.937999791 1.05386013 1.019524498 1.112461241 0.927424662 1.056913378 0.961175941 1 11.86528727 -6.248337129 24.73620935 0.978987134 1.031664563 0.275996326 0.059360438 1029.874852 1944337.352 0.009147798 0.015114001 5.64E-07 6.248337129 0.052677429 DRSS(ph)PPPGYIPDELHQVAR ddPTM_HeLa_SAHA_4h_R1 1 DRSSPPPGYIPDELHQVAR 19 1 Q9Y2U5 Q9Y2U5 MAP3K2 Mitogen-activated protein kinase kinase kinase 2 1 0 DRS(0.014)S(0.986)PPPGYIPDELHQVAR 240.87 2.11E-41 66622000 1011 1014.9 693.77 864.89 1213.1 1012.6 1101.1 729.87 910.69 956.36 TRUE FALSE FALSE 1117.341619 1047.783426 788.3133626 881.6311966 1120.15254 926.3207833 977.2013301 711.2009822 904.3524341 997.5933599 1.120037145 1.050311147 0.790215126 0.883758084 1.122854848 0.928555482 0.979558775 0.712916716 0.906534136 1 9.962308052 -6.897830842 12.10146303 1.058178571 0.91677572 0.157297197 0.116371663 0.462670442 51.79274018 0.017582428 0.023111562 1.27E-07 6.897830842 -0.141402851 DRSWVIGS(ph)PEILR ddPTM_HeLa_SAHA_4h_R1 2 DRSWVIGSPEILR 13 1 Q6P0Q8-2;Q6P0Q8;A0A669KBJ4;E7ERL6 Q6P0Q8-2 MAST2 Microtubule-associated serine/threonine-protein kinase 2 1 0 DRSWVIGS(1)PEILR;DRSWVIGS(1)PEILR ; 107.98 0.0017736 15222700 2092.11 2114 2100.68 2408.8 2372.4 2376.6 2315.3 2020.74 2068.29 2234.4 TRUE FALSE FALSE 2312.167729 2182.494987 2386.949731 2455.425807 2190.627225 2174.10031 2054.77635 1969.052397 2053.896601 2330.735919 0.992033336 0.936397371 1.024118482 1.053498076 0.9398865 0.932795643 0.881599813 0.844820033 0.881222358 1 11.18656984 -4.955548902 1.352586657 0.996343583 0.84574719 0.447244188 0.047900083 0.19729716 0.605777879 0.004650728 0.028542023 1.11E-05 4.955548902 -0.150596393 DRTMNLQDIRY(ph)ILK ddPTM_HeLa_SAHA_4h_R1 1 DRTMNLQDIRYILK 14 2 Q8IWB6-3;Q8IWB6-2;Q8IWB6 Q8IWB6-3 TEX14 Inactive serine/threonine-protein kinase TEX14 1 0 DRT(0.001)MNLQDIRY(0.999)ILK 74.611 0.019712 3907500 135.67 241.65 247.35 271.42 390.6 369.35 267.91 325.58 364.01 189.63 TRUE FALSE FALSE 149.9403931 249.4796186 281.0575699 276.6737266 360.6723124 337.8793021 237.7640617 317.252135 361.4768248 197.8058773 0.758017887 1.26123461 1.420875728 1.398713377 1.823364994 1.708135808 1.202007063 1.603855959 1.827432176 1 7.627941483 -6.958670539 2.307987708 0.886069774 1.536326892 0 0.343696895 0.114733112 1.231533513 0.031819816 0.042126921 1.10E-07 6.958670539 0.650257118 DRVTDALNATR ddPTM_HeLa_SAHA_4h_R1 1 DRVTDALNATR 11 1 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 94.402 0.018303 5303800 1231.8 1518.6 1570.6 1260.3 1740.9 1359.9 1416.5 1410 1568.7 1527.1 FALSE FALSE TRUE 1361.366376 1567.803636 1784.633189 1284.694929 1607.512618 1244.028869 1257.111692 1373.934242 1557.783289 1592.940754 0.854624613 0.984219678 1.120338709 0.806492599 1.009147775 0.780963677 0.789176677 0.862514339 0.977929207 1 10.63747689 -5.251127984 24.45859019 0.943363275 0.808714066 0.391046392 0.085072955 492.7154989 1168714.78 0.012666798 0.031889001 5.61E-06 5.251127984 -0.13464921 DRWPEVSPEDTQSLS(ph)LSEESPSKETSLDVSSK ddPTM_HeLa_SAHA_4h_R1 1 DRWPEVSPEDTQSLSLSEESPSKETSLDVSSK 32 2 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 DRWPEVS(0.003)PEDT(0.018)QS(0.255)LS(0.425)LS(0.125)EES(0.125)PS(0.033)KET(0.006)S(0.008)LDVSSK 49.588 0.0035473 11863000 477.3 505.35 337.12 522.56 368.66 599.45 488.13 410.03 399.16 580.76 TRUE FALSE FALSE 527.5046039 521.7236716 383.060958 532.6749044 340.4133504 548.3734876 433.2043277 399.5420263 396.3822131 605.7994058 0.870757876 0.861215225 0.6323231 0.87929255 0.561924207 0.905206381 0.715095333 0.659528587 0.654312648 1 9.242696353 -7.626098231 0.521381409 0.992250907 0.717705377 0 0.146738275 0.442121463 0.291253404 0.042368176 0.036660122 2.37E-08 7.626098231 -0.27454553 DRYDSFIELQEK ddPTM_HeLa_SAHA_4h_R1 2 DRYDSFIELQEK 12 1 Q9NSD9-2;Q9NSD9 Q9NSD9-2 FARSB Phenylalanine--tRNA ligase beta subunit 0 0 ; ; 228.61 2.29E-22 19063700 4812.3 5272.9 5403.4 6044.2 5660.3 6437.6 5867.2 5024.7 5303.4 5623.2 FALSE FALSE TRUE 5318.479794 5443.74542 6139.747212 6161.194231 5226.609037 5889.080263 5207.007214 4896.17545 5266.493208 5865.643671 0.906717164 0.928072983 1.046730343 1.050386722 0.891054645 1.00399557 0.887712842 0.834720915 0.897854268 1 12.51807372 -4.572018696 4.583351863 0.964145895 0.844898518 0.369967276 0.056287931 0.150998243 6.671859806 0.008049613 0.034968273 2.68E-05 4.572018696 -0.119247377 DRYSAGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 DRYSAGKR 8 2 P17844-2;P17844;J3KTA4 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 0 1 ; DRYSAGK(1)R;DRYSAGK(1)R 102.07 0.003527 6546600 2019.49 1735.59 2462.37 4019 3897.1 1531.65 4322.9 2227.06 403.11 1001.62 FALSE TRUE FALSE 2231.909224 1791.824255 2797.92896 4096.793557 3598.50504 1401.144803 3836.475915 2170.09503 400.3047247 1044.80474 2.136197452 1.714984806 2.677944359 3.921109275 3.444189045 1.341059003 3.671954929 2.077034059 0.383138312 1 10.02901763 -7.985867832 0.523801634 1.052869226 2.877223181 0.484890583 0.80642735 0.563325577 0.366049606 0.415405666 0.260683664 1.03E-08 7.985867832 1.824353954 DS(ph)AIPVES(ph)DTDDEGAPR ddPTM_HeLa_SAHA_4h_R1 1 DSAIPVESDTDDEGAPR 17 0 C9JA08;Q96D46 C9JA08 NMD3 60S ribosomal export protein NMD3 2 0 DS(0.961)AIPVES(0.997)DT(0.041)DDEGAPR 152.94 0.00052186 7614000 2042.1 2060.5 2417 2159.4 2424.2 2420.9 2246.2 2044.3 2337.9 2384.2 TRUE FALSE FALSE 2256.897447 2127.261552 2746.376173 2201.19831 2238.45832 2214.6257 1993.451664 1992.009766 2321.630364 2486.99453 0.90747986 0.855354335 1.10429522 0.885083696 0.900065639 0.890482739 0.801550482 0.800970707 0.933508432 1 11.28018762 -5.003252222 0.946374174 0.955571949 0.774765913 0.429100316 0.065041233 0.624140027 0.794695617 0.010721707 0.088484658 9.93E-06 5.003252222 -0.180806036 DS(ph)DGVDGFEAEGK ddPTM_HeLa_SAHA_4h_R1 2 DSDGVDGFEAEGK 13 0 Q96KR1 Q96KR1 ZFR Zinc finger RNA-binding protein 1 0 DS(1)DGVDGFEAEGK;DS(1)DGVDGFEAEGK ; 193.45 1.16E-07 11383400 2617.93 3313.7 2137.12 3276.7 3542 3859.2 3900.3 3312.9 4063 2968.1 TRUE FALSE FALSE 2893.295889 3421.066054 2428.355584 3340.125267 3270.612725 3530.374449 3461.427979 3228.160815 4034.725252 3096.069317 0.934506173 1.104970756 0.784335018 1.078827676 1.056375808 1.140276295 1.118007262 1.042664257 1.303176654 1 11.59622206 -6.037810449 24.98331981 0.966460035 1.091591225 0 0.132129035 407.0047247 268928.5739 0.010938955 0.018143341 9.17E-07 6.037810449 0.12513119 DS(ph)GRLSPDLSVCGQPR ddPTM_HeLa_SAHA_4h_R1 3 DSGRLSPDLSVCGQPR 16 1 Q8TF76-2;Q8TF76 Q8TF76-2 GSG2 Serine/threonine-protein kinase haspin 1 0 DS(0.52)GRLS(0.48)PDLSVCGQPR;DS(0.577)GRLS(0.423)PDLSVCGQPR;DS(0.911)GRLS(0.088)PDLS(0.001)VCGQPR ;; 101.3 0.0067497 25179900 1433.68 1937.26 1599.47 2281.42 1700.85 2050.45 2353.68 2107.05 2528.8 1970.9 TRUE FALSE FALSE 1584.48104 2000.028495 1817.437442 2325.580183 1570.53124 1875.740124 2088.837732 2053.154712 2511.201875 2055.875144 0.770708788 0.972835583 0.884021312 1.13118746 0.763923454 0.91238037 1.016033361 0.998676752 1.221475867 1 11.00553694 DS(ph)HSPDLQLPTPEVIPSSGSK ddPTM_HeLa_SAHA_4h_R1 3 DSHSPDLQLPTPEVIPSSGSK 21 0 H3BPE1;H3BQK9;H0Y6T5;H0Y4F5 H3BPE1 MACF1 1 0 DS(0.539)HS(0.461)PDLQLPTPEVIPSSGSK;DS(0.543)HS(0.457)PDLQLPTPEVIPSSGSK;DS(0.574)HS(0.426)PDLQLPTPEVIPSSGSK ;; 95.366 0.0002952 12436700 4816.32 6102.9 4147.44 5432.2 6355.3 349.6418 5349.9 5542.8 6613.1 5688.66 TRUE FALSE FALSE 5322.922636 6300.637964 4712.631524 5537.348086 5868.358287 319.8503516 4747.915172 5401.023202 6567.078899 5933.925972 0.897032194 1.061799219 0.794184415 0.933167706 0.98895037 0.053901979 0.800130503 0.910193896 1.10670051 1 12.53477121 DS(ph)LGTYSSR ddPTM_HeLa_SAHA_4h_R1 1 DSLGTYSSR 9 0 Q9C0C2;Q9C0C2-2;A0A2R8Y5C4 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 DS(0.588)LGT(0.406)YS(0.006)SR 109.16 0.0065381 23425000 1509.6 1652.6 1488.6 1341.5 2080.1 2177.3 2080.6 1780.3 2504.9 1741.3 TRUE FALSE FALSE 1668.386654 1706.145324 1691.458656 1367.466672 1920.723187 1991.781791 1846.485412 1734.762504 2487.468197 1816.375965 0.918524957 0.939312872 0.931227174 0.752854419 1.057448031 1.096569119 1.01657666 0.955067969 1.36946769 1 10.82684714 DS(ph)S(ph)GS(ph)Y(ph)ECSVS(ph)NDVGSAACLFQVSAK ddPTM_HeLa_SAHA_4h_R1 1 DSSGSYECSVSNDVGSAACLFQVSAK 26 0 A0A3B3IU48;Q8NFP4;Q8NFP4-2 A0A3B3IU48 MDGA1 MAM domain-containing glycosylphosphatidylinositol anchor protein 1 5 0 DS(0.974)S(0.975)GS(0.974)Y(0.973)ECS(0.197)VS(0.854)NDVGS(0.028)AACLFQVS(0.026)AK 41.482 0.0081819 0 170.37 198.24 173.38 128.74 188.18 263.56 185.35 162.13 151.36 136.06 TRUE FALSE FALSE 188.2902983 204.6631061 197.0073235 131.2319489 173.7616891 241.1032053 164.4939302 157.9829494 150.3066734 141.9262125 1.326677398 1.442038807 1.388096815 0.92464913 1.224310055 1.698792641 1.159010216 1.1131344 1.059048014 1 7.148997256 -9.213803907 0.950027473 0.999748864 1.289027317 0.207451117 0.197674768 0.685185486 1.110522356 0.134297847 0.037449101 6.11E-10 9.213803907 0.289278452 DS(ph)SPVGLVEEAGSR ddPTM_HeLa_SAHA_4h_R1 1 DSSPVGLVEEAGSR 14 0 Q6ICB4 Q6ICB4 FAM109B Sesquipedalian-2 1 0 DS(0.88)S(0.119)PVGLVEEAGS(0.001)R 95.428 0.0066552 2175900 921.46 902.57 616.37 960.92 1006.6 1098.2 1011.2 1025.8 1284.1 1036.7 TRUE FALSE FALSE 1018.383391 931.8138602 700.3656937 979.5199961 929.4745255 1004.627182 897.4171147 999.5615213 1275.163844 1081.39721 0.941729256 0.86167585 0.647648881 0.905791125 0.859512598 0.929008483 0.829868161 0.924324117 1.179181739 1 10.07868082 -7.404575374 2.768635458 0.976297062 0.847996626 0.394095487 0.099146727 0.215975789 3.099169483 0.013845413 0.015598593 3.94E-08 7.404575374 -0.128300435 DS(ph)SVEVR ddPTM_HeLa_SAHA_4h_R1 1 DSSVEVR 7 0 O15371-2;O15371-3;O15371;B0QYA6;B0QYA5 O15371-2 EIF3D Eukaryotic translation initiation factor 3 subunit D 1 0 DS(0.605)S(0.395)VEVR 95.502 0.016548 7985800 2973.7 2826.1 2208.9 2934 3555.2 6168.8 4162.1 3800.2 3414.8 5837.9 TRUE FALSE FALSE 3286.48741 2917.667494 2509.917389 2990.791813 3282.801344 5643.183535 3693.769554 3702.996387 3391.036129 6089.600439 0.539688514 0.479122978 0.412164544 0.491131043 0.539083209 0.926691922 0.606570101 0.60808528 0.556856917 1 12.57213186 -9.160411817 0.901828893 1.00112654 0.576066664 0 0.187408741 0.349508482 0.510556531 0.096812138 0.027493217 6.91E-10 9.160411817 -0.425059877 DS(ph)YVGDEAQSK ddPTM_HeLa_SAHA_4h_R1 2 DSYVGDEAQSK 11 0 P60709;A0A2R8Y793;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5;P63267;P68133;P68032;P62736;A6NL76;F8WB63;B8ZZJ2;C9JFL5;F6UVQ4;F6QUT6;P63261;I3L3I0;I3L1U9;K7EM38;I3L3R2;J3KT65 P60709;P63267;P63261 ACTB;ACTG2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 DS(1)YVGDEAQSK;DS(1)YVGDEAQSK ; 129.76 0.0013678 8455300 3586.36 4178.1 3788.62 3945.64 4207.78 4887.8 4822.7 4577.9 5322.3 4253 TRUE FALSE FALSE 3963.5898 4313.473181 4304.913403 4022.013568 3885.380805 4471.331942 4280.037103 4460.803947 5285.261681 4436.367644 0.89343132 0.972298404 0.970368948 0.9066006 0.875802259 1.00788129 0.96476159 1.005508178 1.191348893 1 12.11516321 DS(ph)YYVYTQQELK ddPTM_HeLa_SAHA_4h_R1 2 DSYYVYTQQELK 12 0 Q9H7D0 Q9H7D0 DOCK5 Dedicator of cytokinesis protein 5 1 0 DS(1)YYVYTQQELK;DS(0.996)Y(0.001)Y(0.002)VYTQQELK ; 178.67 2.99E-05 8427100 1049.61 1583.31 1105.49 1818.18 1548.33 1714.84 1671.23 1563.96 1723.22 1160.15 TRUE FALSE FALSE 1160.012796 1634.610283 1256.14042 1853.373503 1429.69729 1568.725985 1483.178802 1523.956168 1711.227972 1210.169744 0.958553791 1.350728103 1.037986965 1.531498793 1.181402276 1.296285907 1.225595673 1.259291248 1.414039625 1 10.24099371 -7.269200078 24.94355672 0.980428172 1.266197559 0 0.181185663 275.043595 884012.4355 0.018121265 0.020924798 5.38E-08 7.269200078 0.285769386 DSAAPS(ph)PIPGADNLSADPVVS(ph)PPTSIPFK ddPTM_HeLa_SAHA_4h_R1 1 DSAAPSPIPGADNLSADPVVSPPTSIPFK 29 0 Q5T1M5;Q5T1M5-2;Q5T1M5-3 Q5T1M5 FKBP15 FK506-binding protein 15 2 0 DS(0.044)AAPS(0.909)PIPGADNLS(0.048)ADPVVS(0.871)PPT(0.064)S(0.065)IPFK 76.921 1.76E-05 4582600 2219 2192.7 1864.7 2260.2 2799.2 2855.9 2997.1 2600.6 2370.5 2304.1 TRUE FALSE FALSE 2452.404601 2263.744919 2118.811605 2303.949439 2584.725901 2612.561253 2659.85842 2534.080418 2354.003497 2403.441027 1.02037228 0.941876623 0.881574202 0.958604523 1.075427219 1.087008678 1.106687616 1.054355147 0.979430521 1 11.23088569 -5.704218571 7.698093903 0.990373715 1.083742333 0.617470661 0.042148889 0.174048414 20.09601442 0.007281994 0.014565691 1.98E-06 5.704218571 0.093368618 DSAAPS(ph)PIPGADNLSADPVVSPPTSIPFK ddPTM_HeLa_SAHA_4h_R1 1 DSAAPSPIPGADNLSADPVVSPPTSIPFK 29 0 Q5T1M5;Q5T1M5-2;Q5T1M5-3 Q5T1M5 FKBP15 FK506-binding protein 15 1 0 DS(0.072)AAPS(0.867)PIPGADNLS(0.06)ADPVVSPPTSIPFK 79.069 0.00071021 0 1840.7 1901.7 1639.6 1314.8 1722 1870.5 1863.9 1655 1659.2 1523 TRUE FALSE FALSE 2034.313271 1963.316328 1863.036149 1340.249855 1590.060732 1711.122877 1654.169066 1612.667496 1647.653492 1588.663983 1.28051828 1.235828563 1.172706229 0.84363331 1.000879197 1.077082942 1.041232812 1.015109245 1.03713152 1 10.6335983 -6.318516695 24.99958924 1.147971896 1.002944288 0.375565567 0.096216029 302.4169109 132456.4757 0.019169157 0.029281379 4.80E-07 6.318516695 -0.145027609 DSAIPVES(ph)DT(ph)DDEGAPR ddPTM_HeLa_SAHA_4h_R1 1 DSAIPVESDTDDEGAPR 17 0 C9JA08;Q96D46 C9JA08 NMD3 60S ribosomal export protein NMD3 2 0 DSAIPVES(1)DT(1)DDEGAPR 116 0.00045688 0 700.95 446.88 329.38 534.66 432.77 535.79 424.64 653.13 328.69 506.52 TRUE FALSE FALSE 774.6791371 461.3592052 374.2661911 545.0091174 399.6112561 490.1376777 376.8583896 636.4238803 326.4026195 528.358556 1.466199663 0.873193402 0.70835645 1.031513754 0.756325892 0.927661097 0.713262585 1.204530282 0.617767264 1 9.045373497 -7.228715118 23.36542083 1.220149832 0.876217198 0 0.259911281 231.2220365 165094.5368 0.035078576 0.042959686 5.91E-08 7.228715118 -0.343932635 DSAIPVES(ph)DTDDEGAPR ddPTM_HeLa_SAHA_4h_R1 2 DSAIPVESDTDDEGAPR 17 0 C9JA08;Q96D46 C9JA08 NMD3 60S ribosomal export protein NMD3 1 0 DSAIPVES(0.635)DT(0.365)DDEGAPR;DSAIPVES(0.966)DT(0.034)DDEGAPR ; 233.48 4.56E-28 115708000 5431.2 5797.5 5100.8 4124.4 5572.7 6497.8 5455.8 5446.1 4566.3 5110.4 TRUE FALSE FALSE 6002.478535 5985.342804 5795.91046 4204.233726 5145.72093 5944.150884 4841.899025 5306.796648 4534.522747 5330.734354 1.126013441 1.122798925 1.087263044 0.788678153 0.96529307 1.115071675 0.908298689 0.995509492 0.850637538 1 12.38011857 DSALAEAPEGLS(ph)PAPPAR ddPTM_HeLa_SAHA_4h_R1 5 DSALAEAPEGLSPAPPAR 18 0 C9JPC9;Q9H9J4-2;Q9H9J4 C9JPC9 USP42 Ubiquitin carboxyl-terminal hydrolase 42 1 0 DSALAEAPEGLS(1)PAPPAR;DSALAEAPEGLS(1)PAPPAR;DSALAEAPEGLS(1)PAPPAR;DSALAEAPEGLS(1)PAPPAR;DSALAEAPEGLS(1)PAPPAR ;;;; 253.34 7.55E-48 130262100 8798.77 9111.38 7868.75 8414.37 8947.06 9640.3 9655.58 8954.53 9515.12 9408.87 TRUE FALSE FALSE 9724.264999 9406.59469 8941.062271 8577.242299 8261.538196 8818.892205 8569.108726 8725.486089 9448.903505 9814.532432 0.990802676 0.958435336 0.911002367 0.87393285 0.841765846 0.898554492 0.873104122 0.889037369 0.96274617 1 13.26070382 -6.783102799 1.684156953 0.996182452 0.874365143 0.883453191 0.017626755 0.055747446 0.32175164 0.002422821 0.003489808 1.65E-07 6.783102799 -0.12181731 DSAPSTPT(ph)SPTEFLTPGLR ddPTM_HeLa_SAHA_4h_R1 1 DSAPSTPTSPTEFLTPGLR 19 0 Q9NZJ4-2;Q9NZJ4 Q9NZJ4-2 SACS Sacsin 1 0 DSAPST(0.001)PT(0.915)S(0.065)PT(0.019)EFLT(0.001)PGLR 204.9 8.63E-20 10744000 897.18 1646.5 1068.4 1131.3 1536.1 1819.2 1745.6 1316.8 1202.2 1298.9 TRUE FALSE FALSE 991.5495088 1699.84768 1213.995988 1153.197947 1418.40435 1664.193925 1549.180494 1283.118163 1193.833792 1354.901936 0.731823819 1.254590931 0.896002844 0.851130194 1.046868642 1.228276292 1.143389387 0.947019211 0.881121918 1 10.40397272 -5.607364115 5.032098201 0.903077131 1.114215094 0.205673143 0.144118138 0.212953034 9.342119117 0.023467497 0.047903769 2.47E-06 5.607364115 0.211137962 DSAYISS(ph)SPLGSHQVFDFR ddPTM_HeLa_SAHA_4h_R1 1 DSAYISSSPLGSHQVFDFR 19 0 Q9HCD6;Q9HCD6-2 Q9HCD6 TANC2 Protein TANC2 1 0 DSAYIS(0.166)S(0.668)S(0.166)PLGSHQVFDFR 111.44 0.00010728 0 440.81 673.15 575.75 509.86 652.68 613.54 582.11 493.03 533.28 635.08 TRUE FALSE FALSE 487.1764183 694.9605017 654.2102116 519.7290776 602.6717994 561.2629403 516.6094508 480.4190065 529.5688611 662.4614068 0.735403472 1.049058095 0.98754464 0.784542423 0.909746278 0.847238699 0.779833279 0.72520301 0.799395792 1 9.371692599 -4.597615812 1.285811706 0.890674678 0.697433639 0.267374797 0.095199016 1.083612886 2.283143687 0.017393062 0.233436693 2.53E-05 4.597615812 -0.193241039 DSAYISSS(ph)PLGSHQVFDFR ddPTM_HeLa_SAHA_4h_R1 2 DSAYISSSPLGSHQVFDFR 19 0 Q9HCD6;Q9HCD6-2 Q9HCD6 TANC2 Protein TANC2 1 0 DSAYISS(0.046)S(0.954)PLGSHQVFDFR;DSAYIS(0.001)S(0.178)S(0.821)PLGSHQVFDFR ; 203.06 4.97E-20 65545000 3442.6 5422.7 3117.5 4743.2 7270 8202.6 6269.9 4855.2 6371.3 5042.4 TRUE FALSE FALSE 3804.708463 5598.399038 3542.336665 4835.011495 6712.974171 7503.692333 5564.394351 4731.011014 6326.961605 5259.802541 0.72335576 1.064374374 0.673473317 0.919238214 1.276278742 1.426611032 1.057909362 0.899465517 1.202889568 1 12.36079292 -5.857437659 6.107354206 0.86765722 1.17499322 0.219059917 0.197768297 0.164317791 8.750528291 0.026820065 0.049149577 1.39E-06 5.857437659 0.307335999 DSCIS(ph)PSEPETK ddPTM_HeLa_SAHA_4h_R1 1 DSCISPSEPETK 12 0 Q8TDB6 Q8TDB6 DTX3L E3 ubiquitin-protein ligase DTX3L 1 0 DSCIS(0.845)PS(0.12)EPET(0.036)K 117.2 0.0016722 5270400 1717.5 2221.3 1523.4 2387.2 1999.3 2493.2 1965.6 1970 2280.9 2069.7 TRUE FALSE FALSE 1898.15453 2293.271577 1731.001018 2433.407708 1846.114066 2280.765334 1744.425515 1919.610253 2265.027031 2158.934896 0.879208787 1.062223591 0.801784723 1.127133436 0.855104093 1.056430807 0.808002834 0.889146892 1.049140961 1 11.07610402 -10.01382182 0.008204678 1.929691992 2.51E-06 0.065753902 0.109096844 20885.32957 31.6956125 3916.673663 3544.53245 9.69E-11 10.01382182 -1.929689478 DSDAGS(ph)STPTTSTR ddPTM_HeLa_SAHA_4h_R1 2 DSDAGSSTPTTSTR 14 0 P51532;P51532-4;P51532-3;P51532-2;P51532-5;A0A0A0MT49;Q9HBD4;A0A2R8Y4P4;A0A2R8Y7S2;A0A2R8YGG3;A0A2R8Y440;A0A2R8Y4C5;A0A2R8Y6N0;A0A2R8YG32;A0A2R8Y7F3;K7EP28;A0A2R8YF58;A0A2R8Y7Y7;A0A2R8Y526;A0A2R8YF80;A0A2R8Y6V2;A0A2R8YDA1;A0A2R8Y523;A0A2R8Y5K3;K7EQF0;A0A2R8YFK5 P51532 SMARCA4 Transcription activator BRG1 1 0 DSDAGS(0.487)S(0.311)T(0.201)PT(0.001)TSTR;DSDAGS(0.899)S(0.039)T(0.062)PTTSTR ; 183.96 8.35E-08 47915600 5298.15 4227.66 3493.46 4835.2 5527.8 5474.96 5117.94 5091.65 4804.37 4734.41 TRUE FALSE FALSE 5855.433726 4364.638958 3969.530536 4928.792288 5104.261158 5008.462607 4542.055922 4961.412966 4770.935998 4938.533585 1.185662429 0.883792503 0.803787292 0.998027492 1.033558053 1.014159876 0.919717532 1.004632829 0.966063289 1 12.26986701 -7.253591496 24.94565466 1.087673925 0.951626038 0.181399518 0.086683108 532.5160159 1692681.637 0.016128985 0.019563028 5.58E-08 7.253591496 -0.136047887 DSDAGSS(ph)TPTTSTR ddPTM_HeLa_SAHA_4h_R1 2 DSDAGSSTPTTSTR 14 0 P51532;P51532-4;P51532-3;P51532-2;P51532-5;A0A0A0MT49;Q9HBD4;A0A2R8Y4P4;A0A2R8Y7S2;A0A2R8YGG3;A0A2R8Y440;A0A2R8Y4C5;A0A2R8Y6N0;A0A2R8YG32;A0A2R8Y7F3;K7EP28;A0A2R8YF58;A0A2R8Y7Y7;A0A2R8Y526;A0A2R8YF80;A0A2R8Y6V2;A0A2R8YDA1;A0A2R8Y523;A0A2R8Y5K3;K7EQF0;A0A2R8YFK5 P51532 SMARCA4 Transcription activator BRG1 1 0 DSDAGS(0.095)S(0.578)T(0.326)PT(0.001)TSTR;DS(0.002)DAGS(0.062)S(0.456)T(0.456)PT(0.006)T(0.012)S(0.004)T(0.004)R ; 195.94 3.68E-09 61069210 2277.64 1871.52 1278.5 1946.62 2131.452 1885.155 2318.38 2477.37 2338.69 1799.44 TRUE FALSE FALSE 2517.212625 1932.158476 1452.727322 1984.299645 1968.140608 1724.529188 2057.509781 2414.002463 2322.414866 1877.022665 1.341066718 1.029374079 0.773953 1.057152736 1.04854387 0.918757786 1.096156066 1.286080615 1.237286533 1 10.87423036 -7.045103544 24.94668171 1.16233094 1.019411138 0.196340258 0.146141194 659.0399854 364512.5519 0.028858483 0.035345162 9.01E-08 7.045103544 -0.142919802 DSDAGSST(ph)PTTSTR ddPTM_HeLa_SAHA_4h_R1 2 DSDAGSSTPTTSTR 14 0 P51532;P51532-4;P51532-3;P51532-2;P51532-5;A0A0A0MT49;Q9HBD4;A0A2R8Y4P4;A0A2R8Y7S2;A0A2R8YGG3;A0A2R8Y440;A0A2R8Y4C5;A0A2R8Y6N0;A0A2R8YG32;A0A2R8Y7F3;K7EP28;A0A2R8YF58;A0A2R8Y7Y7;A0A2R8Y526;A0A2R8YF80;A0A2R8Y6V2;A0A2R8YDA1;A0A2R8Y523;A0A2R8Y5K3;K7EQF0;A0A2R8YFK5 P51532 SMARCA4 Transcription activator BRG1 1 0 DSDAGS(0.024)S(0.131)T(0.741)PT(0.104)T(0.001)STR;DSDAGS(0.011)S(0.053)T(0.852)PT(0.08)T(0.004)STR ; 162.67 1.82E-05 1097970 740.51 760.27 527.8 506.14 411.44 554.58 423.2 650.3 662.72 492.6 TRUE FALSE FALSE 818.4002394 784.9032468 599.7258353 515.9370716 379.9155561 507.326664 375.5804222 633.6662676 658.1080776 513.8383967 1.592719121 1.527529379 1.167148736 1.004084309 0.739367783 0.987327275 0.730931018 1.233201473 1.280768587 1 9.00517089 -6.313164304 3.054001903 1.306787456 0.91304993 0.47433713 0.201411662 0.237303726 4.413049785 0.041378666 0.067164278 4.86E-07 6.313164304 -0.393737526 DSDLSHVQNK ddPTM_HeLa_SAHA_4h_R1 2 DSDLSHVQNK 10 0 O60506-2;O60506;O60506-4;O60506-3;F6UXX1 O60506-2 SYNCRIP Heterogeneous nuclear ribonucleoprotein Q 0 0 ; ; 166.66 0.00015127 14537900 14545.5 14714.1 10327.2 14472.7 16671 15713.8 17081.9 16106.6 15013.2 13970 FALSE FALSE TRUE 16075.46243 15190.84649 11734.53703 14752.84004 15393.67158 14374.89584 15159.79965 15694.61649 14908.72192 14572.31507 1.103150896 1.042445653 0.805262375 1.012388215 1.056364175 0.986452446 1.040315117 1.077016001 1.02308534 1 13.83094247 -10.05485108 2.708694536 0.99928142 1.033291283 0 0.079103407 1.291985526 17.25952807 0.073126595 0.012509216 8.81E-11 10.05485108 0.034009863 DSDQVAQS(ph)DGEESPAAEEQLLGEHIK ddPTM_HeLa_SAHA_4h_R1 4 DSDQVAQSDGEESPAAEEQLLGEHIK 26 0 D6REX3;O94979-3;O94979-9;O94979-2;O94979;O94979-8;D6RHZ5;H0Y8V7 D6REX3 SEC31A Protein transport protein Sec31A 1 0 DS(0.002)DQVAQS(0.996)DGEES(0.002)PAAEEQLLGEHIK;DS(0.001)DQVAQS(0.59)DGEES(0.408)PAAEEQLLGEHIK;DS(0.004)DQVAQS(0.971)DGEES(0.025)PAAEEQLLGEHIK;DS(0.004)DQVAQS(0.991)DGEES(0.005)PAAEEQLLGEHIK ;;; 136.87 1.60E-09 20780900 5606.59 8136.6 4941.22 6766.25 7837.48 7408 7081.95 5829.35 14842.8 7400.01 TRUE FALSE FALSE 6196.31686 8400.231179 5614.583729 6897.220553 7236.973976 6776.796724 6285.070347 5680.243668 14739.50775 7719.060646 0.802729392 1.088245262 0.72736619 0.893531074 0.937545941 0.877930235 0.814227357 0.735872398 1.909495005 1 12.91420958 -13.5228785 0.334088452 2.579639736 0.848975106 0.152520398 0.302267411 56.10188333 0.75083573 60.50908309 0.033598032 3.00E-14 13.5228785 -1.73066463 DSDQVAQS(ph)DGEESPAAEEQLLGEHIKEEK ddPTM_HeLa_SAHA_4h_R1 1 DSDQVAQSDGEESPAAEEQLLGEHIKEEK 29 1 D6REX3;O94979-3;O94979-9;O94979-2;O94979;O94979-8;D6RHZ5;H0Y8V7 D6REX3 SEC31A Protein transport protein Sec31A 1 0 DS(0.016)DQVAQS(0.98)DGEES(0.004)PAAEEQLLGEHIKEEK 101.44 9.11E-09 8723700 2272.4 3328.4 2256.6 2544 2782.1 3172.1 2856.7 2334.6 4873.3 3236.3 TRUE FALSE FALSE 2511.421458 3436.242344 2564.117696 2593.242799 2568.936099 2901.819234 2535.256598 2274.884312 4839.386309 3375.832731 0.74394132 1.017894729 0.759551169 0.7681787 0.760978491 0.859586202 0.751001841 0.673873528 1.433538535 1 11.72102771 -13.52287875 0.249147486 2.334401029 0.76371325 0.440454291 0.160251998 31.10493012 0.410692075 20.45224101 0.05184506 3.00E-14 13.52287875 -1.570687779 DSDYVYPSLES(ph)DEDNPIFK ddPTM_HeLa_SAHA_4h_R1 1 DSDYVYPSLESDEDNPIFK 19 0 O75151;E7ET14;A0A087WW48 O75151 PHF2 Lysine-specific demethylase PHF2 1 0 DSDYVYPS(0.001)LES(0.999)DEDNPIFK 77.681 0.0042319 1135100 167.27 272.69 162.35 341.45 52.019 212.26 276.15 272.06 290.4 323.32 TRUE FALSE FALSE 184.8642261 281.5253349 184.4742125 348.0592585 48.03331546 194.1742539 245.0768752 265.1010991 288.3790828 337.2599075 0.548135791 0.834742964 0.546979372 1.032020856 0.142422252 0.575740696 0.726670647 0.786043918 0.855064822 1 8.397717015 -9.408198798 0.913456251 1.02110464 0.639077084 0.185441295 0.225295583 0.701176073 0.949479954 0.192678769 0.039275177 3.91E-10 9.408198798 -0.382027555 DSEAFCHR ddPTM_HeLa_SAHA_4h_R1 2 DSEAFCHR 8 0 C9JP16;O75718 C9JP16 CRTAP Cartilage-associated protein 0 0 ; ; 125.31 0.0029757 2406900 3475.8 4147 2808.1 4360.6 4836.6 6470.3 4666.5 4849.4 3894.9 4590.9 FALSE FALSE TRUE 3841.400592 4281.365521 3190.773244 4445.005719 4466.020753 5918.994039 4141.413138 4725.35937 3867.795074 4788.836166 0.802157447 0.894030485 0.666294092 0.928201668 0.932590007 1.235998442 0.864805768 0.986744839 0.807669116 1 12.22545936 -5.510316623 23.92649905 0.88651056 1.024670099 0.276808374 0.121719293 434.5319382 827630.6163 0.018582625 0.039693275 3.09E-06 5.510316623 0.138159539 DSEEEAAS(ph)PEGK ddPTM_HeLa_SAHA_4h_R1 1 DSEEEAASPEGK 12 0 Q9HB96;A0A3B3ITU7 Q9HB96 FANCE Fanconi anemia group E protein 1 0 DSEEEAAS(1)PEGK 91.441 0.011604 3409400 770.73 1065.6 902 920.78 1137 1172.1 1114.9 967.08 852.06 1011.8 TRUE FALSE FALSE 851.7989176 1100.126139 1024.919863 938.6030284 1049.883306 1072.230486 989.4485177 942.3434939 846.1304451 1055.42365 0.80706825 1.04235502 0.971098064 0.889314001 0.994750597 1.015924256 0.937489432 0.892858043 0.801697447 1 10.0436065 -7.246034358 24.97490233 0.908893335 0.963074784 0.212426635 0.071646036 1588.197058 2574814.568 0.013882979 0.016970702 5.67E-08 7.246034358 0.054181449 DSEGDSLGARPGLPYGLS(ph)DDESGGGR ddPTM_HeLa_SAHA_4h_R1 1 DSEGDSLGARPGLPYGLSDDESGGGR 26 1 Q8N8E2-2;Q8N8E2;C9JT52 Q8N8E2-2 ZNF513 Zinc finger protein 513 1 0 DSEGDSLGARPGLPY(0.011)GLS(0.928)DDES(0.061)GGGR 88.531 1.88E-05 3206900 337.57 291.46 402.79 198.45 354.39 364.2 407.13 435.97 155.83 382.42 TRUE FALSE FALSE 373.0771614 300.9034952 457.6801236 202.2912867 327.2367148 333.1681111 361.3186609 424.8185187 154.7455663 398.9079977 0.935246131 0.754318031 1.147332533 0.507112637 0.820331296 0.835200379 0.905769408 1.064953626 0.387922948 1 8.639912238 -7.727840655 1.026655513 0.985085402 0.854834207 0 0.249849396 0.767775229 1.694305736 0.038869175 0.036260963 1.87E-08 7.727840655 -0.130251195 DSEGFNS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 DSEGFNSPK 9 0 O43303-2;O43303;I3L262 O43303-2 CCP110 Centriolar coiled-coil protein of 110 kDa 1 0 DSEGFNS(1)PK 112.83 0.0054119 4929100 3110.7 3250 2995.2 3781.5 4220.5 3925.8 3761.2 3548.1 4472 3847.1 TRUE FALSE FALSE 3437.897698 3355.302132 3403.370258 3854.696401 3897.126202 3591.299754 3337.979877 3457.34474 4440.878988 4012.967308 0.856697161 0.836114993 0.848093193 0.96056013 0.971133304 0.89492375 0.831798423 0.861543211 1.106632237 1 11.97045369 -9.314388946 1.028617273 1.000296525 0.882811911 0.537134364 0.058297732 0.413763186 0.781034203 0.035326485 0.009300962 4.85E-10 9.314388946 -0.117484614 (ac)AQK(ac)RPACTLKPECVQQLLVCSQEAK ddPTM_HeLa_SAHA_4h_R1 2 AQKRPACTLKPECVQQLLVCSQEAK 25 3 P32320 P32320 CDA Cytidine deaminase 0 1 ; AQK(0.932)RPACTLK(0.068)PECVQQLLVCSQEAK;AQK(0.952)RPACTLK(0.048)PECVQQLLVCSQEAK 62.781 6.51E-22 14514300 863.19 1412.15 1508.03 2173.46 2269.11 2772.86 3427.29 2416.76 747.56 702.19 FALSE TRUE FALSE 953.9842847 1457.904587 1713.536475 2215.530461 2095.251282 2536.596728 3041.642309 2354.942779 742.3576691 732.4648473 1.302430128 1.990408948 2.33941121 3.024760122 2.860548584 3.463096881 4.152611992 3.215093239 1.013506207 1 9.516615713 -6.464812116 0.660703622 1.044578379 3.734848383 0.932182084 0.269555361 0.11070036 0.096506227 0.059232903 0.128984666 3.43E-07 6.464812116 2.690270004 up DSENLAS(ph)PSEYPENGER ddPTM_HeLa_SAHA_4h_R1 2 DSENLASPSEYPENGER 17 0 P52948-6;P52948-2;P52948-5;P52948;A0A3B3ITD8;P52948-4;P52948-3 P52948-6 NUP98 Nuclear pore complex protein Nup98-Nup96;Nuclear pore complex protein Nup98;Nuclear pore complex protein Nup96 1 0 DSENLAS(0.785)PS(0.215)EYPENGER;DS(0.242)ENLAS(0.751)PS(0.007)EYPENGER ; 300.56 6.84E-87 286870000 2256.55 2478.02 2262.36 2312.52 2625.01 2957.8 2908.1 2662.64 2155.19 2182.25 TRUE FALSE FALSE 2493.904282 2558.309474 2570.662639 2357.282169 2423.882301 2705.7788 2580.872934 2594.533524 2140.191857 2276.337477 1.09557757 1.123870911 1.129297683 1.035559179 1.064816762 1.188654506 1.133783088 1.139784215 0.940190933 1 11.15249874 -13.52287875 0.136643974 0.582008528 1.162595291 0.645822834 0.042399116 41.27922268 0.394995673 4.639439784 0.126492314 3.00E-14 13.52287875 0.580586762 DSENLASPS(ph)EYPENGER ddPTM_HeLa_SAHA_4h_R1 1 DSENLASPSEYPENGER 17 0 P52948-6;P52948-2;P52948-5;P52948;A0A3B3ITD8;P52948-4;P52948-3 P52948-6 NUP98 Nuclear pore complex protein Nup98-Nup96;Nuclear pore complex protein Nup98;Nuclear pore complex protein Nup96 1 0 DSENLAS(0.066)PS(0.934)EYPENGER 210.57 1.39E-16 6609400 828.85 1105.1 781.92 835.85 1050 958.17 1079.5 1013 1226.2 930.97 TRUE FALSE FALSE 916.0322459 1140.905965 888.4759855 852.0290854 969.5492268 876.5285255 958.0318189 987.0889268 1217.666774 971.1086728 0.943285002 1.174848909 0.914908918 0.877377691 0.998394159 0.902606011 0.986534098 1.016455681 1.253893419 1 9.92348894 DSENT(ph)PVKGGTVADLDEQDEETVTAGGK ddPTM_HeLa_SAHA_4h_R1 1 DSENTPVKGGTVADLDEQDEETVTAGGK 28 1 Q92922 Q92922 SMARCC1 SWI/SNF complex subunit SMARCC1 1 0 DS(0.091)ENT(0.792)PVKGGT(0.117)VADLDEQDEETVTAGGK 61.526 0.0029882 3995800 219.09 412.87 283.88 508.26 330.26 395.91 304.91 329.74 573.53 327.78 TRUE FALSE FALSE 242.1348914 426.2472589 322.565688 518.0981073 304.9555501 362.1762407 270.6007243 321.3057283 569.538758 341.9121999 0.708178566 1.246657063 0.943416725 1.515295761 0.891911872 1.059266796 0.791433369 0.939731686 1.665745645 1 8.417482091 -7.268903314 24.93415913 0.862195439 1.052479398 0 0.325405587 806.0821692 2692808.245 0.03649298 0.042169024 5.38E-08 7.268903314 0.190283959 DSENT(ph)PVKGGTVADLDEQDEETVTAGGKEDEDPAK ddPTM_HeLa_SAHA_4h_R1 1 DSENTPVKGGTVADLDEQDEETVTAGGKEDEDPAK 35 2 Q92922 Q92922 SMARCC1 SWI/SNF complex subunit SMARCC1 1 0 DS(0.006)ENT(0.848)PVKGGT(0.144)VADLDEQDEET(0.002)VTAGGKEDEDPAK 65.73 0.0001221 5290200 360.98 635.5 428.95 652.84 487.45 658.63 611.11 550.38 915.49 488.07 TRUE FALSE FALSE 398.9495326 656.090617 487.4050721 665.4766622 450.1016863 602.5110186 542.3462944 536.3020765 909.1190306 509.1130863 0.783616732 1.288693288 0.957361115 1.307129359 0.884089799 1.183452233 1.065276672 1.053404619 1.785691735 1 8.991842339 -7.274758667 24.90835345 0.897819014 1.100597331 0 0.311057624 630.4233935 1178950.332 0.022877389 0.026237388 5.31E-08 7.274758667 0.202778316 DSFDDRGPSLNPVLDYDHGS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 DSFDDRGPSLNPVLDYDHGSR 21 1 A0A0R4J2E8;A8MXP9;P43243;D6REM6;D6R991 A0A0R4J2E8 MATR3 Matrin-3 1 0 DSFDDRGPSLNPVLDY(0.001)DHGS(0.999)R;DSFDDRGPSLNPVLDYDHGS(1)R ; 88.244 0.00025446 17341500 5208.2 6311.9 5470.2 6877.3 7107.5 7502.9 6658.4 6069.5 5240.9 6063.7 TRUE FALSE FALSE 5756.022372 6516.409701 6215.650368 7010.420086 6562.924886 6863.61071 5909.179308 5914.250979 5204.42815 6325.135782 0.910023527 1.030240287 0.982690425 1.108343019 1.037594308 1.085132548 0.934237542 0.93503937 0.822816826 1 12.62688074 -7.237420398 24.38791415 0.957511107 1.018762709 0.248296544 0.071115533 763.8017712 775534.3802 0.010538957 0.012903732 5.79E-08 7.237420398 0.061251602 DSFEMEEVQS(ph)TEGEAPHVPATYQLGLTK ddPTM_HeLa_SAHA_4h_R1 1 DSFEMEEVQSTEGEAPHVPATYQLGLTK 28 0 E9PHV5;P28290-3;P28290;P28290-2 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 DSFEMEEVQS(0.806)T(0.194)EGEAPHVPATYQLGLTK 138.02 2.39E-10 9168400 344.95 567.28 616.87 591.38 609.04 556.98 490.21 527.4 501.76 564.92 TRUE FALSE FALSE 381.2334237 585.6602442 700.9338311 602.827015 562.3754868 509.5221705 435.0502806 513.9098717 498.2682113 589.2764659 0.646951721 0.993863285 1.189482139 1.022995232 0.954349137 0.864657254 0.73827873 0.872103166 0.845559326 1 9.20280084 -2.890871507 10.77356896 0.879935137 0.639292303 0 0.150014144 0 0 0.024695712 0 0.001285667 2.890871507 -0.240642833 DSFEMEEVQST(ph)EGEAPHVPATYQLGLTK ddPTM_HeLa_SAHA_4h_R1 1 DSFEMEEVQSTEGEAPHVPATYQLGLTK 28 0 E9PHV5;P28290-3;P28290;P28290-2 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 DSFEMEEVQS(0.43)T(0.57)EGEAPHVPATYQLGLTK 116.36 3.67E-08 6382300 623.96 700.14 769.41 766.88 658.93 844.59 775.93 535.41 790.86 734.55 TRUE FALSE FALSE 689.5909756 722.8249954 874.2611879 781.7240713 608.4429258 772.6261805 688.6203143 521.7149875 785.3563409 766.2200453 0.899990779 0.943364768 1.141005372 1.02023443 0.794083801 1.008360699 0.898723961 0.680894465 1.024974935 1 9.581614959 -4.288095088 2.917069951 0.96116211 0.64135665 0.50730572 0.087124337 0.243210311 3.033539053 0.012160917 0.176312927 5.15E-05 4.288095088 -0.31980546 DSFIENSSSNCTSGS(ph)S(ph)KPNSPSISPSILSNTEHK ddPTM_HeLa_SAHA_4h_R1 1 DSFIENSSSNCTSGSSKPNSPSISPSILSNTEHK 34 1 Q99700;H0YH87;A0A5F9ZHW5;A0A5F9ZHX3;A0A2R8Y5A6;A0A2R8Y7E6;A0A5F9ZI57;V9GY86;F8VQP2;A0A2R8YDM9;A0A2R8Y7P6;Q99700-5;Q99700-2;Q99700-4;A0A5F9ZHH4;F8W0B5;F8WB06 Q99700;F8WB06 ATXN2 Ataxin-2 2 0 DSFIENS(0.001)S(0.002)S(0.002)NCT(0.058)S(0.438)GS(0.371)S(0.371)KPNS(0.46)PS(0.285)IS(0.011)PS(0.001)ILSNTEHK 100.38 8.66E-12 8342500 691.45 700.4 508.32 755.95 694.04 1159.9 678.96 731.89 604.97 900.29 TRUE FALSE FALSE 764.1798835 723.0934195 577.5912024 770.5825054 640.8628051 1061.069995 602.5616339 713.1693136 600.7599645 939.1059078 0.813731313 0.769980695 0.615043732 0.820549098 0.682418032 1.129872558 0.641633312 0.759413084 0.639714818 1 9.875144057 -8.725953598 0.756324236 0.994442236 0.77761261 0 0.173699093 0.627161139 0.704043895 0.072286503 0.028337946 1.88E-09 8.725953598 -0.216829626 DSFIENSSSNCTSGSSKPNS(ph)PS(ph)IS(ph)PSILSNTEHK ddPTM_HeLa_SAHA_4h_R1 1 DSFIENSSSNCTSGSSKPNSPSISPSILSNTEHK 34 1 Q99700;H0YH87;A0A5F9ZHW5;A0A5F9ZHX3;A0A2R8Y5A6;A0A2R8Y7E6;A0A5F9ZI57;V9GY86;F8VQP2;A0A2R8YDM9;A0A2R8Y7P6;Q99700-5;Q99700-2;Q99700-4;A0A5F9ZHH4;F8W0B5;F8WB06 Q99700;F8WB06 ATXN2 Ataxin-2 3 0 DS(0.002)FIENS(0.032)S(0.073)S(0.073)NCT(0.202)S(0.171)GS(0.35)S(0.45)KPNS(0.53)PS(0.513)IS(0.513)PS(0.068)ILS(0.013)NT(0.01)EHK 63.848 0.00047238 4722300 482.82 525.13 552.8 578.58 760.89 847.16 636.16 806.39 732.68 661.03 TRUE FALSE FALSE 533.6052229 542.1445566 628.1327051 589.7792525 702.5907726 774.977202 564.5776025 785.7637114 727.5812202 689.5302383 0.773867763 0.78625204 0.910957446 0.855334864 1.018941206 1.123920546 0.81878585 1.139563819 1.055183921 1 9.42947001 -5.755054437 24.39169067 0.880926295 1.017595805 0.222191807 0.114993115 126.8806753 484701.0765 0.016902955 0.033141955 1.76E-06 5.755054437 0.13666951 DSGNWDTSGSELS(ph)EGELEK ddPTM_HeLa_SAHA_4h_R1 1 DSGNWDTSGSELSEGELEK 19 0 O75400-2;O75400-3;O75400 O75400-2 PRPF40A Pre-mRNA-processing factor 40 homolog A 1 0 DSGNWDT(0.001)S(0.004)GS(0.046)ELS(0.949)EGELEK 136.96 1.14E-07 0 426.66 418 326.65 530.12 619.46 628.53 592.79 521.36 687.29 381.96 TRUE FALSE FALSE 471.5380564 431.5434743 371.1641609 540.3812392 571.9971086 574.975708 526.0877091 508.0243661 682.5070929 398.4281649 1.183495792 1.083114881 0.931571093 1.35628273 1.435634222 1.443110098 1.320407932 1.27507142 1.712999113 1 8.638175825 -6.20174981 9.29419003 1.07800636 1.372180525 0.060873333 0.215244067 0.204014943 30.69567064 0.014230653 0.02361126 6.28E-07 6.20174981 0.294174164 DSGNWDTSGSELS(ph)EGELEKR ddPTM_HeLa_SAHA_4h_R1 3 DSGNWDTSGSELSEGELEKR 20 1 O75400-2;O75400-3;O75400 O75400-2 PRPF40A Pre-mRNA-processing factor 40 homolog A 1 0 DSGNWDTSGSELS(1)EGELEKR;DSGNWDTS(0.001)GS(0.027)ELS(0.972)EGELEKR;DSGNWDT(0.012)S(0.01)GS(0.05)ELS(0.928)EGELEKR ;; 148.17 2.01E-05 34078500 1949.75 2200.53 1950.42 2221.92 2553.11 2362.48 2207.63 2384.7 2226.73 2364.2 TRUE FALSE FALSE 2154.833651 2271.828616 2216.21308 2264.928475 2357.491263 2161.183413 1959.221662 2323.702827 2211.234005 2466.132232 0.873770523 0.921211193 0.898659468 0.918413232 0.955946819 0.876345309 0.79445118 0.942245836 0.896640487 1 11.26803444 -9.371649204 0.859359392 1.006984372 0.894987448 0 0.053069552 0.522422408 0.619155013 0.040355966 0.00818159 4.25E-10 9.371649204 -0.111996924 DSGPLPT(ph)PPGVSLLGEPPKDYR ddPTM_HeLa_SAHA_4h_R1 2 DSGPLPTPPGVSLLGEPPKDYR 22 1 A0A087WZ13;Q8IY67-2;E9PAU2 A0A087WZ13 RAVER1 Ribonucleoprotein PTB-binding 1 1 0 DS(0.089)GPLPT(0.911)PPGVSLLGEPPKDYR;DS(0.021)GPLPT(0.979)PPGVSLLGEPPKDYR ; 106.39 0.00013586 5597500 1723.69 2009.71 2150.02 1934.86 2210.95 2479.27 2236.91 1692.8 1903.89 2369.66 TRUE FALSE FALSE 1904.995623 2074.825923 2443.013529 1972.312013 2041.547489 2268.022248 1985.207 1649.500627 1890.640674 2471.827639 0.770683033 0.839389401 0.988342994 0.797916482 0.825926313 0.917548704 0.803133264 0.667320245 0.76487561 1 11.27136243 -9.432896162 1.075266738 1.003428714 0.827802861 0 0.107897239 0.453579822 0.908248983 0.062056966 0.014371462 3.69E-10 9.432896162 -0.175625853 GAGVPACTPCK(ac)QPR ddPTM_HeLa_SAHA_4h_R1 1 GAGVPACTPCKQPR 14 1 Q9UF56 Q9UF56 FBXL17 F-box/LRR-repeat protein 17 0 1 GAGVPACTPCK(1)QPR 105.36 0.0091376 1737900 200.28 264.6 320.3 557 658.46 682.36 578.7 704.34 104.24 191.47 FALSE TRUE FALSE 221.3463693 273.1732136 363.9488159 567.7815404 608.0089371 624.2190891 513.5831529 686.3240027 103.5145854 199.7252087 1.10825454 1.36774529 1.822247769 2.842813604 3.044227321 3.125389595 2.571448823 3.436341396 0.518285028 1 7.641872627 -6.461281259 1.574658806 1.052461434 3.04175377 0.927822571 0.266079064 0.049770626 0.244942308 0.031772397 0.053146745 3.46E-07 6.461281259 1.989292336 up DSGREDEPGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 DSGREDEPGSPR 12 1 Q2TAM9 Q2TAM9 TUSC1 Tumor suppressor candidate gene 1 protein 1 0 DS(0.001)GREDEPGS(0.999)PR;DSGREDEPGS(1)PR;DSGREDEPGS(1)PR ;; 107.93 0.015747 42952000 4417.6 4950.3 4168.45 4619.6 4957.15 6017.1 4925 4840.7 5567.7 5296.17 TRUE FALSE FALSE 4882.263437 5110.692968 4736.504658 4709.019038 4577.334238 5504.409229 4370.826038 4716.881903 5528.953922 5524.513808 0.883745359 0.925093709 0.857361358 0.852386147 0.828549696 0.996360842 0.791169357 0.853809415 1.000803711 1 12.43163179 -10.27033142 0.2717622 1.126569399 0.854608796 0.503604214 0.051532292 5.328494643 0.327631097 0.484067822 0.031691628 5.37E-11 10.27033142 -0.271960603 DSGRGDS(ph)VSDSGSDALR ddPTM_HeLa_SAHA_4h_R1 2 DSGRGDSVSDSGSDALR 17 1 Q53EL6;Q53EL6-2;Q5VZS7 Q53EL6 PDCD4 Programmed cell death protein 4 1 0 DS(0.05)GRGDS(0.829)VS(0.095)DS(0.013)GS(0.013)DALR;DSGRGDS(0.992)VS(0.008)DSGSDALR ; 245.1 4.78E-36 99632000 2476.1 2729.91 2491.4 2918.6 2872.5 3899.4 3407.4 3413 2549.3 2599.3 TRUE FALSE FALSE 2736.547559 2818.360875 2830.915017 2975.093723 2652.409671 3567.149183 3023.990384 3325.700402 2531.559214 2711.368544 1.00928646 1.039460638 1.044090824 1.097266445 0.978254939 1.315626823 1.115300386 1.226576302 0.933683184 1 11.40480551 -5.274493988 24.9902297 1.015869088 1.208781095 0.703449224 0.060757222 266.5641229 510279.1408 0.00737165 0.016582352 5.32E-06 5.274493988 0.192912007 DSGS(ph)ISLQETR ddPTM_HeLa_SAHA_4h_R1 2 DSGSISLQETR 11 0 Q9H2G2-2;Q9H2G2 Q9H2G2-2 SLK STE20-like serine/threonine-protein kinase 1 0 DS(0.002)GS(0.769)IS(0.228)LQETR;DSGS(0.993)IS(0.007)LQETR ; 212.1 2.79E-15 56630000 3100.6 4764.7 3526.2 2748.1 3815 4070.2 4382.2 2776.4 3256.5 4214.6 TRUE FALSE FALSE 3426.735334 4919.079406 4006.732172 2801.293449 3522.695524 3723.396062 3889.103323 2705.383708 3233.837751 4396.312032 0.779456806 1.118910435 0.911384848 0.63719168 0.801284235 0.846936258 0.884628592 0.615375726 0.73557967 1 12.10207807 -6.396173672 13.05070259 0.914687448 0.771637914 0.25971499 0.12694951 0.81722846 81.96722412 0.01956367 0.029884472 4.02E-07 6.396173672 -0.143049533 DSGS(ph)QEVLSELR ddPTM_HeLa_SAHA_4h_R1 1 DSGSQEVLSELR 12 0 Q9BVJ6-3;Q9BVJ6;X6RJY0;Q9BVJ6-2 Q9BVJ6-3 UTP14A U3 small nucleolar RNA-associated protein 14 homolog A 1 0 DS(0.009)GS(0.991)QEVLS(0.001)ELR 149.35 0.00039051 8322400 422.46 686.59 434.68 457.97 500.8 803.14 766.5 632.36 784.31 602.53 TRUE FALSE FALSE 466.8962811 708.8359665 493.9159267 466.8346716 462.4288122 734.7079537 680.2514027 616.1851468 778.8519229 628.508017 0.74286448 1.127807359 0.785854617 0.742766455 0.735756426 1.168971491 1.082327328 0.980393456 1.239207618 1 9.295787337 -5.254280474 24.98939131 0.869318146 1.077740415 0.135692345 0.171855754 533.7877512 1863272.107 0.020116911 0.050114402 5.57E-06 5.254280474 0.208422268 KDILAELTK(ac)SQK ddPTM_HeLa_SAHA_4h_R1 1 KDILAELTKSQK 12 2 C9J266;Q5XPI4;Q5XPI4-2 C9J266 RNF123 E3 ubiquitin-protein ligase RNF123 0 1 KDILAELTK(1)SQK 135.43 0.0014494 9014800 310.76 408.21 712.68 1583.9 1797.7 1801.1 1907.6 1526 190.75 279.23 FALSE TRUE FALSE 343.4471626 421.4362718 809.8003189 1614.558675 1659.960614 1647.636147 1692.951827 1486.96713 189.4225552 291.2689718 1.179140917 1.446897241 2.780249176 5.543188019 5.699064353 5.656751342 5.812331526 5.105133995 0.65033551 1 8.186208213 -6.44611544 2.136722353 1.097579725 5.643766206 0.984783481 0.2647804 0.021480252 0.193632016 0.036678166 0.058945168 3.58E-07 6.44611544 4.546186481 up DSGSDQDLDGAGVRAS(ph)DLEDEESAAR ddPTM_HeLa_SAHA_4h_R1 1 DSGSDQDLDGAGVRASDLEDEESAAR 26 1 E7ERS3;Q86VM9;H3BPD0 E7ERS3 ZC3H18 Zinc finger CCCH domain-containing protein 18 1 0 DSGSDQDLDGAGVRAS(0.994)DLEDEES(0.006)AAR 67.368 0.00070093 7787800 835.01 1212.5 854.66 871.24 1052.6 1096.3 995.99 1007.4 1007.6 853.78 TRUE FALSE FALSE 922.840183 1251.785796 971.1286139 888.10411 971.9500154 1002.889072 883.9185839 981.6321667 1000.58803 890.5906341 1.036211417 1.405568111 1.090432098 0.997208006 1.091354409 1.12609434 0.992508286 1.102226016 1.123510613 1 9.79861863 -7.499604537 24.80775491 1.015975519 1.112698213 0.03231968 0.112523712 287.4109409 306352.8438 0.019053511 0.02047594 3.17E-08 7.499604537 0.096722694 DSGSDTASAIIPSTTPS(ph)VDSDDESVVKDK ddPTM_HeLa_SAHA_4h_R1 1 DSGSDTASAIIPSTTPSVDSDDESVVKDK 29 1 Q6WKZ4;E7EX40;Q6WKZ4-2;Q6WKZ4-3 Q6WKZ4 RAB11FIP1 Rab11 family-interacting protein 1 1 0 DSGSDTASAIIPS(0.004)T(0.004)T(0.004)PS(0.494)VDS(0.494)DDESVVKDK 117.61 2.50E-11 8653300 2076.1 2378.7 1932.7 1800.4 2459.2 2837.7 2858.9 2398.5 2162.9 2395.6 TRUE FALSE FALSE 2294.473723 2455.771441 2196.078291 1835.249345 2270.776627 2595.911996 2537.209048 2337.149843 2147.848203 2498.88604 0.918198624 0.982746472 0.878822906 0.734426987 0.90871556 1.038827683 1.015336037 0.935276682 0.859522271 1 11.28706939 -5.269447314 24.20406758 0.935340527 0.998365725 0.14400342 0.079148719 703.177741 2125366.862 0.012391224 0.028187941 5.38E-06 5.269447314 0.063025198 DSGSS(ph)SPLPK ddPTM_HeLa_SAHA_4h_R1 4 DSGSSSPLPK 10 0 Q86VQ1;H7C0B2 Q86VQ1 GLCCI1 Glucocorticoid-induced transcript 1 protein 1 0 DSGS(0.002)S(0.499)S(0.499)PLPK;DSGS(0.001)S(0.5)S(0.5)PLPK;DSGS(0.001)S(0.5)S(0.5)PLPK;DSGS(0.002)S(0.499)S(0.499)PLPK ;;; 164.66 0.00016394 54480800 13651.7 17838 12470.2 15715.6 17513.2 20933.2 17794.1 15372.2 22841.4 16740.3 TRUE FALSE FALSE 15087.64844 18415.9629 14169.57391 16019.79816 16171.3424 19149.57359 15791.86104 14979.00138 22682.44484 17462.05626 0.86402473 1.054627395 0.811449334 0.917406171 0.926084658 1.096639096 0.90435289 0.857802836 1.29895612 1 14.09193583 -9.677646552 1.54307789 0.99995714 0.922437446 0.16015842 0.126379019 0.745700388 3.200319871 0.058409152 0.013055153 2.10E-10 9.677646552 -0.077519694 DSGSSSVSSTSSSSSS(ph)SPGDK ddPTM_HeLa_SAHA_4h_R1 1 DSGSSSVSSTSSSSSSSPGDK 21 0 Q9H7S9 Q9H7S9 ZNF703 Zinc finger protein 703 1 0 DSGSSSVSSTSSSS(0.001)S(0.005)S(0.497)S(0.497)PGDK 193.27 3.86E-15 966670 241.48 303.31 333.29 401.59 667.61 451.73 568.45 394.45 527.97 452.41 TRUE FALSE FALSE 266.8799743 313.137443 378.7090255 409.3633552 616.457866 413.2400626 504.4865099 384.3605402 524.2958138 471.9156091 0.565524787 0.663545424 0.802493111 0.867450339 1.306288358 0.875665171 1.069018486 0.814468801 1.110994855 1 8.882385081 -5.990220646 24.95709758 0.780675 1.019671561 0.158388712 0.191083742 230.6179904 588536.7654 0.029531708 0.053484554 1.02E-06 5.990220646 0.238996562 DSGYIDCWDS(ph)ERSDSLSPPR ddPTM_HeLa_SAHA_4h_R1 1 DSGYIDCWDSERSDSLSPPR 20 1 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46;D6RJ93;D6R8Y0;Q9UPQ0-7;Q6NVB9 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 DSGY(0.001)IDCWDS(0.563)ERS(0.15)DS(0.051)LS(0.234)PPR 71.929 0.0038589 13426000 710.23 476.46 827.48 808.65 771.99 859.36 812.53 1077.4 435.26 679.28 TRUE FALSE FALSE 784.9352501 491.8976166 940.2446651 824.3025901 712.840293 786.1376934 721.1019859 1049.841668 432.2309902 708.5670851 1.107778313 0.694214601 1.326966331 1.163337399 1.006030774 1.10947532 1.017690493 1.481640469 0.610007153 1 9.46876064 -4.258504927 24.6034452 1.053219644 1.481640665 0.301661553 0.206118388 157.0806532 1316929.837 0.019441079 0.180980529 5.51E-05 4.258504927 0.428421021 DSGYIDCWDSER ddPTM_HeLa_SAHA_4h_R1 2 DSGYIDCWDSER 12 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46;D6RJ93;D6R8Y0;Q9UPQ0-7;Q6NVB9 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 0 0 ; ; 195.83 9.74E-07 13616300 1637 1953.21 1738.12 1977.51 1937.1 2590.07 2430.04 1920.65 2327.68 1866.1 FALSE FALSE TRUE 1809.187171 2016.495286 1974.981942 2015.787566 1788.679816 2369.381465 2156.605504 1871.522554 2311.481485 1946.556703 0.929429473 1.035929383 1.014602831 1.035565808 0.918894278 1.217216771 1.107907876 0.961452883 1.18747195 1 10.92670866 -5.281403932 24.98549201 0.97751549 1.096764072 0.017891833 0.095621987 603.6107907 755413.7808 0.009892002 0.022145484 5.23E-06 5.281403932 0.119248582 DSGYIDCWDSERSDSLS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 1 DSGYIDCWDSERSDSLSPPR 20 1 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46;D6RJ93;D6R8Y0;Q9UPQ0-7;Q6NVB9 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 DSGYIDCWDSERS(0.002)DS(0.03)LS(0.969)PPR 83.404 0.0014676 12133000 507.83 370.64 735.35 439.2 614.75 687.52 668.64 719.85 258.86 523.06 TRUE FALSE FALSE 561.2458894 382.6489792 835.5596685 447.7013511 567.6479878 628.9394281 593.4028674 701.4372793 257.0585722 545.6116764 1.028654469 0.701321097 1.531418231 0.820549432 1.040388269 1.152723549 1.087591951 1.285597999 0.471138327 1 9.091730709 -1.000000002 0.493518009 1.010604027 8.789713358 0.116741653 0.265338789 135.5933202 1.323586195 0.036355397 1097.014286 0.1 1.000000002 7.779109331 DSHS(ph)PDLQLPTPEVIPSSGSK ddPTM_HeLa_SAHA_4h_R1 1 DSHSPDLQLPTPEVIPSSGSK 21 0 H3BPE1;H3BQK9;H0Y6T5;H0Y4F5 H3BPE1 MACF1 1 0 DS(0.183)HS(0.817)PDLQLPTPEVIPSSGSK 136.77 4.80E-06 12078000 2636.4 4678 3218.5 3882 4858.9 100.25 4243.7 4218.3 5269.2 3731.6 TRUE FALSE FALSE 2913.708648 4829.570269 3657.100419 3957.141723 4486.612132 91.70813601 3766.187707 4110.401994 5232.531208 3892.487538 0.748546686 1.240741357 0.939527843 1.016609992 1.152633653 0.02356029 0.967552926 1.055983341 1.344264087 1 11.92647671 DSIS(ph)SDSETSEPLSCR ddPTM_HeLa_SAHA_4h_R1 1 DSISSDSETSEPLSCR 16 0 O75164 O75164 KDM4A Lysine-specific demethylase 4A 1 0 DS(0.001)IS(0.877)S(0.119)DSETSEPLS(0.002)CR 95.822 0.0035997 0 689.29 701.42 768.82 540.28 638.63 902.27 622.57 780.12 832.38 630.83 TRUE FALSE FALSE 761.7926848 724.1464682 873.5907858 550.7379007 589.6983074 825.39152 552.5167851 760.16566 826.5873998 658.0281685 1.157690083 1.100479437 1.327588738 0.836951862 0.896159672 1.25434071 0.839655218 1.155217506 1.256158079 1 9.362005533 -6.22958238 24.99235014 1.095979752 0.996507303 0.163384934 0.156249019 1279.46198 1003759.901 0.022067402 0.036592828 5.89E-07 6.22958238 -0.099472449 DSISAVSSEKVS(ph)PSKSPSLSPSPPS(ph)PLEK ddPTM_HeLa_SAHA_4h_R1 1 DSISAVSSEKVSPSKSPSLSPSPPSPLEK 29 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 DS(0.004)IS(0.014)AVS(0.054)S(0.058)EKVS(0.822)PS(0.024)KS(0.016)PS(0.02)LS(0.023)PS(0.092)PPS(0.871)PLEK 59.53 0.0022633 4733700 477.39 487.88 411.14 603.58 399.49 760.34 687.93 473.61 616.16 424.32 TRUE FALSE FALSE 527.6040705 503.6876321 467.1680181 615.2631637 368.8811625 695.5547544 610.5223059 461.495742 611.8720924 442.6145118 1.192017109 1.137982643 1.055473794 1.390065502 0.833414072 1.571468481 1.379354471 1.042658407 1.382404047 1 8.789906943 -13.52287874 0.111233578 0.278395985 1.345495892 0 0.228695575 137.4290793 1.120719508 22.53802704 1.131250703 3.00E-14 13.52287874 1.067099906 DSK(ac)PSSTPR ddPTM_HeLa_SAHA_4h_R1 2 DSKPSSTPR 9 1 P06748;P06748-3 P06748 NPM1 Nucleophosmin 0 1 ; DSK(1)PSSTPR;DSK(1)PSSTPR 125.75 0.0018362 511370 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 DSKTDSTESSGTQS(ph)PKR ddPTM_HeLa_SAHA_4h_R1 1 DSKTDSTESSGTQSPKR 17 2 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 DSKTDSTESSGT(0.004)QS(0.996)PKR 70.987 0.012666 1553300 130.48 0 60.924 0 130.49 0 67.689 209.74 0 214.35 TRUE FALSE FALSE 144.2044851 0 69.22640544 0 120.4918844 0 60.07245557 204.3751545 0 223.5916775 0.644945674 0 0.309610833 0 0.538892528 0 0.268670356 0.914055285 0 1 7.804722679 -7.738743196 1.495213988 0.894395816 0.280209815 0 0.396413705 0.212020408 0.985740978 0.058331743 0.056582574 1.82E-08 7.738743196 -0.614186001 DSLGDFIEHYAQLGPS(ph)SPEQLAAGAEEGGGPR ddPTM_HeLa_SAHA_4h_R1 2 DSLGDFIEHYAQLGPSSPEQLAAGAEEGGGPR 32 0 Q96QR8 Q96QR8 PURB Transcriptional activator protein Pur-beta 1 0 DSLGDFIEHY(0.001)AQLGPS(0.6)S(0.399)PEQLAAGAEEGGGPR;DSLGDFIEHYAQLGPS(0.644)S(0.356)PEQLAAGAEEGGGPR ; 101.47 4.04E-09 127537000 2641.3 2300.6 2178.8 2473.4 3282.4 3483.8 3383.5 3087.8 3446.8 2920.3 TRUE FALSE FALSE 2919.124053 2375.140949 2475.715517 2521.276234 3030.903221 3186.960641 3002.779675 3008.818547 3422.813438 3046.208425 0.95828113 0.779704018 0.81272033 0.827676863 0.994975655 1.046205708 0.985743343 0.987725765 1.123630744 1 11.57279894 -5.549524071 24.99542183 0.938488816 1.007162538 0.140244488 0.097017239 390.773232 366574.9901 0.013951384 0.027903355 2.82E-06 5.549524071 0.068673722 DSLGDFIEHYAQLGPS(ph)SPEQLAAGAEEGGGPRR ddPTM_HeLa_SAHA_4h_R1 2 DSLGDFIEHYAQLGPSSPEQLAAGAEEGGGPRR 33 1 Q96QR8 Q96QR8 PURB Transcriptional activator protein Pur-beta 1 0 DSLGDFIEHYAQLGPS(0.5)S(0.5)PEQLAAGAEEGGGPRR;DSLGDFIEHYAQLGPS(0.5)S(0.5)PEQLAAGAEEGGGPRR ; 92.798 4.37E-11 32149800 2180.81 1489.84 1555.14 1843.11 2025.6 1986.36 2436.62 1456.34 1712.54 2167.91 TRUE FALSE FALSE 2410.197602 1538.111794 1767.06638 1878.786059 1870.398966 1817.110953 2162.445105 1419.088932 1700.622295 2261.37921 1.065808685 0.680165355 0.781410908 0.830814244 0.827105404 0.803541018 0.956250546 0.627532492 0.752028801 1 11.14298722 -7.274192356 24.90643632 1.031076329 0.796907 0.132301126 0.122512082 324.7503691 634232.9769 0.013785187 0.015819978 5.32E-08 7.274192356 -0.234169329 DSLGDFIEHYAQLGPSS(ph)PEQLAAGAEEGGGPR ddPTM_HeLa_SAHA_4h_R1 2 DSLGDFIEHYAQLGPSSPEQLAAGAEEGGGPR 32 0 Q96QR8 Q96QR8 PURB Transcriptional activator protein Pur-beta 1 0 DSLGDFIEHYAQLGPS(0.447)S(0.553)PEQLAAGAEEGGGPR;DSLGDFIEHY(0.002)AQLGPS(0.254)S(0.744)PEQLAAGAEEGGGPR ; 144.3 8.13E-15 115217000 2073.14 2223.99 2219.32 2553.1 2609.4 2826.76 2668.43 2311.94 2465.75 2446.78 TRUE FALSE FALSE 2291.202377 2296.048735 2521.757372 2602.518942 2409.468336 2585.904145 2368.171233 2252.803922 2448.590645 2552.27266 0.897710661 0.899609501 0.988043876 1.019686879 0.944048171 1.013177074 0.927867649 0.882665852 0.959376591 1 11.31756675 -6.26028888 0.004098155 1.893641277 1.63E-05 0.045058792 0.04697915 44411.10016 72.8844537 16661.7193 17014.64693 5.49E-07 6.26028888 -1.893624988 DSLGT(ph)YSSR ddPTM_HeLa_SAHA_4h_R1 1 DSLGTYSSR 9 0 Q9C0C2;Q9C0C2-2;A0A2R8Y5C4 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 DS(0.438)LGT(0.514)YS(0.047)S(0.001)R 96.171 0.02338 21007000 1438.8 1428.5 1039.5 1163.9 1337.4 1730.3 1379.7 1393.2 2171.1 1266.7 TRUE FALSE FALSE 1590.139585 1474.784337 1181.157647 1186.428968 1234.928701 1582.868706 1224.452525 1357.563961 2155.991138 1321.313636 1.20345355 1.116150093 0.893926782 0.897916237 0.93462193 1.197950784 0.926693324 1.027435065 1.631702784 1 10.36775724 -6.785716381 24.99563095 1.100265373 0.981491559 0.184361726 0.192923935 272.8562558 280932.0236 0.018083086 0.023772203 1.64E-07 6.785716381 -0.118773814 DSLIDSLT(ph) ddPTM_HeLa_SAHA_4h_R1 2 DSLIDSLT 8 0 P56537-2;P56537 P56537-2 EIF6 Eukaryotic translation initiation factor 6 1 0 DSLIDS(0.001)LT(0.999);DSLIDS(0.047)LT(0.953) ; 118.06 0.0020682 5212700 5925.3 6261.5 5863.5 5327.7 5497.1 6893.1 6255.9 5369.1 5932.7 6019.7 TRUE FALSE FALSE 6548.55024 6464.376708 6662.547244 5430.825337 5075.913386 6305.7691 5551.969667 5231.766196 5891.413858 6279.238727 1.042889198 1.029484144 1.061043788 0.864885948 0.808364454 1.004225094 0.884178785 0.833184789 0.938236961 1 12.61637395 -6.256682537 24.887647 1.024388035 0.882293636 0.579889765 0.057253612 177.802222 930253.9767 0.007661812 0.012445334 5.54E-07 6.256682537 -0.142094399 DSLIFLVDASK ddPTM_HeLa_SAHA_4h_R1 1 DSLIFLVDASK 11 0 P12956;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 0 149.23 4.74E-05 246140 195.75 297.74 364.62 240.45 262.95 246.3 332.34 277.61 310.45 194.51 FALSE FALSE TRUE 216.3398831 307.3869714 414.3085147 245.1042574 242.8028278 225.3138544 294.9442285 270.5091382 308.2895532 202.896278 1.06625851 1.514995614 2.041971981 1.208027372 1.196684484 1.110487864 1.453669981 1.333238544 1.519444103 1 7.66459859 -7.322179497 6.582266462 1.030128196 1.406965451 0.01646422 0.289056054 0.211773087 18.83263187 0.043972125 0.050255814 4.76E-08 7.322179497 0.376837255 DSLIIIDELGR ddPTM_HeLa_SAHA_4h_R1 2 DSLIIIDELGR 11 0 P43246-2;P43246;A0A2R8Y713;A0A2R8YFH0;E9PHA6;A0A2R8Y6P0;A0A2R8YG02 P43246-2 MSH2 DNA mismatch repair protein Msh2 0 0 ; ; 141.91 0.005021 5948800 1975.51 2037.83 1400.77 2131.6 1658.19 2492.4 2547.4 2102.8 2375.7 1939.29 FALSE FALSE TRUE 2183.303206 2103.857029 1591.659641 2172.8602 1531.13984 2280.033498 2260.759848 2049.013421 2359.16731 2022.902283 1.079292472 1.040019109 0.786819835 1.074130085 0.756902522 1.127110053 1.117582331 1.012907761 1.166229002 1 10.98221092 DSLLDGHFVLATLSDTDSHSQDLGS(ph)PER ddPTM_HeLa_SAHA_4h_R1 2 DSLLDGHFVLATLSDTDSHSQDLGSPER 28 0 Q99638 Q99638 RAD9A Cell cycle checkpoint control protein RAD9A 1 0 DSLLDGHFVLATLSDTDSHS(0.091)QDLGS(0.908)PER;DSLLDGHFVLATLSDTDS(0.002)HS(0.098)QDLGS(0.9)PER ; 151.67 7.56E-11 15862000 2177.4 3526.3 2485.9 3541.9 5059.2 4252.7 4476.8 2498.6 3917.9 4041.9 TRUE FALSE FALSE 2406.428922 3640.554434 2824.665506 3610.458596 4671.565189 3890.346035 3973.058682 2434.68943 3890.635015 4216.16609 0.570762364 0.863475099 0.669960681 0.856336899 1.108012609 0.922721248 0.942339224 0.577465256 0.922789789 1 12.04171599 -6.005804585 24.92548012 0.788343531 0.905064045 0.042872148 0.167357514 577.6459761 2480489.143 0.02952244 0.052298567 9.87E-07 6.005804585 0.116720514 DSLLQDGEFSMDLR ddPTM_HeLa_SAHA_4h_R1 24 DSLLQDGEFSMDLR 14 0 P07737;K7EJ44 P07737 PFN1 Profilin-1 0 0 ;;;;;;;;;;;;;;;;;;;;;;; ;;;;;;;;;;;;;;;;;;;;;;; 345.64 1.10E-135 1475136200 20891.15 20988.94 19758.63 22929.12 22971.88 24761.08 25383.65 20809.321 23001.61 21493 FALSE FALSE TRUE 23088.57701 21668.99543 22451.2332 23372.94627 21211.77952 22651.29668 22527.4149 20277.0487 22841.53992 22419.66841 1.029835793 0.966517213 1.001407906 1.042519713 0.946123695 1.010331476 1.004805891 0.904431249 1.018817027 1 14.45247732 -4.261503949 6.37499087 1.007060518 0.902222761 0.533208838 0.027136426 0.068675201 15.83080956 0.003689057 0.03095851 5.48E-05 4.261503949 -0.104837757 DSLS(ph)PVLHPSDLILTR ddPTM_HeLa_SAHA_4h_R1 2 DSLSPVLHPSDLILTR 16 0 Q9HCN4-3;Q9HCN4-2;Q9HCN4-4;Q9HCN4;Q9HCN4-5 Q9HCN4-3 GPN1 GPN-loop GTPase 1 1 0 DS(0.175)LS(0.823)PVLHPS(0.002)DLILTR;DS(0.014)LS(0.986)PVLHPSDLILTR ; 127.05 0.00025719 10581500 1160.57 1873.8 1222.97 1399.32 2302.1 3748.24 2015 2144.54 2063.63 1984.38 TRUE FALSE FALSE 1282.644077 1934.512349 1389.629983 1426.405862 2125.713595 3428.868865 1788.266897 2089.685772 2049.269031 2069.936333 0.619653879 0.934575773 0.671339481 0.689106152 1.026946366 1.656509338 0.863923623 1.009541085 0.990015489 1 11.01537068 -5.539677506 10.28113163 0.807105086 1.177998566 0.341467378 0.225922027 0.265016622 155.8347667 0.034117798 0.068849442 2.89E-06 5.539677506 0.37089348 DSLVEHDEEFVQRQDS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 DSLVEHDEEFVQRQDSPR 18 1 E9PDC2;A0A088AWP5;Q8WUY3-4;Q8WUY3;Q8WUY3-2;Q8WUY3-3 E9PDC2 PRUNE2 Protein prune homolog 2 1 0 DSLVEHDEEFVQRQDS(1)PR;DSLVEHDEEFVQRQDS(1)PR ; 89.136 0.0013248 7993800 2361.39 3323.1 2309.53 3502.1 3611.1 3832.8 3431.6 3306 2934.8 2938.6 TRUE FALSE FALSE 2609.771835 3430.77062 2624.260721 3569.88821 3334.418298 3506.223877 3045.467337 3221.437307 2914.376488 3065.297427 0.851392694 1.119229276 0.856119441 1.164613971 1.087796006 1.143844589 0.993530778 1.050937922 0.950764667 1 11.58181135 -6.260135735 24.99816685 0.940235089 1.085963397 0.3794136 0.083666086 94.70070382 1815930.701 0.013621845 0.021797253 5.49E-07 6.260135735 0.145728308 DSLYVDGDCTMDIR ddPTM_HeLa_SAHA_4h_R1 3 DSLYVDGDCTMDIR 14 0 C9J0J7;G5E9Q6;P35080-2;C9JQ45;C9J2N0;C9J712;P35080 C9J0J7;C9J712 PFN2 Profilin;Profilin-2 0 0 ;; ;; 279.77 3.51E-68 47204600 3190.1 3441.7 2763.06 3504.21 4003.37 4258.75 3495.57 3226.8 3468.42 3322.18 FALSE FALSE TRUE 3525.649355 3553.213338 3139.595427 3572.039052 3696.632655 3895.880541 3102.239264 3144.263128 3444.282983 3465.415438 1.017381442 1.025335462 0.905979524 1.030767917 1.066721356 1.12421746 0.895199816 0.907326462 0.993901898 1 11.7588126 -4.706519481 24.99984183 1.014298973 0.90126228 0.44802629 0.052592661 64.30272453 29269.83969 0.007191853 0.026909425 1.97E-05 4.706519481 -0.113036693 DSNAPKS(ph)PLTGYVR ddPTM_HeLa_SAHA_4h_R1 2 DSNAPKSPLTGYVR 14 1 H0YNS8;H0YKM5;Q9NP66 H0YNS8 HMG20A High mobility group protein 20A 1 0 DSNAPKS(0.863)PLT(0.137)GYVR;DSNAPKS(0.952)PLT(0.048)GYVR ; 164.53 3.78E-05 52994000 1394.69 1308.1 1443.23 1519.65 1248.38 1686.45 1399.17 1782.47 1062.88 1175.25 TRUE FALSE FALSE 1541.389893 1350.483298 1639.905868 1549.065023 1152.729394 1542.754972 1241.731709 1736.876998 1055.483332 1225.920779 1.257332382 1.101607315 1.337693182 1.263593088 0.940296807 1.258445895 1.012897188 1.416793832 0.860971891 1 10.25965004 -9.415715204 1.076620003 0.997074495 1.195157697 0.326612678 0.145292835 0.618588121 1.251757915 0.094750392 0.022552647 3.84E-10 9.415715204 0.198083202 DSNNLCLHFNPR ddPTM_HeLa_SAHA_4h_R1 3 DSNNLCLHFNPR 12 0 P09382 P09382 LGALS1 Galectin-1 0 0 ;; ;; 125.36 0.00098546 24042100 11044.7 11573.9 10385.4 12852.5 13813.1 12586.3 13800.9 8102.9 9483.8 10461.3 FALSE FALSE TRUE 12206.43222 11948.90195 11800.66823 13101.27872 12754.74326 11513.87643 12247.98641 7895.639551 9417.801464 10912.33784 1.118590022 1.094990105 1.081406056 1.200593211 1.168836912 1.055124631 1.122398022 0.723551604 0.863041596 1 13.41367259 -4.25747612 24.97054882 1.081760304 0.723551463 0.585509822 0.089509043 168.1897778 1059637.788 0.009779412 0.100055322 5.53E-05 4.25747612 -0.35820884 DSPAFPDS(ph)PWR ddPTM_HeLa_SAHA_4h_R1 3 DSPAFPDSPWR 11 0 Q9NQS7-2;Q9NQS7 Q9NQS7-2 INCENP Inner centromere protein 1 0 DS(0.001)PAFPDS(0.999)PWR;DSPAFPDS(1)PWR;DSPAFPDS(1)PWR ;; 128.21 0.0014977 20423000 2801.82 3248.4 2616.95 3567.36 3379.45 3860.3 3196.9 3409.91 5497.52 3669.46 TRUE FALSE FALSE 3096.528283 3353.650291 2973.574318 3636.411411 3120.517271 3531.380723 2837.176398 3322.68944 5459.262311 3827.668379 0.808985517 0.876160095 0.776863099 0.950033036 0.815252776 0.922593175 0.741228371 0.868071398 1.426263137 1 11.90225013 -9.344894681 0.934848214 1.00547553 0.842820179 0.349744898 0.149551529 0.387181318 0.572756812 0.044686954 0.01024802 4.52E-10 9.344894681 -0.16265535 DSPAFPDS(ph)PWRER ddPTM_HeLa_SAHA_4h_R1 4 DSPAFPDSPWRER 13 1 Q9NQS7-2;Q9NQS7 Q9NQS7-2 INCENP Inner centromere protein 1 0 DSPAFPDS(1)PWRER;DSPAFPDS(1)PWRER;DSPAFPDS(1)PWRER;DSPAFPDS(1)PWRER ;;; 90.754 0.0059004 27513000 7153.15 4783.45 5086.68 6665.96 6133.42 5936.47 6471.33 7476.83 5800.6 6311.13 TRUE FALSE FALSE 7905.551137 4938.436919 5779.86626 6794.989295 5663.478685 5430.649358 5743.158917 7285.583515 5760.233152 6583.2337 1.200861385 0.75015367 0.877967656 1.032165894 0.860288263 0.824921248 0.872391773 1.106687662 0.874985367 1 12.6845807 -7.269767316 24.98560402 1.094851208 0.901594742 0.094171025 0.12634016 483.3405221 1450123.129 0.019981887 0.0230512 5.37E-08 7.269767316 -0.193256466 DSPS(ph)VWAAVPGK ddPTM_HeLa_SAHA_4h_R1 1 DSPSVWAAVPGK 12 0 P07737;I3L3D5;CON__P02584 P07737 PFN1 Profilin-1 1 0 DS(0.005)PS(0.995)VWAAVPGK 134.49 0.00087841 2152200 1225.3 1395.3 843.47 1293.1 1373.8 1336.6 1009.1 1073 1395.9 1048.9 TRUE FALSE FALSE 1354.182676 1440.508635 958.413699 1318.12982 1268.539741 1222.71416 895.5534122 1045.554214 1386.185818 1094.123212 1.237687548 1.316587217 0.875965054 1.204736181 1.159412145 1.117528764 0.818512396 0.955609206 1.266937583 1 10.0955595 -4.772984699 24.2946438 1.122460109 0.887060824 0.385140302 0.128510559 114.4430424 240823.7079 0.01840059 0.055933561 1.69E-05 4.772984699 -0.235399286 DSPSVWAAVPGK ddPTM_HeLa_SAHA_4h_R1 6 DSPSVWAAVPGK 12 0 P07737;I3L3D5;CON__P02584 P07737 PFN1 Profilin-1 0 0 ;;;;; ;;;;; 195.36 7.62E-11 46180000 21183.6 19430.6 17184.6 21603.6 20507.1 24163.4 22549.6 20003 25238.9 19847.4 FALSE FALSE TRUE 23411.78824 20060.16419 19526.42779 22021.76892 18935.85043 22104.54238 20012.25966 19491.35222 25063.26044 20703.11854 1.130833898 0.968944082 0.943163599 1.063693321 0.914637589 1.067691437 0.966630202 0.941469382 1.210603146 1 14.33756048 -7.231144295 24.78623974 1.061782681 0.982865569 0.353892485 0.07270736 644.9799124 527697.6605 0.01060786 0.012991099 5.87E-08 7.231144295 -0.078917112 DSQDAGGFGPEDR ddPTM_HeLa_SAHA_4h_R1 3 DSQDAGGFGPEDR 13 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ;; ;; 198.32 5.99E-10 16299500 5030.1 4785.5 4099.2 4625.1 4959.9 5425.4 5483.4 5466.8 5103.5 4705.2 FALSE FALSE TRUE 5559.188997 4940.55334 4657.817628 4714.625499 4579.873534 4963.125398 4866.3934 5326.967172 5067.984328 4908.064199 1.132664279 1.006619543 0.949013183 0.960587577 0.933132361 1.011218516 0.991509728 1.085349938 1.032583137 1 12.2609384 -7.017708847 23.72770201 1.063015178 0.985188112 0.255829995 0.050121421 393.5992091 527375.0111 0.01024109 0.012696488 9.60E-08 7.017708847 -0.077827066 DSQDASAEQS(ph)DHDDEVASLASASGGFGTK ddPTM_HeLa_SAHA_4h_R1 4 DSQDASAEQSDHDDEVASLASASGGFGTK 29 0 Q6P2E9;Q6P2E9-2 Q6P2E9 EDC4 Enhancer of mRNA-decapping protein 4 1 0 DSQDAS(0.027)AEQS(0.972)DHDDEVASLASASGGFGTK;DSQDAS(0.041)AEQS(0.959)DHDDEVASLASASGGFGTK;DS(0.004)QDAS(0.082)AEQS(0.911)DHDDEVAS(0.003)LASASGGFGTK;DS(0.029)QDAS(0.316)AEQS(0.654)DHDDEVAS(0.001)LASASGGFGTK ;;; 104.2 3.96E-09 382447000 4063.06 6060.06 3923.88 4993.62 5497.95 6378.37 6387.17 5502.96 5623.58 5189.83 TRUE FALSE FALSE 4490.431293 6256.40992 4458.605932 5090.278736 5076.698259 5834.896992 5668.468821 5362.202251 5584.445049 5413.58897 0.829473999 1.155686173 0.823595208 0.940278023 0.937769433 1.077824162 1.047081493 0.990507828 1.031560593 1 12.40236964 -5.290440394 13.32860009 0.931189876 1.039326859 0.074030903 0.095489155 2.907921723 1336.347611 0.013744225 0.030839842 5.12E-06 5.290440394 0.108136983 DSQDASAEQS(ph)DHDDEVASLASASGGFGTKVPAPR ddPTM_HeLa_SAHA_4h_R1 2 DSQDASAEQSDHDDEVASLASASGGFGTKVPAPR 34 1 Q6P2E9;Q6P2E9-2 Q6P2E9 EDC4 Enhancer of mRNA-decapping protein 4 1 0 DSQDAS(0.004)AEQS(0.996)DHDDEVASLASASGGFGTKVPAPR;DS(0.001)QDAS(0.097)AEQS(0.844)DHDDEVAS(0.035)LAS(0.008)AS(0.01)GGFGT(0.005)KVPAPR ; 131.83 2.22E-19 30692000 2890.8 1418.62 2284.7 1974.47 2306.2 1533.47 3042.2 3176.6 917.62 1978.78 TRUE FALSE FALSE 3194.867607 1464.584219 2596.047018 2012.688722 2129.499454 1402.809729 2699.883649 3095.347172 911.2342077 2064.09489 1.547829813 0.709552757 1.257716896 0.975095056 1.031686801 0.679624632 1.308023029 1.499614764 0.441469146 1 11.01129358 -7.273319856 24.9099483 1.258697392 1.062926457 0 0.372502329 1420.783926 2978970.017 0.052073256 0.059793903 5.33E-08 7.273319856 -0.195770936 DSQEDWTTFTHDR ddPTM_HeLa_SAHA_4h_R1 2 DSQEDWTTFTHDR 13 0 A0A0A0MTP6;O15357;O15357-2;F5GY16 A0A0A0MTP6 INPPL1 "Phosphatidylinositol 3,4,5-trisphosphate 5-phosphatase 2" 0 0 ; ; 160.46 6.50E-05 7696500 3662 3815 3385.9 3888.3 4730 4855.5 4324 4041.8 4576.3 4060.4 FALSE FALSE TRUE 4047.185962 3938.608503 3847.312819 3963.563669 4367.588422 4441.784084 3837.45214 3938.416608 4544.453156 4235.463715 0.955547311 0.929911993 0.90835693 0.935803949 1.031194862 1.048712581 0.906028808 0.929866686 1.072952919 1 12.04830421 -9.0439603 0.987903538 0.99833003 0.957100526 0.214369452 0.051602619 0.997324188 1.852766096 0.02623146 0.009280819 9.04E-10 9.0439603 -0.041229503 DSQS(ph)PDSAWR ddPTM_HeLa_SAHA_4h_R1 2 DSQSPDSAWR 10 0 O94875-11;O94875-9;O94875-12;O94875-8;C9J4Z9;C9IZT7;C9JWC3;C9JN77;C9JI79;C9J372;C9JZ60;C9JDX2;C9JBB0;C9JFS9;C9JC90;C9J620;C9JM25 O94875-11 SORBS2 Sorbin and SH3 domain-containing protein 2 1 0 DS(0.013)QS(0.984)PDS(0.003)AWR;DS(0.006)QS(0.629)PDS(0.365)AWR ; 166.24 0.00014405 23217900 3505.6 3631.2 3574.5 3824.5 4595.5 4896.3 4068.5 4232.4 4427.3 4001.4 TRUE FALSE FALSE 3874.335092 3748.853263 4061.614245 3898.528728 4243.393783 4479.107694 3610.701672 4124.141336 4396.490059 4173.919936 0.928224583 0.898161278 0.973093472 0.934020965 1.016644748 1.07311778 0.865062514 0.988073897 1.053324004 1 12.02718721 -5.774620723 24.96397509 0.958231762 0.983348375 0.020642637 0.062677046 665.7568132 1260868.96 0.008618474 0.015686982 1.68E-06 5.774620723 0.025116613 DSS(ph)TSPGDYVLSVSENSR ddPTM_HeLa_SAHA_4h_R1 3 DSSTSPGDYVLSVSENSR 18 0 I3L297;P46108-2;P46108 I3L297 CRK Adapter molecule crk 1 0 DSS(0.996)TS(0.004)PGDYVLSVSENSR;DSS(0.835)T(0.044)S(0.12)PGDYVLSVSENSR;DS(0.019)S(0.972)T(0.009)SPGDYVLSVSENSR ;; 289.59 4.39E-74 24906200 1737.18 2916.57 1593.11 2159.96 2295.08 2909.24 2406.33 2092.44 4579.1 2389.97 TRUE FALSE FALSE 1919.904563 3011.068782 1810.210734 2201.769149 2119.231466 2661.356385 2135.563415 2038.918415 4547.23367 2493.013303 0.770114047 1.207802934 0.726113548 0.883175853 0.850068254 1.067525946 0.856619342 0.817853002 1.823990937 1 11.28367487 -9.752408091 1.696903293 1.000155945 0.880253767 0.077040823 0.295240028 0.733345599 3.81414429 0.096361556 0.020653465 1.77E-10 9.752408091 -0.119902177 DSS(ph)VEVR ddPTM_HeLa_SAHA_4h_R1 1 DSSVEVR 7 0 O15371-2;O15371-3;O15371;B0QYA6;B0QYA5 O15371-2 EIF3D Eukaryotic translation initiation factor 3 subunit D 1 0 DS(0.153)S(0.847)VEVR 101.72 0.012639 14965000 2608 2381 2250.3 3099.9 3206.6 5605.8 3658.2 4040.4 3508.4 4911.6 TRUE FALSE FALSE 2882.321406 2458.145962 2556.959165 3159.903047 2960.911001 5128.154303 3246.569708 3937.052418 3483.984759 5123.363113 0.562583862 0.479791478 0.499078263 0.616763438 0.577923316 1.000935165 0.633679409 0.768450787 0.680019097 1 12.32287543 -9.289393653 1.038662239 0.99802698 0.637836431 0.068383197 0.171673975 0.38191801 0.744223171 0.099184519 0.027274845 5.14E-10 9.289393653 -0.360190548 DSSDQVESLASR ddPTM_HeLa_SAHA_4h_R1 1 DSSDQVESLASR 12 0 Q8N715 Q8N715 CCDC185 Coiled-coil domain-containing protein 185 0 0 126.07 0.0074533 9992700 1406.3 1214.1 1087.7 1246.2 1609.2 1527.3 1298.9 1515.8 1127.6 1059.8 FALSE FALSE TRUE 1554.221086 1253.437637 1235.926092 1270.322003 1485.903444 1397.165448 1152.744353 1477.028031 1119.75294 1105.493165 1.405907459 1.133826673 1.11798619 1.149099826 1.344109119 1.263839065 1.042742181 1.336080655 1.012899017 1 10.11047439 -9.634819345 1.469632571 1.00046887 1.242953437 0.373179569 0.110684282 0.365610456 1.423375928 0.085818145 0.019686311 2.32E-10 9.634819345 0.242484567 DSSDSADGRAT(ph)PSENLVPSSAR ddPTM_HeLa_SAHA_4h_R1 3 DSSDSADGRATPSENLVPSSAR 22 1 Q8N684-2;Q8N684;Q8N684-3;F5H6M0;F5H047;F5H669 Q8N684-2 CPSF7 Cleavage and polyadenylation specificity factor subunit 7 1 0 DS(0.014)S(0.023)DS(0.016)ADGRAT(0.942)PS(0.004)ENLVPS(0.001)S(0.001)AR;DS(0.017)S(0.014)DS(0.424)ADGRAT(0.52)PS(0.023)ENLVPS(0.002)S(0.001)AR;DS(0.037)S(0.037)DS(0.032)ADGRAT(0.829)PS(0.064)ENLVPS(0.001)S(0.001)AR ;; 69.292 0.0041581 341334500 4587.13 4826.3 4643.41 4783.34 5403.1 4782.78 5507.7 5681 4751.77 4645.24 TRUE FALSE FALSE 5069.62538 4982.675287 5276.189733 4875.928463 4989.115645 4375.260237 4887.959101 5535.688246 4718.702046 4845.51903 1.046250226 1.028305793 1.088880201 1.006275784 1.02963493 0.902949758 1.008758622 1.142434528 0.973827988 1 12.24243549 DSSFTEVPRS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 DSSFTEVPRSPK 12 1 O95425-3;O95425-2;O95425-4;O95425;A0A6I8PIX7 O95425-3 SVIL Supervillin 1 0 DSSFTEVPRS(1)PK;DSSFT(0.001)EVPRS(0.999)PK ; 76.311 0.014976 344480000 6193.8 6293 6453.3 7022.6 7282.6 7577.7 7502.2 7966.5 6504.3 6168.8 TRUE FALSE FALSE 6845.292302 6496.897329 7332.722117 7158.532578 6724.608761 6932.037329 6658.032711 7762.728465 6459.036047 6434.767157 1.06379798 1.009655388 1.13954739 1.112477329 1.04504306 1.077278658 1.034696757 1.206372861 1.003771526 1 12.65167223 DSSGQEDETQS(ph)SNDDPSQSVASQDAQEIIRPR ddPTM_HeLa_SAHA_4h_R1 1 DSSGQEDETQSSNDDPSQSVASQDAQEIIRPR 32 1 Q8N108-19;Q8N108-16;Q8N108-14;Q8N108-18;Q8N108-17;Q8N108-15;Q8N108;Q8N108-13;Q8N108-12 Q8N108-19 MIER1 Mesoderm induction early response protein 1 1 0 DS(0.005)S(0.005)GQEDET(0.101)QS(0.418)S(0.418)NDDPS(0.026)QS(0.026)VAS(0.002)QDAQEIIRPR 46.149 0.014355 2569300 278.82 321.44 390.34 383.36 218.42 471.32 348.21 508.34 521.32 326.81 TRUE FALSE FALSE 308.1475669 331.8548669 443.5335024 390.7804871 201.6847068 431.1608844 309.0284944 495.3373989 517.6920917 340.9003785 0.903922631 0.973465821 1.301064858 1.146318725 0.591623593 1.264770917 0.906506751 1.453026838 1.518602279 1 8.413206391 DSSGSVS(ph)PNTLSQEEGDQICLYHIR ddPTM_HeLa_SAHA_4h_R1 3 DSSGSVSPNTLSQEEGDQICLYHIR 25 0 H7C4T3;H7C4L8;G5E9U9;Q9H0J9 H7C4T3 PARP12 Poly [ADP-ribose] polymerase 12 1 0 DS(0.015)S(0.015)GS(0.057)VS(0.866)PNT(0.047)LSQEEGDQICLYHIR;DS(0.045)S(0.045)GS(0.035)VS(0.766)PNT(0.107)LS(0.003)QEEGDQICLYHIR;DS(0.008)S(0.035)GS(0.027)VS(0.925)PNT(0.005)LSQEEGDQICLYHIR ;; 183.63 1.36E-14 15829200 2519.86 3000.91 2510.72 2358.88 3436.74 3811.2 3509.04 3190.72 3148.26 2808.03 TRUE FALSE FALSE 2784.910436 3098.141453 2852.867846 2404.539533 3173.417724 3486.464319 3114.193584 3109.106003 3126.351002 2929.097915 0.950774101 1.057711808 0.973974899 0.820914699 1.083411281 1.190286026 1.063192039 1.061455128 1.067342606 1 11.51624071 -5.549965791 24.99951693 0.972154996 1.106807492 0.407180229 0.071706266 131.8145344 121655.547 0.009301296 0.018602904 2.82E-06 5.549965791 0.134652496 DSSIIDPGTEQDLPS(ph)PENSSVK ddPTM_HeLa_SAHA_4h_R1 1 DSSIIDPGTEQDLPSPENSSVK 22 0 H7C150;H7C183;Q70CQ2-3;Q70CQ2-2;Q70CQ2 H7C150 USP34 Ubiquitin carboxyl-terminal hydrolase 34 1 0 DSSIIDPGTEQDLPS(0.852)PENS(0.114)S(0.034)VK 95.307 0.00019627 3172800 1633.8 1661.4 1493.3 1805.4 1876.8 2324.8 1646.3 1809.6 2326.9 1975.4 TRUE FALSE FALSE 1805.65058 1715.23045 1696.799147 1840.346128 1732.999989 2126.713961 1461.053991 1763.313052 2310.706913 2060.569161 0.876287297 0.832406154 0.823461391 0.893125143 0.841029761 1.032100257 0.709053604 0.855740776 1.121392553 1 11.00882717 -8.875369178 0.630480848 1.006928925 0.854953805 0.438623464 0.085222099 0.737383385 0.526038011 0.058808483 0.016952628 1.33E-09 8.875369178 -0.15197512 DSSLCVSGETLAAGT(ph)SSPKTEGK ddPTM_HeLa_SAHA_4h_R1 1 DSSLCVSGETLAAGTSSPKTEGK 23 1 F8WF45;A0A2R8Y7M0;P82094;P82094-2 F8WF45 TMF1 TATA element modulatory factor 1 0 DSSLCVS(0.001)GET(0.016)LAAGT(0.321)S(0.321)S(0.321)PKT(0.021)EGK 78.554 0.00078285 8579500 982.15 1603.3 1189.9 1389.7 1856.4 1754.1 1384.1 1743.3 2234.8 1588 TRUE FALSE FALSE 1085.457043 1655.247972 1352.053375 1416.599653 1714.163033 1604.640812 1228.357425 1698.70891 2219.247845 1656.466451 0.655284653 0.99926441 0.816227442 0.855193688 1.03483112 0.968713136 0.741552854 1.025501548 1.339748138 1 10.69389327 -5.96308416 24.86679501 0.845919184 0.932005489 0 0.196285531 369.416375 248840.073 0.022211023 0.040260862 1.09E-06 5.96308416 0.086086304 DSSPASGTDRDS(ph)PEPLLK ddPTM_HeLa_SAHA_4h_R1 3 DSSPASGTDRDSPEPLLK 18 1 A6NHT5 A6NHT5 HMX3 Homeobox protein HMX3 1 0 DSSPAS(0.002)GT(0.007)DRDS(0.991)PEPLLK;DSS(0.001)PAS(0.011)GT(0.011)DRDS(0.978)PEPLLK;DS(0.011)S(0.031)PAS(0.147)GT(0.11)DRDS(0.701)PEPLLK ;; 88.57 0.0021475 31481000 6662.1 8041.7 6113.6 6256.5 8725.5 9942.4 8547.1 8765.4 8751.9 7759.4 TRUE FALSE FALSE 7362.850245 8302.256356 6946.72957 6377.603605 8056.954075 9095.251586 7585.357813 8541.19376 8690.994815 8093.945708 0.909673787 1.025736601 0.858262437 0.787947416 0.995429716 1.123710476 0.937164405 1.055257111 1.073764901 1 12.98262746 -5.528939214 24.99984772 0.941146876 1.033725066 0.195311687 0.087989816 181.5851426 749049.7334 0.011835571 0.02372475 2.96E-06 5.528939214 0.092578189 DSSS(ph)SLTDPQVSYVK ddPTM_HeLa_SAHA_4h_R1 1 DSSSSLTDPQVSYVK 15 0 O94887-3;O94887-2;O94887;H7C3M7 O94887-3 FARP2 "FERM, RhoGEF and pleckstrin domain-containing protein 2" 1 0 DS(0.007)S(0.046)S(0.57)S(0.368)LT(0.01)DPQVSYVK 148.18 7.67E-05 4287900 368.67 588.76 524.1 426.69 430.1 509.47 653.63 426.34 536.42 399.03 TRUE FALSE FALSE 407.4484021 607.8362103 595.5216186 434.949202 397.1458309 466.0602898 580.0818321 415.4348401 532.6870095 416.2341361 0.978892327 1.460322827 1.430737095 1.044962833 0.954140462 1.119707034 1.393643101 0.998079696 1.279777326 1 8.701251478 DSSS(ph)TDSANEKPALIPR ddPTM_HeLa_SAHA_4h_R1 1 DSSSTDSANEKPALIPR 17 1 B8ZZZ7;Q9NUQ6-2;Q9NUQ6;Q9NUQ6-4;Q9NUQ6-3;F2Z2S1;C9JKE4;F8VZ02;F8VT91;C9JGM8;C9JW67;F8W6C2 B8ZZZ7 SPATS2L SPATS2-like protein 1 0 DS(0.006)S(0.126)S(0.373)T(0.281)DS(0.213)ANEKPALIPR 70.272 0.011015 8336400 591.45 653.54 346.22 371.06 786.44 825.82 717.74 886.35 779.55 715.26 TRUE FALSE FALSE 653.6614247 674.7151248 393.4010586 378.2424029 726.1831371 755.4554901 636.9780062 863.6784504 774.1250481 746.098359 0.876106236 0.904324633 0.527277743 0.506960508 0.973307511 1.012541418 0.853745352 1.157593285 1.037564336 1 9.543222025 -8.466422169 0.988277415 0.983258712 0.841026193 0.101362867 0.191287312 0.977257874 1.959414646 0.070272395 0.041287591 3.42E-09 8.466422169 -0.142232519 DSSSLSSCTSGILEERS(ph)PAFR ddPTM_HeLa_SAHA_4h_R1 1 DSSSLSSCTSGILEERSPAFR 21 1 Q9H3Q1;Q9H3Q1-2 Q9H3Q1 CDC42EP4 Cdc42 effector protein 4 1 0 DSSSLSSCTSGILEERS(1)PAFR 107.07 0.0001106 9815700 914.97 1183 1041.8 1142 1507.3 1311.9 1207.3 1428.6 1644.8 1136.1 TRUE FALSE FALSE 1011.210743 1221.329976 1183.771079 1164.105061 1391.811 1200.118739 1071.451427 1392.058481 1633.353703 1185.082831 0.853282755 1.03058617 0.998893113 0.982298478 1.174441957 1.012687644 0.904115222 1.174650787 1.378261215 1 10.21077218 -7.156606733 9.109392038 0.930752358 1.035122649 0 0.164838163 0.402477436 32.31028576 0.015023359 0.018410544 6.97E-08 7.156606733 0.104370291 DSSSNEKQT(ph)ISLPVS(ph)T(ph)SKS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 DSSSNEKQTISLPVSTSKSR 20 2 A0A1B0GWA0;Q8IZM8 A0A1B0GWA0 ZNF654 Zinc finger protein 654 4 0 DS(0.063)S(0.188)S(0.156)NEKQT(0.586)IS(0.008)LPVS(0.694)T(0.694)S(0.694)KS(0.917)R 51.127 0.0077897 0 1007.5 1298.2 1012.1 1385.6 1301.6 1399.7 1318.8 1004.3 1608.9 1089.9 TRUE FALSE FALSE 1113.473473 1340.262532 1150.023717 1412.420292 1201.871689 1280.437686 1170.405153 978.6114602 1597.703534 1136.890923 0.979402201 1.178884012 1.011551499 1.24235339 1.057156553 1.126262564 1.029478844 0.860778673 1.405327021 1 10.15087813 DSSSS(ph)LTDPQVSYVK ddPTM_HeLa_SAHA_4h_R1 1 DSSSSLTDPQVSYVK 15 0 O94887-3;O94887-2;O94887;H7C3M7 O94887-3 FARP2 "FERM, RhoGEF and pleckstrin domain-containing protein 2" 1 0 DS(0.272)S(0.209)S(0.032)S(0.472)LT(0.015)DPQVSYVK 125.33 3.80E-05 0 630.05 1001.2 597.45 490.34 841.73 897.22 751.87 1101.6 873.77 711.57 TRUE FALSE FALSE 696.3215498 1033.639537 678.8673746 499.8312397 777.2368292 820.7718084 667.2676088 1073.422667 867.6893634 742.249265 0.938123596 1.39257738 0.914608349 0.673400788 1.047137216 1.105789991 0.898980491 1.446175453 1.168999963 1 9.535759949 -4.254680969 24.3538502 0.985287017 1.44617576 0.324646472 0.181697687 427.8215926 1541590.774 0.022913328 0.295236811 5.56E-05 4.254680969 0.460888743 DSSSSGSGS(ph)DNDVEVIK ddPTM_HeLa_SAHA_4h_R1 1 DSSSSGSGSDNDVEVIK 17 0 P46100-5;P46100-3;P46100-4;P46100;P46100-2;A0A096LNX6 P46100-5 ATRX Transcriptional regulator ATRX 1 0 DS(0.001)SSS(0.02)GS(0.477)GS(0.502)DNDVEVIK 144.3 4.68E-09 0 602.77 647.4 541.87 682.48 788.98 699.3 593.51 810.99 708.6 666.48 TRUE FALSE FALSE 666.1721142 668.3761848 615.7132217 695.6903873 728.5285229 639.7157058 526.7266928 790.2460501 703.6687949 695.2152145 0.958224303 0.961394646 0.885644055 1.00068349 1.047917979 0.920169312 0.75764552 1.136692687 1.01215966 1 9.441315845 -8.918192765 0.613865285 1.003058789 0.951685865 0.033686364 0.094463792 2.95140756 1.943388355 0.07943985 0.021360659 1.21E-09 8.918192765 -0.051372924 DSSSSLT(ph)DPQVSYVKSPAAER ddPTM_HeLa_SAHA_4h_R1 1 DSSSSLTDPQVSYVKSPAAER 21 1 O94887-3;O94887-2;O94887;H7C3M7 O94887-3 FARP2 "FERM, RhoGEF and pleckstrin domain-containing protein 2" 1 0 DS(0.001)S(0.002)S(0.006)S(0.024)LT(0.412)DPQVS(0.236)Y(0.005)VKS(0.315)PAAER 68.445 0.0049324 0 1010.8 1566.3 1156.7 1113 1181.9 1565.1 1397.8 1099.7 1203.8 1011.8 TRUE FALSE FALSE 1117.120582 1617.049148 1314.329052 1134.543724 1091.343077 1431.744675 1240.515865 1071.571266 1195.422658 1055.42365 1.05845703 1.532132758 1.245309457 1.074965228 1.034033184 1.356559212 1.175372435 1.015299654 1.132647215 1 10.0436065 -7.496177461 24.55808229 1.025789693 1.206351601 0.14533751 0.150570121 249.7746781 229729.2645 0.025852132 0.027936592 3.19E-08 7.496177461 0.180561909 DSSSSLTDPQVSYVKS(ph)PAAER ddPTM_HeLa_SAHA_4h_R1 2 DSSSSLTDPQVSYVKSPAAER 21 1 O94887-3;O94887-2;O94887;H7C3M7 O94887-3 FARP2 "FERM, RhoGEF and pleckstrin domain-containing protein 2" 1 0 DSSSSLTDPQVSYVKS(1)PAAER;DSSSSLTDPQVS(0.006)Y(0.008)VKS(0.985)PAAER ; 114.71 4.62E-05 117879000 5248.4 6106.4 5194.5 4872.6 5641 5849.3 6312.1 5273.3 5453.7 5225.7 TRUE FALSE FALSE 5800.450793 6304.251367 5902.379408 4966.916219 5208.787799 5350.906733 5601.845895 5138.416622 5415.747258 5451.005501 1.064106575 1.156529995 1.082805623 0.911192663 0.955564583 0.981636641 1.027672031 0.942654822 0.993531791 1 12.41230666 -6.270495254 24.98416693 1.046101254 0.967835304 0.452364766 0.051496325 603.9747487 1666299.346 0.008796212 0.013557548 5.36E-07 6.270495254 -0.078265951 DSSSSLTDPQVSYVKS(ph)PAAERR ddPTM_HeLa_SAHA_4h_R1 2 DSSSSLTDPQVSYVKSPAAERR 22 2 O94887-3;O94887-2;O94887;H7C3M7 O94887-3 FARP2 "FERM, RhoGEF and pleckstrin domain-containing protein 2" 1 0 DSSSSLTDPQVS(0.148)Y(0.385)VKS(0.467)PAAERR;DSSSSLT(0.001)DPQVS(0.194)Y(0.167)VKS(0.639)PAAERR ; 65.924 0.0019122 43331000 5282.7 4102.4 4712.7 4291.5 4666.3 4318.2 5348.5 5188.9 2865.3 4204.7 TRUE FALSE FALSE 5838.358624 4235.320452 5354.922213 4374.568188 4308.769102 3950.265066 4746.672704 5056.175451 2845.360144 4385.985194 1.331139611 0.965648598 1.220916619 0.997396935 0.982394812 0.90065627 1.082236372 1.152802672 0.648739113 1 12.09868523 -6.245587969 23.99156122 1.147405847 1.017319358 0 0.195036274 708.4252314 1072220.348 0.022028703 0.03643828 5.68E-07 6.245587969 -0.130086489 DSYESYGNSR ddPTM_HeLa_SAHA_4h_R1 4 DSYESYGNSR 10 0 P38159;P38159-2;H3BUY5;Q96E39 P38159;Q96E39 RBMX;RBMXL1 "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed;RNA binding motif protein, X-linked-like-1" 0 0 ;;; ;;; 194.94 1.91E-06 94065000 5786.79 5241.54 5110.86 5432.75 5817.06 6642.4 6204.3 6641.47 5726.07 5061.93 FALSE FALSE TRUE 6395.471123 5411.369335 5807.341385 5537.908732 5371.35812 6076.430151 5506.175835 6471.590814 5686.221813 5280.174575 1.211223423 1.024846671 1.099838898 1.048811673 1.01726904 1.150800994 1.042801854 1.225639555 1.076900343 1 12.36636991 -9.717354516 1.629991242 1.000097067 1.114780411 0.055129725 0.074421356 0.448763392 2.155518199 0.054334014 0.01194564 1.92E-10 9.717354516 0.114683344 DSYLILETLPTEYDSR ddPTM_HeLa_SAHA_4h_R1 3 DSYLILETLPTEYDSR 16 0 E9PM69;P17980;E9PN50;E9PMD8;R4GNH3;E9PKD5;E9PLG2 E9PM69 PSMC3 26S protease regulatory subunit 6A 0 0 ;; ;; 246.63 9.59E-36 27397400 4050.82 4031.62 3175.5 4553.47 4098.59 5207.3 4734.4 3696.31 4873.18 3712.31 FALSE FALSE TRUE 4476.903833 4162.247133 3608.240603 4641.608996 3784.55692 4763.608745 4201.672852 3601.763742 4839.267144 3872.365852 1.156115926 1.07485896 0.931792279 1.198649398 0.977324216 1.23015462 1.08504026 0.930119694 1.24969265 1 11.91899955 -9.684743465 1.568026941 1.000181615 1.088168939 0 0.126155873 0.748743723 3.327867959 0.067211963 0.015079849 2.07E-10 9.684743465 0.087987324 DSYS(ph)SSRSDLYSSGR ddPTM_HeLa_SAHA_4h_R1 1 DSYSSSRSDLYSSGR 15 1 P38159;P38159-2;H3BUY5 P38159 RBMX "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed" 1 0 DS(0.004)YS(0.99)S(0.005)SRS(0.001)DLYSSGR 174.24 2.41E-06 10654000 1681.6 1603 1118.6 1387.7 1714.9 1934.5 2315.2 2090.1 1571.9 1760.7 TRUE FALSE FALSE 1858.478403 1654.938252 1271.036983 1414.56094 1583.504732 1769.669717 2054.687603 2036.638268 1560.96102 1836.612394 1.01190562 0.901081936 0.692055105 0.77020113 0.862187764 0.963551005 1.118737742 1.108910228 0.849913147 1 10.84283147 -4.785065346 5.696002145 0.946161009 1.115186036 0.304268584 0.110127495 0.188954972 18.17123208 0.018385249 0.060640339 1.64E-05 4.785065346 0.169025027 DSYVGDEAQS(ph)K ddPTM_HeLa_SAHA_4h_R1 2 DSYVGDEAQSK 11 0 P60709;A0A2R8Y793;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5;P63267;P68133;P68032;P62736;A6NL76;F8WB63;B8ZZJ2;C9JFL5;F6UVQ4;F6QUT6;P63261;I3L3I0;I3L1U9;K7EM38;I3L3R2;J3KT65 P60709;P63267;P63261 ACTB;ACTG2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 DSYVGDEAQS(1)K;DSYVGDEAQS(1)K ; 124.12 0.0018413 10334500 2390.5 2283.86 1413.58 1787.63 1672.22 2562.5 1804.09 2022.33 3068.3 2007.77 TRUE FALSE FALSE 2641.943758 2357.858562 1606.215321 1822.232164 1544.094865 2344.160584 1601.089045 1970.601727 3046.94745 2094.33479 1.261471552 1.125826956 0.766933409 0.870076824 0.737272222 1.119286465 0.764485722 0.940920113 1.454852139 1 11.03227637 -6.775979738 24.81374102 1.127099257 0.867638441 0.50803621 0.157516331 142.619303 243385.3941 0.021753404 0.028661182 1.68E-07 6.775979738 -0.259460816 DSYVGDEAQSK ddPTM_HeLa_SAHA_4h_R1 8 DSYVGDEAQSK 11 0 P60709;A0A2R8Y793;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5;P63267;P68133;P68032;P62736;A6NL76;F8WB63;B8ZZJ2;C9JFL5;F6UVQ4;F6QUT6;P63261;I3L3I0;I3L1U9;K7EM38;I3L3R2;J3KT65 P60709;P63267;P63261 ACTB;ACTG2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;;;;;;; ;;;;;;; 158.41 0.00089874 1202543000 28758.5 28876 23362.5 27245.9 30607.7 32720.3 30796.2 28664.7 34278.6 26115.1 FALSE FALSE TRUE 31783.45098 29811.60135 26546.21983 27773.28379 28262.54464 29932.34636 27330.93052 27931.49848 34040.05243 27241.04977 1.166748391 1.094363162 0.974493276 1.019537941 1.037498367 1.098795627 1.00329946 1.025345892 1.249586661 1 14.73349468 -6.798902977 24.99927286 1.082114026 1.028910964 0.242224883 0.071258848 271.0418624 180863.9364 0.011097253 0.01458483 1.59E-07 6.798902977 -0.053203061 DSYVGDEAQSK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 DSYVGDEAQSKR 12 1 P60709;A0A2R8Y793;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5;P63267;P68133;P68032;P62736;A6NL76;F8WB63;B8ZZJ2;C9JFL5;F6UVQ4;F6QUT6;P63261;I3L3I0;I3L1U9;K7EM38;I3L3R2;J3KT65 P60709;P63267;P63261 ACTB;ACTG2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 1 ; DSYVGDEAQSK(1)R;DSYVGDEAQSK(1)R 215.04 4.85E-33 192660000 3840.9 10158.6 4802.3 4657.2 7907.6 7350.5 9538.2 7285.3 6602.3 2737 FALSE TRUE FALSE 4244.903485 10487.74531 5456.732435 4747.34684 7301.721396 6724.196047 8464.936633 7098.952575 6556.354057 2855.005465 1.486828497 3.673458925 1.911286161 1.662815325 2.557515734 2.355230535 2.96494586 2.486493516 2.296441859 1 11.47927779 -7.476672059 11.99879697 1.214479158 2.480445959 0.266879143 0.623602661 0.687997903 178.1303294 0.090491743 0.102327865 3.34E-08 7.476672059 1.265966801 DSYVGDEAQSKR ddPTM_HeLa_SAHA_4h_R1 6 DSYVGDEAQSKR 12 1 P60709;A0A2R8Y793;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5;P63267;P68133;P68032;P62736;A6NL76;F8WB63;B8ZZJ2;C9JFL5;F6UVQ4;F6QUT6;P63261;I3L3I0;I3L1U9;K7EM38;I3L3R2;J3KT65 P60709;P63267;P63261 ACTB;ACTG2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;;;;; ;;;;; 156.01 3.23E-07 2131617000 17396.76 15425.47 16147.18 16789.41 17216 17284.06 18618.77 18276.98 13225.8 15404 FALSE FALSE TRUE 19226.63104 15925.26535 18347.6336 17114.39331 15896.9138 15811.36085 16523.737 17809.48132 13133.76058 16068.14183 1.196568417 0.99110809 1.141864056 1.065113409 0.989343632 0.984019249 1.028353943 1.108372176 0.817378931 1 13.97191548 -5.98705758 16.32065885 1.089896361 1.024816679 0 0.107750915 6.635988502 8361.379752 0.01232536 0.022280299 1.03E-06 5.98705758 -0.065079681 DSYYDR ddPTM_HeLa_SAHA_4h_R1 1 DSYYDR 6 0 Q13595;Q13595-4;Q13595-3 Q13595 TRA2A Transformer-2 protein homolog alpha 0 0 148.07 7.10E-05 22109000 3869.7 3979 2845.5 4228.2 4364.6 4720.1 4884.6 4046.3 3701.8 3857 FALSE FALSE TRUE 4276.732801 4107.922211 3233.269921 4310.042925 4030.185291 4317.920925 4334.971952 3942.801505 3676.038872 4023.294146 1.062992823 1.021034521 0.803637468 1.071272139 1.001712812 1.073230236 1.077468312 0.979993349 0.913688818 1 11.9741615 -3.894150279 13.01279957 1.021085687 0.000256507 0 0.083552783 318042.7148 627912.1989 0.010373519 9186558.623 0.0001276 3.894150279 -1.020829181 DT(ph)HEDHDTSTENTDESNHDPQFEPIVSLPEQEIK ddPTM_HeLa_SAHA_4h_R1 1 DTHEDHDTSTENTDESNHDPQFEPIVSLPEQEIK 34 0 P43487-2;P43487;C9JJ34 P43487-2 RANBP1 Ran-specific GTPase-activating protein 1 0 DT(0.235)HEDHDT(0.215)S(0.215)T(0.215)ENT(0.017)DES(0.097)NHDPQFEPIVS(0.005)LPEQEIK 49.944 0.0029433 4918200 292.45 794.22 179.34 531.82 1105.3 97.318 653.51 781.82 731.23 465.63 TRUE FALSE FALSE 323.2112328 819.9532491 203.7795212 542.1141451 1020.612153 89.0259589 579.9753349 761.8221765 726.1413109 485.705588 0.665446807 1.688169272 0.419553586 1.116137344 2.101297942 0.183292021 1.194088248 1.568485509 1.495023588 1 8.923938274 DT(ph)IFPSR ddPTM_HeLa_SAHA_4h_R1 1 DTIFPSR 7 0 J3QKY4;J3QR53;Q96HE9 J3QKY4 PRR11 Proline-rich protein 11 1 0 DT(1)IFPSR 136.27 0.0014198 13387000 3430.3 3497.7 3413.3 3736.2 3360.2 3609.3 3971.7 3684.7 3020.7 3265.3 TRUE FALSE FALSE 3791.114693 3611.027775 3878.446748 3808.519554 3102.742202 3301.767335 3524.793863 3590.450709 2999.678703 3406.083063 1.113042349 1.060170204 1.138682374 1.118152283 0.910941438 0.969373698 1.034852585 1.054128934 0.880682781 1 11.7338979 -5.777269122 24.99981389 1.066346441 0.993722558 0.104446269 0.07860919 269.8297683 426139.9717 0.009487617 0.017238134 1.67E-06 5.777269122 -0.072623883 DT(ph)LRETIKFMY(ph)T(ph)DWADK ddPTM_HeLa_SAHA_4h_R1 1 DTLRETIKFMYTDWADK 17 2 B4DHI3;A6NMU8;Q8NFZ3-2;Q8NFZ3;Q8N0W4;Q8N0W4-2 B4DHI3 NLGN4Y;NLGN4X "Neuroligin-4, Y-linked;Neuroligin-4, X-linked" 3 0 DT(0.5)LRET(0.5)IKFMY(1)T(1)DWADK 56.599 0.01736 6597400 538.47 381.83 383.67 303.8 480.91 464.77 608.38 310.92 375.79 506.95 TRUE FALSE FALSE 595.1087452 394.2015425 435.9545495 309.6804883 444.0627797 425.1689813 539.9234812 302.9671166 373.1748468 528.8070955 1.125379652 0.745454337 0.824411309 0.585620902 0.839744367 0.804015273 1.021021627 0.572925589 0.70569183 1 9.046597725 -7.257374136 24.98122616 1.05920706 0.779015136 0.07460364 0.166972716 194.9210223 1197804.906 0.020317788 0.024402441 5.53E-08 7.257374136 -0.280191924 DT(ph)PTSAGPNSFNK ddPTM_HeLa_SAHA_4h_R1 1 DTPTSAGPNSFNK 13 0 Q8WW12;Q8WW12-3 Q8WW12 PCNP PEST proteolytic signal-containing nuclear protein 1 0 DT(0.816)PT(0.077)S(0.107)AGPNSFNK 110.25 0.004467 3792600 730.87 973.09 694.38 664.18 892.24 909.17 893.49 538.52 1011.5 1094.1 TRUE FALSE FALSE 807.74626 1004.618754 789.0064902 677.0361643 823.876764 831.7036011 792.9521537 524.7454382 1004.460889 1141.272005 0.707759637 0.88026233 0.691339564 0.59322945 0.721893431 0.728751426 0.694796814 0.459789985 0.880124006 1 10.15642696 -13.52287875 0.132349419 2.118123152 0.540774436 0.597869183 0.092483227 33.98204956 0.317558501 9.997018786 0.301551768 3.00E-14 13.52287875 -1.577348717 DT(ph)SDAVVMPKIDTPR ddPTM_HeLa_SAHA_4h_R1 1 DTSDAVVMPKIDTPR 15 1 H7C022;Q8WVS4 H7C022 WDR60 WD repeat-containing protein 60 1 0 DT(0.5)S(0.5)DAVVMPKIDTPR 75.102 0.021686 3751200 709.54 964.61 879.33 1108.7 925.79 1078.2 1108 1111.3 866.59 995.26 TRUE FALSE FALSE 784.1726727 995.8639969 999.160513 1130.160492 854.8561702 986.3312942 983.3249239 1082.874555 860.5593296 1038.170529 0.75534091 0.959248957 0.962424269 1.088607757 0.82342558 0.950066744 0.947170909 1.043060388 0.828919051 1 10.01982772 -7.043098074 24.98348526 0.883036452 0.965633896 0.229826485 0.08651559 774.9551763 449231.5438 0.017997161 0.022042746 9.06E-08 7.043098074 0.082597445 DT(ph)SPSSGSAVSSSK ddPTM_HeLa_SAHA_4h_R1 4 DTSPSSGSAVSSSK 14 0 F8WF16;B7Z8L1;F8W6A0;F8W0Q9;Q8NEY8-5;Q8NEY8-6;Q8NEY8-9;Q8NEY8-8;Q8NEY8-2;Q8NEY8-3;Q8NEY8;Q8NEY8-7 F8WF16 PPHLN1 Periphilin-1 1 0 DT(0.987)S(0.013)PSSGSAVSSSK;DT(0.992)S(0.008)PSSGSAVSSSK;DT(0.917)S(0.079)PS(0.002)S(0.002)GSAVSSSK;DT(0.94)S(0.06)PSSGSAVSSSK ;;; 209.11 1.97E-12 866123600 9815.4 10706.97 8832.78 11459.25 11432.63 13513.2 12574.73 11602.02 12447.14 10107.72 TRUE FALSE FALSE 10847.82881 11053.88285 10036.46526 11681.06035 10556.66436 12361.79934 11159.78829 11305.25713 12360.51934 10543.51328 1.028862821 1.048406026 0.951909008 1.107890705 1.001247315 1.172455425 1.058450632 1.072247631 1.172334023 1 13.36406806 -5.895466775 1.582034127 1.013761413 1.089450901 0 0.070211782 0.318746429 1.604596141 0.007048679 0.015593068 1.27E-06 5.895466775 0.075689487 DTAAWTVGR ddPTM_HeLa_SAHA_4h_R1 2 DTAAWTVGR 9 0 Q14974;Q14974-2;J3KTM9;J3QKQ5 Q14974 KPNB1 Importin subunit beta-1 0 0 ; ; 143.28 0.0046057 16056900 1430.06 1505.96 1962.49 1543.06 1728.83 1588.42 1749.5 1694.22 1623.8 1434.77 FALSE FALSE TRUE 1580.480272 1554.754092 2229.927917 1572.928158 1596.367419 1453.07768 1552.641656 1650.884306 1612.499844 1496.629956 1.056026084 1.038836678 1.489966112 1.050980004 1.066641365 0.97089977 1.037425216 1.103067795 1.077420532 1 10.54750184 -6.966350143 24.99971684 1.02756028 1.117153603 0.069371191 0.133386927 360.1748946 267586.3644 0.021818855 0.028675527 1.08E-07 6.966350143 0.089593323 DTASLSTTPSES(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 DTASLSTTPSESPR 14 0 H0YJ30;G3V582;F5H039;Q9NQX3;Q9NQX3-2 H0YJ30 GPHN Gephyrin;Molybdopterin adenylyltransferase;Molybdopterin molybdenumtransferase 1 0 DTASLSTT(0.004)PS(0.007)ES(0.988)PR;DTASLSTTPS(0.001)ES(0.999)PR ; 227.92 3.14E-24 39807000 1553.13 1541.37 1471.2 1680.61 1779.48 1618.68 1545.01 2014.28 1775.39 1325.92 TRUE FALSE FALSE 1716.495339 1591.311399 1671.687474 1713.140637 1643.136627 1480.759358 1371.161409 1962.757634 1763.034916 1383.0869 1.241061093 1.150550554 1.208664093 1.238635574 1.188021249 1.070619176 0.991377627 1.419113748 1.274710155 1 10.43367609 -9.40507151 1.07584667 0.997690288 1.184140843 0 0.135731959 0.523469787 1.062178829 0.075083571 0.018145929 3.93E-10 9.40507151 0.186450555 DTCYS(ph)PKPSVYLSTPSSASK ddPTM_HeLa_SAHA_4h_R1 3 DTCYSPKPSVYLSTPSSASK 20 1 Q9Y5K6 Q9Y5K6 CD2AP CD2-associated protein 1 0 DT(0.266)CY(0.139)S(0.585)PKPS(0.009)VY(0.001)LSTPSSASK;DT(0.041)CY(0.148)S(0.745)PKPS(0.047)VY(0.012)LS(0.001)T(0.005)PSSASK;DT(0.061)CY(0.178)S(0.614)PKPS(0.05)VY(0.06)LS(0.013)T(0.017)PS(0.003)S(0.001)ASK ;; 57.366 0.013604 13662800 2318.99 2517.04 2408.46 2554 2849.88 2598.64 2811.91 2532.68 2643.87 2315.24 TRUE FALSE FALSE 2562.912008 2598.593747 2736.672386 2603.436363 2631.52281 2377.221252 2495.506486 2467.897713 2625.471093 2415.061327 1.06122026 1.075994932 1.1331689 1.078000105 1.089629808 0.98433163 1.033309779 1.021877865 1.087123985 1 11.23784411 -3.092569651 11.31257014 1.042895927 0.635346477 0 0.045559308 0 0 0.006555446 0 0.000808035 3.092569651 -0.40754945 DTCYSPKPS(ph)VYLSTPSSASK ddPTM_HeLa_SAHA_4h_R1 1 DTCYSPKPSVYLSTPSSASK 20 1 Q9Y5K6 Q9Y5K6 CD2AP CD2-associated protein 1 0 DT(0.027)CY(0.087)S(0.095)PKPS(0.548)VY(0.109)LS(0.021)T(0.104)PS(0.004)S(0.004)AS(0.001)K 49.528 0.022688 3316900 795.13 859.8 709.92 566.76 778.2 897.05 850.19 804.67 1040.6 576.61 TRUE FALSE FALSE 878.7654216 887.6580841 806.6642005 577.7304593 718.5744841 820.6162933 754.5243836 784.0877065 1033.35838 601.470479 1.46102835 1.47581322 1.341153438 0.960530034 1.194696181 1.364350075 1.254466196 1.30361794 1.718053364 1 9.232350119 -9.524744159 1.311759584 1.001730327 1.309002266 0 0.261878609 0.394589052 1.226476945 0.106065325 0.026033786 2.99E-10 9.524744159 0.307271939 DTDFEHR ddPTM_HeLa_SAHA_4h_R1 1 DTDFEHR 7 0 P17858;P17858-2 P17858 PFKL "ATP-dependent 6-phosphofructokinase, liver type" 0 0 93.195 0.0054611 0 2697.4 2589.6 2284.2 3442.1 3107.5 3326.2 3700.1 3414.7 3094.5 3252 FALSE FALSE TRUE 2981.124908 2673.504739 2595.47888 3508.726823 2869.404021 3042.789047 3283.75501 3327.356918 3072.965123 3392.209635 0.878815058 0.788130755 0.76512927 1.034348463 0.845880512 0.896993221 0.968028325 0.980881867 0.90588892 1 11.72800961 -3.266574886 14.65364843 0.921177482 44.26198196 0 0.086669244 0 0 0.012364795 0 0.000541284 3.266574886 43.34080448 DTDSEEEIR ddPTM_HeLa_SAHA_4h_R1 4 DTDSEEEIR 9 0 P0DP25;P0DP24;P0DP23;E7EMB3;G3V361;A0A590UJI2;Q96HY3;A0A590UJC0;G3V226 P0DP25 CALM2;CALM1 0 0 ;;; ;;; 209.87 1.16E-10 73780000 13058.7 15257.1 9782.6 12790.1 13338.1 17643.1 14250.4 12269.5 19292.6 12511.3 FALSE FALSE TRUE 14432.27398 15751.44005 11115.72178 13037.67088 12316.13766 16139.80862 12646.90749 11955.66396 19158.34123 13050.72337 1.105860079 1.206939999 0.851732235 0.998999865 0.943713027 1.236698393 0.969057969 0.916092052 1.467990753 1 13.67184215 -6.761346862 25 1.063157524 0.995334107 0.110729077 0.167003561 5.26429262 1422024.57 0.01767023 0.024094228 1.73E-07 6.761346862 -0.067823417 DTDSEEEIREAFR ddPTM_HeLa_SAHA_4h_R1 4 DTDSEEEIREAFR 13 1 P0DP25;P0DP24;P0DP23;E7EMB3;G3V361;A0A590UJI2;Q96HY3;A0A590UJC0;G3V226 P0DP25 CALM2;CALM1 0 0 ;;; ;;; 180.66 9.90E-06 314379500 6756.37 7452.85 7484.19 7366.3 8144.12 8127.03 8230.4 7636.77 7001.43 7447.98 FALSE FALSE TRUE 7467.035996 7694.32723 8504.096437 7508.885388 7520.119285 7434.561323 7304.293731 7441.432481 6952.706479 7769.098867 0.96111996 0.990375764 1.094605254 0.966506607 0.967952579 0.956939981 0.940172581 0.957824403 0.894918008 1 12.92353156 -6.015477793 24.97314102 0.991447606 0.95626501 0.098699097 0.046208197 981.3329602 1583363.831 0.005696516 0.009648238 9.65E-07 6.015477793 -0.035182596 DTEEPLPVKESDQTLAALLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 DTEEPLPVKESDQTLAALLSPK 22 1 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;H7C1M2 P18583-10 SON Protein SON 1 0 DTEEPLPVKESDQTLAALLS(1)PK;DTEEPLPVKESDQTLAALLS(1)PK ; 144.63 2.22E-06 56552000 3186.3 3200.8 3055.8 3228.4 2994 3689.7 3710.5 3407.2 2701.8 3483.7 TRUE FALSE FALSE 3521.449653 3304.50802 3472.22851 3290.89035 2764.600367 3375.316802 3292.984774 3320.048758 2682.997954 3633.899356 0.969055361 0.909355955 0.955510368 0.905608557 0.760780665 0.928841575 0.906184914 0.913632556 0.738324783 1 11.82730275 -7.064748404 0.895827295 0.991070427 0.883444998 0 0.092852595 0.336717562 0.537212378 0.010481929 0.013931978 8.61E-08 7.064748404 -0.107625429 DTGK(ac)TPVEPEVAIHR ddPTM_HeLa_SAHA_4h_R1 2 DTGKTPVEPEVAIHR 15 1 P60866;P60866-2;E5RIP1;E5RJX2 P60866 RPS20 40S ribosomal protein S20 0 1 ; DTGK(1)TPVEPEVAIHR;DTGK(1)TPVEPEVAIHR 164.66 2.11E-07 53216000 7203.9 9241.3 6538.5 8131.8 9361.6 9977.2 10093.9 10096.6 6048.7 4670.4 FALSE TRUE FALSE 7961.639255 9540.724183 7429.532729 8289.202748 8644.31623 9127.08643 8958.107806 9838.343592 6006.606604 4871.7638 1.634241638 1.958371665 1.525019076 1.701478784 1.774370964 1.873466532 1.838781224 2.019462354 1.232942903 1 12.25022847 -10.52422722 0.213028595 2.24E-10 1.975369955 0.780782573 0.144102445 3.431450846 0.134189671 1.842454556 0.141602948 2.99E-11 10.52422722 1.975369955 DTGKTPVEPEVAIHR ddPTM_HeLa_SAHA_4h_R1 2 DTGKTPVEPEVAIHR 15 1 P60866;P60866-2;E5RIP1;E5RJX2 P60866 RPS20 40S ribosomal protein S20 0 0 ; ; 125.47 0.00032428 13429600 23515 23353 22707 23622 24817 24964 25372 27642 19457.3 23214 FALSE FALSE TRUE 25988.41559 24109.65252 25801.39171 24079.23797 22915.52682 22836.92676 22517.07578 26934.95767 19321.89507 24214.86915 1.073242041 0.995654875 1.065518527 0.994398847 0.946341138 0.943095196 0.929886329 1.112331333 0.797935143 1 14.56360559 -6.044522596 7.546168217 1.033921844 0.975525351 0 0.09140729 0.31839037 47.91194696 0.008012952 0.013441739 9.03E-07 6.044522596 -0.058396493 DTGS(ph)PPASEGPTDGSR ddPTM_HeLa_SAHA_4h_R1 2 DTGSPPASEGPTDGSR 16 0 Q969R8 Q969R8 ITFG2 Integrin-alpha FG-GAP repeat-containing protein 2 1 0 DT(0.037)GS(0.959)PPAS(0.004)EGPTDGSR;DT(0.072)GS(0.923)PPAS(0.002)EGPT(0.002)DGSR ; 108.14 0.0021912 17345300 1665.61 1598.28 1770.16 1570.82 1827.51 1854.2 1950.32 1533.73 1762.9 1595.39 TRUE FALSE FALSE 1840.806502 1650.065321 2011.388186 1601.225493 1687.486579 1696.211729 1730.864861 1494.499407 1750.631835 1664.175071 1.10613753 0.991521475 1.208639777 0.962173704 1.014007846 1.019250774 1.040073783 0.898042179 1.051951725 1 10.7005915 DTHDQLSEPSEVR ddPTM_HeLa_SAHA_4h_R1 1 DTHDQLSEPSEVR 13 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 78.529 0.022421 2950300 580.8 738.54 664.29 696.19 785.51 415.07 828.97 758.94 686.46 774.02 FALSE FALSE TRUE 641.8912088 762.4691806 754.8159817 709.6657642 725.3243935 379.7037009 735.6921139 739.5274137 681.682869 807.3917902 0.795018251 0.944360829 0.934881913 0.878960838 0.898354928 0.470284322 0.911195931 0.915946165 0.844302453 1 9.657125107 -5.470274425 24.999927 0.904830355 0.764342894 0.190137205 0.126069181 426.4665214 202675.3584 0.018818342 0.04207875 3.39E-06 5.470274425 -0.140487462 DTIIDVVGAPLT(ph)PNSR ddPTM_HeLa_SAHA_4h_R1 4 DTIIDVVGAPLTPNSR 16 0 Q9NPF5 Q9NPF5 DMAP1 DNA methyltransferase 1-associated protein 1 1 0 DTIIDVVGAPLT(1)PNSR;DTIIDVVGAPLT(1)PNSR;DTIIDVVGAPLT(0.985)PNS(0.015)R;DTIIDVVGAPLT(0.986)PNS(0.014)R ;;; 225.37 4.20E-27 140441000 8622.9 11184.5 7790.4 11167.2 12459.3 12935.1 13050.4 12819.9 14560.6 10750.5 TRUE FALSE FALSE 9529.896185 11546.88514 8852.035141 11383.3573 11504.67113 11832.95671 11581.93465 12491.98552 14459.2716 11214.00667 0.849820806 1.029684169 0.789373094 1.015101707 1.025919769 1.055194371 1.032809681 1.113962734 1.289393883 1 13.45301421 -6.016606341 23.97605323 0.925828372 1.05079286 0 0.133347817 331.9318399 479240.826 0.011234241 0.018970318 9.62E-07 6.016606341 0.124964488 DTLVQGLNEAGDDLEAVAK ddPTM_HeLa_SAHA_4h_R1 1 DTLVQGLNEAGDDLEAVAK 19 0 E7ETZ4;Q9Y6E2;E9PFE3;C9JF98;F8WDX8;E7EMS9;Q75MG1;Q9Y6E2-2 E7ETZ4 BZW2 Basic leucine zipper and W2 domain-containing protein 2 0 0 134.88 8.08E-07 0 324.48 399.95 299.22 367.5 330.28 429.97 472.41 397.22 249.87 406.2 FALSE FALSE TRUE 358.6102952 412.9086424 339.9961433 374.6134939 304.9740178 393.3341371 419.2531835 387.0596876 248.1311343 423.7132699 0.846351343 0.974500144 0.802420333 0.884120278 0.719765085 0.928302616 0.98947381 0.913494372 0.585610959 1 8.726944502 -9.404621383 0.970545215 1.004803096 0.879369734 0 0.150047008 0.690646655 1.089388677 0.063948689 0.013934248 3.94E-10 9.404621383 -0.125433362 DTMSDQALEALS(ph)ASLGTR ddPTM_HeLa_SAHA_4h_R1 2 DTMSDQALEALSASLGTR 18 0 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;F8W7E0;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;P20810-2;E9PCH5;P20810-3;H0Y7F0;H0Y9H6 P20810-6 CAST Calpastatin 1 0 DTMSDQALEALS(0.594)AS(0.395)LGT(0.011)R;DTMSDQALEALS(0.95)AS(0.019)LGT(0.031)R ; 147.64 0.00010761 9965700 553.79 635.99 520.37 611.55 1040.8 1011.13 932.31 1059.49 557 677.67 TRUE FALSE FALSE 612.0401731 656.5964933 591.2833136 623.3874346 961.0541289 924.9760355 827.4040251 1032.38978 553.1237916 706.8876701 0.865823806 0.92885549 0.836460075 0.881876231 1.359557069 1.308519125 1.170488693 1.460472185 0.782477634 1 9.465337168 -5.761983892 24.99999885 0.922744141 1.312579975 0.847919534 0.090730926 4.183694693 192098.9021 0.012466427 0.023631766 1.73E-06 5.761983892 0.389835834 DTMSDQALEALSASLGT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 DTMSDQALEALSASLGTR 18 0 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;F8W7E0;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;P20810-2;E9PCH5;P20810-3;H0Y7F0;H0Y9H6 P20810-6 CAST Calpastatin 1 0 DTMSDQALEALS(0.038)AS(0.451)LGT(0.512)R 148.19 0.00017853 4674700 422.04 405.48 330.56 629.4 644.95 656.96 522.37 460.09 409.38 513.72 TRUE FALSE FALSE 466.4321036 418.617818 375.6069953 641.5829471 595.5340703 600.983312 463.5915528 448.321564 406.5310912 535.8689833 0.870421909 0.781194342 0.700930651 1.197275765 1.111342677 1.121511658 0.865121079 0.836625328 0.758638966 1 9.065736503 -6.250768451 24.97836892 0.906708263 1.027422477 0.257482392 0.140546638 1139.121661 2666439.318 0.022302135 0.036744139 5.61E-07 6.250768451 0.120714215 DTNGENIAESLVAEGLATR ddPTM_HeLa_SAHA_4h_R1 2 DTNGENIAESLVAEGLATR 19 0 Q7KZF4 Q7KZF4 SND1 Staphylococcal nuclease domain-containing protein 1 0 0 ; ; 286.57 9.71E-77 11811200 1076.33 786.26 924.94 857.14 991.54 1178.1 1037.49 1212.7 1018.67 1002.76 FALSE FALSE TRUE 1189.543328 811.7353399 1050.986006 873.7311841 915.5684194 1077.719252 920.7488947 1181.68089 1011.580993 1045.993891 1.137237357 0.776042142 1.004772605 0.835311938 0.875309528 1.03033035 0.880262211 1.129720642 0.967100287 1 10.03065871 -7.286858497 24.98921399 1.064806527 0.93158593 0.14427015 0.106122792 732.3273725 719939.7559 0.017279093 0.019763218 5.17E-08 7.286858497 -0.133220597 DTNGSQFFITTVK ddPTM_HeLa_SAHA_4h_R1 2 DTNGSQFFITTVK 13 0 P23284 P23284 PPIB Peptidyl-prolyl cis-trans isomerase B 0 0 ; ; 203.88 1.13E-23 3544400 999.76 1390.73 1152.37 989.79 1146.67 1355.41 1475.12 1188.88 1115.06 1152.15 FALSE FALSE TRUE 1104.919344 1435.790564 1309.408982 1008.948817 1058.812392 1239.921443 1309.135615 1158.470171 1107.300207 1201.824825 0.919368048 1.194675409 1.089517337 0.839514042 0.881003929 1.031698977 1.089289877 0.963925979 0.921349088 1 10.23101091 -5.049439092 24.90755032 0.974058639 1.035079967 0.047096532 0.101591247 795.2202648 400634.0081 0.014848334 0.037856932 8.92E-06 5.049439092 0.061021328 DTPGHGSGWAET(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 DTPGHGSGWAETPR 14 0 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 DTPGHGS(0.001)GWAET(0.999)PR 79.347 0.020021 2477500 1509.5 1764.3 1628.8 1797.7 1725.9 2601.2 1725.4 2084.3 2102.3 1897.5 TRUE FALSE FALSE 1668.276136 1821.464478 1850.764382 1832.497083 1593.661915 2379.563126 1531.253451 2030.986624 2087.669923 1979.310511 0.84285721 0.920252011 0.935055097 0.925825975 0.805160133 1.202218203 0.773629727 1.026108138 1.05474604 1 10.95078224 DTPRPDHPPHDGHS(ph)PASR ddPTM_HeLa_SAHA_4h_R1 1 DTPRPDHPPHDGHSPASR 18 1 Q9C0J8 Q9C0J8 WDR33 pre-mRNA 3 end processing protein WDR33 1 0 DT(0.003)PRPDHPPHDGHS(0.498)PAS(0.498)R 67.214 0.0099325 435620 255.26 626.6 367.15 611.38 657.3 647.87 713.92 633.03 552.6 749.68 TRUE FALSE FALSE 282.109418 646.9022511 417.18329 623.214144 606.937816 592.6678312 633.5878427 616.8380092 548.7544116 782.0023736 0.360752636 0.827238219 0.533480849 0.796946614 0.776132959 0.757884952 0.810212173 0.788793014 0.701729854 1 9.611029176 DTPTSAGPNSFNK ddPTM_HeLa_SAHA_4h_R1 1 DTPTSAGPNSFNK 13 0 Q8WW12;Q8WW12-3 Q8WW12 PCNP PEST proteolytic signal-containing nuclear protein 0 0 112.83 0.012417 2070800 600.77 582.68 586.69 614.76 418.78 630.61 550.1 609.24 546.87 450.6 FALSE FALSE TRUE 663.961745 601.5592143 666.6410578 626.6595688 386.6931669 576.8784803 488.2013002 593.656523 543.0642871 470.0275712 1.412601698 1.279838144 1.418302029 1.333240021 0.822703157 1.227329024 1.03866524 1.263024893 1.155388153 1 8.876601576 DTQK(ac)HAALR ddPTM_HeLa_SAHA_4h_R1 2 DTQKHAALR 9 1 E7EPB1;E7EQS8;Q6N021-2;Q6N021-3;Q6N021 E7EPB1 TET2 Methylcytosine dioxygenase TET2 0 1 ; DTQK(1)HAALR;DTQK(1)HAALR 118.71 0.0042998 595900 403.67 733.73 628.15 636.09 915.04 932.4 1008.84 503.86 562.42 467.98 FALSE TRUE FALSE 446.1298627 757.5033334 713.7510107 648.4024418 844.9298329 852.9542745 895.3226681 490.9719908 558.5060734 488.156908 0.913906687 1.551761987 1.462134406 1.328266447 1.730857065 1.747295307 1.834087879 1.005766758 1.144111789 1 8.931201137 -7.259318806 24.88547206 0.959344818 1.541659656 0.489904389 0.232507301 85.95157267 1008664.53 0.03645362 0.043490359 5.50E-08 7.259318806 0.582314838 DTQSGSLLFIGR ddPTM_HeLa_SAHA_4h_R1 1 DTQSGSLLFIGR 12 0 P50454;E9PKH2;H0YEP8 P50454 SERPINH1 Serpin H1 0 0 148.78 0.0024283 17255000 834.48 733.74 845.95 786.46 995.05 1043.7 935.21 633.47 661.61 1096.4 FALSE FALSE TRUE 922.2544351 757.5136574 961.2316605 801.6830705 918.809484 954.7708883 829.9777095 617.2667547 657.0058021 1143.67117 0.806398255 0.662352674 0.840479052 0.700973402 0.803386068 0.8348299 0.725713589 0.539723979 0.574470897 1 10.15945659 -13.52287875 0.122837675 1.916278579 0.611314438 0 0.157869956 42.61257408 0.376136915 9.526124347 0.360513273 3.00E-14 13.52287875 -1.304964141 DTS(ph)GLER ddPTM_HeLa_SAHA_4h_R1 1 DTSGLER 7 0 Q9H307 Q9H307 PNN Pinin 1 0 DT(0.224)S(0.776)GLER 85.862 0.023476 34933000 4152 4617 3241.2 4816.9 6260.4 9317.5 6058.7 5431.5 5200.7 7135.9 TRUE FALSE FALSE 4588.72641 4766.593829 3682.893857 4910.138065 5780.729504 8523.596581 5376.95913 5292.570095 5164.507905 7443.563571 0.616469029 0.640364495 0.49477563 0.659648839 0.776607797 1.14509623 0.722363567 0.711026385 0.693821965 1 12.86177775 -4.558258153 24.99834045 0.787668517 0.713855892 0 0.183019062 680.4346971 480779.3207 0.030151287 0.112816466 2.77E-05 4.558258153 -0.073812625 DTS(ph)PSSGSAVSSSK ddPTM_HeLa_SAHA_4h_R1 5 DTSPSSGSAVSSSK 14 0 F8WF16;B7Z8L1;F8W6A0;F8W0Q9;Q8NEY8-5;Q8NEY8-6;Q8NEY8-9;Q8NEY8-8;Q8NEY8-2;Q8NEY8-3;Q8NEY8;Q8NEY8-7 F8WF16 PPHLN1 Periphilin-1 1 0 DT(0.197)S(0.792)PS(0.01)S(0.001)GSAVSSSK;DT(0.295)S(0.705)PSSGSAVSSSK;DT(0.122)S(0.877)PS(0.001)SGSAVSSSK;DT(0.076)S(0.924)PSSGSAVSSSK;DT(0.069)S(0.931)PSSGSAVSSSK ;;;; 247.73 2.05E-33 942389300 13912.5 14868.4 11966.9 15205.9 15842 17235.2 16900.2 16581.9 17134 13939.1 TRUE FALSE FALSE 15375.88058 15350.14592 13597.68681 15500.23218 14628.18938 15766.664 14998.54502 16157.75901 17014.7631 14540.08282 1.057482325 1.055712413 0.935186338 1.066034656 1.006059564 1.08435861 1.031530921 1.111256326 1.170197124 1 13.82774787 -1.000000013 0.660767352 1.024820513 8.690185057 0.021736338 0.060687634 224.176805 1.289478299 0.006711002 2524.543535 0.099999997 1.000000013 7.665364544 DTSATSQSVNGS(ph)PQAEQPSLESTSK ddPTM_HeLa_SAHA_4h_R1 2 DTSATSQSVNGSPQAEQPSLESTSK 25 0 C9J0I9;Q86WB0-2;Q86WB0;Q86WB0-3;F8WAU5 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 DTSATSQS(0.001)VNGS(0.999)PQAEQPSLESTSK;DTSATSQS(0.003)VNGS(0.997)PQAEQPSLESTSK ; 163.01 1.13E-10 13626400 3331.4 4326.9 3856.6 3533.5 4499 4680.2 4328.5 3921.1 4364.1 4125.3 TRUE FALSE FALSE 3681.811937 4467.094399 4382.157364 3601.896002 4154.287592 4281.42063 3841.445788 3820.80394 4333.729873 4303.161872 0.855606191 1.038095831 1.018357546 0.837034745 0.965403514 0.994947612 0.892703064 0.887906161 1.007103614 1 12.0711814 -4.570899831 23.89952823 0.94325818 0.88910527 0.105584591 0.066377638 131.6956391 65542.93272 0.010113961 0.037843025 2.69E-05 4.570899831 -0.054152911 DTSFLGSDDIGNIDVREPELEDLTR ddPTM_HeLa_SAHA_4h_R1 2 DTSFLGSDDIGNIDVREPELEDLTR 25 1 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 0 0 ; ; 121.35 1.85E-07 4844300 584.49 770.47 794.94 873.3 1151.63 1153.87 946.63 1039.04 663.35 745.69 FALSE FALSE TRUE 645.9693399 795.4337335 903.2702833 890.2039843 1063.392358 1055.553785 840.112701 1012.462861 658.7336933 777.8403452 0.830465203 1.022618251 1.161254091 1.144455915 1.367108771 1.357031415 1.080058017 1.301633256 0.846875194 1 9.603330257 -6.688064373 1.788729509 0.919997409 1.254574676 0.738143965 0.093752142 0.143797112 0.938302908 0.017379564 0.025902633 2.05E-07 6.688064373 0.334577267 DTSFTVCPDVPRT(ph)PVGK ddPTM_HeLa_SAHA_4h_R1 1 DTSFTVCPDVPRTPVGK 17 1 D6RJC2;P30307-4;P30307-3;P30307-2;P30307;D6RD20;A0A3B3IT42 D6RJC2 CDC25C M-phase inducer phosphatase 3 1 0 DTSFTVCPDVPRT(0.999)PVGK 146.67 4.23E-09 0 305.25 280.1 305.69 217.57 272.76 279.61 411.12 374.21 371.69 342.61 TRUE FALSE FALSE 337.3575955 289.1754238 347.3478412 221.781382 251.8611877 255.785655 364.8596956 364.63825 369.103379 357.3815938 0.943970259 0.8091503 0.97192426 0.62057304 0.704740233 0.715721401 1.020924698 1.020305064 1.032799074 1 8.481321523 -7.402497153 1.329759219 0.982421154 0.826490326 0.223994946 0.130571085 0.482470909 1.664412669 0.027976843 0.031274974 3.96E-08 7.402497153 -0.155930828 DTSGGIDLGEEQHPLGT(ph)PTPGR ddPTM_HeLa_SAHA_4h_R1 1 DTSGGIDLGEEQHPLGTPTPGR 22 0 Q9UIF8-4;Q9UIF8-2;Q9UIF8-5;Q9UIF8-3;Q9UIF8 Q9UIF8-4 BAZ2B Bromodomain adjacent to zinc finger domain protein 2B 1 0 DTSGGIDLGEEQHPLGT(0.819)PT(0.181)PGR 107.34 0.00013105 8796400 1254.4 1092.8 902.67 1351.6 1158 1382.5 1388 1351.3 1196.2 1035.2 TRUE FALSE FALSE 1386.343547 1128.207437 1025.681167 1377.762172 1069.27429 1264.703222 1231.818587 1316.735703 1187.875547 1079.832538 1.283850503 1.044798519 0.949852065 1.275903553 0.990222328 1.171203106 1.140749647 1.2193888 1.100055337 1 10.07659188 -9.72066892 1.636276774 1.000103862 1.153637739 0.036945405 0.112008278 0.501552514 2.427579261 0.081581933 0.01789577 1.90E-10 9.72066892 0.153533877 DTSLGS(ph)PKESENALPIQVDYDAYDAQVFR ddPTM_HeLa_SAHA_4h_R1 1 DTSLGSPKESENALPIQVDYDAYDAQVFR 29 1 A0A2R8Y5P2;A0A2R8Y842;A0A2R8Y7U0;H0Y770;A0A2R8Y6H3;A0A2R8Y721;A0A2R8Y5K9;A0A2R8YEW8;A0A5F9UWT1;A0A2R8Y5T1;A0A2R8Y6V4;A0A2R8Y7U6;A0A2R8Y5E9;A0A2R8YF97;A0A2R8Y6H8;A0A2R8YF50;O75140-6;O75140-2;O75140-8;O75140-5;O75140-1;O75140-4;O75140-9;O75140 A0A2R8Y5P2 DEPDC5 DEP domain-containing protein 5 1 0 DT(0.09)S(0.273)LGS(0.572)PKES(0.062)ENALPIQVDY(0.002)DAY(0.001)DAQVFR 50.556 0.0078858 4389100 578.6 581.39 621.96 409.92 529.42 605.32 896.09 812.72 585.95 585.25 TRUE FALSE FALSE 639.4598027 600.2274175 706.7174698 417.8545944 488.855954 553.7433306 795.2595948 791.9317992 581.8723262 610.4829916 1.047465386 0.983200885 1.157636625 0.684465579 0.800769163 0.907057753 1.302672811 1.297221725 0.953134378 1 9.253807291 -4.753180051 24.98612133 0.983568556 1.29994746 0.537943311 0.128189652 119.5588067 361680.4576 0.018880869 0.068298404 1.77E-05 4.753180051 0.316378904 DTSS(ph)SPTTGSTVQSVDLIFTR ddPTM_HeLa_SAHA_4h_R1 1 DTSSSPTTGSTVQSVDLIFTR 21 0 P57060 P57060 RWDD2B RWD domain-containing protein 2B 1 0 DTS(0.014)S(0.479)S(0.479)PT(0.028)T(0.001)GSTVQSVDLIFTR 271.73 1.06E-65 7465000 932.99 1053.5 1088.8 1559.2 1063 1439.7 1150.1 1293.9 1153.2 865.96 TRUE FALSE FALSE 1031.126169 1087.634091 1237.175994 1589.380571 981.5531696 1317.02946 1020.687721 1260.803912 1145.174787 903.2957735 1.141515547 1.204073044 1.369624469 1.759535046 1.086635406 1.458026816 1.129959589 1.395781923 1.26777388 1 9.819054648 -7.257642497 1.491218172 1.052997028 1.360855707 0.204095682 0.18850513 0.290467969 1.231064168 0.033114525 0.039357363 5.53E-08 7.257642497 0.307858679 DTSSITSCGDGNVVKQEQLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 DTSSITSCGDGNVVKQEQLSPK 22 1 Q9Y6Q9-2;Q9Y6Q9-3;Q9Y6Q9-5;Q9Y6Q9;Q9Y6Q9-4 Q9Y6Q9-2 NCOA3 Nuclear receptor coactivator 3 1 0 DTSSITSCGDGNVVKQEQLS(1)PK;DTSSITSCGDGNVVKQEQLS(1)PK ; 112.28 4.14E-05 27813000 2630.8 1610.56 2538.5 2296.58 1930.22 2046.09 2314.88 2970.7 1329.95 1770.05 TRUE FALSE FALSE 2907.519615 1662.743201 2884.43356 2341.033627 1782.326961 1871.751621 2054.40361 2894.713796 1320.69477 1846.365518 1.574725907 0.900549314 1.562222394 1.267914508 0.965316425 1.013749229 1.112674381 1.567790217 0.715294321 1 10.85047247 -5.936225924 24.99634346 1.270960201 1.146139994 0 0.304241489 188.5197648 73888.50821 0.042239085 0.076564842 1.16E-06 5.936225924 -0.124820208 DTSSSPT(ph)TGSTVQSVDLIFTR ddPTM_HeLa_SAHA_4h_R1 1 DTSSSPTTGSTVQSVDLIFTR 21 0 P57060 P57060 RWDD2B RWD domain-containing protein 2B 1 0 DTS(0.002)S(0.071)S(0.38)PT(0.395)T(0.097)GS(0.025)T(0.025)VQS(0.005)VDLIFTR 103.3 0.00042024 8655600 476.19 532.95 503.14 687.42 759.21 714.08 671.72 873.05 954.4 662.54 TRUE FALSE FALSE 526.277849 550.2179297 571.705299 700.7260081 701.0394938 653.2363667 596.1362977 850.7186452 947.7582527 691.1053418 0.761501637 0.796141914 0.827233222 1.013920695 1.014374295 0.945205206 0.862583837 1.230953653 1.371365833 1 9.43276182 -6.252294944 24.22839593 0.872120382 1.001293141 0 0.190022095 549.5603033 1456070.278 0.018783245 0.030843701 5.59E-07 6.252294944 0.12917276 DTT(ph)SPMELAALEK ddPTM_HeLa_SAHA_4h_R1 1 DTTSPMELAALEK 13 0 Q6VY07-2;Q6VY07 Q6VY07-2 PACS1 Phosphofurin acidic cluster sorting protein 1 1 0 DT(0.004)T(0.622)S(0.373)PMELAALEK 183.89 2.01E-06 6560400 1587.7 2002.4 1440 1490.6 1934.3 2430 1554.1 1768.1 2086.3 1469.7 TRUE FALSE FALSE 1754.701571 2067.279074 1636.235701 1519.452718 1786.094352 2222.950329 1379.228578 1722.874562 2071.781268 1533.06596 1.144570173 1.34846062 1.067296349 0.991120251 1.165047297 1.450003058 0.899653775 1.123809808 1.351397346 1 10.58220405 -8.969523471 0.949832194 1.005944254 1.147318209 0 0.184931648 0.894025837 1.547591424 0.077405724 0.02868589 1.07E-09 8.969523471 0.141373955 DTTKLEPAS(ph)PPEDTSAEVSR ddPTM_HeLa_SAHA_4h_R1 3 DTTKLEPASPPEDTSAEVSR 20 1 E9PFE2;Q9UHL9-2;Q9UHL9;Q9UHL9-3 E9PFE2 GTF2IRD1 General transcription factor II-I repeat domain-containing protein 1 1 0 DT(0.004)T(0.006)KLEPAS(0.943)PPEDT(0.021)S(0.021)AEVS(0.004)R;DTT(0.001)KLEPAS(0.994)PPEDT(0.003)S(0.001)AEVSR;DT(0.003)T(0.068)KLEPAS(0.929)PPEDTSAEVSR ;; 127.3 5.02E-05 58782500 5195.5 4097.4 4421.5 5325.8 5276.5 5270.6 6162.1 6493.2 4121.9 4664.9 TRUE FALSE FALSE 5741.986528 4230.158448 5024.038994 5428.88856 4872.21571 4821.515228 5468.72429 6327.113346 4093.215362 4866.026668 1.180015425 0.869324962 1.032472556 1.115671765 1.001271888 0.990852611 1.123858265 1.300262776 0.841182271 1 12.24852851 -4.327132457 3.243171604 1.058657709 1.318226817 0.346948394 0.106606523 0.233600967 3.945566832 0.013226045 0.137100775 4.71E-05 4.327132457 0.259569108 DTTS(ph)PMELAALEK ddPTM_HeLa_SAHA_4h_R1 3 DTTSPMELAALEK 13 0 Q6VY07-2;Q6VY07 Q6VY07-2 PACS1 Phosphofurin acidic cluster sorting protein 1 1 0 DTT(0.189)S(0.811)PMELAALEK;DT(0.004)T(0.041)S(0.954)PMELAALEK;DT(0.001)T(0.039)S(0.96)PMELAALEK ;; 145.81 2.65E-07 9310700 5021.96 6047.02 4395.4 5250.28 7092.61 7039.46 6079.63 5987.82 7508.77 6272.48 TRUE FALSE FALSE 5550.192794 6242.947416 4994.382222 5351.906761 6549.175754 6439.658405 5395.534032 5834.660235 7456.515858 6542.91731 0.848274941 0.954153495 0.763326508 0.817969494 1.000956522 0.984218216 0.824637356 0.891752098 1.139631682 1 12.67571832 -9.403927791 1.056457443 1.001958738 0.883535468 0.368171221 0.085763331 0.615178133 1.195054187 0.055636812 0.013224551 3.95E-10 9.403927791 -0.11842327 DTVATQLSEAVDATR ddPTM_HeLa_SAHA_4h_R1 1 DTVATQLSEAVDATR 15 0 O60664-4;O60664-3;O60664;K7EL96;K7ERZ3 O60664-4 PLIN3 Perilipin-3 0 0 137.8 0.0010713 2469500 396.86 415.75 585.88 521.56 518.65 572.58 603.03 558.77 550.64 406.28 FALSE FALSE TRUE 438.6035557 429.2205728 665.7206753 531.655548 478.911149 523.7929628 535.1754773 544.4774725 546.8080514 423.7967191 1.034938535 1.012798244 1.570849054 1.25450605 1.130049213 1.235953322 1.262811752 1.284760943 1.290260228 1 8.727228609 -6.890961609 22.01281925 1.016632241 1.278517433 0.306276533 0.136265275 2.016046082 398.0828533 0.016684967 0.021928357 1.29E-07 6.890961609 0.261885191 DTVDPVQDEMLAR ddPTM_HeLa_SAHA_4h_R1 4 DTVDPVQDEMLAR 13 0 P49736;H0Y8E6 P49736 MCM2 DNA replication licensing factor MCM2 0 0 ;;; ;;; 191.4 2.51E-16 11450400 5586.64 5134.05 4508.74 5276.97 5668.4 5782.3 5632.12 5161.29 5592.74 5259.77 FALSE FALSE TRUE 6174.268428 5300.396589 5123.167607 5379.113385 5234.088417 5289.61551 4998.379035 5029.271675 5553.819667 5486.544425 1.125347386 0.966071935 0.933769457 0.98041918 0.953986337 0.964106931 0.911024982 0.916655601 1.01226186 1 12.42168207 -7.10403094 6.451656723 1.059037296 0.945362053 0.596883762 0.03727402 0.13891863 7.429138828 0.008290421 0.01018846 7.87E-08 7.10403094 -0.113675243 DVAEVDTVR ddPTM_HeLa_SAHA_4h_R1 1 DVAEVDTVR 9 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 122.33 0.019653 3115100 1472.3 1858.2 1430.6 1455.9 1547.7 1826.1 1719.7 1733.2 1626.4 1742.1 FALSE FALSE TRUE 1627.163269 1918.406899 1625.554718 1484.08105 1429.11556 1670.506007 1526.19483 1688.867254 1615.08175 1817.210457 0.895418174 1.055687795 0.894532998 0.816680888 0.78643371 0.919269422 0.839855849 0.929373506 0.888769787 1 10.8275098 -6.531804998 24.99515649 0.957971703 0.856580643 0.389593661 0.060031364 154.1961399 431776.5283 0.009589017 0.013572083 2.94E-07 6.531804998 -0.10139106 DVAEVDTVRR ddPTM_HeLa_SAHA_4h_R1 2 DVAEVDTVRR 10 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 167.09 0.00027263 21341000 6270 5816.1 6217.4 7016.2 6868.2 7265.5 6290.1 6854.4 5536.5 6196.4 FALSE FALSE TRUE 6929.507368 6004.545456 7064.674893 7152.008697 6341.96 6646.438525 5582.321393 6679.074373 5497.971046 6463.557128 1.072088825 0.928984665 1.093001076 1.1065128 0.981187274 1.028294234 0.863660873 1.033343442 0.85061073 1 12.65811264 -4.949253539 24.89597075 1.03267848 0.947870582 0.007731921 0.085241236 104.5509072 51290.882 0.00840021 0.025200629 1.12E-05 4.949253539 -0.084807898 DVCTELLPLIKPQGR ddPTM_HeLa_SAHA_4h_R1 2 DVCTELLPLIKPQGR 15 1 P16152 P16152 CBR1 Carbonyl reductase [NADPH] 1 0 0 ; ; 144.51 4.49E-05 1831530 642.68 727.69 620.98 900.97 774.91 960.9 902.58 683.55 880.57 1134.23 FALSE FALSE TRUE 710.2800311 751.2676335 705.6039205 918.4095772 715.5365632 879.0259141 801.0193229 666.0657808 874.4420417 1183.132206 0.600338684 0.634981982 0.596386369 0.776252707 0.604781579 0.74296508 0.677032811 0.562968177 0.739090726 1 10.20839558 -9.271893144 0.878284985 1.011936399 0.651173331 0.324661969 0.101327247 0.211114757 0.277055614 0.051229463 0.012245882 5.35E-10 9.271893144 -0.360763068 DVDAS(ph)PSPLSVQDLK ddPTM_HeLa_SAHA_4h_R1 1 DVDASPSPLSVQDLK 15 0 Q8IWZ8 Q8IWZ8 SUGP1 SURP and G-patch domain-containing protein 1 1 0 DVDAS(0.96)PS(0.04)PLS(0.001)VQDLK 186.08 8.49E-09 5769100 3491.5 3721.9 3477.1 3404.7 4765.4 4068.7 4032.1 3436.3 3898.2 3784.7 TRUE FALSE FALSE 3858.75199 3842.492002 3950.94108 3470.602892 4400.276082 3722.02387 3578.397496 3348.404422 3871.072109 3947.876939 0.977424588 0.973305922 1.000776149 0.879106149 1.11459302 0.942791259 0.906410598 0.848153191 0.980545283 1 11.9468613 -4.708542988 2.55158796 0.988292131 0.859921554 0.40506331 0.054667356 0.196093677 2.43553109 0.006954658 0.035958187 1.96E-05 4.708542988 -0.128370577 DVDASPS(ph)PLSVQDLK ddPTM_HeLa_SAHA_4h_R1 2 DVDASPSPLSVQDLK 15 0 Q8IWZ8 Q8IWZ8 SUGP1 SURP and G-patch domain-containing protein 1 1 0 DVDAS(0.197)PS(0.803)PLSVQDLK;DVDAS(0.102)PS(0.897)PLS(0.001)VQDLK ; 213.69 1.23E-17 17893600 6741.2 6204.5 6306.2 6008.3 6874.7 7291.2 7640.5 6455.4 6493.9 6580.6 TRUE FALSE FALSE 7450.270346 6405.529871 7165.576095 6124.599335 6347.961971 6669.948741 6780.770831 6290.280215 6448.708421 6864.321871 1.085361451 0.933162808 1.043886961 0.892236619 0.924776269 0.971683564 0.987828217 0.916373144 0.939453094 1 12.74490149 -7.251672052 24.81664119 1.040309574 0.955009782 0.100420251 0.054685829 457.9382799 1163522.004 0.00818191 0.009950472 5.60E-08 7.251672052 -0.085299792 DVDDDGEEKELMER ddPTM_HeLa_SAHA_4h_R1 1 DVDDDGEEKELMER 14 1 Q8NE71;Q5STZ8;Q8NE71-2;A0A0G2JIC2 Q8NE71 ABCF1 ATP-binding cassette sub-family F member 1 0 0 165.51 1.14E-05 11785000 2321.9 1475.5 1349.8 1863.9 1743.6 2084.8 1860.1 2388.3 1739.4 1779.2 FALSE FALSE TRUE 2566.128095 1523.307168 1533.743715 1899.97848 1610.005745 1907.163311 1650.796652 2327.210744 1727.295374 1855.910019 1.382679154 0.820787189 0.826410601 1.023744934 0.867502049 1.027616259 0.889480975 1.253945892 0.930699956 1 10.85791105 -7.250363386 24.96923448 1.180709603 0.952431485 0.087500215 0.167925307 727.6420359 1640365.057 0.02980333 0.036314449 5.62E-08 7.250363386 -0.228278118 DVDDFFEHER ddPTM_HeLa_SAHA_4h_R1 4 DVDDFFEHER 10 0 G3V5X9;A0A0A0MRI2;Q9UNH7-2;Q9UNH7 G3V5X9 SNX6 "Sorting nexin-6;Sorting nexin-6, N-terminally processed" 0 0 ;;; ;;; 187.16 1.28E-06 42671400 18114.3 20253.5 17830.3 21082.7 23860.4 27022.2 23323.3 16790.6 27750.8 20644.5 FALSE FALSE TRUE 20019.64519 20909.72669 20260.12043 21490.78614 22032.22131 24719.75654 20698.9009 16361.12076 27557.67992 21534.58543 0.929650829 0.97098348 0.94081776 0.997966096 1.023108682 1.147909563 0.961193378 0.759760192 1.279694007 1 14.39436793 -4.99276652 0.0021278 1.930873134 5.09E-06 0 0.131318687 966005.6307 422.4420995 189465.4003 193895.2896 1.02E-05 4.99276652 -1.930868042 DVDDGSGSPHS(ph)PHQLSSK ddPTM_HeLa_SAHA_4h_R1 3 DVDDGSGSPHSPHQLSSK 18 0 F5GWT4;Q9H4A3-2;Q9H4A3;Q9H4A3-5;Q9H4A3-6;Q9H4A3-7;Q9H4A3-4 F5GWT4 WNK1 Serine/threonine-protein kinase WNK1 1 0 DVDDGSGS(0.003)PHS(0.997)PHQLSSK;DVDDGS(0.005)GS(0.011)PHS(0.985)PHQLSSK;DVDDGSGS(0.008)PHS(0.992)PHQLSSK ;; 89.917 0.0024395 19675100 3426.5 5235.6 2697.15 5010.6 7244 9816.4 6332.6 8915.9 5151.8 5585 TRUE FALSE FALSE 3786.914991 5405.236875 3064.703556 5107.587408 6688.966285 8979.987494 5620.039182 8687.844188 5115.948204 5825.796682 0.650025258 0.927810765 0.526057417 0.876719132 1.148163359 1.541417935 0.964681654 1.491271437 0.878154265 1 12.50823964 -5.688765571 3.479718716 0.814052379 1.30111094 0.603126539 0.193151856 0.135446246 3.270756552 0.0298579 0.061750836 2.05E-06 5.688765571 0.48705856 DVDEIEAWISEK ddPTM_HeLa_SAHA_4h_R1 2 DVDEIEAWISEK 12 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 ; ; 260.59 3.88E-41 15242200 4765.6 5333.3 5005.2 4783.1 5192 5415.3 5409.9 4843.6 5558.1 5113.5 FALSE FALSE TRUE 5266.867673 5506.102419 5687.28259 4875.683817 4794.190082 4953.885974 4801.163814 4719.707725 5519.42073 5333.96801 0.987420184 1.032271361 1.066238601 0.914081938 0.898803681 0.928743098 0.9001111 0.884839901 1.034768247 1 12.38099346 -6.139023901 7.543397116 1.002239827 0.905043705 0.81807554 0.027075031 0.098541637 5.694781849 0.004061163 0.006755782 7.26E-07 6.139023901 -0.097196122 DVDELPSLQPSVGS(ph)PSRPSSSR ddPTM_HeLa_SAHA_4h_R1 2 DVDELPSLQPSVGSPSRPSSSR 22 1 O43815-2;O43815 O43815-2 STRN Striatin 1 0 DVDELPSLQPS(0.067)VGS(0.522)PS(0.289)RPS(0.041)S(0.067)S(0.015)R;DVDELPSLQPS(0.003)VGS(0.497)PS(0.497)RPS(0.001)S(0.002)SR ; 157.62 1.48E-07 52773000 3452.4 3848.6 3540.3 3589.4 4408.1 4241.9 4369.2 3623.5 4713.3 3753.7 TRUE FALSE FALSE 3815.539272 3973.297165 4022.753647 3658.878027 4070.35233 3880.466256 3877.566117 3530.816117 4680.499762 3915.540377 0.974460459 1.014750656 1.027381475 0.934450338 1.039537826 0.991042329 0.990301655 0.901744275 1.195364959 1 11.93499571 -4.261223533 6.15578263 0.992407338 0.899507306 0.11132682 0.069911455 0.079278838 15.40484286 0.003582535 0.030596013 5.48E-05 4.261223533 -0.092900032 DVDELPSLQPSVGSPS(ph)RPSSSR ddPTM_HeLa_SAHA_4h_R1 2 DVDELPSLQPSVGSPSRPSSSR 22 1 O43815-2;O43815 O43815-2 STRN Striatin 1 0 DVDELPSLQPS(0.218)VGS(0.139)PS(0.59)RPS(0.02)S(0.02)S(0.013)R;DVDELPSLQPS(0.212)VGS(0.129)PS(0.546)RPS(0.024)S(0.045)S(0.045)R ; 99.378 0.00012009 35765000 1971.7 2244.4 1857.07 2466.04 2790.8 2648.9 2231.01 2233.49 2340.2 2331.7 TRUE FALSE FALSE 2179.092452 2317.120033 2110.141828 2513.77377 2576.969507 2423.198818 1979.970883 2176.36056 2323.914358 2432.230998 0.895923312 0.952672684 0.867574597 1.033525916 1.059508537 0.996286463 0.814055443 0.894800108 0.955466138 1 11.24806454 -8.743545541 0.006827703 1.91443019 4.30E-06 0.046474294 0.072288504 16238.74676 37.29600381 5341.473197 5115.806071 1.80E-09 8.743545541 -1.914425885 DVDETGITVAS(ph)LER ddPTM_HeLa_SAHA_4h_R1 2 DVDETGITVASLER 14 0 Q8WU90;H7C466 Q8WU90 ZC3H15 Zinc finger CCCH domain-containing protein 15 1 0 DVDETGITVAS(1)LER;DVDETGITVAS(1)LER ; 225.21 3.97E-24 17549900 1348.02 1441.79 995.08 1509.78 1554.8 1745.08 1589.4 1425.01 1303.82 1473.85 TRUE FALSE FALSE 1489.810929 1488.504942 1130.68432 1539.003975 1435.67156 1596.389366 1410.556529 1388.560308 1294.74661 1537.394886 0.969048968 0.968199488 0.735454716 1.001046633 0.933833963 1.038373017 0.917497867 0.903190403 0.842169193 1 10.58627206 -6.982782778 24.99870336 0.984502161 0.92427484 0 0.087111915 381.7262238 554249.2864 0.011819457 0.015531997 1.04E-07 6.982782778 -0.060227321 DVDETGITVASLER ddPTM_HeLa_SAHA_4h_R1 1 DVDETGITVASLER 14 0 Q8WU90;H7C466 Q8WU90 ZC3H15 Zinc finger CCCH domain-containing protein 15 0 0 105.13 0.01885 2456900 354.62 555.48 511.07 527.73 551.89 786.73 443.83 678.75 505.82 492.61 FALSE FALSE TRUE 391.9205587 573.4779165 580.7159581 537.9449773 509.6043074 719.696178 393.8890803 661.3885578 502.2999574 513.8488279 0.762715681 1.11604403 1.130129965 1.04689346 0.991739749 1.400599046 0.766546616 1.287126723 0.97752477 1 9.005200177 -7.240973414 23.92619435 0.887949071 1.098198007 0.206702671 0.16991156 473.7716296 553873.3246 0.02736996 0.033495751 5.74E-08 7.240973414 0.210248937 DVDFEGTDEPIFGK(ac)KPR ddPTM_HeLa_SAHA_4h_R1 2 DVDFEGTDEPIFGKKPR 17 2 P42285;H0Y8U3 P42285 SKIV2L2 Superkiller viralicidic activity 2-like 2 0 1 ; DVDFEGTDEPIFGK(0.953)K(0.047)PR;DVDFEGTDEPIFGK(0.966)K(0.034)PR 199.33 1.97E-25 5564900 2700.9 3056.1 2571.5 3406.5 3753.6 4328.2 3920.9 3750.4 2340.6 2198.25 FALSE TRUE FALSE 2984.993054 3155.119645 2921.930628 3472.437733 3465.999979 3959.41301 3479.710013 3654.470199 2324.311574 2293.027315 1.301769514 1.375962521 1.274267693 1.514346432 1.511538897 1.726718641 1.517517907 1.593731646 1.013643212 1 11.16303783 -7.455802043 0.215089666 0.848159143 1.772028569 0.888819721 0.075742604 0.544810497 0.11034944 0.197684661 0.187168392 3.50E-08 7.455802043 0.923869426 DVDFSENALK ddPTM_HeLa_SAHA_4h_R1 1 DVDFSENALK 10 0 E9PK39;E9PMK9;Q38SD2 E9PK39 LRRK1 Leucine-rich repeat serine/threonine-protein kinase 1 0 0 115.49 0.023815 3441300 1501.3 1471.1 1501.1 1652.2 1682.6 2308.5 1667.2 1613.8 1755.4 1747.5 FALSE FALSE TRUE 1659.213622 1518.764605 1705.662091 1684.18072 1553.679552 2111.802813 1479.602268 1572.521333 1743.184028 1822.843277 0.910233833 0.833184413 0.935715161 0.923930621 0.852338526 1.158521327 0.811700209 0.862675005 0.956299453 1 10.83197481 -9.070560632 0.937878007 0.998057219 0.913557002 0.070232534 0.092436296 0.955891824 1.570918809 0.051404718 0.016862601 8.50E-10 9.070560632 -0.084500217 DVDIIDHHDNTYTVK ddPTM_HeLa_SAHA_4h_R1 3 DVDIIDHHDNTYTVK 15 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ;; ;; 95.428 0.0024851 96067900 16600.4 17043.4 16600.2 18649.4 19071.9 12927.1 20026.2 16206.8 19368.8 17925.7 FALSE FALSE TRUE 18346.50624 17595.61734 18862.38881 19010.3861 17610.61514 11825.63835 17772.79927 15792.25352 19234.01094 18698.56465 0.981171902 0.941014333 1.008761322 1.016676224 0.941816416 0.632435621 0.95049003 0.844570362 1.028635689 1 14.19063991 -5.506002403 24.77484952 0.98937437 0.817269161 0.545581669 0.076051408 356.051301 522690.6675 0.009790345 0.021394719 3.12E-06 5.506002403 -0.172105209 DVDVSEDS(ph)PPPLPER ddPTM_HeLa_SAHA_4h_R1 2 DVDVSEDSPPPLPER 15 0 Q05209-2;Q05209-3;Q05209 Q05209-2 PTPN12 Tyrosine-protein phosphatase non-receptor type 12 1 0 DVDVS(0.046)EDS(0.954)PPPLPER;DVDVSEDS(1)PPPLPER ; 249.6 3.99E-34 35796000 1339.64 2372.78 1373.28 1875.52 2054.73 2540.8 2113.31 1733.41 3302.1 2162.07 TRUE FALSE FALSE 1480.549482 2449.659629 1560.423447 1911.823402 1897.297031 2324.309546 1875.514797 1689.071882 3279.120417 2255.287419 0.656479289 1.086185117 0.691895602 0.847707208 0.84126618 1.030604581 0.831607883 0.748938636 1.453970075 1 11.13909559 -9.734276344 1.662264384 1.000014207 0.817081821 0.242383282 0.19489009 0.49450264 2.469462322 0.097231444 0.021126279 1.84E-10 9.734276344 -0.182932387 DVEDEETWIR ddPTM_HeLa_SAHA_4h_R1 2 DVEDEETWIR 10 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 ; ; 213.53 1.80E-14 65927000 3544 3522.8 4020 3868.2 4069.3 4403 4421.2 4184.3 4587.6 3731.3 FALSE FALSE TRUE 3916.77418 3636.941031 4567.824665 3943.074605 3757.511113 4027.839629 3923.71494 4077.271665 4555.674518 3892.174604 1.006320266 0.934423915 1.17359192 1.013077523 0.965401478 1.034855843 1.008103526 1.047556207 1.170470234 1 11.92636072 DVEDEILWVGER ddPTM_HeLa_SAHA_4h_R1 3 DVEDEILWVGER 12 0 A0A087WUZ3;Q01082;Q01082-2;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 0 0 ;; ;; 205.13 8.79E-10 21606200 2812.59 2977.9 3034.43 3228.65 3277.33 3927.4 3535.26 2452.37 3767.12 2844.21 FALSE FALSE TRUE 3108.431121 3074.385914 3447.946318 3291.145189 3026.221683 3592.763425 3137.463241 2389.641926 3740.904305 2966.837812 1.047725328 1.036250078 1.162162051 1.109310787 1.02001588 1.210973991 1.057510871 0.805450812 1.260906238 1 11.53471035 -1.463819445 14.60928522 1.041567234 0.020651887 0 0.124178984 0 0 0.01310637 0 0.034370081 1.463819445 -1.020915347 DVEDEILWVTER ddPTM_HeLa_SAHA_4h_R1 2 DVEDEILWVTER 12 0 O15020-2;O15020 O15020-2 SPTBN2 "Spectrin beta chain, non-erythrocytic 2" 0 0 ; ; 133.89 0.0054045 1385500 347.76 364.5 294.78 261.08 370.88 402.911 528.57 298.13 547.95 370.89 FALSE FALSE TRUE 384.3389924 376.3100392 334.9510833 266.1335809 342.4632545 368.5807161 469.0939125 290.5042663 544.1367713 386.880883 0.993429785 0.972676748 0.865773156 0.687895403 0.885190428 0.952698188 1.212502176 0.750888139 1.406471075 1 8.595745632 -6.906308907 5.338036528 0.996239187 0.900454182 0.149201775 0.183701686 0.374924487 17.20307875 0.021277283 0.028109709 1.24E-07 6.906308907 -0.095785005 DVEDESTGLEK ddPTM_HeLa_SAHA_4h_R1 2 DVEDESTGLEK 11 0 P36952 P36952 SERPINB5 Serpin B5 0 0 ; ; 188.99 5.65E-06 10183300 2201.72 2058.54 1660.93 1897.73 2684.2 2455.85 2122.99 2117.01 2239.04 1918.14 FALSE FALSE TRUE 2433.307011 2125.238047 1887.272891 1934.463308 2478.537176 2246.597764 1884.105578 2062.85995 2223.458338 2000.840403 1.216142481 1.062172697 0.943240095 0.966825393 1.238748064 1.122827069 0.941657103 1.030996749 1.111262215 1 10.96639038 -7.012883307 24.61420426 1.104019403 1.042014745 0.089567778 0.097098729 1264.086939 2415100.428 0.019371918 0.024358617 9.71E-08 7.012883307 -0.062004658 DVEDMELS(ph)DVEDDGSK ddPTM_HeLa_SAHA_4h_R1 5 DVEDMELSDVEDDGSK 16 0 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 DVEDMELS(1)DVEDDGSK;DVEDMELS(1)DVEDDGSK;DVEDMELS(1)DVEDDGSK;DVEDMELS(1)DVEDDGSK;DVEDMELS(1)DVEDDGSK ;;;; 285.18 2.07E-72 42490300 6797.65 11842.47 7326.3 10031.75 10817.7 13447.64 9708.37 8515.84 20052.73 10687.36 TRUE FALSE FALSE 7512.658016 12226.1738 8324.69001 10225.92903 9988.850163 12301.82542 8615.958657 8298.017144 19913.18142 11148.14439 0.673893139 1.096700345 0.746733243 0.917276335 0.896010117 1.103486373 0.772860339 0.744340659 1.786232822 1 13.44451597 DVEPEDPMFLMDPFAIHR ddPTM_HeLa_SAHA_4h_R1 1 DVEPEDPMFLMDPFAIHR 18 0 Q15773;F5H7L5;F5H800;F5H0Y3 Q15773 MLF2 Myeloid leukemia factor 2 0 0 146.67 0.00012805 1417600 471.48 578.37 655.96 746.26 573.25 559.36 635.6 504.99 836.37 659.85 FALSE FALSE TRUE 521.0724296 597.1095675 745.3508127 760.7049414 529.3277088 511.6993811 564.0806152 492.073087 830.5496331 688.2993627 0.757043313 0.86751434 1.082887553 1.105194894 0.769037046 0.743425621 0.819528022 0.714911438 1.206669188 1 9.426892364 -5.580279946 24.99994794 0.912364192 0.763795496 0.319546643 0.138781895 90.51643194 39422.19513 0.01903071 0.038061425 2.63E-06 5.580279946 -0.148568697 DVES(ph)PSWR ddPTM_HeLa_SAHA_4h_R1 2 DVESPSWR 8 0 F5H6E2;O00159-2;O00159-3;O00159 F5H6E2 MYO1C Unconventional myosin-Ic 1 0 DVES(0.93)PS(0.07)WR;DVES(0.984)PS(0.016)WR ; 140.17 0.00087821 64898000 2309.55 3318.5 2295.38 2847.2 3324.2 3799.5 3540.1 3237.8 4286.6 3342.1 TRUE FALSE FALSE 2552.479066 3426.021577 2608.182433 2902.311673 3069.500514 3475.761225 3141.758631 3154.981764 4256.769202 3486.194287 0.732167761 0.982739714 0.748146035 0.832515756 0.880473164 0.99700732 0.901200097 0.904993097 1.221036136 1 11.76743726 -5.49829945 22.87771781 0.866261974 0.932356875 0 0.140102916 593.9459019 552825.2411 0.015779457 0.035076765 3.17E-06 5.49829945 0.066094901 DVFFYQADDEHYIPR ddPTM_HeLa_SAHA_4h_R1 3 DVFFYQADDEHYIPR 15 0 K7EKE5;K7EIS0;Q9NRH3;P23258 K7EKE5 TUBG1;TUBG2 Tubulin gamma chain;Tubulin gamma-2 chain;Tubulin gamma-1 chain 0 0 ;; ;; 224.34 4.96E-19 19384800 4497.6 5559.9 5222.2 5528.9 6554 6369.2 7167.7 4814.3 6552.3 5920.2 FALSE FALSE TRUE 4970.678204 5740.044408 5933.85422 5635.919854 6051.833936 5826.508328 6361.171532 4691.157177 6506.702011 6175.448795 0.80490963 0.929494292 0.960878216 0.912633242 0.979982854 0.943495529 1.030074371 0.759646357 1.053640347 1 12.59232827 -7.017833494 24.45095677 0.905733364 0.938195438 0 0.091756104 2085.858197 2859855.192 0.015328562 0.018980734 9.60E-08 7.017833494 0.032462074 DVFLSAISSGADS(ph)PNSK ddPTM_HeLa_SAHA_4h_R1 1 DVFLSAISSGADSPNSK 17 0 Q8NHU6-3;Q8NHU6-2;Q8NHU6 Q8NHU6-3 TDRD7 Tudor domain-containing protein 7 1 0 DVFLSAIS(0.078)S(0.293)GADS(0.618)PNS(0.012)K 112.01 0.00037719 0 362.74 433.46 158.66 438.92 361.25 309.68 413.91 353.24 214.15 371.72 TRUE FALSE FALSE 400.8946575 447.5043884 180.2813585 447.4159313 333.571103 283.2935218 367.3357574 344.2046323 212.6597127 387.7466684 1.03390871 1.154115367 0.464946248 1.153887236 0.86028103 0.730614973 0.94736019 0.887704938 0.548450135 1 8.598970575 DVGRPNFEEGGPTS(ph)VGR ddPTM_HeLa_SAHA_4h_R1 1 DVGRPNFEEGGPTSVGR 17 1 Q6Y7W6;Q6Y7W6-4;Q6Y7W6-5;E7ESB6 Q6Y7W6 GIGYF2 PERQ amino acid-rich with GYF domain-containing protein 2 1 0 DVGRPNFEEGGPT(0.267)S(0.733)VGR 79.695 0.0058633 3689100 1120.7 1152.6 1196.3 1767.5 1461.2 1644.9 1458.2 1622.6 1594.7 1308.4 TRUE FALSE FALSE 1238.580368 1189.944996 1359.325534 1801.712518 1349.243172 1504.745266 1294.119498 1581.096241 1583.602353 1364.811527 0.90751019 0.87187496 0.995980402 1.320118187 0.988593036 1.102529716 0.948203816 1.158472221 1.160308454 1 10.41448602 -6.510176954 24.97550464 0.948063414 1.095458804 0.165085623 0.119495381 525.6510494 1033586.83 0.01504289 0.022293574 3.09E-07 6.510176954 0.147395389 DVHTLLDR ddPTM_HeLa_SAHA_4h_R1 2 DVHTLLDR 8 0 E9PI41;Q9NPD3 E9PI41 EXOSC4 Exosome complex component RRP41 0 0 ; ; 167.23 7.12E-06 6993700 6259.6 5625.1 5905.4 6879.2 6286.3 532.62 7379.1 6135.4 7262.1 6335.9 FALSE FALSE TRUE 6918.013448 5807.356931 6710.157158 7012.356863 5804.645052 487.2377796 6548.784247 5978.465352 7211.562455 6609.071656 1.046745112 0.878694805 1.015294962 1.061019948 0.878284478 0.073722575 0.990878082 0.904584738 1.091161184 1 12.69023192 -5.513703665 24.86654976 1.010794728 0.654203456 0.322978876 0.23256388 341.1805506 924675.2925 0.031585132 0.066065506 3.06E-06 5.513703665 -0.356591271 DVLDIEQFS(ph)TVK ddPTM_HeLa_SAHA_4h_R1 1 DVLDIEQFSTVK 12 0 F8W9W2;P43250-3;P43250;P43250-2;P34947 F8W9W2 GRK6;GRK5 G protein-coupled receptor kinase 6;G protein-coupled receptor kinase 5 1 0 DVLDIEQFS(0.862)T(0.138)VK 89.747 0.012731 5929500 684.53 788.03 764.37 994.8 1131.5 1089.3 1095.8 1046.3 675.17 1079.8 TRUE FALSE FALSE 756.5320061 813.562689 868.5343629 1014.055793 1044.804714 996.4855118 972.4977 1019.537161 670.471437 1126.355462 0.671663637 0.722296572 0.771101479 0.900298197 0.927597681 0.884698965 0.863402125 0.905164662 0.595257412 1 10.13744648 -6.228505583 22.47607801 0.824828089 0.895510248 0.172170076 0.110697815 465.4557666 317654.3863 0.019892279 0.032984532 5.91E-07 6.228505583 0.070682159 DVLDVYIEHR ddPTM_HeLa_SAHA_4h_R1 2 DVLDVYIEHR 10 0 P33993;P33993-2 P33993 MCM7 DNA replication licensing factor MCM7 0 0 ; ; 132.25 0.001625 8043600 7763.4 8724.8 7453.8 11040.6 9986.6 11516.2 10563.8 7776.2 13474 10555.6 FALSE FALSE TRUE 8579.990032 9007.489245 8469.565046 11254.30678 9221.428865 10534.95497 9375.133422 7577.296064 13380.23334 11010.70357 0.779240852 0.818066637 0.769211975 1.022124218 0.837496787 0.956792171 0.851456345 0.688175466 1.215202393 1 13.42661904 -9.454682625 1.190967109 0.999944112 0.840833664 0.403458038 0.113681259 0.474271444 1.204041824 0.061619291 0.015305131 3.51E-10 9.454682625 -0.159110447 DVLFLK ddPTM_HeLa_SAHA_4h_R1 2 DVLFLK 6 0 P00558;P00558-2;P07205 P00558;P07205 PGK1;PGK2 Phosphoglycerate kinase 1;Phosphoglycerate kinase 2 0 0 ; ; 119.7 0.005187 6843300 4980.5 5792.6 5582.9 6436.1 6558.8 5386.6 6853.1 4152.6 5921 5678.4 FALSE FALSE TRUE 5504.371841 5980.284041 6343.708538 6560.680022 6056.266161 4927.631376 6081.971152 4046.382505 5879.795279 5923.223613 0.929286517 1.00963334 1.070989203 1.107619845 1.022461173 0.831917162 1.026800869 0.683138569 0.992668125 1 12.53216684 -4.256269085 24.7373642 0.982967381 0.683138424 0.620274802 0.07318491 265.852002 1271925.75 0.010630466 0.119704752 5.54E-05 4.256269085 -0.299828958 DVLLQVDDERR ddPTM_HeLa_SAHA_4h_R1 4 DVLLQVDDERR 11 1 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ;;; ;;; 242.45 1.10E-30 54582800 14554 14868.9 13694.8 16364.5 18554.9 19780.8 18445.2 13091.1 18941.1 16346.7 FALSE FALSE TRUE 16084.8565 15350.66212 15561.05602 16681.25856 17133.22757 18095.36456 16369.69755 12756.24862 18809.28734 17051.48624 0.943311115 0.900253614 0.912592358 0.97828766 1.004793795 1.061219198 0.960015879 0.748101863 1.103087853 1 14.05760987 -1.000047181 0.009229252 1.796168872 3.51E-06 0.166131049 0.084507534 29371.53609 21.17314343 1798.740541 2357.790251 0.099989137 1.000047181 -1.796165359 DVLSVAFSSDNR ddPTM_HeLa_SAHA_4h_R1 4 DVLSVAFSSDNR 12 0 P63244;H0YAF8;J3KPE3;H0Y8W2;H0YAM7;D6R9L0;D6R9Z1;D6RHH4;D6RFX4;D6RFZ9;E9PD14;D6RAU2 P63244 GNB2L1 "Guanine nucleotide-binding protein subunit beta-2-like 1;Guanine nucleotide-binding protein subunit beta-2-like 1, N-terminally processed" 0 0 ;;; ;;; 289.67 8.65E-67 48022020 3565.75 3884.3 4539.89 4804.96 4499.04 4088.25 5227.34 3607.12 3737.93 4045.9 FALSE FALSE TRUE 3940.811945 4010.153869 5158.562566 4897.966949 4154.324527 3739.9081 4639.145946 3514.855093 3711.917441 4220.338549 0.933766782 0.950197199 1.222310131 1.160562569 0.984358122 0.886163055 1.099235498 0.832837236 0.879530729 1 12.04314302 -2.906711493 10.55222096 0.992462511 0.72349458 0 0.121398294 0 0 0.015331054 0 0.00123962 2.906711493 -0.268967932 DVMEDAVEDRLDR ddPTM_HeLa_SAHA_4h_R1 1 DVMEDAVEDRLDR 13 1 R4GMY7;M0R1A1;Q15833-2;Q15833;Q15833-3 R4GMY7 STXBP2 Syntaxin-binding protein 2 0 0 92.792 0.013548 2676100 328.04 290.05 367.42 431.83 385.89 658.6 584.18 412.31 584.6 413.11 FALSE FALSE TRUE 362.5447523 299.4478103 417.4900842 440.1886941 356.3231916 602.4835748 518.4465289 401.7637072 580.531721 430.9211938 0.841324951 0.694901561 0.968831634 1.021506253 0.826887135 1.398129364 1.203112162 0.932336847 1.347187675 1 8.751280245 -5.280360117 24.99061831 0.910874388 1.180384756 0.185808055 0.195423494 553.4485969 730997.3594 0.020332522 0.045535454 5.24E-06 5.280360117 0.269510368 DVMLENY(ph)GNLVS(ph)MGK ddPTM_HeLa_SAHA_4h_R1 1 DVMLENYGNLVSMGK 15 0 K7ELW4 K7ELW4 ZNF383 2 0 DVMLENY(1)GNLVS(1)MGK 56.121 0.0084788 0 464.35 565.9 682.84 384.86 673.94 852.53 565.02 453.44 567.1 714.24 TRUE FALSE FALSE 513.1924635 584.2355313 775.8938791 392.3095218 622.3028628 779.8896478 501.4424625 441.8416614 563.1535049 745.0343818 0.688817155 0.784172577 1.041420233 0.526565661 0.835267308 1.046783433 0.67304607 0.593048686 0.755875861 1 9.541163194 -9.456647889 1.138909658 1.002549389 0.773410451 0 0.177768962 0.632740704 1.441836761 0.116689195 0.027621235 3.49E-10 9.456647889 -0.229138937 DVMSDETNNEET(ph)ESPSQEFVNITK ddPTM_HeLa_SAHA_4h_R1 2 DVMSDETNNEETESPSQEFVNITK 24 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 DVMSDET(0.004)NNEET(0.715)ES(0.14)PS(0.14)QEFVNITK;DVMS(0.002)DET(0.081)NNEET(0.534)ES(0.368)PS(0.015)QEFVNITK ; 79.416 0.00034493 11872700 2809.87 3112.95 2487.75 3055.73 3967.8 3645.23 3391.83 3372.09 2905.02 2925.43 TRUE FALSE FALSE 3105.425019 3213.811622 2826.767614 3114.878073 3663.788021 3334.635896 3010.172362 3285.836821 2884.803729 3051.559604 1.017651766 1.053170195 0.926335376 1.020749544 1.200628038 1.092764464 0.986437348 1.076772945 0.945353886 1 11.57533105 -5.974754387 24.99973231 1.005576144 1.08564925 0.373023565 0.059615825 209.1293345 207091.5188 0.008266355 0.014983686 1.06E-06 5.974754387 0.080073106 DVMSDETNNEETES(ph)PSQEFVNITK ddPTM_HeLa_SAHA_4h_R1 4 DVMSDETNNEETESPSQEFVNITK 24 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 DVMS(0.001)DET(0.005)NNEET(0.07)ES(0.666)PS(0.259)QEFVNITK;DVMSDETNNEET(0.003)ES(0.97)PS(0.027)QEFVNITK;DVMSDETNNEET(0.001)ES(0.96)PS(0.039)QEFVNITK;DVMSDETNNEETES(0.999)PS(0.001)QEFVNITK ;;; 187.98 6.12E-16 51085700 10288.6 10574.8 9294.7 10103.6 11398.4 11987.9 12043.2 10806.8 10760.2 10118 TRUE FALSE FALSE 11370.80215 10917.43046 10561.33331 10299.16979 10525.05705 10966.46348 10688.06744 10530.3777 10685.31889 10554.2365 1.07736852 1.034412149 1.000672414 0.975832766 0.997235286 1.039057963 1.012680306 0.997739411 1.012419884 1 13.3655346 -6.787487474 7.556431353 1.037444931 1.004283421 0.216578543 0.024133986 0.235075561 50.83444528 0.005253688 0.006998139 1.63E-07 6.787487474 -0.03316151 DVMSDETNNEETESPS(ph)QEFVNITK ddPTM_HeLa_SAHA_4h_R1 1 DVMSDETNNEETESPSQEFVNITK 24 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 DVMSDETNNEET(0.019)ES(0.358)PS(0.623)QEFVNITK 98.121 3.40E-05 6469900 1057 1662.7 1203.8 1241.9 1368.7 1469.1 1391.4 1100.3 1253 1207.8 TRUE FALSE FALSE 1168.18011 1716.572571 1367.847595 1265.93877 1263.830502 1343.924415 1234.83601 1072.155919 1244.280271 1259.874169 0.927219669 1.36249525 1.085701754 1.004813657 1.00314026 1.066713207 0.980126461 0.851002382 0.987622655 1 10.29906393 -2.937155952 13.9553501 1.003983188 0.544656634 0 0.13011292 0 0 0.017628314 0 0.001155697 2.937155952 -0.459326553 DVNAAIAAIK ddPTM_HeLa_SAHA_4h_R1 2 DVNAAIAAIK 10 0 P68366-2;P68366 P68366-2 TUBA4A Tubulin alpha-4A chain 0 0 ; ; 140.16 0.00012772 2985800 2141.92 2056.31 2428.9 1938.99 2535.8 2199.3 2744.3 1727.47 1536.1 1934.08 FALSE FALSE TRUE 2367.216973 2122.935793 2759.897843 1976.521955 2341.507552 2011.907267 2435.504141 1683.283819 1525.410155 2017.467654 1.173360558 1.052277487 1.368001037 0.979704409 1.160617147 0.997243878 1.20720852 0.834354799 0.756101419 1 10.97832983 -4.245690336 23.75393201 1.099558189 0.834354402 0.163846293 0.157406529 1356.712031 2046231.459 0.015468744 0.483914238 5.68E-05 4.245690336 -0.265203787 DVNAAIAT(ph)IK ddPTM_HeLa_SAHA_4h_R1 1 DVNAAIATIK 10 0 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;A0A1W2PQM2;P0DPH7-2;Q6PEY2;P68363;P68363-2 Q9BQE3;P68363 TUBA1C;TUBA3E;TUBA1B Tubulin alpha-1C chain;Tubulin alpha-3E chain;Tubulin alpha-1B chain 1 0 DVNAAIAT(1)IK 121.76 0.0049308 8316700 2919.4 2477.8 2653 2180.8 2664.1 2749.3 3066.1 2875 1861.1 2346.4 TRUE FALSE FALSE 3226.475887 2558.082346 3014.537024 2223.012537 2459.977234 2515.044173 2721.094358 2801.461663 1848.148454 2447.564787 1.318239216 1.045154089 1.231647489 0.908254829 1.005071345 1.02757001 1.111755804 1.144591423 0.755096847 1 11.25713133 -6.279349059 24.60095763 1.15008783 1.040895948 0 0.16103128 1052.804601 1446143.616 0.020820665 0.031849764 5.26E-07 6.279349059 -0.109191883 DVNAAIATIK ddPTM_HeLa_SAHA_4h_R1 5 DVNAAIATIK 10 0 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;A0A1W2PQM2;P0DPH7-2;Q6PEY2;P68363;P68363-2 Q9BQE3;P68363 TUBA1C;TUBA3E;TUBA1B Tubulin alpha-1C chain;Tubulin alpha-3E chain;Tubulin alpha-1B chain 0 0 ;;;; ;;;; 179.57 3.00E-12 42287200 19774.7 21192.8 20341.2 20043.2 22328.4 23691 23413.3 21233.4 20995.5 21055.3 FALSE FALSE TRUE 21854.69368 21879.46063 23113.1928 20431.16512 20617.60282 21672.39352 20778.77386 20690.28037 20849.39061 21963.09703 0.995064296 0.996191958 1.052364918 0.930249732 0.938738412 0.986764002 0.946076678 0.942047488 0.949291923 1 14.42279388 -6.236691193 24.99613147 1.001205002 0.950178223 0.456675301 0.027066702 413.547293 417690.5264 0.003154919 0.005230343 5.80E-07 6.236691193 -0.051026779 DVNQQEFVR ddPTM_HeLa_SAHA_4h_R1 2 DVNQQEFVR 9 0 P39019;M0R2L9;M0QYF7;M0R140 P39019 RPS19 40S ribosomal protein S19 0 0 ; ; 195.57 4.79E-07 46377000 2628.5 2436.37 2143.92 2716.49 2613.73 2654.94 2809.77 2627.89 2364.96 2024.44 FALSE FALSE TRUE 2904.97769 2515.309987 2436.082253 2769.071592 2413.466572 2428.724176 2493.607285 2560.672379 2348.502051 2111.723516 1.375643008 1.191117098 1.153599055 1.311285105 1.142889471 1.150114661 1.180839852 1.212598316 1.112125727 1 11.04420524 -9.602791289 1.417133504 1.000605129 1.232792735 0.348617831 0.079316907 0.278304988 1.007177607 0.060627221 0.014158102 2.50E-10 9.602791289 0.232187606 DVNSSS(ph)PVMLAFK ddPTM_HeLa_SAHA_4h_R1 3 DVNSSSPVMLAFK 13 0 Q9NRI2;C4P0D4;Q5VVQ1;C4P0D6;C4P0D8;Q99598 Q9NRI2 TRAX;DISC1;TSNAX Translin-associated protein X 1 0 DVNS(0.001)S(0.231)S(0.768)PVMLAFK;DVNSS(0.01)S(0.99)PVMLAFK;DVNS(0.005)S(0.242)S(0.753)PVMLAFK ;; 118.73 0.0012087 8545200 1960.07 2554.99 2319.64 2446.43 2814.62 2909.19 3177.23 2104.98 2573.6 2694.46 TRUE FALSE FALSE 2166.239156 2637.773352 2635.748459 2493.78419 2598.964424 2661.310645 2819.719718 2051.13766 2555.690108 2810.631357 0.770730445 0.938498514 0.937778073 0.88726833 0.92469061 0.946872893 1.003233566 0.729778259 0.909293957 1 11.45667853 DVPNETLQVEEDDRPELPWWK ddPTM_HeLa_SAHA_4h_R1 1 DVPNETLQVEEDDRPELPWWK 21 1 O95373 O95373 IPO7 Importin-7 0 0 104.81 0.00033 6668600 1657.9 1518.5 1660.1 1903.8 2005.5 2373.5 2156.3 1632 2065 2050.6 FALSE FALSE TRUE 1832.285529 1567.700396 1886.329783 1940.650802 1851.839023 2171.264447 1913.667449 1590.255803 2050.629497 2139.011401 0.856603909 0.732908855 0.881869906 0.907265291 0.865745279 1.015078482 0.89465042 0.743453636 0.958680957 1 11.06272846 -9.125433372 0.983397205 0.996820114 0.867457351 0.261966752 0.077085301 0.53421151 0.96337474 0.045602615 0.014647409 7.49E-10 9.125433372 -0.129362764 DVPPDILLDS(ph)PER ddPTM_HeLa_SAHA_4h_R1 6 DVPPDILLDSPER 13 0 A0A590UJS4;Q6KC79-2;Q6KC79-3;Q6KC79 A0A590UJS4;Q6KC79 NIPBL Nipped-B-like protein 1 0 DVPPDILLDS(1)PER;DVPPDILLDS(1)PER;DVPPDILLDS(1)PER;DVPPDILLDS(1)PER;DVPPDILLDS(1)PER;DVPPDILLDS(1)PER ;;;;; 241.41 1.04E-31 38878400 6388.55 6280.39 5761.31 6163.15 6883.21 7138.12 6910.64 6797.09 5933.81 6647.22 TRUE FALSE FALSE 7060.527001 6483.878757 6546.431323 6282.44668 6355.819937 6529.912018 6133.036599 6623.23028 5892.516133 6933.814185 1.018274619 0.935109967 0.944131347 0.906059279 0.916641226 0.94174892 0.884511242 0.955207351 0.849823196 1 12.75943346 -7.194579787 4.422326974 1.008683316 0.923788302 0 0.053941602 0.065050986 2.523193148 0.003160011 0.003860808 6.39E-08 7.194579787 -0.084895014 DVPPDILLDS(ph)PERK ddPTM_HeLa_SAHA_4h_R1 7 DVPPDILLDSPERK 14 1 A0A590UJS4;Q6KC79-2;Q6KC79-3;Q6KC79 A0A590UJS4;Q6KC79 NIPBL Nipped-B-like protein 1 0 DVPPDILLDS(1)PERK;DVPPDILLDS(1)PERK;DVPPDILLDS(1)PERK;DVPPDILLDS(1)PERK;DVPPDILLDS(1)PERK;DVPPDILLDS(1)PERK;DVPPDILLDS(1)PERK ;;;;;; 159.22 3.61E-05 92679700 15296.12 15749.19 12427.19 15144.42 15883.45 17038.89 16158.78 17713.5 16090.41 16183.13 TRUE FALSE FALSE 16905.03608 16259.47409 14120.70274 15437.56215 14666.46349 15587.08071 14340.55155 17260.41432 15978.43553 16880.86393 1.001431926 0.963189689 0.83649171 0.914500716 0.868821854 0.923357997 0.849515262 1.022484062 0.946541338 1 14.04310112 -6.970639629 7.602984159 0.999769465 0.899870318 0.331173073 0.051144943 0.112099664 22.85533718 0.006989039 0.00915249 1.07E-07 6.970639629 -0.099899147 DVQGTDASLDEELDR ddPTM_HeLa_SAHA_4h_R1 2 DVQGTDASLDEELDR 15 0 Q9UJZ1;Q9UJZ1-2;A0A087WYB4 Q9UJZ1 STOML2 "Stomatin-like protein 2, mitochondrial" 0 0 ; ; 144.51 1.97E-07 1943900 349.13 277.35 165.59 504.37 415.41 525.92 379.38 208.868 603.36 305.56 FALSE FALSE TRUE 385.8530953 286.336322 188.1557428 514.1328107 383.5813755 481.1086573 336.6911639 203.525459 599.1611686 318.734187 1.210579571 0.898354597 0.590321812 1.613045703 1.203452253 1.509435376 1.056338409 0.638542922 1.87981457 1 8.316209959 -6.248453105 24.95966854 1.048973079 1.212870497 0 0.394258 1830.303387 3517848.219 0.045146893 0.07457609 5.64E-07 6.248453105 0.163897418 DVQGTDASLDEELDRVK ddPTM_HeLa_SAHA_4h_R1 1 DVQGTDASLDEELDRVK 17 1 Q9UJZ1;Q9UJZ1-2;A0A087WYB4 Q9UJZ1 STOML2 "Stomatin-like protein 2, mitochondrial" 0 0 154.31 5.21E-05 3532100 613.74 728.9 756.83 565.63 854.8 865.25 867.76 657.39 656.19 856.41 FALSE FALSE TRUE 678.2959891 752.5168382 859.966851 576.5785866 789.3054087 791.5258322 770.117361 640.5749157 651.6235204 893.3340263 0.759285966 0.842368942 0.962648713 0.64542329 0.883550145 0.886035692 0.862071004 0.717060917 0.729428748 1 9.803055904 -9.429659413 1.085757192 1.002979184 0.81937703 0 0.120338297 0.440072281 0.903544607 0.063081252 0.014826789 3.72E-10 9.429659413 -0.183602154 DVQIGDIVTVGECRPLSK ddPTM_HeLa_SAHA_4h_R1 1 DVQIGDIVTVGECRPLSK 18 1 P62280;M0R1H5 P62280 RPS11 40S ribosomal protein S11 0 0 168.08 1.06E-12 2497900 983.33 1048 1064.5 1331 1088.5 1224.8 1466.7 1217.6 1318.6 1087.7 FALSE FALSE TRUE 1086.761161 1081.955888 1209.564516 1356.76343 1005.099365 1120.440149 1301.663056 1186.455555 1309.423755 1134.59607 0.957839701 0.953604473 1.06607501 1.195811854 0.885865368 0.987523383 1.147247986 1.045707443 1.15408804 1 10.14796306 -6.75571183 24.75288974 0.9775482 1.054597359 0 0.097127738 164.9453596 712844.7455 0.012605548 0.017545304 1.76E-07 6.75571183 0.077049159 DVSGFSDPYCLLGIEQGVGVPGGS(ph)PGSR ddPTM_HeLa_SAHA_4h_R1 2 DVSGFSDPYCLLGIEQGVGVPGGSPGSR 28 0 K7EIH3;K7EQ37;K7EN81;Q70J99-2;Q70J99;Q70J99-3 K7EIH3 UNC13D Protein unc-13 homolog D 1 0 DVSGFSDPYCLLGIEQGVGVPGGS(0.5)PGS(0.5)R;DVSGFSDPYCLLGIEQGVGVPGGS(0.623)PGS(0.377)R ; 155.4 5.76E-11 37991000 3598.3 3495.1 3572 3701.2 4358 3893.3 4275.8 3790.9 3495.2 3564.9 TRUE FALSE FALSE 3976.785704 3608.343533 4058.773558 3772.842078 4024.090981 3561.568937 3794.675731 3693.934267 3470.876619 3718.600285 1.069430807 0.970349932 1.091478849 1.014586616 1.082152066 0.957771383 1.020458086 0.993366854 0.933382551 1 11.86054396 -5.251222956 24.97868625 1.034651391 0.993524711 0.048288951 0.049691434 928.368687 2269814.061 0.005491818 0.013829016 5.61E-06 5.251222956 -0.04112668 DVSS(ph)PDENNGQSK ddPTM_HeLa_SAHA_4h_R1 2 DVSSPDENNGQSK 13 0 J3QL74;J3QLI2;O43829 J3QL74 ZBTB14 Zinc finger and BTB domain-containing protein 14 1 0 DVS(0.086)S(0.914)PDENNGQSK;DVS(0.004)S(0.996)PDENNGQSK ; 173.59 1.09E-16 3627700 1432.2 1573.87 1090.73 1755.52 1794.38 2564.9 1879.1 1498.43 1872.52 2183.21 TRUE FALSE FALSE 1582.845367 1624.864421 1239.369004 1789.500628 1656.894992 2346.35609 1667.658722 1460.10233 1859.488981 2277.338867 0.695041651 0.713492596 0.544218088 0.785785837 0.727557508 1.030306084 0.732283959 0.641144079 0.816518353 1 11.15313326 -9.251038156 0.956824943 1.001712906 0.736826182 0.175541018 0.129264751 0.461231486 0.75022063 0.084259433 0.022530373 5.61E-10 9.251038156 -0.264886724 DVSYQGGK(ac)SIK ddPTM_HeLa_SAHA_4h_R1 2 DVSYQGGKSIK 11 1 Q8NEZ4;Q8NEZ4-3;H0YMU7 Q8NEZ4 KMT2C Histone-lysine N-methyltransferase 2C 0 1 ; DVSYQGGK(1)SIK;DVSYQGGK(1)SIK 176.78 2.02E-11 6782500 1771.39 1531.08 1599.47 2041.08 2005.85 2249.1 1964.36 2381.4 1252.17 1436.18 FALSE TRUE FALSE 1957.712928 1580.687997 1817.437442 2080.588055 1852.162206 2057.464027 1743.325043 2320.487236 1243.456047 1498.100748 1.306796576 1.055127967 1.213161027 1.388817179 1.236340218 1.373381616 1.163690122 1.548952725 0.830021645 1 10.54891893 -13.34138899 0.155915646 1.12E-12 1.383035298 0.566691829 0.131358783 39.68141413 0.438638743 12.32100257 0.244196446 4.56E-14 13.34138899 1.383035298 DVT(ph)PPPETEVVLIK ddPTM_HeLa_SAHA_4h_R1 6 DVTPPPETEVVLIK 14 0 E7EVA0;P27816;P27816-6;P27816-2 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 DVT(1)PPPETEVVLIK;DVT(1)PPPETEVVLIK;DVT(1)PPPETEVVLIK;DVT(0.995)PPPET(0.005)EVVLIK;DVT(0.998)PPPET(0.002)EVVLIK;DVT(1)PPPETEVVLIK ;;;;; 187.16 3.63E-08 247225500 15552.97 22507.63 15498.03 19968.54 20804.15 26473.52 20263.77 18300.36 31341.7 22397.92 TRUE FALSE FALSE 17188.90274 23236.89198 17610.02082 20355.05997 19210.14052 24217.82716 17983.63727 17832.26329 31123.59056 23363.60394 0.735712811 0.994576523 0.753737346 0.871229457 0.822225054 1.036562134 0.769728733 0.763249682 1.332139966 1 14.51197521 -9.593130546 1.383263329 1.000063464 0.833992247 0.334333217 0.144723023 0.443768518 1.522250732 0.068219322 0.015796085 2.55E-10 9.593130546 -0.166071216 DVT(ph)SPINER ddPTM_HeLa_SAHA_4h_R1 2 DVTSPINER 9 0 K7EJY2;K7ERF3;K7ELU8;D3DUE4;F6WF08;Q6ZW76-2;Q6ZW76 K7EJY2 ANKS3 Ankyrin repeat and SAM domain-containing protein 3 1 0 DVT(0.908)S(0.092)PINER;DVT(0.916)S(0.084)PINER ; 127.51 0.004282 18477300 3522.3 4414.7 4143.6 4559.2 5044.6 5938 4519.6 3986.5 5551.8 4625.2 TRUE FALSE FALSE 3892.791675 4557.739177 4708.268229 4647.449909 4658.083838 5432.048994 4011.042713 3884.531102 5513.164572 4824.615007 0.806860582 0.944684533 0.975884754 0.963278915 0.965483014 1.1259031 0.831370525 0.80514841 1.14271596 1 12.23619811 -3.578624299 0.002901497 1.824404139 8.35E-05 0 0.114990747 793203.0137 299.2771379 91722.05054 96501.11278 0.000263861 3.578624299 -1.824320616 DVTGS(ph)PPAK ddPTM_HeLa_SAHA_4h_R1 2 DVTGSPPAK 9 0 O75362 O75362 ZNF217 Zinc finger protein 217 1 0 DVT(0.128)GS(0.872)PPAK;DVT(0.101)GS(0.899)PPAK ; 102.95 0.0086862 34345000 10218.4 9734.5 8273 9102.8 9277.9 10013.5 10868.5 10671 10803.9 9739.5 TRUE FALSE FALSE 11293.2182 10049.90419 9400.401356 9278.997857 8567.029306 9160.293466 9645.547776 10398.05127 10728.71478 10159.41751 1.111600954 0.989220512 0.925289402 0.913339554 0.843259892 0.901655381 0.94941937 1.023488922 1.056036409 1 13.31053007 -6.95022494 3.668820535 1.052802026 0.921997419 0.58128851 0.049251577 0.140229226 3.941342811 0.009908113 0.013029135 1.12E-07 6.95022494 -0.130804607 DVTNFTVGGFAPMS(ph)PR ddPTM_HeLa_SAHA_4h_R1 7 DVTNFTVGGFAPMSPR 16 0 O00267-2;O00267 O00267-2 SUPT5H Transcription elongation factor SPT5 1 0 DVTNFTVGGFAPMS(1)PR;DVTNFTVGGFAPMS(1)PR;DVTNFTVGGFAPMS(1)PR;DVTNFTVGGFAPMS(1)PR;DVTNFTVGGFAPMS(1)PR;DVTNFTVGGFAPMS(1)PR;DVTNFT(0.002)VGGFAPMS(0.998)PR ;;;;;; 242.67 2.85E-36 149823800 6122.81 6510.2 5912.44 5566.4 6328.42 7415.97 6527.83 5942.13 6257.54 6504.49 TRUE FALSE FALSE 6766.835248 6721.134751 6718.156533 5674.145721 5843.537827 6784.087635 5793.301388 5790.138919 6213.99327 6784.930396 0.997333039 0.99059745 0.990158504 0.836286504 0.861252435 0.999875789 0.853848315 0.853382213 0.915852176 1 12.7281183 -6.321324819 8.327878636 0.99750168 0.885007942 0.470623695 0.049872707 0.169960497 22.201538 0.006450743 0.009871916 4.77E-07 6.321324819 -0.112493738 DVTNNVHYENYR ddPTM_HeLa_SAHA_4h_R1 4 DVTNNVHYENYR 12 0 G3V1Q4;E7ES33;E7EPK1;Q16181-2;Q16181 G3V1Q4 7-Sep Septin-7 0 0 ;;; ;;; 132.14 0.0010528 34187600 8965.2 8371.9 7889 9408.3 10168.3 9400.3 9560.2 7985.3 7585.8 8401.3 FALSE FALSE TRUE 9908.20087 8643.155053 8964.071836 9590.411251 9389.207051 8599.341555 8484.461135 7781.047589 7533.0098 8763.521158 1.130618697 0.986265098 1.022884714 1.094355919 1.071396632 0.981265567 0.968156633 0.887890546 0.859587107 1 13.09729494 -4.665609277 1.334601013 1.057198998 0.879293778 0.121100187 0.075828825 0.463356652 1.148799109 0.008335033 0.091165814 2.16E-05 4.665609277 -0.17790522 DVTS(ph)PINER ddPTM_HeLa_SAHA_4h_R1 2 DVTSPINER 9 0 K7EJY2;K7ERF3;K7ELU8;D3DUE4;F6WF08;Q6ZW76-2;Q6ZW76 K7EJY2 ANKS3 Ankyrin repeat and SAM domain-containing protein 3 1 0 DVT(0.208)S(0.792)PINER;DVT(0.205)S(0.795)PINER ; 125.23 0.0028121 19260300 3117.8 3785.3 2899.31 3836.7 4215.4 5342.2 4349.8 3655.9 5168.5 3917.4 TRUE FALSE FALSE 3445.744509 3907.946204 3294.412868 3910.964876 3892.416963 4887.014506 3860.349056 3562.387372 5132.531988 4086.298285 0.84324351 0.956353631 0.806209591 0.957092362 0.952553311 1.195951486 0.944705645 0.871788382 1.256034589 1 11.9965788 -5.68081436 3.534939042 0.918357478 1.006971207 0 0.141659198 0.368380644 9.086214248 0.014853337 0.030756739 2.09E-06 5.68081436 0.08861373 DVTVLS(ph)VAEEQDLLKQER ddPTM_HeLa_SAHA_4h_R1 1 DVTVLSVAEEQDLLKQER 18 1 Q14966-3;Q14966;Q14966-5;A0A096LPK8 Q14966-3 ZNF638 Zinc finger protein 638 1 0 DVT(0.008)VLS(0.992)VAEEQDLLKQER 53.454 0.023263 2112000 195.98 243.51 274.6 337.84 304.69 475.17 455.7 439.58 243.6 370.98 TRUE FALSE FALSE 216.5940756 251.3998838 312.0210579 344.3793817 281.344718 434.6828428 404.4234367 428.3361801 241.9047678 386.9747633 0.559711113 0.649654467 0.806308544 0.889927236 0.727036346 1.123284731 1.045089952 1.106884016 0.625117684 1 8.596095673 -5.259348879 24.90207978 0.781528269 1.08708662 0.600767715 0.125533845 137.9419766 1643150.961 0.024577771 0.059412251 5.50E-06 5.259348879 0.305558351 DVVICPDASLEDAK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 DVVICPDASLEDAKK 15 1 Q99497;K7ELW0;K7EN27 Q99497 PARK7 Protein deglycase DJ-1 0 1 DVVICPDASLEDAK(1)K 214.81 2.72E-33 1268000 156.97 706.93 386.23 212.9 620.22 481.64 522.62 399.72 455.79 174.75 FALSE TRUE FALSE 173.4808248 729.8349958 438.863413 217.0209874 572.6988776 440.6015624 463.8134221 389.4957412 452.6181203 182.2843277 0.951704554 4.003827455 2.407576222 1.190563062 3.141788901 2.417111597 2.544450354 2.136748376 2.483033654 1 7.510046718 -7.32883879 24.99634467 0.977192657 2.508758563 0.194551595 0.824659224 96.56784954 35813.72275 0.109863553 0.125633072 4.69E-08 7.32883879 1.531565906 DVVICPDASLEDAKK ddPTM_HeLa_SAHA_4h_R1 2 DVVICPDASLEDAKK 15 1 Q99497;K7ELW0;K7EN27 Q99497 PARK7 Protein deglycase DJ-1 0 0 ; ; 199.13 3.27E-24 5972400 2150.3 2272.9 2009.66 2460.2 2705.7 3132.7 2710.5 2773.6 2775.19 2684.1 FALSE FALSE TRUE 2376.47842 2346.543451 2283.525999 2507.820729 2498.389851 2865.776336 2405.507406 2702.655328 2755.877227 2799.824687 0.848795438 0.838103708 0.815596066 0.895706342 0.89233796 1.023555635 0.859163582 0.965294485 0.984303496 1 11.45112078 -2.239252621 14.65546477 0.913625852 0.904390767 0 0.071040035 0 0 0.010490979 0 0.005764311 2.239252621 -0.009235084 DVVLST(ph)SPK ddPTM_HeLa_SAHA_4h_R1 2 DVVLSTSPK 9 0 A0A075B784;Q9P275 A0A075B784 USP36 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 36 1 0 DVVLS(0.003)T(0.868)S(0.128)PK;DVVLS(0.027)T(0.852)S(0.121)PK ; 121.68 0.0059136 60473000 16377 16122.6 13867.9 16429.8 16874.3 16243.1 17191.2 16796.5 15488.7 14558.8 TRUE FALSE FALSE 18099.608 16644.98282 15757.74519 16747.82254 15581.39478 14859.0965 15256.80093 16366.86985 15380.91288 15186.50112 1.191822123 1.096038033 1.037615252 1.102809818 1.026002939 0.978441076 1.004629099 1.077724864 1.012801616 1 13.8905019 -5.705116655 6.048417109 1.089486057 1.016499062 0.12917479 0.057149162 0.280782736 21.17635773 0.011037284 0.022105474 1.97E-06 5.705116655 -0.072986994 DVVLSTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 DVVLSTSPK 9 0 A0A075B784;Q9P275 A0A075B784 USP36 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 36 1 0 DVVLS(0.004)T(0.12)S(0.876)PK;DVVLS(0.001)T(0.095)S(0.904)PK ; 123.51 0.0030857 50479000 11417.8 11150.3 10675.4 11456.9 11800.1 12574.1 12407.2 11334.1 11591.7 11843.2 TRUE FALSE FALSE 12618.77659 11511.57704 12130.18792 11678.66487 10895.97889 11502.71594 11011.1092 11044.19013 11511.03242 12353.81831 1.021447481 0.931823404 0.981897872 0.945348602 0.881992807 0.931106129 0.891312218 0.893990008 0.931779319 1 13.5926694 -6.41955665 0.831017404 1.009978183 0.896663259 0.409823382 0.034418122 0.190023572 0.261158718 0.004790501 0.009846797 3.81E-07 6.41955665 -0.113314923 DVVQAYPEVR ddPTM_HeLa_SAHA_4h_R1 1 DVVQAYPEVR 10 0 Q08211 Q08211 DHX9 ATP-dependent RNA helicase A 0 0 94.309 0.016191 17682000 1740.4 2196.7 1979.4 1390.6 2200 1587.7 2110 1660.4 1732 1892.1 FALSE FALSE TRUE 1923.463257 2267.874521 2249.142324 1417.517074 2031.436475 1452.419028 1872.577247 1617.929372 1719.946871 1973.677691 0.974557936 1.14906022 1.139569208 0.718211023 1.029264548 0.735894738 0.948775606 0.81975359 0.871442627 1 10.9466707 -6.264691852 24.99908881 1.012658892 0.85942408 0.370677886 0.113960253 243.4414775 1871134.5 0.01542629 0.024165847 5.44E-07 6.264691852 -0.153234812 DVYLS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 DVYLSPR 7 0 P38159;P38159-2;H3BUY5;H0Y6E7;H3BT71;Q96E39 P38159;Q96E39 RBMX;RBMXL1 "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed;RNA binding motif protein, X-linked-like-1" 1 0 DVYLS(1)PR;DVYLS(1)PR;DVYLS(1)PR;DVYLS(1)PR ;;; 178.55 1.21E-09 1710356000 21000 23681.2 17038.9 22265.4 24454.2 27148.9 24532.3 20959.8 28187.7 22627.2 TRUE FALSE FALSE 23208.87635 24448.48642 19360.87256 22696.37901 22580.52448 24835.66098 21771.86104 20423.67867 27991.5395 23602.76933 0.983311578 1.035831265 0.820279701 0.961598137 0.956689623 1.052235042 0.922428243 0.865308574 1.185943019 1 14.52666852 DVYLS(ph)PRDDGYSTK ddPTM_HeLa_SAHA_4h_R1 4 DVYLSPRDDGYSTK 14 1 P38159;P38159-2;H3BUY5;H0Y6E7;H3BT71;Q96E39 P38159;Q96E39 RBMX;RBMXL1 "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed;RNA binding motif protein, X-linked-like-1" 1 0 DVYLS(0.999)PRDDGYS(0.001)TK;DVYLS(1)PRDDGYSTK;DVY(0.002)LS(0.779)PRDDGY(0.001)S(0.211)T(0.008)K;DVYLS(0.785)PRDDGY(0.005)S(0.184)T(0.025)K ;;; 154.81 0.00016766 532860100 6004.1 4391.98 5188.3 5386.3 5461.6 5212.4 5999.6 6775.1 3609.39 4713.6 TRUE FALSE FALSE 6635.638786 4534.283034 5895.334504 5490.559625 5043.133388 4768.274196 5324.509218 6601.802752 3584.271961 4916.826364 1.349577613 0.922197104 1.199012141 1.116687721 1.02568873 0.969786981 1.082915853 1.342695931 0.728980789 1 12.26351169 -7.254014985 24.91332748 1.165078317 1.091194046 0 0.193561075 1591.671999 5341026.735 0.027591289 0.033447718 5.57E-08 7.254014985 -0.073884272 DWEDDS(ph)DEDMSNFDR ddPTM_HeLa_SAHA_4h_R1 10 DWEDDSDEDMSNFDR 15 0 A0A087WYT3;Q15185-2;Q15185-4;Q15185;B4DDC6 A0A087WYT3 PTGES3 Prostaglandin E synthase 3 1 0 DWEDDS(0.804)DEDMS(0.196)NFDR;DWEDDS(1)DEDMSNFDR;DWEDDS(0.999)DEDMS(0.001)NFDR;DWEDDS(0.996)DEDMS(0.004)NFDR;DWEDDS(1)DEDMSNFDR;DWEDDS(1)DEDMSNFDR;DWEDDS(1)DEDMSNFDR;DWEDDS(1)DEDMSNFDR;DWEDDS(0.956)DEDMS(0.044)NFDR;DWEDDS(0.995)DEDMS(0.005)NFDR ;;;;;;;;; 350.14 2.54E-156 2668116800 5683.85 9979.92 5477.49 8186 8097.47 9478.25 8164.77 5995.9 13122.17 8092.89 TRUE FALSE FALSE 6281.703421 10303.27596 6223.933812 8344.451867 7477.043598 8670.649777 7246.048591 5842.53356 13030.85175 8441.814094 0.744117716 1.220504958 0.737274446 0.98846667 0.885715264 1.027107406 0.858352069 0.692094554 1.543607998 1 13.04333734 -4.311775033 3.849827665 0.90805024 0.680675963 0.017666992 0.242424306 0.299404777 8.085771955 0.019453318 0.171498669 4.88E-05 4.311775033 -0.227374277 DWEDDSDEDMS(ph)NFDR ddPTM_HeLa_SAHA_4h_R1 1 DWEDDSDEDMSNFDR 15 0 A0A087WYT3;Q15185-2;Q15185-4;Q15185;B4DDC6 A0A087WYT3 PTGES3 Prostaglandin E synthase 3 1 0 DWEDDS(0.01)DEDMS(0.99)NFDR 97.813 0.0092315 11064000 863.15 1255.9 924.08 1156.4 810.13 1281.7 1069.4 769.73 2095.4 1147.7 TRUE FALSE FALSE 953.9400773 1296.591984 1050.00881 1178.783794 748.0580144 1172.491949 949.0682975 750.0414212 2080.817941 1197.182964 0.796820625 1.083035779 0.877066281 0.98463128 0.62484853 0.979375739 0.792751255 0.626505258 1.738095182 1 10.22542794 -3.31459389 0.607015472 0.914653409 5.64E-31 0.09323798 0.286818349 8.962641873 0.978904886 0.022096215 7.484862514 0.000484625 3.31459389 -0.914653409 DWEQFHQPR ddPTM_HeLa_SAHA_4h_R1 3 DWEQFHQPR 9 0 Q9H773 Q9H773 DCTPP1 dCTP pyrophosphatase 1 0 0 ;; ;; 145.72 5.72E-06 16299800 6549.6 7002.3 5997.1 7581.3 7779.5 8991.3 7719.4 5517.5 9547.1 7337.9 FALSE FALSE TRUE 7238.516979 7229.179114 6814.353556 7728.047024 7183.436391 8225.190656 6850.792796 5376.370339 9480.660954 7654.27278 0.945683174 0.94446322 0.890267926 1.009638309 0.938487117 1.074588128 0.895028567 0.702401194 1.23861028 1 12.9020496 -4.336900205 3.398382934 0.971340445 0.68733923 0.448787078 0.097090467 0.094548157 1.779928433 0.006466279 0.060778582 4.60E-05 4.336900205 -0.284001214 DWGEHNQR ddPTM_HeLa_SAHA_4h_R1 2 DWGEHNQR 8 0 Q14151 Q14151 SAFB2 Scaffold attachment factor B2 0 0 ; ; 109.48 0.0072127 5892200 4695.4 3761.8 4162.6 5164.8 5229.6 5784.5 5946.8 4612.5 5272.1 5913.2 FALSE FALSE TRUE 5189.283715 3883.684788 4729.85745 5264.772172 4828.909178 5291.628057 5277.650413 4494.518929 5235.411027 6168.14699 0.84130351 0.629635577 0.766819834 0.853541944 0.782878421 0.857895907 0.855629806 0.728665989 0.84878182 1 12.59062143 -8.513216769 0.916984344 0.983076962 0.791533796 0.254498071 0.080153566 0.284347335 0.490719276 0.027698903 0.015053956 3.07E-09 8.513216769 -0.191543166 DWILPSDYDHAEAEAR ddPTM_HeLa_SAHA_4h_R1 4 DWILPSDYDHAEAEAR 16 0 O43852-5;O43852;O43852-3;O43852-9;O43852-2;O43852-4;H0Y875;O43852-15 O43852-5 CALU Calumenin 0 0 ;;; ;;; 224.67 1.76E-22 23244500 6624.7 8858 5484.3 8178.6 9358.7 11899.8 8596.1 7424.5 12895.1 8796.6 FALSE FALSE TRUE 7321.516341 9145.005012 6231.671843 8336.908629 8641.638428 10885.87009 7628.844204 7234.592041 12805.36195 9175.864476 0.797910253 0.996636888 0.679137302 0.908569285 0.941779213 1.186359075 0.831403322 0.788437107 1.395548287 1 13.16362837 -4.539343278 24.99980608 0.914546798 0.799178308 0.020726145 0.197281474 367.2943204 557701.1369 0.018408357 0.068913784 2.89E-05 4.539343278 -0.11536849 DWPDAR ddPTM_HeLa_SAHA_4h_R1 4 DWPDAR 6 0 P12277;G3V4N7;H0YJG0;H0YJJ7;F8WCN3;P06732;P12532;P17540;P12532-2 P12277 CKB;CKMT1B;CKM;CKMT1A;CKMT2 "Creatine kinase B-type;Creatine kinase M-type;Creatine kinase M-type, N-terminally processed;Creatine kinase U-type, mitochondrial;Creatine kinase S-type, mitochondrial" 0 0 ;;; ;;; 160.17 7.63E-07 72388000 18581.5 17024.1 15824.6 17932 18726.9 22476.5 21514.8 19522.6 20016.2 18361.4 FALSE FALSE TRUE 20535.98742 17575.69201 17981.09408 18279.09979 17292.04897 20561.37575 19093.89808 19023.24016 19876.90563 19153.04981 1.072204564 0.917644562 0.938811012 0.95437019 0.902835274 1.073530114 0.996911629 0.993222507 1.037793241 1 14.22528652 -7.268736924 24.95670097 1.034096599 0.969170541 0.29863963 0.048024468 583.0035448 1993795.308 0.009037328 0.010442074 5.39E-08 7.268736924 -0.064926057 DWQSGR ddPTM_HeLa_SAHA_4h_R1 2 DWQSGR 6 0 P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98 P21333-2 FLNA Filamin-A 0 0 ; ; 138.37 0.0012636 45526700 3903.2 3609.3 3062.38 4855.7 4693.1 6202.8 5052.9 4694.8 4218.2 5398.7 FALSE FALSE TRUE 4313.756485 3726.243688 3479.705198 4949.689095 4333.515692 5674.286544 4484.334393 4574.713814 4188.845203 5631.464378 0.766009726 0.661682901 0.617904148 0.878934636 0.769518442 1.007604091 0.796299877 0.812348886 0.743828767 1 12.45929441 -9.165927602 0.999399513 0.995620799 0.78978338 0 0.127623576 0.462111695 0.855185112 0.064170295 0.019926657 6.82E-10 9.165927602 -0.20583742 DWTISR ddPTM_HeLa_SAHA_4h_R1 1 DWTISR 6 0 J3KR24;A0A0A0MSX9;P41252 J3KR24 IARS "Isoleucine--tRNA ligase, cytoplasmic" 0 0 123.99 0.020689 11641000 1936.6 1723.5 2161 2060.1 1997.4 2361.9 2753.3 2069.2 1540.4 2063.6 FALSE FALSE TRUE 2140.300473 1779.342531 2455.489826 2099.976214 1844.359644 2160.652832 2443.491438 2016.27286 1529.680231 2152.571895 0.994299182 0.826612358 1.140723723 0.975566121 0.856816745 1.003754085 1.135149745 0.936680844 0.710629101 1 11.07184571 -4.988069843 24.96747138 0.98333361 1.044299448 0 0.126491641 464.0078237 971062.4061 0.011939664 0.035783179 1.03E-05 4.988069843 0.060965838 DY(ph)SADDT(ph)RK ddPTM_HeLa_SAHA_4h_R1 1 DYSADDTRK 9 1 A0A075B6G3;P11532-4;A0A087WTU7;A0A5H1ZRP8;A0A087WV90;P11532-11;P11532;P11532-16;A0A5H1ZRQ1;P11532-12;P11532-14;P11532-15;H0Y304;A0A5H1ZRR9;P11532-2;P11532-13;P11532-3;A0A5H1ZRQ8;A0A5H1ZRP9 A0A075B6G3 DMD Dystrophin 2 0 DY(0.983)S(0.017)ADDT(1)RK 92.051 0.011932 1801300 0 0 105.56 0 104.84 57.112 0 0 0 53.225 TRUE FALSE FALSE 0 0 119.9451671 0 96.80718185 52.2457363 0 0 0 55.51979023 0 0 2.160403823 0 1.743651794 0.941029065 0 0 0 1 5.794930212 -4.746384934 24.95932142 0.668559092 6.88E-05 0.133290787 0.731669543 393.9716491 653168.6367 0.09993585 0.370915648 1.79E-05 4.746384934 -0.668490318 DYAAYNVLDDPELR ddPTM_HeLa_SAHA_4h_R1 2 DYAAYNVLDDPELR 14 0 Q86SX6 Q86SX6 GLRX5 "Glutaredoxin-related protein 5, mitochondrial" 0 0 ; ; 193.28 5.31E-08 5643500 1260.69 1719.84 1346.06 1285.18 1514.48 1568.44 1824.84 1322.2 1555.26 1741.05 FALSE FALSE TRUE 1393.295158 1775.563944 1529.494047 1310.056517 1398.44087 1434.800088 1619.5042 1288.380039 1544.436819 1816.115186 0.767184355 0.977671437 0.842178987 0.721351006 0.770017717 0.790038043 0.891740906 0.709415377 0.850406863 1 10.82663999 -11.42272322 0.334344914 1.427964341 0.794384303 0.122987755 0.089104109 8.490791076 0.393150795 2.521606561 0.02841071 3.78E-12 11.42272322 -0.633580039 DYAFIHFDER ddPTM_HeLa_SAHA_4h_R1 4 DYAFIHFDER 10 0 O60506-2;O60506;O60506-4;O60506-3;B7Z645;O60506-5 O60506-2 SYNCRIP Heterogeneous nuclear ribonucleoprotein Q 0 0 ;;; ;;; 138.25 0.0013251 48373000 17380.8 23085.8 19100.3 25431.9 26384.2 29550.5 26736.6 17487.4 34575 24501.8 FALSE FALSE TRUE 19208.99229 23833.79507 21703.18941 25924.1712 24362.6483 27032.63115 23728.1274 17040.09763 34334.38976 25558.19251 0.751578668 0.93253054 0.849167617 1.014319428 0.953222662 1.057689473 0.928396145 0.666717634 1.343380982 1 14.64149819 -6.320951984 24.9942934 0.881955486 0.933353515 0 0.184664015 814.6745325 342148.0829 0.020266653 0.030957828 4.78E-07 6.320951984 0.051398029 DYAFVHFEDR ddPTM_HeLa_SAHA_4h_R1 6 DYAFVHFEDR 10 0 O43390;B4DT28;O43390-4;O43390-3;O43390-2;A0A286YEZ8 O43390 HNRNPR Heterogeneous nuclear ribonucleoprotein R 0 0 ;;;;; ;;;;; 157.97 0.00027088 63771100 17696.91 21648.4 19524.7 29970.5 27234.7 27321.2 27228 22936.3 30207.8 23838.2 FALSE FALSE TRUE 19558.35219 22349.82236 22185.42444 30550.62237 25147.98317 24993.28006 24164.23378 22349.62266 29997.58146 24865.98146 0.786550582 0.898811189 0.89219983 1.228611161 1.011340864 1.005119387 0.971778806 0.898803158 1.206370298 1 14.60188576 DYAFVHMER ddPTM_HeLa_SAHA_4h_R1 1 DYAFVHMER 9 0 E9PB51;Q9BWF3;D6R9K7;J3QRR5;Q9BWF3-3;Q9BWF3-4;Q9BWF3-2;Q9BQ04;E9PLB0;E9PM61;U3KQD5 E9PB51;Q9BQ04 RBM4;RBM4B RNA-binding protein 4;RNA-binding protein 4B 0 0 93.058 0.016901 3441800 2518.2 3178.2 2595.8 3395.4 3310.3 3693.1 3844 2144.2 4049 3059.2 FALSE FALSE TRUE 2783.07583 3281.175765 2949.542106 3461.122877 3056.665529 3378.427103 3411.463003 2089.354469 4020.822679 3191.097083 0.872137625 1.028228123 0.924303469 1.084618483 0.957872935 1.058703955 1.069056476 0.654744877 1.260012646 1 11.63983679 -4.249828375 24.78917793 0.968675908 0.654744667 0.414053856 0.115079979 871.9486813 1861548.685 0.010954716 0.233558686 5.63E-05 4.249828375 -0.313931241 DYASHLS(ph)PGSIIQPQR ddPTM_HeLa_SAHA_4h_R1 1 DYASHLSPGSIIQPQR 16 0 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9JQE8;C9J330 C9JE98 NCOR2 Nuclear receptor corepressor 2 1 0 DYAS(0.057)HLS(0.941)PGS(0.001)IIQPQR 134.33 9.73E-05 6293500 821.93 910.31 675.86 1053.2 838.81 1036.8 921.79 1055.6 1035.9 862.68 TRUE FALSE FALSE 908.3843685 939.8046413 767.9626811 1073.586209 774.540559 948.4588071 818.0677632 1028.59928 1028.691088 899.8743567 1.009456889 1.044373178 0.853411007 1.193040118 0.860720781 1.05399026 0.909091094 1.143047663 1.143149685 1 9.813579772 DYDDMS(ph)PR ddPTM_HeLa_SAHA_4h_R1 12 DYDDMSPR 8 0 P61978;P61978-2;P61978-3;Q5T6W2 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 1 0 DYDDMS(1)PR;DYDDMS(1)PR;DYDDMS(1)PR;DYDDMS(1)PR;DYDDMS(1)PR;DYDDMS(1)PR;DYDDMS(1)PR;DYDDMS(1)PR;DYDDMS(1)PR;DYDDMS(1)PR;DYDDMS(1)PR;DYDDMS(1)PR ;;;;;;;;;;; 151.83 0.00021208 5933975900 49564.91 56998.7 45109.9 48597.4 52066.8 44602.08 52560 49522.7 53597.7 50427.2 TRUE FALSE FALSE 54778.37465 58845.49528 51257.24225 49538.07295 48077.45303 40801.73186 46645.81047 48255.98104 53224.70924 52601.36338 1.041386974 1.118706655 0.974447029 0.941764049 0.913996329 0.775678219 0.886779495 0.91739031 1.011850375 1 15.68281257 -6.025455194 1.760016915 1.026966113 0.86440065 0.701513504 0.048828375 0.153474768 0.94418039 0.007946174 0.015866148 9.43E-07 6.025455194 -0.162565463 DYDDMSPR ddPTM_HeLa_SAHA_4h_R1 2 DYDDMSPR 8 0 P61978;P61978-2;P61978-3;Q5T6W2 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 ; ; 153.04 0.0010252 58108500 6629.5 6306.3 6660.4 6906 6876.8 7249.9 7642.3 7439.5 6782.7 6390.6 FALSE FALSE TRUE 7326.821227 6510.628258 7568.044626 7039.675616 6349.90107 6632.167733 6782.368291 7249.208362 6735.498638 6666.130041 1.099111656 0.976672855 1.135298078 1.056036347 0.952561836 0.994905244 1.017437141 1.087468789 1.010406127 1 12.70263375 DYDEEEQGYDS(ph)EK ddPTM_HeLa_SAHA_4h_R1 1 DYDEEEQGYDSEK 13 0 Q5T757;Q05519-2;Q05519 Q5T757 SRSF11 Serine/arginine-rich splicing factor 11 1 0 DYDEEEQGYDS(1)EK 218.21 3.19E-16 19643000 1124.6 1454.1 907.23 1006 1274.1 1477.5 1005.8 1169.5 1775.7 1326.1 TRUE FALSE FALSE 1242.890588 1501.213794 1030.86258 1025.472585 1176.478733 1351.608688 892.6247369 1139.585883 1763.342759 1383.274661 0.898513233 1.085260821 0.745233473 0.741336926 0.850502627 0.977107964 0.645298264 0.823831966 1.274759677 1 10.43387193 -6.745042825 24.99987454 0.960725527 0.798371782 0.410595468 0.135779244 180.3007114 274904.3541 0.014774835 0.020859798 1.80E-07 6.745042825 -0.162353745 DYDEEEQGYDS(ph)EKEKKEEK ddPTM_HeLa_SAHA_4h_R1 1 DYDEEEQGYDSEKEKKEEK 19 3 Q5T757;Q05519-2;Q05519 Q5T757 SRSF11 Serine/arginine-rich splicing factor 11 1 0 DYDEEEQGY(0.042)DS(0.958)EKEKKEEK 47.726 0.019205 51729000 5010.9 3293.5 4270.8 3807.4 4451.4 3504.5 4514.8 4774.9 3637.9 3332.2 TRUE FALSE FALSE 5537.969453 3400.211561 4852.802383 3881.097733 4110.334694 3205.896884 4006.782822 4652.764972 3612.583558 3475.867449 1.593262555 0.978233955 1.396141381 1.116583929 1.182534937 0.922330017 1.152743273 1.338591025 1.039332946 1 11.76315735 -6.219323383 24.57796387 1.267729258 1.133108721 0 0.204906114 971.4920292 566940.8933 0.037629927 0.062401847 6.03E-07 6.219323383 -0.134620538 DYDWINAER ddPTM_HeLa_SAHA_4h_R1 1 DYDWINAER 9 0 A0A0C4DGE5;O95347-2;O95347 A0A0C4DGE5 SMC2 Structural maintenance of chromosomes protein 2 0 0 137.95 0.0076092 7141400 1582 1623.1 1164.4 1731.8 1871.7 1548.5 1685.8 1851.6 2203 1721.9 FALSE FALSE TRUE 1748.402018 1675.689505 1323.078368 1765.321493 1728.29075 1416.559088 1496.109347 1804.238753 2187.669144 1796.139536 0.973422155 0.932939491 0.736623376 0.982842067 0.962225215 0.788668731 0.832958307 1.004509236 1.21798396 1 10.81068372 -7.124773382 3.984111325 0.987375309 0.882853036 0.280857423 0.108649698 0.2342021 6.443267336 0.013104509 0.016222582 7.50E-08 7.124773382 -0.104522272 DYEEVGADS(ph)ADGEDEGEEY ddPTM_HeLa_SAHA_4h_R1 3 DYEEVGADSADGEDEGEEY 19 0 Q9BQE3;F5H5D3 Q9BQE3 TUBA1C Tubulin alpha-1C chain 1 0 DYEEVGADS(0.993)ADGEDEGEEY(0.007);DYEEVGADS(1)ADGEDEGEEY;DYEEVGADS(1)ADGEDEGEEY ;; 176.89 3.44E-09 17405200 4775.99 6326.61 4535.79 5458.42 6227.7 7845.1 6571 5535.92 8443.8 6005 TRUE FALSE FALSE 5278.350541 6531.596315 5153.90384 5564.075612 5750.534971 7176.653345 5831.613786 5394.319182 8385.038908 6263.904938 0.842661342 1.042735543 0.82279407 0.888275871 0.918043142 1.145715559 0.930986955 0.861175135 1.338628059 1 12.6128466 DYEEVGADSADGEDEGEEY ddPTM_HeLa_SAHA_4h_R1 4 DYEEVGADSADGEDEGEEY 19 0 Q9BQE3;F5H5D3 Q9BQE3 TUBA1C Tubulin alpha-1C chain 0 0 ;;; ;;; 237.36 1.01E-32 46447700 20631.1 26314 18809.3 22780.5 24914 28610.7 25214.1 21839.2 32301.3 24093.9 FALSE FALSE TRUE 22801.17376 27166.59087 21372.53345 23221.44952 23005.0947 26172.9074 22376.94311 21280.58489 32076.51262 25132.70594 0.907231152 1.080925823 0.85038728 0.923953416 0.91534492 1.041388359 0.890351527 0.846728758 1.276285677 1 14.61727839 DYEEVGVDSVEGEGEEEGEEY ddPTM_HeLa_SAHA_4h_R1 2 DYEEVGVDSVEGEGEEEGEEY 21 0 P68363;P68363-2 P68363 TUBA1B Tubulin alpha-1B chain 0 0 ; ; 216.06 2.51E-26 15556900 19615.9 25781.2 19152.1 23953.7 24565.1 30497 25567.3 21773.9 33557 24808.3 FALSE FALSE TRUE 21679.19036 26616.5278 21762.04845 24417.3585 22682.92735 27898.48403 22690.40011 21216.95517 33323.4741 25877.90722 0.837748979 1.028542516 0.840950864 0.943560014 0.876536389 1.078081152 0.876825159 0.819886824 1.28771905 1 14.65943333 -9.662170872 1.514576659 0.999920741 0.90576991 0.215215608 0.122281983 0.597858241 2.471192085 0.055975074 0.012619592 2.18E-10 9.662170872 -0.094150832 DYEIESQNPLAS(ph)PTNTLLGSAK ddPTM_HeLa_SAHA_4h_R1 2 DYEIESQNPLASPTNTLLGSAK 22 0 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 DYEIESQNPLAS(0.961)PT(0.036)NT(0.003)LLGSAK;DYEIESQNPLAS(0.996)PT(0.004)NTLLGSAK ; 197.04 2.87E-16 141138000 7465 8046.3 6456.8 7930 7845.8 9592.1 9194 7958.4 7981 7779.3 TRUE FALSE FALSE 8250.202951 8307.005399 7336.699078 8083.496617 7244.656499 8774.799116 8159.466923 7754.835652 7925.459571 8114.703694 1.016697992 1.023697933 0.904124088 0.996154256 0.892781397 1.081345598 1.005516311 0.95565235 0.976678862 1 12.9863227 DYETATLSDIK ddPTM_HeLa_SAHA_4h_R1 2 DYETATLSDIK 11 0 O43707;O43707-2 O43707 ACTN4 Alpha-actinin-4 0 0 ; ; 171.85 0.00048911 21417500 3847.8 3723.2 3360 3686.1 3684 4560.2 4413.4 4291.2 4379.8 4023.4 FALSE FALSE TRUE 4252.529258 3843.834123 3817.883302 3757.449796 3401.732716 4171.645305 3916.792617 4181.437318 4349.320615 4196.868464 1.013262459 0.915881485 0.909698108 0.895298442 0.810540703 0.993990005 0.933265517 0.996323176 1.036325215 1 12.03509753 -7.260069026 24.49316316 1.006262829 0.919530193 0.421303533 0.05019753 67.91166604 1213828.413 0.008267788 0.009830033 5.49E-08 7.260069026 -0.086732636 DYFEEYGK ddPTM_HeLa_SAHA_4h_R1 3 DYFEEYGK 8 0 P22626;P22626-2;A0A087WUI2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 0 0 ;; ;; 131.06 0.0097806 136247600 6337.89 6594.53 4733.27 6810.3 6074.7 8086.7 7208.2 5933.72 9301 5916.99 FALSE FALSE TRUE 7004.538349 6808.197099 5378.295386 6942.123204 5609.257798 7397.667665 6397.114365 5781.944034 9236.273584 6172.100396 1.134871097 1.103060006 0.871388189 1.124758633 0.90880858 1.198565673 1.036456628 0.936787101 1.4964555 1 12.59154581 DYFEQYGK ddPTM_HeLa_SAHA_4h_R1 1 DYFEQYGK 8 0 F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8VZ49;A0A2R8Y4L2;Q32P51;F8VYN5 F8W6I7 HNRNPA1;HNRNPA1L2 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed;Heterogeneous nuclear ribonucleoprotein A1-like 2" 0 0 126.41 0.015313 7790900 1191.6 1479.8 1254.8 1491.3 1163.6 1502.3 1662.9 1267.3 1473.9 1316.2 FALSE FALSE TRUE 1316.937955 1527.746491 1425.797609 1520.166268 1074.445219 1374.295588 1475.786115 1234.884301 1463.64301 1372.947823 0.959204664 1.112749126 1.038493659 1.107227997 0.782582704 1.000981658 1.074903278 0.899440081 1.066058728 1 10.42306108 DYGNS(ph)PLHR ddPTM_HeLa_SAHA_4h_R1 2 DYGNSPLHR 9 0 A0A0U1RRM4;A0A0D9SF20;A0A087WUW5;K7ELW5;A6NLN1;P26599;P26599-2;P26599-3 A0A0U1RRM4;A6NLN1 PTBP1 Polypyrimidine tract-binding protein 1 1 0 DYGNS(1)PLHR;DY(0.002)GNS(0.998)PLHR ; 117.95 0.003112 11763100 4659.3 5058.6 4745.6 5603.7 6492.2 6711 5774.6 5916.2 6519.5 5926.6 TRUE FALSE FALSE 5149.386552 5222.501959 5392.305654 5712.167717 5994.769039 6139.185045 5124.82681 5764.872171 6474.130269 6182.12473 0.832947696 0.844774602 0.872241485 0.923981312 0.969693965 0.993054219 0.828974994 0.932506609 1.047233848 1 12.59388705 -6.016033657 23.52893754 0.908371831 0.930524612 0 0.073808965 1548.11326 2271820.362 0.011909993 0.02015989 9.64E-07 6.016033657 0.022152781 DYGNSPLHR ddPTM_HeLa_SAHA_4h_R1 1 DYGNSPLHR 9 0 A0A0U1RRM4;A0A0D9SF20;A0A087WUW5;K7ELW5;A6NLN1;P26599;P26599-2;P26599-3 A0A0U1RRM4;A6NLN1 PTBP1 Polypyrimidine tract-binding protein 1 0 0 111.61 0.0063099 3402900 1964.7 2383.2 1456.5 2121.9 2802.5 4083.5 3232.2 3123.3 3044.5 1941.2 FALSE FALSE TRUE 2171.35616 2460.417244 1654.984235 2162.972443 2587.773055 3735.562827 2868.504349 3043.410508 3023.313077 2024.894632 1.072330444 1.215084086 0.817318693 1.068190121 1.277979118 1.844818376 1.416619069 1.502996976 1.493071802 1 10.98363112 -5.543407506 3.782335598 1.035315102 1.573494109 0.50914823 0.20021404 0.075282781 2.351215748 0.019103857 0.041591091 2.86E-06 5.543407506 0.538179007 DYHFKVDNDENEHQLSLR ddPTM_HeLa_SAHA_4h_R1 1 DYHFKVDNDENEHQLSLR 18 1 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 0 0 110.56 0.00035134 12589000 781.65 686.12 848.96 952.68 920 578.75 902.7 768.15 666.04 897.75 FALSE FALSE TRUE 863.8675333 708.3507382 964.6518476 971.120499 849.5097988 529.437244 801.1258202 748.5018353 661.4049734 936.456396 0.922485593 0.756416146 1.030108665 1.037016249 0.907153608 0.565362409 0.855486517 0.799291711 0.706284859 1 9.87106801 -5.501975315 24.35318082 0.956121175 0.749035329 0.217540333 0.128440044 368.3414326 429129.1556 0.014325637 0.031692771 3.15E-06 5.501975315 -0.207085846 DYHQQFR ddPTM_HeLa_SAHA_4h_R1 1 DYHQQFR 7 0 A0A6I8PIQ6;A0A0A0MS45;J3KNI1;Q9H9E3-3;Q9H9E3 A0A6I8PIQ6 COG4 Conserved oligomeric Golgi complex subunit 4 0 0 79.116 0.0080858 0 503.41 529.69 554.13 654.91 527.99 139.53 584.36 436.41 511.99 451.58 FALSE FALSE TRUE 556.3609735 546.8523035 629.6439506 667.5867301 487.5355203 127.641259 518.6062748 425.2472641 508.4270199 471.0498238 1.181108548 1.160922425 1.336682276 1.417231674 1.034997777 0.270971886 1.100958431 0.902764936 1.079348711 1 8.879735854 -5.506571608 24.96169441 1.139085952 0.769251143 0.412543597 0.227530964 606.1400563 927831.0145 0.033036263 0.072031747 3.11E-06 5.506571608 -0.369834809 DYIPVDQEELR ddPTM_HeLa_SAHA_4h_R1 2 DYIPVDQEELR 11 0 Q14204;A0A2R8Y706;A0A2R8YFZ7;A0A2R8Y6H2 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 ; ; 183.85 2.84E-05 9899100 4543.6 4337.3 3212.4 4041.3 4595.9 5826.6 4669.8 4239.2 5158.4 4165.3 FALSE FALSE TRUE 5021.516695 4477.831366 3650.169143 4119.525205 4243.763135 5330.1409 4144.341814 4130.767402 5122.502274 4344.886467 1.155730243 1.030598014 0.84010691 0.948131841 0.976725898 1.226761836 0.953843523 0.950719296 1.178972641 1 12.08510276 -6.999772262 24.99999887 1.074572172 0.986043169 0.214980448 0.103004195 13.08557129 1436196.144 0.017634634 0.023058167 1.00E-07 6.999772262 -0.088529003 DYIPVDQEELRDYVK ddPTM_HeLa_SAHA_4h_R1 1 DYIPVDQEELRDYVK 15 1 Q14204;A0A2R8Y706;A0A2R8YFZ7;A0A2R8Y6H2 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 136.33 0.00029615 2785600 956.89 1051.2 1124.5 802.73 1137.2 842.51 1103.4 1381.9 557.82 855.2 FALSE FALSE TRUE 1057.540081 1085.25957 1277.741004 818.2679999 1050.067982 770.7234082 979.242528 1346.552999 553.9380852 892.0718572 1.18548755 1.216560707 1.432329687 0.917266914 1.177111432 0.863970096 1.097717095 1.509466965 0.620956799 1 9.801016115 -9.201167173 0.998139835 1.002277572 1.16326388 0.207988422 0.223994054 1.035021638 1.890476815 0.114101578 0.033882838 6.29E-10 9.201167173 0.160986308 DYLEDQQGGREFWPQEVWSRY(ph)VKK ddPTM_HeLa_SAHA_4h_R1 1 DYLEDQQGGREFWPQEVWSRYVKK 24 3 E9PNM1;A0A1W2PQ47;P37268-4;P37268-3;P37268-2;P37268-5;P37268 E9PNM1 FDFT1 Squalene synthase 1 0 DY(0.007)LEDQQGGREFWPQEVWS(0.164)RY(0.829)VKK 40.381 0.020862 7254400 228.46 241.48 268.16 248.52 252.53 285.89 360.67 251.3 190.71 299.12 TRUE FALSE FALSE 252.490471 249.3041104 304.7034483 253.330464 233.181206 261.5305636 320.0864624 244.8721099 189.3828336 312.0165271 0.809221465 0.799009311 0.976561887 0.811913607 0.747336073 0.838194586 1.025863807 0.784804934 0.60696411 1 8.285478638 -9.368294711 1.042421209 1.001761728 0.849566756 0 0.147196863 0.521135697 0.994765054 0.059317383 0.014661603 4.28E-10 9.368294711 -0.152194971 DYLLCDYNRDGDSYR ddPTM_HeLa_SAHA_4h_R1 2 DYLLCDYNRDGDSYR 15 1 B1AK87;P47756-2;P47756;B1AK88;B1AK85;A0A6I8PRV6 B1AK87 CAPZB F-actin-capping protein subunit beta 0 0 ; ; 117.7 0.0014283 67102000 4739.7 3339.5 4370.5 2919.5 3512.3 2808.5 4321.8 3300.6 1380.39 3399.8 FALSE FALSE TRUE 5238.243393 3447.701991 4966.088979 2976.011144 3243.188333 2569.2 3835.49969 3216.175431 1370.783754 3546.382016 1.477066872 0.972174451 1.400325446 0.839168237 0.914506198 0.72445664 1.081524684 0.906889167 0.386530201 1 11.79213224 -6.247331713 24.79463891 1.219929043 0.895562335 0 0.311527549 598.658851 1052160.093 0.031123576 0.051440334 5.66E-07 6.247331713 -0.324366708 DYLLS(ph)ES(ph)EDEGDNDGERK ddPTM_HeLa_SAHA_4h_R1 1 DYLLSESEDEGDNDGERK 18 1 Q9BVJ6-3;Q9BVJ6 Q9BVJ6-3 UTP14A U3 small nucleolar RNA-associated protein 14 homolog A 2 0 DY(0.001)LLS(0.999)ES(1)EDEGDNDGERK 87.062 0.0054167 5498700 1629.3 1737.4 1584.6 1910.2 1951.7 2322 2063.3 1478.8 2553 2030.2 TRUE FALSE FALSE 1800.677249 1793.6929 1800.541036 1947.174683 1802.161168 2124.152537 1831.132054 1440.974437 2535.233465 2117.731858 0.850285764 0.846987731 0.850221443 0.919462337 0.850986475 1.003031866 0.864666623 0.680432904 1.197145642 1 11.04830421 -9.236537039 0.810337247 1.006669077 0.863554147 0.417716302 0.09905597 0.689331055 0.755544353 0.063328612 0.014689233 5.80E-10 9.236537039 -0.143114931 DYLLS(ph)ESEDEGDNDGER ddPTM_HeLa_SAHA_4h_R1 1 DYLLSESEDEGDNDGER 17 0 Q9BVJ6-3;Q9BVJ6 Q9BVJ6-3 UTP14A U3 small nucleolar RNA-associated protein 14 homolog A 1 0 DYLLS(0.992)ES(0.008)EDEGDNDGER 182.18 1.32E-09 5060600 271.23 312.49 288.12 324.25 288.94 409.83 252.18 298.98 450.08 438.77 TRUE FALSE FALSE 299.7592158 322.614881 327.3834931 330.5263276 266.8014796 374.9101784 223.8040427 291.3325245 446.9478566 457.687522 0.65494295 0.70488022 0.715299145 0.722165914 0.582933698 0.819140047 0.488988736 0.636531499 0.97653494 1 8.83821915 -10.62163217 0.316333436 1.407763708 0.634554409 0.711664664 0.082598725 3.237694911 0.211018308 0.992599838 0.034784468 2.39E-11 10.62163217 -0.773209299 DYLLS(ph)ESEDEGDNDGERK ddPTM_HeLa_SAHA_4h_R1 1 DYLLSESEDEGDNDGERK 18 1 Q9BVJ6-3;Q9BVJ6 Q9BVJ6-3 UTP14A U3 small nucleolar RNA-associated protein 14 homolog A 1 0 DYLLS(0.747)ES(0.253)EDEGDNDGERK 118.19 0.00031948 3831200 536.64 770.4 595.06 926.2 812.08 786.02 721.08 742.79 911.83 559.95 TRUE FALSE FALSE 593.0862574 795.3614655 676.1516779 944.1279403 749.8586058 719.046674 639.9421806 723.7905073 905.4845008 584.0921848 1.015398379 1.361705371 1.157611239 1.616402282 1.283801813 1.231049983 1.095618461 1.239171703 1.550242452 1 9.190052271 -7.27408826 22.62905855 1.007271416 1.282329467 0 0.216275668 132.8142667 237606.3518 0.022453332 0.025794011 5.32E-08 7.27408826 0.275058051 DYLSS(ph)SFLCSDDDR ddPTM_HeLa_SAHA_4h_R1 1 DYLSSSFLCSDDDR 14 0 A0A087WUU7;Q96GX5-2;Q96GX5-3;Q96GX5 A0A087WUU7 MASTL Serine/threonine-protein kinase greatwall 1 0 DYLS(0.003)S(0.499)S(0.499)FLCSDDDR 169.62 3.19E-17 0 515.63 521.36 383.09 599.27 550.38 512.95 504.33 682.4 424.8 515.13 TRUE FALSE FALSE 569.8663292 538.2524061 435.2955102 610.8697374 508.2100033 469.2437742 447.5814611 664.9451961 421.8437822 537.3397753 1.060532563 1.001698424 0.810093595 1.136840721 0.945788915 0.873271989 0.832957994 1.237476224 0.785059662 1 9.069690824 -6.993720324 24.99582468 1.028718022 0.962914177 0 0.146769473 378.2241004 1505484.576 0.018937077 0.024851966 1.01E-07 6.993720324 -0.065803846 DYNASAST(ph)ISPPSSMEEDKFSR ddPTM_HeLa_SAHA_4h_R1 1 DYNASASTISPPSSMEEDKFSR 22 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 DYNAS(0.008)AS(0.114)T(0.575)IS(0.3)PPS(0.002)S(0.001)MEEDKFSR 68.565 0.0044328 25639000 673.21 925.36 671.11 845.1 1027.1 952.6 753.87 743.8 1330 687.03 TRUE FALSE FALSE 744.0213166 955.3422712 762.5653758 861.4581325 948.4038199 871.4331208 669.0425635 724.774673 1320.744422 716.6512255 1.038191648 1.333064449 1.064067637 1.202060503 1.323382681 1.215979391 0.933567877 1.011335287 1.842938901 1 9.485127359 -7.490434019 22.83323437 1.016849026 1.155738869 0 0.287514826 170.3117293 119860.4583 0.021580276 0.023744426 3.23E-08 7.490434019 0.138889843 DYNASASTIS(ph)PPSSMEEDKFSR ddPTM_HeLa_SAHA_4h_R1 1 DYNASASTISPPSSMEEDKFSR 22 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 DYNAS(0.003)AS(0.029)T(0.084)IS(0.884)PPSSMEEDKFSR 85.224 0.0003903 27325000 808.71 1159.9 832.26 1089.6 1258.3 1278.8 1322.5 1480.1 1912.6 959.73 TRUE FALSE FALSE 893.7738283 1197.481521 945.6760586 1110.690784 1161.889326 1169.839046 1173.688819 1442.241185 1899.290061 1001.108657 0.892784037 1.196155395 0.944628789 1.109460772 1.160602616 1.168543532 1.172389042 1.440644005 1.897186731 1 9.967382853 -1 0.311087091 0.948926137 5.146067317 0 0.309969544 19.48694484 0.249029022 0.031175296 46.72835954 0.1 1 4.19714118 DYNDADMAR ddPTM_HeLa_SAHA_4h_R1 1 DYNDADMAR 9 0 Q14696;H0YLI4;Q14696-2 Q14696 MESDC2 LDLR chaperone MESD 0 0 138.08 0.0075381 8784900 1485.4 1727.7 1600.4 1789.9 1705.3 2038.6 1598.9 1825.5 1791.6 1446.8 FALSE FALSE TRUE 1641.641187 1783.678614 1818.494177 1824.546103 1574.640282 1864.899811 1418.987564 1778.806353 1779.13211 1509.178628 1.087771292 1.181887008 1.204956221 1.2089663 1.043375683 1.235705155 0.940238311 1.178658589 1.178874439 1 10.55954786 -8.153909012 1.048683557 1.016499734 1.13666111 0 0.099563705 0.428704074 0.98729862 0.023606823 0.017398893 7.02E-09 8.153909012 0.120161376 DYNPYNYSDSIS(ph)PFNK ddPTM_HeLa_SAHA_4h_R1 2 DYNPYNYSDSISPFNK 16 0 E3W994;J3KR49;O75122;A0A0U1RQI6;H7C4X8;H7C5M8;E7ERI8;E7EW49;O75122-3 E3W994;E7ERI8 CLASP2 CLIP-associating protein 2 1 0 DYNPYNYSDS(0.006)IS(0.994)PFNK;DYNPYNYS(0.005)DS(0.207)IS(0.788)PFNK ; 210.91 1.41E-16 12946700 1192.7 1381.16 1315.13 1471.97 1513.6 1659.33 1627.71 1560.69 1501.78 1725.58 TRUE FALSE FALSE 1318.153658 1425.91049 1494.349067 1500.462108 1397.628295 1517.945749 1444.555787 1520.76981 1491.328991 1799.978199 0.732316458 0.792182089 0.830203982 0.833600156 0.776469568 0.843313408 0.802540713 0.84488235 0.828526141 1 10.81376372 -9.430474415 1.132396032 1.0011904 0.801400399 0.146896397 0.061183627 0.174254159 0.395882361 0.027607991 0.006762344 3.71E-10 9.430474415 -0.19979 DYNVTANSK ddPTM_HeLa_SAHA_4h_R1 6 DYNVTANSK 9 0 P00338-3;P00338;P00338-2;P00338-5;F5GXY2;F5GYU2;F5GXH2 P00338-3 LDHA L-lactate dehydrogenase A chain 0 0 ;;;;; ;;;;; 142.83 0.0011276 104473700 13600.2 13700 12444.6 13770.6 14220.2 14543.8 15318.1 14597.3 13488.7 12914.3 FALSE FALSE TRUE 15030.73144 14143.88899 14140.48528 14037.14988 13130.65135 13304.58642 13594.46707 14223.9222 13394.83104 13471.09867 1.115776211 1.04994324 1.049690572 1.042019676 0.974727575 0.987639297 1.009158006 1.055884345 0.994338425 1 13.7175799 -5.939822489 7.267227103 1.054901203 1.005690249 0.128978734 0.037760274 0.286769033 28.82739805 0.006912551 0.012568895 1.15E-06 5.939822489 -0.049210954 DYPAAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 DYPAAKR 7 1 H0YBT0;A0A087WUS5;P01106;P01106-2;A0A494C1T8 H0YBT0 MYC Myc proto-oncogene protein 0 1 ; DYPAAK(1)R;DYPAAK(1)R 91.626 0.0053218 0 2704.1 2449.95 3077.7 3738.1 4066.8 4115.24 4046.73 3585.45 2003.32 1966.77 FALSE TRUE FALSE 2988.529645 2529.329987 3497.112928 3810.456331 3755.202663 3764.5984 3591.38129 3493.739381 1989.378733 2051.56708 1.456705791 1.232877059 1.704605695 1.857339381 1.83040696 1.834986746 1.750555137 1.702961319 0.969687393 1 11.00251061 -7.744882439 0.368350566 0.965584611 1.86188918 0.844565204 0.1300317 0.350294392 0.134608657 0.120855442 0.088473059 1.80E-08 7.744882439 0.896304569 DYPDFSPSVDAEAIQK ddPTM_HeLa_SAHA_4h_R1 2 DYPDFSPSVDAEAIQK 16 0 P12429;D6RFG5;D6RCA8;D6RAZ8 P12429 ANXA3 Annexin A3;Annexin 0 0 ; ; 205.72 1.26E-14 10292200 2994.8 3310.4 2756.6 2502.6 3004.6 3126.4 2971.32 3505.9 3208.9 2867.4 FALSE FALSE TRUE 3309.806805 3417.659132 3132.255092 2551.041442 2774.388197 2860.013131 2636.979254 3416.224154 3186.569004 2991.027647 1.106578473 1.142637092 1.047217031 0.852897981 0.927570228 0.956197491 0.881629849 1.142157331 1.065375978 1 11.54642553 -6.437728502 10.47404029 1.060375243 0.94718091 0.35590069 0.080150162 0.548558143 65.34245676 0.012689771 0.019384519 3.65E-07 6.437728502 -0.113194333 DYPVVSIEDPFDQDDWGAWQK ddPTM_HeLa_SAHA_4h_R1 1 DYPVVSIEDPFDQDDWGAWQK 21 0 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 195.97 1.72E-15 19496000 2167.2 2270.3 2382.1 2231.7 2277.9 2267.3 2709 1924.1 2356.1 1800 FALSE FALSE TRUE 2395.156039 2343.85921 2706.720183 2274.897781 2103.367794 2074.113285 2404.17619 1874.884308 2339.703708 1877.606809 1.27564303 1.248322704 1.441579872 1.211594339 1.120238691 1.104657948 1.280447098 0.998550015 1.246109514 1 10.87467926 -9.343618567 1.0792549 1.000640487 1.218670519 0 0.135758815 0.472858377 0.989920132 0.077170092 0.020445992 4.53E-10 9.343618567 0.218030032 DYQDDTLELYNREDR ddPTM_HeLa_SAHA_4h_R1 2 DYQDDTLELYNREDR 15 1 H0YIQ2;P49750-3;P49750-1;P49750 H0YIQ2 YLPM1 YLP motif-containing protein 1 0 0 ; ; 153.14 6.14E-05 10346300 2444.49 2653.08 2356.17 2778.2 2961.2 2996.66 3030.4 2414.62 3260.1 2462.54 FALSE FALSE TRUE 2701.612674 2739.041533 2677.256577 2831.976078 2734.313496 2741.327709 2689.411416 2352.857517 3237.412699 2568.712151 1.051738192 1.066309252 1.04225636 1.102488684 1.064468627 1.067199261 1.046988241 0.915967761 1.260325217 1 11.32682952 -4.259652091 24.44282928 1.040719017 0.915967703 0.166329947 0.074688426 72.4131125 990198.8671 0.004925382 0.042674292 5.50E-05 4.259652091 -0.124751314 DYQYS(ph)DQGIDY ddPTM_HeLa_SAHA_4h_R1 2 DYQYSDQGIDY 11 0 Q15417-3;Q15417-2;Q15417 Q15417-3 CNN3 Calponin-3 1 0 DYQY(0.004)S(0.596)DQGIDY(0.4);DYQYS(0.999)DQGIDY(0.001) ; 118.37 0.002324 18865000 5045 6099 5251.3 5512.1 6082.5 6093.2 5778.6 4833 5438.7 4944.2 TRUE FALSE FALSE 5575.656247 6296.611602 5966.919816 5618.794666 5616.460164 5574.025081 5128.37672 4709.378858 5400.851644 5157.368658 1.081104846 1.220896162 1.156969806 1.08946927 1.089016616 1.080788567 0.994378541 0.913135975 1.0472107 1 12.33241946 -4.482668087 2.600245526 1.070156029 0.910267144 0.448581093 0.060775656 0.322305121 3.669511736 0.010681023 0.089377311 3.29E-05 4.482668087 -0.159888885 DYS(ph)PSRNPPEVEAR ddPTM_HeLa_SAHA_4h_R1 1 DYSPSRNPPEVEAR 14 1 A0A3B3IRR3;Q9HCM7 A0A3B3IRR3 FBRSL1 Fibrosin-1-like protein 1 0 DYS(0.89)PS(0.11)RNPPEVEAR 115.06 0.0062568 15041000 786.5 854.86 714.87 610.19 650.41 1367.1 851.17 1092 879.22 809.42 TRUE FALSE FALSE 869.2276786 882.5580249 812.2887607 622.0011098 600.5757263 1250.615389 755.3941114 1064.068221 873.1014364 844.3180574 1.029502651 1.045290951 0.962064892 0.736690521 0.711314559 1.481213599 0.894679564 1.260269411 1.034090683 1 9.721642759 -5.267970379 24.99017963 0.973868793 1.180316727 0.321402486 0.177863256 577.9567389 2211493.8 0.024793021 0.056698596 5.40E-06 5.267970379 0.206447935 DYSAPVNFISAGLK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 DYSAPVNFISAGLKK 15 1 Q9UBB9;F6XM96;F6SQZ1 Q9UBB9 TFIP11 Tuftelin-interacting protein 11 0 1 DYSAPVNFISAGLK(1)K 178.84 7.38E-12 358090 253.55 257.64 210.6 228.06 268.14 344.44 330.79 334.21 192.36 158.07 FALSE TRUE FALSE 280.2195523 265.987705 239.2994712 232.4744311 247.5951711 315.0917742 293.5686386 325.6613921 191.0213511 164.8851713 1.699483041 1.613169353 1.451309838 1.409917152 1.501621821 1.910977026 1.780442937 1.975079928 1.158511403 1 7.365317848 -11.04281171 0.237275338 7.96E-24 1.7868688 0.681664001 0.167173055 6.920785412 0.251032247 3.821837718 0.148246565 9.06E-12 11.04281171 1.7868688 DYSEADGLS(ph)ER ddPTM_HeLa_SAHA_4h_R1 1 DYSEADGLSER 11 0 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0;Q9H4G0-4;Q4VXN2;Q4VXN1;Q4VXN0;Q4VXN7;Q4VXN6;Q4VXN5 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 DYSEADGLS(1)ER 98.368 0.0093418 7008000 738.92 1246 719.35 1225.2 1150 1353.8 1032.8 879.03 1429.8 889.67 TRUE FALSE FALSE 816.6429959 1286.371218 817.3792718 1248.915518 1061.887248 1238.448624 916.5866258 856.5456854 1419.849905 928.0280276 0.879976651 1.386134017 0.880770028 1.34577349 1.144240494 1.33449485 0.987671276 0.92297394 1.529964466 1 9.858024567 -7.313961506 24.99934902 0.943322285 1.142274619 0 0.250915433 342.1762302 162867.3462 0.027530601 0.031482451 4.85E-08 7.313961506 0.198952334 DYSSGFGGK ddPTM_HeLa_SAHA_4h_R1 1 DYSSGFGGK 9 0 Q14247;Q14247-3;Q14247-2 Q14247 CTTN Src substrate cortactin 0 0 131.22 0.011401 7618700 1590.2 1471 1055.8 1352.5 1325.7 1560.6 1698.5 1623.9 1586.4 1310.8 FALSE FALSE TRUE 1757.464532 1518.661365 1199.678926 1378.679593 1224.125152 1427.6281 1507.38031 1582.362989 1575.360113 1367.315003 1.285339902 1.110688731 0.877397617 1.008311611 0.895276619 1.044110609 1.102438214 1.157277574 1.152155948 1 10.41712993 -6.977675376 24.89891719 1.138073882 1.012194145 0.264149303 0.101497154 305.1122138 340294.2722 0.021372958 0.028088487 1.05E-07 6.977675376 -0.125879738 AVTK(ac)VQK ddPTM_HeLa_SAHA_4h_R1 2 AVTKVQK 7 1 Q5QNW6;Q5QNW6-2 Q5QNW6 HIST2H2BF Histone H2B type 2-F 0 1 ; AVTK(1)VQK;AVTK(1)VQK 128.1 0.00045345 592630000 6384 7762.8 9466.9 18039.9 20519 18343.1 27305.4 15635.9 3253.2 5318.6 FALSE TRUE FALSE 7055.498411 8014.319813 10756.99983 18389.08835 18946.83865 16780.16468 24232.92453 15235.95632 3230.560716 5547.910875 1.271739682 1.44456535 1.938928017 3.31459693 3.415130322 3.02459161 4.367936882 2.746251096 0.582302202 1 12.4377289 -6.434392624 1.653046011 1.131784814 3.472270973 0.860157189 0.439811889 0.079825847 0.43126336 0.061161016 0.102638636 3.68E-07 6.434392624 2.340486158 up DYTGCSTSES(ph)LSPVK ddPTM_HeLa_SAHA_4h_R1 1 DYTGCSTSESLSPVK 15 0 O95297-4;O95297-2;O95297 O95297-4 MPZL1 Myelin protein zero-like protein 1 1 0 DYTGCS(0.001)T(0.004)S(0.012)ES(0.667)LS(0.316)PVK 73.722 0.021868 5036000 336.65 809.07 531.98 631.72 545.37 749.01 827.2 562.03 532.95 554.34 TRUE FALSE FALSE 372.0603916 835.2843989 604.475464 643.9478541 503.5838684 685.1901342 734.1212789 547.6540864 529.2411576 578.2403103 0.643435584 1.444528138 1.045370676 1.113633627 0.870890285 1.184957399 1.269578177 0.94710465 0.91526161 1 9.175525375 -7.279403896 24.92534234 0.831622367 1.119716141 0.339150143 0.173277838 675.1451156 936745.7687 0.032904751 0.037667082 5.26E-08 7.279403896 0.288093774 DYTGCSTSESLS(ph)PVK ddPTM_HeLa_SAHA_4h_R1 3 DYTGCSTSESLSPVK 15 0 O95297-4;O95297-2;O95297 O95297-4 MPZL1 Myelin protein zero-like protein 1 1 0 DYTGCSTSES(0.022)LS(0.978)PVK;DYTGCSTSES(0.033)LS(0.967)PVK;DYTGCSTSES(0.011)LS(0.989)PVK ;; 225.29 6.59E-58 3796000 1479.85 3194.49 1929.55 1504.66 2560.55 1719.66 2657.24 1775.16 1598.22 2068.1 TRUE FALSE FALSE 1635.507413 3297.993572 2192.499025 1533.78487 2364.361212 1573.135293 2358.240362 1729.753978 1587.097857 2157.265912 0.758138996 1.528783982 1.0163323 0.71098554 1.095998967 0.729226418 1.093161649 0.801826964 0.73569876 1 11.0749883 -3.990684164 15.68917048 0.937843827 0.611624615 0.029721008 0.240106881 3863771.904 95174612.12 0.031734487 26173809.6 0.000102168 3.990684164 -0.326219212 DYTQMNELQR ddPTM_HeLa_SAHA_4h_R1 2 DYTQMNELQR 10 0 A0A087WUQ6;P07203-2;P07203 A0A087WUQ6 GPX1 Glutathione peroxidase;Glutathione peroxidase 1 0 0 ; ; 134.23 0.0013384 7962100 794.59 1340.03 834.83 899.05 930.98 4039.8 880.74 4314.1 3610.4 2055.65 FALSE FALSE TRUE 878.1686219 1383.447851 948.5962848 916.4524128 859.6485135 3695.586313 781.6368172 4203.751569 3585.274932 2144.279132 0.409540255 0.645180859 0.442384702 0.427394176 0.400903269 1.723463265 0.364521953 1.960449788 1.672018759 1 11.06627701 -4.251771831 24.53975773 0.700376592 1.960450668 0.317925279 0.501174958 706.7000255 1793814.272 0.055430565 0.949631975 5.60E-05 4.251771831 1.260074075 DYTYEELLNR ddPTM_HeLa_SAHA_4h_R1 4 DYTYEELLNR 10 0 P20042 P20042 EIF2S2 Eukaryotic translation initiation factor 2 subunit 2 0 0 ;;; ;;; 195.32 1.66E-06 82949500 6718.5 6973.9 6540.4 7225.3 7416.9 8039.6 7713 6992.1 7355.5 7388.4 FALSE FALSE TRUE 7425.182656 7199.858936 7431.691651 7365.156129 6848.618724 7354.58085 6845.11294 6813.252206 7304.312477 7706.950082 0.963439827 0.934203396 0.964284389 0.955651205 0.88862892 0.95427903 0.888174034 0.884040007 0.947756557 1 12.91194433 -1 0.122491552 1.026254458 0.567890123 0.503759692 0.026073938 30.30326349 0.254090465 0.081504151 2.386537186 0.1 1 -0.458364335 DYYINIR ddPTM_HeLa_SAHA_4h_R1 1 DYYINIR 7 0 O43143 O43143 DHX15 Pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15 0 0 120.65 0.022058 6572100 1835.5 1739.7 1658.6 1927.7 2062.7 2315.9 2312.5 1828.6 2358.6 2261.7 FALSE FALSE TRUE 2028.566312 1796.067421 1884.62537 1965.013421 1904.656372 2118.572291 2052.291414 1781.82706 2342.186311 2359.212955 0.85984875 0.761299406 0.798836479 0.832910576 0.807327023 0.8979996 0.869905114 0.755263341 0.992782913 1 11.20408993 -8.633328384 0.752136016 0.994207455 0.822920168 0.715438764 0.043558951 0.269019747 0.305719321 0.023736036 0.010127916 2.33E-09 8.633328384 -0.171287287 EAAASGLPLMVIIHK ddPTM_HeLa_SAHA_4h_R1 2 EAAASGLPLMVIIHK 15 0 O95881 O95881 TXNDC12 Thioredoxin domain-containing protein 12 0 0 ; ; 160.18 1.58E-07 1144150 657.26 746.32 850.38 788.86 926.26 706.95 993.96 743.83 927.85 786.37 FALSE FALSE TRUE 726.3936224 770.5012577 966.2653578 804.129526 855.2901589 646.7138828 882.1170048 724.8039057 921.3930163 820.2742591 0.885549698 0.939321512 1.177978398 0.980317884 1.042688039 0.788411773 1.075392767 0.883611667 1.123274327 1 9.679962546 -3.948430255 14.22263099 0.965160925 0.442247262 0.005053667 0.113199831 2341516.025 19270326.67 0.013888821 32835676.98 0.000112608 3.948430255 -0.522913664 EAADLDAVPMS(ph)LSYEELVR ddPTM_HeLa_SAHA_4h_R1 1 EAADLDAVPMSLSYEELVR 19 0 A0A0A6YYG7;Q6IBW4-2;Q6IBW4;Q6IBW4-4;H0YC55 A0A0A6YYG7 NCAPH2 Condensin-2 complex subunit H2 1 0 EAADLDAVPMS(0.71)LS(0.29)YEELVR 104.16 0.0011644 2118400 406.36 475.49 427.79 355.87 647.41 689.1 638.56 591.6 524.03 411.38 TRUE FALSE FALSE 449.1028092 490.896188 486.0869934 362.7583784 597.8055857 630.3848032 566.7075482 576.4677286 520.3832326 429.116605 1.046575229 1.14396922 1.132762022 0.845360851 1.393107558 1.469029154 1.320637658 1.343382479 1.212684912 1 8.745225918 -5.742414366 24.99994221 1.030861706 1.383438539 0.692674444 0.102378875 76.96000701 101129.2486 0.012106623 0.024182352 1.81E-06 5.742414366 0.352576833 EAADLDAVPMSLS(ph)YEELVR ddPTM_HeLa_SAHA_4h_R1 1 EAADLDAVPMSLSYEELVR 19 0 A0A0A6YYG7;Q6IBW4-2;Q6IBW4;Q6IBW4-4;H0YC55 A0A0A6YYG7 NCAPH2 Condensin-2 complex subunit H2 1 0 EAADLDAVPMS(0.017)LS(0.983)YEELVR 136.33 8.16E-05 2410500 825.43 1008.3 727.84 835.03 1248.2 1350.9 1113.7 991.96 1076.2 790.73 TRUE FALSE FALSE 912.2525146 1040.969582 827.0262448 851.1932131 1152.563186 1235.79572 988.3835449 966.5870995 1068.710637 824.82224 1.10599893 1.262053241 1.002672097 1.031971705 1.397347367 1.49825703 1.198298854 1.171873226 1.295686009 1 9.687939423 -5.767514743 24.9999782 1.063808262 1.320991818 0.308129593 0.133496893 86.95007043 357799.1769 0.017519112 0.03235802 1.71E-06 5.767514743 0.257183556 EAAENSLVAYK ddPTM_HeLa_SAHA_4h_R1 4 EAAENSLVAYK 11 0 P62258;P62258-2;K7EM20 P62258 YWHAE 14-3-3 protein epsilon 0 0 ;;; ;;; 185.77 6.59E-11 71467500 7426.8 6852.1 6700.7 7156.8 7038.9 7244.4 6840.8 7194.6 7199.1 6534.3 FALSE FALSE TRUE 8207.984899 7074.112536 7613.8365 7295.330213 6499.581003 6627.136364 6071.05518 7010.57255 7149.000877 6816.025651 1.204218605 1.037864717 1.117049273 1.07032024 0.953573436 0.972287474 0.8907031 1.028542571 1.048851815 1 12.73471505 -5.81644486 4.196916003 1.094880095 0.956210554 0.470704973 0.060605792 0.168462106 6.073937172 0.012019956 0.022910043 1.53E-06 5.81644486 -0.138669541 EAAEPLSEPKEDQEAAELLS(ph)EPEEESER ddPTM_HeLa_SAHA_4h_R1 2 EAAEPLSEPKEDQEAAELLSEPEEESER 28 1 A0A0A0MTR7;A0A0A0MTC1;Q63HN8;Q63HN8-4 A0A0A0MTR7 RNF213 E3 ubiquitin-protein ligase RNF213 1 0 EAAEPLSEPKEDQEAAELLS(0.998)EPEEES(0.002)ER;EAAEPLSEPKEDQEAAELLS(0.998)EPEEES(0.002)ER ; 167.48 3.77E-12 39984000 2695.86 4009 3167.75 3069.78 3871.43 3756.6 3541.71 3879.61 2864.57 3418.85 TRUE FALSE FALSE 2979.422924 4138.89423 3599.434473 3129.200031 3574.80187 3436.516546 3143.18747 3780.375194 2844.635224 3566.253355 0.835449035 1.160572124 1.009304195 0.877447483 1.002397058 0.963620978 0.88136965 1.060041118 0.797653711 1 11.80019348 EAAEQDVEK ddPTM_HeLa_SAHA_4h_R1 2 EAAEQDVEK 9 0 P26373;P26373-2;J3KS98 P26373 RPL13 60S ribosomal protein L13 0 0 ; ; 149.72 0.00010368 669250 202.06 182.45 262.739 246.034 380.33 517.85 335.67 275.49 202.37 285.11 FALSE FALSE TRUE 223.3135979 188.3614997 298.5437026 250.7963438 351.1891976 473.7262667 297.8995282 268.4433647 200.9616907 297.4024874 0.750880061 0.633355495 1.003837275 0.843289328 1.180854944 1.592879302 1.001671273 0.902626495 0.675722965 1 8.216272904 -5.757991018 23.72199603 0.866551655 1.187760606 0.40021294 0.205297944 40.35918909 277629.8657 0.030479556 0.058995437 1.75E-06 5.757991018 0.321208952 EAAFS(ph)PGQQDWSR ddPTM_HeLa_SAHA_4h_R1 2 EAAFSPGQQDWSR 13 0 Q9C0C2;Q9C0C2-2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 EAAFS(1)PGQQDWSR;EAAFS(1)PGQQDWSR ; 222.55 1.07E-16 34785000 3530.1 3923 3612.1 3149 4386.7 4664 3587.9 3554 3861.7 3516.1 TRUE FALSE FALSE 3901.412115 4050.107774 4104.338177 3209.953449 4050.591994 4266.600961 3184.180049 3463.093826 3834.826115 3667.696278 1.063722789 1.104264766 1.119050724 0.875196092 1.104396789 1.163291788 0.868168956 0.944214996 1.045568069 1 11.84065846 -4.737736998 24.99743805 1.043723572 0.9061919 0.368808054 0.078054725 202.7128808 213785.279 0.010645276 0.039785071 1.83E-05 4.737736998 -0.137531671 EAAGEGPALYEDPPDQK ddPTM_HeLa_SAHA_4h_R1 1 EAAGEGPALYEDPPDQK 17 0 G3V5Q1;G3V3M6;P27695;G3V5D9;A0A0C4DGK8;G3V3C7;G3V3Y6;G3V5M0;G3V359 G3V5Q1 APEX1 "DNA-(apurinic or apyrimidinic site) lyase;DNA-(apurinic or apyrimidinic site) lyase, mitochondrial" 0 0 180.28 6.26E-27 0 593.34 404.33 193.35 490.89 444.29 560.73 388.34 433.16 619.77 400.68 FALSE FALSE TRUE 655.7502235 417.4305573 219.6987311 500.3918858 410.2485962 512.9526494 344.6429611 422.0803944 615.4569701 417.9552757 1.56894831 0.998744559 0.525651293 1.197237874 0.981560995 1.227290764 0.82459292 1.009869761 1.472542652 1 8.707204761 -7.034634403 24.56087503 1.269468831 0.960570386 0.346952999 0.232638597 552.6192703 391887.172 0.04504425 0.055184461 9.23E-08 7.034634403 -0.308898445 EAAGPAPS(ph)PMR ddPTM_HeLa_SAHA_4h_R1 1 EAAGPAPSPMR 11 0 Q12834 Q12834 CDC20 Cell division cycle protein 20 homolog 1 0 EAAGPAPS(1)PMR 126.5 0.0016416 110590000 2889.1 2532 2699.9 2981.9 2870.8 3311.4 2833 3299.7 2823.5 2713.9 TRUE FALSE FALSE 3192.988794 2614.038461 3067.828312 3039.618986 2650.839924 3029.250091 2514.223384 3215.298452 2803.851034 2830.909511 1.127902104 0.923391741 1.083689994 1.073725237 0.936391613 1.070062494 0.888132727 1.135782843 0.990441773 1 11.46704992 -5.820968515 24.9994478 1.053161272 1.003518705 0 0.083834943 153.9341554 64644.25684 0.012039904 0.021824188 1.51E-06 5.820968515 -0.049642567 EAALPPVS(ph)PLK ddPTM_HeLa_SAHA_4h_R1 6 EAALPPVSPLK 11 0 Q04637-9;Q04637;E7EX73;E9PGM1;Q04637-3;Q04637-8;E7EUU4;Q04637-7;Q04637-4;Q04637-5;Q04637-6 Q04637-9 EIF4G1 Eukaryotic translation initiation factor 4 gamma 1 1 0 EAALPPVS(1)PLK;EAALPPVS(1)PLK;EAALPPVS(1)PLK;EAALPPVS(1)PLK;EAALPPVS(1)PLK;EAALPPVS(1)PLK ;;;;; 154.1 0.00036933 568254100 25833.8 31848.8 23113.6 27023.1 33112.5 37425.9 31481 29022.6 37427.3 28553.2 TRUE FALSE FALSE 28551.11761 32880.72202 26263.40104 27546.17118 30575.4274 34237.00277 27938.67503 28280.24392 37166.84037 29784.26819 0.958597251 1.10396273 0.88178769 0.924856404 1.02656299 1.149499546 0.938034631 0.949502729 1.247868174 1 14.86226289 EAALSTALSEK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 EAALSTALSEKR 12 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 1 ; EAALSTALSEK(1)R;EAALSTALSEK(1)R 202.31 3.93E-24 6968800 1025.4 2851.4 1547.84 1317.49 2369.4 1947.77 2455.1 2202.6 1635.87 743.68 FALSE TRUE FALSE 1133.256277 2943.787231 1758.771574 1342.991924 2187.857084 1781.809038 2178.845687 2146.260681 1624.485847 775.7436843 1.460864329 3.794793681 2.267207081 1.731231528 2.820335026 2.296904344 2.808718563 2.766713703 2.094101287 1 9.599436236 -7.460699687 10.09377636 1.202706313 2.595081749 0.417768409 0.578238674 0.281956478 44.84949319 0.086286476 0.098227468 3.46E-08 7.460699687 1.392375436 EAALSTALSEKR ddPTM_HeLa_SAHA_4h_R1 2 EAALSTALSEKR 12 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 116.84 0.001196 5942900 1076.06 1056.58 1169.27 1168.82 1166.51 888.81 1462.39 1255.58 952.46 1240.22 FALSE FALSE TRUE 1189.244928 1090.813885 1328.612026 1191.444201 1077.132256 813.0783877 1297.838028 1223.464082 945.8317533 1293.691954 0.919264377 0.843178998 1.026992572 0.920964375 0.832603351 0.628494585 1.003204839 0.945715151 0.731110486 1 10.33727842 -5.89884456 4.811935425 0.955267476 0.847980908 0 0.123871856 0.275163241 10.72278745 0.015366801 0.028385336 1.26E-06 5.89884456 -0.107286568 EAALTSEEVGADLEQVEVLQK ddPTM_HeLa_SAHA_4h_R1 2 EAALTSEEVGADLEQVEVLQK 21 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 ; ; 100.39 0.00031651 2772600 854.42 854.1 791.46 1055.07 833.09 1176.39 737.25 1055.39 1007.09 939.6 FALSE FALSE TRUE 944.2918158 881.7734004 899.3160471 1075.492406 769.2588242 1076.154954 654.2926897 1028.394652 1000.081579 980.1107543 0.963454193 0.8996671 0.917565737 1.097317217 0.784869282 1.097993211 0.667570157 1.049263716 1.020376089 1 9.936800975 -6.015980456 0.140539342 1.037777567 0.832381155 0.049164306 0.127776824 26.63420036 1.422145741 0.631904959 1.404870618 9.64E-07 6.015980456 -0.205396412 EAANEAGDSS(ph)QDEAEDDVK ddPTM_HeLa_SAHA_4h_R1 1 EAANEAGDSSQDEAEDDVK 19 0 A0A0C4DH01;Q9NVU0-3;Q9NVU0-2;Q9NVU0-5;Q9NVU0-4;Q9NVU0 A0A0C4DH01 POLR3E DNA-directed RNA polymerase III subunit RPC5 1 0 EAANEAGDS(0.229)S(0.771)QDEAEDDVK 232.37 1.16E-32 4054200 1582.8 1537.4 1253 1544 1400.8 2126.7 1607.5 1614.2 1386.7 1591.8 TRUE FALSE FALSE 1749.286166 1587.212769 1423.752315 1573.886353 1293.471007 1945.493196 1426.619869 1572.911101 1377.049842 1660.430288 1.053513766 0.955904491 0.857459855 0.94787861 0.778997478 1.171680142 0.85918685 0.947291261 0.829333126 1 10.69734144 -7.102492373 5.223749043 1.024977284 0.92767593 0 0.1148302 0.277532944 11.48746473 0.015083693 0.01860858 7.90E-08 7.102492373 -0.097301355 EAAPGKSELCS(ph)SPLGK ddPTM_HeLa_SAHA_4h_R1 1 EAAPGKSELCSSPLGK 16 1 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 EAAPGKS(0.001)ELCS(0.5)S(0.5)PLGK 62.658 0.020121 5867800 2123.1 1601.9 1683 1960.2 2130.8 1643.5 2150.7 2260.2 1062.1 1670.7 TRUE FALSE FALSE 2346.417399 1653.802611 1912.350475 1998.142505 1967.538564 1503.464554 1908.697576 2202.387357 1054.70876 1742.732053 1.3464017 0.948971248 1.097329031 1.1465575 1.128996601 0.862705515 1.095232955 1.26375558 0.605204201 1 10.76713506 -7.235129803 24.99434812 1.16357862 1.075441054 0 0.21851183 1766.487334 1678182.228 0.026740206 0.032745122 5.82E-08 7.235129803 -0.088137566 EAAPGKSELCSS(ph)PLGK ddPTM_HeLa_SAHA_4h_R1 1 EAAPGKSELCSSPLGK 16 1 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 EAAPGKSELCS(0.383)S(0.617)PLGK 88.283 0.0046325 17494000 5575.7 4211.6 5188.4 5037.5 5030.7 4488.8 5266.7 6249.3 3579.3 5310.1 TRUE FALSE FALSE 6162.177708 4348.058603 5895.448132 5135.008097 4645.248853 4106.328987 4674.077055 6089.451955 3554.39136 5539.044398 1.112498342 0.784983526 1.064343903 0.927056678 0.83863723 0.741342494 0.843841775 1.099368685 0.641697575 1 12.43542139 -7.273536724 24.98091251 1.053124218 0.896690188 0 0.16985353 686.2167635 1417028.856 0.019124176 0.021957548 5.33E-08 7.273536724 -0.156434029 EAARS(ph)PDKPGGS(ph)PSASR ddPTM_HeLa_SAHA_4h_R1 1 EAARSPDKPGGSPSASR 17 2 Q9Y3T9 Q9Y3T9 NOC2L Nucleolar complex protein 2 homolog 2 0 EAARS(1)PDKPGGS(0.769)PS(0.215)AS(0.016)R 82.761 0.0066734 49049000 4966.2 4070.4 3926.3 4335.1 4856.9 5732.3 5747.5 5335.6 4903.3 4767.9 TRUE FALSE FALSE 5488.567702 4202.283631 4461.355717 4419.012129 4484.765371 5243.875791 5100.776173 5199.123078 4869.177536 4973.467503 1.103569632 0.844940402 0.897031239 0.888517343 0.901738147 1.054370173 1.025597568 1.045371881 0.979030733 1 12.28003633 -10.61845493 6.733325029 0.9669575 1.007503823 0 0.088091573 1213.046708 6984.363211 570.6643711 0.014636949 2.41E-11 10.61845493 0.040546324 EAARS(ph)PDKPGGSPSASR ddPTM_HeLa_SAHA_4h_R1 4 EAARSPDKPGGSPSASR 17 2 Q9Y3T9 Q9Y3T9 NOC2L Nucleolar complex protein 2 homolog 1 0 EAARS(0.999)PDKPGGSPSASR;EAARS(1)PDKPGGSPSASR;EAARS(1)PDKPGGSPSASR;EAARS(0.992)PDKPGGS(0.006)PS(0.001)AS(0.002)R ;;; 106.6 0.0013842 173650100 3767.36 3414.73 2949.98 3204.39 4076.2 4355.21 3965.78 4066.66 3510.94 3039.07 TRUE FALSE FALSE 4163.62821 3525.369492 3351.987912 3266.415602 3763.882437 3984.121606 3519.539997 3962.640726 3486.507083 3170.099181 1.313406292 1.112069147 1.057376353 1.030382779 1.18730747 1.256781375 1.110230247 1.250005284 1.099810096 1 11.63031226 -9.663644189 1.526036046 1.000395938 1.181438178 0.154824043 0.09181424 0.39451083 1.659092894 0.071257699 0.016149227 2.17E-10 9.663644189 0.18104224 EAAS(ph)QRPLS(ph)SSASNR ddPTM_HeLa_SAHA_4h_R1 1 EAASQRPLSSSASNR 15 1 A0A087X2H1;Q9ULT8;H0YJP0 A0A087X2H1 HECTD1 E3 ubiquitin-protein ligase HECTD1 2 0 EAAS(1)QRPLS(0.58)S(0.384)S(0.036)ASNR 125.47 0.007331 118930000 0 0 0 0 0 0 61.452 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 54.53725923 0 0 0 0 EAAS(ph)SPAGEPLR ddPTM_HeLa_SAHA_4h_R1 2 EAASSPAGEPLR 12 0 Q96EB6;Q96EB6-2 Q96EB6 SIRT1 NAD-dependent protein deacetylase sirtuin-1;SirtT1 75 kDa fragment 1 0 EAAS(0.805)S(0.195)PAGEPLR;EAAS(0.5)S(0.5)PAGEPLR ; 206.74 1.08E-10 79314000 5214.4 6887.4 5527.7 5534.1 6357.2 6645.4 5135.7 4864.6 8501.2 6352.9 TRUE FALSE FALSE 5762.874517 7110.556279 6280.986169 5641.220508 5870.112709 6079.174534 4557.81752 4740.170576 8442.039457 6626.804609 0.869630969 1.072999235 0.947815205 0.851273101 0.885813458 0.917361367 0.687785107 0.715302601 1.273923098 1 12.69409767 -4.660413582 0.888887956 0.945830954 0.616154296 0.417754426 0.123051612 0.692416623 0.588353013 0.011763518 0.192688236 2.19E-05 4.660413582 -0.329676658 EAASGTTPQK(ac)SR ddPTM_HeLa_SAHA_4h_R1 2 EAASGTTPQKSR 12 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 0 1 ; EAASGTTPQK(1)SR;EAASGTTPQK(1)SR 120.86 0.0022713 438990 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 EAASQRPLS(ph)SSASNR ddPTM_HeLa_SAHA_4h_R1 1 EAASQRPLSSSASNR 15 1 A0A087X2H1;Q9ULT8;H0YJP0 A0A087X2H1 HECTD1 E3 ubiquitin-protein ligase HECTD1 1 0 EAASQRPLS(0.769)S(0.219)S(0.01)AS(0.002)NR 121.45 0.0009836 0 268.53 274.57 229.64 251.55 304.97 331.18 370.13 329.25 354.37 220.08 TRUE FALSE FALSE 296.7752175 283.4662482 260.9341433 256.419114 281.6032645 302.9616008 328.4819983 320.8282617 351.9039103 229.5687258 1.292751076 1.234777286 1.136627571 1.116960131 1.22666214 1.319698926 1.430865624 1.397525994 1.532891334 1 7.842782307 -13.52287875 0.081121745 0.125380778 1.55677597 0 0.176161977 101.8205665 0.633080922 16.45605981 1.769935234 3.00E-14 13.52287875 1.431395192 EAASS(ph)PAGEPLR ddPTM_HeLa_SAHA_4h_R1 2 EAASSPAGEPLR 12 0 Q96EB6;Q96EB6-2 Q96EB6 SIRT1 NAD-dependent protein deacetylase sirtuin-1;SirtT1 75 kDa fragment 1 0 EAAS(0.023)S(0.977)PAGEPLR;EAAS(0.028)S(0.972)PAGEPLR ; 160.56 0.00015939 12909600 2896.1 4084.4 2943.3 3219.5 3597.9 4417.7 3594.7 3076.5 4776.3 3574.2 TRUE FALSE FALSE 3200.725086 4216.73724 3344.397596 3281.818078 3322.229679 4041.287107 3190.214895 2997.807585 4743.061339 3728.301254 0.858494222 1.13100765 0.897029872 0.880244877 0.891084023 1.083948649 0.855675193 0.80406796 1.2721776 1 11.86430272 EAASSSSGTQPAPPAPAS(ph)PWDSKK ddPTM_HeLa_SAHA_4h_R1 3 EAASSSSGTQPAPPAPASPWDSKK 24 1 Q9H7N4 Q9H7N4 SCAF1 "Splicing factor, arginine/serine-rich 19" 1 0 EAASSSSGTQPAPPAPAS(0.998)PWDS(0.002)KK;EAASSSSGTQPAPPAPAS(0.991)PWDS(0.008)KK;EAASSSSGTQPAPPAPAS(0.999)PWDS(0.001)KK ;; 174.26 1.89E-11 135252800 7165.6 5800.78 5700.7 6964.52 7060.7 6113.29 6497.9 7012.6 6885.8 6114.47 TRUE FALSE FALSE 7919.310685 5988.729078 6477.561708 7099.328355 6519.710691 5592.4033 5766.73919 6833.227846 6837.881157 6378.094725 1.241642062 0.938952671 1.015595093 1.113079793 1.022203491 0.876814086 0.904147624 1.07135879 1.072088367 1 12.63890981 -5.901348759 0.994001986 1.101931206 0.948847494 0.131123985 0.094942718 0.645728974 1.24170035 0.020267809 0.056441915 1.26E-06 5.901348759 -0.153083711 EAATQEDPEQLPELEAHGVS(ph)ESEGEERPVAEEEILLR ddPTM_HeLa_SAHA_4h_R1 2 EAATQEDPEQLPELEAHGVSESEGEERPVAEEEILLR 37 1 Q9BVJ6-3;Q9BVJ6;X6RJY0;Q9BVJ6-2 Q9BVJ6-3 UTP14A U3 small nucleolar RNA-associated protein 14 homolog A 1 0 EAATQEDPEQLPELEAHGVS(0.5)ES(0.5)EGEERPVAEEEILLR;EAAT(0.001)QEDPEQLPELEAHGVS(0.5)ES(0.5)EGEERPVAEEEILLR ; 73.113 4.72E-06 8482400 747.95 592.541 679.41 631.21 746.91 985.02 847.6 949.63 779.43 670.54 TRUE FALSE FALSE 826.6228127 611.7397172 771.9964566 643.4279823 689.6819172 901.0907544 752.2258172 925.3398396 774.0058832 699.4502609 1.181817863 0.874600742 1.103718877 0.919905272 0.986034255 1.288284249 1.075452908 1.322953027 1.106591743 1 9.450077658 -3.64928494 0.883846546 1.059942884 1.80069933 0.344707544 0.113550321 5.70266777 1.552274793 0.018697596 5.298518324 0.000224241 3.64928494 0.740756446 EAAVSASDILQESAIHS(ph)PGTVEK ddPTM_HeLa_SAHA_4h_R1 3 EAAVSASDILQESAIHSPGTVEK 23 0 F5H3K2;F5H8B7;E7ENF1;G5EA44;F5H7W8;Q96C57 F5H3K2 C12orf43 Uncharacterized protein C12orf43 1 0 EAAVSASDILQES(0.004)AIHS(0.99)PGT(0.006)VEK;EAAVSASDILQESAIHS(0.998)PGT(0.002)VEK;EAAVSASDILQESAIHS(0.997)PGT(0.003)VEK ;; 219.32 3.32E-30 115965000 5502.6 6847.7 3976.58 6000.9 7676.2 8781.6 7500.2 8029.9 7731.9 6712.1 TRUE FALSE FALSE 6081.388715 7069.569973 4518.487613 6117.056097 7088.051214 8033.358276 6656.257757 7824.506785 7678.093078 7001.491479 0.868584748 1.009723427 0.645360724 0.873679003 1.012363042 1.147378141 0.950691403 1.117548569 1.096636781 1 12.77344657 -5.591885174 5.318750494 0.914438842 1.062958416 0.252543507 0.121905738 0.206471267 10.92396886 0.016503379 0.033653284 2.56E-06 5.591885174 0.148519574 EAAYHPEVAPDVR ddPTM_HeLa_SAHA_4h_R1 2 EAAYHPEVAPDVR 13 0 Q9Y490 Q9Y490 TLN1 Talin-1 0 0 ; ; 92.039 0.010134 18392900 4591.4 4616.9 4151 4529.6 4970.7 4888.6 4678.6 4957.9 4383.8 4349.1 FALSE FALSE TRUE 5074.344518 4766.490589 4716.676663 4617.276958 4589.84604 4472.063777 4152.151615 4831.084097 4353.292779 4536.610985 1.118531991 1.0506721 1.039691673 1.017781109 1.011734543 0.985771932 0.915254058 1.064910373 0.959591376 1 12.14739924 -5.962104839 1.426684623 1.056501618 0.984025043 0.037265908 0.053011254 0.43205654 1.753642946 0.008649342 0.019110123 1.09E-06 5.962104839 -0.072476574 EACGVIVELIK ddPTM_HeLa_SAHA_4h_R1 1 EACGVIVELIK 11 0 Q9Y265;Q9Y265-2 Q9Y265 RUVBL1 RuvB-like 1 0 0 167.67 1.16E-10 325320 0 0 162.12 124.43 172.2 0 52.764 158.2 61.138 0 FALSE FALSE TRUE 0 0 184.2128693 126.8385226 159.0060732 0 46.82685585 154.1534731 60.71253568 0 0 EADDDEEVDDNIPEMPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 5 EADDDEEVDDNIPEMPSPK 19 0 P26358;P26358-2;P26358-3 P26358 DNMT1 DNA (cytosine-5)-methyltransferase 1 1 0 EADDDEEVDDNIPEMPS(1)PK;EADDDEEVDDNIPEMPS(1)PK;EADDDEEVDDNIPEMPS(1)PK;EADDDEEVDDNIPEMPS(1)PK;EADDDEEVDDNIPEMPS(1)PK ;;;; 159.1 4.04E-06 79516800 13483 9751.3 7948 11984.1 10883.5 12775.4 11325.3 12621.5 12799 10598.1 TRUE FALSE FALSE 14901.2038 10067.24852 9031.112049 12216.06958 10049.60858 11686.86405 10050.94744 12298.66031 12709.93072 11055.03596 1.34791093 0.910648193 0.816922901 1.105023053 0.909052546 1.057152966 0.909173654 1.112493922 1.149696009 1 13.4324161 -7.235090615 24.81538845 1.164291292 0.971489487 0.352531956 0.118889312 690.6948533 650500.2809 0.025069482 0.030698811 5.82E-08 7.235090615 -0.192801805 EADDDEEVDDNIPEMPS(ph)PKK ddPTM_HeLa_SAHA_4h_R1 5 EADDDEEVDDNIPEMPSPKK 20 1 P26358;P26358-2;P26358-3 P26358 DNMT1 DNA (cytosine-5)-methyltransferase 1 1 0 EADDDEEVDDNIPEMPS(1)PKK;EADDDEEVDDNIPEMPS(1)PKK;EADDDEEVDDNIPEMPS(1)PKK;EADDDEEVDDNIPEMPS(1)PKK;EADDDEEVDDNIPEMPS(1)PKK ;;;; 147.75 2.09E-05 59355400 13057.4 8637.8 7581.23 11636.2 8930.7 9774 11104.8 12950.3 10549.9 9739 TRUE FALSE FALSE 14430.83724 8917.670387 8614.360543 11861.43548 8246.431695 8941.200213 9855.258678 12619.05008 10476.48239 10158.89595 1.420512358 0.877818853 0.847962277 1.167590999 0.811744872 0.880135032 0.970111194 1.24216747 1.031261905 1 13.310456 -7.238449907 24.93262559 1.198575296 0.964236015 0.174142255 0.169301425 831.2739978 901537.346 0.032798255 0.04015508 5.77E-08 7.238449907 -0.234339281 EADDIVNWLK ddPTM_HeLa_SAHA_4h_R1 2 EADDIVNWLK 10 0 P07237;I3L312;I3L3P5 P07237 P4HB Protein disulfide-isomerase 0 0 ; ; 159.79 2.67E-07 733210 201.55 316.43 231.49 428.097 697.73 486.74 743.14 760.4 471.98 440.39 FALSE FALSE TRUE 222.7499537 326.6825396 263.0362517 436.3834365 644.2700781 445.2670137 659.5199314 740.950069 468.6954528 459.3773681 0.484895359 0.711141998 0.57259297 0.949945441 1.402485457 0.969283741 1.435682245 1.612944216 1.020284161 1 8.843535972 -5.917018683 3.770876213 0.734082996 1.332991025 0.625800757 0.21716316 0.128540521 3.589506864 0.037035299 0.069240579 1.21E-06 5.917018683 0.598908029 EADES(ph)LNFEEQILEAAK ddPTM_HeLa_SAHA_4h_R1 1 EADESLNFEEQILEAAK 17 0 Q9Y490 Q9Y490 TLN1 Talin-1 1 0 EADES(1)LNFEEQILEAAK 189.77 4.42E-28 0 274.93 342.7 218.86 373.72 363.11 331.4 451.94 455.9 330.94 307.53 TRUE FALSE FALSE 303.8483988 353.8037049 248.685101 380.953891 335.2885902 303.1628556 401.0865218 444.2387381 328.6369616 320.7891233 0.947190465 1.102916773 0.775229217 1.187552393 1.045199372 0.945053412 1.250312098 1.384831049 1.024464166 1 8.325481416 -4.625319779 3.618173754 0.987909342 1.36239047 0.599527479 0.104285644 0.097921267 2.373300578 0.013320982 0.061368003 2.37E-05 4.625319779 0.374481128 EADESLNFEEQILEAAK ddPTM_HeLa_SAHA_4h_R1 2 EADESLNFEEQILEAAK 17 0 Q9Y490 Q9Y490 TLN1 Talin-1 0 0 ; ; 221.85 1.79E-20 3672400 1336.45 1253.01 1436.36 1347.12 1129.52 1496.44 1534.15 1396.89 1370.33 1247.28 FALSE FALSE TRUE 1477.023943 1293.608346 1632.099661 1373.195456 1042.976422 1368.934893 1361.523404 1361.159576 1360.793762 1301.056345 1.13524979 0.994275422 1.254441952 1.055446569 0.801638166 1.052171875 1.046475358 1.046195718 1.04591455 1 10.34546773 -5.978945066 24.99843946 1.07575682 0.98719848 0.186094293 0.097152076 362.2738727 430124.1737 0.014923395 0.027049411 1.05E-06 5.978945066 -0.08855834 EADLVFISVNT(ph)PTK ddPTM_HeLa_SAHA_4h_R1 1 EADLVFISVNTPTK 14 0 O60701;E7ER83;E7ETF4;E7EV97 O60701 UGDH UDP-glucose 6-dehydrogenase 1 0 EADLVFISVNT(1)PTK 177.39 1.77E-06 9460900 3197.1 5558.6 3929.4 5349.9 5394.1 5945.7 5793.6 3912.6 7373.7 4988.7 TRUE FALSE FALSE 3533.385647 5738.702287 4464.878169 5453.455051 4980.805223 5439.09291 5141.68888 3812.521357 7322.385821 5203.787271 0.679002708 1.102793406 0.858005513 1.047978091 0.957150046 1.045218151 0.988066693 0.732643584 1.407126279 1 12.34534627 -7.251747906 24.97871718 0.848417943 0.965076335 0 0.214982697 1102.2424 2840911.479 0.024614088 0.029946532 5.60E-08 7.251747906 0.116658392 EAEAAIYHLQLFEELR ddPTM_HeLa_SAHA_4h_R1 2 EAEAAIYHLQLFEELR 16 0 P14618;P14618-3;B4DNK4 P14618 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ; ; 207.85 1.41E-15 4345400 2602.08 1777.17 1881.73 2578.68 2037.86 2909.62 2517.07 2071.84 3056.21 2284.52 FALSE FALSE TRUE 2875.778713 1834.751474 2138.162365 2628.59408 1881.719607 2661.704007 2233.842659 2018.845333 3034.941586 2383.016837 1.206780694 0.769928036 0.897250213 1.103053088 0.789637563 1.11694721 0.937401123 0.847180474 1.273571188 1 11.21857343 -7.272916914 24.9716847 1.097646436 0.9318647 0.382410911 0.13069351 710.2973141 1545391.722 0.021572073 0.024777832 5.33E-08 7.272916914 -0.165781735 EAEAAIYHLQLFEELRR ddPTM_HeLa_SAHA_4h_R1 1 EAEAAIYHLQLFEELRR 17 1 P14618;P14618-3;B4DNK4 P14618 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 124.42 3.07E-05 2447000 745.18 993.48 837.58 969.22 1017.9 851.59 1208.9 533.73 853.06 1225.1 FALSE FALSE TRUE 823.5614514 1025.669404 951.7210405 987.9806546 939.9087219 779.0297411 1072.87139 520.0779594 847.123486 1277.920056 0.644454594 0.802608425 0.744742236 0.773116166 0.735498842 0.609607571 0.839544997 0.406972218 0.662892394 1 10.31958187 -13.5228787 0.26881764 3.188188136 0.669817399 0 0.158101835 27.06722958 0.363186568 31.63531681 0.055480541 3.00E-14 13.5228787 -2.518370736 EAEAAMFHR ddPTM_HeLa_SAHA_4h_R1 2 EAEAAMFHR 9 0 P14618-2;H3BTN5;H3BR70 P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ; ; 156.92 0.00013648 6676500 6649 7123.9 6664.5 6750 8142.2 6979.2 8479.6 6173.6 5997.7 5589.1 FALSE FALSE TRUE 7348.372327 7354.719034 7572.703353 6880.656011 7518.346395 6384.532896 7525.453091 6015.688251 5955.961517 5830.073453 1.260425342 1.261513957 1.298903592 1.18020057 1.289580046 1.095103337 1.290799018 1.031837472 1.021592878 1 12.50929834 -9.280506253 0.979863899 0.998457473 1.21973595 0.471629914 0.085296483 0.353953292 0.602665259 0.055145218 0.014504384 5.24E-10 9.280506253 0.221278477 EAEALLQSMGLTPESPIVPPPMS(ph)PSSK ddPTM_HeLa_SAHA_4h_R1 2 EAEALLQSMGLTPESPIVPPPMSPSSK 27 0 E7EQL5;Q13409-2;Q13409-3;Q13409-6;E9PGG1;E7EQU2;E7EV09;E7ETL8 E7EQL5 DYNC1I2 Cytoplasmic dynein 1 intermediate chain 2 1 0 EAEALLQSMGLTPESPIVPPPMS(0.779)PS(0.158)S(0.063)K;EAEALLQSMGLTPESPIVPPPMS(0.76)PS(0.101)S(0.138)K ; 123.52 2.86E-08 62441700 2806.93 3184.3 2895.23 3052.07 3616.37 3830.99 4074.02 3780.79 3432.42 3087.03 TRUE FALSE FALSE 3102.175776 3287.473409 3289.776867 3111.147228 3339.284512 3504.568099 3615.600547 3684.082866 3408.53351 3220.126971 0.963370639 1.020914218 1.02162955 0.966156694 1.037003988 1.088332271 1.122813038 1.14408 1.05850904 1 11.65290186 -5.194247346 1.359850167 0.986953631 1.142615602 0.729801223 0.030288629 0.116740286 0.387970121 0.003483222 0.015311785 6.39E-06 5.194247346 0.15566197 EAEDS(ph)DSDDNIKR ddPTM_HeLa_SAHA_4h_R1 2 EAEDSDSDDNIKR 13 1 Q96ST2-3;Q96ST2;Q96ST2-2 Q96ST2-3 IWS1 Protein IWS1 homolog 1 0 EAEDS(1)DSDDNIKR;EAEDS(0.938)DS(0.062)DDNIKR ; 93.106 0.0046137 21561000 2683.5 2952.5 2441.1 2722.8 3472.7 3506.5 3605.8 3134.3 3280.1 3116.3 TRUE FALSE FALSE 2965.762842 3048.162937 2773.760395 2775.503731 3206.622476 3207.726473 3200.065894 3054.129144 3257.273517 3250.658944 0.912357431 0.937706167 0.85329173 0.853828033 0.986453064 0.986792687 0.984436063 0.939541551 1.002034841 1 11.66651648 -3.902380033 14.50698576 0.947935553 0.720837875 0.000615604 0.053988262 915103.5823 1836171.905 0.008186505 6595210.641 0.000125205 3.902380033 -0.227097678 EAEDSLRR ddPTM_HeLa_SAHA_4h_R1 1 EAEDSLRR 8 1 O43776;K7EMQ6;K7EJ19;K7EIU7;K7EPK2;O43776-2 O43776 NARS "Asparagine--tRNA ligase, cytoplasmic" 0 0 153.71 0.0003023 8420500 2430 2109.3 1959.9 2379.7 2091.1 2213.4 2664.3 2592.1 2083 2684.3 FALSE FALSE TRUE 2685.598549 2177.642704 2226.984965 2425.762535 1930.88037 2024.805868 2364.505952 2525.797835 2068.504233 2800.03331 0.959130929 0.777720285 0.795342312 0.866333456 0.689591928 0.72313635 0.844456366 0.902059924 0.738742724 1 11.45122827 -7.32008397 4.516371002 0.982135697 0.796527106 0.003734703 0.097639347 0.096732952 4.05966703 0.01083842 0.012449051 4.79E-08 7.32008397 -0.18560859 EAEEGEDDRDS(ph)ANGEDDS ddPTM_HeLa_SAHA_4h_R1 3 EAEEGEDDRDSANGEDDS 18 1 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;G3V2D6 P07910 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 1 0 EAEEGEDDRDS(0.965)ANGEDDS(0.035);EAEEGEDDRDS(0.999)ANGEDDS(0.001);EAEEGEDDRDS(0.724)ANGEDDS(0.276) ;; 138.28 0.00055193 373435100 3036.06 4539.8 3363.92 4461.4 4792.1 5216.4 4154.5 3100.57 7275.5 4563.4 TRUE FALSE FALSE 3355.406721 4686.892499 3822.337499 4547.756848 4424.930333 4771.933373 3687.024726 3021.261909 7224.869203 4760.150507 0.70489509 0.984610149 0.80298669 0.955380894 0.92957782 1.002475314 0.774560536 0.63469882 1.517781674 1 12.21679147 -9.693624587 1.580511066 0.999806745 0.834953633 0.233392206 0.202977452 0.526158217 2.37375477 0.089243281 0.019860994 2.02E-10 9.693624587 -0.164853112 EAEEGPTGASESQDS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 EAEEGPTGASESQDSPR 17 0 H0Y507;Q5TCZ1-2;Q5TCZ1-3;Q5TCZ1 H0Y507 SH3PXD2A SH3 and PX domain-containing protein 2A 1 0 EAEEGPTGASESQDS(1)PR;EAEEGPTGASESQDS(1)PR;EAEEGPTGASES(0.001)QDS(0.999)PR ;; 294.98 1.45E-86 18828400 1309.12 1379.55 1175.71 1193.79 1329.98 1454.45 1345.92 1406.36 1469.19 1346.62 TRUE FALSE FALSE 1446.819248 1424.248325 1335.929636 1216.897532 1228.07722 1330.522677 1194.473539 1370.387348 1458.965787 1404.679378 1.029999636 1.013931255 0.95105663 0.866316934 0.874275823 0.947207383 0.850353154 0.97558729 1.038646833 1 10.45602515 -6.586772047 3.395860958 1.014542872 0.900891793 0.69592536 0.03655737 0.094241892 2.214418816 0.005331676 0.00780652 2.59E-07 6.586772047 -0.113651079 EAEEVYR ddPTM_HeLa_SAHA_4h_R1 1 EAEEVYR 7 0 Q96HJ9-2;A0A0A6YYJ8;Q9Y383-3;Q9Y383-2;Q9Y383 Q96HJ9-2 LUC7L2 Putative RNA-binding protein Luc7-like 2 0 0 120.49 0.02229 7938300 1456.8 1686.1 1481.4 1598.5 1461.2 1746.8 1471.9 1656.5 1621.4 1403.2 FALSE FALSE TRUE 1610.032908 1740.730746 1683.277477 1629.441279 1349.243172 1597.962813 1306.277938 1614.129129 1610.116545 1463.698819 1.099975546 1.189268396 1.150016284 1.113235358 0.921803826 1.091729249 0.89244995 1.102774087 1.100032687 1 10.51540301 EAELLTS(ph)AEKR ddPTM_HeLa_SAHA_4h_R1 1 EAELLTSAEKR 11 1 O60566-2;O60566;O60566-3 O60566-2 BUB1B Mitotic checkpoint serine/threonine-protein kinase BUB1 beta 1 0 EAELLT(0.149)S(0.851)AEKR 129.74 0.003542 9955000 3063.9 2618.5 2557.2 2578.7 3234.1 3726.9 2778.5 3143.2 2995.7 2860.2 TRUE FALSE FALSE 3386.17506 2703.341118 2905.681899 2628.614467 2986.303957 3409.347153 2465.855867 3062.801495 2974.85268 2983.517219 1.13496079 0.906092011 0.973911556 0.881045516 1.000934044 1.142727493 0.826492923 1.026574097 0.997095864 1 11.54279839 -7.257177966 24.97126671 1.063731484 0.965324788 0.128647627 0.089457467 434.5245748 2546254.88 0.015269076 0.018360047 5.53E-08 7.257177966 -0.098406696 EAENPEGEEKEAATLEVERPLPMEVEK ddPTM_HeLa_SAHA_4h_R1 2 EAENPEGEEKEAATLEVERPLPMEVEK 27 2 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 0 0 ; ; 101.16 1.55E-06 24236000 1480.18 1741.88 1865.74 2000.86 2222.6 2190.81 1746.68 1983 1831.18 1774.83 FALSE FALSE TRUE 1635.872124 1798.318055 2119.993331 2039.589539 2052.304868 2004.140663 1550.138969 1932.277731 1818.436669 1851.351607 0.883609638 0.971354144 1.145105729 1.101675949 1.108544082 1.082528384 0.837301225 1.043711915 0.982221131 1 10.8543632 -6.981015687 24.2921372 0.944113879 1.050129673 0.230681662 0.083494137 195.5410313 250211.1554 0.01484505 0.019508289 1.04E-07 6.981015687 0.106015795 EAEQAASEAAGGDTT(ph)PGSS(ph)PSSLYYEEPLGQPPR ddPTM_HeLa_SAHA_4h_R1 1 EAEQAASEAAGGDTTPGSSPSSLYYEEPLGQPPR 34 0 Q86TC9;Q86TC9-3 Q86TC9 MYPN Myopalladin 2 0 EAEQAASEAAGGDT(0.203)T(0.543)PGS(0.402)S(0.768)PS(0.063)S(0.017)LY(0.003)Y(0.001)EEPLGQPPR 104.25 3.51E-13 2234100 244.71 310.17 309.07 210.51 294.21 259.68 229.45 231.33 252.45 157.53 TRUE FALSE FALSE 270.4497206 320.2197115 351.18845 214.5847255 271.6676934 237.5538031 203.6316821 225.4129136 250.6931799 164.3218892 1.645853281 1.948734359 2.137198225 1.305880345 1.653265397 1.445661343 1.239224324 1.371776545 1.525622551 1 7.360380864 -9.127263663 0.98746215 1.014917457 1.594591339 0.066281769 0.308672071 0.438308385 0.797480717 0.16798566 0.054041233 7.46E-10 9.127263663 0.579673882 EAESSPFVER ddPTM_HeLa_SAHA_4h_R1 1 EAESSPFVER 10 0 P14625 P14625 HSP90B1 Endoplasmin 0 0 117.53 0.020523 8778000 1063.8 868.71 775.23 1010.2 1052.7 1204.8 1174.5 1849.5 1239.6 1099.1 FALSE FALSE TRUE 1175.695365 896.856774 880.8743072 1029.753882 972.0423534 1102.144262 1042.342169 1802.192468 1230.973523 1146.48758 1.025475884 0.78226471 0.768324335 0.898181454 0.847843771 0.961322461 0.909161326 1.571924982 1.07369111 1 10.16300501 -4.258914356 24.7826018 0.953629943 1.57192523 0.785784056 0.100862686 82.2915443 807619.2226 0.015717548 0.142975229 5.51E-05 4.258914356 0.618295287 EAETEPHEGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 EAETEPHEGKR 11 1 P41223;P41223-2 P41223 BUD31 Protein BUD31 homolog 0 1 ; EAETEPHEGK(1)R;EAETEPHEGK(1)R 106.67 0.0024435 1195060 886.32 787.62 727.61 903.81 962.28 1065.11 1409.51 1536.95 1091.2 783.74 FALSE TRUE FALSE 979.5472042 813.1394048 826.7649016 921.3045495 888.5503143 974.3566359 1250.908225 1497.637044 1083.60625 817.5308669 1.198177639 0.994628384 1.011295029 1.126935492 1.086870662 1.19182856 1.530105193 1.831902751 1.325462186 1 9.675129392 -4.551398052 1.620206011 1.082258045 1.91478912 0.854380414 0.097377305 0.127563115 0.470366309 0.011855327 0.139595624 2.81E-05 4.551398052 0.832531075 EAETPQAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EAETPQAKK 9 1 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 ; EAETPQAK(1)K;EAETPQAK(1)K 141.88 8.82E-05 17383000 6487.8 6230.5 5576.7 6662 7266.1 8103.4 8216.1 7552.3 5714.6 5662.2 FALSE TRUE FALSE 7170.216571 6432.372288 6336.663634 6790.952643 6709.372988 7412.944732 7291.602804 7359.123102 5674.831633 5906.325152 1.213989475 1.089065048 1.072860615 1.149776294 1.135964041 1.255085784 1.23454138 1.245973243 0.960805829 1 12.52804507 -13.52287875 0.207695611 0.138506848 1.211915548 0.660103245 0.057607483 30.31292546 0.374617871 10.6694537 0.061295998 3.00E-14 13.52287875 1.0734087 EAEYFELPELVR ddPTM_HeLa_SAHA_4h_R1 1 EAEYFELPELVR 12 0 Q96CX2 Q96CX2 KCTD12 BTB/POZ domain-containing protein KCTD12 0 0 121.36 0.0088235 1257800 301.27 491.34 256.46 414.87 503.12 348.58 515.97 279.44 303.38 471.4 FALSE FALSE TRUE 332.9589609 507.2597384 291.4090332 422.9004088 464.5710543 318.8790229 457.9116976 272.2923294 301.2687539 491.724361 0.677125209 1.03159367 0.592626797 0.860035504 0.944779415 0.648491407 0.93123655 0.553749928 0.612678114 1 8.941706021 -9.515588379 1.212220189 1.002471378 0.77790548 0 0.193986494 0.5432431 1.403240536 0.103430806 0.02377003 3.05E-10 9.515588379 -0.224565897 EAFAQRPSS(ph)APDLMCLS(ph)PDRK ddPTM_HeLa_SAHA_4h_R1 2 EAFAQRPSSAPDLMCLSPDRK 21 2 G8JLH2;B4DIG0;P30305-3;P30305-2;P30305;P30305-4 G8JLH2 CDC25B M-phase inducer phosphatase 2 2 0 EAFAQRPS(0.466)S(0.534)APDLMCLS(1)PDRK;EAFAQRPS(0.465)S(0.535)APDLMCLS(1)PDRK ; 67.827 0.0044954 331740000 2491.8 4994.1 3561 2685.7 4672.1 3467.8 5215.8 3701.1 3047.6 3622.1 TRUE FALSE FALSE 2753.898957 5155.912117 4046.274535 2737.685607 4314.124707 3172.323931 4628.904457 3606.431221 3026.391503 3778.266457 0.728878968 1.364623744 1.070934139 0.724587754 1.141826485 0.839624195 1.225139759 0.954520085 0.801000019 1 11.88350873 EAFDEVDMAHR ddPTM_HeLa_SAHA_4h_R1 1 EAFDEVDMAHR 11 0 Q9NX46 Q9NX46 ADPRHL2 Poly(ADP-ribose) glycohydrolase ARH3 0 0 141.08 2.55E-07 0 1800.6 1693.1 1469.6 2097.9 1913.2 1984.1 2033.9 1856.1 2037.5 2100.4 FALSE FALSE TRUE 1989.995369 1747.957551 1669.869435 2138.507888 1766.611029 1815.043518 1805.040219 1808.62365 2023.320872 2190.958523 0.908276149 0.797804948 0.762163874 0.976060416 0.806318792 0.828424408 0.82385869 0.825494244 0.923486616 1 11.09734646 -7.987908507 0.857790578 0.985130098 0.832762767 0.412346593 0.058871366 0.271540701 0.431168751 0.017158652 0.013078067 1.03E-08 7.987908507 -0.152367331 EAFEQPQT(ph)SSTPPRDLDSK ddPTM_HeLa_SAHA_4h_R1 1 EAFEQPQTSSTPPRDLDSK 19 1 A0A0A0MRF7;K7EIW3;P52564 A0A0A0MRF7 MAP2K6 Dual specificity mitogen-activated protein kinase kinase 6 1 0 EAFEQPQT(0.25)S(0.25)S(0.25)T(0.25)PPRDLDSK 73.809 0.0085386 30597000 2109.4 1498 1879.3 1830.2 2260.2 2189 2010.7 2170.5 1737 1693.6 TRUE FALSE FALSE 2331.27637 1546.536183 2135.401217 1865.626168 2087.023964 2002.484885 1784.450744 2114.981753 1724.912076 1766.619384 1.319625716 0.875421269 1.208750021 1.056043075 1.181365937 1.133512347 1.010093493 1.197191524 0.976391458 1 10.78677553 EAFNMIDQNR ddPTM_HeLa_SAHA_4h_R1 6 EAFNMIDQNR 10 0 J3QRS3;P19105;O14950;J3KTJ1;P24844;P24844-2 J3QRS3;P24844;P24844-2 MYL12A;MYL12B;MYL9 Myosin regulatory light chain 12A;Myosin regulatory light chain 12B;Myosin regulatory light polypeptide 9 0 0 ;;;;; ;;;;; 180.09 0.00012306 157686900 7329.44 7477.37 7133.2 8097.92 10301.3 9327.53 8469.66 7030.24 8430.15 7243.88 FALSE FALSE TRUE 8100.384128 7719.641694 8105.275348 8254.666951 9512.016619 8532.771969 7516.631566 6850.41664 8371.4839 7556.199117 1.072018352 1.021630263 1.072665665 1.092436399 1.258836152 1.129241281 0.994763564 0.906595569 1.107896149 1 12.883445 -9.024929132 0.603793397 0.993935367 1.07634517 0 0.092525649 2.137519555 1.285832674 0.09353068 0.021903278 9.44E-10 9.024929132 0.082409804 EAFQLFDR ddPTM_HeLa_SAHA_4h_R1 2 EAFQLFDR 8 0 P60660-2;F8W1R7;G8JLA2;G3V1V0;P60660;J3KND3;B7Z6Z4;G3V1Y7 P60660-2 MYL6 Myosin light polypeptide 6 0 0 ; ; 138.98 0.006019 46877000 6756.6 6311.9 6934.8 7803.3 7077 6823.1 8557.8 6446.5 6005.4 5995.8 FALSE FALSE TRUE 7467.290188 6516.409701 7879.838429 7954.344155 6534.761789 6241.733494 7594.853821 6281.607864 5963.607932 6254.308281 1.193943415 1.04190734 1.259905664 1.271818369 1.044841651 0.99798942 1.214339537 1.004364925 0.953519984 1 12.61063462 -2.611693087 14.44120834 1.106676911 0.651961613 0 0.116229881 0 0 0.015049681 0 0.002445158 2.611693087 -0.454715298 EAFSLFDKDGDGTITTK ddPTM_HeLa_SAHA_4h_R1 3 EAFSLFDKDGDGTITTK 17 1 P0DP25;P0DP24;P0DP23;E7EMB3;F8WBR5;M0QZ52;G3V479 P0DP25 CALM2;CALM3;CALM1 0 0 ;; ;; 148.33 1.40E-06 100055100 5644.24 5593.56 5161.83 5310.57 6622.83 7073.36 5800.36 5816.81 6332.22 5897.56 FALSE FALSE TRUE 6237.92706 5774.795014 5865.257311 5413.363762 6115.390196 6470.669934 5147.688227 5668.024423 6288.153565 6151.832674 1.013994917 0.938711327 0.953416262 0.879959526 0.994076159 1.051828013 0.836773121 0.921355427 1.022159395 1 12.58680055 -7.258202822 23.98659707 1.006608711 0.940169712 0.264276883 0.055282215 173.9152631 1288909.783 0.009193437 0.01100724 5.52E-08 7.258202822 -0.066438999 EAFTNKPNVFTVVTR ddPTM_HeLa_SAHA_4h_R1 1 EAFTNKPNVFTVVTR 15 1 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 75.911 0.019281 1525700 185.35 481.11 275.7 300.68 271.85 292.35 234.62 243.74 312.54 876.45 FALSE FALSE TRUE 204.8459634 496.6982797 313.2709602 306.5000962 251.0209117 267.4401353 208.2199401 237.5054837 310.3650087 914.2380487 0.224061954 0.543292067 0.342657977 0.335251958 0.274568437 0.292527899 0.227752433 0.259785167 0.339479427 1 9.836426052 -9.471471422 0.612924536 1.151090836 0.296631499 0 0.223764321 0.309198112 0.149098661 0.153694235 0.020088613 3.38E-10 9.471471422 -0.854459337 EAGAGGLAIAVEGPSK ddPTM_HeLa_SAHA_4h_R1 3 EAGAGGLAIAVEGPSK 16 0 P21333-2;P21333;Q60FE5;H0Y5C6 P21333-2 FLNA Filamin-A 0 0 ;; ;; 247.32 8.07E-58 6523000 2838.69 3559.93 2897.95 3376.7 3463.94 4083.09 3146.56 3164.52 3866.5 3453.52 FALSE FALSE TRUE 3137.276439 3675.274068 3292.867534 3442.060911 3198.533666 3735.187761 2792.500788 3083.576161 3839.592712 3602.418148 0.8708807 1.020224171 0.914071437 0.955486223 0.887885174 1.036855692 0.775173973 0.855973969 1.0658376 1 11.81474994 -12.22695557 0.012381456 1.994151806 8.65E-07 0.25100732 0.076362623 7857.591906 9.944762715 918.9109938 696.808701 5.93E-13 12.22695557 -1.994150942 EAGDVCYADVYR ddPTM_HeLa_SAHA_4h_R1 2 EAGDVCYADVYR 12 0 J3KTL2;Q07955;Q07955-3;Q07955-2;J3KSR8 J3KTL2 SRSF1 Serine/arginine-rich splicing factor 1 0 0 ; ; 174.4 0.00030898 65101000 2770.3 2681.6 2761.82 2796.3 2947.1 2990.9 2480.98 3176.3 2649.7 2577.9 FALSE FALSE TRUE 3061.692865 2768.485599 3138.186447 2850.42643 2721.293835 2736.058494 2201.813601 3095.054845 2631.260522 2689.045885 1.138579628 1.029541971 1.167025994 1.060014054 1.011992339 1.017483007 0.81880849 1.150986252 0.97851083 1 11.39287866 -5.576104446 2.422104968 1.072149806 0.979503664 0.088723679 0.092654162 0.398973089 4.702754301 0.013236791 0.030893849 2.65E-06 5.576104446 -0.092646142 EAGELPTS(ph)PLHLLSPGTPR ddPTM_HeLa_SAHA_4h_R1 2 EAGELPTSPLHLLSPGTPR 19 0 H7C228;Q969R5-2;Q969R5-3;Q969R5 H7C228 L3MBTL2 Lethal(3)malignant brain tumor-like protein 2 1 0 EAGELPT(0.154)S(0.846)PLHLLSPGTPR;EAGELPT(0.041)S(0.959)PLHLLSPGTPR ; 120.64 0.00027301 5721200 1586.17 2303.79 1221.22 1903.5 2375.53 2640.06 2569.49 2481.61 3322.32 2536.09 TRUE FALSE FALSE 1753.010638 2378.434308 1387.641502 1940.344995 2193.517405 2415.112035 2280.364223 2418.13401 3299.199705 2645.433251 0.662655403 0.899071752 0.524542247 0.733469648 0.829171329 0.912936297 0.862000287 0.914078633 1.247130202 1 11.3692883 -5.386396011 5.126747154 0.807887732 0.892309074 0 0.186275794 0.595132645 22.390961 0.023018038 0.052453266 4.11E-06 5.386396011 0.084421342 EAGENAPVLS(ph)DDELVSMSVR ddPTM_HeLa_SAHA_4h_R1 4 EAGENAPVLSDDELVSMSVR 20 0 O60675 O60675 MAFK Transcription factor MafK 1 0 EAGENAPVLS(1)DDELVSMSVR;EAGENAPVLS(0.998)DDELVSMS(0.001)VR;EAGENAPVLS(1)DDELVSMSVR;EAGENAPVLS(1)DDELVSMSVR ;;; 244.72 1.14E-41 14169900 3203.25 3879.42 3394.57 3964.38 4273.09 4696.83 4798.1 4927.49 3863.75 3861.69 TRUE FALSE FALSE 3540.182532 4005.115753 3857.164321 4041.116307 3945.686767 4296.63366 4258.20516 4801.451941 3836.861849 4028.186355 0.878852719 0.994272708 0.957543664 1.00320987 0.979519421 1.066642226 1.057102325 1.191963707 0.952503562 1 11.97591471 -3.563556295 0.544586679 0.946206735 1.579385565 0.791921801 0.03623026 3.039552123 0.354649196 0.009427184 1.449607309 0.000273177 3.563556295 0.63317883 EAGEQGDIEPR ddPTM_HeLa_SAHA_4h_R1 4 EAGEQGDIEPR 11 0 Q13283 Q13283 G3BP1 Ras GTPase-activating protein-binding protein 1 0 0 ;;; ;;; 169.58 0.00061758 21948220 6540.95 6782.75 6553.52 6325.66 7499.17 7727.19 7524.07 7711.11 7004.77 6198.19 FALSE FALSE TRUE 7228.957132 7002.51555 7446.599576 6448.102296 6924.585215 7068.78994 6677.441841 7513.870972 6956.023235 6465.424304 1.118094775 1.083071307 1.15175729 0.997320824 1.071017908 1.093321893 1.032792517 1.162162082 1.075880392 1 12.65852934 -9.422333572 1.130691163 0.999619461 1.088110505 0.062837208 0.05220287 0.4521388 1.02681578 0.031586433 0.007820138 3.78E-10 9.422333572 0.088491045 EAGS(ph)PAQEFK ddPTM_HeLa_SAHA_4h_R1 4 EAGSPAQEFK 10 0 Q5JSZ5;Q5JSZ5-5;Q5JT00 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 EAGS(1)PAQEFK;EAGS(1)PAQEFK;EAGS(1)PAQEFK;EAGS(1)PAQEFK ;;; 155.86 0.00033747 231232000 11578.8 13225.3 10658.7 12979.1 14122.4 17056.6 13711.9 12676.4 16727.6 12870.9 TRUE FALSE FALSE 12796.71131 13653.8084 12111.21213 13230.32925 13040.34476 15603.28172 12169.00092 12352.15604 16611.19127 13425.82749 0.953141348 1.016980772 0.902083104 0.985438645 0.971287973 1.162183987 0.906387404 0.920029403 1.237256421 1 13.71272339 EAGT(ph)PSLDSEAK ddPTM_HeLa_SAHA_4h_R1 3 EAGTPSLDSEAK 12 0 Q86UU0-3;Q86UU0-4;Q86UU0-2;Q86UU0;A0A087WZX0 Q86UU0-3 BCL9L B-cell CLL/lymphoma 9-like protein 1 0 EAGT(0.959)PS(0.036)LDS(0.006)EAK;EAGT(0.999)PS(0.001)LDSEAK;EAGT(0.988)PS(0.012)LDSEAK ;; 166.62 0.00018639 63367000 8434.4 10734.5 9218.8 8582.8 10629 11402.9 10168.2 8292.9 10416.7 9138.7 TRUE FALSE FALSE 9321.56889 11082.30484 10475.09005 8748.932505 9814.608316 10431.30877 9024.047375 8080.779626 10344.20934 9532.714081 0.977850464 1.162555045 1.098857048 0.917779809 1.029571246 1.094264307 0.946639886 0.847689289 1.08512741 1 13.21867131 -4.435548837 3.826279674 1.013102764 0.853528694 0.371437091 0.072632683 0.212010356 5.316182771 0.00999646 0.067815292 3.67E-05 4.435548837 -0.15957407 EAHQLFLEPEVLDPESVELK ddPTM_HeLa_SAHA_4h_R1 2 EAHQLFLEPEVLDPESVELK 20 0 P39748;P39748-2;I3L3E9 P39748 FEN1 Flap endonuclease 1 0 0 ; ; 164.94 1.51E-06 14744500 4315.9 3933 3493.2 4050.3 3654 2842.7 4261.6 4067 3810.5 3823.2 FALSE FALSE TRUE 4769.866164 4060.431781 3969.235104 4128.699413 3374.031309 2600.485967 3782.073552 3962.972029 3783.98242 3988.036862 1.19604365 1.018153021 0.99528546 1.035271126 0.846038145 0.652071698 0.948354713 0.993714995 0.948833361 1 11.96146303 -5.850796237 3.457700356 1.079580636 0.850635105 0.333710981 0.108504754 0.166080944 3.919583324 0.017504593 0.033688508 1.41E-06 5.850796237 -0.228945531 EAIEGTYIDK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EAIEGTYIDKK 11 1 P62280;M0QZC5 P62280 RPS11 40S ribosomal protein S11 0 1 ; EAIEGTYIDK(1)K;EAIEGTYIDK(1)K 248.88 9.27E-70 5955200 1151.22 4341 2083.81 2028.98 3757.2 3414.8 3565.3 3059.6 3066.4 1116.08 FALSE TRUE FALSE 1272.310602 4481.651248 2367.780775 2068.253842 3469.324148 3123.839829 3164.123061 2981.339862 3045.060673 1164.199671 1.092862877 3.849555502 2.033827044 1.776545634 2.980007841 2.683250912 2.717852564 2.560849257 2.615582833 1 10.1851228 -7.364386909 9.938408863 1.041520138 2.614788539 0.239675254 0.720892425 0.174911867 15.83993489 0.085283327 0.0974256 4.32E-08 7.364386909 1.573268401 EAIEHCR ddPTM_HeLa_SAHA_4h_R1 2 EAIEHCR 7 0 J3KQY6;C8C3P2;E9PDV3;F8W7T1;Q92784-4;Q92784-2;Q92784-5;Q92784;Q92782;Q92784-3;Q92782-2 J3KQY6 DPF1;DPF3 Zinc finger protein DPF3;Zinc finger protein neuro-d4 0 0 ; ; 95.793 0.017841 1980090 1284.11 1133.1 1175.58 1902.35 1876.43 7.0909 1918.69 1328.97 535.1 1407.47 FALSE FALSE TRUE 1419.178582 1169.813183 1335.78192 1939.172735 1732.658339 6.486715428 1702.793951 1294.976872 531.3761955 1468.15292 0.966642209 0.796792465 0.909838411 1.320824765 1.180162036 0.004418283 1.159820567 0.882044952 0.361935183 1 10.51978653 EAILAIHK ddPTM_HeLa_SAHA_4h_R1 2 EAILAIHK 8 0 O43707;O43707-2;F5GXS2;O43707-3;H7C144 O43707 ACTN4 Alpha-actinin-4 0 0 ; ; 72.547 0.021045 6488300 5004.9 4920.4 10001.6 7424.1 7183.8 3007.2 8330.1 2332.5 1267.52 3035.5 FALSE FALSE TRUE 5531.338345 5079.824188 11364.56596 7567.804191 6633.378796 2750.969642 7392.775224 2272.838027 1258.699225 3166.37526 1.74689918 1.60430264 3.589140587 2.390052842 2.094943982 0.868807206 2.33477545 0.717804379 0.397520547 1 11.62861653 -5.278692369 24.74008545 1.674288453 1.409893464 0.044106586 0.898780759 3172.916963 4549831.111 0.129929043 0.291209995 5.26E-06 5.278692369 -0.26439499 EAIS(ph)DEDEDEALYQK ddPTM_HeLa_SAHA_4h_R1 2 EAISDEDEDEALYQK 15 0 Q9C0B7 Q9C0B7 TANGO6 Transport and Golgi organization protein 6 homolog 1 0 EAIS(1)DEDEDEALYQK;EAIS(1)DEDEDEALYQK ; 213.32 1.27E-17 5786400 775.63 792.43 667.63 633.11 995.16 1023.94 882.92 759.11 662.53 774.65 TRUE FALSE FALSE 857.2143221 818.1052519 758.6111395 645.3647595 918.9110558 936.6945515 783.5715179 739.6930654 657.9193998 808.0489525 1.060844543 1.012445161 0.938818295 0.798670374 1.137197261 1.159205205 0.96970798 0.915406255 0.814207354 1 9.658298886 -10.14735345 3.306843923 0.999485789 1.01593149 0 0.117180282 2.923048061 58.80161102 0.095925839 0.014962597 7.12E-11 10.14735345 0.016445701 EALAEAALES(ph)PRPALVR ddPTM_HeLa_SAHA_4h_R1 6 EALAEAALESPRPALVR 17 1 O14745;O14745-2;J3QRP6 O14745 SLC9A3R1 Na(+)/H(+) exchange regulatory cofactor NHE-RF1 1 0 EALAEAALES(1)PRPALVR;EALAEAALES(1)PRPALVR;EALAEAALES(1)PRPALVR;EALAEAALES(1)PRPALVR;EALAEAALES(1)PRPALVR;EALAEAALES(1)PRPALVR ;;;;; 161.1 2.99E-06 1447203000 8733.73 9218 9625.2 10082 9530.7 10767.4 10364.2 9920.7 10062.57 9644.8 TRUE FALSE FALSE 9652.383793 9516.669248 10936.87213 10277.15169 8800.459825 9849.956944 9197.992939 9666.942859 9992.543756 10060.63453 0.959420975 0.945931315 1.08709566 1.021521223 0.874742025 0.979059215 0.914255747 0.960868107 0.99323196 1 13.29643368 -5.780198774 24.99937551 0.988880187 0.934292129 0.34149491 0.044972008 260.3123147 346900.2036 0.006819607 0.012376746 1.66E-06 5.780198774 -0.054588058 EALEAYRR ddPTM_HeLa_SAHA_4h_R1 2 EALEAYRR 8 1 Q9NRF9 Q9NRF9 POLE3 DNA polymerase epsilon subunit 3 0 0 ; ; 133.58 0.0032038 7729600 3940.7 4102 5178.1 4801.5 4672 3543.3 5423 2569.6 2413.8 3035.8 FALSE FALSE TRUE 4355.200907 4234.907491 5883.744502 4894.439976 4314.032369 3241.390906 4812.789767 2503.873353 2397.002169 3166.688195 1.375317252 1.337330116 1.858011948 1.545602116 1.36231675 1.023590169 1.519818015 0.790691473 0.756942907 1 11.62875911 -9.043380275 0.900897829 1.007146526 1.367040325 0.275455846 0.286534388 0.721341559 1.090390797 0.161585069 0.052729664 9.05E-10 9.043380275 0.359893799 EALLDESRPLFER ddPTM_HeLa_SAHA_4h_R1 1 EALLDESRPLFER 13 1 A0A5F9ZGM7;Q9BU89 A0A5F9ZGM7 DOHH Deoxyhypusine hydroxylase 0 0 100.93 0.0076813 1941900 674.62 823.2 678.15 776.1 844.18 814.45 955.05 755.86 806.71 671.59 FALSE FALSE TRUE 745.5796269 849.8722201 770.5647503 791.1225378 779.4991108 745.054278 847.5852604 736.5261957 801.0960394 700.5455316 1.064284323 1.21315772 1.099949562 1.12929496 1.112702995 1.063534409 1.209893179 1.051360922 1.143531724 1 9.452335011 -7.764436811 1.788399687 1.020307652 1.124916993 0 0.065092978 0.199730787 1.331836697 0.010230945 0.00994448 1.72E-08 7.764436811 0.104609341 EALNSCNK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 EALNSCNKR 9 1 P19338;H7BY16 P19338 NCL Nucleolin 0 1 ; EALNSCNK(1)R;EALNSCNK(1)R 97.565 0.0052826 1600610 175.88 279.41 119.22 279.22 195.36 259.29 369.33 338.96 0 135.86 FALSE TRUE FALSE 194.3798654 288.4630673 135.4666807 284.6247069 180.391559 237.1970333 327.7720164 330.289894 0 141.7175895 1.371600139 2.035478224 0.955891793 2.00839365 1.272894633 1.673730369 2.312853454 2.330620322 0 1 7.146875021 -1 0.178821133 0.969013443 6.750396879 0.509321332 0.484804813 29.38425455 0.317855991 0.424285913 46.35393414 0.1 1 5.781383436 EALSPCPS(ph)TVSTK ddPTM_HeLa_SAHA_4h_R1 1 EALSPCPSTVSTK 13 0 Q08AD1-2;Q08AD1-3;Q08AD1 Q08AD1-2 CAMSAP2 Calmodulin-regulated spectrin-associated protein 2 1 0 EALS(0.072)PCPS(0.901)T(0.027)VSTK 161.87 5.47E-05 21037000 1877.5 2225.9 1685.9 1720.6 1913.1 1948.5 1815.5 1604.5 1865.3 1361.1 TRUE FALSE FALSE 2074.984064 2298.02062 1915.645672 1753.904701 1766.518691 1782.476838 1611.215162 1563.459213 1852.319225 1419.783682 1.46147902 1.618570948 1.349251788 1.235332342 1.244216787 1.255456631 1.134831441 1.101195367 1.304648904 1 10.47145542 -4.720636987 3.056336734 1.266185205 1.104978312 0.154216374 0.15590654 0.568753866 10.4596102 0.030457692 0.137078587 1.90E-05 4.720636987 -0.161206893 EALTYDGALLGDR ddPTM_HeLa_SAHA_4h_R1 2 EALTYDGALLGDR 13 0 Q15056-2;Q15056 Q15056-2 EIF4H Eukaryotic translation initiation factor 4H 0 0 ; ; 196.67 1.85E-07 30374000 3013.1 2117.5 1956.57 2583.7 2267.2 2975.7 2892.7 2452.3 3476.3 2549.7 FALSE FALSE TRUE 3330.031683 2186.108389 2223.20117 2633.71125 2093.487626 2722.153619 2567.205783 2389.573717 3452.108145 2659.630045 1.252065748 0.821959578 0.835906172 0.990254737 0.787134899 1.023508373 0.965249204 0.898460943 1.297965539 1 11.37700987 -7.253368603 24.98865703 1.119031049 0.906518272 0.570889303 0.106997923 420.8707432 1303096.505 0.019060004 0.023123946 5.58E-08 7.253368603 -0.212512776 EANANGS(ph)SPEPVK ddPTM_HeLa_SAHA_4h_R1 1 EANANGSSPEPVK 13 0 Q3KQU3-4;Q3KQU3;Q3KQU3-2;Q3KQU3-3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 EANANGS(0.5)S(0.5)PEPVK 165.51 4.18E-05 14660000 4663.7 4944.2 3354.5 4569.7 4744.2 6094.6 4722.2 4483.8 6056.2 4713.9 TRUE FALSE FALSE 5154.249364 5104.395324 3811.633791 4658.153151 4380.700421 5575.305793 4190.845628 4369.110888 6014.054411 4917.139298 1.048221141 1.038082311 0.775173034 0.947329915 0.890904275 1.133851505 0.852293452 0.888547308 1.223079935 1 12.26360351 EANANGSS(ph)PEPVK ddPTM_HeLa_SAHA_4h_R1 4 EANANGSSPEPVK 13 0 Q3KQU3-4;Q3KQU3;Q3KQU3-2;Q3KQU3-3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 EANANGS(0.222)S(0.778)PEPVK;EANANGS(0.486)S(0.514)PEPVK;EANANGS(0.293)S(0.707)PEPVK;EANANGS(0.327)S(0.673)PEPVK ;;; 189.09 2.31E-07 52801000 10694.9 10726 8533.79 9930.4 12150 11867.5 11405.5 10426.1 13561.9 10432.3 TRUE FALSE FALSE 11819.83865 11073.52944 9696.730459 10122.61725 11219.06962 10856.32224 10122.12312 10159.41546 13467.52163 10882.08751 1.086173829 1.01759239 0.891072641 0.930209139 1.03096668 0.997632323 0.930163731 0.933590678 1.237586228 1 13.40966771 -6.982521299 23.83245424 1.041282141 0.955772567 0.387589092 0.074597979 105.1087458 143316.3892 0.007973426 0.010477522 1.04E-07 6.982521299 -0.085509574 EANANGSS(ph)PEPVKAVEAR ddPTM_HeLa_SAHA_4h_R1 4 EANANGSSPEPVKAVEAR 18 1 Q3KQU3-4;Q3KQU3;Q3KQU3-2;Q3KQU3-3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 EANANGS(0.002)S(0.998)PEPVKAVEAR;EANANGS(0.008)S(0.992)PEPVKAVEAR;EANANGS(0.156)S(0.844)PEPVKAVEAR;EANANGS(0.06)S(0.94)PEPVKAVEAR ;;; 168.17 1.00E-06 170911000 11700.7 6971.19 9624.1 8661.9 8571.41 8246 9153.3 10781 5168.2 8404.98 TRUE FALSE FALSE 12931.43331 7197.06113 10935.62223 8829.5636 7914.670418 7543.394409 8123.346594 10505.23763 5132.234075 8767.359821 1.474951818 0.820892638 1.247310758 1.007094927 0.902742739 0.860395212 0.926544223 1.19822134 0.585379656 1 13.09792674 -6.566791557 1.331012887 1.209881651 0.966477205 0 0.269367745 0.535666129 1.90294527 0.039264677 0.064439465 2.71E-07 6.566791557 -0.243404445 EANNFLWPFK ddPTM_HeLa_SAHA_4h_R1 1 EANNFLWPFK 10 0 P18124;A8MUD9 P18124 RPL7 60S ribosomal protein L7 0 0 136.33 0.00068405 671630 0 59.464 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 61.39067262 0 0 0 0 0 0 0 0 0 EANQQQQFNR ddPTM_HeLa_SAHA_4h_R1 1 EANQQQQFNR 10 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 117.01 0.021011 2191700 405.65 321.83 358.73 314 443.72 460.01 448.15 477.39 281.81 311.35 FALSE FALSE TRUE 448.3181282 332.2575032 407.6158562 320.0779241 409.7222695 420.8145601 397.7229825 465.1790551 279.8488613 324.7738222 1.380401059 1.023042747 1.255076082 0.98554102 1.261561867 1.295715761 1.224615272 1.432316964 0.861673085 1 8.343291541 -9.582079383 1.358136374 0.99960174 1.242096846 0.401958494 0.139850068 0.430471394 1.420025124 0.095432992 0.022092695 2.62E-10 9.582079383 0.242495106 EAPAEGEAAEPGS(ph)PTAAEGEAASAASSTSSPK ddPTM_HeLa_SAHA_4h_R1 4 EAPAEGEAAEPGSPTAAEGEAASAASSTSSPK 32 0 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 EAPAEGEAAEPGS(0.5)PT(0.5)AAEGEAASAASSTSSPK;EAPAEGEAAEPGS(0.5)PT(0.5)AAEGEAASAASSTSSPK;EAPAEGEAAEPGS(0.778)PT(0.222)AAEGEAASAASSTSSPK;EAPAEGEAAEPGS(0.993)PT(0.007)AAEGEAASAASSTSSPK ;;; 157.93 6.37E-16 84095200 10835.4 16184.7 13692.2 10640.1 13777.6 20055.3 16893.1 11589.4 12014.8 14930.3 TRUE FALSE FALSE 11975.11709 16709.0949 15558.10171 10846.05452 12721.96326 18346.47561 14992.24393 11292.95993 11931.18803 15574.0183 0.768916336 1.072882706 0.998978004 0.696419788 0.816870959 1.178018111 0.962644556 0.725115363 0.766095673 1 13.92685361 EAPAEGEAAEPGSPT(ph)AAEGEAASAASSTSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 EAPAEGEAAEPGSPTAAEGEAASAASSTSSPK 32 0 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 2 0 EAPAEGEAAEPGS(0.382)PT(0.618)AAEGEAASAAS(0.002)S(0.045)T(0.039)S(0.266)S(0.649)PK 115.53 1.19E-10 6303600 1244.2 1958.1 1542.2 1363.4 1805.3 2325.9 1517 985.16 2928.2 1859.2 TRUE FALSE FALSE 1375.070665 2021.543725 1752.362985 1389.790579 1666.978304 2127.720235 1346.303167 959.9610337 2907.822418 1939.359211 0.709033508 1.042377149 0.903578344 0.7166236 0.85955108 1.097125392 0.694200002 0.494988772 1.499372783 1 10.92136433 -13.52287875 0.02478329 2.04515424 7.91E-17 0.183525898 0.24017145 3005.556923 5.996042945 349.9153177 173.7733788 3.00E-14 13.52287875 -2.04515424 EAPGS(ph)PPLSPR ddPTM_HeLa_SAHA_4h_R1 2 EAPGSPPLSPR 11 0 Q86UU0-3;Q86UU0-4;Q86UU0-2;Q86UU0;E9PNR0 Q86UU0-3 BCL9L B-cell CLL/lymphoma 9-like protein 1 0 EAPGS(0.991)PPLS(0.009)PR;EAPGS(0.993)PPLS(0.007)PR ; 126.5 0.0016416 40221000 6398.5 5268.8 4839.8 8167.5 7086.3 6920.1 6379.8 8152.2 9378.4 5957.7 TRUE FALSE FALSE 7071.523587 5439.512577 5499.342739 8325.593773 6543.349225 6330.468549 5661.928113 7943.678528 9313.134951 6214.565603 1.137895074 0.87528444 0.884911849 1.339690383 1.052905326 1.018650209 0.911073834 1.278235525 1.498597898 1 12.60143784 EAPPMEK(ac)PEVVK ddPTM_HeLa_SAHA_4h_R1 2 EAPPMEKPEVVK 12 1 S4R456;K7EM56;A0A0B4J2B4;K7EJ78;S4R417;K7EQJ5;K7ELC2;P62841 S4R456 RPS15 40S ribosomal protein S15 0 1 ; EAPPMEK(1)PEVVK;EAPPMEK(1)PEVVK 174.84 6.56E-11 4551400 562.89 2145.04 731.28 734.91 1716.83 1586.41 1510.2 1276.64 1375.13 554.73 FALSE TRUE FALSE 622.0973528 2214.540703 830.9350301 749.1352457 1585.286856 1451.238943 1340.268321 1243.985397 1365.560358 578.6471251 1.075089335 3.827100503 1.435996126 1.294632278 2.739643537 2.507986094 2.31621011 2.14981695 2.359919023 1 9.176540011 -7.464486525 24.9999627 1.033125196 2.286101077 0.128315446 0.782065267 170.3631784 72939.33847 0.108118475 0.123607041 3.43E-08 7.464486525 1.252975881 EAPPMEKPEVVK ddPTM_HeLa_SAHA_4h_R1 1 EAPPMEKPEVVK 12 1 S4R456;K7EM56;A0A0B4J2B4;K7EJ78;S4R417;K7EQJ5;K7ELC2;P62841 S4R456 RPS15 40S ribosomal protein S15 0 0 92.866 0.012605 1496000 955.57 1235.6 999.68 904.21 1417.4 1105.1 1283 957.07 1111.8 1078.1 FALSE FALSE TRUE 1056.081237 1275.634251 1135.911184 921.7122921 1308.799118 1010.939263 1138.633463 932.5895352 1104.062893 1124.582167 0.939087661 1.134318406 1.010073979 0.819604222 1.163809241 0.898946553 1.012494682 0.829276475 0.981753869 1 10.13517336 -4.254600877 23.5209756 0.984134526 0.829276308 0.203282065 0.096399778 421.7073726 1450366.185 0.012097891 0.153657505 5.56E-05 4.254600877 -0.154858218 EAPPPVLLT(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 EAPPPVLLTPK 11 0 P48634;P48634-2;P48634-3 P48634 PRRC2A Protein PRRC2A 1 0 EAPPPVLLT(1)PK;EAPPPVLLT(1)PK;EAPPPVLLT(1)PK;EAPPPVLLT(1)PK ;;; 134.99 0.0019612 24081700 8030.9 6973.1 6141.3 9133.4 8797.2 9211.7 7806.5 9173.2 10073.6 8731.3 TRUE FALSE FALSE 8875.626909 7199.033015 6978.204381 9310.190164 8123.160437 8426.811336 6928.092074 8938.562827 10003.497 9107.749073 0.974513773 0.790429442 0.766183206 1.022227346 0.891895503 0.925235343 0.760681044 0.981423923 1.098350088 1 13.15287883 -7.42098981 8.021266866 0.988821185 0.876218056 0.344626847 0.089432439 0.27266715 19.32478752 0.013610743 0.015519664 3.79E-08 7.42098981 -0.112603129 EAPS(ph)PTCPDLGAK ddPTM_HeLa_SAHA_4h_R1 3 EAPSPTCPDLGAK 13 0 O00257 O00257 CBX4 E3 SUMO-protein ligase CBX4 1 0 EAPS(1)PTCPDLGAK;EAPS(0.984)PT(0.016)CPDLGAK;EAPS(0.967)PT(0.033)CPDLGAK ;; 211.82 6.30E-16 30126600 5563.4 5811.1 4756.3 6016.9 6666 7439.3 6572.2 7435.4 5303.6 4613.3 TRUE FALSE FALSE 6148.583938 5999.383453 5404.463794 6133.3658 6155.25252 6805.429788 5832.678759 7245.213234 5266.691816 4812.20194 1.277706965 1.246702347 1.123075021 1.274544559 1.279092731 1.414202869 1.212060265 1.505592102 1.094445304 1 12.23248147 -13.52287875 0.125731796 7.62E-11 1.437752002 0.594892294 0.089614397 38.8519533 0.349188827 9.823587022 0.346824645 3.00E-14 13.52287875 1.437752002 EAPS(ph)PTLR ddPTM_HeLa_SAHA_4h_R1 3 EAPSPTLR 8 0 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 EAPS(0.804)PT(0.196)LR;EAPS(0.993)PT(0.007)LR;EAPS(0.981)PT(0.019)LR ;; 140.11 0.00088419 75049000 6600.3 6300.1 5599.3 6387.3 7372.8 7068.1 6158.5 7146.3 6593.1 6181.6 TRUE FALSE FALSE 7294.549837 6504.227374 6362.343444 6510.935428 6807.897657 6465.858116 5465.529372 6963.507994 6547.21808 6448.119028 1.131267864 1.008701506 0.986697581 1.009741818 1.055795904 1.002751048 0.84761608 1.079928575 1.015368676 1 12.65466266 -7.023939938 23.65218438 1.062408508 0.994120696 0.098494586 0.066221756 521.8722234 515598.7369 0.012021367 0.014776244 9.46E-08 7.023939938 -0.068287812 EAPS(ph)PTLRR ddPTM_HeLa_SAHA_4h_R1 4 EAPSPTLRR 9 1 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 EAPS(0.967)PT(0.033)LRR;EAPS(0.975)PT(0.025)LRR;EAPS(0.965)PT(0.035)LRR;EAPS(0.989)PT(0.011)LRR ;;; 103.43 0.0043887 96772900 3583.08 3282.24 3757.79 3953.8 3478.26 4091.24 3981.25 3696.91 3379.64 3778.25 TRUE FALSE FALSE 3959.964794 3388.58673 4269.882051 4030.331516 3211.75647 3742.643335 3533.269272 3602.348395 3356.12081 3941.148848 1.004774229 0.859796689 1.083410502 1.022628597 0.814928995 0.949632577 0.896507442 0.914035104 0.85155901 1 11.94440052 -5.7847595 24.99857739 0.998471897 0.897960844 0.136771749 0.076471663 168.1624791 180265.5362 0.008465555 0.01535183 1.64E-06 5.7847595 -0.100511053 EAPSPT(ph)CPDLGAK ddPTM_HeLa_SAHA_4h_R1 1 EAPSPTCPDLGAK 13 0 O00257 O00257 CBX4 E3 SUMO-protein ligase CBX4 1 0 EAPS(0.363)PT(0.637)CPDLGAK 143.98 0.00044916 5179200 648.47 989.96 856.23 804.24 994.26 1073.3 885.7 948.87 983.37 742.59 TRUE FALSE FALSE 716.6790499 1022.035354 972.9125653 819.8072282 918.0800136 981.8488018 786.038705 924.5992793 976.5266481 774.606689 0.925216707 1.3194249 1.256008474 1.05835289 1.18522087 1.267544956 1.014758478 1.193637097 1.260674174 1 9.597320149 -7.279075777 24.97633425 0.964685661 1.179489567 0.018863735 0.128704444 429.7146313 608552.4097 0.01521843 0.017423441 5.26E-08 7.279075777 0.214803906 EAQDDLVK ddPTM_HeLa_SAHA_4h_R1 1 EAQDDLVK 8 0 E7EQR4;P15311 E7EQR4 EZR Ezrin 0 0 126.24 0.015478 3013900 1648.9 1313.1 1250.1 1186.8 1090.3 1854.8 1152.1 1671.3 1650.2 1414.9 FALSE FALSE TRUE 1822.338867 1355.645302 1420.457118 1209.77223 1006.76145 1696.760605 1022.462676 1628.550566 1638.716124 1475.903263 1.234727853 0.918519076 0.962432399 0.819682604 0.68213241 1.149642153 0.692770794 1.10342636 1.110314046 1 10.52738245 -7.137816068 6.611149838 1.110615151 0.893942281 0.285858602 0.152510929 0.228029512 11.4575336 0.025640325 0.031476224 7.28E-08 7.137816068 -0.21667287 EAQMAAK(ac)LER ddPTM_HeLa_SAHA_4h_R1 2 EAQMAAKLER 10 1 P16949;P16949-2 P16949 STMN1 Stathmin 0 1 ; EAQMAAK(1)LER;EAQMAAK(1)LER 150.04 2.04E-05 13282200 2832.4 2993.8 3769.3 3678.8 4153.5 3570 4154.8 3625.1 2530.5 2313.29 FALSE TRUE FALSE 3130.324828 3090.801084 4282.960574 3750.008494 3835.259727 3265.815916 3687.290969 3532.375191 2512.890044 2413.027253 1.297260453 1.280881134 1.774932533 1.554068024 1.589397601 1.353410291 1.528076803 1.463877039 1.041384859 1 11.23662849 -7.884619749 0.698100265 1.041646876 1.530053593 0.706605453 0.125265583 0.243561126 0.264706799 0.046245182 0.035239819 1.30E-08 7.884619749 0.488406717 EAQSFISAAIEPES(ph)GKSNER ddPTM_HeLa_SAHA_4h_R1 1 EAQSFISAAIEPESGKSNER 20 1 Q8WXA9;Q8WXA9-2 Q8WXA9 SREK1 Splicing regulatory glutamine/lysine-rich protein 1 1 0 EAQSFISAAIEPES(0.5)GKS(0.5)NER 99.064 0.00025242 0 821.29 921.57 591.37 785.47 800.13 889.42 923.81 906.45 1060.1 876.23 TRUE FALSE FALSE 907.6770504 951.4294727 671.9588239 800.6739077 738.8242123 813.6364123 819.8604675 883.2643215 1052.722678 914.0085635 0.993072808 1.04094153 0.735177821 0.876002632 0.808334015 0.890184671 0.896994295 0.966363289 1.151764567 1 9.836063872 -6.787579877 24.99996216 0.99995339 0.863212923 0.561641112 0.07539959 115.4406487 110403.4532 0.009082525 0.011938894 1.63E-07 6.787579877 -0.136740466 EAQTLDSQIQET(ph)SI ddPTM_HeLa_SAHA_4h_R1 2 EAQTLDSQIQETSI 14 0 E7EVA0;P27816;P27816-2;P27816-4 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 EAQTLDSQIQET(0.5)S(0.5)I;EAQTLDSQIQET(0.895)S(0.105)I ; 167.09 1.03E-05 54494000 4486.7 4490.9 3647 4488 5109.6 4521.3 4995.9 5126.9 4555.3 4264.9 TRUE FALSE FALSE 4958.631692 4636.408107 4143.994167 4574.87173 4718.103552 4136.059804 4433.748184 4995.761322 4523.599296 4448.780711 1.114604656 1.042175016 0.93148987 1.028342826 1.060538574 0.929706379 0.996620978 1.122950679 1.016817773 1 12.11919427 -6.983621577 24.99160762 1.055396293 1.008242567 0.050811284 0.060459487 439.4555529 670556.7942 0.010665792 0.014016115 1.04E-07 6.983621577 -0.047153726 EARNS(ph)WDSPAFSNDVIR ddPTM_HeLa_SAHA_4h_R1 2 EARNSWDSPAFSNDVIR 17 1 A0A2R8Y7T6;A0A3B3IRZ4;Q6DN90-2;Q6DN90;Q6DN90-3;A0A2R8Y695;A0A3B3IU98;A0A0C4DGT3 A0A2R8Y7T6 IQSEC1 IQ motif and SEC7 domain-containing protein 1 1 0 EARNS(0.998)WDS(0.002)PAFSNDVIR;EARNS(0.907)WDS(0.092)PAFS(0.001)NDVIR ; 122.5 0.0022333 12863100 1866.64 1569.79 2484.19 1770.82 2332 1961.26 2370.2 2284.9 1188.34 1723.95 TRUE FALSE FALSE 2062.98176 1620.652226 2822.722476 1805.096782 2153.322664 1794.149614 2103.498858 2226.455566 1180.070245 1798.277921 1.147198514 0.901224559 1.569680883 1.003791884 1.197435968 0.9977043 1.169729569 1.238104266 0.656222395 1 10.81240029 -9.148419659 0.508231396 0.973058066 1.158642639 0.20829949 0.203097645 2.60276254 0.983185535 0.238167565 0.043026121 7.11E-10 9.148419659 0.185584573 EAS(ph)PAPLAQGEPGR ddPTM_HeLa_SAHA_4h_R1 2 EASPAPLAQGEPGR 14 0 A0A0J9YX88;E9PJ24;B7ZM65;F8WEF5;A0A0J9YYB5;A0A0J9YWD5;Q9P1Y6-2;Q9P1Y6-3;Q9P1Y6 A0A0J9YX88 PHRF1 PHD and RING finger domain-containing protein 1 1 0 EAS(1)PAPLAQGEPGR;EAS(1)PAPLAQGEPGR ; 125.67 0.00068132 9017200 1726.92 2571.9 1687.68 2067.23 2307.98 3030.2 2316.84 2264.72 3687 1856.09 TRUE FALSE FALSE 1908.565369 2655.231247 1917.668241 2107.244226 2131.143071 2772.009913 2056.143066 2206.791742 3661.341867 1936.115123 0.985770601 1.371422193 0.990472218 1.088387876 1.100731586 1.431738164 1.061994218 1.139803989 1.891076529 1 10.91894902 EAS(ph)PAPLAQGEPGREDLPTR ddPTM_HeLa_SAHA_4h_R1 2 EASPAPLAQGEPGREDLPTR 20 1 A0A0J9YX88;E9PJ24;B7ZM65;F8WEF5;A0A0J9YYB5;A0A0J9YWD5;Q9P1Y6-2;Q9P1Y6-3;Q9P1Y6 A0A0J9YX88 PHRF1 PHD and RING finger domain-containing protein 1 1 0 EAS(1)PAPLAQGEPGREDLPTR;EAS(0.811)PAPLAQGEPGREDLPT(0.189)R ; 142.88 0.00023336 38197000 1583.6 2139.02 1346.49 1970.79 2141.23 2490.8 2210.1 1934.3 2815.48 2190.24 TRUE FALSE FALSE 1750.170314 2208.325651 1529.982645 2008.93749 1977.16942 2278.569827 1961.413731 1884.823407 2795.886845 2284.671965 0.766048842 0.966583249 0.669672788 0.879311131 0.86540626 0.997329097 0.858510001 0.824986447 1.223758547 1 11.15777132 -9.548546265 1.311412416 1.000118806 0.845956486 0.373187079 0.114299738 0.451062306 1.387926027 0.061649963 0.014557387 2.83E-10 9.548546265 -0.15416232 EAS(ph)PSTLNDK ddPTM_HeLa_SAHA_4h_R1 2 EASPSTLNDK 10 0 P54253 P54253 ATXN1 Ataxin-1 1 0 EAS(0.974)PS(0.024)T(0.002)LNDK;EAS(0.82)PS(0.126)T(0.054)LNDK ; 179.6 3.11E-05 36370000 6017.8 7500.9 5592.1 6454.2 6630.9 6827.8 6728.3 6529.9 7519.1 6723 TRUE FALSE FALSE 6650.779815 7743.934082 6354.162266 6579.130374 6122.841875 6246.033028 5971.213976 6362.874613 7466.773971 7012.861432 0.948368919 1.104247411 0.906072696 0.938152056 0.873087531 0.890653992 0.851466129 0.907315035 1.064725725 1 12.77578751 -6.227573175 1.918275712 0.983850586 0.881402448 0.533788064 0.053966893 0.214768629 1.541475511 0.007521597 0.013439683 5.92E-07 6.227573175 -0.102448138 EAS(ph)RSSPVEFECINEK ddPTM_HeLa_SAHA_4h_R1 1 EASRSSPVEFECINEK 16 1 H0YB26;O75131 H0YB26 CPNE3 Copine-3 1 0 EAS(0.479)RS(0.141)S(0.38)PVEFECINEK 70.615 0.013678 6523700 855.63 743.34 769.51 955.36 921.32 1000.3 1200.5 1050.6 1079.5 882.67 TRUE FALSE FALSE 945.6290892 767.4247037 874.3748154 973.8523743 850.7286606 915.0688125 1065.41658 1023.727173 1071.987672 920.7262234 1.027046982 0.833499345 0.949657774 1.057700269 0.923975704 0.993855491 1.157148079 1.111869248 1.164284936 1 9.846628427 -4.767588376 24.88679857 0.991566857 1.134508676 0.318086524 0.082386723 84.15761625 340617.6396 0.008967591 0.027941394 1.71E-05 4.767588376 0.142941819 EASRPPEEPSAPS(ph)PTLPAQFK ddPTM_HeLa_SAHA_4h_R1 4 EASRPPEEPSAPSPTLPAQFK 21 1 H0Y3X6;A0A0C4DFX9;Q9H3P2;Q9H3P2-7 H0Y3X6 NELFA Negative elongation factor A 1 0 EASRPPEEPSAPS(0.638)PT(0.362)LPAQFK;EASRPPEEPSAPS(0.618)PT(0.382)LPAQFK;EASRPPEEPS(0.01)APS(0.912)PT(0.078)LPAQFK;EASRPPEEPS(0.001)APS(0.98)PT(0.019)LPAQFK ;;; 149.12 2.95E-06 207152000 9273.1 8427.8 8421.2 9428.4 9809.2 10620.2 10628.8 10554 9089.4 8951.5 TRUE FALSE FALSE 10248.4872 8700.86625 9568.79728 9610.900316 9057.621215 9715.299212 9432.819451 10284.04396 9026.146125 9337.442973 1.097568921 0.93182537 1.024777052 1.029286106 0.970032293 1.040466779 1.010214411 1.101376896 0.966661446 1 13.18881181 EASTTAAAPGEETS(ph)PVQVPAR ddPTM_HeLa_SAHA_4h_R1 1 EASTTAAAPGEETSPVQVPAR 21 0 Q5SXM2 Q5SXM2 SNAPC4 snRNA-activating protein complex subunit 4 1 0 EAS(0.068)T(0.003)TAAAPGEET(0.129)S(0.799)PVQVPAR 190.37 6.32E-15 8327400 1917.2 1518.7 1407 1348.1 1927.7 1734.1 1527.3 1688.2 1736.1 1748.9 TRUE FALSE FALSE 2118.859892 1567.906876 1598.738633 1374.194425 1780.000042 1586.344924 1355.444184 1645.018288 1724.018339 1824.303638 1.161462296 0.859454996 0.876355558 0.753270671 0.975714791 0.869561893 0.742992645 0.901723953 0.945028176 1 10.83313016 -7.245182699 23.46299707 1.076246079 0.852119931 0.475479139 0.084056524 176.1334608 254210.449 0.013943735 0.017043066 5.69E-08 7.245182699 -0.224126149 EAT(ph)GLSPQAAQEK ddPTM_HeLa_SAHA_4h_R1 2 EATGLSPQAAQEK 13 0 C9JRM9;P17029 C9JRM9 ZKSCAN1 Zinc finger protein with KRAB and SCAN domains 1 1 0 EAT(0.86)GLS(0.14)PQAAQEK;EAT(0.998)GLS(0.002)PQAAQEK ; 159.12 0.0001126 20745000 5933.2 6681.8 4340.4 3763.2 6256.5 7155.8 6541.3 6603.4 5094.5 6485.2 TRUE FALSE FALSE 6557.281198 6898.294704 4931.887108 3836.042178 5777.128322 6546.085583 5805.255708 6434.49459 5059.04696 6764.80871 0.969322486 1.019732412 0.729050491 0.567058485 0.853997292 0.967667507 0.858155191 0.951171698 0.747847748 1 12.72383342 -6.77401606 24.99587527 0.987675061 0.819462745 0.100048195 0.131498099 195.7956546 389138.844 0.018490782 0.024393073 1.68E-07 6.77401606 -0.168212316 EAT(ph)SIHDLNDK ddPTM_HeLa_SAHA_4h_R1 1 EATSIHDLNDK 11 0 M0QZB5;B1APN9;O75335 M0QZB5 PPFIA4 Liprin-alpha-4 1 0 EAT(0.5)S(0.5)IHDLNDK 104.2 0.0097813 11731000 1232.5 1722.8 1484.2 3707.9 1113.3 829.66 1710.4 2876.8 2518.4 2036.7 TRUE FALSE FALSE 1362.140005 1778.61985 1686.459047 3779.671766 1027.999195 758.9683005 1517.94129 2803.215622 2500.874249 2124.512104 0.641154269 0.837189794 0.793810044 1.779077539 0.483875424 0.357243576 0.714489358 1.319463239 1.177152271 1 11.05291585 EATAQKPTGSVGSTVT(ph)TPPPLVR ddPTM_HeLa_SAHA_4h_R1 1 EATAQKPTGSVGSTVTTPPPLVR 23 1 Q86YP4-2;Q86YP4;Q86YP4-3 Q86YP4-2 GATAD2A Transcriptional repressor p66-alpha 1 0 EATAQKPTGSVGS(0.006)T(0.024)VT(0.485)T(0.485)PPPLVR 92.133 0.00019492 17897000 885.97 1020.4 1010.2 1128.5 1077 1331 1377 1079 1167.2 1033.2 TRUE FALSE FALSE 979.1603896 1053.46163 1147.864795 1150.343749 994.4804927 1217.591312 1222.056336 1051.400742 1159.07736 1077.746308 0.908525858 0.977467166 1.065060289 1.067360417 0.922740802 1.129756885 1.133899812 0.975554947 1.075464004 1 10.07380191 -6.85299132 4.884613331 0.956242318 1.05157917 0.067402034 0.073627462 0.193890577 7.923578118 0.0108585 0.01444389 1.40E-07 6.85299132 0.095336852 EATAQKPTGSVGSTVTT(ph)PPPLVR ddPTM_HeLa_SAHA_4h_R1 2 EATAQKPTGSVGSTVTTPPPLVR 23 1 Q86YP4-2;Q86YP4;Q86YP4-3 Q86YP4-2 GATAD2A Transcriptional repressor p66-alpha 1 0 EATAQKPTGSVGS(0.007)T(0.025)VT(0.202)T(0.766)PPPLVR;EATAQKPT(0.002)GSVGS(0.007)T(0.037)VT(0.155)T(0.799)PPPLVR ; 74.776 0.001429 24591500 1969.57 1894 2100.85 1442.13 1948.75 2119.64 1948.48 2098.45 1888.72 2144.1 TRUE FALSE FALSE 2176.738409 1955.366843 2387.142897 1470.044512 1799.437196 1939.034747 1729.231902 2044.774688 1875.576244 2236.542644 0.973260409 0.874281046 1.067336187 0.657284365 0.804561988 0.866978661 0.77317189 0.914256964 0.838605179 1 11.12705455 -6.274333133 24.98082999 0.982223184 0.805193002 0.385956746 0.088619051 394.6604505 764628.4157 0.010977375 0.016832139 5.32E-07 6.274333133 -0.177030182 EATDAIGHLDR ddPTM_HeLa_SAHA_4h_R1 2 EATDAIGHLDR 11 0 Q12906;Q12906-7;Q12906-5;Q12906-4;Q12906-2;Q12906-6;Q12906-3 Q12906 ILF3 Interleukin enhancer-binding factor 3 0 0 ; ; 116.03 0.0029309 11730200 11099.5 11012.2 8945 10950.6 11613.3 12242.5 11935 11027.2 13456.5 10605 FALSE FALSE TRUE 12266.99634 11369.00251 10163.97802 11162.5647 10723.49146 11199.37013 10592.04239 10745.14019 13362.85512 11062.23345 1.108907744 1.027731204 0.918799812 1.00906971 0.969378518 1.012396834 0.957495829 0.971335512 1.207970812 1 13.43335507 -6.986521495 24.32172786 1.052317648 0.97542917 0.423955618 0.060206008 130.9107103 236224.8655 0.007362691 0.00967348 1.03E-07 6.986521495 -0.076888478 EATDPRPCEVENAVESWR ddPTM_HeLa_SAHA_4h_R1 1 EATDPRPCEVENAVESWR 18 1 P47755;C9JUG7;F8W9N7;P47755-2;A0A0D9SET8 P47755 CAPZA2 F-actin-capping protein subunit alpha-2 0 0 71.402 0.019412 6722000 2401.9 2504.1 1802 1791.6 2125.8 2506.4 2337.7 2133.8 2461.3 2222.5 FALSE FALSE TRUE 2654.542862 2585.234483 2047.567176 1826.279009 1962.921663 2292.840619 2074.655844 2079.220486 2444.171613 2318.322852 1.14502726 1.115131346 0.883210539 0.787758706 0.84669901 0.989008333 0.894895136 0.896864078 1.054284398 1 11.17886578 -6.753679064 24.96247353 1.073897119 0.882439449 0.726176043 0.058794362 86.79270758 279183.6339 0.011792431 0.016498833 1.76E-07 6.753679064 -0.19145767 EATGLS(ph)PQAAQEK ddPTM_HeLa_SAHA_4h_R1 2 EATGLSPQAAQEK 13 0 C9JRM9;P17029 C9JRM9 ZKSCAN1 Zinc finger protein with KRAB and SCAN domains 1 1 0 EAT(0.005)GLS(0.995)PQAAQEK;EAT(0.002)GLS(0.998)PQAAQEK ; 205.27 4.63E-11 15782600 2597.2 2828.9 2562.1 1751.03 3037.4 3407 3203.8 2536.1 2891.9 2639.9 TRUE FALSE FALSE 2870.385412 2920.558216 2911.249645 1784.923718 2804.675068 3116.704433 2843.299992 2471.230234 2871.775032 2753.719008 1.042366851 1.060586867 1.057206504 0.648186584 1.018504452 1.131816436 1.032530909 0.897415541 1.042871485 1 11.42716564 -10.65467584 11.74702528 0.852732874 1.00417084 0 0.128342045 666725.7876 1120887.885 2605765.804 0.017352185 2.21E-11 10.65467584 0.151437966 EATNPPVIQEEK(ac)PK ddPTM_HeLa_SAHA_4h_R1 2 EATNPPVIQEEKPK 14 1 P30101 P30101 PDIA3 Protein disulfide-isomerase A3 0 1 ; EATNPPVIQEEK(1)PK;EATNPPVIQEEK(1)PK 223.03 3.48E-43 4099000 338.1 1663.25 811.38 665.24 1310.21 1383.71 1399.74 1114.95 1398.7 294.87 FALSE TRUE FALSE 373.6629093 1717.140391 921.9506409 678.1166822 1209.821993 1265.810123 1242.237571 1086.431193 1388.966333 307.5832888 1.214834885 5.582684281 2.997401597 2.204660354 3.933315096 4.115341014 4.038703066 3.532152861 4.515740561 1 8.264833312 -7.362104287 8.968155879 1.096143076 3.710306705 0.048647324 1.354383746 0.140561848 11.55428048 0.137263647 0.156739559 4.34E-08 7.362104287 2.614163629 EATNPPVIQEEKPK ddPTM_HeLa_SAHA_4h_R1 1 EATNPPVIQEEKPK 14 1 P30101 P30101 PDIA3 Protein disulfide-isomerase A3 0 0 148.85 0.00013222 11333000 3400.2 3125.4 3271.2 3618.5 3395.5 4018.5 3674.7 3536.4 3794.1 3148.4 FALSE FALSE TRUE 3757.848637 3226.665011 3716.9821 3688.5413 3135.337524 3676.101193 3261.213085 3445.944009 3767.696549 3284.142932 1.144240283 0.98249835 1.13179669 1.123136653 0.954689728 1.119348722 0.993018012 1.049267368 1.147238907 1 11.6813012 -4.740152846 24.98597888 1.066479598 1.021142713 0.077626113 0.069564105 581.1828815 682177.1984 0.009780607 0.03651868 1.82E-05 4.740152846 -0.045336885 EATNTTSEPSAPSQDLLDLS(ph)PSPR ddPTM_HeLa_SAHA_4h_R1 1 EATNTTSEPSAPSQDLLDLSPSPR 24 0 I3NI44;J3KQU4;I3L4I4;O75674-2;O75674-3;O75674 I3NI44 TOM1L1 TOM1-like protein 1 1 0 EATNTTSEPSAPSQDLLDLS(0.909)PS(0.091)PR 170.33 1.49E-09 2316000 926.62 969.57 890.75 939.21 1104.6 1144.8 1060.4 1292.1 972.58 1158.2 TRUE FALSE FALSE 1024.086143 1000.984704 1012.136771 957.3897677 1019.965787 1047.2566 941.0810012 1259.049953 965.8117366 1208.13567 0.847658229 0.828536669 0.837767476 0.792452198 0.844247721 0.866836917 0.77895308 1.042142852 0.799423244 1 10.23856676 -9.075602108 0.791584457 1.002956409 0.84870173 0 0.091683003 0.49288189 0.546954117 0.045894492 0.012792693 8.40E-10 9.075602108 -0.15425468 EATNTTSEPSAPSQDLLDLSPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 EATNTTSEPSAPSQDLLDLSPSPR 24 0 I3NI44;J3KQU4;I3L4I4;O75674-2;O75674-3;O75674 I3NI44 TOM1L1 TOM1-like protein 1 1 0 EATNTTSEPSAPSQDLLDLS(0.092)PS(0.908)PR;EATNTTSEPSAPSQDLLDLS(0.11)PS(0.89)PR;EATNTTSEPSAPSQDLLDLS(0.058)PS(0.942)PR ;; 175.75 2.40E-11 40167300 2547.88 2510.56 2229.5 2032.31 2284.13 2489.45 2604.41 1753.73 2662.31 2513.57 TRUE FALSE FALSE 2815.877708 2591.903791 2533.324649 2071.648299 2109.120453 2277.334855 2311.354932 1708.872126 2643.782768 2621.942304 1.073966313 0.988543412 0.966201524 0.790119712 0.804411466 0.868567875 0.881543018 0.651758097 1.00832988 1 11.35642022 -6.441949788 2.326923611 1.0329769 0.806529847 0.731783928 0.063063021 0.113957257 1.215770453 0.010119612 0.01612442 3.61E-07 6.441949788 -0.226447053 EATPDGGEDS(ph)DS ddPTM_HeLa_SAHA_4h_R1 2 EATPDGGEDSDS 12 0 D6RJC6;A0A087WYP9;A6NFV8;Q96EV8-3;Q96EV8 D6RJC6 DTNBP1 Dysbindin 1 0 EATPDGGEDS(1)DS;EATPDGGEDS(0.852)DS(0.148) ; 233.54 7.33E-23 7941100 5189.5 6942.5 4214.5 7207.7 7608.8 9976.4 7352.7 6338 8384.2 8948.5 TRUE FALSE FALSE 5735.35542 7167.441555 4788.830112 7347.215456 7025.815388 9126.354594 6525.354845 6175.883137 8325.85367 9334.313628 0.614437831 0.767859517 0.513035056 0.787118984 0.752686879 0.977721015 0.699071737 0.661632272 0.891962066 1 13.18832823 -9.439052495 1.152630044 1.001043154 0.716886422 0.351433008 0.119017263 0.367906176 0.869105093 0.08376566 0.020617198 3.64E-10 9.439052495 -0.284156732 EATQPEPIY(ph)AESTK ddPTM_HeLa_SAHA_4h_R1 2 EATQPEPIYAESTK 14 0 Q86YV5 Q86YV5 SGK223 Tyrosine-protein kinase SgK223 1 0 EATQPEPIY(0.995)AES(0.004)T(0.001)K;EATQPEPIY(0.998)AES(0.002)TK ; 177.1 2.55E-06 13742500 7017.2 5829.1 4928.7 7029.8 8288.5 8306.3 7158.6 8197 6972.3 5561.1 TRUE FALSE FALSE 7755.301292 6017.966665 5600.357568 7165.871944 7653.436921 7598.55651 6353.095488 7987.332609 6923.779197 5800.866236 1.336921242 1.037425519 0.965434702 1.235310668 1.319361042 1.309900315 1.095197722 1.376920667 1.193576772 1 12.50205264 -6.020396885 24.40309835 1.137202909 1.266494337 0.291938963 0.121476491 868.1251755 1038636.92 0.023159826 0.03874225 9.54E-07 6.020396885 0.129291428 EATQPEPIY(ph)AESTKR ddPTM_HeLa_SAHA_4h_R1 1 EATQPEPIYAESTKR 15 1 Q86YV5 Q86YV5 SGK223 Tyrosine-protein kinase SgK223 1 0 EATQPEPIY(0.946)AES(0.02)T(0.034)KR 87.824 0.0074565 12056000 4964.2 3180.1 4133.9 3707.1 4587.9 4157.8 4717.8 4928.5 2833.1 3200.5 TRUE FALSE FALSE 5486.357333 3283.137327 4697.246364 3778.856281 4236.376093 3803.532049 4186.940727 4802.436106 2813.384226 3338.489218 1.643365299 0.983420078 1.406997614 1.131906091 1.26895006 1.139297389 1.254142354 1.438505801 0.842711791 1 11.70497967 EATSDPS(ph)RTPEEEPLNLEGLVAHR ddPTM_HeLa_SAHA_4h_R1 1 EATSDPSRTPEEEPLNLEGLVAHR 24 1 A0A087WWW7;E9PGF5;E9PF55;A0A494C067;A0A2R8Y4T1;Q9HBL0 A0A087WWW7 TNS1 Tensin-1 1 0 EAT(0.08)S(0.068)DPS(0.426)RT(0.426)PEEEPLNLEGLVAHR 101.71 1.39E-05 2590800 615.42 702.28 548.31 624.03 654.82 739.54 749.13 486.23 556.72 703.37 TRUE FALSE FALSE 680.1526992 725.0343328 623.0308313 636.109003 604.6478331 676.5270315 664.8359208 473.7929407 552.8457402 733.6957229 0.927022849 0.988194847 0.849167866 0.866992928 0.824112523 0.922081198 0.906146649 0.645762168 0.753508195 1 9.519038065 -1.082493801 0.179243548 1.005453586 3.97E-14 0.076056304 0.098267212 31.30611079 0.348131896 0.082838042 8.562541135 0.082700131 1.082493801 -1.005453586 EATSDPSRT(ph)PEEEPLNLEGLVAHR ddPTM_HeLa_SAHA_4h_R1 1 EATSDPSRTPEEEPLNLEGLVAHR 24 1 A0A087WWW7;E9PGF5;E9PF55;A0A494C067;A0A2R8Y4T1;Q9HBL0 A0A087WWW7 TNS1 Tensin-1 1 0 EAT(0.005)S(0.019)DPS(0.369)RT(0.607)PEEEPLNLEGLVAHR 112.53 5.12E-06 3126700 186.16 268.75 299.42 348.07 351.87 365.96 252.59 340.48 237.63 128.3 TRUE FALSE FALSE 205.7411629 277.4576763 340.2233983 354.8073982 324.9097966 334.7781492 224.1679084 331.7710146 235.9763135 133.8316409 1.537313311 2.073184447 2.542174601 2.651147336 2.427750228 2.501487294 1.674999327 2.47901776 1.76323261 1 7.064275432 -7.438797997 1.264530526 1.16863718 2.372740734 0.604438979 0.3280549 0.138767418 0.437220469 0.061841446 0.067923973 3.64E-08 7.438797997 1.204103554 EATTDFTVDSRPLTQVGGDHIK ddPTM_HeLa_SAHA_4h_R1 3 EATTDFTVDSRPLTQVGGDHIK 22 1 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 ;; ;; 137.52 1.93E-06 22409500 3717.86 3389.33 3376.53 3240.95 3700.47 3777.47 3640.22 3749.5 3258 3689.2 FALSE FALSE TRUE 4108.921573 3499.146516 3836.665924 3303.683274 3416.940788 3455.608305 3230.612865 3653.593219 3235.327313 3848.259467 1.067735065 0.909280298 0.996987328 0.858487662 0.887918504 0.897966557 0.839499751 0.949414469 0.840724837 1 11.90999036 -6.770240109 1.37591168 1.030489195 0.886848305 0 0.075514613 0.18103748 0.690406305 0.0083645 0.012361346 1.70E-07 6.770240109 -0.143640889 EATTEFSVDAR ddPTM_HeLa_SAHA_4h_R1 5 EATTEFSVDAR 11 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ;;;; ;;;; 232.72 8.22E-22 59404900 6606.98 6610.44 6066.53 7145.87 7561.49 7500.73 7530.96 7140.72 7460.05 6769.73 FALSE FALSE TRUE 7301.93247 6824.622593 6893.245115 7284.188647 6982.13027 6861.625606 6683.55656 6958.070722 7408.134905 7061.606191 1.034032807 0.966440553 0.976158246 1.031520089 0.988745348 0.971680581 0.946464073 0.985338255 1.049072223 1 12.78578065 -5.500123472 0.64766054 1.01293348 0.958276999 0.324529748 0.026001123 0.973285077 0.621921205 0.005068003 0.029472098 3.16E-06 5.500123472 -0.054656481 EAVAMESYAK ddPTM_HeLa_SAHA_4h_R1 3 EAVAMESYAK 10 0 P78371;F5GWF6;P78371-2 P78371 CCT2 T-complex protein 1 subunit beta 0 0 ;; ;; 152.28 9.50E-09 1518700 3583.62 3545.65 3823.7 3702.4 4087.5 4124.4 3994.9 3475.3 2666.14 3152.48 FALSE FALSE TRUE 3960.561594 3660.531386 4344.773923 3774.065306 3774.316633 3772.977917 3545.383338 3386.406858 2647.586115 3288.398841 1.204404267 1.113165271 1.321242992 1.147690864 1.147767292 1.147360189 1.078148823 1.029804176 0.805129257 1 11.68316957 -3.378244844 14.12773087 1.118596732 1.128901575 0 0.131464771 0 0 0.013734777 0 0.000418558 3.378244844 0.010304844 EAVELPLTHFELYK ddPTM_HeLa_SAHA_4h_R1 1 EAVELPLTHFELYK 14 0 P43686;P43686-2 P43686 PSMC4 26S protease regulatory subunit 6B 0 0 84.365 0.012004 819460 566.39 498.91 577.8 651.11 535.98 726.87 503.77 485.72 670.19 512.93 FALSE FALSE TRUE 625.9654989 515.0750113 656.5395749 663.7131756 494.9133282 664.9365867 447.0844738 473.2959857 665.5260932 535.0449225 1.169930734 0.962676197 1.227073742 1.240481215 0.924993972 1.242767773 0.83560175 0.884591117 1.243869562 1 9.063516215 -4.740549435 24.99607081 1.092999237 0.860096216 0.417493148 0.120787663 178.4740563 213551.4836 0.015367008 0.057375143 1.82E-05 4.740549435 -0.232903021 EAVLIDPVLETAPR ddPTM_HeLa_SAHA_4h_R1 1 EAVLIDPVLETAPR 14 0 M0QY80;M0QXB5;O95571 M0QY80 ETHE1 "Persulfide dioxygenase ETHE1, mitochondrial" 0 0 134.98 0.0021385 1087200 728.61 829.28 627.23 543.27 644.44 889.94 837.29 955.45 1170.5 569.17 FALSE FALSE TRUE 805.2485428 856.1492161 712.7056379 553.7857764 595.0631464 814.1121053 743.0759256 931.0109725 1162.354395 593.7097042 1.35630012 1.442033388 1.200427807 0.932755137 1.002279636 1.371229238 1.251581236 1.568124903 1.957782376 1 9.213613884 -9.43084261 1.180183778 1.001037897 1.26172169 0 0.349057231 0.618538293 1.550611967 0.129682431 0.033084398 3.71E-10 9.43084261 0.260683793 EAVLLLK ddPTM_HeLa_SAHA_4h_R1 2 EAVLLLK 7 0 P36578;H3BM89;H3BTP7 P36578 RPL4 60S ribosomal protein L4 0 0 ; ; 143.46 1.97E-05 3989600 4557.7 5379.1 6723.6 5932.5 6640.2 6141.1 7202 4506.2 4876.6 4812.8 FALSE FALSE TRUE 5037.099797 5553.386369 7639.857193 6047.332116 6131.429311 5617.843731 6391.612005 4390.937929 4842.663344 5020.303361 1.003345701 1.106185417 1.52179194 1.204575039 1.221326456 1.119024753 1.273152546 0.874635976 0.964615681 1 12.29355883 -6.99931845 24.9956716 1.004379147 1.212065667 0.287045723 0.149639777 21.14325426 775380.3859 0.022959473 0.030027643 1.00E-07 6.99931845 0.20768652 EAVLLLK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 EAVLLLKK 8 1 P36578;H3BM89;H3BTP7 P36578 RPL4 60S ribosomal protein L4 0 1 EAVLLLK(1)K 116.73 0.0013402 587700 294.59 563.85 423.43 472.08 626.04 305.05 740.62 458.07 173.55 197.11 FALSE TRUE FALSE 325.5763278 582.11911 481.1328353 481.217791 578.0729504 279.0580238 657.2834884 446.3532327 172.3422514 205.6083767 1.583477935 2.831203277 2.340044909 2.340458101 2.811524314 1.357230811 3.196773881 2.17089031 0.838206372 1 7.683755233 -7.521370045 2.368018893 1.218389229 2.429706055 0.591302565 0.493410249 0.142089216 1.597015078 0.085760905 0.092644613 3.01E-08 7.521370045 1.211316826 EAVREGS(ph)PANWK ddPTM_HeLa_SAHA_4h_R1 1 EAVREGSPANWK 12 1 O96019-2;O96019 O96019-2 ACTL6A Actin-like protein 6A 1 0 EAVREGS(1)PANWK 67.095 0.022609 28736000 3154.8 2072.2 3500.5 3571.7 2737.8 2867.5 3725.5 4026.2 2254.3 2668.7 TRUE FALSE FALSE 3486.636339 2139.34064 3977.52991 3640.835418 2528.030355 2623.172868 3306.296935 3923.215634 2238.612143 2783.760717 1.252491393 0.768507374 1.428833263 1.307883754 0.908134934 0.942312625 1.18770874 1.409322148 0.804168307 1 11.44281949 -9.617684019 1.403025859 0.999373735 1.154990944 0.139930391 0.216909597 1.014222324 3.561050548 0.148955972 0.033549957 2.41E-10 9.617684019 0.155617209 EAVTHIGR ddPTM_HeLa_SAHA_4h_R1 1 EAVTHIGR 8 0 D6RBW1;P06730;P06730-3;P06730-2 D6RBW1 EIF4E Eukaryotic translation initiation factor 4E 0 0 113.26 0.0058279 3924800 4935.9 4763.8 4402.5 5862.9 5577.9 5614.6 5525.6 5087.2 5393.2 5587.5 FALSE FALSE TRUE 5455.080609 4918.150246 5002.449773 5976.384907 5150.522507 5136.204493 4903.844945 4957.07679 5355.668282 5828.40447 0.935947503 0.843824459 0.858288027 1.025389528 0.883693391 0.881236798 0.841370048 0.850503224 0.918890978 1 12.50888528 -13.52287854 0.035326655 1.654666874 0.48684528 0.174438785 0.05646471 551.7797862 1.560634818 42.13177785 15.5843771 3.00E-14 13.52287854 -1.167821594 EAVVDLHADDSRIS(ph)EDETER ddPTM_HeLa_SAHA_4h_R1 2 EAVVDLHADDSRISEDETER 20 1 Q9UKV3-5;G3V3T3 Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 EAVVDLHADDS(0.406)RIS(0.594)EDETER;EAVVDLHADDS(0.237)RIS(0.722)EDET(0.042)ER ; 149.8 1.91E-05 39686000 1926.34 3318.1 2771.3 2770.4 2727.6 3911.6 3063.9 2431.3 4227 2822.4 TRUE FALSE FALSE 2128.96128 3425.608617 3148.958332 2824.025098 2518.611877 3578.309674 2719.141908 2369.110866 4197.583963 2944.087476 0.723131122 1.16355531 1.069587217 0.959219154 0.855481332 1.215422335 0.923594129 0.804701248 1.425767405 1 11.52360482 -7.266127095 24.9760034 0.869256368 0.99992255 0 0.22196339 598.1373292 3186851.383 0.026212651 0.030504672 5.42E-08 7.266127095 0.130666182 EAVVDLHADDSRISEDET(ph)ERNGDDGTHDK ddPTM_HeLa_SAHA_4h_R1 1 EAVVDLHADDSRISEDETERNGDDGTHDK 29 2 Q9UKV3-5;G3V3T3 Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 EAVVDLHADDS(0.052)RIS(0.048)EDET(0.776)ERNGDDGT(0.123)HDK 53.262 0.0040302 76171000 2799.8 2952.1 2956.3 3236.7 3412.3 3053.4 3588.6 3071.7 2729.3 3264.9 TRUE FALSE FALSE 3094.29581 3047.749977 3359.169168 3299.351009 3150.850311 2793.233142 3184.801283 2993.130362 2710.306579 3405.665817 0.908572942 0.894905766 0.986347266 0.968782959 0.925178946 0.82017241 0.935147914 0.878867899 0.795822821 1 11.73372116 -13.52287875 0.187108072 1.376224436 0.894814817 0 0.07704135 45.81551024 0.537334746 6.306223579 0.055686305 3.00E-14 13.52287875 -0.481409619 EAVVDLHADDSRISEDETERNGDDGT(ph)HDK ddPTM_HeLa_SAHA_4h_R1 1 EAVVDLHADDSRISEDETERNGDDGTHDK 29 2 Q9UKV3-5;G3V3T3 Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 EAVVDLHADDS(0.197)RIS(0.197)EDET(0.078)ERNGDDGT(0.528)HDK 62.605 0.0020674 17687000 1168.2 1114.9 1071.1 1163.9 1249.3 1400.1 1646.7 1264.8 1083.5 1160.9 TRUE FALSE FALSE 1291.076636 1151.023492 1217.06393 1186.428968 1153.578904 1280.803603 1461.408982 1232.448247 1075.959835 1210.95208 1.066166578 0.950511181 1.005047144 0.979748899 0.952621431 1.057683144 1.206826435 1.01775146 0.888523875 1 10.24192606 -4.994272195 24.99423176 1.01482215 1.117280431 0.310389315 0.067869151 121.7936588 531453.6159 0.007697939 0.022991487 1.01E-05 4.994272195 0.102458282 EAWDIEST(ph)PIMMK ddPTM_HeLa_SAHA_4h_R1 2 EAWDIESTPIMMK 13 0 E7EVA0 E7EVA0 MAP4 Microtubule-associated protein 1 0 EAWDIES(0.156)T(0.844)PIMMK;EAWDIES(0.236)T(0.764)PIMMK ; 156.36 0.0001492 5646600 3212.75 3886.5 3372.9 3205.29 4701.8 4076.1 4110.9 4579.9 4321.4 4024.6 TRUE FALSE FALSE 3550.681786 4012.42515 3832.541247 3267.333023 4341.5491 3728.793348 3648.330713 4462.75279 4291.327026 4198.120202 0.845778971 0.955767095 0.912918416 0.778284772 1.034165029 0.888205475 0.869039126 1.063035972 1.022202038 1 12.03552776 -4.248598008 24.1013429 0.918475034 1.063036125 0.224216422 0.077787882 1465.762431 2750936.962 0.01065242 0.25162796 5.64E-05 4.248598008 0.144561091 EAWPGK(ac)KPTPSLLI ddPTM_HeLa_SAHA_4h_R1 1 EAWPGKKPTPSLLI 14 2 Q12972-3;Q12972-2;Q12972 Q12972-3 PPP1R8 Nuclear inhibitor of protein phosphatase 1;Activator of RNA decay 0 1 EAWPGK(0.992)K(0.008)PTPSLLI 108.98 0.022946 1611300 906.83 1125.2 1195.3 1378 1368.6 918.63 1681.5 1009.4 401.3 981.7 FALSE TRUE FALSE 1002.21454 1161.657218 1358.189259 1404.673183 1263.738164 840.3575559 1492.293195 983.5810096 398.5073206 1024.025891 0.978700391 1.134402194 1.326323163 1.371716472 1.234088097 0.820640926 1.457280726 0.960504044 0.389157466 1 10.00003648 -7.139322212 4.056954706 0.990046173 1.201608316 0.238988387 0.260055544 0.246367404 6.975233926 0.028058389 0.034640448 7.26E-08 7.139322212 0.211562143 EAYPEEAYIADLDAK ddPTM_HeLa_SAHA_4h_R1 2 EAYPEEAYIADLDAK 15 0 P53396;P53396-2 P53396 ACLY ATP-citrate synthase 0 0 ; ; 238.13 5.26E-26 10412500 5552.2 5629 5010 6027.8 5849.5 6784.7 6939.8 5943.1 6076.9 5768.7 FALSE FALSE TRUE 6136.20587 5811.383293 5692.736709 6144.476785 5401.312574 6206.60539 6158.915439 5791.084108 6034.610358 6017.416888 1.01974086 0.965760459 0.946043263 1.021115356 0.897613158 1.031440152 1.023514833 0.962387053 1.002857284 1 12.5549286 -7.265154991 24.90571716 1.009322073 0.979359599 0.106691876 0.038611295 491.6365265 3295434.008 0.00627191 0.007336836 5.43E-08 7.265154991 -0.029962474 EAYPGDVFYLHSR ddPTM_HeLa_SAHA_4h_R1 4 EAYPGDVFYLHSR 13 0 P25705-2;P25705;P25705-3 P25705-2 ATP5A1 "ATP synthase subunit alpha, mitochondrial" 0 0 ;;; ;;; 201.09 8.55E-11 102167300 7558.93 9615.46 8155.69 6997.92 10078.68 7615.34 10907.36 6158.62 7804.99 9161.21 FALSE FALSE TRUE 8354.012939 9927.007213 9267.10496 7133.374861 9306.453716 6966.470189 9680.035146 6001.091418 7750.674439 9556.194597 0.874198705 1.038803376 0.969748456 0.746466053 0.973866074 0.729000453 1.012959191 0.627979198 0.811062851 1 13.22222052 -6.284134599 24.51640106 0.950000812 0.832591027 0.18975439 0.121791355 715.8481358 773289.8245 0.016341356 0.024973305 5.20E-07 6.284134599 -0.117409785 EAYSGCSGPVDSECPPPPS(ph)SPVHKAELEK ddPTM_HeLa_SAHA_4h_R1 1 EAYSGCSGPVDSECPPPPSSPVHKAELEK 29 1 Q8N556;Q8N556-2 Q8N556 AFAP1 Actin filament-associated protein 1 1 0 EAYSGCSGPVDSECPPPPS(0.5)S(0.5)PVHKAELEK 114.01 4.81E-10 16258000 2047.5 1671.6 1402.9 1617.1 2457.3 1790.5 2509 2165.5 1300.1 1755 TRUE FALSE FALSE 2262.865444 1725.760937 1594.079906 1648.401309 2269.022205 1637.939327 2226.680717 2110.109646 1291.052498 1830.666639 1.236088208 0.942695355 0.870764711 0.900437728 1.239451333 0.89472288 1.216322333 1.15264549 0.705236263 1 10.83815339 EAYSGCSGPVDSECPPPPSS(ph)PVHK ddPTM_HeLa_SAHA_4h_R1 3 EAYSGCSGPVDSECPPPPSSPVHK 24 0 Q8N556;Q8N556-2 Q8N556 AFAP1 Actin filament-associated protein 1 1 0 EAYSGCSGPVDS(0.001)ECPPPPS(0.175)S(0.824)PVHK;EAYSGCSGPVDSECPPPPS(0.215)S(0.785)PVHK;EAYSGCSGPVDSECPPPPS(0.216)S(0.784)PVHK ;; 170.1 1.08E-18 96986000 2188.34 3818.31 1885.41 2819.02 4229.97 4057.58 3441.49 2807.41 3840.87 3082.43 TRUE FALSE FALSE 2418.519642 3942.025749 2142.343856 2873.586208 3905.870612 3711.851357 3054.244488 2735.600517 3814.141073 3215.328642 0.752184274 1.226010212 0.666290788 0.893714618 1.214765595 1.154423628 0.949901185 0.85079966 1.186236773 1 11.65075049 -5.92803085 24.9998958 0.891351242 1.04515586 0 0.191920036 65.93326154 22901.72597 0.025820152 0.046803 1.18E-06 5.92803085 0.153804618 EAYSGCSGPVDSECPPPPSS(ph)PVHKAELEK ddPTM_HeLa_SAHA_4h_R1 1 EAYSGCSGPVDSECPPPPSSPVHKAELEK 29 1 Q8N556;Q8N556-2 Q8N556 AFAP1 Actin filament-associated protein 1 1 0 EAYSGCSGPVDSECPPPPS(0.298)S(0.702)PVHKAELEK 98.583 1.84E-08 19753000 1389.6 936.8 908.26 995.16 1382.9 1342.5 1534.2 1251.6 746.88 1239.5 TRUE FALSE FALSE 1535.764504 967.1529347 1032.032943 1014.422761 1276.942501 1228.111447 1361.567778 1219.585884 741.6824013 1292.940911 1.187807185 0.748025626 0.798205807 0.784585554 0.987626341 0.949858912 1.053078116 0.943264981 0.573639828 1 10.33644063 -7.271123943 24.98951142 1.088686725 0.89874195 0 0.191084661 549.5469309 1418018.247 0.020418125 0.023506097 5.36E-08 7.271123943 -0.189944775 ECELS(ph)PGVNR ddPTM_HeLa_SAHA_4h_R1 2 ECELSPGVNR 10 0 Q9BXP5-5;Q9BXP5-4;Q9BXP5-2;Q9BXP5-3;Q9BXP5;H7C3A1 Q9BXP5-5 SRRT Serrate RNA effector molecule homolog 1 0 ECELS(1)PGVNR;ECELS(1)PGVNR ; 97.163 0.012632 10920300 4025.5 4055.6 3655.4 3641.4 4231 5146.3 4567.3 4464.7 5044.7 4306.8 TRUE FALSE FALSE 4448.92056 4187.004101 4153.538875 3711.884563 3906.821694 4707.806288 4053.375384 4350.499439 5009.593522 4492.487225 0.990302329 0.932001337 0.924552184 0.826242653 0.869634458 1.047928698 0.902256407 0.968394393 1.115104678 1 12.13329869 -7.238402509 3.148284907 0.996037654 0.921357726 0.322783636 0.066730441 0.254264845 5.071435756 0.009666585 0.011560696 5.78E-08 7.238402509 -0.074679928 ECGAGT(ph)FVNFASLERDGKLPY(ph)NWSK ddPTM_HeLa_SAHA_4h_R1 1 ECGAGTFVNFASLERDGKLPYNWSK 25 2 A0A6I8PS48;Q16827-4;Q16827-2 A0A6I8PS48 2 0 ECGAGT(0.721)FVNFAS(0.281)LERDGKLPY(0.858)NWS(0.139)K 49.559 0.0078709 17766000 891.62 840.86 849.9 982.57 809.8 859.34 895.38 1298.1 1110.4 991.07 TRUE FALSE FALSE 985.4046825 868.1044157 965.7199459 1001.589063 747.7532989 786.1193975 794.6294859 1264.896482 1102.672636 1033.799878 0.953187076 0.839721917 0.934145928 0.968842311 0.723305656 0.760417383 0.768649236 1.223540947 1.066620977 1 10.01374122 -7.547195079 0.889099334 0.99015201 0.872091399 0.121515228 0.138095049 0.816520031 1.339551976 0.033430999 0.03381989 2.84E-08 7.547195079 -0.11806061 ECINAAPDS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 4 ECINAAPDSPSK 12 0 J3KNN7;Q7Z569 J3KNN7 BRAP BRCA1-associated protein 1 0 ECINAAPDS(0.957)PS(0.043)K;ECINAAPDS(0.814)PS(0.186)K;ECINAAPDS(0.965)PS(0.035)K;ECINAAPDS(0.5)PS(0.5)K ;;; 200.97 2.45E-10 131320000 14012 17946.2 12759.1 15724.1 16886.3 20515.6 17395.4 13257.8 22310.4 16421 TRUE FALSE FALSE 15485.84645 18527.66865 14497.8437 16028.46269 15592.47534 18767.55546 15438.02381 12918.68467 22155.14011 17128.98967 0.904072379 1.081655661 0.846392226 0.935750619 0.910297434 1.095660388 0.901280467 0.754200039 1.293429474 1 14.06415244 -4.753300599 0.011500918 1.82590168 2.77E-05 0.133211511 0.134713425 7285.395 15.64796845 1158.176622 1330.274548 1.76E-05 4.753300599 -1.825873942 ECPDQLGPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 ECPDQLGPSPK 11 0 E7EWM1;Q15596 E7EWM1 NCOA2 Nuclear receptor coactivator 2 1 0 ECPDQLGPS(1)PK;ECPDQLGPS(1)PK;ECPDQLGPS(1)PK ;; 126.95 0.0016039 25417200 4279.08 4001.71 3959.32 3837.12 4955.23 4764.83 4492.96 4306.05 4857.87 4660.07 TRUE FALSE FALSE 4729.173268 4131.36803 4498.87551 3911.393006 4575.561348 4358.839678 3987.400316 4195.907476 4824.063687 4860.988424 0.972883055 0.849902874 0.925506321 0.804649727 0.941282091 0.896698222 0.820285911 0.863179895 0.992403863 1 12.24703398 -7.341999731 4.674090649 0.988192929 0.872826997 0.637266121 0.040438303 0.098798251 3.875012243 0.0067367 0.007693612 4.55E-08 7.341999731 -0.115365932 ECPLS(ph)QS(ph)MISSIVNST(ph)Y(ph) ddPTM_HeLa_SAHA_4h_R1 1 ECPLSQSMISSIVNSTY 17 0 C9JP21 C9JP21 SATB1 4 0 ECPLS(0.991)QS(0.81)MIS(0.1)S(0.1)IVNS(0.067)T(0.966)Y(0.966) 49.049 0.0080486 0 185.49 147.05 334.33 250.95 408.86 390.07 544.28 499.02 263.52 239.55 TRUE FALSE FALSE 205.0006893 151.8145165 379.8907513 255.8075001 377.5332351 356.8338415 483.0361819 486.255791 261.6861429 249.8781728 0.820402546 0.607554132 1.520303862 1.023728872 1.5108692 1.428031258 1.933086738 1.945971453 1.047254908 1 7.965081075 -5.212753391 0.660494848 0.901746105 2.138171266 0.732664349 0.22326054 0.448234954 0.25965512 0.039753077 0.330404407 6.13E-06 5.212753391 1.23642516 ECPSDECGAGVFMASHFDR ddPTM_HeLa_SAHA_4h_R1 7 ECPSDECGAGVFMASHFDR 19 0 P62979;A0A2R8Y422 P62979 RPS27A Ubiquitin-40S ribosomal protein S27a;Ubiquitin;40S ribosomal protein S27a 0 0 ;;;;;; ;;;;;; 270.94 5.77E-64 117879000 9129.12 10398.5 9984.6 11782.4 11503.1 12258.4 12535.6 9997.4 12269.2 11475 FALSE FALSE TRUE 10089.36273 10735.41822 11345.24929 12010.46539 10621.73496 11213.91536 11125.0613 9741.680984 12183.81764 11969.74341 0.842905515 0.896879562 0.947827276 1.003402076 0.88738201 0.936855117 0.929431895 0.813858798 1.017884613 1 13.54710461 -9.603597194 1.421642914 0.999697044 0.902781762 0.377370294 0.051325042 0.41882645 1.526689266 0.038139653 0.008923563 2.49E-10 9.603597194 -0.096915283 ECS(ph)PTSSLER ddPTM_HeLa_SAHA_4h_R1 2 ECSPTSSLER 10 0 A0A0J9YX88;E9PJ24;B7ZM65;F8WEF5;A0A0J9YYB5;A0A0J9YWD5;Q9P1Y6-2;Q9P1Y6-3;Q9P1Y6 A0A0J9YX88 PHRF1 PHD and RING finger domain-containing protein 1 1 0 ECS(0.499)PT(0.499)S(0.002)SLER;ECS(0.989)PT(0.011)SSLER ; 144.17 0.0009426 52804000 4841.4 4011 4148 4118.8 4965.8 5245.6 5152 4659 4685 4031.8 TRUE FALSE FALSE 5350.640665 4140.959032 4713.267838 4198.52533 4585.321477 4798.645369 4572.283401 4539.829526 4652.396704 4205.630629 1.272256443 0.984622616 1.120704183 0.998310527 1.090281549 1.141004951 1.087181401 1.079464634 1.10623046 1 12.03810643 ECS(ph)VEKGTGDSLR ddPTM_HeLa_SAHA_4h_R1 3 ECSVEKGTGDSLR 13 1 Q5T757;Q05519-2;Q05519 Q5T757 SRSF11 Serine/arginine-rich splicing factor 11 1 0 ECS(0.998)VEKGT(0.001)GDS(0.001)LR;ECS(0.994)VEKGT(0.006)GDSLR;ECS(0.748)VEKGT(0.22)GDS(0.032)LR ;; 160.46 0.00026515 141625000 8449.3 7219.8 8979.3 9079.9 8321 9038.7 9768 10491.5 6728.8 8457.5 TRUE FALSE FALSE 9338.036141 7453.726257 10202.95224 9255.654594 7683.446778 8268.55191 8668.878932 10223.14262 6681.973733 8822.144215 1.058476932 0.844888281 1.156516148 1.049138891 0.870927361 0.937249688 0.982627207 1.15880475 0.757409261 1 13.10691363 ECSEAMEVETSVISIDS(ph)PQK ddPTM_HeLa_SAHA_4h_R1 2 ECSEAMEVETSVISIDSPQK 20 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 ECSEAMEVETSVIS(0.008)IDS(0.992)PQK;ECSEAMEVET(0.002)S(0.111)VIS(0.068)IDS(0.819)PQK ; 176.27 1.55E-09 12893200 1763.14 4168 2861.1 4188.3 4157.7 4482.9 3866.7 3091.2 6215.7 3875.2 TRUE FALSE FALSE 1948.595155 4303.045935 3250.995808 4269.370603 3839.137924 4100.9317 3431.608739 3012.13158 6172.444438 4042.278837 0.482053622 1.064509923 0.804248282 1.056179144 0.949745943 1.014509851 0.84892925 0.745156804 1.526971465 1 11.98095313 -7.223963488 24.99958093 0.755414048 0.927824979 0 0.287726422 884.7194558 590183.186 0.034922769 0.042770986 5.97E-08 7.223963488 0.172410931 EDAANNYAR ddPTM_HeLa_SAHA_4h_R1 2 EDAANNYAR 9 0 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;A0A1W2PQM2;P0DPH7-2;F8VQQ4;F8VVB9;Q9NY65;C9J2C0;Q9NY65-2;F8VS66;F8VRZ4;F8VWV9;F8VX09;A6NHL2-2;A6NHL2;C9K0S6;P68363;P68363-2;P68366-2;P68366;C9JEV8;C9JQ00;C9JJQ8;C9JDL2 Q9BQE3;P68363;P68366-2 TUBA1C;TUBA1A;TUBA1B;TUBA8;TUBAL3;TUBA4A Tubulin alpha-1C chain;Tubulin alpha-8 chain;Tubulin alpha chain-like 3;Tubulin alpha-1B chain;Tubulin alpha-4A chain 0 0 ; ; 167.23 1.27E-10 8979800 3219.1 3552.2 2713.6 3855.6 4427.8 4597.2 4438.6 3229.1 4578.6 3884.9 FALSE FALSE TRUE 3557.699708 3667.293611 3083.395276 3930.230713 4088.542921 4205.492697 3939.157046 3146.504298 4546.73715 4052.397051 0.87792476 0.904968976 0.760881828 0.969853315 1.008919627 1.037779034 0.972056044 0.776455085 1.121987084 1 11.98455982 -4.254519891 24.15707802 0.940807082 0.776454963 0.230890341 0.094765347 557.1774986 1945115.971 0.011632835 0.150461998 5.57E-05 4.254519891 -0.16435212 EDAVLEYLK ddPTM_HeLa_SAHA_4h_R1 1 EDAVLEYLK 9 0 P26038 P26038 MSN Moesin 0 0 155.07 0.001246 3777100 2601.6 1855.4 2041.3 2268.7 2031.5 2507.5 2667.6 1912.2 2662.8 2283.2 FALSE FALSE TRUE 2875.248225 1915.516177 2319.477733 2312.613969 1875.846909 2293.846893 2367.434627 1863.288693 2644.269358 2381.639926 1.207255637 0.804284542 0.973899416 0.971017467 0.787628259 0.963137571 0.994035497 0.782355331 1.110272518 1 11.2177396 -7.259802437 24.99952958 1.097870717 0.904568941 0.529795318 0.090012492 102.8220416 1570313.476 0.017460279 0.020791756 5.50E-08 7.259802437 -0.193301776 EDCEQWWEDCR ddPTM_HeLa_SAHA_4h_R1 1 EDCEQWWEDCR 11 0 P15328 P15328 FOLR1 Folate receptor alpha 0 0 186.74 7.08E-06 3965300 479.38 840.96 562.15 470.19 748.34 640.03 752.72 571.16 477.78 620.78 FALSE FALSE TRUE 529.8033879 868.2076558 638.7568744 479.2912074 691.0023509 585.4958433 668.0219645 556.5505542 474.4550901 647.5448638 0.818172481 1.340768346 0.986428756 0.740166796 1.06711116 0.904178036 1.031622675 0.859477984 0.732698407 1 9.33883634 EDDDVIVNKPHVS(ph)DEEEEEPPFYHHPFK ddPTM_HeLa_SAHA_4h_R1 3 EDDDVIVNKPHVSDEEEEEPPFYHHPFK 28 1 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-2;H7C1M2;H7C2G8;J3QSZ5 P18583-10 SON Protein SON 1 0 EDDDVIVNKPHVS(0.998)DEEEEEPPFY(0.002)HHPFK;EDDDVIVNKPHVS(0.985)DEEEEEPPFY(0.015)HHPFK;EDDDVIVNKPHVS(0.973)DEEEEEPPFY(0.027)HHPFK ;; 72.654 9.48E-05 113867000 8811.4 11113.2 8727.5 10960.1 12849.7 11984.4 12522.2 6922.8 16197.8 11511.7 TRUE FALSE FALSE 9738.22348 11473.27497 9916.838249 11172.24858 11865.15876 10963.2617 11113.1691 6745.7248 16085.07819 12008.02572 0.810976234 0.955467221 0.82585085 0.930398455 0.988102377 0.912994521 0.925478455 0.561768017 1.339527293 1 13.55171135 -13.52287875 0.017466601 2.036385052 2.40E-10 0.208868447 0.163357688 5455.186609 7.690471656 572.9969494 349.6033352 3.00E-14 13.52287875 -2.036385052 EDEEES(ph)LNEVGYDDIGGCRK ddPTM_HeLa_SAHA_4h_R1 1 EDEEESLNEVGYDDIGGCRK 20 1 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 1 0 EDEEES(1)LNEVGYDDIGGCRK 171.42 1.66E-09 6480700 636.89 1084.8 739.1 817.19 981.06 1073.8 842.15 823.7 969.39 846.6 TRUE FALSE FALSE 703.8810124 1119.948232 839.8206989 833.0078941 905.8913947 982.306199 747.3890656 802.6309467 962.6439361 883.1010692 0.797056007 1.268199384 0.950990468 0.94327583 1.025807154 1.112337232 0.846323362 0.908877788 1.090072212 1 9.786434751 EDEIS(ph)PPPPNPVVK ddPTM_HeLa_SAHA_4h_R1 4 EDEISPPPPNPVVK 14 0 K7EMU2;K7EMZ6;K7EIE5;K7EID3;K7EJ40;K7EK41;K7EPB2;P10644-2;P10644 K7EMU2 PRKAR1A "cAMP-dependent protein kinase type I-alpha regulatory subunit;cAMP-dependent protein kinase type I-alpha regulatory subunit, N-terminally processed" 1 0 EDEIS(1)PPPPNPVVK;EDEIS(1)PPPPNPVVK;EDEIS(1)PPPPNPVVK;EDEIS(1)PPPPNPVVK ;;; 206.49 2.48E-12 179667100 10293.4 13072.5 8546.8 10758.4 13206.5 15523.7 12193.9 9611.2 17827.8 11806.2 TRUE FALSE FALSE 11376.10704 13496.05758 9711.513394 10966.64439 12194.62082 14200.99343 10821.81028 9365.359421 17703.73489 12315.22306 0.923743483 1.095884136 0.788577953 0.890494986 0.99020706 1.153125149 0.878734411 0.760470141 1.437548861 1 13.58815514 -5.584325554 0.010292655 1.865018612 1.63E-05 0.071589755 0.182338929 8757.802195 24.05148242 2087.572475 2271.916001 2.60E-06 5.584325554 -1.865002361 EDEKGDDVDDPENQNSALADT(ph)DASGGLTKESPDTNGPK ddPTM_HeLa_SAHA_4h_R1 1 EDEKGDDVDDPENQNSALADTDASGGLTKESPDTNGPK 38 2 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 EDEKGDDVDDPENQNS(0.004)ALADT(0.243)DAS(0.243)GGLT(0.243)KES(0.243)PDT(0.024)NGPK 90.03 3.71E-10 6522900 1346.6 1259.6 1135.3 1444.7 1698.8 1797.3 1869.2 1655 1834.6 1618.9 TRUE FALSE FALSE 1488.241566 1300.411866 1290.012772 1472.664258 1568.638311 1644.159929 1658.872697 1612.667496 1821.832869 1688.698702 0.881294908 0.770067428 0.763909376 0.872070462 0.928903605 0.973625388 0.982337876 0.954976453 1.078838319 1 10.72169623 -5.3831603 4.013831835 0.908438111 0.971387618 0.114540796 0.089433356 0.49084966 13.55310393 0.01355587 0.031710009 4.14E-06 5.3831603 0.062949508 EDENDAS(ph)DDEDDDEKRR ddPTM_HeLa_SAHA_4h_R1 1 EDENDASDDEDDDEKRR 17 2 Q9Y5B6-3;Q9Y5B6-4;Q9Y5B6-2;Q9Y5B6 Q9Y5B6-3 PAXBP1 PAX3- and PAX7-binding protein 1 1 0 EDENDAS(1)DDEDDDEKRR 99.603 0.0021588 6447300 833.68 967.93 521.59 888.26 1050.6 1258.1 822.68 1120.6 1317.3 913.92 TRUE FALSE FALSE 921.3702875 999.2915671 592.6695689 905.4535567 970.103255 1150.902802 730.1098812 1091.936675 1308.132802 953.3235638 0.966482234 1.048218679 0.621687737 0.949786191 1.017601255 1.207253073 0.765857374 1.145399858 1.372181337 1 9.896822146 -3.944845503 18.73034086 0.967478915 3.065401227 0.034593061 0.197964968 142.0535708 71364.28411 0.019151357 5638.214681 0.000113541 3.944845503 2.097922312 EDFDSTSSSS(ph)STPPLQPR ddPTM_HeLa_SAHA_4h_R1 1 EDFDSTSSSSSTPPLQPR 18 0 A0A669KAU9;A0A669KAX4;K4DI93;Q13620-1;Q13620 A0A669KAU9 CUL4B Cullin-4B 1 0 EDFDS(0.002)T(0.004)S(0.004)S(0.015)S(0.05)S(0.462)S(0.462)T(0.001)PPLQPR 200.81 2.34E-16 7747000 1038.4 1091.6 846.43 984.14 1000.3 1515 1029 877.71 1594.4 1156.5 TRUE FALSE FALSE 1147.623676 1126.968556 961.7770724 1003.189453 923.6572301 1385.913477 913.2142118 855.2594491 1583.304441 1206.362375 0.951309242 0.934187421 0.79725387 0.831582179 0.765654872 1.148836789 0.756998254 0.708957331 1.312461723 1 10.23644762 -6.947930398 3.92900497 0.975995406 0.842500367 0.271305554 0.155489304 0.246585215 7.978584337 0.018404258 0.024204362 1.13E-07 6.947930398 -0.133495039 EDFDSTSSSSST(ph)PPLQPR ddPTM_HeLa_SAHA_4h_R1 1 EDFDSTSSSSSTPPLQPR 18 0 A0A669KAU9;A0A669KAX4;K4DI93;Q13620-1;Q13620 A0A669KAU9 CUL4B Cullin-4B 1 0 EDFDSTSSSSS(0.027)T(0.973)PPLQPR 241.66 3.29E-37 9182500 735.04 1216.5 712.65 920.79 1072.9 1270.6 914.36 1005.8 1916.1 1203.3 TRUE FALSE FALSE 812.3548797 1255.915398 809.7662307 938.6132219 990.6946338 1162.337732 811.4738063 980.0730924 1902.765704 1255.180152 0.647201821 1.00058577 0.645139448 0.747791638 0.789284815 0.926032594 0.646499871 0.78082265 1.515930364 1 10.29367873 -9.529011349 1.249452888 1.0017298 0.761481374 0.363295172 0.200895702 0.383602479 1.05971989 0.079530797 0.01844888 2.96E-10 9.529011349 -0.240248425 EDGGT(ph)VGVFSPK ddPTM_HeLa_SAHA_4h_R1 1 EDGGTVGVFSPK 12 0 O43896 O43896 KIF1C Kinesin-like protein KIF1C 1 0 EDGGT(0.679)VGVFS(0.321)PK 126.34 0.0021504 15016000 2311.7 2285.5 2020.8 2392.1 2495.4 2663.8 2318.6 1900.7 2590.3 2265.8 TRUE FALSE FALSE 2554.855212 2359.5517 2296.1841 2438.402555 2304.202991 2436.829254 2057.705026 1852.082846 2572.273891 2363.489727 1.080967344 0.998333808 0.971522776 1.031695855 0.974915594 1.031030187 0.870621523 0.783622127 1.088337242 1 11.20670288 -4.601471931 2.431245025 1.026873678 0.782622826 0.811782791 0.038431786 0.103585081 1.099676999 0.005859143 0.038727286 2.50E-05 4.601471931 -0.244250852 EDGGTVGVFS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 EDGGTVGVFSPK 12 0 O43896 O43896 KIF1C Kinesin-like protein KIF1C 1 0 EDGGT(0.044)VGVFS(0.956)PK;EDGGT(0.024)VGVFS(0.976)PK ; 141.54 0.00061654 23733400 4017.5 3776.6 3406 3487.3 4541.2 4026.2 3782.4 4166.1 4484 3298.3 TRUE FALSE FALSE 4440.079083 3898.964318 3870.151942 3554.801734 4193.254237 3683.145109 3356.794397 4059.537194 4452.795479 3440.505854 1.29053089 1.133253214 1.124878755 1.033220661 1.218790031 1.070524296 0.975668852 1.179924513 1.294226973 1 11.74840498 -6.507906775 21.40326804 1.140177352 1.092873383 0.08111196 0.103567774 351.7062523 502781.9874 0.019052235 0.028438134 3.11E-07 6.507906775 -0.047303968 EDGNEEDKENQGDETQGQQPPQRR ddPTM_HeLa_SAHA_4h_R1 2 EDGNEEDKENQGDETQGQQPPQRR 24 2 H0Y449;P67809 H0Y449 YBX1 Nuclease-sensitive element-binding protein 1 0 0 ; ; 76.329 0.00023268 13877400 707.62 888.54 818.81 1071.3 742.98 870.46 847.1 1239.34 838.8 757.11 FALSE FALSE TRUE 782.0507183 917.329279 930.3931626 1092.036561 686.0530329 796.2919109 751.7820786 1207.639477 832.9627225 789.7527173 0.990247581 1.161539883 1.178081623 1.382757586 0.868693476 1.008280052 0.951920851 1.52913621 1.054713335 1 9.625257186 -7.265807838 23.17497369 0.995394683 1.139652412 0.100221659 0.184997463 214.7000503 1138996.954 0.030026025 0.035002109 5.42E-08 7.265807838 0.14425773 EDGRS(ph)SSGPPHETAAPK ddPTM_HeLa_SAHA_4h_R1 2 EDGRSSSGPPHETAAPK 17 1 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;C9JQE8 C9JE98 NCOR2 Nuclear receptor corepressor 2 1 0 EDGRS(0.83)S(0.155)S(0.015)GPPHETAAPK;EDGRS(0.711)S(0.254)S(0.034)GPPHETAAPK ; 91.166 0.0027345 8727000 1270.12 1759.15 1128.85 1395.24 2405.2 3177.5 2130.11 2304.2 2030.69 1475.26 TRUE FALSE FALSE 1403.717049 1816.147614 1282.683799 1422.246888 2220.914096 2906.759124 1890.424417 2245.2619 2016.558263 1538.865678 0.912176461 1.180185925 0.83352551 0.924217693 1.443215043 1.888897234 1.228453167 1.45903696 1.310418636 1 10.58765159 -5.720468233 5.63796224 0.963207127 1.51934948 0.557873594 0.204315697 0.075321145 5.805825596 0.023924886 0.047696226 1.90E-06 5.720468233 0.556142353 EDGSGDRGDGPFR ddPTM_HeLa_SAHA_4h_R1 1 EDGSGDRGDGPFR 13 1 P13010 P13010 XRCC5 X-ray repair cross-complementing protein 5 0 0 95.401 0.011668 16046000 1817.9 1747.8 1651.1 1820.9 2314.1 2430 2066.6 1793.7 2029.9 2093.4 FALSE FALSE TRUE 2009.115063 1804.429867 1876.103309 1856.146153 2136.794158 2222.950329 1834.060729 1747.819751 2015.773761 2183.656719 0.920069096 0.826334035 0.859156704 0.850017375 0.97853941 1.017994408 0.839903412 0.800409577 0.923118429 1 11.09253036 -8.39795977 0.914209448 0.990119567 0.888382939 0.136611162 0.06836138 0.505794499 0.879277086 0.025077068 0.014831551 4.00E-09 8.39795977 -0.101736628 EDGVLGSRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 EDGVLGSRSPR 11 1 E7EUR8;A0A1B0GVL4;P78312-4;P78312-6;P78312-2;P78312-5;P78312;D6RFZ4;P78312-3 E7EUR8 FAM193A Protein FAM193A 1 0 EDGVLGS(0.08)RS(0.92)PR;EDGVLGS(0.09)RS(0.91)PR ; 86.189 0.011018 9748700 6211.3 5818.9 5174.6 5730.5 6611.1 6243.4 6599.3 6170.5 5726.9 5435.1 TRUE FALSE FALSE 6864.633032 6007.436178 5879.76754 5841.422114 6104.558946 5711.427196 5856.729396 6012.667545 5687.046037 5669.43376 1.210814576 1.059618373 1.03709961 1.030336073 1.07674932 1.007406989 1.033036039 1.060541105 1.003106532 1 12.46898894 -7.014075044 24.66906518 1.101428439 1.040823066 0 0.059076952 943.3432948 1653381.54 0.012975285 0.016242025 9.68E-08 7.014075044 -0.060605374 EDIFYTSK ddPTM_HeLa_SAHA_4h_R1 2 EDIFYTSK 8 0 A0A0A0MSS8;P42330;S4R3Z2;P17516;A6NHU4;S4R3D5;B4DK69;P52895;S4R3P0;P52895-2;Q04828;H0Y804 A0A0A0MSS8;B4DK69;Q04828 AKR1C3;AKR1C4;AKR1C1;AKR1C2 Aldo-keto reductase family 1 member C3;Aldo-keto reductase family 1 member C4;Aldo-keto reductase family 1 member C2;Aldo-keto reductase family 1 member C1 0 0 ; ; 147.19 0.0022219 17077700 5185.5 4138.6 5156.9 5315.7 5184.4 5723 5497.6 5586.5 5195 4965.4 FALSE FALSE TRUE 5730.934682 4272.693355 5859.655476 5418.59306 4787.172392 5235.368203 4878.995579 5443.605419 5158.847572 5179.482694 1.106468545 0.824926659 1.131320601 1.046164913 0.924256856 1.010789786 0.941985111 1.050994036 0.996015988 1 12.3385923 -5.806685264 24.95180862 1.039164977 0.981203532 0.002699058 0.085376986 231.7096856 127780.6188 0.012458448 0.022582935 1.56E-06 5.806685264 -0.057961444 EDILENEDEQNS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 2 EDILENEDEQNSPPK 15 0 Q9NTI5-2;Q9NTI5;A9IYQ1;Q9NTI5-5 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 1 0 EDILENEDEQNS(1)PPK;EDILENEDEQNS(1)PPK ; 211.7 3.81E-35 2675500 1589.56 2059.43 1051.57 1472.37 2159.79 2406.1 1534.01 1682.57 2266.08 1850.37 TRUE FALSE FALSE 1756.757214 2126.156883 1194.872483 1500.86985 1994.307357 2201.086744 1361.399158 1639.532296 2250.310165 1930.148506 0.910166865 1.101550931 0.619057279 0.777592939 1.03324037 1.140371705 0.705333892 0.849433238 1.165874106 1 10.91449614 -8.570087243 0.481293123 1.006892902 0.882312544 0.137861657 0.166655459 2.710521932 1.236615772 0.152721842 0.051905635 2.69E-09 8.570087243 -0.124580358 EDILENEDEQNS(ph)PPKK ddPTM_HeLa_SAHA_4h_R1 1 EDILENEDEQNSPPKK 16 1 Q9NTI5-2;Q9NTI5;A9IYQ1;Q9NTI5-5 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 1 0 EDILENEDEQNS(1)PPKK 124.25 0.00025311 5200900 1777.8 2053.3 1131.9 1962.4 2500.9 2457.6 1735.4 2413.6 2894.2 1993.8 TRUE FALSE FALSE 1964.797161 2119.828267 1286.149437 2000.38509 2309.281582 2248.198654 1540.128225 2351.863607 2874.059027 2079.762475 0.944721902 1.0192646 0.618411695 0.961833437 1.110358327 1.08098818 0.740530826 1.130832792 1.381916955 1 11.02220306 -3.916102234 19.79715441 0.9558286 9.14795913 0.030254198 0.19683333 605.7841706 143655.0657 0.018600478 1098.609729 0.00012131 3.916102234 8.19213053 EDINAIEMEEDKR ddPTM_HeLa_SAHA_4h_R1 1 EDINAIEMEEDKR 13 1 P49756;H0YE46;P49756-2;P49756-3 P49756 RBM25 RNA-binding protein 25 0 0 167.03 7.46E-05 3294600 1179.6 1097.3 965.95 1126.6 1239.8 1311.9 1086.5 1128.1 1244 1014.7 FALSE FALSE TRUE 1303.67574 1132.85324 1097.584636 1148.406972 1144.806792 1200.118739 964.2441605 1099.244835 1235.342903 1058.448683 1.231685354 1.070295857 1.036974823 1.084990695 1.081589321 1.133846883 0.910997553 1.038543345 1.167125929 1 10.04773561 -4.770172637 24.99998524 1.101201428 0.97477044 0.353226057 0.068221091 179.8790754 514931.2668 0.01263633 0.038769358 1.70E-05 4.770172637 -0.126430988 EDITQSAQHALR ddPTM_HeLa_SAHA_4h_R1 1 EDITQSAQHALR 12 0 Q12906;Q12906-7;Q12906-5;Q12906-4;Q12906-2;Q12906-6;Q12906-3 Q12906 ILF3 Interleukin enhancer-binding factor 3 0 0 110.15 0.0033659 4359000 2324.9 2548.5 1482.9 2585.1 3181.4 3709 3220.4 3298.3 3333.9 2397.7 FALSE FALSE TRUE 2569.443649 2631.073072 1684.981889 2635.138349 2937.641819 3392.972334 2858.032116 3213.934262 3310.699118 2501.076581 1.027335056 1.051976214 0.673702638 1.053601624 1.174550928 1.356604736 1.142720754 1.285020333 1.323709615 1 11.28833352 -5.729818873 3.44729697 0.989430463 1.249697701 0.318995997 0.156180047 0.140841628 3.477074405 0.016765812 0.034116427 1.86E-06 5.729818873 0.260267238 EDIYAVEIVGGATR ddPTM_HeLa_SAHA_4h_R1 2 EDIYAVEIVGGATR 14 0 A0A087WYC1;P34932;A0A087WTS8 A0A087WYC1 HSPA4 Heat shock 70 kDa protein 4 0 0 ; ; 182.41 1.81E-06 12181800 1787.11 1227.61 1362.93 1673.37 1593.9 2001.71 1531.96 1690.87 2008.32 1488.99 FALSE FALSE TRUE 1975.086429 1267.385369 1548.663003 1705.760496 1471.775726 1831.153047 1359.579829 1647.619994 1994.343938 1553.187646 1.271634136 0.81598986 0.997086866 1.098232078 0.947583977 1.178964468 0.875348083 1.060799059 1.284032836 1 10.60101642 -7.27313846 24.9972488 1.128271668 1.000739558 0.29068697 0.126031096 1008.069995 2153923.363 0.022869817 0.026266314 5.33E-08 7.27313846 -0.12753211 EDIYSGGGGGGSR ddPTM_HeLa_SAHA_4h_R1 1 EDIYSGGGGGGSR 13 0 Q13151 Q13151 HNRNPA0 Heterogeneous nuclear ribonucleoprotein A0 0 0 167.11 0.00021695 3647000 669.97 817.26 890.55 1030.4 751.4 989.36 980.1 946.99 1167.1 955 FALSE FALSE TRUE 740.4405185 843.7397602 1011.909516 1050.344882 693.8278943 905.060962 869.8165685 922.767367 1158.978056 996.1747237 0.743283784 0.846979692 1.015795214 1.05437817 0.696492169 0.908536365 0.873156634 0.926310762 1.163428492 1 9.960254995 -4.249217233 20.40523464 0.884788412 0.926311043 0 0.139443634 872.8077076 1456786.207 0.017350536 0.313354699 5.63E-05 4.249217233 0.041522631 EDKS(ph)PETGTAGGSSTASYSAGR ddPTM_HeLa_SAHA_4h_R1 2 EDKSPETGTAGGSSTASYSAGR 22 1 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 EDKS(0.996)PET(0.004)GTAGGSSTASYSAGR;EDKS(0.951)PET(0.045)GT(0.004)AGGSSTASYSAGR ; 60.991 0.0058531 12587000 1141.59 1726.73 1147.51 1516.63 1765.64 2821.5 1656 1949.49 2658.08 1472.15 TRUE FALSE FALSE 1261.667674 1782.677185 1303.886687 1545.986567 1630.357045 2581.092327 1469.662522 1899.624869 2639.582205 1535.621591 0.821600635 1.160883121 0.849093744 1.006749694 1.061691926 1.680812735 0.957047316 1.237039698 1.718901467 1 10.58460703 -5.511730169 21.69416161 0.93834804 1.277020895 0 0.309174868 66.80640955 129997.7419 0.025794935 0.054634064 3.08E-06 5.511730169 0.338672855 EDKSPSEES(ph)APTTSPESVSGSVPSSGSSGR ddPTM_HeLa_SAHA_4h_R1 1 EDKSPSEESAPTTSPESVSGSVPSSGSSGR 30 1 P54725-2;P54725-3;P54725;A0A494C0B4 P54725-2 RAD23A UV excision repair protein RAD23 homolog A 1 0 EDKS(0.048)PS(0.018)EES(0.895)APT(0.027)T(0.01)S(0.001)PESVSGSVPSSGSSGR 93.419 3.95E-08 16176000 744.14 1303 864.68 863.09 1289 1397.4 998.58 909.34 1541.9 1198.9 TRUE FALSE FALSE 822.4120594 1345.218055 982.5140873 879.796355 1190.237098 1278.333658 886.2171503 886.0803995 1531.169792 1250.590446 0.657619017 1.075666345 0.785640167 0.703504779 0.951740118 1.022184091 0.70863899 0.708529641 1.2243575 1 10.28839369 -9.688173803 1.565071598 0.999886849 0.807134376 0.283879796 0.157127482 0.530588089 2.344167382 0.104523746 0.023256697 2.05E-10 9.688173803 -0.192752473 EDKSPSEESAPTTS(ph)PESVSGSVPSSGSSGR ddPTM_HeLa_SAHA_4h_R1 2 EDKSPSEESAPTTSPESVSGSVPSSGSSGR 30 1 P54725-2;P54725-3;P54725;A0A494C0B4 P54725-2 RAD23A UV excision repair protein RAD23 homolog A 1 0 EDKSPSEESAPTT(0.216)S(0.72)PES(0.043)VS(0.013)GS(0.006)VPS(0.001)S(0.001)GSSGR;EDKSPSEESAPTT(0.314)S(0.681)PES(0.003)VS(0.001)GSVPSSGSSGR ; 168.57 2.89E-16 89054000 1923.7 2404.6 1698.42 2540.7 2650.9 3192.4 2719.1 2564.9 3020.3 2615 TRUE FALSE FALSE 2126.043592 2482.510618 1929.871833 2589.878922 2447.788615 2920.38956 2413.139712 2499.293572 2999.281486 2727.745447 0.779414221 0.910096146 0.707497041 0.949457701 0.897366951 1.070623933 0.884664555 0.916248829 1.09954596 1 11.4134933 EDLDSRSNLHLPETKFSELS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 EDLDSRSNLHLPETKFSELSK 21 2 Q9Y4K1;A0A0J9YWL0 Q9Y4K1 AIM1 Absent in melanoma 1 protein 1 0 EDLDSRSNLHLPET(0.067)KFS(0.067)ELS(0.866)K 58.158 0.012408 18370000 514.51 539.28 663.25 366.11 617.88 521.35 722.72 572.66 400.37 554.09 TRUE FALSE FALSE 568.6285225 556.7530258 753.6342559 373.1965885 570.5381679 476.928047 641.3976435 558.0121864 397.5837926 577.9795316 0.983821211 0.963274641 1.30391167 0.645691704 0.987125212 0.825164251 1.109723802 0.965453197 0.687885593 1 9.174874592 -6.253454331 24.99320751 1.010763987 0.917860461 0.039607695 0.178836715 1177.574143 3685804.649 0.020814595 0.034110299 5.58E-07 6.253454331 -0.092903526 EDLESS(ph)GLQR ddPTM_HeLa_SAHA_4h_R1 2 EDLESSGLQR 10 0 Q9UK76;J3KT51;Q9UK76-3;Q9UK76-2;J3KSH8 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 1 0 EDLES(0.075)S(0.925)GLQR;EDLES(0.08)S(0.92)GLQR ; 152.64 0.00050413 11219800 3921.2 4899.1 3587.9 3837.3 4648.2 5223.4 3985.7 4279.3 4532 4429.5 TRUE FALSE FALSE 4333.649807 5057.834054 4076.840327 3911.57649 4292.05592 4778.336934 3537.218546 4169.841702 4500.461443 4620.477422 0.937922516 1.094656156 0.882341792 0.846574095 0.92892044 1.034165195 0.765552609 0.902469879 0.974025199 1 12.17382621 EDLHDMLAS(ph)LGFIHEDHLRELLT(ph)TMGDR ddPTM_HeLa_SAHA_4h_R1 1 EDLHDMLASLGFIHEDHLRELLTTMGDR 28 1 P24844-2 P24844-2 MYL9 Myosin regulatory light polypeptide 9 2 0 EDLHDMLAS(1)LGFIHEDHLRELLT(0.518)T(0.482)MGDR 40.326 0.017473 4384700 518.65 923.93 443.27 579.41 843.76 1011.6 637.64 804.1 1250.7 893.39 TRUE FALSE FALSE 573.2039867 953.8659382 503.6765271 590.6253184 779.1112911 925.4059889 565.891069 783.5322863 1241.996277 931.908415 0.615086179 1.02356189 0.54047857 0.633780433 0.836038476 0.993022462 0.60723893 0.840782499 1.332744996 1 9.864044368 -9.546406688 1.289609998 1.001081789 0.745100444 0.349492774 0.19128385 0.491563809 1.454369677 0.110810179 0.025809376 2.84E-10 9.546406688 -0.255981346 EDLNCQEEEDPMNK ddPTM_HeLa_SAHA_4h_R1 1 EDLNCQEEEDPMNK 14 0 K7ENA8;O75821;K7EL20 K7ENA8 EIF3G Eukaryotic translation initiation factor 3 subunit G 0 0 117.02 0.0046716 4121700 1225.3 1383.2 835.05 1282.5 1132.2 1595.7 1194.3 848.61 1831.8 917.65 FALSE FALSE TRUE 1354.182676 1428.016588 948.8462652 1307.324642 1045.451081 1459.737383 1059.914221 826.903785 1819.052355 957.2143824 1.414712003 1.491846146 0.991257844 1.365759506 1.092180707 1.524984799 1.107290321 0.863864773 1.90036045 1 9.902698264 -4.37438409 3.996841649 1.230787838 0.865008619 0.138664426 0.280744747 0.260209844 6.476411666 0.028779412 0.207015124 4.22E-05 4.37438409 -0.365779219 EDLPAENGETKTEES(ph)PASDEAGEK ddPTM_HeLa_SAHA_4h_R1 1 EDLPAENGETKTEESPASDEAGEK 24 1 A6NEL0;P05114;A6NL93 A6NEL0 HMGN1 Non-histone chromosomal protein HMG-14 1 0 EDLPAENGET(0.175)KT(0.128)EES(0.686)PAS(0.012)DEAGEK 75.064 0.00040566 7978700 464.25 587.42 420.72 420.54 796 946.02 495.36 466.73 1204.2 642.2 TRUE FALSE FALSE 513.0819451 606.4527934 478.0535306 428.6801598 735.010652 865.4137738 439.6207891 454.7917224 1195.819874 669.8883849 0.765921543 0.905304237 0.713631616 0.639927739 1.097213608 1.291877563 0.656259758 0.678906714 1.785103162 1 9.387776927 -9.520476753 1.279133211 0.999878412 0.841693361 0.135896664 0.320129814 1.054452179 3.092422737 0.144402936 0.034788035 3.02E-10 9.520476753 -0.158185051 EDLRLPEGDLGK ddPTM_HeLa_SAHA_4h_R1 2 EDLRLPEGDLGK 12 1 I3L397;I3L504;P63241;P63241-2 I3L397 EIF5A Eukaryotic translation initiation factor 5A;Eukaryotic translation initiation factor 5A-1 0 0 ; ; 89.43 0.019737 15229600 6559.2 7978.3 6135.6 7286.9 6961 7670.5 7540.3 6744.3 9484.7 6580.1 FALSE FALSE TRUE 7249.126751 8236.802155 6971.727615 7427.948487 6427.649684 7016.930247 6691.845599 6571.790572 9418.6952 6863.800313 1.056138935 1.200035225 1.015724132 1.08219181 0.936456393 1.022309789 0.974947594 0.957456551 1.37222745 1 12.74479187 -5.762468479 24.99999944 1.044169035 0.976483456 0.109372911 0.118461906 32.98798029 801420.4452 0.009053271 0.017126387 1.73E-06 5.762468479 -0.067685579 EDLTEIR ddPTM_HeLa_SAHA_4h_R1 2 EDLTEIR 7 0 F8VWS0;P05388-2;P05388;G3V210;F8VW21;F8VZS0;F8VU65;Q8NHW5;F8VS58;F8VQY6;F8VPE8;F8VRK7;F8VWV4 F8VWS0 RPLP0;RPLP0P6 60S acidic ribosomal protein P0;60S acidic ribosomal protein P0-like 0 0 ; ; 133.81 0.0059734 22883000 7811.2 8555.3 5918.4 8224.2 8563.2 10887.7 9277.1 8180.9 10929.7 8399.6 FALSE FALSE TRUE 8632.817855 8832.497333 6724.92873 8383.391283 7907.089466 9960.006707 8233.216292 7971.644424 10853.63933 8761.747863 0.985284899 1.008074812 0.767532784 0.956817226 0.902455719 1.136760252 0.939677382 0.909823536 1.238752758 1 13.09700298 EDLVGPEVGAS(ph)PQSGR ddPTM_HeLa_SAHA_4h_R1 1 EDLVGPEVGASPQSGR 16 0 Q86X27-3;Q86X27;H7C2H2 Q86X27-3 RALGPS2 Ras-specific guanine nucleotide-releasing factor RalGPS2 1 0 EDLVGPEVGAS(0.999)PQS(0.001)GR 97.713 0.0045104 4091200 1134 1508.3 929.34 1297.4 1446.6 1717.4 1158 1176.8 2325.7 1597.2 TRUE FALSE FALSE 1253.279323 1557.16991 1055.985615 1322.513053 1335.761821 1571.067858 1027.698792 1146.69916 2309.515264 1666.063109 0.752240006 0.934640412 0.633820898 0.793795293 0.801747433 0.942982202 0.616842656 0.688268742 1.386211154 1 10.70222733 -13.52287874 0.229406503 2.311435753 0.738250261 0.468698128 0.157664876 33.69811968 0.433685243 19.85227028 0.073746551 3.00E-14 13.52287874 -1.573185492 EDLVGPEVGAS(ph)PQSGRK ddPTM_HeLa_SAHA_4h_R1 2 EDLVGPEVGASPQSGRK 17 1 Q86X27-3;Q86X27;H7C2H2 Q86X27-3 RALGPS2 Ras-specific guanine nucleotide-releasing factor RalGPS2 1 0 EDLVGPEVGAS(0.993)PQS(0.007)GRK;EDLVGPEVGAS(0.874)PQS(0.126)GRK ; 87.963 0.0030654 21614000 3328.1 3378.9 2546.9 3572.3 3913.1 4295.3 3387.7 3204.7 3878.1 3393.9 TRUE FALSE FALSE 3678.164828 3488.378577 2893.978268 3641.447032 3613.279123 3929.316275 3006.50708 3122.728414 3851.111986 3540.227638 1.038962802 0.985354314 0.817455419 1.028591211 1.020634686 1.109904977 0.849241175 0.88206995 1.08781479 1 11.78962641 -4.737226253 24.99746151 1.007842647 0.865655407 0.377237961 0.074651381 179.1040806 184902.8288 0.009795283 0.036613469 1.83E-05 4.737226253 -0.14218724 EDLYLK(ac)PIQR ddPTM_HeLa_SAHA_4h_R1 2 EDLYLKPIQR 10 1 P13639 P13639 EEF2 Elongation factor 2 0 1 ; EDLYLK(1)PIQR;EDLYLK(1)PIQR 153.05 3.52E-06 7729800 1306.79 3108.8 1373.49 1654.53 2778.3 2470.1 2658.4 2114.9 3076.4 1026.58 FALSE TRUE FALSE 1444.244168 3209.52716 1560.662064 1686.555821 2565.427254 2259.633584 2359.269835 2060.80392 3054.991082 1070.840888 1.348700992 2.997202662 1.457417327 1.574982651 2.39571283 2.110148771 2.203193642 1.924472575 2.852889833 1 10.06452842 -7.482531264 14.06779775 1.153751887 2.07420598 0 0.673498508 1.682853336 586.6595774 0.068587435 0.077100586 3.29E-08 7.482531264 0.920454093 EDLYLKPIQR ddPTM_HeLa_SAHA_4h_R1 2 EDLYLKPIQR 10 1 P13639 P13639 EEF2 Elongation factor 2 0 0 ; ; 100.25 0.0046761 3300100 2587.4 2836.6 2758.6 2528.9 3678.5 3945.5 3432.5 3089.3 3522.6 2796.9 FALSE FALSE TRUE 2859.554603 2928.507701 3134.527642 2577.850516 3396.654125 3609.321203 3046.266066 3010.280179 3498.08594 2917.488047 0.980142697 1.003777104 1.074392625 0.883585631 1.16423926 1.237133159 1.044140033 1.031805489 1.199006091 1 11.51051103 -5.741980558 24.9999379 0.991791746 1.122373376 0.149317458 0.095426193 168.1037168 215971.8639 0.009811641 0.019600547 1.81E-06 5.741980558 0.13058163 EDMAALEK ddPTM_HeLa_SAHA_4h_R1 2 EDMAALEK 8 0 Q9BQE3;F5H5D3;P68363;P68363-2;P68366-2;P68366 Q9BQE3;P68363;P68366-2 TUBA1C;TUBA1B;TUBA4A Tubulin alpha-1C chain;Tubulin alpha-1B chain;Tubulin alpha-4A chain 0 0 ; ; 122.52 0.0080917 36267000 7321.2 5201.7 4067.9 4893.7 3852.2 7090.7 6524 5620.8 7446.5 5631.1 FALSE FALSE TRUE 8091.277407 5370.238493 4622.252227 4988.42464 3557.045268 6486.532469 5789.90235 5477.028075 7394.6792 5873.884279 1.377500309 0.914256774 0.78691578 0.849254838 0.605569517 1.104300351 0.985702488 0.932437177 1.258907879 1 12.52009913 -7.121311763 7.384646735 1.177952026 0.876786398 0.498028701 0.150764854 0.210896237 11.96908565 0.03065149 0.037605275 7.56E-08 7.121311763 -0.301165628 EDMAALEKDYEEVGADS(ph)ADGEDEGEEY ddPTM_HeLa_SAHA_4h_R1 1 EDMAALEKDYEEVGADSADGEDEGEEY 27 1 Q9BQE3;F5H5D3 Q9BQE3 TUBA1C Tubulin alpha-1C chain 1 0 EDMAALEKDYEEVGADS(1)ADGEDEGEEY 90.308 6.59E-06 2889600 1469.6 1851.8 1658.1 1518.9 2107.5 2079.7 2084.7 2319.1 1661.2 1780.1 TRUE FALSE FALSE 1624.179271 1911.799535 1884.057233 1548.300506 1946.023805 1902.49786 1850.124069 2259.78078 1649.639574 1856.848823 0.874696556 1.029593531 1.014653002 0.83383229 1.048024902 1.024584143 0.996378406 1.216997718 0.888408121 1 10.85864065 -1.000000059 0.736566052 0.949032135 42.15604669 0.548523375 0.069288404 198.1133823 0.848550888 0.011738963 13535.77386 0.099999987 1.000000059 41.20701455 EDMAALEKDYEEVGADSADGEDEGEEY ddPTM_HeLa_SAHA_4h_R1 3 EDMAALEKDYEEVGADSADGEDEGEEY 27 1 Q9BQE3;F5H5D3 Q9BQE3 TUBA1C Tubulin alpha-1C chain 0 0 ;; ;; 132.65 2.32E-13 9606000 6208.63 7613.8 7108.4 6793.3 8429.5 8121 8052.59 7539.5 6020.01 7264.1 FALSE FALSE TRUE 6861.68219 7860.492116 8077.095733 6924.794145 7783.633531 7429.045113 7146.49138 7346.650507 5978.11626 7577.290901 0.905558765 1.037374996 1.065960887 0.913887857 1.027231716 0.980435516 0.94314597 0.969561629 0.788951663 1 12.88746642 -1.24219044 21.98127645 0.970014533 0.084902247 0 0.076704174 0 0 0.007442173 0 0.057254491 1.24219044 -0.885112286 EDMAALEKDYEEVGVDSVEGEGEEEGEEY ddPTM_HeLa_SAHA_4h_R1 2 EDMAALEKDYEEVGVDSVEGEGEEEGEEY 29 1 P68363;P68363-2 P68363 TUBA1B Tubulin alpha-1B chain 0 0 ; ; 92.886 1.44E-07 16956800 7742.3 9806.7 9642.2 8822.2 11710.3 10938.2 11328.4 10295.4 8723.6 9915.2 FALSE FALSE TRUE 8556.670637 10124.44351 10956.1888 8992.966438 10813.05934 10006.20382 10053.69862 10032.05858 8662.891757 10342.6928 0.827315556 0.978898215 1.059316855 0.869499522 1.045478151 0.967466019 0.97205813 0.969965827 0.837585717 1 13.33632423 -7.05852261 24.99975136 0.91764678 0.981003229 0.255084357 0.066678159 401.5742559 171544.0552 0.012681441 0.015531546 8.74E-08 7.05852261 0.063356449 EDPGSGVRVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 EDPGSGVRVSPK 12 1 Q9BY89 Q9BY89 KIAA1671 Uncharacterized protein KIAA1671 1 0 EDPGSGVRVS(1)PK 76.927 0.014536 9736900 2950 3247.8 2644.6 2756.5 3583.2 3585 3283.1 3188.4 3416.8 3448 TRUE FALSE FALSE 3260.294535 3353.030851 3004.992316 2809.856043 3308.65599 3279.537831 2913.676947 3106.845345 3393.022211 3596.660154 0.906478343 0.932262351 0.835495206 0.781240352 0.919924555 0.911828666 0.810106272 0.863813986 0.943381378 1 11.81244213 -8.313521469 0.433401239 1.009868859 0.851915018 0.449894641 0.047052251 0.628295484 0.261486856 0.042372465 0.018147558 4.86E-09 8.313521469 -0.157953842 EDPLPT(ph)AASGK ddPTM_HeLa_SAHA_4h_R1 1 EDPLPTAASGK 11 0 P28908-2;P28908-3;P28908 P28908-2 TNFRSF8 Tumor necrosis factor receptor superfamily member 8 1 0 EDPLPT(1)AASGK 103.74 0.0099793 5557200 688.82 964.87 860.77 781.87 863.23 1370.3 1099.7 1047.4 1170.6 999.57 TRUE FALSE FALSE 761.273248 996.1324211 978.0712529 797.0042245 797.0895039 1253.542731 975.9588617 1020.609025 1162.453699 1042.666354 0.73012162 0.955370255 0.938048158 0.76439047 0.764472259 1.202247225 0.936022206 0.978845266 1.114885595 1 10.02606186 -5.27785753 24.98394189 0.866670031 1.028736656 0.177304426 0.131564602 824.194876 1254198.684 0.018251227 0.040922993 5.27E-06 5.27785753 0.162066625 EDQEAAELLS(ph)EPEEESER ddPTM_HeLa_SAHA_4h_R1 2 EDQEAAELLSEPEEESER 18 0 A0A0A0MTR7;A0A0A0MTC1;Q63HN8;Q63HN8-4 A0A0A0MTR7 RNF213 E3 ubiquitin-protein ligase RNF213 1 0 EDQEAAELLS(1)EPEEESER;EDQEAAELLS(1)EPEEESER ; 168.09 1.73E-06 3007600 609.11 622.11 758.95 518.98 474.19 849.97 699.45 583.24 821.27 598.56 TRUE FALSE FALSE 673.1789845 642.2667722 862.3757536 529.0256084 437.8576646 777.5477742 620.7460451 568.3215653 815.5547152 624.3668509 1.078178612 1.028668917 1.381200415 0.84729932 0.70128269 1.245338014 0.994200836 0.910236609 1.306210786 1 9.286250133 EDQSILCTGESGAGK ddPTM_HeLa_SAHA_4h_R1 4 EDQSILCTGESGAGK 15 0 P35579;P35579-2;Q5BKV1;Q7Z406-2;Q7Z406;Q7Z406-6;Q7Z406-4;Q7Z406-5;A0A494C024;E7ERA5;A0A2R8Y4C3;M0QY43;P35749-4;P35749-3;P35749;P35749-2;P35580;P35580-5;P35580-2;P35580-3;P35580-4 P35579;P35749-4;P35580 MYH9;MYH14;MYH10;MYH11 Myosin-9;Myosin-14;Myosin-11;Myosin-10 0 0 ;;; ;;; 244.44 8.38E-33 19614700 5827.9 3710.76 3326.91 4908.32 4226.18 6110.3 4805.37 4532.78 6506.7 4682.2 FALSE FALSE TRUE 6440.905261 3830.991059 3780.283969 5003.327631 3902.371001 5589.668064 4264.657121 4416.838051 6461.419345 4884.072556 1.31875708 0.784384551 0.774002418 1.024417138 0.798999392 1.144468679 0.873176447 0.904335061 1.32295728 1 12.25386892 -7.254597986 24.99850529 1.150524177 0.904862121 0.4971609 0.140088559 441.2602114 1612368.739 0.025831482 0.031264504 5.56E-08 7.254597986 -0.245662056 EDQTEYLEER ddPTM_HeLa_SAHA_4h_R1 4 EDQTEYLEER 10 0 P07900;P07900-2;G3V2J8;Q58FF6;P08238;Q58FF7 P07900;P08238 HSP90AA1;HSP90AB4P;HSP90AB1;HSP90AB3P Heat shock protein HSP 90-alpha;Putative heat shock protein HSP 90-beta 4;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 0 ;;; ;;; 215.83 1.43E-14 314895600 5339.98 5418.64 3945.91 4697.25 5328.59 6812.57 6226.09 4952.21 7300.54 5070.81 FALSE FALSE TRUE 5901.663597 5594.207491 4483.638065 4788.172066 4920.314585 6232.10071 5525.513967 4825.539639 7249.734948 5289.437435 1.115745043 1.057618614 0.847658777 0.905232763 0.930215102 1.178216169 1.04463169 0.912297328 1.37060605 1 12.36889858 EDQTEYLEERR ddPTM_HeLa_SAHA_4h_R1 4 EDQTEYLEERR 11 1 P07900;P07900-2;G3V2J8;P08238;Q58FF7 P07900;P08238 HSP90AA1;HSP90AB1;HSP90AB3P Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 0 ;;; ;;; 166.11 0.00029237 47685700 7340.05 7169.4 8020 7163.3 8573.3 8173.3 9232 8000.7 6964.49 7940 FALSE FALSE TRUE 8112.110136 7401.693264 9112.923834 7301.95603 7916.415606 7476.888858 8193.191063 7796.053679 6916.023547 8282.332257 0.979447562 0.893672583 1.100284745 0.881630416 0.955819612 0.902751619 0.989237187 0.941287241 0.835033337 1 13.01582136 EDS(ph)FESLDSLGSR ddPTM_HeLa_SAHA_4h_R1 1 EDSFESLDSLGSR 13 0 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 EDS(0.999)FES(0.001)LDSLGSR 234.83 1.71E-23 10205000 641.5 697.76 797.13 851.76 728.12 674.23 778.18 634.71 796.45 741.09 TRUE FALSE FALSE 708.9759133 720.3678818 905.7587251 868.2470465 672.3316029 616.7818109 690.6171383 618.4750372 790.9074396 773.0420167 0.917124681 0.931861226 1.171681106 1.123156346 0.869721941 0.797863244 0.89337594 0.800053586 1.023110546 1 9.59440302 -5.544811623 24.59732416 0.985695242 0.836236586 0.521269551 0.082908069 154.9115083 173729.9158 0.013400887 0.026803468 2.85E-06 5.544811623 -0.149458655 EDS(ph)GTFSLGK ddPTM_HeLa_SAHA_4h_R1 1 EDSGTFSLGK 10 0 G5E9Q4;O75569 G5E9Q4 PRKRA Interferon-inducible double-stranded RNA-dependent protein kinase activator A 1 0 EDS(0.989)GT(0.011)FSLGK 177.57 4.37E-05 47371000 2635.6 3357.5 1880 3057.4 3067.7 3721.2 3225.6 3266.8 3887 2788.3 TRUE FALSE FALSE 2912.824501 3466.285203 2136.196609 3116.580398 2832.653489 3404.132825 2862.646999 3183.239986 3859.950051 2908.517259 1.001480906 1.191770547 0.734462415 1.071535811 0.973916686 1.170401453 0.984228988 1.094454563 1.327119528 1 11.50606815 -5.335458595 24.99977076 0.998836163 1.073155685 0 0.154473333 241.5692842 81588.44245 0.014767877 0.033021979 4.62E-06 5.335458595 0.074319522 EDS(ph)PGPEVQPMDK ddPTM_HeLa_SAHA_4h_R1 2 EDSPGPEVQPMDK 13 0 O75382-3;O75382-2;O75382;E9PMW5;E9PMK8 O75382-3 TRIM3 Tripartite motif-containing protein 3 1 0 EDS(1)PGPEVQPMDK;EDS(1)PGPEVQPMDK ; 184 9.70E-07 4647000 1405.71 1233.12 1265.64 1573.23 1574.99 1481.73 1246.9 1356.26 1589.66 1289.11 TRUE FALSE FALSE 1553.569027 1273.073897 1438.114828 1603.682142 1454.314606 1355.478268 1106.59553 1321.568833 1578.597427 1344.689841 1.155336331 0.946741664 1.069476979 1.192603746 1.081524202 1.008022986 0.822937377 0.982805695 1.173949099 1 10.39305773 -4.969735775 5.311276481 1.073715347 0.903070891 0.44919383 0.080865603 0.130384071 9.878780772 0.011609563 0.035241994 1.07E-05 4.969735775 -0.170644456 EDSARPGAHAK(ac)VK ddPTM_HeLa_SAHA_4h_R1 1 EDSARPGAHAKVK 13 2 Q13151 Q13151 HNRNPA0 Heterogeneous nuclear ribonucleoprotein A0 0 1 EDSARPGAHAK(1)VK 52.555 0.023809 781480 855.14 1217.6 703.6 1132.6 1626.4 1598.9 1489.4 1384.2 883.14 679.29 FALSE TRUE FALSE 945.0875487 1257.051039 799.4829438 1154.523111 1501.785583 1462.664725 1321.808792 1348.794168 876.9941568 708.5775163 1.333781452 1.774048724 1.128292848 1.629353295 2.119437251 2.064226837 1.86543993 1.903523803 1.237682733 1 9.468781878 -6.676800571 0.374369874 1.007333141 2.115793383 0.663491178 0.221911758 0.529145345 0.172711019 0.113035047 0.227089579 2.10E-07 6.676800571 1.108460242 EDSFES(ph)LDSLGSR ddPTM_HeLa_SAHA_4h_R1 1 EDSFESLDSLGSR 13 0 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 EDS(0.203)FES(0.724)LDS(0.073)LGSR 158.86 6.53E-05 11403000 877.15 819.83 1005.3 1074.1 1080.9 1035.9 1247 1369.8 1012.6 1122.3 TRUE FALSE FALSE 969.4126615 846.3930299 1142.297049 1094.890759 998.0816755 947.6354922 1106.684278 1334.762499 1005.553234 1170.687845 0.828071006 0.7229878 0.975748619 0.935254229 0.852560039 0.809468977 0.945328238 1.140152351 0.858942235 1 10.19314073 -4.296580757 3.70483971 0.897371671 1.157985837 0.48050189 0.080544442 0.194989199 4.894706151 0.01309908 0.130437111 5.05E-05 4.296580757 0.260614166 EDSGSSS(ph)PPGVFLEKDYEIYR ddPTM_HeLa_SAHA_4h_R1 1 EDSGSSSPPGVFLEKDYEIYR 21 1 Q9C0H5;Q9C0H5-2 Q9C0H5 ARHGAP39 Rho GTPase-activating protein 39 1 0 EDSGS(0.005)S(0.039)S(0.957)PPGVFLEKDYEIYR 115.56 3.90E-05 3620900 561.86 764.12 733.53 748.88 718.66 882.29 963.62 964.97 597.34 675.44 TRUE FALSE FALSE 620.9590127 788.8779894 833.4916483 763.3756553 663.5964261 807.1139284 855.1909415 940.2874647 593.1830623 704.5615239 0.881341078 1.119672254 1.182993422 1.083476218 0.941857316 1.145554932 1.213791716 1.334571124 0.841918047 1 9.460581881 -1 0.311740735 0.950520899 4.515218583 0.595107674 0.094493643 26.84419636 0.343004654 0.036151332 54.8251444 0.1 1 3.564697684 EDSQRPGAHLTVK ddPTM_HeLa_SAHA_4h_R1 1 EDSQRPGAHLTVK 13 1 F8W6I7;P09651-2;P09651;P09651-3;F8VZ49;F8W646;Q32P51;F8VYN5 F8W6I7 HNRNPA1;HNRNPA1L2 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed;Heterogeneous nuclear ribonucleoprotein A1-like 2" 0 0 79.466 0.012063 8291900 3942.8 5725.1 2180.3 4251.9 8255.2 9452.2 7623.9 7395.4 6645.7 4042.9 FALSE FALSE TRUE 4357.521794 5910.596996 2477.419929 4334.201673 7622.688359 8646.819383 6766.038707 7206.236376 6599.452033 4217.209204 1.033271432 1.401542278 0.587454833 1.02774168 1.807519615 2.050365292 1.604387731 1.708769005 1.564886092 1 12.04207288 -5.764065605 10.40519358 1.013172797 1.798029286 0.594774326 0.273212609 0.035650787 74.23518466 0.029399775 0.05561855 1.72E-06 5.764065605 0.784856488 EDTDHEEKAS(ph)NEDVTK ddPTM_HeLa_SAHA_4h_R1 1 EDTDHEEKASNEDVTK 16 1 O75475;O75475-3;O75475-2 O75475 PSIP1 PC4 and SFRS1-interacting protein 1 0 EDTDHEEKAS(0.997)NEDVT(0.003)K 73.76 0.0086779 0 1027.5 1404.9 779.41 976.54 1133.7 1211.6 999 1029.8 1929.3 795.79 TRUE FALSE FALSE 1135.577164 1450.419682 885.6239358 995.4423438 1046.836151 1108.364864 886.5898908 1003.459207 1915.873844 830.1004014 1.367999777 1.747282232 1.066887733 1.199183065 1.261095825 1.335217839 1.068051394 1.208840768 2.308002551 1 9.697142032 -9.348532811 1.164491078 1.005569811 1.286463478 0 0.447100835 0.532533252 1.329873034 0.114922139 0.032534864 4.48E-10 9.348532811 0.280893667 EDTEEHHLR ddPTM_HeLa_SAHA_4h_R1 1 EDTEEHHLR 9 0 P22626;P22626-2;A0A087WUI2;F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8VZ49;A0A2R8Y4L2;Q32P51;F8VYN5 P22626;F8W6I7 HNRNPA2B1;HNRNPA1;HNRNPA1L2 "Heterogeneous nuclear ribonucleoproteins A2/B1;Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed;Heterogeneous nuclear ribonucleoprotein A1-like 2" 0 0 90.601 0.0081272 249470 59.73 66.509 182.4 222.52 117.61 0 267.7 325.36 54.157 121.41 FALSE FALSE TRUE 66.01267545 68.66393524 207.2565221 226.8271964 108.5987472 0 237.5776915 317.0377623 53.78011703 126.6445793 0.521243592 0.542178241 1.636521068 1.791053337 0.857508058 0 1.875940469 2.503366225 0.42465392 1 6.984641517 -6.763696955 24.98730982 0.750222974 1.387166799 0.268851254 0.646449645 80.63118982 892446.0566 0.107918162 0.145712084 1.72E-07 6.763696955 0.636943826 EDTEEHHLRDYFEQYGK ddPTM_HeLa_SAHA_4h_R1 2 EDTEEHHLRDYFEQYGK 17 1 F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8VZ49;A0A2R8Y4L2;Q32P51;F8VYN5 F8W6I7 HNRNPA1;HNRNPA1L2 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed;Heterogeneous nuclear ribonucleoprotein A1-like 2" 0 0 ; ; 87.083 0.0038305 13189200 10054.4 4080.3 9119.8 8196.9 8000.2 1885.27 9286.2 7985.2 2660.7 7298.9 FALSE FALSE TRUE 11111.96792 4212.504397 10362.59885 8355.562852 7387.226404 1724.63439 8241.292336 7780.950146 2642.183972 7613.591299 1.459490993 0.553287435 1.361065815 1.097453557 0.970268315 0.226520484 1.082444803 1.021981591 0.347035173 1 12.89436141 -5.641890848 3.883119327 1.17149822 0.780801687 0 0.409810567 0.261590563 7.368011686 0.048204887 0.100026966 2.28E-06 5.641890848 -0.390696532 EDTEEYNLR ddPTM_HeLa_SAHA_4h_R1 3 EDTEEYNLR 9 0 P51991;P51991-2 P51991 HNRNPA3 Heterogeneous nuclear ribonucleoprotein A3 0 0 ;; ;; 185.72 2.56E-06 11015400 2589.95 2498.11 1804.93 2258.15 2420.7 3289.3 3079 2225.22 3576.8 2702.06 FALSE FALSE TRUE 2862.372824 2579.050403 2050.896461 2301.859759 2235.226489 3009.033135 2732.542817 2168.302094 3551.908758 2818.55903 1.015544749 0.915024442 0.72764006 0.816679635 0.793038735 1.06757854 0.969482203 0.769294548 1.260186045 1 11.46074207 -7.12522942 4.38400248 1.007074465 0.864213855 0.366691174 0.123339452 0.208711145 6.547177028 0.016317296 0.020160144 7.49E-08 7.12522942 -0.14286061 EDVEVAES(ph)PLR ddPTM_HeLa_SAHA_4h_R1 2 EDVEVAESPLR 11 0 Q99567;J3KMX1 Q99567 NUP88 Nuclear pore complex protein Nup88 1 0 EDVEVAES(1)PLR;EDVEVAES(1)PLR ; 174.21 6.64E-05 149830000 5598.7 6094.4 4542 5769.3 6376.5 5568.2 6008.1 3962.4 6822.8 4974.4 TRUE FALSE FALSE 6187.596954 6291.862559 5160.960106 5880.973144 5887.933948 5093.758034 5332.052776 3861.047545 6775.319579 5188.870728 1.192474679 1.212568763 0.99462106 1.133382089 1.134723576 0.981669866 1.027594067 0.744101703 1.305740677 1 12.34120488 -3.680516036 1.058771899 1.099037237 1.61E-18 0.568589206 0.098616011 2.865321108 1.072400996 0.01357574 4.778360896 0.000208682 3.680516036 -1.099037237 EDVEVAES(ph)PLRVLAETPDSFEK ddPTM_HeLa_SAHA_4h_R1 2 EDVEVAESPLRVLAETPDSFEK 22 1 Q99567;J3KMX1 Q99567 NUP88 Nuclear pore complex protein Nup88 1 0 EDVEVAES(1)PLRVLAETPDSFEK;EDVEVAES(1)PLRVLAETPDSFEK ; 80.171 0.00059965 62685000 882.64 691.21 1120.19 1001.53 940.25 796.06 1129.43 1378.68 1122.82 1246.93 TRUE FALSE FALSE 975.4801249 713.6056575 1272.84366 1020.916061 868.2082481 728.2312095 1002.343564 1343.415362 1115.006204 1300.691255 0.749970542 0.5486357 0.978590157 0.784902688 0.667497567 0.559880146 0.770623744 1.032847232 0.857241256 1 10.34506283 -9.081042664 0.836463635 1.001870742 0.754090002 0.132641393 0.15335239 0.656899024 0.827497198 0.100384773 0.029269981 8.30E-10 9.081042664 -0.24778074 EDVEVVGGS(ph)DGEGAIGLSSDPK ddPTM_HeLa_SAHA_4h_R1 2 EDVEVVGGSDGEGAIGLSSDPK 22 0 Q8NHZ8 Q8NHZ8 CDC26 Anaphase-promoting complex subunit CDC26 1 0 EDVEVVGGS(1)DGEGAIGLSSDPK;EDVEVVGGS(1)DGEGAIGLSSDPK ; 120.08 1.54E-05 5322100 2575.2 3207.6 2823 2714 3085 3818.1 3187.4 2971.1 3423.4 3144.2 TRUE FALSE FALSE 2846.071351 3311.528345 3207.703738 2766.533395 2848.627966 3492.7764 2828.745363 2895.103564 3399.576281 3279.761849 0.867767686 1.00968561 0.978029469 0.843516548 0.868547199 1.064948176 0.862484989 0.882717617 1.036531442 1 11.67937535 -6.313307023 24.99969458 0.945287474 0.909034247 0.126880169 0.074597408 926.7465937 446681.6102 0.011970109 0.01828465 4.86E-07 6.313307023 -0.036253226 EDVTKDADLS(ph)PVNASIIK ddPTM_HeLa_SAHA_4h_R1 2 EDVTKDADLSPVNASIIK 18 1 F5H1U9;O75970-5;O75970-3;O75970-2;O75970 F5H1U9 MPDZ Multiple PDZ domain protein 1 0 EDVT(0.014)KDADLS(0.984)PVNAS(0.001)IIK;EDVT(0.015)KDADLS(0.976)PVNAS(0.009)IIK ; 79.935 0.0040163 28001000 4837.8 4858.5 5130.3 5671.1 6151.5 6598.8 6263.7 5467 5374.8 5308.9 TRUE FALSE FALSE 5346.662001 5015.918588 5829.430567 5780.872341 5680.173399 6036.545116 5558.891991 5327.162056 5337.396329 5537.79266 0.965486129 0.905761356 1.052663204 1.043894688 1.025710738 1.090063404 1.003810062 0.961964881 0.963812959 1 12.43509532 -6.703157289 24.99999775 0.97739993 1.031718207 0.405239579 0.039548788 75.52978171 32397.99241 0.006412631 0.009068827 1.98E-07 6.703157289 0.054318277 EEADALY(ph)EALK ddPTM_HeLa_SAHA_4h_R1 1 EEADALYEALK 11 0 Q9BPW4-3;Q9BPW4-2;Q9BPW4 Q9BPW4-3 APOL4 Apolipoprotein L4 1 0 EEADALY(1)EALK 105.4 0.012859 3376400 370.68 382.56 555.15 592.16 502.37 750.97 732 752.51 575.58 486.77 TRUE FALSE FALSE 409.6698231 394.955195 630.8029509 603.6221131 463.8785191 686.9831312 649.6334335 733.2618838 571.5744919 507.7570369 0.806822542 0.777842878 1.242332267 1.188801079 0.913583634 1.352976091 1.279417884 1.44411959 1.125685023 1 8.987994518 -5.226515783 0.601807428 0.906494676 1.496411781 0.472808529 0.158439758 0.803673633 0.373391299 0.030773292 0.265840998 5.94E-06 5.226515783 0.589917105 EEAENTLQS(ph)FRQDVDNASLAR ddPTM_HeLa_SAHA_4h_R1 2 EEAENTLQSFRQDVDNASLAR 21 1 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 1 0 EEAENT(0.034)LQS(0.966)FRQDVDNASLAR;EEAENT(0.032)LQS(0.967)FRQDVDNASLAR ; 78.674 0.00094606 15830900 795.7 1228.96 737.42 954.26 1350.49 1342.76 1361.34 1254.09 1189.96 1138.4 TRUE FALSE FALSE 879.3953768 1268.77911 837.9117573 972.7310822 1247.015748 1228.349294 1208.15844 1222.012194 1181.678971 1187.481995 0.740554703 1.068461767 0.705620599 0.819154384 1.050134447 1.034415089 1.017412007 1.029078503 0.995113169 1 10.21368992 -5.753653259 24.98494692 0.872578692 1.031781976 0.291675761 0.108783333 177.2674461 568830.033 0.017604472 0.034692591 1.76E-06 5.753653259 0.159203284 EEAENTLQSFR ddPTM_HeLa_SAHA_4h_R1 5 EEAENTLQSFR 11 0 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 ;;;; ;;;; 199.33 9.81E-24 164969500 5342.98 6618.8 5983.11 6792.94 7368.38 7301.5 7454.03 6764.31 6856.85 7001.87 FALSE FALSE TRUE 5904.979151 6833.253463 6798.457072 6924.427176 6803.816316 6679.371123 6615.282926 6591.288745 6809.132623 7303.754882 0.808485395 0.935580886 0.930816708 0.948064015 0.931550473 0.91451195 0.905737259 0.902452074 0.93227836 1 12.83442263 -9.713558955 1.624417374 0.999869653 0.895479124 0.0876673 0.043561551 0.332673071 1.587660354 0.036527899 0.008059853 1.93E-10 9.713558955 -0.104390528 EEAENTLQSFRQDVDNASLAR ddPTM_HeLa_SAHA_4h_R1 2 EEAENTLQSFRQDVDNASLAR 21 1 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 ; ; 174.87 5.65E-10 14084900 1133.86 531.42 1076.87 676.09 838.42 814.45 1063.48 1055.93 351.29 932.12 FALSE FALSE TRUE 1253.124597 548.6383567 1223.620236 689.1766996 774.1804407 745.054278 943.8144315 1028.92084 348.8453443 972.3082549 1.288814109 0.564263806 1.258469451 0.70880474 0.796229423 0.766273735 0.970694661 1.058224935 0.358780605 1 9.92526996 -7.287458186 24.99208993 1.136384434 0.879590489 0 0.312834028 736.2492613 707194.4169 0.033702808 0.038547043 5.16E-08 7.287458186 -0.256793946 EEAKES(ph)PSAAGPEDK ddPTM_HeLa_SAHA_4h_R1 1 EEAKESPSAAGPEDK 15 1 Q3KQU3-4;Q3KQU3;Q3KQU3-2;Q3KQU3-3;H0YF21 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 EEAKES(0.5)PS(0.5)AAGPEDK 67.214 0.018579 6886900 916.07 1100.9 745.94 1043.2 1154.5 1438.4 981.67 1113 1475.4 1214.7 TRUE FALSE FALSE 1012.426446 1136.569882 847.5928185 1063.392644 1066.042459 1315.840228 871.209908 1084.531072 1465.132571 1267.071662 0.79902856 0.89700521 0.668938344 0.839252172 0.841343463 1.038489193 0.687577455 0.85593507 1.156313897 1 10.30728241 -9.28977044 0.877959224 1.006617219 0.826649911 0.408423635 0.110925634 0.631031638 0.820789186 0.076869369 0.017917714 5.13E-10 9.28977044 -0.179967308 EEAPAS(ph)PLRPLYPQIS(ph)PLK ddPTM_HeLa_SAHA_4h_R1 1 EEAPASPLRPLYPQISPLK 19 1 U3KQ26;P85037;P85037-2 U3KQ26;P85037 FOXK1 Forkhead box protein K1 2 0 EEAPAS(1)PLRPLY(0.002)PQIS(0.998)PLK 87.098 0.015264 50097000 1791.7 2330.9 1827.5 2223.8 2750.1 2807.2 2589.9 2267.2 3500.3 2703.3 TRUE FALSE FALSE 1980.159227 2406.422689 2076.542183 2266.844865 2539.387932 2568.010767 2298.477636 2209.208307 3475.941127 2819.852493 0.702220854 0.853386018 0.736400996 0.803887746 0.90053928 0.910689752 0.815105628 0.783448181 1.232667714 1 11.46140398 -9.54471074 1.317560491 0.999729638 0.803578619 0.539292879 0.098832547 0.287875205 0.897131768 0.050029355 0.011944711 2.85E-10 9.54471074 -0.196151019 EEAS(ph)DDDMEGDEAVVR ddPTM_HeLa_SAHA_4h_R1 8 EEASDDDMEGDEAVVR 16 0 O75643;A0A494C1A5;O75643-2 O75643 SNRNP200 U5 small nuclear ribonucleoprotein 200 kDa helicase 1 0 EEAS(1)DDDMEGDEAVVR;EEAS(1)DDDMEGDEAVVR;EEAS(1)DDDMEGDEAVVR;EEAS(1)DDDMEGDEAVVR;EEAS(1)DDDMEGDEAVVR;EEAS(1)DDDMEGDEAVVR;EEAS(1)DDDMEGDEAVVR;EEAS(1)DDDMEGDEAVVR ;;;;;;; 319.82 3.74E-119 645905900 8271.89 11170.3 8285.63 4668.65 10678.64 12168.29 9783.66 7487.15 7729.09 10444.22 TRUE FALSE FALSE 9141.965343 11532.22505 9414.752507 4759.018472 9860.44491 11131.48324 8682.776828 7295.639544 7675.302633 10894.52144 0.839134183 1.058534339 0.864173113 0.436826757 0.905082887 1.021750547 0.796985611 0.669661314 0.704510306 1 13.4113152 -6.518630782 24.98042898 0.933398238 0.77578702 0.114077483 0.168876232 237.8178689 1398506.831 0.02492904 0.035750219 3.03E-07 6.518630782 -0.157611218 EEASDYLELDTIK ddPTM_HeLa_SAHA_4h_R1 2 EEASDYLELDTIK 13 0 P14625;Q96GW1;A0A1W2PRR1 P14625 HSP90B1 Endoplasmin 0 0 ; ; 250.7 5.93E-32 20329700 3667.5 2633.5 2065.07 3246.5 2871.4 3204.3 3108.5 2789.5 3509.5 2720.3 FALSE FALSE TRUE 4053.264477 2718.827128 2346.486985 3309.340702 2651.393952 2931.275613 2758.723399 2718.148629 3485.077104 2837.585446 1.428420238 0.958148109 0.826930864 1.166252353 0.934383828 1.033017567 0.972208045 0.957908997 1.228184021 1 11.47044812 -7.206497621 24.99619938 1.202309756 0.979974597 0.434780574 0.125204712 301.4324406 137139.1654 0.028643802 0.035081342 6.22E-08 7.206497621 -0.222335159 EEASGSSVTAEEAK ddPTM_HeLa_SAHA_4h_R1 1 EEASGSSVTAEEAK 14 0 P13010 P13010 XRCC5 X-ray repair cross-complementing protein 5 0 0 145.31 0.00069998 2646700 733.79 882.95 742.22 1113.2 820.51 1014.7 909.65 869.52 1087.1 856.9 FALSE FALSE TRUE 810.9733989 911.5581593 843.3658763 1134.747596 757.6427011 928.2418515 807.2937879 847.2789374 1079.534783 893.8451526 0.90728623 1.019816639 0.943525703 1.269512502 0.847621872 1.03848172 0.903169621 0.947903488 1.207742504 1 9.803881114 -4.729447885 24.99317912 0.978009036 0.925536549 0 0.129550131 595.1184458 464924.7644 0.014209618 0.053158463 1.86E-05 4.729447885 -0.052472487 EEASGSSVTAEEAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EEASGSSVTAEEAKK 15 1 P13010 P13010 XRCC5 X-ray repair cross-complementing protein 5 0 1 ; EEASGSSVTAEEAK(1)K;EEASGSSVTAEEAK(1)K 391.71 0 0 802.31 1370.96 791.54 788.21 1195.52 1242.55 1212.43 938.16 1049.12 596.58 FALSE TRUE FALSE 886.7006469 1415.380004 899.406949 803.4669443 1103.919516 1136.67775 1076.004185 914.1632256 1041.819089 622.3014834 1.424873105 2.274428137 1.445291347 1.291121692 1.773930394 1.82657085 1.729072185 1.469003771 1.674138848 1 9.281469875 -8.20663083 0.982520003 1.068984394 1.671385181 0.020095609 0.32605596 0.298962104 0.606352013 0.082931167 0.057776735 6.21E-09 8.20663083 0.602400786 EEASGSSVTAEEAKK ddPTM_HeLa_SAHA_4h_R1 2 EEASGSSVTAEEAKK 15 1 P13010 P13010 XRCC5 X-ray repair cross-complementing protein 5 0 0 ; ; 151.22 0.00011141 7081900 2084.21 2528.9 2296.8 2626.6 2592.6 2878.7 3081.1 3088.1 2721.5 2945.1 FALSE FALSE TRUE 2303.43677 2610.838019 2609.795943 2677.441641 2393.955548 2633.418565 2734.406519 3009.110874 2702.56086 3072.077674 0.749797699 0.849860679 0.84952147 0.871540998 0.779262702 0.857210932 0.890083783 0.979503513 0.87971762 1 11.58499898 -9.568441259 1.360938717 0.999579442 0.83915791 0.09236252 0.069395118 0.314480527 1.048416848 0.045784317 0.010866835 2.70E-10 9.568441259 -0.160421532 EEATYGVWAERDS(ph)DDERPSFGGK ddPTM_HeLa_SAHA_4h_R1 3 EEATYGVWAERDSDDERPSFGGK 23 2 Q9UBB9;F6XM96;F6SQZ1;F6UKU9 Q9UBB9 TFIP11 Tuftelin-interacting protein 11 1 0 EEAT(0.001)Y(0.002)GVWAERDS(0.938)DDERPS(0.059)FGGK;EEATYGVWAERDS(0.996)DDERPS(0.004)FGGK;EEATYGVWAERDS(0.997)DDERPS(0.003)FGGK ;; 117 1.05E-05 65016100 1500.97 1917.93 1739.76 2135.29 2299.24 2881.33 2516.99 1876.13 2652.63 2474.12 TRUE FALSE FALSE 1658.848911 1980.07219 1976.845433 2176.621626 2123.072728 2635.824474 2233.771661 1828.141311 2634.170132 2580.791421 0.642767524 0.76723449 0.765984192 0.84339308 0.822644058 1.021324099 0.865537464 0.708364611 1.020683078 1 11.33359783 -4.251668315 22.64974046 0.834145791 0.708364359 0.091110161 0.120121401 861.1432155 1996001.068 0.019876227 0.319911933 5.60E-05 4.251668315 -0.125781431 EEDEENDNDNES(ph)DHDEADS ddPTM_HeLa_SAHA_4h_R1 1 EEDEENDNDNESDHDEADS 19 0 H0YBP8;Q9NRG0 H0YBP8 CHRAC1 Chromatin accessibility complex protein 1 1 0 EEDEENDNDNES(0.991)DHDEADS(0.009) 111.01 0.00078594 2393700 535.65 353.07 459.72 544.2 484.25 451.27 318.05 299.48 466.82 562.36 TRUE FALSE FALSE 591.9921247 364.5096997 522.3682475 554.7337779 447.1468696 412.8192572 282.2621769 291.8197352 463.5713616 586.6060917 1.009181686 0.621387512 0.890492368 0.945666582 0.76226087 0.703741852 0.481178394 0.497471369 0.790260054 1 9.196248243 -4.209965077 0.341222716 1.01584417 2.05E-16 0.513813416 0.128593208 2.599676312 0.207254265 0.039702973 1.097151774 6.17E-05 4.209965077 -1.01584417 EEDEEPES(ph)PPEK ddPTM_HeLa_SAHA_4h_R1 2 EEDEEPESPPEK 12 0 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 EEDEEPES(1)PPEK;EEDEEPES(1)PPEK ; 209.67 3.84E-11 47011000 6311.7 9885.2 6219.86 7847.3 9287.4 10669.2 8544.5 7498.65 13968.4 8874.1 TRUE FALSE FALSE 6975.593565 10205.48697 7067.470129 7999.195839 8575.801418 9760.124137 7583.050372 7306.845391 13871.19277 9256.70588 0.753571914 1.102496622 0.76349732 0.864151453 0.926442033 1.054384169 0.819195346 0.789356979 1.498502053 1 13.17628317 -9.728056627 1.647008912 1.000024849 0.867727831 0.174890035 0.195074821 0.587439271 2.878135141 0.082932196 0.018059995 1.87E-10 9.728056627 -0.132297018 EEDEEPES(ph)PPEKK ddPTM_HeLa_SAHA_4h_R1 4 EEDEEPESPPEKK 13 1 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 EEDEEPES(1)PPEKK;EEDEEPES(1)PPEKK;EEDEEPES(1)PPEKK;EEDEEPES(1)PPEKK ;;; 185.66 8.31E-07 942833000 11864.2 15710.6 10969 12510.1 15136.2 18228 13847.8 13232 22859.5 15311 TRUE FALSE FALSE 13112.13099 16219.63375 12463.7982 12752.25108 13976.46763 16674.87185 12289.6091 12893.5446 22700.41888 15971.13214 0.82098945 1.015559423 0.780395409 0.7984563 0.875108133 1.044063233 0.769488912 0.807303107 1.421340621 1 13.96317896 -9.449798652 0.960469931 1.007633465 0.862741248 0.275078556 0.161980775 0.74209183 1.114572796 0.08042977 0.016163406 3.55E-10 9.449798652 -0.144892217 EEDEHPY(ph)ELLLTAETK ddPTM_HeLa_SAHA_4h_R1 2 EEDEHPYELLLTAETK 16 0 A0A3B3ISP1;Q92625 A0A3B3ISP1 ANKS1A Ankyrin repeat and SAM domain-containing protein 1A 1 0 EEDEHPY(1)ELLLTAETK;EEDEHPY(1)ELLLTAETK ; 190.44 4.89E-11 17631800 5454 6522 4857.7 7622.9 12701.2 7732.8 10567.1 11176.9 10176.1 6765.7 TRUE FALSE FALSE 6027.676744 6733.317079 5519.682058 7770.452252 11728.0368 7073.921936 9378.062097 10891.01108 10105.28369 7057.402438 0.854092819 0.954078663 0.782112414 1.101035731 1.661806437 1.002340734 1.328826318 1.543203917 1.431870122 1 12.78492156 -5.993767016 24.80750937 0.9221624 1.356408917 0.345584222 0.233540545 73.48713264 292477.8041 0.023750784 0.042969005 1.01E-06 5.993767016 0.434246517 EEDEHPY(ph)ELLLTAETKK ddPTM_HeLa_SAHA_4h_R1 1 EEDEHPYELLLTAETKK 17 1 A0A3B3ISP1;Q92625 A0A3B3ISP1 ANKS1A Ankyrin repeat and SAM domain-containing protein 1A 1 0 EEDEHPY(1)ELLLTAETKK 81.632 0.0026378 2558400 669.25 910.8 851.91 1269.1 1503.9 841.54 1391.2 1522.6 1045.8 724.21 TRUE FALSE FALSE 739.6447856 940.3105176 968.0038582 1293.665266 1388.671507 769.8360576 1234.658515 1483.654097 1038.522193 755.4342373 0.97909884 1.24472849 1.281387327 1.712478998 1.838242746 1.019064294 1.634369285 1.963975186 1.374735406 1 9.56116236 -6.725360669 1.601757807 0.990669172 1.607757079 0.388163542 0.269098536 0.193069429 1.007041307 0.0409661 0.060785653 1.88E-07 6.725360669 0.617087907 EEDEPEERS(ph)GDET(ph)PGSEVPGDK ddPTM_HeLa_SAHA_4h_R1 1 EEDEPEERSGDETPGSEVPGDK 22 1 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 2 0 EEDEPEERS(0.979)GDET(0.995)PGS(0.026)EVPGDK 70.718 0.014277 9526600 1724.5 2311 1814.2 2106.2 2749.6 2971.8 2595.2 2007.9 3260 2359.6 TRUE FALSE FALSE 1905.890822 2385.877916 2061.429728 2146.968547 2538.926242 2718.585921 2303.181266 1956.540825 3237.313395 2461.333904 0.774332495 0.969343458 0.837525427 0.87227846 1.031524507 1.104517318 0.935745151 0.794910769 1.315267867 1 11.26522467 -5.77880666 24.87656653 0.891297825 0.974311134 0 0.1638569 396.6621147 568171.0387 0.016764644 0.03044019 1.66E-06 5.77880666 0.083013309 EEDEPEERS(ph)GDETPGSEVPGDK ddPTM_HeLa_SAHA_4h_R1 3 EEDEPEERSGDETPGSEVPGDK 22 1 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 1 0 EEDEPEERS(0.914)GDET(0.085)PGS(0.001)EVPGDK;EEDEPEERS(0.88)GDET(0.107)PGS(0.013)EVPGDK;EEDEPEERS(0.855)GDET(0.092)PGS(0.053)EVPGDK ;; 102.72 9.61E-05 298780900 4902.4 7204.4 5446.8 6221.7 6193.5 7600 5843.6 5543.8 8524.8 5953.1 TRUE FALSE FALSE 5418.056925 7437.827287 6189.061538 6342.13 5718.955368 6952.437244 5186.062748 5401.997623 8465.475223 6209.767275 0.872505633 1.197762647 0.996665618 1.021315247 0.920961304 1.11959707 0.835146072 0.869919497 1.363251608 1 12.60032349 EEDEPEERS(ph)GDETPGSEVPGDKAAEEQGDDQDSEK ddPTM_HeLa_SAHA_4h_R1 2 EEDEPEERSGDETPGSEVPGDKAAEEQGDDQDSEK 35 2 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 1 0 EEDEPEERS(0.893)GDET(0.081)PGS(0.026)EVPGDKAAEEQGDDQDSEK;EEDEPEERS(0.885)GDET(0.029)PGS(0.086)EVPGDKAAEEQGDDQDSEK ; 65.782 2.84E-05 40082400 1367.5 1349.05 1265.64 1718.16 1211.52 1718.6 1923.68 1767.71 956.1 1495.66 TRUE FALSE FALSE 1511.339924 1392.760105 1438.114828 1751.417471 1118.693599 1572.165611 1707.222464 1722.494538 949.4464223 1560.145222 0.968717465 0.892711836 0.92178267 1.122599003 0.717044531 1.00770466 1.094271507 1.104060387 0.60856285 1 10.60746461 -4.837976564 4.611610448 0.964707548 1.099824086 0.12973672 0.148984606 0.206629996 8.039293293 0.012871441 0.042292172 1.45E-05 4.837976564 0.135116538 EEDEPEERSGDETPGS(ph)EVPGDK ddPTM_HeLa_SAHA_4h_R1 1 EEDEPEERSGDETPGSEVPGDK 22 1 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 1 0 EEDEPEERS(0.161)GDET(0.095)PGS(0.744)EVPGDK 87.323 0.00030333 300030000 1929.7 2750.3 2126 2274 2580.2 3087.2 2579.8 2430.2 3466.1 2406.6 TRUE FALSE FALSE 2132.6747 2839.411525 2415.720208 2318.016558 2382.505633 2824.153192 2289.514114 2368.039003 3441.979128 2510.360304 0.849549245 1.131077288 0.962300194 0.923380024 0.949069195 1.124999144 0.912026099 0.943306425 1.371109606 1 11.29367873 EEDGADAS(ph)EEDLTR ddPTM_HeLa_SAHA_4h_R1 2 EEDGADASEEDLTR 14 0 Q86X53;E5RHA3 Q86X53 ERICH1 Glutamate-rich protein 1 1 0 EEDGADAS(1)EEDLTR;EEDGADAS(1)EEDLTR ; 242.01 5.02E-33 63207000 3779.1 4303.1 3840.4 3000.3 4227.1 4691.8 4242.7 3806.6 4375.9 4023.1 TRUE FALSE FALSE 4176.603077 4442.523263 4363.749712 3058.375145 3903.220511 4292.032245 3765.30023 3709.232684 4345.447756 4196.55553 0.995245517 1.058611814 1.039840813 0.728782241 0.930101004 1.02275121 0.897235889 0.883875516 1.035479627 1 12.03498996 EEEAIQLDGLNASQIR ddPTM_HeLa_SAHA_4h_R1 2 EEEAIQLDGLNASQIR 16 0 P14625;Q96GW1;A0A1W2PRR1 P14625 HSP90B1 Endoplasmin 0 0 ; ; 160.78 2.47E-05 11339400 2491.5 1348.56 1055.27 1654.17 1463.93 2348.75 1977.12 2088.62 2519.61 1932.4 FALSE FALSE TRUE 2753.567401 1392.254229 1199.0767 1686.188852 1351.764 2148.623286 1754.649254 2035.196125 2502.075829 2015.715221 1.366049813 0.690699864 0.594864139 0.836521367 0.670612587 1.065935934 0.870484697 1.009664512 1.241284385 1 10.97707611 -7.254869658 24.99782905 1.172856857 0.817491076 0.538753982 0.161531239 369.9637623 1407715.304 0.032277096 0.039045875 5.56E-08 7.254869658 -0.355365782 EEEEEEEEDQEGDRETTIR ddPTM_HeLa_SAHA_4h_R1 2 EEEEEEEEDQEGDRETTIR 19 1 A0A0B4J2E5;Q15269 A0A0B4J2E5 PWP2 Periodic tryptophan protein 2 homolog 0 0 ; ; 144.41 0.00010484 6818300 770.73 867.92 793.73 676.61 746.14 1070.86 730.27 944.06 988.22 931.9 FALSE FALSE TRUE 851.7989176 896.0411775 901.8953908 689.7067649 688.9709144 979.6167035 648.0980976 919.9123122 981.3428966 972.0787696 0.876265324 0.921778364 0.927800729 0.709517363 0.708760376 1.007754448 0.666713561 0.946335154 1.009530222 1 9.924929413 -6.386310639 8.208899056 0.937780592 0.805728817 0.301149769 0.10566281 0.291920544 18.27452043 0.015550096 0.023769026 4.11E-07 6.386310639 -0.132051775 EEEEGISQES(ph)S(ph)EEEQ ddPTM_HeLa_SAHA_4h_R1 1 EEEEGISQESSEEEQ 15 0 P17096;P17096-2 P17096 HMGA1 High mobility group protein HMG-I/HMG-Y 2 0 EEEEGISQES(1)S(1)EEEQ 140.78 0.0016248 12014000 3767.2 5167.5 3764.5 4098.5 4666 5181.9 4775.7 4127.8 6375.2 5139.1 TRUE FALSE FALSE 4163.451381 5334.930391 4277.506455 4177.832394 4308.492088 4740.372967 4238.325667 4022.216853 6330.834464 5360.671751 0.77666598 0.995198109 0.797942246 0.779348669 0.803722423 0.884287117 0.790633313 0.750319557 1.180977825 1 12.38819808 -9.563349741 0.715720899 1.03492434 0.819433222 0.557650884 0.088303027 0.751343601 0.499411046 0.106296792 0.013487161 2.73E-10 9.563349741 -0.215491118 EEEEGISQES(ph)SEEEQ ddPTM_HeLa_SAHA_4h_R1 1 EEEEGISQESSEEEQ 15 0 P17096;P17096-2 P17096 HMGA1 High mobility group protein HMG-I/HMG-Y 1 0 EEEEGISQES(0.5)S(0.5)EEEQ 173.59 5.76E-07 6436900 1556 1957.6 1341.7 2041.5 1806.3 2168.7 1709.6 1920.4 2968.1 1714.8 TRUE FALSE FALSE 1719.667219 2021.027524 1524.539889 2081.016185 1667.901684 1983.914559 1517.231309 1871.278949 2947.44475 1788.73342 0.961388209 1.129865134 0.852301339 1.163402082 0.932448438 1.109116952 0.848215442 1.046147474 1.647783128 1 10.80472268 -4.753846136 24.98411774 0.999007261 0.947181565 0 0.228941294 442.1276414 1454698.92 0.01215943 0.043814968 1.76E-05 4.753846136 -0.051825696 EEEEQQEGGFAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 EEEEQQEGGFASPR 14 0 A0A087WVR3;A0A087WTW0;Q96T88;Q96T88-2;A0A087WWG9 A0A087WVR3 UHRF1 E3 ubiquitin-protein ligase UHRF1 1 0 EEEEQQEGGFAS(1)PR 130.47 3.96E-05 0 296.23 395.38 304.38 366.13 525.95 542.24 425.47 405.56 510.42 535.71 TRUE FALSE FALSE 327.3888306 408.1905714 345.8593213 373.2169756 485.6518246 496.0381014 377.5949958 395.1863624 506.8679457 558.8070798 0.585870943 0.730467788 0.618924373 0.667881616 0.869086742 0.887673259 0.675716199 0.707196413 0.90705355 1 9.126206489 -9.480054683 1.218935662 1.000111631 0.708305651 0.485867312 0.095300228 0.297202463 0.789579078 0.072311054 0.017681887 3.31E-10 9.480054683 -0.29180598 EEEMQPAEEGPS(ph)VPK ddPTM_HeLa_SAHA_4h_R1 1 EEEMQPAEEGPSVPK 15 0 Q6ZU67-5;Q6ZU67-4;Q6ZU67-2;Q6ZU67 Q6ZU67-5 BEND4 BEN domain-containing protein 4 1 0 EEEMQPAEEGPS(1)VPK 101.53 0.0069463 853170 182.4 178.83 265.58 193.66 67.459 0 139 249.71 206.14 211.9 TRUE FALSE FALSE 201.5856689 184.6242093 301.7718593 197.4085693 62.29030599 0 123.3593542 243.3227798 204.705455 221.036046 0.912003596 0.835267427 1.365260847 0.893105776 0.281810624 0 0.558096095 1.100828504 0.926117973 1 7.78813785 -5.856905599 6.197480654 0.979839518 0.457609404 0.419586207 0.290482568 0.154945055 8.42551995 0.042873078 0.07852396 1.39E-06 5.856905599 -0.522230114 EEENS(ph)EEELAAATTSK ddPTM_HeLa_SAHA_4h_R1 1 EEENSEEELAAATTSK 16 0 P10244-2;P10244 P10244-2 MYBL2 Myb-related protein B 1 0 EEENS(0.99)EEELAAAT(0.009)T(0.001)SK 122.44 0.00058285 3357600 653.3 1080.1 474.73 640.86 801.54 916.61 808.59 493.41 985.76 860.07 TRUE FALSE FALSE 722.0170914 1115.095949 539.4237321 653.264772 740.1261784 838.5096713 717.6053251 480.7892866 978.9000159 897.1518268 0.804788075 1.242928917 0.60126248 0.72815409 0.824973161 0.934635194 0.79987055 0.535906267 1.091119682 1 9.809208346 EEEPTGWEEPS(ph)PESIRR ddPTM_HeLa_SAHA_4h_R1 1 EEEPTGWEEPSPESIRR 17 1 Q8NDV7-2;Q8NDV7-6;Q8NDV7-5;Q8NDV7;H7C269 Q8NDV7-2 TNRC6A Trinucleotide repeat-containing gene 6A protein 1 0 EEEPTGWEEPS(0.99)PES(0.01)IRR 94.387 0.0020946 2249700 499.61 669.85 417.07 639 599.11 645.5 725.48 330.56 673.94 495.42 TRUE FALSE FALSE 552.1612721 691.5535795 473.9061276 651.368769 553.2063212 590.4997685 643.847081 322.1047538 669.2499967 516.7799807 1.068464903 1.338197309 0.917036544 1.26043731 1.070487135 1.142652174 1.245882397 0.623291857 1.29503855 1 9.013406373 -1.483973272 14.38571384 1.062515205 0.019111563 0 0.206730414 0 0 0.022789783 0 0.032811549 1.483973272 -1.043403642 EEEQEDLTKDMDEPS(ph)PVPNVEEVTLPK ddPTM_HeLa_SAHA_4h_R1 2 EEEQEDLTKDMDEPSPVPNVEEVTLPK 27 1 F8VXC8;Q8TAQ2-2;Q8TAQ2-3;Q8TAQ2 F8VXC8 SMARCC2 SWI/SNF complex subunit SMARCC2 1 0 EEEQEDLT(0.001)KDMDEPS(0.999)PVPNVEEVTLPK;EEEQEDLTKDMDEPS(1)PVPNVEEVTLPK ; 113.62 2.00E-07 10676900 2597.58 2754.26 2643.25 2519.5 3355.5 2858.2 3135.4 2866.4 2829.79 2546.6 TRUE FALSE FALSE 2870.805383 2843.499831 3003.458345 2568.268566 3098.402315 2614.66528 2782.59654 2793.081638 2810.097261 2656.396389 1.080714232 1.070435061 1.130651418 0.966824295 1.166393061 0.984290331 1.047508027 1.051455141 1.057860669 1 11.37525473 -9.361353021 1.08334305 0.999983583 1.063278923 0.012237989 0.05871694 0.728650688 1.529307622 0.034852759 0.009039359 4.35E-10 9.361353021 0.063295341 EEETS(ph)IDVAGKPNEVTK ddPTM_HeLa_SAHA_4h_R1 2 EEETSIDVAGKPNEVTK 17 1 P53985 P53985 SLC16A1 Monocarboxylate transporter 1 1 0 EEET(0.339)S(0.661)IDVAGKPNEVTK;EEET(0.19)S(0.81)IDVAGKPNEVTK ; 71.073 0.010481 10457800 1860.19 4495.7 2739.5 1816.99 3350 2417.4 4051.2 2062.3 2275.3 2991.7 TRUE FALSE FALSE 2055.853319 4641.36363 3112.824793 1852.160469 3093.323724 2211.42392 3595.348314 2009.549352 2259.466002 3120.686828 0.658782323 1.48728914 0.997480672 0.593510522 0.991231704 0.708633721 1.152101608 0.643944575 0.724028436 1 11.60764787 -5.36563937 16.2985638 0.887382583 0.863851265 0.006992859 0.267644033 33.8167204 5213.279524 0.038985434 0.087175203 4.31E-06 5.36563937 -0.023531319 EEEWDPEYT(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 EEEWDPEYTPK 11 0 Q9NYF8-2;Q9NYF8;Q9NYF8-4;H0YF14;Q9Y2W1;A0A3B3ITZ9 Q9NYF8-2;Q9Y2W1 BCLAF1;THRAP3 Bcl-2-associated transcription factor 1;Thyroid hormone receptor-associated protein 3 1 0 EEEWDPEY(0.001)T(0.999)PK;EEEWDPEYT(1)PK;EEEWDPEYT(1)PK;EEEWDPEY(0.003)T(0.997)PK ;;; 151.55 0.00081541 107321000 12203.9 13803.7 10680.8 15169.9 19088.9 17068.5 15418 14923.6 20384.4 14089.6 TRUE FALSE FALSE 13487.5622 14250.94894 12136.3238 15463.53535 17626.31261 15614.16778 13683.12606 14541.87592 20242.5433 14697.07161 0.917704054 0.969645472 0.825764759 1.05215078 1.199307799 1.062399925 0.931010369 0.989440367 1.377318138 1 13.84324111 EEFASTCPDDEEIELAYEQVAK ddPTM_HeLa_SAHA_4h_R1 2 EEFASTCPDDEEIELAYEQVAK 22 0 O00299 O00299 CLIC1 Chloride intracellular channel protein 1 0 0 ; ; 189.34 4.29E-15 19303000 4086.6 4336.5 3848.4 4428.2 5101.1 4260.6 4597.8 4934.2 4578.2 3881.2 FALSE FALSE TRUE 4516.447338 4477.005445 4372.83991 4513.914214 4710.25482 3897.572911 4080.443443 4807.990309 4546.339933 4048.537526 1.115575022 1.105832765 1.080103589 1.114949333 1.163446007 0.962711321 1.00788085 1.187586944 1.122958576 1 11.98318513 -9.372957794 1.069794445 0.999443418 1.090243423 0 0.073206497 0.645265403 1.30844648 0.044321733 0.011165683 4.24E-10 9.372957794 0.090800005 EEFTAFLHPEEFEHMK ddPTM_HeLa_SAHA_4h_R1 1 EEFTAFLHPEEFEHMK 16 0 Q15293;Q15293-2;E9PP27 Q15293 RCN1 Reticulocalbin-1 0 0 63.709 0.01329 3295300 439.51 372.79 345.13 473.79 448.33 289.06 523.52 413.4 468.72 518.88 FALSE FALSE TRUE 485.7396783 384.8686406 392.162519 482.9608906 413.9790523 264.4304618 464.6121518 402.8258266 465.4581394 541.2514561 0.8974381 0.711071788 0.724547739 0.892304095 0.764855314 0.488553811 0.858403514 0.744248948 0.859966535 1 9.080155191 -7.596121592 0.807208974 0.981887136 0.731317441 0.306963584 0.11157235 0.330548809 0.457077368 0.028778018 0.027859537 2.53E-08 7.596121592 -0.250569694 EEGDLGPVYGFQWR ddPTM_HeLa_SAHA_4h_R1 2 EEGDLGPVYGFQWR 14 0 P04818-2;P04818 P04818-2 TYMS Thymidylate synthase 0 0 ; ; 183.85 5.93E-07 12999100 3065.5 2171.98 2633.7 2753.3 3032.2 2876 3049.9 1907.32 2871.3 2986.2 FALSE FALSE TRUE 3387.943355 2242.353577 2992.60692 2806.594103 2799.873491 2630.94862 2706.717225 1858.533516 2851.31839 3114.949696 1.087639829 0.719868311 0.960723996 0.901007842 0.898850307 0.844619938 0.868944121 0.596649608 0.91536579 1 11.60499315 -2.927021016 0.282296929 1.043126631 3.19E-14 0.365105678 0.104917339 9.864572282 0.323603862 0.047700025 4.114367305 0.001182984 2.927021016 -1.043126631 EEGGEGT(ph)PVKQDLSAPPGYTLTENVAR ddPTM_HeLa_SAHA_4h_R1 1 EEGGEGTPVKQDLSAPPGYTLTENVAR 27 1 Q9Y4B5;Q9Y4B5-2;Q9Y4B5-3;Q9Y4B5-4 Q9Y4B5 MTCL1 Microtubule cross-linking factor 1 1 0 EEGGEGT(1)PVKQDLSAPPGYTLTENVAR 55.994 0.010603 6817800 339.72 385.81 165.75 346 213.03 287.53 251.3 412.72 222.41 422.37 TRUE FALSE FALSE 375.4533083 398.3104971 188.3375468 352.6973303 196.7076874 263.0308264 223.0230626 402.16322 220.8622307 440.5804377 0.852178799 0.904058517 0.427475963 0.800528803 0.446473948 0.597009771 0.506202826 0.91280317 0.501298314 1 8.783261629 -6.848908248 8.302775808 0.927167222 0.610423092 0.10223455 0.197869984 0.144383571 12.16953822 0.022256584 0.029297387 1.42E-07 6.848908248 -0.31674413 EEGPAPCK(ac)QMK ddPTM_HeLa_SAHA_4h_R1 2 EEGPAPCKQMK 11 1 D6RCB6;Q8IUF8-2;Q8IUF8-4;Q8IUF8 D6RCB6 MINA Bifunctional lysine-specific demethylase and histidyl-hydroxylase MINA 0 1 ; EEGPAPCK(1)QMK;EEGPAPCK(1)QMK 174.41 3.29E-11 3629900 985.09 1561.03 993.05 1589.24 2012.8 2095.27 2003.68 1202.91 1263.04 867.57 FALSE TRUE FALSE 1088.706286 1611.608396 1128.377682 1620.002038 1858.579699 1916.741208 1778.220653 1172.141304 1254.250402 904.9751885 1.203023353 1.780831582 1.246860352 1.790106578 2.053735531 2.118004154 1.96493857 1.295219271 1.385950043 1 9.821734428 -7.047716898 0.760068266 1.044591635 1.877423487 0.423215205 0.289656325 0.282008399 0.332180337 0.064098776 0.087578052 8.96E-08 7.047716898 0.832831852 EEGPPPPSPDGAS(ph)SDAEPEPPSGR ddPTM_HeLa_SAHA_4h_R1 1 EEGPPPPSPDGASSDAEPEPPSGR 24 0 C9JWF0;C9IYK2;C9JJ64;C9JR83;Q9NTJ3-2;Q9NTJ3;F8WCB7;E9PD53 C9JWF0 SMC4 Structural maintenance of chromosomes protein 4;Structural maintenance of chromosomes protein 1 0 EEGPPPPSPDGAS(0.57)S(0.43)DAEPEPPSGR 154.71 1.33E-07 7172500 1312.6 1722.3 1375.3 1348.7 1968.4 1887.5 1679.1 1441.6 1365 1471.8 TRUE FALSE FALSE 1450.66529 1778.10365 1562.718722 1374.806039 1817.581617 1726.674381 1490.163249 1404.725959 1355.500854 1535.256501 0.944900927 1.15818018 1.017887709 0.895489476 1.183894428 1.124681368 0.970628197 0.914978024 0.882914909 1 10.584264 EEGPPPPSPDGASS(ph)DAEPEPPSGR ddPTM_HeLa_SAHA_4h_R1 1 EEGPPPPSPDGASSDAEPEPPSGR 24 0 C9JWF0;C9IYK2;C9JJ64;C9JR83;Q9NTJ3-2;Q9NTJ3;F8WCB7;E9PD53 C9JWF0 SMC4 Structural maintenance of chromosomes protein 4;Structural maintenance of chromosomes protein 1 0 EEGPPPPSPDGAS(0.208)S(0.792)DAEPEPPSGR 141.38 4.81E-07 5942600 854.41 847 693.65 689.74 903.18 1129.7 939.22 719.71 903.31 954.38 TRUE FALSE FALSE 944.280764 874.4433557 788.1770096 703.0909151 833.9785435 1033.443204 833.5364937 701.3008603 897.0237922 995.5279924 0.948522564 0.878371439 0.791717577 0.706249267 0.837724855 1.038085531 0.83728082 0.704451171 0.901053309 1 9.959318072 -7.242536919 2.098476996 0.979227812 0.826155366 0.277061221 0.09097932 0.258451214 2.158911146 0.016768039 0.020019947 5.72E-08 7.242536919 -0.153072446 EEGS(ph)DIEDEDMEELLNDTR ddPTM_HeLa_SAHA_4h_R1 4 EEGSDIEDEDMEELLNDTR 19 0 F5H5U2;Q8NHQ9-2;Q8NHQ9 F5H5U2 DDX55 ATP-dependent RNA helicase DDX55 1 0 EEGS(0.935)DIEDEDMEELLNDT(0.065)R;EEGS(1)DIEDEDMEELLNDTR;EEGS(1)DIEDEDMEELLNDTR;EEGS(1)DIEDEDMEELLNDTR ;;; 240.34 3.72E-41 18170500 2527.75 2480.82 1939.2 1934.76 2738.27 3148.62 2809.37 2753.45 2861.32 2574.56 TRUE FALSE FALSE 2793.630343 2561.200196 2203.464077 1972.210078 2528.464344 2880.339862 2493.252294 2683.020736 2841.407841 2685.561881 1.04024054 0.953692489 0.820485312 0.734375213 0.941502917 1.072527832 0.928391303 0.999053775 1.058031044 1 11.39100825 -7.0672215 5.390260021 1.018450317 0.914399999 0.256576738 0.087642013 0.257457843 14.45355605 0.015588823 0.01930933 8.57E-08 7.0672215 -0.104050318 EEHGGLIR ddPTM_HeLa_SAHA_4h_R1 2 EEHGGLIR 8 0 P26368;P26368-2 P26368 U2AF2 Splicing factor U2AF 65 kDa subunit 0 0 ; ; 143.89 3.23E-05 1759500 3923.2 4018.1 3385.4 4750 3801.6 3194.2 4361.8 3583.2 5037.3 4613.8 FALSE FALSE TRUE 4335.860176 4148.289076 3846.744682 4841.943119 3510.322229 2922.03619 3870.998784 3491.546932 5002.245019 4812.723497 0.900916119 0.861942116 0.799286451 1.006071328 0.729383733 0.607148155 0.80432603 0.725482554 1.039379267 1 12.23263782 -6.001172856 0.25838675 1.014384915 0.615331534 0.593767576 0.085291967 2.061050484 0.252920899 0.080451972 0.272101308 9.97E-07 6.001172856 -0.399053381 EEHGGLIRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 EEHGGLIRSPR 11 1 P26368;P26368-2 P26368 U2AF2 Splicing factor U2AF 65 kDa subunit 1 0 EEHGGLIRS(1)PR 67.952 0.023127 12096000 2449.8 2584.1 1944.7 2102.4 2333 1519.1 2485.9 2354 2928.3 2505.7 TRUE FALSE FALSE 2707.481204 2667.826535 2209.713588 2143.094992 2154.246044 1389.664134 2206.179989 2293.788089 2907.921722 2613.73299 1.035867556 1.020695896 0.845424379 0.819936467 0.824202798 0.531677926 0.844072443 0.877590824 1.112555006 1 11.35189605 -6.564696794 1.879025239 1.019130823 0.767008246 0.628845153 0.094745371 0.162953727 1.159044724 0.014820786 0.02309903 2.72E-07 6.564696794 -0.252122576 EEHLCTQR ddPTM_HeLa_SAHA_4h_R1 2 EEHLCTQR 8 0 J3KN67;P06753-7;P06753-2;A0A087WWU8;P06753-5 J3KN67;P06753-2 TPM3 Tropomyosin alpha-3 chain 0 0 ; ; 150.36 0.00028563 12184300 4643.3 4810.8 3789.4 5272.5 5344.4 2773.5 4911 4717.7 5741.5 4379.5 FALSE FALSE TRUE 5131.703598 4966.673076 4305.799698 5374.556862 4934.913227 2537.182197 4358.401355 4597.028065 5701.544434 4568.321678 1.12332361 1.087198632 0.942534261 1.176483891 1.080246439 0.555386064 0.954048699 1.006283793 1.248061068 1 12.15744853 EEIDHAEYYLYK ddPTM_HeLa_SAHA_4h_R1 2 EEIDHAEYYLYK 12 0 E5RJ73;D6RJC7;D6RH20;G5EA06;Q92552;Q92552-2 E5RJ73 MRPS27 "28S ribosomal protein S27, mitochondrial" 0 0 ; ; 131.37 0.0010842 10234100 5666.1 7857.2 6178.2 5905.8 7916.5 6280.4 8199.8 5871.8 7248.3 6654.7 FALSE FALSE TRUE 6262.086395 8111.778435 7020.132921 6020.115299 7309.93948 5745.274587 7277.136923 5721.607858 7197.85849 6941.616684 0.902107777 1.168571934 1.011310944 0.867249745 1.053060089 0.82765656 1.048334596 0.824247163 1.036913851 1 12.76105599 -5.265676786 24.8649928 0.972800973 0.914904959 0.13089658 0.100436171 752.5373272 4415882.824 0.013823269 0.03195626 5.42E-06 5.265676786 -0.057896014 EEIFRES(ph)PIPIEIPPAAVPSYVPESR ddPTM_HeLa_SAHA_4h_R1 2 EEIFRESPIPIEIPPAAVPSYVPESR 26 1 Q5TC82-2;Q5TC82 Q5TC82-2 RC3H1 Roquin-1 1 0 EEIFRES(1)PIPIEIPPAAVPSYVPESR;EEIFRES(1)PIPIEIPPAAVPSYVPESR ; 63.893 0.00093596 10852300 1054.62 1007.56 1055.75 1196.43 1115.57 1117.44 1147.68 1379.28 1173.3 1193.13 TRUE FALSE FALSE 1165.54977 1040.205605 1199.622112 1219.588633 1030.095268 1022.227825 1018.540026 1344.000015 1165.13491 1244.571673 0.936506748 0.835794055 0.963883509 0.979926395 0.827670507 0.821349101 0.818385994 1.079889607 0.936173412 1 10.2814336 -8.278517688 0.559449213 1.000813229 0.894951377 0.051232015 0.083614132 1.021052144 0.703810635 0.047902615 0.023510863 5.27E-09 8.278517688 -0.105861853 EEIQETQT(ph)PTHSR ddPTM_HeLa_SAHA_4h_R1 2 EEIQETQTPTHSR 13 0 H7BZL0;Q9BYG3 H7BZL0 NIFK MKI67 FHA domain-interacting nucleolar phosphoprotein 1 0 EEIQET(0.001)QT(0.998)PT(0.001)HSR;EEIQETQT(0.999)PT(0.001)HSR ; 122.96 0.0011707 11304100 2480.4 2751.3 2297.9 4865 3199.2 3017.3 2554.5 3187.8 5048.6 3378.5 TRUE FALSE FALSE 2741.299852 2840.443925 2611.045845 4959.16911 2954.077987 2760.209065 2267.060937 3106.260692 5013.466382 3524.163669 0.777858269 0.805990922 0.740898009 1.407190351 0.838235186 0.783223858 0.64329048 0.881417829 1.422597488 1 11.78306521 -9.53054102 1.311433998 0.99941015 0.851718307 0.152543487 0.237228615 1.042483451 3.231134139 0.135120554 0.032851725 2.95E-10 9.53054102 -0.147691844 EEK(ac)CEFLPFLSPR ddPTM_HeLa_SAHA_4h_R1 2 EEKCEFLPFLSPR 13 1 Q12882 Q12882 DPYD Dihydropyrimidine dehydrogenase [NADP(+)] 0 1 ; EEK(1)CEFLPFLSPR;EEK(1)CEFLPFLSPR 120.14 0.002004 577810 0 0 0 153.98 145.66 187.24 90.648 0 0 0 FALSE TRUE FALSE 0 0 0 156.9605056 134.4995623 171.2860986 80.44804847 0 0 0 0 EEKESEDKPEIEDVGS(ph)DEEEEK ddPTM_HeLa_SAHA_4h_R1 1 EEKESEDKPEIEDVGSDEEEEK 22 2 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 1 0 EEKESEDKPEIEDVGS(1)DEEEEK 98.967 0.00014789 3593500 382.01 562.28 400.02 468.37 390.46 552.29 447.1 288.47 790.54 297.83 TRUE FALSE FALSE 422.1915645 580.4982409 454.5326424 477.4359786 360.5430392 505.2317849 396.7911313 281.0913551 785.0385678 310.6709088 1.358967166 1.868531055 1.463067926 1.536790105 1.160530416 1.626260363 1.277207231 0.904788144 2.526913674 1 8.279243344 -8.747294539 0.998034448 1.031567212 1.408863299 0 0.532641128 0.485797876 0.965839033 0.103425229 0.049146358 1.79E-09 8.747294539 0.377296087 EEKREEDEENDNDNESDHDEADS(ph) ddPTM_HeLa_SAHA_4h_R1 1 EEKREEDEENDNDNESDHDEADS 23 2 H0YBP8;Q9NRG0 H0YBP8 CHRAC1 Chromatin accessibility complex protein 1 1 0 EEKREEDEENDNDNES(0.103)DHDEADS(0.897) 58.564 0.0084221 7893300 1023.7 1246.8 782.81 895.94 1107.6 1175.5 1319.1 853.2 1006.7 921.72 TRUE FALSE FALSE 1131.377463 1287.197138 889.4872701 913.2822143 1022.735927 1075.340787 1170.671396 831.3763794 999.6942927 961.45986 1.176728754 1.338794464 0.925142387 0.949891152 1.06373232 1.118445846 1.217597785 0.86470212 1.039767061 1 9.909082817 EEKS(ph)VEYEGDLK ddPTM_HeLa_SAHA_4h_R1 2 EEKSVEYEGDLK 12 1 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0;H7C3N7 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 EEKS(0.999)VEY(0.001)EGDLK;EEKS(1)VEYEGDLK ; 143.97 0.0023394 41264600 2610.76 2130.98 2124.33 2901.36 3013.48 3223.5 3020.1 2907.92 2715.99 2438.03 TRUE FALSE FALSE 2885.371715 2200.02515 2413.822629 2957.520018 2782.587813 2948.839665 2680.2704 2833.539617 2697.089204 2543.145405 1.134568126 0.865080363 0.949148493 1.162937838 1.094152072 1.159524603 1.053919447 1.114187027 1.060532834 1 11.31239824 -6.239613456 24.91248023 1.03931802 1.114542166 0.310007436 0.076167203 1192.207708 1360807.25 0.013427211 0.022254793 5.76E-07 6.239613456 0.075224146 EELDFQK ddPTM_HeLa_SAHA_4h_R1 1 EELDFQK 7 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 127.12 0.012492 7481400 2520.4 1959.6 1449.9 2227.2 1713.4 2392.4 2230.9 1973.5 2642.4 2054.5 FALSE FALSE TRUE 2785.507236 2023.092326 1647.484821 2270.310677 1582.119662 2188.554061 1979.873261 1923.020728 2624.011323 2143.079549 1.299768474 0.944011773 0.768746462 1.059368364 0.738245887 1.021219236 0.923844969 0.897316541 1.224411536 1 11.06546969 -7.096064072 7.563752086 1.141224843 0.903538637 0.520928489 0.11667471 0.207718836 14.51931942 0.022583546 0.027712708 8.02E-08 7.096064072 -0.237686205 EELDQYK ddPTM_HeLa_SAHA_4h_R1 2 EELDQYK 7 0 A0A3B3IRX4;Q5SXQ8;A0A1B0GUT5;A0A6E2AE84;Q8IYJ2 A0A3B3IRX4 C10orf67 Uncharacterized protein C10orf67 0 0 ; ; 132.29 0.0066613 60874000 2842.8 4265.8 2756.9 3201.2 4612.2 5099.1 4274.6 3398.3 4870.1 3219.3 FALSE FALSE TRUE 3141.818747 4404.014719 3132.595975 3263.163855 4258.814232 4664.627993 3793.610758 3311.376407 4836.208578 3358.099778 0.935594221 1.311460353 0.932847795 0.971729273 1.268221469 1.389067717 1.129689708 0.986086366 1.440162264 1 11.71342938 -6.562628262 0.780497485 0.974281351 1.179953815 0 0.210530801 0.698695994 0.85290553 0.03273499 0.0620309 2.74E-07 6.562628262 0.205672464 EELEEMLVEK ddPTM_HeLa_SAHA_4h_R1 1 EELEEMLVEK 10 0 H7BZC4;P82933 H7BZC4 MRPS9 "28S ribosomal protein S9, mitochondrial" 0 0 116.73 0.0029419 0 756.51 575.13 693.06 678.63 858.7 854.57 829.74 932.11 758.38 571.28 FALSE FALSE TRUE 836.0831928 593.7645894 787.5066075 691.765865 792.9065915 781.7558283 736.3754714 908.2679759 753.1023718 595.9106766 1.403034424 0.996398643 1.321517869 1.160854961 1.330579603 1.311867464 1.235714513 1.524167986 1.263783989 1 9.218952285 -9.491741353 1.125824552 0.993208714 1.287458374 0.035898829 0.154922907 0.420422812 0.916922869 0.100833577 0.022313208 3.22E-10 9.491741353 0.29424966 EELEFEVPFR ddPTM_HeLa_SAHA_4h_R1 1 EELEFEVPFR 10 0 Q9Y5B9 Q9Y5B9 SUPT16H FACT complex subunit SPT16 0 0 193.38 2.94E-06 6870000 1457.2 1124.8 946.47 1158 1293.2 1561.6 1371.1 992.79 1681.8 1338.7 FALSE FALSE TRUE 1610.474982 1161.244258 1075.450003 1180.414764 1194.115295 1428.542895 1216.820219 967.3958693 1670.096217 1396.417908 1.153290123 0.831587916 0.770149105 0.845316261 0.855127457 1.023005281 0.871386862 0.692769595 1.195985963 1 10.44751505 -7.250874189 24.47708822 1.072387003 0.847423543 0.632854133 0.094164132 299.6035712 694111.9306 0.016161749 0.019677864 5.61E-08 7.250874189 -0.22496346 EELGLIEQAYDNPHEALSR ddPTM_HeLa_SAHA_4h_R1 1 EELGLIEQAYDNPHEALSR 19 0 Q6P2Q9;I3L0J9 Q6P2Q9 PRPF8 Pre-mRNA-processing-splicing factor 8 0 0 168.62 1.09E-06 3209400 804.46 670.05 554.95 701.62 721.14 889.89 919.04 645.22 837.04 760.17 FALSE FALSE TRUE 889.0767938 691.7600596 630.5756959 715.2008697 665.886409 814.0663656 815.6272004 628.7162067 831.2149705 792.9446489 1.12123437 0.872393881 0.795232929 0.901955604 0.839764049 1.026637063 1.028605466 0.792887886 1.048263547 1 9.631076353 -7.25299421 24.95010671 1.057249564 0.898639448 0.453229145 0.081712496 446.8580257 1320182.216 0.014939282 0.01814303 5.58E-08 7.25299421 -0.158610116 EELIAELQDCEGLIVR ddPTM_HeLa_SAHA_4h_R1 1 EELIAELQDCEGLIVR 16 0 A0A286YF22;A0A2C9F2M7;O43175;A0A286YFL2;A0A286YFA2;A0A286YFM8;A0A286YF34;A0A286YER3;A0A286YFC8;A0A286YFB2 A0A286YF22 PHGDH D-3-phosphoglycerate dehydrogenase 0 0 150.21 1.42E-08 0 230.31 269.97 226.97 307.53 302.53 367.01 157.32 225.27 323.78 241.46 FALSE FALSE TRUE 254.5350625 278.7172051 257.9002896 313.4826878 279.3502168 335.7386833 139.6179396 219.5079196 321.5267886 251.8705223 1.010579008 1.106589221 1.023939948 1.244618406 1.109102464 1.332981249 0.554324255 0.871510956 1.27655585 1 7.976538476 -4.748910872 24.99990195 1.055827976 0.71291762 0.513116576 0.149357476 136.2197234 271813.3777 0.018379395 0.067809571 1.78E-05 4.748910872 -0.342910356 EELMESR ddPTM_HeLa_SAHA_4h_R1 1 EELMESR 7 0 P20700;E9PBF6;A0A0D9SFE5 P20700 LMNB1 Lamin-B1 0 0 124.59 0.016221 6038000 3457.8 3109.2 2403.3 2931.9 3120 3599.9 3482 3391 3052.5 3220.5 FALSE FALSE TRUE 3821.507269 3209.94012 2730.809208 2988.651164 2880.946274 3293.168268 3090.196196 3304.26313 3031.257404 3359.351516 1.137572907 0.955523739 0.812897726 0.889651217 0.857590002 0.980298802 0.919878787 0.983601482 0.902334093 1 11.71396705 -7.060111581 6.456004045 1.064459801 0.906182663 0.199990566 0.07670835 0.133216811 11.48033529 0.011513586 0.014207285 8.71E-08 7.060111581 -0.158277139 EELMS(ph)SDLEETAGSTSIPK ddPTM_HeLa_SAHA_4h_R1 1 EELMSSDLEETAGSTSIPK 19 0 O00567 O00567 NOP56 Nucleolar protein 56 1 0 EELMS(0.568)S(0.432)DLEETAGSTSIPK 162.65 2.83E-06 5185000 1397.9 1953.8 1249 1596.7 1939.8 2217.9 1895.1 1822.4 2930.4 2055.8 TRUE FALSE FALSE 1544.937536 2017.104402 1419.207215 1627.606437 1791.172943 2028.922442 1681.85836 1775.785647 2910.007108 2144.435599 0.720440165 0.940622513 0.661809203 0.758990589 0.83526544 0.946133539 0.784289517 0.828089987 1.357003731 1 11.06638227 -9.483346617 1.184731867 1.001623462 0.802181341 0.417545324 0.143072846 0.37195601 0.921754262 0.061360651 0.014502384 3.29E-10 9.483346617 -0.199442121 EELMS(ph)SDLEETAGSTSIPKR ddPTM_HeLa_SAHA_4h_R1 2 EELMSSDLEETAGSTSIPKR 20 1 O00567 O00567 NOP56 Nucleolar protein 56 1 0 EELMS(0.5)S(0.5)DLEET(0.001)AGSTSIPKR;EELMS(0.5)S(0.5)DLEETAGSTSIPKR ; 122.3 8.49E-05 21936000 1562.96 1458.87 1222.96 1829.49 1797.2 1678.93 2106.49 1747.52 1988.79 1615.59 TRUE FALSE FALSE 1727.359304 1506.138345 1389.61862 1864.902424 1659.498924 1535.875719 1869.462201 1702.820969 1974.949848 1685.245991 1.024989416 0.893720177 0.824579098 1.106605465 0.984722072 0.911365893 1.109311169 1.010428731 1.171905976 1 10.71874348 -3.301237215 13.35045844 0.996911172 1.011270753 0 0.102021432 0 0 0.010982652 0 0.000499761 3.301237215 0.01435958 EELMSS(ph)DLEETAGSTSIPK ddPTM_HeLa_SAHA_4h_R1 2 EELMSSDLEETAGSTSIPK 19 0 O00567 O00567 NOP56 Nucleolar protein 56 1 0 EELMS(0.155)S(0.845)DLEETAGSTSIPK;EELMS(0.179)S(0.821)DLEETAGSTSIPK ; 173.19 4.03E-09 8589800 4143.2 6150.2 3898.3 5099.4 5268.6 6568.6 4989.8 5160.5 8466.3 5698.9 TRUE FALSE FALSE 4579.000786 6349.470515 4429.540023 5198.106261 4864.921006 6008.918326 4428.334572 5028.501882 8407.382329 5944.607469 0.770278073 1.068105934 0.74513583 0.874423801 0.818375483 1.010818352 0.74493305 0.845893006 1.414287213 1 12.53736583 -9.568631534 1.315446891 1.000830565 0.851118085 0.26394479 0.167592446 0.519151078 1.595574328 0.069767907 0.015984088 2.70E-10 9.568631534 -0.14971248 EELMSS(ph)DLEETAGSTSIPKR ddPTM_HeLa_SAHA_4h_R1 2 EELMSSDLEETAGSTSIPKR 20 1 O00567 O00567 NOP56 Nucleolar protein 56 1 0 EELMS(0.212)S(0.788)DLEETAGSTSIPKR;EELMS(0.232)S(0.768)DLEETAGSTSIPKR ; 226.72 5.98E-33 20841000 2393.99 2518.03 2152.41 2417.2 2549.42 2946.39 2811.45 3063.31 2939.17 2609.26 TRUE FALSE FALSE 2645.800852 2599.615824 2445.729226 2463.988401 2354.08399 2695.340996 2495.098247 2984.954966 2918.716077 2721.757968 0.972092627 0.955123804 0.898584391 0.905292987 0.864913052 0.990294151 0.916723043 1.096701103 1.072364299 1 11.41032307 -7.5433513 1.591665267 0.990509947 0.9406849 0.156083325 0.065707606 0.561162734 2.854437621 0.011828386 0.012533167 2.86E-08 7.5433513 -0.049825047 EELQANGSAPAADKEEPAAAGS(ph)GAASPSAAEK ddPTM_HeLa_SAHA_4h_R1 1 EELQANGSAPAADKEEPAAAGSGAASPSAAEK 32 1 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 EELQANGSAPAADKEEPAAAGS(0.575)GAAS(0.306)PS(0.12)AAEK 105.98 5.77E-10 20419000 1219.1 1894.5 1337.7 1356.4 2046.2 2072.1 1332.4 815.72 3034.1 1574.5 TRUE FALSE FALSE 1347.330531 1955.883043 1519.99479 1382.655083 1889.420598 1895.545423 1182.474845 794.8550635 3012.985451 1642.3844 0.820350297 1.190880188 0.925480533 0.841858388 1.150413142 1.154142369 0.719974474 0.483964085 1.834519038 1 10.68157611 -4.531761481 5.077715823 0.958365439 0.529951476 0.210815044 0.305847334 0.091731485 6.873529651 0.019585845 0.089294076 2.94E-05 4.531761481 -0.428413963 EELQANGSAPAADKEEPAAAGSGAAS(ph)PSAAEK ddPTM_HeLa_SAHA_4h_R1 1 EELQANGSAPAADKEEPAAAGSGAASPSAAEK 32 1 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 EELQANGSAPAADKEEPAAAGS(0.167)GAAS(0.667)PS(0.167)AAEK 95.111 1.01E-08 18771000 457.46 725.08 332.47 401.84 679.1 903.02 406.34 449.54 795.4 650.81 TRUE FALSE FALSE 505.5777417 748.5730677 377.7772802 409.6181943 627.0675047 826.0776157 360.6175538 438.0414177 789.8647466 678.8696041 0.744734686 1.102675776 0.556479886 0.603382729 0.923693594 1.216842838 0.531202976 0.645251187 1.163499944 1 9.406990681 -9.609551981 0.642761151 1.053379183 0.788169032 0.196027718 0.224380868 2.620461154 1.294289105 0.42916465 0.046807409 2.46E-10 9.609551981 -0.265210151 EENMDTS(ph)NTSISK ddPTM_HeLa_SAHA_4h_R1 1 EENMDTSNTSISK 13 0 Q4G0J3;Q4G0J3-3;H0YA82;D6RFF0 Q4G0J3 LARP7 La-related protein 7 1 0 EENMDT(0.191)S(0.808)NT(0.001)SISK 144.8 3.08E-07 0 914.12 795.24 791.12 646.79 1100.6 1030.3 792.41 757.3 1087.4 890.27 TRUE FALSE FALSE 1010.271336 821.0062978 898.9297136 659.3095557 1016.272266 942.5126437 703.2459413 737.9293626 1079.832695 928.6538966 1.087887898 0.884082112 0.967992184 0.709962622 1.094349864 1.014923479 0.757274528 0.794622588 1.162793479 1 9.858997203 -7.252203291 24.32513172 1.041502619 0.892850947 0.343904873 0.118865499 457.2796138 1204339.505 0.019003763 0.023096954 5.59E-08 7.252203291 -0.148651672 EENPES(ph)DGEPVVEDGTSVK ddPTM_HeLa_SAHA_4h_R1 2 EENPESDGEPVVEDGTSVK 19 0 Q13439-3;Q13439-4;Q13439;Q13439-5;E7EVX2;H0Y6I0;A0A087WTW2 Q13439-3 GOLGA4 Golgin subfamily A member 4 1 0 EENPES(1)DGEPVVEDGTSVK;EENPES(1)DGEPVVEDGTSVK ; 225.69 2.49E-32 16064400 3837.5 5069 3153.8 3963.6 4379.9 5745.8 4036.9 3310.36 5668.5 3977.1 TRUE FALSE FALSE 4241.145857 5233.238926 3583.58344 4040.321209 4044.313008 5256.225515 3582.657387 3225.685785 5629.052447 4148.572244 1.022314572 1.261455416 0.863811265 0.973906436 0.974868646 1.266996259 0.863588043 0.777541186 1.356864992 1 12.01839919 -4.539137126 24.99493326 1.028093159 0.799052749 0.259141435 0.159269115 156.2855068 240266.6879 0.015593229 0.058376116 2.89E-05 4.539137126 -0.229040409 EENTSNESTDVTK(ac)GDSK(ac)NAK ddPTM_HeLa_SAHA_4h_R1 1 EENTSNESTDVTKGDSKNAK 20 2 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 0 2 EENTSNESTDVTK(1)GDSK(1)NAK 200.99 8.67E-29 0 414.58 593.28 382.37 412.34 326.96 409.35 433.25 372.53 623.97 520.91 FALSE TRUE FALSE 458.1874266 612.5026613 434.4773923 420.321437 301.9083954 374.4710771 384.4995697 363.001222 619.627742 543.3689794 0.843234421 1.127231558 0.799599184 0.773546987 0.555623171 0.689165358 0.707621495 0.66805658 1.140344343 1 9.085788395 -6.303965583 2.42316069 0.938670789 0.665529433 0.670919838 0.107957524 0.137619703 1.584889552 0.014701209 0.024579713 4.97E-07 6.303965583 -0.273141356 EENTSNESTDVTK(ac)GDSK(ac)NAK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 EENTSNESTDVTKGDSKNAKK 21 3 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 0 3 EENTSNESTDVTK(1)GDSK(1)NAK(1)K 195.25 2.33E-29 8551600 776.29 942.65 1110.3 1091.2 1239.9 1519.1 1068.8 1052.5 862 773.54 FALSE TRUE FALSE 857.9437439 973.1924785 1261.605902 1112.321754 1144.89913 1389.664134 948.5358111 1025.578574 856.0012718 806.891095 1.063270805 1.206101399 1.563539255 1.378527735 1.418901679 1.722244975 1.175543784 1.271024777 1.060863451 1 9.656230158 -7.034944 3.177054467 1.030156384 1.421827614 0.590266197 0.142336757 0.121468917 2.487043226 0.023805669 0.030422492 9.23E-08 7.034944 0.39167123 EENTSNESTDVTK(ac)GDSKNAK ddPTM_HeLa_SAHA_4h_R1 1 EENTSNESTDVTKGDSKNAK 20 2 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 0 1 EENTSNESTDVTK(0.859)GDSK(0.141)NAK 77.969 0.0042811 5925800 187.58 0 81.68 0 0 0 0 0 0 0 FALSE TRUE FALSE 207.310525 0 92.81092503 0 0 0 0 0 0 0 0 EENTSNESTDVTKGDSK(ac)NAK ddPTM_HeLa_SAHA_4h_R1 1 EENTSNESTDVTKGDSKNAK 20 2 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 0 1 EENTSNESTDVTKGDSK(1)NAK 232.51 4.88E-49 7043300 4307.7 3667.5 2151.2 1814.2 1918.5 2007.7 1813.6 1968 5729.6 5158.3 FALSE TRUE FALSE 4760.80365 3786.329406 2444.354333 1849.316464 1771.504944 1836.632665 1609.528955 1917.66141 5689.727247 5380.699557 0.884792693 0.7036872 0.454281884 0.343694429 0.329233202 0.341337152 0.299130055 0.356396299 1.057432623 1 12.39357804 -6.913374196 1.271824079 0.959083562 0.322331931 0.981933809 0.038789137 0.030907056 0.09893963 0.006295179 0.008752405 1.22E-07 6.913374196 -0.636751631 down EENTSNESTDVTKGDSK(ac)NAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EENTSNESTDVTKGDSKNAKK 21 3 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 0 2 ; EENTSNESTDVTKGDSK(1)NAK(1)K;EENTSNESTDVTK(0.003)GDSK(0.997)NAK(1)K 233.59 4.42E-61 20950300 3725.6 3482.2 2821.1 2924.5 3527.5 3638.5 3186.3 3180.8 4270 4713.1 FALSE TRUE FALSE 4117.475702 3595.025565 3205.544816 2981.107926 3257.223712 3328.47933 2827.769138 3099.439742 4240.284722 4916.304806 0.837514325 0.731245459 0.652023205 0.606371664 0.66253494 0.677028675 0.575181818 0.630440923 0.862494269 1 12.26335865 -7.530357856 0.59650272 0.981361002 0.612395585 0.85297818 0.0491325 0.112227887 0.091320565 0.013659253 0.013141678 2.95E-08 7.530357856 -0.368965417 EENVGLHQTLDQTLNELNCI ddPTM_HeLa_SAHA_4h_R1 2 EENVGLHQTLDQTLNELNCI 20 0 P67936;P67936-2;K7ENT6;A0A2R8YE05;A0A5F9UN72;K7EPB9 P67936 TPM4 Tropomyosin alpha-4 chain 0 0 ; ; 128.76 0.00037007 2447600 1457.36 1429.86 884 1414.37 2053.86 2049.21 1971.75 1588.6 2062.98 1100.61 FALSE FALSE TRUE 1610.651811 1476.188402 1004.466916 1441.747177 1896.493691 1874.605779 1749.883501 1547.965912 2048.623554 1148.062683 1.402930201 1.285808191 0.874923409 1.255808762 1.65190779 1.632842707 1.524205539 1.348328741 1.784417858 1 10.1649857 -12.24340113 0.089573035 2.76E-12 1.77236542 0 0.305217659 96.9117327 0.869590751 21.71981952 3.13553317 5.71E-13 12.24340113 1.77236542 EEPCLLK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 EEPCLLKR 8 1 P21333-2;P21333;Q60FE5;H0Y5F3;H7C2E7 P21333-2 FLNA Filamin-A 0 1 ; EEPCLLK(1)R;EEPCLLK(1)R 101.28 0.0040617 5694700 1036.56 2323.1 1376.89 1514.3 2461.2 1781.87 2403.9 1933.11 1286.97 788.08 FALSE TRUE FALSE 1145.590137 2398.369964 1564.525399 1543.611466 2272.623388 1630.044651 2133.406845 1883.663845 1278.013871 822.0579856 1.393563662 2.91751921 1.903181316 1.87774037 2.76455363 1.982882814 2.595202386 2.291400216 1.554651732 1 9.683096351 -7.423728448 5.409560382 1.169805913 2.310903193 0.622562804 0.360770577 0.088055958 3.804560287 0.058138038 0.065866693 3.77E-08 7.423728448 1.14109728 EEPDSENIPQELLSNLGHPES(ph)PPR ddPTM_HeLa_SAHA_4h_R1 4 EEPDSENIPQELLSNLGHPESPPR 24 0 D6RF40;D6RAG5;D6R9R7;A0A0A0MTL5;Q13309-2;Q13309 D6RF40 SKP2 S-phase kinase-associated protein 2 1 0 EEPDSENIPQELLS(0.075)NLGHPES(0.925)PPR;EEPDSENIPQELLS(0.01)NLGHPES(0.99)PPR;EEPDSENIPQELLS(0.007)NLGHPES(0.993)PPR;EEPDSENIPQELLS(0.001)NLGHPES(0.999)PPR ;;; 125.61 1.44E-06 51007000 2701.64 4586.42 2196.34 3701.54 4708.98 3733.88 4341.97 3657.55 5328.03 4760.8 TRUE FALSE FALSE 2985.810891 4735.023017 2495.645777 3773.188659 4348.17897 3415.732418 3853.400108 3563.995167 5290.951805 4966.061387 0.601243251 0.953476538 0.502540259 0.75979501 0.875578981 0.687815182 0.775946934 0.717670381 1.065422151 1 12.27788638 -9.504786236 1.216334068 1.002031367 0.723850099 0.475141887 0.123137706 0.359269555 0.940025319 0.084358003 0.019796064 3.13E-10 9.504786236 -0.278181268 EEPEALY(ph)AAVNK ddPTM_HeLa_SAHA_4h_R1 1 EEPEALYAAVNK 12 0 A0A087WVF7;Q9NZM3-4;Q9NZM3-3;Q9NZM3-2;Q9NZM3 A0A087WVF7 ITSN2 Intersectin-2 1 0 EEPEALY(1)AAVNK 166.97 0.00025126 5792500 746.63 1000.8 685.45 1276.2 1447.8 1245.4 1233.1 1096.5 1815.7 814 TRUE FALSE FALSE 825.1639691 1033.226577 778.8595563 1300.902696 1336.869877 1139.284914 1094.348343 1068.453118 1803.064396 849.0955236 0.971815239 1.216855522 0.91728143 1.532104057 1.574463461 1.341762949 1.28884008 1.258342658 2.123511838 1 9.729783057 -6.265599409 24.99990308 1.002544103 1.399533676 0 0.373419245 141.7723383 851987.6294 0.018582831 0.029019471 5.43E-07 6.265599409 0.396989573 EEPFFPPPEEFVFIHAVPVEER ddPTM_HeLa_SAHA_4h_R1 2 EEPFFPPPEEFVFIHAVPVEER 22 0 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 0 0 ; ; 189.11 4.41E-15 21650900 6788.9 4337.54 4182.6 5800.3 4356.6 7283.9 6572.1 5035.9 7318.4 5454.3 FALSE FALSE TRUE 7502.987651 4478.079142 4752.582946 5912.573194 4022.798249 6663.270742 5832.590011 4907.08897 7267.470659 5689.461566 1.318751795 0.787083117 0.835330882 1.039214893 0.707061328 1.171160164 1.025156765 0.86248741 1.277356491 1 12.47407641 -7.256795183 24.99884937 1.15052168 0.925400299 0.407866112 0.151400913 383.9037766 2066484.635 0.028182553 0.03392193 5.54E-08 7.256795183 -0.225121382 EEPLS(ph)EEEPCTSTAIAS(ph)PEK ddPTM_HeLa_SAHA_4h_R1 3 EEPLSEEEPCTSTAIASPEK 20 0 Q9Y2X3 Q9Y2X3 NOP58 Nucleolar protein 58 2 0 EEPLS(1)EEEPCT(0.004)S(0.009)T(0.008)AIAS(0.979)PEK;EEPLS(1)EEEPCTS(0.001)T(0.017)AIAS(0.982)PEK;EEPLS(1)EEEPCTSTAIAS(1)PEK ;; 120.61 0.00036821 18278900 4698.51 6627.6 3541.1 4972.2 5660.17 7727.4 5578.71 5118.05 8292.9 6146.2 TRUE FALSE FALSE 5192.720839 6842.338589 4023.662667 5068.444121 5226.488997 7068.982047 4950.978868 4987.137692 8235.189034 6411.192761 0.809946142 1.067248926 0.627599702 0.790561805 0.815213205 1.102600142 0.772239902 0.777879854 1.284501861 1 12.64637707 -9.453932668 0.77944177 1.018957485 0.844219479 0.27457316 0.161455506 1.334804541 1.180708846 0.156722916 0.025504943 3.52E-10 9.453932668 -0.174738007 EEPLS(ph)EEEPCTSTAIAS(ph)PEKK ddPTM_HeLa_SAHA_4h_R1 3 EEPLSEEEPCTSTAIASPEKK 21 1 Q9Y2X3 Q9Y2X3 NOP58 Nucleolar protein 58 2 0 EEPLS(1)EEEPCT(0.009)S(0.018)T(0.045)AIAS(0.928)PEKK;EEPLS(1)EEEPCTST(0.001)AIAS(0.999)PEKK;EEPLS(1)EEEPCTST(0.005)AIAS(0.994)PEKK ;; 111.72 0.00015638 107320600 6186 6610.3 4963.2 5673.9 7271.1 8150.6 6518.2 5777.2 9040.3 6796.8 TRUE FALSE FALSE 6836.671862 6824.478057 5639.559049 5783.726539 6713.989889 7456.123026 5784.754981 5629.427589 8977.387816 7089.843311 0.964290967 0.962571069 0.795441987 0.815776356 0.946987062 1.051662597 0.815921414 0.794012976 1.266232189 1 12.79153803 -6.934723916 9.793639897 0.982108917 0.876817948 0.299450881 0.117376628 0.36839921 52.55615029 0.012838453 0.01687976 1.16E-07 6.934723916 -0.105290969 EEPLS(ph)EEEPCTSTAIASPEK ddPTM_HeLa_SAHA_4h_R1 2 EEPLSEEEPCTSTAIASPEK 20 0 Q9Y2X3 Q9Y2X3 NOP58 Nucleolar protein 58 1 0 EEPLS(0.999)EEEPCTSTAIASPEK;EEPLS(0.69)EEEPCT(0.211)S(0.074)T(0.026)AIASPEK ; 110.57 0.00036378 10890600 3460.9 4869.8 2882.2 3953.5 5762.3 6259.8 5976.2 4567 6132.1 4530.5 TRUE FALSE FALSE 3824.933341 5027.584715 3274.971206 4030.025709 5320.793819 5726.429823 5303.742248 4450.182753 6089.426217 4725.832027 0.80936718 1.063851759 0.69299357 0.85276533 1.125895671 1.211729446 1.122287508 0.9416718 1.288540554 1 12.20635264 -5.756411065 24.99380542 0.899047633 1.109912198 0.115514544 0.16756481 95.96755699 477011.9073 0.017779372 0.034696282 1.75E-06 5.756411065 0.210864565 EEPLS(ph)EEEPCTSTAIASPEKK ddPTM_HeLa_SAHA_4h_R1 2 EEPLSEEEPCTSTAIASPEKK 21 1 Q9Y2X3 Q9Y2X3 NOP58 Nucleolar protein 58 1 0 EEPLS(1)EEEPCTSTAIASPEKK;EEPLS(1)EEEPCTSTAIASPEKK ; 179.5 1.00E-10 95778000 3917.5 4553.7 3189.9 3987.8 4696.3 5635.8 4809.2 4687.4 4964.9 4494.5 TRUE FALSE FALSE 4329.560624 4701.242868 3624.60296 4064.989635 4336.470509 5155.598134 4268.056159 4567.503095 4930.348857 4688.279891 0.923485953 1.002764975 0.773120002 0.867053531 0.924959817 1.099677974 0.910367183 0.97423857 1.051632789 1 12.19484299 -3.882248873 17.77968166 0.950141274 3.966222554 0.006453238 0.088928957 1272.314947 193737.5014 0.011470079 1318.548198 0.000131145 3.882248873 3.01608128 EEPS(ph)PVKAEVAEK ddPTM_HeLa_SAHA_4h_R1 4 EEPSPVKAEVAEK 13 1 P46821;D6RA40;D6RA32 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 EEPS(1)PVKAEVAEK;EEPS(1)PVKAEVAEK;EEPS(1)PVKAEVAEK;EEPS(1)PVKAEVAEK ;;; 134.14 0.0026496 173800800 9924.6 14802.1 9005.7 10419.4 13067.8 15095 11582.6 10285.9 17889.4 12200.4 TRUE FALSE FALSE 10968.51496 15281.69775 10232.9499 10621.08255 12066.54799 13808.82108 10279.29536 10022.80157 17764.90621 12726.41895 0.861869706 1.200785375 0.804071431 0.834569614 0.948149517 1.085051587 0.807713105 0.787558669 1.3959077 1 13.6355389 EEPS(ph)QNDISPK ddPTM_HeLa_SAHA_4h_R1 1 EEPSQNDISPK 11 0 Q9NR30;Q9NR30-2 Q9NR30 DDX21 Nucleolar RNA helicase 2 1 0 EEPS(0.508)QNDIS(0.492)PK 134.18 0.0011537 116890000 6449.6 6084.9 4504.8 5043.1 5836.5 6932.9 6886.3 5683.4 6505 5526.6 TRUE FALSE FALSE 7127.99852 6282.054752 5118.690684 5140.716493 5389.308631 6342.177917 6111.4354 5538.026857 6459.731175 5764.878773 1.236452457 1.08971151 0.88790951 0.891730199 0.934852031 1.100140726 1.060115163 0.960649317 1.120532006 1 12.49307455 -6.914106903 8.093253811 1.11431037 0.977279482 0.410213714 0.082087056 0.263666376 21.93475523 0.017854721 0.023493733 1.22E-07 6.914106903 -0.137030887 EEPSQNDIS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 EEPSQNDISPK 11 0 Q9NR30;Q9NR30-2 Q9NR30 DDX21 Nucleolar RNA helicase 2 1 0 EEPSQNDIS(1)PK;EEPSQNDIS(1)PK;EEPS(0.344)QNDIS(0.656)PK ;; 181.67 1.87E-05 160854100 8543.2 8161 5747.2 6865.9 8071.2 9170 7583.6 7229.1 8715.6 7740.5 TRUE FALSE FALSE 9441.812974 8425.421755 6530.398486 6998.799423 7452.7864 8388.664411 6730.273369 7044.19009 8654.94743 8074.230836 1.169376151 1.043495278 0.808795118 0.866806952 0.923033605 1.038942852 0.833549784 0.872428623 1.071922218 1 12.97910912 -6.89707253 6.400079703 1.081259305 0.895704419 0.61879771 0.069760008 0.128899551 7.047936913 0.01385895 0.018274359 1.27E-07 6.89707253 -0.185554887 EEPVAIES(ph)PGQDLLGESR ddPTM_HeLa_SAHA_4h_R1 2 EEPVAIESPGQDLLGESR 18 0 Q96RG2-4;Q96RG2;Q96RG2-2 Q96RG2-4 PASK PAS domain-containing serine/threonine-protein kinase 1 0 EEPVAIES(1)PGQDLLGESR;EEPVAIES(1)PGQDLLGESR ; 199.36 2.66E-16 5487900 1307.35 1461.98 1276.2 1594.09 1421.61 1513.64 1626.92 1375.91 1607.51 1300.68 TRUE FALSE FALSE 1444.863071 1509.349111 1450.11389 1624.945917 1312.686549 1384.669356 1443.85468 1340.716214 1596.323207 1356.75868 1.064937407 1.112466891 1.068807527 1.197667604 0.967516603 1.020571585 1.064194172 0.988175889 1.176571214 1 10.40594842 -4.250080532 22.73005097 1.047159611 0.988175761 0 0.073494136 1092.66126 2186356.329 0.008770832 0.167152994 5.62E-05 4.250080532 -0.058983851 EEQMKEGEETEGSEEDDKENDKT(ph)EEMPNDSVLENK ddPTM_HeLa_SAHA_4h_R1 1 EEQMKEGEETEGSEEDDKENDKTEEMPNDSVLENK 35 3 P49321-4;P49321;P49321-3 P49321-4 NASP Nuclear autoantigenic sperm protein 1 0 EEQMKEGEET(0.012)EGS(0.247)EEDDKENDKT(0.681)EEMPNDS(0.06)VLENK 42.865 0.010275 11093000 562.78 879.97 656.4 1012.1 833.44 1315 951.16 676.43 1530.5 800.09 TRUE FALSE FALSE 621.9757825 908.4816054 745.8507736 1031.690659 769.5820073 1202.954602 844.1329735 659.1279001 1519.849126 834.5857954 0.745250861 1.088541897 0.893677771 1.236170882 0.922112516 1.441379195 1.011439421 0.789766497 1.821081948 1 9.704916556 -7.236976293 24.36347029 0.87970179 1.063617106 0 0.349065205 738.9501379 735941.5983 0.031216416 0.038220627 5.79E-08 7.236976293 0.183915316 EEQRS(ph)PFNDRFPLK ddPTM_HeLa_SAHA_4h_R1 1 EEQRSPFNDRFPLK 14 2 O94913;E9PKN0;E9PQ01 O94913;E9PQ01 PCF11 Pre-mRNA cleavage complex 2 protein Pcf11 1 0 EEQRS(1)PFNDRFPLK 68.845 0.022455 15267000 1069.9 1391.3 878.46 1308.2 1430.6 1444 1516.6 1390.2 2024.9 1446.1 TRUE FALSE FALSE 1182.436991 1436.379033 998.171954 1333.522103 1320.987737 1320.963076 1345.948177 1354.640697 2010.808556 1508.448448 0.783876302 0.952222819 0.661720959 0.884035583 0.87572614 0.875709792 0.892273235 0.898035792 1.333031009 1 10.55884968 -9.477472104 1.186088157 1.000977568 0.846503271 0.357631549 0.131586388 0.413612569 1.030339571 0.052711315 0.012588185 3.33E-10 9.477472104 -0.154474298 EERS(ph)PQTLAPVGEDAMK ddPTM_HeLa_SAHA_4h_R1 3 EERSPQTLAPVGEDAMK 17 1 Q92797 Q92797 SYMPK Symplekin 1 0 EERS(0.961)PQT(0.039)LAPVGEDAMK;EERS(0.998)PQT(0.002)LAPVGEDAMK;EERS(0.965)PQT(0.035)LAPVGEDAMK ;; 113.33 0.00070454 30550500 4935.9 6982.2 4167.1 5394.6 7691.4 7828.8 5954.6 5656.4 7132.8 6763.7 TRUE FALSE FALSE 5455.080609 7208.427861 4734.970687 5499.020284 7102.086594 7161.742196 5284.572736 5511.717478 7083.162264 7055.316208 0.77318726 1.0217016 0.671120974 0.779415142 1.006629098 1.01508451 0.74901997 0.781214805 1.003946819 1 12.78449503 -9.519394715 1.232486096 1.001235044 0.845085343 0.208441548 0.118097091 0.652760147 1.752099882 0.087097181 0.02023575 3.02E-10 9.519394715 -0.1561497 EES(ph)DGEYDEFGR ddPTM_HeLa_SAHA_4h_R1 4 EESDGEYDEFGR 12 0 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 EES(1)DGEYDEFGR;EES(1)DGEYDEFGR;EES(1)DGEYDEFGR;EES(1)DGEYDEFGR ;;; 195.72 1.71E-07 102674600 4845.55 5730.21 5466.8 5075.5 5509.8 6579.8 5077.1 5427.4 6745 5821.3 TRUE FALSE FALSE 5355.227181 5915.872564 6211.787034 5173.743642 5087.640314 6019.164023 4505.811346 5288.574967 6698.060996 6072.284732 0.881913055 0.974241628 1.02297361 0.852025863 0.837846138 0.99125194 0.742028996 0.870936591 1.1030545 1 12.56802373 EES(ph)DGEYDEFGRK ddPTM_HeLa_SAHA_4h_R1 3 EESDGEYDEFGRK 13 1 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 EES(1)DGEYDEFGRK;EES(1)DGEYDEFGRK;EES(1)DGEYDEFGRK ;; 139.48 0.0010649 100668000 3066.57 4240.7 3018.98 3434.34 4230.4 6079.3 4160.5 3808.8 6817.7 5097.1 TRUE FALSE FALSE 3389.125903 4378.101462 3430.390872 3500.816617 3906.267666 5561.309439 3692.34959 3711.376411 6770.255071 5316.860926 0.637429858 0.823437273 0.64519101 0.658436748 0.734694347 1.045976097 0.694460442 0.698039024 1.273355682 1 12.37635901 -9.45411206 1.154945769 1.001843449 0.736574356 0.488802054 0.14598588 0.395940004 0.934153063 0.084846917 0.020450614 3.51E-10 9.45411206 -0.265269093 EES(ph)EDELEEANGNNPIDIEVDQNK ddPTM_HeLa_SAHA_4h_R1 2 EESEDELEEANGNNPIDIEVDQNK 24 0 Q9UKL0 Q9UKL0 RCOR1 REST corepressor 1 1 0 EES(1)EDELEEANGNNPIDIEVDQNK;EES(1)EDELEEANGNNPIDIEVDQNK ; 164.57 1.59E-08 7245600 1007.08 1719.34 1146.95 1116.89 1820.37 1995.38 1734.94 1490.14 1881.51 1590.58 TRUE FALSE FALSE 1113.009295 1775.047744 1303.250373 1138.509021 1680.893644 1825.362398 1539.719985 1452.024376 1868.416419 1659.157688 0.670827917 1.069848729 0.785489157 0.686196996 1.013100597 1.10017415 0.928013049 0.87515755 1.126123474 1 10.69623529 -5.70348963 24.99998411 0.844891575 0.984109152 0.028076143 0.155594203 118.0495157 50926.52426 0.022469673 0.044939336 1.98E-06 5.70348963 0.139217577 EES(ph)EEEEDEDDEEEEEEEKEK ddPTM_HeLa_SAHA_4h_R1 5 EESEEEEDEDDEEEEEEEKEK 21 1 H0Y8X0;B4DFG0;H0Y993;P35659;A0A494C028;D6R9L5;A0A494C198 H0Y8X0 DEK Protein DEK 1 0 EES(1)EEEEDEDDEEEEEEEKEK;EES(1)EEEEDEDDEEEEEEEKEK;EES(1)EEEEDEDDEEEEEEEKEK;EES(1)EEEEDEDDEEEEEEEKEK;EES(1)EEEEDEDDEEEEEEEKEK ;;;; 173.68 2.50E-10 1433319600 2941.92 4186.42 3728.15 3875.58 3894.62 5201.55 3731.24 3006.78 5052.89 4429.82 TRUE FALSE FALSE 3251.364644 4322.062755 4236.202867 3950.597455 3596.215057 4758.348677 3311.391055 2929.870921 5017.726527 4620.811219 0.703635031 0.935347183 0.916766054 0.854957553 0.778264873 1.029764786 0.716625479 0.634059861 1.085897322 1 12.17393043 -9.592788448 1.383998073 1.00003151 0.813808508 0.345322571 0.117477214 0.485087863 1.666337363 0.083617106 0.019383341 2.55E-10 9.592788448 -0.186223003 EES(ph)EES(ph)EAEPVQR ddPTM_HeLa_SAHA_4h_R1 2 EESEESEAEPVQR 13 0 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 2 0 EES(1)EES(1)EAEPVQR;EES(1)EES(1)EAEPVQR ; 175.29 0.00017421 81225800 3696.6 3923.2 3002.8 3619.4 4241.6 5248.1 4010.5 4242.6 4407 3904.2 TRUE FALSE FALSE 4085.425349 4050.314254 3412.005946 3689.458721 3916.609524 4800.932355 3559.227985 4134.080435 4376.331328 4072.529169 1.003166627 0.99454518 0.83781007 0.905937949 0.961714296 1.178857697 0.873960096 1.015113769 1.074597909 1 11.99170932 -2.960439831 13.33997788 0.986150652 0.974872973 0 0.093793637 0 0 0.011339459 0 0.001095368 2.960439831 -0.011277679 EES(ph)EESEAEPVQR ddPTM_HeLa_SAHA_4h_R1 2 EESEESEAEPVQR 13 0 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 1 0 EES(0.973)EES(0.027)EAEPVQR;EES(0.723)EES(0.277)EAEPVQR ; 192.65 1.37E-07 45933200 1115.93 1042.15 1055.77 1191.61 1162.54 1530.7 1434.52 1334.48 1908.65 1359.57 TRUE FALSE FALSE 1233.308637 1075.916344 1199.644837 1214.675335 1073.466436 1400.275749 1273.104034 1300.345934 1895.367549 1418.187716 0.869637089 0.758655805 0.845899893 0.856498276 0.756928314 0.987369819 0.897697829 0.916906781 1.33647156 1 10.46983279 -8.890577081 0.910450287 0.993970128 0.860970651 0.347262175 0.1276185 0.437534278 0.702260428 0.034187151 0.013262513 1.29E-09 8.890577081 -0.132999477 EES(ph)REPAPASPAPAGVEIR ddPTM_HeLa_SAHA_4h_R1 1 EESREPAPASPAPAGVEIR 19 1 Q14195-2 Q14195-2 DPYSL3 Dihydropyrimidinase-related protein 3 1 0 EES(1)REPAPASPAPAGVEIR 98.21 0.00091888 3366900 484.02 611.02 474.38 760.34 698.02 892.88 657.07 696.86 617.81 621.3 TRUE FALSE FALSE 534.9314444 630.8174489 539.0260359 775.0574802 644.5378584 816.8016008 583.1347543 679.0353302 613.5106099 648.0872836 0.825400309 0.97335261 0.831718273 1.195915272 0.99452323 1.260326535 0.899778115 1.047752899 0.946648122 1 9.340044316 -6.2698321 24.99869283 0.91467661 1.074973115 0.372332909 0.106530185 546.6199144 1628169.467 0.016805075 0.025929817 5.37E-07 6.2698321 0.160296504 EES(ph)SEDENEVSNILR ddPTM_HeLa_SAHA_4h_R1 1 EESSEDENEVSNILR 15 0 Q01804-5;Q01804-3;Q01804 Q01804-5 OTUD4 OTU domain-containing protein 4 1 0 EES(0.611)S(0.389)EDENEVSNILR 192.78 3.65E-09 4898300 342.18 711.92 379.61 585.62 625.1 505.41 478.62 517.37 586.1 452.4 TRUE FALSE FALSE 378.1720624 734.9866751 431.3412739 596.9555219 577.204973 462.3462246 424.7644179 504.1364245 582.0212824 471.905178 0.801372988 1.557488049 0.914042257 1.264990404 1.223137613 0.979743911 0.90010544 1.06830026 1.233343709 1 8.882353191 EES(ph)WESGR ddPTM_HeLa_SAHA_4h_R1 2 EESWESGR 8 0 Q9NQ29-3;Q9NQ29;B8ZZ08 Q9NQ29-3 LUC7L Putative RNA-binding protein Luc7-like 1 1 0 EES(1)WESGR;EES(0.989)WES(0.011)GR ; 123.86 0.0029642 20817000 2580.2 2551.85 2063.23 2504.05 2657.45 3531.1 2588.3 2491.77 3381.2 2294.5 TRUE FALSE FALSE 2851.597274 2634.531614 2344.39624 2552.519509 2453.836755 3230.230415 2297.057672 2428.034131 3357.669954 2393.427124 1.191428494 1.10073609 0.979514361 1.066470536 1.025239804 1.349625557 0.95973579 1.014459186 1.402871188 1 11.22486216 EES(ph)WGPPR ddPTM_HeLa_SAHA_4h_R1 2 EESWGPPR 8 0 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 1 0 EES(1)WGPPR;EES(1)WGPPR ; 143.7 0.00050891 17726500 4443.2 4795.7 4186.2 5179.3 4751.7 5748.8 4488.4 4601.4 5072.7 4979.8 TRUE FALSE FALSE 4910.556162 4951.083827 4756.673535 5279.552841 4387.625773 5258.969898 3983.353419 4483.702851 5037.398668 5194.503549 0.945336954 0.953138982 0.915712828 1.01637294 0.844667008 1.012410493 0.766840061 0.86316292 0.969755554 1 12.34277016 -1.224893764 0.260581253 0.98606235 4.69E-17 0.348202979 0.06256815 29.61066906 0.415013784 0.028299716 12.84447655 0.059580787 1.224893764 -0.98606235 EESEES(ph)DEDMGFGLFD ddPTM_HeLa_SAHA_4h_R1 3 EESEESDEDMGFGLFD 16 0 F8VWS0;P05388-2;P05388;Q8NHW5;F8W1K8 F8VWS0 RPLP0;RPLP0P6 60S acidic ribosomal protein P0;60S acidic ribosomal protein P0-like 1 0 EES(0.015)EES(0.985)DEDMGFGLFD;EES(0.001)EES(0.999)DEDMGFGLFD;EES(0.014)EES(0.986)DEDMGFGLFD ;; 147.18 0.00014228 22025900 1646.45 1991.27 1258.06 1769.14 2277.9 2322.9 2106.38 1976.14 2175.9 1914.35 TRUE FALSE FALSE 1819.631165 2055.788455 1429.501865 1803.384263 2103.367794 2124.975852 1869.364579 1925.5932 2160.757735 1996.886997 0.91123392 1.02949664 0.715865178 0.903097805 1.053323396 1.064144268 0.936139392 0.964297531 1.0820631 1 10.96353698 -3.857548528 14.81428827 0.954431829 2.236630971 0 0.103714603 24142621.63 10165173.4 0.013293407 1043563832 0.00013882 3.857548528 1.282199142 EESEES(ph)EAEPVQR ddPTM_HeLa_SAHA_4h_R1 2 EESEESEAEPVQR 13 0 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 1 0 EES(0.167)EES(0.833)EAEPVQR;EES(0.191)EES(0.809)EAEPVQR ; 248.67 3.05E-32 49714600 1356.8 1912.5 1314.06 1659.67 1694.24 1866.28 1932.54 1771.92 2263.14 2018.72 TRUE FALSE FALSE 1499.514449 1974.466255 1493.133253 1691.795313 1564.427697 1707.262445 1715.085513 1726.596852 2247.390624 2105.756899 0.712102356 0.937651567 0.709071999 0.803414351 0.742928919 0.810759516 0.814474603 0.819941207 1.067260245 1 11.04012318 -9.452563528 1.09329611 1.00438054 0.787623549 0.661260704 0.067101399 0.272584208 0.563438981 0.046744597 0.010680496 3.53E-10 9.452563528 -0.216756991 EESEESDEDMGFGLFD ddPTM_HeLa_SAHA_4h_R1 1 EESEESDEDMGFGLFD 16 0 F8VWS0;P05388-2;P05388;Q8NHW5;F8W1K8 F8VWS0 RPLP0;RPLP0P6 60S acidic ribosomal protein P0;60S acidic ribosomal protein P0-like 0 0 121.83 0.00042386 0 170.5 0 176.28 173.68 67.696 152.1 209.18 303.37 120.61 66.392 FALSE FALSE TRUE 188.4339723 0 200.3025204 177.0418275 62.50914711 139.1402243 185.6425159 295.6102347 119.7706652 69.25448403 2.72089201 0 2.892267889 2.556395156 0.902600719 2.009115023 2.68058478 4.268463462 1.729428309 1 6.11383558 EESGKPGAHVTVK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EESGKPGAHVTVKK 14 2 P22626;P22626-2;A0A087WUI2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 0 1 ; EESGKPGAHVTVK(1)K;EESGKPGAHVTVK(1)K 68.277 0.01438 47532000 12032.2 21243 6834.5 20059 32521 43142 25270 29822 21738 19418.6 FALSE TRUE FALSE 13297.802 21931.28714 7765.870067 20447.27095 30029.24801 39466.05889 22426.55309 29059.19642 21586.72349 20255.83088 0.656492547 1.082714763 0.383389362 1.009451109 1.48249895 1.948380154 1.107165301 1.434608958 1.065704173 1 14.30604964 -5.841366333 4.156499003 0.820837144 1.500207758 0.563473318 0.272820091 0.114832017 3.776541561 0.039308816 0.074319485 1.44E-06 5.841366333 0.679370614 EESIS(ph)LMK ddPTM_HeLa_SAHA_4h_R1 2 EESISLMK 8 0 Q9UQE7 Q9UQE7 SMC3 Structural maintenance of chromosomes protein 3 1 0 EESIS(1)LMK;EESIS(1)LMK ; 100.19 0.019336 8072800 3790.5 3874.9 3530.6 3803.8 4238.2 4629.2 4550.9 3670.3 3945.5 3688.1 TRUE FALSE FALSE 4189.202181 4000.449302 4011.731781 3877.428049 3913.470032 4234.766117 4038.820755 3576.419041 3918.042944 3847.11204 1.088921284 1.039857758 1.042790472 1.007880199 1.017248781 1.100764956 1.049831851 0.92963735 1.018437442 1 11.90956013 -6.440397336 24.98981165 1.042924187 1.026730239 0.02083639 0.045226428 378.1163859 114556.3509 0.007804601 0.011921724 3.63E-07 6.440397336 -0.016193948 EESREPAPAS(ph)PAPAGVEIR ddPTM_HeLa_SAHA_4h_R1 5 EESREPAPASPAPAGVEIR 19 1 Q14195-2 Q14195-2 DPYSL3 Dihydropyrimidinase-related protein 3 1 0 EES(0.002)REPAPAS(0.998)PAPAGVEIR;EES(0.001)REPAPAS(0.999)PAPAGVEIR;EES(0.015)REPAPAS(0.985)PAPAGVEIR;EESREPAPAS(1)PAPAGVEIR;EES(0.008)REPAPAS(0.992)PAPAGVEIR ;;;; 113.73 0.00067716 650896400 6525.85 7133.68 6811.38 6580.82 7795.77 8654.06 7593.72 7868.32 6959.03 6954.81 TRUE FALSE FALSE 7212.268845 7364.815913 7739.599394 6708.201287 7198.459787 7916.685402 6739.25464 7667.059768 6910.601544 7254.665895 0.994155892 1.015183334 1.06684436 0.924674049 0.992252419 1.091254307 0.928954515 1.056845329 0.952573371 1 12.82469346 -3.89281032 19.65306192 1.000456494 8.264717263 0.107502723 0.051111632 719.1457823 131757.2579 0.005910417 173.0315546 0.000127994 3.89281032 7.264260769 EESS(ph)EDENEVSNILR ddPTM_HeLa_SAHA_4h_R1 1 EESSEDENEVSNILR 15 0 Q01804-5;Q01804-3;Q01804 Q01804-5 OTUD4 OTU domain-containing protein 4 1 0 EES(0.006)S(0.994)EDENEVSNILR 187.08 7.77E-09 4737400 1470.5 1776.5 1471.7 1911.6 1961.8 2405.6 1775.2 1637.4 2362 1834.3 TRUE FALSE FALSE 1625.173937 1834.059766 1672.255612 1948.601782 1811.487308 2200.629346 1575.449824 1595.517679 2345.56265 1913.38565 0.849370819 0.958541612 0.873977294 1.018405141 0.946744483 1.150123263 0.823383317 0.833871457 1.225870305 1 10.90191197 EESTAASETTEGSQGDSK(ac)NAK ddPTM_HeLa_SAHA_4h_R1 1 EESTAASETTEGSQGDSKNAK 21 1 Q92793;Q92793-2 Q92793 CREBBP CREB-binding protein 0 1 EESTAASETTEGSQGDSK(1)NAK 179.1 2.24E-14 0 73.794 138.44 65.649 67.699 182.08 133.86 0 128.86 168.96 210.16 FALSE TRUE FALSE 81.5559915 142.9255468 74.59530383 69.00941204 168.1290697 122.4543749 0 125.5639478 167.7841936 219.2210261 0.37202632 0.651970066 0.340274403 0.314793764 0.766938613 0.55858864 0 0.572773287 0.765365424 1 7.776242368 -9.377864444 0.677803355 1.082413232 0.433089555 0.378267069 0.214196976 0.659044601 0.430770644 0.259997648 0.041996088 4.19E-10 9.377864444 -0.649323678 EESTAASETTEGSQGDSK(ac)NAK(ac)K(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EESTAASETTEGSQGDSKNAKKK 23 3 Q92793;Q92793-2 Q92793 CREBBP CREB-binding protein 0 3 ; EESTAASETTEGSQGDSK(1)NAK(1)K(1)K;EESTAASETTEGSQGDSK(1)NAK(1)K(1)K 311.54 5.84E-168 7224200 1070.11 1928.56 1482.09 1012.45 1481.59 1536.93 1231.98 991.96 1194.79 1073.72 FALSE TRUE FALSE 1182.66908 1991.046609 1684.061507 1032.047434 1368.070894 1405.974917 1093.354368 966.5870995 1186.475359 1120.013324 1.055941974 1.777699039 1.503608458 0.921459961 1.221477339 1.255319814 0.976197644 0.863013929 1.059340397 1 10.12930018 -7.493614214 24.94476221 1.024680079 1.223858282 0.090834746 0.258997079 592.6752923 505194.9538 0.047196143 0.051302346 3.21E-08 7.493614214 0.199178203 EESYS(ph)PSKDR ddPTM_HeLa_SAHA_4h_R1 2 EESYSPSKDR 10 1 Q96T23-3;Q96T23-2;Q96T23;H0YER1;H0YCN2 Q96T23-3 RSF1 Remodeling and spacing factor 1 1 0 EES(0.27)YS(0.727)PS(0.003)KDR;EES(0.004)YS(0.996)PS(0.001)KDR ; 168.85 0.00049422 77568000 4385.7 5518.3 3630.3 4003.9 4957.2 4898.6 4297.2 3819.9 5383.9 5026.5 TRUE FALSE FALSE 4847.008048 5697.096541 4125.018378 4081.401274 4577.380407 4481.211721 3813.667746 3722.192489 5346.433002 5243.217014 0.924433994 1.086565085 0.786734245 0.778415477 0.873009909 0.854668367 0.727352642 0.709906243 1.019685622 1 12.35623654 -2.138877927 0.197795475 1.013373575 8.03E-10 0.633378507 0.074242222 16.98381436 0.287700038 0.078430366 4.879616825 0.007263101 2.138877927 -1.013373574 EETDKEEPASK(ac)QQK ddPTM_HeLa_SAHA_4h_R1 1 EETDKEEPASKQQK 14 2 P05455 P05455 SSB Lupus La protein 0 1 EETDKEEPASK(1)QQK 188.13 1.82E-12 0 585.22 809.33 434.41 775.11 877.32 792.09 700.23 661.27 715.1 413.15 FALSE TRUE FALSE 646.7761247 835.552823 493.6091325 790.1133749 810.0999311 724.5994758 621.4382775 644.3556709 710.1235609 430.9629184 1.500769781 1.938804448 1.145363351 1.833367422 1.879743933 1.681349937 1.441976214 1.495153396 1.647760238 1 8.75141993 -8.707591574 0.628594807 0.986221161 1.636107101 0 0.298319402 0.477550067 0.362589271 0.156591745 0.054024149 1.96E-09 8.707591574 0.64988594 EETQPPVALK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 EETQPPVALKK 11 1 Q8NC51-2;Q8NC51;Q8NC51-4;Q8NC51-3 Q8NC51-2 SERBP1 Plasminogen activator inhibitor 1 RNA-binding protein 0 1 EETQPPVALK(1)K 182.71 6.92E-17 5806400 1258.4 3534.2 1337 1773.3 2888.8 3311.2 3603.5 3463.7 3083.1 1116.1 FALSE TRUE FALSE 1390.764286 3648.710399 1519.199397 1807.624786 2667.460768 3029.067132 3198.024696 3375.103569 3061.644456 1164.220533 1.19458835 3.134037148 1.304906892 1.552648089 2.291198869 2.60179841 2.746923461 2.89902426 2.6297805 1 10.18514865 -4.586994884 0.210958833 0.741307845 4.601443708 0.000757383 0.750991038 5.776219092 0.260012997 0.639737112 5.950285775 2.59E-05 4.586994884 3.860135863 EEVGEEAIVELVENGKK ddPTM_HeLa_SAHA_4h_R1 2 EEVGEEAIVELVENGKK 17 1 P35579;Q5BKV1;B1AH99 P35579 MYH9 Myosin-9 0 0 ; ; 249.41 7.56E-37 8565600 3238.4 1984.5 1902.73 2392.24 1847.45 2918.3 2447.43 2266.19 3259.8 2431.85 FALSE FALSE TRUE 3579.02977 2048.799102 2162.024135 2438.545264 1705.89878 2669.644422 2172.038735 2208.224141 3237.114786 2536.698955 1.410900479 0.807663479 0.852298272 0.961306528 0.672487674 1.052408847 0.856246158 0.87051092 1.276113108 1 11.3087366 -7.243384194 24.99003243 1.194036341 0.869750492 0.605385055 0.13282256 556.2233894 769864.8762 0.028428425 0.034780922 5.71E-08 7.243384194 -0.324285849 EEVVEQGELNATEEVWIPGEGHPES(ph)PEPK ddPTM_HeLa_SAHA_4h_R1 1 EEVVEQGELNATEEVWIPGEGHPESPEPK 29 0 P48681 P48681 NES Nestin 1 0 EEVVEQGELNATEEVWIPGEGHPES(1)PEPK 191.56 8.07E-23 4939100 506.11 854.72 762.57 712.12 774.08 728.51 740.46 815.03 1295.4 777.97 TRUE FALSE FALSE 559.3449719 882.4134888 866.4890683 725.9041123 714.7701576 666.4368495 657.141492 794.1827127 1286.385206 811.512094 0.689262644 1.087369486 1.06774634 0.894508064 0.880788053 0.821228487 0.80977412 0.978645566 1.585170715 1 9.664468785 -4.224085563 21.31339856 0.880710203 0.978647196 0 0.251713688 7733.064069 4411753.77 0.020183015 4.35764459 5.97E-05 4.224085563 0.097936994 EEVVTVETWQEGSLK ddPTM_HeLa_SAHA_4h_R1 2 EEVVTVETWQEGSLK 15 0 P09211;A8MX94;A0A087X2E9 P09211 GSTP1 Glutathione S-transferase P 0 0 ; ; 262.07 1.20E-43 16155500 4503.3 2189 2321.2 3070.1 2313.9 4461.9 3368.6 2999 3937.3 2934.2 FALSE FALSE TRUE 4976.977756 2259.925036 2637.521048 3129.526225 2136.609482 4081.721018 2989.556262 2922.289922 3909.900009 3060.707722 1.626087235 0.738366823 0.861735679 1.022484507 0.69807694 1.333587323 0.976753266 0.954775885 1.27744965 1 11.57964957 -7.248833835 24.97130016 1.295652312 0.948076123 0.368822262 0.215843462 779.6199654 1544410.638 0.046009994 0.056152279 5.64E-08 7.248833835 -0.34757619 YLTNQK(ac)NSNSK(ac)NDRR ddPTM_HeLa_SAHA_4h_R1 2 YLTNQKNSNSKNDRR 15 3 B1AK63;Q9HAF1-2;Q9HAF1;Q9HAF1-4;Q9HAF1-3 B1AK63 MEAF6 Chromatin modification-related protein MEAF6 0 2 ; YLTNQK(1)NSNSK(1)NDRR;YLTNQK(1)NSNSK(1)NDRR 164.92 6.40E-11 128398000 1229.16 1521.62 2179.21 2764.4 3479.6 3925.1 3922 3831.5 807.7 956.65 FALSE TRUE FALSE 1358.448688 1570.921486 2476.18139 2817.908959 3212.9938 3590.659398 3480.686238 3733.495778 802.0791499 997.8958632 1.361313077 1.57423389 2.4814026 2.823850728 3.219768633 3.598230567 3.488025521 3.741368128 0.803770393 1 9.962745459 -6.42917942 0.783616212 1.099223353 3.682309348 0.981172217 0.147433531 0.045613959 0.055747842 0.025419849 0.053129072 3.72E-07 6.42917942 2.583085995 up EEYLLLR ddPTM_HeLa_SAHA_4h_R1 1 EEYLLLR 7 0 P46940;H0YLE8;A0A0J9YXZ5 P46940 IQGAP1 Ras GTPase-activating-like protein IQGAP1 0 0 119.56 0.023666 5303400 2945.7 2635.3 2405.7 2892 3752.9 2945.1 3335.1 2082.6 3497.8 2833.6 FALSE FALSE TRUE 3255.542241 2720.685449 2733.536268 2947.978842 3465.353613 2694.160911 2959.82577 2029.330108 3473.458525 2955.770363 1.101419204 0.920465772 0.924813477 0.997363963 1.172402855 0.911491956 1.001372031 0.686565551 1.175144919 1 11.52931847 -3.787032683 1.43103998 1.030470203 7.95E-13 0.544877499 0.092391848 2.188158339 1.576325349 0.012141135 4.512634753 0.000163293 3.787032683 -1.030470203 EFAGEDT(ph)SDLFLEER ddPTM_HeLa_SAHA_4h_R1 2 EFAGEDTSDLFLEER 15 0 O14980 O14980 XPO1 Exportin-1 1 0 EFAGEDT(0.5)S(0.5)DLFLEER;EFAGEDT(0.5)S(0.5)DLFLEER ; 173.19 1.05E-06 4053900 504.87 960.43 779.16 700.55 842.79 1055.67 1031.6 514.49 948.78 761.05 TRUE FALSE FALSE 557.974543 991.5485622 885.3398671 714.1101583 778.2156123 965.720977 915.521653 501.3300908 942.1773627 793.86259 0.702860357 1.249017871 1.115230618 0.899538745 0.980290068 1.216483796 1.153249523 0.631507388 1.186826756 1 9.632745502 -7.27117751 24.98006549 0.859684063 1.042336418 0 0.208563144 915.9096923 2349470.16 0.033044295 0.038030667 5.36E-08 7.27117751 0.182652355 EFAGEDTSDLFLEER ddPTM_HeLa_SAHA_4h_R1 2 EFAGEDTSDLFLEER 15 0 O14980 O14980 XPO1 Exportin-1 0 0 ; ; 241.35 1.20E-32 8309900 1566.52 1650.73 1301.06 1892.2 1782.26 1918.82 2133.62 1571.66 2085.25 1592.1 FALSE FALSE TRUE 1731.293761 1704.214735 1478.361681 1928.826267 1645.703624 1755.325741 1893.539462 1531.459213 2070.738575 1660.743223 1.042481304 1.026175939 0.89018077 1.161423537 0.990944055 1.056951922 1.140175938 0.922152921 1.246874621 1 10.69761331 -6.247649909 24.99122902 1.012270667 1.055723153 0 0.105614992 1638.489628 2969505.37 0.010452097 0.01725589 5.65E-07 6.247649909 0.043452486 EFAPS(ph)DEELDSYR ddPTM_HeLa_SAHA_4h_R1 4 EFAPSDEELDSYR 13 0 I3L0X5;I3L4C3;O75391 I3L0X5 SPAG7 Sperm-associated antigen 7 1 0 EFAPS(0.828)DEELDS(0.172)YR;EFAPS(1)DEELDSYR;EFAPS(1)DEELDSYR;EFAPS(1)DEELDSYR ;;; 265.77 4.11E-54 46292500 6980.64 7156.46 6119.27 6664.4 7396.71 8313.1 7355.58 7433.74 7640.91 7151.03 TRUE FALSE FALSE 7714.895744 7388.334 6953.172248 6793.399099 6829.975678 7604.777112 6527.91078 7243.595695 7587.736285 7459.3459 1.034259015 0.990480144 0.932142354 0.910723164 0.915626621 1.01949651 0.875131797 0.971076525 1.017212017 1 12.86483341 -6.888560884 3.766206566 1.016070542 0.936055969 0.493740277 0.03691509 0.134994844 3.661297292 0.005798222 0.007738461 1.29E-07 6.888560884 -0.080014573 EFAPS(ph)DEELDSYRR ddPTM_HeLa_SAHA_4h_R1 1 EFAPSDEELDSYRR 14 1 I3L0X5;I3L4C3;O75391 I3L0X5 SPAG7 Sperm-associated antigen 7 1 0 EFAPS(1)DEELDSYRR 102.15 0.002092 1700400 393.8 433.17 370.68 528.67 364.9 701.55 410.13 537.72 659.98 561.92 TRUE FALSE FALSE 435.2216908 447.2049922 421.19434 538.9031723 336.9414408 641.7739932 363.981093 523.965901 655.3871454 586.1471212 0.742512716 0.762956903 0.718581265 0.919399163 0.574841074 1.094902577 0.620972244 0.893915336 1.118127381 1 9.195119012 -9.311067715 0.982810441 1.002818285 0.786747827 0.32200263 0.148531129 0.592402631 1.004053188 0.091385179 0.023113798 4.89E-10 9.311067715 -0.216070459 EFAPSDEELDSYR ddPTM_HeLa_SAHA_4h_R1 1 EFAPSDEELDSYR 13 0 I3L0X5;I3L4C3;O75391 I3L0X5 SPAG7 Sperm-associated antigen 7 0 0 180.66 3.92E-05 3316900 342.45 288.6 510.95 381 491.15 422.38 388.78 400.01 269.44 272.98 FALSE FALSE TRUE 378.4704622 297.9508294 580.5796051 388.3748059 453.5181931 386.3908478 345.0334512 389.7783234 267.5649451 284.7495037 1.329134756 1.046361189 2.038913492 1.363917411 1.592691777 1.35695003 1.211708701 1.368846366 0.93965026 1 8.153549517 -8.458276787 0.642821311 1.012677535 1.437691252 0.343062763 0.247227498 0.667098003 0.575982961 0.134704733 0.060505751 3.48E-09 8.458276787 0.425013718 EFCQRY(ph)FGWNRT(ph)KT(ph)DESLFPVLK ddPTM_HeLa_SAHA_4h_R1 1 EFCQRYFGWNRTKTDESLFPVLK 23 3 A0A1W2PS85;R4GMW8;P28715;A0A090HNM7;P28715-2 A0A1W2PS85 BIVM-ERCC5;ERCC5;ERCC5-201 DNA repair protein complementing XP-G cells 3 0 EFCQRY(0.991)FGWNRT(0.886)KT(0.562)DES(0.562)LFPVLK 41.53 0.0084507 0 634.94 931.26 760.73 492.03 882.79 903.88 872.36 875.08 1147.3 914.99 TRUE FALSE FALSE 701.7259024 961.433435 864.3983227 501.5539521 815.1508209 826.8643389 774.1997569 852.6967207 1139.315846 954.4396968 0.73522288 1.007327585 0.905660489 0.525495695 0.854062152 0.866334816 0.811156283 0.89340031 1.193701236 1 9.898510238 -9.508045027 1.176044299 1.003095313 0.815437661 0.338750333 0.136575637 0.588319098 1.416716738 0.092223724 0.020794459 3.10E-10 9.508045027 -0.187657652 EFDEDS(ph)DEKEEEEDTYEK ddPTM_HeLa_SAHA_4h_R1 1 EFDEDSDEKEEEEDTYEK 18 1 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 EFDEDS(1)DEKEEEEDTYEK 92.098 0.0016925 27913000 1250.7 1764.2 1212.8 2008.3 1501.5 2143.7 1331.5 938.04 4273.4 2078.8 TRUE FALSE FALSE 1382.254364 1821.361238 1378.074068 2047.173551 1386.455394 1961.0447 1181.676116 914.0462951 4243.661061 2168.427241 0.637445582 0.839945746 0.635517781 0.944082195 0.639382944 0.904362693 0.544946168 0.421525001 1.957022574 1 11.08243332 -13.52287875 0.252577187 2.955304479 0.662671715 0.321545347 0.336808875 38.00567734 0.503542116 37.15786604 0.088256906 3.00E-14 13.52287875 -2.292632763 EFDPTITDASLS(ph)LPSRR ddPTM_HeLa_SAHA_4h_R1 2 EFDPTITDASLSLPSRR 17 1 E7EX44;Q05682-3;Q05682-6;Q05682-2;Q05682;Q05682-5;Q05682-4;E9PGZ1;C9J813 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 1 0 EFDPTITDAS(0.037)LS(0.956)LPS(0.006)RR;EFDPTITDAS(0.037)LS(0.94)LPS(0.022)RR ; 126.04 0.00017379 8718700 2585.3 3474.7 3025.1 3324.5 3448.4 3883.1 3106.4 3137.3 3082.2 3326 TRUE FALSE FALSE 2857.233716 3587.28256 3437.344874 3388.850505 3184.184337 3552.238034 2756.859696 3057.052409 3060.750719 3469.400137 0.823552661 1.033977754 0.990760575 0.976782836 0.917791033 1.02387672 0.794621429 0.881147255 0.882213235 1 11.76047053 -4.74612321 24.99958996 0.938800485 0.837884341 0.308042067 0.066972781 300.324933 490192.4263 0.01124783 0.041767667 1.79E-05 4.74612321 -0.100916144 EFDY(ph)VFSIDVNEGGPS(ph)Y(ph)K ddPTM_HeLa_SAHA_4h_R1 1 EFDYVFSIDVNEGGPSYK 18 0 H0YBW4;E5RIM3;Q9Y263 H0YBW4 PLAA Phospholipase A-2-activating protein 3 0 EFDY(0.991)VFS(0.01)IDVNEGGPS(1)Y(1)K 50.053 0.018221 3187500 1783.9 2214.8 1509.4 1907.5 2003.2 2496.6 2345.1 2261.3 2043.9 2269 TRUE FALSE FALSE 1971.538787 2286.560973 1715.093171 1944.422421 1849.715249 2283.875635 2081.223176 2203.45922 2029.676333 2366.827694 0.832987881 0.966086792 0.724637951 0.821531042 0.781516649 0.964952219 0.879330245 0.930975764 0.857551371 1 11.20873897 -9.334888533 0.867384558 1.007436615 0.859181347 0 0.085652899 0.636011663 0.785982413 0.064502863 0.01393146 4.62E-10 9.334888533 -0.148255268 EFEVYGPIK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 EFEVYGPIKR 10 1 P08621-2;P08621;P08621-3;M0QYR1 P08621-2 SNRNP70 U1 small nuclear ribonucleoprotein 70 kDa 0 1 EFEVYGPIK(1)R 101.65 0.0041261 1021700 66.051 152.54 0 68.382 179.94 276.76 232.93 140.03 77.33 0 FALSE TRUE FALSE 72.99854723 157.4823961 0 69.70563249 166.1530361 253.178491 206.7201034 136.4482354 76.79185423 0 0 EFFVGLSK ddPTM_HeLa_SAHA_4h_R1 1 EFFVGLSK 8 0 B4DYP1;H0Y7N1;A0A140T971;Q5SSV3;Q5SRR8;O94760-2;O95865;O94760 B4DYP1 DDAH2;DDAH1 "N(G),N(G)-dimethylarginine dimethylaminohydrolase 1;N(G),N(G)-dimethylarginine dimethylaminohydrolase 2" 0 0 97.431 0.020672 475870 288.48 373.8 410 288.96 336.96 410.34 293.97 278.42 422.98 385.85 FALSE FALSE TRUE 318.82365 385.9113653 465.8726648 294.5532386 311.1421976 375.3767235 260.8917219 271.2984195 420.0364477 402.4858818 0.792136232 0.958819632 1.157488215 0.731834959 0.773051209 0.932645691 0.648200928 0.674056984 1.04360542 1 8.652794368 -4.338422361 0.63129394 0.916768647 0.480770989 0.389995385 0.126812484 2.763751667 0.795680054 0.023695162 0.851765925 4.59E-05 4.338422361 -0.435997658 EFGYDSPHDLDS(ph)D ddPTM_HeLa_SAHA_4h_R1 2 EFGYDSPHDLDSD 13 0 Q96CW6 Q96CW6 SLC7A6OS Probable RNA polymerase II nuclear localization protein SLC7A6OS 1 0 EFGYDSPHDLDS(1)D;EFGYDSPHDLDS(1)D ; 116.03 0.0014722 11436900 2604.5 4354.9 2718.6 2904.1 5585.5 4844.3 5177.8 4791 4067.9 3318.6 TRUE FALSE FALSE 2878.45326 4496.001617 3089.07665 2960.313055 5157.540197 4431.538387 4595.180317 4668.453157 4039.591153 3461.681087 0.831518903 1.298791398 0.892363153 0.855166314 1.489894669 1.280169454 1.327441842 1.348608679 1.166944918 1 11.7572571 -5.765536824 24.99999309 0.943697016 1.353282534 0.549042154 0.150617606 45.70199214 278846.6648 0.020340689 0.037857156 1.72E-06 5.765536824 0.409585518 EFHLNES(ph)GDPSSK ddPTM_HeLa_SAHA_4h_R1 1 EFHLNESGDPSSK 13 0 Q01105;A0A0C4DFV9;Q01105-3;Q01105-4;A0A087X027;P0DME0;Q01105-2 Q01105;Q01105-2 SET;SETSIP Protein SET;Protein SETSIP 1 0 EFHLNES(0.999)GDPSSK 109.04 0.0021754 7610900 3113.2 3077.6 2616.3 3162.8 3036.2 1483 3253.7 3375 3308.7 2835.4 TRUE FALSE FALSE 3440.66066 3177.316259 2972.835739 3224.020567 2803.567012 1356.640057 2887.585113 3288.672387 3285.674487 2957.64797 1.163309729 1.074271276 1.005135083 1.090062306 0.947904227 0.45868882 0.976311293 1.111921507 1.110907897 1 11.53023463 -5.525426866 15.85948646 1.071310342 0.835310083 0.285184423 0.160653475 0.760627539 4726.782287 0.023530583 0.047733494 2.98E-06 5.525426866 -0.23600026 EFHLNESGDPSSK ddPTM_HeLa_SAHA_4h_R1 5 EFHLNESGDPSSK 13 0 Q01105;A0A0C4DFV9;Q01105-3;Q01105-4;A0A087X027;P0DME0;Q01105-2 Q01105;Q01105-2 SET;SETSIP Protein SET;Protein SETSIP 0 0 ;;;; ;;;; 127.71 0.0009123 45513500 15185.9 18647.5 12221.5 18912.4 21783.3 7335.75 20596.2 21262 21014.1 17327.5 FALSE FALSE TRUE 16783.22264 19251.69124 13886.98237 19278.47685 20114.26826 6710.70283 18278.66137 20718.14883 20867.86117 18074.57332 0.928554292 1.065125626 0.768315917 1.066607577 1.112848857 0.37127863 1.011291445 1.146259359 1.154542395 1 14.14167397 EFIHYLLDSHRPVGMDIHWEK ddPTM_HeLa_SAHA_4h_R1 1 EFIHYLLDSHRPVGMDIHWEK 21 1 Q7L1S5 Q7L1S5 CHST9 Carbohydrate sulfotransferase 9 0 0 40.856 0.021939 999590 0 0 165.07 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 187.56488 0 0 0 0 0 0 0 0 EFIPPNPWS(ph)SSGLS(ph)GKS(ph)SGTMS(ph)VISK ddPTM_HeLa_SAHA_4h_R1 1 EFIPPNPWSSSGLSGKSSGTMSVISK 26 1 Q9UPZ9 Q9UPZ9 ICK Serine/threonine-protein kinase ICK 4 0 EFIPPNPWS(0.472)S(0.472)S(0.295)GLS(0.718)GKS(0.692)S(0.29)GT(0.29)MS(0.702)VIS(0.069)K 42.746 0.014703 4530000 446.57 655.08 725.86 583.89 445.57 531.28 606.51 418.14 861.91 785.76 TRUE FALSE FALSE 493.5422815 676.3050218 824.7764207 595.1920353 411.4305229 486.0119551 538.2638986 407.4445843 855.9118981 819.637959 0.602146687 0.825126526 1.006269185 0.726164557 0.501966165 0.592959306 0.656709334 0.497103117 1.044256051 1 9.67884299 -5.954707178 5.802355361 0.823650357 0.573732871 0.549877943 0.134425604 0.167245397 13.43770219 0.024128591 0.043890209 1.11E-06 5.954707178 -0.249917485 EFITGDVEPTDAES(ph)EWHSENEEEEK ddPTM_HeLa_SAHA_4h_R1 1 EFITGDVEPTDAESEWHSENEEEEK 25 0 E9PNJ7;C9J6D1;Q99733;Q99733-2;E9PS34;A8MXH2;E9PKT8;C9JZI7 E9PNJ7 NAP1L4 Nucleosome assembly protein 1-like 4 1 0 EFITGDVEPT(0.013)DAES(0.885)EWHS(0.102)ENEEEEK 102.19 4.34E-06 24178000 1094.7 1855.4 571.78 1458.5 1883.8 2602.6 1892.2 1733.5 2918.1 1904.3 TRUE FALSE FALSE 1209.845569 1915.516177 649.6992007 1486.731377 1739.463651 2380.843838 1679.284676 1689.15958 2897.792705 1986.403692 0.60906329 0.964313641 0.327073094 0.748453792 0.875684866 1.198569982 0.845389425 0.850360673 1.458813591 1 10.95594313 -5.524350876 14.85248351 0.779959746 0.966880058 0 0.293354415 0.494178567 4894.887476 0.032730599 0.066650459 2.99E-06 5.524350876 0.186920311 EFITGDVEPTDAESEWHS(ph)ENEEEEK ddPTM_HeLa_SAHA_4h_R1 3 EFITGDVEPTDAESEWHSENEEEEK 25 0 E9PNJ7;C9J6D1;Q99733;Q99733-2;E9PS34;A8MXH2;E9PKT8;C9JZI7 E9PNJ7 NAP1L4 Nucleosome assembly protein 1-like 4 1 0 EFITGDVEPTDAES(0.444)EWHS(0.555)ENEEEEK;EFITGDVEPTDAES(0.001)EWHS(0.999)ENEEEEK;EFITGDVEPTDAES(0.252)EWHS(0.748)ENEEEEK ;; 157.09 2.60E-10 214487000 3854.31 7374.1 3002.89 5781.4 8387.9 11536.7 6282.4 6478.6 11358.5 7338.3 TRUE FALSE FALSE 4259.72401 7613.025678 3412.108211 5893.307357 7745.220914 10553.70826 5575.487818 6312.886793 11279.45527 7654.690026 0.5564855 0.994557017 0.445753936 0.769894971 1.011826852 1.378724445 0.728375388 0.824708352 1.47353521 1 12.90212824 -5.763624967 24.07121114 0.772659726 0.995571816 0 0.315184584 53.13326377 585207.9575 0.036911869 0.069378519 1.72E-06 5.763624967 0.22291209 EFITGDVEPTDAESEWHS(ph)ENEEEEKLAGDMK ddPTM_HeLa_SAHA_4h_R1 10 EFITGDVEPTDAESEWHSENEEEEKLAGDMK 31 1 E9PNJ7;C9J6D1;Q99733;Q99733-2;A8MXH2;E9PKT8;C9JZI7 E9PNJ7 NAP1L4 Nucleosome assembly protein 1-like 4 1 0 EFITGDVEPT(0.004)DAES(0.25)EWHS(0.747)ENEEEEKLAGDMK;EFITGDVEPT(0.001)DAES(0.055)EWHS(0.944)ENEEEEKLAGDMK;EFITGDVEPT(0.001)DAES(0.036)EWHS(0.963)ENEEEEKLAGDMK;EFITGDVEPT(0.002)DAES(0.049)EWHS(0.949)ENEEEEKLAGDMK;EFITGDVEPT(0.007)DAES(0.153)EWHS(0.84)ENEEEEKLAGDMK;EFITGDVEPT(0.018)DAES(0.208)EWHS(0.774)ENEEEEKLAGDMK;EFITGDVEPT(0.005)DAES(0.246)EWHS(0.749)ENEEEEKLAGDMK;EFITGDVEPTDAES(0.015)EWHS(0.985)ENEEEEKLAGDMK;EFITGDVEPT(0.003)DAES(0.045)EWHS(0.952)ENEEEEKLAGDMK;EFITGDVEPT(0.006)DAES(0.076)EWHS(0.918)ENEEEEKLAGDMK ;;;;;;;;; 123.68 4.11E-12 939620400 14145.89 18431.7 11328.07 18407.4 24846.2 31635.7 22017 25437.8 19427.7 21593.7 TRUE FALSE FALSE 15633.81961 19028.89917 12871.80039 18763.70184 22942.48952 28940.16038 19539.58921 24787.13791 19292.50105 22524.71008 0.694074177 0.84480107 0.571452433 0.833027452 1.018547606 1.284818329 0.867473505 1.10044204 0.856503857 1 14.45922092 -5.706890363 4.632382401 0.825942696 1.074516608 0.457288991 0.142209774 0.187169917 8.286453654 0.024334648 0.049009712 1.96E-06 5.706890363 0.248573913 EFLEDYDDDRDDPKYYR ddPTM_HeLa_SAHA_4h_R1 2 EFLEDYDDDRDDPKYYR 17 2 P49756 P49756 RBM25 RNA-binding protein 25 0 0 ; ; 94.781 0.0020619 24605400 7807.9 6079 7042.1 7767.5 8407.5 9389.7 8451.9 6460.9 6678 8179.6 FALSE FALSE TRUE 8629.170746 6275.963589 8001.760714 7917.851194 7763.319166 8589.644735 7500.869968 6295.639533 6631.527254 8532.262586 1.01135785 0.735556779 0.93782401 0.927989629 0.909878135 1.006725314 0.87911851 0.737862844 0.777229625 1 13.05871265 -1 0.153091191 1.036603647 0.249727508 0 0.113332776 64.00602302 0.629326378 0.185061314 11.28735782 0.1 1 -0.786876139 EFLHAQEEVKR ddPTM_HeLa_SAHA_4h_R1 1 EFLHAQEEVKR 11 1 P43686 P43686 PSMC4 26S protease regulatory subunit 6B 0 0 86.882 0.0081657 3460600 3232 2907 3241 3441 3227.8 4252.5 3781 2929.1 3125.4 3561.9 FALSE FALSE TRUE 3571.956589 3001.188707 3682.666602 3507.605531 2980.486661 3890.163076 3355.551929 2854.177863 3103.650087 3715.470941 0.961373846 0.80775459 0.99117088 0.944054088 0.802182741 1.047017495 0.903129639 0.768187374 0.835331547 1 11.85932937 -1 0.077443639 1.095882979 0.478980697 0 0.096970908 214.510559 1.226638442 1.568689118 14.29156344 0.1 1 -0.616902282 EFNAEVHR ddPTM_HeLa_SAHA_4h_R1 4 EFNAEVHR 8 0 P46777;A0A2R8Y6J3 P46777 RPL5 60S ribosomal protein L5 0 0 ;;; ;;; 156.35 6.32E-05 43066100 27530.3 29756.2 26073 30346.9 31714 29247.6 33692.3 23636.9 30403.6 26302.6 FALSE FALSE TRUE 30426.06327 30720.3204 29626.09266 30934.30813 29284.08017 26755.53994 29901.15373 23032.30232 30192.01887 27436.63381 1.108957589 1.119682561 1.079800564 1.127481904 1.067335023 0.97517575 1.089825885 0.8394726 1.100427227 1 14.74381587 -4.25699033 24.73143846 1.061810292 0.839472496 0.66917768 0.048827452 216.8225128 1205223.916 0.007821776 0.082487809 5.53E-05 4.25699033 -0.222337796 EFNAEVHRK ddPTM_HeLa_SAHA_4h_R1 3 EFNAEVHRK 9 1 P46777;A0A2R8Y6J3 P46777 RPL5 60S ribosomal protein L5 0 0 ;; ;; 82.75 0.010039 12938700 8469.44 7339.25 8242.75 8594.06 8610.7 8059.09 10580.8 7024.22 7062.03 7747.69 FALSE FALSE TRUE 9360.294558 7577.046515 9366.029044 8760.410459 7950.950026 7372.410193 9390.220537 6844.550623 7012.884758 8081.730832 1.158204196 0.937552447 1.158913757 1.083977014 0.983817723 0.912231593 1.161907113 0.84691643 0.867745401 1 12.98044859 -5.757242775 24.33398051 1.072613989 0.98491121 0 0.116636888 113.33606 657164.8938 0.014288176 0.027766713 1.75E-06 5.757242775 -0.087702779 EFPDVLECTVSHAVEK ddPTM_HeLa_SAHA_4h_R1 1 EFPDVLECTVSHAVEK 16 0 P48507 P48507 GCLM Glutamate--cysteine ligase regulatory subunit 0 0 121.95 0.00015671 578340 291.09 221.31 223.98 253.24 314.99 298.37 384.87 304.97 283.57 204.25 FALSE FALSE TRUE 321.7081818 228.4805892 254.502828 258.1418264 290.8555343 272.9471974 341.5634147 297.169309 281.5966133 213.0562171 1.509968525 1.072395785 1.194533684 1.211613676 1.365158634 1.28110412 1.603160984 1.394792947 1.321700991 1 7.73509034 -9.533481934 1.252444728 0.997283913 1.343497849 0.004996403 0.175793116 0.389131647 1.079115814 0.116637642 0.026925794 2.93E-10 9.533481934 0.346213937 EFPGFLENQKDPLAVDK ddPTM_HeLa_SAHA_4h_R1 1 EFPGFLENQKDPLAVDK 17 1 P60903 P60903 S100A10 Protein S100-A10 0 0 107.82 0.0020813 2455100 577.3 478.61 488.37 661.99 637.99 454.05 734.93 664.64 304.61 299.99 FALSE FALSE TRUE 638.0230627 494.117278 554.9225203 674.8037737 589.107344 415.3623856 652.2337422 647.6394712 302.4901942 312.924037 2.03890717 1.579032671 1.773345779 2.156445955 1.882588981 1.327358517 2.084319723 2.069637978 0.966656947 1 8.289668672 -9.36497751 0.857855878 0.943688033 1.867104806 0.675120447 0.243567066 0.360728331 0.427148544 0.229039481 0.046817283 4.32E-10 9.36497751 0.923416774 EFS(ph)S(ph)NMY(ph)LS(ph)RLRR ddPTM_HeLa_SAHA_4h_R1 1 EFSSNMYLSRLRR 13 2 Q9BZM3 Q9BZM3 GSX2 GS homeobox 2 4 0 EFS(1)S(1)NMY(1)LS(1)RLRR 50.077 0.02158 9679300 0 0 0 0 74.013 0 0 165.57 0 0 TRUE FALSE FALSE 0 0 0 0 68.34213993 0 0 161.3349591 0 0 0 EFSGPS(ph)TPTGTLEFEGGEVSLEGGK ddPTM_HeLa_SAHA_4h_R1 1 EFSGPSTPTGTLEFEGGEVSLEGGK 25 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 EFS(0.006)GPS(0.496)T(0.496)PT(0.002)GTLEFEGGEVSLEGGK 169.44 2.14E-11 36817000 2790.8 4931.7 3854.7 3046.4 3779.4 5282.7 4613.4 2842.9 5001.5 4464.8 TRUE FALSE FALSE 3084.349149 5091.490316 4379.998442 3105.367477 3489.823188 4832.58424 4094.28809 2770.182734 4966.694154 4657.299378 0.662261302 1.09322805 0.940458855 0.666774288 0.749323354 1.037636589 0.879112069 0.594804523 1.066432228 1 12.18527791 -6.333459321 24.99997461 0.866249751 0.802714142 0.099058413 0.167982613 544.2007024 188904.0783 0.028327041 0.043270273 4.64E-07 6.333459321 -0.063535609 EFSGPST(ph)PTGTLEFEGGEVSLEGGK ddPTM_HeLa_SAHA_4h_R1 1 EFSGPSTPTGTLEFEGGEVSLEGGK 25 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 EFS(0.006)GPS(0.119)T(0.621)PT(0.088)GT(0.167)LEFEGGEVSLEGGK 133.61 3.11E-09 37790000 1861.4 3603.3 2466 2122.3 2997 3156 2896.2 2211.2 3149.5 2530.2 TRUE FALSE FALSE 2057.190592 3720.049284 2802.053638 2163.380185 2767.370507 2887.091045 2570.311954 2154.640706 3127.582373 2639.289304 0.779448691 1.409489016 1.061669758 0.819682852 1.048528671 1.093889571 0.97386518 0.816371552 1.185009301 1 11.36593378 EFSIDVGYER ddPTM_HeLa_SAHA_4h_R1 1 EFSIDVGYER 10 0 B4DXW1;P61158 B4DXW1 ACTR3 Actin-related protein 3 0 0 123.86 0.01511 7471200 1172.1 1230.7 1468.6 2253.3 1537.7 1632.2 1580.5 1391.8 1607.8 1317.5 FALSE FALSE TRUE 1295.386856 1270.575487 1668.73316 2296.91588 1419.881758 1493.127377 1402.65798 1356.199771 1596.611189 1374.303873 0.942576734 0.924522962 1.214238854 1.671330428 1.033164343 1.086460867 1.020631614 0.986826712 1.161759943 1 10.42448532 -6.760645642 24.99993291 0.968498746 1.174979364 0.130462546 0.193913753 25.34285727 798196.8248 0.030397176 0.041566469 1.74E-07 6.760645642 0.206480617 EFSPFGSITSAK ddPTM_HeLa_SAHA_4h_R1 1 EFSPFGSITSAK 12 0 B1ANR0;Q13310-2;Q13310;Q13310-3;H0Y5F5;H0YEU6 B1ANR0 PABPC4 Polyadenylate-binding protein;Polyadenylate-binding protein 4 0 0 121.83 0.0013424 0 67.307 77.545 0 0 0 0 139.89 0 0 126.42 FALSE FALSE TRUE 74.38665908 80.05750888 0 0 0 0 124.149209 0 0 131.8705849 0.564088338 0.607091483 0 0 0 0 0.941447322 0 0 1 7.042978982 -7.728993307 0.737980103 0.920730343 0.184949954 0 0.414303448 0.354083963 0.422135105 0.094941808 0.082487046 1.87E-08 7.728993307 -0.735780389 EFSPFGTITSAK ddPTM_HeLa_SAHA_4h_R1 1 EFSPFGTITSAK 12 0 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YAR2;H0YB86;H0YAP2 P11940 PABPC1 Polyadenylate-binding protein 1;Polyadenylate-binding protein 0 0 175.15 1.04E-10 547560 0 0 0 0 63.764 69.307 158.88 0 0 146.07 FALSE FALSE TRUE 0 0 0 0 58.8784161 63.40165369 141.0024043 0 0 152.3677925 0 0 0 0 0.386422978 0.416109288 0.925408197 0 0 1 7.251414168 -9.359480394 1.084558055 0.999670968 0.215201571 0 0.416132395 0.353127392 0.743640725 0.209236691 0.054471893 4.37E-10 9.359480394 -0.784469397 EFT(ph)GSPPSSATK ddPTM_HeLa_SAHA_4h_R1 1 EFTGSPPSSATK 12 0 Q92609;Q92609-2;C9J3F6 Q92609 TBC1D5 TBC1 domain family member 5 1 0 EFT(0.984)GS(0.016)PPSSATK 185.57 1.74E-06 23775000 2702.6 3133.8 2462.9 2882.2 3380.7 4037 2961.4 2808.1 3834.1 2790.8 TRUE FALSE FALSE 2986.871868 3235.337176 2798.531186 2937.989149 3121.671496 3693.024888 2628.175478 2736.272868 3807.418186 2911.125046 1.026019776 1.111370046 0.961322905 1.009228083 1.07232477 1.268590263 0.902804049 0.939936562 1.307885483 1 11.5073611 -8.272239661 1.08780935 1.00444279 1.039610128 0 0.136597778 1.711275725 4.18704884 0.028936394 0.020150225 5.34E-09 8.272239661 0.035167337 EFTESQLQEGK ddPTM_HeLa_SAHA_4h_R1 1 EFTESQLQEGK 11 0 Q01995;H0YCU9 Q01995 TAGLN Transgelin 0 0 159.94 1.03E-10 0 474.08 595.09 497.83 540.59 568.89 566.58 663.47 613.12 555.76 563.94 FALSE FALSE TRUE 523.9459096 614.3713065 565.6716798 551.0539012 525.3017711 518.3041965 588.8146094 597.4372782 551.8924209 588.2542133 0.8906794 1.04439763 0.961610928 0.936761503 0.89298429 0.881088796 1.000952643 1.015610708 0.938186941 1 9.200295938 -6.262447699 23.00857764 0.956696647 0.942067755 0.019025248 0.054151133 171.4186525 3911713.073 0.0096848 0.01534955 5.46E-07 6.262447699 -0.014628892 EFVISDR ddPTM_HeLa_SAHA_4h_R1 2 EFVISDR 7 0 Q14019;H3BT58 Q14019 COTL1 Coactosin-like protein 0 0 ; ; 136.11 0.0049375 22877100 3958.2 3544.1 3221.6 4119.9 3634.8 4173.7 3812 3986.4 4726.5 3752.5 FALSE FALSE TRUE 4374.541637 3658.931165 3660.622871 4199.646622 3356.302409 3818.077279 3383.063727 3884.43366 4693.607902 3914.288639 1.117582795 0.934762738 0.935194925 1.07290162 0.85744888 0.975420474 0.864285708 0.992372821 1.199096013 1 11.93453443 -7.243495281 24.24396942 1.055525209 0.94624665 0.42258669 0.078373243 446.9514324 603868.4873 0.011355036 0.013888378 5.71E-08 7.243495281 -0.109278559 EFVPGVK(ac)YGNI ddPTM_HeLa_SAHA_4h_R1 1 EFVPGVKYGNI 11 1 D6R9Y1;Q9BPZ3 D6R9Y1 PAIP2 Polyadenylate-binding protein-interacting protein 2 0 1 EFVPGVK(1)YGNI 91.584 0.023621 396370 340.41 354.7 382.87 446.5 402.82 350.06 525.97 210.14 237.52 222.93 FALSE TRUE FALSE 376.2158857 366.1925127 435.0455297 455.1426531 371.9560186 320.2329186 466.7864713 204.7649231 235.867079 232.5416033 1.617843346 1.574739778 1.870828805 1.957252581 1.599524616 1.37709947 2.007324559 0.880551782 1.014300562 1 7.861345037 -9.019212657 0.750335588 0.985838392 1.637411155 0.376821841 0.307473787 0.558403952 0.559123961 0.211577377 0.06004528 9.57E-10 9.019212657 0.651572763 EGAAS(ph)PAPETPQPTSPETSPK ddPTM_HeLa_SAHA_4h_R1 1 EGAASPAPETPQPTSPETSPK 21 0 Q9Y3X0;A0A2R8Y4Z8 Q9Y3X0 CCDC9 Coiled-coil domain-containing protein 9 1 0 EGAAS(0.819)PAPET(0.181)PQPTSPETSPK 123.2 2.05E-05 5565200 2024.5 2622.2 2315.1 2531.9 2825.1 2702.2 2532.9 2490.7 2894.7 1994.3 TRUE FALSE FALSE 2237.446199 2707.161 2630.589771 2580.908586 2608.641448 2471.957358 2247.891426 2426.9915 2874.555547 2080.284033 1.075548417 1.301342008 1.264533943 1.240652019 1.253983306 1.188278773 1.080569475 1.166663524 1.381809167 1 11.02256481 -7.446359934 4.613685465 1.032070067 1.21199606 0 0.125293397 0.110708656 4.156113729 0.011865264 0.013328558 3.58E-08 7.446359934 0.179925993 EGAASPAPETPQPT(ph)SPETSPK ddPTM_HeLa_SAHA_4h_R1 1 EGAASPAPETPQPTSPETSPK 21 0 Q9Y3X0;A0A2R8Y4Z8 Q9Y3X0 CCDC9 Coiled-coil domain-containing protein 9 1 0 EGAASPAPET(0.001)PQPT(0.48)S(0.48)PET(0.03)S(0.009)PK 70.114 0.0052519 5225000 1986.2 2619.2 2222.6 1924.5 2427.6 2768.3 2292.6 2286.6 2096 1874.1 TRUE FALSE FALSE 2195.117629 2704.063799 2525.484353 1961.75148 2241.597812 2532.425266 2034.630614 2228.112083 2081.413765 1954.901623 1.122878821 1.383222443 1.291872862 1.00350394 1.146655047 1.295423379 1.040784145 1.139756629 1.06471535 1 10.93288029 -8.265747049 1.233229772 1.024201781 1.178864618 0.210062887 0.112307425 0.41399809 1.287327262 0.031689145 0.023107346 5.42E-09 8.265747049 0.154662837 EGAKDIDISS(ph)PEFK ddPTM_HeLa_SAHA_4h_R1 2 EGAKDIDISSPEFK 14 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 EGAKDIDIS(0.026)S(0.974)PEFK;EGAKDIDIS(0.013)S(0.987)PEFK ; 123.92 0.00045134 193319000 18817.3 6540.2 17717.9 11126.1 11847.3 8498.2 15118.6 18687.1 3543.2 10762.4 TRUE FALSE FALSE 20796.58995 6752.106771 20132.40314 11341.46175 10939.56243 7774.10555 13417.41534 18209.11104 3518.542583 11226.41973 1.852468591 0.601447918 1.793305757 1.010247436 0.974448016 0.692483065 1.195164234 1.621987372 0.313416269 1 13.45461028 EGALCEENMR ddPTM_HeLa_SAHA_4h_R1 2 EGALCEENMR 10 0 P13639 P13639 EEF2 Elongation factor 2 0 0 ; ; 169.65 0.00060565 30810100 2105.49 1571.23 1294 1411.35 1639.06 1583.43 1658.95 1656.49 1586.35 1347.71 FALSE FALSE TRUE 2326.955099 1622.138883 1470.339581 1438.66872 1513.475577 1448.512856 1472.28058 1614.119384 1575.310461 1405.816374 1.655234028 1.153876789 1.045897323 1.023368875 1.07658127 1.030371308 1.047278014 1.148172275 1.120566306 1 10.45719245 -7.010021232 24.27206489 1.314423401 1.062182489 0.206806896 0.162234983 414.7632761 1004586.129 0.039503906 0.050233539 9.77E-08 7.010021232 -0.252240912 EGDELEDNGKNFYES(ph)DDDQKEK ddPTM_HeLa_SAHA_4h_R1 1 EGDELEDNGKNFYESDDDQKEK 22 2 O00203-3;O00203 O00203-3 AP3B1 AP-3 complex subunit beta-1 1 0 EGDELEDNGKNFY(0.216)ES(0.784)DDDQKEK 49.306 0.011891 49607000 2077.1 2474.2 1837.2 2317.4 2573.4 2712.9 2102.3 2394.7 2642.1 2409.6 TRUE FALSE FALSE 2295.578908 2554.365703 2087.564048 2362.256628 2376.226648 2481.745658 1865.743671 2333.447041 2623.713411 2513.489648 0.913303506 1.016262671 0.83054412 0.939831453 0.945389471 0.98737055 0.742292164 0.928369466 1.043852881 1 11.29547603 -11.98915771 0.014800164 2.028925579 3.07E-06 0.270989539 0.073504425 3977.178709 6.322506351 506.5534404 369.8883075 1.03E-12 11.98915771 -2.028922508 EGDGVYYNELETR ddPTM_HeLa_SAHA_4h_R1 1 EGDGVYYNELETR 13 0 Q8N7H5-3;Q8N7H5-2;Q8N7H5 Q8N7H5-3 PAF1 RNA polymerase II-associated factor 1 homolog 0 0 171.26 0.00013314 3933800 611.6 576.02 581.66 638.06 621.16 597.41 602.85 772.49 609.26 596.42 FALSE FALSE TRUE 675.9308941 594.6834259 660.9255956 650.410574 573.566855 546.5073071 535.0157314 752.7308244 605.0201101 622.134585 1.086470533 0.955875851 1.062351478 1.045449955 0.921933724 0.878439039 0.859967834 1.209916379 0.972490719 1 9.281082899 -5.771281196 24.9283373 1.036786022 0.953512699 0.042880515 0.098161877 277.8036298 703649.6016 0.013641343 0.024944952 1.69E-06 5.771281196 -0.083273322 EGDIIPPLTGAT(ph)PPLIGHLK ddPTM_HeLa_SAHA_4h_R1 1 EGDIIPPLTGATPPLIGHLK 20 0 Q12888;Q12888-3;Q12888-2;A6NNK5;H7C3N7 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 EGDIIPPLTGAT(1)PPLIGHLK 140.59 5.56E-05 1021900 588.44 616.79 609.16 785.63 656.16 863.76 754.81 764.75 895.42 708.24 TRUE FALSE FALSE 650.3348191 636.7744007 692.1731524 800.8370047 605.8851626 790.1627886 669.8767922 745.1888023 889.1886993 738.7756924 0.880287245 0.861931987 0.936919229 1.084005623 0.820120598 1.069557102 0.906739081 1.008680727 1.203597666 1 9.528992589 -6.478343278 24.9847899 0.934043188 0.974232536 0 0.116502825 1169.607 656160.0159 0.012505021 0.019100991 3.32E-07 6.478343278 0.040189348 EGDLIAAQAR ddPTM_HeLa_SAHA_4h_R1 2 EGDLIAAQAR 10 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 122.33 0.0071158 13895000 3238.9 3188.34 2645.24 2885.9 3228 3134.6 3454.95 3169.32 2671.45 2742.76 FALSE FALSE TRUE 3579.582363 3291.644308 3005.719531 2941.760768 2980.671337 2867.514445 3066.189933 3088.253384 2652.859162 2861.013806 1.251158717 1.150516751 1.050578478 1.028223199 1.041823472 1.002272145 1.071714483 1.079426243 0.927244446 1 11.48231074 -6.709907832 8.024617628 1.124283216 1.043656427 0 0.086670015 0.391240266 53.63108161 0.015168485 0.021416997 1.95E-07 6.709907832 -0.080626789 EGDNVNYDWIHWDPEHSYEFK ddPTM_HeLa_SAHA_4h_R1 2 EGDNVNYDWIHWDPEHSYEFK 21 0 E9PGM4;Q04446 E9PGM4 GBE1 "1,4-alpha-glucan-branching enzyme" 0 0 ; ; 187.73 3.51E-15 13304100 6865.6 6908.6 6082 7147.6 7196.7 2950.5 7235.5 6433.5 6812.7 7558.6 FALSE FALSE TRUE 7587.755309 7132.443173 6910.823286 7285.952134 6645.290401 2699.100801 6421.342497 6268.940386 6765.289866 7884.488237 0.962364973 0.904617137 0.876508795 0.92408688 0.842830911 0.3423305 0.814427304 0.795097944 0.8580506 1 12.9448014 -5.509866119 15.87174329 0.959727794 0.654594292 0.452511052 0.128839616 2.817593836 3434.970464 0.017590622 0.037553729 3.09E-06 5.509866119 -0.305133503 EGDPVSLSTPLETEFGS(ph)PSELS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 EGDPVSLSTPLETEFGSPSELSPR 24 0 E9PMR3;E9PMG4;Q9BUR4 E9PMR3 WRAP53 Telomerase Cajal body protein 1 2 0 EGDPVS(0.012)LS(0.028)T(0.148)PLET(0.341)EFGS(0.774)PS(0.263)ELS(0.434)PR 72.707 0.0022083 741250 272.81 268.8 249.76 240.6 288.71 364.35 398.58 298.77 220.38 234.78 TRUE FALSE FALSE 301.5054075 277.5092964 283.7959921 245.2571609 266.5891022 333.3053302 353.7307294 291.127896 218.8463576 244.9025148 1.231124179 1.133141881 1.158812078 1.001448111 1.088551918 1.360971448 1.44437361 1.188750129 0.893606004 1 7.936063778 -1.000014128 0.024315223 3.20E-08 2.80639977 0.419615324 0.121341742 1708.100071 3.22754474 130.1064203 264.9589551 0.099996747 1.000014128 2.806399737 EGDPVSLSTPLETEFGS(ph)PSELSPR ddPTM_HeLa_SAHA_4h_R1 2 EGDPVSLSTPLETEFGSPSELSPR 24 0 E9PMR3;E9PMG4;Q9BUR4 E9PMR3 WRAP53 Telomerase Cajal body protein 1 1 0 EGDPVSLSTPLETEFGS(0.893)PS(0.105)ELS(0.002)PR;EGDPVSLSTPLET(0.021)EFGS(0.954)PS(0.025)ELSPR ; 191.15 4.15E-16 13486400 3482.4 3229.2 3002.6 3345.4 3706 4409.5 3993.8 3732.4 3561.8 3213.9 TRUE FALSE FALSE 3848.69481 3333.828199 3411.778691 3410.155055 3422.047081 4033.785793 3544.407113 3636.930612 3537.013144 3352.466957 1.148018715 0.994440286 1.017691967 1.017207656 1.020754902 1.203229098 1.057253407 1.084852038 1.055047876 1 11.7110074 -9.730447163 1.654542674 1.000007512 1.079186219 0.010992756 0.064427764 0.575690835 2.848239138 0.048791494 0.010627662 1.86E-10 9.730447163 0.079178706 EGDPVSLSTPLETEFGSPSELS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 EGDPVSLSTPLETEFGSPSELSPR 24 0 E9PMR3;E9PMG4;Q9BUR4 E9PMR3 WRAP53 Telomerase Cajal body protein 1 1 0 EGDPVSLSTPLETEFGSPS(0.014)ELS(0.986)PR;EGDPVSLSTPLETEFGSPS(0.098)ELS(0.902)PR;EGDPVSLSTPLETEFGS(0.003)PS(0.234)ELS(0.763)PR;EGDPVSLSTPLETEFGS(0.001)PS(0.063)ELS(0.936)PR ;;; 213.71 2.00E-30 46312100 4787.52 5246.22 4113.3 5012.73 5048.18 6017.13 5724.3 5812.4 5570.85 4565.58 TRUE FALSE FALSE 5291.09332 5416.20097 4673.839103 5109.758638 4661.389539 5504.436673 5080.186698 5663.727224 5532.082001 4762.424497 1.111008337 1.137278076 0.981399097 1.072932209 0.978784974 1.155805552 1.06672278 1.189252917 1.161610437 1 12.21748051 -9.4001133 1.100051108 0.999502184 1.084669721 0 0.081634354 0.670430416 1.43809406 0.044174978 0.010997332 3.98E-10 9.4001133 0.085167537 EGDVLTLLESER ddPTM_HeLa_SAHA_4h_R1 7 EGDVLTLLESER 12 0 P62857 P62857 RPS28 40S ribosomal protein S28 0 0 ;;;;;; ;;;;;; 252.14 1.11E-40 154045110 8717.707 8729.42 8792.22 10034.23 9996.58 11035.32 10449.52 10096.68 9853.2 8720.07 FALSE FALSE TRUE 9634.675421 9012.258936 9990.377954 10228.45703 9230.6442 10095.04865 9273.712508 9838.421545 9784.630779 9096.034893 1.059217069 0.990789838 1.098322299 1.12449624 1.01479868 1.109829588 1.019533524 1.081616513 1.075702863 1 13.15102207 -9.35393572 0.367375501 0.975832257 1.06892983 0 0.046979919 3.040757407 0.51076817 0.114921365 0.015745824 4.43E-10 9.35393572 0.093097574 EGDYVLFHHEGGVDVGDVDAK ddPTM_HeLa_SAHA_4h_R1 2 EGDYVLFHHEGGVDVGDVDAK 21 0 P53396;P53396-2 P53396 ACLY ATP-citrate synthase 0 0 ; ; 132.14 2.10E-06 47390000 6797.7 6921.9 8670.6 9162.9 9186.6 4018.9 10180 7195.1 10187.1 8609.3 FALSE FALSE TRUE 7512.713275 7146.174102 9852.184213 9340.261179 8482.724693 3676.46711 9034.519608 7011.05976 10116.20714 8980.489056 0.836559482 0.795744425 1.097065444 1.040061529 0.944572689 0.409383842 1.006016438 0.780699104 1.12646506 1 13.1325783 -5.412830645 19.76870206 0.935105853 0.745680699 0.281231154 0.170123702 6.039493969 1074.863041 0.022482943 0.050273474 3.87E-06 5.412830645 -0.189425154 EGEDGDQPT(ph)TPPKPLK ddPTM_HeLa_SAHA_4h_R1 1 EGEDGDQPTTPPKPLK 16 1 M0R0Q7;P18858-2;P18858-3;P18858;B4E135 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 EGEDGDQPT(0.648)T(0.352)PPKPLK 81.317 0.013133 30811000 1416.1 1629 1150.6 1082.2 1777.5 1843.5 1702.1 1243.1 2025.8 1462 TRUE FALSE FALSE 1565.051895 1681.780669 1307.397776 1103.147546 1641.308334 1686.423429 1510.575228 1211.303302 2011.702293 1525.033975 1.026240675 1.102782428 0.857290918 0.723359324 1.076243783 1.105826792 0.990519066 0.794279552 1.319119656 1 10.57462567 -6.758608425 24.99980186 1.019516983 0.933568522 0.184131091 0.148256922 131.7700775 1163635.768 0.018836588 0.025972083 1.74E-07 6.758608425 -0.085948461 EGEDGDQPTT(ph)PPKPLK ddPTM_HeLa_SAHA_4h_R1 1 EGEDGDQPTTPPKPLK 16 1 M0R0Q7;P18858-2;P18858-3;P18858;B4E135 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 EGEDGDQPT(0.429)T(0.571)PPKPLK 77.39 0.015757 36123000 2641.1 3228.2 2394.6 3020.8 3760.6 3919.8 3085.5 2887 4460.2 3123 TRUE FALSE FALSE 2918.903016 3332.795798 2720.923617 3079.271952 3472.46364 3585.810988 2738.311419 2813.15472 4429.161105 3257.647814 0.896015525 1.023068173 0.835241798 0.94524397 1.065942005 1.100736235 0.840579331 0.863553976 1.359619381 1 11.66961493 EGEELVMDEEAYVLYHR ddPTM_HeLa_SAHA_4h_R1 1 EGEELVMDEEAYVLYHR 17 0 Q9BQ67 Q9BQ67 GRWD1 Glutamate-rich WD repeat-containing protein 1 0 0 74.141 0.006769 0 729.58 838.76 719.23 624.46 803.39 952.45 762.7 849.14 726.6 757.72 FALSE FALSE TRUE 806.3205718 865.9363743 817.2429188 636.5473263 741.8344318 871.2959017 676.8789887 827.4202283 721.5435314 790.3890174 1.020156599 1.095582498 1.03397555 0.805359528 0.93856875 1.102363371 0.856387138 1.046851879 0.912896707 1 9.62641909 EGEEPT(ph)VYSDEEEPKDESAR ddPTM_HeLa_SAHA_4h_R1 1 EGEEPTVYSDEEEPKDESAR 20 1 O00264-2;O00264 O00264-2 PGRMC1 Membrane-associated progesterone receptor component 1 1 0 EGEEPT(0.858)VY(0.002)S(0.14)DEEEPKDESAR 145.73 5.18E-05 235340000 801.17 2586.6 1313.1 1169.3 1522 1237.4 1420.8 1169 1887.8 1286.3 TRUE FALSE FALSE 885.4407365 2670.407537 1492.04243 1191.933492 1405.384689 1131.966559 1260.927845 1139.098673 1874.662646 1341.758688 0.659910567 1.990229362 1.112005045 0.888336705 1.047419854 0.84364392 0.939757541 0.848959416 1.397168256 1 10.38990951 EGEEPTVYS(ph)DEEEPKDESAR ddPTM_HeLa_SAHA_4h_R1 2 EGEEPTVYSDEEEPKDESAR 20 1 O00264-2;O00264 O00264-2 PGRMC1 Membrane-associated progesterone receptor component 1 1 0 EGEEPTVYS(1)DEEEPKDESAR;EGEEPTVY(0.002)S(0.997)DEEEPKDESAR ; 121.91 9.99E-05 22276000 1711.35 4754.4 2387 2100.4 2970.3 2979.9 2739.6 2335.6 2586.9 2960.7 TRUE FALSE FALSE 1891.357645 4908.445679 2712.287929 2141.056279 2742.716256 2725.995756 2431.332998 2275.858734 2568.897552 3088.350266 0.612416819 1.589342288 0.878231967 0.693268604 0.888084582 0.882670526 0.787259471 0.736917298 0.831802526 1 11.59262067 -6.485374595 24.46335931 0.887121515 0.804705817 0.060780308 0.247936857 1905.849024 1243154.44 0.042512701 0.064927481 3.27E-07 6.485374595 -0.082415698 EGEET(ph)EGSEEDDKENDKTEEMPNDSVLENK ddPTM_HeLa_SAHA_4h_R1 1 EGEETEGSEEDDKENDKTEEMPNDSVLENK 30 2 P49321-4;P49321;P49321-3 P49321-4 NASP Nuclear autoantigenic sperm protein 1 0 EGEET(0.34)EGS(0.309)EEDDKENDKT(0.34)EEMPNDS(0.011)VLENK 50.294 0.019164 8745200 486.24 950.43 719.33 822.36 888.63 1270.4 956.51 898.55 1843.3 844.59 TRUE FALSE FALSE 537.3849541 981.2245556 817.3565463 838.277967 820.5433614 1162.154773 848.8809774 875.5663921 1830.472325 881.0044082 0.609968519 1.113756692 0.927755342 0.951502579 0.931372594 1.31912481 0.963537718 0.993827481 2.077710745 1 9.783005428 -7.239225642 24.94135413 0.815818452 1.026766335 0 0.423244686 845.9116218 949781.9274 0.029589325 0.036224026 5.76E-08 7.239225642 0.210947883 EGEFVAQFK ddPTM_HeLa_SAHA_4h_R1 3 EGEFVAQFK 9 0 Q9UQ80;Q9UQ80-2 Q9UQ80 PA2G4 Proliferation-associated protein 2G4 0 0 ;; ;; 144.09 0.0020466 16966910 2583.76 2606.39 2176.89 2809.97 2452.49 3218.49 2953.27 2765.6 2736.25 2691.42 FALSE FALSE TRUE 2855.531732 2690.838746 2473.545232 2864.361033 2264.580746 2944.256545 2620.960287 2694.859957 2717.208213 2807.460288 1.017122751 0.958460128 0.881061521 1.020267694 0.806629663 1.048725981 0.933569853 0.959892458 0.967852769 1 11.4550499 -7.160837076 4.834279036 1.008018802 0.942023834 0.108686036 0.064640976 0.257828473 9.747913346 0.009508227 0.011687836 6.90E-08 7.160837076 -0.065994967 EGEGEGLQS(ph)LEIGIAR ddPTM_HeLa_SAHA_4h_R1 1 EGEGEGLQSLEIGIAR 16 0 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 EGEGEGLQS(1)LEIGIAR 84.895 0.0063788 0 262.68 345.04 484.42 355.61 588.92 495.89 339.59 185.88 371.05 269.32 TRUE FALSE FALSE 290.3098876 356.2195224 550.4342348 362.4933458 543.7970768 453.6373822 301.3784394 181.1254588 368.4678328 280.9317032 1.033382435 1.267993318 1.959316904 1.290325519 1.935691382 1.614760374 1.072781875 0.644731288 1.311592208 1 8.134075632 -7.130705461 4.171013573 1.016237067 1.441730784 0.093885146 0.378314818 0.270768319 7.938488274 0.062390475 0.077096902 7.40E-08 7.130705461 0.425493717 EGEGLGK(ac)YSQGR ddPTM_HeLa_SAHA_4h_R1 1 EGEGLGKYSQGR 12 1 Q5T7F5;Q8N1G2 Q5T7F5 CMTR1 Cap-specific mRNA (nucleoside-2-O-)-methyltransferase 1 0 1 EGEGLGK(1)YSQGR 98.182 0.0071631 0 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 EGFEK(ac)ISK ddPTM_HeLa_SAHA_4h_R1 2 EGFEKISK 8 1 P10809;E7EXB4;E7ESH4;P10809-2;C9JL25 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 1 ; EGFEK(1)ISK;EGFEK(1)ISK 123.86 0.0013589 10997500 4292 5327.1 4636.1 3842.7 5187.7 4376.6 5338.3 5949.1 4355.9 4692.1 FALSE TRUE FALSE 4743.452252 5499.701535 5267.883564 3917.081015 4790.219547 4003.689058 4737.620434 5796.930636 4325.586937 4894.399394 0.969159211 1.123672405 1.076308478 0.800319038 0.978714478 0.818014374 0.967967682 1.184400816 0.883782991 1 12.25691612 EGFES(ph)DTDSEFTFK ddPTM_HeLa_SAHA_4h_R1 1 EGFESDTDSEFTFK 14 0 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 EGFES(0.617)DT(0.284)DS(0.099)EFTFK 142.95 0.00015399 15267000 2178.4 3109.7 2105.2 2789.9 3500.2 3966.9 2786.5 3036.2 3214.3 2809.8 TRUE FALSE FALSE 2407.534107 3210.45632 2392.085693 2843.902549 3232.015432 3628.897803 2472.955686 2958.5384 3191.931425 2930.944229 0.821419283 1.095365885 0.816148485 0.970302512 1.102721574 1.23813267 0.843740274 1.009414772 1.089045432 1 11.5171498 -5.978266501 9.354446841 0.921783946 1.04623322 0.042833191 0.129550542 0.363661683 143.7635294 0.018347459 0.033097927 1.05E-06 5.978266501 0.124449274 EGFESDT(ph)DSEFTFK ddPTM_HeLa_SAHA_4h_R1 1 EGFESDTDSEFTFK 14 0 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 EGFES(0.219)DT(0.57)DS(0.211)EFTFK 183.81 1.85E-07 14756000 2419.2 3034.9 2385 2792.5 3384.8 3754.4 3316.1 2655.3 3986.9 3431 TRUE FALSE FALSE 2673.662556 3133.232751 2710.015379 2846.552876 3125.457355 3434.503998 2942.963701 2587.381271 3959.154838 3578.927201 0.747056983 0.875467026 0.757214446 0.795364844 0.873294476 0.959646231 0.822303315 0.722948841 1.106240674 1 11.80531148 -9.459358691 1.162110184 1.001245388 0.817147896 0.578116793 0.076282077 0.340912826 0.814617261 0.050943111 0.012256463 3.47E-10 9.459358691 -0.184097492 EGFGLSENPFAS(ph)LSPDEQKDEK ddPTM_HeLa_SAHA_4h_R1 2 EGFGLSENPFASLSPDEQKDEK 22 1 B4DT96;C9JYA1;O15504-2;O15504 B4DT96 NUPL2 Nucleoporin-like protein 2 1 0 EGFGLSENPFAS(0.53)LS(0.47)PDEQKDEK;EGFGLSENPFAS(0.542)LS(0.458)PDEQKDEK ; 104.55 8.45E-05 21229900 2185.8 2288.38 2037.96 2411.88 2254.59 2896.59 2669.75 2319.94 2680.19 2094.15 TRUE FALSE FALSE 2415.712473 2362.525013 2315.682576 2458.565425 2081.843801 2649.784236 2369.342704 2260.599294 2661.53834 2184.439055 1.105873138 1.081524801 1.060081109 1.12549051 0.953033593 1.213027312 1.084645826 1.034864895 1.218408146 1 11.09304714 -9.367347788 0.985583253 0.99778342 1.084752257 0 0.092299016 0.70856215 1.180959103 0.045088626 0.010550701 4.29E-10 9.367347788 0.086968838 EGFLDTLVVLHR ddPTM_HeLa_SAHA_4h_R1 2 EGFLDTLVVLHR 12 0 P42771-2;P42771;K7ES20;K7ENC6;J3QRG6;P42771-4;P42772 P42771-2 CDKN2A;CDKN2B Cyclin-dependent kinase inhibitor 2A;Cyclin-dependent kinase 4 inhibitor B 0 0 ; ; 138.99 7.32E-05 1033810 491.24 552.48 882.19 958.23 906.17 591.47 1030.71 134.18 641.42 846.83 FALSE FALSE TRUE 542.9108771 570.3807145 1002.410259 976.7779273 836.7394504 541.0734285 914.7317981 130.7478699 636.956306 883.3409856 0.614610763 0.645708423 1.134794236 1.105776753 0.947244002 0.61253065 1.035536461 0.148015174 0.721076364 1 9.786826642 -4.251754732 24.41482387 0.849230323 0.148014647 0.547565192 0.195787821 647.3192368 1631833.533 0.030156989 0.517673242 5.60E-05 4.251754732 -0.701215676 EGFQGCLAS(ph)VDLNGR ddPTM_HeLa_SAHA_4h_R1 1 EGFQGCLASVDLNGR 15 0 A0A0D9SF36;F5GYC7;F8WB18;A0A0U1RRK7;A0A0R4J2G7;A0A1D5RMU6;E7ERL8;Q9ULB1;Q9ULB1-2;Q9ULB1-3 A0A0D9SF36 NRXN1 Neurexin-1 1 0 EGFQGCLAS(1)VDLNGR 74.853 0.020247 9354100 126.7 512.18 63.358 163.77 245.07 3426.7 208.86 4136.7 1743.5 847.62 TRUE FALSE FALSE 140.0268873 528.7749681 71.99209829 166.9400052 226.2927895 3134.725882 185.3585231 4030.889204 1731.366842 884.1650464 0.158371888 0.59805007 0.081423823 0.188810908 0.255939534 3.54540806 0.209642446 4.558978237 1.958194173 1 9.788171891 -1.684420311 0.752749242 0.547714715 200 0.471955064 1.101106907 63.88632897 0.806888958 0.152023404 20906.89924 0.020681388 1.684420311 199.4522853 EGGEGFTVDT(ph)PAK ddPTM_HeLa_SAHA_4h_R1 2 EGGEGFTVDTPAK 13 0 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 EGGEGFT(0.004)VDT(0.996)PAK;EGGEGFT(0.004)VDT(0.996)PAK ; 137.62 0.00083234 11977600 3535.7 3999.3 3124.1 3730.5 3904.4 4241.7 4487.3 4482 3606.1 3691 TRUE FALSE FALSE 3907.601148 4128.879944 3549.836078 3802.709222 3605.245716 3880.283297 3982.377194 4367.35693 3581.004856 3850.137073 1.014925202 1.072398168 0.922002519 0.987681516 0.93639412 1.007829909 1.03434686 1.134338037 0.930098017 1 11.91069409 -4.276155588 2.260297491 0.999473425 1.165657316 0.48325796 0.045326875 0.367268479 2.205800413 0.005540077 0.119460412 5.29E-05 4.276155588 0.166183891 EGGSKS(ph)DSEDITR ddPTM_HeLa_SAHA_4h_R1 1 EGGSKSDSEDITR 13 1 E9PDC4;F5GYS8;H0YNY8;U3KPR8;O00470;O00470-2 E9PDC4 MEIS1 Homeobox protein Meis1 1 0 EGGS(0.037)KS(0.925)DS(0.037)EDITR 174.59 7.40E-05 39991000 1049.1 1376.1 1174.6 1651.5 1435.2 1697.3 1349.6 1382.7 1692.9 1438.4 TRUE FALSE FALSE 1159.449151 1420.686543 1334.668371 1683.467171 1325.235286 1552.680491 1197.739456 1347.332536 1681.118971 1500.416463 0.772751552 0.946861473 0.889531942 1.121999932 0.883244965 1.034833014 0.798271337 0.897972376 1.120434901 1 10.55114728 EGGSKSDS(ph)EDITR ddPTM_HeLa_SAHA_4h_R1 1 EGGSKSDSEDITR 13 1 E9PDC4;F5GYS8;H0YNY8;U3KPR8;O00470;O00470-2 E9PDC4 MEIS1 Homeobox protein Meis1 1 0 EGGS(0.011)KS(0.192)DS(0.788)EDIT(0.009)R 114.21 0.0080606 3852100 657.37 772.7 486.66 683.1 752.89 845.61 639.8 722.51 940.58 695.82 TRUE FALSE FALSE 726.5151927 797.735987 552.9794904 696.3223883 695.2037309 773.5592707 567.8080201 704.0292404 934.0344272 725.8202055 1.00095752 1.099082088 0.761868416 0.959359333 0.957818101 1.065772577 0.782298448 0.969977461 1.286867492 1 9.503468409 -6.797456176 24.9998923 1.007861994 0.920750878 0.228561599 0.125302295 210.5537387 146148.3189 0.01351395 0.017761154 1.59E-07 6.797456176 -0.087111116 EGHLS(ph)PDIVAEQK ddPTM_HeLa_SAHA_4h_R1 4 EGHLSPDIVAEQK 13 0 B4DLR8;H3BNV2;P15559-3;P15559-2;P15559;H3BRK3 B4DLR8 NQO1 NAD(P)H dehydrogenase [quinone] 1 1 0 EGHLS(1)PDIVAEQK;EGHLS(1)PDIVAEQK;EGHLS(1)PDIVAEQK;EGHLS(1)PDIVAEQK ;;; 115.8 0.0011855 14665500 15752.8 16291.1 15974.8 18146.5 16190.3 2893.26 18890.9 19680.1 17864.4 17424.8 TRUE FALSE FALSE 17409.75178 16818.94233 18151.76255 18497.75175 14949.80271 2646.737971 16765.24621 19176.71154 17740.08019 18176.0684 0.957839253 0.925334454 0.998662755 1.017698181 0.822499255 0.145616638 0.922380233 1.055052782 0.976013062 1 14.14975255 -5.525760742 20.86151599 0.97660799 0.688304082 0.23489586 0.221248619 10.8711817 78692.95415 0.031145151 0.062756378 2.98E-06 5.525760742 -0.288303908 EGHSLEMENENLVENGADS(ph)DEDDNSFLK ddPTM_HeLa_SAHA_4h_R1 2 EGHSLEMENENLVENGADSDEDDNSFLK 28 0 Q9UHB6;F8VQE1;Q9UHB6-2;F8VS07;Q9UHB6-3;Q9UHB6-4;Q9UHB6-5 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 EGHSLEMENENLVENGADS(1)DEDDNSFLK;EGHSLEMENENLVENGADS(1)DEDDNSFLK ; 198.14 3.36E-25 51480000 1400.62 2884.9 2295.3 2024.53 2463.2 270.84 2492.5 1696.95 3375 2300.8 TRUE FALSE FALSE 1547.943638 2978.372653 2608.091531 2063.717706 2274.470148 247.7629083 2212.03734 1653.544476 3351.5131 2399.998748 0.644976852 1.240989253 1.086705371 0.859882826 0.94769639 0.103234599 0.921682706 0.688977225 1.39646452 1 11.22881794 EGIDPTPYYWYTDQR ddPTM_HeLa_SAHA_4h_R1 2 EGIDPTPYYWYTDQR 15 0 O43776 O43776 NARS "Asparagine--tRNA ligase, cytoplasmic" 0 0 ; ; 120.03 0.0049124 17386200 3730.3 3496.2 3110 3701.1 3339.8 4803.6 4224.5 3607 3643.9 3916.1 FALSE FALSE TRUE 4122.670069 3609.479174 3533.814604 3772.740142 3083.905246 4394.306256 3749.148142 3514.738163 3618.541803 4084.942236 1.00923583 0.883605928 0.865083127 0.923572458 0.75494464 1.075732777 0.917797101 0.860413186 0.885824473 1 11.99609996 -7.265085395 24.49588049 1.004361367 0.899252989 0.066225691 0.083618213 210.8532244 1416620.728 0.012030911 0.014053996 5.43E-08 7.265085395 -0.105108378 EGITGPPADSSKPIGPDDAIDALS(ph)SDFTCGSPTAAGK ddPTM_HeLa_SAHA_4h_R1 1 EGITGPPADSSKPIGPDDAIDALSSDFTCGSPTAAGK 37 1 P20810-6;P20810-10;P20810-7;P20810-9;A0A0C4DGB5;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;H0YA91 P20810-6 CAST Calpastatin 1 0 EGITGPPADSSKPIGPDDAIDALS(0.493)S(0.382)DFT(0.07)CGS(0.055)PT(0.001)AAGK 93.6 6.68E-12 22097000 2269.4 2181.5 2160.9 2469.1 3017.7 3236.1 3125.4 2739.9 2791 2962.8 TRUE FALSE FALSE 2508.105904 2252.182031 2455.376199 2516.893001 2786.484478 2960.366074 2773.721766 2669.817325 2771.577204 3090.540808 0.811542724 0.728733957 0.79448108 0.814385947 0.901617112 0.957879626 0.897487508 0.863867359 0.896793596 1 11.5936436 -9.291799487 1.080280316 0.997800344 0.845521358 0.216197592 0.068114109 0.397569976 0.848690466 0.044245423 0.012591916 5.11E-10 9.291799487 -0.152278986 EGITGPPADSSKPIGPDDAIDALSSDFT(ph)CGSPTAAGK ddPTM_HeLa_SAHA_4h_R1 1 EGITGPPADSSKPIGPDDAIDALSSDFTCGSPTAAGK 37 1 P20810-6;P20810-10;P20810-7;P20810-9;A0A0C4DGB5;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;H0YA91 P20810-6 CAST Calpastatin 1 0 EGITGPPADSSKPIGPDDAIDALS(0.211)S(0.166)DFT(0.304)CGS(0.291)PT(0.028)AAGK 57.533 0.00078576 17190000 1621 1693.4 2014.7 1680 2181.4 2104.6 2120.9 1901.3 1658.7 1893.4 TRUE FALSE FALSE 1791.504217 1748.267271 2289.252824 1712.518829 2014.261603 1925.27624 1882.25075 1852.667499 1647.156972 1975.03374 0.907075247 0.885183496 1.159095552 0.867083329 1.01986187 0.974806759 0.953022073 0.938043468 0.833989282 1 10.94766158 -4.463666244 4.065488131 0.963886927 0.939597392 0 0.088510032 1.332216756 42.03236657 0.010446755 0.064841757 3.44E-05 4.463666244 -0.024289536 EGITGPPADSSKPIGPDDAIDALSSDFTCGS(ph)PTAAGK ddPTM_HeLa_SAHA_4h_R1 1 EGITGPPADSSKPIGPDDAIDALSSDFTCGSPTAAGK 37 1 P20810-6;P20810-10;P20810-7;P20810-9;A0A0C4DGB5;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;H0YA91 P20810-6 CAST Calpastatin 1 0 EGITGPPADSSKPIGPDDAIDALSS(0.001)DFT(0.015)CGS(0.969)PT(0.015)AAGK 129.19 7.24E-18 20284000 1840.8 1896.5 1885.5 2039.1 2143.2 2169.9 2244.5 2363.4 2333 2181 TRUE FALSE FALSE 2034.42379 1957.947844 2142.446121 2078.569729 1978.988479 1985.012312 1991.942953 2302.94765 2316.764463 2275.033584 0.894239015 0.860623711 0.941720657 0.913643537 0.869872205 0.872520004 0.875566395 1.012269738 1.018342973 1 11.15167213 -9.178916479 0.842315334 1.002441802 0.901707409 0.468883854 0.043533183 0.483874037 0.597092635 0.031191074 0.008104274 6.62E-10 9.178916479 -0.100734393 EGKPEIEGKPES(ph)EGEPGSETR ddPTM_HeLa_SAHA_4h_R1 3 EGKPEIEGKPESEGEPGSETR 21 2 D6RD44;Q96EI5;Q96EI5-2 D6RD44 TCEAL4 Transcription elongation factor A protein-like 4 1 0 EGKPEIEGKPES(0.743)EGEPGS(0.183)ET(0.075)R;EGKPEIEGKPES(0.671)EGEPGS(0.256)ET(0.073)R;EGKPEIEGKPES(0.925)EGEPGS(0.059)ET(0.016)R ;; 78.736 0.0011327 22160600 2972.27 2551.14 2503 2890.41 3170.02 3211.4 2840.85 3390.19 3457.23 2893.42 TRUE FALSE FALSE 3284.906996 2633.79861 2844.095805 2946.358065 2927.133752 2937.770653 2521.190081 3303.473849 3433.170855 3018.169496 1.088377243 0.87264768 0.942324746 0.976206959 0.969837432 0.97336172 0.835337473 1.094528936 1.137501012 1 11.55945811 -7.273361033 24.90169032 1.041733697 0.949607813 0.341990609 0.074030707 659.7412871 1378050.484 0.011319527 0.012997542 5.33E-08 7.273361033 -0.092125885 EGKPTIVEEDDPELFK ddPTM_HeLa_SAHA_4h_R1 2 EGKPTIVEEDDPELFK 16 1 O75937 O75937 DNAJC8 DnaJ homolog subfamily C member 8 0 0 ; ; 183 1.44E-25 6566200 2740.1 3198.9 2876.1 3168.8 3029.7 3085.8 3151.8 2788.9 3099.6 3079 FALSE FALSE TRUE 3028.31629 3302.546459 3268.03993 3230.136706 2797.565041 2822.87248 2797.151169 2717.563976 3078.029631 3211.750758 0.942886456 1.028269846 1.017526009 1.005724587 0.871040517 0.878920157 0.870911655 0.846131652 0.958365036 1 11.64914422 -5.753351756 24.83365947 0.982756529 0.867917376 0.843437148 0.026275876 62.40168374 191607.2948 0.004697693 0.009264377 1.76E-06 5.753351756 -0.114839153 EGLELLK ddPTM_HeLa_SAHA_4h_R1 1 EGLELLK 7 0 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 114.78 0.0071497 5585500 3780.5 4976.7 4627.7 4799.2 5268.2 4368.8 4932.8 3375.2 4153.4 3816.3 FALSE FALSE TRUE 4178.150336 5137.948345 5258.338856 4892.095456 4864.551654 3996.553662 4377.748362 3288.867271 4124.496151 3980.83937 1.049565166 1.290669597 1.320912091 1.228910539 1.221991445 1.003947482 1.09970485 0.826174323 1.036087058 1 11.95885694 -3.186972162 14.06518117 1.0786741 1.091605789 0 0.150121711 0 0 0.021424716 0 0.000650171 3.186972162 0.012931689 EGLELPEDEEEK ddPTM_HeLa_SAHA_4h_R1 3 EGLELPEDEEEK 12 0 P07900;P07900-2;Q58FG0;Q58FF6;P08238;Q58FF7 P07900;P08238 HSP90AA1;HSP90AA5P;HSP90AB4P;HSP90AB1;HSP90AB3P Heat shock protein HSP 90-alpha;Putative heat shock protein HSP 90-alpha A5;Putative heat shock protein HSP 90-beta 4;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 0 ;; ;; 225.93 1.16E-21 35462800 16976.8 10626.7 10217.1 12433.7 9834.1 16008.5 12286.4 10857.7 17616.2 12887.4 FALSE FALSE TRUE 18762.49772 10971.01205 11609.43318 12674.37224 9080.613383 14644.48574 10903.90194 10579.97576 17493.60743 13443.03888 1.395703596 0.816111011 0.863601845 0.94282047 0.675488144 1.089373159 0.811118827 0.787022625 1.301313459 1 13.71457168 -7.241866534 24.72616361 1.186860035 0.8591927 0.600358185 0.139553229 478.9687301 605076.4929 0.028423304 0.034784486 5.73E-08 7.241866534 -0.327667334 EGLELPEDEEEK(ac)KKQEEK ddPTM_HeLa_SAHA_4h_R1 1 EGLELPEDEEEKKKQEEK 18 3 P07900;P07900-2;Q58FG0 P07900 HSP90AA1;HSP90AA5P Heat shock protein HSP 90-alpha;Putative heat shock protein HSP 90-alpha A5 0 1 EGLELPEDEEEK(0.598)K(0.13)K(0.273)QEEK 81.656 0.0032169 5472300 1085.3 3034.4 1369.4 1470.8 2593.7 2697.1 3138.7 2246.8 2179 909.35 FALSE TRUE FALSE 1199.456834 3132.716551 1556.0147 1499.269461 2394.971266 2467.291907 2785.525215 2189.330109 2163.836162 948.5565288 1.264507488 3.302614505 1.64040271 1.580579982 2.524858766 2.601101602 2.936593794 2.308064984 2.281188412 1 9.889589943 -7.268278396 0.542248426 0.955191666 2.584026055 0.046374642 0.692145399 0.432719844 0.294064553 0.204160387 0.240492007 5.39E-08 7.268278396 1.628834389 EGLELPEDEEEKK ddPTM_HeLa_SAHA_4h_R1 4 EGLELPEDEEEKK 13 1 P07900;P07900-2;Q58FG0;Q58FF6;P08238;Q58FF7 P07900;P08238 HSP90AA1;HSP90AA5P;HSP90AB4P;HSP90AB1;HSP90AB3P Heat shock protein HSP 90-alpha;Putative heat shock protein HSP 90-alpha A5;Putative heat shock protein HSP 90-beta 4;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 0 ;;; ;;; 161.48 0.00011459 58633000 7008.7 6160.3 5387.8 6438 6316.7 8151.9 5564.5 5589.9 7577.8 6587 FALSE FALSE TRUE 7745.907223 6359.897762 6122.021326 6562.6168 5832.715811 7457.312259 4938.367815 5446.918452 7525.065473 6870.997806 1.127333677 0.925614873 0.89099451 0.955118454 0.848889197 1.085331777 0.718726443 0.792740531 1.09519253 1 12.74630391 -7.109139031 5.022385805 1.059825643 0.887182677 0.442763191 0.096040181 0.17345579 6.649253716 0.016686744 0.020592115 7.78E-08 7.109139031 -0.172642966 EGLELPEDEEEKK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EGLELPEDEEEKKK 14 2 P07900;P07900-2;Q58FG0;P08238;Q58FF7 P07900;P08238 HSP90AA1;HSP90AA5P;HSP90AB1;HSP90AB3P Heat shock protein HSP 90-alpha;Putative heat shock protein HSP 90-alpha A5;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 1 ; EGLELPEDEEEK(0.29)K(0.71)K;EGLELPEDEEEK(0.196)K(0.804)K 157.86 4.85E-07 34707000 1172.2 4068.2 1756.11 1771.6 3078.2 4016.5 3713.7 2512.71 3840.1 1120.24 FALSE TRUE FALSE 1295.497374 4200.012349 1995.423525 1805.89188 2842.348981 3674.271604 3295.824702 2448.438517 3813.376431 1168.539029 1.108647073 3.594242251 1.70762249 1.545427098 2.43239542 3.144329384 2.820466087 2.095298879 3.263371045 1 10.19049021 -7.381137354 9.726379283 1.048109175 2.448338155 0 0.912969137 0.20298368 15.51393553 0.100288021 0.114551733 4.16E-08 7.381137354 1.40022898 EGLELPEDEEEKK(ac)KQEEK ddPTM_HeLa_SAHA_4h_R1 1 EGLELPEDEEEKKKQEEK 18 3 P07900;P07900-2;Q58FG0 P07900 HSP90AA1;HSP90AA5P Heat shock protein HSP 90-alpha;Putative heat shock protein HSP 90-alpha A5 0 1 EGLELPEDEEEK(0.169)K(0.415)K(0.415)QEEK 69.379 0.004961 5813200 1084.3 2816.8 1495.8 1225.3 2626 2702.2 3029.9 2242.5 2562.8 922.83 FALSE TRUE FALSE 1198.351649 2908.066168 1699.639834 1249.017453 2424.796447 2471.957358 2688.967678 2185.140097 2544.965266 962.6177175 1.244888419 3.020997968 1.765643623 1.297521779 2.518960957 2.567953314 2.79339101 2.269997796 2.64379641 1 9.910819167 -7.026124213 0.431129266 0.921437538 2.625378528 0 0.739470168 0.563929555 0.258411478 0.243932181 0.354449255 9.42E-08 7.026124213 1.70394099 EGLELPEDEEEKKK ddPTM_HeLa_SAHA_4h_R1 2 EGLELPEDEEEKKK 14 2 P07900;P07900-2;Q58FG0;P08238;Q58FF7 P07900;P08238 HSP90AA1;HSP90AA5P;HSP90AB1;HSP90AB3P Heat shock protein HSP 90-alpha;Putative heat shock protein HSP 90-alpha A5;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 0 ; ; 83.137 0.011099 16000500 4003.3 5100.4 4165.9 5113.8 5587.8 6338.6 5058.1 4379.4 6094.4 5459.3 FALSE FALSE TRUE 4424.385462 5265.656306 4733.607157 5212.784994 5159.663971 5798.51562 4488.949276 4267.381289 6051.988574 5694.67714 0.776933503 0.924662835 0.831233631 0.915378496 0.906050307 1.018234305 0.788271076 0.749363166 1.06274481 1 12.47539834 -7.508981621 0.015695592 1.771479742 1.14E-06 0.239258596 0.089935271 692.2030713 9.263962589 524.7082534 519.4986488 3.10E-08 7.508981621 -1.771478605 EGLELPEDEEEKKK(ac)MEESK ddPTM_HeLa_SAHA_4h_R1 1 EGLELPEDEEEKKKMEESK 19 3 P08238;Q58FF7 P08238 HSP90AB1;HSP90AB3P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 1 EGLELPEDEEEK(0.222)K(0.222)K(0.556)MEESK 47.732 0.020075 2672400 518.54 818.59 416.59 521.39 1016.8 625 1235.8 826.63 489.58 257.07 FALSE TRUE FALSE 573.0824163 845.1128531 473.3607157 531.4822574 938.8930037 571.7464838 1096.744532 805.4860015 486.1729729 268.1535458 2.137142788 3.151600516 1.765259953 1.982007196 3.501326082 2.132160819 4.089987057 3.003823795 1.813039509 1 8.06691552 -6.927423843 0.141636258 3.94E-15 4.616370436 0.448333963 0.663840042 3.021870756 0.315613863 4.076490819 5.317654117 1.18E-07 6.927423843 4.616370436 EGLELPEDEEEKKKMEESK ddPTM_HeLa_SAHA_4h_R1 2 EGLELPEDEEEKKKMEESK 19 3 P08238;Q58FF7 P08238 HSP90AB1;HSP90AB3P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 0 ; ; 50.831 0.010724 17333000 7381.4 4282.9 6817.9 6272 5799 5362.9 7333.1 7425.2 3921.1 5482.9 FALSE FALSE TRUE 8157.809519 4421.66877 7747.007906 6393.403629 5354.681873 4905.950749 6507.960288 7235.274136 3893.812746 5719.294652 1.426366364 0.773114351 1.354539043 1.117865754 0.936248646 0.857789474 1.137895612 1.265064064 0.680820448 1 12.48162152 -5.996100647 24.14996434 1.180501606 1.040049531 0 0.253606728 162.2436187 1004801.35 0.033295817 0.060143491 1.01E-06 5.996100647 -0.140452075 EGLISQDGSS(ph)LEALLR ddPTM_HeLa_SAHA_4h_R1 2 EGLISQDGSSLEALLR 16 0 J3KMZ8;Q92785;Q92785-2 J3KMZ8 DPF2 Zinc finger protein ubi-d4 1 0 EGLISQDGS(0.007)S(0.993)LEALLR;EGLISQDGS(0.019)S(0.981)LEALLR ; 256.71 9.10E-47 5447500 1734.18 1551.56 1698.23 2183.89 2490.2 2995.5 3095.09 2557.54 1783.89 1852.53 TRUE FALSE FALSE 1916.589009 1601.831562 1929.65594 2226.162349 2299.401414 2740.266548 2746.822327 2492.12183 1771.475764 1932.401634 0.991817112 0.82893304 0.998579129 1.152018457 1.189918997 1.418062632 1.421455187 1.289650032 0.916722348 1 10.91617926 -5.745947891 1.552900679 0.981801973 1.379809748 0.867291981 0.071573896 0.097952089 0.475995837 0.010844608 0.026572872 1.79E-06 5.745947891 0.398007775 EGLQNMEAR ddPTM_HeLa_SAHA_4h_R1 1 EGLQNMEAR 9 0 P31948-3;P31948;P31948-2;F5GXD8;F5H783 P31948-3 STIP1 Stress-induced-phosphoprotein 1 0 0 115.49 0.020171 35461000 1618 1823.3 1605.8 1451 1380.6 1488.9 1963.4 1643.5 1370.8 1598.7 FALSE FALSE TRUE 1788.188664 1882.376116 1824.630061 1479.086203 1274.818726 1362.037344 1742.473065 1601.46165 1361.260491 1667.627781 1.07229484 1.128774741 1.094147077 0.886940251 0.764450401 0.816751411 1.044881289 0.960323202 0.816285569 1 10.7035816 -6.251478296 23.98970567 1.047701075 0.891451249 0.245351726 0.107320693 294.7149287 709773.2451 0.013205759 0.021711055 5.60E-07 6.251478296 -0.156249826 EGLRPGDTTST(ph)FCGTPNYIAPEILR ddPTM_HeLa_SAHA_4h_R1 2 EGLRPGDTTSTFCGTPNYIAPEILR 25 1 P41743 P41743 PRKCI Protein kinase C iota type 1 0 EGLRPGDT(0.003)T(0.008)S(0.076)T(0.829)FCGT(0.078)PNY(0.006)IAPEILR;EGLRPGDT(0.075)T(0.083)S(0.083)T(0.726)FCGT(0.034)PNYIAPEILR ; 87.05 6.59E-05 23208000 778.27 1083.49 700.31 740.82 968.81 714.76 1452.15 931.09 427.75 640.05 TRUE FALSE FALSE 860.1320094 1118.595787 795.7445997 755.1596423 894.5799871 653.8584269 1288.75026 907.274066 424.7732529 667.6456878 1.288306096 1.675433253 1.191866606 1.131078439 1.339902292 0.979349435 1.930290697 1.358915488 0.636225562 1 9.382938873 -12.60808004 0.136646523 2.20E-12 1.525385734 0.337025026 0.281481507 64.08704652 0.779738874 18.27007167 0.863227672 2.47E-13 12.60808004 1.525385734 EGLSGDALSS(ph)PSAPEPVVGTPDDKLDADYIKR ddPTM_HeLa_SAHA_4h_R1 2 EGLSGDALSSPSAPEPVVGTPDDKLDADYIKR 32 2 K7EJ08;Q92503-3;Q92503;Q92503-2 K7EJ08 SEC14L1 SEC14-like protein 1 1 0 EGLS(0.001)GDALS(0.041)S(0.523)PS(0.431)APEPVVGT(0.004)PDDKLDADYIKR;EGLSGDALS(0.169)S(0.557)PS(0.255)APEPVVGT(0.018)PDDKLDADYIKR ; 71.604 3.72E-05 76756000 2319.55 2321.81 2576.35 1734.21 2694.2 3516.6 2834.4 2487.89 2136.24 2459.22 TRUE FALSE FALSE 2563.530911 2397.038167 2927.441561 1767.778142 2487.770978 3216.965896 2515.465852 2424.253376 2121.373732 2565.249009 0.999330241 0.93442709 1.141191966 0.689125358 0.969797072 1.254055994 0.980593246 0.945036278 0.826966008 1 11.32488316 EGLTSIEEVTK ddPTM_HeLa_SAHA_4h_R1 2 EGLTSIEEVTK 11 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 158.79 5.58E-07 1827300 472.82 434.96 273.36 251.795 482.3 457.84 515.06 503.59 409.78 373.34 FALSE FALSE TRUE 522.553377 449.0529894 310.6120772 256.6688563 445.3462782 418.8294563 457.1040932 490.708897 406.9283076 389.4365145 1.341819161 1.153083937 0.797593614 0.659077531 1.143565797 1.075475567 1.173757663 1.260048503 1.044915647 1 8.605244351 -6.958620017 24.9995994 1.165943122 1.013796186 0.075740684 0.187765386 269.7346436 162958.7965 0.035183997 0.046240807 1.10E-07 6.958620017 -0.152146936 EGLYLSDT(ph)LPR ddPTM_HeLa_SAHA_4h_R1 2 EGLYLSDTLPR 11 0 E9PFQ4;Q86SQ0-2;Q86SQ0-3;Q86SQ0;A0A1W2PRT1 E9PFQ4 PHLDB2 Pleckstrin homology-like domain family B member 2 1 0 EGLYLS(0.14)DT(0.86)LPR;EGLYLS(0.154)DT(0.846)LPR ; 115 0.0051437 7320100 9113 9903.9 8856.4 8614.9 10106 11064.6 10303.8 11004.7 10995 9901.7 TRUE FALSE FALSE 10071.54715 10224.79286 10063.30407 8781.653847 9331.680463 10121.83383 9144.389306 10723.21571 10918.4849 10328.61074 0.975111503 0.989948514 0.974313421 0.850226043 0.903478763 0.979980181 0.885345525 1.038205038 1.057110697 1 13.3343586 -6.501239719 24.70346048 0.987764637 0.928252527 0.278486444 0.053321326 668.4938576 763163.9674 0.007004243 0.010635049 3.15E-07 6.501239719 -0.05951211 EGMNIVEAMER ddPTM_HeLa_SAHA_4h_R1 10 EGMNIVEAMER 11 0 P62937;P62937-2 P62937 PPIA "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed" 0 0 ;;;;;;;;; ;;;;;;;;; 229.82 9.19E-22 202052600 15033.52 15593.28 14645.05 17066.1 16848.5 17072.04 17984.2 15320.64 14844.48 13976.34 FALSE FALSE TRUE 16614.81461 16098.5125 16640.80115 17396.43904 15557.57157 15617.40615 15960.57048 14928.76021 14741.17606 14578.92842 1.139645805 1.104231535 1.141428277 1.193259103 1.067127235 1.071231417 1.094769796 1.023995714 1.011128914 1 13.83159706 -1.003711499 11.13765213 1.082403142 0.001676584 0 0.059429814 0 0 0.009096072 0 0.099149037 1.003711499 -1.080726558 EGMNPSY(ph)DEYADSDEDQHDAYLER ddPTM_HeLa_SAHA_4h_R1 1 EGMNPSYDEYADSDEDQHDAYLER 24 0 Q08945;A0A0U1RRK2 Q08945 SSRP1 FACT complex subunit SSRP1 1 0 EGMNPS(0.026)Y(0.614)DEY(0.359)ADS(0.001)DEDQHDAYLER 148.52 2.25E-06 10810000 668.28 814.8 598.24 822.56 632.24 709.8 676.84 946.13 922.87 699.31 TRUE FALSE FALSE 738.5727566 841.2000546 679.7650317 838.4818382 583.7979078 649.3210468 600.6801819 921.9293646 916.4476725 729.4606764 1.01249153 1.153180811 0.931873442 1.149454474 0.800314433 0.89013852 0.823457934 1.26385067 1.256335951 1 9.510686398 -5.762711469 24.9991977 1.021113074 0.931920104 0.085773105 0.154510438 62.16756851 1221760.932 0.018227875 0.034424251 1.73E-06 5.762711469 -0.08919297 EGMNPSYDEY(ph)ADSDEDQHDAYLER ddPTM_HeLa_SAHA_4h_R1 1 EGMNPSYDEYADSDEDQHDAYLER 24 0 Q08945;A0A0U1RRK2 Q08945 SSRP1 FACT complex subunit SSRP1 1 0 EGMNPS(0.012)Y(0.008)DEY(0.821)ADS(0.159)DEDQHDAYLER 72.676 0.0055893 27584000 673.2 876.74 652.81 835.28 941.31 712.34 866.58 697.68 899.61 945.32 TRUE FALSE FALSE 744.0102648 905.1469513 741.7715471 851.4480522 869.1870312 651.6446245 769.0701377 679.8343558 893.3495408 986.0773715 0.754515098 0.917926907 0.752244772 0.863469822 0.881459261 0.660845328 0.779928797 0.689433076 0.905962926 1 9.94555704 -13.52287875 0.227188466 2.187225791 0.754041313 0.411043127 0.07971931 27.26446668 0.349653665 14.44287375 0.056052161 3.00E-14 13.52287875 -1.433184478 EGMNPSYDEYADS(ph)DEDQHDAYLER ddPTM_HeLa_SAHA_4h_R1 16 EGMNPSYDEYADSDEDQHDAYLER 24 0 Q08945;A0A0U1RRK2 Q08945 SSRP1 FACT complex subunit SSRP1 1 0 EGMNPSYDEYADS(1)DEDQHDAYLER;EGMNPSYDEY(0.001)ADS(0.999)DEDQHDAYLER;EGMNPSYDEY(0.023)ADS(0.977)DEDQHDAYLER;EGMNPS(0.001)Y(0.016)DEY(0.008)ADS(0.975)DEDQHDAYLER;EGMNPSYDEY(0.003)ADS(0.997)DEDQHDAYLER;EGMNPSYDEYADS(1)DEDQHDAYLER;EGMNPS(0.019)Y(0.001)DEY(0.013)ADS(0.967)DEDQHDAYLER;EGMNPSY(0.001)DEY(0.006)ADS(0.994)DEDQHDAYLER;EGMNPSYDEYADS(1)DEDQHDAYLER;EGMNPSYDEYADS(1)DEDQHDAYLER;EGMNPSYDEY(0.002)ADS(0.998)DEDQHDAYLER;EGMNPSYDEY(0.001)ADS(0.999)DEDQHDAYLER;EGMNPSYDEY(0.008)ADS(0.992)DEDQHDAYLER;EGMNPSYDEYADS(1)DEDQHDAYLER;EGMNPSY(0.001)DEY(0.002)ADS(0.997)DEDQHDAYLER;EGMNPS(0.058)Y(0.123)DEY(0.222)ADS(0.597)DEDQHDAYLER ;;;;;;;;;;;;;;; 176.38 2.23E-11 3138390400 30226.57 32788.86 26504.59 31039.43 32213 37760.15 34360.74 36450.68 37426.7 32041.78 TRUE FALSE FALSE 33405.93932 33851.24058 30116.4975 31640.24305 29744.8469 34542.77279 30494.3791 35518.32439 37166.24455 33423.25794 0.999481839 1.012804935 0.90106409 0.946653468 0.889944569 1.033495084 0.912370037 1.062682891 1.111987485 1 15.02856475 -6.820705823 24.99999888 1.000727232 0.955503163 0.189818748 0.062687631 98.44077175 41524.09859 0.007598567 0.009986476 1.51E-07 6.820705823 -0.045224069 EGNGTSNSTLSGPGLDSKPGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 EGNGTSNSTLSGPGLDSKPGKR 22 2 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 0 1 ; EGNGTSNSTLSGPGLDSK(0.053)PGK(0.947)R;EGNGTSNSTLSGPGLDSK(0.195)PGK(0.805)R 117.6 7.79E-07 4816600 452.046 395.06 427.19 499.86 808.51 918.94 1136.81 967.89 441.81 470.37 FALSE TRUE FALSE 499.5942723 407.8602032 485.4052285 509.5355131 746.5621385 840.6411422 1008.893147 943.1327753 438.7354082 490.6499526 1.018229533 0.831265143 0.98931066 1.038490905 1.521577928 1.71332156 2.056238142 1.92221108 0.894192297 1 8.938550311 -5.458709715 1.53238589 0.987936025 1.978721825 0.959647331 0.087507349 0.050316654 0.228053188 0.012342568 0.037975936 3.48E-06 5.458709715 0.9907858 EGNPEEDLTADK ddPTM_HeLa_SAHA_4h_R1 2 EGNPEEDLTADK 12 0 E7ENU9;P40121-2;P40121 E7ENU9 CAPG Macrophage-capping protein 0 0 ; ; 190.78 3.43E-06 4999300 2473.08 2150.24 1849.53 2807.57 2374.49 2896.9 2450.91 2239.51 3470 2727.62 FALSE FALSE TRUE 2733.209901 2219.909187 2101.574316 2861.914577 2192.557089 2650.067822 2175.127156 2182.226577 3445.851987 2845.221047 0.96063183 0.780223803 0.738633056 1.005867217 0.770610456 0.931410171 0.764484418 0.766979627 1.211101679 1 11.47432503 -7.360716291 5.143367094 0.982753986 0.826617022 0.460369066 0.107800597 0.145693096 5.967304303 0.013257142 0.01509703 4.36E-08 7.360716291 -0.156136964 EGNTTEDDFPSS(ph)PGNGNK ddPTM_HeLa_SAHA_4h_R1 4 EGNTTEDDFPSSPGNGNK 18 0 Q15007 Q15007 WTAP Pre-mRNA-splicing regulator WTAP 1 0 EGNTTEDDFPS(0.017)S(0.983)PGNGNK;EGNTTEDDFPS(0.239)S(0.761)PGNGNK;EGNTTEDDFPS(0.086)S(0.914)PGNGNK;EGNTTEDDFPS(0.006)S(0.994)PGNGNK ;;; 287.57 7.98E-74 314539000 17223.3 16640.3 16179.2 16450.6 19169.1 20198.5 19187.8 18113.1 21021.3 17931.4 TRUE FALSE FALSE 19034.92572 17179.45664 18384.01712 16769.02515 17700.3677 18477.47417 17028.73824 17649.79313 20875.01106 18704.51041 1.017665007 0.918465988 0.982865454 0.896523073 0.946315478 0.987861952 0.910408125 0.943611607 1.116041565 1 14.19109858 -7.268751644 24.98578478 1.00834181 0.94162035 0.493098778 0.043778181 285.8604418 976774.7747 0.004423708 0.005111252 5.39E-08 7.268751644 -0.06672146 EGPEGNDIRR ddPTM_HeLa_SAHA_4h_R1 1 EGPEGNDIRR 10 1 A0A5F9UK94;H0Y360;Q01433-2;Q01433;Q01433-3;Q01433-5;Q01433-4;H0YF16 A0A5F9UK94 AMPD2 AMP deaminase 2 0 0 101.38 0.0035382 0 226.32 184.88 259.24 226.02 147.51 215.96 289.83 153.92 294.98 305.97 FALSE FALSE TRUE 250.125376 190.8702333 294.5678771 230.3949439 136.2078157 197.558993 257.2175656 149.9829493 292.9272102 319.1618641 0.783694433 0.598035839 0.922941962 0.721874916 0.426767202 0.618993104 0.805915727 0.469927539 0.917801414 1 8.318144467 -8.546487009 0.198979044 1.192499079 0.517845547 0.478410818 0.133817248 3.179195671 0.307034324 0.675398276 0.278690193 2.84E-09 8.546487009 -0.674653532 EGPEPPEEVPPPT(ph)TPPVPK ddPTM_HeLa_SAHA_4h_R1 2 EGPEPPEEVPPPTTPPVPK 19 0 P48634;P48634-2;P48634-3;P48634-4 P48634 PRRC2A Protein PRRC2A 1 0 EGPEPPEEVPPPT(0.886)T(0.114)PPVPK;EGPEPPEEVPPPT(0.847)T(0.153)PPVPK ; 150.01 0.00010403 17447000 4109.5 5434.2 4135.7 4887.8 4741.3 5650 5228.5 4593.9 6355.2 4351.7 TRUE FALSE FALSE 4541.756065 5610.271646 4699.291658 4982.410437 4378.022618 5168.588214 4640.175419 4476.39469 6310.973646 4539.323084 1.000535979 1.235926931 1.035240623 1.097610887 0.964465965 1.138625323 1.022217483 0.986137053 1.390289594 1 12.14826146 -7.438767597 24.99999921 1.000223329 1.069117639 0 0.143807282 112.1445865 33330.76852 0.011916692 0.013627223 3.64E-08 7.438767597 0.06889431 EGPET(ph)PPRPR ddPTM_HeLa_SAHA_4h_R1 1 EGPETPPRPR 10 1 A0A5E8;Q99501 A0A5E8 GAS2L1 GAS2-like protein 1 1 0 EGPET(1)PPRPR 105.36 0.0077235 9970200 2727.7 2531.8 2217.7 2592.7 3328.8 2644.3 2595.8 2831.4 2753.6 2914.6 TRUE FALSE FALSE 3014.612001 2613.831981 2519.916607 2642.885458 3073.748063 2418.990764 2303.713752 2758.976888 2734.437473 3040.26267 0.991563009 0.859738866 0.82884832 0.869295105 1.01101398 0.795651898 0.757735105 0.907479776 0.899408298 1 11.56998026 -7.266238344 6.688536245 0.996176408 0.859522773 0.272564094 0.070790588 0.088721656 23.21047772 0.010891056 0.012817006 5.42E-08 7.266238344 -0.136653635 EGPGEEHFEDMAS(ph)DEDMKPK ddPTM_HeLa_SAHA_4h_R1 1 EGPGEEHFEDMASDEDMKPK 20 1 Q99856 Q99856 ARID3A AT-rich interactive domain-containing protein 3A 1 0 EGPGEEHFEDMAS(1)DEDMKPK 66.845 0.0056416 3833200 496.68 653.47 674.1 486.5 876.68 820.83 686.3 719.72 829.91 694.7 TRUE FALSE FALSE 548.9230812 674.6428568 765.9628374 495.916911 809.5089678 750.8906661 609.0757178 701.3106045 824.1345887 724.6519168 0.757498971 0.930988853 1.057007951 0.684351893 1.11710043 1.036208763 0.840507979 0.967789622 1.13728339 1 9.501144359 -5.728575597 24.99998986 0.888333585 0.982966738 0 0.143106159 359.0059667 273099.713 0.019341509 0.038681007 1.87E-06 5.728575597 0.094633153 EGPGS(ph)EPDSQVDGGLSGASLGEK ddPTM_HeLa_SAHA_4h_R1 2 EGPGSEPDSQVDGGLSGASLGEK 23 0 Q5JSZ5;A0A494C0D3;H0Y412;A0A494C065 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 EGPGS(0.996)EPDS(0.004)QVDGGLSGASLGEK;EGPGS(0.997)EPDS(0.003)QVDGGLSGASLGEK ; 121.75 7.65E-06 6692800 3215.2 3680.7 3452.4 4228.4 3721 4612.9 4317.4 4273.5 4681.7 4056.4 TRUE FALSE FALSE 3553.389488 3799.957095 3922.875093 4310.246796 3435.897784 4219.854969 3831.594789 4164.190058 4649.119669 4231.291256 0.839788441 0.898060867 0.927110628 1.018659916 0.812021101 0.997297211 0.905537945 0.984141674 1.098747259 1 12.04688228 -6.511622739 24.34385616 0.919893951 0.940680009 0 0.086175652 1855.799182 4013618.649 0.011989736 0.017652126 3.08E-07 6.511622739 0.020786059 EGPLGWSSDGSLGSVLLDSPS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 2 EGPLGWSSDGSLGSVLLDSPSSPR 24 0 C9JRJ5;Q9UGP4 C9JRJ5 LIMD1 LIM domain-containing protein 1 1 0 EGPLGWSSDGSLGSVLLDS(0.148)PS(0.667)S(0.185)PR;EGPLGWSSDGSLGSVLLDS(0.01)PS(0.495)S(0.495)PR ; 179.55 1.35E-11 8865600 2496.5 2613.7 2267.3 2368.8 2517.3 2425 2734.8 2146.1 2104.63 2569.6 TRUE FALSE FALSE 2759.093324 2698.385595 2576.275836 2414.651549 2324.425018 2218.376357 2427.073106 2091.20587 2089.983708 2680.388031 1.029363395 1.006714537 0.96115779 0.900858951 0.867197208 0.827632541 0.905493189 0.780187736 0.779731772 1 11.38822615 -6.21792763 1.351996986 1.014577149 0.843815478 0.166147624 0.079965622 0.097148099 0.348925157 0.004653359 0.009077219 6.05E-07 6.21792763 -0.170761671 EGPSCPS(ph)PGPFCR ddPTM_HeLa_SAHA_4h_R1 2 EGPSCPSPGPFCR 13 0 Q4AC94 Q4AC94 C2CD3 C2 domain-containing protein 3 1 0 EGPS(0.008)CPS(0.992)PGPFCR;EGPS(0.023)CPS(0.977)PGPFCR ; 178.22 1.06E-05 18022900 2919.91 2707.41 2509.4 2862.12 3243.7 3295.3 2941.42 3188.8 2902.91 2710.13 TRUE FALSE FALSE 3227.039531 2795.13186 2851.367964 2917.520471 2995.168407 3014.521901 2610.44368 3107.235113 2882.708413 2826.976967 1.141516032 0.988735279 1.008627943 1.032028384 1.059495157 1.066341161 0.923404651 1.099137046 1.019714149 1 11.46504441 -7.206165565 24.99989867 1.066827346 1.023969484 0.034325095 0.057119705 592.7485512 268095.6899 0.010970867 0.013436513 6.22E-08 7.206165565 -0.042857863 EGPTVETK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 EGPTVETKR 9 1 Q96AT1 Q96AT1 KIAA1143 Uncharacterized protein KIAA1143 0 1 ; EGPTVETK(1)R;EGPTVETK(1)R 135.71 0.00032908 9639600 2403.9 2442 2252.87 2860.4 2952.7 3255.6 3219.2 3999.6 2730.7 1965.58 FALSE TRUE FALSE 2656.753231 2521.122402 2559.879391 2915.767178 2726.464764 2978.204564 2856.967144 3897.296023 2711.696836 2050.325773 1.29577127 1.229620402 1.248523247 1.422099462 1.329771493 1.452551884 1.393421075 1.900817945 1.32256877 1 11.00163744 -1 0.147439798 0.963765245 3.549527832 0.601367723 0.137094827 24.98611093 0.239557227 0.258648258 13.82377933 0.1 1 2.585762587 EGPVLAT(ph)SSGAGVFK ddPTM_HeLa_SAHA_4h_R1 1 EGPVLATSSGAGVFK 15 0 F5GWT4;Q9H4A3-2;Q9H4A3;Q9H4A3-5;Q9H4A3-6;Q9H4A3-7;Q9H4A3-4 F5GWT4 WNK1 Serine/threonine-protein kinase WNK1 1 0 EGPVLAT(0.697)S(0.208)S(0.095)GAGVFK 116.9 0.0017558 8182400 3097.8 3762.3 4243.9 1924 3370.9 3095.2 3640.8 2055.2 2485.2 3563.4 TRUE FALSE FALSE 3423.640817 3884.200989 4822.236591 1961.241802 3112.62237 2831.471547 3231.127602 2002.63096 2467.905291 3717.035613 0.921067532 1.044972767 1.297333976 0.527636 0.837393744 0.761755292 0.869275395 0.538770991 0.663944484 1 11.8599368 -6.246672621 24.99998143 0.992070658 0.726273276 0.376674669 0.178164457 564.4946325 955684.2369 0.021316544 0.035254046 5.67E-07 6.246672621 -0.265797382 EGPVLATSS(ph)GAGVFK ddPTM_HeLa_SAHA_4h_R1 1 EGPVLATSSGAGVFK 15 0 F5GWT4;Q9H4A3-2;Q9H4A3;Q9H4A3-5;Q9H4A3-6;Q9H4A3-7;Q9H4A3-4 F5GWT4 WNK1 Serine/threonine-protein kinase WNK1 1 0 EGPVLAT(0.255)S(0.105)S(0.64)GAGVFK 153.32 3.91E-05 7843300 2187.6 2941.6 2747.8 1285.7 2355.8 2697.6 2398.2 1494.3 1630 2769.4 TRUE FALSE FALSE 2417.701805 3036.90977 3122.255874 1310.586583 2175.299113 2467.749304 2128.348224 1456.07797 1618.656697 2888.802387 0.836921839 1.051269475 1.080813242 0.453678171 0.753010702 0.854246491 0.736757984 0.504042082 0.560321019 1 11.4962558 -6.273767124 24.97159629 0.94345706 0.680512296 0.311460849 0.176926257 498.8804473 1010551.914 0.021038242 0.032278619 5.32E-07 6.273767124 -0.262944765 EGPYS(ph)ISVLYGDEEVPR ddPTM_HeLa_SAHA_4h_R1 1 EGPYSISVLYGDEEVPR 17 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 1 0 EGPYS(0.995)IS(0.005)VLYGDEEVPR 130.64 0.00011384 2496500 733.26 665.1 608.06 431.3 621.64 846.65 700.33 504.26 462.96 454.5 TRUE FALSE FALSE 810.3876511 686.6496764 690.9232502 439.6484352 574.0100775 774.5106569 621.5270252 491.3617594 459.7382237 474.0957193 1.709333407 1.448335533 1.457349691 0.927341078 1.210747227 1.633658828 1.310973713 1.036418891 0.96971604 1 8.889034556 -4.273171838 5.437280194 1.340675303 1.026885133 0.059744769 0.262419894 0.292274935 31.45843383 0.041821612 0.332278393 5.33E-05 4.273171838 -0.313790171 EGPYSISVLYGDEEVPR ddPTM_HeLa_SAHA_4h_R1 6 EGPYSISVLYGDEEVPR 17 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ;;;;; ;;;;; 354.47 4.82E-159 102187700 3929.24 3704.3 3514.03 4569 3945.18 4369.77 3536.1 4340.82 4627.79 3797.8 FALSE FALSE TRUE 4342.535491 3824.32175 3992.903708 4657.439602 3642.901161 3997.441012 3138.208721 4229.78811 4595.584833 3961.541744 1.096173099 0.965361972 1.007916606 1.175663391 0.919566521 1.009061944 0.792168535 1.067712619 1.160049579 1 11.95184629 EGPYSISVLYGDEEVPRS(ph)PFK ddPTM_HeLa_SAHA_4h_R1 2 EGPYSISVLYGDEEVPRSPFK 21 1 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 1 0 EGPY(0.006)S(0.038)IS(0.014)VLY(0.009)GDEEVPRS(0.933)PFK;EGPYSISVLYGDEEVPRS(1)PFK ; 139.04 3.02E-06 241020000 2848.38 3035.1 2845.32 3506.1 3808.1 4470.7 3600.1 3051.4 4473.8 3166.14 TRUE FALSE FALSE 3147.985677 3133.439231 3233.065392 3573.965635 3516.324201 4089.771209 3195.007273 2973.349606 4442.666462 3302.64779 0.953170267 0.948765787 0.978931329 1.082151614 1.064698516 1.238331021 0.967407812 0.900292673 1.345183242 1 11.68940741 -6.276964176 20.678611 0.97474819 1.057171213 0 0.143243106 108.9360127 145099.7999 0.012909241 0.01979713 5.28E-07 6.276964176 0.082423022 EGQEDQGLTK ddPTM_HeLa_SAHA_4h_R1 2 EGQEDQGLTK 10 0 A0A0U1RRM4;A0A0D9SF20;A0A087WUW5;O95758-7;O95758-6;O95758-2;O95758-4;A6NLN1;P26599;P26599-2;P26599-3;O95758-5;O95758;O95758-1 A0A0U1RRM4;A6NLN1;O95758-5;O95758-1 PTBP1;PTBP3 Polypyrimidine tract-binding protein 3;Polypyrimidine tract-binding protein 1 0 0 ; ; 147.91 0.00011892 9645400 1862.79 1711.18 1312.2 1700.49 1710.89 1813.2 1740.31 1751.83 1643.6 1496.89 FALSE FALSE TRUE 2058.726799 1766.623355 1491.019782 1733.405443 1579.801978 1658.705159 1544.485739 1707.020725 1632.162054 1561.428254 1.318489527 1.131415005 0.954907649 1.110140949 1.011767255 1.062299952 0.989149348 1.093243139 1.045300705 1 10.60865056 -6.940541121 10.42978211 1.1543051 1.038370812 0.1546403 0.090266705 0.634668591 107.8726853 0.019894782 0.026153364 1.15E-07 6.940541121 -0.115934288 EGQPSPADEKGNDS(ph)DGEGESDDPEK ddPTM_HeLa_SAHA_4h_R1 1 EGQPSPADEKGNDSDGEGESDDPEK 25 1 O75351;K7EKZ3 O75351 VPS4B Vacuolar protein sorting-associated protein 4B 1 0 EGQPS(0.006)PADEKGNDS(0.604)DGEGES(0.39)DDPEK 50.77 0.010983 30389000 317.68 464.45 267.27 409.23 561.09 752.64 388.14 352.88 777.99 431.02 TRUE FALSE FALSE 351.09504 479.4984847 303.6921637 417.1512384 518.0994054 688.5108378 344.4654657 343.8538406 772.5759042 449.6033816 0.780899465 1.066492167 0.675466814 0.927820509 1.152347662 1.531373797 0.766154081 0.764793715 1.718349852 1 8.812509076 -5.903275275 6.885042991 0.890436921 1.0661892 0 0.345173224 0.386316871 23.75084709 0.034263885 0.06244842 1.25E-06 5.903275275 0.175752278 EGRGES(ph)ENAGTNQETR ddPTM_HeLa_SAHA_4h_R1 2 EGRGESENAGTNQETR 16 1 Q08170 Q08170 SRSF4 Serine/arginine-rich splicing factor 4 1 0 EGRGES(0.987)ENAGT(0.013)NQETR;EGRGES(0.942)ENAGT(0.058)NQETR ; 169.58 2.43E-06 36799000 2363.5 1729.19 2022.99 1871.55 2054.61 2452 2446.5 2367.57 1783.12 1944.86 TRUE FALSE FALSE 2612.103774 1785.216891 2298.672542 1907.776557 1897.186226 2243.075805 2171.213381 2307.010988 1770.711123 2028.712433 1.287567293 0.879975329 1.133069678 0.940387867 0.935167644 1.105664741 1.070242064 1.137179893 0.872825096 1 10.98634866 -7.260985255 24.99966795 1.135795662 1.030368992 0 0.134023167 66.34828084 3652513.726 0.022043542 0.026143094 5.48E-08 7.260985255 -0.105426671 EGRPPEPTPAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 EGRPPEPTPAKR 12 2 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 0 1 ; EGRPPEPTPAK(1)R;EGRPPEPTPAK(1)R 101.71 0.0047952 40606000 2203.28 2543.4 2816.9 3615.5 3838.9 4309.7 4573.1 4163.6 3022.7 2393.8 FALSE TRUE FALSE 2435.031099 2625.807829 3200.772462 3685.483231 3544.764311 3942.489314 4058.522752 4057.101141 3001.664785 2497.008433 0.975179366 1.051581482 1.281842872 1.475959465 1.419604461 1.578885062 1.625354043 1.624784717 1.202104384 1 11.28598498 -6.396915547 1.078913982 0.981816104 1.593531453 0.880278117 0.08447011 0.057912191 0.133948169 0.009104228 0.017268159 4.01E-07 6.396915547 0.611715349 EGRPSGEAFVELES(ph)EDEVK ddPTM_HeLa_SAHA_4h_R1 2 EGRPSGEAFVELESEDEVK 19 1 P31943;G8JLB6;E9PCY7;D6RBM0;D6RIT2;D6RJ04;D6RDU3;D6RIU0;D6RFM3;D6R9T0;D6RAM1;D6RIH9;E7EN40;D6RDL0;E7EQJ0 P31943;E7EQJ0 HNRNPH1 "Heterogeneous nuclear ribonucleoprotein H;Heterogeneous nuclear ribonucleoprotein H, N-terminally processed" 1 0 EGRPSGEAFVELES(1)EDEVK;EGRPSGEAFVELES(1)EDEVK ; 158.35 3.27E-06 26417000 3714.11 4643.7 4080.9 4999.3 5494.7 6743.1 5821.3 4570.2 6887.5 5250.2 TRUE FALSE FALSE 4104.777131 4794.158927 4637.0238 5096.068681 5073.697273 6168.549944 5166.272003 4453.300902 6839.569327 5476.561816 0.749517173 0.875395748 0.846703453 0.930523356 0.92643842 1.126354481 0.943342224 0.813156329 1.248880147 1 12.41905474 -5.949785602 2.712473108 0.875968369 0.964526505 0 0.149133073 0.492890608 7.361728038 0.017727567 0.033820785 1.12E-06 5.949785602 0.088558136 EGRPSGEAFVELESEDEVK ddPTM_HeLa_SAHA_4h_R1 2 EGRPSGEAFVELESEDEVK 19 1 P31943;G8JLB6;E9PCY7;D6RBM0;D6RIT2;D6RJ04;D6RDU3;D6RIU0;D6RFM3;D6R9T0;D6RAM1;D6RIH9;E7EN40;D6RDL0;E7EQJ0 P31943;E7EQJ0 HNRNPH1 "Heterogeneous nuclear ribonucleoprotein H;Heterogeneous nuclear ribonucleoprotein H, N-terminally processed" 0 0 ; ; 216.16 2.79E-25 11408300 2698.89 3000.9 2630.17 3319.4 3282.1 3660 3430.6 3017 3287.9 2974.18 FALSE FALSE TRUE 2982.771633 3098.131129 2988.59587 3383.651787 3030.626207 3348.147409 3044.579859 2939.829509 3265.019236 3102.411455 0.961436507 0.998620323 0.963313833 1.09065217 0.976861468 1.079208048 0.981359147 0.947594976 1.052413351 1 11.59917432 EGS(ph)EFSFSDGEVAEK ddPTM_HeLa_SAHA_4h_R1 1 EGSEFSFSDGEVAEK 15 0 Q9BVS4-2;Q9BVS4 Q9BVS4-2 RIOK2 Serine/threonine-protein kinase RIO2 1 0 EGS(0.994)EFS(0.002)FS(0.003)DGEVAEK 101.53 0.0039272 2478000 0 189.02 128.34 385.16 222.98 328.15 313.81 136.68 363.49 154.28 TRUE FALSE FALSE 0 195.144372 145.8295068 392.6153288 205.8953206 300.1897739 278.4992729 133.1839235 360.9604435 160.9317658 0 1.212590759 0.906157377 2.439638481 1.279395149 1.865323309 1.730542578 0.827580079 2.242940924 1 7.330305313 -6.76067791 2.144885485 0.539052511 1.613568565 0 0.731102196 0.210204378 1.983840261 0.090908129 0.129703489 1.74E-07 6.76067791 1.074516054 EGS(ph)IT(ph)QGT(ph)PLKY(ph)DTGASTTGSKK ddPTM_HeLa_SAHA_4h_R1 1 EGSITQGTPLKYDTGASTTGSKK 23 2 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6 C9JE98 NCOR2 Nuclear receptor corepressor 2 4 0 EGS(0.984)IT(0.984)QGT(0.902)PLKY(0.528)DT(0.094)GAS(0.126)T(0.126)T(0.126)GS(0.129)KK 44.105 0.0085583 0 492.38 492.05 458.57 368.23 504.91 439.75 475.41 607.87 311.48 414.14 TRUE FALSE FALSE 544.1707875 507.9927428 521.0615315 375.3576241 466.2239049 402.280826 421.9156156 592.3215656 309.3123853 431.9956022 1.259667424 1.175921098 1.206173232 0.868892235 1.079232989 0.931215096 0.97666646 1.371128694 0.716008181 1 8.754872815 EGS(ph)PANWK ddPTM_HeLa_SAHA_4h_R1 2 EGSPANWK 8 0 O96019-2;O96019 O96019-2 ACTL6A Actin-like protein 6A 1 0 EGS(1)PANWK;EGS(1)PANWK ; 97.597 0.0127 178204000 9253.4 11344.3 8740.9 10279.8 12816.6 13713.8 12316.8 11894.5 13564.2 10770.9 TRUE FALSE FALSE 10226.71507 11711.86276 9932.064331 10478.78039 11834.59488 12545.30709 10930.88125 11590.25591 13469.80563 11235.28621 0.910231825 1.042417838 0.884006348 0.932666974 1.053341647 1.116598799 0.972906346 1.031594184 1.198884067 1 13.45574926 -5.755946173 24.99747386 0.955997301 1.043773449 0 0.093158884 115.6499462 526272.9155 0.008199815 0.016029401 1.75E-06 5.755946173 0.087776147 EGS(ph)PEPWLPLTDGR ddPTM_HeLa_SAHA_4h_R1 1 EGSPEPWLPLTDGR 14 0 J3KSM5;Q494U1-3;Q494U1;Q494U1-2 J3KSM5 PLEKHN1 Pleckstrin homology domain-containing family N member 1 1 0 EGS(0.735)PEPWLPLT(0.265)DGR 122.34 0.00082683 930210 172.08 0 236.41 299.85 271.09 373.39 176.22 147.31 172.12 238.93 TRUE FALSE FALSE 190.1801639 0 268.6267236 305.6540303 250.3191428 341.5750714 156.3912618 143.5420235 170.9222029 249.2314416 0.7630665 0 1.077820366 1.226386319 1.004364221 1.370513564 0.627494111 0.575938664 0.685797112 1 7.961342272 -9.452745124 1.36072387 0.994846642 0.833840006 0 0.378492001 1.635741122 5.666642121 0.223413102 0.063311474 3.53E-10 9.452745124 -0.161006636 EGS(ph)PIPHDPEFGSK ddPTM_HeLa_SAHA_4h_R1 6 EGSPIPHDPEFGSK 14 0 P85037;P85037-2 P85037 FOXK1 Forkhead box protein K1 1 0 EGS(1)PIPHDPEFGSK;EGS(1)PIPHDPEFGSK;EGS(1)PIPHDPEFGSK;EGS(1)PIPHDPEFGSK;EGS(1)PIPHDPEFGSK;EGS(1)PIPHDPEFGSK ;;;;; 216.54 2.46E-17 689420000 20915.2 25005.3 19079.7 22635.6 27037.3 30041.1 25271.2 23847.5 29678.4 24169.6 TRUE FALSE FALSE 23115.1567 25815.48813 21679.78215 23073.74477 24965.70792 27481.42927 22427.61807 23237.51548 29471.8656 25211.66974 0.916843547 1.023949956 0.859910604 0.915200977 0.990244128 1.090028132 0.889572896 0.921696806 1.16897714 1 14.62180405 -9.597832049 1.389757396 1.000030635 0.948022679 0.157906334 0.084297111 0.951640271 3.294510555 0.046012173 0.010620275 2.52E-10 9.597832049 -0.052007956 EGS(ph)QGELTPANSQSR ddPTM_HeLa_SAHA_4h_R1 3 EGSQGELTPANSQSR 15 0 C9JFE4;A0A096LP07;A0A096LPJ3;A8K070;Q13098-5;Q13098;Q13098-7;J3QQX0 C9JFE4 GPS1 COP9 signalosome complex subunit 1 1 0 EGS(0.971)QGELT(0.029)PANSQSR;EGS(1)QGELTPANSQSR;EGS(1)QGELTPANSQSR ;; 136.34 0.00019523 20944000 2134.71 2313.51 1606.21 2213.07 2251.04 3233.17 2200.09 2365.48 3154.84 2046.27 TRUE FALSE FALSE 2359.248592 2388.469242 1825.095934 2255.90717 2078.565802 2957.685727 1952.530083 2304.974447 3132.885212 2134.494714 1.105296058 1.118985785 0.855048233 1.056881123 0.973797587 1.385660835 0.914750489 1.079868894 1.467740909 1 11.05967887 -9.596978567 1.413988845 1.000241684 1.065598414 0 0.199595454 1.458036122 5.261362461 0.089027435 0.020948965 2.53E-10 9.596978567 0.06535673 EGSCIFPEELS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 EGSCIFPEELSPK 13 0 H3BN63;Q86YC2 H3BN63 PALB2 Partner and localizer of BRCA2 1 0 EGSCIFPEELS(1)PK;EGSCIFPEELS(1)PK ; 183 2.64E-06 26611000 4348.3 4333.5 3221 4522.3 4385.8 4896.1 4478.7 4759.6 4498.4 4029.8 TRUE FALSE FALSE 4805.674145 4473.908243 3659.941106 4609.835656 4049.760952 4478.924735 3974.744889 4637.856324 4467.095268 4203.544399 1.143243341 1.064318065 0.870679778 1.096654446 0.963415767 1.065511461 0.94556986 1.103320408 1.062697296 1 12.0373906 -6.95808951 24.99940572 1.069544966 1.005900207 0.135171171 0.074380519 229.6728501 136998.1505 0.012770547 0.016783779 1.10E-07 6.95808951 -0.063644759 EGSEFSFS(ph)DGEVAEK ddPTM_HeLa_SAHA_4h_R1 2 EGSEFSFSDGEVAEK 15 0 Q9BVS4-2;Q9BVS4 Q9BVS4-2 RIOK2 Serine/threonine-protein kinase RIO2 1 0 EGS(0.001)EFS(0.009)FS(0.989)DGEVAEK;EGS(0.007)EFS(0.011)FS(0.981)DGEVAEK ; 126.16 0.00049361 7826400 1312.81 1518.03 1127.23 1273.68 1326.12 1933.29 1454.81 1338.29 1462.49 1236.72 TRUE FALSE FALSE 1450.897379 1567.215168 1280.843034 1298.333918 1224.512972 1768.562816 1291.11095 1304.05848 1452.312413 1290.041052 1.12469086 1.214856819 0.992869981 1.006428374 0.949204656 1.3709353 1.000829352 1.010865878 1.12578775 1 10.33320126 -9.457072186 1.247995227 1.000962564 1.088791287 0 0.12678528 1.062125159 3.009159284 0.077413878 0.020069518 3.49E-10 9.457072186 0.087828723 EGSEFSFS(ph)DGEVAEKAEVYGSENESER ddPTM_HeLa_SAHA_4h_R1 1 EGSEFSFSDGEVAEKAEVYGSENESER 27 1 Q9BVS4-2;Q9BVS4 Q9BVS4-2 RIOK2 Serine/threonine-protein kinase RIO2 1 0 EGS(0.001)EFS(0.178)FS(0.821)DGEVAEKAEVYGSENESER 83.701 2.39E-05 2983300 138.55 245.33 190.7 244.14 423.97 260.33 173.51 239.93 0 132.62 TRUE FALSE FALSE 153.1233247 253.278853 216.6876029 248.8656827 391.4855102 238.1484194 153.9861981 233.792938 0 138.3378972 1.106879082 1.830871063 1.566364729 1.79896968 2.829922372 1.721498044 1.113116516 1.690013675 0 1 7.112052622 -7.28869221 5.016519929 1.047259099 1.797019394 0.441683991 0.520348244 0.143345639 9.977474564 0.072236509 0.083881539 5.14E-08 7.28869221 0.749760296 EGSGPIAFAHK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 EGSGPIAFAHKR 12 1 Q9UNI6 Q9UNI6 DUSP12 Dual specificity protein phosphatase 12 0 1 EGSGPIAFAHK(1)R 97.911 0.0046458 1619200 808.83 873.34 866.5 1115.2 1134.7 823.74 1532.8 889.97 401.18 527.57 FALSE TRUE FALSE 893.9064504 901.636789 984.5821075 1136.786309 1047.759531 753.5527178 1360.32531 867.2058561 398.3881557 550.3161246 1.624350824 1.638397911 1.78912095 2.065696893 1.903923008 1.36930881 2.471897968 1.575832176 0.723926009 1 9.104116791 -8.684685751 0.37519116 0.833847509 1.927601295 0.625111823 0.292741586 0.907663002 0.234658888 0.40737867 0.116243313 2.07E-09 8.684685751 1.093753785 EGSIETLSNS(ph)SGSTSGSIPR ddPTM_HeLa_SAHA_4h_R1 1 EGSIETLSNSSGSTSGSIPR 20 0 K7ESE9;Q9H6U6-6;Q9H6U6-2;Q9H6U6;Q9H6U6-3;Q9H6U6-8 K7ESE9 BCAS3 Breast carcinoma-amplified sequence 3 1 0 EGS(0.002)IETLS(0.091)NS(0.782)S(0.087)GS(0.004)TS(0.028)GS(0.005)IPR 239.8 1.95E-41 3486000 977.07 1260.6 1181 1235.3 1500.7 1597.9 1359.7 1405.8 1286.7 1288.1 TRUE FALSE FALSE 1079.842706 1301.444267 1341.94053 1259.211018 1385.71669 1461.74993 1206.702977 1369.841672 1277.74575 1343.636295 0.803671879 0.968598625 0.998737928 0.93716657 1.031318293 1.087905958 0.898087512 1.019503326 0.950961026 1 10.39192696 -7.016786014 23.95104985 0.906176115 0.99333225 0.204441649 0.066815525 532.673604 760043.1895 0.014059461 0.017468251 9.62E-08 7.016786014 0.087156136 EGSIETLSNSSGSTS(ph)GSIPR ddPTM_HeLa_SAHA_4h_R1 1 EGSIETLSNSSGSTSGSIPR 20 0 K7ESE9;Q9H6U6-6;Q9H6U6-2;Q9H6U6;Q9H6U6-3;Q9H6U6-8 K7ESE9 BCAS3 Breast carcinoma-amplified sequence 3 1 0 EGSIETLSNS(0.001)SGS(0.02)T(0.02)S(0.946)GS(0.013)IPR 186.6 5.46E-14 3807500 567.6 431.34 604.1 662.81 647.34 884.55 513.02 545.58 537.83 632.44 TRUE FALSE FALSE 627.3027722 445.315699 686.423602 675.639646 597.7409491 809.1813637 455.2936394 531.6248536 534.0871972 659.7075835 0.950880038 0.675019827 1.040496758 1.024150189 0.906069544 1.22657581 0.69014462 0.805849238 0.809581716 1 9.365682879 -4.712680176 24.99999961 0.971045487 0.747996306 0.248291239 0.140997237 97.64157993 50061.68123 0.017023207 0.063694783 1.94E-05 4.712680176 -0.22304918 EGSIETLSNSSGSTSGS(ph)IPR ddPTM_HeLa_SAHA_4h_R1 1 EGSIETLSNSSGSTSGSIPR 20 0 K7ESE9;Q9H6U6-6;Q9H6U6-2;Q9H6U6;Q9H6U6-3;Q9H6U6-8 K7ESE9 BCAS3 Breast carcinoma-amplified sequence 3 1 0 EGSIETLSNSS(0.001)GS(0.009)T(0.238)S(0.353)GS(0.399)IPR 115.42 3.17E-05 0 436.45 443.5 285.93 461.04 606.66 544.67 490.57 587.27 608.14 567.81 TRUE FALSE FALSE 482.3578135 457.869691 324.8950513 469.9640959 560.1778419 498.2610518 435.3697725 572.2484838 603.9079042 592.2910679 0.814393192 0.773048448 0.548539509 0.793468147 0.945781343 0.841243569 0.735060507 0.966160921 1.019613391 1 9.210162519 -8.858097237 0.871891277 0.991992144 0.79820487 0.355221147 0.110126918 0.528697337 0.778501604 0.058872816 0.022764114 1.39E-09 8.858097237 -0.193787273 EGSITQGT(ph)PLKYDTGASTTGSK ddPTM_HeLa_SAHA_4h_R1 2 EGSITQGTPLKYDTGASTTGSK 22 1 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6 C9JE98 NCOR2 Nuclear receptor corepressor 2 1 0 EGS(0.003)IT(0.017)QGT(0.923)PLKY(0.022)DT(0.021)GAS(0.009)T(0.003)T(0.001)GSK;EGS(0.016)IT(0.071)QGT(0.906)PLKY(0.004)DT(0.001)GAS(0.001)TTGSK ; 78.987 0.0011874 21145200 3202.87 3651.3 2562.6 2892.91 3820.1 3344.09 3207.64 3427.4 5016.3 4301.69 TRUE FALSE FALSE 3539.762562 3769.604516 2911.817783 2948.906456 3527.404763 3059.154719 2846.707905 3339.732071 4981.39116 4487.156908 0.78886534 0.840087519 0.648922657 0.657188174 0.786111303 0.681757911 0.634412383 0.744286892 1.110144188 1 12.13158592 -8.601503603 0.353803574 1.059264113 0.674188141 0.799274649 0.067153683 0.594389279 0.143934636 0.091690317 0.028624904 2.50E-09 8.601503603 -0.385075972 EGSQGELT(ph)PANSQSR ddPTM_HeLa_SAHA_4h_R1 3 EGSQGELTPANSQSR 15 0 C9JFE4;A0A096LP07;A0A096LPJ3;A8K070;Q13098-5;Q13098;Q13098-7;J3QQX0 C9JFE4 GPS1 COP9 signalosome complex subunit 1 1 0 EGSQGELT(1)PANSQSR;EGS(0.008)QGELT(0.991)PANSQSR;EGSQGELT(0.989)PANS(0.011)QSR ;; 188.16 1.22E-08 88393000 3530.01 3654.9 2867.95 2736.63 3751.94 3757.66 3493.1 3675.44 3685.32 3273.24 TRUE FALSE FALSE 3901.312648 3773.321158 3258.77929 2789.601431 3464.467168 3437.486228 3100.047195 3581.427567 3659.673558 3414.365395 1.142617206 1.105131034 0.954431911 0.817019009 1.014673817 1.006771634 0.907942424 1.048929201 1.071845902 1 11.73740174 -6.751200489 24.55281696 1.072062569 0.954350466 0.424728277 0.069000153 145.4600754 348811.1462 0.01254552 0.017621729 1.77E-07 6.751200489 -0.117712103 EGSTEFDWGDET(ph)SRDSEASSVAAR ddPTM_HeLa_SAHA_4h_R1 1 EGSTEFDWGDETSRDSEASSVAAR 24 1 I3L2J0 I3L2J0 CIC 1 0 EGS(0.003)T(0.002)EFDWGDET(0.417)S(0.417)RDS(0.148)EAS(0.006)S(0.008)VAAR 72.167 0.0013393 4921200 179.08 234.98 346.16 335.09 248.69 279.86 278.12 389.43 219.81 231.97 TRUE FALSE FALSE 197.916456 242.5935062 393.3328821 341.5761515 229.6354259 256.0143536 246.8252056 379.4689445 218.2803243 241.9713619 0.817933389 1.002571148 1.625534852 1.411638752 0.949019025 1.058035759 1.020059579 1.568239074 0.902091564 1 7.9186925 -6.98228987 24.99619917 0.913825551 1.248518387 0.378053203 0.215848776 210.5193031 297127.5291 0.03621523 0.047590999 1.04E-07 6.98228987 0.334692836 EGSTQQLQTT(ph)SPK ddPTM_HeLa_SAHA_4h_R1 2 EGSTQQLQTTSPK 13 0 A0A087X0H9;Q5T8P6-3;Q5T8P6-2;Q5T8P6;Q5T8P6-5;Q5T8P6-4 A0A087X0H9 RBM26 RNA-binding protein 26 1 0 EGSTQQLQT(0.006)T(0.497)S(0.497)PK;EGSTQQLQTT(0.988)S(0.012)PK ; 167.22 6.26E-05 45221000 6184.8 5862.2 5328.7 5933.6 6534.4 6857.8 6344.8 5442.9 6006 5914.9 TRUE FALSE FALSE 6835.345641 6052.139126 6054.867485 6048.453408 6033.735684 6273.476859 5630.866405 5303.678499 5964.203757 6169.920286 1.107849911 0.980910424 0.981352628 0.980313056 0.977927656 1.016784102 0.912631954 0.859602435 0.966658155 1 12.59103613 -2.310410763 0.399769001 1.044524437 2.50E-13 0.424825706 0.046313652 12.49218581 0.399223426 0.013015983 8.777642719 0.004893158 2.310410763 -1.044524437 EGT(ph)PPPPPPSR ddPTM_HeLa_SAHA_4h_R1 2 EGTPPPPPPSR 11 0 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;C9JQE8 C9JE98 NCOR2 Nuclear receptor corepressor 2 1 0 EGT(1)PPPPPPSR;EGT(1)PPPPPPSR ; 121.21 0.0036503 101019000 7760 7736.9 7180.3 8392 8332.4 7887.2 6954.4 7740.4 8260.9 8033.6 TRUE FALSE FALSE 8576.232404 7987.580636 8158.793891 8554.439295 7693.973312 7215.166188 6171.872609 7542.411776 8203.411724 8379.967811 1.023420686 0.953175575 0.973606829 1.020820066 0.918138767 0.861001659 0.73650314 0.900052595 0.978931174 1 13.03272899 -5.418326765 2.09785244 1.004183755 0.816929666 0.716324305 0.044407517 0.104110893 0.889909138 0.006050364 0.016397005 3.82E-06 5.418326765 -0.187254089 EGTAPS(ph)ENGETK ddPTM_HeLa_SAHA_4h_R1 4 EGTAPSENGETK 12 0 A0A087WZE9;Q15651 A0A087WZE9 HMGN3 High mobility group nucleosome-binding domain-containing protein 3 1 0 EGT(0.289)APS(0.711)ENGETK;EGT(0.065)APS(0.934)ENGETK;EGT(0.467)APS(0.533)ENGETK;EGT(0.276)APS(0.724)ENGETK ;;; 172.58 6.07E-05 36728500 6649 10201.1 5700.82 10131.7 9899.4 11043.2 8820.7 8640 14295.6 9584.3 TRUE FALSE FALSE 7348.372327 10531.62233 6477.698061 10327.8137 9140.910111 10102.25723 7828.171621 8419.001311 14196.11576 9997.526077 0.735019071 1.053422842 0.647930099 1.033036936 0.914317206 1.010475707 0.783010873 0.842108462 1.419962863 1 13.28735542 EGTETFADHR ddPTM_HeLa_SAHA_4h_R1 2 EGTETFADHR 10 0 Q9Y490 Q9Y490 TLN1 Talin-1 0 0 ; ; 149.96 0.00070091 25349000 11306.5 11437.6 9841.6 11172.7 12822.1 13439.8 13116 12446.6 12824.2 11644.3 FALSE FALSE TRUE 12495.76955 11808.18574 11182.762 11388.96376 11839.67347 12294.65343 11640.15316 12128.23399 12734.95535 12146.34276 1.028768066 0.972159767 0.920669062 0.937645511 0.974752129 1.012210315 0.95832576 0.998509118 1.048460067 1 13.56823437 -7.187770468 6.530662418 1.013550427 0.966161304 0.457586825 0.027998927 0.188544837 13.88000084 0.004655711 0.0057063 6.49E-08 7.187770468 -0.047389123 EGTGQQERES(ph)PRPLQLPGAEGPAISDGEEGGGEPGAGGGAAGAAGAGR ddPTM_HeLa_SAHA_4h_R1 2 EGTGQQERESPRPLQLPGAEGPAISDGEEGGGEPGAGGGAAGAAGAGR 48 2 Q6PKG0;A0A0B4J210 Q6PKG0 LARP1 La-related protein 1 1 0 EGT(0.36)GQQERES(0.625)PRPLQLPGAEGPAIS(0.014)DGEEGGGEPGAGGGAAGAAGAGR;EGT(0.089)GQQERES(0.91)PRPLQLPGAEGPAIS(0.001)DGEEGGGEPGAGGGAAGAAGAGR ; 69.059 4.54E-07 27195000 347.54 208.63 140.83 225.837 207.42 350.37 217.18 279.07 316.66 181.81 TRUE FALSE FALSE 384.0958518 215.3897489 160.021579 230.2084017 191.5275244 320.5165049 192.7423348 271.9317935 314.4563373 189.6487189 2.02530159 1.13573005 0.843778856 1.213867423 1.009906766 1.690053625 1.016312348 1.433870975 1.658098927 1 7.567185816 EGTGSTATSSS(ph)STAGAAGK ddPTM_HeLa_SAHA_4h_R1 1 EGTGSTATSSSSTAGAAGK 19 0 E5RHC7;E5RH59;E5RFW7;E5RFH0;E5RGU4;A0A087WZK9;B3KS98;O15372 E5RHC7 EIF3H Eukaryotic translation initiation factor 3 subunit H 1 0 EGTGSTATS(0.007)S(0.002)S(0.494)S(0.494)T(0.002)AGAAGK 235.78 4.82E-33 4060700 1464.8 1299.8 1370.1 1549 1502.3 1750.6 1474.8 1727.6 1631.7 1456.1 TRUE FALSE FALSE 1618.874385 1341.914373 1556.810093 1578.983135 1387.194099 1601.439031 1308.851623 1683.410494 1620.344867 1518.879597 1.065834572 0.88348963 1.024972681 1.039570969 0.913300897 1.054355483 0.861721775 1.108323857 1.066802708 1 10.5687918 EGTGSTATSSSS(ph)TAGAAGK ddPTM_HeLa_SAHA_4h_R1 1 EGTGSTATSSSSTAGAAGK 19 0 E5RHC7;E5RH59;E5RFW7;E5RFH0;E5RGU4;A0A087WZK9;B3KS98;O15372 E5RHC7 EIF3H Eukaryotic translation initiation factor 3 subunit H 1 0 EGTGSTATS(0.001)SS(0.036)S(0.95)T(0.013)AGAAGK 370.22 1.87E-187 3980800 2695.9 2347.2 1706.3 1922.7 2403.5 2908 2477.3 2357.7 2095.4 2522.7 TRUE FALSE FALSE 2979.467131 2423.25082 1938.825678 1959.916639 2219.344349 2660.22204 2198.547684 2297.393448 2080.817941 2631.465943 1.13224613 0.920874856 0.736785396 0.744800306 0.843387069 1.010927786 0.835483997 0.873047 0.790744773 1 11.36165101 -7.060722703 5.300052619 1.061676054 0.842628496 0.093665496 0.115106457 0.114173561 6.593387806 0.014799984 0.018371941 8.70E-08 7.060722703 -0.219047558 EGTGSTATSSSSTAGAAGK ddPTM_HeLa_SAHA_4h_R1 1 EGTGSTATSSSSTAGAAGK 19 0 E5RHC7;E5RH59;E5RFW7;E5RFH0;E5RGU4;A0A087WZK9;B3KS98;O15372 E5RHC7 EIF3H Eukaryotic translation initiation factor 3 subunit H 0 0 170.26 2.10E-20 0 0 0 134.25 133.68 0 170.12 58.134 0 120.35 0 FALSE FALSE TRUE 0 0 152.5448909 136.2675697 0 155.6248189 51.59260932 0 119.5124746 0 0 EGTQASEGYFSQS(ph)QEEEFAQSEELCAK ddPTM_HeLa_SAHA_4h_R1 2 EGTQASEGYFSQSQEEEFAQSEELCAK 27 0 Q16643;Q16643-2;Q16643-3 Q16643 DBN1 Drebrin 1 0 EGTQASEGYFS(0.02)QS(0.98)QEEEFAQSEELCAK;EGTQASEGYFS(0.001)QS(0.999)QEEEFAQSEELCAK ; 143.82 1.05E-09 18065500 4503 5109.9 4423.5 4591 5243.8 5721.6 5990.9 5247.1 4917.6 5357.8 TRUE FALSE FALSE 4976.646201 5275.464113 5026.311543 4679.865444 4842.021177 5234.087491 5316.788165 5112.88678 4883.378021 5588.800978 0.890467601 0.943934868 0.899354184 0.837364841 0.866379246 0.93653138 0.95132895 0.914845027 0.873779195 1 12.44832309 -9.31260704 0.790410497 1.00719619 0.903740545 0 0.051267886 0.525635682 0.521901223 0.035327632 0.007197821 4.87E-10 9.31260704 -0.103455646 EGVFAK(ac)EVR ddPTM_HeLa_SAHA_4h_R1 2 EGVFAKEVR 9 1 A0A0U1RQF0;P49327 A0A0U1RQF0 FASN Fatty acid synthase;[Acyl-carrier-protein] S-acetyltransferase;[Acyl-carrier-protein] S-malonyltransferase;3-oxoacyl-[acyl-carrier-protein] synthase;3-oxoacyl-[acyl-carrier-protein] reductase;3-hydroxyacyl-[acyl-carrier-protein] dehydratase;Enoyl-[acyl-carrier-protein] reductase;Oleoyl-[acyl-carrier-protein] hydrolase 0 1 ; EGVFAK(1)EVR;EGVFAK(1)EVR 111.06 0.004743 46321000 4803 5507.1 6475 5532.9 5851 5323 6061.7 5064.6 3430.2 4916 FALSE TRUE FALSE 5308.201577 5685.533653 7357.37928 5639.99728 5402.697644 4869.450454 5379.621562 4935.054865 3406.328959 5127.952818 1.035150237 1.108733613 1.43475955 1.099853583 1.053577877 0.949589559 1.04907782 0.962383048 0.664266829 1 12.32416727 -2.817891122 14.10737453 1.05159343 0.635754548 0 0.179927214 0 0 0.018251354 0 0.001520929 2.817891122 -0.415838882 EGVHGGLINK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EGVHGGLINKK 11 1 P07737;K7EJ44 P07737 PFN1 Profilin-1 0 1 ; EGVHGGLINK(1)K;EGVHGGLINK(1)K 115.91 0.0014224 65395000 7400.5 22741 10780.3 11420.7 18207.5 16360.5 21057 14786.2 15728.6 5856.5 FALSE TRUE FALSE 8178.918545 23477.82332 12249.38314 11641.76416 16812.44528 14966.49336 18687.61094 14407.99041 15619.14339 6109.002376 1.338830474 3.843151774 2.005136418 1.905673537 2.752077058 2.449907929 3.059028265 2.358484991 2.556742072 1 12.57672109 -7.448366657 10.87294356 1.149184086 2.589283962 0.229169285 0.685866346 0.322607819 46.26112622 0.085875393 0.09803617 3.56E-08 7.448366657 1.440099876 EGVHGGLINKK ddPTM_HeLa_SAHA_4h_R1 1 EGVHGGLINKK 11 1 P07737;K7EJ44 P07737 PFN1 Profilin-1 0 0 67.334 0.016362 17342000 12081 9965.7 11293 12687 12147 11931 13016 10601 10679 11037 FALSE FALSE TRUE 13351.73501 10288.59522 12831.95123 12932.57523 11216.29948 10914.41168 11551.40542 10329.84177 10604.68397 11512.85908 1.159723654 0.893661179 1.114575549 1.123315689 0.974241012 0.948019219 1.003348112 0.897243829 0.921116457 1 13.49095853 -5.639594235 6.560401079 1.068166515 0.956085228 0.106466665 0.087245745 0.213905742 11.49544376 0.012105928 0.024342048 2.29E-06 5.639594235 -0.112081287 EGVK(ac)FDDSEK ddPTM_HeLa_SAHA_4h_R1 1 EGVKFDDSEK 10 1 Q58FF3 Q58FF3 HSP90B2P Putative endoplasmin-like protein 0 1 EGVK(1)FDDSEK 102.06 0.0085253 1713900 332.32 405.25 535.16 1310.9 1189.6 1965.7 624.38 660.98 848.87 1177.5 FALSE TRUE FALSE 367.2749423 418.3803659 608.0888178 1336.274365 1098.453105 1798.211301 554.1231191 644.0730887 842.9626446 1228.267788 0.299018623 0.340626344 0.495078373 1.087934063 0.894310765 1.464022194 0.451141945 0.524375136 0.686302004 1 10.26240942 -6.270833651 24.52901925 0.61886536 0.89304596 0.188080719 0.322497698 944.3329375 2465708.982 0.059936785 0.092338958 5.36E-07 6.270833651 0.274180599 EGVK(ac)FDDSEKTK ddPTM_HeLa_SAHA_4h_R1 1 EGVKFDDSEKTK 12 2 Q58FF3 Q58FF3 HSP90B2P Putative endoplasmin-like protein 0 1 EGVK(0.996)FDDSEK(0.004)TK 87.719 0.014176 1933200 550.84 376.54 592.02 1414 1123.7 1744.2 812.96 753.18 621.83 1524.6 FALSE TRUE FALSE 608.7798785 388.7401431 672.6974025 1441.370015 1037.602349 1595.584347 721.4836012 733.9147462 617.5026344 1590.332967 0.382800263 0.244439467 0.422991547 0.906332224 0.652443463 1.003302063 0.453668267 0.46148496 0.388285125 1 10.63511314 -9.451577697 1.224924981 0.996518913 0.55701806 0 0.290373748 0.444769246 1.208336719 0.160812673 0.041268912 3.54E-10 9.451577697 -0.439500853 EGVK(ac)FDESEK ddPTM_HeLa_SAHA_4h_R1 1 EGVKFDESEK 10 1 P14625 P14625 HSP90B1 Endoplasmin 0 1 EGVK(1)FDESEK 147.74 3.34E-05 1429100 384.12 1158.2 371.37 472.33 1025.9 1205.2 754.72 800.1 937.48 323.14 FALSE TRUE FALSE 424.523504 1195.72644 421.9783696 481.4726302 947.2957636 1102.51018 669.7969193 779.6346005 930.9560004 337.0721468 1.259444033 3.547390229 1.251893322 1.428396368 2.810364999 3.27084332 1.987102541 2.312960617 2.761889433 1 8.396913608 -7.482427624 21.51133126 1.114458139 2.335083047 0.013102803 0.861122524 64.3927843 34243.88366 0.117206142 0.132179055 3.29E-08 7.482427624 1.220624908 EGVK(ac)TENNDHINLK ddPTM_HeLa_SAHA_4h_R1 2 EGVKTENNDHINLK 14 1 P61956-2;P61956 P61956-2 SUMO2 Small ubiquitin-related modifier 2 0 1 ; EGVK(1)TENNDHINLK;EGVK(1)TENNDHINLK 198.81 2.35E-23 8421300 4003.9 5039 4043.4 4534.7 4998.3 6615.4 5151.7 5638.7 6487.3 3992.4 FALSE TRUE FALSE 4425.048573 5202.266906 4594.413495 4622.475676 4615.331334 6051.730703 4572.017157 5494.470219 6442.154351 4164.531902 1.062556051 1.249184069 1.103224469 1.109962844 1.108247323 1.453159886 1.097846592 1.319348812 1.546909593 1 12.02393863 -6.113765301 0.254596652 0.972692781 1.357820132 0 0.202005399 2.39971809 0.307215467 0.101608832 0.308542776 7.70E-07 6.113765301 0.385127352 KVEPGEPAK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 KVEPGEPAKK 10 2 Q8N6N3 Q8N6N3 C1orf52 UPF0690 protein C1orf52 0 1 KVEPGEPAK(1)K 95.477 0.0067484 3282900 1846.6 2551.9 3269.3 4443.2 4562.3 5654 5376.3 6247.2 1848.8 1571.9 FALSE TRUE FALSE 2040.833861 2634.583234 3714.823178 4529.204561 4212.73756 5172.247391 4771.344574 6087.40567 1835.93405 1639.672302 1.244659594 1.606774251 2.265588785 2.762262042 2.569255793 3.154439693 2.9099379 3.712574557 1.119695715 1 10.6791918 -6.421202613 0.65062062 1.027761528 3.340632872 0.938708048 0.221703186 0.109230715 0.091829793 0.048631009 0.110554823 3.79E-07 6.421202613 2.312871344 up EGVMYVGAK(ac)TK ddPTM_HeLa_SAHA_4h_R1 1 EGVMYVGAKTK 11 1 F8W754;O76070 F8W754 SNCG Gamma-synuclein 0 1 EGVMYVGAK(1)TK 110.39 0.0088414 1222900 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 EGVQGPLNVS(ph)LSEEGK ddPTM_HeLa_SAHA_4h_R1 2 EGVQGPLNVSLSEEGK 16 0 P12270 P12270 TPR Nucleoprotein TPR 1 0 EGVQGPLNVS(1)LSEEGK;EGVQGPLNVS(0.998)LS(0.002)EEGK ; 188.41 1.33E-11 18709100 2155.19 2220.39 1682.56 2116.14 2204.22 2667.91 2345.78 1845.7 2697.86 1951.31 TRUE FALSE FALSE 2381.882773 2292.332093 1911.850514 2157.10095 2035.33314 2440.589059 2081.826661 1798.489667 2679.085373 2035.440524 1.170205047 1.126209322 0.939280953 1.059771054 0.999947243 1.199047101 1.022789237 0.883587433 1.316218942 1 10.99112535 -6.800237916 24.99995583 1.086057957 1.027037105 0.166186583 0.113473685 339.0091752 218440.3489 0.01606264 0.021110691 1.58E-07 6.800237916 -0.059020852 EGVTPWAS(ph)FK ddPTM_HeLa_SAHA_4h_R1 1 EGVTPWASFK 10 0 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 EGVT(0.056)PWAS(0.944)FK 84.479 0.022729 4853300 1295.7 1360.9 1307.3 923.47 1323.4 1164.1 1350 1088.4 1163.7 1118.4 TRUE FALSE FALSE 1431.987671 1404.994053 1485.452036 941.3450972 1222.001378 1064.912131 1198.094447 1060.560304 1155.601717 1166.619697 1.227467421 1.204329102 1.273295864 0.806899712 1.047471923 0.912818576 1.026979443 0.909088289 0.990555637 1 10.18811862 -6.261420931 25 1.130264034 0.949835768 0.468450632 0.105273327 1.419008793 1921814.763 0.017789249 0.028292409 5.48E-07 6.261420931 -0.180428266 EGVVAAAEK(ac)TK ddPTM_HeLa_SAHA_4h_R1 2 EGVVAAAEKTK 11 1 D6RA31;H6UYS7;E7EPV7;A0A669KB41;A0A669KBH5;P37840-2;P37840-3;P37840;G4Y816;Q16143 D6RA31 SNCA;SNCB Alpha-synuclein;Beta-synuclein 0 1 ; EGVVAAAEK(1)TK;EGVVAAAEK(1)TK 118.77 0.0037318 3750800 1645.73 2133.81 1524.82 2391.58 2498.8 2559.11 2391.9 2754.44 1805.99 1566.48 FALSE TRUE FALSE 1818.835432 2202.946844 1732.614529 2437.872489 2307.342484 2341.059431 2122.757117 2683.985413 1793.421969 1634.018619 1.113105696 1.348177321 1.060339526 1.491949027 1.412066213 1.432700585 1.29910216 1.642567216 1.097552958 1 10.67420871 -6.587098933 0.411913698 0.998081339 1.531844973 0.637222271 0.121808074 0.481617624 0.178028705 0.046241948 0.101309329 2.59E-07 6.587098933 0.533763634 EGVVECSFVK ddPTM_HeLa_SAHA_4h_R1 2 EGVVECSFVK 10 0 P40926;P40926-2;G3XAL0 P40926 MDH2 "Malate dehydrogenase, mitochondrial;Malate dehydrogenase" 0 0 ; ; 168.83 0.00066817 18353000 2698.4 2724.3 2403.9 2621.4 2937.9 3435.3 3179.5 2912.8 3409.8 2414 FALSE FALSE TRUE 2982.230093 2812.569107 2731.490973 2672.140988 2712.798737 3142.593114 2821.734292 2838.294794 3386.070924 2518.079354 1.184327288 1.116950148 1.084751745 1.0611822 1.077328533 1.248011946 1.1205899 1.12716654 1.344703819 1 11.29810803 -9.472311301 1.179016985 0.999130845 1.131630712 0 0.118896486 0.36540915 0.899189198 0.039756373 0.009513191 3.37E-10 9.472311301 0.132499868 EGVVGAVEK(ac)TK ddPTM_HeLa_SAHA_4h_R1 2 EGVVGAVEKTK 11 1 F8W754;O76070 F8W754 SNCG Gamma-synuclein 0 1 ; EGVVGAVEK(1)TK;EGVVGAVEK(1)TK 165.63 5.80E-08 5047100 2791.2 2770.9 3046.1 3745.3 3047.5 4119.9 3736 5440.2 3049.6 2627 FALSE TRUE FALSE 3084.791222 2860.678978 3461.206645 3817.795697 2814.001208 3768.861342 3315.615447 5301.047561 3028.377585 2740.262826 1.125728231 1.043943286 1.263092945 1.393222453 1.026909237 1.375364912 1.209962568 1.93450333 1.105141287 1 11.42009856 -1 0.65247305 1.086120226 70.56700015 0.712298123 0.141674571 79.19654138 0.469825532 0.023963503 7969.025958 0.1 1 69.48087992 EGVVGPELHHK ddPTM_HeLa_SAHA_4h_R1 1 EGVVGPELHHK 11 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 90.149 0.0061674 3771100 4477.1 4293.7 4280 4683.4 4704 2873.2 4874.7 5069.1 4349.9 4234.6 FALSE FALSE TRUE 4948.02192 4432.818697 4863.256111 4774.053979 4343.580536 2628.387196 4326.185926 4939.439762 4319.628692 4417.17433 1.120178094 1.003541714 1.100988041 1.080793653 0.983339169 0.59503814 0.97940122 1.118235187 0.977916734 1 12.10890806 -5.518172865 24.47728836 1.057756784 0.886316863 0.20906091 0.128933981 151.6905374 789004.8042 0.018293019 0.03739265 3.03E-06 5.518172865 -0.171439922 EGYAWAEDKEHCEEYGR ddPTM_HeLa_SAHA_4h_R1 2 EGYAWAEDKEHCEEYGR 17 1 Q9Y3I0 Q9Y3I0 RTCB tRNA-splicing ligase RtcB homolog 0 0 ; ; 120.92 0.00035379 73135000 5950.7 5205 5406.6 6202.6 6697.5 6285.4 6479.1 4200.3 6732.4 6024 FALSE FALSE TRUE 6576.621929 5373.645415 6143.383292 6322.660292 6184.338997 5749.848559 5750.054616 4092.862408 6685.54868 6283.724121 1.046612137 0.855168895 0.977665979 1.006196353 0.984183723 0.915038351 0.915071143 0.651343428 1.063946881 1 12.61740413 -3.680500526 0.938003135 1.003846021 1.86E-15 0.752839264 0.056645331 1.860796993 0.57979309 0.008767881 2.470192109 0.000208689 3.680500526 -1.003846021 EGYK(ac)FYPPK ddPTM_HeLa_SAHA_4h_R1 1 EGYKFYPPK 9 1 E9PBS1;P22234;P22234-2;D6RF62 E9PBS1 PAICS Multifunctional protein ADE2;Phosphoribosylaminoimidazole-succinocarboxamide synthase;Phosphoribosylaminoimidazole carboxylase 0 1 EGYK(1)FYPPK 99.815 0.0071994 1004700 426.49 1354.5 728.7 748.11 810.94 1100.2 942.75 1013.4 937.42 566.73 FALSE TRUE FALSE 471.350175 1398.386689 828.0034411 762.5907508 748.8059524 1006.45677 836.6692888 987.4786954 930.8964179 591.1645038 0.797324893 2.365478102 1.400631188 1.289980616 1.266662575 1.702498651 1.415290132 1.670395785 1.574682532 1 9.207415836 EHALLAYTLGVK ddPTM_HeLa_SAHA_4h_R1 2 EHALLAYTLGVK 12 0 Q5VTE0;P68104;A0A087WV01;A0A2U3TZH3;Q05639;A0A2R8Y488;A0A2R8Y660 Q5VTE0;A0A2U3TZH3 EEF1A1P5;EEF1A1;EEF1A2 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha;Elongation factor 1-alpha 2 0 0 ; ; 160.18 1.95E-07 38474000 15803.9 17404.8 20597 19364.3 20586 805.53 22307 8561 10724.1 15220.7 FALSE FALSE TRUE 17466.22671 17968.72694 23403.8519 19739.12403 19008.70513 736.8943122 19796.95765 8342.022016 10649.47011 15876.93887 1.100100395 1.131750087 1.474078353 1.243257544 1.197252524 0.046412871 1.246900163 0.525417531 0.670750842 1 13.95464516 EHAPSIIFMDEIDSIGSSR ddPTM_HeLa_SAHA_4h_R1 2 EHAPSIIFMDEIDSIGSSR 19 0 P62195-2;P62195;J3QQM1;J3QSA9 P62195-2 PSMC5 26S protease regulatory subunit 8 0 0 ; ; 199.05 1.03E-19 6465600 2402.01 2227.29 1897.38 2692.05 2762.1 2093.54 2857 2840.2 3063.7 2312.94 FALSE FALSE TRUE 2654.664433 2299.455657 2155.945065 2744.158521 2550.468495 1915.158614 2535.522841 2767.551797 3042.379462 2412.662163 1.100305079 0.953078178 0.89359592 1.137398581 1.057117956 0.793794773 1.050923283 1.147094624 1.261005171 1 11.2364102 -7.257804824 24.9059912 1.047366287 1.001224636 0.072820757 0.123706201 873.2026819 5983684.357 0.01784881 0.021416784 5.52E-08 7.257804824 -0.046141651 EHEVFQR ddPTM_HeLa_SAHA_4h_R1 4 EHEVFQR 7 0 O60884 O60884 DNAJA2 DnaJ homolog subfamily A member 2 0 0 ;;; ;;; 130.77 0.0013345 12072000 6454.58 6654.9 5409.83 6979.1 6958.3 1392.68 7908 5884.5 8036.4 7241.9 FALSE FALSE TRUE 7133.502339 6870.523126 6147.053459 7114.190572 6425.156557 1274.015829 7018.171027 5733.983011 7980.474038 7554.13375 0.944317717 0.909505094 0.813733733 0.941761267 0.850548424 0.168651479 0.929050406 0.759052355 1.056438012 1 12.88305061 -5.508565343 24.58672217 0.950165377 0.626542751 0.37480161 0.187851838 398.3697406 684295.2093 0.025195692 0.054374107 3.10E-06 5.508565343 -0.323622626 EHFQDDVFNEK ddPTM_HeLa_SAHA_4h_R1 1 EHFQDDVFNEK 11 0 A0A0C4DFS8;P43490 A0A0C4DFS8 NAMPT Nicotinamide phosphoribosyltransferase 0 0 112.5 0.003874 3322600 2509.5 2211.6 1617.9 2192.9 2456.4 2257.9 2422.3 2639 3480.6 2937.9 FALSE FALSE TRUE 2773.460724 2283.257291 1838.378986 2235.34675 2268.191163 2065.514217 2149.736429 2571.498201 3456.378221 3064.567247 0.90500893 0.745050478 0.599882084 0.729416773 0.740134244 0.67399866 0.701481239 0.839106469 1.127851975 1 11.58146765 -7.356948744 2.283819188 0.962656794 0.710239657 0.742103072 0.078159564 0.09877492 0.974611697 0.011316871 0.01295435 4.40E-08 7.356948744 -0.252417137 EHGAFDAVK ddPTM_HeLa_SAHA_4h_R1 2 EHGAFDAVK 9 0 V9GZ78;V9GYY3;A0A384N5Y3;F5H2F4;P11586;A0A494C1T2 V9GZ78 MTHFD1 "C-1-tetrahydrofolate synthase, cytoplasmic;Methylenetetrahydrofolate dehydrogenase;Methenyltetrahydrofolate cyclohydrolase;Formyltetrahydrofolate synthetase;C-1-tetrahydrofolate synthase, cytoplasmic, N-terminally processed" 0 0 ; ; 119.62 0.0040429 5558700 5065.5 5213.8 5941.8 5466.9 5377.8 2995.1 6516.2 4546.4 3682.7 4185 FALSE FALSE TRUE 5598.312531 5382.730541 6751.51756 5572.719755 4965.754126 2739.90063 5782.980026 4430.109671 3657.071791 4365.435831 1.282417781 1.23303394 1.546584997 1.276555187 1.137516234 0.627635072 1.324719971 1.014814979 0.837733489 1 12.09190998 -5.505605773 24.87412988 1.188914669 0.999281793 0.134183941 0.234432893 1132.832811 1631346.815 0.03224119 0.070564962 3.12E-06 5.505605773 -0.189632876 EHIEELLR ddPTM_HeLa_SAHA_4h_R1 2 EHIEELLR 8 0 H0YMC2;B4DIH5;P61201;P61201-2 H0YMC2 COPS2 COP9 signalosome complex subunit 2 0 0 ; ; 145.16 0.00047908 6147800 4931.8 5504.5 5331.2 5656.6 6482.4 807.51 6575.8 4822.5 5352.4 5263.7 FALSE FALSE TRUE 5450.549352 5682.849412 6057.708172 5766.091673 5985.719912 738.7056051 5835.873677 4699.147433 5315.152213 5490.643867 0.992697666 1.035006012 1.103278289 1.050166759 1.090167211 0.134538976 1.062876016 0.855846335 0.968038056 1 12.42275962 EHIYDLR ddPTM_HeLa_SAHA_4h_R1 2 EHIYDLR 7 0 Q14677-2;Q14677;Q14677-3 Q14677-2 CLINT1 Clathrin interactor 1 0 0 ; ; 129.68 0.0015807 6181000 6504.8 6912.1 6821.1 7222.4 7956.6 911.38 8684.9 5649.6 7215.9 6590.7 FALSE FALSE TRUE 7189.004709 7136.056575 7750.643985 7362.199996 7346.967027 833.7252967 7707.652195 5505.091413 7165.683964 6874.857331 1.045695112 1.037993406 1.127389793 1.070887677 1.068671926 0.121271651 1.121136312 0.800757186 1.042302934 1 12.74711406 EHMQPTHPIR ddPTM_HeLa_SAHA_4h_R1 4 EHMQPTHPIR 10 0 P61981 P61981 YWHAG "14-3-3 protein gamma;14-3-3 protein gamma, N-terminally processed" 0 0 ;;; ;;; 100.72 0.0040554 24595500 7667.1 7636.5 7492.5 8175.3 9019.7 1047.423 9473.9 7401.7 8728 8556.9 FALSE FALSE TRUE 8473.560756 7883.92761 8513.538881 8333.544753 8328.612535 958.1766678 8407.871838 7212.375232 8667.261137 8925.829835 0.949330305 0.883271108 0.95380923 0.933643696 0.933091117 0.107348749 0.941970886 0.80803414 0.971031411 1 13.12377059 -5.48208039 24.99977018 0.962078798 0.629539288 0.352379517 0.20271289 393.552262 241154.4145 0.026881905 0.060102913 3.30E-06 5.48208039 -0.33253951 EHPDAWTR ddPTM_HeLa_SAHA_4h_R1 3 EHPDAWTR 8 0 O14980;C9J673;C9JKM9;C9IYM2;H7BZC5;F8WF71;C9IZS4;C9JQ02;C9JV99 O14980 XPO1 Exportin-1 0 0 ;; ;; 118.5 0.0041788 10978800 5375.4 5860.2 4996.4 6810.3 7006.5 2151.38 7077 5635.8 7078.5 6679 FALSE FALSE TRUE 5940.809235 6050.074325 5677.283372 6942.123204 6469.663484 1968.070321 6280.677334 5491.644397 7029.240142 6966.964376 0.852711298 0.868394612 0.814886235 0.996434434 0.928620147 0.282486061 0.901494108 0.788240631 1.008938723 1 12.76631447 -6.385343014 0.1136371 1.158627706 0.488911091 0.213938311 0.178462119 17.8655264 0.95444232 2.065797359 3.356504397 4.12E-07 6.385343014 -0.669716615 EHPGQPEDS(ph)PEAEASTLDVFTER ddPTM_HeLa_SAHA_4h_R1 2 EHPGQPEDSPEAEASTLDVFTER 23 0 F8VW41;Q86VP3-4;Q86VP3;Q86VP3-3;Q86VP3-2 F8VW41 PACS2 Phosphofurin acidic cluster sorting protein 2 1 0 EHPGQPEDS(1)PEAEASTLDVFTER;EHPGQPEDS(0.999)PEAEASTLDVFTER ; 93.596 0.00017677 1189000 994.89 946.46 900.78 969.78 1046.15 478.4 1241.67 1115.61 1128 1158.15 TRUE FALSE FALSE 1099.537095 977.125925 1023.533607 988.5514942 965.994213 437.6376286 1101.954024 1087.074312 1120.150156 1208.083514 0.910149904 0.808823159 0.847237459 0.818280758 0.799608803 0.362257761 0.912150535 0.899833744 0.927212517 1 10.23850448 -7.199676185 0.657330087 0.982305405 0.741002832 0.232531824 0.145795852 0.603526464 0.557600266 0.041140806 0.051178852 6.31E-08 7.199676185 -0.241302573 EHSLQVS(ph)PSLEK ddPTM_HeLa_SAHA_4h_R1 2 EHSLQVSPSLEK 12 0 O95235-2;O95235 O95235-2 KIF20A Kinesin-like protein KIF20A 1 0 EHSLQVS(0.996)PS(0.004)LEK;EHSLQVS(0.989)PS(0.011)LEK ; 91.657 0.0089847 55183200 11971.5 10454.5 9890.1 11491.3 13392 662.99 12408.7 10645.1 11830.1 11474.9 TRUE FALSE FALSE 13230.7173 10793.23266 11237.87132 11713.73073 12365.90785 606.4995221 11012.44042 10372.81376 11747.77337 11969.6391 1.10535641 0.901717468 0.938864675 0.97862021 1.033106158 0.050669825 0.920031116 0.866593694 0.981464293 1 13.54709203 -5.413514161 21.02928899 1.024544297 0.626283254 0.365410208 0.22561125 5.779449326 1103.889143 0.030380585 0.067933083 3.86E-06 5.413514161 -0.398261043 EHVEEISELFYDAK ddPTM_HeLa_SAHA_4h_R1 2 EHVEEISELFYDAK 14 0 Q9Y265;H7C4G5 Q9Y265 RUVBL1 RuvB-like 1 0 0 ; ; 192.65 1.10E-08 15997800 7799.4 7839.8 6370.2 7756.6 7579.5 6617.8 8357.1 7511.7 9780.3 7791.3 FALSE FALSE TRUE 8619.776677 8093.814664 7238.297681 7906.740209 6998.760347 6053.926209 7416.737113 7319.561591 9712.238096 8127.221073 1.060605661 0.995889566 0.890623943 0.97287131 0.861150482 0.744894984 0.912579718 0.900622922 1.195025705 1 12.98854642 -6.474536338 1.175498125 1.02882072 0.858287305 0.569985647 0.07608139 0.219046275 0.603031771 0.010285487 0.018203764 3.35E-07 6.474536338 -0.170533414 EHVIEALR ddPTM_HeLa_SAHA_4h_R1 2 EHVIEALR 8 0 X1WI28;P27635;F8W7C6;A0A087WV22;H7C123;H7C2C5 X1WI28 RPL10 60S ribosomal protein L10 0 0 ; ; 143.73 0.0005513 14634900 10061.1 9893.5 9716.1 10356.5 9931.7 3449.2 12834.2 9735.6 11407.8 9940.7 FALSE FALSE TRUE 11119.37266 10214.05589 11040.15951 10556.96503 9170.735292 3155.308755 11390.06204 9486.577449 11328.41219 10369.29223 1.072336705 0.985029226 1.0646975 1.018098902 0.88441285 0.304293551 1.098441609 0.914872225 1.092496184 1 13.3400298 -5.632350454 4.636609695 1.031975872 0.774980905 0.285154108 0.189221137 0.203090295 7.39269094 0.026273316 0.053737332 2.33E-06 5.632350454 -0.256994967 EHYPVS(ph)SPSS(ph)PSPPAQPGGVSR ddPTM_HeLa_SAHA_4h_R1 2 EHYPVSSPSSPSPPAQPGGVSR 22 0 O75179-4;O75179-6;O75179-2;O75179;H0YM23;O75179-7 O75179-4 ANKRD17 Ankyrin repeat domain-containing protein 17 2 0 EHY(0.002)PVS(0.781)S(0.217)PS(0.071)S(0.891)PS(0.038)PPAQPGGVSR;EHY(0.021)PVS(0.691)S(0.288)PS(0.449)S(0.536)PS(0.016)PPAQPGGVSR ; 73.676 0.0044953 9840600 1408.73 1628.84 1340.38 1582.23 1556.31 835.09 1672.82 1647.56 1587.01 1705.6 TRUE FALSE FALSE 1556.906685 1681.615485 1523.040006 1612.85635 1437.065864 763.9356339 1484.589891 1605.417801 1575.965868 1779.136763 0.875091065 0.945186182 0.856055609 0.906538712 0.807732095 0.429385559 0.83444394 0.902357724 0.885803667 1 10.7969617 -5.658623632 3.907128136 0.931063093 0.718206625 0.317509064 0.121994001 0.179858752 5.145775265 0.018132536 0.037429118 2.19E-06 5.658623632 -0.212856468 EHYPVSSPS(ph)SPSPPAQPGGVSR ddPTM_HeLa_SAHA_4h_R1 1 EHYPVSSPSSPSPPAQPGGVSR 22 0 O75179-4;O75179-6;O75179-2;O75179;H0YM23;O75179-7 O75179-4 ANKRD17 Ankyrin repeat domain-containing protein 17 1 0 EHYPVSSPS(0.499)S(0.499)PS(0.001)PPAQPGGVSR 164.5 1.20E-07 5752300 1269.2 926.52 800.67 1017.1 1237.9 205.94 1231.5 1129.8 1233.7 1350.2 TRUE FALSE FALSE 1402.700279 956.5398559 909.7811379 1036.787441 1143.052369 188.3927534 1092.928379 1100.901352 1225.114581 1408.41373 0.995943344 0.679161127 0.645961566 0.736138408 0.811588488 0.133762366 0.77599952 0.78166048 0.869854188 1 10.45985548 -7.237040904 4.408100213 0.999121278 0.643329707 0.349004317 0.187166497 0.137931219 6.613001082 0.030217692 0.036294915 5.79E-08 7.237040904 -0.355791571 EHYPVSSPSS(ph)PS(ph)PPAQPGGVSR ddPTM_HeLa_SAHA_4h_R1 1 EHYPVSSPSSPSPPAQPGGVSR 22 0 O75179-4;O75179-6;O75179-2;O75179;H0YM23;O75179-7 O75179-4 ANKRD17 Ankyrin repeat domain-containing protein 17 2 0 EHY(0.001)PVS(0.034)S(0.129)PS(0.412)S(0.638)PS(0.784)PPAQPGGVS(0.002)R 63.372 0.011503 2893800 643.25 679.33 484.25 579.75 661.66 615.39 861.19 904.48 918.45 725.21 TRUE FALSE FALSE 710.9099863 701.3407377 550.2410681 590.9718996 610.9637537 562.9553099 764.2866347 881.3447113 912.0584317 756.4773522 0.939763741 0.927113992 0.727372824 0.781215588 0.807643153 0.744179992 1.01032322 1.16506424 1.205665218 1 9.563153081 -7.341847694 2.04231879 0.975885988 0.86604629 0.174559811 0.145192654 0.518584675 4.0991097 0.024559649 0.028266966 4.55E-08 7.341847694 -0.109839698 EHYPVSSPSS(ph)PSPPAQPGGVSR ddPTM_HeLa_SAHA_4h_R1 2 EHYPVSSPSSPSPPAQPGGVSR 22 0 O75179-4;O75179-6;O75179-2;O75179;H0YM23;O75179-7 O75179-4 ANKRD17 Ankyrin repeat domain-containing protein 17 1 0 EHYPVS(0.001)S(0.003)PS(0.209)S(0.78)PS(0.007)PPAQPGGVSR;EHYPVSSPS(0.059)S(0.94)PS(0.002)PPAQPGGVSR ; 149.9 1.80E-06 40299000 2241.1 2283.88 1699.91 2284.38 2514.1 304.421 2551.6 2565.2 2958.4 2335.05 TRUE FALSE FALSE 2476.829181 2357.879211 1931.564882 2328.597478 2321.470201 278.4826182 2264.487253 2499.585898 2937.812254 2435.725433 1.016875362 0.96803982 0.793014211 0.95601805 0.953091908 0.114332516 0.929697256 1.026218253 1.206134408 1 11.2501358 -6.248497961 1.068525647 1.006040166 0.73437895 0.192849282 0.249844027 0.62878464 1.419568043 0.041803224 0.08716506 5.64E-07 6.248497961 -0.271661217 EHYVDLK ddPTM_HeLa_SAHA_4h_R1 4 EHYVDLK 7 0 P15531;P15531-2;E7ERL0;E5RHP0;Q32Q12;P22392-2;J3KPD9 P15531;Q32Q12 NME1;NME1-NME2;NME2 Nucleoside diphosphate kinase A;Nucleoside diphosphate kinase;Nucleoside diphosphate kinase B 0 0 ;;; ;;; 107.9 0.0043204 95272100 37353.3 41384.5 31679.3 39683.3 40628.5 8654.5 42255.7 35095.8 53752.3 39630.1 FALSE FALSE TRUE 41282.29148 42725.38495 35996.39003 40451.42765 37515.55311 7917.087911 37500.97743 34198.10025 53378.23337 41338.74756 0.998634306 1.033543285 0.870766343 0.978535395 0.907515475 0.191517363 0.907162883 0.82726503 1.291239733 1 15.33520706 -5.502489551 24.80634898 0.988286284 0.648669278 0.410375563 0.203882946 474.4972431 577292.6494 0.024004334 0.053058478 3.14E-06 5.502489551 -0.339617005 EIADGLCLEVEGK ddPTM_HeLa_SAHA_4h_R1 2 EIADGLCLEVEGK 13 0 Q5W0H4;A0A0B4J2C3;P13693;J3KPG2;E9PJF7 Q5W0H4 TPT1 Translationally-controlled tumor protein 0 0 ; ; 234.61 1.09E-22 19860900 2922 2573.6 2312.6 2642.3 2679.8 2811.3 2475.5 2598.8 3027.4 2668.9 FALSE FALSE TRUE 3229.349367 2656.986329 2627.749084 2693.445537 2474.474303 2571.761424 2196.950225 2532.326459 3006.332077 2783.96934 1.15998022 0.954387784 0.943885784 0.967483908 0.888829581 0.923775053 0.789143111 0.909610039 1.079872552 1 11.44292761 -7.054018065 4.326612153 1.075498433 0.90407662 0.653652822 0.057176241 0.126092168 4.907242186 0.012424349 0.015584515 8.83E-08 7.054018065 -0.171421813 EIAEAYLGK ddPTM_HeLa_SAHA_4h_R1 6 EIAEAYLGK 9 0 P11142;E9PKE3;P11142-2;E9PN89;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;E9PI65 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ;;;;; ;;;;; 152.63 0.00010544 19878500 7866.84 8073.65 7071.97 8094.8 8521.5 9777.1 8415.6 7604.7 8973.81 7941.02 FALSE FALSE TRUE 8694.310326 8335.241557 8035.701242 8251.486559 7868.584511 8944.036076 7468.654539 7410.182785 8911.360526 8283.396235 1.049606958 1.006258945 0.970097411 0.996147755 0.949922506 1.079754707 0.901641589 0.894582678 1.075810003 1 13.01600669 -4.736578423 23.60021034 1.0146767 0.898111753 0.580779955 0.040034324 59.82764277 56791.74079 0.005094505 0.019039031 1.83E-05 4.736578423 -0.116564947 EIAVTVK ddPTM_HeLa_SAHA_4h_R1 2 EIAVTVK 7 0 Q99832-3;Q99832;Q99832-4 Q99832-3 CCT7 T-complex protein 1 subunit eta 0 0 ; ; 139.28 7.97E-05 3954200 4105.9 4283.1 4489.4 3686.1 5239.2 5474.8 5091.7 4084.5 3913.6 4625.3 FALSE FALSE TRUE 4537.777401 4421.87525 5101.192052 3757.449796 4837.773628 5008.31624 4518.768515 3980.024404 3886.364939 4824.719319 0.940526713 0.916504144 1.057303382 0.778791376 1.002705714 1.038053389 0.936586818 0.824923512 0.805511094 1 12.2362293 EIDCLS(ph)PEAQK ddPTM_HeLa_SAHA_4h_R1 3 EIDCLSPEAQK 11 0 Q32MZ4-3;Q32MZ4-2;Q32MZ4;C9JTC6 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 EIDCLS(1)PEAQK;EIDCLS(1)PEAQK;EIDCLS(1)PEAQK ;; 175.48 5.83E-05 131091000 7455.8 7688 7450 7883.3 8819.2 9013.6 8500.9 8258.3 9146 7956.4 TRUE FALSE FALSE 8240.035252 7937.096244 8465.247202 8035.892671 8143.474801 8245.590571 7544.356359 8047.064644 9082.352241 8299.439342 0.992842397 0.956341256 1.0199782 0.968245244 0.981207822 0.993511758 0.909020001 0.969591356 1.094333228 1 13.01879816 -4.782750847 24.9983571 0.992049802 0.939305684 0.264770161 0.0388608 114.999195 134894.3193 0.002743632 0.008242294 1.65E-05 4.782750847 -0.052744117 EIDDTYIEDAADVDAR ddPTM_HeLa_SAHA_4h_R1 1 EIDDTYIEDAADVDAR 16 0 Q99459 Q99459 CDC5L Cell division cycle 5-like protein 0 0 218.02 8.05E-20 3219100 309.48 357.53 250.17 349.9 404.08 398.26 427.65 285.2 507.07 382.64 FALSE FALSE TRUE 342.0325263 369.1142066 284.2618648 356.6728205 373.1194777 364.3260075 379.5296965 277.904997 503.5412586 399.137483 0.856929106 0.924779612 0.712190353 0.893608933 0.934814428 0.912783246 0.950874605 0.696263841 1.261573468 1 8.640741958 -9.194108109 0.755251066 1.007870412 0.864646319 0.35990726 0.119184892 0.81963042 0.77238696 0.072063561 0.016544431 6.40E-10 9.194108109 -0.143224093 EIDGGLETLR ddPTM_HeLa_SAHA_4h_R1 1 EIDGGLETLR 10 0 P38117-2;P38117;M0QY67 P38117-2 ETFB Electron transfer flavoprotein subunit beta 0 0 150.36 1.98E-06 0 439.5 387.5 305.41 572.14 444.39 510.41 430.59 331.69 433.94 430.87 FALSE FALSE TRUE 485.7286265 400.0552542 347.0296843 583.214597 410.3409342 466.9201965 382.1388799 323.2058501 430.9201762 449.4469143 1.080725245 0.890105687 0.77212608 1.297627325 0.912990881 1.038877299 0.850242526 0.719119077 0.958778807 1 8.812006914 -4.529383227 2.32074885 1.019724436 0.709551247 0.289815464 0.1327716 0.297658969 2.680867768 0.017743591 0.147137857 2.96E-05 4.529383227 -0.310173188 EIDLLLGQTDDTR ddPTM_HeLa_SAHA_4h_R1 2 EIDLLLGQTDDTR 13 0 O75643;A0A494C1A5;O75643-2 O75643 SNRNP200 U5 small nuclear ribonucleoprotein 200 kDa helicase 0 0 ; ; 131.17 0.0041886 3264200 1342.3 1554.97 1296.9 1672.75 1500.67 2132.33 1827.07 1548.66 1983.54 1663.39 FALSE FALSE TRUE 1483.489273 1605.352048 1473.634778 1705.128495 1385.688989 1950.643488 1621.483275 1509.04752 1969.736384 1735.106883 0.854984374 0.925217958 0.8493049 0.982722454 0.798618807 1.124220938 0.934514923 0.869714445 1.135224811 1 10.76080882 -4.259749023 21.60513758 0.931893397 0.869714353 0.012296061 0.107752057 66.97110121 855385.6084 0.012093371 0.101906807 5.50E-05 4.259749023 -0.062179044 EIEDFDSLEALR ddPTM_HeLa_SAHA_4h_R1 2 EIEDFDSLEALR 12 0 P46060;B0QYT5;B0QYT4 P46060 RANGAP1 Ran GTPase-activating protein 1 0 0 ; ; 199.68 1.66E-09 7044300 1885.64 1450.63 1140.87 1616.24 1548.87 2261.6 1864.18 1399.28 2292.4 1750.66 FALSE FALSE TRUE 2083.980267 1497.631364 1296.341822 1647.524662 1430.195915 2068.898957 1654.41756 1363.488444 2276.447002 1826.13952 1.14119444 0.820107854 0.70988104 0.902189917 0.783179981 1.132935865 0.905964491 0.746650751 1.246589856 1 10.83458128 -7.255982658 24.94746977 1.066675153 0.862956958 0.466747296 0.127986437 341.2974394 1560371.058 0.020353316 0.024546769 5.55E-08 7.255982658 -0.203718195 EIEIDIEPTDKVER ddPTM_HeLa_SAHA_4h_R1 2 EIEIDIEPTDKVER 14 1 F8VSA6;E9PS38;S4R3E9;E9PL57;Q15843 F8VSA6 NEDD8;NEDD8-MDP1 NEDD8 0 0 ; ; 162.48 1.61E-05 48327000 6359.7 7631.7 7054.2 8397.9 8266.8 9176.7 8440.9 7737.3 8121.7 7610 FALSE FALSE TRUE 7028.642425 7878.972087 8015.509639 8560.453498 7633.39957 8394.793533 7491.107717 7539.391069 8065.180428 7938.104342 0.885430844 0.992550834 1.009751106 1.078400224 0.96161492 1.057531266 0.943689752 0.949772231 1.016008367 1 12.95457881 -7.028958167 24.20490936 0.945534364 1.001909034 0.02635551 0.053181861 615.6538963 514598.1083 0.009550818 0.01171083 9.35E-08 7.028958167 0.05637467 EIEMS(ph)VDDDDINSSK ddPTM_HeLa_SAHA_4h_R1 1 EIEMSVDDDDINSSK 15 0 Q9NQW6;Q9NQW6-2 Q9NQW6 ANLN Actin-binding protein anillin 1 0 EIEMS(1)VDDDDINSSK 292.82 3.19E-83 6212400 798.94 1086.4 807 997.34 913.51 1279.4 1036 869.3 1132.6 750.19 TRUE FALSE FALSE 882.9761749 1121.600073 916.9737573 1016.644958 843.5170612 1170.387922 919.4265534 847.0645647 1124.718144 782.5343622 1.128354507 1.433291785 1.171799989 1.299169732 1.077929739 1.495637737 1.174934415 1.082463091 1.437276366 1 9.612010294 -7.785147305 1.743805794 1.039801781 1.246680602 0 0.182368221 0.26278179 1.664987914 0.026507189 0.025505945 1.64E-08 7.785147305 0.206878821 EIEMSVDDDDINSS(ph)K ddPTM_HeLa_SAHA_4h_R1 2 EIEMSVDDDDINSSK 15 0 Q9NQW6;Q9NQW6-2 Q9NQW6 ANLN Actin-binding protein anillin 1 0 EIEMSVDDDDINS(0.136)S(0.864)K;EIEMSVDDDDINS(0.031)S(0.969)K ; 104.41 0.0030724 22335000 2928.99 3122.64 2453.07 2941.67 2800.13 3564.6 3434.35 2840.81 2938.87 3172.1 TRUE FALSE FALSE 3237.074607 3223.815585 2787.361605 2998.610277 2585.584644 3260.876026 3047.907899 2768.146194 2918.418164 3308.864755 0.978303692 0.974296571 0.842392123 0.90623537 0.781411401 0.98549692 0.921134022 0.836584871 0.881999834 1 11.69212061 -6.856365128 6.222110294 0.988967409 0.882661902 0.232891904 0.061938454 0.129034693 7.103872296 0.00805438 0.010639756 1.39E-07 6.856365128 -0.106305507 EIEQEAAVELSQLRDPQHDLDR ddPTM_HeLa_SAHA_4h_R1 1 EIEQEAAVELSQLRDPQHDLDR 22 1 P47985 P47985 UQCRFS1 "Cytochrome b-c1 complex subunit Rieske, mitochondrial;Cytochrome b-c1 complex subunit 11" 0 0 94.45 0.0001596 2477000 1450.7 2561.7 1801.3 1734.2 2201.2 1824.7 2005.6 1355.5 1582.3 1863 FALSE FALSE TRUE 1603.291282 2644.700761 2046.771783 1767.767949 2032.544532 1669.225295 1779.92461 1320.828273 1571.288645 1943.323047 0.82502561 1.360916686 1.053232907 0.909662421 1.045911813 0.858954098 0.915918026 0.679675093 0.808557614 1 10.92431003 -3.666131863 1.148306814 0.964992469 1.06E-13 0.26478325 0.151166168 6.317840609 2.590898754 0.023123203 10.24430837 0.000215709 3.666131863 -0.964992469 EIES(ph)EIDSEEELINK ddPTM_HeLa_SAHA_4h_R1 1 EIESEIDSEEELINK 15 0 Q14566 Q14566 MCM6 DNA replication licensing factor MCM6 1 0 EIES(0.878)EIDS(0.122)EEELINK 287.42 1.12E-69 12980000 1180.6 1719.9 1322.3 1556.6 1294 1720.4 1717.1 1695.7 1431.7 1380.6 TRUE FALSE FALSE 1304.780925 1775.625888 1502.496158 1586.730244 1194.854 1573.812241 1523.887389 1652.326449 1421.736683 1440.124422 0.90601958 1.232967 1.043309963 1.101800802 0.829688033 1.092830742 1.058163701 1.147349787 0.98723184 1 10.49197775 EIES(ph)SPQYR ddPTM_HeLa_SAHA_4h_R1 3 EIESSPQYR 9 0 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6;Q8WWM7-7;H3BSK9 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 EIES(0.5)S(0.5)PQYR;EIES(0.5)S(0.5)PQYR;EIES(0.5)S(0.5)PQYR ;; 119.27 0.003763 163717000 11032.3 10788.7 9874.1 10544.7 11365.3 12833.7 11137.7 10789.9 11821.2 10118.2 TRUE FALSE FALSE 12192.72793 11138.26096 11219.69093 10748.80792 10494.49317 11740.19656 9884.456683 10513.90998 11738.93531 10554.44512 1.155222069 1.055314688 1.063029918 1.018415255 0.994319744 1.112346166 0.936520733 0.996159425 1.112226666 1 13.36556311 -6.307270279 2.54629675 1.073735983 1.010885933 0.264666676 0.054964382 0.432369974 5.51160789 0.010914768 0.018115069 4.93E-07 6.307270279 -0.062850049 EIESEIDS(ph)EEELINK ddPTM_HeLa_SAHA_4h_R1 4 EIESEIDSEEELINK 15 0 Q14566 Q14566 MCM6 DNA replication licensing factor MCM6 1 0 EIES(0.043)EIDS(0.957)EEELINK;EIES(0.018)EIDS(0.982)EEELINK;EIES(0.002)EIDS(0.998)EEELINK;EIESEIDS(1)EEELINK ;;; 202.82 2.71E-34 17064500 3339.23 4499.1 3698.78 4015.41 3877.54 4229.37 4502.76 4757.03 4470.56 4388.58 TRUE FALSE FALSE 3690.465532 4644.873792 4202.830476 4093.134067 3580.443723 3869.003882 3996.097594 4635.352061 4439.449009 4577.793161 0.806166946 1.014653487 0.918090951 0.894128224 0.782133136 0.845167911 0.872931007 1.012573504 0.969779292 1 12.16043656 -5.998880634 24.98297299 0.916002416 0.87079857 0.087345721 0.07769874 104.4354543 2330750.218 0.013696512 0.024686205 1.00E-06 5.998880634 -0.045203846 EIEVGGGRK ddPTM_HeLa_SAHA_4h_R1 1 EIEVGGGRK 9 1 P62081;B5MCP9 P62081 RPS7 40S ribosomal protein S7 0 0 101.72 0.019501 3661600 2689 2989.8 3400.8 3730.9 2647.1 3157.9 3725.4 3091.2 2191.2 2768.8 FALSE FALSE TRUE 2971.841358 3086.671482 3864.243313 3803.116964 2444.27977 2888.829154 3306.208187 3012.13158 2175.951261 2888.176518 1.028968049 1.068726742 1.337952611 1.316788271 0.846305534 1.000225968 1.144738961 1.042918105 0.753399679 1 11.4959432 -7.165085377 4.271575562 1.013605388 1.114088592 0.158800375 0.158378921 0.431219741 13.83486561 0.02385473 0.029317539 6.84E-08 7.165085377 0.100483204 EIEYEVVR ddPTM_HeLa_SAHA_4h_R1 1 EIEYEVVR 8 0 P27708;F8VPD4;P31327;P31327-3;P31327-2;A0A669KBF2 P27708;P31327 CAD;CPS1 "CAD protein;Glutamine-dependent carbamoyl-phosphate synthase;Aspartate carbamoyltransferase;Dihydroorotase;Carbamoyl-phosphate synthase [ammonia], mitochondrial" 0 0 136.16 0.0077876 3260800 1321.4 1644.2 1516 1126.7 1583.2 1742.3 1692.7 1261.4 1373.6 1334.8 FALSE FALSE TRUE 1460.390915 1697.473159 1722.592585 1148.508908 1461.895558 1593.846238 1502.232941 1229.135214 1364.041006 1392.34976 1.048867861 1.219142781 1.237183813 0.824870977 1.049948511 1.144716855 1.078919237 0.882777625 0.97966836 1 10.44330595 -4.255077901 23.52660866 1.050330517 0.882777447 0.175216862 0.114672763 457.7767179 1692879.194 0.015672506 0.190102706 5.56E-05 4.255077901 -0.16755307 EIGLLSEEVELYGETK ddPTM_HeLa_SAHA_4h_R1 1 EIGLLSEEVELYGETK 16 0 V9GZ78;V9GYY3;A0A384N5Y3;F5H2F4;P11586;A0A494C1T2 V9GZ78 MTHFD1 "C-1-tetrahydrofolate synthase, cytoplasmic;Methylenetetrahydrofolate dehydrogenase;Methenyltetrahydrofolate cyclohydrolase;Formyltetrahydrofolate synthetase;C-1-tetrahydrofolate synthase, cytoplasmic, N-terminally processed" 0 0 239.19 2.37E-35 3711200 612.05 637 569.12 638.35 658.36 575.61 571.37 830.02 702.42 504.81 FALSE FALSE TRUE 676.4282272 657.639218 646.6767098 650.7061873 607.916599 526.5647897 507.0779438 808.7892903 697.531802 526.5748296 1.284581391 1.248899835 1.228081316 1.235733557 1.154473334 0.999980934 0.96297414 1.535943697 1.324658458 1 9.040494752 -9.468772491 1.219505309 1.000515686 1.202032937 0 0.179320803 0.604016299 1.613529686 0.100904207 0.025118323 3.40E-10 9.468772491 0.201517251 EIHQDWANR ddPTM_HeLa_SAHA_4h_R1 3 EIHQDWANR 9 0 Q8WUW1;Q8WUW1-2 Q8WUW1 BRK1 Protein BRICK1 0 0 ;; ;; 108.57 0.0073239 16240600 7114.1 6515.1 6766.9 7199.2 8051.3 5811.8 8689.7 6254 7560.7 7033.1 FALSE FALSE TRUE 7862.393679 6726.193515 7689.057891 7338.550926 7434.411133 5316.601944 7711.912086 6094.031736 7508.084473 7336.33136 1.071706456 0.916833385 1.048079417 1.000302544 1.013369049 0.724694903 1.051194624 0.830664734 1.023411308 1 12.84084309 -5.47809943 24.89046635 1.023298967 0.884076708 0.360961977 0.08458591 322.5565402 179291.8491 0.011105767 0.02483194 3.33E-06 5.47809943 -0.139222259 EIHQFNR ddPTM_HeLa_SAHA_4h_R1 4 EIHQFNR 7 0 A0A087WUZ3;Q01082;Q01082-2;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 0 0 ;;; ;;; 119.89 0.0042109 12681400 8422.3 7816.2 7122.9 8310.5 9263.5 6944.5 8537.8 7717.1 8128.2 7787.9 FALSE FALSE TRUE 9308.196157 8069.450008 8093.571718 8471.361745 8553.732631 6352.789531 7577.104274 7519.707756 8071.635194 8123.674482 1.145811071 0.99332513 0.99629444 1.042799261 1.05293887 0.782009366 0.932718844 0.925653505 0.99359412 1 12.98791672 -5.28996396 22.27003002 1.056021029 0.885386455 0.5433796 0.061097218 99.17312016 77427.46524 0.010150614 0.022705336 5.13E-06 5.28996396 -0.170634574 EIIDLVLDR ddPTM_HeLa_SAHA_4h_R1 3 EIIDLVLDR 9 0 Q9BQE3;F5H5D3;A0A1W2PQM2;F8VQQ4;F8VVB9;F8VS66;F8VRZ4;P68363 Q9BQE3;P68363 TUBA1C;TUBA1A;TUBA1B Tubulin alpha-1C chain;Tubulin alpha-1B chain 0 0 ;; ;; 158.87 8.63E-07 37542100 8632.2 9328.6 11755.7 8113.5 10570.6 11163.2 11924.7 6787.9 7634.4 9578.4 FALSE FALSE TRUE 9540.174402 9630.852761 13357.70557 8270.548525 9760.682912 10212.03256 10582.90137 6614.275347 7581.271589 9991.3717 0.954841306 0.963916973 1.336924096 0.827769077 0.9769112 1.022085142 1.05920405 0.661998727 0.758781859 1 13.28646704 -4.254900734 24.50838262 0.997919694 0.661998525 0.313714203 0.144519719 418.8062009 1569727.809 0.01581309 0.198788618 5.56E-05 4.254900734 -0.335921169 EIIDPVLDR ddPTM_HeLa_SAHA_4h_R1 3 EIIDPVLDR 9 0 P68366-2;P68366;C9JEV8;C9JQ00;C9JJQ8 P68366-2 TUBA4A Tubulin alpha-4A chain 0 0 ;; ;; 155.58 0.0011077 39354300 13997.5 13710.1 12991.3 13020 14462.4 15216.2 16039.9 14688.4 14058.7 13379.9 FALSE FALSE TRUE 15469.82127 14154.31624 14761.68671 13272.02093 13354.29404 13919.69416 14235.04824 14312.692 13960.86436 13956.77297 1.108409609 1.014153936 1.057671909 0.950937653 0.956832505 0.99734331 1.019938368 1.025501527 1.000293148 1 13.76867779 -6.282345375 24.39997467 1.049568285 0.990320791 0.232042642 0.038083986 599.251413 699402.1325 0.007250401 0.011082757 5.22E-07 6.282345375 -0.059247494 EIIKQEESVDPDY(ph)WEK ddPTM_HeLa_SAHA_4h_R1 2 EIIKQEESVDPDYWEK 16 1 Q14839-2;A0A2R8YD40;A0A2R8Y5J0;A0A2R8Y425;A0A2R8YFD8;A0A2R8YE38;F5GWX5;A0A2R8YDJ9;A0A2R8Y212;A0A2U3TZM0;A0A2R8Y4X2;A0A2R8YDW2;A0A2R8Y521;A0A0C4DGG9;A0A2R8Y5M9;Q14839;A0A2R8YFK9;A0A2R8Y8C1;A0A2R8Y445;A0A2R8YER1;A0A2R8Y5Z7 Q14839-2 CHD4 Chromodomain-helicase-DNA-binding protein 4 1 0 EIIKQEES(0.202)VDPDY(0.798)WEK;EIIKQEES(0.173)VDPDY(0.827)WEK ; 98.676 0.005934 16781800 3578.3 3894.3 3720.8 5229 6124.3 7137.5 6768.3 7309.9 3543.1 4048.5 TRUE FALSE FALSE 3954.682012 4020.477875 4227.851247 5330.214856 5655.057457 6529.344846 6006.713071 7122.923343 3518.443279 4223.050648 0.936451476 0.95203165 1.001136761 1.262171662 1.339092975 1.546120421 1.422363493 1.686677224 0.833152044 1 12.04406983 -5.837763933 1.168391566 0.964087993 1.559271702 0.919373496 0.07901406 0.076999657 0.20760529 0.010519032 0.02790283 1.45E-06 5.837763933 0.595183709 EIKLPTEMEGK(ac)K ddPTM_HeLa_SAHA_4h_R1 4 EIKLPTEMEGKK 12 2 Q9NWX6 Q9NWX6 THG1L Probable tRNA(His) guanylyltransferase 0 1 ;;; EIKLPTEMEGK(1)K;EIKLPTEMEGK(1)K;EIKLPTEMEGK(1)K;EIKLPTEMEGK(1)K 194.3 9.07E-24 65460000 9738.86 8687.13 9815.57 10388.8 10159.69 10880.2 12979.6 11856 5654.85 6735.45 FALSE TRUE FALSE 10763.23798 8968.598712 11153.18476 10589.89025 9381.256747 9953.14575 11519.10125 11552.74069 5615.497438 7025.848212 1.53194855 1.276514727 1.587450287 1.507275695 1.335248993 1.416646852 1.639531755 1.644319709 0.799262561 1 12.77845669 -10.59359564 0.341583826 0.418946435 1.528315474 0.775257033 0.126752837 2.942107095 0.218947526 1.39055056 0.044780359 2.55E-11 10.59359564 1.109369039 EILDESLR ddPTM_HeLa_SAHA_4h_R1 4 EILDESLR 8 0 Q8WUM4;Q8WUM4-2 Q8WUM4 PDCD6IP Programmed cell death 6-interacting protein 0 0 ;;; ;;; 161.9 8.48E-05 7770500 5467.38 5128.77 4928.08 6040.13 5639.77 6850.9 6281.1 6347.64 7098.74 5384.14 FALSE FALSE TRUE 6042.464114 5294.945513 5599.653078 6157.04545 5207.652041 6267.164778 5574.334097 6185.27656 7049.33929 5616.276625 1.075884348 0.94278574 0.997040113 1.096286003 0.927242796 1.115893179 0.992531969 1.101312662 1.255162408 1 12.45539828 -4.241836979 23.01368071 1.027675093 1.101312865 0.002894315 0.093164801 2400.761701 2818418.179 0.007745948 0.341916092 5.73E-05 4.241836979 0.073637772 EILFYDR ddPTM_HeLa_SAHA_4h_R1 1 EILFYDR 7 0 Q08J23-3;Q08J23-2;Q08J23 Q08J23-3 NSUN2 tRNA (cytosine(34)-C(5))-methyltransferase 0 0 130.77 0.0073456 11484000 1773.8 1731 2188.5 2310.2 2558.3 2003.3 2300.1 1416.8 1705.8 1699.2 FALSE FALSE TRUE 1960.376422 1787.085536 2486.737383 2354.917262 2362.283607 1832.60757 2041.286694 1380.560308 1693.929199 1772.460828 1.106019604 1.008251075 1.402985806 1.328614559 1.332770558 1.033934032 1.151668157 0.778894679 0.955693447 1 10.79153803 -3.011035257 13.80237382 1.098092713 1.126633973 0 0.186569544 0 0 0.02464373 0 0.00097491 3.011035257 0.02854126 EILIPVFK ddPTM_HeLa_SAHA_4h_R1 2 EILIPVFK 8 0 P53396;P53396-2;P53396-3 P53396 ACLY ATP-citrate synthase 0 0 ; ; 141.78 0.00013395 4124300 7658.9 7557.7 7164.1 7825.4 8509.3 8956.7 8594.7 7221.8 8091.6 7461.1 FALSE FALSE TRUE 8464.498242 7802.574439 8140.386239 7976.871933 7857.319272 8193.538771 7627.601736 7037.076813 8035.289897 7782.784535 1.08759252 1.002542779 1.045947784 1.024938041 1.009576873 1.052777285 0.980060761 0.904184972 1.03244409 1 12.9260707 -4.414178656 2.401182357 1.036985791 0.893362766 0.699998036 0.025666054 0.213913885 1.843506662 0.004849948 0.054732611 3.85E-05 4.414178656 -0.143623025 EILIPVFK(ac)NMADAMR ddPTM_HeLa_SAHA_4h_R1 1 EILIPVFKNMADAMR 15 1 P53396;P53396-2;P53396-3 P53396 ACLY ATP-citrate synthase 0 1 EILIPVFK(1)NMADAMR 59.57 0.022876 370020 0 156.61 72.887 62.975 71.444 0 230.86 0 68.024 73.414 FALSE TRUE FALSE 0 161.6842668 82.81966078 64.19397219 65.96997615 0 204.8830252 0 67.55061545 76.57923682 0 2.11133296 1.081489764 0.838268633 0.86146035 0 2.675438327 0 0.882100923 1 6.258881377 -7.312764924 24.99956416 0.527777948 1.083105455 0.056886195 0.817017512 632.9330543 308286.6336 0.135707524 0.155187532 4.87E-08 7.312764924 0.555327508 EILSEVER ddPTM_HeLa_SAHA_4h_R1 2 EILSEVER 8 0 B4DUR8;P49368-2;P49368 B4DUR8 CCT3 T-complex protein 1 subunit gamma 0 0 ; ; 135.77 0.0080313 20656000 3107.5 3383.2 3047.4 3311.8 3404.5 3442.2 3656.4 3492.3 3123.5 3040.2 FALSE FALSE TRUE 3434.361108 3492.8179 3462.683802 3375.904678 3143.647946 3148.905195 3244.972249 3402.972023 3101.763309 3171.2779 1.082958106 1.101391303 1.091889109 1.064525022 0.991287438 0.992945208 1.023238061 1.073060176 0.978079943 1 11.63084859 -4.232433921 21.40435653 1.042185209 1.073060505 0.044462615 0.044046076 4336.73642 3199888.748 0.006587832 0.630037411 5.86E-05 4.232433921 0.030875296 EIPS(ph)ATQSPISK ddPTM_HeLa_SAHA_4h_R1 1 EIPSATQSPISK 12 0 Q9BQG0;Q9BQG0-2;I3L1L3 Q9BQG0 MYBBP1A Myb-binding protein 1A 1 0 EIPS(0.48)AT(0.052)QS(0.457)PIS(0.011)K 179.67 2.49E-05 246950000 2564.2 2650.7 2126.1 2252.6 2853.1 2575.6 2849.1 2714.5 2634 2705.6 TRUE FALSE FALSE 2833.914321 2736.584419 2415.833836 2296.20233 2634.496094 2356.14439 2528.51177 2645.067021 2615.66978 2822.251657 1.004132397 0.969645784 0.855995187 0.813606513 0.933473132 0.834845604 0.895920023 0.937218697 0.92680246 1 11.46263092 -6.884342975 4.316394042 1.001315379 0.877066956 0.517354321 0.043736984 0.082486905 2.736604046 0.005781443 0.007690094 1.31E-07 6.884342975 -0.124248422 EIPSATQS(ph)PISK ddPTM_HeLa_SAHA_4h_R1 3 EIPSATQSPISK 12 0 Q9BQG0;Q9BQG0-2;I3L1L3 Q9BQG0 MYBBP1A Myb-binding protein 1A 1 0 EIPS(0.001)AT(0.005)QS(0.994)PIS(0.001)K;EIPSATQS(0.998)PIS(0.001)K;EIPS(0.024)AT(0.117)QS(0.839)PIS(0.02)K ;; 205.27 1.43E-10 486756300 12182.9 10101.1 10491.8 10580.8 12216.5 11338.5 12374.5 12969.9 10990.9 12140.5 TRUE FALSE FALSE 13464.35332 10428.38227 11921.56787 10785.60668 11280.47441 10372.39601 10982.08869 12638.14874 10914.41343 12663.93637 1.063204436 0.823470836 0.941379325 0.851678844 0.890755771 0.819049915 0.867193925 0.997963695 0.86184999 1 13.62843829 -7.267551068 24.9948074 1.029846541 0.882482104 0.127601722 0.074691559 227.5161458 930464.7602 0.008888938 0.010300892 5.40E-08 7.267551068 -0.147364437 EIPYTFEDR ddPTM_HeLa_SAHA_4h_R1 3 EIPYTFEDR 9 0 G3V2Y4;P34897-3;P34897;H0YIZ0;P34897-2 G3V2Y4 SHMT2 "Serine hydroxymethyltransferase;Serine hydroxymethyltransferase, mitochondrial" 0 0 ;; ;; 149.57 0.0027158 13204600 3083.3 3998.11 3066.08 3281.5 3617.2 3515.79 4046.82 3434.26 3854.38 3273.63 FALSE FALSE TRUE 3407.615641 4127.651387 3483.909415 3345.018178 3340.050917 3216.224913 3591.461163 3346.416602 3827.557056 3414.77221 0.997904232 1.208763318 1.020246506 0.979572859 0.97811822 0.941856357 1.05174253 0.979982381 1.120882103 1 11.73757363 -6.269787497 21.57198502 1.019501572 0.986974121 0.082814081 0.073046548 264.2587911 682862.7426 0.010683287 0.016531105 5.37E-07 6.269787497 -0.032527451 EIQNGNLHES(ph)DSESVPR ddPTM_HeLa_SAHA_4h_R1 4 EIQNGNLHESDSESVPR 17 0 Q86UP2-2;Q86UP2-3;Q86UP2-4;Q86UP2 Q86UP2-2 KTN1 Kinectin 1 0 EIQNGNLHES(0.917)DS(0.063)ES(0.021)VPR;EIQNGNLHES(0.961)DS(0.037)ES(0.002)VPR;EIQNGNLHES(0.772)DS(0.228)ESVPR;EIQNGNLHES(0.979)DS(0.02)ES(0.001)VPR ;;; 247.28 7.18E-37 56025200 2919.31 9489.4 4161.12 4013.9 5401.91 6042.82 5684.84 4315.55 4754.89 4872.67 TRUE FALSE FALSE 3226.37642 9796.862786 4728.175763 4091.594839 4988.016823 5527.93774 5045.166842 4205.16448 4721.800333 5082.75465 0.634769262 1.927471118 0.930238835 0.804995543 0.981360929 1.087586972 0.992604835 0.827339655 0.928984509 1 12.31139488 EIQTAVR ddPTM_HeLa_SAHA_4h_R1 3 EIQTAVR 7 0 O60814;P57053;P33778;P58876;P62807;Q16778;Q5QNW6;Q5QNW6-2;Q93079;U3KQK0;Q99877;Q99879;Q99880 O60814;P33778;P58876;P62807;Q16778;Q5QNW6;Q93079;U3KQK0;Q99879;Q99880 HIST1H2BK;H2BFS;HIST1H2BB;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST2H2BF;HIST1H2BH;HIST1H2BN;HIST1H2BM;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-B;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 2-F;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-M;Histone H2B type 1-L 0 0 ;; ;; 134.81 0.00035238 153664000 9028.3 8440.7 8183 8910.7 9181.7 8368.7 9831.9 7900.9 7269.1 7439.6 FALSE FALSE TRUE 9977.938017 8714.184218 9298.136625 9083.179484 8478.20013 7655.639679 8725.588736 7698.806418 7218.513741 7760.357565 1.28575751 1.122910142 1.198158274 1.170458888 1.092501223 0.986506049 1.124379729 0.992068517 0.930177982 1 12.92190741 -5.530847933 5.857937103 1.144267576 1.042383501 0.085135249 0.101544339 0.235073193 29.87200637 0.016043953 0.033624048 2.95E-06 5.530847933 -0.101884075 EIS(ph)DDEAEEEK ddPTM_HeLa_SAHA_4h_R1 2 EISDDEAEEEK 11 0 P08238;Q58FF7 P08238 HSP90AB1;HSP90AB3P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 1 0 EIS(1)DDEAEEEK;EIS(1)DDEAEEEK ; 156.14 0.00029236 37827000 2111.83 2925.1 2171.3 2585.2 2797.8 3182 2522.3 2291.38 4990.7 3014.8 TRUE FALSE FALSE 2333.961969 3019.875159 2467.193456 2635.240284 2583.433168 2910.875699 2238.484166 2232.769817 4955.969312 3144.782782 0.742169533 0.960281001 0.784535412 0.837972117 0.821498128 0.925620591 0.711808834 0.709991746 1.575933747 1 11.61874465 -9.462059364 1.07416878 1.005302236 0.810031746 0.317859357 0.200693138 0.408854852 0.805797424 0.06300198 0.01392739 3.45E-10 9.462059364 -0.195270489 EIS(ph)DDEAEEEKGEK ddPTM_HeLa_SAHA_4h_R1 2 EISDDEAEEEKGEK 14 1 P08238;Q58FF7 P08238 HSP90AB1;HSP90AB3P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 1 0 EIS(1)DDEAEEEKGEK;EIS(1)DDEAEEEKGEK ; 184.02 3.36E-07 37453000 2391.96 3444.3 2522.3 2317.9 2959.1 4304 3019.2 2226.7 5392.8 3712.4 TRUE FALSE FALSE 2643.557328 3555.89758 2866.025908 2362.766306 2732.374397 3937.274986 2679.47167 2169.744238 5355.271066 3872.459732 0.68265586 0.918252952 0.740104767 0.610146127 0.705591429 1.01673749 0.691930157 0.560301304 1.382912008 1 11.91903452 -9.424259614 0.842056796 1.022679791 0.742102035 0.437418968 0.177917659 0.688380288 0.753177531 0.134175572 0.024611366 3.76E-10 9.424259614 -0.280577756 EIS(ph)PGSGPGEIR ddPTM_HeLa_SAHA_4h_R1 3 EISPGSGPGEIR 12 0 O43491;E9PMV8;O43491-4;E9PHY5;E9PK52;Q6R5J7;H0Y5B0;E9PMG5 O43491 EPB41L2 Band 4.1-like protein 2 1 0 EIS(0.858)PGS(0.142)GPGEIR;EIS(0.995)PGS(0.005)GPGEIR;EIS(0.994)PGS(0.006)GPGEIR ;; 171.49 6.62E-05 99034000 4039.6 5016.6 4510.3 4797.5 4977.5 5461.1 5351 4572.3 6341.1 5003.5 TRUE FALSE FALSE 4464.503662 5179.141132 5124.940195 4890.36255 4596.125025 4995.783557 4748.891397 4455.347187 6296.971769 5219.225372 0.855395838 0.992319887 0.981935025 0.936990109 0.880614401 0.957188702 0.909884333 0.853641464 1.20649547 1 12.34961999 -3.010918943 1.011050726 0.937290746 3.85E-08 0.036786206 0.095872502 28.9934363 3.091635831 0.00898442 51.92982572 0.000975172 3.010918943 -0.937290708 EISEGDEVEVYSR ddPTM_HeLa_SAHA_4h_R1 1 EISEGDEVEVYSR 13 0 B4DXZ6;P51114;P51114-2;C9JAJ4 B4DXZ6 FXR1 Fragile X mental retardation syndrome-related protein 1 0 0 123.67 0.0060257 2547600 621.2 570 397.67 525.48 531.59 582.64 607.89 547.96 557.42 466.03 FALSE FALSE TRUE 686.5406662 588.468374 451.8623966 535.6514253 490.859689 532.9957942 539.4886173 533.9439766 553.5408688 486.122834 1.41227817 1.210534319 0.929523086 1.101884931 1.009744153 1.09642205 1.109778393 1.09837255 1.138685184 1 8.925177091 -6.809145071 24.98271756 1.201315352 1.061590916 0.265066929 0.107555795 168.833807 88414.96596 0.025883057 0.034017051 1.55E-07 6.809145071 -0.139724436 EISS(ph)PARPCSFEEAMK ddPTM_HeLa_SAHA_4h_R1 2 EISSPARPCSFEEAMK 16 1 O94916-2;O94916;O94916-4;O94916-5 O94916-2 NFAT5 Nuclear factor of activated T-cells 5 1 0 EIS(0.173)S(0.827)PARPCSFEEAMK;EIS(0.193)S(0.805)PARPCS(0.002)FEEAMK ; 98.882 0.002491 36352000 4548.3 4866.8 4335.7 4729.1 5121.4 6246.1 5051.6 4858.4 5319.5 5437.9 TRUE FALSE FALSE 5026.711062 5024.487513 4926.546617 4820.638569 4728.999438 5713.89714 4483.180673 4734.129163 5282.481166 5672.354481 0.886177174 0.885785176 0.868518819 0.849847904 0.833692509 1.007323706 0.790356225 0.834596847 0.931267815 1 12.46973198 -9.289829696 0.384868266 1.04642802 0.859113619 0.287363313 0.057147404 1.705505973 0.326121771 0.133527137 0.019474349 5.13E-10 9.289829696 -0.187314401 EISS(ph)SPTSK ddPTM_HeLa_SAHA_4h_R1 1 EISSSPTSK 9 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 EIS(0.002)S(0.913)S(0.084)PT(0.002)SK 115.18 0.0046948 5537100 2761.5 3343.7 2881.5 3124.1 3831.8 5759.2 4673 3834.1 4134.7 5766.6 TRUE FALSE FALSE 3051.96724 3452.038074 3274.175814 3184.571473 3538.208312 5268.48376 4147.181741 3736.029274 4105.926286 6015.226347 0.507373632 0.573883321 0.544314648 0.529418394 0.588208674 0.87585794 0.68944733 0.621095377 0.682588825 1 12.55440331 -9.3634392 1.057740229 1.002610075 0.612007515 0.177012612 0.137990885 0.272131812 0.539028011 0.079740349 0.020138319 4.33E-10 9.3634392 -0.39060256 EISSS(ph)PTSK ddPTM_HeLa_SAHA_4h_R1 2 EISSSPTSK 9 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 EIS(0.011)S(0.304)S(0.684)PT(0.001)SK;EIS(0.011)S(0.333)S(0.655)PT(0.001)SK ; 175.49 1.81E-05 88229000 10117.6 10829.7 8480 12505.9 13013.7 20133.2 14535.9 12135.7 14173.7 19786.9 TRUE FALSE FALSE 11181.81559 11180.58939 9635.610238 12747.96978 12016.59312 18417.73809 12900.28228 11825.28637 14075.06407 20640.01009 0.541754366 0.541694957 0.466841353 0.617633893 0.582198994 0.892331836 0.62501337 0.572930261 0.681931065 1 14.33315606 -9.260154635 0.951717165 1.003920145 0.605958564 0.192365199 0.142491113 0.294179945 0.470829697 0.080886225 0.02125527 5.49E-10 9.260154635 -0.397961581 EIT(ph)ALAPSTMK ddPTM_HeLa_SAHA_4h_R1 2 EITALAPSTMK 11 0 P60709;P63267-2;A0A2R8YFE2;P63267;P68133;P68032;P62736;A6NL76;P63261 P60709;P63267;P63261 ACTB;ACTG2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 EIT(0.991)ALAPS(0.009)TMK;EIT(1)ALAPSTMK ; 116.71 0.0044101 22118000 6342.6 6400 5054.4 6077.1 6643.6 6876.4 6191.8 5969.1 6516.1 6263.9 TRUE FALSE FALSE 7009.743769 6607.364199 5743.18731 6194.731058 6134.568803 6290.492034 5495.082368 5816.419065 6470.75393 6533.967384 1.072815849 1.011233116 0.878973979 0.948081111 0.938873496 0.962736981 0.841002418 0.890181833 0.99032541 1 12.67374354 -6.863521412 5.454762281 1.034659032 0.912539182 0.633709957 0.039978978 0.097048946 4.413190369 0.00701316 0.009287537 1.37E-07 6.863521412 -0.12211985 EITALAPS(ph)TMK ddPTM_HeLa_SAHA_4h_R1 5 EITALAPSTMK 11 0 P60709;P63267-2;A0A2R8YFE2;P63267;P68133;P68032;P62736;A6NL76;P63261 P60709;P63267;P63261 ACTB;ACTG2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 EIT(0.001)ALAPS(0.996)T(0.003)MK;EITALAPS(0.998)T(0.001)MK;EITALAPS(0.72)T(0.28)MK;EITALAPS(0.958)T(0.042)MK;EITALAPS(0.951)T(0.049)MK ;;;; 172.11 7.98E-05 111409700 21787.3 18907.6 15166.2 19222.9 21513.1 22627.1 21838 18287 20655.8 17884.2 TRUE FALSE FALSE 24078.98818 19520.21865 17232.97075 19594.98703 19864.77093 20699.14378 19380.73077 17819.24502 20512.05461 18655.27539 1.290733462 1.04636454 0.923758583 1.050372435 1.064833969 1.109559808 1.038887412 0.955185311 1.099531054 1 14.18729604 -7.027758936 24.94054408 1.138935973 1.027565372 0.246250412 0.082869499 940.3797303 844900.8022 0.019477239 0.02388639 9.38E-08 7.027758936 -0.111370601 EITALAPST(ph)MK ddPTM_HeLa_SAHA_4h_R1 3 EITALAPSTMK 11 0 P60709;P63267-2;A0A2R8YFE2;P63267;P68133;P68032;P62736;A6NL76;P63261 P60709;P63267;P63261 ACTB;ACTG2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 EITALAPS(0.361)T(0.639)MK;EITALAPS(0.186)T(0.814)MK;EITALAPS(0.129)T(0.871)MK ;; 193.15 8.72E-07 30496500 8152 6439.2 5701.2 6704.3 8065.9 7209.2 7190.3 6382 6341.8 6358.5 TRUE FALSE FALSE 9009.464763 6647.834305 6478.129845 6834.071421 7447.892485 6594.935602 6381.22852 6218.757681 6297.666897 6632.646053 1.358351507 1.002289924 0.976703686 1.03036878 1.122914207 0.994314418 0.962093932 0.937598303 0.949495397 1 12.69536882 EITALAPSTMK ddPTM_HeLa_SAHA_4h_R1 14 EITALAPSTMK 11 0 P60709;P63267-2;A0A2R8YFE2;P63267;P68133;P68032;P62736;A6NL76;P63261 P60709;P63267;P63261 ACTB;ACTG2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;;;;;;;;;;;;; ;;;;;;;;;;;;; 194.54 4.05E-17 242072300 50375.8 48061.45 45243.89 51532.51 50271.16 46217.13 53671.98 45103.21 42469.85 41596.02 FALSE FALSE TRUE 55674.55778 49618.67251 51409.49171 52529.99625 46419.39458 42279.17051 47632.66755 43949.5352 42174.29886 43389.42799 1.283136477 1.143565952 1.184839121 1.210663488 1.069831909 0.974411797 1.097794319 1.012908841 0.971994811 1 15.40505595 -5.563312687 8.131243748 1.146568501 1.033101121 0.199914597 0.091778539 0.307222871 54.54976605 0.0159766 0.032130009 2.73E-06 5.563312687 -0.11346738 EITALAPSTMK(ac)IK ddPTM_HeLa_SAHA_4h_R1 4 EITALAPSTMKIK 13 1 P60709;P63267-2;A0A2R8YFE2;P63267;P68133;P68032;P62736;A6NL76;P63261 P60709;P63267;P63261 ACTB;ACTG2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 1 ;;; EITALAPSTMK(1)IK;EITALAPSTMK(1)IK;EITALAPSTMK(1)IK;EITALAPSTMK(1)IK 274.2 8.17E-85 23612500 14401.6 13582.4 14875.6 13169.1 15118.3 12081.4 17047.7 11873.3 9637.8 11112.16 FALSE TRUE FALSE 15916.42636 14022.47867 16902.7693 13424.00697 13959.93912 11051.99675 15129.44793 11569.59818 9570.729765 11591.2596 1.373140359 1.209745891 1.458234039 1.1581146 1.204350485 0.953476769 1.305246233 0.998131228 0.82568505 1 13.50074973 -4.236209246 22.68338712 1.192799199 0.998130367 0.050353794 0.186136008 3979.103304 3577250.772 0.023848834 1.843322807 5.80E-05 4.236209246 -0.194668833 SVAK(ac)LQDER ddPTM_HeLa_SAHA_4h_R1 2 SVAKLQDER 9 1 O14818;A0A087WYS6;O14818-4;Q8TAA3-5;Q8TAA3 O14818 PSMA7;PSMA8 Proteasome subunit alpha type-7;Proteasome subunit alpha type-7-like 0 1 ; SVAK(1)LQDER;SVAK(1)LQDER 116.52 0.0036293 3492800 1046.44 1298.59 1459.76 2467.9 3254.6 2402.4 4171.5 2729.7 383.53 645.6 FALSE TRUE FALSE 1156.50936 1340.665168 1658.688491 2515.669773 3005.233251 2197.702004 3702.111841 2659.878227 380.8609835 673.4349755 1.717328922 1.990786367 2.463026946 3.735579328 4.462544062 3.263421243 5.497356057 3.949717973 0.565549752 1 9.395394841 -6.42042804 0.728071758 1.220068654 4.592944637 0.848990343 0.583978482 0.157912288 0.166389242 0.109550918 0.237716386 3.80E-07 6.42042804 3.372875983 up EIVHIQAGQCGNQIGTK ddPTM_HeLa_SAHA_4h_R1 1 EIVHIQAGQCGNQIGTK 17 0 K7ESM5;Q9BUF5;K7ESQ3;K7EQT3;K7EJ64;K7ERA8;K7EJZ4;K7EL29;K7EN98;K7EPE5 K7ESM5 TUBB6 Tubulin beta-6 chain 0 0 159.04 5.99E-05 0 384.78 538.67 384.64 585.33 463.19 395.14 470.3 416.51 495.12 423.96 FALSE FALSE TRUE 425.2529258 556.1232614 437.0567361 596.6599086 427.7004823 361.471849 417.3806062 405.8562773 491.6744196 442.2389904 0.961590758 1.257517481 0.988281779 1.349179791 0.967125223 0.817367661 0.943789705 0.917730653 1.11178442 1 8.788682417 -5.521841731 24.99999246 1.033113491 0.897078861 0.266866969 0.131768105 51.01343892 1229805.462 0.01965767 0.039718318 3.01E-06 5.521841731 -0.136034631 EIVHLQAGQCGNQIGAK ddPTM_HeLa_SAHA_4h_R1 2 EIVHLQAGQCGNQIGAK 17 0 P68371;M0R2D3;M0QY85;M0QZL7;M0R278;M0R0X0;M0QY37;M0QX14;P04350;M0QYM7;M0R042;M0R2T4 P68371;P04350;M0R2T4 TUBB4B;TUBB4A Tubulin beta-4B chain;Tubulin beta-4A chain 0 0 ; ; 304.23 1.05E-138 43767000 7139.8 7808.6 7148.8 6890.1 7058.1 8387.5 8567.9 6034.7 8696.6 7440.2 FALSE FALSE TRUE 7890.796923 8061.603763 8123.001235 7023.467849 6517.309903 7672.837813 7603.817343 5880.341112 8636.079653 7760.983433 1.016726423 1.038734824 1.046645867 0.904971375 0.839753101 0.988642468 0.979749204 0.757679895 1.112755842 1 12.92202376 -6.248524673 22.94849145 1.013544374 0.901140689 0.504084202 0.070687149 183.7962847 326591.2343 0.009114902 0.015034811 5.64E-07 6.248524673 -0.112403685 EIVLADVIDNDSWR ddPTM_HeLa_SAHA_4h_R1 2 EIVLADVIDNDSWR 14 0 E9PBS1;P22234;P22234-2;D6RF62 E9PBS1 PAICS Multifunctional protein ADE2;Phosphoribosylaminoimidazole-succinocarboxamide synthase;Phosphoribosylaminoimidazole carboxylase 0 0 ; ; 243.85 2.44E-32 21404800 3653.7 3872.8 4282 3571.2 3750.8 4302.9 4384 2495.2 4452.6 3556.4 FALSE FALSE TRUE 4038.01293 3998.281261 4865.52866 3640.32574 3463.414514 3936.268713 3890.700782 2431.376397 4421.613994 3709.733809 1.088491288 1.077781174 1.311557355 0.981290283 0.933601895 1.061065002 1.04878166 0.655404544 1.19189522 1 11.85709995 -4.261457708 7.389206323 1.053497607 0.650748804 0.58486428 0.104914796 0.053958647 26.77169413 0.013399807 0.107866573 5.48E-05 4.261457708 -0.402748803 QIASDK(ac)DAR ddPTM_HeLa_SAHA_4h_R1 2 QIASDKDAR 9 1 A0A088AWL3;O75376;E7EVK1 A0A088AWL3 NCOR1 Nuclear receptor corepressor 1 0 1 ; QIASDK(1)DAR;QIASDK(1)DAR 95.775 0.014117 1406090 715.55 816.34 1205.77 1916.19 2129.74 2444.5 2459.4 2334.5 711.38 647.82 FALSE TRUE FALSE 790.8148321 842.7899516 1370.086056 1953.280628 1966.559781 2236.214848 2182.661839 2274.78687 706.4294487 675.7506906 1.170276025 1.247190663 2.027502266 2.890534417 2.910185382 3.309230577 3.229980923 3.366310833 1.045399522 1 9.400347271 -6.416734252 1.282058508 1.063270706 3.261961894 0.988849441 0.102378801 0.029063054 0.094719324 0.018173556 0.032450203 3.83E-07 6.416734252 2.198691188 up EK(ac)EELMER ddPTM_HeLa_SAHA_4h_R1 1 EKEELMER 8 1 A0A2R8Y7M3;A0A2R8Y5S7;P35241;P35241-5;P35241-4;P26038 A0A2R8Y7M3;P26038 RDX;MSN Radixin;Moesin 0 1 EK(1)EELMER 93.667 0.017433 2517900 638.56 2279.5 1066.2 997.17 1717.2 1308.8 1799.4 1444.9 1306.8 544.67 FALSE TRUE FALSE 705.7266706 2353.357296 1211.496183 1016.471667 1585.628507 1197.282877 1596.926776 1407.94155 1297.705872 568.1533893 1.242141091 4.142116091 2.132339974 1.789079651 2.790845812 2.107323303 2.810731761 2.47810112 2.284076619 1 9.150136669 -7.483009182 24.81860655 1.106826327 2.563078509 0.291045596 0.70735025 213.7977459 133089.072 0.097983859 0.110469414 3.29E-08 7.483009182 1.456252182 EK(ac)AEGDVAALNR ddPTM_HeLa_SAHA_4h_R1 1 EKAEGDVAALNR 12 1 P67936;A0A2R8Y5V9;A0A2R8YH90;A0A2R8YGX3 P67936 TPM4 Tropomyosin alpha-4 chain 0 1 EK(1)AEGDVAALNR 132.56 0.00052092 3137600 804.43 1684.7 1034.7 1299.6 2118.2 2365.7 2279.6 2031.7 1138.7 680.69 FALSE TRUE FALSE 889.0436383 1739.285385 1175.703528 1324.755637 1955.903974 2164.129051 2023.093408 1979.732056 1130.775694 710.0378771 1.252107341 2.449567046 1.655832126 1.865753476 2.754647374 3.047906486 2.849275333 2.788206263 1.592556863 1 9.471752177 -6.409345839 0.489917783 0.999049427 3.106875536 0.719812894 0.37114694 0.291713272 0.139481753 0.100980283 0.25588356 3.90E-07 6.409345839 2.107826109 EK(ac)FENLGIQPPK ddPTM_HeLa_SAHA_4h_R1 2 EKFENLGIQPPK 12 1 E9PM69;P17980;E9PN50;E9PMD8;R4GNH3;E9PKD5 E9PM69 PSMC3 26S protease regulatory subunit 6A 0 1 ; EK(1)FENLGIQPPK;EK(1)FENLGIQPPK 118.61 0.0028348 2379200 724.73 1327.82 570.91 762.4 1480.5 939.95 1214.11 946.88 1189.95 693.59 FALSE TRUE FALSE 800.9604266 1370.842239 648.7106416 777.1573544 1367.06441 859.860972 1077.495147 922.6601807 1181.669041 723.4940592 1.107072569 1.894752585 0.896635754 1.074172406 1.88953094 1.188483804 1.489293704 1.2752837 1.633280918 1 9.49883736 -7.494432387 23.21410488 1.047237348 1.380871444 0 0.354535246 159.0762998 129819.3055 0.050023138 0.05434124 3.20E-08 7.494432387 0.333634096 EK(ac)LIAPVAEEEATVPNNK ddPTM_HeLa_SAHA_4h_R1 1 EKLIAPVAEEEATVPNNK 18 1 A0A5F9ZHM4;P07195;A0A3B3IS95;A8MW50;C9J7H8;F5H793 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain;L-lactate dehydrogenase 0 1 EK(1)LIAPVAEEEATVPNNK 237.59 1.00E-57 1112700 140.04 408.13 160.4 57.373 257.92 283.75 208.64 167.33 72.518 202.69 FALSE TRUE FALSE 154.7700497 421.3536798 182.2584767 58.48353738 238.1582253 259.5729037 185.1632781 163.0499409 72.01334133 211.4289578 0.732019168 1.992885384 0.86203176 0.27661082 1.12642198 1.227707436 0.875770661 0.771180743 0.340603019 1 7.724029175 EK(ac)LQEEMLQR ddPTM_HeLa_SAHA_4h_R1 2 EKLQEEMLQR 10 1 P08670;B0YJC4 P08670 VIM Vimentin 0 1 ; EK(1)LQEEMLQR;EK(1)LQEEMLQR 167.09 2.49E-11 8064500 816.84 3050.3 1026.98 1146.19 2641.9 2598.9 2708.8 1851.66 2440.8 758.98 FALSE TRUE FALSE 902.758979 3149.131721 1166.931486 1168.376165 2439.478193 2377.459099 2403.998695 1804.297218 2423.814274 791.7033422 1.140274306 3.977666322 1.473950436 1.475775209 3.081303391 3.002967112 3.036489259 2.279006696 3.061518305 1 9.628816131 -7.418419039 12.06798895 1.061831309 2.578861352 0.029974316 0.955434018 0.419627533 46.68831664 0.12048762 0.137713723 3.82E-08 7.418419039 1.517030042 EK(ac)PVCGTTYK ddPTM_HeLa_SAHA_4h_R1 2 EKPVCGTTYK 10 1 Q14444-2;Q14444;G3V153 Q14444-2 CAPRIN1 Caprin-1 0 1 ; EK(1)PVCGTTYK;EK(1)PVCGTTYK 132.17 0.00076586 4386200 533.06 1415.19 715.743 735.48 1303.23 965.93 1293.95 853.15 737.9 291.54 FALSE TRUE FALSE 589.1296966 1461.043085 813.2807286 749.7162789 1203.376799 883.6273298 1148.351341 831.3276583 732.7648938 304.1097162 1.937227472 4.804328855 2.674300377 2.465282229 3.95704818 2.905620185 3.776108685 2.73364386 2.409541211 1 8.2484481 -7.475157086 5.863166001 1.403523417 3.307339859 0.461155466 0.753803171 0.098756598 7.664830994 0.119937802 0.134120905 3.35E-08 7.475157086 1.903816443 EK(ac)QPPIDNIIR ddPTM_HeLa_SAHA_4h_R1 2 EKQPPIDNIIR 11 1 P52292;J3QLL0;J3KS65 P52292 KPNA2 Importin subunit alpha-1 0 1 ; EK(1)QPPIDNIIR;EK(1)QPPIDNIIR 135.8 0.00037646 2976700 1083.1 2679.3 1273.18 1482.46 2209.69 2200.7 2180.9 1904.85 1675.85 842.6 FALSE TRUE FALSE 1197.025427 2766.111078 1446.68234 1511.155157 2040.38403 2013.187979 1935.499392 1856.126695 1664.187623 878.9286096 1.361914283 3.147139651 1.645961144 1.719315017 2.321444549 2.290502274 2.202112175 2.111805982 1.893427527 1 9.779602178 -7.47761515 13.29695942 1.159544616 2.178764754 0.358209183 0.451069501 1.06505404 312.6441012 0.065448231 0.074024503 3.33E-08 7.47761515 1.019220138 EK(ac)VWVSDK ddPTM_HeLa_SAHA_4h_R1 1 EKVWVSDK 8 1 Q5T6H2;Q5T6H7;Q9NQW7-2;Q9NQW7;Q9NQW7-4;Q9NQW7-3 Q5T6H2 XPNPEP1 Xaa-Pro aminopeptidase 1 0 1 EK(1)VWVSDK 102.06 0.0081539 882510 305.97 524.3 324.22 495.19 352.47 380.01 600.79 517.4 516.81 218.64 FALSE TRUE FALSE 338.1533284 541.287664 368.4030131 504.7751185 325.4638247 347.6310101 533.187528 504.1656572 513.2134771 228.0666404 1.482695268 2.373375006 1.615330556 2.213279056 1.427055812 1.524251901 2.337858475 2.210606761 2.250278586 1 7.833311627 -7.90969169 0.960011086 1.093965253 1.93614614 0 0.499374292 0.273994976 0.537774878 0.094831972 0.078600944 1.23E-08 7.90969169 0.842180888 EK(ac)YIDQEELNK ddPTM_HeLa_SAHA_4h_R1 2 EKYIDQEELNK 11 1 P07900;P07900-2;Q14568;P08238;Q58FF8 P07900;P08238;Q58FF8 HSP90AA1;HSP90AA2P;HSP90AB1;HSP90AB2P Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-alpha A2;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta 2 0 1 ; EK(1)YIDQEELNK;EK(1)YIDQEELNK 255.52 9.01E-70 8649100 1393.01 3307.1 1619.49 1856.46 2723.8 2859.7 2831.9 2423.2 2173.3 1085.8 FALSE TRUE FALSE 1539.533183 3414.25221 1840.185663 1892.394468 2515.103032 2616.037472 2513.247159 2361.218053 2158.175828 1132.614152 1.359274189 3.014488389 1.624724237 1.67082008 2.2206177 2.30973405 2.218979124 2.084750618 1.905481955 1 10.14544075 -7.469511879 10.78328856 1.158135947 2.137873239 0.343519708 0.433505079 0.380392431 76.09463196 0.062409073 0.070852738 3.39E-08 7.469511879 0.979737292 EKAEGDVAALNR ddPTM_HeLa_SAHA_4h_R1 1 EKAEGDVAALNR 12 1 P67936;A0A2R8Y5V9;A0A2R8YH90;A0A2R8YGX3 P67936 TPM4 Tropomyosin alpha-4 chain 0 0 117.95 0.0024799 8698200 1697.5 1723.5 1608 1990.5 1849.4 1931.6 1565.8 1881.1 2177.8 1858.9 FALSE FALSE TRUE 1876.050838 1779.342531 1827.129866 2029.029006 1707.699372 1767.016813 1389.612063 1832.984186 2162.644512 1939.046276 0.967512153 0.917637992 0.942282754 1.046405664 0.880690364 0.911281404 0.716647189 0.945301929 1.115313512 1 10.92113152 -5.417208074 2.203348996 0.978637606 0.837899249 0.386756251 0.078696807 0.19630126 1.851298652 0.00886109 0.023576762 3.83E-06 5.417208074 -0.140738357 EKDDLS(ph)PQPLMTDFER ddPTM_HeLa_SAHA_4h_R1 1 EKDDLSPQPLMTDFER 16 1 Q5THJ4-2;Q5THJ4 Q5THJ4-2 VPS13D Vacuolar protein sorting-associated protein 13D 1 0 EKDDLS(0.98)PQPLMT(0.02)DFER 59.975 0.02289 3752900 1018.4 965.36 890.31 922.5 1032.1 1468.9 935.86 833 855.47 815.13 TRUE FALSE FALSE 1125.519985 996.6382974 1011.63681 940.3563215 953.020721 1343.741456 830.5545698 811.6930662 849.5167146 850.2742434 1.323714076 1.172137466 1.189777084 1.105944733 1.120839221 1.580362414 0.976807867 0.954625019 0.999109077 1 9.731784426 -1.013248337 19.09400112 1.160534431 0.00582869 0 0.183415437 0 0 0.024758187 0 0.096995517 1.013248337 -1.15470574 EKDLDLEPLS(ph)DLEEGLEETR ddPTM_HeLa_SAHA_4h_R1 1 EKDLDLEPLSDLEEGLEETR 20 1 P29375-2;P29375 P29375-2 KDM5A Lysine-specific demethylase 5A 1 0 EKDLDLEPLS(1)DLEEGLEETR 107.95 0.0003302 4278900 188.57 246.93 123.3 231.11 235.36 273.74 274.08 222.98 288.72 212.6 TRUE FALSE FALSE 208.4046578 254.930694 140.1026819 235.5834682 217.3267676 250.415812 243.2397971 217.2764945 286.710774 221.7662264 0.939749308 1.149546972 0.631758425 1.062305438 0.979981358 1.129188227 1.096829761 0.979754663 1.29285139 1 7.792895859 -5.605865279 2.470158766 0.962500739 1.068268255 0 0.166998396 0.467245661 5.747844881 0.018065656 0.041243109 2.48E-06 5.605865279 0.105767517 EKDQAWK(ac)TLK ddPTM_HeLa_SAHA_4h_R1 2 EKDQAWKTLK 10 2 O75528 O75528 TADA3 Transcriptional adapter 3 0 1 ; EKDQAWK(1)TLK;EKDQAWK(1)TLK 121.02 0.0014397 5114300 6879.6 6186.2 6858.6 7531.8 7442.2 4456.7 7681.1 5370.8 4027.4 4883.6 FALSE TRUE FALSE 7603.227893 6386.636939 7793.25429 7677.58888 6871.980244 4076.964087 6816.802412 5233.422713 3999.372995 5094.155896 1.492539304 1.253718392 1.529842127 1.507136616 1.348992921 0.800321814 1.338161327 1.027338546 0.785090421 1 12.3146274 EKDS(ph)PHMQDPNQADEEAMTQIIR ddPTM_HeLa_SAHA_4h_R1 2 EKDSPHMQDPNQADEEAMTQIIR 23 1 P23511-2;P23511 P23511-2 NFYA Nuclear transcription factor Y subunit alpha 1 0 EKDS(1)PHMQDPNQADEEAMTQIIR;EKDS(0.995)PHMQDPNQADEEAMT(0.005)QIIR ; 88.768 0.0001529 22694000 2127.68 2123.24 1860.7 1923.8 2096.94 2202.97 2435.03 2110.83 2029.32 1934.54 TRUE FALSE FALSE 2351.479145 2192.034369 2114.266506 1961.037931 1936.27291 2015.264562 2161.034016 2056.838025 2015.197797 2017.947487 1.165282625 1.086269283 1.047731182 0.971798297 0.959525916 0.998670469 1.070906964 1.019272324 0.998637383 1 10.97867292 -6.511201528 4.590632239 1.08053035 1.005008778 0.188638943 0.053104064 0.239627294 12.97425642 0.01074252 0.015995757 3.08E-07 6.511201528 -0.075521572 EKDSPFK(ac)PK ddPTM_HeLa_SAHA_4h_R1 2 EKDSPFKPK 9 2 Q15291 Q15291 RBBP5 Retinoblastoma-binding protein 5 0 1 ; EKDSPFK(1)PK;EK(0.001)DSPFK(0.999)PK 93.667 0.0076828 11259800 11279.7 11952.7 12166.9 13142.7 13866.2 12045.6 13782.3 15567.1 12238.3 11255.4 FALSE TRUE FALSE 12466.1506 12339.97532 13824.94177 13397.09596 12803.77475 11019.24711 12231.47933 15168.91612 12153.13267 11740.67538 1.061791609 1.051044759 1.177525255 1.141083927 1.0905484 0.938553087 1.041803724 1.291996894 1.035130628 1 13.51922778 -8.099954314 0.702321937 1.006754049 1.099813328 0.132405481 0.088000289 0.887033757 0.967215085 0.035047096 0.0226316 7.94E-09 8.099954314 0.093059279 EKDTAVQGNIRLS(ph)FEDFVTMT(ph)AS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 EKDTAVQGNIRLSFEDFVTMTASR 24 2 Q9UBV8 Q9UBV8 PEF1 Peflin 3 0 EKDTAVQGNIRLS(0.961)FEDFVT(0.509)MT(0.811)AS(0.719)R 42.909 0.017815 10174000 1087.3 1097.8 1183.1 1378.4 1511.4 223.67 1760.7 1485 1382.2 1580.2 TRUE FALSE FALSE 1201.667203 1133.36944 1344.326707 1405.080925 1395.596859 204.6120577 1562.581402 1447.01585 1372.581158 1648.330155 0.729020942 0.687586426 0.815568836 0.852426876 0.846673134 0.124132934 0.947978411 0.877867729 0.832710093 1 10.68678952 -9.333463716 0.535127 1.060512367 0.721889112 0.071308545 0.224042027 2.087107068 0.795270486 0.368128776 0.053866213 4.64E-10 9.333463716 -0.338623255 EKEEETKTS(ph)NGDLSDSTVSADPVVK ddPTM_HeLa_SAHA_4h_R1 1 EKEEETKTSNGDLSDSTVSADPVVK 25 2 A0A087X256;Q2M389 A0A087X256 KIAA1033 WASH complex subunit 7 1 0 EKEEET(0.003)KT(0.043)S(0.954)NGDLSDSTVSADPVVK 104.97 1.85E-06 10076000 1032.2 1399.4 1226.3 1512.6 1539.1 1171.4 1446.9 1587.6 1022.9 1348.2 TRUE FALSE FALSE 1140.771532 1444.741478 1393.413778 1541.87856 1421.174491 1071.59013 1284.091004 1546.991491 1015.781556 1406.3275 0.811170607 1.027315101 0.990817415 1.096386553 1.010557278 0.761977655 0.91308106 1.100022215 0.722293744 1 10.45771689 -9.975579315 2.34500834 1.001034757 0.929216518 0 0.139661302 0.929135714 9.274606012 0.097594108 0.017846701 1.06E-10 9.975579315 -0.071818239 EKEIS(ph)DDEAEEEK ddPTM_HeLa_SAHA_4h_R1 4 EKEISDDEAEEEK 13 1 P08238 P08238 HSP90AB1 Heat shock protein HSP 90-beta 1 0 EKEIS(1)DDEAEEEK;EKEIS(1)DDEAEEEK;EKEIS(1)DDEAEEEK;EKEIS(1)DDEAEEEK ;;; 191.78 7.11E-07 91890500 6396.54 7771.12 6108.27 6773.9 7220.78 9619.41 7296.62 6768.29 10855.3 8111.11 TRUE FALSE FALSE 7069.357426 8022.909387 6940.673225 6905.01863 6667.525396 8799.782151 6475.585114 6595.166942 10779.75708 8460.819647 0.835540494 0.948242572 0.820331069 0.816116986 0.788047219 1.040062608 0.765361441 0.779495039 1.274079526 1 13.04658172 -10.79942645 0.326609108 1.207534475 0.83753499 0.418829709 0.116653445 7.683226379 0.479399805 1.189149996 0.031741883 1.59E-11 10.79942645 -0.369999485 EKEIS(ph)DDEAEEEKGEK ddPTM_HeLa_SAHA_4h_R1 1 EKEISDDEAEEEKGEK 16 2 P08238 P08238 HSP90AB1 Heat shock protein HSP 90-beta 1 0 EKEIS(1)DDEAEEEKGEK 111.45 0.00037359 0 1827.2 1720.3 1685.6 1687.9 1774.1 2168.1 1764.3 1272.8 2476.3 1906.9 TRUE FALSE FALSE 2019.393279 1776.038849 1915.30479 1720.571745 1638.168841 1983.365683 1565.776321 1240.243619 2459.067227 1989.115791 1.015221582 0.892878563 0.962892557 0.864993256 0.823566355 0.997109214 0.787172033 0.623515043 1.236261477 1 10.95791155 -3.081631391 0.367621459 1.006391242 2.70E-19 0.592064428 0.099333534 5.347203285 0.25897251 0.019361238 2.865351517 0.000828645 3.081631391 -1.006391242 EKELS(ph)PPPGLPSK ddPTM_HeLa_SAHA_4h_R1 5 EKELSPPPGLPSK 13 1 H0YHT2;A0A1B0GV47;Q7Z4S6-6;Q7Z4S6-3;Q7Z4S6-5;Q7Z4S6-2;Q7Z4S6;Q7Z4S6-4;H0YIM6;H0YI78 H0YHT2 KIF21A Kinesin-like protein KIF21A 1 0 EKELS(1)PPPGLPSK;EKELS(0.993)PPPGLPS(0.007)K;EKELS(0.999)PPPGLPS(0.001)K;EKELS(0.999)PPPGLPS(0.001)K;EKELS(0.891)PPPGLPS(0.109)K ;;;; 134.14 0.0001985 70220000 39791.1 35528.7 32912 38475.6 39639.2 41959.1 43226.7 41525.1 42486.2 38321.2 TRUE FALSE FALSE 43976.51047 36679.85319 37397.07596 39220.35087 36602.05306 38383.94862 38362.71795 40462.94807 42190.53507 39973.41447 1.100143959 0.917606206 0.9355487 0.981160889 0.915659909 0.960236926 0.959705806 1.012246479 1.055464879 1 15.28675319 -7.255179424 24.99198195 1.047290203 0.953800268 0.614274673 0.035263861 312.2935018 1246789.941 0.00747134 0.009026479 5.56E-08 7.255179424 -0.093489935 EKELSPPPGLPS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 EKELSPPPGLPSK 13 1 H0YHT2;A0A1B0GV47;Q7Z4S6-6;Q7Z4S6-3;Q7Z4S6-5;Q7Z4S6-2;Q7Z4S6;Q7Z4S6-4;H0YIM6;H0YI78 H0YHT2 KIF21A Kinesin-like protein KIF21A 1 0 EKELS(0.174)PPPGLPS(0.826)K 81.565 0.010635 23368000 7329 6450.8 5820.1 6888.4 7930 7611.5 8024.1 7916.5 7656.2 6885.9 TRUE FALSE FALSE 8099.897847 6659.810153 6613.232918 7021.734943 7322.405113 6962.957379 7121.20715 7714.007393 7602.919881 7182.784848 1.127682092 0.927190539 0.920705974 0.977578348 1.01943818 0.969395231 0.991427044 1.073957742 1.058491942 1 12.81032759 -7.255598224 24.99688985 1.060294321 0.981447077 0.344278882 0.05007433 493.6292712 2112458.056 0.010431626 0.012591383 5.55E-08 7.255598224 -0.078847245 EKENLS(ph)Y(ph)DLVPLK ddPTM_HeLa_SAHA_4h_R1 1 EKENLSYDLVPLK 13 1 Q92598-2;Q92598-3;Q92598;A0A0A0MSM0;Q92598-4;R4GN69 Q92598-2 HSPH1 Heat shock protein 105 kDa 2 0 EKENLS(1)Y(1)DLVPLK 84.352 0.013125 5294600 1443.3 1228.5 1446.1 1903.9 1642.2 1535.9 2018.4 1200.6 1472.8 1323.2 TRUE FALSE FALSE 1595.112916 1268.304206 1643.166977 1940.752738 1516.374991 1405.032679 1791.28432 1169.89039 1462.550665 1380.249628 1.155669876 0.9188948 1.190485362 1.406088217 1.098623728 1.017955485 1.297797358 0.847593339 1.059627647 1 10.4307135 -9.54623323 0.667563535 0.972947222 1.12946816 0.036747089 0.157939964 2.606752468 1.474382148 0.254944756 0.031542993 2.84E-10 9.54623323 0.156520938 EKEPGEQASVPLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 EKEPGEQASVPLSPK 15 1 P42858 P42858 HTT Huntingtin 1 0 EKEPGEQASVPLS(1)PK;EKEPGEQASVPLS(1)PK;EKEPGEQASVPLS(1)PK;EKEPGEQAS(0.001)VPLS(0.999)PK ;;; 130.36 0.00016138 156944000 37856 38928.8 36384.3 37233.3 41270.4 41652.3 38471.2 39763.7 34380.4 39580.3 TRUE FALSE FALSE 41837.86777 40190.11866 41342.56292 37954.00436 38108.27087 38103.28971 34142.31933 38746.60213 34141.144 41286.80043 1.013347301 0.973437472 1.001350613 0.919276959 0.92301342 0.922892772 0.826954837 0.938474324 0.82692637 1 15.333393 -6.07253916 1.048499358 1.006014817 0.888449855 0 0.064152849 0.175792141 0.38082313 0.004727077 0.011185936 8.46E-07 6.07253916 -0.117564962 EKEVDGLLTSEPMGS(ph)PVSSK ddPTM_HeLa_SAHA_4h_R1 11 EKEVDGLLTSEPMGSPVSSK 20 1 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 EKEVDGLLTSEPMGS(0.984)PVS(0.013)S(0.003)K;EKEVDGLLT(0.005)S(0.004)EPMGS(0.952)PVS(0.029)S(0.01)K;EKEVDGLLTS(0.003)EPMGS(0.894)PVS(0.075)S(0.028)K;EKEVDGLLTSEPMGS(0.98)PVS(0.016)S(0.005)K;EKEVDGLLTSEPMGS(0.967)PVS(0.026)S(0.006)K;EKEVDGLLTSEPMGS(0.986)PVS(0.012)S(0.002)K;EKEVDGLLTSEPMGS(0.896)PVS(0.084)S(0.02)K;EKEVDGLLTSEPMGS(0.968)PVS(0.025)S(0.007)K;EKEVDGLLTSEPMGS(0.949)PVS(0.038)S(0.013)K;EKEVDGLLTSEPMGS(0.991)PVS(0.006)S(0.002)K;EKEVDGLLTSEPMGS(0.961)PVS(0.029)S(0.009)K ;;;;;;;;;; 162.41 1.17E-06 1045911600 40850.27 43067.73 38283.76 41923.8 44901.1 49589.2 47226.9 42557.14 49209.8 42860.8 TRUE FALSE FALSE 45147.08883 44463.15271 43500.87144 42735.29577 41460.78742 45363.92118 41912.80492 41468.58998 48867.345 44708.73884 1.009804571 0.994506977 0.97298364 0.955860015 0.927353097 1.014654458 0.937463368 0.927527617 1.09301551 1 15.44826923 -6.654949344 2.083197257 1.004594928 0.953856509 0.431952245 0.036402936 0.190281998 1.684817088 0.003753 0.005582578 2.21E-07 6.654949344 -0.050738419 EKFEEMIQQIK ddPTM_HeLa_SAHA_4h_R1 1 EKFEEMIQQIK 11 1 B7ZAR1;E9PCA1;P48643;E7ENZ3;P48643-2 B7ZAR1 CCT5 T-complex protein 1 subunit epsilon 0 0 133.05 0.00029383 1025600 1178.6 1186.4 1045.6 1252 1089.7 1276.3 1036 1006.2 1240 977.47 FALSE FALSE TRUE 1302.570556 1224.840138 1188.088923 1276.23427 1006.207421 1167.55206 919.4265534 980.462861 1231.370739 1019.613515 1.277514015 1.201278838 1.165234577 1.25168434 0.986851789 1.145092765 0.901740257 0.961602456 1.207683814 1 9.993806687 -4.890190666 1.378502869 1.146361853 0.915234588 0.444308252 0.095158032 0.522796286 1.637709644 0.018093942 0.121371723 1.29E-05 4.890190666 -0.231127265 EKFPEFCSSPS(ph)PPVEVK ddPTM_HeLa_SAHA_4h_R1 4 EKFPEFCSSPSPPVEVK 17 1 Q68E01-4;Q68E01-3;Q68E01-2;Q68E01 Q68E01-4 INTS3 Integrator complex subunit 3 1 0 EKFPEFCS(0.001)S(0.059)PS(0.939)PPVEVK;EKFPEFCS(0.019)S(0.367)PS(0.614)PPVEVK;EKFPEFCS(0.001)S(0.003)PS(0.995)PPVEVK;EKFPEFCSS(0.02)PS(0.98)PPVEVK ;;; 115.39 0.00056718 25151700 4010.57 4016.94 3790.67 4571.61 4738.3 5241.35 4921.31 4406.15 4893.78 4412.32 TRUE FALSE FALSE 4432.420154 4147.091492 4307.242767 4660.100122 4375.252478 4794.757493 4367.551247 4293.447063 4859.723787 4602.556709 0.963034338 0.901040825 0.935836979 1.012502489 0.950613486 1.041759569 0.948940235 0.932839579 1.055874831 1 12.16821978 -8.940629517 1.071708258 0.997428078 0.962541238 0.223900424 0.042452554 0.79757001 1.796726694 0.017268965 0.007250701 1.15E-09 8.940629517 -0.034886841 EKGPTTGEGALDLSDVHS(ph)PPKS(ph)PEGK ddPTM_HeLa_SAHA_4h_R1 2 EKGPTTGEGALDLSDVHSPPKSPEGK 26 2 O95684;O95684-2 O95684 FGFR1OP FGFR1 oncogene partner 2 0 EKGPTTGEGALDLS(0.006)DVHS(0.994)PPKS(1)PEGK;EKGPTTGEGALDLS(0.003)DVHS(0.997)PPKS(1)PEGK ; 106.35 8.33E-07 35008000 4402.1 4629.6 3563.6 5454.2 5893.7 6451.3 4769.9 5798.2 5540.7 5792.5 TRUE FALSE FALSE 4865.133076 4779.602078 4049.22885 5559.773928 5442.125979 5901.612946 4233.178298 5649.89044 5502.141818 6042.243023 0.805186593 0.791031089 0.670153258 0.920150664 0.900679757 0.976725518 0.700597159 0.935065077 0.910612466 1 12.5608685 -9.258152678 1.00624206 0.999270456 0.834486018 0.166416719 0.098289879 0.532884846 0.973971814 0.061797934 0.017184293 5.52E-10 9.258152678 -0.164784438 EKGPTTGEGALDLSDVHS(ph)PPKSPEGK ddPTM_HeLa_SAHA_4h_R1 2 EKGPTTGEGALDLSDVHSPPKSPEGK 26 2 O95684;O95684-2 O95684 FGFR1OP FGFR1 oncogene partner 1 0 EKGPTTGEGALDLS(0.026)DVHS(0.81)PPKS(0.164)PEGK;EKGPTTGEGALDLS(0.001)DVHS(0.945)PPKS(0.054)PEGK ; 103.58 7.67E-07 8872000 1422.27 1398.98 1103.79 1356.78 1806.51 2786 1527.85 1610.95 1714.12 1573.23 TRUE FALSE FALSE 1571.870884 1444.30787 1254.208753 1383.042439 1668.095594 2548.617126 1355.932297 1569.744232 1702.191299 1641.059645 0.957838973 0.880106872 0.764267623 0.842774023 1.01647469 1.553031381 0.826254123 0.956543071 1.03725133 1 10.68041196 -5.517150644 24.8863412 0.944123397 1.116937138 0.17120652 0.189499893 349.4330958 1518146.998 0.026979819 0.055363575 3.04E-06 5.517150644 0.172813741 EKGS(ph)PGQNDQELK ddPTM_HeLa_SAHA_4h_R1 4 EKGSPGQNDQELK 13 1 Q3T7B4;Q9H3H1-6;Q9H3H1-3;Q9H3H1-2;Q9H3H1-5;Q9H3H1-4;Q9H3H1 Q3T7B4 TRIT1 "tRNA dimethylallyltransferase, mitochondrial" 1 0 EKGS(1)PGQNDQELK;EKGS(1)PGQNDQELK;EKGS(1)PGQNDQELK;EKGS(1)PGQNDQELK ;;; 105 0.0021054 58178500 12835.3 12952.6 10599.1 11047.7 13004 13504.9 13924.9 12673.5 12758.2 12159.8 TRUE FALSE FALSE 14185.37574 13372.27274 12043.49015 11261.54421 12007.63633 12354.20654 12358.0336 12349.33022 12669.41465 12684.06849 1.118361649 1.054257374 0.949497408 0.887849527 0.946670727 0.973993995 0.974295717 0.973609551 0.998844705 1 13.63072995 -6.765140228 8.403411138 1.05739232 0.949941676 0.547535829 0.040053661 0.072229431 45.27004759 0.008085157 0.010976657 1.72E-07 6.765140228 -0.107450644 EKGSETDS(ph)AQDQPVK ddPTM_HeLa_SAHA_4h_R1 1 EKGSETDSAQDQPVK 15 1 K7EN42;B7Z8J4;P30419 K7EN42 NMT1 Glycylpeptide N-tetradecanoyltransferase 1 1 0 EKGSET(0.002)DS(0.998)AQDQPVK 81.51 0.008417 4593500 1679.6 1849.7 1323.6 1608.9 1934.7 2216.6 1711.5 2084.9 1991.8 1927 TRUE FALSE FALSE 1856.268034 1909.631494 1503.973315 1640.042586 1786.463704 2027.73321 1518.917516 2031.571277 1977.938902 2010.082401 0.923478577 0.950026473 0.748214757 0.815908137 0.888751478 1.008781137 0.755649378 1.010690545 0.984008865 1 10.97303893 -7.997846295 0.85617391 0.986279605 0.876254339 0.194524488 0.08726366 0.567955174 0.898551349 0.026010179 0.019680631 1.00E-08 7.997846295 -0.110025266 EKGSFS(ph)DTGLGDGK ddPTM_HeLa_SAHA_4h_R1 2 EKGSFSDTGLGDGK 14 1 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 EKGS(0.021)FS(0.603)DT(0.376)GLGDGK;EKGS(0.006)FS(0.988)DT(0.006)GLGDGK ; 115.2 0.00082409 45610000 6206.7 5790.6 5019.8 6498.5 7191.7 9457.8 8507.9 8723.3 7252.1 7307.4 TRUE FALSE FALSE 6859.549183 5978.219239 5703.872202 6624.287864 6640.6735 8651.942232 7550.5687 8500.170617 7201.632046 7622.457776 0.899913044 0.78429024 0.748298301 0.869048811 0.871198463 1.135059385 0.99056878 1.115148272 0.944791333 1 12.89604054 -5.266516585 24.93797398 0.91189576 1.071289811 0.537505565 0.082482427 343.2065052 1685749.688 0.014398926 0.033141144 5.41E-06 5.266516585 0.15939405 EKKEESHSNDQS(ph)PQIR ddPTM_HeLa_SAHA_4h_R1 2 EKKEESHSNDQSPQIR 16 2 B5MBZ0;Q9HC35 B5MBZ0 EML4 Echinoderm microtubule-associated protein-like 4 1 0 EKKEES(0.018)HS(0.023)NDQS(0.959)PQIR;EKKEESHS(0.002)NDQS(0.998)PQIR ; 66.606 0.010861 5558700 1575.91 1648.8 1660.15 1920.91 2116.29 1811.44 1986.99 2307.15 1659.91 1977.85 TRUE FALSE FALSE 1741.671444 1702.222202 1886.386596 1958.091991 1954.140317 1657.095121 1763.408656 2248.136444 1648.358551 2063.124793 0.84419103 0.825069917 0.914334704 0.949090427 0.947175044 0.803196746 0.854727093 1.089675453 0.798962117 1 11.01061537 -9.500650274 1.279593032 0.999363878 0.893086122 0 0.099993913 0.575219009 1.701447337 0.052354934 0.013018638 3.16E-10 9.500650274 -0.106277756 EKLEMEMEAAR ddPTM_HeLa_SAHA_4h_R1 1 EKLEMEMEAAR 11 1 Q15233;Q15233-2;C9JYS8;H7C367 Q15233 NONO Non-POU domain-containing octamer-binding protein 0 0 110.64 0.006079 4552000 3005.2 2890.6 3374.2 4086.5 3376.2 4076.7 4607.2 3720.9 4069.4 3337.2 FALSE FALSE TRUE 3321.300724 2984.257337 3834.018404 4165.600117 3117.516285 3729.342225 4088.785731 3625.724766 4041.080714 3481.083024 0.954099831 0.857278415 1.10138666 1.196639117 0.895559303 1.071316656 1.174572885 1.041550788 1.160868812 1 11.76532051 -6.722322682 24.99859518 0.96864071 1.080962073 0.12662366 0.104465254 152.5751386 97506.97515 0.013251992 0.018740965 1.90E-07 6.722322682 0.112321363 EKLQEEGGGS(ph)DEEETGS(ph)PSEDGMQSAR ddPTM_HeLa_SAHA_4h_R1 1 EKLQEEGGGSDEEETGSPSEDGMQSAR 27 1 Q13610-2;Q13610 Q13610-2 PWP1 Periodic tryptophan protein 1 homolog 2 0 EKLQEEGGGS(1)DEEET(0.139)GS(0.838)PS(0.021)EDGMQS(0.002)AR 94.595 4.17E-05 4771100 882.08 602.02 445.51 591.76 630.27 841.85 896.79 646.63 707.79 716.68 TRUE FALSE FALSE 974.8612215 621.525843 506.2217827 603.2143705 581.9788488 770.1196439 795.880829 630.0901409 702.8644318 747.5795821 1.304023337 0.831384187 0.677147684 0.806889841 0.778484141 1.030150719 1.064610174 0.842840222 0.940186769 1 9.546083357 -7.244026992 24.69320253 1.143566577 0.863530887 0.307158554 0.142322706 518.682896 735565.4461 0.026715101 0.032676111 5.70E-08 7.244026992 -0.28003569 EKLQEEGGGS(ph)DEEETGSPSEDGMQSAR ddPTM_HeLa_SAHA_4h_R1 5 EKLQEEGGGSDEEETGSPSEDGMQSAR 27 1 Q13610-2;Q13610 Q13610-2 PWP1 Periodic tryptophan protein 1 homolog 1 0 EKLQEEGGGS(0.837)DEEET(0.144)GS(0.006)PS(0.012)EDGMQS(0.001)AR;EKLQEEGGGS(0.997)DEEET(0.002)GS(0.001)PSEDGMQSAR;EKLQEEGGGS(0.998)DEEET(0.002)GSPSEDGMQSAR;EKLQEEGGGS(0.964)DEEET(0.035)GS(0.001)PSEDGMQSAR;EKLQEEGGGS(1)DEEETGSPSEDGMQSAR ;;;; 154.17 2.38E-10 294530900 6341.59 5983.09 5765.63 6111.15 6367.54 6162.23 6809.84 6428.97 5739.18 5411.75 TRUE FALSE FALSE 7008.627532 6176.946042 6551.34003 6229.440145 5879.660461 5637.173336 6043.578881 6264.526256 5699.240579 5645.077027 1.241546838 1.094218203 1.160540414 1.103517298 1.0415554 0.998599897 1.070592811 1.109732644 1.00959483 1 12.46277755 -5.858888198 5.068222399 1.118807419 1.052383212 0.066053507 0.070807749 0.392901814 16.47015609 0.013817431 0.025574037 1.38E-06 5.858888198 -0.066424207 EKLQEEMLQR ddPTM_HeLa_SAHA_4h_R1 1 EKLQEEMLQR 10 1 P08670;B0YJC4 P08670 VIM Vimentin 0 0 106.68 0.0062073 40515000 2980.3 3348.2 3500.3 3947.4 4038.7 4193.4 4158.6 3628.7 4297.9 4226.9 FALSE FALSE TRUE 3293.781628 3456.683877 3977.302655 4023.807635 3729.255679 3836.098729 3690.663383 3535.883108 4267.990564 4409.142345 0.747034541 0.783981012 0.90205812 0.912605518 0.845800699 0.870032861 0.83704791 0.801943515 0.967986567 1 12.10628234 -9.527790496 1.301319244 0.999509494 0.830499755 0.58079742 0.049337846 0.273102686 0.831956307 0.040345329 0.009775503 2.97E-10 9.527790496 -0.169009739 EKLQEEMLQREEAENTLQSFR ddPTM_HeLa_SAHA_4h_R1 1 EKLQEEMLQREEAENTLQSFR 21 2 P08670;B0YJC4 P08670 VIM Vimentin 0 0 54.834 0.012478 3600800 383.62 209.15 436.86 396.88 436.61 384.42 533.42 534.89 310.71 347.75 FALSE FALSE TRUE 423.9709117 215.9265972 496.3930057 404.5621863 403.1570361 351.6652533 473.3981777 521.2082883 308.5477438 362.7432043 1.168790777 0.595260213 1.368441916 1.115285363 1.111411685 0.969460624 1.305050438 1.436851971 0.850595518 1 8.502804777 -4.601230186 4.582276005 1.066571228 1.409709977 0.322338168 0.197578068 0.16451654 6.210795653 0.024398805 0.102432856 2.50E-05 4.601230186 0.343138748 EKLQSFDS(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 EKLQSFDSPER 11 1 E9PGM9;P78332;P78332-2 E9PGM9 RBM6 RNA-binding protein 6 1 0 EKLQS(0.005)FDS(0.995)PER 102.9 0.0037038 37655000 4698.3 4428.2 4489.7 4790.8 4646.6 5283.5 5251.2 4893.6 5011 4884.8 TRUE FALSE FALSE 5192.488751 4571.676585 5101.532935 4883.532862 4290.578512 4833.316076 4660.321156 4768.428798 4976.128043 5095.407634 1.019052669 0.897215083 1.001202122 0.958418484 0.842048138 0.948563181 0.914612037 0.935828719 0.976590766 1 12.31498185 -6.848265135 0.942888186 1.009241642 0.917629427 0.298918222 0.043150717 0.333061364 0.589103883 0.00840211 0.012571778 1.42E-07 6.848265135 -0.091612214 EKPDS(ph)DDDLDIASLVTAK ddPTM_HeLa_SAHA_4h_R1 2 EKPDSDDDLDIASLVTAK 18 1 Q86V48-2;Q86V48-3;Q86V48 Q86V48-2 LUZP1 Leucine zipper protein 1 1 0 EKPDS(1)DDDLDIASLVTAK;EKPDS(1)DDDLDIASLVTAK ; 126.45 0.00015817 31751000 7504.5 8746.6 8055.7 8547.6 9356.5 9412.8 9175.5 9368.4 9302.1 7787 TRUE FALSE FALSE 8293.857742 9029.995579 9153.488844 8713.051158 8639.606991 8610.776485 8143.048591 9128.769893 9237.365929 8122.735679 1.021067048 1.111693884 1.126897292 1.072674466 1.063632664 1.060083305 1.002500748 1.123854112 1.137223504 1 12.98774998 -7.410565932 5.564592614 1.009132303 1.077177796 0 0.053320869 0.157826357 6.686280779 0.006145998 0.00697675 3.89E-08 7.410565932 0.068045492 EKPELSEPSHLNGPS(ph)SDPEAAFLSR ddPTM_HeLa_SAHA_4h_R1 1 EKPELSEPSHLNGPSSDPEAAFLSR 25 1 F5GWT4;Q9H4A3-2;Q9H4A3;Q9H4A3-5;Q9H4A3-6;Q9H4A3-7;Q9H4A3-4 F5GWT4 WNK1 Serine/threonine-protein kinase WNK1 1 0 EKPELSEPS(0.001)HLNGPS(0.5)S(0.5)DPEAAFLSR 105.75 1.44E-06 26245000 724.98 816.49 564.87 754.92 922.51 1191.2 957.17 1074.8 1182.2 843.2 TRUE FALSE FALSE 801.2367227 842.9448117 641.8475419 769.5325682 851.8274831 1089.703058 849.4667125 1047.308172 1173.972974 879.5544785 0.91095747 0.958377033 0.729741656 0.874911773 0.968476091 1.238926167 0.965792038 1.190725757 1.33473594 1 9.780629129 -5.442316053 7.690476818 0.932355932 1.114527996 0.157223819 0.159811111 0.223358444 19.08706898 0.014218634 0.031856228 3.61E-06 5.442316053 0.182172064 EKPELSEPSHLNGPSS(ph)DPEAAFLSR ddPTM_HeLa_SAHA_4h_R1 4 EKPELSEPSHLNGPSSDPEAAFLSR 25 1 F5GWT4;Q9H4A3-2;Q9H4A3;Q9H4A3-5;Q9H4A3-6;Q9H4A3-7;Q9H4A3-4 F5GWT4 WNK1 Serine/threonine-protein kinase WNK1 1 0 EKPELSEPSHLNGPS(0.248)S(0.748)DPEAAFLS(0.004)R;EKPELSEPSHLNGPS(0.261)S(0.739)DPEAAFLSR;EKPELSEPSHLNGPS(0.107)S(0.893)DPEAAFLSR;EKPELSEPSHLNGPS(0.433)S(0.567)DPEAAFLSR ;;; 149.91 7.94E-10 146200000 6796.4 8866.1 5148.56 8353.1 11272.8 13484.7 9350.3 10358.6 10386.4 8933.8 TRUE FALSE FALSE 7511.276535 9153.367457 5850.178944 8514.786329 10409.0805 12335.7277 8298.179635 10093.64201 10314.1202 9318.979839 0.806019185 0.982228486 0.627770319 0.913703697 1.116976394 1.323720827 0.890460091 1.083127358 1.106786405 1 13.18595631 -5.789656981 6.472581466 0.888913063 1.104368512 0.278588407 0.154413287 0.153533695 20.57288782 0.021417404 0.039863292 1.62E-06 5.789656981 0.215455449 EKPS(ph)S(ph)PS(ph)SGK ddPTM_HeLa_SAHA_4h_R1 1 EKPSSPSSGK 10 1 Q8TDV0 Q8TDV0 GPR151 Probable G-protein coupled receptor 151 3 0 EKPS(1)S(1)PS(0.552)S(0.448)GK 74.76 0.0062158 0 431.03 551.17 796.19 1419.7 787.22 1706.7 864.65 716.47 1473.1 1551.3 TRUE FALSE FALSE 476.367713 569.0282696 904.6906268 1447.180346 726.9033737 1561.279558 767.3573064 698.1437348 1462.848577 1618.184135 0.29438412 0.35164618 0.559077677 0.894323653 0.449209307 0.964834301 0.474208892 0.431436522 0.904006253 1 10.66016007 -9.536444048 1.322935661 0.997883071 0.532095021 0.365493361 0.20854636 0.3694094 1.166226156 0.151929695 0.036914875 2.91E-10 9.536444048 -0.46578805 EKPYFPIPEEYTFIQNVPLEDR ddPTM_HeLa_SAHA_4h_R1 1 EKPYFPIPEEYTFIQNVPLEDR 22 1 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;Q5RI18;A0A1W2PP34;A0A1W2PPH7;A0A1W2PPL4;A0A1W2PQL0;A0A1W2PQ74;A0A1W2PRZ7 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 0 66.732 0.007128 87845000 844.65 763.64 807.46 763.39 523.8 1028.4 990.88 623.61 911.26 683.06 FALSE FALSE TRUE 933.4941624 788.382437 917.4964437 778.1665173 483.6665572 940.7745344 879.3835745 607.6589592 904.9184675 712.5100594 1.310148748 1.106486044 1.287696127 1.092148114 0.678820672 1.32036667 1.234205136 0.852842639 1.270043076 1 9.476766572 -6.002835286 24.99971119 1.15764249 1.036515412 0.141335449 0.190159963 256.3326907 2260223.417 0.029762944 0.053239076 9.93E-07 6.002835286 -0.121127078 EKQEASES(ph)PVK ddPTM_HeLa_SAHA_4h_R1 3 EKQEASESPVK 11 1 Q01167-2;Q01167;E9PPI7;Q01167-3 Q01167-2 FOXK2 Forkhead box protein K2 1 0 EKQEAS(0.013)ES(0.987)PVK;EKQEAS(0.023)ES(0.977)PVK;EKQEAS(0.004)ES(0.996)PVK ;; 159.52 0.00097415 19251500 2150.33 2077.25 1426.04 2297.34 2196.39 2575.78 2500.57 2071.09 2760.46 2410.81 TRUE FALSE FALSE 2376.511575 2144.554263 1620.373305 2341.808338 2028.103073 2356.309053 2219.199282 2018.114517 2741.249734 2514.751817 0.945028276 0.852789626 0.644347205 0.931228411 0.806482397 0.936994672 0.882472484 0.802510412 1.090067702 1 11.29620031 -7.354449448 3.090437485 0.976919646 0.837089074 0.456042167 0.085843856 0.191652861 3.413981259 0.013792939 0.015774491 4.42E-08 7.354449448 -0.139830572 EKQIESSDYDSSSSK(ac)GK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EKQIESSDYDSSSSKGKK 18 3 Q9UNL4-8;Q9UNL4-3;Q9UNL4;Q9UNL4-6;Q9UNL4-2 Q9UNL4-8;Q9UNL4-2 ING4 Inhibitor of growth protein 4 0 2 ; EKQIESSDYDSSSSK(1)GK(1)K;EKQIESSDYDSSSSK(1)GK(1)K 271.73 1.25E-101 38673000 5803.35 5336.39 6290.26 7088.2 7847.4 9408.2 9471 9259.7 4543.88 4871.03 FALSE TRUE FALSE 6413.77298 5509.292537 7147.463875 7225.402361 7246.133907 8606.568431 8405.298154 9022.850282 4512.258769 5081.043942 1.262294334 1.084283584 1.406692002 1.422031072 1.426111246 1.693858296 1.654246303 1.775786706 0.888057419 1 12.31090923 -1 0.151365648 0.913043783 4.293983555 0.897576127 0.091599876 13.58083774 0.132531196 0.17318379 10.1470157 0.1 1 3.380939771 EKQS(ph)DDEVYAPGLDIESSLK ddPTM_HeLa_SAHA_4h_R1 2 EKQSDDEVYAPGLDIESSLK 20 1 Q15459;Q15459-2 Q15459 SF3A1 Splicing factor 3A subunit 1 1 0 EKQS(1)DDEVYAPGLDIESSLK;EKQS(1)DDEVYAPGLDIESSLK ; 153.65 1.04E-05 95539000 10586.8 11050.4 10944.3 9546.8 11697.4 12616.4 12129.5 11039.3 10511.1 10888.1 TRUE FALSE FALSE 11700.3682 11408.44021 12435.73221 9731.592119 10801.14774 11541.41174 10764.65674 10756.93069 10437.9524 11357.53928 1.030185141 1.004481687 1.094931913 0.856839838 0.95101126 1.016189463 0.947798328 0.947118071 0.919032912 1 13.47136267 -6.269375278 24.99929331 1.019228521 0.948437218 0.259181618 0.054283187 473.030771 1490117.253 0.006671914 0.010302719 5.38E-07 6.269375278 -0.070791303 EKS(ph)PVREPVDNLSPEER ddPTM_HeLa_SAHA_4h_R1 2 EKSPVREPVDNLSPEER 17 2 Q86U06-3;Q86U06-5;Q86U06-2;Q86U06 Q86U06-3 RBM23 Probable RNA-binding protein 23 1 0 EKS(0.746)PVREPVDNLS(0.254)PEER;EKS(0.961)PVREPVDNLS(0.039)PEER ; 79.471 0.007125 85232000 2636.65 2584.7 2396.39 2203.99 2846.16 2912.78 2559.53 2215.09 2951.1 2481.56 TRUE FALSE FALSE 2913.984944 2668.445976 2722.957549 2246.651413 2628.087836 2664.594757 2271.524948 2158.431205 2930.563055 2588.552196 1.125719987 1.030864272 1.051922984 0.867918142 1.015273263 1.029376484 0.877527195 0.833837235 1.132124382 1 11.33792969 -6.320740812 9.682713286 1.057845015 0.93304143 0.515618397 0.068875859 0.41761909 66.58784912 0.01152643 0.017620868 4.78E-07 6.320740812 -0.124803585 EKT(ph)PELPEPSVK ddPTM_HeLa_SAHA_4h_R1 6 EKTPELPEPSVK 12 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 EKT(1)PELPEPSVK;EKT(0.999)PELPEPS(0.001)VK;EKT(0.999)PELPEPS(0.001)VK;EKT(1)PELPEPSVK;EKT(0.998)PELPEPS(0.002)VK;EKT(1)PELPEPSVK ;;;;; 103.13 0.0051246 4215940700 30371.4 34575.9 27669.2 31701 31575.5 35240.9 33039.8 32795.3 33464.3 30383.9 TRUE FALSE FALSE 33566.0032 35696.18185 31439.81448 32314.6187 29156.19201 32238.17706 29322.07475 31956.44371 33231.41921 31693.89862 1.059068296 1.126279297 0.991983184 1.019584844 0.919930753 1.017172972 0.925164654 1.008283774 1.048511564 1 14.95191751 -6.11172099 2.442632667 1.035573889 0.968888684 0.372371304 0.045693594 0.284333436 3.319197872 0.007285695 0.013161728 7.73E-07 6.11172099 -0.066685206 EKTMS(ph)SDDEDCSAK ddPTM_HeLa_SAHA_4h_R1 2 EKTMSSDDEDCSAK 14 1 H0YBW3;Q9NVR2 H0YBW3 INTS10 Integrator complex subunit 10 1 0 EKT(0.036)MS(0.482)S(0.482)DDEDCSAK;EKTMS(0.928)S(0.072)DDEDCSAK ; 110.12 0.001352 13559300 2522 2285.4 2034.51 2481.6 2626.9 3094.9 2540.1 3050.4 2453.3 2390.7 TRUE FALSE FALSE 2787.275531 2359.44846 2311.762428 2529.634956 2425.62749 2831.197109 2254.281263 2972.375185 2436.227286 2493.774777 1.117693369 0.946135345 0.927013317 1.014379879 0.972673039 1.135305856 0.903963455 1.191918056 0.976923541 1 11.28411546 -13.26162701 13.6974464 0.286365865 1.03581435 0 0.09350551 0 0 0 0.011810754 5.47E-14 13.26162701 0.749448484 EKTPELPEPS(ph)VK ddPTM_HeLa_SAHA_4h_R1 1 EKTPELPEPSVK 12 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 EKT(0.398)PELPEPS(0.602)VK 146.67 0.0020363 105360000 3528.8 2733.4 2348.7 3082.3 3248.9 3345.1 2922.4 2681.3 3372.7 3112.6 TRUE FALSE FALSE 3899.975375 2821.963953 2668.768604 3141.962374 2999.969984 3060.078661 2593.563861 2612.716228 3349.229106 3246.799419 1.201175334 0.869152537 0.821969041 0.967710649 0.923977615 0.942490824 0.798806309 0.804705155 1.031547895 1 11.66480254 -7.24454824 24.74484221 1.094999462 0.878515018 0.612877675 0.073161748 394.896783 578508.3416 0.015316963 0.018731891 5.69E-08 7.24454824 -0.216484444 EKTPSPKEEDEEPES(ph)PPEK ddPTM_HeLa_SAHA_4h_R1 4 EKTPSPKEEDEEPESPPEK 19 2 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 EKT(0.005)PS(0.01)PKEEDEEPES(0.985)PPEK;EKT(0.004)PS(0.002)PKEEDEEPES(0.994)PPEK;EKT(0.003)PSPKEEDEEPES(0.997)PPEK;EKT(0.005)PS(0.001)PKEEDEEPES(0.995)PPEK ;;; 70.897 0.003845 212067000 14233.22 14114.3 13703.2 13858.4 15256.6 16511.8 16414.6 17221.3 15288.7 13704.9 TRUE FALSE FALSE 15730.33538 14571.61258 15570.60073 14126.64937 14087.6426 15104.90175 14567.58601 16780.80408 15182.30469 14295.78531 1.100347763 1.019294307 1.089174214 0.988168825 0.985440275 1.05659825 1.019012645 1.17382877 1.06201264 1 13.80330225 -4.255771266 24.63750595 1.040300019 1.17382884 0.531687705 0.038700422 373.5674482 1623719.426 0.006319062 0.073586929 5.55E-05 4.255771266 0.133528822 EKTPSPKEEDEEPES(ph)PPEKK ddPTM_HeLa_SAHA_4h_R1 2 EKTPSPKEEDEEPESPPEKK 20 3 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 EKTPSPKEEDEEPES(1)PPEKK;EKTPSPKEEDEEPES(1)PPEKK ; 51.469 0.014109 169196000 3054.34 2893.75 3595.01 3093.06 3703.1 3680.5 3577.2 3117.43 3146.51 2773.08 TRUE FALSE FALSE 3375.609495 2987.509399 4084.919241 3152.930649 3419.369278 3366.900694 3174.684041 3037.690655 3124.613181 2892.64105 1.166964527 1.032796447 1.412176337 1.089983373 1.182092496 1.163953853 1.097503626 1.05014435 1.080193887 1 11.49817159 -9.213313682 0.793206152 0.99270816 1.153622538 0.13504619 0.103003079 0.801191573 0.842716325 0.081378856 0.019078586 6.12E-10 9.213313682 0.160914379 EKTVTDVSTIDGNAAELVSGRPVSDTTEPSS(ph)PEGK ddPTM_HeLa_SAHA_4h_R1 1 EKTVTDVSTIDGNAAELVSGRPVSDTTEPSSPEGK 35 2 C9JA33;B1ALY0;Q8IXS6;Q8IXS6-2 C9JA33 PALM2;PALM2-AKAP2 Paralemmin-2 1 0 EKTVTDVS(0.005)T(0.005)IDGNAAELVS(0.025)GRPVS(0.075)DT(0.075)T(0.075)EPS(0.301)S(0.436)PEGK 40.451 0.01769 7092800 1665.8 1766.3 1848.4 1645 1922.1 2419.3 2132.7 1752.7 2199.2 2019.9 TRUE FALSE FALSE 1841.016487 1823.529279 2100.290326 1676.841354 1774.829113 2213.162029 1892.722983 1707.868472 2183.895588 2106.987774 0.873767048 0.865467423 0.996821316 0.79584769 0.842353779 1.050391491 0.89830753 0.810573508 1.03650131 1 11.04096623 -9.312477042 0.924593966 1.003185316 0.893765807 0.298938587 0.075720713 0.755054759 1.103142104 0.057629522 0.013693702 4.87E-10 9.312477042 -0.109419509 EKVEEK(ac)ASR ddPTM_HeLa_SAHA_4h_R1 2 EKVEEKASR 9 2 P20962;F5H7R9;F5GXR3 P20962 PTMS Parathymosin 0 1 ; EKVEEK(1)ASR;EKVEEK(1)ASR 94.363 0.0071629 11147700 5087.7 5673.6 5956.8 7186.2 7657.9 8656.9 8156.9 8235.9 5943.4 4407.9 FALSE TRUE FALSE 5622.847629 5857.428363 6768.561682 7325.299292 7071.153356 7919.283418 7239.064144 8025.237603 5902.039395 4597.946141 1.222904196 1.273922787 1.472083725 1.593167703 1.537893907 1.722352367 1.574412558 1.745396174 1.28362517 1 12.16677385 -6.854641313 0.461030718 1.020026585 1.729627406 0.8124554 0.098547401 0.14406155 0.070177434 0.022971695 0.038945855 1.40E-07 6.854641313 0.709600821 EKVEPEVLSTDT(ph)QTSPEPGTR ddPTM_HeLa_SAHA_4h_R1 1 EKVEPEVLSTDTQTSPEPGTR 21 1 P29375-2;P29375 P29375-2 KDM5A Lysine-specific demethylase 5A 1 0 EKVEPEVLST(0.003)DT(0.469)QT(0.469)S(0.053)PEPGT(0.006)R 136.37 6.59E-06 4203400 1240.6 1205.9 945.8 1243.8 1606.4 1859.2 1773.2 1602 1258.9 1487.6 TRUE FALSE FALSE 1371.092 1244.971951 1074.688698 1267.875548 1483.317979 1700.7857 1573.674869 1561.02316 1250.139212 1551.737716 0.883584891 0.802308237 0.692571101 0.817068203 0.955907666 1.096052305 1.014137153 1.0059839 0.805638221 1 10.59966901 -5.515762643 23.23410021 0.902164512 1.034551469 0.406620521 0.092407559 145.8639842 476243.646 0.016020817 0.033160612 3.05E-06 5.515762643 0.132386957 EKVIET(ph)PENDFK ddPTM_HeLa_SAHA_4h_R1 2 EKVIETPENDFK 12 1 A0A024QZ33;Q9H0G5 A0A024QZ33 CCDC55;NSRP1 Nuclear speckle splicing regulatory protein 1 1 0 EKVIET(1)PENDFK;EKVIET(1)PENDFK ; 164.7 0.0062397 28577000 7919.4 7635.9 6622 7446.9 7630.3 8438.9 9135.1 8261.6 8552.1 7404.1 TRUE FALSE FALSE 8752.398828 7883.30817 7524.411674 7591.045518 7045.668062 7719.858244 8107.194506 8050.280235 8492.58524 7723.326986 1.13324204 1.020714024 0.974244867 0.982872476 0.91225816 0.999550875 1.049702352 1.042333213 1.099601927 1 12.91500674 -7.007786492 23.61521557 1.063659758 0.992592844 0.372447403 0.047806807 202.1333515 613042.8967 0.010062679 0.012898116 9.82E-08 7.007786492 -0.071066913 EKVSS(ph)IDLEIDSLSSLLDDMTK ddPTM_HeLa_SAHA_4h_R1 1 EKVSSIDLEIDSLSSLLDDMTK 22 1 Q15942;H7C3R3;C9IZ41 Q15942 ZYX Zyxin 1 0 EKVS(0.15)S(0.85)IDLEIDSLSSLLDDMTK 108.13 6.45E-05 582980 141.8 156.22 0 379.45 233.78 267.71 213.52 195.76 279.37 163.13 TRUE FALSE FALSE 156.7151746 161.2816305 0 386.7948034 215.8678269 244.8996019 189.4941676 190.7527427 277.4258414 170.1633326 0.920969119 0.947804841 0 2.27307962 1.268591908 1.439203136 1.113601648 1.120997924 1.630350306 1 7.410776384 -6.258994471 24.99952269 0.894742364 1.414878803 0.242508682 0.478737943 220.0378883 2249913.708 0.060984887 0.098095949 5.51E-07 6.258994471 0.520136438 EKY(ph)HT(ph)Y(ph)AS(ph)TGK ddPTM_HeLa_SAHA_4h_R1 1 EKYHTYASTGK 11 1 A0A0C4DH27 A0A0C4DH27 TRGV8 4 0 EKY(0.999)HT(0.998)Y(0.907)AS(0.583)T(0.513)GK 41.621 0.021461 668420 190.25 191.84 267.53 195.87 213.07 282.95 302.06 260.53 388.38 238.49 TRUE FALSE FALSE 210.2613679 198.0557419 303.9875952 199.6613471 196.7446226 258.8410682 268.0714138 253.8660198 385.677232 248.772471 0.845195479 0.796132068 1.221950298 0.802586179 0.790861713 1.040473116 1.077576682 1.020474728 1.550321184 1 7.958683037 -5.042676121 24.27749953 0.920372437 1.051525569 0 0.233987579 415.9881739 236646.4444 0.017576736 0.044817322 9.06E-06 5.042676121 0.131153132 EKYIDQEELNK ddPTM_HeLa_SAHA_4h_R1 3 EKYIDQEELNK 11 1 P07900;P07900-2;Q14568;P08238;Q58FF8 P07900;P08238;Q58FF8 HSP90AA1;HSP90AA2P;HSP90AB1;HSP90AB2P Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-alpha A2;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta 2 0 0 ;; ;; 199.82 2.37E-11 60958000 10957.4 11456 11343.2 11673 12481.9 12116.2 11571.8 12897.8 11020 11246.8 FALSE FALSE TRUE 12109.94961 11827.18192 12888.99222 11898.94779 11525.53952 11083.8316 10269.71061 12567.89295 10943.31092 11731.70459 1.032241267 1.008138402 1.098646162 1.014255661 0.982426674 0.944775886 0.875380942 1.071275948 0.932798029 1 13.51812503 -5.619190547 3.231262312 1.021917521 0.955850449 0.121100302 0.05881947 0.253496979 5.264283426 0.007201452 0.015454656 2.40E-06 5.619190547 -0.066067072 ELAAHWAAHT(ph)DVK ddPTM_HeLa_SAHA_4h_R1 1 ELAAHWAAHTDVK 13 0 Q96SL8 Q96SL8 FIZ1 Flt3-interacting zinc finger protein 1 1 0 ELAAHWAAHT(1)DVK 105.2 0.0061222 3578300 985.52 1088.7 872.79 882.04 831.15 1275.9 1206 1212.3 963.2 966.08 TRUE FALSE FALSE 1089.181515 1123.974594 991.7292759 899.1131597 767.4674666 1167.186142 1070.297706 1181.291121 956.4970128 1007.732437 1.080824111 1.115350219 0.984119633 0.89221417 0.761578608 1.1582302 1.062085199 1.172226951 0.949157711 1 9.976896924 ELAEDGYSGVEVR ddPTM_HeLa_SAHA_4h_R1 6 ELAEDGYSGVEVR 13 0 E9PPU1;P23396;F2Z2S8;H0YCJ7;E9PL09;P23396-2;E9PQ96;E9PJH4;E9PK82;H0YF32;H0YEU2 E9PPU1 RPS3 40S ribosomal protein S3 0 0 ;;;;; ;;;;; 237.53 2.07E-23 44576500 3336.07 3025.03 2888.01 3127.53 3204.47 4009.43 3394.24 3234.84 3571.99 3154.52 FALSE FALSE TRUE 3686.973149 3123.042957 3281.572963 3188.067866 2958.944201 3667.804008 3012.311182 3152.097477 3547.132231 3290.526795 1.12048112 0.949101208 0.997278906 0.968862454 0.899231152 1.114655566 0.915449522 0.957930955 1.077983087 1 11.68410285 -7.243504723 24.81903563 1.056893864 0.973192571 0.326867165 0.061606455 775.3215184 1072936.865 0.011154836 0.013644505 5.71E-08 7.243504723 -0.083701293 ELAEQELEK ddPTM_HeLa_SAHA_4h_R1 1 ELAEQELEK 9 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 142.98 3.95E-05 0 1194.5 1133.7 949.29 980.02 1235.4 1146.5 1148.2 1305.9 1061.8 888.39 FALSE FALSE TRUE 1320.142991 1170.432624 1078.654298 998.9897042 1140.743919 1048.81175 1019.001514 1272.496969 1054.410847 926.6928406 1.424574501 1.263021114 1.163982552 1.078015995 1.230983848 1.131779274 1.099610863 1.373159383 1.137821294 1 9.855947416 ELAPAWEDT(ph)SPEQDNRYWR ddPTM_HeLa_SAHA_4h_R1 1 ELAPAWEDTSPEQDNRYWR 19 1 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 ELAPAWEDT(0.5)S(0.5)PEQDNRYWR 72.801 0.0093639 6202300 911.6 800.67 1043.9 987.68 920.41 1198.5 1293.7 905.25 705.5 1073.7 TRUE FALSE FALSE 1007.486271 826.6122333 1186.157256 1006.797975 849.8883846 1096.381057 1148.129471 882.0950158 700.5903681 1119.992462 0.899547368 0.738051605 1.059076107 0.898932814 0.758834022 0.978918247 1.025122499 0.787590137 0.625531325 1 10.12927331 -8.983932155 0.940197122 0.99635101 0.898158025 0 0.155291243 0.879935452 1.484961577 0.053102215 0.019214119 1.04E-09 8.983932155 -0.098192985 ELAPAWEDTS(ph)PEQDNR ddPTM_HeLa_SAHA_4h_R1 2 ELAPAWEDTSPEQDNR 16 0 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 ELAPAWEDT(0.036)S(0.964)PEQDNR;ELAPAWEDT(0.054)S(0.946)PEQDNR ; 178.85 3.02E-09 22693000 4029.8 5417.7 3783.3 5258.2 5412.7 6722.6 5643.7 5459.2 7384.2 5036.7 TRUE FALSE FALSE 4453.672853 5593.237035 4298.868421 5359.980064 4997.980095 6149.79666 5008.656023 5319.561569 7332.812751 5253.856786 0.847695899 1.064596403 0.818230987 1.020199119 0.951297361 1.170529938 0.953329378 1.012506009 1.39570092 1 12.35916116 -5.842461476 2.254840581 0.931552547 1.033074315 0 0.17085346 0.374384555 3.875404885 0.013765052 0.028414281 1.44E-06 5.842461476 0.101521767 ELAPYDENWFYTR ddPTM_HeLa_SAHA_4h_R1 2 ELAPYDENWFYTR 13 0 P39019;M0R2L9;M0QYF7;M0R140 P39019 RPS19 40S ribosomal protein S19 0 0 ; ; 196.27 2.48E-07 88665000 1360.88 1066.37 849.4 1172.07 1015.83 1489.13 1319.51 967.79 1503.31 1437.71 FALSE FALSE TRUE 1504.023602 1100.921088 965.1518085 1194.75711 937.9973249 1362.247746 1171.035262 943.0353331 1492.848343 1499.696714 1.002885176 0.734095819 0.643564662 0.796665818 0.625458012 0.908348824 0.780848055 0.628817363 0.995433496 1 10.55045506 -7.26134894 24.92531179 1.001362383 0.734933969 0.69079651 0.082234868 2.974719466 819878.97 0.013137117 0.015544414 5.48E-08 7.26134894 -0.266428413 ELAVQIQK ddPTM_HeLa_SAHA_4h_R1 2 ELAVQIQK 8 0 P38919 P38919 EIF4A3 "Eukaryotic initiation factor 4A-III;Eukaryotic initiation factor 4A-III, N-terminally processed" 0 0 ; ; 148.38 5.96E-05 3340600 4000.8 5003 4486 3942.4 4576.6 4595 5025.8 4376.4 3523.1 3730.6 FALSE FALSE TRUE 4421.6225 5165.100483 5097.328718 4018.710853 4225.941897 4203.480149 4460.283757 4264.458025 3498.58246 3891.444423 1.136241976 1.327296479 1.309880899 1.032704162 1.08595715 1.080185066 1.146176913 1.095854794 0.899044694 1 11.92609004 -8.78999651 1.042325902 1.012161341 1.150607595 0.367656658 0.098487271 0.508026391 1.098473659 0.040702955 0.019205764 1.62E-09 8.78999651 0.138446254 ELAVQIYEEAR ddPTM_HeLa_SAHA_4h_R1 2 ELAVQIYEEAR 11 0 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;A0A2R8YDT5;A0A2R8Y7T2;A0A2R8YDH3;O15523-2;O15523;O15523-3 A0A2R8Y5G6 DDX3X;DDX3Y ATP-dependent RNA helicase DDX3X;ATP-dependent RNA helicase DDX3Y 0 0 ; ; 147.62 0.0036853 8142600 1457.02 1377.81 1279.98 1624.18 1242.97 2043.76 1912.95 1272.35 1974.44 1504.59 FALSE FALSE TRUE 1610.276049 1422.451948 1454.409009 1655.618353 1147.733907 1869.62015 1697.699831 1239.805129 1960.699711 1569.460238 1.026006272 0.906331944 0.92669376 1.054896653 0.731292121 1.191250409 1.081709361 0.789956381 1.249282819 1 10.61605276 -7.307271443 24.72208975 1.012280743 0.962778156 0.083939346 0.14808127 1168.125612 630091.0907 0.020635418 0.023597554 4.93E-08 7.307271443 -0.049502587 ELDALDANDELTPLGR ddPTM_HeLa_SAHA_4h_R1 2 ELDALDANDELTPLGR 16 0 Q08211 Q08211 DHX9 ATP-dependent RNA helicase A 0 0 ; ; 234.83 3.79E-27 12937300 2025.17 2027.61 1505.81 1791.36 2134.83 2238.3 2135.8 2304.77 2209.3 1928.96 FALSE FALSE TRUE 2238.186672 2093.305894 1711.013945 1826.034363 1971.259787 2047.584248 1895.474163 2245.817321 2193.925301 2012.126906 1.112348663 1.040344865 0.85035091 0.90751451 0.979689592 1.017621822 0.942025156 1.116140992 1.090351357 1 10.97450558 -6.970848613 24.99649353 1.054279528 0.965732304 0.286375013 0.070988574 229.8013349 197047.7033 0.012272068 0.016128504 1.07E-07 6.970848613 -0.088547224 ELDDRDHYGNK ddPTM_HeLa_SAHA_4h_R1 2 ELDDRDHYGNK 11 1 C9J4M6;C9J2Y9;P30876 C9J4M6 POLR2B DNA-directed RNA polymerase;DNA-directed RNA polymerase II subunit RPB2 0 0 ; ; 120.45 0.001314 7087800 6641.7 6307.2 5778.9 7075.7 7616.1 7453.8 7399.7 5946.1 6939.8 6890.4 FALSE FALSE TRUE 7340.304479 6511.557418 6566.418397 7212.660405 7032.556063 6818.694306 6567.066281 5794.007372 6891.505367 7187.478865 1.021262757 0.905958479 0.913591333 1.003503529 0.97844546 0.948690693 0.913681474 0.806125135 0.958820957 1 12.81127009 -2.535006531 0.465344132 1.000671916 1.83E-34 0.524348571 0.041589586 9.538525013 0.399485262 0.009194997 7.509529832 0.002917383 2.535006531 -1.000671916 ELDEEGS(ph)DPPLPGR ddPTM_HeLa_SAHA_4h_R1 4 ELDEEGSDPPLPGR 14 0 H7C0T1;H7C2R9;C9JQV0;Q9BRJ6 H7C0T1 C7orf50 Uncharacterized protein C7orf50 1 0 ELDEEGS(1)DPPLPGR;ELDEEGS(1)DPPLPGR;ELDEEGS(1)DPPLPGR;ELDEEGS(1)DPPLPGR ;;; 225.33 3.93E-24 141716000 12621.8 12575.6 10585.2 13669.2 13341.1 14472 14032.7 14482.9 14341.3 12201.6 TRUE FALSE FALSE 13949.41883 12983.05769 12027.69593 13933.78713 12318.9078 13238.90418 12453.70366 14112.44839 14241.49773 12727.67069 1.095991496 1.020065494 0.945003703 1.094763329 0.96788392 1.04016709 0.978474693 1.10880056 1.118939834 1 13.63568079 -7.052696382 24.99655003 1.045997696 1.018818128 0.083500037 0.058246433 859.0942077 407509.822 0.009279966 0.011365676 8.86E-08 7.052696382 -0.027179568 ELDEGRYGVYEDENYEVGS(ph)DDEEIPFK ddPTM_HeLa_SAHA_4h_R1 1 ELDEGRYGVYEDENYEVGSDDEEIPFK 27 1 O15541 O15541 RNF113A RING finger protein 113A 1 0 ELDEGRY(0.001)GVY(0.001)EDENY(0.022)EVGS(0.976)DDEEIPFK 60.363 0.0027416 3334700 625.95 175.55 624.37 256.22 387.05 511.74 627.34 346.96 0 337.18 TRUE FALSE FALSE 691.790293 181.2379352 709.455892 261.1795086 357.3943126 468.136873 556.7500521 338.0852656 0 351.7174799 1.966891987 0.51529408 2.017118661 0.742583248 1.01614032 1.33100258 1.58294678 0.96124101 0 1 8.458273227 -7.290055649 24.98772095 1.456587809 1.199567845 0 0.647355074 1776.650783 1551366.452 0.086021218 0.098379198 5.13E-08 7.290055649 -0.257019964 ELDEHELDYDEEVPEEPAPAVQEDEAEKAGAEDDEEKGEGT(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 ELDEHELDYDEEVPEEPAPAVQEDEAEKAGAEDDEEKGEGTPR 43 2 E7ERS3;Q86VM9 E7ERS3 ZC3H18 Zinc finger CCCH domain-containing protein 18 1 0 ELDEHELDYDEEVPEEPAPAVQEDEAEKAGAEDDEEKGEGT(1)PR 46.76 0.0054319 15995000 1591 2050.9 1528.5 1726.3 2061.2 2286.2 1803.8 1358.1 2773.6 1942 TRUE FALSE FALSE 1758.34868 2117.350506 1736.79602 1759.715033 1903.271301 2091.402898 1600.831677 1323.361769 2754.298292 2025.729124 0.8680078 1.045228842 0.857368342 0.868682299 0.939548767 1.03241982 0.790249623 0.653276765 1.359657745 1 10.98422556 -4.535351305 4.381461763 0.938532227 0.676269981 0.318200913 0.147947316 0.088108972 4.055688859 0.009844457 0.047603592 2.92E-05 4.535351305 -0.262262246 ELDFSS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 2 ELDFSSPGR 9 0 Q4AC94;Q4AC94-2;Q4AC94-4;Q4AC94-1;Q4AC94-3;H0YG44;H7C288;H7BZB4 Q4AC94 C2CD3 C2 domain-containing protein 3 1 0 ELDFS(0.038)S(0.962)PGR;ELDFS(0.083)S(0.917)PGR ; 103.26 0.0069046 2805300 3836.9 4437 3881.3 4413.8 4591.4 5037.6 4547.2 4818.3 4775.1 4255.8 TRUE FALSE FALSE 4240.482746 4580.761711 4410.223351 4499.235481 4239.607924 4608.368139 4035.537088 4695.054863 4741.86969 4439.288365 0.955216782 1.031868474 0.993452776 1.013503767 0.955019718 1.038087135 0.90905045 1.057614301 1.068159872 1 12.11611271 -3.977212037 15.07365506 0.984119702 1.219645826 0.093127468 0.04558012 1344522.779 23540933.57 0.004752382 7362066.906 0.000105387 3.977212037 0.235526124 ELDGERER ddPTM_HeLa_SAHA_4h_R1 1 ELDGERER 8 1 P67936;A0A2R8Y5V9;A0A2R8YH90;A0A2R8YGX3;A0A590UK79;A0A5F9UKJ4;A0A590UJB9 P67936 TPM4 Tropomyosin alpha-4 chain 0 0 101.54 0.015163 2414000 1186.2 733.9 1327.9 1470.7 942.75 1347.9 1862.4 1519.8 933.44 1592.3 FALSE FALSE TRUE 1310.969958 757.6788415 1508.859297 1499.167525 870.5166987 1233.051337 1652.83785 1480.925717 926.944115 1660.951846 0.78928836 0.456171468 0.908430489 0.902595418 0.524107126 0.742376331 0.995114852 0.891612674 0.558080066 1 10.69779453 -8.886403412 0.976206381 0.987218417 0.776340221 0 0.210596671 0.620705331 1.1570169 0.077897075 0.032095607 1.30E-09 8.886403412 -0.210878196 ELDLS(ph)ELDDPDSAYLQEAR ddPTM_HeLa_SAHA_4h_R1 2 ELDLSELDDPDSAYLQEAR 19 0 Q9UER7-3;Q9UER7;Q9UER7-5;Q9UER7-4;Q9UER7-2 Q9UER7-3 DAXX Death domain-associated protein 6 1 0 ELDLS(1)ELDDPDSAYLQEAR;ELDLS(1)ELDDPDSAYLQEAR ; 154.31 2.85E-05 4180500 517.51 616.56 538.52 538.63 800.92 636.89 969.81 858.89 796.3 680.3 TRUE FALSE FALSE 571.9440762 636.5369485 611.9067011 549.0559625 739.5536826 582.623389 860.6844264 836.9208375 790.7584835 709.6310623 0.805973846 0.89699702 0.862288496 0.773720306 1.042166447 0.821022951 1.212861827 1.179374582 1.114323379 1 9.470925351 -4.754365116 24.99986311 0.897701554 1.196118355 0.531634334 0.104757029 76.28807253 269588.4434 0.012675591 0.045459925 1.76E-05 4.754365116 0.298416801 ELDPSLVSANDSPS(ph)GMQTR ddPTM_HeLa_SAHA_4h_R1 3 ELDPSLVSANDSPSGMQTR 19 0 Q5UIP0;Q5UIP0-2;H7C2B5 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 ELDPSLVSANDS(0.013)PS(0.987)GMQTR;ELDPSLVSANDS(0.085)PS(0.913)GMQT(0.001)R;ELDPSLVSANDS(0.359)PS(0.52)GMQT(0.12)R ;; 183.39 4.53E-10 31662900 5480.5 4735.73 3979.47 4226.82 5331.35 5414.8 5103.68 5653.5 4133.82 4814.13 TRUE FALSE FALSE 6056.964135 4889.170759 4521.771447 4308.636213 4922.863115 4953.428577 4529.400494 5508.891656 4105.05241 5021.690704 1.206160334 0.973610492 0.900448019 0.858005096 0.980319857 0.986406545 0.901967238 1.097019307 0.817464207 1 12.29395746 -7.085583831 8.309890224 1.097229469 0.948897499 0 0.116936662 0.272694522 24.32064064 0.015734075 0.019297976 8.21E-08 7.085583831 -0.14833197 ELDPSLVSANDSPSGMQT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 ELDPSLVSANDSPSGMQTR 19 0 Q5UIP0;Q5UIP0-2;H7C2B5 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 ELDPSLVSANDS(0.316)PS(0.106)GMQT(0.577)R 100.69 0.0024206 8435200 1785.4 1511.2 1620.1 1578.7 1987.7 2298 1978.4 2179.2 1850.8 2033.1 TRUE FALSE FALSE 1973.196564 1560.163872 1840.878791 1609.258021 1835.402855 2102.197472 1755.785225 2123.459219 1837.920132 2120.756891 0.930420914 0.735663705 0.868029145 0.758813058 0.865447079 0.991248682 0.827904996 1.001274228 0.866634049 1 11.05036353 -7.654256763 2.807979925 0.974110584 0.862707868 0.058999021 0.088155479 0.234567767 3.901570416 0.015291858 0.015778453 2.22E-08 7.654256763 -0.111402716 ELDQDMVT(ph)EDEDDPGSHKR ddPTM_HeLa_SAHA_4h_R1 2 ELDQDMVTEDEDDPGSHKR 19 1 Q9NRL2;Q9NRL2-2;A0A087WWN7 Q9NRL2 BAZ1A Bromodomain adjacent to zinc finger domain protein 1A 1 0 ELDQDMVT(1)EDEDDPGSHKR;ELDQDMVT(0.985)EDEDDPGS(0.015)HKR ; 72.489 0.0046947 22979500 7936 8736.4 6147.3 6742.6 8174.6 9741.9 7656.1 6585.8 10428.9 8320.7 TRUE FALSE FALSE 8770.744892 9019.465092 6985.02203 6873.112773 7548.263914 8911.835314 6794.615478 6417.344772 10356.32444 8679.446098 1.010518966 1.039175195 0.804777396 0.791883802 0.869671155 1.02677466 0.782839758 0.739372617 1.193201078 1 13.08338726 -6.762571592 24.99783592 1.00767168 0.841687607 0.554423664 0.093965483 17.59834603 388553.2956 0.011999822 0.016274351 1.73E-07 6.762571592 -0.165984073 ELEAIFGRPVVDGEEGEPHS(ph)ISPR ddPTM_HeLa_SAHA_4h_R1 4 ELEAIFGRPVVDGEEGEPHSISPR 24 1 G5E9C7;P36507 G5E9C7 MAP2K2 Dual specificity mitogen-activated protein kinase kinase 2 1 0 ELEAIFGRPVVDGEEGEPHS(0.825)IS(0.175)PR;ELEAIFGRPVVDGEEGEPHS(0.779)IS(0.221)PR;ELEAIFGRPVVDGEEGEPHS(0.831)IS(0.169)PR;ELEAIFGRPVVDGEEGEPHS(0.601)IS(0.399)PR ;;; 132.77 1.74E-07 45263800 4692.31 5238.5 4310.97 5765.2 5600.18 3722.01 6112.51 1979.78 5941.61 4982 TRUE FALSE FALSE 5185.868695 5408.230837 4898.446541 5876.793783 5171.095418 3404.873809 5424.714288 1929.140094 5900.261852 5196.798401 0.997896838 1.040685133 0.942589295 1.130848905 0.995054073 0.655186818 1.043856981 0.371217035 1.135364776 1 12.34340738 -4.085002189 2.513068644 0.988438567 2.75E-42 0.66392513 0.130838839 0.540454333 2.517897586 0.016157296 1.380650635 8.22E-05 4.085002189 -0.988438567 ELEASEELDTICPK ddPTM_HeLa_SAHA_4h_R1 1 ELEASEELDTICPK 14 0 O76003 O76003 GLRX3 Glutaredoxin-3 0 0 151.98 3.36E-10 0 544.07 475.63 420.74 534.43 391.73 620.01 583.77 377.72 503.66 622.45 FALSE FALSE TRUE 601.2977789 491.0407241 478.0762561 544.7746654 361.715732 567.1816599 518.0826632 368.0584693 500.1549891 649.2868657 0.926089546 0.756277002 0.73630976 0.839035401 0.557096949 0.873545562 0.797925679 0.566865724 0.770314349 1 9.342712215 -7.334904991 1.50749277 0.975460097 0.730820125 0.231381592 0.117597288 0.195100301 0.849406837 0.018178084 0.020945802 4.62E-08 7.334904991 -0.244639972 ELEDATETADAMNR ddPTM_HeLa_SAHA_4h_R1 6 ELEDATETADAMNR 14 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ;;;;; ;;;;; 336.17 4.23E-134 121511700 5787.86 5415.41 4662.72 5703.66 5880.43 6417.91 6048.87 7016.12 5992.25 5588.59 FALSE FALSE TRUE 6396.65367 5590.872837 5298.131199 5814.062587 5429.872724 5871.067962 5368.235228 6836.65781 5950.549444 5829.541465 1.097282472 0.959058765 0.908841841 0.997344752 0.931440793 1.007123459 0.920867492 1.172760817 1.020757718 1 12.50916669 -7.243308139 24.30639307 1.045938948 0.979151233 0.094264615 0.07416142 810.8481398 1087008.577 0.012186898 0.014909062 5.71E-08 7.243308139 -0.066787715 ELEEDFIK ddPTM_HeLa_SAHA_4h_R1 4 ELEEDFIK 8 0 Q14019;H3BT58 Q14019 COTL1 Coactosin-like protein 0 0 ;;; ;;; 155.75 0.00046929 37623700 10902.1 8875.6 8319.4 10469 9253.1 11662.1 10630.2 10005.5 12350 9562.6 FALSE FALSE TRUE 12048.8329 9163.175263 9453.124506 10671.64263 8544.129477 10668.42347 9434.061919 9749.573798 12264.05534 9974.890484 1.207916309 0.918624147 0.94769206 1.069850606 0.856563738 1.06952788 0.945781002 0.977411613 1.229492731 1 13.28408529 -7.244549718 24.9928263 1.098182705 0.970991093 0.436955532 0.086868797 769.2112256 1138257.774 0.015443101 0.018888039 5.69E-08 7.244549718 -0.127191612 ELEEEEENS(ph)DEDELDSHTMVK ddPTM_HeLa_SAHA_4h_R1 3 ELEEEEENSDEDELDSHTMVK 21 0 A0A087WZ06;Q13188;Q13188-2;E5RFQ9 A0A087WZ06 STK3 Serine/threonine-protein kinase 3;Serine/threonine-protein kinase 3 36kDa subunit;Serine/threonine-protein kinase 3 20kDa subunit 1 0 ELEEEEENS(1)DEDELDSHTMVK;ELEEEEENS(1)DEDELDSHTMVK;ELEEEEENS(1)DEDELDSHTMVK ;; 140.93 5.52E-06 113036000 4579.33 4988.55 4215.66 4138.96 5235.76 4792.98 5568.82 4743.04 5705.29 4730.05 TRUE FALSE FALSE 5061.00494 5150.182293 4790.148191 4219.075556 4834.5972 4384.591139 4942.201717 4621.719905 5665.586422 4933.985604 1.025743759 1.04381786 0.970847622 0.855104959 0.979856365 0.888650979 1.001665208 0.936711267 1.148277858 1 12.26853779 -6.527664472 15.71813745 1.014513139 0.934104679 0.441606572 0.058360908 0.841960125 2762.272441 0.005914597 0.00842955 2.97E-07 6.527664472 -0.08040846 ELEEIVQPIISK ddPTM_HeLa_SAHA_4h_R1 1 ELEEIVQPIISK 12 0 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 178.95 3.07E-11 693590 511.12 720.71 539.78 535.8 877.44 634.48 632.17 623.94 532.7 564.71 FALSE FALSE TRUE 564.8819467 744.0614769 613.3384073 546.1711838 810.2107368 580.4187345 561.0365678 607.9805183 528.9928973 589.0574117 0.958959068 1.263139148 1.041220083 0.927195165 1.375435943 0.985334745 0.952431048 1.032124384 0.898032835 1 9.202264441 ELEELKEIEADLER ddPTM_HeLa_SAHA_4h_R1 2 ELEELKEIEADLER 14 1 K7EJH0;K7EMX1;K7EJV2;K7ESQ2;Q8NBT2 K7EJH0 SPC24 Kinetochore protein Spc24 0 0 ; ; 160.56 1.91E-05 4554000 1358.64 1802.97 1692.49 1993.02 1935.43 2431.4 1921.34 1834.18 2066.85 2254.92 FALSE FALSE TRUE 1501.547989 1861.387411 1923.133723 2031.597784 1787.137772 2224.231041 1705.145767 1787.264331 2052.466623 2352.140637 0.638375089 0.791358893 0.817610007 0.863722922 0.759792057 0.94561992 0.724933595 0.759845863 0.872595197 1 11.19975861 -9.588321257 1.393785297 0.999373828 0.772403437 0.271571437 0.0865703 0.296215409 1.036666179 0.062204372 0.014635046 2.58E-10 9.588321257 -0.226970391 ELEEVS(ph)PET(ph)PVVPAT(ph)T(ph)QR ddPTM_HeLa_SAHA_4h_R1 1 ELEEVSPETPVVPATTQR 18 0 Q15149 Q15149 PLEC Plectin 4 0 ELEEVS(1)PET(1)PVVPAT(1)T(1)QR 73.953 0.0069629 10694000 3911.1 4339.1 3962.2 4367.1 4883.8 5635.2 5219.8 5221.7 5598.7 4331.3 TRUE FALSE FALSE 4322.487443 4479.689687 4502.147982 4451.631535 4509.604299 5155.049257 4632.454366 5088.136475 5559.738191 4518.04354 0.956716642 0.99151096 0.996481761 0.985300716 0.998132103 1.140991496 1.025323091 1.126181373 1.230563217 1 12.14148246 -5.386542242 5.91398559 0.982249956 1.089772748 0.004687299 0.084312165 0.088098972 3.884293188 0.00426273 0.009634466 4.11E-06 5.386542242 0.107522792 ELEEVS(ph)PETPVVPATTQR ddPTM_HeLa_SAHA_4h_R1 3 ELEEVSPETPVVPATTQR 18 0 Q15149 Q15149 PLEC Plectin 1 0 ELEEVS(0.996)PET(0.004)PVVPATTQR;ELEEVS(1)PETPVVPATTQR;ELEEVS(0.999)PET(0.001)PVVPATTQR ;; 329.21 5.66E-121 47104200 3774.5 4289.6 3341.1 3897.4 4251.9 4835.1 3965.9 3896.7 4621.7 3984.5 TRUE FALSE FALSE 4171.519228 4428.585855 3796.407708 3972.839813 3926.120341 4423.122278 3519.646494 3797.028056 4589.537213 4156.291295 1.003663827 1.06551383 0.913412328 0.955861736 0.944621073 1.064199298 0.846823826 0.913561583 1.104238584 1 12.02108105 -1.602100699 0.367737245 1.004117325 1.23E-10 0.289602453 0.064850998 32.31669256 0.610085006 0.014471811 21.65020175 0.024997657 1.602100699 -1.004117325 ELEEVSPET(ph)PVVPATTQR ddPTM_HeLa_SAHA_4h_R1 1 ELEEVSPETPVVPATTQR 18 0 Q15149 Q15149 PLEC Plectin 1 0 ELEEVS(0.224)PET(0.775)PVVPATTQR 136.26 0.00020443 6015200 1950.9 2262.5 1913.2 1775.8 2303.8 2725 2329.8 1887.8 2026.2 2114.9 TRUE FALSE FALSE 2156.104613 2335.806484 2173.920932 1810.173177 2127.283342 2492.81467 2067.644772 1839.51281 2012.099509 2206.083689 0.977344887 1.0588023 0.985420881 0.820536948 0.964280436 1.129972848 0.937246752 0.833836367 0.912068531 1 11.10727181 -6.498504889 24.7771551 0.995543772 0.944753902 0.070124739 0.085905219 1443.071083 1466949.795 0.012771113 0.019445583 3.17E-07 6.498504889 -0.05078987 ELEEWYAR ddPTM_HeLa_SAHA_4h_R1 2 ELEEWYAR 8 0 P09496-2;P09496-4;P09496-3;P09496;P09496-5;C9J8P9;F8WF69 P09496-2 CLTA Clathrin light chain A 0 0 ; ; 145.34 0.0025989 61910000 4066.9 4335.4 3846.9 4812.3 5359.3 5226 4494.2 3855.8 4880.4 4548.9 FALSE FALSE TRUE 4494.675202 4475.869805 4371.135498 4905.449025 4948.671592 4780.715399 3988.500788 3757.174219 4846.436899 4745.025341 0.947239452 0.94327627 0.921203826 1.033808815 1.042917843 1.007521574 0.840564697 0.79181331 1.021372185 1 12.21220008 -4.665348441 4.69489182 0.979174944 0.804258991 0.747563129 0.040255457 0.081392417 2.998252578 0.005978377 0.024056425 2.16E-05 4.665348441 -0.174915953 ELEFYLR ddPTM_HeLa_SAHA_4h_R1 1 ELEFYLR 7 0 P62241;Q5JR95 P62241 RPS8 40S ribosomal protein S8 0 0 143.02 0.0018278 23636000 4185.6 3934.9 4587.4 4733.1 4382.1 4259.2 4844.3 3250.9 3449.6 3737.5 FALSE FALSE TRUE 4625.860612 4062.393342 5212.546982 4824.715995 4046.344445 3896.292198 4299.206615 3167.746685 3425.593953 3898.641916 1.186531288 1.042002171 1.337016093 1.237537609 1.037885636 0.999397298 1.102744676 0.812525683 0.878663398 1 11.92875594 -4.260016155 6.736159771 1.104853114 0.807321939 0.299286032 0.126449757 0.102578801 30.6842484 0.016175355 0.13649191 5.50E-05 4.260016155 -0.297531175 ELELMFGCQVEGDAAET(ph)PPRPR ddPTM_HeLa_SAHA_4h_R1 2 ELELMFGCQVEGDAAETPPRPR 22 1 Q02750;Q02750-2;H3BRW9 Q02750 MAP2K1 Dual specificity mitogen-activated protein kinase kinase 1 1 0 ELELMFGCQVEGDAAET(1)PPRPR;ELELMFGCQVEGDAAET(1)PPRPR ; 119.2 2.30E-05 10032500 2056.5 2310.35 2437.59 2619.26 2780.7 2368.24 2819 1629.03 2725.8 2513.6 TRUE FALSE FALSE 2272.812106 2385.206856 2769.772071 2669.959565 2567.643367 2166.452629 2501.798701 1587.361771 2706.830936 2621.973597 0.866832568 0.909699037 1.056369169 1.018301469 0.97927888 0.826267904 0.954166245 0.60540723 1.032363918 1 11.35643744 -3.853509623 1.734095551 0.946650642 9.41E-15 0.672050425 0.07298256 1.756755362 1.999453705 0.011024195 3.907721038 0.000140117 3.853509623 -0.946650642 ELEQHIQTS(ph)DPENFQSEER ddPTM_HeLa_SAHA_4h_R1 2 ELEQHIQTSDPENFQSEER 19 0 Q96K76-2;Q96K76-4;Q96K76 Q96K76-2 USP47 Ubiquitin carboxyl-terminal hydrolase 47 1 0 ELEQHIQT(0.3)S(0.695)DPENFQS(0.005)EER;ELEQHIQT(0.453)S(0.527)DPENFQS(0.021)EER ; 79.172 0.0039188 18612400 3453.1 3374.4 2981.1 3618.3 3881.7 4151.6 4307 3795.1 4514.5 3695 TRUE FALSE FALSE 3816.312901 3483.732774 3387.348783 3688.337429 3584.284985 3797.860324 3822.365025 3698.026837 4483.083227 3854.309533 0.99014178 0.903853918 0.878847107 0.956938564 0.929942174 0.985354262 0.991712002 0.959452479 1.163135236 1 11.91225672 -7.418915671 8.675242373 0.995668668 0.944673767 0.28047778 0.062062521 0.296282502 22.63139118 0.006030653 0.006881668 3.81E-08 7.418915671 -0.0509949 ELES(ph)LLS(ph)QRIY(ph)CPDS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 ELESLLSQRIYCPDSR 16 1 Q9Y2M0;A0A590UK78;A0A590UKC0 Q9Y2M0 FAN1 Fanconi-associated nuclease 1 4 0 ELES(1)LLS(1)QRIY(1)CPDS(1)R;ELES(1)LLS(1)QRIY(1)CPDS(1)R ; 58.461 0.017082 229920000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 ELESPLT(ph)PGK ddPTM_HeLa_SAHA_4h_R1 2 ELESPLTPGK 10 0 O15014 O15014 ZNF609 Zinc finger protein 609 1 0 ELES(0.204)PLT(0.796)PGK;ELES(0.176)PLT(0.824)PGK ; 147.62 0.0013368 30789000 5578.1 6729 4120.1 5478.9 5960.2 6542.4 5263.6 5235.3 8965.2 5472.1 TRUE FALSE FALSE 6164.830151 6947.024015 4681.565771 5584.952032 5503.530764 5984.950713 4671.325875 5101.388607 8902.810443 5708.029011 1.080027824 1.217061792 0.820172035 0.97843792 0.96417358 1.048514418 0.818378089 0.893721563 1.559699579 1 12.47877695 -6.743929181 24.99759351 1.052292186 0.926349887 0.235242629 0.181983335 220.3609204 314587.0722 0.013966371 0.019725028 1.80E-07 6.743929181 -0.125942298 ELESQISELQEDLESER ddPTM_HeLa_SAHA_4h_R1 2 ELESQISELQEDLESER 17 0 P35579 P35579 MYH9 Myosin-9 0 0 ; ; 372.76 1.06E-183 15082200 3162.4 3313 2473.2 3042.1 3266.8 3605.1 3764.8 3452.1 3409 3146.8 FALSE FALSE TRUE 3495.035742 3420.343374 2810.234816 3100.984244 3016.49849 3297.925198 3341.174796 3363.800281 3385.276491 3282.473948 1.064756582 1.042001682 0.856133167 0.944709476 0.918971038 1.004707197 1.017883111 1.024775926 1.031318617 1 11.68056785 ELEVLLMCNK ddPTM_HeLa_SAHA_4h_R1 2 ELEVLLMCNK 10 0 D3YTB1;F8W727;P62910 D3YTB1 RPL32 60S ribosomal protein L32 0 0 ; ; 191.85 1.06E-17 1336320 395.11 485.19 845.92 786.13 629.59 453.61 875.97 138.26 165.55 503.74 FALSE FALSE TRUE 436.6694826 500.9104743 961.1975722 801.3466829 581.3509502 414.9598761 777.4035502 134.7235094 164.3979241 525.4586966 0.831025322 0.953282299 1.829254285 1.525042193 1.1063685 0.789709788 1.479476037 0.256392196 0.31286555 1 9.037433556 -3.193494535 14.27167741 1.022815075 1.000698831 0 0.480208888 0 0 0.055049439 0 0.00064048 3.193494535 -0.022116244 ELFDDPS(ph)YVNVQNLDK ddPTM_HeLa_SAHA_4h_R1 1 ELFDDPSYVNVQNLDK 16 0 Q5T188;H0Y539;X6R6D0;P29353-5;P29353-3;P29353-2;P29353-7;P29353;P29353-6 Q5T188 SHC1 SHC-transforming protein 1 1 0 ELFDDPS(0.733)Y(0.267)VNVQNLDK 113.99 0.0013335 88490000 1378.8 1286 1036.1 1597.1 1950.5 1810.7 1571.2 1777.6 1597.4 1583.6 TRUE FALSE FALSE 1523.82851 1327.667244 1177.294312 1628.01418 1801.053111 1656.418173 1394.404441 1732.131566 1586.283563 1651.876746 0.922483178 0.803732631 0.712701063 0.98555427 1.090307201 1.002749253 0.844133465 1.048584024 0.960291721 1 10.68989033 -6.036939262 24.99116628 0.92730406 0.99250433 0.173327716 0.101266814 1263.100405 854545.9174 0.017154871 0.028453784 9.18E-07 6.036939262 0.06520027 ELFDDPSY(ph)VNVQNLDK ddPTM_HeLa_SAHA_4h_R1 3 ELFDDPSYVNVQNLDK 16 0 Q5T188;H0Y539;X6R6D0;P29353-5;P29353-3;P29353-2;P29353-7;P29353;P29353-6 Q5T188 SHC1 SHC-transforming protein 1 1 0 ELFDDPS(0.01)Y(0.99)VNVQNLDK;ELFDDPS(0.026)Y(0.974)VNVQNLDK;ELFDDPS(0.036)Y(0.964)VNVQNLDK ;; 237.53 3.08E-28 61214000 5566.72 5172.69 3764.6 7001.25 9023 6098.75 7043.68 7355.7 6274.76 5328.19 TRUE FALSE FALSE 6152.253151 5340.28855 4277.620083 7136.769318 8331.659689 5579.102189 6251.106588 7167.551845 6231.093434 5557.914346 1.106935582 0.960843982 0.769644837 1.284073282 1.499062269 1.003812193 1.124721649 1.289611786 1.12112081 1 12.44032789 -6.184521292 24.99999969 1.024476162 1.235080284 0.396752967 0.150483166 113.4235771 36864.41902 0.022898044 0.037972109 6.54E-07 6.184521292 0.210604122 ELFEERR ddPTM_HeLa_SAHA_4h_R1 1 ELFEERR 7 1 Q9H307 Q9H307 PNN Pinin 0 0 95.62 0.0060453 0 1851 1065.1 1436.9 1818.8 1856.9 1500.3 1796.1 1665 992.51 1730.4 FALSE FALSE TRUE 2045.696673 1099.609939 1632.713249 1854.005504 1714.624723 1372.466 1593.998101 1622.411711 985.6030421 1805.006012 1.133346182 0.609200153 0.904547263 1.027146442 0.94992743 0.760366442 0.883098499 0.898840059 0.546038648 1 10.81778793 ELFQT(ph)PCTDNPTTDEK ddPTM_HeLa_SAHA_4h_R1 1 ELFQTPCTDNPTTDEK 16 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 ELFQT(0.486)PCT(0.486)DNPT(0.027)TDEK 160.04 7.73E-06 6220900 1446.2 990.88 672.03 1070.8 1314.4 1254 1220.7 1237.6 1517.8 1335.3 TRUE FALSE FALSE 1598.317951 1022.985162 763.6107486 1091.526882 1213.690956 1147.152145 1083.343623 1205.943984 1507.237506 1392.871318 1.147498646 0.734443411 0.548227779 0.783652351 0.871358998 0.82358803 0.77777725 0.865797126 1.082108223 1 10.44384626 -7.256485876 24.93014764 1.06965214 0.769966887 0.698096428 0.091697403 182.4715467 918348.7917 0.017556807 0.021146451 5.54E-08 7.256485876 -0.299685253 ELFQT(ph)PDHTEESTTDDKTTK ddPTM_HeLa_SAHA_4h_R1 1 ELFQTPDHTEESTTDDKTTK 20 1 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 ELFQT(0.601)PDHT(0.391)EES(0.002)T(0.005)T(0.002)DDKTTK 96.181 0.0010922 8026500 1517.6 1199.2 940.28 1235 1577.7 1653.1 1274.3 1595.8 1676.5 1664.8 TRUE FALSE FALSE 1677.228131 1238.054867 1068.416462 1258.905211 1456.816967 1512.24658 1130.91241 1554.981747 1664.8331 1736.577675 0.965823847 0.71292801 0.615242541 0.724934582 0.838901126 0.870820005 0.651230536 0.895428848 0.958686227 1 10.76203123 -7.296104356 7.368574096 0.984189625 0.754992504 0.56847467 0.086233234 0.116587159 21.03827526 0.014654172 0.016835592 5.06E-08 7.296104356 -0.229197121 ELFQT(ph)PGHTEEAVAAGK ddPTM_HeLa_SAHA_4h_R1 1 ELFQTPGHTEEAVAAGK 17 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 ELFQT(0.999)PGHT(0.001)EEAVAAGK 101.48 0.0030188 8676900 3874.1 2478.6 2073.1 2830.5 3201.6 3540.2 3034.3 3771.1 2817.7 2426.7 TRUE FALSE FALSE 4281.595613 2558.908266 2355.611272 2885.28842 2956.2941 3238.555043 2692.872578 3674.640722 2798.091396 2531.326913 1.691443168 1.010896006 0.930583584 1.139832396 1.16788317 1.279390278 1.063818571 1.451665806 1.105385236 1 11.30567812 ELFQT(ph)PGHTEELVAAGK ddPTM_HeLa_SAHA_4h_R1 1 ELFQTPGHTEELVAAGK 17 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 ELFQT(1)PGHTEELVAAGK 93.73 0.0046571 4617600 4710.4 3344.4 2666.5 3946.4 4253.4 4757.9 3776.8 5242.3 4796.5 4880.7 TRUE FALSE FALSE 5205.861484 3452.760754 3029.876733 4022.788279 3927.505411 4352.500153 3351.824524 5108.209557 4763.120766 5091.130863 1.02253539 0.678191319 0.595128433 0.790156134 0.771440671 0.854918145 0.658365423 1.003354597 0.935572252 1 12.31377043 -7.27118643 24.86816232 1.010641719 0.758641268 0.458121768 0.109299995 327.9517866 836719.1838 0.017251673 0.019859385 5.36E-08 7.27118643 -0.252000451 ELFQT(ph)PGPSEESMTDEK ddPTM_HeLa_SAHA_4h_R1 1 ELFQTPGPSEESMTDEK 17 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 ELFQT(0.999)PGPS(0.001)EESMTDEK 91.518 0.0079199 2745500 863.72 1056 652.02 966.19 1087.8 621.46 1116.7 935.73 1645.6 1160.9 TRUE FALSE FALSE 954.5700325 1090.215093 740.87389 984.8920046 1004.452999 568.5081118 991.045977 911.7953815 1634.148136 1210.95208 0.7882806 0.900295817 0.611811072 0.813320379 0.82947378 0.469472014 0.818402308 0.752957443 1.349473825 1 10.24192606 -9.241276714 0.284743249 1.126449797 0.696664136 0.484869277 0.158755154 2.900534187 0.324922584 0.426859843 0.075474321 5.74E-10 9.241276714 -0.42978566 ELGEYALAEYTEVK ddPTM_HeLa_SAHA_4h_R1 2 ELGEYALAEYTEVK 14 0 H0Y2X5;P47895 H0Y2X5 ALDH1A3 Aldehyde dehydrogenase family 1 member A3 0 0 ; ; 234.92 6.02E-24 15304200 2178.43 2249.6 1911.66 2725.7 1980.25 2457.8 2413.35 2593.4 2508.52 2297.13 FALSE FALSE TRUE 2407.567262 2322.488516 2172.171069 2778.459865 1828.523673 2248.381613 2141.793506 2527.064583 2491.063005 2396.170516 1.004756233 0.969250101 0.906517735 1.159541796 0.763102484 0.938322877 0.893840189 1.054626357 1.039601726 1 11.22651486 -5.758186711 24.99975625 1.001402264 0.912988532 0.227240044 0.089472348 102.0252282 784145.0706 0.011758444 0.022747355 1.75E-06 5.758186711 -0.088413732 ELGEYGFHEYTEVK ddPTM_HeLa_SAHA_4h_R1 2 ELGEYGFHEYTEVK 14 0 P00352 P00352 ALDH1A1 Retinal dehydrogenase 1 0 0 ; ; 164.64 7.13E-13 6451800 4611.9 7116.5 5541.9 6731.2 5011.8 5662.6 5963.1 4474 3359.7 4224 FALSE FALSE TRUE 5097.000802 7347.079269 6297.121271 6861.492109 4627.796967 5180.114623 5292.116294 4359.561558 3336.319574 4406.117312 1.156800975 1.667472459 1.429176943 1.557264962 1.050311791 1.175664254 1.201083839 0.989433837 0.757201713 1 12.10529219 -7.669013777 3.095121624 1.059070288 1.298208379 0.283699496 0.224551407 0.273569797 5.525470283 0.040511467 0.041690581 2.14E-08 7.669013777 0.239138091 ELGITALHIK ddPTM_HeLa_SAHA_4h_R1 2 ELGITALHIK 10 0 P62263;A0A2R8Y811;E5RH77 P62263 RPS14 40S ribosomal protein S14 0 0 ; ; 89.247 0.0088684 3402300 2228.2 2630.9 2663.3 3250.6 3235.4 2111.41 3765.7 1340.45 1884.13 2081.3 FALSE FALSE TRUE 2462.572299 2716.142886 3026.240654 3313.520063 2987.504351 1931.50599 3341.973525 1306.16323 1871.018186 2171.035029 1.134284923 1.251082019 1.393916088 1.526239798 1.376073767 0.889670578 1.539345741 0.601631578 0.861809304 1 11.08416729 -7.81021268 1.345762891 1.037494555 1.245283435 0.118796429 0.279686366 0.636156597 2.4045284 0.058259508 0.054143072 1.55E-08 7.81021268 0.207788881 ELGIWEPLAVK ddPTM_HeLa_SAHA_4h_R1 2 ELGIWEPLAVK 11 0 B4DUR8;P49368-2;P49368 B4DUR8 CCT3 T-complex protein 1 subunit gamma 0 0 ; ; 126.39 0.0018327 1443580 816.72 1142.41 984.05 787.29 1399.79 1348 1383.08 886.61 879.21 1297.3 FALSE FALSE TRUE 902.6263568 1179.424834 1118.151209 802.5291364 1292.538393 1233.142816 1227.452198 863.9318 873.091506 1353.232952 0.667014763 0.871560829 0.826281394 0.593045813 0.955148477 0.911256864 0.907051662 0.638420605 0.645189363 1 10.4021945 -9.576151765 1.364809041 0.999748645 0.787365987 0 0.161103543 0.441793366 1.478173165 0.085616831 0.020120255 2.65E-10 9.576151765 -0.212382658 ELGLPEELVSR ddPTM_HeLa_SAHA_4h_R1 1 ELGLPEELVSR 11 0 P49915-2;P49915 P49915-2 GMPS GMP synthase [glutamine-hydrolyzing] 0 0 136.63 0.0063195 3055800 877.07 973.35 963.53 906.61 789.57 1014.5 908.36 1016.3 971.61 835.42 FALSE FALSE TRUE 969.3242467 1004.887179 1094.834851 924.1587475 729.0733172 928.0588926 806.1489421 990.3045176 964.8484869 871.4390446 1.112325931 1.153135362 1.256352762 1.060497293 0.836631457 1.064972815 0.925077832 1.136401362 1.107189875 1 9.767255944 -5.977483829 24.99415676 1.08087647 0.986026858 0.234499081 0.09955625 347.3174835 385539.0373 0.015598721 0.02827391 1.05E-06 5.977483829 -0.094849612 ELGPLPDDDDMAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 ELGPLPDDDDMASPK 15 0 Q86U86-8;Q86U86;H0Y5B5;E7EVG2;Q86U86-6;Q86U86-5;Q86U86-4;Q86U86-7;Q86U86-3;Q86U86-9;Q86U86-2 Q86U86-8 PBRM1 Protein polybromo-1 1 0 ELGPLPDDDDMAS(1)PK;ELGPLPDDDDMAS(1)PK ; 166.35 3.50E-06 7819000 1812.35 2054.33 1673.76 1966.74 2308.6 2464.5 2085.46 1759.83 2551.3 2361.43 TRUE FALSE FALSE 2002.981288 2120.89164 1901.851296 2004.809097 2131.715567 2254.510735 1850.798552 1714.816097 2533.545296 2463.242804 0.813148134 0.861016071 0.772092501 0.813890167 0.865410248 0.915261269 0.751366674 0.696162024 1.028540626 1 11.26634313 -13.52287875 0.211609478 1.963819784 0.782829249 0.673378214 0.057462119 25.58410888 0.318829396 10.15620159 0.053867997 3.00E-14 13.52287875 -1.180990535 ELGS(ph)PTDEDSGQDQQLLR ddPTM_HeLa_SAHA_4h_R1 1 ELGSPTDEDSGQDQQLLR 18 0 H0Y713;Q86YN6-6;Q86YN6-5;Q86YN6-4;Q86YN6-2;Q86YN6-3;Q86YN6 H0Y713 PPARGC1B Peroxisome proliferator-activated receptor gamma coactivator 1-beta 1 0 ELGS(0.659)PT(0.289)DEDS(0.052)GQDQQLLR 65.105 0.018624 1824300 78.792 0 0 0 0 192.9 233.42 155.43 60.053 92.635 TRUE FALSE FALSE 87.07970407 0 0 0 0 176.4638348 207.1549673 151.4543257 59.63508628 96.62894819 0.901176156 0 0 0 0 1.826200513 2.143818919 1.567380464 0.617155494 1 6.594383553 -5.199386535 10.05321062 0.677458927 1.878158172 0.644861998 0.46510269 0.417717279 66.04280519 0.081508012 0.208066053 6.32E-06 5.199386535 1.200699245 ELGTGEQPLS(ph)PTTATSPYGGGHALAGQTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 ELGTGEQPLSPTTATSPYGGGHALAGQTSPK 31 0 A0A087WXB3;A0A087X223;A0A087WYW1;Q96NU1-4;Q96NU1-5;H7C3J6;A0A087X1J5;Q96NU1-1;Q96NU1-2;H7BY14;A0A087WYU3;Q96NU1-6;Q96NU1 A0A087WXB3;H7BY14 SAMD11 Sterile alpha motif domain-containing protein 11 2 0 ELGT(0.004)GEQPLS(0.703)PT(0.07)T(0.04)AT(0.143)S(0.042)PY(0.046)GGGHALAGQT(0.36)S(0.592)PK;ELGT(0.003)GEQPLS(0.512)PT(0.133)T(0.174)AT(0.157)S(0.059)PY(0.012)GGGHALAGQT(0.243)S(0.707)PK ; 71.611 0.00028516 15334900 1208.66 1889.68 916.02 1580.66 1659.01 2413.84 1648.18 1616.46 1818.99 1496.64 TRUE FALSE FALSE 1335.792404 1950.906872 1040.850435 1611.25596 1531.897012 2208.167252 1462.722449 1575.113294 1806.3315 1561.167475 0.85563684 1.249646116 0.666712862 1.032083992 0.981250914 1.414433293 0.936941406 1.008932942 1.157038902 1 10.6084096 -5.50038545 24.83743463 0.943529697 1.117795708 0.050928254 0.191632501 944.8181417 1043281.63 0.024149224 0.053604537 3.16E-06 5.50038545 0.17426601 ELGTGEQPLSPT(ph)TATSPYGGGHALAGQTSPK ddPTM_HeLa_SAHA_4h_R1 1 ELGTGEQPLSPTTATSPYGGGHALAGQTSPK 31 0 A0A087WXB3;A0A087X223;A0A087WYW1;Q96NU1-4;Q96NU1-5;H7C3J6;A0A087X1J5;Q96NU1-1;Q96NU1-2;H7BY14;A0A087WYU3;Q96NU1-6;Q96NU1 A0A087WXB3;H7BY14 SAMD11 Sterile alpha motif domain-containing protein 11 1 0 ELGTGEQPLS(0.184)PT(0.528)T(0.122)AT(0.122)S(0.043)PYGGGHALAGQTSPK 111.01 1.29E-09 11720000 1231 2165.8 888.93 1461 2373.9 3255.1 2453.4 1912.1 1798.9 2347.1 TRUE FALSE FALSE 1360.482228 2235.973341 1010.068751 1489.279768 2192.012295 2977.747167 2177.336975 1863.191251 1786.381308 2448.294967 0.555685588 0.913277759 0.412560073 0.608292623 0.895321979 1.216253436 0.889327881 0.76101584 0.72964301 1 11.25756167 -5.536132142 22.67075344 0.752683622 0.966724544 0.247408578 0.19323528 106.9814821 182997.7878 0.033667761 0.067383824 2.91E-06 5.536132142 0.214040923 ELGTGEQPLSPTTATS(ph)PYGGGHALAGQTSPK ddPTM_HeLa_SAHA_4h_R1 1 ELGTGEQPLSPTTATSPYGGGHALAGQTSPK 31 0 A0A087WXB3;A0A087X223;A0A087WYW1;Q96NU1-4;Q96NU1-5;H7C3J6;A0A087X1J5;Q96NU1-1;Q96NU1-2;H7BY14;A0A087WYU3;Q96NU1-6;Q96NU1 A0A087WXB3;H7BY14 SAMD11 Sterile alpha motif domain-containing protein 11 1 0 ELGTGEQPLS(0.054)PT(0.221)T(0.221)AT(0.221)S(0.272)PY(0.011)GGGHALAGQTSPK 86.324 1.04E-06 18669000 1856.7 2950.1 1235.7 2282.2 3306.2 4968.6 2946.8 2806.6 2669.1 3178.7 TRUE FALSE FALSE 2051.996225 3045.685176 1404.094761 2326.375281 3052.87967 4545.247327 2615.218308 2734.811236 2650.525516 3315.749313 0.6188635 0.918551099 0.423462279 0.701613741 0.920720894 1.37080548 0.788726186 0.824794331 0.79937452 1 11.69511922 -5.538109214 14.4778392 0.78468868 1.002761507 0.218516824 0.21031347 2.534501307 2407.947586 0.034149812 0.068540818 2.90E-06 5.538109214 0.218072827 ELHIQGNR ddPTM_HeLa_SAHA_4h_R1 2 ELHIQGNR 8 0 Q15404-2;Q15404 Q15404-2 RSU1 Ras suppressor protein 1 0 0 ; ; 119.17 0.0023792 2864100 5547.8 4383.1 4073.1 4288.6 4940.4 3038.9 5674.9 3495.7 4716.3 4594.6 FALSE FALSE TRUE 6131.343058 4525.115316 4628.160856 4371.612054 4561.867619 2779.968624 5036.345316 3406.285056 4683.478884 4792.695691 1.279309903 0.944169129 0.965669668 0.912140544 0.951837528 0.580042799 1.0508377 0.710724251 0.977211821 1 12.22662162 -6.591567783 1.332620638 1.127664055 0.832868745 0.299452163 0.148798216 0.304155135 1.084883142 0.027187129 0.044060707 2.56E-07 6.591567783 -0.29479531 ELHYLPFPS(ph)P ddPTM_HeLa_SAHA_4h_R1 2 ELHYLPFPSP 10 0 Q8N565 Q8N565 MREG Melanoregulin 1 0 ELHYLPFPS(1)P;ELHYLPFPS(1)P ; 107.55 0.0064092 3437200 2745.2 4296.8 3622.9 2639.8 3357.7 2282.8 4284 3445.7 2437.5 3148.8 TRUE FALSE FALSE 3033.952731 4436.019139 4116.609945 2690.897146 3100.433751 2088.292597 3801.953045 3357.563983 2420.537239 3284.560178 0.923701369 1.350567169 1.253321517 0.819256461 0.943941832 0.635790634 1.157522724 1.022226357 0.736944098 1 11.68148448 ELIFEETAR ddPTM_HeLa_SAHA_4h_R1 1 ELIFEETAR 9 0 P28482-2;P28482 P28482-2 MAPK1 Mitogen-activated protein kinase 1 0 0 141.2 0.0057825 2249500 877.53 985.82 911.04 1238.8 942.96 1587.4 1114.9 1020 1310.6 1015.3 FALSE FALSE TRUE 969.8326317 1017.761215 1035.191787 1262.778765 870.7106085 1452.14459 989.4485177 993.9098769 1301.479428 1059.074552 0.915735941 0.960991097 0.977449401 1.192341713 0.822142886 1.371144824 0.934257665 0.938470172 1.228883676 1 10.04858843 -6.496919871 24.30389471 0.959634762 1.053620415 0 0.1664955 960.3054847 899082.4246 0.020355553 0.031018576 3.18E-07 6.496919871 0.093985653 ELILGSETPSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 ELILGSETPSSPR 13 0 R4GNJ5;A0A590TQL1;Q96AP0-2;Q96AP0 R4GNJ5 ACD Adrenocortical dysplasia protein homolog 1 0 ELILGS(0.003)ET(0.023)PS(0.406)S(0.568)PR;ELILGS(0.011)ET(0.003)PS(0.086)S(0.9)PR;ELILGSET(0.006)PS(0.271)S(0.723)PR;ELILGSETPS(0.044)S(0.956)PR ;;; 222.56 1.07E-16 35538100 8809.4 8860.3 8052.9 8517.5 9970.5 10105.1 9522.8 9995.6 9180.8 9161.8 TRUE FALSE FALSE 9736.013111 9147.379533 9150.307274 8682.368529 9206.562444 9244.08863 8451.269481 9739.927025 9116.910065 9556.810035 1.018751349 0.957158246 0.957464598 0.908500692 0.963350994 0.967277637 0.884319082 1.019160891 0.95397 1 13.22231343 -7.174376625 4.427233383 1.008845305 0.947358159 0.13793371 0.038233399 0.151873065 5.339110363 0.005217953 0.006402842 6.69E-08 7.174376625 -0.061487146 ELIPQES(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 ELIPQESPR 9 0 Q96DF8 Q96DF8 DGCR14 Protein DGCR14 1 0 ELIPQES(1)PR;ELIPQES(1)PR;ELIPQES(1)PR ;; 112.64 0.0054699 38191200 7537.6 8447.4 7279.6 7538.2 7746.1 8832.4 7889.4 6918.6 7222.2 7470.5 TRUE FALSE FALSE 8330.439352 8721.101303 8271.625977 7684.112761 7152.595491 8079.82983 7001.663948 6741.63223 7171.940122 7792.589815 1.06902064 1.119153133 1.061473294 0.986079461 0.917871422 1.036860662 0.898502823 0.865133722 0.920353861 1 12.92788716 -6.014806132 3.637717358 1.043050773 0.935388774 0.366459306 0.063823133 0.164689067 4.691604385 0.008551895 0.015357853 9.66E-07 6.014806132 -0.107661999 ELISDNQYR ddPTM_HeLa_SAHA_4h_R1 1 ELISDNQYR 9 0 P25205;P25205-2 P25205 MCM3 DNA replication licensing factor MCM3 0 0 143.7 0.0043698 7460800 1584.5 1335.2 1284.5 1590 1792.2 1666.3 1896.8 1915.8 1717.2 1373.3 FALSE FALSE TRUE 1751.16498 1378.461356 1459.544971 1620.776749 1654.882023 1524.321866 1683.367072 1866.79661 1705.249865 1432.509684 1.222445474 0.962270183 1.018872673 1.131424637 1.155232695 1.06409184 1.175117412 1.303165089 1.190393255 1 10.48432918 -4.378550306 2.424959392 1.093968931 1.325393532 0.394410074 0.080115602 0.394870617 3.335152319 0.01341272 0.169138542 4.18E-05 4.378550306 0.231424601 ELISNASDALDK ddPTM_HeLa_SAHA_4h_R1 5 ELISNASDALDK 12 0 P08238;P14625;Q96GW1;A0A1W2PRR1;F8W026 P08238;P14625 HSP90AB1;HSP90B1 Heat shock protein HSP 90-beta;Endoplasmin 0 0 ;;;; ;;;; 174.23 1.22E-10 21929800 5219.27 5158.28 4348.66 5045.24 5100.9 6042.4 5360.28 5215.8 6026.78 5128.09 FALSE FALSE TRUE 5768.256765 5325.411656 4941.272738 5142.897916 4710.070144 5527.553526 4757.127187 5082.387388 5984.839147 5349.187056 1.078342691 0.995555325 0.923742746 0.961435422 0.88052074 1.033344594 0.889317785 0.950123324 1.118831532 1 12.38510394 -6.957264352 4.528571943 1.037115265 0.940460197 0.535607148 0.050473047 0.127163677 5.83905693 0.007446222 0.009760717 1.10E-07 6.957264352 -0.096655069 ELISNASDALDK(ac)IR ddPTM_HeLa_SAHA_4h_R1 1 ELISNASDALDKIR 14 1 P08238;P14625;Q96GW1;A0A1W2PRR1;F8W026 P08238;P14625 HSP90AB1;HSP90B1 Heat shock protein HSP 90-beta;Endoplasmin 0 1 ELISNASDALDK(1)IR 239.87 8.43E-56 1132400 0 328.72 307.66 187.73 239.67 390.81 377.12 284.51 196.01 222.01 FALSE TRUE FALSE 0 339.3707437 349.5863026 191.3637856 221.3065364 357.5107894 334.6854651 277.2326462 194.6459505 231.5819376 0 1.465445653 1.509557724 0.82633295 0.955629522 1.543776657 1.445214029 1.197125514 0.840505751 1 7.855378923 -7.244420724 24.75737586 0.527777765 1.273452214 0.450794161 0.331855351 539.1773049 784352.5328 0.071684408 0.087671861 5.70E-08 7.244420724 0.745674449 ELISNASDALDKIR ddPTM_HeLa_SAHA_4h_R1 2 ELISNASDALDKIR 14 1 P08238;P14625;Q96GW1;A0A1W2PRR1;F8W026 P08238;P14625 HSP90AB1;HSP90B1 Heat shock protein HSP 90-beta;Endoplasmin 0 0 ; ; 88.78 0.014623 9231300 1648.95 1682.01 2107.3 2039.66 2136.68 2100.1 2393.3 2312.2 1523.4 2002.91 FALSE FALSE TRUE 1822.394127 1736.508228 2394.47187 2079.140569 1972.96804 1921.159665 2123.999585 2253.057272 1512.798535 2089.265252 0.872265561 0.831157377 1.146083231 0.99515395 0.944335832 0.919538418 1.016625143 1.078396948 0.724081604 1 11.02877995 -6.780705922 24.99999738 0.92985633 1.00800252 0.290726158 0.098215095 328.8902338 426762.1048 0.013562154 0.017839274 1.66E-07 6.780705922 0.07814619 ELISNSSDALDK ddPTM_HeLa_SAHA_4h_R1 5 ELISNSSDALDK 12 0 P07900;P07900-2;G3V2J8;Q14568 P07900 HSP90AA1;HSP90AA2P Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-alpha A2 0 0 ;;;; ;;;; 207.95 2.60E-23 124232800 6569.6 6130.69 5919.22 6371.04 6253.04 7166.5 7155.78 6386.56 7509.45 6723.62 FALSE FALSE TRUE 7260.62067 6329.328378 6725.860476 6494.360692 5773.933426 6555.873882 6350.592801 6223.201043 7457.191126 7013.508163 1.035233795 0.90244828 0.958986618 0.925978917 0.823258959 0.93474959 0.905480204 0.887316433 1.063261203 1 12.77592055 -7.256739795 24.88457717 1.016638182 0.906273508 0.703281737 0.037470313 155.6515245 824184.9451 0.005930392 0.007136069 5.54E-08 7.256739795 -0.110364674 ELISNSSDALDK(ac)IR ddPTM_HeLa_SAHA_4h_R1 1 ELISNSSDALDKIR 14 1 P07900;P07900-2;G3V2J8 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 0 1 ELISNSSDALDK(1)IR 170.95 1.64E-10 1935100 184.81 465.81 190.09 127.08 465.45 256.76 463.97 330.02 229.93 64.061 FALSE TRUE FALSE 204.2491637 480.9025496 215.9944753 129.5398172 429.7873216 234.8826035 411.7628745 321.5785663 228.3298984 66.82298322 3.056570568 7.196663879 3.23233811 1.938551841 6.431729038 3.514997269 6.161994791 4.81239464 3.41693662 1 6.062272486 -5.770357985 24.99961361 2.532290181 5.174310021 0.143464883 1.773282045 184.6643359 517630.9985 0.293264152 0.537292891 1.70E-06 5.770357985 2.64201984 ELK(ac)IDIIPNPQER ddPTM_HeLa_SAHA_4h_R1 2 ELKIDIIPNPQER 13 1 P08238;Q58FF7 P08238 HSP90AB1;HSP90AB3P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 1 ; ELK(1)IDIIPNPQER;ELK(1)IDIIPNPQER 145.17 0.00012887 1001190 0 172.63 277.406 0 233.963 370.08 244.837 0 0 0 FALSE TRUE FALSE 0 178.2233253 315.209445 0 216.0368055 338.547102 217.2872964 0 0 0 0 ELKIDIIPNPQER ddPTM_HeLa_SAHA_4h_R1 2 ELKIDIIPNPQER 13 1 P08238;Q58FF7 P08238 HSP90AB1;HSP90AB3P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 0 ; ; 113.54 0.0016764 9345700 6266.3 4247.2 7161.8 5994.4 5532.9 6423.2 6894.2 5393.2 3984.6 5762.5 FALSE FALSE TRUE 6925.418185 4384.812067 8137.772807 6110.43028 5108.970397 5875.907224 6118.446471 5255.249753 3956.870844 6010.949576 1.152133801 0.729470778 1.353824833 1.016549915 0.849943979 0.97753394 1.017883513 0.874279461 0.658277165 1 12.5533772 -5.99249485 24.87343502 1.067133493 0.938802099 0 0.198725049 259.536267 860141.1235 0.021356263 0.038656457 1.02E-06 5.99249485 -0.128331394 ELKTDSS(ph)PNQAR ddPTM_HeLa_SAHA_4h_R1 2 ELKTDSSPNQAR 12 1 A6NLN1;P26599;P26599-2;P26599-3;K7ES59;A0A087WU68 A6NLN1 PTBP1 Polypyrimidine tract-binding protein 1 1 0 ELKT(0.001)DS(0.079)S(0.92)PNQAR;ELKT(0.023)DS(0.078)S(0.9)PNQAR ; 198.37 1.37E-09 125036600 4305.7 2916.6 3763.8 3268 3833.5 3883.7 3495.8 4857.3 2500.8 3194.1 TRUE FALSE FALSE 4758.593281 3011.099754 4276.711063 3331.256866 3539.778058 3552.786911 3102.443384 4733.057299 2483.396729 3331.813283 1.428229279 0.903742046 1.283598659 0.999832999 1.062417896 1.066322333 0.931157637 1.420564989 0.745358914 1 11.70209184 -7.248616878 24.97407916 1.202219389 1.090239986 0 0.227333474 1797.944145 3501814.347 0.033805742 0.041255022 5.64E-08 7.248616878 -0.111979403 ELLDTS(ph)FEDLSKPK ddPTM_HeLa_SAHA_4h_R1 2 ELLDTSFEDLSKPK 14 1 P78345 P78345 RPP38 Ribonuclease P protein subunit p38 1 0 ELLDT(0.203)S(0.779)FEDLS(0.018)KPK;ELLDT(0.238)S(0.755)FEDLS(0.007)KPK ; 79.347 0.01053 48541000 5034.7 4877.6 3617.4 5355 5705.3 7002.2 5805.1 5039.4 7757.5 5519.6 TRUE FALSE FALSE 5564.272846 5035.63744 4110.360433 5458.653768 5268.161147 6405.573167 5151.89487 4910.499445 7703.514926 5757.576968 0.966426133 0.874610529 0.713904557 0.948081771 0.914996217 1.112546684 0.894802605 0.85287604 1.337978627 1 12.49124608 -7.435377994 4.368867048 0.985758657 0.904836015 0.173054419 0.144786654 0.357163263 11.6678914 0.016876995 0.018982685 3.67E-08 7.435377994 -0.080922642 ELLEIVK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 ELLEIVKK 8 1 P31153-2;P31153 P31153-2 MAT2A S-adenosylmethionine synthase isoform type-2 0 1 ; ELLEIVK(1)K;ELLEIVK(1)K 99.442 0.0045813 1277510 542.09 1448.7 772.93 738.29 1398.5 1845.9 1749.51 2199.91 1614.02 890.13 FALSE TRUE FALSE 599.1095134 1495.638831 878.2608752 752.5806705 1291.347232 1688.618935 1552.65053 2143.639488 1602.787903 928.5078605 0.645239032 1.610798243 0.945884157 0.810526978 1.390776844 1.8186372 1.672199662 2.308692881 1.726197453 1 9.858770313 -4.677172825 0.580556031 0.863077776 2.740723565 0.402379463 0.387213715 0.974259036 0.296341555 0.056358762 1.113672322 2.10E-05 4.677172825 1.877645789 ELLETLGMMDMLFATMR ddPTM_HeLa_SAHA_4h_R1 1 ELLETLGMMDMLFATMR 17 0 H0Y8P4;Q8TED0-2;Q8TED0-3;Q8TED0 H0Y8P4 UTP15 U3 small nucleolar RNA-associated protein 15 homolog 0 0 105.13 0.014384 7396600 851.9 1038.4 1023.5 1016.6 1034 1438.3 1100.7 955.5 1146.7 1045.6 FALSE FALSE TRUE 941.5067507 1072.044841 1162.97725 1036.277763 954.7751434 1315.748748 976.8463391 931.0596935 1138.720021 1090.680933 0.863228394 0.982913342 1.066285487 0.950119995 0.875393632 1.206355322 0.895629794 0.853649922 1.044045043 1 10.0910134 ELLIFNK ddPTM_HeLa_SAHA_4h_R1 1 ELLIFNK 7 0 P09874 P09874 PARP1 Poly [ADP-ribose] polymerase 1 0 0 110.63 0.011101 379980 259.47 324.8 324.7 313.96 289.15 351.67 523.19 223.26 243.48 270.92 FALSE FALSE TRUE 286.7622451 335.3237331 368.948425 320.0371498 266.9953895 321.7057376 464.3192842 217.5493325 241.7856029 282.6006871 1.01472593 1.186563758 1.305546808 1.132471238 0.94477969 1.138375638 1.643022489 0.769811761 0.855573302 1 8.142621163 -7.269480368 13.19047748 1.006949023 1.174075006 0.139757165 0.218948932 1.645879519 2693.941474 0.033679784 0.039231604 5.38E-08 7.269480368 0.167125983 ELLIHER ddPTM_HeLa_SAHA_4h_R1 1 ELLIHER 7 0 Q96BN8 Q96BN8 OTULIN Ubiquitin thioesterase otulin 0 0 95.909 0.017762 2545300 2652.4 2802.2 2844.3 2598.3 3183.2 3325 3378.9 2228.1 2512 2947.8 FALSE FALSE TRUE 2931.391602 2892.993119 3231.906392 2648.593854 2939.303904 3041.691294 2998.697279 2171.108428 2494.518787 3074.894084 0.953330919 0.940843177 1.051062672 0.861361003 0.955904114 0.989201973 0.975219698 0.706075842 0.811253565 1 11.586321 -4.260926636 24.91746535 0.971318459 0.706075757 0.508654832 0.068350654 14.49104769 704002.9617 0.006098832 0.048314195 5.48E-05 4.260926636 -0.265242702 ELLLQPVTISR ddPTM_HeLa_SAHA_4h_R1 2 ELLLQPVTISR 11 0 F8WDD7;H7C0A3;F8WCF6;A0A0A6YYG9;P59998;P59998-3;P59998-2 F8WDD7 ARPC4;ARPC4-TTLL3 Actin-related protein 2/3 complex subunit 4 0 0 ; ; 117.25 0.007153 1364940 1020.86 791.78 675.88 900.22 1114.57 1101.73 1067.59 851.7 1018.71 775.94 FALSE FALSE TRUE 1128.238739 817.4341915 767.9854066 917.6450598 1029.171887 1007.856406 947.4619635 829.9147472 1011.620714 809.3945708 1.393929215 1.009932882 0.948839335 1.133742544 1.271532976 1.245197883 1.170581071 1.025352501 1.249848653 1 9.660699362 -9.798268834 1.809038688 0.999555843 1.193136663 0 0.15260973 0.514611854 3.049144795 0.115213848 0.024091101 1.59E-10 9.798268834 0.19358082 ELLQFK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 ELLQFKK 7 1 Q8IYH5-2;Q8IYH5;Q8IYH5-3 Q8IYH5-2 ZZZ3 ZZ-type zinc finger-containing protein 3 0 1 ; ELLQFK(1)K;ELLQFK(1)K 124.08 0.00063659 3818000 2941.9 2903.2 4144 4268.3 4510.8 3742 5146.9 3366.9 1704.28 2068.65 FALSE TRUE FALSE 3251.34254 2997.265585 4708.722739 4350.919119 4165.183479 3423.160548 4567.757266 3280.779573 1692.419777 2157.839625 1.506758196 1.389012209 2.182146756 2.016331088 1.930256276 1.586383208 2.116819625 1.520400096 0.784312123 1 11.07537193 -7.907616462 0.614256595 1.052094792 1.88485556 0.665141233 0.25706043 0.30369841 0.262828502 0.09899478 0.070649494 1.24E-08 7.907616462 0.832760769 ELLS(ph)PLSEPDDRYPLIVK ddPTM_HeLa_SAHA_4h_R1 1 ELLSPLSEPDDRYPLIVK 18 1 Q9UHB7;Q9UHB7-2 Q9UHB7 AFF4 AF4/FMR2 family member 4 1 0 ELLS(0.981)PLS(0.019)EPDDRYPLIVK 103.17 0.0010465 6485100 1242.8 1546.3 1023 1434.1 1700.1 1398.6 1640.2 1421.1 1672.2 1471.1 TRUE FALSE FALSE 1373.523406 1596.401135 1162.409112 1461.859079 1569.838705 1279.431412 1455.640379 1384.75032 1660.563024 1534.52632 0.895079731 1.040321768 0.757503535 0.952645165 1.023011912 0.833763093 0.948592644 0.902395939 1.082133947 1 10.58357768 -9.442937375 0.913432553 1.005593241 0.91801381 0.224474188 0.083027398 1.101252529 1.463522051 0.070260512 0.013566514 3.61E-10 9.442937375 -0.087579431 ELLSPLS(ph)EPDDRYPLIVK ddPTM_HeLa_SAHA_4h_R1 1 ELLSPLSEPDDRYPLIVK 18 1 Q9UHB7;Q9UHB7-2 Q9UHB7 AFF4 AF4/FMR2 family member 4 1 0 ELLS(0.313)PLS(0.686)EPDDRY(0.001)PLIVK 83.776 0.003185 60150000 1346.2 1557.5 1172.9 1329.4 1867.6 1819.6 1690.1 1432.2 1923.5 1560.1 TRUE FALSE FALSE 1487.799493 1607.964022 1332.736704 1355.132459 1724.504891 1664.559843 1499.9255 1395.566398 1910.114207 1627.363546 0.914239167 0.98807917 0.818954503 0.83271649 1.059692467 1.022856784 0.921690487 0.857562775 1.173747692 1 10.66832086 -9.323418851 0.930779833 1.002138648 0.928671632 0.220067776 0.093506361 1.195250745 1.766367875 0.061680265 0.014525988 4.75E-10 9.323418851 -0.073467016 ELLTLDEK(ac)DPR ddPTM_HeLa_SAHA_4h_R1 1 ELLTLDEKDPR 11 1 P46781;B5MCT8;C9JM19;F2Z3C0;A8MXK4 P46781 RPS9 40S ribosomal protein S9 0 1 ELLTLDEK(1)DPR 101.3 0.01012 1926300 710.68 990.83 688.75 784.86 1149.3 1147.5 1413 911 1106.3 525.1 FALSE TRUE FALSE 785.4325831 1022.933542 782.6092631 800.0521002 1061.240882 1049.726544 1254.005521 887.6979391 1098.601168 547.7396308 1.433952446 1.867554372 1.428797953 1.460643078 1.937491506 1.916469953 2.289419006 1.620656767 2.005699618 1 9.097346458 -7.415615568 0.214109618 0.751607576 2.222199936 0 0.384984111 0.985283841 0.198970352 0.561857476 0.549191821 3.84E-08 7.415615568 1.470592359 ELLTTMGDR ddPTM_HeLa_SAHA_4h_R1 2 ELLTTMGDR 9 0 J3QRS3;P19105;O14950;P24844;P24844-2 J3QRS3;P24844;P24844-2 MYL12A;MYL12B;MYL9 Myosin regulatory light chain 12A;Myosin regulatory light chain 12B;Myosin regulatory light polypeptide 9 0 0 ; ; 146.81 0.0034549 15282800 2510.3 2029.97 1821.7 2207.5 2169 2767.7 2371.2 2049.45 2867.5 2263.24 FALSE FALSE TRUE 2774.344872 2095.74236 2069.951789 2250.229355 2002.811689 2531.876389 2104.386335 1997.028037 2847.544834 2360.819352 1.175161864 0.887718223 0.876793808 0.953156095 0.848354486 1.07245664 0.891379653 0.845904637 1.206168033 1 11.20507194 -7.246925926 24.74436123 1.082715326 0.91420889 0.572743324 0.08295366 464.8832429 792591.9042 0.014402092 0.017597044 5.66E-08 7.246925926 -0.168506436 ELLTTMGDRFTDEEVDELYR ddPTM_HeLa_SAHA_4h_R1 4 ELLTTMGDRFTDEEVDELYR 20 1 J3QRS3;P19105;O14950 J3QRS3 MYL12A;MYL12B Myosin regulatory light chain 12A;Myosin regulatory light chain 12B 0 0 ;;; ;;; 175.7 3.21E-09 81522200 3924.16 3918.88 4729.52 4562.36 5576.52 4752.51 4943.39 4584.78 3921.5 4183.23 FALSE FALSE TRUE 4336.921153 4045.854283 5374.034355 4650.671075 5149.248242 4347.569411 4387.146747 4467.507966 3894.209962 4363.589518 0.993888434 0.927184894 1.231562761 1.06579023 1.180048724 0.996328686 1.00539859 1.0238149 0.892432697 1 12.09129968 ELLTTMGDRFTDEEVDEMYR ddPTM_HeLa_SAHA_4h_R1 2 ELLTTMGDRFTDEEVDEMYR 20 1 P24844;P24844-2 P24844;P24844-2 MYL9 Myosin regulatory light polypeptide 9 0 0 ; ; 78.225 0.005155 9836700 1297.01 1034.22 1007.61 1195.07 1066.74 1588.61 1149.31 1082.68 1082.67 1102.98 FALSE FALSE TRUE 1433.435463 1067.729407 1144.921843 1218.202308 985.0066117 1453.251491 1019.986614 1054.986613 1075.135611 1150.534866 1.245886157 0.928028727 0.99512138 1.0588139 0.856129302 1.263109476 0.886532555 0.916953188 0.934465911 1 10.16808899 -7.24073205 24.91836779 1.116112917 0.991298933 0.010094973 0.134368911 1081.567372 1301516.12 0.022314751 0.027312611 5.74E-08 7.24073205 -0.124813984 ELLVPLTSSMYVPGK ddPTM_HeLa_SAHA_4h_R1 1 ELLVPLTSSMYVPGK 15 0 Q99471 Q99471 PFDN5 Prefoldin subunit 5 0 0 125.54 0.00090671 284710 158.48 293.44 140.11 178.92 172 206.91 121.92 130.57 160.7 155.28 FALSE FALSE TRUE 175.1496535 302.9476485 159.2034611 182.3832553 158.8213972 189.280104 108.2012407 127.2302085 159.5816756 161.9748807 1.08133837 1.870337223 0.982889819 1.125997158 0.980531033 1.1685769 0.668012474 0.785493454 0.985224838 1 7.339626285 -4.760876462 24.99999297 1.103729336 0.726752866 0.291398496 0.255807381 14.64122187 650063.5046 0.035473078 0.11850069 1.73E-05 4.760876462 -0.37697647 ELMIHAPT(ph)VSGWRSPSYVS(ph)LCDNEK ddPTM_HeLa_SAHA_4h_R1 1 ELMIHAPTVSGWRSPSYVSLCDNEK 25 1 Q5SR27 Q5SR27 CEP104 2 0 ELMIHAPT(0.5)VS(0.5)GWRSPS(0.138)Y(0.114)VS(0.748)LCDNEK 84.975 7.85E-05 0 922.85 987.5 810.91 1115.6 1138.8 1161.3 1068.7 1214.3 1263.1 1064 TRUE FALSE FALSE 1019.919597 1019.495648 921.4165918 1137.194051 1051.54539 1062.350707 948.4470633 1183.239964 1254.309984 1109.874247 0.918950593 0.918568613 0.830199092 1.024615225 0.947445526 0.957181149 0.854553627 1.06610273 1.130137029 1 10.11618051 -9.329367984 1.088891171 0.99946925 0.935246335 0.200807351 0.07859154 0.836809646 1.797815794 0.040075106 0.010923522 4.68E-10 9.329367984 -0.064222915 ELNDWLT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 ELNDWLTK 8 0 A0A075B6G3;P11532-4;A0A087WTU7;A0A5H1ZRP8;A0A087WV90;P11532-11;P11532;Q4G0X0 A0A075B6G3 DMD Dystrophin 1 0 ELNDWLT(1)K 104.21 0.014681 16719000 1936.5 1618.8 2543.1 5808.5 1725.6 1702.2 2052.3 4174.2 3592.9 2416.1 TRUE FALSE FALSE 2140.189955 1671.250182 2889.660424 5920.931917 1593.384901 1557.162984 1821.369803 4067.430008 3567.896716 2520.269895 0.849190779 0.663123495 1.146567846 2.349324542 0.632227883 0.617855646 0.722688394 1.613886678 1.415680409 1 11.29936252 -6.571701456 23.40363972 0.906773277 1.163830739 0.025324346 0.520922405 147.5669261 70736.68172 0.079030205 0.111765625 2.68E-07 6.571701456 0.257057462 ELNFVTDSVEQELPS(ph)SPKQPICFDR ddPTM_HeLa_SAHA_4h_R1 1 ELNFVTDSVEQELPSSPKQPICFDR 25 1 B4DP81;Q8TAP6-2;Q8TAP6 B4DP81 CEP76 Centrosomal protein of 76 kDa 1 0 ELNFVTDSVEQELPS(0.739)S(0.261)PKQPICFDR 104.29 1.62E-06 5571400 461.42 393.43 315.55 585.04 475.37 407.56 579.16 452.84 466.62 439.78 TRUE FALSE FALSE 509.9542727 406.1773901 358.5515107 596.3642952 438.9472533 372.8335951 513.9913925 441.2570085 463.3727534 458.741068 1.111638587 0.885417545 0.781598892 1.300001977 0.95685188 0.812732108 1.12043902 0.961886867 1.010096514 1 8.841536258 -7.278437624 24.81997888 1.052718218 0.978015714 0.040401193 0.143947107 1817.333533 2653573.042 0.024334881 0.02786773 5.27E-08 7.278437624 -0.074702505 ELNFVTDSVEQELPSS(ph)PKQPICFDR ddPTM_HeLa_SAHA_4h_R1 1 ELNFVTDSVEQELPSSPKQPICFDR 25 1 B4DP81;Q8TAP6-2;Q8TAP6 B4DP81 CEP76 Centrosomal protein of 76 kDa 1 0 ELNFVTDSVEQELPS(0.243)S(0.757)PKQPICFDR 119.69 8.58E-08 6873800 960.73 640.69 958.6 1122.3 1102.2 1164 889.85 885.95 669.08 972.91 TRUE FALSE FALSE 1061.783989 661.4487764 1089.233016 1144.023739 1017.749674 1064.820652 789.721736 863.2886818 664.4238178 1014.856911 1.046240093 0.651765553 1.073287282 1.127275901 1.002850414 1.0492323 0.778160672 0.850650641 0.654697042 1 9.987060615 -4.76038789 24.99886433 1.007155989 0.81440561 0.014960099 0.165929796 25.25479763 600337.3625 0.016746747 0.05627844 1.74E-05 4.76038789 -0.192750379 ELNITAAK ddPTM_HeLa_SAHA_4h_R1 2 ELNITAAK 8 0 P62081;A0A2R8Y623;B5MCP9 P62081 RPS7 40S ribosomal protein S7 0 0 ; ; 133.57 0.00072443 13067000 9646.2 9165.6 8301.3 9629 10640.7 10180.1 10013.4 8625.8 8927.5 8875.8 FALSE FALSE TRUE 10660.83157 9462.571454 9432.557933 9815.383219 9825.411865 9312.698208 8886.665878 8405.164526 8865.372801 9258.479175 1.15146682 1.022043823 1.01880209 1.060150704 1.061233889 1.005856149 0.959840781 0.907834253 0.957540934 1 13.17655952 -4.529820323 0.933377647 1.06576599 0.857100749 0.328152494 0.052482685 1.022030678 0.876331855 0.009271595 0.195032084 2.95E-05 4.529820323 -0.208665241 ELNS(ph)NHDGADETSEKEQQEAIEHIDEVQNEIDR ddPTM_HeLa_SAHA_4h_R1 1 ELNSNHDGADETSEKEQQEAIEHIDEVQNEIDR 33 1 Q01105-2 Q01105-2 SET Protein SET 1 0 ELNS(0.832)NHDGADET(0.109)S(0.059)EKEQQEAIEHIDEVQNEIDR 44.564 0.010034 2503000 203.22 0 155.99 166.45 246.22 268.89 242.31 202.02 397.55 244.65 TRUE FALSE FALSE 224.595612 0 177.2475048 169.6718804 227.3546768 245.9790593 215.0446411 196.8526209 394.7834172 255.1980588 0.880083544 0 0.694548797 0.664863523 0.890895009 0.963875119 0.842657825 0.771371937 1.546968731 1 7.995473545 -7.503115802 22.48233482 0.947096521 0.693627281 0.245366303 0.313814474 67.75277622 77078.84205 0.045912591 0.049254353 3.14E-08 7.503115802 -0.253469241 ELNSNHDGADET(ph)SEKEQQEAIEHIDEVQNEIDR ddPTM_HeLa_SAHA_4h_R1 2 ELNSNHDGADETSEKEQQEAIEHIDEVQNEIDR 33 1 Q01105-2 Q01105-2 SET Protein SET 1 0 ELNS(0.001)NHDGADET(0.5)S(0.5)EKEQQEAIEHIDEVQNEIDR;ELNS(0.002)NHDGADET(0.499)S(0.499)EKEQQEAIEHIDEVQNEIDR ; 80.174 8.94E-08 9744700 269.3 652.75 353.68 474.28 756.92 1493.49 529.37 538.87 850.6 704.77 TRUE FALSE FALSE 297.6262096 673.8995283 401.8776685 483.4603752 698.9249531 1366.23625 469.8038944 525.0864857 844.6806053 735.1560838 0.404847646 0.916675442 0.546656251 0.657629565 0.950716411 1.858430176 0.639053263 0.714251704 1.148981317 1 9.521906776 -5.610639891 5.669933885 0.712010808 1.085577458 0.095067202 0.371139012 0.276953479 14.08408826 0.054423786 0.110206828 2.45E-06 5.610639891 0.37356665 ELNSNHDGADET(ph)SEKEQQEAIEHIDEVQNEIDRLNEQASEEILK ddPTM_HeLa_SAHA_4h_R1 2 ELNSNHDGADETSEKEQQEAIEHIDEVQNEIDRLNEQASEEILK 44 2 Q01105-2 Q01105-2 SET Protein SET 1 0 ELNSNHDGADET(0.5)S(0.5)EKEQQEAIEHIDEVQNEIDRLNEQASEEILK;ELNS(0.004)NHDGADET(0.498)S(0.498)EKEQQEAIEHIDEVQNEIDRLNEQASEEILK ; 57.155 0.00019964 14632600 857.28 1093.69 862.98 971.31 1957.04 3148.1 1129.76 1058.93 1473.61 1388.01 TRUE FALSE FALSE 947.4526437 1129.126274 980.5824202 990.1111096 1807.092018 2879.864169 1002.636431 1031.844104 1463.355028 1447.853904 0.654384148 0.779862022 0.677266137 0.683847387 1.248117654 1.989057157 0.692498344 0.712671424 1.010706276 1 10.49970032 -5.755938838 24.9776062 0.805395193 1.186327857 0.197315548 0.353706281 169.2553613 768569.0054 0.052863466 0.103363755 1.75E-06 5.755938838 0.380932663 ELNSNHDGADETSEKEQQEAIEHIDEVQNEIDRLNEQASEEILK ddPTM_HeLa_SAHA_4h_R1 1 ELNSNHDGADETSEKEQQEAIEHIDEVQNEIDRLNEQASEEILK 44 2 Q01105-2 Q01105-2 SET Protein SET 0 0 25.461 0.022634 2066500 153.12 198.72 123.3 238.94 0 384.3 162.17 163.12 178.79 196.1 FALSE FALSE TRUE 169.2258641 205.1586584 140.1026819 243.5650292 0 351.555478 143.9222048 158.9476266 177.5457858 204.5548307 0.827288525 1.002951911 0.684915049 1.190707784 0 1.71863689 0.703587416 0.777041667 0.867961833 1 7.676343798 -9.414282697 0.932470238 1.007347979 0.863596424 0.000293949 0.410597562 3.145161113 4.469599015 0.329086404 0.067848092 3.85E-10 9.414282697 -0.143751555 ELNYFAK ddPTM_HeLa_SAHA_4h_R1 2 ELNYFAK 7 0 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 0 0 ; ; 141.78 2.29E-05 6158500 5968.5 5219.4 5179.4 5752.7 6214.9 5835.4 6689.5 4258.1 4169.6 4548.5 FALSE FALSE TRUE 6596.294214 5388.511985 5885.221659 5864.051827 5738.715705 5338.191091 5936.779854 4149.183968 4140.583414 4744.608095 1.390271669 1.135712766 1.240402061 1.235940189 1.209523651 1.125106855 1.251268753 0.874505098 0.872692398 1 12.21207321 -4.254697984 23.95943457 1.192757308 0.874504831 0.254205382 0.139384005 413.4526198 1469370.005 0.019357062 0.245542182 5.56E-05 4.254697984 -0.318252476 ELPDSS(ph)SPVPANNIR ddPTM_HeLa_SAHA_4h_R1 2 ELPDSSSPVPANNIR 15 0 A0A0C4DH56;Q9BWT3-2;Q9BWT3 A0A0C4DH56 PAPOLG Poly(A) polymerase gamma 1 0 ELPDS(0.002)S(0.499)S(0.499)PVPANNIR;ELPDS(0.005)S(0.498)S(0.498)PVPANNIR ; 162.7 5.74E-06 14683300 2323.18 1840.57 2018.65 2299.42 2267.06 3078.4 2125.87 2894.09 2700.61 2313.07 TRUE FALSE FALSE 2567.542732 1900.205676 2293.741109 2343.928599 2093.358353 2816.103001 1886.661513 2820.063368 2681.816235 2412.797768 1.064135074 0.787552816 0.95065618 0.971456717 0.867606221 1.167152523 0.781939348 1.168793923 1.111496484 1 11.23649128 ELPESGIQLGT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 ELPESGIQLGTPR 13 0 A0A087WW69;F8W8L6;A0A087WTA5;E7ERK9;Q9UI10-3;Q9UI10;Q9UI10-2 A0A087WW69 EIF2B4 Translation initiation factor eIF-2B subunit delta 1 0 ELPESGIQLGT(1)PR;ELPESGIQLGT(1)PR ; 176.43 2.38E-05 33969000 1570.59 1471.93 1274.5 1325.62 1647.29 1757.65 1452.97 1461.94 1520.95 1603.56 TRUE FALSE FALSE 1735.791862 1519.621498 1448.182223 1351.279292 1521.074996 1607.888332 1289.477992 1424.545692 1510.365585 1672.697319 1.037720239 0.908485642 0.865776615 0.807844478 0.909354597 0.961254803 0.770897386 0.851645827 0.902952117 1 10.70796069 -7.104368985 3.39787471 1.017781371 0.8622671 0.388845321 0.061323058 0.10845758 2.348692614 0.008577854 0.010704828 7.86E-08 7.104368985 -0.155514271 ELPPLS(ph)PSLSR ddPTM_HeLa_SAHA_4h_R1 1 ELPPLSPSLSR 11 0 Q86UU1-3;Q86UU1-2;Q86UU1 Q86UU1-3 PHLDB1 Pleckstrin homology-like domain family B member 1 1 0 ELPPLS(0.714)PS(0.286)LSR 126.5 0.0016416 74599000 2687.4 2641.5 2164 1950 2596.8 2661.2 2645 2382.5 2632.5 2349.5 TRUE FALSE FALSE 2970.073062 2727.086333 2458.89865 1987.74507 2397.833745 2434.450788 2347.377639 2321.5591 2614.180218 2450.798443 1.211879774 1.112733828 1.00330513 0.811060198 0.978388799 0.993329662 0.957801179 0.947266433 1.066664713 1 11.25903612 -6.613389507 4.442785207 1.103455134 0.940937321 0.553091569 0.067565692 0.159478005 5.72937202 0.014480952 0.020731022 2.44E-07 6.613389507 -0.162517813 ELPPLS(ph)PSLSRR ddPTM_HeLa_SAHA_4h_R1 1 ELPPLSPSLSRR 12 1 Q86UU1-3;Q86UU1-2;Q86UU1 Q86UU1-3 PHLDB1 Pleckstrin homology-like domain family B member 1 1 0 ELPPLS(0.984)PS(0.015)LS(0.001)RR 72.209 0.016196 3429300 1067.6 843.13 1123 1417.9 915.52 1001.6 1274.2 1557.1 883.43 1097.6 TRUE FALSE FALSE 1179.895066 870.4479652 1276.036592 1445.345505 845.3730554 916.2580452 1130.823662 1517.271637 877.2821387 1144.922908 1.030545427 0.760267752 1.114517478 1.262395481 0.738366793 0.800279249 0.98768542 1.325217293 0.766236864 1 10.16103474 -4.261525558 11.2532073 0.986923386 1.32560282 0.281071943 0.17056696 0.062393554 497.7093957 0.021148898 0.162801589 5.48E-05 4.261525558 0.338679433 ELPPLSPS(ph)LSR ddPTM_HeLa_SAHA_4h_R1 1 ELPPLSPSLSR 11 0 Q86UU1-3;Q86UU1-2;Q86UU1 Q86UU1-3 PHLDB1 Pleckstrin homology-like domain family B member 1 1 0 ELPPLS(0.226)PS(0.771)LS(0.002)R 120.03 0.0021842 83280000 2077.4 2474.7 2195.6 2150.6 2472.8 2259.9 2509.7 2155.7 2370 2310.5 TRUE FALSE FALSE 2295.910463 2554.881904 2494.804934 2192.227973 2283.334598 2067.343806 2227.301951 2100.560315 2353.506977 2410.116962 0.952613711 1.060065525 1.035138532 0.909594019 0.947395763 0.857777377 0.92414683 0.871559492 0.976511519 1 11.23488745 -6.161279404 6.990959469 0.988413464 0.90266836 0.636097201 0.037873558 0.164410646 10.01509157 0.006205523 0.010330858 6.90E-07 6.161279404 -0.085745104 ELPPS(ph)PEKK ddPTM_HeLa_SAHA_4h_R1 5 ELPPSPEKK 9 1 E7EVA0;P27816;P27816-6;P27816-4;B5MEG9;P27816-5;H0Y2V1;H7C4C5;F8W9U4;P27816-3 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 ELPPS(1)PEKK;ELPPS(1)PEKK;ELPPS(1)PEKK;ELPPS(1)PEKK;ELPPS(1)PEKK ;;;; 152.67 0.00081326 173872000 11715.55 14606.7 9117.16 13028.48 13240.84 16637.4 13589.74 13455.54 19744.6 13644.47 TRUE FALSE FALSE 12947.8453 15079.96666 10359.59908 13280.66507 12226.3297 15219.79992 12060.58669 13111.36677 19607.19572 14232.74988 0.909721973 1.059525868 0.727870522 0.933106054 0.859027932 1.069350621 0.847382747 0.921211072 1.377611206 1 13.79692681 -9.359209041 0.539640221 1.01879506 0.912001033 0.168665534 0.152100282 2.729515278 1.044031015 0.153210602 0.021754399 4.37E-10 9.359209041 -0.106794026 ELPSFLGK ddPTM_HeLa_SAHA_4h_R1 2 ELPSFLGK 8 0 P26447 P26447 S100A4 Protein S100-A4 0 0 ; ; 120.46 0.0034361 3672400 3713.4 3562.7 3739.3 4286.4 4118 4530.8 3886.8 3621.2 4038.9 3353.4 FALSE FALSE TRUE 4103.99245 3678.133818 4248.872331 4369.36947 3802.47973 4144.75035 3449.447035 3528.574947 4010.792966 3497.981485 1.173245904 1.051501797 1.214664042 1.249111663 1.087049702 1.184897738 0.986125012 1.008746033 1.146602114 1 11.77230694 -4.738178921 24.98539955 1.108614794 0.997435403 0.297902975 0.076292273 302.4491625 324872.7408 0.012815781 0.047892914 1.83E-05 4.738178921 -0.111179391 ELPSGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 ELPSGKK 7 1 P30041 P30041 PRDX6 Peroxiredoxin-6 0 1 ; ELPSGK(1)K;ELPSGK(1)K 122.74 0.00083826 64031000 19929.8 18518.6 16044.4 23096.7 22759 21855.3 23691 25327 22593 17180.8 FALSE TRUE FALSE 22026.10781 19118.61479 18230.84728 23543.77003 21015.21034 19993.10549 21025.22633 24679.17201 22435.77347 17921.54837 1.229029287 1.06679481 1.017258492 1.313712942 1.172622471 1.115590298 1.173181351 1.377066953 1.251888119 1 14.12940767 -13.28811167 0.24931411 3.06E-15 1.206199824 0 0.126549417 38.15255929 0.560094601 18.83094258 0.061551565 5.15E-14 13.28811167 1.206199824 ELPSLSPAPDTGLS(ph)PSKR ddPTM_HeLa_SAHA_4h_R1 1 ELPSLSPAPDTGLSPSKR 18 1 Q9UBF8-2;A0A0B4J1S8;Q9UBF8;A0A0A0MSL0 Q9UBF8-2 PI4KB Phosphatidylinositol 4-kinase beta 1 0 ELPSLSPAPDT(0.1)GLS(0.823)PS(0.077)KR 110.16 0.00062921 4738400 2021.7 1943.2 1669.8 1755.5 2076.3 2198.7 1898.3 1716.4 2074.4 1732.4 TRUE FALSE FALSE 2234.351682 2006.160955 1897.351648 1789.480241 1917.214343 2011.35839 1684.698288 1672.496973 2059.964082 1807.092242 1.236434771 1.110159685 1.049947315 0.990253956 1.060938837 1.113035817 0.932270223 0.925518318 1.139933 1 10.81945443 -6.612837842 3.390547902 1.114637761 1.010053787 0.352175788 0.074485404 0.316822365 7.260459648 0.016487675 0.023952844 2.44E-07 6.612837842 -0.104583974 ELPSLSPAPDTGLSPS(ph)KR ddPTM_HeLa_SAHA_4h_R1 1 ELPSLSPAPDTGLSPSKR 18 1 Q9UBF8-2;A0A0B4J1S8;Q9UBF8;A0A0A0MSL0 Q9UBF8-2 PI4KB Phosphatidylinositol 4-kinase beta 1 0 ELPSLSPAPDT(0.118)GLS(0.091)PS(0.79)KR 50.851 0.02312 12031000 238.69 283.94 395.41 206.9 170.33 419.82 236.84 390.42 232.85 421.91 TRUE FALSE FALSE 263.7965093 293.1398423 449.2944156 210.9048487 157.2793522 384.0489742 210.1901399 380.4336217 231.2295779 440.1006049 0.59940047 0.666074618 1.020890248 0.479219629 0.357371361 0.872639051 0.477595662 0.864424219 0.525401636 1 8.781689544 -9.386347685 0.767346197 1.036649588 0.6560525 0 0.244319566 0.84295709 0.746409756 0.209665709 0.037297715 4.11E-10 9.386347685 -0.380597088 ELQEAAAVPTT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 ELQEAAAVPTTPR 13 0 Q96T58 Q96T58 SPEN Msx2-interacting protein 1 0 ELQEAAAVPT(0.037)T(0.963)PR;ELQEAAAVPT(0.016)T(0.984)PR ; 139.64 0.00071104 8917900 3840.8 3996.9 3725.7 3692.3 4136.1 4499.3 4612.5 4788.9 4559.3 4371.2 TRUE FALSE FALSE 4244.792966 4126.402182 4233.418993 3763.769806 3819.192912 4115.934328 4093.489361 4666.406872 4527.57146 4559.663824 0.930944282 0.904979477 0.928449806 0.82544897 0.837604056 0.902683725 0.897761221 1.023410289 0.992961682 1 12.15471175 -8.257980891 0.693712775 0.99413619 0.897133919 0.33591885 0.050996513 0.525017029 0.548968692 0.022895084 0.012898898 5.52E-09 8.257980891 -0.097002271 ELQELVQYPVEHPDK ddPTM_HeLa_SAHA_4h_R1 2 ELQELVQYPVEHPDK 15 0 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 ; ; 178.14 3.68E-07 19507100 6148.1 6089 5091.7 5965.4 6257.3 7111.9 6624.6 6007.2 8022.6 6373 FALSE FALSE TRUE 6794.785366 6286.287595 5785.57036 6080.868943 5777.867026 6505.92611 5879.182573 5853.544522 7966.770073 6647.771219 1.022114803 0.945623336 0.870302267 0.914722956 0.869143482 0.978662757 0.884384011 0.880527372 1.198412191 1 12.69865502 -7.06957996 3.780910073 1.010226392 0.901901224 0.519978026 0.066853312 0.085047259 2.36575568 0.004944508 0.006206712 8.52E-08 7.06957996 -0.108325168 ELQEMDKDDESLIK ddPTM_HeLa_SAHA_4h_R1 2 ELQEMDKDDESLIK 14 1 F5H2R5;F5H6Q0;F5H3P3;H0YGX7;P52566 F5H2R5 ARHGDIB Rho GDP-dissociation inhibitor 2 0 0 ; ; 139.74 0.00035678 14923200 2035.23 1693.07 1830.46 2222.1 2060.68 2861.4 2033.57 2430.6 2591.1 2053.03 FALSE FALSE TRUE 2249.304829 1747.926579 2079.905556 2265.111959 1902.791144 2617.592622 1804.747352 2368.428771 2573.068324 2141.546171 1.050318158 0.81619841 0.971216771 1.057699334 0.888512781 1.222291006 0.842731003 1.105943362 1.20150028 1 11.06443707 -3.298636804 13.76189281 1.006532949 1.006238385 0 0.133138409 0 0 0.013800255 0 0.000502763 3.298636804 -0.000294565 ELQGDGPPS(ph)SPTNDPTVK ddPTM_HeLa_SAHA_4h_R1 1 ELQGDGPPSSPTNDPTVK 18 0 Q12873-2;Q12873;Q12873-3;A0A5F9ZHX5 Q12873-2 CHD3 Chromodomain-helicase-DNA-binding protein 3 1 0 ELQGDGPPS(0.492)S(0.492)PT(0.016)NDPTVK 187.56 9.80E-13 12648000 5775.1 7463 5323.6 6790.1 7454.8 8081.5 7874 7262.3 7583.8 6632 TRUE FALSE FALSE 6382.551515 7704.806097 6049.072484 6921.532204 6883.614835 7392.910735 6987.996797 7076.540882 7531.023718 6917.937976 0.922608953 1.113743159 0.874403978 1.000519552 0.99503853 1.068658141 1.010127125 1.022926327 1.088622613 1 12.75612636 -5.664051409 2.63209312 0.969580899 1.030993041 0 0.070768176 0.37274376 5.224534554 0.008819801 0.019250098 2.17E-06 5.664051409 0.061412142 ELQGDGPPSS(ph)PTNDPTVK ddPTM_HeLa_SAHA_4h_R1 1 ELQGDGPPSSPTNDPTVK 18 0 Q12873-2;Q12873;Q12873-3;A0A5F9ZHX5 Q12873-2 CHD3 Chromodomain-helicase-DNA-binding protein 3 1 0 ELQGDGPPS(0.452)S(0.539)PT(0.008)NDPTVK 241.11 1.98E-37 13356000 5284.6 6107.7 4950.3 6266.1 6904.9 7979.4 6886.9 6653.1 8216.2 6311 TRUE FALSE FALSE 5840.458475 6305.593487 5624.901104 6387.389426 6375.848054 7299.510229 6111.967887 6482.923336 8159.022795 6583.098095 0.887189951 0.957845895 0.854445889 0.970271039 0.968517856 1.108825985 0.92843336 0.984783037 1.239389521 1 12.68455098 -5.736873645 3.187012564 0.939626767 1.003216368 0 0.110495437 0.338268818 7.088441348 0.00941783 0.019273645 1.83E-06 5.736873645 0.063589601 ELQPIVYT(ph)PEDCRK ddPTM_HeLa_SAHA_4h_R1 1 ELQPIVYTPEDCRK 14 1 Q8NI77 Q8NI77 KIF18A Kinesin-like protein KIF18A 1 0 ELQPIVYT(1)PEDCRK 110.38 0.00052953 0 619.53 607.15 484.92 718.71 673.31 1054.8 700.12 711.75 950.43 805.94 TRUE FALSE FALSE 684.6950079 626.8220584 551.0023722 732.6216713 621.7211333 964.9251059 621.340655 693.5444656 943.8158802 840.6880176 0.814446018 0.745606034 0.655418372 0.871454875 0.739538474 1.147780253 0.739085894 0.824972464 1.122670789 1 9.7154267 -9.043844276 0.92702761 0.995460585 0.81887632 0.32460887 0.132143681 0.640344854 1.032320425 0.070955972 0.023745439 9.04E-10 9.043844276 -0.176584264 ELRAPS(ph)PPVEHPR ddPTM_HeLa_SAHA_4h_R1 1 ELRAPSPPVEHPR 13 1 Q86WR7-2;Q86WR7 Q86WR7-2 PROSER2 Proline and serine-rich protein 2 1 0 ELRAPS(1)PPVEHPR 76.051 0.01378 18830000 3389.9 2918 2915 3002.3 3924.7 3019 3424.2 3442.4 2133.2 2574.1 TRUE FALSE FALSE 3746.465235 3012.545115 3312.241019 3060.413858 3623.990334 2761.764216 3038.900004 3354.348393 2118.354888 2685.082048 1.395288922 1.121956447 1.233571623 1.139784112 1.349675827 1.028558594 1.131771748 1.249253592 0.788934881 1 11.39075046 -4.215227389 19.83399515 1.183411724 1.249256763 0 0.172229457 8699.839322 3732672.393 0.021310222 7.969216752 6.09E-05 4.215227389 0.065845039 ELS(ph)APAR ddPTM_HeLa_SAHA_4h_R1 2 ELSAPAR 7 0 F5H672;F5H5N2;B4DNC9;B3KQ30;Q9H1K1 F5H672 ISCU "Iron-sulfur cluster assembly enzyme ISCU, mitochondrial" 1 0 ELS(1)APAR;ELS(1)APAR ; 101.25 0.012934 93492000 6390.1 6636.8 6417.7 6175.7 6976.9 7601.8 6832.1 7265 6502.8 6602.2 TRUE FALSE FALSE 7062.240037 6851.836675 7292.270734 6295.239604 6442.331429 6954.083873 6063.334127 7079.17182 6457.546485 6886.853152 1.025466912 0.99491546 1.058868335 0.914095228 0.935453579 1.009762183 0.880421579 1.027925478 0.937662869 1 12.7496292 -6.257290886 24.96898811 1.013969801 0.951589528 0.18713042 0.049468515 289.2171468 1740740.81 0.005875677 0.009512251 5.53E-07 6.257290886 -0.062380273 ELS(ph)DLEEENR ddPTM_HeLa_SAHA_4h_R1 2 ELSDLEEENR 10 0 Q5M775-4;Q5M775;Q5M775-5;Q5M775-3;Q5M775-2 Q5M775-4 SPECC1 Cytospin-B 1 0 ELS(1)DLEEENR;ELS(1)DLEEENR ; 149.94 0.00064368 12177500 1707.81 2042.41 1486.07 2168.15 2266.82 2407.35 2063.46 1973.57 2693.3 1776.14 TRUE FALSE FALSE 1887.445292 2108.585424 1688.58388 2210.117678 2093.136741 2202.230237 1831.27405 1923.088937 2674.557106 1852.718088 1.018743922 1.138103761 0.911408968 1.192905544 1.129765373 1.188648317 0.988425634 1.037982492 1.443585575 1 10.85542766 -6.255148334 24.95354371 1.014182558 1.10666785 0 0.156178718 532.6812346 2112890.757 0.011416578 0.018625986 5.56E-07 6.255148334 0.092485292 ELS(ph)PAALEK ddPTM_HeLa_SAHA_4h_R1 4 ELSPAALEK 9 0 O75683 O75683 SURF6 Surfeit locus protein 6 1 0 ELS(1)PAALEK;ELS(1)PAALEK;ELS(1)PAALEK;ELS(1)PAALEK ;;; 172.17 2.47E-05 431081000 19283.8 22109.9 19104.1 19952.9 21380.6 22051.5 23752.3 21550.9 22123.4 19867.2 TRUE FALSE FALSE 21312.15856 22826.27527 21707.50726 20339.11723 19742.42305 20172.58814 21079.62869 20999.65918 21969.44146 20723.77222 1.028391855 1.101453684 1.047468918 0.981438949 0.952646209 0.973403294 1.017171414 1.013312584 1.060108229 1 14.33899901 -6.242337607 24.24127042 1.02407443 0.986507678 0.352357982 0.033814625 718.4924863 911808.5041 0.00557036 0.009227382 5.72E-07 6.242337607 -0.037566751 ELS(ph)PAALEKR ddPTM_HeLa_SAHA_4h_R1 1 ELSPAALEKR 10 1 O75683 O75683 SURF6 Surfeit locus protein 6 1 0 ELS(1)PAALEKR 70.54 0.019722 23944000 2120.7 2081.2 1871.1 2555.9 2711.1 2443.8 2641.7 2861 1913.3 2596.2 TRUE FALSE FALSE 2343.764956 2148.632246 2126.083764 2605.37314 2503.376104 2235.574492 2344.448963 2787.819763 1899.98519 2708.134887 0.865453551 0.793399271 0.785073068 0.962054421 0.924391217 0.825503376 0.865706126 1.029424264 0.7015844 1 11.40308388 -9.149180058 0.993231958 0.997266475 0.877740974 0 0.116560928 0.535265239 0.981141785 0.042772236 0.013476805 7.09E-10 9.149180058 -0.119525501 ELS(ph)PAGSISK ddPTM_HeLa_SAHA_4h_R1 5 ELSPAGSISK 10 0 O95453;O95453-2;A0A494C0W0;A0A494C0Q6;O95453-3;A0A494C0K5;O95453-4 O95453 PARN Poly(A)-specific ribonuclease PARN 1 0 ELS(0.993)PAGS(0.006)ISK;ELS(1)PAGSISK;ELS(1)PAGSISK;ELS(1)PAGSISK;ELS(1)PAGSISK ;;;; 151.13 0.00058241 538867000 17009 15170.7 14726.1 14855.2 16827.1 18828.4 18596.3 17632.2 17264.6 15112.8 TRUE FALSE FALSE 18798.08466 15662.24063 16732.89622 15142.74388 15537.81123 17224.11439 16503.79538 17181.19386 17144.45424 15764.38677 1.192439956 0.99352045 1.061436545 0.96056663 0.98562738 1.092596537 1.046903735 1.089873911 1.087543366 1 13.94438143 ELS(ph)PLIS(ph)LPSPVPPLS(ph)PIHSNQQTLPR ddPTM_HeLa_SAHA_4h_R1 1 ELSPLISLPSPVPPLSPIHSNQQTLPR 27 0 A0A669KBI3;F5GXF9;P51825;P51825-3;P51825-2;E7ETI4;E7EMC5 A0A669KBI3 AFF1 AF4/FMR2 family member 1 3 0 ELS(0.98)PLIS(0.51)LPS(0.51)PVPPLS(0.999)PIHSNQQTLPR 100.69 5.48E-06 2924600 0 0 0 0 0 69.99 71.148 0 148.53 71.692 TRUE FALSE FALSE 0 0 0 0 0 64.02645825 63.14223979 0 147.4963676 74.78299297 0 0 0 0 0 0.856163356 0.844339565 0 1.972325014 1 6.224638307 -9.354898837 1.079852325 0.999677539 0.21213137 0.489858602 0.460254405 0.41592619 0.868338154 0.246522754 0.064321745 4.42E-10 9.354898837 -0.787546169 ELS(ph)PPPGLPSK ddPTM_HeLa_SAHA_4h_R1 1 ELSPPPGLPSK 11 0 H0YHT2;A0A1B0GV47;Q7Z4S6-6;Q7Z4S6-3;Q7Z4S6-5;Q7Z4S6-2;Q7Z4S6;Q7Z4S6-4;H0YIM6;H0YI78 H0YHT2 KIF21A Kinesin-like protein KIF21A 1 0 ELS(1)PPPGLPSK 98.902 0.0089743 4354300 1753 1661.7 1633.9 1868.5 1775.5 2053.7 1829.7 1896.3 2477 2260.2 TRUE FALSE FALSE 1937.388583 1715.54017 1856.559383 1904.667519 1639.461574 1878.713206 1623.81734 1847.795392 2459.762355 2357.648283 0.821746228 0.727648896 0.787462403 0.80786754 0.695380047 0.79685898 0.688744522 0.783745143 1.043311834 1 11.2031328 -8.648684173 0.443515789 1.031062131 0.740782805 0.848150193 0.043809151 0.344018012 0.127323785 0.044090589 0.013382346 2.25E-09 8.648684173 -0.290279326 ELS(ph)RPGDLATPESSAAASPR ddPTM_HeLa_SAHA_4h_R1 1 ELSRPGDLATPESSAAASPR 20 1 Q8IUW3 Q8IUW3 SPATA2L Spermatogenesis-associated protein 2-like protein 1 0 ELS(0.999)RPGDLAT(0.001)PESSAAASPR 74.505 0.0029556 4835200 267.15 468.05 250.37 478.32 378.83 583.64 180.56 596.3 522.8 357.16 TRUE FALSE FALSE 295.2500627 483.2151271 284.4891197 487.5785753 349.8041272 533.9105885 160.2429136 581.0475094 519.1617922 372.5589155 0.792492276 1.297016678 0.763608406 1.308728781 0.93892298 1.433090355 0.43011429 1.559612414 1.393502532 1 8.541324777 -7.286133413 24.83379792 0.902010248 1.079528756 0 0.354935976 1448.906026 1457102.496 0.048547722 0.055529132 5.17E-08 7.286133413 0.177518508 ELSDIAHR ddPTM_HeLa_SAHA_4h_R1 5 ELSDIAHR 8 0 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7;H3BR04;H3BMQ8 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 ;;;; ;;;; 162.25 1.49E-05 221926800 45006.6 50610.3 35647.6 50481.4 54843.8 65054.6 56912.4 56297 55324.1 47918.9 FALSE FALSE TRUE 49740.60069 52250.10693 40505.46928 51458.54049 50641.67989 59511.58209 50508.46697 54857.00426 54939.09508 49984.91829 0.995112174 1.045317442 0.810353816 1.029481337 1.013139195 1.190590765 1.010474133 1.09747112 1.099113432 1 15.60920524 -5.498587375 21.50809589 0.989315338 1.092484446 0.243328614 0.080842788 118.1909439 104647.3351 0.009773368 0.021694854 3.17E-06 5.498587375 0.103169109 ELSDQATAS(ph)PIVAR ddPTM_HeLa_SAHA_4h_R1 4 ELSDQATASPIVAR 14 0 Q5JSH3-2;Q5JSH3;Q5JSH3-4 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 ELSDQAT(0.001)AS(0.999)PIVAR;ELSDQATAS(1)PIVAR;ELS(0.01)DQAT(0.065)AS(0.925)PIVAR;ELS(0.156)DQAT(0.076)AS(0.768)PIVAR ;;; 257.48 1.35E-43 111193300 5430.94 9489.3 5243.53 6396.2 6808.4 7337.2 5983.7 5796.6 7154.4 6723.8 TRUE FALSE FALSE 6002.191187 9796.759546 5958.090961 6520.0077 6286.741863 6712.029282 5310.398328 5648.331365 7104.611948 7013.695923 0.855781496 1.396804146 0.849493766 0.929610832 0.896352213 0.956988919 0.757146929 0.805328806 1.012962641 1 12.77595917 -4.766226595 24.58297751 0.956501396 0.781237838 0.210700924 0.150347486 111.2039027 571065.1038 0.020620314 0.064948815 1.71E-05 4.766226595 -0.175263558 ELSEQIQR ddPTM_HeLa_SAHA_4h_R1 1 ELSEQIQR 8 0 E7EQR4;P15311 E7EQR4 EZR Ezrin 0 0 148.99 0.0018534 11457000 1808.9 2544.1 2110.1 2187.6 2227.8 2106 2404.4 2016.8 2478.7 1806.2 FALSE FALSE TRUE 1999.168402 2626.530509 2397.653439 2229.944161 2057.106445 1926.556952 2133.850584 1965.213176 2461.450525 1884.074121 1.061087979 1.394069628 1.272589763 1.183575601 1.091839446 1.022548386 1.132572525 1.043065745 1.306451003 1 10.87964001 -7.498112293 19.2542241 1.026948849 1.163537996 0 0.135932887 19.59577519 15236.07079 0.019595175 0.021205641 3.18E-08 7.498112293 0.136589147 ELSESVQQQSTPVPLIS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 ELSESVQQQSTPVPLISPK 19 0 Q9ULU4-19;Q9ULU4-16;H7C4X9;A0A087WVZ6;Q9ULU4-22;Q9ULU4-7;Q9ULU4-11;Q9ULU4-10;Q9ULU4-13;Q9ULU4;Q9ULU4-20;Q9ULU4-5;Q9ULU4-9;Q9ULU4-14;Q9ULU4-12;Q9ULU4-4;Q9ULU4-21;Q9ULU4-23;Q9ULU4-6;Q9ULU4-3;Q9ULU4-18;Q9ULU4-15;Q9ULU4-2;A0A087WYS3;Q9ULU4-8;Q9ULU4-17;A0A087WV57 Q9ULU4-19 ZMYND8 Protein kinase C-binding protein 1 1 0 ELSESVQQQS(0.004)T(0.06)PVPLIS(0.936)PK 83.059 0.0031026 6731300 809.79 968.87 569.49 813.89 894.23 649.14 882.22 861.28 1060.7 914.11 TRUE FALSE FALSE 894.9674276 1000.262024 647.0971314 829.6440179 825.7142906 593.82962 782.9502837 839.2497047 1053.318502 953.5217556 0.938591513 1.049018565 0.678639085 0.870083994 0.865962717 0.622775114 0.821114232 0.880157899 1.104661216 1 9.897122045 -6.768885542 24.99999793 0.976042575 0.790733414 0.587476694 0.092463879 94.95990329 318821.2761 0.013056521 0.017348717 1.70E-07 6.768885542 -0.185309161 ELSESVQQQSTPVPLIS(ph)PKR ddPTM_HeLa_SAHA_4h_R1 1 ELSESVQQQSTPVPLISPKR 20 1 Q9ULU4-19;Q9ULU4-16;H7C4X9;A0A087WVZ6;Q9ULU4-22;Q9ULU4-7;Q9ULU4-11;Q9ULU4-10;Q9ULU4-13;Q9ULU4;Q9ULU4-20;Q9ULU4-5;Q9ULU4-9;Q9ULU4-14;Q9ULU4-12;Q9ULU4-4;Q9ULU4-21;Q9ULU4-23;Q9ULU4-6;Q9ULU4-3;Q9ULU4-18;Q9ULU4-15;Q9ULU4-2;A0A087WYS3;Q9ULU4-8;Q9ULU4-17;A0A087WV57 Q9ULU4-19 ZMYND8 Protein kinase C-binding protein 1 1 0 ELSESVQQQSTPVPLIS(1)PKR 83.059 0.0013475 0 323.38 344.52 417.24 161.67 453.34 363.99 401.75 480.76 400.32 480.76 TRUE FALSE FALSE 357.3945921 355.682674 474.0992943 164.7993566 418.6051871 332.9760042 356.5440327 468.4628553 397.5341405 501.4879164 0.712668402 0.709254725 0.94538528 0.328620793 0.834726368 0.663976127 0.710972331 0.934145849 0.792709311 1 8.970071129 -9.198428921 0.684776688 1.025093952 0.71983597 0.075585715 0.175021094 0.873684762 0.647901959 0.156324097 0.032647843 6.33E-10 9.198428921 -0.305257982 ELSLAGNELGDEGAR ddPTM_HeLa_SAHA_4h_R1 1 ELSLAGNELGDEGAR 15 0 P13489;H0YCR7 P13489 RNH1 Ribonuclease inhibitor 0 0 126.56 0.0028339 3412100 754.96 672.3 470.27 691.28 578.22 933.32 828.21 703.05 868.24 691.03 FALSE FALSE TRUE 834.3701567 694.0829611 534.3559465 704.660724 533.9169085 853.7958853 735.0176311 685.066999 862.1978471 720.8236851 1.157523225 0.962902545 0.74131297 0.977577095 0.740703891 1.184472573 1.019691287 0.950394685 1.19612863 1 9.493502606 -7.092621921 7.650105856 1.074032369 0.936450089 0.261324548 0.131952203 0.355460209 26.1584968 0.021927907 0.026907676 8.08E-08 7.092621921 -0.13758228 ELSNS(ph)PLR ddPTM_HeLa_SAHA_4h_R1 3 ELSNSPLR 8 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 ELSNS(1)PLR;ELS(0.008)NS(0.992)PLR;ELSNS(1)PLR ;; 190.26 1.01E-08 295960000 11829.1 17417.6 11584 14799.4 15164.1 19274.2 13577 11718.9 25619.5 14565.1 TRUE FALSE FALSE 13073.33901 17981.94167 13162.60719 15085.86379 14002.22993 17631.92973 12049.28023 11419.14751 25441.21181 15193.07274 0.860480249 1.183561876 0.866355833 0.992943563 0.921619357 1.160524275 0.793077242 0.75160224 1.674527085 1 13.89112606 -4.552261477 24.98714976 0.961754195 0.761970735 0.057775891 0.249051094 141.1447077 120029.6045 0.014514785 0.054310788 2.80E-05 4.552261477 -0.19978346 ELSNS(ph)PLRENSFGSPLEFR ddPTM_HeLa_SAHA_4h_R1 4 ELSNSPLRENSFGSPLEFR 19 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 ELS(0.088)NS(0.856)PLRENS(0.035)FGS(0.02)PLEFR;ELS(0.064)NS(0.924)PLRENS(0.008)FGS(0.004)PLEFR;ELS(0.001)NS(0.998)PLRENS(0.002)FGSPLEFR;ELS(0.05)NS(0.945)PLRENS(0.002)FGS(0.003)PLEFR ;;; 129.2 6.16E-05 1607864000 6991.12 6657.14 6683.66 7791.3 8335.4 8970.6 8068.8 6813.67 8344.16 7864.5 TRUE FALSE FALSE 7726.478078 6872.835704 7594.474378 7942.111878 7696.743453 8206.254413 7160.877388 6639.386187 8286.092311 8203.577083 0.941842565 0.837785229 0.925751572 0.968127903 0.938217972 1.000326361 0.872896947 0.809328189 1.010058445 1 13.0020374 -11.74893948 0.014140657 2.029421319 7.49E-07 0.345345998 0.053827718 3571.632585 5.718926326 472.6808762 355.5283026 1.78E-12 11.74893948 -2.02942057 ELSNSPLRENS(ph)FGSPLEFR ddPTM_HeLa_SAHA_4h_R1 1 ELSNSPLRENSFGSPLEFR 19 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 ELSNS(0.021)PLRENS(0.978)FGSPLEFR 209.23 7.07E-20 229740000 831.25 536.77 811.84 659.08 791.08 1039 958.19 782.97 843.1 769.9 TRUE FALSE FALSE 918.6846889 554.1617002 922.4733273 671.8374464 730.4676213 950.4713547 850.3719394 762.9427611 837.2327985 803.0941568 1.143931482 0.690033286 1.148649034 0.836561243 0.9095666 1.18351173 1.058869539 0.950004124 1.042508891 1 9.649425333 ELSQCNCIDLSKS(ph)PDPDKSTGTDCR ddPTM_HeLa_SAHA_4h_R1 2 ELSQCNCIDLSKSPDPDKSTGTDCR 25 2 E9PKY2;A0A0C4DFM7;Q5TAX3;E9PKX1 E9PKY2 ZCCHC11 Terminal uridylyltransferase 4 1 0 ELS(0.001)QCNCIDLS(0.152)KS(0.493)PDPDKS(0.05)T(0.152)GT(0.152)DCR;ELS(0.001)QCNCIDLS(0.057)KS(0.495)PDPDKS(0.113)T(0.254)GT(0.079)DCR ; 46.558 0.012398 15096700 1624.16 1829.06 1703.77 2255.34 1856.64 2506.99 2295.43 2222.41 2124.82 1988.22 TRUE FALSE FALSE 1794.996601 1888.322744 1935.950903 2298.995367 1714.384644 2293.380348 2037.142175 2165.56397 2110.033205 2073.941894 0.865499948 0.910499349 0.933464389 1.10851484 0.826630991 1.105807426 0.982256147 1.044177745 1.017402277 1 11.01815976 -6.451602641 24.99984621 0.932248403 1.007941849 0.129225372 0.084444573 218.594502 76670.68097 0.012735693 0.019454089 3.54E-07 6.451602641 0.075693446 ELSS(ph)EPQTPPAQK ddPTM_HeLa_SAHA_4h_R1 1 ELSSEPQTPPAQK 13 0 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 ELS(0.018)S(0.641)EPQT(0.341)PPAQK 161.25 5.68E-05 4805300 3328.1 3708.4 3393.3 4112.3 4231.6 4629.8 5075.5 5474.3 3311.5 3971.5 TRUE FALSE FALSE 3678.164828 3828.554593 3855.721252 4191.899513 3907.375722 4235.314993 4504.391382 5334.275333 3288.455002 4142.730801 0.887859966 0.924162051 0.93071972 1.011868672 0.943188421 1.02234859 1.087300044 1.287622969 0.793789208 1 12.01636636 -3.501157032 0.816880156 0.944876377 2.167111195 0.784240772 0.058502961 1.965714441 0.392143357 0.007337602 2.926565844 0.000315386 3.501157032 1.222234819 ELSSEPQT(ph)PPAQK ddPTM_HeLa_SAHA_4h_R1 1 ELSSEPQTPPAQK 13 0 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 ELSSEPQT(1)PPAQK 206.67 6.22E-11 6601700 1969.1 2023.8 2194.4 2757.3 2709.7 2969.1 3279.2 3625.3 2017.2 2258 TRUE FALSE FALSE 2176.218973 2089.372448 2493.441404 2810.671529 2502.083371 2716.115976 2910.215786 3532.570075 2003.162141 2355.35343 0.923945827 0.887073855 1.058627284 1.193312007 1.062296358 1.153167054 1.235574988 1.49980467 0.850471999 1 11.20172784 -1 0.402861728 0.959254576 9.77814247 0.833374203 0.07522886 18.07103493 0.212489957 0.017874731 128.1620831 0.1 1 8.818887893 ELSSPIS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 ELSSPISPK 9 0 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 ELS(0.001)S(0.003)PIS(0.997)PK;ELSS(0.144)PIS(0.855)PK;ELS(0.001)S(0.009)PIS(0.99)PK;ELS(0.002)S(0.371)PIS(0.627)PK ;;; 128.01 0.0023665 77954600 11580.9 14480.2 11333.7 14890 13652.5 16966.5 16192.5 15534.7 15459.2 12776.2 TRUE FALSE FALSE 12799.0322 14949.36798 12878.19761 15178.21748 12606.4484 15520.85875 14370.47728 15137.34487 15351.61817 13327.04451 0.96038039 1.121731677 0.966320598 1.138903489 0.945929789 1.16461371 1.078294387 1.135836596 1.151914677 1 13.70206925 -5.606591508 0.453851388 0.981515238 1.148631193 0 0.087246049 1.42934297 0.417884026 0.017943816 0.106641058 2.47E-06 5.606591508 0.167115954 ELST(ph)SPCNPIVR ddPTM_HeLa_SAHA_4h_R1 1 ELSTSPCNPIVR 12 0 H3BSS6;Q9H2Y7;H3BNX5 H3BSS6 ZNF106 Zinc finger protein 106 1 0 ELS(0.003)T(0.498)S(0.498)PCNPIVR 171.26 0.00011791 21596000 2764.6 2113.5 2292.5 2115 2491.1 2704 2743.6 2553.9 2413.4 2120.1 TRUE FALSE FALSE 3055.393312 2181.978787 2604.909961 2155.938883 2300.232456 2473.603988 2434.882907 2488.574936 2396.604953 2211.507887 1.381588251 0.986647527 1.177888615 0.974872799 1.040119491 1.118514658 1.101005754 1.125284224 1.083697222 1 11.11081467 ELSTTLNADEAVTR ddPTM_HeLa_SAHA_4h_R1 2 ELSTTLNADEAVTR 14 0 A0A087WYC1;P34932;A0A087WTS8 A0A087WYC1 HSPA4 Heat shock 70 kDa protein 4 0 0 ; ; 167.73 3.12E-05 8108100 1119.01 1501.3 1235.43 1424.65 1532.7 1393.74 1511.54 1414.93 1572.59 1250.23 FALSE FALSE TRUE 1236.712606 1549.943105 1403.787967 1452.226161 1415.264857 1274.985511 1341.457541 1378.738139 1561.646218 1304.133534 0.948302129 1.188484971 1.076414286 1.113556337 1.085214681 0.977649511 1.028619774 1.057206263 1.197458832 1 10.34887588 -7.319594136 24.99982373 0.975587098 1.071650189 0 0.087793578 197.1924256 84769.44972 0.009564935 0.010937922 4.79E-08 7.319594136 0.096063091 ELT(ph)DEEAER ddPTM_HeLa_SAHA_4h_R1 2 ELTDEEAER 9 0 Q9Y266;A0A0A0MSS4;A0A0A0MSU9 Q9Y266 NUDC Nuclear migration protein nudC 1 0 ELT(1)DEEAER;ELT(1)DEEAER ; 166.29 9.22E-05 29970000 1609.2 2823.4 1932.8 1830.77 2239.81 3133.5 2654.7 2100.81 3350.3 2301.5 TRUE FALSE FALSE 1778.463039 2914.880013 2196.191918 1866.207201 2068.196242 2866.508171 2355.986169 2047.074322 3326.98499 2400.728928 0.74080127 1.214164572 0.914802122 0.777350237 0.861486783 1.194015758 0.981362844 0.852688656 1.385822843 1 11.2292568 ELT(ph)DEEAERLQLEIDQK ddPTM_HeLa_SAHA_4h_R1 1 ELTDEEAERLQLEIDQK 17 1 Q9Y266;A0A0A0MSS4;A0A0A0MSU9 Q9Y266 NUDC Nuclear migration protein nudC 1 0 ELT(1)DEEAERLQLEIDQK 80.994 0.010046 2719100 804.31 816.16 725.27 876.73 788.96 1145 921.57 921.76 1068.4 972.03 TRUE FALSE FALSE 888.9110161 842.6041195 824.1060186 893.7003769 728.5100552 1047.439558 817.8725182 898.1827139 1060.964917 1013.93897 0.876690848 0.831020549 0.812776748 0.881414368 0.718494975 1.033040044 0.806628941 0.885835085 1.046379465 1 9.985755103 -8.747239507 0.727539934 0.998128846 0.852985368 0.413072706 0.077783531 0.543899162 0.558577796 0.041871617 0.015567923 1.79E-09 8.747239507 -0.145143478 ELT(ph)PASPTCTNSVSK ddPTM_HeLa_SAHA_4h_R1 1 ELTPASPTCTNSVSK 15 0 A0A1W2PS85;R4GMW8;P28715;A0A494C0S2;A0A090HNM7 A0A1W2PS85 BIVM-ERCC5;ERCC5;ERCC5-201 DNA repair protein complementing XP-G cells 1 0 ELT(0.621)PAS(0.365)PT(0.014)CTNSVSK 172.58 1.10E-06 6996300 1805.4 2373.8 1460.2 1696 1997.9 2278.6 2146 1898.2 2490.9 2374 TRUE FALSE FALSE 1995.300255 2450.712678 1659.188452 1728.828532 1844.821334 2084.450461 1904.526432 1849.646793 2473.565624 2476.354758 0.805740877 0.989645231 0.670012423 0.698134436 0.744974575 0.841741457 0.76908465 0.746923189 0.998873694 1 11.27400229 -9.289680236 0.320872854 1.095461189 0.750035403 0.567397904 0.079019024 2.134157823 0.287664093 0.272801266 0.0425649 5.13E-10 9.289680236 -0.345425786 ELTDEEAER ddPTM_HeLa_SAHA_4h_R1 1 ELTDEEAER 9 0 Q9Y266;A0A0A0MSS4;A0A0A0MSU9 Q9Y266 NUDC Nuclear migration protein nudC 0 0 128.36 0.013869 16579000 2273.3 2743.6 1852.7 2468.9 2408.3 3166.1 2506.8 2069.9 3021.4 2538 FALSE FALSE TRUE 2512.416124 2832.49444 2105.176308 2516.68913 2223.776574 2896.330468 2224.728266 2016.954955 3000.373831 2647.425601 0.949003486 1.069905209 0.795178647 0.950617509 0.839976985 1.094017701 0.840336463 0.761855198 1.133317526 1 11.37037443 -4.537343634 22.32577794 0.964158394 0.781475385 0.334257322 0.101350095 38.77163554 59842.53057 0.011085893 0.041543938 2.90E-05 4.537343634 -0.182683009 ELTIGSK ddPTM_HeLa_SAHA_4h_R1 1 ELTIGSK 7 0 R4GN98;P06703 R4GN98 S100A6 Protein S100;Protein S100-A6 0 0 122.13 0.019866 50568000 4438 4432.9 4029.2 4853.1 4256.9 5227 4690.2 4664.5 4842.2 4560.6 FALSE FALSE TRUE 4904.809202 4576.528869 4578.278393 4947.038768 3930.737242 4781.630194 4162.446352 4545.188844 4808.502736 4757.229785 1.031022133 0.962015516 0.962383278 1.039899057 0.826266003 1.005129121 0.874972734 0.955427644 1.010777901 1 12.215906 -6.236271484 0.980295499 1.012765505 0.922181213 0.258991012 0.056004285 0.440863989 0.837603245 0.009206888 0.020082122 5.80E-07 6.236271484 -0.090584291 ELTPAS(ph)PTCTNSVSK ddPTM_HeLa_SAHA_4h_R1 2 ELTPASPTCTNSVSK 15 0 A0A1W2PS85;R4GMW8;P28715;A0A494C0S2;A0A090HNM7 A0A1W2PS85 BIVM-ERCC5;ERCC5;ERCC5-201 DNA repair protein complementing XP-G cells 1 0 ELT(0.001)PAS(0.723)PT(0.273)CT(0.003)NSVSK;ELT(0.041)PAS(0.949)PT(0.01)CTNSVSK ; 274.38 2.04E-56 55498800 7732.8 8203.6 6558.3 7336.4 7578 8462.3 8458.8 7130.9 9209.7 7390.4 TRUE FALSE FALSE 8546.171383 8469.402023 7452.03097 7478.406631 6997.375277 7741.264432 7506.993562 6948.501903 9145.608948 7709.036312 1.108591403 1.098633043 0.966661807 0.970083202 0.907684825 1.004180564 0.973791439 0.901345074 1.186349185 1 12.91233481 -6.672490284 6.749800726 1.056167272 0.954877759 0.567131777 0.057294801 0.143682579 9.156095541 0.008060241 0.01140526 2.13E-07 6.672490284 -0.101289513 ELTPASPT(ph)CTNSVSK ddPTM_HeLa_SAHA_4h_R1 1 ELTPASPTCTNSVSK 15 0 A0A1W2PS85;R4GMW8;P28715;A0A494C0S2;A0A090HNM7 A0A1W2PS85 BIVM-ERCC5;ERCC5;ERCC5-201 DNA repair protein complementing XP-G cells 1 0 ELTPAS(0.336)PT(0.664)CTNSVSK 223.68 2.08E-18 48841000 1096.6 1195.9 829.53 767.05 994.48 1303.5 1005.3 1006.4 1135.4 880.04 TRUE FALSE FALSE 1211.945419 1234.647945 942.5740284 781.8973619 918.2831572 1192.434467 892.1809982 980.6577452 1127.498659 917.9828312 1.320226673 1.344957556 1.026788297 0.851755976 1.000327159 1.298972515 0.971892902 1.068274604 1.228235018 1 9.842323361 ELVEFAQDDDRLR ddPTM_HeLa_SAHA_4h_R1 1 ELVEFAQDDDRLR 13 1 Q14677-2;Q14677;Q14677-3 Q14677-2 CLINT1 Clathrin interactor 1 0 0 177.1 1.89E-05 9811300 2636.3 2812.7 2740.9 2750.3 3500.1 3986.6 3629.5 2473.6 3898.8 3193.8 FALSE FALSE TRUE 2913.59813 2903.833325 3114.415578 2803.536034 3231.923094 3646.919252 3221.099108 2410.328894 3871.667933 3331.500348 0.874560356 0.871629303 0.934838737 0.84152356 0.970110388 1.094677734 0.966861405 0.723496516 1.162139435 1 11.70195633 -9.485608037 1.253018429 0.999580132 0.912561821 0.223899917 0.105677487 0.857445671 2.427089567 0.062958017 0.015691781 3.27E-10 9.485608037 -0.087018311 ELVEPLT(ph)PSGEAPNQALLR ddPTM_HeLa_SAHA_4h_R1 2 ELVEPLTPSGEAPNQALLR 19 0 Q504U8;E9PFD7;P00533 Q504U8 EGFR Receptor protein-tyrosine kinase;Epidermal growth factor receptor 1 0 ELVEPLT(0.97)PS(0.03)GEAPNQALLR;ELVEPLT(0.952)PS(0.048)GEAPNQALLR ; 183.73 5.15E-10 16379700 2401.1 5366.39 3822.43 2614.82 3808.91 3502.86 5570.04 3378.73 2059.26 3608.41 TRUE FALSE FALSE 2653.658715 5540.264557 4343.330854 2665.433622 3517.072139 3204.396621 4943.28444 3292.306979 2044.929442 3763.986214 0.705012868 1.471914147 1.153917843 0.708141175 0.934400909 0.851330594 1.313310984 0.874686248 0.543288239 1 11.87804563 ELVGPPLAETVFT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 ELVGPPLAETVFTPK 15 0 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 1 0 ELVGPPLAETVFT(1)PK 172.91 1.07E-06 37141000 680.05 1097.3 706.2 781.12 930.62 1054.3 764.49 633.96 979.48 1133.5 TRUE FALSE FALSE 751.5807792 1132.85324 802.4372583 796.2397071 859.3160967 964.4677087 678.4675732 617.7442212 972.6637189 1182.370732 0.635655771 0.958120164 0.678668066 0.673426435 0.726773822 0.815706684 0.573819661 0.522462375 0.822638528 1 10.20746675 -13.52287875 0.241687533 2.840095321 0.655701767 0.304364326 0.124249763 29.17889512 0.381999421 25.60698342 0.074882199 3.00E-14 13.52287875 -2.184393554 ELVGPPLAETVFT(ph)PKT(ph)SPENVQDR ddPTM_HeLa_SAHA_4h_R1 1 ELVGPPLAETVFTPKTSPENVQDR 24 1 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 2 0 ELVGPPLAET(0.041)VFT(0.959)PKT(0.494)S(0.506)PENVQDR 56.428 0.010965 45194000 828.55 984.86 1038.2 894.81 906.76 1064.2 771.7 837.46 1061.5 966.04 TRUE FALSE FALSE 915.7006905 1016.77011 1179.680489 912.1303415 837.2842447 973.524173 684.866285 816.0389858 1054.112935 1007.690712 0.908712048 1.009010104 1.170677148 0.905168948 0.830894078 0.96609422 0.679639374 0.809810963 1.046067928 1 9.976837189 -5.070655903 1.159274105 0.972632247 0.741740608 0.466885823 0.09569999 0.453236972 0.995423006 0.014679922 0.088558939 8.50E-06 5.070655903 -0.230891638 ELVGPPLAETVFT(ph)PKTS(ph)PENVQDR ddPTM_HeLa_SAHA_4h_R1 1 ELVGPPLAETVFTPKTSPENVQDR 24 1 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 2 0 ELVGPPLAET(0.067)VFT(0.913)PKT(0.327)S(0.693)PENVQDR 67.848 0.0087954 37718000 2214.2 2373.4 2139.1 2284.2 2116.6 2296 2362.5 1993.5 2470.2 2459.3 TRUE FALSE FALSE 2447.099715 2450.299717 2430.605408 2328.413994 1954.426565 2100.367883 2096.665282 1942.509157 2453.009677 2565.332459 0.953911337 0.955158739 0.947481641 0.907646097 0.761860927 0.818750753 0.817307431 0.757215366 0.956215117 1 11.32493009 -5.994630327 2.298485639 0.97422502 0.792046968 0.904031468 0.026428835 0.065508255 0.693410959 0.004422656 0.008477818 1.01E-06 5.994630327 -0.182178052 ELVGPPLAETVFTPKT(ph)S(ph)PENVQDR ddPTM_HeLa_SAHA_4h_R1 1 ELVGPPLAETVFTPKTSPENVQDR 24 1 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 2 0 ELVGPPLAET(0.021)VFT(0.56)PKT(0.71)S(0.71)PENVQDR 68.676 0.0081219 3223500 568.93 569.11 787.09 540.01 608.87 780.7 493.69 605.53 690.7 743 TRUE FALSE FALSE 628.7726677 587.5495374 894.3505262 550.4626744 562.2185121 714.1799679 438.1387019 590.0414194 685.8933625 775.0343662 0.811283596 0.758094819 1.153949509 0.710242924 0.725411074 0.921481678 0.565315192 0.761310008 0.88498445 1 9.598116473 -4.919670358 0.046372405 1.513816735 2.74E-11 0.207999107 0.140939426 187.7158141 1.74740232 21.76507801 36.530258 1.20E-05 4.919670358 -1.513816735 ELVLDNSR ddPTM_HeLa_SAHA_4h_R1 1 ELVLDNSR 8 0 P39687;H0YN26;H7BZ09 P39687 ANP32A Acidic leucine-rich nuclear phosphoprotein 32 family member A 0 0 129.42 0.012391 7770500 2366 2485 2617.5 2411.1 2467.9 2855.6 2680.6 2173.3 2537.4 2720.2 FALSE FALSE TRUE 2614.866736 2565.51563 2974.199269 2457.770327 2278.810035 2612.286815 2378.971833 2117.710133 2519.742027 2837.481134 0.921545065 0.904152489 1.048182923 0.866180324 0.803110198 0.920635836 0.838409745 0.746334524 0.888020715 1 11.47039508 -1.225999937 0.207955678 0.991787218 3.84E-14 0.427592583 0.063545404 25.6741461 0.325977316 0.049882228 8.303307515 0.059429224 1.225999937 -0.991787218 ELVS(ph)YPK ddPTM_HeLa_SAHA_4h_R1 1 ELVSYPK 7 0 H3BS43;Q5TGI4 H3BS43 SAMD5 Sterile alpha motif domain-containing protein 5 1 0 ELVS(0.675)Y(0.325)PK 94.163 0.0083187 0 1217.7 1114.2 1349.4 1694.9 1258.8 1256.9 1460.7 1121.4 1511.9 1457.8 TRUE FALSE FALSE 1345.783273 1150.300811 1533.289205 1727.70724 1162.351016 1149.805049 1296.338192 1092.716212 1501.378565 1520.652892 0.885003593 0.756451927 1.008309794 1.13616148 0.76437629 0.756125908 0.852487901 0.718583588 0.987324966 1 10.57047516 -2.041130426 0.273065566 0.962175719 4.28E-13 0.307226721 0.111169973 28.95265582 0.610374501 0.055081733 11.90718804 0.009096401 2.041130426 -0.962175719 ELVSSSSSGSDS(ph)DSEVDK ddPTM_HeLa_SAHA_4h_R1 1 ELVSSSSSGSDSDSEVDK 18 0 P53999;D6RC37;D6R970 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 1 0 ELVSSSSS(0.001)GS(0.005)DS(0.994)DSEVDK 218.28 7.64E-22 4779700 689.1 630.06 625.28 756.72 618.7 807.23 607.44 699.88 633.51 669.99 TRUE FALSE FALSE 761.5826997 650.4743574 710.4899021 771.3674098 571.2953397 738.4494626 539.0892525 681.978083 629.1013523 698.8765478 1.089724218 0.930742861 1.016617176 1.103724846 0.817448148 1.056623613 0.771365493 0.97582053 0.900160914 1 9.448893825 -5.767171852 24.99994601 1.03574272 0.90655446 0.176246251 0.095979618 112.4748048 490517.4671 0.011919969 0.022036758 1.71E-06 5.767171852 -0.12918826 ELVSSSSSGSDS(ph)DSEVDKK ddPTM_HeLa_SAHA_4h_R1 3 ELVSSSSSGSDSDSEVDKK 19 1 P53999;D6RC37;D6R970 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 1 0 ELVS(0.014)S(0.067)S(0.067)S(0.178)S(0.178)GS(0.144)DS(0.31)DS(0.042)EVDKK;ELVSSSSSGS(0.005)DS(0.994)DS(0.001)EVDKK;ELVSSSSSGS(0.002)DS(0.995)DS(0.003)EVDKK ;; 141.79 4.89E-05 77761000 5548.3 5341.5 5561.8 4896.8 5529.1 6125.9 6203.8 6282.5 5892.5 5818.2 TRUE FALSE FALSE 6131.895651 5514.568105 6319.733139 4991.584645 5105.461553 5603.938857 5505.732096 6121.802747 5851.493613 6069.051076 1.010354926 0.908637617 1.041304985 0.82246542 0.841228965 0.923363272 0.907181704 1.008691914 0.964152969 1 12.56725525 -6.273724645 24.99941701 0.998746684 0.898920429 0.336235184 0.057578695 540.8553711 1100591.197 0.008574112 0.013153765 5.32E-07 6.273724645 -0.099826255 ELVSSSSSGSDSDS(ph)EVDKK ddPTM_HeLa_SAHA_4h_R1 1 ELVSSSSSGSDSDSEVDKK 19 1 P53999;D6RC37;D6R970 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 1 0 ELVSSSSS(0.002)GS(0.018)DS(0.226)DS(0.754)EVDKK 131.56 3.59E-05 22480000 3906.9 3505.4 3570.4 3856.1 3815 4578.1 4444.9 4398.3 4625.4 3916 TRUE FALSE FALSE 4317.845667 3618.97726 4056.955518 3930.740392 3522.695524 4188.020124 3944.748154 4285.797855 4593.211465 4084.837924 1.057042102 0.885953697 0.993174171 0.962275729 0.862383181 1.025259803 0.965704938 1.049196549 1.124453785 1 11.99606312 -7.294297914 24.94604432 1.026936548 0.963101587 0.293906372 0.062789603 677.6274907 514449.84 0.009277383 0.010609524 5.08E-08 7.294297914 -0.063834961 ELVVTQLGYDTR ddPTM_HeLa_SAHA_4h_R1 1 ELVVTQLGYDTR 12 0 Q01813;Q01813-2;B1APP6;V9GY25 Q01813 PFKP "ATP-dependent 6-phosphofructokinase, platelet type" 0 0 114.71 0.0020888 0 1402.6 1562.9 1609.4 1560.6 1530.4 1778.3 1861.8 1552.2 1579.1 1479.8 FALSE FALSE TRUE 1550.131903 1613.538985 1828.720651 1590.80767 1413.141083 1626.778836 1652.305364 1512.496972 1568.110915 1543.60142 1.00423068 1.045308047 1.184710397 1.030581891 0.915483145 1.053885294 1.070422288 0.97984943 1.015878124 1 10.59208456 -7.273099767 10.24270424 1.001990514 1.042149342 0.051070497 0.064445252 0.734162408 621.2143699 0.01113694 0.012948255 5.33E-08 7.273099767 0.040158827 EMATTEVLKRLGMWT(ph)EDPRR ddPTM_HeLa_SAHA_4h_R1 1 EMATTEVLKRLGMWTEDPRR 20 3 L7P8G6;A0A286YF17;A0A286YFD0;Q5SNW7;P42898;P42898-2 L7P8G6 MTHFR Methylenetetrahydrofolate reductase 1 0 EMAT(0.027)T(0.013)EVLKRLGMWT(0.96)EDPRR 41.202 0.022594 5050400 371.37 396.89 266.6 270.95 329.35 456.59 343.17 569.26 404.37 315.39 TRUE FALSE FALSE 410.4324005 409.7494964 302.9308596 276.1946291 304.1152742 417.6859633 304.5556084 554.6991535 401.5559562 328.9880064 1.247560375 1.245484603 0.920796059 0.839527958 0.924396234 1.269608482 0.925734685 1.68607713 1.220579317 1 8.36189118 -4.251948028 24.60793322 1.083875736 1.68607753 0.578679337 0.158073689 626.7288245 1624858.252 0.023231087 0.392135889 5.60E-05 4.251948028 0.602201794 EMDEAATAEER ddPTM_HeLa_SAHA_4h_R1 1 EMDEAATAEER 11 0 Q04637-9;Q04637;E7EX73;E9PGM1;Q04637-3;Q04637-8;E7EUU4;Q04637-7;Q04637-4;Q04637-5;Q04637-6;C9JF13;C9J6B6 Q04637-9 EIF4G1 Eukaryotic translation initiation factor 4 gamma 1 0 0 137.46 0.0061166 3054100 681.4 861.31 675.69 830.21 716.58 832.71 782.69 878.55 794.53 871.37 FALSE FALSE TRUE 753.0727784 889.2170091 767.7695144 846.2799151 661.6757952 761.7584233 694.6196613 856.0779631 789.000801 908.9390251 0.828518479 0.978302157 0.84468759 0.931063462 0.727964998 0.838074285 0.764209306 0.941843115 0.868045908 1 9.828039706 -13.52287875 0.236070701 1.881835543 0.830426418 0.019001721 0.084169956 35.9918032 0.467751172 14.72811115 0.048019271 3.00E-14 13.52287875 -1.051409125 EMDEEDK(ac)AFK ddPTM_HeLa_SAHA_4h_R1 1 EMDEEDKAFK 10 1 Q9Y2S6 Q9Y2S6 TMA7 Translation machinery-associated protein 7 0 1 EMDEEDK(1)AFK 108.67 0.007146 1261600 358.54 1061.2 504.06 729.69 1080.2 1128.3 1180.8 963.15 934.37 467.79 FALSE TRUE FALSE 396.2528822 1095.583576 572.7506718 743.8142051 997.4353094 1032.162492 1047.933276 938.5140176 927.8676431 487.9587162 0.81206231 2.245238255 1.173768708 1.524338393 2.044097741 2.115266022 2.147585936 1.923347174 1.901528987 1 8.930615283 -6.672044228 0.693636554 0.896304402 2.08705271 0.099401804 0.471061208 0.308667312 0.301447888 0.082986489 0.150576031 2.13E-07 6.672044228 1.190748308 EMDESLANLSEDEY(ph)YS(ph)EEERNAK ddPTM_HeLa_SAHA_4h_R1 1 EMDESLANLSEDEYYSEEERNAK 23 1 R4GMQ1;O60341;O60341-2 R4GMQ1 KDM1A Lysine-specific histone demethylase 1A 2 0 EMDES(0.001)LANLS(0.248)EDEY(0.55)Y(0.55)S(0.651)EEERNAK 54.668 0.0071971 3987500 1885 952.08 1359.5 1343.2 1435.9 1033 1577 2268.2 436.6 1088 TRUE FALSE FALSE 2083.272949 982.9280167 1544.76558 1369.199578 1325.881652 944.9825885 1399.55181 2210.182728 433.5616651 1134.909005 1.835629941 0.86608531 1.361136068 1.206439964 1.16827133 0.832650534 1.233184162 1.94745369 0.382023284 1 10.14836091 -7.242025431 24.98278628 1.394603073 1.217205632 0 0.469408811 2423.300202 3118420.109 0.06818767 0.083450618 5.73E-08 7.242025431 -0.17739744 EMDMSPEEVVAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 EMDMSPEEVVASPR 14 0 Q13049 Q13049 TRIM32 E3 ubiquitin-protein ligase TRIM32 1 0 EMDMSPEEVVAS(1)PR;EMDMSPEEVVAS(1)PR ; 207.31 2.05E-12 15590400 1515.23 1559.06 1386.23 1788.14 1599.88 1480.17 1477.63 1183.55 1809.44 1660.03 TRUE FALSE FALSE 1674.608844 1609.574567 1575.138205 1822.752035 1477.29754 1354.051189 1311.363183 1153.276505 1796.84796 1731.602017 0.967086448 0.929529159 0.909642163 1.052639127 0.853139189 0.781964433 0.757312114 0.666017072 1.037679526 1 10.75789167 -5.268111719 1.432446076 0.978260779 0.701492315 0.83572853 0.049432762 0.116919769 0.442617442 0.006866144 0.026593291 5.39E-06 5.268111719 -0.276768464 EMDRETLIDVAR ddPTM_HeLa_SAHA_4h_R1 3 EMDRETLIDVAR 12 1 P40227;P40227-2 P40227 CCT6A T-complex protein 1 subunit zeta 0 0 ;; ;; 152.96 0.00045413 29837900 5176.97 5160.83 4630.22 6346.1 5411.11 6089.9 6439.7 5121.27 5708.4 4611.81 FALSE FALSE TRUE 5721.507457 5328.044278 5261.202268 6468.937942 4996.511921 5571.006259 5715.088008 4990.275329 5668.67478 4810.647699 1.189342437 1.107552374 1.093657777 1.344712469 1.038636008 1.158057419 1.188008012 1.037339594 1.178359991 1 12.23201543 -9.384056667 0.983173221 0.995349008 1.150076724 0 0.100410388 0.553013942 0.909323816 0.062979167 0.014341558 4.13E-10 9.384056667 0.154727716 EMDT(ph)ARTPLSEAEFEEIMNR ddPTM_HeLa_SAHA_4h_R1 3 EMDTARTPLSEAEFEEIMNR 20 1 F8WJN3;Q16630-3;Q16630;Q16630-2 F8WJN3 CPSF6 Cleavage and polyadenylation specificity factor subunit 6 1 0 EMDT(0.978)ART(0.022)PLSEAEFEEIMNR;EMDT(0.911)ART(0.089)PLSEAEFEEIMNR;EMDT(0.845)ART(0.155)PLSEAEFEEIMNR ;; 107.63 0.00037539 21507000 1677.78 1789.93 1597.37 1918.89 1847.89 2036.35 2237.39 1859.57 2282.72 1918.52 TRUE FALSE FALSE 1854.256598 1847.924906 1815.051265 1956.032891 1706.305067 1862.841524 1985.632989 1812.004892 2266.834366 2001.236786 0.926555324 0.923391434 0.906964772 0.977412021 0.852625276 0.930845134 0.992202923 0.905442527 1.132716719 1 10.96667616 -9.11625612 0.74433832 1.003297197 0.927262537 0.403244611 0.056307641 0.641285378 0.604922599 0.029082132 0.007280362 7.65E-10 9.11625612 -0.07603466 EMDTART(ph)PLSEAEFEEIMNR ddPTM_HeLa_SAHA_4h_R1 1 EMDTARTPLSEAEFEEIMNR 20 1 F8WJN3;Q16630-3;Q16630;Q16630-2 F8WJN3 CPSF6 Cleavage and polyadenylation specificity factor subunit 6 1 0 EMDT(0.239)ART(0.747)PLS(0.014)EAEFEEIMNR 65.085 0.011456 10038000 178.81 316.15 234.93 189.67 326.58 229.91 344.61 299.94 286.68 201.25 TRUE FALSE FALSE 197.6180562 326.3934674 266.9450369 193.3413371 301.557511 210.3203746 305.8335758 292.2679691 284.6849705 209.9268724 0.941366172 1.554796028 1.271609651 0.920993749 1.436488371 1.001874473 1.456857678 1.392237048 1.356114952 1 7.713743045 -7.300861964 24.98351551 0.972311766 1.276630636 0.051941155 0.223562089 393.6438021 249465.3501 0.03058346 0.034973807 5.00E-08 7.300861964 0.304318869 EMEAELEDER ddPTM_HeLa_SAHA_4h_R1 1 EMEAELEDER 10 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 164.68 0.00098228 11768000 1434.2 1374.1 1221 1354.6 1521.2 1284 1368.7 1513.9 1200 1286.9 FALSE FALSE TRUE 1585.055736 1418.621742 1387.391521 1380.820242 1404.645985 1174.595976 1214.690274 1475.17663 1191.649102 1342.384557 1.1807762 1.056792358 1.033527624 1.028632395 1.046381216 0.875007069 0.904875036 1.098922527 0.887710676 1 10.39058231 -5.923401719 1.319946368 1.083237702 0.960871172 0 0.095200161 0.450724269 1.565108208 0.014298418 0.03345824 1.19E-06 5.923401719 -0.12236653 EMEAELEDERK ddPTM_HeLa_SAHA_4h_R1 4 EMEAELEDERK 11 1 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ;;; ;;; 135.8 0.002224 49045800 6685.5 6834.9 6507.1 6702.1 6999 7454 6729 7777.8 7795.1 6319.3 FALSE FALSE TRUE 7388.711564 7056.355245 7393.8537 6831.828837 6462.738132 6818.877265 5971.83521 7578.855138 7740.853264 6591.755949 1.120901869 1.070481871 1.121681955 1.036420172 0.980427398 1.034455359 0.905955144 1.149747533 1.174323401 1 12.68644711 -6.001630627 24.86559858 1.064811068 1.010563393 0.144853601 0.073756474 101.597807 1549330.878 0.010225736 0.018336698 9.96E-07 6.001630627 -0.054247675 EMEDKVT(ph)SPEKAEEAK ddPTM_HeLa_SAHA_4h_R1 1 EMEDKVTSPEKAEEAK 16 2 P56211 P56211 ARPP19 cAMP-regulated phosphoprotein 19 1 0 EMEDKVT(0.5)S(0.5)PEKAEEAK 109.72 0.011541 16321000 1054.1 1479.3 903.86 1174.9 1243.4 1511.4 1278.4 1140.6 2254.8 1119.3 TRUE FALSE FALSE 1164.975074 1527.230291 1027.033334 1197.641888 1148.130961 1382.620217 1134.551067 1111.425104 2239.108663 1167.558501 0.997787326 1.30805462 0.879641862 1.025766065 0.983360542 1.184197808 0.971729525 0.951922411 1.917769998 1 10.18927912 EMEDKVTS(ph)PEKAEEAK ddPTM_HeLa_SAHA_4h_R1 1 EMEDKVTSPEKAEEAK 16 2 P56211 P56211 ARPP19 cAMP-regulated phosphoprotein 19 1 0 EMEDKVT(0.236)S(0.764)PEKAEEAK 75.215 0.012057 13716000 1586.4 1571.4 1557.7 1645.8 1767.8 2147.2 1844.8 1713.5 2500.7 1945.7 TRUE FALSE FALSE 1753.264831 1622.314391 1769.975244 1677.656839 1632.351546 1964.24648 1637.218249 1669.671151 2483.297425 2029.588649 0.863852304 0.799331624 0.872085703 0.826599439 0.804277037 0.967805216 0.806674914 0.822664805 1.223547159 1 10.98697164 -8.879654319 0.672430391 1.004594063 0.843914023 0.528692695 0.08703465 0.400950928 0.330236675 0.034649852 0.010477402 1.32E-09 8.879654319 -0.16068004 EMEENFAVEAANYQDTIGR ddPTM_HeLa_SAHA_4h_R1 4 EMEENFAVEAANYQDTIGR 19 0 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 ;;; ;;; 321.82 1.64E-123 35080500 2057.26 2379.24 2372.13 2489.51 2545.67 2619.99 2705.4 2274.1 2628.77 2403.06 FALSE FALSE TRUE 2273.652046 2456.328937 2695.391523 2537.698066 2350.621315 2396.752112 2400.981272 2215.931815 2610.476176 2506.667677 0.907041674 0.979918064 1.075288738 1.01237914 0.937747487 0.956150723 0.957837887 0.884014995 1.041412948 1 11.29155503 -3.293508071 1.213673661 0.968805397 0.269860101 0.220484329 0.049512428 18.20500714 3.657156982 0.007973903 27.80927748 0.000508735 3.293508071 -0.698945296 EMEHNTVCAAGT(ph)SPVGEIGEEK ddPTM_HeLa_SAHA_4h_R1 5 EMEHNTVCAAGTSPVGEIGEEK 22 0 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;H7C1M2 P18583-10 SON Protein SON 1 0 EMEHNTVCAAGT(0.5)S(0.5)PVGEIGEEK;EMEHNTVCAAGT(0.5)S(0.5)PVGEIGEEK;EMEHNTVCAAGT(0.999)S(0.001)PVGEIGEEK;EMEHNTVCAAGT(0.992)S(0.008)PVGEIGEEK;EMEHNTVCAAGT(0.998)S(0.002)PVGEIGEEK ;;;; 227.49 1.31E-38 198652000 8054 13179.3 5559.58 11305.4 19082.1 27365.8 14391.4 18523 13613 15195 TRUE FALSE FALSE 8901.156673 13606.31797 6317.210609 11524.23236 17620.03362 25034.07988 12772.0418 18049.20848 13518.26602 15850.13081 0.561582537 0.858435689 0.398558894 0.727074906 1.111664871 1.579424181 0.805800403 1.138741926 0.852880407 1 13.95220713 -5.723127553 5.982793231 0.756479922 1.16796047 0.441041142 0.234284956 0.158371195 14.63930244 0.037788668 0.075198856 1.89E-06 5.723127553 0.411480548 EMEHNTVCAAGTS(ph)PVGEIGEEK ddPTM_HeLa_SAHA_4h_R1 1 EMEHNTVCAAGTSPVGEIGEEK 22 0 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;H7C1M2 P18583-10 SON Protein SON 1 0 EMEHNTVCAAGT(0.078)S(0.922)PVGEIGEEK 96.466 0.00016151 28158000 3123.8 4572.4 1397 3954.5 6976.2 9409.2 4368.3 6538.6 4433.8 4901.4 TRUE FALSE FALSE 3452.375617 4720.54876 1587.375885 4031.045066 6441.685063 8607.483225 3876.767387 6371.35208 4402.944825 5112.723341 0.675251796 0.923294386 0.310475607 0.78843403 1.259932258 1.683541755 0.758258785 1.246175796 0.861174081 1 12.31987625 -5.762447049 24.9342466 0.80114403 1.234680502 0.418844148 0.272774233 22.24926458 550569.8327 0.041395596 0.07827759 1.73E-06 5.762447049 0.433536472 EMEKS(ph)FDEQNVPK ddPTM_HeLa_SAHA_4h_R1 1 EMEKSFDEQNVPK 13 1 O95425-3;O95425-2;O95425-4;O95425;A0A6I8PIX7 O95425-3 SVIL Supervillin 1 0 EMEKS(1)FDEQNVPK 67.415 0.021267 9003500 1281.7 1436.5 1209.6 1028.7 1453.4 1425.1 1761.8 2143.3 2038.1 1399.1 TRUE FALSE FALSE 1416.515087 1483.043543 1374.437989 1048.611976 1342.040806 1303.673463 1563.557627 2088.477489 2023.916696 1459.422048 0.970600032 1.016185513 0.941768689 0.718511809 0.91957005 0.893280641 1.071353985 1.431030518 1.386793285 1 10.51118144 -4.300854515 2.888062484 0.956195438 1.492296193 0.40902584 0.15939473 0.145779448 1.790126349 0.012609574 0.173249571 5.00E-05 4.300854515 0.536100754 EMFEDTVEER ddPTM_HeLa_SAHA_4h_R1 2 EMFEDTVEER 10 0 E9PC52;Q16576 E9PC52 RBBP7 Histone-binding protein RBBP7 0 0 ; ; 172.59 0.00044764 32095000 3828.6 3767.6 3428.1 4002.4 4285.3 4813.8 4366.2 4399 4230.6 3955.1 FALSE FALSE TRUE 4231.309714 3889.672712 3895.263615 4079.87224 3956.96124 4403.637158 3874.903685 4286.47995 4201.15891 4125.623717 1.025616974 0.942808404 0.94416357 0.98891041 0.959118308 1.067387009 0.939228575 1.038989555 1.018308794 1 12.01039653 -7.308269561 24.9993996 1.012096905 0.982331679 0.113729616 0.040337519 675.0216172 360345.5117 0.00654235 0.007481468 4.92E-08 7.308269561 -0.029765226 EMFPYEAST(ph)PTGISASCR ddPTM_HeLa_SAHA_4h_R1 1 EMFPYEASTPTGISASCR 18 0 P42167;G5E972;H0YJH7;P42167-2 P42167 TMPO "Lamina-associated polypeptide 2, isoforms beta/gamma;Thymopoietin;Thymopentin" 1 0 EMFPYEAS(0.035)T(0.955)PT(0.009)GISASCR 93.738 0.0039667 0 337.95 868.3 483.79 184.15 600.72 729.45 257.99 620.11 564.6 496.88 TRUE FALSE FALSE 373.4971316 896.4334897 549.7183817 187.7144895 554.6929634 667.2967562 228.9602862 604.2484841 560.6709026 518.3029285 0.720615515 1.729555132 1.060612147 0.362171385 1.070209974 1.287464762 0.441749937 1.165821088 1.081743652 1 9.017651735 EMILGVLKRDEYLK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 EMILGVLKRDEYLKK 15 3 Q8TDW5;Q8TDW5-2 Q8TDW5 SYTL5 Synaptotagmin-like protein 5 0 1 EMILGVLK(0.014)RDEYLK(0.986)K 40.941 0.021968 10511000 4081.6 3225.7 4330.1 4579.2 4336.2 4570.3 5092.2 4543.7 3139 3144.8 FALSE TRUE FALSE 4510.921415 3330.214796 4920.183478 4667.837038 4003.961293 4180.884728 4519.212254 4427.478733 3117.155443 3280.387718 1.375118371 1.015189387 1.499878643 1.422952845 1.220575626 1.274509322 1.377645767 1.349681536 0.950239945 1 11.67965063 -9.568919129 0.6081562 0.916679102 1.326054874 0.543875895 0.125112089 0.98932103 0.439376796 0.238788047 0.026838229 2.70E-10 9.568919129 0.409375772 EMLAS(ph)DDEEDVSSK ddPTM_HeLa_SAHA_4h_R1 6 EMLASDDEEDVSSK 14 0 E7ETM8;Q0ZGT2-4;E7EUA0;Q0ZGT2-2;Q0ZGT2;Q0ZGT2-3 E7ETM8 NEXN Nexilin 1 0 EMLAS(1)DDEEDVSSK;EMLAS(1)DDEEDVSSK;EMLAS(1)DDEEDVSSK;EMLAS(1)DDEEDVSSK;EMLAS(1)DDEEDVSSK;EMLAS(1)DDEEDVSSK ;;;;; 318.07 2.02E-99 192248000 8822.26 14398.49 8099.95 9204.05 12808 14010.6 10436.26 8202.27 18458.2 10211.08 TRUE FALSE FALSE 9750.225785 14865.01052 9203.769003 9382.207697 11826.65381 12816.81806 9261.944558 7992.46781 18329.74788 10651.32963 0.915399872 1.395601398 0.864095782 0.880848497 1.110345301 1.203306864 0.869557593 0.750372779 1.720888238 1 13.37874592 -4.529827166 24.95830828 1.002819777 0.780168906 0.042659539 0.276462632 159.6279657 573377.3822 0.02170004 0.08156797 2.95E-05 4.529827166 -0.222650871 EMLAS(ph)DDEEDVSSKVEK ddPTM_HeLa_SAHA_4h_R1 6 EMLASDDEEDVSSKVEK 17 1 E7ETM8;Q0ZGT2-4;E7EUA0;Q0ZGT2-2;Q0ZGT2;Q0ZGT2-3 E7ETM8 NEXN Nexilin 1 0 EMLAS(1)DDEEDVSSKVEK;EMLAS(1)DDEEDVSSKVEK;EMLAS(1)DDEEDVSSKVEK;EMLAS(1)DDEEDVSSKVEK;EMLAS(1)DDEEDVSSKVEK;EMLAS(1)DDEEDVSSKVEK ;;;;; 132.67 6.88E-05 472777000 14095.9 14753 13603.5 14255 17669.9 16597.2 17130.8 15628.8 15763.3 14325 TRUE FALSE FALSE 15578.57144 15231.00688 15457.31414 14530.92614 16316.03608 15183.02519 15203.1973 15229.03793 15653.60191 14942.62085 1.042559507 1.019299561 1.034444646 0.972448293 1.091912606 1.016088498 1.01743847 1.019167794 1.047580747 1 13.86714559 -9.537117021 1.294799664 0.999978459 1.028353074 0 0.031584621 0.740805495 2.221557032 0.018439697 0.004378683 2.90E-10 9.537117021 0.028374615 EMLMEDVGS(ph)EEEQEEEDEAPFQEK ddPTM_HeLa_SAHA_4h_R1 2 EMLMEDVGSEEEQEEEDEAPFQEK 24 0 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 EMLMEDVGS(1)EEEQEEEDEAPFQEK;EMLMEDVGS(1)EEEQEEEDEAPFQEK ; 121.02 2.50E-06 4028300 690.3 916.18 805.89 836.22 978.79 1417.83 1144.32 887.78 1686.33 1095.43 TRUE FALSE FALSE 762.9089212 945.8648331 915.7124923 852.4062473 903.7953217 1297.022908 1015.558102 865.0718731 1674.594692 1142.659348 0.667660858 0.827774992 0.801387127 0.745984574 0.790957798 1.135091495 0.888767158 0.757068915 1.465523994 1 10.15817965 -4.241856845 21.26846243 0.848149676 0.757068259 0 0.231750224 1856.646701 2016230.292 0.021230486 0.802208297 5.73E-05 4.241856845 -0.091081417 EMLQQSK(ac)ILK ddPTM_HeLa_SAHA_4h_R1 2 EMLQQSKILK 10 1 P07900;P07900-2;P08238;Q58FF7 P07900;P08238 HSP90AA1;HSP90AB1;HSP90AB3P Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 1 ; EMLQQSK(1)ILK;EMLQQSK(1)ILK 163.38 8.05E-08 4762600 1306.22 1517.53 1727.31 1824.19 1721.06 1488.29 2060.04 1799.31 1523.93 1473.98 FALSE TRUE FALSE 1443.614213 1566.698968 1962.698811 1859.499835 1589.192755 1361.479319 1828.238877 1753.286256 1513.324847 1537.530491 0.938917453 1.018970991 1.276526757 1.209406803 1.033600806 0.885497443 1.189074875 1.140326169 0.984256804 1 10.58639931 -6.987297716 24.96042065 0.971565389 1.117349022 0.311471161 0.101138093 215.2144568 422902.1174 0.017203673 0.022602636 1.03E-07 6.987297716 0.145783633 EMPQDLRS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 2 EMPQDLRSPAR 11 1 O43765;K7EMD6 O43765 SGTA Small glutamine-rich tetratricopeptide repeat-containing protein alpha 1 0 EMPQDLRS(1)PAR;EMPQDLRS(1)PAR ; 82.494 0.012961 52887000 4155.5 5234.7 5090 5010.8 5830.8 6003.6 6239.1 5168.7 6303.7 5138.9 TRUE FALSE FALSE 4592.594556 5404.307715 5783.638692 5107.79128 5384.045364 5492.059505 5537.060048 5036.492138 6259.832038 5360.463128 0.856753315 1.008179253 1.078943844 0.952863803 1.004399291 1.024549442 1.03294434 0.939562873 1.16777821 1 12.38814194 -7.123181186 20.55561963 0.932355801 1.008402872 0 0.089103182 4.730572793 769.6380945 0.010384162 0.012717968 7.53E-08 7.123181186 0.076047071 EMPQDLRS(ph)PARTPPSEEDSAEAER ddPTM_HeLa_SAHA_4h_R1 1 EMPQDLRSPARTPPSEEDSAEAER 24 2 O43765;K7EMD6 O43765 SGTA Small glutamine-rich tetratricopeptide repeat-containing protein alpha 1 0 EMPQDLRS(0.996)PART(0.004)PPSEEDSAEAER 72.167 0.00047149 4580600 704.38 571.42 738.51 508 717.56 578.78 560.57 682.27 382.53 523.2 TRUE FALSE FALSE 778.4699202 589.9343829 839.1502968 517.8330746 662.5807078 529.4646879 497.4931883 664.8185213 379.8679426 545.7577125 1.426402051 1.080945572 1.53758761 0.948833269 1.214056518 0.970146048 0.911564192 1.218156897 0.696037699 1 9.092116803 -5.269681114 23.77914233 1.203593703 1.021116562 0 0.243667502 469.2098007 1353773.657 0.029604272 0.067342728 5.37E-06 5.269681114 -0.182477141 EMQENDASMR ddPTM_HeLa_SAHA_4h_R1 1 EMQENDASMR 10 0 P31930 P31930 UQCRC1 "Cytochrome b-c1 complex subunit 1, mitochondrial" 0 0 121.5 0.00098502 0 446.97 459.39 439.17 346.08 500.46 465.88 618.04 420.92 422.62 473.1 FALSE FALSE TRUE 493.9843554 474.2745374 499.0178005 352.7788788 462.1148629 426.184403 548.4965126 410.1534759 419.678953 493.4976563 1.000986224 0.961047193 1.011185756 0.714854213 0.936407412 0.86359965 1.111447047 0.831115347 0.850417317 1 8.946899423 EMQPTHPIR ddPTM_HeLa_SAHA_4h_R1 6 EMQPTHPIR 9 0 E7EX29;P63104;B0AZS6;P63104-2;B7Z2E6;H0YB80;P27348;P31946-2;P31946 E7EX29;P27348;P31946-2 YWHAZ;YWHAQ;YWHAB "14-3-3 protein zeta/delta;14-3-3 protein theta;14-3-3 protein beta/alpha;14-3-3 protein beta/alpha, N-terminally processed" 0 0 ;;;;; ;;;;; 153.97 2.18E-05 78758000 19848.1 20195.6 20463.2 18846.1 20630.6 22966 23064.1 19860.7 20070.7 20564.5 FALSE FALSE TRUE 21935.81422 20849.95069 23251.81833 19210.89352 19049.88789 21009.1676 20468.86677 19352.69205 19931.02636 21451.13624 1.022594514 0.971974186 1.083943437 0.895565312 0.88805962 0.979396493 0.954208977 0.902175616 0.929136161 1 14.38876645 -6.243652319 24.99803153 1.012418827 0.926660173 0.412815368 0.04532302 449.3336624 631495.9773 0.005360166 0.008878218 5.71E-07 6.243652319 -0.085758654 EMRRTASEQINCTQTSMEVSDLRS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 EMRRTASEQINCTQTSMEVSDLRSK 25 3 F5H212;P15822 F5H212 HIVEP1 Zinc finger protein 40 1 0 EMRRT(0.004)AS(0.004)EQINCT(0.006)QT(0.006)S(0.021)MEVS(0.045)DLRS(0.915)K 41.597 0.014667 7863700 199.1 244.41 150.78 199.13 216.7 203.47 113.35 138.41 260.97 171.85 TRUE FALSE FALSE 220.0422515 252.3290444 171.3275132 202.9844491 200.0964928 186.1332113 100.5955597 134.8696726 259.1538885 179.2592945 1.227508186 1.407620425 0.955752468 1.132351043 1.116240546 1.038346223 0.561173466 0.752371993 1.445692895 1 7.485904114 -4.85313896 5.008204434 1.121811593 0.6586723 0.607437742 0.16148871 0.089134298 3.685925681 0.019277483 0.061595198 1.40E-05 4.85313896 -0.463139293 EMS(ph)GSTSELLIK ddPTM_HeLa_SAHA_4h_R1 1 EMSGSTSELLIK 12 0 Q9NS91;F8WE49 Q9NS91 RAD18 E3 ubiquitin-protein ligase RAD18 1 0 EMS(0.978)GS(0.017)T(0.002)S(0.002)ELLIK 87.001 0.0077289 0 845.26 819.25 1351.6 1096.4 1218.4 1264.6 1536.9 934.91 663.64 1179.1 TRUE FALSE FALSE 934.168325 845.7942375 1535.789009 1117.622407 1125.046455 1156.848966 1363.963967 910.9963559 659.0216752 1229.936771 0.759525487 0.687672942 1.248673139 0.908682815 0.914718936 0.940575965 1.108970801 0.740685519 0.535817524 1 10.26436844 EMTLDEWK ddPTM_HeLa_SAHA_4h_R1 1 EMTLDEWK 8 0 Q8NC51-2;Q8NC51;Q8NC51-4;Q8NC51-3 Q8NC51-2 SERBP1 Plasminogen activator inhibitor 1 RNA-binding protein 0 0 121.96 0.01964 24373000 1522.5 1234.9 1474.9 1653.5 1582.2 1507.4 1654.4 1498 1302.6 1253.8 FALSE FALSE TRUE 1682.643535 1274.91157 1675.891691 1685.505884 1460.972178 1378.96104 1468.242558 1459.683329 1293.535101 1307.857454 1.286564931 0.97480927 1.281402408 1.288753509 1.117072945 1.054366464 1.122631945 1.116087479 0.989048995 1 10.35298959 -5.531691044 24.9730256 1.149102042 1.09777739 0.015660695 0.11703241 647.0663966 1833709.411 0.019159591 0.038358483 2.94E-06 5.531691044 -0.051324652 EMVELPLR ddPTM_HeLa_SAHA_4h_R1 2 EMVELPLR 8 0 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 ; ; 148.04 0.0020464 5592300 3227.3 2637.3 2820.1 3439.2 3028.6 3500.2 3861.8 2771.4 3606.4 2999.3 FALSE FALSE TRUE 3566.762221 2722.75025 3204.408542 3505.770689 2796.549322 3201.963268 3427.2601 2700.511601 3581.302769 3128.614501 1.140045288 0.870273487 1.024226072 1.120550547 0.893861906 1.023444489 1.095456183 0.86316534 1.144692888 1 11.61130819 -7.290152205 24.994644 1.066132489 0.993479698 0.207013182 0.092996291 1158.589476 1008553.955 0.015922125 0.018209252 5.13E-08 7.290152205 -0.072652791 EMVS(ph)EK ddPTM_HeLa_SAHA_4h_R1 1 EMVSEK 6 0 D6R9V3;Q9P2K1-6;Q9P2K1 D6R9V3 CC2D2A Coiled-coil and C2 domain-containing protein 2A 1 0 EMVS(1)EK 46.766 0.022805 1659800 231.78 159.09 194.15 201.38 218.55 305.36 281.9 317.74 231.75 181.99 TRUE FALSE FALSE 256.1596838 164.2446204 220.6077509 205.2780011 201.8047462 279.3416101 250.1798701 309.6126709 230.1372329 189.8364795 1.349370176 0.865189982 1.162093563 1.081341171 1.063045136 1.471485411 1.317870362 1.630944019 1.212291934 1 7.568613441 -5.255274136 24.64648028 1.132928796 1.457877006 0.581823532 0.14164546 290.9904269 1163271.898 0.023388115 0.057994364 5.56E-06 5.255274136 0.32494821 ENAS(ph)PAPGTTAEEAMSR ddPTM_HeLa_SAHA_4h_R1 6 ENASPAPGTTAEEAMSR 17 0 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6;P46379-5;A0A0G2JL47;H0Y710 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 1 0 ENAS(0.966)PAPGT(0.023)T(0.011)AEEAMSR;ENAS(0.906)PAPGT(0.007)T(0.087)AEEAMSR;ENAS(1)PAPGTTAEEAMSR;ENAS(0.871)PAPGT(0.095)T(0.032)AEEAMS(0.001)R;ENAS(0.813)PAPGT(0.012)T(0.163)AEEAMS(0.012)R;ENAS(0.952)PAPGT(0.024)T(0.024)AEEAMSR ;;;;; 162.82 4.14E-06 108599800 6457.02 8762.34 5738.59 6966.87 8206.72 10032.51 7808.7 6885 10996.46 7374.19 TRUE FALSE FALSE 7136.198989 9046.245565 6520.61516 7101.723843 7577.922887 9177.683707 6930.044525 6708.891669 10919.93474 7692.127419 0.92772761 1.176039485 0.847699837 0.923245736 0.985153063 1.193126843 0.900926902 0.872176357 1.419624786 1 12.90916695 -5.52617221 24.89630675 0.969443806 0.998158082 0 0.181193979 469.3500791 3547966.715 0.015976831 0.032082444 2.98E-06 5.52617221 0.028714275 ENDEEMKAAK(ac)EK ddPTM_HeLa_SAHA_4h_R1 2 ENDEEMKAAKEK 12 2 O95696-2;O95696;J3KQ61 O95696-2 BRD1 Bromodomain-containing protein 1 0 1 ; ENDEEMK(0.003)AAK(0.997)EK;ENDEEMKAAK(1)EK 126.32 0.00039026 19048100 10050.2 7734.2 8386 8906.7 8439.1 7348.4 9546.4 10598.6 5773.9 8827 FALSE TRUE FALSE 11107.32615 7984.793155 9528.800408 9079.102058 7792.497981 6722.274979 8472.213947 10327.50316 5733.71896 9207.575168 1.206324786 0.867198259 1.034887061 0.98604702 0.846313806 0.730080923 0.920135192 1.121631154 0.622717584 1 13.16860555 -7.250722383 24.94674256 1.09743115 0.924474777 0 0.186749519 665.7875902 1549803.344 0.02121739 0.025849005 5.61E-08 7.250722383 -0.172956373 ENFQNWLK ddPTM_HeLa_SAHA_4h_R1 2 ENFQNWLK 8 0 P37802;P37802-2;X6RJP6 P37802 TAGLN2 Transgelin-2 0 0 ; ; 134.48 0.00064581 2950500 1017.5 925.7 884.02 995.29 1282.77 868.05 1158.71 689.58 672.23 809.21 FALSE FALSE TRUE 1124.525318 955.6932874 1004.489642 1014.555277 1184.48444 794.0872565 1028.328901 671.9415421 667.5518967 844.0990033 1.332219697 1.132205208 1.190014012 1.201938722 1.403252978 0.940751326 1.218256268 0.79604589 0.790845498 1 9.72126841 -4.256657575 24.43501825 1.168456207 0.796045679 0.229885755 0.176109304 316.4876124 1617172.821 0.020687891 0.224042301 5.54E-05 4.256657575 -0.372410529 ENFS(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 ENFSPER 7 0 A0A2R8Y880;Q7Z6E9-2;Q7Z6E9;H3BSK8 A0A2R8Y880 RBBP6 E3 ubiquitin-protein ligase RBBP6 1 0 ENFS(1)PER 86.882 0.022628 84668000 2235.6 2832.7 1935.4 2645.2 2917.8 3006.7 3067.2 2704.4 3199.8 2713 TRUE FALSE FALSE 2470.750665 2924.481339 2199.146233 2696.401671 2694.238794 2750.512245 2722.070584 2635.225364 3177.532331 2829.970707 0.873065809 1.033396329 0.777091518 0.952801972 0.952037697 0.971922514 0.961872353 0.931184679 1.122814566 1 11.4665714 -3.905140295 13.26872854 0.939400956 0.782182419 0 0.088766278 9266586.659 24066401.88 0.009608084 41402485.06 0.000124411 3.905140295 -0.157218537 ENGAVYS(ph)PTTEEDPGPAR ddPTM_HeLa_SAHA_4h_R1 1 ENGAVYSPTTEEDPGPAR 18 0 Q9NX76 Q9NX76 CMTM6 CKLF-like MARVEL transmembrane domain-containing protein 6 1 0 ENGAVY(0.001)S(0.333)PT(0.333)T(0.333)EEDPGPAR 78.964 0.0070956 10214000 425.25 468.67 367.49 389.87 508.61 501.6 403.71 479.7 435.22 419.42 TRUE FALSE FALSE 469.9797461 483.8552155 417.5696234 397.4164976 469.6404117 458.8608581 358.2834883 467.4299686 432.1912686 437.5032488 1.074231443 1.105946566 0.954437766 0.908373821 1.073455827 1.04881703 0.818927606 1.068403423 0.987858421 1 8.77314992 -6.733911203 24.99984796 1.041350165 0.975764568 0.131892706 0.079297839 328.2310287 298084.1068 0.012150851 0.017181631 1.85E-07 6.733911203 -0.065585597 ENGAVYSPTT(ph)EEDPGPAR ddPTM_HeLa_SAHA_4h_R1 1 ENGAVYSPTTEEDPGPAR 18 0 Q9NX76 Q9NX76 CMTM6 CKLF-like MARVEL transmembrane domain-containing protein 6 1 0 ENGAVY(0.002)S(0.189)PT(0.189)T(0.62)EEDPGPAR 92.792 0.0048545 12146000 266.25 377.52 329.31 341.82 412.03 438.77 469.85 522.82 405.47 307.76 TRUE FALSE FALSE 294.2553966 389.7518957 374.1866518 348.4364204 380.4603504 401.3843275 416.9812414 509.4470214 402.6483013 321.0290397 0.916600557 1.214070528 1.165585058 1.085373525 1.185127522 1.250305355 1.298889477 1.586918809 1.254242612 1 8.326559997 -1 0.286951639 0.953112187 5.68182162 0.51273514 0.120870897 14.56282137 0.185994372 0.036545981 35.29255179 0.1 1 4.728709433 ENGEEGCHQNGLALPVVEEGEVLSHS(ph)LEAEHR ddPTM_HeLa_SAHA_4h_R1 2 ENGEEGCHQNGLALPVVEEGEVLSHSLEAEHR 32 0 Q9HC44 Q9HC44 GPBP1L1 Vasculin-like protein 1 1 0 ENGEEGCHQNGLALPVVEEGEVLS(0.311)HS(0.689)LEAEHR;ENGEEGCHQNGLALPVVEEGEVLS(0.067)HS(0.933)LEAEHR ; 70.662 4.65E-05 4145200 838.49 805.59 852 1260.22 1010.81 761.46 1288.8 942.23 1093.74 1122.19 TRUE FALSE FALSE 926.6862253 831.6916446 968.106123 1284.61338 933.3619562 696.5793241 1143.780832 918.1291209 1086.128574 1170.573103 0.791651733 0.710499534 0.827036023 1.097422602 0.797354692 0.595075457 0.977111835 0.784341549 0.927860526 1 10.19299932 -9.274349098 0.991398935 1.000539464 0.823787916 0.149589332 0.130868591 0.710767043 1.247193209 0.088586325 0.023764077 5.32E-10 9.274349098 -0.176751548 ENIKPNET(ph)SPSFSK ddPTM_HeLa_SAHA_4h_R1 2 ENIKPNETSPSFSK 14 1 Q99700;H0YH87;A0A5F9ZHW5;A0A5F9ZHX3;A0A2R8Y5A6;A0A2R8Y7E6;A0A5F9ZI57;V9GY86;F8VQP2;A0A2R8YDM9;A0A2R8Y7P6;Q99700-5;Q99700-2;Q99700-4;A0A5F9ZHH4;F8W0B5;F8WB06 Q99700;F8WB06 ATXN2 Ataxin-2 1 0 ENIKPNET(0.905)S(0.089)PS(0.006)FSK;ENIKPNET(0.918)S(0.077)PS(0.005)FSK ; 104.16 0.0036103 20474200 3744.1 5299.6 2831.7 4656.2 4958 6373.4 4626.8 3972.1 7757.1 4627.2 TRUE FALSE FALSE 4137.921617 5471.310517 3217.589329 4746.327484 4578.119111 5830.350464 4106.180287 3870.499434 7703.11771 4826.701237 0.857298062 1.13355069 0.666622849 0.983348099 0.948498547 1.207936886 0.850721867 0.80189331 1.595938371 1 12.23682181 -4.54002684 24.99932509 0.948998533 0.814100119 0.000417151 0.247328734 315.7582377 460327.8011 0.018481045 0.069181561 2.88E-05 4.54002684 -0.134898414 ENIKPNETS(ph)PSFSK ddPTM_HeLa_SAHA_4h_R1 1 ENIKPNETSPSFSK 14 1 Q99700;H0YH87;A0A5F9ZHW5;A0A5F9ZHX3;A0A2R8Y5A6;A0A2R8Y7E6;A0A5F9ZI57;V9GY86;F8VQP2;A0A2R8YDM9;A0A2R8Y7P6;Q99700-5;Q99700-2;Q99700-4;A0A5F9ZHH4;F8W0B5;F8WB06 Q99700;F8WB06 ATXN2 Ataxin-2 1 0 ENIKPNET(0.016)S(0.925)PS(0.044)FS(0.016)K 72.932 0.015116 14129000 2411.8 3613 1967.9 2949.6 2975.6 3601.2 2678.9 2511 4410.7 2963.7 TRUE FALSE FALSE 2665.48419 3730.063571 2236.075164 3006.693773 2747.610171 3294.3575 2377.463122 2446.772256 4380.00558 3091.479611 0.862203386 1.206562565 0.723302575 0.97257435 0.888768653 1.065624851 0.769037296 0.791456702 1.416799116 1 11.59408178 -4.733157552 24.96107942 0.944310151 0.780246738 0.113724066 0.192239877 225.7737408 199260.8031 0.015645596 0.058516816 1.85E-05 4.733157552 -0.164063413 ENLATVEGNFASIDER ddPTM_HeLa_SAHA_4h_R1 1 ENLATVEGNFASIDER 16 0 Q13561;Q13561-3;Q13561-2;H0YI98 Q13561 DCTN2 Dynactin subunit 2 0 0 129.29 0.0012067 2957100 1744.9 1673.2 1457.2 1657.9 1425.4 1831.8 1879.6 1535.9 1762.6 1267.5 FALSE FALSE TRUE 1928.436588 1727.412778 1655.779627 1689.991052 1316.18616 1675.720335 1668.102461 1496.613902 1750.333923 1322.148128 1.458563187 1.306519853 1.252340485 1.278216121 0.995490696 1.267422537 1.261660797 1.131956299 1.323856144 1 10.3686681 -4.243685828 21.26162222 1.223984636 1.131955711 0.043982636 0.134626719 1763.851825 2112101.489 0.024803935 0.781788064 5.71E-05 4.243685828 -0.092028925 ENLLDFIK ddPTM_HeLa_SAHA_4h_R1 2 ENLLDFIK 8 0 P07237;H7BZ94;I3L398;I3L312;H0Y3Z3;I3L4M2;I3NI03 P07237 P4HB Protein disulfide-isomerase 0 0 ; ; 113.22 0.0058944 716800 825.4 1201.51 999.75 1137.53 1404.69 1052.17 1221.95 1025.52 741.76 925.38 FALSE FALSE TRUE 912.2193591 1240.439712 1135.990724 1159.548538 1297.062956 962.5191967 1084.45297 999.2886833 736.5980318 965.2776605 0.94503312 1.285060002 1.176853842 1.201259063 1.34372006 0.99714231 1.123462206 1.035234445 0.763094457 1 9.914800181 -7.278958579 24.96020024 0.974043412 1.16656282 0.481301127 0.118557554 524.5991237 747412.5731 0.016823685 0.019262376 5.26E-08 7.278958579 0.192519408 ENLLEEQGSIALR ddPTM_HeLa_SAHA_4h_R1 1 ENLLEEQGSIALR 13 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 131.32 0.0041576 3159700 572.08 440.12 446.61 354.25 391.32 583.62 510.14 535.92 424.22 449.08 FALSE FALSE TRUE 632.2539992 454.3801768 507.471685 361.107021 361.3371461 533.8922926 452.7377046 522.2119424 421.2678185 468.4420365 1.349695266 0.969981644 1.083317989 0.770868096 0.771359353 1.139719007 0.9664754 1.114784545 0.899295506 1 8.871726734 -7.150262857 14.07539343 1.165129863 0.968394492 0.01654788 0.165479104 1.211151297 148.4642803 0.028942955 0.035449387 7.08E-08 7.150262857 -0.19673537 ENLLLSDS(ph)PSCR ddPTM_HeLa_SAHA_4h_R1 1 ENLLLSDSPSCR 12 0 E9PF63;O75116;D6REE7 E9PF63 ROCK2 Rho-associated protein kinase 2 1 0 ENLLLS(0.001)DS(0.981)PS(0.018)CR 129.38 0.0010814 2379600 542 561.3 297.47 683.64 705.37 734.48 522.87 618.53 628.44 463.86 TRUE FALSE FALSE 599.0100468 579.4864883 338.0076624 696.8728408 651.324703 671.8981719 464.0352915 602.7088982 624.0666349 483.8592747 1.237984013 1.197634351 0.69856605 1.440238675 1.346103582 1.388623112 0.959029445 1.245628491 1.28976888 1 8.918443706 ENMRQMIR ddPTM_HeLa_SAHA_4h_R1 1 ENMRQMIR 8 1 A0A494C175;A0A0S2Z4A4;A0A494C1P6;P58340;P58340-3 A0A494C175 MLF1 Myeloid leukemia factor 1 0 0 71.342 0.020394 121100000 1917.9 2162 2304.4 2162 2498.7 2498.8 2261.9 2054.2 2105.5 1670.4 FALSE FALSE TRUE 2119.633522 2232.050219 2618.431631 2203.848636 2307.250146 2285.888182 2007.385059 2001.656538 2090.847654 1742.419119 1.216488903 1.281006501 1.502756486 1.264821197 1.324164847 1.311904901 1.152067856 1.148780174 1.199968269 1 10.76687597 -8.510263359 0.799429681 1.017292641 1.283938602 0.234993401 0.11042761 0.339352061 0.447594956 0.045114629 0.022466983 3.09E-09 8.510263359 0.266645961 ENNVSQPASSSSSSSSSNNGS(ph)ASPTKTK ddPTM_HeLa_SAHA_4h_R1 2 ENNVSQPASSSSSSSSSNNGSASPTKTK 28 1 A0A3B3IRW4;Q02446 A0A3B3IRW4 SP4 Transcription factor Sp4 1 0 ENNVSQPAS(0.006)S(0.009)S(0.006)S(0.006)S(0.006)S(0.033)S(0.005)S(0.005)S(0.023)NNGS(0.556)AS(0.275)PT(0.035)KT(0.035)K;ENNVSQPAS(0.001)S(0.001)S(0.002)S(0.019)S(0.141)S(0.141)S(0.141)S(0.026)S(0.04)NNGS(0.271)AS(0.139)PT(0.06)KT(0.019)K ; 87.566 4.45E-06 7856300 1279.25 1118.17 1213.97 977.94 1027.8 1036.84 1142.03 1581.22 756.88 1300.81 TRUE FALSE FALSE 1413.807384 1154.399442 1379.40351 996.8694428 949.050186 948.4953989 1013.525779 1540.774682 751.6128105 1356.894285 1.04194365 0.85076594 1.016588783 0.73466994 0.699428243 0.699019378 0.746945278 1.13551564 0.553921421 1 10.40609261 -6.593839868 1.541447313 1.015059436 0.793070202 0 0.197432794 0.303927585 1.455639542 0.022079163 0.034913387 2.55E-07 6.593839868 -0.221989234 ENPLLPEEEEQR ddPTM_HeLa_SAHA_4h_R1 2 ENPLLPEEEEQR 12 0 H0Y3P2;D3DQV9;P78344-2;P78344;H0YCH5;H0YD77;H0YEC5 H0Y3P2 EIF4G2 Eukaryotic translation initiation factor 4 gamma 2 0 0 ; ; 142.76 0.003426 4296700 949.33 1038.76 940.35 961.38 905.89 1312.5 1331.99 1024.41 952.08 1075.98 FALSE FALSE TRUE 1049.184885 1072.416506 1068.496001 979.9889001 836.4809039 1200.667616 1182.11098 998.2070755 945.4543978 1122.370764 0.934793492 0.955492196 0.951999139 0.873141864 0.745280375 1.069760239 1.053226811 0.889373733 0.842372617 1 10.13233362 -9.091560774 0.722786194 1.002967455 0.934890271 0 0.099363833 1.88883052 1.680026458 0.075216997 0.018901978 8.10E-10 9.091560774 -0.068077184 ENPVLDVVS(ph)NPEQTAGEER ddPTM_HeLa_SAHA_4h_R1 2 ENPVLDVVSNPEQTAGEER 19 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 ENPVLDVVS(0.999)NPEQT(0.001)AGEER;ENPVLDVVS(0.992)NPEQT(0.008)AGEER ; 170.14 3.44E-07 8817400 709.05 1300.36 919.59 1213.41 1199.32 1281.43 1048.21 787.28 1342.67 950.24 TRUE FALSE FALSE 783.6311322 1342.492517 1044.906936 1236.897305 1107.428361 1172.244955 930.2626521 767.1425176 1333.32625 991.2094968 0.790580735 1.35439836 1.054173653 1.247866681 1.117249546 1.182640964 0.938512651 0.773945891 1.345150803 1 9.9530462 -7.294559873 24.99935057 0.901107574 1.097954211 0 0.211487971 694.1144927 523915.9846 0.028702802 0.032824064 5.08E-08 7.294559873 0.196846638 ENPVVVGEK(ac)IQKI ddPTM_HeLa_SAHA_4h_R1 1 ENPVVVGEKIQKI 13 2 Q6FIF0-2;Q6FIF0 Q6FIF0-2 ZFAND6 AN1-type zinc finger protein 6 0 1 ENPVVVGEK(1)IQKI 128.21 0.0028599 509310 360.7 307.45 390.38 266.27 291.74 389.37 341.63 463.83 188.07 163.63 FALSE TRUE FALSE 398.640081 317.4115817 443.5789534 271.4240409 269.3869442 356.1934855 303.1888933 451.9659002 186.7612056 170.6848901 2.335532341 1.859634919 2.598817934 1.590205441 1.578270602 2.086848375 1.776307751 2.647954954 1.094187104 1 7.415191539 -9.374654522 1.025991459 0.981831381 2.052674717 0.556920745 0.360274485 0.330063677 0.604714903 0.263513048 0.063514769 4.22E-10 9.374654522 1.070843336 ENPYYDSR ddPTM_HeLa_SAHA_4h_R1 2 ENPYYDSR 8 0 A0A087WVQ6;Q00610-2;Q00610 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 ; ; 204.42 2.71E-11 74831000 9121.1 9502 8316.4 10120.7 10747.8 10798.1 10553.9 9797.6 7820.3 8609.5 FALSE FALSE TRUE 10080.49915 9809.871034 9449.715682 10316.60078 9924.305886 9878.041132 9366.347396 9546.991579 7765.877896 8980.697679 1.122462809 1.09232839 1.052225119 1.148752709 1.105070702 1.099919125 1.042942066 1.063056782 0.86472991 1 13.13261181 -9.407343252 1.080217984 0.998870578 1.093329825 0.507516458 0.05369017 0.321928602 0.659038342 0.023452744 0.005671881 3.91E-10 9.407343252 0.094459247 ENQECPRS(ph)LEEDLETLK ddPTM_HeLa_SAHA_4h_R1 1 ENQECPRSLEEDLETLK 17 1 P48681 P48681 NES Nestin 1 0 ENQECPRS(0.972)LEEDLET(0.028)LK 103.71 0.0013442 10049000 1612.2 1553.4 1802.5 1710.5 1721 1764.1 1981.4 1803.1 1380.4 1622.4 TRUE FALSE FALSE 1781.778593 1603.731179 2048.135313 1743.609201 1589.137352 1613.788755 1758.447657 1756.979313 1370.793684 1692.349604 1.052843094 0.947635864 1.210231803 1.030289012 0.939012452 0.95357883 1.039056973 1.038189337 0.809994389 1 10.72481191 ENQEPLRS(ph)PEVGDEEALRPLTK ddPTM_HeLa_SAHA_4h_R1 2 ENQEPLRSPEVGDEEALRPLTK 22 2 P48681 P48681 NES Nestin 1 0 ENQEPLRS(1)PEVGDEEALRPLTK;ENQEPLRS(1)PEVGDEEALRPLTK ; 70.987 0.0014686 120752000 1761.18 2271.52 1756.09 2016.46 2492.32 2315.18 2649.5 1987.42 2661.4 1960.16 TRUE FALSE FALSE 1946.428993 2345.118738 1995.4008 2055.491499 2301.35898 2117.913639 2351.371287 1936.584674 2642.879101 2044.67209 0.951951661 1.146941238 0.975902595 1.005291513 1.125539391 1.035820682 1.149999209 0.947137041 1.292568678 1 10.99765378 -7.303482017 24.99212434 0.977310502 1.055863471 0 0.119888056 487.9329873 290049.2012 0.01063585 0.012161223 4.97E-08 7.303482017 0.078552969 ENQINS(ph)FGK ddPTM_HeLa_SAHA_4h_R1 1 ENQINSFGK 9 0 F5H5B4;Q13043-2;Q13043 F5H5B4 STK4 Serine/threonine-protein kinase 4;Serine/threonine-protein kinase 4 37kDa subunit;Serine/threonine-protein kinase 4 18kDa subunit 1 0 ENQINS(1)FGK 93.839 0.014964 3754100 1457.2 1594.3 1360.3 1910.5 1645.5 1754.5 1894 1793.1 1354.6 1650.6 TRUE FALSE FALSE 1610.474982 1645.956366 1545.6746 1947.48049 1519.422145 1605.006729 1680.882135 1747.235098 1345.173228 1721.765444 0.935362588 0.955970148 0.897726578 1.131095119 0.882479173 0.932186632 0.976255007 1.014792755 0.781275541 1 10.7496729 ENQPENSQT(ph)PTK ddPTM_HeLa_SAHA_4h_R1 2 ENQPENSQTPTK 12 0 Q12834 Q12834 CDC20 Cell division cycle protein 20 homolog 1 0 ENQPENSQT(0.992)PT(0.008)K;ENQPENS(0.002)QT(0.996)PT(0.002)K ; 217.19 2.00E-15 9143700 3670.2 3312.2 2832.2 3747.6 4048.2 4043.1 3946.2 3550.6 5089.9 4181.7 TRUE FALSE FALSE 4056.248475 3419.517453 3218.157467 3820.140217 3738.027791 3698.605134 3502.16319 3459.780793 5054.478971 4361.993552 0.929907032 0.78393455 0.737772174 0.875778511 0.856953993 0.847916231 0.802881331 0.793165041 1.158754343 1 12.09077192 -7.459454154 2.876767466 0.972090581 0.816274914 0.635646246 0.07119132 0.101843537 1.616083043 0.008276829 0.009167748 3.47E-08 7.459454154 -0.155815668 ENQPENSQT(ph)PTKK ddPTM_HeLa_SAHA_4h_R1 3 ENQPENSQTPTKK 13 1 Q12834 Q12834 CDC20 Cell division cycle protein 20 homolog 1 0 ENQPENS(0.006)QT(0.766)PT(0.228)KK;ENQPENSQT(0.601)PT(0.399)KK;ENQPENS(0.001)QT(0.998)PT(0.001)KK ;; 233.62 1.14E-21 24102700 5575.44 4838.98 4091.3 6851.62 6628.72 7432.1 7211.71 7189.2 6939.39 8199.91 TRUE FALSE FALSE 6161.89036 4995.766127 4648.841057 6984.243013 6120.828906 6798.843268 6400.229411 7005.310674 6891.09822 8553.448249 0.720398391 0.584064576 0.543504903 0.816541213 0.715597818 0.794865775 0.748263066 0.819004274 0.805651478 1 13.06229043 -8.99317024 0.893592164 0.993044766 0.71713912 0.272756957 0.104028488 0.32168503 0.483963142 0.054047634 0.018521769 1.02E-09 8.99317024 -0.275905646 ENQPENSQTPT(ph)KK ddPTM_HeLa_SAHA_4h_R1 1 ENQPENSQTPTKK 13 1 Q12834 Q12834 CDC20 Cell division cycle protein 20 homolog 1 0 ENQPENS(0.006)QT(0.469)PT(0.525)KK 89.44 0.01466 54704000 3591.1 3579 2776.1 4007.5 4325 4323.2 4225.2 4944.1 4501.9 4867.9 TRUE FALSE FALSE 3968.828375 3694.961948 3154.412451 4085.070957 3993.619434 3954.839038 3749.769376 4817.637081 4470.570911 5077.778992 0.781607152 0.727672857 0.621218934 0.804499559 0.786489416 0.778852141 0.73846644 0.948768564 0.880418569 1 12.30998189 -8.934609642 0.813369197 0.997164038 0.76830452 0.355033854 0.084269992 0.353593125 0.438257339 0.046995217 0.015794385 1.16E-09 8.934609642 -0.228859518 ENQSEGKGSDSDS(ph)EGDNPEKK ddPTM_HeLa_SAHA_4h_R1 1 ENQSEGKGSDSDSEGDNPEKK 21 2 I3L4J1;Q9UN37 I3L4J1 VPS4A Vacuolar protein sorting-associated protein 4A 1 0 ENQSEGKGS(0.001)DS(0.014)DS(0.985)EGDNPEKK 80.382 0.0010176 1071800 167.61 0 172.42 246.16 301.67 245.98 265.3 69.25 268.72 222.91 TRUE FALSE FALSE 185.2399888 0 195.9164997 250.9247828 278.5561098 225.0211202 235.4477458 67.47868527 266.8499556 232.520741 0.796660066 0 0.842576446 1.079150108 1.197983924 0.967746444 1.012588145 0.290205016 1.147639365 1 7.861215601 -8.920123118 1.247979734 0.980260834 0.7952137 0.089118505 0.352098248 1.176972121 3.640124619 0.138036607 0.065339216 1.20E-09 8.920123118 -0.185047135 ENS(ph)PNSFPR ddPTM_HeLa_SAHA_4h_R1 1 ENSPNSFPR 9 0 A0A075B785;A0A2R8Y566;Q9P260;Q9P260-2 A0A075B785 KIAA1468 LisH domain and HEAT repeat-containing protein KIAA1468 1 0 ENS(0.973)PNS(0.027)FPR 91.123 0.016835 10801000 1023.7 1507.3 1199.2 1572.3 1565.1 1558.1 1511 1509.9 1795.6 1622.8 TRUE FALSE FALSE 1131.377463 1556.137509 1362.620731 1602.73414 1445.182376 1425.341114 1340.978303 1471.278944 1783.104273 1692.76685 0.668359888 0.91928638 0.804966574 0.946813284 0.853739767 0.842018565 0.792181335 0.869156284 1.053366725 1 10.72516756 -9.687960277 1.57203381 0.999686637 0.81335119 0.456333465 0.077541749 0.331651016 1.480932227 0.063234492 0.01414128 2.05E-10 9.687960277 -0.186335448 ENSFGS(ph)PLEFR ddPTM_HeLa_SAHA_4h_R1 5 ENSFGSPLEFR 11 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 ENS(0.014)FGS(0.986)PLEFR;ENS(0.032)FGS(0.968)PLEFR;ENS(0.028)FGS(0.972)PLEFR;ENS(0.009)FGS(0.991)PLEFR;ENS(0.011)FGS(0.989)PLEFR ;;;; 180.3 2.75E-05 132905600 9186.09 11773.62 8252.13 8371.6 9782.74 11691.5 9421.81 8367.59 17055 11031.37 TRUE FALSE FALSE 10152.32509 12155.09301 9376.687301 8533.644424 9033.188575 10695.31843 8361.643142 8153.559164 16936.31287 11506.98635 0.882274888 1.056322885 0.814869073 0.741605505 0.785017754 0.929463033 0.726657953 0.70857468 1.47182871 1 13.49022242 -6.61012319 7.534051933 0.951066376 0.783609968 0.321314274 0.179263652 0.138631208 10.3357364 0.01210217 0.017134579 2.45E-07 6.61012319 -0.167456408 ENSLCGSAPNS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 ENSLCGSAPNSR 12 0 Q2NKX8;B5MDQ0 Q2NKX8 ERCC6L DNA excision repair protein ERCC-6-like 1 0 ENS(0.001)LCGS(0.029)APNS(0.969)R 82.171 0.019629 4555000 852.33 1060.4 906.12 944.14 998.66 1207.3 1208.1 1025.6 1081.9 1124.9 TRUE FALSE FALSE 941.98198 1094.757656 1029.601315 962.4151949 922.1428865 1104.431248 1072.161408 999.3666371 1074.37097 1173.399944 0.802779977 0.932979127 0.877451307 0.82019366 0.785872618 0.941223198 0.913722055 0.851684579 0.915605097 1 10.19647911 -9.490054922 1.192052861 1.001175074 0.861286663 0.2550714 0.056197593 0.335697269 0.841949805 0.039060562 0.009192162 3.24E-10 9.490054922 -0.139888411 ENSREALAEAALES(ph)PRPALVR ddPTM_HeLa_SAHA_4h_R1 1 ENSREALAEAALESPRPALVR 21 2 O14745;O14745-2 O14745 SLC9A3R1 Na(+)/H(+) exchange regulatory cofactor NHE-RF1 1 0 ENS(0.387)REALAEAALES(0.613)PRPALVR 58.952 0.011319 10504000 237.94 227.77 282.2 276.6 381.33 352.63 238.29 288.14 485.16 335.02 TRUE FALSE FALSE 262.9676209 235.1498974 320.6567464 281.953993 352.1125778 322.5839402 211.4769821 280.769796 481.7837321 349.4643517 0.752487685 0.672886651 0.917566398 0.80681761 1.007577958 0.923081106 0.605146079 0.803429004 1.378634844 1 8.449001486 -9.377207941 1.113507981 0.999501684 0.809015003 0.348137207 0.167040213 0.539869471 1.202460892 0.079023347 0.020584929 4.20E-10 9.377207941 -0.190486682 ENTEFTDHELQEWYK ddPTM_HeLa_SAHA_4h_R1 2 ENTEFTDHELQEWYK 15 0 E9PC71;P37235 E9PC71 HPCAL1 Hippocalcin-like protein 1 0 0 ; ; 165.89 4.13E-06 12638700 3056.2 3730 2797.1 3511.7 4282.2 4595.5 4263.4 3094.2 3744.7 3942.1 FALSE FALSE TRUE 3377.665138 3850.854447 3178.274221 3579.674032 3954.098761 4203.937546 3783.671011 3015.054844 3718.640328 4112.063223 0.82140399 0.936477442 0.772914726 0.870529911 0.961585109 1.022342634 0.920139309 0.733221908 0.904324697 1 12.00564673 -9.520624427 1.271777976 1.000082086 0.879049576 0.059543053 0.087387761 0.572019514 1.654568548 0.059829242 0.014325771 3.02E-10 9.520624427 -0.12103251 ENVEYIEREES(ph)DGEYDEFGR ddPTM_HeLa_SAHA_4h_R1 7 ENVEYIEREESDGEYDEFGR 20 1 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 ENVEYIEREES(0.999)DGEY(0.001)DEFGR;ENVEYIEREES(1)DGEYDEFGR;ENVEYIEREES(0.999)DGEY(0.001)DEFGR;ENVEYIEREES(1)DGEYDEFGR;ENVEY(0.001)IEREES(0.976)DGEY(0.023)DEFGR;ENVEYIEREES(1)DGEYDEFGR;ENVEYIEREES(0.945)DGEY(0.055)DEFGR ;;;;;; 115.87 0.00016888 409506900 14076.71 16232.97 15788.19 17550.59 18008.79 20544.5 18855.97 15578.34 19863.13 18116.23 TRUE FALSE FALSE 15557.36294 16758.92888 17939.72231 17890.30705 16628.9604 18793.99302 16734.24663 15179.86862 19724.90086 18897.30933 0.823258098 0.886842067 0.949326806 0.946711869 0.879964449 0.99453275 0.885535942 0.80328201 1.043794146 1 14.20589321 -9.604073516 1.421876438 0.999670165 0.890667572 0.422401517 0.056724803 0.4042589 1.473874111 0.041418647 0.009684513 2.49E-10 9.604073516 -0.109002593 ENVEYIEREES(ph)DGEYDEFGRK ddPTM_HeLa_SAHA_4h_R1 1 ENVEYIEREESDGEYDEFGRK 21 2 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 ENVEY(0.006)IEREES(0.504)DGEY(0.49)DEFGRK 53.705 0.018513 10687000 919.38 931.55 964.46 889.5 1124 1181.7 1214.9 1036.5 1206.7 1071.9 TRUE FALSE FALSE 1016.084607 961.7328312 1095.891586 906.7175587 1037.879363 1081.012512 1078.196255 1009.987831 1198.302476 1118.114855 0.908747972 0.860137782 0.980124342 0.810934185 0.928240385 0.966817056 0.964298301 0.903295244 1.071716802 1 10.12685268 -9.15870296 0.923687619 0.999724327 0.916210981 0.401982123 0.0543327 0.567489378 0.877264725 0.031111798 0.009057328 6.94E-10 9.15870296 -0.083513346 ENVSDLTLGPGNS(ph)PITR ddPTM_HeLa_SAHA_4h_R1 1 ENVSDLTLGPGNSPITR 17 0 Q6DCA0 Q6DCA0 AMMECR1L AMMECR1-like protein 1 0 ENVSDLTLGPGNS(1)PITR 238.88 2.09E-36 15439000 1165.5 1292.4 897.27 1112 1123.4 1429.4 1156 1057.2 1260.4 1032.2 TRUE FALSE FALSE 1288.092638 1334.274608 1019.545283 1133.524368 1037.325335 1307.607078 1025.923838 1030.158355 1251.628774 1076.703193 1.196330284 1.2392223 0.946913958 1.052773294 0.963427378 1.214454537 0.952838112 0.956770966 1.162464068 1 10.07240489 -6.731801833 24.9999591 1.106290413 1.020228588 0.272671316 0.098073397 346.2710941 292086.9368 0.017601772 0.024890779 1.85E-07 6.731801833 -0.086061825 EPAGEAVALALLES(ph)PRPEGGEEPPRPSPEETQQCK ddPTM_HeLa_SAHA_4h_R1 3 EPAGEAVALALLESPRPEGGEEPPRPSPEETQQCK 35 2 E5RIV7;Q8IV48 E5RIV7 ERI1 3-5 exoribonuclease 1 1 0 EPAGEAVALALLES(0.993)PRPEGGEEPPRPS(0.006)PEET(0.001)QQCK;EPAGEAVALALLES(0.999)PRPEGGEEPPRPSPEETQQCK;EPAGEAVALALLES(0.999)PRPEGGEEPPRPS(0.001)PEETQQCK ;; 68.434 2.15E-05 14294400 1236.83 2010.32 1758.57 2602.51 2682.95 2733.83 2537.39 2212.62 3036.21 1999.4 TRUE FALSE FALSE 1366.925454 2075.455687 1998.218761 2652.885344 2477.382951 2500.892304 2251.876199 2156.024384 3015.080767 2085.603919 0.655409899 0.995134152 0.95810079 1.271998638 1.187849202 1.199121406 1.079723805 1.033765024 1.445663167 1 11.02624948 -6.654865093 2.203899718 0.840189432 1.151534821 0 0.220730803 0.195392908 1.937082313 0.024363879 0.03605537 2.21E-07 6.654865093 0.311345389 EPAITSQNS(ph)PEAR ddPTM_HeLa_SAHA_4h_R1 5 EPAITSQNSPEAR 13 0 E5RIS7;A0A1W2PRL9;A0A1W2PPZ5;P23193-2;P23193 E5RIS7 TCEA1 Transcription elongation factor A protein 1 1 0 EPAITSQNS(1)PEAR;EPAITSQNS(1)PEAR;EPAIT(0.005)S(0.019)QNS(0.976)PEAR;EPAIT(0.027)S(0.06)QNS(0.914)PEAR;EPAIT(0.001)S(0.004)QNS(0.995)PEAR ;;;; 220.52 2.06E-16 228425900 2170.36 3106.25 2301.08 2372.98 2670.02 3371.15 2982.46 2628.82 3192.33 2659.07 TRUE FALSE FALSE 2398.648423 3206.894538 2614.659199 2418.912459 2465.443644 3083.909054 2646.865751 2561.578591 3170.114316 2773.715521 0.864778094 1.156172835 0.942655863 0.872083832 0.888859591 1.111833218 0.954267203 0.923518858 1.142912563 1 11.43760411 EPALPLEPDSGGNTS(ph)PGVTANGEAR ddPTM_HeLa_SAHA_4h_R1 2 EPALPLEPDSGGNTSPGVTANGEAR 25 0 V9GYM8;A0A5F9ZI21;Q92974-3;Q92974-2;Q92974;Q5VY93 V9GYM8 ARHGEF2 Rho guanine nucleotide exchange factor 2 1 0 EPALPLEPDSGGNT(0.428)S(0.571)PGVT(0.001)ANGEAR;EPALPLEPDS(0.022)GGNT(0.151)S(0.814)PGVT(0.013)ANGEAR ; 151.35 1.33E-09 22535000 3496.2 3591.6 2885.7 3637.2 4158.7 4387.6 4511.4 4477.5 3528 3541.5 TRUE FALSE FALSE 3863.946357 3707.970197 3278.948168 3707.603265 3840.061304 4013.751796 4003.765399 4362.972033 3503.448361 3694.191397 1.045951859 1.003729855 0.887595638 1.003630529 1.039486289 1.086503477 1.083800207 1.18103573 0.948366769 1 11.8510429 -4.537785517 1.034318356 1.009611711 1.210208127 0.614673479 0.047450478 0.718908892 0.807155141 0.007425365 0.141860041 2.90E-05 4.537785517 0.200596416 EPAPAEALPQQYPEPAPAALCGPPPRAPS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 EPAPAEALPQQYPEPAPAALCGPPPRAPSR 30 1 Q8IU81 Q8IU81 IRF2BP1 Interferon regulatory factor 2-binding protein 1 1 0 EPAPAEALPQQYPEPAPAALCGPPPRAPS(1)R;EPAPAEALPQQYPEPAPAALCGPPPRAPS(1)R ; 108.08 1.54E-09 12266500 674.75 711.69 602.42 714.43 817.14 857.55 800.76 546.8 1118.41 678.34 TRUE FALSE FALSE 745.7233009 734.749223 684.5146603 728.2588257 754.5309097 784.4819156 710.6563773 532.8136478 1110.626894 707.5865571 1.053896931 1.038387764 0.967393534 1.02921518 1.066344325 1.108672724 1.004338438 0.753001371 1.569598634 1 9.466762829 -4.269412402 4.513555401 1.031133582 0.736379728 0.188143062 0.174033404 0.056428235 2.908254336 0.005431576 0.052043702 5.38E-05 4.269412402 -0.294753854 EPAPAS(ph)PAPAGVEIR ddPTM_HeLa_SAHA_4h_R1 3 EPAPASPAPAGVEIR 15 0 Q14195-2 Q14195-2 DPYSL3 Dihydropyrimidinase-related protein 3 1 0 EPAPAS(1)PAPAGVEIR;EPAPAS(1)PAPAGVEIR;EPAPAS(1)PAPAGVEIR ;; 169.15 1.79E-06 41591000 2150.08 2452.66 2111.73 1889.12 2226.95 2878.63 2355.58 2016.08 3033.6 2390.2 TRUE FALSE FALSE 2376.235279 2532.127793 2399.505567 1925.686649 2056.321572 2633.354529 2090.523939 1964.511593 3012.488931 2493.253219 0.953066163 1.015591908 0.962399466 0.772359035 0.824754404 1.05619217 0.838472371 0.787931036 1.208256308 1 11.2838137 -6.446465238 9.660305544 0.980474269 0.864475656 0.36788483 0.103732919 0.416533369 50.72052491 0.011557743 0.017653495 3.58E-07 6.446465238 -0.115998613 EPCPVVPPREAS(ph)IR ddPTM_HeLa_SAHA_4h_R1 1 EPCPVVPPREASIR 14 1 A0A384DVL8;Q8TD84-2;Q8TD84 A0A384DVL8 DSCAML1 Down syndrome cell adhesion molecule-like protein 1 1 0 EPCPVVPPREAS(1)IR 102.9 0.016399 13712000 0 0 0 67.852 0 0 135.61 120.58 0 0 TRUE FALSE FALSE 0 0 0 69.16537358 0 0 120.3508059 117.4957382 0 0 0 EPDATPPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 EPDATPPSPR 10 0 A0A1W2PS85;R4GMW8;P28715;A0A494C0S2;A0A090HNM7 A0A1W2PS85 BIVM-ERCC5;ERCC5;ERCC5-201 DNA repair protein complementing XP-G cells 1 0 EPDAT(0.001)PPS(0.999)PR 109.72 0.0057431 5730400 1400.1 1636.7 1112.2 1521.9 1507.7 2240.8 1653.3 1480.9 2333.5 1691.4 TRUE FALSE FALSE 1547.368942 1689.730154 1263.764824 1551.358575 1392.180352 2049.871234 1467.266333 1443.020722 2317.260984 1764.324532 0.877031926 0.957720716 0.716288189 0.879293207 0.789072717 1.161844772 0.831630636 0.817888487 1.313398381 1 10.78490024 -9.123892291 0.749601342 1.00516354 0.879931797 0.237403723 0.1510968 1.210061105 1.156836344 0.090853782 0.022674355 7.52E-10 9.123892291 -0.125231742 EPDPDS(ph)DWEPEER ddPTM_HeLa_SAHA_4h_R1 1 EPDPDSDWEPEER 13 0 Q9NPE2-3;Q9NPE2 Q9NPE2-3 NGRN Neugrin 1 0 EPDPDS(1)DWEPEER 121.92 0.0010765 12027000 1005.8 1355.6 768.93 1006.5 1044.4 1367.2 1204.1 967.97 1417.6 916.86 TRUE FALSE FALSE 1111.594659 1399.522329 873.715776 1025.982263 964.3782976 1250.706868 1068.611499 943.210729 1407.734806 956.3903216 1.162281376 1.46333803 0.913555644 1.072765209 1.008352213 1.307736852 1.117338261 0.986219442 1.471924981 1 9.90145572 -9.270933261 1.155072441 1.004399596 1.133148798 0 0.210804309 0.888479095 2.224481299 0.084349822 0.026234879 5.36E-10 9.270933261 0.128749203 EPEAASS(ph)RGSPVR ddPTM_HeLa_SAHA_4h_R1 1 EPEAASSRGSPVR 13 1 F8WC91;B9A018;Q53GS9-3;Q53GS9 F8WC91 USP39 U4/U6.U5 tri-snRNP-associated protein 2 1 0 EPEAAS(0.097)S(0.453)RGS(0.451)PVR 71.286 0.017911 69454000 3076.8 2987.2 2523.6 2638 3362.1 3275.2 3259.4 3561.9 2602.2 2401.6 TRUE FALSE FALSE 3400.431941 3083.98724 2867.503066 2689.062305 3104.496624 2996.134534 2892.643734 3470.791756 2584.091078 2505.144729 1.357379437 1.231061505 1.144645669 1.073415948 1.239248411 1.195992591 1.154681285 1.385465564 1.031513688 1 11.29067824 -9.561922546 1.347795921 1.000483984 1.231438782 0.458968045 0.089403014 0.327819297 1.070790529 0.068239268 0.016210354 2.74E-10 9.561922546 0.230954798 EPEAASSRGS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 1 EPEAASSRGSPVR 13 1 F8WC91;B9A018;Q53GS9-3;Q53GS9 F8WC91 USP39 U4/U6.U5 tri-snRNP-associated protein 2 1 0 EPEAAS(0.001)S(0.004)RGS(0.995)PVR 100.02 0.0032756 56972000 2770 2399.7 2188.4 2743.9 2508.1 2766.8 2416.8 3019 2408.9 2640.5 TRUE FALSE FALSE 3061.361309 2477.451855 2486.623755 2797.012152 2315.92992 2531.053074 2144.855303 2941.778351 2392.136269 2754.344877 1.111466227 0.89947046 0.902800436 1.015490898 0.840827864 0.918931066 0.778717045 1.068050111 0.86849555 1 11.4274935 -7.24932298 24.2520157 1.052636829 0.912678106 0.012614852 0.099131032 374.2070608 749007.6618 0.013288083 0.01620527 5.63E-08 7.24932298 -0.139958724 EPELGLEELLR ddPTM_HeLa_SAHA_4h_R1 1 EPELGLEELLR 11 0 Q9NZL4-2;Q9NZL4;Q9NZL4-3 Q9NZL4-2 HSPBP1 Hsp70-binding protein 1 0 0 128.91 0.0086392 788960 170.57 0 0 77.373 0 179.85 139.33 0 151.29 0 FALSE FALSE TRUE 188.5113352 0 0 78.8706663 0 164.5257682 123.6522217 0 150.2371606 0 0 EPEMPGPREES(ph)EEEEDEDDEEEEEEEKEK ddPTM_HeLa_SAHA_4h_R1 1 EPEMPGPREESEEEEDEDDEEEEEEEKEK 29 2 H0Y8X0;B4DFG0;H0Y993;P35659;A0A494C028;D6R9L5;A0A494C198 H0Y8X0 DEK Protein DEK 1 0 EPEMPGPREES(1)EEEEDEDDEEEEEEEKEK 57.738 0.0023403 3271600 232.61 381.38 272.29 290.44 197.46 274.72 283.73 363.66 325.68 287.78 TRUE FALSE FALSE 257.0769871 393.7369622 309.3962632 296.0618862 182.3306575 251.3123105 251.8039537 354.3581038 323.4135664 300.1876042 0.85638775 1.311636313 1.030676347 0.986256201 0.607389029 0.837184171 0.838821957 1.180455485 1.07737149 1 8.229720594 EPES(ph)PPASAPIPLFGADTIGQR ddPTM_HeLa_SAHA_4h_R1 2 EPESPPASAPIPLFGADTIGQR 22 0 Q96AY4 Q96AY4 TTC28 Tetratricopeptide repeat protein 28 1 0 EPES(1)PPASAPIPLFGADTIGQR;EPES(1)PPASAPIPLFGADTIGQR ; 200.73 2.01E-21 22316000 2393.63 2274.64 2080.73 1848.82 2521.3 3066.49 2645.95 2117.27 2395.21 2217.8 TRUE FALSE FALSE 2645.402986 2348.339828 2364.281048 1884.606585 2328.118539 2805.2078 2348.220742 2063.113299 2378.541539 2313.420212 1.143503014 1.015094368 1.021985127 0.81464084 1.006353505 1.212580311 1.015042892 0.891802228 1.028149372 1 11.17581163 -7.022863776 22.55749484 1.068372336 0.99887128 0.06758596 0.101914289 452.8960339 446829.0142 0.018435634 0.022692898 9.49E-08 7.022863776 -0.069501056 EPFPPSS(ph)PLQK ddPTM_HeLa_SAHA_4h_R1 3 EPFPPSSPLQK 11 0 E7EPJ7;O75962-5;O75962-4;O75962 E7EPJ7 TRIO Triple functional domain protein 1 0 EPFPPS(0.143)S(0.857)PLQK;EPFPPS(0.213)S(0.787)PLQK;EPFPPS(0.042)S(0.958)PLQK ;; 134.18 2.96E-05 5597300 3084.34 3181.1 2454.89 3488.4 3768 3854.8 3547.27 3517.3 4455.5 3337.1 TRUE FALSE FALSE 3408.765033 3284.169727 2789.429625 3555.923026 3479.296654 3526.349353 3148.121844 3427.332559 4424.493813 3480.978712 0.979254777 0.943461595 0.80133487 1.021529667 0.999516786 1.013033875 0.904378367 0.984588773 1.271048799 1 11.76527728 -7.487626114 3.361475942 0.991550588 0.951933274 0.085378286 0.107311317 0.49211229 10.99190261 0.01107794 0.012184909 3.25E-08 7.487626114 -0.039617313 EPGEQASVPLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 EPGEQASVPLSPK 13 0 P42858 P42858 HTT Huntingtin 1 0 EPGEQASVPLS(1)PK 142.45 4.09E-07 0 1360.7 1547.7 1388.7 1429.5 1447 1687.8 1532.2 1241.1 1489.7 1520.7 TRUE FALSE FALSE 1503.824669 1597.846495 1577.944804 1457.17004 1336.131173 1543.989945 1359.792823 1209.354459 1479.333056 1586.264819 0.94802876 1.007301225 0.994754965 0.918617133 0.842312807 0.973349422 0.85722939 0.762391276 0.932588959 1 10.63141793 -2.507500387 0.402216173 0.981752911 4.80E-14 0.641767303 0.045615401 8.376949095 0.308579367 0.010948711 5.396103953 0.003108133 2.507500387 -0.981752911 EPGFEAGPEAS(ph)DDDLWTR ddPTM_HeLa_SAHA_4h_R1 2 EPGFEAGPEASDDDLWTR 18 0 H9KVB4;O15417-2;O15417;H7C177 H9KVB4 TNRC18 Trinucleotide repeat-containing gene 18 protein 1 0 EPGFEAGPEAS(1)DDDLWTR;EPGFEAGPEAS(1)DDDLWTR ; 161.91 5.51E-06 2128200 207.19 218.02 179.83 194.81 301.3 490.39 71.48 261.47 476.84 228.41 TRUE FALSE FALSE 228.9831948 225.083991 204.3362959 198.5808292 278.2144591 448.6060131 63.43688227 254.781976 473.5216316 238.2578729 0.961072942 0.944707465 0.857626627 0.833470168 1.16770311 1.882859138 0.266253037 1.06935386 1.987433304 1 7.896380077 -5.747674736 24.96883885 0.958522071 1.093401385 0 0.489888864 802.4926265 1455699.511 0.050876594 0.101322322 1.79E-06 5.747674736 0.134879314 EPGPIAPSTNSS(ph)PVLK ddPTM_HeLa_SAHA_4h_R1 4 EPGPIAPSTNSSPVLK 16 0 Q14674-2;Q14674 Q14674-2 ESPL1 Separin 1 0 EPGPIAPSTNS(0.227)S(0.773)PVLK;EPGPIAPS(0.001)TNS(0.211)S(0.788)PVLK;EPGPIAPS(0.002)T(0.002)NS(0.199)S(0.797)PVLK;EPGPIAPS(0.074)T(0.074)NS(0.18)S(0.672)PVLK ;;; 192.4 7.64E-12 26930600 3623.91 4987.06 3227.84 4350.05 5047.71 5863.22 4608.86 4450.17 4605.75 4212.95 TRUE FALSE FALSE 4005.089481 5148.644016 3667.713225 4434.251508 4660.95555 5363.64067 4090.258943 4336.341095 4573.698211 4394.590892 0.911367993 1.171586649 0.834597194 1.009024871 1.060611935 1.220509668 0.930748514 0.986745115 1.040756312 1 12.10151315 -6.000446884 21.6033082 0.966051863 1.05104645 0.035150173 0.108011097 4.697441366 227241.1993 0.015247983 0.027335686 9.99E-07 6.000446884 0.084994586 EPGSGGPQNLS(ph)GPGGR ddPTM_HeLa_SAHA_4h_R1 2 EPGSGGPQNLSGPGGR 16 0 Q9H0W8-2;Q9H0W8;M0QZH1;M0QX70;M0QYR7;M0R2N0;M0QZC7 Q9H0W8-2 SMG9 Protein SMG9 1 0 EPGSGGPQNLS(1)GPGGR;EPGSGGPQNLS(1)GPGGR ; 107.63 0.0022648 5552800 1431.34 1496.84 1272.9 1582.04 1628.51 1895.41 1491.25 1414.78 1830.39 1917.94 TRUE FALSE FALSE 1581.894908 1545.338598 1446.364183 1612.662672 1503.733916 1733.910405 1323.450625 1378.591976 1817.652167 2000.63178 0.790697681 0.772425298 0.722953718 0.806076705 0.751629526 0.866681427 0.661516346 0.689078315 0.908539085 1 10.96623995 -10.17193282 0.269921458 1.229385916 0.723094277 0.615732779 0.060981748 2.887905454 0.184142079 0.483051972 0.035331518 6.73E-11 10.17193282 -0.506291639 EPHS(ph)PADQPEQQAESTLTSAETR ddPTM_HeLa_SAHA_4h_R1 2 EPHSPADQPEQQAESTLTSAETR 23 0 H3BSS6;Q9H2Y7;A0A0C4DGM5;Q9H2Y7-2;H3BS99 H3BSS6 ZNF106 Zinc finger protein 106 1 0 EPHS(1)PADQPEQQAESTLTSAETR;EPHS(1)PADQPEQQAESTLTSAETR ; 136.46 1.37E-06 4324300 350.947 453.39 242.34 402.51 318.24 478.45 387.12 620.11 635.92 554.41 TRUE FALSE FALSE 387.8612157 468.0801335 275.3648331 410.3011631 293.85652 437.6833683 343.5602388 604.2484841 631.4945809 578.3133283 0.670676598 0.809388459 0.476151629 0.709479002 0.508126833 0.756827392 0.594072835 1.044846201 1.091959237 1 9.175707542 -9.16983443 0.727134699 1.020043137 0.681954602 0.431775106 0.156871164 0.638628615 0.555520143 0.129363113 0.029598381 6.76E-10 9.16983443 -0.338088535 EPLIPAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 EPLIPASPK 9 0 Q9Y613 Q9Y613 FHOD1 FH1/FH2 domain-containing protein 1 1 0 EPLIPAS(1)PK;EPLIPAS(1)PK ; 102.4 0.0090681 29287200 7004.3 8368.8 6440 7822.2 9577.5 9724.1 9335.2 8363.2 8170.4 8825.9 TRUE FALSE FALSE 7741.044411 8639.954611 7317.609662 7973.609992 8843.674019 8895.551974 8284.778727 8149.281454 8113.541521 9206.427742 0.84083041 0.938469823 0.794837028 0.866091628 0.960597777 0.966232748 0.899890702 0.885173021 0.881290958 1 13.16842576 -9.500450657 1.240308853 1.000155989 0.88996663 0 0.061804157 0.404295975 1.11053031 0.037765812 0.00910307 3.16E-10 9.500450657 -0.110189359 EPLPGLTREPVAES(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 EPLPGLTREPVAESPK 16 1 A0A0G2JNN3;C9JMY0;A0A087WUE4;Q96PV6-1;Q96PV6 A0A0G2JNN3 LENG8 Leukocyte receptor cluster member 8 1 0 EPLPGLTREPVAES(1)PK;EPLPGLT(0.009)REPVAES(0.991)PK;EPLPGLTREPVAES(1)PK;EPLPGLTREPVAES(1)PK ;;; 85.046 0.0058141 36644400 8474.8 6933 7541 7443.1 7594.2 8370.9 7608.8 8332.2 5909.8 7612 TRUE FALSE FALSE 9366.218348 7157.633749 8568.648208 7587.171963 7012.334037 7657.652227 6752.637799 8119.074389 5868.673221 7940.190572 1.179596165 0.901443572 1.079148936 0.955540285 0.883144299 0.96441668 0.850437749 1.022528907 0.73910987 1 12.95495792 -6.510255582 1.2551948 1.078649492 0.926665534 0 0.134054206 0.367723864 1.156592767 0.016087506 0.027499929 3.09E-07 6.510255582 -0.151983958 EPPADVWT(ph)PPAR ddPTM_HeLa_SAHA_4h_R1 3 EPPADVWTPPAR 12 0 A0A3B3IUA7;Q14258 A0A3B3IUA7 TRIM25 E3 ubiquitin/ISG15 ligase TRIM25 1 0 EPPADVWT(1)PPAR;EPPADVWT(1)PPAR;EPPADVWT(1)PPAR ;; 148.89 0.00070355 15380900 1522.31 1493.3 1227.59 1732.05 1892.43 1849.69 1582.29 1614.03 1710.61 1379.7 TRUE FALSE FALSE 1682.43355 1541.6839 1394.879572 1765.576332 1747.432422 1692.086006 1404.246565 1572.74545 1698.705726 1439.185619 1.169017761 1.071219639 0.969214501 1.226788476 1.214181409 1.175724648 0.975723038 1.092802366 1.180324277 1 10.49103696 -9.506117116 1.211112871 0.998967508 1.117090523 0 0.101371158 0.650720013 1.684084331 0.064827239 0.015113612 3.12E-10 9.506117116 0.118123015 EPPS(ph)SPLQPQK ddPTM_HeLa_SAHA_4h_R1 1 EPPSSPLQPQK 11 0 Q92615;A0A087X183;H0Y4V9 Q92615 LARP4B La-related protein 4B 1 0 EPPS(0.603)S(0.397)PLQPQK 101.35 0.0072885 3448500 1353 1535.5 1356.9 1772 1422.3 1996.6 1608.9 1457.4 1756.8 1513.4 TRUE FALSE FALSE 1495.314748 1585.251207 1541.811266 1806.299622 1313.323681 1826.478447 1427.862338 1420.121818 1744.574286 1578.65008 0.947211017 1.004181501 0.976664357 1.144205195 0.831928302 1.156987524 0.904483112 0.89957986 1.10510512 1 10.62447571 -4.577324164 24.99999965 0.989830159 0.900793949 0.139068877 0.09607036 104.6722461 48062.5542 0.010890888 0.040749989 2.65E-05 4.577324164 -0.089036209 EPPSS(ph)PLQPQK ddPTM_HeLa_SAHA_4h_R1 1 EPPSSPLQPQK 11 0 Q92615;A0A087X183;H0Y4V9 Q92615 LARP4B La-related protein 4B 1 0 EPPS(0.146)S(0.854)PLQPQK 110.08 0.0041472 8927500 978.07 1200.7 747.48 974.54 1270.5 1622 984.09 1054.6 1606.6 1043.5 TRUE FALSE FALSE 1080.94789 1239.603468 849.3426817 993.4036309 1173.154564 1483.796475 873.3576032 1027.624859 1595.41954 1088.490392 0.993070677 1.138828121 0.780294147 0.912643454 1.077781277 1.363169107 0.802356741 0.944082618 1.465717614 1 10.08811296 -5.731237777 24.95030423 0.985201871 1.051978225 0 0.217597596 614.1950295 507398.7769 0.022244696 0.044484987 1.86E-06 5.731237777 0.066776354 EPS(ph)ATPPISNLTK ddPTM_HeLa_SAHA_4h_R1 1 EPSATPPISNLTK 13 0 F5H1T5;F5H6A0;J3KP58;P30622-2;P30622-1;P30622 F5H1T5 CLIP1 CAP-Gly domain-containing linker protein 1 1 0 EPS(0.554)AT(0.444)PPIS(0.002)NLTK 78.486 0.020604 4088300 1334.1 1860 1153.1 1282.6 1460.2 1929.1 1550.6 1351.3 1944 1455.2 TRUE FALSE FALSE 1474.426759 1920.26522 1310.238463 1307.426578 1348.319791 1764.729827 1376.122407 1316.735703 1930.471546 1517.940794 0.97133351 1.265046192 0.863168358 0.861315924 0.888255851 1.162581462 0.906571859 0.867448657 1.271769989 1 10.56789981 EPS(ph)PALGPNLDGSGLLPR ddPTM_HeLa_SAHA_4h_R1 2 EPSPALGPNLDGSGLLPR 18 0 Q9BRZ2 Q9BRZ2 TRIM56 E3 ubiquitin-protein ligase TRIM56 1 0 EPS(1)PALGPNLDGSGLLPR;EPS(1)PALGPNLDGSGLLPR ; 158.92 7.33E-06 14641200 1144.97 2040.13 1427.32 1818.64 2048.88 2191.42 1719.76 1852.35 2812.7 1891.79 TRUE FALSE FALSE 1265.403198 2106.231551 1621.827736 1853.842407 1891.895257 2004.698687 1526.248079 1804.969569 2793.126192 1973.354325 0.641244799 1.067335716 0.821863421 0.939437172 0.958720506 1.015883798 0.773428299 0.914670795 1.415420513 1 10.94643431 -7.243089722 24.99413519 0.830587807 0.922436611 0 0.2168624 1726.280782 2351375.447 0.024942904 0.030518708 5.71E-08 7.243089722 0.091848805 EPS(ph)PKQDVVGK ddPTM_HeLa_SAHA_4h_R1 1 EPSPKQDVVGK 11 1 Q9ULU4-19;Q9ULU4-16;H7C4X9;A0A087WVZ6;Q9ULU4-22;Q9ULU4-7;Q9ULU4-11;Q9ULU4-10;Q9ULU4-13;Q9ULU4;Q9ULU4-20;Q9ULU4-5;Q9ULU4-9;Q9ULU4-14;Q9ULU4-12;Q9ULU4-4;Q9ULU4-21;Q9ULU4-23;Q9ULU4-6;Q9ULU4-3;Q9ULU4-18;Q9ULU4-15;Q9ULU4-2 Q9ULU4-19 ZMYND8 Protein kinase C-binding protein 1 1 0 EPS(1)PKQDVVGK 73.219 0.018838 8950600 5610.1 5008.5 5147.1 5307.5 5462.6 6031.7 6071.6 6438.8 4784.4 5369.6 TRUE FALSE FALSE 6200.196058 5170.778686 5848.519983 5410.234337 5044.056768 5517.765227 5388.407588 6274.104819 4751.104971 5601.109734 1.106958505 0.923170395 1.044171648 0.965921861 0.900545965 0.985120001 0.962024999 1.120153883 0.848243508 1 12.45149698 -7.263245237 24.99535175 1.050508182 0.983119645 0 0.089616696 208.1396241 2880903.659 0.01134704 0.013329229 5.45E-08 7.263245237 -0.067388537 EPS(ph)PPIDEVINTPR ddPTM_HeLa_SAHA_4h_R1 1 EPSPPIDEVINTPR 14 0 S4R3E5;O60684;Q5TFJ7 S4R3E5 KPNA6 Importin subunit alpha-7 1 0 EPS(1)PPIDEVINTPR 89.136 0.009587 1426200 462.45 525.72 377.12 711.55 553.28 651.83 548.93 575.99 758.93 600.65 TRUE FALSE FALSE 511.0926128 542.7536729 428.5119496 725.3230792 510.8878059 596.2904169 487.1629517 561.2570098 753.6485443 626.546961 0.815729139 0.86626176 0.683926308 1.15765158 0.815402257 0.951709056 0.777536214 0.895794002 1.202860426 1 9.291278836 -9.446357776 1.18435877 0.999851142 0.866227268 0.251461482 0.135449237 0.698829037 1.756389299 0.075786939 0.018957232 3.58E-10 9.446357776 -0.133623874 EPS(ph)YFEIPTK ddPTM_HeLa_SAHA_4h_R1 2 EPSYFEIPTK 10 0 J3KQR7;Q9Y4F5-3;Q9Y4F5-2;Q9Y4F5;H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2 J3KQR7;H0Y2V6 CEP170B;CEP170 Centrosomal protein of 170 kDa protein B;Centrosomal protein of 170 kDa 1 0 EPS(1)YFEIPTK;EPS(1)YFEIPTK ; 126.12 0.002197 6612900 2035.67 2026.6 1538.46 1821.27 1946.76 2197.84 1404.66 1828.17 1570.97 1876.13 TRUE FALSE FALSE 2249.791111 2092.26317 1748.113317 1856.523314 1797.599669 2010.571667 1246.60396 1781.408059 1560.037492 1957.019146 1.149600971 1.069107154 0.893253048 0.948648519 0.918539644 1.027364332 0.636991193 0.910266035 0.797149836 1 10.93444215 -5.691693158 0.687064954 1.069177908 0.797137344 0.054864448 0.133092268 0.62806518 0.500575235 0.020840159 0.093065813 2.03E-06 5.691693158 -0.272040564 EPSAPSIPTPAYQS(ph)SPAGGHAPTPPTPAPR ddPTM_HeLa_SAHA_4h_R1 2 EPSAPSIPTPAYQSSPAGGHAPTPPTPAPR 30 0 Q8WUM4;Q8WUM4-2 Q8WUM4 PDCD6IP Programmed cell death 6-interacting protein 1 0 EPSAPSIPTPAY(0.001)QS(0.893)S(0.106)PAGGHAPTPPTPAPR;EPSAPS(0.002)IPT(0.018)PAY(0.146)QS(0.413)S(0.413)PAGGHAPT(0.007)PPT(0.001)PAPR ; 128.6 3.66E-12 37027300 1741.93 1935.79 1194.6 2000.84 2302.15 3182.42 2537.33 2580.21 2087.53 2120.52 TRUE FALSE FALSE 1925.15419 1998.510866 1357.393867 2039.569151 2125.759764 2911.259912 2251.822951 2514.211964 2073.002709 2211.945995 0.87034412 0.903507984 0.613665013 0.922070049 0.961036015 1.316153251 1.018027997 1.136651605 0.937185046 1 11.11110045 -5.457784542 8.009604578 0.907612785 1.14330676 0.515921018 0.119609144 0.241901882 27.28471567 0.018104507 0.04049177 3.49E-06 5.457784542 0.235693975 EPSAPSIPTPAYQSS(ph)PAGGHAPTPPTPAPR ddPTM_HeLa_SAHA_4h_R1 2 EPSAPSIPTPAYQSSPAGGHAPTPPTPAPR 30 0 Q8WUM4;Q8WUM4-2 Q8WUM4 PDCD6IP Programmed cell death 6-interacting protein 1 0 EPSAPS(0.003)IPT(0.056)PAY(0.016)QS(0.075)S(0.849)PAGGHAPTPPTPAPR;EPSAPSIPT(0.01)PAY(0.105)QS(0.216)S(0.669)PAGGHAPTPPTPAPR ; 118.09 2.32E-11 34666700 1491.07 1758.54 1195.39 1382.72 2239.99 2549.5 2227.53 1666.32 1842.06 1855.29 TRUE FALSE FALSE 1647.907584 1815.51785 1358.291524 1409.484545 2068.36245 2332.268257 1976.882462 1623.697947 1829.240954 1935.280631 0.851508333 0.938116065 0.701857654 0.728310159 1.068766161 1.205131813 1.021496536 0.838998707 0.94520708 1 10.91832707 -5.681430577 24.99999954 0.897322822 1.044987861 0.292667384 0.123517652 37.98249114 11865.78287 0.019765997 0.039531998 2.08E-06 5.681430577 0.147665039 EPSAT(ph)PPISNLTK ddPTM_HeLa_SAHA_4h_R1 2 EPSATPPISNLTK 13 0 F5H1T5;F5H6A0;J3KP58;P30622-2;P30622-1;P30622 F5H1T5 CLIP1 CAP-Gly domain-containing linker protein 1 1 0 EPS(0.233)AT(0.755)PPIS(0.011)NLTK;EPS(0.001)AT(0.999)PPISNLTK ; 135.86 0.00093908 32599000 2645.8 4746.8 2431.8 3433.1 3646.3 3389.3 2850.6 3325.3 4430.8 3482.1 TRUE FALSE FALSE 2924.097383 4900.599434 2763.19304 3499.552615 3366.921282 3100.512572 2529.842986 3240.243641 4399.965702 3632.230372 0.805041829 1.349198408 0.760742782 0.963472097 0.926956976 0.853611213 0.696498494 0.892080983 1.211367466 1 11.82663999 -5.10030268 3.672929632 0.933840178 0.790521518 0.118894661 0.179199377 0.376957338 9.259857963 0.022062016 0.062684878 7.94E-06 5.10030268 -0.143318661 EPSEVPTPK ddPTM_HeLa_SAHA_4h_R1 2 EPSEVPTPK 9 0 P17096;P17096-2;P17096-3 P17096 HMGA1 High mobility group protein HMG-I/HMG-Y 0 0 ; ; 155.07 0.001246 21861000 4297 2801.4 2986.8 3249.7 2883.9 3599.9 3032.9 3480.9 3833.6 3387 FALSE FALSE TRUE 4748.978175 2892.167198 3393.825549 3312.602643 2662.936205 3293.168268 2691.63011 3391.863618 3806.921665 3533.030146 1.344165767 0.818608129 0.960599092 0.937609504 0.753725866 0.932108737 0.761847479 0.960043781 1.07752312 1 11.78669034 -7.245023161 24.84872362 1.162522726 0.873827622 0.552003361 0.109120718 476.6658794 721515.0799 0.023490555 0.02872552 5.69E-08 7.245023161 -0.288695104 EPSSY(ph)DFVYHYG ddPTM_HeLa_SAHA_4h_R1 1 EPSSYDFVYHYG 12 0 Q5JW01;Q5JVZ5;Q96JJ3-3;Q96JJ3 Q5JW01 ELMO2 Engulfment and cell motility protein 2 1 0 EPS(0.002)S(0.155)Y(0.843)DFVYHYG 121.05 0.0036073 1779000 368.55 456.38 182.07 513.15 576.18 351.98 512.3 610.39 397.54 362.44 TRUE FALSE FALSE 407.31578 471.1670114 206.8815514 523.0827603 532.0332129 321.9893238 454.6546557 594.7771076 394.7734868 378.0665621 1.07736526 1.246254122 0.547209333 1.383573192 1.40724747 0.851673636 1.202578332 1.573207385 1.044190432 1 8.562496446 EPST(ph)ASGGGQLNR ddPTM_HeLa_SAHA_4h_R1 1 EPSTASGGGQLNR 13 0 A0A075B785;A0A2R8Y566;Q9P260;Q9P260-2 A0A075B785 KIAA1468 LisH domain and HEAT repeat-containing protein KIAA1468 1 0 EPS(0.032)T(0.802)AS(0.166)GGGQLNR 118.73 0.0021155 4193300 343.18 440.15 319.43 558.79 491.49 560.38 322.81 456.08 646.5 300.02 TRUE FALSE FALSE 379.277247 454.4111488 362.9602569 569.6061885 453.8321424 512.6324714 286.4865692 444.414134 642.0009539 312.9553305 1.211921351 1.452000029 1.159782952 1.820087831 1.450149904 1.638037194 0.915423197 1.420056125 2.051414024 1 8.289812939 -7.795710827 0.863115192 1.041841604 1.414840265 0 0.394662053 0.453595695 0.724207906 0.064899777 0.056137444 1.60E-08 7.795710827 0.37299866 EPTGVEENKTDSLFVLPS(ph)RDDATPVRDEPMDAESITFK ddPTM_HeLa_SAHA_4h_R1 1 EPTGVEENKTDSLFVLPSRDDATPVRDEPMDAESITFK 38 3 A0A2R8Y880;Q7Z6E9-2;Q7Z6E9;H3BSK8 A0A2R8Y880 RBBP6 E3 ubiquitin-protein ligase RBBP6 1 0 EPTGVEENKT(0.001)DS(0.026)LFVLPS(0.456)RDDAT(0.456)PVRDEPMDAES(0.051)IT(0.01)FK 47.989 0.004771 15233000 476.71 318.28 262.31 432.14 314.04 459.02 413.55 316.72 489.91 446.12 TRUE FALSE FALSE 526.852545 328.5924808 298.0562407 440.5046946 289.978323 419.9089136 367.0162656 308.618761 486.5006764 465.3544165 1.132153315 0.706112308 0.640492988 0.946600438 0.623134353 0.902342169 0.78868117 0.663190786 1.045441193 1 8.862186089 -7.259418944 24.99974619 1.062405734 0.758188985 0.64122302 0.104921183 80.63327034 997712.6592 0.017498062 0.020867738 5.50E-08 7.259418944 -0.304216749 EPTPSIAS(ph)DISLPIATQELR ddPTM_HeLa_SAHA_4h_R1 2 EPTPSIASDISLPIATQELR 20 0 A0A499FIX8;H7BXI1;A0A087WXU3;A0FGR8-5;A0FGR8-2;A0FGR8;A0FGR8-6 A0A499FIX8 ESYT2 Extended synaptotagmin-2 1 0 EPTPS(0.037)IAS(0.823)DIS(0.14)LPIATQELR;EPTPS(0.003)IAS(0.991)DIS(0.006)LPIATQELR ; 233.38 1.09E-77 2541600 144.77 461.7 339.51 112.23 295.01 333.91 258.73 419.61 328.68 296.59 TRUE FALSE FALSE 159.9975728 476.6593829 385.7766547 114.4023739 272.4063975 305.4589895 229.6170195 408.8769838 326.3926891 309.3774464 0.517159782 1.540705014 1.246944983 0.369782527 0.880498565 0.987334381 0.742190558 1.321612123 1.05499833 1 8.273224218 -4.253413936 23.40326281 0.843941828 1.321612699 0.068033253 0.328733055 625.7139407 1824555.752 0.047330411 0.665590257 5.58E-05 4.253413936 0.477670871 EPVAES(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 EPVAESPK 8 0 A0A0G2JNN3;C9JMY0;A0A087WUE4;Q96PV6-1;Q96PV6 A0A0G2JNN3 LENG8 Leukocyte receptor cluster member 8 1 0 EPVAES(1)PK;EPVAES(1)PK ; 107.55 0.0072627 24002200 4279.7 5244.1 3614.7 4267.2 4834.7 5652 4284.7 4166.1 5920 6028 TRUE FALSE FALSE 4729.858482 5414.012281 4107.292491 4349.797826 4464.26633 5170.417803 3802.574279 4059.537194 5878.802238 6287.89658 0.752216329 0.861021203 0.653206114 0.691773119 0.709977697 0.822280986 0.604745042 0.645611317 0.934939397 1 12.61836177 -13.52287875 0.150108009 2.095134818 0.615575034 0.696878097 0.06910094 23.95647391 0.245088803 7.677619961 0.153298184 3.00E-14 13.52287875 -1.479559784 EPVS(ph)PMELTGPEDGAASSGAGR ddPTM_HeLa_SAHA_4h_R1 1 EPVSPMELTGPEDGAASSGAGR 22 0 A0A0C4DFL8;F5GX28;O94953;K7EQ54 A0A0C4DFL8 KDM4B Lysine-specific demethylase 4B 1 0 EPVS(0.971)PMELT(0.029)GPEDGAASSGAGR 62.167 0.0077685 2400200 0 127.36 0 205.19 133.86 240.23 168.6 0 136.96 130.3 TRUE FALSE FALSE 0 131.4865476 0 209.1617492 123.6036757 219.7610525 149.6286843 0 136.0068842 135.9178707 0 0.967397053 0 1.538883357 0.909399736 1.616866505 1.100875724 0 1.000654907 1 7.086591346 -6.258653879 24.98172067 0.519763374 1.062512083 0.135104687 0.537647984 332.3405458 2980585.684 0.08532552 0.137436597 5.51E-07 6.258653879 0.542748709 EQAAALGPASATPALSSS(ph)PPPPSTLYR ddPTM_HeLa_SAHA_4h_R1 2 EQAAALGPASATPALSSSPPPPSTLYR 27 0 Q9P242 Q9P242 NYAP2 Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter 2 1 0 EQAAALGPASATPALS(0.003)S(0.083)S(0.913)PPPPSTLYR;EQAAALGPASATPALS(0.015)S(0.232)S(0.752)PPPPSTLYR ; 148.7 7.08E-10 9643900 3838.9 4143.1 3076.9 3242.3 4487.7 4548.3 3997.4 3300.2 4211.2 4043.7 TRUE FALSE FALSE 4242.693116 4277.339158 3496.203908 3305.059405 4143.853396 4160.759252 3547.602031 3215.785663 4181.893916 4218.043696 1.005843804 1.014057574 0.828868585 0.783552671 0.982411206 0.986419191 0.841053883 0.762387944 0.991429728 1 12.04235833 -6.769695032 24.99864564 1.00368404 0.870341698 0.488686877 0.069335222 125.0879861 378773.8917 0.011589098 0.01537374 1.70E-07 6.769695032 -0.133342342 EQAEAEVASLNR ddPTM_HeLa_SAHA_4h_R1 1 EQAEAEVASLNR 12 0 P06753-2;A0A087WWU8;P06753-5;P06753-3;P06753-6;P06753-4;D6R904;A0A494C0G0 P06753-2 TPM3 Tropomyosin alpha-3 chain 0 0 148.78 0.0024283 9451500 413.74 529.66 453.84 373.32 521.2 842.25 551.7 597.5 506.92 450.88 FALSE FALSE TRUE 457.2590715 546.8213315 515.6869517 380.5461484 481.2657686 770.4855616 489.621264 582.2168152 503.3923024 470.3196434 0.972230435 1.162658926 1.096460586 0.809122378 1.0232738 1.638216844 1.041039367 1.237917283 1.070319536 1 8.877497779 -5.483444149 24.99359795 0.99592774 1.287837636 0.388583989 0.162813294 371.2121085 235273.4913 0.021367399 0.047771295 3.29E-06 5.483444149 0.291909897 EQAEEERYFR ddPTM_HeLa_SAHA_4h_R1 2 EQAEEERYFR 10 1 Q9UII2;A0A0B4J230;Q9UII2-3;Q9UII2-2 Q9UII2 ATPIF1 "ATPase inhibitor, mitochondrial" 0 0 ; ; 161.67 0.00030586 23804000 4790.5 2398.7 5809.4 3094.6 3571.7 2856.2 5419.6 4770.6 1065.74 3977.5 FALSE FALSE TRUE 5294.38677 2476.419454 6601.074778 3154.500458 3298.037118 2612.835691 4809.772344 4648.57496 1058.323429 4148.98949 1.276066566 0.596872916 1.591007833 0.760305724 0.794901295 0.629752304 1.159263564 1.120411361 0.255079805 1 12.01854429 EQAPDIS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 EQAPDISPK 9 0 Q7Z333-3;Q7Z333;Q7Z333-4 Q7Z333-3 SETX Probable helicase senataxin 1 0 EQAPDIS(1)PK;EQAPDIS(1)PK ; 103.88 0.0081537 27989000 9769.4 9223.9 6463.8 8399.9 8770.5 9551.1 9175.4 9930.9 9360.5 9155.7 TRUE FALSE FALSE 10796.99032 9522.760412 7344.653002 8562.492211 8098.506185 8737.292547 8142.959844 9676.881958 9295.359518 9550.447034 1.130521983 0.997101013 0.769037614 0.896554075 0.847971425 0.914856919 0.852626041 1.013238639 0.973290516 1 13.22135255 -6.978124335 11.51572525 1.061754662 0.881659988 0.490489688 0.070474984 0.313022696 162.7120178 0.011449988 0.015014051 1.05E-07 6.978124335 -0.180094675 EQDGFTGKEEVVEQGELNAT(ph)EEVWIPGEGHPESPEPK ddPTM_HeLa_SAHA_4h_R1 1 EQDGFTGKEEVVEQGELNATEEVWIPGEGHPESPEPK 37 1 P48681 P48681 NES Nestin 1 0 EQDGFTGKEEVVEQGELNAT(0.965)EEVWIPGEGHPES(0.035)PEPK 89.751 1.26E-09 13313000 2049 2524.1 2628.9 2443.1 3009.7 2804.5 3139.1 2676.1 2931.8 2414.2 TRUE FALSE FALSE 2264.523221 2605.882496 2987.152801 2490.389733 2779.097436 2565.540822 2785.880206 2607.649237 2911.397365 2518.287977 0.89923124 1.034783361 1.186183959 0.988921742 1.103566177 1.018763877 1.106259583 1.035484925 1.156101841 1 11.29822756 -7.043909658 8.174137534 0.953049918 1.073113395 0 0.085209207 0.203091171 35.16073295 0.009714104 0.011975269 9.04E-08 7.043909658 0.120063477 EQDGFTGKEEVVEQGELNATEEVWIPGEGHPES(ph)PEPK ddPTM_HeLa_SAHA_4h_R1 1 EQDGFTGKEEVVEQGELNATEEVWIPGEGHPESPEPK 37 1 P48681 P48681 NES Nestin 1 0 EQDGFTGKEEVVEQGELNAT(0.02)EEVWIPGEGHPES(0.98)PEPK 101.87 1.20E-12 14983000 1379.4 1731.1 1772.5 2058.2 2108.8 1491.7 1953.9 1571.8 1868.9 1835.2 TRUE FALSE FALSE 1524.491621 1787.188776 2014.047069 2098.039437 1947.2242 1364.598768 1734.04203 1531.595632 1855.894173 1914.324453 0.796360104 0.933587184 1.05209285 1.095968572 1.017186087 0.712835677 0.90582452 0.80007108 0.969477337 1 10.90261965 -5.268145114 24.9703799 0.936781433 0.816201834 0.360548379 0.094272553 674.9968311 2513512.72 0.016955497 0.038718477 5.39E-06 5.268145114 -0.120579598 EQDNSESPNGRTS(ph)PLVSQNNEQGSTLR ddPTM_HeLa_SAHA_4h_R1 1 EQDNSESPNGRTSPLVSQNNEQGSTLR 27 1 A0A1W2PNZ9;Q15652-3;Q15652;H7BXU7 A0A1W2PNZ9 JMJD1C Probable JmjC domain-containing histone demethylation protein 2C 1 0 EQDNS(0.008)ES(0.131)PNGRT(0.24)S(0.587)PLVS(0.014)QNNEQGS(0.01)T(0.01)LR 55.049 0.006453 6585000 234.73 355.72 291.12 368.04 323.67 316.64 334.07 360.04 237.83 331.75 TRUE FALSE FALSE 259.4199784 367.2455614 330.7923175 375.1639464 298.8704745 289.6604906 296.4795644 350.8306981 236.1749217 346.053366 0.749653099 1.061239674 0.955899725 1.084121651 0.863654291 0.837039945 0.856745212 1.013805189 0.682481215 1 8.434850728 -4.243380702 22.55044973 0.904530212 1.013805552 0.071556388 0.122623861 2239.824478 2796762.49 0.016726865 0.604302656 5.71E-05 4.243380702 0.10927534 EQDRVHS(ph)PCPTSGSEK ddPTM_HeLa_SAHA_4h_R1 4 EQDRVHSPCPTSGSEK 16 1 X6RLP6;Q96LT9-2;Q96LT9 X6RLP6 RNPC3 RNA-binding protein 40 1 0 EQDRVHS(0.998)PCPT(0.001)S(0.001)GS(0.001)EK;EQDRVHS(1)PCPTSGSEK;EQDRVHS(0.999)PCPTSGSEK;EQDRVHS(1)PCPTSGSEK ;;; 113.7 0.00081972 23555400 6386.2 5543.9 4891.33 5573.66 6261.71 6701.1 6402.4 6763.7 5293.2 5698.7 TRUE FALSE FALSE 7057.929817 5723.525997 5557.894979 5681.546249 5781.939133 6130.128581 5681.985102 6590.694348 5256.36419 5944.398846 1.187324404 0.962843535 0.934980159 0.955781467 0.972670119 1.031244494 0.955855293 1.108723442 0.884254964 1 12.5373152 -7.228186932 24.87200552 1.088458763 0.985262571 0 0.09032105 609.5124234 455900.6904 0.013540631 0.016583121 5.91E-08 7.228186932 -0.103196192 EQDRVHS(ph)PCPTSGSEKK ddPTM_HeLa_SAHA_4h_R1 1 EQDRVHSPCPTSGSEKK 17 2 X6RLP6;Q96LT9-2;Q96LT9 X6RLP6 RNPC3 RNA-binding protein 40 1 0 EQDRVHS(0.997)PCPT(0.002)S(0.001)GSEKK 50.87 0.018789 3052900 1590.1 1394.4 1426.1 1800.2 1403.8 1468.8 1852.3 1772.8 1242.4 1482 TRUE FALSE FALSE 1757.354014 1439.579475 1620.441481 1835.045474 1296.241147 1343.649977 1643.874329 1727.454343 1233.754037 1545.896273 1.1367865 0.931226435 1.048221352 1.187043081 0.838504607 0.869172143 1.06337945 1.117445183 0.798083325 1 10.5942278 -5.764153145 24.9999995 1.061272436 0.971289714 0 0.130202771 110.6382783 1019250.3 0.015766768 0.029543224 1.72E-06 5.764153145 -0.089982722 EQDVVTGVS(ph)PLLFR ddPTM_HeLa_SAHA_4h_R1 2 EQDVVTGVSPLLFR 14 0 Q6P0Q8-2;Q6P0Q8 Q6P0Q8-2 MAST2 Microtubule-associated serine/threonine-protein kinase 2 1 0 EQDVVT(0.283)GVS(0.717)PLLFR;EQDVVT(0.003)GVS(0.997)PLLFR ; 125.39 0.00069372 30904800 3667.2 4000.3 3528.6 3571 3929.4 3389.9 3472 3631.8 4715.1 3718.1 TRUE FALSE FALSE 4052.932922 4129.912345 4009.459232 3640.121869 3628.330221 3101.061449 3081.321422 3538.903815 4682.287235 3878.405487 1.044999791 1.064848005 1.033790625 0.938561448 0.935521114 0.799571231 0.794481503 0.912463595 1.207271197 1 11.92124793 -5.737932285 1.622365197 1.026012808 0.83360526 0.65416645 0.069862114 0.11490986 0.610758909 0.006333538 0.015313589 1.83E-06 5.737932285 -0.192407549 EQELQQTLQQEQSVLDQLR ddPTM_HeLa_SAHA_4h_R1 2 EQELQQTLQQEQSVLDQLR 19 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 242.01 1.90E-40 3880100 1365.85 1004.06 1062.54 1336.02 1137.31 1737.84 1653.93 1470.09 1509.8 1335.44 FALSE FALSE TRUE 1509.51637 1036.592203 1207.337418 1361.880599 1050.169554 1589.766255 1467.825443 1432.487226 1499.293179 1393.017354 1.0836307 0.74413445 0.86670666 0.977647978 0.753881171 1.141239376 1.053702195 1.028334085 1.076291817 1 10.44399752 EQEPMPTVDSHEPR ddPTM_HeLa_SAHA_4h_R1 1 EQEPMPTVDSHEPR 14 0 H3BU16;A6NGP5;Q9H910-2;Q9H910;Q9H910-3 H3BU16 HN1L Hematological and neurological expressed 1-like protein 0 0 83.106 0.0064144 0 851.08 728.79 575.19 908.28 949.15 865.2 821.26 741.02 964.77 849.82 FALSE FALSE TRUE 940.6004993 752.4032742 653.5738977 925.8610728 876.4263321 791.4800925 728.8496634 722.0657814 958.056087 886.4598991 1.06107507 0.848773052 0.737285351 1.044447779 0.988681307 0.892854932 0.822202633 0.814549854 1.080766415 1 9.791911559 -7.261672986 24.99999883 1.028841007 0.881994488 0.447328324 0.085221144 16.74793752 1792302.503 0.014932144 0.017659776 5.47E-08 7.261672986 -0.146846519 EQEVNILK ddPTM_HeLa_SAHA_4h_R1 3 EQEVNILK 8 0 P35579 P35579 MYH9 Myosin-9 0 0 ;; ;; 134.91 0.0085684 29870210 4788.99 3507.827 3591.89 4637.2 4476.15 4733.81 4767.23 4497.91 5044.79 3688.9 FALSE FALSE TRUE 5292.717941 3621.482896 4081.374063 4726.959712 4133.188354 4330.462756 4230.808734 4382.859975 5009.682896 3847.946532 1.375465562 0.941146886 1.060662883 1.228436953 1.074128323 1.125395772 1.099497797 1.139012702 1.301910734 1 11.90987304 -7.241862896 24.97976553 1.177303203 1.09972947 0.17713544 0.115034544 2035.111011 2596823.789 0.025167841 0.030801152 5.73E-08 7.241862896 -0.077573733 EQEVNILK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EQEVNILKK 9 1 P35579 P35579 MYH9 Myosin-9 0 1 ; EQEVNILK(1)K;EQEVNILK(1)K 152.97 5.23E-06 3763700 2076.7 4897.1 2201.1 2402.1 3722.1 3519.7 4649.8 4308.9 2684.7 1274.53 FALSE TRUE FALSE 2295.136834 5055.769253 2501.054445 2448.596119 3436.913502 3219.801759 4126.592266 4198.684577 2666.016954 1329.481226 1.726340162 3.802813575 1.881225847 1.841768106 2.585153845 2.421848234 3.103911651 3.158137547 2.005306207 1 10.37664769 -7.948631232 0.171170196 2.31E-12 3.604252409 0.244997755 0.684225695 2.630167874 0.318850803 3.541670837 2.402480533 1.13E-08 7.948631232 3.604252409 EQFEGLGS(ph)TPDAK ddPTM_HeLa_SAHA_4h_R1 1 EQFEGLGSTPDAK 13 0 Q8NCN4 Q8NCN4 RNF169 E3 ubiquitin-protein ligase RNF169 1 0 EQFEGLGS(0.5)T(0.5)PDAK 154.72 0.00010795 9169100 1987.7 2173.8 1883.1 1991.2 1816.6 2416 2047.9 2153.8 2463.4 1981.6 TRUE FALSE FALSE 2196.775406 2244.232546 2139.719061 2029.742555 1677.4125 2210.143208 1817.464902 2098.708915 2446.256999 2067.036474 1.062765671 1.085724696 1.035162702 0.981957784 0.811506 1.069232806 0.879261167 1.015322633 1.183460974 1 11.01334813 -6.106259685 4.629368291 1.035571894 0.942933179 0.308363175 0.083204839 0.213774581 7.411582086 0.009841273 0.016686913 7.83E-07 6.106259685 -0.092638715 EQFEGLGST(ph)PDAK ddPTM_HeLa_SAHA_4h_R1 1 EQFEGLGSTPDAK 13 0 Q8NCN4 Q8NCN4 RNF169 E3 ubiquitin-protein ligase RNF169 1 0 EQFEGLGS(0.098)T(0.902)PDAK 181.75 8.24E-06 10089000 2352.5 2523.3 1803.4 2235.2 2846.6 2947 2516.2 2332.9 3392.3 2735.8 TRUE FALSE FALSE 2599.946744 2605.056576 2049.15796 2278.465528 2628.494123 2695.899021 2233.070554 2273.227796 3368.692708 2853.753727 0.911062058 0.912852623 0.718057042 0.798410005 0.921065507 0.944685239 0.782502895 0.796574622 1.180442684 1 11.47864512 -7.830274079 0.805803324 0.983806462 0.836104109 0.471757044 0.091699517 0.380740509 0.536267413 0.021648958 0.017971889 1.48E-08 7.830274079 -0.147702352 EQFLDGDGWTSR ddPTM_HeLa_SAHA_4h_R1 3 EQFLDGDGWTSR 12 0 P27797;K7EJB9 P27797 CALR Calreticulin 0 0 ;; ;; 241.39 1.97E-30 277614300 5933.57 5944.63 5228.97 6211.68 6771.41 8120.14 6817.62 6757.19 6456.13 6211 FALSE FALSE TRUE 6557.690117 6137.239912 5941.5468 6331.916049 6252.586029 7428.258389 6050.483455 6584.350864 6411.201266 6478.786606 1.012178748 0.947282305 0.917077095 0.977330546 0.965085966 1.146550865 0.933891456 1.016293832 0.98956821 1 12.66150792 -3.869815547 19.87049279 0.996522327 8.654257242 0.00085026 0.06068728 3563.76168 552642.9025 0.007845855 19902.78984 0.000134954 3.869815547 7.657734914 EQFNEFR ddPTM_HeLa_SAHA_4h_R1 1 EQFNEFR 7 0 Q15293;Q15293-2 Q15293 RCN1 Reticulocalbin-1 0 0 122.18 0.019795 15641000 2042.1 2227.9 1845.5 1704.3 2159.1 2316.5 2221 2420.8 2103 1945.1 FALSE FALSE TRUE 2256.897447 2300.085422 2096.995129 1737.289191 1993.670224 2119.121168 1971.087235 2358.879441 2088.365052 2028.96278 1.112340487 1.133626227 1.033530605 0.856244978 0.982605617 1.044435703 0.971475305 1.162603604 1.029277162 1 10.98652668 -6.518345784 24.94920045 1.061670579 0.997019394 0.126018504 0.079335855 326.804461 1798718.786 0.013185767 0.018920469 3.03E-07 6.518345784 -0.064651185 EQGTGNSYTDTSGPKETS(ph)SATPGR ddPTM_HeLa_SAHA_4h_R1 1 EQGTGNSYTDTSGPKETSSATPGR 24 1 Q9UHB7;Q9UHB7-2 Q9UHB7 AFF4 AF4/FMR2 family member 4 1 0 EQGTGNSYTDTS(0.001)GPKET(0.086)S(0.431)S(0.051)AT(0.431)PGR 69.088 0.0010784 3935600 468.28 419.51 492.66 378.95 614.81 544.08 616.86 531.08 278.25 463.72 TRUE FALSE FALSE 517.5358389 433.1023993 559.7971391 386.2851252 567.7033906 497.7213231 547.4492893 517.4957426 276.3136356 483.7132386 1.069922834 0.895370159 1.157291334 0.798582909 1.173636248 1.028959481 1.131764123 1.069839941 0.571234388 1 8.918008213 EQGTGNSYTDTSGPKETSS(ph)ATPGR ddPTM_HeLa_SAHA_4h_R1 1 EQGTGNSYTDTSGPKETSSATPGR 24 1 Q9UHB7;Q9UHB7-2 Q9UHB7 AFF4 AF4/FMR2 family member 4 1 0 EQGTGNSYTDTSGPKET(0.109)S(0.109)S(0.493)AT(0.288)PGR 93.411 4.07E-05 4125100 301.84 286.96 319.47 340.67 405.13 518.04 494.96 316.72 181.31 364.48 TRUE FALSE FALSE 333.5889161 296.2576923 363.0057079 347.2641605 374.0890269 473.9000776 439.2657981 308.618761 180.0482489 380.1945165 0.877416432 0.779226631 0.954789436 0.913385505 0.983941142 1.246467419 1.155371209 0.811739117 0.473568768 1 8.570593914 -5.511785494 22.90058045 0.92734084 1.085542766 0.157650933 0.185015697 177.9213477 367293.3906 0.017021084 0.03603003 3.08E-06 5.511785494 0.158201926 EQIS(ph)DIDDAVR ddPTM_HeLa_SAHA_4h_R1 3 EQISDIDDAVR 11 0 P53999 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 1 0 EQIS(1)DIDDAVR;EQIS(1)DIDDAVR;EQIS(1)DIDDAVR ;; 204.17 2.48E-10 82598000 3377.21 4103.17 3463.24 3787.5 4261.9 4561.78 4161.98 3498.9 4755.38 3957.83 TRUE FALSE FALSE 3732.440443 4236.1154 3935.192311 3860.812539 3935.354143 4173.09068 3693.663057 3409.403204 4722.286923 4128.47142 0.904073218 1.026073568 0.953183857 0.935167559 0.953223056 1.010807695 0.894680544 0.825827009 1.143834229 1 12.011392 -4.517328576 4.42166803 0.960306476 0.836888279 0.321555523 0.068036123 0.116602868 5.584086505 0.005926467 0.03021904 3.04E-05 4.517328576 -0.123418197 EQISDIDDAVR ddPTM_HeLa_SAHA_4h_R1 6 EQISDIDDAVR 11 0 P53999 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 0 0 ;;;;; ;;;;; 231.07 1.07E-21 141535500 13640.4 14904.1 12296.4 14415.7 14908 16800.5 15748.5 14473.7 15497.9 14179 FALSE FALSE TRUE 15075.15986 15387.00262 13972.08936 14694.73672 13765.75226 15369.00288 13976.43733 14103.48371 15390.04885 14790.32608 1.019258113 1.040342352 0.944677574 0.993537035 0.930726759 1.039125358 0.944971548 0.953561378 1.040548313 1 13.85236624 -6.758249601 24.99999867 1.011691827 0.969461804 0.410715886 0.03201154 73.16427249 573423.1669 0.00458379 0.006325455 1.74E-07 6.758249601 -0.042230023 EQIVPKPEEEVAQK ddPTM_HeLa_SAHA_4h_R1 3 EQIVPKPEEEVAQK 14 1 A0A087WXM6;J3QQT2;J3KRX5;A0A0A6YYL6;P18621;P18621-3;J3QLC8;A0A0A0MRF8;P18621-2 A0A087WXM6 RPL17;RPL17-C18orf32 60S ribosomal protein L17 0 0 ;; ;; 135.91 0.00050427 22137500 4878.46 4898.61 4025.32 5293.05 5549.16 5769.24 5071.61 5016.61 5379.52 4220.57 FALSE FALSE TRUE 5391.598806 5057.328178 4573.869647 5395.504637 5123.98456 5277.668295 4500.939095 4888.29238 5342.083482 4402.539428 1.224656563 1.148729787 1.038916226 1.22554374 1.163870226 1.198778201 1.022350661 1.110334719 1.213409572 1 12.10412021 -9.532861641 1.295897306 1.000085437 1.150113125 0 0.093046175 0.371683658 1.118809517 0.048814785 0.011681842 2.93E-10 9.532861641 0.150027688 EQIVPKPEEEVAQK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 EQIVPKPEEEVAQKK 15 2 A0A087WXM6;J3QQT2;J3KRX5;A0A0A6YYL6;P18621;P18621-3;J3QLC8;A0A0A0MRF8;P18621-2 A0A087WXM6 RPL17;RPL17-C18orf32 60S ribosomal protein L17 0 1 EQIVPKPEEEVAQK(1)K 86.214 0.011599 1323700 0 0 75.141 82.401 0 147.2 380.71 311.3 0 0 FALSE TRUE FALSE 0 0 85.38082416 83.99599051 0 134.6577319 337.8715088 303.3373968 0 0 0 EQIVVDLSHPGVSEDDQVSR ddPTM_HeLa_SAHA_4h_R1 2 EQIVVDLSHPGVSEDDQVSR 20 0 O60701;O60701-3;O60701-2 O60701 UGDH UDP-glucose 6-dehydrogenase 0 0 ; ; 129.51 5.47E-05 13837700 4512.3 4513.2 4119.6 4494.8 4895.9 5170.3 5143.9 4715.1 5022.5 4417.2 FALSE FALSE TRUE 4986.924417 4659.430641 4680.997634 4581.803354 4520.7772 4729.761353 4565.094834 4594.494569 4987.548014 4607.647109 1.082314747 1.011238606 1.015919302 0.994391117 0.981146579 1.026502516 0.990764858 0.997145498 1.082450087 1 12.16981451 -7.01977934 23.37420747 1.039286951 1.001565513 0.434379118 0.025865794 362.536177 428426.4747 0.005319728 0.006569839 9.55E-08 7.01977934 -0.037721438 EQLAALK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EQLAALKK 8 1 Q9UII2 Q9UII2 ATPIF1 "ATPase inhibitor, mitochondrial" 0 1 ; EQLAALK(1)K;EQLAALK(1)K 116.52 0.0005149 3713200 4087.4 9319.6 7070.2 5124.9 8646.3 4940.6 9784.3 5341.8 4095.9 2998.9 FALSE TRUE FALSE 4517.331486 9621.561155 8033.690036 5224.09985 7983.822362 4519.633085 8683.344813 5205.164491 4067.396298 3128.197255 1.444068617 3.0757527 2.568153278 1.670003335 2.552211932 1.444804376 2.775830328 1.663950214 1.300236515 1 11.61111577 -7.461638525 7.250080603 1.193647503 2.244410291 0.460630972 0.502965498 0.158873012 16.1195287 0.08311041 0.094030514 3.45E-08 7.461638525 1.050762787 EQLAIAEFAR ddPTM_HeLa_SAHA_4h_R1 1 EQLAIAEFAR 10 0 P17987;E7EQR6;F5H282 P17987 TCP1 T-complex protein 1 subunit alpha 0 0 167.09 0.0008 7133500 1060.1 1050.9 1068.7 1198.9 1033.6 1223.5 1382.5 879.65 1099 1125.9 FALSE FALSE TRUE 1171.606182 1084.94985 1214.33687 1222.106443 954.4057913 1119.250917 1226.937461 857.1498267 1091.35197 1174.443059 0.997584492 0.923799448 1.033968281 1.040583819 0.812645436 0.953005689 1.044697273 0.72983515 0.929250644 1 10.19776105 -4.253271879 24.92895087 0.985777056 0.729835019 0.514815086 0.068720056 540.3716555 1649290.602 0.008904107 0.132149292 5.58E-05 4.253271879 -0.255942037 EQLDTSNES(ph)AEPK ddPTM_HeLa_SAHA_4h_R1 1 EQLDTSNESAEPK 13 0 Q96DX7 Q96DX7 TRIM44 Tripartite motif-containing protein 44 1 0 EQLDT(0.003)S(0.017)NES(0.981)AEPK 148.18 0.00019831 3858200 1075.9 1163.7 789.44 1062.9 1432.7 1455.2 1424 1026.5 1679 1240 TRUE FALSE FALSE 1189.068098 1201.404644 897.020772 1083.473966 1322.926836 1331.208773 1263.767772 1000.243616 1667.315702 1293.462468 0.919290762 0.928828376 0.693503518 0.837653966 1.022779453 1.029182373 0.977042476 0.773307027 1.28903292 1 10.33702248 -8.607269753 0.916096402 0.992215316 0.90173618 0.207346895 0.138121244 0.915244316 1.558016568 0.043618806 0.021983673 2.47E-09 8.607269753 -0.090479137 EQLEEEEEAKHNLEK ddPTM_HeLa_SAHA_4h_R1 3 EQLEEEEEAKHNLEK 15 1 P35579 P35579 MYH9 Myosin-9 0 0 ;; ;; 125.47 0.00032428 82048400 11521.6 10113.4 9943.5 11598.6 11997.5 11158 12280.3 11693 11173.9 10617.7 FALSE FALSE TRUE 12733.49475 10441.0808 11298.5484 11823.10767 11078.25414 10207.27563 10898.48832 11393.90999 11096.13992 11075.48101 1.149701285 0.942720301 1.02014065 1.067502862 1.000250385 0.921610142 0.984019413 1.028750804 1.001865283 1 13.43508174 -6.301206998 0.959594553 1.064273031 0.982466688 0 0.061270254 0.705638906 1.287705719 0.013420779 0.028263831 5.00E-07 6.301206998 -0.081806342 EQLQLLEEQHR ddPTM_HeLa_SAHA_4h_R1 3 EQLQLLEEQHR 11 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ;; ;; 117.2 0.0026405 15127300 7827.8 7941.3 7072.6 8990.5 8772.2 10033.9 9154.8 8578.6 9241.7 8065.5 FALSE FALSE TRUE 8651.163919 8198.60333 8036.417095 9164.524128 8100.075931 9178.955271 8124.67781 8359.171834 9177.386257 8413.243177 1.028279314 0.974487859 0.955210366 1.089297425 0.96277687 1.091012714 0.965701055 0.993573068 1.090826221 1 13.03844633 -9.908647739 2.109214505 0.999889002 1.011835161 0 0.054931845 2.119843578 17.09207532 0.03364918 0.006490335 1.23E-10 9.908647739 0.011946159 EQLRQEQALLEEIER ddPTM_HeLa_SAHA_4h_R1 3 EQLRQEQALLEEIER 15 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ;; ;; 268.61 7.33E-56 15148600 1700.98 1476.33 1860.06 1768.11 1935.62 2273.41 2248.22 1864.33 1651.95 1953.86 FALSE FALSE TRUE 1879.896881 1524.164061 2113.53929 1802.334326 1787.313214 2079.702678 1995.244369 1816.643138 1640.453945 2038.100467 0.922376944 0.747835588 1.037014281 0.884320648 0.876950495 1.020412248 0.978972529 0.891341309 0.804893563 1 10.99300945 -8.969788221 1.074110631 0.994962646 0.922524271 0 0.098314045 0.762430947 1.7192826 0.034739992 0.014204267 1.07E-09 8.969788221 -0.072438375 EQNS(ph)LSLLEAR ddPTM_HeLa_SAHA_4h_R1 1 EQNSLSLLEAR 11 0 Q8TF01 Q8TF01 PNISR Arginine/serine-rich protein PNISR 1 0 EQNS(0.5)LS(0.5)LLEAR 98 0.0095956 1930800 1041.8 1133.5 948.35 1047 1197.1 1384.4 1169.2 1036.4 908.22 1131.1 TRUE FALSE FALSE 1151.381304 1170.226144 1077.586199 1067.266199 1105.378457 1266.441332 1037.638539 1009.890389 901.8996231 1179.867256 0.975856646 0.991828646 0.913311386 0.904564639 0.936866796 1.073376115 0.879453628 0.855935601 0.764407706 1 10.20440884 -1 0.306444332 0.989499343 2.61E-12 0 0.088587152 48.9866024 0.626462599 0.019683432 27.13975668 0.1 1 -0.989499343 EQNSALPT(ph)SSQDEELMEVVEK ddPTM_HeLa_SAHA_4h_R1 1 EQNSALPTSSQDEELMEVVEK 21 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 EQNS(0.012)ALPT(0.357)S(0.357)S(0.274)QDEELMEVVEK 78.987 0.0017642 2232500 916.59 1604.9 1020.2 1175 1405.8 1645.6 1338.8 1297.7 2147.6 1642.6 TRUE FALSE FALSE 1013.001142 1656.899813 1159.227543 1197.743824 1298.087908 1505.385622 1188.1547 1264.506713 2132.654677 1713.420525 0.591215716 0.967012936 0.676557521 0.699036697 0.757600302 0.878585029 0.693440217 0.738001381 1.244676742 1 10.74266356 -9.56388628 1.326535779 1.000592625 0.734657437 0.520207866 0.129913553 0.31380599 0.986075966 0.074916131 0.01745135 2.73E-10 9.56388628 -0.265935187 EQNSALPTS(ph)SQDEELMEVVEK ddPTM_HeLa_SAHA_4h_R1 2 EQNSALPTSSQDEELMEVVEK 21 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 EQNSALPT(0.105)S(0.511)S(0.384)QDEELMEVVEK;EQNSALPT(0.013)S(0.558)S(0.428)QDEELMEVVEK ; 78.752 0.0012375 3610700 1375.54 1957.01 1618.87 1524.3 1942.28 1992.68 1900.47 1689.2 2592.47 2002.34 TRUE FALSE FALSE 1520.225608 2020.418408 1839.481173 1553.805031 1793.462926 1822.892453 1686.624114 1645.99271 2574.42879 2088.670677 0.727843611 0.967322628 0.880694689 0.743920546 0.858662376 0.872752452 0.807510793 0.788057557 1.232568073 1 11.02836932 -9.557861473 1.310551814 1.000623136 0.822000444 0.488632468 0.10153048 0.323527718 0.990065644 0.051494554 0.011965732 2.77E-10 9.557861473 -0.178622692 EQNSALPTSS(ph)QDEELMEVVEK ddPTM_HeLa_SAHA_4h_R1 2 EQNSALPTSSQDEELMEVVEK 21 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 EQNSALPT(0.001)S(0.185)S(0.814)QDEELMEVVEK;EQNSALPT(0.028)S(0.15)S(0.823)QDEELMEVVEK ; 132.28 4.02E-06 5980100 2481.69 3416.3 2495.21 2663.14 3020.2 3946.4 3139.8 2913.5 4743.5 3340.2 TRUE FALSE FALSE 2742.725541 3526.990362 2835.244224 2714.688926 2788.792928 3610.144518 2786.50144 2838.976889 4710.489597 3484.212369 0.787186672 1.012277665 0.813740359 0.779139914 0.800408423 1.036143649 0.799750746 0.814811667 1.351952493 1 11.76661685 -9.503080857 1.174714015 1.002332465 0.851117363 0.321096249 0.143563345 0.522771635 1.258243851 0.065842152 0.014948378 3.14E-10 9.503080857 -0.151215101 EQPGEEYS(ph)EEEESVLK ddPTM_HeLa_SAHA_4h_R1 3 EQPGEEYSEEEESVLK 16 0 Q96PY6-4;Q96PY6-2;Q96PY6-6;Q96PY6;Q96PY6-3 Q96PY6-4 NEK1 Serine/threonine-protein kinase Nek1 1 0 EQPGEEYS(0.993)EEEES(0.007)VLK;EQPGEEYS(0.996)EEEES(0.004)VLK;EQPGEEYS(0.985)EEEES(0.015)VLK ;; 155.94 1.65E-05 21649800 2492.95 2301.76 2101.69 2126.06 2398.66 3048.13 2637.61 2956.41 2681.75 2420.02 TRUE FALSE FALSE 2755.169919 2376.338534 2388.097368 2167.212966 2214.875189 2788.412176 2340.819181 2880.789313 2663.087483 2524.358905 1.091433517 0.941363183 0.94602133 0.858520142 0.877401064 1.104602111 0.92729254 1.141196407 1.054955964 1 11.30170133 -10.3342519 10.42633632 0.999874229 1.011707581 0 0.096263499 1.215951771 1342.843433 0.09298875 0.014042482 4.63E-11 10.3342519 0.011833351 EQQDVGS(ph)PDKAR ddPTM_HeLa_SAHA_4h_R1 1 EQQDVGSPDKAR 12 1 A6PVV2;H0Y7R3;F8W9F9;H0Y7T5;Q9Y3S1-3;Q9Y3S1-2;Q9Y3S1-4;Q9Y3S1 A6PVV2 WNK2 Serine/threonine-protein kinase WNK2 1 0 EQQDVGS(1)PDKAR 70.167 0.020066 5317000 3641.8 2939.7 2653.3 3138.2 3253 3253.1 3313.4 3247.5 3047.5 3248.5 TRUE FALSE FALSE 4024.861233 3034.948209 3014.877906 3198.944399 3003.755843 2975.917579 2940.567512 3164.433652 3026.292199 3388.558733 1.187779688 0.895645744 0.889722783 0.944042778 0.886440543 0.878225173 0.867792989 0.933858287 0.893091263 1 11.72645606 -7.241583434 24.43242603 1.08867374 0.898208026 0.272017795 0.078006875 295.0079649 363002.8158 0.011872969 0.014530022 5.73E-08 7.241583434 -0.190465713 EQQEAIEHIDEVQNEIDR ddPTM_HeLa_SAHA_4h_R1 2 EQQEAIEHIDEVQNEIDR 18 0 Q01105;A0A0C4DFV9;Q01105-3;Q01105-4;A0A087X027;P0DME0;Q01105-2 Q01105;Q01105-2 SET;SETSIP Protein SET;Protein SETSIP 0 0 ; ; 206.45 1.18E-16 16008500 6089.4 4792 4161.6 5378.5 5000.9 7326.6 6284 4442.3 9297 6164.6 FALSE FALSE TRUE 6729.911031 4947.263944 4728.721175 5482.608645 4617.732122 6702.332462 5576.907781 4328.672398 9232.30142 6430.386075 1.046579623 0.769357218 0.73537127 0.85260956 0.718111178 1.042290834 0.867274176 0.673159022 1.435730501 1 12.65068964 -7.265000047 24.91272169 1.021995936 0.815006798 0.432577972 0.163096171 178.0691274 1245883.78 0.016306376 0.019044352 5.43E-08 7.265000047 -0.206989139 EQQEAIEHIDEVQNEIDRLNEQAS(ph)EEILK ddPTM_HeLa_SAHA_4h_R1 1 EQQEAIEHIDEVQNEIDRLNEQASEEILK 29 1 Q01105;A0A0C4DFV9;Q01105-3;Q01105-4;Q01105-2 Q01105;Q01105-2 SET Protein SET 1 0 EQQEAIEHIDEVQNEIDRLNEQAS(1)EEILK 65.275 0.0002125 3392100 456.3 464.31 467.75 658.2 514.98 551.58 560.48 509.62 928.54 787.3 TRUE FALSE FALSE 504.2957276 479.3539486 531.4925341 670.9404128 475.5223437 504.5822809 497.4133153 496.5846583 922.0782145 821.244356 0.614062945 0.583692229 0.647179527 0.816980242 0.57902662 0.614411871 0.605682476 0.60467345 1.122781798 1 9.68166774 -9.217879953 0.719409406 1.029636977 0.631158162 0.820596344 0.078389795 0.279326139 0.231152964 0.067199414 0.014292119 6.06E-10 9.217879953 -0.398478815 EQQEAIEHIDEVQNEIDRLNEQASEEILK ddPTM_HeLa_SAHA_4h_R1 2 EQQEAIEHIDEVQNEIDRLNEQASEEILK 29 1 Q01105;A0A0C4DFV9;Q01105-3;Q01105-4;Q01105-2 Q01105;Q01105-2 SET Protein SET 0 0 ; ; 136.61 5.92E-14 28665000 3975.7 3421.6 2665.4 4012.9 3438.6 4257 3817.8 3802.1 4481.9 3352.3 FALSE FALSE TRUE 4393.882367 3532.462085 3028.626831 4090.575482 3175.135211 3894.279651 3388.211096 3704.847787 4450.710093 3496.834059 1.256531564 1.010188652 0.866105391 1.169793995 0.908002827 1.113658694 0.968936769 1.059486303 1.272782757 1 11.77183362 EQQEPS(ph)S(ph)GGS(ph)VVPT(ph)VQEPK ddPTM_HeLa_SAHA_4h_R1 1 EQQEPSSGGSVVPTVQEPK 19 0 Q96JJ7 Q96JJ7 TMX3 Protein disulfide-isomerase TMX3 4 0 EQQEPS(1)S(1)GGS(1)VVPT(1)VQEPK 47.564 0.020098 4889600 272.41 315.36 276.8 231.88 387.57 500.05 262.8 437.34 334.95 309.05 TRUE FALSE FALSE 301.0633337 325.5778709 314.5208625 236.3683727 357.8744703 457.4429268 233.2290523 426.1534761 332.6190557 322.374658 0.933892681 1.009936305 0.975637677 0.733210154 1.110119736 1.418979177 0.723472043 1.321919901 1.031777925 1 8.332594527 -5.55315653 24.9814394 0.955906465 1.137140566 0.211100515 0.185953104 235.7624716 194521.0594 0.024255069 0.048510598 2.80E-06 5.55315653 0.181234101 AVTTPGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 AVTTPGKK 8 1 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 ; AVTTPGK(1)K;AVTTPGK(1)K 150.4 1.05E-05 578440000 19726.8 22032 28406 43814 48263 52082 58110 54724 16181.1 13929.9 FALSE TRUE FALSE 21801.75533 22745.85126 32277.02175 44662.08333 44565.09937 47644.32059 51571.30986 53324.23932 16068.49441 14530.48616 1.500414721 1.565388178 2.221331165 3.073681282 3.067006766 3.278921302 3.549179931 3.669817977 1.105846992 1 13.82679535 -6.394192782 0.700732213 1.141693943 3.643127125 0.978592345 0.144671363 0.076081043 0.074023017 0.037749067 0.085065959 4.03E-07 6.394192782 2.501433182 up EQS(ph)TPPKSPQ ddPTM_HeLa_SAHA_4h_R1 2 EQSTPPKSPQ 10 1 Q92615;A0A087X183;H0Y4V9 Q92615 LARP4B La-related protein 4B 1 0 EQS(0.99)T(0.01)PPKSPQ;EQS(0.989)T(0.011)PPKSPQ ; 176.18 0.00023266 54806000 7001.7 6838 6495.8 7707.2 8930.6 7819.5 7986 8068.1 6899.5 7005.4 TRUE FALSE FALSE 7738.170931 7059.555687 7381.013795 7856.384001 8246.339357 7153.234609 7087.394262 7861.729684 6851.485818 7307.437078 1.058944586 0.966078204 1.010068745 1.075121676 1.128485852 0.978897873 0.969887826 1.075853217 0.93760449 1 12.83514979 -9.647009426 1.470513365 0.99994664 1.034920959 0.129585448 0.054271964 1.086140742 4.212275161 0.03706478 0.00832566 2.25E-10 9.647009426 0.034974319 EQSEVSVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 EQSEVSVSPR 10 0 Q7L4I2;E9PI52 Q7L4I2 RSRC2 Arginine/serine-rich coiled-coil protein 2 1 0 EQSEVSVS(1)PR;EQSEVSVS(1)PR;EQSEVS(0.006)VS(0.994)PR ;; 171.62 8.07E-05 559166000 5829.7 5757.6 5141.6 6085.3 6217.4 6099.5 6197.4 6284.1 6790.6 6390.2 TRUE FALSE FALSE 6442.894594 5944.150018 5842.270472 6203.089781 5741.024155 5579.788285 5500.052241 6123.361821 6743.343662 6665.712795 0.966572487 0.891750095 0.876465976 0.930596618 0.861276855 0.837088014 0.825125896 0.918635712 1.011646296 1 12.70254344 -7.175882102 0.714424241 0.994906441 0.860500276 0.738732837 0.031693263 0.213200653 0.226886545 0.008121519 0.010243246 6.67E-08 7.175882102 -0.134406165 EQSSDLTPSGDVS(ph)PVKPLSR ddPTM_HeLa_SAHA_4h_R1 1 EQSSDLTPSGDVSPVKPLSR 20 1 Q8WYQ5-3;Q8WYQ5 Q8WYQ5-3 DGCR8 Microprocessor complex subunit DGCR8 1 0 EQSSDLTPSGDVS(0.5)PVKPLS(0.5)R 164.27 9.16E-07 87903000 2146.4 2211.1 1810.4 2152 2166.8 2597 2849.7 2166.7 2482 1809.6 TRUE FALSE FALSE 2372.1682 2282.741091 2057.111884 2193.655072 2000.780252 2375.72099 2529.044256 2111.278951 2464.72756 1887.620712 1.256697484 1.209321913 1.089790905 1.162127041 1.05994824 1.258579637 1.339805312 1.118486854 1.30573242 1 10.88235319 -9.422812925 1.100223031 0.997803996 1.192849283 0 0.123801727 0.402078391 0.854904955 0.061330219 0.014762183 3.78E-10 9.422812925 0.195045287 EQSSEAAETGVS(ph)ENEENPVR ddPTM_HeLa_SAHA_4h_R1 2 EQSSEAAETGVSENEENPVR 20 0 Q29RF7 Q29RF7 PDS5A Sister chromatid cohesion protein PDS5 homolog A 1 0 EQSSEAAET(0.069)GVS(0.931)ENEENPVR;EQSSEAAET(0.002)GVS(0.998)ENEENPVR ; 220.16 4.91E-26 9042600 1543.38 1641.1 1089.69 1496.52 1508.48 2115.5 1551.36 1892.97 1496.46 1780.27 TRUE FALSE FALSE 1705.71979 1694.272717 1238.187278 1525.487309 1392.900588 1935.247499 1376.79689 1844.550568 1486.046013 1857.026152 0.918522223 0.912358027 0.666758127 0.821467865 0.750070529 1.042121834 0.741398762 0.993281956 0.80022891 1 10.85877842 -7.591026696 1.342212232 0.974358397 0.838610899 0 0.12188259 0.405099034 1.482469623 0.022161138 0.022794303 2.56E-08 7.591026696 -0.135747497 EQST(ph)PPKSPQ ddPTM_HeLa_SAHA_4h_R1 1 EQSTPPKSPQ 10 1 Q92615;A0A087X183;H0Y4V9 Q92615 LARP4B La-related protein 4B 1 0 EQS(0.321)T(0.679)PPKSPQ 96.113 0.0080242 0 2055.6 1763 1320.7 2260.6 1752.9 2943.7 2538.1 2440.3 2214.6 2252.6 TRUE FALSE FALSE 2271.817439 1820.122357 1500.678118 2304.357182 1618.593181 2692.880199 2252.506308 2377.88066 2199.188418 2349.72061 0.966845773 0.774612245 0.638662363 0.980694118 0.688844952 1.14604272 0.958627293 1.011984425 0.935936132 1 11.19827351 EQT(ph)LSPTITSGLHNIAR ddPTM_HeLa_SAHA_4h_R1 1 EQTLSPTITSGLHNIAR 17 0 D6REX3;O94979-3;O94979-9;O94979-2;O94979;O94979-8;H7BXG7;O94979-7;O94979-6;O94979-10;O94979-4;H0Y8W8 D6REX3 SEC31A Protein transport protein Sec31A 1 0 EQT(0.685)LS(0.297)PT(0.011)IT(0.006)SGLHNIAR 144.4 0.00013716 10074000 1595.4 2235 1218.5 1925.3 3026.9 3840.7 2789.1 2649.8 2299.1 2303.8 TRUE FALSE FALSE 1763.211492 2307.415466 1384.550834 1962.566966 2794.979576 3513.450753 2475.263127 2582.021953 2283.100376 2403.128093 0.733715151 0.96017165 0.576145249 0.816671809 1.163058925 1.462032242 1.030017141 1.074442083 0.95005355 1 11.23069783 -5.737015793 7.440018045 0.849978639 1.192935742 0.531467501 0.157477454 0.120552229 25.81908674 0.024836853 0.048998037 1.83E-06 5.737015793 0.342957102 EQTFSGGTS(ph)QDTK ddPTM_HeLa_SAHA_4h_R1 4 EQTFSGGTSQDTK 13 0 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 EQTFS(0.008)GGT(0.019)S(0.967)QDT(0.006)K;EQTFSGGT(0.021)S(0.979)QDTK;EQTFS(0.027)GGT(0.051)S(0.92)QDT(0.001)K;EQTFS(0.002)GGT(0.04)S(0.958)QDT(0.001)K ;;; 186.05 3.11E-07 23092300 5091.5 6875 5645.35 6756 6745.8 8098.8 6645.2 6774.9 8309.3 6489.1 TRUE FALSE FALSE 5627.047331 7097.754511 6414.668898 6886.772149 6228.938261 7408.736677 5897.464607 6601.607868 8251.474905 6768.876858 0.831311819 1.048586739 0.947671088 1.01741726 0.920232173 1.094529688 0.871261914 0.975288516 1.219031618 1 12.72470076 -7.248972092 24.747607 0.920341689 0.979849004 0 0.117973257 1187.61142 2357413.023 0.013545541 0.01653084 5.64E-08 7.248972092 0.059507315 EQTLSPT(ph)ITSGLHNIAR ddPTM_HeLa_SAHA_4h_R1 1 EQTLSPTITSGLHNIAR 17 0 D6REX3;O94979-3;O94979-9;O94979-2;O94979;O94979-8;H7BXG7;O94979-7;O94979-6;O94979-10;O94979-4;H0Y8W8 D6REX3 SEC31A Protein transport protein Sec31A 1 0 EQT(0.01)LS(0.013)PT(0.824)IT(0.153)SGLHNIAR 224.64 2.01E-22 12125000 1159.8 1899 940.61 1688.9 2305.4 3106.3 1825.3 2166.8 1739.5 1884.5 TRUE FALSE FALSE 1281.793085 1960.528846 1068.791432 1721.591102 2128.76075 2841.625764 1619.91244 2111.376393 1727.394678 1965.750018 0.652063118 0.997343929 0.543706688 0.875793507 1.082925464 1.445568225 0.824068384 1.074081839 0.878745854 1 10.94086415 -5.783633873 4.701057473 0.822197631 1.112990925 0.34413465 0.192005338 0.184810714 9.948807674 0.030484718 0.058458077 1.65E-06 5.783633873 0.290793294 EQTLSPTIT(ph)SGLHNIAR ddPTM_HeLa_SAHA_4h_R1 1 EQTLSPTITSGLHNIAR 17 0 D6REX3;O94979-3;O94979-9;O94979-2;O94979;O94979-8;H7BXG7;O94979-7;O94979-6;O94979-10;O94979-4;H0Y8W8 D6REX3 SEC31A Protein transport protein Sec31A 1 0 EQT(0.006)LS(0.169)PT(0.017)IT(0.465)S(0.344)GLHNIAR 246.49 1.48E-36 8958800 526.31 987.5 563.92 797.28 1467.7 1615.1 870.62 1208.3 830.68 863.01 TRUE FALSE FALSE 581.6697006 1019.495648 640.7680808 812.7125073 1355.245143 1477.484394 772.6555463 1177.393436 824.8992302 900.2185846 0.646142738 1.13249789 0.71179166 0.902794634 1.505462303 1.641250713 0.858297706 1.307897277 0.916332149 1 9.814131539 -5.847056749 6.841321695 0.846473943 1.315766489 0.4709336 0.228295816 0.147666789 9.821289798 0.035723254 0.065241143 1.42E-06 5.847056749 0.469292546 EQVANS(ph)AFVER ddPTM_HeLa_SAHA_4h_R1 2 EQVANSAFVER 11 0 P08238;Q58FF7 P08238 HSP90AB1;HSP90AB3P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 1 0 EQVANS(1)AFVER;EQVANS(1)AFVER ; 136.83 0.0010452 12247600 1824.75 1590.65 1053.73 1046.79 1515.63 2034.84 1563.15 1460.48 1663.29 1445.78 TRUE FALSE FALSE 2016.685577 1642.188104 1197.326837 1067.052134 1399.502757 1861.460184 1387.260248 1423.123036 1651.715029 1508.114651 1.337222986 1.088901366 0.793922953 0.70754046 0.927981673 1.234296201 0.919863915 0.943643797 1.095218476 1 10.5585304 -6.958422875 8.602823663 1.162058052 0.926829438 0.323299439 0.149012618 0.280433156 52.9946882 0.029477299 0.038720223 1.10E-07 6.958422875 -0.235228614 EQVANSAFVER ddPTM_HeLa_SAHA_4h_R1 4 EQVANSAFVER 11 0 P08238;Q58FF7 P08238 HSP90AB1;HSP90AB3P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 0 ;;; ;;; 196.16 1.36E-23 39602600 3472.93 3746.8 3071.65 3549.64 3727.4 3857.47 3948.47 3908.39 3523.77 3578.15 FALSE FALSE TRUE 3838.228712 3868.198778 3490.238466 3618.348415 3441.807417 3528.791854 3504.177764 3808.419043 3499.247798 3732.421558 1.028348125 1.036377783 0.935113682 0.96943723 0.922137911 0.945443005 0.938848335 1.020361442 0.937527485 1 11.86589622 -6.75986048 24.99999996 1.015484991 0.953176874 0.232651865 0.036403452 23.35735071 369831.0111 0.004241297 0.005818309 1.74E-07 6.75986048 -0.062308117 EQWDTIEELIR ddPTM_HeLa_SAHA_4h_R1 1 EQWDTIEELIR 11 0 Q16698-2;Q16698 Q16698-2 DECR1 "2,4-dienoyl-CoA reductase, mitochondrial" 0 0 136.53 0.0063452 1762100 225.01 368.7 227.46 160.15 207.7 226.97 218.93 183 357.54 452.86 FALSE FALSE TRUE 248.6775842 380.6461219 258.4570642 163.2499348 191.7860709 207.6308791 194.2954202 178.319125 355.05185 472.3850108 0.526429879 0.805796359 0.54713223 0.345586611 0.405995251 0.439537399 0.411307336 0.37748684 0.751615402 1 8.883819377 -13.52287875 0.139431871 2.937408128 0.256670994 0.649935132 0.122922892 22.21965391 0.215773896 11.80859003 0.301644626 3.00E-14 13.52287875 -2.680737134 EQWIQDAEECDR ddPTM_HeLa_SAHA_4h_R1 2 EQWIQDAEECDR 12 0 O94906-2;O94906 O94906-2 PRPF6 Pre-mRNA-processing factor 6 0 0 ; ; 216.03 7.92E-15 11592100 1988.07 1932.38 1875.87 1979.96 2337.7 2766.2 2347.86 1993.59 2056.41 1893.29 FALSE FALSE TRUE 2197.184324 1994.99038 2131.503794 2018.284989 2158.585931 2530.504198 2083.672614 1942.596854 2042.099275 1974.918997 1.112544022 1.010163142 1.079286693 1.021958365 1.09299973 1.2813205 1.055067381 0.983633687 1.034016726 1 10.94757777 -5.534840538 21.93619904 1.051288461 1.115787611 0.122726075 0.076530552 83.98845075 154022.215 0.011727162 0.023479934 2.92E-06 5.534840538 0.06449915 EQYGLGPYEAVT(ph)PLTK ddPTM_HeLa_SAHA_4h_R1 1 EQYGLGPYEAVTPLTK 16 0 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 EQYGLGPY(0.002)EAVT(0.996)PLT(0.002)K 80.459 0.022005 10528000 1883.4 1501.3 1530 1463.7 2334.9 2033.5 2035.4 1787.6 2063.2 1726.8 TRUE FALSE FALSE 2081.504653 1549.943105 1738.500432 1492.03203 2156.000466 1860.23436 1806.371435 1741.87578 2048.842023 1801.250799 1.155588469 0.860481564 0.965162893 0.828331086 1.196946293 1.03274589 1.002842823 0.967036784 1.137455164 1 10.81478335 -7.278950312 24.94581828 1.073472328 0.984102719 0.20903936 0.10220164 1225.345433 1745604.876 0.01856843 0.021258227 5.26E-08 7.278950312 -0.089369608 EQYGLGPYEAVTPLT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 EQYGLGPYEAVTPLTK 16 0 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 EQYGLGPYEAVT(0.337)PLT(0.663)K 143.83 0.00018211 10339000 1625.6 1423 1797.3 1808 1974.4 2207 1882.2 1884.9 2256.7 2136.6 TRUE FALSE FALSE 1796.588067 1469.106134 2042.226684 1842.996454 1823.121899 2018.951184 1670.409902 1836.686987 2240.995441 2228.719282 0.806107831 0.659170558 0.916322975 0.826930726 0.818013248 0.905879534 0.74949318 0.824099743 1.005508167 1 11.1219992 -9.100780977 0.892990559 0.999002252 0.814334148 0.537677853 0.06962725 0.371548885 0.541071699 0.04355456 0.013183565 7.93E-10 9.100780977 -0.184668104 EQYVPPRS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 EQYVPPRSPK 10 1 Q71RC2-6;Q71RC2-5;Q71RC2-3;Q71RC2;Q71RC2-4;X6RLN4;Q71RC2-2 Q71RC2-6 LARP4 La-related protein 4 1 0 EQY(0.001)VPPRS(0.999)PK;EQYVPPRS(1)PK;EQYVPPRS(1)PK ;; 77.288 0.017047 154313000 9478.9 10111.6 8446.1 11076.3 10859 12434.7 12201.1 11701.8 10676.9 9650.4 TRUE FALSE FALSE 10475.93419 10439.22247 9597.090523 11290.6978 10026.98577 11375.1936 10828.20012 11402.4849 10602.59858 10066.47597 1.040675428 1.0370285 0.953371423 1.121613744 0.996077058 1.130007526 1.075669395 1.132718633 1.053258222 1 13.2972711 -1 0.267907041 1.009250957 1.8823365 0.34875642 0.046971249 32.1530409 0.407229337 0.019412095 13.11419829 0.1 1 0.873085544 ERAAQQQQPSAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 ERAAQQQQPSASPR 14 1 Q86U86-8;Q86U86 Q86U86-8 PBRM1 Protein polybromo-1 1 0 ERAAQQQQPS(0.064)AS(0.936)PR 86.803 0.0051152 0 162.78 171.17 292.78 258.44 298.62 321.69 251.94 219.83 149.42 254.6 TRUE FALSE FALSE 179.9019473 176.7160203 332.6785337 263.4424799 275.7398001 294.2802022 223.5910481 214.2070669 148.3801741 265.577052 0.677400197 0.665403953 1.252662951 0.991962513 1.038266665 1.108078428 0.841906507 0.806572199 0.558708567 1 8.052986681 -6.779602033 24.99971332 0.829735417 1.004480183 0.333704016 0.170844933 312.444614 430058.5081 0.02873507 0.037805817 1.66E-07 6.779602033 0.174744766 ERALS(ph)PGLEESGLGLLAR ddPTM_HeLa_SAHA_4h_R1 1 ERALSPGLEESGLGLLAR 18 1 H9KVB4;O15417-2;O15417 H9KVB4 TNRC18 Trinucleotide repeat-containing gene 18 protein 1 0 ERALS(0.982)PGLEES(0.018)GLGLLAR 66.939 0.010084 1301900 291.26 302.36 333.11 361.98 362.86 331.61 441.09 470.45 440.07 359.44 TRUE FALSE FALSE 321.8960631 312.1566624 378.504496 368.9866463 335.0577452 303.3549624 391.4573923 458.4165702 437.007517 374.9372175 0.858533237 0.832557153 1.009514336 0.984129153 0.893636933 0.809082023 1.044061176 1.222648883 1.165548515 1 8.550505229 -4.428974854 3.523409238 0.924159136 1.217770454 0.398675044 0.101647743 0.134539539 2.825592919 0.010786246 0.078626846 3.72E-05 4.428974854 0.293611318 ERAS(ph)SPPDRIDIFGR ddPTM_HeLa_SAHA_4h_R1 1 ERASSPPDRIDIFGR 15 2 Q9NWB6-2;Q9NWB6 Q9NWB6-2 ARGLU1 Arginine and glutamate-rich protein 1 1 0 ERAS(0.5)S(0.5)PPDRIDIFGR 75.911 0.0071894 6763600 0 138 164.73 196.3 169.85 168.89 198.75 192.38 125.46 60.189 TRUE FALSE FALSE 0 142.4712905 187.1785465 200.0996704 156.8361297 154.4996219 176.3861269 187.4591982 124.5869136 62.78404235 0 2.26922774 2.981307662 3.187110337 2.498025355 2.46081036 2.809410167 2.985777773 1.984372286 1 5.972326015 -7.130420444 4.450575367 0.531033026 2.793196411 0.659104452 0.555703668 0.058169215 1.858592761 0.072185339 0.089103824 7.41E-08 7.130420444 2.262163386 ERDHS(ph)PTPSVFNSDEER ddPTM_HeLa_SAHA_4h_R1 4 ERDHSPTPSVFNSDEER 17 1 Q6UN15-5;Q6UN15;Q6UN15-3 Q6UN15-5 FIP1L1 Pre-mRNA 3-end-processing factor FIP1 1 0 ERDHS(0.993)PT(0.007)PSVFNSDEER;ERDHS(0.993)PT(0.007)PSVFNSDEER;ERDHS(0.863)PT(0.136)PSVFNSDEER;ERDHS(0.781)PT(0.219)PSVFNSDEER ;;; 107.02 0.00073547 31102800 3043.34 4282 3381.15 3733.9 4238.16 4703.22 3797.08 4053.62 5270.77 3865.59 TRUE FALSE FALSE 3363.452465 4420.73961 3841.915514 3806.175034 3913.433096 4302.479196 3369.822565 3949.93427 5234.090282 4032.254503 0.834136948 1.096344392 0.952795889 0.943932242 0.970532265 1.067015783 0.835716734 0.979584564 1.298055537 1 11.97737098 -7.290601069 24.98932365 0.921675793 0.973375381 0 0.141292715 1499.875361 1285274.281 0.014843974 0.016975962 5.12E-08 7.290601069 0.051699588 ERDSELSDT(ph)DSGCCLGQSESDK ddPTM_HeLa_SAHA_4h_R1 2 ERDSELSDTDSGCCLGQSESDK 22 1 A0A087WVR3;A0A087WTW0;Q96T88;Q96T88-2 A0A087WVR3 UHRF1 E3 ubiquitin-protein ligase UHRF1 1 0 ERDS(0.095)ELS(0.306)DT(0.452)DS(0.147)GCCLGQSESDK;ERDS(0.217)ELS(0.179)DT(0.543)DS(0.06)GCCLGQSESDK ; 89.968 0.00035463 19186500 1907.57 2378.78 1694.45 2027.41 2218.12 2758.35 2315.99 2166.37 3280.7 2390.38 TRUE FALSE FALSE 2108.216965 2455.854033 1925.360822 2066.653452 2048.168125 2523.323062 2055.38871 2110.957392 3257.869342 2493.44098 0.84550506 0.984925672 0.772170201 0.828835921 0.82142234 1.011984275 0.824318172 0.846604114 1.306575679 1 11.28392234 -9.410015776 0.698355038 1.019501364 0.864911982 0.361849949 0.120705006 0.936999426 0.646683902 0.090249652 0.014255163 3.89E-10 9.410015776 -0.154589381 ERDVIMR ddPTM_HeLa_SAHA_4h_R1 1 ERDVIMR 7 1 P60842;P60842-2;J3KT12;Q14240-2;Q14240;E7EQG2;J3KSZ0;J3QL52 P60842 EIF4A1;EIF4A2 "Eukaryotic initiation factor 4A-I;Eukaryotic initiation factor 4A-II;Eukaryotic initiation factor 4A-II, N-terminally processed" 0 0 110.81 0.011771 4094300 1612.9 1253.1 1826.9 1606.5 1898.4 1767 1962.3 1527.1 1638.5 1730.2 FALSE FALSE TRUE 1782.552222 1293.701262 2075.860418 1637.596131 1752.945002 1616.441659 1741.49684 1488.038993 1627.097545 1804.797389 0.987674424 0.716812463 1.150190282 0.907357325 0.971269691 0.89563608 0.964926506 0.824490883 0.901540281 1 10.81762117 -1 0.166541422 1.010831638 0.496162849 0 0.109270157 101.2857764 1.050682076 0.156398368 12.98488662 0.1 1 -0.514668789 ERDYPFYER ddPTM_HeLa_SAHA_4h_R1 1 ERDYPFYER 9 1 A0A494C001;A0A499FJY3;A0A087WWP4;Q96T37-4;Q96T37-2;Q96T37-3;Q96T37 A0A494C001 RBM15 Putative RNA-binding protein 15 0 0 98.048 0.018291 4214500 1356.5 1122.2 1229.2 1190.3 1622.6 1094.9 1762.5 1084.5 1425.4 1279.3 FALSE FALSE TRUE 1499.182894 1158.560016 1396.708975 1213.339978 1498.276739 1001.60836 1564.178861 1056.76006 1415.480525 1334.456884 1.123440489 0.868188422 1.046649758 0.909238802 1.122761445 0.75057379 1.172146422 0.791902738 1.060716568 1 10.38203698 -7.271726146 24.67427151 1.058291339 0.96099055 0.126715865 0.130345191 920.6713885 2208357.782 0.02016463 0.023199605 5.35E-08 7.271726146 -0.097300789 EREAELGAR ddPTM_HeLa_SAHA_4h_R1 1 EREAELGAR 9 1 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YAR2;Q9H361;H0YBN4;Q4VXU2;Q4VXU2-2 P11940 PABPC1;PABPC3;PABPC1L Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 3;Polyadenylate-binding protein 1-like 0 0 137.05 0.0020515 2158300 702.56 766.93 829.18 794.6 875.44 964.8 1051 938.33 655.78 710.78 FALSE FALSE TRUE 776.4584843 791.7790352 942.1763322 809.980632 808.3639763 882.5936122 932.7387139 914.3288773 651.2163736 741.4252043 1.047251267 1.067914917 1.27076383 1.092464388 1.090283918 1.190401415 1.258034807 1.233204472 0.878330504 1 9.534157349 -4.559658845 0.191235441 0.96233883 1.470577695 0.651926391 0.070179197 6.276367239 0.244703227 0.09590142 0.787391984 2.76E-05 4.559658845 0.508238865 ERECSPS(ph)SPLPPLPEDEEGSEVTNSK ddPTM_HeLa_SAHA_4h_R1 1 ERECSPSSPLPPLPEDEEGSEVTNSK 26 1 Q96GY3 Q96GY3 LIN37 Protein lin-37 homolog 1 0 ERECS(0.002)PS(0.499)S(0.499)PLPPLPEDEEGSEVTNSK 97.639 5.85E-06 4053200 437.4 303.36 223.2 337.74 292.69 390.49 438.75 517.19 217.1 318.25 TRUE FALSE FALSE 483.4077389 313.189063 253.6165336 344.2774461 270.2641554 357.2180552 389.3806953 503.9610287 215.5891834 331.971315 1.456173221 0.943422064 0.763971229 1.037069863 0.814119001 1.076050969 1.172934762 1.518086069 0.649421121 1 8.374914776 -7.22019004 24.97315427 1.215415307 1.0323503 0 0.284589768 902.1816778 546198.8183 0.043206115 0.052916176 6.02E-08 7.22019004 -0.183065007 ERECSPSS(ph)PLPPLPEDEEGSEVTNSK ddPTM_HeLa_SAHA_4h_R1 2 ERECSPSSPLPPLPEDEEGSEVTNSK 26 1 Q96GY3 Q96GY3 LIN37 Protein lin-37 homolog 1 0 ERECS(0.025)PS(0.042)S(0.933)PLPPLPEDEEGSEVTNSK;ERECS(0.004)PS(0.161)S(0.834)PLPPLPEDEEGSEVTNSK ; 156.49 1.95E-10 67887000 2486.3 2247.48 2182.07 2507 2896.9 2826 2872.3 2901.1 2634.8 2138.5 TRUE FALSE FALSE 2747.820442 2320.299827 2479.431136 2555.52661 2674.940148 2585.208901 2549.101245 2826.894063 2616.464212 2230.701201 1.231819143 1.040166126 1.111503027 1.145615831 1.19914767 1.158922092 1.142735407 1.26726702 1.17293352 1 11.12328156 -9.491407679 1.151459057 0.997094488 1.164391071 0 0.079352314 0.342201818 0.788667138 0.047057058 0.010663923 3.23E-10 9.491407679 0.167296583 EREDEIATMECINNGK ddPTM_HeLa_SAHA_4h_R1 1 EREDEIATMECINNGK 16 1 P49189-2;P49189;P49189-3 P49189-2 ALDH9A1 4-trimethylaminobutyraldehyde dehydrogenase 0 0 82.651 0.0032598 0 844.16 943.3 924.4 785.1 885.43 1547.6 1268.4 1494.1 1164.8 950.55 FALSE FALSE TRUE 932.9526219 973.8635389 1050.372418 800.2967458 817.5885447 1415.735773 1125.676294 1455.883085 1156.694062 991.5328624 0.940919517 0.98217979 1.059342013 0.807130834 0.824570295 1.427825367 1.135288941 1.468315515 1.166571584 1 9.953516778 -5.258736801 24.99998735 0.957786013 1.322957851 0.640947968 0.128201294 93.97665903 869317.2165 0.014737318 0.035783805 5.51E-06 5.258736801 0.365171838 EREDS(ph)GDAEAHAFK ddPTM_HeLa_SAHA_4h_R1 1 EREDSGDAEAHAFK 14 1 Q9NPI1;Q9NPI1-2 Q9NPI1 BRD7 Bromodomain-containing protein 7 1 0 EREDS(1)GDAEAHAFK 84.249 0.0081166 7750600 1326.6 1751.1 1367 2122.2 1635.4 1630.8 1413.5 1499 1906.9 1691.1 TRUE FALSE FALSE 1466.137875 1807.836789 1553.287641 2163.27825 1510.096005 1491.846665 1254.44926 1460.657751 1893.629728 1764.011597 0.831138456 1.02484405 0.88054276 1.226340152 0.856057867 0.845712504 0.711134361 0.82803183 1.073479183 1 10.78464433 -5.273508875 2.988574539 0.944859745 0.778299107 0.337191292 0.116662013 0.264432457 4.75988698 0.016704229 0.044573195 5.33E-06 5.273508875 -0.166560637 EREES(ph)EDELEEANGNNPIDIEVDQNK ddPTM_HeLa_SAHA_4h_R1 4 EREESEDELEEANGNNPIDIEVDQNK 26 1 Q9UKL0 Q9UKL0 RCOR1 REST corepressor 1 1 0 EREES(1)EDELEEANGNNPIDIEVDQNK;EREES(1)EDELEEANGNNPIDIEVDQNK;EREES(1)EDELEEANGNNPIDIEVDQNK;EREES(1)EDELEEANGNNPIDIEVDQNK ;;; 126.93 2.03E-08 268129000 6598.2 8084.2 6444.1 7564.6 8398.2 10207.9 8457 7122.5 10271.5 7303.5 TRUE FALSE FALSE 7292.22895 8346.133384 7322.268389 7711.023772 7754.73173 9338.129492 7505.396102 6940.316763 10200.0198 7618.389627 0.957187714 1.095524618 0.961130731 1.012159282 1.017896447 1.225735352 0.985168319 0.91099525 1.338868225 1 12.89527036 -7.298636794 24.96686966 0.979783087 1.031843121 0 0.139239325 1101.875869 739575.3151 0.013768407 0.015744962 5.03E-08 7.298636794 0.052060034 EREES(ph)EDELEEANGNNPIDIEVDQNKESK ddPTM_HeLa_SAHA_4h_R1 3 EREESEDELEEANGNNPIDIEVDQNKESK 29 2 Q9UKL0 Q9UKL0 RCOR1 REST corepressor 1 1 0 EREES(1)EDELEEANGNNPIDIEVDQNKESK;EREES(1)EDELEEANGNNPIDIEVDQNKESK;EREES(1)EDELEEANGNNPIDIEVDQNKESK ;; 112.65 6.77E-10 52311000 4993.4 5008.8 5298.1 5546.6 5803 5901 6485.1 6796.6 4644.4 5799.6 TRUE FALSE FALSE 5518.628723 5171.088406 6020.097477 5653.962464 5358.375394 5398.201602 5755.37948 6622.752813 4612.079242 6049.649139 0.91222294 0.854774928 0.995115144 0.934593451 0.88573325 0.892316476 0.951357566 1.094733374 0.76237136 1 12.56263576 -2.907923684 16.2880513 0.949371505 0.946183956 0 0.088662743 0 0 0.008955129 0 0.001236165 2.907923684 -0.003187549 EREES(ph)EDELEEANGNNPIDIEVDQNKESKK ddPTM_HeLa_SAHA_4h_R1 2 EREESEDELEEANGNNPIDIEVDQNKESKK 30 3 Q9UKL0 Q9UKL0 RCOR1 REST corepressor 1 1 0 EREES(1)EDELEEANGNNPIDIEVDQNKESKK;EREES(1)EDELEEANGNNPIDIEVDQNKESKK ; 106.27 1.29E-09 39205000 4122.7 1975.6 4085.6 2963.4 3481.3 2555.77 3693.9 3980.6 1581.08 3461.3 TRUE FALSE FALSE 4556.344502 2039.610736 4642.364291 3020.760892 3214.563546 2338.004018 3278.25265 3878.782016 1570.077136 3610.533582 1.261958765 0.564905627 1.28578344 0.836652208 0.890329219 0.64755083 0.907969023 1.074296064 0.434860139 1 11.81799635 -7.301066603 24.99854852 1.12370274 0.891951397 0 0.294496594 576.1528416 363460.5058 0.034069628 0.038960399 5.00E-08 7.301066603 -0.231751343 ERELEEAR ddPTM_HeLa_SAHA_4h_R1 2 ERELEEAR 8 1 Q9Y490;Q9Y4G6;H0YMT1;A0A1B0GVU7 Q9Y490;Q9Y4G6 TLN1;TLN2 Talin-1;Talin-2 0 0 ; ; 120.87 0.0033608 2409600 1911.84 1754.29 1597.41 2004.71 1912.47 1839.54 2035.79 1913.6 1831.68 1929.45 FALSE FALSE TRUE 2112.936103 1811.130147 1815.096716 2043.514061 1765.936962 1682.800843 1806.717551 1864.652883 1818.93319 2012.638032 1.049834133 0.899878725 0.901849556 1.015341074 0.877424024 0.836116985 0.897686282 0.92647205 0.903755748 1 10.97487202 -7.255747396 24.88154439 1.023532786 0.907412458 0.187467816 0.058110756 231.6485987 1012613.299 0.007909349 0.009544251 5.55E-08 7.255747396 -0.116120327 EREPEAASSRGS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 1 EREPEAASSRGSPVR 15 2 F8WC91;B9A018;Q53GS9-3;Q53GS9 F8WC91 USP39 U4/U6.U5 tri-snRNP-associated protein 2 1 0 EREPEAAS(0.004)S(0.175)RGS(0.821)PVR 59.75 0.01646 18619000 944.27 691.34 851.09 1016.1 941.66 924.36 1083.7 854.62 566.79 814.21 TRUE FALSE FALSE 1043.592651 713.7398696 967.0721129 1035.768085 869.5102142 845.5993277 961.7592239 832.7600579 562.8456622 849.3145777 1.228746896 0.840371622 1.138650081 1.219534095 1.023778747 0.99562559 1.132394579 0.980508377 0.662705759 1 9.730155203 EREQQIEEHRR ddPTM_HeLa_SAHA_4h_R1 1 EREQQIEEHRR 11 2 Q16643;Q16643-2;Q16643-3;D6R9W4 Q16643 DBN1 Drebrin 0 0 71.555 0.01785 437140 211.81 154.23 51.799 307.45 173.46 194.19 265.69 144.07 141.53 138.56 FALSE FALSE TRUE 234.0891476 159.2271532 58.85789796 313.4011393 160.1695323 177.6439195 235.7938619 140.384898 140.5450812 144.5339997 1.619613019 1.101658804 0.407225276 2.168355819 1.108178924 1.229080492 1.631407575 0.971293248 0.972401521 1 7.175265097 -6.251297378 24.99767155 1.222303293 1.405200738 0.094557178 0.434709483 2229.071139 5494139.533 0.067229065 0.110617144 5.61E-07 6.251297378 0.182897445 ERESSANNSVS(ph)PSESLR ddPTM_HeLa_SAHA_4h_R1 4 ERESSANNSVSPSESLR 17 1 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726 H0YKH0 TLE3 Transducin-like enhancer protein 3 1 0 ERESSANNS(0.129)VS(0.87)PS(0.001)ESLR;ERESSANNS(0.002)VS(0.997)PS(0.001)ESLR;ERESSANNSVS(1)PSESLR;ERESSANNS(0.019)VS(0.973)PS(0.006)ES(0.002)LR ;;; 225.17 5.59E-27 107871000 3923.23 3684.74 3219.31 3949.59 4349.61 4896.49 4801.53 4284.13 4470.01 4090.81 TRUE FALSE FALSE 4335.893332 3804.127994 3658.020801 4026.040026 4016.343821 4479.281505 4261.249207 4174.548158 4438.902836 4267.184839 1.016101598 0.891484231 0.857244516 0.943488547 0.941216276 1.04970412 0.998609005 0.978290914 1.040241518 1 12.05906889 -7.329132952 24.99753439 1.007603562 0.952706269 0.256832394 0.051423311 229.9238785 84904.43003 0.009495407 0.010858414 4.69E-08 7.329132952 -0.054897293 EREVDEDS(ph)EPER ddPTM_HeLa_SAHA_4h_R1 2 EREVDEDSEPER 12 1 F8WC91;B9A018;Q53GS9-3;Q53GS9 F8WC91 USP39 U4/U6.U5 tri-snRNP-associated protein 2 1 0 EREVDEDS(1)EPER;EREVDEDS(1)EPER ; 171.11 0.00030305 13789200 1779.91 2076.24 1212.33 2064.64 2387.6 2555.87 1941.62 1895.99 2661.1 1684.3 TRUE FALSE FALSE 1967.1291 2143.511538 1377.540019 2104.604093 2204.662604 2338.095497 1723.143808 1847.493321 2642.581188 1756.918416 1.11964738 1.220040452 0.784066014 1.197895175 1.254846317 1.330793437 0.980776223 1.051553279 1.504100113 1 10.77883148 EREVDEDS(ph)EPEREVR ddPTM_HeLa_SAHA_4h_R1 2 EREVDEDSEPEREVR 15 2 F8WC91;B9A018;Q53GS9-3;Q53GS9 F8WC91 USP39 U4/U6.U5 tri-snRNP-associated protein 2 1 0 EREVDEDS(1)EPEREVR;EREVDEDS(1)EPEREVR ; 129.42 0.00022971 27170400 3173.6 2302.07 2473.9 3189.5 2745.2 2978.7 3139 3533.9 2175.91 2488.5 TRUE FALSE FALSE 3507.413809 2376.658578 2811.030208 3251.237385 2534.863369 2724.898002 2785.791459 3443.507955 2160.767665 2595.791413 1.351192469 0.915581493 1.082918371 1.252503328 0.976528143 1.049736889 1.073195421 1.326573444 0.832411901 1 11.34195874 -7.258452334 24.98942444 1.165840884 1.094845912 0 0.173311131 827.2555608 6920788.139 0.027965286 0.03349244 5.52E-08 7.258452334 -0.070994973 ERHCWT(ph)SKNY(ph)K ddPTM_HeLa_SAHA_4h_R1 1 ERHCWTSKNYK 11 2 Q5T0J7-2 Q5T0J7-2 2 0 ERHCWT(0.528)S(0.528)KNY(0.944)K 68.224 0.0087803 0 918.03 1056.9 925.83 979.2 1173.6 1447.1 971.83 887.8 1279.3 957.44 TRUE FALSE FALSE 1014.592607 1091.144253 1051.997291 998.1538319 1083.679022 1323.798939 862.4771307 865.0913615 1270.397247 998.719924 1.015893028 1.092542791 1.053345653 0.999433182 1.085067991 1.325495674 0.863582582 0.866200164 1.272025537 1 9.963936342 ERKPS(ph)AEMNR ddPTM_HeLa_SAHA_4h_R1 1 ERKPSAEMNR 10 2 K7EP18;Q96JZ2-2;Q96JZ2 K7EP18 HSH2D Hematopoietic SH2 domain-containing protein 1 0 ERKPS(1)AEMNR 74.376 0.012393 8946200 1696.7 1276.1 1743.3 2060.5 1688.7 2054.6 1999.6 1435.8 1416 1390.6 TRUE FALSE FALSE 1875.166691 1317.446477 1980.867845 2100.383957 1559.312171 1879.536521 1774.599745 1399.074315 1406.145941 1450.555571 1.292723097 0.908235784 1.365592525 1.44798586 1.074975824 1.295735619 1.223393147 0.964509284 0.969384399 1 10.50238985 -9.486859085 1.097505297 0.99389435 1.210847398 0.205724637 0.163289993 0.725830301 1.49039816 0.126775871 0.027539937 3.26E-10 9.486859085 0.216953048 ERLDGENIY(ph)IR ddPTM_HeLa_SAHA_4h_R1 2 ERLDGENIYIR 11 1 P11171;P11171-2;P11171-4;P11171-7;P11171-3;A0A2R8Y5Z6;A0A2R8Y420;A0A2R8Y5G2;A0A2R8YD30;Q4VB86;A0A2R8YCW8;A0A2R8Y5C8 P11171 EPB41 Protein 4.1 1 0 ERLDGENIY(1)IR;ERLDGENIY(1)IR ; 141.71 0.0011825 3709900 660.9 569.74 332.72 527.42 943.92 720.16 720.17 1065.29 1046.29 589.01 TRUE FALSE FALSE 730.4164943 588.1999498 378.0613489 537.6289768 871.5970535 658.7983165 639.1345762 1038.041424 1039.008783 614.4051036 1.188819054 0.957348737 0.615329115 0.875039894 1.418603212 1.072253978 1.040249458 1.689506513 1.691080977 1 9.26304639 -4.260621349 23.9212957 1.054563176 1.689506849 0.276014249 0.281745543 26.45344442 773300.7888 0.028668852 0.231146575 5.49E-05 4.260621349 0.634943673 ERLDQPMTEIVSR ddPTM_HeLa_SAHA_4h_R1 2 ERLDQPMTEIVSR 13 1 P22314-2;P22314;Q5JRR6 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 ; ; 105.66 0.0031711 9216300 2352.76 2601.8 2264 2744.1 2526.6 2758.3 2563.6 2740.3 2249.9 2534.9 FALSE FALSE TRUE 2600.234092 2686.100027 2572.52613 2797.216024 2333.012454 2523.277322 2275.136981 2670.207094 2234.242763 2644.191944 0.983375695 1.015849108 0.972896894 1.057871774 0.882315847 0.954271617 0.860428074 1.009838601 0.844962397 1 11.36861119 -5.751706037 24.99999751 0.99644504 0.923947299 0.102360822 0.064729808 141.6571316 363842.2311 0.00552404 0.010939448 1.77E-06 5.751706037 -0.072497741 ERLELCDER ddPTM_HeLa_SAHA_4h_R1 1 ERLELCDER 9 1 P07919 P07919 UQCRH "Cytochrome b-c1 complex subunit 6, mitochondrial" 0 0 112.3 0.0084543 6479900 1736.3 2225.6 2297.5 1464.2 2139 2394.4 2814.2 1456.2 1704.9 1798.4 FALSE FALSE TRUE 1918.932 2297.7109 2610.591335 1492.541708 1975.110282 2190.383649 2497.538809 1418.952513 1693.035462 1875.937825 1.022918763 1.224833184 1.391619328 0.795624294 1.052865535 1.1676206 1.33135479 0.756396344 0.90250084 1 10.8733963 -7.485418923 22.52653476 1.010111048 1.112420708 0.072792024 0.195936193 332.670279 200055.297 0.031761817 0.035548317 3.27E-08 7.485418923 0.10230966 ERLGS(ph)FGSITR ddPTM_HeLa_SAHA_4h_R1 4 ERLGSFGSITR 11 1 Q14315-2;Q14315 Q14315-2 FLNC Filamin-C 1 0 ERLGS(0.991)FGS(0.009)ITR;ERLGS(1)FGSITR;ERLGS(1)FGSITR;ERLGS(1)FGSITR ;;; 133.04 0.0022141 125260000 7047.63 4608.18 5134.65 7557.4 6506.6 5784.34 6098.42 6834.12 6181.92 5607.89 TRUE FALSE FALSE 7788.932059 4757.488056 5834.373362 7703.684405 6008.065714 5291.48169 5412.209731 6659.313106 6138.899515 5849.673582 1.331515673 0.813291201 0.997384432 1.316942612 1.027077089 0.904577258 0.925215682 1.138407641 1.049443089 1 12.51414041 -5.536538288 24.98138189 1.130096648 0.980122608 0.02414689 0.158324167 362.0544428 662145.5954 0.026270444 0.052561561 2.91E-06 5.536538288 -0.14997404 ERLNS(ph)SENGEDR ddPTM_HeLa_SAHA_4h_R1 2 ERLNSSENGEDR 12 1 Q7L4I2;H0YGP9;E1B6W4;Q7L4I2-2 Q7L4I2 RSRC2 Arginine/serine-rich coiled-coil protein 2 1 0 ERLNS(0.5)S(0.5)ENGEDR;ERLNS(0.75)S(0.25)ENGEDR ; 146.84 0.0020171 7319500 2046.4 1894.83 1791.19 2039.87 2100.13 2484.3 2274.22 2078.95 2276.47 1881.84 TRUE FALSE FALSE 2261.649741 1956.223735 2035.284045 2079.354634 1939.218493 2272.623664 2018.31878 2025.773469 2260.62786 1962.975332 1.152153929 0.996560529 1.036836282 1.059287195 0.987897536 1.157744383 1.028193654 1.031991302 1.151633351 1 10.93882633 ERPDLEAPAPGS(ph)PFR ddPTM_HeLa_SAHA_4h_R1 2 ERPDLEAPAPGSPFR 15 1 H0YBA8;Q9NQT8-2;Q9NQT8 H0YBA8 KIF13B Kinesin-like protein KIF13B 1 0 ERPDLEAPAPGS(1)PFR;ERPDLEAPAPGS(1)PFR ; 114.56 0.00082867 24588000 1980.01 1773.95 1886.98 2092.89 1690.64 2177.68 1995.7 2052.67 2198.51 2090 TRUE FALSE FALSE 2188.276536 1831.427144 2144.127807 2133.400912 1561.103528 1992.129413 1771.138584 2000.165674 2183.21039 2180.110128 1.00374587 0.840061757 0.983495182 0.978574837 0.716066362 0.91377467 0.812407851 0.917460842 1.001422067 1 11.0901853 -6.662751945 0.734572339 1.004264145 0.850202563 0.335987569 0.07600469 0.455791594 0.496489899 0.016198328 0.029086119 2.17E-07 6.662751945 -0.154061581 ERPISMINEASNYNVTSDYAVHPMS(ph)PVGR ddPTM_HeLa_SAHA_4h_R1 2 ERPISMINEASNYNVTSDYAVHPMSPVGR 29 1 B4DJX4;Q9HAU0-8;Q9HAU0;Q9HAU0-2;Q9HAU0-4;Q9HAU0-6;Q9HAU0-5;Q9HAU0-3;F5H1X3 B4DJX4 PLEKHA5 Pleckstrin homology domain-containing family A member 5 1 0 ERPISMINEASNYNVTSDYAVHPMS(1)PVGR;ERPISMINEAS(0.001)NY(0.005)NVT(0.015)S(0.041)DY(0.103)AVHPMS(0.835)PVGR ; 124.31 1.21E-11 16417600 613.82 545.95 725.63 590.79 880.91 1075.36 715.59 751.97 601.97 719.23 TRUE FALSE FALSE 678.3844039 563.6391382 824.5150775 602.2255947 813.4148661 983.7332782 635.0699299 732.7356962 597.7808418 750.2395251 0.904223759 0.751278917 1.099002452 0.8027111 1.084206895 1.311225609 0.846489566 0.976669013 0.796786655 1 9.551207461 -5.704021078 24.9996948 0.939275924 1.058106592 0.184458613 0.148623397 126.2267533 54957.58492 0.020079503 0.040158996 1.98E-06 5.704021078 0.118830668 ERPLQQVS(ph)PVASVPWR ddPTM_HeLa_SAHA_4h_R1 1 ERPLQQVSPVASVPWR 16 1 Q9BY89 Q9BY89 KIAA1671 Uncharacterized protein KIAA1671 1 0 ERPLQQVS(0.998)PVAS(0.002)VPWR 131.31 7.78E-05 24342000 850.22 1002.7 979.77 1140.3 1121.1 1037.1 950.84 947.35 1003.5 1020.9 TRUE FALSE FALSE 939.6500405 1035.188138 1113.287953 1162.372155 1035.20156 948.7332454 843.8489807 923.1181587 996.5165618 1064.915995 0.882370107 0.972084317 1.045423262 1.09151535 0.972096921 0.890899611 0.792408964 0.866845989 0.935770114 1 10.05652391 -5.052892919 3.645773979 0.96579006 0.830331091 0.526624944 0.058530856 0.18451546 4.925387254 0.010398237 0.030643537 8.85E-06 5.052892919 -0.135458969 ERPS(ph)SAIYPSDSFR ddPTM_HeLa_SAHA_4h_R1 1 ERPSSAIYPSDSFR 14 1 V9GYM8;A0A5F9ZI21;Q92974-3;Q92974-2;Q92974;V9GYF5;V9GYG5;V9GZ14 V9GYM8 ARHGEF2 Rho guanine nucleotide exchange factor 2 1 0 ERPS(0.846)S(0.154)AIYPSDSFR 139 0.0011303 11667000 1073.7 1006.2 646.6 1130.7 1626.7 1078.6 1530.4 2048.9 1343.5 871.55 TRUE FALSE FALSE 1186.636692 1038.80154 734.7152807 1152.586334 1502.062597 986.697212 1358.195364 1996.492105 1334.150474 909.1267858 1.305248851 1.142636601 0.808154915 1.267794934 1.652203654 1.085324102 1.493955943 2.196054649 1.467507607 1 9.828337695 -1.000000114 0.754611065 1.142097446 191.6753919 0.613012842 0.23100295 163.9589999 0.652143821 0.035503256 53186.17017 0.099999974 1.000000114 190.5332945 ERPSGPES(ph)PVQGPR ddPTM_HeLa_SAHA_4h_R1 2 ERPSGPESPVQGPR 14 1 A0A669KBI7;Q9UMN6 A0A669KBI7 KMT2B Histone-lysine N-methyltransferase 2B 1 0 ERPS(0.001)GPES(0.999)PVQGPR;ERPS(0.009)GPES(0.991)PVQGPR ; 149.42 4.91E-05 30557000 2475.6 2117.57 2208.9 2389.7 2084 2122.1 2604.8 2291.4 2907.4 2671.4 TRUE FALSE FALSE 2735.994966 2186.180657 2509.917389 2435.956099 1924.32437 1941.285141 2311.701049 2232.789306 2887.167167 2786.577128 0.981847924 0.784539798 0.900716999 0.874175014 0.690569212 0.696655808 0.829584448 0.801265927 1.036098064 1 11.44427837 -6.936305681 0.811885926 0.999878192 0.765548644 0.683200571 0.064855134 0.234758979 0.311210593 0.014703506 0.021384349 1.16E-07 6.936305681 -0.234329549 ERPSS(ph)AIYPSDSFR ddPTM_HeLa_SAHA_4h_R1 1 ERPSSAIYPSDSFR 14 1 V9GYM8;A0A5F9ZI21;Q92974-3;Q92974-2;Q92974;V9GYF5;V9GYG5;V9GZ14 V9GYM8 ARHGEF2 Rho guanine nucleotide exchange factor 2 1 0 ERPS(0.085)S(0.915)AIYPSDSFR 145.94 0.00049577 13547000 1025.3 1218 752.89 1212.8 2114 1044.4 1690.1 2028.9 1589.2 1161.3 TRUE FALSE FALSE 1133.145758 1257.463999 855.4899283 1236.275498 1952.025777 955.4112444 1499.9255 1977.003676 1578.140628 1211.369326 0.9354255 1.038051709 0.706217262 1.020560345 1.61142084 0.788703514 1.238206604 1.632040397 1.302774136 1 10.24242307 -1 0.601995403 0.970920575 41.17104274 0.294113806 0.251569681 113.3953288 0.802920776 0.038388625 6017.723105 0.1 1 40.20012216 ERPVQS(ph)LKT(ph)SRDTSPSSGSAVSSSK ddPTM_HeLa_SAHA_4h_R1 1 ERPVQSLKTSRDTSPSSGSAVSSSK 25 3 F8WF16;B7Z8L1;F8W6A0;F8W0Q9;Q8NEY8-5;Q8NEY8-6;Q8NEY8-9;Q8NEY8-8;Q8NEY8-2;Q8NEY8-3;Q8NEY8;Q8NEY8-7 F8WF16 PPHLN1 Periphilin-1 2 0 ERPVQS(0.596)LKT(0.603)S(0.606)RDT(0.099)S(0.035)PS(0.018)S(0.038)GS(0.003)AVS(0.001)S(0.001)SK 49.638 0.0089727 27712000 3390.8 2165.8 2945.1 3175.1 2909.5 2777 3132.7 3231.5 1989.7 2361 TRUE FALSE FALSE 3747.459902 2235.973341 3346.442891 3236.558652 2686.574739 2540.383977 2780.200351 3148.842909 1975.853516 2462.794264 1.521629295 0.907900986 1.358799206 1.314181496 1.090864461 1.031504748 1.128880472 1.278565146 0.802281191 1 11.2660804 -5.747506218 24.8350041 1.237472349 1.124987826 0 0.221191338 572.6237922 1020660.261 0.032200735 0.064140929 1.79E-06 5.747506218 -0.112484523 ERPVQS(ph)LKTSRDT(ph)SPSSGSAVSSSK ddPTM_HeLa_SAHA_4h_R1 1 ERPVQSLKTSRDTSPSSGSAVSSSK 25 3 F8WF16;B7Z8L1;F8W6A0;F8W0Q9;Q8NEY8-5;Q8NEY8-6;Q8NEY8-9;Q8NEY8-8;Q8NEY8-2;Q8NEY8-3;Q8NEY8;Q8NEY8-7 F8WF16 PPHLN1 Periphilin-1 2 0 ERPVQS(0.443)LKT(0.445)S(0.445)RDT(0.524)S(0.108)PS(0.015)S(0.013)GS(0.004)AVS(0.001)S(0.001)SK 42.806 0.020811 22376000 5865.8 4140.5 5402.4 5352.7 5064.1 4900.6 5973.2 6402.8 3987.3 4865.6 TRUE FALSE FALSE 6482.791757 4274.654917 6138.610938 5456.309249 4676.089752 4483.04131 5301.079815 6239.025647 3959.552055 5075.379828 1.277301794 0.8422335 1.209487988 1.075054367 0.921328041 0.883291785 1.044469576 1.229272657 0.780148913 1 12.30930008 -5.991102317 24.28049411 1.114638537 1.009951849 0 0.175463843 282.8195746 771764.029 0.023102371 0.041827499 1.02E-06 5.991102317 -0.104686688 ERQAQAQES(ph)EEEEESR ddPTM_HeLa_SAHA_4h_R1 4 ERQAQAQESEEEEESR 16 1 H0YLQ7;Q9NVM6 H0YLQ7 DNAJC17 DnaJ homolog subfamily C member 17 1 0 ERQAQAQES(0.93)EEEEES(0.07)R;ERQAQAQES(1)EEEEESR;ERQAQAQES(0.992)EEEEES(0.008)R;ERQAQAQES(0.95)EEEEES(0.05)R ;;; 122.19 8.07E-05 13262200 2708.15 2159.008 3027.14 6951.456 2745.455 3646.61 2968.55 4251.59 4449.78 3792.44 TRUE FALSE FALSE 2993.005642 2228.961276 3439.662875 7086.011483 2535.098831 3335.898313 2634.520941 4142.840484 4418.813619 3955.950648 0.75658316 0.563445168 0.869490846 1.791228484 0.640831764 0.843260852 0.665964057 1.047242712 1.117004233 1 11.94980871 ERQDNPK(ac)LDSMR ddPTM_HeLa_SAHA_4h_R1 3 ERQDNPKLDSMR 12 2 Q6IN85-4;Q6IN85-2;Q6IN85;G3V5Z3 Q6IN85-4 SMEK1 Serine/threonine-protein phosphatase 4 regulatory subunit 3A 0 1 ;; ERQDNPK(1)LDSMR;ERQDNPK(1)LDSMR;ERQDNPK(1)LDSMR 112.84 0.0019105 7500100 1277.56 1305.33 1433.93 1352.596 1694.42 1589.73 1884.39 1950.09 1611.37 1213.32 FALSE TRUE FALSE 1411.939622 1347.623548 1629.338513 1378.777451 1564.593906 1454.27606 1672.353478 1900.209521 1600.156345 1265.632163 1.115600301 1.06478295 1.287371292 1.08939824 1.236215349 1.149051125 1.321358232 1.501391618 1.264313907 1 10.30564245 -1 0.251039678 1.026066697 3.705022592 0.465215217 0.10310794 16.885119 0.210917145 0.039651298 19.35698538 0.1 1 2.678955895 ERQEAEEAKEALLQASR ddPTM_HeLa_SAHA_4h_R1 2 ERQEAEEAKEALLQASR 17 2 P26038 P26038 MSN Moesin 0 0 ; ; 74.853 0.0070327 15094000 2195.66 1949.55 2927.4 1955.02 2627.1 1951.75 2908.18 2421.54 1552.73 2277.32 FALSE FALSE TRUE 2426.609593 2012.716699 3326.330827 1992.862239 2425.812166 1785.44992 2580.943932 2359.600513 1541.924426 2375.50641 1.021512543 0.847279001 1.400261777 0.838921011 1.021176855 0.751608125 1.086481569 0.993304208 0.649092934 1 11.21401938 ERQTNPSAMEVEEDDPVPEIR ddPTM_HeLa_SAHA_4h_R1 1 ERQTNPSAMEVEEDDPVPEIR 21 1 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 96.455 0.00033304 3768500 1029 900.78 1172 1251.2 1326 3662.8 1336.5 1389.9 1427.6 1347.7 FALSE FALSE TRUE 1137.234941 929.965863 1331.714056 1275.418785 1224.402166 3350.708834 1186.113503 1354.348371 1417.665215 1405.805942 0.80895585 0.661517948 0.947295794 0.907250956 0.870961012 2.383478923 0.843724917 0.96339639 1.008435925 1 10.45718174 -5.417057842 21.25225555 0.889100199 1.38916572 0.260056031 0.394506689 9.839777294 1968.075454 0.053092337 0.118718136 3.83E-06 5.417057842 0.500065521 ERQTNPSAMEVEEDDPVPEIRR ddPTM_HeLa_SAHA_4h_R1 2 ERQTNPSAMEVEEDDPVPEIRR 22 2 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 ; ; 63.488 0.0023407 6887100 782.28 828.48 691.65 764.11 968.44 940.61 1059.48 764.48 561.48 673.51 FALSE FALSE TRUE 864.5637996 855.3232956 785.90446 778.900454 894.2383364 860.4647363 940.264522 744.9257086 557.572615 702.5483122 1.230611169 1.217458331 1.118648279 1.108678849 1.272849598 1.224776604 1.338362794 1.060319548 0.793643092 1 9.456453628 -9.326531291 0.784990166 0.983389301 1.202705212 0.528140683 0.103180573 0.535155605 0.518519956 0.076301035 0.015139077 4.71E-10 9.326531291 0.219315911 ERS(ph)MSENAVR ddPTM_HeLa_SAHA_4h_R1 2 ERSMSENAVR 10 1 Q9GZY8-5;C9JHF5;H7C433;A0A0A0MS29;Q9GZY8-4;Q9GZY8-3;Q9GZY8-2;Q9GZY8 Q9GZY8-5 MFF Mitochondrial fission factor 1 0 ERS(0.897)MS(0.103)ENAVR;ERS(0.905)MS(0.095)ENAVR ; 116.03 0.016925 17025800 2625.7 4065 3859.2 2613.8 3748 3181.6 4871.2 3760.8 2171.77 4030.6 TRUE FALSE FALSE 2901.883173 4196.708667 4385.111678 2664.393879 3460.82905 2910.509781 4323.079756 3664.604182 2156.656476 4204.378891 0.690204962 0.998175658 1.042986798 0.633718784 0.823148707 0.692256777 1.028232675 0.871616064 0.512954834 1 12.03767697 -6.2706265 24.98199433 0.876030727 0.816142062 0 0.179235077 2305.277576 6268598.797 0.025260102 0.038928649 5.36E-07 6.2706265 -0.059888665 ERS(ph)PALKS(ph)PLQSVVVR ddPTM_HeLa_SAHA_4h_R1 1 ERSPALKSPLQSVVVR 16 2 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 2 0 ERS(1)PALKS(0.993)PLQS(0.007)VVVR 141.18 0.00080612 13765000 1562.7 1655.9 1603.1 1558.6 1657.5 1576.2 1564.4 1324.4 1819.9 1563.2 TRUE FALSE FALSE 1727.071956 1709.552246 1821.562119 1588.768957 1530.502708 1441.898893 1388.369595 1290.523766 1807.235168 1630.597202 1.059165288 1.048420937 1.117113483 0.974347898 0.938614825 0.884276565 0.851448532 0.791442402 1.108327161 1 10.67118473 -5.354163816 1.21743735 1.036100351 0.814343589 0.840370097 0.04181449 0.151926154 0.410280765 0.00629513 0.02538144 4.42E-06 5.354163816 -0.221756763 ERS(ph)PALKSPLQSVVVR ddPTM_HeLa_SAHA_4h_R1 1 ERSPALKSPLQSVVVR 16 2 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 ERS(1)PALKSPLQSVVVR 67.102 0.010608 12891000 2324.4 1816.2 2318.5 2499.7 2135 2149.3 2051.3 2459.4 1628.1 2128 TRUE FALSE FALSE 2568.891057 1875.046072 2634.453106 2548.085308 1971.416761 1966.167548 1820.482325 2396.492109 1616.76992 2219.748494 1.157289244 0.844711046 1.186825045 1.147916223 0.888126185 0.885761407 0.820129997 1.079623262 0.728357255 1 11.11618051 -5.748851579 24.97300143 1.070856239 0.909058102 0 0.154371976 207.4589916 411576.2577 0.016228135 0.032279704 1.78E-06 5.748851579 -0.161798137 ERS(ph)PGRLFEDSSR ddPTM_HeLa_SAHA_4h_R1 1 ERSPGRLFEDSSR 13 2 H7BYJ3;O14578;O14578-4;O14578-3 H7BYJ3 CIT Citron Rho-interacting kinase 1 0 ERS(1)PGRLFEDSSR 76.24 0.016365 15172000 488.02 484 612.71 425.2 482.26 616.52 635.04 557.51 407.21 542.39 TRUE FALSE FALSE 539.3521827 499.6819176 696.2069279 433.4303608 445.309343 563.9890276 563.5836279 543.2497015 404.3761925 565.7750873 0.953297865 0.883181195 1.230536557 0.766082443 0.787078387 0.996843163 0.996126624 0.960186678 0.714729583 1 9.144084842 ERS(ph)PPLSPEEK ddPTM_HeLa_SAHA_4h_R1 1 ERSPPLSPEEK 11 1 Q8N157;H0YEF1;H0Y343 Q8N157 AHI1 Jouberin 1 0 ERS(1)PPLSPEEK 99.927 0.0049249 10131000 2445.4 2841.1 2063.6 2634.4 2587.1 2996.9 2956.8 3005.4 2475.2 2524.3 TRUE FALSE FALSE 2702.618392 2933.153504 2344.816661 2685.392621 2388.876957 2741.54726 2624.093082 2928.52622 2457.974882 2633.134927 1.026388114 1.11393969 0.890503801 1.01984619 0.90723682 1.041172343 0.996566129 1.112182361 0.933478515 1 11.36256573 -4.258285723 24.32061384 1.005924663 1.11218242 0.211574425 0.064772372 231.2381132 1783144.169 0.007687037 0.072660942 5.52E-05 4.258285723 0.106257757 ERS(ph)PSPPTIQSK ddPTM_HeLa_SAHA_4h_R1 1 ERSPSPPTIQSK 12 1 H7C3B5;Q14687-2;Q14687-3;Q14687;H0Y613 H7C3B5 GSE1 Genetic suppressor element 1 1 0 ERS(0.996)PS(0.004)PPTIQSK 88.021 0.0085195 4570200 2483.4 2131.1 1989.5 2230.9 2518.6 2575.7 2760.6 2353.1 2492.1 2376.9 TRUE FALSE FALSE 2744.615406 2200.149038 2260.618699 2274.082295 2325.625412 2356.23587 2449.970022 2292.911109 2474.757273 2479.379791 1.106976598 0.88737879 0.911767817 0.917198044 0.937986758 0.950332772 0.988138256 0.924792207 0.998135615 1 11.27576356 -7.258227975 24.99995081 1.050516727 0.933007983 0.598914948 0.038338426 146.5605633 1140937.929 0.007870939 0.009427228 5.52E-08 7.258227975 -0.117508744 ERS(ph)RT(ph)GSESS(ph)QTGTSTTSSR ddPTM_HeLa_SAHA_4h_R1 1 ERSRTGSESSQTGTSTTSSR 20 2 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 3 0 ERS(0.938)RT(0.908)GS(0.449)ES(0.219)S(0.415)QT(0.027)GT(0.022)S(0.012)T(0.005)T(0.004)S(0.001)S(0.001)R 51.16 0.020457 6029700 1055.3 1053.3 989.64 980.92 1082.9 1357.9 1122.5 1362.9 537.44 868.41 TRUE FALSE FALSE 1166.301296 1087.427611 1124.502985 999.907125 999.9284359 1242.199281 996.1933457 1328.038991 533.6999113 905.851405 1.287519442 1.200448114 1.241376874 1.10383129 1.103854816 1.371305795 1.099731524 1.466067154 0.589169381 1 9.823130601 -9.3753495 0.980061834 0.993173746 1.229446773 0.414018601 0.17495608 0.484137158 0.793048352 0.083783085 0.019265964 4.21E-10 9.3753495 0.236273028 ERSDS(ph)GGSSSEPFDR ddPTM_HeLa_SAHA_4h_R1 4 ERSDSGGSSSEPFDR 15 1 P48634;P48634-2;P48634-3;P48634-4 P48634 PRRC2A Protein PRRC2A 1 0 ERS(0.021)DS(0.979)GGSSSEPFDR;ERS(0.001)DS(0.97)GGS(0.009)S(0.019)S(0.001)EPFDR;ERS(0.026)DS(0.974)GGSSSEPFDR;ERS(0.151)DS(0.749)GGS(0.062)S(0.019)S(0.019)EPFDR ;;; 155.26 0.0001111 67957000 2731.06 2801.44 2350.44 2679.36 2823.16 3323.44 3356.78 3095.09 3174.12 2819.29 TRUE FALSE FALSE 3018.325421 2892.208494 2670.745723 2731.222887 2606.850091 3040.264215 2979.06628 3015.922079 3152.03104 2940.843389 1.026346875 0.983462263 0.908156392 0.928720957 0.886429417 1.033806909 1.012997255 1.025529646 1.071811934 1 11.52201424 -7.006993997 24.45840908 1.012044898 0.964187292 0.231496244 0.050356253 334.4258914 1169511.449 0.008176901 0.010510325 9.84E-08 7.006993997 -0.047857606 ERSMS(ph)ENAVR ddPTM_HeLa_SAHA_4h_R1 1 ERSMSENAVR 10 1 Q9GZY8-5;C9JHF5;H7C433;A0A0A0MS29;Q9GZY8-4;Q9GZY8-3;Q9GZY8-2;Q9GZY8 Q9GZY8-5 MFF Mitochondrial fission factor 1 0 ERS(0.165)MS(0.835)ENAVR 131.17 0.0068496 13197000 1629.6 2513.5 2725.3 1210.1 2628.9 2162.1 3011.7 2464.1 1161 1915.2 TRUE FALSE FALSE 1801.008805 2594.939049 3096.689691 1233.523235 2427.47425 1977.876916 2672.81559 2401.07189 1152.920506 1997.773645 0.901507941 1.298915448 1.550070349 0.617448948 1.215089736 0.990040549 1.337897112 1.201873844 0.577102671 1 10.96417741 -7.275494992 24.26851914 0.953489857 1.167098259 0.231434611 0.260139313 723.5848687 1249343.61 0.038273006 0.043887462 5.30E-08 7.275494992 0.213608402 ERSSSCGSGGGGISPK ddPTM_HeLa_SAHA_4h_R1 1 ERSSSCGSGGGGISPK 16 1 F5H375;F5GWH4;Q96EP1-2;Q96EP1-4;Q96EP1 F5H375 CHFR E3 ubiquitin-protein ligase CHFR 0 0 92.247 0.0043075 0 167.55 229.55 513.73 748.13 599.98 820.07 464.8 428.05 548.12 663.23 FALSE FALSE TRUE 185.1736777 236.9875706 583.738449 762.611138 554.009662 750.1954224 412.4994807 417.1011008 544.3055883 691.8250911 0.267659673 0.342554171 0.843765941 1.102317837 0.800794405 1.084371515 0.596248222 0.602899644 0.786767631 1 9.434263528 -9.790093351 1.793061398 1.000533573 0.637199264 0.004681668 0.274050823 0.566620071 3.300270177 0.235964644 0.049709841 1.62E-10 9.790093351 -0.363334309 ERT(ph)SSLTQFPPSQSEER ddPTM_HeLa_SAHA_4h_R1 1 ERTSSLTQFPPSQSEER 17 1 B7Z7F3;Q9H6Z4-3;Q9H6Z4-2;Q9H6Z4 B7Z7F3 RANBP3 Ran-binding protein 3 1 0 ERT(0.504)S(0.139)S(0.341)LT(0.016)QFPPSQSEER 70.121 0.020347 3321300 402.88 413.62 551.12 482.68 480.29 649.68 618.78 495.91 575.7 568.97 TRUE FALSE FALSE 445.2567669 427.0215594 626.2237635 492.0229694 443.490284 594.323609 549.1532459 483.2253403 571.6936568 593.5010812 0.75022065 0.719495841 1.055135 0.829017815 0.747244273 1.001385891 0.925277583 0.814194541 0.963256302 1 9.213106848 -9.598019807 1.424624867 0.999199313 0.84480651 0.17968272 0.105601567 0.518309138 1.903026291 0.074982149 0.017748787 2.52E-10 9.598019807 -0.154392803 ERTDVIQGDDVADATSEVEVSSTSET(ph)TPK ddPTM_HeLa_SAHA_4h_R1 1 ERTDVIQGDDVADATSEVEVSSTSETTPK 29 1 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 1 0 ERTDVIQGDDVADATSEVEVS(0.003)S(0.003)T(0.003)S(0.017)ET(0.918)T(0.057)PK 159.96 3.37E-15 4410100 366.2 572.66 576.57 547.68 682.33 650.28 690.99 638.58 602.89 540.49 TRUE FALSE FALSE 404.7185962 591.2145597 655.141957 558.2811384 630.0500228 594.8724856 613.2379866 622.2460483 598.6944394 563.793169 0.717849414 1.048637323 1.162025354 0.990223311 1.117519788 1.055125387 1.087700278 1.103677878 1.061904387 1 9.139022188 -7.097018026 7.622534241 0.867001291 1.083693651 0.297672021 0.097576307 0.183935593 12.85748227 0.018100599 0.022209697 8.00E-08 7.097018026 0.21669236 ERVDDSTGTVIS(ph)DVEEDAGELSR ddPTM_HeLa_SAHA_4h_R1 3 ERVDDSTGTVISDVEEDAGELSR 23 1 Q9Y2D8-2;Q9Y2D8-3;Q9Y2D8;S4R403 Q9Y2D8-2 SSX2IP Afadin- and alpha-actinin-binding protein 1 0 ERVDDSTGT(0.001)VIS(0.999)DVEEDAGELSR;ERVDDSTGTVIS(1)DVEEDAGELSR;ERVDDSTGTVIS(0.999)DVEEDAGELS(0.001)R ;; 187.89 1.58E-15 33576400 1435.96 1281.24 1372.28 1428.02 1784.04 1653.58 1770.35 1406.15 1615.79 1285.02 TRUE FALSE FALSE 1587.000861 1322.753017 1559.287172 1455.661392 1647.347241 1512.685681 1571.145559 1370.182719 1604.545586 1340.423501 1.183954817 0.986817238 1.163279494 1.085971255 1.2289752 1.12851325 1.17212624 1.022201355 1.197043759 1 10.38847317 -9.500807169 1.157134022 0.997548041 1.129421202 0 0.09287591 0.471792429 1.09572452 0.051472698 0.011547701 3.16E-10 9.500807169 0.131873161 ERVPS(ph)VAEAPQLRPAGTAAAK ddPTM_HeLa_SAHA_4h_R1 1 ERVPSVAEAPQLRPAGTAAAK 21 2 Q63ZY3-3;Q63ZY3;Q63ZY3-2 Q63ZY3-3 KANK2 KN motif and ankyrin repeat domain-containing protein 2 1 0 ERVPS(0.909)VAEAPQLRPAGT(0.091)AAAK 65.278 0.004824 15161000 881.48 907.34 631.32 899.33 929.96 1012.8 1174.9 1224.5 819.94 921.17 TRUE FALSE FALSE 974.1981108 936.7384113 717.3530018 916.7378326 858.7066657 926.5037421 1042.69716 1193.179063 814.2339708 960.8861468 1.013853841 0.974869306 0.746553589 0.954054584 0.893661199 0.964218024 1.085141214 1.241748637 0.847378197 1 9.908221689 -4.424236564 2.425226839 0.971810959 1.259693112 0.529283588 0.087050793 0.258109349 2.309401436 0.012212478 0.13178248 3.76E-05 4.424236564 0.287882153 ES(ph)EELLK ddPTM_HeLa_SAHA_4h_R1 2 ESEELLK 7 0 O43303-2;O43303 O43303-2 CCP110 Centriolar coiled-coil protein of 110 kDa 1 0 ES(1)EELLK;ES(1)EELLK ; 111.06 0.0076347 28525000 3026.9 3814.5 2867.1 3393.3 5118.8 5302.6 5930 5913.6 6778.5 4738.6 TRUE FALSE FALSE 3345.28323 3938.092303 3257.813457 3458.982228 4726.59865 4850.788648 5262.740793 5762.338675 6731.327867 4942.904236 0.676784957 0.796716286 0.659088929 0.699787425 0.956239171 0.981364076 1.064706201 1.165779954 1.361816362 1 12.27114324 -5.079975802 1.513583542 0.816872651 1.133071373 0.154936976 0.200628105 0.339753004 1.407690872 0.021677633 0.099968174 8.32E-06 5.079975802 0.316198722 ES(ph)HTPVSIQEEIVGDFK ddPTM_HeLa_SAHA_4h_R1 2 ESHTPVSIQEEIVGDFK 17 0 E7ETD6;E9PE19;A0A2R8Y7Q1;Q12830-4;Q12830;A0A0A0MR81;F5H176 E7ETD6 BPTF Nucleosome-remodeling factor subunit BPTF 1 0 ES(0.594)HT(0.406)PVSIQEEIVGDFK;ES(0.547)HT(0.437)PVS(0.017)IQEEIVGDFK ; 169.62 5.21E-07 4889200 4467.1 6171.8 3731.36 5371 5331 651.83 5562.8 5124.9 7779.8 6322.3 TRUE FALSE FALSE 4936.970074 6371.770369 4239.850309 5474.963472 4922.539932 596.2904169 4936.859104 4993.812479 7725.659738 6594.885294 0.748605905 0.966168491 0.642899781 0.830183275 0.746417824 0.090417102 0.748589078 0.75722507 1.171462337 1 12.68713185 -7.601828207 0.222950806 1.082332494 0.504724394 0.374269154 0.214572098 2.257803254 0.46246159 0.523518237 0.440198223 2.50E-08 7.601828207 -0.5776081 ES(ph)MFS(ph)SPAEAALQRETGVPGLLTPLPDLDGVY(ph)ELER ddPTM_HeLa_SAHA_4h_R1 1 ESMFSSPAEAALQRETGVPGLLTPLPDLDGVYELER 36 1 E9PJH6;E9PLL2;E9PMH7;Q9BQC3-2;Q9BQC3 E9PJH6 DPH2 Diphthamide biosynthesis protein 2 3 0 ES(0.92)MFS(0.537)S(0.537)PAEAALQRET(0.007)GVPGLLT(0.008)PLPDLDGVY(0.991)ELER 40.986 0.013153 6128700 619.88 718.61 729.04 833.86 1367.8 1367.3 809.29 748.24 835.13 913.26 TRUE FALSE FALSE 685.0818225 741.8934355 828.3897745 850.0005661 1262.999459 1250.798348 718.2265593 729.1011042 829.3182623 952.635108 0.719144 0.778780279 0.869577205 0.892262482 1.325795626 1.312987877 0.753936689 0.765351915 0.870551857 1 9.895779908 -5.97416615 24.99575398 0.857180038 1.047449969 0.186806581 0.189643494 331.8753317 321107.1042 0.031533514 0.057158134 1.06E-06 5.97416615 0.190269931 ES(ph)MIPITR ddPTM_HeLa_SAHA_4h_R1 1 ESMIPITR 8 0 J3KRX3;J3KS56;I7HAS0;Q8IYD9;Q8IYD9-2 J3KRX3 C18orf54;B9838V3;LAS2 Lung adenoma susceptibility protein 2 1 0 ES(1)MIPITR 97.602 0.022466 28329000 1240.2 1026.8 1134.8 1356.1 1502.1 1312.4 1387.5 1193.8 1347.2 1457.6 TRUE FALSE FALSE 1370.649926 1060.068994 1289.444634 1382.349276 1387.009423 1200.576137 1231.374848 1163.264325 1337.824726 1520.444269 0.901479886 0.697210029 0.848070962 0.909174578 0.912239567 0.789621929 0.809878319 0.765081857 0.879890669 1 10.57027722 -8.003364291 1.150293811 0.978346283 0.826320339 0.262600467 0.071443145 0.258271619 0.715938758 0.017520987 0.014411867 9.92E-09 8.003364291 -0.152025944 ES(ph)PEGSYTDDANQEVR ddPTM_HeLa_SAHA_4h_R1 2 ESPEGSYTDDANQEVR 16 0 A0A075B6Q2;S4R347;Q5T0N5-3;Q5T0N5-4;Q5T0N5-2;Q5T0N5-5;Q5T0N5 A0A075B6Q2 FNBP1L Formin-binding protein 1-like 1 0 ES(1)PEGSYTDDANQEVR;ES(1)PEGSYTDDANQEVR ; 260.56 1.36E-101 9491600 621.948 829.39 587.67 696.26 563 953.68 707.44 574.86 1131.25 681.75 TRUE FALSE FALSE 687.3673442 856.2627802 667.7546071 709.7371191 519.8630616 872.4210987 627.8369893 560.1559136 1123.377539 711.1435789 0.966566197 1.20406456 0.938987044 0.998022256 0.731024053 1.226786158 0.882855457 0.78768329 1.57967754 1 9.473997057 -5.931096231 24.99999992 0.999320669 0.920233656 0.041324289 0.230692239 110.8344306 40211.66645 0.019540274 0.035419754 1.17E-06 5.931096231 -0.079087013 ES(ph)PGAAATSSSGPQAQQHR ddPTM_HeLa_SAHA_4h_R1 1 ESPGAAATSSSGPQAQQHR 19 0 Q7L2J0 Q7L2J0 MEPCE 7SK snRNA methylphosphate capping enzyme 1 0 ES(1)PGAAATSSSGPQAQQHR 192.24 5.07E-14 2842600 215.7 370.01 126.71 410.54 508.59 419.53 236.04 261.93 537.3 379.06 TRUE FALSE FALSE 238.3883157 381.9985668 143.9773789 418.4865954 469.6219441 383.7836838 209.480158 255.2302099 533.5608856 395.4031317 0.602899412 0.966098992 0.364128069 1.058379567 1.187704159 0.970613668 0.529788819 0.645493648 1.349409863 1 8.627180487 -9.665379448 1.527414194 0.999577649 0.770477838 0.182686066 0.27058957 0.787962966 3.318364331 0.180360232 0.040785716 2.16E-10 9.665379448 -0.229099812 ES(ph)PSAAGPEDK ddPTM_HeLa_SAHA_4h_R1 1 ESPSAAGPEDK 11 0 Q3KQU3-4;Q3KQU3;Q3KQU3-2;Q3KQU3-3;H0YF21 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 ES(0.772)PS(0.228)AAGPEDK 93.623 0.01261 2603700 944.64 1660.5 817.76 1127.4 1564.5 1718.8 1128 911.97 1833.4 1240.7 TRUE FALSE FALSE 1044.001569 1714.301289 929.2000741 1149.222457 1444.628348 1572.34857 1001.074471 888.6431279 1820.64122 1294.192649 0.806681733 1.324610591 0.717976628 0.887984071 1.116239031 1.21492621 0.773512716 0.686638986 1.406777594 1 10.33783667 -4.540624795 24.95484198 0.954150534 0.708357223 0.144825473 0.228224793 228.668843 321558.6623 0.024912007 0.093248644 2.88E-05 4.540624795 -0.24579331 ES(ph)PSLASR ddPTM_HeLa_SAHA_4h_R1 2 ESPSLASR 8 0 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6;Q8WWM7-7;H3BSK9 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 ES(1)PSLASR;ES(1)PSLASR ; 162.64 1.31E-05 39447000 5945.2 8501.6 5220.4 6619.5 8368.6 8881 7597.4 6428.3 11123.3 7224.9 TRUE FALSE FALSE 6570.543414 8777.057418 5931.808925 6747.629994 7727.399676 8124.288837 6742.520557 6263.873394 11045.89205 7536.400797 0.871841027 1.1646219 0.787087774 0.895338528 1.025343514 1.078006472 0.89466056 0.831149187 1.465672056 1 12.87965998 -9.775928002 1.751119243 1.000128031 0.93524621 0.061259285 0.184591705 1.094407278 6.066461908 0.079944457 0.016902863 1.68E-10 9.775928002 -0.064881821 ES(ph)PSPAPKPR ddPTM_HeLa_SAHA_4h_R1 1 ESPSPAPKPR 10 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 ES(0.974)PS(0.026)PAPKPR 75.739 0.018116 17112000 3574.7 3714.2 3371 4201.4 4306.7 5313 4468 4514.6 4401.9 4259.2 TRUE FALSE FALSE 3950.703347 3834.542517 3830.382325 4282.724172 3976.721576 4860.30251 3965.248881 4399.123069 4371.266819 4442.834956 0.889230274 0.863084619 0.862148237 0.963962023 0.895086497 1.093964227 0.892504205 0.990161262 0.983891336 1 12.11726483 ES(ph)RSPQQSAALPR ddPTM_HeLa_SAHA_4h_R1 1 ESRSPQQSAALPR 13 1 A0A0A6YYG7;Q6IBW4-2;Q6IBW4;Q6IBW4-4;E5RJN3 A0A0A6YYG7 NCAPH2 Condensin-2 complex subunit H2 1 0 ES(0.758)RS(0.22)PQQS(0.022)AALPR 107.11 0.01397 8166400 721 778.37 594.99 950.7 1005.7 1030.7 901.69 916.58 828 799.43 TRUE FALSE FALSE 796.8380881 803.5896987 676.0721386 969.1021732 928.6434833 942.8785614 800.2294681 893.1352108 822.2378806 833.8973396 0.955558976 0.963655429 0.810737853 1.162136065 1.113618475 1.130689015 0.95962588 1.071037367 0.986018112 1 9.703725975 -6.234579772 24.99928841 0.965611271 1.084180757 0.49477386 0.071051386 592.8554665 551793.9516 0.010842039 0.017976504 5.83E-07 6.234579772 0.118569485 ES(ph)S(ph)EDSFLSAIINY(ph)T(ph)NS(ph)STVHFK ddPTM_HeLa_SAHA_4h_R1 1 ESSEDSFLSAIINYTNSSTVHFK 23 0 A8MQ02;J3KN01;P55196-6;P55196-3;P55196;P55196-5;Q5TIG5;P55196-2;P55196-1;H0Y7R8 A8MQ02 MLLT4 Afadin 5 0 ES(0.513)S(0.513)EDS(0.328)FLS(0.645)AIINY(0.649)T(0.681)NS(0.556)S(0.556)T(0.556)VHFK 43.116 0.014887 11842000 238.87 373.48 152.21 334.12 383.79 336.93 185.85 190.85 315.53 281.13 TRUE FALSE FALSE 263.9954426 385.580997 172.9523861 340.5873757 354.3840931 308.2216685 164.9376689 185.9683333 313.334201 293.2508901 0.900237481 1.314850219 0.589776168 1.161419751 1.208467238 1.051051093 0.562445586 0.63416119 1.068485081 1 8.195991677 -4.759227716 24.99893855 0.990276463 0.598303253 0.444222225 0.190585729 38.96678222 440418.443 0.024903331 0.084917092 1.74E-05 4.759227716 -0.39197321 ES(ph)SPIPSPTSDR ddPTM_HeLa_SAHA_4h_R1 1 ESSPIPSPTSDR 12 0 A0A087WUZ3;Q01082 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 ES(0.497)S(0.497)PIPS(0.006)PTSDR 138.24 0.00073919 6637100 1227.9 1467.5 1049.6 1372 1383.4 1596 1578.4 1394.9 1815.7 1445.2 TRUE FALSE FALSE 1357.056156 1515.047963 1192.634022 1398.557044 1277.404191 1460.011821 1400.794278 1359.220478 1803.064396 1507.509645 0.900197329 1.005000511 0.791128618 0.927726764 0.847360543 0.968492524 0.929210823 0.901633023 1.196054965 1 10.55795152 -9.340456235 0.629783413 1.01453365 0.906776718 0.346710721 0.083928237 1.163149376 0.649635212 0.072312578 0.011625065 4.57E-10 9.340456235 -0.107756931 ES(ph)SPIPSPTSDRK ddPTM_HeLa_SAHA_4h_R1 1 ESSPIPSPTSDRK 13 1 A0A087WUZ3;Q01082 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 ES(0.713)S(0.287)PIPSPTSDRK 116.58 0.00071897 13548000 1896.9 1813 1340.1 1800.9 2109.4 2597.7 1936.1 2132.9 2340.7 1958.9 TRUE FALSE FALSE 2096.424645 1871.74239 1522.721849 1835.759024 1947.778228 2376.361346 1718.244932 2078.343506 2324.410878 2043.357766 1.02597043 0.916013055 0.745205698 0.898403136 0.953224276 1.162968808 0.840892849 1.017121691 1.13754474 1 10.99672611 -7.261931562 24.55523073 1.012263815 0.930853203 0.172682704 0.110310949 57.02642629 2845072.07 0.017529093 0.020692305 5.47E-08 7.261931562 -0.081410612 ES(ph)SPKKEETVAR ddPTM_HeLa_SAHA_4h_R1 2 ESSPKKEETVAR 12 2 Q68DK7;Q68DK7-2;J3KTC2;Q68DK7-3 Q68DK7 MSL1 Male-specific lethal 1 homolog 1 0 ES(0.937)S(0.063)PKKEETVAR;ES(0.965)S(0.032)PKKEET(0.003)VAR ; 88.561 0.0098872 24129400 7477.7 8079.1 5991 7622 7771.1 8868.6 8704.4 8554.9 9693.1 8405.3 TRUE FALSE FALSE 8264.238795 8340.868141 6807.42228 7769.534832 7175.679997 8112.945387 7724.958003 8336.078045 9625.644928 8767.693618 0.94257842 0.951318386 0.776421095 0.886154919 0.818422759 0.925322638 0.881070706 0.950772051 1.097853706 1 13.09798167 ES(ph)SPLYSPTFSDSTSAVK ddPTM_HeLa_SAHA_4h_R1 2 ESSPLYSPTFSDSTSAVK 18 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 ES(0.584)S(0.4)PLYS(0.016)PTFSDSTSAVK;ES(0.5)S(0.5)PLYSPTFSDSTSAVK ; 268.93 4.17E-60 108830000 2536.694 3176.09 2579.742 3240.43 3023.87 3495.15 3225.94 3144.99 3023.2 2772.58 TRUE FALSE FALSE 2803.515114 3278.9974 2931.295805 3303.153208 2792.181734 3197.343557 2862.948741 3064.54571 3002.161305 2892.119492 0.969363514 1.133769683 1.013545883 1.142121969 0.965444803 1.105536464 0.989913712 1.059619327 1.038048847 1 11.49791145 -7.309861766 24.99982288 0.985532761 1.05563157 0.144953028 0.057917998 349.7637003 180577.5877 0.008485761 0.009703843 4.90E-08 7.309861766 0.070098809 ES(ph)TGNMVTGQTVCK ddPTM_HeLa_SAHA_4h_R1 2 ESTGNMVTGQTVCK 14 0 Q15021;E7EN77 Q15021 NCAPD2 Condensin complex subunit 1 1 0 ES(0.674)T(0.326)GNMVTGQTVCK;ES(0.959)T(0.04)GNMVTGQTVCK ; 196.45 2.69E-09 16138500 3227.87 3401.9 2948.82 3639.7 4587.9 4851 3357.61 3768.3 3865.3 3806.4 TRUE FALSE FALSE 3567.392177 3512.123792 3350.669833 3710.151657 4236.376093 4437.667509 2979.802886 3671.912342 3838.401063 3970.512532 0.898471456 0.884551746 0.843888492 0.934426381 1.066959507 1.117656089 0.750483184 0.924795555 0.966726847 1 11.95510953 -9.432949464 1.210542487 0.999291673 0.925995586 0.044989264 0.098791668 1.123848776 2.989190553 0.066859509 0.017435208 3.69E-10 9.432949464 -0.073296087 ESAAPAAAPTAEAPPPS(ph)VVTRPEPQALPSPAIR ddPTM_HeLa_SAHA_4h_R1 2 ESAAPAAAPTAEAPPPSVVTRPEPQALPSPAIR 33 1 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 1 0 ESAAPAAAPT(0.008)AEAPPPS(0.55)VVT(0.42)RPEPQALPS(0.022)PAIR;ESAAPAAAPT(0.002)AEAPPPS(0.412)VVT(0.412)RPEPQALPS(0.173)PAIR ; 75.103 1.00E-05 73993800 1755.22 2431.21 1863.96 1989.6 2292.67 2624.43 1921.09 1647.48 2033.12 2342.26 TRUE FALSE FALSE 1939.842093 2509.982799 2117.970762 2028.111585 2117.00612 2400.813799 1704.923897 1605.339847 2018.971352 2443.246291 0.793960928 1.027314687 0.866867483 0.830088883 0.866472663 0.982632741 0.697810902 0.657051994 0.826347863 1 11.25458359 -1 0.039813022 1.363995038 6.11E-09 0.193614532 0.10485306 719.0241738 2.202861656 20.96200208 66.79066903 0.1 1 -1.363995031 ESAAPAAAPTAEAPPPSVVT(ph)RPEPQALPSPAIR ddPTM_HeLa_SAHA_4h_R1 1 ESAAPAAAPTAEAPPPSVVTRPEPQALPSPAIR 33 1 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 1 0 ESAAPAAAPT(0.006)AEAPPPS(0.035)VVT(0.528)RPEPQALPS(0.43)PAIR 54.683 0.0047914 3779500 535.44 533.29 437.83 544.7 392.45 569.91 437.03 343.49 371.83 454.51 TRUE FALSE FALSE 591.7600359 550.5689459 497.4951923 555.2434561 362.3805658 521.3504618 387.8542342 334.7040232 369.2424048 474.1061504 1.248159374 1.161277797 1.049332922 1.171137425 0.76434479 1.099649227 0.818074673 0.705968532 0.778818002 1 8.889066299 -4.353582313 0.631937236 1.12041772 0.476446205 0.26384854 0.160314039 1.830677575 0.534497957 0.023798959 0.830728453 4.43E-05 4.353582313 -0.643971515 ESAAPAAAPTAEAPPPSVVTRPEPQALPS(ph)PAIR ddPTM_HeLa_SAHA_4h_R1 1 ESAAPAAAPTAEAPPPSVVTRPEPQALPSPAIR 33 1 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 1 0 ESAAPAAAPT(0.009)AEAPPPS(0.157)VVT(0.056)RPEPQALPS(0.778)PAIR 75.156 9.69E-06 80552000 1309.1 1151.4 868.41 977.78 1311.3 1489.1 1073 1103.6 825.56 1095 TRUE FALSE FALSE 1446.797144 1188.706115 986.7523923 996.7063458 1210.828477 1362.220303 952.263216 1075.37151 819.8148607 1142.210809 1.266663853 1.040706415 0.863896914 0.872611551 1.060074435 1.19261724 0.833701808 0.941482519 0.717743918 1 10.15761323 -7.00233364 24.85001394 1.12738568 0.964865063 0 0.173442669 97.45479519 1037771.041 0.022700159 0.029557455 9.95E-08 7.00233364 -0.162520617 ESADPLGAWLQDAR ddPTM_HeLa_SAHA_4h_R1 2 ESADPLGAWLQDAR 14 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 219.43 9.56E-17 12744600 2221.18 2123.36 1769.92 2128.16 2237.39 2267.9 2578.7 2519.2 2414.57 1782.83 FALSE FALSE TRUE 2454.813904 2192.158257 2011.11548 2169.353614 2065.961662 2074.662161 2288.537889 2454.762512 2397.766811 1859.696526 1.320007791 1.178772034 1.081421324 1.166509473 1.11091333 1.115591782 1.230597496 1.319980156 1.289332306 1 10.8608515 -9.591668718 1.396473047 1.000452194 1.200793719 0 0.117785488 0.339245706 1.191069778 0.063047373 0.014779014 2.56E-10 9.591668718 0.200341525 ESAGADTRPTVRPR ddPTM_HeLa_SAHA_4h_R1 2 ESAGADTRPTVRPR 14 2 G3V194;E9PS48;O75489-2;O75489 G3V194 NDUFS3 "NADH dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial" 0 0 ; ; 73.082 0.013247 1917430 1135.53 1307.36 889.86 846.88 1097.59 942.55 1094.48 1124.14 931.46 1225.12 FALSE FALSE TRUE 1254.970255 1349.719322 1011.125487 863.272587 1013.492891 862.2394374 971.3262299 1095.386127 924.977894 1277.940919 0.982025254 1.056167231 0.791214579 0.675518386 0.793067094 0.674709937 0.760071311 0.857149271 0.723803331 1 10.31960542 -6.674908271 5.570343109 0.99591421 0.749479016 0.396455057 0.101559907 0.056291436 2.825638507 0.008050959 0.011399419 2.11E-07 6.674908271 -0.246435194 ESAS(ph)PTIPNLDLLEAHTK ddPTM_HeLa_SAHA_4h_R1 2 ESASPTIPNLDLLEAHTK 18 0 O75151 O75151 PHF2 Lysine-specific demethylase PHF2 1 0 ES(0.082)AS(0.838)PT(0.08)IPNLDLLEAHTK;ES(0.002)AS(0.735)PT(0.262)IPNLDLLEAHTK ; 200.19 1.94E-16 67547000 6278.2 5789.9 4991.2 4971.5 6125.8 5787.8 6920.9 6661.6 6805.5 5941.4 TRUE FALSE FALSE 6938.569881 5977.496559 5671.374743 5067.730571 5656.442527 5294.646879 6142.142117 6491.205918 6758.139971 6197.562831 1.119564266 0.964491482 0.915097579 0.817697329 0.91268821 0.854311126 0.99105766 1.047380413 1.090451224 1 12.59748528 -7.053451811 4.999903502 1.056315934 0.918992912 0.487944779 0.066784071 0.15311931 8.305515138 0.012629558 0.01574821 8.84E-08 7.053451811 -0.137323022 ESASSSSSVK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 ESASSSSSVKK 11 1 Q9NPF5 Q9NPF5 DMAP1 DNA methyltransferase 1-associated protein 1 0 1 ; ESASSSSSVK(1)K;ESASSSSSVK(1)K 256.24 3.78E-70 5895600 1364.41 1114.74 876.43 1649.83 1393.12 1637.61 1586.72 2051.28 1386.14 1204.31 FALSE TRUE FALSE 1507.924904 1150.858307 995.8653161 1681.764845 1286.379447 1498.076415 1408.17809 1998.811228 1376.493739 1256.233698 1.200353809 0.916118004 0.792738897 1.338735657 1.023996927 1.192514114 1.120952329 1.591114162 1.095730628 1 10.29488916 -1.702505208 1.126363993 1.075131959 199.9951315 0.531374687 0.14583921 383.6735619 1.617912245 0.022247628 195815.4105 0.019837859 1.702505208 198.9199996 ESAWS(ph)PPPIEIR ddPTM_HeLa_SAHA_4h_R1 2 ESAWSPPPIEIR 12 0 Q8WYP5;Q8WYP5-3;Q8WYP5-2 Q8WYP5 AHCTF1 Protein ELYS 1 0 ES(0.09)AWS(0.91)PPPIEIR;ESAWS(1)PPPIEIR ; 102.33 0.0051727 4148800 2520.64 2971.7 2350.81 2099.87 2616.2 3852.6 2314.17 2818.9 3634.3 2704.3 TRUE FALSE FALSE 2785.77248 3067.98503 2671.166144 2140.51602 2415.747321 3524.336806 2053.773501 2746.79662 3609.00861 2820.895608 0.987548945 1.087592544 0.946921303 0.758807244 0.856376009 1.249368036 0.728057251 0.973732106 1.279383966 1 11.46193756 -6.530804727 24.59030488 1.001742206 0.911927587 0.131850865 0.162075811 285.1868095 884786.4822 0.020351967 0.028814552 2.95E-07 6.530804727 -0.089814619 ESCS(ph)SPSTVGSSLTTR ddPTM_HeLa_SAHA_4h_R1 1 ESCSSPSTVGSSLTTR 16 0 E9PMC9;Q7Z589-6;Q7Z589;Q7Z589-5;Q7Z589-4;Q7Z589-7;H0YEP9 E9PMC9 C11orf30;EMSY Protein EMSY 1 0 ESCS(0.798)S(0.2)PS(0.001)T(0.001)VGSSLTTR 277.41 8.59E-60 14544000 2916.6 3058.7 2290.2 2863.8 2662.4 2680.4 2673.1 2496.5 3685.3 2980.7 TRUE FALSE FALSE 3223.38137 3157.803887 2602.296529 2919.23299 2458.407487 2452.01484 2372.315753 2432.643145 3659.653697 3109.212564 1.036719524 1.015628176 0.83696321 0.938897849 0.79068492 0.788628886 0.762995679 0.782398467 1.177035543 1 11.60233354 -6.238086733 0.929655915 1.019612949 0.770411387 0.760263434 0.065610713 0.138835916 0.237058565 0.007703177 0.017196487 5.78E-07 6.238086733 -0.249201562 ESCSS(ph)PSTVGSSLTTR ddPTM_HeLa_SAHA_4h_R1 1 ESCSSPSTVGSSLTTR 16 0 E9PMC9;Q7Z589-6;Q7Z589;Q7Z589-5;Q7Z589-4;Q7Z589-7;H0YEP9 E9PMC9 C11orf30;EMSY Protein EMSY 1 0 ESCS(0.022)S(0.888)PS(0.007)T(0.078)VGS(0.004)S(0.001)LTTR 254.72 1.12E-46 13515000 1646.3 1852.8 1316.4 1488.3 1428.2 1739 1653.6 1391.9 1957.1 1675.7 TRUE FALSE FALSE 1819.465387 1912.831936 1495.792136 1517.108199 1318.771625 1590.827417 1467.532576 1356.297213 1943.480382 1747.947628 1.040915276 1.094330234 0.855741964 0.867936873 0.754468614 0.910111603 0.839574683 0.775936986 1.111864195 1 10.77144624 -6.682775376 6.623485165 1.025331927 0.834058867 0.79898021 0.054824704 0.069431238 4.750103703 0.007451706 0.010539732 2.08E-07 6.682775376 -0.19127306 ESDKEDGRES(ph)PSYDTPSQR ddPTM_HeLa_SAHA_4h_R1 2 ESDKEDGRESPSYDTPSQR 19 2 Q9Y6M7-7;Q9Y6M7-2;C9JRP1;Q9Y6M7;Q9Y6M7-13;Q9Y6M7-9;Q9Y6M7-11;Q9Y6M7-6;Q9Y6M7-14;Q9Y6M7-12;Q9Y6M7-10;Q9Y6M7-8;A0A0A0MST8;E9PFN4 Q9Y6M7-7 SLC4A7 Sodium bicarbonate cotransporter 3;Anion exchange protein 1 0 ES(0.001)DKEDGRES(0.974)PS(0.02)Y(0.002)DT(0.002)PS(0.001)QR;ES(0.008)DKEDGRES(0.888)PS(0.089)Y(0.001)DT(0.01)PS(0.003)QR ; 70.15 0.0075738 6134600 944.01 1849.16 1114.34 1066.24 1633.73 1002.11 1606.43 1070.72 1101.03 1494.67 TRUE FALSE FALSE 1043.305303 1909.073997 1266.196452 1086.878617 1508.55396 916.7245903 1425.670269 1043.332533 1093.367843 1559.112538 0.66916613 1.224461962 0.812126399 0.69711364 0.967572207 0.587978461 0.914411393 0.669183595 0.701275768 1 10.60650935 -6.531784292 24.99612687 0.87511818 0.774398954 0.101646419 0.178602704 473.394022 1328720.161 0.029237999 0.041383471 2.94E-07 6.531784292 -0.100719226 ESDQTLAALLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 5 ESDQTLAALLSPK 13 0 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;H7C1M2 P18583-10 SON Protein SON 1 0 ESDQTLAALLS(1)PK;ESDQTLAALLS(1)PK;ESDQT(0.001)LAALLS(0.999)PK;ESDQTLAALLS(1)PK;ESDQTLAALLS(1)PK ;;;; 177.39 1.20E-05 739447300 9894.72 12494.44 10105.01 11392.21 12155.68 10423.61 11613.71 10745.15 15054.42 11010.27 TRUE FALSE FALSE 10935.49205 12899.26805 11482.06814 11612.7227 11224.31442 9535.459786 10306.90479 10470.30462 14949.65507 11484.97662 0.95215623 1.123142735 0.999746757 1.011122885 0.977304072 0.830255045 0.897424969 0.911652236 1.301670483 1 13.4874603 -5.379011007 6.104383247 0.992982873 0.882071839 0.243577274 0.108710642 0.147860032 6.862413851 0.007335154 0.016562557 4.18E-06 5.379011007 -0.110911034 ESDSAEGDEAES(ph)PEQQVR ddPTM_HeLa_SAHA_4h_R1 2 ESDSAEGDEAESPEQQVR 18 0 Q8TEH3;Q8TEH3-7;Q8TEH3-6 Q8TEH3 DENND1A DENN domain-containing protein 1A 1 0 ESDSAEGDEAES(1)PEQQVR;ESDSAEGDEAES(1)PEQQVR ; 202.96 1.86E-16 6821300 441.81 792.85 703.15 664.41 860.99 729.87 611.32 852.77 881.45 747.88 TRUE FALSE FALSE 488.2816029 818.5388602 798.9716202 677.2706163 795.0211322 667.6809699 542.5326647 830.9573782 875.3159177 780.1247668 0.625901937 1.049240961 1.024158768 0.868156794 1.01909485 0.855864342 0.695443457 1.065159592 1.122020419 1 9.607561065 -7.228828174 24.99425301 0.8233425 0.930541303 0 0.165213899 1329.295901 1018815.228 0.02844885 0.034841224 5.90E-08 7.228828174 0.107198804 ESDTKNEVNGTSEDIKSEGDT(ph)QSN ddPTM_HeLa_SAHA_4h_R1 1 ESDTKNEVNGTSEDIKSEGDTQSN 24 2 O95232 O95232 LUC7L3 Luc7-like protein 3 1 0 ESDTKNEVNGTSEDIKS(0.116)EGDT(0.442)QS(0.442)N 92.258 0.00042885 25176000 1048.9 1257.4 937.44 1068.9 1467 948.18 1069 1017.1 1348.7 746.99 TRUE FALSE FALSE 1159.228115 1298.140585 1065.189441 1089.590105 1354.598777 867.3897297 948.7133065 991.0840547 1339.314287 779.1963946 1.487722637 1.665999219 1.367035896 1.398351061 1.738456166 1.113184989 1.217553512 1.271931007 1.718840457 1 9.605843192 -9.265941973 1.018910204 1.002334883 1.411534003 0 0.285112966 0.424036442 0.796073772 0.123033731 0.034270457 5.42E-10 9.265941973 0.40919912 ESDTKNEVNGTSEDIKSEGDTQS(ph)N ddPTM_HeLa_SAHA_4h_R1 3 ESDTKNEVNGTSEDIKSEGDTQSN 24 2 O95232 O95232 LUC7L3 Luc7-like protein 3 1 0 ESDTKNEVNGTSEDIKS(0.014)EGDT(0.059)QS(0.926)N;ESDTKNEVNGTSEDIKS(0.002)EGDT(0.004)QS(0.994)N;ESDTKNEVNGTSEDIKSEGDT(0.007)QS(0.993)N ;; 144.44 4.61E-07 93451000 3261.15 3495.3 3088.03 3517.42 3779.44 3760.07 4055.93 3498.77 4431.02 3354.57 TRUE FALSE FALSE 3604.17272 3608.550013 3508.850647 3585.50475 3489.860124 3439.690882 3599.546082 3409.27653 4400.184171 3499.20193 1.029998495 1.031249435 1.002757405 1.024663573 0.997330304 0.982992966 1.028676297 0.974301169 1.257482209 1 11.77281021 -5.740951997 23.06954713 1.015624811 0.99725508 0 0.078201487 124.6643923 140374.3179 0.002520462 0.005034245 1.82E-06 5.740951997 -0.018369731 ESEDAELLWR ddPTM_HeLa_SAHA_4h_R1 1 ESEDAELLWR 10 0 E5RGC8;H0YB83;E5RH53;Q96DB5-3;Q96DB5-2;Q96DB5 E5RGC8 RMDN1 Regulator of microtubule dynamics protein 1 0 0 156.35 0.0018727 1618000 2114.6 2481.9 2059 2173.2 2692.9 3396 2585.3 2476.8 4133.8 2871.5 FALSE FALSE TRUE 2337.02333 2562.315188 2339.589797 2215.265428 2486.570584 3106.641695 2294.39524 2413.447042 4105.032549 2995.304418 0.780228986 0.855443999 0.781085817 0.739579395 0.830156217 1.037170605 0.765997348 0.805743492 1.370489265 1 11.54848692 -9.354505227 0.996941309 1.003490628 0.823369036 0.394564094 0.143048216 0.457139725 0.787838647 0.060195063 0.014517638 4.42E-10 9.354505227 -0.180121592 ESEDDPES(ph)EPDDHEK ddPTM_HeLa_SAHA_4h_R1 4 ESEDDPESEPDDHEK 15 0 P16383;P16383-4;P16383-3 P16383 GCFC2 GC-rich sequence DNA-binding factor 2 1 0 ESEDDPES(1)EPDDHEK;ESEDDPES(1)EPDDHEK;ESEDDPES(1)EPDDHEK;ESEDDPES(1)EPDDHEK ;;; 163.44 4.14E-06 50728700 13673.6 13928.2 13410.3 13656.5 15547.2 17094.3 17542.1 16762.2 14593 13888.4 TRUE FALSE FALSE 15111.85198 14379.48282 15237.78585 13920.84131 14355.97689 15637.76947 15568.21674 16333.4472 14491.44612 14487.19689 1.043117733 0.992564878 1.051810503 0.960906475 0.990942347 1.079419959 1.074618979 1.127440133 1.00029331 1 13.82249086 -5.118410632 4.230290759 1.014892111 1.096396211 0.662962838 0.028449418 0.120976577 3.590960192 0.004227574 0.011525856 7.61E-06 5.118410632 0.0815041 ESEDFIVEQYK ddPTM_HeLa_SAHA_4h_R1 2 ESEDFIVEQYK 11 0 Q14566 Q14566 MCM6 DNA replication licensing factor MCM6 0 0 ; ; 157.38 0.0014734 4619200 1168.08 1450.05 1143.59 1101.03 1364.83 1744.54 1522.83 1501.63 1580.61 1127.38 FALSE FALSE TRUE 1290.944014 1497.032571 1299.43249 1122.342028 1260.25702 1595.895377 1351.477161 1463.220479 1569.610406 1175.986869 1.097753766 1.273001094 1.104971938 0.954383129 1.071659092 1.357069045 1.149228105 1.244248994 1.33471763 1 10.19965624 -1.000000016 0.060117727 0.769390254 1.895848033 0 0.145858398 290.1954581 1.316666045 5.087362332 28.78969575 0.099999996 1.000000016 1.126457779 ESEDKPEIEDVGS(ph)DEEEEK ddPTM_HeLa_SAHA_4h_R1 2 ESEDKPEIEDVGSDEEEEK 19 1 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 1 0 ESEDKPEIEDVGS(1)DEEEEK;ESEDKPEIEDVGS(1)DEEEEK ; 180.68 1.01E-09 454080000 4323.6 6958.1 3792.17 5471.3 5868.4 6955.9 5107.9 3870.1 11488.1 6025.5 TRUE FALSE FALSE 4778.376085 7183.547005 4308.947179 5577.204923 5418.76446 6363.218187 4533.145649 3771.108446 11408.15338 6285.288793 0.760247658 1.14291439 0.685560731 0.887342667 0.862134524 1.012398697 0.721231084 0.599989685 1.815056357 1 12.61776332 -13.52287875 0.023639908 2.072533007 2.10E-15 0.121801613 0.30858768 2857.596188 5.440445795 332.03081 170.2713028 3.00E-14 13.52287875 -2.072533007 ESEDKPEIEDVGS(ph)DEEEEKK ddPTM_HeLa_SAHA_4h_R1 5 ESEDKPEIEDVGSDEEEEKK 20 2 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 1 0 ESEDKPEIEDVGS(1)DEEEEKK;ESEDKPEIEDVGS(1)DEEEEKK;ESEDKPEIEDVGS(1)DEEEEKK;ESEDKPEIEDVGS(1)DEEEEKK;ESEDKPEIEDVGS(1)DEEEEKK ;;;; 103.71 0.00050058 607799500 8490.95 11707 7174.25 9199.7 9575.5 13408.4 9426.8 7872.3 19506.5 9801.9 TRUE FALSE FALSE 9384.067079 12086.31448 8151.919428 9377.773496 8841.827259 12265.92889 8366.071654 7670.937965 19370.75268 10224.50788 0.917801345 1.182092539 0.797292107 0.917185806 0.864768003 1.199659586 0.818237098 0.750250091 1.894541323 1 13.31974379 ESEDKPEIEDVGS(ph)DEEEEKKDGDK ddPTM_HeLa_SAHA_4h_R1 2 ESEDKPEIEDVGSDEEEEKKDGDK 24 3 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 1 0 ES(0.001)EDKPEIEDVGS(0.999)DEEEEKKDGDK;ESEDKPEIEDVGS(1)DEEEEKKDGDK ; 77.469 0.00014775 1144932500 2868.58 7194.5 3111.1 5114.6 4349.3 5803.5 3695.9 4232.5 8287.7 4976.7 TRUE FALSE FALSE 3170.310406 7427.60652 3535.064506 5213.600479 4016.057574 5309.00915 3280.027605 4124.238779 8230.025221 5191.269892 0.610700363 1.430787972 0.680963344 1.004301565 0.773617565 1.022680242 0.631835307 0.794456629 1.585358764 1 12.34187178 -4.743633306 24.99825085 0.868202321 0.713145998 0 0.318450616 565.7325554 794228.6969 0.032010726 0.119251058 1.80E-05 4.743633306 -0.155056322 ESEDSETQPFDTHLEAYGPCLS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 4 ESEDSETQPFDTHLEAYGPCLSPPR 25 0 Q14676;Q14676-3 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 1 0 ESEDSETQPFDT(0.019)HLEAYGPCLS(0.981)PPR;ESEDSETQPFDT(0.003)HLEAYGPCLS(0.997)PPR;ESEDSETQPFDT(0.006)HLEAYGPCLS(0.994)PPR;ESEDSETQPFDTHLEAYGPCLS(1)PPR ;;; 151.02 1.39E-09 154333000 5724.89 3621.5 2950.7 3787.16 4235.34 4346.27 4539.98 5751.19 4843.63 4576.96 TRUE FALSE FALSE 6327.060197 3738.838976 3352.806029 3860.465958 3910.829164 3975.943345 4029.129502 5604.082887 4809.922784 4774.295145 1.325234407 0.783118526 0.702261994 0.808593906 0.819142731 0.832781222 0.843921329 1.173803193 1.007462387 1 12.22107204 -7.248242726 24.91858266 1.153582916 0.842214217 0.391679715 0.144633289 509.5139119 962090.1435 0.027301374 0.033331242 5.65E-08 7.248242726 -0.311368698 ESEEGNPVRGSEEDS(ph)PKKESK ddPTM_HeLa_SAHA_4h_R1 1 ESEEGNPVRGSEEDSPKKESK 21 3 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 ES(0.002)EEGNPVRGS(0.007)EEDS(0.988)PKKES(0.003)K 49.973 0.013636 93807000 1110.3 729.91 830.06 873.69 1100.9 800.93 954.81 1089 585.85 902.32 TRUE FALSE FALSE 1227.086448 753.5595629 943.176254 890.6015333 1016.54928 732.6862581 847.3722659 1061.144957 581.7730222 941.223431 1.303714302 0.800617088 1.002074771 0.946216917 1.080029721 0.778440309 0.900288112 1.127410264 0.618102995 1 9.878393426 -7.258912938 24.99881496 1.143420641 0.94662621 0 0.206767663 215.6336501 2133665.631 0.024562613 0.029340804 5.51E-08 7.258912938 -0.196794431 ESEFDDEPK ddPTM_HeLa_SAHA_4h_R1 2 ESEFDDEPK 9 0 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 0 0 ; ; 147.51 0.0032681 7858000 3448.4 3854.6 4293.3 4021 3923.6 4348.8 3573.9 4233.2 4509.2 3828.8 FALSE FALSE TRUE 3811.118534 3979.491569 4878.368565 4098.832269 3622.974616 3978.257774 3171.755366 4124.920874 4477.82011 3993.878306 0.954240025 0.996397803 1.221461495 1.026278708 0.90713195 0.996088881 0.794154234 1.032810856 1.121170894 1 11.96357466 -5.759792398 24.99869719 1.002637371 0.927200057 0.164590534 0.099440704 72.49449967 1100324.005 0.01379107 0.026469896 1.74E-06 5.759792398 -0.075437314 ESEITDEDIDGILER ddPTM_HeLa_SAHA_4h_R1 2 ESEITDEDIDGILER 15 0 O60264 O60264 SMARCA5 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5 0 0 ; ; 229.56 5.89E-24 6385200 1690.02 1524.44 1488.88 1316.08 1316.19 1682.1 1762.54 1724.74 1509.46 1728.02 FALSE FALSE TRUE 1867.784058 1573.832856 1691.776813 1341.554631 1215.343807 1538.775617 1564.21436 1680.623648 1498.955545 1802.523399 1.036205166 0.873127559 0.93856025 0.744264753 0.674245786 0.853678581 0.867791431 0.932372722 0.831587288 1 10.81580227 -6.922763586 1.653444747 1.017102391 0.818398657 0.164355491 0.095321193 0.193886092 1.059303533 0.013943222 0.018955253 1.19E-07 6.922763586 -0.198703734 ESENSGDSGYPS(ph)EK ddPTM_HeLa_SAHA_4h_R1 1 ESENSGDSGYPSEK 14 0 O00418 O00418 EEF2K Eukaryotic elongation factor 2 kinase 1 0 ESENSGDS(0.005)GYPS(0.995)EK 125.98 0.00066806 2444400 365.15 540.63 412.8 841.1 471.44 546.25 926.49 690.76 883.59 527.05 TRUE FALSE FALSE 403.5581524 558.1467667 469.0542342 857.3807068 435.318369 499.7064269 822.2389068 673.0913594 877.4410252 549.7737048 0.734044115 1.015230015 0.853176916 1.559515668 0.791813732 0.908931116 1.495595187 1.224306207 1.596003988 1 9.102694095 ESEPAPAS(ph)VTALTDAR ddPTM_HeLa_SAHA_4h_R1 1 ESEPAPASVTALTDAR 16 0 E9PMQ6;Q00613-2;Q00613 E9PMQ6 HSF1 Heat shock factor protein 1 1 0 ESEPAPAS(0.998)VT(0.001)ALT(0.001)DAR 130.01 0.00016134 1495700 451.11 352.5 349.94 558.47 467.11 608.6 490.97 435.52 490.71 554.58 TRUE FALSE FALSE 498.5598196 363.9212313 397.6280008 569.2799944 431.3201327 556.7438561 435.7247634 424.380029 487.2951092 578.4906578 0.861828645 0.629087482 0.68735423 0.984078112 0.745595675 0.962407687 0.75320968 0.73359876 0.842356056 1 9.176149851 -8.264306169 1.090191014 0.975585617 0.795448545 0.128665885 0.115595831 0.369533032 0.908466388 0.03193707 0.022363193 5.44E-09 8.264306169 -0.180137072 ESEQES(ph)EEEILAQK ddPTM_HeLa_SAHA_4h_R1 1 ESEQESEEEILAQK 14 0 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 1 0 ES(0.004)EQES(0.996)EEEILAQK 252.47 2.23E-43 18323000 884.7 1387 972.81 1201.7 1287.3 1545.4 1397.5 1128.7 1869.1 1010.6 TRUE FALSE FALSE 977.7568051 1431.93971 1105.379481 1224.960641 1188.667352 1413.723226 1240.249622 1099.829488 1856.092781 1054.171912 0.927511722 1.358355022 1.048576108 1.162012218 1.127583973 1.341074648 1.176515527 1.04331132 1.760711664 1 10.04189444 -7.289607049 24.97375189 0.965769414 1.178001899 0 0.270440566 410.390464 363855.4537 0.016384973 0.018738913 5.13E-08 7.289607049 0.212232485 ESEQES(ph)EEEILAQKK ddPTM_HeLa_SAHA_4h_R1 2 ESEQESEEEILAQKK 15 1 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 1 0 ES(0.034)EQES(0.966)EEEILAQKK;ESEQES(1)EEEILAQKK ; 226.7 3.38E-24 57877100 3377.08 3626.52 3326.36 3839.77 4446.31 5294.9 4329.8 3985.5 5167.3 4351 TRUE FALSE FALSE 3732.296769 3744.021627 3779.659018 3914.094301 4105.634688 4843.744732 3842.599509 3883.556681 5131.340339 4538.592903 0.822346672 0.82493004 0.83278212 0.862402596 0.904605188 1.067234897 0.846649962 0.855674162 1.130601587 1 12.14802937 -9.465791492 1.229090603 0.999344435 0.873862166 0.414516053 0.080763087 0.47497354 1.294040917 0.049455123 0.012464157 3.42E-10 9.465791492 -0.125482269 ESES(ph)APGDFSLSVNSRHTSR ddPTM_HeLa_SAHA_4h_R1 1 ESESAPGDFSLSVNSRHTSR 20 1 J3QRL5 J3QRL5 GRB2 1 0 ES(0.198)ES(0.744)APGDFS(0.056)LS(0.002)VNSRHTSR 81.656 0.012365 89146000 664.25 888.82 736.78 1214.2 903.07 1005 789.74 1222.5 1051.1 721.93 TRUE FALSE FALSE 734.1188627 917.6183512 837.1845414 1237.702597 833.8769717 919.368346 700.8763767 1191.23022 1043.78531 753.0559353 0.974853033 1.218526152 1.111716278 1.643573258 1.107324081 1.22085001 0.930709585 1.581861538 1.386066108 1 9.556613219 -7.139197458 2.3504939 0.986674536 1.258010094 0 0.238252025 0.279470648 2.976122596 0.033073354 0.041011051 7.26E-08 7.139197458 0.271335558 ESES(ph)ESDETPPAAPQLIK ddPTM_HeLa_SAHA_4h_R1 3 ESESESDETPPAAPQLIK 18 0 O60832 O60832 DKC1 H/ACA ribonucleoprotein complex subunit 4 1 0 ES(0.01)ES(0.956)ES(0.016)DET(0.018)PPAAPQLIK;ES(0.007)ES(0.923)ES(0.069)DET(0.001)PPAAPQLIK;ES(0.035)ES(0.929)ES(0.035)DETPPAAPQLIK ;; 161.84 5.55E-06 10976600 2446.91 2356.65 1967.14 2706.49 2408.55 2806.53 2712.79 2326.79 3519.33 2989.24 TRUE FALSE FALSE 2704.287221 2433.007006 2235.211595 2758.878028 2224.007419 2567.397855 2407.53973 2267.274081 3494.838696 3118.120765 0.867281104 0.780279915 0.716845742 0.884788703 0.713252496 0.823379865 0.772112407 0.727128374 1.120815696 1 11.60646109 -8.115732344 0.544504969 0.999489975 0.765431239 0.723630486 0.066420034 0.278932211 0.189880696 0.027545822 0.015562287 7.66E-09 8.115732344 -0.234058736 ESFDGSVR ddPTM_HeLa_SAHA_4h_R1 1 ESFDGSVR 8 0 P19338;H7BY16 P19338 NCL Nucleolin 0 0 121.99 0.019608 13737000 3987 3410.5 3210.6 3634 3662.9 3949.3 3964.9 3794.1 5027.5 3587.3 FALSE FALSE TRUE 4406.370953 3521.002438 3648.123848 3704.341325 3382.249393 3612.797422 3518.759017 3697.052416 4992.513218 3741.966059 1.17755503 0.94094986 0.974921683 0.989945196 0.903869608 0.965481077 0.94035033 0.987997314 1.334195217 1 11.86958076 -7.236640749 24.93490007 1.083845434 0.957119726 0.462928881 0.091805543 517.6187812 520463.6696 0.011340096 0.013885629 5.80E-08 7.236640749 -0.126725708 ESGADGASTS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 ESGADGASTSPR 12 0 O75528;O75528-2 O75528 TADA3 Transcriptional adapter 3 1 0 ESGADGAS(0.096)T(0.096)S(0.808)PR;ESGADGAST(0.02)S(0.98)PR ; 145.09 0.00049778 50521000 5332.4 6470.9 4595.6 7172.6 9120.9 12505.1 9223 7387.1 8549 11907.8 TRUE FALSE FALSE 5893.286298 6680.561406 5221.864435 7311.436045 8422.058612 11439.59513 8185.203766 7198.148678 8489.506813 12421.20353 0.474453726 0.537835274 0.420399233 0.588625412 0.678038854 0.920973165 0.658970264 0.57950493 0.68346894 1 13.60051735 -9.400081204 1.125617955 1.000006302 0.601710651 0.161133121 0.159319952 0.322135381 0.729988374 0.100048565 0.025483912 3.98E-10 9.400081204 -0.398295651 ESGNDT(ph)IDEEELILPNR ddPTM_HeLa_SAHA_4h_R1 1 ESGNDTIDEEELILPNR 17 0 Q92576-2;Q92576;D6RBF0;D6R9X2;E9PE34;A0A1B0GX99 Q92576-2 PHF3 PHD finger protein 3 1 0 ES(0.003)GNDT(0.997)IDEEELILPNR 128.94 0.0003332 1935200 557.86 519.54 391.85 443.33 557.19 507.18 651.67 439.5 656.84 510.78 TRUE FALSE FALSE 616.5382744 536.3734369 445.2492773 451.9112932 514.4982226 463.9654107 578.3423765 428.2582264 652.268997 532.8022255 1.157161597 1.006702696 0.835674582 0.848178314 0.965645784 0.870802314 1.085472899 0.803784605 1.224223484 1 9.057456298 -6.977065292 7.208006017 1.074672391 0.90962899 0.508397061 0.095277496 0.123407399 25.91339797 0.014587929 0.019045975 1.05E-07 6.977065292 -0.1650434 ESGNS(ph)QELAR ddPTM_HeLa_SAHA_4h_R1 1 ESGNSQELAR 10 0 Q86W50 Q86W50 METTL16 Methyltransferase-like protein 16 1 0 ESGNS(1)QELAR 84.297 0.022878 7604200 771.17 698.22 421.36 645.3 826.95 909.56 631.72 675.56 707.16 639.83 TRUE FALSE FALSE 852.2851989 720.8427861 478.7807465 657.7907146 763.5892697 832.060371 560.637203 658.2801534 702.238816 667.4162026 1.276992071 1.080049875 0.717364584 0.985577983 1.144097591 1.246688899 0.840011376 0.986311317 1.052175259 1 9.3824429 -6.990990317 24.99893563 1.133313361 0.99058108 0.11804399 0.152157715 317.0724232 879768.2996 0.027874651 0.036606082 1.02E-07 6.990990317 -0.142732281 ESGVAGDPWKEET(ph)DTDLEVVLEK ddPTM_HeLa_SAHA_4h_R1 2 ESGVAGDPWKEETDTDLEVVLEK 23 1 Q1ED39 Q1ED39 KNOP1 Lysine-rich nucleolar protein 1 1 0 ESGVAGDPWKEET(0.621)DT(0.379)DLEVVLEK;ESGVAGDPWKEET(0.5)DT(0.5)DLEVVLEK ; 92.034 0.00019577 17584500 2367.9 2807.2 2705.9 2684 3119.8 2959.5 3000.8 3659.9 2818.9 3038.1 TRUE FALSE FALSE 2616.966586 2898.155122 3074.64596 2735.952701 2880.761598 2707.33395 2663.142086 3566.285057 2799.283045 3169.087359 0.825779251 0.914507804 0.970199181 0.863325113 0.909019308 0.854294516 0.84034985 1.125335042 0.883308892 1 11.62985171 -9.638742846 1.480035741 0.999750662 0.896226668 0 0.090484913 0.561298312 2.218456955 0.056511912 0.012969026 2.30E-10 9.638742846 -0.103523994 ESGVAGDPWKEETDT(ph)DLEVVLEK ddPTM_HeLa_SAHA_4h_R1 1 ESGVAGDPWKEETDTDLEVVLEK 23 1 Q1ED39 Q1ED39 KNOP1 Lysine-rich nucleolar protein 1 1 0 ESGVAGDPWKEET(0.451)DT(0.549)DLEVVLEK 53.342 0.02184 3403400 533.52 648.54 539.32 798.35 682.52 868.79 782.28 750.34 695.12 945.1 TRUE FALSE FALSE 589.6380815 669.5531215 612.8157209 813.8032187 630.2254651 794.7642043 694.2557956 731.1473893 690.2826033 985.8478862 0.598102496 0.679164738 0.621612857 0.825485585 0.639272523 0.80617326 0.704222026 0.741643208 0.700191797 1 9.945221249 -9.406322072 1.107806172 1.001670763 0.695442443 0 0.114692499 0.217546255 0.473409235 0.051819443 0.012872659 3.92E-10 9.406322072 -0.30622832 ESGVVAVS(ph)PEKS(ph)ESPQKEDGLSSQLK ddPTM_HeLa_SAHA_4h_R1 1 ESGVVAVSPEKSESPQKEDGLSSQLK 26 2 Q96T58 Q96T58 SPEN Msx2-interacting protein 2 0 ESGVVAVS(0.965)PEKS(0.83)ES(0.205)PQKEDGLSSQLK 88.168 2.73E-05 11064000 3799.7 4073.7 3459.1 4626.7 4119.5 4768.6 4659.5 4106.5 4947.8 4226.6 TRUE FALSE FALSE 4199.36988 4205.690553 3930.488134 4716.256469 3803.8648 4362.288453 4135.200797 4001.461676 4913.367857 4408.82941 0.952490897 0.953924537 0.891503791 1.06972986 0.862783393 0.989443693 0.937936221 0.907601838 1.114438187 1 12.10617994 -7.66682236 0.008679378 1.929214193 8.56E-05 0.215277681 0.065809179 2021.297499 13.65747686 1526.181086 1508.23458 2.15E-08 7.66682236 -1.92912862 ESGVVAVS(ph)PEKSES(ph)PQKEDGLSSQLK ddPTM_HeLa_SAHA_4h_R1 1 ESGVVAVSPEKSESPQKEDGLSSQLK 26 2 Q96T58 Q96T58 SPEN Msx2-interacting protein 2 0 ES(0.001)GVVAVS(0.76)PEKS(0.513)ES(0.724)PQKEDGLS(0.001)S(0.001)QLK 72.573 0.00046752 11486000 863.78 834.29 626.36 774.63 1030.5 801.98 947.11 703.72 856.38 667.76 TRUE FALSE FALSE 954.6363436 861.3215434 711.7170789 789.6240838 951.5433126 733.6467922 840.5386901 685.7198614 850.4203819 696.5504015 1.370520125 1.236553079 1.021773984 1.133620887 1.366079627 1.053257296 1.206716252 0.984451175 1.220902866 1 9.444083938 -4.255366175 23.48972655 1.175577508 0.984450988 0.182155371 0.123386099 502.2735435 1942537.708 0.021330202 0.252231256 5.55E-05 4.255366175 -0.191126521 ESGVVAVSPEKS(ph)ESPQKEDGLSSQLK ddPTM_HeLa_SAHA_4h_R1 1 ESGVVAVSPEKSESPQKEDGLSSQLK 26 2 Q96T58 Q96T58 SPEN Msx2-interacting protein 1 0 ES(0.001)GVVAVS(0.174)PEKS(0.74)ES(0.082)PQKEDGLS(0.001)S(0.001)QLK 58.345 0.0029586 5972400 1315.8 1533 1288.3 1688.6 1542.4 2148.4 1661.2 1757.6 1828.3 1375.2 TRUE FALSE FALSE 1454.201881 1582.670206 1463.862815 1721.285295 1424.221645 1965.344233 1474.277404 1712.643137 1815.576711 1434.491602 1.013740254 1.103296948 1.020474998 1.199927063 0.992840699 1.370063255 1.027735124 1.193902519 1.265658655 1 10.48632381 -6.517013517 0.725119697 1.002291309 1.16804177 0 0.130222504 0.547183539 0.576286113 0.019481776 0.039234749 3.04E-07 6.517013517 0.165750461 ESGVVAVSPEKSES(ph)PQKEDGLSSQLK ddPTM_HeLa_SAHA_4h_R1 1 ESGVVAVSPEKSESPQKEDGLSSQLK 26 2 Q96T58 Q96T58 SPEN Msx2-interacting protein 1 0 ESGVVAVS(0.053)PEKS(0.19)ES(0.735)PQKEDGLS(0.01)S(0.012)QLK 49.765 0.0070498 6974200 941.6 1017 963.23 946.27 1056.3 1191.3 1372.2 1485.9 1348.2 1304.5 TRUE FALSE FALSE 1040.641808 1049.951467 1094.493968 964.5864242 975.3665222 1089.794538 1217.796445 1447.89283 1338.817766 1360.743379 0.764759781 0.771601379 0.804335325 0.708867255 0.716789468 0.800881749 0.894949381 1.064045471 0.983887033 1 10.4101793 -9.313487211 1.011518115 1.001225353 0.806902812 0.338429626 0.09754505 0.509128647 0.923708429 0.071449436 0.018528396 4.86E-10 9.313487211 -0.194322541 ESHT(ph)PVSIQEEIVGDFK ddPTM_HeLa_SAHA_4h_R1 1 ESHTPVSIQEEIVGDFK 17 0 E7ETD6;E9PE19;A0A2R8Y7Q1;Q12830-4;Q12830;A0A0A0MR81;F5H176 E7ETD6 BPTF Nucleosome-remodeling factor subunit BPTF 1 0 ES(0.366)HT(0.626)PVS(0.008)IQEEIVGDFK 127.37 0.00030211 2762500 2981.3 4031.9 2347.7 3522.9 4033 689.49 3738.8 3700.9 5405.9 4076.1 TRUE FALSE FALSE 3294.886813 4162.536205 2667.63233 3591.090824 3723.992411 630.741573 3318.100384 3606.236337 5368.279902 4251.840619 0.774931873 0.978996293 0.627406474 0.844596763 0.875854188 0.148345535 0.780391525 0.84815887 1.262577877 1 12.0538718 -8.431271295 0.216153824 1.120945204 0.604884694 0.313360858 0.22686189 4.855551612 0.571312565 0.840841631 0.363893109 3.70E-09 8.431271295 -0.516060511 ESIESEIRR ddPTM_HeLa_SAHA_4h_R1 4 ESIESEIRR 9 1 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 ;;; ;;; 175.51 3.69E-05 118999200 9207 8680.4 9843 9887.6 9828.5 10799 11182 9527.2 8995.1 9275.4 FALSE FALSE TRUE 10175.4345 8961.650655 11184.35278 10078.9888 9075.442453 9878.864446 9923.771931 9283.508019 8932.502367 9675.307887 1.051691029 0.926239326 1.155968669 1.041722797 0.938000378 1.021038768 1.025680221 0.959505178 0.923226679 1 13.24009186 ESLCDS(ph)PHQNLSR ddPTM_HeLa_SAHA_4h_R1 2 ESLCDSPHQNLSR 13 0 O15042-2;O15042;U3KPT1;C9JDJ7;C9J5L1;E7EW00;H0Y8D9;E7ET15 O15042-2 U2SURP U2 snRNP-associated SURP motif-containing protein 1 0 ES(0.138)LCDS(0.844)PHQNLS(0.018)R;ES(0.422)LCDS(0.578)PHQNLSR ; 125.36 0.00093436 7822900 1525.29 2102.83 1325.82 1567.44 1999 1798.7 1842 1888.13 2861 1667.14 TRUE FALSE FALSE 1685.727 2170.963072 1506.495845 1597.780068 1845.837052 1645.440641 1634.733312 1839.834369 2841.090068 1739.018564 0.96935538 1.248384069 0.866290836 0.91878264 1.061424582 0.946189233 0.940032123 1.057972817 1.63373188 1 10.76405762 ESLCDS(ph)PHQNLSRPLLENK ddPTM_HeLa_SAHA_4h_R1 2 ESLCDSPHQNLSRPLLENK 19 1 O15042-2;O15042;U3KPT1;C9JDJ7;C9J5L1;E7EW00;H0Y8D9;E7ET15 O15042-2 U2SURP U2 snRNP-associated SURP motif-containing protein 1 0 ES(0.106)LCDS(0.894)PHQNLS(0.001)RPLLENK;ES(0.14)LCDS(0.86)PHQNLS(0.001)RPLLENK ; 59.574 0.0088823 68243000 6981.4 7432.9 5697.5 7654.4 8960.8 9279.5 8660.5 8038.8 7833.4 7817.8 TRUE FALSE FALSE 7715.735684 7673.730837 6473.925629 7802.56198 8274.22544 8488.834395 7685.997747 7833.179136 7778.886732 8154.863617 0.946151407 0.941000512 0.793872949 0.956798586 1.014636888 1.04095357 0.942504756 0.960553052 0.95389538 1 12.99344503 -3.932883037 13.55189886 0.96371545 0.93491322 0 0.06335645 7145503.622 39494049.78 0.009208583 5561386.993 0.000116712 3.932883037 -0.02880223 ESLGRPQGFEVGYWKDMEQEDTAETVK ddPTM_HeLa_SAHA_4h_R1 1 ESLGRPQGFEVGYWKDMEQEDTAETVK 27 2 A0A087WTT8;A0A0A0MQX5;O94779-2;O94779 A0A087WTT8 CNTN5 Contactin-5 0 0 32.72 0.02246 4472000 907.47 998.45 1201.4 1012.8 859.36 1031.4 996.69 746.79 1485.2 783.27 FALSE FALSE TRUE 1002.921858 1030.800435 1365.120535 1032.404209 793.5160225 943.5189175 884.5398181 727.6881931 1474.864372 817.0406029 1.22750553 1.261626939 1.670811133 1.263589845 0.971207575 1.154800525 1.082614273 0.89063896 1.805129839 1 9.674263965 -3.812019995 1.07968225 1.168446617 0.450157873 0.056794954 0.272895466 6.463768566 3.091998007 0.031967669 6.702209656 0.000154163 3.812019995 -0.718288744 ESLPPAAEPS(ph)PVSK ddPTM_HeLa_SAHA_4h_R1 3 ESLPPAAEPSPVSK 14 0 Q9NWT1 Q9NWT1 PAK1IP1 p21-activated protein kinase-interacting protein 1 1 0 ESLPPAAEPS(0.619)PVS(0.381)K;ESLPPAAEPS(0.57)PVS(0.43)K;ES(0.001)LPPAAEPS(0.997)PVS(0.002)K ;; 207.4 2.01E-12 73043000 12946.2 14198.4 10784.6 12874.2 14255.2 15806 14381.6 13432.6 15121.8 13079.9 TRUE FALSE FALSE 14307.94072 14658.43748 12254.26912 13123.39876 13162.96966 14459.23988 12763.34452 13089.01354 15016.56616 13643.8385 1.048674148 1.074363162 0.898154073 0.961855328 0.964755604 1.059763341 0.935465816 0.959335127 1.100611544 1 13.73596196 -6.77408754 24.99999853 1.027480598 0.966355807 0.42804128 0.04811779 208.995296 413093.4377 0.007145874 0.009426121 1.68E-07 6.77408754 -0.061124792 ESLQQMAEVTR ddPTM_HeLa_SAHA_4h_R1 2 ESLQQMAEVTR 11 0 K7ELL7;P14314-2;P14314;K7EKX1;K7EJ70;K7EPW7 K7ELL7 PRKCSH Glucosidase 2 subunit beta 0 0 ; ; 128.81 0.0063515 21132000 1083.36 1343.87 1051.87 1069.63 1173.72 1446.02 1428.94 1354.3 1018.55 1010.08 FALSE FALSE TRUE 1197.312775 1387.41227 1195.213366 1090.334235 1083.789827 1322.810961 1268.15191 1319.658967 1011.461828 1053.629492 1.136369838 1.316793313 1.134377288 1.034836481 1.028625181 1.255480196 1.203603278 1.252488638 0.95997866 1 10.04115192 -13.52287874 0.161409831 0.327310814 1.215878104 0.418244441 0.089016394 55.19946042 0.592738158 11.61827122 0.179703199 3.00E-14 13.52287874 0.88856729 ESLS(ph)PGK ddPTM_HeLa_SAHA_4h_R1 2 ESLSPGK 7 0 E7ETM8;Q0ZGT2-4;E7EUA0;Q0ZGT2-2;Q0ZGT2;H7BXY5 E7ETM8 NEXN Nexilin 1 0 ESLS(1)PGK;ES(0.001)LS(0.999)PGK ; 131.62 0.0011602 38534000 5444.7 9018 4185.5 7162.7 10256.9 13892.9 9368.1 7734.3 16242.6 11102 TRUE FALSE FALSE 6017.398527 9310.189117 4755.878143 7301.344416 9471.018538 12709.14676 8313.976733 7536.467805 16129.56642 11580.66155 0.519607494 0.803942769 0.410674133 0.630477316 0.817830527 1.09744566 0.71791898 0.650780421 1.392801815 1 13.49943005 -4.519988661 24.99669909 0.760557496 0.667564977 0 0.278100621 413.999196 3580648.498 0.032616456 0.126993635 3.02E-05 4.519988661 -0.092992519 ESLS(ph)PGKLK ddPTM_HeLa_SAHA_4h_R1 1 ESLSPGKLK 9 1 E7ETM8;Q0ZGT2-4;E7EUA0;Q0ZGT2-2;Q0ZGT2;H7BXY5 E7ETM8 NEXN Nexilin 1 0 ESLS(1)PGKLK 126.71 0.0018802 0 1669.4 1807.4 1462.8 1540.8 1914.9 2007.5 1481.8 1324.9 1920.7 1448.8 TRUE FALSE FALSE 1844.995151 1865.960946 1662.142766 1570.624412 1768.180776 1836.449706 1315.063964 1291.010976 1907.333692 1511.264858 1.220828461 1.234701473 1.099835517 1.039278061 1.17000059 1.215173962 0.870174382 0.854258583 1.262077711 1 10.56154081 -4.746616185 24.32162253 1.121351721 0.862216136 0.628512567 0.087045313 102.4565637 168104.5401 0.013719269 0.050857836 1.79E-05 4.746616185 -0.259135585 ESLT(ph)PGREENPSSVLAQER ddPTM_HeLa_SAHA_4h_R1 3 ESLTPGREENPSSVLAQER 19 1 D6RDA9;Q3MSN4;A0A494C0P1;P04150-7;P04150-5;P04150-2;P04150-6;P04150-10;P04150;P04150-3 D6RDA9 NR3C1 Glucocorticoid receptor 1 0 ES(0.017)LT(0.977)PGREENPS(0.005)S(0.001)VLAQER;ES(0.018)LT(0.982)PGREENPSSVLAQER;ESLT(0.998)PGREENPS(0.001)SVLAQER ;; 133.52 0.00089726 20692300 2333.71 2648.37 2088.71 2282.1 2785.44 3745.6 2825.29 2265.59 2893.61 2990.62 TRUE FALSE FALSE 2579.180325 2734.178926 2373.348521 2326.273345 2572.020189 3426.453808 2507.380933 2207.639488 2873.473132 3119.560264 0.826776887 0.876462929 0.760795856 0.745705532 0.824481648 1.098377181 0.803761018 0.7076765 0.921114801 1 11.60712696 -9.1669084 0.746586965 1.009187769 0.833336966 0.186282903 0.103616961 0.853882253 0.792696596 0.090984423 0.021412212 6.81E-10 9.1669084 -0.175850803 ESLTEAEVATEKEGEDGDQPT(ph)TPPKPLK ddPTM_HeLa_SAHA_4h_R1 1 ESLTEAEVATEKEGEDGDQPTTPPKPLK 28 2 M0R0Q7;P18858-2;P18858-3;P18858;B4E135 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 ESLTEAEVATEKEGEDGDQPT(0.5)T(0.5)PPKPLK 55.718 0.015053 17738000 1277.6 1841.9 1353.6 1344.6 1778.6 2072.3 1753.8 1622.4 2415.4 1455.6 TRUE FALSE FALSE 1411.98383 1901.578769 1538.061559 1370.626677 1642.324052 1895.728382 1556.457808 1580.901357 2398.591035 1518.35804 0.929941287 1.252391543 1.01297686 0.902703211 1.081644783 1.248538442 1.025092743 1.041191416 1.579726897 1 10.56829631 ESMEAS(ph)PEAMVK ddPTM_HeLa_SAHA_4h_R1 6 ESMEASPEAMVK 12 0 A0A0A0MRP0;Q8IWC1-2;Q8IWC1-4;Q8IWC1;Q8IWC1-3 A0A0A0MRP0 MAP7D3 MAP7 domain-containing protein 3 1 0 ES(0.448)MEAS(0.552)PEAMVK;ES(0.204)MEAS(0.796)PEAMVK;ES(0.001)MEAS(0.999)PEAMVK;ES(0.008)MEAS(0.992)PEAMVK;ESMEAS(1)PEAMVK;ES(0.009)MEAS(0.991)PEAMVK ;;;;; 188.15 7.84E-07 58790200 13778.5 13797.7 10967.13 13428.5 15179 15942.5 15544.1 13843.6 16183.1 13982.9 TRUE FALSE FALSE 15227.78585 14244.75453 12461.67336 13688.42804 14015.9883 14584.10931 13795.03696 13489.50076 16070.48049 14585.77125 1.0440165 0.976619905 0.854371918 0.938478179 0.9609357 0.999886057 0.945787283 0.924839731 1.101791617 1 13.83227405 -7.002821704 24.98606753 1.020234658 0.939540652 0.53690374 0.043858694 71.5902217 633934.699 0.006247471 0.008126953 9.94E-08 7.002821704 -0.080694006 ESNYFGLS(ph)PEER ddPTM_HeLa_SAHA_4h_R1 4 ESNYFGLSPEER 12 0 Q01804-5;Q01804-3;Q01804 Q01804-5 OTUD4 OTU domain-containing protein 4 1 0 ESNYFGLS(1)PEER;ESNYFGLS(1)PEER;ESNYFGLS(1)PEER;ESNYFGLS(1)PEER ;;; 190.24 6.15E-07 56428100 5321.79 5265.5 4995.8 5831.81 6108.23 6439.6 5830.2 5735 6532 5943.3 TRUE FALSE FALSE 5881.560289 5436.105655 5676.601607 5944.693115 5640.218737 5890.909852 5174.170552 5588.307004 6486.54328 6199.544749 0.948708418 0.87685562 0.915648138 0.958891879 0.909779502 0.950216522 0.83460492 0.901406027 1.046293485 1 12.59794656 ESNYFGLS(ph)PEERR ddPTM_HeLa_SAHA_4h_R1 2 ESNYFGLSPEERR 13 1 Q01804-5;Q01804-3;Q01804 Q01804-5 OTUD4 OTU domain-containing protein 4 1 0 ESNYFGLS(1)PEERR;ESNYFGLS(1)PEERR ; 113.14 0.0010563 13116900 4475.3 3465.4 4251.2 4001.8 4873.2 4410 4586.4 5011.5 3243.1 4006.6 TRUE FALSE FALSE 4946.032587 3577.681234 4830.531397 4079.260626 4499.816469 4034.24319 4070.326201 4883.313087 3220.531003 4179.344134 1.183447074 0.856038919 1.155810874 0.97605282 1.076680054 0.965281408 0.973915062 1.168440054 0.770582871 1 12.02906084 ESPRPLQLPGAEGPAIS(ph)DGEEGGGEPGAGGGAAGAAGAGR ddPTM_HeLa_SAHA_4h_R1 7 ESPRPLQLPGAEGPAISDGEEGGGEPGAGGGAAGAAGAGR 40 1 Q6PKG0;A0A0B4J210 Q6PKG0 LARP1 La-related protein 1 1 0 ESPRPLQLPGAEGPAIS(1)DGEEGGGEPGAGGGAAGAAGAGR;ESPRPLQLPGAEGPAIS(1)DGEEGGGEPGAGGGAAGAAGAGR;ESPRPLQLPGAEGPAIS(1)DGEEGGGEPGAGGGAAGAAGAGR;ESPRPLQLPGAEGPAIS(1)DGEEGGGEPGAGGGAAGAAGAGR;ESPRPLQLPGAEGPAIS(1)DGEEGGGEPGAGGGAAGAAGAGR;ESPRPLQLPGAEGPAIS(1)DGEEGGGEPGAGGGAAGAAGAGR;ESPRPLQLPGAEGPAIS(1)DGEEGGGEPGAGGGAAGAAGAGR ;;;;;; 118.5 6.17E-22 261169900 4234.78 4903.92 3304.67 4024.77 5102.81 5482.18 4616.78 4663.86 5837.31 4535.67 TRUE FALSE FALSE 4680.21359 5062.810226 3755.013218 4102.675243 4711.8338 5015.067422 4097.287764 4544.565214 5796.687684 4731.224931 0.989218154 1.07008445 0.79366618 0.867148636 0.995901457 1.059993447 0.866009928 0.960547275 1.225198076 1 12.20799804 ESPRPLQLPGAEGPAIS(ph)DGEEGGGEPGAGGGAAGAAGAGRR ddPTM_HeLa_SAHA_4h_R1 1 ESPRPLQLPGAEGPAISDGEEGGGEPGAGGGAAGAAGAGRR 41 2 Q6PKG0;A0A0B4J210 Q6PKG0 LARP1 La-related protein 1 1 0 ESPRPLQLPGAEGPAIS(1)DGEEGGGEPGAGGGAAGAAGAGRR 90.322 1.02E-13 78211000 331.09 299.19 534.77 421.6 216.81 240.94 371.36 508.32 187.08 353.93 TRUE FALSE FALSE 365.9155653 308.8839523 607.6456706 429.7606776 200.1980646 220.4105565 329.5735954 495.3179104 185.778095 369.1896544 0.991131688 0.836653868 1.645890299 1.16406479 0.542263474 0.597011736 0.892694558 1.341635402 0.503205041 1 8.528218315 -5.797847085 24.9999652 1.047140435 0.829321835 0.061702949 0.334746838 292.3946032 200776.9219 0.043306643 0.078501668 1.59E-06 5.797847085 -0.2178186 ESPSST(ph)TPPIEISSSR ddPTM_HeLa_SAHA_4h_R1 1 ESPSSTTPPIEISSSR 16 0 Q9HC44 Q9HC44 GPBP1L1 Vasculin-like protein 1 1 0 ESPSS(0.005)T(0.898)T(0.097)PPIEISSSR 187.08 2.65E-11 3936500 830 1013.2 1008.9 815.52 890.82 1046 1122.5 1109.9 882.49 970.98 TRUE FALSE FALSE 917.3032082 1046.028345 1146.387638 831.3055689 822.5655641 956.8749154 996.1933457 1081.510365 876.3486802 1012.8437 0.905671041 1.032763836 1.13185049 0.820763924 0.812134749 0.944740946 0.983560786 1.067795915 0.865235851 1 9.984195842 ESPSSTT(ph)PPIEISSSR ddPTM_HeLa_SAHA_4h_R1 1 ESPSSTTPPIEISSSR 16 0 Q9HC44 Q9HC44 GPBP1L1 Vasculin-like protein 1 1 0 ESPSS(0.007)T(0.034)T(0.96)PPIEISSSR 159.41 8.18E-06 4676800 845.82 1077 841.18 1054.7 979.53 1248.1 956.93 1135.5 926.59 858.96 TRUE FALSE FALSE 934.7872284 1111.895507 955.8116297 1075.115244 904.478623 1141.754858 849.2537179 1106.455554 920.1417847 895.9939692 1.04329634 1.240963159 1.066761231 1.199913482 1.009469543 1.274288553 0.94783419 1.234891743 1.026950868 1 9.807345212 -7.478526873 12.61974003 1.019081318 1.132328895 0.219263121 0.10044835 1.650455713 468.9094051 0.015078892 0.017027459 3.32E-08 7.478526873 0.113247577 EIVEK(ac)SK ddPTM_HeLa_SAHA_4h_R1 2 EIVEKSK 7 1 Q14686;A0A0D9SFT8;F6M2K2 Q14686 NCOA6 Nuclear receptor coactivator 6 0 1 ; EIVEK(1)SK;EIVEK(1)SK 123.98 0.0013589 4857500 2001.35 3063.7 3559.6 5590.6 7237.8 7425.8 7876.2 7738.9 2226.25 1722.14 FALSE TRUE FALSE 2211.861176 3162.96589 4044.68375 5698.814147 6683.241328 6793.080064 6989.949247 7540.950144 2210.757345 1796.389883 1.231281247 1.760734638 2.251562307 3.17237043 3.720373506 3.781517657 3.891109225 4.197836012 1.230666775 1 10.81088479 -6.382282195 0.904442175 1.065915814 4.044614078 0.992159452 0.105988321 0.026752414 0.043503051 0.018383421 0.037512933 4.15E-07 6.382282195 2.978698264 up ESQSPDTTIQR ddPTM_HeLa_SAHA_4h_R1 1 ESQSPDTTIQR 11 0 Q92973-2;Q92973;Q92973-3;E7EW37 Q92973-2 TNPO1 Transportin-1 0 0 146.71 5.94E-07 0 760.87 1113.3 798.4 1065.3 956.03 1226.7 1104.4 1131.1 1048.4 895.89 FALSE FALSE TRUE 840.9017976 1149.37165 907.2017941 1085.920422 882.7791879 1122.178259 980.1300054 1102.1681 1041.104099 934.5162023 0.899825809 1.229910886 0.970771606 1.162013477 0.944637649 1.200811988 1.048810072 1.179399669 1.114056767 1 9.868075867 -7.282868884 24.99712186 0.952695519 1.097542735 0.102166972 0.105801252 612.6557776 714649.7578 0.014763856 0.016892038 5.21E-08 7.282868884 0.144847215 ESRPGLVTVTSSQST(ph)PAK ddPTM_HeLa_SAHA_4h_R1 1 ESRPGLVTVTSSQSTPAK 18 1 F5GZ90;Q9NZJ0 F5GZ90 DTL Denticleless protein homolog 1 0 ESRPGLVTVTS(0.004)S(0.018)QS(0.197)T(0.78)PAK 75.064 0.010272 13263000 1045.6 1482.7 1246.5 1293.9 1491.9 1805.9 1084.2 1600.7 1713.9 1512.2 TRUE FALSE FALSE 1155.581005 1530.740453 1416.366529 1318.945306 1377.590944 1652.02716 962.2029625 1559.756412 1701.97283 1577.398343 0.732586674 0.970420985 0.897913032 0.836152334 0.873331046 1.047311333 0.609993644 0.988815805 1.078974654 1 10.62333132 -9.679925593 1.553857204 0.99978115 0.848006489 0.196955242 0.124615537 0.542812714 2.36610174 0.083548313 0.018732626 2.09E-10 9.679925593 -0.15177466 ESRS(ph)PQQSAALPR ddPTM_HeLa_SAHA_4h_R1 3 ESRSPQQSAALPR 13 1 A0A0A6YYG7;Q6IBW4-2;Q6IBW4;Q6IBW4-4;E5RJN3 A0A0A6YYG7 NCAPH2 Condensin-2 complex subunit H2 1 0 ES(0.01)RS(0.975)PQQS(0.015)AALPR;ES(0.045)RS(0.603)PQQS(0.352)AALPR;ESRS(1)PQQSAALPR ;; 171.11 9.98E-05 69274600 4889.39 4620.68 4434.6 5007.83 5235.46 5841.4 5793.6 5778.63 4676.22 4753.64 TRUE FALSE FALSE 5403.678474 4770.393064 5038.924194 5104.763791 4834.320186 5343.679857 5141.68888 5630.821012 4643.677804 4958.592684 1.089760506 0.962045759 1.016200465 1.029478345 0.97493795 1.077660578 1.036925032 1.13556837 0.936491077 1 12.27571501 -3.448446275 1.320621776 1.031331962 1.693894873 0.309111076 0.048717074 9.28183507 2.791616895 0.006596743 13.90851393 0.000356085 3.448446275 0.662562911 ESS(ph)NPSDRWR ddPTM_HeLa_SAHA_4h_R1 2 ESSNPSDRWR 10 1 Q9Y388 Q9Y388 RBMX2 "RNA-binding motif protein, X-linked 2" 1 0 ESS(1)NPSDRWR;ESS(0.949)NPS(0.051)DRWR ; 177.44 1.74E-06 28230000 6186.3 6024.3 5958.7 7408.8 6491 6755 7582.4 6760.9 6251.2 6142.9 TRUE FALSE FALSE 6837.003418 6219.491273 6770.720604 7552.208037 5993.660982 6179.435997 6729.208396 6587.965968 6207.69739 6407.750482 1.066989646 0.970620078 1.056645483 1.1786052 0.935376775 0.964369011 1.050167046 1.02812461 0.968779513 1 12.64560225 ESS(ph)PAARPSPEK ddPTM_HeLa_SAHA_4h_R1 1 ESSPAARPSPEK 12 1 J3KQR7;Q9Y4F5-3;Q9Y4F5-2;Q9Y4F5 J3KQR7 CEP170B Centrosomal protein of 170 kDa protein B 1 0 ES(0.287)S(0.713)PAARPSPEK 106.29 0.017227 1859500 435.79 567.09 502.34 689.33 490.98 732.56 554.9 647.72 959.76 514.16 TRUE FALSE FALSE 481.6283917 585.4640881 570.7962791 702.6729789 453.3612185 670.1417667 492.4611916 631.1522603 953.080952 536.3279538 0.89801098 1.091615837 1.064267255 1.310155426 0.845305965 1.249499978 0.91820907 1.176802842 1.77704881 1 9.06697164 -7.246575845 23.41160133 0.95183852 1.090577203 0 0.2928578 391.6816868 616938.5952 0.020139096 0.024597641 5.67E-08 7.246575845 0.138738683 ESS(ph)PEKEAEEGCPEK ddPTM_HeLa_SAHA_4h_R1 4 ESSPEKEAEEGCPEK 15 1 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 ES(0.166)S(0.834)PEKEAEEGCPEK;ES(0.177)S(0.823)PEKEAEEGCPEK;ES(0.149)S(0.851)PEKEAEEGCPEK;ES(0.191)S(0.809)PEKEAEEGCPEK ;;; 135.86 0.00089322 21588700 3758.6 5574.8 3653.01 5395.8 5361.7 5965.9 4878.53 4388.27 7936.3 5179.2 TRUE FALSE FALSE 4153.946793 5755.427178 4150.823179 5500.243511 4950.887704 5457.571757 4329.584965 4276.024408 7881.070642 5402.500658 0.768893343 1.065326511 0.768315164 1.01809215 0.916406682 1.010193631 0.801403875 0.791489845 1.458781986 1 12.39941163 -9.735025615 1.664005608 1.000010397 0.877055952 0.174477397 0.180825026 0.581867822 2.911990964 0.076963838 0.016716821 1.84E-10 9.735025615 -0.122954445 ESS(ph)PEKEAEEGCPEKESEEGCPK ddPTM_HeLa_SAHA_4h_R1 3 ESSPEKEAEEGCPEKESEEGCPK 23 2 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 ES(0.007)S(0.993)PEKEAEEGCPEKESEEGCPK;ES(0.043)S(0.946)PEKEAEEGCPEKES(0.011)EEGCPK;ES(0.204)S(0.796)PEKEAEEGCPEKESEEGCPK ;; 131.9 1.04E-06 141802000 2489.23 2779.86 2441.94 2814.54 3429.64 3149.15 2937.57 3106.97 3190.21 2451.68 TRUE FALSE FALSE 2751.058632 2869.929288 2774.714866 2869.019492 3166.861724 2880.824703 2607.026892 3027.498206 3168.009069 2557.383923 1.075731574 1.122212923 1.084981743 1.12185717 1.238320807 1.126473299 1.019411622 1.183826245 1.238769447 1 11.32045304 -8.00865461 0.553573582 1.003113192 1.133914435 0 0.09058829 0.518426021 0.370191042 0.027620196 0.017334596 9.80E-09 8.00865461 0.130801243 ESS(ph)PFLSPLEASR ddPTM_HeLa_SAHA_4h_R1 2 ESSPFLSPLEASR 13 0 Q9UP95-4;Q9UP95-3;Q9UP95-5;Q9UP95-2;Q9UP95-6;Q9UP95 Q9UP95-4 SLC12A4 Solute carrier family 12 member 4 1 0 ES(0.015)S(0.985)PFLS(0.001)PLEASR;ES(0.058)S(0.942)PFLSPLEASR ; 154.1 0.00011647 12403100 2430.94 3707.3 3148.6 3287.15 3814.2 3646.4 4040 3678.4 2734.36 2658.53 TRUE FALSE FALSE 2686.637423 3827.418952 3577.674811 3350.777542 3521.95682 3335.706206 3585.408567 3584.311854 2715.331366 2773.152239 0.968802717 1.380169072 1.290111217 1.208291955 1.270019284 1.202857225 1.292900014 1.292504538 0.979149766 1 11.4373111 -7.272938645 24.99515451 0.985267941 1.272105369 0.890753156 0.047167691 156.892898 341026.5264 0.008103186 0.009308989 5.33E-08 7.272938645 0.286837428 ESS(ph)PIPS(ph)PTSDR ddPTM_HeLa_SAHA_4h_R1 1 ESSPIPSPTSDR 12 0 A0A087WUZ3;Q01082 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 2 0 ES(0.365)S(0.635)PIPS(0.944)PT(0.04)S(0.015)DR 182.72 0.00010592 20435000 1981.8 1991.1 1564.9 2090.2 2264.4 2183 2342.1 2144.5 2598.6 2177.8 TRUE FALSE FALSE 2190.254817 2055.612946 1778.156422 2130.658843 2090.902161 1996.996119 2078.560744 2089.646795 2580.516131 2271.695616 0.964149775 0.904880448 0.782744136 0.937915638 0.920414754 0.879077331 0.914982064 0.919862142 1.135942735 1 11.14955383 -7.34777963 2.975814965 0.985010878 0.892544005 0.463766816 0.062784256 0.158448659 2.635671971 0.007414598 0.008500895 4.49E-08 7.34777963 -0.092466872 ESS(ph)PIPS(ph)PTSDRK ddPTM_HeLa_SAHA_4h_R1 3 ESSPIPSPTSDRK 13 1 A0A087WUZ3;Q01082 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 2 0 ES(0.072)S(0.928)PIPS(0.569)PT(0.243)S(0.188)DRK;ES(0.264)S(0.736)PIPS(0.8)PT(0.124)S(0.075)DRK;ES(0.052)S(0.948)PIPS(0.879)PT(0.048)S(0.073)DRK ;; 185.32 6.17E-07 16268500 5585.2 6453.4 4588.5 5811.7 7016.5 7269.4 6319 5800.4 6362.9 5513.7 TRUE FALSE FALSE 6172.676962 6662.494394 5213.796884 5924.193857 6478.897286 6650.006223 5607.969489 5652.034167 6318.620061 5751.42259 1.073243509 1.158408079 0.906523004 1.030039745 1.126486045 1.15623676 0.975057805 0.982719332 1.098618639 1 12.48970313 -5.893645197 18.46320429 1.034746573 1.063081656 0 0.080889949 6.829559101 1155.073616 0.012012746 0.021775154 1.28E-06 5.893645197 0.028335083 ESS(ph)PIPSPT(ph)SDRK ddPTM_HeLa_SAHA_4h_R1 1 ESSPIPSPTSDRK 13 1 A0A087WUZ3;Q01082 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 2 0 ES(0.15)S(0.85)PIPS(0.091)PT(0.518)S(0.39)DRK 89.232 0.0091182 20160000 4299.3 4295.9 2936.4 4193.1 4705.6 5500 4744 4545 5794.2 4369.4 TRUE FALSE FALSE 4751.5201 4435.089979 3336.5573 4274.263514 4345.057945 5031.369058 4210.192634 4428.745481 5753.87769 4557.786217 1.042506136 0.973079861 0.73205656 0.937793769 0.953326404 1.10390633 0.923736313 0.971687848 1.262428165 1 12.15411754 -7.00441931 24.99826081 1.019426066 0.937142553 0.206441626 0.114658602 268.1263045 1516692.505 0.014255215 0.018490246 9.90E-08 7.00441931 -0.082283514 ESS(ph)PIPSPTSDR ddPTM_HeLa_SAHA_4h_R1 1 ESSPIPSPTSDR 12 0 A0A087WUZ3;Q01082 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 ES(0.09)S(0.907)PIPS(0.003)PTSDR 139.76 0.00068252 7001600 1679.7 1599.8 1274.8 1887.8 2009 2287.9 1875.5 2093.5 2165.4 1683.5 TRUE FALSE FALSE 1856.378553 1651.63457 1448.523105 1924.341099 1855.070854 2092.958049 1664.463804 2039.951301 2150.330805 1756.083924 1.057112663 0.940521434 0.82485984 1.095813858 1.056367995 1.191832589 0.947827027 1.161647956 1.22450344 1 10.77814608 ESS(ph)PLPK ddPTM_HeLa_SAHA_4h_R1 3 ESSPLPK 7 0 Q9HCE3 Q9HCE3 ZNF532 Zinc finger protein 532 1 0 ES(0.066)S(0.934)PLPK;ES(0.007)S(0.993)PLPK;ES(0.027)S(0.973)PLPK ;; 113.26 0.0065098 30599000 13691.2 16377.7 11453.9 15707.8 15749.1 19907.1 16507.7 13587.8 22442.6 17670.1 TRUE FALSE FALSE 15131.30323 16908.34823 13014.77784 16011.84718 14542.40736 18210.90309 14650.21015 13240.24375 22286.42012 18431.94449 0.820928212 0.917339364 0.706099015 0.868700923 0.78897847 0.9880077 0.794827163 0.71833136 1.209119317 1 14.16992066 -9.330017725 0.577533137 1.032724228 0.824029354 0.482467909 0.104572466 1.034649782 0.472399482 0.117939272 0.018109741 4.68E-10 9.330017725 -0.208694874 ESS(ph)PLSSR ddPTM_HeLa_SAHA_4h_R1 4 ESSPLSSR 8 0 A0A0A0MS66;Q14693-6;Q14693;Q14693-2;Q14693-4;Q14693-3;Q14693-5;Q14693-7 A0A0A0MS66 LPIN1 Phosphatidate phosphatase LPIN1 1 0 ES(0.002)S(0.998)PLSSR;ES(0.048)S(0.952)PLSSR;ES(0.131)S(0.869)PLSSR;ES(0.021)S(0.979)PLSSR ;;; 145.46 0.00042903 18459600 9660.1 9826.1 8518.5 11871.1 10187.3 11440 10500.5 11114.1 11799.4 10564.3 TRUE FALSE FALSE 10676.19364 10144.47209 9679.356818 12100.88231 9406.751275 10465.24764 9318.956104 10829.81742 11717.28701 11019.77867 0.968821059 0.920569495 0.87836218 1.098105748 0.853624338 0.949678569 0.845657284 0.98276179 1.063296039 1 13.42780763 -7.531475561 0.262740142 1.015336621 0.906404845 0.195115171 0.072053334 2.520532671 0.641444537 0.105886246 0.093897995 2.94E-08 7.531475561 -0.108931776 ESS(ph)PLYS(ph)PTFSDSTSAVK ddPTM_HeLa_SAHA_4h_R1 2 ESSPLYSPTFSDSTSAVK 18 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 ES(0.005)S(0.995)PLYS(0.967)PT(0.012)FS(0.02)DSTSAVK;ES(0.067)S(0.933)PLYS(0.725)PT(0.032)FS(0.032)DS(0.172)T(0.032)S(0.006)AVK ; 239.33 2.61E-36 107206000 6331.4 6532.9 5507.6 6817.3 7892.5 8014.9 7671.3 7216.9 7133.8 6237.3 TRUE FALSE FALSE 6997.365702 6744.570246 6258.147046 6949.258699 7287.778355 7331.985429 6808.105134 7032.302148 7084.155305 6506.220528 1.075488553 1.036634128 0.961871338 1.068094552 1.120124706 1.126919292 1.046399381 1.080858252 1.088828034 1 12.66760401 -6.007168979 24.85733473 1.030889356 1.092777684 0.352169866 0.03911924 273.8793749 949639.0763 0.006093258 0.010736938 9.84E-07 6.007168979 0.061888328 ESS(ph)PLYSPTFSDSTSAVK ddPTM_HeLa_SAHA_4h_R1 5 ESSPLYSPTFSDSTSAVK 18 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 ES(0.415)S(0.585)PLYSPTFSDSTSAVK;ES(0.001)S(0.999)PLYSPTFSDSTSAVK;ES(0.002)S(0.998)PLYSPTFSDSTSAVK;ES(0.369)S(0.594)PLYS(0.037)PTFSDSTSAVK;ES(0.293)S(0.707)PLYSPTFSDSTSAVK ;;;; 276.14 1.06E-60 911449000 6570.16 7559.84 6722.1 6422.34 7261.63 7440.14 7710.07 7266.69 7411.59 6097.67 TRUE FALSE FALSE 7261.239574 7804.783776 7638.152781 6546.653678 6705.245478 6806.198215 6842.512632 7080.818592 7360.012142 6360.570395 1.141601951 1.227057212 1.20085972 1.029255754 1.054189336 1.070060984 1.075770286 1.113236416 1.157130836 1 12.63494043 -9.304879354 1.118590878 1.002233824 1.114282123 0 0.076156827 0.488541504 1.126222017 0.040677946 0.011757734 4.96E-10 9.304879354 0.112048299 ESS(ph)PSHGLLK ddPTM_HeLa_SAHA_4h_R1 1 ESSPSHGLLK 10 0 Q96JH7 Q96JH7 VCPIP1 Deubiquitinating protein VCIP135 1 0 ES(0.303)S(0.695)PS(0.003)HGLLK 183.03 9.79E-06 7686100 1433.2 1735.9 1425.5 1899 2658.2 2946.9 2413.1 2416.3 2006.3 1706.1 TRUE FALSE FALSE 1583.950552 1792.144299 1619.759716 1935.757891 2454.52929 2695.807541 2141.571637 2354.494545 1992.337995 1779.65832 0.890030706 1.007015941 0.910152077 1.087713225 1.379213786 1.51478939 1.203361124 1.323003701 1.119505903 1 10.79738457 -5.90783752 3.465727068 0.950491724 1.355828031 0.766747887 0.095478472 0.067111657 1.595847073 0.012544505 0.023687906 1.24E-06 5.90783752 0.405336308 ESSAMAS(ph)PLPR ddPTM_HeLa_SAHA_4h_R1 2 ESSAMASPLPR 11 0 Q9C0C2;E9PKK0;E9PKE7 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 ESSAMAS(1)PLPR;ESSAMAS(1)PLPR ; 160.67 0.00020567 16478400 3218.2 3397.6 2886.6 2662.9 3097.6 3604.5 2837.8 2487 2793.6 2547.9 TRUE FALSE FALSE 3556.705042 3507.684469 3279.970815 2714.44428 2860.262557 3297.376322 2518.483275 2423.386141 2774.15911 2657.752438 1.3382379 1.319793529 1.234114498 1.021330746 1.076196005 1.240663455 0.947598896 0.91181786 1.043798915 1 11.37599101 -6.25501265 24.55949199 1.183404541 1.047626621 0.246412159 0.128644571 635.6443831 2429086.085 0.024493053 0.03998742 5.56E-07 6.25501265 -0.13577792 ESSANNS(ph)VSPSESLR ddPTM_HeLa_SAHA_4h_R1 1 ESSANNSVSPSESLR 15 0 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726 H0YKH0 TLE3 Transducin-like enhancer protein 3 1 0 ESSANNS(0.769)VS(0.229)PS(0.002)ESLR 241.3 2.00E-33 142120000 2196.5 1876.3 1911 2348.3 2476.8 2525.3 2643.1 2542.8 2618.8 2411.6 TRUE FALSE FALSE 2427.537948 1937.093351 2171.421128 2393.754742 2287.028119 2310.130233 2345.691432 2477.758858 2600.575558 2515.575878 0.965002872 0.770039722 0.863190471 0.951573261 0.909146943 0.918330571 0.932466976 0.984966854 1.033789352 1 11.29667299 -7.497598639 19.66079859 0.984560904 0.903532004 0.369011223 0.056689319 20.78430706 16165.83023 0.0099192 0.010739537 3.18E-08 7.497598639 -0.0810289 ESSANNSVS(ph)PSESLR ddPTM_HeLa_SAHA_4h_R1 4 ESSANNSVSPSESLR 15 0 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726 H0YKH0 TLE3 Transducin-like enhancer protein 3 1 0 ESSANNS(0.006)VS(0.988)PS(0.006)ESLR;ESSANNS(0.001)VS(0.971)PS(0.028)ESLR;ESSANNS(0.225)VS(0.773)PS(0.002)ESLR;ESSANNSVS(0.979)PS(0.019)ES(0.002)LR ;;; 290.37 4.05E-70 331084000 4837.04 4607.22 4797.5 4775.34 4564.64 5972.24 5529.64 5407.43 5012.38 5217.35 TRUE FALSE FALSE 5345.82206 4756.496951 5451.278316 4867.773611 4214.898269 5463.371553 4907.430354 5269.11577 4977.498439 5442.295492 0.982273393 0.873987265 1.001650558 0.894433905 0.774470676 1.003872642 0.901720673 0.96817892 0.914595403 1 12.40999958 -7.394325584 6.302921685 0.992246168 0.916690706 0.059579579 0.068081078 0.252043982 11.90226308 0.010473672 0.011922052 4.03E-08 7.394325584 -0.075555463 ESSEPTGS(ph)PAPVIQHSSATAPSNGLSVR ddPTM_HeLa_SAHA_4h_R1 1 ESSEPTGSPAPVIQHSSATAPSNGLSVR 28 0 P17544-4;P17544-2;P17544-3;P17544;P17544-1 P17544-4 ATF7 Cyclic AMP-dependent transcription factor ATF-7 1 0 ES(0.002)S(0.006)EPT(0.061)GS(0.93)PAPVIQHSSATAPSNGLSVR 101.49 5.60E-07 3989500 326.01 351.93 230.89 212.13 256.45 445.12 360.09 328 343.27 417.1 TRUE FALSE FALSE 360.3012276 363.3327629 262.3544868 216.2360829 236.8008564 407.1932718 319.5717255 319.6102349 340.8811561 435.0832222 0.828120252 0.835087966 0.6029984 0.49699936 0.544265658 0.935897435 0.734507122 0.734595633 0.783484949 1 8.765147574 -7.752868532 0.851142833 0.963385446 0.685029585 0.241967804 0.134864551 0.358095321 0.555113694 0.037443198 0.033166828 1.77E-08 7.752868532 -0.278355861 ESSFEESNIEDPLIVT(ph)PDCQEKTSPK ddPTM_HeLa_SAHA_4h_R1 1 ESSFEESNIEDPLIVTPDCQEKTSPK 26 1 A0A087WUU7;Q96GX5-2;Q96GX5-3;Q96GX5 A0A087WUU7 MASTL Serine/threonine-protein kinase greatwall 1 0 ESSFEESNIEDPLIVT(0.785)PDCQEKT(0.07)S(0.145)PK 117.8 1.27E-07 8569500 780.04 1110.3 929.76 1002.9 997.62 1110.4 823.43 867.53 1164.1 1060.7 TRUE FALSE FALSE 862.0881862 1146.274448 1056.462851 1022.31258 921.1825711 1015.787673 730.7754893 845.3398388 1155.998933 1106.431968 0.779160591 1.036009878 0.954837605 0.923972381 0.832570459 0.91807513 0.66047937 0.764023332 1.044798927 1 10.11169903 -4.768747641 24.99701427 0.906583534 0.712251339 0.495946086 0.086266699 109.0119118 372867.5881 0.013210285 0.04083004 1.70E-05 4.768747641 -0.194332195 ESSIIAPAPAEDVDT(ph)PPR ddPTM_HeLa_SAHA_4h_R1 4 ESSIIAPAPAEDVDTPPR 18 0 Q15910-5;Q15910-3;Q15910-4;Q15910;Q15910-2 Q15910-5 EZH2 Histone-lysine N-methyltransferase EZH2 1 0 ESSIIAPAPAEDVDT(1)PPR;ESSIIAPAPAEDVDT(1)PPR;ESS(0.01)IIAPAPAEDVDT(0.99)PPR;ESSIIAPAPAEDVDT(1)PPR ;;; 227.09 2.16E-28 86784000 10628.85 12070.43 9539.78 10357.98 12264.48 13772.75 12709.43 11431.64 14229.26 11051 TRUE FALSE FALSE 11746.84121 12461.51985 10839.81154 10558.47368 11324.77819 12599.23422 11279.33149 11139.2352 14130.23742 11527.46269 1.019030946 1.08102886 0.940346703 0.915940824 0.98241725 1.092975493 0.978474777 0.966321514 1.225789039 1 13.49278738 -6.726894751 24.99981507 1.014641207 0.981783587 0.094676953 0.082395834 360.8659455 261156.7906 0.007976442 0.011280115 1.88E-07 6.726894751 -0.032857619 ESSIIAPAPAEDVDT(ph)PPRKK ddPTM_HeLa_SAHA_4h_R1 1 ESSIIAPAPAEDVDTPPRKK 20 2 Q15910-5;Q15910-3;Q15910-4;Q15910;Q15910-2 Q15910-5 EZH2 Histone-lysine N-methyltransferase EZH2 1 0 ESSIIAPAPAEDVDT(1)PPRKK 65.105 0.01725 6750200 4711.9 2463.7 3470.3 3265.1 3296.8 2783.9 4463.1 4378.5 1670.8 2960.2 TRUE FALSE FALSE 5207.519261 2543.525496 3943.214411 3328.300732 3044.199896 2546.696058 3960.900242 4266.50431 1659.172767 3087.828709 1.686466366 0.823726228 1.277018508 1.077877384 0.985870715 0.824753022 1.282746103 1.38171664 0.537326686 1 11.59237701 -7.246556422 24.95292395 1.324164688 1.092668927 0 0.341299844 1330.0392 2229959.604 0.050409881 0.061607308 5.67E-08 7.246556422 -0.231495761 ESSKELESPLT(ph)PGK ddPTM_HeLa_SAHA_4h_R1 2 ESSKELESPLTPGK 14 1 O15014 O15014 ZNF609 Zinc finger protein 609 1 0 ESS(0.001)KELES(0.002)PLT(0.997)PGK;ESSKELES(0.002)PLT(0.998)PGK ; 107.03 0.0030644 23676000 8093.4 7865.6 6788.6 7639.6 8545.4 8621.7 8266.4 7270.2 8775.8 8659.7 TRUE FALSE FALSE 8944.700946 8120.450601 7713.715054 7787.475505 7890.653298 7887.082656 7336.242916 7084.238811 8714.728493 9033.062047 0.990218035 0.898969869 0.853942441 0.86210805 0.873530289 0.873135003 0.812154603 0.784256631 0.964759065 1 13.1409994 -7.087822874 1.905883305 0.997096411 0.843643679 0.835624039 0.027992882 0.081985061 0.577269149 0.00497241 0.006298544 8.17E-08 7.087822874 -0.153452731 ESSPIPS(ph)PTSDR ddPTM_HeLa_SAHA_4h_R1 2 ESSPIPSPTSDR 12 0 A0A087WUZ3;Q01082 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 ESSPIPS(0.936)PT(0.057)S(0.007)DR;ES(0.001)S(0.01)PIPS(0.865)PT(0.123)S(0.001)DR ; 189.3 6.91E-07 32129000 1580.05 1475.36 1663.71 1772.1 2203.2 2121.64 1962.92 1875.09 1953.87 1472.42 TRUE FALSE FALSE 1746.246909 1523.162632 1890.431735 1806.401558 2034.391292 1940.864336 1742.047075 1827.127913 1940.27286 1535.903232 1.136951126 0.991704816 1.230827369 1.176116776 1.324556944 1.263663163 1.134216687 1.189611347 1.263278063 1 10.58487161 -6.747913786 24.98603671 1.061005868 1.220705959 0.277877601 0.088529288 135.4732903 250261.234 0.011433603 0.016118305 1.79E-07 6.747913786 0.159700091 ESSPIPS(ph)PTSDRK ddPTM_HeLa_SAHA_4h_R1 2 ESSPIPSPTSDRK 13 1 A0A087WUZ3;Q01082 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 ESSPIPS(0.947)PT(0.026)S(0.026)DRK;ESSPIPS(0.387)PT(0.387)S(0.227)DRK ; 107.13 0.0016467 52658000 5485.9 5167.1 4482.3 6117.7 5841.5 7256.8 6581 6123.5 5932 6250.5 TRUE FALSE FALSE 6062.932132 5334.51743 5093.124501 6236.11693 5393.925532 6638.479814 5840.48856 5966.869737 5890.718729 6519.989644 0.929899043 0.81817882 0.781155305 0.956461171 0.827290506 1.018173368 0.895781877 0.915165524 0.903485903 1 12.67065396 -8.127985319 1.267818831 0.984415231 0.890869672 0.066920383 0.071117443 0.383548871 1.270542349 0.017157431 0.013544246 7.45E-09 8.127985319 -0.093545559 ESSPLY(ph)SPTFSDSTSAVK ddPTM_HeLa_SAHA_4h_R1 1 ESSPLYSPTFSDSTSAVK 18 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 ES(0.013)S(0.016)PLY(0.86)S(0.06)PT(0.051)FS(0.001)DSTSAVK 128.54 0.00043375 9935200 550.48 731.28 427.17 572.51 677.99 877.31 742.74 949.71 866.44 471.64 TRUE FALSE FALSE 608.3820121 754.9739518 485.382503 583.5917589 626.0425527 802.5582524 659.1649404 925.4177934 860.4103735 491.9747086 1.236612374 1.534578788 0.986600519 1.18622309 1.272509627 1.631299818 1.339835014 1.881027169 1.748891475 1 8.942440341 -1 0.256799574 1.069130012 5.551844962 0.103709259 0.27513185 25.42647223 0.319342546 0.092112205 50.28966321 0.1 1 4.48271495 ESSPLYS(ph)PTFSDSTSAVK ddPTM_HeLa_SAHA_4h_R1 1 ESSPLYSPTFSDSTSAVK 18 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 ESSPLYS(1)PTFSDSTSAVK 254.89 6.55E-48 69042000 3128.4 3179.1 2936.7 3308 3443.8 4289.1 3736.7 3639.1 2897.5 3202 TRUE FALSE FALSE 3457.459466 3282.104926 3336.898182 3372.031123 3179.936788 3923.64455 3316.236682 3546.017091 2877.336062 3340.05389 1.035150803 0.982650291 0.999055193 1.009573867 0.952061521 1.174724923 0.992869214 1.061664634 0.861463963 1 11.70565566 -5.304156993 24.99998546 1.008731093 1.068064998 0.236801418 0.065969353 450.2933452 263528.0527 0.006263633 0.014006035 4.96E-06 5.304156993 0.059333905 ESSPTS(ph)PVAETEGTIMEESSR ddPTM_HeLa_SAHA_4h_R1 2 ESSPTSPVAETEGTIMEESSR 21 0 Q8IWV8-4;Q8IWV8 Q8IWV8-4 UBR2 E3 ubiquitin-protein ligase UBR2 1 0 ESSPT(0.039)S(0.961)PVAETEGTIMEESSR;ESS(0.001)PT(0.16)S(0.839)PVAET(0.001)EGTIMEESSR ; 187.04 9.14E-15 6479000 1345.15 1621.28 1530.27 1357.27 1599.21 2107.68 1684.15 1756.57 1671.7 1872.71 TRUE FALSE FALSE 1486.639049 1673.810536 1738.807226 1383.541923 1476.678875 1928.093807 1494.64501 1711.639483 1660.066504 1953.451693 0.761031898 0.856847672 0.890120412 0.708254997 0.755933142 0.987018933 0.765130264 0.876212854 0.849811905 1 10.93180986 -9.423707909 1.081859143 1.002854084 0.819862503 0.076072153 0.089877092 0.401457806 0.819196564 0.057120102 0.013498533 3.77E-10 9.423707909 -0.182991581 ESSPTSPVAETEGTIMEESS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 ESSPTSPVAETEGTIMEESSR 21 0 Q8IWV8-4;Q8IWV8 Q8IWV8-4 UBR2 E3 ubiquitin-protein ligase UBR2 1 0 ESSPT(0.005)S(0.004)PVAET(0.015)EGT(0.169)IMEES(0.197)S(0.61)R 85.496 0.00098807 0 321.45 385.34 218.22 313.68 371.96 216.06 391.53 353.99 400.88 253.2 TRUE FALSE FALSE 355.2615859 397.8252688 247.9578852 319.75173 343.4605052 197.6504725 347.4740139 344.9354484 398.0902434 264.1166911 1.345093278 1.506248118 0.938819444 1.210645676 1.300411964 0.748345255 1.315607932 1.305996402 1.507251366 1 8.045031667 ESSSIYISK ddPTM_HeLa_SAHA_4h_R1 1 ESSSIYISK 9 0 O60701;O60701-3;O60701-2 O60701 UGDH UDP-glucose 6-dehydrogenase 0 0 108.98 0.0087329 1441300 174.93 147.75 111.57 163.13 124.82 293.24 324.89 286.07 304.45 269.34 FALSE FALSE TRUE 193.32994 152.5371969 126.7741786 166.287617 115.2563186 268.2543023 288.3325221 278.7527436 302.3313077 280.9525655 0.688123063 0.542928649 0.451229831 0.59187079 0.410234085 0.954802822 1.026267625 0.992170131 1.076093778 1 8.134182764 -5.025025408 24.82825667 0.746779095 1.004548087 0.281994594 0.210427652 838.2405902 831638.2637 0.033987619 0.087111301 9.44E-06 5.025025408 0.257768993 ESSVK(ac)TVR ddPTM_HeLa_SAHA_4h_R1 2 ESSVKTVR 8 1 O95696-2;O95696;J3KQ61 O95696-2 BRD1 Bromodomain-containing protein 1 0 1 ; ESSVK(1)TVR;ESSVK(1)TVR 128.12 0.00071313 33789000 4506.4 4501.6 4477.5 5366.5 5570.1 4723.5 6531.9 5425.4 3019.4 3523.9 FALSE TRUE FALSE 4980.403828 4647.454794 5087.670382 5470.376368 5143.320141 4321.031226 5796.913421 5286.626124 2998.38775 3675.832575 1.354904971 1.264327115 1.384086538 1.488200634 1.3992259 1.175524494 1.577034129 1.438211893 0.815703025 1 11.84385534 -10.48573782 0.260711475 0.554391978 1.445508718 0.732134236 0.114736166 4.16739749 0.218217579 1.210312395 0.067862597 3.27E-11 10.48573782 0.89111674 EST(ph)PLASGPSSFQR ddPTM_HeLa_SAHA_4h_R1 1 ESTPLASGPSSFQR 14 0 A0A087WVP4;A0A087X1R1;P53814-5;P53814;P53814-6 A0A087WVP4 SMTN Smoothelin 1 0 ES(0.013)T(0.821)PLAS(0.033)GPS(0.088)S(0.045)FQR 92.939 0.013378 4201400 1909 2280.3 2244.1 2669.9 2782 3331.9 2990.4 2923.2 3625.5 2591.5 TRUE FALSE FALSE 2109.797379 2354.183216 2549.914261 2721.579775 2568.843761 3048.003375 2653.912322 2848.428777 3600.26985 2703.232247 0.780472111 0.870877158 0.943283458 1.006787255 0.950286001 1.127540328 0.981755202 1.053712192 1.331838895 1 11.40046975 -6.196859325 1.614397648 0.892224107 1.034430854 0 0.153804643 0.337107999 1.718656514 0.014842368 0.027868866 6.36E-07 6.196859325 0.142206746 ESTES(ph)SNTTIEDEDVKAR ddPTM_HeLa_SAHA_4h_R1 1 ESTESSNTTIEDEDVKAR 18 1 H0Y9J2;D6R938;Q13557-8;Q13557-12;Q13557;E9PBG7;E9PF82;Q13557-10;Q13557-6;Q13557-11 H0Y9J2 CAMK2D Calcium/calmodulin-dependent protein kinase type II subunit delta 1 0 ES(0.006)T(0.028)ES(0.792)S(0.022)NT(0.146)T(0.006)IEDEDVKAR 101.9 0.0011209 8429200 1219.1 1042.7 1112.7 1155.9 1050.3 1073.2 1458.8 1228.1 965.08 975.98 TRUE FALSE FALSE 1347.330531 1076.484164 1264.332961 1178.274116 969.8262409 981.7573223 1294.651985 1196.68698 958.3639297 1018.059274 1.32343034 1.057388495 1.241905057 1.157372803 0.952622569 0.964342006 1.271686254 1.175459043 0.941363587 1 9.991605846 -5.909130468 22.7758393 1.156085319 1.08989734 0 0.138042901 29.28178149 7323.673185 0.02242902 0.040656058 1.23E-06 5.909130468 -0.066187979 ESTESSNT(ph)TIEDEDVK ddPTM_HeLa_SAHA_4h_R1 2 ESTESSNTTIEDEDVK 16 0 H0Y9J2;D6R938;Q13557-8;Q13557-12;Q13557;E9PBG7;E9PF82;Q13557-10;Q13557-6;Q13557-11 H0Y9J2 CAMK2D Calcium/calmodulin-dependent protein kinase type II subunit delta 1 0 ESTESSNT(0.727)T(0.273)IEDEDVK;ESTESS(0.001)NT(0.644)T(0.355)IEDEDVK ; 188 2.42E-11 25428000 2790.4 3507.9 2133.22 2557.51 3559.4 3901.1 3531.6 3237.8 4807.6 2990.97 TRUE FALSE FALSE 3083.907075 3621.558262 2423.924112 2607.014304 3286.679541 3568.704333 3134.215073 3154.981764 4774.14352 3119.925354 0.988455403 1.160783625 0.776917342 0.8356015 1.053448133 1.143842858 1.004580148 1.011236298 1.530210815 1 11.6072958 -5.576990887 24.99999224 0.978777098 1.056740572 0 0.202823661 157.3513246 72696.1599 0.015242977 0.030485957 2.65E-06 5.576990887 0.077963474 ESTESSNT(ph)TIEDEDVKAR ddPTM_HeLa_SAHA_4h_R1 2 ESTESSNTTIEDEDVKAR 18 1 H0Y9J2;D6R938;Q13557-8;Q13557-12;Q13557;E9PBG7;E9PF82;Q13557-10;Q13557-6;Q13557-11 H0Y9J2 CAMK2D Calcium/calmodulin-dependent protein kinase type II subunit delta 1 0 ES(0.003)T(0.011)ES(0.036)S(0.009)NT(0.47)T(0.47)IEDEDVKAR;ESTESS(0.001)NT(0.974)T(0.025)IEDEDVKAR ; 161.59 6.22E-06 43289700 1800.06 1617.24 1827.18 1668.65 2204.35 2059.03 2187.85 2166.53 1651.33 1225.75 TRUE FALSE FALSE 1989.39857 1669.639637 2076.178575 1700.949134 2035.453179 1883.58906 1941.66736 2111.1133 1639.83826 1278.598081 1.555921755 1.305836182 1.623792969 1.330323546 1.591941369 1.473167439 1.51859086 1.651115648 1.282528329 1 10.32034712 -9.524618388 0.556103314 0.858838134 1.517863127 0.477475841 0.139069095 0.565534712 0.209197248 0.204985621 0.023473012 2.99E-10 9.524618388 0.659024993 ESTESSNTT(ph)IEDEDVKAR ddPTM_HeLa_SAHA_4h_R1 1 ESTESSNTTIEDEDVKAR 18 1 H0Y9J2;D6R938;Q13557-8;Q13557-12;Q13557;E9PBG7;E9PF82;Q13557-10;Q13557-6;Q13557-11 H0Y9J2 CAMK2D Calcium/calmodulin-dependent protein kinase type II subunit delta 1 0 ESTESSNT(0.039)T(0.961)IEDEDVKAR 149.84 9.30E-05 29742000 1084 801.07 821.86 998.35 869.71 1007.2 1046.5 1056.1 671.43 826.31 TRUE FALSE FALSE 1198.020094 827.0251936 933.8588007 1017.674508 803.0730077 921.3808936 928.7450658 1029.086491 666.757464 861.936268 1.389917257 0.959496919 1.083442982 1.180684171 0.931708106 1.068966382 1.077510137 1.19392411 0.773557731 1 9.751437389 -7.219673524 24.99978661 1.184127811 1.070365806 0 0.174355641 884.8465069 529643.2897 0.026463727 0.032411109 6.03E-08 7.219673524 -0.113762005 ESTGAQVQVAGDMLPNSTER ddPTM_HeLa_SAHA_4h_R1 1 ESTGAQVQVAGDMLPNSTER 20 0 Q15366-2;Q15366;Q15366-3;Q15366-6;Q15366-5;H3BRU6;F8VZX2;Q15366-8;Q15366-4;Q15366-7;F8W0G4;P57721-3;P57721-5;P57721-2;F8VXH9;E9PFP8;P57721-4;J3QT27;P57721;Q15365 Q15366-2;Q15365 PCBP2;PCBP3;PCBP1 Poly(rC)-binding protein 2;Poly(rC)-binding protein 3;Poly(rC)-binding protein 1 0 0 96.135 0.0044037 6001100 611.66 736.1 713.45 776.98 673.55 893.78 615.4 650.58 873.92 812.31 FALSE FALSE TRUE 675.9972052 759.950123 810.6752505 792.0195714 621.9427445 817.6249157 546.1535724 633.9391056 867.8383196 847.3326594 0.797794346 0.8968734 0.956737878 0.93472093 0.734000676 0.964939692 0.644556263 0.748158469 1.024200248 1 9.726784667 -13.52286355 0.025279772 2.114628479 4.48E-09 0.405513895 0.094903966 1532.006008 3.116906522 185.6447414 90.91883898 3.00E-14 13.52286355 -2.114628474 ESTLHLVLR ddPTM_HeLa_SAHA_4h_R1 1 ESTLHLVLR 9 0 P62979;A0A2R8Y422;P0CG48;B4DV12;Q96C32;Q5PY61;J3QKN0;F5GXK7;F5H747;F5H388;F5H265;F5H2Z3;F5GYU3;F5H6Q2;J3QTR3;J3QS39;P0CG47;P62987;M0R1M6;M0R2S1 P62979;P62987 RPS27A;UBC;UBB;UBA52 Ubiquitin-40S ribosomal protein S27a;Ubiquitin;40S ribosomal protein S27a;Polyubiquitin-C;Ubiquitin;Polyubiquitin-B;Ubiquitin;Ubiquitin-60S ribosomal protein L40;Ubiquitin;60S ribosomal protein L40 0 0 72.879 0.022638 1558900 755.28 1803.3 897.76 1317.4 1634.7 2723.2 1596.9 1253.6 1645.6 1519.3 FALSE FALSE TRUE 834.7238157 1861.728103 1020.102057 1342.900182 1509.449639 2491.16804 1417.212609 1221.534727 1634.148136 1584.804458 0.526704611 1.174736791 0.643676923 0.847360174 0.952451661 1.571908778 0.894250771 0.770779462 1.031135499 1 10.63008913 -5.648583465 4.097720581 0.797776642 1.087325535 0.06634144 0.267146895 0.293712915 8.978184111 0.041009934 0.08448857 2.25E-06 5.648583465 0.289548894 ESTPGDS(ph)PSTVNK ddPTM_HeLa_SAHA_4h_R1 2 ESTPGDSPSTVNK 13 0 Q5T6F2 Q5T6F2 UBAP2 Ubiquitin-associated protein 2 1 0 ESTPGDS(0.983)PS(0.017)T(0.001)VNK;ESTPGDS(1)PSTVNK ; 232.37 2.16E-57 0 1220.45 1566.07 1382.4 1412.29 1832.25 1951.44 1903.43 1544.62 2064.59 1688.35 TRUE FALSE FALSE 1348.822531 1616.811696 1570.786273 1439.626915 1691.863401 1785.166333 1689.251047 1505.110857 2050.22235 1761.143031 0.765879038 0.918046784 0.891912948 0.817438953 0.960662122 1.013640745 0.959178793 0.85462159 1.16414301 1 10.78229637 -5.713763277 24.98432467 0.884957795 0.952652213 0 0.111578345 219.6929162 115127.2664 0.013768363 0.02753668 1.93E-06 5.713763277 0.067694419 ESTQLS(ph)PADLTEGKPTDPSK ddPTM_HeLa_SAHA_4h_R1 3 ESTQLSPADLTEGKPTDPSK 20 1 Q08J23-3;Q08J23-2;Q08J23 Q08J23-3 NSUN2 tRNA (cytosine(34)-C(5))-methyltransferase 1 0 ES(0.016)T(0.014)QLS(0.893)PADLT(0.078)EGKPTDPSK;ES(0.092)T(0.075)QLS(0.78)PADLT(0.05)EGKPT(0.002)DPSK;ES(0.006)T(0.005)QLS(0.974)PADLT(0.015)EGKPTDPSK ;; 98.299 0.00054593 120792000 6400.3 9272.6 5684.1 7235 8254.6 10003.7 8219.7 7135.3 11393 8098.3 TRUE FALSE FALSE 7073.51292 9573.038324 6458.699546 7375.043887 7622.134331 9151.328481 7294.797723 6952.789358 11313.71519 8447.457345 0.837354085 1.133244944 0.764573206 0.873048964 0.902299239 1.083323432 0.863549519 0.823062973 1.33930421 1 13.04430145 -9.646368009 1.467167217 1.000178255 0.903543595 0.165352899 0.153644331 0.807050955 3.113804091 0.076009898 0.017052501 2.26E-10 9.646368009 -0.09663466 ESVAS(ph)GDDRAEEDMDEAIEK ddPTM_HeLa_SAHA_4h_R1 2 ESVASGDDRAEEDMDEAIEK 20 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 ES(0.018)VAS(0.982)GDDRAEEDMDEAIEK;ES(0.019)VAS(0.981)GDDRAEEDMDEAIEK ; 76.237 0.0023484 8113200 1070.57 1939.91 1274.78 1274.81 1551.54 1941.28 1308.98 1345.28 2245.2 1754.27 TRUE FALSE FALSE 1183.177465 2002.764357 1448.50038 1299.485791 1432.66134 1775.872023 1161.690125 1310.869686 2229.57547 1829.905165 0.64657857 1.09446347 0.791571283 0.710138326 0.782915622 0.970472163 0.634836246 0.716359356 1.218410393 1 10.83755317 -9.60113049 1.383070073 1.000593414 0.779389577 0.354031051 0.153567888 0.482242903 1.648020152 0.099213852 0.022656936 2.51E-10 9.60113049 -0.221203837 ESVNS(ph)PVFGK ddPTM_HeLa_SAHA_4h_R1 2 ESVNSPVFGK 10 0 Q9UPS8;E7ESJ3;Q9UPS8-2 Q9UPS8 ANKRD26 Ankyrin repeat domain-containing protein 26 1 0 ES(0.092)VNS(0.908)PVFGK;ES(0.114)VNS(0.886)PVFGK ; 114.56 0.0042547 55532000 6304.1 6438.4 5922.7 6065.6 6174.6 7162.3 6930 6677.5 7032.5 6159.9 TRUE FALSE FALSE 6967.194162 6647.008384 6729.814712 6183.008459 5701.503482 6552.031746 6150.218161 6506.699219 6983.56026 6425.483435 1.08430661 1.034475997 1.047363172 0.962263544 0.887326773 1.019694753 0.957160379 1.012639638 1.086853671 1 12.64958929 -6.259957773 24.46317204 1.040852557 0.965635395 0.493035487 0.041356482 75.81413849 1251770.285 0.006751461 0.010808062 5.50E-07 6.259957773 -0.075217162 ESVPEFPLS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 7 ESVPEFPLSPPK 12 0 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 1 0 ESVPEFPLS(1)PPK;ESVPEFPLS(1)PPK;ESVPEFPLS(1)PPK;ESVPEFPLS(1)PPK;ESVPEFPLS(1)PPK;ESVPEFPLS(1)PPK;ESVPEFPLS(1)PPK ;;;;;; 156.36 0.00021385 984108700 17749.33 30537.08 16387.98 20571.23 23179.98 29509.7 22379.93 18360.34 31038.37 22459.98 TRUE FALSE FALSE 19616.28597 31526.50143 18621.24857 20969.4159 21403.93494 26995.30754 19861.68138 17890.70909 30822.37146 23428.33965 0.837288782 1.345656666 0.794817253 0.895044899 0.913591627 1.152250136 0.84776308 0.763635381 1.315602041 1 14.51596709 ESVPEFPLS(ph)PPKKK ddPTM_HeLa_SAHA_4h_R1 2 ESVPEFPLSPPKKK 14 2 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 1 0 ESVPEFPLS(1)PPKKK;ESVPEFPLS(1)PPKKK ; 110.84 0.0015349 102547000 6546.6 5856.2 7461.5 5999.4 6839.4 5951.1 7115 7005.6 4877.1 6691.3 TRUE FALSE FALSE 7235.201425 6045.944722 8478.314362 6115.527062 6315.36665 5444.0328 6314.401474 6826.406896 4843.159864 6979.794689 1.036592299 0.866206671 1.214693947 0.876175781 0.904806936 0.779970335 0.904668655 0.978024025 0.693882855 1 12.76896888 ESVS(ph)PEDSEK ddPTM_HeLa_SAHA_4h_R1 4 ESVSPEDSEK 10 0 P35251-2;P35251;A0A1W2PP02 P35251-2 RFC1 Replication factor C subunit 1 1 0 ES(0.035)VS(0.948)PEDS(0.017)EK;ES(0.072)VS(0.926)PEDS(0.002)EK;ES(0.001)VS(0.997)PEDS(0.001)EK;ES(0.003)VS(0.866)PEDS(0.132)EK ;;; 211.63 3.50E-15 232699000 16388 12574.1 7480.5 11721.3 13301.5 16762.4 16015 17473.4 12950.5 11477.5 TRUE FALSE FALSE 18111.76503 12981.50909 8499.903583 11948.18271 12282.34194 15334.14922 14212.95005 17026.45573 12860.37642 11972.35119 1.512799344 1.084290703 0.709961097 0.997981308 1.02589222 1.28079681 1.187147772 1.422148035 1.074173001 1 13.54741888 -9.910402747 2.11690215 0.998017695 1.213958023 0 0.222502614 0.719138606 5.843161047 0.206893304 0.039897194 1.23E-10 9.910402747 0.215940328 ESVS(ph)PEDSEKKR ddPTM_HeLa_SAHA_4h_R1 1 ESVSPEDSEKKR 12 2 P35251-2;P35251;A0A1W2PP02 P35251-2 RFC1 Replication factor C subunit 1 1 0 ES(0.057)VS(0.943)PEDSEKKR 78.985 0.016129 4813400 1971.2 669.04 1162.9 1260.3 1356.8 877.86 1696.9 2479.6 379.53 1095.1 TRUE FALSE FALSE 2178.53986 690.717335 1321.373956 1284.694929 1252.842277 803.0613893 1505.960346 2416.175422 376.8888198 1142.31512 1.90712687 0.604664442 1.156750823 1.124641446 1.096757151 0.703012133 1.318340552 2.115156649 0.329934195 1 10.15774497 -7.269039492 24.98763311 1.428365443 1.14451814 0 0.555050412 1304.853543 4290086.901 0.084719529 0.097826652 5.38E-08 7.269039492 -0.283847303 ESVSTASDQPSHS(ph)LER ddPTM_HeLa_SAHA_4h_R1 2 ESVSTASDQPSHSLER 16 0 Q5VWV2;Q8TEW0-4;Q8TEW0-11;Q8TEW0-2;Q8TEW0;Q8TEW0-8;Q8TEW0-3;Q8TEW0-7;Q8TEW0-6;Q5VWU8;Q8TEW0-9;Q8TEW0-10;Q8TEW0-5;F5GZI3 Q5VWV2 PARD3 Partitioning defective 3 homolog 1 0 ESVSTASDQPS(0.238)HS(0.762)LER;ESVSTASDQPS(0.263)HS(0.737)LER ; 116.98 0.00039146 4596300 1079.88 1084.33 943.26 1177.33 1141.91 1453.66 1392.57 1249.88 1395.11 1261.11 TRUE FALSE FALSE 1193.466733 1119.463003 1071.802561 1200.118925 1054.417102 1329.79999 1235.874359 1217.909879 1385.401316 1315.482624 0.907246292 0.850990339 0.814759953 0.912303137 0.801543923 1.010883736 0.939483606 0.925827417 1.053150601 1 10.36137648 -8.779024219 0.902675591 0.994110473 0.895247545 0.395081548 0.0616684 0.509160421 0.819566722 0.02825483 0.01212723 1.66E-09 8.779024219 -0.098862928 ESVSTEDLSPPS(ph)PPLPK ddPTM_HeLa_SAHA_4h_R1 2 ESVSTEDLSPPSPPLPK 17 0 Q13127-4;Q13127 Q13127-4 REST RE1-silencing transcription factor 1 0 ESVSTEDLS(0.002)PPS(0.998)PPLPK;ESVSTEDLS(0.098)PPS(0.902)PPLPK ; 174.4 5.97E-09 19428600 6461.2 5584.8 5550.1 5894.5 5438.8 5249.2 6032.5 5464.4 5269.2 5590.7 TRUE FALSE FALSE 7140.818661 5765.751184 6306.438724 6008.596571 5022.080319 4801.938629 5353.707223 5324.62856 5232.531208 5831.742437 1.224474287 0.988684128 1.081398706 1.030326122 0.861162915 0.823414045 0.918028751 0.913042477 0.897250053 1 12.50971129 -5.906013038 3.09549351 1.095798864 0.877070775 0.339303837 0.091414935 0.146898201 2.830980792 0.013982202 0.026728164 1.24E-06 5.906013038 -0.218728089 ESYDAPPT(ph)PSGAR ddPTM_HeLa_SAHA_4h_R1 2 ESYDAPPTPSGAR 13 0 Q96S55-2;Q96S55 Q96S55-2 WRNIP1 ATPase WRNIP1 1 0 ESYDAPPT(0.959)PS(0.041)GAR;ESYDAPPT(0.988)PS(0.012)GAR ; 194.86 1.37E-07 50327000 5389.3 6602.6 6029.5 4737.1 6620 6346.4 6221.8 5912.5 4816.5 5735.2 TRUE FALSE FALSE 5956.171301 6816.528572 6851.16886 4828.79342 6112.77703 5805.651016 5521.706689 5761.266811 4782.981584 5982.472539 0.995603617 1.139416609 1.145206905 0.807156805 1.021781043 0.970443404 0.922980699 0.963024364 0.799499129 1 12.54652615 -6.266499852 24.99033873 1.020776184 0.942853563 0.126109494 0.102855996 539.3845553 2663666.663 0.012021178 0.01870034 5.41E-07 6.266499852 -0.077922621 ESYDDVSSFR ddPTM_HeLa_SAHA_4h_R1 1 ESYDDVSSFR 10 0 H7C2Q8;Q99848 H7C2Q8 EBNA1BP2 Probable rRNA-processing protein EBP2 0 0 133.99 0.0084646 11663000 2053.6 2098.6 1766.3 1895.9 2402.4 2307.3 2180.1 2247.3 2186.4 1833.6 FALSE FALSE TRUE 2269.60707 2166.596017 2007.002166 1932.597886 2218.328631 2110.705059 1934.78941 2189.81732 2171.184664 1912.655469 1.186626189 1.132768578 1.049327596 1.01042656 1.159816112 1.103546924 1.011572362 1.144909449 1.135167676 1 10.90136131 -9.651253543 1.509149058 1.000358194 1.109483932 0 0.070862895 0.4169887 1.716963211 0.044879278 0.010279646 2.23E-10 9.651253543 0.109125739 ESYELR ddPTM_HeLa_SAHA_4h_R1 1 ESYELR 6 0 K7ERI7;P35268;K7EMH1 K7ERI7 RPL22 60S ribosomal protein L22 0 0 124.32 0.019777 41285000 5521.7 5009.9 4384.1 5552.4 5484.2 5541.6 5773.7 5415.2 5337.1 4312.2 FALSE FALSE TRUE 6102.49774 5172.224047 4981.542317 5659.874731 5064.001781 5069.424504 5124.02808 5276.687025 5299.958687 4498.120045 1.356677385 1.149863497 1.10747207 1.258275607 1.125804054 1.127009607 1.139148806 1.173087195 1.178260836 1 12.13510645 -3.895454862 10.05726741 1.16489644 1.26443695 0 0.089453432 1005391.892 3049296.648 0.017926363 2061381.382 0.000127217 3.895454862 0.09954051 ESYS(ph)VYVYK ddPTM_HeLa_SAHA_4h_R1 2 ESYSVYVYK 9 0 O60814;P57053;P58876;P62807;Q5QNW6;Q5QNW6-2;Q93079;U3KQK0;Q99877;Q99879;Q99880 O60814;P58876;P62807;Q5QNW6;Q93079;U3KQK0;Q99879;Q99880 HIST1H2BK;H2BFS;HIST1H2BD;HIST1H2BC;HIST2H2BF;HIST1H2BH;HIST1H2BN;HIST1H2BM;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-F;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-M;Histone H2B type 1-L 1 0 ES(0.001)YS(0.999)VYVYK;ES(0.015)YS(0.985)VYVYK ; 133.81 0.0016572 21244000 3942.8 3323.5 2552.75 4367.9 4360.9 5402.8 5215.9 5944.2 4264.2 3528.8 TRUE FALSE FALSE 4357.521794 3431.183581 2900.625476 4452.447021 4026.768784 4942.451045 4628.993205 5792.155971 4234.525085 3680.943838 1.183805564 0.932147768 0.788011337 1.209593848 1.093950074 1.342712973 1.257556053 1.573551846 1.150391115 1 11.84586002 -4.412519979 0.812782807 1.058224288 1.740762782 0.617958604 0.129185327 1.135537866 0.621090808 0.022281074 0.662256034 3.87E-05 4.412519979 0.682538495 ESYSVYVYK ddPTM_HeLa_SAHA_4h_R1 7 ESYSVYVYK 9 0 O60814;P57053;P58876;P62807;Q5QNW6;Q5QNW6-2;Q93079;U3KQK0;Q99877;Q99879;Q99880 O60814;P58876;P62807;Q5QNW6;Q93079;U3KQK0;Q99879;Q99880 HIST1H2BK;H2BFS;HIST1H2BD;HIST1H2BC;HIST2H2BF;HIST1H2BH;HIST1H2BN;HIST1H2BM;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-F;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-M;Histone H2B type 1-L 0 0 ;;;;;; ;;;;;; 185.55 1.27E-11 162715100 25781.81 24575.07 24337.71 26499.44 25840.02 28518.3 29949.17 26176.74 26734.35 24517.33 FALSE FALSE TRUE 28493.65907 25371.31839 27654.32637 27012.37498 23860.16325 26088.3804 26579.21057 25507.17689 26548.30348 25574.39208 1.11414805 0.992059491 1.081328787 1.056227452 0.932970886 1.020097773 1.039290024 0.997371778 1.038081507 1 14.64241233 ESYTEEIVS(ph)EAESHVS(ph)GISR ddPTM_HeLa_SAHA_4h_R1 4 ESYTEEIVSEAESHVSGISR 20 0 Q5QJE6;J3KP30;E9PRB3 Q5QJE6 DNTTIP2 Deoxynucleotidyltransferase terminal-interacting protein 2 2 0 ES(0.004)YT(0.059)EEIVS(0.937)EAES(0.055)HVS(0.906)GIS(0.039)R;ES(0.001)YT(0.006)EEIVS(0.993)EAES(0.116)HVS(0.802)GIS(0.081)R;ES(0.001)YT(0.018)EEIVS(0.981)EAES(0.01)HVS(0.957)GIS(0.033)R;ES(0.016)YT(0.244)EEIVS(0.739)EAES(0.003)HVS(0.95)GIS(0.047)R ;;; 107.03 0.001148 5261650 1200.36 1739.41 1221.56 1546.59 1963.5 2410.57 1271.51 1516.85 1595.287 1740.44 TRUE FALSE FALSE 1326.619372 1795.768025 1388.027835 1576.526486 1813.057054 2205.175875 1128.436348 1478.051173 1584.185268 1815.478886 0.730726963 0.989142886 0.764551902 0.868380513 0.998666009 1.214652449 0.621564017 0.814138454 0.872599114 1 10.82613444 -5.904258658 16.7514762 0.87023103 0.91565017 0.015653423 0.159596084 7.773473959 1337.58917 0.025845612 0.046850305 1.25E-06 5.904258658 0.045419139 ESYTEEIVS(ph)EAESHVSGISR ddPTM_HeLa_SAHA_4h_R1 5 ESYTEEIVSEAESHVSGISR 20 0 Q5QJE6;J3KP30;E9PRB3 Q5QJE6 DNTTIP2 Deoxynucleotidyltransferase terminal-interacting protein 2 1 0 ESYTEEIVS(1)EAESHVSGISR;ESYTEEIVS(1)EAESHVSGISR;ESYTEEIVS(1)EAESHVSGISR;ESYTEEIVS(0.999)EAES(0.001)HVSGISR;ES(0.002)YT(0.001)EEIVS(0.997)EAESHVSGISR ;;;; 207.13 1.30E-20 9562200 1803.67 2295.94 1377.53 1885.85 2894.64 6186.88 2286.92 2714.02 2556.74 2166.51 TRUE FALSE FALSE 1993.388286 2370.329962 1565.252615 1922.353354 2672.853309 5659.723018 2029.589743 2644.599298 2538.947438 2259.918849 0.882061888 1.048856229 0.692614523 0.850629373 1.182720924 2.504392147 0.898080807 1.1702187 1.123468411 1 11.14205525 -5.517651623 24.79765669 0.928564667 1.525272369 0.304897357 0.399947163 173.779555 824414.4797 0.054264844 0.111147056 3.04E-06 5.517651623 0.596707701 ESYTEEIVSEAESHVS(ph)GISR ddPTM_HeLa_SAHA_4h_R1 2 ESYTEEIVSEAESHVSGISR 20 0 Q5QJE6;J3KP30;E9PRB3 Q5QJE6 DNTTIP2 Deoxynucleotidyltransferase terminal-interacting protein 2 1 0 ESYTEEIVSEAES(0.002)HVS(0.945)GIS(0.053)R;ESYTEEIVSEAES(0.002)HVS(0.969)GIS(0.029)R ; 245.11 8.42E-42 3022800 432.54 748.79 611.62 561.57 947.47 882.94 1029.75 717.89 923.61 923.07 TRUE FALSE FALSE 478.0365418 773.0512873 694.9683884 572.4399994 874.8750533 807.7085447 913.8798198 699.5274133 917.1825228 962.8680651 0.496471489 0.80286315 0.721769071 0.594515511 0.908613636 0.838856925 0.949122578 0.726503909 0.952552646 1 9.911194319 -3.914765847 14.00781502 0.772999051 9.54E-05 0 0.157910493 2276620.882 7146881.96 0.027478632 52322984.42 0.000121684 3.914765847 -0.772903671 ET(ph)PHSPGVEDAPIAK ddPTM_HeLa_SAHA_4h_R1 1 ETPHSPGVEDAPIAK 15 0 Q9UHB6;F8VQE1;Q9UHB6-2;F8VS07;Q9UHB6-3;Q9UHB6-4;Q9UHB6-5 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 ET(0.995)PHS(0.005)PGVEDAPIAK 178.67 5.42E-07 18458000 2929 3166.3 2915.4 3043.5 3746.3 3215.5 3891.2 3423.9 3264.2 2750.6 TRUE FALSE FALSE 3237.085659 3268.890197 3312.695529 3102.411343 3459.259303 2941.52131 3453.351935 3336.321596 3241.484166 2869.191827 1.128222111 1.139306953 1.154574434 1.081284045 1.205656335 1.025209009 1.203597439 1.162808831 1.129755123 1 11.48642871 -9.165914622 0.523282671 0.975181338 1.141846355 0.015850247 0.064810728 0.81226891 0.324623632 0.068040661 0.012204952 6.82E-10 9.165914622 0.166665017 ET(ph)SHGSPTVTK ddPTM_HeLa_SAHA_4h_R1 1 ETSHGSPTVTK 11 0 Q8NI08-2;Q8NI08;Q8NI08-7 Q8NI08-2 NCOA7 Nuclear receptor coactivator 7 1 0 ET(0.986)S(0.013)HGS(0.001)PTVTK 161.93 0.00033462 1406500 417.46 317.25 411.99 523.18 466.16 540.49 752.84 525.76 433.71 694.77 TRUE FALSE FALSE 461.3703582 327.5291082 468.1338516 533.3069054 430.4429215 494.4372113 668.1284618 512.3118205 430.6917768 724.7249348 0.63661444 0.451935752 0.645946937 0.735874923 0.593939715 0.682241203 0.921906271 0.706905194 0.594283094 1 9.501289722 -9.175048963 0.97084795 0.996006103 0.673058042 0 0.166102114 0.348363292 0.601469498 0.075537966 0.022581191 6.68E-10 9.175048963 -0.322948061 ET(ph)SPESSLIQDEIAVK ddPTM_HeLa_SAHA_4h_R1 1 ETSPESSLIQDEIAVK 16 0 A0A669KB77;P11137-3;P11137 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 ET(0.466)S(0.364)PES(0.106)S(0.064)LIQDEIAVK 83.617 0.018617 62967000 1048.4 1330.3 1273.1 1162.3 1442.9 1706.4 1568 1315.8 1422.2 1693.6 TRUE FALSE FALSE 1158.675522 1373.402593 1446.591438 1184.797997 1332.345314 1561.00512 1391.564513 1282.143741 1412.302794 1766.619384 0.655871623 0.777418501 0.818847258 0.670658325 0.754177909 0.883611452 0.787699108 0.725761164 0.799438072 1 10.78677553 -9.465207539 1.178314352 1.001209883 0.75304252 0.169204837 0.087197847 0.246424476 0.607293465 0.050024869 0.012095665 3.43E-10 9.465207539 -0.248167363 ET(ph)VNSPAIYK ddPTM_HeLa_SAHA_4h_R1 2 ETVNSPAIYK 10 0 Q9Y3A2 Q9Y3A2 UTP11L Probable U3 small nucleolar RNA-associated protein 11 1 0 ET(0.906)VNS(0.092)PAIY(0.002)K;ET(0.725)VNS(0.275)PAIYK ; 151.55 0.00098128 25429900 3958.3 3700.5 3234.2 3639.7 4378.4 4379.8 4439.1 4399.9 3809.2 3618.1 TRUE FALSE FALSE 4374.652155 3820.398628 3674.939933 3710.151657 4042.927938 4006.6164 3939.600785 4287.356929 3782.691467 3774.093998 1.159126444 1.012269072 0.973727717 0.983057565 1.071231384 1.061610125 1.043853382 1.13599633 1.002278022 1 11.88191464 -4.255311357 23.21690717 1.056723659 1.135996429 0.131409965 0.055999516 484.2207393 1834391.881 0.009873182 0.115469548 5.56E-05 4.255311357 0.07927277 ET(ph)YYLSDSPLLGPPVGEPR ddPTM_HeLa_SAHA_4h_R1 1 ETYYLSDSPLLGPPVGEPR 19 0 Q9NYZ3 Q9NYZ3 GTSE1 G2 and S phase-expressed protein 1 1 0 ET(0.941)Y(0.051)Y(0.001)LS(0.001)DS(0.006)PLLGPPVGEPR 193.3 7.19E-14 9112500 1198.8 1346.1 1153.2 1238.2 1485 1409.5 1495.2 1017.9 1251.9 1509.8 TRUE FALSE FALSE 1324.895284 1389.714523 1310.35209 1262.167151 1371.219621 1289.40267 1326.956161 991.8635919 1243.187926 1574.894867 0.84125951 0.88241733 0.83202512 0.801429466 0.870673751 0.818723013 0.842568091 0.629796701 0.789378359 1 10.62103981 -13.52287875 0.070891889 1.661168692 0.574492698 0.099464287 0.082869666 97.2989588 0.535279774 10.6530534 1.498622967 3.00E-14 13.52287875 -1.086675993 ETAAGGLTLKEERS(ph)PQTLAPVGEDAMK ddPTM_HeLa_SAHA_4h_R1 2 ETAAGGLTLKEERSPQTLAPVGEDAMK 27 2 Q92797 Q92797 SYMPK Symplekin 1 0 ET(0.063)AAGGLT(0.142)LKEERS(0.78)PQT(0.015)LAPVGEDAMK;ET(0.074)AAGGLT(0.021)LKEERS(0.674)PQT(0.23)LAPVGEDAMK ; 52.366 0.0053654 31204000 1916.74 1373 1724.74 2224.1 2007.5 2302.3 2326.08 2732.1 1388.75 1739.27 TRUE FALSE FALSE 2118.351508 1417.486101 1959.778585 2267.150672 1853.685784 2106.131088 2064.343356 2662.216838 1379.085576 1814.258441 1.167612871 0.781303296 1.080209159 1.249629391 1.021731933 1.160877105 1.137844151 1.46738567 0.760137334 1 10.82516427 -1.004770229 0.90263493 1.066197435 199.9999827 0.418977315 0.152003206 587.1180064 1.227962638 0.018771445 240682.3319 0.098907624 1.004770229 198.9337853 ETAAGGLTLKEERSPQT(ph)LAPVGEDAMK ddPTM_HeLa_SAHA_4h_R1 1 ETAAGGLTLKEERSPQTLAPVGEDAMK 27 2 Q92797 Q92797 SYMPK Symplekin 1 0 ETAAGGLT(0.001)LKEERS(0.124)PQT(0.875)LAPVGEDAMK 71.091 0.00051125 4380000 575.93 491.38 535.55 499.05 613.03 571.2 674.73 741.98 393.72 587.68 TRUE FALSE FALSE 636.5089599 507.3010344 608.531965 508.7098344 566.0597738 522.5305465 598.8076046 723.001226 390.9800705 613.0177608 1.038320585 0.827547042 0.992682437 0.82984518 0.923398652 0.85239055 0.97681934 1.179413179 0.637795665 1 9.259785063 ETAEAYLGK ddPTM_HeLa_SAHA_4h_R1 1 ETAEAYLGK 9 0 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 120.15 0.021737 4280800 486.29 370.93 421.43 606.17 455.69 875.76 697.08 640.55 822.63 767.12 FALSE FALSE TRUE 537.4402134 382.9483754 478.8602857 617.9032969 420.7751306 801.1403211 618.6427238 624.1656585 816.9052509 800.1942974 0.671637145 0.478569238 0.598430015 0.772191578 0.525841201 1.001182243 0.773115637 0.780017629 1.02088362 1 9.644206537 -9.144102125 0.986676114 0.993479355 0.700353132 0.42779944 0.142011126 0.442705396 0.800413356 0.086403001 0.027225425 7.18E-10 9.144102125 -0.293126223 ETAPTSAYSS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 2 ETAPTSAYSSPAR 13 0 A0A6I8PIW1;O43301;A0A6I8PRZ9;A0A6I8PIX2;A0A6I8PIU5 A0A6I8PIW1 HSPA12A Heat shock 70 kDa protein 12A 1 0 ETAPTSAYS(0.032)S(0.967)PAR;ETAPT(0.001)S(0.001)AYS(0.438)S(0.561)PAR ; 93.228 0.0087293 38775000 3475 4174.8 3152.37 4000.5 4032.5 4860.3 4293.4 4029.3 4100 3982.7 TRUE FALSE FALSE 3840.516444 4310.066259 3581.958567 4077.935462 3723.530721 4446.175097 3810.295332 3926.23634 4071.467766 4154.413688 0.924442468 1.037466796 0.862205557 0.981591091 0.896283086 1.070229262 0.917168009 0.945075921 0.980034265 1 12.02042917 -9.576651076 1.332489606 1.000227975 0.951487705 0.049444748 0.059738638 0.888474039 2.806584379 0.03921889 0.008983651 2.65E-10 9.576651076 -0.04874027 ETAPVQLPVSGPELAAMMK ddPTM_HeLa_SAHA_4h_R1 1 ETAPVQLPVSGPELAAMMK 19 0 O95714;Q9BVR0 O95714 HERC2;HERC2P3 E3 ubiquitin-protein ligase HERC2;Putative HERC2-like protein 3 0 0 63.374 0.0060093 1324400 168.79 0 120.61 103.65 0 0 140.88 0 0 0 FALSE FALSE TRUE 186.5441066 0 137.0461027 105.6562956 0 0 125.0278116 0 0 0 0 ETAVPGPLGIEDIS(ph)PNLSPDDKSFSR ddPTM_HeLa_SAHA_4h_R1 2 ETAVPGPLGIEDISPNLSPDDKSFSR 26 1 Q12888;Q12888-3;Q12888-2;A6NNK5 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 ETAVPGPLGIEDIS(1)PNLSPDDKSFSR;ETAVPGPLGIEDIS(1)PNLSPDDKSFSR ; 137.42 1.23E-09 43018000 4691 3314.49 4321.2 4294 4248 4476.6 4118.2 4861.1 3251.65 3882.9 TRUE FALSE FALSE 5184.420903 3421.881651 4910.070632 4377.116579 3922.519158 4095.168495 3654.809297 4736.760101 3229.021503 4050.310821 1.280005691 0.844844211 1.212270082 1.080686587 0.968448924 1.011075119 0.902352797 1.169480642 0.797228076 1 11.98381691 -5.930497911 5.923732171 1.116206976 1.005785992 0 0.16245742 0.354523134 22.48756759 0.021129127 0.038585763 1.17E-06 5.930497911 -0.110420984 ETAVPGPLGIEDISPNLS(ph)PDDK ddPTM_HeLa_SAHA_4h_R1 1 ETAVPGPLGIEDISPNLSPDDK 22 0 Q12888;Q12888-3;Q12888-2;A6NNK5 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 ETAVPGPLGIEDISPNLS(1)PDDK 99.171 0.00015981 3312000 1397.2 2076.1 1560.6 2017.2 1932 2650.5 1910.7 2449.6 3207.6 2760 TRUE FALSE FALSE 1544.163907 2143.367002 1773.270441 2056.245823 1783.970577 2424.662489 1695.703007 2386.942779 3185.27805 2878.997107 0.536354796 0.744483903 0.615933387 0.714222956 0.619650007 0.84218997 0.588990869 0.829088287 1.106384596 1 11.49135062 -9.476365718 1.196514536 1.001306847 0.67108961 0.653809718 0.103788659 0.245452689 0.624704866 0.067031917 0.016178831 3.34E-10 9.476365718 -0.330217237 ETAVPGPLGIEDISPNLS(ph)PDDKSFSR ddPTM_HeLa_SAHA_4h_R1 2 ETAVPGPLGIEDISPNLSPDDKSFSR 26 1 Q12888;Q12888-3;Q12888-2;A6NNK5 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 ETAVPGPLGIEDIS(0.149)PNLS(0.782)PDDKS(0.021)FS(0.048)R;ETAVPGPLGIEDIS(0.036)PNLS(0.964)PDDKS(0.001)FSR ; 125.34 2.88E-08 207547700 5390.7 4826.1 5114.6 5060.4 5466.5 6215.4 5166 6081.1 5072.2 5624.9 TRUE FALSE FALSE 5957.718559 4982.468807 5811.591052 5158.351359 5047.657951 5685.812953 4584.708084 5925.554267 5036.902147 5867.416967 1.015390349 0.849175853 0.990485436 0.879152 0.860286218 0.969048729 0.7813844 1.0099085 0.858453077 1 12.51850981 -7.278446715 24.71358964 1.007267669 0.903795392 0 0.081096132 507.7967271 737884.7431 0.009964654 0.011410889 5.27E-08 7.278446715 -0.103472277 ETCAWFTDNYEQAR ddPTM_HeLa_SAHA_4h_R1 1 ETCAWFTDNYEQAR 14 0 Q13630 Q13630 TSTA3 GDP-L-fucose synthase 0 0 190.35 8.73E-08 3181200 344.42 327.49 245.89 275.59 216.2 291.14 267.19 362.81 338.73 227.72 FALSE FALSE TRUE 380.6476759 338.1008909 279.3986087 280.924443 199.6348027 266.3332341 237.125078 353.5298455 336.3727504 237.5381236 1.602469827 1.423354221 1.176226386 1.18264992 0.840432684 1.121223112 0.99826114 1.488307814 1.416079007 1 7.892015267 -6.458839789 3.186707782 1.302586113 1.103652412 0.192102243 0.211280725 0.467770432 9.355202423 0.042867757 0.066122978 3.48E-07 6.458839789 -0.198933702 ETCSTLAES(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 ETCSTLAESPR 11 0 Q6P2E9;Q6P2E9-2 Q6P2E9 EDC4 Enhancer of mRNA-decapping protein 4 1 0 ETCSTLAES(1)PR;ETCSTLAES(1)PR;ETCS(0.001)TLAES(0.999)PR ;; 199.19 4.22E-10 59086900 3213.66 3669.35 2947.32 3538.14 3659.81 4172.4 3663 3614.19 4114.07 3808.38 TRUE FALSE FALSE 3551.687504 3788.239348 3348.965421 3606.625816 3379.396148 3816.888047 3250.8296 3521.744253 4085.439852 3972.5779 0.894051065 0.953597247 0.843020705 0.907880451 0.850680901 0.960808861 0.818317395 0.886513579 1.028410255 1 11.95585979 -11.78318836 0.216522377 1.254708315 0.867130838 0.587920738 0.042405114 12.87482075 0.314059247 1.480640062 0.03601709 1.65E-12 11.78318836 -0.387577477 ETCSTLAES(ph)PRNGLQEK ddPTM_HeLa_SAHA_4h_R1 1 ETCSTLAESPRNGLQEK 17 1 Q6P2E9;Q6P2E9-2 Q6P2E9 EDC4 Enhancer of mRNA-decapping protein 4 1 0 ET(0.002)CS(0.053)T(0.009)LAES(0.936)PRNGLQEK 64.249 0.015039 13236000 1369.2 765.65 1193.4 1071.5 1239.1 1158.9 1540.4 1669.2 516.55 982.57 TRUE FALSE FALSE 1513.218738 790.4575624 1356.030337 1092.240432 1144.160426 1060.1552 1367.070138 1626.504281 512.9552865 1024.933401 1.476406893 0.77122822 1.32304239 1.065669663 1.116326606 1.034364964 1.333813627 1.586936555 0.5004767 1 10.00131445 -4.412238342 3.347241557 1.174680797 1.588333039 0.169951513 0.282599274 0.289138898 5.330955316 0.030393257 0.239765019 3.87E-05 4.412238342 0.413652241 ETDSPST(ph)PGKDQR ddPTM_HeLa_SAHA_4h_R1 1 ETDSPSTPGKDQR 13 1 A0A1W2PQJ7;Q7Z5J4-3;Q7Z5J4-2;Q7Z5J4 A0A1W2PQJ7 RAI1 Retinoic acid-induced protein 1 1 0 ETDS(0.013)PS(0.227)T(0.76)PGKDQR 141.59 0.017156 3360000 1896.9 1565.5 1261.4 1563.3 1342.7 1620.5 1557.3 1607.5 2084 1935.3 TRUE FALSE FALSE 2096.424645 1616.223227 1433.297023 1593.559932 1239.822616 1482.424283 1382.068505 1566.382478 2069.497274 2018.740254 1.038481618 0.800609798 0.709995761 0.789383344 0.614156583 0.734331363 0.684619283 0.775920763 1.025142918 1 10.97923958 -7.130483426 3.246403286 1.018594746 0.717049285 0.891239234 0.047280609 0.05150079 1.0201434 0.007754924 0.009620012 7.40E-08 7.130483426 -0.30154546 ETDSPSTPGK(ac)DQR ddPTM_HeLa_SAHA_4h_R1 2 ETDSPSTPGKDQR 13 1 A0A1W2PQJ7;Q7Z5J4-3;Q7Z5J4-2;Q7Z5J4 A0A1W2PQJ7 RAI1 Retinoic acid-induced protein 1 0 1 ; ETDSPSTPGK(1)DQR;ETDSPSTPGK(1)DQR 145.28 0.00012722 905160 71.524 0 130.479 198.15 289.24 469.19 369.58 335.91 0 0 FALSE TRUE FALSE 79.04722248 0 148.2599986 201.9854798 267.0784937 429.2123724 327.9938857 327.3179086 0 0 0 ETDVS(ph)PFPPR ddPTM_HeLa_SAHA_4h_R1 2 ETDVSPFPPR 10 0 Q9H8V3-2;Q9H8V3-4;Q9H8V3;Q9H8V3-3 Q9H8V3-2 ECT2 Protein ECT2 1 0 ET(0.002)DVS(0.998)PFPPR;ET(0.029)DVS(0.971)PFPPR ; 91.549 0.0074942 3104600 2987.4 2486 2286.6 2955.6 3041.9 3073 2892.4 3024.1 3129.6 2674 TRUE FALSE FALSE 3301.628439 2566.548031 2598.20594 3012.809912 2808.830279 2811.163112 2566.93954 2946.747901 3107.820859 2789.289226 1.18368092 0.920144102 0.931493914 1.080135356 1.007005746 1.0078421 0.920284464 1.056451182 1.114198137 1 11.44568182 -7.251192679 24.99159419 1.086738214 0.989108933 0.362877249 0.066317362 768.4270896 1874185.28 0.013857009 0.016865589 5.61E-08 7.251192679 -0.097629281 ETDYPAGEDLSES(ph)GQVDK ddPTM_HeLa_SAHA_4h_R1 1 ETDYPAGEDLSESGQVDK 18 0 O60271-3;O60271;A0A087X2D8;O60271-5;O60271-9;O60271-4;O60271-2;H0YBS5 O60271-3 SPAG9 C-Jun-amino-terminal kinase-interacting protein 4 1 0 ETDYPAGEDLS(0.207)ES(0.793)GQVDK 234.82 3.75E-29 5767300 2176.5 2812.4 2428.6 2501.8 2288.8 3393.6 2870.3 2596.1 3455.1 2655 TRUE FALSE FALSE 2405.434256 2903.523605 2759.55696 2550.225957 2113.432638 3104.446188 2547.32629 2529.695521 3431.055678 2769.470043 0.86855399 1.048404048 0.996420585 0.920835364 0.763118071 1.120953157 0.919788353 0.913422237 1.238885283 1 11.43539422 ETEAAPT(ph)SPPIVPLK ddPTM_HeLa_SAHA_4h_R1 1 ETEAAPTSPPIVPLK 15 0 A0A1W2PRB5;A0A0J9YVS1;A0A3B3IT55;A0A0G2JNB1;A0A0G2JNT7;Q7Z3B3;Q7Z3B3-4;Q7Z3B3-2 A0A1W2PRB5 KANSL1 KAT8 regulatory NSL complex subunit 1 1 0 ETEAAPT(0.5)S(0.5)PPIVPLK 144.8 0.00017753 11535000 5280.6 4897.9 4145.6 4224.6 4454.3 5244.7 4851 4920.9 5397.3 4967.3 TRUE FALSE FALSE 5836.037736 5056.595174 4710.540779 4306.373242 4113.012496 4797.822054 4305.152713 4795.030503 5359.73975 5181.464612 1.126329749 0.975900745 0.90911376 0.831111194 0.793793416 0.925958665 0.830875637 0.925419908 1.034406322 1 12.33914424 -6.841341091 2.563364755 1.059355751 0.861452602 0.735028671 0.050120039 0.113033101 1.518040145 0.009969018 0.013689846 1.44E-07 6.841341091 -0.197903149 ETEAAPTS(ph)PPIVPLK ddPTM_HeLa_SAHA_4h_R1 1 ETEAAPTSPPIVPLK 15 0 A0A1W2PRB5;A0A0J9YVS1;A0A3B3IT55;A0A0G2JNB1;A0A0G2JNT7;Q7Z3B3;Q7Z3B3-4;Q7Z3B3-2 A0A1W2PRB5 KANSL1 KAT8 regulatory NSL complex subunit 1 1 0 ETEAAPT(0.011)S(0.989)PPIVPLK 140.1 0.00015202 9950000 4062.1 4168.3 3029.6 3410 3662.5 3699.1 3677.8 3237.4 4120.9 4122.2 TRUE FALSE FALSE 4489.370316 4303.355655 3442.458111 3476.005481 3381.880041 3383.915869 3263.964265 3154.591996 4092.222321 4299.928216 1.044057038 1.000797092 0.800585019 0.808386863 0.78649686 0.786970317 0.759074129 0.733638293 0.951695497 1 12.07009686 -6.756556766 4.011919456 1.0211208 0.777712092 0.926010421 0.030323738 0.029845745 1.077008843 0.00413451 0.005727904 1.75E-07 6.756556766 -0.243408708 ETEEQDS(ph)DSAEQGDPAGEGK ddPTM_HeLa_SAHA_4h_R1 1 ETEEQDSDSAEQGDPAGEGK 20 0 H0Y626;O95361 H0Y626 TRIM16 Tripartite motif-containing protein 16 1 0 ET(0.014)EEQDS(0.673)DS(0.313)AEQGDPAGEGK 124.88 9.54E-05 16149000 2215.7 3286.8 2939.2 3002.7 2844.3 3575.7 3098.5 2842.9 4338.3 3229 TRUE FALSE FALSE 2448.757492 3393.294477 3339.738869 3060.8216 2626.370348 3271.030244 2749.848625 2770.182734 4308.109417 3368.217992 0.727018708 1.00744503 0.991544751 0.908736194 0.779750703 0.971145648 0.816410527 0.822447579 1.279047089 1 11.7177698 ETEEQDS(ph)DSAEQGDPAGEGKEVLCDFCLDDTRR ddPTM_HeLa_SAHA_4h_R1 1 ETEEQDSDSAEQGDPAGEGKEVLCDFCLDDTRR 33 2 H0Y626;O95361 H0Y626 TRIM16 Tripartite motif-containing protein 16 1 0 ET(0.008)EEQDS(0.823)DS(0.157)AEQGDPAGEGKEVLCDFCLDDT(0.012)RR 52.572 0.0020904 12835000 1250.2 967.77 1207.2 963.44 1194.2 1411.6 1145.7 1052.8 896.88 1170.2 TRUE FALSE FALSE 1381.701772 999.126383 1371.710929 982.0887744 1102.700654 1291.323739 1016.782821 1025.8709 890.6385391 1220.653049 1.131936526 0.818517911 1.123751692 0.804560129 0.903369434 1.057895804 0.832982658 0.840427918 0.729641023 1 10.25343748 -6.835959581 1.264838539 1.057871121 0.904150245 0 0.151043047 0.424968575 1.356891132 0.020479737 0.029589544 1.46E-07 6.835959581 -0.153720876 ETEEQDSDS(ph)AEQGDPAGEGK ddPTM_HeLa_SAHA_4h_R1 1 ETEEQDSDSAEQGDPAGEGK 20 0 H0Y626;O95361 H0Y626 TRIM16 Tripartite motif-containing protein 16 1 0 ETEEQDS(0.171)DS(0.828)AEQGDPAGEGK 183.75 1.19E-10 13751000 3995.1 5171 3796 3858.5 4724.8 5556.3 4842.5 3616.6 5577.8 4767.4 TRUE FALSE FALSE 4415.322948 5338.543793 4313.299111 3933.186847 4362.786845 5082.871981 4297.609155 3524.092609 5538.983636 4972.945945 0.887868679 1.073517358 0.867352905 0.790916871 0.877304297 1.022104812 0.864197842 0.708652909 1.113823415 1 12.27988503 -6.567478712 24.9998687 0.955787152 0.860570075 0.326340333 0.099860211 158.458889 88821.26304 0.014351747 0.020296441 2.71E-07 6.567478712 -0.095217077 ETEIS(ph)LKDSTLDN ddPTM_HeLa_SAHA_4h_R1 2 ETEISLKDSTLDN 13 1 O75475 O75475 PSIP1 PC4 and SFRS1-interacting protein 1 0 ETEIS(0.914)LKDS(0.043)T(0.043)LDN;ETEIS(0.91)LKDS(0.045)T(0.045)LDN ; 127.02 0.0038499 18796500 5068.6 5352.3 4092.7 5108.8 5910.1 5634.2 4929.4 5137.5 6365.7 5766.1 TRUE FALSE FALSE 5601.738604 5525.718032 4650.431842 5207.688211 5457.269415 5154.134463 4374.730939 5006.090189 6321.400575 6014.70479 0.931340573 0.918701453 0.773177073 0.86582607 0.907321241 0.856922267 0.727339261 0.832308544 1.050990996 1 12.55427821 -6.875987428 0.250006678 1.02949794 0.752024203 0.673760053 0.052917293 1.048585804 0.209813781 0.071499582 0.111367693 1.33E-07 6.875987428 -0.277473738 ETENTAYKVGNES(ph)PVQELK ddPTM_HeLa_SAHA_4h_R1 1 ETENTAYKVGNESPVQELK 19 1 Q5JSH3-2;Q5JSH3 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 ETENTAYKVGNES(1)PVQELK 73.839 0.0046516 65582000 1456 1314.6 1258 1204.6 1683.7 1546.9 1618.4 1600 1025.5 1372.1 TRUE FALSE FALSE 1609.14876 1357.193903 1429.433689 1227.916775 1554.69527 1415.095417 1436.293373 1559.074317 1018.363462 1431.257946 1.124289835 0.948252484 0.998725417 0.857928355 1.08624394 0.988707466 1.003518183 1.089303519 0.711516373 1 10.48306799 -7.25048833 24.81404867 1.058692423 0.994352366 0 0.129077701 978.6481525 2217525.888 0.012346607 0.015037928 5.62E-08 7.25048833 -0.064340058 ETERAS(ph)PIKMDLAPSK ddPTM_HeLa_SAHA_4h_R1 3 ETERASPIKMDLAPSK 16 2 E7EVA0;P27816;P27816-6;P27816-2 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 ET(0.088)ERAS(0.911)PIKMDLAPS(0.001)K;ET(0.126)ERAS(0.873)PIKMDLAPS(0.001)K;ET(0.004)ERAS(0.996)PIKMDLAPSK ;; 85.737 0.0066848 610471000 10464.8 10439.4 8438.9 10756.6 10669.9 11631.9 11895.2 11366.9 11287.1 10361.9 TRUE FALSE FALSE 11565.53568 10777.64341 9588.909344 10964.80955 9852.374567 10640.79668 10556.72079 11076.15116 11208.55215 10808.65222 1.070025702 0.997131112 0.887151252 1.014447438 0.911526652 0.984470262 0.976691689 1.024748593 1.036998131 1 13.39989902 -7.002150683 24.99971027 1.033094575 0.965355253 0.34866262 0.042331183 72.60171583 843941.7293 0.007144934 0.009303241 9.95E-08 7.002150683 -0.067739322 ETES(ph)APGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 ETESAPGSPR 10 0 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50;H0YBW1 Q6PKG0 LARP1 La-related protein 1 2 0 ET(0.018)ES(0.982)APGS(1)PR;ET(0.063)ES(0.937)APGS(1)PR ; 134.18 0.015791 137831000 18080.9 17802.8 14545.5 17672.8 18115.4 20679.6 19431.5 17959.1 18858.4 17323.2 TRUE FALSE FALSE 19982.73202 18379.6224 16527.68499 18014.8826 16727.40197 18917.58174 17245.01648 17499.73223 18727.16286 18070.08793 1.105845865 1.01712966 0.914643307 0.996944933 0.92569566 1.04690037 0.954340485 0.968436473 1.036362575 1 14.14131591 -6.993940742 24.7721068 1.050588297 0.969855744 0.424527622 0.042102147 114.2170288 466950.5887 0.008012708 0.010513608 1.01E-07 6.993940742 -0.080732552 ETES(ph)APGSPR ddPTM_HeLa_SAHA_4h_R1 1 ETESAPGSPR 10 0 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50;H0YBW1 Q6PKG0 LARP1 La-related protein 1 1 0 ET(0.001)ES(0.998)APGS(0.001)PR 133.42 0.0014369 32288000 2154.9 2419.9 2102.1 2121.1 2138.1 2660.2 2804.4 2619.8 2382.6 2339.3 TRUE FALSE FALSE 2381.562269 2498.306348 2388.563241 2162.156958 1974.27924 2433.535994 2488.841531 2552.789309 2366.019293 2440.158671 0.975986643 1.023829465 0.978855707 0.88607228 0.809078222 0.997285965 1.019950694 1.046157096 0.969616985 1 11.25275925 -6.507025188 24.17919791 0.991474601 0.948343783 0.080337572 0.064961619 977.9471996 1491526.225 0.010661287 0.015989212 3.11E-07 6.507025188 -0.043130818 ETES(ph)EAEDNLDDLEK ddPTM_HeLa_SAHA_4h_R1 2 ETESEAEDNLDDLEK 15 0 A9Z1X7;Q8IYB3;Q8IYB3-2 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 ET(0.006)ES(0.994)EAEDNLDDLEK;ET(0.027)ES(0.973)EAEDNLDDLEK ; 179.9 2.45E-07 6005600 1176.21 1397.34 1317.21 1449.47 1768.2 1675.91 1697.78 1613.64 1552.34 1487.9 TRUE FALSE FALSE 1299.929164 1442.614733 1496.712519 1477.526588 1632.720898 1533.11304 1506.741326 1572.365425 1541.53714 1552.050651 0.83755589 0.929489468 0.964345151 0.951983485 1.051976556 0.987798329 0.9708068 1.01308899 0.993226052 1 10.59995992 -6.305756495 1.870802807 0.922401608 1.000271585 0.201385135 0.048843493 0.391135118 2.67222898 0.010392188 0.018034493 4.95E-07 6.305756495 0.077869977 ETESAPGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 5 ETESAPGSPR 10 0 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50;H0YBW1 Q6PKG0 LARP1 La-related protein 1 1 0 ETESAPGS(1)PR;ETESAPGS(1)PR;ETESAPGS(1)PR;ETESAPGS(1)PR;ETESAPGS(1)PR ;;;; 158.34 0.00024384 807597590 16249.4 16154.52 12330.59 16182.04 16748.75 18743.98 20693.7 17024 19692.65 15856.21 TRUE FALSE FALSE 17958.58645 16677.93705 14010.93859 16495.26678 15465.46439 17146.88745 18365.19041 16588.55073 19555.60725 16539.84881 1.085776941 1.008348821 0.847101975 0.997304569 0.93504267 1.036701583 1.110360235 1.00294452 1.18233289 1 14.01365843 -11.75933775 10.89933767 0.394630959 1.02019153 0 0.088075982 0 0 0 0.010275795 1.74E-12 11.75933775 0.625560571 ETFAS(ph)DTNEALASLDESQEGHAEAK ddPTM_HeLa_SAHA_4h_R1 2 ETFASDTNEALASLDESQEGHAEAK 25 0 Q9H814 Q9H814 PHAX Phosphorylated adapter RNA export protein 1 0 ET(0.03)FAS(0.814)DT(0.156)NEALASLDESQEGHAEAK;ET(0.064)FAS(0.872)DT(0.064)NEALASLDESQEGHAEAK ; 156.56 3.58E-10 7151300 1331.48 2216.22 1129.98 1671.46 2157.8 3209.83 1915.86 2035.98 3138.06 1786.36 TRUE FALSE FALSE 1471.531175 2288.026982 1283.96779 1703.813525 1992.46983 2936.334426 1700.282391 1983.90258 3116.221985 1863.378722 0.789711269 1.227891547 0.689053586 0.914367812 1.069277977 1.575811933 0.912472795 1.06468028 1.672350311 1 10.86370521 -5.624533138 4.630107787 0.909409933 1.180726463 0 0.315949064 0.21323665 7.848549595 0.029204529 0.059822504 2.37E-06 5.624533138 0.271316529 ETFASDTNEALAS(ph)LDESQEGHAEAK ddPTM_HeLa_SAHA_4h_R1 1 ETFASDTNEALASLDESQEGHAEAK 25 0 Q9H814 Q9H814 PHAX Phosphorylated adapter RNA export protein 1 0 ETFASDTNEALAS(1)LDESQEGHAEAK 121.23 9.70E-08 4077400 351.69 510.45 324.87 517.21 553.61 794.61 635.67 403.47 704.64 629.97 TRUE FALSE FALSE 388.6823678 526.9889149 369.1415917 527.2213474 511.1925214 726.9047576 564.1427386 393.1498216 699.7363529 657.1310897 0.59148376 0.801954014 0.561747264 0.802307722 0.777915593 1.106179222 0.858493454 0.598282181 1.064835257 1 9.360037389 -4.25137399 21.71117015 0.807043388 0.598281419 0.123444552 0.174169798 412.8832962 890468.503 0.026056205 0.414735453 5.61E-05 4.25137399 -0.208761969 ETFASDTNEALASLDES(ph)QEGHAEAK ddPTM_HeLa_SAHA_4h_R1 1 ETFASDTNEALASLDESQEGHAEAK 25 0 Q9H814 Q9H814 PHAX Phosphorylated adapter RNA export protein 1 0 ETFASDTNEALASLDES(1)QEGHAEAK 214.62 1.91E-32 20356000 3612.5 4020.3 2621.2 3207.9 3956.7 3718.5 3263.2 3105.7 6185.5 3770 TRUE FALSE FALSE 3992.479325 4150.560358 2978.403485 3269.993543 3653.538501 3401.66288 2896.016148 3026.260691 6142.454602 3932.54315 1.015241072 1.055439241 0.757373377 0.831521338 0.929052362 0.86500332 0.736423235 0.769542908 1.561954788 1 11.94124688 -6.764657993 24.99999804 1.011016432 0.819488625 0.370643828 0.182515488 32.16408153 249829.0961 0.009209419 0.012388542 1.72E-07 6.764657993 -0.191527807 ETFLTSPEELYR ddPTM_HeLa_SAHA_4h_R1 5 ETFLTSPEELYR 12 0 G3V438;O95433;H0YJ63;H0YJG7;O95433-2 G3V438 AHSA1 Activator of 90 kDa heat shock protein ATPase homolog 1 0 0 ;;;; ;;;; 224.75 1.27E-21 42783400 3466.52 3387.299 2868.06 3319.21 2964.198 3783.67 3317.21 2993.75 3078.87 2849.65 FALSE FALSE TRUE 3831.144479 3497.04971 3258.904281 3383.458109 2737.08179 3461.28003 2943.9488 2917.17421 3057.443893 2972.512357 1.288857377 1.176462631 1.096346756 1.138248627 0.920797447 1.164429147 0.990390769 0.981383375 1.028572307 1 11.53746709 -5.85393373 13.5923368 1.139746136 1.023290042 0.217718955 0.095193871 0.964172384 137.129751 0.017764756 0.032206113 1.40E-06 5.85393373 -0.116456094 ETFS(ph)SAEGTVDKDTTIMELR ddPTM_HeLa_SAHA_4h_R1 3 ETFSSAEGTVDKDTTIMELR 20 1 P46100-5;P46100-3;P46100-4;P46100;P46100-2;A0A096LNW1;A0A096LNL9;P46100-6 P46100-5 ATRX Transcriptional regulator ATRX 1 0 ET(0.047)FS(0.791)S(0.119)AEGT(0.043)VDKDTTIMELR;ET(0.044)FS(0.941)S(0.015)AEGTVDKDTTIMELR;ET(0.033)FS(0.886)S(0.081)AEGT(0.001)VDKDTTIMELR ;; 124.21 7.87E-05 45900800 3044.73 2976.57 2579.27 3195.44 3722.23 3572.97 3313.91 3439.31 2808.18 3519.03 TRUE FALSE FALSE 3364.988671 3073.012821 2930.759483 3257.292362 3437.033542 3268.532855 2941.020125 3351.33743 2788.637647 3670.752605 0.916702658 0.837161517 0.798408337 0.887363631 0.936329388 0.890425808 0.801203579 0.912983737 0.759690981 1 11.84186017 -8.156401041 0.903925698 0.986978002 0.86708355 0 0.084247713 0.279585591 0.486400828 0.014944202 0.010392013 6.98E-09 8.156401041 -0.119894452 ETGEHLVHVK ddPTM_HeLa_SAHA_4h_R1 4 ETGEHLVHVK 10 0 P21333-2;P21333;Q60FE5 P21333-2 FLNA Filamin-A 0 0 ;;; ;;; 123.35 0.0010648 38076800 19170.2 19612.4 16737.3 20530.1 21473.5 10219.8 21428.7 18855.6 24053 20332.3 FALSE FALSE TRUE 21186.60959 20247.85463 19018.17208 20927.48977 19828.20507 9349.015545 19017.48628 18373.30105 23885.61321 21208.92496 0.998947831 0.954685571 0.896706086 0.986730342 0.93489911 0.440805725 0.89667375 0.866300442 1.126205749 1 14.37238387 -5.499265143 24.81960549 0.985368977 0.740309836 0.458354317 0.126120538 435.529651 457772.7874 0.015892117 0.035326355 3.17E-06 5.499265143 -0.245059141 ETGEHLVHVK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 ETGEHLVHVKK 11 1 P21333-2;P21333;Q60FE5 P21333-2 FLNA Filamin-A 0 1 ETGEHLVHVK(1)K 88.134 0.0052093 2484200 2696.6 4333.1 3209.9 3385.9 4395.5 1480 5367.8 3775.7 3320 2421.5 FALSE TRUE FALSE 2980.24076 4473.495283 3647.328456 3451.438991 4058.71774 1353.895674 4763.801017 3679.123061 3296.89585 2525.902716 1.179871553 1.771048131 1.443970282 1.366418021 1.606838504 0.536004679 1.885979609 1.456557705 1.305234691 1 11.30258336 -7.482284804 8.42295241 1.078753738 1.428414998 0.109228053 0.348920617 0.376195777 71.47201513 0.056499983 0.063241114 3.29E-08 7.482284804 0.34966126 ETHPDSLR ddPTM_HeLa_SAHA_4h_R1 1 ETHPDSLR 8 0 P56597 P56597 NME5 Nucleoside diphosphate kinase homolog 5 0 0 95.909 0.015104 6055700 3092 2859 3385.1 4367.8 3148.9 4543.8 4875.9 4382.9 2815.4 3949.8 FALSE FALSE TRUE 3417.230747 2951.633476 3846.403799 4452.345085 2907.631962 4156.642677 4327.250899 4270.791764 2795.807402 4120.095208 0.829405772 0.716399337 0.933571582 1.080641311 0.705719605 1.00887054 1.050279346 1.036575989 0.678578349 1 12.00846196 -5.021870235 24.59937459 0.901546328 1.039964559 0.232698883 0.130559613 699.1281929 786372.9186 0.016580365 0.042725785 9.51E-06 5.021870235 0.138418231 ETHVMDYR ddPTM_HeLa_SAHA_4h_R1 2 ETHVMDYR 8 0 H0YM70;A0A087X1Z3;Q9UL46 H0YM70 PSME2 Proteasome activator complex subunit 2 0 0 ; ; 118.5 0.0014897 3157600 5146 5006.6 5473.5 6112.5 5701.8 2184.14 5977.1 4837.8 4958 5799.5 FALSE FALSE TRUE 5687.279891 5168.817125 6219.400075 6230.816276 5264.929316 1998.038984 5304.540977 4714.056081 4923.496874 6049.544827 0.940116993 0.85441422 1.02807736 1.029964477 0.870301728 0.330279226 0.876849603 0.77924145 0.813862367 1 12.56261088 -5.510270028 24.48119855 0.968844652 0.669711768 0.419002785 0.147061619 272.6787411 529434.5768 0.018729174 0.040022185 3.09E-06 5.510270028 -0.299132884 ETIELS(ph)PTGRPK ddPTM_HeLa_SAHA_4h_R1 1 ETIELSPTGRPK 12 1 A0A087WSW7;F6XU50;A0A0B4J1V9;Q9NRZ9-6;Q9NRZ9-5;Q9NRZ9-3;Q9NRZ9-2;Q9NRZ9;Q9NRZ9-4 A0A087WSW7 HELLS Lymphoid-specific helicase 1 0 ET(0.001)IELS(0.982)PT(0.017)GRPK 74.853 0.016184 9857400 2370.4 3077.2 1975.7 2585.6 2681.3 3540.2 2857.6 2751.2 3801.3 2817.8 TRUE FALSE FALSE 2619.729548 3176.903299 2244.938107 2635.648027 2475.859373 3238.555043 2536.055327 2680.828288 3774.846444 2939.289148 0.891279971 1.080840686 0.763769059 0.89669573 0.842332703 1.101815739 0.862812469 0.912066882 1.284271895 1 11.52125157 -9.490936628 0.89725397 1.007360586 0.916931053 0.177485949 0.132722206 1.459290154 1.803046209 0.096911047 0.017011465 3.23E-10 9.490936628 -0.090429533 ETIEQEK ddPTM_HeLa_SAHA_4h_R1 1 ETIEQEK 7 0 P62328;P63313;CON__P21752 P62328;P63313 TMSB4X;TMSB10 Thymosin beta-4;Hematopoietic system regulatory peptide;Thymosin beta-10 0 0 132.08 0.0067516 20635000 1971.6 1369.1 2048.5 2327.2 1388.3 878.13 1182.6 1116.4 1057.9 1432.1 FALSE FALSE TRUE 2178.981934 1413.459738 2327.658912 2372.246321 1281.928754 803.3083838 1049.530736 1087.844105 1050.537988 1493.84484 1.458640065 0.946189123 1.558166451 1.588013868 0.858140498 0.537745529 0.702570112 0.7282176 0.70324438 1 10.54481459 -5.564647072 7.405454972 1.250466782 0.6663626 0.461893801 0.269934995 0.116051711 16.82296891 0.035399965 0.071374246 2.72E-06 5.564647072 -0.584104182 ETIEQEK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 ETIEQEKR 8 1 P63313 P63313 TMSB10 Thymosin beta-10 0 1 ; ETIEQEK(1)R;ETIEQEK(1)R 133.57 0.00020656 13404600 2475.02 5679.5 3983.4 5288.3 5919.6 7332.9 9282.5 7144.6 6098.9 2986.03 FALSE TRUE FALSE 2735.353959 5863.519526 4526.237007 5390.662694 5466.041527 6708.095666 8238.00867 6961.851477 6056.457258 3114.772367 0.878187436 1.882487333 1.45315178 1.730676293 1.754876724 2.153639135 2.64481885 2.235107628 1.944430137 1 11.60491102 -6.005251074 0.508277702 0.909008138 2.583040192 0.377088628 0.407226981 0.340903851 0.152960912 0.068590046 0.256702377 9.88E-07 6.005251074 1.674032054 ETIEQEKQAGES ddPTM_HeLa_SAHA_4h_R1 2 ETIEQEKQAGES 12 1 P62328 P62328 TMSB4X Thymosin beta-4;Hematopoietic system regulatory peptide 0 0 ; ; 125.97 0.0040586 2949900 2468 1606.04 2361.2 2086.3 2091.63 2072.66 2122.7 2390.1 1282.03 2410.7 FALSE FALSE TRUE 2727.595564 1658.07675 2682.972039 2126.683353 1931.369761 1896.057708 1883.848209 2328.964703 1273.108249 2514.637075 1.084687564 0.6593702 1.066942052 0.845721784 0.768051096 0.754008492 0.74915312 0.926163352 0.506279121 1 11.29613448 -7.284336063 24.80981345 1.039991357 0.826619483 0 0.199787544 449.9419579 487535.4933 0.017892602 0.020468314 5.20E-08 7.284336063 -0.213371875 ETIEQEKR ddPTM_HeLa_SAHA_4h_R1 2 ETIEQEKR 8 1 P63313 P63313 TMSB10 Thymosin beta-10 0 0 ; ; 94.302 0.0060435 3880600 1468.24 1620.68 1550.45 2237.71 1580.2 1842.88 2508.8 2301.4 1648.99 2064.2 FALSE FALSE TRUE 1622.67622 1673.191095 1761.737252 2281.024113 1459.125417 1685.856256 2226.503221 2242.53352 1637.514544 2153.197764 0.753612254 0.777072651 0.818195746 1.059365819 0.677655087 0.782954675 1.034044925 1.041489806 0.76050355 1 11.07226512 -4.742777669 23.53536846 0.8614829 1.037767787 0.321993237 0.113650115 138.5642892 174745.1484 0.017672203 0.065821713 1.81E-05 4.742777669 0.176284887 ETIFELEDQVEQHR ddPTM_HeLa_SAHA_4h_R1 1 ETIFELEDQVEQHR 14 0 Q5M775-4;Q5M775;Q5M775-5;Q5M775-3;Q5M775-2;J3KSG2;J3KRN9;J3QQM0 Q5M775-4 SPECC1 Cytospin-B 0 0 180.3 6.53E-07 2639200 875.15 1108.8 874.94 1194.8 1330.8 1094.5 1333.6 1034.1 1360.2 1068.8 FALSE FALSE TRUE 967.2022923 1144.725848 994.1722667 1217.927082 1228.834392 1001.242443 1183.539818 1007.649219 1350.734257 1114.881199 0.867538437 1.026769354 0.891729332 1.09242768 1.102211063 0.898070973 1.061583799 0.903817573 1.211549947 1 10.12267427 -6.27706075 24.72724405 0.940862667 1.013122179 0 0.115627989 1020.359486 1615135.386 0.012606316 0.019292967 5.28E-07 6.27706075 0.072259512 ETIHLPAS(ph)SPHPPPFP ddPTM_HeLa_SAHA_4h_R1 1 ETIHLPASSPHPPPFP 16 0 Q5SZC3;Q5SZC6;Q9Y2T3-3 Q5SZC3 GDA 1 0 ETIHLPAS(0.548)S(0.452)PHPPPFP 72.433 0.016084 2573400 526.45 915.33 701.95 702.7 1319.7 623.82 872.62 883.41 963.11 749.83 TRUE FALSE FALSE 581.8244264 944.9872926 797.6080904 716.3017746 1218.584871 570.6670265 774.430501 860.8136514 956.4076391 782.1588409 0.74386991 1.208178241 1.019752061 0.915800905 1.557976216 0.729605032 0.990119219 1.100561173 1.222779299 1 9.61131781 -7.262277284 24.99997969 0.879049681 1.068431997 0 0.23619273 109.8649168 3277941.247 0.03555853 0.041934827 5.47E-08 7.262277284 0.189382316 ETLVYLTHLDYVDTER ddPTM_HeLa_SAHA_4h_R1 1 ETLVYLTHLDYVDTER 16 0 O14980 O14980 XPO1 Exportin-1 0 0 192.4 8.32E-12 3871900 1541 1767.2 1636.2 1944.9 2002.4 2362.5 1999.4 1820.5 1836.1 1657 FALSE FALSE TRUE 1703.08945 1824.45844 1859.172815 1982.546352 1848.976545 2161.201709 1774.42225 1773.934246 1823.322431 1728.441379 0.985332491 1.055551239 1.075635447 1.147013937 1.069736334 1.250376053 1.026602505 1.026320168 1.054893994 1 10.75525596 -6.959627707 2.06799564 0.992892722 1.105348666 0.249396349 0.064128066 0.226305291 1.940138312 0.01029315 0.013666121 1.10E-07 6.959627707 0.112455944 ETMQSLNDR ddPTM_HeLa_SAHA_4h_R1 5 ETMQSLNDR 9 0 P05783;F8VZY9;CON__Q92764;C4AM86;CON__Q497I4;Q92764 P05783 KRT18;KRT35 "Keratin, type I cytoskeletal 18;Keratin, type I cuticular Ha5" 0 0 ;;;; ;;;; 200.56 8.75E-10 78907000 10531.3 8494.53 8304.5 9846.9 10308.7 12048.5 11295.5 9679 10956.1 9974.9 FALSE FALSE TRUE 11639.03045 8769.758345 9436.194012 10037.50099 9518.849633 11021.90002 10024.50061 9431.425195 10879.85561 10404.96675 1.118603329 0.842843476 0.90689324 0.964683619 0.914837102 1.05929219 0.96343418 0.906434919 1.045640593 1 13.34498474 -7.272873108 24.96633459 1.056007127 0.941707556 0.453468872 0.059110891 550.0730874 1201120.394 0.011662998 0.013396707 5.33E-08 7.272873108 -0.114299571 ETNLDS(ph)LPLVDTHSK ddPTM_HeLa_SAHA_4h_R1 2 ETNLDSLPLVDTHSK 15 0 P08670 P08670 VIM Vimentin 1 0 ET(0.001)NLDS(0.999)LPLVDTHSK;ET(0.001)NLDS(0.999)LPLVDTHSK ; 151.58 4.06E-05 51284000 5666.12 7147.03 6121.31 5694.29 7177.7 7522.29 7193.59 6229.01 7784.05 5836.36 TRUE FALSE FALSE 6262.108499 7378.598461 6955.490248 5804.511217 6627.746177 6881.348573 6384.148321 6069.680944 7729.880162 6087.994042 1.028599643 1.211991735 1.142492946 0.953435758 1.088658453 1.130314604 1.048645626 0.996991932 1.269692465 1 12.57175123 -7.498714153 21.97936165 1.012617234 1.082918977 0 0.106798415 77.66714234 70646.37684 0.012344159 0.013309078 3.17E-08 7.498714153 0.070301743 ETNLDS(ph)LPLVDTHSKR ddPTM_HeLa_SAHA_4h_R1 3 ETNLDSLPLVDTHSKR 16 1 P08670 P08670 VIM Vimentin 1 0 ETNLDS(1)LPLVDTHSKR;ET(0.01)NLDS(0.989)LPLVDT(0.001)HSKR;ET(0.01)NLDS(0.99)LPLVDTHSKR ;; 122.83 0.00029451 96472000 7636.32 6934.03 8662.69 7393.46 8060.36 8154.56 7930.36 7925.69 5643.46 8142.02 TRUE FALSE FALSE 8439.543174 7158.697122 9843.19628 7536.571109 7442.776958 7459.745612 7038.015021 7722.962326 5604.186702 8493.062328 0.993698486 0.842887623 1.158969038 0.887379701 0.876336081 0.878334024 0.828678132 0.909325992 0.659854654 1 13.05206912 -6.033611818 24.99799044 0.995247377 0.871796861 0 0.128787632 425.3750012 316362.0721 0.009924631 0.016465262 9.26E-07 6.033611818 -0.123450516 ETNLDSLPLVDTHSK ddPTM_HeLa_SAHA_4h_R1 1 ETNLDSLPLVDTHSK 15 0 P08670 P08670 VIM Vimentin 0 0 112.34 0.0019179 8994600 2374.6 2449.1 2251.9 2223.7 3074.4 2797.3 2815.3 2472.1 2811.8 2662.7 FALSE FALSE TRUE 2624.371323 2528.452447 2558.777205 2266.742929 2838.840136 2558.954303 2498.515035 2408.867262 2792.232455 2777.502028 0.944867473 0.91033325 0.921251246 0.816108469 1.022083911 0.921315008 0.899554711 0.867278309 1.00530348 1 11.43957225 -8.150376778 0.607934939 0.997490052 0.907296398 0.360027476 0.049077174 0.602464713 0.499642895 0.023315667 0.013436714 7.07E-09 8.150376778 -0.090193654 ETNLDSLPLVDTHSK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 ETNLDSLPLVDTHSKR 16 1 P08670 P08670 VIM Vimentin 0 1 ; ETNLDSLPLVDTHSK(1)R;ETNLDSLPLVDTHSK(1)R 172.42 3.70E-12 23031000 1826.41 4894.2 2370.53 2136.23 4962.9 3588.6 4320.9 3777.4 3078.7 1794.14 FALSE TRUE FALSE 2018.520184 5052.775291 2693.573483 2177.579821 4582.643674 3282.831091 3834.70096 3680.779578 3057.275076 1871.494156 1.078560773 2.699861646 1.439263636 1.163551494 2.448655081 1.754123079 2.049005041 1.966759857 1.633601188 1 10.86997483 -7.41787604 12.09007362 1.034629368 1.90066617 0.295931085 0.458591545 0.414462097 45.9326172 0.068038699 0.077766678 3.82E-08 7.41787604 0.866036802 ETNLDSLPLVDTHSKR ddPTM_HeLa_SAHA_4h_R1 2 ETNLDSLPLVDTHSKR 16 1 P08670 P08670 VIM Vimentin 0 0 ; ; 79.639 0.0050768 9354100 6610.2 5657.2 5876.2 6455 6920.3 6631.6 7780.2 6893.4 4674.2 6122.6 FALSE FALSE TRUE 7305.491165 5840.496992 6676.977934 6579.945859 6390.068109 6066.550372 6904.75142 6717.07681 4641.671862 6386.575249 1.143882422 0.914495917 1.0454708 1.030277669 1.000546907 0.949891003 1.081135217 1.051749419 0.726785747 1 12.64082679 -7.276200412 24.99282133 1.067944472 1.01261624 0 0.121695371 1270.834996 2151724.599 0.011696363 0.013401759 5.29E-08 7.276200412 -0.055328232 ETPAAQS(ph)PTRGPSDTK ddPTM_HeLa_SAHA_4h_R1 2 ETPAAQSPTRGPSDTK 16 1 A0A087WVP4;A0A087X1R1;P53814-5;P53814;P53814-6 A0A087WVP4 SMTN Smoothelin 1 0 ETPAAQS(0.999)PTRGPSDTK;ETPAAQS(0.999)PT(0.001)RGPSDTK ; 150.92 0.00023616 7260900 1213.54 1089.82 1083.12 1300.3 1535.53 1190.76 1484.73 1466.11 1141.07 881.79 TRUE FALSE FALSE 1341.185705 1125.130883 1230.721953 1325.469187 1417.878023 1089.300549 1317.664273 1428.609029 1133.129201 919.8082823 1.458114404 1.223223257 1.338020082 1.441027671 1.541492994 1.184269124 1.432542301 1.553159562 1.231918893 1 9.845189378 -9.478904344 0.656823793 0.923077677 1.400690511 0.358614065 0.134947908 0.613111891 0.348237908 0.178419238 0.024205217 3.32E-10 9.478904344 0.477612834 ETPAATEAPSS(ph)TPK ddPTM_HeLa_SAHA_4h_R1 4 ETPAATEAPSSTPK 14 0 P80723;P80723-2 P80723 BASP1 Brain acid soluble protein 1 1 0 ETPAATEAPS(0.002)S(0.943)T(0.055)PK;ETPAATEAPS(0.003)S(0.996)T(0.001)PK;ETPAATEAPS(0.001)S(0.5)T(0.5)PK;ETPAATEAPS(0.072)S(0.564)T(0.364)PK ;;; 262.37 4.86E-44 48903700 10572.04 12562.22 10886.95 10728.8 11976.6 11831.05 13970.2 12130.3 11148.02 10836.68 TRUE FALSE FALSE 11684.05567 12969.24417 12370.56685 10936.47144 11058.9555 10822.97798 12398.23633 11820.02449 11070.44002 11303.90231 1.033630277 1.147324509 1.094362505 0.967495219 0.978330774 0.957455017 1.096810286 1.045658762 0.979346753 1 13.46453328 -8.675943376 1.285140051 1.004714161 1.03877729 0.093642127 0.058636464 1.027908477 3.402475721 0.020176414 0.01166232 2.11E-09 8.675943376 0.034063129 ETPAATEAPSST(ph)PK ddPTM_HeLa_SAHA_4h_R1 5 ETPAATEAPSSTPK 14 0 P80723;P80723-2 P80723 BASP1 Brain acid soluble protein 1 1 0 ETPAATEAPSS(0.001)T(0.999)PK;ETPAATEAPSS(0.076)T(0.924)PK;ETPAATEAPSS(0.07)T(0.93)PK;ETPAATEAPSS(0.061)T(0.939)PK;ETPAATEAPSS(0.067)T(0.933)PK ;;;; 276.32 5.19E-56 991583000 20814.7 23757.1 21403.7 18307.8 21542.7 20841.2 24493.7 22388.9 19266.6 20137.8 TRUE FALSE FALSE 23004.08565 24526.84563 24320.48477 18662.17394 19892.10298 19065.41251 21737.60441 21816.22436 19132.52216 21006.03911 1.09511772 1.167609253 1.15778537 0.888419461 0.946970672 0.907615777 1.034826428 1.038569158 0.910810556 1 14.35851653 -6.255206184 24.99648282 1.064907093 0.963256524 0.281053258 0.082341621 510.9272305 2048928.343 0.011835059 0.019321321 5.56E-07 6.255206184 -0.101650569 ETPAATEAPSSTPK ddPTM_HeLa_SAHA_4h_R1 2 ETPAATEAPSSTPK 14 0 P80723;P80723-2 P80723 BASP1 Brain acid soluble protein 1 0 0 ; ; 248.21 6.54E-69 3823800 770.34 888.13 644.4 805.21 1119.09 819.49 949.34 578.58 992.94 845.94 FALSE FALSE TRUE 851.3678956 916.9059947 732.2154761 820.7960039 1033.345566 749.6648417 842.5177647 563.7807614 986.0300497 882.4126133 0.964818366 1.039089855 0.829788089 0.930172565 1.171045779 0.849562699 0.954788896 0.638908321 1.117425153 1 9.785309603 -3.814281518 1.485759305 0.979676512 1.84E-12 0.514702119 0.100778471 2.061457872 1.673514658 0.012148747 4.129233286 0.000153362 3.814281518 -0.979676512 ETPHS(ph)PGVEDAPIAK ddPTM_HeLa_SAHA_4h_R1 5 ETPHSPGVEDAPIAK 15 0 Q9UHB6;F8VQE1;Q9UHB6-2;F8VS07;Q9UHB6-3;Q9UHB6-4;Q9UHB6-5 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 ET(0.023)PHS(0.977)PGVEDAPIAK;ET(0.002)PHS(0.998)PGVEDAPIAK;ET(0.08)PHS(0.92)PGVEDAPIAK;ET(0.004)PHS(0.996)PGVEDAPIAK;ETPHS(1)PGVEDAPIAK ;;;; 164.82 3.48E-06 1760282000 30647.2 31157.6 28999.6 30795.2 35304.8 32515.3 35119.5 31619.4 29983.9 27282.1 TRUE FALSE FALSE 33870.81311 32167.12668 32951.51446 31391.28563 32599.75385 29744.81351 31167.76143 30810.62153 29775.2396 28458.36485 1.190188308 1.13032238 1.157885024 1.10306006 1.145524489 1.045204588 1.095205631 1.082656073 1.046273732 1 14.79656515 -3.015558792 14.49920883 1.099690105 0.523887228 0 0.055405255 0 0 0.00978902 0 0.000964809 3.015558792 -0.575802876 ETPPNGNLS(ph)PAPR ddPTM_HeLa_SAHA_4h_R1 4 ETPPNGNLSPAPR 13 0 P48634;P48634-2;P48634-3 P48634 PRRC2A Protein PRRC2A 1 0 ETPPNGNLS(1)PAPR;ETPPNGNLS(1)PAPR;ETPPNGNLS(1)PAPR;ETPPNGNLS(1)PAPR ;;; 159.41 6.33E-05 58479800 2415.33 2290.41 2257.54 2995.81 2442.5 2928.11 2484.12 2789.23 2402.55 2221.21 TRUE FALSE FALSE 2669.385491 2364.620787 2565.185794 3053.798235 2255.356178 2678.618555 2204.60028 2717.885535 2385.830459 2316.977233 1.152098283 1.020562806 1.107126025 1.318009599 0.973404548 1.156083243 0.951498464 1.173030747 1.029716833 1 11.17802815 -3.927423052 20.11025011 1.080928028 3.82674823 0.068218191 0.104276901 856.3496244 243859.4331 0.013866554 2915.468053 0.000118189 3.927423052 2.745820201 ETPS(ph)QENGPTAK ddPTM_HeLa_SAHA_4h_R1 2 ETPSQENGPTAK 12 0 O15355 O15355 PPM1G Protein phosphatase 1G 1 0 ET(0.017)PS(0.983)QENGPTAK;ET(0.001)PS(0.999)QENGPTAK ; 162.94 0.0001386 8216700 2585.5 2989.2 2289.1 2909.1 2991.2 4156.3 2971.8 2794.2 3352.6 3023.8 TRUE FALSE FALSE 2857.454753 3086.052041 2601.046627 2965.409837 2762.014902 3802.159857 2637.405243 2722.72841 3329.268984 3154.170816 0.905928981 0.978403587 0.824637212 0.940155118 0.87567068 1.205438792 0.836164367 0.863215269 1.055513217 1 11.62304508 -9.423051892 1.098824528 1.000815896 0.929386301 0.111302469 0.104736741 1.297708712 2.75047123 0.072465622 0.017413816 3.78E-10 9.423051892 -0.071429594 ETPSQENGPTAK ddPTM_HeLa_SAHA_4h_R1 1 ETPSQENGPTAK 12 0 O15355 O15355 PPM1G Protein phosphatase 1G 0 0 115.29 0.012249 1385500 332.64 493.29 329.77 421.69 363.74 462.31 492.01 426.75 449.07 457.73 FALSE FALSE TRUE 367.6286014 509.2729197 374.7093382 429.8524197 335.8703198 422.9185871 436.6477399 415.8343529 445.9448853 477.4649804 0.769959299 1.066618371 0.784789154 0.900280518 0.70344493 0.885758337 0.914512599 0.870921157 0.933984488 1 8.899251112 ETQS(ph)PEQVK ddPTM_HeLa_SAHA_4h_R1 6 ETQSPEQVK 9 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 ETQS(1)PEQVK;ET(0.082)QS(0.918)PEQVK;ETQS(1)PEQVK;ET(0.016)QS(0.984)PEQVK;ET(0.007)QS(0.993)PEQVK;ETQS(1)PEQVK ;;;;; 178.53 1.21E-05 1010897100 20417.8 25348.5 15776.6 22960.9 25845 32702.5 26132.2 21767.9 31299.8 27209.9 TRUE FALSE FALSE 22565.43788 26169.80803 17926.55289 23405.34142 23864.76168 29916.06302 23191.73608 21211.10864 31081.98214 28383.05195 0.795032117 0.922022342 0.631593562 0.824623845 0.840810274 1.054011495 0.817098039 0.747315992 1.095089499 1 14.79274211 -9.328524296 0.943810711 1.004708297 0.830449019 0.374438382 0.108236659 0.657109549 1.002342637 0.081051164 0.019213215 4.69E-10 9.328524296 -0.174259279 ETQS(ph)PEQVKSEK ddPTM_HeLa_SAHA_4h_R1 3 ETQSPEQVKSEK 12 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 ET(0.001)QS(0.991)PEQVKS(0.007)EK;ET(0.001)QS(0.999)PEQVKSEK;ETQS(0.993)PEQVKS(0.007)EK ;; 168 0.00042035 337458000 4332.3 2857.56 3869.14 3644.66 3328.46 3777.45 4008.8 4258.25 2477.42 3368.45 TRUE FALSE FALSE 4787.991191 2950.146819 4396.40625 3715.207665 3073.434114 3455.590009 3557.719273 4149.330131 2460.179433 3513.680364 1.362671244 0.8396173 1.251225437 1.057355046 0.874705094 0.983467376 1.012533556 1.180907112 0.700171665 1 11.77876724 -6.010591462 24.00576409 1.151061058 1.005181285 0 0.206484583 484.7395408 1098678.827 0.026231722 0.045443114 9.76E-07 6.010591462 -0.145879773 ETQST(ph)PQSAPQVR ddPTM_HeLa_SAHA_4h_R1 1 ETQSTPQSAPQVR 13 0 Q9UJF2-2;H0Y638;Q9UJF2 Q9UJF2-2 RASAL2 Ras GTPase-activating protein nGAP 1 0 ETQS(0.083)T(0.907)PQS(0.01)APQVR 148.57 0.00033759 2885200 902.91 827.38 787.57 822.09 1056.9 1211.6 936.61 1009.9 733.56 818.86 TRUE FALSE FALSE 997.8822165 854.1876549 894.8959381 838.0027407 975.9205503 1108.364864 831.2201778 984.0682203 728.4550962 854.165062 1.168254546 1.00002645 1.047685018 0.981078222 1.142543279 1.297600327 0.973137646 1.152082032 0.852827081 1 9.738371078 -9.623405086 1.435735887 0.999976134 1.102232915 0.223125425 0.107040832 0.701593478 2.596436735 0.068450848 0.015635646 2.38E-10 9.623405086 0.102256781 ETS(ph)PESSLIQDEIAVK ddPTM_HeLa_SAHA_4h_R1 3 ETSPESSLIQDEIAVK 16 0 A0A669KB77;P11137-3;P11137 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 ET(0.002)S(0.998)PESSLIQDEIAVK;ET(0.045)S(0.955)PESSLIQDEIAVK;ET(0.005)S(0.995)PESSLIQDEIAVK ;; 336.71 2.75E-138 71924500 3375.78 4217.52 3348.26 3750 3908.62 4499.54 3907.93 3827.52 4249.75 3461.41 TRUE FALSE FALSE 3730.860029 4354.170415 3804.543436 3822.586673 3609.14238 4116.153878 3468.199431 3729.617581 4220.175644 3610.648325 1.033293662 1.205924816 1.053700913 1.058698142 0.999582916 1.140004096 0.960547558 1.032949555 1.168813815 1 11.81804219 -7.508197816 15.00861555 1.014681408 1.064497227 0 0.081142006 2.199441125 2248.378933 0.011256134 0.012097887 3.10E-08 7.508197816 0.049815819 ETS(ph)PQVKGEEMPAGK ddPTM_HeLa_SAHA_4h_R1 1 ETSPQVKGEEMPAGK 15 1 A0A0C4DG22;Q9GZR2 A0A0C4DG22 REXO4 RNA exonuclease 4 1 0 ET(0.204)S(0.796)PQVKGEEMPAGK 61.821 0.023422 14037000 3429.3 3605.2 2900.1 3469.6 3207.7 3792.1 3644.2 3085 3246.2 3243.7 TRUE FALSE FALSE 3790.009508 3722.010845 3295.310525 3536.759125 2961.926719 3468.991746 3234.145025 3006.090167 3223.60943 3383.551781 1.120127533 1.100030703 0.973920524 1.045280035 0.875389801 1.025251561 0.955843219 0.888442194 0.952729451 1 11.72432275 -6.182118036 1.597018978 1.059666777 0.946008595 0.260724808 0.066358979 0.300615184 1.501050772 0.010490858 0.019889648 6.57E-07 6.182118036 -0.113658181 ETS(ph)PQVKGEEMPAGKDQEASR ddPTM_HeLa_SAHA_4h_R1 1 ETSPQVKGEEMPAGKDQEASR 21 2 A0A0C4DG22;Q9GZR2 A0A0C4DG22 REXO4 RNA exonuclease 4 1 0 ET(0.034)S(0.966)PQVKGEEMPAGKDQEASR 87.323 0.00053195 5726000 1012.6 827.69 1080.6 989.96 1022 1156.1 1149.9 1310.8 838.83 1200.7 TRUE FALSE FALSE 1119.109914 854.5076991 1227.85854 1009.122107 943.6945808 1057.593776 1020.510226 1277.271634 832.9925137 1252.468053 0.89352372 0.682259078 0.980351185 0.805706864 0.753467985 0.844407786 0.814799406 1.019803763 0.665080847 1 10.29055809 -8.31098863 0.945088517 0.985007268 0.842103305 0 0.138138262 0.441849473 0.82540398 0.029970142 0.019169239 4.89E-09 8.31098863 -0.142903963 ETS(ph)RSRGGGGAVS(ph)ER ddPTM_HeLa_SAHA_4h_R1 3 ETSRSRGGGGAVSER 15 2 Q8N7J2-2;Q8N7J2 Q8N7J2-2 AMER2 APC membrane recruitment protein 2 2 0 ETS(1)RS(0.001)RGGGGAVS(0.999)ER;ETS(1)RS(0.002)RGGGGAVS(0.998)ER;ETS(1)RSRGGGGAVS(1)ER ;; 115.57 0.0089906 652522000 3153.45 2883.84 4156.8 10726.3 2452.95 1985.79 4156.16 7135.7 5710.3 3200.31 TRUE FALSE FALSE 3485.14434 2977.278308 4723.267056 10933.92305 2265.005501 1816.58952 3688.497938 6953.179126 5670.561557 3338.291026 1.043990567 0.891857027 1.414875761 3.275305527 0.678492523 0.544167511 1.104906046 2.08285589 1.698642064 1 11.70489402 -6.69317421 6.793846533 1.012036436 1.499118389 0.037535798 0.756779454 0.425335221 34.099312 0.115841364 0.16373276 2.03E-07 6.69317421 0.487081953 ETSFGS(ph)SENITMTSLSK ddPTM_HeLa_SAHA_4h_R1 6 ETSFGSSENITMTSLSK 17 0 Q9UMZ2-6;Q9UMZ2-9;Q9UMZ2-4;Q9UMZ2-8;Q9UMZ2-3;Q9UMZ2-7;Q9UMZ2-5;Q9UMZ2;A0A087WZS7 Q9UMZ2-6 SYNRG Synergin gamma 1 0 ETS(0.001)FGS(0.815)S(0.178)ENIT(0.005)MT(0.001)SLSK;ET(0.001)S(0.004)FGS(0.496)S(0.496)ENIT(0.002)MTSLSK;ET(0.034)S(0.028)FGS(0.804)S(0.133)ENIT(0.001)MTSLSK;ETSFGS(0.965)S(0.034)ENITMTSLSK;ETSFGS(0.813)S(0.184)ENIT(0.003)MTSLSK;ETSFGS(0.991)S(0.009)ENITMTSLSK ;;;;; 287 7.83E-73 42782900 4880.21 5980.16 4899.29 5204.98 5170.76 6524.43 5933.26 5598.41 5684.19 5498.28 TRUE FALSE FALSE 5393.532879 6173.921108 5566.939727 5305.729914 4774.577486 5968.511859 5265.633969 5455.210779 5644.633259 5735.337759 0.940403705 1.076470361 0.970638515 0.925094587 0.832484099 1.040655688 0.918103552 0.951157719 0.984184977 1 12.48566273 -6.337576253 5.814364881 0.980780625 0.933075756 0.200064645 0.057901975 0.36273143 21.46102827 0.008991498 0.01383249 4.60E-07 6.337576253 -0.047704869 ETSFGSS(ph)ENITMTSLSK ddPTM_HeLa_SAHA_4h_R1 1 ETSFGSSENITMTSLSK 17 0 Q9UMZ2-6;Q9UMZ2-9;Q9UMZ2-4;Q9UMZ2-8;Q9UMZ2-3;Q9UMZ2-7;Q9UMZ2-5;Q9UMZ2;A0A087WZS7 Q9UMZ2-6 SYNRG Synergin gamma 1 0 ETSFGS(0.287)S(0.713)ENITMTSLSK 312.21 2.48E-102 17982000 715.87 721.25 596.66 721.49 778.49 708.69 683.86 963.61 675.5 796.28 TRUE FALSE FALSE 791.1684911 744.6189732 677.9697175 735.4554822 718.8422644 648.305625 606.910273 938.9622515 670.7991405 830.6115277 0.952513256 0.896470791 0.816229603 0.885438569 0.86543738 0.780516046 0.730678847 1.13044693 0.807596714 1 9.698030084 -7.322744271 1.626757686 0.982803485 0.85789189 0 0.114314932 0.368528839 1.858597948 0.017991785 0.020841948 4.76E-08 7.322744271 -0.124911596 ETSHGS(ph)PTVTK ddPTM_HeLa_SAHA_4h_R1 1 ETSHGSPTVTK 11 0 Q8NI08-2;Q8NI08;Q8NI08-7 Q8NI08-2 NCOA7 Nuclear receptor coactivator 7 1 0 ET(0.033)S(0.023)HGS(0.745)PT(0.099)VT(0.099)K 81.709 0.022453 3232600 1255.8 1261.8 1375.4 2209.7 1694.9 2500.7 1978 2263.2 1781.7 2551.4 TRUE FALSE FALSE 1387.890806 1302.683148 1562.832349 2252.471939 1565.037128 2287.626291 1755.430234 2205.310621 1769.301005 2661.40334 0.521488338 0.489472275 0.587221157 0.846347453 0.588049584 0.859556407 0.659588198 0.828626983 0.664800024 1 11.37797145 -9.45760693 1.219351858 0.998189203 0.657618988 0 0.16237308 0.323710064 0.868114597 0.090853735 0.023000911 3.49E-10 9.45760693 -0.340570215 ETTDTDTADQVIASFK ddPTM_HeLa_SAHA_4h_R1 5 ETTDTDTADQVIASFK 16 0 O43707;O43707-2;F5GXS2;O43707-3;H7C144 O43707 ACTN4 Alpha-actinin-4 0 0 ;;;; ;;;; 284.91 7.72E-101 52971500 10281.09 10128.31 10187.45 10654.13 10869.97 11764.27 11188.18 11251.89 12218.17 9992.2 FALSE FALSE TRUE 11362.50222 10456.47389 11575.74263 10860.35609 10037.11525 10761.88801 9929.256541 10964.08295 12133.14276 10423.01264 1.090136087 1.003210324 1.110594703 1.041959409 0.962976405 1.032512229 0.952628274 1.051911124 1.164072536 1 13.34748471 -5.887127357 9.487758281 1.046063265 0.999022196 0.208064126 0.056002672 0.368037352 29.34837975 0.006775542 0.012298153 1.30E-06 5.887127357 -0.047041069 ETTSGTSTEPVKNSS(ph)PAPPQPAPGK ddPTM_HeLa_SAHA_4h_R1 1 ETTSGTSTEPVKNSSPAPPQPAPGK 25 1 Q9NYV4-2;J3QSD7;Q9NYV4-3;Q9NYV4 Q9NYV4-2 CDK12 Cyclin-dependent kinase 12 1 0 ETTSGTSTEPVKNS(0.131)S(0.869)PAPPQPAPGK 123.6 5.54E-08 22893000 3396.2 3256 2702.9 3485.2 3494.4 4319.9 3477 3783.9 4775.8 3640.4 TRUE FALSE FALSE 3753.427898 3361.496536 3071.237136 3552.661086 3226.659827 3951.820217 3085.758809 3687.113317 4742.564819 3797.35546 0.988432065 0.885220405 0.808783157 0.935561899 0.849712349 1.040676929 0.812607311 0.970968706 1.248912531 1 11.89077934 -7.27842355 10.54176904 0.994554585 0.898379646 0.293424511 0.104685868 0.434196941 265.404056 0.010362283 0.011974603 5.27E-08 7.27842355 -0.096174939 ETVDQVEELRR ddPTM_HeLa_SAHA_4h_R1 1 ETVDQVEELRR 11 1 Q14204;A0A2R8Y706;A0A2R8YFZ7;A0A2R8Y6H2;A0A2R8Y5T0 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 124.6 0.0036832 5407300 1628.9 1816.8 1443.1 2073.3 2047.1 2353 1942 2209.6 2182.2 1940.2 FALSE FALSE TRUE 1800.235176 1875.665512 1639.758153 2113.43172 1890.25164 2152.511162 1723.481049 2153.081631 2167.013893 2023.851517 0.889509512 0.926780199 0.810216628 1.04426224 0.933987313 1.063571682 0.851584731 1.063853555 1.070737588 1 10.98288773 ETVNS(ph)PAIYK ddPTM_HeLa_SAHA_4h_R1 2 ETVNSPAIYK 10 0 Q9Y3A2 Q9Y3A2 UTP11L Probable U3 small nucleolar RNA-associated protein 11 1 0 ET(0.058)VNS(0.942)PAIYK;ET(0.004)VNS(0.996)PAIYK ; 162.49 0.00019144 22249000 4975.6 4324.7 4088.9 4417.6 5648.3 5326 5094.7 5871.8 4982 4318.5 TRUE FALSE FALSE 5498.956437 4464.823118 4646.113998 4503.109036 5215.528474 4872.194837 4521.430947 5721.607858 4947.329856 4504.691669 1.220717607 0.991149549 1.031394453 0.99964867 1.157799214 1.081582313 1.003715965 1.270144169 1.098261595 1 12.13721265 -4.244690359 23.85352738 1.083839362 1.270144448 0.381218836 0.075031697 1911.89238 2722785.8 0.013148491 0.450810185 5.69E-05 4.244690359 0.186305086 ETVQTTEDQILKR ddPTM_HeLa_SAHA_4h_R1 2 ETVQTTEDQILKR 13 1 P18206;P18206-2 P18206 VCL Vinculin 0 0 ; ; 123.95 0.0020302 7918500 1574.83 2098.57 1737.55 1938.32 2126.91 2306.33 2228.83 2368.1 1865.59 1736.13 FALSE FALSE TRUE 1740.477845 2166.565045 1974.334265 1975.838986 1963.946615 2109.817709 1978.036182 2307.527431 1852.607207 1810.983061 0.961067987 1.196347493 1.090200294 1.09103118 1.084464376 1.165012393 1.092244442 1.274184989 1.022984283 1 10.82255734 -7.270990976 24.99020402 0.981615435 1.134746469 0.561626305 0.059038538 307.4530918 804399.5943 0.009354058 0.010768475 5.36E-08 7.270990976 0.153131034 ETVQTTQS(ph)PTPVEK ddPTM_HeLa_SAHA_4h_R1 2 ETVQTTQSPTPVEK 14 0 A0A0A0MT33;Q9UPN6;Q9UPN6-2 A0A0A0MT33 SCAF8 Protein SCAF8 1 0 ETVQT(0.273)T(0.027)QS(0.637)PT(0.063)PVEK;ETVQTTQS(0.922)PT(0.078)PVEK ; 238.64 6.77E-33 12864200 3409.8 5215.9 2847.9 3534.9 4901.2 5672.8 4519.7 3634.8 8222 4616.9 TRUE FALSE FALSE 3768.458409 5384.898582 3235.996981 3603.323101 4525.671115 5189.445526 4011.131461 3541.827079 8164.782433 4815.957154 0.782494173 1.11813673 0.671932261 0.748204975 0.939724123 1.077552262 0.832883544 0.735435754 1.695360273 1 12.23360684 -9.568680958 1.308376659 1.000974435 0.858857091 0.153771538 0.261410162 0.790860431 2.399295628 0.100710168 0.02294238 2.70E-10 9.568680958 -0.142117344 ETVQTTQSPT(ph)PVEK ddPTM_HeLa_SAHA_4h_R1 1 ETVQTTQSPTPVEK 14 0 A0A0A0MT33;Q9UPN6;Q9UPN6-2 A0A0A0MT33 SCAF8 Protein SCAF8 1 0 ETVQT(0.043)T(0.019)QS(0.142)PT(0.795)PVEK 136.33 0.00056355 7925900 1092.2 1362.6 945.39 1642.7 1665.9 2012.9 1195.9 1209.6 2736.4 1430 TRUE FALSE FALSE 1207.082607 1406.749134 1074.222826 1674.496834 1538.259102 1841.389596 1061.334185 1178.660183 2717.35717 1491.654298 0.8092241 0.943079865 0.720155352 1.122577018 1.031243703 1.234461361 0.71151485 0.790169803 1.821707062 1 10.5426975 -6.245548308 24.97857309 0.897700431 0.980395541 0 0.331887977 2147.018996 3374819.089 0.025140582 0.041600591 5.68E-07 6.245548308 0.082695111 ETVSEAPPLLFS(ph)DEEEKEAQLGVK ddPTM_HeLa_SAHA_4h_R1 2 ETVSEAPPLLFSDEEEKEAQLGVK 24 1 A0A0A0MR88;A0A096LPC5;Q9Y4E1-6;Q9Y4E1;J3KP36;Q9Y4E1-3;Q9Y4E1-2;Q9Y4E1-1;E7ESD2;Q641Q2-2;Q641Q2;F8W7U3 A0A0A0MR88;E7ESD2 FAM21C;FAM21A WASH complex subunit FAM21C;WASH complex subunit FAM21A 1 0 ETVSEAPPLLFS(1)DEEEKEAQLGVK;ETVSEAPPLLFS(1)DEEEKEAQLGVK ; 169.1 3.47E-09 74227000 4911.2 5334.9 4958.8 4664.1 5812.9 6162.8 6126.5 4870.4 5969.3 4948.3 TRUE FALSE FALSE 5427.782549 5507.75426 5634.55944 4754.3804 5367.516858 5637.694769 5437.130096 4745.82222 5927.759155 5161.645429 1.05156052 1.067053973 1.091620786 0.921097829 1.039884845 1.092228214 1.053371482 0.919439796 1.148424323 1 12.33361533 ETVSEESNVLCLSK ddPTM_HeLa_SAHA_4h_R1 5 ETVSEESNVLCLSK 14 0 P13639 P13639 EEF2 Elongation factor 2 0 0 ;;;; ;;;; 302.58 2.87E-136 39359800 6528.69 6937.45 6350.1 7097.24 7276.59 7858.96 7506.27 7393.67 7125.46 6469.33 FALSE FALSE TRUE 7215.407569 7162.227932 7215.458558 7234.617343 6719.059246 7189.332395 6661.644744 7204.550627 7075.873344 6748.254476 1.069225767 1.061345264 1.069233323 1.072072396 0.995673662 1.065361779 0.98716561 1.067616915 1.048548683 1 12.72029866 -3.909315615 20.67825069 1.037372399 3.337430229 0.04807439 0.032207237 1660.592882 372189.15 0.004873262 3065.162618 0.000123221 3.909315615 2.300057831 ETVYCLNDDDETEVLKEDIIQGFR ddPTM_HeLa_SAHA_4h_R1 2 ETVYCLNDDDETEVLKEDIIQGFR 24 1 P13010 P13010 XRCC5 X-ray repair cross-complementing protein 5 0 0 ; ; 286.67 2.59E-84 179138000 2079.81 2194.09 1995.55 2498.14 2022.62 2764.65 2827.7 2238.66 2574.76 2450.06 FALSE FALSE TRUE 2298.573958 2265.179956 2267.493162 2546.495112 1867.647293 2529.086267 2509.519754 2181.398319 2556.842036 2555.694077 0.899393233 0.886326723 0.887231841 0.9964006 0.730778895 0.989588812 0.981932766 0.853544381 1.000449177 1 11.31949944 -9.157794287 0.814535404 1.002777179 0.904732023 0.21206395 0.074359474 0.877985077 1.008705505 0.053972315 0.013953666 6.95E-10 9.157794287 -0.098045156 ETYY(ph)LSDSPLLGPPVGEPR ddPTM_HeLa_SAHA_4h_R1 1 ETYYLSDSPLLGPPVGEPR 19 0 Q9NYZ3 Q9NYZ3 GTSE1 G2 and S phase-expressed protein 1 1 0 ET(0.008)Y(0.046)Y(0.414)LS(0.244)DS(0.288)PLLGPPVGEPR 156.81 2.54E-05 9131300 747.59 879.33 786.81 774.06 986.11 1048.2 1214 878.23 1099.1 890.57 TRUE FALSE FALSE 826.2249463 907.8208689 894.0323693 789.0430506 910.5544648 958.887463 1077.397525 855.7661483 1091.451274 928.966831 0.889401988 0.977237118 0.962394285 0.84937699 0.980179738 1.032208504 1.159780402 0.921202049 1.174908767 1 9.859483276 -5.327777118 3.701551621 0.943396333 1.051086006 0.009438466 0.09969082 0.21310599 5.761114953 0.009962826 0.024214771 4.70E-06 5.327777118 0.107689674 EVAATEEDVTRLPS(ph)PTS(ph)PFSSLSQDQAATSK ddPTM_HeLa_SAHA_4h_R1 1 EVAATEEDVTRLPSPTSPFSSLSQDQAATSK 31 1 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 2 0 EVAAT(0.002)EEDVT(0.001)RLPS(0.897)PT(0.288)S(0.8)PFS(0.009)S(0.002)LS(0.001)QDQAATSK 99.663 9.61E-08 3720600 1002.7 1133.4 885.58 731.08 1226.1 987.79 1197.8 1257.2 1345.1 1072.9 TRUE FALSE FALSE 1108.168587 1170.122904 1006.26223 745.2311106 1132.156483 903.6247348 1063.020392 1225.042644 1335.73934 1119.15797 0.990180669 1.045538642 0.899124393 0.665885541 1.011614547 0.807414824 0.949839451 1.094611018 1.193521715 1 10.12819797 -6.741879191 23.24160238 0.998996688 0.896373722 0.210869341 0.125127129 140.843729 167350.4796 0.016483633 0.023285115 1.81E-07 6.741879191 -0.102622966 EVAATEEDVTRLPS(ph)PTSPFSSLSQDQAATSK ddPTM_HeLa_SAHA_4h_R1 3 EVAATEEDVTRLPSPTSPFSSLSQDQAATSK 31 1 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 EVAATEEDVT(0.004)RLPS(0.945)PT(0.041)S(0.009)PFS(0.001)SLSQDQAATSK;EVAATEEDVT(0.006)RLPS(0.875)PT(0.058)S(0.058)PFS(0.001)S(0.001)LS(0.001)QDQAATSK;EVAATEEDVT(0.002)RLPS(0.729)PT(0.181)S(0.046)PFS(0.016)S(0.022)LS(0.004)QDQAATSK ;; 120.83 8.90E-12 342240000 4272.17 4780.6 3604.22 4227.75 4285.78 4857.9 4768.8 4688 4727.4 3831.65 TRUE FALSE FALSE 4721.536442 4935.494577 4095.384332 4309.584215 3957.404462 4443.97959 4232.202073 4568.087748 4694.501638 3996.851183 1.181314046 1.23484572 1.024652694 1.078244853 0.990130551 1.111870166 1.058884076 1.14292165 1.17455002 1 11.96464814 EVAATEEDVTRLPSPTS(ph)PFSSLSQDQAATSK ddPTM_HeLa_SAHA_4h_R1 1 EVAATEEDVTRLPSPTSPFSSLSQDQAATSK 31 1 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 EVAATEEDVT(0.004)RLPS(0.221)PT(0.289)S(0.38)PFS(0.084)S(0.019)LS(0.003)QDQAATSK 94.006 2.41E-08 115950000 1126.6 1281.5 1139.8 1194.8 1482.9 1664.7 1424.8 1316.7 1195.9 1471.1 TRUE FALSE FALSE 1245.100957 1323.021441 1295.126008 1217.927082 1369.280522 1522.858195 1264.477754 1283.020721 1187.577635 1534.52632 0.811391073 0.862169272 0.843990742 0.793682758 0.892314784 0.992396269 0.82401829 0.836102127 0.773905028 1 10.58357768 -9.397589238 1.081786068 1.001342414 0.855432838 0 0.086938283 0.355606506 0.733454236 0.03985742 0.009794177 4.00E-10 9.397589238 -0.145909577 EVADIFNAPS(ph)DDEEFVGFR ddPTM_HeLa_SAHA_4h_R1 2 EVADIFNAPSDDEEFVGFR 19 0 Q96GN5-5;Q96GN5-2;Q96GN5 Q96GN5-5 CDCA7L Cell division cycle-associated 7-like protein 1 0 EVADIFNAPS(1)DDEEFVGFR;EVADIFNAPS(1)DDEEFVGFR ; 208.4 2.23E-20 4386300 1015.54 1492.75 1120.47 1213.89 1529.42 1854.46 1223.16 1151.98 1875.2 1398.85 TRUE FALSE FALSE 1122.359157 1541.116079 1273.161816 1237.386596 1412.23617 1696.449575 1085.526818 1122.51402 1862.150331 1459.161269 0.769181022 1.056165697 0.872529886 0.848012226 0.967841047 1.162619657 0.743938892 0.769287154 1.276178562 1 10.51092363 EVAEAATGEDAS(ph)SPPPKTEAASDPQHPAASEGAAAAAASPPLLR ddPTM_HeLa_SAHA_4h_R1 1 EVAEAATGEDASSPPPKTEAASDPQHPAASEGAAAAAASPPLLR 44 1 Q99536-3;Q99536;K7ERT7 Q99536-3 VAT1 Synaptic vesicle membrane protein VAT-1 homolog 1 0 EVAEAAT(0.001)GEDAS(0.25)S(0.25)PPPKT(0.25)EAAS(0.25)DPQHPAASEGAAAAAASPPLLR 98.22 4.34E-15 9322100 421.19 859 473.28 443.42 986.43 1143.4 687.67 440.89 956.8 777.64 TRUE FALSE FALSE 465.4926967 886.8321636 537.7761337 452.0030353 910.8499465 1045.975887 610.2915618 429.6126722 950.1415509 811.1678661 0.573854952 1.093278224 0.662965283 0.557225026 1.122887117 1.289469087 0.75236161 0.5296224 1.171325432 1 9.663856692 -5.749085841 24.99972482 0.792209113 0.937489289 0 0.274961601 570.8200459 1155155.246 0.039840884 0.07923038 1.78E-06 5.749085841 0.145280176 EVAENQQNQS(ph)SDPEEEKGSQPPPAAESQSSLRR ddPTM_HeLa_SAHA_4h_R1 1 EVAENQQNQSSDPEEEKGSQPPPAAESQSSLRR 33 2 O43491;O43491-4;E9PHY5;E9PK52;A0A2R8Y5B3;E9PII3;E9PJP4;E9PQD2;E9PIG0;E9PRG1;E9PQN0;O43491-2;O43491-3 O43491 EPB41L2 Band 4.1-like protein 2 1 0 EVAENQQNQS(0.688)S(0.278)DPEEEKGS(0.033)QPPPAAESQSSLRR 79.873 1.28E-07 7371500 547.02 583.53 406.74 398.01 697.46 755.68 607.61 687.56 767.76 544.72 TRUE FALSE FALSE 604.5580734 602.4367549 462.168409 405.7140591 644.0207655 691.2918127 539.2401237 669.9732108 762.4170956 568.205545 1.063977778 1.060244414 0.813382434 0.714026927 1.133429216 1.216622785 0.949022987 1.179103613 1.341798056 1 9.1502691 EVAENQQNQSSDPEEEKGSQPPPAAES(ph)QSSLRR ddPTM_HeLa_SAHA_4h_R1 1 EVAENQQNQSSDPEEEKGSQPPPAAESQSSLRR 33 2 O43491;O43491-4;E9PHY5;E9PK52;A0A2R8Y5B3;E9PII3;E9PJP4;E9PQD2;E9PIG0;E9PRG1;E9PQN0;O43491-2;O43491-3 O43491 EPB41L2 Band 4.1-like protein 2 1 0 EVAENQQNQSSDPEEEKGS(0.001)QPPPAAES(0.333)QS(0.333)S(0.333)LRR 64.633 4.80E-05 12601000 1470.3 1416.7 1159.1 1658 1110.4 1871.8 1642.2 1344.6 1729.5 1206.6 TRUE FALSE FALSE 1624.9529 1462.60201 1317.056112 1690.092988 1025.321392 1712.31211 1457.415334 1310.207079 1717.464269 1258.622431 1.291056682 1.162065742 1.046426696 1.342811749 0.814637787 1.360465273 1.157944828 1.040985006 1.364558764 1 10.29762984 -9.643418419 1.492384 1.000518449 1.172322026 0 0.191517838 0.609154466 2.450712611 0.102346414 0.023496448 2.27E-10 9.643418419 0.171803577 EVAES(ph)PRPR ddPTM_HeLa_SAHA_4h_R1 1 EVAESPRPR 9 1 Q86UU1-3;Q86UU1-2;Q86UU1 Q86UU1-3 PHLDB1 Pleckstrin homology-like domain family B member 1 1 0 EVAES(1)PRPR 74.944 0.019604 20319000 2489.6 2967 2877.8 2526.8 2556 2458.9 2696.5 2586.8 3185 2993.7 TRUE FALSE FALSE 2751.467551 3063.132747 3269.971597 2575.709868 2360.159832 2249.387887 2393.082723 2520.633402 3162.835326 3122.773058 0.881097505 0.98090149 1.047137123 0.824814939 0.755789738 0.720317437 0.766332576 0.807177901 1.012829068 1 11.60861201 -6.052837377 5.201484319 0.952728599 0.762406266 0.813635561 0.049665114 0.08460064 5.055236318 0.008783019 0.014975782 8.85E-07 6.052837377 -0.190322333 EVDAT(ph)SPAPSTSSTVK ddPTM_HeLa_SAHA_4h_R1 3 EVDATSPAPSTSSTVK 16 0 H3BM18;X6RHM1;Q16666-3;Q16666-2;Q16666;Q16666-6 H3BM18 IFI16 Gamma-interferon-inducible protein 16 1 0 EVDAT(0.5)S(0.5)PAPSTSSTVK;EVDAT(0.5)S(0.5)PAPSTSSTVK;EVDAT(0.356)S(0.317)PAPS(0.04)T(0.084)S(0.15)S(0.04)T(0.013)VK ;; 252.12 2.46E-46 73855900 7504.3 7533.67 5564.46 7062.79 8700.82 9714.18 8778.75 9488.17 9215.25 7189.66 TRUE FALSE FALSE 8293.636705 7777.765851 6322.75563 7199.500513 8034.165051 8886.477214 7790.941946 9245.47635 9151.120325 7499.641428 1.105871099 1.037085029 0.843074391 0.959979298 1.071273224 1.184920279 1.038841926 1.232789119 1.220207714 1 12.8726059 -5.495430603 7.392847678 1.02673109 1.1391516 0.227227996 0.101801285 0.236993427 50.15174143 0.0129462 0.028312111 3.20E-06 5.495430603 0.11242051 EVDATS(ph)PAPSTSSTVK ddPTM_HeLa_SAHA_4h_R1 2 EVDATSPAPSTSSTVK 16 0 H3BM18;X6RHM1;Q16666-3;Q16666-2;Q16666;Q16666-6 H3BM18 IFI16 Gamma-interferon-inducible protein 16 1 0 EVDAT(0.207)S(0.793)PAPSTSSTVK;EVDAT(0.065)S(0.935)PAPSTSSTVK ; 230.38 1.46E-27 22720000 3509.8 3647.8 2271.9 3284.3 4375.7 4867.9 4563.8 3601.2 4075.1 3101.7 TRUE FALSE FALSE 3878.976868 3765.991113 2581.5027 3347.872376 4040.434811 4453.127534 4050.269213 3509.086518 4046.741047 3235.429466 1.19890633 1.163984921 0.797885637 1.034753627 1.248809425 1.376363658 1.251849022 1.084581369 1.250758544 1 11.65974151 -5.75307898 24.42763877 1.073584522 1.250930287 0.265664207 0.134763372 144.1927652 421301.4898 0.020053394 0.039560482 1.77E-06 5.75307898 0.177345765 EVDDLEQWIAER ddPTM_HeLa_SAHA_4h_R1 4 EVDDLEQWIAER 12 0 A0A087WUZ3;Q01082;Q01082-2;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 0 0 ;;; ;;; 202.05 1.32E-09 25616800 3023.27 3716.45 3634.45 3651.2 3784.6 4048.15 4121.5 3427.41 3698.5 3577.11 FALSE FALSE TRUE 3341.27141 3836.865418 4129.733919 3721.874256 3494.624766 3703.224846 3657.737973 3339.741815 3672.761837 3731.336718 0.895462313 1.028281741 1.106770638 0.997464056 0.936561085 0.992466005 0.980275502 0.895052381 0.984301904 1 11.86547684 -3.094892538 11.23095108 0.968293045 0.626502924 0 0.06106602 0 0 0.009120349 0 0.000803725 3.094892538 -0.341790121 EVDDLGPEVGDIK ddPTM_HeLa_SAHA_4h_R1 2 EVDDLGPEVGDIK 13 0 O43143 O43143 DHX15 Pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15 0 0 ; ; 146.16 0.0013572 4798700 3469.1 3221.4 2864.9 3573.6 3093.1 4007 3251.1 3183.1 3936 3333.4 FALSE FALSE TRUE 3833.995855 3325.775474 3255.313652 3642.772196 2856.107346 3665.581057 2885.277672 3101.680911 3908.609056 3477.119187 1.10263573 0.956474396 0.936209971 1.047640877 0.821400473 1.054200578 0.829789695 0.892026055 1.124094069 1 11.7636768 -6.265773618 0.820273252 1.045328719 0.899754054 0.369150924 0.081031966 0.504226249 0.668474931 0.015174018 0.035242989 5.42E-07 6.265773618 -0.145574665 EVDEDS(ph)EPER ddPTM_HeLa_SAHA_4h_R1 3 EVDEDSEPER 10 0 F8WC91;B9A018;Q53GS9-3;Q53GS9 F8WC91 USP39 U4/U6.U5 tri-snRNP-associated protein 2 1 0 EVDEDS(1)EPER;EVDEDS(1)EPER;EVDEDS(1)EPER ;; 166.11 0.0001457 53781800 4105.62 5086.22 3010.22 4655.65 4674 5830.82 4592.17 4118.33 6555.04 4448.03 TRUE FALSE FALSE 4537.467949 5251.016865 3420.437105 4745.766838 4315.87913 5334.001333 4075.446946 4012.989082 6509.422943 4639.806341 0.977943391 1.131731904 0.737193937 1.022837267 0.930185187 1.149617234 0.878365743 0.864904435 1.40295143 1 12.17984888 -4.564474394 24.99939324 0.989096733 0.868268119 0.075944251 0.169028382 150.1879707 90264.12839 0.013250794 0.049580014 2.73E-05 4.564474394 -0.120828615 EVDEDS(ph)EPEREVR ddPTM_HeLa_SAHA_4h_R1 3 EVDEDSEPEREVR 13 1 F8WC91;B9A018;Q53GS9-3;Q53GS9 F8WC91 USP39 U4/U6.U5 tri-snRNP-associated protein 2 1 0 EVDEDS(1)EPEREVR;EVDEDS(1)EPEREVR;EVDEDS(1)EPEREVR ;; 80.719 0.011085 107926000 7683.4 6364.7 6759.7 8354.4 7323 8073.8 8066 8852.6 6770.6 7069.8 TRUE FALSE FALSE 8491.575265 6570.920456 7680.876713 8516.111493 6761.913322 7385.866818 7158.392451 8626.16331 6723.482843 7374.613677 1.151460353 0.891018939 1.041529367 1.154787473 0.916917634 1.00152593 0.970680332 1.169710535 0.911706448 1 12.84835176 EVDEQMLNVQNK ddPTM_HeLa_SAHA_4h_R1 10 EVDEQMLNVQNK 12 0 P68371;P07437;Q5JP53;Q5ST81;Q9BVA1;Q13885 P68371;P07437;Q9BVA1 TUBB4B;TUBB;TUBB2B;TUBB2A Tubulin beta-4B chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain 0 0 ;;;;;;;;; ;;;;;;;;; 289.67 2.53E-83 390656500 16110.48 15337.86 14720.6 15006.82 16763.25 17468.32 17334.7 15342.6 16676.16 15663.68 FALSE FALSE TRUE 17805.0542 15834.81673 16726.64671 15297.2987 15478.85341 15979.92086 15384.15393 14950.15851 16560.10924 16339.0179 1.089726097 0.96914128 1.023724119 0.936243463 0.94735519 0.978022116 0.94155928 0.914997376 1.013531495 1 13.99603365 -6.552653674 1.473298246 1.040361294 0.94487158 0.521569578 0.03406913 0.232961923 1.014301496 0.00704027 0.011426613 2.80E-07 6.552653674 -0.095489714 EVDGLLTSEPMGS(ph)PVSSK ddPTM_HeLa_SAHA_4h_R1 14 EVDGLLTSEPMGSPVSSK 18 0 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 EVDGLLTS(0.001)EPMGS(0.999)PVSSK;EVDGLLTSEPMGS(0.998)PVS(0.001)SK;EVDGLLTSEPMGS(1)PVSSK;EVDGLLTS(0.003)EPMGS(0.997)PVSSK;EVDGLLTS(0.003)EPMGS(0.963)PVS(0.027)S(0.007)K;EVDGLLTS(0.002)EPMGS(0.998)PVS(0.001)SK;EVDGLLTSEPMGS(0.989)PVS(0.008)S(0.003)K;EVDGLLTS(0.001)EPMGS(0.999)PVSSK;EVDGLLTSEPMGS(1)PVSSK;EVDGLLTSEPMGS(1)PVSSK;EVDGLLTS(0.001)EPMGS(0.706)PVS(0.235)S(0.058)K;EVDGLLTSEPMGS(1)PVSSK;EVDGLLTS(0.004)EPMGS(0.996)PVSSK;EVDGLLTSEPMGS(1)PVSSK ;;;;;;;;;;;;; 320.27 2.14E-120 581536400 24643.68 29015.92 23800 26090.42 27607.62 29704.68 28750.53 25290.96 32259.7 25045.2 TRUE FALSE FALSE 27235.81533 29956.05485 27043.34005 26595.43781 25492.33012 27173.67415 25515.4447 24644.05386 32035.20212 26125.02114 1.042518404 1.14664232 1.035150935 1.018006365 0.975782181 1.040139796 0.976666949 0.943312303 1.22622684 1 14.67314458 -5.930204593 4.186142428 1.032944301 0.987577909 0.139813449 0.075146296 0.31544267 10.95775549 0.007256902 0.013425625 1.17E-06 5.930204593 -0.045366392 EVDIGIPDATGR ddPTM_HeLa_SAHA_4h_R1 3 EVDIGIPDATGR 12 0 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 ;; ;; 181.87 8.22E-05 15318900 4725.5 4878.1 4269.96 4618.7 5076.6 5486 4811.3 5056.11 5614.2 4389.52 FALSE FALSE TRUE 5222.549771 5036.153641 4851.847912 4708.101617 4687.632005 5018.561937 4269.919861 4926.782027 5575.130325 4578.773689 1.14060011 1.099891365 1.059639161 1.028245102 1.023774557 1.096049352 0.932546606 1.076004704 1.217603381 1 12.16074554 -6.34874058 4.147576499 1.07106078 1.02895897 0.139668358 0.069469344 0.471684577 14.84947385 0.010028729 0.015651788 4.48E-07 6.34874058 -0.042101811 EVDPLVYNMSHEDPGNVSYSEIGGLSEQIR ddPTM_HeLa_SAHA_4h_R1 1 EVDPLVYNMSHEDPGNVSYSEIGGLSEQIR 30 0 A0A087X2I1;P62333;H0YJS8;H0YJC0 A0A087X2I1 PSMC6 26S protease regulatory subunit 10B 0 0 96.793 4.97E-08 3533000 431.88 368.11 327.64 532.93 324.21 430.22 544.71 390.23 517.09 348.6 FALSE FALSE TRUE 477.3071199 380.0370055 372.2890729 543.2456308 299.3690998 393.5628356 483.4177972 380.2484816 513.4915286 363.629852 1.312618085 1.04512048 1.023813284 1.493952237 0.823279767 1.082317179 1.329422748 1.04570205 1.412126991 1 8.506326831 EVDSKPVSQK(ac)PPPPSEK ddPTM_HeLa_SAHA_4h_R1 1 EVDSKPVSQKPPPPSEK 17 2 O95817;C9JFK9 O95817 BAG3 BAG family molecular chaperone regulator 3 0 1 EVDSK(0.003)PVSQK(0.997)PPPPSEK 78.244 0.0087339 1537800 137.65 353.38 178.7 206.46 198.51 414.82 173.99 124.91 289.35 242.82 FALSE TRUE FALSE 152.1286586 364.8297439 203.0523054 210.4563318 183.3002067 379.4750023 154.4121873 121.7149831 287.3363898 253.2891585 0.600612594 1.440368573 0.801662047 0.830893565 0.723679639 1.498188886 0.609628095 0.480537674 1.134420405 1 7.984641517 -4.541327951 24.9994582 0.889652165 0.512809504 0.21623244 0.29479157 246.8705938 334520.1481 0.040423581 0.151301088 2.88E-05 4.541327951 -0.376842661 EVDYSDS(ph)LTEK ddPTM_HeLa_SAHA_4h_R1 1 EVDYSDSLTEK 11 0 P51532;P51532-4;P51532-3;P51532-2;P51532-5;A0A0A0MT49;Q9HBD4;A0A2R8Y4P4;A0A2R8Y7S2;A0A2R8YGG3;A0A2R8Y440;A0A2R8Y4C5;A0A2R8Y6N0;A0A2R8YG32;A0A2R8Y7F3;K7EP28;A0A2R8YF58;A0A2R8Y7Y7;A0A2R8Y526;A0A2R8YF80;A0A2R8Y6V2;A0A2R8YDA1;A0A2R8Y523;A0A2R8Y5K3;K7EQF0;A0A2R8YFK5 P51532 SMARCA4 Transcription activator BRG1 1 0 EVDYS(0.003)DS(0.985)LT(0.013)EK 234.63 8.92E-23 11578000 2103.9 1834.5 1760.2 2241.4 2573.7 2530.7 1932.5 2103.4 2114.9 1891.4 TRUE FALSE FALSE 2325.197855 1893.939004 2000.070889 2284.785538 2376.503662 2315.070123 1715.050014 2049.598074 2100.182239 1972.94751 1.17854015 0.959954076 1.013747643 1.158056931 1.204544799 1.17340685 0.869283144 1.038850787 1.064489667 1 10.94613686 -4.761967357 24.99999898 1.090699232 0.954066976 0.285292068 0.088521312 14.78766503 700388.3889 0.01398619 0.046107515 1.73E-05 4.761967357 -0.136632256 EVDYSDSLT(ph)EK ddPTM_HeLa_SAHA_4h_R1 1 EVDYSDSLTEK 11 0 P51532;P51532-4;P51532-3;P51532-2;P51532-5;A0A0A0MT49;Q9HBD4;A0A2R8Y4P4;A0A2R8Y7S2;A0A2R8YGG3;A0A2R8Y440;A0A2R8Y4C5;A0A2R8Y6N0;A0A2R8YG32;A0A2R8Y7F3;K7EP28;A0A2R8YF58;A0A2R8Y7Y7;A0A2R8Y526;A0A2R8YF80;A0A2R8Y6V2;A0A2R8YDA1;A0A2R8Y523;A0A2R8Y5K3;K7EQF0;A0A2R8YFK5 P51532 SMARCA4 Transcription activator BRG1 1 0 EVDYS(0.026)DS(0.206)LT(0.768)EK 225.15 5.70E-22 15435000 1523.6 1794.6 1351.2 1434.7 1654.2 1865.1 1519.1 1877.3 1878.8 1332 TRUE FALSE FALSE 1683.859239 1852.746217 1535.334499 1462.470693 1527.455553 1706.182987 1348.16687 1829.281384 1865.725278 1389.429039 1.211907331 1.333458684 1.105011092 1.052569547 1.099340456 1.227974182 0.970302788 1.316570572 1.342799975 1 10.44027644 -9.379812986 1.155269788 1.001748357 1.161851848 0 0.150898934 0.544776266 1.322242666 0.067905133 0.018267793 4.17E-10 9.379812986 0.160103491 EVEDKES(ph)EGEEEDEDEDLSK ddPTM_HeLa_SAHA_4h_R1 10 EVEDKESEGEEEDEDEDLSK 20 1 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 EVEDKES(1)EGEEEDEDEDLSK;EVEDKES(1)EGEEEDEDEDLSK;EVEDKES(1)EGEEEDEDEDLSK;EVEDKES(0.932)EGEEEDEDEDLS(0.068)K;EVEDKES(0.993)EGEEEDEDEDLS(0.007)K;EVEDKES(1)EGEEEDEDEDLSK;EVEDKES(1)EGEEEDEDEDLSK;EVEDKES(1)EGEEEDEDEDLSK;EVEDKES(1)EGEEEDEDEDLSK;EVEDKES(1)EGEEEDEDEDLSK ;;;;;;;;; 110.6 0.00027614 2349244300 14619.55 19161.22 15030.17 17342.69 17179.03 19617.49 17118.91 15947.44 21212.22 17101.21 TRUE FALSE FALSE 16157.30135 19782.0561 17078.40329 17678.38284 15862.77643 17945.96949 15192.64519 15539.52758 21064.60243 17838.52685 0.90575312 1.108951219 0.957388658 0.991022576 0.889242512 1.006023066 0.851676 0.871121685 1.180848767 1 14.12270886 -4.751178496 24.99938812 0.966215093 0.861398786 0.208491115 0.089235717 184.3121001 449044.521 0.008344737 0.03052623 1.77E-05 4.751178496 -0.104816308 EVEEDEYK ddPTM_HeLa_SAHA_4h_R1 2 EVEEDEYK 8 0 P14625 P14625 HSP90B1 Endoplasmin 0 0 ; ; 164.53 6.23E-05 47781000 4425.3 5202.4 3849.1 4514.2 4852 5682.9 5155.5 4474.9 6491.9 4506.5 FALSE FALSE TRUE 4890.773358 5370.961173 4373.635303 4601.578869 4480.240808 5198.684949 4575.389571 4360.438538 6446.722339 4700.797269 1.040413589 1.142563881 0.930402877 0.978893282 0.953081052 1.105915582 0.973322037 0.927595531 1.371410416 1 12.19868975 EVEEDEYKAFYK ddPTM_HeLa_SAHA_4h_R1 2 EVEEDEYKAFYK 12 1 P14625 P14625 HSP90B1 Endoplasmin 0 0 ; ; 123.62 0.002063 20890000 1538.62 1476.53 1958.87 2021.61 2190.5 1529.8 2070.54 1931.19 1179.52 1703.35 FALSE FALSE TRUE 1700.459111 1524.370541 2225.814602 2060.741185 2022.664363 1399.452434 1837.55739 1881.792956 1171.311624 1776.789754 0.957040138 0.857935238 1.252716928 1.159811497 1.138381375 0.787629729 1.034200802 1.059097145 0.659229164 1 10.79505726 -6.800448889 24.99995665 0.970013278 1.064343506 0.195492515 0.154208589 261.0040942 167268.2835 0.019895165 0.026147582 1.58E-07 6.800448889 0.094330229 EVEEELATSGGQS(ph)PTGEQIPQFQQR ddPTM_HeLa_SAHA_4h_R1 1 EVEEELATSGGQSPTGEQIPQFQQR 25 0 H3BPE1;H3BQK9;H0Y390;A0A590UJG2;Q9UPN3-4;Q9UPN3-3;Q9UPN3-2;Q9UPN3;Q9UPN3-5 H3BPE1 MACF1 "Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5" 1 0 EVEEELAT(0.001)S(0.003)GGQS(0.946)PT(0.05)GEQIPQFQQR 141.5 2.57E-09 3344100 441.27 527.85 411.87 462.02 458.29 575.34 562.16 535.77 415.7 626.85 TRUE FALSE FALSE 487.6848032 544.9526863 467.9974987 470.9630652 423.1759192 526.3177952 498.9042773 522.0657792 412.8071099 653.8765712 0.745836179 0.833418278 0.715727584 0.720262946 0.647180122 0.804919183 0.762994576 0.798416402 0.631322681 1 9.352874521 -9.252260796 0.592912804 1.038609217 0.745652789 0 0.125287234 0.422939172 0.215247397 0.067858157 0.01176873 5.59E-10 9.252260796 -0.292956427 EVEELILTESK ddPTM_HeLa_SAHA_4h_R1 2 EVEELILTESK 11 0 H0YER7;G3V1C3;Q9BZZ5-1;Q9BZZ5-5;Q9BZZ5-2;Q9BZZ5-6;Q9BZZ5;Q9BZZ5-3 H0YER7 API5 Apoptosis inhibitor 5 0 0 ; ; 218.49 8.30E-15 5829900 3624.7 3136.9 2713.7 3816.9 3256.8 4139.1 3438.4 3381.4 4503.8 3427 FALSE FALSE TRUE 4005.962577 3238.537618 3083.508904 3890.781619 3007.264688 3786.425394 3051.502183 3294.908684 4472.457689 3574.754741 1.120625852 0.9059468 0.862579149 1.088405192 0.841250633 1.059212636 0.853625606 0.921716012 1.251122948 1 11.80362855 -7.251192751 24.87372689 1.056962208 0.934741586 0.373156925 0.10277562 576.3037114 1398979.02 0.013785941 0.016784472 5.61E-08 7.251192751 -0.122220622 EVEKQEDTENHPKT(ph)PESAPENK ddPTM_HeLa_SAHA_4h_R1 1 EVEKQEDTENHPKTPESAPENK 22 2 Q96T58 Q96T58 SPEN Msx2-interacting protein 1 0 EVEKQEDT(0.002)ENHPKT(0.803)PES(0.195)APENK 74.776 0.0031417 5093900 1024.3 878.51 919.99 1247 1252.8 1251.8 1233.1 1048.4 1339.3 997.83 TRUE FALSE FALSE 1132.040574 906.9743004 1045.361446 1271.137488 1156.810735 1145.139598 1094.348343 1021.583446 1329.979702 1040.851335 1.087610244 0.871377372 1.004333099 1.221247882 1.111408225 1.100195157 1.051397357 0.981488338 1.277780657 1 10.02354831 EVELVS(ph)E ddPTM_HeLa_SAHA_4h_R1 3 EVELVSE 7 0 O60832 O60832 DKC1 H/ACA ribonucleoprotein complex subunit 4 1 0 EVELVS(1)E;EVELVS(1)E;EVELVS(1)E ;; 113.41 0.0064299 45145000 16393.5 17891.3 14646.1 18503.8 17993 19895.6 20055.3 19021.9 19187.3 16548.3 TRUE FALSE FALSE 18117.84355 18470.98986 16641.99423 18861.96781 16614.38023 18200.38295 17798.62486 18535.34734 19053.77402 17261.7782 1.049593115 1.070051396 0.964095011 1.092701319 0.962495291 1.054374743 1.031100311 1.073779719 1.103812933 1 14.07529347 EVESRLS(ph)PGESAYQK ddPTM_HeLa_SAHA_4h_R1 1 EVESRLSPGESAYQK 15 1 A0A0G2JHC2;Q6NYC8;Q6NYC8-2 A0A0G2JHC2 PPP1R18 Phostensin 1 0 EVES(0.075)RLS(0.923)PGES(0.002)AYQK 74.812 0.012095 43585000 1798.1 1626.1 1907.4 1835.2 1957 1663.8 2117.4 2321.3 1717.4 1655 TRUE FALSE FALSE 1987.232408 1678.786707 2167.330539 1870.72295 1807.055083 1522.03488 1879.144579 2261.924507 1705.448474 1726.355149 1.151114479 0.972445738 1.255437237 1.083625783 1.046745847 0.881646445 1.088504054 1.310231274 0.987889702 1 10.75351357 -9.5663924 1.32887256 0.999755956 1.097854419 0.111129446 0.117672384 0.940507307 2.96469315 0.082992188 0.019286944 2.71E-10 9.5663924 0.098098462 EVFEDAAEIR ddPTM_HeLa_SAHA_4h_R1 6 EVFEDAAEIR 10 0 P19338;H7BY16 P19338 NCL Nucleolin 0 0 ;;;;; ;;;;; 160.82 0.0012749 96951800 11413 11464.6 10439.8 12365.6 11767.5 13668.8 13268.5 11809.3 13964.7 10745.2 FALSE FALSE TRUE 12613.4717 11836.06056 11862.48158 12604.95407 10865.87669 12504.14134 11775.49346 11507.23521 13867.51852 11208.47816 1.125350964 1.055991759 1.058348993 1.124591036 0.969433721 1.115596709 1.050588072 1.026654559 1.237234736 1 13.45230279 EVFEFRPELVNDDDEEADDTR ddPTM_HeLa_SAHA_4h_R1 2 EVFEFRPELVNDDDEEADDTR 21 1 Q8WU90;Q8WU90-2 Q8WU90 ZC3H15 Zinc finger CCCH domain-containing protein 15 0 0 ; ; 229.93 5.57E-34 15242600 892.22 1252.23 1011.98 1291.18 1122.05 1401.08 1335.14 838.61 1676.98 1066.17 FALSE FALSE TRUE 986.0677933 1292.803074 1149.887364 1316.172656 1036.078771 1281.700102 1184.906533 817.1595705 1665.30976 1112.137806 0.886641734 1.162448634 1.033943238 1.183461841 0.931610063 1.152465184 1.065431394 0.734764672 1.497395152 1 10.11911985 -7.285217236 24.8355549 0.946469711 1.044587973 0 0.215425291 1151.085734 1202285.766 0.020992096 0.024012671 5.19E-08 7.285217236 0.098118263 EVFLVMPTGGGK ddPTM_HeLa_SAHA_4h_R1 1 EVFLVMPTGGGK 12 0 P46063;F5H2L2;F8WA66;F8WD97 P46063 RECQL ATP-dependent DNA helicase Q1 0 0 153.12 1.11E-05 291870 185.37 324.66 244.09 235.35 262.67 379.21 319.54 271.55 322.38 219.41 FALSE FALSE TRUE 204.8680671 335.179197 277.353314 239.9055396 242.5442813 346.8991746 283.5845182 264.6041442 320.1365313 228.8698389 0.895129162 1.46449702 1.211838639 1.04821824 1.059747683 1.515705068 1.239064613 1.156133746 1.398771166 1 7.838383543 -7.285729685 24.85350803 0.950477648 1.236930372 0 0.202522388 474.2453136 485239.9284 0.025218899 0.028846493 5.18E-08 7.285729685 0.286452723 EVGSIIGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EVGSIIGKK 9 1 Q15366-2;Q15366;Q15366-3;Q15366-6;Q15366-5;H3BRU6;F8VZX2;Q15366-8;Q15366-4;Q15366-7;F8W0G4;P57721-3;P57721-5;P57721-2;F8W1G6;E9PFP8;P57721-4;J3QT27;P57721;F8VTZ0;C9JSA6;F8WC71;C9JZY3;C9J5V4;H3BSP4;C9IZV9;C9K0A2;C9J0A4;C9J7A9;P57723-2;C9JTY5;P57723;Q15365 Q15366-2;Q15365 PCBP2;PCBP3;PCBP4;PCBP1 Poly(rC)-binding protein 2;Poly(rC)-binding protein 3;Poly(rC)-binding protein 4;Poly(rC)-binding protein 1 0 1 ; EVGSIIGK(1)K;EVGSIIGK(1)K 122.13 0.0012159 3625800 1670.14 2271.8 1934.04 2429.8 3026.4 2727 2614.7 2681.6 2394.3 2033.57 FALSE TRUE FALSE 1845.812988 2345.407811 2197.600899 2476.832293 2794.517886 2494.644258 2320.487074 2613.008555 2377.637871 2121.247155 0.870154609 1.105673992 1.035994742 1.167630225 1.317393817 1.176027156 1.093925839 1.231826546 1.120867913 1 11.05069701 -6.67618575 1.473330448 0.941534954 1.195922914 0.395826897 0.092295773 0.171831764 0.754828484 0.014245266 0.021826718 2.11E-07 6.67618575 0.25438796 EVIEIEDAS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 1 EVIEIEDASPTK 12 0 P46100-5;P46100-3;P46100-4;P46100;P46100-2 P46100-5 ATRX Transcriptional regulator ATRX 1 0 EVIEIEDAS(0.718)PT(0.282)K 174.72 4.99E-05 2337800 1221.2 1607.2 1136.5 2051 1781.4 1790.7 1618.5 1525 2435.7 1451.5 TRUE FALSE FALSE 1349.651419 1659.274335 1291.376301 2090.700071 1644.909517 1638.122286 1436.38212 1485.992708 2418.749765 1514.081268 0.891399588 1.09589516 0.852910823 1.380837419 1.086407679 1.08192494 0.948682313 0.981448446 1.597503262 1 10.56422693 EVIEIEDAS(ph)PTKCPITTK ddPTM_HeLa_SAHA_4h_R1 2 EVIEIEDASPTKCPITTK 18 1 P46100-5;P46100-3;P46100-4;P46100;P46100-2 P46100-5 ATRX Transcriptional regulator ATRX 1 0 EVIEIEDAS(0.991)PT(0.009)KCPITTK;EVIEIEDAS(0.973)PT(0.027)KCPITTK ; 92.098 0.0016925 248120000 9255.8 10196.1 10380.3 10322 10241 11881.3 11525.1 11034.8 10756.2 10202.1 TRUE FALSE FALSE 10229.36751 10526.46033 11794.87323 10521.79724 9456.336792 10868.9464 10228.26542 10752.54579 10681.34673 10641.96246 0.96122943 0.989146539 1.108336293 0.988708359 0.888589565 1.021329143 0.961125869 1.010391254 1.003700847 1 13.3774766 -3.830576517 12.97776331 0.986152334 4.84118859 0.003012762 0.052390365 340172.4856 104723.8142 0.007072677 38784538.14 0.000147715 3.830576517 3.855036257 EVIEIEDASPT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 EVIEIEDASPTK 12 0 P46100-5;P46100-3;P46100-4;P46100;P46100-2 P46100-5 ATRX Transcriptional regulator ATRX 1 0 EVIEIEDAS(0.077)PT(0.923)K 152.4 0.00054895 3051100 2326.4 3279.7 2351 3737.8 2505.6 3973.9 3193.6 3143 3970.8 3111.8 TRUE FALSE FALSE 2571.101426 3385.964432 2671.382037 3810.150524 2313.621469 3635.301363 2834.247723 3062.606611 3943.166879 3245.964927 0.792091561 1.04313032 0.82298549 1.173811366 0.712768475 1.119944745 0.873160304 0.943511923 1.214790353 1 11.6644317 -7.247499462 24.88860973 0.90182101 0.952715692 0 0.16895902 2561.505217 4573364.243 0.022418538 0.027382981 5.66E-08 7.247499462 0.050894682 EVKAAMRKVVT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 EVKAAMRKVVTK 12 3 Q8NGD0 Q8NGD0 OR4M1 Olfactory receptor 4M1 1 0 EVKAAMRKVVT(1)K 67.964 0.0064142 0 2048.6 2119.5 2169.6 2238.4 2153 3020.4 2299.6 2085.4 3036.2 2460.2 TRUE FALSE FALSE 2264.081147 2188.173191 2465.261789 2281.727469 1988.037605 2763.044928 2040.842956 2032.058488 3015.070837 2566.271262 0.882245451 0.852666366 0.960639596 0.889121701 0.774679448 1.076676877 0.795256131 0.791833084 1.174883919 1 11.32545796 -13.52287874 0.189176538 1.545578348 0.853802509 0.359759083 0.100444612 57.50234245 0.67841519 11.5371773 0.097497767 3.00E-14 13.52287874 -0.691775839 EVLAS(ph)PDRLWGSR ddPTM_HeLa_SAHA_4h_R1 1 EVLASPDRLWGSR 13 1 Q9C0C2;E9PKK0 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 EVLAS(0.976)PDRLWGS(0.024)R 74.966 0.01472 9108000 861.46 708.99 964.75 1046.3 1070.9 738.78 1386.2 1146.8 990.61 1194 TRUE FALSE FALSE 952.0723153 731.9617412 1096.221106 1066.552649 988.8478734 675.8317877 1230.221128 1117.466517 983.7162644 1245.479183 0.764422503 0.587694882 0.880160119 0.856339202 0.79394974 0.542627927 0.987749249 0.89721814 0.789829551 1 10.28248519 -9.168501464 0.968704991 0.997296524 0.786909588 0.000245156 0.143516624 0.57114875 0.983041654 0.080403435 0.024181075 6.78E-10 9.168501464 -0.210386936 EVLDEDT(ph)DEEKETLK ddPTM_HeLa_SAHA_4h_R1 3 EVLDEDTDEEKETLK 15 1 Q9Y3P9 Q9Y3P9 RABGAP1 Rab GTPase-activating protein 1 1 0 EVLDEDT(0.994)DEEKET(0.006)LK;EVLDEDT(1)DEEKETLK;EVLDEDT(1)DEEKETLK ;; 126.63 0.00051086 147534000 4910.18 5740.8 5588.8 5321.1 6360.3 6834.3 6063.5 5949.4 6346.1 5750.15 TRUE FALSE FALSE 5426.655261 5926.805687 6350.412559 5424.097585 5872.975188 6251.979191 5381.219022 5797.222963 6301.936973 5998.067107 0.904734003 0.988119269 1.058743166 0.904307586 0.979144628 1.042332318 0.897158856 0.966515189 1.050661298 1 12.55028195 -3.004502209 16.1111087 0.963499702 0.969625222 0 0.060360183 0 0 0.007463413 0 0.000989687 3.004502209 0.00612552 EVLLFPAMKPEDK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 EVLLFPAMKPEDKK 14 2 Q15046;Q15046-2 Q15046 KARS Lysine--tRNA ligase 0 1 EVLLFPAMKPEDK(1)K 137.81 0.012598 0 0 203.18 191.9 147.15 197.5 136.04 270.9 0 175.57 70.514 FALSE TRUE FALSE 0 209.7631653 218.0511326 149.998301 182.3675927 124.4486267 240.417619 0 174.3481941 73.55420363 0 2.851817503 2.964495867 2.039289308 2.479363295 1.691930855 3.268577555 0 2.370336235 1 6.200735889 -7.263072274 24.99966224 0.527777767 2.243464626 0.101864807 1.06169961 94.65426539 1449155.378 0.144496152 0.169906227 5.46E-08 7.263072274 1.715686859 EVLYDS(ph)EGLSGEER ddPTM_HeLa_SAHA_4h_R1 3 EVLYDSEGLSGEER 14 0 Q9H7N4 Q9H7N4 SCAF1 "Splicing factor, arginine/serine-rich 19" 1 0 EVLYDS(0.998)EGLS(0.001)GEER;EVLYDS(1)EGLSGEER;EVLYDS(0.884)EGLS(0.116)GEER ;; 169.3 3.58E-06 10048700 1537.07 1651.56 1473.29 1312.15 1546.73 1916.37 1932.9 1657.04 1920.97 1485.72 TRUE FALSE FALSE 1698.746075 1705.071628 1674.062289 1337.548561 1428.219882 1753.084495 1715.405005 1614.655316 1907.601813 1549.77666 1.09612315 1.10020474 1.080195832 0.863058914 0.92156497 1.131185247 1.106872396 1.04186323 1.230888206 1 10.59784461 -7.941192692 0.002570751 8.77E-05 2.081115702 0 0.103591403 174259.914 278.9329182 113274.269 112515.7766 1.15E-08 7.941192692 2.081028024 EVMESAVGNSSGSGQNEES(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 EVMESAVGNSSGSGQNEESPR 21 0 Q9NVF7 Q9NVF7 FBXO28 F-box only protein 28 1 0 EVMES(0.002)AVGNS(0.034)S(0.034)GS(0.128)GQNEES(0.801)PR;EVMESAVGNS(0.042)S(0.042)GS(0.008)GQNEES(0.908)PR;EVMESAVGNSSGSGQNEES(1)PR;EVMESAVGNSSGSGQNEES(0.999)PR ;;; 218.14 3.18E-27 41285600 3907.81 3931.05 3237.74 3520.83 4424.72 4889.15 3824.46 4145.95 4456.29 4041.38 TRUE FALSE FALSE 4318.851385 4058.418599 3678.962346 3588.980756 4085.69891 4472.566914 3394.121695 4039.902602 4425.278315 4215.62367 1.024486938 0.962708941 0.872697051 0.851352264 0.969180181 1.060950233 0.805129196 0.958316709 1.049732771 1 12.04153037 -7.028369656 4.865296085 1.011082461 0.91959591 0.320135542 0.067642605 0.186807549 11.35019298 0.010867067 0.01371923 9.37E-08 7.028369656 -0.091486551 EVNS(ph)QEEEEEELLRK ddPTM_HeLa_SAHA_4h_R1 3 EVNSQEEEEEELLRK 15 1 Q96RL1-2;Q96RL1;Q96RL1-3;D6RC40;D6RCQ3;Q96RL1-5 Q96RL1-2 UIMC1 BRCA1-A complex subunit RAP80 1 0 EVNS(1)QEEEEEELLRK;EVNS(1)QEEEEEELLRK;EVNS(1)QEEEEEELLRK ;; 154.39 1.64E-05 20667700 2752.88 2659.34 2711.71 2262.44 2673.2 2714.72 2519.55 3071 3337.13 2796.91 TRUE FALSE FALSE 3042.440549 2745.504361 3081.247717 2306.232798 2468.379994 2483.410583 2236.043603 2992.448267 3313.906641 2917.498478 1.042825068 0.941047401 1.056126589 0.790482948 0.846060422 0.851212298 0.766424942 1.025689744 1.13587262 1 11.51051619 -6.26555796 24.99730837 1.015986833 0.850183817 0.550255699 0.079984832 178.3555638 1082510.527 0.009874142 0.015421749 5.43E-07 6.26555796 -0.165803016 EVPAVPETLK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EVPAVPETLKK 11 1 P18124 P18124 RPL7 60S ribosomal protein L7 0 1 ; EVPAVPETLK(1)K;EVPAVPETLK(1)K 145.99 2.33E-05 3421000 1713.62 5358.2 2456.7 2836.1 4644.2 4324.7 5158.5 3618.4 4198.6 1349.58 FALSE TRUE FALSE 1893.866414 5531.809196 2791.486282 2890.996817 4288.362399 3956.21123 4578.052004 3525.846567 4169.381601 1407.766998 1.345298203 3.929492026 1.98291783 2.053604623 3.046216031 2.810274168 3.251995542 2.504566857 2.961698637 1 10.45919286 -7.411301222 7.603889211 1.151422464 2.763509082 0.151674425 0.785076659 0.115912124 7.123234902 0.089702217 0.102258431 3.88E-08 7.411301222 1.612086618 EVPGPDCR ddPTM_HeLa_SAHA_4h_R1 1 EVPGPDCR 8 0 Q16658 Q16658 FSCN1 Fascin 0 0 122.13 0.0055029 0 1989.9 2130 1711.3 2150.4 2501.3 2461.6 2337.5 2232 2235.6 1633.9 FALSE FALSE TRUE 2199.206812 2199.013398 1944.507052 2192.024102 2309.650934 2251.857831 2074.478348 2174.908672 2220.042278 1704.345425 1.290352753 1.29023927 1.140911357 1.286138402 1.355154243 1.321244977 1.217170133 1.276096171 1.302577661 1 10.73500205 -9.310390006 0.642530333 0.960313978 1.276836738 0 0.109173111 0.407327082 0.243133207 0.074816444 0.012735817 4.89E-10 9.310390006 0.31652276 EVPSKEEPS(ph)PVK ddPTM_HeLa_SAHA_4h_R1 1 EVPSKEEPSPVK 12 1 P46821;D6RA40;D6RA32 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 EVPSKEEPS(1)PVK 97.456 0.0047958 6752200 1951.1 2925.8 1854 1936.2 2816.4 3208.3 2511.1 2353 4062.5 2716.5 TRUE FALSE FALSE 2156.32565 3020.59784 2106.653465 1973.677951 2600.60804 2934.934791 2228.544419 2292.813667 4034.228732 2833.621609 0.760978686 1.065984897 0.74344911 0.696521351 0.917768284 1.035753956 0.786465071 0.809146027 1.423700581 1 11.4684314 -9.563192591 1.30766257 1.000861624 0.844212888 0.256337358 0.17907032 0.608114816 1.846897001 0.085077277 0.019549627 2.73E-10 9.563192591 -0.156648736 EVPSKEEPS(ph)PVKAEVAEK ddPTM_HeLa_SAHA_4h_R1 4 EVPSKEEPSPVKAEVAEK 18 2 P46821;D6RA40;D6RA32 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 EVPS(0.008)KEEPS(0.992)PVKAEVAEK;EVPS(0.21)KEEPS(0.79)PVKAEVAEK;EVPSKEEPS(1)PVKAEVAEK;EVPS(0.036)KEEPS(0.964)PVKAEVAEK ;;; 68.567 0.0082307 1097154000 10885.14 11020.9 10143.18 12202.3 13076.9 12427.2 13087.8 13164.4 12269.9 11232.4 TRUE FALSE FALSE 12030.08897 11377.98439 11525.43975 12438.49316 12074.95075 11368.33265 11615.1263 12827.67371 12184.51277 11716.68373 1.02674863 0.971092559 0.983677635 1.061605267 1.03057751 0.970268798 0.991332237 1.094821197 1.039928451 1 13.51627667 -4.2541447 24.41419823 1.008739319 1.094821254 0.442543981 0.02910935 445.1437818 1489777.884 0.003876106 0.052083256 5.57E-05 4.2541447 0.086081935 EVPWS(ph)PSAEK ddPTM_HeLa_SAHA_4h_R1 2 EVPWSPSAEK 10 0 Q5JSZ5;Q5JSZ5-5;Q5JT00 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 EVPWS(0.995)PS(0.005)AEK;EVPWS(0.987)PS(0.013)AEK ; 114.24 0.0043543 15614600 3902.2 4274.8 3772.87 4188.7 4918.2 5292.8 4154.5 4262.3 5062.2 4823 TRUE FALSE FALSE 4312.6513 4413.306325 4287.017075 4269.778345 4541.368579 4841.823664 3687.024726 4153.276538 5026.971738 5030.943133 0.857225213 0.877232401 0.852129901 0.848703361 0.902687321 0.962408744 0.73286949 0.82554631 0.999210606 1 12.29661317 -13.52287874 0.211255268 1.734803646 0.833914915 0.530336864 0.054168746 30.85175791 0.384191981 9.321767409 0.049799748 3.00E-14 13.52287874 -0.900888732 EVQAEQPSSS(ph)SPRR ddPTM_HeLa_SAHA_4h_R1 1 EVQAEQPSSSSPRR 14 1 Q9Y388;A0A1W2PP04 Q9Y388 RBMX2 "RNA-binding motif protein, X-linked 2" 1 0 EVQAEQPS(0.014)S(0.179)S(0.535)S(0.271)PRR 68.123 0.017023 3324800 951.28 845.61 655.17 1008.8 920.86 971.42 955.21 1073.6 930.14 816.32 TRUE FALSE FALSE 1051.339995 873.0083188 744.4531556 1028.326783 850.3039057 888.6495509 847.7272568 1046.138867 923.66708 851.5155502 1.234669167 1.025240606 0.874268421 1.207642987 0.998577073 1.043609304 0.995551117 1.228561083 1.084733074 1 9.733889066 EVQAEQPSSSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 EVQAEQPSSSSPR 13 0 Q9Y388;A0A1W2PP04 Q9Y388 RBMX2 "RNA-binding motif protein, X-linked 2" 1 0 EVQAEQPSSS(0.002)S(0.998)PR;EVQAEQPS(0.001)S(0.002)S(0.295)S(0.702)PR;EVQAEQPS(0.02)S(0.218)S(0.218)S(0.545)PR ;; 235.93 1.15E-23 107358160 2482.75 2377.38 1939.76 2806.06 2594.05 3099.89 2660.83 2897.6 2916.24 2692.39 TRUE FALSE FALSE 2743.897036 2454.408672 2204.100391 2860.375349 2395.294449 2835.761932 2361.426405 2823.483588 2895.945648 2808.472109 0.977007045 0.873930228 0.784804088 1.018480953 0.852881694 1.009716964 0.840822452 1.005345069 1.031146309 1 11.45556976 -7.397584587 5.505626195 0.990001463 0.910349953 0.22560609 0.075924985 0.25920041 10.54795487 0.011818887 0.013428173 4.00E-08 7.397584587 -0.07965151 EVQDKDYPLT(ph)PPPS(ph)PTVDEPK ddPTM_HeLa_SAHA_4h_R1 1 EVQDKDYPLTPPPSPTVDEPK 21 1 Q5THJ4-2;Q5THJ4;H3BLS7 Q5THJ4-2 VPS13D Vacuolar protein sorting-associated protein 13D 2 0 EVQDKDY(0.168)PLT(0.828)PPPS(0.721)PT(0.283)VDEPK 84.214 0.0045031 6575000 718.97 720.38 728.59 832.43 685.34 1005.9 855.31 795.95 663.08 691.69 TRUE FALSE FALSE 794.5945634 743.7207847 827.8784509 848.5428864 632.8293973 920.191661 759.0682677 775.5907515 658.4655723 721.5121409 1.101290634 1.030780693 1.147421372 1.176061827 0.877087663 1.275365456 1.052051968 1.074951768 0.912618839 1 9.494879861 -9.374139122 0.618211662 0.983390302 1.094693582 0.196540195 0.10176413 2.083778192 1.090260608 0.133174612 0.020144571 4.23E-10 9.374139122 0.11130328 EVQSK(ac)IEK ddPTM_HeLa_SAHA_4h_R1 2 EVQSKIEK 8 1 Q01995;E9PJ32 Q01995 TAGLN Transgelin 0 1 ; EVQSK(1)IEK;EVQSK(1)IEK 139.96 0.00010066 5646400 1864.68 2634.7 2234.8 2983.7 3501.3 3664.4 3519.9 3518 2070.11 1695.37 FALSE TRUE FALSE 2060.815598 2720.066009 2539.346906 3041.453828 3233.03115 3352.172505 3123.831588 3428.014654 2055.703936 1768.465698 1.165312734 1.538093734 1.435903964 1.719826306 1.828155986 1.895525884 1.766407792 1.938411731 1.162422284 1 10.78828252 -6.800615263 0.657970404 1.028101124 1.897389782 0.926115374 0.087527984 0.092039199 0.082240574 0.018791438 0.031359311 1.58E-07 6.800615263 0.869288658 EVQTNDLK ddPTM_HeLa_SAHA_4h_R1 2 EVQTNDLK 8 0 D6R9B6;H0Y9Y4;D6RAT0;P61247;D6RG13;D6RB09;E9PFI5 D6R9B6 RPS3A 40S ribosomal protein S3a 0 0 ; ; 171.99 7.12E-06 18593100 4650.8 4452.6 4096.3 4437.3 4340.2 4666.9 4304.1 4460.6 4069.9 4026.2 FALSE FALSE TRUE 5139.992483 4596.867161 4654.522431 4523.190358 4007.654814 4269.253865 3819.79134 4346.504311 4041.577235 4199.789186 1.223869165 1.094547121 1.108275255 1.077004144 0.954251425 1.016540039 0.909519781 1.034933926 0.962328597 1 12.0361012 -5.872647437 4.302629606 1.107043308 0.976671432 0.251705809 0.07509712 0.196321634 6.463143162 0.012907077 0.024131041 1.34E-06 5.872647437 -0.130371877 EVS(ph)DSEAGGGPQGER ddPTM_HeLa_SAHA_4h_R1 1 EVSDSEAGGGPQGER 15 0 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 1 0 EVS(0.869)DS(0.131)EAGGGPQGER 222.88 2.08E-18 11373000 328.02 568.54 416.1 390.17 338.67 507.86 457.24 508.32 666.28 516.36 TRUE FALSE FALSE 362.5226486 586.961069 472.803941 397.7223045 312.7211778 464.5874709 405.7901518 495.3179104 661.6433032 538.6228066 0.673054769 1.089744181 0.877801562 0.738405986 0.580594015 0.862546972 0.753384645 0.919600701 1.228398232 1 9.073131508 -6.266656222 23.59255905 0.866076531 0.764451255 0.127809415 0.174623321 405.9949253 1836066.938 0.024463563 0.038104066 5.41E-07 6.266656222 -0.101625275 EVS(ph)DSEAGGGPQGERK ddPTM_HeLa_SAHA_4h_R1 2 EVSDSEAGGGPQGERK 16 1 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 1 0 EVS(1)DSEAGGGPQGERK;EVS(0.999)DS(0.001)EAGGGPQGERK ; 102.84 0.0016122 10702900 2634.2 2408.1 3033.9 3007.4 2869.2 3514.7 3265.5 3072 4058.7 3374.8 TRUE FALSE FALSE 2911.277242 2486.12402 3447.344092 3065.612576 2649.362516 3215.227787 2898.057346 2993.422688 4030.455176 3520.304144 0.826995942 0.706224212 0.979274503 0.870837419 0.752594778 0.913338068 0.823240614 0.8503307 1.144916749 1 11.78148436 -9.169192453 0.902597847 1.000806421 0.840865316 0.489587099 0.087065208 0.455784828 0.665090675 0.04768052 0.01340273 6.77E-10 9.169192453 -0.159941105 EVS(ph)PAPAVAGQSK ddPTM_HeLa_SAHA_4h_R1 1 EVSPAPAVAGQSK 13 0 O60292 O60292 SIPA1L3 Signal-induced proliferation-associated 1-like protein 3 1 0 EVS(1)PAPAVAGQSK 174.47 1.68E-05 15885000 2693.8 2980.3 2963.4 2953.4 3225.2 3201.9 3488.4 2789.2 3215.7 3033.8 TRUE FALSE FALSE 2977.146244 3076.863675 3367.236719 3010.567328 2978.085873 2929.080107 3095.876051 2717.856303 3193.321682 3164.601965 0.940764834 0.972275095 1.064031672 0.951325747 0.941061753 0.925576151 0.97828292 0.858830378 1.009075301 1 11.62780834 -2.790482395 0.775675106 0.975257825 1.20E-15 0.435106073 0.039320781 17.19868347 1.218924471 0.006527217 24.15018977 0.00162001 2.790482395 -0.975257825 EVS(ph)PEVVR ddPTM_HeLa_SAHA_4h_R1 6 EVSPEVVR 8 0 Q5T200-2;Q5T200;A0A087WX14 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 EVS(1)PEVVR;EVS(1)PEVVR;EVS(1)PEVVR;EVS(1)PEVVR;EVS(1)PEVVR;EVS(1)PEVVR ;;;;; 127.76 0.0018175 356221600 16309.9 16234.9 15152.1 16714.2 17903.9 18689.1 17705.4 16444.8 17394.1 16091.6 TRUE FALSE FALSE 18025.45011 16760.92141 17216.94928 17037.72751 16532.10705 17096.68354 15713.14179 16024.16583 17273.05304 16785.38763 1.073877501 0.99854241 1.025710556 1.015033307 0.984910651 1.018545649 0.936120282 0.954649734 1.029052973 1 14.03491823 -4.883296185 0.712193658 1.03241101 0.923495741 0.545356203 0.02501834 0.978301219 0.559089012 0.005589122 0.072066195 1.31E-05 4.883296185 -0.108915269 EVS(ph)PGSRDILDGVR ddPTM_HeLa_SAHA_4h_R1 2 EVSPGSRDILDGVR 14 1 Q96RL1-2;Q96RL1;Q96RL1-3;Q96RL1-4 Q96RL1-2 UIMC1 BRCA1-A complex subunit RAP80 1 0 EVS(0.944)PGS(0.056)RDILDGVR;EVS(0.745)PGS(0.255)RDILDGVR ; 81.713 0.0093648 15922500 5225.6 2727.3 4995.5 4028.2 4555.3 4373.1 5651.4 5785.2 1990.35 3850.1 TRUE FALSE FALSE 5775.252584 2815.666309 5676.260725 4106.171636 4206.273898 4000.487278 5015.489598 5637.222961 1976.498992 4016.096653 1.438026293 0.701095256 1.413377519 1.02242849 1.047353752 0.996113297 1.248846836 1.403657195 0.492144279 1 11.97157827 EVS(ph)PLLPK ddPTM_HeLa_SAHA_4h_R1 2 EVSPLLPK 8 0 Q15911;Q15911-2 Q15911 ZFHX3 Zinc finger homeobox protein 3 1 0 EVS(1)PLLPK;EVS(1)PLLPK ; 109.29 0.006679 39143000 8169.9 10628.9 8245.4 8158.2 10505.4 11920.6 9529.4 9175 11014.3 9714.3 TRUE FALSE FALSE 9029.247567 10973.28333 9369.040172 8316.113758 9700.478522 10904.89782 8457.126832 8940.316785 10937.65059 10133.13101 0.891061959 1.082911424 0.924594793 0.820685506 0.957303178 1.076162718 0.834601548 0.882285719 1.079394964 1 13.3067924 -6.547854664 24.98885239 0.959413219 0.916323099 0.122605506 0.089542271 572.1110948 572405.0243 0.013603992 0.019239397 2.83E-07 6.547854664 -0.043090119 EVS(ph)PPGAR ddPTM_HeLa_SAHA_4h_R1 1 EVSPPGAR 8 0 H0Y9Y2;Q8NFC6 H0Y9Y2;Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 EVS(1)PPGAR 85.862 0.021927 71540000 485.07 368.2 368.57 375.77 469.97 665.46 464.74 518.29 398.79 404.17 TRUE FALSE FALSE 536.0918882 380.1299216 418.7968002 383.0435717 433.9610001 608.7590642 412.4462321 505.0328923 396.0147879 421.5957467 1.271578028 0.901645533 0.993361066 0.908556537 1.029329645 1.443940241 0.978297896 1.19790794 0.93932349 1 8.719716502 -3.921962633 17.52691065 1.098497279 3.516441695 0 0.170129235 331.0935242 80466.35518 0.023621528 2542.837851 0.000119684 3.921962633 2.417944416 EVS(ph)S(ph)RPSTPGLSVVSGISATSEDIPNKIEDLR ddPTM_HeLa_SAHA_4h_R1 1 EVSSRPSTPGLSVVSGISATSEDIPNKIEDLR 32 2 Q14C86-4;Q14C86-5;Q14C86-2;Q14C86;Q14C86-6;F8W9S7;Q14C86-3;H0Y4E7;H0Y7I9;C9IZ08 Q14C86-4 GAPVD1 GTPase-activating protein and VPS9 domain-containing protein 1 2 0 EVS(0.551)S(0.551)RPS(0.321)T(0.321)PGLS(0.249)VVS(0.007)GISATSEDIPNKIEDLR 75.512 1.27E-05 151690000 1282.4 1588.9 1394 1512.4 1775.2 1688.1 1866 1609.5 1865.2 1528.1 TRUE FALSE FALSE 1417.288716 1640.381403 1583.96706 1541.674689 1639.18456 1544.264383 1656.032769 1568.331321 1852.219921 1593.983869 0.889148719 1.029107906 0.993715866 0.967183369 1.028357056 0.968808037 1.038926931 0.983906645 1.162006691 1 10.63842131 -7.238928895 24.99154601 0.947653557 1.001038795 0 0.075902606 880.6987001 977769.0119 0.007540909 0.009232339 5.77E-08 7.238928895 0.053385238 EVS(ph)TYIK ddPTM_HeLa_SAHA_4h_R1 2 EVSTYIK 7 0 Q5VTE0;P68104;A0A087WVQ9;A0A087WV01 Q5VTE0 EEF1A1P5;EEF1A1 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha 1 0 EVS(0.955)T(0.045)YIK;EVS(0.971)T(0.029)YIK ; 95.358 0.016638 12050300 6090.4 6081.9 4482 5744.4 6450.9 8217.1 6648.9 6510.5 9138.4 5465.9 TRUE FALSE FALSE 6731.016216 6278.95755 5092.783619 5855.591169 5956.633436 7516.956852 5900.748273 6343.970837 9074.80513 5701.561698 1.180556586 1.101269772 0.893226082 1.027015312 1.04473717 1.318403141 1.034935441 1.112672487 1.591634996 1 12.47714142 -9.693361436 1.583749688 1.00017592 1.100950507 0 0.213130999 0.753067145 3.414407169 0.078115208 0.017430517 2.03E-10 9.693361436 0.100774587 EVSDS(ph)EAGGGPQGER ddPTM_HeLa_SAHA_4h_R1 1 EVSDSEAGGGPQGER 15 0 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 1 0 EVS(0.152)DS(0.848)EAGGGPQGER 203.92 1.41E-12 17000000 413.96 954.68 594.55 533.92 561.83 667.04 583.91 616.19 1077.6 485.45 TRUE FALSE FALSE 457.5022121 985.6122584 675.5721777 544.2547937 518.7827068 610.2044393 518.20691 600.428752 1070.100894 506.3801252 0.903475846 1.946388117 1.334120642 1.074794935 1.024492631 1.205032364 1.023355547 1.185727326 2.113236362 1 8.984076972 EVSFQSTGESEWK ddPTM_HeLa_SAHA_4h_R1 1 EVSFQSTGESEWK 13 0 I3L3Q7;I3L3B0;Q07021 I3L3Q7 C1QBP "Complement component 1 Q subcomponent-binding protein, mitochondrial" 0 0 168.59 0.00018569 7910500 1052.5 824.35 795.66 930.66 1021.3 1033.4 1269.5 952.7 1145.2 1056.4 FALSE FALSE TRUE 1163.206779 851.0594809 904.0884012 948.6742701 943.0482146 945.3485063 1126.652519 928.3313135 1137.23046 1101.946574 1.055592718 0.772323723 0.820446674 0.860907681 0.855802121 0.857889601 1.022420275 0.842446753 1.032019598 1 10.10583856 -7.276270637 24.87028664 1.026252121 0.865929877 0.609410756 0.061357391 383.8634223 643692.7039 0.010958688 0.012559447 5.29E-08 7.276270637 -0.160322244 EVSSLEGS(ph)PPPCLGQEEAVCTK ddPTM_HeLa_SAHA_4h_R1 2 EVSSLEGSPPPCLGQEEAVCTK 22 0 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 EVSS(0.002)LEGS(0.998)PPPCLGQEEAVCTK;EVS(0.002)S(0.008)LEGS(0.99)PPPCLGQEEAVCTK ; 179.18 8.48E-11 28850000 3970.1 3876.8 3665.4 3808.5 3932.5 4487.8 4246.2 3801.8 4056 3279.9 TRUE FALSE FALSE 4387.693333 4002.410864 4164.901623 3882.219025 3631.1927 4105.414192 3768.406401 3704.555461 4027.773966 3421.31254 1.28245908 1.169846606 1.217340297 1.134716276 1.061344924 1.199952984 1.101450498 1.082787795 1.177259873 1 11.74033419 -3.267070299 13.40243339 1.138611956 1.087771803 0 0.079257863 0 0 0.014330585 0 0.000540667 3.267070299 -0.050840153 EVSSRPS(ph)TPGLS(ph)VVSGISATSEDIPNKIEDLR ddPTM_HeLa_SAHA_4h_R1 1 EVSSRPSTPGLSVVSGISATSEDIPNKIEDLR 32 2 Q14C86-4;Q14C86-5;Q14C86-2;Q14C86;Q14C86-6;F8W9S7;Q14C86-3;H0Y4E7;H0Y7I9;C9IZ08 Q14C86-4 GAPVD1 GTPase-activating protein and VPS9 domain-containing protein 1 2 0 EVS(0.241)S(0.241)RPS(0.298)T(0.298)PGLS(0.705)VVS(0.163)GIS(0.05)AT(0.002)S(0.001)EDIPNKIEDLR 72.791 3.93E-05 17461000 1022.7 1579.2 1227.2 1185.8 1603.9 1571.4 1518.6 1308.3 1551.4 1709.4 TRUE FALSE FALSE 1130.272278 1630.367116 1394.436425 1208.752874 1481.009529 1437.50788 1347.723131 1274.83558 1540.603681 1783.1006 0.633880264 0.914343877 0.782029026 0.677893818 0.830581028 0.806184396 0.755831237 0.714954378 0.864002671 1 10.80017238 -9.532634906 1.269725033 1.001056132 0.754105302 0.341800527 0.085133946 0.271694946 0.778968318 0.058333498 0.013676497 2.93E-10 9.532634906 -0.246950829 EVSSRPSTPGLSVVSGIS(ph)ATSEDIPNKIEDLR ddPTM_HeLa_SAHA_4h_R1 1 EVSSRPSTPGLSVVSGISATSEDIPNKIEDLR 32 2 Q14C86-4;Q14C86-5;Q14C86-2;Q14C86;Q14C86-6;F8W9S7;Q14C86-3;H0Y4E7;H0Y7I9;C9IZ08 Q14C86-4 GAPVD1 GTPase-activating protein and VPS9 domain-containing protein 1 1 0 EVS(0.014)S(0.014)RPS(0.071)T(0.071)PGLS(0.051)VVS(0.051)GIS(0.336)AT(0.336)S(0.056)EDIPNKIEDLR 42.355 0.01554 6391500 281.31 377.01 299.37 381.43 337.18 548.9 536.56 497.31 371.27 355.54 TRUE FALSE FALSE 310.8994765 389.2253714 340.1665845 388.8131292 311.3453412 502.130632 476.1848567 484.5895303 368.6863018 370.8690694 0.838299826 1.04949537 0.91721476 1.048383813 0.839502043 1.353929657 1.283970263 1.306632368 0.994114452 1 8.534766141 -5.256388357 24.99873135 0.935928437 1.311756736 0.830698474 0.074020919 125.9985889 623594.8303 0.011378275 0.028048846 5.54E-06 5.256388357 0.375828299 EVSTAPAGTDMPAAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EVSTAPAGTDMPAAKK 16 1 H0YEL4;E9PJK2;A0A5F9ZI63;O75530-3;O75530;O75530-2 H0YEL4 EED Polycomb protein EED 0 1 ; EVSTAPAGTDMPAAK(1)K;EVSTAPAGTDMPAAK(1)K 257.19 4.85E-71 3672600 1320.01 1004.38 1391.08 1567.05 1712.94 1818.82 2053.5 1810.14 773.56 1064.57 FALSE TRUE FALSE 1458.854708 1036.922571 1580.649138 1597.382519 1581.694907 1663.846304 1822.434775 1763.83924 768.176733 1110.468823 1.313728651 0.933770089 1.423407038 1.438475792 1.424348775 1.498327796 1.641139975 1.588373491 0.691758938 1 10.11695317 -1 0.105911857 0.811286629 3.355144251 0.692551379 0.164745976 44.67744724 0.333999456 0.862568452 16.63776633 0.1 1 2.543857623 EVSTYIK ddPTM_HeLa_SAHA_4h_R1 4 EVSTYIK 7 0 Q5VTE0;P68104;A0A087WVQ9;A0A087WV01 Q5VTE0 EEF1A1P5;EEF1A1 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha 0 0 ;;; ;;; 143 0.00073843 94898000 13414.4 12665.2 13228.1 14255.9 14420.3 13164.7 15407.9 11854.8 11567.8 11584.2 FALSE FALSE TRUE 14825.38814 13075.56079 15030.75658 14531.84356 13315.41973 12042.9935 13674.16254 11551.57138 11487.29874 12083.65155 1.226896363 1.082086878 1.243891924 1.202603658 1.101936751 0.996635284 1.131625029 0.955966938 0.950647963 1 13.56076887 -4.257803984 22.63408023 1.116460463 0.955966698 0.164899478 0.096380944 127.2445353 792082.1352 0.013991318 0.13485776 5.52E-05 4.257803984 -0.160493765 EVSTYIK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EVSTYIKK 8 1 Q5VTE0;P68104;A0A087WVQ9;A0A087WV01 Q5VTE0 EEF1A1P5;EEF1A1 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha 0 1 ; EVSTYIK(1)K;EVSTYIK(1)K 170.22 1.55E-11 62568000 6941.1 11561.2 9294.5 7987.4 10797.2 8397.1 12788.9 8547.7 5601.6 4890.7 FALSE TRUE FALSE 7671.196745 11935.79047 10561.10606 8142.007677 9969.920869 7681.619839 11349.85931 8329.062211 5562.61801 5101.562012 1.503695677 2.339634496 2.070171064 1.595983281 1.954287892 1.505738796 2.224781212 1.632649411 1.090375457 1 12.31672333 -7.967753245 1.175320973 1.116215224 1.889044703 0.585493455 0.276078981 0.202571659 0.586221043 0.069479742 0.058496518 1.08E-08 7.967753245 0.77282948 EVSTYIKK ddPTM_HeLa_SAHA_4h_R1 1 EVSTYIKK 8 1 Q5VTE0;P68104;A0A087WVQ9;A0A087WV01 Q5VTE0 EEF1A1P5;EEF1A1 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha 0 0 113.41 0.014553 1848400 639.84 654.04 909.79 920.15 1086.4 696.9 808.77 689.49 467.05 651.16 FALSE FALSE TRUE 707.1413069 675.2313251 1033.771443 937.9608338 1003.160267 637.5201993 717.765071 671.8538442 463.799761 679.2346943 1.041085376 0.994106059 1.521965017 1.38090831 1.47689786 0.938586036 1.056726161 0.989133579 0.682826959 1 9.407766341 EVTWEVLEGEVEK ddPTM_HeLa_SAHA_4h_R1 3 EVTWEVLEGEVEK 13 0 P05455 P05455 SSB Lupus La protein 0 0 ;; ;; 222.49 6.60E-16 8717600 3302.08 2129.53 1812.75 2724.77 2087.89 3252.83 2902.54 2603.85 3382.34 2900.82 FALSE FALSE TRUE 3649.407925 2198.528169 2059.78213 2777.511863 1927.916319 2975.670584 2575.93856 2537.247287 3358.802021 3025.888546 1.206061581 0.726572752 0.680719761 0.917916116 0.637140559 0.983403896 0.851299881 0.838513134 1.110021724 1 11.56314313 -7.258017942 24.99841502 1.097306859 0.806814555 0.613615858 0.109131535 161.5829124 1180591.259 0.020131161 0.024138053 5.52E-08 7.258017942 -0.290492304 EVVEEAENGR ddPTM_HeLa_SAHA_4h_R1 4 EVVEEAENGR 10 0 B8ZZQ6;P06454-2;P06454;B8ZZA1;B8ZZW7;H7C2N1 B8ZZQ6 PTMA "Prothymosin alpha;Prothymosin alpha, N-terminally processed;Thymosin alpha-1" 0 0 ;;; ;;; 203.29 6.85E-25 18375600 4799.75 5305.5 4710.65 5317 5388.2 6682.7 5490 5205.6 7147.2 5375.2 FALSE FALSE TRUE 5304.609727 5477.401681 5352.59285 5419.918224 4975.35728 6113.296364 4872.250751 5072.44829 7097.462053 5606.951178 0.946077388 0.976894841 0.954635181 0.966642664 0.887355199 1.090306687 0.868966145 0.904671385 1.265832683 1 12.45300079 -11.90762496 0.007897967 2.00762213 6.70E-07 0.122525191 0.103660465 20382.72111 17.6029424 2428.815329 2059.482912 1.24E-12 11.90762496 -2.00762146 EVVEGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EVVEGKK 7 1 O76031 O76031 CLPX "ATP-dependent Clp protease ATP-binding subunit clpX-like, mitochondrial" 0 1 ; EVVEGK(1)K;EVVEGK(1)K 102.72 0.0058805 18033700 6838.5 9442.3 10558.6 9671.6 7092.2 7794.9 8723.9 7502 8194 6000.6 FALSE TRUE FALSE 7557.804806 9748.236715 11997.47102 9858.807803 6548.797168 7130.730667 7742.263812 7310.109703 8136.977287 6259.315232 1.207449142 1.557396673 1.916738585 1.575061718 1.04624818 1.139218972 1.23691866 1.167876905 1.299978829 1 12.61178912 -7.802868841 1.86508772 1.065963062 1.373898835 0.088631436 0.257998009 0.370944659 2.684358744 0.057762592 0.055445512 1.57E-08 7.802868841 0.307935773 EVVKPVPIT(ph)SPAVSK ddPTM_HeLa_SAHA_4h_R1 4 EVVKPVPITSPAVSK 15 1 Q96HC4;A0A0D9SFR4 Q96HC4 PDLIM5 PDZ and LIM domain protein 5 1 0 EVVKPVPIT(0.755)S(0.24)PAVS(0.005)K;EVVKPVPIT(0.966)S(0.033)PAVS(0.001)K;EVVKPVPIT(0.688)S(0.312)PAVSK;EVVKPVPIT(0.611)S(0.389)PAVSK ;;; 139.81 0.00016937 134610000 8573.64 8908.71 9108.27 8675.07 10185.99 9761.74 9083.78 9117.55 8248.5 8469.3 TRUE FALSE FALSE 9475.454792 9197.358049 10349.4976 8842.988524 9405.541647 8929.984834 8061.649167 8884.336273 8191.098017 8834.452971 1.072557047 1.041078387 1.17149275 1.000966167 1.064643355 1.010813557 0.912523865 1.005646451 0.927176594 1 13.10892509 -4.975626521 7.031726642 1.045032617 0.959098085 0.202842453 0.062730838 0.155902635 29.25970984 0.007322643 0.021831158 1.06E-05 4.975626521 -0.085934532 EVVKPVPITS(ph)PAVSK ddPTM_HeLa_SAHA_4h_R1 4 EVVKPVPITSPAVSK 15 1 Q96HC4;A0A0D9SFR4 Q96HC4 PDLIM5 PDZ and LIM domain protein 5 1 0 EVVKPVPIT(0.23)S(0.768)PAVS(0.002)K;EVVKPVPIT(0.04)S(0.96)PAVSK;EVVKPVPIT(0.312)S(0.664)PAVS(0.024)K;EVVKPVPIT(0.186)S(0.813)PAVS(0.002)K ;;; 156.17 2.77E-05 68197800 13216.42 13728.76 13334.87 13532.95 14670.88 15474.43 14665.33 12983.62 13804.93 13603.68 TRUE FALSE FALSE 14606.58369 14173.58083 15152.07664 13794.89982 13546.80034 14155.92151 13015.14847 12651.5178 13708.86037 14190.20122 1.029342958 0.998828742 1.067784481 0.97214265 0.954658791 0.997584269 0.917192665 0.891567188 0.96607935 1 13.79260743 -4.338932646 0.671171057 1.015334791 0.814897212 0.585842965 0.03143865 1.147280546 0.378412845 0.004752683 0.171322139 4.58E-05 4.338932646 -0.200437579 EVVQNFAK ddPTM_HeLa_SAHA_4h_R1 1 EVVQNFAK 8 0 Q14019;H3BT58 Q14019 COTL1 Coactosin-like protein 0 0 103.83 0.012461 1093300 192.67 143.8 251.13 236.6 348.91 342.68 331.65 261.98 181.1 259.53 FALSE FALSE TRUE 212.9359146 148.4592144 285.3526886 241.1797351 322.1765912 313.4817361 294.3318691 255.2789309 179.8397104 270.7196084 0.786555196 0.548387371 1.054052532 0.89088388 1.190074827 1.157957261 1.087220356 0.942964318 0.664302491 1 8.080655577 -5.782191433 21.26955634 0.88000819 1.098558918 0.388961817 0.156934414 38.96196302 39933.63732 0.022962864 0.04168929 1.65E-06 5.782191433 0.218550728 EVYELLDS(ph)PGK ddPTM_HeLa_SAHA_4h_R1 5 EVYELLDSPGK 11 0 E9PBS1;P22234;P22234-2 E9PBS1 PAICS Multifunctional protein ADE2;Phosphoribosylaminoimidazole-succinocarboxamide synthase;Phosphoribosylaminoimidazole carboxylase 1 0 EVYELLDS(1)PGK;EVYELLDS(1)PGK;EVYELLDS(1)PGK;EVYELLDS(1)PGK;EVYELLDS(1)PGK ;;;; 243.37 4.86E-31 111455000 14358.58 18481.48 12247.39 15219.3 19890.59 21626.16 17775.86 13998.66 25605.3 17110.55 TRUE FALSE FALSE 15868.88132 19080.29208 13916.40053 15513.89156 18366.57729 19783.4895 15775.67345 13640.59455 25427.11063 17848.26955 0.889099152 1.069027562 0.77970587 0.869209842 1.029039664 1.108426195 0.883876916 0.764253056 1.4246261 1 14.12349659 -9.540338516 1.241349706 1.000887763 0.925533455 0.116721019 0.173634105 1.25284952 3.390111308 0.081780513 0.018495555 2.88E-10 9.540338516 -0.075354308 EVYELLDS(ph)PGKVLLQSK ddPTM_HeLa_SAHA_4h_R1 1 EVYELLDSPGKVLLQSK 17 1 E9PBS1;P22234;P22234-2 E9PBS1 PAICS Multifunctional protein ADE2;Phosphoribosylaminoimidazole-succinocarboxamide synthase;Phosphoribosylaminoimidazole carboxylase 1 0 EVY(0.001)ELLDS(0.998)PGKVLLQS(0.001)K 65.107 0.014466 106150000 2245.4 1885.9 1905.6 2064.6 2694.7 2598.6 2349.3 1884.2 2187.8 2407.1 TRUE FALSE FALSE 2481.581474 1947.004397 2165.285244 2104.563318 2488.232668 2377.184661 2084.950581 1836.004892 2172.574922 2510.881861 0.988330639 0.775426525 0.862360463 0.838176957 0.990979586 0.946752891 0.830365862 0.731219147 0.865263697 1 11.29397843 -7.350001307 8.722653643 0.994727734 0.861397375 0.172435906 0.081689803 0.252494767 23.08447752 0.012473744 0.014243031 4.47E-08 7.350001307 -0.133330359 EVYFAER ddPTM_HeLa_SAHA_4h_R1 4 EVYFAER 7 0 P50238 P50238 CRIP1 Cysteine-rich protein 1 0 0 ;;; ;;; 150.84 0.00069214 151622000 14484.3 16063 16432.6 17292.8 16494.9 15611.7 18325.8 12476.9 11118.5 12867.2 FALSE FALSE TRUE 16007.82513 16583.45174 18671.94915 17627.52715 15231.06433 14281.49533 16263.73275 12157.75896 11041.12545 13421.96796 1.192658571 1.235545472 1.391148392 1.313334021 1.134786223 1.064038848 1.211724897 0.905810459 0.822615989 1 13.7123086 -3.281756284 14.15138155 1.134181184 1.13832848 0 0.170289811 0 0 0.020431515 0 0.000522689 3.281756284 0.004147296 EVYQQQQYGS(ph)GGR ddPTM_HeLa_SAHA_4h_R1 4 EVYQQQQYGSGGR 13 0 Q99729-3;Q99729-4;D6R9P3;D6RD18;D6RBZ0;Q99729-2;Q99729 Q99729-3 HNRNPAB Heterogeneous nuclear ribonucleoprotein A/B 1 0 EVYQQQQYGS(1)GGR;EVYQQQQYGS(1)GGR;EVYQQQQYGS(1)GGR;EVYQQQQYGS(1)GGR ;;; 193.98 1.02E-07 29621800 4006.04 4187.04 3394.59 3672.58 4489.39 5230.26 4838.63 4145.66 4639.71 4431 TRUE FALSE FALSE 4427.413668 4322.702843 3857.187047 3743.668097 4145.413908 4784.612423 4294.174618 4039.62002 4607.42188 4622.042095 0.957891247 0.93523658 0.834520103 0.809959758 0.896879306 1.035172836 0.929064368 0.873990314 0.99683685 1 12.17431468 -7.384334022 1.865819617 0.983943 0.900821608 0.316543921 0.057812161 0.342904488 2.284148429 0.012025895 0.013620264 4.13E-08 7.384334022 -0.083121392 EWNGVVSESDS(ph)PVK ddPTM_HeLa_SAHA_4h_R1 1 EWNGVVSESDSPVK 14 0 M0R0Q7;P18858-2;P18858-3;P18858;B4E135;M0QY71;M0R1G7;F5GZ28 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 EWNGVVSES(0.01)DS(0.99)PVK 148.41 9.09E-05 11481000 929 1416.5 925.87 1148.1 1145.1 1323 1293.7 1195.3 1935.6 1194.6 TRUE FALSE FALSE 1026.716482 1462.395529 1052.042742 1170.323136 1057.362685 1210.272957 1148.129471 1164.725957 1922.130002 1246.105052 0.82394055 1.173573229 0.844264888 0.93918497 0.848534145 0.971244724 0.921374542 0.93469323 1.5425104 1 10.28320998 EWNGVVSESDS(ph)PVKRPGR ddPTM_HeLa_SAHA_4h_R1 1 EWNGVVSESDSPVKRPGR 18 2 M0R0Q7;P18858-2;P18858-3;P18858;B4E135;M0QY71;M0R1G7;F5GZ28 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 EWNGVVSES(0.084)DS(0.915)PVKRPGR 79.029 0.0050629 43532000 2156.8 1855.9 1680.4 2167.9 2062.6 2476 2266 2027.8 2701.4 2078.6 TRUE FALSE FALSE 2383.66212 1916.032378 1909.396161 2209.862839 1904.564034 2265.03087 2011.023716 1975.931812 2682.600737 2168.218618 1.099364289 0.883689662 0.880628985 1.019206652 0.878400369 1.044650595 0.927500437 0.911315767 1.237237202 1 11.08229451 -7.262017392 24.99999248 1.046922025 0.937944786 0.432017877 0.083518745 38.63950228 1671201.465 0.010439414 0.012323814 5.47E-08 7.262017392 -0.108977239 EWQELDDAEK ddPTM_HeLa_SAHA_4h_R1 1 EWQELDDAEK 10 0 Q13200;Q13200-2;Q13200-3 Q13200 PSMD2 26S proteasome non-ATPase regulatory subunit 2 0 0 190.57 4.80E-06 8235900 1453.8 1541.9 1736.1 1651.3 1667.1 2059.2 1931.4 1688.9 2126.8 1562.1 FALSE FALSE TRUE 1606.717354 1591.858572 1972.686667 1683.263299 1539.367158 1883.744575 1714.073789 1645.700383 2111.999426 1629.449776 0.98604902 0.976930124 1.210645886 1.03302558 0.944715929 1.15606176 1.051934103 1.009973065 1.296142696 1 10.67016917 EWSLES(ph)SPAQNWTPPQPR ddPTM_HeLa_SAHA_4h_R1 1 EWSLESSPAQNWTPPQPR 18 0 F8VWH9;Q8N6T3-5;Q8N6T3;Q8N6T3-2;E5RHT6;E5RHC5;F8W1U7;Q8N6T3-3 F8VWH9 ARFGAP1 ADP-ribosylation factor GTPase-activating protein 1 1 0 EWS(0.049)LES(0.696)S(0.033)PAQNWT(0.222)PPQPR 158.89 7.35E-06 11309000 694.52 550.05 650.09 799.02 565.16 580.85 410.5 528.24 1033.1 753.83 TRUE FALSE FALSE 767.5728002 567.8719809 738.6808797 814.4861875 521.8575629 531.3583122 364.3094596 514.7283857 1025.910573 786.3313005 0.976144279 0.722179036 0.939401597 1.035805375 0.663661185 0.67574356 0.463302757 0.654594807 1.304679812 1 9.618993473 -5.667352043 4.663555472 0.964970211 0.597527737 0.622125948 0.144998412 0.079650934 3.007886524 0.014772658 0.030032207 2.15E-06 5.667352043 -0.367442474 EWSLESSPAQNWT(ph)PPQPR ddPTM_HeLa_SAHA_4h_R1 1 EWSLESSPAQNWTPPQPR 18 0 F8VWH9;Q8N6T3-5;Q8N6T3;Q8N6T3-2;E5RHT6;E5RHC5;F8W1U7;Q8N6T3-3 F8VWH9 ARFGAP1 ADP-ribosylation factor GTPase-activating protein 1 1 0 EWS(0.001)LES(0.002)S(0.025)PAQNWT(0.971)PPQPR 106.57 0.0025922 6793800 911.63 916.26 981.45 751.15 1074.6 1006.4 891.16 1023 1053.5 974.14 TRUE FALSE FALSE 1007.519426 945.9474252 1115.196895 765.6895944 992.2643802 920.6490581 790.8843314 996.8331413 1046.168608 1016.139943 0.991516408 0.930922391 1.097483573 0.753527701 0.976503667 0.906025853 0.778322255 0.98099986 1.029551702 1 9.988883388 -6.269411526 24.99904296 0.996896262 0.88038832 0.403042341 0.078806441 466.1908486 1461879.868 0.010732543 0.016570823 5.38E-07 6.269411526 -0.116507942 EWYQETHEK ddPTM_HeLa_SAHA_4h_R1 2 EWYQETHEK 9 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 0 0 ; ; 142 0.00096874 13946200 7440.3 7023.4 6670.7 7740.2 8319.5 8064.4 7585.8 6674.8 8027.4 7301.6 FALSE FALSE TRUE 8222.904891 7250.962768 7579.748256 7890.022764 7682.061707 7377.267751 6732.225819 6504.068281 7971.53667 7616.407709 1.079630346 0.952018727 0.995186779 1.035924423 1.008620074 0.968602001 0.883910903 0.853954847 1.046626832 1 12.89489499 -4.812903851 1.380800635 1.028135739 0.838672993 0.757880791 0.032977337 0.234474474 0.708476965 0.006038673 0.046553546 1.54E-05 4.812903851 -0.189462746 EY(ph)IPGQPPLSQSSDS(ph)SPTR ddPTM_HeLa_SAHA_4h_R1 1 EYIPGQPPLSQSSDSSPTR 19 0 P07814;V9GYZ6 P07814 EPRS Bifunctional glutamate/proline--tRNA ligase;Glutamate--tRNA ligase;Proline--tRNA ligase 2 0 EY(0.688)IPGQPPLS(0.151)QS(0.152)S(0.016)DS(0.594)S(0.375)PT(0.025)R 131.61 0.0022842 12963000 1735.5 2120.7 1451.6 1698.8 2232.8 2143.9 1817.3 1709.6 2365.3 1781.6 TRUE FALSE FALSE 1918.047853 2189.412071 1649.416488 1731.682731 2061.723346 1961.227659 1612.812621 1665.870907 2348.839685 1858.413495 1.032088853 1.178108143 0.887540094 0.931807015 1.109399685 1.055323621 0.867843796 0.896394108 1.263895086 1 10.85985582 -4.756361282 24.99445267 1.020910537 0.882118897 0.243767108 0.109299616 102.7289789 505615.3156 0.010515994 0.03705988 1.75E-05 4.756361282 -0.13879164 EYAEDDNIYQQK ddPTM_HeLa_SAHA_4h_R1 2 EYAEDDNIYQQK 12 0 J3KR44;F5H6Q1;F5GYJ8;Q96FW1;F5GYN4 J3KR44 OTUB1 Ubiquitin thioesterase OTUB1 0 0 ; ; 171.62 6.81E-16 5599900 1144.76 1404.96 1146.19 1180.63 1201.16 1225.9 1207.54 1360.08 1338.29 1198.97 FALSE FALSE TRUE 1265.171109 1450.481626 1302.386804 1203.482801 1109.12738 1121.446423 1071.664421 1325.291123 1328.976731 1250.663464 1.011599959 1.159769728 1.041356721 0.962275492 0.8868312 0.896681206 0.856876731 1.059670456 1.062617378 1 10.28847792 -6.043415878 4.352378564 1.021784632 0.918309032 0.411846487 0.068531945 0.188860273 7.839679322 0.010257573 0.017837984 9.05E-07 6.043415878 -0.1034756 EYAENIGDGRS(ph)PEFR ddPTM_HeLa_SAHA_4h_R1 1 EYAENIGDGRSPEFR 15 1 A0A087WUB9;Q8WYA6-3;Q8WYA6-2;Q8WYA6-4;Q8WYA6 A0A087WUB9 CTNNBL1 Beta-catenin-like protein 1 1 0 EYAENIGDGRS(1)PEFR 65.924 0.019679 12488000 526.72 687.02 418.74 609.87 604.47 752.14 660.31 610.56 904 603.67 TRUE FALSE FALSE 582.1228263 709.2798988 475.8037065 621.6749157 558.1556392 688.0534406 586.010181 594.9427593 897.7089904 629.697168 0.924448856 1.126382545 0.755607188 0.987260142 0.886387406 1.092673551 0.930622227 0.944807742 1.425620181 1 9.298514369 -9.606807478 1.356109763 1.000428941 0.952824445 0.044612774 0.166891566 1.5109063 4.91221372 0.066683504 0.014771187 2.47E-10 9.606807478 -0.047604495 EYATEVDVDFVR ddPTM_HeLa_SAHA_4h_R1 2 EYATEVDVDFVR 12 0 C9J1E7;A0A087WYD1;A0A087WU93;A0A087WZQ6;A0A087X253;P63010-3;Q10567-4;P63010;Q10567-3;Q10567-2;Q10567;P63010-2;K7EJ01;H7C034 C9J1E7 AP1B1;AP2B1 AP-2 complex subunit beta;AP-1 complex subunit beta-1 0 0 ; ; 169.65 0.00048049 7691700 1196.89 835.65 1031.04 1383.77 1122.22 1952.67 1532.33 988.46 1559.3 1204.42 FALSE FALSE TRUE 1322.784382 862.7256083 1171.544762 1410.554869 1036.235746 1786.291531 1359.908196 963.1766245 1548.448704 1256.34844 1.052880188 0.686692943 0.932499873 1.122741768 0.824799644 1.421812192 1.082429167 0.766647686 1.232499404 1 10.29502093 EYCLS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 EYCLSPR 7 0 C9JWC4;Q8NCD3-3;Q8NCD3-2;Q8NCD3 C9JWC4 HJURP Holliday junction recognition protein 1 0 EYCLS(1)PR;EYCLS(1)PR ; 93.429 0.017851 33721000 5747.1 5444.3 4355.2 4394.7 4719.8 4849.1 5147.9 5131.7 5574.1 5455.1 TRUE FALSE FALSE 6351.606347 5620.698892 4948.703975 4479.765773 4358.169944 4435.9294 4568.644743 5000.438545 5535.309384 5690.296058 1.116217202 0.987769149 0.869674253 0.787264095 0.765895113 0.779560388 0.802883487 0.878765972 0.972762986 1 12.474288 -6.745257301 2.450520244 1.054831191 0.8008735 0.821161857 0.047393297 0.078865938 0.972545971 0.008624058 0.012263302 1.80E-07 6.745257301 -0.253957691 EYDQLY(ph)EEYTR ddPTM_HeLa_SAHA_4h_R1 2 EYDQLYEEYTR 11 0 O00459;A0A5F9ZHY3;E9PFP1 O00459 PIK3R2 Phosphatidylinositol 3-kinase regulatory subunit beta 1 0 EYDQLY(1)EEYTR;EY(0.001)DQLY(0.998)EEYTR ; 125.97 7.58E-05 1477300 845.77 1337.4 1017.67 1016.05 1305.83 1356.55 1058.05 1324.86 1486.68 1287.26 TRUE FALSE FALSE 934.7319691 1380.732638 1156.352768 1035.717117 1205.777588 1240.964308 938.9954294 1290.972 1476.334073 1342.760078 0.696127316 1.028279482 0.861176011 0.771334458 0.897984388 0.92418916 0.699302463 0.961431622 1.099477186 1 10.39098583 -9.694917832 1.580859054 0.999861488 0.83025117 0.288579488 0.110020959 0.441668606 1.992481886 0.077148024 0.01713182 2.02E-10 9.694917832 -0.169610319 EYEEEER ddPTM_HeLa_SAHA_4h_R1 2 EYEEEER 7 0 K7EQA9;K7EKQ2;Q16543;K7EIU0;K7EL68 K7EQA9 CDC37 "Hsp90 co-chaperone Cdc37;Hsp90 co-chaperone Cdc37, N-terminally processed" 0 0 ; ; 166.05 6.01E-06 6913800 4576.7 4931.1 4657.1 5509.7 5586.4 6502.6 5608.4 5298.2 6805.2 6070.6 FALSE FALSE TRUE 5058.098305 5090.870875 5291.745335 5616.348211 5158.371239 5948.541897 4977.328071 5162.679716 6757.842059 6332.333275 0.79877323 0.803948664 0.835670693 0.886931873 0.814608299 0.939391791 0.786018021 0.815288692 1.067196208 1 12.62852147 -9.324175546 0.987927781 1.002481607 0.834791318 0.703614207 0.050011575 0.268572474 0.458516003 0.032393869 0.008085365 4.74E-10 9.324175546 -0.167690289 EYELLSDELNQK ddPTM_HeLa_SAHA_4h_R1 1 EYELLSDELNQK 12 0 P33176 P33176 KIF5B Kinesin-1 heavy chain 0 0 201.48 1.40E-09 1786800 819.06 951.34 890.01 704.72 783.1 1027.4 898.8 953.36 1222.1 643.1 FALSE FALSE TRUE 905.2124888 982.1640402 1011.295928 718.3608746 723.0990472 939.85974 797.6646585 928.9744316 1213.595307 670.8271883 1.349397437 1.464108875 1.50753569 1.070858318 1.077921497 1.401045987 1.189076222 1.384819292 1.809102743 1 9.389797351 -9.231703506 1.003418808 1.002723427 1.301925094 0 0.288546571 0.461223993 0.844772562 0.095919446 0.027534775 5.87E-10 9.231703506 0.299201666 EYGS(ph)PLK ddPTM_HeLa_SAHA_4h_R1 1 EYGSPLK 7 0 P21127;A0A0D9SEN2;A0A0D9SER5;A0A0D9SEI3;P21127-6;P21127-9;P21127-2;P21127-8;P21127-3;Q9UQ88-3;Q5QPR3;Q5QPR4;Q9UQ88;Q9UQ88-2;Q9UQ88-4;P21127-10;P21127-5;P21127-12;P21127-4;Q9UQ88-5;Q9UQ88-10 P21127 CDK11B;CDK11A Cyclin-dependent kinase 11B;Cyclin-dependent kinase 11A 1 0 EYGS(1)PLK 85.67 0.023636 84485000 3468.6 4401 2868.3 4216.3 5126.3 6218.4 5366.5 4427.3 6875.3 4634.6 TRUE FALSE FALSE 3833.443263 4543.595288 3259.176987 4297.912583 4733.524001 5688.557336 4762.647296 4314.056077 6827.454228 4834.420287 0.792947869 0.939842839 0.67416087 0.889023363 0.9791296 1.176678278 0.985153754 0.892362645 1.412259138 1 12.23912719 -5.673794662 4.44124901 0.883249 1.023272602 0 0.197766436 0.252589926 9.038334309 0.017658872 0.035957841 2.12E-06 5.673794662 0.140023602 EYGS(ph)TSSIDK ddPTM_HeLa_SAHA_4h_R1 2 EYGSTSSIDK 10 0 O43166-3;O43166-2;O43166 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 EYGS(0.388)T(0.388)S(0.053)S(0.172)IDK;EYGS(0.808)T(0.186)S(0.006)SIDK ; 205.56 2.43E-10 66584000 4547.7 5228.8 4140 4992.3 5370.8 5794.1 5385.8 5242.5 6330.5 4952.7 TRUE FALSE FALSE 5026.047952 5398.216551 4704.17764 5088.933185 4959.290464 5300.410083 4779.775609 5108.404441 6286.445535 5166.235135 0.97286473 1.044903379 0.910562047 0.985037083 0.959942847 1.025971514 0.925195134 0.988806028 1.216833027 1 12.33489759 -13.52287875 0.172652393 1.101593194 0.968464233 0.063063064 0.078578459 132.8662804 1.488006878 4.560795309 0.055016254 3.00E-14 13.52287875 -0.133128961 EYGSQEGKHDYDDSS(ph)EEQSAEDSYEASPGSETQR ddPTM_HeLa_SAHA_4h_R1 1 EYGSQEGKHDYDDSSEEQSAEDSYEASPGSETQR 34 1 P98175-2;P98175;P98175-5 P98175-2 RBM10 RNA-binding protein 10 1 0 EY(0.051)GS(0.01)QEGKHDY(0.047)DDS(0.243)S(0.517)EEQS(0.132)AEDSYEASPGSETQR 72.37 1.45E-05 4960600 645.04 564.72 354.83 611.36 833.75 946.71 621.05 537.38 687.61 754.9 TRUE FALSE FALSE 712.8882667 583.0172985 403.1843845 623.1937568 769.8682551 866.044982 551.1678195 523.6345977 682.824866 787.4474334 0.905315373 0.740388849 0.512014348 0.791409979 0.977675744 1.099813074 0.699942366 0.664977211 0.867137077 1 9.621039808 -7.54463394 2.688478099 0.963577676 0.791007597 0.132663194 0.157269898 0.337471882 4.986515089 0.031248396 0.033540823 2.85E-08 7.54463394 -0.172570079 EYIPGQPPLS(ph)QSSDSSPTRNSEPAGLETPEAK ddPTM_HeLa_SAHA_4h_R1 1 EYIPGQPPLSQSSDSSPTRNSEPAGLETPEAK 32 1 P07814;V9GYZ6 P07814 EPRS Bifunctional glutamate/proline--tRNA ligase;Glutamate--tRNA ligase;Proline--tRNA ligase 1 0 EYIPGQPPLS(0.306)QS(0.104)S(0.104)DS(0.104)S(0.064)PT(0.064)RNS(0.252)EPAGLETPEAK 56.729 0.0016464 18897000 2875 1823 2113.2 1862.8 2074.2 1889.4 2262.3 2746.5 1184 1806.8 TRUE FALSE FALSE 3177.405691 1882.066396 2401.175891 1898.857188 1915.275244 1728.412491 2007.74005 2676.248507 1175.760448 1884.69999 1.685894682 0.998602645 1.274036135 1.007511645 1.016222876 0.917075662 1.065283632 1.419986481 0.623844884 1 10.88011918 EYIPGQPPLSQS(ph)SDSSPTRNSEPAGLETPEAK ddPTM_HeLa_SAHA_4h_R1 1 EYIPGQPPLSQSSDSSPTRNSEPAGLETPEAK 32 1 P07814;V9GYZ6 P07814 EPRS Bifunctional glutamate/proline--tRNA ligase;Glutamate--tRNA ligase;Proline--tRNA ligase 1 0 EY(0.001)IPGQPPLS(0.178)QS(0.211)S(0.062)DS(0.062)S(0.062)PT(0.211)RNS(0.211)EPAGLET(0.002)PEAK 47.537 0.0070545 14884000 1785 1265.4 1904.1 1668.4 1928.5 1909 2036.3 1661.7 1106.6 1667.6 TRUE FALSE FALSE 1972.75449 1306.39979 2163.580832 1700.694295 1780.738747 1746.34246 1807.170165 1619.19612 1098.899081 1739.498397 1.134093882 0.75102098 1.243795818 0.977692361 1.023708185 1.003934504 1.038903035 0.930840823 0.63173331 1 10.76445563 -2.270546096 0.572306389 1.048097894 6.07E-11 0 0.177919899 68.99403324 2.431802255 0.02081455 78.13412113 0.005363569 2.270546096 -1.048097894 EYIPGQPPLSQSSDS(ph)SPTR ddPTM_HeLa_SAHA_4h_R1 2 EYIPGQPPLSQSSDSSPTR 19 0 P07814;V9GYZ6 P07814 EPRS Bifunctional glutamate/proline--tRNA ligase;Glutamate--tRNA ligase;Proline--tRNA ligase 1 0 EY(0.001)IPGQPPLS(0.056)QS(0.106)S(0.106)DS(0.332)S(0.332)PT(0.066)R;EYIPGQPPLSQS(0.005)S(0.005)DS(0.841)S(0.135)PT(0.014)R ; 144.74 9.74E-05 778276000 3428.36 4371.77 3497.16 4138.23 4266.4 4916.53 4046.56 4503.27 5293.46 3857.34 TRUE FALSE FALSE 3788.970635 4513.418216 3973.734752 4218.331426 3939.509354 4497.613984 3591.230419 4388.082874 5256.622381 4023.648805 0.941675285 1.121722704 0.987594829 1.048384596 0.979088769 1.117794868 0.892530783 1.090573031 1.306431708 1 11.97428867 EYIPGQPPLSQSSDSS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 2 EYIPGQPPLSQSSDSSPTR 19 0 P07814;V9GYZ6 P07814 EPRS Bifunctional glutamate/proline--tRNA ligase;Glutamate--tRNA ligase;Proline--tRNA ligase 1 0 EYIPGQPPLS(0.003)QS(0.009)S(0.106)DS(0.358)S(0.468)PT(0.056)R;EYIPGQPPLSQSS(0.009)DS(0.229)S(0.758)PT(0.004)R ; 220.89 8.27E-26 792066000 5857.1 6672.7 4771.1 5531.1 6942.8 7537.7 6799.8 5743 7830 6382.4 TRUE FALSE FALSE 6473.176651 6888.899858 5421.280661 5638.162439 6410.844164 6895.445554 6034.668608 5596.102376 7775.510392 6657.576499 0.972302256 1.034745881 0.814302421 0.846879107 0.962939617 1.035729076 0.90643624 0.840561483 1.167919046 1 12.70078139 -6.785229171 24.99975402 0.990141953 0.907842119 0.344781069 0.083901912 232.6872286 244520.9986 0.01058967 0.013921692 1.64E-07 6.785229171 -0.082299833 EYPS(ph)PPPSPLR ddPTM_HeLa_SAHA_4h_R1 1 EYPSPPPSPLR 11 0 Q9HCD6;Q9HCD6-2 Q9HCD6 TANC2 Protein TANC2 1 0 EYPS(0.995)PPPS(0.005)PLR 134.38 0.0011455 9096600 2030.1 2632.8 1736.3 2116.3 2584.6 2758 2587 2055.3 2669.7 2093.3 TRUE FALSE FALSE 2243.635232 2718.104447 1972.913922 2157.264047 2386.568506 2523.002884 2295.903951 2002.728402 2651.12134 2183.552407 1.02751609 1.244808432 0.903534037 0.987960737 1.092975144 1.155457902 1.05145356 0.917188154 1.214132224 1 11.09246144 -7.509960767 18.74813323 1.012138405 1.054422555 0 0.116153641 14.73409822 21390.13497 0.016782889 0.017976881 3.09E-08 7.509960767 0.04228415 EYQDLLNVK ddPTM_HeLa_SAHA_4h_R1 3 EYQDLLNVK 9 0 P08670;B0YJC4;B0YJC5;P17661;E7EMV2;E7ESP9;Q16352;P07196;P07197-2;P07197;P12036-2;P12036 P08670;P12036-2 VIM;DES;NEFM;INA;NEFL;NEFH Vimentin;Desmin;Alpha-internexin;Neurofilament light polypeptide;Neurofilament medium polypeptide;Neurofilament heavy polypeptide 0 0 ;; ;; 153.05 1.65E-05 49913200 5234.77 5240.77 5685.71 5582.15 6086.19 5646.28 7169.76 5606.22 5078.96 5505.34 FALSE FALSE TRUE 5785.387127 5410.574387 6460.528949 5690.200585 5619.867437 5165.185179 6362.999735 5462.82101 5043.615104 5742.70215 1.007432908 0.942165246 1.12499809 0.99085769 0.978610294 0.899434629 1.108014933 0.951263163 0.878265139 1 12.48751402 -4.729458744 24.99952738 0.999618124 1.029638727 0.008346057 0.075265617 593.8111171 464178.0765 0.008089067 0.030262225 1.86E-05 4.729458744 0.030020602 EYTINIHK ddPTM_HeLa_SAHA_4h_R1 2 EYTINIHK 8 0 B8ZZK4;H7C2W9;C9JU56;B7Z4E3;B7Z4C8;P62899-3;P62899;P62899-2 B8ZZK4 RPL31 60S ribosomal protein L31 0 0 ; ; 132.08 0.00017918 9456400 6899 7993 6136.5 7741.3 8892.6 9001.6 8890 7322.1 11000.4 8196.7 FALSE FALSE TRUE 7624.668474 8251.978444 6972.750262 7891.144056 8211.250909 8234.613038 7889.673803 7134.811284 10923.84732 8550.099851 0.891763676 0.965132406 0.815516823 0.922930047 0.960369008 0.963101389 0.922758089 0.834471107 1.277628041 1 13.06172555 -9.350861458 0.924239711 1.003493159 0.911062393 0.297403971 0.101405834 0.609860582 0.874787177 0.039896396 0.008967294 4.46E-10 9.350861458 -0.092430766 EYTINIHK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 EYTINIHKR 9 1 B8ZZK4;H7C2W9;C9JU56;B7Z4E3;B7Z4C8;P62899-3;P62899;P62899-2 B8ZZK4 RPL31 60S ribosomal protein L31 0 1 EYTINIHK(1)R 91.265 0.0066004 3034100 1194 2340.5 1591.3 1607.5 2551.2 2235.3 2558.1 1628.6 1797.9 1069.1 FALSE TRUE FALSE 1319.590398 2416.333736 1808.154077 1638.615487 2355.727607 2044.839865 2270.255855 1586.94277 1785.388268 1115.194133 1.183283125 2.166738206 1.62138055 1.469354472 2.112392396 1.833617846 2.035749461 1.423019296 1.600966338 1 10.12307916 -7.389604974 5.828763259 1.080021426 1.808708608 0.387263261 0.291919268 0.097460982 4.227881079 0.040152104 0.045674349 4.08E-08 7.389604974 0.728687182 EYTINIHKR ddPTM_HeLa_SAHA_4h_R1 2 EYTINIHKR 9 1 B8ZZK4;H7C2W9;C9JU56;B7Z4E3;B7Z4C8;P62899-3;P62899;P62899-2 B8ZZK4 RPL31 60S ribosomal protein L31 0 0 ; ; 103.74 0.0012723 20605100 26011.2 18859.2 25671.5 25918.5 24604.3 24605.4 28084.3 19528.3 19518.5 24991.4 FALSE FALSE TRUE 28747.17736 19470.25045 29169.87833 26420.19005 22719.12385 22508.88149 24924.18065 19028.79436 19382.66917 26068.90156 1.102738345 0.746876519 1.118953104 1.013475385 0.871502921 0.863438049 0.95608864 0.729942315 0.743516911 1 14.67004217 -2.562039779 0.334249827 1.042326299 9.54E-14 0 0.142341787 15.23287485 0.49479888 0.035023799 8.179744082 0.002741323 2.562039779 -1.042326299 EYVEPELHINDLWR ddPTM_HeLa_SAHA_4h_R1 2 EYVEPELHINDLWR 14 0 Q7KZ85;Q7KZ85-3 Q7KZ85 SUPT6H Transcription elongation factor SPT6 0 0 ; ; 145.61 0.00012443 5092000 2533.6 2540.5 2985.3 2759.6 3337.9 3255 3147.4 1790.15 2883.6 2683.4 FALSE FALSE TRUE 2800.095673 2622.813867 3392.121137 2813.016048 3082.150823 2977.655688 2793.246268 1744.360555 2863.532793 2799.094506 1.000357675 0.937022262 1.21186374 1.004973588 1.101124244 1.06379248 0.997910668 0.623187446 1.023021119 1 11.45074448 -4.262969657 4.851272975 1.022045966 0.602119034 0.744505259 0.072470321 0.067123735 4.602446876 0.009850749 0.094553188 5.46E-05 4.262969657 -0.419926932 EYVSNDAAQS(ph)DDEEKLQSQPTDTDGGR ddPTM_HeLa_SAHA_4h_R1 4 EYVSNDAAQSDDEEKLQSQPTDTDGGR 27 1 Q5JSH3-2;Q5JSH3;Q5JSH3-4;H7BY83 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 EYVSNDAAQS(0.957)DDEEKLQS(0.042)QPTDTDGGR;EY(0.002)VS(0.021)NDAAQS(0.696)DDEEKLQS(0.249)QPT(0.023)DT(0.009)DGGR;EY(0.002)VS(0.013)NDAAQS(0.962)DDEEKLQS(0.023)QPT(0.001)DTDGGR;EYVSNDAAQS(0.999)DDEEKLQSQPTDTDGGR ;;; 119.18 3.49E-08 115734300 3210.11 3480.97 3189.98 3847.96 3801.2 4683.19 4273.91 4192.22 4602 3984.47 TRUE FALSE FALSE 3547.764098 3593.755712 3624.693862 3922.44283 3509.952877 4284.155865 3792.998398 4084.989083 4569.974307 4156.260001 0.853595323 0.864660948 0.872104695 0.943743372 0.844497908 1.030771863 0.912598922 0.982852151 1.099540045 1 12.02107019 -4.255482516 22.95144259 0.922093795 0.982852232 0.004898159 0.081508854 513.6174903 1978740.718 0.009631672 0.111987456 5.55E-05 4.255482516 0.060758436 EYWMDPEGEMKPGR ddPTM_HeLa_SAHA_4h_R1 4 EYWMDPEGEMKPGR 14 1 P53999 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 0 0 ;;; ;;; 138.02 0.00042313 51254700 10903.55 11638.08 10906.91 12404.9 11765.84 14989.1 12780.2 11054.87 14891.9 11818.6 FALSE FALSE TRUE 12050.43542 12015.16143 12393.24689 12645.01478 10864.34388 13711.94435 11342.13826 10772.10243 14788.26606 12328.15768 0.977472525 0.974611271 1.005279719 1.025701901 0.881262566 1.112246023 0.920018915 0.87378039 1.199551988 1 13.5896696 -4.535473124 24.97396105 0.991567767 0.885339952 0.204920251 0.084871666 131.7943122 261341.311 0.006443291 0.024140969 2.91E-05 4.535473124 -0.106227815 EYWNDPELDEGER ddPTM_HeLa_SAHA_4h_R1 2 EYWNDPELDEGER 13 0 A0A494C108;Q8N9T8;H0YFD2;F8WFC1 A0A494C108 KRI1 Protein KRI1 homolog 0 0 ; ; 195.77 3.27E-07 5810600 924.67 1021.07 781.58 897.15 1044.49 885.27 1113.26 851.19 1137.2 980.3 FALSE FALSE TRUE 1021.931033 1054.153338 888.0896521 914.5156356 964.4614019 809.8400156 987.9930549 829.4177923 1129.286133 1022.56553 0.999379504 1.030890742 0.868491677 0.894334503 0.943178088 0.791968819 0.966190455 0.811114562 1.104365538 1 9.997977585 -6.757178862 24.99943933 1.002037585 0.882795724 0.598695967 0.059700015 51.6798836 303240.6286 0.006996252 0.009691789 1.75E-07 6.757178862 -0.119241861 FAAATGATPIAGR ddPTM_HeLa_SAHA_4h_R1 1 FAAATGATPIAGR 13 0 C9J9K3;A0A0C4DG17;P08865;F8WD59 C9J9K3 RPSA 40S ribosomal protein SA 0 0 140.78 0.0022012 9066100 1237 969.8 812.73 1092.2 1202.7 1239.5 1028 1064.8 1154.3 885.26 FALSE FALSE TRUE 1367.113336 1001.222156 923.4846119 1113.34111 1110.549386 1133.887627 912.3267345 1037.563958 1146.267132 923.427891 1.480476547 1.08424509 1.000061424 1.205661126 1.202637907 1.227911392 0.987978318 1.123600411 1.241317426 1 9.850855498 FADLSEAANR ddPTM_HeLa_SAHA_4h_R1 4 FADLSEAANR 10 0 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 ;;; ;;; 213.85 1.75E-14 93041000 7955.2 8557.9 8166.1 8799 9729.3 7971.1 10630 8362.5 6728.1 7017.1 FALSE FALSE TRUE 8791.964436 8835.181575 9278.933581 8969.317369 8983.843136 7291.917436 9433.884423 8148.599359 6681.278604 7319.641522 1.201146861 1.207051131 1.267675958 1.22537659 1.227361082 0.996212371 1.288845143 1.113251152 0.91278768 1 12.83755728 -9.119891965 0.827906105 0.99682147 1.193118018 0.530457626 0.085054356 0.448164386 0.543308659 0.054796121 0.015090607 7.59E-10 9.119891965 0.196296548 FADLSEAANRNNDALR ddPTM_HeLa_SAHA_4h_R1 1 FADLSEAANRNNDALR 16 1 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 81.185 0.018384 4729900 1324.7 431.45 1149.7 798 858.98 599.11 903.53 765.72 337.07 610.47 FALSE FALSE TRUE 1464.038024 445.4292631 1306.375129 813.4464439 793.165138 548.0624575 801.8624264 746.1339911 334.7243024 636.7903493 2.299089529 0.699491228 2.051499571 1.277416413 1.245567146 0.860663887 1.259225155 1.171710583 0.525642863 1 9.314674661 -6.016028697 21.52370404 1.579673742 1.140897699 0 0.553745446 189.2688686 254158.0401 0.083123681 0.140857709 9.64E-07 6.016028697 -0.438776044 FAGDK(ac)GYLTK ddPTM_HeLa_SAHA_4h_R1 1 FAGDKGYLTK 10 1 P60903 P60903 S100A10 Protein S100-A10 0 1 FAGDK(1)GYLTK 90.685 0.0098503 0 843.93 1946.8 1458.3 1131.6 1867.7 1210.8 1662.2 1165.2 863.53 826.56 FALSE TRUE FALSE 932.6984295 2009.877597 1657.02953 1153.503754 1724.597229 1107.633028 1475.164881 1135.395871 857.5206244 862.1970467 1.081769455 2.33111167 1.921868714 1.337865583 2.000235603 1.284663445 1.710937061 1.316863559 0.994576156 1 9.751873811 -7.476429575 24.21819405 1.036074476 1.692110548 0.491407477 0.314919539 167.1950829 87174.70134 0.05163196 0.058809441 3.34E-08 7.476429575 0.656036072 FAGLHFFNPVPVMK ddPTM_HeLa_SAHA_4h_R1 3 FAGLHFFNPVPVMK 14 0 A0A1W2PQC2;A0A1W2PRT2;A0A1W2PQV5;A0A1W2PNM1;A0A0A0MSE2;A0A0D9SFP2;E9PF18;Q16836;Q16836-3;Q16836-2 A0A1W2PQC2 HADH "Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial" 0 0 ;; ;; 165.63 5.39E-08 4073290 1795.79 2170.96 2393.48 1911.75 2785.38 1449.8 2907.62 805.27 1322.49 2434.29 FALSE FALSE TRUE 1984.679432 2241.300528 2719.65099 1948.754686 2571.964786 1326.268884 2580.446945 784.6723594 1313.286684 2539.244155 0.781602442 0.882664443 1.071047455 0.767454631 1.012885973 0.522308531 1.0162264 0.309018082 0.517195907 1 11.31018341 -4.253325201 24.65187817 0.885716122 0.309017736 0.388495925 0.193215067 469.8469553 1427413.31 0.020551678 0.302784806 5.58E-05 4.253325201 -0.576698386 FAIQDIS(ph)VEETSAK ddPTM_HeLa_SAHA_4h_R1 4 FAIQDISVEETSAK 14 0 O43707;G3V2E8;P12814-4;P12814-3;P12814;P12814-2;H9KV75;G3V2N5;G3V2W4;P35609-2;P35609;A0A494C1A0;Q08043;A0A087WSZ2;G3V5M4;G3V2X9;A0A494C166;A0A494C033 O43707;P12814-4 ACTN4;ACTN1;ACTN2;ACTN3 Alpha-actinin-4;Alpha-actinin-1;Alpha-actinin-2;Alpha-actinin-3 1 0 FAIQDIS(0.904)VEET(0.076)S(0.02)AK;FAIQDIS(0.999)VEET(0.001)SAK;FAIQDIS(0.795)VEET(0.203)S(0.002)AK;FAIQDIS(0.994)VEET(0.005)SAK ;;; 207.66 1.88E-12 86295200 7951.6 11852.8 11623.4 9552.4 12979.1 11166.3 11393.4 6433.2 10083.4 9174.2 TRUE FALSE FALSE 8787.985771 12236.8385 13207.37642 9737.300515 11984.64416 10214.86842 10111.38465 6268.648059 10013.2288 9569.744659 0.918309326 1.278700627 1.380117954 1.017508916 1.252347329 1.06741285 1.05659921 0.655048623 1.046342317 1 13.22426472 -3.039480194 13.91480536 1.026652039 1.041235705 0 0.198235255 0 0 0.027043742 0 0.000913103 3.039480194 0.014583666 FAMEPEEFDSDTLR ddPTM_HeLa_SAHA_4h_R1 1 FAMEPEEFDSDTLR 14 0 A0A499FI48;P13667 A0A499FI48 PDIA4 Protein disulfide-isomerase A4 0 0 174.23 8.73E-06 6070000 646.85 500.3 494.38 665.43 648.2 648.28 579.85 702.31 736.62 651.91 FALSE FALSE TRUE 714.8886509 516.5100483 561.7515318 678.3103599 598.535056 593.0428969 514.6037519 684.3459271 731.4938014 680.0170305 1.05128051 0.759554577 0.826084505 0.997490253 0.880176568 0.872100066 0.756751271 1.006365865 1.075699238 1 9.409427068 -7.282718703 24.88146871 1.024215802 0.870314302 0.478714955 0.081162933 486.4411746 568784.1435 0.013156225 0.015051999 5.22E-08 7.282718703 -0.1539015 FANLT(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 FANLTPSR 8 0 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;X6RGP5;A0A0C4DH09;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 FANLT(0.999)PS(0.001)R 109.83 0.011372 18428000 1944.8 2106.8 1836.3 2472.2 2613.6 2565.2 2389.9 1869.8 1394 1911.4 TRUE FALSE FALSE 2149.362987 2175.061702 2086.541401 2520.053006 2413.346533 2346.630529 2120.982162 1821.973223 1384.299041 1993.809808 1.078018063 1.090907314 1.046509749 1.263938514 1.210419631 1.176958062 1.063783593 0.913814957 0.694298441 1 10.96131208 -8.107087773 0.705908912 1.009394811 1.120094163 0.223789888 0.135833722 0.804552601 0.885067153 0.037930354 0.024413706 7.81E-09 8.107087773 0.110699351 FANYIDK ddPTM_HeLa_SAHA_4h_R1 2 FANYIDK 7 0 P08670;B0YJC4;A0A1B0GTT5 P08670 VIM Vimentin 0 0 ; ; 113.5 0.0078287 6607300 4045.5 4233 4390.2 4812.7 5636.9 4098.6 5493.7 3882.5 3079.3 3861.6 FALSE FALSE TRUE 4471.024251 4370.151977 4988.473593 4905.856768 5205.00194 3749.376222 4875.534417 3783.191272 3057.870901 4028.092474 1.109960677 1.084918483 1.238420822 1.217910661 1.292175384 0.930806888 1.210382941 0.939201693 0.759136221 1 11.97588109 -8.594245754 0.760539015 1.006393735 1.136760895 0.247862424 0.139427457 0.823741993 0.966547807 0.054708224 0.02440947 2.55E-09 8.594245754 0.130367161 FANYIDK(ac)VR ddPTM_HeLa_SAHA_4h_R1 2 FANYIDKVR 9 1 P08670;B0YJC4;A0A1B0GTT5 P08670 VIM Vimentin 0 1 ; FANYIDK(1)VR;FANYIDK(1)VR 109.44 0.0050965 3335300 1166.76 2214.1 2173.13 1836.07 2394.4 1321.16 2949.5 1781.18 796.51 871.13 FALSE TRUE FALSE 1289.48517 2285.838293 2469.272839 1871.60979 2210.941589 1208.589735 2617.614497 1735.619995 790.9670221 908.6886775 1.419061558 2.515535132 2.717402451 2.059682085 2.43311229 1.33003719 2.880650505 1.910027095 0.870448858 1 9.827642292 -7.412517939 3.623450722 1.174800016 2.266070244 0.6071318 0.431659035 0.120420172 2.78272995 0.072453633 0.081616354 3.87E-08 7.412517939 1.091270228 FAPS(ph)APSPHHISPRR ddPTM_HeLa_SAHA_4h_R1 1 FAPSAPSPHHISPRR 15 1 Q8NEA6;Q8NEA6-2 Q8NEA6 GLIS3 Zinc finger protein GLIS3 1 0 FAPS(1)APSPHHISPRR 90.259 0.0041165 6532100 1931 1589.5 1485.2 1552.9 1875.1 2107 2136.2 1877.5 1324.3 2189.8 TRUE FALSE FALSE 2134.11144 1641.000843 1687.595321 1582.958625 1731.430243 1927.471746 1895.829154 1829.476269 1315.084088 2284.212995 0.934287409 0.718409731 0.738808213 0.692999571 0.757998596 0.843823125 0.829970392 0.800921925 0.575727435 1 11.15748147 -7.38682818 4.203231604 0.971967365 0.769997053 0 0.133429193 0.082523031 2.385512301 0.009475938 0.010745659 4.10E-08 7.38682818 -0.201970311 AGGK(ac)AGK(ac)DSGK ddPTM_HeLa_SAHA_4h_R1 3 AGGKAGKDSGK 11 2 P0C0S5;A0A494C189;Q71UI9;C9J0D1;Q71UI9-3;Q71UI9-2;C9J386;Q71UI9-5 P0C0S5;Q71UI9 H2AFZ;H2AFV Histone H2A.Z;Histone H2A.V;Histone H2A 0 2 ;; AGGK(1)AGK(1)DSGK;AGGK(1)AGK(1)DSGK;AGGK(1)AGK(1)DSGK 180.66 3.08E-15 46200200 1670.11 2147.67 4033.29 12026.8 10484.7 14427.9 14503.4 13143.8 1206.38 1325.52 FALSE TRUE FALSE 1845.779833 2217.255917 4582.925757 12259.59611 9681.364551 13198.56175 12871.43926 12807.60063 1197.984703 1382.669654 1.334939135 1.603604961 3.314548593 8.866612548 7.001936089 9.545708703 9.309121107 9.262950546 0.866428723 1 10.4332408 -6.377529195 2.098551028 1.169418755 8.926669024 0.961537822 0.725410555 0.039085034 0.337086819 0.111274786 0.18414019 4.19E-07 6.377529195 7.757250269 up FAQSAPGS(ph)PLSSQPVLITVQR ddPTM_HeLa_SAHA_4h_R1 2 FAQSAPGSPLSSQPVLITVQR 21 0 Q01167-2;Q01167 Q01167-2 FOXK2 Forkhead box protein K2 1 0 FAQS(0.001)APGS(0.997)PLS(0.002)SQPVLITVQR;FAQSAPGS(0.961)PLS(0.03)S(0.009)QPVLITVQR ; 265.96 1.95E-65 33228000 4040.1 4657.4 3848 3780.4 4041.1 4635.4 4292.7 3042.6 3920.9 4266.2 TRUE FALSE FALSE 4465.056255 4808.302816 4372.3854 3853.575109 3731.471791 4240.437842 3809.674098 2964.774698 3893.614138 4450.13676 1.003352592 1.080484281 0.982528321 0.865945322 0.838507217 0.952878096 0.856080229 0.66622103 0.87494258 1 12.11963396 -6.253759511 3.355166813 1.008491822 0.840658999 0.461505977 0.081566901 0.1356961 3.219799575 0.010597 0.017525894 5.57E-07 6.253759511 -0.167832823 FARS(ph)DDEQSSADKER ddPTM_HeLa_SAHA_4h_R1 2 FARSDDEQSSADKER 15 2 A6NGV6;P27540-3;P27540-4;P27540 A6NGV6 ARNT Aryl hydrocarbon receptor nuclear translocator 1 0 FARS(1)DDEQSSADKER;FARS(1)DDEQSSADKER ; 89.374 0.0060411 8208700 1223.5 1219.48 1576.93 1201.51 1836.5 1696.74 1812.62 1815.18 1334.16 1423.38 TRUE FALSE FALSE 1352.193344 1258.991952 1791.825808 1224.766963 1695.787767 1552.168206 1608.659227 1768.750324 1324.875472 1484.748878 0.910721917 0.847949422 1.206820786 0.824898393 1.142137766 1.0454079 1.083455426 1.191279112 0.892322932 1 10.53600323 -4.717306983 0.591528905 0.9562961 1.240582771 0.326330441 0.11006785 2.056161112 0.670858386 0.019405787 0.358044968 1.92E-05 4.717306983 0.284286671 FAS(ph)DDEHDEHDENGATGPVK ddPTM_HeLa_SAHA_4h_R1 4 FASDDEHDEHDENGATGPVK 20 0 P05455 P05455 SSB Lupus La protein 1 0 FAS(1)DDEHDEHDENGATGPVK;FAS(1)DDEHDEHDENGATGPVK;FAS(1)DDEHDEHDENGATGPVK;FAS(1)DDEHDEHDENGATGPVK ;;; 114.66 0.00025425 210000000 15218.4 19296.9 13357.3 17904 20042.2 14737.3 18431.1 17023.6 27717.7 17582.2 TRUE FALSE FALSE 16819.14114 19922.13222 15177.56328 18250.55781 18506.57097 13481.59913 16357.18412 16588.16096 27524.81027 18340.25469 0.917061482 1.086251667 0.827554663 0.995109289 1.009068373 0.735082438 0.891873335 0.904467318 1.500786698 1 14.16272605 -5.285339527 24.97343776 0.964807198 0.848614227 0.101641331 0.185778604 623.2022929 651187.5809 0.010458516 0.023397229 5.18E-06 5.285339527 -0.116192971 FAS(ph)DDEHDEHDENGATGPVKR ddPTM_HeLa_SAHA_4h_R1 10 FASDDEHDEHDENGATGPVKR 21 1 P05455 P05455 SSB Lupus La protein 1 0 FAS(1)DDEHDEHDENGATGPVKR;FAS(1)DDEHDEHDENGATGPVKR;FAS(1)DDEHDEHDENGATGPVKR;FAS(1)DDEHDEHDENGATGPVKR;FAS(1)DDEHDEHDENGATGPVKR;FAS(1)DDEHDEHDENGATGPVKR;FAS(1)DDEHDEHDENGATGPVKR;FAS(1)DDEHDEHDENGATGPVKR;FAS(1)DDEHDEHDENGATGPVKR;FAS(1)DDEHDEHDENGATGPVKR ;;;;;;;;; 153.25 1.44E-06 1538349400 21605.2 23819.1 20405.4 22282.05 24074.2 17159.14 24527.8 23385.1 24408 24341.9 TRUE FALSE FALSE 23877.73406 24590.85447 23186.14165 22713.3513 22229.64 15697.08474 21767.86739 22786.943 24238.14274 25391.39844 0.940386727 0.968471844 0.913149455 0.894529356 0.875479153 0.618204814 0.857292971 0.897427649 0.954580852 1 14.63205223 -6.043308505 1.395359829 0.97023611 0.798374005 0.472497329 0.07288098 0.250819784 0.967188844 0.011923683 0.025326065 9.05E-07 6.043308505 -0.171862104 FAS(ph)ENDLPEWK ddPTM_HeLa_SAHA_4h_R1 2 FASENDLPEWK 11 0 P43487-2;P43487;C9JJ34;F6WQW2;C9JDM3;C9JIC6;C9JXG8;C9JGV6 P43487-2 RANBP1 Ran-specific GTPase-activating protein 1 0 FAS(1)ENDLPEWK;FAS(1)ENDLPEWK ; 164.92 0.00015667 51842000 3062.4 4963.8 3648.9 2777.19 5254.1 5462.4 7554.9 4786.2 5874.1 4206.7 TRUE FALSE FALSE 3384.517283 5124.630377 4146.153089 2830.946528 4851.531993 4996.972789 6704.802769 4663.775934 5833.22166 4388.071424 0.771299497 1.167854823 0.944869098 0.645145955 1.105618283 1.138762866 1.527961175 1.062830452 1.329336079 1 12.09937129 -5.339889591 2.590831839 0.901878662 1.286856457 0.170515531 0.21988485 0.186769448 2.43103829 0.025147095 0.066668669 4.57E-06 5.339889591 0.384977795 FATASADGQIYIYDGK ddPTM_HeLa_SAHA_4h_R1 1 FATASADGQIYIYDGK 16 0 O75083;O75083-3;D6RD66 O75083 WDR1 WD repeat-containing protein 1 0 0 179.5 1.60E-08 7487700 621.22 746.44 761.77 623.39 533.74 770.75 784.99 689.89 706.35 500.99 FALSE FALSE TRUE 686.5627699 770.6251458 865.5800485 635.4566149 492.8449565 705.0777639 696.6608592 672.2436127 701.4344528 522.5901307 1.313769108 1.47462629 1.656326818 1.215975154 0.943081255 1.349198392 1.333092262 1.286368749 1.34222675 1 9.029536069 -8.972081888 0.924989782 1.011336019 1.318955981 0 0.19934054 0.530673894 0.866304902 0.099450884 0.035935612 1.07E-09 8.972081888 0.307619961 FATEAAITILR ddPTM_HeLa_SAHA_4h_R1 1 FATEAAITILR 11 0 P17987;E7EQR6;F5H282 P17987 TCP1 T-complex protein 1 subunit alpha 0 0 125.71 0.0022254 585410 0 0 178.26 164.65 135.78 0 0 167.83 0 116.68 FALSE FALSE TRUE 0 0 202.5523445 167.8370388 125.3765657 0 0 163.5371516 0 121.7106458 0 0 1.664212223 1.378984046 1.030119961 0 0 1.343655278 0 1 6.927311553 FAVGIVIGR ddPTM_HeLa_SAHA_4h_R1 2 FAVGIVIGR 9 0 Q96AE4;E9PEB5;Q96AE4-2;Q96I24;Q96I24-2 Q96AE4;Q96I24 FUBP1;FUBP3 Far upstream element-binding protein 1;Far upstream element-binding protein 3 0 0 ; ; 148.21 0.00014341 2991200 987.96 1090.82 1340.67 1336.79 1191.56 1496.43 1819.88 1037.41 1449.83 1391.34 FALSE FALSE TRUE 1091.878166 1126.163284 1523.369526 1362.665503 1100.26293 1368.925745 1615.102313 1010.874554 1439.740515 1451.327476 0.752330665 0.775953947 1.049638728 0.93890974 0.758107972 0.943223199 1.112844853 0.696517203 0.992016301 1 10.50315737 -6.790515719 24.99693829 0.871745393 0.920491662 0.014981031 0.136168262 785.7964446 675546.5289 0.023494622 0.030880856 1.62E-07 6.790515719 0.048746268 FCDS(ph)PTSDLEMR ddPTM_HeLa_SAHA_4h_R1 1 FCDSPTSDLEMR 12 0 O15014 O15014 ZNF609 Zinc finger protein 609 1 0 FCDS(0.492)PT(0.492)S(0.015)DLEMR 92.792 0.019121 6419900 1530.3 1610 1319.9 1490.5 1624.3 1209.4 1643.6 1441.8 1658.8 1572.2 TRUE FALSE FALSE 1691.263975 1662.165056 1499.769098 1519.350783 1499.846485 1106.352316 1458.657802 1404.920844 1647.256276 1639.985236 1.031267805 1.013524402 0.914501585 0.926441744 0.914548773 0.674611144 0.889433496 0.856666763 1.004433601 1 10.67946711 -6.118549941 1.110391088 1.015028995 0.819602869 0.62317106 0.061341643 0.2159156 0.525453696 0.010199488 0.022742135 7.61E-07 6.118549941 -0.195426127 FCDSPT(ph)SDLEMR ddPTM_HeLa_SAHA_4h_R1 1 FCDSPTSDLEMR 12 0 O15014 O15014 ZNF609 Zinc finger protein 609 1 0 FCDS(0.333)PT(0.615)S(0.052)DLEMR 198.37 5.38E-10 16397000 2922.7 2592 2390.5 2712.2 2648.9 2262.2 3026.1 2538.7 3201.3 2631.3 TRUE FALSE FALSE 3230.122996 2675.982501 2716.264891 2764.698553 2445.941854 2069.447833 2685.595264 2473.76373 3179.021893 2744.74822 1.176837632 0.974946438 0.989622608 1.007268547 0.891135236 0.753966363 0.978448677 0.90127164 1.158219858 1 11.4224581 -6.283545279 1.198242113 1.078874994 0.882108148 0.549467335 0.078523013 0.29796804 0.844479991 0.015536345 0.03040383 5.21E-07 6.283545279 -0.196766846 FCDSPTS(ph)DLEMR ddPTM_HeLa_SAHA_4h_R1 2 FCDSPTSDLEMR 12 0 O15014 O15014 ZNF609 Zinc finger protein 609 1 0 FCDS(0.191)PT(0.191)S(0.618)DLEMR;FCDS(0.183)PT(0.183)S(0.634)DLEMR ; 184.98 1.04E-06 7428600 2572.4 2957.6 2408.2 2307.6 2735.4 2071.87 2535.6 2525.4 2944.3 2847.8 TRUE FALSE FALSE 2842.976835 3053.428181 2736.376955 2352.266935 2525.814243 1895.33502 2250.287615 2460.803925 2923.810377 2970.582595 0.957043524 1.027888666 0.921158348 0.791853739 0.850275716 0.638034783 0.757524002 0.828391013 0.984254867 1 11.53653019 -6.243807831 1.740721062 0.983529723 0.756260736 0.778180049 0.055616117 0.11910927 0.704315055 0.008799407 0.015902277 5.70E-07 6.243807831 -0.227268987 FCFTPHTEEGCLSER ddPTM_HeLa_SAHA_4h_R1 2 FCFTPHTEEGCLSER 15 0 A0A0U1RQF0;P49327 A0A0U1RQF0 FASN Fatty acid synthase;[Acyl-carrier-protein] S-acetyltransferase;[Acyl-carrier-protein] S-malonyltransferase;3-oxoacyl-[acyl-carrier-protein] synthase;3-oxoacyl-[acyl-carrier-protein] reductase;3-hydroxyacyl-[acyl-carrier-protein] dehydratase;Enoyl-[acyl-carrier-protein] reductase;Oleoyl-[acyl-carrier-protein] hydrolase 0 0 ; ; 106.55 0.0029632 13259100 4158.3 3490.4 3655.8 3928.7 4369 5289.4 4490.7 4285.4 4425.1 3859.7 FALSE FALSE TRUE 4595.689073 3603.49125 4153.993385 4004.745669 4034.248164 4838.713363 3985.394617 4175.785673 4394.305369 4026.110556 1.141471157 0.895030377 1.031763368 0.994693418 1.002021208 1.201833207 0.989887029 1.037176107 1.091451739 1 11.97517107 -9.931632746 2.183686742 0.99935993 1.057099726 0 0.086483178 0.859108667 7.426755762 0.068033772 0.012883801 1.17E-10 9.931632746 0.057739796 FCGLMVQLLHK ddPTM_HeLa_SAHA_4h_R1 1 FCGLMVQLLHK 11 0 A0A087WVM7;V9GYP5;A0A087WWQ2;Q92979 A0A087WVM7 EMG1 Ribosomal RNA small subunit methyltransferase NEP1 0 0 129.38 0.00028353 538590 279.84 455.17 942.5 926.36 862.83 0 915.91 0 0 243.7 FALSE FALSE TRUE 309.2748552 469.9178066 1070.938992 944.2910373 796.7201518 0 812.8493963 0 0 254.2070996 1.216625561 1.848562874 4.212860275 3.714652497 3.134138082 0 3.197587311 0 0 1 7.989860513 -4.209488619 22.88857828 1.702214555 0.000133031 0.114077132 1.455513037 37232.92067 16402779.81 0.204704467 269.520387 6.17E-05 4.209488619 -1.702081524 FCGVNETENEDNTNRDS(ph)PIFDYSPR ddPTM_HeLa_SAHA_4h_R1 1 FCGVNETENEDNTNRDSPIFDYSPR 25 1 Q03001;F8W9J4;Q03001-9 Q03001 DST Dystonin 1 0 FCGVNETENEDNT(0.011)NRDS(0.987)PIFDY(0.002)SPR 99.964 5.84E-06 7284200 540.49 647.51 363.41 684.46 694.3 1076.1 594.47 846.19 899.02 620.63 TRUE FALSE FALSE 597.3412181 668.4897488 412.9336222 697.708713 641.102884 984.410226 527.578671 824.5456851 892.7636466 647.3883966 0.922693736 1.032594579 0.637845263 1.077728172 0.990290971 1.520586762 0.814933777 1.273649156 1.379023244 1 9.338487698 -5.495198359 24.99125978 0.951828977 1.179443397 0.097806464 0.237643535 767.5897806 693018.5073 0.025267719 0.056368928 3.20E-06 5.495198359 0.22761442 FCLFHSFFVTK ddPTM_HeLa_SAHA_4h_R1 1 FCLFHSFFVTK 11 0 Q9BQG0;Q9BQG0-2;I3L1L3;I3L2H8 Q9BQG0 MYBBP1A Myb-binding protein 1A 0 0 88.596 0.0099918 369920 588.75 743.91 1171.2 1007.8 1085.7 276.03 1128.8 334.43 223.65 518.79 FALSE FALSE TRUE 650.6774263 768.0131721 1330.805037 1027.307426 1002.513901 252.5106911 1001.784453 325.8757648 222.0936014 541.1575758 1.202380703 1.419204325 2.459182124 1.898351741 1.852536018 0.466612134 1.851188079 0.602182764 0.410404679 1 9.079904933 -7.322161178 3.11087252 1.086913856 1.547264671 0.163198515 0.60643082 0.41987687 7.807175628 0.099411084 0.114902338 4.76E-08 7.322161178 0.460350814 FCLGLLSNVNR ddPTM_HeLa_SAHA_4h_R1 1 FCLGLLSNVNR 11 0 Q15796;B7Z5N5;Q15796-2;H0YKE2;H0YAK7;H3BVD1;H0YNV1;Q99717;Q15797;P84022-3;O15198-2;P84022;P84022-2;P84022-4;O15198 Q15796 SMAD2;SMAD3;SMAD5;SMAD1;SMAD9 Mothers against decapentaplegic homolog 2;Mothers against decapentaplegic homolog;Mothers against decapentaplegic homolog 5;Mothers against decapentaplegic homolog 1;Mothers against decapentaplegic homolog 3;Mothers against decapentaplegic homolog 9 0 0 140.83 0.00013646 488910 0 0 254.36 240.22 0 117.59 187.36 0 0 120.07 FALSE FALSE TRUE 0 0 289.0228562 244.8698055 0 107.5706705 166.2777597 0 0 125.2468053 0 0 2.307626573 1.955098215 0 0.858869575 1.327600806 0 0 1 6.968629995 -1.013317324 21.31230868 0.699949698 0.03585789 0 0.843735874 0 0 0.113111114 0 0.096980111 1.013317324 -0.664091808 FDEILEASDGIMVAR ddPTM_HeLa_SAHA_4h_R1 2 FDEILEASDGIMVAR 15 0 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BR70 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ; ; 166.24 2.14E-05 6213900 1089.54 879.41 690.32 961.4 884.41 1284.72 1279.74 1134.84 1414.38 1097.13 FALSE FALSE TRUE 1204.142816 907.903461 784.3932146 980.0092872 816.6466969 1175.254628 1135.740287 1105.812436 1404.537214 1144.432644 1.052174475 0.793321884 0.685399197 0.856327625 0.713582142 1.026932109 0.992404659 0.96625384 1.227278182 1 10.16041684 -7.270127354 24.76487405 1.02463795 0.860665772 0.386804335 0.124692749 500.9418624 1427921.143 0.019539903 0.022525584 5.37E-08 7.270127354 -0.163972177 FDIYDPFHPTDEAYS(ph)PPPAPEQK ddPTM_HeLa_SAHA_4h_R1 4 FDIYDPFHPTDEAYSPPPAPEQK 23 0 Q9H7N4 Q9H7N4 SCAF1 "Splicing factor, arginine/serine-rich 19" 1 0 FDIYDPFHPTDEAY(0.041)S(0.959)PPPAPEQK;FDIYDPFHPTDEAYS(1)PPPAPEQK;FDIYDPFHPTDEAY(0.027)S(0.973)PPPAPEQK;FDIYDPFHPTDEAY(0.181)S(0.819)PPPAPEQK ;;; 161.63 7.84E-08 554524000 16605.4 18856.9 14201.7 18621.6 20007.3 14124.76 21108 19431.8 20071.3 17681.1 TRUE FALSE FALSE 18352.03216 19467.87593 16137.03372 18982.048 18474.345 12921.25098 18732.87229 18934.76269 19931.62219 18443.41875 0.99504503 1.055545948 0.874948074 1.029204414 1.001676817 0.700588712 1.015694137 1.026640611 1.080690216 1 14.17081848 -6.244488435 1.112239083 0.999471089 0.932574669 0.098232111 0.100443529 0.979046574 2.393166559 0.016419025 0.033778059 5.70E-07 6.244488435 -0.06689642 FDLSHGS(ph)PQMVR ddPTM_HeLa_SAHA_4h_R1 2 FDLSHGSPQMVR 12 0 A0A2R8Y4X0;A0A0A0MQW1;A0A2R8Y5H9;Q8IVT5-4;Q8IVT5-3;Q8IVT5-2;Q8IVT5;A8MY87 A0A2R8Y4X0 KSR1 Kinase suppressor of Ras 1 1 0 FDLS(0.016)HGS(0.984)PQMVR;FDLS(0.179)HGS(0.821)PQMVR ; 114.27 0.0017594 29143000 9244.5 9739 9229.9 9843 10068.1 7797 9531.5 9972.1 10829.4 9785 TRUE FALSE FALSE 10216.87893 10054.54999 10487.7027 10033.5255 9296.684353 7132.651735 8458.990534 9717.028121 10754.03732 10206.87924 1.000979701 0.985075826 1.027513157 0.98301599 0.91082535 0.698808281 0.828753857 0.952007749 1.053606795 1 13.31725421 -5.59408482 3.687851222 1.000249809 0.823638001 0.641778149 0.060785682 0.099712267 2.710055099 0.008152821 0.017320728 2.55E-06 5.59408482 -0.176611808 FDSDAAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 FDSDAASPR 9 0 P01889;F6U0H7;Q5SS57;S6AU73;A0A1W2PNR7;A0A1W2PPR8;A0A140T9D4;A0A140T953;D9J307;A0A140TA13;A0A140TA21;A0A140TA02;A0A140T9W2;A0A140T930;A0A140T9B3;O19617;Q5QT33;Q53YP1;O78179;A0A140T921;A0A140T937;A0A140T9U0;A2AEA2;A0A140T9J9;A0A140T912;A0A140T9H5;A0A140T9M0;F8W9Z8;A0A140T9T1;A0A140TA12;A0A140TA05;A0A140T9E1;A0A140T9L3;A0A140T9M5;A0A140T942;A0A140T962;A0A1W2PR11;A0A1W2PRZ0;A0A140T9U8;P10321-2;P10321;A0A140TA03;A0A140T9Z7;A0A140T9Z4 P01889;A0A140T9Z4 HLA-B;HLA-C "HLA class I histocompatibility antigen, B-7 alpha chain;HLA class I histocompatibility antigen, Cw-7 alpha chain" 1 0 FDS(0.004)DAAS(0.996)PR 87.149 0.020415 10723000 170.33 220.13 158.58 243.23 255.91 311.07 238.24 326.46 387.31 278 TRUE FALSE FALSE 188.2460909 227.2623564 180.1904566 247.9380684 236.3022311 284.565086 211.4326082 318.1096259 384.6146782 289.9859405 0.649155923 0.783701293 0.621376527 0.855000308 0.814874786 0.981306492 0.729113307 1.096982927 1.326321812 1 8.179839145 -4.249228063 23.58578175 0.818286404 1.096983312 0.075084775 0.198892311 997.1798959 1925943.131 0.020580373 0.442908171 5.63E-05 4.249228063 0.278696908 FDSPDLLLEAGDPAT(ph)SPCR ddPTM_HeLa_SAHA_4h_R1 2 FDSPDLLLEAGDPATSPCR 19 0 A0A096LNM2;Q969U6-2;Q969U6 A0A096LNM2 FBXW5 F-box/WD repeat-containing protein 5 1 0 FDSPDLLLEAGDPAT(0.567)S(0.433)PCR;FDSPDLLLEAGDPAT(0.743)S(0.257)PCR ; 115.8 0.00091187 11710100 2283.9 2037.35 2580.26 2235.08 2651.99 3629.7 3073.41 3170.57 2712.11 2268.71 TRUE FALSE FALSE 2524.131081 2103.361477 2931.884395 2278.343205 2448.795099 3320.42914 2727.581818 3089.47141 2693.236206 2366.525191 1.066598019 0.888797417 1.238898452 0.962737779 1.034764011 1.403082102 1.152568259 1.305488495 1.13805516 1 11.20855456 -5.284175513 23.47916912 1.032015187 1.273598456 0.51015753 0.106778115 178.6696637 184508.6251 0.01311773 0.029357774 5.20E-06 5.284175513 0.241583269 FDSPDLLLEAGDPATS(ph)PCR ddPTM_HeLa_SAHA_4h_R1 2 FDSPDLLLEAGDPATSPCR 19 0 A0A096LNM2;Q969U6-2;Q969U6 A0A096LNM2 FBXW5 F-box/WD repeat-containing protein 5 1 0 FDSPDLLLEAGDPAT(0.024)S(0.976)PCR;FDSPDLLLEAGDPAT(0.209)S(0.791)PCR ; 189.59 7.47E-14 10938500 2010.68 1906.57 2067.19 2189.5 3132.7 3172.8 3073.8 2827.5 2595.8 2643.2 TRUE FALSE FALSE 2222.172548 1968.344119 2348.895888 2231.880939 2892.673203 2902.45959 2727.927934 2755.176644 2577.735616 2757.161288 0.80596393 0.713902421 0.851925456 0.809485085 1.049149071 1.052698514 0.9893973 0.999280186 0.934923767 1 11.42896795 -5.75069797 24.9928919 0.87914828 1.022405098 0.523633962 0.076960681 202.5543424 471295.9605 0.01486048 0.029482512 1.78E-06 5.75069797 0.143256818 FDSSLLS(ph)SDDETK ddPTM_HeLa_SAHA_4h_R1 2 FDSSLLSSDDETK 13 0 A0A1W2PS85;R4GMW8;P28715;A0A494C0S2;A0A090HNM7 A0A1W2PS85 BIVM-ERCC5;ERCC5;ERCC5-201 DNA repair protein complementing XP-G cells 1 0 FDSSLLS(0.761)S(0.239)DDETK;FDSSLLS(0.497)S(0.497)DDET(0.006)K ; 198.48 9.86E-11 13022400 2488.91 2706.87 2300.78 3482.37 3299.01 3516.88 2984.74 2784.47 3429.21 2653.78 TRUE FALSE FALSE 2750.704973 2794.574364 2614.318316 3549.776307 3046.240567 3217.222039 2648.8892 2713.247289 3405.345848 2768.197443 0.993680917 1.009528555 0.944411795 1.282342167 1.100441941 1.162208298 0.956900385 0.980149482 1.230167254 1 11.43473113 FDSSLLSS(ph)DDETK ddPTM_HeLa_SAHA_4h_R1 1 FDSSLLSSDDETK 13 0 A0A1W2PS85;R4GMW8;P28715;A0A494C0S2;A0A090HNM7 A0A1W2PS85 BIVM-ERCC5;ERCC5;ERCC5-201 DNA repair protein complementing XP-G cells 1 0 FDSSLLS(0.263)S(0.737)DDETK 231.07 3.60E-23 9535200 1592.3 1611.6 1505.6 1985.8 2051.5 2217.3 1815.5 1727.4 2291.7 1209.7 TRUE FALSE FALSE 1759.78542 1663.816897 1710.775327 2024.238031 1894.314513 2028.373566 1611.215162 1683.215609 2275.751873 1261.856087 1.39460073 1.318547269 1.355761045 1.604175033 1.501212803 1.607452376 1.276861267 1.333920426 1.803495578 1 10.30133167 -9.10631431 0.48069814 0.917162024 1.451916639 0 0.272766855 0.683820547 0.23357887 0.173781619 0.032268926 7.83E-10 9.10631431 0.534754615 FEDENFILK ddPTM_HeLa_SAHA_4h_R1 5 FEDENFILK 9 0 P62937;F8WE65;C9J5S7;P62937-2 P62937 PPIA "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed;Peptidyl-prolyl cis-trans isomerase" 0 0 ;;;; ;;;; 224.36 3.84E-33 374105700 13833 10778.6 9098 11510.6 11195.7 14879.6 12078.7 10051.6 16312.4 12180.6 FALSE FALSE TRUE 15288.01841 11127.83371 10337.82806 11733.40431 10337.88788 13611.77437 10719.57289 9794.494627 16198.88068 12705.76528 1.203234758 0.875809797 0.813632854 0.923470885 0.813637562 1.071306928 0.843677862 0.770870106 1.274923653 1 13.63319565 -7.242002916 23.62254204 1.095971965 0.877036278 0.585685636 0.10633054 247.9919591 301402.4841 0.017414487 0.021307082 5.73E-08 7.242002916 -0.218935687 FEEESKEPVADEEEEDS(ph)DDDVEPITEFR ddPTM_HeLa_SAHA_4h_R1 4 FEEESKEPVADEEEEDSDDDVEPITEFR 28 1 P54105;E9PJF4 P54105 CLNS1A Methylosome subunit pICln 1 0 FEEESKEPVADEEEEDS(1)DDDVEPITEFR;FEEESKEPVADEEEEDS(1)DDDVEPITEFR;FEEESKEPVADEEEEDS(1)DDDVEPITEFR;FEEESKEPVADEEEEDS(1)DDDVEPITEFR ;;; 150.45 1.14E-10 431993500 11756.7 12767.5 13239.3 11312.7 14618.8 14853.8 14701.5 13989.4 13120.6 12712.2 TRUE FALSE FALSE 12993.32365 13181.17538 15043.48286 11531.67367 13498.7107 13588.17267 13047.24853 13631.5714 13029.29268 13260.28515 0.979867589 0.994034082 1.134476573 0.869639946 1.017980424 1.024727034 0.983934235 1.027999869 0.982580127 1 13.69482418 -6.976597586 24.99837861 0.990306549 1.008377734 0.027051841 0.060624869 939.0432905 1003080.099 0.009173296 0.012055736 1.06E-07 6.976597586 0.018071185 FEEESKEPVADEEEEDSDDDVEPITEFR ddPTM_HeLa_SAHA_4h_R1 2 FEEESKEPVADEEEEDSDDDVEPITEFR 28 1 P54105;E9PJF4 P54105 CLNS1A Methylosome subunit pICln 0 0 ; ; 157.55 3.73E-11 7563500 543 684.72 667.67 361.16 570.75 655.49 607.83 491.81 592.88 607.58 FALSE FALSE TRUE 600.1152314 706.9053773 758.6565905 368.150774 527.0192583 599.6385643 539.4353687 479.2302123 588.7540998 633.7757472 0.946888918 1.115387233 1.197042635 0.58088492 0.83155479 0.946136811 0.85114549 0.756151075 0.928962811 1 9.307828643 -6.267059018 24.9990667 1.002197208 0.807025354 0.513267198 0.116117117 361.6134578 1608643.914 0.018118188 0.028144557 5.41E-07 6.267059018 -0.195171854 FEELCSDLFR ddPTM_HeLa_SAHA_4h_R1 2 FEELCSDLFR 10 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37;P17066;P48741 A0A0G2JIW1;P17066 HSPA1B;HSPA1A;HSPA6;HSPA7 Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A;Heat shock 70 kDa protein 6;Putative heat shock 70 kDa protein 7 0 0 ; ; 157.99 0.0014893 9307600 3367.2 3079.51 2877.6 3086.5 3272.3 4304.4 4287.8 3007.1 3840.5 3435.5 FALSE FALSE TRUE 3721.377545 3179.288145 3269.744342 3146.243671 3021.577081 3937.640904 3805.325459 2930.182736 3813.773648 3583.621218 1.038440538 0.887171928 0.91241349 0.877950955 0.843163074 1.098788255 1.061865981 0.817659724 1.064223425 1 11.80720244 -7.273089386 24.7021609 1.018152477 0.934277768 0.233124511 0.086010161 842.4131707 1786211.678 0.014803387 0.017002541 5.33E-08 7.273089386 -0.08387471 FEELNADLFR ddPTM_HeLa_SAHA_4h_R1 2 FEELNADLFR 10 0 P11142;E9PKE3;P11142-2;E9PNE6;E9PN89;A8K7Q2;P54652 P11142 HSPA8;HSPA2 Heat shock cognate 71 kDa protein;Heat shock-related 70 kDa protein 2 0 0 ; ; 208.63 6.77E-10 83462000 4274.6 3720.3 4108.4 4646.1 4531.2 4922 4907.9 3614.2 4203.9 4052.8 FALSE FALSE TRUE 4724.222041 3840.840161 4668.271356 4736.031984 4184.020435 4502.61791 4355.650175 3521.753997 4174.644718 4227.536042 1.117488294 0.908529253 1.104253473 1.12028187 0.989706627 1.065069077 1.030304681 0.833051206 0.987488853 1 12.04560134 -4.262350153 4.036989066 1.050012183 0.814143787 0.454636334 0.065369545 0.151011653 5.176449675 0.009047147 0.103495613 5.47E-05 4.262350153 -0.235868397 FEEVEEEPEVIPGPPSES(ph)PGMLTK ddPTM_HeLa_SAHA_4h_R1 2 FEEVEEEPEVIPGPPSESPGMLTK 24 0 O43395 O43395 PRPF3 U4/U6 small nuclear ribonucleoprotein Prp3 1 0 FEEVEEEPEVIPGPPS(0.055)ES(0.921)PGMLT(0.024)K;FEEVEEEPEVIPGPPS(0.407)ES(0.589)PGMLT(0.004)K ; 125.86 1.39E-06 7936000 3179.2 2522.3 2158 2791 3073.7 3520.4 3105.1 3706.2 3108.9 2814.8 TRUE FALSE FALSE 3513.602843 2604.024175 2452.081002 2845.023841 2838.19377 3220.442115 2755.705976 3611.400771 3087.264912 2936.159803 1.19666608 0.886880943 0.835131998 0.96896083 0.966634639 1.09682113 0.93854087 1.229974188 1.051463516 1 11.51971478 -10.13620554 3.225660138 0.998388341 1.052913004 0 0.126106657 1.211220316 23.15066754 0.128667794 0.020371998 7.31E-11 10.13620554 0.054524664 FEIGEGENLDLPYGLER ddPTM_HeLa_SAHA_4h_R1 4 FEIGEGENLDLPYGLER 17 0 Q02790 Q02790 FKBP4 "Peptidyl-prolyl cis-trans isomerase FKBP4;Peptidyl-prolyl cis-trans isomerase FKBP4, N-terminally processed" 0 0 ;;; ;;; 253.97 3.73E-46 51844700 4835.71 4713.54 4588.76 5076.44 5386.72 5914.8 5355.68 5186.38 6014.58 5287.59 FALSE FALSE TRUE 5344.352165 4866.261789 5214.092316 5174.701837 4973.990677 5410.825764 4753.044791 5053.719909 5972.724048 5515.563882 0.968958438 0.882278203 0.94534166 0.938199964 0.901810002 0.981010442 0.861751381 0.916265321 1.082885481 1 12.42929267 -7.467126004 4.310023657 0.986973424 0.91950612 0.484196123 0.043938447 0.133121933 4.786812871 0.005453547 0.006074497 3.41E-08 7.467126004 -0.067467304 FEK(ac)EAAEMGK ddPTM_HeLa_SAHA_4h_R1 1 FEKEAAEMGK 10 1 Q5VTE0;P68104;A0A087WVQ9;A0A087WV01;A6PW80;Q5JR01;A0A2U3TZH3;Q05639;A0A2R8Y488;A0A2R8Y660;A0A2R8YDN5 Q5VTE0;A0A2U3TZH3 EEF1A1P5;EEF1A1;EEF1A2 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha;Elongation factor 1-alpha 2 0 1 FEK(1)EAAEMGK 125.72 0.0015983 1477500 652.86 1222 771.3 779.72 1168.2 1072.9 1191 1233.6 1000.3 586.35 FALSE TRUE FALSE 721.5308102 1261.593602 876.4087472 794.8126081 1078.692768 981.482884 1056.985545 1202.046298 993.3388309 611.630418 1.179684314 2.062673086 1.432905757 1.299498169 1.763634928 1.604699268 1.728144177 1.965314776 1.624083436 1 9.256516347 -7.426998551 6.65844919 1.078317035 1.668872844 0.26893274 0.27503251 0.118958187 7.005162091 0.037239474 0.042343642 3.74E-08 7.426998551 0.590555809 FELSGSK ddPTM_HeLa_SAHA_4h_R1 1 FELSGSK 7 0 Q8IWI9-3;Q8IWI9;H3BU53 Q8IWI9-3 MGA MAX gene-associated protein 0 0 119.57 0.023653 9818900 1117.3 1375.2 1248.2 1260.2 1389 1671.8 1236.8 1442.6 1444.3 1233.4 FALSE FALSE TRUE 1234.82274 1419.757382 1418.298196 1284.592993 1282.57512 1529.353235 1097.632009 1405.700381 1434.248999 1286.57791 0.959773 1.103514502 1.102380341 0.998457212 0.996888809 1.188698502 0.853140723 1.092588618 1.114778194 1 10.32932311 -7.286166524 24.63358192 0.981003916 1.04409892 0 0.094694975 1033.205459 1029292.445 0.013562019 0.015512451 5.17E-08 7.286166524 0.063095005 FENAFLSHVVSQHQALLGTIR ddPTM_HeLa_SAHA_4h_R1 1 FENAFLSHVVSQHQALLGTIR 21 0 P25705-2;P25705;P25705-3 P25705-2 ATP5A1 "ATP synthase subunit alpha, mitochondrial" 0 0 128.4 2.69E-08 1783100 0 541.1 48.491 85.63 146.8 0 817 151.54 0 57.169 FALSE FALSE TRUE 0 558.631995 55.09910095 87.28749247 135.5522157 0 725.0690098 147.6638262 0 59.63383537 0 9.367701936 0.923957022 1.463724276 2.273075593 0 12.15868484 2.476175234 0 1 5.898059222 FEPES(ph)PGFESR ddPTM_HeLa_SAHA_4h_R1 4 FEPESPGFESR 11 0 H3BS42;Q9H5H4 H3BS42 ZNF768 Zinc finger protein 768 1 0 FEPES(1)PGFESR;FEPES(0.999)PGFES(0.001)R;FEPES(0.889)PGFES(0.111)R;FEPES(1)PGFESR ;;; 215.77 1.98E-15 99830000 12327.9 11916.7 10019.6 11141 12046.6 12839.7 12604.2 12933.6 13002.6 12107.6 TRUE FALSE FALSE 13624.60508 12302.8089 11385.01891 11356.65017 11123.59211 11745.68533 11185.94224 12602.77724 12912.11385 12629.61789 1.078782051 0.974123604 0.901453948 0.89920774 0.880754446 0.93001114 0.885691265 0.997874785 1.022367736 1 13.62452337 -6.98833746 4.048850266 1.037081764 0.913346509 0.68138851 0.036129114 0.093714355 3.542008546 0.006731479 0.00871736 1.03E-07 6.98833746 -0.123735256 FES(ph)PESQASAEQPEM ddPTM_HeLa_SAHA_4h_R1 1 FESPESQASAEQPEM 15 0 O75436 O75436 VPS26A Vacuolar protein sorting-associated protein 26A 1 0 FES(0.979)PES(0.021)QASAEQPEM 220.97 4.21E-18 3347600 493.12 753.95 475.59 503.16 735.91 909.48 750.01 558.15 783.7 677.89 TRUE FALSE FALSE 544.9886241 778.3784747 540.4009284 512.8993894 679.5247348 831.9871874 665.6169009 543.8733312 778.2461679 707.1171554 0.770718996 1.100777246 0.76423111 0.725338631 0.960978997 1.176590302 0.941310638 0.769141757 1.100590138 1 9.465805451 -5.548829976 24.94798144 0.883906177 0.978334149 0.006043724 0.156261832 443.2742641 426136.4049 0.021962197 0.043925394 2.83E-06 5.548829976 0.094427972 FES(ph)PEVAER ddPTM_HeLa_SAHA_4h_R1 2 FESPEVAER 9 0 A0A087X0X3;P52272-2;P52272 A0A087X0X3 HNRNPM Heterogeneous nuclear ribonucleoprotein M 1 0 FES(1)PEVAER;FES(1)PEVAER ; 126.19 0.0026575 27286000 2974.7 3752 2900.7 3522.8 3907.6 4732.5 3942.5 3646.8 5032 3896.3 TRUE FALSE FALSE 3287.592594 3873.567262 3295.99229 3590.988888 3608.200532 4329.264376 3498.879524 3553.520137 4996.981902 4064.288561 0.808897436 0.953073878 0.810964143 0.883546735 0.887781583 1.065196113 0.860883638 0.874327716 1.22948502 1 11.98878712 FESLEPEMNNQASR ddPTM_HeLa_SAHA_4h_R1 1 FESLEPEMNNQASR 14 0 A0A087WUZ3;Q01082;Q01082-2;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 0 0 112.13 0.0084243 4150100 882.15 1102.2 599.23 892.73 1150.2 1235.7 1116.1 867.8 1109.6 954.09 FALSE FALSE TRUE 974.9385844 1137.912003 680.8899437 910.0100801 1062.071924 1130.411408 990.5134906 845.6029326 1101.878203 995.2254891 0.979615771 1.143371041 0.684156456 0.914375777 1.067167126 1.135834462 0.995265396 0.849659642 1.107164372 1 9.958879625 -4.259972517 22.30640207 0.989974996 0.849659447 0.106938867 0.128052072 51.02462996 775519.5061 0.01631881 0.136110267 5.50E-05 4.259972517 -0.140315549 FESPATGILS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 FESPATGILSPR 12 0 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 1 0 FESPATGILS(1)PR;FESPATGILS(1)PR;FESPATGILS(1)PR;FESPATGILS(1)PR ;;; 174.23 5.24E-05 127641000 3625.24 3790.41 3705.85 3879.27 3573.93 3802.27 3355.44 3325.38 3888.55 3391.1 TRUE FALSE FALSE 4006.559376 3913.221771 4210.863939 3954.35888 3300.096256 3478.295205 2977.87706 3240.321595 3861.489264 3537.306917 1.132658113 1.106271484 1.190415205 1.117900983 0.932940322 0.983317333 0.841848652 0.91604197 1.091646655 1 11.78843569 -5.70978413 6.559961032 1.081802118 0.916140184 0.709020071 0.057717568 0.122457456 11.55602523 0.010752407 0.021495924 1.95E-06 5.70978413 -0.165661934 FESPES(ph)QASAEQPEM ddPTM_HeLa_SAHA_4h_R1 1 FESPESQASAEQPEM 15 0 O75436 O75436 VPS26A Vacuolar protein sorting-associated protein 26A 1 0 FES(0.06)PES(0.938)QAS(0.002)AEQPEM 95.195 0.0061262 2798000 1271.4 1574.3 1185.8 1690.7 1432.4 1713.3 1273.4 1466.7 2267.4 1750.5 TRUE FALSE FALSE 1405.131685 1625.308353 1347.394649 1723.425943 1322.649821 1567.317201 1130.113681 1429.183938 2251.620979 1825.972622 0.769525057 0.890105544 0.737905176 0.943839969 0.724353589 0.858346496 0.618910529 0.782697353 1.233107743 1 10.83444942 -13.52287875 0.207442356 2.056191426 0.748676415 0.540060921 0.111884681 30.48544344 0.376540252 13.04926302 0.075358093 3.00E-14 13.52287875 -1.307515011 FESPEVAER ddPTM_HeLa_SAHA_4h_R1 1 FESPEVAER 9 0 A0A087X0X3;P52272-2;P52272 A0A087X0X3 HNRNPM Heterogeneous nuclear ribonucleoprotein M 0 0 122.19 0.019789 16954000 863.49 1101.4 937.39 885.31 972.98 1055.3 1160.4 908.32 960.47 779.56 FALSE FALSE TRUE 954.31584 1137.086083 1065.132627 902.4464552 898.4304826 965.382503 1029.828738 885.0864896 953.7860111 813.1706467 1.173573891 1.398336361 1.309851299 1.109787299 1.104848639 1.187183166 1.266436193 1.088438808 1.172922332 1 9.667414328 -8.6807215 0.968897541 1.016064039 1.206044821 0.09819923 0.105530721 0.389034662 0.734050731 0.040407157 0.019903395 2.09E-09 8.6807215 0.189980782 FFDS(ph)EDEDFEILSL ddPTM_HeLa_SAHA_4h_R1 3 FFDSEDEDFEILSL 14 0 Q9Y4P1-4;Q9Y4P1 Q9Y4P1-4 ATG4B Cysteine protease ATG4B 1 0 FFDS(1)EDEDFEILSL;FFDS(1)EDEDFEILSL;FFDS(1)EDEDFEILSL ;; 127.17 0.00061572 3187870 406.104 666.642 744.716 570.68 678.79 974.32 622.56 484.99 598.641 857.55 TRUE FALSE FALSE 448.819882 688.2416382 846.2020182 581.7263366 626.7812568 891.3024546 552.5079103 472.5846581 594.4750085 894.5231772 0.501742038 0.769394976 0.945981099 0.650320027 0.700687554 0.996399509 0.617656338 0.528309014 0.664571946 1 9.804975053 -9.613904288 1.433108145 0.999372641 0.694769094 0 0.183176861 0.402540066 1.489210001 0.116235076 0.026941195 2.43E-10 9.613904288 -0.304603546 FFGVIPSGK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 FFGVIPSGKK 10 1 P35251-2;P35251;E0CX09;D6RAD2 P35251-2 RFC1 Replication factor C subunit 1 0 1 FFGVIPSGK(1)K 93.649 0.008816 1061600 783.3 540.81 669.01 1117.4 1204.8 683.85 1431 835.96 252.56 355.96 FALSE TRUE FALSE 865.6910879 558.3325988 760.1791987 1139.028893 1112.488484 625.5821328 1269.980114 814.5773537 250.8024144 371.3071776 2.331468768 1.503694602 2.047305424 3.067618838 2.996140531 1.684810234 3.420295083 2.193809877 0.675458029 1 8.536469394 -9.664263164 0.248017432 6.60E-14 2.76216219 0.574046884 0.558172548 4.233248538 0.302937168 3.585507466 0.478288144 2.17E-10 9.664263164 2.76216219 FFIGFGGK ddPTM_HeLa_SAHA_4h_R1 1 FFIGFGGK 8 0 Q9H477-2;Q9H477 Q9H477-2 RBKS Ribokinase 0 0 117.7 0.0043704 211930 449.72 238.31 404.43 466.14 273.3 295.93 429.31 110.29 198.91 298.07 FALSE FALSE TRUE 497.023613 246.0314004 459.5436142 475.1628137 252.359813 270.7150991 381.0029089 107.4689415 197.5257691 310.9212564 1.59855141 0.791298103 1.478006424 1.528241649 0.81165185 0.87068701 1.225400004 0.345646813 0.635291943 1 8.280405441 -5.742695103 24.96952632 1.279913927 0.846874409 0.149506078 0.364882235 242.4133543 322920.5546 0.047482287 0.094833146 1.81E-06 5.742695103 -0.433039519 FFQGS(ph)QEFLASASASAER ddPTM_HeLa_SAHA_4h_R1 1 FFQGSQEFLASASASAER 18 0 C9J6P4;Q7Z2W4;Q7Z2W4-3;Q7Z2W4-2 C9J6P4 ZC3HAV1 Zinc finger CCCH-type antiviral protein 1 1 0 FFQGS(0.99)QEFLAS(0.006)AS(0.002)AS(0.001)AER 68.189 0.015774 7012300 364.2 496.39 401.33 460.9 371.5 640.1 409.25 650.49 569.12 498.92 TRUE FALSE FALSE 402.508227 512.4733617 456.0211624 469.821386 343.0357503 585.5598789 363.2001129 633.8514077 565.1594476 520.4308829 0.773413416 0.984709745 0.876237705 0.902754624 0.65913796 1.125144372 0.697883475 1.217935808 1.085945255 1 9.023562765 -4.237793414 23.80874648 0.88678383 1.217936538 0.288224218 0.148193641 2989.355904 3009847.033 0.017988046 1.312430734 5.78E-05 4.237793414 0.331152708 FFTS(ph)STSLTLK ddPTM_HeLa_SAHA_4h_R1 1 FFTSSTSLTLK 11 0 Q99567;J3KMX1;I3L245 Q99567 NUP88 Nuclear pore complex protein Nup88 1 0 FFT(0.003)S(0.409)S(0.409)T(0.123)S(0.055)LT(0.002)LK 87.713 0.0080072 0 1514.8 1568.1 1342.1 1405.8 1332.4 1661 1721.2 1432.6 1774.6 1433.1 TRUE FALSE FALSE 1674.133614 1618.907469 1524.994399 1433.011292 1230.3118 1519.473455 1527.526046 1395.956166 1762.250414 1494.887954 1.119905749 1.082962415 1.020139599 0.958607826 0.823012719 1.016446384 1.021833136 0.933819931 1.17885117 1 10.54582164 -6.404195889 3.366585685 1.059931406 0.951357771 0.462938434 0.069290779 0.214117768 4.525945424 0.010775728 0.016832668 3.94E-07 6.404195889 -0.108573634 FFTT(ph)PSK ddPTM_HeLa_SAHA_4h_R1 2 FFTTPSK 7 0 O76021;O76021-2 O76021 RSL1D1 Ribosomal L1 domain-containing protein 1 1 0 FFT(0.043)T(0.943)PS(0.014)K;FFT(0.037)T(0.963)PSK ; 168.26 9.58E-07 281490000 15734.5 14936.1 12695.5 16785.8 20944 18182.8 21461 20506 20231.2 15861.2 TRUE FALSE FALSE 17389.5269 15420.03944 14425.57662 17110.71343 19339.27524 16633.52315 19046.1518 19981.48621 20090.40943 16545.05395 1.05104081 0.932002971 0.87189662 1.034189038 1.168885596 1.005347169 1.151168914 1.207701484 1.214284915 1 14.01411238 -4.32159185 0.766521219 1.009025539 1.319629959 0.255669527 0.096362799 1.773686291 0.778131461 0.012434403 0.462003492 4.77E-05 4.32159185 0.31060442 FFVGGNWK ddPTM_HeLa_SAHA_4h_R1 2 FFVGGNWK 8 0 P60174;P60174-3 P60174 TPI1 Triosephosphate isomerase 0 0 ; ; 105.2 0.011505 5760700 4320.5 4872.5 8826.3 3790.5 5352.9 3712.6 6422.7 2435 1877.93 3461.3 FALSE FALSE TRUE 4774.950013 5030.372197 10029.1022 3863.870609 4942.761958 3396.265593 5700.000892 2372.716226 1864.861332 3610.533582 1.32250536 1.393248971 2.777734086 1.070166091 1.368983793 0.940654758 1.578714271 0.657164979 0.516505743 1 11.81799635 -8.49585496 1.081895041 1.046585357 1.409263968 0.129555004 0.556697057 0.917590337 2.185887284 0.172798013 0.104202461 3.19E-09 8.49585496 0.362678611 FGDES(ph)PLLTMR ddPTM_HeLa_SAHA_4h_R1 1 FGDESPLLTMR 11 0 H0YJ41;Q9P203-5;Q9P203 H0YJ41 BTBD7 BTB/POZ domain-containing protein 7 1 0 FGDES(1)PLLTMR 99.539 0.0085356 1807300 480.55 513.72 446.39 532.59 556.91 530.64 445.08 510.72 732.64 449.23 TRUE FALSE FALSE 531.0964538 530.3648651 507.2217045 542.8990496 514.2396761 485.4264867 394.998427 497.6565219 727.5414986 468.5985038 1.133372065 1.131810838 1.0824228 1.158559076 1.097399313 1.035911303 0.842935741 1.06201048 1.552590315 1 8.872208537 -4.988046481 24.60847929 1.079951421 0.949210645 0.087746046 0.163043177 155.6171371 320359.7956 0.010202788 0.030573085 1.03E-05 4.988046481 -0.130740776 FGESEEVEMEVES(ph)DEEDDKQEK ddPTM_HeLa_SAHA_4h_R1 7 FGESEEVEMEVESDEEDDKQEK 22 1 Q15459;Q15459-2;H7C1L2 Q15459 SF3A1 Splicing factor 3A subunit 1 1 0 FGESEEVEMEVES(1)DEEDDKQEK;FGESEEVEMEVES(1)DEEDDKQEK;FGESEEVEMEVES(1)DEEDDKQEK;FGESEEVEMEVES(1)DEEDDKQEK;FGESEEVEMEVES(1)DEEDDKQEK;FGESEEVEMEVES(1)DEEDDKQEK;FGESEEVEMEVES(1)DEEDDKQEK ;;;;;; 150.95 1.20E-06 664525000 10046.32 17148.6 12413.78 14470.4 16411.3 18981.1 16244.4 14005.83 21049.5 14724.71 TRUE FALSE FALSE 11103.03803 17704.22589 14105.46529 14750.49552 15153.86974 17363.8035 14416.53736 13647.58115 20903.01482 15359.56431 0.722874543 1.152651568 0.918350612 0.960345959 0.986608047 1.130488023 0.938603275 0.888539601 1.360911963 1 13.90684967 -7.264695879 24.99964746 0.869135205 0.994659889 0 0.185806909 372.4362937 2859129.987 0.021445891 0.025065795 5.44E-08 7.264695879 0.125524684 FGESTTGFNFS(ph)FK ddPTM_HeLa_SAHA_4h_R1 1 FGESTTGFNFSFK 13 0 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 1 0 FGESTTGFNFS(1)FK 111.12 0.0023905 738760 149.24 179.78 70.519 213.81 208.39 295.03 367.95 299.77 178.02 255.6 TRUE FALSE FALSE 164.9377479 185.60499 80.12896207 217.9486017 192.4232032 269.8917842 326.5472976 292.1023175 176.7811443 266.6201669 0.618624427 0.696140101 0.300536014 0.817449799 0.72171286 1.012270705 1.224765934 1.09557473 0.663044909 1 8.058642098 -5.087725927 3.387364115 0.760796274 1.157178393 0.524541406 0.178339695 0.199240861 4.321729146 0.031021954 0.090985024 8.17E-06 5.087725927 0.396382119 FGEVVDCTLK ddPTM_HeLa_SAHA_4h_R1 4 FGEVVDCTLK 10 0 Q14103-3;Q14103;H0YA96;D6RAF8;H0Y8G5;Q14103-4;Q14103-2;D6RD83;D6RF44;D6RBQ9 Q14103-3 HNRNPD Heterogeneous nuclear ribonucleoprotein D0 0 0 ;;; ;;; 178.22 7.21E-12 7629200 5721 6515.2 6036.2 6784.4 7162.7 7284.9 7307.3 6306.6 7285.6 6345.4 FALSE FALSE TRUE 6322.761029 6726.296755 6858.781901 6915.721872 6613.895473 6664.185536 6485.063372 6145.286304 7234.898916 6618.981248 0.955246856 1.016213297 1.036229239 1.044831767 0.999231638 1.006829493 0.9797676 0.928433859 1.093053243 1 12.69239347 -4.293482812 3.33919013 0.992894493 0.922024601 0.133440932 0.041072591 0.31355814 5.804760725 0.00464334 0.054097287 5.09E-05 4.293482812 -0.070869892 FGEYNSNMS(ph)PEEK ddPTM_HeLa_SAHA_4h_R1 4 FGEYNSNMSPEEK 13 0 E9PFK5;P78316-2;P78316 E9PFK5 NOP14 Nucleolar protein 14 1 0 FGEYNSNMS(1)PEEK;FGEYNS(0.01)NMS(0.99)PEEK;FGEYNS(0.153)NMS(0.847)PEEK;FGEYNS(0.06)NMS(0.94)PEEK ;;; 201.3 7.68E-11 106257000 9634.8 8267.5 7580.2 8743.6 9524.4 9831 9563.2 9457.2 10036.1 8859.6 TRUE FALSE FALSE 10648.23247 8535.372425 8613.19018 8912.845021 8794.64253 8993.343492 8487.123567 9215.298518 9966.257963 9241.580714 1.152209 0.923583604 0.932003999 0.964428629 0.95163834 0.973139095 0.91836276 0.997156093 1.078414859 1 13.17392392 -7.245031578 24.91635459 1.071876474 0.950788857 0.664377212 0.040795793 489.7892082 743778.7156 0.009782515 0.011963571 5.69E-08 7.245031578 -0.121087616 FGFAIGSQTTK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 FGFAIGSQTTKK 12 1 Q8WW12;Q8WW12-2 Q8WW12 PCNP PEST proteolytic signal-containing nuclear protein 0 1 ; FGFAIGSQTTK(1)K;FGFAIGSQTTK(1)K 185.77 1.10E-16 1847610 497.2 484.58 439.35 886.96 1101.51 1038.5 1199.26 1326.46 604.4 155.51 FALSE TRUE FALSE 549.4977772 500.2807099 499.22233 904.1283934 1017.112542 950.0139576 1064.316109 1292.531074 600.1939312 162.2147971 3.387470113 3.084063345 3.077538786 5.573649317 6.270158824 5.856518482 6.561153034 7.968022009 3.699994956 1 7.341761617 -3.03164338 0.151980143 1.91E-14 18.5543856 0.771102424 0.960913881 6.651077674 0.11614699 1.604551199 25.04927778 0.00092973 3.03164338 18.5543856 FGFGFGGTGK ddPTM_HeLa_SAHA_4h_R1 2 FGFGFGGTGK 10 0 F1T0B3;A0A087X2G1;Q92499-3;Q92499-2;Q92499 F1T0B3 DDX1 ATP-dependent RNA helicase DDX1 0 0 ; ; 106.6 0.012733 1345910 378.89 783.89 523.25 508.77 853.2 1025.7 529.86 731.61 1101.86 927.92 FALSE FALSE TRUE 418.7433886 809.2885503 594.555785 518.617979 787.8280003 938.3045896 470.2387583 712.8964756 1094.192067 967.9271723 0.432618693 0.836104795 0.614256735 0.535802686 0.813933138 0.969395856 0.485820392 0.736518713 1.130448755 1 9.918754692 -9.604906707 1.415179222 0.999415428 0.648850082 0.437077074 0.16803402 0.366455368 1.320688874 0.120634833 0.028029823 2.48E-10 9.604906707 -0.350565345 KKELIAK(ac)LDQAEK ddPTM_HeLa_SAHA_4h_R1 1 KKELIAKLDQAEK 13 3 B4DFW0;P57077;P57077-1 B4DFW0 MAP3K7CL MAP3K7 C-terminal-like protein 0 1 KKELIAK(0.999)LDQAEK 50.46 0.023244 7911000 797.23 657.1 2132.2 3126.7 4080.6 3753.6 4811.4 4455.9 660.95 1000.5 FALSE TRUE FALSE 881.0863092 678.3904711 2422.765112 3187.2218 3767.94531 3433.772163 4270.008609 4341.92453 656.3503951 1043.636451 0.844246393 0.650025658 2.321464633 3.053957914 3.610400255 3.290199531 4.09147132 4.160380298 0.62890712 1 10.02740352 -6.370405033 1.546683258 0.893095168 3.789946022 0.949451336 0.311685999 0.055821583 0.262641556 0.050408708 0.088172943 4.26E-07 6.370405033 2.896850854 up FGFPEGSVELYAEK ddPTM_HeLa_SAHA_4h_R1 1 FGFPEGSVELYAEK 14 0 E9PPU1;P23396;F2Z2S8;H0YCJ7;H0YF32 E9PPU1 RPS3 40S ribosomal protein S3 0 0 122.34 0.0049604 43164000 1678.3 1714.6 1675.8 1811.9 1778 1886.9 1803.1 1890.8 1833.2 1677.3 FALSE FALSE TRUE 1854.831294 1770.154165 1904.169297 1846.971945 1641.770024 1726.125505 1600.210443 1842.436074 1820.442612 1749.616612 1.06013585 1.011738316 1.088335173 1.055643809 0.938359875 0.986573569 0.914606338 1.053051315 1.040480869 1 10.77282311 -5.767034812 24.99979396 1.03436814 0.969925227 0.396198835 0.041235161 114.3953905 511108.849 0.006163138 0.011402371 1.71E-06 5.767034812 -0.064442914 FGGS(ph)GSQVDSAR ddPTM_HeLa_SAHA_4h_R1 2 FGGSGSQVDSAR 12 0 Q13200;Q13200-2;Q13200-3 Q13200 PSMD2 26S proteasome non-ATPase regulatory subunit 2 1 0 FGGS(0.921)GS(0.079)QVDSAR;FGGS(0.82)GS(0.179)QVDS(0.001)AR ; 178.67 2.99E-05 25335000 2444.8 2257.76 2233.16 2154.97 2385 3106.2 2373.9 2888.9 2777.6 2344.5 TRUE FALSE FALSE 2701.955281 2330.912905 2537.483415 2196.68256 2202.261815 2841.534285 2106.782524 2815.006121 2758.270455 2445.582869 1.104830802 0.953111397 1.037578177 0.898224545 0.900505905 1.161904723 0.861464378 1.151057344 1.127858103 1 11.25596264 -7.250328289 24.61174482 1.049503435 0.99043143 0.102749675 0.101829147 1230.115017 2724781.413 0.015679099 0.019102312 5.62E-08 7.250328289 -0.059072005 FGLGS(ph)PLPSPR ddPTM_HeLa_SAHA_4h_R1 2 FGLGSPLPSPR 11 0 Q14934-2;Q14934-9;Q14934-3;Q14934-4;Q14934-5;Q14934-6;Q14934-7;Q14934;Q14934-8;Q14934-10;Q14934-18;Q14934-11;Q14934-12;Q14934-13;Q14934-14;Q14934-15;Q14934-16;Q14934-17;G3V5H0 Q14934-2 NFATC4 "Nuclear factor of activated T-cells, cytoplasmic 4" 1 0 FGLGS(1)PLPSPR;FGLGS(1)PLPSPR ; 95.618 0.011236 6930700 2831.75 3034.69 2987.8 2690.65 2941.07 3465.7 3145.69 3456.2 2483.47 2631.28 TRUE FALSE FALSE 3129.606458 3133.015947 3394.961824 2742.731421 2715.725852 3170.402863 2791.728682 3367.795409 2466.18733 2744.727358 1.140224893 1.141467089 1.236903117 0.999272811 0.989433739 1.155088447 1.017124223 1.227005443 0.898518143 1 11.42244713 -9.349524812 1.091106229 1.000460944 1.110585998 0.311008217 0.089890933 0.65800243 1.410620111 0.054586277 0.014496938 4.47E-10 9.349524812 0.110125054 FGLNVSSISR ddPTM_HeLa_SAHA_4h_R1 1 FGLNVSSISR 10 0 F8VZQ9;P82979;H0YHG0 F8VZQ9 SARNP SAP domain-containing ribonucleoprotein 0 0 100.25 0.011505 0 668.92 739.82 571.91 672.77 855.81 1034.5 921.08 740.15 681.79 772.49 FALSE FALSE TRUE 739.2800747 763.7906534 649.8469164 685.7924362 790.2380227 946.3547801 817.4376543 721.2180347 677.0453679 805.7958244 0.917453345 0.947871198 0.806465977 0.851074696 0.980692626 1.174434952 1.014447618 0.895038188 0.840219504 1 9.654270519 -5.518527038 24.99400129 0.938330005 1.035111457 0.245772107 0.088552747 229.608855 1318754.984 0.013000377 0.026526531 3.03E-06 5.518527038 0.096781452 FGNEVIPVTVTVK ddPTM_HeLa_SAHA_4h_R1 1 FGNEVIPVTVTVK 13 0 A0A5F9ZHD4;A0A5F9ZHJ7;A0A5F9ZI66;A0A5F9ZHJ0;A0A5F9ZHL1;P24752 A0A5F9ZHD4 ACAT1 "Acetyl-CoA acetyltransferase, mitochondrial" 0 0 102.62 0.018733 207340 124.93 90.292 200.75 0 159.04 177.84 169.36 0 0 278.03 FALSE FALSE TRUE 138.0707106 93.21752004 228.1071645 0 146.8543896 162.6870315 150.3031671 0 0 290.0172339 0.476077607 0.321420623 0.786529688 0 0.506364355 0.560956428 0.518255984 0 0 1 8.179994823 -9.681164273 0.324737373 1.357454779 0.341396656 0 0.389966006 2.659469696 0.295252083 1.015224901 0.102616974 2.08E-10 9.681164273 -1.016058123 FGNPGEK(ac)LVK ddPTM_HeLa_SAHA_4h_R1 2 FGNPGEKLVK 10 1 P17844-2;P17844;J3KTA4;J3QRQ7;X6RLV5;J3QR02;J3KRX8;J3QKN9;J3KTQ4 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 0 1 ; FGNPGEK(1)LVK;FGNPGEK(1)LVK 158.79 1.81E-07 21362000 4700.1 4547.3 4276 4918.2 5447 5496.7 6048.5 5438.3 4208.9 3352.9 FALSE TRUE FALSE 5194.478083 4694.635504 4858.711012 5013.398873 5029.652037 5028.350236 5367.906861 5299.196161 4179.609922 3497.459928 1.485214467 1.342298583 1.389211345 1.433439975 1.438087109 1.437714896 1.534801534 1.515155647 1.195041547 1 11.77209181 -9.696709202 0.479151268 0.810325403 1.464702205 0.731859444 0.080702856 0.532342631 0.126175519 0.176481018 0.015188897 2.01E-10 9.696709202 0.654376802 FGPYYTEPVIAGLDPK ddPTM_HeLa_SAHA_4h_R1 1 FGPYYTEPVIAGLDPK 16 0 A0A087WUL2;P49720 A0A087WUL2 PSMB3 Proteasome subunit beta type-3 0 0 153.95 2.56E-07 231750 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 FGQAAT(ph)MEGIGAIGGTPPAFNR ddPTM_HeLa_SAHA_4h_R1 2 FGQAATMEGIGAIGGTPPAFNR 22 0 Q15233;Q15233-2 Q15233 NONO Non-POU domain-containing octamer-binding protein 1 0 FGQAAT(0.569)MEGIGAIGGT(0.431)PPAFNR;FGQAAT(1)MEGIGAIGGTPPAFNR ; 130.15 9.97E-05 38931000 1384.38 1488.97 1616.26 1555.46 1933.26 1876.68 1660.47 1632.63 1759.33 1727.25 TRUE FALSE FALSE 1529.99544 1537.213605 1836.515496 1585.568178 1785.134036 1716.776306 1473.629545 1590.869689 1747.086679 1801.7202 0.849185928 0.853192191 1.019312263 0.880030194 0.990794262 0.952854003 0.817901439 0.882972666 0.969677022 1 10.81515927 -9.547695199 1.334756385 0.999642914 0.901034337 0.201261835 0.061703845 0.496803454 1.594778614 0.043657761 0.010510819 2.83E-10 9.547695199 -0.098608577 FGQAATMEGIGAIGGT(ph)PPAFNR ddPTM_HeLa_SAHA_4h_R1 6 FGQAATMEGIGAIGGTPPAFNR 22 0 Q15233;Q15233-2 Q15233 NONO Non-POU domain-containing octamer-binding protein 1 0 FGQAATMEGIGAIGGT(1)PPAFNR;FGQAAT(0.126)MEGIGAIGGT(0.874)PPAFNR;FGQAATMEGIGAIGGT(1)PPAFNR;FGQAAT(0.006)MEGIGAIGGT(0.994)PPAFNR;FGQAATMEGIGAIGGT(1)PPAFNR;FGQAATMEGIGAIGGT(1)PPAFNR ;;;;; 211.17 3.90E-23 236884300 6753.32 6978.46 6221.8 6654.46 7350.45 7997.41 7366.32 7143.97 7875.7 6736.45 TRUE FALSE FALSE 7463.665183 7204.566683 7069.674502 6783.266696 6787.260109 7315.985676 6537.442287 6961.237592 7820.892362 7026.891327 1.06215748 1.025285058 1.006088493 0.965329671 0.965897976 1.041141144 0.930346291 0.990656788 1.112994637 1 12.77867087 -6.545342109 3.184381653 1.029821957 0.978902567 0.382495673 0.039530684 0.218603339 4.593658993 0.005312973 0.007933563 2.85E-07 6.545342109 -0.050919389 FGS(ph)NINLEADES ddPTM_HeLa_SAHA_4h_R1 3 FGSNINLEADES 12 0 Q9NQP4 Q9NQP4 PFDN4 Prefoldin subunit 4 1 0 FGS(1)NINLEADES;FGS(0.985)NINLEADES(0.015);FGS(0.999)NINLEADES(0.001) ;; 125.61 0.0012641 10771900 6046.56 6055.71 6029 6179.19 6691.05 6639.9 6680.3 7447.7 6521.1 5845.97 TRUE FALSE FALSE 6682.564923 6251.918977 6850.600722 6298.797158 6178.383195 6074.143165 5928.615062 7257.198618 6475.719134 6098.018376 1.095858443 1.025237805 1.123414247 1.03292525 1.013178842 0.996084759 0.97221994 1.1900913 1.061938278 1 12.57412478 -4.244005203 24.30253243 1.040091258 1.190091481 0.519681806 0.044358366 1834.6603 2557383.646 0.00697425 0.274701376 5.70E-05 4.244005203 0.150000223 FGSTGST(ph)PPVS(ph)PTPSER ddPTM_HeLa_SAHA_4h_R1 2 FGSTGSTPPVSPTPSER 17 0 E7ER32;A0A087X287;A0A087WU73;A0A494BZX7;W0Z7M9;B0QY83;A0A499FIJ6;Q969V6 E7ER32 MKL1;mkl1 MKL/myocardin-like protein 1 2 0 FGS(0.027)T(0.011)GS(0.224)T(0.738)PPVS(0.8)PT(0.197)PS(0.003)ER;FGSTGS(0.002)T(0.998)PPVS(0.994)PT(0.005)PS(0.001)ER ; 159.4 0.00014096 30441000 3418.6 3632.6 3204.6 3698.8 3929.1 4605.9 4120.9 3813 3662.7 3369.1 TRUE FALSE FALSE 3778.184033 3750.298623 3641.306199 3770.395623 3628.053207 4213.451408 3657.205486 3715.468981 3637.210972 3514.358389 1.075070785 1.067136077 1.036122614 1.072854617 1.032351515 1.198924794 1.040646707 1.057225408 1.034957329 1 11.77904561 -11.83441732 0.244399836 0.819048882 1.084151009 0.170171695 0.046148332 20.19151105 0.545715425 1.833046981 0.03007313 1.46E-12 11.83441732 0.265102127 FGSTGST(ph)PPVSPTPSER ddPTM_HeLa_SAHA_4h_R1 2 FGSTGSTPPVSPTPSER 17 0 E7ER32;A0A087X287;A0A087WU73;A0A494BZX7;W0Z7M9;B0QY83;A0A499FIJ6;Q969V6 E7ER32 MKL1;mkl1 MKL/myocardin-like protein 1 1 0 FGSTGS(0.002)T(0.716)PPVS(0.253)PT(0.017)PS(0.013)ER;FGS(0.041)T(0.028)GS(0.266)T(0.662)PPVS(0.003)PTPSER ; 122.12 0.00091168 37478000 4586.3 4459.4 3991.8 4769 5215.8 4564.1 4810.9 5084.1 5585 5025.7 TRUE FALSE FALSE 5068.708077 4603.887486 4535.781716 4861.310891 4816.166531 4175.213003 4269.56487 4954.056084 5546.13353 5242.382522 0.966871085 0.87820518 0.865213802 0.927309457 0.918698037 0.796434252 0.81443215 0.945000878 1.057941405 1 12.35600691 -7.333693133 2.632770364 0.986724824 0.874286135 0.58052029 0.049907333 0.153405376 2.011951309 0.008255166 0.00952067 4.64E-08 7.333693133 -0.112438689 FGT(ph)RERAR ddPTM_HeLa_SAHA_4h_R1 1 FGTRERAR 8 2 I3L4Y1 I3L4Y1 ABR 1 0 FGT(1)RERAR 68.371 0.0079732 0 731.36 661.1 807.88 714.89 829.56 921.7 834.33 845.28 680.62 823.82 TRUE FALSE FALSE 808.2878004 682.5200738 917.9736791 728.7277297 765.999292 843.1659747 740.4489926 823.6589616 675.88351 859.3389119 0.940592576 0.79423853 1.068232413 0.848009696 0.891382063 0.981179792 0.861649557 0.958479769 0.786515658 1 9.747083413 -8.432775181 0.907052962 0.993323538 0.916445317 0 0.097689394 0.651469385 1.111252544 0.024691224 0.014170934 3.69E-09 8.432775181 -0.076878221 FGVIFAGAQK ddPTM_HeLa_SAHA_4h_R1 1 FGVIFAGAQK 10 0 Q9Y617;Q9Y617-2 Q9Y617 PSAT1 Phosphoserine aminotransferase 0 0 135.84 0.00075407 415430 332.29 422.75 1862.9 870.3 702.69 124.41 806.22 60.711 0 128.9 FALSE FALSE TRUE 367.2417868 436.4473774 2116.76631 887.145915 648.850044 113.8095681 715.5020037 59.15810053 0 134.4575098 2.731285053 3.24598736 15.74301289 6.597964786 4.825688389 0.846435192 5.321398594 0.439976172 0 1 7.071006526 -1.440878685 18.78417003 3.372121116 2.184296548 0 4.491757724 0 0 0.614070892 0 0.03623442 1.440878685 -1.187824568 FGVPVIADGGIQNVGHIAK ddPTM_HeLa_SAHA_4h_R1 1 FGVPVIADGGIQNVGHIAK 19 0 P12268;H0Y4R1 P12268 IMPDH2 Inosine-5-monophosphate dehydrogenase 2 0 0 78.166 0.0039945 900760 280.21 298.26 231.48 314.16 364.47 290.34 241.39 189.22 236.84 264.95 FALSE FALSE TRUE 309.6837734 307.9238197 263.0248889 320.2410211 336.5443873 265.6013986 214.2281619 184.3800264 235.1918112 276.3732911 1.12052714 1.114159109 0.951701548 1.158726372 1.217716755 0.961024119 0.775140612 0.667141263 0.850993271 1 8.110474389 -4.778068204 2.715084805 1.071969714 0.690841287 0.63130765 0.102367067 0.098307895 1.424157388 0.011613626 0.051715856 1.67E-05 4.778068204 -0.381128427 FGVVVVGVGR ddPTM_HeLa_SAHA_4h_R1 2 FGVVVVGVGR 10 0 P53004;C9J1E1 P53004 BLVRA Biliverdin reductase A 0 0 ; ; 147.69 5.65E-05 2522400 1373.68 1147.86 1427.38 1873.47 1740.08 1525.1 1771.14 1085.01 1382.07 1744.79 FALSE FALSE TRUE 1518.169965 1185.051417 1621.895913 1909.733721 1606.755446 1395.1529 1571.846666 1057.257015 1372.452062 1820.016436 0.834151789 0.651121272 0.891143553 1.049294767 0.88282469 0.766560605 0.863644215 0.580905202 0.75408773 1 10.82973576 -13.52287875 0.15193559 1.662307424 0.761332387 0 0.143760808 75.53011022 0.779141198 14.95937361 0.286502344 3.00E-14 13.52287875 -0.900975037 FGYVDFESAEDLEK ddPTM_HeLa_SAHA_4h_R1 2 FGYVDFESAEDLEK 14 0 P19338 P19338 NCL Nucleolin 0 0 ; ; 260.33 5.08E-43 28400000 3606.6 3387 3812.2 3618.6 4044.1 4253.8 4099.9 3632.5 4105.5 3881 FALSE FALSE TRUE 3985.958736 3496.741022 4331.706763 3688.643236 3734.241932 3891.352309 3638.568462 3539.58591 4076.929491 4048.328903 0.984593602 0.863749242 1.069998725 0.911152064 0.922415649 0.961224348 0.898782818 0.874332594 1.007064789 1 11.98311079 -1.000000001 0.191157573 1.007259418 0.428032726 0.328274981 0.0515314 42.71215822 0.479025785 0.051474845 7.362477982 0.1 1.000000001 -0.579226692 FHDFDHR ddPTM_HeLa_SAHA_4h_R1 2 FHDFDHR 7 0 Q15424-2;Q15424;Q15424-4;Q15424-3;K7EII0;Q14151 Q15424-2;Q14151 SAFB;SAFB2 Scaffold attachment factor B1;Scaffold attachment factor B2 0 0 ; ; 127.12 0.0022694 15225800 3036.9 2667.7 2909.4 3555.6 3500.3 972.64 3563.5 2802.4 3516.9 3393.3 FALSE FALSE TRUE 3356.335076 2754.13523 3305.87788 3624.423779 3232.10777 889.7656001 3162.525601 2730.718666 3492.425607 3539.601769 0.948223923 0.778091833 0.933968874 1.023963716 0.913127516 0.251374493 0.893469324 0.77147624 0.986671901 1 11.78937134 -5.492321617 24.94859545 0.958505146 0.65057758 0.411193374 0.165237011 459.5926539 375237.537 0.022190357 0.049558987 3.22E-06 5.492321617 -0.307927566 FHILFK ddPTM_HeLa_SAHA_4h_R1 1 FHILFK 6 0 P32004-3;P32004-2;P32004 P32004-3 L1CAM Neural cell adhesion molecule L1 0 0 78.002 0.0175 681870 1096.9 2539.8 3107.4 1960.3 2051.7 0 2868.1 953.3 1410.4 2104.4 FALSE FALSE TRUE 1212.276975 2622.091186 3530.860289 1998.244441 1894.499189 0 2545.37384 928.9159664 1400.584912 2195.130983 0.552257239 1.194503293 1.608496403 0.910307611 0.86304608 0 1.159554423 0.423171088 0.638041612 1 11.10009131 -5.482837354 24.89582289 0.893138281 0.564231399 0.196483126 0.385773393 832.1635121 517398.6504 0.05759188 0.12876148 3.29E-06 5.482837354 -0.328906882 FHLGLFTDR ddPTM_HeLa_SAHA_4h_R1 2 FHLGLFTDR 9 0 Q8TEQ6 Q8TEQ6 GEMIN5 Gem-associated protein 5 0 0 ; ; 95.815 0.0049531 3890100 2500 2400.2 3519.5 3133.5 3226.5 95.502 3142 1872.49 1417.47 2122.86 FALSE FALSE TRUE 2762.96147 2477.968055 3999.119131 3194.153424 2979.286267 87.36469232 2788.453891 1824.594417 1407.605711 2214.386884 1.247732043 1.11903122 1.805971287 1.442454996 1.345422649 0.03945322 1.259244223 0.823972735 0.635663859 1 11.11269159 FHPEPYGLEDDQR ddPTM_HeLa_SAHA_4h_R1 2 FHPEPYGLEDDQR 13 0 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-8;O60716-9;O60716-17;O60716-7;O60716-4;O60716-6;A0A669KB62;O60716-11;O60716-13;O60716-19;O60716-21;O60716-20;O60716-22;O60716-23;O60716-14;O60716-24;O60716-16;O60716-15;O60716-12 O60716 CTNND1 Catenin delta-1 0 0 ; ; 78.287 0.022656 9745200 6810.3 7069.2 5873.2 7047.7 6943.5 4513.8 7402.3 7558.5 8081.1 6758.6 FALSE FALSE TRUE 7526.638601 7298.246718 6673.56911 7184.118425 6411.49053 4129.198846 6569.373722 7365.164515 8024.862967 7049.996322 1.067608869 1.035212841 0.946606041 1.019024422 0.909431755 0.58570227 0.931826546 1.044704732 1.138279029 1 12.78340679 -5.664932502 4.338888199 1.025106898 0.845891394 0.329127714 0.117070371 0.18350599 6.208685333 0.016234254 0.033169747 2.16E-06 5.664932502 -0.179215504 FHVEEEGK ddPTM_HeLa_SAHA_4h_R1 7 FHVEEEGK 8 0 P00558;P00558-2;P07205 P00558;P07205 PGK1;PGK2 Phosphoglycerate kinase 1;Phosphoglycerate kinase 2 0 0 ;;;;;; ;;;;;; 156.51 5.73E-05 87079800 43232.97 48931.8 38489.6 46904.1 48316.7 13021.72 49095 42758.3 64626.3 47553.4 FALSE FALSE TRUE 47780.41214 50517.22243 43734.76224 47811.99668 44614.68488 11912.1962 43570.70139 41664.6046 64176.56032 49603.65979 0.963243687 1.018417242 0.881684183 0.963880425 0.89942325 0.240147526 0.878376748 0.839950213 1.293786801 1 15.59815895 -5.502350422 24.90681384 0.973874759 0.657780898 0.40985209 0.192350749 489.7545963 594213.9943 0.021890975 0.048401991 3.15E-06 5.502350422 -0.316093862 FHVEEEGK(ac)GK ddPTM_HeLa_SAHA_4h_R1 2 FHVEEEGKGK 10 1 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 0 1 ; FHVEEEGK(1)GK;FHVEEEGK(1)GK 121.5 0.0042292 8163400 9518.6 11702.9 8563 10703.6 12743.2 517.18 12890.6 11177 11525.6 8370.1 FALSE TRUE FALSE 10519.81002 12082.08164 9729.921046 10910.78366 11766.81877 473.1133544 11440.11576 10891.10852 11445.39241 8730.975973 1.20488363 1.383817992 1.114413907 1.24966369 1.347709443 0.054187912 1.310290602 1.247410204 1.310894961 1 13.09192722 FICIYPAYLNNKK ddPTM_HeLa_SAHA_4h_R1 1 FICIYPAYLNNKK 13 1 D6RBG4;A0A2R8Y4M3;A0A2U3TZN1;A0A087WWU9;A0A087WYR0;P09132-2;P09132 D6RBG4 SRP19 Signal recognition particle 19 kDa protein 0 0 75.416 0.019846 634150 135.57 0 159.09 177.5 150.95 52.733 199.63 105.72 0 0 FALSE FALSE TRUE 149.8298746 0 180.7699567 180.9357692 139.3842436 48.23985173 177.167107 103.0158355 0 0 0 FICVTPTTCSNTIDLPMS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 FICVTPTTCSNTIDLPMSPR 20 0 G8JLH9;P40763-2;P40763 G8JLH9 STAT3 Signal transducer and activator of transcription;Signal transducer and activator of transcription 3 1 0 FICVTPTTCSNTIDLPMS(1)PR 158.12 2.32E-06 6208100 695.59 620.49 630.19 702.91 912.41 970.88 915.02 815.88 843.92 721.1 TRUE FALSE FALSE 768.7553477 640.5942831 716.0690113 716.5158395 842.5013429 888.155562 812.0595414 795.010971 838.047092 752.19015 1.02202262 0.851638755 0.951978714 0.95257275 1.120064312 1.180759363 1.079593427 1.056928186 1.114142603 1 9.554953604 -5.753234331 24.99728517 0.988929068 1.112313503 0.449025271 0.068785882 122.6838508 373762.1186 0.009071873 0.017901696 1.77E-06 5.753234331 0.123384435 FIDTTSK ddPTM_HeLa_SAHA_4h_R1 1 FIDTTSK 7 0 G5E9G0;P39023;Q92901 G5E9G0 RPL3;RPL3L 60S ribosomal protein L3;60S ribosomal protein L3-like 0 0 127.12 0.012492 8696800 3425.3 3422.4 3027.2 3391.4 2809.1 3587.4 3521.8 3148.2 3081.6 3185.2 FALSE FALSE TRUE 3785.58877 3533.288006 3439.731051 3457.045451 2593.867365 3281.733338 3125.517795 3067.673603 3060.154895 3322.52956 1.139369478 1.063433129 1.035274778 1.040485988 0.780690531 0.987721337 0.940704285 0.9232946 0.921031654 1 11.69806632 -5.970488755 24.59339954 1.063999319 0.915427026 0.369244176 0.074244849 106.0172648 88349.6279 0.010158505 0.01841364 1.07E-06 5.970488755 -0.148572292 FIEEHATK ddPTM_HeLa_SAHA_4h_R1 1 FIEEHATK 8 0 A0A499FI48;P13667 A0A499FI48 PDIA4 Protein disulfide-isomerase A4 0 0 74.376 0.0085578 0 4645.6 5704.9 3967.8 4982.4 5784.5 5846.1 6428.4 5778.2 6153.3 4583.9 FALSE FALSE TRUE 5134.245523 5889.742503 4508.511121 5078.841557 5341.29286 5347.979391 5705.059513 5630.402011 6110.478684 4781.534362 1.073765267 1.231768311 0.942900496 1.062178199 1.11706671 1.118465117 1.1931441 1.177530388 1.277932609 1 12.22325793 -1 0.12010216 0.967135727 1.647940256 0 0.109407073 75.3271657 0.6221469 0.312243456 8.616635271 0.1 1 0.680804529 FIEIAAR ddPTM_HeLa_SAHA_4h_R1 2 FIEIAAR 7 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;Q5RI18;A0A1W2PP34;A0A1W2PPH7;A0A1W2PPL4;A0A1W2PQL0;A0A1W2PQ74;A0A1W2PQD4;A0A1W2PRZ7;A0A1W2PPE9 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 0 ; ; 121.29 0.0037067 13016100 4593.7 4794.9 5147.2 5628.8 5602.1 4292.4 5792.9 3651.2 3808.2 4424.6 FALSE FALSE TRUE 5076.886443 4950.257906 5848.633611 5737.753563 5172.868308 3926.663372 5141.067646 3557.807591 3781.698426 4615.366159 1.099996461 1.072560169 1.267209016 1.24318491 1.120792615 0.850780466 1.113902444 0.770861394 0.819371269 1 12.17222939 -4.256484089 24.10181502 1.072662541 0.770861184 0.289448443 0.137970495 268.4232064 1305495.622 0.016487704 0.179771164 5.54E-05 4.256484089 -0.301801357 FIFNYVYHPK ddPTM_HeLa_SAHA_4h_R1 2 FIFNYVYHPK 10 0 J3QQW9;Q15022 J3QQW9 SUZ12 Polycomb protein SUZ12 0 0 ; ; 91.265 0.0077771 1328390 1591.99 1264.38 1756.46 1813.48 2130.8 1100.1 1636.86 516.11 559.57 1202.84 FALSE FALSE TRUE 1759.442813 1305.346742 1995.821222 1848.582528 1967.538564 1006.365291 1452.676205 502.9086535 555.6759068 1254.700319 1.402281314 1.040365354 1.590675631 1.473325941 1.568134266 0.802076222 1.157787388 0.400819738 0.442875401 1 10.29312711 -4.148576527 1.430614408 1.244783761 2.29E-11 0.278736722 0.351756456 1.142661329 1.701134933 0.038694546 2.182377451 7.10E-05 4.148576527 -1.244783761 FIGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 FIGSPR 6 0 K7ERJ3;P23443-4;P23443-3;P23443-5;P23443-2;P23443 K7ERJ3 RPS6KB1 Ribosomal protein S6 kinase beta-1 1 0 FIGS(1)PR 90.709 0.018538 4109600 4711.5 4918 4182.3 4899.1 5126.2 6470.9 5016.6 5587.3 5739.3 4848 TRUE FALSE FALSE 5207.077187 5077.346427 4752.242064 4993.929165 4733.431663 5919.542916 4452.118965 5444.384956 5699.359744 5057.021006 1.029672841 1.004019248 0.939731525 0.987523912 0.936011865 1.17055929 0.88038372 1.076599237 1.127019195 1 12.30407206 -10.15229818 3.33964754 0.999743349 1.007678298 0 0.086156424 3.941247908 80.85804365 0.063063547 0.009752219 7.04E-11 10.15229818 0.007934949 FIHQQPQSS(ph)SPVYGSSAK ddPTM_HeLa_SAHA_4h_R1 3 FIHQQPQSSSPVYGSSAK 18 0 A0A1B0GTU4;F5GZ78;P49023;P49023-2;P49023-3;A0A1B0GU60;F5H836 A0A1B0GTU4 PXN Paxillin 1 0 FIHQQPQSS(0.792)S(0.208)PVYGSSAK;FIHQQPQSS(0.867)S(0.133)PVYGSSAK;FIHQQPQS(0.032)S(0.572)S(0.396)PVYGSSAK ;; 161.31 4.60E-06 49940400 9828.7 10931.6 9348.8 10127.4 12612.7 8579.2 12222.5 11804.2 11666.1 9884.9 TRUE FALSE FALSE 10862.52776 11285.79101 10622.80578 10323.43047 11646.31765 7848.203895 10847.19213 11502.26566 11584.91466 10311.08641 1.053480431 1.094529767 1.030231476 1.001197164 1.129494719 0.761142287 1.051993136 1.115524126 1.123539673 1 13.33190873 FIHQQPQSSS(ph)PVYGSSAK ddPTM_HeLa_SAHA_4h_R1 3 FIHQQPQSSSPVYGSSAK 18 0 A0A1B0GTU4;F5GZ78;P49023;P49023-2;P49023-3;A0A1B0GU60;F5H836 A0A1B0GTU4 PXN Paxillin 1 0 FIHQQPQS(0.008)S(0.208)S(0.784)PVYGSSAK;FIHQQPQS(0.001)S(0.228)S(0.769)PVYGS(0.001)SAK;FIHQQPQS(0.004)S(0.123)S(0.873)PVYGSSAK ;; 102.48 0.0014285 16236400 8617.9 8532.5 8002.1 8847.8 10632 7690.6 9487.8 9731.7 9597.1 9270 TRUE FALSE FALSE 9524.370262 8808.958598 9092.584515 9019.061963 9817.378457 7035.317614 8420.207773 9482.777205 9530.313 9669.675066 0.984973145 0.910988067 0.940319551 0.932716136 1.015274907 0.727565049 0.870784976 0.980671754 0.98558772 1 13.2392517 -6.557621047 0.553448965 0.998875666 0.877991513 0.205035491 0.072200523 0.842356065 0.528411246 0.019593903 0.041903691 2.77E-07 6.557621047 -0.120884153 FIIPNVVK ddPTM_HeLa_SAHA_4h_R1 2 FIIPNVVK 8 0 P00338-3;P00338;P00338-2;P00338-5;F5GXY2;F5GYU2 P00338-3 LDHA L-lactate dehydrogenase A chain 0 0 ; ; 110.34 0.0079108 6919900 11751.1 12605.2 15478.5 13398 13411.5 8982.1 15377.2 6787 5611 8568.3 FALSE FALSE TRUE 12987.13461 13013.61675 17587.82937 13657.33766 12383.91377 8216.774548 13646.91699 6613.398367 5571.952594 8937.721345 1.453069984 1.456032947 1.967820286 1.528055881 1.385578414 0.919336622 1.52688996 0.739942331 0.623419816 1 13.12569135 -3.284071415 14.53148987 1.289220972 1.182077705 0 0.400430342 0 0 0.047471039 0 0.00051991 3.284071415 -0.107143267 FIIPNVVK(ac)YSPNCK ddPTM_HeLa_SAHA_4h_R1 2 FIIPNVVKYSPNCK 14 1 P00338-3;P00338;P00338-2;P00338-5;F5GXY2;F5GYU2 P00338-3 LDHA L-lactate dehydrogenase A chain 0 1 ; FIIPNVVK(1)YSPNCK;FIIPNVVK(1)YSPNCK 174.05 1.11E-10 1201810 244.07 322.924 324.67 337.05 249.31 255.66 294.57 175.55 246.139 345.41 FALSE TRUE FALSE 269.7424024 333.3869495 368.9143368 343.5740901 230.2079217 233.8763297 261.4242083 171.0596852 244.4260987 360.3023155 0.748655756 0.925297827 1.023902209 0.953571696 0.638929898 0.64911137 0.725569049 0.474767099 0.678391695 1 8.493064113 -5.753053749 24.67584873 0.89861081 0.631415101 0.557038206 0.115959813 92.74307033 272906.2924 0.017137788 0.033819027 1.77E-06 5.753053749 -0.267195709 FIIPQIVK ddPTM_HeLa_SAHA_4h_R1 1 FIIPQIVK 8 0 A0A5F9ZHM4;P07195;A0A3B3IS95;A8MW50;C9J7H8 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain;L-lactate dehydrogenase 0 0 107.66 0.009785 1595400 629.22 717.71 804.77 868.92 818.31 593.41 816.19 374.03 474.8 588.01 FALSE FALSE TRUE 695.4042466 740.9642749 914.4398645 885.7392031 755.6112646 542.8481296 724.3501531 364.4628542 471.4958281 613.3619888 1.133758301 1.208037486 1.490864907 1.444072537 1.231917332 0.885037122 1.180950509 0.594205153 0.768707283 1 9.260594953 -5.253146592 24.51280478 1.147601945 0.916152865 0.236613199 0.235957896 652.3585473 1928309.605 0.032124704 0.080357942 5.58E-06 5.253146592 -0.23144908 FIQELSGSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 FIQELSGSSPK 11 0 I3L254;Q01664 I3L254 TFAP4 Transcription factor AP-4 1 0 FIQELSGS(0.175)S(0.825)PK;FIQELSGS(0.002)S(0.998)PK ; 198.52 4.45E-10 51741000 7221.9 7060.6 6728.3 6763.5 7042.5 7609.2 7480.4 7122 8505.6 8085.9 TRUE FALSE FALSE 7981.532577 7289.368073 7645.197685 6894.417323 6502.905171 6960.853352 6638.685705 6939.829553 8446.408837 8434.52272 0.946293328 0.86423006 0.906417344 0.817404559 0.770986739 0.825281238 0.787084928 0.822788649 1.001409222 1 13.04209072 -6.969686832 0.657825078 0.989395032 0.794362874 0.893391385 0.026292964 0.136065251 0.123233735 0.006743281 0.009915427 1.07E-07 6.969686832 -0.195032158 FIQENVFVAANHNGS(ph)PLSIK ddPTM_HeLa_SAHA_4h_R1 1 FIQENVFVAANHNGSPLSIK 20 0 E9PFD2;P11172-4;P11172-2;P11172-3;P11172 E9PFD2 UMPS Uridine 5-monophosphate synthase;Orotate phosphoribosyltransferase;Orotidine 5-phosphate decarboxylase 1 0 FIQENVFVAANHNGS(0.989)PLS(0.011)IK 100.67 0.00064278 3647800 730.51 1092.5 741.74 1074.7 985.67 1070.2 1251.1 769.11 1031.2 907.11 TRUE FALSE FALSE 807.3483935 1127.897717 842.8204644 1095.502373 910.1481775 979.0129392 1110.322935 749.4372799 1024.023795 946.2199514 0.853235437 1.192003736 0.890723624 1.157767146 0.961878024 1.034656834 1.173430061 0.792032845 1.08222596 1 9.886031771 -7.301523651 24.99727659 0.930694522 1.03176681 0 0.133283069 767.6327792 478708.0096 0.020134989 0.023025449 4.99E-08 7.301523651 0.101072288 FIQESEEK ddPTM_HeLa_SAHA_4h_R1 1 FIQESEEK 8 0 Q13129 Q13129 RLF Zinc finger protein Rlf 0 0 119.17 0.022343 9086700 1046.3 1132.7 853.99 1040.2 1240.9 1456.2 1500.4 1015.8 1277.1 1167.4 FALSE FALSE TRUE 1156.354635 1169.400223 970.3673098 1060.334575 1145.82251 1332.123568 1331.571043 989.8173069 1268.212557 1217.732327 0.949596729 0.960309747 0.796864211 0.870745197 0.940947764 1.093937919 1.093484187 0.81283652 1.041454291 1 10.24998133 -4.216941299 22.55566752 0.967073544 0.812834553 0.224451401 0.088303445 11614.26375 5886688.239 0.01242022 6.988438678 6.07E-05 4.216941299 -0.154238991 FIT(ph)VNPAEKNT(ph)SGMIS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 FITVNPAEKNTSGMISR 17 1 P23470-2;P23470 P23470-2 PTPRG Receptor-type tyrosine-protein phosphatase gamma 3 0 FIT(1)VNPAEKNT(0.572)S(0.572)GMIS(0.857)R 77.899 0.0088785 0 707.97 950.69 929.9 944.61 1030.2 1000.9 1011.4 1016.6 937.9 881.9 TRUE FALSE FALSE 782.4375329 981.4929798 1056.621929 962.8942925 951.2662986 915.6176891 897.5946101 990.596844 931.3730775 919.9230249 0.850546743 1.066929464 1.148598199 1.046711808 1.034071626 0.995319896 0.975727953 1.076825796 1.012446751 1 9.845369338 -7.242066871 24.81766467 0.929424849 1.047422456 0.311366839 0.06132731 584.7432584 749101.415 0.011952327 0.014626902 5.73E-08 7.242066871 0.117997607 FITALK(ac)STGLR ddPTM_HeLa_SAHA_4h_R1 1 FITALKSTGLR 11 1 O94925-3;O94925 O94925-3 GLS "Glutaminase kidney isoform, mitochondrial" 0 1 FITALK(1)STGLR 113.67 0.0054978 981890 223.42 359.68 370.44 208.67 295.27 212.37 452.56 93.145 150.49 156.5 FALSE TRUE FALSE 246.9203407 371.333868 420.921634 212.7091096 272.6464764 194.2748812 401.6367577 90.76248577 149.4427278 163.2474809 1.512552226 2.274668289 2.57842652 1.302985556 1.670142013 1.190063578 2.460293755 0.555980927 0.915436655 1 7.350916919 -8.302551158 1.158792247 1.09368952 1.729529584 0.188662064 0.591407276 0.515841502 1.420385385 0.161645313 0.11315377 4.98E-09 8.302551158 0.635840065 FITIFGTR ddPTM_HeLa_SAHA_4h_R1 2 FITIFGTR 8 0 P08758;D6RBL5;D6RBE9 P08758 ANXA5 Annexin A5;Annexin 0 0 ; ; 125.81 0.0016213 20902000 2974.5 3833.7 3308.7 3829.4 4158.1 5114.2 4805.5 2170.1 4627.8 3937.5 FALSE FALSE TRUE 3287.371557 3957.914395 3759.592405 3903.523574 3839.507276 4678.441388 4264.772493 2114.591984 4595.594763 4107.264895 0.800379728 0.963637481 0.915351822 0.950394892 0.934808778 1.139064927 1.038348537 0.514841881 1.118894174 1 12.00396228 -6.963874567 0.006026954 1.827020622 1.37E-06 0.032617946 0.166450072 23380.47659 100.5666775 15154.17274 15326.29187 1.09E-07 6.963874567 -1.827019256 FIVS(ph)PVPESR ddPTM_HeLa_SAHA_4h_R1 3 FIVSPVPESR 10 0 F5GWT4;Q9H4A3-2;Q9H4A3;Q9H4A3-5;Q9H4A3-6;Q9H4A3-7;Q9H4A3-4;H0YH68 F5GWT4 WNK1 Serine/threonine-protein kinase WNK1 1 0 FIVS(0.985)PVPES(0.015)R;FIVS(1)PVPESR;FIVS(0.999)PVPES(0.001)R ;; 110.93 0.005371 17766600 4046.31 4499.8 4395.91 3901.72 5075.7 5024.98 4673.61 3682.52 4244.62 3926.8 TRUE FALSE FALSE 4471.919451 4645.596472 4994.961722 3977.243433 4686.800963 4596.823434 4147.723103 3588.326471 4215.081344 4096.103565 1.091749605 1.13415015 1.219442244 0.970982147 1.144209585 1.122242971 1.012602107 0.876034117 1.029046575 1 12.00003648 -4.341601167 3.190805281 1.069505103 0.863410791 0.430709777 0.072159963 0.240251662 3.882381628 0.010801743 0.108495062 4.55E-05 4.341601167 -0.206094312 FKAEAPLPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 FKAEAPLPSPK 11 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 FKAEAPLPS(1)PK 73.593 0.018533 66120000 4354 4935.2 4774.4 5115.3 5514.7 6043.3 6666.7 6018.5 5233.7 4691.8 TRUE FALSE FALSE 4811.973697 5095.103718 5425.030368 5214.314028 5092.164877 5528.376841 5916.54537 5864.555485 5197.278256 4894.086459 0.983222045 1.0410735 1.108486827 1.065431531 1.040473012 1.129603428 1.208917215 1.198294214 1.061950642 1 12.25682387 -4.350929047 0.372276977 0.987518229 1.388235931 0.70638662 0.039495145 1.597077829 0.159648588 0.010975207 0.28283058 4.46E-05 4.350929047 0.400717702 FKGQILMPNIGYGSNKK ddPTM_HeLa_SAHA_4h_R1 4 FKGQILMPNIGYGSNKK 17 2 D3YTB1;F8W727;P62910 D3YTB1 RPL32 60S ribosomal protein L32 0 0 ;;; ;;; 183.41 6.23E-18 21405860 14346.07 11044.46 14361.2 15121.75 15407.35 14456.41 14494.99 9550.95 12666.28 15020.52 FALSE FALSE TRUE 15855.05546 11402.30775 16318.26955 15414.45334 14226.84217 13224.64254 12863.97558 9306.650529 12578.13433 15668.12813 1.011930419 0.727738991 1.041494518 0.983809503 0.908011605 0.844047383 0.821028235 0.593986113 0.80278475 1 13.93554521 -3.5595944 0.557632559 0.991147818 7.85E-13 0.402664434 0.105049105 3.366976066 0.406313957 0.015972894 2.582799098 0.00027568 3.5595944 -0.991147818 FKIDS(ph)NISPK ddPTM_HeLa_SAHA_4h_R1 1 FKIDSNISPK 10 1 Q9H501 Q9H501 ESF1 ESF1 homolog 1 0 FKIDS(0.742)NIS(0.258)PK 117.09 0.015487 8188700 1172.6 1069.9 967.79 1135.6 1002.7 1020.5 1077.4 1128 1018.3 1049.9 TRUE FALSE FALSE 1295.939448 1104.565462 1099.675381 1157.58118 925.8733426 933.5476588 956.1681164 1099.147393 1011.213567 1095.166327 1.183326602 1.008582381 1.004117232 1.056991209 0.845418015 0.852425459 0.873080274 1.003635125 0.923342457 1 10.09693428 -5.808412825 7.161993468 1.073732972 0.889350753 0.329296901 0.081244904 0.126609417 15.45045224 0.012595153 0.023091254 1.55E-06 5.808412825 -0.184382218 FKIDSNIS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 FKIDSNISPK 10 1 Q9H501 Q9H501 ESF1 ESF1 homolog 1 0 FKIDSNIS(1)PK 120.57 0.013282 8368000 766.67 843.27 612.02 801.38 1016.9 1216.7 898.71 733.21 766.84 841.21 TRUE FALSE FALSE 847.3118682 870.5925013 695.4228983 816.8918687 938.9853417 1113.030315 797.5847855 714.4555499 761.503498 877.4786799 0.965621032 0.992152312 0.792523983 0.930953523 1.070094765 1.268441434 0.908950615 0.814214141 0.867831339 1 9.777220262 -4.52548315 24.99997455 0.99149643 0.83789816 0.166100306 0.119468814 82.68827211 793749.2952 0.015903566 0.060226569 2.98E-05 4.52548315 -0.15359827 FKIPSLGWS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 1 FKIPSLGWSPSK 12 1 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 FKIPS(0.001)LGWS(0.952)PS(0.047)K 69.805 0.020365 901220 1113.9 1146 841.43 989.12 1116.3 907.99 1199.7 1003.7 1210.3 1055.4 TRUE FALSE FALSE 1231.065113 1183.131152 956.0956984 1008.265848 1030.769335 830.6241438 1064.706599 978.0268073 1201.877424 1100.903459 1.118231669 1.074691102 0.868464615 0.915853102 0.936294029 0.754493173 0.967120768 0.888385625 1.091719182 1 10.10447225 -6.76246389 24.99998887 1.058806092 0.889345216 0.688935549 0.059919165 13.72679868 334963.7275 0.010554999 0.014319666 1.73E-07 6.76246389 -0.169460876 FKMPFLSISSPK ddPTM_HeLa_SAHA_4h_R1 2 FKMPFLSISSPK 12 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ; ; 219.42 1.36E-33 4009800 4622.76 3979.42 5547.23 4420.8 5581.5 3756.11 5453.1 2638 1860.69 4223.78 FALSE FALSE TRUE 5109.003107 4108.355819 6303.177616 4506.370977 5153.846676 3436.068297 4839.502836 2570.52378 1847.741307 4405.887826 1.159585379 0.932469455 1.430625986 1.022806561 1.16976348 0.779881021 1.09841717 0.583429239 0.419380016 1 12.10521705 -3.845397147 1.070943714 1.088042636 2.63E-17 0.103369842 0.267373471 2.739170442 1.361918019 0.023117229 4.187554466 0.000142759 3.845397147 -1.088042636 FKVQGEAVSNIQENTQTPTVQEES(ph)EEEEVDETGVEVK ddPTM_HeLa_SAHA_4h_R1 3 FKVQGEAVSNIQENTQTPTVQEESEEEEVDETGVEVK 37 1 F8VZJ2;F8W0W4;H0YHX9;Q13765;E9PAV3-2;E9PAV3 F8VZJ2 NACA "Nascent polypeptide-associated complex subunit alpha;Nascent polypeptide-associated complex subunit alpha, muscle-specific form" 1 0 FKVQGEAVSNIQENT(0.097)QT(0.097)PT(0.097)VQEES(0.5)EEEEVDET(0.208)GVEVK;FKVQGEAVSNIQENT(0.001)QT(0.03)PT(0.152)VQEES(0.811)EEEEVDET(0.005)GVEVK;FKVQGEAVS(0.001)NIQENT(0.065)QT(0.227)PT(0.258)VQEES(0.445)EEEEVDET(0.004)GVEVK ;; 116.82 9.36E-16 14161700 1211.44 1429.54 1384.32 1981.83 2076.49 1820.24 1867.21 1705.56 2065.04 1622.84 TRUE FALSE FALSE 1338.864817 1475.858034 1572.96792 2020.191185 1917.389785 1665.145312 1657.106617 1661.934245 2050.669219 1692.808574 0.790913301 0.871839886 0.929206021 1.193396121 1.132667812 0.983658363 0.978909631 0.981761476 1.211400538 1 10.72520312 -6.498914065 23.89349984 0.89650011 1.051450936 0.013650459 0.127706898 380.0358879 378907.0744 0.015955741 0.024276546 3.17E-07 6.498914065 0.154950826 FLAVGLVDNTVR ddPTM_HeLa_SAHA_4h_R1 2 FLAVGLVDNTVR 12 0 Q15393 Q15393 SF3B3 Splicing factor 3B subunit 3 0 0 ; ; 160.75 8.52E-07 1733540 378.76 550.36 752.01 643.09 762.1 707.15 1009.28 425.57 487.21 536.862 FALSE FALSE TRUE 418.5997146 568.1920251 854.4900065 655.5379369 703.7080626 646.8968417 895.7131581 414.6845356 483.8194659 560.0087482 0.747487813 1.014612766 1.525851175 1.170585172 1.25660191 1.155154886 1.599462796 0.740496531 0.863949836 1 9.129305554 -6.989792159 24.51997076 0.880773502 1.252780323 0.359258414 0.224890096 125.8031349 302186.4198 0.034303094 0.045053835 1.02E-07 6.989792159 0.372006821 FLCADYAEQDELDYHR ddPTM_HeLa_SAHA_4h_R1 3 FLCADYAEQDELDYHR 16 0 S4R3H4;E7EQT4;Q9UKV3;G3V3B0;Q9UKV3-3;Q9UKV3-2;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 0 0 ;; ;; 200 4.63E-15 7727300 4417.97 5503.2 5026.94 5823.6 5870.4 5855.9 6128.2 5640.8 6725.3 6094 FALSE FALSE TRUE 4882.672355 5681.507291 5711.985204 5936.324199 5420.61122 5356.944376 5438.638807 5496.516504 6678.49809 6356.742163 0.768109234 0.893776583 0.898571164 0.933862668 0.852734165 0.842718524 0.855570144 0.864675075 1.050616482 1 12.63407186 -9.586001612 1.38349689 0.99976079 0.853519263 0.647758149 0.045914813 0.267758459 0.921595603 0.036094713 0.008460713 2.59E-10 9.586001612 -0.146241528 FLDGIYVSEK ddPTM_HeLa_SAHA_4h_R1 2 FLDGIYVSEK 10 0 H0Y9V9;D6RAN4;A0A2R8Y5Y7;P32969;H0Y9R4 H0Y9V9 RPL9 60S ribosomal protein L9 0 0 ; ; 132.88 0.0011847 1374090 783.7 838.67 646.85 853.67 1062.42 723.25 1107.15 835.07 659.98 855.37 FALSE FALSE TRUE 866.1331617 865.8434583 734.9993494 870.1940173 981.0176091 661.6250311 982.5705681 813.7101186 655.3871454 892.2491868 0.970730122 0.970405433 0.823760178 0.975281379 1.099488376 0.741524947 1.101228875 0.911976307 0.734533755 1 9.801302871 -7.77991924 1.392360907 0.991461893 0.947866556 0 0.131622755 1.108931621 4.480555757 0.021356803 0.020203634 1.66E-08 7.77991924 -0.043595337 FLEEHPGGEEVLR ddPTM_HeLa_SAHA_4h_R1 2 FLEEHPGGEEVLR 13 0 P00167-2;P00167-3;P00167 P00167-2 CYB5A Cytochrome b5 0 0 ; ; 98 0.0027048 2392400 3678.1 3907 3516.5 4103.9 4441.9 4231.4 4800.9 3520.4 3629 4501.2 FALSE FALSE TRUE 4064.979434 4033.589363 3995.710307 4183.336919 4101.562582 3870.860915 4260.690097 3430.353265 3603.745494 4695.26876 0.865760756 0.859075288 0.851007793 0.890968575 0.873552248 0.824417326 0.907443283 0.730597851 0.767526989 1 12.19699203 -13.52287875 0.175220945 1.627174167 0.816175394 0 0.085775126 24.38955472 0.275566011 5.19698904 0.059273314 3.00E-14 13.52287875 -0.810998772 FLEESVSMS(ph)PEER ddPTM_HeLa_SAHA_4h_R1 3 FLEESVSMSPEER 13 0 A0A087WTB8;Q5TBK7;P15374 A0A087WTB8 UCHL3 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase isozyme L3 1 0 FLEES(0.007)VS(0.014)MS(0.98)PEER;FLEESVSMS(1)PEER;FLEESVSMS(1)PEER ;; 259.7 2.44E-42 16891320 2143.55 2587.2 2394.87 2073.1 2822.81 2831.13 2750.52 2571.02 2658.01 2310.01 TRUE FALSE FALSE 2369.018424 2671.026978 2721.230412 2113.227848 2606.526908 2589.901796 2441.024251 2505.257031 2639.512692 2409.605836 0.983155995 1.108491247 1.129325955 0.877001465 1.081723354 1.07482384 1.013038819 1.039695785 1.095412641 1 11.23458145 FLEQS(ph)MDIEDLK ddPTM_HeLa_SAHA_4h_R1 2 FLEQSMDIEDLK 12 0 O95239;O95239-2;Q2VIQ3 O95239 KIF4A;KIF4B Chromosome-associated kinesin KIF4A;Chromosome-associated kinesin KIF4B 1 0 FLEQS(1)MDIEDLK;FLEQS(1)MDIEDLK ; 144.68 0.00050802 4997200 613.81 740.9 570.03 922.31 725.17 1124.93 896.64 815.32 872.81 794.83 TRUE FALSE FALSE 678.3733521 764.9056461 647.7107198 940.1626437 669.6076313 1029.079635 795.7477074 794.465295 866.7360441 829.0990111 0.818205477 0.922574549 0.781222401 1.13395702 0.807632891 1.241202343 0.95977404 0.958227286 1.045395101 1 9.695400589 -6.2596724 24.99685116 0.903674183 1.017277218 0.14363027 0.129042997 222.8552347 3152655.175 0.018584257 0.029805745 5.50E-07 6.2596724 0.113603035 FLESAAADFS(ph)DEDEDDDVDGREK ddPTM_HeLa_SAHA_4h_R1 3 FLESAAADFSDEDEDDDVDGREK 23 1 O43815-2;O43815 O43815-2 STRN Striatin 1 0 FLES(0.006)AAADFS(0.994)DEDEDDDVDGREK;FLESAAADFS(1)DEDEDDDVDGREK;FLES(0.001)AAADFS(0.999)DEDEDDDVDGREK ;; 131.04 8.32E-07 24823600 3770.6 3348.97 3518.45 3739.89 3858.95 4366.9 4207.41 3914.49 3736.05 3898.23 TRUE FALSE FALSE 4167.209008 3457.478825 3997.926043 3812.280979 3563.278085 3994.815552 3733.981154 3814.363014 3710.050524 4066.301773 1.024815481 0.850276005 0.983184787 0.937530265 0.876294551 0.982419844 0.918274482 0.938042287 0.912389373 1 11.98950157 -7.29912251 24.99654553 1.011718429 0.929068079 0.09169201 0.050211586 312.2129221 207101.0358 0.006190156 0.007078817 5.02E-08 7.29912251 -0.082650351 FLESPS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 FLESPSR 7 0 Q9ULM3 Q9ULM3 YEATS2 YEATS domain-containing protein 2 1 0 FLES(0.077)PS(0.923)R 89.029 0.020842 8434400 1956.5 1988.3 2111 1956 2119.5 2436 2097.1 1931.7 1863.5 1906.9 TRUE FALSE FALSE 2162.293647 2052.722225 2398.676086 1993.861208 1957.104368 2228.439095 1861.128789 1882.289911 1850.531752 1989.115791 1.087062732 1.03197724 1.205900681 1.002385692 0.983906707 1.120316427 0.935656334 0.946294791 0.930328822 1 10.95791155 -4.737875299 24.96359286 1.050442138 0.940975422 0.239635733 0.073821675 210.8747945 223395.3736 0.008934232 0.033388439 1.83E-05 4.737875299 -0.109466717 FLESYAT(ph)DNEK ddPTM_HeLa_SAHA_4h_R1 1 FLESYATDNEK 11 0 A0A087WYC8;Q9BZI7-2;Q9BZI7 A0A087WYC8 UPF3B Regulator of nonsense transcripts 3B 1 0 FLESYAT(1)DNEK 138.45 0.0017129 3873000 923.33 1028.2 876.87 997.39 947.44 1155.6 790.12 1197.6 958.5 867.62 TRUE FALSE FALSE 1020.450086 1061.514355 996.3652771 1016.695926 874.8473519 1057.136379 701.2136181 1166.967126 951.8297205 905.0273442 1.127535088 1.172908599 1.100922843 1.12338697 0.96665295 1.168071203 0.774798267 1.289427478 1.05171377 1 9.821817572 -3.957838843 21.94493721 1.061484219 3.208334688 0.277470889 0.113394809 236.1537699 282333.2291 0.014456255 29696.82151 0.000110195 3.957838843 2.146850469 FLGS(ph)VIMRR ddPTM_HeLa_SAHA_4h_R1 2 FLGSVIMRR 9 1 H7C3E5;O60244 H7C3E5 MED14 Mediator of RNA polymerase II transcription subunit 14 1 0 FLGS(1)VIMRR;FLGS(1)VIMRR ; 69.346 0.019906 9512300 3926.3 4243.2 4364.1 4815.1 4747.6 4017 4557.3 3609.3 2704.3 3300.9 TRUE FALSE FALSE 4339.286249 4380.682464 4958.816821 4908.303223 4383.839914 3674.729001 4044.50061 3516.979332 2685.480556 3443.217953 1.260241526 1.272264063 1.440169309 1.425498847 1.273181069 1.067236826 1.174628114 1.021422222 0.779933363 1 11.74954179 -9.095533081 0.911051838 1.003119852 1.247260145 0.434690485 0.146799107 0.551664128 0.842636071 0.085851915 0.026639509 8.03E-10 9.095533081 0.244140293 FLGSDEEDKDSLQELS(ph)TEQK ddPTM_HeLa_SAHA_4h_R1 1 FLGSDEEDKDSLQELSTEQK 20 1 Q99567;J3KMX1 Q99567 NUP88 Nuclear pore complex protein Nup88 1 0 FLGSDEEDKDSLQELS(0.801)T(0.198)EQK 88.239 0.00094681 7712100 676.73 527 449.64 703.38 622.68 858.28 657.79 789.24 811.87 667.94 TRUE FALSE FALSE 747.9115663 544.0751458 510.9145976 716.994937 574.9703929 785.1497154 583.773738 769.0523836 806.2201306 696.7381622 1.07344711 0.78088897 0.733294981 1.029073727 0.825231664 1.126893513 0.837866748 1.103789666 1.157135025 1 9.444472776 -7.30391004 24.98023741 1.034683363 0.917825976 0.209185061 0.132717147 628.9011776 369903.3371 0.020800268 0.023786109 4.97E-08 7.30391004 -0.116857387 FLGVAEQLHNEGFK ddPTM_HeLa_SAHA_4h_R1 1 FLGVAEQLHNEGFK 14 0 P31327;P31327-3;P31327-2 P31327 CPS1 "Carbamoyl-phosphate synthase [ammonia], mitochondrial" 0 0 71.933 0.019213 921830 197.07 209.99 337.55 193.85 380.27 180.16 344.66 157.99 245.77 159.48 FALSE FALSE TRUE 217.7987268 216.7938138 383.5495561 197.6022471 351.1337948 164.8093544 305.8779497 153.9488446 244.0596666 166.3559633 1.30923306 1.30319232 2.305595475 1.187827855 2.110737649 0.990703015 1.838695432 0.925418251 1.467092984 1 7.378129772 -7.833590012 1.068781378 1.075193136 1.547801544 0.04100215 0.450721695 0.51118018 1.229849655 0.099156362 0.087934628 1.47E-08 7.833590012 0.472608408 FLIATGERPR ddPTM_HeLa_SAHA_4h_R1 2 FLIATGERPR 10 1 Q16881;A0A087WSY9;A0A087WSW9;E9PIR7;A0A182DWI3;Q16881-5;F8W809;Q16881-2;Q16881-4;Q16881-3;Q16881-6;E2QRB9;Q16881-7;E9PKD3 Q16881 TXNRD1 "Thioredoxin reductase 1, cytoplasmic" 0 0 ; ; 159.79 8.33E-08 12097500 3318.2 3190 3899.7 3577 4096.8 4686.1 4424.7 2386 3194.1 3953.3 FALSE FALSE TRUE 3667.2235 3293.358093 4431.130807 3646.238007 3782.904069 4286.817917 3926.821111 2324.969575 3171.871998 4123.74611 0.889294201 0.798632604 1.074540161 0.884205261 0.917346502 1.03954458 0.95224609 0.563800368 0.769172474 1 12.0097398 -4.260801768 24.60532922 0.945351842 0.563800229 0.561381841 0.094248191 18.46268046 712267.6644 0.01060587 0.084653663 5.49E-05 4.260801768 -0.381551613 FLIPNASQAESK ddPTM_HeLa_SAHA_4h_R1 2 FLIPNASQAESK 12 0 E7EX29;P63104;E7ESK7;B0AZS6;P63104-2 E7EX29 YWHAZ 14-3-3 protein zeta/delta 0 0 ; ; 183.85 4.77E-16 2048700 3614.3 3817.1 4054.4 4336.7 4054.9 3817.5 4501.3 3567.1 2623.3 4007.4 FALSE FALSE TRUE 3994.468657 3940.776544 4606.912518 4420.643099 3744.214438 3492.227523 3994.801877 3475.858747 2605.044242 4180.178626 0.955573676 0.942729222 1.102085085 1.057524928 0.895706804 0.835425429 0.955653391 0.831509622 0.623189695 1 12.02934888 -5.632902252 7.489124746 0.990565745 0.879712154 0 0.128673189 0.157711912 9.868149992 0.008344638 0.016738712 2.33E-06 5.632902252 -0.11085359 FLIVAHDDGR ddPTM_HeLa_SAHA_4h_R1 2 FLIVAHDDGR 10 0 Q16658 Q16658 FSCN1 Fascin 0 0 ; ; 120.99 0.0011775 4018500 1819.98 1904.59 2954.46 3078.98 2722.4 2446.29 2910.29 1543.62 2401.66 2181.87 FALSE FALSE TRUE 2011.413847 1966.299966 3357.078423 3138.57811 2513.8103 2237.85233 2582.81651 1504.136436 2384.946653 2275.941094 0.883772367 0.863950289 1.475028696 1.379024316 1.104514659 0.983264609 1.134834516 0.660885486 1.047894719 1 11.1522475 FLLLYATQQGQAK ddPTM_HeLa_SAHA_4h_R1 1 FLLLYATQQGQAK 13 0 H0Y8S9;Q9UBK8;Q9UBK8-1;D6RIS8;D6RAY3;A0A3P9MRF3;H0Y9Q0;D6RF21;D6RGC7;H0Y963;D6RAZ2 H0Y8S9 MTRR Methionine synthase reductase 0 0 165.63 2.66E-07 0 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 FLMPEAYPS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 3 FLMPEAYPSSPR 12 0 O43166-3;O43166-2;O43166 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 FLMPEAYPS(0.575)S(0.425)PR;FLMPEAYPS(0.868)S(0.132)PR;FLMPEAYPS(0.5)S(0.5)PR ;; 116.71 0.0017505 20384700 3450.06 3682.03 3423 3866.27 3968.76 4290.6 4091.13 4160.12 4205.25 3650.84 TRUE FALSE FALSE 3812.95314 3801.330188 3889.468614 3941.107247 3664.674466 3925.016742 3630.785285 4053.710154 4175.985323 3808.245579 1.00123615 0.9981841 1.021328203 1.034887894 0.962299933 1.030662719 0.953401037 1.064456078 1.096564083 1 11.8949108 -4.225529179 23.84602587 1.001198421 1.064456343 0.101009567 0.039129464 9058.708454 6015199.652 0.002964764 0.962646465 5.95E-05 4.225529179 0.063257922 FLMPEAYPSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 FLMPEAYPSSPR 12 0 O43166-3;O43166-2;O43166 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 FLMPEAYPS(0.291)S(0.709)PR 160.22 0.00016235 11113000 3267.3 2870.7 2409.7 3452.8 3321.4 3729.8 3477.5 3273.5 3351.8 3126.2 TRUE FALSE FALSE 3610.969605 2963.712564 2738.081367 3519.633937 3066.91505 3412.000057 3086.202548 3189.76861 3328.474551 3260.985781 1.107324548 0.908839462 0.839648361 1.079315941 0.940487097 1.046309394 0.946401719 0.978160846 1.020695818 1 11.67109244 -7.260930772 24.99997685 1.050681036 0.964217346 0.221907425 0.068060304 49.45414996 2430887.129 0.012186489 0.014449959 5.48E-08 7.260930772 -0.08646369 FLPGMAIGYSSSK ddPTM_HeLa_SAHA_4h_R1 1 FLPGMAIGYSSSK 13 0 K7EQ47;P19623 K7EQ47 SRM Spermidine synthase 0 0 140.49 0.00033511 266380 240.88 212.54 461.47 331.54 216.43 117.07 387.72 186.31 129.23 183.83 FALSE FALSE TRUE 266.2168636 219.4264355 524.3567284 337.9574361 199.8471802 107.0949774 344.0927252 181.54446 128.3306779 191.7558109 1.388311845 1.144301361 2.734502416 1.762436478 1.042196214 0.558496647 1.794431801 0.946748154 0.669240099 1 7.583126487 -3.976149779 17.5537702 1.307771609 9.52E-05 0.034472724 0.603880572 29422774.64 531971796.4 0.080526772 1098147000 0.000105645 3.976149779 -1.307676432 FLPISS(ph)TPQPERR ddPTM_HeLa_SAHA_4h_R1 1 FLPISSTPQPERR 13 1 J3KNG6;Q08AE8-4;Q08AE8-3;Q08AE8-5;Q08AE8-2;Q08AE8 J3KNG6 SPIRE1 Protein spire homolog 1 1 0 FLPIS(0.061)S(0.573)T(0.366)PQPERR 113.59 0.0010125 3926800 1361.9 1343.6 1305.9 1642 1681 1543.7 1158.3 1397.2 1566.3 1361.8 TRUE FALSE FALSE 1505.150891 1387.133522 1483.861251 1673.783284 1552.202143 1412.168075 1027.965036 1361.461647 1555.399991 1420.513862 1.05958198 0.976501221 1.044594699 1.178294228 1.092704678 0.994124811 0.723657166 0.958428976 1.094955869 1 10.4721972 -4.929214865 7.298396604 1.041397008 0.842565081 0.560028593 0.076239354 0.123239243 10.6381207 0.010182658 0.030884045 1.18E-05 4.929214865 -0.198831927 FLPISST(ph)PQPER ddPTM_HeLa_SAHA_4h_R1 3 FLPISSTPQPER 12 0 J3KNG6;Q08AE8-4;Q08AE8-3;Q08AE8-5;Q08AE8-2;Q08AE8 J3KNG6 SPIRE1 Protein spire homolog 1 1 0 FLPIS(0.027)S(0.182)T(0.791)PQPER;FLPIS(0.002)S(0.023)T(0.975)PQPER;FLPIS(0.006)S(0.032)T(0.962)PQPER ;; 198.52 5.32E-10 50157400 5336.3 5260.7 4837 5043.7 6054.7 5590.3 5911.6 5971.9 6437.4 5633.1 TRUE FALSE FALSE 5897.596518 5431.150132 5496.16117 5141.328107 5590.790194 5113.97499 5246.41121 5819.147445 6392.601609 5875.970509 1.003680415 0.924298399 0.93536228 0.874975138 0.951466687 0.870320057 0.892858669 0.990329587 1.087922684 1 12.52061144 -7.231717603 4.533938354 1.001929901 0.916429719 0.551122093 0.043447302 0.100705782 5.120953337 0.005335479 0.006429891 5.87E-08 7.231717603 -0.085500182 FLPISST(ph)PQPERR ddPTM_HeLa_SAHA_4h_R1 1 FLPISSTPQPERR 13 1 J3KNG6;Q08AE8-4;Q08AE8-3;Q08AE8-5;Q08AE8-2;Q08AE8 J3KNG6 SPIRE1 Protein spire homolog 1 1 0 FLPIS(0.007)S(0.171)T(0.822)PQPERR 90.348 0.013677 4744100 1333.3 1078.8 1183.2 1232.6 1153.3 1559.4 1445.2 1127.2 1292.4 1388 TRUE FALSE FALSE 1473.542611 1113.753828 1344.440334 1256.458755 1064.934403 1426.530347 1282.582292 1098.367856 1283.406083 1447.843473 1.017749943 0.769250163 0.928581272 0.867813945 0.735531446 0.985279399 0.885857012 0.758623344 0.88642599 1 10.49968992 -7.279958011 24.85228508 1.008381924 0.853687416 0.268700884 0.083257981 438.079243 587907.6064 0.01188697 0.013606734 5.25E-08 7.279958011 -0.154694508 FLPLFDR ddPTM_HeLa_SAHA_4h_R1 1 FLPLFDR 7 0 P61604;B8ZZL8;S4R3N1 P61604 HSPE1;HSPE1-MOB4 "10 kDa heat shock protein, mitochondrial" 0 0 128.75 0.00072192 2354100 733.67 905.15 1190 773.13 1073.1 730.11 1432.7 434.85 701.83 1176.7 FALSE FALSE TRUE 810.8407768 934.4774539 1352.167003 788.0950491 990.8793098 667.9005205 1271.488825 423.7271667 696.9459079 1227.433296 0.660598649 0.761326467 1.101621577 0.642067518 0.807277522 0.544144047 1.035892402 0.345214007 0.567807563 1 10.26142891 -9.438675297 1.051451936 1.00701375 0.7444644 0 0.247341318 0.739488589 1.398131382 0.150318827 0.03372302 3.64E-10 9.438675297 -0.26254935 FLPS(ph)PVVIK ddPTM_HeLa_SAHA_4h_R1 2 FLPSPVVIK 9 0 Q13618-3;Q13618-2;Q13618;H7C399;A0A087WTG3 Q13618-3 CUL3 Cullin-3 1 0 FLPS(1)PVVIK;FLPS(1)PVVIK ; 118.4 0.0039022 67849000 4763.4 4111 3677.1 4333.5 4709.6 5886.4 4592.8 5563.5 5416.8 4853.1 TRUE FALSE FALSE 5264.436267 4244.199097 4178.196038 4417.381159 4348.751465 5384.845604 4076.006056 5421.193726 5379.104048 5062.340891 1.039921329 0.838386665 0.825348614 0.872596542 0.859039634 1.063706637 0.805162304 1.070886738 1.062572467 1 12.30558894 -7.27447891 24.70820873 1.018851741 0.901201351 0.301098622 0.08912384 599.0869397 1135189.218 0.014072162 0.016144077 5.32E-08 7.27447891 -0.117650391 FLPSELRDEH ddPTM_HeLa_SAHA_4h_R1 1 FLPSELRDEH 10 1 Q9Y490 Q9Y490 TLN1 Talin-1 0 0 139.38 0.0017637 8769200 1694.2 1675.9 2094.9 2037.8 1929.9 1766.7 2010.5 1761.5 1568.3 1731 FALSE FALSE TRUE 1872.403729 1730.20026 2380.382062 2077.244566 1782.031479 1616.167221 1784.273249 1716.443381 1557.386073 1805.631881 1.036979768 0.958224252 1.318309721 1.150425282 0.98692956 0.895070162 0.988171103 0.95060538 0.862515825 1 10.81828808 -5.530335505 24.92817724 1.04720805 0.94764255 0.15631813 0.11529426 244.0361848 815819.5322 0.015508202 0.031067146 2.95E-06 5.530335505 -0.0995655 FLQARQAACIIQS(ph)HWR ddPTM_HeLa_SAHA_4h_R1 1 FLQARQAACIIQSHWR 16 1 A0A590UJ54;A0A2R8Y4M9;A8MYZ5 A0A590UJ54 IQCF6 IQ domain-containing protein F6 1 0 FLQARQAACIIQS(1)HWR 79.089 0.0064503 0 3589.8 3536 3312.9 3171.6 4316.6 3851.3 3888 3066.6 2844.5 2909.2 TRUE FALSE FALSE 3967.391635 3650.56872 3764.364759 3232.990904 3985.863041 3523.147573 3450.512007 2988.160812 2824.704893 3034.629849 1.307372507 1.202970017 1.240469166 1.065365816 1.31345938 1.160980992 1.137045432 0.984687082 0.930823538 1 11.56730484 -4.257744758 2.92859562 1.165920426 0.952903992 0.143279265 0.119014789 0.604394169 7.300456347 0.017422058 0.303466955 5.52E-05 4.257744758 -0.213016434 FLQT(ph)MRLGRS(ph)PS(ph)YLSSPQQGSQPSESS(ph)GGDSR ddPTM_HeLa_SAHA_4h_R1 1 FLQTMRLGRSPSYLSSPQQGSQPSESSGGDSR 32 2 Q494V2;Q494V2-2 Q494V2 CCDC37 Coiled-coil domain-containing protein 37 4 0 FLQT(0.997)MRLGRS(0.767)PS(0.372)Y(0.267)LS(0.295)S(0.295)PQQGS(0.019)QPS(0.043)ES(0.15)S(0.397)GGDS(0.398)R 46.145 0.0077556 2594200 128.68 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 142.2151528 0 0 0 0 0 0 0 0 0 0 FLRPS(ph)PNVK ddPTM_HeLa_SAHA_4h_R1 1 FLRPSPNVK 9 1 Q5JPC9;D3YTG3;H7C556;Q7Z7G0 Q5JPC9 DKFZp667H216;ABI3BP Target of Nesh-SH3 1 0 FLRPS(1)PNVK 135.84 0.0065215 2606600 399.84 491.5 606.1 342.45 589.18 612.89 592.02 585.97 640.11 488.55 TRUE FALSE FALSE 441.8970057 507.4249225 688.6961516 349.0786149 544.0371557 560.668324 525.4043515 570.9817359 635.6554224 509.6137814 0.867121381 0.995704867 1.351408021 0.684986607 1.067547966 1.100182814 1.030985367 1.120420516 1.247327772 1 8.993260482 -7.000120917 25 0.936944458 1.054058708 0 0.183593452 7.336148958 1517187.462 0.024306906 0.031762605 1.00E-07 7.000120917 0.11711425 FLS(ph)ARGGMEAGRQR ddPTM_HeLa_SAHA_4h_R1 1 FLSARGGMEAGRQR 14 2 Q96CM8-2 Q96CM8-2 1 0 FLS(1)ARGGMEAGRQR 76.341 0.014592 4790100 311.05 320.94 156.09 325.21 319.25 425.93 337.34 370.56 431.51 297.92 TRUE FALSE FALSE 343.7676661 331.3386666 177.3611323 331.5049098 294.789134 389.6383678 299.3816154 361.0816118 428.5070868 310.7647892 1.106198894 1.066204017 0.570724672 1.066738966 0.948592454 1.253804747 0.963370452 1.161912882 1.378879145 1 8.27967924 -5.301736374 24.9990508 1.011000544 1.110063838 0.054366598 0.198312625 1081.370071 670848.0286 0.023266761 0.052026529 4.99E-06 5.301736374 0.099063294 FLS(ph)T(ph)QGS(ph)LWEMKT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 FLSTQGSLWEMKTR 14 1 H3BML6 H3BML6 SLC6A2 Transporter 4 0 FLS(1)T(1)QGS(1)LWEMKT(1)R 52.101 0.0085026 0 431.57 227.49 273.07 424.13 370.36 524.64 426.23 444.52 439.72 512.77 TRUE FALSE FALSE 476.9645127 234.8608253 310.2825575 432.3396495 341.9830968 479.9377205 378.2694786 433.1498221 436.6599527 534.8780241 0.89172576 0.439092306 0.580099655 0.808295779 0.639366512 0.897284425 0.707206992 0.809810466 0.816372954 1 9.06306612 -7.484449025 12.86125587 0.952278963 0.700218526 0.333338008 0.130246499 1.127797869 377.0666859 0.021884124 0.024509191 3.28E-08 7.484449025 -0.252060438 FLSHST(ph)DSLNK ddPTM_HeLa_SAHA_4h_R1 1 FLSHSTDSLNK 11 0 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7;A0A087WY36 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 FLSHS(0.315)T(0.68)DS(0.006)LNK 106.01 0.0040267 0 477.71 489.01 302.65 528.86 608.71 818.1 626.53 714.67 473.11 561.55 TRUE FALSE FALSE 527.9577296 504.8542449 343.8935659 539.09685 562.0707713 748.3932775 556.0311955 696.3897762 469.817589 585.7611687 0.9013191 0.861877284 0.587088363 0.920335589 0.959556217 1.277642352 0.949245572 1.188862993 0.802063391 1 9.194168747 -5.463167801 8.910492599 0.913173386 1.119999173 0.433213785 0.137038091 0.396349589 56.40339195 0.02002578 0.044747232 3.44E-06 5.463167801 0.206825788 FLSQPFQVAEVFTGHMGK ddPTM_HeLa_SAHA_4h_R1 2 FLSQPFQVAEVFTGHMGK 18 0 P06576 P06576 ATP5B "ATP synthase subunit beta, mitochondrial" 0 0 ; ; 219.23 9.55E-36 3200960 891.43 941.38 916.54 517.52 1224.4 824.38 1479.2 592.48 1012.143 1214.5 FALSE FALSE TRUE 985.1946974 971.8813297 1041.441298 527.5373479 1130.586737 754.1381862 1312.756523 577.3252195 1005.099414 1266.863039 0.777664726 0.767155801 0.822063054 0.416412297 0.892430122 0.595279966 1.036226082 0.455712419 0.79337654 1 10.30704485 -8.769527306 0.470847973 1.033585343 0.707683985 0.096624601 0.188745542 1.25747187 0.495240651 0.187276577 0.050840269 1.70E-09 8.769527306 -0.325901358 FLTVMMK ddPTM_HeLa_SAHA_4h_R1 2 FLTVMMK 7 0 I3L3P7;I3L246;H3BN98;P62244;H3BV27;H3BT37;I3L303 I3L3P7 RPS15A 40S ribosomal protein S15a 0 0 ; ; 119.57 0.0046198 1426040 509.14 785.06 1708.07 1616.33 1289.83 481.11 1177.53 145.64 377.05 445.56 FALSE FALSE TRUE 562.6936812 810.4964591 1940.836884 1647.616404 1191.003504 440.1167213 1045.031225 141.9147397 374.4260784 464.7702721 1.210692067 1.743864674 4.17590582 3.545012457 2.562563863 0.946955405 2.24848982 0.30534384 0.805615378 1 8.860373983 -4.243193144 22.31942153 1.657252222 0.305338719 0.100028928 1.137765867 1715.102178 2097820.022 0.178306533 6.445410771 5.71E-05 4.243193144 -1.351913503 FLVS(ph)RMSS(ph)AT(ph)QVLK ddPTM_HeLa_SAHA_4h_R1 1 FLVSRMSSATQVLK 14 1 E9PP91;F8W6I9;E9PIL2;Q8N9B4 E9PP91 ANKRD42 Ankyrin repeat domain-containing protein 42 3 0 FLVS(0.996)RMS(0.189)S(0.908)AT(0.908)QVLK 65.563 0.0086193 0 1202.6 1409.9 1785.1 3337 1840.5 1729.4 1756.2 2281.2 2503.3 1677.8 TRUE FALSE FALSE 1329.094986 1455.581685 2028.364132 3401.59246 1699.481288 1582.045391 1558.587754 2222.850207 2485.879331 1750.138169 0.75942289 0.831695297 1.158973713 1.943613665 0.971055496 0.903954567 0.890551261 1.270099839 1.42039033 1 10.77325311 -6.732382532 8.190380319 0.879110741 1.188092235 0.019799878 0.334486582 0.281676397 67.18744885 0.047916709 0.067253882 1.85E-07 6.732382532 0.308981494 FLVTLR ddPTM_HeLa_SAHA_4h_R1 2 FLVTLR 6 0 Q8N726 Q8N726 CDKN2A Tumor suppressor ARF 0 0 ; ; 114.67 0.0085141 6834800 3068.3 3017.4 3352.8 4844.7 3523.4 3736.3 4215.5 2559.4 3760.1 3351.4 FALSE FALSE TRUE 3391.037872 3115.16574 3809.702123 4938.476174 3253.437853 3417.94622 3741.160845 2493.934254 3733.933158 3495.895255 0.970005571 0.891092413 1.089764379 1.412649926 0.930645118 0.977702697 1.070158163 0.713389296 1.068090685 1 11.77144624 -4.254706578 24.05241707 1.014633216 0.713389057 0.31647131 0.139960236 455.5322096 1627278.411 0.01920261 0.243925659 5.56E-05 4.254706578 -0.301244159 FLVTVIK ddPTM_HeLa_SAHA_4h_R1 2 FLVTVIK 7 0 O14980 O14980 XPO1 Exportin-1 0 0 ; ; 135.87 0.00028804 3555200 2963.31 3537.5 3825.83 4825.2 4600.7 4747.95 4289.52 3273.28 4782 4345.79 FALSE FALSE TRUE 3275.004542 3652.117321 4347.194188 4918.598723 4248.19536 4343.397949 3806.85192 3189.554237 4748.721673 4533.158275 0.722455371 0.805645226 0.958976926 1.085026912 0.937138106 0.958139488 0.839779176 0.703605311 1.047552586 1 12.14630082 -4.336464936 3.35073828 0.8934402 0.692393578 0.236302781 0.109333884 0.383049469 6.975157891 0.018100127 0.173534563 4.61E-05 4.336464936 -0.201046622 FMERDPDELR ddPTM_HeLa_SAHA_4h_R1 1 FMERDPDELR 10 1 A0A087WTB8;Q5TBK7;P15374 A0A087WTB8 UCHL3 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase isozyme L3 0 0 128.35 0.0028495 8788800 2552.4 2212.9 2614.3 2724.7 2768.2 3317.3 2755.7 2169.6 2743.1 2829.8 FALSE FALSE TRUE 2820.873143 2284.599412 2970.563189 2777.440508 2556.101114 3034.647377 2445.621383 2114.104774 2724.010544 2951.806527 0.955642966 0.773966516 1.006354299 0.940929049 0.865944665 1.028064458 0.828516829 0.716207094 0.922828281 1 11.52738245 -4.541015995 4.090164842 0.957632429 0.733535491 0.457563111 0.073203452 0.113633921 4.241002683 0.010139735 0.050194825 2.88E-05 4.541015995 -0.224096938 FMEYVAEQWEMHRLEK ddPTM_HeLa_SAHA_4h_R1 1 FMEYVAEQWEMHRLEK 16 1 O43663-3;O43663-2;O43663-4;O43663;G3V3N7;H0YL53 O43663-3 PRC1 Protein regulator of cytokinesis 1 0 0 49.188 0.018942 6799300 2547.5 2430.5 2748.9 3749.3 3448.2 3977.6 3834 4498.4 2144.4 2196 FALSE FALSE TRUE 2815.457738 2509.249795 3123.505776 3821.873123 3183.999661 3638.686103 3402.588229 4383.337442 2129.476946 2290.680307 1.229092392 1.095416845 1.363571236 1.668444571 1.389979934 1.588473997 1.485405108 1.913552681 0.929626426 1 11.16156041 -1 0.138622758 0.867888476 4.101834874 0.804045031 0.130714956 23.72415305 0.217916144 0.351337592 15.23417032 0.1 1 3.233946398 FMQTFVLAPEGSVANK ddPTM_HeLa_SAHA_4h_R1 1 FMQTFVLAPEGSVANK 16 0 Q13283;E5RIZ6 Q13283 G3BP1 Ras GTPase-activating protein-binding protein 1 0 0 161.76 1.04E-07 303510 228.43 69.318 185.5 338.1 129.87 42.91 211.69 59.353 0 222.86 FALSE FALSE TRUE 252.4573155 71.56394868 210.778974 344.6444144 119.9193887 39.25382659 187.8700841 57.8348362 0 232.4685853 1.085984651 0.307843525 0.906698743 1.482541884 0.515852017 0.168856478 0.808152568 0.248785599 0 1 7.86089196 -5.555579455 23.02346045 0.997038655 0.430853715 0.039859512 0.443285081 55.40532636 39008.74861 0.044192801 0.088386585 2.78E-06 5.555579455 -0.56618494 FMS(ph)SPVLSDLPR ddPTM_HeLa_SAHA_4h_R1 3 FMSSPVLSDLPR 12 0 E9PJV4;E9PLJ6;E9PL62;E9PP25;E9PS02;E9PP62;E9PIU0;Q6MZQ0-4;Q6MZQ0 E9PJV4 PRR5L Proline-rich protein 5-like 1 0 FMS(0.913)S(0.087)PVLSDLPR;FMS(0.627)S(0.373)PVLSDLPR;FMS(0.988)S(0.012)PVLSDLPR ;; 163.71 6.97E-07 5802800 1624.02 2011.38 1728.91 1913.54 2213.27 2082.19 2376.59 2220.62 2111.13 1697.5 TRUE FALSE FALSE 1794.841875 2076.550032 1964.516851 1950.579334 2043.689731 1904.775698 2109.169838 2163.819756 2096.438474 1770.687532 1.013641222 1.172736575 1.109465569 1.101594323 1.154178642 1.075726611 1.191158688 1.222022359 1.18396862 1 10.79009393 -7.272395498 22.14987373 1.006441663 1.142798926 0.058515167 0.069683254 60.94189556 123205.2377 0.007057527 0.008124263 5.34E-08 7.272395498 0.136357263 FNADEFEDMVAEK ddPTM_HeLa_SAHA_4h_R1 2 FNADEFEDMVAEK 13 0 X1WI28;P27635;F8W7C6;A0A087WV22 X1WI28 RPL10 60S ribosomal protein L10 0 0 ; ; 155.66 3.24E-08 1338800 464.569 646.23 408.64 360.58 587.94 854.7 557.74 472.61 692.45 845.47 FALSE FALSE TRUE 513.4344989 667.168276 464.3273311 367.5595473 542.8921642 781.8747516 494.9816273 460.5213205 687.6311841 881.9223493 0.582176537 0.756493218 0.526494573 0.416770873 0.615578191 0.886557362 0.561253071 0.522178989 0.779695837 1 9.784507826 -9.274137056 0.674108278 1.045352729 0.604989418 0.350266784 0.14056522 0.565922998 0.387678213 0.14743731 0.027439319 5.32E-10 9.274137056 -0.440363311 FNADEFEDMVAEKR ddPTM_HeLa_SAHA_4h_R1 2 FNADEFEDMVAEKR 14 1 X1WI28;P27635;F8W7C6;A0A087WV22 X1WI28 RPL10 60S ribosomal protein L10 0 0 ; ; 218.21 4.01E-17 17710300 3396.7 3142.8 3558.9 3634.3 3954.9 3617.6 3692.2 3032.7 3031.8 3369.1 FALSE FALSE TRUE 3753.980491 3244.628782 4043.888358 3704.647132 3651.876416 3309.360128 3276.743939 2955.127925 3010.701457 3514.358389 1.068183741 0.92324926 1.150676144 1.054146084 1.039130337 0.941668368 0.93238753 0.840872671 0.856685951 1 11.77904561 -4.769479514 1.392464342 1.035766158 0.845055408 0.277708275 0.079641969 0.335830177 1.00906838 0.008283723 0.068953197 1.70E-05 4.769479514 -0.19071075 FNAHGDANTIVCNSK ddPTM_HeLa_SAHA_4h_R1 2 FNAHGDANTIVCNSK 15 0 P09382 P09382 LGALS1 Galectin-1 0 0 ; ; 179.79 2.39E-12 13865300 11378.2 11645.1 10191.3 11654.8 13129.7 13128 13201.4 10814.7 11196.2 11479.3 FALSE FALSE TRUE 12575.01128 12022.40888 11580.11729 11880.39551 12123.70522 12009.42054 11715.94373 10538.07563 11118.28473 11974.2288 1.050172958 1.004023648 0.967086689 0.99216373 1.012483177 1.002938957 0.97842992 0.880062993 0.928517812 1 13.54764512 -3.123178506 0.92897734 1.016379543 5.50E-13 0.3990455 0.035024264 6.105556934 0.781313403 0.004243982 10.23777687 0.000753046 3.123178506 -1.016379543 FNDEHIPESPYLVPVIAPSDDAR ddPTM_HeLa_SAHA_4h_R1 3 FNDEHIPESPYLVPVIAPSDDAR 23 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7 O75369-8 FLNB Filamin-B 0 0 ;; ;; 106.69 1.33E-05 36854550 5483.2 5786.09 4908.679 5993.12 6594.77 5773.98 6277.65 5764.4 6878.21 5519.91 FALSE FALSE TRUE 6059.948134 5973.563112 5577.608211 6109.125504 6089.480147 5282.00442 5571.2723 5616.954995 6830.343977 5757.900334 1.052457976 1.037455108 0.96868787 1.060998828 1.057586932 0.917349053 0.967587485 0.9755214 1.186256027 1 12.4913271 -5.2646472 24.99985092 1.026645608 0.95489613 0.315308752 0.058703888 170.3433241 1327561.291 0.004639256 0.010805292 5.44E-06 5.2646472 -0.071749478 FNDFDHR ddPTM_HeLa_SAHA_4h_R1 2 FNDFDHR 7 0 Q9NWH9;H7C3F4;Q9NWH9-3;H0YMM0 Q9NWH9 SLTM SAFB-like transcription modulator 0 0 ; ; 148.99 0.00016009 8144700 10196.1 8714.6 7486.1 9277.4 10304 5156.1 10944.8 8967.6 10493.7 9886.6 FALSE FALSE TRUE 11268.57258 8996.958758 8506.266722 9456.977492 9514.509746 4716.771273 9713.262299 8738.221777 10420.67349 10312.85971 1.092671955 0.872401934 0.824821336 0.917008256 0.922586946 0.457367928 0.941859249 0.847313163 1.010454305 1 13.33215682 -7.123660384 4.117111839 1.043496507 0.818739843 0.349070221 0.131510801 0.180046386 5.192242842 0.021850783 0.027036957 7.52E-08 7.123660384 -0.224756664 FNDPSGCAPS(ph)PGAYDVK ddPTM_HeLa_SAHA_4h_R1 2 FNDPSGCAPSPGAYDVK 17 0 O75330-2;O75330;O75330-3 O75330-2 HMMR Hyaluronan mediated motility receptor 1 0 FNDPS(0.001)GCAPS(0.999)PGAYDVK;FNDPSGCAPS(1)PGAYDVK ; 139.81 7.42E-09 5419600 3340.5 2736.2 1961.45 2867.3 3585.9 3143.4 2889.2 2855.5 2925 2886.2 TRUE FALSE FALSE 3691.869117 2824.854675 2228.746191 2922.800738 3311.149117 2875.564636 2564.099612 2782.460445 2904.644687 3010.638207 1.226274585 0.938290981 0.740290277 0.970824303 1.099816348 0.955134572 0.851679756 0.924209504 0.964793671 1 11.55585363 -7.155685868 8.207248446 1.106732739 0.924586467 0.224901366 0.109064043 0.262714876 18.49923645 0.020113932 0.024657063 6.99E-08 7.155685868 -0.182146272 FNDS(ph)EGDDT(ph)EETEDYR ddPTM_HeLa_SAHA_4h_R1 1 FNDSEGDDTEETEDYR 16 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 2 0 FNDS(0.96)EGDDT(0.817)EET(0.222)EDYR 135.08 0.002933 22304000 1077.7 1421.9 1557.7 1327.6 1659.9 1742.6 1574.6 1517.8 2227.3 1629.1 TRUE FALSE FALSE 1191.057431 1467.970493 1769.975244 1353.297618 1532.718821 1594.120676 1397.421864 1478.976874 2211.800038 1699.338474 0.700894759 0.863848207 1.041567216 0.796367315 0.901950285 0.938083084 0.822332858 0.870325069 1.301565328 1 10.73075752 FNDS(ph)EGDDTEET(ph)EDYR ddPTM_HeLa_SAHA_4h_R1 2 FNDSEGDDTEETEDYR 16 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 2 0 FNDS(0.981)EGDDT(0.423)EET(0.596)EDYR;FNDS(0.999)EGDDT(0.03)EET(0.971)EDYR ; 129.43 0.00031197 11289000 1042.74 1341.61 1034.14 1339.21 1347.08 1601.08 1565.04 1179.86 1912.17 1293.09 TRUE FALSE FALSE 1152.420177 1385.079044 1175.067214 1365.132346 1243.867021 1464.658977 1388.93758 1149.68089 1898.863053 1348.841438 0.854377798 1.026865727 0.871167789 1.012077704 0.922174383 1.085864458 1.029726357 0.852346953 1.407773367 1 10.39750505 -6.230399127 24.73940035 0.934085592 0.985796374 0 0.167968937 1246.292146 993307.6962 0.012362602 0.020499421 5.88E-07 6.230399127 0.051710782 FNDS(ph)EGDDTEETEDYR ddPTM_HeLa_SAHA_4h_R1 3 FNDSEGDDTEETEDYR 16 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 FNDS(1)EGDDTEETEDYR;FNDS(1)EGDDTEETEDYR;FNDS(1)EGDDTEETEDYR ;; 179.1 3.07E-18 11553600 1357.47 1786.32 1100.02 1322.51 1636.36 1654.06 1220.43 1903.49 1795.74 1183.95 TRUE FALSE FALSE 1500.254923 1844.19794 1249.924997 1348.109093 1510.98245 1513.124783 1083.104004 1854.801482 1783.243299 1234.995879 1.214785368 1.493282668 1.012088395 1.091589953 1.223471654 1.225206342 0.877010218 1.50186856 1.443926518 1 10.27029051 -9.158499859 1.028674903 1.00542443 1.193220116 0 0.227545496 0.7693898 1.523591555 0.097946551 0.031503446 6.94E-10 9.158499859 0.187795686 FNDSEGDDT(ph)EETEDYR ddPTM_HeLa_SAHA_4h_R1 4 FNDSEGDDTEETEDYR 16 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 FNDS(0.002)EGDDT(0.998)EETEDYR;FNDS(0.003)EGDDT(0.973)EET(0.024)EDYR;FNDS(0.002)EGDDT(0.997)EET(0.001)EDYR;FNDS(0.292)EGDDT(0.708)EETEDYR ;;; 324.45 4.14E-119 796391500 2452.51 3607.69 2502.72 2651.74 2940.41 3503 3367.89 2467.33 3782.38 3058.4 TRUE FALSE FALSE 2710.476254 3724.581523 2843.777648 2703.068262 2715.116421 3204.524693 2988.926153 2404.219271 3756.05811 3190.262591 0.849609139 1.167484311 0.89139297 0.847287076 0.851063617 1.00447051 0.936890324 0.753611718 1.177350767 1 11.63945946 -6.562580706 24.99999139 0.948911725 0.885552866 0.156689437 0.122175518 326.3587744 205504.1786 0.016659909 0.023560684 2.74E-07 6.562580706 -0.063358859 FNDSEGDDT(ph)EETEDYRQFR ddPTM_HeLa_SAHA_4h_R1 1 FNDSEGDDTEETEDYRQFR 19 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 FNDS(0.101)EGDDT(0.895)EET(0.003)EDY(0.001)RQFR 71.001 0.010837 138360000 749.02 410.29 830.35 504.48 486.73 548.38 675.59 788.56 249.75 570.02 TRUE FALSE FALSE 827.8053602 423.5836652 943.5057737 514.2449399 449.4368526 501.6549389 599.5708351 768.389777 248.0119694 594.5963518 1.392213991 0.712388604 1.586800475 0.864863934 0.755868836 0.843689904 1.008366152 1.292288079 0.417109807 1 9.215766801 FNEEHIPDSPFVVPVAS(ph)PSGDAR ddPTM_HeLa_SAHA_4h_R1 1 FNEEHIPDSPFVVPVASPSGDAR 23 0 P21333-2;P21333;Q60FE5;A0A087WWY3;H0Y5C6 P21333-2 FLNA Filamin-A 1 0 FNEEHIPDSPFVVPVAS(0.5)PS(0.5)GDAR 156.69 2.06E-07 43598000 1437.4 1418.7 1349.1 1562.6 1771.4 1923.9 1741.6 1705.8 1829 1760.2 TRUE FALSE FALSE 1588.592327 1464.666811 1532.948322 1592.846383 1635.675715 1759.972896 1545.630584 1662.168106 1816.27184 1836.090836 0.865203559 0.797709341 0.834897867 0.867520469 0.890846837 0.958543478 0.841805075 0.905275531 0.989205874 1 10.84242172 -9.076719895 0.915383312 0.997893597 0.870254015 0.586449164 0.041482668 0.329731273 0.511959065 0.026665765 0.00849609 8.38E-10 9.076719895 -0.127639582 FNEEHIPDSPFVVPVAS(ph)PSGDARR ddPTM_HeLa_SAHA_4h_R1 3 FNEEHIPDSPFVVPVASPSGDARR 24 1 P21333-2;P21333;Q60FE5;A0A087WWY3;H0Y5C6 P21333-2 FLNA Filamin-A 1 0 FNEEHIPDSPFVVPVAS(0.858)PS(0.142)GDARR;FNEEHIPDSPFVVPVAS(0.839)PS(0.16)GDARR;FNEEHIPDSPFVVPVAS(0.724)PS(0.276)GDARR ;; 103.85 1.47E-05 26271600 3073.29 2605.99 2379.5 2921.07 2946.58 3289.29 3326.94 3646.59 2597.89 2967.28 TRUE FALSE FALSE 3396.552743 2690.425786 2703.765868 2977.611534 2720.813677 3009.023987 2952.583955 3553.315508 2579.811072 3095.213962 1.097356365 0.869221262 0.873531168 0.962005073 0.879038965 0.972153791 0.953919177 1.148003192 0.833483922 1 11.59582343 -7.270799598 24.98256385 1.045973838 0.94670254 0 0.103584484 698.4779651 1864244.751 0.013978397 0.016093279 5.36E-08 7.270799598 -0.099271299 FNEEHIPDSPFVVPVASPS(ph)GDAR ddPTM_HeLa_SAHA_4h_R1 2 FNEEHIPDSPFVVPVASPSGDAR 23 0 P21333-2;P21333;Q60FE5;A0A087WWY3;H0Y5C6 P21333-2 FLNA Filamin-A 1 0 FNEEHIPDS(0.001)PFVVPVAS(0.359)PS(0.64)GDAR;FNEEHIPDSPFVVPVAS(0.358)PS(0.642)GDAR ; 175.64 8.22E-11 228460000 15456.8 15383.5 14331.2 17394.6 18509.5 18628 19065.2 18020 19434 17624.3 TRUE FALSE FALSE 17082.61714 15881.93549 16284.1813 17731.29764 17091.30611 17040.7896 16919.93352 17559.07449 19298.75721 18384.16982 0.929202532 0.863891905 0.885771915 0.964487263 0.929675165 0.926927338 0.920353417 0.95511925 1.049748637 1 14.16617641 -8.827364944 0.906994533 0.996066481 0.921704694 0.574074288 0.033228274 0.341325685 0.550143566 0.01453227 0.005980923 1.49E-09 8.827364944 -0.074361787 FNEEHIPDSPFVVPVASPS(ph)GDARR ddPTM_HeLa_SAHA_4h_R1 1 FNEEHIPDSPFVVPVASPSGDARR 24 1 P21333-2;P21333;Q60FE5;A0A087WWY3;H0Y5C6 P21333-2 FLNA Filamin-A 1 0 FNEEHIPDSPFVVPVAS(0.209)PS(0.791)GDARR 60.093 0.00845 0 420.88 460.71 338.1 323.41 632.84 353.41 502.56 463.09 445.35 447.22 TRUE FALSE FALSE 465.1500895 475.6373063 384.1745073 329.6700682 584.3519359 323.2974798 446.0106261 451.2448283 442.2507731 466.5018428 0.997102362 1.01958291 0.82352195 0.706685457 1.252625139 0.693025086 0.956074736 0.967294846 0.948015061 1 8.86573897 -6.784156065 24.98605548 1.000164793 0.900276894 0.081718163 0.14872204 402.0617086 442225.6885 0.02201569 0.028945076 1.64E-07 6.784156065 -0.099887898 FNEEHIPDSPFVVPVASPSGDAR ddPTM_HeLa_SAHA_4h_R1 2 FNEEHIPDSPFVVPVASPSGDAR 23 0 P21333-2;P21333;Q60FE5;A0A087WWY3;H0Y5C6 P21333-2 FLNA Filamin-A 0 0 ; ; 131.77 1.58E-06 31867000 3469.5 3357.9 3067.3 3293.8 3934 4175.4 3892.1 4031.1 3581.3 2976.8 FALSE FALSE TRUE 3834.437929 3466.698163 3485.29567 3357.556262 3632.57777 3819.63243 3454.150665 3927.990299 3556.377442 3105.144416 1.234866214 1.116437015 1.122426272 1.081288279 1.169857914 1.230098159 1.112396141 1.2649944 1.145317887 1 11.60044465 -9.471884556 1.159272005 0.998193868 1.168486949 0.096925812 0.072204385 0.312487956 0.738421881 0.043427239 0.010221315 3.37E-10 9.471884556 0.170293081 FNGGHS(ph)PTHSPEK ddPTM_HeLa_SAHA_4h_R1 2 FNGGHSPTHSPEK 13 0 Q9Y5K6 Q9Y5K6 CD2AP CD2-associated protein 1 0 FNGGHS(0.996)PT(0.004)HSPEK;FNGGHS(0.992)PT(0.008)HSPEK ; 73.252 0.021302 49154300 4386.1 5137.1 3858 4837.8 5517.2 2538.8 5808 4813 4034.2 4452.1 TRUE FALSE FALSE 4847.450122 5303.545411 4383.748148 4931.442615 5094.473328 2322.479957 5154.468554 4689.890429 4006.125674 4644.051819 1.043797596 1.142008233 0.943949017 1.061883632 1.096988907 0.50009777 1.109907631 1.009870392 0.862635868 1 12.18116835 FNGGHSPT(ph)HSPEK ddPTM_HeLa_SAHA_4h_R1 1 FNGGHSPTHSPEK 13 0 Q9Y5K6 Q9Y5K6 CD2AP CD2-associated protein 1 0 FNGGHS(0.264)PT(0.727)HS(0.009)PEK 173.33 3.28E-05 4037800 1446.6 1367.4 1119 1440.1 1709.4 568.8 1477.7 1440.6 1280.2 1244.5 TRUE FALSE FALSE 1598.760025 1411.704657 1271.491492 1467.975218 1578.426141 520.33504 1311.425307 1403.751538 1271.290984 1298.156485 1.231561867 1.087468786 0.979459339 1.130815302 1.215898206 0.40082613 1.01022128 1.081342314 0.979304882 1 10.34224859 FNLILR ddPTM_HeLa_SAHA_4h_R1 2 FNLILR 6 0 P49411 P49411 TUFM "Elongation factor Tu, mitochondrial" 0 0 ; ; 110.54 0.014189 8261300 3894.4 6979.7 6133.1 4628.1 7697.3 4271.8 7506.4 2173.7 4134.4 5337.3 FALSE FALSE TRUE 4304.03086 7205.84686 6968.886928 4717.683568 7107.534537 3907.818608 6661.760116 2118.099901 4105.628374 5567.417123 0.773074976 1.294289021 1.251727107 0.847373829 1.276630506 0.701908717 1.196562063 0.380445699 0.737438615 1 12.44279246 -4.246522787 24.14643079 0.966545871 0.380445026 0.398040768 0.226512471 1357.212864 2196947.9 0.029969089 0.879416728 5.67E-05 4.246522787 -0.586100845 FNPFVTSDR ddPTM_HeLa_SAHA_4h_R1 1 FNPFVTSDR 9 0 P61254;J3QRI7;J3QQQ9;J3QQV1;E5RIT6;Q9UNX3;J3QRC4;E5RHH1;J3KSS0 P61254 RPL26;RPL26L1 60S ribosomal protein L26;60S ribosomal protein L26-like 1 0 0 112.84 0.0073141 854700 243.58 288.78 361.22 217.95 394.6 388.43 296.28 264.72 404.45 392.56 FALSE FALSE TRUE 269.200862 298.1366615 410.4451804 222.1687374 364.3658332 355.3335788 262.9417946 257.9488457 401.6353995 409.4851827 0.65741295 0.7280768 1.002344402 0.542556231 0.889814451 0.867756866 0.642127739 0.629934505 0.980830117 1 8.677667439 -9.428719106 1.096938403 1.00350311 0.743413417 0.353577578 0.13249679 0.468507992 0.98652287 0.095455451 0.022702789 3.73E-10 9.428719106 -0.260089693 FNS(ph)YDISR ddPTM_HeLa_SAHA_4h_R1 2 FNSYDISR 8 0 B4DFB6;Q6IQ26-2;Q6IQ26 B4DFB6 DENND5A DENN domain-containing protein 5A 1 0 FNS(1)YDISR;FNS(0.997)YDIS(0.003)R ; 139.31 0.00096838 22755700 4439.5 6184.7 4479.5 2771.9 6106.9 6633.1 5846.6 3580.8 3208.1 5309.6 TRUE FALSE FALSE 4906.466979 6385.088338 5089.942932 2825.554133 5638.990641 6067.922563 5188.725181 3489.208321 3185.774571 5538.522841 0.885880066 1.152850412 0.919007302 0.510163849 1.018139819 1.095585003 0.936842788 0.629988974 0.575202931 1 12.43528554 -6.516002874 24.98768135 0.96372024 0.852595012 0 0.213178491 661.3274136 2403340.195 0.027650164 0.039986276 3.05E-07 6.516002874 -0.111125229 FNVPVSLESK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 FNVPVSLESKK 11 1 F8VZQ9;P82979;H0YHG0 F8VZQ9 SARNP SAP domain-containing ribonucleoprotein 0 1 ; FNVPVSLESK(1)K;FNVPVSLESK(1)K 155.26 2.27E-07 3270700 1741.8 2529.1 2525.9 2589.2 3238.1 2503.8 4279.4 2463.7 781.74 849.7 FALSE TRUE FALSE 1925.010516 2611.044499 2870.116498 2639.31771 2989.997478 2290.462154 3797.870649 2400.682121 776.2998077 886.3347253 2.171877577 2.945889882 3.238185773 2.977788904 3.373440521 2.584195438 4.284916906 2.708550227 0.875853992 1 9.791707827 -7.856958128 0.514087844 1.018953893 3.361533806 0.784498976 0.460310041 0.240596529 0.15380953 0.217560217 0.152696543 1.39E-08 7.856958128 2.342579914 FNVS(ph)TGNTRAALAT(ph)LER ddPTM_HeLa_SAHA_4h_R1 2 FNVSTGNTRAALATLER 17 1 C9JVJ9;Q8N434-2;Q8N434 C9JVJ9 SVOPL Putative transporter SVOPL 2 0 FNVS(1)TGNTRAALAT(1)LER;FNVS(0.998)T(0.002)GNTRAALAT(1)LER ; 138.98 0.00073696 66638000 2162.8 2430.25 2086.1 2423.8 2589.9 2532.9 2633.9 2745.2 2403.3 2448.7 TRUE FALSE FALSE 2390.293227 2508.991695 2370.382844 2470.716154 2391.462422 2317.08267 2337.52664 2674.981759 2386.57524 2554.275441 0.935800889 0.982271393 0.928005965 0.967286501 0.936258629 0.907138922 0.915142746 1.047256579 0.934345295 1 11.31869839 -9.402800059 0.911405932 1.002956693 0.948555946 0 0.04346196 0.84389878 1.139555402 0.032922235 0.006751304 3.96E-10 9.402800059 -0.054400747 FNVWDTAGQEK ddPTM_HeLa_SAHA_4h_R1 1 FNVWDTAGQEK 11 0 F5H018;B5MDF5;J3KQE5;P62826;H0YFC6 F5H018 RAN GTP-binding nuclear protein Ran 0 0 133.05 0.00094018 1017100 282.48 320.71 262.61 389.61 434.02 336.66 366.09 205.91 367.93 366.73 FALSE FALSE TRUE 312.1925425 331.1012144 298.3971232 397.1514649 400.7654814 307.974674 324.8965897 200.6431204 365.3695452 382.541525 0.816101056 0.865530126 0.780038515 1.038191775 1.047639158 0.805075146 0.849310646 0.524500237 0.955110808 1 8.579472551 -3.973381155 1.519368012 0.912466098 0.097963632 0.622399456 0.09093347 1.370771631 1.651048795 0.014895718 2.057746881 0.000106321 3.973381155 -0.814502466 FNYS(ph)GSGGR ddPTM_HeLa_SAHA_4h_R1 1 FNYSGSGGR 9 0 Q12906;Q12906-7 Q12906 ILF3 Interleukin enhancer-binding factor 3 1 0 FNYS(0.695)GS(0.305)GGR 84.31 0.023168 8750400 1496.3 1467.4 1185.5 1628.4 2002.5 2069.6 1656.5 1699 1913.3 1589.4 TRUE FALSE FALSE 1653.687699 1514.944723 1347.053766 1659.920037 1849.068883 1893.258437 1470.10626 1655.54204 1899.98519 1657.926812 0.997443124 0.913758503 0.812492901 1.001202239 1.115289812 1.141943313 0.886713605 0.998561594 1.146000641 1 10.69516461 -5.995013278 24.92436887 0.975221393 1.035792122 0.076677292 0.10086132 272.566644 1362310.037 0.013507891 0.024425547 1.01E-06 5.995013278 0.060570729 FNYSGS(ph)GGR ddPTM_HeLa_SAHA_4h_R1 3 FNYSGSGGR 9 0 Q12906;Q12906-7 Q12906 ILF3 Interleukin enhancer-binding factor 3 1 0 FNYS(0.042)GS(0.958)GGR;FNYS(0.001)GS(0.999)GGR;FNYS(0.007)GS(0.993)GGR ;; 109.16 0.0065381 22842700 4669.8 4863.2 3894.32 4384.2 5742.8 5633.4 4818.8 4903.3 5414.3 5075.1 TRUE FALSE FALSE 5160.99099 5020.770871 4425.017649 4469.062531 5302.787905 5153.402627 4276.575942 4777.880686 5376.621445 5293.912398 0.974891649 0.9484046 0.835869073 0.844188984 1.00167655 0.973458237 0.807828997 0.902523564 1.015623426 1 12.37011861 -7.021944789 4.190021664 0.987517855 0.89602845 0.390950267 0.05709021 0.180541749 7.334526658 0.009704449 0.01235541 9.51E-08 7.021944789 -0.091489404 FPDSVEELR ddPTM_HeLa_SAHA_4h_R1 2 FPDSVEELR 9 0 Q15785 Q15785 TOMM34 Mitochondrial import receptor subunit TOM34 0 0 ; ; 127.46 0.014732 6813600 2293 2447.5 1972.45 3192.8 2764.2 2822.1 2480.7 3503.1 3237.5 2254.9 FALSE FALSE TRUE 2534.188261 2526.800606 2241.245214 3254.601261 2552.407593 2581.641203 2201.565107 3413.495774 3214.969974 2352.119774 1.077406129 1.074265279 0.952861856 1.383688576 1.085152049 1.097580672 0.935991922 1.451242327 1.366839397 1 11.19974581 FPEAEALS(ph)PEQAAHYLR ddPTM_HeLa_SAHA_4h_R1 1 FPEAEALSPEQAAHYLR 17 0 Q2NKX8 Q2NKX8 ERCC6L DNA excision repair protein ERCC-6-like 1 0 FPEAEALS(1)PEQAAHYLR 107.78 0.0012032 0 554.16 676.8 579.23 619.93 601.18 841.25 427.7 612.63 945.69 620.56 TRUE FALSE FALSE 612.4490914 698.7287641 658.1644479 631.9296416 555.1177183 769.5707673 379.5740704 596.9598117 939.1088663 647.3153785 0.946137094 1.079425559 1.016760098 0.976231467 0.85756918 1.188865262 0.586381975 0.922208604 1.450774842 1 9.338324969 -4.756473817 24.99986775 0.987803726 0.75429536 0.239559962 0.184220192 77.34670936 389399.8228 0.013547383 0.047665383 1.75E-05 4.756473817 -0.233508365 FPGQLNADLR ddPTM_HeLa_SAHA_4h_R1 1 FPGQLNADLR 10 0 P68371;Q3ZCM7;M0R2D3;A0A075B736;Q5SQY0;A6NNZ2;CON__ENSEMBL:ENSBTAP00000025008;Q9H4B7;A0A0B4J269;Q13509;Q13509-2;G3V2A3;P04350;P07437;Q5JP53;Q5ST81;Q9BVA1;Q13885;K7ESM5;Q9BUF5 P68371;A0A0B4J269;P04350;P07437;Q9BVA1;K7ESM5 TUBB4B;TUBB8;TUBB4A;TUBB1;TUBB3;TUBB;TUBB2B;TUBB2A;TUBB6 Tubulin beta-4B chain;Tubulin beta-8 chain;Tubulin beta-8 chain-like protein LOC260334;Tubulin beta-1 chain;Tubulin beta-3 chain;Tubulin beta-4A chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain;Tubulin beta-6 chain 0 0 119.62 0.018737 5210900 809.11 758.49 875.87 1002.8 677.47 473.09 1066 592 748.53 581.9 FALSE FALSE TRUE 894.2159021 783.0655737 995.2290023 1022.210644 625.562395 432.7800705 946.0508744 576.8574972 743.3209188 606.9885567 1.473200594 1.290082927 1.639617405 1.684069053 1.030599981 0.712995436 1.558597545 0.950359757 1.224604501 1 9.245525508 -4.17702378 20.26153763 1.260380963 0.950287455 0.098324947 0.296639148 55168.14955 13230738.6 0.044298891 639.5753061 6.65E-05 4.17702378 -0.310093509 FPPEDFRHS(ph)PEDFR ddPTM_HeLa_SAHA_4h_R1 4 FPPEDFRHSPEDFR 14 1 Q8IXT5;B9ZVT1 Q8IXT5 RBM12B RNA-binding protein 12B 1 0 FPPEDFRHS(1)PEDFR;FPPEDFRHS(1)PEDFR;FPPEDFRHS(1)PEDFR;FPPEDFRHS(1)PEDFR ;;; 75.998 0.01244 46196200 3119.08 3316.76 2730.6 3841.75 4118.01 3793.34 3982.55 3404.4 5195.99 3889.97 TRUE FALSE FALSE 3447.159145 3424.2252 3102.711948 3916.112627 3802.488963 3470.126091 3534.422993 3317.320378 5159.830683 4057.685644 0.849538246 0.843886269 0.764650646 0.96510991 0.937107824 0.855198356 0.871044064 0.817540014 1.271619129 1 11.98644139 -9.206502002 0.900750051 1.001712286 0.864749097 0.424254591 0.103006878 0.433908419 0.621569438 0.039402529 0.010537869 6.22E-10 9.206502002 -0.136963189 FPYPT(ph)MS(ph)EIT(ph)VLS(ph)AQAK ddPTM_HeLa_SAHA_4h_R1 1 FPYPTMSEITVLSAQAK 17 0 Q9UKY1 Q9UKY1 ZHX1 Zinc fingers and homeoboxes protein 1 4 0 FPY(0.545)PT(0.632)MS(0.836)EIT(0.995)VLS(0.993)AQAK 48.214 0.020276 4248400 576.89 298.09 446.39 429.46 443.68 570.83 634.3 489.17 696.98 558.58 TRUE FALSE FALSE 637.5699371 307.7483116 507.2217045 437.7728193 409.6853343 522.1920726 562.9268946 476.6577397 692.1296594 582.6631174 1.094234246 0.528175377 0.870523102 0.751330926 0.703125566 0.89621611 0.966127558 0.818067465 1.187872784 1 9.186518181 -7.31346901 24.99994067 1.044499551 0.799538851 0.548463665 0.123591181 203.0393609 97558.79474 0.019729174 0.022561178 4.86E-08 7.31346901 -0.2449607 FPYS(ph)PSPPMANGAAR ddPTM_HeLa_SAHA_4h_R1 1 FPYSPSPPMANGAAR 15 0 Q92908-2;Q92908 Q92908-2 GATA6 Transcription factor GATA-6 1 0 FPYS(0.5)PS(0.5)PPMANGAAR 107.46 0.0025663 4510300 290.97 372.77 349.93 356.65 200.48 409 364.17 289.85 338.85 322.8 TRUE FALSE FALSE 321.5755596 384.8479926 397.616638 363.5534765 185.1192657 374.150899 323.1926332 282.4360567 336.4919153 336.7174877 0.955030764 1.142940318 1.180861264 1.079698827 0.549776214 1.111171569 0.959833228 0.838792361 0.999330084 1 8.395394841 FPYSPS(ph)PPMANGAAR ddPTM_HeLa_SAHA_4h_R1 1 FPYSPSPPMANGAAR 15 0 Q92908-2;Q92908 Q92908-2 GATA6 Transcription factor GATA-6 1 0 FPY(0.002)S(0.393)PS(0.606)PPMANGAAR 106.29 0.0027605 5221200 307.35 532.05 320.49 290.1 340.92 379.96 388.65 416.5 502.17 0 TRUE FALSE FALSE 339.6784832 549.2887691 364.1647082 295.715305 314.7987833 347.5852704 344.9180791 405.8465331 498.6753581 0 0 FQDGDLTLYQSNTILR ddPTM_HeLa_SAHA_4h_R1 4 FQDGDLTLYQSNTILR 16 0 P09211;A8MX94;A0A087X2E9 P09211 GSTP1 Glutathione S-transferase P 0 0 ;;; ;;; 238.65 1.43E-56 187664790 2345.39 2002.022 2313.215 2511.597 2771.69 2436.84 2688.41 2370.67 2968.18 2255.93 FALSE FALSE TRUE 2592.088881 2066.888826 2628.447893 2560.212592 2559.323711 2229.207523 2385.903031 2310.031694 2947.524194 2353.194183 1.101519331 0.878333306 1.11697025 1.087973364 1.087595631 0.947311335 1.013899766 0.981657915 1.252563097 1 11.20040466 -5.259174214 24.9745736 1.046600818 0.984250683 0.129710725 0.093014259 298.8457129 3294893.682 0.009778061 0.023624068 5.51E-06 5.259174214 -0.062350134 FQEQECPPS(ph)PEPTRK ddPTM_HeLa_SAHA_4h_R1 1 FQEQECPPSPEPTRK 15 1 P62070-2;P62070-3;P62070;P62070-4 P62070-2 RRAS2 Ras-related protein R-Ras2 1 0 FQEQECPPS(0.982)PEPT(0.018)RK 87.496 0.0051439 6394500 791.85 1693.5 1555.1 1105.6 1309.8 1137 1670.1 1098.4 1081.4 1108.2 TRUE FALSE FALSE 875.1404161 1748.370511 1767.020929 1127.000487 1209.443407 1040.121203 1482.175953 1070.304518 1073.874449 1155.979925 0.757055029 1.512457503 1.528591363 0.974930846 1.04624949 0.899774452 1.282181394 0.925885039 0.928973268 1 10.17490063 -7.299198284 24.99334371 0.885275986 1.163151675 0.245324034 0.218173526 594.6455185 393605.8869 0.039857408 0.045579238 5.02E-08 7.299198284 0.277875689 FQETEFLS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 2 FQETEFLSPPR 11 0 P42166 P42166 TMPO "Lamina-associated polypeptide 2, isoform alpha;Thymopoietin;Thymopentin" 1 0 FQETEFLS(1)PPR;FQETEFLS(1)PPR ; 98.337 0.0093631 59073000 1140.09 1050.97 1230.09 1203.12 1522.27 1735.79 1604.09 1269.78 1308.07 936.75 TRUE FALSE FALSE 1260.009897 1085.022118 1397.720259 1226.408127 1405.634001 1587.890927 1423.593571 1237.300866 1298.967034 977.1378768 1.289490385 1.110408411 1.43042276 1.255102434 1.438521661 1.625042857 1.456901431 1.26625003 1.329359004 1 9.932418335 -8.665355135 0.220621492 0.817335944 1.512021048 0.1783327 0.155023329 2.351562075 0.244657972 0.522093118 0.184506926 2.16E-09 8.665355135 0.694685104 FQFDGDK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 FQFDGDKK 8 1 P52209-2;P52209;K7ELN9 P52209-2 PGD "6-phosphogluconate dehydrogenase, decarboxylating" 0 1 ; FQFDGDK(1)K;FQFDGDK(1)K 102.62 0.0037949 4382500 2231.84 7107.9 3355.7 3497.6 5971.4 5581.8 6541.9 5071 5433.6 2088.5 FALSE TRUE FALSE 2466.595171 7338.200624 3812.99732 3565.301106 5513.872622 5106.199238 5805.788195 4941.291163 5395.787135 2178.545456 1.132221118 3.368394542 1.750249144 1.636551166 2.530988099 2.343857101 2.66498373 2.268160689 2.476784279 1 11.0891495 -7.391758021 9.329415485 1.058350288 2.330861033 0.156883881 0.637760902 0.153609821 10.89334957 0.074877882 0.085507548 4.06E-08 7.391758021 1.272510745 FQLCVLGQNAQTMAYNITPLRR ddPTM_HeLa_SAHA_4h_R1 1 FQLCVLGQNAQTMAYNITPLRR 22 1 O75534-2;O75534;O75534-3;O75534-4;E9PLT0 O75534-2 CSDE1 Cold shock domain-containing protein E1 0 0 72.086 0.0027932 929530 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 FQNYS(ph)PPPTK ddPTM_HeLa_SAHA_4h_R1 1 FQNYSPPPTK 10 0 Q8TEC5-3;Q8TEC5-2;Q8TEC5 Q8TEC5-3 SH3RF2 Putative E3 ubiquitin-protein ligase SH3RF2 1 0 FQNYS(1)PPPTK 104.87 0.0072356 4017200 2565.6 2099 1893.1 2307.6 2250.3 2595.7 2656.8 2808.1 1856.5 1921.6 TRUE FALSE FALSE 2835.461579 2167.008977 2151.081809 2352.266935 2077.8825 2374.531757 2357.849872 2736.272868 1843.580465 2004.44958 1.414583638 1.08109927 1.073153364 1.173522626 1.036634955 1.184630325 1.176307898 1.365099375 0.919743995 1 10.96899041 -4.259913193 5.251614959 1.169507589 1.373567758 0.14272076 0.136447095 0.281398833 26.66367723 0.021907587 0.206271563 5.50E-05 4.259913193 0.204060169 FQPHFGQQECVS(ph)PYR ddPTM_HeLa_SAHA_4h_R1 4 FQPHFGQQECVSPYR 15 0 P25054-2;P25054-3;P25054;A0A2Q2SV78;E9PFT7 P25054-2 APC Adenomatous polyposis coli protein 1 0 FQPHFGQQECVS(1)PYR;FQPHFGQQECVS(1)PYR;FQPHFGQQECVS(1)PYR;FQPHFGQQECVS(1)PYR ;;; 152.66 3.44E-05 17663600 3932.25 4320.09 3948.14 4053.97 5111.53 4422.25 4554.65 4311.89 4713.77 4280.52 TRUE FALSE FALSE 4345.862097 4460.063751 4486.171958 4132.440451 4719.885676 4045.449421 4042.148795 4201.598097 4680.966491 4465.074166 0.973301212 0.998877865 1.004725071 0.925503205 1.057067699 0.906020655 0.905281445 0.940991782 1.048351341 1 12.12446842 -5.222767001 24.99740324 0.988597114 0.916216282 0.496327699 0.037157471 305.883464 197719.3847 0.004077145 0.010394542 5.99E-06 5.222767001 -0.072380832 FQPPQVPDQAPAEAPTEKTEVS(ph)PVPR ddPTM_HeLa_SAHA_4h_R1 2 FQPPQVPDQAPAEAPTEKTEVSPVPR 26 1 E9PPY3;O43159 E9PPY3 RRP8 Ribosomal RNA-processing protein 8 1 0 FQPPQVPDQAPAEAPT(0.033)EKT(0.024)EVS(0.943)PVPR;FQPPQVPDQAPAEAPT(0.088)EKT(0.042)EVS(0.869)PVPR ; 112.57 4.39E-07 24558000 2341.2 1763.21 2233.4 2340.2 2740.9 2265.6 2524.3 2775 1966.17 2357.8 TRUE FALSE FALSE 2587.458158 1820.339161 2537.756121 2385.497955 2530.892834 2072.558134 2240.25912 2704.019518 1952.487263 2459.456297 1.05204478 0.740138852 1.031836233 0.969928987 1.029045662 0.842689556 0.910875759 1.099437921 0.793869468 1 11.2641237 FQPSSVLS(ph)PYER ddPTM_HeLa_SAHA_4h_R1 1 FQPSSVLSPYER 12 0 J3QLM6;Q7Z6J9 J3QLM6 TSEN54 tRNA-splicing endonuclease subunit Sen54 1 0 FQPSS(0.001)VLS(0.999)PYER 113.54 0.002397 2603800 470.57 599.18 629.6 508.78 532.13 708.91 716.54 501.58 465.22 487.28 TRUE FALSE FALSE 520.0667117 618.5938251 715.3986092 518.6281726 491.3583144 648.5068798 635.9130334 488.7503099 461.9824961 508.2890255 1.023171238 1.217011964 1.407464205 1.020341079 0.96669078 1.275862447 1.251085507 0.961559832 0.908897247 1 8.989505272 -7.324719329 7.196170628 1.010581734 1.162260302 0.250081704 0.138984251 0.310114186 30.84617767 0.023125141 0.026416199 4.73E-08 7.324719329 0.151678569 FQSPQIQATIS(ph)PPLQPK ddPTM_HeLa_SAHA_4h_R1 3 FQSPQIQATISPPLQPK 17 0 A0A087WYN9;Q7Z478 A0A087WYN9 DHX29 ATP-dependent RNA helicase DHX29 1 0 FQSPQIQATIS(1)PPLQPK;FQS(0.001)PQIQAT(0.155)IS(0.844)PPLQPK;FQSPQIQAT(0.006)IS(0.994)PPLQPK ;; 220.42 4.45E-21 32611000 2760.53 2478.6 2085.96 2699.8 2932.24 3030.58 2704.39 2634.98 2754.9 2590.54 TRUE FALSE FALSE 3050.895211 2558.908266 2370.223766 2752.058533 2707.572405 2772.357534 2400.08492 2567.581027 2735.728427 2702.230857 1.129028337 0.946961382 0.877135926 1.018439459 1.001976718 1.025951401 0.888186482 0.950170864 1.012396265 1 11.39993522 -7.239698582 24.66386162 1.060930049 0.959159865 0.329313886 0.05701631 572.0202083 648929.1081 0.011078088 0.013561627 5.76E-08 7.239698582 -0.101770184 FQSQADQDQQASGLQS(ph)PPSR ddPTM_HeLa_SAHA_4h_R1 1 FQSQADQDQQASGLQSPPSR 20 0 Q9P2B4 Q9P2B4 CTTNBP2NL CTTNBP2 N-terminal-like protein 1 0 FQSQADQDQQASGLQS(0.992)PPS(0.007)R 224.8 1.33E-32 4403600 471.7 723.01 569.28 678.92 582.49 955.94 557.33 444.51 806.31 388.22 TRUE FALSE FALSE 521.3155702 746.4359984 646.8585137 692.0614783 537.859742 874.488534 494.6177616 433.1400778 800.6988231 404.9580641 1.287332236 1.843242707 1.597346913 1.70897073 1.328186273 2.15945455 1.221404895 1.069592425 1.977238865 1 8.661628706 -7.753550835 1.635712046 1.088348353 1.566270566 0 0.412902261 0.282986592 1.577298782 0.063356412 0.061485772 1.76E-08 7.753550835 0.477922213 FRDQDLASCDRDR ddPTM_HeLa_SAHA_4h_R1 2 FRDQDLASCDRDR 13 2 Q96HJ9-2;A0A0A6YYJ8;Q9Y383-3;Q9Y383-2;Q9Y383 Q96HJ9-2 LUC7L2 Putative RNA-binding protein Luc7-like 2 0 0 ; ; 87.719 0.0065087 15899200 1680.96 1562.21 1833.13 1907.65 1955.51 1711.79 2046.78 1637.96 1456.74 1605.57 FALSE FALSE TRUE 1857.771085 1612.826629 2082.93941 1944.575324 1805.679246 1565.935862 1816.470928 1596.063355 1446.602428 1674.79398 1.109253501 0.963000016 1.243698887 1.161083302 1.07815007 0.935002084 1.084593657 0.95299086 0.863749479 1 10.70976792 -5.302781284 24.29132925 1.070618125 1.000235278 0.073356777 0.106140134 580.6492428 341172.273 0.012772868 0.028561231 4.98E-06 5.302781284 -0.070382848 FRDQDLASCDRDRS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 FRDQDLASCDRDRSSR 16 3 Q96HJ9-2;A0A0A6YYJ8;Q9Y383-3;Q9Y383-2;Q9Y383 Q96HJ9-2 LUC7L2 Putative RNA-binding protein Luc7-like 2 1 0 FRDQDLASCDRDRS(0.5)S(0.5)R 57.328 0.017772 48915000 538.07 405.39 464.73 508.91 747.56 556.38 619.38 655.59 545.93 582.71 TRUE FALSE FALSE 594.6666714 418.524902 528.0609842 518.7606889 690.2821143 508.9732939 549.6857323 638.8209571 542.1308287 607.8334798 0.978338132 0.688551908 0.868759293 0.853458564 1.135643457 0.837356465 0.904336057 1.050980208 0.891906824 1 9.247532331 -7.491059634 24.9548957 0.990443377 0.902989357 0.01543461 0.11821502 648.5626305 508655.4853 0.019530733 0.021407356 3.23E-08 7.491059634 -0.08745402 FRELAEEAAR ddPTM_HeLa_SAHA_4h_R1 3 FRELAEEAAR 10 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ;; ;; 104.07 0.01134 15579500 7254.9 6658.6 7444.4 7442.9 8243.1 6452.1 8060 6015.1 4108.92 5994.8 FALSE FALSE TRUE 8018.003669 6874.343009 8458.884063 7586.968092 7611.515459 5902.344781 7153.067587 5861.242452 4080.325691 6253.265166 1.282210726 1.099320567 1.352714756 1.213281045 1.217206572 0.943882056 1.143893214 0.937309117 0.652511221 1 12.61039398 -5.267024218 24.99266364 1.161397659 1.021914637 0.026460577 0.193390457 580.6998934 2598689.943 0.019128948 0.043876081 5.41E-06 5.267024218 -0.139483022 FRIDELEPR ddPTM_HeLa_SAHA_4h_R1 1 FRIDELEPR 9 1 Q14697;Q14697-2;F5H6X6 Q14697 GANAB Neutral alpha-glucosidase AB 0 0 104.42 0.012109 9786500 1552.1 1334.2 1524.5 1795.1 1938.7 2055.4 2048.3 1797.1 2104.5 1668.3 FALSE FALSE TRUE 1715.356999 1377.428955 1732.250921 1829.846756 1790.157225 1880.268357 1817.819893 1751.132784 2089.854613 1740.228577 0.985707867 0.791521857 0.995415742 1.051497935 1.028690856 1.08047206 1.044586853 1.006265962 1.200908111 1 10.7650611 -6.361602172 5.40387962 0.974409108 1.043569282 0.041566549 0.094210616 0.280960486 12.31579358 0.010010023 0.015397294 4.35E-07 6.361602172 0.069160173 FRTGS(ph)GQGPSSTGQPGR ddPTM_HeLa_SAHA_4h_R1 1 FRTGSGQGPSSTGQPGR 17 1 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 FRT(0.475)GS(0.525)GQGPSSTGQPGR 129.43 0.00074275 1352700 304.91 417.66 201.99 410.1 311.33 250.11 470.32 421.23 144.18 164.86 TRUE FALSE FALSE 336.9818328 431.192458 229.5161453 418.0380785 287.4759627 228.7992209 417.3983558 410.4555465 143.1766396 171.9679214 1.959562167 2.507400534 1.334645109 2.430907317 1.671683651 1.330476167 2.427187305 2.386814606 0.832577602 1 7.425995662 -9.062110435 0.702221059 0.947369399 2.000299397 0.501881922 0.428702507 0.580794641 0.48897017 0.350572738 0.089002121 8.67E-10 9.062110435 1.052929998 FS(ph)PGAPGGSGSQPNQK ddPTM_HeLa_SAHA_4h_R1 2 FSPGAPGGSGSQPNQK 16 0 Q15942;Q15942-2;H0Y2Y8;H7C3D3 Q15942 ZYX Zyxin 1 0 FS(1)PGAPGGSGSQPNQK;FS(1)PGAPGGSGSQPNQK ; 263.04 2.25E-47 40126000 3609.6 4519.3 3254.8 3994.5 4461.9 4734.5 4276.3 3341.4 6566.5 3701.5 TRUE FALSE FALSE 3989.274289 4665.728285 3698.347194 4071.819324 4120.030186 4331.093964 3795.119469 3255.931826 6520.803192 3861.08978 1.033199049 1.208396735 0.957850608 1.054577737 1.067064073 1.121728375 0.98291407 0.843267578 1.688850445 1 11.91479239 -4.337869076 3.507346085 1.038069462 0.833790423 0.0151032 0.216571934 0.180647535 3.657865783 0.009366773 0.0843071 4.59E-05 4.337869076 -0.204279039 FS(ph)PTMGR ddPTM_HeLa_SAHA_4h_R1 1 FSPTMGR 7 0 H0Y3P2;D3DQV9;P78344-2;P78344;H0YCH5 H0Y3P2 EIF4G2 Eukaryotic translation initiation factor 4 gamma 2 1 0 FS(0.643)PT(0.357)MGR 98.582 0.014612 8806100 3301.7 3260.9 2850.5 3304.8 3835.4 3839.7 3259 2650.3 4160.8 2933.7 TRUE FALSE FALSE 3648.987955 3366.5553 3238.951295 3368.769183 3541.532481 3512.535958 2892.288743 2582.509164 4131.844654 3060.186164 1.19240718 1.100114542 1.058416424 1.100837989 1.157293148 1.147817737 0.9451349 0.843905901 1.350193888 1 11.57940371 -4.58630754 3.978535086 1.099311716 0.861454188 0.492691139 0.094738997 0.111981129 3.449647187 0.01049946 0.048111816 2.59E-05 4.58630754 -0.237857528 FS(ph)PVLGR ddPTM_HeLa_SAHA_4h_R1 3 FSPVLGR 7 0 F8VZ44;Q9NRG9-2;Q9NRG9 F8VZ44 AAAS Aladin 1 0 FS(1)PVLGR;FS(1)PVLGR;FS(1)PVLGR ;; 97.635 0.011848 88523800 19270.1 20812.5 17839.6 21386.6 21622.7 19739.3 22934.2 16128.1 17403.5 16845.7 TRUE FALSE FALSE 21297.01753 21486.83866 20270.68778 21800.56857 19965.9734 18057.40059 20353.58346 15715.56656 17282.38763 17572.00057 1.211985935 1.222788411 1.153578826 1.240642378 1.136237921 1.027623492 1.158296312 0.894352723 0.983518499 1 14.10099083 -4.255852849 23.73846939 1.123568666 0.894352517 0.383107745 0.088161388 278.9988943 1185453.202 0.013701083 0.156496484 5.55E-05 4.255852849 -0.229216149 FS(ph)PVTPK ddPTM_HeLa_SAHA_4h_R1 2 FSPVTPK 7 0 Q15942;Q15942-2;H0Y2Y8;H7C3D3 Q15942 ZYX Zyxin 1 0 FS(1)PVTPK;FS(0.604)PVT(0.396)PK ; 101.46 0.012803 158403000 11116.7 14120.5 10573.5 11200.2 14406 14088.2 12850.5 10890.3 15863.6 13226.3 TRUE FALSE FALSE 12286.00551 14578.01346 12014.40152 11416.99607 13302.21539 12887.8061 11404.52792 10611.74189 15753.20392 13796.55052 0.890512849 1.056641908 0.870826479 0.827525406 0.964169658 0.934132491 0.826621691 0.769159065 1.141821928 1 13.75201998 -1.000000047 0.232206609 0.97047533 2.53E-13 0.402104847 0.084376915 39.93354765 0.487335409 0.044412084 14.93230893 0.099999989 1.000000047 -0.97047533 FS(ph)QTLQRS(ph)IS(ph)FR ddPTM_HeLa_SAHA_4h_R1 1 FSQTLQRSISFR 12 1 C9J609;C9JNF2;H7C4P0;C9J586;E7EU49;E9PG37;Q9NR81;Q9NR81-3;Q9NR81-2 C9J609 ARHGEF3 Rho guanine nucleotide exchange factor 3 3 0 FS(0.657)QT(0.343)LQRS(1)IS(1)FR 65.298 0.0077853 0 520.12 345.81 354.11 357.74 354.51 458.23 495.73 308.33 576.01 381.36 TRUE FALSE FALSE 574.828608 357.0144709 402.3662667 364.664575 327.3475204 419.1862261 439.9491557 300.4433651 572.0014995 397.8022959 1.445010785 0.897467095 1.011472962 0.916698015 0.822889973 1.05375517 1.105949262 0.755257997 1.437903967 1 8.635907793 -7.23093112 24.98473073 1.210144004 0.946201395 0.497890397 0.157307247 618.4979958 506519.4155 0.030958684 0.037914172 5.88E-08 7.23093112 -0.26394261 FS(ph)SKNQLK ddPTM_HeLa_SAHA_4h_R1 1 FSSKNQLK 8 1 H7C5R8;Q460N5-5;Q460N5-3;Q460N5-4;Q460N5-1;Q460N5 H7C5R8 PARP14 Poly [ADP-ribose] polymerase 14 1 0 FS(0.5)S(0.5)KNQLK 87.696 0.012006 2872000 255.29 435.45 161.36 555.52 613.15 647.71 688.09 498.26 711.54 579.8 TRUE FALSE FALSE 282.1425735 449.5588657 183.3493005 566.2728929 566.1705795 592.5214641 610.6643022 485.5152307 706.5883352 604.7980155 0.466507109 0.743320669 0.303157907 0.936300845 0.936131675 0.979701403 1.00969958 0.802772526 1.168304652 1 9.240309595 -6.069448371 24.99985601 0.706942202 0.940431273 0.144323538 0.233713721 214.9950589 77392.83841 0.035972829 0.059654211 8.52E-07 6.069448371 0.23348907 FS(ph)SPHLLEALK ddPTM_HeLa_SAHA_4h_R1 1 FSSPHLLEALK 11 0 Q96H22-5;Q96H22-4;Q96H22;Q96H22-3 Q96H22-5 CENPN Centromere protein N 1 0 FS(0.5)S(0.5)PHLLEALK 114.89 0.0029658 2752300 903.98 1162.4 957.67 1115.8 823.72 1151.4 1153.2 1194 1249.4 1085.8 TRUE FALSE FALSE 999.064764 1200.062523 1088.17628 1137.397922 760.6067516 1053.294242 1023.438901 1163.459209 1240.705324 1132.614152 0.882087481 1.059551058 0.960765216 1.004223654 0.671549751 0.929967404 0.903607728 1.027233508 1.095435124 1 10.14544075 FS(ph)SPIVK ddPTM_HeLa_SAHA_4h_R1 1 FSSPIVK 7 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 FS(0.5)S(0.5)PIVK 96.668 0.015815 47182000 12373 10613 10261 10732 12638 12713 12094 11230 12575 11956 TRUE FALSE FALSE 13674.44891 10956.86816 11659.31564 10939.73338 11669.67917 11629.78088 10733.15129 10942.75286 12487.48955 12471.48167 1.096457443 0.878553844 0.934878144 0.877179927 0.935709122 0.93250996 0.860615569 0.877422038 1.001283559 1 13.60634525 -7.254550257 24.99977099 1.045549349 0.901211479 0.734646045 0.036378317 210.9243639 765418.9154 0.007197963 0.008714452 5.56E-08 7.254550257 -0.14433787 FS(ph)SPTEELDYR ddPTM_HeLa_SAHA_4h_R1 2 FSSPTEELDYR 11 0 D6RAA5;Q4VXL8;E7EMZ9;E9PBC6;O95359-6;O95359-1;O95359-5;O95359-3;O95359;H0Y911;Q4VXL4;E9PGB3;O95359-2 D6RAA5 TACC2 Transforming acidic coiled-coil-containing protein 2 1 0 FS(0.5)S(0.5)PTEELDYR;FS(0.5)S(0.5)PTEELDYR ; 185.3 1.33E-06 23829000 2523.21 3478.8 2637.96 2919.44 3291.7 4218.8 3305.6 3374 4039.2 2861.6 TRUE FALSE FALSE 2788.612805 3591.515403 2997.447451 2975.949983 3039.490657 3859.334506 2933.645188 3287.697965 4011.090878 2984.97758 0.934215661 1.203196776 1.004177542 0.996975656 1.018262474 1.292919093 0.98280309 1.101414626 1.343759131 1 11.54350438 -7.298470832 24.98821295 0.968935169 1.080553348 0 0.151490285 594.6798143 401278.6007 0.015704097 0.017958633 5.03E-08 7.298470832 0.111618179 FSAS(ph)SGGGGSR ddPTM_HeLa_SAHA_4h_R1 2 FSASSGGGGSR 11 0 H0Y3P2;D3DQV9;P78344-2;P78344;H0YCH5;H0YD77;H0YEC5;H0YD99;H0YEN8;H0YDC0;H0YCF8 H0Y3P2 EIF4G2 Eukaryotic translation initiation factor 4 gamma 2 1 0 FS(0.001)AS(0.499)S(0.499)GGGGSR;FS(0.001)AS(0.5)S(0.5)GGGGSR ; 147.58 0.00061591 27692000 5754.5 6026.6 5374.5 6199.6 6649.9 6862.2 6871.6 6618.2 5470.3 6682.4 TRUE FALSE FALSE 6359.784713 6221.865794 6106.908871 6319.602223 6140.386099 6277.501954 6098.389483 6448.916027 5432.231737 6970.510967 0.912384292 0.892598236 0.876106343 0.906619651 0.880909036 0.900579883 0.874884139 0.925171204 0.779316145 1 12.7670487 -8.778529414 0.581946825 1.00569581 0.891237991 0 0.070067226 0.211863795 0.131932322 0.012107908 0.003660245 1.67E-09 8.778529414 -0.114457819 FSEGVLQS(ph)PSQDQEK ddPTM_HeLa_SAHA_4h_R1 4 FSEGVLQSPSQDQEK 15 0 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 FSEGVLQS(0.977)PS(0.023)QDQEK;FSEGVLQS(0.991)PS(0.009)QDQEK;FS(0.001)EGVLQS(0.989)PS(0.01)QDQEK;FSEGVLQS(0.999)PS(0.001)QDQEK ;;; 214.28 1.17E-17 51683000 7888.2 6925.3 7050.5 8474.7 7522.5 7611.7 7732.6 6797.8 7985.9 6655.6 TRUE FALSE FALSE 8717.917068 7149.684264 8011.305423 8638.740073 6946.127675 6963.140338 6862.507497 6623.922119 7930.325472 6942.555488 1.255721626 1.029834659 1.153941864 1.244317037 1.000514535 1.002965025 0.988469953 0.954104311 1.142277579 1 12.76125109 -5.61062564 10.60491167 1.126456573 0.985711177 0.482507266 0.076315208 0.371304298 42.07005165 0.015085024 0.030182506 2.45E-06 5.61062564 -0.140745396 FSGDLDDQTCR ddPTM_HeLa_SAHA_4h_R1 3 FSGDLDDQTCR 11 0 P05455 P05455 SSB Lupus La protein 0 0 ;; ;; 187.16 6.82E-06 28065000 3734.01 4332.4 3109.49 4518 3946.9 5735.3 4196.7 4517.3 5635.5 3952.19 FALSE FALSE TRUE 4126.770304 4472.772603 3533.235104 4605.452423 3644.489375 5246.620174 3724.476271 4401.754007 5596.282097 4122.588252 1.001014424 1.084942839 0.857042927 1.117126461 0.884029438 1.272651997 0.903431544 1.067716138 1.357468113 1 12.00933466 FSGEEGEIEDDES(ph)GTENR ddPTM_HeLa_SAHA_4h_R1 1 FSGEEGEIEDDESGTENR 18 0 Q9Y2W1 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 FSGEEGEIEDDES(0.809)GT(0.191)ENR 200.33 2.44E-16 6074200 418.5 900.58 448.79 436.78 553.46 879.34 589.31 358.3 1480 682.91 TRUE FALSE FALSE 462.5197501 929.7593829 509.948764 445.2345085 511.0540144 804.415285 522.9992878 349.1352048 1469.700559 712.3535922 0.649283944 1.305193647 0.715864663 0.62501897 0.71741621 1.129235949 0.734184952 0.490115034 2.063161575 1 9.476449722 FSGEEGEIEDDES(ph)GTENREEK ddPTM_HeLa_SAHA_4h_R1 1 FSGEEGEIEDDESGTENREEK 21 1 Q9Y2W1 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 FSGEEGEIEDDES(0.947)GT(0.053)ENREEK 66.017 0.0038222 3183800 365.18 476.72 293.86 440.4 281.3 544.49 396.76 317.42 876.82 544.02 TRUE FALSE FALSE 403.5913079 492.1660408 333.9057104 448.9245788 259.7468548 498.0963888 352.1155206 309.300856 870.7181382 567.4753646 0.711204985 0.867290585 0.588405649 0.791090868 0.457723579 0.877740991 0.620494814 0.545047196 1.534371697 1 9.148413953 -13.52287875 0.156222788 2.249234592 0.577879834 0.494908931 0.208051348 35.53586386 0.373504693 13.51002155 0.234784242 3.00E-14 13.52287875 -1.671354758 FSGEEGEIEDDES(ph)GTENREEKDNIQPTTE ddPTM_HeLa_SAHA_4h_R1 3 FSGEEGEIEDDESGTENREEKDNIQPTTE 29 2 Q9Y2W1 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 FSGEEGEIEDDES(0.499)GT(0.499)ENREEKDNIQPT(0.002)TE;FSGEEGEIEDDES(0.546)GT(0.454)ENREEKDNIQPTTE;FSGEEGEIEDDES(0.5)GT(0.5)ENREEKDNIQPTTE ;; 94.019 6.12E-08 113158200 1881.95 2257.39 1602.59 2221.76 2381.39 2911.1 1971.39 2140.27 3150.98 2078.9 TRUE FALSE FALSE 2079.902136 2330.530917 1820.982619 2264.765378 2198.928413 2663.057903 1749.564009 2085.524992 3129.052074 2168.531553 0.959129293 1.074704638 0.839730746 1.044377415 1.014017255 1.228046647 0.806796658 0.961722226 1.442935921 1 11.08250272 FSGEEGEIEDDESGT(ph)ENREEK ddPTM_HeLa_SAHA_4h_R1 1 FSGEEGEIEDDESGTENREEK 21 1 Q9Y2W1 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 FSGEEGEIEDDES(0.353)GT(0.647)ENREEK 90.442 0.00050379 3300500 736.75 1220.4 507.18 818.29 858.2 1249.9 956.63 850.25 1975.6 821.95 TRUE FALSE FALSE 814.2447453 1259.941761 576.2958491 834.1291862 792.4449014 1143.401488 848.9874747 828.5018361 1961.851639 857.388287 0.949680276 1.469511282 0.672152697 0.97287215 0.924254405 1.333586551 0.990201858 0.966308788 2.288171729 1 9.743804898 FSGFSAKPNNSGEAPS(ph)SPTPK ddPTM_HeLa_SAHA_4h_R1 1 FSGFSAKPNNSGEAPSSPTPK 21 1 K7ENR9;K7ERZ5;P49916-4;P49916-3;P49916-2;P49916 K7ENR9 LIG3 DNA ligase 3 1 0 FSGFSAKPNNS(0.001)GEAPS(0.647)S(0.266)PT(0.087)PK 65.278 0.0040135 3952300 1498 1446.7 881.97 1473.3 1728.7 1690.8 1446.8 1300.7 1684.9 1352.9 TRUE FALSE FALSE 1655.566513 1493.574029 1002.160278 1501.817852 1596.247379 1546.734328 1284.002256 1267.429977 1673.174644 1411.23014 1.173137156 1.058349015 0.710132423 1.064190602 1.13110352 1.096018491 0.909846112 0.898102968 1.185614307 1 10.46273756 -6.979198907 24.99616718 1.083547896 0.974909303 0.219994187 0.123571229 373.2200399 448488.3336 0.021206947 0.027869783 1.05E-07 6.979198907 -0.108638593 FSGWYDADLS(ph)PAGHEEAK ddPTM_HeLa_SAHA_4h_R1 1 FSGWYDADLSPAGHEEAK 18 0 P18669 P18669 PGAM1 Phosphoglycerate mutase 1 1 0 FSGWYDADLS(1)PAGHEEAK 106.73 0.0011494 6148900 3283 3691.7 3061.1 2940.2 3821.2 3644.4 4047.8 2864.1 3312 3293.5 TRUE FALSE FALSE 3628.321003 3811.313502 3478.250766 2997.111823 3528.420482 3333.876617 3592.330891 2790.840469 3288.951522 3435.498903 1.056126375 1.109391564 1.01244415 0.872394929 1.027047477 0.970419934 1.045650426 0.812353765 0.957343203 1 11.74630391 -6.506504135 24.79869401 1.034768695 0.955577821 0.231543915 0.073554123 720.8733199 1091734.573 0.010321298 0.015504044 3.12E-07 6.506504135 -0.079190874 FSHEEIAMATVTALR ddPTM_HeLa_SAHA_4h_R1 1 FSHEEIAMATVTALR 15 0 P04075;H3BQN4;J3KPS3;P04075-2;H3BU78;H3BR68 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 78.932 0.0075452 0 438.34 363.03 402.52 547.31 386.9 359.74 510.9 451.93 549.67 264.43 FALSE FALSE TRUE 484.4466124 374.7924102 457.3733294 557.9039765 357.2558056 329.0881282 453.4121874 440.370285 545.8448017 275.8308714 1.756317594 1.358776153 1.658165843 2.022630656 1.295198771 1.193079391 1.643805079 1.596522836 1.978911204 1 8.107640124 -9.415201114 1.067797779 0.990216238 1.575063595 0 0.377634179 0.392379732 0.778485973 0.176864079 0.041781134 3.84E-10 9.415201114 0.584847357 FSK(ac)SATSPEGK ddPTM_HeLa_SAHA_4h_R1 1 FSKSATSPEGK 11 1 P13639 P13639 EEF2 Elongation factor 2 0 1 FSK(1)SATSPEGK 98.105 0.013328 1471300 480.97 518.95 247.2 455.59 589.32 587.44 343.54 499.63 391.3 438.89 FALSE TRUE FALSE 531.5606314 535.7643205 280.8871286 464.4086032 544.1664289 537.3868072 304.8839751 486.8501881 388.5769114 457.8126958 1.161087572 1.170269688 0.613541589 1.014407437 1.188622408 1.173813684 0.665957886 1.063426577 0.848768317 1 8.838613661 FSNS(ph)MESLSSR ddPTM_HeLa_SAHA_4h_R1 2 FSNSMESLSSR 11 0 Q9H792 Q9H792 PEAK1 Pseudopodium-enriched atypical kinase 1 1 0 FS(0.002)NS(0.992)MES(0.007)LSSR;FS(0.008)NS(0.984)MES(0.008)LSSR ; 159.66 0.00021742 11746300 857.79 1026.03 708.92 1095.38 931.07 1049.94 1010.76 1146.7 1108.57 851.19 TRUE FALSE FALSE 948.0162879 1059.274045 805.5279257 1116.582664 859.7316177 960.4792052 897.0266246 1117.369074 1100.855371 887.8889665 1.067719415 1.19302535 0.907239482 1.257570153 0.968287309 1.081755987 1.010291442 1.258455862 1.239857023 1 9.794235464 -13.52287875 0.115108897 0.696755446 1.138700602 0 0.133246095 169.5611865 1.421624523 11.94915741 0.545408237 3.00E-14 13.52287875 0.441945157 FSPAGPILSIR ddPTM_HeLa_SAHA_4h_R1 1 FSPAGPILSIR 11 0 P11940;P11940-2;A0A087WTT1;E7ERJ7;Q9H361;H0YBN4;E5RH24;E5RJB9;Q4VXU2;Q4VXU2-2;E5RHG7;Q5JQF8;E5RFD8;E5RGC4 P11940 PABPC1;PABPC3;PABPC1L;PABPC1L2A Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 3;Polyadenylate-binding protein 1-like;Polyadenylate-binding protein 1-like 2 0 0 99.139 0.019653 491610 206.04 216.11 388.39 215.12 220.31 58.44 291.81 0 0 123.42 FALSE FALSE TRUE 227.7122325 223.1121058 441.3177666 219.2839587 203.4298954 53.46058323 258.9747708 0 0 128.7412402 1.768759041 1.73302747 3.427944036 1.703292265 1.580145531 0.415256084 2.011591394 0 0 1 7.008330462 -5.352527242 10.5475558 1.59724333 0.929590948 0.129024731 0.928333558 0.88553429 98.38766102 0.118144504 0.264326949 4.44E-06 5.352527242 -0.667652382 FSPNSSNPIIVSCGWDK ddPTM_HeLa_SAHA_4h_R1 1 FSPNSSNPIIVSCGWDK 17 0 P63244;H0YAF8;J3KPE3;H0Y8W2;D6RAC2;H0YAM7;D6REE5;D6R9L0;D6R9Z1;D6RHH4;D6RFX4;H0Y8R5;D6RBD0 P63244 GNB2L1 "Guanine nucleotide-binding protein subunit beta-2-like 1;Guanine nucleotide-binding protein subunit beta-2-like 1, N-terminally processed" 0 0 139.6 1.29E-05 771310 0 205.92 83.829 0 0 179.78 80.131 0 0 0 FALSE FALSE TRUE 0 212.5919431 95.25277956 0 0 164.4617326 71.11444899 0 0 0 0 FSPPS(ph)PLPQAVFSTSSR ddPTM_HeLa_SAHA_4h_R1 2 FSPPSPLPQAVFSTSSR 17 0 A0A1X7SBS4;Q99594 A0A1X7SBS4 TEAD3 Transcriptional enhancer factor TEF-5 1 0 FS(0.024)PPS(0.975)PLPQAVFS(0.001)T(0.001)SSR;FS(0.012)PPS(0.987)PLPQAVFSTSSR ; 111.77 0.0013567 13353600 1349.89 1544.61 1333.15 1541.72 1550.75 1520.29 1779.31 1131.86 1095.75 1332.33 TRUE FALSE FALSE 1491.877624 1594.656377 1514.824739 1571.56222 1431.93187 1390.752739 1579.097356 1102.90866 1088.124587 1389.773267 1.073468356 1.147421969 1.089979766 1.130804756 1.030334879 1.000704771 1.136226602 0.793588916 0.782951157 1 10.44063382 -4.250312146 24.88196172 1.055468246 0.793588755 0.347583734 0.101558387 766.2830802 1713476.075 0.008271315 0.165789896 5.62E-05 4.250312146 -0.261879491 FSPVTPK(ac)FTPVASK ddPTM_HeLa_SAHA_4h_R1 1 FSPVTPKFTPVASK 14 1 Q15942;Q15942-2;H0Y2Y8;H7C3D3 Q15942 ZYX Zyxin 0 1 FSPVTPK(1)FTPVASK 98.942 0.01497 447840 130.45 265.75 0 210.28 162.78 421.81 306.52 469 598.53 201.92 FALSE TRUE FALSE 144.1713295 274.3604744 0 214.3502735 150.3078316 385.869415 272.0295629 457.0036591 594.364781 210.6257594 0.684490491 1.302596962 0 1.017683089 0.713625114 1.832014356 1.29153036 2.169742488 2.821899766 1 7.718538077 -5.261692546 24.99947135 0.821977385 1.717139234 0.089162651 0.735265679 12.08636881 1193570.716 0.049379774 0.117285222 5.47E-06 5.261692546 0.895161849 FSS(ph)PIVK ddPTM_HeLa_SAHA_4h_R1 1 FSSPIVK 7 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 FS(0.072)S(0.928)PIVK 117.81 0.0043738 53097000 8571.9 7333.9 7378.2 7603.7 8129.3 8371.7 8229.6 7894.6 9725.8 8060.7 TRUE FALSE FALSE 9473.531771 7571.523172 8383.662672 7750.880609 7506.43479 7658.384062 7303.583749 7692.667563 9658.117366 8408.236225 1.126696672 0.900488874 0.997077443 0.921820035 0.892747847 0.910819327 0.868622569 0.914896699 1.148649623 1 13.03758749 -7.248336092 24.83128397 1.059828984 0.915788671 0.709121915 0.050595695 357.7611309 677973.2199 0.009309073 0.011363991 5.64E-08 7.248336092 -0.144040313 FSS(ph)PTEELDYR ddPTM_HeLa_SAHA_4h_R1 1 FSSPTEELDYR 11 0 D6RAA5;Q4VXL8;E7EMZ9;E9PBC6;O95359-6;O95359-1;O95359-5;O95359-3;O95359;H0Y911;Q4VXL4;E9PGB3;O95359-2 D6RAA5 TACC2 Transforming acidic coiled-coil-containing protein 2 1 0 FS(0.076)S(0.914)PT(0.01)EELDYR 140.14 0.00090926 3021900 745.29 984.92 850.25 852.27 984.01 1229.4 1136.7 865 698.26 855.39 TRUE FALSE FALSE 823.6830217 1016.832054 966.1176421 868.7669183 908.6153664 1124.648204 1008.795524 842.8745525 693.4007518 892.2700491 0.923131985 1.13960124 1.082763725 0.973659173 1.018318801 1.260434781 1.130594404 0.944640643 0.777119833 1 9.801336603 -7.266701597 24.95099909 0.963701215 1.081377276 0.332288538 0.104846754 421.288887 1997554.335 0.015267289 0.01771768 5.41E-08 7.266701597 0.117676062 FSSSIENSDS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 3 FSSSIENSDSPVR 13 0 O95425-3;O95425-2;O95425-4;O95425;A0A6I8PIX7 O95425-3 SVIL Supervillin 1 0 FSSSIENS(0.008)DS(0.992)PVR;FSSSIENS(0.005)DS(0.995)PVR;FSSSIENSDS(1)PVR ;; 294.26 2.55E-81 46804100 4115.86 4328.27 3779.59 4532.9 5233.65 6453.76 6391.1 5597.27 6296.68 5218.92 TRUE FALSE FALSE 4548.785039 4468.508788 4294.652842 4620.640834 4832.648868 5903.86334 5671.956608 5454.099938 6252.860891 5443.933182 0.835569594 0.820823592 0.788887868 0.848768837 0.887712745 1.084484901 1.041885787 1.001867539 1.148592512 1 12.41043364 -5.269932476 24.40087872 0.894948306 1.042660048 0.281238981 0.100617698 342.5129449 984049.6703 0.012237159 0.027794328 5.37E-06 5.269932476 0.147711742 FSSSSTSS(ph)SPSSLPR ddPTM_HeLa_SAHA_4h_R1 1 FSSSSTSSSPSSLPR 15 0 Q9NX09 Q9NX09 DDIT4 DNA damage-inducible transcript 4 protein 1 0 FSSS(0.003)S(0.006)T(0.169)S(0.17)S(0.408)S(0.215)PS(0.014)S(0.014)LPR 122.33 0.00069696 5731900 838.8 637.71 531.74 904.24 765.79 746.73 693.34 599.31 1121 865.1 TRUE FALSE FALSE 927.0288326 658.3722224 604.202758 921.7428728 707.1153356 683.104403 615.3235584 583.980518 1113.19887 902.3986947 1.027294075 0.729580203 0.669551897 1.021436399 0.783595255 0.756987357 0.681875497 0.647142468 1.233599823 1 9.817621171 -5.979234015 0.341130283 1.039101169 0.594347594 0.55136104 0.127042835 1.358274417 0.26653483 0.058314689 0.227702751 1.05E-06 5.979234015 -0.444753574 FSSVSS(ph)PQPR ddPTM_HeLa_SAHA_4h_R1 1 FSSVSSPQPR 10 0 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 FSS(0.001)VS(0.047)S(0.952)PQPR 118.23 0.0033192 39114000 3004.3 3287.4 3044.5 2651.3 3297.8 3184.1 3745.9 2809.4 3633 3073.8 TRUE FALSE FALSE 3320.306058 3393.913917 3459.388605 2702.619745 3045.123276 2912.796767 3324.401473 2737.539616 3607.717657 3206.326561 1.035548312 1.058505381 1.078925848 0.84290221 0.949723373 0.908452933 1.036825604 0.853793138 1.125187216 1 11.64670565 -6.272113648 24.99944224 1.025242469 0.926116314 0.522056726 0.063246932 483.7785622 1133022.065 0.008095239 0.012443501 5.34E-07 6.272113648 -0.099126156 FSTLLMMLK ddPTM_HeLa_SAHA_4h_R1 1 FSTLLMMLK 9 0 Q96L73-2;Q96L73-3;Q96L73 Q96L73-2 NSD1 "Histone-lysine N-methyltransferase, H3 lysine-36 and H4 lysine-20 specific" 0 0 52.937 0.022215 9200900 9331.8 9561.4 7746.5 7705.4 9137.7 432 10421 8871.1 7973.5 8345.2 FALSE FALSE TRUE 10313.36154 9871.195633 8802.152678 7854.549159 8437.5714 395.1911696 9248.401653 8644.190107 7918.011764 8705.002412 1.184762629 1.133968167 1.01116028 0.902302927 0.969278468 0.045398169 1.06242379 0.993014097 0.909593288 1 13.08762898 -5.938631489 1.902250485 1.088891716 0.730555905 0.191659981 0.273291623 0.345770735 2.517572565 0.040951425 0.083761418 1.15E-06 5.938631489 -0.35833581 FSTLTDDPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 FSTLTDDPSPR 11 0 Q14C86-4;Q14C86-5;Q14C86-2;Q14C86;Q14C86-6 Q14C86-4 GAPVD1 GTPase-activating protein and VPS9 domain-containing protein 1 1 0 FSTLT(0.001)DDPS(0.999)PR;FSTLTDDPS(1)PR;FSTLTDDPS(1)PR ;; 132.17 0.00076217 20280100 4959.1 6660.5 5451.5 6898 7960.4 8689.1 7092.1 6246.4 7585.4 6192.1 TRUE FALSE FALSE 5480.720891 6876.30457 6194.40203 7031.520765 7350.475872 7948.739796 6294.078243 6086.626133 7532.612584 6459.071734 0.848530736 1.064596408 0.959023569 1.088627136 1.138008088 1.230631912 0.974455541 0.942337596 1.166206677 1 12.65711113 -6.704026963 1.613630339 0.931678633 1.077661974 0 0.117717499 0.353819595 1.873080939 0.017747422 0.02656066 1.98E-07 6.704026963 0.145983341 FSTYSQSPPDT(ph)PSLR ddPTM_HeLa_SAHA_4h_R1 1 FSTYSQSPPDTPSLR 15 0 H3BMG9;H3BSV5;A0A0A0MTL6;Q6ZS17-2;Q6ZS17;Q6ZS17-3;Q6ZS17-4 H3BMG9 FAM65A Protein FAM65A 1 0 FSTYSQS(0.001)PPDT(0.985)PS(0.014)LR 183.75 4.43E-25 0 477.01 817.85 630.29 556.86 768.98 453.07 496.58 496.97 900.97 754.04 TRUE FALSE FALSE 527.1841004 844.3488766 716.1826388 567.6388305 710.0609185 414.4658871 440.7035115 484.258227 894.7000764 786.5503546 0.670248379 1.073483562 0.910536286 0.721681488 0.902753288 0.526941326 0.560299171 0.615673522 1.13749879 1 9.619395319 -5.26081962 24.99522383 0.857606464 0.56690411 0.527000105 0.144102785 37.86827506 1527199.377 0.020477187 0.048965824 5.49E-06 5.26081962 -0.290702354 FSVCVLGDQQHCDEAK ddPTM_HeLa_SAHA_4h_R1 2 FSVCVLGDQQHCDEAK 16 0 P62906 P62906 RPL10A 60S ribosomal protein L10a 0 0 ; ; 192.4 1.99E-18 11011300 3116.7 2971.2 2675.31 4346 3785.2 3451.9 3977.1 3713.9 4153.5 3677.1 FALSE FALSE TRUE 3444.528806 3067.468829 3039.887314 4430.123114 3495.178794 3157.7787 3529.586241 3618.903816 4124.595455 3835.637776 0.898032871 0.799728496 0.792537641 1.154989958 0.911237973 0.823273438 0.920208436 0.943494675 1.075334976 1 11.90525077 -9.105889097 1.028283108 0.996486314 0.905504984 0.190220168 0.100816933 0.888502547 1.779938085 0.053518834 0.018293908 7.84E-10 9.105889097 -0.090981329 FSVS(ph)PVVR ddPTM_HeLa_SAHA_4h_R1 2 FSVSPVVR 8 0 P13639 P13639 EEF2 Elongation factor 2 1 0 FS(0.353)VS(0.647)PVVR;FS(0.125)VS(0.875)PVVR ; 102.06 0.0096464 9845300 3965.9 4010.2 3560.7 3993.6 4061.9 4776.6 4775.1 4177.4 3982.6 3991.5 TRUE FALSE FALSE 4383.051558 4140.133111 4045.933653 4070.901903 3750.6781 4369.606808 4237.793181 4070.548157 3954.884762 4163.593099 1.052708911 0.994365447 0.971740887 0.977737691 0.900827245 1.049479789 1.017821166 0.977652729 0.949873023 1 12.02361337 -7.053272054 8.252995123 1.024861368 0.983228127 0 0.044256331 0.428016717 62.11941196 0.006677652 0.008210943 8.85E-08 7.053272054 -0.04163324 FT(ph)GSFDDDPDPHRDPYGEEVDR ddPTM_HeLa_SAHA_4h_R1 1 FTGSFDDDPDPHRDPYGEEVDR 22 1 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;X6RGP5;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 FT(0.564)GS(0.436)FDDDPDPHRDPYGEEVDR 61.039 0.0040151 2688100 0 194.59 0 179.21 203.86 440.7 192.94 422.41 272.34 244.26 TRUE FALSE FALSE 0 200.8948437 0 182.6788687 188.2402908 403.1498807 171.2298834 411.6053638 270.4447638 254.791244 0 0.788468397 0 0.716974672 0.73880204 1.582275256 0.672039905 1.615461181 1.061436647 1 7.993171889 -5.522361537 2.985529842 0.50637373 1.228778893 0.333271137 0.423446033 0.230349569 4.169096906 0.06673229 0.153157998 3.00E-06 5.522361537 0.722405162 FT(ph)IGT(ph)T(ph)HFIYSNLLHSTPMPALTTVK ddPTM_HeLa_SAHA_4h_R1 1 FTIGTTHFIYSNLLHSTPMPALTTVK 26 0 Q6WRI0 Q6WRI0 IGSF10 Immunoglobulin superfamily member 10 3 0 FT(0.96)IGT(0.844)T(0.844)HFIY(0.279)S(0.032)NLLHS(0.03)T(0.006)PMPALT(0.003)T(0.003)VK 46.178 0.007805 0 265.29 247.41 473.92 355.54 469.49 454.18 458.1 532.94 452.32 555.39 TRUE FALSE FALSE 293.1944194 255.4262463 538.5033495 362.4219908 433.5177776 415.4813089 406.5533823 519.3081665 449.1722683 579.3355809 0.506087368 0.440895147 0.929518861 0.625582137 0.748301661 0.717168637 0.701758006 0.896385763 0.775323117 1 9.178255463 -9.534828929 1.32809939 0.99807913 0.672384195 0.125471394 0.158756496 0.357596414 1.140102769 0.102867471 0.025157786 2.92E-10 9.534828929 -0.325694935 FT(ph)S(ph)SRMS(ph)S(ph)FNR ddPTM_HeLa_SAHA_4h_R1 3 FTSSRMSSFNR 11 1 Q8NI51-11;Q8NI51-6 Q8NI51-11 4 0 FT(0.983)S(0.716)S(0.302)RMS(1)S(1)FNR;FT(0.992)S(0.713)S(0.296)RMS(0.999)S(0.999)FNR;FT(0.996)S(0.86)S(0.144)RMS(1)S(1)FNR ;; 54.005 0.0080444 0 0 0 0 0 79.449 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 73.36163478 0 0 0 0 0 0 FT(ph)T(ph)MPFLFCNVNDVCNFAS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 FTTMPFLFCNVNDVCNFASR 20 0 A0A2R8Y6E5;Q01955-2;Q01955 A0A2R8Y6E5 COL4A3 Collagen alpha-3(IV) chain;Tumstatin 3 0 FT(1)T(1)MPFLFCNVNDVCNFAS(1)R 58.427 0.022784 1778700 0 0 0 74.226 0 0 149.95 0 0 0 TRUE FALSE FALSE 0 0 0 75.66275156 0 0 133.0772314 0 0 0 0 FTASAGIQVVGDDLTVTNPK ddPTM_HeLa_SAHA_4h_R1 2 FTASAGIQVVGDDLTVTNPK 20 0 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 ; ; 186.77 3.22E-13 131129000 4668 3877.2 4128.6 4783 4983.3 5065.9 5255.6 4366.1 5372.3 4484.7 FALSE FALSE TRUE 5159.001658 4002.823824 4691.224107 4875.581881 4601.480631 4634.25682 4664.226056 4254.421484 5334.913727 4678.057365 1.10280855 0.855659414 1.002814575 1.04222362 0.983630655 0.990637023 0.997043365 0.909441923 1.140412208 1 12.19169384 -7.311749843 24.999765 1.04854847 0.975411177 0.374499988 0.061979603 380.2843108 188966.086 0.010324839 0.011806909 4.88E-08 7.311749843 -0.073137293 FTDEEVDELYR ddPTM_HeLa_SAHA_4h_R1 5 FTDEEVDELYR 11 0 J3QRS3;P19105;O14950 J3QRS3 MYL12A;MYL12B Myosin regulatory light chain 12A;Myosin regulatory light chain 12B 0 0 ;;;; ;;;; 260.04 9.84E-41 151396900 6628.66 6561.47 4907.98 6359.97 6052.39 8430.66 7416.3 6829.92 9131.5 6084.91 FALSE FALSE TRUE 7325.892872 6774.065933 5576.813955 6483.076416 5588.657186 7712.320338 6581.798405 6655.220536 9067.953148 6347.260249 1.154181897 1.067242506 0.878617504 1.021397605 0.880483384 1.215062883 1.036951086 1.048518617 1.428640515 1 12.63191828 -11.6596245 13.09125784 0.595700612 1.051872654 0 0.155734876 0 0 0 0.013962019 2.19E-12 11.6596245 0.456172042 FTDEEVDEMYR ddPTM_HeLa_SAHA_4h_R1 4 FTDEEVDEMYR 11 0 P24844;P24844-2 P24844;P24844-2 MYL9 Myosin regulatory light polypeptide 9 0 0 ;;; ;;; 222.28 3.28E-15 19610800 2873.95 4121.2 3030.51 4044.7 4056.63 4002.78 3099.31 3150.47 5336.29 3463.24 FALSE FALSE TRUE 3176.245247 4254.729584 3443.492121 4122.991017 3745.811886 3661.720625 2750.567482 3069.885539 5299.154323 3612.557225 0.879223511 1.177761159 0.953200712 1.141294313 1.036886519 1.01360903 0.761390702 0.849781844 1.466870694 1 11.81880473 -4.76428455 24.99855788 0.983989668 0.805586247 0.123179895 0.177546719 58.60057401 514907.0545 0.014167007 0.045435567 1.72E-05 4.76428455 -0.178403421 FTDKDQQPS(ph)GS(ph)EGEDDDAEAALKK ddPTM_HeLa_SAHA_4h_R1 3 FTDKDQQPSGSEGEDDDAEAALKK 24 2 H3BNW0;Q9NXG2 H3BNW0 THUMPD1 THUMP domain-containing protein 1 2 0 FT(0.031)DKDQQPS(0.992)GS(0.977)EGEDDDAEAALKK;FT(0.004)DKDQQPS(0.997)GS(0.999)EGEDDDAEAALKK;FT(0.011)DKDQQPS(0.995)GS(0.995)EGEDDDAEAALKK ;; 77.576 0.00028366 244700000 5815.6 6149.4 5357.5 6431.4 6667.9 7977.6 6605.1 6379.5 7248.8 6416 TRUE FALSE FALSE 6427.311491 6348.644595 6087.592199 6555.889047 6157.006943 7297.863599 5861.876764 6216.321627 7198.355011 6692.625159 0.960357309 0.948603043 0.909597065 0.979569136 0.919968891 1.090433638 0.875871071 0.928831584 1.075565244 1 12.7083565 -8.709887098 0.741335536 0.998980621 0.951859704 0.193884815 0.059477919 1.16737097 1.2615798 0.028962565 0.011350145 1.95E-09 8.709887098 -0.047120917 FTGS(ph)FDDDPDPHRDPYGEEVDRR ddPTM_HeLa_SAHA_4h_R1 2 FTGSFDDDPDPHRDPYGEEVDRR 23 2 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;X6RGP5;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 FT(0.193)GS(0.806)FDDDPDPHRDPYGEEVDRR;FT(0.205)GS(0.785)FDDDPDPHRDPY(0.009)GEEVDRR ; 55.588 0.0063237 67114000 1377.55 1433.94 1381.28 1552.7 1695.42 1817.31 1968.88 1625.16 1628.57 1536.55 TRUE FALSE FALSE 1522.447029 1480.400597 1569.513645 1582.754754 1565.517286 1662.464964 1747.336441 1583.59076 1617.236649 1602.79819 0.949868198 0.923635056 0.979233477 0.987494722 0.976740113 1.037226629 1.090178696 0.988016314 1.009008282 1 10.64637707 -5.252688315 4.558516831 0.97269829 1.044696297 0.441271126 0.03247277 0.126342676 7.110269822 0.004643419 0.011665914 5.59E-06 5.252688315 0.071998007 FTGSFDDDPDPHRDPYGEEVDRR ddPTM_HeLa_SAHA_4h_R1 1 FTGSFDDDPDPHRDPYGEEVDRR 23 2 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;X6RGP5;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 0 0 55.536 0.0087183 7470900 1179.9 843.87 988.52 1066.9 1277.1 1238.7 940.75 945.21 1042.9 979.02 FALSE FALSE TRUE 1304.007296 871.2119417 1123.230358 1087.551392 1179.248874 1133.155791 834.8943341 921.0328968 1035.642374 1021.230343 1.276898306 0.853100329 1.099879537 1.064942301 1.154733485 1.109598631 0.817537727 0.901885557 1.014112419 1 9.996092594 -4.767077717 24.97870572 1.107206943 0.859711613 0.337599748 0.11008498 94.77037574 419856.3187 0.017863953 0.055833282 1.71E-05 4.767077717 -0.24749533 FTGVASGST(ph)GSTGSCSVGAK ddPTM_HeLa_SAHA_4h_R1 1 FTGVASGSTGSTGSCSVGAK 20 0 B3KRP1;Q9UKI8-5;Q9UKI8;Q9UKI8-2;F8W7X8 B3KRP1 TLK1 Serine/threonine-protein kinase tousled-like 1 1 0 FTGVASGS(0.025)T(0.796)GS(0.077)T(0.077)GS(0.025)CSVGAK 125.73 6.89E-07 0 428.73 445.54 394.69 555.22 592.68 484.66 665.21 667.99 445.09 385.27 TRUE FALSE FALSE 473.8257885 459.9757883 448.4762977 565.967086 547.2689864 443.3642414 590.3588201 650.903783 441.9925825 401.8808752 1.179020495 1.144557546 1.115943369 1.408295644 1.361769172 1.103223041 1.468989585 1.619643589 1.099809943 1 8.650624113 -1 0.180055788 0.993532194 3.341940119 0.656496611 0.111645521 24.9717904 0.27117349 0.143802006 16.14456045 0.1 1 2.348407925 FTITPPTAQVVGVLK ddPTM_HeLa_SAHA_4h_R1 2 FTITPPTAQVVGVLK 15 0 P52907 P52907 CAPZA1 F-actin-capping protein subunit alpha-1 0 0 ; ; 120.6 0.0017082 1560680 752.15 706.11 961.02 1018.014 875.2 1059.2 1390.92 894.288 1022.9 979.93 FALSE FALSE TRUE 831.264588 728.9884273 1091.982801 1037.719133 808.1423651 968.9502011 1234.410021 871.4134079 1015.781556 1022.179578 0.813227544 0.713170604 1.06828861 1.015202373 0.790607035 0.947925611 1.207625399 0.852505202 0.993740804 1 9.997432958 FTITPSTTQVVGILK ddPTM_HeLa_SAHA_4h_R1 1 FTITPSTTQVVGILK 15 0 P47755 P47755 CAPZA2 F-actin-capping protein subunit alpha-2 0 0 161.25 6.34E-07 487740 156.89 71.591 0 134.09 0 182.79 82.803 0 0 139.02 FALSE FALSE TRUE 173.39241 73.91059537 0 136.6855058 0 167.2152637 73.48578851 0 0 145.0138325 1.195695659 0.509679622 0 0.942568743 0 1.153098713 0.506750199 0 0 1 7.180046712 -7.233888481 8.255527776 1.092425437 0.458494586 0 0.506443422 0.200278023 54.54385604 0.057637074 0.070070544 5.84E-08 7.233888481 -0.633930851 FTMVQVWPVR ddPTM_HeLa_SAHA_4h_R1 1 FTMVQVWPVR 10 0 C9JA17;C9JVW8;P38606-2;P38606 C9JA17 ATP6V1A V-type proton ATPase catalytic subunit A 0 0 105.4 0.013155 251300 0 0 107.79 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 122.4790599 0 0 0 0 0 0 0 0 FTPGTFTNQIQAAFR ddPTM_HeLa_SAHA_4h_R1 1 FTPGTFTNQIQAAFR 15 0 C9J9K3;A0A0C4DG17;P08865 C9J9K3 RPSA 40S ribosomal protein SA 0 0 184.34 3.34E-16 380140 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 FTPGTFTNQIQAAFREPR ddPTM_HeLa_SAHA_4h_R1 1 FTPGTFTNQIQAAFREPR 18 1 C9J9K3;A0A0C4DG17;P08865 C9J9K3 RPSA 40S ribosomal protein SA 0 0 70.167 0.01128 1078200 399.28 334.49 481.21 557.67 463.27 299.92 427.07 442.03 307.7 316.45 FALSE FALSE TRUE 441.2781024 345.3276955 546.7867928 568.4645093 427.7743527 274.3651287 379.0149596 430.7235127 305.5586906 330.0937082 1.33682676 1.046150493 1.6564593 1.722130702 1.295917923 0.831173457 1.148204132 1.304852234 0.925672568 1 8.36673183 -3.310623501 14.27500984 1.21528129 1.20879774 0 0.281370846 0 0 0.038313941 0 0.000489076 3.310623501 -0.00648355 FTPPSTALS(ph)PGK ddPTM_HeLa_SAHA_4h_R1 1 FTPPSTALSPGK 12 0 A8MZI9;Q01196-7;Q01196-3;Q01196-4;Q01196;Q01196-9;Q01196-10;Q01196-2;Q01196-8;C9JWM1;H9KVB1;Q01196-6;Q01196-5 A8MZI9 RUNX1 Runt-related transcription factor 1 1 0 FT(0.058)PPS(0.044)T(0.076)ALS(0.823)PGK 116.9 0.0017121 4045300 778.64 1222.5 869.84 1046.5 1361.7 1394.7 1039.5 1006.1 1226.9 1061.6 TRUE FALSE FALSE 860.5409277 1262.109802 988.3772653 1066.756521 1257.36684 1275.863714 922.5327242 980.3654188 1218.361903 1107.370771 0.777102801 1.13973552 0.892544115 0.963323711 1.135452436 1.152155851 0.833083867 0.885309098 1.100229421 1 10.11292263 -7.269146461 24.9935464 0.894742994 0.999283607 0 0.134937219 970.3782858 3146867.072 0.023022021 0.026586918 5.38E-08 7.269146461 0.104540614 FTPVASKFS(ph)PGAPGGSGSQPNQK ddPTM_HeLa_SAHA_4h_R1 4 FTPVASKFSPGAPGGSGSQPNQK 23 1 Q15942;Q15942-2;H0Y2Y8;H7C3D3 Q15942 ZYX Zyxin 1 0 FT(0.002)PVAS(0.225)KFS(0.764)PGAPGGS(0.007)GS(0.003)QPNQK;FTPVAS(0.012)KFS(0.52)PGAPGGS(0.306)GS(0.162)QPNQK;FT(0.001)PVAS(0.022)KFS(0.972)PGAPGGS(0.004)GS(0.001)QPNQK;FT(0.002)PVAS(0.197)KFS(0.8)PGAPGGS(0.001)GS(0.001)QPNQK ;;; 110.36 3.04E-05 69890000 9832.5 8793.33 8223.98 8165.72 10733 9563.23 9761.99 9202 8957.13 8577.41 TRUE FALSE FALSE 10866.72746 9078.239662 9344.701166 8323.779318 9910.639859 8748.389003 8663.545193 8966.626164 8894.796603 8947.224122 1.214536186 1.014643149 1.044424621 0.930319751 1.107677613 0.977776893 0.968294197 1.002168499 0.994140359 1 13.12722444 -7.039802456 24.78312972 1.102007762 1.005630002 0.088288731 0.073807667 549.3014848 342023.215 0.014644672 0.017937596 9.12E-08 7.039802456 -0.09637776 FTQAGSEVSALLGR ddPTM_HeLa_SAHA_4h_R1 1 FTQAGSEVSALLGR 14 0 P06576;H0YH81;F8W0P7 P06576 ATP5B "ATP synthase subunit beta, mitochondrial;ATP synthase subunit beta" 0 0 188.48 3.60E-16 1927800 181.39 372.3 287.65 193.19 291.31 253.46 233.6 271.27 222.28 331.9 FALSE FALSE TRUE 200.4694324 384.3627643 326.849444 196.9294718 268.9898907 231.8637821 207.3147132 264.3313062 220.7331354 346.2098333 0.579040262 1.110201754 0.944079031 0.568815362 0.776956241 0.669720383 0.598812319 0.763500284 0.637570381 1 8.435502891 -6.260932952 24.99997305 0.833994745 0.676605708 0.233662704 0.159652692 72.99666958 3603487.759 0.029071903 0.04634639 5.48E-07 6.260932952 -0.157389037 FTS(ph)GAFLSPSVSVQECR ddPTM_HeLa_SAHA_4h_R1 1 FTSGAFLSPSVSVQECR 17 0 P52948-6;P52948-2;P52948-5;P52948;A0A3B3ITD8;H7C3P6 P52948-6 NUP98 Nuclear pore complex protein Nup98-Nup96;Nuclear pore complex protein Nup98;Nuclear pore complex protein Nup96 1 0 FT(0.45)S(0.541)GAFLS(0.008)PSVSVQECR 220.34 4.54E-21 11933000 1518.2 1021.3 1097.5 1520.6 1263.1 1510.5 1356.8 1328.7 1214.2 1433.4 TRUE FALSE FALSE 1677.891242 1054.39079 1247.061584 1550.033412 1166.321551 1381.796902 1204.129293 1294.713778 1205.750283 1495.200889 1.122184487 0.705183362 0.834042832 1.036672345 0.780043377 0.924154682 0.805329439 0.865912927 0.806413568 1 10.54612362 -7.277084698 24.99782573 1.057698232 0.855163825 0.086699741 0.118118152 462.1245564 738373.2271 0.015414936 0.017658973 5.28E-08 7.277084698 -0.202534407 FTSGAFLS(ph)PSVSVQECR ddPTM_HeLa_SAHA_4h_R1 1 FTSGAFLSPSVSVQECR 17 0 P52948-6;P52948-2;P52948-5;P52948;A0A3B3ITD8;H7C3P6 P52948-6 NUP98 Nuclear pore complex protein Nup98-Nup96;Nuclear pore complex protein Nup98;Nuclear pore complex protein Nup96 1 0 FTS(0.007)GAFLS(0.991)PS(0.002)VSVQECR 244.18 1.22E-36 11990000 1731.6 1467.3 1448.8 1995.3 1785.9 2591.5 1925.2 1619.2 1950.8 1960.2 TRUE FALSE FALSE 1913.737633 1514.841483 1646.234919 2033.921917 1649.064728 2370.689621 1708.571429 1577.783209 1937.224224 2044.713815 0.935944003 0.74085746 0.805117522 0.99472205 0.806501485 1.159423682 0.835604189 0.771640118 0.947430496 1 10.99768322 -7.722316617 2.651614368 0.977019656 0.881042018 0.099390915 0.117580004 0.400566309 5.887774854 0.02243154 0.022564266 1.90E-08 7.722316617 -0.095977638 FTTGDAMSK ddPTM_HeLa_SAHA_4h_R1 1 FTTGDAMSK 9 0 Q14019 Q14019 COTL1 Coactosin-like protein 0 0 118.18 0.023633 3035000 1596.8 1341.2 1194 1702.9 1554.4 1479.1 1651.1 1285.8 1497.7 1348.3 FALSE FALSE TRUE 1764.75875 1384.65576 1356.712102 1735.862092 1435.302208 1353.072359 1465.313883 1252.911098 1487.277384 1406.431811 1.254777328 0.98451681 0.964648333 1.234231249 1.020527406 0.962060406 1.041866282 0.890843827 1.057482753 1 10.45782389 -4.63985326 0.686593165 1.108108951 0.860380076 0.176462837 0.100731248 2.470871791 1.086732977 0.021376884 0.428430939 2.29E-05 4.63985326 -0.247728875 FTVETR ddPTM_HeLa_SAHA_4h_R1 1 FTVETR 6 0 P21333-2;P21333;Q60FE5;A0A087WWY3;Q14315-2;Q14315 P21333-2;Q14315-2 FLNA;FLNC Filamin-A;Filamin-C 0 0 134.12 0.0021421 8632800 2884.7 2264.2 2175 2393.1 2404.4 3075.5 2780.5 2371.5 3481 2751.4 FALSE FALSE TRUE 3188.125981 2337.561566 2471.397673 2439.421911 2220.175391 2813.450098 2467.630822 2310.840464 3456.775438 2870.026319 1.110835103 0.814473913 0.861106275 0.849964997 0.773573182 0.980287212 0.859793796 0.80516351 1.204440327 1 11.48684825 -7.25782397 24.99684238 1.0523388 0.852223616 0.698735557 0.074607796 130.3281965 901086.6955 0.010663229 0.012792528 5.52E-08 7.25782397 -0.200115183 FTVPMLK ddPTM_HeLa_SAHA_4h_R1 2 FTVPMLK 7 0 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 0 ; ; 126.24 0.0010879 1411820 2741.1 2726.8 2423.1 2591.1 2736.4 2966.6 3197.2 2890.8 2827 2827.6 FALSE FALSE TRUE 3029.421475 2815.150109 2753.307449 2641.254487 2526.737623 2713.82899 2837.442641 2816.857522 2807.326677 2949.511674 1.027092553 0.954446166 0.933479082 0.895488738 0.856663035 0.920094338 0.962004208 0.955025046 0.951793716 1 11.5262604 -7.017692271 2.645079978 1.012765005 0.918079219 0.436219061 0.034647897 0.127004504 1.780863754 0.005496454 0.007101127 9.60E-08 7.017692271 -0.094685786 FTVQMPT(ph)SQSPAVK ddPTM_HeLa_SAHA_4h_R1 1 FTVQMPTSQSPAVK 14 0 Q16594 Q16594 TAF9 Transcription initiation factor TFIID subunit 9 1 0 FTVQMPT(0.558)S(0.245)QS(0.198)PAVK 102.28 0.0041103 0 523.91 308.52 509.27 534.51 640.21 411.4 457.27 576.23 445.79 537.12 TRUE FALSE FALSE 579.0172576 318.5162504 578.6706634 544.856214 591.1572481 376.3464055 405.8167761 561.490871 442.6877111 560.2778718 1.033446593 0.568496931 1.032827982 0.972474983 1.055114396 0.671713849 0.72431341 1.002164996 0.790121712 1 9.129998704 FTVQMPTSQS(ph)PAVK ddPTM_HeLa_SAHA_4h_R1 1 FTVQMPTSQSPAVK 14 0 Q16594 Q16594 TAF9 Transcription initiation factor TFIID subunit 9 1 0 FTVQMPT(0.026)S(0.147)QS(0.826)PAVK 133.47 2.49E-05 0 379.46 299.96 303.93 424.82 470.47 312.42 240.45 363.9 468.56 295.94 TRUE FALSE FALSE 419.3733438 309.6789008 345.3479976 433.0430054 434.4226902 285.8000584 213.3939332 354.5919649 465.2992528 308.6994217 1.358516778 1.003172922 1.118719289 1.40279824 1.407267587 0.92581987 0.69126768 1.14866417 1.507289033 1 8.27005897 -5.113193253 8.34900705 1.187782733 0.892686854 0.330800475 0.20147123 0.272962642 18.23605268 0.027683573 0.070937778 7.71E-06 5.113193253 -0.295095879 FVADGIFK ddPTM_HeLa_SAHA_4h_R1 1 FVADGIFK 8 0 E9PPU1;P23396;F2Z2S8;H0YCJ7;E9PL09;P23396-2;E9PQ96;E9PJH4;E9PK82;E9PQX2 E9PPU1 RPS3 40S ribosomal protein S3 0 0 98.997 0.017086 607870 1257 1003.7 1410.9 1374 1361.3 965.12 1665 774.88 634.56 1004.5 FALSE FALSE TRUE 1389.217027 1036.220539 1603.170104 1400.595757 1256.997488 882.8863464 1477.649818 755.0596916 630.1440453 1047.808911 1.325830514 0.988940376 1.530021445 1.336690061 1.199643823 0.842602441 1.410228337 0.720608198 0.601392142 1 10.03315992 -4.24120037 23.99504658 1.178120443 0.720607442 0.160643623 0.271631759 2762.609729 3275219.187 0.028599503 1.478564385 5.74E-05 4.24120037 -0.457513001 FVAFSGEGQS(ph)LR ddPTM_HeLa_SAHA_4h_R1 2 FVAFSGEGQSLR 12 0 Q92890-1;Q92890 Q92890-1 UFD1L Ubiquitin fusion degradation protein 1 homolog 1 0 FVAFS(0.005)GEGQS(0.995)LR;FVAFS(0.006)GEGQS(0.994)LR ; 89.189 0.0067829 9828600 916.5 1251.77 1158.18 1116.52 1169.15 880.94 2053.74 1275.19 1045.44 1225.2 TRUE FALSE FALSE 1012.901675 1292.328169 1316.010739 1138.131859 1079.56998 805.878956 1822.64777 1242.572486 1038.164698 1278.024368 0.792552709 1.011192119 1.029722728 0.89054003 0.844717837 0.63056619 1.426144771 0.972260402 0.812319956 1 10.31969963 -4.7568013 24.99996685 0.897541756 1.199202489 0.408385781 0.1537181 86.02456529 463668.1005 0.020708232 0.072634796 1.75E-05 4.7568013 0.301660733 FVDGEWYR ddPTM_HeLa_SAHA_4h_R1 2 FVDGEWYR 8 0 Q7KZF4 Q7KZF4 SND1 Staphylococcal nuclease domain-containing protein 1 0 0 ; ; 139.68 0.0055775 37938000 5207.7 4549.2 5430.4 5338.3 6289 5516.7 5506.3 3973 4289 4816.1 FALSE FALSE TRUE 5755.46978 4696.597065 6170.426632 5441.630516 5807.138179 5046.646124 4886.716632 3871.376413 4259.1525 5023.74564 1.145653103 0.93487955 1.228252199 1.083181933 1.155937938 1.004558448 0.972723737 0.770615531 0.847804169 1 12.2945477 -4.245715287 1.477905263 1.077501931 0.643238159 0.36875673 0.107559431 0.69282411 1.315344039 0.012134975 0.444747061 5.68E-05 4.245715287 -0.434263772 FVEGLPINDFSR ddPTM_HeLa_SAHA_4h_R1 2 FVEGLPINDFSR 12 0 B8ZZ51;B9A041;A0A5K1VW95;P40925-2;P40925;P40925-3 B8ZZ51 MDH1 "Malate dehydrogenase, cytoplasmic" 0 0 ; ; 152.64 2.01E-05 1320400 474.77 380.24 541.87 354.32 560.75 378.1 377.3 166.73 314.97 252.72 FALSE FALSE TRUE 524.7084869 392.5600255 615.7132217 361.178376 517.7854561 345.8837529 334.845211 162.465288 312.7780981 263.615996 1.990427345 1.489135832 2.335644388 1.370092792 1.964165544 1.312074222 1.270200656 0.616295257 1.186491347 1 8.042294104 -4.233328162 1.543374958 1.564658001 0.21979902 0.37305266 0.385220553 1.194796042 2.471329348 0.065927689 2.475816407 5.84E-05 4.233328162 -1.34485898 FVESVDEYQFVER ddPTM_HeLa_SAHA_4h_R1 1 FVESVDEYQFVER 13 0 E9PI78;E9PNF1;Q13405 E9PI78 MRPL49 "39S ribosomal protein L49, mitochondrial" 0 0 159.44 0.0003793 3668600 400.36 505.98 314.95 408.21 535.81 544.21 635.31 574.86 486.2 599.57 FALSE FALSE TRUE 442.4717017 522.374084 357.8697458 416.1114948 494.7563536 497.8402464 563.8232468 560.1559136 482.8164946 625.4203969 0.707478848 0.835236725 0.572206707 0.665330867 0.791078059 0.796008971 0.901510807 0.895647018 0.771987126 1 9.288682461 -9.345016025 1.011121766 1.003213771 0.764539468 0 0.118428756 0.43346201 0.77604881 0.075730021 0.018777935 4.52E-10 9.345016025 -0.238674303 FVFSLVDAMNGK ddPTM_HeLa_SAHA_4h_R1 2 FVFSLVDAMNGK 12 0 P40926;P40926-2;G3XAL0 P40926 MDH2 "Malate dehydrogenase, mitochondrial;Malate dehydrogenase" 0 0 ; ; 167.12 3.35E-10 3134300 551.67 793.75 678.73 395.84 841.75 549.72 1073.49 457.359 831.3 869 FALSE FALSE TRUE 609.6971818 819.4680208 771.2237897 403.5020556 777.2552969 502.8807634 952.6980799 445.660419 825.5149156 906.4668428 0.672608366 0.904024264 0.850801986 0.445137137 0.85745585 0.554770169 1.051001576 0.491645583 0.910695104 1 9.824110439 -9.46614211 0.766289345 1.035743223 0.730434137 0.188060863 0.185209636 1.026503008 0.86328765 0.209237146 0.032890125 3.42E-10 9.46614211 -0.305309087 FVGQDVEGER ddPTM_HeLa_SAHA_4h_R1 1 FVGQDVEGER 10 0 B4E1E0;P17812-2;P17812;A0A3B3IRI2 B4E1E0 CTPS1 CTP synthase;CTP synthase 1 0 0 128.03 0.011547 3903800 809.14 864.56 802.75 859.85 1073.5 926.44 1134.8 597.44 957.74 735.11 FALSE FALSE TRUE 894.2490577 892.5723113 912.1445895 876.4936401 991.2486619 847.5021 1007.109317 582.1583499 951.0750094 766.8041896 1.166202623 1.164015955 1.189540435 1.143047537 1.292701155 1.105239266 1.313385257 0.759200794 1.240310137 1 9.582714409 -9.17354557 0.853400081 0.997009208 1.153883709 0 0.160976442 0.942676622 1.202680205 0.094929727 0.025150207 6.71E-10 9.17354557 0.156874502 FVHGPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 FVHGPSPR 8 0 Q5T200-2;Q5T200;Q5T9K0 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 FVHGPS(1)PR;FVHGPS(1)PR ; 89.827 0.014173 19567800 8242.3 7230.6 7084.7 7610.3 8156 5047.4 7827.9 7955.5 8304.3 7369.9 TRUE FALSE FALSE 9109.262931 7464.876184 8050.16602 7757.608361 7531.089042 4617.333124 6947.08409 7752.009829 8246.5097 7687.652456 1.184921272 0.971021547 1.047155301 1.009099775 0.979634431 0.600616788 0.903667814 1.008371525 1.072695436 1 12.9083274 -5.595130607 3.415144346 1.071657546 0.83791367 0.393537057 0.11202571 0.172001242 4.029241532 0.017816485 0.038297793 2.54E-06 5.595130607 -0.233743877 FVIATSTK ddPTM_HeLa_SAHA_4h_R1 1 FVIATSTK 8 0 Q02878 Q02878 RPL6 60S ribosomal protein L6 0 0 153.73 6.69E-07 3917900 4940 5396.4 6374.1 5674 6059.2 3631.5 6100.4 3029.9 2143.6 3703.9 FALSE FALSE TRUE 5459.611866 5571.246901 7242.729153 5783.828475 5594.945405 3322.07577 5413.966937 2952.399545 2128.682513 3863.593255 1.413091779 1.441985875 1.874609638 1.497007602 1.448119674 0.859840969 1.401277665 0.764158997 0.550959268 1 11.91572751 -5.267945838 24.92104341 1.308354296 1.047711057 0.129762157 0.362495906 808.8414112 3098028.918 0.046027227 0.105191035 5.40E-06 5.267945838 -0.26064324 FVINYDYPNSSEDYIHR ddPTM_HeLa_SAHA_4h_R1 2 FVINYDYPNSSEDYIHR 17 0 P17844-2;P17844;J3KTA4 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 0 0 ; ; 124.5 0.00044217 10957000 3217.8 3511.9 2997 3871.3 4173.7 4474.4 4339.2 2965 4159.2 3806.7 FALSE FALSE TRUE 3556.262968 3625.687864 3405.415552 3946.234609 3853.912008 4093.155948 3850.941796 2889.159593 4130.255789 3970.825467 0.895597905 0.913081649 0.857608973 0.993807117 0.970556888 1.030807318 0.969808879 0.727596722 1.040150423 1 11.95522323 -9.444074356 1.187149365 0.999830343 0.924130663 0.181580417 0.081516861 0.882386707 2.232110256 0.054190311 0.013633767 3.60E-10 9.444074356 -0.07569968 FVINYDYPNSSEDYVHR ddPTM_HeLa_SAHA_4h_R1 2 FVINYDYPNSSEDYVHR 17 0 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 0 0 ; ; 160.81 5.64E-06 10673800 3724.3 3222.1 2648.9 3727.5 4632.5 5643 4314.4 3859.5 5089 4324.5 FALSE FALSE TRUE 4116.038962 3326.498154 3009.878297 3799.651153 4277.558851 5162.184653 3828.932357 3760.779578 5053.585235 4510.950359 0.912454945 0.737427347 0.667238178 0.842317217 0.948261123 1.144367427 0.848808356 0.833700059 1.120292806 1 12.13921569 -8.147647371 1.439648555 0.97922299 0.867622808 0.221421965 0.128286831 0.580312868 2.450922443 0.032474347 0.026098426 7.12E-09 8.147647371 -0.111600182 FVKDFQDYMEPEEGCQGS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 1 FVKDFQDYMEPEEGCQGSPQR 21 1 O43237;H3BUM4;B4E2E0 O43237 DYNC1LI2 Cytoplasmic dynein 1 light intermediate chain 2 1 0 FVKDFQDYMEPEEGCQGS(1)PQR 121.38 1.88E-05 4251300 1436 910.26 1179.6 1198 1279.3 1233 1187.7 1233.9 973 1266.7 TRUE FALSE FALSE 1587.045069 939.7530212 1340.349745 1221.189022 1181.28031 1127.941463 1054.05687 1202.338625 966.2288138 1321.313636 1.201111549 0.71122631 1.014406957 0.924223431 0.894019617 0.853651573 0.797734044 0.909957024 0.731263787 1 10.36775724 -7.271179349 24.98449127 1.094969342 0.876911247 0 0.144691701 405.4091299 1039933.481 0.017332551 0.019948489 5.36E-08 7.271179349 -0.218058095 FVMQEEFSR ddPTM_HeLa_SAHA_4h_R1 3 FVMQEEFSR 9 0 P30101 P30101 PDIA3 Protein disulfide-isomerase A3 0 0 ;; ;; 155.07 0.000911 63819000 3464.6 3537.66 3766.4 3923.8 4222.2 3953.84 4459.7 2887.1 3023.38 3160.52 FALSE FALSE TRUE 3829.022524 3652.282505 4279.665377 3999.750823 3898.695948 3616.950588 3957.882819 2813.252162 3002.340052 3296.785484 1.161441211 1.107831408 1.298132802 1.213227504 1.182574956 1.097114327 1.200527859 0.853331882 0.910687112 1 11.6868443 -3.134313382 13.8827967 1.107244216 1.125855916 0 0.13405045 0 0 0.016401454 0 0.000733984 3.134313382 0.0186117 FVNVVPTFGK ddPTM_HeLa_SAHA_4h_R1 2 FVNVVPTFGK 10 0 E9PR30;P62861 E9PR30 FAU 40S ribosomal protein S30 0 0 ; ; 176.83 1.15E-11 3180100 2284.42 2515.2 2615.3 2717 3130.9 2532.9 2788.6 2372.34 2462.22 2343.58 FALSE FALSE TRUE 2524.705777 2596.69413 2971.699464 2769.591464 2891.011118 2317.08267 2474.819389 2311.658978 2445.085211 2444.623203 1.032758657 1.062206285 1.21560634 1.13293184 1.182599885 0.947828143 1.012352082 0.945609522 1.000188989 1 11.2553964 -2.946474495 9.01901795 1.041261103 0.715925931 0 0.090217238 0 43622357.03 0.01274075 0 0.001131164 2.946474495 -0.325335172 FVNVVPTFGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 FVNVVPTFGKK 11 1 E9PR30;P62861 E9PR30 FAU 40S ribosomal protein S30 0 1 ; FVNVVPTFGK(1)K;FVNVVPTFGK(1)K 202.96 1.55E-24 122437000 12622.2 13580.5 16212.4 16102.2 16762.8 13797.3 18242 12952.9 7951.2 11681.6 FALSE TRUE FALSE 13949.86091 14020.51711 18421.74144 16413.88137 15478.43789 12621.69242 16189.36215 12621.58357 7895.866952 12185.25094 1.144815234 1.150613736 1.511806488 1.347028587 1.270260084 1.035817192 1.328603098 1.03580826 0.647985584 1 13.57284834 -7.897848213 1.03643773 1.033148192 1.247796662 0.345674211 0.183860644 0.407514432 0.925896063 0.036480016 0.031023705 1.27E-08 7.897848213 0.21464847 FVPYLIAGIQHSCQDIGAK ddPTM_HeLa_SAHA_4h_R1 1 FVPYLIAGIQHSCQDIGAK 19 0 P12268;H0Y4R1 P12268 IMPDH2 Inosine-5-monophosphate dehydrogenase 2 0 0 156.72 1.87E-11 254280 0 136.47 68.601 0 220.67 0 178.54 0 0 152.79 FALSE FALSE TRUE 0 140.8917175 77.94958702 0 203.7623123 0 158.4502093 0 0 159.3775246 0 0.884012459 0.4890877 0 1.278488374 0 0.994181643 0 0 1 7.316304385 -9.65036147 1.495969338 0.999124537 0.411654504 0 0.542439135 0.517072383 2.085974628 0.298619337 0.067884787 2.24E-10 9.65036147 -0.587470033 FVS(ph)EGDGGR ddPTM_HeLa_SAHA_4h_R1 6 FVSEGDGGR 9 0 Q53EL6;Q53EL6-2 Q53EL6 PDCD4 Programmed cell death protein 4 1 0 FVS(1)EGDGGR;FVS(1)EGDGGR;FVS(1)EGDGGR;FVS(1)EGDGGR;FVS(1)EGDGGR;FVS(1)EGDGGR ;;;;; 115.23 0.0046775 456072900 9659.6 10404.8 9704.9 11987.6 11102.8 15541.9 12200.6 11752.4 10546.7 11591.2 TRUE FALSE FALSE 10675.64105 10741.92235 11027.43323 12219.63733 10252.10586 14217.64268 10827.75638 11451.79063 10473.30466 12090.95336 0.882944523 0.888426415 0.912040011 1.010642997 0.847915426 1.175890954 0.895525444 0.94713711 0.866209996 1 13.56164038 FVS(ph)FTSR ddPTM_HeLa_SAHA_4h_R1 2 FVSFTSR 7 0 Q8N5V2-3;Q8N5V2 Q8N5V2-3 NGEF Ephexin-1 1 0 FVS(0.986)FT(0.014)SR;FVS(0.986)FT(0.014)SR ; 88.177 0.021551 12894100 2695.2 2490.8 1690.12 3000.4 2319.7 2535.9 2380.2 2262.8 2016.58 2014.32 TRUE FALSE FALSE 2978.693502 2571.503554 1920.440752 3058.477081 2141.965087 2319.827053 2112.373632 2204.920852 2002.546456 2101.167193 1.417637545 1.223845281 0.913987596 1.455608621 1.019416777 1.104065903 1.005333435 1.049379059 0.953063831 1 11.03697525 FVSEDDRNS(ph)FTLK ddPTM_HeLa_SAHA_4h_R1 1 FVSEDDRNSFTLK 13 1 A0A087WYC1;P34932 A0A087WYC1 HSPA4 Heat shock 70 kDa protein 4 1 0 FVS(0.002)EDDRNS(0.994)FT(0.004)LK 137.27 0.0021695 10930000 1483.2 1544.4 1301.4 1280 1445.2 1964.6 1475.5 1439.2 1552.9 1307.8 TRUE FALSE FALSE 1639.209781 1594.439573 1478.748015 1304.776251 1334.469088 1797.205027 1309.472857 1402.387348 1542.093242 1364.185658 1.201603148 1.168784882 1.083978567 0.956450644 0.978216623 1.317419676 0.959893434 1.028003292 1.130413029 1 10.41382429 -6.514342346 24.49767911 1.104475589 1.0507955 0.087924059 0.109177431 952.636893 2733871.525 0.019166573 0.027892875 3.06E-07 6.514342346 -0.053680089 VVQPQEEIATK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 VVQPQEEIATKK 12 1 E9PIM3;F8WAA7;Q96HW7-2;Q96HW7 E9PIM3 INTS4 Integrator complex subunit 4 0 1 ; VVQPQEEIATK(1)K;VVQPQEEIATK(1)K 244 2.26E-56 16741800 2289.9 2909.6 3348.8 4376.3 5856 5772.1 5900.7 6423.1 1871.04 1949.69 FALSE TRUE FALSE 2530.762188 3003.872949 3805.157024 4461.009615 5407.314545 5280.284607 5236.737706 6258.806403 1858.01928 2033.750677 1.244381731 1.477011407 1.871004674 2.193488939 2.658789302 2.596328383 2.574916269 3.077469855 0.913592458 1 10.98992711 -6.366963855 0.710711013 1.060205839 2.860909228 0.967862886 0.131055651 0.073312049 0.07318649 0.026049045 0.059664257 4.30E-07 6.366963855 1.800703389 up FVYTCNECK(ac)HHVETR ddPTM_HeLa_SAHA_4h_R1 2 FVYTCNECKHHVETR 15 1 Q92793;Q92793-2;A0A669KB12;Q09472 Q92793;A0A669KB12 CREBBP;EP300 CREB-binding protein;Histone acetyltransferase p300 0 1 ; FVYTCNECK(1)HHVETR;FVYTCNECK(1)HHVETR 115.06 0.00030079 40920000 5004.3 5560.1 6060.3 5989.6 6909.5 2981.4 6851.1 4486.4 8344 6180.4 FALSE TRUE FALSE 5530.675235 5740.250888 6886.166123 6105.537369 6380.095603 2727.367947 6080.196197 4371.644384 8285.933425 6446.86729 0.857885696 0.890393835 1.068141442 0.947054917 0.98964277 0.423053217 0.943124144 0.678103672 1.285265083 1 12.65438257 -5.362057474 22.23342335 0.942948211 0.707166425 0.40099581 0.168982482 10.85840996 2394.689526 0.017680561 0.039534943 4.34E-06 5.362057474 -0.235781786 FWAWDPEEER ddPTM_HeLa_SAHA_4h_R1 2 FWAWDPEEER 10 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 0 0 ; ; 129.38 0.010396 7209800 2292.1 1827.71 2050.67 2390.7 2610.3 3242.2 2742.6 1934.91 2871.3 2303.7 FALSE FALSE TRUE 2533.193595 1886.929003 2330.124628 2436.975456 2410.299378 2965.94632 2433.99543 1885.417804 2851.31839 2403.023781 1.054169174 0.785231098 0.969663574 1.01412873 1.003027684 1.234255917 1.012888615 0.784602224 1.186554379 1 11.23063521 -4.262720763 8.034569867 1.017380444 0.782809302 0.282055205 0.115630431 0.084120902 68.98093621 0.014109811 0.109257712 5.46E-05 4.262720763 -0.234571142 FWEGDFHR ddPTM_HeLa_SAHA_4h_R1 2 FWEGDFHR 8 0 B4DKY1;P49589-2;P49589;P49589-3 B4DKY1 CARS "Cysteine--tRNA ligase, cytoplasmic" 0 0 ; ; 148.99 0.00033672 6370800 3402.4 3120.9 4031.6 3429.4 4099.5 3958.6 3960.1 2342.2 2828.4 3213.4 FALSE FALSE TRUE 3760.280043 3222.019208 4581.005452 3495.780996 3785.397196 3621.30501 3514.499126 2282.289915 2808.716934 3351.9454 1.121820195 0.961238571 1.366670666 1.04291108 1.129313501 1.080359188 1.048495338 0.680885171 0.837936362 1 11.71078293 -4.259301319 4.120107315 1.078889665 0.646790186 0.44268958 0.129085679 0.128111052 4.708079428 0.014212935 0.16387182 5.50E-05 4.259301319 -0.432099479 FWEVISDEHGIDPTGTYHGDSDLQLDR ddPTM_HeLa_SAHA_4h_R1 3 FWEVISDEHGIDPTGTYHGDSDLQLDR 27 0 P07437;Q5JP53 P07437 TUBB Tubulin beta chain 0 0 ;; ;; 223.91 3.22E-34 104570800 3009.58 4071.33 2648.64 4873.7 5909.3 5592.13 4868.99 4607.95 5397.33 4835.61 FALSE FALSE TRUE 3326.141433 4203.243763 3009.582866 4968.037511 5456.530711 5115.649064 4321.118431 4490.085311 5359.769541 5044.096812 0.659412687 0.833299582 0.596654461 0.984921126 1.081765659 1.014185345 0.856668417 0.890166362 1.062582607 1 12.30038025 FWEVISDEHGIDPTGTYHGDSDLQLER ddPTM_HeLa_SAHA_4h_R1 2 FWEVISDEHGIDPTGTYHGDSDLQLER 27 0 P68371;M0R2D3;M0QY85;M0QZL7;M0R278;M0R0X0;M0QY37;M0QX14;P04350;M0QYM7 P68371;P04350 TUBB4B;TUBB4A Tubulin beta-4B chain;Tubulin beta-4A chain 0 0 ; ; 157.49 3.94E-11 47574000 1771.66 2789.41 1628.13 2565.2 3640.6 3190.6 3099.6 2772 2944.7 2861.9 FALSE FALSE TRUE 1958.011327 2879.788714 1850.003077 2614.853155 3361.658015 2918.74293 2750.82485 2701.096254 2924.207593 2985.290515 0.655886359 0.964659453 0.619706212 0.875912459 1.126073994 0.977708171 0.921459683 0.904801808 0.979538701 1 11.54365562 -5.986904824 24.93687044 0.826507161 0.980705361 0.193321675 0.132247868 300.8727548 572941.8546 0.022631365 0.041006145 1.03E-06 5.986904824 0.154198199 FYALSASFEPFSNK ddPTM_HeLa_SAHA_4h_R1 1 FYALSASFEPFSNK 14 0 P27797 P27797 CALR Calreticulin 0 0 225.55 4.55E-43 587010 402.07 623.7 499.6 829.09 899.35 369.48 907.19 117.78 169.13 446.74 FALSE FALSE TRUE 444.3615674 643.9082892 567.6828862 845.1382358 830.4419973 337.9982254 805.1105936 114.7673581 167.9530106 466.0011477 0.953563247 1.381774042 1.218200618 1.813596898 1.782059983 0.725316294 1.727700881 0.246281278 0.360413298 1 8.864189698 -7.267324655 23.33691503 0.978071518 1.305833257 0.133154417 0.501823491 322.0673798 1277093.417 0.072557373 0.084228986 5.40E-08 7.267324655 0.327761739 FYCDYCDT(ph)YLTHDSPSVR ddPTM_HeLa_SAHA_4h_R1 1 FYCDYCDTYLTHDSPSVR 18 0 A0A0A0MRR7;P09234 A0A0A0MRR7 SNRPC U1 small nuclear ribonucleoprotein C 1 0 FYCDYCDT(0.994)YLT(0.001)HDS(0.004)PS(0.001)VR 237.16 1.32E-29 9904700 1142 1492.5 1098.5 1740.5 1637.1 1875 1707.9 1373.2 2036.9 1424.5 TRUE FALSE FALSE 1262.1208 1540.857979 1248.197859 1774.189894 1511.665752 1715.239452 1515.722597 1338.075532 2022.725047 1485.917166 0.849388397 1.036974344 0.840018466 1.194003229 1.017328412 1.154330464 1.020058609 0.900504794 1.361263665 1 10.53713798 -6.274201054 24.99212147 0.930839637 1.058355229 0 0.1648859 740.9176901 1450991.215 0.014877341 0.022816329 5.32E-07 6.274201054 0.127515592 FYCDYCDTY(ph)LTHDSPSVR ddPTM_HeLa_SAHA_4h_R1 1 FYCDYCDTYLTHDSPSVR 18 0 A0A0A0MRR7;P09234 A0A0A0MRR7 SNRPC U1 small nuclear ribonucleoprotein C 1 0 FYCDYCDT(0.007)Y(0.99)LT(0.002)HDSPSVR 111.78 0.0050356 28688000 1936.3 2307.3 2249.6 2314.4 2892.3 2701.8 2967.3 2288.7 2690.3 2594.9 TRUE FALSE FALSE 2139.968918 2382.058034 2556.163773 2359.198559 2670.692599 2471.59144 2633.411594 2230.158368 2671.577983 2706.778838 0.790596146 0.880034231 0.944356346 0.871588962 0.986668198 0.913111705 0.972894999 0.823915991 0.986995297 1 11.4023613 FYCDYCDTYLTHDS(ph)PSVR ddPTM_HeLa_SAHA_4h_R1 1 FYCDYCDTYLTHDSPSVR 18 0 A0A0A0MRR7;P09234 A0A0A0MRR7 SNRPC U1 small nuclear ribonucleoprotein C 1 0 FYCDYCDTY(0.001)LTHDS(0.924)PS(0.074)VR 161.96 4.29E-06 28473000 1807.7 1727 1808 2322.1 2709.2 2676.8 2595.7 1848.6 2239.3 2230.5 TRUE FALSE FALSE 1997.84218 1782.955933 2054.384824 2367.047603 2501.621681 2448.721581 2303.625004 1801.315489 2223.716529 2326.667771 0.858671017 0.766313075 0.882973001 1.017355221 1.075195055 1.052458633 0.990096237 0.774203997 0.955751636 1 11.18404951 -6.259640706 24.99916559 0.912960218 0.99142652 0.156749883 0.096623364 291.9044956 4057062.057 0.016474518 0.026423391 5.50E-07 6.259640706 0.078466302 FYDPS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 1 FYDPSPPR 8 0 Q3V6T2;A0A2R8Y820;Q3V6T2-3;Q3V6T2-2;Q3V6T2-4;A0A2R8Y7B1;H0Y7K3;A0A2R8Y5D7;H7C2C6;H0Y470;A0A2R8Y885;A0A2R8YCU9;A0A2U3TZV9;A0A2R8Y7D4;A0A2R8YDS8;H0Y7U8;Q3V6T2-5;A0A2R8Y4X4;A0A2R8Y4W8;A0A2R8YG73;A0A2R8Y802 Q3V6T2 CCDC88A Girdin 1 0 FYDPS(1)PPR 94.85 0.014578 9769500 6112.3 5849.8 5604.6 5668.9 6608.7 7023.1 6821.9 5845.6 6490.7 6068 TRUE FALSE FALSE 6755.219758 6039.337358 6368.3657 5778.629757 6102.342834 6424.692369 6054.281858 5696.078016 6445.53069 6329.621176 1.067239187 0.954138832 1.006121144 0.912950332 0.9640929 1.015020045 0.956499874 0.899908203 1.018312236 1 12.62790344 -7.246251342 24.65459336 1.031751838 0.960803007 0.431464259 0.036760282 494.7821574 803175.7825 0.006721413 0.008212189 5.67E-08 7.246251342 -0.070948831 FYDS(ph)NTVK ddPTM_HeLa_SAHA_4h_R1 2 FYDSNTVK 8 0 Q13177 Q13177 PAK2 Serine/threonine-protein kinase PAK 2;PAK-2p27;PAK-2p34 1 0 FYDS(0.978)NT(0.022)VK;FYDS(0.944)NT(0.056)VK ; 135.8 0.0013353 20722000 5370.3 5835.4 5426.7 6117.2 6418.7 5744 5993.2 6585.4 4877.41 4887.5 TRUE FALSE FALSE 5935.172794 6024.470789 6166.222415 6235.607252 5926.900593 5254.578885 5318.829363 6416.955004 4843.467707 5098.224044 1.164164765 1.181680275 1.209484393 1.223094003 1.162542199 1.030668492 1.043271013 1.258664772 0.950030376 1 12.31577906 -9.124607663 0.870085418 0.999292218 1.155379702 0.502963652 0.07138707 0.498475449 0.677938399 0.049410904 0.014179929 7.51E-10 9.124607663 0.156087484 FYEAFSK ddPTM_HeLa_SAHA_4h_R1 2 FYEAFSK 7 0 P08238 P08238 HSP90AB1 Heat shock protein HSP 90-beta 0 0 ; ; 126.67 0.00086354 8978300 6307.1 5360.8 5956.4 6650.1 6405.8 6424.9 7440 5708.6 5270.3 5888 FALSE FALSE TRUE 6970.509716 5534.493437 6768.107172 6778.822302 5914.988988 5877.462374 6602.831619 5562.582278 5233.623553 6141.860495 1.134918275 0.901110249 1.101963677 1.103708283 0.963061436 0.956951461 1.075053988 0.905683593 0.852123482 1 12.58446003 -5.747827759 24.96335 1.057332283 0.981018336 0 0.097665219 314.8268273 577380.1026 0.011356046 0.022616725 1.79E-06 5.747827759 -0.076313946 FYEEVHDLER ddPTM_HeLa_SAHA_4h_R1 4 FYEEVHDLER 10 0 E9PNJ7;C9J6D1;Q99733;Q99733-2;E9PS34;A8MXH2;E9PKT8;C9JZI7;E9PNW0;E9PJJ2;P55209;F8W118;P55209-2;F8W0J6;H0YIV4;B7Z9C2;H0YHC3;F8VV59;F5H4R6;F8VY35;F8W020;H0YH88;F8VRJ2;F8VXI6;F8VUX1;F8W543;P55209-3;F8VVB5 E9PNJ7;P55209 NAP1L4;NAP1L1 Nucleosome assembly protein 1-like 4;Nucleosome assembly protein 1-like 1 0 0 ;;; ;;; 188.99 1.06E-06 421295000 30039.9 29381.1 30083.6 32304 34647.3 33601.3 37833.5 24641.3 30434.8 29366 FALSE FALSE TRUE 33199.63451 30333.06692 34183.23634 32929.29063 31992.63136 30738.2802 33576.37501 24011.01123 30223.00175 30632.11197 1.083818006 0.990237531 1.11592816 1.0749925 1.044414808 1.003465913 1.09611688 0.783850988 0.9866444 1 14.90275722 -4.254583171 24.9888318 1.045220507 0.783850867 0.75076226 0.044954904 296.719952 1081427.812 0.00607914 0.080774642 5.56E-05 4.254583171 -0.26136964 FYEEVHDLERK ddPTM_HeLa_SAHA_4h_R1 2 FYEEVHDLERK 11 1 E9PNJ7;C9J6D1;Q99733;Q99733-2;E9PS34;A8MXH2;E9PKT8;C9JZI7;E9PNW0;E9PJJ2;P55209;F8W118;P55209-2;F8W0J6;H0YIV4;B7Z9C2;H0YHC3;F8VV59;F5H4R6;F8VY35;F8W020;H0YH88;F8VRJ2;F8VXI6;F8VUX1;F8W543;P55209-3;F8VVB5 E9PNJ7;P55209 NAP1L4;NAP1L1 Nucleosome assembly protein 1-like 4;Nucleosome assembly protein 1-like 1 0 0 ; ; 102.06 0.0031034 16095500 12914.9 6314.4 13251.8 10830.4 10416.1 8400.7 11567 9167.5 4053.5 8951.3 FALSE FALSE TRUE 14273.34844 6518.990703 15057.68629 11040.03805 9618.020668 7684.913099 10265.45072 8933.008624 4025.291363 9337.23435 1.52864841 0.698171478 1.612649499 1.182367031 1.030071679 0.823039544 1.099410204 0.956708195 0.431101032 1 13.18877958 -5.745237147 3.971109588 1.236649772 0.969117212 0 0.355254431 0.299788743 10.425523 0.040256485 0.080267492 1.80E-06 5.745237147 -0.267532561 FYEQFSK ddPTM_HeLa_SAHA_4h_R1 1 FYEQFSK 7 0 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 0 0 130.27 0.0078301 178980000 3799.6 3183.5 3115.6 3122.1 3215.2 3289.5 3311.7 3488.2 3665.3 3653.9 FALSE FALSE TRUE 4199.259361 3286.647489 3540.177743 3182.53276 2968.852071 3009.216094 2939.0588 3398.976895 3639.792879 3811.437511 1.101752121 0.862311786 0.928830063 0.834995392 0.778932375 0.789522611 0.771115568 0.891783451 0.954965907 1 11.89611951 -6.872647718 1.495662828 1.047046056 0.811602963 0.620179297 0.062549537 0.13733608 0.615702735 0.011061993 0.015466559 1.34E-07 6.872647718 -0.235443092 FYEQMNGPVAGASR ddPTM_HeLa_SAHA_4h_R1 2 FYEQMNGPVAGASR 14 0 E9PQ49;E9PK01;P29692;E9PL71;P29692-3;E9PI39;E9PQZ1;P29692-2;A0A087X1X7;E9PRY8;P29692-4;E9PL12;E9PPR1;E9PK06;E9PMW7;E9PN91;H0YCK7;E9PKK3;E9PIZ1;E9PK72 E9PQ49 EEF1D Elongation factor 1-delta 0 0 ; ; 140.24 0.000977 9217100 938.69 949.24 965.16 1066.85 997.33 1137.3 902.12 853.89 746.14 744.83 FALSE FALSE TRUE 1037.425721 979.9959988 1096.686978 1087.500424 920.9147909 1040.395642 800.6110834 832.0487302 740.947551 776.9432664 1.335265734 1.261348211 1.411540618 1.399716648 1.185305068 1.339088305 1.030462735 1.070925982 0.953670085 1 9.601665444 -3.056497922 13.9097306 1.199339148 1.203059168 0 0.165023367 0 0 0.023523767 0 0.000878015 3.056497922 0.00372002 FYETKEESYSPS(ph)KDR ddPTM_HeLa_SAHA_4h_R1 1 FYETKEESYSPSKDR 15 2 Q96T23-3;Q96T23-2;Q96T23;H0YER1;H0YCN2 Q96T23-3 RSF1 Remodeling and spacing factor 1 1 0 FYETKEESYS(0.045)PS(0.955)KDR 89.468 0.0059922 44776000 1384.7 928.05 1531.6 1376.1 1499.3 1181.8 1639.7 1366.5 761.56 1277.9 TRUE FALSE FALSE 1530.349099 958.1194289 1740.318472 1402.736405 1384.423958 1081.103991 1455.196641 1331.546909 756.260242 1332.996523 1.148051831 0.718771139 1.305568651 1.052318128 1.038580322 0.811032867 1.091673246 0.998912515 0.567338496 1 10.3804573 -5.502267203 24.16149995 1.060202912 0.970511867 0 0.21726011 1114.239276 1306144.336 0.020759693 0.045894773 3.15E-06 5.502267203 -0.089691045 FYGDEEK(ac)DK ddPTM_HeLa_SAHA_4h_R1 2 FYGDEEKDK 9 1 P27797;K7EJB9 P27797 CALR Calreticulin 0 1 ; FYGDEEK(1)DK;FYGDEEK(1)DK 134.77 0.00078807 3983400 1344.27 5020.4 1874.28 2303 3997.3 4342.5 4820.8 2946.5 4232.8 1457.38 FALSE TRUE FALSE 1485.666486 5183.064254 2129.697118 2347.577895 3691.027738 3972.49457 4278.350896 2871.132796 4203.3436 1520.214784 0.977274068 3.409428923 1.400918568 1.544240932 2.427964638 2.613114023 2.814306861 1.888636281 2.764966927 1 10.57005945 -7.310268656 24.16177212 0.989267802 2.272937587 0.004912909 0.79479034 142.3271158 70426.15371 0.093559801 0.106989152 4.89E-08 7.310268656 1.283669785 FYPEDVSEELIQDITQR ddPTM_HeLa_SAHA_4h_R1 1 FYPEDVSEELIQDITQR 17 0 P26038;V9GZ54 P26038 MSN Moesin 0 0 106.32 0.01179 52160000 74.474 223.89 135.94 168.07 61.943 254.86 191.02 139.5 263.87 191.14 FALSE FALSE TRUE 82.30751702 231.1441829 154.4651953 171.3232379 57.19694072 233.1444942 169.5259269 135.931792 262.0337072 199.3809808 0.412815288 1.159309087 0.774723821 0.85927573 0.286872602 1.169341696 0.850261275 0.681769101 1.314236223 1 7.639383986 -9.810247746 1.83711249 1.000862466 0.716656989 0.15379339 0.287672221 0.622884984 3.805956786 0.207631602 0.04304296 1.55E-10 9.810247746 -0.284205478 GAAAHPDSEEQQQR ddPTM_HeLa_SAHA_4h_R1 3 GAAAHPDSEEQQQR 14 0 Q9Y490 Q9Y490 TLN1 Talin-1 0 0 ;; ;; 124.21 0.00038419 1038040 789.09 643.96 544.04 823.57 755.52 1061.53 880.4 967.48 957.36 748.04 FALSE FALSE TRUE 872.0901067 664.8247265 618.178938 839.5113883 697.6322208 971.081672 781.3350749 942.7332625 950.6976538 780.2916652 1.117646318 0.852020797 0.792240858 1.075894343 0.894065965 1.244511143 1.001337205 1.208180613 1.218387555 1 9.60786968 -5.258372153 24.99460102 1.013085686 1.1363424 0.213552698 0.134597772 380.4190765 3099988.163 0.017952626 0.043702442 5.52E-06 5.258372153 0.123256714 GSK(ac)K(ac)AVTK(ac)AQK ddPTM_HeLa_SAHA_4h_R1 2 GSKKAVTKAQK 11 3 O60814;P57053;P58876;P62807;Q16778;Q8N257;Q93079;U3KQK0;Q99877;Q99880 O60814;P58876;P62807;Q16778;Q8N257;Q93079;U3KQK0;Q99880 HIST1H2BK;H2BFS;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-L 0 3 ; GSK(1)K(1)AVTK(1)AQK;GSK(1)K(1)AVTK(1)AQK 156.36 3.93E-07 134827000 3097.4 4502.8 7367.2 18613 24208 23639 24253 17566.3 3913.5 2999.2 FALSE TRUE FALSE 3423.198743 4648.693674 8371.163649 18973.28153 22353.18827 21624.82421 21523.98861 17116.97948 3886.265635 3128.51019 1.094194532 1.485912908 2.675766784 6.06463792 7.144994555 6.912179568 6.879948379 5.471287752 1.242209678 1 11.61126009 -6.364482684 2.171820797 1.070244389 6.684909153 0.970136364 0.444687212 0.033489341 0.308978812 0.070091235 0.116039587 4.32E-07 6.364482684 5.614664764 up GAAEEAELEDS(ph)DDEEKPVKQDDFPK ddPTM_HeLa_SAHA_4h_R1 3 GAAEEAELEDSDDEEKPVKQDDFPK 25 2 Q9UBB9;F6XM96 Q9UBB9 TFIP11 Tuftelin-interacting protein 11 1 0 GAAEEAELEDS(1)DDEEKPVKQDDFPK;GAAEEAELEDS(1)DDEEKPVKQDDFPK;GAAEEAELEDS(1)DDEEKPVKQDDFPK ;; 66.137 0.00063404 31763200 3741.76 3466.02 2576.26 3376.69 4015.3 4950.4 3922.39 4010.55 4132.2 3472.91 TRUE FALSE FALSE 4135.335485 3578.321322 2927.339296 3442.050718 3707.648581 4528.59807 3481.032354 3907.965938 4103.443684 3622.644146 1.141524069 0.987765063 0.80806703 0.950148725 1.023464749 1.250080849 0.960909273 1.078760646 1.132720609 1 11.82282738 ATVTPSPVK(ac)GK ddPTM_HeLa_SAHA_4h_R1 2 ATVTPSPVKGK 11 1 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 0 1 ; ATVTPSPVK(1)GK;ATVTPSPVK(1)GK 178.84 9.12E-12 12485800 2196.18 3017 5031.5 8350.8 11474.5 11122.4 14573.5 9890.6 1285.09 1566.47 FALSE TRUE FALSE 2427.184289 3114.75278 5717.166617 8512.441809 10595.32629 10174.70895 12933.65142 9637.612773 1276.146954 1634.008188 1.485417458 1.9062039 3.498860446 5.209546606 6.484255323 6.226840859 7.915291686 5.898142277 0.780991774 1 10.6741995 -6.357725648 1.110505118 1.181265433 6.871643613 0.957469168 0.512802595 0.054410357 0.13304794 0.080006329 0.153862225 4.39E-07 6.357725648 5.69037818 up GAANASGS(ph)SPDAPAKDAR ddPTM_HeLa_SAHA_4h_R1 1 GAANASGSSPDAPAKDAR 18 1 E7EPJ7;O75962-5;O75962-4;O75962 E7EPJ7 TRIO Triple functional domain protein 1 0 GAANAS(0.001)GS(0.75)S(0.249)PDAPAKDAR 90.758 0.0017707 13081000 1194.4 1155.5 1184.5 1163.8 1207.5 1346.2 1343.3 1301.1 1145.3 1208.8 TRUE FALSE FALSE 1320.032472 1192.938958 1345.917491 1186.327032 1114.981611 1231.496186 1192.148349 1267.819746 1137.329764 1260.917284 1.046882685 0.946088196 1.067411407 0.940844453 0.884262295 0.976666909 0.945461185 1.005474159 0.901986021 1 10.30025792 -6.237822862 24.57021852 1.01887444 0.948028735 0.027837005 0.05540918 480.4272914 499828.1406 0.006144214 0.010185563 5.78E-07 6.237822862 -0.070845705 GAANASGSS(ph)PDAPAK ddPTM_HeLa_SAHA_4h_R1 4 GAANASGSSPDAPAK 15 0 E7EPJ7;O75962-5;O75962-4;O75962 E7EPJ7 TRIO Triple functional domain protein 1 0 GAANASGS(0.206)S(0.794)PDAPAK;GAANASGS(0.073)S(0.927)PDAPAK;GAANASGS(0.227)S(0.772)PDAPAK;GAANASGS(0.226)S(0.774)PDAPAK ;;; 247.5 8.05E-34 37034500 8118.3 11430.3 6469.75 8726.8 10532.9 11591.1 8607.7 7550.2 14332.3 9200.9 TRUE FALSE FALSE 8972.220042 11800.64922 7351.413837 8895.719833 9725.871478 10603.47307 7639.138942 7357.076817 14232.56036 9597.595827 0.934840371 1.229542214 0.765964099 0.926869603 1.013365394 1.104805126 0.795942971 0.76655414 1.482929748 1 13.22845734 -4.652330957 7.822559318 0.979957671 0.774953025 0.162461865 0.195755305 0.185255404 12.02965652 0.014856127 0.056105709 2.23E-05 4.652330957 -0.205004646 GAANASGSS(ph)PDAPAKDAR ddPTM_HeLa_SAHA_4h_R1 3 GAANASGSSPDAPAKDAR 18 1 E7EPJ7;O75962-5;O75962-4;O75962 E7EPJ7 TRIO Triple functional domain protein 1 0 GAANAS(0.006)GS(0.081)S(0.913)PDAPAKDAR;GAANASGS(0.042)S(0.958)PDAPAKDAR;GAANAS(0.003)GS(0.055)S(0.942)PDAPAKDAR ;; 191.71 3.67E-29 13915200 5933.7 5434 5291.9 5882.5 6002 6244.9 6365.1 5893.2 5060.98 5490.38 TRUE FALSE FALSE 6557.833791 5610.065165 6013.052573 5996.364294 5542.128057 5712.799387 5648.882196 5742.460477 5025.760228 5727.097151 1.145053701 0.979565217 1.049930255 1.047016339 0.967702819 0.997503488 0.986343002 1.002682568 0.877540593 1 12.48358836 -6.158587266 1.227814925 1.063944383 0.989153934 0 0.073393213 0.518569435 1.541373726 0.010125404 0.021107015 6.94E-07 6.158587266 -0.074790449 GAAS(ph)PVLQEDHCDSLPSVLQVEEK ddPTM_HeLa_SAHA_4h_R1 1 GAASPVLQEDHCDSLPSVLQVEEK 24 0 Q8N9B5-2;Q8N9B5 Q8N9B5-2 JMY Junction-mediating and -regulatory protein 1 0 GAAS(0.828)PVLQEDHCDS(0.172)LPSVLQVEEK 87.25 0.00011295 7338600 655.31 859.87 539.8 695.82 901.83 1002.7 922.72 845.79 1144.6 904.5 TRUE FALSE FALSE 724.2385125 887.7303522 613.3611328 709.2886023 832.7319802 917.264319 818.8931171 824.1559165 1136.634635 943.4974215 0.767610484 0.940893247 0.650093067 0.751765279 0.882601225 0.972195894 0.867933604 0.873511573 1.204703489 1 9.881874765 -3.796204293 14.39243387 0.870200455 3.713538824 0 0.147410486 167762550.9 44241382.53 0.016725684 15730497853 0.000159881 3.796204293 2.843338369 GAASPVLQEDHCDS(ph)LPSVLQVEEK ddPTM_HeLa_SAHA_4h_R1 1 GAASPVLQEDHCDSLPSVLQVEEK 24 0 Q8N9B5-2;Q8N9B5 Q8N9B5-2 JMY Junction-mediating and -regulatory protein 1 0 GAAS(0.29)PVLQEDHCDS(0.678)LPS(0.032)VLQVEEK 79.69 0.00024207 8456100 669.84 913.35 510.24 1024.6 1049.4 1366.5 746.69 995.65 1462.8 1025.7 TRUE FALSE FALSE 740.2968445 942.9431393 579.77285 1044.432615 968.9951987 1250.066512 662.670476 970.1827147 1452.620256 1069.922947 0.691916036 0.881318736 0.541882807 0.976175544 0.905668209 1.168370597 0.619362804 0.906778117 1.357686794 1 10.06329119 GAASTLVPGVS(ph)ETSASPGSPSVR ddPTM_HeLa_SAHA_4h_R1 1 GAASTLVPGVSETSASPGSPSVR 23 0 A0A0A0MS59;A0A0C4DFX4;Q6ZRS2-3;Q6ZRS2-2;Q6ZRS2 A0A0A0MS59 SRCAP Helicase SRCAP 1 0 GAASTLVPGVS(0.862)ET(0.058)S(0.041)AS(0.037)PGS(0.001)PSVR 174.15 1.23E-10 22906000 1960.2 1881.3 1625.1 2070.8 2274.4 2126.5 2113.1 1867.1 1891 1814.5 TRUE FALSE FALSE 2166.38283 1942.255354 1846.560165 2110.883328 2100.135963 1945.310237 1875.328427 1819.342286 1877.840377 1892.731975 1.144579823 1.026165025 0.975605732 1.115257393 1.109579164 1.027779032 0.990805065 0.961225525 0.99213222 1 10.88625441 -4.828378943 2.740717286 1.065405962 0.970145975 0.202263706 0.055146956 0.298339427 4.414705637 0.00912227 0.037779577 1.48E-05 4.828378943 -0.095259987 GAASTLVPGVSET(ph)SASPGSPSVR ddPTM_HeLa_SAHA_4h_R1 1 GAASTLVPGVSETSASPGSPSVR 23 0 A0A0A0MS59;A0A0C4DFX4;Q6ZRS2-3;Q6ZRS2-2;Q6ZRS2 A0A0A0MS59 SRCAP Helicase SRCAP 1 0 GAASTLVPGVS(0.023)ET(0.354)S(0.16)AS(0.108)PGS(0.35)PS(0.005)VR 179.84 9.54E-11 19953000 1138 983.76 820.47 855.25 1222.1 941.02 874.84 999.7 664.78 1263 TRUE FALSE FALSE 1257.700061 1015.634469 932.2793788 871.8046005 1128.462962 860.839802 776.4007007 974.1291215 660.1537419 1317.454111 0.954644303 0.770906904 0.707637079 0.66173432 0.856548211 0.653411603 0.589318971 0.739402696 0.501082912 1 10.363537 -7.190024183 2.151998559 0.982755247 0.698495905 0 0.165730766 0.09776302 0.864272958 0.011769041 0.01432898 6.46E-08 7.190024183 -0.284259342 GADAGSSGGTGPTEGYS(ph)PPAASTR ddPTM_HeLa_SAHA_4h_R1 4 GADAGSSGGTGPTEGYSPPAASTR 24 0 Q969W3-2;J3KT76;J3KSI9;Q969W3 Q969W3-2 FAM104A Protein FAM104A 1 0 GADAGSSGGTGPTEGYS(0.969)PPAAS(0.015)T(0.015)R;GADAGSSGGTGPT(0.001)EGYS(0.999)PPAASTR;GADAGSSGGTGPTEGYS(0.999)PPAAS(0.001)TR;GADAGSSGGTGPT(0.001)EGYS(0.998)PPAAS(0.001)TR ;;; 228.31 1.81E-39 34015000 3362.79 3565.62 2871.01 3362.66 3493.16 4015.73 3713.04 3539.27 3911.93 3596.49 TRUE FALSE FALSE 3716.503681 3681.148427 3262.256291 3427.749147 3225.514835 3673.567212 3295.238967 3448.740598 3884.706561 3751.552285 0.990657573 0.981233406 0.869575057 0.913688225 0.859781389 0.979212585 0.878366798 0.919283629 1.035493115 1 11.87327195 -6.863889486 6.077656337 0.995028611 0.904320921 0.668506593 0.033946724 0.087200613 4.495926329 0.004649893 0.006143002 1.37E-07 6.863889486 -0.09070769 GADFLVTEVENGGS(ph)LGSK ddPTM_HeLa_SAHA_4h_R1 1 GADFLVTEVENGGSLGSK 18 0 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BQ34 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 1 0 GADFLVTEVENGGS(0.979)LGS(0.021)K 126 4.03E-06 0 345.17 390.16 216.32 374.29 367.04 481.89 450.58 420.83 428.35 408.12 TRUE FALSE FALSE 381.4765643 402.80144 245.7989631 381.5349242 338.9174745 440.830261 399.8795525 410.065778 425.3690775 425.7160505 0.896082175 0.946173957 0.577377721 0.896219261 0.796111573 1.035503032 0.939310491 0.963237767 0.999184966 1 8.733747674 -5.226940112 24.99341698 0.907632611 0.975346409 0.095356841 0.120512223 1633.57347 1183459.902 0.018036644 0.045982428 5.93E-06 5.226940112 0.067713798 GADFLVTEVENGGSLGSK ddPTM_HeLa_SAHA_4h_R1 5 GADFLVTEVENGGSLGSK 18 0 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BQ34 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;;;; ;;;; 341.27 9.75E-184 187632000 13393.7 10233.2 10038.04 12044.3 11017.8 13580.3 12072.1 13261 14931.1 12232.1 FALSE FALSE TRUE 14802.51082 10564.76239 11405.97182 12277.43484 10173.61854 12423.18204 10713.71554 12921.80282 14827.19326 12759.48569 1.160118141 0.827992808 0.893920969 0.962220197 0.797337666 0.973642852 0.839666723 1.012721291 1.162052579 1 13.63928256 -7.258886346 24.99996098 1.075611345 0.899588304 0.583079539 0.078574998 136.0671967 1332406.287 0.013651298 0.016314257 5.51E-08 7.258886346 -0.17602304 GADNDGS(ph)GSESGYTT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 GADNDGSGSESGYTTPK 17 0 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 2 0 GADNDGS(0.727)GS(0.235)ES(0.038)GY(0.059)T(0.035)T(0.907)PK 118.37 0.016789 9716300 1897.6 1859 1294.6 1845.5 1962.4 1910.3 2005 1674.9 1714.1 2128.7 TRUE FALSE FALSE 2097.198275 1919.23282 1471.021346 1881.222321 1812.041336 1747.531693 1779.392123 1632.058483 1702.171439 2220.478675 0.944480259 0.864332921 0.662479385 0.847214766 0.816058878 0.787006745 0.801355196 0.735002998 0.766578602 1 11.116655 -7.168743704 2.765064887 0.975592611 0.781002805 0.211033672 0.082794104 0.09396254 1.384232851 0.008594163 0.010542376 6.78E-08 7.168743704 -0.194589807 GADNDGS(ph)GSESGYTTPK ddPTM_HeLa_SAHA_4h_R1 5 GADNDGSGSESGYTTPK 17 0 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 GADNDGS(0.919)GS(0.069)ES(0.012)GYTTPK;GADNDGS(0.57)GS(0.366)ES(0.064)GYTTPK;GADNDGS(0.919)GS(0.073)ES(0.008)GYTTPK;GADNDGS(0.993)GS(0.007)ESGYTTPK;GADNDGS(0.612)GS(0.387)ES(0.001)GYTTPK ;;;; 216.16 8.83E-21 174412200 10338.26 10771.75 9832.6 10700.1 10856.65 13075.3 11967.9 11248.57 12559.5 10624.7 TRUE FALSE FALSE 11425.68562 11120.76177 11172.53552 10907.21591 10024.81582 11961.21088 10621.24039 10960.84787 12472.09742 11082.78281 1.030940136 1.003426843 1.008098391 0.98415859 0.90453959 1.079260605 0.958355006 0.988997804 1.12535792 1 13.43603256 -6.321679377 4.152623967 1.013767735 0.98264872 0.132479248 0.053956844 0.374686786 13.19214634 0.00603116 0.009487169 4.77E-07 6.321679377 -0.031119014 GADNDGSGS(ph)ESGYTT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 GADNDGSGSESGYTTPK 17 0 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 2 0 GADNDGS(0.031)GS(0.902)ES(0.046)GY(0.001)T(0.042)T(0.977)PK 103.99 0.0027341 0 822.73 983.84 731.8 745.47 696.39 881.7 800.95 879.13 935.7 810.23 TRUE FALSE FALSE 909.2685162 1015.717062 831.5258929 759.8996498 643.0327486 806.5741997 710.824998 856.6431276 929.1883875 845.1629805 1.07584991 1.201800227 0.983864547 0.899116108 0.760838754 0.95434161 0.841050797 1.013583353 1.099419176 1 9.723085766 -6.393497143 3.954101205 1.05068167 0.887202003 0.542083837 0.082500243 0.159516849 4.329251061 0.0127918 0.019844462 4.04E-07 6.393497143 -0.163479667 GADNDGSGS(ph)ESGYTTPK ddPTM_HeLa_SAHA_4h_R1 1 GADNDGSGSESGYTTPK 17 0 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 GADNDGS(0.378)GS(0.622)ESGYTTPK 180.39 2.39E-09 129900000 3831.4 3298.9 3393.3 3609.9 3864 4385.3 3922.5 4034.2 4164.1 3747.6 TRUE FALSE FALSE 4234.404231 3405.786524 3855.721252 3679.774835 3567.941155 4011.647769 3481.129977 3931.011005 4135.121689 3909.177376 1.083195727 0.871228444 0.98632548 0.941316927 0.912708944 1.026212776 0.890501924 1.005585223 1.057798429 1 11.93264933 -7.274783033 24.99429151 1.039286871 0.948411737 0.448794127 0.050208789 555.4328231 1040391.231 0.008648004 0.009918659 5.31E-08 7.274783033 -0.090875134 GADNDGSGS(ph)ESGYTTPKK ddPTM_HeLa_SAHA_4h_R1 1 GADNDGSGSESGYTTPKK 18 1 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 GADNDGS(0.205)GS(0.786)ES(0.009)GYTTPKK 78.236 0.0038644 7631700 1153.4 1000.3 1129.1 1162.4 1110.4 1089.4 1140.7 1173.8 848.97 1183.1 TRUE FALSE FALSE 1274.719904 1032.710376 1282.967868 1184.899933 1025.321392 996.5769912 1012.345434 1143.775896 843.0619486 1234.109231 1.032906871 0.836806298 1.039590205 0.960125654 0.830818996 0.807527378 0.820304563 0.926802804 0.683133978 1 10.26925438 -5.86142014 4.066433143 1.00127319 0.841551884 0 0.118312585 0.117225682 3.589464096 0.00927075 0.017467711 1.38E-06 5.86142014 -0.159721306 GADNDGSGSESGYTT(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 GADNDGSGSESGYTTPK 17 0 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 GADNDGSGSESGY(0.017)T(0.023)T(0.96)PK;GADNDGSGSESGYT(0.019)T(0.981)PK ; 151.04 1.03E-09 50893000 4578.5 3855.14 3210.89 3697.04 4075.96 4058.4 3889.49 4568.41 4134.5 3719.7 TRUE FALSE FALSE 5060.087637 3980.049065 3648.453368 3768.601555 3763.660825 3712.601488 3451.834349 4451.556687 4105.727678 3880.074471 1.304121268 1.025766154 0.940304985 0.971270419 0.969997059 0.956837689 0.889630953 1.147286404 1.058156927 1 11.92186863 -7.015625257 23.21036092 1.14473551 0.974157876 0.292346491 0.096144674 258.9780503 384696.7488 0.020440378 0.025482308 9.65E-08 7.015625257 -0.170577634 GADNDGSGSESGYTT(ph)PKK ddPTM_HeLa_SAHA_4h_R1 1 GADNDGSGSESGYTTPKK 18 1 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 GADNDGSGS(0.001)ES(0.168)GY(0.003)T(0.084)T(0.744)PKK 65.213 0.0058715 0 1086.6 1157.4 635.23 1086.5 1269.3 1937.6 1052.3 2048.8 2330.2 1407.4 TRUE FALSE FALSE 1200.893573 1194.900519 721.7958363 1107.530779 1172.046508 1772.505579 933.8924345 1996.394663 2313.983948 1468.079902 0.81800287 0.813920631 0.491659776 0.754407698 0.79835335 1.207363153 0.636131885 1.359867852 1.576197553 1 10.51971478 -1.920663275 10.69911488 0.884546896 1.107374698 0 0.327368664 0 0 0.030226212 0 0.012004297 1.920663275 0.222827802 GADS(ph)GEEKEEGINR ddPTM_HeLa_SAHA_4h_R1 1 GADSGEEKEEGINR 14 1 Q9BVG4 Q9BVG4 PBDC1 Protein PBDC1 1 0 GADS(1)GEEKEEGINR 98.943 0.023394 4062300 715.55 959.87 638.91 923.34 988.21 1284.3 823.87 733.94 1382.9 754.15 TRUE FALSE FALSE 790.8148321 990.9704178 725.9773275 941.2125809 912.4935633 1174.870415 731.1659793 715.1668775 1373.276286 786.6650972 1.005275097 1.259710671 0.922854376 1.196459058 1.159951759 1.49348232 0.929450133 0.909112251 1.745693677 1 9.619605765 -7.457426957 24.72609522 1.002327064 1.127866014 0 0.289593504 298.7682573 112867.4069 0.028428466 0.032507425 3.49E-08 7.457426957 0.12553895 GAEAANVTGPDGVPVEGSR ddPTM_HeLa_SAHA_4h_R1 1 GAEAANVTGPDGVPVEGSR 19 0 P16989-2;P16989-3;P16989;A0A0D9SEI8 P16989-2 YBX3 Y-box-binding protein 3 0 0 123.76 0.0015569 2590800 1232.3 890.49 959.83 1274 1081.3 1142.7 1346.3 1203.3 1189.2 764.14 FALSE FALSE TRUE 1361.918968 919.3424603 1090.630634 1298.660112 998.4510276 1045.335531 1194.810781 1172.521328 1180.92426 797.085815 1.708622764 1.153379527 1.368272541 1.629260097 1.252626767 1.311446662 1.498973835 1.471010155 1.481552222 1 9.638591244 -9.577808177 1.358308887 0.999808987 1.452464248 0 0.216223647 0.299925833 0.991470297 0.123811886 0.028873288 2.64E-10 9.577808177 0.452655262 GAEAANVTGPGGVPVQGSK ddPTM_HeLa_SAHA_4h_R1 1 GAEAANVTGPGGVPVQGSK 19 0 H0Y449;P67809 H0Y449 YBX1 Nuclease-sensitive element-binding protein 1 0 0 145.1 1.11E-09 0 812.96 532.26 553.16 664.35 709.2 824.69 616.17 793.48 762.09 703.82 FALSE FALSE TRUE 898.4708628 549.5055732 628.5417641 677.2094549 654.8612492 754.4217724 546.8369299 773.1839305 756.7865536 734.1651246 1.223799432 0.748476814 0.856131329 0.922421172 0.891980874 1.027591406 0.744841878 1.05314718 1.030812454 1 9.519960773 -7.265482115 24.99908131 1.105683064 0.891413024 0.390976084 0.109338467 246.5952847 1524869.046 0.020004931 0.023312709 5.43E-08 7.265482115 -0.21427004 GAEAFGDS(ph)EEDGEDVFEVEK ddPTM_HeLa_SAHA_4h_R1 1 GAEAFGDSEEDGEDVFEVEK 20 0 Q99549-2;Q99549 Q99549-2 MPHOSPH8 M-phase phosphoprotein 8 1 0 GAEAFGDS(1)EEDGEDVFEVEK 140.87 3.88E-05 2058500 816.11 748.75 572.05 580.26 773.57 989.63 562.63 652.1 716.45 932.47 TRUE FALSE FALSE 901.9521942 773.0099913 650.0059949 591.4917714 714.2992337 905.3079565 499.3213916 635.4202262 711.4641661 972.6733451 0.927291982 0.794727228 0.668267511 0.608109366 0.734367028 0.930742023 0.513349517 0.653271964 0.731452311 1 9.925811573 -7.170005786 1.898154446 0.971349696 0.686320587 0.279337527 0.126195877 0.163349498 1.123153882 0.018624041 0.022863258 6.76E-08 7.170005786 -0.285029108 GAEDDELEEEADWIYR ddPTM_HeLa_SAHA_4h_R1 1 GAEDDELEEEADWIYR 16 0 Q7KZ85;Q7KZ85-3 Q7KZ85 SUPT6H Transcription elongation factor SPT6 0 0 153.75 0.00019462 1438100 433.3 312.63 332.4 296.21 338.53 541.13 542.7 337.77 479.13 344.92 FALSE FALSE TRUE 478.8764821 322.7594171 377.6977409 301.9435729 312.5919045 495.0226797 481.6339677 329.1303325 475.7956953 359.7911892 1.330984461 0.897074266 1.049769289 0.839218919 0.868814785 1.37586104 1.338648589 0.914781524 1.322421754 1 8.491016047 -7.254450732 24.86924563 1.156298217 1.050954545 0.121014243 0.197763512 1390.812361 4949235.702 0.036641647 0.044348185 5.57E-08 7.254450732 -0.105343672 GAEEMETVIPVDVMR ddPTM_HeLa_SAHA_4h_R1 4 GAEEMETVIPVDVMR 15 0 Q99497;K7ELW0 Q99497 PARK7 Protein deglycase DJ-1 0 0 ;;; ;;; 266.74 9.16E-84 23026030 3445.69 3142.73 3433.4 3761.14 3715.49 4241.86 4128.88 4446.65 4031.61 3675.99 FALSE FALSE TRUE 3808.123484 3244.556514 3901.285872 3833.942303 3430.809959 3880.429664 3664.287556 4332.911132 4003.553698 3834.479919 0.993126464 0.846152955 1.017422429 0.999859794 0.894726281 1.011983306 0.955615268 1.129986654 1.044093015 1 11.9048152 -4.255508031 24.48230947 0.98039502 1.129986742 0.393095713 0.057728423 374.3404237 1545072.613 0.007218928 0.086243914 5.55E-05 4.255508031 0.149591722 GAEETSWS(ph)GEER ddPTM_HeLa_SAHA_4h_R1 2 GAEETSWSGEER 12 0 Q9H7N4 Q9H7N4 SCAF1 "Splicing factor, arginine/serine-rich 19" 1 0 GAEETSWS(1)GEER;GAEETSWS(1)GEER ; 225.97 1.92E-22 109005000 2191.3 2303 1993.63 2299.2 2430.7 2563.8 2924 2635.3 2394.6 1993.14 TRUE FALSE FALSE 2421.790988 2377.618711 2265.311514 2343.704341 2244.460291 2345.349816 2594.983824 2567.892842 2377.935784 2079.07402 1.164841158 1.143595028 1.089577135 1.12728278 1.079548044 1.128074226 1.24814403 1.235113718 1.143747534 1 11.02172541 -13.52287875 0.189378817 0.326224505 1.18610436 0.083845852 0.065846757 31.51059684 0.37197625 7.869500197 0.066218682 3.00E-14 13.52287875 0.859879855 GAES(ph)ENEEESPR ddPTM_HeLa_SAHA_4h_R1 2 GAESENEEESPR 12 0 Q9UEG4 Q9UEG4 ZNF629 Zinc finger protein 629 1 0 GAES(0.984)ENEEES(0.016)PR;GAES(1)ENEEESPR ; 146.67 0.00045781 9560400 968.18 1414.08 778.95 1047.66 1339.7 1849.53 1232.35 891.48 2160.54 1178.64 TRUE FALSE FALSE 1070.017615 1459.89712 885.1012494 1067.938974 1237.052475 1691.939639 1093.682735 868.6772324 2145.504626 1229.456939 0.870317277 1.187432495 0.719912363 0.868626579 1.006177961 1.376168279 0.88956571 0.706553605 1.745083182 1 10.26380549 -5.58337925 14.43920486 0.93550652 1.015720249 0 0.319322042 4.90934851 1168.044119 0.027486951 0.054976381 2.61E-06 5.58337925 0.080213729 GAES(ph)PFEEK ddPTM_HeLa_SAHA_4h_R1 7 GAESPFEEK 9 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 GAES(1)PFEEK;GAES(1)PFEEK;GAES(1)PFEEK;GAES(1)PFEEK;GAES(1)PFEEK;GAES(1)PFEEK;GAES(1)PFEEK ;;;;;; 150.04 0.00043162 2031842000 32880.4 33529 30133.7 32323.4 34785.7 35467.3 37642.4 32205 34060.3 29931.9 TRUE FALSE FALSE 36338.91133 34615.3616 34240.16371 32949.06615 32120.42718 32445.28651 33406.77808 31381.24273 33823.2716 31222.41069 1.163872697 1.10867037 1.096653428 1.055301798 1.02876192 1.039166605 1.069961523 1.005087116 1.083301092 1 14.93029431 -6.054989091 4.540150924 1.083415191 1.038629875 0.282193633 0.040573167 0.408680833 17.61527781 0.009607125 0.016549163 8.81E-07 6.054989091 -0.044785316 GAGAGHPGAGGAQPPDS(ph)PAGVR ddPTM_HeLa_SAHA_4h_R1 2 GAGAGHPGAGGAQPPDSPAGVR 22 0 A0A3B3ITC2;Q13884-2;Q13884 A0A3B3ITC2 SNTB1 Beta-1-syntrophin 1 0 GAGAGHPGAGGAQPPDS(1)PAGVR;GAGAGHPGAGGAQPPDS(1)PAGVR ; 166.65 6.26E-08 5358400 2215.32 2217.04 1881.23 1856.64 2185.95 2694.2 2262.99 2306.9 2263.34 2618.87 TRUE FALSE FALSE 2448.337522 2288.873551 2137.594227 1892.577952 2018.462983 2464.639003 2008.352409 2247.892838 2247.589233 2731.782302 0.896241813 0.837868211 0.782490693 0.692799697 0.738881346 0.902209155 0.735180255 0.822866755 0.822755617 1 11.4156268 -7.60006586 0.857362928 0.976758147 0.776254957 0.284501471 0.074017284 0.216627319 0.334651344 0.015288406 0.014910349 2.51E-08 7.60006586 -0.20050319 GAGATSGS(ph)PPAGR ddPTM_HeLa_SAHA_4h_R1 3 GAGATSGSPPAGR 13 0 B4DEE8;P16455 B4DEE8 MGMT Methylated-DNA--protein-cysteine methyltransferase 1 0 GAGAT(0.026)S(0.12)GS(0.854)PPAGR;GAGAT(0.007)S(0.042)GS(0.951)PPAGR;GAGAT(0.048)S(0.137)GS(0.815)PPAGR ;; 124.38 0.00097489 6084590 1884.96 2983.12 1811.73 2579.18 2804.04 3644.26 2917.61 2790.21 4265.91 2621.95 TRUE FALSE FALSE 2083.228741 3079.775045 2058.623129 2629.103758 2589.195061 3333.748546 2589.312844 2718.840468 4236.223185 2734.995096 0.761693776 1.126062365 0.752697192 0.961282805 0.946690934 1.218923043 0.946733999 0.994093361 1.548896081 1 11.41732253 -5.610328971 3.206266335 0.897755613 1.046406757 0 0.239708914 0.304952465 6.265261706 0.01939106 0.041834719 2.45E-06 5.610328971 0.148651144 GAGATSGS(ph)PPAGRN ddPTM_HeLa_SAHA_4h_R1 2 GAGATSGSPPAGRN 14 1 B4DEE8;P16455 B4DEE8 MGMT Methylated-DNA--protein-cysteine methyltransferase 1 0 GAGAT(0.038)S(0.183)GS(0.78)PPAGRN;GAGAT(0.003)S(0.029)GS(0.968)PPAGRN ; 158.86 3.71E-05 190593000 8224.5 7906.7 6679.1 8384.3 8880.6 10439.7 9798.6 9487.9 8204.9 8689 TRUE FALSE FALSE 9089.590645 8162.882268 7589.292965 8546.59025 8200.170347 9550.178828 8696.035739 9245.213256 8147.801433 9063.625313 1.002864784 0.900620004 0.83733525 0.942954939 0.90473404 1.053681998 0.959443428 1.020034803 0.898956119 1 13.14587251 -7.297135282 23.24720533 1.001352831 0.944406269 0 0.065828271 341.230697 222227.7885 0.010150584 0.011608014 5.05E-08 7.297135282 -0.056946562 GAGDGS(ph)DEEVDGK ddPTM_HeLa_SAHA_4h_R1 3 GAGDGSDEEVDGK 13 0 P35579;P35579-2 P35579 MYH9 Myosin-9 1 0 GAGDGS(1)DEEVDGK;GAGDGS(1)DEEVDGK;GAGDGS(1)DEEVDGK ;; 186.29 3.04E-07 103320400 4008.5 5275.8 3459.47 4943.5 5479.3 6192.7 4914.27 4447.9 8126.3 4878.7 TRUE FALSE FALSE 4430.132422 5446.739382 3930.908555 5039.188591 5059.477218 5665.047121 4361.303406 4334.129158 8069.748417 5089.044633 0.870523397 1.07028721 0.77242564 0.990203261 0.994189987 1.113184798 0.856998459 0.851658704 1.585709892 1 12.31317913 GAGDGS(ph)DEEVDGKADGAEAKPAE ddPTM_HeLa_SAHA_4h_R1 5 GAGDGSDEEVDGKADGAEAKPAE 23 2 P35579;P35579-2 P35579 MYH9 Myosin-9 1 0 GAGDGS(1)DEEVDGKADGAEAKPAE;GAGDGS(1)DEEVDGKADGAEAKPAE;GAGDGS(1)DEEVDGKADGAEAKPAE;GAGDGS(1)DEEVDGKADGAEAKPAE;GAGDGS(1)DEEVDGKADGAEAKPAE ;;;; 69.284 0.001985 758440000 7607.43 9042.7 6468.03 7385.59 8347.57 8309.14 7887.25 8163.93 7543.97 6722.9 TRUE FALSE FALSE 8407.614392 9335.689413 7349.459444 7528.548774 7707.98099 7601.154526 6999.755872 7955.108492 7491.470899 7012.75712 1.198902835 1.331243797 1.048012831 1.07355048 1.099137024 1.083903862 0.998146058 1.13437673 1.068263277 1 12.77576605 GAGGPAS(ph)AQGSVK ddPTM_HeLa_SAHA_4h_R1 1 GAGGPASAQGSVK 13 0 Q9UHV7 Q9UHV7 MED13 Mediator of RNA polymerase II transcription subunit 13 1 0 GAGGPAS(1)AQGSVK 135.58 2.68E-05 0 552.54 565.55 427.39 357.34 522.52 699.85 488.9 445.44 649.17 597.55 TRUE FALSE FALSE 610.6586923 583.8741911 485.6324834 364.2568324 482.4846305 640.2188428 433.8876853 434.0462898 644.6523731 623.3133048 0.97969783 0.936726661 0.77911458 0.584388027 0.774064386 1.027122055 0.696098867 0.696353321 1.034234899 1 9.283813698 -6.826548237 3.463043966 0.989094561 0.760164681 0.53105806 0.106261135 0.148035648 3.591476657 0.017607816 0.023942115 1.49E-07 6.826548237 -0.228929879 GAGGS(ph)PVGVEEGLVNVGTGQK ddPTM_HeLa_SAHA_4h_R1 1 GAGGSPVGVEEGLVNVGTGQK 21 0 A0A1W2PQJ7;Q7Z5J4-3;Q7Z5J4-2;Q7Z5J4 A0A1W2PQJ7 RAI1 Retinoic acid-induced protein 1 1 0 GAGGS(1)PVGVEEGLVNVGTGQK 223.65 1.94E-64 0 514.37 746.13 511.9 512.52 539.22 666.87 595.49 538.06 837.02 477.74 TRUE FALSE FALSE 568.4737966 770.3051016 581.6590661 522.4405657 497.9050801 610.0489243 528.483898 524.2972043 831.1951097 498.3377094 1.140740076 1.545749172 1.167198579 1.048366511 0.999131855 1.224167693 1.060493493 1.052092174 1.667935406 1 8.960979937 -8.789774377 1.180866167 1.015440156 1.153717221 0 0.252618991 0.686145016 1.910340099 0.056206315 0.028658839 1.62E-09 8.789774377 0.138277066 GAGIGGLGITVEGPSESK ddPTM_HeLa_SAHA_4h_R1 2 GAGIGGLGITVEGPSESK 18 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 ; ; 289.89 8.04E-119 1723860 955.57 749.2 773.142 702.31 1078.18 1072.537 1264.29 948.31 945.93 960.08 FALSE FALSE TRUE 1056.081237 773.4745716 878.5017654 715.9042256 995.5700813 981.1508137 1122.028762 924.0536033 939.3471961 1001.473747 1.05452713 0.772336343 0.877208981 0.714850716 0.994105022 0.979706973 1.120377608 0.922693786 0.937964873 1 9.967908887 GAGPQLLEELDNAPGSDAAELELAPART(ph)PPDSVKDASAAEPAAAER ddPTM_HeLa_SAHA_4h_R1 2 GAGPQLLEELDNAPGSDAAELELAPARTPPDSVKDASAAEPAAAER 46 2 Q9UHR6 Q9UHR6 ZNHIT2 Zinc finger HIT domain-containing protein 2 1 0 GAGPQLLEELDNAPGS(0.215)DAAELELAPART(0.773)PPDS(0.011)VKDAS(0.001)AAEPAAAER;GAGPQLLEELDNAPGS(0.058)DAAELELAPART(0.933)PPDS(0.008)VKDAS(0.001)AAEPAAAER ; 100.22 4.58E-16 22904000 3808.5 3016.03 3123.19 3252.66 3693.8 3415.8 3905.4 3283.3 2571.15 3182 TRUE FALSE FALSE 4209.095504 3113.751351 3548.802068 3315.619938 3410.781842 3124.754623 3465.954114 3199.31794 2553.257158 3319.191592 1.26810863 0.938105338 1.069176626 0.998923938 1.027594144 0.941420384 1.044216345 0.963884684 0.769240668 1 11.69661619 -7.235919827 24.96558858 1.12660687 1.001203687 0 0.134120427 797.8081751 780490.468 0.017209295 0.021073339 5.81E-08 7.235919827 -0.125403183 GAGPTRR ddPTM_HeLa_SAHA_4h_R1 1 GAGPTRR 7 1 V9GYU4;Q8N319 V9GYU4 C6orf223 Uncharacterized protein C6orf223 0 0 22.622 0.019717 3506000 4163.4 4522.8 1908.7 2536.7 3542.5 6714.6 3661 5172.7 8000.3 5686.8 FALSE FALSE TRUE 4601.325514 4669.341688 2168.807696 2585.801497 3271.074415 6142.478305 3249.054645 5040.389824 7944.625261 5931.985779 0.77568047 0.787146474 0.365612423 0.435908243 0.551429915 1.035484328 0.547717875 0.849696883 1.339285959 1 12.53429942 -8.068803093 0.867107901 0.961972084 0.644979305 0.389656888 0.22459398 0.455789693 0.736979898 0.061938636 0.044904065 8.53E-09 8.068803093 -0.316992779 GAGSIAGASAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 GAGSIAGASASPK 13 0 P15924-2;P15924-3;P15924 P15924-2 DSP Desmoplakin 1 0 GAGSIAGAS(0.003)AS(0.997)PK;GAGSIAGAS(0.008)AS(0.992)PK ; 94.023 0.0083513 7930700 3790.9 3766.1 3116.1 3683.8 4110.1 4222.6 3798.4 3349.8 4893.9 4027.6 TRUE FALSE FALSE 4189.644255 3888.124111 3540.74588 3755.105276 3795.185026 3862.810724 3370.994035 3264.116966 4859.842951 4201.249547 0.997237657 0.925468499 0.842783996 0.893806767 0.903346727 0.919443295 0.802378911 0.776939558 1.156761315 1 12.03660277 -1.144822543 0.17697399 1.033279012 2.63E-07 0.673690792 0.059815002 19.89641837 0.223938474 0.058419502 5.476907055 0.071643609 1.144822543 -1.033278749 GAGTDDHTLIR ddPTM_HeLa_SAHA_4h_R1 2 GAGTDDHTLIR 11 0 P08758;D6RBL5;D6RBE9 P08758 ANXA5 Annexin A5;Annexin 0 0 ; ; 192.44 6.25E-07 16849600 7775.7 7236.8 6824 7689.9 7664.8 8831.8 8044.6 7334.4 9008.7 7756.8 FALSE FALSE TRUE 8593.583802 7471.277068 7753.939182 7838.749134 7077.52468 8079.280954 7139.400436 7146.796668 8946.007723 8091.233609 1.062085736 0.923379231 0.958313597 0.968795305 0.874715157 0.998522765 0.882362416 0.88327652 1.105642002 1 12.98214396 -7.251605738 24.5973092 1.029318264 0.928877081 0.594984742 0.047197291 303.9465703 760274.7026 0.007103343 0.008641028 5.60E-08 7.251605738 -0.100441184 GAGTDEGCLIEILASR ddPTM_HeLa_SAHA_4h_R1 2 GAGTDEGCLIEILASR 16 0 P09525;P09525-2 P09525 ANXA4 Annexin A4 0 0 ; ; 190.85 5.89E-11 13976700 1920.7 2161.81 1736.76 2039.59 1834.66 2070.53 2122.4 2099.57 2146.32 1733.31 FALSE FALSE TRUE 2122.728038 2231.854062 1973.436608 2079.069214 1694.088747 1894.109196 1883.581966 2045.86604 2131.383584 1808.041477 1.174048309 1.234404239 1.09147751 1.149901283 0.936974494 1.047602735 1.041780286 1.131537117 1.178835559 1 10.82021206 -5.811655484 24.99999711 1.101793728 1.040216662 0.203045893 0.077833108 203.3083412 101215.936 0.013677389 0.024792401 1.54E-06 5.811655484 -0.061577066 GAGTGGLGLAVEGPSEAK ddPTM_HeLa_SAHA_4h_R1 4 GAGTGGLGLAVEGPSEAK 18 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ;;; ;;; 331.48 1.31E-182 10219300 4266.58 3675.08 3299.13 3922.41 4643.91 4584.78 4193.92 4154.76 3941.7 3968.5 FALSE FALSE TRUE 4715.35846 3794.155003 3748.718255 3998.333917 4288.094619 4194.130951 3722.009084 4048.487255 3914.269389 4139.601456 1.139085129 0.916550794 0.905574678 0.965874121 1.035871367 1.013172644 0.899122566 0.97798962 0.945566724 1 12.01527616 -7.25128161 24.87098948 1.06567909 0.960080105 0.122238491 0.064519839 534.0527662 1307612.415 0.011136539 0.013558891 5.61E-08 7.25128161 -0.105598984 GAGTNEDALIEILTTR ddPTM_HeLa_SAHA_4h_R1 3 GAGTNEDALIEILTTR 16 0 P12429;D6RFG5;D6RA82;D6RCA8 P12429 ANXA3 Annexin A3;Annexin 0 0 ;; ;; 261.45 2.39E-46 22826350 2517.53 2388.61 1921.33 2722.31 2297.113 2811.93 2804.09 2429.681 2770.23 2567.22 FALSE FALSE TRUE 2782.335356 2466.002531 2183.158847 2775.004247 2121.108698 2572.337745 2488.566413 2367.533278 2750.951744 2677.905418 1.038996873 0.920869914 0.815248676 1.036259245 0.792077526 0.960578267 0.929295858 0.884098916 1.027277411 1 11.38688929 -7.202919278 5.920063444 1.018383712 0.905094186 0.398763205 0.065682031 0.152572771 11.47234721 0.009968779 0.012191797 6.27E-08 7.202919278 -0.113289527 PEPAK(ac)SAPAPK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 PEPAKSAPAPKK 12 2 O60814;P57053;P62807;Q16778 O60814;P62807;Q16778 HIST1H2BK;H2BFS;HIST1H2BC;HIST2H2BE Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E 0 2 ; PEPAK(1)SAPAPK(1)K;PEPAK(1)SAPAPK(1)K 172.11 1.67E-09 83220000 2001.81 3256.3 4090.4 12988.4 13939 14668.5 15034.1 14302.8 1379.03 1755.38 FALSE TRUE FALSE 2212.36956 3361.806257 4647.81841 13239.80926 12870.99683 13418.66128 13342.4235 13936.95509 1369.433218 1831.063022 1.208243263 1.8359861 2.538317007 7.230668252 7.029248406 7.328344854 7.286709052 7.611401091 0.747889724 1 10.83846573 -6.354370471 2.476030897 1.155013621 7.370902542 0.987638122 0.328452073 0.020731261 0.248265966 0.05132247 0.08389205 4.42E-07 6.354370471 6.215888922 up GAIILAK ddPTM_HeLa_SAHA_4h_R1 2 GAIILAK 7 0 H0YEN5;P15880;I3L404;E9PM36;E9PMM9;E9PPT0 H0YEN5 RPS2 40S ribosomal protein S2 0 0 ; ; 140.79 2.48E-05 3203100 4820.2 4900.4 5375.8 5696 6026.6 5882.6 5944 4202.6 3960 5398.4 FALSE FALSE TRUE 5327.210752 5059.176175 6108.386028 5806.254317 5564.84321 5381.369385 5275.165476 4095.103577 3932.442038 5631.151443 0.946025126 0.898426588 1.084749023 1.031095394 0.988224747 0.955642809 0.93678274 0.72722313 0.698337112 1 12.45921424 -4.105069067 1.839196429 0.9809871 0.562584488 0.265263718 0.101090872 0.588773971 1.433424306 0.007113164 0.482386829 7.85E-05 4.105069067 -0.418402612 GAILS(ph)EEELAAMSPTAAAVAK ddPTM_HeLa_SAHA_4h_R1 1 GAILSEEELAAMSPTAAAVAK 21 0 P12270;P12270-2 P12270 TPR Nucleoprotein TPR 1 0 GAILS(0.771)EEELAAMS(0.229)PTAAAVAK 225.37 5.70E-34 11980000 2126.3 2563.8 1942.4 2579.9 2980.1 3115.2 3094.8 2291.1 3387.7 2573.4 TRUE FALSE FALSE 2349.95399 2646.868802 2207.100156 2629.837695 2751.765382 2849.767434 2746.564959 2232.496979 3364.12472 2684.351868 0.875426958 0.986036456 0.822209705 0.979691868 1.025113516 1.061622162 1.023176206 0.831670768 1.253235375 1 11.39035808 -6.019451305 24.86850125 0.9341383 0.994646995 0 0.12554609 1214.813387 1553139.461 0.011960968 0.02003525 9.56E-07 6.019451305 0.060508695 GAILSEEELAAMS(ph)PTAAAVAK ddPTM_HeLa_SAHA_4h_R1 2 GAILSEEELAAMSPTAAAVAK 21 0 P12270;P12270-2 P12270 TPR Nucleoprotein TPR 1 0 GAILSEEELAAMS(0.997)PT(0.003)AAAVAK;GAILS(0.005)EEELAAMS(0.861)PT(0.134)AAAVAK ; 178.57 2.28E-10 13951700 4463.5 4876.9 4626.6 5142.1 5739.9 6718.3 5406.5 5704.6 5957.4 5082.5 TRUE FALSE FALSE 4932.991409 5034.91476 5257.088954 5241.632781 5300.110102 6145.863044 4798.146391 5558.684592 5915.941968 5301.631448 0.930466679 0.949691583 0.991598342 0.98868298 0.999713042 1.159239963 0.905032052 1.048485668 1.115871978 1 12.37222067 -5.906873199 2.131277013 0.966481838 1.029227044 0 0.076713929 0.416444636 3.829348516 0.009214259 0.018657021 1.24E-06 5.906873199 0.062745206 GAK(ac)LTPEEEEILNK ddPTM_HeLa_SAHA_4h_R1 2 GAKLTPEEEEILNK 14 1 P62241;Q5JR95 P62241 RPS8 40S ribosomal protein S8 0 1 ; GAK(1)LTPEEEEILNK;GAK(1)LTPEEEEILNK 300.55 4.95E-118 5863900 1850.64 1797.82 1662.92 1467.15 2037.33 1830.79 2065.07 1817.49 2009.97 1512.07 FALSE TRUE FALSE 2045.298806 1856.070548 1889.534077 1495.54881 1881.230216 1674.796392 1832.702889 1771.001237 1995.982455 1577.262738 1.296739445 1.176766878 1.197983083 0.948192571 1.192718354 1.061837291 1.161951554 1.122832104 1.265472396 1 10.62320729 GAKAGVSAEPT(ph)T(ph)RTYDLNK ddPTM_HeLa_SAHA_4h_R1 1 GAKAGVSAEPTTRTYDLNK 19 2 Q13237-2;Q13237 Q13237-2 PRKG2 cGMP-dependent protein kinase 2 2 0 GAKAGVS(0.018)AEPT(0.94)T(0.368)RT(0.363)Y(0.311)DLNK 54.281 0.0079705 0 817.25 834.2 805.67 690.98 1174.2 869.68 806.24 759.98 623.14 575.94 TRUE FALSE FALSE 903.2121047 861.2286273 915.4625119 704.3549171 1084.23305 795.5783713 715.5197533 740.540812 618.803518 600.771592 1.50342013 1.433537535 1.523811252 1.172417149 1.804734219 1.32426097 1.19100131 1.232649516 1.030014612 1 9.230672785 -9.339492251 1.014629452 0.995270881 1.406569445 0.419427354 0.179597398 0.42630303 0.771334916 0.12820508 0.032151262 4.58E-10 9.339492251 0.411298564 GAKEEHGGLIRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 GAKEEHGGLIRSPR 14 2 P26368;P26368-2 P26368 U2AF2 Splicing factor U2AF 65 kDa subunit 1 0 GAKEEHGGLIRS(1)PR;GAKEEHGGLIRS(1)PR;GAKEEHGGLIRS(1)PR ;; 65.652 0.013834 855710000 20215.7 14654.6 18373.3 18928 18304.5 17773 20098.9 17818 14583 17769 TRUE FALSE FALSE 22342.08008 15129.41866 20877.11764 19294.37881 16902.01316 16258.64041 17837.31887 17362.24136 14481.51572 18535.10855 1.205392459 0.816257354 1.126355294 1.040963896 0.911891782 0.87718075 0.962353084 0.93672186 0.78130191 1 14.17797294 -6.026343599 1.105768259 1.082367751 0.917722258 0 0.138717744 0.504382392 1.217105916 0.019463749 0.046297016 9.41E-07 6.026343599 -0.164645493 GAKKT(ph)S(ph)H ddPTM_HeLa_SAHA_4h_R1 1 GAKKTSH 7 2 P78383;P78383-2 P78383 SLC35B1 Solute carrier family 35 member B1 2 0 GAKKT(1)S(1)H 132.8 0.0033734 54253000 2015.1 1811.9 2349.1 2232.8 2160 2605.5 2160.5 2164.8 2155.8 1939.7 TRUE FALSE FALSE 2227.057464 1870.606749 2669.223114 2276.019073 1994.501267 2383.496742 1917.394854 2109.427551 2140.797612 2023.32996 1.100689214 0.92451888 1.319222849 1.124887744 0.985751858 1.178006944 0.947643188 1.042552422 1.058056597 1 10.98251589 -2.697062573 13.11302643 1.060317304 0.688406613 0 0.112844016 0 0 0.014194352 0 0.002008803 2.697062573 -0.371910691 GALALEEK ddPTM_HeLa_SAHA_4h_R1 2 GALALEEK 8 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ; ; 121.62 0.0097806 6656030 3851.36 3432.97 3020.6 3626.3 3382.89 3436.35 3939.7 3716.1 3586.54 3548.09 FALSE FALSE TRUE 4256.463715 3544.20048 3432.231637 3696.49228 3123.693699 3143.553648 3496.394587 3621.047543 3561.580976 3701.065524 1.150064404 0.957616248 0.927363111 0.998764344 0.843998486 0.849364494 0.944699456 0.978379745 0.962312327 1 11.85372496 -7.085473501 5.766619707 1.070683645 0.922632929 0.337741465 0.066390748 0.145873932 7.765386212 0.012011069 0.014807859 8.21E-08 7.085473501 -0.148050716 GALHT(ph)VSHEDIR ddPTM_HeLa_SAHA_4h_R1 1 GALHTVSHEDIR 12 0 A0A2R8Y7R9;Q13136-2;Q13136;H0YDW2;H0YD72 A0A2R8Y7R9 PPFIA1 Liprin-alpha-1 1 0 GALHT(0.764)VS(0.236)HEDIR 116.98 0.0019208 95446000 4468.7 4626.7 3771.9 5128.9 5677.4 2984.4 5479.4 5624.7 6378.5 4487.3 TRUE FALSE FALSE 4938.738369 4776.608116 4285.914889 5228.177276 5242.398839 2730.11233 4862.843491 5480.828318 6334.111499 4680.769463 1.0551125 1.020474978 0.915643234 1.116948253 1.119986549 0.583261438 1.038898311 1.170924644 1.353220138 1 12.19253 GALHTVS(ph)HEDIR ddPTM_HeLa_SAHA_4h_R1 1 GALHTVSHEDIR 12 0 A0A2R8Y7R9;Q13136-2;Q13136;H0YDW2;H0YD72 A0A2R8Y7R9 PPFIA1 Liprin-alpha-1 1 0 GALHT(0.229)VS(0.771)HEDIR 110.92 0.0022939 87358000 4156.7 4117.7 3443.8 4942.1 5069.7 2275.1 4415.5 4600.5 5968.7 4752.7 TRUE FALSE FALSE 4593.920778 4251.116182 3913.103129 5037.761492 4681.260681 2081.248681 3918.656319 4482.825871 5927.163331 4957.612156 0.926639808 0.85749269 0.789312073 1.016166923 0.944257141 0.419808693 0.790432207 0.904230854 1.195568178 1 12.2754297 -6.455918871 0.406866466 0.991992088 0.726863671 0.296264567 0.160872787 1.439662457 0.493872345 0.061072421 0.151808129 3.50E-07 6.455918871 -0.265128417 GALHTVS(ph)HEDIRDIR ddPTM_HeLa_SAHA_4h_R1 1 GALHTVSHEDIRDIR 15 1 A0A2R8Y7R9;Q13136-2;Q13136;H0YDW2;H0YD72 A0A2R8Y7R9 PPFIA1 Liprin-alpha-1 1 0 GALHT(0.029)VS(0.971)HEDIRDIR 62.732 0.014712 31371000 1113.2 585.37 1142.9 870.47 980.31 611.39 1088.6 821.93 519.52 884.62 TRUE FALSE FALSE 1230.291484 604.3363721 1298.64846 887.3192056 905.1988596 559.2961324 966.107863 800.9062207 515.904618 922.7602974 1.333273101 0.654922382 1.407351902 0.96159231 0.980968581 0.606112047 1.046975976 0.867946121 0.559088443 1 9.849812122 -5.875029202 2.78435367 1.133669479 0.86238602 0 0.284733532 0.301887122 4.734748655 0.033589492 0.065883587 1.33E-06 5.875029202 -0.271283459 GALPPS(ph)PALPRPSR ddPTM_HeLa_SAHA_4h_R1 4 GALPPSPALPRPSR 14 1 Q8N3V7-2;Q8N3V7-3;Q8N3V7 Q8N3V7-2 SYNPO Synaptopodin 1 0 GALPPS(1)PALPRPSR;GALPPS(1)PALPRPSR;GALPPS(1)PALPRPSR;GALPPS(1)PALPRPSR ;;; 122.96 0.0004764 41896700 5985.4 6593.5 5730.6 5286.6 6905.5 6762.7 5828.1 5877.9 6656.6 6218.7 TRUE FALSE FALSE 6614.971834 6807.133726 6511.536324 5388.929788 6376.402082 6186.479914 5172.306849 5727.551829 6610.276179 6486.818591 1.019755947 1.049379389 1.003810456 0.830750808 0.982978326 0.953700158 0.797356482 0.882952367 1.01903207 1 12.66329538 -6.347430402 7.556198449 1.013098142 0.893331153 0.608998528 0.05151148 0.158800847 12.40127855 0.007928905 0.012131429 4.49E-07 6.347430402 -0.119766989 GALQNIIPAS(ph)TGAAK ddPTM_HeLa_SAHA_4h_R1 2 GALQNIIPASTGAAK 15 0 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 1 0 GALQNIIPAS(0.934)T(0.066)GAAK;GALQNIIPAS(0.969)T(0.031)GAAK ; 218.21 7.28E-18 41979000 10983.3 10118 7959.9 10989.6 11276.9 13922.6 10546.1 11136.2 13410.2 10896.9 TRUE FALSE FALSE 12138.57389 10445.82984 9044.633719 11202.3196 10412.86636 12736.31615 9359.425072 10851.35213 13316.87733 11366.71869 1.067904839 0.918983757 0.795711935 0.985536803 0.916083757 1.120491894 0.823406062 0.954660041 1.171567424 1 13.47252822 -7.2527216 24.54530048 1.032066174 0.930225119 0.303519465 0.095635558 531.2289892 1495699.196 0.013895354 0.01687825 5.59E-08 7.2527216 -0.101841054 GALQNIIPASTGAAK ddPTM_HeLa_SAHA_4h_R1 7 GALQNIIPASTGAAK 15 0 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ;;;;;; ;;;;;; 266.78 3.53E-69 139891800 19246.18 17559.66 17094.37 20006.89 19052.5 21008.3 21416.9 19736.74 21317.5 18419.6 FALSE FALSE TRUE 21270.58152 18128.60451 19423.90172 20394.15229 17592.70157 19218.27465 19007.01405 19231.90277 21169.14978 19213.7591 1.107049454 0.943522005 1.01093709 1.061434786 0.915630381 1.000235017 0.989239739 1.000944306 1.101770334 1 14.22985218 -7.255697013 24.98948826 1.050551131 0.990127194 0.365861999 0.046723117 523.4076419 2277753.41 0.008713464 0.010521344 5.55E-08 7.255697013 -0.060423937 GALQNIIPASTGAAK(ac)AVGK ddPTM_HeLa_SAHA_4h_R1 1 GALQNIIPASTGAAKAVGK 19 1 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 1 GALQNIIPASTGAAK(1)AVGK 266.45 3.23E-88 1171300 675.98 458.76 473.27 745.11 694.83 784.41 857.4 537.52 660.48 593.02 FALSE TRUE FALSE 747.0826779 473.624125 537.7647709 759.5326815 641.5922755 717.573855 760.9230954 523.7710167 655.8836659 618.5879944 1.207722563 0.7656536 0.869342399 1.22784905 1.037188373 1.160019046 1.230096773 0.846720307 1.060291619 1 9.272835023 -4.231107605 22.64636262 1.077825098 0.846718954 0.153144971 0.147734442 4615.173575 3445585.872 0.021503329 2.800574811 5.87E-05 4.231107605 -0.231106144 GANDFMCDEMER ddPTM_HeLa_SAHA_4h_R1 6 GANDFMCDEMER 12 0 P17987;E7EQR6;F5H282;E7ERF2;F5GZ03 P17987 TCP1 T-complex protein 1 subunit alpha 0 0 ;;;;; ;;;;; 308.21 7.89E-96 115990800 6778.4 6903.87 6671.91 5868.63 7667.25 7890.4 7925.9 6790.73 6548.93 6773.36 FALSE FALSE TRUE 7491.383212 7127.559918 7581.123149 5982.22582 7079.786961 7218.09353 7034.056872 6617.032959 6503.355463 7065.392698 1.060292546 1.008798834 1.072993883 0.84669403 1.002037291 1.021612505 0.995564886 0.936541427 0.920452088 1 12.78655403 GANPVEIRR ddPTM_HeLa_SAHA_4h_R1 3 GANPVEIRR 9 1 P10809;E7EXB4;E7ESH4;P10809-2 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ;; ;; 131.62 0.0038098 10274770 7057.9 6766.25 10532.3 5828.94 8486.81 4085.2 9296.15 6449.13 2477.53 6295.74 FALSE FALSE TRUE 7800.282305 6985.480939 11967.58699 5941.767562 7836.552451 3737.117977 8250.122736 6284.170593 2460.288667 6567.180162 1.187767369 1.063695645 1.822332675 0.90476695 1.19329031 0.569059762 1.256265632 0.956905466 0.374633953 1 12.68105832 GAPANVS(ph)SSDLTGR ddPTM_HeLa_SAHA_4h_R1 1 GAPANVSSSDLTGR 14 0 H0Y5S9;H0Y682;P49674 H0Y5S9 CSNK1E Casein kinase I isoform epsilon 1 0 GAPANVS(0.643)S(0.175)S(0.175)DLT(0.006)GR 134.37 0.00037167 7217100 509 325.64 283 581.42 388.24 576.23 407.53 660.54 596.3 542.77 TRUE FALSE FALSE 562.5389554 336.1909497 321.5657662 592.6742248 358.4931351 527.1319622 361.6736518 643.6443433 592.1502997 566.171471 0.993584072 0.593797051 0.56796533 1.046810472 0.633188272 0.931046493 0.638805857 1.136836411 1.04588509 1 9.145095244 -7.380936651 12.56383939 0.997160561 0.787060213 0.227254669 0.185455731 0.688362227 69.0590958 0.028911992 0.033049752 4.16E-08 7.380936651 -0.210100349 GAPSITSVT(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 GAPSITSVTPR 11 0 H7C3L4;E7EQA9;Q92844 H7C3L4 TANK TRAF family member-associated NF-kappa-B activator 1 0 GAPSITSVT(1)PR 152.64 0.00074323 3778800 1358.9 1465.1 1460 1311.8 1896.6 1936.6 1649.9 1422.4 1678.3 1501.9 TRUE FALSE FALSE 1501.835337 1512.570201 1658.961197 1337.191786 1751.282918 1771.590785 1464.24891 1386.017068 1666.620574 1566.654259 0.958625892 0.965477988 1.058919788 0.853533432 1.117849013 1.130811584 0.934634366 0.884698752 1.063808791 1 10.61347111 GAPSS(ph)PATGVLPS(ph)PQGK ddPTM_HeLa_SAHA_4h_R1 1 GAPSSPATGVLPSPQGK 17 0 Q5SRE5-2;Q5SRE5 Q5SRE5-2 NUP188 Nucleoporin NUP188 homolog 2 0 GAPS(0.202)S(0.798)PAT(0.004)GVLPS(0.996)PQGK 149.95 3.38E-09 0 1111.2 1321.3 985.55 1431 1466.7 1498.9 1436.8 1823.8 1229.1 1316.2 TRUE FALSE FALSE 1228.081114 1364.110987 1119.855621 1458.699074 1354.321763 1371.185287 1275.127483 1777.149837 1220.546593 1372.947823 0.894484913 0.993563604 0.815657815 1.062457764 0.986433526 0.99871624 0.928751596 1.294404497 0.888997071 1 10.42306108 -4.258705203 24.85944593 0.955238315 1.294404629 0.695644602 0.067893345 98.49419766 895465.5394 0.009019242 0.083404354 5.51E-05 4.258705203 0.339166314 GAPSS(ph)PATGVLPSPQGK ddPTM_HeLa_SAHA_4h_R1 4 GAPSSPATGVLPSPQGK 17 0 Q5SRE5-2;Q5SRE5 Q5SRE5-2 NUP188 Nucleoporin NUP188 homolog 1 0 GAPS(0.001)S(0.986)PAT(0.013)GVLPSPQGK;GAPS(0.497)S(0.501)PAT(0.002)GVLPSPQGK;GAPS(0.226)S(0.769)PAT(0.005)GVLPSPQGK;GAPS(0.003)S(0.996)PAT(0.001)GVLPSPQGK ;;; 222.42 2.39E-21 50331100 6148.98 6655.64 6606.68 6857.8 8264.08 8771.42 9157 8975.68 7319.19 7521.91 TRUE FALSE FALSE 6795.757929 6871.287103 7507.003944 6990.542636 7630.887976 8024.045669 8126.63026 8746.095102 7268.255161 7846.216351 0.866119111 0.875745301 0.956767391 0.890944415 0.972556406 1.02266434 1.035738743 1.114689515 0.926338866 1 12.9377814 -4.885685915 1.150746175 0.928971308 1.111624742 0.713274122 0.040354299 0.424345952 0.835349849 0.008679933 0.071132512 1.30E-05 4.885685915 0.182653434 GAPTTSLISVAVTK ddPTM_HeLa_SAHA_4h_R1 1 GAPTTSLISVAVTK 14 0 A0A0J9YWF7;A0A1B0GUY0;A0A1B0GV49;A0A1B0GTY9;A0A1B0GTJ4;A0A1B0GUA1;A0A1B0GTG2;A0A1B0GW82;A0A1B0GW77;P49419-4;P49419-2;P49419;A0A1B0GVU0;H0YHM6 A0A0J9YWF7 ALDH7A1 Alpha-aminoadipic semialdehyde dehydrogenase 0 0 134.18 0.00081197 813290 153.7 136.19 101.28 47.201 150.57 114.71 58.329 54.311 0 105.54 FALSE FALSE TRUE 169.8668712 140.6026454 115.081911 48.11464361 139.0333591 104.9360627 51.76566741 52.92180326 0 110.0903459 1.542976996 1.277156904 1.045340625 0.437046893 1.262902373 0.953181333 0.47021078 0.480712481 0 1 6.782544151 -6.511731673 5.046582388 1.262214316 0.747225678 0 0.479037793 0.148482386 10.95562468 0.04870867 0.072314776 3.08E-07 6.511731673 -0.514988638 GAPVIVPELGK(ac)PR ddPTM_HeLa_SAHA_4h_R1 1 GAPVIVPELGKPR 13 1 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6 C9JE98 NCOR2 Nuclear receptor corepressor 2 0 1 GAPVIVPELGK(1)PR 148.56 7.77E-05 679760 64.058 59.461 0 151.43 125.91 0 145.43 0 155.99 72.083 FALSE TRUE FALSE 70.79591435 61.38757541 0 154.3611466 116.262803 0 129.0658336 0 154.9044529 75.1908509 0.941549584 0.81642347 0 2.052924588 1.546236033 0 1.716509816 0 2.060150285 1 6.232485223 -4.224807121 23.21789632 0.97932928 2.47E-06 0.155846256 0.716391239 9637.817386 6108256.747 0.078765967 21.72531682 5.96E-05 4.224807121 -0.979326806 GAPVNIS(ph)SSDLTGR ddPTM_HeLa_SAHA_4h_R1 1 GAPVNISSSDLTGR 14 0 H7BYT1;P48730-2;P48730;J3KRM8 H7BYT1 CSNK1D Casein kinase I isoform delta 1 0 GAPVNIS(0.417)S(0.249)S(0.084)DLT(0.249)GR 75.998 0.020884 19288000 1153.9 1076.3 942.77 1007.4 881.21 1115.1 963.4 1025.2 1186.3 1185.7 TRUE FALSE FALSE 1275.272496 1111.172826 1071.245786 1026.899684 813.6918802 1020.087207 854.9956965 998.9768685 1178.044442 1236.82133 1.031088699 0.898410142 0.866128163 0.830273265 0.657889592 0.824765212 0.691284728 0.807696993 0.952477463 1 10.27242139 -6.667857662 1.224066847 1.015513461 0.749653293 0.758680204 0.056642411 0.113251158 0.340732855 0.00891321 0.014098633 2.15E-07 6.667857662 -0.265860168 GAPVNISSS(ph)DLTGR ddPTM_HeLa_SAHA_4h_R1 1 GAPVNISSSDLTGR 14 0 H7BYT1;P48730-2;P48730;J3KRM8 H7BYT1 CSNK1D Casein kinase I isoform delta 1 0 GAPVNIS(0.097)S(0.081)S(0.822)DLTGR 196.37 2.84E-09 17190000 857.59 514.31 520.67 738.68 627.59 572.58 554.82 701.89 575.14 736.98 TRUE FALSE FALSE 947.795251 530.9739815 591.6241961 752.9782195 579.5041898 523.7929628 492.3901934 683.9366701 571.1375539 768.7548145 1.23289667 0.690693536 0.76958763 0.979477729 0.753821867 0.681352432 0.640503557 0.889668145 0.742938507 1 9.58637973 -7.257025911 24.98857505 1.109978984 0.770771453 0.191799514 0.158519484 182.3068882 1032201.998 0.021302239 0.025617372 5.53E-08 7.257025911 -0.339207531 GAQASSGS(ph)PALPR ddPTM_HeLa_SAHA_4h_R1 3 GAQASSGSPALPR 13 0 P42684-2;P42684-6;P42684-3;P42684;P42684-4;P42684-7;P42684-10;P42684-5 P42684-2 ABL2 Abelson tyrosine-protein kinase 2 1 0 GAQAS(0.003)S(0.011)GS(0.985)PALPR;GAQAS(0.047)S(0.188)GS(0.765)PALPR;GAQAS(0.024)S(0.208)GS(0.768)PALPR ;; 130.47 0.00072269 61758300 8178.6 7884.4 7228.3 8540.3 8702.2 11693.8 8905.9 11814.9 10027.4 9863.7 TRUE FALSE FALSE 9038.862673 8139.859733 8213.335081 8705.609856 8035.439316 10697.42245 7903.784693 11512.69197 9957.618507 10288.97238 0.878500043 0.791124656 0.79826583 0.846110723 0.780975886 1.039697849 0.768180184 1.118935064 0.967795241 1 13.32881128 -8.892982543 0.942537264 0.993487661 0.871619257 0.124084719 0.110399557 0.694297584 1.199750544 0.050128774 0.019957577 1.28E-09 8.892982543 -0.121868404 GAQPGRHS(ph)VTGYGDCAVGAR ddPTM_HeLa_SAHA_4h_R1 3 GAQPGRHSVTGYGDCAVGAR 20 1 Q96IF1;H0YJL9 Q96IF1 AJUBA LIM domain-containing protein ajuba 1 0 GAQPGRHS(0.974)VT(0.025)GY(0.001)GDCAVGAR;GAQPGRHS(0.943)VT(0.057)GYGDCAVGAR;GAQPGRHS(0.903)VT(0.093)GY(0.004)GDCAVGAR ;; 124.45 0.00057074 50518900 2252.06 1884.21 1657.82 1596.19 1927.09 2062.05 1961.51 1858.22 2523.56 1853.09 TRUE FALSE FALSE 2488.942004 1945.25964 1883.739076 1627.086566 1779.436781 1886.351739 1740.795732 1810.689423 2505.99834 1932.985779 1.287615269 1.006349691 0.974522988 0.84174782 0.920563824 0.975874608 0.900573481 0.936731891 1.296439099 1 10.91661531 -6.96769982 3.629854137 1.136426564 0.923178194 0.621720208 0.090212741 0.160138516 4.505222192 0.018444397 0.024113182 1.08E-07 6.96769982 -0.21324837 GAS(ph)KEVIAS(ph)IIS(ph)RYPR ddPTM_HeLa_SAHA_4h_R1 1 GASKEVIASIISRYPR 16 2 C9JNM8;C9JE25;B4DPR9;Q99551 C9JNM8 MTERF1 "Transcription termination factor 1, mitochondrial" 3 0 GAS(1)KEVIAS(1)IIS(0.641)RY(0.359)PR 78.342 0.0036407 0 195.55 197.02 0 289.74 178.19 114.7 251.04 184.9 187.66 111.78 TRUE FALSE FALSE 216.1188462 203.4035773 0 295.3483367 164.5371207 104.9269147 222.7923185 180.1705257 186.3540588 116.5993828 1.85351621 1.744465299 0 2.53301801 1.411132003 0.899892539 1.910750409 1.545209943 1.59824224 1 6.865416342 -9.606287949 1.424152255 1.00145543 1.526862888 0 0.66182606 0.854747068 3.125294483 0.422902073 0.098671852 2.48E-10 9.606287949 0.525407458 GAS(ph)PDMAPILEPVDR ddPTM_HeLa_SAHA_4h_R1 4 GASPDMAPILEPVDR 15 0 E9PDC2;A0A088AWP5;Q8WUY3-4;Q8WUY3;Q8WUY3-2;Q8WUY3-3;H7BZH9 E9PDC2 PRUNE2 Protein prune homolog 2 1 0 GAS(1)PDMAPILEPVDR;GAS(1)PDMAPILEPVDR;GAS(1)PDMAPILEPVDR;GAS(1)PDMAPILEPVDR ;;; 204.67 1.27E-12 24157200 3468.19 3995.19 3079.71 3888.09 4401.77 4907.51 3902.52 3843.57 3744.94 3298.58 TRUE FALSE FALSE 3832.990137 4124.636777 3499.39684 3963.349604 4064.507334 4489.362539 3463.398179 3745.257045 3718.878658 3440.797927 1.113982924 1.198744264 1.017030618 1.151869331 1.181268828 1.304744607 1.006568317 1.088485033 1.080818675 1 11.74852745 -8.852805868 0.566758624 0.989540072 1.139142346 0.129293119 0.086138193 1.039736458 0.589647098 0.07787583 0.021285854 1.40E-09 8.852805868 0.149602273 GAS(ph)PDMAPILEPVDRR ddPTM_HeLa_SAHA_4h_R1 2 GASPDMAPILEPVDRR 16 1 E9PDC2;A0A088AWP5;Q8WUY3-4;Q8WUY3;Q8WUY3-2;Q8WUY3-3;H7BZH9 E9PDC2 PRUNE2 Protein prune homolog 2 1 0 GAS(1)PDMAPILEPVDRR;GAS(1)PDMAPILEPVDRR ; 200.9 2.05E-15 10238300 1749.51 2167.99 1867.61 2138.59 2124.3 2659.8 2067.04 2181.71 2087.32 1914.63 TRUE FALSE FALSE 1933.531489 2238.234298 2122.118165 2179.985502 1961.536593 2433.170076 1834.451219 2125.905017 2072.79417 1997.179069 0.96813126 1.120697855 1.062557783 1.091532319 0.98215359 1.218303413 0.918521152 1.064453884 1.037860952 1 10.96374798 -7.281531865 24.70645242 0.98495087 1.063374166 0.113570415 0.076793115 786.8885783 967584.2705 0.0117509 0.013446348 5.23E-08 7.281531865 0.078423296 GAS(ph)PLGPGSAAGSGAAASGGLGLGLGGR ddPTM_HeLa_SAHA_4h_R1 4 GASPLGPGSAAGSGAAASGGLGLGLGGR 28 0 B4E1M0;E9PPE2;A0A6I8PS01;Q6P1R3-3;Q6P1R3 B4E1M0 MSANTD2 Myb/SANT-like DNA-binding domain-containing protein 2 1 0 GAS(0.703)PLGPGS(0.295)AAGS(0.002)GAAASGGLGLGLGGR;GAS(0.979)PLGPGS(0.02)AAGS(0.001)GAAASGGLGLGLGGR;GAS(0.985)PLGPGS(0.014)AAGS(0.001)GAAAS(0.001)GGLGLGLGGR;GAS(1)PLGPGSAAGSGAAASGGLGLGLGGR ;;; 134.42 2.81E-10 11325000 908.91 582.04 1238.68 1117.218 1427.14 1529.41 1096.92 1245.76 1283.58 1109.823 TRUE FALSE FALSE 1004.513324 600.8984779 1407.48086 1138.84337 1317.792842 1399.095664 973.4916747 1213.895263 1274.647462 1157.672901 0.867700473 0.51905722 1.215784578 0.983735016 1.138311902 1.208541431 0.840903915 1.048564981 1.101042843 1 10.17701196 GAS(ph)PPISAIEEFSIIPEAPMR ddPTM_HeLa_SAHA_4h_R1 3 GASPPISAIEEFSIIPEAPMR 21 0 A0A2R8YFR7;Q12774;A0A2R8YF49;C9J591;A0A5F9ZGZ6;A0A5F9ZH52 A0A2R8YFR7 ARHGEF5 Rho guanine nucleotide exchange factor 5 1 0 GAS(0.958)PPIS(0.042)AIEEFSIIPEAPMR;GAS(0.997)PPIS(0.003)AIEEFSIIPEAPMR;GAS(1)PPISAIEEFSIIPEAPMR ;; 263.08 5.49E-54 132900000 2158.29 2345.74 2245.34 2285.47 2737.68 2896.37 2562.46 2631.49 2407.84 2262.12 TRUE FALSE FALSE 2385.308845 2421.743515 2551.323242 2329.708577 2527.91955 2649.582981 2274.125257 2564.180296 2391.083645 2359.651064 1.010873549 1.026314251 1.081229035 0.987310629 1.07131075 1.122870674 0.963754892 1.086677745 1.01332086 1 11.20435782 -7.086000702 3.319680045 1.005100726 1.04958566 0.163736838 0.044360417 0.310370066 6.561817598 0.006976792 0.008756205 8.20E-08 7.086000702 0.044484934 GAS(ph)S(ph)S(ph)SGVVVQVREKK ddPTM_HeLa_SAHA_4h_R1 1 GASSSSGVVVQVREKK 16 2 F8WD64;Q69YW2 F8WD64 C1orf95 Protein stum homolog 3 0 GAS(0.984)S(0.984)S(0.984)S(0.048)GVVVQVREKK 64.439 0.0071717 0 0 195.9 0 175.16 254.04 246.52 212.98 183.46 202.14 0 TRUE FALSE FALSE 0 202.2472885 0 178.5504751 234.5755101 225.5151091 189.0149299 178.7673588 200.7332913 0 0 GASAATGIPLES(ph)DEDSNDNDNDIENENCMHTN ddPTM_HeLa_SAHA_4h_R1 1 GASAATGIPLESDEDSNDNDNDIENENCMHTN 32 0 Q9Y4E8;Q9Y4E8-2;Q9Y4E8-3 Q9Y4E8 USP15 Ubiquitin carboxyl-terminal hydrolase 15 1 0 GASAAT(0.004)GIPLES(0.498)DEDS(0.498)NDNDNDIENENCMHTN 125.62 2.79E-12 5785700 1028.8 1236 1251.1 1326.7 1604.1 1277.5 1316.8 1245.4 1505.8 1033.8 TRUE FALSE FALSE 1137.013904 1276.047211 1421.593393 1352.380197 1481.194205 1168.649813 1168.630198 1213.544471 1495.321015 1078.372177 1.054379859 1.183308729 1.318277143 1.254094111 1.373546384 1.083716585 1.083698396 1.125348462 1.386646509 1 10.07463946 -7.29787058 3.130955796 1.023047925 1.208398692 0 0.145722561 0.179303488 3.462612746 0.017104178 0.019949076 5.04E-08 7.29787058 0.185350767 GASDEEIK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 GASDEEIKR 9 1 P25685 P25685 DNAJB1 DnaJ homolog subfamily B member 1 0 1 GASDEEIK(1)R 104.2 0.0029902 460190 312.6 564.93 304.45 358.47 599.82 559.25 938.94 516.24 638.15 430.86 FALSE TRUE FALSE 345.4807023 583.2341027 345.9388605 365.4087052 553.8619212 511.5987537 833.288 503.0353283 633.7090622 449.4364832 0.768697503 1.297700842 0.769716909 0.813037479 1.232347488 1.138311581 1.854072892 1.119257887 1.410008057 1 8.81197343 -5.332203238 1.804072971 0.90930541 1.464268001 0.195424174 0.286207917 0.222810127 1.385698387 0.033353458 0.104031107 4.65E-06 5.332203238 0.554962591 GASIVEDKLVEDLR ddPTM_HeLa_SAHA_4h_R1 1 GASIVEDKLVEDLR 14 1 P00367 P00367 GLUD1 "Glutamate dehydrogenase 1, mitochondrial" 0 0 119.21 0.0014604 1637900 941.95 1713.7 1363.4 1085.4 1387.7 956.45 1388.9 1379.6 645.32 1530.6 FALSE FALSE TRUE 1041.028623 1769.225004 1549.197052 1106.409487 1281.374726 874.9550792 1232.617317 1344.31183 640.8291656 1596.591657 0.652031857 1.108126174 0.970315137 0.69298213 0.802568848 0.548014313 0.772030413 0.84198851 0.40137324 1 10.64077966 -6.241495215 24.49651776 0.865455084 0.727520337 0.035360404 0.200758651 1025.718278 1259842.979 0.025678772 0.042542638 5.73E-07 6.241495215 -0.137934747 GASPLGPGS(ph)AAGSGAAASGGLGLGLGGR ddPTM_HeLa_SAHA_4h_R1 1 GASPLGPGSAAGSGAAASGGLGLGLGGR 28 0 B4E1M0;E9PPE2;A0A6I8PS01;Q6P1R3-3;Q6P1R3 B4E1M0 MSANTD2 Myb/SANT-like DNA-binding domain-containing protein 2 1 0 GAS(0.028)PLGPGS(0.972)AAGS(0.001)GAAASGGLGLGLGGR 128.99 2.27E-09 3607700 734.49 632.67 542.31 418.03 540.06 568.93 568.53 567.24 637.77 758.48 TRUE FALSE FALSE 811.7470282 653.1689231 616.2131826 426.1215751 498.6807195 520.4539633 504.5575081 552.7308222 633.3317066 791.1817847 1.02599307 0.825561124 0.778851579 0.538588708 0.630298535 0.657818435 0.637726396 0.698614191 0.80048823 1 9.627865401 -6.871127531 1.722269128 1.013179305 0.636788404 0.695651516 0.083601888 0.061165196 0.36639976 0.008429689 0.011682953 1.35E-07 6.871127531 -0.376390901 GASQAGMTGY(ph)GRPR ddPTM_HeLa_SAHA_4h_R1 3 GASQAGMTGYGRPR 14 1 Q01995;H0YCU9 Q01995 TAGLN Transgelin 1 0 GASQAGMT(0.289)GY(0.711)GRPR;GASQAGMT(0.251)GY(0.749)GRPR;GASQAGMT(0.002)GY(0.998)GRPR ;; 82.925 0.0058663 1188410 177.61 290.19 114.91 139.8 732.06 336.4 519.67 211.07 312.844 324.217 TRUE FALSE FALSE 196.2918347 299.5923464 130.5693364 142.5060312 675.969721 307.7368275 461.1953639 205.671135 310.6668931 338.1955815 0.580409223 0.885855294 0.386076411 0.421371653 1.998753851 0.909937457 1.363694232 0.608142584 0.918601277 1 8.401714001 GASQAGMTGYGMPR ddPTM_HeLa_SAHA_4h_R1 4 GASQAGMTGYGMPR 14 0 P37802;P37802-2;C9J5W6;Q9UI15 P37802 TAGLN2;TAGLN3 Transgelin-2;Transgelin-3 0 0 ;;; ;;; 155.86 2.29E-06 17588300 902.5 575.68 646.16 615.78 967.11 1006.6 817.79 972.12 981.86 632.56 FALSE FALSE TRUE 997.4290908 594.3324097 734.2153197 627.6993123 893.0102407 920.832017 725.7701169 947.254578 975.0271563 659.8327573 1.511639245 0.900731895 1.112729418 0.951300622 1.353388765 1.395553656 1.099930413 1.435597987 1.477688317 1 9.365956592 -9.771425668 1.743866778 0.999629483 1.259942932 0 0.247007237 0.545265477 2.999231759 0.159063045 0.033789856 1.69E-10 9.771425668 0.26031345 GASSAGEAS(ph)EK ddPTM_HeLa_SAHA_4h_R1 1 GASSAGEASEK 11 0 C9JJX6;E9PDC3;O00192-2;O00192 C9JJX6 ARVCF Armadillo repeat protein deleted in velo-cardio-facial syndrome 1 0 GAS(0.004)S(0.003)AGEAS(0.993)EK 87.001 0.017781 7144200 2279.8 2197.5 2234.7 2293.4 2414.1 2409.2 2359.4 2070.6 2647.3 2409.1 TRUE FALSE FALSE 2519.599824 2268.700442 2539.233278 2337.792073 2229.13218 2203.922606 2093.914102 2017.63705 2628.877224 2512.968091 1.002639004 0.902797155 1.010451859 0.930291189 0.887051526 0.877019734 0.83324341 0.80289004 1.046124395 1 11.29517664 -5.045826006 0.454447896 1.004256607 0.736850853 0.830686851 0.032147512 0.653058713 0.142709066 0.007085322 0.082998027 9.00E-06 5.045826006 -0.267405754 GASSPGILVLTTGLSKPFMR ddPTM_HeLa_SAHA_4h_R1 1 GASSPGILVLTTGLSKPFMR 20 1 E9PDQ5;B1ALK7;A0A2R8YG42;Q14155-6;Q14155-1;Q14155-5;Q14155-2;Q14155-3;Q14155;E7EUY6 E9PDQ5 ARHGEF7 Rho guanine nucleotide exchange factor 7 0 0 78.848 0.00388 498400 0 0 0 0 58.556 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 54.06945193 0 0 0 0 0 0 GATPGK(ac)ALVATPGK ddPTM_HeLa_SAHA_4h_R1 2 GATPGKALVATPGK 14 1 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 ; GATPGK(1)ALVATPGK;GATPGK(1)ALVATPGK 182.37 4.52E-16 46339000 4475.6 4056.5 4100.3 4759.4 5239.6 6498.4 6423.1 5996.3 4182.5 4017.9 FALSE TRUE FALSE 4946.364143 4187.933262 4659.067531 4851.525069 4838.14298 5944.699761 5700.355883 5842.923329 4153.393642 4191.131332 1.180197839 0.999236943 1.111649138 1.157569325 1.154376372 1.41839978 1.360099561 1.394116019 0.990995823 1 12.03312401 -5.417777923 2.062579692 1.085069083 1.394399561 0.821988872 0.065584728 0.119011567 0.98303694 0.011289963 0.030823242 3.82E-06 5.417777923 0.309330478 LIFAK(ac)PINSK ddPTM_HeLa_SAHA_4h_R1 2 LIFAKPINSK 10 1 Q6MZP7;Q6MZP7-3;D6REW4 Q6MZP7 LIN54 Protein lin-54 homolog 0 1 ; LIFAK(1)PINSK;LIFAK(1)PINSK 101.97 0.0085436 3601500 943.34 1169.56 1765.31 2873.4 3275.3 3627.8 3796.2 3999.3 1225.53 865.98 FALSE TRUE FALSE 1042.564829 1207.454511 2005.877253 2929.018812 3024.347222 3318.691031 3369.041585 3897.003697 1217.001437 903.3166358 1.154152141 1.336690219 2.220569371 3.242516185 3.348047741 3.673895619 3.72963527 4.314105976 1.347258966 1 9.819087968 -6.345482985 1.038804629 1.038559114 3.898454808 0.969275782 0.209311687 0.046502639 0.099567592 0.032928016 0.06529778 4.51E-07 6.345482985 2.859895695 up GATQQILDEAER ddPTM_HeLa_SAHA_4h_R1 4 GATQQILDEAER 12 0 P78371;F5GWF6;P78371-2;F8VQ14 P78371 CCT2 T-complex protein 1 subunit beta 0 0 ;;; ;;; 179.6 0.00015111 22887600 4170.24 4223.54 4267.2 4505.82 4692.46 4896.8 4568.62 4996.62 5055.45 4052.77 FALSE FALSE TRUE 4608.884977 4360.385467 4848.711793 4593.036662 4332.924729 4479.565091 4054.546854 4868.813695 5020.268712 4227.504748 1.090214027 1.031432423 1.146944139 1.086465169 1.024936691 1.059623905 0.959087475 1.151699167 1.187525269 1 12.04559066 GATVYS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 GATVYSPSR 9 0 E7EWN3;Q9C0A6;H0Y3R4;Q9C0A6-2;Q9C0A6-3 E7EWN3 SETD5 SET domain-containing protein 5 1 0 GAT(0.015)VYS(0.984)PS(0.001)R 99.788 0.010867 3203200 2160.9 2180.3 2525 2480 2678.7 1509.2 2766.6 1399 981.29 1568.5 TRUE FALSE FALSE 2388.193377 2250.943151 2869.09385 2528.003986 2473.458585 1380.607669 2455.294887 1363.215606 974.461123 1636.125711 1.459663741 1.375776406 1.753590101 1.545115983 1.511777835 0.843827378 1.500676183 0.833197349 0.595590618 1 10.67606789 -3.175744717 14.26214168 1.279642493 1.227638294 0 0.370792337 0 0 0.042085268 0 0.000667199 3.175744717 -0.052004199 GAVAEDGDELRTEPEAK ddPTM_HeLa_SAHA_4h_R1 1 GAVAEDGDELRTEPEAK 17 1 G3V5Q1;G3V3M6;P27695;G3V5D9;A0A0C4DGK8;G3V3C7 G3V5Q1 APEX1 "DNA-(apurinic or apyrimidinic site) lyase;DNA-(apurinic or apyrimidinic site) lyase, mitochondrial" 0 0 121.18 0.00085811 3047700 997.84 1199.9 883.49 858.74 1100 1652.4 1242.3 1320.9 1074.1 1091.4 FALSE FALSE TRUE 1102.797389 1238.777547 1003.887416 875.3621545 1015.718238 1511.606224 1102.513134 1287.113291 1066.625251 1138.455595 0.96867844 1.088121094 0.881797604 0.768903204 0.892189596 1.327769155 0.968428755 1.130578387 0.936905449 1 10.15286231 -5.301228432 24.99513996 0.962847466 1.124876164 0.389006413 0.115165409 473.8852646 297689.9475 0.016420996 0.036718827 5.00E-06 5.301228432 0.162028698 GAVEKGEELSCEER ddPTM_HeLa_SAHA_4h_R1 2 GAVEKGEELSCEER 14 1 P31947-2;P31947 P31947-2 SFN 14-3-3 protein sigma 0 0 ; ; 126.66 0.00096755 38965000 3525.7 4598.2 3768.7 5139.4 4685 4071.3 4632.7 5564.8 3822.4 3725.6 FALSE FALSE TRUE 3896.549302 4747.184697 4282.278809 5238.880519 4326.036312 3724.402335 4111.416403 5422.460474 3795.799607 3886.228849 1.002655647 1.221540182 1.101911127 1.348062794 1.113170758 0.958358985 1.057945006 1.39530138 0.97673085 1 11.92415514 -7.276823102 23.49655227 1.00125404 1.160319972 0.301161147 0.123174668 356.3645216 544296.9877 0.020647977 0.023667269 5.29E-08 7.276823102 0.159065932 GCALQCAILSPAFK ddPTM_HeLa_SAHA_4h_R1 1 GCALQCAILSPAFK 14 0 O95757;E9PDE8;D6RJ96;A0A087WYC1;P34932;A0A087WTS8;Q92598-2;Q92598-3;Q92598;A0A0A0MSM0;Q92598-4 O95757;A0A087WYC1;Q92598-2 HSPA4L;HSPA4;HSPH1 Heat shock 70 kDa protein 4L;Heat shock 70 kDa protein 4;Heat shock protein 105 kDa 0 0 141.88 0.00034665 453590 179.18 207.55 0 181.04 213.28 64.324 198.43 0 0 85.728 FALSE FALSE TRUE 198.0269745 214.2747562 0 184.544291 196.9385325 58.84323332 176.1021342 0 0 89.42415362 2.214468535 2.396161971 0 2.063696256 2.202296857 0.658023934 1.969290477 0 0 1 6.482592653 -4.252150863 24.51755629 1.567483686 1.08E-06 0.153917461 0.893259523 997.7344349 2633502.769 0.104409662 1.727848657 5.60E-05 4.252150863 -1.567482609 GCDS(ph)PDPDTSYVLT(ph)PHTEEK ddPTM_HeLa_SAHA_4h_R1 1 GCDSPDPDTSYVLTPHTEEK 20 0 Q02078-3;Q02078-5;Q02078 Q02078-3 MEF2A Myocyte-specific enhancer factor 2A 2 0 GCDS(1)PDPDT(0.005)S(0.018)Y(0.001)VLT(0.972)PHT(0.004)EEK 143.29 4.44E-05 8455600 2474.9 3391.9 3170.7 1295.3 2841.9 2940 3454.4 1564.5 2169.4 3617.8 TRUE FALSE FALSE 2735.221337 3501.799786 3602.786484 1320.372405 2624.154236 2689.49546 3065.701821 1524.482355 2154.302969 3773.781063 0.724795978 0.927928708 0.954688792 0.3498805 0.695364726 0.712679251 0.812368754 0.403966825 0.570860612 1 11.88179501 -6.294714122 24.99571258 0.877775208 0.619066164 0.2993688 0.176535744 502.6761418 377605.1588 0.024835036 0.037937525 5.07E-07 6.294714122 -0.258709044 GCDS(ph)PDPDTSYVLTPHTEEK ddPTM_HeLa_SAHA_4h_R1 1 GCDSPDPDTSYVLTPHTEEK 20 0 Q02078-3;Q02078-5;Q02078 Q02078-3 MEF2A Myocyte-specific enhancer factor 2A 1 0 GCDS(0.999)PDPDT(0.001)SYVLTPHTEEK 181.61 5.28E-10 22283000 5880 4326.1 4164 7824.4 6575.1 6862.7 6222.3 8193.5 6435.1 4686.7 TRUE FALSE FALSE 6498.485378 4466.268478 4731.448235 7975.852576 6071.317258 6277.959352 5522.150428 7983.922134 6390.317615 4888.766573 1.329268903 0.913577773 0.967820444 1.631465208 1.241891419 1.284160178 1.12955903 1.633115841 1.307143125 1 12.25525481 -6.281063347 24.89670769 1.124650294 1.356454797 0.332993591 0.195413005 869.6218206 1103277.357 0.031363687 0.047950191 5.24E-07 6.281063347 0.231804504 GCDVVVIPAGVPR ddPTM_HeLa_SAHA_4h_R1 1 GCDVVVIPAGVPR 13 0 P40926;P40926-2 P40926 MDH2 "Malate dehydrogenase, mitochondrial" 0 0 104.52 0.021745 3280700 495.87 606.2 333.91 451.99 590.58 568.48 409.6 604.3 602.83 367.19 FALSE FALSE TRUE 548.0278817 625.8412777 379.4135159 460.73892 545.329888 520.0423058 363.51073 588.842881 598.6348569 383.0213579 1.430802409 1.633959216 0.990580572 1.202906602 1.423758432 1.357737095 0.949061253 1.537363045 1.562928136 1 8.581281031 -9.429949302 1.194480611 1.002224617 1.31575165 0 0.26997018 0.534927055 1.380185562 0.135346728 0.034988884 3.72E-10 9.429949302 0.313527034 GCEIS(ph)PALFEAPRGYS(ph)MMGGQREAAT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 GCEISPALFEAPRGYSMMGGQREAATR 27 2 K7EKP0;Q86YJ7-2;Q86YJ7 K7EKP0 ANKRD13B Ankyrin repeat domain-containing protein 13B 3 0 GCEIS(1)PALFEAPRGY(0.476)S(0.525)MMGGQREAAT(0.999)R 45.972 0.01938 60032000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 GCESPDPDS(ph)SYALTPR ddPTM_HeLa_SAHA_4h_R1 1 GCESPDPDSSYALTPR 16 0 Q06413-5;A0A0D9SFD0;Q06413-6;A0A0D9SGI5;D6RC63;D6R942;A0A0D9SET2;D6RB91 Q06413-5 MEF2C Myocyte-specific enhancer factor 2C 1 0 GCES(0.002)PDPDS(0.499)S(0.499)YALTPR 172.43 6.51E-09 3803700 938.18 562.96 736.41 1439.2 846.79 1091.9 898.61 1369.8 1060 640.74 TRUE FALSE FALSE 1036.862077 581.2002734 836.7641197 1467.057797 781.9091331 998.8639771 797.4960378 1334.762499 1052.623374 668.3654371 1.551340059 0.869584573 1.251956001 2.194993511 1.169882657 1.494487778 1.193203588 1.997054942 1.574921914 1 9.38449332 -11.7292855 0.237645139 8.60E-18 1.541978673 0 0.405404795 26.8641325 0.736742421 13.59398948 0.268575718 1.87E-12 11.7292855 1.541978673 GCGVVK(ac)FESPEVAER ddPTM_HeLa_SAHA_4h_R1 1 GCGVVKFESPEVAER 15 1 A0A087X0X3;P52272-2;P52272 A0A087X0X3 HNRNPM Heterogeneous nuclear ribonucleoprotein M 0 1 GCGVVK(1)FESPEVAER 185.02 1.85E-16 1470400 335.47 399.01 441.93 272.6 366.42 300.15 412.74 358.61 258.63 437.29 FALSE TRUE FALSE 370.7562738 411.9381858 502.1539189 277.8765672 338.3449788 274.5755314 366.2974089 349.4372755 256.8301728 456.1437119 0.812805842 0.903088599 1.100867787 0.609186447 0.741750834 0.601949614 0.80303071 0.766068382 0.563046615 1 8.833344619 -6.247441537 24.99949381 0.921487797 0.706260507 0.228440644 0.146108493 507.0662226 905596.5706 0.01570806 0.025962765 5.66E-07 6.247441537 -0.215227289 GCLDEETSR ddPTM_HeLa_SAHA_4h_R1 3 GCLDEETSR 9 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ;; ;; 150.36 0.00018583 6843870 3465.78 3995.11 3523.26 3836.37 3915.06 4662.66 3592.43 3747.66 3862.5 3799.39 FALSE FALSE TRUE 3830.326642 4124.554185 4003.391524 3910.628489 3615.088949 4265.375137 3188.200322 3651.800284 3835.620548 3963.200297 0.966473142 1.040713029 1.010141104 0.986735011 0.912164079 1.07624516 0.80445097 0.921427132 0.967808907 1 11.95245017 -4.753626659 24.9999674 0.989719018 0.862939054 0.530629985 0.049493203 93.5679565 299401.0026 0.006121086 0.022076585 1.76E-05 4.753626659 -0.126779963 GCLTTPNS(ph)PSMHSR ddPTM_HeLa_SAHA_4h_R1 4 GCLTTPNSPSMHSR 14 0 O75128-3;O75128;O75128-7;A0A0J9YWK3;A0A3B3IU00;O75128-5;O75128-4 O75128-3 COBL Protein cordon-bleu 1 0 GCLTTPNS(0.969)PS(0.031)MHSR;GCLTTPNS(0.893)PS(0.053)MHS(0.053)R;GCLT(0.001)T(0.026)PNS(0.746)PS(0.227)MHS(0.001)R;GCLTT(0.007)PNS(0.79)PS(0.203)MHSR ;;; 143.64 1.29E-07 4476700 2979.73 3719.25 2664.64 3034.45 4078.64 6203.17 3797.71 3447.37 3947.39 4423.12 TRUE FALSE FALSE 3293.151673 3839.75614 3027.763262 3093.186168 3766.135484 5674.625018 3370.381676 3359.191267 3919.919792 4613.822349 0.713757796 0.832228866 0.656237504 0.670417267 0.816272322 1.229918403 0.73049663 0.72807122 0.849603538 1 12.17174674 -4.591266871 24.99999999 0.851696895 0.728502943 0.077474748 0.160242878 96.71608776 35354.12936 0.024734476 0.092547966 2.56E-05 4.591266871 -0.123193952 GCT(ph)PSGEGADSEPR ddPTM_HeLa_SAHA_4h_R1 1 GCTPSGEGADSEPR 14 0 Q92917 Q92917 GPKOW G patch domain and KOW motifs-containing protein 1 0 GCT(0.88)PS(0.11)GEGADS(0.01)EPR 93.494 0.012993 3161100 753.18 855.08 1102.5 1022.6 1027.1 1059.8 850.43 1056 891.14 787.89 TRUE FALSE FALSE 832.4029281 882.785153 1252.742958 1042.393902 948.4038199 969.4990777 754.7373782 1028.989049 884.9384842 821.8597937 1.012828386 1.074131086 1.52427819 1.268335438 1.153972767 1.179640475 0.91832863 1.25202505 1.076751157 1 9.682748486 -6.987640561 24.97359069 1.008027397 1.208684504 0.270331732 0.14070889 208.7348433 421769.8276 0.02297446 0.030183354 1.03E-07 6.987640561 0.200657107 GCTIVKPFNLSQGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 GCTIVKPFNLSQGKK 15 2 Q9ULW0;Q9ULW0-2 Q9ULW0 TPX2 Targeting protein for Xklp2 0 1 ; GCTIVKPFNLSQGK(1)K;GCTIVKPFNLSQGK(1)K 175.15 2.11E-11 4241400 812.88 450.12 511.37 1388.56 1240.1 1530.38 1620.71 1713.54 1051.09 548.89 FALSE TRUE FALSE 898.382448 464.7041833 581.0568405 1415.437587 1145.083806 1399.983014 1438.343445 1669.710128 1043.775379 572.5553341 1.569075327 0.811631917 1.014848358 2.472141123 1.999953083 2.445148846 2.51214749 2.916242376 1.823012235 1 9.161271318 -6.256479581 24.96819775 1.216691554 2.444119397 0.762194478 0.341930748 146.0077835 735019.2513 0.05015893 0.081483902 5.54E-07 6.256479581 1.227427844 GDAAS(ph)SPAPAASVGSSQGGAR ddPTM_HeLa_SAHA_4h_R1 2 GDAASSPAPAASVGSSQGGAR 21 0 F8WCC1;E7EXA6;A0A0D9SF58;Q8WVB6;Q8WVB6-2 F8WCC1 CHTF18 Chromosome transmission fidelity protein 18 homolog 1 0 GDAAS(0.497)S(0.497)PAPAAS(0.006)VGSSQGGAR;GDAAS(0.905)S(0.095)PAPAASVGSSQGGAR ; 220.78 1.91E-27 16524500 3676.3 3593.8 2615.68 2960.6 3530.2 3244.7 3183.9 3526.7 2945.5 3139.9 TRUE FALSE FALSE 4062.990101 3710.241478 2972.131249 3017.906694 3259.716839 2968.233306 2825.639192 3436.492121 2925.002026 3275.276455 1.240502949 1.132802537 0.907444391 0.921420447 0.995249373 0.90625428 0.862717768 1.049222002 0.893055003 1 11.67740097 -6.764297145 24.9988837 1.118186527 0.936934839 0.210129903 0.101683851 52.85561442 462366.1776 0.016027875 0.021589361 1.72E-07 6.764297145 -0.181251689 GDAASS(ph)PAPAASVGSS(ph)QGGAR ddPTM_HeLa_SAHA_4h_R1 1 GDAASSPAPAASVGSSQGGAR 21 0 F8WCC1;E7EXA6;A0A0D9SF58;Q8WVB6;Q8WVB6-2 F8WCC1 CHTF18 Chromosome transmission fidelity protein 18 homolog 2 0 GDAAS(0.125)S(0.875)PAPAAS(0.181)VGS(0.366)S(0.453)QGGAR 96.55 0.0040169 5307400 1004.9 1008 966.38 922.03 1308.1 1026.4 1181.6 1529.1 1134.6 1280.6 TRUE FALSE FALSE 1110.599993 1040.659861 1098.073234 939.8772239 1207.873661 938.9449456 1048.643258 1489.987836 1126.704226 1335.812933 0.831403833 0.779046104 0.822026203 0.703599434 0.904223661 0.702901523 0.785022537 1.115416537 0.843459588 1 10.38350227 -8.947984601 0.7873481 0.999605054 0.821192599 0.018946028 0.121053008 0.66172995 0.759182344 0.068220455 0.021945422 1.13E-09 8.947984601 -0.178412455 GDAASS(ph)PAPAASVGSSQGGAR ddPTM_HeLa_SAHA_4h_R1 2 GDAASSPAPAASVGSSQGGAR 21 0 F8WCC1;E7EXA6;A0A0D9SF58;Q8WVB6;Q8WVB6-2 F8WCC1 CHTF18 Chromosome transmission fidelity protein 18 homolog 1 0 GDAAS(0.085)S(0.915)PAPAASVGSSQGGAR;GDAAS(0.215)S(0.785)PAPAASVGSSQGGAR ; 274.45 6.40E-66 78377000 3301.9 2897.5 2555.3 2639.8 2415 3162.1 3026.3 3011.5 2948.3 2443.1 TRUE FALSE FALSE 3649.208992 2991.380901 2903.522977 2690.897146 2229.963222 2892.671291 2685.772759 2934.470191 2927.78254 2548.433997 1.431941732 1.173811409 1.139336149 1.055902232 0.875032755 1.135077971 1.053891434 1.151479769 1.148855549 1 11.31539527 -6.501748943 2.742666714 1.20703646 1.049663702 0.21261067 0.120821626 0.40759618 6.160372516 0.027818586 0.042696646 3.15E-07 6.501748943 -0.157372757 GDAASSPAPAASVGS(ph)SQGGAR ddPTM_HeLa_SAHA_4h_R1 1 GDAASSPAPAASVGSSQGGAR 21 0 F8WCC1;E7EXA6;A0A0D9SF58;Q8WVB6;Q8WVB6-2 F8WCC1 CHTF18 Chromosome transmission fidelity protein 18 homolog 1 0 GDAASSPAPAAS(0.015)VGS(0.919)S(0.066)QGGAR 153.17 7.61E-16 0 225.69 65.34 148.73 222.46 257.84 158.32 185.52 436.79 257.46 205 TRUE FALSE FALSE 249.4291097 67.45705887 168.9981498 226.766035 238.0843549 144.8302453 164.6448013 425.6175443 255.6683149 213.8385532 1.166436575 0.31545789 0.790307207 1.060454401 1.113383678 0.67728781 0.769949099 1.990368611 1.195613752 1 7.740378172 -4.254401886 24.34796635 0.968887824 1.990369304 0.593531708 0.265354599 338.4782312 1171006.009 0.038225291 0.504243491 5.57E-05 4.254401886 1.02148148 GDADS(ph)HASMKS(ph)LLT(ph)S(ph)R ddPTM_HeLa_SAHA_4h_R1 1 GDADSHASMKSLLTSR 16 1 Q9Y613 Q9Y613 FHOD1 FH1/FH2 domain-containing protein 1 4 0 GDADS(0.981)HAS(0.268)MKS(0.835)LLT(0.958)S(0.958)R 40.015 0.0088541 0 0 0 0 0 0 169.76 0 0 80.99 0 TRUE FALSE FALSE 0 0 0 0 0 155.295493 0 0 80.426384 0 0 GDDDEES(ph)DEEAVK ddPTM_HeLa_SAHA_4h_R1 1 GDDDEESDEEAVK 13 0 O43395 O43395 PRPF3 U4/U6 small nuclear ribonucleoprotein Prp3 1 0 GDDDEES(1)DEEAVK 145.61 0.00023376 4554500 1148.8 1283 812.38 1257.6 1267.1 1738 1132.7 1340.1 2261.5 1059.3 TRUE FALSE FALSE 1269.636055 1324.570042 923.0869157 1281.942667 1170.015072 1589.912622 1005.245615 1305.822182 2245.762037 1104.971607 1.149021429 1.198736722 0.83539424 1.16015892 1.058864376 1.438871924 0.909747914 1.181769897 2.032416058 1 10.10979358 -9.394060221 1.032281008 0.997576626 1.116067067 0 0.360330136 1.24290513 2.292092011 0.110994615 0.026156633 4.04E-10 9.394060221 0.118490441 GDDDEES(ph)DEEAVKK ddPTM_HeLa_SAHA_4h_R1 3 GDDDEESDEEAVKK 14 1 O43395 O43395 PRPF3 U4/U6 small nuclear ribonucleoprotein Prp3 1 0 GDDDEES(1)DEEAVKK;GDDDEES(1)DEEAVKK;GDDDEES(1)DEEAVKK ;; 175.45 7.96E-18 10126000 4660.51 5259.89 3081.49 4980.61 5099.96 6033.93 5246.41 5054.93 8436.17 5208.2 TRUE FALSE FALSE 5150.723825 5430.313887 3501.419409 5077.016909 4709.202167 5519.805218 4656.070139 4925.63221 8377.462006 5432.75099 0.948087596 0.999551405 0.644502098 0.934520452 0.86681723 1.016023968 0.857037281 0.906655251 1.542029447 1 12.40746721 GDDGIFDDNFIEER ddPTM_HeLa_SAHA_4h_R1 3 GDDGIFDDNFIEER 14 0 O60493-4;O60493;O60493-2 O60493-4 SNX3 Sorting nexin-3 0 0 ;; ;; 293.47 4.89E-82 23821300 3821.61 4395.78 3343.44 4091.93 4090.94 5147.03 4562.36 2853.13 5522.3 4028.39 FALSE FALSE TRUE 4223.584474 4538.206156 3799.066591 4171.135222 3777.493061 4708.474088 4048.991245 2780.151066 5483.869865 4202.073607 1.005119108 1.079992066 0.904093299 0.992637353 0.898959279 1.120512044 0.963569805 0.66161408 1.305038982 1 12.03688572 -4.272451689 4.469185178 1.000431728 0.641597708 0.463968415 0.11548869 0.067404794 3.331301919 0.007921365 0.074602155 5.34E-05 4.272451689 -0.35883402 GDDLLPAGTEDYIHIR ddPTM_HeLa_SAHA_4h_R1 2 GDDLLPAGTEDYIHIR 16 0 K7EM18;P41567;O60739 K7EM18 EIF1;EIF1B Eukaryotic translation initiation factor 1;Eukaryotic translation initiation factor 1b 0 0 ; ; 179.56 2.87E-09 7661500 3161.3 2757 2670.1 2838.4 2946.5 4139.4 3114 2469.4 4210.1 3204.3 FALSE FALSE TRUE 3493.820039 2846.328609 3033.967323 2893.341336 2720.739807 3786.699832 2763.604524 2406.236324 4180.801571 3342.453054 1.045286196 0.851568762 0.907706787 0.865634098 0.81399492 1.132910402 0.826819249 0.719901307 1.250818337 1 11.70669158 -7.262776779 24.98136269 1.02138515 0.880872 0.365408528 0.123413257 108.3249027 2023399.934 0.016587853 0.019516565 5.46E-08 7.262776779 -0.14051315 GDDS(ph)DEEDLCISNK ddPTM_HeLa_SAHA_4h_R1 1 GDDSDEEDLCISNK 14 0 H3BRG5;Q9Y3M8-5;Q9Y3M8-3;Q9Y3M8-4;Q9Y3M8-2;Q9Y3M8 H3BRG5 STARD13 StAR-related lipid transfer protein 13 1 0 GDDS(1)DEEDLCISNK 124.16 0.00011006 0 245.96 260.04 57.981 258.64 143.18 192.6 197.12 65.713 0 117.97 TRUE FALSE FALSE 271.8312013 268.4654666 65.88234873 263.6463512 132.2095793 176.1893965 174.9395388 64.03215661 0 123.056264 2.208999302 2.181648116 0.53538395 2.14248623 1.074383172 1.431779177 1.421622379 0.520348615 0 1 6.943174288 -4.139129268 1.891968549 1.553815587 3.10E-26 0.031695448 0.719453152 1.531427563 4.316139108 0.084528316 4.624883561 7.26E-05 4.139129268 -1.553815587 GDEASEEGQNGS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 GDEASEEGQNGSSPK 15 0 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;H0Y9H2 E7EV99 ADD1 Alpha-adducin 1 0 GDEASEEGQNGS(0.5)S(0.5)PK 171.81 6.70E-07 2336800 1882.2 2823.6 1878.9 3214.2 2913.1 3639.1 2749.6 2414.1 4266.1 3965.8 TRUE FALSE FALSE 2080.178432 2915.086493 2134.946707 3276.415489 2689.898907 3329.028207 2440.207771 2352.350818 4236.411863 4136.785046 0.50284905 0.704674393 0.516088383 0.792019757 0.650238984 0.80473802 0.589880244 0.568642265 1.02408315 1 12.01429428 -9.442249101 1.139894357 1.002660532 0.634671744 0.686560339 0.09963113 0.248177727 0.57011367 0.073009166 0.017683815 3.61E-10 9.442249101 -0.367988788 GDEASEEGQNGSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 GDEASEEGQNGSSPK 15 0 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;H0Y9H2 E7EV99 ADD1 Alpha-adducin 1 0 GDEASEEGQNGS(0.028)S(0.972)PK;GDEASEEGQNGS(0.01)S(0.99)PK;GDEASEEGQNGS(0.091)S(0.909)PK ;; 199.33 2.30E-12 107136000 6259.8 9209.87 5126.3 9011.28 10025.88 12229.44 9543.56 8101.97 12363.11 10748.89 TRUE FALSE FALSE 6918.234485 9508.275831 5824.885467 9185.706355 9257.69924 11187.42291 8469.693512 7894.733339 12277.07411 11212.32725 0.617020386 0.848019828 0.519507265 0.819250647 0.825671516 0.997778843 0.755391216 0.704111926 1.094962164 1 13.45279814 -9.549715344 1.325477306 0.999639174 0.748679148 0.424626256 0.129061125 0.407879845 1.286761515 0.09112559 0.021711926 2.82E-10 9.549715344 -0.250960025 GDEEGVPAVVIDMSGLR ddPTM_HeLa_SAHA_4h_R1 3 GDEEGVPAVVIDMSGLR 17 0 P13796 P13796 LCP1 Plastin-2 0 0 ;; ;; 225.33 7.45E-27 11371100 5928 3877.54 3533.16 5104.1 3706.32 5583.7 5000.6 4554.99 6162.3 4808.74 FALSE FALSE TRUE 6551.534239 4003.17484 4014.640645 5202.897236 3422.342562 5107.937347 4437.919327 4438.479951 6119.416053 5016.068315 1.306109452 0.798070239 0.800356054 1.037246088 0.682275908 1.018314948 0.884740607 0.884852373 1.219962662 1 12.29234128 -7.250110097 24.99036037 1.144551687 0.874634698 0.56157537 0.121802011 499.2066786 1101160.636 0.023687812 0.028869814 5.62E-08 7.250110097 -0.269916989 GDEELDSLIK ddPTM_HeLa_SAHA_4h_R1 6 GDEELDSLIK 10 0 P0C0S5;A0A494C189;Q71UI9-4;Q71UI9;C9J0D1;Q71UI9-3;Q71UI9-2;C9J386 P0C0S5;Q71UI9 H2AFZ;H2AFV Histone H2A.Z;Histone H2A.V;Histone H2A 0 0 ;;;;; ;;;;; 182.76 5.55E-17 49519200 10481.3 9647.3 7779.61 11491.6 10640.3 13009 12088.2 11414.3 13385.1 10173.44 FALSE FALSE TRUE 11583.77122 9959.87885 8839.774736 11714.03654 9825.042513 11900.56001 10728.00392 11122.33873 13291.952 10612.06679 1.091565993 0.938542798 0.832992754 1.1038412 0.925836853 1.121417746 1.010925029 1.048084125 1.252531883 1 13.37341804 -3.011754296 13.40970267 1.023854154 1.016137213 0 0.112885671 0 0 0.011388694 0 0.000973298 3.011754296 -0.00771694 GDEGIFEESFIEER ddPTM_HeLa_SAHA_4h_R1 4 GDEGIFEESFIEER 14 0 A0A087X0R6;Q9UMY4-3;Q9UMY4;Q9UMY4-1 A0A087X0R6 SNX12 Sorting nexin-12 0 0 ;;; ;;; 219.42 9.59E-17 13015600 2085.13 2557.13 2183.78 2442.74 2829.34 3299.19 2980.06 2316.11 3751.41 2571.22 FALSE FALSE TRUE 2304.45354 2639.98269 2481.374166 2490.022765 2612.55658 3018.080451 2644.735806 2256.86726 3725.303632 2682.077877 0.859204559 0.984305009 0.925168574 0.928393163 0.974079315 1.125276964 0.986077186 0.84146224 1.388961769 1 11.38913541 -5.632447404 5.433587199 0.93532626 0.994371994 0 0.160929344 0.388581361 17.16068529 0.011864402 0.024025972 2.33E-06 5.632447404 0.059045735 GDFCIQVGR ddPTM_HeLa_SAHA_4h_R1 1 GDFCIQVGR 9 0 P15531;P15531-2;E7ERL0;Q32Q12;P22392-2;J3KPD9;P22392;O60361 P15531;Q32Q12 NME1;NME1-NME2;NME2;NME2P1 Nucleoside diphosphate kinase A;Nucleoside diphosphate kinase;Nucleoside diphosphate kinase B;Putative nucleoside diphosphate kinase 0 0 158.07 9.47E-07 18425000 2181.1 2432.7 2311.2 1963.8 2162.9 2121.6 2827.4 1630.9 2087.4 1963.7 FALSE FALSE TRUE 2410.518105 2511.521076 2626.1583 2001.812189 1997.179069 1940.827744 2509.253511 1589.18394 2072.873613 2048.364717 1.176801223 1.226110299 1.28207554 0.977273321 0.975011458 0.947501062 1.225003287 0.775830557 1.011965104 1 11.0002569 GDFGPTLGLLRPAPEPEAEGSAVK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GDFGPTLGLLRPAPEPEAEGSAVKR 25 2 Q14814-4;Q14814;Q14814-6;Q14814-3;Q14814-5;Q14814-2 Q14814-4 MEF2D Myocyte-specific enhancer factor 2D 0 1 ; GDFGPTLGLLRPAPEPEAEGSAVK(1)R;GDFGPTLGLLRPAPEPEAEGSAVK(1)R 237.09 1.28E-66 10327700 713.6 755.4 540.11 1270 1306.19 1114.56 1289.63 1607.14 1455.69 551.09 FALSE TRUE FALSE 788.6597221 779.8754556 613.713378 1294.582686 1206.110004 1019.593218 1144.517438 1566.031686 1445.559735 574.8501869 1.371939577 1.35665861 1.067605773 2.252034906 2.098129273 1.773667715 1.99098385 2.724243154 2.514672114 1 9.16704221 -6.261374188 24.99999943 1.189190085 2.132219886 0.266478033 0.48820468 2.197267126 842560.9899 0.040752865 0.064834405 5.48E-07 6.261374188 0.943029801 GDGPVQGIINFEQK ddPTM_HeLa_SAHA_4h_R1 4 GDGPVQGIINFEQK 14 0 P00441 P00441 SOD1 Superoxide dismutase [Cu-Zn] 0 0 ;;; ;;; 184.21 2.92E-07 30922590 2367.8 2190.19 2068.5 2795.49 2690.72 2615.06 2818.73 2604.37 2791.937 2554.28 FALSE FALSE TRUE 2616.856068 2261.153593 2350.384408 2849.600751 2484.557615 2392.242176 2501.559082 2537.753986 2772.507683 2664.407511 0.982153089 0.848651561 0.882141488 1.06950635 0.932499103 0.897851461 0.938880059 0.952464657 1.040571936 1 11.37959904 -7.493539251 23.66947545 0.99212644 0.932773826 0.261365589 0.056911856 225.7433111 182120.0702 0.009663738 0.010518867 3.21E-08 7.493539251 -0.059352615 GDIYCS(ph)DTALYCPEER ddPTM_HeLa_SAHA_4h_R1 1 GDIYCSDTALYCPEER 16 0 A0A1B0GTT1;A0A1B0GVM0;Q9BUH8;G3V536;G3V3S3 A0A1B0GTT1 BEGAIN Brain-enriched guanylate kinase-associated protein 1 0 GDIY(0.09)CS(0.898)DT(0.013)ALYCPEER 106.82 0.0014061 0 225.27 226.28 295.73 286.63 123.63 387.73 193.32 392.63 316.16 66.789 TRUE FALSE FALSE 248.9649322 233.6116205 336.0305443 292.1781381 114.1574961 354.6932227 171.5671248 382.5870931 313.9598168 69.66860065 3.57356011 3.353183763 4.823271046 4.193828144 1.638578858 5.091148945 2.462617639 5.491528315 4.506475139 1 6.122436681 -9.067267236 0.559092722 0.643356123 3.86510466 0 1.554544395 0.732341721 0.360382656 1.21388601 0.255720785 8.57E-10 9.067267236 3.221748537 GDKEEVAYEER ddPTM_HeLa_SAHA_4h_R1 1 GDKEEVAYEER 11 1 F5GWX2;Q9NRV9 F5GWX2 HEBP1 Heme-binding protein 1 0 0 111.5 0.0057594 10363000 2439.3 2473.2 2216.1 2634.3 2498 2866.1 2554 2506.3 2742.9 2348.2 FALSE FALSE TRUE 2695.876766 2553.333303 2518.098567 2685.290686 2306.60378 2621.892156 2266.617198 2442.192475 2723.811936 2449.442394 1.100608356 1.042414106 1.028029307 1.096286523 0.941685253 1.070403681 0.925360484 0.997040176 1.112013062 1 11.25823765 -5.759973994 24.99999622 1.049616325 0.985659501 0.364653056 0.049529903 40.85989541 697055.9759 0.007407985 0.014207312 1.74E-06 5.759973994 -0.063956824 GDLAFGAPGPRPPS(ph)PFDDPADDPEHK ddPTM_HeLa_SAHA_4h_R1 2 GDLAFGAPGPRPPSPFDDPADDPEHK 26 1 Q93074-3;Q93074;Q93074-2;Q7Z3Z5 Q93074-3 MED12;TNRC11 Mediator of RNA polymerase II transcription subunit 12 1 0 GDLAFGAPGPRPPS(1)PFDDPADDPEHK;GDLAFGAPGPRPPS(1)PFDDPADDPEHK ; 98.887 3.19E-06 35543000 2623.88 3142.6 2243.75 2727.8 3672.3 3782.7 3155.6 3124.1 3342.2 2814.6 TRUE FALSE FALSE 2899.871737 3244.422302 2549.516565 2780.600513 3390.929167 3460.392679 2800.523583 3044.190046 3318.941358 2935.95118 0.987711157 1.105066843 0.868378392 0.947086768 1.154967831 1.178627459 0.953872667 1.036866712 1.130448415 1 11.51961226 -5.775049485 24.99940768 0.989871711 1.078964596 0.123751897 0.091027239 263.6011101 484189.3331 0.011708226 0.021305628 1.68E-06 5.775049485 0.089092886 GDLGIEIPAEK ddPTM_HeLa_SAHA_4h_R1 6 GDLGIEIPAEK 11 0 P14618;P14618-3;B4DNK4;P30613-2;P30613;P14618-2;H3BTN5;H3BR70 P14618;P14618-2 PKM;PKLR Pyruvate kinase PKM;Pyruvate kinase;Pyruvate kinase PKLR 0 0 ;;;;; ;;;;; 218.49 3.17E-33 147930000 26542.89 25330.5 25048.9 26576.88 26194.93 28632.31 28838.7 25475.36 25515.28 23498.46 FALSE FALSE TRUE 29334.79295 26151.22482 28462.43364 27091.31394 24187.88012 26192.67611 25593.69358 24823.73718 25337.71709 24511.59361 1.196772165 1.066892069 1.161182504 1.105244905 0.986793454 1.068583158 1.044146455 1.012734528 1.033703377 1 14.58117666 -5.785013151 24.76218423 1.099373593 1.032107308 0.238627563 0.056998349 301.7047984 316913.9254 0.011382332 0.020641266 1.64E-06 5.785013151 -0.067266286 GDLS(ph)DVEEEEEEEMDVDEATGAVKK ddPTM_HeLa_SAHA_4h_R1 4 GDLSDVEEEEEEEMDVDEATGAVKK 25 1 Q96ST3 Q96ST3 SIN3A Paired amphipathic helix protein Sin3a 1 0 GDLS(1)DVEEEEEEEMDVDEATGAVKK;GDLS(1)DVEEEEEEEMDVDEATGAVKK;GDLS(1)DVEEEEEEEMDVDEATGAVKK;GDLS(0.998)DVEEEEEEEMDVDEAT(0.002)GAVKK ;;; 196.86 3.43E-19 23572300 3516.23 3289.61 3790.18 3879.59 4277.16 5323.08 4647.44 4314.13 3498.54 2993.62 TRUE FALSE FALSE 3886.083204 3396.195522 4306.685992 3954.685074 3949.444925 4869.523637 4124.49782 4203.780801 3474.193375 3122.689609 1.244466691 1.087586647 1.379159165 1.266435532 1.264757443 1.559400468 1.320815815 1.34620514 1.112564427 1 11.60857346 -10.37586817 0.11977698 0.474455419 1.557798746 0.563745541 0.101101957 15.86200881 0.329103321 2.99992854 0.638643884 4.21E-11 10.37586817 1.083343327 GDMEQNDSDNRR ddPTM_HeLa_SAHA_4h_R1 2 GDMEQNDSDNRR 12 1 Q9UN86-2;Q9UN86 Q9UN86-2 G3BP2 Ras GTPase-activating protein-binding protein 2 0 0 ; ; 147.62 0.00050025 24583000 2071.32 2343.06 1934.94 3114.2 2828.22 3294 3458 2957.12 3160.2 3633.7 FALSE FALSE TRUE 2289.190941 2418.976681 2198.623546 3174.479844 2611.522395 3013.332668 3068.896739 2881.481152 3138.207911 3790.36659 0.603949747 0.638190693 0.580055647 0.837512618 0.688989398 0.794997686 0.809656973 0.760211733 0.827943112 1 11.88812167 -9.423595817 1.159919885 0.999526536 0.706557938 0.357028887 0.097610696 0.272283014 0.656865966 0.063560833 0.016111691 3.77E-10 9.423595817 -0.292968599 GDMS(ph)DEDDENEFFDAPEIITMPENLGHKR ddPTM_HeLa_SAHA_4h_R1 4 GDMSDEDDENEFFDAPEIITMPENLGHKR 29 1 P22059 P22059 OSBP Oxysterol-binding protein 1 1 0 GDMS(1)DEDDENEFFDAPEIITMPENLGHKR;GDMS(1)DEDDENEFFDAPEIITMPENLGHKR;GDMS(1)DEDDENEFFDAPEIITMPENLGHKR;GDMS(1)DEDDENEFFDAPEIITMPENLGHKR ;;; 154.4 8.61E-15 17093500 1857.56 1294.18 1391.07 1686.78 1924.96 1957.91 1689.81 1450.68 1726.63 2044.95 TRUE FALSE FALSE 2052.946684 1336.112281 1580.637775 1719.430066 1777.469981 1791.085053 1499.668131 1413.573706 1714.614241 2133.117802 0.962415991 0.626365914 0.74099882 0.80606428 0.833273239 0.839655949 0.703040465 0.662679625 0.803806634 1 11.05874793 -7.365855199 6.933446185 0.983317114 0.752564394 0.417822033 0.087313616 0.100561672 5.848706778 0.012008439 0.013691717 4.31E-08 7.365855199 -0.23075272 GDNIYEWR ddPTM_HeLa_SAHA_4h_R1 2 GDNIYEWR 8 0 C9J180;Q96LR5;A0A087X283;H7C061;B7Z306;P51965-2;R4GN77;R4GND1;A0A1B0GX65;Q969T4;C9J2P0;P51965-3;P51965 C9J180;R4GN77;C9J2P0 UBE2E2;UBE2E1;UBE2E3 Ubiquitin-conjugating enzyme E2 E2;Ubiquitin-conjugating enzyme E2 E1;Ubiquitin-conjugating enzyme E2 E3 0 0 ; ; 134.77 0.008659 30915000 5621.8 4408.8 4923.6 5275.4 6161.3 6726.9 6740.3 5934.4 5874 5422 FALSE FALSE TRUE 6213.126718 4551.648013 5594.562567 5377.512995 5689.222525 6153.730275 5981.863705 5782.606641 5833.122356 5655.768955 1.09854677 0.804779695 0.989178061 0.950801392 1.005914946 1.088044849 1.057657014 1.02242625 1.031357964 1 12.46550747 -3.201109673 10.93101653 1.022290175 1.013456945 0 0.081089253 0 0 0.011405187 0 0.000629347 3.201109673 -0.008833229 GDPEWSS(ph)ETDALVGSR ddPTM_HeLa_SAHA_4h_R1 1 GDPEWSSETDALVGSR 16 0 Q7Z7N9 Q7Z7N9 TMEM179B Transmembrane protein 179B 1 0 GDPEWS(0.295)S(0.501)ET(0.203)DALVGS(0.001)R 81.651 0.011842 1404400 252.02 326.96 300.88 280.55 356.75 346.13 451.38 336.99 302.71 203.56 TRUE FALSE FALSE 278.5286199 337.5537185 341.8823595 285.9804509 329.4158921 316.6377767 400.5895344 328.3702838 300.6034165 212.3364678 1.311732378 1.589711471 1.610097234 1.346826826 1.551386323 1.491207704 1.886579063 1.546462024 1.415693779 1 7.730208358 -8.042993835 0.287311856 0.864760425 1.713532378 0.295905931 0.184648184 0.678438318 0.158614732 0.226684384 0.125742442 9.06E-09 8.042993835 0.848771953 GDPGSS(ph)PAGPR ddPTM_HeLa_SAHA_4h_R1 2 GDPGSSPAGPR 11 0 H3BRW8;Q9P1Z2-4;Q9P1Z2-2;Q9P1Z2-3;Q9P1Z2 H3BRW8 CALCOCO1 Calcium-binding and coiled-coil domain-containing protein 1 1 0 GDPGS(0.217)S(0.783)PAGPR;GDPGS(0.226)S(0.774)PAGPR ; 122.18 0.0020042 22642000 4912 4613.6 3903.3 5203.1 6062.4 6055.8 5116.6 5471.7 4695.6 4856.1 TRUE FALSE FALSE 5428.666697 4763.083667 4435.221396 5303.813524 5597.900222 5539.811771 4540.866702 5331.741837 4662.922937 5065.470236 1.071700443 0.940304344 0.875579401 1.047052549 1.105109686 1.093642152 0.896435373 1.052566018 0.92053111 1 12.30648049 GDPPRLS(ph)PDPVAGSAVSQELR ddPTM_HeLa_SAHA_4h_R1 1 GDPPRLSPDPVAGSAVSQELR 21 1 E9PMR3;E9PMG4;Q9BUR4 E9PMR3 WRAP53 Telomerase Cajal body protein 1 1 0 GDPPRLS(1)PDPVAGSAVSQELR 93.371 0.00024511 66711000 930.11 1307.9 971.07 1240.1 1548.3 1650.3 1234.5 1388.5 1692.4 1276.6 TRUE FALSE FALSE 1027.943237 1350.276818 1103.402362 1264.103929 1429.669588 1509.685156 1095.590811 1352.984181 1680.622451 1331.640474 0.771937514 1.013995027 0.828603804 0.949283199 1.073615302 1.133703267 0.822737693 1.01602813 1.262069218 1 10.37898891 -5.998492384 24.57769847 0.895968559 1.007349556 0 0.152714589 57.00150942 929210.6167 0.017064431 0.030760873 1.00E-06 5.998492384 0.111380997 GDPT(ph)LGKHKY(ph)GT(ph)VRNS(ph)AATAEK ddPTM_HeLa_SAHA_4h_R1 1 GDPTLGKHKYGTVRNSAATAEK 22 3 O43916 O43916 CHST1 Carbohydrate sulfotransferase 1 4 0 GDPT(1)LGKHKY(0.989)GT(0.98)VRNS(0.559)AAT(0.472)AEK 41.912 0.015687 4368500 352.75 1508.5 806.21 775.24 1028.8 994.93 876.76 719.88 853.23 813.3 TRUE FALSE FALSE 389.8538635 1557.37639 916.0761002 790.2458912 949.9735663 910.1563667 778.1046573 701.466512 847.292303 848.3653432 0.459535348 1.835737872 1.079813205 0.931492425 1.119769418 1.072835393 0.917181098 0.826844847 0.998735167 1 9.728541876 GDQCCYSHS(ph)PPTPR ddPTM_HeLa_SAHA_4h_R1 5 GDQCCYSHSPPTPR 14 0 Q9NXH9-2;Q9NXH9 Q9NXH9-2 TRMT1 tRNA (guanine(26)-N(2))-dimethyltransferase 1 0 GDQCCYS(0.094)HS(0.903)PPT(0.003)PR;GDQCCYS(0.007)HS(0.961)PPT(0.032)PR;GDQCCYS(0.002)HS(0.824)PPT(0.174)PR;GDQCCYS(0.01)HS(0.879)PPT(0.111)PR;GDQCCYS(0.008)HS(0.862)PPT(0.13)PR ;;;; 102.89 0.0028893 64062000 4809.28 4919.48 4441.26 7608.98 5700.39 5952.44 5988.73 6666.34 6186.15 5678.33 TRUE FALSE FALSE 5315.142136 5078.87438 5046.491784 7756.262811 5263.62735 5445.258624 5314.862339 6495.824676 6143.100078 5923.150595 0.897350498 0.857461633 0.851994509 1.309482629 0.888653305 0.919317944 0.89730326 1.096684032 1.037133866 1 12.53214905 GDQCCYSHSPPT(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 GDQCCYSHSPPTPR 14 0 Q9NXH9-2;Q9NXH9 Q9NXH9-2 TRMT1 tRNA (guanine(26)-N(2))-dimethyltransferase 1 0 GDQCCYS(0.021)HS(0.144)PPT(0.835)PR;GDQCCYSHS(0.002)PPT(0.998)PR;GDQCCYSHSPPT(1)PR;GDQCCYSHS(0.032)PPT(0.968)PR ;;; 130.47 7.09E-05 5268700 1728.01 1720.58 1738.61 1750.824 2103.14 2614.65 2150.79 2055.25 2065.019 1728.17 TRUE FALSE FALSE 1909.77002 1776.327921 1975.538717 1784.71373 1941.997868 2391.86711 1908.777449 2002.679681 2050.648365 1802.679866 1.059406085 0.985381794 1.095889932 0.990033651 1.077283828 1.326839643 1.058855476 1.11094583 1.137555482 1 10.8159275 -5.513055133 24.90721272 1.028636292 1.162741818 0.30895221 0.07868778 306.6981086 777615.1074 0.00965225 0.020269145 3.07E-06 5.513055133 0.134105526 GDQPAASGDS(ph)DDDEPPPLPR ddPTM_HeLa_SAHA_4h_R1 2 GDQPAASGDSDDDEPPPLPR 20 0 O00264-2;O00264 O00264-2 PGRMC1 Membrane-associated progesterone receptor component 1 1 0 GDQPAASGDS(1)DDDEPPPLPR;GDQPAAS(0.001)GDS(0.999)DDDEPPPLPR ; 232.6 5.70E-66 14010000 1130.09 3491.61 1935.08 1715.27 1725.88 1902.2 2300.36 1566.55 2725.79 2038.78 TRUE FALSE FALSE 1248.958051 3604.740455 2198.782625 1748.471531 1593.643447 1740.121859 2041.517439 1526.479919 2706.821005 2126.681783 0.587280176 1.695006974 1.033902976 0.822159453 0.749356796 0.818233302 0.959954355 0.717775424 1.272790799 1 11.05438846 -4.24114074 21.98605622 0.882092392 0.717774808 0 0.311237762 3386.455286 3667657.206 0.042323141 1.825353449 5.74E-05 4.24114074 -0.164317584 GDQVLNFS(ph)DAEDLIDDSKLK ddPTM_HeLa_SAHA_4h_R1 1 GDQVLNFSDAEDLIDDSKLK 20 1 F8W126;Q96EZ8-3;Q96EZ8;Q96EZ8-2;Q96EZ8-4 F8W126 MCRS1 Microspherule protein 1 1 0 GDQVLNFS(1)DAEDLIDDSKLK 97.776 0.00055847 22320000 1754.3 1561.8 1511.5 1990 2147.8 2343.5 2028.9 2089 1924.3 2085.7 TRUE FALSE FALSE 1938.825323 1612.403345 1717.479348 2028.519328 1983.236028 2143.820616 1800.602832 2035.566405 1910.90864 2175.624734 0.891157971 0.741121996 0.789418929 0.932384752 0.911570822 0.985381616 0.827625649 0.935623857 0.8783264 1 11.08721402 -8.757544076 1.017857954 0.99020239 0.877066967 0.015033404 0.078048155 0.468808849 0.969008095 0.030157363 0.014397131 1.75E-09 8.757544076 -0.113135423 GDREEEVERPVS(ph)SPGDPEQK ddPTM_HeLa_SAHA_4h_R1 1 GDREEEVERPVSSPGDPEQK 20 2 O43149 O43149 ZZEF1 Zinc finger ZZ-type and EF-hand domain-containing protein 1 1 0 GDREEEVERPVS(0.5)S(0.5)PGDPEQK 54.171 0.020739 6519000 1001.3 1449.9 1272.1 1152.4 1266 1273.5 1189.6 1219.8 1460 1294.1 TRUE FALSE FALSE 1106.621328 1496.877711 1445.455163 1174.706368 1168.999354 1164.990635 1055.743077 1188.599282 1449.839741 1349.894984 0.819783273 1.108884564 1.070790825 0.87022056 0.865992812 0.86302316 0.782092748 0.880512407 1.074038913 1 10.39863146 -6.020416032 24.33146031 0.942283067 0.847262012 0.317959374 0.092692625 760.1599061 905945.5734 0.015458453 0.025858705 9.54E-07 6.020416032 -0.095021055 GDRS(ph)PEPGQTWTR ddPTM_HeLa_SAHA_4h_R1 2 GDRSPEPGQTWTR 13 1 Q09666;E9PJZ0;E9PKR9;E9PJC6;E9PLK4;Q09666-2 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GDRS(1)PEPGQTWTR;GDRS(1)PEPGQTWTR ; 155.14 0.00045407 19116100 1865.99 1890.02 1497.17 1780.86 2297.53 2087.5 2234.35 2179.66 2629.97 1951.73 TRUE FALSE FALSE 2062.26339 1951.257888 1701.196531 1815.33112 2121.493748 1909.633256 1982.935058 2123.907453 2611.667825 2035.878632 1.012959887 0.958435271 0.835608029 0.891669617 1.042053153 0.937989734 0.97399473 1.043238737 1.282820981 1 10.99143584 -7.222138545 6.634298867 1.006123446 0.950994371 0.137777109 0.105365132 0.311509914 40.48038345 0.010059518 0.012256023 6.00E-08 7.222138545 -0.055129075 GDRSEDFGVNEDLADSDAR ddPTM_HeLa_SAHA_4h_R1 4 GDRSEDFGVNEDLADSDAR 19 1 P04083 P04083 ANXA1 Annexin A1 0 0 ;;; ;;; 223.65 3.57E-26 239624700 6420.62 5539.48 5469.01 6102.06 6131.51 6408.88 6847.63 6123.63 5216.67 5170.16 FALSE FALSE TRUE 7095.97027 5718.962787 6214.298201 6220.174195 5661.715028 5862.807369 6077.11665 5966.996412 5180.366769 5393.0709 1.315756904 1.060427888 1.152274524 1.153364069 1.049812831 1.087099999 1.126837893 1.106419056 0.960559738 1 12.39689128 -5.793904271 24.65329508 1.145719305 1.094603316 0 0.097492656 485.3545107 368569.0326 0.017533384 0.031783838 1.61E-06 5.793904271 -0.051115989 GDS(ph)ES(ph)EEDEQDSEEVR ddPTM_HeLa_SAHA_4h_R1 1 GDSESEEDEQDSEEVR 16 0 Q9NZ63 Q9NZ63 C9orf78 Uncharacterized protein C9orf78 2 0 GDS(1)ES(0.996)EEDEQDS(0.004)EEVR 117.48 0.00082596 0 581.52 549.75 442.18 519.51 584.36 546.16 419.79 501.92 642.46 522.05 TRUE FALSE FALSE 642.6869417 567.5622607 502.4379876 529.5658673 539.586463 499.6240954 372.5541244 489.0816132 637.9890686 544.5581304 1.180198965 1.042243663 0.922652624 0.972468939 0.990870273 0.917485329 0.68414023 0.898125629 1.17157202 1 9.088942251 -5.535567516 0.732492422 1.079979374 0.779748381 0.586797508 0.086867368 0.51997538 0.454727265 0.017905101 0.091125177 2.91E-06 5.535567516 -0.300230992 GDS(ph)ESEEDEDLEVPVPS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 GDSESEEDEDLEVPVPSR 18 0 P13861-2;P13861 P13861-2 PRKAR2A cAMP-dependent protein kinase type II-alpha regulatory subunit 2 0 GDS(0.934)ES(0.067)EEDEDLEVPVPS(1)R 173.03 8.30E-08 9961100 565.84 747.76 412.92 520.19 692.5 798.46 533.86 588.25 944.09 428.45 TRUE FALSE FALSE 625.3576474 771.9879146 469.1905872 530.2590297 639.4407996 730.426716 473.7886678 573.2034168 937.5200008 446.9225763 1.399252758 1.727341503 1.049825209 1.186467316 1.430764149 1.634347323 1.060113525 1.282556414 2.097723522 1 8.803881114 -9.226070058 1.002829277 1.003349902 1.346737454 0 0.400226393 0.56262814 1.030936256 0.13393415 0.038705257 5.94E-10 9.226070058 0.343387552 GDS(ph)ETDLEALFNAVMNPK ddPTM_HeLa_SAHA_4h_R1 2 GDSETDLEALFNAVMNPK 18 0 P46937-6;P46937-7;P46937;P46937-9;P46937-5;P46937-3;P46937-2;P46937-8 P46937-6 YAP1 Transcriptional coactivator YAP1 1 0 GDS(0.984)ET(0.016)DLEALFNAVMNPK;GDS(0.768)ET(0.232)DLEALFNAVMNPK ; 200.58 2.39E-16 40163000 1210.41 1578.66 1549.79 1708.61 1240.18 1861.56 1557.4 1504.3 2206.99 1842.03 TRUE FALSE FALSE 1337.726477 1629.80962 1760.98731 1741.682617 1145.157676 1702.944615 1382.157253 1465.822184 2191.631377 1921.448928 0.696207148 0.848219068 0.916489262 0.906442316 0.595986529 0.886281488 0.719330726 0.762873352 1.140613911 1 10.90797891 -9.48554668 1.18116645 1.002068414 0.785115487 0.485453414 0.108466413 0.401248979 0.986223064 0.072008795 0.016907947 3.27E-10 9.48554668 -0.216952927 GDS(ph)LILEHQWELEK ddPTM_HeLa_SAHA_4h_R1 6 GDSLILEHQWELEK 14 0 A0A087WWA3;Q4R9M9;O60333-2;O60333;O60333-4;A0A0U1RQL3 A0A087WWA3 KIF1B;KIF1Bbeta Kinesin-like protein;Kinesin-like protein KIF1B 1 0 GDS(1)LILEHQWELEK;GDS(1)LILEHQWELEK;GDS(1)LILEHQWELEK;GDS(1)LILEHQWELEK;GDS(1)LILEHQWELEK;GDS(1)LILEHQWELEK ;;;;; 171.46 1.84E-06 28159700 8803.57 13377.96 10057.04 11177.1 13006.55 16399.6 13285.05 10263.01 17045.3 13330.95 TRUE FALSE FALSE 9729.569885 13811.41468 11427.56104 11393.44893 12009.99095 15002.26182 11790.18121 10000.49706 16926.68037 13905.71249 0.699681508 0.993218772 0.821788962 0.819335862 0.863673181 1.078856033 0.847866027 0.719164665 1.217246536 1 13.76339005 GDS(ph)LKEPTSIAESSR ddPTM_HeLa_SAHA_4h_R1 1 GDSLKEPTSIAESSR 15 1 H0YEF4;Q9C0B5-2;Q9C0B5 H0YEF4 ZDHHC5 Palmitoyltransferase;Palmitoyltransferase ZDHHC5 1 0 GDS(0.994)LKEPT(0.006)SIAESSR 106.36 0.0078009 0 387.64 995.08 508.75 292.18 545.18 579.8 927.92 458.07 551.62 666.17 TRUE FALSE FALSE 428.4137538 1027.321245 578.0798005 297.8355664 503.4084262 530.3977781 823.5079994 446.3532327 547.7812315 694.8918489 0.616518606 1.478390122 0.831898952 0.42860708 0.724441403 0.763281047 1.185088012 0.642334823 0.788297103 1 9.440644648 -9.771330492 1.738081844 1.000419242 0.804995056 0 0.291855034 0.9713721 5.301155762 0.212506813 0.04499021 1.69E-10 9.771330492 -0.195424186 GDS(ph)S(ph)HVVS(ph)EGVPRIHAKAAEMR ddPTM_HeLa_SAHA_4h_R1 1 GDSSHVVSEGVPRIHAKAAEMR 22 2 Q9NUP1 Q9NUP1 BLOC1S4 Biogenesis of lysosome-related organelles complex 1 subunit 4 3 0 GDS(1)S(1)HVVS(1)EGVPRIHAKAAEMR 54.511 0.0097389 11130000 2070.9 1735.2 3074.2 4511.2 1382.5 470 2167.1 2799.6 2959.5 1709.3 TRUE FALSE FALSE 2288.726764 1791.421619 3493.135966 4598.520799 1276.573149 429.9533559 1923.252205 2727.990286 2938.904599 1782.996288 1.28364079 1.004725377 1.959138103 2.579097236 0.715970727 0.241140915 1.078663045 1.530003345 1.64829541 1 10.80008798 -8.93210961 0.912618413 1.012363268 1.289928903 0 0.641603602 2.085517457 3.335199683 0.345927931 0.128875182 1.17E-09 8.93210961 0.277565635 GDS(ph)VSDSGSDALR ddPTM_HeLa_SAHA_4h_R1 2 GDSVSDSGSDALR 13 0 Q53EL6;Q53EL6-2;Q5VZS7 Q53EL6 PDCD4 Programmed cell death protein 4 1 0 GDS(0.989)VS(0.011)DSGSDALR;GDS(0.5)VS(0.5)DSGSDALR ; 199.13 9.36E-11 31430000 2268.09 2825.8 2268.14 3008.22 2998.2 3578.8 3389.9 2797.7 3235.12 2568.82 TRUE FALSE FALSE 2506.658113 2917.357774 2577.230307 3066.448448 2768.478564 3273.866106 3008.45953 2726.138885 3212.606537 2679.574402 0.935468749 1.088739231 0.96180584 1.144378916 1.033178464 1.221785857 1.122737823 1.017377567 1.198924178 1 11.38778816 -6.460382304 1.207961703 0.972625858 1.114756257 0 0.099049948 0.294612255 0.855600676 0.011656939 0.020647118 3.46E-07 6.460382304 0.1421304 GDSES(ph)EEDEDLEVPVPS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 GDSESEEDEDLEVPVPSR 18 0 P13861-2;P13861 P13861-2 PRKAR2A cAMP-dependent protein kinase type II-alpha regulatory subunit 2 0 GDS(0.44)ES(0.903)EEDEDLEVPVPS(0.657)R 107.63 0.015745 5275600 781.31 1125.2 851.85 903.84 1003.8 1144 1005.7 951.1 1815.7 1060.6 TRUE FALSE FALSE 863.4917706 1161.657218 967.9356818 921.3351302 926.8890609 1046.524764 892.5359891 926.7722392 1803.064396 1106.327656 0.780502743 1.050011912 0.874908691 0.832786856 0.837807005 0.945944683 0.806755561 0.837701411 1.629774313 1 10.11156301 -9.594571721 1.369561462 1.000437527 0.861943334 0.190629585 0.214319024 0.426927707 1.429161259 0.054603159 0.012482626 2.54E-10 9.594571721 -0.138494193 GDSES(ph)EEDEDLEVPVPSR ddPTM_HeLa_SAHA_4h_R1 2 GDSESEEDEDLEVPVPSR 18 0 P13861-2;P13861 P13861-2 PRKAR2A cAMP-dependent protein kinase type II-alpha regulatory subunit 1 0 GDS(0.01)ES(0.99)EEDEDLEVPVPSR;GDS(0.178)ES(0.822)EEDEDLEVPVPSR ; 158.98 5.72E-14 0 296.32 341.3 64.81 253.19 181.56 322.49 69.105 422.1 526.49 252.493 TRUE FALSE FALSE 327.4882972 352.3583439 73.64196928 258.0908586 167.648912 295.0120377 61.32912353 411.3032932 522.8261132 263.3792089 1.243409829 1.337836595 0.279604338 0.979921155 0.636530547 1.120103743 0.23285484 1.561639185 1.985069799 1 8.040997654 -6.811918933 24.9999842 1.134872095 0.790964795 0.211375551 0.46138992 130.9366725 64845.81255 0.054395853 0.071490216 1.54E-07 6.811918933 -0.3439073 GDTGGEDTAAPGR ddPTM_HeLa_SAHA_4h_R1 3 GDTGGEDTAAPGR 13 0 Q9H773 Q9H773 DCTPP1 dCTP pyrophosphatase 1 0 0 ;; ;; 152.04 4.24E-05 2546230 1048.98 1177.88 922.06 1633.13 1319.3 1287.08 1281.025 1325.08 1602.32 1599.53 FALSE FALSE TRUE 1159.316529 1216.044085 1047.713535 1664.741593 1218.215519 1177.413543 1136.880696 1291.186372 1591.169325 1668.493566 0.694828289 0.728827554 0.627939811 0.997751281 0.730128988 0.705674608 0.681381528 0.773863561 0.953656254 1 10.70433041 -9.295186277 0.922729929 1.00681748 0.740573599 0.493735034 0.094355922 0.387464196 0.567548735 0.07142214 0.01735371 5.07E-10 9.295186277 -0.266243882 GDTPGHAT(ph)PGHGGATSSAR ddPTM_HeLa_SAHA_4h_R1 2 GDTPGHATPGHGGATSSAR 19 0 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 GDTPGHAT(0.997)PGHGGAT(0.001)S(0.002)S(0.001)AR;GDTPGHAT(1)PGHGGATSSAR ; 126.51 0.00020461 5227600 604.32 887.08 299.94 1007.48 1085.45 1778.55 770.28 759.87 1214.94 826.37 TRUE FALSE FALSE 667.8851503 915.821974 340.8142612 1026.981232 1002.283056 1627.007534 683.6060671 740.4336257 1206.485134 861.9988549 0.774809788 1.062439896 0.395376698 1.191395124 1.162742908 1.887482245 0.793047535 0.858972865 1.399636585 1 9.751542143 -6.072219966 24.99854197 0.868896331 1.196349019 0.096211165 0.363960835 180.9958306 62650.10068 0.047925693 0.079475798 8.47E-07 6.072219966 0.327452688 GDTVS(ph)ASPCSAPLAR ddPTM_HeLa_SAHA_4h_R1 1 GDTVSASPCSAPLAR 15 0 Q15477 Q15477 SKIV2L Helicase SKI2W 1 0 GDT(0.006)VS(0.922)AS(0.072)PCS(0.001)APLAR 225.09 1.49E-24 53121000 1792.5 1830 1711.3 1698.7 1764.6 2017.6 1989.4 1727.8 1665.2 1595.7 TRUE FALSE FALSE 1981.043374 1889.293201 1944.507052 1731.580795 1629.396729 1845.689129 1765.547476 1683.605378 1653.611738 1664.498436 1.190174368 1.135052554 1.168224019 1.040301845 0.978911541 1.108856031 1.060708402 1.011479099 0.993459472 1 10.7008718 -6.124025175 19.13413312 1.101669614 1.041598111 0.15230721 0.067194598 5.368580964 805.3471275 0.012295585 0.020390041 7.52E-07 6.124025175 -0.060071503 GDTVSAS(ph)PCSAPLAR ddPTM_HeLa_SAHA_4h_R1 2 GDTVSASPCSAPLAR 15 0 Q15477 Q15477 SKIV2L Helicase SKI2W 1 0 GDT(0.014)VS(0.008)AS(0.955)PCS(0.023)APLAR;GDT(0.001)VS(0.025)AS(0.93)PCS(0.044)APLAR ; 211.82 1.44E-17 53737700 2529.57 2511.7 2134.07 2643.9 2839.6 2807.8 2765.5 2695.1 2511.4 2744.6 TRUE FALSE FALSE 2795.641779 2593.080728 2424.889946 2695.076508 2622.030461 2568.559644 2454.318662 2626.163244 2493.922963 2862.933138 0.976495658 0.905742678 0.846994963 0.941369001 0.915854592 0.897177657 0.857274181 0.917298141 0.871107652 1 11.48327826 -7.287801951 3.414328284 0.989941226 0.895606005 0.040809995 0.045887063 0.091182445 2.178388674 0.004626194 0.005412025 5.15E-08 7.287801951 -0.09433522 GDVEGSQS(ph)QDEGEGSGESER ddPTM_HeLa_SAHA_4h_R1 2 GDVEGSQSQDEGEGSGESER 20 0 Q9UQE7 Q9UQE7 SMC3 Structural maintenance of chromosomes protein 3 1 0 GDVEGSQS(1)QDEGEGSGESER;GDVEGSQS(1)QDEGEGSGESER ; 216.9 8.40E-26 7911100 1827 1909.95 1782.97 1872.35 2092.22 2654.9 2116.8 1807.54 2340.5 2050.67 TRUE FALSE FALSE 2019.172243 1971.833633 2025.943866 1908.592042 1931.914556 2428.687584 1878.612093 1761.305744 2324.21227 2139.084419 0.943942289 0.921811975 0.947107953 0.89224718 0.903150216 1.135386505 0.878231862 0.823392349 1.086545369 1 11.0627777 -13.52287875 0.14924327 1.25053647 0.910774628 0.206721193 0.081124421 124.0504768 1.264068004 9.06554728 0.184624331 3.00E-14 13.52287875 -0.339761842 GDVT(ph)AEEAAGASPAK ddPTM_HeLa_SAHA_4h_R1 1 GDVTAEEAAGASPAK 15 0 P49006 P49006 MARCKSL1 MARCKS-related protein 1 0 GDVT(0.961)AEEAAGAS(0.039)PAK 144.4 0.00018263 7889000 1056.6 1507 1275.9 1379.3 1831.8 1962.1 1796.9 1577.2 1664.6 1231.7 TRUE FALSE FALSE 1167.738036 1555.827789 1449.773007 1405.998346 1691.44788 1794.918042 1594.708083 1536.857508 1653.015913 1284.804615 0.90888375 1.21094505 1.128399595 1.09432853 1.316502027 1.397035799 1.24120669 1.196179941 1.286589334 1 10.32733326 -6.677943027 0.966671486 0.957633351 1.278311188 0.071420788 0.135570796 0.217689445 0.406467088 0.018441331 0.030410886 2.10E-07 6.677943027 0.320677837 GDVTAEEAAGAS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 5 GDVTAEEAAGASPAK 15 0 P49006 P49006 MARCKSL1 MARCKS-related protein 1 0 GDVTAEEAAGAS(1)PAK;GDVTAEEAAGAS(1)PAK;GDVTAEEAAGAS(1)PAK;GDVT(0.004)AEEAAGAS(0.996)PAK;GDVTAEEAAGAS(1)PAK ;;;; 225.31 1.46E-24 304879000 8368.97 11140.1 8317.69 9675.8 10782.5 10768.1 10536 8668.8 13797.3 9454.8 TRUE FALSE FALSE 9249.256663 11501.04655 9451.181477 9863.0891 9956.347179 9850.5973 9350.461551 8447.064648 13701.28347 9862.442699 0.93782615 1.166145842 0.958300268 1.000065542 1.009521422 0.998798939 0.948087795 0.856488084 1.389238334 1 13.2677293 -4.328957291 2.485647143 0.989461092 0.83762666 0.02795498 0.139814742 0.425488476 3.59433921 0.008583895 0.1273628 4.69E-05 4.328957291 -0.151834432 GDVTAEEAAGAS(ph)PAKANGQENGHVK ddPTM_HeLa_SAHA_4h_R1 6 GDVTAEEAAGASPAKANGQENGHVK 25 1 P49006 P49006 MARCKSL1 MARCKS-related protein 1 0 GDVT(0.002)AEEAAGAS(0.998)PAKANGQENGHVK;GDVTAEEAAGAS(1)PAKANGQENGHVK;GDVTAEEAAGAS(1)PAKANGQENGHVK;GDVTAEEAAGAS(1)PAKANGQENGHVK;GDVTAEEAAGAS(1)PAKANGQENGHVK;GDVT(0.001)AEEAAGAS(0.999)PAKANGQENGHVK ;;;;; 112.57 6.38E-07 169073700 12795.4 11690.1 12973.7 14026.2 13710.8 13604.6 14811 14887.3 11854 13915.04 TRUE FALSE FALSE 14141.27888 12068.86691 14741.68827 14297.69738 12660.28147 12445.41154 13144.4273 14506.50442 11771.50705 14514.98547 0.97425374 0.831476334 1.015618534 0.985030086 0.872221436 0.857418119 0.905576332 0.999415704 0.81098993 1 13.82525551 -7.494569449 19.49906462 0.988642001 0.922923707 0 0.080941384 29.51020208 20327.91464 0.010181242 0.011098316 3.20E-08 7.494569449 -0.065718294 GDWNLLGDT(ph)LEEVHIHS(ph)TMIGK ddPTM_HeLa_SAHA_4h_R1 1 GDWNLLGDTLEEVHIHSTMIGK 22 0 C9IYK1;P57773-2;P57773 C9IYK1 GJA9 Gap junction protein;Gap junction alpha-9 protein 2 0 GDWNLLGDT(0.998)LEEVHIHS(0.501)T(0.501)MIGK 60.034 0.0061668 4878300 1146.2 995.26 863.52 1038.9 1179.2 1543.6 1277.1 1223.7 1199.7 1019.1 TRUE FALSE FALSE 1266.762575 1027.507077 981.1960086 1059.009412 1088.849951 1412.076596 1133.397347 1192.399526 1191.35119 1063.038388 1.191643302 0.966575703 0.92301089 0.996209943 1.024280932 1.328340172 1.066186658 1.121689996 1.120703827 1 10.05397798 GDYDAFFEAR ddPTM_HeLa_SAHA_4h_R1 3 GDYDAFFEAR 10 0 O75368 O75368 SH3BGRL SH3 domain-binding glutamic acid-rich-like protein 0 0 ;; ;; 167.12 0.00079739 38922500 6010.2 7343.5 6332.1 7993.4 7347.6 9403.4 8505.5 6304.1 9743.5 7307.8 FALSE FALSE TRUE 6642.380412 7581.434218 7195.005612 8148.123816 6784.628475 8602.177418 7548.438755 6142.85025 9675.69419 7622.875022 0.871374697 0.994563626 0.943870337 1.06890429 0.890035381 1.128468904 0.990235145 0.805844282 1.269297235 1 12.89611951 -7.139939186 20.05089325 0.938923571 0.980281527 0 0.136914874 11.58692855 1865.93832 0.015104804 0.018499561 7.25E-08 7.139939186 0.041357956 GDYPLEAVR ddPTM_HeLa_SAHA_4h_R1 3 GDYPLEAVR 9 0 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BR70 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;; ;; 139.97 0.0013758 70082200 7377.5 8016.5 7282.4 8447.9 7986.3 8097.7 8874.9 5803.6 6163.5 6437.6 FALSE FALSE TRUE 8153.499299 8276.23986 8274.807547 8611.42132 7374.391419 7407.730404 7876.272895 5655.152316 6120.607702 6715.156441 1.2141935 1.232471638 1.232258343 1.282385808 1.098171202 1.103135939 1.172909814 0.842147516 0.91146167 1 12.71320529 -4.25698733 24.53282653 1.136131737 0.842147362 0.399254592 0.109039644 282.6677921 1557552.595 0.01511545 0.15907161 5.53E-05 4.25698733 -0.293984376 GEAAAERPGEAAVAS(ph)SPSK ddPTM_HeLa_SAHA_4h_R1 3 GEAAAERPGEAAVASSPSK 19 1 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 GEAAAERPGEAAVAS(0.982)S(0.018)PSK;GEAAAERPGEAAVAS(0.639)S(0.361)PSK;GEAAAERPGEAAVAS(0.907)S(0.093)PSK ;; 206.21 1.74E-19 106397000 6147 9602.1 5987.5 7395.6 8626.9 9549.9 8856.5 6074.7 14403 8342.2 TRUE FALSE FALSE 6793.569663 9913.21434 6803.445318 7538.752532 7965.908786 8736.194794 7859.943311 5919.31797 14302.76835 8701.873068 0.780701995 1.139204659 0.781836883 0.866336761 0.915424613 1.003944177 0.903247295 0.680234925 1.643642494 1 13.08711026 -8.003805151 0.013307824 1.809426849 7.67E-06 0.03017239 0.252584675 2102.860819 16.43772133 1138.279836 1094.997648 9.91E-09 8.003805151 -1.80941918 GEAAAERPGEAAVAS(ph)SPSKANGQENGHVK ddPTM_HeLa_SAHA_4h_R1 3 GEAAAERPGEAAVASSPSKANGQENGHVK 29 2 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 GEAAAERPGEAAVAS(0.731)S(0.193)PS(0.076)KANGQENGHVK;GEAAAERPGEAAVAS(0.546)S(0.227)PS(0.227)KANGQENGHVK;GEAAAERPGEAAVAS(0.392)S(0.392)PS(0.217)KANGQENGHVK ;; 92.463 7.05E-08 132804000 5366.26 6411.07 5600.64 6332.67 7725.2 7591.3 7243.6 5728.81 7628.79 6358.51 TRUE FALSE FALSE 5930.707848 6618.792874 6363.866052 6455.247985 7133.296845 6944.478533 6428.531064 5582.275335 7575.700629 6632.656484 0.894167799 0.997909795 0.959474694 0.973252271 1.075481123 1.047013146 0.969224183 0.841634924 1.142181967 1 12.69537109 GEAAAERPGEAAVASS(ph)PSKANGQENGHVK ddPTM_HeLa_SAHA_4h_R1 1 GEAAAERPGEAAVASSPSKANGQENGHVK 29 2 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 GEAAAERPGEAAVAS(0.22)S(0.511)PS(0.269)KANGQENGHVK 87.098 8.28E-07 108040000 3632.1 4187.1 3597.7 4070.5 4283 4543.2 4430.2 3631.2 4691 4097.2 TRUE FALSE FALSE 4014.140943 4322.764787 4087.97582 4149.290414 3954.837465 4156.093801 3931.702236 3538.319162 4658.354949 4273.850343 0.939232921 1.011445053 0.956508883 0.970855337 0.925357031 0.9724472 0.919943826 0.82789964 1.089966792 1 12.06132067 -3.103225258 0.850648166 0.971709369 1.04E-14 0.532442159 0.04436195 5.532359733 0.652737548 0.004374568 7.969257128 0.000788451 3.103225258 -0.971709369 GEAAAERPGEAAVASSPS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 GEAAAERPGEAAVASSPSK 19 1 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 GEAAAERPGEAAVAS(0.018)S(0.204)PS(0.778)K 114.06 0.00036751 327910000 1967.1 2857.8 1690.1 2108.6 2297.6 2943.8 2639.8 1902.5 4547.6 2485 TRUE FALSE FALSE 2174.008603 2950.394595 1920.418026 2149.415002 2121.558384 2692.971679 2342.762756 1853.836805 4515.952881 2592.140511 0.838692422 1.138207818 0.740861855 0.829204664 0.818458095 1.038898805 0.903794662 0.715176047 1.74217133 1 11.33992821 TVALK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 TVALKR 6 1 Q01658 Q01658 DR1 Protein Dr1 0 1 ; TVALK(1)R;TVALK(1)R 97.071 0.010662 8644600 2401.9 2703.9 3401 4972.2 6053 5808 7989.8 5752.8 1555.22 1789.21 FALSE TRUE FALSE 2654.542862 2791.508134 3864.470568 5068.444121 5589.220448 5313.125725 7090.766676 5605.651706 1544.397097 1866.351599 1.422316601 1.49570324 2.070601579 2.715696294 2.994730709 2.846797853 3.799266268 3.003534655 0.827495258 1 10.86600508 -6.345203756 0.737557931 1.129181962 3.389357062 0.926732398 0.256181656 0.106677882 0.114588431 0.048187348 0.110485444 4.52E-07 6.345203756 2.2601751 up GEADDEDDDEDGQDNQGTVTEGSS(ph)PAYLK ddPTM_HeLa_SAHA_4h_R1 1 GEADDEDDDEDGQDNQGTVTEGSSPAYLK 29 0 Q86U86-8;Q86U86;H0Y5B5;E7EVG2;Q86U86-6;Q86U86-5;Q86U86-4;Q86U86-7;Q86U86-3;Q86U86-9;Q86U86-2;C9JPI5 Q86U86-8 PBRM1 Protein polybromo-1 1 0 GEADDEDDDEDGQDNQGT(0.001)VT(0.005)EGS(0.159)S(0.835)PAYLK 157.43 3.01E-15 5794000 993.21 1206.3 952.99 1144.6 1049.5 1327.1 1132.8 933.16 1516 985.21 TRUE FALSE FALSE 1097.680385 1245.384911 1082.858514 1166.755388 969.0875367 1214.023614 1005.334363 909.2911184 1505.450033 1027.687225 1.068107454 1.211832629 1.053684904 1.135321487 0.942979064 1.181316246 0.978249353 0.884793638 1.464891259 1 10.00518553 -4.524899168 24.97611892 1.056977949 0.90815752 0.091134433 0.151292358 46.56712199 575669.5378 0.010953439 0.041566342 2.99E-05 4.524899168 -0.148820429 GEAEQS(ph)EEEADEEDKAEDAR ddPTM_HeLa_SAHA_4h_R1 2 GEAEQSEEEADEEDKAEDAR 20 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 GEAEQS(1)EEEADEEDKAEDAR;GEAEQS(1)EEEADEEDKAEDAR ; 133.48 2.31E-05 23814000 3193.94 4953.7 2911.63 3187.42 4365.5 5525.8 4502.1 3265.13 7070.1 5163.4 TRUE FALSE FALSE 3529.893264 5114.20313 3308.411773 3249.117123 4031.016333 5054.970753 3995.511859 3181.612702 7020.898598 5386.019443 0.655380713 0.949532987 0.614259159 0.603250166 0.748422165 0.938535556 0.741830196 0.590716899 1.303541265 1 12.39500372 -9.417811548 0.953462086 1.013112614 0.730049716 0.486078153 0.156562844 0.511477202 0.766946199 0.106597884 0.022355915 3.82E-10 9.417811548 -0.283062898 GEAGK(ac)RQVPGAK ddPTM_HeLa_SAHA_4h_R1 1 GEAGKRQVPGAK 12 2 P22307-4;P22307-7;P22307-8;P22307 P22307-4 SCP2 Non-specific lipid-transfer protein 0 1 GEAGK(1)RQVPGAK 86.344 0.013011 0 0 0 0 0 664.15 1444.5 1603.4 1892 94.507 304.29 FALSE TRUE FALSE 0 0 0 0 613.2629705 1321.420473 1422.981212 1843.60538 93.84931809 317.4094311 0 0 0 0 1.932088056 4.16314181 4.483109425 5.808287969 0.295672746 1 8.310201185 -5.289738334 1.815157782 0.390225993 5.177601218 0.955358731 0.446807383 0.064568786 0.404888759 0.082524665 0.266342511 5.13E-06 5.289738334 4.787375225 GEAGVPAEFSIWTR ddPTM_HeLa_SAHA_4h_R1 1 GEAGVPAEFSIWTR 14 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7 O75369-8 FLNB Filamin-B 0 0 134.75 0.023306 0 115.58 146.46 228.71 202.92 177.6 178.32 265.14 193.48 0 168.06 FALSE FALSE TRUE 127.7372347 151.2054001 259.8774077 206.84781 163.9923264 163.1261328 235.3057494 188.5310618 0 175.3058891 0.728653415 0.862523221 1.482422576 1.179925051 0.935463875 0.930522835 1.342258099 1.07544055 0 1 7.453730651 -6.894285565 21.41463314 0.867510566 1.148828267 0.29314831 0.322131401 3.227762506 642.0158339 0.030068765 0.039518147 1.28E-07 6.894285565 0.2813177 GEATVSFDDPPSAK ddPTM_HeLa_SAHA_4h_R1 1 GEATVSFDDPPSAK 14 0 Q92804-2;Q92804;A0A075B7D9;H3BPE7;P35637-2;P35637 Q92804-2;H3BPE7 TAF15;FUS TATA-binding protein-associated factor 2N;RNA-binding protein FUS 0 0 150.06 0.00046338 4090700 2026.2 2031.7 1406.2 1767.4 1826.5 2189.9 1888.8 1791.1 2199.5 1817 FALSE FALSE TRUE 2239.325013 2097.528413 1597.829613 1801.610583 1686.553965 2003.3082 1676.267253 1745.286255 2184.1935 1895.339762 1.181490019 1.106676731 0.843030703 0.950547558 0.889842549 1.056965215 0.884415178 0.920830286 1.152402089 1 10.88824078 -6.777055344 24.99926004 1.08967128 0.928121134 0.62606544 0.069619484 157.4599845 252073.6509 0.01350386 0.017781545 1.67E-07 6.777055344 -0.161550147 GEDVPS(ph)EEEEEEENGFEDR ddPTM_HeLa_SAHA_4h_R1 2 GEDVPSEEEEEEENGFEDR 19 0 Q9ULX3 Q9ULX3 NOB1 RNA-binding protein NOB1 1 0 GEDVPS(1)EEEEEEENGFEDR;GEDVPS(1)EEEEEEENGFEDR ; 267.62 7.59E-64 51031000 6294.3 10815.8 5769.7 8460.9 9066.8 11715.5 8564.6 6451.2 17671.3 9639.2 TRUE FALSE FALSE 6956.363353 11166.23902 6555.964669 8624.672954 8372.103743 10717.27349 7600.888667 6286.187645 17548.32398 10054.79309 0.6918455 1.110538916 0.652023827 0.857767324 0.832648039 1.065887025 0.755946801 0.625193138 1.745269528 1 13.29559577 -9.629394282 1.443260765 1.0001337 0.81392812 0.191027754 0.283337391 0.599734075 2.241523132 0.107124529 0.024346086 2.35E-10 9.629394282 -0.186205579 GEEDWLYER ddPTM_HeLa_SAHA_4h_R1 1 GEEDWLYER 9 0 J3QQZ9;Q9NVS9-4;Q9NVS9-3;Q9NVS9 J3QQZ9 PNPO Pyridoxine-5-phosphate oxidase 0 0 195.32 5.32E-07 6763700 1194.1 1734.5 1074.9 1287.9 1668.2 1331.6 1716.3 1094.7 1579 1393.4 FALSE FALSE TRUE 1319.700917 1790.698938 1221.381774 1312.829167 1540.382876 1218.140189 1523.177407 1066.699159 1568.01161 1453.476293 0.907961776 1.232011108 0.840317644 0.903233973 1.059792226 0.838087415 1.047954765 0.73389512 1.078800953 1 10.50529183 -4.247970833 23.64508181 0.966349094 0.733894789 0.279067582 0.118098606 1010.343981 1773670.69 0.01426162 0.349107137 5.65E-05 4.247970833 -0.232454305 GEEGS(ph)DDDETENGPKPK ddPTM_HeLa_SAHA_4h_R1 5 GEEGSDDDETENGPKPK 17 1 Q6PD62 Q6PD62 CTR9 RNA polymerase-associated protein CTR9 homolog 1 0 GEEGS(0.998)DDDET(0.002)ENGPKPK;GEEGS(1)DDDETENGPKPK;GEEGS(0.975)DDDET(0.025)ENGPKPK;GEEGS(1)DDDETENGPKPK;GEEGS(0.926)DDDET(0.074)ENGPKPK ;;;; 235.71 2.50E-73 70691000 6984.45 8521.52 6550.29 7940.14 8798.96 11052.24 8810.84 9267.35 11084.83 7731.53 TRUE FALSE FALSE 7719.106497 8797.622839 7442.929409 8093.832891 8124.785586 10110.52697 7819.421094 9030.304606 11007.68977 8064.874095 0.957126721 1.090856811 0.922882282 1.003590731 1.007428695 1.253649698 0.969565179 1.11970807 1.364892946 1 12.9774363 -5.496182293 24.72771411 0.986100569 1.10495105 0 0.141580741 508.9642677 471430.0892 0.009798605 0.021843249 3.19E-06 5.496182293 0.118850481 GEELGGAEGDTS(ph)SPDPAGR ddPTM_HeLa_SAHA_4h_R1 1 GEELGGAEGDTSSPDPAGR 19 0 Q6F5E8;Q6F5E8-2;R4GMZ7 Q6F5E8 RLTPR Leucine-rich repeat-containing protein 16C 1 0 GEELGGAEGDT(0.113)S(0.684)S(0.203)PDPAGR 111.58 8.19E-05 0 681.67 495.61 406.65 604.59 772.9 749.92 406.68 524.12 630.62 661.69 TRUE FALSE FALSE 753.3711782 511.6680892 462.0661443 616.2927137 713.680569 686.0225971 360.9192961 510.7137693 626.2314641 690.2186941 1.09149634 0.741312998 0.669448898 0.892894845 1.033991943 0.993920627 0.52290571 0.739930364 0.907294267 1 9.430909739 -7.26349154 24.95152939 1.043206607 0.803706851 0.258892735 0.149890895 149.859821 1822090.213 0.026008604 0.030535371 5.45E-08 7.26349154 -0.239499756 GEELGGAEGDTSS(ph)PDPAGR ddPTM_HeLa_SAHA_4h_R1 1 GEELGGAEGDTSSPDPAGR 19 0 Q6F5E8;Q6F5E8-2;R4GMZ7 Q6F5E8 RLTPR Leucine-rich repeat-containing protein 16C 1 0 GEELGGAEGDT(0.219)S(0.318)S(0.463)PDPAGR 142.74 4.93E-10 0 402.95 467.78 300.63 476.11 502.06 805.33 457.74 485.38 589 796.9 TRUE FALSE FALSE 445.3341298 482.9363789 341.5982908 485.3257975 463.5922713 736.7113533 406.2338905 472.9646824 584.901101 831.2582589 0.535734984 0.580970323 0.410941229 0.583844783 0.557699447 0.886260492 0.488697569 0.568974416 0.703633431 1 9.699152959 -9.207396187 0.845841286 1.012462498 0.576502839 0.286384226 0.145898251 0.322752461 0.397574072 0.091087554 0.022895889 6.20E-10 9.207396187 -0.435959659 GEELSCEER ddPTM_HeLa_SAHA_4h_R1 1 GEELSCEER 9 0 P31947-2;P31947 P31947-2 SFN 14-3-3 protein sigma 0 0 137.14 0.0080702 10204000 934.56 871.77 438.79 656.68 931.84 927.69 742.01 799.99 897.39 583.41 FALSE FALSE TRUE 1032.861309 900.01592 498.5860161 669.390991 860.4426205 848.645593 658.5170819 779.5274142 891.1449899 608.5636602 1.697211609 1.478918277 0.819283254 1.099952289 1.413890899 1.394505864 1.082084135 1.280929942 1.464341446 1 9.249264377 GEETVLGGGTR ddPTM_HeLa_SAHA_4h_R1 1 GEETVLGGGTR 11 0 Q5T3I0;Q5T3I0-3 Q5T3I0 GPATCH4 G patch domain-containing protein 4 0 0 120.87 0.012687 9841700 1877.9 1890.9 2196.6 2304.1 2385.8 2297.1 2423.3 1631.2 1596.4 1673.8 FALSE FALSE TRUE 2075.426138 1952.166401 2495.941209 2348.699187 2203.000519 2101.374157 2150.623906 1589.476266 1585.290522 1745.965709 1.18869811 1.118101226 1.429547668 1.345214957 1.261766201 1.20355981 1.231767551 0.910370838 0.907973458 1 10.76980951 -8.697935252 0.727027192 1.005468194 1.225162842 0.35009739 0.134505306 0.653180011 0.67963378 0.074950442 0.029259944 2.00E-09 8.697935252 0.219694648 GEFS(ph)ASPMLK ddPTM_HeLa_SAHA_4h_R1 1 GEFSASPMLK 10 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 GEFS(0.5)AS(0.5)PMLK 120.86 0.002946 22632000 2220.5 2424.6 2141.4 2131.9 2567.6 2879.1 2452.9 2434 2651.5 2568.6 TRUE FALSE FALSE 2454.062378 2503.158631 2433.21884 2173.166007 2370.871043 2633.784483 2176.893236 2371.741804 2633.047996 2679.344916 0.915918799 0.934242775 0.908139458 0.811081094 0.884869667 0.982995682 0.812472192 0.885194657 0.982720806 1 11.3876646 -8.885413748 0.293210372 1.041382179 0.868607874 0.441981716 0.047159262 2.175819429 0.314793157 0.134230376 0.033158464 1.30E-09 8.885413748 -0.172774305 GEFSAS(ph)PMLK ddPTM_HeLa_SAHA_4h_R1 5 GEFSASPMLK 10 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 GEFS(0.166)AS(0.834)PMLK;GEFS(0.018)AS(0.982)PMLK;GEFS(0.003)AS(0.997)PMLK;GEFS(0.017)AS(0.983)PMLK;GEFS(0.005)AS(0.995)PMLK ;;;; 151.13 0.00058241 1017852000 16716.9 15518.8 15050.2 15659.5 16782.8 18609 17706.1 16311.5 17873.3 16713.6 TRUE FALSE FALSE 18475.26024 16021.6193 17101.16288 15962.61227 15496.90549 17023.40851 15713.76303 15894.27545 17748.91825 17434.20509 1.059713371 0.918976186 0.980897195 0.915591631 0.888879384 0.976437321 0.901318009 0.911671933 1.018051477 1 14.08963297 -7.253642019 24.86078783 1.028197981 0.928632248 0.67415114 0.031281874 247.135527 787957.1504 0.005757992 0.00698143 5.58E-08 7.253642019 -0.099565733 GEGDAPFSEPGTT(ph)STQRPSSPETATK ddPTM_HeLa_SAHA_4h_R1 1 GEGDAPFSEPGTTSTQRPSSPETATK 26 1 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3;A0A087X1W1 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 GEGDAPFS(0.002)EPGT(0.092)T(0.287)S(0.051)T(0.178)QRPS(0.198)S(0.159)PET(0.03)AT(0.002)K 60.171 0.0059313 150030000 2189 2795.7 2167.6 2389.4 2527.9 3326.1 3199.8 2217 4024.2 2558.5 TRUE FALSE FALSE 2419.249063 2886.282514 2462.98924 2435.650292 2334.212848 3042.697568 2839.750083 2160.29235 3996.195265 2668.809456 0.906489992 1.081486918 0.922879389 0.912635515 0.874627015 1.140095469 1.064051267 0.809459194 1.497370019 1 11.38198059 -5.310675071 24.99998495 0.95401364 1.010488236 0 0.196194372 793.4254227 402869.8438 0.013313626 0.029770206 4.89E-06 5.310675071 0.056474597 GEGDAPFSEPGTTST(ph)QRPS(ph)SPETATKQPSSPYEDKDK ddPTM_HeLa_SAHA_4h_R1 1 GEGDAPFSEPGTTSTQRPSSPETATKQPSSPYEDKDK 37 3 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3;A0A087X1W1 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 GEGDAPFS(0.026)EPGT(0.173)T(0.173)S(0.173)T(0.485)QRPS(0.445)S(0.445)PET(0.049)AT(0.02)KQPS(0.006)S(0.004)PYEDKDK 62.034 0.0001925 12642000 300.87 387.44 459.15 520.54 490.04 627.74 486.53 329.93 480.07 559.95 TRUE FALSE FALSE 332.516887 399.9933102 521.7205708 530.6158044 452.4932411 574.2530204 431.7843639 321.4908683 476.7291538 584.0921848 0.569288369 0.684811954 0.893216147 0.908445307 0.774694907 0.983154775 0.739240098 0.550411179 0.816188208 1 9.190052271 -9.643257179 1.494889344 0.999122872 0.745055781 0.081770559 0.144288403 0.426246182 1.721798446 0.105949307 0.024372937 2.27E-10 9.643257179 -0.254067091 GEGDAPFSEPGTTSTQRPS(ph)SPETATK ddPTM_HeLa_SAHA_4h_R1 3 GEGDAPFSEPGTTSTQRPSSPETATK 26 1 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3;A0A087X1W1 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 GEGDAPFS(0.017)EPGT(0.105)T(0.105)S(0.072)T(0.072)QRPS(0.344)S(0.273)PET(0.012)AT(0.001)K;GEGDAPFSEPGT(0.004)T(0.004)S(0.004)T(0.016)QRPS(0.475)S(0.475)PET(0.018)AT(0.004)K;GEGDAPFSEPGT(0.005)T(0.02)S(0.02)T(0.094)QRPS(0.428)S(0.428)PET(0.005)AT(0.001)K ;; 79.237 5.95E-05 283322000 3519.09 5080.4 3441.72 4473.69 4413.94 5746.9 4217.7 4443.9 6226.6 4094.8 TRUE FALSE FALSE 3889.244032 5245.008293 3910.739678 4560.284739 4075.744871 5257.231789 3743.113296 4330.231473 6183.268584 4271.346867 0.910542776 1.227951851 0.915575297 1.067645612 0.954206014 1.230813594 0.876330912 1.013785957 1.447615653 1 12.06047535 GEGDAPFSEPGTTSTQRPSS(ph)PETATK ddPTM_HeLa_SAHA_4h_R1 1 GEGDAPFSEPGTTSTQRPSSPETATK 26 1 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3;A0A087X1W1 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 GEGDAPFSEPGT(0.002)T(0.019)S(0.019)T(0.079)QRPS(0.403)S(0.449)PET(0.028)AT(0.002)K 76.002 0.00011685 142600000 1349.6 1962.4 1534 1632.5 2059.4 2155.9 2252.1 1415.7 2897.1 1695.8 TRUE FALSE FALSE 1491.55712 2025.983048 1743.045531 1664.099398 1901.609217 1972.205191 1998.687781 1379.488444 2876.938845 1768.914237 0.843204882 1.145325763 0.985375941 0.940746229 1.075014931 1.114924144 1.129895242 0.779850382 1.626386845 1 10.78864839 -7.273104542 24.95679035 0.925957864 1.029205941 0 0.246561082 1016.831345 2175434.138 0.019124007 0.021957907 5.33E-08 7.273104542 0.103248077 GEGDIHENVDTDLPGS(ph)LGQSEEKPVPAAPVPSPVAPAPVPSR ddPTM_HeLa_SAHA_4h_R1 1 GEGDIHENVDTDLPGSLGQSEEKPVPAAPVPSPVAPAPVPSR 42 1 Q9UK76;Q9UK76-3 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 1 0 GEGDIHENVDTDLPGS(0.687)LGQS(0.195)EEKPVPAAPVPS(0.118)PVAPAPVPSR 97.845 3.12E-14 8067900 578.99 723.26 558.86 659.1 908.43 936.76 690.91 653.67 1374.9 749.66 TRUE FALSE FALSE 639.8908247 746.6940985 635.0185304 671.8578336 838.8262897 856.9427779 613.1669884 636.9500679 1365.331959 781.9815113 0.818294059 0.954874364 0.812063356 0.859173553 1.072693251 1.095860664 0.784119547 0.814533411 1.745990077 1 9.610990688 GEGDIHENVDTDLPGSLGQSEEKPVPAAPVPS(ph)PVAPAPVPSR ddPTM_HeLa_SAHA_4h_R1 2 GEGDIHENVDTDLPGSLGQSEEKPVPAAPVPSPVAPAPVPSR 42 1 Q9UK76;Q9UK76-3 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 1 0 GEGDIHENVDTDLPGS(0.012)LGQS(0.01)EEKPVPAAPVPS(0.976)PVAPAPVPS(0.002)R;GEGDIHENVDT(0.001)DLPGS(0.245)LGQS(0.245)EEKPVPAAPVPS(0.507)PVAPAPVPS(0.001)R ; 86.425 4.27E-10 167590000 3175.4 4975.5 3250.7 3917.7 5390.8 5770.7 4908.5 4384.8 7196.1 3927.5 TRUE FALSE FALSE 3509.403141 5136.709465 3693.688467 3993.532749 4977.758069 5279.003895 4356.182662 4272.643165 7146.021754 4096.833746 0.856613512 1.253824242 0.90159589 0.974785163 1.215025646 1.288557023 1.063304721 1.042913486 1.744279167 1 12.00029363 -5.810713441 7.891038382 0.957306972 1.155634027 0 0.27658533 0.200004446 27.91833198 0.018790115 0.034306357 1.55E-06 5.810713441 0.198327056 GEGERPAQNEK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 GEGERPAQNEKR 12 2 A0A087X0X3;P52272-2;P52272;M0R019;M0R2T0;M0QYQ7;M0R0N3;M0R0Y6 A0A087X0X3 HNRNPM Heterogeneous nuclear ribonucleoprotein M 0 1 GEGERPAQNEK(1)R 90.434 0.012177 1836000 433.51 295.33 366.6 652.73 444.62 678.13 429.81 427.89 459.87 370.05 FALSE TRUE FALSE 479.1085708 304.8988858 416.5583388 665.364533 410.5533117 620.3495089 381.4466476 416.9451934 456.6697272 386.0046665 1.241198909 0.789883937 1.079153635 1.723721475 1.063596758 1.607103651 0.988191804 1.080155836 1.183067892 1 8.592474478 GEGLPFPK(ac)VPTQR ddPTM_HeLa_SAHA_4h_R1 1 GEGLPFPKVPTQR 13 1 O75953;O75953-4;O75953-5 O75953 DNAJB5 DnaJ homolog subfamily B member 5 0 1 GEGLPFPK(1)VPTQR 61.11 0.017176 1069200 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 GEGPDVDVNLPK ddPTM_HeLa_SAHA_4h_R1 3 GEGPDVDVNLPK 12 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ;; ;; 143.79 0.0031973 19244800 7452.9 4440.8 4458.7 5906.8 4380.51 6923.6 6619.9 5762.6 6846.9 5869.9 FALSE FALSE TRUE 8236.830217 4584.684834 5066.308416 6021.134655 4044.87627 6333.670329 5875.011429 5615.201036 6799.251865 6122.980116 1.345232234 0.748766899 0.82742526 0.983366684 0.660605815 1.03440975 0.959501961 0.917069945 1.110448138 1 12.58001828 -7.255024532 24.98503668 1.163026333 0.879182632 0.479990832 0.13146879 376.6023847 1466820.758 0.02683578 0.032452085 5.56E-08 7.255024532 -0.283843701 GEGPEVDVNLPK ddPTM_HeLa_SAHA_4h_R1 3 GEGPEVDVNLPK 12 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ;; ;; 132.32 0.0057546 23124300 5896.5 4063.45 3898.88 5015.73 3759.64 6192.8 4728.23 4550.57 5785.7 4408.13 FALSE FALSE TRUE 6516.720924 4195.108446 4430.199062 5112.816707 3471.577195 5665.1386 4196.197116 4434.173009 5745.436843 4598.186057 1.417237329 0.912339865 0.963466682 1.111920362 0.754988413 1.232037706 0.912576626 0.964330924 1.249500732 1 12.16684913 -7.2312421 24.95931137 1.197028774 0.981921975 0.346171029 0.152092833 749.2807492 619312.6348 0.030777989 0.03769254 5.87E-08 7.2312421 -0.215106799 GEGPGEAGGPLT(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 GEGPGEAGGPLTPR 14 0 P50548-2;P50548 P50548-2 ERF ETS domain-containing transcription factor ERF 1 0 GEGPGEAGGPLT(1)PR;GEGPGEAGGPLT(1)PR;GEGPGEAGGPLT(1)PR ;; 136.33 0.00056376 37795000 2033.75 2095.81 1815.6 2208.44 2542.57 2656.39 2263.62 2181.54 2027.27 2228.02 TRUE FALSE FALSE 2247.669156 2163.715619 2063.020513 2251.18755 2347.758836 2430.050628 2008.91152 2125.739366 2013.162063 2324.080846 0.967121759 0.93099843 0.887671578 0.968635645 1.010188109 1.045596427 0.864389689 0.914658098 0.866218603 1 11.18244454 GEGQLGPAER ddPTM_HeLa_SAHA_4h_R1 2 GEGQLGPAER 10 0 P13639 P13639 EEF2 Elongation factor 2 0 0 ; ; 128.35 0.0018417 2019610 874.21 1202.5 1346.71 1111.3 1090.19 1327.22 1166.1 1130.82 974.6 823.08 FALSE FALSE TRUE 966.1634188 1241.461789 1530.232625 1132.810818 1006.659878 1214.133389 1034.887359 1101.895262 967.8176792 858.5670069 1.125320926 1.445969597 1.782310074 1.319420394 1.172488425 1.41413935 1.20536586 1.283412073 1.127247695 1 9.745786924 -7.410647527 3.8544305 1.052822039 1.374679716 0.403121096 0.162358528 0.168527302 4.294417382 0.030395056 0.034282614 3.88E-08 7.410647527 0.321857677 GEHGFIGCR ddPTM_HeLa_SAHA_4h_R1 3 GEHGFIGCR 9 0 Q16658;C9JPH9;C9JFC0;A0A0A0MSB2 Q16658 FSCN1 Fascin 0 0 ;; ;; 120.12 0.0039554 30926400 4499.1 3786.1 4427.3 4931.8 5177.5 2363.46 4753.1 3522.7 3698.5 4018.1 FALSE FALSE TRUE 4972.335981 3908.772124 5030.629388 5027.262121 4780.801069 2162.079912 4218.268679 3432.594435 3672.761837 4191.339955 1.186335643 0.932582937 1.200243703 1.199440316 1.140637868 0.515844559 1.006424848 0.818973042 0.876273907 1 12.03319583 -5.302615939 24.99897404 1.098173544 0.803014954 0.426938332 0.155127031 298.4215818 181176.2684 0.019682732 0.044012347 4.98E-06 5.302615939 -0.29515859 GEHSIVYLK(ac)PSYAFGSVGK ddPTM_HeLa_SAHA_4h_R1 1 GEHSIVYLKPSYAFGSVGK 19 1 Q02790 Q02790 FKBP4 "Peptidyl-prolyl cis-trans isomerase FKBP4;Peptidyl-prolyl cis-trans isomerase FKBP4, N-terminally processed" 0 1 GEHSIVYLK(1)PSYAFGSVGK 124.18 6.05E-05 839230 125.79 470.49 154.04 365.75 472.68 140.51 576.7 276.29 550.75 132.93 FALSE TRUE FALSE 139.0211693 485.7341847 175.031769 372.8296201 436.4633605 128.5377575 511.8081982 269.2229019 546.9172859 138.6612628 1.002595581 3.503027268 1.262297526 2.688779927 3.147694977 0.926991107 3.691068347 1.941586975 3.94426875 1 7.115420995 -7.298500576 22.85479215 1.001225097 2.430814132 0 1.258813485 138.7420455 85558.61501 0.129234139 0.147788919 5.03E-08 7.298500576 1.429589035 GEIKDSSPSSSPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 GEIKDSSPSSSPSPK 15 1 Q6WKZ4;E7EX40;Q6WKZ4-2;Q6WKZ4-3 Q6WKZ4 RAB11FIP1 Rab11 family-interacting protein 1 1 0 GEIKDSSPSS(0.001)S(0.002)PS(0.997)PK 85.203 0.0068248 8364800 2174.7 1588.6 2437.7 2212.9 2398.9 3102.3 3110.6 3428.2 1670.4 1843.4 TRUE FALSE FALSE 2403.444924 1640.071682 2769.897061 2255.733879 2215.0968 2837.966587 2760.587101 3340.511608 1658.77555 1922.877995 1.249920655 0.852925503 1.44049548 1.173102966 1.151969499 1.475895295 1.4356538 1.737245741 0.862652521 1 10.90905151 -1 0.327272294 1.084080205 7.515837598 0.640059845 0.163587269 24.3680868 0.309738371 0.047971563 95.83800243 0.1 1 6.431757393 GEIQGLVS(ph)ALQEVR ddPTM_HeLa_SAHA_4h_R1 2 GEIQGLVSALQEVR 14 0 A0A590UK13 A0A590UK13 1 0 GEIQGLVS(1)ALQEVR;GEIQGLVS(1)ALQEVR ; 79.633 0.013655 94968000 3222 2296.9 3620.3 2911.2 3125.3 2815.1 3526 2440.6 1651.94 2953.7 TRUE FALSE FALSE 3560.904743 2371.321067 4113.65563 2967.550486 2885.840189 2575.237643 3129.2452 2378.172986 1640.444015 3081.048462 1.155744477 0.769647442 1.33514798 0.963162547 0.936642258 0.835831593 1.015642967 0.771871334 0.532430449 1 11.58920566 -6.010242085 23.31886585 1.069255316 0.901952639 0 0.222787656 220.4594796 501940.0749 0.020391676 0.035380672 9.77E-07 6.010242085 -0.167302677 GEK(ac)GEVVETVEDVIVR ddPTM_HeLa_SAHA_4h_R1 1 GEKGEVVETVEDVIVR 16 1 Q9H0E9-4;Q9H0E9-2;H7C179;B5MCW3;H7C127;Q9H0E9;H7C128 Q9H0E9-4 BRD8 Bromodomain-containing protein 8 0 1 GEK(1)GEVVETVEDVIVR 120.66 0.002945 0 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 GEK(ac)ILPVFDEPPNPTNVEESLKR ddPTM_HeLa_SAHA_4h_R1 1 GEKILPVFDEPPNPTNVEESLKR 23 2 Q9NYL9;H0YKU1;H0YNJ8 Q9NYL9 TMOD3 Tropomodulin-3 0 1 GEK(1)ILPVFDEPPNPTNVEESLKR 141.79 8.51E-14 1247900 492.14 363.28 348.14 425.53 448.4 466.77 582.63 426.57 345.32 249.99 FALSE TRUE FALSE 543.9055432 375.0505104 395.5827062 433.7667485 414.0436889 426.99857 517.070939 415.6589571 342.91689 260.7682923 2.085780976 1.438251971 1.516989288 1.663418296 1.587783872 1.637463536 1.982875044 1.593978138 1.315025255 1 8.026624648 -9.533382639 1.281521353 0.998363412 1.727187457 0.47473662 0.212448028 0.245020182 0.718000994 0.155800752 0.036831161 2.93E-10 9.533382639 0.728824046 GELS(ph)PSFLNPPLPPSIDDR ddPTM_HeLa_SAHA_4h_R1 1 GELSPSFLNPPLPPSIDDR 19 0 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 GELS(0.918)PS(0.082)FLNPPLPPSIDDR 145.88 8.92E-05 5383200 67.262 330.83 201.17 315.1 406.07 393.27 302.82 307.49 419.56 262.48 TRUE FALSE FALSE 74.33692577 341.5491091 228.5844 321.1992161 374.9570043 359.7611835 268.7458966 299.624851 416.6402478 273.7967973 0.271504 1.247454727 0.834868787 1.173129924 1.369471842 1.313971482 0.981552375 1.094332928 1.521713372 1 8.096961761 -7.23857393 24.87825726 0.655987983 1.142974661 0 0.350909036 599.7238805 652517.2958 0.050472721 0.061794139 5.77E-08 7.23857393 0.486986678 GELSPS(ph)FLNPPLPPSIDDR ddPTM_HeLa_SAHA_4h_R1 1 GELSPSFLNPPLPPSIDDR 19 0 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 GELS(0.434)PS(0.566)FLNPPLPPSIDDR 139.9 9.15E-05 3470500 195 331.24 174.63 274.41 313.23 300.64 329.28 206.49 344.8 202.72 TRUE FALSE FALSE 215.5109947 341.9723933 198.427667 279.7216024 289.2303851 275.0237806 292.2285478 201.2082848 342.4005087 211.4602513 1.019156051 1.61719468 0.938368633 1.322809373 1.367776607 1.300593274 1.381954982 0.951518234 1.619219246 1 7.724242692 -7.468030454 24.99993701 1.008450725 1.271017972 0 0.27035345 252.3005345 114999.5558 0.029200998 0.033373881 3.40E-08 7.468030454 0.262567247 GELSPSFLNPPLPPS(ph)IDDRDLSTEEVR ddPTM_HeLa_SAHA_4h_R1 2 GELSPSFLNPPLPPSIDDRDLSTEEVR 27 1 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 GELSPSFLNPPLPPS(0.999)IDDRDLSTEEVR;GELS(0.024)PS(0.14)FLNPPLPPS(0.836)IDDRDLSTEEVR ; 126.3 1.34E-08 19342000 1262.25 1280.44 1422.98 1655.68 1539.23 1721.78 1766.06 1789.33 1405.9 1330.56 TRUE FALSE FALSE 1395.019246 1321.927096 1616.896304 1687.728081 1421.29453 1575.074658 1567.338281 1743.56153 1396.116227 1387.926953 1.00510999 0.952447168 1.164972191 1.216006416 1.024041306 1.134839736 1.129265684 1.256234361 1.005900364 1 10.43871593 -6.754313415 24.99975231 0.998733032 1.149101483 0.647298279 0.058888494 80.7229295 283195.9958 0.008992124 0.012563036 1.76E-07 6.754313415 0.150368451 GELVGGLDIVK ddPTM_HeLa_SAHA_4h_R1 1 GELVGGLDIVK 11 0 O76003 O76003 GLRX3 Glutaredoxin-3 0 0 118.18 0.0066134 294160 264.26 253.22 180.16 154.61 181.5 71.511 281.7 159.15 0 144.9 FALSE FALSE TRUE 292.0560793 261.4244941 204.7112666 157.6027001 167.5935092 65.41786049 250.0023746 155.0791734 0 151.1473481 1.932260691 1.72960027 1.354382125 1.042708999 1.108808797 0.432808523 1.654030836 1.026013194 0 1 7.239811857 -6.36121762 3.991399883 1.476458319 1.0544409 0 0.585809061 0.330194658 9.428832786 0.069016295 0.107684201 4.35E-07 6.36121762 -0.42201742 GENLVSMTVEGPPPKDTGIAR ddPTM_HeLa_SAHA_4h_R1 1 GENLVSMTVEGPPPKDTGIAR 21 1 J3QLE5;P14678-2;P63162;P14678;P63162-2;P14678-3 J3QLE5 SNRPN;SNRPB Small nuclear ribonucleoprotein-associated proteins B and B;Small nuclear ribonucleoprotein-associated protein N 0 0 158.44 5.86E-12 952380 225.09 209.22 212.55 258.12 270.13 166.42 197.95 135.64 126.02 162.33 FALSE FALSE TRUE 248.7659989 215.9988653 241.5152071 263.1162858 249.4326978 152.2400797 175.676145 132.1705252 125.1430166 169.3288407 1.469129523 1.275617694 1.42630875 1.55387756 1.473066825 0.899079443 1.037485075 0.780555307 0.73905317 1 7.403683909 -5.243937971 24.33535215 1.286283612 0.918884379 0.333780556 0.239720819 505.8941967 703433.5312 0.032010861 0.081382929 5.70E-06 5.243937971 -0.367399233 GEPAAAAAPEAGAS(ph)PVEK ddPTM_HeLa_SAHA_4h_R1 3 GEPAAAAAPEAGASPVEK 18 0 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 GEPAAAAAPEAGAS(1)PVEK;GEPAAAAAPEAGAS(1)PVEK;GEPAAAAAPEAGAS(1)PVEK ;; 237.66 6.13E-30 101582600 8431.53 14413.9 8043.5 10209.8 12011.3 15491.7 11909.1 9189.6 18470.7 11161.3 TRUE FALSE FALSE 9318.397011 14880.91982 9139.626291 10407.42544 11090.99679 14171.72001 10569.05672 8954.543338 18342.16089 11642.51827 0.800376413 1.278153015 0.785021426 0.89391532 0.952628678 1.217238374 0.907798166 0.769124268 1.575446177 1 13.50711553 GEPNVS(ph)YICSR ddPTM_HeLa_SAHA_4h_R1 3 GEPNVSYICSR 11 0 A0A3B3ITW1;P49841;P49841-2;A8MT37;P49840 A0A3B3ITW1;P49840 GSK3B;GSK3A Glycogen synthase kinase-3 beta;Glycogen synthase kinase-3 alpha 1 0 GEPNVS(0.66)Y(0.34)ICSR;GEPNVS(0.997)Y(0.003)ICSR;GEPNVS(0.974)Y(0.023)ICS(0.003)R ;; 169.58 0.00010291 47737000 2201.29 2064.98 2019.37 2089.93 2042.63 2398.97 2029.66 2251.33 1873.3 2142.43 TRUE FALSE FALSE 2432.831782 2131.886707 2294.559227 2130.383617 1886.124131 2194.56426 1801.277315 2193.744238 1860.263553 2234.800642 1.088612441 0.953949389 1.026740007 0.953276806 0.843978696 0.981995538 0.806012528 0.981628606 0.832406935 1 11.12593042 -6.24582777 1.614338292 1.037300333 0.900471007 0 0.088824499 0.230072856 1.171779689 0.009820673 0.018021954 5.68E-07 6.24582777 -0.136829326 GEPNVSY(ph)ICSR ddPTM_HeLa_SAHA_4h_R1 3 GEPNVSYICSR 11 0 A0A3B3ITW1;P49841;P49841-2;A8MT37;P49840 A0A3B3ITW1;P49840 GSK3B;GSK3A Glycogen synthase kinase-3 beta;Glycogen synthase kinase-3 alpha 1 0 GEPNVS(0.072)Y(0.928)ICSR;GEPNVS(0.008)Y(0.992)ICSR;GEPNVS(0.131)Y(0.869)ICS(0.001)R ;; 199.33 1.01E-09 683231000 4464.61 4639.77 4204.51 4646.1 4560.5 5379.11 5283.44 5139.96 4371.49 4442.32 TRUE FALSE FALSE 4934.218164 4790.101592 4777.478727 4736.031984 4211.075475 4920.779566 4688.933426 5008.487266 4341.068445 4633.850155 1.064820397 1.03371957 1.030995515 1.022051172 0.908763843 1.061920304 1.01188715 1.080847912 0.936816751 1 12.17799568 -5.999188313 24.99993118 1.031471278 1.012180023 0 0.053806814 88.73514788 2732868.863 0.006904605 0.012454197 1.00E-06 5.999188313 -0.019291255 GEPPAAS(ph)PEASTCQSK ddPTM_HeLa_SAHA_4h_R1 1 GEPPAASPEASTCQSK 16 0 Q7Z333-3;Q7Z333;Q7Z333-4;X6RI79 Q7Z333-3 SETX Probable helicase senataxin 1 0 GEPPAAS(0.956)PEAS(0.041)T(0.002)CQSK 157.47 5.46E-06 4466500 1891.7 1190.4 1252.6 1490.7 1631.4 2128.5 1646 1808.7 1836.8 1552.8 TRUE FALSE FALSE 2090.677685 1228.969741 1423.297805 1519.554654 1506.402484 1947.139825 1460.787748 1762.436073 1824.017559 1619.748807 1.29074192 0.758740945 0.878715143 0.938142166 0.930022284 1.202124562 0.901860672 1.088092218 1.126111377 1 10.66155438 -7.270888992 24.97983852 1.13729479 0.959383028 0.29124886 0.130152641 731.2063684 1932924.105 0.026088949 0.030042771 5.36E-08 7.270888992 -0.177911762 GEQVSQNGLPAEQGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 GEQVSQNGLPAEQGSPR 17 0 A0A087WUZ3;Q01082;Q01082-2;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 GEQVSQNGLPAEQGS(1)PR;GEQVSQNGLPAEQGS(1)PR ; 229.22 8.67E-28 21279000 2396.8 2891.1 1878.38 1995.38 2705.4 3312.2 2611.9 2105.85 3721.7 2515 TRUE FALSE FALSE 2648.906421 2984.773537 2134.355844 2034.003465 2498.112836 3029.981926 2318.002138 2051.985406 3695.800387 2623.433958 1.009709588 1.137735344 0.813573308 0.77532101 0.952230121 1.154967868 0.883575564 0.782175362 1.408764408 1 11.35724076 -6.750496353 24.99990692 1.014699472 0.902346575 0.229696745 0.166066726 281.2846866 642607.3845 0.017977029 0.025284852 1.78E-07 6.750496353 -0.112352897 GES(ph)ENAGTNQETR ddPTM_HeLa_SAHA_4h_R1 4 GESENAGTNQETR 13 0 Q08170 Q08170 SRSF4 Serine/arginine-rich splicing factor 4 1 0 GES(1)ENAGTNQETR;GES(1)ENAGTNQETR;GES(0.971)ENAGT(0.028)NQET(0.001)R;GES(0.998)ENAGT(0.002)NQETR ;;; 196.37 3.86E-08 62565700 2897.64 3724.56 2458.69 3223.56 3830.64 4822.98 3434.95 3019.51 4694.28 3595.06 TRUE FALSE FALSE 3202.42707 3845.238188 2793.747469 3285.956665 3537.137191 4412.034971 3048.440386 2942.275306 4661.612123 3750.06063 0.853966745 1.025380272 0.74498728 0.876240944 0.943221334 1.176523637 0.812904293 0.784594063 1.243076468 1 11.87269821 -9.528839988 1.254549682 1.000608328 0.901373944 0.18158201 0.142503867 1.002374982 2.796574126 0.085951164 0.020027537 2.96E-10 9.528839988 -0.099234384 GESAADS(ph)DGWDSAPSDLR ddPTM_HeLa_SAHA_4h_R1 4 GESAADSDGWDSAPSDLR 18 0 I3L4Q4;Q9BUL5-4;Q9BUL5;A0A087WVQ2;I3L0Y2;Q9BUL5-2 I3L4Q4 PHF23 PHD finger protein 23 1 0 GESAADS(0.5)DGWDS(0.5)APSDLR;GESAADS(0.998)DGWDS(0.002)APSDLR;GESAADS(0.993)DGWDS(0.007)APSDLR;GES(0.007)AADS(0.993)DGWDSAPSDLR ;;; 203.06 1.83E-16 8574700 1205.31 1419.21 1070.96 1113.6 1349.25 1306.54 1359.14 1262.84 1452.58 1103.09 TRUE FALSE FALSE 1332.090036 1465.193335 1216.904851 1135.155338 1245.870756 1195.215442 1206.20599 1230.538381 1442.471378 1150.649608 1.157685212 1.273361868 1.057580729 0.986534328 1.082754252 1.03873102 1.048282624 1.069429279 1.253614799 1 10.16823286 -6.541201132 24.99808991 1.094984793 1.04455381 0.154507704 0.086848976 546.1975657 745200.1861 0.014076017 0.019908019 2.88E-07 6.541201132 -0.050430983 GESEDDFWWCIDR ddPTM_HeLa_SAHA_4h_R1 2 GESEDDFWWCIDR 13 0 H0Y8B3;O43865-2;Q96HN2-4;Q96HN2-3;O43865;Q96HN2-2;Q96HN2 H0Y8B3 AHCYL2;AHCYL1 Adenosylhomocysteinase;Putative adenosylhomocysteinase 2;Putative adenosylhomocysteinase 3 0 0 ; ; 186.46 1.80E-06 15016700 1333.09 1526.8 1937.91 1560.6 1841.26 1742.63 2071.27 1116.96 1825.46 1701.94 FALSE FALSE TRUE 1473.310523 1576.269322 2201.998283 1590.80767 1700.183057 1594.14812 1838.205248 1088.389781 1812.756475 1775.318962 0.829884969 0.887879505 1.240339527 0.896068652 0.957677517 0.897950258 1.035422528 0.613067175 1.021087767 1 10.79386253 -4.251169303 24.43792981 0.942730981 0.613066922 0.461130471 0.112574909 811.0914579 1929962.119 0.01591468 0.291552847 5.61E-05 4.251169303 -0.329664058 GESLDNLDS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 GESLDNLDSPR 11 0 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 GESLDNLDS(1)PR;GESLDNLDS(1)PR ; 184.96 1.61E-22 0 1970.96 2043.43 2050.67 2455.48 2174.02 2407.45 2328.21 2321.32 2443.37 2295.44 TRUE FALSE FALSE 2178.274616 2109.638473 2330.124628 2503.009366 2007.447057 2202.321716 2066.233683 2261.943996 2426.366389 2394.407652 0.909734236 0.881069049 0.973152849 1.045356401 0.838389844 0.919777263 0.86294148 0.944677901 1.013347242 1 11.22545308 -13.52287875 0.264967799 1.565971888 0.912797613 0.269174508 0.055566039 53.05489489 0.710134648 15.77070372 0.029698682 3.00E-14 13.52287875 -0.653174275 GESSS(ph)PSPSAEK ddPTM_HeLa_SAHA_4h_R1 1 GESSSPSPSAEK 12 0 E9PHV5;P28290-3;P28290;P28290-2 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 GES(0.002)S(0.166)S(0.499)PS(0.316)PS(0.016)AEK 107.65 0.0035975 2382700 1003.8 1650.5 1012 1407.1 1936.9 2679.3 1808.5 1524.8 2104.2 2129.6 TRUE FALSE FALSE 1109.38429 1703.977283 1149.91009 1434.336455 1788.49514 2451.008567 1605.00282 1485.797824 2089.556701 2221.417478 0.499403782 0.767067559 0.517646998 0.64568523 0.805114373 1.103353418 0.722512916 0.668851235 0.940641154 1 11.11726483 -4.521542163 24.99931384 0.75978018 0.682266562 0.024925296 0.1871334 204.5580907 3825867.571 0.03140891 0.120941806 3.01E-05 4.521542163 -0.077513618 GESSSPS(ph)PSAEK ddPTM_HeLa_SAHA_4h_R1 2 GESSSPSPSAEK 12 0 E9PHV5;P28290-3;P28290;P28290-2 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 GES(0.009)S(0.302)S(0.206)PS(0.476)PS(0.007)AEK;GESS(0.002)S(0.157)PS(0.822)PS(0.019)AEK ; 179.93 2.35E-05 4410200 1576.39 2748.79 1560.83 1972.17 2740.09 4047.9 3024.32 2325.65 3125.23 2655.08 TRUE FALSE FALSE 1742.201933 2837.8526 1773.531784 2010.344202 2530.144896 3702.996147 2684.015554 2266.163241 3103.48127 2769.553492 0.629055166 1.024660693 0.640367405 0.725873036 0.91355697 1.337037236 0.969114899 0.818241369 1.12057098 1 11.43543769 -5.517015542 24.52616691 0.816003077 1.049407467 0.130628322 0.196644567 229.0004445 957921.6616 0.028142216 0.057825428 3.04E-06 5.517015542 0.23340439 GESSSPS(ph)PSAEKGK ddPTM_HeLa_SAHA_4h_R1 1 GESSSPSPSAEKGK 14 1 E9PHV5;P28290-3;P28290;P28290-2 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 GES(0.006)S(0.022)S(0.235)PS(0.72)PS(0.017)AEKGK 68.329 0.019133 3771600 1741.3 2179 1780.3 2192.3 2560.5 2621.2 2782.6 2406.4 2000.2 2623.2 TRUE FALSE FALSE 1924.457923 2249.60103 2022.910013 2234.735137 2364.315043 2397.859014 2469.494525 2344.847772 1986.280445 2736.29899 0.703306887 0.822132756 0.739286906 0.816699909 0.864055811 0.876314695 0.902494404 0.856941358 0.725900369 1 11.41801016 GET(ph)KAFY(ph)PEEIS(ph)SMVLTK ddPTM_HeLa_SAHA_4h_R1 1 GETKAFYPEEISSMVLTK 18 1 A0A0G2JIW1;P0DMV9;P0DMV8 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 3 0 GET(0.997)KAFY(0.991)PEEIS(0.337)S(0.337)MVLT(0.337)K 42.813 0.023244 5438100 798.52 888.23 915.59 713.7 789.18 464.55 849.11 763.65 1032.7 986.57 TRUE FALSE FALSE 882.5119973 917.0092348 1040.361837 727.5146955 728.7131989 424.9677265 753.5659081 744.1169388 1025.513357 1029.105861 0.857552202 0.891073766 1.010937627 0.706938638 0.708103244 0.412948505 0.732253053 0.723071325 0.996509101 1 10.00717568 -6.105831375 3.679488115 0.932396642 0.639013927 0.694919779 0.097560317 0.113155035 2.794676499 0.015465087 0.026721877 7.84E-07 6.105831375 -0.293382715 GETESEEFEK ddPTM_HeLa_SAHA_4h_R1 1 GETESEEFEK 10 0 E7EX44;Q05682-3;Q05682-6;Q05682-2;Q05682;Q05682-5;Q05682-4;E9PGZ1;C9J813 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 0 0 108.67 0.0071458 0 348.64 302.3 236.17 434.34 444.23 604.5 430.68 397.83 481.02 531.36 FALSE FALSE TRUE 385.3115548 312.0947183 268.3540177 442.7472788 410.1931934 552.9931992 382.2187529 387.6540847 477.6725427 554.26953 0.69517001 0.563073922 0.484157983 0.798794187 0.740060875 0.997697274 0.68959005 0.699396347 0.861805524 1 9.11444389 -9.093142948 0.950753949 0.99355619 0.711682384 0.285090211 0.13464156 0.446771055 0.752696337 0.081203648 0.02627302 8.07E-10 9.093142948 -0.281873806 GEVLGLSSS(ph)LGK ddPTM_HeLa_SAHA_4h_R1 1 GEVLGLSSSLGK 12 0 F1LLU8;Q9NQG7-2;Q9NQG7-3;Q9NQG7;Q9NQG7-4 F1LLU8 HPS4 Hermansky-Pudlak syndrome 4 protein 1 0 GEVLGLSS(0.001)S(0.999)LGK 206.74 1.08E-10 7649400 2921.6 3016.4 2774.3 2919 3276.4 3273.4 3365.8 3038.5 2655.7 2920.1 TRUE FALSE FALSE 3228.907293 3114.133339 3152.367156 2975.501466 3025.36294 2994.487904 2987.071326 2960.77957 2637.218767 3045.999802 1.060048425 1.022368202 1.034920342 0.976855437 0.99322493 0.983088673 0.980653815 0.972022246 0.865797419 1 11.57270013 -6.260790108 24.99726189 1.028979671 0.981916817 0 0.053634785 37.35498712 1438171.012 0.003448426 0.005510129 5.49E-07 6.260790108 -0.047062854 GEVPGGSAHY(ph)GGPSPEKK ddPTM_HeLa_SAHA_4h_R1 1 GEVPGGSAHYGGPSPEKK 18 1 J3KS37;O94762-4;O94762 J3KS37 RECQL5 ATP-dependent DNA helicase Q5 1 0 GEVPGGS(0.052)AHY(0.778)GGPS(0.17)PEKK 50.053 0.013496 8541100 1146.8 1444.1 780.45 1315.2 2115.5 3220.1 1675.5 2163.7 1715.6 1636 TRUE FALSE FALSE 1267.425686 1490.889788 886.8056616 1340.657598 1953.410847 2945.729364 1486.96833 2108.355687 1703.661 1706.535966 0.742689114 0.87363514 0.519652488 0.785601724 1.144664329 1.726145491 0.871337235 1.235459275 0.99831532 1 10.73685511 -5.651087744 4.995640322 0.840068325 1.265814521 0.449751878 0.231983736 0.156017284 6.227091059 0.033886308 0.06878878 2.23E-06 5.651087744 0.425746196 GEYQES(ph)LRSLEEEGQELPQSADVQR ddPTM_HeLa_SAHA_4h_R1 1 GEYQESLRSLEEEGQELPQSADVQR 25 1 P48681 P48681 NES Nestin 1 0 GEY(0.014)QES(0.884)LRS(0.102)LEEEGQELPQSADVQR 115.96 2.37E-07 3881100 209.89 283.87 117.34 157.26 270.36 306.17 165.44 182.15 310.48 148.67 TRUE FALSE FALSE 231.9671932 293.0675743 133.3304841 160.3039947 249.6450752 280.0825935 146.8242558 177.4908668 308.3193444 155.0798913 1.495791565 1.889784497 0.859753531 1.03368653 1.609783662 1.806053585 0.946765274 1.144512453 1.988132322 1 7.276867819 -9.427483592 1.211003545 1.003925373 1.362922178 0 0.455335346 0.772689045 2.060927597 0.224533361 0.059045912 3.74E-10 9.427483592 0.358996804 GEYQESLRS(ph)LEEEGQELPQSADVQR ddPTM_HeLa_SAHA_4h_R1 1 GEYQESLRSLEEEGQELPQSADVQR 25 1 P48681 P48681 NES Nestin 1 0 GEYQES(0.06)LRS(0.939)LEEEGQELPQSADVQR 98.533 7.47E-06 3675600 0 64.468 255.69 146.74 149.08 199.8 166.39 0 152.07 0 TRUE FALSE FALSE 0 66.5568055 290.5341016 149.5803649 137.6575226 182.775916 147.6673593 0 151.0117325 0 0 GFAFISFHR ddPTM_HeLa_SAHA_4h_R1 2 GFAFISFHR 9 0 K7ENA8;O75821;K7EP16 K7ENA8 EIF3G Eukaryotic translation initiation factor 3 subunit G 0 0 ; ; 107.69 0.0019315 2051810 1022.02 753.48 5513.4 3577.3 2372.9 426.51 3944.4 107.43 116.16 521.34 FALSE FALSE TRUE 1129.520753 777.8932464 6264.737439 3646.543814 2191.088915 390.1689485 3500.565731 104.6820962 115.3516331 543.8175188 2.077021636 1.430430649 11.51992575 6.705454842 4.029088507 0.717463 6.437022733 0.192494895 0.212114596 1 9.086978817 GFAFVTFESPADAK ddPTM_HeLa_SAHA_4h_R1 2 GFAFVTFESPADAK 14 0 P38159;H0Y6E7;H3BT71;H3BR27;P38159-3;O75526;Q8N7X1;Q96E39;A0A1B0GUK8 P38159;Q96E39 RBMX;RBMXL2;RBMXL3;RBMXL1 "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed;RNA-binding motif protein, X-linked-like-2;RNA-binding motif protein, X-linked-like-3;RNA binding motif protein, X-linked-like-1" 0 0 ; ; 212.09 2.60E-32 1725300 796.39 818.77 954.68 1033.59 1139.04 1218.47 1195.56 732.16 1223.91 1289.48 FALSE FALSE TRUE 880.1579542 845.2986852 1084.778819 1053.596629 1051.767001 1114.649501 1061.032442 713.4324074 1215.392711 1345.075793 0.654355657 0.628439445 0.806481556 0.783299078 0.781938837 0.82868899 0.788827252 0.530403127 0.903586784 1 10.39347175 -9.366520263 1.06662391 1.001483927 0.728713558 0.473193428 0.093798882 0.317448309 0.640746547 0.065241754 0.016540448 4.30E-10 9.366520263 -0.272770369 GFCFITFK ddPTM_HeLa_SAHA_4h_R1 2 GFCFITFK 8 0 Q14103-3;Q14103;H0YA96;H0Y8G5;Q14103-4;Q14103-2 Q14103-3 HNRNPD Heterogeneous nuclear ribonucleoprotein D0 0 0 ; ; 151.75 2.17E-05 3285900 813.94 1179.27 1433.08 1390.23 1156.44 516.97 1505.49 123.71 486.27 771.42 FALSE FALSE TRUE 899.5539437 1217.479122 1628.372679 1417.139912 1067.833817 472.9212476 1336.088303 120.5456773 482.8860075 804.6796914 1.117903127 1.512998445 2.023628403 1.761123 1.32702966 0.587713661 1.660397693 0.149805791 0.600097172 1 9.652270812 -5.2859485 24.01472843 1.236429715 0.885414796 0.160181648 0.518159755 874.8607268 857212.2277 0.072648182 0.16253194 5.18E-06 5.2859485 -0.351014919 GFCFITFKEEEPVKK ddPTM_HeLa_SAHA_4h_R1 2 GFCFITFKEEEPVKK 15 2 Q14103-3;Q14103;H0YA96;H0Y8G5;Q14103-4;Q14103-2 Q14103-3 HNRNPD Heterogeneous nuclear ribonucleoprotein D0 0 0 ; ; 75.89 0.011333 3787700 913.43 804.13 1531.55 1399.31 1516.89 1560.29 1650.79 887.85 1232.17 1330.58 FALSE FALSE TRUE 1009.508758 830.1843396 1740.261658 1426.395668 1400.666216 1427.344514 1465.038765 865.1400826 1223.595229 1387.947816 0.727339131 0.598138007 1.25383796 1.027701224 1.009163457 1.028384856 1.055543118 0.623323206 0.881585903 1 10.43873761 -6.761351769 25 0.847162978 1.005211517 0.215124435 0.176680764 3.647424464 1040506.911 0.030315731 0.041328841 1.73E-07 6.761351769 0.158048539 GFCFITYTDEEPVKK ddPTM_HeLa_SAHA_4h_R1 2 GFCFITYTDEEPVKK 15 1 O14979-3;O14979-2;A0A087WUK2;O14979 O14979-3 HNRNPDL Heterogeneous nuclear ribonucleoprotein D-like 0 0 ; ; 81.789 0.011332 1765000 514.85 752.273 715.43 896.95 1045.7 1062.18 938.43 621.76 881.53 744.17 FALSE FALSE TRUE 569.0042852 776.6471388 812.9250746 914.3117643 965.5786919 971.6762883 832.8353866 605.8562795 875.395361 776.2548106 0.73301225 1.000505412 1.047239983 1.177850046 1.243893988 1.251749136 1.072889179 0.780486344 1.127716504 1 9.600386494 -6.875429909 2.809902725 0.874024132 1.115298147 0.071182361 0.16093938 0.23701365 3.798622933 0.02675409 0.036200267 1.33E-07 6.875429909 0.241274015 GFCFLEYEDHK ddPTM_HeLa_SAHA_4h_R1 2 GFCFLEYEDHK 11 0 O43390;B4DT28;O43390-4;O43390-3;O43390-2;O60506-2;O60506;O60506-4;O60506-3;B7Z645;O60506-5 O43390;O60506-2 HNRNPR;SYNCRIP Heterogeneous nuclear ribonucleoprotein R;Heterogeneous nuclear ribonucleoprotein Q 0 0 ; ; 80.763 0.013668 944770 1323.8 1592.27 1646.61 1439.57 1650.31 1729.75 1776.4 1261.45 1519.72 1607.71 FALSE FALSE TRUE 1463.043358 1643.860593 1871.001436 1467.434959 1523.863604 1582.365569 1576.514797 1229.183936 1509.144145 1677.026246 0.872403375 0.980223534 1.115666162 0.875022059 0.908670099 0.943554445 0.940065667 0.732954501 0.899892979 1 10.71168955 -4.260931909 5.520867847 0.947201599 0.725176358 0.471839302 0.068410032 0.110089723 12.97689708 0.010171075 0.091824253 5.48E-05 4.260931909 -0.222025241 GFDQDMANK ddPTM_HeLa_SAHA_4h_R1 1 GFDQDMANK 9 0 Q16881;A0A087WSY9;A0A087WSW9;E9PIR7;A0A182DWI3;Q16881-5;F8W809;Q16881-2;Q16881-4;Q16881-3;Q16881-6;E2QRB9;Q16881-7 Q16881 TXNRD1 "Thioredoxin reductase 1, cytoplasmic" 0 0 179.21 4.70E-05 21233000 3172.5 2762.2 2853.4 2688.8 2687.9 2513.1 3094.7 2343.6 2475.5 2661.7 FALSE FALSE TRUE 3506.198106 2851.697092 3242.246492 2740.845612 2481.953683 2298.969742 2746.476211 2283.654105 2458.272794 2776.458913 1.262830899 1.027098611 1.167763181 0.987173122 0.893927755 0.828022245 0.9892011 0.822505997 0.885398585 1 11.43903033 -6.01734845 2.973653237 1.121397633 0.887270045 0.338127737 0.109710457 0.163102198 2.927961437 0.016347773 0.029937745 9.61E-07 6.01734845 -0.234127588 GFDQTINLILDESHER ddPTM_HeLa_SAHA_4h_R1 2 GFDQTINLILDESHER 16 0 F2Z2Y6;C9JIZ0;C9JNV3;O95777 F2Z2Y6 LSM8 U6 snRNA-associated Sm-like protein LSm8 0 0 ; ; 148.97 7.34E-05 6345700 3178.3 3238.5 3929.3 4277.9 3585.8 3645 4412.7 3586.2 4429.1 3109.4 FALSE FALSE TRUE 3512.608177 3343.429525 4464.764541 4360.70494 3311.056779 3334.425494 3916.171382 3494.470197 4398.277532 3243.461451 1.082981324 1.030821416 1.376543119 1.344460234 1.020840491 1.02804536 1.207404941 1.077389156 1.356044337 1 11.66331858 GFENVIHDKLPLQES(ph)EEEEREER ddPTM_HeLa_SAHA_4h_R1 1 GFENVIHDKLPLQESEEEEREER 23 2 P23497;P23497-2;P23497-3;P23497-4;E9PHV6;P23497-7;P23497-6;P23497-5;C9JBL0 P23497 SP100 Nuclear autoantigen Sp-100 1 0 GFENVIHDKLPLQES(1)EEEEREER 45.659 0.015433 18982000 610.97 488.89 496.43 676.1 780.58 635.58 814.11 499.33 820.27 741.16 TRUE FALSE FALSE 675.2346278 504.7303568 564.0808951 689.1868932 720.772129 581.4250083 722.5042002 486.5578616 814.5616743 773.1150347 0.87339477 0.652852854 0.72962091 0.891441587 0.932296096 0.752054975 0.934536476 0.629347302 1.053609926 1 9.594539284 -8.170950796 1.126834966 0.975233588 0.802504241 0.405800311 0.106677951 0.351796779 0.927453377 0.028491701 0.021288257 6.75E-09 8.170950796 -0.172729348 GFGDGYNGYGGGPGGGNFGGS(ph)PGYGGGR ddPTM_HeLa_SAHA_4h_R1 4 GFGDGYNGYGGGPGGGNFGGSPGYGGGR 28 0 P22626;P22626-2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 1 0 GFGDGYNGYGGGPGGGNFGGS(1)PGYGGGR;GFGDGYNGYGGGPGGGNFGGS(1)PGYGGGR;GFGDGYNGYGGGPGGGNFGGS(1)PGYGGGR;GFGDGYNGYGGGPGGGNFGGS(1)PGYGGGR ;;; 141.82 2.59E-10 255348000 9543.9 8392.9 8613.3 8843.7 10796.3 10787.9 9632.1 9006.5 10680.6 10135.4 TRUE FALSE FALSE 10547.77119 8664.835467 9787.075668 9014.882602 9969.089826 9868.710229 8548.270758 8776.126771 10606.27283 10572.3867 0.997671717 0.819572318 0.925720554 0.852681884 0.942936549 0.933442042 0.808546925 0.830098919 1.003205155 1 13.36801348 -7.28031732 24.14235709 0.998900543 0.877012523 0.619941322 0.045501398 249.1399845 318615.8426 0.007721136 0.008838123 5.24E-08 7.28031732 -0.12188802 GFGFGQGAGALVHS(ph)E ddPTM_HeLa_SAHA_4h_R1 8 GFGFGQGAGALVHSE 15 0 E9PP21;P21291 E9PP21 CSRP1 Cysteine and glycine-rich protein 1 1 0 GFGFGQGAGALVHS(1)E;GFGFGQGAGALVHS(1)E;GFGFGQGAGALVHS(1)E;GFGFGQGAGALVHS(1)E;GFGFGQGAGALVHS(1)E;GFGFGQGAGALVHS(1)E;GFGFGQGAGALVHS(1)E;GFGFGQGAGALVHS(1)E ;;;;;;; 184.11 2.36E-08 778187000 16990.06 18485.47 18085.03 19023.27 19368.13 20260.49 20490.78 19870.71 20076.26 18368.13 TRUE FALSE FALSE 18777.15246 19084.41136 20549.56371 19391.4929 17884.14806 18534.18227 18185.10351 19362.44601 19936.54767 19160.06998 0.980014817 0.996051235 1.072520285 1.012078397 0.933407242 0.967333746 0.949114671 1.010562385 1.040525828 1 14.22581521 -5.780792515 24.97008178 0.99897475 0.964121598 0.290362324 0.033184135 280.1555903 361465.8734 0.004767542 0.008651073 1.66E-06 5.780792515 -0.034853152 GFGFGQGAGALVHSE ddPTM_HeLa_SAHA_4h_R1 1 GFGFGQGAGALVHSE 15 0 E9PP21;P21291 E9PP21 CSRP1 Cysteine and glycine-rich protein 1 0 0 100.69 0.019232 1834100 1027.6 804.93 944.02 991.66 974.47 1047.1 953.57 811.94 773.31 875.66 FALSE FALSE TRUE 1135.687683 831.0102601 1072.666129 1010.855013 899.8063191 957.8811892 846.2717939 791.1717505 767.9284727 913.413988 1.24334387 0.909784907 1.174348262 1.106677833 0.985102408 1.048682418 0.92649314 0.866169952 0.840723355 1 9.835125073 -4.519301433 0.75473264 1.105138524 0.769332084 0.052561172 0.122883384 1.694577628 0.851819606 0.018261825 0.443296471 3.02E-05 4.519301433 -0.335806441 GFGFILFK ddPTM_HeLa_SAHA_4h_R1 1 GFGFILFK 8 0 Q99729-3;Q99729-4;D6R9P3;D6RD18;D6RBZ0;Q99729-2;Q99729 Q99729-3 HNRNPAB Heterogeneous nuclear ribonucleoprotein A/B 0 0 146.21 8.41E-05 16920000 2931.6 3227.4 5898.5 5025.6 5085.2 952.92 5334 403.17 519.89 2406.9 FALSE FALSE TRUE 3239.959139 3331.969878 6702.316862 5122.877755 4695.573075 871.725855 4733.804282 392.8574952 516.2720432 2510.673238 1.29047424 1.327122075 2.669529734 2.040439862 1.870244603 0.347208009 1.885472076 0.15647496 0.205630918 1 11.29385856 -2.819113709 14.19125401 1.300892729 0.986737016 0 0.812165608 0 0 0.09518553 0 0.001516653 2.819113709 -0.314155713 GFGFVCFSSPEEATK ddPTM_HeLa_SAHA_4h_R1 2 GFGFVCFSSPEEATK 15 0 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YAR2;Q9H361;H0YB86;Q4VXU2;A0A6I8PS38;A0A6I8PLA1;B1ANR0;Q13310-2;Q13310;Q13310-3;H0Y5F5;H0YEU6 P11940;B1ANR0 PABPC1;PABPC3;PABPC1L;PABPC4 Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 3;Polyadenylate-binding protein 1-like;Polyadenylate-binding protein 4 0 0 ; ; 262.56 1.39E-83 1470400 354.121 425.27 538.89 873.05 554.57 712.71 591.12 552.21 524.3 559.44 FALSE FALSE TRUE 391.3690715 439.049027 612.3271228 889.9491452 512.0789664 651.9830984 524.6056219 538.0852678 520.6513536 583.5601962 0.670657584 0.752362875 1.04929556 1.525034008 0.877508387 1.117250804 0.898974305 0.922073286 0.892198195 1 9.188737672 -6.705340252 7.942736053 0.833319646 1.073100103 0.269415991 0.190331639 0.28718482 35.65577218 0.033315922 0.047061498 1.97E-07 6.705340252 0.239780457 GFGFVDFNS(ph)EEDAK ddPTM_HeLa_SAHA_4h_R1 2 GFGFVDFNSEEDAK 14 0 P19338;H7BY16 P19338 NCL Nucleolin 1 0 GFGFVDFNS(1)EEDAK;GFGFVDFNS(1)EEDAK ; 205.66 2.90E-12 32724000 4132.93 4989 4757.3 5921.4 5938.7 6823.9 5687.1 6133 7343.5 5423 TRUE FALSE FALSE 4567.65054 5150.646873 5405.600069 6036.017259 5483.678089 6242.46533 5047.17254 5976.12674 7292.395986 5656.81207 0.807460189 0.910521122 0.955591242 1.06703514 0.969393719 1.10353062 0.892229135 1.056447813 1.289135275 1 12.46577353 -6.539131486 4.017763213 0.907030726 1.013141124 0 0.139355958 0.233351811 8.574025755 0.013628618 0.020102234 2.89E-07 6.539131486 0.106110398 GFGFVDFNSEEDAK ddPTM_HeLa_SAHA_4h_R1 1 GFGFVDFNSEEDAK 14 0 P19338;H7BY16 P19338 NCL Nucleolin 0 0 155.88 2.29E-06 817790 294.3 374.81 549.99 553.34 474.1 620.96 631.2 439.05 597.25 564.11 FALSE FALSE TRUE 325.2558243 386.9540899 624.939773 564.0506958 437.7745604 568.0507146 560.1757148 427.8197367 593.0936886 588.4315428 0.552750491 0.657602562 1.062043292 0.958566383 0.743968548 0.965364147 0.951981113 0.727050992 1.007923005 1 9.200730774 -6.773917473 24.99944956 0.773057929 0.90212746 0.066807358 0.161070918 433.3575845 868216.1187 0.031421011 0.041453059 1.68E-07 6.773917473 0.129069531 GFGFVEFEDPRDADDAVYELDGK ddPTM_HeLa_SAHA_4h_R1 2 GFGFVEFEDPRDADDAVYELDGK 23 1 B4DJK0;B4DUA4;Q13243;G3V5K8;Q13243-2 B4DJK0 SRSF5 Serine/arginine-rich splicing factor 5 0 0 ; ; 114.75 4.09E-05 10494600 2452.1 3190.5 2924.9 3621 3509.6 3845.8 3660.1 2565.5 3608.4 3379.1 FALSE FALSE TRUE 2710.023129 3293.874293 3323.49014 3691.089691 3240.695206 3518.116204 3248.255915 2499.878225 3583.288851 3524.789538 0.768846792 0.934488218 0.942890378 1.047180165 0.919401051 0.998106743 0.921546061 0.709227657 1.016596541 1 11.7833214 -5.748539023 0.005590097 1.791959201 5.41E-07 0.027097455 0.101396259 54085.24281 87.94901354 13802.96073 14391.33991 1.78E-06 5.748539023 -1.791958661 GFGFVLFK ddPTM_HeLa_SAHA_4h_R1 1 GFGFVLFK 8 0 Q14103-3;Q14103;H0YA96;D6RAF8;H0Y8G5;Q14103-4;Q14103-2;D6RF44;D6RBQ9;O14979-3;O14979-2;A0A087WUK2;O14979 Q14103-3;O14979-3 HNRNPD;HNRNPDL Heterogeneous nuclear ribonucleoprotein D0;Heterogeneous nuclear ribonucleoprotein D-like 0 0 163.41 1.84E-07 47686000 406.72 563.48 758.36 520.06 602.34 104.68 1068.4 0 0 204.21 FALSE FALSE TRUE 449.5006757 581.7371217 861.7053514 530.1265133 556.1888393 95.76067509 948.1808201 0 0 213.0144925 2.110188234 2.730974381 4.045289789 2.48868754 2.611037554 0.449550047 4.451250284 0 0 1 7.734807778 -8.499816934 0.927630664 1.126723395 2.441134191 0.204011144 1.345779205 0.673673098 1.190885714 0.448845592 0.248196488 3.16E-09 8.499816934 1.314410796 GFGFVTFDDHDPVDK ddPTM_HeLa_SAHA_4h_R1 2 GFGFVTFDDHDPVDK 15 0 P22626;P22626-2;A0A087WUI2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 0 0 ; ; 133.47 9.73E-05 4224100 1784.34 2551.2 2124 2350.1 2479.9 2803 3221.7 1444.16 3533.4 2677.6 FALSE FALSE TRUE 1972.025068 2633.860554 2413.447659 2395.589584 2289.890598 2564.168631 2859.185837 1407.220478 3508.810782 2793.04444 0.706048583 0.943007034 0.864092108 0.857698342 0.819854695 0.918055078 1.023680754 0.503830322 1.256267438 1 11.44762281 -9.6342873 1.466327192 0.999722775 0.823893328 0.293797182 0.158850869 0.541988097 2.099250472 0.0921529 0.021109796 2.32E-10 9.6342873 -0.175829448 GFGFVTYATVEEVDAAMNARPHK ddPTM_HeLa_SAHA_4h_R1 1 GFGFVTYATVEEVDAAMNARPHK 23 1 F8W6I7;P09651-2;P09651;P09651-3;F8VZ49;A0A2R8Y4L2;F8W646;F8VYN5 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 0 0 92.236 0.0007608 313100 187.52 236.33 254 203.21 274.05 218.27 439.21 216.29 394.51 249.34 FALSE FALSE TRUE 207.244214 243.9872471 288.6137972 207.1434234 253.0523482 199.672168 389.7889349 210.757615 391.7645728 260.0902676 0.796816489 0.938086801 1.109667808 0.796428968 0.972940474 0.767703343 1.498667899 0.81032488 1.506263869 1 8.022868606 -4.80228323 24.9999941 0.909184004 1.1545019 0 0.263080163 130.9423986 80147.94451 0.02327886 0.069837664 1.58E-05 4.80228323 0.245317897 GFGFVYFQNHDAADK ddPTM_HeLa_SAHA_4h_R1 2 GFGFVYFQNHDAADK 15 0 Q13151 Q13151 HNRNPA0 Heterogeneous nuclear ribonucleoprotein A0 0 0 ; ; 169.4 3.56E-11 3714100 1783.05 2365 2534.3 2905.3 2837.4 2818.1 2639 1578.77 3544.2 2833.3 FALSE FALSE TRUE 1970.59938 2441.627552 2879.661206 2961.536283 2619.999025 2577.982026 2342.052775 1538.387349 3519.535624 2955.457429 0.666766288 0.826142014 0.97435381 1.002056823 0.886495268 0.872278518 0.792450181 0.52052428 1.190859861 1 11.52916572 -9.661549906 1.523573751 0.999530857 0.806655245 0.314298274 0.148067317 0.54081493 2.267700797 0.103873756 0.023590316 2.18E-10 9.661549906 -0.192875612 GFGGK(ac)FGVQTDR ddPTM_HeLa_SAHA_4h_R1 1 GFGGKFGVQTDR 12 1 Q14247;Q14247-3;Q14247-2 Q14247 CTTN Src substrate cortactin 0 1 GFGGK(1)FGVQTDR 113.63 0.0040823 6574900 1081.3 1590.5 1755.9 2496.9 2298.3 2407.8 2187 2552.7 852.13 641.85 FALSE TRUE FALSE 1195.036095 1642.033244 1995.184908 2545.23111 2122.204751 2202.641894 1940.913004 2487.40563 846.1999579 669.5232946 1.784905924 2.45254087 2.980008199 3.801557213 3.169725038 3.289865956 2.898947684 3.715189076 1.263884266 1 9.386990442 -7.229645188 0.926077157 1.217455225 3.372870165 0.90989786 0.280627398 0.10361519 0.176750912 0.069083852 0.083623453 5.89E-08 7.229645188 2.15541494 up GFGGK(ac)FGVQTDRQDK ddPTM_HeLa_SAHA_4h_R1 1 GFGGKFGVQTDRQDK 15 2 Q14247;Q14247-3;Q14247-2 Q14247 CTTN Src substrate cortactin 0 1 GFGGK(1)FGVQTDRQDK 95.195 0.0074012 2287300 287.33 224.7 375.11 318.92 328.51 305.33 433.51 504.87 61.084 140.66 FALSE TRUE FALSE 317.5526877 231.9804274 426.2280373 325.0931578 303.3396348 279.3141663 384.7303139 491.9561564 60.65891147 146.724541 2.164277943 1.58106085 2.904953967 2.21566996 2.067408988 1.903663589 2.622126546 3.352923466 0.413420353 1 7.196966384 -9.406239274 0.192458258 2.24E-17 2.856259798 0.666422401 0.476667653 5.04507286 0.283032517 3.782883497 0.828888169 3.92E-10 9.406239274 2.856259798 GFGGK(ac)YGVQK ddPTM_HeLa_SAHA_4h_R1 2 GFGGKYGVQK 10 1 Q14247;Q14247-3;Q14247-2 Q14247 CTTN Src substrate cortactin 0 1 ; GFGGK(1)YGVQK;GFGGK(1)YGVQK 138.1 0.00025402 5989000 1020.9 1231.11 3612.4 3552.9 3974.4 1806.08 4417.2 2192.83 74.539 438.92 FALSE TRUE FALSE 1128.282946 1270.998772 4104.679059 3621.671517 3669.882331 1652.191823 3920.165031 2136.740584 74.02027703 457.8439892 2.464339322 2.776052109 8.965235224 7.910274247 8.015573901 3.608634955 8.562228888 4.666962184 0.161671396 1 8.838712272 -6.888441709 5.556082545 1.737885057 6.954247572 0.707023139 1.698411775 0.084326323 3.836720029 0.259280505 0.342700319 1.29E-07 6.888441709 5.216362515 GFGHIGIAVPDVYSACK ddPTM_HeLa_SAHA_4h_R1 2 GFGHIGIAVPDVYSACK 17 0 Q04760-2;Q04760 Q04760-2 GLO1 Lactoylglutathione lyase 0 0 ; ; 110.55 0.00082856 4302900 330.51 723.02 483.35 524.51 495.48 465.42 594.94 178.13 472.21 314.301 FALSE FALSE TRUE 365.2745582 746.4463224 549.2184208 534.6626495 457.5164294 425.7635976 527.9957854 173.5736925 468.9238522 327.8520543 1.114144485 2.276777933 1.675202012 1.630804634 1.395496607 1.298645508 1.610469657 0.529426887 1.430291029 1 8.356901124 -7.490979796 24.8175759 1.050357517 1.509000379 0.075226446 0.42494935 410.2066852 319146.4407 0.068895247 0.075547295 3.23E-08 7.490979796 0.458642861 GFGHIGIAVPDVYSACKR ddPTM_HeLa_SAHA_4h_R1 1 GFGHIGIAVPDVYSACKR 18 1 Q04760-2;Q04760 Q04760-2 GLO1 Lactoylglutathione lyase 0 0 61.444 0.0083233 1315500 2841.4 2303.3 3403.2 2888.4 3501.3 2963.9 3660.1 2006 2669.5 2792.3 FALSE FALSE TRUE 3140.271489 2377.928431 3866.970373 2944.309159 3233.03115 2711.359046 3248.255915 1954.689425 2650.922732 2912.689718 1.078134574 0.816402934 1.327628669 1.010855753 1.10998131 0.930878091 1.115208357 0.671094285 0.910128777 1 11.50813631 -4.254335841 24.35201638 1.042250575 0.671094033 0.399573768 0.13276917 384.5219359 1318151.243 0.015482565 0.206228617 5.57E-05 4.254335841 -0.371156542 GFGLEGVPEK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GFGLEGVPEKR 11 1 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 0 1 ; GFGLEGVPEK(1)R;GFGLEGVPEK(1)R 123.86 0.00094221 7006600 3267.8 3240 2888.1 3396.6 4127.7 3796.4 4236.4 5027.5 4159.7 3185.2 FALSE TRUE FALSE 3611.522197 3344.978126 3281.675227 3462.346105 3811.436518 3472.925362 3759.709122 4898.90383 4130.752309 3322.52956 1.086979704 1.006756468 0.987703847 1.042081355 1.147149017 1.045265452 1.131580338 1.474450036 1.243255247 1 11.69806632 GFGS(ph)EEGSR ddPTM_HeLa_SAHA_4h_R1 3 GFGSEEGSR 9 0 Q9Y5S9 Q9Y5S9 RBM8A RNA-binding protein 8A 1 0 GFGS(0.999)EEGS(0.001)R;GFGS(1)EEGSR;GFGS(1)EEGSR ;; 118.23 0.0039293 164634600 6640.7 6366.7 6456.7 6413.4 6810.4 7909.3 7580.5 7192.7 7269.1 6306.5 TRUE FALSE FALSE 7339.199295 6572.985257 7336.585451 6537.540631 6288.588623 7235.383143 6727.522189 7008.721149 7218.513741 6578.404078 1.115650423 0.999176271 1.115253086 0.993788243 0.955944413 1.099869065 1.022667825 1.065413597 1.097304704 1 12.68352191 GFGSEEGS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 GFGSEEGSR 9 0 Q9Y5S9 Q9Y5S9 RBM8A RNA-binding protein 8A 1 0 GFGS(0.399)EEGS(0.601)R 94.309 0.014641 14622000 1251.4 1419.1 1174.2 1387.8 1335.4 1665.7 1597.1 1337.6 1467.4 1421.4 TRUE FALSE FALSE 1383.027994 1465.079771 1334.213861 1414.662876 1233.08194 1523.772989 1417.390105 1303.386129 1457.188244 1482.68351 0.932787061 0.988127109 0.899864234 0.954123295 0.83165553 1.027712913 0.955962682 0.879072385 0.982804647 1 10.53399496 -9.661350407 0.417826022 1.030057941 0.930890398 0.166879524 0.052225461 3.772659497 0.685390939 0.170147592 0.015522521 2.18E-10 9.661350407 -0.099167544 GFGTDEQAIVDVVANR ddPTM_HeLa_SAHA_4h_R1 2 GFGTDEQAIVDVVANR 16 0 P20073-2;P20073 P20073-2 ANXA7 Annexin A7 0 0 ; ; 225.33 1.44E-26 6601300 1135.15 1344.14 1217.51 1430.8 1346.29 1460.17 1415.92 1595.3 1331.26 1175.46 FALSE FALSE TRUE 1254.550285 1387.691018 1383.425922 1458.495203 1243.137551 1335.755301 1256.596955 1554.494536 1321.995653 1226.139833 1.023170646 1.131755922 1.128277448 1.189501526 1.013862789 1.089398831 1.024839844 1.267795478 1.078176907 1 10.2599078 -7.328322105 4.93483617 1.010218074 1.114688827 0.208746401 0.072946804 0.179826067 8.573216159 0.011383283 0.013027858 4.70E-08 7.328322105 0.104470753 GFHQVPFAPIVFIER ddPTM_HeLa_SAHA_4h_R1 1 GFHQVPFAPIVFIER 15 0 A0A1B0GVU9;P47897-2;P47897;A0A0U1RRC8;A0A0U1RQX5;H7C0R3;B4DDN1 A0A1B0GVU9 QARS Glutamine--tRNA ligase 0 0 74.133 0.013549 537500 252.42 341.12 213.97 240.88 208.15 58.087 353.41 241.4 201.27 558.44 FALSE FALSE TRUE 278.9706937 352.1725118 243.1287173 245.5425807 192.201592 53.13766081 313.6433767 235.2253375 199.8693457 582.5170813 0.478905602 0.604570275 0.417376117 0.421519967 0.329950139 0.091220777 0.538427776 0.403808481 0.343113279 1 9.186156545 -9.444743011 0.316988101 1.301523793 0.325566807 0 0.237119104 1.301570175 0.157403705 0.466096592 0.062071215 3.59E-10 9.444743011 -0.975956986 GFIAGIDLK ddPTM_HeLa_SAHA_4h_R1 1 GFIAGIDLK 9 0 Q9BUQ8 Q9BUQ8 DDX23 Probable ATP-dependent RNA helicase DDX23 0 0 130.27 0.0021322 350440 0 181.22 129.49 67.501 0 201.78 216.47 133.06 68.953 0 FALSE FALSE TRUE 0 187.0916469 147.1362228 68.80757946 0 184.5872088 192.1122259 129.6565179 68.47315046 0 0 GFIYVHKPPVHIR ddPTM_HeLa_SAHA_4h_R1 2 GFIYVHKPPVHIR 13 1 Q08945 Q08945 SSRP1 FACT complex subunit SSRP1 0 0 ; ; 55.721 0.019565 14690900 3564.5 3489.6 3843.4 4896.1 4679.1 3085.3 4666.2 2459.3 4240.7 4535.9 FALSE FALSE TRUE 3939.430465 3602.66533 4367.158536 4990.871095 4320.588369 2822.415083 4141.146895 2396.394667 4211.188623 4731.464847 0.832602712 0.761427052 0.923003484 1.054825779 0.91316083 0.596520353 0.875235689 0.506480497 0.890039081 1 12.20807119 -3.677122152 0.651258617 0.917044322 3.40E-15 0.470882033 0.118248744 4.20926932 0.724763216 0.021511874 3.420654543 0.000210319 3.677122152 -0.917044322 GFKDQIYDIFQK ddPTM_HeLa_SAHA_4h_R1 1 GFKDQIYDIFQK 12 1 P60842;P60842-2;J3KT12;J3QS69;J3QL43;J3KTB5;J3QR64;J3KSZ0;J3KTN0 P60842 EIF4A1 Eukaryotic initiation factor 4A-I 0 0 132.79 0.00026778 991900 707.66 779.51 1065.1 1042.3 1027.5 822.21 1132.6 419.91 529.65 824.27 FALSE FALSE TRUE 782.0949257 804.7666355 1210.246281 1062.475224 948.773172 752.1530824 1005.156867 409.1693102 525.9641225 859.8083136 0.90961545 0.93598378 1.407576854 1.235711736 1.103470572 0.874791591 1.169047625 0.475884338 0.611722537 1 9.74787125 -4.2512222 24.21946756 1.018505984 0.475883868 0.386513423 0.20822402 658.8097374 1561636.879 0.024476948 0.4401516 5.61E-05 4.2512222 -0.542622116 GFMT(ph)GT(ph)ISSMYQTK ddPTM_HeLa_SAHA_4h_R1 1 GFMTGTISSMYQTK 14 0 B3KSM0 B3KSM0 TMBIM1 2 0 GFMT(0.997)GT(0.718)IS(0.119)S(0.119)MY(0.047)QTK 58.754 0.0075015 0 366.65 333.17 257.99 362.22 292.21 815.56 609.55 501.86 688.46 474.81 TRUE FALSE FALSE 405.2159293 343.9649266 293.1475336 369.2312919 269.8209329 746.0696998 540.9618298 489.0231479 683.6689508 495.2813828 0.81815296 0.69448386 0.591880785 0.745498023 0.544783112 1.506355227 1.092231302 0.987364284 1.380364727 1 8.952104582 -5.264417058 24.99996211 0.836318337 1.185008365 0.307033957 0.254391567 212.4999243 1784112.757 0.029971873 0.069840785 5.44E-06 5.264417058 0.348690028 GFNGCDS(ph)PEPDGEDSLEQSPLLEDKYR ddPTM_HeLa_SAHA_4h_R1 1 GFNGCDSPEPDGEDSLEQSPLLEDKYR 27 1 Q14814-4;Q14814;Q05BX2 Q14814-4 MEF2D Myocyte-specific enhancer factor 2D 1 0 GFNGCDS(0.987)PEPDGEDS(0.013)LEQSPLLEDKYR 73.87 0.00094846 0 260.6 369.63 219.01 350.52 312.99 316.43 269.01 356.44 359.7 413.1 TRUE FALSE FALSE 288.0111037 381.6062545 248.8555422 357.3048215 289.0087738 289.4683838 238.7402868 347.3227809 357.1968184 430.9107627 0.668377605 0.885580699 0.577510621 0.829185187 0.670692865 0.671759466 0.554036491 0.806020204 0.828934548 1 8.751245322 -9.940808971 0.436053498 1.179086512 0.687696798 0.290937563 0.114142507 1.803847354 0.301811114 0.431133002 0.026696929 1.15E-10 9.940808971 -0.491389714 GFPGADMS(ph)GS(ph)LNNRTTK ddPTM_HeLa_SAHA_4h_R1 1 GFPGADMSGSLNNRTTK 17 1 A0A1W2PRJ8;B3KXV3;E9PAP7;Q8IYP9 A0A1W2PRJ8 ZDHHC23 Palmitoyltransferase;Palmitoyltransferase ZDHHC23 2 0 GFPGADMS(0.97)GS(0.883)LNNRT(0.074)T(0.074)K 65.179 0.0088037 0 215.94 495.15 348.37 401.7 397.69 402.39 301.63 340.44 228.07 311 TRUE FALSE FALSE 238.65356 511.1931849 395.8440494 409.4754844 367.2190781 368.1041082 267.6897986 331.7320378 226.4828423 324.408732 0.735657017 1.575768882 1.220201586 1.262220908 1.131964223 1.134692355 0.825162125 1.022574318 0.698140401 1 8.341668842 GFPTIYFSPANK ddPTM_HeLa_SAHA_4h_R1 2 GFPTIYFSPANK 12 0 P30101 P30101 PDIA3 Protein disulfide-isomerase A3 0 0 ; ; 204.5 7.92E-24 2406000 449.31 257.54 497.65 470.23 439.98 457.5 503.38 208.85 309.64 378.86 FALSE FALSE TRUE 496.5704873 265.884465 565.4671504 479.3319816 406.2688275 418.5184262 446.7383576 203.5079194 307.48519 395.1945087 1.256521729 0.672793926 1.430857813 1.212901422 1.028022451 1.05901883 1.130426531 0.514956344 0.778060381 1 8.62641909 -4.260239541 24.36601653 1.110384148 0.514956079 0.353255874 0.214126564 47.51702662 964790.7594 0.025091622 0.207648717 5.49E-05 4.260239541 -0.595428069 GFPTIYFSPANK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 GFPTIYFSPANKK 13 1 P30101 P30101 PDIA3 Protein disulfide-isomerase A3 0 1 GFPTIYFSPANK(1)K 144.65 6.55E-05 393780 0 249.86 144.13 162.79 185.09 236.69 384.95 261.61 183.08 0 FALSE TRUE FALSE 0 257.9556279 163.7712858 165.9410358 170.9084442 216.5226804 341.6344129 254.918395 181.8059314 0 0 GFQFVSS(ph)SLPDICYR ddPTM_HeLa_SAHA_4h_R1 1 GFQFVSSSLPDICYR 15 0 P62633-2;P62633;P62633-8;P62633-5;P62633-4;P62633-6 P62633-2 CNBP Cellular nucleic acid-binding protein 1 0 GFQFVS(0.051)S(0.474)S(0.474)LPDICYR 89.466 0.0083715 3275000 709.04 568.72 437.84 472.51 360.88 603.49 641.92 632.95 776.47 534.24 TRUE FALSE FALSE 783.6200804 587.1469012 497.506555 481.6561143 333.2294524 552.0692569 569.6894722 616.7600555 771.0664821 557.2737009 1.406167345 1.053605975 0.892750823 0.864307994 0.597963715 0.990660883 1.022279485 1.106745311 1.383640536 1 9.122242261 -6.967096597 4.781879135 1.193782286 0.906925195 0.45466906 0.166512281 0.1788011 9.928948765 0.032459228 0.042407693 1.08E-07 6.967096597 -0.28685709 GFS(ph)LEELR ddPTM_HeLa_SAHA_4h_R1 1 GFSLEELR 8 0 P26373;P26373-2;J3QSB4 P26373 RPL13 60S ribosomal protein L13 1 0 GFS(1)LEELR 94.409 0.014879 1700100 1602.1 2078.9 1696 1835.1 2390.9 2329.4 3361.4 2064.2 2610.9 2052 TRUE FALSE FALSE 1770.616229 2146.257724 1927.122048 1870.621014 2207.709759 2130.922015 2983.166425 2011.400753 2592.730534 2140.471762 0.827208403 1.002703125 0.900325845 0.873929312 1.0314127 0.995538485 1.393695763 0.939699737 1.211289296 1 11.06371309 -5.183806459 2.233961178 0.921694405 1.163403302 0.1024573 0.151843649 0.231251474 2.218750151 0.016966942 0.05404733 6.55E-06 5.183806459 0.241708897 GFSDS(ph)GGGPPAK ddPTM_HeLa_SAHA_4h_R1 2 GFSDSGGGPPAK 12 0 Q9H307;G3V5F0;G3V579 Q9H307 PNN Pinin 1 0 GFS(0.077)DS(0.923)GGGPPAK;GFS(0.31)DS(0.69)GGGPPAK ; 110.64 0.0029882 33248000 3832 5452.8 4468.9 2629.12 4083.8 6790.1 5896.1 3460.3 3780.5 4789 TRUE FALSE FALSE 4235.067342 5629.474298 5077.898419 2680.010419 3770.900126 6211.54528 5232.65531 3371.790536 3754.191193 4995.477227 0.847780332 1.126914215 1.016499163 0.536487366 0.75486284 1.24343381 1.047478564 0.674968653 0.751518028 1 12.28640679 -9.614653165 1.384511833 1.000598895 0.90601725 0 0.216946594 1.705322163 5.807454705 0.151282765 0.033781646 2.43E-10 9.614653165 -0.094581645 GFSLEELR ddPTM_HeLa_SAHA_4h_R1 1 GFSLEELR 8 0 P26373;P26373-2;J3QSB4 P26373 RPL13 60S ribosomal protein L13 0 0 143.89 0.0029389 21836000 5768.9 5293.3 6978.7 6137.4 6194.8 4618.3 6810.1 3992.8 3261.5 3869.1 FALSE FALSE TRUE 6375.699371 5464.806393 7929.720892 6256.198252 5720.155762 4224.794858 6043.809625 3890.669958 3238.802956 4035.915836 1.579740418 1.354043695 1.964788468 1.550131 1.417312946 1.046799544 1.497506358 0.964011668 0.802495168 1 11.97868037 -2.889529037 14.04655309 1.338276415 1.267553186 0 0.339717454 0 0 0.043915011 0 0.001289647 2.889529037 -0.070723229 GFSQYGVS(ph)GSPTK ddPTM_HeLa_SAHA_4h_R1 3 GFSQYGVSGSPTK 13 0 Q9NXC5 Q9NXC5 MIOS WD repeat-containing protein mio 1 0 GFSQYGVS(0.474)GS(0.474)PT(0.052)K;GFSQYGVS(0.899)GS(0.092)PT(0.008)K;GFS(0.005)QYGVS(0.573)GS(0.385)PT(0.037)K ;; 200.63 8.20E-11 125130000 9438.6 9677.5 9227.7 9651.8 10174.6 11201 11059.4 10607.4 10604.4 9447.1 TRUE FALSE FALSE 10431.39525 9991.05735 10485.2029 9838.624546 9395.024346 10246.61178 9814.967205 10336.07807 10530.60312 9854.410714 1.058550892 1.013866546 1.064011152 0.998398061 0.953382665 1.039799546 0.995997375 1.048878352 1.068618248 1 13.26655389 GFSQYGVSGS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 1 GFSQYGVSGSPTK 13 0 Q9NXC5 Q9NXC5 MIOS WD repeat-containing protein mio 1 0 GFSQYGVS(0.001)GS(0.859)PT(0.14)K 192.65 1.37E-07 15425000 1652.6 1783.6 1353.3 1729 1966.3 1669.8 1940.8 1599.8 1667.2 1730.5 TRUE FALSE FALSE 1826.42805 1841.38981 1537.720676 1762.467295 1815.642519 1527.523646 1722.416076 1558.879432 1655.597819 1805.110324 1.011809653 1.02009821 0.851870745 0.976376497 1.005834654 0.846221766 0.954188812 0.863592331 0.91717265 1 10.8178713 -5.707725534 0.445837564 1.009551137 0.872659443 0.129772432 0.061688078 1.374661872 0.405949132 0.015490103 0.08236934 1.96E-06 5.707725534 -0.136891694 GFSVVADT(ph)PELQR ddPTM_HeLa_SAHA_4h_R1 7 GFSVVADTPELQR 13 0 C9J9W2;Q14847;Q14847-2;Q14847-3 C9J9W2 LASP1 LIM and SH3 domain protein 1 1 0 GFS(0.042)VVADT(0.958)PELQR;GFSVVADT(1)PELQR;GFS(0.005)VVADT(0.995)PELQR;GFS(0.006)VVADT(0.994)PELQR;GFS(0.004)VVADT(0.996)PELQR;GFSVVADT(1)PELQR;GFS(0.001)VVADT(0.999)PELQR ;;;;;; 217.19 6.45E-16 568903900 14387.39 15518.35 14733.19 15782.8 15442.84 17739.84 14737.79 14482.9 16658.8 14911.15 TRUE FALSE FALSE 15900.72169 16021.15472 16740.95241 16088.29892 14259.61294 16228.30583 13079.45508 14112.44839 16542.87005 15554.04265 1.022288678 1.030031554 1.076308763 1.034348386 0.916778567 1.043349706 0.840903897 0.907317069 1.063573659 1 13.92500198 -4.762298465 24.99997112 1.013591332 0.874110458 0.637158782 0.044561036 9.402613558 273667.3981 0.005622529 0.018454414 1.73E-05 4.762298465 -0.139480874 GFSVVADTPELQR ddPTM_HeLa_SAHA_4h_R1 4 GFSVVADTPELQR 13 0 C9J9W2;Q14847;Q14847-2;Q14847-3 C9J9W2 LASP1 LIM and SH3 domain protein 1 0 0 ;;; ;;; 167.11 3.40E-10 28213000 4608.75 4526.34 4054.9 4676.19 4534.71 5178.23 4750.57 4729.11 5129.37 4433.6 FALSE FALSE TRUE 5093.519471 4672.996386 4607.480655 4766.704419 4187.261499 4737.015672 4216.023361 4608.146214 5093.674297 4624.754194 1.101360042 1.010431299 0.996264982 1.030693572 0.905401957 1.024274042 0.911621069 0.996408895 1.101393519 1 12.17516097 -6.348094088 1.333677155 1.046423998 0.963098447 0.398407056 0.048048064 0.361044521 1.266480334 0.008605623 0.01575588 4.49E-07 6.348094088 -0.083325551 GFTECEMTKS(ph)SPLK ddPTM_HeLa_SAHA_4h_R1 1 GFTECEMTKSSPLK 14 1 Q9NQW6 Q9NQW6 ANLN Actin-binding protein anillin 1 0 GFTECEMT(0.001)KS(0.772)S(0.227)PLK 71.888 0.016027 13591000 2779.1 2514.7 2161.6 2855.9 3523.1 2789.4 2937.9 2962.8 2982.5 3209.2 TRUE FALSE FALSE 3071.418489 2596.17793 2456.171591 2911.180074 3253.160839 2551.727427 2607.31976 2887.015866 2961.74454 3347.564317 0.917508432 0.77554236 0.733719014 0.869641267 0.971799353 0.762263899 0.778870699 0.862422822 0.88474612 1 11.70889606 -7.619134361 1.979585808 0.971351651 0.823114876 0.302689019 0.072386343 0.196175211 1.586364349 0.014054329 0.014552498 2.40E-08 7.619134361 -0.148236775 GFTECEMTKSS(ph)PLK ddPTM_HeLa_SAHA_4h_R1 1 GFTECEMTKSSPLK 14 1 Q9NQW6 Q9NQW6 ANLN Actin-binding protein anillin 1 0 GFT(0.001)ECEMT(0.072)KS(0.246)S(0.682)PLK 64.588 0.022398 13626000 2281.5 1848.2 1515.8 2258.9 2512.4 2226.5 2242.3 2440.8 2373.9 1857.6 TRUE FALSE FALSE 2521.478638 1908.082893 1722.36533 2302.624276 2319.900455 2036.789674 1989.990503 2378.36787 2357.379837 1937.690227 1.301280567 0.984720295 0.88887548 1.188334567 1.197250429 1.05114308 1.026991041 1.227424197 1.216592727 1 10.92012223 GFTIPEAFR ddPTM_HeLa_SAHA_4h_R1 2 GFTIPEAFR 9 0 O00299 O00299 CLIC1 Chloride intracellular channel protein 1 0 0 ; ; 128.61 0.0024314 1900460 1046.56 820.55 1194.55 966.52 1270.45 1026.82 1348.81 609.05 637.66 855.45 FALSE FALSE TRUE 1156.641983 847.1363584 1357.337053 985.2283922 1173.108395 939.3291593 1197.038349 593.4713829 633.2224721 892.332636 1.296200471 0.949350415 1.521111073 1.104104403 1.314653693 1.052667045 1.341470995 0.665078648 0.709626037 1 9.801437795 -4.248866915 24.69679047 1.168726132 0.665078272 0.28705029 0.22283925 1262.053043 2479069.856 0.023450121 0.552012228 5.64E-05 4.248866915 -0.50364786 GFVFITFKEEEPVKK ddPTM_HeLa_SAHA_4h_R1 1 GFVFITFKEEEPVKK 15 2 Q99729-3;Q99729-4;D6R9P3;D6RD18;D6RBZ0;Q99729-2;Q99729 Q99729-3 HNRNPAB Heterogeneous nuclear ribonucleoprotein A/B 0 0 76.24 0.011229 1247300 419.17 452.38 609.66 717.19 419.89 482.39 621.46 524.16 479.26 524.01 FALSE FALSE TRUE 463.2602238 467.0374088 692.7412898 731.0722495 387.7181189 441.2876581 551.5316852 510.7527462 475.9247906 546.6026355 0.84752651 0.854436804 1.267358122 1.337483945 0.709323545 0.807328083 1.00901761 0.934413252 0.870696114 1 9.094348606 -3.92088915 12.33797532 0.953704577 0.752116337 0 0.189745723 2451187.547 10725974.32 0.02677133 12340093.63 0.000119981 3.92088915 -0.20158824 GFVK(ac)VVK ddPTM_HeLa_SAHA_4h_R1 2 GFVKVVK 7 1 P46777;A0A2R8Y4A2;R4GNJ2 P46777 RPL5 60S ribosomal protein L5 0 1 ; GFVK(1)VVK;GFVK(1)VVK 122.79 0.0017345 2904500 3044.4 3464.9 3410.3 3224.3 3920 4092.4 3956.1 3610.7 3303.7 3331.4 FALSE TRUE FALSE 3364.62396 3577.165033 3875.037924 3286.710989 3619.650447 3743.704497 3510.949216 3518.343522 3280.709283 3475.032957 0.968227928 1.029390247 1.115108251 0.945807142 1.041616149 1.077314818 1.010335516 1.012463354 0.944080048 1 11.76281095 -7.204951556 7.773531309 0.985013561 1.034198615 0.279204207 0.044176572 0.333342372 41.80735421 0.006847698 0.008383032 6.24E-08 7.204951556 0.049185054 GGAAGGALPT(ph)SPGPALGAK ddPTM_HeLa_SAHA_4h_R1 1 GGAAGGALPTSPGPALGAK 19 0 Q9UPR0 Q9UPR0 PLCL2 Inactive phospholipase C-like protein 2 1 0 GGAAGGALPT(0.5)S(0.5)PGPALGAK 85.288 0.0058895 5715600 2536.1 2851 2546.8 2133.3 2773 2752.2 2785.1 2187 2781.1 3222.6 TRUE FALSE FALSE 2802.858634 2943.374271 2893.864641 2174.593106 2560.533339 2517.697077 2471.713218 2131.059707 2761.746099 3361.542057 0.833801448 0.875602393 0.860874144 0.646903436 0.761713909 0.748970869 0.735291475 0.63395301 0.821571187 1 11.71490748 -8.637966502 0.047990598 1.804041791 7.22E-11 0.480974468 0.075434361 29.82660828 0.522951524 11.14976225 8.455425901 2.30E-09 8.637966502 -1.80404179 GGAAGGALPTS(ph)PGPALGAK ddPTM_HeLa_SAHA_4h_R1 1 GGAAGGALPTSPGPALGAK 19 0 Q9UPR0 Q9UPR0 PLCL2 Inactive phospholipase C-like protein 2 1 0 GGAAGGALPT(0.227)S(0.773)PGPALGAK 106.35 0.0010431 4051200 2530 3020.7 2599.3 2230.4 2595 2843.6 2901.6 2487.5 2753 2911.4 TRUE FALSE FALSE 2796.117008 3118.572662 2953.519067 2273.572617 2396.171661 2601.309282 2575.104331 2423.873352 2733.841649 3036.924702 0.920706729 1.026885079 0.972536153 0.748643065 0.789012536 0.856560349 0.84793157 0.798134162 0.900200669 1 11.56839542 -6.275339591 24.76388948 0.968133412 0.811908307 0.75816479 0.043998509 257.4351384 458632.3333 0.006931381 0.010621923 5.30E-07 6.275339591 -0.156225105 GGAEGELQALR ddPTM_HeLa_SAHA_4h_R1 2 GGAEGELQALR 11 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 136.52 0.006349 9769900 3326.3 3194.9 2649.5 3631.3 3756.8 3768.1 3698.4 3679.2 3267.8 2881.4 FALSE FALSE TRUE 3676.175496 3298.416856 3010.560062 3701.589062 3468.954796 3447.036681 3282.246298 3585.091391 3245.059114 3005.631255 1.223095977 1.097412349 1.001639857 1.231551294 1.154151824 1.146859474 1.092032262 1.192791493 1.079659758 1 11.55345231 -9.540178212 1.289330498 0.99961053 1.148452767 0.233815734 0.068672632 0.36684252 1.087648773 0.04791388 0.011272018 2.88E-10 9.540178212 0.148842237 GGAEQFMEETER ddPTM_HeLa_SAHA_4h_R1 4 GGAEQFMEETER 12 0 Q99832-3;Q99832;Q99832-4;Q99832-2 Q99832-3 CCT7 T-complex protein 1 subunit eta 0 0 ;;; ;;; 233.09 3.53E-22 89989000 4401.75 4127.85 3954.96 4169.9 4315.96 5300.86 5056.6 4665.28 4587.7 4202.55 FALSE FALSE TRUE 4864.746261 4261.595048 4493.921352 4250.614444 3985.272077 4849.196906 4487.61806 4545.948893 4555.773822 4383.742497 1.109724457 0.972136263 1.025133514 0.969631416 0.909102686 1.106177406 1.023695635 1.037001807 1.039243027 1 12.09794734 -7.241238899 24.91750055 1.051814331 1.006245266 0.117675506 0.054525872 1388.63585 1712897.707 0.010373682 0.01269553 5.74E-08 7.241238899 -0.045569066 GGALPPAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GGALPPAKR 9 1 E7ETY2;Q13428-6;Q13428-7;H0Y8Y7;Q13428-5;Q13428;Q13428-3;Q13428-4;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 0 1 ; GGALPPAK(1)R;GGALPPAK(1)R 111.65 0.0022105 7835400 1737.63 1847.12 2058.2 2387.3 3095 2444.5 2851.4 2501.4 1582.24 1227.17 FALSE TRUE FALSE 1920.401896 1906.9679 2338.680777 2433.509644 2857.861769 2236.214848 2530.552968 2437.41781 1571.229063 1280.079304 1.500221033 1.489726374 1.826981164 1.901061626 2.232566185 1.746934616 1.976872026 1.904114692 1.227446657 1 10.32201748 -7.661440471 0.437234114 1.000301286 2.014808411 0.81992902 0.150291432 0.236147478 0.118462171 0.087187384 0.070637718 2.18E-08 7.661440471 1.014507125 GGASS(ph)SCCEEEQTQGR ddPTM_HeLa_SAHA_4h_R1 2 GGASSSCCEEEQTQGR 16 0 Q9UJK0 Q9UJK0 TSR3 Ribosome biogenesis protein TSR3 homolog 1 0 GGAS(0.129)S(0.799)S(0.072)CCEEEQTQGR;GGAS(0.027)S(0.968)S(0.004)CCEEEQTQGR ; 292.27 3.55E-86 12971200 2238.46 2068.09 1629.92 1965.92 2108.79 2922.6 2407.5 2437.86 2018.19 2182.5 TRUE FALSE FALSE 2473.911493 2135.097473 1852.037009 2003.973224 1947.214966 2673.578038 2136.601764 2375.503071 2004.145251 2276.598256 1.086670205 0.937845519 0.813510686 0.88024895 0.85531778 1.174374104 0.938506282 1.043444123 0.880324513 1 11.15266401 -11.65046785 9.918943784 1.000244666 1.001400146 0 0.115297392 0 0 0 0.015448805 2.24E-12 11.65046785 0.00115548 GGCGS(ph)PGLQCK ddPTM_HeLa_SAHA_4h_R1 2 GGCGSPGLQCK 11 0 Q86YV5 Q86YV5 SGK223 Tyrosine-protein kinase SgK223 1 0 GGCGS(1)PGLQCK;GGCGS(1)PGLQCK ; 94.538 0.01198 26723000 3639.9 3477.5 3141.9 4152.1 4425.3 4023.2 4292.3 3916.1 4223.2 3559.3 TRUE FALSE FALSE 4022.761382 3590.173282 3570.06177 4232.4699 4086.23447 3680.400726 3809.319107 3815.931832 4193.810407 3712.758842 1.083496546 0.966982623 0.961565758 1.139979751 1.100592482 0.991284617 1.026007686 1.027788767 1.129567146 1 11.85827589 -9.737081383 1.666148728 0.999979172 1.044321303 0 0.068093774 0.874071032 4.383596672 0.041772914 0.009049301 1.83E-10 9.737081383 0.044342131 GGCPGGEATLS(ph)QPPPR ddPTM_HeLa_SAHA_4h_R1 2 GGCPGGEATLSQPPPR 16 0 P20290 P20290 BTF3 Transcription factor BTF3 1 0 GGCPGGEAT(0.017)LS(0.983)QPPPR;GGCPGGEAT(0.001)LS(0.999)QPPPR ; 151.9 2.14E-10 3069400 413.11 314.73 540.44 508.28 568.13 540.97 460.95 534.13 542.88 451.51 TRUE FALSE FALSE 456.5628052 324.9274585 614.0883487 518.1184944 524.6000021 494.8763126 409.0826928 520.467728 539.1020539 470.9768057 0.969395519 0.689901189 1.303861127 1.10009344 1.113855281 1.050744552 0.868583522 1.105081443 1.144646716 1 8.879512203 -6.745867024 24.99979577 0.962970524 1.079996942 0.180014991 0.143816456 348.7306999 559849.3329 0.020710865 0.029230099 1.80E-07 6.745867024 0.117026418 GGDDYS(ph)EDEGDSSVSR ddPTM_HeLa_SAHA_4h_R1 4 GGDDYSEDEGDSSVSR 16 0 A6NDA1;Q99871-3;Q99871;Q99871-2 A6NDA1 HAUS7 HAUS augmin-like complex subunit 7 1 0 GGDDYS(1)EDEGDSSVSR;GGDDYS(0.992)EDEGDS(0.005)SVS(0.003)R;GGDDYS(1)EDEGDSSVSR;GGDDYS(0.999)EDEGDSSVSR ;;; 257.16 8.61E-47 35462500 3943.67 4216.2 3386.47 3894.9 4515.67 4790.22 4894.11 4868.24 4150.05 4027.98 TRUE FALSE FALSE 4358.483305 4352.807646 3847.960496 3970.291422 4169.68034 4382.066307 4343.411862 4743.71747 4121.169464 4201.64593 1.037327604 1.035976786 0.915822171 0.944937172 0.992392127 1.042940405 1.033740571 1.129014093 0.980846443 1 12.03673888 -4.009585013 1.340002176 1.005623956 1.246859905 0.508930655 0.039380372 1.769753443 1.779866189 0.006385809 0.679004067 9.78E-05 4.009585013 0.241235949 GGDLMAYDRR ddPTM_HeLa_SAHA_4h_R1 3 GGDLMAYDRR 10 1 P61978;P61978-2;P61978-3;Q5T6W2 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 ;; ;; 120.99 0.0059859 46990000 8706.3 7506.2 12846.7 11241.8 11584.9 5409.3 10747.4 4975.1 3312.51 5460.5 FALSE FALSE TRUE 9622.06858 7749.405805 14597.38137 11459.40129 10697.26746 4948.397208 9538.074266 4847.844146 3289.457973 5695.928878 1.689288751 1.360516602 2.562774516 2.011858213 1.878054957 0.868760357 1.674542374 0.851106861 0.577510366 1 12.47571542 -5.256532261 24.89148957 1.515037685 1.185777152 0.110112784 0.559126244 918.5328941 4659262.104 0.078727752 0.19387772 5.54E-06 5.256532261 -0.329260533 GGDQQSGYGK(ac)VSR ddPTM_HeLa_SAHA_4h_R1 2 GGDQQSGYGKVSR 13 1 Q14103-3;H0YA96;Q14103-4 Q14103-3 HNRNPD Heterogeneous nuclear ribonucleoprotein D0 0 1 ; GGDQQSGYGK(1)VSR;GGDQQSGYGK(1)VSR 171.49 1.36E-10 3020200 201.64 280.65 446.25 402.22 426.1 429.86 674.47 593.57 209.27 138.02 FALSE TRUE FALSE 222.8494204 289.7432441 507.062626 410.0055497 393.4523101 393.2335097 598.5768605 578.3873389 207.813673 143.9707177 1.54788018 2.012515106 3.521984431 2.847839869 2.732863435 2.731343679 4.157629206 4.017395678 1.443444031 1 7.1696316 -6.035227261 0.291471516 0.790692997 4.744588603 0.782302505 0.483340223 0.884597947 0.135068881 0.351844806 1.228091732 9.22E-07 6.035227261 3.953895605 GGDSIGET(ph)PTPGASKR ddPTM_HeLa_SAHA_4h_R1 2 GGDSIGETPTPGASKR 16 1 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 GGDSIGET(0.83)PT(0.157)PGAS(0.012)KR;GGDSIGET(0.915)PT(0.085)PGASKR ; 134.88 0.00019048 26011100 4258.9 4336.4 3549.9 4005.9 4614.8 4477.4 4143.3 5133.3 3982.1 4045.4 TRUE FALSE FALSE 4706.870643 4476.902205 4033.661885 4083.439987 4261.215021 4095.900331 3677.084979 5001.997619 3954.388242 4219.816992 1.115420562 1.060923309 0.955885502 0.967681773 1.009810385 0.970634589 0.871384941 1.185358898 0.937099464 1 12.04296472 -6.775150279 24.83769014 1.056508509 0.986444544 0 0.087080022 309.451181 560578.9072 0.01277701 0.016843354 1.68E-07 6.775150279 -0.070063965 GGDSIGETPTPGAS(ph)K ddPTM_HeLa_SAHA_4h_R1 2 GGDSIGETPTPGASK 15 0 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 GGDSIGET(0.008)PT(0.002)PGAS(0.989)K;GGDSIGET(0.012)PT(0.009)PGAS(0.979)K ; 93.768 0.006622 10480800 3668.4 3664.6 3411.74 4948 4333.3 4850.5 4581.8 5338.9 5810 4283.1 TRUE FALSE FALSE 4054.259143 3783.335444 3876.67416 5043.775695 4001.28349 4437.210112 4066.243805 5202.338669 5769.567737 4467.765402 0.907446739 0.846807096 0.867698684 1.128925814 0.895589435 0.993160946 0.910129212 1.164416257 1.29137661 1 12.12533772 -6.301512007 24.9997646 0.939190142 1.004197152 0 0.142961564 915.3096486 571024.4306 0.013963299 0.021329426 4.99E-07 6.301512007 0.06500701 GGDSIGETPTPGASK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GGDSIGETPTPGASKR 16 1 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 0 1 ; GGDSIGETPTPGASK(1)R;GGDSIGETPTPGASK(1)R 255.24 7.16E-71 5550400 766.11 893.92 886.92 997.3 1319.39 1784.98 1369.12 1240.65 821.02 642.82 FALSE TRUE FALSE 846.6929648 922.8835945 1007.784839 1016.604184 1218.298623 1632.889662 1215.063014 1208.915969 815.306455 670.5351161 1.262712339 1.376338945 1.502956094 1.51610879 1.816905027 2.435203799 1.812079614 1.802912242 1.215904187 1 9.389169078 -6.431410403 0.618688475 1.076025599 2.041262739 0.743045145 0.197097243 0.26663183 0.203013015 0.048412081 0.111326684 3.70E-07 6.431410403 0.965237141 GGDVS(ph)PSPYSSSSWR ddPTM_HeLa_SAHA_4h_R1 5 GGDVSPSPYSSSSWR 15 0 Q14004-2;Q14004;A0A2R8Y7W5;A0A2R8Y4Z0;A0A2R8YFE7 Q14004-2 CDK13 Cyclin-dependent kinase 13 1 0 GGDVS(0.888)PS(0.112)PYSSSSWR;GGDVS(0.982)PS(0.018)PYSSSSWR;GGDVS(0.998)PS(0.002)PYSSSSWR;GGDVS(1)PSPYSSSSWR;GGDVS(0.977)PS(0.023)PYSSSSWR ;;;; 249.58 4.03E-34 196447600 5160.79 6453.81 4296.81 5440.62 5642.31 5974.15 5877.5 5303.31 5347.3 5577.26 TRUE FALSE FALSE 5703.625571 6662.917678 4882.35689 5545.931067 5209.997427 5465.11881 5216.148231 5167.659009 5310.087704 5817.722973 0.980387962 1.145279297 0.839221275 0.953282082 0.895538934 0.93939138 0.896596186 0.888261444 0.912743307 1 12.50623888 -6.723613233 24.99984483 1.002070802 0.90553106 0.424289265 0.061044424 112.6068778 74423.24035 0.008065592 0.011406318 1.89E-07 6.723613233 -0.096539742 GGEFDEFVNDDT(ph)DDDLPISK ddPTM_HeLa_SAHA_4h_R1 3 GGEFDEFVNDDTDDDLPISK 20 0 Q6PD62 Q6PD62 CTR9 RNA polymerase-associated protein CTR9 homolog 1 0 GGEFDEFVNDDT(0.995)DDDLPIS(0.005)K;GGEFDEFVNDDT(0.998)DDDLPIS(0.002)K;GGEFDEFVNDDT(0.991)DDDLPIS(0.009)K ;; 87.72 0.0019065 7812100 3456.37 4027.55 3845.4 4806.8 4454 5883.6 4346.3 4491.3 5060.5 4747.66 TRUE FALSE FALSE 3819.926855 4158.045263 4369.431086 4899.842565 4112.735482 5382.28418 3857.242885 4376.419049 5025.283568 4952.354857 0.771335449 0.839609718 0.882293618 0.9893965 0.830460579 1.086813109 0.778870456 0.883704657 1.014726067 1 12.27389898 GGEIQPVSVK ddPTM_HeLa_SAHA_4h_R1 4 GGEIQPVSVK 10 0 P61604;B8ZZL8;B8ZZ54 P61604 HSPE1 "10 kDa heat shock protein, mitochondrial" 0 0 ;;; ;;; 174.98 1.73E-11 22753900 9047.7 9657.9 8845.1 8996 10165.9 8628.1 10342.1 9158.8 8891.3 8757.8 FALSE FALSE TRUE 9999.378598 9970.822297 10050.46416 9170.130588 9386.990938 7892.93734 9178.379689 8924.531158 8829.424719 9135.391618 1.094575801 1.091449903 1.100167851 1.00380268 1.027541164 0.86399551 1.004705663 0.97691829 0.966507522 1 13.15725086 -5.49186269 16.68609954 1.050232281 0.952756593 0.377588032 0.053859679 9.123266433 4907.006509 0.007695537 0.017126822 3.22E-06 5.49186269 -0.097475688 GGEIQPVSVK(ac)VGDK ddPTM_HeLa_SAHA_4h_R1 2 GGEIQPVSVKVGDK 14 1 P61604;B8ZZL8;B8ZZ54 P61604 HSPE1 "10 kDa heat shock protein, mitochondrial" 0 1 ; GGEIQPVSVK(1)VGDK;GGEIQPVSVK(1)VGDK 186.16 3.05E-16 3459600 1218.44 1631.22 1270.86 1255.38 1890.98 1455.29 1853.03 1376.49 1902.87 1667.02 FALSE TRUE FALSE 1346.60111 1684.072598 1444.046182 1279.679695 1746.093521 1331.291105 1644.522187 1341.281379 1889.627773 1738.89339 0.774401189 0.968473747 0.830439744 0.73591613 1.004140639 0.765596736 0.945729161 0.771341927 1.086684085 1 10.76395377 -9.515861858 1.229787077 1.001175875 0.845412725 0.382520207 0.094051615 0.453610731 1.212981298 0.060216295 0.014038903 3.05E-10 9.515861858 -0.155763151 GGET(ph)PGSEQWK ddPTM_HeLa_SAHA_4h_R1 1 GGETPGSEQWK 11 0 O60271-3;O60271;A0A087X2D8;O60271-5;O60271-9;O60271-4;O60271-2;D6RHI8 O60271-3 SPAG9 C-Jun-amino-terminal kinase-interacting protein 4 1 0 GGET(0.993)PGS(0.007)EQWK 106.26 0.0088982 12150000 4201.3 6503.5 4166.3 3891.1 4959.7 5347.7 4519.1 3866.5 5643.2 5590.9 TRUE FALSE FALSE 4643.21201 6714.217667 4734.061667 3966.417867 4579.688857 4892.045875 4010.598974 3767.600529 5603.928512 5831.95106 0.796167863 1.151281552 0.811745781 0.68011851 0.785275598 0.838835207 0.68769421 0.64602746 0.960901155 1 12.5097629 -6.529461871 24.9968779 0.922568895 0.735876095 0.553366905 0.101141341 131.074953 497705.0006 0.017859945 0.02529286 2.95E-07 6.529461871 -0.1866928 GGETPEGLATS(ph)VVHYGAGAK ddPTM_HeLa_SAHA_4h_R1 1 GGETPEGLATSVVHYGAGAK 20 0 Q9ULL5;Q9ULL5-2 Q9ULL5 PRR12 Proline-rich protein 12 1 0 GGET(0.025)PEGLAT(0.457)S(0.518)VVHYGAGAK 62.611 0.010005 7610800 1005.1 1066.4 669.11 1021.7 1509.4 1710.2 1793.2 1542.1 1611.3 1192.7 TRUE FALSE FALSE 1110.82103 1100.95206 760.2928262 1041.476481 1393.750098 1564.481339 1591.424417 1502.655315 1600.086832 1244.123134 0.892854573 0.884922103 0.611107378 0.837116884 1.120267006 1.257497185 1.279153464 1.207802728 1.286116131 1 10.28091356 -5.57295284 3.944269944 0.908092141 1.245419528 0.472087891 0.15785778 0.109862128 3.575919444 0.017933389 0.038104277 2.67E-06 5.57295284 0.337327388 GGFDGEYQDDSLDLLR ddPTM_HeLa_SAHA_4h_R1 1 GGFDGEYQDDSLDLLR 16 0 Q5F1R6;Q5F1R6-3;Q5F1R6-2 Q5F1R6 DNAJC21 DnaJ homolog subfamily C member 21 0 0 198.81 2.82E-14 3188200 356.82 298.91 310.14 474.02 589.17 457.57 363.79 462.16 493.16 369.23 FALSE FALSE TRUE 394.3519647 308.5948801 352.4042641 483.1953425 544.0279219 418.5824618 322.8553918 450.3386164 489.7280594 385.1493123 1.023893727 0.801234405 0.914980899 1.254566287 1.412511731 1.086805684 0.838260336 1.169257226 1.271527804 1 8.589274039 -6.269946813 24.75010299 0.98590835 1.145654532 0.152395436 0.174339074 707.7279566 2058942.562 0.024500792 0.037798212 5.37E-07 6.269946813 0.159746181 GGFDS(ph)PFYR ddPTM_HeLa_SAHA_4h_R1 3 GGFDSPFYR 9 0 A0A2R8YEH9;A0A2R8Y6S1;A0A2R8YFV7;A0A2R8Y5N2;A0A2R8Y5S3;Q92574-2;Q92574 A0A2R8YEH9 TSC1 Hamartin 1 0 GGFDS(1)PFYR;GGFDS(0.979)PFY(0.021)R;GGFDS(0.999)PFY(0.001)R ;; 107.45 0.0070591 56583000 5617.1 5659.1 4949.8 6119.5 5936.2 6643 4805.7 5061.6 6102.8 5931.8 TRUE FALSE FALSE 6207.93235 5842.458553 5624.332967 6237.951771 5481.369638 6076.979028 4264.949988 4932.131601 6060.330118 6187.548928 1.003294264 0.944228259 0.908975918 1.00814585 0.885870916 0.982130258 0.689279396 0.797105875 0.979439547 1 12.59515231 -4.769406505 24.99876916 0.982045932 0.743192625 0.764011433 0.04826404 49.35800071 154874.6385 0.006947025 0.021388524 1.70E-05 4.769406505 -0.238853307 GGGAPWPGGAQT(ph)YSPSSTCR ddPTM_HeLa_SAHA_4h_R1 3 GGGAPWPGGAQTYSPSSTCR 20 0 A0A087WXN9;Q765P7 A0A087WXN9 MTSS1L MTSS1-like protein 1 0 GGGAPWPGGAQT(0.946)YS(0.046)PS(0.006)S(0.002)TCR;GGGAPWPGGAQT(0.985)YS(0.015)PS(0.001)STCR;GGGAPWPGGAQT(0.522)YS(0.476)PS(0.002)STCR ;; 251.74 2.99E-92 19654000 3040.57 2575.63 2493.84 2990.63 2957.71 2645.25 2582.84 2506.29 2902.32 2714.1 TRUE FALSE FALSE 3360.391103 2659.082102 2833.687528 3048.517968 2731.090899 2419.859818 2292.212046 2442.182731 2882.122519 2831.118133 1.186948387 0.939233892 1.000907555 1.07678939 0.964668647 0.854736434 0.809649028 0.862621274 1.018015633 1 11.46715623 -5.460564027 1.744295099 1.071658051 0.829469175 0.597598802 0.067764672 0.195711782 1.158919607 0.013045482 0.037266809 3.46E-06 5.460564027 -0.242188876 GGGAPWPGGAQTYS(ph)PSSTCR ddPTM_HeLa_SAHA_4h_R1 1 GGGAPWPGGAQTYSPSSTCR 20 0 A0A087WXN9;Q765P7 A0A087WXN9 MTSS1L MTSS1-like protein 1 0 GGGAPWPGGAQT(0.436)YS(0.463)PS(0.073)S(0.022)T(0.007)CR 121.77 0.00016978 4444200 1174.5 815.91 653.71 751.94 827.74 948.35 1010.2 905.66 966.29 767.54 TRUE FALSE FALSE 1298.039299 842.3460193 742.7941944 766.494886 764.31874 867.5452447 896.5296373 882.4945286 959.5655092 800.6324056 1.6212675 1.052100831 0.927759343 0.957361806 0.954643772 1.083574982 1.119776855 1.102246827 1.198509456 1 9.6449962 -7.036545399 24.90026041 1.295655704 1.022137776 0.342654488 0.155002183 603.9418647 411495.4771 0.0391201 0.047920931 9.19E-08 7.036545399 -0.273517928 GGGDVLEPVSSDSLS(ph)TK ddPTM_HeLa_SAHA_4h_R1 2 GGGDVLEPVSSDSLSTK 17 0 Q5JSH3-2;Q5JSH3;Q5JSH3-4;H7BY83 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 GGGDVLEPVSSDS(0.049)LS(0.83)T(0.12)K;GGGDVLEPVSS(0.003)DS(0.182)LS(0.712)T(0.103)K ; 153.95 3.75E-05 6914700 2608.61 3524.7 2359.12 2849.21 3423.4 2872.61 2922.4 3165.1 3570.1 2744.95 TRUE FALSE FALSE 2882.995569 3638.902593 2680.608588 2904.36058 3161.099832 2627.847467 2593.563861 3084.141325 3545.255383 2863.298228 1.006879249 1.270877954 0.936196084 1.014340927 1.104006492 0.91776939 0.905795923 1.077128919 1.238171892 1 11.48346223 -5.239833183 24.8856577 1.025413578 0.96078787 0.037682599 0.117973468 1563.945284 1801323.92 0.013252831 0.033758014 5.76E-06 5.239833183 -0.064625709 GGGGGGQGAEGPPGT(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 GGGGGGQGAEGPPGTPR 17 0 Q8TER5-4;Q8TER5-3;Q8TER5;G3V485;G3V3N2;G3V5C1 Q8TER5-4 ARHGEF40 Rho guanine nucleotide exchange factor 40 1 0 GGGGGGQGAEGPPGT(1)PR;GGGGGGQGAEGPPGT(1)PR;GGGGGGQGAEGPPGT(1)PR;GGGGGGQGAEGPPGT(1)PR ;;; 170 8.25E-07 20154200 3283.56 3342.77 2760.25 11020.57 2496.47 2510.95 2924.47 6067.13 8041.61 3479.16 TRUE FALSE FALSE 3628.939906 3451.077941 3136.402495 11233.88907 2305.191008 2297.002934 2595.400939 5911.9416 7985.647781 3629.163614 0.999938358 0.95092928 0.864221851 3.095448501 0.635185198 0.63292901 0.715151262 1.629009388 2.200409965 1 11.82542138 GGGGGGQGAEGPPGT(ph)PRR ddPTM_HeLa_SAHA_4h_R1 1 GGGGGGQGAEGPPGTPRR 18 1 Q8TER5-4;Q8TER5-3;Q8TER5;G3V485;G3V3N2;G3V5C1 Q8TER5-4 ARHGEF40 Rho guanine nucleotide exchange factor 40 1 0 GGGGGGQGAEGPPGT(1)PRR 97.57 0.0031225 678290 278.55 140.05 175.84 319.54 241.19 234.3 218.52 237.48 145.78 253.49 TRUE FALSE FALSE 307.849167 144.5877119 199.8025595 325.7251588 222.7100743 214.3363219 193.9315545 231.4056055 144.7655051 264.4191944 1.164246672 0.546812466 0.755628047 1.231851415 0.842261375 0.810592901 0.733424648 0.875146776 0.547484858 1 8.046683097 -7.304538306 24.99960383 1.07756094 0.836957853 0 0.235404223 427.8117294 248151.9149 0.029474359 0.033705323 4.96E-08 7.304538306 -0.240603087 GGGGGQDNGLEGLGNDS(ph)R ddPTM_HeLa_SAHA_4h_R1 4 GGGGGQDNGLEGLGNDSR 18 0 P08621-2;P08621;P08621-4 P08621-2 SNRNP70 U1 small nuclear ribonucleoprotein 70 kDa 1 0 GGGGGQDNGLEGLGNDS(1)R;GGGGGQDNGLEGLGNDS(1)R;GGGGGQDNGLEGLGNDS(1)R;GGGGGQDNGLEGLGNDS(1)R ;;; 290.67 2.45E-74 61882900 1734.65 2575.21 2054.49 2975.79 2671.74 3681.65 3029.22 2134.02 3706.46 2402.14 TRUE FALSE FALSE 1917.108446 2658.648494 2334.465198 3033.390719 2467.031858 3367.952708 2688.364193 2079.434858 3680.666443 2505.708011 0.765096507 1.061036833 0.931658911 1.210592258 0.984564781 1.3441122 1.072896036 0.82987916 1.468912749 1 11.29100259 -6.755504431 1.857492526 0.892443081 1.091145408 0 0.233831725 0.356070589 2.512072787 0.026405752 0.038159834 1.76E-07 6.755504431 0.198702327 GGGGNFGPGPGS(ph)NFR ddPTM_HeLa_SAHA_4h_R1 2 GGGGNFGPGPGSNFR 15 0 P22626;P22626-2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 1 0 GGGGNFGPGPGS(1)NFR;GGGGNFGPGPGS(1)NFR ; 144.4 0.00010435 18625800 2770.6 2530.1 2365.9 2414.6 2499.1 3253.6 2840.1 2658.2 2855.4 2433 TRUE FALSE FALSE 3062.02442 2612.0769 2688.312531 2461.338075 2307.619498 2976.374976 2520.524473 2590.207093 2835.529039 2537.898537 1.206519636 1.029228262 1.059267142 0.969833127 0.909263891 1.172771461 0.993154154 1.020610972 1.11727439 1 11.30941868 -7.037593765 24.87488614 1.09859426 1.0211758 0.197669644 0.078800847 840.7554403 556305.6732 0.016088546 0.01970715 9.17E-08 7.037593765 -0.07741846 GGGGNFGPGPGSNFR ddPTM_HeLa_SAHA_4h_R1 4 GGGGNFGPGPGSNFR 15 0 P22626;P22626-2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 0 0 ;;; ;;; 251.75 5.26E-43 43815800 3191.3 3371.2 2874.31 3913.82 4019.12 4300.85 4016.62 4583.1 3186.19 2998.07 FALSE FALSE TRUE 3526.975576 3480.429092 3266.005998 3989.577646 3711.175894 3934.393384 3564.659346 4465.870938 3164.017044 3127.33147 1.127790773 1.112907002 1.044342766 1.275713075 1.186690931 1.258067276 1.13984059 1.428013302 1.011730632 1 11.61071643 -1 0.129308896 0.950294565 2.18213923 0.662900796 0.073475468 37.23686605 0.325203685 0.242307233 8.38904653 0.1 1 1.231844664 GGGLGS(ph)PGEGGALPR ddPTM_HeLa_SAHA_4h_R1 1 GGGLGSPGEGGALPR 15 0 Q7Z7A3 Q7Z7A3 CTU1 Cytoplasmic tRNA 2-thiolation protein 1 1 0 GGGLGS(1)PGEGGALPR 92.151 0.005147 0 727.94 944.9 629.6 968.86 865.43 1269.9 854.13 1152.2 1041.2 1056.4 TRUE FALSE FALSE 804.5080691 975.51538 715.3986092 987.6136863 799.1209404 1161.697376 758.0210445 1122.728392 1033.954204 1101.946574 0.730079015 0.885265586 0.649213516 0.896244618 0.725190276 1.054222957 0.687892737 1.018859189 0.938297944 1 10.10583856 -9.51678327 1.270603237 0.99997902 0.816650591 0.139951678 0.131062144 0.518707765 1.499382473 0.081979822 0.019732047 3.04E-10 9.51678327 -0.183328428 GGGPGKS(ph)PTQGST ddPTM_HeLa_SAHA_4h_R1 1 GGGPGKSPTQGST 13 1 Q6P582 Q6P582 MZT2A Mitotic-spindle organizing protein 2A 1 0 GGGPGKS(0.948)PT(0.042)QGS(0.005)T(0.005) 104.81 0.015883 17609000 1615.9 1422.2 1609.4 1982 2269.6 2775.1 2430.2 1756.6 2197.4 2778.4 TRUE FALSE FALSE 1785.867776 1468.280213 1828.720651 2020.364476 2095.703738 2538.645868 2156.7475 1711.668716 2182.108114 2898.190421 0.616200979 0.506619649 0.630987059 0.697112399 0.723107675 0.875941708 0.744170391 0.590599121 0.752920891 1 11.50093667 -9.267506913 1.011910688 0.998810302 0.675950389 0.228620856 0.119621864 0.306642754 0.566122947 0.070088823 0.019353953 5.40E-10 9.267506913 -0.322859913 GGGQIIPTAR ddPTM_HeLa_SAHA_4h_R1 2 GGGQIIPTAR 10 0 P13639;K7EJ74;K7EP67;Q15029-3;Q15029;Q15029-2 P13639;Q15029-3 EEF2;EFTUD2 Elongation factor 2;116 kDa U5 small nuclear ribonucleoprotein component 0 0 ; ; 106.68 0.012703 3413200 3272.4 2602.4 2494.5 2524.9 2621.3 3269.5 3095.1 2819.3 2368.3 2508.2 FALSE FALSE TRUE 3616.606046 2686.719467 2834.437469 2573.773091 2420.45656 2990.920206 2746.831202 2747.186388 2351.818807 2616.340777 1.382314597 1.026899665 1.083359436 0.983730068 0.925130465 1.143169205 1.049875164 1.050010921 0.89889621 1 11.35333475 GGGSCSGSAGGGGS(ph)GSLPSQR ddPTM_HeLa_SAHA_4h_R1 2 GGGSCSGSAGGGGSGSLPSQR 21 0 O15234 O15234 CASC3 Protein CASC3 1 0 GGGSCSGSAGGGGS(0.502)GS(0.426)LPS(0.072)QR;GGGSCSGSAGGGGS(0.982)GS(0.018)LPSQR ; 234.51 1.64E-34 6391700 750.05 594.84 516.07 594.14 887.21 699.93 791.69 919.58 911.37 604.38 TRUE FALSE FALSE 828.9437004 614.1132063 586.397332 605.6404388 819.2321615 640.2920263 702.6069576 896.0584751 905.027702 630.4377796 1.314869964 0.974105972 0.93014307 0.960666474 1.299465527 1.0156308 1.114474704 1.421327376 1.435554358 1 9.300210182 -4.261696855 8.786534881 1.112132668 1.422876029 0.231557358 0.16667278 0.091541272 127.500313 0.021759307 0.169601003 5.47E-05 4.261696855 0.310743361 GGGSCSGSAGGGGSGS(ph)LPSQR ddPTM_HeLa_SAHA_4h_R1 1 GGGSCSGSAGGGGSGSLPSQR 21 0 O15234 O15234 CASC3 Protein CASC3 1 0 GGGSCSGSAGGGGS(0.265)GS(0.712)LPS(0.023)QR 250.39 9.40E-44 3794700 504.01 415.39 485.96 412.48 373.27 376.96 378.45 530.6 488.75 498.95 TRUE FALSE FALSE 557.0240843 428.8489085 552.184098 420.4641469 344.6701332 344.8408873 335.86581 517.0280203 485.348749 520.4621763 1.070248924 0.823977088 1.060949524 0.807866865 0.662238581 0.662566663 0.645322226 0.993401718 0.932534142 1 9.023649512 -6.130074245 3.889623845 1.016857954 0.728630098 0.46587392 0.11672507 0.122916642 3.257467046 0.01676002 0.028652826 7.41E-07 6.130074245 -0.288227856 GGGSGGGEES(ph)EGEEVDED ddPTM_HeLa_SAHA_4h_R1 2 GGGSGGGEESEGEEVDED 18 0 Q96QR8 Q96QR8 PURB Transcriptional activator protein Pur-beta 1 0 GGGSGGGEES(1)EGEEVDED;GGGSGGGEES(1)EGEEVDED ; 148.85 9.53E-05 16839700 4816.3 5007.9 4921.8 4873.1 4992.2 5503.9 5485.6 5597.4 6060.4 5139.2 TRUE FALSE FALSE 5322.900532 5170.159246 5592.517272 4967.425897 4609.698715 5034.936756 4868.345851 5454.226613 6018.225183 5360.776063 0.992934693 0.964442309 1.043229041 0.926624399 0.859893915 0.939217885 0.908141992 1.01743228 1.122640661 1 12.38822615 -6.229933019 22.14168974 0.996824558 0.925621334 0.36159627 0.05683101 115.96029 81492.73977 0.005701744 0.009453943 5.89E-07 6.229933019 -0.071203224 GGGSGNPTTTIES(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 GGGSGNPTTTIESPK 15 0 O00592;O00592-2;G3V0E6 O00592 PODXL Podocalyxin 1 0 GGGSGNPTTTIES(1)PK 142.95 0.00011932 3335500 1062.7 1456.4 1099.6 1266.1 1413.7 1484.1 1385.6 1128.8 1603.5 1074.8 TRUE FALSE FALSE 1174.479662 1503.588316 1249.447762 1290.607196 1305.382611 1357.646331 1229.688641 1099.92693 1592.341113 1121.139888 1.047576377 1.341124628 1.114444125 1.151156256 1.164335178 1.210951769 1.096819991 0.981079116 1.420287629 1 10.13075058 -7.494764025 21.39021905 1.020989097 1.153790792 0 0.152637637 49.62797045 37759.43719 0.014717519 0.016002951 3.20E-08 7.494764025 0.132801694 GGGT(ph)PDANSLAPPGK ddPTM_HeLa_SAHA_4h_R1 2 GGGTPDANSLAPPGK 15 0 Q5T171;Q9BRQ0 Q5T171 PYGO2 Pygopus homolog 2 1 0 GGGT(0.999)PDANS(0.001)LAPPGK;GGGT(0.91)PDANS(0.09)LAPPGK ; 235.35 5.69E-25 210650000 15431.3 14852.9 15131.8 15299.2 15386.8 16259.9 16573.8 15450.8 15674.2 13378.7 TRUE FALSE FALSE 17054.43494 15334.14371 17193.8829 15595.33814 14207.86671 14874.46504 14708.8724 15055.59091 15565.12197 13955.52123 1.222056464 1.098786885 1.23204878 1.117503093 1.018082125 1.065848047 1.053982303 1.078826843 1.115337916 1 13.76854839 -5.787844301 22.54397867 1.1181848 1.055003492 0.246882085 0.063368931 134.5217629 114851.5614 0.013440658 0.024372698 1.63E-06 5.787844301 -0.063181307 GGGTSSGGSSTNS(ph)LTGSRPPK ddPTM_HeLa_SAHA_4h_R1 3 GGGTSSGGSSTNSLTGSRPPK 21 1 Q5T9C2-3;Q5T9C2-2;Q5T9C2 Q5T9C2-3 FAM102A Protein FAM102A 1 0 GGGTSSGGSSTNS(1)LTGSRPPK;GGGTSSGGSSTNS(0.98)LT(0.02)GSRPPK;GGGTSSGGSS(0.001)T(0.007)NS(0.987)LT(0.006)GSRPPK ;; 133.47 3.08E-06 11120900 1790.18 2274.74 1894.55 2177.46 2460.19 3076.47 2938.07 2924.07 2268.24 2151.64 TRUE FALSE FALSE 1978.479346 2348.443069 2152.729408 2219.607887 2271.690774 2814.337448 2607.470631 2849.276523 2252.455133 2244.40773 0.881515118 1.046353137 0.959152554 0.988950384 1.01215601 1.253933236 1.161763344 1.269500405 1.003585535 1 11.13211907 -5.374525927 3.268516967 0.956080479 1.223345463 0.818529916 0.051848092 0.079625082 1.593652473 0.008553388 0.020834268 4.22E-06 5.374525927 0.267264983 GGIDNPAIT(ph)SDQELDDKK ddPTM_HeLa_SAHA_4h_R1 2 GGIDNPAITSDQELDDKK 18 1 H0YK04;Q13017-2;Q13017;A0A0A0MSK6 H0YK04 ARHGAP5 Rho GTPase-activating protein 5 1 0 GGIDNPAIT(0.856)S(0.144)DQELDDKK;GGIDNPAIT(0.5)S(0.5)DQELDDKK ; 140.27 0.00016292 155715000 7701.9 7227.6 6669.2 6821.9 8025.7 8564.9 8275.2 8319 7004.8 7482.8 TRUE FALSE FALSE 8512.02118 7461.778982 7578.043844 6953.947739 7410.7726 7835.122335 7344.052717 8106.212026 6956.053026 7805.420128 1.090526972 0.955974036 0.970869437 0.890912677 0.949439297 1.003805331 0.940891406 1.038536285 0.891182398 1 12.93026057 -7.241037608 24.42962938 1.042748848 0.961815515 0 0.063612989 464.2207288 555870.7268 0.007992964 0.00978283 5.74E-08 7.241037608 -0.080933334 GGIDNPAITS(ph)DQELDDK ddPTM_HeLa_SAHA_4h_R1 2 GGIDNPAITSDQELDDK 17 0 H0YK04;Q13017-2;Q13017;A0A0A0MSK6 H0YK04 ARHGAP5 Rho GTPase-activating protein 5 1 0 GGIDNPAIT(0.091)S(0.909)DQELDDK;GGIDNPAIT(0.228)S(0.772)DQELDDK ; 209.33 3.80E-16 10147800 4388.5 3420.6 2996.4 3321.7 4634.5 4515.9 3973.9 4214.9 3956.7 3808.3 TRUE FALSE FALSE 4850.102565 3531.429684 3404.733787 3385.996307 4279.405611 4131.119914 3526.746313 4107.088961 3929.165003 3972.49445 1.220921168 0.888970325 0.857077041 0.852360236 1.077259053 1.039930947 0.887791376 1.033881611 0.989092635 1 11.95582949 -7.247782285 24.823239 1.104323887 0.947162707 0.225608252 0.097376628 659.5563786 1198814.959 0.018584126 0.022691982 5.65E-08 7.247782285 -0.15716118 GGIVDEGALLR ddPTM_HeLa_SAHA_4h_R1 2 GGIVDEGALLR 11 0 A0A286YF22;A0A2C9F2M7;O43175;A0A286YFL2;A0A286YFA2;A0A286YFM8;A0A286YF78 A0A286YF22 PHGDH D-3-phosphoglycerate dehydrogenase 0 0 ; ; 128.86 0.0086633 7624200 3553.8 3128.4 2526.1 3189 2759.5 3615.7 3760.7 3287.8 3339 3177.9 FALSE FALSE TRUE 3927.604989 3229.762213 2870.343753 3250.727706 2548.067706 3307.622019 3337.536138 3203.702837 3315.763627 3314.914821 1.184828329 0.974312279 0.865887634 0.980636874 0.768667626 0.997800003 1.006824102 0.966451028 1.000256057 1 11.69475608 -7.052953316 8.079136119 1.087051495 0.931351237 0.317569563 0.083187826 0.252232727 35.71619185 0.01548742 0.019051016 8.85E-08 7.052953316 -0.155700258 GGIVGMTLPIAR ddPTM_HeLa_SAHA_4h_R1 1 GGIVGMTLPIAR 12 0 Q99714;Q99714-2 Q99714 HSD17B10 3-hydroxyacyl-CoA dehydrogenase type-2 0 0 140.45 0.00024769 665360 200.1 333.19 258.09 230.56 300.95 156.51 303.25 255.12 269.31 108.6 FALSE FALSE TRUE 221.1474361 343.9855746 293.2611611 235.0228222 277.891276 143.1744675 269.1275119 248.5943998 267.4358498 113.2822775 1.95218035 3.036534772 2.588764701 2.074665406 2.453086945 1.263873491 2.375724764 2.194468591 2.360791606 1 6.823778365 -8.515497048 0.909714947 1.10029101 2.245374024 0 0.589207111 0.304237126 0.516813156 0.177119945 0.095619519 3.05E-09 8.515497048 1.145083014 GGK(ac)GLGK(ac)GGAK ddPTM_HeLa_SAHA_4h_R1 2 GGKGLGKGGAK 11 2 P62805 P62805 HIST1H4A Histone H4 0 2 ; GGK(1)GLGK(1)GGAK;GGK(1)GLGK(1)GGAK 136.99 0.0022928 32489000 5935.2 14119.6 9295.1 12256.8 11803.7 12192.6 12314.1 8641 7786.5 8304.2 FALSE TRUE FALSE 6559.491568 14577.0843 10561.78782 12494.04809 10899.30306 11153.72189 10928.48506 8419.975732 7732.313113 8662.234702 0.757251655 1.682831833 1.219291347 1.442358527 1.258255338 1.287626377 1.261624215 0.97203274 0.892646457 1 13.08052355 -7.285969016 24.99936832 0.885368828 1.301585305 0.541504756 0.177149615 428.5068043 436711.2729 0.030856531 0.035293869 5.18E-08 7.285969016 0.416216477 PEPTK(ac)SAPAPK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 PEPTKSAPAPKK 12 2 P58876 P58876 HIST1H2BD Histone H2B type 1-D 0 2 ; PEPTK(1)SAPAPK(1)K;PEPTK(1)SAPAPK(1)K 139.76 0.003523 8829700 1179.95 1448.3 2363.9 6614.9 7780.7 7988.6 8278 7732.2 1126.25 836.07 FALSE TRUE FALSE 1304.062555 1495.22587 2686.039981 6742.940955 7184.544447 7307.926337 7346.537653 7534.42152 1118.412335 872.1170693 1.495283834 1.714478392 3.07990759 7.731692444 8.238050486 8.379524486 8.423797575 8.639231802 1.282410784 1 9.768377999 -6.340341585 2.122312111 1.260805861 8.465935989 0.996039574 0.209592191 0.016319691 0.143657632 0.043130313 0.072330866 4.57E-07 6.340341585 7.205130128 up GGKDPLSS(ph)PGGPGSR ddPTM_HeLa_SAHA_4h_R1 2 GGKDPLSSPGGPGSR 15 1 B7WPE2;Q32P44;G3V1D0;H0Y3M3;Q32P44-2 B7WPE2 EML3 Echinoderm microtubule-associated protein-like 3 1 0 GGKDPLS(0.007)S(0.993)PGGPGSR;GGKDPLS(0.119)S(0.881)PGGPGSR ; 162.64 2.57E-05 9901500 4205.1 4179 3362.7 4190.6 4248.7 4974.1 4487.2 4248.2 4124.2 4421.1 TRUE FALSE FALSE 4647.411712 4314.402342 3820.951244 4271.715123 3923.165524 4550.278696 3982.288446 4139.537195 4095.499356 4611.715257 1.007740386 0.935530947 0.828531475 0.926274691 0.850695523 0.986678154 0.863515682 0.897613353 0.888064229 1 12.17108772 -7.110228777 3.93017126 1.003515213 0.894041441 0.172989419 0.055078859 0.108148744 2.951554711 0.006326869 0.007855314 7.76E-08 7.110228777 -0.109473772 GGLGLILK ddPTM_HeLa_SAHA_4h_R1 1 GGLGLILK 8 0 B1AJY5;B1AJY7;O75832 B1AJY5 PSMD10 26S proteasome non-ATPase regulatory subunit 10 0 0 103.29 0.012844 562670 367.27 284.42 359.45 446.4 375.81 218.12 483.38 108.38 317.23 254.25 FALSE FALSE TRUE 405.9011437 293.6353946 408.4339741 455.0407175 347.015519 199.5349489 428.9888102 105.6077965 315.0223706 265.2119618 1.530478267 1.107172515 1.540028479 1.715762421 1.308445956 0.752360292 1.617531907 0.398201483 1.187813583 1 8.051002036 -4.247537874 24.63767588 1.28493805 0.398200755 0.471422475 0.287750702 1491.452498 2643251.67 0.042403539 1.147042362 5.66E-05 4.247537874 -0.886737295 GGLLTSEEDSGFST(ph)SPKDNSLPK ddPTM_HeLa_SAHA_4h_R1 1 GGLLTSEEDSGFSTSPKDNSLPK 23 1 Q9UQR1 Q9UQR1 ZNF148 Zinc finger protein 148 1 0 GGLLTS(0.001)EEDS(0.056)GFS(0.056)T(0.413)S(0.413)PKDNS(0.061)LPK 80.752 0.0006746 7588600 2327.5 1980.8 1791.3 1776.7 2021.9 2663.8 2330.2 2305.9 2093.8 2262.9 TRUE FALSE FALSE 2572.317129 2044.97922 2035.409035 1811.090598 1866.982459 2436.829254 2067.999763 2246.918417 2079.229075 2360.464693 1.089750309 0.866346032 0.862291667 0.767260194 0.790938523 1.032351494 0.876098579 0.951896643 0.880855825 1 11.20485519 -7.253317261 24.77822992 1.042382091 0.875788065 0.185517206 0.089266173 331.5632646 1011503.611 0.013145706 0.015949759 5.58E-08 7.253317261 -0.166594025 GGLLTSEEDSGFSTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 GGLLTSEEDSGFSTSPK 17 0 Q9UQR1 Q9UQR1 ZNF148 Zinc finger protein 148 1 0 GGLLTSEEDS(0.001)GFS(0.052)T(0.416)S(0.531)PK 106.52 0.0011845 0 1071.4 1302.3 998.79 853.97 1463.5 1507.6 1473.7 1288.8 1737.7 1254.1 TRUE FALSE FALSE 1184.094768 1344.495374 1134.8999 870.4998242 1351.366946 1379.143998 1307.875397 1255.834362 1725.607204 1308.170388 0.905153318 1.027767779 0.867547462 0.66543306 1.03302059 1.054254102 0.999774501 0.959992959 1.319099729 1 10.35333475 GGLRPGS(ph)LDAEIDLLSSTLAELNGGR ddPTM_HeLa_SAHA_4h_R1 1 GGLRPGSLDAEIDLLSSTLAELNGGR 26 1 Q15654 Q15654 TRIP6 Thyroid receptor-interacting protein 6 1 0 GGLRPGS(0.999)LDAEIDLLS(0.001)STLAELNGGR 65.534 0.00082496 4401400 363.1 343.56 543.97 585.02 1007.9 762.27 613.81 326.42 595.76 501.09 TRUE FALSE FALSE 401.292524 354.6915694 618.0993987 596.3439081 930.6749197 697.3203076 544.7424833 318.0706491 591.6140577 522.6944422 0.767738265 0.678583013 1.182525294 1.14090348 1.780533414 1.334087856 1.042181511 0.6085212 1.131854502 1 9.029824009 -6.670814033 8.087606532 0.871601867 1.20939299 0.180487938 0.294624671 0.286883888 22.63598966 0.047020322 0.066511529 2.13E-07 6.670814033 0.337791123 GGLS(ph)PANDTGAK ddPTM_HeLa_SAHA_4h_R1 5 GGLSPANDTGAK 12 0 K7EN42;B7Z8J4;P30419 K7EN42 NMT1 Glycylpeptide N-tetradecanoyltransferase 1 1 0 GGLS(0.998)PANDT(0.002)GAK;GGLS(1)PANDTGAK;GGLS(0.999)PANDT(0.001)GAK;GGLS(1)PANDTGAK;GGLS(1)PANDTGAK ;;;; 193.51 3.50E-07 2115354400 21699 23982.4 16929.8 23151.5 23249.7 26867.4 23322.1 21990.3 29151.4 22262.5 TRUE FALSE FALSE 23981.40038 24759.4455 19236.90498 23599.63076 21468.31301 24578.14637 20697.83593 21427.81997 28948.53303 23222.34533 1.032686408 1.066190566 0.828379077 1.016246655 0.924467908 1.058383467 0.891289645 0.922724198 1.246580939 1 14.50322606 GGLS(ph)PANDTGAKK ddPTM_HeLa_SAHA_4h_R1 3 GGLSPANDTGAKK 13 1 K7EN42;B7Z8J4;P30419 K7EN42 NMT1 Glycylpeptide N-tetradecanoyltransferase 1 1 0 GGLS(0.999)PANDT(0.001)GAKK;GGLS(1)PANDTGAKK;GGLS(1)PANDTGAKK ;; 107.11 0.0052649 72802200 11936.8 11244.17 9328.64 11445 12171.3 12623.3 12816.7 12078.8 11404.81 10501.27 TRUE FALSE FALSE 13192.36739 11608.48849 10599.89848 11666.53452 11238.73762 11547.72382 11374.53118 11769.84179 11325.443 10954.03114 1.204339044 1.059745799 0.967671019 1.065044856 1.025991024 1.054198557 1.038387698 1.074475838 1.033906409 1 13.41917427 -7.009214759 24.97849373 1.098364436 1.037014413 0.070762075 0.056988844 742.6170689 2013020.404 0.012904193 0.016460429 9.79E-08 7.009214759 -0.061350024 GGLSPANDTGAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 GGLSPANDTGAKK 13 1 K7EN42;B7Z8J4;P30419 K7EN42 NMT1 Glycylpeptide N-tetradecanoyltransferase 1 0 1 ; GGLSPANDTGAK(1)K;GGLSPANDTGAK(1)K 202 4.93E-24 4093200 1554.04 1976.33 1152.07 1698.31 1788.35 2185.8 1890.69 1971.06 1665.1 1437.33 FALSE TRUE FALSE 1717.501057 2040.364389 1309.0681 1731.183246 1651.327009 1999.557543 1677.944585 1920.643139 1653.512434 1499.30033 1.145535036 1.360877702 0.87311933 1.154660751 1.101398416 1.333660443 1.119151748 1.28102629 1.102856046 1 10.55007369 -13.52287875 0.108739306 0.431253737 1.279035651 0.122310746 0.132501459 120.7258522 0.966389769 15.35567311 0.819650265 3.00E-14 13.52287875 0.847781914 KTVTPAK(ac)AVTTPGKK ddPTM_HeLa_SAHA_4h_R1 2 KTVTPAKAVTTPGKK 15 3 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 ; KTVTPAK(1)AVTTPGKK;KTVTPAK(1)AVTTPGKK 169.09 4.69E-11 2873400 1274.67 1318.26 1708.08 3050.6 3163.4 3696.5 3575.3 3991.1 1110.76 885.51 FALSE TRUE FALSE 1408.745639 1360.972489 1940.848247 3109.648774 2921.020975 3381.537404 3172.997834 3889.013441 1103.030131 923.6886697 1.525130366 1.473410396 2.101193087 3.36655507 3.162343624 3.660906012 3.435137767 4.210307616 1.194157909 1 9.851262861 -6.337969054 0.858832262 1.18540326 3.818112593 0.946941753 0.257055936 0.090083538 0.13173386 0.052101456 0.112139757 4.59E-07 6.337969054 2.632709333 up GGLVS(ph)DAYGEDDFSR ddPTM_HeLa_SAHA_4h_R1 3 GGLVSDAYGEDDFSR 15 0 J3QQJ0;Q9UHR5-2;Q9UHR5;J3KS14;F5H478;J3KRU5;X6R3T8;J3QLH3 J3QQJ0 SAP30BP SAP30-binding protein 1 0 GGLVS(1)DAYGEDDFSR;GGLVS(1)DAYGEDDFSR;GGLVS(1)DAYGEDDFSR ;; 233.97 4.82E-25 25576900 3977.42 4321.12 3384.32 3680.13 4633.02 5251.3 4563.8 4863.3 3842.45 4430.49 TRUE FALSE FALSE 4395.783285 4461.127123 3845.517505 3751.364238 4278.039009 4803.859697 4050.269213 4738.903828 3815.710078 4621.510106 0.951157345 0.965296412 0.832091117 0.811718281 0.925679899 1.039456711 0.876395187 1.025401594 0.825641401 1 12.17414862 -7.965276846 1.026854325 0.989208809 0.921418122 0 0.08700854 0.66769367 1.490410819 0.019311925 0.01577242 1.08E-08 7.965276846 -0.067790687 GGNFGFGDSR ddPTM_HeLa_SAHA_4h_R1 3 GGNFGFGDSR 10 0 P22626;P22626-2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 0 0 ;; ;; 166.07 0.00087707 162797000 10487.6 10410 9466.1 11402.3 10827.3 12013.8 12449.6 10856.3 11588.3 10002.4 FALSE FALSE TRUE 11590.73389 10747.29083 10756.09081 11623.008 9997.714613 10990.15665 11048.73824 10578.61157 11507.65608 10433.65241 1.110898986 1.030060271 1.030903693 1.113992257 0.958218102 1.053337433 1.05895211 1.013893423 1.1029365 1 13.34895666 -5.771347756 24.99768698 1.053791957 1.026106616 0.159039941 0.044563977 479.0222513 1208523.856 0.007507785 0.013723144 1.69E-06 5.771347756 -0.027685341 GGNGGGK(ac)PPSGPNR ddPTM_HeLa_SAHA_4h_R1 1 GGNGGGKPPSGPNR 14 1 Q8N3U4;Q8N3U4-2;B1AMS9;B1AMT0;B1AMT1;B1AMT2;B1AMT3;B1AMT4 Q8N3U4 STAG2 Cohesin subunit SA-2 0 1 GGNGGGK(1)PPSGPNR 88.338 0.0093993 0 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 GGNIGDGGGAADR ddPTM_HeLa_SAHA_4h_R1 4 GGNIGDGGGAADR 13 0 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 ;;; ;;; 134.18 0.00080398 27343800 6903.45 6993.88 5598.87 7097.76 7101.19 7809.73 7797.49 7008.57 7139.56 6807.02 FALSE FALSE TRUE 7629.586545 7220.486301 6361.854846 7235.147408 6557.098356 7144.297068 6920.095903 6829.300928 7089.875221 7100.503945 1.074513387 1.016897724 0.895972299 1.018962522 0.923469434 1.006167608 0.97459222 0.961805103 0.998503103 1 12.79370571 -6.982652417 24.9792122 1.035740496 0.965790379 0.341261793 0.039222344 178.5377803 257080.1438 0.00647157 0.008504381 1.04E-07 6.982652417 -0.069950118 GGNLPPVS(ph)PNDSGAK ddPTM_HeLa_SAHA_4h_R1 4 GGNLPPVSPNDSGAK 15 0 Q9UK61-3;Q9UK61;Q9UK61-2;A0A087X0F1;Q9UK61-4 Q9UK61-3 FAM208A Protein FAM208A 1 0 GGNLPPVS(0.999)PNDS(0.001)GAK;GGNLPPVS(1)PNDSGAK;GGNLPPVS(0.999)PNDS(0.001)GAK;GGNLPPVS(1)PNDSGAK ;;; 144.29 0.00010519 59349600 12926.3 11299.6 11393.6 12342.8 13011.4 15036.7 13296.8 14537.8 13231.2 12520.5 TRUE FALSE FALSE 14285.94754 11665.71445 12946.26047 12581.71274 12014.46934 13755.48857 11800.60907 14165.94413 13139.123 13060.32003 1.093843605 0.893218116 0.99126671 0.963354092 0.919921512 1.053227527 0.9035467 1.084655207 1.00603377 1 13.67290263 -7.27594506 24.99759919 1.044315034 0.971495617 0.157328421 0.0626331 854.5536191 1472646.185 0.010445857 0.011970947 5.30E-08 7.27594506 -0.072819417 GGPAS(ph)PGGLQGLETR ddPTM_HeLa_SAHA_4h_R1 4 GGPASPGGLQGLETR 15 0 C9JWC4;Q8NCD3-3;Q8NCD3-2;Q8NCD3 C9JWC4 HJURP Holliday junction recognition protein 1 0 GGPAS(0.998)PGGLQGLET(0.002)R;GGPAS(1)PGGLQGLETR;GGPAS(1)PGGLQGLETR;GGPAS(1)PGGLQGLETR ;;; 185.74 8.74E-09 140008000 4169.36 3620.52 3621.01 3625.36 3893.85 4262.28 4085.26 3929.11 3947.74 4430.4 TRUE FALSE FALSE 4607.912415 3737.827224 4114.462385 3695.534085 3595.504054 3899.109765 3625.575793 3828.609055 3920.267356 4621.416226 0.997077993 0.808805578 0.890303358 0.799654025 0.778009138 0.843704521 0.784516178 0.828449304 0.848282683 1 12.17411932 -7.263743263 24.88554202 0.998620167 0.819096671 0.465210903 0.056335576 40.6845204 439455.8082 0.004951041 0.005807997 5.45E-08 7.263743263 -0.179523496 GGPASVPSS(ph)SPGTSVK ddPTM_HeLa_SAHA_4h_R1 1 GGPASVPSSSPGTSVK 16 0 O43237;O43237-2;J3KRZ2;J3KRI4 O43237 DYNC1LI2 Cytoplasmic dynein 1 light intermediate chain 2 1 0 GGPASVPS(0.12)S(0.743)S(0.132)PGT(0.004)S(0.001)VK 209.22 7.80E-16 17637000 3538.5 3789.4 2578.8 3471.3 3500.8 4303.9 4205.1 3525.6 4215.7 3202.9 TRUE FALSE FALSE 3910.695665 3912.179046 2930.225434 3538.492031 3232.56946 3937.183507 3731.931081 3435.420257 4186.3626 3340.992694 1.170519071 1.170963065 0.877052332 1.059113969 0.967547599 1.178447207 1.117012644 1.028263325 1.253029559 1 11.70606111 GGPASVPSSS(ph)PGTSVK ddPTM_HeLa_SAHA_4h_R1 1 GGPASVPSSSPGTSVK 16 0 O43237;O43237-2;J3KRZ2;J3KRI4 O43237 DYNC1LI2 Cytoplasmic dynein 1 light intermediate chain 2 1 0 GGPASVPS(0.007)S(0.045)S(0.948)PGTSVK 225.31 2.41E-27 10342000 2128.9 2576.4 1946.9 2288.8 2603.2 2375.9 2272.9 2001.7 2735.7 2357.6 TRUE FALSE FALSE 2352.82747 2659.87705 2212.213393 2333.103034 2403.743378 2173.459954 2017.14731 1950.499412 2716.662041 2459.247674 0.95672652 1.081581607 0.89954884 0.948706004 0.977430376 0.88379059 0.820229427 0.793128497 1.104671998 1 11.26400132 -4.863984317 1.017748548 0.981886442 0.761603558 0.633534364 0.058315665 0.340902257 0.480671436 0.00666882 0.064703022 1.37E-05 4.863984317 -0.220282883 GGPASVPSSSPGT(ph)SVK ddPTM_HeLa_SAHA_4h_R1 1 GGPASVPSSSPGTSVK 16 0 O43237;O43237-2;J3KRZ2;J3KRI4 O43237 DYNC1LI2 Cytoplasmic dynein 1 light intermediate chain 2 1 0 GGPASVPS(0.162)S(0.23)S(0.153)PGT(0.349)S(0.106)VK 130.66 0.00023119 11416000 4331.1 4576.7 3618.9 4481.1 5241.6 5463.7 4843.7 4299.5 5318.4 4786.3 TRUE FALSE FALSE 4786.66497 4724.988083 4112.064846 4567.83817 4839.98974 4998.162022 4298.674128 4189.525016 5281.388821 4992.660817 0.958740268 0.946386758 0.823621912 0.914910573 0.9694209 1.001101858 0.860998631 0.839136719 1.057830487 1 12.28559318 -1.000068198 0.028475915 1.397514538 0.26352649 0.417211317 0.05556915 1184.664046 2.615881023 34.21147345 78.61368124 0.099984298 1.000068198 -1.133988048 GGPEGVAAQAVAS(ph)AASAGPADAEMEEIFDDASPGKQK ddPTM_HeLa_SAHA_4h_R1 2 GGPEGVAAQAVASAASAGPADAEMEEIFDDASPGKQK 37 1 O60264 O60264 SMARCA5 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5 1 0 GGPEGVAAQAVAS(0.485)AAS(0.442)AGPADAEMEEIFDDAS(0.073)PGKQK;GGPEGVAAQAVAS(0.63)AAS(0.369)AGPADAEMEEIFDDAS(0.001)PGKQK ; 84.741 1.62E-08 10355400 2578.4 2353.1 2308.6 2036.91 2570.4 2877.7 2905.9 2607.7 2145.9 2569.6 TRUE FALSE FALSE 2849.607942 2429.341984 2623.203985 2076.337338 2373.456507 2632.503771 2578.920484 2540.99881 2130.966507 2680.388031 1.063132617 0.906339663 0.978665758 0.77464058 0.885489892 0.982135325 0.962144456 0.947996626 0.795021647 1 11.38822615 -7.254875476 24.9117654 1.029812625 0.919050494 0 0.094602625 366.3122567 1390253.913 0.010432453 0.01261765 5.56E-08 7.254875476 -0.110762131 GGPEGVAAQAVASAAS(ph)AGPADAEMEEIFDDASPGK ddPTM_HeLa_SAHA_4h_R1 1 GGPEGVAAQAVASAASAGPADAEMEEIFDDASPGK 35 0 O60264 O60264 SMARCA5 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5 1 0 GGPEGVAAQAVAS(0.013)AAS(0.57)AGPADAEMEEIFDDAS(0.418)PGK 61.526 0.0014434 0 375.73 451.51 130.94 262.44 254.03 522.46 377.34 296.18 477.13 301.84 TRUE FALSE FALSE 415.2510053 466.1392202 148.7838213 267.5199057 234.5662763 477.9434687 334.8807101 288.6041445 473.8096135 314.8537996 1.318869284 1.480494188 0.472548915 0.849663895 0.745000621 1.517985393 1.063607016 0.916629067 1.504855949 1 8.298538267 GGPGAAPGGASPASSSSAAS(ph)SPSSGR ddPTM_HeLa_SAHA_4h_R1 1 GGPGAAPGGASPASSSSAASSPSSGR 26 0 Q9BXK1 Q9BXK1 KLF16 Krueppel-like factor 16 1 0 GGPGAAPGGASPASSSSAAS(0.5)S(0.5)PSSGR 348.2 1.83E-178 11043000 815.51 999.31 381.78 873.66 868.63 967.55 938.35 831.71 901.36 801.88 TRUE FALSE FALSE 901.2890835 1031.6883 433.8069902 890.5709526 802.0757571 885.1092967 832.7643884 810.4360625 895.0873624 836.4529711 1.077513159 1.233408614 0.518626875 1.064699372 0.958901199 1.058169828 0.995590209 0.968896149 1.07009885 1 9.708140618 GGPGAAPGGASPASSSSAASS(ph)PSSGR ddPTM_HeLa_SAHA_4h_R1 2 GGPGAAPGGASPASSSSAASSPSSGR 26 0 Q9BXK1 Q9BXK1 KLF16 Krueppel-like factor 16 1 0 GGPGAAPGGASPASSS(0.001)S(0.015)AAS(0.23)S(0.75)PS(0.003)S(0.001)GR;GGPGAAPGGASPASSSSAAS(0.229)S(0.768)PS(0.002)S(0.001)GR ; 255.63 1.29E-102 11859000 2824.4 3051.68 2087.17 2540.47 2909.39 3028.62 3136.96 3085.6 3110.94 2715.17 TRUE FALSE FALSE 3121.483351 3150.556434 2371.598658 2589.64447 2686.473167 2770.564537 2783.981005 3006.67482 3089.290715 2832.234266 1.102127528 1.112392598 0.837359637 0.914346847 0.948534942 0.978225767 0.982962828 1.061591146 1.090761012 1 11.46772489 -6.784864914 24.99928644 1.054386826 0.954233288 0.471927059 0.061753131 202.2657206 215853.421 0.011154728 0.014664897 1.64E-07 6.784864914 -0.100153538 AAATPAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 AAATPAKK 8 1 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 ; AAATPAK(1)K;AAATPAK(1)K 129.47 0.00030835 40171000 7557.7 8554.6 20260.9 36257 30622 41454 59479 35757 2752.6 9188.4 FALSE TRUE FALSE 8352.653562 8831.774653 23021.94994 36958.80666 28275.74898 37921.88599 52786.26638 34842.38772 2733.444432 9584.556891 0.871469976 0.921458838 2.401983754 3.856078803 2.950136276 3.956561208 5.50742898 3.635263279 0.285192572 1 13.22649602 -6.335978456 1.144019974 0.896003913 4.28824792 0.851008415 0.631789154 0.116243896 0.301206524 0.103061038 0.198768347 4.61E-07 6.335978456 3.392244007 up GGPGSAVS(ph)PYPTFNPSSDVAALHK ddPTM_HeLa_SAHA_4h_R1 1 GGPGSAVSPYPTFNPSSDVAALHK 24 0 P04083;Q5T3N1;Q5T3N0 P04083 ANXA1 Annexin A1;Annexin 1 0 GGPGS(0.005)AVS(0.942)PY(0.01)PT(0.043)FNPSSDVAALHK 133.15 3.56E-07 9229200 2527.3 2432.1 1734.3 2207.1 2724.6 3123.1 2698.1 2827.9 2322.6 2687.6 TRUE FALSE FALSE 2793.13301 2510.901636 1970.641372 2249.821612 2515.841737 2856.99431 2394.502687 2755.566413 2306.436837 2803.475589 0.996310801 0.895638844 0.702927958 0.802511576 0.897400979 1.019090133 0.854119328 0.982910793 0.822706232 1 11.45300079 -7.227934181 5.018268367 0.998465786 0.873820743 0 0.099663547 0.180902297 12.04955302 0.014504145 0.017545768 5.92E-08 7.227934181 -0.124645043 GGPGSAVSPYPTFNPSSDVAALHK ddPTM_HeLa_SAHA_4h_R1 2 GGPGSAVSPYPTFNPSSDVAALHK 24 0 P04083;Q5T3N1;Q5T3N0 P04083 ANXA1 Annexin A1;Annexin 0 0 ; ; 171.42 1.05E-20 4912400 1612.52 2036.96 1323.57 1755.62 2214.4 2632.93 2449.06 2549.21 2215.86 2305.77 FALSE FALSE TRUE 1782.132252 2102.95884 1503.939227 1789.602564 2044.73315 2408.589552 2173.485323 2484.004899 2200.43965 2405.183029 0.740954942 0.87434462 0.625290969 0.744060865 0.850136196 1.001416326 0.903667329 1.032771673 0.914874096 1 11.23193097 -5.273765948 20.51562433 0.843507327 0.971723297 0.311371062 0.103847591 92.94935669 154702.193 0.018847254 0.042597626 5.32E-06 5.273765948 0.12821597 GGPGSTLSFVGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GGPGSTLSFVGKR 13 1 Q9BQ61 Q9BQ61 C19orf43 Uncharacterized protein C19orf43 0 1 ; GGPGSTLSFVGK(1)R;GGPGSTLSFVGK(1)R 169.58 7.92E-11 2468600 0 0 0 259.43 0 0 283.732 0 0 0 FALSE TRUE FALSE 0 0 0 264.4516428 0 0 251.8057286 0 0 0 0 GGPPFAFVEFEDPRDAEDAVYGR ddPTM_HeLa_SAHA_4h_R1 2 GGPPFAFVEFEDPRDAEDAVYGR 23 1 J3KTL2;Q07955;Q07955-3;Q07955-2 J3KTL2 SRSF1 Serine/arginine-rich splicing factor 1 0 0 ; ; 126.43 8.01E-06 70208000 822.63 577.26 740.8 809.53 727.85 653.1 746.54 799.97 677.64 751.3 FALSE FALSE TRUE 909.1579978 595.9636028 841.7523661 825.1996238 672.0822902 597.4522058 662.5373544 779.5079257 672.9242481 783.6922198 1.16009573 0.760456194 1.074085393 1.05296391 0.857584487 0.762355668 0.845405043 0.994660794 0.858658835 1 9.614143364 -6.07656882 0.958908683 1.060547307 0.856050093 0 0.134615306 0.514362442 0.928053976 0.02252226 0.055750725 8.38E-07 6.07656882 -0.204497214 GGPTVDPEELFR ddPTM_HeLa_SAHA_4h_R1 1 GGPTVDPEELFR 12 0 Q96EY1-2;Q96EY1 Q96EY1-2 DNAJA3 "DnaJ homolog subfamily A member 3, mitochondrial" 0 0 118.03 0.009792 1679900 834.49 771.68 730.22 787.46 806.52 1045.6 1103.7 906.61 1161.6 961.21 FALSE FALSE TRUE 922.265487 796.6829383 829.7305788 802.702427 744.7246118 956.5089976 979.5087712 883.420229 1153.516331 1002.652467 0.91982568 0.794575353 0.827535568 0.800578918 0.74275448 0.953978601 0.97691753 0.881083185 1.150464761 1 9.96960592 -7.901975109 1.323647389 0.979125034 0.856632718 0.418018227 0.087999802 0.323580428 1.182902477 0.017922996 0.015919677 1.25E-08 7.901975109 -0.122492316 GGQGDPAVPAQQPADPS(ph)TPERQSSPSGS(ph)EQLVR ddPTM_HeLa_SAHA_4h_R1 1 GGQGDPAVPAQQPADPSTPERQSSPSGSEQLVR 33 1 H0Y704;O15231-2;O15231-3;H7BZT5;O15231-9;O15231-5;O15231-4;O15231-7;O15231;O15231-8;O15231-6 H0Y704 ZNF185 Zinc finger protein 185 2 0 GGQGDPAVPAQQPADPS(0.499)T(0.499)PERQS(0.292)S(0.292)PS(0.121)GS(0.296)EQLVR 76.762 2.30E-06 13427000 886.03 699.34 914.37 570.36 694.88 914.64 999.14 797.36 856.6 658.06 TRUE FALSE FALSE 979.2267007 721.9990749 1038.975582 581.4001426 641.6384445 836.7075264 886.7141376 776.9646858 850.6388509 686.4321871 1.426545432 1.051814132 1.513588088 0.846988462 0.934744111 1.218922338 1.291772377 1.131888481 1.239217605 1 9.422973393 -6.245468583 24.90943081 1.21422362 1.095465942 0.145027029 0.187154977 1907.832454 2975619.685 0.033275982 0.05505781 5.68E-07 6.245468583 -0.118757679 GGQGDPAVPAQQPADPST(ph)PER ddPTM_HeLa_SAHA_4h_R1 2 GGQGDPAVPAQQPADPSTPER 21 0 H0Y704;O15231-2;O15231-3;H7BZT5;O15231-9;O15231-5;O15231-4;O15231-7;O15231;O15231-8;O15231-6 H0Y704 ZNF185 Zinc finger protein 185 1 0 GGQGDPAVPAQQPADPS(0.11)T(0.89)PER;GGQGDPAVPAQQPADPS(0.113)T(0.887)PER ; 216.61 6.85E-27 53580000 7408.2 9749.1 6201.4 6853.1 9021.2 9012.2 8409.9 7590.4 9813.7 7379.2 TRUE FALSE FALSE 8187.428466 10064.97724 7046.494496 6985.75166 8329.997605 8244.309859 7463.595918 7396.248559 9745.405663 7697.353425 1.063667993 1.307589334 0.915443804 0.907552411 1.082189831 1.071057726 0.969631444 0.960882027 1.266072262 1 12.91014678 GGQGDPAVPTQQPADPS(ph)TPEQQNS(ph)PSGSEQFVR ddPTM_HeLa_SAHA_4h_R1 1 GGQGDPAVPTQQPADPSTPEQQNSPSGSEQFVR 33 0 H0Y704;O15231-2;O15231-3;H7BZT5;O15231-9;O15231-5;O15231-4;O15231-7;O15231;O15231-8;O15231-6 H0Y704 ZNF185 Zinc finger protein 185 2 0 GGQGDPAVPT(0.243)QQPADPS(0.677)T(0.08)PEQQNS(0.954)PS(0.041)GS(0.005)EQFVR 119.02 1.43E-15 3120700 936.92 1030.2 866.69 1035.4 1405.7 1368.1 1358.3 1144.8 1599.5 1026.8 TRUE FALSE FALSE 1035.469544 1063.579156 984.7979997 1055.441664 1297.99557 1251.530183 1205.460509 1115.517674 1588.368949 1071.070373 0.966761448 0.993005859 0.91945219 0.985408327 1.211867681 1.168485484 1.125472742 1.041498021 1.482973471 1 10.06483756 -5.781218153 24.19345488 0.979328363 1.138280684 0 0.165502611 60.29455344 73752.39968 0.006727911 0.012208979 1.65E-06 5.781218153 0.15895232 GGQGDPAVPTQQPADPST(ph)PEQQNS(ph)PSGSEQFVR ddPTM_HeLa_SAHA_4h_R1 1 GGQGDPAVPTQQPADPSTPEQQNSPSGSEQFVR 33 0 H0Y704;O15231-2;O15231-3;H7BZT5;O15231-9;O15231-5;O15231-4;O15231-7;O15231;O15231-8;O15231-6 H0Y704 ZNF185 Zinc finger protein 185 2 0 GGQGDPAVPT(0.231)QQPADPS(0.44)T(0.485)PEQQNS(0.594)PS(0.186)GS(0.063)EQFVR 73.104 3.13E-05 5394900 1658.7 1673.8 1434.9 1476.2 1826.5 1879.9 1379.7 1666.8 1635.5 1527.3 TRUE FALSE FALSE 1833.169676 1728.032218 1630.440699 1504.773986 1686.553965 1719.721944 1224.452525 1624.165669 1624.118422 1593.149377 1.150657749 1.084664277 1.023407298 0.944527868 1.058628895 1.079448022 0.768573583 1.01946854 1.019438883 1 10.63766583 -5.117438349 0.838684733 1.068221032 0.896218959 0.179193549 0.088462559 1.005919714 1.004989156 0.015615353 0.121916553 7.63E-06 5.117438349 -0.172002073 GGQNSTAASTK(ac)YDVFR ddPTM_HeLa_SAHA_4h_R1 2 GGQNSTAASTKYDVFR 16 1 Q9UMZ2-6;Q9UMZ2-9;Q9UMZ2-4;Q9UMZ2-8;Q9UMZ2-3;Q9UMZ2-7;Q9UMZ2-5;Q9UMZ2 Q9UMZ2-6 SYNRG Synergin gamma 0 1 ; GGQNSTAASTK(1)YDVFR;GGQNSTAASTK(1)YDVFR 332.06 1.60E-181 8575700 622.98 712.05 673.37 676.52 604.34 779.35 1002.52 594.66 349.83 321.96 FALSE TRUE FALSE 688.5078947 735.1208872 765.1333568 689.6150229 558.0355998 712.9449955 889.7138111 579.4494583 347.3955045 335.8412712 2.05009912 2.188893832 2.278258875 2.053395702 1.661605191 2.122862961 2.649209276 1.725367035 1.034403852 1 8.391635722 -9.053084282 0.648084294 0.917564502 2.120135953 0.724015018 0.26396066 0.371432209 0.259971315 0.24658027 0.059052913 8.85E-10 9.053084282 1.202571451 GGREGFES(ph)DTDSEFTFK ddPTM_HeLa_SAHA_4h_R1 3 GGREGFESDTDSEFTFK 17 1 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 GGREGFES(0.99)DT(0.01)DSEFTFK;GGREGFES(0.767)DT(0.152)DS(0.08)EFT(0.001)FK;GGREGFES(0.412)DT(0.219)DS(0.359)EFT(0.01)FK ;; 120.4 0.0017661 31139500 4480.4 3832.35 4586.7 4288.95 5315.9 4496.88 5245 5338.6 3758.86 4357.9 TRUE FALSE FALSE 4951.669029 3956.520654 5211.751589 4371.968829 4908.59689 4113.720525 4654.818796 5202.046342 3732.701787 4545.790396 1.089286702 0.870370235 1.146500638 0.961762081 1.079811532 0.904951651 1.023984476 1.144365641 0.821133722 1 12.15031545 GGREGFESDT(ph)DSEFTFK ddPTM_HeLa_SAHA_4h_R1 1 GGREGFESDTDSEFTFK 17 1 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 GGREGFES(0.187)DT(0.809)DS(0.004)EFTFK 85.397 0.0077204 11883000 2212.8 1956.7 2373 1797.1 2440.3 2305.6 2297.7 2494.6 1753.4 1890.9 TRUE FALSE FALSE 2445.552457 2020.098364 2696.380082 1831.885469 2253.324741 2109.149909 2039.156749 2430.791744 1741.197947 1972.425953 1.23987035 1.02416943 1.367037418 0.928747397 1.142412843 1.069317662 1.033831838 1.232386818 0.882769741 1 10.94575543 -4.233823013 22.31990049 1.109098352 1.232387563 0.059352602 0.139591465 4478.563954 3619382.818 0.01713705 1.626282912 5.84E-05 4.233823013 0.123289212 GGRS(ph)PDEVTLTSIVPTR ddPTM_HeLa_SAHA_4h_R1 3 GGRSPDEVTLTSIVPTR 17 1 A0A0C4DGG1;Q9UKS6;H0YDM6 A0A0C4DGG1 PACSIN3 Protein kinase C and casein kinase substrate in neurons protein 3 1 0 GGRS(1)PDEVTLTSIVPTR;GGRS(0.992)PDEVT(0.002)LT(0.004)S(0.001)IVPT(0.001)R;GGRS(1)PDEVTLTSIVPTR ;; 99.407 0.001818 44298000 1764.6 2044.18 1635.11 1981.56 1804.76 2215.2 1931.59 2182.91 1861.62 1829.13 TRUE FALSE FALSE 1950.208724 2110.412773 1857.934276 2019.915959 1666.479679 2026.452498 1714.24241 2127.074323 1848.664835 1907.992746 1.022125859 1.106090564 0.973763805 1.058660188 0.873420343 1.06208606 0.898453316 1.114823066 0.968905589 1 10.89783997 GGRVGTHGGT(ph)LS(ph)SY(ph)IVK ddPTM_HeLa_SAHA_4h_R1 1 GGRVGTHGGTLSSYIVK 17 1 Q9NW82 Q9NW82 WDR70 WD repeat-containing protein 70 3 0 GGRVGT(0.016)HGGT(0.983)LS(0.859)S(0.312)Y(0.829)IVK 57.788 0.013601 3350300 4168.3 3968.6 3977.8 3525.7 4567.6 4565.8 4447.1 3884.8 4108 4277.9 TRUE FALSE FALSE 4606.740919 4097.185244 4519.873869 3593.945022 4217.631475 4176.768154 3946.700604 3785.432441 4079.412094 4462.341205 1.032359631 0.918169422 1.012892933 0.805394491 0.945161134 0.936003762 0.884446174 0.848306364 0.914186501 1 12.12358512 -6.728067662 1.371013871 1.01422086 0.892485073 0.221619017 0.060599862 0.22611913 0.857402873 0.008753866 0.013208487 1.87E-07 6.728067662 -0.121735788 GGS(ph)PDLWK ddPTM_HeLa_SAHA_4h_R1 4 GGSPDLWK 8 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 GGS(1)PDLWK;GGS(1)PDLWK;GGS(1)PDLWK;GGS(1)PDLWK ;;; 112.3 0.0056685 635380000 17176 17481.7 17922.6 20217.9 18268 19949.5 20577 20240.8 19668.1 18413 TRUE FALSE FALSE 18982.65049 18048.11855 20364.99859 20609.24669 16868.30979 18249.69037 18261.6218 19723.06964 19531.22809 19206.87454 0.988325844 0.939669727 1.060297372 1.073014073 0.878243347 0.950164501 0.950785708 1.026875539 1.016887368 1 14.22933515 -5.761648486 24.99999995 1.000182825 0.951368407 0.251736262 0.049040854 7.282553179 870840.822 0.00708834 0.013449797 1.73E-06 5.761648486 -0.048814417 GGS(ph)PQMDDIK ddPTM_HeLa_SAHA_4h_R1 1 GGSPQMDDIK 10 0 A0A3B3ITG6;A0A3B3IUB1;Q13144 A0A3B3ITG6 EIF2B5 Translation initiation factor eIF-2B subunit epsilon 1 0 GGS(1)PQMDDIK 115.57 0.0010813 0 1486.1 2090.4 1209.6 1661.5 2037.6 2381.7 1645.9 1273.1 3235.2 1986.4 TRUE FALSE FALSE 1642.414816 2158.130332 1374.437989 1693.660735 1881.479528 2178.765761 1460.699 1240.535945 3212.68598 2072.043425 0.792654631 1.041546864 0.663324896 0.817386699 0.908030935 1.051505839 0.704955785 0.598701712 1.550491626 1 11.01683852 -13.52287875 0.212721369 1.880580698 0.793163212 0.264473263 0.223267845 65.12955084 0.813502287 23.97269828 0.124310092 3.00E-14 13.52287875 -1.087417486 GGS(ph)REYDTGGGSSSSR ddPTM_HeLa_SAHA_4h_R1 3 GGSREYDTGGGSSSSR 16 1 A0A494C001;A0A499FJY3;A0A087WWP4;Q96T37-4;Q96T37-2;Q96T37-3;Q96T37 A0A494C001 RBM15 Putative RNA-binding protein 15 1 0 GGS(0.999)REYDT(0.001)GGGSSSSR;GGS(0.881)REYDT(0.115)GGGS(0.004)SSSR;GGS(1)REYDTGGGSSSSR ;; 160.64 1.86E-05 37981400 2655.28 2529.91 2038.62 2561.49 2983.59 2963.1 2882.27 3044.46 2160.37 2621.28 TRUE FALSE FALSE 2934.574533 2611.880744 2316.432517 2611.071343 2754.987979 2710.62721 2557.949394 2966.587122 2145.335809 2734.296209 1.073246755 0.955229626 0.847176875 0.954933608 1.007567494 0.99134366 0.935505592 1.084954553 0.784602561 1 11.41695382 -7.245363073 24.35671916 1.034588746 0.964102359 0 0.098525434 657.2944925 995847.0243 0.010292949 0.012582585 5.68E-08 7.245363073 -0.070486386 GGS(ph)SKDLLDNQSQEEQR ddPTM_HeLa_SAHA_4h_R1 1 GGSSKDLLDNQSQEEQR 17 1 A0A0A0MSA7;A0A0U1RQK7;O43432;O43432-3;O43432-4 A0A0A0MSA7 EIF4G3 Eukaryotic translation initiation factor 4 gamma 3 1 0 GGS(0.859)S(0.141)KDLLDNQSQEEQR 180.78 9.60E-09 6304800 543.75 354.21 360.13 661.47 379.16 628.62 372.42 514.47 531.76 682.47 TRUE FALSE FALSE 600.9441198 365.6866364 409.2066409 674.2737084 350.1088427 575.0580395 330.5143214 501.3106023 528.0594389 711.8946216 0.844147577 0.513680853 0.574813503 0.947153817 0.491798691 0.807785341 0.464274222 0.704192147 0.741766299 1 9.475519891 -7.560651749 2.490105709 0.941597719 0.646664011 0.24912761 0.158302547 0.169973812 2.160828801 0.02619361 0.027908382 2.75E-08 7.560651749 -0.294933708 GGSDGTPRGS(ph)PSPASVSSGR ddPTM_HeLa_SAHA_4h_R1 2 GGSDGTPRGSPSPASVSSGR 20 1 Q96II5;P10398 Q96II5 ARAF Serine/threonine-protein kinase A-Raf 1 0 GGSDGT(0.069)PRGS(0.765)PS(0.164)PAS(0.001)VSSGR;GGSDGT(0.094)PRGS(0.844)PS(0.061)PAS(0.001)VSSGR ; 165.66 5.41E-06 7573800 481.55 553.67 646.72 542.74 689.08 676.52 700.21 719.41 386.88 580.94 TRUE FALSE FALSE 532.2016384 571.6092713 734.8516336 553.2455175 636.2828393 618.87669 621.4205279 701.0085339 384.1876706 605.9871665 0.878239124 0.943269599 1.212652139 0.912965733 1.049993918 1.021270291 1.025468133 1.156804257 0.63398648 1 9.243143431 -6.93407121 24.99999983 0.940828213 1.054295399 0.309172835 0.126122843 53.03535298 20110.33182 0.013305259 0.017486536 1.16E-07 6.93407121 0.113467186 GGSDGTPRGS(ph)PSPASVSSGRK ddPTM_HeLa_SAHA_4h_R1 1 GGSDGTPRGSPSPASVSSGRK 21 2 Q96II5;P10398 Q96II5 ARAF Serine/threonine-protein kinase A-Raf 1 0 GGS(0.012)DGT(0.029)PRGS(0.894)PS(0.026)PAS(0.008)VS(0.021)S(0.01)GRK 54.943 0.016816 2421200 70.614 144.02 233.41 149.01 135.84 258.52 237.82 159.1 0 135.38 TRUE FALSE FALSE 78.04150451 148.6863425 265.2178993 151.894304 125.4319685 236.4926416 211.0598677 155.0304524 0 141.2168943 0.552635751 1.052893446 1.878089024 1.075610002 0.888222115 1.674676693 1.494579446 1.097818027 0 1 7.141768884 -6.997930555 24.99754033 0.789482535 1.349627382 0.441227142 0.384840855 49.04387369 592407.0738 0.050471814 0.066091719 1.00E-07 6.997930555 0.560144847 GGSGS(ph)GPTIEEVD ddPTM_HeLa_SAHA_4h_R1 1 GGSGSGPTIEEVD 13 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 1 0 GGS(0.034)GS(0.932)GPT(0.034)IEEVD 107.34 0.003096 6503200 1708.2 1909.4 1408.8 1835.3 1691.5 1922.1 2136 2123.7 1725.9 1865.1 TRUE FALSE FALSE 1887.876314 1971.265813 1600.783927 1870.824885 1561.897635 1758.326267 1895.651658 2069.378829 1713.889321 1945.513589 0.970374262 1.013236723 0.822807888 0.961609776 0.802820214 0.903785138 0.974370814 1.063667117 0.88094441 1 10.92593534 GGSGS(ph)VLQDEEVLASLER ddPTM_HeLa_SAHA_4h_R1 2 GGSGSVLQDEEVLASLER 18 0 A0A0D9SG79;Q9NZ09-2;Q9NZ09;Q9NZ09-3;Q9NZ09-4 A0A0D9SG79 UBAP1 Ubiquitin-associated protein 1 1 0 GGS(0.305)GS(0.362)VLQDEEVLAS(0.333)LER;GGS(0.008)GS(0.962)VLQDEEVLAS(0.03)LER ; 126.71 0.00025468 3429200 519.59 1122.12 848.09 551.56 662.02 919.43 695.5 699.92 685.27 971.11 TRUE FALSE FALSE 574.2428602 1158.477424 963.6632885 562.2362414 611.2961706 841.0893914 617.2405095 682.0170599 680.5011503 1012.979305 0.566885086 1.143633852 0.95131587 0.555032308 0.603463632 0.830312512 0.609331806 0.673278375 0.671781889 1 9.984388985 -6.258419848 24.96946909 0.832554876 0.65874244 0.275395933 0.16770245 406.5974398 3362277.167 0.031077032 0.050116288 5.52E-07 6.258419848 -0.173812436 GGSGSVLQDEEVLAS(ph)LER ddPTM_HeLa_SAHA_4h_R1 2 GGSGSVLQDEEVLASLER 18 0 A0A0D9SG79;Q9NZ09-2;Q9NZ09;Q9NZ09-3;Q9NZ09-4 A0A0D9SG79 UBAP1 Ubiquitin-associated protein 1 1 0 GGSGSVLQDEEVLAS(1)LER;GGSGSVLQDEEVLAS(1)LER ; 165.06 3.58E-06 3497500 1505.67 2013.27 2330.37 1368.76 1685.42 1865.87 1944.7 1137.32 1472.01 1811.71 TRUE FALSE FALSE 1664.043279 2078.501269 2647.940688 1395.254329 1556.283484 1706.887379 1725.877238 1108.229001 1461.766163 1889.821684 0.880529254 1.099839888 1.401159014 0.73829946 0.82350811 0.903200229 0.913248722 0.586419878 0.773494227 1 10.8840344 GGSISVQVNSIKFDS(ph)E ddPTM_HeLa_SAHA_4h_R1 19 GGSISVQVNSIKFDSE 16 1 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 1 0 GGSISVQVNSIKFDS(1)E;GGSISVQVNSIKFDS(1)E;GGSISVQVNSIKFDS(1)E;GGSISVQVNS(0.244)IKFDS(0.756)E;GGSISVQVNS(0.001)IKFDS(0.999)E;GGSISVQVNS(0.001)IKFDS(0.999)E;GGSISVQVNSIKFDS(1)E;GGSISVQVNS(0.002)IKFDS(0.998)E;GGSISVQVNSIKFDS(1)E;GGSISVQVNS(0.042)IKFDS(0.958)E;GGSISVQVNS(0.002)IKFDS(0.998)E;GGSISVQVNSIKFDS(1)E;GGSISVQVNS(0.002)IKFDS(0.998)E;GGSISVQVNSIKFDS(1)E;GGSISVQVNSIKFDS(1)E;GGSISVQVNSIKFDS(1)E;GGSISVQVNS(0.003)IKFDS(0.997)E;GGSISVQVNS(0.001)IKFDS(0.999)E;GGSISVQVNSIKFDS(1)E ;;;;;;;;;;;;;;;;;; 207.05 1.65E-17 508072500 50057.66 67445.06 63424.87 66918.3 75559.06 77956.06 76596.7 71179.18 68784.84 68230.18 TRUE FALSE FALSE 55322.95435 69630.3242 72068.08098 68213.60046 69769.74115 71313.76512 67977.83772 69358.51964 68306.1607 71171.91697 0.777314378 0.978339873 1.01259154 0.958434216 0.980298749 1.001993035 0.955121635 0.974520887 0.959734733 1 16.11902047 -7.062434308 24.99970147 0.893947303 0.980652988 0.213677236 0.056424392 269.5080123 107914.7019 0.013686495 0.016762475 8.66E-08 7.062434308 0.086705684 GGSS(ph)KDLLDNQSQEEQRR ddPTM_HeLa_SAHA_4h_R1 3 GGSSKDLLDNQSQEEQRR 18 2 A0A0A0MSA7;A0A0U1RQK7;O43432;O43432-3;O43432-4 A0A0A0MSA7 EIF4G3 Eukaryotic translation initiation factor 4 gamma 3 1 0 GGS(0.092)S(0.907)KDLLDNQS(0.001)QEEQRR;GGS(0.144)S(0.53)KDLLDNQS(0.326)QEEQRR;GGS(0.012)S(0.98)KDLLDNQS(0.007)QEEQRR ;; 107.73 0.00099473 98365000 5725.5 3185.54 3582.7 6278.8 4689.1 6189.5 4824.9 6539 3518.8 4094.5 TRUE FALSE FALSE 6327.73436 3288.753586 4070.931698 6400.335253 4329.822171 5662.119779 4281.989554 6371.741848 3494.312384 4271.033933 1.481546262 0.770013453 0.953148994 1.498544698 1.013764404 1.325702363 1.002565098 1.491849971 0.818142033 1 12.06036964 -6.283241398 24.82090345 1.172893971 1.241072959 0.036291003 0.265801848 3722.13975 4237529.166 0.042124543 0.064381729 5.21E-07 6.283241398 0.068178988 GGTADK(ac)GASANQEKG ddPTM_HeLa_SAHA_4h_R1 2 GGTADKGASANQEKG 15 2 P55198 P55198 MLLT6 Protein AF-17 0 1 ; GGTADK(1)GASANQEKG;GGTADK(1)GASANQEKG 121.28 0.0030656 244870 0 0 0 0 93.115 106.87 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 85.98054882 97.76407477 0 0 0 0 0 GGTLFGGEVCK(ac)VIK ddPTM_HeLa_SAHA_4h_R1 1 GGTLFGGEVCKVIK 14 1 P42166 P42166 TMPO "Lamina-associated polypeptide 2, isoform alpha;Thymopoietin;Thymopentin" 0 1 GGTLFGGEVCK(1)VIK 83.137 0.012974 0 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 GGTPAFLPS(ph)SLSPQSSLPASR ddPTM_HeLa_SAHA_4h_R1 1 GGTPAFLPSSLSPQSSLPASR 21 0 Q96JY6-5;E5RGS7;H0YBP7;B3KPU0;A0A087WVI1;Q96JY6;Q96JY6-3 Q96JY6-5 PDLIM2 PDZ and LIM domain protein 2 1 0 GGTPAFLPS(0.382)S(0.371)LS(0.239)PQS(0.001)S(0.007)LPASR 229.62 3.81E-34 10360000 1331.4 1270.3 993.07 1296.2 1453.6 1533.9 1461.8 1237.9 1508.7 1433.3 TRUE FALSE FALSE 1471.442761 1311.458553 1128.400408 1321.289825 1342.225482 1403.203091 1297.314417 1206.23631 1498.200834 1495.096577 0.984179071 0.877173136 0.754734126 0.883748813 0.897751692 0.938536755 0.867712786 0.806794911 1.002076292 1 10.54602296 -7.252115463 4.596632398 0.993008142 0.861643086 0.630745111 0.04730287 0.097732769 5.589367317 0.008319208 0.009906069 5.60E-08 7.252115463 -0.131365056 GGTPAFLPSS(ph)LSPQSSLPASR ddPTM_HeLa_SAHA_4h_R1 1 GGTPAFLPSSLSPQSSLPASR 21 0 Q96JY6-5;E5RGS7;H0YBP7;B3KPU0;A0A087WVI1;Q96JY6;Q96JY6-3 Q96JY6-5 PDLIM2 PDZ and LIM domain protein 2 1 0 GGTPAFLPS(0.399)S(0.597)LS(0.005)PQSSLPASR 184.97 1.09E-14 10899000 1469 1514 1084 1273 1532.6 1440.8 1604.4 1505.7 1438.4 1378.5 TRUE FALSE FALSE 1623.51616 1563.054593 1231.721875 1297.640756 1415.172519 1318.035734 1423.868689 1467.186374 1428.390057 1437.933881 1.129061761 1.087014232 0.856591454 0.902434231 0.984170787 0.916617761 0.990218471 1.02034342 0.993362821 1 10.48978162 -6.783448678 24.99987094 1.064603873 0.945662238 0.445824938 0.057963187 166.4680693 189086.7726 0.010690539 0.014056377 1.65E-07 6.783448678 -0.118941635 GGTSQVGSPT(ph)LLSPAVPSK ddPTM_HeLa_SAHA_4h_R1 1 GGTSQVGSPTLLSPAVPSK 19 0 Q8IY92-2;Q8IY92 Q8IY92-2 SLX4 Structure-specific endonuclease subunit SLX4 1 0 GGT(0.013)S(0.003)QVGS(0.42)PT(0.539)LLS(0.026)PAVPSK 101.49 0.0023297 1793200 391.69 389.26 332.06 375.53 373.64 492.37 490.97 331.22 588.31 344.41 TRUE FALSE FALSE 432.8897513 401.8722794 377.3114075 382.7989262 345.0117839 450.417306 435.7247634 322.747872 584.2159028 359.2592006 1.204951051 1.118613744 1.050248419 1.065522958 0.960342236 1.253739098 1.212842323 0.898370512 1.626168242 1 8.488881294 -9.684163464 1.569211391 1.000281962 1.115779458 0 0.223562591 0.64599593 2.877069079 0.076106678 0.0171073 2.07E-10 9.684163464 0.115497496 GGTTSWGTSGQPS(ph)PSYDSSR ddPTM_HeLa_SAHA_4h_R1 3 GGTTSWGTSGQPSPSYDSSR 20 0 Q99081;Q99081-3;H0YNQ5 Q99081 TCF12 Transcription factor 12 1 0 GGTTSWGT(0.012)S(0.387)GQPS(0.599)PS(0.001)YDSSR;GGTTSWGT(0.127)S(0.012)GQPS(0.852)PS(0.008)YDSSR;GGTTSWGTS(0.001)GQPS(0.936)PS(0.031)YDS(0.031)SR ;; 282.41 1.42E-77 48572000 3412.48 3351.55 3693.25 3388.88 3904.76 4545.51 4014.36 3639.31 3797.82 3705.31 TRUE FALSE FALSE 3771.420303 3460.142419 4196.546876 3454.476673 3605.578132 4158.206976 3562.653648 3546.22172 3771.390661 3865.064047 0.975771748 0.895235467 1.085763864 0.893769581 0.932863748 1.075844261 0.921757985 0.917506586 0.975764079 1 11.91627661 -7.202130183 0.006382436 1.948695029 7.53E-05 0.028666882 0.064903164 5873.297587 31.54584281 4802.685539 4826.489211 6.28E-08 7.202130183 -1.948619689 GGVGAPGS(ph)PSTPPTR ddPTM_HeLa_SAHA_4h_R1 2 GGVGAPGSPSTPPTR 15 0 Q9ULR3 Q9ULR3 PPM1H Protein phosphatase 1H 1 0 GGVGAPGS(0.998)PST(0.001)PPTR;GGVGAPGS(0.882)PS(0.016)T(0.101)PPTR ; 124.81 0.00056518 4889100 1720.74 2017.63 1386.36 1711.54 1906.8 1954.43 1785.84 2000.7 1849.95 2123.38 TRUE FALSE FALSE 1901.735328 2083.002536 1575.285921 1744.669332 1760.701396 1787.901569 1584.892583 1949.524991 1837.076047 2214.929303 0.858598658 0.940437482 0.711212732 0.787686239 0.794924422 0.807204802 0.715549964 0.880174816 0.829406178 1 11.11304494 -8.284897829 0.40807552 1.016507666 0.777884127 0.152784989 0.079775531 0.589674072 0.221857772 0.059106137 0.025732332 5.19E-09 8.284897829 -0.238623539 GGVGAPGSPST(ph)PPTR ddPTM_HeLa_SAHA_4h_R1 1 GGVGAPGSPSTPPTR 15 0 Q9ULR3 Q9ULR3 PPM1H Protein phosphatase 1H 1 0 GGVGAPGS(0.036)PS(0.051)T(0.808)PPT(0.105)R 109.6 0.0038728 2421400 958.31 1059 1109.6 954.03 920.15 1063.6 850.59 1004.8 1089.7 1006.2 TRUE FALSE FALSE 1059.109443 1093.312295 1260.810509 972.4966302 849.6483058 972.9752963 754.8793746 979.0986709 1082.116689 1049.582206 1.00907717 1.041664282 1.20124989 0.926555942 0.809510966 0.927011996 0.719218914 0.932846103 1.030997556 1 10.03559945 -6.003899817 21.16334675 1.02307829 0.84675359 0.59115499 0.080241729 13.1579155 71412.12498 0.011436745 0.020321878 9.91E-07 6.003899817 -0.1763247 GGVT(ph)GSPEASISGSK ddPTM_HeLa_SAHA_4h_R1 3 GGVTGSPEASISGSK 15 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GGVT(0.5)GS(0.5)PEASISGSK;GGVT(0.5)GS(0.5)PEASISGSK;GGVT(0.64)GS(0.359)PEASISGSK ;; 244 2.59E-33 1139300000 9305.2 10530 8751.3 8179.2 11153.3 11667 10557.8 9461.5 13402.9 9007.9 TRUE FALSE FALSE 10283.96363 10871.17891 9943.881589 8337.520243 10298.73656 10672.90596 9369.808557 9219.48853 13309.62813 9396.274653 1.094472438 1.156966916 1.058279154 0.887321896 1.09604465 1.135865687 0.997183342 0.981185509 1.416479256 1 13.19787317 -9.608132574 1.461409282 1.000476282 1.05787071 0 0.151105319 0.972739939 3.777860277 0.053048472 0.012669489 2.47E-10 9.608132574 0.057394428 GGVT(ph)GSPEASISGSKGDLK ddPTM_HeLa_SAHA_4h_R1 1 GGVTGSPEASISGSKGDLK 19 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GGVT(0.5)GS(0.5)PEASISGSKGDLK 67.994 0.0075428 0 1432.1 1048.8 1534.8 1271.3 1271.7 1166.2 1453.7 1612.5 944.88 1458.8 TRUE FALSE FALSE 1582.734849 1082.781808 1743.954551 1295.90785 1174.262621 1066.833199 1290.12585 1571.254585 938.3045031 1521.696007 1.040112375 0.711562495 1.146059754 0.85162072 0.771680162 0.701081684 0.847821013 1.032567988 0.616617576 1 10.57146446 -6.717144542 0.86367844 1.01674864 0.836172328 0 0.184834154 0.598858078 0.89423161 0.027436368 0.045354719 1.92E-07 6.717144542 -0.180576312 GGVTGS(ph)PEASISGSK ddPTM_HeLa_SAHA_4h_R1 3 GGVTGSPEASISGSK 15 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GGVT(0.043)GS(0.956)PEASISGSK;GGVT(0.008)GS(0.985)PEAS(0.008)ISGSK;GGVT(0.035)GS(0.964)PEASISGSK ;; 254.72 6.82E-44 181024900 4878.67 8865.7 4150.41 4921.9 5371.6 6315.25 5750.74 4728.49 6205.81 5191.9 TRUE FALSE FALSE 5391.830895 9152.954497 4716.00626 5017.170492 4960.029168 5777.155171 5103.6516 4607.542073 6162.623263 5415.748218 0.995583745 1.690062782 0.870794961 0.926403941 0.915852985 1.066732599 0.942372392 0.850767408 1.137908007 1 12.40294495 GGVTGS(ph)PEASISGSKGDLK ddPTM_HeLa_SAHA_4h_R1 2 GGVTGSPEASISGSKGDLK 19 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GGVT(0.204)GS(0.51)PEAS(0.277)IS(0.006)GS(0.003)KGDLK;GGVT(0.013)GS(0.92)PEAS(0.06)IS(0.002)GS(0.006)KGDLK ; 90.729 0.00095586 15402000 6523.7 4963.2 6524 5746.8 5868.1 5056 6644.3 6802.8 4161.5 5714.8 TRUE FALSE FALSE 7209.892698 5124.010936 7413.056744 5858.037624 5418.487446 4625.200356 5896.665877 6628.794226 4132.539783 5961.192996 1.209471444 0.859561323 1.243552549 0.982695516 0.908960245 0.775885022 0.989175469 1.111991212 0.693240394 1 12.54138537 -6.016317674 23.69940587 1.090557332 0.938421974 0 0.178032887 415.0774423 602850.5682 0.019991926 0.033795555 9.63E-07 6.016317674 -0.152135358 GGVTGSPEAS(ph)ISGSK ddPTM_HeLa_SAHA_4h_R1 1 GGVTGSPEASISGSK 15 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GGVT(0.011)GS(0.352)PEAS(0.62)IS(0.018)GSK 89.232 0.0061846 0 2804.8 2732.5 2452.3 2574.6 2687 3437.9 3043.1 2420.5 3235.3 3115.2 TRUE FALSE FALSE 3099.821733 2821.034793 2786.486673 2624.435106 2481.12264 3144.971579 2700.682379 2358.587115 3212.785284 3249.511517 0.953934681 0.868141189 0.8575094 0.807639884 0.763537112 0.96782903 0.83110411 0.725828206 0.988697922 1 11.66600715 -7.227846253 1.215683211 0.985537938 0.824951897 0.582123869 0.05955378 0.220495243 0.628915179 0.012020211 0.014492374 5.92E-08 7.227846253 -0.160586041 GGVTGSPEASIS(ph)GSKGDLK ddPTM_HeLa_SAHA_4h_R1 1 GGVTGSPEASISGSKGDLK 19 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GGVTGSPEAS(0.006)IS(0.673)GS(0.321)KGDLK 79.635 0.0029074 21009000 1212.9 882.73 1003.2 1284.3 1230.6 844.01 804.94 1023.1 1345.6 797.27 TRUE FALSE FALSE 1340.478387 911.3310312 1139.910872 1309.159484 1136.311694 772.0955997 714.3660327 996.9305834 1336.23586 831.6442114 1.61184118 1.095818402 1.370671323 1.574182163 1.366343538 0.92839653 0.858980346 1.198746495 1.606739807 1 9.699822646 -5.261436542 24.96794636 1.312978067 0.981735037 0.374264902 0.21450883 0.271499332 2349090.54 0.036519206 0.086933232 5.48E-06 5.261436542 -0.33124303 GGVTGSPEASISGS(ph)KGDLK ddPTM_HeLa_SAHA_4h_R1 3 GGVTGSPEASISGSKGDLK 19 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GGVTGSPEAS(0.011)IS(0.34)GS(0.648)KGDLK;GGVTGS(0.001)PEAS(0.038)IS(0.353)GS(0.608)KGDLK;GGVTGS(0.003)PEAS(0.03)IS(0.255)GS(0.712)KGDLK ;; 89.631 0.0013106 70934000 7860.8 7156 7094.6 8388 8574.4 6600.6 7773.7 8809.9 8958.5 8228.3 TRUE FALSE FALSE 8687.635011 7387.859095 8061.415141 8550.361869 7917.431324 6038.191746 6898.982817 8584.555515 8896.157069 8583.062281 1.012183615 0.860748629 0.939223657 0.996190123 0.922448313 0.703500866 0.803790371 1.000173974 1.036478215 1 13.06727675 -6.324168862 0.666224831 1.005907668 0.84202692 0.29722515 0.085656949 0.633147434 0.550821709 0.01918457 0.046930872 4.74E-07 6.324168862 -0.163880748 GGVVGIK(ac)VDK ddPTM_HeLa_SAHA_4h_R1 2 GGVVGIKVDK 10 1 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7;H3BR04;H3BMQ8;H3BU78 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 1 ; GGVVGIK(1)VDK;GGVVGIK(1)VDK 125.97 0.0015068 11558400 3213.5 7441.1 4442.3 5098.5 6729.4 6654.1 7062.1 6112.1 6616.1 3966.5 FALSE TRUE FALSE 3551.510674 7682.196522 5047.673509 5197.18884 6213.794826 6087.133245 6267.453922 5955.761332 6570.058021 4137.515227 0.858368001 1.856717402 1.219977023 1.256113526 1.501817996 1.471205038 1.514786914 1.439453635 1.587923587 1 12.01454891 -7.287598479 24.99927406 0.933118197 1.451696758 0.090795464 0.264923107 298.3997162 285168.6639 0.027566234 0.031526957 5.16E-08 7.287598479 0.518578561 GGY(ph)RQQQSQT(ph)AY(ph) ddPTM_HeLa_SAHA_4h_R1 1 GGYRQQQSQTAY 12 1 Q99613-2;Q99613;B5ME19 Q99613-2 EIF3C;EIF3CL Eukaryotic translation initiation factor 3 subunit C;Eukaryotic translation initiation factor 3 subunit C-like protein 3 0 GGY(0.997)RQQQS(0.013)QT(0.995)AY(0.995) 46.706 0.023217 13795000 648.89 672.4 762.08 1390.9 599.58 629.7 755.95 1127.9 973.21 715.4 TRUE FALSE FALSE 717.1432274 694.1862012 865.9322937 1417.822881 553.6403099 576.0460174 670.8885164 1099.049951 966.4373524 746.2443951 0.961003168 0.930239752 1.160386998 1.899944429 0.741902135 0.771926759 0.89901984 1.472774815 1.295068156 1 9.54350438 -6.75497829 24.38814998 0.977219407 1.143211754 0.007907484 0.338245422 286.2537204 1080492.663 0.051558904 0.071894289 1.76E-07 6.75497829 0.165992347 GGYFDEFGIIR ddPTM_HeLa_SAHA_4h_R1 2 GGYFDEFGIIR 11 0 P11413-3;P11413;P11413-2;E7EM57;E7EUI8 P11413-3 G6PD Glucose-6-phosphate 1-dehydrogenase 0 0 ; ; 183.43 4.46E-05 3316500 1365.58 1098.8 1368.29 1519.12 1264.58 1592.31 1530.05 1114.653 1430.07 1315.13 FALSE FALSE TRUE 1509.21797 1134.401841 1554.753435 1548.524764 1167.688154 1456.63623 1357.884747 1086.14179 1420.118026 1371.83169 1.100148058 0.826924942 1.133341245 1.12880084 0.851189079 1.061818472 0.989833342 0.791745662 1.03519844 1 10.42188777 -4.26859391 3.071843502 1.03132605 0.756066288 0.301206868 0.100443644 0.311051999 4.411667455 0.01349878 0.20538726 5.39E-05 4.26859391 -0.275259762 GHAVGDIPGVR ddPTM_HeLa_SAHA_4h_R1 2 GHAVGDIPGVR 11 0 P62266;D6RD47 P62266 RPS23 40S ribosomal protein S23 0 0 ; ; 119.53 0.0024274 3875900 3010.7 2566.5 2145.8 2519.6 2641.8 1850.24 2932.3 2699.4 3610.9 3112.3 FALSE FALSE TRUE 3327.37924 2649.656284 2438.218449 2568.370501 2439.385855 1692.589143 2602.349887 2630.353257 3585.771453 3246.486484 1.024917016 0.816161194 0.751032989 0.791123115 0.75139258 0.521360292 0.801589626 0.810215373 1.104508357 1 11.66466349 -7.112014713 2.714925861 1.012652028 0.734106225 0.726660033 0.08304431 0.105166946 1.498324911 0.013564935 0.016959157 7.73E-08 7.112014713 -0.278545803 GHCPPAPAK(ac)PMHPENK ddPTM_HeLa_SAHA_4h_R1 4 GHCPPAPAKPMHPENK 16 1 Q86UU0-3;Q86UU0-4;Q86UU0-2;Q86UU0;E9PNR0 Q86UU0-3 BCL9L B-cell CLL/lymphoma 9-like protein 0 1 ;;; GHCPPAPAK(1)PMHPENK;GHCPPAPAK(1)PMHPENK;GHCPPAPAK(1)PMHPENK;GHCPPAPAK(1)PMHPENK 88.552 0.0040122 12078630 9041.41 8352.43 8086.37 8676.42 8211.82 497.519 9182.59 8599.32 10716.2 9217.08 FALSE TRUE FALSE 9992.426987 8623.054212 9188.338392 8844.364655 7582.632126 455.1275822 8149.340806 8379.361846 10641.62509 9614.473426 1.039310896 0.89688263 0.955677756 0.919901097 0.788668478 0.047337754 0.847611767 0.871536222 1.106833897 1 13.23099213 -5.651373167 3.635536411 0.998354854 0.590487729 0.393459951 0.219034912 0.164758541 4.180427262 0.030784904 0.064177131 2.23E-06 5.651373167 -0.407867125 GHEEGFLNNS(ph)GEFLFNK ddPTM_HeLa_SAHA_4h_R1 1 GHEEGFLNNSGEFLFNK 17 0 Q16659 Q16659 MAPK6 Mitogen-activated protein kinase 6 1 0 GHEEGFLNNS(1)GEFLFNK 101.38 0.0021007 2912900 1366.4 1200.3 1370.8 1481.4 1517.4 340.4 1415.7 1250.1 1406.3 1236.8 TRUE FALSE FALSE 1510.124221 1239.190508 1557.605485 1510.074639 1401.13714 311.396005 1256.40171 1218.124252 1396.513444 1290.124501 1.170525961 0.960520095 1.20732959 1.170487529 1.086048005 0.241368957 0.973860825 0.94419124 1.08246409 1 10.33329458 -5.446137652 24.99997533 1.090182718 0.731627513 0.429246092 0.198958783 87.96309889 28655.20876 0.027245856 0.060923578 3.58E-06 5.446137652 -0.358555206 GHLLYVALSPGQHR ddPTM_HeLa_SAHA_4h_R1 2 GHLLYVALSPGQHR 14 0 O15067 O15067 PFAS Phosphoribosylformylglycinamidine synthase 0 0 ; ; 151.79 7.47E-06 8671800 1270.34 2844.5 3526.8 2764.5 2741.1 653.54 5239 2058.72 1305.99 1651.21 FALSE FALSE TRUE 1403.96019 2936.663666 4007.413937 2818.010895 2531.07751 597.8547153 4649.493932 2006.060923 1296.901509 1722.401744 0.815117724 1.704981824 2.326642986 1.636093847 1.46950473 0.347105266 2.69942477 1.164688163 0.752961099 1 10.75020597 -7.260076275 24.80652571 0.912694474 1.635542182 0.254657649 0.597184108 112.4180407 2045849.056 0.095531823 0.113635806 5.49E-08 7.260076275 0.722847707 GHLS(ph)EGLVTK ddPTM_HeLa_SAHA_4h_R1 1 GHLSEGLVTK 10 0 Q16659 Q16659 MAPK6 Mitogen-activated protein kinase 6 1 0 GHLS(0.973)EGLVT(0.027)K 115.29 0.0011091 0 1032.1 901.3 828.37 1008.7 1016 204.22 1101.5 1166.3 895.06 1087.4 TRUE FALSE FALSE 1140.661013 930.5027114 941.2559496 1028.224847 938.1542995 186.8193071 977.556321 1136.467735 888.8312046 1134.283136 1.005622827 0.820344306 0.829824512 0.906497518 0.827090054 0.164702534 0.861827431 1.001925973 0.783606118 1 10.14756509 -6.629316385 0.893864045 1.005520979 0.707082443 0.073996937 0.223630653 0.571397969 0.913110641 0.042664417 0.07401321 2.35E-07 6.629316385 -0.298438535 GHREEEQEDLTKDMDEPS(ph)PVPNVEEVTLPK ddPTM_HeLa_SAHA_4h_R1 1 GHREEEQEDLTKDMDEPSPVPNVEEVTLPK 30 2 F8VXC8;Q8TAQ2-2;Q8TAQ2-3;Q8TAQ2 F8VXC8 SMARCC2 SWI/SNF complex subunit SMARCC2 1 0 GHREEEQEDLT(0.029)KDMDEPS(0.967)PVPNVEEVT(0.004)LPK 51.473 0.004085 8347000 1243 1216.8 1232.7 1557.9 1609.6 650.58 1469.5 1405 1490.9 1235.3 TRUE FALSE FALSE 1373.744443 1256.225118 1400.685936 1588.055407 1486.272796 595.1469239 1304.147992 1369.062134 1480.524706 1288.559828 1.066108389 0.974906318 1.08701661 1.232426599 1.153437165 0.461869842 1.012097354 1.062474636 1.148976301 1 10.33154381 GHTAS(ph)ESDEQQWPEEK ddPTM_HeLa_SAHA_4h_R1 3 GHTASESDEQQWPEEK 16 0 Q9NTI5-2;Q9NTI5;A9IYQ1;Q9NTI5-5 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 1 0 GHTAS(0.979)ES(0.021)DEQQWPEEK;GHT(0.105)AS(0.706)ES(0.188)DEQQWPEEK;GHT(0.003)AS(0.991)ES(0.006)DEQQWPEEK ;; 177.58 3.71E-09 13895600 4087.89 4211.31 2986.44 3925.27 5067.51 1996.55 4933.67 5199.09 4967.02 4163.43 TRUE FALSE FALSE 4517.873026 4347.759207 3393.41649 4001.249277 4679.238479 1826.432708 4378.520467 5066.104806 4932.454103 4342.935843 1.040280858 1.001110623 0.781364638 0.921323598 1.077436704 0.420552542 1.008193679 1.166516152 1.135741876 1 12.08445492 -6.927968141 11.05021587 1.019109635 0.88885032 0.118833245 0.193192621 0.905587899 134.5498945 0.029563833 0.038863991 1.18E-07 6.927968141 -0.130259315 GHTASES(ph)DEQQWPEEK ddPTM_HeLa_SAHA_4h_R1 1 GHTASESDEQQWPEEK 16 0 Q9NTI5-2;Q9NTI5;A9IYQ1;Q9NTI5-5 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 1 0 GHTAS(0.083)ES(0.917)DEQQWPEEK 230.67 1.41E-27 3780000 1544.5 1481.2 1042.5 1026 1833.3 150.81 1626 2079 1527.4 1116.6 TRUE FALSE FALSE 1706.957596 1529.191852 1184.566471 1045.859714 1692.83295 137.9601396 1443.038201 2025.82219 1516.770699 1164.742091 1.465524094 1.312901684 1.017020404 0.897932445 1.453397249 0.118446943 1.238933677 1.739288214 1.302237389 1 10.18579482 -6.752015564 24.12908412 1.232953469 1.050171208 0.044818264 0.410492258 381.7743149 977502.8233 0.065944307 0.09250133 1.77E-07 6.752015564 -0.182782261 GHTDTEGRPPS(ph)PPPT(ph)STPEK ddPTM_HeLa_SAHA_4h_R1 1 GHTDTEGRPPSPPPTSTPEK 20 1 E9PMQ6;Q00613-2;Q00613 E9PMQ6 HSF1 Heat shock factor protein 1 2 0 GHTDT(0.001)EGRPPS(0.979)PPPT(0.483)S(0.29)T(0.246)PEK 83.31 0.012095 22053000 5892.7 5525.9 5200.5 5413.3 5892.6 600.36 6435.8 5949.6 6495.9 5669.1 TRUE FALSE FALSE 6512.521223 5704.942786 5909.197057 5518.082249 5441.110261 549.2059505 5711.626846 5797.417847 6450.694503 5913.522645 1.101293022 0.964728323 0.999268526 0.93312947 0.920113203 0.092872892 0.965858624 0.980366221 1.09083788 1 12.52980207 -5.508130423 24.57762864 1.02663789 0.674678176 0.293055145 0.232477725 474.6520346 790991.8848 0.032077989 0.06939312 3.10E-06 5.508130423 -0.351959714 GHTDTEGRPPS(ph)PPPTS(ph)TPEK ddPTM_HeLa_SAHA_4h_R1 2 GHTDTEGRPPSPPPTSTPEK 20 1 E9PMQ6;Q00613-2;Q00613 E9PMQ6 HSF1 Heat shock factor protein 1 2 0 GHT(0.001)DT(0.014)EGRPPS(0.981)PPPT(0.259)S(0.643)T(0.103)PEK;GHT(0.035)DT(0.044)EGRPPS(0.92)PPPT(0.023)S(0.526)T(0.452)PEK ; 87.511 0.0079169 55589000 4808.3 4868.5 4901.2 5060.3 5213.6 1882.87 5340.9 4894.1 4860.4 4708.8 TRUE FALSE FALSE 5314.059055 5026.242594 5569.110012 5158.249424 4814.135094 1722.438883 4739.927876 4768.916009 4826.576081 4911.819412 1.081892189 1.023295478 1.133818153 1.050170821 0.980112396 0.350672274 0.965004508 0.970906218 0.982645263 1 12.2620418 -5.502064306 24.9901963 1.045666211 0.762961507 0.373900328 0.164227178 580.6406731 697127.3301 0.02215867 0.049035698 3.15E-06 5.502064306 -0.282704704 GHTDTEGRPPS(ph)PPPTSTPEK ddPTM_HeLa_SAHA_4h_R1 5 GHTDTEGRPPSPPPTSTPEK 20 1 E9PMQ6;Q00613-2;Q00613 E9PMQ6 HSF1 Heat shock factor protein 1 1 0 GHT(0.02)DT(0.017)EGRPPS(0.957)PPPT(0.004)S(0.001)T(0.001)PEK;GHTDTEGRPPS(1)PPPTSTPEK;GHT(0.012)DT(0.035)EGRPPS(0.938)PPPT(0.01)S(0.003)T(0.001)PEK;GHT(0.006)DT(0.002)EGRPPS(0.991)PPPTSTPEK;GHT(0.039)DT(0.007)EGRPPS(0.954)PPPTSTPEK ;;;; 89.201 0.00084323 99407300 15882.7 15387.4 13837.9 16017.5 17279.7 2702.64 18892.1 17780.6 16417.8 15725.7 TRUE FALSE FALSE 17553.31526 15885.96186 15723.65695 16327.54187 15955.73312 2472.359867 16766.31119 17325.798 16303.54719 16403.71189 1.070081905 0.96843702 0.958542619 0.995356538 0.972690403 0.150719537 1.02210471 1.05621204 0.993893779 1 14.00173469 -5.494341272 24.99826072 1.018470248 0.736051987 0.19514917 0.231771547 763.8160598 669087.2714 0.031567012 0.070452222 3.20E-06 5.494341272 -0.282418261 GHYAYDCHR ddPTM_HeLa_SAHA_4h_R1 1 GHYAYDCHR 9 0 A0A0B4J1Z1;C9JAB2;Q16629-3;Q16629-2;Q16629-4;Q16629;F8WEA1 A0A0B4J1Z1 SRSF7 Serine/arginine-rich splicing factor 7 0 0 85.676 0.023815 209620 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 GHYEVT(ph)GSDDETGK ddPTM_HeLa_SAHA_4h_R1 2 GHYEVTGSDDETGK 14 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GHYEVT(0.921)GS(0.078)DDET(0.001)GK;GHYEVT(0.981)GS(0.019)DDETGK ; 174.46 2.49E-06 26836000 4326.9 6820.1 4070.4 5201.8 6848.9 1180.26 5357.2 4917.6 9170.5 4992.3 TRUE FALSE FALSE 4782.023195 7041.075715 4625.092914 5302.488361 6324.138762 1079.695208 4754.393757 4791.814913 9106.681744 5207.542485 0.918287889 1.352091843 0.888152699 1.018232377 1.214419043 0.207332962 0.912982231 0.920168184 1.74874843 1 12.34638699 -5.325000178 24.99999994 1.003968153 0.703424808 0.223848254 0.328352164 196.5970997 77326.01798 0.031001898 0.069322364 4.73E-06 5.325000178 -0.300543345 GHYEVTGS(ph)DDETGK ddPTM_HeLa_SAHA_4h_R1 3 GHYEVTGSDDETGK 14 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GHYEVT(0.029)GS(0.97)DDETGK;GHYEVTGS(1)DDETGK;GHYEVT(0.043)GS(0.862)DDET(0.096)GK ;; 232.37 1.78E-24 28229700 4177.6 7264.2 4089.9 4690 5309.8 1101.92 5730.1 4643 9392 5556.8 TRUE FALSE FALSE 4617.019136 7499.564846 4647.250273 4780.781732 4902.964271 1008.030217 5085.334067 4524.238783 9326.640307 5796.380842 0.796534814 1.293835766 0.801750333 0.824787374 0.845866482 0.17390683 0.877329183 0.780528213 1.609045465 1 12.50093667 -5.502576901 24.9980843 0.917299763 0.616032924 0.229545546 0.308939332 750.1230287 923641.4238 0.030523239 0.067462319 3.14E-06 5.502576901 -0.301266839 GHYEVTGS(ph)DDETGKLQGSGVSLASK ddPTM_HeLa_SAHA_4h_R1 3 GHYEVTGSDDETGKLQGSGVSLASK 25 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GHY(0.007)EVT(0.071)GS(0.902)DDET(0.02)GKLQGSGVS(0.001)LASK;GHY(0.002)EVT(0.01)GS(0.831)DDET(0.156)GKLQGSGVSLASK;GHY(0.016)EVT(0.216)GS(0.75)DDET(0.006)GKLQGS(0.005)GVS(0.006)LASK ;; 102.9 2.50E-06 100292200 8073.48 10274.6 7931.8 8512.7 9553.1 1702.09 9256.3 8945.7 11259.1 9196.8 TRUE FALSE FALSE 8922.685669 10607.50378 9012.704397 8677.475618 8821.143542 1557.062356 8214.756763 8716.881947 11180.74701 9593.319056 0.930093705 1.105717815 0.939477187 0.904533204 0.919509034 0.16230695 0.856299756 0.908640888 1.165472236 1 13.22781432 -5.493080686 24.99803007 0.969202214 0.643321517 0.385941267 0.202936241 532.041231 446336.921 0.026090411 0.058256363 3.21E-06 5.493080686 -0.325880698 GHYEVTGSDDET(ph)GKLQGSGVSLASK ddPTM_HeLa_SAHA_4h_R1 2 GHYEVTGSDDETGKLQGSGVSLASK 25 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GHY(0.004)EVT(0.05)GS(0.191)DDET(0.755)GKLQGSGVSLASK;GHY(0.029)EVT(0.148)GS(0.129)DDET(0.692)GKLQGS(0.002)GVSLASK ; 105.38 2.72E-06 58363000 3334.2 4541.5 3538.6 3676.3 3947.5 1237.81 4740.6 3867.4 5160.6 4115.7 TRUE FALSE FALSE 3684.906454 4688.64758 4020.82198 3747.460103 3645.043403 1132.341624 4207.175211 3768.477508 5124.686964 4293.147969 0.858322723 1.092123452 0.936567295 0.872893301 0.84903745 0.263755555 0.979974425 0.877788871 1.193689806 1 12.06782018 -5.51430314 24.41576324 0.938103682 0.704777036 0.266988143 0.20091389 311.501571 886879.9334 0.025940739 0.054069118 3.06E-06 5.51430314 -0.233326646 GHYTEGAELVDSVLDVVR ddPTM_HeLa_SAHA_4h_R1 3 GHYTEGAELVDSVLDVVR 18 0 P68371;A0A0B4J269;Q13509;Q13509-2;G3V2A3;P07437;Q5JP53;Q5ST81;Q9BVA1;Q13885 P68371;A0A0B4J269;P07437;Q9BVA1 TUBB4B;TUBB3;TUBB;TUBB2B;TUBB2A Tubulin beta-4B chain;Tubulin beta-3 chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain 0 0 ;; ;; 230.82 8.92E-29 9827030 2629.707 2915.76 1621.16 2485.38 3700.89 2453.6 4160.85 3655.9 3841.15 2817.8 FALSE FALSE TRUE 2906.311648 3010.232537 1842.083242 2533.488124 3417.328608 2244.539476 3692.660207 3562.387372 3814.419124 2939.289148 0.98878045 1.02413624 0.626710456 0.86193906 1.162637779 0.763633438 1.256310632 1.211989427 1.297735246 1 11.52125157 -4.735173041 24.99944485 0.96054718 1.234150402 0.263402205 0.179404968 178.5500067 169935.3171 0.019459528 0.072765048 1.84E-05 4.735173041 0.273603222 GHYTEGAELVDSVLDVVRK ddPTM_HeLa_SAHA_4h_R1 1 GHYTEGAELVDSVLDVVRK 19 1 P68371;A0A0B4J269;Q13509;Q13509-2;G3V2A3;P07437;Q5JP53;Q5ST81;Q9BVA1;Q13885 P68371;A0A0B4J269;P07437;Q9BVA1 TUBB4B;TUBB3;TUBB;TUBB2B;TUBB2A Tubulin beta-4B chain;Tubulin beta-3 chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain 0 0 51.073 0.015686 442380 0 81.664 84.282 0 201.33 0 188.55 0 145.1 0 FALSE FALSE TRUE 0 84.30996718 95.76751204 0 185.9041389 0 167.3338578 0 144.0902373 0 0 GIAPAS(ph)PMLGNASNPNK ddPTM_HeLa_SAHA_4h_R1 2 GIAPASPMLGNASNPNK 17 0 H0YIY6;J3KNR0;P27448-8;P27448-6;P27448-3;P27448-4;P27448-2;P27448;P27448-7;H0YKP9 H0YIY6 MARK3 MAP/microtubule affinity-regulating kinase 3 1 0 GIAPAS(1)PMLGNASNPNK;GIAPAS(0.999)PMLGNAS(0.001)NPNK ; 207.92 6.54E-16 8719700 4101.2 4983.6 2777.8 3800.3 4352.5 4943.6 4322.6 4133 5308.2 4274.1 TRUE FALSE FALSE 4532.583033 5145.07191 3156.344118 3873.860302 4019.01239 4522.377468 3836.209672 4027.283845 5271.259804 4458.377368 1.016644097 1.154023423 0.707958043 0.868894663 0.901451819 1.014355021 0.860449745 0.903307081 1.18232697 1 12.12230302 -6.771792225 24.9999495 1.019041583 0.882472729 0.483845711 0.097243309 157.7082347 380831.7883 0.013141268 0.017375356 1.69E-07 6.771792225 -0.136568854 GIAPAS(ph)PMLGNASNPNKADIPER ddPTM_HeLa_SAHA_4h_R1 2 GIAPASPMLGNASNPNKADIPER 23 1 H0YIY6;J3KNR0;P27448-8;P27448-6;P27448-3;P27448-4;P27448-2;P27448;P27448-7;H0YKP9 H0YIY6 MARK3 MAP/microtubule affinity-regulating kinase 3 1 0 GIAPAS(1)PMLGNASNPNKADIPER;GIAPAS(1)PMLGNASNPNKADIPER ; 118.84 7.48E-06 24739000 1615.83 1530.07 1600.77 1490.42 1552.04 1528.16 1794.29 1846.35 1363.83 1442.77 TRUE FALSE FALSE 1785.790413 1579.645272 1818.914599 1519.269234 1433.123031 1397.952171 1592.391767 1799.12304 1354.338996 1504.974875 1.186591512 1.04961571 1.208601305 1.009498071 0.952257113 0.928887381 1.058085283 1.195450549 0.899908044 1 10.55552369 GIAYIEFK ddPTM_HeLa_SAHA_4h_R1 2 GIAYIEFK 8 0 P19338;H7BY16 P19338 NCL Nucleolin 0 0 ; ; 154.31 6.40E-07 11279700 5614.8 6342.6 8689.1 8777.6 8502 4375.6 9652 2819.3 1935.62 4647.4 FALSE FALSE TRUE 6205.390426 6548.104402 9873.205297 8947.503141 7850.578597 4002.774264 8565.931557 2747.186388 1922.149863 4847.772158 1.280049933 1.350745082 2.036647964 1.845693826 1.619419878 0.825693563 1.766983117 0.566690492 0.396501692 1 12.24310618 -7.990116098 1.146218595 1.064962247 1.455104058 0.193442825 0.477154502 0.621780072 1.712885007 0.107650284 0.089094652 1.02E-08 7.990116098 0.390141811 GIDPFSLDALSK ddPTM_HeLa_SAHA_4h_R1 2 GIDPFSLDALSK 12 0 P40227;P40227-2 P40227 CCT6A T-complex protein 1 subunit zeta 0 0 ; ; 183.03 5.16E-16 1613450 543.46 689.7 847.57 625.33 566.05 766.05 627.15 621.91 540.704 677.44 FALSE FALSE TRUE 600.6236163 712.0467325 963.0724256 637.4341664 522.6793713 700.7782303 556.5814314 606.0024427 536.9411968 706.6477537 0.849961828 1.007640269 1.362874814 0.902053623 0.739660416 0.991693848 0.787636313 0.857573578 0.759842784 1 9.464847436 -6.003982282 24.98018644 0.97137884 0.846921028 0.162906146 0.158425035 283.1002488 1775864.418 0.023106627 0.04121268 9.91E-07 6.003982282 -0.124457812 GIEEEEILPGFILCDPNNLCHSGR ddPTM_HeLa_SAHA_4h_R1 1 GIEEEEILPGFILCDPNNLCHSGR 24 0 H3BR35;P15170;P15170-2;P15170-3 H3BR35 GSPT1 Eukaryotic peptide chain release factor GTP-binding subunit ERF3A 0 0 78.736 0.00035977 5248100 961.73 909.75 1246.3 890.72 968.35 1223 1458.5 1239 1538.7 1183.9 FALSE FALSE TRUE 1062.889174 939.2264969 1416.139274 907.9611736 894.1552322 1118.79352 1294.385741 1207.308174 1527.992061 1234.943723 0.860678227 0.760541942 1.146723731 0.735224737 0.724045327 0.905946967 1.048133382 0.977622018 1.237296917 1 10.27022958 -4.774147799 23.88590414 0.904931983 1.012877672 0.040829271 0.162721234 208.1587475 391246.6168 0.018013109 0.054615666 1.68E-05 4.774147799 0.107945689 GIEGHS(ph)PGNLPK ddPTM_HeLa_SAHA_4h_R1 1 GIEGHSPGNLPK 12 0 H0YAP0;Q96GY0 H0YAP0 ZC2HC1A Zinc finger C2HC domain-containing protein 1A 1 0 GIEGHS(1)PGNLPK 100.22 0.0025928 0 1408.7 1572 1579.5 1490.1 1425.4 1672.4 1553.5 1583.5 1598.9 1520.9 TRUE FALSE FALSE 1556.873529 1622.933831 1794.746034 1518.94304 1316.18616 1529.902111 1378.696091 1542.996363 1587.773125 1586.473442 0.981342321 1.022982036 1.131280226 0.957433639 0.829630125 0.964341457 0.869031939 0.972595142 1.000819227 1 10.63160766 -5.999382767 24.99993887 1.005187923 0.907952063 0.476390289 0.056425265 16.52579457 669278.3088 0.008153933 0.014689007 1.00E-06 5.999382767 -0.097235861 GIFPVLCK ddPTM_HeLa_SAHA_4h_R1 2 GIFPVLCK 8 0 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BR70 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ; ; 163.34 1.87E-07 986700 1282.47 1481.12 1610.35 2038.5 1731.3 1059.36 1565.45 862.55 1206.32 1070.77 FALSE FALSE TRUE 1417.366079 1529.10926 1829.800112 2077.958115 1598.648168 969.0965682 1389.301446 840.48722 1197.925121 1116.936135 1.268976833 1.369021211 1.638231636 1.860409069 1.431279836 0.867638299 1.243850389 0.752493534 1.072509952 1 10.12533098 -3.22709908 13.47738679 1.214709533 1.177742936 0 0.327296617 0 0 0.046233398 0 0.00059279 3.22709908 -0.036966597 GIGLDES(ph)ELDSEAELMR ddPTM_HeLa_SAHA_4h_R1 1 GIGLDESELDSEAELMR 17 0 Q96RS0 Q96RS0 TGS1 Trimethylguanosine synthase 1 0 GIGLDES(0.765)ELDS(0.235)EAELMR 111.43 0.00041509 0 0 0 171.92 0 0 145.66 150.15 135.58 71.619 160.04 TRUE FALSE FALSE 0 0 195.3483623 0 0 133.2489485 133.2547268 132.1120599 71.12059755 166.9401076 0 0 1.170170339 0 0 0.798184154 0.798218767 0.791373995 0.42602463 1 7.383186796 -9.607126351 1.437065244 0.997144772 0.384488923 0 0.448633152 0.520212931 1.942583873 0.301116975 0.070811013 2.47E-10 9.607126351 -0.612655849 GIGLDESELDS(ph)EAELMR ddPTM_HeLa_SAHA_4h_R1 4 GIGLDESELDSEAELMR 17 0 Q96RS0 Q96RS0 TGS1 Trimethylguanosine synthase 1 0 GIGLDES(0.004)ELDS(0.996)EAELMR;GIGLDESELDS(1)EAELMR;GIGLDES(0.092)ELDS(0.908)EAELMR;GIGLDES(0.002)ELDS(0.998)EAELMR ;;; 214.54 1.05E-20 16393900 2870.43 2880.014 2921.07 3361.72 3292.92 3621.48 3084.99 3686.11 2971.616 2767.47 TRUE FALSE FALSE 3172.354997 2973.328343 3319.138207 3426.790952 3040.617181 3312.90953 2737.858806 3591.824644 2950.936282 2886.789175 1.098921606 1.029977654 1.149768135 1.187059651 1.053286886 1.147610487 0.948409683 1.24422825 1.022220918 1 11.49525003 -9.21973016 0.47054048 0.975715016 1.109215188 0.197480914 0.079034618 2.069562077 0.630895365 0.130957668 0.021030542 6.03E-10 9.21973016 0.133500172 GIGT(ph)PPNTTPIK ddPTM_HeLa_SAHA_4h_R1 1 GIGTPPNTTPIK 12 0 O96028-5;O96028-3;O96028;D6RIS1;D6R9V2;O96028-7;O96028-6 O96028-5 WHSC1 Histone-lysine N-methyltransferase NSD2 1 0 GIGT(0.999)PPNT(0.001)TPIK 102.73 0.0086406 2875600 1622.6 1850.3 1661.8 1614.8 1690.8 2212 1758.8 1680.5 2265 1684.2 TRUE FALSE FALSE 1793.272513 1910.250934 1888.26145 1646.056789 1561.251269 2023.525156 1560.895195 1637.515243 2249.237681 1756.814104 1.02075257 1.087338114 1.074821431 0.936955586 0.888683251 1.151815181 0.888480569 0.932093634 1.280293501 1 10.77874583 -6.243546677 24.8218883 1.02153098 0.962392426 0.133400327 0.110875931 1217.592368 1689120.7 0.011057014 0.018305871 5.71E-07 6.243546677 -0.059138553 GIGTPPNTTPIKNGS(ph)PEIK ddPTM_HeLa_SAHA_4h_R1 2 GIGTPPNTTPIKNGSPEIK 19 1 O96028-5;O96028-3;O96028;D6RIS1;D6R9V2;O96028-7;O96028-6 O96028-5 WHSC1 Histone-lysine N-methyltransferase NSD2 1 0 GIGTPPNT(0.001)T(0.001)PIKNGS(0.997)PEIK;GIGT(0.01)PPNT(0.033)T(0.106)PIKNGS(0.85)PEIK ; 80.41 0.0027836 10861800 3030.7 2323.94 2452.9 3021.2 2827.3 2998 3621.6 3564 1824.14 2774.7 TRUE FALSE FALSE 3349.482931 2399.237181 2787.168438 3079.679695 2610.672885 2742.553534 3214.088036 3472.838041 1811.445661 2894.330896 1.157256392 0.828943637 0.962975049 1.064038566 0.901995307 0.947560466 1.11047705 1.199875952 0.625859906 1 11.49901415 -10.08193569 2.85748333 0.99882003 1.047966746 0 0.163336366 1.249153028 18.58881036 0.107260551 0.017886232 8.28E-11 10.08193569 0.049146716 GIIPNSFAHIFGHIAK ddPTM_HeLa_SAHA_4h_R1 1 GIIPNSFAHIFGHIAK 16 0 C9J9X2;J3KPF9;A0A087X011;E9PES4;Q9Y496 C9J9X2 KIF3A Kinesin-like protein;Kinesin-like protein KIF3A 0 0 76.01 0.0059436 349730 206.24 315.13 139.6 348.72 337.67 247.28 641.17 208.94 142.27 257.82 FALSE FALSE TRUE 227.9332695 325.3404188 158.623961 355.4699799 311.7977976 226.2103528 569.0238641 203.5956173 141.2799315 268.9358819 0.847537591 1.209732284 0.58982074 1.321764791 1.159375965 0.841131169 2.115834674 0.757041477 0.525329422 1 8.071118445 -5.591662172 1.061191755 0.93332438 1.35264361 0.145317373 0.403566237 0.716297076 1.515349858 0.055882243 0.196932504 2.56E-06 5.591662172 0.41931923 GIITDS(ph)FGR ddPTM_HeLa_SAHA_4h_R1 3 GIITDSFGR 9 0 A0A0A0MT72;Q9BSQ5-4;Q9BSQ5;Q9BSQ5-2;C9JUH3;Q9BSQ5-3 A0A0A0MT72 CCM2 Cerebral cavernous malformations 2 protein 1 0 GIIT(0.002)DS(0.998)FGR;GIIT(0.008)DS(0.992)FGR;GIIT(0.034)DS(0.966)FGR ;; 98.04 0.012071 42273900 5376.8 5837.4 5456.8 5351.8 5745.2 6193.9 6489.5 6217.4 5612.4 5710.8 TRUE FALSE FALSE 5942.356494 6026.53559 6200.424286 5455.391828 5305.004017 5666.144874 5759.284381 6058.367911 5573.342851 5957.020536 0.99753836 1.011669433 1.040859982 0.915792013 0.890546538 0.951170949 0.966806199 1.017013098 0.935592352 1 12.54037522 -6.256767569 24.99289495 1.002839731 0.94625056 0.270993592 0.039454564 316.5958043 1693697.944 0.005225271 0.008481414 5.54E-07 6.256767569 -0.05658917 GIK(ac)DLSK(ac)VK(ac)LMR ddPTM_HeLa_SAHA_4h_R1 1 GIKDLSKVKLMR 12 3 A0A6I8PL42;B4DER1;A0A6I8PIT3;A0A6I8PIV1;Q9P2J5;A0A6I8PLB3;A0A6I8PS05;A0A6I8PRS0;Q9P2J5-2;Q9P2J5-3 A0A6I8PL42 LARS "Leucine--tRNA ligase, cytoplasmic" 0 3 GIK(1)DLSK(1)VK(1)LMR 64.374 0.013966 0 0 0 0 0 266.86 607.48 368.12 422.9 0 0 FALSE TRUE FALSE 0 0 0 0 246.4132445 555.7192864 326.6981688 412.0828304 0 0 0 GILAADES(ph)TGSIAK ddPTM_HeLa_SAHA_4h_R1 3 GILAADESTGSIAK 14 0 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 1 0 GILAADES(0.924)T(0.02)GS(0.057)IAK;GILAADES(0.84)T(0.159)GS(0.001)IAK;GILAADES(0.499)T(0.499)GS(0.001)IAK ;; 255.08 1.77E-43 34337600 3489.01 3772.06 3429.55 4251.94 3586.8 4729.47 3769.96 4207.51 4772.94 3430.24 TRUE FALSE FALSE 3856.00008 3894.277219 3896.911214 4334.242447 3311.980159 4326.492549 3345.754179 4099.887987 4739.724722 3578.134434 1.07765657 1.088354083 1.089090219 1.211313473 0.925616469 1.209147568 0.935055471 1.145817202 1.324635731 1 11.80499188 -8.928413219 0.759225156 0.999730958 1.083654878 0 0.136229263 1.130496539 1.202635885 0.053868045 0.017143351 1.18E-09 8.928413219 0.083923921 GILAADESTGS(ph)IAK ddPTM_HeLa_SAHA_4h_R1 1 GILAADESTGSIAK 14 0 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 1 0 GILAADEST(0.004)GS(0.996)IAK 148.41 9.09E-05 7149700 1120.6 1184.9 994.18 1514.4 1406.3 1380.1 1200.1 1487.6 1544.2 1198.7 TRUE FALSE FALSE 1238.469849 1223.291537 1129.661673 1543.713402 1298.549598 1262.507716 1065.06159 1449.549346 1533.453786 1250.381823 0.990473331 0.978334389 0.903453371 1.234593604 1.038522453 1.009697752 0.851789085 1.159285363 1.226388418 1 10.288153 GILAADESTGS(ph)IAKR ddPTM_HeLa_SAHA_4h_R1 2 GILAADESTGSIAKR 15 1 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 1 0 GILAADES(0.036)T(0.186)GS(0.779)IAKR;GILAADES(0.019)T(0.059)GS(0.923)IAKR ; 123.08 0.000345 57466000 1658.45 1970.57 1876.06 1994.08 2120.98 2509.7 1936.33 2698.4 1750.74 1855.42 TRUE FALSE FALSE 1832.89338 2034.417761 2131.719687 2032.678302 1958.470971 2295.859441 1718.449052 2629.378835 1738.556458 1935.416236 0.947028007 1.051152575 1.101426994 1.050253823 1.011912029 1.186235497 0.887896371 1.358559872 0.89828556 1 10.91842815 -4.249362451 24.8263389 1.005235282 1.358560111 0.584954113 0.086496093 868.1535011 1784613.796 0.011214772 0.251111663 5.63E-05 4.249362451 0.353324829 GILAADESTGSIAK ddPTM_HeLa_SAHA_4h_R1 6 GILAADESTGSIAK 14 0 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 ;;;;; ;;;;; 275.11 3.18E-99 41344200 7940.84 7373.28 6726.98 10058.42 8155.13 10272.81 9001.98 8767.2 9714.29 8372.93 FALSE FALSE TRUE 8776.093985 7612.17911 7643.697802 10253.11526 7530.285701 9397.508795 7989.053518 8542.947719 9646.687465 8733.927988 1.004827839 0.871564217 0.875172982 1.173940898 0.862187748 1.075977362 0.914714837 0.978133519 1.104507328 1 13.09241492 GILAADESTGSIAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GILAADESTGSIAKR 15 1 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 1 ; GILAADESTGSIAK(1)R;GILAADESTGSIAK(1)R 341.46 3.70E-182 47360000 2366.28 2373.63 2188.77 2244.26 2392.38 2576.31 2988.7 2779.59 2280.37 2197.72 FALSE TRUE FALSE 2615.176187 2450.537169 2487.044177 2287.700898 2209.076361 2356.793894 2652.40361 2708.492113 2264.50072 2292.474465 1.140765678 1.068948513 1.08487323 0.997917723 0.963620924 1.02805677 1.157004648 1.181471006 0.987797576 1 11.16268995 GILFVGSGVSGGEEGAR ddPTM_HeLa_SAHA_4h_R1 3 GILFVGSGVSGGEEGAR 17 0 P52209-2;P52209;K7EMN2;K7EM49;K7EPF6 P52209-2 PGD "6-phosphogluconate dehydrogenase, decarboxylating" 0 0 ;; ;; 201.38 5.72E-25 24798200 1592.44 1661.84 1777.39 2004.1 1908.81 2286.57 1991.77 2828.73 2146.88 2214.46 FALSE FALSE TRUE 1759.940146 1715.684706 2019.603453 2042.892253 1762.55739 2091.741372 1767.650798 2756.375183 2131.939687 2309.936208 0.761899891 0.742741163 0.874311354 0.884393364 0.763032929 0.905540753 0.765237928 1.193268963 0.922943101 1 11.17363729 -4.250802961 24.39457443 0.861499835 1.193269228 0.607506719 0.082807786 744.031145 1706385.084 0.014450297 0.271086038 5.61E-05 4.250802961 0.331769393 GILIGIQQSFRPR ddPTM_HeLa_SAHA_4h_R1 2 GILIGIQQSFRPR 13 1 P31327;P31327-3;P31327-2 P31327 CPS1 "Carbamoyl-phosphate synthase [ammonia], mitochondrial" 0 0 ; ; 174.57 4.72E-11 10895800 2289.28 4063.5 3926.4 2964.5 4239.6 2485 4836.5 1414.65 1970.57 3728.9 FALSE FALSE TRUE 2530.076974 4195.160066 4461.469344 3021.882184 3914.762764 2273.26402 4292.284291 1378.465301 1956.856643 3889.671128 0.650460384 1.078538501 1.147004258 0.776899148 1.006450837 0.584436047 1.103508279 0.354391221 0.503090513 1 11.92543246 -4.244300839 24.17878954 0.873202111 0.354390562 0.333090201 0.219832009 1848.204995 2607354.998 0.027253048 1.020006784 5.70E-05 4.244300839 -0.51881155 GILLFGPPGTGK ddPTM_HeLa_SAHA_4h_R1 1 GILLFGPPGTGK 12 0 I3L4J1;Q9UN37;Q6PIW4-2;Q6PIW4;O75351 I3L4J1;O75351 VPS4A;FIGNL1;VPS4B Vacuolar protein sorting-associated protein 4A;Fidgetin-like protein 1;Vacuolar protein sorting-associated protein 4B 0 0 140.16 0.00025295 401410 177.01 186.48 236.93 327.44 368.29 364.31 317.8 268.95 252.27 226.5 FALSE FALSE TRUE 195.628724 192.5220744 269.2175865 333.7780747 340.0716998 333.2687384 282.0403076 262.0706484 250.5144325 236.2655235 0.828003685 0.814854709 1.139470468 1.41272442 1.439362353 1.410568641 1.19374297 1.109220866 1.06030888 1 7.884265312 -6.551055844 4.3637585 0.9095117 1.316979415 0.704356876 0.117883632 0.083750782 3.72332218 0.019823826 0.028930675 2.81E-07 6.551055844 0.407467716 GILLQLFGGTRK ddPTM_HeLa_SAHA_4h_R1 2 GILLQLFGGTRK 12 1 A0A3B3ITP6;A0A3B3IT92;P33991;A0A3B3IS57;A0A3B3IU45;E5RG31;A0A3B3IRR8 A0A3B3ITP6 MCM4 DNA replication licensing factor MCM4 0 0 ; ; 183.99 4.21E-14 0 1620.19 1728.87 1913.86 1998.2 2303.6 1173.13 2974.3 1054.95 1163.65 1895.12 FALSE FALSE TRUE 1790.609018 1784.886522 2174.670874 2036.87805 2127.098666 1073.172724 2639.623936 1027.965907 1155.552065 1976.827898 0.905799144 0.902904357 1.100081032 1.030377026 1.076016111 0.542876153 1.335282621 0.52000779 0.584548643 1 10.94897156 -4.218085894 23.85547452 0.965320845 0.520004994 0.235763101 0.224411691 15622.71909 8596140.27 0.022730924 14.45491328 6.05E-05 4.218085894 -0.44531585 GILSLPHQAS(ph)PVSR ddPTM_HeLa_SAHA_4h_R1 2 GILSLPHQASPVSR 14 0 O75925;O75925-2 O75925 PIAS1 E3 SUMO-protein ligase PIAS1 1 0 GILSLPHQAS(0.889)PVS(0.111)R;GILSLPHQAS(0.934)PVS(0.066)R ; 137.91 0.00022074 6858900 2015.88 2073.87 1540.23 1837.68 2235.45 2542.71 2148.51 2020.47 2240.27 1872.33 TRUE FALSE FALSE 2227.919508 2141.064749 1750.124523 1873.250954 2064.170304 2326.056803 1906.754 1968.789303 2224.679779 1953.055309 1.140735491 1.096264268 0.89609573 0.959138712 1.056892907 1.190983579 0.976292884 1.008056092 1.139076691 1 10.93151709 GILTLK ddPTM_HeLa_SAHA_4h_R1 2 GILTLK 6 0 P60709;A0A2R8Y793;Q6S8J3;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5;A5A3E0;P0CG38;P0CG39;P63267;P68133;P68032;P62736;A6NL76;F8WB63;B8ZZJ2;C9JFL5;F6UVQ4;F6QUT6;P63261;I3L3I0;I3L1U9;I3L4N8;K7EM38;I3L3R2;J3KT65 P60709;P63267;P63261 ACTB;POTEE;POTEF;POTEI;POTEJ;ACTG2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;POTE ankyrin domain family member E;POTE ankyrin domain family member F;POTE ankyrin domain family member I;POTE ankyrin domain family member J;Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ; ; 118.06 0.006274 99445000 13352.2 12672.2 11941.6 12620.6 13270.5 9471.3 14444.9 7652.5 10768.6 10344.9 FALSE FALSE TRUE 14756.64566 13082.78759 13568.93906 12864.88996 12253.71716 8664.291956 12819.52184 7456.760131 10693.66044 10790.91927 1.36750589 1.212388609 1.257440513 1.192195924 1.135558228 0.802924361 1.187991636 0.69102177 0.990986975 1 13.39753015 -5.410375055 5.469684556 1.188103113 0.924753742 0.374547108 0.158420505 0.204893133 8.552697655 0.024480938 0.055446595 3.89E-06 5.410375055 -0.263349371 GINGGPSRMS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 GINGGPSRMSPK 12 1 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 GINGGPS(0.018)RMS(0.982)PK 68.355 0.021565 88409000 4037.8 2664.9 4031.5 3964.1 3479 3334.9 4392.2 4604.8 2179.9 3863.7 TRUE FALSE FALSE 4462.51433 2751.244509 4580.891825 4040.830888 3212.439772 3050.747758 3897.978096 4487.015884 2164.729898 4030.283015 1.107245896 0.682643005 1.136617902 1.002617154 0.797075481 0.75695621 0.967172301 1.113325259 0.537116101 1 11.97666544 GIPAPEEER ddPTM_HeLa_SAHA_4h_R1 1 GIPAPEEER 9 0 G3V438;O95433;H0YJU2 G3V438 AHSA1 Activator of 90 kDa heat shock protein ATPase homolog 1 0 0 124.98 0.017108 4078900 802.51 1034.7 866.21 972.58 704.34 1109.1 921.02 577.99 983.96 894.54 FALSE FALSE TRUE 886.9216838 1068.224959 984.2525878 991.4056923 650.3736214 1014.59844 817.3844056 563.2058527 977.1125422 933.1079972 0.950502714 1.144803133 1.054811009 1.0624769 0.696997157 1.087332274 0.875980495 0.603580566 1.047159113 1 9.865900257 -4.328304198 2.967557367 0.986049028 0.566976563 0.517107753 0.116658054 0.195163895 2.625366904 0.015188922 0.177144323 4.70E-05 4.328304198 -0.419072465 GIPLATGDTS(ph)PEPELLPGAPLPPPK ddPTM_HeLa_SAHA_4h_R1 1 GIPLATGDTSPEPELLPGAPLPPPK 25 0 K7ENA8;O75821;K7EL20;K7EL60;K7ER90 K7ENA8 EIF3G Eukaryotic translation initiation factor 3 subunit G 1 0 GIPLAT(0.002)GDT(0.17)S(0.829)PEPELLPGAPLPPPK 102.21 4.32E-06 1226700 1012 1092.9 897.12 1149.5 1149.2 1242.2 935.92 1166.6 1605.3 1059.5 TRUE FALSE FALSE 1118.446803 1128.310677 1019.374842 1171.750235 1061.148544 1136.357572 830.6078184 1136.760061 1594.128587 1105.18023 1.012003991 1.020929118 0.922360728 1.060234524 0.960158819 1.028210187 0.751558701 1.028574372 1.442415041 1 10.11006594 GIPNMLLS(ph)EEETES ddPTM_HeLa_SAHA_4h_R1 1 GIPNMLLSEEETES 14 0 F5GYQ2;Q9UI30-2;Q9UI30 F5GYQ2 TRMT112 Multifunctional methyltransferase subunit TRM112-like protein 1 0 GIPNMLLS(0.448)EEET(0.276)ES(0.276) 76.262 0.020498 3620200 1740.4 1571.5 1323.2 1290.4 1486.6 1766.7 1740.3 1918.3 1660.1 1707 TRUE FALSE FALSE 1923.463257 1622.417631 1503.518805 1315.377558 1372.697029 1616.167221 1544.476864 1869.232664 1648.547229 1780.597124 1.080234957 0.911164917 0.844390224 0.73872834 0.770919491 0.907654628 0.867392653 1.049778548 0.925839544 1 10.79814542 -7.092318375 4.098512333 1.037564936 0.856601022 0.306595468 0.087996364 0.14488123 4.375323155 0.01428356 0.017773885 8.09E-08 7.092318375 -0.180963914 GIQLS(ph)PGVGSSAGPPGDLEDDEGLKHLQQEAEK ddPTM_HeLa_SAHA_4h_R1 1 GIQLSPGVGSSAGPPGDLEDDEGLKHLQQEAEK 33 1 O75420 O75420 GIGYF1 PERQ amino acid-rich with GYF domain-containing protein 1 1 0 GIQLS(0.44)PGVGS(0.44)S(0.121)AGPPGDLEDDEGLKHLQQEAEK 76.762 1.69E-07 6859700 741.86 666.83 853.89 971.81 969.6 922.88 949.47 875.21 658.18 747.29 TRUE FALSE FALSE 819.8922386 688.4357295 970.2536823 990.6207878 895.3094575 844.245432 842.6331367 852.8233955 653.5996718 779.509329 1.05180555 0.883165478 1.244697974 1.270826084 1.148555154 1.083047246 1.0809789 1.094051557 0.838475753 1 9.606422479 -6.751336739 24.99961293 1.014549903 1.152267174 0.500440122 0.092595707 152.6197306 377665.854 0.012488254 0.017545485 1.77E-07 6.751336739 0.137717271 GIRDDIEEEDDQEAYFR ddPTM_HeLa_SAHA_4h_R1 1 GIRDDIEEEDDQEAYFR 17 1 A0A0A0MSJ0;Q86XP3-2;Q86XP3;J3KRE3 A0A0A0MSJ0 DDX42 ATP-dependent RNA helicase DDX42 0 0 182.35 2.87E-27 0 687.09 953.33 605.35 1140.9 868.29 902.04 857.31 1001.5 1119.3 937.35 FALSE FALSE TRUE 759.3612787 984.2185175 687.8439455 1162.983769 801.7618078 825.1811173 760.8432225 975.8830802 1111.5107 977.7637458 0.776630635 1.006601566 0.703486858 1.189432288 0.819995435 0.843947345 0.778146281 0.998076564 1.136788621 1 9.933342103 -9.671108119 1.536994632 0.999793504 0.871739328 0.154588632 0.143225273 0.703089546 2.997802823 0.090467185 0.020379084 2.13E-10 9.671108119 -0.128054176 GIRPAINVGLSVSR ddPTM_HeLa_SAHA_4h_R1 2 GIRPAINVGLSVSR 14 1 P25705-2;P25705;P25705-3 P25705-2 ATP5A1 "ATP synthase subunit alpha, mitochondrial" 0 0 ; ; 165.51 1.01E-07 19143600 4374.8 4581.7 4432.1 3655.7 5154.8 3262.9 5500.5 2509.3 3016.7 5097.5 FALSE FALSE TRUE 4834.961536 4730.150086 5036.083507 3726.46136 4759.840338 2984.882563 4881.569263 2445.115739 2995.706539 5317.278172 0.90929257 0.889581085 0.947116804 0.700821217 0.895164816 0.561355353 0.918057906 0.459843488 0.563390976 1 12.37647223 -3.151646365 0.233381021 1.003395149 2.83E-15 0.052007942 0.179708996 10.03367391 0.291226732 0.078130792 3.171856746 0.000705267 3.151646365 -1.003395149 GIS(ph)PIVFDR ddPTM_HeLa_SAHA_4h_R1 6 GISPIVFDR 9 0 J3QR07;Q96MU7-2;Q96MU7 J3QR07 YTHDC1 YTH domain-containing protein 1 1 0 GIS(1)PIVFDR;GIS(1)PIVFDR;GIS(1)PIVFDR;GIS(1)PIVFDR;GIS(1)PIVFDR;GIS(1)PIVFDR ;;;;; 147.37 0.00055086 268393000 16400.9 17542.5 15067.5 17077.5 18189.7 20659.4 18105.4 16579.5 23126.7 17996.9 TRUE FALSE FALSE 18126.02191 18110.88851 17120.82043 17408.05971 16796.00912 18899.10289 16068.13274 16155.4204 22965.75941 18772.83443 0.965545292 0.964739159 0.911999756 0.927300551 0.894697558 1.006726127 0.855924703 0.860574382 1.223350661 1 14.19635887 -1 0.140440297 1.020145043 0.495826296 0.363212388 0.080408357 40.93449491 0.379477571 0.095592172 4.32886993 0.1 1 -0.524318748 GIS(ph)SLPR ddPTM_HeLa_SAHA_4h_R1 1 GISSLPR 7 0 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 GIS(0.5)S(0.5)LPR 91.069 0.019334 60530000 3311.7 3444.2 3152.3 4266 3395.1 4051.8 3767.9 4176.5 3223.6 3215.7 TRUE FALSE FALSE 3660.039801 3555.79434 3581.879028 4348.574599 3134.968171 3706.563845 3343.925975 4069.671177 3201.166705 3354.344564 1.091134119 1.060056375 1.067832764 1.296400687 0.934599327 1.105003906 0.996894002 1.213253767 0.954334489 1 11.71181518 -9.155018317 0.599956753 0.988684937 1.094259469 0.184155483 0.097060682 1.841553074 1.018477775 0.105369361 0.020908002 7.00E-10 9.155018317 0.105574532 GISAGAVQTAGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 GISAGAVQTAGKK 13 1 P46087;P46087-4;F5GWB7;F5H709 P46087 NOP2 Probable 28S rRNA (cytosine(4447)-C(5))-methyltransferase 0 1 ; GISAGAVQTAGK(1)K;GISAGAVQTAGK(1)K 176.51 2.91E-11 2819500 1370.56 994.4 1144.01 1376.04 1316.93 1554.17 1569.18 1806.9 1144.27 1082.73 FALSE TRUE FALSE 1514.721789 1026.619212 1299.909725 1402.675244 1216.027108 1421.745972 1392.611737 1760.682114 1136.306932 1129.411789 1.341159889 0.908985741 1.150961711 1.241952012 1.076690645 1.258837553 1.233041615 1.558937255 1.006105074 1 10.14135588 -1.060712783 0.91201173 1.14550713 199.1609307 0.524091575 0.125316195 634.0549267 1.427203332 0.022603253 261306.1442 0.08695353 1.060712783 198.0154235 GISGES(ph)LSLHCVSDGIPK ddPTM_HeLa_SAHA_4h_R1 1 GISGESLSLHCVSDGIPK 18 0 Q6WRI0;Q6WRI0-3;Q6WRI0-2 Q6WRI0 IGSF10 Immunoglobulin superfamily member 10 1 0 GIS(0.041)GES(0.959)LSLHCVSDGIPK 87.519 0.003987 71290000 2007.6 2215.6 1610.9 2339.3 1895.1 2503 2925 2047 1977 1870.8 TRUE FALSE FALSE 2218.768579 2287.386894 1830.425063 2384.580534 1749.897847 2289.730319 2595.871302 1994.640704 1963.241896 1951.459343 1.136979147 1.172141711 0.937977555 1.22194733 0.896712429 1.173342569 1.33022054 1.022127727 1.006037816 1 10.93033769 -13.52287875 0.26475559 0.182082845 1.127787196 0.107420995 0.123631623 77.31017991 1.034638946 33.23654785 0.062836497 3.00E-14 13.52287875 0.945704351 GISHVIVDEIHER ddPTM_HeLa_SAHA_4h_R1 2 GISHVIVDEIHER 13 0 Q08211 Q08211 DHX9 ATP-dependent RNA helicase A 0 0 ; ; 179.67 3.36E-06 11794400 5819 5964.7 5906.4 8094.8 8043.8 7264.4 8185.9 6182.9 8969.3 7826.6 FALSE FALSE TRUE 6431.069119 6157.960194 6711.293433 8251.486559 7427.485782 6645.432252 7264.800988 6024.750371 8906.881911 8164.043028 0.787730919 0.754278263 0.822055128 1.010710812 0.909780333 0.813987901 0.889853344 0.737961614 1.090989094 1 12.99506807 -9.410882118 1.154790013 0.999437356 0.841180854 0.472907113 0.08251186 0.43470855 1.042634126 0.054389803 0.013986217 3.88E-10 9.410882118 -0.158256502 GISLNPEQWSQLK ddPTM_HeLa_SAHA_4h_R1 2 GISLNPEQWSQLK 13 0 P53999 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 0 0 ; ; 228.93 2.76E-43 1637200 693.98 715.63 600.16 797.28 764.13 568.23 803.57 443.192 679.3 608.78 FALSE FALSE TRUE 766.9760005 738.8168815 681.9466793 812.7125073 705.5825245 519.8136072 713.1501887 431.8557904 674.572696 635.0274851 1.207783944 1.163440794 1.073885297 1.279806822 1.111105489 0.818568675 1.123022555 0.680058423 1.062273227 1 9.310675225 -3.676961504 0.909260993 1.112101469 4.54E-17 0.506087827 0.12034744 3.764048175 1.111935461 0.019807839 5.3541314 0.000210396 3.676961504 -1.112101469 GISQEQMQEFR ddPTM_HeLa_SAHA_4h_R1 4 GISQEQMQEFR 11 0 O43707;O43707-2;F5GXS2;O43707-3;H7C144 O43707 ACTN4 Alpha-actinin-4 0 0 ;;; ;;; 185.08 3.08E-22 153902000 3668.07 3608.62 3215.74 3274.06 3825.25 4428.2 3779.65 3897.63 4169.81 3525.1 FALSE FALSE TRUE 4053.894432 3725.541656 3653.9643 3337.434166 3532.160171 4050.892448 3354.353835 3797.934268 4140.791953 3677.084312 1.102475246 1.013178197 0.993712406 0.90763058 0.960587213 1.101658843 0.912231961 1.032865702 1.126107427 1 11.84434654 -6.944220394 3.914347378 1.048790026 0.982539067 0.26718989 0.062647744 0.278858894 8.870072121 0.010287404 0.013544602 1.14E-07 6.944220394 -0.066250959 GISS(ph)DNESVASCNSVK ddPTM_HeLa_SAHA_4h_R1 2 GISSDNESVASCNSVK 16 0 A0A0A0MTL4;A0A0A0MTE8;Q8IVL1-4;Q8IVL1-8;Q8IVL1-9;Q8IVL1-10;Q8IVL1-13;Q8IVL1-12;Q8IVL1-11;Q8IVL1-3;Q8IVL1-2;Q8IVL1;Q8IVL1-5;E9PNV5 A0A0A0MTL4 NAV2 Neuron navigator 2 1 0 GIS(0.309)S(0.69)DNES(0.001)VASCNSVK;GIS(0.051)S(0.949)DNESVASCNSVK ; 188 1.38E-11 15413700 2531.5 2030.26 2155.5 2565 2506.6 2990.6 2851.9 2529 2401.8 2198.8 TRUE FALSE FALSE 2797.774785 2096.041756 2449.240315 2614.649284 2314.54485 2735.784055 2530.996706 2464.311842 2385.085678 2293.601029 1.219817549 0.913865023 1.067858047 1.139975633 1.009131414 1.192789862 1.103503475 1.074429167 1.039886906 1 11.16339874 -5.255888921 24.93762224 1.085978941 1.121567085 0.04225775 0.085920512 1748.312701 7854987.151 0.014526474 0.035967137 5.55E-06 5.255888921 0.035588144 GITFDSGGISIK ddPTM_HeLa_SAHA_4h_R1 1 GITFDSGGISIK 12 0 H0Y9Q1;P28838-2;P28838 H0Y9Q1 LAP3 Cytosol aminopeptidase 0 0 101.97 0.018357 519830 210.08 230.94 174.46 224.48 285.46 255.98 268.27 195.78 171.42 161 FALSE FALSE TRUE 232.1771783 238.4226075 198.2345003 228.825135 263.5881165 234.1690639 238.0835536 190.7722311 170.2270743 167.9414979 1.382488433 1.419676557 1.180378303 1.362528844 1.569523434 1.394349025 1.417657675 1.135944561 1.01360936 1 7.39181495 -9.23507961 0.677124204 0.961604944 1.369660782 0.587031174 0.117115755 0.530007959 0.375053815 0.127117611 0.025039971 5.82E-10 9.23507961 0.408055837 GITINAAHVEYSTAAR ddPTM_HeLa_SAHA_4h_R1 2 GITINAAHVEYSTAAR 16 0 P49411 P49411 TUFM "Elongation factor Tu, mitochondrial" 0 0 ; ; 82.774 0.0084957 7981200 1701.95 3527.9 2293.03 2053.6 3905.1 2756 3814.7 2091.53 2853.4 3426.1 FALSE FALSE TRUE 1880.96891 3642.206275 2605.512187 2093.350398 3605.892082 2521.173295 3385.459916 2038.031691 2833.542957 3573.815938 0.52631947 1.019136502 0.729056066 0.585746562 1.008975321 0.705456951 0.947295545 0.570267671 0.792862029 1 11.80324962 -9.692761393 1.57775243 0.999726732 0.734763253 0.020075596 0.182442704 0.457878849 2.05794039 0.124684674 0.027741957 2.03E-10 9.692761393 -0.264963479 GIVEFASK(ac)PAAR ddPTM_HeLa_SAHA_4h_R1 1 GIVEFASKPAAR 12 1 P23246;P23246-2 P23246 SFPQ "Splicing factor, proline- and glutamine-rich" 0 1 GIVEFASK(1)PAAR 139.31 0.00019214 4568100 765.1 1938.9 848.05 1068 1645.6 1674.3 1570.4 1446.8 1548.8 580.97 FALSE TRUE FALSE 845.5767284 2001.721632 963.6178375 1088.672684 1519.514484 1531.640221 1393.694459 1409.792951 1538.021775 606.0184599 1.395298633 3.303070392 1.590080008 1.796434855 2.507373263 2.527382121 2.299755785 2.326320144 2.537912418 1 9.24321793 -7.467139156 10.78308208 1.173997978 2.302948349 0.092339657 0.612232026 0.388800761 74.4304516 0.073785549 0.083870165 3.41E-08 7.467139156 1.128950371 GIVEFASKPAAR ddPTM_HeLa_SAHA_4h_R1 2 GIVEFASKPAAR 12 1 P23246;P23246-2 P23246 SFPQ "Splicing factor, proline- and glutamine-rich" 0 0 ; ; 137.01 0.00015983 3763700 2066.08 2036.3 1977.94 2316.7 2391.82 2212.76 3057.3 2049.17 2281.14 2549.72 FALSE FALSE TRUE 2283.399774 2102.277456 2247.483363 2361.543079 2208.559268 2024.220399 2713.284558 1996.755199 2265.265361 2659.650907 0.85853364 0.790433606 0.845029457 0.887914678 0.830394418 0.761084996 1.020165673 0.750758377 0.851715296 1 11.37702118 -8.92992693 0.735093449 1.002131886 0.845279353 0.022995182 0.084890147 0.527561202 0.521374284 0.046517877 0.014361451 1.18E-09 8.92992693 -0.156852533 GIVEFSGK(ac)PAAR ddPTM_HeLa_SAHA_4h_R1 4 GIVEFSGKPAAR 12 1 Q15233;Q15233-2;C9IZL7;H7C367 Q15233 NONO Non-POU domain-containing octamer-binding protein 0 1 ;;; GIVEFSGK(1)PAAR;GIVEFSGK(1)PAAR;GIVEFSGK(1)PAAR;GIVEFSGK(1)PAAR 152.69 1.14E-05 98080200 6620.49 7390.7 7339.48 9703.3 8572.6 9815.8 8553.12 7687.9 8654.31 8263.7 FALSE TRUE FALSE 7316.863514 7630.163529 8339.666112 9891.121403 7915.76924 8979.438618 7590.700427 7491.25465 8594.083952 8619.988549 0.848825201 0.885170959 0.967479953 1.147463404 0.918303916 1.041699599 0.880592867 0.869056218 0.996994822 1 13.07347024 -4.29993971 0.001359343 1.873084526 5.51E-05 0 0.089611024 4888876.362 1056.055164 720585.0148 734599.4975 5.01E-05 4.29993971 -1.873029409 GIVEFSGKPAAR ddPTM_HeLa_SAHA_4h_R1 2 GIVEFSGKPAAR 12 1 Q15233;Q15233-2;C9IZL7;H7C367 Q15233 NONO Non-POU domain-containing octamer-binding protein 0 0 ; ; 133.42 0.0003279 2818600 2594.4 2570.8 3168.6 3804.2 3194.5 3860.4 3491.2 2453.3 3058.6 3627.1 FALSE FALSE TRUE 2867.290896 2654.095607 3600.400307 3877.835792 2949.7381 3531.472202 3098.360988 2390.548138 3037.314954 3783.482032 0.75784446 0.701495497 0.951610257 1.02493834 0.779635816 0.93339209 0.818917854 0.631838111 0.802782973 1 11.88549888 -9.456844221 1.209328546 0.999399521 0.826261845 0 0.127499105 0.553965047 1.457249654 0.07880032 0.019809029 3.49E-10 9.456844221 -0.173137676 GIYAYGFEK(ac)PSAIQQR ddPTM_HeLa_SAHA_4h_R1 2 GIYAYGFEKPSAIQQR 16 1 P38919;I3L3H2;E9PBH4;F8WE11;P60842;P60842-2;J3KT12;J3QS69;J3QL43;J3KTB5;Q14240-2;J3QR64;Q14240;E7EQG2;J3QLN6;J3KS25;J3QKZ9;J3KS93;J3KT04;J3KSN7;E7EMV8;J3QQP0 P38919;P60842 EIF4A3;EIF4A2;EIF4A1 "Eukaryotic initiation factor 4A-III;Eukaryotic initiation factor 4A-III, N-terminally processed;Eukaryotic initiation factor 4A-I;Eukaryotic initiation factor 4A-II;Eukaryotic initiation factor 4A-II, N-terminally processed" 0 1 ; GIYAYGFEK(1)PSAIQQR;GIYAYGFEK(1)PSAIQQR 225.13 2.55E-44 4028000 73.244 642.48 300.11 285.26 572.07 665.89 639.42 271.19 381.83 266.727 FALSE TRUE FALSE 80.94813998 663.2967735 341.0074279 290.7816198 528.2381202 609.1524258 567.4707787 264.2533525 379.1728139 278.2269063 0.290942889 2.384013762 1.225645041 1.045124009 1.898587477 2.18940876 2.039597055 0.949776411 1.36281864 1 8.120118134 -7.273328028 24.98626426 0.665167471 1.676723855 0.293860898 0.530445376 487.6231126 1024831.016 0.08809007 0.101151575 5.33E-08 7.273328028 1.011556384 GIYAYGFEKPSAIQQR ddPTM_HeLa_SAHA_4h_R1 2 GIYAYGFEKPSAIQQR 16 1 P38919;I3L3H2;E9PBH4;F8WE11;P60842;P60842-2;J3KT12;J3QS69;J3QL43;J3KTB5;Q14240-2;J3QR64;Q14240;E7EQG2;J3QLN6;J3KS25;J3QKZ9;J3KS93;J3KT04;J3KSN7;E7EMV8;J3QQP0 P38919;P60842 EIF4A3;EIF4A2;EIF4A1 "Eukaryotic initiation factor 4A-III;Eukaryotic initiation factor 4A-III, N-terminally processed;Eukaryotic initiation factor 4A-I;Eukaryotic initiation factor 4A-II;Eukaryotic initiation factor 4A-II, N-terminally processed" 0 0 ; ; 208.28 1.07E-33 13819800 3661.9 3411.8 3799.9 3830.3 4331.5 3798.7 4425.8 2573.09 2922.6 3832.1 FALSE FALSE TRUE 4047.075443 3522.344559 4317.730583 3904.440995 3999.621406 3475.029389 3927.797336 2507.274084 2902.261389 3997.320585 1.012447052 0.881176399 1.080156192 0.976764538 1.000575591 0.869339678 0.982607537 0.627238679 0.726051696 1 11.96481757 -3.815725809 1.397066102 0.995564224 6.02E-20 0.387522342 0.105417012 1.305627351 0.964970096 0.008205855 2.478747115 0.000152853 3.815725809 -0.995564224 GK(ac)FDGAK ddPTM_HeLa_SAHA_4h_R1 1 GKFDGAK 7 1 O15347;E7ES08;E7EQU1 O15347 HMGB3 High mobility group protein B3 0 1 GK(1)FDGAK 93.374 0.021155 5877800 4206.5 3983.6 3788 4521.2 4454.5 5346.1 5985.4 5816.3 3972.4 3405.5 FALSE TRUE FALSE 4648.95897 4112.671254 4304.208913 4608.714364 4113.197172 4890.582204 5311.907039 5667.527468 3944.755745 3552.327771 1.308707774 1.157739803 1.211658718 1.297378694 1.157887852 1.376726056 1.495331338 1.595440464 1.110470654 1 11.79454899 -1 0.135102833 0.980767386 2.841666351 0.752317658 0.085802159 36.31516179 0.327485418 0.326598941 13.01328891 0.1 1 1.860898965 GK(ac)FEDMAK ddPTM_HeLa_SAHA_4h_R1 2 GKFEDMAK 8 1 P23497;P09429;Q5T7C4;B2RPK0 P23497;P09429 SP100;HMGB1;HMGB1P1 Nuclear autoantigen Sp-100;High mobility group protein B1;Putative high mobility group protein B1-like 1 0 1 ; GK(1)FEDMAK;GK(1)FEDMAK 100.02 0.0090052 6059300 3894.1 7954.5 5048.4 4796.5 8020.1 5028.4 8865.5 4989.2 3249.5 3003.2 FALSE TRUE FALSE 4303.699305 8212.231019 5736.369661 4889.343193 7405.601671 4599.952031 7867.930607 4861.583488 3226.886465 3132.682649 1.373806346 2.621469181 1.831136538 1.560752793 2.363980811 1.468374727 2.511563247 1.551891472 1.030071292 1 11.61318291 -7.466195041 6.542895438 1.162177904 1.982683423 0.50583253 0.391156846 0.134448606 11.98634352 0.063125405 0.07110731 3.42E-08 7.466195041 0.820505519 GK(ac)FMKPGK ddPTM_HeLa_SAHA_4h_R1 1 GKFMKPGK 8 2 P61353;K7EQQ9;K7ERY7 P61353 RPL27 60S ribosomal protein L27 0 1 GK(1)FMKPGK 80.438 0.01781 4970000 2819.8 2300.7 2995.7 3256 3223.6 2686 4976 4067 1848.2 2358 FALSE TRUE FALSE 3116.399502 2375.24419 3403.938395 3319.024588 2976.608464 2457.137689 4416.087384 3962.972029 1835.338226 2459.66492 1.267001646 0.965677955 1.383903298 1.349380788 1.21016828 0.99897253 1.795402027 1.611183701 0.746174087 1 11.26424608 -1 0.339067091 1.103098778 7.715057513 0.46186614 0.221878642 34.3204752 0.433358101 0.059261526 145.4726032 0.1 1 6.611958736 GKPASGAGAGAGAGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GKPASGAGAGAGAGKR 16 2 O43818 O43818 RRP9 U3 small nucleolar RNA-interacting protein 2 0 1 ; GKPASGAGAGAGAGK(1)R;GKPASGAGAGAGAGK(1)R 146.1 5.49E-06 14459700 2050.34 2797.77 3842.6 6780.7 7464.4 7903.4 9570.4 9015.2 2020.06 1747.4 FALSE TRUE FALSE 2266.004168 2888.419584 4366.249517 6911.950254 6892.479285 7229.985857 8493.513404 8784.604238 2006.002238 1822.738966 1.243186332 1.584658933 2.395433246 3.792068082 3.781385824 3.966550336 4.659753023 4.819452705 1.100542796 1 10.83189225 -6.319666 0.891200039 1.057005167 4.574636193 0.975041168 0.22908071 0.057613487 0.090694313 0.04525727 0.097127156 4.79E-07 6.319666 3.517631026 up GK(ac)GK(ac)VDK ddPTM_HeLa_SAHA_4h_R1 1 GKGKVDK 7 2 Q14686 Q14686 NCOA6 Nuclear receptor coactivator 6 0 2 GK(1)GK(1)VDK 69.954 0.013344 0 356.68 504.86 243.35 459.57 604.7 793.09 917.08 807.48 484.82 394.21 FALSE TRUE FALSE 394.1972389 521.2177953 276.5124707 468.4656419 558.3680166 725.5142702 813.8877448 786.8258308 481.4460981 411.2063223 0.958636134 1.267533515 0.672442168 1.139247177 1.357877995 1.764355825 1.979268558 1.913457523 1.170813949 1 8.683718636 -5.39963598 1.633907871 0.983596747 1.955488971 0.864347661 0.151663899 0.078656929 0.402706425 0.019501512 0.060747202 3.98E-06 5.39963598 0.971892225 GK(ac)LEAIITPPPAK ddPTM_HeLa_SAHA_4h_R1 2 GKLEAIITPPPAK 13 1 D6RCF2;O75367-2;O75367-3;O75367 D6RCF2 H2AFY Histone H2A;Core histone macro-H2A.1 0 1 ; GK(1)LEAIITPPPAK;GK(1)LEAIITPPPAK 123.84 0.0022065 0 600.29 1569.13 684.96 858.19 1303.99 1281.5 1534.42 1155.39 1323.4 786.58 FALSE TRUE FALSE 663.4312564 1619.970842 778.3027817 874.8015084 1204.078568 1172.30899 1361.763023 1125.836797 1314.190352 820.4933132 0.808576067 1.974386403 0.948579067 1.066189687 1.467505644 1.428785551 1.659688143 1.372146218 1.601707571 1 9.680347766 -6.755428607 0.605912722 0.908058603 1.490856111 0 0.379843867 0.65367202 0.500420792 0.085100345 0.150125589 1.76E-07 6.755428607 0.582797508 GK(ac)LEAIITPPPAKK ddPTM_HeLa_SAHA_4h_R1 1 GKLEAIITPPPAKK 14 2 D6RCF2;O75367-2;O75367-3;O75367 D6RCF2 H2AFY Histone H2A;Core histone macro-H2A.1 0 1 GK(1)LEAIITPPPAKK 93.478 0.0094726 828300 694.08 743.46 566.14 599.48 901.38 623.31 758.03 1183.3 531.17 506.89 FALSE TRUE FALSE 767.086519 767.5485918 643.2906109 611.0838023 832.3164591 570.2004814 672.7344694 1153.032899 527.4735447 528.7445086 1.450769713 1.451643619 1.216637904 1.15572605 1.574137311 1.078404545 1.272324267 2.180699526 0.997596261 1 9.046426965 -1.000000001 0.037105411 4.88E-10 3.550232231 0.324966411 0.277564768 887.9277534 2.540513261 70.26766398 207.1494922 0.1 1.000000001 3.550232231 GK(ac)LPSYK ddPTM_HeLa_SAHA_4h_R1 1 GKLPSYK 7 1 Q12996;E9PLP8 Q12996 CSTF3 Cleavage stimulation factor subunit 3 0 1 GK(1)LPSYK 93.429 0.021097 884920 1253.2 1427.4 1385.2 1625.5 1701.2 1654.9 1698 1533.6 1319.7 1030.5 FALSE TRUE FALSE 1385.017326 1473.648697 1573.967842 1656.963903 1570.854424 1513.89321 1506.936571 1494.372733 1310.5161 1074.929898 1.288472233 1.370925396 1.464251618 1.541462291 1.461355225 1.408364594 1.40189288 1.390204827 1.219164247 1 10.07002686 -8.244573817 0.586729951 1.008360838 1.450468357 0.710730027 0.078578889 0.166003415 0.126435034 0.032375821 0.016818381 5.69E-09 8.244573817 0.442107519 GK(ac)LSSSFSSR ddPTM_HeLa_SAHA_4h_R1 1 GKLSSSFSSR 10 1 Q9NRL2;Q9NRL2-2 Q9NRL2 BAZ1A Bromodomain adjacent to zinc finger domain protein 1A 0 1 GK(1)LSSSFSSR 97.813 0.0048044 0 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 GK(ac)LWLFGK ddPTM_HeLa_SAHA_4h_R1 2 GKLWLFGK 8 1 A0A075B6Q2;S4R347;Q5T0N5-3;Q5T0N5-4;Q5T0N5-2;Q5T0N5-5;Q5T0N5 A0A075B6Q2 FNBP1L Formin-binding protein 1-like 0 1 ; GK(1)LWLFGK;GK(1)LWLFGK 136.16 0.00029764 431610 167.67 336.73 657.41 558.1 560.92 442.26 522.46 225.299 49.144 0 FALSE TRUE FALSE 185.3062999 347.6402729 746.9984112 568.9028325 517.9424308 404.5769599 463.6714258 219.5361778 48.8020029 0 0 GK(ac)LWPFIK ddPTM_HeLa_SAHA_4h_R1 2 GKLWPFIK 8 1 B7ZL14;H0Y7W6;Q96RU3-4;Q96RU3-3;Q96RU3-5;Q96RU3-2;Q96RU3 B7ZL14 FNBP1 Formin-binding protein 1 0 1 ; GK(1)LWPFIK;GK(1)LWPFIK 114.93 0.0031588 688010 0 639.61 457.44 780.69 939.49 1243.52 889.13 2560.29 908.9 611.36 FALSE TRUE FALSE 0 660.3337837 519.777541 795.8013838 867.5064792 1137.5651 789.0827523 2494.801489 902.5748909 637.7187215 0 1.03546244 0.815057679 1.247887755 1.360327759 1.783803833 1.23735234 3.912071898 1.415318165 1 9.316776425 -1 0.51721271 0.595873389 106.2837986 0.700277653 0.522267747 37.80884522 0.346859144 0.1012943 4402.02459 0.1 1 105.6879252 GK(ac)MSSYAFFVQTCR ddPTM_HeLa_SAHA_4h_R1 4 GKMSSYAFFVQTCR 14 1 P09429;Q5T7C4;B2RPK0;D6R9A6;P26583 P09429;D6R9A6 HMGB1;HMGB1P1;HMGB2 High mobility group protein B1;Putative high mobility group protein B1-like 1;High mobility group protein B2 0 1 ;;; GK(1)MSSYAFFVQTCR;GK(1)MSSYAFFVQTCR;GK(1)MSSYAFFVQTCR;GK(1)MSSYAFFVQTCR 219.97 1.66E-33 8383500 757.15 1052.671 1096.59 934.3 938.53 494.86 1563.42 349.14 362.439 1034.62 FALSE TRUE FALSE 836.7905109 1086.778231 1246.027574 952.3847275 866.6200342 452.695144 1387.499867 340.2095043 359.9167575 1079.227532 0.775360604 1.006996393 1.154555029 0.882468895 0.803000302 0.41946219 1.285641652 0.315234271 0.333494789 1 10.07578334 -5.678459616 3.930721671 0.922228709 0.718780502 0.035194363 0.318162425 0.364820421 10.81963499 0.035459822 0.07274921 2.10E-06 5.678459616 -0.203448208 GK(ac)TGGK(ac)AR ddPTM_HeLa_SAHA_4h_R1 1 GKTGGKAR 8 2 P16104 P16104 H2AFX Histone H2AX 0 2 GK(1)TGGK(1)AR 90.906 0.005645 0 63.945 174.06 478.59 1779 2689.2 1423.3 5696 1041.7 7.2765 0 FALSE TRUE FALSE 70.67102849 179.6996582 543.8097528 1813.435117 2483.154077 1302.026833 5055.071089 1015.054822 7.225862244 0 0 GK(ac)VGRPTASK(ac)ASK ddPTM_HeLa_SAHA_4h_R1 2 GKVGRPTASKASK 13 3 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 0 2 ; GK(1)VGRPTASK(1)ASK;GK(1)VGRPTASK(1)ASK 142.95 6.68E-05 24374000 994.04 1926.5 4552.3 8738.7 11557.7 10343.8 17144.2 9001.8 536.03 757.73 FALSE TRUE FALSE 1098.597688 1988.919864 5172.663737 8907.850175 10672.15152 9462.450047 15215.08949 8771.54699 532.2997236 790.3994485 1.389927194 2.516347737 6.544366581 11.27006122 13.50222542 11.97173159 19.24987362 11.09761274 0.673456598 1 9.62643813 -6.365094713 1.222504861 1.097869345 14.5534001 0.890995885 2.012057003 0.084335381 0.249426307 0.310379204 0.576952065 4.31E-07 6.365094713 13.45553076 K(ac)GATPGKALVATPGK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 KGATPGKALVATPGKK 16 3 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 2 K(0.5)GATPGK(0.5)ALVATPGK(1)K 113.47 0.0065505 0 666.93 819.68 1035.1 1513.2 2059.7 2022.1 2346.5 2029.5 584.98 552.15 FALSE TRUE FALSE 737.0807574 846.2381698 1176.158037 1542.490174 1901.886231 1849.805704 2082.465644 1977.588329 580.9090766 575.9558887 1.279752099 1.46927601 2.042097426 2.678139428 3.302138703 3.211714196 3.615668639 3.433576021 1.008599943 1 9.169814512 -6.313440374 0.933223734 1.098548881 3.522289616 0.989604494 0.102717871 0.035821484 0.061848359 0.019918239 0.042089834 4.86E-07 6.313440374 2.423740735 up GKAS(ph)PFEEDQNR ddPTM_HeLa_SAHA_4h_R1 1 GKASPFEEDQNR 12 1 C9JW01;A0A0A0MR59;Q8TB72-2;Q8TB72-4;Q8TB72-3;Q8TB72;A0A0C4DG68 C9JW01 PUM2 Pumilio homolog 2 1 0 GKAS(1)PFEEDQNR 78.508 0.013679 25216000 3049.2 3431.3 2739.9 2970.2 3308 3937.3 3298.6 3668.8 3412.2 3389.5 TRUE FALSE FALSE 3369.928846 3542.476371 3113.279303 3027.692516 3054.541755 3601.819889 2927.432847 3574.957408 3388.454222 3535.637933 0.953131771 1.001934146 0.880542454 0.856335568 0.863929456 1.018718533 0.827978685 1.0111209 0.958371385 1 11.78775483 -6.762910445 24.9995146 0.97905436 0.906492681 0.233868846 0.060637373 39.4577478 670555.8463 0.009057178 0.012266767 1.73E-07 6.762910445 -0.072561678 GKELSDQATAS(ph)PIVAR ddPTM_HeLa_SAHA_4h_R1 4 GKELSDQATASPIVAR 16 1 Q5JSH3-2;Q5JSH3;Q5JSH3-4 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 GKELSDQAT(0.001)AS(0.999)PIVAR;GKELSDQAT(0.002)AS(0.998)PIVAR;GKELSDQAT(0.004)AS(0.996)PIVAR;GKELSDQAT(0.016)AS(0.984)PIVAR ;;; 155.86 1.01E-05 119195000 14393.9 11912.7 13531.2 13853.2 13999.7 14317.8 13945 13617.9 11958.7 13774.5 TRUE FALSE FALSE 15907.91644 12298.6793 15375.16147 14121.34872 12927.04601 13097.84289 12375.8719 13269.57384 11875.47843 14368.38611 1.107147061 0.855954121 1.070068785 0.98280688 0.899686709 0.9115737 0.861326513 0.9235257 0.826500509 1 13.8106104 -6.014468101 0.864616707 1.042844985 0.88432772 0 0.094951846 0.424107583 0.612865079 0.01287146 0.035619385 9.67E-07 6.014468101 -0.158517265 GKGDK(ac)AQIEKR ddPTM_HeLa_SAHA_4h_R1 1 GKGDKAQIEKR 11 3 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 1 GK(0.02)GDK(0.979)AQIEKR 54.772 0.023248 6254300 782.61 592.87 1172.5 738.74 745.26 690.47 1032.8 1091.2 373.51 900.65 FALSE TRUE FALSE 864.9285105 612.079377 1332.282194 753.0393809 688.1583398 631.6380715 916.5866258 1063.288684 370.9107135 939.4814292 0.920644606 0.651507691 1.41810381 0.801547915 0.732487432 0.672326298 0.975630382 1.131782546 0.394803667 1 9.875720834 GKGFSVVADT(ph)PELQR ddPTM_HeLa_SAHA_4h_R1 1 GKGFSVVADTPELQR 15 1 C9J9W2;Q14847;Q14847-2;Q14847-3 C9J9W2 LASP1 LIM and SH3 domain protein 1 1 0 GKGFSVVADT(1)PELQR 89.353 0.0092158 5826800 2243.8 2029.3 2452 2296.1 2296.9 2654.8 2567.7 2527.3 1815.2 2431.6 TRUE FALSE FALSE 2479.813179 2095.050651 2786.145791 2340.544336 2120.912018 2428.596105 2278.775638 2462.655325 1802.567875 2536.438176 0.977675388 0.825981359 1.098448138 0.922768139 0.836177297 0.95748287 0.898415605 0.970910842 0.710668958 1 11.30858828 -7.513145662 0.524909051 1.000810675 0.922418289 0 0.116683038 1.13290949 0.750236478 0.029317985 0.028009196 3.07E-08 7.513145662 -0.078392386 GKGGEIQPVSVK(ac)VGDK ddPTM_HeLa_SAHA_4h_R1 2 GKGGEIQPVSVKVGDK 16 2 P61604;B8ZZL8 P61604 HSPE1 "10 kDa heat shock protein, mitochondrial" 0 1 ; GKGGEIQPVSVK(1)VGDK;GKGGEIQPVSVK(1)VGDK 151.11 1.88E-06 5071300 4916.2 6313.4 4604.7 4393.3 6078.4 5395.8 6161.3 4579.9 5176.9 5342 FALSE TRUE FALSE 5433.308472 6517.958302 5232.204536 4478.338674 5612.674305 4936.047484 5468.014308 4462.75279 5140.873531 5572.319763 0.975053246 1.169702849 0.93896344 0.803675823 1.007241965 0.885815548 0.981281502 0.800878804 0.922573318 1 12.44406233 -6.533022598 24.99969942 1.004017456 0.902682943 0.304690412 0.085147628 206.6843801 509375.6481 0.012087378 0.017105075 2.93E-07 6.533022598 -0.101334513 GKGGK(ac)GLGK(ac)GGAK ddPTM_HeLa_SAHA_4h_R1 1 GKGGKGLGKGGAK 13 3 P62805 P62805 HIST1H4A Histone H4 0 2 GKGGK(1)GLGK(1)GGAK 118.03 0.00083912 0 0 213.31 167.17 432.78 678.45 514.82 904.08 825.54 54.84 144.58 FALSE TRUE FALSE 0 220.221384 189.951057 441.1570827 626.4673076 470.9544397 802.350539 804.4238822 54.45836397 150.8135514 0 1.460222785 1.259509211 2.92518198 4.153919206 3.12275943 5.320148831 5.333896556 0.361097285 1 7.236622258 -5.90274317 0.832406814 0.516791317 5.119207593 0.899194225 0.593840109 0.149217254 0.195451237 0.119599815 0.374861384 1.25E-06 5.90274317 4.602416277 GKGGVTGS(ph)PEASISGSK ddPTM_HeLa_SAHA_4h_R1 4 GKGGVTGSPEASISGSK 17 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GKGGVT(0.003)GS(0.937)PEAS(0.057)IS(0.002)GSK;GKGGVT(0.014)GS(0.984)PEAS(0.001)ISGSK;GKGGVTGS(1)PEASISGSK;GKGGVT(0.008)GS(0.99)PEAS(0.002)IS(0.001)GSK ;;; 192.18 1.84E-11 416766000 12707.29 16697.5 12375.87 13007.7 14001.57 14087.56 14784 12938.4 14598.16 12296.3 TRUE FALSE FALSE 14043.90107 17238.50996 14062.38911 13259.48284 12928.77273 12887.22063 13120.46541 12607.45446 14496.57022 12826.45367 1.094916914 1.343980994 1.096358313 1.033760631 1.00797719 1.004737628 1.022922294 0.982925974 1.130208754 1 13.64683472 -6.033747781 4.107182563 1.076500046 1.006863964 0.213299592 0.090492724 0.435960679 16.25270229 0.015615996 0.027446698 9.25E-07 6.033747781 -0.069636083 GKGGVTGS(ph)PEASISGSKGDLK ddPTM_HeLa_SAHA_4h_R1 3 GKGGVTGSPEASISGSKGDLK 21 2 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GKGGVT(0.015)GS(0.839)PEAS(0.138)IS(0.005)GS(0.002)KGDLK;GKGGVT(0.06)GS(0.94)PEASISGSKGDLK;GKGGVT(0.067)GS(0.931)PEAS(0.002)ISGSKGDLK ;; 108.77 0.00011568 31618200 7481.97 3877.74 6385.98 5279.99 5481.78 4783.46 6495.21 7317.26 2979.22 5288.98 TRUE FALSE FALSE 8268.957933 4003.38132 7256.228098 5382.191841 5061.767201 4375.882297 5764.351876 7130.095084 2958.487365 5517.013811 1.498810446 0.725642795 1.315245592 0.97556251 0.917483148 0.793161382 1.044831873 1.292383041 0.536247953 1 12.42967188 -7.264564878 24.98575197 1.23554937 1.009200602 0 0.304230085 385.2085186 3079416.797 0.041795404 0.048886532 5.44E-08 7.264564878 -0.226348767 GKGGVTGSPEAS(ph)ISGSK ddPTM_HeLa_SAHA_4h_R1 1 GKGGVTGSPEASISGSK 17 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GKGGVT(0.084)GS(0.414)PEAS(0.502)IS(0.001)GSK 129.89 2.52E-05 0 805.33 1053.6 664.42 758.57 652.78 793.33 862.39 623.54 501.7 687.54 TRUE FALSE FALSE 890.0383044 1087.737331 754.9636974 773.2532193 602.7641374 725.7338208 765.3516075 607.5907497 498.2086289 717.1832141 1.241019431 1.516679852 1.052678984 1.078180867 0.840460465 1.011922486 1.067163303 0.847190422 0.694674135 1 9.486197912 -6.101503279 2.834832803 1.149454434 0.956883309 0.092679767 0.206145617 0.326667482 5.094518096 0.026071333 0.046390871 7.92E-07 6.101503279 -0.192571125 GKGGVTGSPEAS(ph)ISGSKGDLK ddPTM_HeLa_SAHA_4h_R1 1 GKGGVTGSPEASISGSKGDLK 21 2 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GKGGVT(0.035)GS(0.238)PEAS(0.644)IS(0.065)GS(0.019)KGDLK 51.942 0.011221 26769000 3130.8 1881.5 3125.6 2721.4 3199.5 2479.1 3360.2 3989.2 1938.6 2738.6 TRUE FALSE FALSE 3460.111909 1942.461834 3551.540491 2774.076632 2954.355001 2267.866733 2982.101452 3887.16204 1925.109125 2856.674448 1.211237742 0.679973119 1.243242993 0.971086024 1.034193799 0.793883508 1.04390665 1.360729796 0.673898675 1 11.48012092 GKIEVLDS(ph)PASK ddPTM_HeLa_SAHA_4h_R1 2 GKIEVLDSPASK 12 1 Q8N5I9 Q8N5I9 C12orf45 Uncharacterized protein C12orf45 1 0 GKIEVLDS(0.917)PAS(0.083)K;GKIEVLDS(1)PASK ; 110.32 0.0018188 34814000 3982.9 4127.1 3946.7 4316.5 3979.3 3969.4 4642.8 4367.1 4706.7 4560.6 TRUE FALSE FALSE 4401.839696 4260.820748 4484.535722 4400.052099 3674.406894 3631.184789 4120.379925 4255.395905 4673.945691 4757.229785 0.92529474 0.895651659 0.942677971 0.924918976 0.772383732 0.76329817 0.866130103 0.894511322 0.982493153 1 12.215906 -7.065084636 0.405259979 0.994544287 0.821773214 0.557452835 0.04976006 0.613669943 0.259143821 0.027880806 0.039022835 8.61E-08 7.065084636 -0.172771073 GKLEAIITPPPAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 GKLEAIITPPPAKK 14 2 D6RCF2;O75367-2;O75367-3;O75367 D6RCF2 H2AFY Histone H2A;Core histone macro-H2A.1 0 1 ; GKLEAIITPPPAK(1)K;GKLEAIITPPPAK(1)K 109.99 0.002239 4218800 4827.8 5228.9 4875.5 6401.2 7719 8731.4 8947.2 8427.1 4930.7 4626.3 FALSE TRUE FALSE 5335.610155 5398.319791 5539.907749 6525.104482 7127.571888 7987.435598 7940.437508 8211.546984 4896.386857 4825.762434 1.105651227 1.118645989 1.147986008 1.352139599 1.476983583 1.655165522 1.645426524 1.701606139 1.014634874 1 12.23654118 -5.865671359 0.816445403 1.042976591 1.720910237 0.987042154 0.03014372 0.062065549 0.077340501 0.007031053 0.023133908 1.36E-06 5.865671359 0.677933647 GKLPIVNEDDELVAIIAR ddPTM_HeLa_SAHA_4h_R1 1 GKLPIVNEDDELVAIIAR 18 1 P12268;H0Y4R1;E7ETK5 P12268 IMPDH2 Inosine-5-monophosphate dehydrogenase 2 0 0 147.64 6.40E-07 418170 66.495 196.77 0 0 0 121.65 125.94 0 216.13 215.15 FALSE FALSE TRUE 73.48924919 203.1454771 0 0 0 111.2847356 111.7688997 0 214.6259337 224.4261694 0.32745401 0.905177313 0 0 0 0.495863454 0.498020797 0 0.956332028 1 7.810097102 -9.415848982 0.355345892 1.310030578 0.202653152 0.532592798 0.272220491 2.076450801 0.315594733 0.914002685 0.118116415 3.84E-10 9.415848982 -1.107377427 GKLS(ph)AEENPDDSEVPSSSGINSTK ddPTM_HeLa_SAHA_4h_R1 3 GKLSAEENPDDSEVPSSSGINSTK 24 1 A0A494C1S7;Q9Y5Q9-2;Q9Y5Q9 A0A494C1S7 GTF3C3 General transcription factor 3C polypeptide 3 1 0 GKLS(0.8)AEENPDDS(0.073)EVPS(0.092)S(0.028)S(0.007)GINSTK;GKLS(1)AEENPDDSEVPSSSGINSTK;GKLS(1)AEENPDDSEVPSSSGINSTK ;; 108.31 1.19E-05 194016000 6199.5 6367.9 5646.8 6250.6 7655.1 7536.8 7342.7 7242.2 5816 6362.8 TRUE FALSE FALSE 6851.591854 6574.224138 6416.316497 6371.589402 7068.567892 6894.622239 6516.480071 7056.955011 5775.525982 6637.131447 1.032312213 0.990521913 0.966730364 0.959991444 1.06500345 1.038795494 0.981821759 1.063253767 0.870184059 1 12.69634413 -4.239028236 23.11698423 1.010187597 1.063253927 0.033928592 0.054421514 2702.573107 2787570.307 0.004539336 0.26646326 5.77E-05 4.239028236 0.05306633 GKLSAEENPDDS(ph)EVPSSSGINSTK ddPTM_HeLa_SAHA_4h_R1 1 GKLSAEENPDDSEVPSSSGINSTK 24 1 A0A494C1S7;Q9Y5Q9-2;Q9Y5Q9 A0A494C1S7 GTF3C3 General transcription factor 3C polypeptide 3 1 0 GKLS(0.452)AEENPDDS(0.548)EVPSSSGINSTK 87.991 7.63E-05 18656000 3402.6 3444.3 2849.6 3958.8 3809.6 4355.1 4117.4 4460.4 3660.2 3825.9 TRUE FALSE FALSE 3760.50108 3555.89758 3237.928648 4035.428299 3517.709271 3984.020979 3654.099316 4346.309427 3634.72837 3990.853273 0.942279964 0.891011856 0.811337433 1.011169297 0.881442897 0.998288012 0.915618557 1.089067708 0.910764722 1 11.96248152 -4.2519717 24.35700632 0.951348217 1.089067814 0.321045281 0.06267776 891.5398411 2293549.544 0.008777485 0.146173939 5.60E-05 4.2519717 0.137719597 TEPLTPNPASK(ac)KPR ddPTM_HeLa_SAHA_4h_R1 1 TEPLTPNPASKKPR 14 2 H3BTW3;Q3L8U1-2;Q3L8U1-3;Q3L8U1 H3BTW3 CHD9 Chromodomain-helicase-DNA-binding protein 9 0 1 TEPLTPNPASK(0.584)K(0.416)PR 102.9 0.0048624 2606800 226.68 549.28 597.11 928.36 1353.9 1381.2 1431 1329.8 444.6 391.46 FALSE TRUE FALSE 250.5232424 567.0770324 678.4810412 946.3297502 1250.164474 1263.51399 1269.980114 1295.785642 441.5059924 408.3377564 0.613519662 1.388745037 1.661568225 2.317517142 3.061594122 3.094286457 3.110121692 3.173318218 1.081227453 1 8.67361916 -6.307082582 1.143542856 0.820381347 3.169837867 0.968630423 0.170469982 0.055025519 0.142318064 0.033522313 0.065756763 4.93E-07 6.307082582 2.349456521 up GKPPS(ph)PTPWSGSNMK ddPTM_HeLa_SAHA_4h_R1 2 GKPPSPTPWSGSNMK 15 1 Q9Y6R9-2;Q9Y6R9 Q9Y6R9-2 CCDC61 Coiled-coil domain-containing protein 61 1 0 GKPPS(0.997)PT(0.003)PWSGSNMK;GKPPS(0.991)PT(0.009)PWSGSNMK ; 130.95 0.00015321 9202400 2895.5 2752.6 2539.6 2901.6 3439.9 3255.4 3269.8 3139.2 3352.9 3493.4 TRUE FALSE FALSE 3200.061975 2841.786046 2885.683462 2957.764664 3176.335605 2978.021606 2901.873498 3058.90381 3329.566896 3644.01757 0.878168646 0.77984971 0.791896144 0.811676839 0.871657599 0.817235798 0.796339052 0.839431685 0.913707695 1 11.8313142 -8.304117504 0.720171155 0.990475777 0.815446214 0.664783809 0.037366176 0.176573051 0.196877941 0.01416812 0.007847336 4.96E-09 8.304117504 -0.175029563 GKS(ph)EEELEASK ddPTM_HeLa_SAHA_4h_R1 2 GKSEEELEASK 11 1 Q7RTP6;J3QR21;A0A5F9ZHV5 Q7RTP6 MICAL3 Protein-methionine sulfoxide oxidase MICAL3 1 0 GKS(1)EEELEASK;GKS(1)EEELEASK ; 152.16 0.0019687 12809600 3840.4 3523.7 3359.1 4207.5 4457.9 5519.9 5344.4 4943.2 4778.8 4721.9 TRUE FALSE FALSE 4244.350892 3637.870192 3816.860655 4288.942247 4116.336665 5049.573466 4743.034046 4816.760102 4745.543942 4925.484217 0.861712413 0.73858123 0.774920898 0.870765605 0.835722232 1.02519331 0.962957922 0.977926208 0.963467495 1 12.26604985 -5.253286459 24.45649512 0.895289636 0.986119023 0.293724248 0.078782065 701.5331604 2104395.369 0.014101424 0.035260188 5.58E-06 5.253286459 0.090829387 GKTANS(ph)PGSGARPDPVR ddPTM_HeLa_SAHA_4h_R1 1 GKTANSPGSGARPDPVR 17 2 Q13206;A0A3B3ISR7;E9PIF2 Q13206 DDX10 Probable ATP-dependent RNA helicase DDX10 1 0 GKT(0.027)ANS(0.973)PGS(0.001)GARPDPVR 75.608 0.0089562 2342500 1495.2 1043.2 1406.6 1279.9 1396 1076.6 1392.9 1444.6 1186.4 1353.3 TRUE FALSE FALSE 1652.471996 1077.000364 1598.284123 1304.674315 1289.038782 984.8676232 1236.167226 1407.649224 1178.143746 1411.647386 1.170598276 0.76293866 1.132212009 0.924221111 0.913145021 0.697672544 0.875691223 0.997167733 0.834587842 1 10.46316405 -6.314155197 0.990822257 1.069074149 0.857033668 0 0.146697609 0.474673058 0.923955594 0.023977676 0.049404009 4.85E-07 6.314155197 -0.212040481 RKGAGVPACTPCK(ac)QPR ddPTM_HeLa_SAHA_4h_R1 1 RKGAGVPACTPCKQPR 16 3 Q9UF56 Q9UF56 FBXL17 F-box/LRR-repeat protein 17 0 1 RKGAGVPACTPCK(1)QPR 59.709 0.013909 554170 193.31 387.22 431.59 727.07 803.53 1040.4 1123.9 956.39 150.29 179.96 FALSE TRUE FALSE 213.6432327 399.7661821 490.4048376 741.1434912 741.963705 951.7520669 997.4358141 931.9269286 149.2441197 187.7189563 1.138101537 2.129599429 2.612441744 3.948154762 3.952524133 5.070090339 5.3134528 4.964479598 0.795040216 1 7.552430534 -6.294468154 0.781663091 0.994838945 5.249557322 0.979579313 0.241048873 0.052328977 0.062999209 0.045124161 0.104882785 5.08E-07 6.294468154 4.254718377 up GKVQFQGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 GKVQFQGKK 9 2 P05455 P05455 SSB Lupus La protein 0 1 ; GKVQFQGK(1)K;GKVQFQGK(1)K 105.52 0.0025756 18156000 7191.1 6444.9 21810.7 15744.6 14125 2984.9 18571.8 2395.8 216.283 2015.04 FALSE TRUE FALSE 7947.492892 6653.718989 24782.94861 16049.3595 13042.74555 2730.569727 16482.05219 2334.518905 214.777869 2101.918236 3.781066626 3.16554606 11.790634 7.635577458 6.205163136 1.299084656 7.841433556 1.110661141 0.102181838 1 11.03749083 -7.850749464 1.051407516 1.669153806 5.778666396 0.275584574 3.098912883 0.461265161 1.075930202 0.77948014 0.682593373 1.41E-08 7.850749464 4.109512591 GKYFVTFPYPYMNGR ddPTM_HeLa_SAHA_4h_R1 2 GKYFVTFPYPYMNGR 15 1 A0A6I8PL42;B4DER1;A0A6I8PIT3;A0A6I8PIV1;Q9P2J5;A0A6I8PLB8;A0A6I8PTV8;A0A6I8PIP7;A0A6I8PRU9 A0A6I8PL42 LARS "Leucine--tRNA ligase, cytoplasmic" 0 0 ; ; 93.823 0.0074893 1937400 1104.28 882.17 1269.44 1259.81 1049.86 967.45 1176.55 510.93 567.32 1061.33 FALSE FALSE TRUE 1220.433237 910.7528868 1442.432672 1284.195444 969.4199536 885.0178173 1044.161497 497.8611504 563.3719739 1107.08913 1.10238029 0.822655432 1.30290564 1.159974756 0.875647612 0.799409725 0.94315938 0.449702862 0.5088768 1 10.11255566 -3.988870433 0.83943758 1.051311682 1.86E-12 0.237284149 0.22352188 1.852072296 0.702792103 0.02224678 2.000956557 0.000102596 3.988870433 -1.051311682 GLAAEDS(ph)GGDSKDLSEVSETTESTDVK ddPTM_HeLa_SAHA_4h_R1 1 GLAAEDSGGDSKDLSEVSETTESTDVK 27 1 P41227;P41227-2 P41227 NAA10 N-alpha-acetyltransferase 10 1 0 GLAAEDS(0.512)GGDS(0.441)KDLS(0.046)EVSETTESTDVK 67.655 0.00051286 21797000 1279.5 1501.3 1265.9 1394.3 1876.2 1963.3 1797.8 1653.5 2344.9 1526.1 TRUE FALSE FALSE 1414.083681 1549.943105 1438.410259 1421.288693 1732.445961 1796.015795 1595.506812 1611.205864 2328.58165 1591.89764 0.888300633 0.973644955 0.90358213 0.892826685 1.088289798 1.128223166 1.002267214 1.012129062 1.462770967 1 10.63653186 -5.755817301 24.99999804 0.941183328 1.058801305 0 0.171516473 89.26502432 396935.3896 0.008357992 0.016352061 1.75E-06 5.755817301 0.117617977 GLAEVQQDGEAEEGAT(ph)SDGEKKR ddPTM_HeLa_SAHA_4h_R1 2 GLAEVQQDGEAEEGATSDGEKKR 23 2 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 GLAEVQQDGEAEEGAT(0.601)S(0.399)DGEKKR;GLAEVQQDGEAEEGAT(0.5)S(0.5)DGEKKR ; 93.667 0.00098161 31070000 2721.2 2921.2 2902.4 2620 2785.7 2545.1 2743.7 2705.8 2326.7 2590.5 TRUE FALSE FALSE 3007.428301 3015.848797 3297.923957 2670.713889 2572.260268 2328.243162 2434.971655 2636.589554 2310.508305 2702.189133 1.112959957 1.116076133 1.220463778 0.988351946 0.951917183 0.861613694 0.901110742 0.975723543 0.85505055 1 11.39991294 -5.904957271 3.446278046 1.072711656 0.916018209 0.318444116 0.093324185 0.15533106 3.648713376 0.011188298 0.021158055 1.24E-06 5.904957271 -0.156693446 GLAEVQQDGEAEEGATS(ph)DGEKKR ddPTM_HeLa_SAHA_4h_R1 2 GLAEVQQDGEAEEGATSDGEKKR 23 2 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 GLAEVQQDGEAEEGAT(0.278)S(0.722)DGEKKR;GLAEVQQDGEAEEGAT(0.197)S(0.803)DGEKKR ; 85.805 0.0002796 32812000 2908.4 2733.4 3074.7 2804.5 2835.7 3043.4 3392.4 3238.3 2484 2718.4 TRUE FALSE FALSE 3214.318856 2821.963953 3493.704104 2858.785153 2618.429279 2784.085198 3010.678224 3155.468975 2466.713642 2835.603528 1.133557222 0.995189887 1.232084835 1.0081752 0.923411631 0.981831618 1.061741599 1.112803304 0.869907805 1 11.46944011 GLAGPPAS(ph)PGK ddPTM_HeLa_SAHA_4h_R1 4 GLAGPPASPGK 11 0 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 GLAGPPAS(1)PGK;GLAGPPAS(1)PGK;GLAGPPAS(1)PGK;GLAGPPAS(1)PGK ;;; 140.45 0.00089646 253215000 17746.8 23132.4 17628.8 20446 24074.1 22991.1 23673.8 19036.2 26403.7 19982.6 TRUE FALSE FALSE 19613.48985 23881.90494 20031.16106 20841.7619 22229.54766 21032.12894 21009.96172 18549.28157 26219.9545 20844.14768 0.940959072 1.145736698 0.960996888 0.999885542 1.066464698 1.009018419 1.007954945 0.889903576 1.257904852 1 14.34735476 -1.645501732 14.64820119 0.990112576 0.162306191 0 0.107673536 0 0 0.008647398 0 0.022620295 1.645501732 -0.827806385 GLAITFVSDENDAK ddPTM_HeLa_SAHA_4h_R1 1 GLAITFVSDENDAK 14 0 O00148;Q13838;Q13838-2;H0Y400;A0A0G2JJZ9 O00148;Q13838 DDX39A;DDX39B ATP-dependent RNA helicase DDX39A;Spliceosome RNA helicase DDX39B 0 0 184.31 6.32E-16 932380 0 56.001 0 0 0 163.67 134.08 70.655 147.51 0 FALSE FALSE TRUE 0 57.81546914 0 0 0 149.7243952 118.9929655 68.84774741 146.4834659 0 0 GLALALFGGEPK ddPTM_HeLa_SAHA_4h_R1 2 GLALALFGGEPK 12 0 P49736;H0Y8E6 P49736 MCM2 DNA replication licensing factor MCM2 0 0 ; ; 174.41 1.18E-10 3277100 600.86 589.58 692.55 566.9 683.84 384.43 1095.02 283.62 418.27 488.34 FALSE FALSE TRUE 664.0612116 608.6827788 786.9271074 577.8731693 631.4443269 351.6744013 971.8054677 276.3654111 415.359225 509.3947273 1.303627965 1.19491378 1.544827744 1.134430999 1.239597297 0.690376995 1.90776507 0.542536851 0.815397574 1 8.992640216 -4.013635092 21.32105723 1.191217694 0.210484408 0.265225473 0.329445236 1179.795555 5824.368744 0.038205005 19175.06769 9.69E-05 4.013635092 -0.980733286 GLANPEPAPEPKLS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 GLANPEPAPEPKLSR 15 1 O15027-4;A0A3F2YNZ0 O15027-4 SEC16A Protein transport protein Sec16A 1 0 GLANPEPAPEPKLS(1)R 71.872 0.014604 5327100 1654.8 1548.5 1920.2 935.29 1354.2 1329.1 1502.5 1291.5 1041.3 1484.2 TRUE FALSE FALSE 1828.859456 1598.672416 2181.874856 953.3938904 1250.441489 1215.853203 1333.434746 1258.4653 1034.053509 1548.191125 1.181287908 1.032606627 1.40930588 0.615811494 0.807679018 0.785337923 0.861285615 0.812861719 0.667910758 1 10.59636787 -6.245681455 24.9963614 1.105034701 0.783512776 0.354024997 0.184762575 421.0676201 667928.0601 0.019064812 0.031544223 5.68E-07 6.245681455 -0.321521926 GLAVFISDIR ddPTM_HeLa_SAHA_4h_R1 1 GLAVFISDIR 10 0 O95782-2;O95782;M0R2D9;E9PR62;O94973-3;O94973;O94973-2 O95782-2 AP2A1;AP2A2 AP-2 complex subunit alpha-1;AP-2 complex subunit alpha-2 0 0 109.01 0.011886 159610 146.09 62.26 245.03 161.54 169.19 136.17 189.96 0 0 0 FALSE FALSE TRUE 161.4564165 64.27726485 278.4214123 164.6668403 156.2266988 124.5675499 168.5852009 0 0 0 0 GLDDDRGPWR ddPTM_HeLa_SAHA_4h_R1 3 GLDDDRGPWR 10 1 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 ;; ;; 104.01 0.011366 19100500 8542.5 9578.9 8230.6 9486.9 10411.7 10988.9 10307.5 8272.7 10684.1 9747.5 FALSE FALSE TRUE 9441.039344 9889.262645 9352.223305 9670.532668 9613.957795 10052.5839 9147.672972 8061.096313 10609.74848 10167.76243 0.928526744 0.972609531 0.919791682 0.951097425 0.945533284 0.988672185 0.899674145 0.79280927 1.043469353 1 13.31171461 -4.377529724 2.67848544 0.961293122 0.779578889 0.697077191 0.035475409 0.136757562 1.480041294 0.004325604 0.048267456 4.19E-05 4.377529724 -0.181714233 GLDDTEEPS(ph)PPEDK ddPTM_HeLa_SAHA_4h_R1 2 GLDDTEEPSPPEDK 14 0 O94806;O94806-2 O94806 PRKD3 Serine/threonine-protein kinase D3 1 0 GLDDTEEPS(1)PPEDK;GLDDTEEPS(1)PPEDK ; 242.07 4.99E-33 9944800 2743.2 3122.4 2630.5 2641.78 3015.5 3173.4 2921.2 2820 3206.9 2646.3 TRUE FALSE FALSE 3031.742362 3223.567809 2988.970841 2692.915472 2784.453041 2903.008467 2592.498888 2747.868483 3184.582922 2760.394944 1.098300216 1.167792245 1.082805505 0.975554414 1.008715455 1.051664173 0.939176799 0.995462077 1.153669307 1 11.43065898 -6.26029171 24.93435991 1.061113395 0.995070843 0.387717914 0.056946816 120.2637279 2612851.439 0.009252075 0.014794485 5.49E-07 6.26029171 -0.066042552 GLDEDETNFLDEVSR ddPTM_HeLa_SAHA_4h_R1 2 GLDEDETNFLDEVSR 15 0 H3BU93;Q9GZU8;H3BQQ6;H3BTI2;H3BTP8;H3BSY6;H3BP64;H3BUL4;H3BMX9 H3BU93 FAM192A Protein FAM192A 0 0 ; ; 262.48 1.04E-43 5903800 1465.18 1554.33 1317.3 1453.24 1704.07 1682.17 1523.54 1558.43 1611.91 1399.38 FALSE FALSE TRUE 1619.294355 1604.691312 1496.814784 1481.369562 1573.504525 1538.839652 1352.107269 1518.567617 1600.692587 1459.71412 1.109322937 1.099318894 1.02541639 1.014835399 1.077953897 1.054206184 0.926282243 1.040318509 1.096579505 1 10.51147013 -4.801223838 24.13069504 1.053580927 0.983300383 0.318874288 0.043943093 99.5100411 60356.25727 0.007033573 0.021101312 1.58E-05 4.801223838 -0.070280545 GLDEDRGSWR ddPTM_HeLa_SAHA_4h_R1 1 GLDEDRGSWR 10 1 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 119.22 0.0048182 6167700 3939.9 2924.2 4014.9 4120.1 3940.5 3175.4 4388.9 3110.1 2373.5 3155.8 FALSE FALSE TRUE 4354.316759 3018.945999 4562.029663 4199.850493 3638.579741 2904.838056 3895.049421 3030.548145 2356.98262 3291.861982 1.322751921 0.917093735 1.385850831 1.275828244 1.105325728 0.882430087 1.183235944 0.920618228 0.716002868 1 11.68468813 -5.514331889 23.70285686 1.164599035 1.010820357 0.002063433 0.207430588 302.4193527 838691.0518 0.02431835 0.050704247 3.06E-06 5.514331889 -0.153778678 GLDEEATPGT(ph)PGDPARPPASK ddPTM_HeLa_SAHA_4h_R1 1 GLDEEATPGTPGDPARPPASK 21 1 Q7Z7A3 Q7Z7A3 CTU1 Cytoplasmic tRNA 2-thiolation protein 1 1 0 GLDEEAT(0.175)PGT(0.825)PGDPARPPASK 79.762 0.0016157 5566800 1390.1 1604.9 1546.7 1480.4 1677.3 1997.1 1465.2 1384.2 1640 1895.8 TRUE FALSE FALSE 1536.317096 1656.899813 1757.476221 1509.055283 1548.785636 1826.935845 1300.33184 1348.794168 1628.587106 1977.537216 0.776884037 0.837860243 0.88871967 0.763098298 0.783189122 0.923843976 0.657551135 0.68205754 0.823543089 1 10.94948913 -13.52287875 0.1832745 1.913305625 0.73821196 0.165371814 0.09122405 31.87830134 0.369627432 10.42716539 0.099933536 3.00E-14 13.52287875 -1.175093665 GLDIESYDS(ph)LERPLR ddPTM_HeLa_SAHA_4h_R1 1 GLDIESYDSLERPLR 15 1 Q9H792 Q9H792 PEAK1 Pseudopodium-enriched atypical kinase 1 1 0 GLDIES(0.033)YDS(0.967)LERPLR 80.738 0.0087496 1607700 336.58 639.14 455.3 610.83 605.15 690.71 508.28 454.6 784.22 536.13 TRUE FALSE FALSE 371.9830287 659.8485554 517.3459129 622.6534979 558.7835377 631.8576222 451.0869967 442.9719903 778.7625492 559.2451881 0.665151952 1.179891342 0.925078881 1.11338195 0.999174512 1.12984007 0.806599692 0.792089051 1.392524363 1 9.127337128 -7.263834774 24.99976626 0.841877315 0.99277852 0 0.225244772 312.1410037 3257682.182 0.028859674 0.033833196 5.45E-08 7.263834774 0.150901204 GLDIESYDS(ph)LERPLRK ddPTM_HeLa_SAHA_4h_R1 2 GLDIESYDSLERPLRK 16 2 Q9H792 Q9H792 PEAK1 Pseudopodium-enriched atypical kinase 1 1 0 GLDIES(0.113)Y(0.001)DS(0.887)LERPLRK;GLDIES(0.014)YDS(0.986)LERPLRK ; 67.902 0.010199 29406000 7374.7 6884.2 7699.5 8315.1 8533.4 8579.8 8883.5 7016.7 7536.5 7454.3 TRUE FALSE FALSE 8150.404782 7107.252597 8748.747763 8476.050784 7879.572736 7848.752771 7883.9052 6837.222974 7484.052883 7775.691353 1.048190368 0.914034814 1.125140822 1.090070374 1.013359762 1.009396131 1.013916942 0.879307403 0.962493564 1 12.92475524 -4.223116588 3.016370964 1.026062723 0.847622482 0.352007889 0.056696235 0.359955648 4.375182629 0.007246463 0.160121638 5.98E-05 4.223116588 -0.178440241 GLDS(ph)GAETEEEKDTWEEK ddPTM_HeLa_SAHA_4h_R1 3 GLDSGAETEEEKDTWEEK 18 1 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 GLDS(0.997)GAET(0.003)EEEKDTWEEK;GLDS(0.89)GAET(0.11)EEEKDTWEEK;GLDS(0.98)GAET(0.02)EEEKDTWEEK ;; 89.483 0.0019499 22690000 3171.33 3380.5 2569.47 3378.01 3667.43 4363.6 4040.95 4383.1 3846.83 3374.5 TRUE FALSE FALSE 3504.90504 3490.030418 2919.62399 3443.396268 3386.432306 3991.796731 3586.251671 4270.986649 3820.059597 3519.991209 0.995714146 0.99148839 0.829440705 0.978240019 0.962057035 1.134035994 1.018824042 1.21335151 1.085246914 1 11.78135611 -3.553502823 0.825738919 0.983239866 1.705221364 0.462364701 0.072533829 4.052237617 0.878460461 0.010290167 3.534431267 0.000279574 3.553502823 0.721981498 GLDSGAET(ph)EEEKDTWEEK ddPTM_HeLa_SAHA_4h_R1 1 GLDSGAETEEEKDTWEEK 18 1 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 GLDS(0.334)GAET(0.664)EEEKDT(0.002)WEEK 81.651 0.0066715 5754400 754.45 889.94 786.4 812.31 1129.1 1055.2 1053.1 1213 1036.7 913.28 TRUE FALSE FALSE 833.8065125 918.7746399 893.5664966 828.0334347 1042.588602 965.2910236 934.6024164 1181.973216 1029.48552 952.6559703 0.875244095 0.964434873 0.937973964 0.869184113 1.094402003 1.013262976 0.981049241 1.240713598 1.080647739 1 9.895811502 -1.000000034 0.725435685 0.942675525 42.30950118 0.478509553 0.076205384 163.9614022 0.734335375 0.011307195 11059.28716 0.099999992 1.000000034 41.36682566 GLDSSSTAPS(ph)ALGER ddPTM_HeLa_SAHA_4h_R1 2 GLDSSSTAPSALGER 15 0 J3QL46;J3KTM2;O15534-4;O15534 J3QL46 PER1 Period circadian protein homolog 1 1 0 GLDS(0.001)S(0.003)S(0.007)T(0.016)APS(0.974)ALGER;GLDS(0.001)S(0.024)S(0.149)T(0.149)APS(0.677)ALGER ; 138.28 0.00017294 16497800 4602 4232.7 5870.5 5052.7 6528.9 6298.1 6430.6 6497.3 3701.1 4581 TRUE FALSE FALSE 5086.059475 4369.842257 6670.501168 5150.502315 6028.657092 5761.466448 5707.011964 6331.108474 3675.343744 4778.509329 1.064361106 0.914478126 1.395937668 1.077847077 1.261618776 1.205703715 1.194308009 1.324912863 0.769140226 1 12.22234492 -6.770767665 24.99994531 1.022548361 1.232748277 0.58197782 0.118454109 95.66056138 256371.4675 0.012931665 0.017122219 1.70E-07 6.770767665 0.210199916 GLDVEDVK ddPTM_HeLa_SAHA_4h_R1 1 GLDVEDVK 8 0 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;P17844-2;P17844;J3KTA4 A0A1X7SBZ2;P17844-2 DDX17;DDX5 Probable ATP-dependent RNA helicase DDX17;Probable ATP-dependent RNA helicase DDX5 0 0 100.15 0.015039 1202500 798.48 707 887.56 1004.8 1124.1 1269.8 859.57 935.67 1202.2 1104.2 FALSE FALSE TRUE 882.46779 729.9072639 1008.512055 1024.249357 1037.971701 1161.605896 762.8489213 911.7369162 1193.833792 1151.807466 0.766159116 0.633705967 0.87559083 0.889253966 0.901167714 1.008507004 0.662305936 0.791570591 1.036487284 1 10.16968386 -9.342672338 1.11347909 0.998087729 0.815498871 0.354101705 0.107600477 0.52001604 1.172113624 0.071758022 0.019622142 4.54E-10 9.342672338 -0.182588858 GLEANAPAFDRHMVLLK ddPTM_HeLa_SAHA_4h_R1 1 GLEANAPAFDRHMVLLK 17 1 H0YEV8;A0A1W2PR85;O15056-3;O15056-2;O15056 H0YEV8 SYNJ2 Synaptojanin-2 0 0 119.53 0.0011106 5747300 0 0 129.99 206.19 240.24 332.49 511.39 194.15 0 0 FALSE FALSE TRUE 0 0 147.7043602 210.1811056 221.8328631 304.1599815 453.8470513 189.1839241 0 0 0 GLEATAS(ph)PGLLK ddPTM_HeLa_SAHA_4h_R1 1 GLEATASPGLLK 12 0 H0YFS7;E7EW59;F5H433;Q9Y467 H0YFS7 SALL2 Sal-like protein 2 1 0 GLEAT(0.024)AS(0.976)PGLLK 93.442 0.010422 4205000 1034.3 1039.2 1163.2 1434.8 1253.2 1575.7 1230.7 1285.6 1030.6 1175.2 TRUE FALSE FALSE 1143.09242 1072.870762 1321.714838 1462.572629 1157.180087 1441.441495 1092.218397 1252.716214 1023.427971 1225.868623 0.932475469 0.875192285 1.078186368 1.193090843 0.943967457 1.175853161 0.890975082 1.021900871 0.834859422 1 10.25958866 -6.735261972 24.96728363 0.960253357 1.050718553 0.271716214 0.09986877 279.6457055 266717.6381 0.014086291 0.019917463 1.84E-07 6.735261972 0.090465196 GLECSDWKPEAGLS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 1 GLECSDWKPEAGLSPPR 17 1 S4R419;S4R3M9;O75764-2;O75764 S4R419 TCEA3 Transcription elongation factor A protein 3 1 0 GLECSDWKPEAGLS(1)PPR 70.501 0.010863 20524000 3189 3592 3021.6 3630.5 4105 4224 4102.7 3880.8 4259.4 3540.9 TRUE FALSE FALSE 3524.433652 3708.383157 3433.367912 3700.773577 3790.475787 3864.091436 3641.053398 3781.534755 4229.758489 3693.565528 0.95420905 1.004011741 0.929553811 1.001951515 1.02623759 1.046168372 0.985782808 1.023816886 1.145169473 1 11.85079846 -6.00731152 23.68701541 0.976347318 1.019134842 0 0.058669383 138.4702602 448604.9237 0.003876399 0.006816491 9.83E-07 6.00731152 0.042787525 GLEGERPAR ddPTM_HeLa_SAHA_4h_R1 1 GLEGERPAR 9 1 P46783;A0A2R8Y6L3;F6U211;A0A2R8Y7H1;S4R435;A0A2R8YFH6;A0A1W2PQS6 P46783 RPS10;RPS10-NUDT3 40S ribosomal protein S10 0 0 104.01 0.012299 12469000 1388.3 1216.4 1108.2 1448.5 1300.9 1116.4 1295.9 1272.2 1170.8 1233.9 FALSE FALSE TRUE 1534.327764 1255.812158 1259.219725 1476.537812 1201.225323 1021.276439 1150.081921 1239.658966 1162.652307 1287.099468 1.192081733 0.975691615 0.978339092 1.147182366 0.933280879 0.793471262 0.893545488 0.963141542 0.903311933 1 10.32990783 -5.613888362 5.579546437 1.077075532 0.881139642 0.280974084 0.094395751 0.133372559 6.513325283 0.013702323 0.027760259 2.43E-06 5.613888362 -0.19593589 GLEGNANS(ph)PAHLR ddPTM_HeLa_SAHA_4h_R1 2 GLEGNANSPAHLR 13 0 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 GLEGNANS(1)PAHLR;GLEGNANS(1)PAHLR ; 100.18 0.0054225 13874000 4124.2 4265 3192.2 3669.3 4302 4716.8 4303.7 3834.5 6312.8 4012.6 TRUE FALSE FALSE 4558.002279 4403.188798 3627.216392 3740.324607 3972.381689 4314.902104 3819.436349 3736.419042 6268.868711 4185.602823 1.088971522 1.051984382 0.866593546 0.893616706 0.949058441 1.030891436 0.912517625 0.892683611 1.497721828 1 12.0312197 -6.778886932 24.99659911 1.043936028 0.928280378 0.258690268 0.150807193 145.0828707 207855.4653 0.008831042 0.011620992 1.66E-07 6.778886932 -0.115655651 GLEPS(ph)PAAVAALPPEVR ddPTM_HeLa_SAHA_4h_R1 4 GLEPSPAAVAALPPEVR 17 0 Q9P265 Q9P265 DIP2B Disco-interacting protein 2 homolog B 1 0 GLEPS(1)PAAVAALPPEVR;GLEPS(1)PAAVAALPPEVR;GLEPS(1)PAAVAALPPEVR;GLEPS(1)PAAVAALPPEVR ;;; 155.63 2.28E-05 10645100 2800.68 2870.63 2531.57 2655.55 3472.5 3505.03 3221.69 3733.17 2896.05 3003.45 TRUE FALSE FALSE 3095.268372 2963.640295 2876.559176 2706.95201 3206.4378 3206.381725 2859.176962 3637.680917 2875.896152 3132.943428 0.98797455 0.945960361 0.918165055 0.864028372 1.02345857 1.023440671 0.91261685 1.16110648 0.917953426 1 11.613303 -4.248430151 24.39219722 0.977026743 1.161106647 0.531942054 0.054584374 961.5058003 1802772.343 0.007374272 0.178334992 5.64E-05 4.248430151 0.184079904 GLESTTLADKDGEIYCK ddPTM_HeLa_SAHA_4h_R1 1 GLESTTLADKDGEIYCK 17 1 E9PP21;P21291;E9PND2 E9PP21 CSRP1 Cysteine and glycine-rich protein 1 0 0 159.41 1.38E-08 2654900 1118.9 1003.2 1016.2 801.94 1096.7 1157.1 1372.9 1251.1 1072.7 767.33 FALSE FALSE TRUE 1236.591036 1035.704338 1154.682444 817.4627083 1012.671083 1058.50857 1218.417679 1219.098674 1065.234993 800.4133515 1.54494054 1.293961846 1.442607675 1.02130069 1.265185146 1.322452416 1.522235575 1.523086379 1.330856102 1 9.644601423 -9.501626788 1.236096732 0.999022043 1.376789813 0.060396367 0.179459395 0.359034891 0.977750874 0.114921411 0.027553793 3.15E-10 9.501626788 0.377767769 GLEVTAYSPLGSSDR ddPTM_HeLa_SAHA_4h_R1 1 GLEVTAYSPLGSSDR 15 0 P14550 P14550 AKR1A1 Alcohol dehydrogenase [NADP(+)] 0 0 105.25 0.013293 658690 0 0 0 0 0 128.28 0 0 72.137 120.26 FALSE FALSE TRUE 0 0 0 0 0 117.3498223 0 0 71.63499274 125.4449971 0 0 0 0 0 0.935468333 0 0 0.571047028 1 6.970911126 -9.24249345 0.905494401 1.016746088 0.120438469 0.410563927 0.304490379 0.348823483 0.498957608 0.210572065 0.053976178 5.72E-10 9.24249345 -0.896307619 GLEYLYLNVHDEDRDDQTR ddPTM_HeLa_SAHA_4h_R1 2 GLEYLYLNVHDEDRDDQTR 19 1 Q9Y6G9;C9JGM7;C9JLW1 Q9Y6G9 DYNC1LI1 Cytoplasmic dynein 1 light intermediate chain 1 0 0 ; ; 120.63 0.00021345 17083400 5372.7 6597.1 7273.5 7984.9 7837 7805.4 8436.1 6057.8 8609.1 8049.9 FALSE FALSE TRUE 5937.825237 6810.850369 8264.694701 8139.459286 7236.530753 7140.336008 7486.847825 5902.850248 8549.188572 8396.970584 0.707138983 0.811108042 0.98424719 0.969332833 0.861802561 0.850346674 0.891612963 0.702973791 1.018127727 1 13.03565322 -9.675536064 1.552447921 0.999574064 0.832860922 0.330799072 0.089476787 0.430138427 1.874492083 0.072487779 0.016368296 2.11E-10 9.675536064 -0.166713142 GLFDEEMNEILTDPSDDTK ddPTM_HeLa_SAHA_4h_R1 1 GLFDEEMNEILTDPSDDTK 19 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 130.01 8.76E-05 1553300 580.58 498.58 540 555.64 544.21 664.23 621.6 575.3 708.42 471.09 FALSE FALSE TRUE 641.6480682 514.7343191 613.5883878 566.3952157 502.5127474 607.6338671 551.655932 560.584659 703.4900475 491.4009954 1.30575248 1.047483265 1.248651089 1.152613082 1.022612392 1.236533652 1.12261867 1.140788611 1.431600779 1 8.94075697 -9.65601746 1.50861574 1.000320535 1.178655085 0 0.158165862 0.361079249 1.48249916 0.063699572 0.014461394 2.21E-10 9.65601746 0.178334549 GLFDEYGSK ddPTM_HeLa_SAHA_4h_R1 1 GLFDEYGSK 9 0 P14625;Q58FF3 P14625;Q58FF3 HSP90B1;HSP90B2P Endoplasmin;Putative endoplasmin-like protein 0 0 106.6 0.009606 954440 609.79 710.53 658.53 744.31 781.61 789.17 622.13 957.65 814.46 569.89 FALSE FALSE TRUE 673.93051 733.5516382 748.2710389 758.7171963 721.7232107 721.9282763 552.126295 933.1546997 808.7921065 594.4607469 1.133683786 1.23397826 1.25873919 1.276311683 1.214080517 1.214425477 0.928785118 1.569749903 1.36054754 1 9.21543774 -8.03538703 0.742281674 1.016680611 1.232555092 0 0.181507117 0.540510778 0.655406826 0.048490904 0.03376423 9.22E-09 8.03538703 0.215874481 GLFIIDDK ddPTM_HeLa_SAHA_4h_R1 5 GLFIIDDK 8 0 Q06830;A0A0A0MSI0;A0A0A0MRQ5;Q13162;H7C3T4 Q06830;Q13162 PRDX1;PRDX4 Peroxiredoxin-1;Peroxiredoxin-4 0 0 ;;;; ;;;; 147.34 7.14E-05 16714550 8647.04 9781 9311.12 10990.69 11186.16 14202.65 12426.92 9271.43 13548.74 11644.52 FALSE FALSE TRUE 9556.575341 10097.91082 10579.99094 11203.4307 10329.07884 12992.50432 11028.61026 9034.280245 13454.45322 12146.57224 0.786771375 0.831338308 0.871026882 0.922353276 0.850369852 1.069643687 0.907960702 0.743771993 1.107674902 1 13.56826162 -9.59607271 1.416245629 0.999421294 0.867136778 0.35268302 0.09062981 0.492915333 1.786089658 0.060914378 0.014379215 2.53E-10 9.59607271 -0.132284516 GLFIIDDKGILR ddPTM_HeLa_SAHA_4h_R1 1 GLFIIDDKGILR 12 1 Q06830;A0A0A0MSI0;A0A0A0MRQ5;Q13162;H7C3T4 Q06830;Q13162 PRDX1;PRDX4 Peroxiredoxin-1;Peroxiredoxin-4 0 0 132.32 0.00027986 2349300 2183.4 1661.4 3596.1 3147.8 2507.2 2130 3220.7 1713.3 1154.5 2279.3 FALSE FALSE TRUE 2413.06003 1715.23045 4086.15778 3208.730221 2315.098878 1948.512017 2858.29836 1669.476267 1146.465741 2377.571778 1.014926259 0.721421101 1.718626465 1.349582903 0.973724074 0.819538672 1.202192248 0.70217702 0.482200265 1 11.21527318 -5.536530353 24.88279717 1.068018359 0.930598135 0.031191915 0.333406814 586.1980948 1068461.556 0.040920541 0.081872693 2.91E-06 5.536530353 -0.137420224 GLFIIDGK ddPTM_HeLa_SAHA_4h_R1 2 GLFIIDGK 8 0 P32119 P32119 PRDX2 Peroxiredoxin-2 0 0 ; ; 119.21 0.003858 4666000 5013.2 5422.6 6779.8 6757.8 6700.5 6574.3 8149.2 4841.8 5826.4 6729.2 FALSE FALSE TRUE 5540.511377 5598.295798 7703.715836 6888.606991 6187.109138 6014.132654 7232.230568 4717.953767 5785.853608 7019.328744 0.78932211 0.797554296 1.097500362 0.981376887 0.881438862 0.856795981 1.030330795 0.672137456 0.824274488 1 12.77711736 -4.242149307 24.10508249 0.912624263 0.672137099 0.349031854 0.100366817 2699.013085 3372631.721 0.015242642 0.715975919 5.73E-05 4.242149307 -0.240487164 GLFITIHDR ddPTM_HeLa_SAHA_4h_R1 2 GLFITIHDR 9 0 P48163;P48163-2 P48163 ME1 NADP-dependent malic enzyme 0 0 ; ; 104.2 0.0022006 2540560 1750.58 2154.8 2796.1 2826.2 2933.5 2355.7 2756.4 1550.59 1682.3 2269.9 FALSE FALSE TRUE 1934.714036 2224.616934 3177.137947 2880.905188 2708.735864 2154.981107 2446.242618 1510.928153 1670.592737 2367.766498 0.817105081 0.939542365 1.341829082 1.216718452 1.144004642 0.910132443 1.033143522 0.638123799 0.705556371 1 11.2093111 -3.157171413 13.98208076 0.968183514 1.008584536 0 0.210345704 0 0 0.027245045 0 0.000696352 3.157171413 0.040401022 GLFQDEDS(ph)CSDCSYR ddPTM_HeLa_SAHA_4h_R1 3 GLFQDEDSCSDCSYR 15 0 Q8NEM2 Q8NEM2 SHCBP1 SHC SH2 domain-binding protein 1 1 0 GLFQDEDS(0.714)CS(0.209)DCS(0.078)YR;GLFQDEDS(0.85)CS(0.149)DCS(0.001)YR;GLFQDEDS(0.812)CS(0.186)DCS(0.002)YR ;; 226.74 1.30E-24 19483200 2654.3 2481.52 2512.46 2661.35 3125.56 3222.17 3071.52 3200.54 2707.92 2324.05 TRUE FALSE FALSE 2933.491452 2561.922876 2854.844964 2712.864278 2886.080268 2947.622989 2725.904486 3118.674821 2689.075364 2424.251169 1.210060859 1.056789374 1.1776193 1.119052478 1.190503816 1.215890097 1.124431544 1.286448723 1.109239586 1 11.24332346 -13.04524892 0.282066056 1.55E-13 1.188322281 0.272553923 0.067923361 19.25691387 0.332620635 10.76079539 0.026810641 9.01E-14 13.04524892 1.188322281 GLFQDEDSCS(ph)DCSYR ddPTM_HeLa_SAHA_4h_R1 1 GLFQDEDSCSDCSYR 15 0 Q8NEM2 Q8NEM2 SHCBP1 SHC SH2 domain-binding protein 1 1 0 GLFQDEDS(0.037)CS(0.963)DCSYR 173.77 5.67E-07 5548800 334.78 349.64 274.09 352.87 496.71 389.69 443.73 488.23 218.99 262.34 TRUE FALSE FALSE 369.9936964 360.9685654 311.4415578 359.7003091 458.6521871 356.4862197 393.8003326 475.7417835 217.4660308 273.6507613 1.352065292 1.319084821 1.138098635 1.314450241 1.676049374 1.302705017 1.43906171 1.738499763 0.794684545 1 8.09619206 -5.367120923 0.048828836 4.91E-13 2.896693974 0.658749791 0.157543286 72.74450445 0.863683209 20.24715047 31.60285016 4.29E-06 5.367120923 2.896693974 GLFS(ph)DEEDSEDLFSSQSASK ddPTM_HeLa_SAHA_4h_R1 4 GLFSDEEDSEDLFSSQSASK 20 0 E7ESD2;Q641Q2-2;Q641Q2;F8W7U3;A0A087WYF6 E7ESD2 FAM21A WASH complex subunit FAM21A 1 0 GLFS(1)DEEDSEDLFSSQSASK;GLFS(1)DEEDSEDLFSSQSASK;GLFS(1)DEEDSEDLFSSQSASK;GLFS(1)DEEDSEDLFSSQSASK ;;; 183.07 2.48E-10 18702100 5670.92 5999.35 6005.85 6789.49 7147.1 7530.1 7239.9 6618.2 7577.3 6709.87 TRUE FALSE FALSE 6267.413385 6193.732876 6824.295961 6920.910397 6599.490742 6888.493117 6425.247398 6448.916027 7524.568952 6999.165333 0.895451541 0.884924499 0.975015682 0.98881939 0.942896821 0.984187798 0.918001946 0.921383582 1.075066611 1 12.77296717 -6.072746242 0.005146735 1.878685776 3.22E-06 0.118899177 0.051251287 21773.83635 39.52965931 7103.513443 7325.420861 8.46E-07 6.072746242 -1.878682557 GLFS(ph)DEEDSEDLFSSQSASNLK ddPTM_HeLa_SAHA_4h_R1 2 GLFSDEEDSEDLFSSQSASNLK 22 0 A0A0A0MR88;A0A096LPC5;Q9Y4E1-6;Q9Y4E1;J3KP36;Q9Y4E1-3;Q9Y4E1-2;Q9Y4E1-1;Q9Y4E1-5 A0A0A0MR88 FAM21C WASH complex subunit FAM21C 1 0 GLFS(1)DEEDSEDLFSSQSASNLK;GLFS(1)DEEDSEDLFSSQSASNLK ; 182.21 3.53E-11 18854700 4066.8 3817.6 3734 3926.9 4597.4 4981.2 4484.7 4177.3 4513.2 4533.3 TRUE FALSE FALSE 4494.564683 3941.292745 4242.850074 4002.910828 4245.148205 4556.773737 3980.069753 4070.450715 4481.792274 4728.752748 0.950475722 0.833474058 0.897245066 0.846504573 0.897731057 0.963631211 0.84167432 0.860787385 0.947774712 1 12.20724399 -7.506723738 3.030992533 0.980412582 0.87966562 0.523800157 0.038399554 0.126512085 2.330642865 0.007034994 0.007671906 3.11E-08 7.506723738 -0.100746963 GLGACTLLGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 GLGACTLLGSPR 12 0 K7ER53;O95644-8;O95644-11;O95644-3;O95644-10;O95644-2;O95644-5;O95644-4;O95644-6;O95644 K7ER53 NFATC1 "Nuclear factor of activated T-cells, cytoplasmic 1" 1 0 GLGACTLLGS(1)PR 111.5 0.0028131 1783200 560.49 830.16 626.12 636.47 955.22 708.79 922.63 779.98 792.69 913.8 TRUE FALSE FALSE 619.4449098 857.0577287 711.4443729 648.7897972 882.03125 648.3971045 818.8132442 760.029241 787.1736057 953.19839 0.649859375 0.899138876 0.74637597 0.680645083 0.925338586 0.680233109 0.859016604 0.797346333 0.825823474 1 9.896632705 -9.540132024 1.292582749 1.000462852 0.767163112 0.126129074 0.103800113 0.311283933 0.928520571 0.063778883 0.015044296 2.88E-10 9.540132024 -0.23329974 GLGHPPS(ph)SPLLK ddPTM_HeLa_SAHA_4h_R1 2 GLGHPPSSPLLK 12 0 M0QXA7;A0A669KBH9;A0A669KAV7;O95785-3;B9EGQ5;A0A669KBG4;A0A2R8YFV2;O95785-4;O95785 M0QXA7 WIZ Protein Wiz 1 0 GLGHPPS(0.984)S(0.016)PLLK;GLGHPPS(0.977)S(0.023)PLLK ; 116.98 0.0013278 4464100 8814.5 8360.1 6930.2 9749.8 9652.6 10569.7 9881.5 11185.6 10529.8 9268.2 TRUE FALSE FALSE 9741.649552 8630.972725 7874.611565 9938.521477 8913.019873 9669.102096 8769.607613 10899.48855 10456.52226 9667.797459 1.007638978 0.892754814 0.814519708 1.028002657 0.921928693 1.000134947 0.907094677 1.127401416 1.081582678 1 13.23897153 GLGHPPSS(ph)PLLK ddPTM_HeLa_SAHA_4h_R1 2 GLGHPPSSPLLK 12 0 M0QXA7;A0A669KBH9;A0A669KAV7;O95785-3;B9EGQ5;A0A669KBG4;A0A2R8YFV2;O95785-4;O95785 M0QXA7 WIZ Protein Wiz 1 0 GLGHPPS(0.203)S(0.797)PLLK;GLGHPPS(0.19)S(0.81)PLLK ; 109.72 0.0031747 12047600 6552.6 6651 4935.65 6968.2 6920 7620.3 7553 7038.1 7945.2 6225.5 TRUE FALSE FALSE 7241.832532 6866.496764 5608.254678 7103.079587 6389.791095 6971.007569 6703.116562 6858.075593 7889.908706 6493.911772 1.115172609 1.057374508 0.86361732 1.093805989 0.983966416 1.073468167 1.032215527 1.056077728 1.214970111 1 12.66487207 -6.916102771 21.25631883 1.056159323 1.01724915 0.113338316 0.082051428 18.48253101 4676.526186 0.011305852 0.014858801 1.21E-07 6.916102771 -0.038910173 GLGK(ac)GGAK ddPTM_HeLa_SAHA_4h_R1 2 GLGKGGAK 8 1 P62805;Q99525 P62805 HIST1H4A;HIST1H4G Histone H4;Histone H4-like protein type G 0 1 ; GLGK(1)GGAK;GLGK(1)GGAK 111.01 0.004429 10007800 3349.9 3913.6 3261.8 5011 4513.1 4591.7 5550.4 3510.3 2425.6 3836.5 FALSE TRUE FALSE 3702.257852 4040.403208 3706.301117 5107.995151 4167.307253 4200.461328 4925.854384 3420.511609 2408.720052 4001.91029 0.92512265 1.009618636 0.926132984 1.276389219 1.041329503 1.049614065 1.230875764 0.854719712 0.601892566 1 11.96647311 GLGK(ac)GGAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GLGKGGAKR 9 2 P62805 P62805 HIST1H4A Histone H4 0 2 ; GLGK(1)GGAK(1)R;GLGK(1)GGAK(1)R 160.11 2.52E-09 3724400000 5903.9 14810.2 21478.4 24690.5 24745.1 14366.7 29006.9 12119.3 2008.66 4017.4 FALSE TRUE FALSE 6524.89929 15290.0602 24405.3645 25168.42033 22849.13578 13142.57634 25742.96727 11809.30585 1994.681572 4190.609775 1.557028605 3.648648053 5.823821785 6.00590885 5.452460862 3.13619665 6.143012271 2.818039973 0.475988383 1 12.03294447 -7.15571619 2.758175215 1.23704756 4.945169758 0.709845077 1.105947821 0.102005451 1.493053218 0.177188199 0.218321158 6.99E-08 7.15571619 3.708122198 GLGLDDALEPR ddPTM_HeLa_SAHA_4h_R1 2 GLGLDDALEPR 11 0 Q9Y230;M0R0Z0;A0A1W2PS48;X6R2L4 Q9Y230 RUVBL2 RuvB-like 2 0 0 ; ; 148.91 0.0033927 11590000 4408.2 4008.7 4047.8 4664.4 4010.4 4912.5 4824.8 4758.1 4706.7 4077.1 FALSE FALSE TRUE 4871.874702 4138.58451 4599.413104 4754.686207 3703.124018 4493.927363 4281.900806 4636.394692 4673.945691 4252.883734 1.145546177 0.973124301 1.081481035 1.11799111 0.870732484 1.056677691 1.006822917 1.090176685 1.099006224 1 12.0542257 GLGLGANLTEAQALT(ph)PTGPSR ddPTM_HeLa_SAHA_4h_R1 2 GLGLGANLTEAQALTPTGPSR 21 0 Q92917 Q92917 GPKOW G patch domain and KOW motifs-containing protein 1 0 GLGLGANLT(0.002)EAQALT(0.815)PT(0.161)GPS(0.021)R;GLGLGANLT(0.06)EAQALT(0.934)PT(0.006)GPSR ; 181.49 1.98E-10 21427200 2418.36 2657.18 2821.46 2503.92 3516.1 3610.9 2800.7 2830.8 3034 3292.5 TRUE FALSE FALSE 2672.734201 2743.274375 3205.953875 2552.386992 3246.697178 3303.231006 2485.557865 2758.392235 3012.886147 3434.455788 0.778211852 0.79875082 0.933467796 0.743170723 0.945330899 0.961791681 0.72371229 0.803152641 0.877252855 1 11.7458658 -9.419240688 1.120359083 1.000979955 0.8337703 0.124300398 0.088138276 0.435690423 0.969113862 0.057244393 0.014107856 3.81E-10 9.419240688 -0.167209655 GLGLSK(ac)AYVGQK ddPTM_HeLa_SAHA_4h_R1 2 GLGLSKAYVGQK 12 1 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 1 ; GLGLSK(1)AYVGQK;GLGLSK(1)AYVGQK 161.19 4.72E-07 3683700 1132.85 1227.65 1334.89 1381.86 1243.8 1136.65 1613.31 1141.55 753.6 1026.72 FALSE TRUE FALSE 1252.008361 1267.426665 1516.801857 1408.607899 1148.500313 1039.801025 1431.776113 1112.350804 748.3556362 1070.986924 1.169023013 1.183419365 1.416265524 1.315242854 1.072375663 0.970881159 1.336875438 1.038622208 0.69875329 1 10.06472515 -8.770260459 0.850266781 1.008931193 1.192359243 0.317983609 0.165648653 0.663689905 0.944097217 0.067330483 0.027796952 1.70E-09 8.770260459 0.18342805 GLGPPS(ph)PPAPPR ddPTM_HeLa_SAHA_4h_R1 2 GLGPPSPPAPPR 12 0 Q13425;A0A140TA73;Q13425-2 Q13425 SNTB2 Beta-2-syntrophin 1 0 GLGPPS(1)PPAPPR;GLGPPS(1)PPAPPR ; 94.767 0.0096393 126172600 1956.85 1969 2071.32 2209.8 2051.17 3189.9 2091.66 2212.2 2513.5 2767.9 TRUE FALSE FALSE 2162.680461 2032.796892 2353.588703 2252.573874 1894.009798 2918.102574 1856.300912 2155.615127 2496.008349 2887.237715 0.749048286 0.704062877 0.8151697 0.780183032 0.655993716 1.0106901 0.642933175 0.746601195 0.864497002 1 11.49547418 -9.181237685 0.792293587 1.010041334 0.763137287 0.256262537 0.105318074 0.486454881 0.517727682 0.07501821 0.01832653 6.59E-10 9.181237685 -0.246904046 GLGPS(ph)PAGDGPSGSGK ddPTM_HeLa_SAHA_4h_R1 3 GLGPSPAGDGPSGSGK 16 0 Q92934;F5GYS3;A8MXU7 Q92934 BAD Bcl2-associated agonist of cell death 1 0 GLGPS(0.994)PAGDGPS(0.005)GSGK;GLGPS(0.998)PAGDGPS(0.002)GSGK;GLGPS(0.987)PAGDGPS(0.012)GS(0.001)GK ;; 111.34 0.001721 24619200 4974.9 5343.1 5025.43 4934.9 5963.7 6229.5 6143.7 5948.8 5072.9 5276 TRUE FALSE FALSE 5498.182808 5516.219946 5710.269429 5030.422125 5506.762594 5698.711554 5452.394707 5796.63831 5037.597276 5503.47418 0.99903854 1.002315949 1.037575401 0.914044831 1.000597516 1.035475296 0.990718686 1.053268921 0.91534858 1 12.42612692 -1.449179161 1.216934234 0.99776715 68.98478524 0.144417244 0.04125077 2011.768163 3.048111503 0.004339043 381808.9393 0.035548464 1.449179161 67.98701809 GLGS(ph)SPDLELLLR ddPTM_HeLa_SAHA_4h_R1 1 GLGSSPDLELLLR 13 0 Q9NQQ7-2;Q9NQQ7;Q9NQQ7-3 Q9NQQ7-2 SLC35C2 Solute carrier family 35 member C2 1 0 GLGS(0.94)S(0.06)PDLELLLR 101.38 0.0048535 45794000 284.19 387.03 419.24 474.72 411.85 668.82 519.93 470.9 424.91 500.48 TRUE FALSE FALSE 314.0824081 399.5700259 476.3718439 483.9088921 380.294142 611.8327733 461.426108 458.8550599 421.9530167 522.0581421 0.601623426 0.76537457 0.912488103 0.926925285 0.728451702 1.171962898 0.883859614 0.878934783 0.808249087 1 9.02806668 -6.743610047 19.61299897 0.803133729 0.919049064 0.164016743 0.135668699 38.95380302 42848.0213 0.02784741 0.039269051 1.80E-07 6.743610047 0.115915335 GLGSS(ph)PDLELLLR ddPTM_HeLa_SAHA_4h_R1 1 GLGSSPDLELLLR 13 0 Q9NQQ7-2;Q9NQQ7;Q9NQQ7-3 Q9NQQ7-2 SLC35C2 Solute carrier family 35 member C2 1 0 GLGS(0.314)S(0.686)PDLELLLR 108.32 0.0029127 1506000 707.93 762.57 747.59 764.42 611.27 761.79 732.5 697.12 631.38 817.69 TRUE FALSE FALSE 782.3933255 787.2777683 849.4676719 779.2164545 564.4346247 696.8812063 650.0771722 679.2886798 626.9861752 852.9446176 0.917285026 0.923011591 0.995923597 0.913560433 0.661748269 0.817029842 0.762156368 0.796404205 0.735084274 1 9.736308259 -5.918285589 6.564657212 0.958719706 0.764441179 0.402049508 0.083985617 0.071321916 4.67836781 0.00714658 0.013031851 1.21E-06 5.918285589 -0.194278527 GLGTDEDS(ph)LIEIICSR ddPTM_HeLa_SAHA_4h_R1 5 GLGTDEDSLIEIICSR 16 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YKS4;H0YNA0;H0YN52;H0YMM1;H0YLE2 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 1 0 GLGTDEDS(1)LIEIICSR;GLGTDEDS(1)LIEIICSR;GLGTDEDS(1)LIEIICSR;GLGT(0.044)DEDS(0.929)LIEIICS(0.027)R;GLGT(0.003)DEDS(0.997)LIEIICSR ;;;; 258.96 6.67E-47 51127000 4826.94 6213.44 5630.36 5236.32 6573.81 7570.12 6885.57 6438.14 6841.63 6193.83 TRUE FALSE FALSE 5334.659696 6414.759533 6397.636139 5337.676545 6070.126098 6925.103188 6110.787542 6273.461701 6794.01854 6460.876323 0.825686707 0.992862146 0.990211826 0.826153648 0.939520553 1.071851997 0.945814041 0.970992384 1.051563008 1 12.65751414 -5.504257238 24.70660903 0.920775836 0.993596829 0.013887048 0.077661363 983.0242109 1304253.064 0.011503269 0.025293851 3.13E-06 5.504257238 0.072820993 GLGTDEDSLIEIICSR ddPTM_HeLa_SAHA_4h_R1 5 GLGTDEDSLIEIICSR 16 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YKS4;H0YNA0;H0YN52;H0YMM1;H0YLE2 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ;;;; ;;;; 350.25 1.74E-158 474584900 10010.55 10079.62 9038.04 10622.262 11594.58 12588.86 11733.46 11833.97 11830.99 10163.75 FALSE FALSE TRUE 11063.50558 10406.2063 10269.69702 10827.87124 10706.20579 11516.21831 10413.1802 11531.27418 11748.65718 10601.959 1.043534084 0.981536176 0.968660322 1.021308537 1.009832785 1.08623494 0.98219397 1.087655044 1.108159084 1 13.37204325 -4.242232118 23.99121962 1.016674775 1.087655156 0.157051617 0.043594479 2463.701969 3077256.578 0.004559916 0.205602582 5.72E-05 4.242232118 0.07098038 GLGTDEDTIIDIITHR ddPTM_HeLa_SAHA_4h_R1 1 GLGTDEDTIIDIITHR 16 0 E5RK69;P08133-2;P08133 E5RK69 ANXA6 Annexin;Annexin A6 0 0 196.97 1.32E-12 5727700 2431 2539.6 2824.6 2505.1 2645.9 3413.7 3015.7 2061.5 2997.7 3346.3 FALSE FALSE TRUE 2686.703734 2621.884706 3209.521778 2553.589833 2443.171714 3122.833555 2676.365499 2008.769815 2976.838762 3490.575369 0.769702255 0.751132529 0.919482159 0.731567023 0.699933809 0.894647221 0.766740499 0.575483868 0.852821798 1 11.76924915 -13.52287875 0.189814059 2.059210431 0.717275698 0.275557329 0.099037263 31.64148599 0.373979249 12.369132 0.103125874 3.00E-14 13.52287875 -1.341934733 GLGTDEDTLIEILASR ddPTM_HeLa_SAHA_4h_R1 4 GLGTDEDTLIEILASR 16 0 P04083;Q5T3N1 P04083 ANXA1 Annexin A1;Annexin 0 0 ;;; ;;; 323.44 1.60E-118 712041000 1111.27 823.259 694.76 1160.86 1060.79 1205.88 1023.753 1360.899 1095.15 1148 FALSE FALSE TRUE 1228.158477 849.9331318 789.4382746 1183.330124 979.5124994 1103.13224 908.5576181 1326.089174 1087.528762 1197.495898 1.025605582 0.7097587 0.659240901 0.988170503 0.817967311 0.92119918 0.758714597 1.107385149 0.908169092 1 10.225805 -7.296534142 24.29510474 1.012091548 0.847407732 0.151298022 0.129253064 394.6067149 273173.9758 0.020253436 0.023158651 5.05E-08 7.296534142 -0.164683817 GLGVEIAK ddPTM_HeLa_SAHA_4h_R1 2 GLGVEIAK 8 0 P22314-2;P22314;Q5JRR9;Q5JRS0;Q5JRS2;Q5JRS1;Q5JRS3 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 ; ; 122.13 0.0028699 7635200 4273.3 5681.4 5639.3 7993.1 5282 5463.2 6856.5 6216.7 6643.2 4524.6 FALSE FALSE TRUE 4722.785301 5865.481088 6407.794436 8147.818009 4877.294301 4997.704625 6084.988575 6057.685816 6596.96943 4719.677649 1.000658446 1.242771546 1.357676289 1.72635053 1.033395639 1.058908043 1.289280546 1.283495668 1.397758474 1 12.20447261 -7.217279239 4.153093243 0.999535961 1.289265804 0 0.217558301 0.184882103 6.965047861 0.030976123 0.037520028 6.06E-08 7.217279239 0.289729843 GLHPRR ddPTM_HeLa_SAHA_4h_R1 4 GLHPRR 6 1 F8VZG6 F8VZG6 ZNF606 0 0 ;;; ;;; 37.353 0.020342 2105504700 2910.31 5004.72 7229.04 24783.3 44584.7 61417.2 63715 61626.7 8347.48 7916.71 FALSE FALSE TRUE 3216.429759 5166.876212 8214.175924 25263.01661 41168.62992 56184.10904 56545.62051 60050.37825 8289.389207 8258.038112 0.389490786 0.625678417 0.994688546 3.059203199 4.985279719 6.803566208 6.847343128 7.271748742 1.003796434 1 13.01158336 -5.781263664 1.35526653 0.676799768 7.122479351 0.992293703 0.240461166 0.027998502 0.102765526 0.045785925 0.116781658 1.65E-06 5.781263664 6.445679582 up GLIVYCVT(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 GLIVYCVTSPK 11 0 E9PCH4;Q8TEU7;Q8TEU7-4;A0A5F9ZHG7 E9PCH4 RAPGEF6 Rap guanine nucleotide exchange factor 6 1 0 GLIVYCVT(0.522)S(0.478)PK 104.42 0.0096855 5954400 2456.4 3103.6 3337.3 3450 3019.2 2974.9 3528.9 2851.2 2636.1 3178.9 TRUE FALSE FALSE 2714.775422 3204.158676 3792.089864 3516.779739 2787.869548 2721.421784 3131.818884 2778.270432 2617.755165 3315.957936 0.818700199 0.966284476 1.143588048 1.060562229 0.840743339 0.820704555 0.944468822 0.837848515 0.789441608 1 11.69520999 -4.256198622 22.83583245 0.931625678 0.837848377 0.061316624 0.11005702 436.5159806 1901827.276 0.015994008 0.174130633 5.54E-05 4.256198622 -0.093777301 GLIVYCVTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 GLIVYCVTSPK 11 0 E9PCH4;Q8TEU7;Q8TEU7-4;A0A5F9ZHG7 E9PCH4 RAPGEF6 Rap guanine nucleotide exchange factor 6 1 0 GLIVYCVT(0.23)S(0.77)PK;GLIVYCVT(0.228)S(0.772)PK ; 130.98 0.0012849 11506900 4252.3 5201.2 6358.6 5420.1 5536.6 5162.1 5970.9 4477.7 3669.5 5022 TRUE FALSE FALSE 4699.576424 5369.722293 7225.116894 5525.013873 5112.386904 4722.260039 5299.038617 4363.166918 3643.963651 5238.522997 0.897118601 1.025045093 1.379227866 1.054689247 0.975921439 0.901448756 1.011552039 0.832900213 0.695608982 1 12.35494439 -4.256853068 23.20364578 0.992135344 0.83290003 0.081616929 0.161467811 330.3147241 1670992.208 0.019639183 0.204744046 5.54E-05 4.256853068 -0.159235314 GLKEGMNPSYDEYADS(ph)DEDQHDAYLER ddPTM_HeLa_SAHA_4h_R1 3 GLKEGMNPSYDEYADSDEDQHDAYLER 27 1 Q08945 Q08945 SSRP1 FACT complex subunit SSRP1 1 0 GLKEGMNPSYDEY(0.006)ADS(0.994)DEDQHDAYLER;GLKEGMNPSY(0.003)DEY(0.057)ADS(0.939)DEDQHDAYLER;GLKEGMNPSYDEY(0.121)ADS(0.879)DEDQHDAYLER ;; 142.14 7.69E-10 45249000 5412.3 2702.98 5709.3 3284.92 4872.49 3263.5 5773.6 3800.87 1420.27 3574.39 TRUE FALSE FALSE 5981.590547 2790.558325 6487.333671 3348.504377 4499.160869 2985.43144 5123.939333 3703.649249 1410.386225 3728.499446 1.604288973 0.748440054 1.73993151 0.898083646 1.206694794 0.800705883 1.374263134 0.993335068 0.378271808 1 11.86437941 SSPRPTAEK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 SSPRPTAEKK 10 2 Q9UHB7;Q9UHB7-2 Q9UHB7 AFF4 AF4/FMR2 family member 4 0 1 ; SSPRPTAEK(1)K;SSPRPTAEK(1)K 89.9 0.010449 2103660 636.44 711.17 713.07 1093.01 1283.93 1424.3 1365.18 1335.12 307.68 560.72 FALSE TRUE FALSE 703.3836793 734.2123746 810.2434661 1114.166789 1185.555561 1302.941627 1211.566353 1300.969564 305.5388298 584.8953833 1.202580324 1.255288374 1.385279298 1.904899271 2.026953186 2.227649019 2.071424032 2.224277368 0.522382017 1 9.192034791 -6.292689631 1.059156989 1.086027834 2.189219392 0.883040256 0.191090965 0.054579691 0.121234848 0.014847058 0.030212351 5.10E-07 6.292689631 1.103191558 up GLKPSCTIIPLMK(ac)K ddPTM_HeLa_SAHA_4h_R1 4 GLKPSCTIIPLMKK 14 2 A0A0U1RQF0;P49327 A0A0U1RQF0 FASN Fatty acid synthase;[Acyl-carrier-protein] S-acetyltransferase;[Acyl-carrier-protein] S-malonyltransferase;3-oxoacyl-[acyl-carrier-protein] synthase;3-oxoacyl-[acyl-carrier-protein] reductase;3-hydroxyacyl-[acyl-carrier-protein] dehydratase;Enoyl-[acyl-carrier-protein] reductase;Oleoyl-[acyl-carrier-protein] hydrolase 0 1 ;;; GLKPSCTIIPLMK(1)K;GLKPSCTIIPLMK(1)K;GLKPSCTIIPLMK(1)K;GLKPSCTIIPLMK(1)K 146.77 5.24E-05 9480300 10912.1 8661.4 9133.1 10053.1 10076.9 9405.2 10417.7 8241.6 7296.4 9128.3 FALSE TRUE FALSE 12059.88474 8942.035043 10377.7113 10247.69229 9304.810099 8603.824048 9245.472978 8030.791806 7245.623758 9521.865686 1.266546404 0.939105354 1.089882135 1.076227351 0.977204511 0.90358595 0.970972841 0.843405281 0.760945806 1 13.21702856 -5.642968999 0.916648972 1.115264195 0.887877511 0 0.140980725 0.521793718 0.802951894 0.019420675 0.073024878 2.28E-06 5.642968999 -0.227386684 GLLAQGLRPES(ph)PPPAGPLLNGAPAGESPQPK ddPTM_HeLa_SAHA_4h_R1 2 GLLAQGLRPESPPPAGPLLNGAPAGESPQPK 31 1 Q96TA1-2;Q96TA1 Q96TA1-2 FAM129B Niban-like protein 1 1 0 GLLAQGLRPES(0.999)PPPAGPLLNGAPAGES(0.001)PQPK;GLLAQGLRPES(0.999)PPPAGPLLNGAPAGES(0.001)PQPK ; 66.828 0.00016575 449838000 1046 1170.8 1002.29 1101.83 1584.01 1468.71 1406.15 1120.92 1338.08 1284.54 TRUE FALSE FALSE 1156.023079 1208.734688 1138.876861 1123.157513 1462.643496 1343.567645 1247.926301 1092.248489 1328.768192 1339.922806 0.862753492 0.90209278 0.84995707 0.838225537 1.091587881 1.002720186 0.931341937 0.815157772 0.991675182 1 10.38793417 GLLASDLNT(ph)DGDMRVTPEPGAGPTQGLLR ddPTM_HeLa_SAHA_4h_R1 1 GLLASDLNTDGDMRVTPEPGAGPTQGLLR 29 1 Q86YP4-2;Q86YP4;Q86YP4-3;C9JMI3;C9JGN4;C9JHD7;C9JJK9;V9GYX5;C9JVY3;V9GY85;H7C3H1 Q86YP4-2 GATAD2A Transcriptional repressor p66-alpha 1 0 GLLAS(0.06)DLNT(0.52)DGDMRVT(0.417)PEPGAGPT(0.003)QGLLR 53.361 0.0070175 34346000 872.5 962.6 934.6 986.3 1120.1 1139.4 1420.9 989.73 926.27 1166.6 TRUE FALSE FALSE 964.2735532 993.7888716 1061.962421 1005.391263 1034.27818 1042.31671 1261.016592 964.4141397 919.8240117 1216.897835 0.792403048 0.816657605 0.872680015 0.826192005 0.849930167 0.856535923 1.036255104 0.792518576 0.755876118 1 10.24899234 -9.470528637 1.217861978 0.999734489 0.852757637 0 0.099735323 0.379833964 1.010736547 0.046302151 0.011479593 3.38E-10 9.470528637 -0.146976852 GLLASDLNTDGDMRVT(ph)PEPGAGPTQGLLR ddPTM_HeLa_SAHA_4h_R1 3 GLLASDLNTDGDMRVTPEPGAGPTQGLLR 29 1 Q86YP4-2;Q86YP4;Q86YP4-3;C9JMI3;C9JGN4;C9JHD7;C9JJK9;V9GYX5;C9JVY3;V9GY85;H7C3H1 Q86YP4-2 GATAD2A Transcriptional repressor p66-alpha 1 0 GLLAS(0.014)DLNT(0.13)DGDMRVT(0.853)PEPGAGPT(0.002)QGLLR;GLLASDLNT(0.009)DGDMRVT(0.991)PEPGAGPTQGLLR;GLLASDLNT(0.032)DGDMRVT(0.966)PEPGAGPT(0.002)QGLLR ;; 100.92 3.02E-08 101912000 2691.29 2740.25 2551.61 2985.64 3296.67 2795.28 3370.42 3438.7 2941.77 2628.59 TRUE FALSE FALSE 2974.37223 2829.035898 2899.330123 3043.43138 3044.079857 2557.106418 2991.171471 3350.743033 2921.297983 2741.921379 1.084776629 1.031771341 1.05740819 1.109963036 1.110199541 0.93259655 1.090903442 1.222041981 1.065420039 1 11.42097149 -13.52286727 0.012363314 1.72E-06 1.946217146 0.132653365 0.067417906 9298.689529 9.290804867 870.4148783 613.366744 3.00E-14 13.52286727 1.946215426 GLLEFEHQR ddPTM_HeLa_SAHA_4h_R1 2 GLLEFEHQR 9 0 Q14697;Q14697-2;F5H6X6;E9PKU7;E9PNH1 Q14697 GANAB Neutral alpha-glucosidase AB 0 0 ; ; 193.1 1.82E-07 16547800 12422.7 12348.5 12279.1 15137.4 16064.8 14248 16330.3 10816.7 9830.6 11149.3 FALSE FALSE TRUE 13729.37658 12748.5995 13952.4318 15430.40627 14833.91849 13033.99024 14492.77167 10540.02448 9762.188054 11630.00089 1.180513804 1.096182161 1.199693099 1.326776018 1.275487306 1.120721346 1.24615396 0.906278906 0.839397017 1 13.50556359 -9.142798723 0.662012315 0.984850495 1.180688394 0.360010751 0.121913088 0.967960702 0.681135861 0.107845955 0.02351195 7.20E-10 9.142798723 0.195837898 GLLK(ac)ALK ddPTM_HeLa_SAHA_4h_R1 1 GLLKALK 7 1 O00299 O00299 CLIC1 Chloride intracellular channel protein 1 0 1 GLLK(1)ALK 126.54 1.29E-05 0 1647.6 1730.8 8013.1 3076.4 2606.5 453.04 3728.3 329.79 342.41 603.13 FALSE TRUE FALSE 1820.902127 1786.879056 9105.083538 3135.948171 2406.790533 414.4384433 3308.781872 321.3544493 340.0271409 629.1338859 2.894299875 2.840220652 14.47240999 4.984548187 3.825561755 0.65874443 5.259265071 0.510788652 0.540468648 1 9.297223259 -4.225569906 23.23117134 3.233352119 0.510774864 0.033165218 3.911211361 23277.8681 15075411.31 0.558864263 142.1276748 5.95E-05 4.225569906 -2.722577255 GLLKPGLNVVLEGPK ddPTM_HeLa_SAHA_4h_R1 2 GLLKPGLNVVLEGPK 15 1 H7C2Q8;Q99848 H7C2Q8 EBNA1BP2 Probable rRNA-processing protein EBP2 0 0 ; ; 212.11 4.31E-33 1218800 1921.57 1756.63 1864.99 1944.93 1916.87 1925.27 2488.08 1699.28 2081.8 2055.95 FALSE FALSE TRUE 2123.689549 1813.545965 2119.141125 1982.576933 1769.999835 1761.226165 2208.11469 1655.814878 2067.312584 2144.592066 0.990253383 0.845636797 0.988132502 0.924454102 0.825331709 0.821240642 1.02961991 0.772088503 0.963965417 1 11.06648754 -6.99576408 0.702800565 1.001478535 0.875102414 0.237125433 0.076101412 0.539684164 0.550643086 0.017831864 0.02548631 1.01E-07 6.99576408 -0.12637612 GLLLYGPPGTGK ddPTM_HeLa_SAHA_4h_R1 2 GLLLYGPPGTGK 12 0 Q8IYT4-2;Q8IYT4;K7EM02;K7EIJ8 Q8IYT4-2 KATNAL2 Katanin p60 ATPase-containing subunit A-like 2 0 0 ; ; 148.32 0.0001007 5668300 4043.9 3369.1 4052.3 3858.6 4369.6 4794 4306.1 3890.2 4148.3 4719.1 FALSE FALSE TRUE 4469.255956 3478.261051 4604.526341 3933.288783 4034.802192 4385.52423 3821.566295 3790.694317 4119.431643 4922.563496 0.907912302 0.706595467 0.935391965 0.799032615 0.819654677 0.890902521 0.776336618 0.770065093 0.836846827 1 12.2651941 -7.943978994 0.802172421 0.987047523 0.816457366 0.102814184 0.079566406 0.286359718 0.401362758 0.01971539 0.015120363 1.14E-08 7.943978994 -0.170590157 GLLPGGTQVLDGTSGFS(ph)PAPK ddPTM_HeLa_SAHA_4h_R1 2 GLLPGGTQVLDGTSGFSPAPK 21 0 Q96S94;Q96S94-3 Q96S94 CCNL2 Cyclin-L2 1 0 GLLPGGTQVLDGT(0.001)S(0.009)GFS(0.99)PAPK;GLLPGGTQVLDGT(0.003)S(0.171)GFS(0.826)PAPK ; 181.49 1.13E-10 17740200 8276.9 7764.1 7399.4 7373.5 7347 8840.1 7497.6 7214 8537.7 8073.2 TRUE FALSE FALSE 9147.502318 8015.661934 8407.751698 7516.224755 6784.074447 8086.873747 6653.950315 7029.476326 8478.285451 8421.275161 1.086237196 0.951834702 0.998394131 0.892528104 0.805587553 0.960290881 0.79013572 0.834728256 1.006769793 1 13.03982299 -6.36389611 1.34320225 1.038175586 0.84706547 0.666017015 0.05381939 0.172153037 0.612973087 0.009481892 0.01718987 4.33E-07 6.36389611 -0.191110116 GLLS(ph)PPMGQSGLR ddPTM_HeLa_SAHA_4h_R1 1 GLLSPPMGQSGLR 13 0 Q86UU0-3;Q86UU0-4;Q86UU0-2;Q86UU0;A0A087WZX0 Q86UU0-3 BCL9L B-cell CLL/lymphoma 9-like protein 1 0 GLLS(0.994)PPMGQS(0.006)GLR 78.529 0.020566 18384000 1255.3 1346.5 1226.3 1010 1237.8 1563.2 1530.1 1334.8 1205.1 1033.5 TRUE FALSE FALSE 1387.338214 1390.127483 1393.413778 1029.55001 1142.960031 1430.006566 1357.929121 1300.657749 1196.713611 1078.059243 1.286884949 1.289472256 1.292520598 0.955003185 1.060201505 1.326463805 1.259605286 1.206480773 1.110062939 1 10.07422075 -9.417265036 1.151351002 1.000280426 1.213870257 0.203512642 0.115265137 0.481923721 1.145013028 0.081558517 0.020715388 3.83E-10 9.417265036 0.213589831 GLLSDS(ph)MTDVPVDTGVAAR ddPTM_HeLa_SAHA_4h_R1 5 GLLSDSMTDVPVDTGVAAR 19 0 O43399-2;O43399-4;O43399;O43399-3;O43399-5;O43399-7;A0A087WZ51;A0A087WYR3 O43399-2 TPD52L2 Tumor protein D54 1 0 GLLS(0.007)DS(0.683)MT(0.31)DVPVDTGVAAR;GLLS(0.008)DS(0.96)MT(0.032)DVPVDTGVAAR;GLLSDS(0.777)MT(0.223)DVPVDTGVAAR;GLLS(0.02)DS(0.49)MT(0.49)DVPVDTGVAAR;GLLS(0.01)DS(0.765)MT(0.225)DVPVDTGVAAR ;;;; 371.87 6.80E-188 140765000 7458.97 8900.2 8184.6 6770.77 8533 8935.8 9047.6 7127.43 7619.2 8152.65 TRUE FALSE FALSE 8243.538688 9188.57232 9299.954664 6901.828044 7879.203383 8174.419569 8029.540236 6945.120661 7566.177367 8504.15064 0.969354735 1.080480898 1.093578308 0.811583465 0.926512678 0.961227043 0.944190734 0.816674228 0.889704062 1 13.05395144 -6.260295143 24.99999671 1.001160084 0.900694164 0.394915109 0.070349942 86.48150854 1889500.068 0.009641161 0.015435741 5.49E-07 6.260295143 -0.10046592 GLLSGQT(ph)SPTNAK ddPTM_HeLa_SAHA_4h_R1 1 GLLSGQTSPTNAK 13 0 G3V1P3;Q969J3 G3V1P3 LOH12CR1 Loss of heterozygosity 12 chromosomal region 1 protein 1 0 GLLS(0.024)GQT(0.402)S(0.402)PT(0.172)NAK 112.02 0.0038869 7868200 3168.2 3093.6 2525 3123.2 3163.3 4138.8 3522.9 2995.6 3943.9 3276.2 TRUE FALSE FALSE 3501.445812 3193.83467 2869.09385 3183.654052 2920.928637 3786.150956 3126.49402 2918.97689 3916.454079 3417.453015 1.024577601 0.934565788 0.839541564 0.931586781 0.854709231 1.107886762 0.914860865 0.854138119 1.146015486 1 11.73870579 -7.205586012 5.711393713 1.01159807 0.921019637 0.326545661 0.08309637 0.219033406 15.83349437 0.011720815 0.014322351 6.23E-08 7.205586012 -0.090578434 GLLSGQTSPT(ph)NAK ddPTM_HeLa_SAHA_4h_R1 1 GLLSGQTSPTNAK 13 0 G3V1P3;Q969J3 G3V1P3 LOH12CR1 Loss of heterozygosity 12 chromosomal region 1 protein 1 0 GLLS(0.001)GQT(0.129)S(0.129)PT(0.742)NAK 120.84 0.0019628 8434100 1420.6 1642.3 1087.6 1475.1 1981.3 1967.1 1727.6 1501.9 1838.1 1471.5 TRUE FALSE FALSE 1570.025226 1695.511598 1235.812464 1503.652694 1829.493222 1799.492013 1533.205901 1463.483573 1825.308512 1534.943566 1.022855342 1.104608426 0.805119153 0.979614317 1.191896081 1.172350602 0.998867929 0.953444547 1.189169786 1 10.5839699 GLLTDS(ph)PAATVLAEAR ddPTM_HeLa_SAHA_4h_R1 2 GLLTDSPAATVLAEAR 16 0 Q86UU1-3;Q86UU1-2;Q86UU1 Q86UU1-3 PHLDB1 Pleckstrin homology-like domain family B member 1 1 0 GLLT(0.004)DS(0.996)PAATVLAEAR;GLLT(0.003)DS(0.994)PAAT(0.003)VLAEAR ; 244 2.43E-36 12187900 2306.2 2711.9 2324.5 2200.5 2855.2 2711.8 2044.03 2406 2433.8 2140.05 TRUE FALSE FALSE 2548.776697 2799.767339 2641.270755 2243.093859 2636.435193 2480.739384 1814.030365 2344.458004 2416.862988 2232.318029 1.141762358 1.254197343 1.183196445 1.004827193 1.181030283 1.111284034 0.812621831 1.050234767 1.082669654 1 11.12432686 -4.787184247 24.96611168 1.096046087 0.93142824 0.372383439 0.093864873 178.4815831 173082.8142 0.014391538 0.043196323 1.63E-05 4.787184247 -0.164617848 GLLYDS(ph)DEEDEERPAR ddPTM_HeLa_SAHA_4h_R1 9 GLLYDSDEEDEERPAR 16 1 P49736 P49736 MCM2 DNA replication licensing factor MCM2 1 0 GLLYDS(1)DEEDEERPAR;GLLYDS(1)DEEDEERPAR;GLLYDS(1)DEEDEERPAR;GLLYDS(1)DEEDEERPAR;GLLYDS(1)DEEDEERPAR;GLLYDS(1)DEEDEERPAR;GLLYDS(1)DEEDEERPAR;GLLYDS(1)DEEDEERPAR;GLLYDS(1)DEEDEERPAR ;;;;;;;; 188.71 7.64E-12 3179816200 15492.72 16230.11 14105.88 15982.45 17535.18 18660.6 17453.7 17441.17 17487.57 16342.34 TRUE FALSE FALSE 17122.31537 16755.97621 16028.15587 16291.81343 16191.6383 17070.6119 15489.76374 16995.05013 17365.87258 17046.93825 1.004421739 0.982931713 0.940236635 0.955703199 0.94982677 1.001388733 0.908653713 0.996956161 1.018709185 1 14.05722502 -6.988705234 4.525865319 1.001839931 0.957922593 0.419223647 0.025562383 0.132571965 6.873701333 0.003650434 0.00472209 1.03E-07 6.988705234 -0.043917338 GLLYDS(ph)DEEDEERPARK ddPTM_HeLa_SAHA_4h_R1 4 GLLYDSDEEDEERPARK 17 2 P49736 P49736 MCM2 DNA replication licensing factor MCM2 1 0 GLLYDS(1)DEEDEERPARK;GLLYDS(1)DEEDEERPARK;GLLYDS(1)DEEDEERPARK;GLLYDS(1)DEEDEERPARK ;;; 80.638 0.0036028 92509000 8966.9 7950 8472.3 9276.6 9533.9 10603.2 10207.8 10252.2 8289.1 9635.3 TRUE FALSE FALSE 9910.079684 8207.585216 9626.860922 9456.162007 8803.414642 9699.747708 9059.191479 9989.963569 8231.415478 10050.72494 0.986006457 0.816616241 0.957827518 0.940843777 0.875898475 0.965079412 0.901347071 0.993954529 0.81898724 1 13.29501194 -7.48604267 24.90048129 0.993826425 0.921368567 0 0.072757262 338.6224721 228904.2461 0.007468068 0.008342585 3.27E-08 7.48604267 -0.072457859 GLMAGGRPEGQY(ph)S(ph)EDEDTDTDEYKEAK ddPTM_HeLa_SAHA_4h_R1 1 GLMAGGRPEGQYSEDEDTDTDEYKEAK 27 2 H0YE35;Q9NPQ8-2;Q9NPQ8-4;Q9NPQ8;Q9NPQ8-3;H0YC88 H0YE35 RIC8A Synembryn-A 2 0 GLMAGGRPEGQY(0.732)S(0.74)EDEDT(0.331)DT(0.162)DEY(0.035)KEAK 43.162 0.015229 6956200 779.66 994.22 1038.7 825.58 1130.7 1235 998.37 1360.4 853.01 1196.3 TRUE FALSE FALSE 861.668216 1026.43338 1180.248627 841.5602947 1044.06601 1129.771052 886.03078 1325.602938 847.073834 1247.878348 0.690506585 0.822542824 0.945804236 0.674392898 0.836672912 0.905353518 0.710029773 1.062285391 0.678811228 1 10.28526158 -9.604478794 1.420566069 0.999485627 0.808568182 0 0.152471849 0.438803863 1.596055956 0.078740724 0.018380948 2.49E-10 9.604478794 -0.190917445 GLNDK(ac)VK ddPTM_HeLa_SAHA_4h_R1 1 GLNDKVK 7 1 A0A2R8Y4F5;H0YFD6;P40939;A0A2R8YG21 A0A2R8Y4F5 HADHA "Trifunctional enzyme subunit alpha, mitochondrial;Long-chain enoyl-CoA hydratase;Long chain 3-hydroxyacyl-CoA dehydrogenase" 0 1 GLNDK(1)VK 107.29 0.0089972 1120500 639.22 961.88 1129.9 511.62 1179.4 644.17 1084.1 764.59 277.19 664.09 FALSE TRUE FALSE 706.4560924 993.0455431 1283.876888 521.5231449 1089.034627 589.283092 962.1142148 745.0328949 275.2610122 692.7221699 1.019826019 1.433540871 1.853379239 0.752860479 1.572108811 0.850677397 1.388889019 1.075514726 0.397361344 1 9.436133036 -7.325546196 10.12286402 1.009201287 1.276820144 0.203269601 0.364407804 0.842936407 130.4699321 0.048853495 0.055826444 4.73E-08 7.325546196 0.267618856 GLNNDS(ph)PERR ddPTM_HeLa_SAHA_4h_R1 1 GLNNDSPERR 10 1 Q7Z6B7;Q7Z6B7-2;G5EA48 Q7Z6B7 SRGAP1 SLIT-ROBO Rho GTPase-activating protein 1 1 0 GLNNDS(1)PERR 98.407 0.0061244 6310400 2084.5 1690.3 1420 1418.2 1769.6 2243.9 1961.6 1747.7 1685.8 1756.8 TRUE FALSE FALSE 2303.757274 1745.066829 1613.510205 1445.651312 1634.01363 2052.707096 1740.875605 1702.996365 1674.068381 1832.544246 1.257135963 0.9522645 0.880475442 0.788876621 0.891663944 1.120140537 0.949977393 0.929307092 0.913521398 1 10.83963232 -7.112847626 7.694258412 1.12125058 0.927759362 0.136941146 0.116914899 0.231800912 14.3321077 0.020707353 0.02540041 7.71E-08 7.112847626 -0.193491218 GLNPDGTPALS(ph)TLGGFSPASKPSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 GLNPDGTPALSTLGGFSPASKPSSPR 26 1 Q9UK58-6;Q9UK58 Q9UK58-6 CCNL1 Cyclin-L1 2 0 GLNPDGT(0.005)PALS(0.946)T(0.023)LGGFS(0.026)PAS(0.078)KPS(0.273)S(0.65)PR 100.07 3.51E-05 18283000 2324.3 2378.8 2343.4 2304 2539.6 3330.8 2832.8 2626.7 2776.2 2553.9 TRUE FALSE FALSE 2568.780538 2455.874681 2662.746348 2348.597252 2345.016397 3046.997101 2514.045888 2559.512817 2756.880198 2664.011127 0.964252931 0.92187103 0.999525235 0.881601893 0.880257733 1.143762903 0.943706977 0.960774071 1.034860617 1 11.37938439 GLNPDGTPALSTLGGFS(ph)PASKPSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 GLNPDGTPALSTLGGFSPASKPSSPR 26 1 Q9UK58-6;Q9UK58 Q9UK58-6 CCNL1 Cyclin-L1 2 0 GLNPDGTPALS(0.305)T(0.256)LGGFS(0.435)PAS(0.031)KPS(0.321)S(0.652)PR 88.348 0.00017443 14322000 1634.2 1765.4 1553.7 1756.8 1853.8 2490.1 1944.8 2294.2 2088.7 2094.5 TRUE FALSE FALSE 1806.092654 1822.600118 1765.430145 1790.805404 1711.762244 2277.929471 1725.965986 2235.517686 2074.164567 2184.804145 0.826661126 0.834216706 0.808049613 0.819664046 0.783485443 1.042624107 0.789986594 1.023211939 0.949359498 1 11.09328824 -9.328171357 1.045116047 1.000210419 0.860086284 0.183993238 0.088851222 0.548337518 1.069575357 0.056490997 0.014820439 4.70E-10 9.328171357 -0.140124135 GLNPDGTPALSTLGGFSPASKPS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 2 GLNPDGTPALSTLGGFSPASKPSSPR 26 1 Q9UK58-6;Q9UK58 Q9UK58-6 CCNL1 Cyclin-L1 1 0 GLNPDGTPALSTLGGFS(0.008)PAS(0.006)KPS(0.493)S(0.493)PR;GLNPDGTPALSTLGGFS(0.001)PAS(0.059)KPS(0.546)S(0.394)PR ; 111.09 1.00E-08 29718000 1811 1796.87 2019.26 2026.04 1879.13 2369.21 2313.4 1989.3 2370.43 1678.31 TRUE FALSE FALSE 2001.489289 1855.089767 2294.434237 2065.256934 1735.151465 2167.339979 2053.090143 1938.416586 2353.933985 1750.670158 1.143270353 1.059645507 1.310603386 1.179695058 0.991135571 1.238005897 1.172745268 1.107242605 1.344590227 1 10.77369158 -9.046995519 0.578377373 0.983565148 1.15664458 0 0.136190706 1.000990677 0.538674821 0.090417361 0.019977567 8.97E-10 9.046995519 0.173079432 GLNSSFETS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 GLNSSFETSPK 11 0 M0QZ79;M0QXD7;M0R025;M0QYG0;M0QYA8;Q8IV63-2;Q8IV63 M0QZ79 VRK3 Inactive serine/threonine-protein kinase VRK3 1 0 GLNSS(0.003)FET(0.107)S(0.89)PK 121.21 0.0020856 8878400 2925.4 2672.5 2315.2 2761.2 2550 3059.2 2795.1 2667.5 2888.7 2707.8 TRUE FALSE FALSE 3233.106994 2759.090753 2630.703399 2814.647019 2354.619551 2798.538949 2480.587992 2599.269212 2868.597302 2824.54651 1.1446464 0.976826101 0.931371953 0.996495193 0.833627467 0.990792306 0.878225224 0.920243021 1.015595704 1 11.46380354 -7.037815685 5.031910695 1.06836666 0.926681804 0.490566162 0.057824193 0.124294535 7.788639991 0.011069714 0.013888771 9.17E-08 7.037815685 -0.141684856 GLNVIGASDQS(ph)PLQS(ph)PSNLR ddPTM_HeLa_SAHA_4h_R1 1 GLNVIGASDQSPLQSPSNLR 20 0 B4DJX4;Q9HAU0-8;Q9HAU0;Q9HAU0-2;Q9HAU0-4;Q9HAU0-6;A0JP02;Q9HAU0-5;H0YGJ6 B4DJX4 PLEKHA5 Pleckstrin homology domain-containing family A member 5 2 0 GLNVIGAS(0.005)DQS(0.958)PLQS(0.985)PS(0.052)NLR 100.53 0.00096633 0 388.1 548 402.28 241.57 429.17 659.22 482.54 444.01 324.66 341.91 TRUE FALSE FALSE 428.9221387 565.7555596 457.1006234 246.2459367 396.2870873 603.0507473 428.2433292 432.6528671 322.4006646 356.6514134 1.202636868 1.586298381 1.281645344 0.690438696 1.111132811 1.6908688 1.200733582 1.213097301 0.903965756 1 8.478370881 -8.669793144 0.961482577 1.018415824 1.24487996 0.16106563 0.25756951 0.873599657 1.625197837 0.107563081 0.053189409 2.14E-09 8.669793144 0.226464136 GLNVIGASDQS(ph)PLQSPSNLR ddPTM_HeLa_SAHA_4h_R1 1 GLNVIGASDQSPLQSPSNLR 20 0 B4DJX4;Q9HAU0-8;Q9HAU0;Q9HAU0-2;Q9HAU0-4;Q9HAU0-6;A0JP02;Q9HAU0-5;H0YGJ6 B4DJX4 PLEKHA5 Pleckstrin homology domain-containing family A member 5 1 0 GLNVIGASDQS(0.692)PLQS(0.285)PS(0.022)NLR 103.71 0.00054745 2795900 594.2 608.2 545.52 341.47 732 801.99 817.12 575.89 422.74 787.96 TRUE FALSE FALSE 656.7006823 627.9060791 619.8606247 348.0796456 675.9143181 733.6559401 725.1755071 561.1595677 419.7981179 821.9328118 0.798971245 0.763938451 0.754149993 0.423489172 0.822347409 0.892598433 0.882280761 0.682731678 0.510745053 1 9.682876657 -8.639854413 0.712136325 0.99399137 0.749382575 0 0.194844986 0.587392652 0.594871683 0.073389726 0.02983703 2.29E-09 8.639854413 -0.244608795 GLNVIGASDQSPLQSPS(ph)NLR ddPTM_HeLa_SAHA_4h_R1 1 GLNVIGASDQSPLQSPSNLR 20 0 B4DJX4;Q9HAU0-8;Q9HAU0;Q9HAU0-2;Q9HAU0-4;Q9HAU0-6;A0JP02;Q9HAU0-5;H0YGJ6 B4DJX4 PLEKHA5 Pleckstrin homology domain-containing family A member 5 1 0 GLNVIGASDQSPLQS(0.412)PS(0.588)NLR 84.602 0.0017594 3016500 482.31 969.43 517.39 403.69 535.36 872.29 782.55 461.14 419.27 756.31 TRUE FALSE FALSE 533.0415787 1000.840168 587.8972147 411.5040037 494.3408325 797.9659846 694.4954144 449.3447065 416.3522659 788.9182254 0.675661382 1.268623459 0.74519411 0.521605396 0.626605923 1.011468564 0.880313564 0.569570701 0.527750852 1 9.623731957 -6.561657857 24.99971362 0.880514058 0.7306928 0.085524519 0.22650511 292.1951048 188368.2557 0.034272316 0.04846842 2.74E-07 6.561657857 -0.149821258 TSSSSSFSDK(ac)KPAK ddPTM_HeLa_SAHA_4h_R1 2 TSSSSSFSDKKPAK 14 2 Q03111 Q03111 MLLT1 Protein ENL 0 1 ; TSSSSSFSDK(0.937)K(0.063)PAK;TSSSSSFSDK(0.948)K(0.052)PAK 101.45 0.0053995 5708600 2094.3 3191.8 3603.1 4752.3 6093.5 7096.1 7369.3 6629.2 2714.6 2050.3 FALSE TRUE FALSE 2314.588083 3295.216414 4094.111704 4844.287638 5626.617346 6491.472358 6540.086969 6459.634663 2695.708878 2138.698467 1.082241428 1.540757832 1.914300574 2.265063408 2.630860513 3.035244313 3.057975245 3.020357831 1.260443639 1 11.06251738 -6.28890806 0.773934727 1.002989937 3.120039826 0.981195537 0.108347159 0.036497121 0.043031195 0.015513449 0.036394468 5.14E-07 6.28890806 2.11704989 up AGGK(ac)AGK(ac)DSGK(ac)AK ddPTM_HeLa_SAHA_4h_R1 6 AGGKAGKDSGKAK 13 3 P0C0S5;A0A494C189;Q71UI9;C9J0D1;Q71UI9-3;Q71UI9-2;C9J386;Q71UI9-5 P0C0S5;Q71UI9 H2AFZ;H2AFV Histone H2A.Z;Histone H2A.V;Histone H2A 0 3 ;;;;; AGGK(1)AGK(1)DSGK(1)AK;AGGK(1)AGK(1)DSGK(1)AK;AGGK(1)AGK(1)DSGK(1)AK;AGGK(1)AGK(1)DSGK(1)AK;AGGK(1)AGK(1)DSGK(1)AK;AGGK(1)AGK(1)DSGK(1)AK 174.9 1.38E-15 11781049700 3484.55 6308.62 16976.68 39920.94 42622.99 55568 54458.44 58469.54 463.37 2294.996 FALSE TRUE FALSE 3851.070957 6513.023427 19290.17354 40693.66752 39357.22571 50833.29378 48330.633 56973.97383 460.1453704 2393.944509 1.608671773 2.720624226 8.057903375 16.99858429 16.44032498 21.23411532 20.1887023 23.79920404 0.192212212 1 11.225174 -6.284750071 1.114001677 1.101466809 21.45488675 0.974557566 1.426919159 0.044441209 0.109076398 0.229505531 0.460465847 5.19E-07 6.284750071 20.35341994 up GLPLFPLVKPHINFMAAK ddPTM_HeLa_SAHA_4h_R1 1 GLPLFPLVKPHINFMAAK 18 1 A0A3B3ISG5;P14735-2;P14735 A0A3B3ISG5 IDE Insulin-degrading enzyme 0 0 84.759 0.0033553 737900 140.44 0 295.67 330.77 297.24 132.66 298 0 134.35 271.79 FALSE FALSE TRUE 155.2121236 0 335.9623678 337.1725317 274.4655354 121.3566217 264.4682557 0 133.4150474 283.508197 0.547469615 0 1.185018181 1.189286713 0.968104409 0.428053308 0.932841655 0 0.470586208 1 8.147246638 -4.254208176 24.05356732 0.77891381 6.31E-07 0.271780916 0.363336603 511.558067 1701549.89 0.050380852 0.670158745 5.57E-05 4.254208176 -0.77891318 GLPPS(ph)MER ddPTM_HeLa_SAHA_4h_R1 7 GLPPSMER 8 0 P38159;P38159-2;H3BUY5 P38159 RBMX "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed" 1 0 GLPPS(1)MER;GLPPS(1)MER;GLPPS(1)MER;GLPPS(1)MER;GLPPS(1)MER;GLPPS(1)MER;GLPPS(1)MER ;;;;;; 156.83 4.16E-05 495025300 33745.3 31460.7 27969.7 33932.3 32645.6 37863.9 33708.1 33909.9 30216.7 30658.4 TRUE FALSE FALSE 37294.78548 32480.04732 31781.26506 34589.10873 30144.30118 34637.6827 29915.17587 33042.53386 30006.41952 31980.23366 1.166182395 1.015628831 0.993778388 1.081577736 0.942591649 1.083096611 0.935427058 1.033217399 0.938280184 1 14.96489286 -7.045400268 24.80756578 1.079129271 1.01088189 0 0.074188554 536.4671569 293134.9144 0.012076989 0.014791637 9.01E-08 7.045400268 -0.068247381 GLPPS(ph)VER ddPTM_HeLa_SAHA_4h_R1 1 GLPPSVER 8 0 Q96E39 Q96E39 RBMXL1 "RNA binding motif protein, X-linked-like-1" 1 0 GLPPS(1)VER 93.178 0.015721 3227000 1924.6 1675.6 1756.1 2301.4 2313.3 2108.2 2209.2 2176.5 2164 1600.1 TRUE FALSE FALSE 2127.038258 1729.890539 1995.412163 2345.946925 2136.055454 1928.5695 1960.615002 2120.828282 2148.940548 1669.088142 1.27437144 1.036428512 1.195510358 1.405526087 1.279773908 1.155462945 1.174662352 1.270650859 1.287493748 1 10.70484443 -9.521267349 0.697640387 0.95762011 1.228471473 0 0.128316446 0.849917929 0.545127039 0.147167118 0.019581016 3.01E-10 9.521267349 0.270851363 GLPSPYNMSSAPGS(ph)R ddPTM_HeLa_SAHA_4h_R1 3 GLPSPYNMSSAPGSR 15 0 P15924-2;P15924-3;P15924 P15924-2 DSP Desmoplakin 1 0 GLPSPYNMS(0.007)S(0.015)APGS(0.978)R;GLPSPYNMSS(0.001)APGS(0.999)R;GLPSPYNMSSAPGS(1)R ;; 129.36 0.00032381 19047300 2334.13 3013.19 2140.29 2311.48 2820.46 3355.24 3025.06 2947.77 2964.61 2675.7 TRUE FALSE FALSE 2579.644503 3110.819333 2431.957575 2356.222038 2604.356964 3069.354676 2684.672287 2872.370312 2943.979038 2791.062522 0.92425178 1.114564546 0.871337548 0.844202528 0.933105921 1.09970832 0.961881816 1.029131483 1.054787922 1 11.44659873 -5.298682898 24.96853538 0.956851312 1.023404769 0.11777508 0.082216718 837.8099182 561677.4965 0.011153211 0.024940077 5.03E-06 5.298682898 0.066553457 GLPSTAS(ph)GR ddPTM_HeLa_SAHA_4h_R1 2 GLPSTASGR 9 0 H7BYT1;P48730-2;P48730 H7BYT1 CSNK1D Casein kinase I isoform delta 1 0 GLPST(0.036)AS(0.964)GR;GLPSTAS(1)GR ; 120.63 0.0035463 19630800 4283.2 3704.9 3182.7 4283.2 4059.4 4328.6 3610.1 4476.8 4773.4 4471.4 TRUE FALSE FALSE 4733.726628 3824.941191 3616.421781 4366.10753 3748.369649 3959.778928 3203.882047 4362.289938 4740.181521 4664.183937 1.014909938 0.820066542 0.775360027 0.936092485 0.80364962 0.848975723 0.686911599 0.935273994 1.016293865 1 12.18740897 -7.261023748 24.98310123 1.007040806 0.825768435 0.592223386 0.068733209 16.8507469 1012886.202 0.01055705 0.012516666 5.48E-08 7.261023748 -0.181272371 GLPWSCSADEVQR ddPTM_HeLa_SAHA_4h_R1 1 GLPWSCSADEVQR 13 0 P31943;G8JLB6;E9PCY7;D6RBM0;D6RIT2;D6RJ04;D6RDU3;D6RIU0;E5RGV0;D6RFM3;D6R9T0;D6RAM1;D6RIH9;E7EN40;D6RDL0;D6RF17;D6R9D3;E7EQJ0 P31943;E7EQJ0 HNRNPH1 "Heterogeneous nuclear ribonucleoprotein H;Heterogeneous nuclear ribonucleoprotein H, N-terminally processed" 0 0 120.86 0.0010007 0 800.79 581.84 515.75 677.01 549.34 740.4 506.06 718.95 667.38 608.96 FALSE FALSE TRUE 885.0207664 600.6919978 586.0337241 690.1145075 507.2496879 677.3137546 449.1167969 700.5603 662.7356482 635.2152458 1.393261217 0.945651103 0.922575029 1.086426234 0.798547723 1.066274399 0.707030884 1.102870727 1.043324531 1 9.311101729 -7.158875135 11.35023704 1.185680648 0.94081984 0.24730557 0.153711715 0.556629563 59.02270936 0.029207225 0.03577811 6.94E-08 7.158875135 -0.244860808 GLQTSQDAR ddPTM_HeLa_SAHA_4h_R1 2 GLQTSQDAR 9 0 P27797 P27797 CALR Calreticulin 0 0 ; ; 129.42 0.011425 5656080 3253.29 3347.03 3223.51 3362.75 2887.04 3296.42 3033.81 2237.49 2546.74 2975.3 FALSE FALSE TRUE 3595.485969 3455.475968 3662.793155 3427.840889 2665.835619 3015.546471 2692.437714 2180.258246 2529.017029 3103.579744 1.158496403 1.11338398 1.180183355 1.104479721 0.85895509 0.971634925 0.867526513 0.702497898 0.814870968 1 11.5997175 -4.651920259 0.797201376 1.087443975 0.628455508 0.45314383 0.113889714 0.742763598 0.475754471 0.014762044 0.266379702 2.23E-05 4.651920259 -0.458988468 GLQVDLQS(ph)DGAAAEDIVASEQSLGQK ddPTM_HeLa_SAHA_4h_R1 2 GLQVDLQSDGAAAEDIVASEQSLGQK 26 0 A0A3B3ITP6;A0A3B3IT92;P33991;A0A3B3IS57;A0A3B3IU45 A0A3B3ITP6 MCM4 DNA replication licensing factor MCM4 1 0 GLQVDLQS(1)DGAAAEDIVASEQSLGQK;GLQVDLQS(1)DGAAAEDIVASEQSLGQK ; 184.28 1.10E-15 12307100 2294.15 2828.3 2370.11 2274.05 2532.64 2617.86 3230.3 2753.31 2756.9 2878 TRUE FALSE FALSE 2535.459223 2919.938776 2693.096248 2318.067526 2338.58967 2394.8036 2866.818142 2682.884317 2737.714508 3002.084665 0.844566195 0.972637051 0.897075382 0.772152616 0.77898858 0.797713545 0.954942469 0.893673769 0.911937808 1 11.55174895 -9.781765465 0.461279842 1.066431754 0.855049763 0.170308305 0.070498029 2.384557107 0.494100568 0.250925033 0.019177713 1.65E-10 9.781765465 -0.211381991 GLRLIY(ph)Y(ph)S(ph)VAAALT(ph)DK ddPTM_HeLa_SAHA_4h_R1 1 GLRLIYYSVAAALTDK 16 1 A0A0A0MS04 A0A0A0MS04 TRBV6-7 4 0 GLRLIY(1)Y(1)S(1)VAAALT(1)DK 40.137 0.020955 19496000 1869.5 1276.4 1305.7 1457 1330.4 2192.2 2028.2 1993.6 1413.7 1476.6 TRUE FALSE FALSE 2066.142588 1317.756197 1483.633996 1485.202342 1228.465039 2005.412227 1799.981598 1942.606599 1403.861947 1540.263452 1.34142155 0.855539483 0.963233916 0.964252148 0.797568129 1.301992996 1.1686193 1.261217096 0.911442743 1 10.58896142 GLS(ph)GEEEDDEPDCCNDER ddPTM_HeLa_SAHA_4h_R1 3 GLSGEEEDDEPDCCNDER 18 0 A0A087WW12;A0A087WZ11;Q6P158-3;Q6P158-2;Q6P158 A0A087WW12 DHX57 Putative ATP-dependent RNA helicase DHX57 1 0 GLS(1)GEEEDDEPDCCNDER;GLS(1)GEEEDDEPDCCNDER;GLS(1)GEEEDDEPDCCNDER ;; 246.75 9.25E-38 35373100 1438.92 2626.67 1709.09 2389.73 1946.66 2663.39 2294.66 1999.84 3493.7 2259.68 TRUE FALSE FALSE 1590.272208 2711.775831 1941.995885 2435.98668 1797.507331 2436.454188 2036.458818 1948.686989 3469.387057 2357.105863 0.674671525 1.150468409 0.823889972 1.033465114 0.762590836 1.033663454 0.863965785 0.826728667 1.471884276 1 11.20280084 -7.293290057 24.99902681 0.846372695 0.923149834 0 0.238502702 1691.074418 1327289.491 0.026339974 0.030122214 5.09E-08 7.293290057 0.076777139 GLS(ph)PADVAQEHLK ddPTM_HeLa_SAHA_4h_R1 1 GLSPADVAQEHLK 13 0 P10070 P10070 GLI2 Zinc finger protein GLI2 1 0 GLS(1)PADVAQEHLK 109.36 0.0021285 2611000 1469.6 1251.2 1386.4 1817.8 1762.6 2006.1 1492.5 1458.5 1634.7 1729.3 TRUE FALSE FALSE 1624.179271 1291.739701 1575.331372 1852.986148 1627.549969 1835.168994 1324.559972 1421.193682 1623.32399 1803.858586 0.900391684 0.716098097 0.873312012 1.027234708 0.902260289 1.017357463 0.734292578 0.787863136 0.899917545 1 10.81687053 -13.52287875 0.171520282 1.532338528 0.842576639 0.0249637 0.104750835 75.91411156 0.846808355 13.38887096 0.165562521 3.00E-14 13.52287875 -0.689761889 GLS(ph)SAGGGSPHREDAQPEHSASAR ddPTM_HeLa_SAHA_4h_R1 1 GLSSAGGGSPHREDAQPEHSASAR 24 1 Q92994-9;Q92994-3;Q92994-7;Q92994-8;Q92994-5;Q92994 Q92994-9 BRF1 Transcription factor IIIB 90 kDa subunit 1 0 GLS(0.458)S(0.387)AGGGS(0.155)PHREDAQPEHSASAR 55.744 0.0052882 4882700 711.88 946.11 574.48 973.78 1704 1868.7 917.1 1304.8 996.03 1030 TRUE FALSE FALSE 786.7588046 976.7645848 652.7671426 992.62892 1573.439888 1709.476247 813.9054943 1271.425105 989.0985461 1074.408341 0.732271684 0.90911858 0.607559638 0.923884228 1.464471029 1.591086165 0.757538325 1.183372334 0.92059835 1 10.06932669 -5.907714311 7.370653824 0.851696252 1.236858852 0.430539518 0.226735509 0.188232171 13.01728305 0.035066709 0.063823189 1.24E-06 5.907714311 0.385162599 GLS(ph)SSEKDNIER ddPTM_HeLa_SAHA_4h_R1 1 GLSSSEKDNIER 12 1 Q8IYH5-2;Q8IYH5;Q8IYH5-4 Q8IYH5-2 ZZZ3 ZZ-type zinc finger-containing protein 3 1 0 GLS(0.984)S(0.016)SEKDNIER 138.31 1.62E-05 0 1582.7 1478.9 1616.8 1620.9 1792 1574.9 1734.7 1523.1 1375.4 1375.8 TRUE FALSE FALSE 1749.175648 1526.81733 1837.129084 1652.274863 1654.697347 1440.70966 1539.506991 1484.141307 1365.828479 1435.117471 1.218837958 1.06389711 1.280124534 1.151316806 1.15300481 1.003896677 1.072739355 1.034160156 0.951718941 1 10.48695312 -5.264115023 24.90370549 1.122681759 1.040512792 0.133095116 0.0926974 356.3920142 3317157.336 0.014022397 0.032701091 5.44E-06 5.264115023 -0.082168967 GLSAS(ph)LPDLDSENWIEVK ddPTM_HeLa_SAHA_4h_R1 6 GLSASLPDLDSENWIEVK 18 0 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50;H0YBW1;H0YC73 Q6PKG0 LARP1 La-related protein 1 1 0 GLS(0.126)AS(0.832)LPDLDS(0.041)ENWIEVK;GLSAS(1)LPDLDSENWIEVK;GLS(0.004)AS(0.984)LPDLDS(0.013)ENWIEVK;GLS(0.002)AS(0.982)LPDLDS(0.016)ENWIEVK;GLS(0.018)AS(0.982)LPDLDS(0.001)ENWIEVK;GLS(0.218)AS(0.782)LPDLDSENWIEVK ;;;;; 225.17 1.45E-28 3277157000 5373.2 4917.948 4668.714 5054.47 5449.24 6127.63 6347.99 5927.53 6420.47 5219.38 TRUE FALSE FALSE 5938.377829 5077.292742 5304.94203 5152.306576 5031.720408 5605.521451 5633.697458 5775.912366 6375.789427 5444.413015 1.090728755 0.932569357 0.974382733 0.946347487 0.92419888 1.029591516 1.034766731 1.060887987 1.171070124 1 12.4105608 -7.264365923 24.99265599 1.042844133 0.985289286 0.286082577 0.062324296 334.0486503 2852762.261 0.009482016 0.011110315 5.44E-08 7.264365923 -0.057554847 GLSAS(ph)TMDLSSSS ddPTM_HeLa_SAHA_4h_R1 2 GLSASTMDLSSSS 13 0 Q9NSK0-5;Q9NSK0;Q9NSK0-3 Q9NSK0-5 KLC4 Kinesin light chain 4 1 0 GLS(0.112)AS(0.775)T(0.112)MDLSSSS;GLS(0.061)AS(0.47)T(0.47)MDLSSSS ; 123.67 0.00018981 4106300 2939.4 2889 2268.91 2871.89 3229.5 3557.9 3029 3193.8 2847.6 2847 TRUE FALSE FALSE 3248.579578 2982.605496 2578.105239 2927.479584 2982.056408 3254.746904 2688.168948 3112.107221 2827.78332 2969.748103 1.093890615 1.004329456 0.868122531 0.985766968 1.004144562 1.095967332 0.905184162 1.047936429 0.952196355 1 11.53612485 -7.010811062 24.96398378 1.044588437 0.982703379 0 0.07046014 737.9156125 1703934.901 0.011050444 0.01400904 9.75E-08 7.010811062 -0.061885058 GLSASLPDLDS(ph)ENWIEVK ddPTM_HeLa_SAHA_4h_R1 1 GLSASLPDLDSENWIEVK 18 0 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50;H0YBW1;H0YC73 Q6PKG0 LARP1 La-related protein 1 1 0 GLSAS(0.166)LPDLDS(0.834)ENWIEVK 119.92 9.07E-05 0 0 141.2 135.72 0 163.26 241.75 128.41 240.85 163.05 146.02 TRUE FALSE FALSE 0 145.7749726 154.2152148 0 150.7510541 221.15154 113.9609688 234.6894057 161.9153218 152.3156368 0 0.957058485 1.012471326 0 0.989728023 1.451929326 0.748189557 1.540809668 1.063024947 1 7.250920247 -5.535594876 24.44930886 0.557356888 1.201052799 0.244468541 0.42699835 166.1698859 319494.2082 0.068086567 0.136246668 2.91E-06 5.535594876 0.643695911 GLSDHVS(ph)LDGQELGTR ddPTM_HeLa_SAHA_4h_R1 3 GLSDHVSLDGQELGTR 16 0 Q7L8J4-2;Q7L8J4 Q7L8J4-2 SH3BP5L SH3 domain-binding protein 5-like 1 0 GLS(0.006)DHVS(0.994)LDGQELGTR;GLS(0.013)DHVS(0.987)LDGQELGTR;GLSDHVS(1)LDGQELGTR ;; 93.029 0.0045612 53682000 5626.6 8613.4 4217.6 7554.6 11436 14551.8 9027.4 10625.2 8132.5 7952.2 TRUE FALSE FALSE 6218.431604 8892.479811 4792.352564 7700.830207 10559.77615 13311.90477 8011.613193 10353.42277 8075.90527 8295.058259 0.749654964 1.072021381 0.577735854 0.928363607 1.273020131 1.604799431 0.965829647 1.248143466 0.973580295 1 13.0180364 -5.790661922 5.320967015 0.871004357 1.276294412 0.493808538 0.193489472 0.116062402 8.579611864 0.028518532 0.053821507 1.62E-06 5.790661922 0.405290055 GLSEDTTEETLK ddPTM_HeLa_SAHA_4h_R1 2 GLSEDTTEETLK 12 0 P19338;H7BY16 P19338 NCL Nucleolin 0 0 ; ; 169.99 0.00046277 24627000 3853.4 2299.3 2507.57 2846.4 2737.2 3567.1 3448.8 3210.1 3864.7 3550.3 FALSE FALSE TRUE 4258.718292 2373.798829 2849.288581 2901.496188 2527.476327 3263.163012 3060.731947 3127.99029 3837.805238 3703.370808 1.149957299 0.640983297 0.76937707 0.783474391 0.682479951 0.881133211 0.826471911 0.844633296 1.036300559 1 11.85462329 -7.268401412 24.99907024 1.070813172 0.778022919 0.748369737 0.07609088 207.621924 745521.6721 0.014641743 0.016934426 5.39E-08 7.268401412 -0.292790253 GLSEDTTEETLKESFDGSVR ddPTM_HeLa_SAHA_4h_R1 2 GLSEDTTEETLKESFDGSVR 20 1 P19338;H7BY16 P19338 NCL Nucleolin 0 0 ; ; 206.62 2.82E-20 79961000 5133.5 6312.8 6078.7 6868.3 6379.6 6643.7 6960.3 6831.1 5775 5531.2 FALSE FALSE TRUE 5673.465083 6517.338862 6907.073579 7001.245878 5890.796426 6077.619384 6177.108725 6656.370353 5734.811305 5769.677101 0.98332454 1.12958468 1.197133472 1.213455408 1.020992392 1.053372533 1.070616018 1.153681608 0.993957063 1 12.49427487 -7.26216399 24.9880112 0.992125476 1.118156854 0.509843612 0.057229902 41.31636534 1424780.905 0.010367905 0.012237 5.47E-08 7.26216399 0.126031379 GLSGSFPLVLK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 GLSGSFPLVLKK 12 1 Q10587 Q10587 TEF Thyrotroph embryonic factor 0 1 ; GLSGSFPLVLK(1)K;GLSGSFPLVLK(1)K 159.83 2.78E-07 663640 74.939 388.88 202.996 217.1 146.8 423.6 502.33 215.17 0 156.88 FALSE TRUE FALSE 82.82142785 401.4799672 230.6592377 221.3022844 135.5522157 387.5068969 445.8065063 209.666263 0 163.6438646 0.506107749 2.453376228 1.40951962 1.352340859 0.828336682 2.367989157 2.724248218 1.281235099 0 1 7.354415703 -7.277264872 24.97789187 0.766773086 1.766675868 0.451181876 0.622553599 612.5049328 966734.3908 0.101769969 0.116580337 5.28E-08 7.277264872 0.999902782 GLSHS(ph)PWAVK ddPTM_HeLa_SAHA_4h_R1 1 GLSHSPWAVK 10 0 Q96KB5;Q96KB5-2;E5RFX4 Q96KB5 PBK Lymphokine-activated killer T-cell-originated protein kinase 1 0 GLS(0.007)HS(0.993)PWAVK 76.326 0.02318 4822200 4700.5 5458 4510.1 5601.7 6150.5 5812.3 5910.7 5126.5 6782.3 5517.1 TRUE FALSE FALSE 5194.920157 5634.842781 5124.71294 5710.129004 5679.250019 5317.059341 5245.61248 4995.371553 6735.101422 5754.969181 0.90268427 0.979126491 0.890484863 0.992208442 0.986842821 0.923907526 0.911492714 0.868010131 1.170310598 1 12.49059249 GLSHSPWAVK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 GLSHSPWAVKK 11 1 Q96KB5;Q96KB5-2;E5RFX4 Q96KB5 PBK Lymphokine-activated killer T-cell-originated protein kinase 0 1 GLSHSPWAVK(1)K 75.229 0.007855 0 1060 1090.7 1816.4 2002.7 1669.2 539.61 1919.7 446.51 324.29 754.37 FALSE TRUE FALSE 1171.495663 1126.039396 2063.929533 2041.465154 1541.306257 493.6321922 1703.690304 435.0889207 322.0332395 786.8945825 1.488758074 1.43099142 2.622879327 2.594331185 1.958720127 0.627316801 2.165080738 0.552918943 0.409245719 1 9.620026566 -8.117222659 0.986885183 1.09250421 1.742024097 0.197244696 0.706172771 0.685075526 1.409803956 0.198715882 0.14658259 7.63E-09 8.117222659 0.649519887 GLSPLPSPPEMMPT(ph)SPQSPR ddPTM_HeLa_SAHA_4h_R1 1 GLSPLPSPPEMMPTSPQSPR 20 0 A0A075B6G3;P11532-4;A0A087WTU7;A0A5H1ZRP8;A0A087WV90;P11532-11;P11532;P11532-16;A0A5H1ZRQ1;P11532-12;P11532-14;P11532-15;H0Y304;A0A5H1ZRR9;P11532-2;P11532-13;P11532-3;A0A5H1ZRQ8;A0A5H1ZRP9;P11532-8;P11532-9;A0A5H1ZRP7;P11532-7;P11532-5;P11532-6;P11532-17 A0A075B6G3 DMD Dystrophin 1 0 GLS(0.032)PLPS(0.004)PPEMMPT(0.696)S(0.121)PQS(0.147)PR 68.525 0.014846 2140800 344.51 400.96 326.48 306.28 327.38 273.9 381.13 262.69 216.29 376.39 TRUE FALSE FALSE 380.7471425 413.9513671 370.9709942 312.2084923 302.2962151 250.5621791 338.2442493 255.9707702 214.7848203 392.6180149 0.96976483 1.054336152 0.944864933 0.795196553 0.769949935 0.638183093 0.861509754 0.651958801 0.547057985 1 8.616982561 -6.204839914 2.309521868 0.991149778 0.73427973 0.114641498 0.153422117 0.091220886 0.951757137 0.00881549 0.015451993 6.24E-07 6.204839914 -0.256870047 GLSPLPSPPEMMPTSPQS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 GLSPLPSPPEMMPTSPQSPR 20 0 A0A075B6G3;P11532-4;A0A087WTU7;A0A5H1ZRP8;A0A087WV90;P11532-11;P11532;P11532-16;A0A5H1ZRQ1;P11532-12;P11532-14;P11532-15;H0Y304;A0A5H1ZRR9;P11532-2;P11532-13;P11532-3;A0A5H1ZRQ8;A0A5H1ZRP9;P11532-8;P11532-9;A0A5H1ZRP7;P11532-7;P11532-5;P11532-6;P11532-17 A0A075B6G3 DMD Dystrophin 1 0 GLSPLPSPPEMMPT(0.066)S(0.066)PQS(0.868)PR 105.65 0.00063286 2819300 465.29 613.89 581.51 519.15 368.97 540.02 656.69 471.57 573.84 678.42 TRUE FALSE FALSE 514.231337 633.7804388 660.7551544 529.198899 340.6995983 494.0072579 582.7975129 459.5079222 569.8466007 707.6700063 0.726654136 0.895587538 0.933705185 0.747804618 0.481438517 0.698075732 0.823544177 0.649325135 0.805243398 1 9.466932964 -6.008194586 24.57974499 0.872711965 0.669250862 0.478741384 0.103265879 263.3580994 789950.117 0.019067757 0.033426673 9.81E-07 6.008194586 -0.203461102 GLSSAGGGS(ph)PHREDAQPEHSASAR ddPTM_HeLa_SAHA_4h_R1 1 GLSSAGGGSPHREDAQPEHSASAR 24 1 Q92994-9;Q92994-3;Q92994-7;Q92994-8;Q92994-5;Q92994 Q92994-9 BRF1 Transcription factor IIIB 90 kDa subunit 1 0 GLS(0.097)S(0.103)AGGGS(0.8)PHREDAQPEHSASAR 52.522 0.0070766 3728700 282.52 348.9 120.71 282.78 795.05 734.4 454.64 638.96 246.9 467.46 TRUE FALSE FALSE 312.2367498 360.2045889 137.1597302 288.2536158 734.1334408 671.8249884 403.4827107 622.6163284 245.1818028 487.6144883 0.640335259 0.738707724 0.281287233 0.591150638 1.505561173 1.377778972 0.827462515 1.276861831 0.502818945 1 8.929597183 -5.769950935 24.99895014 0.757905544 1.226302514 0.55565674 0.256008397 142.9556961 419870.4135 0.041422952 0.075961379 1.70E-06 5.769950935 0.46839697 GLT(ph)SVINQK ddPTM_HeLa_SAHA_4h_R1 1 GLTSVINQK 9 0 A0A5F9ZHM4;P07195 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain 1 0 GLT(0.95)S(0.05)VINQK 156.16 0.00027813 5743800 2851.3 2082.7 1835.2 2267.7 2420.4 3507.9 2646.9 2697.5 2907.9 2234.7 TRUE FALSE FALSE 3151.212816 2150.180847 2085.291499 2311.594613 2234.949475 3209.007185 2349.063846 2628.501856 2887.663687 2331.048853 1.351843318 0.922409174 0.894572199 0.991654297 0.958774189 1.376636607 1.007728277 1.127604791 1.238782998 1 11.18676352 -11.4138702 12.73569986 0.820844659 1.11442333 0 0.170218245 0 0 0 0.025491192 3.86E-12 11.4138702 0.29357867 GLTEQEVETILDK ddPTM_HeLa_SAHA_4h_R1 1 GLTEQEVETILDK 13 0 Q13618-3;Q13618-2;Q13618 Q13618-3 CUL3 Cullin-3 0 0 136.01 0.0031871 1495700 691.15 536.39 280.46 326.13 477.16 546.06 530.9 651.17 481.13 548.78 FALSE FALSE TRUE 763.8483281 553.7693879 318.6796282 332.4427177 440.6001039 499.532616 471.1617347 634.5140143 477.7817772 572.4405915 1.334371356 0.967383159 0.556703408 0.580746234 0.769687039 0.872636608 0.823075341 1.108436445 0.834639933 1 9.160982166 -7.000192821 24.99996173 1.157528101 0.77933693 0.251347222 0.191928853 4.653691481 603469.5478 0.031014895 0.040522368 1.00E-07 7.000192821 -0.378191171 GLTPSQIGVILR ddPTM_HeLa_SAHA_4h_R1 2 GLTPSQIGVILR 12 0 P62277;J3KMX5 P62277 RPS13 40S ribosomal protein S13 0 0 ; ; 199.33 2.17E-23 4839500 731.29 1014.53 766.76 1121.91 1067.9 1354.61 1247.05 978.96 1503.2 1170.41 FALSE FALSE TRUE 808.2104375 1047.401438 871.2500597 1143.62619 986.0777327 1239.189607 1106.728652 953.9196207 1492.739109 1220.872103 0.661994353 0.8579125 0.713629264 0.936728907 0.807683074 1.015003623 0.906506627 0.781342795 1.222682626 1 10.25369636 -4.207765204 19.81124355 0.849320774 0.781338051 0 0.159929799 12161.24314 4486932.838 0.019172265 14.05528664 6.20E-05 4.207765204 -0.067982723 GLTSVINQK ddPTM_HeLa_SAHA_4h_R1 2 GLTSVINQK 9 0 A0A5F9ZHM4;P07195 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain 0 0 ; ; 130.96 0.0020078 8303400 3192.3 3143.8 2974.3 3661.6 3790 3739.2 4285.5 3476.4 3813 3586.9 FALSE FALSE TRUE 3528.080761 3245.661183 3379.622115 3732.475563 3499.611019 3420.599124 3803.284261 3387.478722 3786.465023 3741.548813 0.942946608 0.86746461 0.903268214 0.997575002 0.935337528 0.914220098 1.016499971 0.905368042 1.01200471 1 11.86941988 -8.818740431 0.988531119 0.995752073 0.937371593 0.296581319 0.042402339 0.545758918 1.054709971 0.018480636 0.008190291 1.52E-09 8.818740431 -0.05838048 GLVAAYSGDS(ph)DNEEELVER ddPTM_HeLa_SAHA_4h_R1 4 GLVAAYSGDSDNEEELVER 19 0 P52756 P52756 RBM5 RNA-binding protein 5 1 0 GLVAAYSGDS(1)DNEEELVER;GLVAAYSGDS(1)DNEEELVER;GLVAAYSGDS(1)DNEEELVER;GLVAAYSGDS(1)DNEEELVER ;;; 334.98 2.91E-143 114481000 4789.24 6457.5 5333.6 6064 6403.7 7769 6247.4 5416.5 7732.9 6727.5 TRUE FALSE FALSE 5292.994237 6666.727237 6060.435232 6181.377489 5913.049889 7107.037493 5544.42611 5277.953773 7679.086119 7017.555449 0.754250433 0.950007062 0.863610594 0.880844837 0.842608218 1.01275117 0.790079416 0.752107171 1.094267965 1 12.77675284 -9.602971906 1.406011461 0.999895092 0.847432814 0.423784671 0.084112538 0.403884395 1.434401863 0.05763715 0.013346637 2.49E-10 9.602971906 -0.152462278 GLVAAYSGES(ph)DSEEEQER ddPTM_HeLa_SAHA_4h_R1 1 GLVAAYSGESDSEEEQER 18 0 P98175-2;P98175;P98175-5;P98175-4;P98175-3 P98175-2 RBM10 RNA-binding protein 10 1 0 GLVAAYS(0.039)GES(0.924)DS(0.037)EEEQER 171.87 8.12E-09 3144800 667.77 659.76 553.46 813.92 706.26 951.45 874.63 908.99 1179.5 784.16 TRUE FALSE FALSE 738.0091124 681.1366569 628.8826465 829.6745985 652.1465114 870.3811073 776.2143305 885.739352 1171.291763 817.9689752 0.902245849 0.832716983 0.768834351 1.014310596 0.797275363 1.064075941 0.948953266 1.082852014 1.431951332 1 9.675902314 -5.213125549 24.99956567 0.924917173 1.023659707 0 0.181961449 508.4418488 263087.9051 0.012889435 0.03286168 6.12E-06 5.213125549 0.098742534 GLVGEIIK ddPTM_HeLa_SAHA_4h_R1 1 GLVGEIIK 8 0 P15531;P15531-2;E7ERL0;E5RHP0;C9K028;Q32Q12;P22392-2;J3KPD9;P22392;F6XY72 P15531;Q32Q12 NME1;NME1-NME2;NME2 Nucleoside diphosphate kinase A;Nucleoside diphosphate kinase;Nucleoside diphosphate kinase B 0 0 124.08 0.002209 1987400 2408.4 2435.5 3005.5 2784 3375.4 2163.1 3048.2 1787.3 1384.9 1809.2 FALSE FALSE TRUE 2661.726562 2514.411798 3415.073888 2837.888346 3116.777581 1978.791711 2705.208514 1741.583454 1375.262368 1887.203466 1.410407839 1.332348018 1.809594964 1.50375325 1.651532353 1.048531198 1.433448254 0.922838202 0.728730311 1 10.88203426 -9.059300815 0.847281031 1.000814007 1.402923646 0.359497863 0.262417081 0.643537265 0.841400043 0.159039484 0.04816099 8.72E-10 9.059300815 0.402109639 GLVGEIIK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GLVGEIIKR 9 1 P15531;P15531-2;E7ERL0;E5RHP0;C9K028;Q32Q12;P22392-2;J3KPD9;P22392;F6XY72 P15531;Q32Q12 NME1;NME1-NME2;NME2 Nucleoside diphosphate kinase A;Nucleoside diphosphate kinase;Nucleoside diphosphate kinase B 0 1 ; GLVGEIIK(1)R;GLVGEIIK(1)R 133.23 0.00045606 17452800 2763.8 7097.3 3568.4 4243.8 6852.5 6461.4 7179.7 4473.6 5674.2 2195.7 FALSE TRUE FALSE 3054.509165 7327.257177 4054.682969 4325.944886 6327.46293 5910.852369 6371.82126 4359.17179 5634.71278 2290.367372 1.333632849 3.199162398 1.770319913 1.888755899 2.762641053 2.580744225 2.782008396 1.903263137 2.460178593 1 11.16136331 -7.413302431 6.59707758 1.145637675 2.400375288 0.183366468 0.600536629 0.109099725 5.750225104 0.07331951 0.08343479 3.86E-08 7.413302431 1.254737613 GLVGEIIKR ddPTM_HeLa_SAHA_4h_R1 1 GLVGEIIKR 9 1 P15531;P15531-2;E7ERL0;E5RHP0;C9K028;Q32Q12;P22392-2;J3KPD9;P22392;F6XY72 P15531;Q32Q12 NME1;NME1-NME2;NME2 Nucleoside diphosphate kinase A;Nucleoside diphosphate kinase;Nucleoside diphosphate kinase B 0 0 76.827 0.019804 4479300 3414.4 3413.3 3660.5 3757.9 4322.3 4521.5 4204.7 3852.9 4410 4334.2 FALSE FALSE TRUE 3773.542258 3523.89316 4159.333877 3830.639589 3991.126308 4136.242763 3731.57609 3754.348397 4379.310451 4521.068573 0.834657161 0.779438113 0.919989115 0.847286328 0.882783847 0.914881669 0.825374805 0.830411735 0.968644996 1 12.14244808 -9.241340883 0.93178492 1.001683779 0.855303092 0.607582415 0.04144034 0.295352796 0.452637767 0.029418384 0.007765881 5.74E-10 9.241340883 -0.146380687 GLVGPELHDR ddPTM_HeLa_SAHA_4h_R1 1 GLVGPELHDR 10 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 102.52 0.0092282 5008900 2212.9 2164.4 2451.7 2464.8 2291 2461 2388.5 2457.9 2488.2 2486.1 FALSE FALSE TRUE 2445.662975 2234.52798 2785.804908 2512.509768 2115.464075 2251.308955 2119.739694 2395.030477 2470.884414 2593.287938 0.943074211 0.861658263 1.074236635 0.96885106 0.815745928 0.868129189 0.817394653 0.923549769 0.952799871 1 11.34056668 -5.774320279 24.69103284 0.971363943 0.854284468 0.473815863 0.056942812 120.203225 230414.3644 0.008284405 0.015088009 1.68E-06 5.774320279 -0.117079475 GLVLDHGAR ddPTM_HeLa_SAHA_4h_R1 2 GLVLDHGAR 9 0 P40227;P40227-2 P40227 CCT6A T-complex protein 1 subunit zeta 0 0 ; ; 154.12 0.0002725 10029100 14112.5 14263 14441.2 16554.7 15944 14883.5 16599.4 12671.7 12841.7 14397.7 FALSE FALSE TRUE 15596.9175 14725.13056 16409.17153 16875.14016 14722.37416 13615.34207 14731.59182 12347.57626 12752.33356 15018.45531 1.038516757 0.980469047 1.092600483 1.123626885 0.980285513 0.906574064 0.980899268 0.822160203 0.849110864 1 13.87444881 -5.43175863 4.25056257 1.029007756 0.912181573 0.268342427 0.078630436 0.149630006 4.770368527 0.007851857 0.01802067 3.70E-06 5.43175863 -0.116826183 GLVQALGLSNFNSR ddPTM_HeLa_SAHA_4h_R1 1 GLVQALGLSNFNSR 14 0 P14550 P14550 AKR1A1 Alcohol dehydrogenase [NADP(+)] 0 0 142.76 0.00032073 541580 0 206.62 252.24 149.4 146.75 0 225.4 0 0 0 FALSE FALSE TRUE 0 213.3146236 286.6139536 152.291853 135.5060467 0 200.0373988 0 0 0 0 GLVSDGTS(ph)PGER ddPTM_HeLa_SAHA_4h_R1 2 GLVSDGTSPGER 12 0 Q9NRF2-3;Q9NRF2-2;Q9NRF2 Q9NRF2-3 SH2B1 SH2B adapter protein 1 1 0 GLVSDGT(0.055)S(0.945)PGER;GLVS(0.001)DGT(0.105)S(0.895)PGER ; 117.27 0.0016688 12176500 6237.9 6378.3 6128.8 7110.3 7682.4 8565 7093.1 7568.2 7552.4 6597.2 TRUE FALSE FALSE 6894.030943 6584.961105 6964.000947 7247.930138 7093.776172 7835.213815 6294.96572 7374.616403 7499.842233 6881.637578 1.001800932 0.956888681 1.011968571 1.053227528 1.030826761 1.138568215 0.914748219 1.071636848 1.089833946 1 12.7485362 -6.478779399 7.081710261 0.996970209 1.038978766 0.032562604 0.060788765 0.374775045 50.12445264 0.007580024 0.011502452 3.32E-07 6.478779399 0.042008558 GLVVDMDGFEEER ddPTM_HeLa_SAHA_4h_R1 2 GLVVDMDGFEEER 13 0 P49588;P49588-2 P49588 AARS "Alanine--tRNA ligase, cytoplasmic" 0 0 ; ; 247.31 2.65E-31 8660100 2537.8 2350 2560.3 2558.8 2679.1 2495.3 2624.9 2034.75 2647.5 3062.9 FALSE FALSE TRUE 2804.737448 2426.141542 2909.204351 2608.329274 2473.827937 2282.686402 2329.539344 1982.704041 2629.075832 3194.956608 0.877864019 0.759366038 0.910561459 0.816389577 0.77429156 0.714465541 0.729130198 0.620573073 0.822883111 1 11.64158062 -2.493838014 0.117966878 1.102583786 5.69E-13 0.552033784 0.068862925 15.91371321 0.185923451 0.23337966 2.811184268 0.003207465 2.493838014 -1.102583786 GLVYETSVLDPDEGIR ddPTM_HeLa_SAHA_4h_R1 2 GLVYETSVLDPDEGIR 16 0 F8W642;F8VZK9;F8VX07;F8VRP1;F8VX68;F8VPF9;F8VPA1;F8VTT8;F8W1S4;F8W4S1;H0YH82;A0A0C4DGI3;B4DJV2;O75390 F8W642 CS "Citrate synthase;Citrate synthase, mitochondrial" 0 0 ; ; 196.67 9.84E-12 15139600 1495.78 2174.86 1595.88 1532.14 1859.16 1977.17 2107.03 2276.01 1967.23 1734.53 FALSE FALSE TRUE 1653.113003 2245.326891 1813.358215 1561.796785 1716.711562 1808.703993 1869.941439 2217.79296 1953.539886 1809.314077 0.913668348 1.240982381 1.002235178 0.863198272 0.948818994 0.999662809 1.033508479 1.225764497 1.079712976 1 10.82122715 -4.182925673 1.876429702 0.97580183 1.339635665 0.263525044 0.100026069 0.871550052 2.655221853 0.0138715 0.589554501 6.56E-05 4.182925673 0.363833835 GLWST(ph)DSAEEDKETK ddPTM_HeLa_SAHA_4h_R1 1 GLWSTDSAEEDKETK 15 1 Q99549-2;Q99549;A0A0A0MT47 Q99549-2 MPHOSPH8 M-phase phosphoprotein 8 1 0 GLWS(0.002)T(0.854)DS(0.144)AEEDKETK 200.19 1.08E-10 9679700 2794.9 2403 2132.8 2258 2435.7 3029.8 2905.4 2608 2184 2404.1 TRUE FALSE FALSE 3088.880405 2480.858777 2423.446877 2301.706855 2249.077192 2771.643995 2578.476745 2541.291136 2168.801366 2507.752516 1.231732551 0.98927576 0.966381994 0.917836525 0.89684974 1.105230272 1.028202236 1.013373975 0.864838676 1 11.29217926 -7.06983528 24.59354961 1.109485954 0.986974928 0 0.107931163 146.2650497 51508.92956 0.016909533 0.020709871 8.51E-08 7.06983528 -0.122511026 GLWSTDS(ph)AEEDKETK ddPTM_HeLa_SAHA_4h_R1 1 GLWSTDSAEEDKETK 15 1 Q99549-2;Q99549;A0A0A0MT47 Q99549-2 MPHOSPH8 M-phase phosphoprotein 8 1 0 GLWS(0.136)T(0.105)DS(0.758)AEEDKET(0.001)K 88.486 0.005409 47352000 3988 3181.2 3214.5 2669 3775.9 4270.8 3867.9 4094.6 3604.5 3247.4 TRUE FALSE FALSE 4407.476138 3284.272967 3652.55532 2720.662354 3486.591358 3906.903813 3432.673712 3989.866061 3579.415991 3387.411306 1.301134034 0.969552461 1.078273345 0.803168588 1.029279011 1.153359737 1.013361946 1.177851079 1.056681834 1 11.72596746 -7.213818246 24.99779587 1.142202419 1.028922355 0.088317696 0.121501591 657.4635752 345123.1776 0.02409374 0.029508664 6.11E-08 7.213818246 -0.113280064 GLYDGPVCEVS(ph)VTPK ddPTM_HeLa_SAHA_4h_R1 2 GLYDGPVCEVSVTPK 15 0 A0A1C7CYX9;Q16555-2;Q16555 A0A1C7CYX9 DPYSL2 Dihydropyrimidinase-related protein 2 1 0 GLYDGPVCEVS(0.983)VT(0.017)PK;GLYDGPVCEVS(0.863)VT(0.137)PK ; 164.7 4.52E-06 232090000 10108.2 10752.9 9843 10925.8 10917.5 12016.4 10935.6 11042.1 10328.3 10024.2 TRUE FALSE FALSE 11171.42685 11101.30102 11184.35278 11137.28466 10081.00351 10992.53512 9705.097507 10759.65907 10256.42452 10456.39232 1.068382527 1.061676023 1.069618702 1.065117329 0.964099586 1.051274166 0.928149711 1.029003 0.980876024 1 13.35209756 -4.786272676 24.9879639 1.03619205 0.978576281 0.198043096 0.043034749 212.8431852 214169.0785 0.005852242 0.017566897 1.64E-05 4.786272676 -0.057615768 GLYDGPVCEVSVT(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 GLYDGPVCEVSVTPK 15 0 A0A1C7CYX9;Q16555-2;Q16555 A0A1C7CYX9 DPYSL2 Dihydropyrimidinase-related protein 2 1 0 GLYDGPVCEVS(0.024)VT(0.976)PK;GLYDGPVCEVS(0.048)VT(0.952)PK ; 246.18 1.86E-33 320200000 7816 7227.4 7616.2 6694.9 7545.3 8169.4 8187 7802.9 6951.2 6837.4 TRUE FALSE FALSE 8638.122741 7461.572502 8654.096073 6824.48947 6967.180744 7473.32116 7265.777213 7603.313116 6902.826033 7132.193775 1.211145268 1.046181965 1.213384878 0.95685699 0.976863636 1.047829237 1.018729642 1.06605532 0.967840506 1 12.80013018 -6.239259658 24.98224223 1.105124947 1.013468171 0.159841142 0.080530474 1015.083465 1143345.425 0.013388964 0.022189227 5.76E-07 6.239259658 -0.091656776 GLYS(ph)RS(ph)GS(ph)LS(ph)GRSSLK ddPTM_HeLa_SAHA_4h_R1 1 GLYSRSGSLSGRSSLK 16 2 Q16512;Q16512-2;Q16512-3 Q16512 PKN1 Serine/threonine-protein kinase N1 4 0 GLY(0.109)S(0.891)RS(0.902)GS(0.627)LS(0.627)GRS(0.423)S(0.423)LK 53.237 0.0083402 0 154.93 153.85 291.75 500.6 389.93 387.81 275.82 144.18 363.68 291.89 TRUE FALSE FALSE 171.2262482 158.8348409 331.5081706 510.2898369 360.0536476 354.7664062 244.7840077 140.4920844 361.1491213 304.4748064 0.562365899 0.521668255 1.088786867 1.675967358 1.182540033 1.165174914 0.803954884 0.461424333 1.186137945 1 8.250179048 -6.723798131 23.19029136 0.767189823 1.089145292 0.100514447 0.341494123 109.3789147 67386.1722 0.055679887 0.078741324 1.89E-07 6.723798131 0.321955469 GMDDDRGPR ddPTM_HeLa_SAHA_4h_R1 1 GMDDDRGPR 9 1 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 110.12 0.0094643 7228500 2430.7 2949.2 2577.1 2887.8 2886.3 3586.3 3464.4 3008.9 3011.6 3387.4 FALSE FALSE TRUE 2686.372178 3044.756015 2928.293767 2943.697545 2665.152318 3280.727064 3074.576594 2931.936695 2990.64203 3533.447392 0.760269471 0.861695584 0.828735635 0.833095054 0.754264044 0.928477688 0.870135099 0.829766619 0.8463808 1 11.78686071 -9.467400364 1.179213074 1.000903945 0.828259873 0.068474477 0.066562095 0.258427346 0.637470264 0.036546418 0.008813539 3.41E-10 9.467400364 -0.172644071 GMDGSTNETAS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 GMDGSTNETASSR 13 0 Q9Y3B9 Q9Y3B9 RRP15 RRP15-like protein 1 0 GMDGSTNET(0.002)AS(0.592)S(0.406)R 89.466 0.019113 2242700 935.82 866.63 899.46 867.75 1142.9 1176.5 1180.2 860.26 751.89 1048.5 TRUE FALSE FALSE 1034.253841 894.7093806 1022.033725 884.546556 1055.331249 1076.255581 1047.40079 838.2557948 746.6575363 1093.705966 0.945641583 0.818052939 0.934468455 0.80876084 0.964913132 0.98404472 0.957662134 0.766436154 0.682685803 1 10.09500922 -7.82416567 1.67190976 0.983680875 0.898432741 0 0.11857452 0.359891399 2.093158171 0.014873763 0.014038931 1.50E-08 7.82416567 -0.085248134 GMDGSTNETASS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 GMDGSTNETASSR 13 0 Q9Y3B9 Q9Y3B9 RRP15 RRP15-like protein 1 0 GMDGSTNETAS(0.093)S(0.907)R;GMDGSTNETAS(0.052)S(0.947)R ; 161.21 5.70E-05 9788600 761.81 782.54 750.79 1063.86 864.45 1230.9 1085.61 983.07 833.59 1088.63 TRUE FALSE FALSE 841.9406711 807.8948094 853.1037513 1084.452549 798.2160278 1126.020395 963.4543056 957.9244929 827.7889793 1135.566167 0.741428105 0.711446706 0.751258514 0.954988428 0.702923397 0.991593822 0.848435198 0.843565545 0.72896587 1 10.14919606 -9.442887273 1.205455172 0.998843425 0.81260466 0 0.12411875 0.412373895 1.082145009 0.062576384 0.016013102 3.61E-10 9.442887273 -0.186238765 GMDKILLS(ph)S(ph)GRDAS(ph)LMVT(ph)NDGATILK ddPTM_HeLa_SAHA_4h_R1 1 GMDKILLSSGRDASLMVTNDGATILK 26 2 P78371;F5GWF6;F8VQ14 P78371 CCT2 T-complex protein 1 subunit beta 4 0 GMDKILLS(1)S(1)GRDAS(0.988)LMVT(0.989)NDGAT(0.024)ILK 53.747 0.0065086 0 626.48 535.91 420.16 544.78 733.23 765.78 702.18 687.38 673.7 433.58 TRUE FALSE FALSE 692.3760408 553.2738356 477.4172167 555.3250047 677.0500758 700.5312358 623.1688584 669.7978149 669.0116668 452.2737557 1.530878217 1.223316252 1.055593456 1.22785149 1.496991738 1.548909763 1.377857659 1.480956625 1.479218412 1 8.821052472 -9.487037636 1.161387128 0.994604182 1.376794706 0 0.210179466 0.403107372 0.950494157 0.126763469 0.029184817 3.26E-10 9.487037636 0.382190524 GMFTKK(ac)LGNTNK(ac)NK ddPTM_HeLa_SAHA_4h_R1 1 GMFTKKLGNTNKNK 14 3 A0A3B3ISZ1;Q8NB66 A0A3B3ISZ1 UNC13C Protein unc-13 homolog C 0 2 GMFTK(0.003)K(0.997)LGNTNK(1)NK 136.96 0.00020865 2807000 244.21 412.89 394.1 357.39 373.3 388.18 253.61 245.38 302.69 179.56 FALSE TRUE FALSE 269.8971283 426.2679069 447.8058956 364.3078002 344.6978346 355.1048802 225.0731353 239.1035349 300.5835556 187.3017103 1.440975247 2.275835635 2.390826516 1.945031893 1.840334688 1.895897691 1.201660865 1.276568882 1.604809455 1 7.549220263 -7.765912781 1.851249756 1.141689148 1.830465557 0.198847769 0.392107466 0.244906604 1.750024919 0.083968175 0.081745879 1.71E-08 7.765912781 0.688776408 GMGPGT(ph)PAGYGR ddPTM_HeLa_SAHA_4h_R1 5 GMGPGTPAGYGR 12 0 P23246 P23246 SFPQ "Splicing factor, proline- and glutamine-rich" 1 0 GMGPGT(1)PAGYGR;GMGPGT(1)PAGYGR;GMGPGT(1)PAGYGR;GMGPGT(0.997)PAGY(0.003)GR;GMGPGT(0.998)PAGY(0.002)GR ;;;; 174.23 9.17E-05 198321400 8860.7 8935.49 7692.3 7865.24 9602.26 9991.2 8739.5 8368.63 8254.87 8575.5 TRUE FALSE FALSE 9792.70908 9225.005739 8740.566584 8017.483094 8866.536913 9139.893551 7756.108459 8154.572562 8197.423688 8945.231772 1.094740676 1.031276324 0.977120192 0.896285675 0.991202591 1.021761513 0.867066238 0.911611098 0.916401486 1 13.12690315 -6.674044344 3.268276646 1.045387681 0.941011928 0.152524904 0.06223324 0.172134607 3.681538009 0.008855942 0.012680979 2.12E-07 6.674044344 -0.104375753 GMGS(ph)LDAMDK ddPTM_HeLa_SAHA_4h_R1 2 GMGSLDAMDK 10 0 P12268;H0Y4R1 P12268 IMPDH2 Inosine-5-monophosphate dehydrogenase 2 1 0 GMGS(1)LDAMDK;GMGS(1)LDAMDK ; 142.1 0.0010389 19062100 4230.8 4563.3 3240.9 3480.1 4142.1 5705 4105.1 4600.2 6226.7 4255.2 TRUE FALSE FALSE 4675.814956 4711.153914 3682.552974 3547.462368 3824.733193 5218.901905 3643.183344 4482.533545 6183.367888 4438.662496 1.053428811 1.061390434 0.829653748 0.799218767 0.861685969 1.175782549 0.820784042 1.009883844 1.393070073 1 12.1159093 -6.77933027 24.9983364 1.028647253 0.915840807 0.217395871 0.156435985 284.05203 396895.2856 0.016880044 0.022210331 1.66E-07 6.77933027 -0.112806446 GMS(ph)LLHLAAAQGY(ph)ARLIET(ph)LS(ph)QWR ddPTM_HeLa_SAHA_4h_R1 1 GMSLLHLAAAQGYARLIETLSQWR 24 1 I3L3W6;O94983-2;O94983-3;O94983-4;O94983;O94983-6 I3L3W6 CAMTA2 Calmodulin-binding transcription activator 2 4 0 GMS(1)LLHLAAAQGY(1)ARLIET(1)LS(1)QWR 40.8 0.02118 15013000 1100.2 807.06 916.21 870.15 1217.2 1337.7 1005.8 979.05 891.48 985.49 TRUE FALSE FALSE 1215.924084 833.2092735 1041.066327 886.9930115 1123.938399 1223.720434 892.6247369 954.0073186 885.2761181 1027.979297 1.18282935 0.810531181 1.012730831 0.862851046 1.09334731 1.190413502 0.868329488 0.928041374 0.861180883 1 10.00559549 -7.28539482 24.99180039 1.086336075 0.974092523 0 0.135056527 1104.035672 1151795.132 0.021413728 0.024493973 5.18E-08 7.28539482 -0.112243552 GMSNNT(ph)PQLNR ddPTM_HeLa_SAHA_4h_R1 2 GMSNNTPQLNR 11 0 F8VQD8;A0A087X050;F8VVY1;F8VX63;F8VUB4;F8VV52;F8VP97;Q9NZN8-4;Q9NZN8-5;Q9NZN8;F8VWH8;F8W145 F8VQD8 CNOT2 CCR4-NOT transcription complex subunit 2 1 0 GMSNNT(1)PQLNR;GMSNNT(1)PQLNR ; 144.51 0.001281 7381400 2279.32 1737.3 2069.92 2116.67 2361.3 2671.8 2500.4 2579.6 2358.98 2499.1 TRUE FALSE FALSE 2519.069335 1793.58966 2351.997918 2157.641209 2180.377704 2444.147609 2219.048411 2513.617567 2342.563666 2606.848431 0.966327503 0.688029898 0.902238078 0.827681879 0.836403712 0.937587157 0.851237987 0.964236178 0.898619052 1 11.34809099 -7.491660462 24.31389393 0.985144587 0.858276808 0.23089739 0.075898288 191.0814833 148822.7187 0.011634243 0.012732954 3.22E-08 7.491660462 -0.126867779 GMYDGPVFDLTT(ph)TPK ddPTM_HeLa_SAHA_4h_R1 2 GMYDGPVFDLTTTPK 15 0 Q14195-2;Q14195;H0YBT4 Q14195-2 DPYSL3 Dihydropyrimidinase-related protein 3 1 0 GMYDGPVFDLT(0.002)T(0.979)T(0.02)PK;GMYDGPVFDLT(0.205)T(0.786)T(0.009)PK ; 167.22 5.20E-06 78552000 9707.1 11625.8 10578.5 12124.5 12990.8 13418.4 12703.6 11251.1 11689.4 10490 TRUE FALSE FALSE 10728.13732 12002.48355 12020.08289 12359.18723 11995.44771 12275.07683 11274.15749 10963.31315 11608.05251 10942.27524 0.98043022 1.096891029 1.09849941 1.129489705 1.096248034 1.121802967 1.030330279 1.001922627 1.060844501 1 13.41762513 -7.262132367 24.9986687 0.990758714 1.08468933 0.30399023 0.043320931 34.5848335 1247600.564 0.006645165 0.007836606 5.47E-08 7.262132367 0.093930616 GMYDGPVFDLTTT(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 GMYDGPVFDLTTTPK 15 0 Q14195-2;Q14195;H0YBT4 Q14195-2 DPYSL3 Dihydropyrimidinase-related protein 3 1 0 GMYDGPVFDLT(0.001)T(0.099)T(0.9)PK;GMYDGPVFDLT(0.025)T(0.221)T(0.754)PK ; 186.51 1.43E-08 81758000 7610.4 7352.7 6213.9 7262.2 7966.2 8912.2 7776.8 7244.2 8129.2 6669.8 TRUE FALSE FALSE 8410.89679 7590.932304 7060.697931 7402.770382 7355.831477 8152.830421 6901.733997 7058.903853 8072.628235 6957.367719 1.208919397 1.091063835 1.014851912 1.064018848 1.0572722 1.171826868 0.992003625 1.014594045 1.160299205 1 12.76432586 -6.977303777 23.65959348 1.101358238 1.055614132 0.158386801 0.06803398 320.6027777 334208.6639 0.014414322 0.018943169 1.05E-07 6.977303777 -0.045744106 GNAEGS(ph)S(ph)DEEGKLVIDEPAKEK ddPTM_HeLa_SAHA_4h_R1 1 GNAEGSSDEEGKLVIDEPAKEK 22 2 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 2 0 GNAEGS(1)S(1)DEEGKLVIDEPAKEK 55.209 0.015921 106600000 1819.6 2434.3 2012.2 1909.2 2173.9 2559.7 2462.5 2479.2 3034.3 1908.7 TRUE FALSE FALSE 2010.993877 2513.172917 2286.412137 1946.155327 2007.336252 2341.59916 2185.413019 2415.785654 3013.184059 1990.993398 1.010045477 1.262270844 1.148377558 0.977479548 1.008208392 1.176095894 1.097649556 1.213356938 1.513407359 1 10.95927272 -1 0.092915928 0.906863941 1.629002838 0 0.187215141 147.0744611 0.985896248 0.987565335 13.5959612 0.1 1 0.722138897 GNAEGS(ph)SDEEGKLVIDEPAK ddPTM_HeLa_SAHA_4h_R1 2 GNAEGSSDEEGKLVIDEPAK 20 1 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 1 0 GNAEGS(0.629)S(0.371)DEEGKLVIDEPAK;GNAEGS(0.5)S(0.5)DEEGKLVIDEPAK ; 68.088 0.0052057 64287000 3020.1 5125.3 3756.3 3795.8 4350.8 5452.8 4347.3 3711.6 8334.9 4643.2 TRUE FALSE FALSE 3337.767975 5291.363083 4268.189002 3869.273198 4017.442644 4988.190763 3858.130363 3616.662646 8276.896752 4843.391075 0.689138647 1.092491397 0.881239804 0.79887689 0.829468978 1.029896344 0.796576263 0.746721169 1.708905315 1 12.24180178 -4.535675132 24.9797506 0.874637339 0.759184833 0 0.287345285 362.08946 706833.8594 0.019133037 0.071678747 2.91E-05 4.535675132 -0.115452505 GNAEGS(ph)SDEEGKLVIDEPAKEK ddPTM_HeLa_SAHA_4h_R1 1 GNAEGSSDEEGKLVIDEPAKEK 22 2 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 1 0 GNAEGS(0.723)S(0.277)DEEGKLVIDEPAKEK 55.158 0.0076875 126570000 4033 4268.6 3614.5 4455.9 4478.8 5834.6 4799.3 4343.4 5188.9 4560.3 TRUE FALSE FALSE 4457.209444 4406.905441 4107.065236 4542.150388 4135.635312 5337.459255 4259.270133 4232.302117 5152.790022 4756.916851 0.93699545 0.926420532 0.863388065 0.954851752 0.869394072 1.122041739 0.895384609 0.889715387 1.083220536 1 12.21581109 -8.93815199 0.855204515 0.998432268 0.934021519 0.208388337 0.074990328 1.01922638 1.411036717 0.038697545 0.013543347 1.15E-09 8.93815199 -0.064410749 GNAEGSS(ph)DEEGKLVIDEPAK ddPTM_HeLa_SAHA_4h_R1 1 GNAEGSSDEEGKLVIDEPAK 20 1 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 1 0 GNAEGS(0.166)S(0.834)DEEGKLVIDEPAK 69.024 0.0048777 37342000 723.7 1273.1 729.07 954.16 1124 1244.8 776.16 819.79 1938.3 872.4 TRUE FALSE FALSE 799.8220865 1314.349275 828.4238628 972.6291465 1037.879363 1138.736037 688.8244341 798.8209588 1924.811212 910.0134334 0.878912395 1.444318542 0.910342455 1.06880746 1.140509936 1.25133981 0.756938754 0.877812271 2.115145933 1 9.829744032 GNAEGSS(ph)DEEGKLVIDEPAKEK ddPTM_HeLa_SAHA_4h_R1 3 GNAEGSSDEEGKLVIDEPAKEK 22 2 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 1 0 GNAEGS(0.101)S(0.899)DEEGKLVIDEPAKEK;GNAEGS(0.043)S(0.957)DEEGKLVIDEPAKEK;GNAEGS(0.126)S(0.874)DEEGKLVIDEPAKEK ;; 94.911 0.00018289 65889000 3371.6 4348.1 3953.9 4289.5 4858.9 5291.1 4691.7 4345.2 5554.3 4008.1 TRUE FALSE FALSE 3726.240357 4488.981293 4492.716901 4372.529475 4486.612132 4840.268513 4163.777568 4234.056076 5515.647174 4180.908806 0.891251288 1.073685531 1.074579023 1.045832301 1.07311887 1.157707268 0.995902509 1.012711894 1.319245989 1 12.02960086 -7.246041117 24.59915765 0.948646441 1.063375089 0 0.126462569 419.8489676 670720.941 0.009437496 0.011535244 5.67E-08 7.246041117 0.114728648 GNDPLTSS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 6 GNDPLTSSPGR 11 0 P49736;F8WDM3;C9J013;C9JZ21 P49736 MCM2 DNA replication licensing factor MCM2 1 0 GNDPLTS(0.003)S(0.997)PGR;GNDPLTS(0.004)S(0.996)PGR;GNDPLT(0.016)S(0.114)S(0.87)PGR;GNDPLTS(0.007)S(0.993)PGR;GNDPLT(0.001)S(0.013)S(0.986)PGR;GNDPLT(0.001)S(0.012)S(0.988)PGR ;;;;; 158.34 0.00023265 2517115000 24359.7 26575.2 22300.4 25188.5 28241.6 30026.2 27330.6 28657.8 27301.3 25561.4 TRUE FALSE FALSE 26921.96501 27436.25392 25339.38238 25676.05984 26077.73471 27467.79884 24255.28896 27924.77497 27111.30803 26663.47705 1.009694458 1.028982599 0.95034051 0.962967425 0.978032035 1.030165675 0.909682144 1.04730433 1.016795671 1 14.70257731 -6.767880306 24.9998703 1.006536199 0.978014711 0.156101935 0.037207787 223.6546054 868093.8748 0.005347706 0.007121782 1.71E-07 6.767880306 -0.028521489 GNDS(ph)DGEGESDDPEK ddPTM_HeLa_SAHA_4h_R1 2 GNDSDGEGESDDPEK 15 0 O75351;K7EKZ3 O75351 VPS4B Vacuolar protein sorting-associated protein 4B 1 0 GNDS(0.996)DGEGES(0.004)DDPEK;GNDS(1)DGEGESDDPEK ; 176.17 4.41E-07 11623700 3054.9 4705.8 2242.08 3325.3 3762.8 5249.8 3603.4 2832.36 7408 3760.2 TRUE FALSE FALSE 3376.228398 4858.271008 2547.618986 3389.66599 3474.495077 4802.487505 3197.935948 2759.912332 7356.447125 3922.320624 0.86077318 1.23862159 0.64951829 0.864199109 0.885826379 1.224399524 0.815317322 0.703642715 1.875534366 1 11.93749176 -13.52287874 0.342034377 2.093083975 0.899911619 0.065237937 0.330438679 160.4374259 2.135624278 123.1330174 0.059801413 3.00E-14 13.52287874 -1.193172356 GNDVAFHFNPR ddPTM_HeLa_SAHA_4h_R1 2 GNDVAFHFNPR 11 0 P17931;G3V3R6 P17931 LGALS3 Galectin-3;Galectin 0 0 ; ; 124.12 0.002007 4676800 4371.85 4248.4 4527.27 4913.7 5118.2 4632.86 5266.06 3386.63 3985.03 4517.37 FALSE FALSE TRUE 4831.701242 4386.050947 5144.222779 5008.811769 4726.044622 4238.114264 4673.509069 3300.004908 3957.297852 4712.135928 1.02537391 0.930798902 1.091696601 1.06295995 1.002951675 0.899404077 0.991802686 0.700320398 0.839809783 1 12.20216544 -3.685174592 1.203971006 1.012427038 2.91E-12 0.523397199 0.076495755 1.897449605 0.861345148 0.007527909 3.373616488 0.000206455 3.685174592 -1.012427038 GNENANGAPAITLLIR ddPTM_HeLa_SAHA_4h_R1 2 GNENANGAPAITLLIR 16 0 Q9Y5B9 Q9Y5B9 SUPT16H FACT complex subunit SPT16 0 0 ; ; 189.09 2.91E-17 1618070 0 218.32 362.42 225.92 0 65.06 297.941 164.24 123.95 209.656 FALSE FALSE TRUE 0 225.3937112 411.8087102 230.2930083 0 59.51652198 264.4158945 160.0389786 123.0874219 218.6952962 0 1.030628985 1.883025 1.053031374 0 0.272143585 1.20906073 0.731789761 0.562826106 1 7.77277838 GNFGGSFAGSFGGAGGHAPGVAR ddPTM_HeLa_SAHA_4h_R1 1 GNFGGSFAGSFGGAGGHAPGVAR 23 0 A0A087X0X3;P52272-2;P52272;M0R2I7;M0QY96 A0A087X0X3 HNRNPM Heterogeneous nuclear ribonucleoprotein M 0 0 133.21 4.21E-10 1760300 163.9 352.48 241.23 426.92 187.42 446.41 300.67 445.1 302.44 228.34 FALSE FALSE TRUE 181.139754 363.9005833 274.1035681 435.1836539 173.0599201 408.3733566 266.8378203 433.7149865 300.3352954 238.1848549 0.760500722 1.527807398 1.150801835 1.82708365 0.726578187 1.714522768 1.120297176 1.820917567 1.260933637 1 7.895937871 -7.262055918 24.99997371 0.886903114 1.39243498 0.19438369 0.352003017 42.73859538 1732996.132 0.05032488 0.059405584 5.47E-08 7.262055918 0.505531866 GNFNYIEFTR ddPTM_HeLa_SAHA_4h_R1 4 GNFNYIEFTR 10 0 J3QRS3;P19105;O14950 J3QRS3 MYL12A;MYL12B Myosin regulatory light chain 12A;Myosin regulatory light chain 12B 0 0 ;;; ;;; 191.4 4.25E-06 76368200 6381.62 5879.68 5510.65 6314.17 5699.03 6829.94 7268.22 6130.75 6930.63 6433.4 FALSE FALSE TRUE 7052.868072 6070.18549 6261.612684 6436.389891 5262.371553 6247.990688 6450.380757 5973.934292 6882.399182 6710.775358 1.05097663 0.904543092 0.933068438 0.959112703 0.784167443 0.931038569 0.961197539 0.890200308 1.025574366 1 12.71226375 -7.254713282 24.62463239 1.024072298 0.909944956 0.547139974 0.048547422 245.0440442 897120.7708 0.008277569 0.010013013 5.56E-08 7.254713282 -0.114127342 GNHECASINR ddPTM_HeLa_SAHA_4h_R1 1 GNHECASINR 10 0 P62136-3;P62136;P62136-2;E9PMD7;F8VR82;F8VYE8;F8W0W8;P36873;P36873-2;C9JP48;A0A087WYY5;E7ETD8;P62140 P62136-3;P62140 PPP1CA;PPP1CC;PPP1CB Serine/threonine-protein phosphatase PP1-alpha catalytic subunit;Serine/threonine-protein phosphatase;Serine/threonine-protein phosphatase PP1-gamma catalytic subunit;Serine/threonine-protein phosphatase PP1-beta catalytic subunit 0 0 106.4 0.0073746 818600 264.73 354.81 286.99 491.66 331.2 0 327.27 276.7 142.04 276.08 FALSE FALSE TRUE 292.575516 366.3060768 326.0995026 501.1767903 305.8235276 0 290.4447183 269.6224147 141.0515321 287.9831599 1.015946613 1.271970475 1.132356151 1.740298948 1.061949343 0 1.008547577 0.936243684 0.489790903 1 8.169840641 -5.481198114 24.99902763 1.098549984 0.658739135 0.228242695 0.382556435 510.9701625 306467.015 0.047554864 0.10632585 3.30E-06 5.481198114 -0.439810849 GNIETT(ph)SEDGQVFSPK ddPTM_HeLa_SAHA_4h_R1 1 GNIETTSEDGQVFSPK 16 0 Q5T200-2;Q5T200 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 GNIET(0.012)T(0.694)S(0.294)EDGQVFSPK 168.55 1.69E-06 10951000 1676 1662.1 1274.4 1913.9 2052 1800 1713.2 1796.5 1427.7 1573.7 TRUE FALSE FALSE 1852.28937 1715.953131 1448.068595 1950.946302 1894.776203 1646.629873 1520.426227 1750.548131 1417.764519 1641.549909 1.128378345 1.045324983 0.88213498 1.188478213 1.154260491 1.003094615 0.92621383 1.066399579 0.863674331 1 10.6808429 -5.02475281 24.60679642 1.062864808 0.988393564 0 0.107226361 991.9745563 986124.3997 0.012891029 0.033050611 9.45E-06 5.02475281 -0.074471244 GNIETTS(ph)EDGQVFSPK ddPTM_HeLa_SAHA_4h_R1 3 GNIETTSEDGQVFSPK 16 0 Q5T200-2;Q5T200 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 GNIET(0.002)T(0.027)S(0.971)EDGQVFSPK;GNIET(0.007)T(0.026)S(0.877)EDGQVFS(0.09)PK;GNIET(0.114)T(0.114)S(0.773)EDGQVFSPK ;; 170.09 3.41E-07 34108700 7402.1 7468.1 6805.2 8453.2 8874.5 9975.7 8705.1 8925.6 7555 7733.3 TRUE FALSE FALSE 8180.68684 7710.07134 7732.577216 8616.82391 8194.537727 9125.714238 7725.579237 8697.296076 7502.42414 8066.720409 1.014127976 0.9557876 0.958577566 1.068194195 1.015845017 1.131279352 0.957710054 1.078170016 0.930046383 1 12.97776654 -6.246220873 24.67311125 0.99893606 1.047690574 0.310653399 0.050907196 784.1860114 1271366.618 0.006490899 0.010737927 5.67E-07 6.246220873 0.048754514 GNIETTSEDGQVFS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 GNIETTSEDGQVFSPK 16 0 Q5T200-2;Q5T200 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 GNIETTSEDGQVFS(1)PK;GNIETTSEDGQVFS(1)PK;GNIETTSEDGQVFS(1)PK;GNIETTS(0.005)EDGQVFS(0.995)PK ;;; 185.59 1.72E-11 119292300 6730.4 6533.7 5578.58 5564.04 6090.41 7231.76 6717.94 6258.56 7394.38 5843.04 TRUE FALSE FALSE 7438.334352 6745.396167 6338.79983 5671.74004 5623.764102 6615.573363 5962.019711 6098.475097 7342.921908 6094.96205 1.220407 1.10671668 1.040006448 0.930561994 0.922690585 1.085416662 0.97818816 1.000576386 1.204752687 1 12.57340152 -6.582671779 3.875614725 1.106938654 0.985216532 0.477326842 0.071613066 0.224132144 6.903279055 0.01458135 0.021187236 2.61E-07 6.582671779 -0.121722121 GNIWS(ph)AEK ddPTM_HeLa_SAHA_4h_R1 2 GNIWSAEK 8 0 Q9NQW6;Q9NQW6-2 Q9NQW6 ANLN Actin-binding protein anillin 1 0 GNIWS(1)AEK;GNIWS(1)AEK ; 106.62 0.0075774 50600000 7106.3 7111.8 6025.6 7482.7 9643.1 9982.7 7459.7 6609.4 9702.6 6714.7 TRUE FALSE FALSE 7853.773239 7342.226986 6846.737388 7627.538479 8904.247761 9132.117799 6620.314923 6440.341118 9635.078817 7004.203578 1.121294256 1.048260078 0.977518331 1.088994401 1.271271981 1.303805307 0.945191677 0.919496563 1.37561376 1 12.7740053 -6.002945809 24.94583942 1.051639229 1.120534982 0 0.156669918 297.2842314 2517528.774 0.01897631 0.033943154 9.93E-07 6.002945809 0.068895753 GNKHDDGTQS(ph)DSENAGAHR ddPTM_HeLa_SAHA_4h_R1 6 GNKHDDGTQSDSENAGAHR 19 1 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 GNKHDDGTQS(0.998)DS(0.002)ENAGAHR;GNKHDDGTQS(0.991)DS(0.009)ENAGAHR;GNKHDDGTQS(0.998)DS(0.002)ENAGAHR;GNKHDDGT(0.001)QS(0.994)DS(0.004)ENAGAHR;GNKHDDGTQS(0.996)DS(0.004)ENAGAHR;GNKHDDGT(0.004)QS(0.978)DS(0.018)ENAGAHR ;;;;; 129.75 3.42E-05 16308090 2512.5 3385.03 1903.28 4038.44 3832.84 3979.26 3568.45 3210.28 4461.9 3578.18 TRUE FALSE FALSE 2776.776278 3494.707193 2162.649087 4116.609846 3539.168627 3640.204661 3166.918614 3128.165686 4430.849275 3732.452851 0.743954817 0.936303105 0.579417657 1.102923469 0.948215227 0.975284835 0.848481881 0.838099183 1.1871146 1 11.86590832 GNKS(ph)PS(ph)PPDGSPAATPEIR ddPTM_HeLa_SAHA_4h_R1 1 GNKSPSPPDGSPAATPEIR 19 1 O00499-6;O00499-2;O00499;O00499-9;O00499-7;O00499-4;O00499-11;O00499-3;O00499-5;O00499-10;O00499-8 O00499-6 BIN1 Myc box-dependent-interacting protein 1 2 0 GNKS(0.947)PS(0.729)PPDGS(0.324)PAATPEIR 90.06 0.011054 40806000 1685.1 1626.8 1531 1441 1546.1 1840.3 1767.7 1914.4 1778.1 1563.6 TRUE FALSE FALSE 1862.34655 1679.509387 1739.636707 1468.892639 1427.638152 1683.496087 1568.793744 1865.43242 1765.726057 1631.014448 1.141833263 1.029732992 1.066597975 0.90060063 0.87530687 1.032177298 0.961851531 1.143725258 1.082593756 1 10.67155385 -6.311295827 23.90602374 1.065266502 0.978351119 0.218620017 0.076725602 279.7690527 134147.8429 0.013085858 0.019989016 4.88E-07 6.311295827 -0.086915383 GNKS(ph)PSPPDGS(ph)PAATPEIR ddPTM_HeLa_SAHA_4h_R1 1 GNKSPSPPDGSPAATPEIR 19 1 O00499-6;O00499-2;O00499;O00499-9;O00499-7;O00499-4;O00499-11;O00499-3;O00499-5;O00499-10;O00499-8 O00499-6 BIN1 Myc box-dependent-interacting protein 1 2 0 GNKS(1)PS(0.078)PPDGS(0.867)PAAT(0.055)PEIR 108.49 0.0049026 4812800 1586.7 1453.4 1380.2 2072.3 1797.1 2016.8 1812.5 1795.3 2212.1 1655.2 TRUE FALSE FALSE 1753.596386 1500.491114 1568.286468 2112.412363 1659.406586 1844.957294 1608.55273 1749.378826 2196.705816 1726.563772 1.015656887 0.869062086 0.908328145 1.223477752 0.961103559 1.068571763 0.931649763 1.013214139 1.272299264 1 10.75368791 GNKS(ph)PSPPDGSPAATPEIR ddPTM_HeLa_SAHA_4h_R1 3 GNKSPSPPDGSPAATPEIR 19 1 O00499-6;O00499-2;O00499;O00499-9;O00499-7;O00499-4;O00499-11;O00499-3;O00499-5;O00499-10;O00499-8 O00499-6 BIN1 Myc box-dependent-interacting protein 1 1 0 GNKS(0.959)PS(0.041)PPDGSPAATPEIR;GNKS(0.974)PS(0.026)PPDGSPAATPEIR;GNKS(0.691)PS(0.212)PPDGS(0.097)PAATPEIR ;; 171.33 2.67E-08 100476400 2412.76 2800.59 2382.37 2555.48 2586.75 3481.73 3190.61 3030.25 3311.12 2991.74 TRUE FALSE FALSE 2666.545167 2891.330954 2707.026977 2604.945011 2388.553774 3185.067016 2831.594166 2952.740593 3288.077646 3120.728553 0.854462387 0.926492293 0.867434297 0.834723356 0.765383382 1.020616488 0.907350357 0.946170275 1.053625008 1 11.60766716 -9.392832145 1.035023426 1.002197025 0.886874591 0.37582301 0.067708021 0.571181345 1.06072524 0.049668176 0.011757496 4.05E-10 9.392832145 -0.115322435 GNKSPS(ph)PPDGSPAATPEIR ddPTM_HeLa_SAHA_4h_R1 2 GNKSPSPPDGSPAATPEIR 19 1 O00499-6;O00499-2;O00499;O00499-9;O00499-7;O00499-4;O00499-11;O00499-3;O00499-5;O00499-10;O00499-8 O00499-6 BIN1 Myc box-dependent-interacting protein 1 1 0 GNKS(0.135)PS(0.857)PPDGS(0.005)PAAT(0.003)PEIR;GNKS(0.027)PS(0.965)PPDGS(0.007)PAAT(0.001)PEIR ; 54.171 0.019761 147087100 2309.62 2699.1 2619.01 2868.35 2964.91 3266.6 2984.7 2965.38 3081.9 2636.77 TRUE FALSE FALSE 2552.556429 2786.552611 2975.915044 2923.871062 2737.739236 2988.267303 2648.853701 2889.529873 3060.452807 2750.454059 0.928049105 1.013124579 1.081972278 1.063050318 0.995377192 1.086463267 0.963060514 1.050564675 1.112708208 1 11.42545409 -7.011522734 23.08751545 0.966263373 1.038521374 0 0.060442914 153.6929339 307947.7052 0.006891953 0.008708837 9.74E-08 7.011522734 0.072258001 GNKSPSPPDGS(ph)PAATPEIR ddPTM_HeLa_SAHA_4h_R1 2 GNKSPSPPDGSPAATPEIR 19 1 O00499-6;O00499-2;O00499;O00499-9;O00499-7;O00499-4;O00499-11;O00499-3;O00499-5;O00499-10;O00499-8 O00499-6 BIN1 Myc box-dependent-interacting protein 1 1 0 GNKS(0.02)PS(0.004)PPDGS(0.532)PAAT(0.444)PEIR;GNKS(0.009)PS(0.103)PPDGS(0.847)PAAT(0.041)PEIR ; 103.71 0.00070829 19529800 4014.8 2597.36 4167.5 3525.54 4179.21 3587.83 4233.5 3905.13 2506.68 3486.86 TRUE FALSE FALSE 4437.095085 2681.516168 4735.425197 3593.781925 3858.999833 3282.126699 3757.135438 3805.242429 2489.23581 3637.195599 1.219922043 0.737248271 1.301944058 0.98806397 1.060982212 0.902378387 1.032975911 1.046202308 0.684383268 1 11.8286108 GNLELRPGGAHPGTCS(ph)PSRPGS ddPTM_HeLa_SAHA_4h_R1 2 GNLELRPGGAHPGTCSPSRPGS 22 2 Q5JTU8;B1AMJ5;A0A0A0MRG9;Q96SN8-4;Q96SN8-3;Q96SN8-2;Q96SN8 Q5JTU8 CDK5RAP2 CDK5 regulatory subunit-associated protein 2 1 0 GNLELRPGGAHPGT(0.033)CS(0.962)PS(0.006)RPGS;GNLELRPGGAHPGT(0.417)CS(0.421)PS(0.125)RPGS(0.038) ; 81.017 0.00067861 51289000 2339.84 2569.4 1883.65 2420.7 2398.1 2920.3 2701.9 2398.96 2394.2 2241.2 TRUE FALSE FALSE 2585.955107 2652.650246 2140.344012 2467.556149 2214.358096 2671.474011 2397.875101 2337.598077 2377.538567 2337.8291 1.10613522 1.134663884 0.915526294 1.05549039 0.947185616 1.142715698 1.025684513 0.99990118 1.016985616 1 11.19095375 GNLT(ph)PLTGR ddPTM_HeLa_SAHA_4h_R1 1 GNLTPLTGR 9 0 O75683 O75683 SURF6 Surfeit locus protein 6 1 0 GNLT(0.99)PLT(0.01)GR 111.5 0.010189 12261000 971.55 902.5 893.98 1054.5 1157.1 1748.2 1080.5 1364.1 1285.4 1172.9 TRUE FALSE FALSE 1073.742087 931.7415922 1015.806939 1074.911372 1068.443248 1599.243525 958.9192963 1329.208297 1276.454797 1223.469459 0.87762067 0.761556887 0.830267508 0.878576383 0.873289676 1.307138084 0.783770522 1.086425401 1.043307446 1 10.25676237 -4.193104253 20.60369909 0.92919666 1.086440726 0.089622631 0.1510831 23584.18412 7107904.384 0.019716877 70.6710093 6.41E-05 4.193104253 0.157244067 GNPGIMS(ph)PLAK ddPTM_HeLa_SAHA_4h_R1 2 GNPGIMSPLAK 11 0 Q14865-2;Q14865 Q14865-2 ARID5B AT-rich interactive domain-containing protein 5B 1 0 GNPGIMS(1)PLAK;GNPGIMS(1)PLAK ; 93.649 0.012592 6421600 2719.31 2035.67 1915.21 2755.64 2867.91 2426.63 2540.5 2552.89 2141.55 2279.24 TRUE FALSE FALSE 3005.339502 2101.627044 2176.204845 2808.979397 2648.171355 2219.867472 2254.636254 2487.59077 2126.646779 2377.509191 1.264070614 0.883961691 0.91532973 1.181479932 1.113842742 0.933694591 0.948318628 1.046301221 0.894485198 1 11.2152352 -7.25638253 24.9958004 1.124700011 1.006209668 0 0.127944735 612.3627407 3026882.597 0.022021081 0.026547708 5.54E-08 7.25638253 -0.118490344 GNPTVEVDLFTS(ph)K ddPTM_HeLa_SAHA_4h_R1 2 GNPTVEVDLFTSK 13 0 P06733;A0A2R8Y6G6;K7EM90;A0A2R8YEM5;A0A2R8Y879;K7ERS8;A0A2R8YEG5;A0A2R8Y798 P06733 ENO1 Alpha-enolase;Enolase 1 0 GNPTVEVDLFT(0.072)S(0.928)K;GNPTVEVDLFT(0.001)S(0.999)K ; 141.59 0.00033903 12925200 2676.92 3448.46 2752.98 3401.74 3399.34 4196.66 3507.26 3733.21 3849.6 3318.8 TRUE FALSE FALSE 2958.490728 3560.192367 3128.141777 3467.585597 3138.883304 3839.080958 3112.613874 3637.719894 3822.81032 3461.88971 0.854588383 1.028395664 0.903593713 1.001645311 0.906696506 1.108955305 0.89910833 1.050790233 1.104255375 1 11.75734405 -5.732538222 1.266927114 0.936607309 1.003273372 0 0.09017829 0.792997603 2.519005513 0.012475869 0.034286404 1.85E-06 5.732538222 0.066666063 GNPTVEVDLFTSK ddPTM_HeLa_SAHA_4h_R1 4 GNPTVEVDLFTSK 13 0 P06733;A0A2R8Y6G6;K7EM90;A0A2R8YEM5;A0A2R8Y879;K7ERS8;A0A2R8YEG5;A0A2R8Y798 P06733 ENO1 Alpha-enolase;Enolase 0 0 ;;; ;;; 221.09 6.74E-43 295075700 9943.7 11954.5 11251.3 11522.7 10880.1 11747 12726.4 12453.1 11265.9 10281.2 FALSE FALSE TRUE 10989.62399 12341.83364 12784.56857 11745.73852 10046.46909 10746.08951 11294.39198 12134.56773 11187.49968 10724.47285 1.024723932 1.150810284 1.192092959 1.095227587 0.936779759 1.002015639 1.053141925 1.131483841 1.043174788 1 13.38861911 -7.489238555 17.00551802 1.01090593 1.076409208 0.119276408 0.070027115 15.21109653 7690.473721 0.013172837 0.014597161 3.24E-08 7.489238555 0.065503279 GNRGS(ph)GGGGGGGGQGSTNYGK ddPTM_HeLa_SAHA_4h_R1 3 GNRGSGGGGGGGGQGSTNYGK 21 1 Q99729-3;Q99729-4 Q99729-3 HNRNPAB Heterogeneous nuclear ribonucleoprotein A/B 1 0 GNRGS(1)GGGGGGGGQGSTNYGK;GNRGS(1)GGGGGGGGQGSTNYGK;GNRGS(1)GGGGGGGGQGSTNYGK ;; 172.34 2.10E-09 17409700 2730.82 2495.81 2376.3 3589.63 3738.76 4659.05 3774.35 3519.48 3184.36 3708.84 TRUE FALSE FALSE 3018.060177 2576.675882 2700.129789 3659.112479 3452.297017 4262.072729 3349.650204 3429.456798 3162.199779 3868.746243 0.780113243 0.666023492 0.697934064 0.945813514 0.892355507 1.101667688 0.865823188 0.886451729 0.817370688 1 11.91765039 GNRTDGSIS(ph)GDRQPVTVADYISR ddPTM_HeLa_SAHA_4h_R1 1 GNRTDGSISGDRQPVTVADYISR 23 2 P51116 P51116 FXR2 Fragile X mental retardation syndrome-related protein 2 1 0 GNRT(0.011)DGS(0.2)IS(0.788)GDRQPVT(0.001)VADYISR 60.814 0.005872 15768000 1209 1150.4 1474.9 1181.6 1281.9 1483.1 1095.9 1331.1 958.9 1069.8 TRUE FALSE FALSE 1336.168167 1187.673715 1675.891691 1204.471577 1183.681099 1356.731536 972.5864477 1297.052389 952.2269368 1115.924313 1.197364508 1.064295939 1.501796915 1.079348807 1.060718083 1.215791716 0.871552341 1.162312151 0.853307814 1 10.12402347 -3.923106756 21.30142078 1.11111111 3.386818209 0.004855229 0.176909485 4724.786592 1387300.722 0.021318824 30882.25924 0.000119369 3.923106756 2.275707099 GNS(ph)PNSEPPTPK ddPTM_HeLa_SAHA_4h_R1 1 GNSPNSEPPTPK 12 0 P48634;P48634-2;P48634-3;P48634-4 P48634 PRRC2A Protein PRRC2A 1 0 GNS(0.959)PNS(0.041)EPPTPK 151.38 3.66E-08 0 1208.9 943.31 1134.8 1270.1 1267.4 1410.8 1529.6 1450.2 1234 1359 TRUE FALSE FALSE 1336.057649 973.8738629 1289.444634 1294.684622 1170.292086 1290.591903 1357.485382 1413.105984 1225.412494 1417.593141 0.94248315 0.686991094 0.90960135 0.913297747 0.825548637 0.910410657 0.957598724 0.996834665 0.864431732 1 10.46922781 -7.504750231 14.08967952 0.974642543 0.883817324 0.021666606 0.086823404 1.422658423 1105.104871 0.014291143 0.015423361 3.13E-08 7.504750231 -0.090825218 GNS(ph)PPSSGEACREEK ddPTM_HeLa_SAHA_4h_R1 2 GNSPPSSGEACREEK 15 1 P41227;P41227-2 P41227 NAA10 N-alpha-acetyltransferase 10 1 0 GNS(0.809)PPS(0.184)S(0.007)GEACREEK;GNS(0.856)PPS(0.106)S(0.038)GEACREEK ; 91.926 0.0043253 242260000 3245.2 2321.03 2603.6 2830 2746.7 3206.9 3050.4 3183.2 2533 2901.6 TRUE FALSE FALSE 3586.545026 2396.232895 2958.405049 2884.778742 2536.248439 2933.654078 2707.160964 3101.778353 2515.372647 3026.702176 1.184967934 0.791697615 0.977435135 0.953109548 0.837957715 0.969257597 0.894425948 1.024804613 0.831060508 1 11.56353101 -7.268461937 24.99669253 1.087345967 0.922240402 0 0.111574933 385.5780772 1372457.23 0.015135986 0.017510499 5.39E-08 7.268461937 -0.165105566 GNS(ph)RPGTPS(ph)AEGGSTSSTLR ddPTM_HeLa_SAHA_4h_R1 1 GNSRPGTPSAEGGSTSSTLR 20 1 P35269;M0QXD6 P35269 GTF2F1 General transcription factor IIF subunit 1 2 0 GNS(0.961)RPGT(0.041)PS(0.835)AEGGS(0.057)T(0.043)S(0.033)S(0.005)T(0.025)LR 127.67 0.0010871 3091700 1002.9 1238.8 959.9 987.67 1082.1 1395.4 915.98 1112.9 1465.2 1337.3 TRUE FALSE FALSE 1108.389623 1278.937933 1090.710173 1006.787781 999.1897318 1276.50407 812.9115197 1084.433629 1455.003554 1394.957548 0.794568713 0.916829286 0.781894886 0.721733635 0.716286839 0.915084528 0.582750006 0.777395435 1.043045042 1 10.4460055 -13.52287873 0.131818331 1.823398722 0.664744873 0.587859434 0.08635414 43.51965422 0.405462225 9.360762666 0.285927475 3.00E-14 13.52287873 -1.158653849 GNS(ph)RPGTPSAEGGSTSSTLR ddPTM_HeLa_SAHA_4h_R1 2 GNSRPGTPSAEGGSTSSTLR 20 1 P35269;M0QXD6 P35269 GTF2F1 General transcription factor IIF subunit 1 1 0 GNS(0.974)RPGT(0.025)PS(0.001)AEGGSTSSTLR;GNS(0.376)RPGT(0.042)PS(0.067)AEGGS(0.376)T(0.107)S(0.031)S(0.001)TLR ; 97.083 0.0042946 13409100 436.81 488.79 304.277 495.86 661.39 591.77 459.39 327.483 538.22 487.06 TRUE FALSE FALSE 482.75568 504.6271167 345.742285 505.4580873 610.7144411 541.3478668 407.6982282 319.106459 534.4744832 508.0595402 0.950195089 0.993244053 0.680515289 0.99487963 1.202052895 1.065520523 0.802461515 0.628088706 1.051991826 1 8.988853768 -4.520372229 3.825391771 0.977970989 0.650340727 0.464344212 0.124627229 0.148920592 4.665975154 0.017360317 0.095058218 3.02E-05 4.520372229 -0.327630261 GNSPNSEPPT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 GNSPNSEPPTPK 12 0 P48634;P48634-2;P48634-3;P48634-4 P48634 PRRC2A Protein PRRC2A 1 0 GNS(0.03)PNS(0.161)EPPT(0.81)PK 132.86 0.00011548 0 759.64 1059 902.16 1037.2 848.11 1269.7 1044.4 1110.9 1225.6 987.33 TRUE FALSE FALSE 839.5424206 1093.312295 1025.101667 1057.276506 783.127995 1161.514417 926.8813633 1082.484787 1217.07095 1029.898628 0.815169957 1.061572727 0.995342297 1.02658308 0.760393279 1.127794897 0.899973393 1.051059548 1.181738587 1 10.00828663 -7.251506044 24.96523962 0.912719145 0.983778634 0 0.134057771 1363.118253 3425897.953 0.018204372 0.022161837 5.60E-08 7.251506044 0.071059488 GNSPPS(ph)SGEACREEK ddPTM_HeLa_SAHA_4h_R1 1 GNSPPSSGEACREEK 15 1 P41227;P41227-2 P41227 NAA10 N-alpha-acetyltransferase 10 1 0 GNS(0.108)PPS(0.446)S(0.446)GEACREEK 76.704 0.010489 29347000 826.77 756.73 829.35 880.47 1011.5 1107.4 1003.6 1070.6 780.49 896.38 TRUE FALSE FALSE 913.733462 781.2485485 942.3694989 897.51277 933.9990885 1013.04329 890.6722867 1043.215602 775.0585065 935.0273286 0.977226477 0.835535524 1.007852359 0.95987865 0.99890031 1.083437092 0.952562839 1.115706002 0.828915351 1 9.868864722 -5.493295195 8.837762966 0.976027187 1.040926131 0.224460859 0.076444197 0.430201344 120.4882111 0.008385066 0.018421949 3.21E-06 5.493295195 0.064898944 GNSPPSS(ph)GEACREEK ddPTM_HeLa_SAHA_4h_R1 1 GNSPPSSGEACREEK 15 1 P41227;P41227-2 P41227 NAA10 N-alpha-acetyltransferase 10 1 0 GNS(0.167)PPS(0.347)S(0.487)GEACREEK 66.893 0.018853 28534000 1353.7 1286.6 1616.7 1661.6 1627.6 1653.9 1746.6 2051.8 1248.9 1497.3 TRUE FALSE FALSE 1496.088377 1328.286684 1837.015457 1693.762671 1502.89364 1512.978415 1550.067971 1999.317927 1240.208803 1561.855931 0.957891408 0.850454039 1.176174717 1.084455126 0.962248572 0.968705491 0.992452595 1.280091132 0.794060949 1 10.60904567 -6.758896568 24.99994234 0.969835192 1.063647468 0.29526405 0.114240398 90.94998422 894176.9737 0.015727382 0.021661068 1.74E-07 6.758896568 0.093812276 GNSRPGT(ph)PSAEGGSTSSTLR ddPTM_HeLa_SAHA_4h_R1 3 GNSRPGTPSAEGGSTSSTLR 20 1 P35269;M0QXD6 P35269 GTF2F1 General transcription factor IIF subunit 1 1 0 GNSRPGT(0.999)PSAEGGSTSSTLR;GNSRPGT(1)PSAEGGSTSSTLR;GNSRPGT(0.999)PSAEGGSTSSTLR ;; 171 1.65E-07 39242600 2555.65 3362.25 2328.97 3087.59 3183.32 3651.8 3770.97 3223.89 3711 3313.01 TRUE FALSE FALSE 2824.464993 3471.189106 2646.349903 3147.354769 2939.414709 3340.646096 3346.650531 3141.427562 3685.174849 3455.850075 0.817299632 1.00443857 0.765759465 0.91073244 0.850561988 0.966664069 0.968401539 0.909017317 1.066358427 1 11.75482491 -3.845209572 12.92331228 0.911074529 0.705352452 0 0.089825575 5686274.818 3120848.97 0.01174125 34238846.36 0.00014282 3.845209572 -0.205722077 GNVFSS(ph)PTAAGT(ph)PNKETAGLK ddPTM_HeLa_SAHA_4h_R1 3 GNVFSSPTAAGTPNKETAGLK 21 1 E7EX44;Q05682-3;Q05682-6;Q05682-2;Q05682;Q05682-5;Q05682-4;E9PGZ1 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 2 0 GNVFS(0.438)S(0.547)PT(0.073)AAGT(0.898)PNKET(0.044)AGLK;GNVFS(0.2)S(0.641)PT(0.162)AAGT(0.884)PNKET(0.112)AGLK;GNVFS(0.389)S(0.607)PT(0.227)AAGT(0.776)PNKET(0.002)AGLK ;; 111.33 0.00053963 91582000 9382.6 8427.9 8754.8 8810.6 11428 10120.7 9762.6 8614.2 9901.6 9418.3 TRUE FALSE FALSE 10369.50492 8700.96949 9947.858551 8981.141903 10552.38911 9258.359422 8664.086554 8393.861237 9832.693959 9824.369005 1.055488135 0.885651739 1.012569718 0.914169846 1.074103497 0.942387182 0.881897509 0.854391894 1.000847378 1 13.26214903 -2.314114553 0.409427791 1.018590378 5.10E-10 0.362536395 0.058297706 14.73566447 0.479213114 0.014084791 10.40744186 0.004851605 2.314114553 -1.018590377 GNVFSS(ph)PTAAGTPNK ddPTM_HeLa_SAHA_4h_R1 2 GNVFSSPTAAGTPNK 15 0 E7EX44;Q05682-3;Q05682-6;Q05682-2;Q05682;Q05682-5;Q05682-4;E9PGZ1 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 1 0 GNVFS(0.042)S(0.724)PT(0.076)AAGT(0.158)PNK;GNVFS(0.111)S(0.854)PT(0.032)AAGT(0.003)PNK ; 87.363 0.009894 12034800 2734.79 3281.5 2717.8 3136.1 3588.3 3801.3 3698.3 2738.2 5468.8 2999.8 TRUE FALSE FALSE 3022.44776 3387.822753 3088.16763 3196.80375 3313.365229 3477.407854 3282.157551 2668.160809 5430.742176 3129.136059 0.965904871 1.082670325 0.986907431 1.02162504 1.058875411 1.111299665 1.048902154 0.8526829 1.735540441 1 11.61154867 -7.305134131 24.98093276 0.983899521 1.027557698 0 0.246840525 861.2768575 492401.8949 0.011095632 0.01268835 4.95E-08 7.305134131 0.043658177 GNVFSS(ph)PTAAGTPNKET(ph)AGLK ddPTM_HeLa_SAHA_4h_R1 1 GNVFSSPTAAGTPNKETAGLK 21 1 E7EX44;Q05682-3;Q05682-6;Q05682-2;Q05682;Q05682-5;Q05682-4;E9PGZ1 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 2 0 GNVFS(0.15)S(0.822)PT(0.03)AAGT(0.019)PNKET(0.979)AGLK 101.43 0.0011716 28225000 5241.9 4952.4 4736.2 5053.3 6429.8 5756.7 5411.2 4694.7 5007.7 5121.3 TRUE FALSE FALSE 5793.267093 5112.861009 5381.624671 5151.113929 5937.150113 5266.196774 4802.317535 4574.616372 4972.851008 5342.104306 1.084454133 0.957087454 1.007397902 0.9642481 1.111387905 0.985790706 0.898956153 0.856332282 0.930878681 1 12.38319243 -4.779673405 2.940349483 1.030664766 0.866522267 0.425756846 0.055893886 0.12998455 2.234735552 0.007120071 0.030153504 1.66E-05 4.779673405 -0.164142499 GNVFSSPT(ph)AAGTPNKETAGLK ddPTM_HeLa_SAHA_4h_R1 1 GNVFSSPTAAGTPNKETAGLK 21 1 E7EX44;Q05682-3;Q05682-6;Q05682-2;Q05682;Q05682-5;Q05682-4;E9PGZ1 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 1 0 GNVFS(0.111)S(0.336)PT(0.534)AAGT(0.016)PNKET(0.003)AGLK 77.969 0.0018067 4815800 735.67 811.49 828.52 1039.2 1155.1 927.76 1163.3 825.11 804.76 926.65 TRUE FALSE FALSE 813.051146 837.7828084 941.4263909 1059.315219 1066.596488 848.7096286 1032.402422 804.0048809 799.1596096 966.6024164 0.8411433 0.866729479 0.973954104 1.095916171 1.103449018 0.878033837 1.068073496 0.831784472 0.82677179 1 9.916778791 -6.536028846 21.77562743 0.918605936 1.002559862 0.203112996 0.095711626 75.42088812 124890.1933 0.015575327 0.022041297 2.91E-07 6.536028846 0.083953926 GNVFSSPTAAGT(ph)PNKETAGLK ddPTM_HeLa_SAHA_4h_R1 2 GNVFSSPTAAGTPNKETAGLK 21 1 E7EX44;Q05682-3;Q05682-6;Q05682-2;Q05682;Q05682-5;Q05682-4;E9PGZ1 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 1 0 GNVFS(0.001)S(0.003)PT(0.013)AAGT(0.958)PNKET(0.025)AGLK;GNVFSS(0.001)PT(0.006)AAGT(0.991)PNKET(0.003)AGLK ; 109.19 0.00016979 13370200 4309.8 3407.79 2929.19 4427.5 3902.78 4164.5 3637.01 3856.67 4469.8 3946.95 TRUE FALSE FALSE 4763.124538 3518.204632 3328.364759 4513.200665 3603.74984 3809.661171 3227.764063 3758.021966 4438.694298 4117.12233 1.156906246 0.854530021 0.808420176 1.096202712 0.875307934 0.925321345 0.783985465 0.912778797 1.078106003 1 12.0074206 -7.252996307 24.98927489 1.074094616 0.894572188 0.484867174 0.087133128 431.0716523 1275860.167 0.015996965 0.019420152 5.58E-08 7.252996307 -0.179522428 GNVGFVFTK ddPTM_HeLa_SAHA_4h_R1 1 GNVGFVFTK 9 0 F8VWS0;P05388-2;P05388;G3V210;F8VW21;F8VZS0;F8VU65;F8VS58;F8VQY6;F8VPE8;F8VRK7;F8VWV4 F8VWS0 RPLP0 60S acidic ribosomal protein P0 0 0 154.56 1.32E-06 6016300 3455.6 4159.8 3260.6 4012 4329 4940.7 4769.7 3128.5 4151.3 3996.3 FALSE FALSE TRUE 3819.075863 4294.580249 3704.937588 4089.658061 3997.312955 4519.724564 4233.000803 3048.4775 4122.410765 4168.60005 0.916153101 1.030221225 0.88877262 0.98106271 0.958910163 1.084230799 1.015449012 0.73129527 0.988919713 1 12.02534725 -4.255048547 24.92080986 0.971831549 0.731295158 0.657998385 0.054112801 361.0994777 1408053.844 0.007877611 0.09927718 5.56E-05 4.255048547 -0.240536392 GNVGVVLFNFGK ddPTM_HeLa_SAHA_4h_R1 1 GNVGVVLFNFGK 12 0 P33316-2;A0A0C4DGL3;H0YNJ9;H0YKC5;H0YMP1;H0YNW5;H0YMM5;P33316;H0YKI0 P33316-2;H0YNW5;P33316 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 0 0 177.06 6.73E-11 1592600 69.356 220.42 317.13 357.72 207.44 57.109 272.84 0 152.51 176.43 FALSE FALSE TRUE 76.6511823 227.5617526 360.3468249 364.6441879 191.545992 52.24299191 242.1393251 0 151.4486705 184.0367607 0.416499302 1.236501619 1.958015472 1.98136604 1.040802888 0.28387259 1.315711732 0 0.822926191 1 7.523850158 -5.293408611 24.34200052 0.967748646 0.611446257 0.136096053 0.582122347 1159.425456 882807.5913 0.096392207 0.215559761 5.09E-06 5.293408611 -0.356302389 GNVQVVIPFLTES(ph)Y(ph)SS(ph)S(ph)QDPPEK ddPTM_HeLa_SAHA_4h_R1 1 GNVQVVIPFLTESYSSSQDPPEK 23 0 P22314-2;P22314 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 4 0 GNVQVVIPFLT(0.364)ES(0.949)Y(0.663)S(0.388)S(0.905)S(0.731)QDPPEK 43.328 0.0086468 0 1069.1 968.43 705.46 544.64 1139.3 1069.3 1224.4 1299.2 733.42 756.42 TRUE FALSE FALSE 1181.552843 999.8077674 801.5964149 555.1822948 1052.00708 978.1896243 1086.62729 1265.968345 728.3160705 789.032968 1.49746955 1.267130536 1.015922588 0.703623698 1.333286596 1.23973226 1.377163355 1.604455576 0.923048973 1 9.623941771 -4.386379638 1.551656174 1.192460701 1.699162278 0.29332349 0.223069301 1.077432811 2.876054484 0.037194732 0.767223711 4.11E-05 4.386379638 0.506701577 GNVVPS(ph)PLPTR ddPTM_HeLa_SAHA_4h_R1 1 GNVVPSPLPTR 11 0 H3BTK3;I3L3X8;H3BSW7;H3BUY4;H3BPY5;H3BNU9;Q9Y2V2 H3BTK3 CARHSP1 Calcium-regulated heat stable protein 1 1 0 GNVVPS(0.897)PLPT(0.103)R 102.73 0.0063368 282920000 2906.6 4628.5 2806.3 3772.4 3711.5 4893.5 3441 4049.4 6691.7 3529 TRUE FALSE FALSE 3212.329524 4778.466437 3188.727949 3845.420257 3427.125672 4476.54627 3053.809624 3945.822211 6645.131915 3681.152461 0.872642347 1.298089793 0.866230884 1.044624013 0.930992592 1.216071955 0.829579773 1.071898612 1.805177043 1 11.84594179 GNVVPS(ph)PLPTRR ddPTM_HeLa_SAHA_4h_R1 3 GNVVPSPLPTRR 12 1 H3BTK3;I3L3X8;H3BSW7;H3BUY4;H3BPY5;H3BNU9;Q9Y2V2 H3BTK3 CARHSP1 Calcium-regulated heat stable protein 1 1 0 GNVVPS(0.792)PLPT(0.208)RR;GNVVPS(0.963)PLPT(0.037)RR;GNVVPS(0.62)PLPT(0.38)RR ;; 90.561 0.0063651 746760000 6883.1 7655.9 6514.6 8357.9 7848.9 9344.8 8034.2 7990.5 9320.1 7834.6 TRUE FALSE FALSE 7607.096039 7903.956183 7402.375761 8519.67924 7247.518978 8548.570468 7130.170671 7786.11458 9255.240665 8172.387948 0.930829041 0.967153815 0.905778802 1.042495693 0.886830021 1.046030918 0.8724709 0.952734333 1.132501384 1 12.99654198 -7.571596435 0.006237571 1.921518347 1.23E-05 0.107436787 0.073546371 5518.611834 28.47658684 4397.923309 4372.596087 2.68E-08 7.571596435 -1.921506006 GNVVPSPLPT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 GNVVPSPLPTR 11 0 H3BTK3;I3L3X8;H3BSW7;H3BUY4;H3BPY5;H3BNU9;Q9Y2V2 H3BTK3 CARHSP1 Calcium-regulated heat stable protein 1 1 0 GNVVPS(0.13)PLPT(0.87)R 96.135 0.019042 299030000 2474.1 3370.3 2179.6 3322.2 3337.3 4287.2 3282.7 2737.3 5545.2 3099.9 TRUE FALSE FALSE 2734.33719 3479.499931 2476.624537 3386.505985 3081.596795 3921.906441 2913.321956 2667.28383 5506.610502 3233.55186 0.845614145 1.076061273 0.765914587 1.047302203 0.953006764 1.212878782 0.900966517 0.824877393 1.702960318 1 11.65890403 GNWDEQFDKENTEER ddPTM_HeLa_SAHA_4h_R1 2 GNWDEQFDKENTEER 15 1 A0A2R8Y6A7;A0A2R8YD12;A0A024QZX5;A0A087X1N8;P35237 A0A2R8Y6A7 SERPINB6 Serpin B6 0 0 ; ; 113.54 0.0023652 18334900 2171.11 2169.04 2580.1 1724.09 1968.79 2192.2 2175.03 1845.64 2083.75 2178.37 FALSE FALSE TRUE 2399.477311 2239.318319 2931.702591 1757.462255 1817.941736 2005.412227 1930.2899 1798.431201 2069.249014 2272.290191 1.055973097 0.985489586 1.290197266 0.773432135 0.800048226 0.882551108 0.849490927 0.791461939 0.910644698 1 11.14993138 -6.207906508 24.99999899 1.041365445 0.823502322 0.586363612 0.096071741 160.0570163 74746.9936 0.012500104 0.020729067 6.20E-07 6.207906508 -0.217863123 GNYLLR ddPTM_HeLa_SAHA_4h_R1 2 GNYLLR 6 0 E9PR51;Q5JQS6-2;Q5JQS6 E9PR51 GCSAML Germinal center-associated signaling and motility-like protein 0 0 ; ; 106.29 0.021628 10449400 6985.5 7976.1 7124.2 6771.3 7934.2 9465.2 8950.9 6629.6 5512.3 7297.9 FALSE FALSE TRUE 7720.266941 8234.530873 8095.048875 6902.368303 7326.28331 8658.71171 7943.721175 6460.024432 5473.939455 7612.548184 1.014150158 1.081704926 1.063382284 0.906709309 0.962395657 1.137426194 1.043503566 0.848602107 0.719067955 1 12.89416374 GNYPGPS(ph)SPVVVR ddPTM_HeLa_SAHA_4h_R1 1 GNYPGPSSPVVVR 13 0 H3BP49;H3BU05;H3BV44;H3BRD5;B2RTY4-5;B2RTY4-2;B2RTY4;B2RTY4-4 H3BP49 MYO9A Unconventional myosin-IXa 1 0 GNYPGPS(0.5)S(0.5)PVVVR 81.128 0.018245 6068400 610.99 680.97 600.37 573.68 568.77 938.31 780.74 610.35 842.09 661.86 TRUE FALSE FALSE 675.2567315 703.0338748 682.185297 584.784406 525.1909655 858.3607092 692.8890804 594.7381308 836.2298271 690.3960237 0.978071583 1.01830522 0.988107222 0.847027483 0.760709719 1.243287446 1.003611053 0.861444896 1.211232102 1 9.431280345 -6.48322848 24.93833534 0.992062344 0.949549244 0.057574727 0.13860775 1880.439928 1182717.643 0.018466573 0.028204977 3.29E-07 6.48322848 -0.042513101 GPAADPS(ph)SPGTSGVGPAAGAGDSR ddPTM_HeLa_SAHA_4h_R1 1 GPAADPSSPGTSGVGPAAGAGDSR 24 0 A0A0U1RRM4 A0A0U1RRM4 1 0 GPAADPS(0.93)S(0.069)PGT(0.001)SGVGPAAGAGDSR 167.89 9.67E-09 5709100 1548.8 1545.7 1193.5 1565 1694.6 1469.6 1681.4 1535.2 1687.2 1304.5 TRUE FALSE FALSE 1711.70989 1595.781694 1356.143965 1595.292838 1564.760114 1344.381812 1492.204447 1495.931807 1675.458638 1360.743379 1.25792263 1.172727877 0.996619925 1.17236862 1.149930353 0.987976009 1.096609743 1.099348951 1.231281859 1 10.4101793 -5.306582031 24.99123813 1.124216617 1.064841101 0.131054766 0.086308977 1009.188351 558691.0528 0.01539806 0.034431347 4.94E-06 5.306582031 -0.059375516 GPAADPSS(ph)PGTSGVGPAAGAGDSR ddPTM_HeLa_SAHA_4h_R1 1 GPAADPSSPGTSGVGPAAGAGDSR 24 0 A0A0U1RRM4 A0A0U1RRM4 1 0 GPAADPS(0.19)S(0.803)PGT(0.006)S(0.002)GVGPAAGAGDSR 117.23 4.30E-06 7060400 782.91 510.31 559.19 630.59 709 639.89 725.94 621.3 605.29 533.23 TRUE FALSE FALSE 865.2600659 526.8443788 635.3935011 642.7959813 654.6765732 585.3677721 644.2553206 605.4080456 601.0777376 556.2201549 1.555607179 0.947186782 1.142341743 1.155650286 1.1770098 1.052403022 1.158273959 1.088432414 1.080647172 1 9.119512212 -7.217001338 24.99966546 1.262370492 1.109599009 0.069685474 0.151014235 793.2419281 446257.5189 0.034911718 0.042757843 6.07E-08 7.217001338 -0.152771483 GPAFNMASPES(ph)DFGINLK ddPTM_HeLa_SAHA_4h_R1 1 GPAFNMASPESDFGINLK 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GPAFNMAS(0.185)PES(0.815)DFGINLK 72.731 0.020486 8317100 767.44 984.53 608.01 662.94 833.52 1158 1142.6 991.89 1060.8 876.51 TRUE FALSE FALSE 848.1628603 1016.429418 690.8664364 675.7721623 769.6558777 1059.331885 1014.031641 966.51889 1053.417806 914.3006356 0.927662989 1.111701533 0.755622833 0.73911374 0.841797378 1.15862534 1.109079007 1.057112784 1.152156922 1 9.836524813 -5.252468599 24.90297955 0.935559199 1.108353045 0.279346881 0.12925489 604.540551 1678206.369 0.016901612 0.042398327 5.59E-06 5.252468599 0.172793846 GPAGEAGAS(ph)PPVR ddPTM_HeLa_SAHA_4h_R1 2 GPAGEAGASPPVR 13 0 Q13425;A0A140TA73;Q13425-2 Q13425 SNTB2 Beta-2-syntrophin 1 0 GPAGEAGAS(1)PPVR;GPAGEAGAS(1)PPVR ; 91.712 0.0094505 51665000 4624.8 5100.4 4051 5172.7 5104.1 6031.7 5264.4 4858.2 6196.5 4847.4 TRUE FALSE FALSE 5111.257683 5265.656306 4603.049183 5272.825088 4713.024961 5517.765227 4672.035857 4733.934279 6153.378052 5056.395137 1.01085013 1.041385446 0.910342064 1.042803212 0.932091902 1.091244865 0.923985514 0.936227124 1.216949603 1 12.30389349 GPAGEAGAS(ph)PPVRR ddPTM_HeLa_SAHA_4h_R1 1 GPAGEAGASPPVRR 14 1 Q13425;A0A140TA73;Q13425-2 Q13425 SNTB2 Beta-2-syntrophin 1 0 GPAGEAGAS(1)PPVRR 97.631 0.014951 18070000 2701.9 2369 2295 2462.3 2675.3 2994.6 2964.5 2491.7 2661.4 2410.2 TRUE FALSE FALSE 2986.098239 2445.757154 2607.750648 2509.961377 2470.319092 2739.443233 2630.926658 2427.965922 2642.879101 2514.115517 1.187733109 0.972810174 1.037243766 0.998347673 0.982579788 1.089625045 1.046462122 0.965733637 1.051216256 1 11.29583522 -7.226223917 24.99928451 1.088651785 1.016640966 0.21971534 0.056325515 823.8475191 584846.2565 0.012684667 0.015535192 5.94E-08 7.226223917 -0.072010819 GPAPAPQQCSEPET(ph)K ddPTM_HeLa_SAHA_4h_R1 1 GPAPAPQQCSEPETK 15 0 G3V154;Q3YEC7;Q3YEC7-2 G3V154 RABL6 Rab-like protein 6 1 0 GPAPAPQQCS(0.165)EPET(0.835)K 111.81 0.0032326 4229400 913.64 1111.8 918.35 941.02 1027.5 1284.4 1049.5 1118 1202.8 820.11 TRUE FALSE FALSE 1009.740847 1147.823049 1043.497955 959.2348028 948.773172 1174.961894 931.4074979 1089.403179 1194.429617 855.4689556 1.180336049 1.341747169 1.219796404 1.121297034 1.109067916 1.373471108 1.08876832 1.273457291 1.396227892 1 9.740571691 -8.771595499 0.783877411 1.005167338 1.211839599 0 0.151475164 0.434664421 0.520211997 0.048867463 0.018855137 1.69E-09 8.771595499 0.206672261 GPAPWSLASAGAPPR ddPTM_HeLa_SAHA_4h_R1 2 GPAPWSLASAGAPPR 15 0 Q96JY6-5 Q96JY6-5 PDLIM2 PDZ and LIM domain protein 2 0 0 ; ; 109.44 0.0016454 2223030 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 GPAS(ph)DSETEDAS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 GPASDSETEDASR 13 0 Q96ST2-3;Q96ST2 Q96ST2-3 IWS1 Protein IWS1 homolog 2 0 GPAS(0.996)DS(0.005)ET(0.007)EDAS(0.991)R 105.58 0.004609 0 762.32 1147.8 786.93 820.53 1028.7 1139.2 1006.6 823.87 1698.1 1015 TRUE FALSE FALSE 842.5043152 1184.989473 894.1687222 836.4125447 949.8812282 1042.133751 893.3347188 802.7965983 1686.282784 1058.761617 0.795745049 1.119222168 0.844542065 0.789991374 0.897162508 0.984294986 0.843754349 0.758241124 1.592693536 1 10.04816208 GPASQFYITPSTSLS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 GPASQFYITPSTSLSPR 17 0 H0YIQ2;P49750-3;P49750-1;P49750 H0YIQ2 YLPM1 YLP motif-containing protein 1 1 0 GPASQFYITPS(0.003)T(0.033)S(0.227)LS(0.737)PR;GPASQFYITPSTSLS(1)PR ; 189.84 5.85E-12 26821000 2715.14 3128.3 3086.8 3492.8 3733.7 3466.9 3020.1 3246.4 3425.6 3218.7 TRUE FALSE FALSE 3000.730883 3229.658973 3507.453029 3560.408195 3447.624713 3171.500616 2680.2704 3163.361789 3401.760971 3357.473909 0.893746598 0.96193122 1.044670226 1.06044255 1.026850783 0.944609162 0.798299696 0.94218507 1.01319059 1 11.71316047 -4.972031373 16.31669629 0.970511588 0.870536044 0.36703178 0.059808369 4.944395124 2881.334557 0.009675209 0.029010577 1.07E-05 4.972031373 -0.099975544 GPAST(ph)PTYSPAPTQPAPR ddPTM_HeLa_SAHA_4h_R1 1 GPASTPTYSPAPTQPAPR 18 0 Q6P1N0;Q6P1N0-2;K7EJY5 Q6P1N0 CC2D1A Coiled-coil and C2 domain-containing protein 1A 1 0 GPAS(0.07)T(0.789)PT(0.028)YS(0.112)PAPTQPAPR 216.01 1.81E-21 9962700 682.75 751.57 513.4 598.44 584.18 783.4 704.85 601.66 585.06 436.07 TRUE FALSE FALSE 754.5647776 775.9213611 583.3634783 610.0236716 539.4202546 716.6499127 625.5384229 586.2704084 580.9885198 454.8711118 1.658854031 1.705804878 1.282480824 1.341091258 1.185874945 1.575501047 1.375199275 1.288871492 1.277259656 1 8.829314004 -9.506152874 1.282306227 1.002266982 1.450083613 0.233845594 0.182124138 0.319125357 0.946712552 0.122843814 0.030349162 3.12E-10 9.506152874 0.447816631 GPASTPT(ph)YSPAPTQPAPR ddPTM_HeLa_SAHA_4h_R1 1 GPASTPTYSPAPTQPAPR 18 0 Q6P1N0;Q6P1N0-2;K7EJY5 Q6P1N0 CC2D1A Coiled-coil and C2 domain-containing protein 1A 1 0 GPAS(0.019)T(0.221)PT(0.491)YS(0.268)PAPTQPAPR 255.72 3.03E-88 0 186.49 469.2 351.93 371.53 394.04 604.02 407.18 479.31 533.27 374.03 TRUE FALSE FALSE 206.1058738 484.4023879 399.8891876 378.7215004 363.8487403 552.5540979 361.3630348 467.0499442 529.5589307 390.1562638 0.528264936 1.241559941 1.02494622 0.970691837 0.932571829 1.416237926 0.926200777 1.197084316 1.357299574 1 8.607908252 -7.249971399 24.8129804 0.777236216 1.092251041 0 0.25665373 598.4381967 1294826.281 0.036318311 0.044275005 5.62E-08 7.249971399 0.315014825 GPAVGIDLGTTYSCVGVFQHGK ddPTM_HeLa_SAHA_4h_R1 1 GPAVGIDLGTTYSCVGVFQHGK 22 0 P11142;E9PKE3;P11142-2;E9PNE6;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;E9PN25;E9PI65 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 287.48 1.78E-110 1270200 190.74 263.79 56.755 333.75 289.09 352.92 389.23 291.2 247.49 206.09 FALSE FALSE TRUE 210.8029083 272.3369691 64.48927583 340.2102139 266.9399867 322.8492305 345.432816 283.7515257 245.7676969 214.9755485 0.980590164 1.266827651 0.299984237 1.582553068 1.241722552 1.501795124 1.606847004 1.31992465 1.143235585 1 7.748028765 GPDEAMEDGEEGS(ph)DDEAEWVVTK ddPTM_HeLa_SAHA_4h_R1 3 GPDEAMEDGEEGSDDEAEWVVTK 23 0 Q9NZN4-2;Q9NZN4 Q9NZN4-2 EHD2 EH domain-containing protein 2 1 0 GPDEAMEDGEEGS(0.997)DDEAEWVVT(0.003)K;GPDEAMEDGEEGS(0.997)DDEAEWVVT(0.003)K;GPDEAMEDGEEGS(0.999)DDEAEWVVT(0.001)K ;; 94.295 0.00011033 20147000 2610.63 3512.32 2400.05 2496.08 3220.95 3466.07 3538.92 2615.8 3391.32 2990.56 TRUE FALSE FALSE 2885.228041 3626.121473 2727.116315 2544.395238 2974.161507 3170.741336 3140.711408 2548.891624 3367.719528 3119.497677 0.924901487 1.162405569 0.874216492 0.815642613 0.953410393 1.016426895 1.006800368 0.817083995 1.079571097 1 11.60709802 GPDGLTAFEATDNQAIK ddPTM_HeLa_SAHA_4h_R1 2 GPDGLTAFEATDNQAIK 17 0 C9JL85;P58546 C9JL85 MTPN Myotrophin 0 0 ; ; 255.45 3.23E-46 12610500 2011.3 1789.06 1888.66 1670.87 1583.94 2042.3 1964.96 2020.12 2346.6 1657.91 FALSE FALSE TRUE 2222.857762 1847.026718 2146.036749 1703.212105 1462.578859 1868.28455 1743.857529 1968.448255 2330.26982 1729.390614 1.285341637 1.068021708 1.24092078 0.984862582 0.845719208 1.080313803 1.008365326 1.1382323 1.347451409 1 10.75604805 -6.236443624 24.27520133 1.139340883 1.005937649 0.307631046 0.121901884 679.1884603 659609.2582 0.019392769 0.032148968 5.80E-07 6.236443624 -0.133403234 GPDGPWGVGT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 GPDGPWGVGTPR 12 0 Q8TER5-4;Q8TER5-3;Q8TER5;Q8TER5-2 Q8TER5-4 ARHGEF40 Rho guanine nucleotide exchange factor 40 1 0 GPDGPWGVGT(1)PR;GPDGPWGVGT(1)PR ; 106.54 0.0066896 13265900 2009.31 2309.97 2234.25 1765.39 2360.7 2281.41 2058.04 2150.99 2547.2 2286.7 TRUE FALSE FALSE 2220.658445 2384.814544 2538.721955 1799.561676 2179.823676 2087.021033 1826.463923 2095.97079 2529.473828 2385.290828 0.930980163 0.999800324 1.064323866 0.754441201 0.913860755 0.874954538 0.765719593 0.878706599 1.060446717 1 11.21994946 -6.260733739 24.99999181 0.976132178 0.83986572 0.639087098 0.062502311 35.50576063 1257918.589 0.008775158 0.01400224 5.49E-07 6.260733739 -0.136266457 GPELPLVPVK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 GPELPLVPVKR 11 1 Q96DI7;Q96DI7-2 Q96DI7 SNRNP40 U5 small nuclear ribonucleoprotein 40 kDa protein 0 1 GPELPLVPVK(1)R 87.806 0.014174 912140 590.33 526.61 466.48 617.18 1092.9 1163.7 988.44 1111.1 669.7 471.16 FALSE TRUE FALSE 652.4236179 543.6725095 530.0494651 629.1264114 1009.162238 1064.546213 877.2181298 1082.679671 665.0395032 491.4740134 1.327483448 1.106208049 1.078489301 1.280080725 2.05333794 2.166027469 1.784871846 2.202923535 1.353152934 1 8.940971326 -5.801735753 4.548769216 1.150801887 2.045833255 0.89314682 0.146005308 0.047047098 2.148610766 0.022938287 0.043646309 1.58E-06 5.801735753 0.895031368 GPGDLMGPQGLS(ph)PEEMAR ddPTM_HeLa_SAHA_4h_R1 2 GPGDLMGPQGLSPEEMAR 18 0 Q86UU0-3;Q86UU0-4;Q86UU0-2;Q86UU0;A0A087WZX0 Q86UU0-3 BCL9L B-cell CLL/lymphoma 9-like protein 1 0 GPGDLMGPQGLS(1)PEEMAR;GPGDLMGPQGLS(1)PEEMAR ; 182.09 1.48E-09 20006500 1963.09 2041.42 2328.4 2144.9 2429.6 2532 2359.5 2043.86 2707 2241 TRUE FALSE FALSE 2169.576813 2107.563347 2645.702226 2186.417641 2243.444573 2316.259355 2094.00285 1991.581021 2688.161767 2337.620477 0.928113368 0.90158491 1.131792886 0.935317629 0.95971292 0.990862023 0.895783927 0.851969359 1.149956459 1 11.19082501 -4.603859746 3.867561251 0.971234274 0.859589151 0.225710949 0.082016644 0.193103145 5.403459919 0.008270615 0.03761116 2.49E-05 4.603859746 -0.111645123 GPGGSQGSQGPS(ph)PQGAR ddPTM_HeLa_SAHA_4h_R1 5 GPGGSQGSQGPSPQGAR 17 0 Q96MG7 Q96MG7 NDNL2 Melanoma-associated antigen G1 1 0 GPGGSQGSQGPS(1)PQGAR;GPGGSQGSQGPS(1)PQGAR;GPGGSQGSQGPS(1)PQGAR;GPGGSQGSQGPS(1)PQGAR;GPGGSQGS(0.001)QGPS(0.999)PQGAR ;;;; 204.81 1.26E-15 51725460 2051.895 2069.01 1716.54 2066.992 2196.4 2320.04 2277.15 2355.821 2418.04 2176.29 TRUE FALSE FALSE 2267.722731 2136.047282 1950.461132 2107.001619 2028.112307 2122.35954 2020.919089 2295.56251 2401.212663 2270.120512 0.998943765 0.940940038 0.859188365 0.928145271 0.893394115 0.934910516 0.890225465 1.011207333 1.05774678 1 11.14855317 -7.172799146 3.947252842 0.999619608 0.917024065 0.516069009 0.041762829 0.12944952 3.735244808 0.005790936 0.007105231 6.72E-08 7.172799146 -0.082595543 GPGGSQGSQGPS(ph)PQGARR ddPTM_HeLa_SAHA_4h_R1 2 GPGGSQGSQGPSPQGARR 18 1 Q96MG7 Q96MG7 NDNL2 Melanoma-associated antigen G1 1 0 GPGGSQGS(0.001)QGPS(0.999)PQGARR;GPGGS(0.001)QGS(0.006)QGPS(0.992)PQGARR ; 74.444 0.0052473 3371700 201.37 59.904 190.535 98.659 317.9 213.34 274.67 304.49 59.296 52.949 TRUE FALSE FALSE 222.5510205 61.8449289 216.5001175 100.5686876 293.5425707 195.1622318 243.7634087 296.7015867 58.88335431 55.23189052 4.029393498 1.119732248 3.919838983 1.820844564 5.314729732 3.533506276 4.413454011 5.37192524 1.066111512 1 5.787429605 -7.157597844 0.139721553 1.12E-28 6.299704432 0.532290202 1.135866293 3.977562236 0.474073817 9.094951804 10.3414072 6.96E-08 7.157597844 6.299704432 GPGPGQGS(ph)PGGGPGPR ddPTM_HeLa_SAHA_4h_R1 2 GPGPGQGSPGGGPGPR 16 0 H0YDS2;Q8IYL2 H0YDS2 TRMT44 Probable tRNA (uracil-O(2)-)-methyltransferase 1 0 GPGPGQGS(1)PGGGPGPR;GPGPGQGS(1)PGGGPGPR ; 164.82 2.48E-06 6217900 1905.62 1603.61 1610.89 1490.9 1920.34 2136.7 1838.04 1733.37 1336.92 1983.78 TRUE FALSE FALSE 2106.061855 1655.568016 1830.4137 1519.758525 1773.203964 1954.641139 1631.218902 1689.032905 1327.616265 2069.310464 1.017760211 0.800057819 0.884552479 0.734427507 0.856905716 0.944585732 0.788291042 0.816229819 0.641574229 1 11.0149344 -7.266377399 24.94310495 1.00838677 0.833996645 0 0.127863532 155.9572924 787775.9042 0.008877059 0.010319873 5.42E-08 7.266377399 -0.174390125 GPGQPS(ph)SPQRLDR ddPTM_HeLa_SAHA_4h_R1 1 GPGQPSSPQRLDR 13 1 O95400 O95400 CD2BP2 CD2 antigen cytoplasmic tail-binding protein 2 1 0 GPGQPS(0.5)S(0.5)PQRLDR 115.24 0.0072018 6516500 1526.2 1663.9 1837.2 1758.6 1669.8 1955.6 2077.5 1588.1 1719.1 1549.6 TRUE FALSE FALSE 1686.732718 1717.811452 2087.564048 1792.640246 1541.860285 1788.971878 1843.734232 1547.478702 1707.136643 1616.41084 1.043504954 1.062731955 1.291481099 1.109025133 0.953878956 1.10675568 1.140634662 0.957354816 1.056127936 1 10.65857822 -7.43038535 2.377293193 1.017317788 1.094609743 0.071498312 0.090849096 0.456178086 4.937775426 0.01675365 0.018698131 3.71E-08 7.43038535 0.077291956 GPGQPSS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 1 GPGQPSSPQR 10 0 O95400 O95400 CD2BP2 CD2 antigen cytoplasmic tail-binding protein 2 1 0 GPGQPS(0.04)S(0.96)PQR 87.713 0.02008 6912900 2888.4 4503 2371.1 3461.6 3840.1 4519 3603.6 2483.5 4931.4 3836.4 TRUE FALSE FALSE 3192.215164 4648.900155 2694.22116 3528.604274 3545.872368 4133.955777 3198.113444 2419.975666 4897.081986 4001.805979 0.797693637 1.161700537 0.673251321 0.881752962 0.886068037 1.03302254 0.799167541 0.604720888 1.223717994 1 11.96643551 -13.52287874 0.020692649 2.068396198 1.22E-08 0.215396282 0.1681505 4194.636505 6.998202165 467.5205712 260.4677749 3.00E-14 13.52287874 -2.068396186 GPGS(ph)PPRT(ph)PPAPGPPSFEEQLR ddPTM_HeLa_SAHA_4h_R1 1 GPGSPPRTPPAPGPPSFEEQLR 22 1 A0A6E1YH78;Q6ZTN6-2;Q6ZTN6;Q6ZTN6-3 A0A6E1YH78 ANKRD13D Ankyrin repeat domain-containing protein 13D 2 0 GPGS(1)PPRT(1)PPAPGPPSFEEQLR 75.533 0.007093 5690900 959.01 647.6 524.89 714.34 826.69 1058 846.53 1130.8 789.41 721.1 TRUE FALSE FALSE 1059.883072 668.5826649 596.4192757 728.1670837 763.3491908 967.8524479 751.2762165 1101.875773 783.9164315 752.19015 1.409062684 0.888847939 0.792910244 0.968062509 1.014835399 1.286712473 0.99878497 1.464889926 1.042178539 1 9.554953604 -8.544762361 0.002046797 0.000181986 2.262169243 0 0.216101455 1428943.655 1119.557568 622055.2494 615198.2864 2.85E-09 8.544762361 2.261987257 GPGSWWTS(ph)TESLCSNASGDSR ddPTM_HeLa_SAHA_4h_R1 2 GPGSWWTSTESLCSNASGDSR 21 0 Q63ZY3-3;Q63ZY3;Q63ZY3-2;K7ES05 Q63ZY3-3 KANK2 KN motif and ankyrin repeat domain-containing protein 2 1 0 GPGSWWT(0.006)S(0.885)T(0.058)ES(0.012)LCS(0.039)NASGDSR;GPGSWWT(0.011)S(0.959)T(0.015)ES(0.005)LCS(0.009)NAS(0.001)GDSR ; 164.5 2.30E-07 9570300 1679.54 1423.07 1361.59 2054.09 1620.82 1988.33 2005.49 2140.88 1731.65 1534.72 TRUE FALSE FALSE 1856.201723 1469.178402 1547.140394 2093.849882 1496.633122 1818.913098 1779.826987 2086.11939 1719.599307 1600.88929 1.15948163 0.917726423 0.966425601 1.307929221 0.934876091 1.136189185 1.111773936 1.303100347 1.074152546 1 10.64465783 GPHCLNGGQCMDR ddPTM_HeLa_SAHA_4h_R1 2 GPHCLNGGQCMDR 13 0 Q04721 Q04721 NOTCH2 Neurogenic locus notch homolog protein 2;Notch 2 extracellular truncation;Notch 2 intracellular domain 0 0 ; ; 110.66 0.00056686 995440 1083.92 951.81 870.34 976.63 1050.01 1030.16 1199.29 1072.22 1216.93 1242.6 FALSE FALSE TRUE 1197.931679 982.6492685 988.9454027 995.5340859 969.5584606 942.3845725 1064.342733 1044.794165 1208.461285 1296.174567 0.924205511 0.758114912 0.762972386 0.768055562 0.748015341 0.727050658 0.821141503 0.806059763 0.932329113 1 10.34004432 -7.403701123 2.30404593 0.970912859 0.767995949 0.870754779 0.032043319 0.070137622 0.708800032 0.006598373 0.007430876 3.95E-08 7.403701123 -0.202916911 GPHHLDNSS(ph)PGPGSEAR ddPTM_HeLa_SAHA_4h_R1 4 GPHHLDNSSPGPGSEAR 17 0 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 GPHHLDNS(0.105)S(0.888)PGPGS(0.007)EAR;GPHHLDNS(0.102)S(0.897)PGPGS(0.001)EAR;GPHHLDNS(0.288)S(0.709)PGPGS(0.003)EAR;GPHHLDNS(0.04)S(0.96)PGPGSEAR ;;; 188.54 5.32E-12 32138100 4300.04 5837.34 3862.08 6018.27 7176.6 3264.89 6004.42 5609.9 8420.8 5333.17 TRUE FALSE FALSE 4752.337936 6026.473646 4388.38415 6134.762318 6626.730458 2986.703004 5328.786859 5466.406881 8362.198967 5563.109059 0.854259351 1.083292379 0.788836621 1.102757874 1.191191902 0.536876587 0.957879273 0.982617242 1.503152083 1 12.44167567 -5.28453637 24.99848754 0.95864982 0.838999686 0.059804738 0.235444676 1341.629397 1452079.279 0.022662556 0.050703755 5.19E-06 5.28453637 -0.119650134 GPIHS(ph)PVELK ddPTM_HeLa_SAHA_4h_R1 1 GPIHSPVELK 10 0 Q16649 Q16649 NFIL3 Nuclear factor interleukin-3-regulated protein 1 0 GPIHS(1)PVELK 76.073 0.023453 11337000 3309.5 3519.5 3085 4668.3 5432.6 5332.9 5569.9 5342.4 3839.5 3624.3 TRUE FALSE FALSE 3657.608395 3633.534109 3505.407734 4758.661697 5016.355362 4878.506918 4943.160193 5205.749144 3812.780607 3780.56131 0.967477603 0.96110969 0.927218856 1.258718298 1.326881103 1.290418675 1.307520177 1.376977839 1.008522358 1 11.88438474 -6.174329962 4.437247348 0.978238224 1.318020219 0.966663503 0.031610151 0.028814525 1.015525622 0.004866316 0.00818929 6.69E-07 6.174329962 0.339781995 GPIK(ac)FNVWDTAGQEK ddPTM_HeLa_SAHA_4h_R1 1 GPIKFNVWDTAGQEK 15 1 F5H018;B5MDF5;J3KQE5;P62826;H0YFC6 F5H018 RAN GTP-binding nuclear protein Ran 0 1 GPIK(1)FNVWDTAGQEK 198.33 4.91E-19 0 181.61 447.08 0 210.25 291.87 255.44 402.74 153.89 255.25 200 FALSE TRUE FALSE 200.7125731 461.5656853 0 214.3196928 269.5069837 233.6750749 357.4226352 149.9537166 253.4736945 208.6229788 0.962082769 2.212439339 0 1.027306263 1.291837482 1.12008311 1.713246725 0.718778523 1.214984543 1 7.704754262 -5.795006743 8.875117044 1.005014968 1.240320552 0.006481475 0.550191508 0.768831824 187.8667188 0.074891416 0.136922786 1.60E-06 5.795006743 0.235305584 GPIKFNVWDTAGQEK ddPTM_HeLa_SAHA_4h_R1 2 GPIKFNVWDTAGQEK 15 1 F5H018;B5MDF5;J3KQE5;P62826;H0YFC6 F5H018 RAN GTP-binding nuclear protein Ran 0 0 ; ; 213.99 3.39E-33 4209900 2833.2 1964.71 2779.3 3014.1 3082.6 2211.72 2951.1 1312.08 1671.45 2506.63 FALSE FALSE TRUE 3131.208975 2028.367893 3158.04853 3072.442264 2846.411854 2023.269013 2619.034461 1278.518893 1659.818243 2614.703086 1.197539021 0.775754579 1.207803879 1.17506354 1.088617621 0.7738045 1.001656546 0.488972878 0.634801807 1 11.35243141 -3.969463387 0.93944915 1.082339782 1.02E-13 0.270107671 0.204621258 1.873288622 0.868238305 0.022858173 2.343669611 0.000107284 3.969463387 -1.082339782 GPKPEPPGS(ph)GSPAPPR ddPTM_HeLa_SAHA_4h_R1 2 GPKPEPPGSGSPAPPR 16 1 Q9UKJ3-2;Q9UKJ3 Q9UKJ3-2 GPATCH8 G patch domain-containing protein 8 1 0 GPKPEPPGS(0.74)GS(0.26)PAPPR;GPKPEPPGS(0.86)GS(0.14)PAPPR ; 83.423 0.0064065 89896000 5444.8 5115.1 4532 5434.6 5773.1 6162.9 5392.5 6217.3 6590.6 5546.5 TRUE FALSE FALSE 6017.509046 5280.832596 5149.597358 5539.794542 5330.766325 5637.786248 4785.721708 6058.270469 6544.735478 5785.636759 1.040077229 0.912748729 0.890065791 0.957508183 0.921379365 0.974445248 0.827172861 1.047122507 1.131204006 1 12.49826003 -7.259654937 24.98774756 1.018925359 0.929303826 0.396833636 0.065141207 112.906661 1581047.689 0.008326787 0.009906791 5.50E-08 7.259654937 -0.089621533 GPKVDIDT(ph)PDINIEGSEGK ddPTM_HeLa_SAHA_4h_R1 2 GPKVDIDTPDINIEGSEGK 19 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GPKVDIDT(1)PDINIEGSEGK;GPKVDIDT(1)PDINIEGSEGK ; 111.25 0.00084243 42497000 7011.5 9379.7 9885.9 4446.6 7768.7 9836 9443.6 4591.7 4406 8702.2 TRUE FALSE FALSE 7749.00174 9683.608434 11233.09897 4532.670373 7173.463884 8997.917464 8380.981274 4474.250963 4375.338287 9077.39443 0.853659252 1.066782821 1.237480541 0.49933606 0.790255832 0.991244518 0.923280501 0.492900358 0.482003765 1 13.14806253 -6.260022714 24.99707293 0.962396347 0.766435162 0.125570122 0.235043206 156.5292066 2761947.672 0.027953199 0.044759679 5.50E-07 6.260022714 -0.195961185 LKATVTPSPVK(ac)GK ddPTM_HeLa_SAHA_4h_R1 2 LKATVTPSPVKGK 13 2 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 0 1 ; LKATVTPSPVK(1)GK;LKATVTPSPVK(1)GK 145.1 5.62E-05 15822000 4921.2 5249.2 10637.4 16384.5 19142 19282.8 27168 21581.4 1036.7 3571.5 FALSE TRUE FALSE 5438.834395 5419.277524 12087.00947 16701.64569 17675.3441 17639.79696 24110.98514 21029.37904 1029.48552 3725.484843 1.459899751 1.454650267 3.244412468 4.483079758 4.744441284 4.734899671 6.471905309 5.644736167 0.276335984 1 11.86321248 -6.284687562 0.844399341 1.119149243 5.832269401 0.939585755 0.50554721 0.08301924 0.11692998 0.083173728 0.187737795 5.19E-07 6.284687562 4.713120158 up GPLPVK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GPLPVKR 7 1 P38159;P38159-2;H3BUY5;H0Y6E7;H3BT71;Q96E39;A0A1B0GUK8 P38159;Q96E39 RBMX;RBMXL1 "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed;RNA binding motif protein, X-linked-like-1" 0 1 ; GPLPVK(1)R;GPLPVK(1)R 97.596 0.0079953 161750000 6778.5 5476.5 5787.3 8565.3 8225.6 7491.5 10193.3 9151.1 3966.2 3913.1 FALSE TRUE FALSE 7491.493731 5653.942193 6575.963105 8731.093767 7595.356305 6853.182054 9046.323057 8917.028113 3938.598891 4081.812891 1.835334919 1.385154671 1.61103982 2.139023517 1.860780126 1.678955463 2.216251283 2.18457542 0.964914119 1 11.99499434 -10.30543009 0.176987103 3.86E-12 2.20531746 0.768190503 0.20845503 7.150878557 0.240996307 3.670945369 0.458117024 4.95E-11 10.30543009 2.20531746 GPLS(ph)PFNSR ddPTM_HeLa_SAHA_4h_R1 3 GPLSPFNSR 9 0 A1L390-3;A1L390;A0A0U1RR71;G3V3I3;G3V278 A1L390-3 PLEKHG3 Pleckstrin homology domain-containing family G member 3 1 0 GPLS(1)PFNSR;GPLS(0.938)PFNS(0.062)R;GPLS(0.793)PFNS(0.207)R ;; 133.91 0.0016474 68893000 10903 11087.6 10913.9 9718.8 10501.4 12157.2 10839.9 10634.3 10682.4 11006.6 TRUE FALSE FALSE 12049.82756 11446.84551 12401.18945 9906.921428 9696.785001 11121.33817 9620.165923 10362.29 10608.06031 11481.14839 1.049531559 0.997012243 1.080134934 0.862885932 0.844583196 0.968660781 0.837909728 0.902548217 0.923954638 1 13.48697933 -6.252912316 24.9976881 1.025455042 0.883384287 0.591415418 0.05192479 233.7869016 685362.4975 0.006016422 0.009876281 5.59E-07 6.252912316 -0.142070755 GPLSPFNS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 GPLSPFNSR 9 0 A1L390-3;A1L390;A0A0U1RR71;G3V3I3;G3V278 A1L390-3 PLEKHG3 Pleckstrin homology domain-containing family G member 3 1 0 GPLS(0.312)PFNS(0.688)R 85.924 0.021604 28557000 2910.8 2681.7 2871.8 2285.4 2689.6 3000.2 2774.7 2783.2 2749.8 2817.3 TRUE FALSE FALSE 3216.971299 2768.58884 3263.153948 2329.637222 2483.523429 2744.566081 2462.483453 2712.009774 2730.663918 2938.767591 1.094666795 0.942091797 1.110381766 0.792725913 0.845090111 0.933917364 0.837930655 0.922839146 0.929186754 1 11.52099555 -6.262511062 24.99982507 1.040988973 0.867469316 0.530148699 0.067895703 43.40071785 1012438.861 0.009110344 0.014421074 5.46E-07 6.262511062 -0.173519657 GPPAS(ph)SPAPAPK ddPTM_HeLa_SAHA_4h_R1 1 GPPASSPAPAPK 12 0 Q15942;Q15942-2;H0Y2Y8;H7C3D3 Q15942 ZYX Zyxin 1 0 GPPAS(0.627)S(0.373)PAPAPK 140.45 0.00065675 367530000 9705.6 10169 9263.9 7711.8 9108.2 8469 8532.5 6489.1 9594.1 8262.6 TRUE FALSE FALSE 10726.47954 10498.48227 10526.33605 7861.07304 8410.331684 7747.393555 7572.400644 6323.118218 9527.333877 8618.841122 1.244538493 1.218085137 1.221316868 0.91208005 0.975807718 0.898890401 0.87858687 0.733639027 1.105407762 1 13.07327818 -6.169873521 5.618455223 1.134750541 0.882973911 0.712221455 0.08784229 0.142168203 6.961331367 0.017704003 0.029589376 6.76E-07 6.169873521 -0.25177663 GPPASS(ph)PAPAPK ddPTM_HeLa_SAHA_4h_R1 5 GPPASSPAPAPK 12 0 Q15942;Q15942-2;H0Y2Y8;H7C3D3 Q15942 ZYX Zyxin 1 0 GPPAS(0.151)S(0.849)PAPAPK;GPPAS(0.108)S(0.892)PAPAPK;GPPAS(0.131)S(0.869)PAPAPK;GPPAS(0.039)S(0.961)PAPAPK;GPPAS(0.04)S(0.96)PAPAPK ;;;; 151.26 0.00034239 515167400 26330.1 30762 28363 23353.9 26847.8 25296.5 26608.9 21476.6 27697.7 26447.6 TRUE FALSE FALSE 29099.62072 31758.70898 32228.16193 23805.9485 24790.72736 23141.09589 23614.79654 20927.25967 27504.94945 27587.88547 1.054797069 1.151183153 1.168199787 0.862913127 0.898609188 0.838813686 0.85598429 0.758567006 0.996993752 1 14.75174726 -6.149204672 7.11284329 1.047487382 0.844661033 0.761681562 0.063858005 0.118558632 6.741487241 0.010582129 0.017616124 7.09E-07 6.149204672 -0.20282635 GPPASSPAPAPKFS(ph)PVTPK ddPTM_HeLa_SAHA_4h_R1 2 GPPASSPAPAPKFSPVTPK 19 1 Q15942;Q15942-2;H0Y2Y8;H7C3D3 Q15942 ZYX Zyxin 1 0 GPPASS(0.002)PAPAPKFS(0.963)PVT(0.035)PK;GPPASSPAPAPKFS(0.999)PVT(0.001)PK ; 103.58 0.0007127 125898000 7214 5564 5997.3 6107.7 6288.1 6661.8 6538.9 7142.2 5061.8 5937.1 TRUE FALSE FALSE 7972.801619 5744.277251 6814.580811 6225.923365 5806.307136 6094.177162 5803.125763 6959.512866 5026.574522 6193.077436 1.287373152 0.92753196 1.10035453 1.005303652 0.937547963 0.984030512 0.937034265 1.123756797 0.811644061 1 12.59644077 -7.23820157 24.89280015 1.135704004 1.000421156 0 0.136091367 849.230539 909713.2026 0.01980946 0.024253621 5.78E-08 7.23820157 -0.135282848 GPPDFS(ph)SDEEREPTPVLGSGAAAAGR ddPTM_HeLa_SAHA_4h_R1 4 GPPDFSSDEEREPTPVLGSGAAAAGR 26 1 P42166;P42167;G5E972;P42167-2;P42167-3 P42166;P42167 TMPO "Lamina-associated polypeptide 2, isoform alpha;Thymopoietin;Thymopentin;Lamina-associated polypeptide 2, isoforms beta/gamma;Thymopoietin;Thymopentin" 1 0 GPPDFS(0.346)S(0.279)DEEREPT(0.346)PVLGS(0.029)GAAAAGR;GPPDFS(0.548)S(0.451)DEEREPT(0.001)PVLGSGAAAAGR;GPPDFS(0.77)S(0.228)DEEREPT(0.001)PVLGS(0.001)GAAAAGR;GPPDFS(0.551)S(0.449)DEEREPTPVLGSGAAAAGR ;;; 80.868 5.23E-05 413944000 1852.06 2912.79 1864.36 1854.94 2357.52 2295.57 2280.53 2384.3 2484.12 2241.41 TRUE FALSE FALSE 2046.868168 3007.166307 2118.425272 1890.845046 2176.887327 2099.974521 2023.918762 2323.313058 2466.832807 2338.048154 0.875460227 1.286186643 0.906065715 0.808728016 0.931070356 0.898174196 0.865644601 0.993697694 1.055082121 1 11.19108893 -6.553906115 24.99948925 0.971645091 0.895080888 0.178138301 0.11632156 388.7754752 313244.1763 0.018640771 0.026362188 2.79E-07 6.553906115 -0.076564203 GPPDFSS(ph)DEEREPTPVLGSGAAAAGR ddPTM_HeLa_SAHA_4h_R1 1 GPPDFSSDEEREPTPVLGSGAAAAGR 26 1 P42166;P42167;G5E972;P42167-2;P42167-3 P42166;P42167 TMPO "Lamina-associated polypeptide 2, isoform alpha;Thymopoietin;Thymopentin;Lamina-associated polypeptide 2, isoforms beta/gamma;Thymopoietin;Thymopentin" 1 0 GPPDFS(0.173)S(0.827)DEEREPTPVLGSGAAAAGR 117.4 7.13E-08 117600000 248.14 354.3 300.6 288.46 303.57 389.05 483.14 254.95 300.47 420.32 TRUE FALSE FALSE 274.2405037 365.7795525 341.5642025 294.0435604 280.3105322 355.9007513 428.7758156 248.4287482 298.3790048 438.4420522 0.625488596 0.834271144 0.779040698 0.67065547 0.639333136 0.811739543 0.977953218 0.566617064 0.680543765 1 8.776242368 -9.482096698 1.186718486 1.001993151 0.734814933 0 0.149943377 0.37583879 0.935634104 0.083054269 0.019701861 3.30E-10 9.482096698 -0.267178218 GPPDFSSDEEREPT(ph)PVLGSGAAAAGR ddPTM_HeLa_SAHA_4h_R1 1 GPPDFSSDEEREPTPVLGSGAAAAGR 26 1 P42166;P42167;G5E972;P42167-2;P42167-3 P42166;P42167 TMPO "Lamina-associated polypeptide 2, isoform alpha;Thymopoietin;Thymopentin;Lamina-associated polypeptide 2, isoforms beta/gamma;Thymopoietin;Thymopentin" 1 0 GPPDFS(0.022)S(0.018)DEEREPT(0.957)PVLGS(0.002)GAAAAGR 79.873 0.00010378 53114000 387.61 788.05 399.49 620.8 563.76 448.78 699.05 619.92 531.57 523.38 TRUE FALSE FALSE 428.3805982 813.5833371 453.9304167 632.8164817 520.5648306 410.5414192 620.3910542 604.063344 527.8707611 545.9454732 0.784658211 1.490228195 0.831457424 1.159120302 0.953510664 0.751982459 1.136360836 1.106453618 0.966892825 1 9.092613058 GPPGSADK(ac)AGK ddPTM_HeLa_SAHA_4h_R1 1 GPPGSADKAGK 11 1 P42285 P42285 SKIV2L2 Superkiller viralicidic activity 2-like 2 0 1 GPPGSADK(1)AGK 99.283 0.011469 686180 204.52 452.28 248.25 323.34 337.83 423.21 431.72 596.33 118.99 0 FALSE TRUE FALSE 226.032352 466.9341688 282.0802172 329.5987133 311.9455384 387.1501271 383.1417294 581.0767421 118.1619389 0 0 GPPQEEEEEEDEEEEATKEDAEAPGIR ddPTM_HeLa_SAHA_4h_R1 2 GPPQEEEEEEDEEEEATKEDAEAPGIR 27 1 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 0 0 ; ; 215.39 1.33E-32 30533000 670.78 872.49 398.29 535.91 868.89 767.18 715.78 865.8 681.88 383.604 FALSE FALSE TRUE 741.335718 900.7592485 452.566887 546.283313 802.3158359 701.811948 635.2385506 843.6540897 677.1347416 400.1430458 1.852676751 2.251093098 1.131012751 1.36522006 2.005072547 1.753902649 1.587528653 2.108381237 1.692231688 1 8.644372026 -9.252621686 0.917757473 0.98630416 1.745199325 0.044236969 0.381389406 0.458237942 0.674252395 0.236336325 0.060551615 5.59E-10 9.252621686 0.758895166 GPPQS(ph)PVFEGVYNNSR ddPTM_HeLa_SAHA_4h_R1 4 GPPQSPVFEGVYNNSR 16 0 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6;Q8WWM7-7;H3BSK9 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 GPPQS(1)PVFEGVYNNSR;GPPQS(1)PVFEGVYNNSR;GPPQS(0.953)PVFEGVY(0.047)NNSR;GPPQS(1)PVFEGVYNNSR ;;; 147.49 7.81E-05 329774000 5061.49 6722.37 5144.22 6029.31 6333.3 7798.33 6987.51 6199.65 7584.92 6346.26 TRUE FALSE FALSE 5593.880741 6940.179199 5845.247512 6146.016014 5848.043922 7133.868412 6201.256985 6041.07193 7532.135924 6619.878326 0.845012622 1.048384707 0.882984131 0.928418275 0.883406557 1.077643434 0.936762985 0.912565403 1.137805795 1 12.69258899 GPPS(ph)PPAPVMHS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 2 GPPSPPAPVMHSPSR 15 0 G3V4X8;G3V3A4;Q13573 G3V4X8 SNW1 SNW domain-containing protein 1 2 0 GPPS(1)PPAPVMHS(0.868)PS(0.132)R;GPPS(1)PPAPVMHS(0.862)PS(0.138)R ; 74.703 0.016172 32219000 2087.5 2327 1851.02 2188.6 2415.8 2620.2 1932.69 2202.55 2202.8 2602.3 TRUE FALSE FALSE 2307.072828 2402.396327 2103.267366 2230.963518 2230.701926 2396.944219 1715.218635 2146.21196 2187.470535 2714.497888 0.849907763 0.885024202 0.774827409 0.821869683 0.821773314 0.883015688 0.631873262 0.790647865 0.805847205 1 11.40646965 -13.52287874 0.079456056 1.712796216 0.581855413 0.097016049 0.084767081 76.87599323 0.469163374 9.639335231 1.082734546 3.00E-14 13.52287874 -1.130940803 GPPS(ph)PPAPVMHS(ph)PSRK ddPTM_HeLa_SAHA_4h_R1 1 GPPSPPAPVMHSPSRK 16 1 G3V4X8;G3V3A4;Q13573 G3V4X8 SNW1 SNW domain-containing protein 1 2 0 GPPS(1)PPAPVMHS(0.663)PS(0.337)RK 124.45 0.00088045 8226800 574.61 664.27 627.04 811.71 785.03 1022.3 902.64 930.21 1064.9 728.81 TRUE FALSE FALSE 635.0501162 685.7927838 712.4897457 827.4218208 724.881171 935.1942887 801.0725716 906.4165751 1057.489274 760.2325658 0.835336639 0.902082882 0.937199717 1.08837987 0.953499236 1.230142368 1.053720411 1.192288539 1.391007597 1 9.570297017 -5.76759373 1.104015044 0.919113083 1.147786939 0 0.167329016 0.28943135 0.688058962 0.014044488 0.040878072 1.71E-06 5.76759373 0.228673857 GPPS(ph)PPAPVMHSPS(ph)RK ddPTM_HeLa_SAHA_4h_R1 1 GPPSPPAPVMHSPSRK 16 1 G3V4X8;G3V3A4;Q13573 G3V4X8 SNW1 SNW domain-containing protein 1 2 0 GPPS(1)PPAPVMHS(0.324)PS(0.676)RK 124.91 0.00083309 7402200 928.23 1153 875.5 1157.6 996.07 1379.8 1162.4 1109.8 775.97 1083.4 TRUE FALSE FALSE 1025.86549 1190.357957 994.8085806 1180.007022 919.7513318 1262.233277 1031.603693 1081.412923 770.5699616 1130.110676 0.907756658 1.053310956 0.880275359 1.044151734 0.81385952 1.116911205 0.912834216 0.956908864 0.681853537 1 10.14224835 -5.247395605 24.96032881 0.955618276 0.987279668 0.007038105 0.1206775 2652.139143 4713695.622 0.010942294 0.027747613 5.66E-06 5.247395605 0.031661392 GPPS(ph)PPAPVMHSPSR ddPTM_HeLa_SAHA_4h_R1 1 GPPSPPAPVMHSPSR 15 0 G3V4X8;G3V3A4;Q13573 G3V4X8 SNW1 SNW domain-containing protein 1 1 0 GPPS(1)PPAPVMHSPSR 82.578 0.013358 9006900 2324.8 2288.8 1807 2513.6 2548.5 2413.9 2671.3 2314.1 2352 2441.9 TRUE FALSE FALSE 2569.333131 2362.958622 2053.24855 2562.254363 2353.234481 2208.22214 2370.718294 2254.908673 2335.632241 2547.182259 1.008696225 0.927675518 0.806086232 1.005917167 0.923857911 0.866927418 0.930721893 0.885256116 0.916947436 1 11.31468648 -7.193671948 4.712619928 1.004160353 0.905600957 0.200098963 0.055369781 0.133394702 5.832072443 0.007615128 0.00931255 6.40E-08 7.193671948 -0.098559395 GPQPPTVS(ph)PIR ddPTM_HeLa_SAHA_4h_R1 1 GPQPPTVSPIR 11 0 P46087;P46087-4;P46087-2 P46087 NOP2 Probable 28S rRNA (cytosine(4447)-C(5))-methyltransferase 1 0 GPQPPT(0.001)VS(0.999)PIR 124.48 0.0018106 115690000 1172.8 1336.4 1127.9 1044 1170.6 1104.5 1491.4 1385.3 1518.6 1077.8 TRUE FALSE FALSE 1296.160485 1379.700237 1281.604338 1064.20813 1080.908881 1010.390386 1323.583747 1349.866032 1508.031939 1124.269233 1.152891538 1.227197362 1.139944331 0.946577651 0.961432413 0.898708563 1.177283615 1.200660832 1.341344133 1 10.13477185 -6.288664634 24.87114624 1.092742499 1.032856284 0.074924952 0.131866063 1786.201998 1631749.328 0.018858217 0.028812274 5.14E-07 6.288664634 -0.059886215 GPRIS(ph)APNVDFNLEGPK ddPTM_HeLa_SAHA_4h_R1 2 GPRISAPNVDFNLEGPK 17 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GPRIS(1)APNVDFNLEGPK;GPRIS(1)APNVDFNLEGPK ; 106.57 0.0086161 26712300 3577.08 2414.71 2125.36 3263.93 3745.9 2598.22 3836.1 3987.92 2095.82 2279.07 TRUE FALSE FALSE 3953.333687 2492.948188 2414.992992 3327.108085 3458.889951 2376.837039 3404.451932 3885.914781 2081.235018 2377.331861 1.662928828 1.048632809 1.015841764 1.399513522 1.454946197 0.999791858 1.432047409 1.634569765 0.875449933 1 11.21512759 -9.699044183 1.590072951 1.000327968 1.368439998 0.287811308 0.235180329 0.47625755 2.174418882 0.181380969 0.040214434 2.00E-10 9.699044183 0.36811203 GPS(ph)PSPVGSPASVAQSR ddPTM_HeLa_SAHA_4h_R1 4 GPSPSPVGSPASVAQSR 17 0 O14497;O14497-2;H0Y488;A0A1B0GTU5;O14497-3;A0A087WUV6 O14497 ARID1A AT-rich interactive domain-containing protein 1A 1 0 GPS(0.9)PS(0.1)PVGSPASVAQSR;GPS(0.962)PS(0.038)PVGSPASVAQSR;GPS(0.5)PS(0.5)PVGSPASVAQSR;GPS(0.963)PS(0.037)PVGSPASVAQSR ;;; 229.69 8.21E-28 159494000 2014.16 2670.62 1762.86 2182.83 2273.22 2988.41 2486.07 2186.57 2557.22 2273.95 TRUE FALSE FALSE 2226.01859 2757.14984 2003.09338 2225.081831 2099.046375 2733.780656 2206.330861 2130.640706 2539.424098 2371.991113 0.93845992 1.162377812 0.844477608 0.938064995 0.884930118 1.152525674 0.930159834 0.898249869 1.070587526 1 11.21188289 GPS(ph)PSSPTPPAAAAPAEQAPR ddPTM_HeLa_SAHA_4h_R1 1 GPSPSSPTPPAAAAPAEQAPR 21 0 Q86VQ1 Q86VQ1 GLCCI1 Glucocorticoid-induced transcript 1 protein 1 0 GPS(0.381)PS(0.381)S(0.238)PT(0.001)PPAAAAPAEQAPR 209.19 9.18E-22 15075000 619.81 538.3 633.9 458.44 629.75 738.42 711.48 584.45 630.44 831.41 TRUE FALSE FALSE 685.0044596 555.7412732 720.2845908 467.3137691 581.4986911 675.5024618 631.4223979 569.5006153 626.0527167 867.2561539 0.789852521 0.64080407 0.830532695 0.538841687 0.670503966 0.77889613 0.728069089 0.656669443 0.721877514 1 9.760314362 -8.395509644 0.573487454 1.001794336 0.686270539 0.095950894 0.113362554 0.328808771 0.229986662 0.047555379 0.02113253 4.02E-09 8.395509644 -0.315523797 GPS(ph)SVEDIK ddPTM_HeLa_SAHA_4h_R1 1 GPSSVEDIK 9 0 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 1 0 GPS(0.902)S(0.098)VEDIK 107.11 0.0071636 7048600 2152.9 2393.9 1816.1 2219.8 1598.4 2659.9 2394 2043.6 3241.8 2561.3 TRUE FALSE FALSE 2379.3519 2471.463931 2063.58865 2262.767439 1475.930937 2433.261556 2124.620819 1991.327671 3219.24005 2671.730178 0.890565941 0.925042488 0.772379137 0.846929626 0.552425147 0.910743748 0.795222825 0.745332627 1.204927083 1 11.3835586 -7.322535817 0.576258353 0.981515431 0.759682455 0.492214958 0.116202458 0.455879661 0.343491711 0.030094652 0.034020834 4.76E-08 7.322535817 -0.221832976 GPS(ph)WDPFR ddPTM_HeLa_SAHA_4h_R1 2 GPSWDPFR 8 0 P04792;F8WE04 P04792 HSPB1 Heat shock protein beta-1 1 0 GPS(1)WDPFR;GPS(1)WDPFR ; 96.665 0.013337 134682000 8547.3 18960.5 11304.3 6233.2 13841 13853.1 19757.1 4211.8 9171.3 12768.3 TRUE FALSE FALSE 9446.34423 19574.83264 12844.79113 6353.852599 12780.50557 12672.73794 17533.97911 4104.068255 9107.476177 13318.8039 0.709248691 1.469714006 0.96441026 0.4770588 0.959583583 0.951492194 1.316483015 0.308140903 0.683805862 1 13.70117691 GPSFPEPLREEQDLER ddPTM_HeLa_SAHA_4h_R1 1 GPSFPEPLREEQDLER 16 1 A0A494BZY8;A0A1B0GVZ4;A0A494C0Q8;A0A494C085;P06132;A0A494C1D8;H0Y5R6;A0A494C0S8;Q5T446;A0A1B0GVN9 A0A494BZY8 UROD Uroporphyrinogen decarboxylase 0 0 85.287 0.014574 3060300 1603.2 1526.3 1265.4 1477.9 1639.3 1426 1849.6 1051.6 1837.2 1655.6 FALSE FALSE TRUE 1771.831932 1575.753121 1437.842122 1506.506892 1513.697188 1304.496778 1641.47814 1024.701595 1824.414776 1726.981018 1.025970704 0.912432218 0.832575522 0.872335524 0.87649903 0.755362545 0.950489972 0.593348499 1.056418546 1 10.75403651 -2.45995787 0.222894836 1.038927772 1.00E-17 0.616803659 0.081257085 12.89941199 0.273189557 0.062191546 4.263594552 0.003467705 2.45995787 -1.038927772 GPSLDIDT(ph)PDVNIEGPEGK ddPTM_HeLa_SAHA_4h_R1 1 GPSLDIDTPDVNIEGPEGK 19 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 GPS(0.185)LDIDT(0.815)PDVNIEGPEGK 145.43 0.00016185 12980000 1480.1 3120.5 2270.5 1094.9 2364.1 2820.6 2217.6 890.04 2068.4 2328.1 TRUE FALSE FALSE 1635.783709 3221.606247 2579.911916 1116.093373 2182.963169 2580.269012 1968.069812 867.2740656 2054.005836 2428.475784 0.673584525 1.326595994 1.06235851 0.459585959 0.898902588 1.062505555 0.810413604 0.357126915 0.845800419 1 11.24583539 -6.309225524 24.99826061 0.900408618 0.752077898 0.175592005 0.252007346 924.3786917 483566.3526 0.041966252 0.064104581 4.91E-07 6.309225524 -0.14833072 GPSPAAAS(ph)PEGSPLR ddPTM_HeLa_SAHA_4h_R1 2 GPSPAAASPEGSPLR 15 0 Q9P107;Q9P107-2 Q9P107 GMIP GEM-interacting protein 1 0 GPSPAAAS(0.998)PEGS(0.002)PLR;GPSPAAAS(0.999)PEGS(0.001)PLR ; 118.16 0.00033974 2804200 1549.32 2071.2 1027.43 1487.27 2033.87 2784.79 2289.94 1792.34 2239.44 1730.51 TRUE FALSE FALSE 1712.284586 2138.308239 1167.44281 1516.058261 1878.03532 2547.510225 2032.269924 1746.494538 2223.855555 1805.120755 0.94857066 1.184579055 0.646739453 0.839865287 1.040393179 1.411268591 1.125835997 0.967522274 1.23197052 1 10.81787964 -5.514810896 24.8359329 0.955987998 1.174281537 0.174607503 0.184605165 344.34623 1060027.422 0.023047462 0.047876925 3.06E-06 5.514810896 0.218293539 GPSPAPAS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 GPSPAPASSPK 11 0 Q9H7N4 Q9H7N4 SCAF1 "Splicing factor, arginine/serine-rich 19" 1 0 GPSPAPAS(0.705)S(0.295)PK 126.12 0.0016735 10957000 4600.7 5222.5 3548.3 4497.2 5481.7 5785.2 5055.1 4572.8 6248.4 5428.1 TRUE FALSE FALSE 5084.622735 5391.712427 4031.843845 4584.249809 5061.69333 5292.268413 4486.286844 4455.834397 6204.916876 5662.131955 0.898004987 0.952240688 0.712071686 0.809633164 0.893955381 0.934677689 0.792331736 0.786953471 1.095862287 1 12.46712966 -8.105405786 0.500495071 1.000768957 0.82945882 0.524785064 0.075087897 0.613036029 0.358655145 0.043993208 0.024261016 7.85E-09 8.105405786 -0.171310136 GPSPAPASS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 GPSPAPASSPK 11 0 Q9H7N4 Q9H7N4 SCAF1 "Splicing factor, arginine/serine-rich 19" 1 0 GPSPAPAS(0.429)S(0.571)PK 98.407 0.0093149 9218800 3878.7 4482.6 3494.6 3846.9 4750.9 5097 4529.8 4255.5 5876.3 5023.3 TRUE FALSE FALSE 4286.679462 4627.839181 3970.825889 3921.362312 4386.887068 4662.706925 4020.094982 4146.650472 5835.40635 5239.879046 0.818087483 0.883195803 0.757808692 0.748368861 0.837211514 0.889850106 0.767211408 0.791363777 1.113652872 1 12.35531779 -9.222058552 0.512693094 1.038165341 0.804195974 0.723372949 0.058535927 0.636466188 0.234915471 0.074442442 0.012319727 6.00E-10 9.222058552 -0.233969368 GPSPAPASS(ph)PKR ddPTM_HeLa_SAHA_4h_R1 2 GPSPAPASSPKR 12 1 Q9H7N4 Q9H7N4 SCAF1 "Splicing factor, arginine/serine-rich 19" 1 0 GPSPAPAS(0.01)S(0.99)PKR;GPSPAPAS(0.167)S(0.833)PKR ; 122.1 0.00075326 12982600 4148.6 5177.2 3860.7 4953 4689.3 5388.8 5215.5 4753 6179.1 5460.5 TRUE FALSE FALSE 4584.968782 5344.944677 4386.81609 5048.872477 4330.006847 4929.643923 4628.638214 4631.425142 6136.09914 5695.928878 0.804955413 0.938379813 0.770166936 0.886400197 0.760193278 0.865467956 0.812622193 0.813111477 1.077278047 1 12.47571542 -9.53774222 0.602919754 1.042652942 0.827003115 0.674125396 0.056376393 0.697713369 0.309814323 0.087666479 0.010277795 2.90E-10 9.53774222 -0.215649827 GPSPSS(ph)PTPPAAAAPAEQAPR ddPTM_HeLa_SAHA_4h_R1 1 GPSPSSPTPPAAAAPAEQAPR 21 0 Q86VQ1 Q86VQ1 GLCCI1 Glucocorticoid-induced transcript 1 protein 1 0 GPSPS(0.025)S(0.975)PTPPAAAAPAEQAPR 321.6 6.23E-126 12699000 1332.9 1523.6 1250.6 1349 1430.3 1422.9 1383.8 1725.1 1661.8 1445.9 TRUE FALSE FALSE 1473.100538 1572.96564 1421.025255 1375.111846 1320.710723 1301.660915 1228.091182 1680.97444 1650.235398 1508.239825 0.97670179 1.042914803 0.942174601 0.911732884 0.875663605 0.863033115 0.814254578 1.114527287 1.094146548 1 10.55865013 -6.535970175 5.26962155 0.992904596 0.906674482 0.254777651 0.082308656 0.190625257 15.95325858 0.011074375 0.016131059 2.91E-07 6.535970175 -0.086230114 GPSQEEEDNHS(ph)DEEDR ddPTM_HeLa_SAHA_4h_R1 1 GPSQEEEDNHSDEEDR 16 0 E7ERS3;Q86VM9;H3BPD0 E7ERS3 ZC3H18 Zinc finger CCCH domain-containing protein 18 1 0 GPSQEEEDNHS(1)DEEDR 143.4 2.77E-08 0 282.79 300.5 156.76 381.21 215.01 372.81 169.37 275.86 427.87 288.55 TRUE FALSE FALSE 312.5351497 310.2363972 178.1224364 388.5888708 198.5359803 341.0444906 150.3120418 268.8039006 424.8924178 300.9908026 1.038354484 1.0307172 0.591786974 1.291032375 0.659608129 1.133072797 0.499390814 0.893063503 1.411645851 1 8.233575593 -4.851961376 0.451945466 1.017673434 0.633338037 0.154956205 0.259755534 4.086606196 0.79165558 0.05049607 0.762722435 1.41E-05 4.851961376 -0.384335397 GPSQEEEDNHS(ph)DEEDRAS(ph)EPK ddPTM_HeLa_SAHA_4h_R1 1 GPSQEEEDNHSDEEDRASEPK 21 1 E7ERS3;Q86VM9;H3BPD0 E7ERS3 ZC3H18 Zinc finger CCCH domain-containing protein 18 2 0 GPSQEEEDNHS(1)DEEDRAS(1)EPK 55.763 0.0094245 8285400 1488.2 2346 1732.1 2479.4 2134.8 2836.9 2232.3 1906.3 2619.1 2121.9 TRUE FALSE FALSE 1644.735704 2422.011939 1968.141568 2527.392372 1971.232085 2595.18016 1981.115729 1857.539606 2600.87347 2213.385493 0.743085969 1.094256715 0.889199633 1.141867235 0.890595918 1.172493525 0.895061314 0.839230045 1.175065743 1 11.11203902 -7.251217199 24.97748823 0.878679483 0.990666562 0 0.154914739 1095.541844 2676913.705 0.022768462 0.027712779 5.61E-08 7.251217199 0.111987079 GPSQEEEDNHS(ph)DEEDRASEPK ddPTM_HeLa_SAHA_4h_R1 2 GPSQEEEDNHSDEEDRASEPK 21 1 E7ERS3;Q86VM9;H3BPD0 E7ERS3 ZC3H18 Zinc finger CCCH domain-containing protein 18 1 0 GPSQEEEDNHS(1)DEEDRASEPK;GPSQEEEDNHS(1)DEEDRASEPK ; 126.68 9.55E-06 20862100 1601.05 1726.58 1376.23 1734.34 2028.84 1879.74 1697.15 1912.09 1921.04 1447.65 TRUE FALSE FALSE 1769.455785 1782.522325 1563.775457 1767.910659 1873.390718 1719.575577 1506.182215 1863.181506 1907.671326 1510.065276 1.171774368 1.180427332 1.035568119 1.17075115 1.240602474 1.138742546 0.997428548 1.233841699 1.263303883 1 10.5603952 -9.316382038 0.928411495 0.995702332 1.144086525 0 0.109469417 0.542278801 0.79890237 0.056307729 0.013360314 4.83E-10 9.316382038 0.148384193 GPSS(ph)VEDIK ddPTM_HeLa_SAHA_4h_R1 3 GPSSVEDIK 9 0 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 1 0 GPS(0.008)S(0.992)VEDIK;GPS(0.003)S(0.997)VEDIK;GPS(0.126)S(0.874)VEDIK ;; 152.04 0.00034254 120875600 10969.7 13037.2 10352.5 12310.2 13224.4 16262.4 13298.9 13165.3 17638.4 12729 TRUE FALSE FALSE 12123.54338 13459.61383 11763.28479 12548.48172 12211.14933 14876.75203 11802.47277 12828.55069 17515.65294 13277.80948 0.913068032 1.013692345 0.885935651 0.94507168 0.919665954 1.120422164 0.88888704 0.96616469 1.319167364 1 13.69672954 -3.842683873 19.41967321 0.95961434 8.403998466 0 0.13194612 10236.94491 1267078.906 0.008753689 9135.325574 0.000143653 3.842683873 7.444384126 GPSS(ph)VEDIKAK ddPTM_HeLa_SAHA_4h_R1 2 GPSSVEDIKAK 11 1 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 1 0 GPS(0.039)S(0.961)VEDIKAK;GPS(0.031)S(0.969)VEDIKAK ; 142.97 1.68E-06 9369700 4326.7 2928.4 3729.5 3358 3260.7 3361.7 3854.6 3700.7 2224.9 3128.1 TRUE FALSE FALSE 4781.802158 3023.282081 4237.736838 3422.998946 3010.86587 3075.264248 3420.870263 3606.041453 2209.41674 3262.9677 1.4654764 0.926543674 1.298736987 1.049044692 0.922738485 0.942474621 1.048392316 1.105141633 0.67711879 1 11.67196899 -6.097900291 5.793245639 1.203783242 1.001288617 0 0.222725343 0.293146488 14.2266758 0.029395184 0.049294007 7.98E-07 6.097900291 -0.202494625 GPSSVEDIK ddPTM_HeLa_SAHA_4h_R1 3 GPSSVEDIK 9 0 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 0 0 ;; ;; 137.14 0.0066279 63157900 10585.2 10103.5 9109.5 9977.5 10309.7 10783.1 11409.2 10224.2 10191.2 9578.6 FALSE FALSE TRUE 11698.5999 10430.86003 10350.89522 10170.62894 9519.773013 9864.319216 10125.40679 9962.679768 10120.27861 9991.580323 1.170845805 1.043964988 1.035961768 1.01791995 0.952779511 0.987263165 1.013393924 0.997107509 1.012880674 1 13.28649717 -6.518161676 1.914046732 1.080453055 0.991271256 0.249884725 0.04751161 0.336997729 2.469050334 0.010830667 0.017159725 3.03E-07 6.518161676 -0.089181799 GPSSVEDIK(ac)AK ddPTM_HeLa_SAHA_4h_R1 1 GPSSVEDIKAK 11 1 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 0 1 GPSSVEDIK(1)AK 152.07 1.03E-05 2148400 1004.2 1042.4 1124.1 1215.9 1116.3 984.52 1250.8 1631.7 1084.3 813.61 FALSE TRUE FALSE 1109.826363 1076.174444 1277.286494 1239.435503 1030.769335 900.6333572 1110.056692 1589.963477 1076.754268 848.6887088 1.307695451 1.268043787 1.505011768 1.460412387 1.214543477 1.061205773 1.307966844 1.873435407 1.268726987 1 9.729091673 -12.50740342 0.158927622 5.76E-11 1.483723735 0.144923189 0.216053671 40.6073753 0.580836402 13.22246834 0.437930503 3.11E-13 12.50740342 1.483723735 GPSTPKS(ph)PGASNFSTLPK ddPTM_HeLa_SAHA_4h_R1 1 GPSTPKSPGASNFSTLPK 18 1 Q9Y4E8 Q9Y4E8 USP15 Ubiquitin carboxyl-terminal hydrolase 15 1 0 GPS(0.081)T(0.285)PKS(0.587)PGAS(0.035)NFS(0.01)T(0.003)LPK 60.938 0.014733 7821300 1447.9 886.29 1179.7 1243.3 1358.8 1257 1444.3 1386.1 784.83 884.71 TRUE FALSE FALSE 1600.196765 915.0063775 1340.463372 1267.365869 1254.689038 1149.896528 1281.783563 1350.645569 779.3683041 922.8541778 1.733964914 0.991496164 1.452519157 1.373311082 1.359574533 1.246021913 1.38893402 1.463552533 0.844519452 1 9.849958892 -9.673221087 1.538034151 1.000463894 1.420652969 0.454117501 0.188162635 0.339371216 1.447989942 0.143518224 0.032228112 2.12E-10 9.673221087 0.420189075 GPT(ph)PGQAPAGGAGAEGK ddPTM_HeLa_SAHA_4h_R1 2 GPTPGQAPAGGAGAEGK 17 0 A0A087WXB3;A0A087X223;A0A087WYW1;Q96NU1-4;Q96NU1-5;H7C3J6;A0A087X1J5;Q96NU1-1;Q96NU1-2;H7BY14;A0A087WYU3;Q96NU1-6;Q96NU1 A0A087WXB3;H7BY14 SAMD11 Sterile alpha motif domain-containing protein 11 1 0 GPT(1)PGQAPAGGAGAEGK;GPT(1)PGQAPAGGAGAEGK ; 176.44 8.33E-09 14817300 3353.2 3948.8 3734.1 4080 3920.5 4320.2 3736.1 4287.7 3615.4 3742.4 TRUE FALSE FALSE 3705.904961 4076.743711 4242.963702 4158.9743 3620.112137 3952.094655 3315.704195 4178.026843 3590.240137 3903.753179 0.949318461 1.044313901 1.086893435 1.065378396 0.927341451 1.012383333 0.849363175 1.070258966 0.919689328 1 11.93064612 -3.927643213 21.70481008 0.985494932 4.223894032 0.121059461 0.069720066 1455.013658 451635.1976 0.008985868 7973.25889 0.000118129 3.927643213 3.2383991 GPTPAT(ph)PESFSKK ddPTM_HeLa_SAHA_4h_R1 1 GPTPATPESFSKK 13 1 P49454 P49454 CENPF Centromere protein F 1 0 GPTPAT(0.998)PES(0.001)FSKK 106.42 0.0044261 4121100 2152.9 1881.5 1802.5 2078.6 2677.6 2302.1 2366.6 2538.3 2405.9 2229.9 TRUE FALSE FALSE 2379.3519 1942.461834 2048.135313 2118.834309 2472.442866 2105.948129 2100.303939 2473.373961 2389.157146 2326.041902 1.022918761 0.835093226 0.880523825 0.910918375 1.062939952 0.905378414 0.902951893 1.063340243 1.027134182 1 11.18366137 GPTSS(ph)PCEEEGDEGEEDR ddPTM_HeLa_SAHA_4h_R1 1 GPTSSPCEEEGDEGEEDR 18 0 E7ERS3;Q86VM9 E7ERS3 ZC3H18 Zinc finger CCCH domain-containing protein 18 1 0 GPT(0.024)S(0.033)S(0.943)PCEEEGDEGEEDR 122.75 0.00041925 1921600 175.84 371.8 317.79 428.09 260.79 397.24 374.19 183.76 477.41 435.05 TRUE FALSE FALSE 194.335658 383.8465639 361.0967662 436.376301 240.8083265 363.3929172 332.0851564 179.0596853 474.0876649 453.8071346 0.42823403 0.845836336 0.795705353 0.961589776 0.530640239 0.800765104 0.731775971 0.394572213 1.044689757 1 8.82593548 -9.646949815 1.491021974 0.99941019 0.662389484 0.356339219 0.176896365 0.404745793 1.622389456 0.133665783 0.030466028 2.25E-10 9.646949815 -0.337020707 GPTSTSIDNIDGT(ph)PVRDER ddPTM_HeLa_SAHA_4h_R1 6 GPTSTSIDNIDGTPVRDER 19 1 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 GPTSTSIDNIDGT(1)PVRDER;GPTSTSIDNIDGT(1)PVRDER;GPTSTSIDNIDGT(1)PVRDER;GPTSTSIDNIDGT(1)PVRDER;GPTST(0.001)S(0.001)IDNIDGT(0.998)PVRDER;GPTSTSIDNIDGT(1)PVRDER ;;;;; 185.86 5.50E-12 183563500 7243.85 7351.12 6313.45 7002.21 7811.18 8508.49 7401.7 7670.57 8534.95 8049.33 TRUE FALSE FALSE 8005.791379 7589.301111 7173.814087 7137.7479 7212.689076 7783.518785 6568.841236 7474.367926 8475.554588 8396.376009 0.953481761 0.903878185 0.854394096 0.850098649 0.859024068 0.927009316 0.782342433 0.890189758 1.00943009 1 13.03555106 -7.290728732 1.114152437 0.98590433 0.857251627 0.716109285 0.036011014 0.165877887 0.401938287 0.007161564 0.008393285 5.12E-08 7.290728732 -0.128652703 GPTTGEGALDLSDVHS(ph)PPKS(ph)PEGK ddPTM_HeLa_SAHA_4h_R1 1 GPTTGEGALDLSDVHSPPKSPEGK 24 1 O95684;O95684-2 O95684 FGFR1OP FGFR1 oncogene partner 2 0 GPTTGEGALDLS(0.001)DVHS(0.999)PPKS(1)PEGK 70.647 0.0014637 0 996.12 1069.8 763.19 773.21 919.97 1370.9 976.28 934.37 1222.7 855.37 TRUE FALSE FALSE 1100.896472 1104.462222 867.1935587 788.1765976 849.4820973 1254.091608 866.426405 910.4701684 1214.191131 892.2491868 1.233844186 1.237840548 0.971918576 0.883359278 0.952068223 1.405539648 0.971058778 1.020421405 1.360820664 1 9.801302871 -6.738686464 24.99207526 1.123067968 1.037505646 0.138161315 0.165116516 580.7238417 637872.6354 0.025888587 0.036597999 1.83E-07 6.738686464 -0.085562322 GPTTGEGALDLSDVHS(ph)PPKSPEGK ddPTM_HeLa_SAHA_4h_R1 1 GPTTGEGALDLSDVHSPPKSPEGK 24 1 O95684;O95684-2 O95684 FGFR1OP FGFR1 oncogene partner 1 0 GPTTGEGALDLS(0.009)DVHS(0.984)PPKS(0.007)PEGK 67.251 0.00084077 10330000 750.48 793.32 667.89 881.73 1054 1191.7 909.67 1373.5 1117.7 939.53 TRUE FALSE FALSE 829.4189297 819.0240885 758.906571 898.7971592 973.2427477 1090.160456 807.3115375 1338.367859 1109.921835 980.0377362 0.846313258 0.835706686 0.774364642 0.917104644 0.993066605 1.112365795 0.823755563 1.365628903 1.132529691 1 9.936693491 -4.253632855 24.60269041 0.92058898 1.365629175 0.543277662 0.116939576 394.3674266 1242833.747 0.01448026 0.206906937 5.58E-05 4.253632855 0.445040195 GPVEGYEENEEFLR ddPTM_HeLa_SAHA_4h_R1 3 GPVEGYEENEEFLR 14 0 F5GYQ2;Q9UI30-2;Q9UI30;F5GX77 F5GYQ2 TRMT112 Multifunctional methyltransferase subunit TRM112-like protein 0 0 ;; ;; 231.66 1.20E-23 30120000 1562.12 1524.96 1604.74 1621.92 1775.15 1835.71 1807.85 1839.91 1650.51 1490.21 FALSE FALSE TRUE 1726.430949 1574.369705 1823.42561 1653.314607 1639.138391 1679.297181 1604.42596 1792.847766 1639.023967 1554.460246 1.110630493 1.012807956 1.173028139 1.06359401 1.054474307 1.080308863 1.032143449 1.153357103 1.054400697 1 10.60219801 -9.424031399 1.028959054 0.997543781 1.084463242 0.14337787 0.050123771 0.527306732 0.951860326 0.034952443 0.007845665 3.77E-10 9.424031399 0.086919461 GPVS(ph)GTEPEPVYSMEAADYR ddPTM_HeLa_SAHA_4h_R1 2 GPVSGTEPEPVYSMEAADYR 20 0 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 1 0 GPVS(0.592)GT(0.408)EPEPVYSMEAADYR;GPVS(0.96)GT(0.018)EPEPVY(0.018)S(0.003)MEAADYR ; 150.59 2.91E-05 7130700 720.54 989.8 864.86 868.9 787.54 971.95 1031.44 847.48 891.57 649.82 TRUE FALSE FALSE 796.3297032 1021.870169 982.7186168 885.718816 727.1988553 889.134392 915.3796566 825.8026887 885.3654918 677.8369203 1.174810163 1.507545751 1.449786206 1.306684232 1.07282273 1.311723167 1.35044231 1.218291102 1.30616298 1 9.404794409 -7.895770768 1.513031247 1.048794418 1.310299169 0.082027223 0.143117824 0.229569722 1.091313978 0.028538648 0.025873665 1.27E-08 7.895770768 0.261504751 GPVSGS(ph)PDSMNASR ddPTM_HeLa_SAHA_4h_R1 2 GPVSGSPDSMNASR 14 0 A0A499FJS7;O14920-4;O14920-2;O14920 A0A499FJS7 IKBKB Inhibitor of nuclear factor kappa-B kinase subunit beta 1 0 GPVSGS(0.686)PDS(0.314)MNASR;GPVS(0.001)GS(0.769)PDS(0.23)MNASR ; 115.12 0.0024734 7155300 2821 2970.5 2134.17 2596.5 3269 3966.6 3015.1 2342.63 3071.1 2990.1 TRUE FALSE FALSE 3117.725723 3066.746149 2425.003573 2646.759012 3018.529926 3628.623365 2675.833013 2282.708917 3049.727965 3119.017844 0.999585728 0.983240976 0.777489484 0.848587326 0.967782192 1.163386536 0.85790885 0.731867861 0.977784712 1 11.60687609 -6.971811491 24.98243608 0.999362773 0.901644232 0.156979558 0.110596369 317.4799305 281370.0727 0.018415602 0.024202601 1.07E-07 6.971811491 -0.097718541 GPVSGSPDS(ph)MNASR ddPTM_HeLa_SAHA_4h_R1 1 GPVSGSPDSMNASR 14 0 A0A499FJS7;O14920-4;O14920-2;O14920 A0A499FJS7 IKBKB Inhibitor of nuclear factor kappa-B kinase subunit beta 1 0 GPVSGS(0.039)PDS(0.907)MNAS(0.054)R 92.239 0.014017 4924300 2662.7 2951.2 2219 3060.4 2855.5 3049.6 2915.7 2976.7 3275 2712.3 TRUE FALSE FALSE 2942.775003 3046.820816 2521.393764 3119.638467 2636.712207 2789.756923 2587.617762 2900.560324 3252.209008 2829.240527 1.040128959 1.076904133 0.891191025 1.102641659 0.931950529 0.986044452 0.914598012 1.025208107 1.149498948 1 11.46619912 GPVSGTEPEPVYS(ph)MEAADYR ddPTM_HeLa_SAHA_4h_R1 4 GPVSGTEPEPVYSMEAADYR 20 0 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 1 0 GPVSGTEPEPVY(0.143)S(0.857)MEAADYR;GPVSGTEPEPVY(0.138)S(0.86)MEAADY(0.001)R;GPVSGTEPEPVYS(1)MEAADYR;GPVSGTEPEPVY(0.002)S(0.998)MEAADYR ;;; 115.91 0.00028221 23455000 1873.99 2546.07 2355.96 2678.09 2622.85 2853.2 3299 2901.41 2360.09 2563.01 TRUE FALSE FALSE 2071.104866 2628.564339 2677.017959 2729.928305 2421.8878 2610.091308 2927.787838 2827.196133 2343.665942 2673.513904 0.774675181 0.983187084 1.001310655 1.021101218 0.905881879 0.976277439 1.095108514 1.057483235 0.876623809 1 11.38452146 -7.025064144 23.52452257 0.892824735 1.006431509 0.399394481 0.068876073 383.894035 360312.0182 0.015852041 0.019470264 9.44E-08 7.025064144 0.113606774 GPVSGTEPEPVYSMEAADYR ddPTM_HeLa_SAHA_4h_R1 2 GPVSGTEPEPVYSMEAADYR 20 0 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 0 0 ; ; 153.32 0.00011248 13228800 1087.96 1037.1 1024.05 994.35 1143.93 1403.47 1159.59 1384.7 1469.33 1197.39 FALSE FALSE TRUE 1202.396625 1070.70272 1163.602201 1013.597082 1056.282331 1283.88646 1029.109881 1349.281379 1459.104813 1249.015343 0.962675624 0.857237444 0.931615618 0.811516918 0.845692038 1.027918886 0.823936941 1.080276065 1.168204075 1 10.28657548 -7.475402051 4.600004996 0.984256421 0.906579554 0.206539399 0.100857603 0.275159291 11.86889666 0.013431307 0.014934911 3.35E-08 7.475402051 -0.077676867 GPWWREGTLAAKPRMQWVTR ddPTM_HeLa_SAHA_4h_R1 1 GPWWREGTLAAKPRMQWVTR 20 3 H0Y4T2 H0Y4T2 SLC19A1 0 0 47.09 0.015738 3052900 1562.7 1109.9 1515.5 1286 1072 1019.4 1142.9 914.44 1651.6 1287 FALSE FALSE TRUE 1727.071956 1145.861488 1722.024448 1310.89239 989.8635916 932.541385 1014.297884 891.0499489 1640.106381 1342.488868 1.286470224 0.853535188 1.282710411 0.976464253 0.737334674 0.694636214 0.755535415 0.66372986 1.221690861 1 10.39069441 -5.871412037 3.220108474 1.123672904 0.710723017 0.710898087 0.124987255 0.112951944 2.329696138 0.020682576 0.039855019 1.34E-06 5.871412037 -0.412949887 GQAFVIFK ddPTM_HeLa_SAHA_4h_R1 2 GQAFVIFK 8 0 M0QXK2;M0R221;M0R2B8;M0QZG7;M0R268;P09012;M0R0G9;P08579 M0QXK2 SNRPA;SNRPB2 U1 small nuclear ribonucleoprotein A;U2 small nuclear ribonucleoprotein B 0 0 ; ; 148.98 5.29E-05 2078300 1328.46 2142.43 2681.6 2410 2432.9 1307.54 2181.5 1083.85 1225.38 1348.52 FALSE FALSE TRUE 1468.193518 2211.846138 3047.034483 2456.649035 2246.491728 1196.130236 1936.031879 1056.126686 1216.852481 1406.661297 1.043743452 1.57240847 2.166146527 1.74643963 1.597038131 0.850332798 1.376331234 0.750803828 0.865064308 1 10.45805928 -7.275079823 20.66481752 1.020656412 1.458261121 0.227806775 0.389665383 93.99179324 142393.7498 0.069216837 0.079525029 5.31E-08 7.275079823 0.437604708 GQAPSSTPGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GQAPSSTPGKR 11 1 H3BS19;Q96JG9 H3BS19 ZNF469 Zinc finger protein 469 0 1 ; GQAPSSTPGK(1)R;GQAPSSTPGK(1)R 151.22 7.52E-06 2065540 238.75 148.93 404.75 470.44 957.29 855.47 955.45 661.95 290.75 127.7 FALSE TRUE FALSE 263.8628204 153.7554297 459.9072222 479.5460465 883.942647 782.5791433 847.9402514 645.0182775 288.7266471 133.2057719 1.980866269 1.154270025 3.452607311 3.600039544 6.635918505 5.874964214 6.365641961 4.842269731 2.167523545 1 7.057512787 -6.242942032 1.384242221 1.437847887 5.969511507 0.869296319 0.731200343 0.088262371 0.332032261 0.114315048 0.218563275 5.72E-07 6.242942032 4.531663621 YLTNQK(ac)NSNSK(ac)NDR ddPTM_HeLa_SAHA_4h_R1 2 YLTNQKNSNSKNDR 14 2 B1AK63;Q9HAF1-2;Q9HAF1;Q9HAF1-4;Q9HAF1-3 B1AK63 MEAF6 Chromatin modification-related protein MEAF6 0 2 ; YLTNQK(1)NSNSK(1)NDR;YLTNQK(1)NSNSK(1)NDR 369.06 7.36E-259 15931600 322.81 560.72 572.95 956.45 1120.64 1706.44 1483.89 1107.26 494.33 290.61 FALSE TRUE FALSE 356.7646369 578.8876959 651.0286422 974.9634728 1034.776805 1561.041712 1316.918792 1078.937892 490.8899173 303.1396193 1.176898743 1.909640506 2.147619779 3.216219229 3.413532047 5.14957997 4.344264847 3.559211082 1.619352556 1 8.24383861 -6.281789044 0.936488674 1.061473407 4.366458576 0.876285806 0.465249798 0.103133244 0.17907457 0.077487151 0.167141609 5.23E-07 6.281789044 3.304985169 up GQDTVAIEGFT(ph)DEEDT(ph)ESGGEGQYR ddPTM_HeLa_SAHA_4h_R1 1 GQDTVAIEGFTDEEDTESGGEGQYR 25 0 A0A3B3IRW6;Q2KHR3-2;Q2KHR3;H0YCQ7 A0A3B3IRW6 QSER1 Glutamine and serine-rich protein 1 2 0 GQDT(0.003)VAIEGFT(0.997)DEEDT(0.619)ES(0.381)GGEGQYR 52.347 0.0066339 0 478.69 940.79 499.87 592.39 640.62 900.32 751.78 944.74 874.75 860.39 TRUE FALSE FALSE 529.0408105 971.2722133 567.9896804 603.8565651 591.535834 823.6076709 667.1877358 920.5749188 868.6625435 897.4856235 0.589469955 1.082214787 0.63286772 0.672831463 0.659103409 0.917683414 0.743396572 1.025726646 0.967884633 1 9.809745019 -4.252985552 23.35525408 0.794990869 1.025726933 0.131772878 0.165543077 720.7827195 1991175.831 0.02516589 0.367267802 5.58E-05 4.252985552 0.230736064 GQDVVQEWQET(ph)SPTREEPAGEQK ddPTM_HeLa_SAHA_4h_R1 1 GQDVVQEWQETSPTREEPAGEQK 23 1 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 GQDVVQEWQET(0.567)S(0.395)PT(0.038)REEPAGEQK 62.683 0.0057163 19794000 602.05 496.12 453.19 671.16 778.13 631.98 568.32 500.22 712.41 658.32 TRUE FALSE FALSE 665.3763813 512.1946135 514.9483731 684.1512723 718.5098475 578.1317486 504.3711379 487.4250967 707.4522808 686.7033969 0.968942901 0.745874588 0.749884703 0.996283512 1.046317596 0.841894406 0.734481787 0.709804406 1.030215205 1 9.42354329 -1.676186237 0.194447412 1.011960995 2.08E-18 0.348024437 0.106054935 36.81291465 0.525094804 0.123865112 10.73260274 0.021077241 1.676186237 -1.011960995 GQDVVQEWQETS(ph)PTREEPAGEQK ddPTM_HeLa_SAHA_4h_R1 1 GQDVVQEWQETSPTREEPAGEQK 23 1 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 GQDVVQEWQET(0.243)S(0.732)PT(0.025)REEPAGEQK 67.463 0.0019403 18843000 1345.1 1485 1169.5 1333.5 1302.4 1503.3 1600.5 1760.7 1756.7 1350.6 TRUE FALSE FALSE 1486.58379 1533.114974 1328.87337 1359.311821 1202.610393 1375.210383 1420.407528 1715.663843 1744.474982 1408.830976 1.055189597 1.088217821 0.943245423 0.96485089 0.853622907 0.976135822 1.008217133 1.217792534 1.23824292 1 10.46028282 -4.261716698 7.410245183 1.00528869 1.220233081 0.282423975 0.096436623 0.071397813 36.1301746 0.0095752 0.076688061 5.47E-05 4.261716698 0.214944391 GQEEISGALPVAS(ph)PASSR ddPTM_HeLa_SAHA_4h_R1 3 GQEEISGALPVASPASSR 18 0 H0Y8S9;Q9UBK8;Q9UBK8-1;H0Y9D5 H0Y8S9 MTRR Methionine synthase reductase 1 0 GQEEISGALPVAS(0.986)PAS(0.014)SR;GQEEISGALPVAS(0.999)PAS(0.001)SR;GQEEISGALPVAS(0.997)PAS(0.002)S(0.001)R ;; 214.46 1.22E-21 63575000 5908.8 5285.2 4782.8 5277 5951.6 6856.1 5821.9 5596.7 6115.4 5607.9 TRUE FALSE FALSE 6530.314695 5456.443948 5434.575076 5379.143966 5495.589694 6271.921709 5166.80449 5453.544518 6072.842433 5849.684013 1.11635341 0.932775845 0.929037374 0.919561459 0.939467787 1.072181283 0.883262152 0.932280189 1.038148799 1 12.51414298 -7.244538031 24.74901659 1.054944666 0.944969545 0.46084023 0.053199684 522.4101596 764977.2549 0.010263584 0.012552385 5.69E-08 7.244538031 -0.109975121 GQEEISGALPVASPAS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 GQEEISGALPVASPASSR 18 0 H0Y8S9;Q9UBK8;Q9UBK8-1;H0Y9D5 H0Y8S9 MTRR Methionine synthase reductase 1 0 GQEEISGALPVAS(0.227)PAS(0.761)S(0.012)R 210.39 2.00E-17 42239000 1452.6 1581.4 1583.5 1610.1 1799.4 1870 1614.2 1526.7 1907.3 1698.8 TRUE FALSE FALSE 1605.391133 1632.638398 1799.291133 1641.265814 1661.530361 1710.66548 1432.565968 1487.649225 1894.026944 1772.043582 0.905954656 0.921330838 1.015376344 0.926199463 0.937635156 0.965363097 0.808425923 0.839510518 1.068837676 1 10.79119837 -4.762470488 24.99774861 0.953668581 0.823968188 0.565440231 0.049165268 12.3492758 299431.5443 0.005751217 0.018830203 1.73E-05 4.762470488 -0.129700393 GQESFK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 GQESFKK 7 1 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 0 1 ; GQESFK(1)K;GQESFK(1)K 137.9 4.67E-05 18396800 4878.1 5815.7 4420.3 6041.6 6903.2 8080.2 6703.7 6369.5 5961.8 4529.8 FALSE TRUE FALSE 5391.20094 6004.132496 5022.675464 6158.543904 6374.278307 7391.721502 5949.382033 6206.577413 5920.311348 4725.101846 1.140970314 1.270688483 1.062977186 1.303367442 1.349024532 1.564351784 1.259101333 1.313533044 1.25294894 1 12.20612971 -6.890093472 0.432086443 1.013700005 1.402184171 0.316658968 0.124096707 0.494146512 0.21906512 0.044168708 0.072731099 1.29E-07 6.890093472 0.388484166 GQFSTDELVAEVEKR ddPTM_HeLa_SAHA_4h_R1 2 GQFSTDELVAEVEKR 15 1 A0A087WVQ6;Q00610-2;Q00610;A0A087WX41;P53675-2;P53675 A0A087WVQ6 CLTC;CLTCL1 Clathrin heavy chain;Clathrin heavy chain 1;Clathrin heavy chain 2 0 0 ; ; 208.38 1.14E-12 28623000 3127.2 4378.2 3106.8 3724.3 4184.6 6359.2 4387.6 8290.3 5648.3 4962.5 FALSE FALSE TRUE 3456.133244 4520.056553 3530.178524 3796.389212 3863.976852 5817.360384 3893.8957 8078.24613 5608.99302 5176.457661 0.667663771 0.873194924 0.681968009 0.733395202 0.746451938 1.123811063 0.75223173 1.560574172 1.083558176 1 12.33774946 -2.42151157 1.541196907 0.826548097 200 0.611342788 0.165011134 192.260157 2.109918354 0.023534876 133928.5043 0.003788684 2.42151157 199.1734519 GQGESDPLDHEPAVS(ph)PLLPR ddPTM_HeLa_SAHA_4h_R1 4 GQGESDPLDHEPAVSPLLPR 20 0 P00519;P00519-2 P00519 ABL1 Tyrosine-protein kinase ABL1 1 0 GQGESDPLDHEPAVS(1)PLLPR;GQGESDPLDHEPAVS(1)PLLPR;GQGESDPLDHEPAVS(1)PLLPR;GQGESDPLDHEPAVS(1)PLLPR ;;; 152.62 1.68E-05 74092000 5423.17 6679.54 3905.06 6755.32 8627.05 9950.6 7266.22 8060.04 7682.1 7771.33 TRUE FALSE FALSE 5993.603903 6895.961479 4437.22124 6886.078987 7966.047293 9102.752899 6448.605802 7853.875848 7628.639641 8106.390068 0.739367814 0.850682168 0.54737327 0.849463069 0.982687389 1.122910793 0.795496608 0.968849979 0.941064959 1 12.98484388 -5.769602361 20.16452455 0.842692185 0.966303009 0.206562088 0.136527502 27.34881177 67561.99911 0.023067219 0.042526497 1.70E-06 5.769602361 0.123610824 GQGGAGAGDDEEED ddPTM_HeLa_SAHA_4h_R1 1 GQGGAGAGDDEEED 14 0 P46781 P46781 RPS9 40S ribosomal protein S9 0 0 137.46 0.0017604 1594400 1098.6 1578.9 842.29 1572.9 1578 2197.8 1755.8 1407.2 1766.4 2066.5 FALSE FALSE TRUE 1214.155789 1630.057396 957.0728947 1603.345754 1457.093981 2010.535076 1558.232763 1371.205862 1754.107479 2155.596928 0.563257338 0.75619768 0.443994368 0.743805919 0.67595846 0.932704556 0.722877613 0.636114221 0.813745583 1 11.07387172 -9.437368093 1.144698837 1.001598192 0.678404858 0.27353379 0.132934665 0.342118713 0.795460383 0.088311069 0.021640767 3.65E-10 9.437368093 -0.323193334 GQGSS(ph)PVAMQK ddPTM_HeLa_SAHA_4h_R1 1 GQGSSPVAMQK 11 0 P18206;P18206-2 P18206 VCL Vinculin 1 0 GQGS(0.003)S(0.997)PVAMQK 101.89 0.01224 5293600 2138.9 2483.1 2104.1 1666.5 2941.9 2614.5 2661.7 1844.6 2085.6 2528.7 TRUE FALSE FALSE 2363.879316 2563.554069 2390.83579 1698.757517 2716.492258 2391.729891 2362.198511 1797.417803 2071.08614 2637.724632 0.896181234 0.971880854 0.906400828 0.644023829 1.029861959 0.906739795 0.895544016 0.681427387 0.785179057 1 11.36507825 -2.124512847 0.030530001 1.540192837 1.54E-09 0 0.124948714 1069.125578 3.080304278 53.55907376 111.5991953 0.007507358 2.124512847 -1.540192836 GQGTPPS(ph)GPGVVR ddPTM_HeLa_SAHA_4h_R1 1 GQGTPPSGPGVVR 13 0 A0A669KBI7;Q9UMN6 A0A669KBI7 KMT2B Histone-lysine N-methyltransferase 2B 1 0 GQGT(0.182)PPS(0.818)GPGVVR 120.21 0.0011476 10467000 2847.7 2776.4 2487.5 2697.1 2545.8 2933.4 2603.2 2699.1 2875.8 2439.1 TRUE FALSE FALSE 3147.234152 2866.357182 2826.483546 2749.306271 2350.741354 2683.457817 2310.281085 2630.06093 2855.787074 2544.261538 1.236993173 1.126596908 1.11092492 1.080591059 0.923938565 1.054709894 0.908036006 1.033722709 1.122442419 1 11.31303126 -5.917454377 5.463900034 1.115256396 0.980801002 0.489846564 0.067231387 0.194844486 9.793521044 0.014002147 0.025664803 1.21E-06 5.917454377 -0.134455394 GQILMPNIGYGSNKK ddPTM_HeLa_SAHA_4h_R1 1 GQILMPNIGYGSNKK 15 1 D3YTB1;F8W727;P62910 D3YTB1 RPL32 60S ribosomal protein L32 0 0 87.566 0.0092506 829600 133.23 0 196.6 313.7 177.31 124.99 224.76 282.33 177.12 218.72 FALSE FALSE TRUE 147.2437427 0 223.3916242 319.7721171 163.7245461 114.3401488 199.4694133 275.1084074 175.8874075 228.1500896 0.645381043 0 0.979143267 1.401586638 0.717617716 0.501161972 0.874290313 1.205822044 0.770928505 1 7.83383941 GQKSPGALET(ph)PSAAGSQGNTASQGK ddPTM_HeLa_SAHA_4h_R1 3 GQKSPGALETPSAAGSQGNTASQGK 25 1 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 GQKS(0.048)PGALET(0.948)PS(0.004)AAGSQGNTASQGK;GQKSPGALET(0.997)PS(0.003)AAGSQGNTASQGK;GQKS(0.14)PGALET(0.86)PSAAGSQGNTASQGK ;; 170.93 3.44E-13 67017500 7939.3 6446.68 7357.4 7481.1 7704.4 7302.3 8139.3 9064.1 6428.6 7478.2 TRUE FALSE FALSE 8774.392001 6655.556662 8360.028156 7625.907508 7114.090536 6680.102958 7223.444543 8832.253447 6383.862849 7800.621799 1.124832382 0.853208479 1.071713047 0.977602517 0.911990187 0.856355189 0.926008814 1.132249925 0.818378716 1 12.92937341 -7.276071691 24.98524617 1.058948623 0.958886697 0 0.115665557 930.0618004 1588113.742 0.015613332 0.017894974 5.30E-08 7.276071691 -0.100061926 GQLCELSCSTDYR ddPTM_HeLa_SAHA_4h_R1 2 GQLCELSCSTDYR 13 0 E9PKG1;Q99873-2;Q99873-3;Q99873;Q99873-5 E9PKG1 PRMT1 Protein arginine N-methyltransferase 1 0 0 ; ; 174.24 0.00010332 12104300 1577.78 1647.11 1769.03 1942.79 1804.46 1994.21 2270.3 1964.15 2274.5 1808.8 FALSE FALSE TRUE 1743.73814 1700.477445 2010.104196 1980.39551 1666.202665 1824.292089 2014.839869 1913.909887 2258.671569 1886.78622 0.924184267 0.901256023 1.065358743 1.049613087 0.883090329 0.966878001 1.067868658 1.014375591 1.197099886 1 10.88171525 -6.763822385 24.9999351 0.958477127 1.004954691 0 0.094395941 108.6737866 1140092.347 0.010037961 0.013545297 1.72E-07 6.763822385 0.046477564 GQLTKS(ph)PLAQMEEERR ddPTM_HeLa_SAHA_4h_R1 1 GQLTKSPLAQMEEERR 16 2 G3V1Q4;E7ES33;E7EPK1;Q16181-2;Q16181 G3V1Q4 7-Sep Septin-7 1 0 GQLT(0.251)KS(0.749)PLAQMEEERR 54.511 0.018384 15061000 1847.2 1344.3 1979.9 1698.9 1532.7 1401.5 1809.4 1844.1 899.19 1234.2 TRUE FALSE FALSE 2041.496971 1387.856202 2249.710461 1731.784666 1415.264857 1282.084315 1605.80155 1796.930592 892.9324636 1287.412402 1.585736605 1.07801991 1.747466824 1.34516699 1.099309634 0.995861399 1.247309368 1.395769211 0.693586967 1 10.33025856 -4.253156952 21.68358972 1.272474769 1.395769591 0 0.297209572 757.2663972 1982212.748 0.038088842 0.519133284 5.58E-05 4.253156952 0.123294823 GQPAIIDGELYNEVK ddPTM_HeLa_SAHA_4h_R1 2 GQPAIIDGELYNEVK 15 0 Q9Y266 Q9Y266 NUDC Nuclear migration protein nudC 0 0 ; ; 207.39 4.49E-12 7304300 2111.21 1418.75 1351.06 1483.01 1629.78 2270.97 2117.15 1521.73 2047.92 1837.03 FALSE FALSE TRUE 2333.276754 1464.718431 1535.175421 1511.715803 1504.906608 2077.47058 1878.92271 1482.80635 2033.668358 1916.233354 1.217637064 0.764373727 0.801142208 0.78889964 0.785346214 1.084142793 0.980529175 0.773813037 1.061284292 1 10.90405754 -7.258755714 24.99611661 1.102773058 0.860569246 0.496557373 0.109981695 164.5920448 1533039.986 0.021734145 0.025979782 5.51E-08 7.258755714 -0.242203812 GQPEGPLPS(ph)SSPR ddPTM_HeLa_SAHA_4h_R1 1 GQPEGPLPSSSPR 13 0 H3BMQ0;P49815;A0A2R8Y5F1;A0A2R8YGD6;A0A2R8Y7C8;A0A2R8YDR3;A0A2R8Y7X5;A0A2R8YDZ2;X5D2U8;A0A2R8YGU4;A0A2R8Y6C9;P49815-5;P49815-3;P49815-2;P49815-6;P49815-7;P49815-4;H3BQK4 H3BMQ0 TSC2 Tuberin 1 0 GQPEGPLPS(0.333)S(0.333)S(0.333)PR 90.689 0.0099369 12197000 1552.1 1568.5 1617.4 1609.7 1822.8 1703.8 1563.1 1940.7 1592.6 1599.7 TRUE FALSE FALSE 1715.356999 1619.320429 1837.810849 1640.858071 1683.137458 1558.626655 1387.215874 1891.059704 1581.516967 1668.670896 1.027978018 0.970425285 1.10136208 0.983332349 1.008669512 0.934052759 0.831329819 1.133273019 0.947770451 1 10.70448373 -5.330216563 6.258875452 1.014586875 0.952882628 0.033468503 0.079378282 0.3445707 25.04848822 0.00982308 0.022261309 4.68E-06 5.330216563 -0.061704247 GQPEGPLPSSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 GQPEGPLPSSSPR 13 0 H3BMQ0;P49815;A0A2R8Y5F1;A0A2R8YGD6;A0A2R8Y7C8;A0A2R8YDR3;A0A2R8Y7X5;A0A2R8YDZ2;X5D2U8;A0A2R8YGU4;A0A2R8Y6C9;P49815-5;P49815-3;P49815-2;P49815-6;P49815-7;P49815-4;H3BQK4 H3BMQ0 TSC2 Tuberin 1 0 GQPEGPLPS(0.001)S(0.03)S(0.969)PR;GQPEGPLPS(0.002)S(0.067)S(0.931)PR;GQPEGPLPS(0.001)S(0.015)S(0.985)PR ;; 173.33 1.87E-05 64567000 7299.1 7167.3 6871.8 6638 7609.5 9714.9 7942.6 8621 6543.5 8224.1 TRUE FALSE FALSE 8066.852827 7399.525223 7808.253117 6766.488089 7026.461754 8887.135865 7048.877744 8400.487303 6497.963251 8578.681199 0.940337173 0.862548106 0.910192713 0.788756212 0.819060831 1.035955954 0.821673819 0.979228288 0.7574548 1 13.06654016 -7.823440883 1.114375177 0.98548243 0.885719174 0 0.101857632 0.411415291 1.073059139 0.016997072 0.015271358 1.50E-08 7.823440883 -0.099763256 GQQPPPAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GQQPPPAKR 9 1 Q9HCJ5 Q9HCJ5 ZSWIM6 Zinc finger SWIM domain-containing protein 6 0 1 ; GQQPPPAK(1)R;GQQPPPAK(1)R 121.99 0.0012295 841770 188.2 142.07 452.3 790.68 941.13 1309.46 1372.7 1286.3 288.15 114.69 FALSE TRUE FALSE 207.9957395 146.6731612 513.9370885 805.9847547 869.0208227 1197.886641 1218.240183 1253.398309 286.1447407 119.6348472 1.738588249 1.226007009 4.29588118 6.737040033 7.263943936 10.0128572 10.18298775 10.47686638 2.391817664 1 6.902493868 -6.04672795 0.872708014 1.210681662 10.58799219 0.966968987 0.668939073 0.056191067 0.083106882 0.103282821 0.276568521 8.98E-07 6.04672795 9.377310525 GQS(ph)SPPPAPPICLR ddPTM_HeLa_SAHA_4h_R1 3 GQSSPPPAPPICLR 14 0 O43379;O43379-4;H7C3R4;O43379-3;O43379-2 O43379 WDR62 WD repeat-containing protein 62 1 0 GQS(0.707)S(0.293)PPPAPPICLR;GQS(0.882)S(0.118)PPPAPPICLR;GQS(0.656)S(0.344)PPPAPPICLR ;; 127.78 0.00058938 23438200 3037.01 3393.38 2591.54 3171.07 3498.42 3878.58 3895.12 3885.18 3775.98 3437.95 TRUE FALSE FALSE 3356.456646 3503.327738 2944.701575 3232.450645 3230.371815 3548.103164 3456.830846 3785.802721 3749.702648 3586.176849 0.935942868 0.976897651 0.821125588 0.901363982 0.900784303 0.98938321 0.963932062 1.055665373 1.045598922 1 11.80823092 -3.979355406 1.554256303 0.950027922 1.168941646 0.23130441 0.059492881 2.798777677 3.570811222 0.008457946 1.148891875 0.000104868 3.979355406 0.218913724 GQSEEPAGK(ac)TK ddPTM_HeLa_SAHA_4h_R1 2 GQSEEPAGKTK 11 1 E9PBY7;E9PQ61;O75152;A0A1B0GTU1;A0A494C0C4 E9PBY7 ZC3H11A Zinc finger CCCH domain-containing protein 11A 0 1 ; GQSEEPAGK(1)TK;GQSEEPAGK(1)TK 173.04 4.03E-11 1515610 1400.34 1293.79 935.07 1228.25 1367.82 1221.6 1846.42 1628.23 983.53 1346.01 FALSE TRUE FALSE 1547.634186 1335.709645 1062.49647 1252.024555 1263.017927 1117.512807 1638.655962 1586.582234 976.6855347 1404.043078 1.102269731 0.951330957 0.756740649 0.89172802 0.899557817 0.795924872 1.167098067 1.130009655 0.695623624 1 10.45537149 -11.45179801 11.22812725 1.000310052 1.001253318 0 0.165672658 0 0 0 0.019488337 3.53E-12 11.45179801 0.000943266 GQSPAGDGS(ph)PEPPTPR ddPTM_HeLa_SAHA_4h_R1 1 GQSPAGDGSPEPPTPR 16 0 A0A0A0MRW6;Q9H6R4-3;Q9H6R4-2;Q9H6R4-4;Q9H6R4 A0A0A0MRW6 NOL6 Nucleolar protein 6 1 0 GQS(0.002)PAGDGS(0.994)PEPPT(0.004)PR 134.82 0.00012322 4209600 641.89 684.61 487.5 586.36 827.72 980.57 776.99 799.6 581.98 587.72 TRUE FALSE FALSE 709.4069353 706.7918132 553.9339612 597.7098457 764.3002724 897.0199195 689.5610403 779.1473898 577.9299538 613.0594854 1.157158403 1.152892713 0.903556628 0.974962234 1.246698388 1.463185777 1.124786512 1.270916458 0.942698005 1 9.259883256 -5.657355181 6.434513378 1.062327969 1.283084621 0.53710809 0.112347083 0.14905076 8.110703653 0.016616726 0.033406769 2.20E-06 5.657355181 0.220756651 GQSPAGDGSPEPPT(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 GQSPAGDGSPEPPTPR 16 0 A0A0A0MRW6;Q9H6R4-3;Q9H6R4-2;Q9H6R4-4;Q9H6R4 A0A0A0MRW6 NOL6 Nucleolar protein 6 1 0 GQSPAGDGS(0.107)PEPPT(0.892)PR 96.604 0.0084394 9409200 952.45 715.15 616.97 880.75 676.41 1038.6 994.94 941.42 600.93 591.81 TRUE FALSE FALSE 1052.633061 738.3213292 701.0474586 897.7981898 624.5836119 950.105437 882.9867327 917.3398396 596.7480792 617.3258253 1.705149886 1.19599942 1.135619846 1.45433441 1.011756817 1.539066402 1.430341477 1.485989735 0.966666313 1 9.269888336 -9.661428434 1.519157087 1.000735336 1.409454641 0.361665882 0.198644867 0.382097205 1.591254646 0.155367702 0.03518572 2.18E-10 9.661428434 0.408719304 GQSQLS(ph)NPTDDSWK ddPTM_HeLa_SAHA_4h_R1 2 GQSQLSNPTDDSWK 14 0 Q9Y6D5 Q9Y6D5 ARFGEF2 Brefeldin A-inhibited guanine nucleotide-exchange protein 2 1 0 GQSQLS(0.803)NPT(0.19)DDS(0.007)WK;GQSQLS(0.998)NPT(0.002)DDSWK ; 276.34 3.34E-116 12312000 5091.4 5678.5 5073.9 5292.8 6252 6459 5748.4 5322.2 5320.6 5769.5 TRUE FALSE FALSE 5626.936812 5862.487126 5765.344668 5395.249798 5772.973111 5908.656863 5101.574903 5186.06583 5283.573511 6018.25138 0.934978693 0.974118021 0.957976712 0.896481296 0.959244263 0.981789641 0.847683917 0.861723033 0.877925028 1 12.55512865 -1 0.268863292 0.978445387 0.124973867 0.205324132 0.045853381 29.7319466 0.376790867 0.017314066 11.91141267 0.1 1 -0.85347152 GQSQLSNPT(ph)DDSWK ddPTM_HeLa_SAHA_4h_R1 1 GQSQLSNPTDDSWK 14 0 Q9Y6D5 Q9Y6D5 ARFGEF2 Brefeldin A-inhibited guanine nucleotide-exchange protein 2 1 0 GQSQLS(0.273)NPT(0.722)DDS(0.005)WK 182.7 4.58E-07 8126100 2752.5 3066.9 2782.8 3025.7 3454.6 4011.2 3309.8 3195.1 2912.3 3068.6 TRUE FALSE FALSE 3042.020579 3166.269572 3162.025492 3084.266799 3189.909294 3669.423194 2937.372593 3113.373968 2892.033067 3200.902363 0.950363439 0.989180304 0.987854403 0.963561661 0.996565634 1.146371484 0.917670163 0.972655088 0.903505555 1 11.64426296 -5.52438715 24.91601265 0.977309857 1.01422478 0.094486326 0.059701524 92.50894007 1528074.194 0.007901165 0.015889123 2.99E-06 5.52438715 0.036914923 GQSQLSNPTDDS(ph)WK ddPTM_HeLa_SAHA_4h_R1 1 GQSQLSNPTDDSWK 14 0 Q9Y6D5 Q9Y6D5 ARFGEF2 Brefeldin A-inhibited guanine nucleotide-exchange protein 2 1 0 GQSQLS(0.002)NPT(0.002)DDS(0.997)WK 166.79 6.16E-06 10279000 2925.9 2942.6 2671.6 2596 2904 3443.6 2976.7 3172.7 2688.2 2779.4 TRUE FALSE FALSE 3233.659587 3037.942171 3035.671735 2646.249334 2681.496147 3150.185907 2641.753882 3091.546928 2669.492597 2899.233536 1.115349814 1.047843209 1.047060093 0.912741006 0.924898293 1.086558177 0.91119044 1.066332494 0.920758043 1 11.50145583 -6.44234941 11.4635385 1.055114616 0.97931722 0.019947519 0.074751521 0.931033417 130.3226999 0.010196127 0.015574713 3.61E-07 6.44234941 -0.075797396 GQSTGKGPPQS(ph)PVFEGVYNNSR ddPTM_HeLa_SAHA_4h_R1 2 GQSTGKGPPQSPVFEGVYNNSR 22 1 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6;Q8WWM7-7 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 GQS(0.004)T(0.013)GKGPPQS(0.978)PVFEGVY(0.005)NNSR;GQST(0.001)GKGPPQS(0.997)PVFEGVYNNS(0.002)R ; 114.2 3.06E-05 19494100 2745.7 1293.61 2567.7 1820.5 1840.49 1836.32 2491.1 3023.9 744.69 1946.06 TRUE FALSE FALSE 3034.505324 1335.523813 2917.612784 1855.73841 1699.472054 1679.855205 2210.794872 2946.553017 739.5076417 2029.96417 1.494856593 0.657905116 1.437273045 0.914172987 0.837193128 0.827529485 1.089080736 1.451529569 0.364295908 1 10.98723855 -7.282284326 24.92000459 1.233682257 1.028819235 0 0.381544406 1406.0073 1680869.073 0.049618882 0.05677467 5.22E-08 7.282284326 -0.204863022 GQTPEAGADKRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 GQTPEAGADKRSPR 14 2 Q07617 Q07617 SPAG1 Sperm-associated antigen 1 1 0 GQTPEAGADKRS(1)PR 54.276 0.021258 5971000 2772.2 1955.1 2283.6 2158 2260.9 2496.6 2447.2 2683.7 1688.6 2125.8 TRUE FALSE FALSE 3063.792715 2018.446523 2594.797116 2199.771211 2087.67033 2283.875635 2171.834615 2615.05484 1676.848895 2217.453641 1.381671598 0.910254215 1.170169724 0.992025795 0.941471917 1.029954174 0.979427292 1.179305304 0.756204713 1 11.11468823 -7.239847476 24.90825213 1.18023383 1.027725939 0 0.179159221 1029.267926 1187356.721 0.026220033 0.032098945 5.76E-08 7.239847476 -0.152507891 GQTPLTEGSEDLDGHS(ph)DPEESFAR ddPTM_HeLa_SAHA_4h_R1 2 GQTPLTEGSEDLDGHSDPEESFAR 24 0 Q86VR2-2;K7EQI9;Q86VR2 Q86VR2-2 FAM134C Protein FAM134C 1 0 GQTPLTEGSEDLDGHS(0.994)DPEES(0.006)FAR;GQTPLTEGSEDLDGHS(1)DPEESFAR ; 172.98 3.18E-11 14721800 1223.64 1847.35 1284.59 1249.17 1826.91 1656 2186.95 2009.38 1341.24 1531.5 TRUE FALSE FALSE 1352.348069 1907.205352 1459.647235 1273.349492 1686.93255 1514.899484 1940.86863 1957.982969 1331.906202 1597.53046 0.846524122 1.193846002 0.913689768 0.797073686 1.055962683 0.948275805 1.214918074 1.225631071 0.833728204 1 10.64162772 -4.75914576 6.692677936 0.944846163 1.222719228 0.491182769 0.110557828 0.079540077 16.93959598 0.015120922 0.051856709 1.74E-05 4.75914576 0.277873066 GQVIIISDS(ph)DDDDDER ddPTM_HeLa_SAHA_4h_R1 1 GQVIIISDSDDDDDER 16 0 Q7Z333-3;Q7Z333;Q7Z333-4 Q7Z333-3 SETX Probable helicase senataxin 1 0 GQVIIIS(0.06)DS(0.94)DDDDDER 124.29 0.00048004 2227200 191.78 497.66 317.7 474.96 546.91 771.88 517.87 425.6 702.94 456.99 TRUE FALSE FALSE 211.9523003 513.7845105 360.9945015 484.1535376 505.005874 706.1114815 459.5979046 414.7137683 698.0481833 476.6930754 0.444630542 1.077809889 0.757289166 1.015650452 1.059394189 1.481270692 0.964137992 0.869980685 1.464355619 1 8.896916858 -6.261747243 1.551972888 0.753558032 1.111675429 0 0.313652332 0.402001586 1.894373779 0.044054953 0.080985618 5.47E-07 6.261747243 0.358117397 GQVKEEGINKSEK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 GQVKEEGINKSEKR 14 3 P09874 P09874 PARP1 Poly [ADP-ribose] polymerase 1 0 1 GQVKEEGINK(0.056)SEK(0.944)R 49.216 0.02258 6508100 4454.9 2061.8 3725 4658.6 4021.5 3881.3 4609.4 6679.7 1499.9 2412.2 FALSE TRUE FALSE 4923.486822 2128.603673 4232.623601 4748.773939 3713.373539 3550.591404 4090.738181 6508.842946 1489.462074 2516.201747 1.956713856 0.845959063 1.682147946 1.887278691 1.475785296 1.411091701 1.625759216 2.586773081 0.591948589 1 11.29703189 -9.501320822 1.120609331 0.981300406 1.678829954 0.372110173 0.441119723 0.577905275 1.240385974 0.329469935 0.071437107 3.15E-10 9.501320822 0.697529548 GQVMT(ph)GY(ph)Y(ph)R ddPTM_HeLa_SAHA_4h_R1 1 GQVMTGYYR 9 0 M0R2M8;Q99742 M0R2M8 NPAS1 Neuronal PAS domain-containing protein 1 3 0 GQVMT(1)GY(1)Y(1)R 82.029 0.013377 2560200 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 GQVS(ph)ESEDSITK ddPTM_HeLa_SAHA_4h_R1 1 GQVSESEDSITK 12 0 O95239;O95239-2 O95239 KIF4A Chromosome-associated kinesin KIF4A 1 0 GQVS(0.556)ES(0.137)EDS(0.307)ITK 119.62 0.001555 7461500 1188.9 929.46 693.72 905.61 1087.8 1109.4 1030.9 882.69 1247.7 978.74 TRUE FALSE FALSE 1313.953957 959.5751138 788.2565489 923.1393911 1004.452999 1014.872879 914.9004188 860.1120679 1239.017154 1020.938271 1.28700627 0.93989533 0.772090312 0.904206863 0.983852822 0.994059002 0.896136862 0.842472157 1.213606335 1 9.995679924 -7.104831897 7.380391441 1.135210932 0.903034489 0.631518931 0.091226309 0.18291932 11.43329974 0.020196417 0.02478426 7.86E-08 7.104831897 -0.232176444 GQVSES(ph)EDSITK ddPTM_HeLa_SAHA_4h_R1 1 GQVSESEDSITK 12 0 O95239;O95239-2 O95239 KIF4A Chromosome-associated kinesin KIF4A 1 0 GQVSES(0.796)EDS(0.202)IT(0.001)K 144.51 0.00051232 12613000 1531.8 2029.7 1300.7 1862.8 1988 2292.1 1862 2429.4 2361.5 2112.3 TRUE FALSE FALSE 1692.921752 2095.463612 1477.952622 1898.857188 1835.679869 2096.800185 1652.482859 2367.259466 2345.066129 2203.37159 0.768332386 0.951025974 0.670768666 0.861796165 0.833123145 0.951632577 0.749979199 1.074380498 1.064308054 1 11.10549711 -3.357539679 14.55152015 0.876975438 0.863680311 0 0.131476425 0 0 0.016102702 0 0.000438996 3.357539679 -0.013295127 GQVSESEDS(ph)ITK ddPTM_HeLa_SAHA_4h_R1 3 GQVSESEDSITK 12 0 O95239;O95239-2 O95239 KIF4A Chromosome-associated kinesin KIF4A 1 0 GQVSES(0.001)EDS(0.811)IT(0.188)K;GQVS(0.077)ES(0.158)EDS(0.762)IT(0.002)K;GQVSES(0.007)EDS(0.99)IT(0.003)K ;; 191.01 5.52E-07 29538000 3543.82 3440.12 2595.78 4181 4177.13 4017.45 3772.43 3481.73 4558.9 3968.66 TRUE FALSE FALSE 3916.575247 3551.582145 2949.51938 4261.929301 3857.079202 3675.140658 3347.946248 3392.672388 4527.174244 4139.768355 0.946085605 0.857918086 0.71248416 1.029509126 0.931713775 0.887764808 0.808727919 0.819531939 1.093581538 1 12.01533433 -13.5228155 0.027569468 1.943908133 0.230189234 0.387256684 0.085212315 1232.560967 2.731993239 124.7796027 57.31179546 3.00E-14 13.5228155 -1.713718899 GQVSESEDSIT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 GQVSESEDSITK 12 0 O95239;O95239-2 O95239 KIF4A Chromosome-associated kinesin KIF4A 1 0 GQVSES(0.01)EDS(0.296)IT(0.694)K 137.73 0.0013269 6806000 1588.8 1586 946.81 1375.7 1579.1 1917.1 1343.9 1472 1497.7 1217.9 TRUE FALSE FALSE 1755.917274 1637.387441 1075.836336 1402.328663 1458.109699 1753.752295 1192.680835 1434.348371 1487.277384 1270.409629 1.382166219 1.288865735 0.846842082 1.103839762 1.147747676 1.380462061 0.938815959 1.129044002 1.170706951 1 10.31107804 GQY(ph)FHSRQY(ph)K ddPTM_HeLa_SAHA_4h_R1 1 GQYFHSRQYK 10 1 Q01740-2;Q01740;Q99518 Q01740-2 FMO1;FMO2 Dimethylaniline monooxygenase [N-oxide-forming] 1;Dimethylaniline monooxygenase [N-oxide-forming] 2 2 0 GQY(0.987)FHS(0.317)RQY(0.696)K 56.013 0.0219 7710500 197.98 356.55 235.36 238.76 233.69 309.51 307.7 389.99 332.1 312.56 TRUE FALSE FALSE 218.8044448 368.1024539 267.4336351 243.3815451 215.7847227 283.1380067 273.0767862 380.0146205 329.7888891 326.0359912 0.671105187 1.129023985 0.820258015 0.746486743 0.661843258 0.868425617 0.837566384 1.165560339 1.011510686 1 8.348887423 -4.260955734 22.40549429 0.841612372 1.165560736 0.278535341 0.144286994 9.600528358 444105.0249 0.021422552 0.168922909 5.48E-05 4.260955734 0.323948364 GQYQDHAIDRR ddPTM_HeLa_SAHA_4h_R1 1 GQYQDHAIDRR 11 1 Q14151 Q14151 SAFB2 Scaffold attachment factor B2 0 0 97.163 0.020802 420830 205.41 303.97 237.63 249.91 145.55 58.108 206.27 48.694 59.663 232.5 FALSE FALSE TRUE 227.0159663 313.8188274 270.0129789 254.7473694 134.3979904 53.15687149 183.0599567 47.44847799 59.24780033 242.5242128 0.936054852 1.293969059 1.113344419 1.050399737 0.554163186 0.219181709 0.754811054 0.195644292 0.244296434 1 7.921984978 -5.681142344 4.388746835 1.01338376 0.421864941 0.402365678 0.299064417 0.083584786 3.000763505 0.024697612 0.050242125 2.08E-06 5.681142344 -0.591518819 GRAEGEWEDQEALDY(ph)FSDKESGK ddPTM_HeLa_SAHA_4h_R1 2 GRAEGEWEDQEALDYFSDKESGK 23 2 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 GRAEGEWEDQEALDY(0.779)FS(0.214)DKES(0.007)GK;GRAEGEWEDQEALDY(0.414)FS(0.293)DKES(0.293)GK ; 78.418 0.00061292 160408000 7403.7 8192.9 8222.6 9479.9 9183.7 9448.5 10281.4 8334.3 9719.4 8961.3 TRUE FALSE FALSE 8182.455135 8458.355336 9343.133107 9663.397173 8480.04689 8643.434644 9124.509813 8121.120674 9651.761904 9347.665499 0.875347448 0.90486286 0.999515131 1.033776527 0.907183392 0.924662382 0.976127121 0.868785974 1.032531802 1 13.19039039 -2.481337124 0.005370057 1.828158313 1.76E-07 0.095937757 0.057123562 90741.0218 49.54712854 7938.394295 8957.337723 0.003301132 2.481337124 -1.828158137 GRAEGEWEDQEALDYFS(ph)DKESGK ddPTM_HeLa_SAHA_4h_R1 5 GRAEGEWEDQEALDYFSDKESGK 23 2 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 GRAEGEWEDQEALDY(0.282)FS(0.529)DKES(0.19)GK;GRAEGEWEDQEALDY(0.39)FS(0.484)DKES(0.126)GK;GRAEGEWEDQEALDY(0.374)FS(0.44)DKES(0.186)GK;GRAEGEWEDQEALDY(0.045)FS(0.94)DKES(0.016)GK;GRAEGEWEDQEALDY(0.468)FS(0.524)DKES(0.008)GK ;;;; 93.5 6.45E-05 357560800 13693.45 14140.54 14720.56 16351.82 16934.68 16951.88 17640.62 13900.49 16092.714 15373.08 TRUE FALSE FALSE 15133.7899 14598.70277 16726.60126 16668.33312 15637.14848 15507.48446 15655.65101 13544.93559 15980.72349 16035.88871 0.943745007 0.910376907 1.043072919 1.039439311 0.97513451 0.967048645 0.97628833 0.844663856 0.99655989 1 13.96901669 -4.261227598 7.344029042 0.977663359 0.843057914 0.536141541 0.038402746 0.069836235 33.37985456 0.005710587 0.046214524 5.48E-05 4.261227598 -0.134605444 GRAS(ph)PGGVSTSSSDGK ddPTM_HeLa_SAHA_4h_R1 3 GRASPGGVSTSSSDGK 16 1 P54259 P54259 ATN1 Atrophin-1 1 0 GRAS(0.999)PGGVSTSSSDGK;GRAS(1)PGGVSTSSSDGK;GRAS(1)PGGVSTSSSDGK ;; 165.49 1.31E-06 45961500 6370.8 8472.8 6012.6 7352.8 7751.8 9554.3 8159.1 7333.9 10642.8 7411.2 TRUE FALSE FALSE 7040.909974 8747.324279 6831.965816 7495.124076 7157.858759 8740.219889 7241.016594 7146.309457 10568.73589 7730.733102 0.910768731 1.131499971 0.883741002 0.969523068 0.925896505 1.130580991 0.93665329 0.924402558 1.367106554 1 12.91638952 GRAS(ph)PGGVSTSSSDGKAEK ddPTM_HeLa_SAHA_4h_R1 4 GRASPGGVSTSSSDGKAEK 19 2 P54259 P54259 ATN1 Atrophin-1 1 0 GRAS(1)PGGVSTSSSDGKAEK;GRAS(0.997)PGGVS(0.001)T(0.001)SSSDGKAEK;GRAS(1)PGGVSTSSSDGKAEK;GRAS(1)PGGVSTSSSDGKAEK ;;; 92.805 0.00072578 58778800 18729.8 14166.5 17764.7 16997.3 17549.8 18103.1 20247.2 20847.4 13297.9 17196.9 TRUE FALSE FALSE 20699.8863 14625.50389 20185.5808 17326.30732 16205.13812 16560.61403 17968.93177 20314.15369 13205.35883 17938.34252 1.153946429 0.815320807 1.125275693 0.965881173 0.903379902 0.923196445 1.001705244 1.132443183 0.736152675 1 14.13075897 GRASS(ph)HSSQTQGGGSVTK ddPTM_HeLa_SAHA_4h_R1 1 GRASSHSSQTQGGGSVTK 18 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 GRAS(0.013)S(0.807)HS(0.133)S(0.037)QT(0.01)QGGGSVTK 70.783 0.007968 1730500 0 0 0 0 60.95 153.04 146.49 131.25 0 65.725 TRUE FALSE FALSE 0 0 0 0 56.28002417 140.000131 130.0065597 127.892815 0 68.5587264 0 0 0 0 0.820902416 2.042046846 1.896280262 1.865449109 0 1 6.099268404 -5.377275267 3.758033671 0.396063557 1.932630127 0.831790996 0.345731166 0.103200575 2.596577632 0.067979924 0.160960673 4.19E-06 5.377275267 1.53656657 GRDS(ph)PYQSR ddPTM_HeLa_SAHA_4h_R1 1 GRDSPYQSR 9 1 Q13242 Q13242 SRSF9 Serine/arginine-rich splicing factor 9 1 0 GRDS(1)PYQSR 92.112 0.0096221 28775000 309.96 385.83 215.13 523.65 566.58 635.8 538.77 631.21 597.91 569.45 TRUE FALSE FALSE 342.5630149 398.3311452 244.4467961 533.786003 523.1687628 581.6262631 478.1461816 615.0645622 593.7490956 594.0017763 0.576703688 0.670589148 0.411525362 0.898626947 0.880752859 0.979165865 0.804957495 1.035459129 0.999574613 1 9.214323435 -6.036492972 24.99520881 0.752342426 0.916532077 0.219493844 0.175482916 923.1418438 632288.2813 0.031097251 0.051580671 9.19E-07 6.036492972 0.164189651 GRDVESVQT(ph)PSK ddPTM_HeLa_SAHA_4h_R1 1 GRDVESVQTPSK 12 1 P46013 P46013 MKI67 Antigen KI-67 1 0 GRDVESVQT(0.92)PS(0.08)K 94.45 0.010713 4768500 2152.6 1398 1323.6 1677.1 1885.8 1838.1 1936.8 2368.1 1907.1 1988.2 TRUE FALSE FALSE 2379.020344 1443.296117 1503.973315 1709.562696 1741.310411 1681.483539 1718.866167 2307.527431 1893.828336 2073.921032 1.147112309 0.695926265 0.725183501 0.824314267 0.839622331 0.810775103 0.8288002 1.112639968 0.913163185 1 11.01814525 -7.269497412 24.99981499 1.069469703 0.828480011 0.310863995 0.120303278 372.6814406 1156231.377 0.019704245 0.022738721 5.38E-08 7.269497412 -0.240989693 GRECS(ph)PTSSLER ddPTM_HeLa_SAHA_4h_R1 1 GRECSPTSSLER 12 1 A0A0J9YX88;E9PJ24;B7ZM65;F8WEF5;A0A0J9YYB5;A0A0J9YWD5;Q9P1Y6-2;Q9P1Y6-3;Q9P1Y6 A0A0J9YX88 PHRF1 PHD and RING finger domain-containing protein 1 1 0 GRECS(0.914)PT(0.085)S(0.001)SLER 115.12 0.0092341 13437000 954.43 918.45 902.83 1050.5 1232 1254.2 1262.7 1312.6 1019.2 1223 TRUE FALSE FALSE 1054.821326 948.2083826 1025.862971 1070.833947 1137.604426 1147.335104 1120.617673 1279.025593 1012.107304 1275.729515 0.826837754 0.743267575 0.804138306 0.83938949 0.891728546 0.899356086 0.878413221 1.00258368 0.793355717 1 10.31710676 -2.972512479 20.75757549 0.892437555 44.04850759 0 0.084219939 0 0 0.012754582 0 0.001065338 2.972512479 43.15607004 GREDVSNFDDEFTSEAPILT(ph)PPR ddPTM_HeLa_SAHA_4h_R1 1 GREDVSNFDDEFTSEAPILTPPR 23 1 Q16513-3;Q16513-2;Q16513;Q16513-4;Q16513-5 Q16513-3 PKN2 Serine/threonine-protein kinase N2 1 0 GREDVSNFDDEFT(0.001)S(0.003)EAPILT(0.996)PPR 66.294 0.0038906 1972100 249.38 271.79 229.88 361.77 438.11 448.57 318.39 321.26 612.47 373.13 TRUE FALSE FALSE 275.6109326 280.5961743 261.2068492 368.7725815 404.5421064 410.3493124 282.5639192 313.0426344 608.2077714 389.2174604 0.708115541 0.720923912 0.671107738 0.947471835 1.039372967 1.054293176 0.725979556 0.804287233 1.562642567 1 8.604432621 GREDVSNFDDEFTSEAPILT(ph)PPREPR ddPTM_HeLa_SAHA_4h_R1 5 GREDVSNFDDEFTSEAPILTPPREPR 26 2 Q16513-3;Q16513-2;Q16513;Q16513-4;Q16513-5 Q16513-3 PKN2 Serine/threonine-protein kinase N2 1 0 GREDVSNFDDEFT(0.006)S(0.001)EAPILT(0.993)PPREPR;GREDVSNFDDEFT(0.029)S(0.004)EAPILT(0.968)PPREPR;GREDVSNFDDEFT(0.005)S(0.002)EAPILT(0.993)PPREPR;GREDVSNFDDEFTS(0.002)EAPILT(0.998)PPREPR;GREDVSNFDDEFT(0.005)S(0.003)EAPILT(0.992)PPREPR ;;;; 90.397 3.18E-05 456129000 2637.63 2267.96 2389.03 2457.8 2601.63 3290.49 3101.44 3135.54 2640.88 2728.22 TRUE FALSE FALSE 2915.068025 2341.443392 2714.594567 2505.374273 2402.293671 3010.12174 2752.457809 3055.337427 2622.501901 2845.846916 1.024323553 0.822758026 0.953879336 0.880361575 0.84414016 1.057724407 0.967184072 1.073612713 0.921518964 1 11.47464234 GREETVAEDVCIDLTCDSGSQAVPS(ph)PATR ddPTM_HeLa_SAHA_4h_R1 2 GREETVAEDVCIDLTCDSGSQAVPSPATR 29 1 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 GREETVAEDVCIDLTCDSGSQAVPS(0.989)PAT(0.011)R;GREETVAEDVCIDLTCDS(0.001)GS(0.032)QAVPS(0.952)PAT(0.015)R ; 156.51 4.09E-15 82483000 1414.24 2392.45 2180.77 2170.44 2004.61 2197.46 2567.91 1943.22 2315.43 2282.38 TRUE FALSE FALSE 1562.996252 2469.96695 2477.953979 2212.452005 1851.017215 2010.224045 2278.962008 1893.515246 2299.316734 2380.784571 0.656504696 1.037459239 1.040814028 0.929295339 0.777482027 0.844353609 0.957231509 0.795332458 0.965781097 1 11.21722137 -3.946547925 13.59587187 0.870306536 0.395772737 0 0.122059583 3066995.047 24396219.06 0.021034297 37164500.69 0.000113097 3.946547925 -0.474533799 GREEYEGPNK(ac)KPR ddPTM_HeLa_SAHA_4h_R1 2 GREEYEGPNKKPR 13 3 P23246 P23246 SFPQ "Splicing factor, proline- and glutamine-rich" 0 1 ; GREEYEGPNK(0.848)K(0.152)PR;GREEYEGPNK(0.937)K(0.063)PR 100.04 0.002785 57680000 4565.5 5585.5 6074.7 7925.3 8660.2 8788 10068.4 7560.1 4312.4 4199.4 FALSE TRUE FALSE 5045.720237 5766.473865 6902.52848 8078.705642 7996.657347 8039.21296 8935.477133 7366.723589 4282.389657 4380.456685 1.151870821 1.316409288 1.575755447 1.844261049 1.825530515 1.835245395 2.039850585 1.681725016 0.977612602 1 12.09686557 -6.765230606 1.106917225 1.053979302 1.877466404 0.939194829 0.090221935 0.067857976 0.165974271 0.016157658 0.024666772 1.72E-07 6.765230606 0.823487101 GRES(ph)PAAGPR ddPTM_HeLa_SAHA_4h_R1 1 GRESPAAGPR 10 1 J3KPG5;F8VU39;Q9UIF9-2;Q9UIF9-3;Q9UIF9;A0A0C4DGI9 J3KPG5 BAZ2A Bromodomain adjacent to zinc finger domain protein 2A 1 0 GRES(1)PAAGPR 70.089 0.022744 6997500 513.35 414.44 314.41 641.12 552.23 882.94 652.65 479.84 460.83 569.64 TRUE FALSE FALSE 567.3465083 427.8681279 357.2561574 653.5298047 509.9182567 807.7085447 579.2121043 467.5663876 457.6230465 594.1999682 0.954807369 0.720074303 0.601238937 1.099848266 0.858159347 1.359321084 0.974776397 0.786883899 0.770149901 1 9.214804718 -4.258485035 23.08281868 0.961090494 0.786883766 0.016064389 0.203523251 223.4191318 1745318.432 0.026443753 0.243660925 5.51E-05 4.258485035 -0.174206727 GRGFGSEEGSR ddPTM_HeLa_SAHA_4h_R1 1 GRGFGSEEGSR 11 1 Q9Y5S9 Q9Y5S9 RBM8A RNA-binding protein 8A 0 0 101.35 0.011049 1118500 440.17 141.98 254.52 256.37 387.43 206.27 307.57 261.55 53.533 351.06 FALSE FALSE TRUE 486.4691002 146.5802452 289.2046601 261.3324121 357.7451971 188.6946356 272.9614141 254.8599297 53.16045949 366.1959146 1.328439452 0.40027821 0.789753923 0.713640982 0.976922961 0.51528329 0.745397213 0.695966065 0.14516945 1 8.516471886 -7.271564112 24.99809494 1.15509641 0.702027931 0 0.358510444 354.2231709 874579.9824 0.030689943 0.035307254 5.35E-08 7.271564112 -0.453068479 GRLS(ph)PVPVPR ddPTM_HeLa_SAHA_4h_R1 2 GRLSPVPVPR 10 1 Q9UKM9-2;Q5QPL9;Q9UKM9;Q5QPM0;Q5QPM1 Q9UKM9-2 RALY RNA-binding protein Raly 1 0 GRLS(1)PVPVPR;GRLS(1)PVPVPR ; 82.85 0.014333 2594200000 2790.3 2883.2 2388.6 2915.4 3151.5 2716 2650.5 2732 2835.4 2490.7 TRUE FALSE FALSE 3083.796556 2976.617572 2714.105969 2971.831783 2910.032751 2484.58152 2352.258764 2662.119396 2815.668221 2598.086266 1.186949254 1.145696204 1.044655831 1.14385416 1.120067793 0.956312172 0.905381317 1.024646268 1.083747009 1 11.34323362 -5.255577067 23.95490789 1.097348361 0.956440036 0.55988354 0.057220713 206.330869 843113.4649 0.01099706 0.027205928 5.55E-06 5.255577067 -0.140908324 GRLT(ph)PS(ph)PDIIVLSDNEASSPR ddPTM_HeLa_SAHA_4h_R1 2 GRLTPSPDIIVLSDNEASSPR 21 1 A0A0U1RRM1;Q8WXI9;A0A0U1RRK3;A0A0U1RR34 A0A0U1RRM1 GATAD2B Transcriptional repressor p66-beta 2 0 GRLT(1)PS(1)PDIIVLSDNEASSPR;GRLT(1)PS(1)PDIIVLSDNEASSPR ; 106.44 0.00083743 5193600 524.83 738.88 926.34 1082.57 1114.26 1479.89 1011.84 1099.74 1048.6 783.75 TRUE FALSE FALSE 580.0340274 762.8201968 1052.576791 1103.524708 1028.88564 1353.795046 897.9851002 1071.610243 1041.302707 817.5412981 0.709485905 0.933066254 1.287490667 1.349809129 1.258512129 1.655934752 1.098397234 1.310772001 1.273700435 1 9.6751478 -6.77593504 3.879312007 0.860968976 1.333876338 0.388950222 0.194605095 0.098880536 3.260430351 0.02610824 0.03592118 1.68E-07 6.77593504 0.472907363 GRLT(ph)PSPDIIVLS(ph)DNEASSPR ddPTM_HeLa_SAHA_4h_R1 2 GRLTPSPDIIVLSDNEASSPR 21 1 A0A0U1RRM1;Q8WXI9;A0A0U1RRK3;A0A0U1RR34 A0A0U1RRM1 GATAD2B Transcriptional repressor p66-beta 2 0 GRLT(0.977)PS(0.023)PDIIVLS(0.996)DNEAS(0.002)S(0.002)PR;GRLT(0.931)PS(0.069)PDIIVLS(0.936)DNEAS(0.029)S(0.035)PR ; 105.37 0.00090244 6712100 881.78 1248.85 1144.21 1296.71 1344.63 1435.98 1264.59 1405.87 1231.44 1153.85 TRUE FALSE FALSE 974.5296662 1289.313559 1300.13698 1321.809697 1241.60474 1313.626425 1122.295005 1369.909881 1222.870309 1203.59812 0.809680283 1.071215996 1.08020855 1.098215156 1.0315775 1.091416149 0.932449948 1.138178814 1.016012146 1 10.23313804 -7.237360395 24.7642734 0.910126799 1.060140537 0.334073496 0.074526738 496.8459361 510986.7596 0.013838711 0.016943989 5.79E-08 7.237360395 0.150013738 GRLT(ph)PSPDIIVLSDNEAS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 GRLTPSPDIIVLSDNEASSPR 21 1 A0A0U1RRM1;Q8WXI9;A0A0U1RRK3;A0A0U1RR34 A0A0U1RRM1 GATAD2B Transcriptional repressor p66-beta 2 0 GRLT(0.998)PS(0.002)PDIIVLS(0.161)DNEAS(0.465)S(0.373)PR 107.34 0.00078262 10560000 1309.3 1460.6 1395.4 1344.3 1750.4 1862.9 1499.8 1354.7 1886.6 1819.7 TRUE FALSE FALSE 1447.018181 1507.924398 1585.557845 1370.32087 1616.28473 1704.17044 1331.038557 1320.048736 1873.470997 1898.156172 0.762328307 0.794415349 0.835314748 0.72192209 0.851502502 0.89780307 0.701227105 0.69543737 0.986995182 1 10.89038298 -9.305869819 0.72167174 1.022318156 0.782838467 0.641282048 0.062978918 0.475517085 0.378341497 0.070448889 0.013316527 4.94E-10 9.305869819 -0.239479689 GRLT(ph)PSPDIIVLSDNEASSPR ddPTM_HeLa_SAHA_4h_R1 4 GRLTPSPDIIVLSDNEASSPR 21 1 A0A0U1RRM1;Q8WXI9;A0A0U1RRK3;A0A0U1RR34 A0A0U1RRM1 GATAD2B Transcriptional repressor p66-beta 1 0 GRLT(0.98)PS(0.02)PDIIVLSDNEASSPR;GRLT(0.996)PS(0.004)PDIIVLSDNEASSPR;GRLT(0.992)PS(0.007)PDIIVLSDNEASSPR;GRLT(0.767)PS(0.233)PDIIVLSDNEASSPR ;;; 195.55 9.78E-14 23702400 3878.02 4618.31 4431.15 5260.01 5375.86 6618.93 5351.67 5080.43 4775.9 4154.35 TRUE FALSE FALSE 4285.927937 4767.946274 5035.004046 5361.8251 4963.962768 6054.959927 4749.486007 4950.479957 4742.664123 4333.464359 0.989030388 1.100262026 1.161888879 1.237306842 1.145495233 1.397256196 1.096002093 1.14238391 1.094427859 1 12.08130512 -6.945012505 1.925974291 0.994012346 1.204736082 0.448032497 0.082737118 0.154742346 1.150476277 0.012727471 0.017033534 1.13E-07 6.945012505 0.210723736 GRNDS(ph)GEENVPLDLTR ddPTM_HeLa_SAHA_4h_R1 4 GRNDSGEENVPLDLTR 16 1 Q6R327-3;Q6R327;Q6R327-4 Q6R327-3 RICTOR Rapamycin-insensitive companion of mTOR 1 0 GRNDS(1)GEENVPLDLTR;GRNDS(1)GEENVPLDLTR;GRNDS(1)GEENVPLDLTR;GRNDS(1)GEENVPLDLTR ;;; 205.98 8.88E-15 58730700 2485.3 3128.72 2704.43 3194.14 2996.83 4502.28 3565.25 4144.13 3670.5 2893.76 TRUE FALSE FALSE 2746.715257 3230.092581 3072.975636 3255.967199 2767.213533 4118.660415 3164.078687 4038.129155 3644.956692 3018.524155 0.909953048 1.070090022 1.018039107 1.078661966 0.916743876 1.364461639 1.04822043 1.337782621 1.20752941 1 11.55962763 -4.916181116 0.575401527 0.962026031 1.355938346 0.208876627 0.134379849 1.22283417 0.424818907 0.020316162 0.277647317 1.21E-05 4.916181116 0.393912314 GRNDS(ph)GEENVPLDLTREPSDNLR ddPTM_HeLa_SAHA_4h_R1 1 GRNDSGEENVPLDLTREPSDNLR 23 2 Q6R327-3;Q6R327;Q6R327-4 Q6R327-3 RICTOR Rapamycin-insensitive companion of mTOR 1 0 GRNDS(0.688)GEENVPLDLT(0.309)REPS(0.003)DNLR 90.712 0.00013603 21547000 911.9 873.34 1151 892.82 1246.2 1138.6 1323.6 1274.7 614.57 1103.6 TRUE FALSE FALSE 1007.817826 901.636789 1307.852286 910.1018221 1150.716425 1041.584874 1174.665044 1242.09502 610.2931573 1151.181597 0.875463809 0.783227244 1.136095547 0.790580587 0.999595918 0.904796322 1.020399429 1.078974006 0.530144991 1 10.16889972 -4.577256858 3.763490195 0.93418546 1.070118512 0.081518414 0.161448891 0.259435484 7.27619221 0.013191049 0.06353898 2.65E-05 4.577256858 0.135933053 GRNDSGEENVPLDLT(ph)REPSDNLR ddPTM_HeLa_SAHA_4h_R1 1 GRNDSGEENVPLDLTREPSDNLR 23 2 Q6R327-3;Q6R327;Q6R327-4 Q6R327-3 RICTOR Rapamycin-insensitive companion of mTOR 1 0 GRNDS(0.12)GEENVPLDLT(0.855)REPS(0.026)DNLR 81.016 0.0035741 20676000 475.88 357.08 506.17 499.11 471.51 599.11 452.65 544.59 335.42 463.49 TRUE FALSE FALSE 525.9352418 368.6496263 575.1482116 508.7709958 435.3830057 548.0624575 401.7166307 530.6601764 333.0857849 483.4733222 1.08782681 0.76250252 1.189617266 1.052324859 0.900531603 1.133594001 0.830897202 1.097599706 0.688943463 1 8.917292474 GRNS(ph)ATSADEQPHIGNYR ddPTM_HeLa_SAHA_4h_R1 2 GRNSATSADEQPHIGNYR 18 1 Q7KZI7;Q7KZI7-12;E9PC69;E7ETY4;Q7KZI7-9;Q7KZI7-8;Q7KZI7-11;Q7KZI7-6;Q7KZI7-3;Q7KZI7-14;Q7KZI7-16;Q7KZI7-4;Q7KZI7-5;Q7KZI7-15;Q7KZI7-2;Q7KZI7-7;Q7KZI7-13;Q7KZI7-10;F5H4F6;F5H6N2;F5H4J8 Q7KZI7 MARK2 Serine/threonine-protein kinase MARK2 1 0 GRNS(0.994)AT(0.005)S(0.001)ADEQPHIGNYR;GRNS(0.875)AT(0.094)S(0.031)ADEQPHIGNYR ; 132.76 6.21E-05 5227300 591.7 518.24 528.94 685.66 727.98 901.12 887.3 940.3 660.4 755.26 TRUE FALSE FALSE 653.9377208 535.031316 601.0211886 698.9319408 672.2023297 824.3395064 787.4586688 916.2484875 655.8042226 787.8229548 0.830056698 0.679126335 0.762888648 0.887168794 0.853240345 1.046351216 0.999537604 1.16301319 0.832425888 1 9.621727643 -4.815626424 1.375662729 0.881285272 1.137972774 0.532334428 0.094166151 0.50052419 1.500336705 0.0174272 0.134187929 1.53E-05 4.815626424 0.256687502 GRPPAEKLS(ph)PNPPNLTK ddPTM_HeLa_SAHA_4h_R1 2 GRPPAEKLSPNPPNLTK 17 2 P51532;P51532-4;P51532-3;P51532-2;P51532-5;A0A0A0MT49;Q9HBD4;A0A2R8Y4P4;A0A2R8Y7S2;A0A2R8YGG3;A0A2R8Y440;A0A2R8Y4C5;A0A2R8Y6N0;A0A2R8YG32;A0A2R8Y7F3;K7EP28;A0A2R8YF58;A0A2R8Y7Y7;A0A2R8Y526;A0A2R8YF80;A0A2R8Y6V2;A0A2R8YDA1;A0A2R8Y523;A0A2R8Y5K3;K7EQF0;A0A2R8YFK5;A0A2R8YF38 P51532 SMARCA4 Transcription activator BRG1 1 0 GRPPAEKLS(0.996)PNPPNLT(0.004)K;GRPPAEKLS(1)PNPPNLTK ; 64.87 0.016649 25332900 4644.7 4766 4021.6 4571.6 4754.1 6515.8 4881.3 4238.6 5903.6 5104.4 TRUE FALSE FALSE 5133.250857 4920.421527 4569.642704 4660.089929 4389.841885 5960.617183 4332.043277 4130.182749 5862.516367 5324.475664 0.964085702 0.924113817 0.858233372 0.875220439 0.824464635 1.11947496 0.813609367 0.775697554 1.101050458 1 12.37842375 -7.235911349 1.770093844 0.986132891 0.88329225 0.293392474 0.094993863 0.397743995 2.362353253 0.016129978 0.019319301 5.81E-08 7.235911349 -0.102840642 GRS(ph)FAGNLNTYK ddPTM_HeLa_SAHA_4h_R1 1 GRSFAGNLNTYK 12 1 Q01813;Q01813-2;B1APP6 Q01813 PFKP "ATP-dependent 6-phosphofructokinase, platelet type" 1 0 GRS(1)FAGNLNTYK 66.674 0.022958 3646800 829.61 952.26 754.55 1044 1024.2 912.66 991.78 731.85 670.72 722.78 TRUE FALSE FALSE 916.8721862 983.1138488 857.3761445 1064.20813 945.7260173 834.8962335 880.1823042 713.1303367 666.0524049 753.942583 1.216103463 1.303963818 1.137190237 1.411524105 1.254374058 1.107373761 1.167439436 0.94586823 0.8834259 1 9.558310848 -9.142881979 0.930625812 1.001678513 1.199621469 0.369434177 0.124128722 0.578350439 0.914386376 0.074857314 0.022378721 7.20E-10 9.142881979 0.197942956 GRS(ph)IDQDYER ddPTM_HeLa_SAHA_4h_R1 2 GRSIDQDYER 10 1 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 GRS(1)IDQDYER;GRS(1)IDQDYER ; 128.35 0.0041646 60342000 2688.9 2837.84 2791.43 2845.01 2954.3 2637.19 3399.68 2632.45 2237.27 2439.85 TRUE FALSE FALSE 2971.730839 2929.787878 3171.831543 2900.079283 2727.942172 2412.486576 3017.139059 2565.115741 2221.700656 2545.043874 1.167654071 1.15117382 1.246277746 1.139500703 1.071864497 0.947915515 1.185495893 1.007886649 0.87295181 1 11.31347481 -4.035396875 13.66027701 1.096689755 0.978722938 0.037642901 0.110570326 104426.9656 4572034.082 0.013449737 106669.8744 9.22E-05 4.035396875 -0.117966817 GRS(ph)PDELPSAGGDGGK ddPTM_HeLa_SAHA_4h_R1 3 GRSPDELPSAGGDGGK 16 1 B4E2I7;A0A2R8Y5N1;A0A140T8Z0;A0A0G2JH68;O60610-2;O60610-3;O60610 B4E2I7 DIAPH1 Protein diaphanous homolog 1 1 0 GRS(0.969)PDELPS(0.031)AGGDGGK;GRS(1)PDELPSAGGDGGK;GRS(0.88)PDELPS(0.12)AGGDGGK ;; 119.96 0.0032068 17169000 5035.54 4899.06 4554.18 4505.5 5405.63 5275.2 5175.41 5722.18 5277.24 4585.24 TRUE FALSE FALSE 5565.201201 5057.792758 5174.799933 4592.710468 4991.451797 4825.723283 4593.059246 5575.814921 5240.515257 4782.932136 1.163554289 1.057466971 1.081930453 0.960229068 1.043596617 1.008946635 0.96030199 1.165773371 1.095670001 1 12.22367961 -6.38633586 18.34878921 1.077725422 1.02355262 0.133695145 0.06558333 4.553397985 650.7416112 0.011876111 0.018141042 4.11E-07 6.38633586 -0.054172802 GRS(ph)PQPPAEEDEDDFDDTLVAIDTYNCDLHFK ddPTM_HeLa_SAHA_4h_R1 5 GRSPQPPAEEDEDDFDDTLVAIDTYNCDLHFK 32 1 M0R3F1;A0A0A0MRA5;B7Z4B8;Q9BUJ2-3;Q9BUJ2-4;Q9BUJ2-2;Q9BUJ2;M0QYI8;M0QYZ0;M0R0K8 M0R3F1 HNRNPUL1 Heterogeneous nuclear ribonucleoprotein U-like protein 1 1 0 GRS(0.998)PQPPAEEDEDDFDDT(0.002)LVAIDTYNCDLHFK;GRS(1)PQPPAEEDEDDFDDTLVAIDTYNCDLHFK;GRS(1)PQPPAEEDEDDFDDTLVAIDTYNCDLHFK;GRS(1)PQPPAEEDEDDFDDTLVAIDTYNCDLHFK;GRS(1)PQPPAEEDEDDFDDTLVAIDTYNCDLHFK ;;;; 147.17 3.23E-15 198137300 4294.92 5744.68 4919.77 5344.83 6214.51 6203.68 6328.36 4308.75 6194.63 6111.65 TRUE FALSE FALSE 4746.679391 5930.811401 5590.210635 5448.286913 5738.355586 5675.091563 5616.276277 4198.538414 6151.521065 6375.153141 0.744559274 0.930301009 0.876874721 0.854612712 0.900112587 0.890189057 0.880963351 0.658578441 0.964921301 1 12.63824428 -9.578872872 1.362041353 1.000010754 0.837140148 0.339655165 0.077815861 0.379996956 1.263849554 0.056527279 0.013196029 2.64E-10 9.578872872 -0.162870606 GRS(ph)YDSSMESR ddPTM_HeLa_SAHA_4h_R1 1 GRSYDSSMESR 11 1 Q9HCG8;B7WP74 Q9HCG8 CWC22 Pre-mRNA-splicing factor CWC22 homolog 1 0 GRS(0.991)Y(0.001)DS(0.008)SMESR 77.372 0.015654 2728600 650.6 471.3 670.72 689.08 775.97 995.39 738.26 655.59 799.32 830.27 TRUE FALSE FALSE 719.0330931 486.5704292 762.1222286 702.4181398 716.5153462 910.5771721 655.1890418 638.8209571 793.757467 866.0670029 0.83022802 0.56181615 0.879980678 0.811043646 0.827320916 1.051393448 0.756510801 0.737611472 0.91650815 1 9.758334833 -8.814048495 0.976219585 0.987716604 0.812373175 0.195688194 0.118163792 0.515691961 0.971648035 0.052225474 0.023030922 1.53E-09 8.814048495 -0.175343429 GRSECDSS(ph)PEPK ddPTM_HeLa_SAHA_4h_R1 4 GRSECDSSPEPK 12 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 GRSECDS(0.003)S(0.997)PEPK;GRSECDS(0.208)S(0.792)PEPK;GRSECDS(0.251)S(0.749)PEPK;GRSECDS(0.003)S(0.997)PEPK ;;; 159.66 0.000744 63432200 14451 12900.8 10972.4 17120 15765 19206.9 18895.9 16919.6 16005.1 18821.1 TRUE FALSE FALSE 15971.02248 13318.79438 12467.66153 17451.38236 14557.08911 17570.36406 16769.6836 16486.82113 15893.71921 19632.56973 0.813496282 0.678403009 0.635049904 0.888899548 0.741476501 0.894959972 0.854176699 0.839768882 0.80955878 1 14.2609614 -8.82231777 0.910841229 0.989212812 0.793907687 0.060415936 0.099185339 0.375586753 0.611362019 0.041950875 0.017407531 1.51E-09 8.82231777 -0.195305125 GRSPS(ph)QYHDFAEK ddPTM_HeLa_SAHA_4h_R1 1 GRSPSQYHDFAEK 13 1 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 1 0 GRS(0.383)PS(0.616)QYHDFAEK 68.277 0.020519 11379000 1820.5 2550 1387 1911.6 2742.1 3192.6 2760.1 2699.6 2604.9 2699.9 TRUE FALSE FALSE 2011.988543 2632.621673 1576.013137 1948.601782 2532.00089 2920.572519 2449.526284 2630.548141 2586.772289 2816.305902 0.714406962 0.934778311 0.559602966 0.691899904 0.89905038 1.037022476 0.869765703 0.934042051 0.918498337 1 11.45958833 -5.530324061 24.94453495 0.830070007 0.944027455 0.188962008 0.129438607 310.3424225 1039759.545 0.02252465 0.045123819 2.95E-06 5.530324061 0.113957448 GRSQS(ph)DLSSSSSR ddPTM_HeLa_SAHA_4h_R1 1 GRSQSDLSSSSSR 13 1 J3KP75 J3KP75 PHACTR2 Phosphatase and actin regulator 1 0 GRS(0.044)QS(0.955)DLSSSSSR 70.134 0.01891 1330000 418.75 0 246.82 436.82 354.82 179.22 280.68 340.56 257.75 383.96 TRUE FALSE FALSE 462.7960463 0 280.4553442 445.2752828 327.6337683 163.9494477 249.0971477 331.8489683 255.9562968 400.5143947 1.155504153 0 0.700237864 1.1117585 0.818032442 0.409347204 0.621943059 0.828556908 0.639068908 1 8.645710284 GRTSS(ph)TNEDEDLNPEQK ddPTM_HeLa_SAHA_4h_R1 2 GRTSSTNEDEDLNPEQK 17 1 Q99081;Q99081-3;B4DZP2;F5GY10;B4DGI9;Q99081-4;Q99081-2 Q99081 TCF12 Transcription factor 12 1 0 GRT(0.026)S(0.026)S(0.474)T(0.474)NEDEDLNPEQK;GRTS(0.016)S(0.817)T(0.167)NEDEDLNPEQK ; 224.86 5.72E-27 54606000 5983.4 5528.7 5349.1 5816.5 6395.9 6906.9 7485 7484.4 5286.1 5715.6 TRUE FALSE FALSE 6612.761465 5707.833508 6078.047491 5929.086768 5905.847524 6318.393263 6642.768101 7292.959885 5249.3136 5962.027487 1.109146424 0.957364507 1.019459824 0.994474913 0.990577037 1.059772582 1.114179382 1.223234864 0.880457799 1 12.54158731 -4.402785951 1.85415862 1.034989504 1.252471523 0.507646022 0.063851158 0.360412453 1.567823177 0.007632891 0.122330552 3.96E-05 4.402785951 0.217482019 GS(ph)DSDSEGDNPEK ddPTM_HeLa_SAHA_4h_R1 1 GSDSDSEGDNPEK 13 0 I3L4J1;Q9UN37 I3L4J1 VPS4A Vacuolar protein sorting-associated protein 4A 1 0 GS(0.524)DS(0.237)DS(0.24)EGDNPEK 115.12 0.0016425 8241500 963.12 1682.5 1046.8 1582.5 2338 2858.3 2157.9 1334.7 2602.4 2486 TRUE FALSE FALSE 1064.425381 1737.014104 1189.452452 1613.131576 2158.862945 2614.75676 1915.087413 1300.560307 2584.289687 2593.183626 0.4104705 0.669838451 0.458684237 0.622066081 0.83251449 1.008319169 0.738508216 0.501530356 0.996570262 1 11.34050865 -9.596906439 1.412949407 0.998689937 0.632693982 0.386407982 0.170685577 0.398653106 1.436086013 0.136275829 0.032046639 2.53E-10 9.596906439 -0.365995955 GS(ph)ESPNSFLDQESR ddPTM_HeLa_SAHA_4h_R1 2 GSESPNSFLDQESR 14 0 Q5T4Y8;A0A5H1ZRR2;G9CGD6-3;G9CGD6;G9CGD6-2;Q6P9H4 Q5T4Y8 CNKSR3 Connector enhancer of kinase suppressor of ras 3 1 0 GS(0.939)ES(0.058)PNS(0.003)FLDQES(0.001)R;GS(0.713)ES(0.287)PNSFLDQESR ; 190.34 1.46E-08 15012500 2571.5 2674.5 2341.4 3044.7 2695 3053 2982.2 2951.8 2946 2147.6 TRUE FALSE FALSE 2841.982168 2761.155555 2660.473799 3103.634571 2488.509682 2792.867224 2646.635007 2876.29723 2925.498546 2240.193546 1.268632424 1.232552232 1.187608902 1.38543144 1.11084584 1.246708004 1.181431404 1.283950324 1.3059133 1 11.12940767 -9.276458345 0.839700097 0.988647066 1.236793306 0 0.116408168 0.333164327 0.390976341 0.054629186 0.012417748 5.29E-10 9.276458345 0.24814624 GS(ph)GFSLDVIDGPISQR ddPTM_HeLa_SAHA_4h_R1 1 GSGFSLDVIDGPISQR 16 0 O43166-3;O43166-2;O43166 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 GS(1)GFSLDVIDGPISQR 220.27 8.94E-21 4754800 396.16 868.37 640.48 780.24 518.56 796.49 847.36 647.96 880.37 589.69 TRUE FALSE FALSE 437.8299264 896.5057578 727.7612789 795.3426734 478.8280448 728.6245711 752.0128227 631.3861214 874.2434335 615.1144218 0.711786151 1.457461776 1.183131549 1.292999555 0.778437357 1.184535015 1.222557619 1.026453127 1.421269609 1 9.264710991 -7.280670104 24.98520328 0.863899019 1.157630372 0 0.250426055 675.7818235 877996.4416 0.032684725 0.037406567 5.24E-08 7.280670104 0.293731354 GS(ph)GGGGGGGGQGSTNYGK ddPTM_HeLa_SAHA_4h_R1 1 GSGGGGGGGGQGSTNYGK 18 0 Q99729-3;Q99729-4 Q99729-3 HNRNPAB Heterogeneous nuclear ribonucleoprotein A/B 1 0 GS(0.994)GGGGGGGGQGS(0.003)T(0.003)NYGK 62.916 0.020951 1514300 164.09 260.72 169.11 250 329.2 206.57 267.08 215.52 62.837 170.91 TRUE FALSE FALSE 181.3497391 269.1674991 192.1554301 254.8391115 303.9767671 188.9690739 237.0274555 210.0073105 62.3997122 178.2787665 1.017225678 1.509812438 1.077836884 1.429441747 1.705064339 1.059963997 1.329532732 1.177971525 0.350012026 1 7.477991074 -7.290262648 21.26201762 1.008134133 1.325796481 0.374215731 0.278520899 79.95775778 58981.91623 0.0301625 0.034499724 5.13E-08 7.290262648 0.317662348 GS(ph)GGLFSPSTAHVPDGALGQR ddPTM_HeLa_SAHA_4h_R1 1 GSGGLFSPSTAHVPDGALGQR 21 0 Q9C0C2;Q9C0C2-2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 GS(0.999)GGLFS(0.001)PSTAHVPDGALGQR 82.367 0.0015973 0 0 80.111 0 0 0 238.43 224.4 322.9 177.55 75.356 TRUE FALSE FALSE 0 82.70664896 0 0 0 218.1144226 199.1499214 314.6406856 176.3144151 78.60496594 0 1.052180966 0 0 0 2.774817342 2.533553943 4.00280926 2.243044227 1 6.296548554 -5.192882409 4.919651395 0.446527314 3.110794051 0.686167319 0.767421045 0.067362972 3.166266045 0.081362743 0.212999655 6.41E-06 5.192882409 2.664266737 GS(ph)GVFCANCLTTK ddPTM_HeLa_SAHA_4h_R1 1 GSGVFCANCLTTK 13 0 Q9UHF7;Q9UHF7-3;Q9UHF7-2;E5RFF3;H0YAV4 Q9UHF7 TRPS1 Zinc finger transcription factor Trps1 1 0 GS(1)GVFCANCLTTK 101.36 0.0048643 2281300 381.55 352.65 301.82 517.2 505.1 461.4 393.34 250.92 332.94 276.01 TRUE FALSE FALSE 421.6831796 364.0760914 342.9504578 527.2111539 466.3993471 422.0861242 349.080348 244.5018297 330.6230434 287.9101419 1.464634684 1.264547643 1.191171855 1.831165622 1.619947613 1.466034234 1.212462839 0.849229653 1.148354974 1 8.1694748 -9.357124804 0.903985099 0.981911672 1.382952122 0.156768754 0.255786098 0.799821768 1.08295592 0.225354128 0.04908927 4.39E-10 9.357124804 0.40104045 GS(ph)LASLDSLR ddPTM_HeLa_SAHA_4h_R1 1 GSLASLDSLR 10 0 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-8;O60716-9;O60716-17;O60716-7;O60716-4;O60716-6;A0A669KB62;O60716-11;O60716-13;O60716-19;O60716-21;O60716-20;O60716-22;O60716-23;O60716-14;O60716-24;O60716-16;O60716-15;O60716-12;O60716-25;O60716-26;O60716-27;O60716-29;O60716-32;O60716-28;O60716-31;O60716-30;E9PKY0 O60716 CTNND1 Catenin delta-1 1 0 GS(1)LASLDSLR 131.12 0.0015425 2644100 846.66 1071.2 1034.3 1351 1197.6 1116.4 1171.3 1314.4 1364.6 845.8 TRUE FALSE FALSE 935.7155834 1105.907583 1175.249018 1377.150559 1105.840147 1021.276439 1039.502241 1280.779551 1355.103637 882.2665772 1.06058147 1.253484617 1.332079269 1.560923415 1.253408182 1.157559932 1.178217863 1.451692248 1.535934458 1 9.785070822 -7.233767655 2.570225252 1.024700151 1.315576533 0 0.197233263 0.155672447 1.981405641 0.020913515 0.025043056 5.84E-08 7.233767655 0.290876382 GS(ph)LDESSLGFGYPK ddPTM_HeLa_SAHA_4h_R1 2 GSLDESSLGFGYPK 14 0 Q2KJU6;Q9BUZ4 Q2KJU6 TRAF4 TNF receptor-associated factor 4 1 0 GS(0.977)LDES(0.011)S(0.011)LGFGYPK;GS(0.997)LDES(0.003)SLGFGYPK ; 265.12 1.31E-46 29275000 3695.94 4244.75 3043.27 3722.57 4338.97 4525.83 4508.6 3034.43 4271.91 3585.86 TRUE FALSE FALSE 4084.695927 4382.282685 3457.990987 3794.625725 4006.519056 4140.203822 4001.280462 2956.813674 4242.18143 3740.463973 1.092029212 1.171587995 0.924481832 1.014479956 1.071128899 1.106869055 1.069728379 0.790493825 1.134132413 1 11.86900152 -4.258810781 24.71309189 1.0503317 0.790493716 0.582929577 0.068648655 114.8028925 1079258.063 0.009174953 0.083820413 5.51E-05 4.258810781 -0.259837984 GS(ph)LKS(ph)ES(ph)L ddPTM_HeLa_SAHA_4h_R1 1 GSLKSESL 8 1 K7ERA6 K7ERA6 ATP6V0A1 V-type proton ATPase subunit a 3 0 GS(1)LKS(1)ES(1)L 82.749 0.0041568 0 0 0 0 0 0 127.71 0 127.95 0 165.36 TRUE FALSE FALSE 0 0 0 0 0 116.8283895 0 124.6772243 0 172.4894789 0 0 0 0 0 0.677307337 0 0.722810603 0 1 7.430364556 -9.281930954 0.974587566 1.007346087 0.155867392 0 0.408155406 0.315531546 0.530080817 0.188911314 0.049330717 5.22E-10 9.281930954 -0.851478695 GS(ph)LVS(ph)WR ddPTM_HeLa_SAHA_4h_R1 1 GSLVSWR 7 0 K7EKC4;K7ENL8;K7EQY5;P42679 K7EKC4 MATK Non-specific protein-tyrosine kinase;Megakaryocyte-associated tyrosine-protein kinase 2 0 GS(1)LVS(1)WR 79.474 0.01304 2691900 0 0 0 127.24 139.55 162.08 187.14 207.14 326.64 0 TRUE FALSE FALSE 0 0 0 129.7029142 128.8577091 148.2698722 166.0825147 201.8416587 324.3668856 0 0 GS(ph)PATSPHLGR ddPTM_HeLa_SAHA_4h_R1 2 GSPATSPHLGR 11 0 E9PNR2;Q13671-2;Q13671 E9PNR2 RIN1 Ras and Rab interactor 1 1 0 GS(0.999)PAT(0.001)SPHLGR;GS(0.995)PAT(0.005)SPHLGR ; 91.307 0.011122 5067800 598.65 1432.24 624.1 706.57 1485.42 1591.92 1016.49 1317.68 1565.26 1231.51 TRUE FALSE FALSE 661.6187537 1478.645516 709.1490978 720.2466841 1371.607441 1456.27946 902.1118699 1283.975654 1554.367228 1284.606423 0.515036156 1.151049449 0.552036083 0.560674983 1.067725815 1.133638626 0.702247672 0.999508978 1.209994906 1 10.3271107 -5.741355494 24.99314214 0.765937838 0.967517811 0.035006739 0.256934 395.5177806 492194.5384 0.035898538 0.071724764 1.81E-06 5.741355494 0.201579973 GS(ph)PDGSLQTGKPSAPK ddPTM_HeLa_SAHA_4h_R1 1 GSPDGSLQTGKPSAPK 16 1 E7EV54;C9JFV4;Q8IZL8 E7EV54 PELP1 "Proline-, glutamic acid- and leucine-rich protein 1" 1 0 GS(0.497)PDGS(0.497)LQT(0.005)GKPSAPK 76.358 0.0091257 35203000 3067.2 3641.5 2710.4 3586.4 4248.4 4824.8 4041.3 3968 4729.1 3717.4 TRUE FALSE FALSE 3389.822169 3759.486989 3079.759197 3655.819958 3922.88851 4413.699896 3586.562288 3866.504306 4696.189808 3877.675307 0.874189276 0.969520832 0.79422823 0.942786507 1.011659873 1.13823349 0.924925891 0.99711915 1.211083816 1 11.92097629 -5.772527689 5.258903116 0.929288105 1.020558367 0 0.114428193 0.204340725 16.24472104 0.011634711 0.02229955 1.69E-06 5.772527689 0.091270262 GS(ph)PDGSLQTGKPSAPKK ddPTM_HeLa_SAHA_4h_R1 1 GSPDGSLQTGKPSAPKK 17 2 E7EV54;C9JFV4;Q8IZL8 E7EV54 PELP1 "Proline-, glutamic acid- and leucine-rich protein 1" 1 0 GS(0.981)PDGS(0.019)LQTGKPSAPKK 92.492 0.0031094 4560300 650.17 618.25 656.64 847.65 931.65 956.49 888.64 718.67 952.01 949.27 TRUE FALSE FALSE 718.5578637 638.2817056 746.1234796 864.0574915 860.2671783 874.9916709 788.6478884 700.287462 945.3848849 990.1976753 0.725671128 0.644600287 0.753509626 0.872611109 0.868783274 0.88365353 0.796454999 0.707219861 0.954743592 1 9.951572752 -9.3411727 1.090985514 0.998714024 0.782408929 0.518207362 0.075114358 0.341006961 0.732990507 0.05534439 0.014869055 4.56E-10 9.3411727 -0.216305095 GS(ph)PEEELPLPAFEK ddPTM_HeLa_SAHA_4h_R1 4 GSPEEELPLPAFEK 14 0 Q5JTD0-4;Q5JTD0-2;Q5JTD0 Q5JTD0-4 TJAP1 Tight junction-associated protein 1 1 0 GS(1)PEEELPLPAFEK;GS(1)PEEELPLPAFEK;GS(1)PEEELPLPAFEK;GS(1)PEEELPLPAFEK ;;; 209.56 8.95E-13 96571400 4783.51 5874.84 4731.49 5312.7 6041.29 6526.09 6139.6 5674.45 6496.45 4922.03 TRUE FALSE FALSE 5286.661529 6065.188671 5376.272817 5415.534991 5578.407665 5970.030417 5448.756049 5529.305786 6451.240676 5134.242801 1.0296867 1.181320967 1.047140353 1.054787473 1.086510296 1.162786929 1.061257962 1.076946689 1.256512581 1 12.32593581 -7.486904227 16.34939189 1.013094343 1.094134418 0 0.087709517 5.217576755 2371.560162 0.007137306 0.007957169 3.26E-08 7.486904227 0.081040075 GS(ph)PGGYLGAK ddPTM_HeLa_SAHA_4h_R1 2 GSPGGYLGAK 10 0 O60551 O60551 NMT2 Glycylpeptide N-tetradecanoyltransferase 2 1 0 GS(1)PGGYLGAK;GS(1)PGGYLGAK ; 131.12 0.0015425 21304300 3477.6 3820.9 2975 4155.9 4106.5 4874.9 3772.1 3181.4 6104.5 3993 TRUE FALSE FALSE 3843.389924 3944.699667 3380.417507 4236.343454 3791.860857 4459.531095 3347.65338 3100.024395 6062.018287 4165.157771 0.922747741 0.947070887 0.811594108 1.017090753 0.910376285 1.070675192 0.803727869 0.744275383 1.455411444 1 12.02415543 -4.600437021 6.901675815 0.956381694 0.758720733 0.185548211 0.170958435 0.100228782 7.143872563 0.008883593 0.033963515 2.51E-05 4.600437021 -0.197660961 GS(ph)PHY(ph)FSPFRPY ddPTM_HeLa_SAHA_4h_R1 3 GSPHYFSPFRPY 12 1 Q13242 Q13242 SRSF9 Serine/arginine-rich splicing factor 9 2 0 GS(1)PHY(0.924)FS(0.076)PFRPY;GS(1)PHY(0.913)FS(0.087)PFRPY;GS(1)PHY(0.937)FS(0.063)PFRPY ;; 114.54 0.0082727 111302300 2538.16 2664.25 2840.61 3004.35 2847.8 3185.66 2935.89 2995.67 3391.45 3173.57 TRUE FALSE FALSE 2805.135314 2750.573448 3227.713538 3062.503539 2629.602179 2914.223846 2605.53593 2919.045099 3367.848623 3310.398134 0.847370981 0.830889016 0.975022764 0.92511638 0.7943462 0.880324278 0.787076305 0.881780674 1.017354556 1 11.69278902 -13.52287875 0.255996897 1.919552804 0.849030962 0.533963206 0.053685025 30.35056809 0.403394161 14.11077305 0.031421177 3.00E-14 13.52287875 -1.070521842 GS(ph)PHYFSPFRPY ddPTM_HeLa_SAHA_4h_R1 4 GSPHYFSPFRPY 12 1 Q13242 Q13242 SRSF9 Serine/arginine-rich splicing factor 9 1 0 GS(1)PHYFSPFRPY;GS(0.999)PHYFS(0.001)PFRPY;GS(0.997)PHY(0.003)FSPFRPY;GS(0.868)PHY(0.132)FS(0.001)PFRPY ;;; 120.55 0.0067148 46703600 2005.96 2338.67 2233.8 2422.35 3048.55 2606.97 3252.93 2231.59 1792.7 1944 TRUE FALSE FALSE 2216.956076 2414.444442 2538.210631 2469.238087 2814.970758 2384.84149 2886.901755 2174.509159 1780.224455 2027.815354 1.093273149 1.190662867 1.251697116 1.217683889 1.388179033 1.176064421 1.423651197 1.07234081 0.877902641 1 10.98571058 -7.316989569 0.908462296 1.024084416 1.271793997 0.555952698 0.105570732 0.250929734 0.416049746 0.019741795 0.022782754 4.82E-08 7.316989569 0.247709581 GS(ph)PLAEGPQAFFPER ddPTM_HeLa_SAHA_4h_R1 2 GSPLAEGPQAFFPER 15 0 Q8WUF5 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 GS(1)PLAEGPQAFFPER;GS(1)PLAEGPQAFFPER ; 189.59 5.95E-09 11729500 354.85 378.83 111.31 351.74 354.895 543.84 485.85 227.32 305.697 200.79 TRUE FALSE FALSE 392.1747511 391.1043406 126.4787471 358.5484363 327.7030218 497.5017724 431.1808793 221.5054836 303.5696297 209.4470395 1.872429192 1.867318542 0.603869825 1.711881138 1.564610426 2.375310597 2.058663041 1.057572759 1.449386109 1 7.710441682 -9.412423769 1.046017462 0.98528439 1.669021471 0.071976076 0.493173973 0.702868548 1.327880515 0.367016042 0.085267917 3.87E-10 9.412423769 0.683737081 GS(ph)PLNAAPYGIESMSQDTEVR ddPTM_HeLa_SAHA_4h_R1 1 GSPLNAAPYGIESMSQDTEVR 21 0 B4DSN5;P18031 B4DSN5 PTPN1 Tyrosine-protein phosphatase non-receptor type;Tyrosine-protein phosphatase non-receptor type 1 1 0 GS(1)PLNAAPYGIESMSQDTEVR 72.644 0.0039566 0 147.71 187.98 220.18 0 224.2 245.49 303.22 295.1 201.2 260.72 TRUE FALSE FALSE 163.2468155 194.0706753 250.1849838 0 207.0218444 224.5728709 269.1008876 287.5517693 199.7998328 271.9609151 0.60025837 0.71359767 0.919929923 0 0.761219105 0.825754211 0.989483682 1.057327554 0.734663776 1 8.087255519 -4.801660962 2.61658664 0.743975036 1.044309635 0.193973433 0.259348018 0.444683615 5.967520455 0.040542125 0.178933332 1.58E-05 4.801660962 0.300334599 GS(ph)PNTASAEATLPR ddPTM_HeLa_SAHA_4h_R1 2 GSPNTASAEATLPR 14 0 Q6PJG6-3;Q6PJG6 Q6PJG6-3 BRAT1 BRCA1-associated ATM activator 1 1 0 GS(1)PNTASAEATLPR;GS(1)PNTASAEATLPR ; 168.45 4.45E-06 74382000 854.46 811.23 654.99 728.24 911.47 923.47 825.31 793.4 676.02 769.24 TRUE FALSE FALSE 944.3360232 837.5143843 744.2486262 742.3361383 841.6333655 844.7851607 732.4439467 773.1059768 671.3155218 802.405701 1.176880999 1.043754279 0.927521608 0.925138166 1.04888757 1.052815502 0.912809999 0.96348515 0.836628555 1 9.648188046 -6.968280113 7.780895311 1.084923833 0.97485326 0 0.098779957 0.199485723 40.22695235 0.012899794 0.01690745 1.08E-07 6.968280113 -0.110070573 GS(ph)PPTSSNIVQGQIK ddPTM_HeLa_SAHA_4h_R1 2 GSPPTSSNIVQGQIK 15 0 A2RRE0;Q9Y4E6-2;Q9Y4E6 A2RRE0 WDR7 WD repeat-containing protein 7 1 0 GS(0.993)PPT(0.007)SSNIVQGQIK;GS(0.988)PPT(0.005)S(0.007)S(0.001)NIVQGQIK ; 193.32 2.81E-34 4555200 1101.4 1147.61 906.68 1368.2 1637.65 1524.08 1127.67 1322.66 1236.95 1138.37 TRUE FALSE FALSE 1217.250305 1184.793317 1030.237629 1394.683489 1512.173611 1394.21981 1000.781604 1288.828272 1228.341964 1187.450702 1.025095445 0.997762109 0.867604547 1.174519066 1.273462223 1.174128583 0.842798444 1.08537413 1.034436177 1 10.2136519 -6.23594988 24.98418009 1.001035896 1.107846471 0.230007393 0.112486786 1087.255783 1065701.286 0.017580053 0.029146254 5.81E-07 6.23594988 0.106810575 GS(ph)PQQIDHAK ddPTM_HeLa_SAHA_4h_R1 2 GSPQQIDHAK 10 0 A0A087WTP3;Q92945;M0R3J3 A0A087WTP3 KHSRP Far upstream element-binding protein 2 1 0 GS(1)PQQIDHAK;GS(1)PQQIDHAK ; 141.73 0.00082662 22059100 3743.35 3942.57 3437.32 3845 4272.32 5153.3 4864.44 4496.81 4864.7 4412 TRUE FALSE FALSE 4137.092728 4070.311855 3905.740069 3919.425535 3944.975765 4714.209848 4317.080409 4381.788112 4830.846157 4602.222912 0.898933582 0.884423013 0.848663818 0.851637483 0.857189198 1.024333227 0.93804244 0.952102537 1.0496767 1 12.16811515 -9.128791971 0.933073142 0.998869158 0.906107049 0.406934615 0.054330531 0.57531383 0.919111528 0.034726526 0.01058677 7.43E-10 9.128791971 -0.092762109 GS(ph)PSGGSTAEASDTLSIR ddPTM_HeLa_SAHA_4h_R1 4 GSPSGGSTAEASDTLSIR 18 0 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 GS(0.364)PS(0.168)GGS(0.167)T(0.248)AEAS(0.052)DTLSIR;GS(0.972)PS(0.028)GGSTAEASDTLSIR;GS(0.98)PS(0.02)GGSTAEASDTLSIR;GS(0.998)PS(0.002)GGSTAEASDTLSIR ;;; 322.37 1.77E-120 35607500 1597.89 1973.07 1676.27 1692.39 1970.11 2202.76 2188.81 2216.9 2734.19 2142.77 TRUE FALSE FALSE 1765.963402 2036.998763 1904.703346 1725.148656 1819.160597 2015.072456 1942.519338 2160.194908 2715.162549 2235.155301 0.790085325 0.911345517 0.852157049 0.771824962 0.813885548 0.90153577 0.869075781 0.966463005 1.214753421 1 11.12615936 -9.479840749 1.188049372 1.000985508 0.85118825 0.469851834 0.089755588 0.339076473 0.847193055 0.041978778 0.010004797 3.31E-10 9.479840749 -0.149797258 GS(ph)PSPAAPGPPAGPLPR ddPTM_HeLa_SAHA_4h_R1 2 GSPSPAAPGPPAGPLPR 17 0 Q6F5E8;Q6F5E8-2 Q6F5E8 RLTPR Leucine-rich repeat-containing protein 16C 1 0 GS(0.996)PS(0.004)PAAPGPPAGPLPR;GS(0.896)PS(0.104)PAAPGPPAGPLPR ; 168.93 1.35E-19 9188400 1002.7 957.03 1036.34 1246.39 1028.47 1060.88 1011.3 1266.12 1314.94 1077.44 TRUE FALSE FALSE 1108.168587 988.0383999 1177.567018 1270.515681 949.6688508 970.4870557 897.5058624 1233.734484 1305.789225 1123.893711 0.986008352 0.879120855 1.047756568 1.130458929 0.844981017 0.863504303 0.798568275 1.097732349 1.161844054 1 10.13428989 -5.720412981 24.99998204 0.996813496 0.891173586 0.225229787 0.107615784 166.8091807 101646.5718 0.012852509 0.025704791 1.90E-06 5.720412981 -0.10563991 GS(ph)PSPASVSSGR ddPTM_HeLa_SAHA_4h_R1 2 GSPSPASVSSGR 12 0 Q96II5;P10398 Q96II5 ARAF Serine/threonine-protein kinase A-Raf 1 0 GS(0.961)PS(0.037)PAS(0.001)VSS(0.002)GR;GS(0.996)PS(0.004)PASVSSGR ; 108.68 0.0033858 33677000 1762.75 2914.5 1850.4 2067.45 2618.4 2745.3 2254.34 2181.33 3250.3 2654.5 TRUE FALSE FALSE 1948.164133 3008.931712 2102.562876 2107.468484 2417.778758 2511.384995 2000.67573 2125.534737 3227.680898 2768.948486 0.703575434 1.086669444 0.75933622 0.76110787 0.873175781 0.90698148 0.722539888 0.76763246 1.165670259 1 11.4351225 -9.585736126 1.349870052 1.000782291 0.811594739 0.38261407 0.120822808 0.453187533 1.470950948 0.078394073 0.017922096 2.60E-10 9.585736126 -0.189187552 GS(ph)PTGGAQLLK ddPTM_HeLa_SAHA_4h_R1 2 GSPTGGAQLLK 11 0 Q14684-2;Q14684 Q14684-2 RRP1B Ribosomal RNA processing protein 1 homolog B 1 0 GS(0.997)PT(0.003)GGAQLLK;GS(0.999)PT(0.001)GGAQLLK ; 162.93 0.00017969 102416000 4807.5 5706.7 4686 6621.7 6436.9 6725.8 6488.1 5974.4 6442.6 5652.6 TRUE FALSE FALSE 5313.174908 5891.600824 5324.583676 6749.872579 5943.706113 6152.724002 5758.041912 5821.583499 6397.765422 5896.311249 0.901101499 0.999201123 0.903036399 1.144761919 1.008038053 1.043486977 0.976549858 0.987326356 1.085045404 1 12.52559697 -6.309922741 24.99999737 0.952857749 1.028254001 0.08503527 0.067503927 373.5415594 192612.4611 0.008835859 0.013497023 4.90E-07 6.309922741 0.075396252 GS(ph)PTSAYPER ddPTM_HeLa_SAHA_4h_R1 2 GSPTSAYPER 10 0 J3KPS2;A0A494C1T9;Q6ZRV2 J3KPS2 FAM83H Protein FAM83H 1 0 GS(0.994)PT(0.004)S(0.001)AYPER;GS(0.954)PT(0.035)S(0.011)AYPER ; 115.29 0.0040323 53744000 1905.25 2114.7 1614.27 1914.63 2193.9 2261.7 2125.5 1908.3 2300.9 1602.4 TRUE FALSE FALSE 2105.652937 2183.217668 1834.254309 1951.690432 2025.803856 2068.990436 1886.333146 1859.488449 2284.88785 1671.487306 1.259748087 1.306152706 1.097378546 1.167637005 1.211976812 1.237814029 1.128535729 1.112475364 1.366978882 1 10.70691668 -9.40340013 1.136789925 1.000297082 1.196037991 0 0.129571352 0.301196577 0.6978958 0.046199284 0.011825776 3.95E-10 9.40340013 0.195740909 GS(ph)PVFLPR ddPTM_HeLa_SAHA_4h_R1 2 GSPVFLPR 8 0 Q9NYV4-2;J3QSD7;Q9NYV4-3;Q9NYV4 Q9NYV4-2 CDK12 Cyclin-dependent kinase 12 1 0 GS(1)PVFLPR;GS(1)PVFLPR ; 133.13 0.0016134 14300000 3546 4202.8 3152.8 3786.2 4084.2 3824.7 4092.1 2745.6 3270.8 3182.1 TRUE FALSE FALSE 3918.98455 4338.973478 3582.447165 3859.487376 3771.269478 3498.814043 3631.646138 2675.371528 3248.038236 3319.295904 1.180667426 1.307196949 1.079279241 1.162742789 1.136165496 1.054083198 1.094101353 0.806005733 0.978532294 1 11.69666153 -4.244472423 3.809559758 1.109189715 0.769962995 0.507683596 0.089962913 0.202753929 5.487710963 0.013505733 0.195268895 5.70E-05 4.244472423 -0.33922672 GS(ph)SPGIQDTLEAEDGAFETDEAPEDR ddPTM_HeLa_SAHA_4h_R1 3 GSSPGIQDTLEAEDGAFETDEAPEDR 26 0 Q9UNX4 Q9UNX4 WDR3 WD repeat-containing protein 3 1 0 GS(0.818)S(0.181)PGIQDTLEAEDGAFETDEAPEDR;GS(0.5)S(0.5)PGIQDTLEAEDGAFETDEAPEDR;GS(0.5)S(0.5)PGIQDTLEAEDGAFETDEAPEDR ;; 159.42 4.27E-22 17643700 2530.06 2921.1 2673.41 2712.41 3168.9 3745.77 2634.07 2583.15 2623.019 3538.42 TRUE FALSE FALSE 2796.183319 3015.745557 3037.728392 2764.912618 2926.099567 3426.609323 2337.677511 2517.076763 2604.765197 3690.978603 0.757572346 0.817058531 0.82301436 0.749100148 0.792770666 0.928374204 0.633348974 0.681953767 0.70571127 1 11.84978766 -13.52287874 0.227512773 2.277165028 0.741322645 0 0.120176434 25.98709931 0.333446451 14.78056442 0.056996245 3.00E-14 13.52287874 -1.535842382 GS(ph)SPLGPAGLGAEEPAAGPQLPSWLQPER ddPTM_HeLa_SAHA_4h_R1 2 GSSPLGPAGLGAEEPAAGPQLPSWLQPER 29 0 H0YKL4;O43482 H0YKL4 OIP5 Protein yippee-like;Protein Mis18-beta 1 0 GS(0.5)S(0.5)PLGPAGLGAEEPAAGPQLPSWLQPER;GS(0.5)S(0.5)PLGPAGLGAEEPAAGPQLPSWLQPER ; 266.54 6.12E-85 13074700 1852.33 1938.27 1776.27 1781.45 2084.74 2000.97 1810.15 2223 2126.1 1575.19 TRUE FALSE FALSE 2047.166568 2001.07122 2018.330825 1815.932541 1925.007672 1830.476099 1606.467158 2166.138879 2111.304297 1643.10415 1.245914064 1.217860243 1.228364511 1.105184076 1.171567653 1.114035345 0.977702575 1.318321105 1.284948551 1 10.68220821 -9.47506379 1.231471618 1.000578912 1.173399169 0 0.124128654 0.419292232 1.143595814 0.060461339 0.015052679 3.35E-10 9.47506379 0.172820257 GS(ph)SPQNTTTPKPSVEGQQPAAAAACEPVDHAQSESILK ddPTM_HeLa_SAHA_4h_R1 1 GSSPQNTTTPKPSVEGQQPAAAAACEPVDHAQSESILK 38 1 Q27J81-2;Q27J81 Q27J81-2 INF2 Inverted formin-2 1 0 GS(0.335)S(0.305)PQNT(0.139)T(0.167)T(0.049)PKPS(0.006)VEGQQPAAAAACEPVDHAQSESILK 66.974 6.58E-06 8265000 457.63 659.39 441.27 708.94 953.49 1099.6 677.8 948.32 678.47 892.6 TRUE FALSE FALSE 505.7656231 680.7546686 501.4039776 722.6625588 880.4338022 1005.907894 601.5321601 924.0633476 673.748472 931.0843543 0.543200646 0.731141776 0.538516167 0.776151544 0.945600469 1.080361719 0.646055491 0.992459323 0.723617005 1 9.862768069 -5.827445531 6.49219092 0.753311877 0.90827944 0.249515938 0.161131194 0.367620917 28.05910099 0.030842751 0.056554838 1.49E-06 5.827445531 0.154967563 GS(ph)YGDLGGPIITTQVTIPK ddPTM_HeLa_SAHA_4h_R1 2 GSYGDLGGPIITTQVTIPK 19 0 P61978;P61978-2;P61978-3;Q5T6W2;S4R359 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 1 0 GS(1)YGDLGGPIITTQVTIPK;GS(1)YGDLGGPIITTQVTIPK ; 237.31 1.79E-33 30785000 5754.87 6734 5554.8 6945.8 7017.9 5088.9 7081.7 3017.75 6591.9 5720.9 TRUE FALSE FALSE 6360.193631 6952.186018 6311.779216 7080.246003 6480.190018 4655.297091 6284.848478 2940.560325 6546.026431 5967.555996 1.065795383 1.164997199 1.057682445 1.186456567 1.085903513 0.780101116 1.053169586 0.492757894 1.096935904 1 12.54292448 -3.986532397 1.460202236 1.049513414 4.70E-39 0.696342778 0.109501649 1.037423101 1.187324423 0.015283667 1.911134376 0.00010315 3.986532397 -1.049513414 AAVTPGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 AAVTPGKK 8 1 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 ; AAVTPGK(1)K;AAVTPGK(1)K 98.629 0.0051117 571450000 10934.7 12217.3 18530.6 32890.5 37476 40975 49343 42052 9008.9 8196.9 FALSE TRUE FALSE 12084.86192 12613.14854 21055.85366 33527.14319 34604.59698 37483.69948 43790.79578 40976.37073 8946.206331 8550.308474 1.413383149 1.475168829 2.462584096 3.921161826 4.047175267 4.383900253 5.121545721 4.792385077 1.046302172 1 13.06176075 -6.280415839 0.967020606 1.141888275 4.852880404 0.980046694 0.221149578 0.050233065 0.093019844 0.043243521 0.092066817 5.24E-07 6.280415839 3.710992129 up GSAPHSESDLPEQEEEILGS(ph)DDDEQEDPNDYCK ddPTM_HeLa_SAHA_4h_R1 2 GSAPHSESDLPEQEEEILGSDDDEQEDPNDYCK 33 0 H3BLV9;Q96SB4-4;Q96SB4;Q96SB4-3;D6RBM8 H3BLV9 SRPK1 SRSF protein kinase 1 1 0 GSAPHSESDLPEQEEEILGS(1)DDDEQEDPNDYCK;GSAPHSESDLPEQEEEILGS(1)DDDEQEDPNDYCK ; 139.31 1.34E-19 24519000 2762.76 2888.3 1898.22 3134.32 3316.7 4184.7 3328.43 3655.1 3033.75 2996.69 TRUE FALSE FALSE 3053.359773 2981.882815 2156.899536 3194.989296 3062.575163 3828.140018 2953.906296 3561.607835 3012.637887 3125.891971 0.97679632 0.95393022 0.690010901 1.022104834 0.979744403 1.224655251 0.944980288 1.13938929 0.963769034 1 11.61005221 -5.487131072 24.02283935 0.964525219 1.089704595 0.295009249 0.110372443 441.7165507 296837.6151 0.015496472 0.034635008 3.26E-06 5.487131072 0.125179376 GSDALS(ph)ETSSVSHIEDLEK ddPTM_HeLa_SAHA_4h_R1 1 GSDALSETSSVSHIEDLEK 19 0 H3BND4;Q6P996-3;Q6P996-4;Q6P996-5;Q6P996 H3BND4 PDXDC1 Pyridoxal-dependent decarboxylase domain-containing protein 1 1 0 GS(0.042)DALS(0.528)ET(0.133)S(0.051)S(0.245)VS(0.001)HIEDLEK 88.555 0.0019486 4342600 702.3 1251.9 589.28 934.29 1267.2 1780.6 1275.7 1039.4 1322 1194.8 TRUE FALSE FALSE 776.1711363 1292.462381 669.5840096 952.374534 1170.10741 1628.882863 1132.154879 1012.813653 1312.800094 1246.313675 0.622773505 1.037028163 0.537251595 0.764153161 0.938854666 1.306960595 0.908402837 0.812647468 1.053346457 1 10.2834515 -5.578074306 6.097051899 0.809239822 1.018773462 0.126295288 0.199159417 0.257547188 20.19958273 0.029969562 0.060762991 2.64E-06 5.578074306 0.20953364 GSDALSET(ph)SSVSHIEDLEK ddPTM_HeLa_SAHA_4h_R1 1 GSDALSETSSVSHIEDLEK 19 0 H3BND4;Q6P996-3;Q6P996-4;Q6P996-5;Q6P996 H3BND4 PDXDC1 Pyridoxal-dependent decarboxylase domain-containing protein 1 1 0 GS(0.004)DALS(0.282)ET(0.694)S(0.018)S(0.002)VSHIEDLEK 128.95 0.00012536 10431000 1357 2082.2 1060.7 1690.2 2699.6 3932.1 2393.5 2136.6 2667.5 2001.6 TRUE FALSE FALSE 1499.735486 2149.664646 1205.246672 1722.916265 2492.757231 3597.062959 2124.177081 2081.948866 2648.93665 2087.898772 0.718298946 1.029582792 0.577253404 0.825191474 1.193907131 1.722814826 1.017375511 0.99715029 1.268709329 1 11.02783605 -5.718186084 5.692452791 0.850519854 1.257487262 0.268128202 0.258043383 0.145342664 11.18709588 0.033517125 0.066880359 1.91E-06 5.718186084 0.406967408 GSDALSETS(ph)SVSHIEDLEK ddPTM_HeLa_SAHA_4h_R1 1 GSDALSETSSVSHIEDLEK 19 0 H3BND4;Q6P996-3;Q6P996-4;Q6P996-5;Q6P996 H3BND4 PDXDC1 Pyridoxal-dependent decarboxylase domain-containing protein 1 1 0 GSDALSETS(0.589)S(0.41)VS(0.001)HIEDLEK 140.73 7.35E-05 7714700 1622.7 2435.4 1681 2201 2742.4 3234 2587.1 2207.3 2405 2300 TRUE FALSE FALSE 1793.383031 2514.308558 1910.077926 2243.603538 2532.277904 2958.445006 2295.992699 2150.840462 2388.263409 2399.164256 0.74750323 1.047993505 0.796143041 0.935160455 1.055483341 1.233114823 0.956996876 0.89649571 0.995456398 1 11.22831622 -5.881925929 4.434355168 0.886432184 1.043472271 0.156636146 0.119934171 0.246690885 8.449471675 0.019704166 0.036685378 1.31E-06 5.881925929 0.157040088 GSDASWKNDQEPPPEALDFS(ph)DDEKEK ddPTM_HeLa_SAHA_4h_R1 2 GSDASWKNDQEPPPEALDFSDDEKEK 26 2 Q96HR8-2;Q96HR8 Q96HR8-2 NAF1 H/ACA ribonucleoprotein complex non-core subunit NAF1 1 0 GSDASWKNDQEPPPEALDFS(1)DDEKEK;GSDASWKNDQEPPPEALDFS(1)DDEKEK ; 124.09 2.29E-08 70099000 9423.1 7836.7 9091.6 9660.5 9559.1 9820.6 10802.8 10881.9 6664.6 9831.4 TRUE FALSE FALSE 10414.26489 8090.614222 10330.5559 9847.492947 8826.683823 8983.829631 9587.240513 10603.55675 6618.220506 10255.27977 1.015502758 0.788921844 1.007340232 0.960236402 0.860696541 0.876019946 0.934858993 1.033960749 0.645347631 1 13.32407923 GSDDAPYS(ph)PTAR ddPTM_HeLa_SAHA_4h_R1 1 GSDDAPYSPTAR 12 0 O75151;E7ET14;A0A087WW48 O75151 PHF2 Lysine-specific demethylase PHF2 1 0 GSDDAPYS(0.997)PT(0.003)AR 161.25 0.00015333 6668000 2198.5 2178.3 1683.4 1996.1 2137.2 2309.6 2172.3 2420.7 2251.7 2074.7 TRUE FALSE FALSE 2429.748317 2248.878349 1912.804985 2034.737402 1973.448198 2112.809087 1927.867087 2358.781999 2236.030236 2164.15047 1.122726146 1.039150641 0.883859515 0.940201446 0.911881232 0.976276426 0.890819337 1.089934379 1.033213849 1 11.0795851 -6.895429262 6.996438768 1.059093821 0.945664621 0.385550776 0.061644868 0.169452025 10.1533905 0.01077726 0.014198453 1.27E-07 6.895429262 -0.113429201 GSDFDCELR ddPTM_HeLa_SAHA_4h_R1 4 GSDFDCELR 9 0 P61978;P61978-2;P61978-3;Q5T6W2 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 ;;; ;;; 199.7 9.45E-10 230844000 12151.3 11557 10538.7 12589.5 12691.8 12892.2 13790.3 12113 12376.3 11293.9 FALSE FALSE TRUE 13429.42949 11931.45438 11974.85915 12833.18798 11719.35703 11793.71203 12238.57915 11803.167 12290.17232 11780.8353 1.13993865 1.012785094 1.016469448 1.08932751 0.994781501 1.001093024 1.038854957 1.001895596 1.043234372 1 13.52415421 -5.752220661 24.99634096 1.060497842 1.010701655 0.171703004 0.040658272 297.1052548 805587.0754 0.008240929 0.016307438 1.77E-06 5.752220661 -0.049796187 GSDGEDS(ph)ASGGKTPAPGPEAASGEWELLR ddPTM_HeLa_SAHA_4h_R1 1 GSDGEDSASGGKTPAPGPEAASGEWELLR 29 1 Q14674-2;Q14674 Q14674-2 ESPL1 Separin 1 0 GS(0.054)DGEDS(0.444)AS(0.444)GGKT(0.059)PAPGPEAASGEWELLR 54.419 0.0055974 6456300 427.23 354.42 322.23 246.25 388.25 300.54 448.71 202.09 302.34 261.3 TRUE FALSE FALSE 472.1680116 365.9034405 366.1418263 251.0165248 358.5023689 274.9323012 398.2199699 196.9208304 300.2359913 272.5659218 1.732307577 1.342440163 1.343314762 0.92093877 1.315286836 1.008681861 1.461004249 0.722470473 1.101516981 1 8.090461387 -6.382359286 9.562452746 1.354597607 1.115142685 0.127884974 0.263731237 0.623448889 46.41048946 0.048756867 0.07449639 4.15E-07 6.382359286 -0.239454922 GSDIDNPTLTVMDISPPS(ph)RSPR ddPTM_HeLa_SAHA_4h_R1 1 GSDIDNPTLTVMDISPPSRSPR 22 1 Q9Y2U5 Q9Y2U5 MAP3K2 Mitogen-activated protein kinase kinase kinase 2 1 0 GSDIDNPTLTVMDIS(0.142)PPS(0.716)RS(0.142)PR 123.62 8.21E-06 14721000 1426 1476.7 1534.9 1503.8 1707.5 1735.8 1588.2 1689.5 1373.9 1481.9 TRUE FALSE FALSE 1575.993223 1524.546049 1744.068179 1532.908224 1576.671719 1587.900075 1409.491556 1646.285036 1364.338918 1545.791961 1.019537727 0.986255646 1.128268371 0.991665284 1.019976658 1.027240479 0.911824871 1.065010737 0.882614836 1 10.59413045 GSDIDNPTLTVMDISPPSRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 GSDIDNPTLTVMDISPPSRSPR 22 1 Q9Y2U5 Q9Y2U5 MAP3K2 Mitogen-activated protein kinase kinase kinase 2 1 0 GSDIDNPTLTVMDIS(0.006)PPS(0.069)RS(0.925)PR 137.31 1.87E-06 15283000 2367.5 2344.8 2438.2 2200.7 2435.3 2732.4 2324.1 2057.7 2196.2 2128.2 TRUE FALSE FALSE 2616.524512 2420.773058 2770.465198 2243.297731 2248.70784 2499.584148 2062.586151 2005.067014 2180.916465 2219.957117 1.178637413 1.090459379 1.247981403 1.010513993 1.012951026 1.125960555 0.929110808 0.903200786 0.982413781 1 11.11631609 -4.725776864 7.899064609 1.090008592 0.914464365 0.392751308 0.081461667 0.175312908 32.10243168 0.012105576 0.044846811 1.88E-05 4.725776864 -0.175544228 GSDS(ph)DSEGDNPEK ddPTM_HeLa_SAHA_4h_R1 1 GSDSDSEGDNPEK 13 0 I3L4J1;Q9UN37 I3L4J1 VPS4A Vacuolar protein sorting-associated protein 4A 1 0 GS(0.114)DS(0.782)DS(0.105)EGDNPEK 162.48 5.25E-05 8897500 446.81 1086.4 610.45 909.79 1208.5 1915.6 1120.5 995.77 1460 1708.5 TRUE FALSE FALSE 493.8075258 1121.600073 693.6389469 927.400301 1115.904991 1752.380103 994.418391 970.2996453 1449.839741 1782.161796 0.277083443 0.629348062 0.389212107 0.520379408 0.626152459 0.983289007 0.55798435 0.544450929 0.813528684 1 10.7994126 -9.571843194 1.36607295 0.99880466 0.536926937 0.336256042 0.182590234 0.328311112 1.102840218 0.138056749 0.032708829 2.68E-10 9.571843194 -0.461877723 GSDS(ph)EDEVLR ddPTM_HeLa_SAHA_4h_R1 1 GSDSEDEVLR 10 0 Q8WVC0-2;Q8WVC0 Q8WVC0-2 LEO1 RNA polymerase-associated protein LEO1 1 0 GS(0.076)DS(0.924)EDEVLR 109.72 0.0057431 7083300 1383.1 1822.5 1694.7 1768.3 1662.6 1866.4 2073.9 1932.4 1803.8 1803.6 TRUE FALSE FALSE 1528.580804 1881.550196 1925.64489 1802.528004 1535.211947 1707.37222 1840.539314 1882.972006 1791.247209 1881.362023 0.812486266 1.00010002 1.023537664 0.958097369 0.816010916 0.907519233 0.978301513 1.000855754 0.95210129 1 10.87756177 GSEEDPLLS(ph)PVETWK ddPTM_HeLa_SAHA_4h_R1 1 GSEEDPLLSPVETWK 15 0 H0YK04;Q13017-2;Q13017;A0A0A0MSK6 H0YK04 ARHGAP5 Rho GTPase-activating protein 5 1 0 GSEEDPLLS(1)PVETWK 120.21 0.0008095 2838800 1103.3 1618.1 1047.3 1330.8 1613 1832.8 1633.3 1263.1 1641.7 1542.3 TRUE FALSE FALSE 1219.350156 1670.527502 1190.02059 1356.559558 1489.412288 1676.635129 1449.516785 1230.791731 1630.275276 1608.796101 0.757927096 1.038371178 0.739696341 0.843214101 0.925793075 1.042167574 0.900994716 0.765038982 1.013351086 1 10.65176577 -4.259615373 21.78599482 0.895044021 0.765038721 0.125434466 0.106677807 50.43715622 602072.1805 0.015828807 0.13437974 5.50E-05 4.259615373 -0.1300053 GSEGDCS(ph)PEDKNSVTAK ddPTM_HeLa_SAHA_4h_R1 4 GSEGDCSPEDKNSVTAK 17 1 Q9UKJ3-2;Q9UKJ3 Q9UKJ3-2 GPATCH8 G patch domain-containing protein 8 1 0 GS(0.003)EGDCS(0.995)PEDKNS(0.002)VTAK;GS(0.001)EGDCS(0.943)PEDKNS(0.056)VTAK;GS(0.037)EGDCS(0.956)PEDKNS(0.007)VTAK;GS(0.048)EGDCS(0.951)PEDKNS(0.001)VTAK ;;; 142.76 0.00055045 83770100 10255.1 9152.6 9598 10027.1 10431.7 11025.6 10224.8 10745.7 9204.1 8853.1 TRUE FALSE FALSE 11333.77847 9449.150245 10905.96546 10221.18902 9632.4254 10086.15685 9074.278594 10470.84055 9140.047919 9234.800467 1.227290022 1.023211089 1.180963844 1.106812113 1.043057231 1.092190014 0.982617722 1.13384589 0.989739621 1 13.17286507 -5.777189845 21.3672878 1.108924134 1.059281489 0 0.080872856 102.9285334 139635.3784 0.013751855 0.025028534 1.67E-06 5.777189845 -0.049642644 GSEGSQSPGS(ph)SVDDAEDDPSR ddPTM_HeLa_SAHA_4h_R1 1 GSEGSQSPGSSVDDAEDDPSR 21 0 Q8IX07 Q8IX07 ZFPM1 Zinc finger protein ZFPM1 1 0 GSEGS(0.001)QS(0.28)PGS(0.56)S(0.159)VDDAEDDPSR 167.89 1.08E-07 4599600 343.5 393.33 407.26 498.91 558.05 513.58 522.76 682.48 418.35 285.87 TRUE FALSE FALSE 379.630906 406.0741501 462.7592719 508.5671245 515.2923296 469.8200947 463.937669 665.0231498 415.4386683 298.1952547 1.273095061 1.361772676 1.551866653 1.705483627 1.728036652 1.575545175 1.555818416 2.230160069 1.393176658 1 8.220113489 -1 0.102931029 0.616962948 4.620426154 0.597300692 0.196292891 35.36215757 0.258257564 1.125578805 20.11046246 0.1 1 4.003463205 GSEGYLAATYPTVGQT(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 GSEGYLAATYPTVGQTSPR 19 0 H0Y465;P21359-2;P21359-6;P21359;J3QSG6 H0Y465 NF1 Neurofibromin;Neurofibromin truncated 1 0 GSEGYLAATYPT(0.001)VGQT(0.952)S(0.047)PR 125.61 0.00036142 6278000 2292.5 2527.5 2198.4 2025.8 2467.4 2480.4 2409.3 2739.6 2119.3 2264.4 TRUE FALSE FALSE 2533.635668 2609.392658 2497.986503 2065.012288 2278.348345 2269.055966 2138.199223 2669.524999 2104.551619 2362.029366 1.072652061 1.104724901 1.057559461 0.874253436 0.964572405 0.960638339 0.905238205 1.130182816 0.890992995 1 11.20581119 -6.318771377 24.99969748 1.04316627 0.963061022 0.089375641 0.08309886 293.566356 128009.4721 0.010396033 0.015880206 4.80E-07 6.318771377 -0.080105248 GSEGYLAATYPTVGQTS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 GSEGYLAATYPTVGQTSPR 19 0 H0Y465;P21359-2;P21359-6;P21359;J3QSG6 H0Y465 NF1 Neurofibromin;Neurofibromin truncated 1 0 GSEGYLAATYPTVGQT(0.023)S(0.977)PR;GSEGYLAATYPTVGQT(0.014)S(0.986)PR;GSEGYLAATYPT(0.002)VGQT(0.114)S(0.884)PR ;; 256.89 9.88E-52 142271600 7850.3 8607 7645.5 7518.3 8924.4 9119.7 8346.7 8445.1 7296.5 8212 TRUE FALSE FALSE 8676.030572 8885.872447 8687.388924 7663.827568 8240.6144 8342.650254 7407.507349 8229.08657 7245.723062 8566.059509 1.012837999 1.037334896 1.014163971 0.894673631 0.962007606 0.97391925 0.864750863 0.960661849 0.845864199 1 13.06441598 -6.276837844 24.905281 1.009611718 0.931595407 0.066891815 0.060907981 385.0430476 622762.8143 0.004708029 0.007209222 5.29E-07 6.276837844 -0.078016311 GSES(ph)PEMGPEVTPAPR ddPTM_HeLa_SAHA_4h_R1 1 GSESPEMGPEVTPAPR 16 0 A0A0A0MSQ2;H0Y4B4;F8W689;P48382-2;P48382 A0A0A0MSQ2 RFX5 DNA-binding protein RFX5 1 0 GS(0.089)ES(0.911)PEMGPEVTPAPR 103.6 0.0028558 14172000 2277.9 2650.6 2213.5 2386.8 2616 2856.5 2761.5 2688 2794.6 2520.9 TRUE FALSE FALSE 2517.499973 2736.481179 2515.144253 2432.999965 2415.562645 2613.11013 2450.768752 2619.244852 2775.152151 2629.588336 0.957374179 1.040650029 0.956478327 0.925239868 0.91860867 0.993733541 0.931997119 0.996066501 1.055356123 1 11.36062125 -6.551753996 24.99914098 0.984566993 0.951149689 0.257325488 0.038809789 256.1078213 221727.7247 0.005086385 0.007193291 2.81E-07 6.551753996 -0.033417304 GSET(ph)PGATPGSK ddPTM_HeLa_SAHA_4h_R1 4 GSETPGATPGSK 12 0 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 GSET(1)PGATPGSK;GSET(1)PGATPGSK;GS(0.002)ET(0.998)PGATPGSK;GS(0.001)ET(0.999)PGATPGSK ;;; 208.51 1.16E-10 305314000 24916.9 23906.8 16893.8 24591.2 27105 29138 26814.1 27291.6 27030.8 26067.5 TRUE FALSE FALSE 27537.77386 24681.39601 19195.99908 25067.19824 25028.22076 26655.27847 23796.9069 26593.52039 26842.69046 27191.3975 1.012738454 0.907691339 0.705958533 0.921879732 0.920446283 0.980283506 0.87516307 0.97801227 0.987175833 1 14.73086268 -7.234383572 6.476315672 1.006065728 0.894772277 0.29133036 0.072266438 0.160958697 25.07365128 0.012092324 0.014641823 5.83E-08 7.234383572 -0.111293451 GSETDS(ph)AQDQPVK ddPTM_HeLa_SAHA_4h_R1 1 GSETDSAQDQPVK 13 0 K7EN42;B7Z8J4;P30419 K7EN42 NMT1 Glycylpeptide N-tetradecanoyltransferase 1 1 0 GSET(0.031)DS(0.969)AQDQPVK 138.73 0.00043758 8341000 1461.7 1429.6 1073.1 1613.8 1420.4 1505.7 1806.5 1607.3 1636.6 1684 TRUE FALSE FALSE 1615.448313 1475.919978 1219.33648 1645.037433 1311.569259 1377.405889 1603.227866 1566.187593 1625.210767 1756.605481 0.919642077 0.840211416 0.694143615 0.936486565 0.746649873 0.784129336 0.912685223 0.891598945 0.925199645 1 10.7785745 -7.609426115 1.491551139 0.974455607 0.827009566 0.348679712 0.073648963 0.240431668 1.091176546 0.015029477 0.015431998 2.46E-08 7.609426115 -0.147446042 GSFS(ph)DTGLGDGK ddPTM_HeLa_SAHA_4h_R1 1 GSFSDTGLGDGK 12 0 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 GS(0.041)FS(0.917)DT(0.041)GLGDGK 100.22 0.006418 4557600 1275.3 1208.5 1367.7 1303.3 1587 1870 1520.4 1615.4 1295.7 1357.6 TRUE FALSE FALSE 1409.441905 1247.656193 1554.083033 1328.527256 1465.404403 1710.66548 1349.320591 1574.080407 1286.683118 1416.13278 0.995275249 0.881030515 1.097413361 0.938137493 1.034793081 1.207983816 0.952820674 1.111534476 0.908589319 1 10.46774083 -5.520183946 24.97592218 0.992321457 1.084384539 0.284793982 0.081711438 107.2882671 994366.0897 0.010035513 0.020355881 3.02E-06 5.520183946 0.092063081 GSFSDT(ph)GLGDGK ddPTM_HeLa_SAHA_4h_R1 3 GSFSDTGLGDGK 12 0 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 GSFS(0.226)DT(0.774)GLGDGK;GSFS(0.082)DT(0.918)GLGDGK;GSFS(0.345)DT(0.655)GLGDGK ;; 160.18 0.0002847 242421000 7703.1 6942.7 6944 7318.2 8192 9483.1 8190.6 8511.6 7394.3 6357.9 TRUE FALSE FALSE 8513.347401 7167.648035 7890.292157 7459.854343 7564.33073 8675.08653 7268.972132 8293.885597 7342.842464 6632.020184 1.283673325 1.080763906 1.189726801 1.12482383 1.140577158 1.308060936 1.096041919 1.25058208 1.107180355 1 12.69523268 -9.528869511 1.265756897 0.999222755 1.191208323 0.264755933 0.079815535 0.31551967 0.899274563 0.052501298 0.012345013 2.96E-10 9.528869511 0.191985568 GSFSEQGINEFLR ddPTM_HeLa_SAHA_4h_R1 1 GSFSEQGINEFLR 13 0 Q15084-3;Q15084;Q15084-4;Q15084-5;Q15084-2 Q15084-3 PDIA6 Protein disulfide-isomerase A6 0 0 118.87 0.01062 0 139.29 170.02 65.551 141.58 63.752 203.91 257.13 0 0 115.49 FALSE FALSE TRUE 153.9411613 175.5287596 74.48394891 144.3204856 58.86733553 186.5357208 228.1970557 0 0 120.4693391 1.277845155 1.457040944 0.618281377 1.197985203 0.488649942 1.548408269 1.894233482 0 0 1 6.9125222 -6.792144077 24.99990441 1.15930823 1.016905934 0 0.634752919 879.7812464 716318.8927 0.079795082 0.104877969 1.61E-07 6.792144077 -0.142402296 GSGDISSDSIDHS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 1 GSGDISSDSIDHSPAK 16 0 Q5JSS2;H0Y306;Q9H5I1-3;Q9H5I1-2;Q9H5I1 Q5JSS2 SUV39H2 Histone-lysine N-methyltransferase SUV39H2 1 0 GSGDISSDS(0.001)IDHS(0.998)PAK 78.373 0.010844 6701900 833.67 1140.4 628.7 909.98 1273.1 1719.4 1009.8 1287.4 1255.2 1124 TRUE FALSE FALSE 921.3592356 1177.349708 714.3759619 927.5939788 1175.555353 1572.897447 896.1746464 1254.470172 1246.464961 1172.461141 0.785833495 1.004169492 0.609296067 0.791151149 1.002639075 1.341534821 0.764353389 1.069946055 1.063118357 1 10.19532439 -5.58476506 7.624615229 0.874955078 1.052495855 0.180970515 0.178941932 0.30149032 31.85475553 0.025149223 0.050512885 2.60E-06 5.58476506 0.177540777 GSGFPFLES(ph)ENEK ddPTM_HeLa_SAHA_4h_R1 2 GSGFPFLESENEK 13 0 E9PM59;Q9H5J8 E9PM59 TAF1D TATA box-binding protein-associated factor RNA polymerase I subunit D 1 0 GSGFPFLES(1)ENEK;GSGFPFLES(1)ENEK ; 144.8 0.00024497 5179500 1278.83 1699.29 1139.56 1250.3 1851.54 2441.88 1586.77 1605.54 2185.54 1258.13 TRUE FALSE FALSE 1413.343207 1754.348111 1294.853302 1274.501364 1709.675405 2233.818086 1408.222463 1564.472612 2170.330649 1312.374141 1.076936189 1.336774366 0.986649509 0.971141784 1.302734755 1.702119857 1.073034296 1.192093445 1.653743838 1 10.35796336 -5.711209756 7.943760057 1.054071411 1.328924465 0 0.260465088 0.215510928 29.6782979 0.025776487 0.051500991 1.94E-06 5.711209756 0.274853054 GSGGFGSTGK(ac)N ddPTM_HeLa_SAHA_4h_R1 2 GSGGFGSTGKN 11 1 P33316-2;A0A0C4DGL3;H0YNW5;P33316 P33316-2;H0YNW5;P33316 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 0 1 ; GSGGFGSTGK(1)N;GSGGFGSTGK(1)N 131.09 0.00033078 8010700 6518 6706.4 5711.2 8616.1 8331.9 10069.5 8157.8 11301.2 7511.7 5654.7 FALSE TRUE FALSE 7203.593146 6923.69176 6489.492593 8782.877075 7693.511622 9211.521951 7239.862874 11012.13167 7459.425468 5898.50179 1.22125811 1.173805147 1.100193375 1.489001341 1.304316231 1.561671468 1.227407083 1.866937073 1.264630534 1 12.52613284 -1 0.175153632 0.98456502 3.791351947 0.524702104 0.166008382 25.8574694 0.276408061 0.191435535 19.28137002 0.1 1 2.806786927 GSGGGGGGGGQGSTNYGK(ac)SQR ddPTM_HeLa_SAHA_4h_R1 2 GSGGGGGGGGQGSTNYGKSQR 21 1 Q99729-3;Q99729-4 Q99729-3 HNRNPAB Heterogeneous nuclear ribonucleoprotein A/B 0 1 ; GSGGGGGGGGQGSTNYGK(1)SQR;GSGGGGGGGGQGSTNYGK(1)SQR 364.14 2.54E-237 5139400 0 148.09 0 275.78 130.36 201.6 298.199 155.04 0 0 FALSE TRUE FALSE 0 152.8882132 0 281.1181207 120.371845 184.4225458 264.6448637 151.0743013 0 0 0 GSGGGGGGGGQGSTNYGKS(ph)QR ddPTM_HeLa_SAHA_4h_R1 2 GSGGGGGGGGQGSTNYGKSQR 21 1 Q99729-3;Q99729-4 Q99729-3 HNRNPAB Heterogeneous nuclear ribonucleoprotein A/B 1 0 GSGGGGGGGGQGSTNYGKS(1)QR;GSGGGGGGGGQGSTNYGKS(0.999)QR ; 124.91 1.26E-05 1732690 483.54 426.21 422.23 437.88 411.99 349.01 654.99 786.62 190.518 367.21 TRUE FALSE FALSE 534.4009558 440.0194836 479.7693055 446.3558006 380.4234152 319.2723845 581.2888014 766.4993994 189.1921697 383.0422202 1.395148962 1.148749304 1.2525233 1.165291388 0.993163143 0.833517476 1.517558041 2.001083325 0.493919886 1 8.581359609 -4.45627641 3.710995417 1.157744297 1.967615948 0.549493732 0.259860898 0.109769841 2.753321878 0.026418845 0.175434065 3.50E-05 4.45627641 0.809871651 GSGGGGGPQVPHQS(ph)PPKR ddPTM_HeLa_SAHA_4h_R1 1 GSGGGGGPQVPHQSPPKR 18 1 Q9NYF3;D6RHW3 Q9NYF3 FAM53C Protein FAM53C 1 0 GSGGGGGPQVPHQS(1)PPKR 64.538 0.011989 4650600 3480.6 3903.7 3438.3 4770.8 6066.8 6321 5771.1 4806.1 4106.3 3451.9 TRUE FALSE FALSE 3846.705478 4030.182441 3906.853618 4863.145733 5601.963095 5782.415239 5121.720639 4683.166921 4077.723924 3600.728302 1.068313173 1.119268688 1.08501761 1.35060058 1.555786115 1.605901571 1.422412415 1.300616578 1.132471984 1 11.81407303 -6.194788732 2.545375452 1.041009587 1.477417821 0.818190175 0.086783167 0.078984856 1.00298794 0.013624647 0.023691205 6.39E-07 6.194788732 0.436408234 GSGGLFSPS(ph)TAHVPDGALGQR ddPTM_HeLa_SAHA_4h_R1 2 GSGGLFSPSTAHVPDGALGQR 21 0 Q9C0C2;Q9C0C2-2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 GS(0.005)GGLFS(0.036)PS(0.741)T(0.219)AHVPDGALGQR;GS(0.029)GGLFS(0.059)PS(0.763)T(0.149)AHVPDGALGQR ; 156.83 5.33E-16 5143800 1233.78 1765.76 972.94 1514.48 2322.93 2494.98 1982.11 1630.34 1546.78 1946.89 TRUE FALSE FALSE 1363.554641 1822.971783 1105.527196 1543.79495 2144.947605 2282.393668 1759.077766 1588.638264 1536.015832 2030.829956 0.671427284 0.897648657 0.544372114 0.760179328 1.056192617 1.123872366 0.866186635 0.782260602 0.756348816 1 10.98785373 -4.254201756 21.41620083 0.853555186 0.782260425 0.015527354 0.168705677 641.8445236 1898817.462 0.026290231 0.325261452 5.57E-05 4.254201756 -0.071294761 GSGIFDEST(ph)PVQTR ddPTM_HeLa_SAHA_4h_R1 2 GSGIFDESTPVQTR 14 0 H3BU16;A6NGP5;Q9H910-2;Q9H910;Q9H910-3;H3BMT0;H3BTV5;H3BMV3 H3BU16 HN1L Hematological and neurological expressed 1-like protein 1 0 GSGIFDES(0.025)T(0.975)PVQTR;GSGIFDES(0.026)T(0.974)PVQTR ; 225.21 6.95E-24 61677000 3974.8 4014.4 3838.2 3900.9 4952.9 4150.3 4026 3703.6 4165.8 4212.4 TRUE FALSE FALSE 4392.887701 4144.469194 4361.249908 3976.40756 4573.409872 3796.671091 3572.983884 3608.867275 4136.809859 4394.017179 0.999742951 0.943207326 0.992542753 0.904959493 1.04082658 0.864054676 0.813147455 0.821313875 0.941464198 1 12.10132479 -5.107401425 4.395530101 0.989850217 0.821048773 0.737818017 0.038543122 0.066383259 2.115466817 0.004889081 0.013281036 7.81E-06 5.107401425 -0.168801444 GSGS(ph)PTHSLSQK ddPTM_HeLa_SAHA_4h_R1 3 GSGSPTHSLSQK 12 0 I3L156;Q9BSJ6;I3L419;Q9BSJ6-2;I3L2R2 I3L156 FAM64A Protein FAM64A 1 0 GS(0.019)GS(0.975)PT(0.006)HSLSQK;GSGS(0.997)PT(0.003)HSLSQK;GSGS(0.997)PT(0.003)HSLSQK ;; 198.74 2.98E-10 102860900 4940.3 5586.3 3629.53 5747.7 6469.3 8159.5 7380.7 7184.7 5347.1 5107.9 TRUE FALSE FALSE 5459.943421 5767.299785 4124.143447 5858.955045 5973.623632 7464.264696 6550.204211 7000.925777 5309.889096 5328.126566 1.024739813 1.082425448 0.77403256 1.099627603 1.121148974 1.400917302 1.229363479 1.313956358 0.996577133 1 12.37941264 -5.569593476 2.471109518 1.0023018 1.304971236 0.70310646 0.092188021 0.116195698 1.425451537 0.012730299 0.029667902 2.69E-06 5.569593476 0.302669436 GSGT(ph)ASDDEFENLR ddPTM_HeLa_SAHA_4h_R1 1 GSGTASDDEFENLR 14 0 Q7Z6Z7-2;Q7Z6Z7-3;Q7Z6Z7 Q7Z6Z7-2 HUWE1 E3 ubiquitin-protein ligase HUWE1 1 0 GS(0.008)GT(0.937)AS(0.055)DDEFENLR 185.66 4.14E-08 4363600 734.99 564.77 605.51 581.41 595.4 838.12 723.75 766.23 597.89 659.28 TRUE FALSE FALSE 812.2996205 583.0689186 688.0257494 592.6640313 549.7805806 766.7074609 642.3117452 746.6309461 593.7292348 687.7047872 1.181174881 0.847847695 1.000466715 0.861800066 0.799442713 1.114878761 0.933993419 1.085685253 0.863348992 1 9.425645578 -7.262533712 24.99815759 1.085554804 0.94780483 0 0.124549816 104.1885092 2379995.611 0.018875494 0.022233587 5.46E-08 7.262533712 -0.137749974 GSGTAEVELK ddPTM_HeLa_SAHA_4h_R1 4 GSGTAEVELK 10 0 P14618;P14618-3;P14618-2;H3BTN5;H3BQ34;H3BUW1;H3BTJ2;H3BT25 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;;; ;;; 169.41 3.46E-11 48025100 6229.35 6023.07 5195.16 6562.66 5747.9 7107.94 6194.45 5667.44 7027.3 5705.7 FALSE FALSE TRUE 6884.581614 6218.22142 5903.12935 6689.689774 5307.497144 6502.303524 5497.434183 5522.475091 6978.396447 5951.70065 1.156741916 1.044780607 0.991839089 1.123996344 0.89176144 1.092511856 0.92367451 0.927881864 1.17250461 1 12.53908625 -4.850648914 0.646858712 1.070452555 0.887084214 0.316865928 0.079477447 1.832555641 0.808466851 0.014849496 0.213819138 1.41E-05 4.850648914 -0.183368342 GSGTAEVELKK ddPTM_HeLa_SAHA_4h_R1 1 GSGTAEVELKK 11 1 P14618;P14618-3;P14618-2;H3BTN5;H3BQ34;H3BUW1;H3BTJ2;H3BT25 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 94.82 0.0067539 18982000 2711.3 2633.2 2522 3139.1 2826.9 3460.3 3126 3660.3 2669.5 2423.9 FALSE FALSE TRUE 2996.486974 2718.517408 2865.685026 3199.86182 2610.303533 3165.462973 2774.254253 3566.674826 2650.922732 2528.406191 1.185128791 1.07519014 1.133395827 1.265564778 1.032390896 1.251959825 1.097234401 1.410641549 1.048456036 1 11.30401254 -13.52287875 0.1065417 0.424667219 1.29980314 0.361521009 0.097280237 88.56850352 0.697121861 11.38256983 0.641569104 3.00E-14 13.52287875 0.875135921 GSGTAS(ph)DDEFENLR ddPTM_HeLa_SAHA_4h_R1 5 GSGTASDDEFENLR 14 0 Q7Z6Z7-2;Q7Z6Z7-3;Q7Z6Z7 Q7Z6Z7-2 HUWE1 E3 ubiquitin-protein ligase HUWE1 1 0 GSGT(0.065)AS(0.935)DDEFENLR;GSGT(0.022)AS(0.978)DDEFENLR;GSGT(0.001)AS(0.999)DDEFENLR;GSGT(0.05)AS(0.95)DDEFENLR;GSGT(0.023)AS(0.977)DDEFENLR ;;;; 257.81 1.29E-43 658083700 4588.95 4863.21 4268.6 5245.44 5802.14 5741.79 5906.54 5373.16 5128.6 4837.01 TRUE FALSE FALSE 5071.636816 5020.781195 4850.302578 5346.973076 5357.581287 5252.55719 5241.920574 5235.722347 5092.909655 5045.557173 1.005168833 0.995089546 0.961301678 1.059738874 1.061841359 1.041026196 1.038918081 1.037689628 1.009384986 1 12.30079788 -6.241014906 24.99426038 0.999029595 1.047746005 0.766928682 0.01466804 322.7050729 394907.3871 0.002219352 0.003677289 5.74E-07 6.241014906 0.04871641 GSIELR ddPTM_HeLa_SAHA_4h_R1 1 GSIELR 6 0 P35590 P35590 TIE1 Tyrosine-protein kinase receptor Tie-1 0 0 132.8 0.002414 7009900 3572 3647.3 3446.4 3993.7 4097.6 4780.6 4105.4 4146.3 3876 3670.9 FALSE FALSE TRUE 3947.719349 3765.474913 3916.057444 4071.003838 3783.642773 4373.265985 3643.449587 4040.24365 3849.0266 3829.170464 1.030959417 0.983365705 1.02269081 1.063155552 0.988110299 1.142092269 0.951498405 1.055122431 1.005185493 1 11.90281617 -6.51575196 24.64153766 1.012224361 1.038374212 0.098122285 0.048071535 592.7576915 2049520.938 0.006858576 0.009930808 3.05E-07 6.51575196 0.026149851 (ac)AGGK(ac)AGK(ac)DSGK(ac)AK ddPTM_HeLa_SAHA_4h_R1 2 AGGKAGKDSGKAK 13 3 P0C0S5;A0A494C189;Q71UI9;C9J0D1;Q71UI9-3;Q71UI9-2;C9J386;Q71UI9-5 P0C0S5;Q71UI9 H2AFZ;H2AFV Histone H2A.Z;Histone H2A.V;Histone H2A 0 3 ; AGGK(1)AGK(1)DSGK(1)AK;AGGK(1)AGK(1)DSGK(1)AK 58.274 1.37E-11 25278000 1230.94 2162.3 4641 8328.5 12575.3 13622.2 13545.1 12870.7 972.76 1067.69 FALSE TRUE FALSE 1360.415917 2232.359939 5273.451311 8489.710161 11611.78323 12461.51192 12020.9697 12541.48613 965.990484 1113.723341 1.221502564 2.004411559 4.734974222 7.622817847 10.42609309 11.18905518 10.79349714 11.26086315 0.867352284 1 10.12117518 -6.273120837 1.196935478 1.058581817 11.20808113 0.996639379 0.253632959 0.015383273 0.043493699 0.041240653 0.081214404 5.33E-07 6.273120837 10.14949932 up KTVTPAK(ac)AVTTPGK ddPTM_HeLa_SAHA_4h_R1 2 KTVTPAKAVTTPGK 14 2 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 ; KTVTPAK(1)AVTTPGK;K(0.004)TVTPAK(0.996)AVTTPGK 154.69 6.52E-07 9725200 6443.4 7377.6 9922.9 16244.4 20148.9 23512 22591.7 21590.3 6796.4 5808.8 FALSE TRUE FALSE 7121.146375 7616.639081 11275.14114 16558.83385 18605.09563 21508.64533 20049.62246 21038.05139 6749.103299 6059.245796 1.17525293 1.25702758 1.860815936 2.73282095 3.070529941 3.549723192 3.308930374 3.472057761 1.113852041 1 12.56492251 -6.267427765 1.177808461 1.067848058 3.444426981 0.99259169 0.087590756 0.024981813 0.068415854 0.015509534 0.030813759 5.40E-07 6.267427765 2.376578923 up GSLAEAVGS(ph)PPPAATPTPTPPTR ddPTM_HeLa_SAHA_4h_R1 2 GSLAEAVGSPPPAATPTPTPPTR 23 0 Q9Y6I3-3;Q9Y6I3;Q9Y6I3-1 Q9Y6I3-3 EPN1 Epsin-1 1 0 GSLAEAVGS(0.376)PPPAAT(0.042)PT(0.35)PT(0.17)PPT(0.061)R;GSLAEAVGS(1)PPPAATPTPTPPTR ; 138.82 1.91E-06 28523000 2200 2408.82 1993.08 1726.91 2254.32 2482.43 2267.01 2011.66 1956.2 2215.3 TRUE FALSE FALSE 2431.406094 2486.867348 2264.686563 1760.33684 2081.594489 2270.912998 2011.920068 1960.20465 1942.586645 2310.812424 1.052186698 1.076187458 0.980039115 0.761782662 0.900806343 0.982733594 0.87065486 0.848275104 0.840650944 1 11.17418444 -6.510020015 24.22105964 1.029146424 0.879438701 0.305533945 0.080710255 200.3955919 377470.8634 0.0087065 0.012910369 3.09E-07 6.510020015 -0.149707723 GSLAS(ph)LDSLR ddPTM_HeLa_SAHA_4h_R1 2 GSLASLDSLR 10 0 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-8;O60716-9;O60716-17;O60716-7;O60716-4;O60716-6;A0A669KB62;O60716-11;O60716-13;O60716-19;O60716-21;O60716-20;O60716-22;O60716-23;O60716-14;O60716-24;O60716-16;O60716-15;O60716-12;O60716-25;O60716-26;O60716-27;O60716-29;O60716-32;O60716-28;O60716-31;O60716-30;E9PKY0 O60716 CTNND1 Catenin delta-1 1 0 GS(0.004)LAS(0.995)LDSLR;GSLAS(0.999)LDS(0.001)LR ; 134.38 0.0013927 111550000 4388.6 4525.7 4551.1 5345.8 5182.2 5122.4 6348.2 4795.5 5464.8 4270.8 TRUE FALSE FALSE 4850.213084 4672.335649 5171.300207 5449.275689 4785.140956 4685.942702 5633.883828 4672.838054 5426.770012 4454.935089 1.088728115 1.048799939 1.160802594 1.223199795 1.074121364 1.051854316 1.264638814 1.048912714 1.218147942 1 12.1211887 -8.23386374 0.458262622 0.995015939 1.13961737 0 0.096835919 0.871906693 0.416565651 0.053826633 0.025383758 5.84E-09 8.23386374 0.144601431 GSLDES(ph)SLGFGYPK ddPTM_HeLa_SAHA_4h_R1 1 GSLDESSLGFGYPK 14 0 Q2KJU6;Q9BUZ4 Q2KJU6 TRAF4 TNF receptor-associated factor 4 1 0 GS(0.012)LDES(0.857)S(0.131)LGFGYPK 203.88 3.82E-12 34997000 3676.9 4142.7 3285.2 4642.2 4697.9 4528.3 5242.2 3319 4971.8 4015 TRUE FALSE FALSE 4063.653212 4276.926198 3732.889947 4732.056494 4337.947917 4142.463364 4652.333859 3234.104786 4937.200839 4188.106299 0.970284162 1.021207652 0.891307355 1.129879749 1.035777893 0.989101773 1.110844264 0.772211724 1.178862351 1 12.03208234 -4.242924808 24.49785073 1.001112422 0.772211462 0.40773096 0.086588502 1833.136682 2425495.437 0.008559943 0.377495181 5.72E-05 4.242924808 -0.22890096 GSLGIS(ph)QEEQ ddPTM_HeLa_SAHA_4h_R1 1 GSLGISQEEQ 10 0 H3BRR0;Q9NZD8-2;Q9NZD8 H3BRR0 SPG21 Maspardin 1 0 GS(0.003)LGIS(0.997)QEEQ 105.13 0.0034288 0 3452.3 4511.2 4141.1 4278.4 4315.9 5187.5 3913.8 4253.3 4719.7 3825.1 TRUE FALSE FALSE 3815.428754 4657.36584 4705.427542 4361.214619 3985.216674 4745.495816 3473.408923 4144.506745 4686.855223 3990.018781 0.956243307 1.167254115 1.179299598 1.0930311 0.99879647 1.189341724 0.870524455 1.038718606 1.174644903 1 11.96217982 -7.293849634 24.80796878 0.979337112 1.074688159 0 0.109925206 726.0043028 555707.8061 0.015634397 0.017879511 5.08E-08 7.293849634 0.095351047 GSLGS(ph)QGAKDEPEEELQK ddPTM_HeLa_SAHA_4h_R1 3 GSLGSQGAKDEPEEELQK 18 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 GS(0.054)LGS(0.946)QGAKDEPEEELQK;GS(0.01)LGS(0.99)QGAKDEPEEELQK;GS(0.073)LGS(0.927)QGAKDEPEEELQK ;; 80.752 0.0038394 35439900 6021.5 6155.1 6082.1 7239 7474.5 8995.6 8465.6 8143.7 6894.3 6160.3 TRUE FALSE FALSE 6654.868998 6354.529279 6910.936914 7379.121313 6901.805425 8229.124272 7513.028408 7935.395946 6846.322005 6425.900681 1.035632097 0.988893168 1.075481439 1.148340393 1.074060395 1.28061803 1.169179043 1.234907967 1.065426054 1 12.64968297 -5.86038944 0.812298003 1.012741036 1.230681959 0.73010663 0.048283023 0.213452417 0.262695347 0.007708594 0.025584724 1.38E-06 5.86038944 0.217940923 GSLLELLR ddPTM_HeLa_SAHA_4h_R1 1 GSLLELLR 8 0 Q13882 Q13882 PTK6 Protein-tyrosine kinase 6 0 0 110.63 0.0077037 1194700 631.61 1442.1 1415.9 1117.3 1519.1 642.04 2010.8 640.31 309.4 420.02 FALSE FALSE TRUE 698.0456377 1488.824986 1608.851478 1138.926957 1402.706886 587.33458 1784.539492 623.9317974 307.2468602 438.1291177 1.593241831 3.398142068 3.672094397 2.599523545 3.201583345 1.340551349 4.073090374 1.424082016 0.701270123 1 8.775212288 -7.416966522 4.309093054 1.251953 2.843409184 0.456970997 0.858366008 0.149402056 4.550240881 0.13673297 0.154326317 3.83E-08 7.416966522 1.591456184 GSNEEQVNGS(ph)PLER ddPTM_HeLa_SAHA_4h_R1 2 GSNEEQVNGSPLER 14 0 Q9UHF7;Q9UHF7-3;Q9UHF7-2;E5RFF3;H0YAV4 Q9UHF7 TRPS1 Zinc finger transcription factor Trps1 1 0 GSNEEQVNGS(1)PLER;GSNEEQVNGS(1)PLER ; 159.18 1.40E-05 10676200 1213.68 871.26 822.04 996.12 1166.37 959.86 1044.29 1036.52 1002.32 883.38 TRUE FALSE FALSE 1341.340431 899.4893957 934.0633302 1015.401343 1077.002983 878.074528 926.7837408 1010.007319 995.3447735 921.466835 1.455657849 0.976149506 1.013670047 1.101940194 1.168791911 0.952909529 1.005770046 1.096086458 1.080174278 1 9.847788432 GSNMDFREPTEEER ddPTM_HeLa_SAHA_4h_R1 2 GSNMDFREPTEEER 14 1 Q15056-2;Q15056 Q15056-2 EIF4H Eukaryotic translation initiation factor 4H 0 0 ; ; 120.9 0.001349 29799000 7268.3 6452.7 6657.1 7129.5 6967.9 7443.2 8034.4 7450.4 6130.7 6623.9 FALSE FALSE TRUE 8032.813142 6661.771714 7564.294919 7267.501782 6434.021007 6808.997486 7130.348167 7259.829556 6088.03596 6909.488746 1.162577064 0.964148283 1.094769121 1.051814693 0.931186263 0.98545605 1.031964655 1.050704303 0.881112364 1 12.75436325 -5.981373338 24.62970387 1.069866776 0.999897194 0 0.083331111 283.5079725 374874.8248 0.01078057 0.019538747 1.04E-06 5.981373338 -0.069969582 GSPS(ph)PEKPDVEK ddPTM_HeLa_SAHA_4h_R1 1 GSPSPEKPDVEK 12 1 Q93074-3;Q93074;Q93074-2;Q7Z3Z5 Q93074-3 MED12;TNRC11 Mediator of RNA polymerase II transcription subunit 12 1 0 GS(0.094)PS(0.906)PEKPDVEK 106.32 0.0083016 0 1028.5 1163.9 954.59 1076.4 1237.3 1520.6 1175.3 1321.3 1323.4 1009.4 TRUE FALSE FALSE 1136.682349 1201.611124 1084.676554 1097.235279 1142.498341 1391.036325 1043.052151 1287.503059 1314.190352 1052.920174 1.079552256 1.141217685 1.030160292 1.04208781 1.085075934 1.321122303 0.990627948 1.222792659 1.248138638 1 10.04018035 -1.000000736 0.040730438 0.690233379 1.773630516 0 0.116535365 660.1088616 2.067499718 15.06950079 49.29336148 0.09999983 1.000000736 1.083397137 GSPTDAEGS(ph)PGLSR ddPTM_HeLa_SAHA_4h_R1 2 GSPTDAEGSPGLSR 14 0 Q8TER5-4;Q8TER5-3;Q8TER5;G3V485;G3V3N2;G3V5C1 Q8TER5-4 ARHGEF40 Rho guanine nucleotide exchange factor 40 1 0 GSPT(0.001)DAEGS(0.999)PGLSR;GSPTDAEGS(1)PGLSR ; 233.28 1.51E-24 60760000 3272.9 3471.2 3526.7 3509.4 3511.1 3898.6 3623.8 3178.5 3191.3 3176.2 TRUE FALSE FALSE 3617.158639 3583.669158 4007.30031 3577.329512 3242.080277 3566.417347 3216.040487 3097.198572 3169.091483 3313.141526 1.09176098 1.081652905 1.209516792 1.079739421 0.978551701 1.07644582 0.970692155 0.934822297 0.956521615 1 11.69398412 -4.646604834 4.0138939 1.058575123 0.941865872 0.289167598 0.067568155 0.206744456 5.903710125 0.00942311 0.040375258 2.26E-05 4.646604834 -0.116709251 GSPVSEIGWETPPPES(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 GSPVSEIGWETPPPESPR 18 0 A0A3B3ITC2;Q13884-2;Q13884 A0A3B3ITC2 SNTB1 Beta-1-syntrophin 1 0 GSPVSEIGWET(0.026)PPPES(0.974)PR 166.9 2.45E-06 4300600 467.27 378.57 319.67 474.09 558.56 469.41 384.61 408.23 556.84 575.64 TRUE FALSE FALSE 516.4196025 390.8359164 363.2329628 483.2666975 515.7632535 429.4136272 341.3326706 397.7880677 552.9649051 600.4586575 0.860041896 0.65089563 0.604925848 0.804829261 0.858948817 0.715142703 0.568453242 0.662473699 0.920904209 1 9.229921107 -7.689312825 1.301128202 0.9604616 0.698192109 0.586255915 0.088487248 0.198554264 0.694813482 0.021607724 0.021179997 2.04E-08 7.689312825 -0.262269491 GSRPPLILQSQSLPCS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 3 GSRPPLILQSQSLPCSSPR 19 1 A0A590UJS4;Q6KC79-2;Q6KC79-3;Q6KC79 A0A590UJS4;Q6KC79 NIPBL Nipped-B-like protein 1 0 GSRPPLILQSQS(0.001)LPCS(0.5)S(0.5)PR;GSRPPLILQSQSLPCS(0.5)S(0.5)PR;GSRPPLILQSQS(0.001)LPCS(0.499)S(0.499)PR ;; 122.3 0.00017945 23824600 1811.57 1531.74 1175.72 1399.8 1642.09 2017.38 1688.95 1304.65 1249.84 1594.12 TRUE FALSE FALSE 2002.119244 1581.369381 1335.940999 1426.895153 1516.273419 1845.487875 1498.904901 1271.278942 1241.142262 1662.850315 1.204028545 0.950999237 0.803404243 0.858101983 0.91185202 1.109834035 0.901406992 0.764517967 0.746394459 1 10.69944259 -7.070934136 6.765124909 1.095913918 0.899318348 0 0.147191081 0.190354838 15.3106186 0.0191104 0.023517729 8.49E-08 7.070934136 -0.196595569 GSRSDT(ph)S(ph)ARMSAAEMLK ddPTM_HeLa_SAHA_4h_R1 1 GSRSDTSARMSAAEMLK 17 2 Q5SYE7-2;Q5SYE7 Q5SYE7-2 NHSL1 NHS-like protein 1 2 0 GS(0.151)RS(0.457)DT(0.725)S(0.668)ARMSAAEMLK 78.508 0.0060004 38020000 710.17 656.07 655.38 748.98 838.81 738.61 770.86 842.35 734.49 857.27 TRUE FALSE FALSE 784.868939 677.3270985 744.6917733 763.4775909 774.540559 675.6762727 684.120804 820.8039067 729.3786243 894.2311051 0.87770257 0.757440772 0.832773283 0.853781071 0.866152558 0.755594688 0.765038031 0.917887895 0.815648908 1 9.804503919 -8.383594209 0.664529801 0.995174033 0.817979671 0 0.075388518 0.317332766 0.298188634 0.026243485 0.01290687 4.13E-09 8.383594209 -0.177194362 GSS(ph)AGFDR ddPTM_HeLa_SAHA_4h_R1 1 GSSAGFDR 8 0 G3V5Z7;P60900;G3V295;G3V3U4;G3V3I1;G3V4S5;G3V2S7 G3V5Z7 PSMA6 Proteasome subunit alpha type;Proteasome subunit alpha type-6 1 0 GS(0.049)S(0.951)AGFDR 98.582 0.012026 2406100 1737.2 1766.8 1404.9 2139.8 1944.8 2573.5 2380.1 2207.7 2158.8 2248.5 TRUE FALSE FALSE 1919.926667 1824.045479 1596.352456 2181.218923 1795.789844 2354.223322 2112.284884 2151.230231 2143.776735 2345.443839 0.818577122 0.777697359 0.680618495 0.929981305 0.765650328 1.003743208 0.900590689 0.91719537 0.914017509 1 11.19564524 -2.966424558 14.73320843 0.886235935 44.03598083 0 0.101871487 0 0 0.015134959 0 0.001080377 2.966424558 43.14974489 GSS(ph)FEMTDDDSAIR ddPTM_HeLa_SAHA_4h_R1 2 GSSFEMTDDDSAIR 14 0 H7BXY3;Q7L2E3-3;Q7L2E3;Q7L2E3-2 H7BXY3 DHX30 Putative ATP-dependent RNA helicase DHX30 1 0 GS(0.12)S(0.867)FEMT(0.013)DDDSAIR;GS(0.003)S(0.997)FEMTDDDSAIR ; 217.68 2.12E-17 5343300 1123.28 1021.46 880.78 993.87 1059.31 1363.89 1419.99 1282.28 1430.04 993.19 TRUE FALSE FALSE 1241.431744 1054.555974 1000.808111 1013.107791 978.1458967 1247.678899 1260.208988 1249.481134 1420.088235 1036.011281 1.198280141 1.017900088 0.966020476 0.977892624 0.94414599 1.204310147 1.216404696 1.206049738 1.370726613 1 10.016824 -5.14604898 9.559229087 1.062505466 1.210834798 0.217317345 0.122422463 0.350608243 27.05955166 0.01423624 0.036381395 7.14E-06 5.14604898 0.148329333 GSS(ph)GEGLPFAEEGNLTIK ddPTM_HeLa_SAHA_4h_R1 1 GSSGEGLPFAEEGNLTIK 18 0 Q8WXE0-2;Q8WXE0 Q8WXE0-2 CASKIN2 Caskin-2 1 0 GS(0.222)S(0.778)GEGLPFAEEGNLTIK 200.9 1.35E-37 0 425.32 304.13 191.94 284.15 368.66 334.46 324.48 266.49 319.17 451.72 TRUE FALSE FALSE 470.057109 313.9840115 218.0965836 289.6501341 340.4133504 305.9621264 287.9686564 259.6735717 316.94887 471.1958599 0.997583275 0.666355625 0.462857597 0.614712816 0.722445546 0.649331101 0.611144284 0.551094765 0.672647824 1 8.880183053 -7.224322014 4.405588594 0.999814734 0.60789179 0.468885607 0.12125241 0.046583435 2.107494009 0.010984504 0.013278867 5.97E-08 7.224322014 -0.391922944 GSS(ph)GENNNPGSPTVSNFR ddPTM_HeLa_SAHA_4h_R1 1 GSSGENNNPGSPTVSNFR 18 0 D6RD37;D6RAX8;D6RBL1;D6RDZ9;D6RCK9;Q99576-3;D6RDZ7;D6R8Z7 D6RD37 TSC22D3 1 0 GS(0.016)S(0.984)GENNNPGSPTVSNFR 218.83 7.00E-22 4029900 290.82 401.02 413.39 367.16 651.29 462.18 489.23 397.94 342.95 400.99 TRUE FALSE FALSE 321.4097819 414.0133111 469.7246364 374.2669127 601.3883009 422.7996638 434.1805528 387.761271 340.563383 418.2786413 0.768410696 0.989802658 1.122994554 0.894778924 1.437769567 1.010808638 1.038017508 0.927040572 0.814202183 1 8.708320521 -7.007412496 7.712074289 0.889956111 1.074776189 0.276675774 0.150462142 0.150325188 65.71017214 0.025603088 0.032588504 9.83E-08 7.007412496 0.184820078 GSS(ph)GSPAHAESYSSGGGGQQK ddPTM_HeLa_SAHA_4h_R1 1 GSSGSPAHAESYSSGGGGQQK 21 0 P15408 P15408 FOSL2 Fos-related antigen 2 1 0 GS(0.122)S(0.509)GS(0.369)PAHAESYSSGGGGQQK 156.7 6.93E-07 4968700 781.32 1241.4 405.3 730.84 1538.7 2043.7 1176.4 1144.9 1618.2 1315.7 TRUE FALSE FALSE 863.5028224 1281.622175 460.5321733 744.986465 1420.805138 1869.565262 1044.028376 1115.615116 1606.938814 1372.426266 0.629179756 0.933836816 0.335560594 0.542824401 1.035250617 1.362233665 0.76071728 0.812877998 1.170874425 1 10.42251293 -5.718031731 24.99533045 0.771485168 1.002585277 0.141970984 0.269361997 212.2627088 122225.6439 0.038850237 0.077700097 1.91E-06 5.718031731 0.231100109 GSS(ph)PGPRPVEGTPASR ddPTM_HeLa_SAHA_4h_R1 3 GSSPGPRPVEGTPASR 16 1 Q13112 Q13112 CHAF1B Chromatin assembly factor 1 subunit B 1 0 GS(0.027)S(0.973)PGPRPVEGTPASR;GS(0.001)S(0.999)PGPRPVEGTPASR;GS(0.499)S(0.501)PGPRPVEGTPASR ;; 155.56 8.58E-05 190805300 7743.33 7394.62 6870.25 7319.97 8072.38 8411.4 8710.08 7772.04 7568.33 7282.52 TRUE FALSE FALSE 8557.808977 7634.21054 7806.491891 7461.658604 7453.875988 7694.701399 7729.998875 7573.242471 7515.661375 7596.505077 1.126545548 1.004963528 1.027642556 0.98224888 0.981224381 1.012926513 1.017573055 0.996937723 0.989357777 1 12.89112012 -7.062155068 24.99979536 1.060073272 1.003426414 0.076684725 0.038585444 242.8926949 97694.97785 0.007972015 0.009763691 8.67E-08 7.062155068 -0.056646858 GSS(ph)PQNTTTPKPSVEGQQPAAAAACEPVDHAQSESILK ddPTM_HeLa_SAHA_4h_R1 1 GSSPQNTTTPKPSVEGQQPAAAAACEPVDHAQSESILK 38 1 Q27J81-2;Q27J81 Q27J81-2 INF2 Inverted formin-2 1 0 GS(0.045)S(0.491)PQNT(0.151)T(0.151)T(0.151)PKPS(0.012)VEGQQPAAAAACEPVDHAQSESILK 71.709 3.38E-06 11611000 331.48 560.09 211.46 475.38 489.32 604.81 539.03 490.94 404.69 516.86 TRUE FALSE FALSE 366.3465873 578.2372835 240.2766676 484.5816673 451.8284073 553.2767854 478.3769258 478.3824657 401.8737293 539.1443641 0.679496275 1.072509187 0.44566295 0.898797613 0.838047168 1.026212685 0.887289115 0.887299391 0.745391691 1 9.074527818 -6.030749982 24.99771569 0.830487392 0.910430942 0.085554645 0.168865022 1941.978605 1578699.134 0.027244681 0.045217904 9.32E-07 6.030749982 0.07994355 GSS(ph)PTPPCS(ph)PVQPSK ddPTM_HeLa_SAHA_4h_R1 2 GSSPTPPCSPVQPSK 15 0 H0YBY0;E7EPX0;E7EVJ4;Q9NUL3-4;Q9NUL3-6;Q9NUL3-8;Q9NUL3-3;Q9NUL3-7;Q9NUL3-2;Q9NUL3 H0YBY0 STAU2 Double-stranded RNA-binding protein Staufen homolog 2 2 0 GS(0.076)S(0.861)PT(0.063)PPCS(0.536)PVQPS(0.464)K;GS(0.019)S(0.897)PT(0.087)PPCS(0.997)PVQPS(0.001)K ; 153.48 0.00042788 11818900 3259.2 3826.4 2566.29 2919.46 3888 4398.7 3771.7 3901.8 3373.5 3374.34 TRUE FALSE FALSE 3602.01761 3950.377871 2916.010637 2975.97037 3590.10228 4023.906014 3347.298389 3801.997606 3350.023539 3519.824311 1.023351534 1.122322457 0.828453462 0.845488328 1.019966329 1.143212177 0.950984508 1.080166869 0.951758736 1 11.7812877 -4.230893143 22.00875022 1.001850874 1.080167485 0.058105544 0.097418076 5692.208532 4100925.917 0.013156396 1.602035705 5.88E-05 4.230893143 0.078316611 GSS(ph)PTPPCSPVQPSK ddPTM_HeLa_SAHA_4h_R1 4 GSSPTPPCSPVQPSK 15 0 H0YBY0;E7EPX0;E7EVJ4;Q9NUL3-4;Q9NUL3-6;Q9NUL3-8;Q9NUL3-3;Q9NUL3-7;Q9NUL3-2;Q9NUL3 H0YBY0 STAU2 Double-stranded RNA-binding protein Staufen homolog 2 1 0 GS(0.009)S(0.981)PT(0.01)PPCSPVQPSK;GS(0.079)S(0.921)PTPPCSPVQPSK;GS(0.093)S(0.906)PT(0.002)PPCSPVQPSK;GS(0.024)S(0.969)PT(0.007)PPCSPVQPSK ;;; 214.89 1.10E-17 61388100 6394.53 6318.28 5661.26 7414 7636.8 7393.1 6967.4 7484.5 7452.8 5841.14 TRUE FALSE FALSE 7067.136005 6522.996418 6432.74703 7557.508691 7051.670034 6763.166288 6183.409815 7293.057327 7400.935358 6092.980131 1.159881676 1.070575692 1.055763664 1.240363259 1.15734335 1.109993163 1.014841618 1.196960629 1.214665927 1 12.57293232 -9.411965243 0.960753634 0.994363332 1.125473125 0 0.092208905 0.564999157 0.865945046 0.054600595 0.011644112 3.87E-10 9.411965243 0.131109793 GSS(ph)YSSIPK ddPTM_HeLa_SAHA_4h_R1 2 GSSYSSIPK 9 0 Q14315-2;Q14315 Q14315-2 FLNC Filamin-C 1 0 GS(0.001)S(0.914)YS(0.019)S(0.067)IPK;GS(0.004)S(0.512)YS(0.213)S(0.27)IPK ; 114.89 0.004781 16558900 8970.4 8577.6 8521.2 9262.6 9647.5 11115.9 10667.6 10105.9 9307.1 8380.2 TRUE FALSE FALSE 9913.94783 8855.519868 9682.424759 9441.891017 8908.310634 10168.76278 9467.253572 9847.405711 9242.331133 8741.511434 1.134122846 1.013042188 1.107637373 1.080121108 1.019081277 1.163272835 1.083022501 1.126510648 1.057292117 1 13.09366703 -9.505138956 1.193343745 0.998856165 1.093325993 0.177071744 0.04790312 0.409593129 1.02327262 0.032447341 0.00746232 3.13E-10 9.505138956 0.094469828 GSSAAASPGS(ph)PPPGR ddPTM_HeLa_SAHA_4h_R1 4 GSSAAASPGSPPPGR 15 0 Q86UX6 Q86UX6 STK32C Serine/threonine-protein kinase 32C 1 0 GSSAAASPGS(1)PPPGR;GSSAAASPGS(1)PPPGR;GSSAAASPGS(1)PPPGR;GSSAAASPGS(1)PPPGR ;;; 196.37 1.06E-09 26593100 2958.54 3349.32 2307.07 3382.71 3557.3 3669.51 3483.51 3576.76 3722.21 3476.28 TRUE FALSE FALSE 3269.732811 3457.840166 2621.465485 3448.187244 3284.740443 3356.847104 3091.536287 3485.271658 3696.306838 3626.159443 0.901706851 0.953581942 0.722931665 0.950919919 0.905845563 0.925730696 0.852564906 0.961146831 1.019344818 1 11.82422665 -8.93179751 0.709866122 1.002105923 0.893421734 0.309799902 0.06645931 0.752898289 0.686775355 0.045480438 0.013587338 1.17E-09 8.93179751 -0.108684188 GSSANASKWS(ph)PPQNYK ddPTM_HeLa_SAHA_4h_R1 2 GSSANASKWSPPQNYK 16 1 H3BRM1;H3BRF9;Q96K21-3;Q96K21-2;Q96K21 H3BRM1 ZFYVE19 Abscission/NoCut checkpoint regulator 1 0 GSSANAS(0.001)KWS(0.998)PPQNYK;GSSANAS(0.002)KWS(0.979)PPQNY(0.019)K ; 73.984 0.011008 18242300 6948.3 5314.3 6676.3 7114.8 7206.9 6248.1 7923 8388.3 4115.2 6319.1 TRUE FALSE FALSE 7679.154074 5486.486807 7586.111395 7252.517242 6654.708879 5715.726729 7031.483188 8173.739432 4086.561988 6591.547326 1.165000218 0.83235188 1.150884765 1.100275381 1.009582204 0.867129742 1.066742426 1.24003349 0.61997006 1 12.68640145 -5.751977397 24.9100913 1.066745348 1.03459542 0 0.186753787 1004.202261 2643690.593 0.018495729 0.036617834 1.77E-06 5.751977397 -0.032149928 GSSDGRGS(ph)DSESDLPHR ddPTM_HeLa_SAHA_4h_R1 2 GSSDGRGSDSESDLPHR 17 1 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46;D6RJ93;D6R8Y0;Q9UPQ0-7;Q6NVB9 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 GS(0.042)S(0.042)DGRGS(0.757)DS(0.155)ES(0.004)DLPHR;GS(0.027)S(0.113)DGRGS(0.859)DS(0.001)ESDLPHR ; 86.539 0.002544 25341000 2557.53 3515.2 2517.13 3653.9 4160.6 6032.5 4059.4 4514.9 4542.2 4178.6 TRUE FALSE FALSE 2826.54274 3629.094786 2860.151368 3724.626518 3841.815727 5518.497062 3602.625628 4399.415395 4510.59046 4358.759896 0.648474063 0.832598003 0.656184657 0.854515185 0.881401091 1.266070441 0.826525368 1.009327309 1.034833432 1 12.08970202 -5.507736977 23.35435405 0.818542482 1.023313869 0.24211739 0.153080247 319.8870926 493385.2831 0.023699789 0.051331371 3.11E-06 5.507736977 0.204771387 GSSGENNNPGS(ph)PTVSNFR ddPTM_HeLa_SAHA_4h_R1 2 GSSGENNNPGSPTVSNFR 18 0 D6RD37;D6RAX8;D6RBL1;D6RDZ9;D6RCK9;Q99576-3;D6RDZ7;D6R8Z7 D6RD37 TSC22D3 1 0 GSSGENNNPGS(0.919)PT(0.081)VSNFR;GSSGENNNPGS(0.993)PT(0.007)VSNFR ; 319.11 2.34E-120 18770100 1645.18 2002.61 1877.52 1767.9 2758.2 3114.3 2526.8 2061.09 2222.1 2234.2 TRUE FALSE FALSE 1818.227581 2067.495878 2133.378648 1802.120261 2546.867312 2848.944119 2242.477814 2008.370302 2206.636225 2330.527296 0.780178625 0.887136521 0.915405991 0.773267176 1.092828784 1.22244615 0.962219073 0.861766479 0.946839897 1 11.18644069 -5.746336508 24.9992962 0.886941386 1.043031921 0.320083045 0.107497718 253.280538 419244.7167 0.017914485 0.035716318 1.79E-06 5.746336508 0.156090536 GSSGS(ph)PAHAESYSSGGGGQQK ddPTM_HeLa_SAHA_4h_R1 3 GSSGSPAHAESYSSGGGGQQK 21 0 P15408 P15408 FOSL2 Fos-related antigen 2 1 0 GSS(0.003)GS(0.578)PAHAES(0.409)YS(0.008)S(0.001)GGGGQQK;GS(0.001)S(0.006)GS(0.993)PAHAES(0.001)YSSGGGGQQK;GS(0.074)S(0.289)GS(0.638)PAHAESYSSGGGGQQK ;; 240.61 8.11E-43 7135900 836.96 1931.66 526.83 932.955 1878.191 2798.99 1588.18 1591.24 1997.89 1493.19 TRUE FALSE FALSE 924.9952929 1994.247051 598.6236488 951.0136931 1734.284411 2560.500305 1409.473807 1550.538385 1983.986521 1557.568728 0.593871253 1.280358943 0.384332093 0.610575749 1.113456106 1.643908393 0.904919174 0.995486335 1.273771414 1 10.60508011 -5.632460573 6.73771745 0.796021449 1.189496891 0.161289706 0.327876921 0.221540748 12.40291633 0.043752672 0.087940031 2.33E-06 5.632460573 0.393475442 GSSMGVRNS(ph)PQALR ddPTM_HeLa_SAHA_4h_R1 2 GSSMGVRNSPQALR 14 1 Q7L7X3;Q7L7X3-3 Q7L7X3 TAOK1 Serine/threonine-protein kinase TAO1 1 0 GSSMGVRNS(1)PQALR;GSSMGVRNS(1)PQALR ; 132.51 0.0018638 18443200 3179.5 3137.9 3039.6 3055.5 3227.4 2768 3577.4 3491.8 2878.63 3117.2 TRUE FALSE FALSE 3513.934398 3239.570019 3453.820858 3114.643621 2980.117309 2532.150828 3174.861537 3402.484812 2858.597379 3251.597747 1.080679306 0.996300979 1.062191921 0.957880975 0.916508603 0.778740491 0.97640046 1.046403976 0.879136228 1 11.66693308 -6.093177295 3.887562244 1.036798353 0.92311199 0.086464002 0.083357255 0.197092725 5.435422617 0.01070752 0.018470035 8.07E-07 6.093177295 -0.113686363 GSSPQNT(ph)TTPKPSVEGQQPAAAAACEPVDHAQSESILK ddPTM_HeLa_SAHA_4h_R1 2 GSSPQNTTTPKPSVEGQQPAAAAACEPVDHAQSESILK 38 1 Q27J81-2;Q27J81 Q27J81-2 INF2 Inverted formin-2 1 0 GS(0.062)S(0.062)PQNT(0.219)T(0.219)T(0.219)PKPS(0.219)VEGQQPAAAAACEPVDHAQSESILK;GS(0.043)S(0.156)PQNT(0.252)T(0.252)T(0.252)PKPS(0.045)VEGQQPAAAAACEPVDHAQSESILK ; 73.266 2.46E-06 26802000 697.52 826.7 761.17 780.18 1164.08 1429.4 1013.42 992.52 1159.28 1040.98 TRUE FALSE FALSE 770.8883539 853.4856224 864.8982836 795.2815121 1074.888442 1307.607078 899.3873144 967.1327756 1151.212476 1085.861742 0.709932327 0.785998428 0.796508662 0.732396659 0.989894385 1.20421139 0.828270561 0.890659223 1.060183292 1 10.08462471 -5.730871086 24.76735533 0.839708334 0.983685034 0.176737319 0.137436934 250.1672656 202691.7006 0.021383597 0.042763027 1.86E-06 5.730871086 0.1439767 GSSPSIRPIQGSQGSSS(ph)PVEK ddPTM_HeLa_SAHA_4h_R1 1 GSSPSIRPIQGSQGSSSPVEK 21 1 H0Y8E8;F8W6N3;Q92560 H0Y8E8 BAP1 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase BAP1 1 0 GSSPSIRPIQGS(0.008)QGS(0.187)S(0.187)S(0.618)PVEK 77.969 0.00098708 8433100 1153.5 1305 716.53 1080.7 1064.4 1540.7 1631 1188.4 1649.5 1197.3 TRUE FALSE FALSE 1274.830422 1347.282856 814.1749769 1101.618511 982.845902 1409.423692 1447.475587 1158.002449 1638.020995 1248.921462 1.020745067 1.078757069 0.651902463 0.882055873 0.786955731 1.128512668 1.158980473 0.927201977 1.31154844 1 10.28646704 -6.098251467 0.005698258 1.946719306 4.15E-07 0.03369125 0.178835268 50439.38032 103.0083423 17301.07946 17888.85555 7.98E-07 6.098251467 -1.946718891 GSSSQAPASK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 GSSSQAPASKK 11 1 Q9H6F5 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 0 1 ; GSSSQAPASK(1)K;GSSSQAPASK(1)K 194.17 4.58E-24 864330 371.84 308.23 161.47 1034.43 596.67 795.91 936.68 918.82 371.09 448.21 FALSE TRUE FALSE 410.9518373 318.2168542 183.4742907 1054.452888 550.9532735 728.0939903 831.2823012 895.3179148 368.5075545 467.5345266 0.878976448 0.680627496 0.392429393 2.255347634 1.178422645 1.557305287 1.778012647 1.914977106 0.788193242 1 8.868929099 -6.26440406 24.99999123 0.880031236 1.698107582 0.711182632 0.30889758 126.5086525 1066798.047 0.046488747 0.072955341 5.44E-07 6.26440406 0.818076346 GSSSQGPSQTST(ph)PTDVTAIHL ddPTM_HeLa_SAHA_4h_R1 2 GSSSQGPSQTSTPTDVTAIHL 21 0 Q5T8J1;P30281-4;P30281-2;P30281-3;P30281 Q5T8J1 CCND3 G1/S-specific cyclin-D3 1 0 GSSSQGPSQT(0.001)S(0.024)T(0.819)PT(0.155)DVT(0.002)AIHL;GSSSQGPSQT(0.016)S(0.122)T(0.729)PT(0.126)DVT(0.007)AIHL ; 112.74 4.25E-05 4818600 571.13 524.08 238.582 488.23 605.87 815.03 594.75 519.6 424.44 599.7 TRUE FALSE FALSE 631.2040738 541.0605359 271.0947125 497.6803976 559.4483715 745.5848588 527.8271647 506.3093844 421.4862875 625.5560019 1.009028883 0.864927415 0.433366016 0.795580885 0.894321803 1.191875478 0.843772841 0.809374993 0.673778664 1 9.288995235 -7.220541273 5.638414016 1.004373223 0.832122881 0 0.201054794 0.278716818 23.67557868 0.030382888 0.036952922 6.02E-08 7.220541273 -0.172250342 GSSSSS(ph)PEHSASSDSTK ddPTM_HeLa_SAHA_4h_R1 1 GSSSSSPEHSASSDSTK 17 0 A0A075B784;Q9P275 A0A075B784 USP36 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 36 1 0 GSSS(0.001)S(0.077)S(0.913)PEHS(0.007)AS(0.002)SDSTK 254.72 5.80E-47 1705400 130.5 341.44 0 188.25 496.67 984.06 504.22 503.19 444.64 358.59 TRUE FALSE FALSE 144.2265888 352.50288 0 191.893851 458.6152519 900.2125518 447.4838386 490.3191284 441.545714 374.0505698 0.385580455 0.942393645 0 0.513015796 1.226078207 2.40666002 1.196319093 1.31083647 1.180443902 1 8.547089518 -5.579384607 5.011227015 0.654084587 1.62834183 0.501250696 0.436082992 0.118258935 6.175341753 0.062525131 0.128616161 2.63E-06 5.579384607 0.974257243 GSST(ph)PTKGIENK ddPTM_HeLa_SAHA_4h_R1 1 GSSTPTKGIENK 12 1 O60271-3;O60271;A0A087X2D8;O60271-5;O60271-9;O60271-4;O60271-2;H0YBE9 O60271-3 SPAG9 C-Jun-amino-terminal kinase-interacting protein 4 1 0 GS(0.001)S(0.03)T(0.968)PT(0.002)KGIENK 151.16 0.017445 9343100 2457.1 2113.3 2028.2 2314.3 2256.9 2023 2042.7 2309.4 1439.3 1921.1 TRUE FALSE FALSE 2715.549052 2181.772307 2304.592534 2359.096623 2083.97681 1850.629019 1812.85002 2250.328892 1429.283794 2003.928023 1.355113068 1.08874784 1.15003758 1.177236206 1.039945939 0.923500744 0.904648271 1.122958942 0.713241083 1 10.96861498 -5.623690728 3.770949469 1.164144782 0.976061048 0 0.1739576 0.235315435 6.388938194 0.020624883 0.043186215 2.38E-06 5.623690728 -0.188083734 GSSY(ph)WDRCVVGGYLSPKT(ph)VADT(ph)FEK ddPTM_HeLa_SAHA_4h_R1 1 GSSYWDRCVVGGYLSPKTVADTFEK 25 2 B0QY95;Q9NQG6 B0QY95 MIEF1 Mitochondrial dynamics protein MID51 3 0 GS(0.249)S(0.259)Y(0.485)WDRCVVGGY(0.094)LS(0.097)PKT(0.912)VADT(0.904)FEK 42.828 0.0085285 0 545.48 876.02 663.77 717.55 632.85 920.36 832.13 899.52 897.19 944.21 TRUE FALSE FALSE 602.8560892 904.4036228 754.2251188 731.4392178 584.3611697 841.9401502 738.4965424 876.5115809 890.9463817 984.919514 0.612086653 0.918251299 0.765773353 0.742638568 0.593308551 0.854831424 0.74980395 0.889932191 0.904588009 1 9.943862024 -9.55909021 1.321927581 1.000441692 0.747072346 0.312025531 0.105222555 0.329920891 1.030198695 0.074750932 0.017489441 2.76E-10 9.55909021 -0.253369346 GSTCTTTRPQEEIMS(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 GSTCTTTRPQEEIMSPER 18 1 M0R2T4;M0R0M1 M0R2T4 TUBB4A 1 0 GSTCTTTRPQEEIMS(1)PER 59.862 0.01596 28404000 918.2 879.75 778.43 846.39 1060.8 829.23 924.87 843.69 978.42 946.53 TRUE FALSE FALSE 1014.780489 908.2544772 884.5103865 862.7731024 979.5217332 758.5749389 820.8011935 822.1096314 971.6110956 987.3395405 1.027792818 0.919900845 0.895852288 0.873836271 0.992081946 0.768301995 0.831326165 0.832651381 0.984069872 1 9.947402494 -6.256810911 0.587415517 1.016546328 0.814655529 0.587404897 0.052964076 0.390489429 0.258367933 0.012835589 0.035325598 5.54E-07 6.256810911 -0.201890799 GSTDNLMDDIER ddPTM_HeLa_SAHA_4h_R1 6 GSTDNLMDDIER 12 0 P50990-2;P50990;P50990-3 P50990-2 CCT8 T-complex protein 1 subunit theta 0 0 ;;;;; ;;;;; 265.01 7.43E-43 30623900 8315.52 8122.69 7944.47 8796.56 9847.96 9149.4 9227.31 9149.56 8955.08 9069.24 FALSE FALSE TRUE 9190.184547 8385.870485 9027.100999 8966.830139 9093.411432 8369.819647 8189.028794 8915.527504 8892.760869 9460.25932 0.971451652 0.886431355 0.954212849 0.947841897 0.961222216 0.884734695 0.865624135 0.942418934 0.940012379 1 13.20766402 -7.055137869 0.280885579 1.012613764 0.886537751 0.1507616 0.037492696 1.029625902 0.262596735 0.036748035 0.050015215 8.81E-08 7.055137869 -0.126076012 GSTIYTGYPLS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 2 GSTIYTGYPLSPTK 14 0 Q5SQL3;J3KP92;Q86Z02;H3BLW0;Q86Z02-4;Q86Z02-3 Q5SQL3 HIPK1 Homeodomain-interacting protein kinase 1 1 0 GSTIYTGYPLS(0.997)PT(0.003)K;GSTIYTGYPLS(0.5)PT(0.5)K ; 160.87 1.23E-05 14113700 2219.5 2149.41 2445.7 2956.9 2699.7 2894.1 2970.6 2422.8 2228.09 2197.1 TRUE FALSE FALSE 2452.957193 2219.052294 2778.987259 3014.135075 2492.849569 2647.506398 2636.34027 2360.828284 2212.58454 2291.827733 1.070306096 0.968245677 1.212563762 1.315166507 1.087712455 1.155194328 1.150322178 1.030107215 0.965423582 1 11.16228289 -6.758726006 24.99999829 1.029256168 1.161890676 0.486336043 0.077101967 52.87558101 487171.1022 0.012145048 0.016737325 1.74E-07 6.758726006 0.132634508 GSVLPNSDK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 GSVLPNSDKK 10 1 P22307-4;P22307-7;P22307-8;P22307;H0YF61;P22307-6;P22307-2 P22307-4 SCP2 Non-specific lipid-transfer protein 0 1 ; GSVLPNSDK(1)K;GSVLPNSDK(1)K 101.95 0.0040953 2966600 2371.69 3546.5 2103.5 2671.1 3999.9 4029.5 3890.8 3242.6 3316.6 2725.6 FALSE TRUE FALSE 2621.155236 3661.408927 2390.154025 2722.803003 3693.428526 3686.163931 3452.996944 3159.658987 3293.519511 2843.113955 0.921931121 1.287816452 0.840681754 0.957683387 1.299078611 1.296523456 1.214512327 1.111337441 1.158419804 1 11.47325621 -5.767494001 24.99731415 0.978787552 1.23395653 0.325116053 0.132112411 86.03097523 355191.8113 0.017258323 0.031872814 1.71E-06 5.767494001 0.255168978 GSVPLSSS(ph)PPATHFPDETEITNPVPK ddPTM_HeLa_SAHA_4h_R1 1 GSVPLSSSPPATHFPDETEITNPVPK 26 0 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 1 0 GS(0.002)VPLS(0.039)S(0.131)S(0.456)PPAT(0.372)HFPDETEITNPVPK 82.216 6.10E-05 217310000 1620.6 1554.1 660.8 1271.1 1605.9 2145.7 1459.3 2010.4 1341.2 1318.4 TRUE FALSE FALSE 1791.062144 1604.45386 750.8503827 1295.703979 1482.856289 1962.874289 1295.095723 1958.976879 1331.86648 1375.242676 1.302360794 1.166669627 0.545976645 0.942163882 1.078250635 1.427293032 0.941721593 1.424459052 0.968459242 1 10.4254705 -4.242001699 23.42255934 1.098484577 1.424459766 0.160948779 0.23143482 2957.680305 3563895.375 0.033510023 1.512274696 5.73E-05 4.242001699 0.325975189 GSVPLSSSPPAT(ph)HFPDETEITNPVPK ddPTM_HeLa_SAHA_4h_R1 1 GSVPLSSSPPATHFPDETEITNPVPK 26 0 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 1 0 GSVPLS(0.001)S(0.002)S(0.007)PPAT(0.99)HFPDETEITNPVPK 91.481 2.03E-05 258980000 5528.2 5921 3068.4 3896 5548.5 7393.2 6035.7 5970.1 5015.5 5021.6 TRUE FALSE FALSE 6109.68144 6112.844285 3486.545572 3971.412714 5123.375129 6763.257767 5356.547151 5817.393487 4980.596727 5238.105751 1.166391389 1.166995203 0.66561191 0.758177269 0.978096925 1.2911648 1.022611495 1.110591073 0.950839285 1 12.35482947 GSVS(ph)SVSPKPPSSFK ddPTM_HeLa_SAHA_4h_R1 1 GSVSSVSPKPPSSFK 15 1 F5GZ90;Q9NZJ0 F5GZ90 DTL Denticleless protein homolog 1 0 GS(0.001)VS(0.657)S(0.34)VS(0.002)PKPPSSFK 111.11 0.0011693 18616000 5316.6 5245.9 4562.6 5494.8 5373.7 5909.7 5937.2 6176.6 6628.4 5814.6 TRUE FALSE FALSE 5875.824381 5415.870602 5184.367367 5601.1598 4961.968267 5406.160313 5269.13063 6018.611516 6582.272425 6065.295862 0.968761379 0.892927687 0.854759188 0.923476765 0.818091711 0.891326728 0.868734312 0.992303039 1.085235176 1 12.56636231 -7.332294608 2.857824678 0.987168339 0.887041902 0.520487948 0.053293422 0.148231539 2.29594765 0.007359387 0.008485195 4.65E-08 7.332294608 -0.100126437 GSVSDEEMMELR ddPTM_HeLa_SAHA_4h_R1 1 GSVSDEEMMELR 12 0 P13796;Q5TBN3;Q5TBN5 P13796 LCP1 Plastin-2 0 0 127.51 0.00037785 0 447.94 306.47 360.91 378.58 484.52 466.81 374.6 410.43 375.2 270.31 FALSE FALSE TRUE 495.0563844 316.3998291 410.0929353 385.9079633 447.3961823 427.0351618 332.4490221 399.9317949 372.5889527 281.964387 1.755740822 1.12212692 1.454413941 1.368640797 1.586711666 1.514500347 1.17904614 1.418376977 1.321404297 1 8.139369147 -9.614527121 1.427757297 1.00047036 1.463122505 0.133302322 0.200369796 0.314591921 1.153232322 0.137865423 0.031796933 2.43E-10 9.614527121 0.462652146 GSVSS(ph)VSPKPPSSFK ddPTM_HeLa_SAHA_4h_R1 1 GSVSSVSPKPPSSFK 15 1 F5GZ90;Q9NZJ0 F5GZ90 DTL Denticleless protein homolog 1 0 GS(0.003)VS(0.155)S(0.686)VS(0.155)PKPPSSFK 75.911 0.011157 2970600 2272.3 1766.4 1971.6 2486.5 2066 2744.7 2208.9 2628.4 2612.9 2648.8 TRUE FALSE FALSE 2511.31094 1823.632519 2240.27938 2534.629803 1907.703526 2510.836119 1960.348758 2561.169334 2594.716616 2763.002731 0.908906427 0.660018356 0.810813307 0.917346109 0.690445762 0.908734577 0.709499392 0.92695143 0.939093034 1 11.43202127 -7.547520887 3.699724522 0.963258491 0.802954195 0.348454541 0.092231614 0.153823421 4.522799715 0.015648054 0.016828934 2.83E-08 7.547520887 -0.160304296 GSWDCSSPEGNGS(ph)PEPK ddPTM_HeLa_SAHA_4h_R1 2 GSWDCSSPEGNGSPEPK 17 0 Q9UN79;E9PPW0 Q9UN79 SOX13 Transcription factor SOX-13 1 0 GSWDCSSPEGNGS(1)PEPK;GSWDCSSPEGNGS(1)PEPK ; 190.11 3.85E-28 4818300 1226.65 1181.67 1247.49 1453.67 1429.13 1356.24 1389.52 1369.85 1260.66 1274.85 TRUE FALSE FALSE 1355.674675 1219.956883 1417.491441 1481.807885 1319.630368 1240.680722 1233.167553 1334.811221 1251.886964 1329.815022 1.019446052 0.917388406 1.065931289 1.114296244 0.9923413 0.932972407 0.927322621 1.003757062 0.941399325 1 10.37700987 -5.513292811 24.83664121 1.014656677 0.953732706 0.159170821 0.055904884 480.9026402 1245991.28 0.007410131 0.015539835 3.07E-06 5.513292811 -0.060923971 GSWSS(ph)APTSR ddPTM_HeLa_SAHA_4h_R1 1 GSWSSAPTSR 10 0 H7BXC7;Q9H7P9-3;Q9H7P9 H7BXC7 PLEKHG2 Pleckstrin homology domain-containing family G member 2 1 0 GS(0.002)WS(0.239)S(0.379)APT(0.379)SR 101.35 0.0093775 22837000 2963.6 3416.2 2986.2 2899.5 2986.8 3455.5 2947.6 2905.8 3012 3198.3 TRUE FALSE FALSE 3275.325045 3526.887121 3393.143785 2955.624015 2757.952029 3161.07196 2615.92829 2831.473844 2991.039247 3336.194365 0.981754864 1.057158767 1.017070174 0.885926805 0.826676065 0.947508333 0.784105482 0.848713694 0.896542263 1 11.70398763 -6.160322715 4.273357817 0.998838745 0.854228318 0.600824674 0.053969663 0.090524446 2.861305489 0.006393402 0.010804074 6.91E-07 6.160322715 -0.144610428 GSYGDLGGPIITTQVTIPK ddPTM_HeLa_SAHA_4h_R1 2 GSYGDLGGPIITTQVTIPK 19 0 P61978;P61978-2;P61978-3;Q5T6W2;S4R359 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 ; ; 233.02 2.24E-48 17534000 1978.91 2179.37 1762.22 2390.7 2077.93 2110.36 2225.79 2583.27 2447.08 1859.35 FALSE FALSE TRUE 2187.060833 2249.983018 2002.366164 2436.975456 1918.719452 1930.545455 1975.338251 2517.193694 2430.050571 1939.515678 1.127632459 1.160074674 1.032405248 1.256486598 0.989277619 0.995375019 1.018469855 1.297846531 1.252916178 1 10.92148072 -9.316682597 1.034661505 0.999835643 1.104074504 0 0.127796951 0.874012978 1.671562517 0.066409949 0.017529516 4.82E-10 9.316682597 0.10423886 GSYGS(ph)DAEEEEYR ddPTM_HeLa_SAHA_4h_R1 1 GSYGSDAEEEEYR 13 0 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3IS03 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 GS(0.041)YGS(0.959)DAEEEEYR 242.4 9.41E-32 74951000 1096.1 1551.2 948.68 1032.3 1295.1 1366.3 1554 961.43 1945.1 1294.5 TRUE FALSE FALSE 1211.392827 1601.459898 1077.96117 1052.281659 1195.869718 1249.883553 1379.13983 936.8380127 1931.563891 1350.31223 0.897120533 1.185992293 0.798305122 0.779287661 0.885624592 0.925625589 1.02134884 0.693793622 1.430457229 1 10.39907732 GSYGS(ph)DAEEEEYRQQLSEHSK ddPTM_HeLa_SAHA_4h_R1 4 GSYGSDAEEEEYRQQLSEHSK 21 1 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3IS03 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 GS(0.003)YGS(0.997)DAEEEEYRQQLSEHSK;GS(0.166)Y(0.003)GS(0.831)DAEEEEYRQQLSEHSK;GS(0.01)YGS(0.99)DAEEEEYRQQLSEHSK;GS(0.022)Y(0.002)GS(0.977)DAEEEEYRQQLSEHSK ;;; 94.259 0.00023597 80927900 2803.86 3442.26 1822.71 3342.62 5156.09 6550 3976.58 4733.73 3754.51 4127.88 TRUE FALSE FALSE 3098.782859 3553.791483 2071.099427 3407.321244 4761.031498 5991.903151 3529.124753 4612.648041 3728.382059 4305.853108 0.719667574 0.825339693 0.480996303 0.79132315 1.105711546 1.391571658 0.819611042 1.071250673 0.86588696 1 12.07208339 -5.758231041 24.99999059 0.824027696 1.098258441 0.412071205 0.180779793 81.44106805 634593.6533 0.02945566 0.057002883 1.74E-06 5.758231041 0.274230744 GT(ph)LSDSEIETNSATSTIFGK ddPTM_HeLa_SAHA_4h_R1 1 GTLSDSEIETNSATSTIFGK 20 0 A0A0A0MRB5;Q8WXG6-6;Q8WXG6-8;Q8WXG6-5;Q8WXG6-4;Q8WXG6-7;Q8WXG6-3;Q8WXG6-2;Q8WXG6;F8W8U2 A0A0A0MRB5 MADD MAP kinase-activating death domain protein 1 0 GT(0.885)LS(0.115)DSEIETNSATSTIFGK 192.11 1.73E-31 0 866.26 1084.5 864.56 828.33 951.42 1431.7 1174.5 1290.5 932.21 1128.8 TRUE FALSE FALSE 957.3772013 1119.638512 982.3777344 844.3635249 878.5224051 1309.711105 1042.342169 1257.490879 925.7226747 1177.468092 0.813081227 0.950886499 0.834313678 0.717100982 0.746111433 1.112311335 0.885240267 1.067961745 0.786197673 1 10.20147225 -5.252367001 24.99561143 0.882365403 1.008178019 0.340690106 0.105023598 855.3959075 2356723.861 0.01650074 0.041394131 5.59E-06 5.252367001 0.125812616 GT(ph)PDTDLEVQR ddPTM_HeLa_SAHA_4h_R1 1 GTPDTDLEVQR 11 0 P0C7T5 P0C7T5 ATXN1L Ataxin-1-like 1 0 GT(0.998)PDT(0.002)DLEVQR 117.95 0.004129 7822800 430.08 859.84 528.01 612.87 678.34 769.37 576.54 483.51 931.17 741.76 TRUE FALSE FALSE 475.3177877 887.6993802 599.964453 624.7329851 626.3657357 703.8153476 511.6662018 471.1425143 924.6899122 773.7409037 0.614311309 1.147282477 0.77540744 0.807418843 0.809529046 0.909626652 0.66128881 0.608915093 1.195089865 1 9.595706733 -9.657082272 1.497226982 1.000067911 0.774419916 0.315897633 0.163702824 0.501494955 2.02127568 0.111759167 0.025123461 2.20E-10 9.657082272 -0.225647995 GT(ph)PGPPPAHGAALQPHPR ddPTM_HeLa_SAHA_4h_R1 1 GTPGPPPAHGAALQPHPR 18 0 Q15654 Q15654 TRIP6 Thyroid receptor-interacting protein 6 1 0 GT(1)PGPPPAHGAALQPHPR 97.45 0.0011112 4710700 1084.7 1139.3 1091.3 1394.8 1257.6 1098.8 1333.1 999.69 1205.3 1282.9 TRUE FALSE FALSE 1198.793723 1176.214068 1240.016681 1421.798371 1161.24296 1005.176058 1183.096079 974.1193773 1196.912219 1338.212097 0.895817431 0.878944429 0.926621933 1.062461155 0.867757033 0.751133591 0.88408712 0.727925999 0.894411448 1 10.38609108 -2.005162104 0.288469149 0.965214252 8.23E-22 0.410123557 0.072630763 19.65721934 0.423153458 0.031188967 8.740290245 0.009881842 2.005162104 -0.965214252 GT(ph)PLYGQPSWWGDDEVDEKR ddPTM_HeLa_SAHA_4h_R1 1 GTPLYGQPSWWGDDEVDEKR 20 1 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 GT(0.993)PLY(0.007)GQPSWWGDDEVDEKR 73.138 0.0019602 0 215.9 318.31 329.74 503.73 339.45 414.29 460.47 581.05 397.6 358.18 TRUE FALSE FALSE 238.6093526 328.6234529 374.67525 513.4804226 313.4414143 378.9901613 408.6567037 566.1875824 394.8330692 373.6228927 0.638636864 0.879559201 1.00281663 1.374328053 0.838924543 1.01436547 1.093767838 1.51539853 1.056768943 1 8.545439045 -6.645001427 3.421489336 0.827637144 1.140105225 0.253201146 0.206650785 0.220940562 5.085932234 0.034582591 0.049788583 2.26E-07 6.645001427 0.312468081 GT(ph)PPLTPSDSPQTR ddPTM_HeLa_SAHA_4h_R1 1 GTPPLTPSDSPQTR 14 0 Q6NZY4-2;Q6NZY4 Q6NZY4-2 ZCCHC8 Zinc finger CCHC domain-containing protein 8 1 0 GT(1)PPLTPSDSPQTR 177.81 1.66E-06 6194600 280.34 374.78 328.97 287.23 269.27 308.87 198.73 466.49 306.27 283.03 TRUE FALSE FALSE 309.8274474 386.9231179 373.8003184 292.789752 248.6385908 282.5525383 176.3683774 454.5578613 304.1386421 295.2328084 1.04943434 1.310569513 1.266120525 0.991724983 0.84217805 0.957049929 0.597387459 1.539659036 1.030165461 1 8.205709243 -6.011048647 24.21386442 1.069310939 0.949822729 0.04736865 0.242369194 898.05784 1968164.764 0.03418947 0.059078626 9.75E-07 6.011048647 -0.11948821 GT(ph)PPPVFTPPLPK ddPTM_HeLa_SAHA_4h_R1 2 GTPPPVFTPPLPK 13 0 Q6NZY4-2;Q6NZY4 Q6NZY4-2 ZCCHC8 Zinc finger CCHC domain-containing protein 8 1 0 GT(1)PPPVFTPPLPK;GT(1)PPPVFTPPLPK ; 122.46 0.0018453 10263800 3021.79 3095.71 3123.84 3087.37 3212.45 3488.96 3175.73 3134.5 3339.19 3002.16 TRUE FALSE FALSE 3339.635737 3196.013035 3549.540647 3147.130511 2966.312775 3191.68098 2818.388502 3054.324029 3315.952305 3131.59781 1.066431879 1.020569444 1.133459934 1.004959992 0.947220223 1.019186107 0.899984185 0.975324487 1.058869148 1 11.61268322 -5.985391527 8.413856095 1.039482361 0.962084651 0.494571302 0.04400691 0.136858275 59.06200442 0.00679945 0.012193258 1.03E-06 5.985391527 -0.07739771 GT(ph)PSQSPVVGR ddPTM_HeLa_SAHA_4h_R1 2 GTPSQSPVVGR 11 0 C9J2I0;B8ZZY2;P52594-2;P52594-3;P52594;P52594-4 C9J2I0 AGFG1 Arf-GAP domain and FG repeat-containing protein 1 1 0 GT(0.856)PS(0.072)QS(0.072)PVVGR;GT(0.908)PS(0.083)QS(0.009)PVVGR ; 99.539 0.014939 21375800 1752.3 1558.23 1244.42 1858.9 1874.38 1636.79 1748.18 1460.28 2433.13 1636.87 TRUE FALSE FALSE 1936.614954 1608.717674 1414.003077 1894.881698 1730.765409 1497.326284 1551.470185 1422.928152 2416.19765 1707.443476 1.134219071 0.942179168 0.82814049 1.109777116 1.013658978 0.876940469 0.908650978 0.833367647 1.415096713 1 10.7376221 -4.419601213 0.443027173 1.053423459 0.702668137 0.284638719 0.143112726 3.64141148 0.5267422 0.02377921 0.651972441 3.81E-05 4.419601213 -0.350755322 GTDDSPKDS(ph)QEDLQER ddPTM_HeLa_SAHA_4h_R1 1 GTDDSPKDSQEDLQER 16 1 Q969E4;Q5H9L2;Q6IPX3-2;Q6IPX3 Q969E4 TCEAL3;TCEAL5;TCEAL6 Transcription elongation factor A protein-like 3;Transcription elongation factor A protein-like 5;Transcription elongation factor A protein-like 6 1 0 GT(0.006)DDS(0.07)PKDS(0.924)QEDLQER 75.215 0.010032 11621000 2623.8 2616 2449.7 2551.1 2288.4 2659.2 2468.8 2673.2 2736.9 2714.7 TRUE FALSE FALSE 2899.783322 2700.760116 2783.532359 2600.480229 2113.063286 2432.6212 2191.004126 2604.823415 2717.85369 2831.744002 1.024027356 0.953744447 0.982974575 0.918331681 0.746205619 0.859054066 0.77372959 0.91986543 0.959780859 1 11.46747513 -6.082227248 2.816896195 1.005015464 0.823509841 0.674392962 0.050665602 0.091714001 1.423187825 0.006883482 0.012348345 8.28E-07 6.082227248 -0.181505624 GTDTQTPAVLS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 2 GTDTQTPAVLSPSK 14 0 P46087;P46087-4;P46087-2 P46087 NOP2 Probable 28S rRNA (cytosine(4447)-C(5))-methyltransferase 1 0 GTDTQTPAVLS(0.983)PS(0.017)K;GTDTQTPAVLS(0.91)PS(0.09)K ; 153.72 4.67E-05 185421000 5233 7698 3638.5 5560.1 6338.2 7306.3 6245.2 5670.7 8692.2 5816.8 TRUE FALSE FALSE 5783.43095 7947.420251 4134.335832 5667.723776 5852.568485 6683.762136 5542.47366 5525.651705 8631.710272 6067.590715 0.953167612 1.309814822 0.681380143 0.934097905 0.964562173 1.10155125 0.913455426 0.910682998 1.422592702 1 12.56690806 GTDTQTPAVLS(ph)PSKTQATLKPK ddPTM_HeLa_SAHA_4h_R1 2 GTDTQTPAVLSPSKTQATLKPK 22 2 P46087;P46087-4;P46087-2 P46087 NOP2 Probable 28S rRNA (cytosine(4447)-C(5))-methyltransferase 1 0 GTDTQTPAVLS(0.311)PS(0.301)KT(0.301)QAT(0.087)LKPK;GTDT(0.002)QT(0.018)PAVLS(0.959)PS(0.017)KT(0.002)QAT(0.002)LKPK ; 59.857 0.0045329 9069200 2813.5 2568.2 2464.5 3005.8 2449.4 2596.9 2930.3 2541.4 3133.7 2430.4 TRUE FALSE FALSE 3109.436839 2651.411365 2800.349225 3063.981605 2261.727501 2375.62951 2600.574932 2476.394668 3111.892327 2535.186438 1.226512099 1.045844726 1.104593013 1.208582359 0.892134585 0.93706304 1.025792381 0.976809686 1.227480662 1 11.30787613 -5.75462448 24.99997132 1.110514914 0.961303894 0.533052773 0.079344607 134.7841115 494441.2378 0.013745567 0.027006149 1.76E-06 5.75462448 -0.14921102 GTDTQTPAVLSPS(ph)KTQATLKPK ddPTM_HeLa_SAHA_4h_R1 2 GTDTQTPAVLSPSKTQATLKPK 22 2 P46087;P46087-4;P46087-2 P46087 NOP2 Probable 28S rRNA (cytosine(4447)-C(5))-methyltransferase 1 0 GTDTQT(0.001)PAVLS(0.116)PS(0.827)KT(0.041)QAT(0.014)LKPK;GTDT(0.001)QT(0.005)PAVLS(0.198)PS(0.55)KT(0.123)QAT(0.123)LKPK ; 67.227 0.0032432 17719200 1177.05 1067.41 888.28 1210.02 1202.46 1145.01 1171.19 1510.45 1153.09 966.89 TRUE FALSE FALSE 1300.857519 1101.994784 1009.330172 1233.441687 1110.327775 1047.448706 1039.404619 1471.814876 1145.065553 1008.57736 1.289794488 1.092622964 1.00074641 1.222951988 1.100885087 1.038540769 1.030565091 1.459297953 1.135327441 1 9.97810603 -9.683063383 1.562318642 1.0002878 1.164041381 0.021124878 0.138599158 0.571080254 2.518185187 0.09519395 0.021342286 2.07E-10 9.683063383 0.163753581 GTDVNVFNTILTTR ddPTM_HeLa_SAHA_4h_R1 2 GTDVNVFNTILTTR 14 0 P04083 P04083 ANXA1 Annexin A1 0 0 ; ; 203.74 1.26E-23 2576420 75.483 366.75 146.16 287.94 178.78 105.33 430.31 300.82 183.67 405.75 FALSE FALSE TRUE 83.42264827 378.6329406 166.0779236 293.5134951 165.081915 96.35529143 381.8903863 293.12546 182.3918255 423.2438682 0.197103029 0.894597581 0.392392982 0.693485522 0.390039709 0.227659037 0.902293961 0.69256871 0.430937904 1 8.725345357 -9.608910814 1.416759495 0.999600623 0.504835101 0 0.295923735 0.379856531 1.370323261 0.176977448 0.040886427 2.46E-10 9.608910814 -0.494765523 GTEAPAVVT(ph)EEEDDDEETAPPVIAPRPDHTK ddPTM_HeLa_SAHA_4h_R1 4 GTEAPAVVTEEEDDDEETAPPVIAPRPDHTK 31 1 Q13177 Q13177 PAK2 Serine/threonine-protein kinase PAK 2;PAK-2p27;PAK-2p34 1 0 GTEAPAVVT(1)EEEDDDEETAPPVIAPRPDHTK;GTEAPAVVT(1)EEEDDDEETAPPVIAPRPDHTK;GTEAPAVVT(0.999)EEEDDDEET(0.001)APPVIAPRPDHTK;GTEAPAVVT(1)EEEDDDEETAPPVIAPRPDHTK ;;; 139.67 1.49E-14 114632000 9344.65 9301.2 8732.08 8074.01 9521.22 10297.85 9890.3 9507.04 9274.2 9636.15 TRUE FALSE FALSE 10327.56316 9602.564983 9922.042388 8230.294139 8791.706181 9420.415246 8777.417414 9263.863683 9209.660087 10051.61158 1.027453466 0.95532591 0.98710961 0.81880344 0.874656378 0.937204464 0.873234838 0.921629691 0.916237164 1 13.29513921 -6.414536602 5.786324122 1.007383129 0.886963165 0.456226293 0.045004836 0.090183992 4.121310291 0.005458072 0.008360359 3.85E-07 6.414536602 -0.120419964 GTEDITSPHGIPLDLLDR ddPTM_HeLa_SAHA_4h_R1 2 GTEDITSPHGIPLDLLDR 18 0 Q9Y265;H7C4G5;Q9Y265-2;J3QLR1;E7ETR0 Q9Y265 RUVBL1 RuvB-like 1 0 0 ; ; 163.34 5.05E-06 8440000 3257.4 3670.1 2308.4 3861.1 4156.4 4850.2 4475.8 4331 4119 3708.4 FALSE FALSE TRUE 3600.028277 3789.013648 2622.97673 3935.837174 3837.93753 4436.935674 3972.171204 4220.219291 4090.335544 3868.287272 0.930651739 0.97950679 0.678071856 1.017462483 0.992154217 1.14700263 1.026855278 1.09097877 1.057402218 1 11.91747922 -5.590634343 2.671813011 0.946179881 1.080861218 0.28724995 0.100779647 0.275339972 3.964043778 0.014174869 0.032028703 2.57E-06 5.590634343 0.134681337 GTENTFPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 GTENTFPSPK 10 0 J3QSD2;J3QRZ1;A6NIZ0;Q9GZM8-3;Q9GZM8;Q9GZM8-2 J3QSD2 NDEL1 Nuclear distribution protein nudE-like 1 1 0 GTENT(0.059)FPS(0.941)PK 94.547 0.014666 10448000 2919.1 2641.5 3013.2 2643 3017.4 3450.5 3572 3227.2 3362.1 3564.7 TRUE FALSE FALSE 3226.144331 2727.086333 3423.823204 2694.159087 2786.207464 3156.497988 3170.069159 3144.652897 3338.702872 3718.391662 0.867618214 0.733404811 0.92078068 0.724549572 0.749304462 0.84888798 0.852537722 0.845702439 0.897888973 1 11.86046302 -8.421017915 0.692928052 0.993355444 0.810418118 0.360883077 0.066531981 0.338266402 0.34232019 0.029382133 0.014355963 3.79E-09 8.421017915 -0.182937326 GTEPS(ph)PGGT(ph)PQPSRPVSPAGPPEGVPEEAQPPR ddPTM_HeLa_SAHA_4h_R1 1 GTEPSPGGTPQPSRPVSPAGPPEGVPEEAQPPR 33 1 I3L1Q2;Q8WUZ0;Q8WUZ0-2 I3L1Q2 BCL7C B-cell CLL/lymphoma 7 protein family member C 2 0 GT(0.002)EPS(0.404)PGGT(0.653)PQPS(0.562)RPVS(0.379)PAGPPEGVPEEAQPPR 83.939 8.65E-07 28487000 366.58 425.83 375.14 421.51 482.14 297.52 565.87 542.42 437.32 451.65 TRUE FALSE FALSE 405.1385663 439.6271714 426.2621256 429.6689356 445.1985374 272.1696222 502.1968183 528.5456818 434.2766545 471.1228418 0.859942525 0.933147647 0.904779153 0.912010409 0.944973365 0.577704153 1.06595727 1.121885069 0.921790701 1 8.879959471 -9.512853628 1.254751614 1.00018641 0.904280066 0.000255471 0.137877887 1.147202635 3.223318189 0.094257402 0.022540313 3.07E-10 9.512853628 -0.095906345 GTEPS(ph)PGGTPQPSRPVSPAGPPEGVPEEAQPPR ddPTM_HeLa_SAHA_4h_R1 1 GTEPSPGGTPQPSRPVSPAGPPEGVPEEAQPPR 33 1 I3L1Q2;Q8WUZ0;Q8WUZ0-2 I3L1Q2 BCL7C B-cell CLL/lymphoma 7 protein family member C 1 0 GT(0.013)EPS(0.783)PGGT(0.073)PQPS(0.058)RPVS(0.073)PAGPPEGVPEEAQPPR 86.076 7.86E-08 31112000 237.06 258.85 202.12 212.13 221.46 391.4 232.17 60.594 187.65 281.3 TRUE FALSE FALSE 261.9950585 267.2369098 229.663861 216.2360829 204.4917826 358.050518 206.0456206 59.04409322 186.3441284 293.4282196 0.892876148 0.910740317 0.782691799 0.736930085 0.696905645 1.22023205 0.702201107 0.201221591 0.635058648 1 8.196863815 -4.346492813 3.436273742 0.916091442 0.168398359 0.558150922 0.168529845 0.107933325 2.066627025 0.020027617 0.180020084 4.50E-05 4.346492813 -0.747693083 GTEPSPGGT(ph)PQPS(ph)RPVSPAGPPEGVPEEAQPPR ddPTM_HeLa_SAHA_4h_R1 1 GTEPSPGGTPQPSRPVSPAGPPEGVPEEAQPPR 33 1 I3L1Q2;Q8WUZ0;Q8WUZ0-2 I3L1Q2 BCL7C B-cell CLL/lymphoma 7 protein family member C 2 0 GT(0.005)EPS(0.181)PGGT(0.793)PQPS(0.822)RPVS(0.198)PAGPPEGVPEEAQPPR 72.514 0.00026527 0 264.66 335.22 272.51 264.14 390.48 408.82 297.43 279.19 322.78 479.51 TRUE FALSE FALSE 292.4981531 346.0813479 309.6462436 269.2528117 360.5615068 373.986236 263.9623936 272.0487241 320.5337477 500.1840228 0.58478108 0.691908042 0.619064643 0.538307502 0.720857705 0.747697285 0.527730558 0.543897269 0.64083164 1 8.966315164 -9.301808557 0.717629784 1.039188283 0.61972165 0.026564245 0.132911343 0.324652032 0.255327761 0.083906692 0.015871022 4.99E-10 9.301808557 -0.419466633 GTEPSPGGTPQPS(ph)RPVSPAGPPEGVPEEAQPPR ddPTM_HeLa_SAHA_4h_R1 1 GTEPSPGGTPQPSRPVSPAGPPEGVPEEAQPPR 33 1 I3L1Q2;Q8WUZ0;Q8WUZ0-2 I3L1Q2 BCL7C B-cell CLL/lymphoma 7 protein family member C 1 0 GTEPS(0.006)PGGT(0.255)PQPS(0.725)RPVS(0.014)PAGPPEGVPEEAQPPR 105.53 2.83E-13 28746000 910.02 1044.3 750.65 1006 952.87 1273.2 1420.3 1004.6 990.72 1044.9 TRUE FALSE FALSE 1005.740079 1078.136005 852.9446728 1025.472585 879.8613065 1164.716197 1260.484106 978.9037866 983.8254989 1089.950753 0.92273901 0.989160292 0.782553405 0.940843045 0.80724868 1.06859525 1.156459687 0.898117446 0.902632983 1 10.09004724 GTFHDDRDDGVDYWAK ddPTM_HeLa_SAHA_4h_R1 3 GTFHDDRDDGVDYWAK 16 1 E9PK91;Q9NYF8-3;H0YF63 E9PK91 BCLAF1 Bcl-2-associated transcription factor 1 0 0 ;; ;; 83.633 0.0064976 47875900 16975.5 14430.2 15371.5 17204.5 18632.9 18536.2 19323 13144.1 18510 15749.5 FALSE FALSE TRUE 18761.06098 14897.74795 17466.24797 17537.51798 17205.25123 16956.81148 17148.72518 12807.89295 18381.1874 16428.53802 1.141979947 0.906821284 1.063165082 1.067503265 1.047278291 1.032155841 1.043837569 0.779612461 1.118857161 1 14.00391648 -4.259995917 5.318370178 1.052963643 0.768253057 0.632398178 0.06100106 0.08330264 8.330474797 0.009227531 0.086133076 5.50E-05 4.259995917 -0.284710587 GTGIVSAPVPK ddPTM_HeLa_SAHA_4h_R1 1 GTGIVSAPVPK 11 0 H0YEN5;P15880;E9PQD7;I3L404;E9PM36;E9PMM9 H0YEN5 RPS2 40S ribosomal protein S2 0 0 130.98 0.0077106 4620900 2567.2 2456.1 2565.5 2427.7 2372.7 2126.9 2294.4 2438.8 2453 1890 FALSE FALSE TRUE 2837.229875 2535.679252 2915.112979 2474.691644 2190.904239 1945.676154 2036.228073 2376.419027 2435.929373 1971.487149 1.439131813 1.286175896 1.478636561 1.255241073 1.111295217 0.986907855 1.032838623 1.205394125 1.235579635 1 10.94506859 -5.673591641 4.601972193 1.244310908 1.068314732 0.321921459 0.134734391 0.315390978 11.9048366 0.028006277 0.056912791 2.12E-06 5.673591641 -0.175996177 GTGQS(ph)DDSDIWDDTALIK ddPTM_HeLa_SAHA_4h_R1 3 GTGQSDDSDIWDDTALIK 18 0 B4DP61;A0A1W2PRV5;E7EQZ4;Q16637-4;Q16637-2;Q16637-3;Q16637 B4DP61 SMN2;SMN1 Survival motor neuron protein 1 0 GT(0.028)GQS(0.925)DDS(0.047)DIWDDTALIK;GT(0.025)GQS(0.938)DDS(0.037)DIWDDTALIK;GT(0.006)GQS(0.928)DDS(0.066)DIWDDTALIK ;; 185.27 6.25E-28 11991600 1058.92 1239.69 1238.92 1318.65 1127.6 1422.61 1532.35 1528.5 1233.39 1063.67 TRUE FALSE FALSE 1170.302064 1279.856769 1407.753566 1344.174378 1041.203532 1301.395625 1359.925945 1489.403183 1224.806739 1109.530019 1.054772781 1.153512521 1.268783666 1.211480856 0.938418532 1.172925114 1.225677468 1.342373039 1.103896891 1 10.11573299 -1 0.120435399 0.926083559 2.022009472 0.271110843 0.100852046 67.15670822 0.555848457 0.445810157 12.4049219 0.1 1 1.095925913 GTGQSDDS(ph)DIWDDTALIK ddPTM_HeLa_SAHA_4h_R1 1 GTGQSDDSDIWDDTALIK 18 0 B4DP61;A0A1W2PRV5;E7EQZ4;Q16637-4;Q16637-2;Q16637-3;Q16637 B4DP61 SMN2;SMN1 Survival motor neuron protein 1 0 GTGQS(0.19)DDS(0.81)DIWDDTALIK 197.38 4.29E-14 12313000 1207.5 1256.7 1456.1 1028 1241.4 1284.6 1475.8 1232.4 1430.6 1501.7 TRUE FALSE FALSE 1334.51039 1297.417905 1654.529725 1047.898427 1146.2842 1175.144853 1309.7391 1200.876992 1420.644338 1566.445636 0.851935337 0.828255941 1.05623182 0.668965716 0.731774007 0.7501983 0.836121644 0.766625387 0.90692221 1 10.61327899 -6.252594511 24.98445026 0.927648984 0.754397174 0.601151522 0.072433252 404.0904336 1141449.576 0.012519053 0.020556929 5.59E-07 6.252594511 -0.17325181 GTGQSDDSDIWDDT(ph)ALIK ddPTM_HeLa_SAHA_4h_R1 2 GTGQSDDSDIWDDTALIK 18 0 B4DP61;A0A1W2PRV5;E7EQZ4;Q16637-4;Q16637-2;Q16637-3;Q16637 B4DP61 SMN2;SMN1 Survival motor neuron protein 1 0 GTGQSDDSDIWDDT(1)ALIK;GTGQSDDS(0.138)DIWDDT(0.862)ALIK ; 240.12 3.80E-37 5071000 1296.24 1339.05 1368.58 1536.7 1437.82 1516.06 1950.44 1664.72 1879.52 1613.42 TRUE FALSE FALSE 1432.584471 1382.436099 1555.082955 1566.445051 1327.654542 1386.883159 1730.971358 1622.138873 1866.440267 1682.982432 0.851217721 0.821420398 0.924004271 0.930755438 0.788870114 0.824062766 1.028514217 0.963847775 1.109007576 1 10.7168044 -9.398424882 1.140366338 0.999608878 0.887437373 0.361561593 0.078543468 0.563513028 1.317879358 0.049462768 0.01279284 4.00E-10 9.398424882 -0.112171505 GTHDRDPSEK(ac)PPR ddPTM_HeLa_SAHA_4h_R1 1 GTHDRDPSEKPPR 13 2 Q969S3 Q969S3 ZNF622 Zinc finger protein 622 0 1 GTHDRDPSEK(1)PPR 61.235 0.019963 238260 123.65 144.36 0 160.01 167.95 0 308.3 221.15 221.25 0 FALSE TRUE FALSE 136.6560743 149.0373587 0 163.1072249 155.0817073 0 273.6092726 215.4933032 219.7103032 0 0 GTHDRDPSEKPPR ddPTM_HeLa_SAHA_4h_R1 2 GTHDRDPSEKPPR 13 2 Q969S3 Q969S3 ZNF622 Zinc finger protein 622 0 0 ; ; 48.044 0.019326 1230270 542.66 378.03 304.86 474.72 585.59 0 644.32 428.14 518.21 336.78 FALSE FALSE TRUE 599.7394686 390.27842 346.4047332 483.9088921 540.7222207 0 571.8194178 417.1887987 514.6037344 351.300234 1.707199172 1.110954057 0.986064624 1.377479561 1.539202564 0 1.627722849 1.187556279 1.464854517 1 8.456560727 GTIQVITQGTSLK ddPTM_HeLa_SAHA_4h_R1 2 GTIQVITQGTSLK 13 0 A0A286YF22;A0A2C9F2M7;O43175 A0A286YF22 PHGDH D-3-phosphoglycerate dehydrogenase 0 0 ; ; 229.56 2.45E-43 4638700 1789.92 2292.74 1900.31 2271.3 2195.01 2418.24 2476.9 1801.12 2055.24 2233.38 FALSE FALSE TRUE 1978.191998 2367.02628 2159.27435 2315.264296 2026.828808 2212.192347 2198.192693 1755.049958 2040.937418 2329.671942 0.849128997 1.016034163 0.926857688 0.99381559 0.870006103 0.949572473 0.943563192 0.753346395 0.876062153 1 11.1859111 -4.259890232 24.28506609 0.935669262 0.753346305 0.503325424 0.054465668 66.37808922 1040414.327 0.008574286 0.072481316 5.50E-05 4.259890232 -0.182322957 GTLDEEDEEADS(ph)DTDDIDHR ddPTM_HeLa_SAHA_4h_R1 5 GTLDEEDEEADSDTDDIDHR 20 0 Q9HCN4-3;Q9HCN4-2;Q9HCN4-4;Q9HCN4;Q9HCN4-5 Q9HCN4-3 GPN1 GPN-loop GTPase 1 1 0 GTLDEEDEEADS(0.985)DT(0.015)DDIDHR;GTLDEEDEEADS(0.926)DT(0.074)DDIDHR;GTLDEEDEEADS(0.984)DT(0.016)DDIDHR;GTLDEEDEEADS(0.865)DT(0.135)DDIDHR;GTLDEEDEEADS(0.949)DT(0.051)DDIDHR ;;;; 170.18 1.34E-07 560136000 9095.76 11919.6 9505.93 11020.27 12083.6 13522 12225.3 10664.98 14270.1 10567.4 TRUE FALSE FALSE 10052.49377 12305.80286 10801.34864 11233.58326 11157.75718 12369.84953 10849.67707 10392.18525 14170.79321 11023.01233 0.911955232 1.116373863 0.979890824 1.019102848 1.012223959 1.122184132 0.984275146 0.942771807 1.285564489 1 13.42823091 -7.290011145 24.99575861 0.958423307 1.024928666 0 0.118049283 822.3329002 719408.3949 0.010275443 0.011751411 5.13E-08 7.290011145 0.066505359 GTLDPVEK ddPTM_HeLa_SAHA_4h_R1 3 GTLDPVEK 8 0 P11142;E9PKE3;P11142-2;E9PNE6;E9PN89;A8K7Q2 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ;; ;; 129.47 0.0010814 22274900 8577.9 8215.2 7494.6 8124.2 8725.6 9545.4 10214 9409.7 8260.4 8206.8 FALSE FALSE TRUE 9480.162879 8481.37787 8515.925058 8281.455639 8057.046413 8732.078219 9064.693838 9169.013499 8202.915204 8560.635311 1.107413473 0.99074164 0.994777227 0.967387973 0.941173887 1.020026891 1.058880972 1.071066944 0.958213369 1 13.06350215 -7.204119402 24.99796317 1.050723193 1.00440051 0 0.052581491 425.5655171 185594.2282 0.0092444 0.011322026 6.25E-08 7.204119402 -0.046322682 GTLGK(ac)FTVPMLK ddPTM_HeLa_SAHA_4h_R1 2 GTLGKFTVPMLK 12 1 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 1 ; GTLGK(1)FTVPMLK;GTLGK(1)FTVPMLK 119.74 0.00255 381390 136.37 0 0 167.96 118.02 224.747 113.46 75.365 213.1 172.69 FALSE TRUE FALSE 150.7140223 0 0 171.2111087 108.9773331 205.5972912 100.6931822 73.43727243 211.6170197 180.135511 0.836670246 0 0 0.950457285 0.60497418 1.141347922 0.558985741 0.407677931 1.1747657 1 7.492938805 -7.494809981 18.28332465 0.927949885 0.538670093 0.283036236 0.346582945 17.22568888 11221.87828 0.062016646 0.067656229 3.20E-08 7.494809981 -0.389279792 GTLNPGLTK(ac)PPVPR ddPTM_HeLa_SAHA_4h_R1 2 GTLNPGLTKPPVPR 14 1 Q92585 Q92585 MAML1 Mastermind-like protein 1 0 1 ; GTLNPGLTK(1)PPVPR;GTLNPGLTK(1)PPVPR 149.69 7.01E-05 10915000 1222.85 1244.05 1348.89 1522.77 1256.72 1175.14 1455.31 1740.06 1348.34 1348.9 FALSE TRUE FALSE 1351.474974 1284.358036 1532.709704 1552.245415 1160.430385 1075.011461 1291.554689 1695.551785 1338.956792 1407.05768 0.960497208 0.912797005 1.08930126 1.103185347 0.824721261 0.764013783 0.917911687 1.205033602 0.9516005 1 10.45846576 -5.751823363 24.99966018 0.991810396 0.915497643 0.07682646 0.120764661 421.9705362 1097028.153 0.017446785 0.034535014 1.77E-06 5.751823363 -0.076312753 GTNESLER ddPTM_HeLa_SAHA_4h_R1 2 GTNESLER 8 0 P08670;B0YJC4;B0YJC5;A0A1X7SBR3;P14136-2;A0A1W2PR46;P14136-3;P14136;A0A1W2PRT3 P08670 VIM;GFAP Vimentin;Glial fibrillary acidic protein 0 0 ; ; 120.99 0.0057392 1104900 2999.7 3523.63 2724.45 3593 3581.7 4480.8 4351.2 3462.5 4111.2 3684.8 FALSE FALSE TRUE 3315.222209 3637.797924 3095.723858 3662.547711 3307.27092 4099.010632 3861.591524 3373.934264 4082.589824 3843.669761 0.86251484 0.946438729 0.805408386 0.952877832 0.860446169 1.066431532 1.00466267 0.87778984 1.062159363 1 11.90826867 GTNS(ph)SDSEELSAGESITK ddPTM_HeLa_SAHA_4h_R1 1 GTNSSDSEELSAGESITK 18 0 Q4LE39-2;Q4LE39;H7C5R6 Q4LE39-2 ARID4B AT-rich interactive domain-containing protein 4B 1 0 GTNS(0.699)S(0.298)DS(0.003)EELSAGESITK 216.16 1.01E-21 8707600 2268.2 2454.9 2562.6 3315 2836.2 4264.8 3588.3 3459.2 2723.4 2157 TRUE FALSE FALSE 2506.779683 2534.440371 2911.817783 3379.166619 2618.890969 3901.415047 3184.53504 3370.718673 2704.447638 2249.998826 1.114124885 1.12641853 1.294141912 1.501852614 1.163952149 1.733963148 1.415349645 1.49809797 1.201977355 1 11.13570853 -6.509448511 0.618063618 1.026264086 1.529545761 0.570552568 0.141191168 0.298638614 0.229679616 0.029571815 0.063600178 3.09E-07 6.509448511 0.503281675 GTNSS(ph)DSEELSAGESITK ddPTM_HeLa_SAHA_4h_R1 1 GTNSSDSEELSAGESITK 18 0 Q4LE39-2;Q4LE39;H7C5R6 Q4LE39-2 ARID4B AT-rich interactive domain-containing protein 4B 1 0 GTNS(0.168)S(0.83)DS(0.002)EELSAGESITK 309.59 3.95E-103 7807900 850.69 1008.8 777.16 1080.6 1357.5 1295.6 1176.6 1045.5 691.89 686.03 TRUE FALSE FALSE 940.1694773 1041.485782 883.0673175 1101.516576 1253.488643 1185.207591 1044.205871 1018.757624 687.0750812 715.6081106 1.313804949 1.455385659 1.234009655 1.539273464 1.751641191 1.656224368 1.459186747 1.423625038 0.960127577 1 9.483025929 -7.931666408 0.406989603 0.976655732 1.582194189 0.745475832 0.123580293 0.433733149 0.185750687 0.105015555 0.064920052 1.17E-08 7.931666408 0.605538457 GTNTS(ph)SPYDAGADYLR ddPTM_HeLa_SAHA_4h_R1 1 GTNTSSPYDAGADYLR 16 0 Q9UJJ2;Q8ND82 Q9UJJ2 ZNF280C Zinc finger protein 280C 1 0 GTNT(0.023)S(0.71)S(0.266)PYDAGADYLR 207.05 1.60E-15 6584900 926.72 822.45 616.83 625.49 773.55 824.96 781.07 779.23 764.94 966.7 TRUE FALSE FALSE 1024.196662 849.0979196 700.8883801 637.5972634 714.2807661 754.6687669 693.1819479 759.2984249 759.6167203 1008.379168 1.015686058 0.842042306 0.695064319 0.632299123 0.708345421 0.748397816 0.687421924 0.752989004 0.753304654 1 9.977822504 -7.03306682 2.701486122 1.007758641 0.702315016 0.505448604 0.086942743 0.041261492 0.600919019 0.005819645 0.007474177 9.27E-08 7.03306682 -0.305443625 GTPAGTT(ph)PGASQAPK ddPTM_HeLa_SAHA_4h_R1 1 GTPAGTTPGASQAPK 15 0 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 GTPAGT(0.268)T(0.732)PGASQAPK 169.3 1.50E-17 0 907.32 848.53 790.54 821.05 1319.1 785.26 880.43 689.64 967.58 936.09 TRUE FALSE FALSE 1002.756081 876.0229287 898.2706742 836.94261 1218.030843 718.3514302 781.3616992 672.0000074 960.846532 976.449421 1.026941139 0.897151363 0.919935692 0.857128482 1.247408024 0.735677051 0.800207038 0.688207697 0.984020791 1 9.931401506 -5.199728552 24.99974782 0.998539131 0.747247777 0.550541232 0.102875957 124.5084051 50439.38484 0.013598485 0.034669466 6.31E-06 5.199728552 -0.251291353 GTPGS(ph)PSGTQEPR ddPTM_HeLa_SAHA_4h_R1 4 GTPGSPSGTQEPR 13 0 Q5SXM2 Q5SXM2 SNAPC4 snRNA-activating protein complex subunit 4 1 0 GT(0.015)PGS(0.589)PS(0.028)GT(0.367)QEPR;GTPGS(0.957)PS(0.042)GTQEPR;GTPGS(0.95)PS(0.049)GT(0.001)QEPR;GT(0.006)PGS(0.694)PS(0.296)GT(0.004)QEPR ;;; 162.88 5.11E-05 46801000 4782.13 4495.24 4326.49 4979.63 4545.46 5367.38 5399.09 4694.95 4585.31 4689.07 TRUE FALSE FALSE 5285.136375 4640.888725 4916.081526 5076.017939 4197.187837 4910.049028 4791.570184 4574.859977 4553.400454 4891.238755 1.08053126 0.948816641 1.005079034 1.037777584 0.858103243 1.003845707 0.979623041 0.935317249 0.93092991 1 12.25598417 -6.523532203 1.128519241 1.035040695 0.956889941 0 0.061289693 0.464639909 1.181742529 0.009914933 0.017251912 3.00E-07 6.523532203 -0.078150754 GTPPLTPSDS(ph)PQTR ddPTM_HeLa_SAHA_4h_R1 1 GTPPLTPSDSPQTR 14 0 Q6NZY4-2;Q6NZY4 Q6NZY4-2 ZCCHC8 Zinc finger CCHC domain-containing protein 8 1 0 GTPPLT(0.003)PS(0.026)DS(0.941)PQT(0.03)R 176.43 8.51E-18 0 528.23 447.25 410.86 453.52 455.21 421.57 614.66 448.78 432.66 374.03 TRUE FALSE FALSE 583.791655 461.7411935 466.8498611 462.2985354 420.3319081 385.6498643 545.4968391 437.3008574 429.6490838 390.1562638 1.496302147 1.183477587 1.196571488 1.184906096 1.077342458 0.988449758 1.398149638 1.120835158 1.101223084 1 8.607908252 -6.549517606 2.372764187 1.236780497 1.154934951 0 0.154595184 1.009621666 11.46368835 0.033614666 0.051351073 2.82E-07 6.549517606 -0.081845546 GTPPLTPSDSPQT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 GTPPLTPSDSPQTR 14 0 Q6NZY4-2;Q6NZY4 Q6NZY4-2 ZCCHC8 Zinc finger CCHC domain-containing protein 8 1 0 GTPPLT(0.003)PS(0.029)DS(0.304)PQT(0.664)R 121.92 0.001479 4254200 595.57 460.05 496.5 559.71 577.21 683.5 686.66 584.33 611.3 527.95 TRUE FALSE FALSE 658.2147852 474.9559218 564.1604343 570.5439964 532.9842945 625.2619547 609.3952096 569.3836847 607.0459135 550.7125082 1.195205802 0.862438958 1.024419141 1.036010601 0.967808587 1.135369082 1.106557778 1.033903672 1.102291857 1 9.105155566 GTPSQS(ph)PVVGR ddPTM_HeLa_SAHA_4h_R1 6 GTPSQSPVVGR 11 0 C9J2I0;B8ZZY2;P52594-2;P52594-3;P52594;P52594-4 C9J2I0 AGFG1 Arf-GAP domain and FG repeat-containing protein 1 1 0 GTPS(0.006)QS(0.994)PVVGR;GTPS(0.009)QS(0.991)PVVGR;GTPS(0.008)QS(0.992)PVVGR;GTPS(0.016)QS(0.984)PVVGR;GT(0.003)PS(0.039)QS(0.957)PVVGR;GT(0.018)PS(0.064)QS(0.918)PVVGR ;;;;; 139.19 0.00094823 432670000 11090.97 10535.77 10635.06 11822.9 12259.4 12455.7 13277.6 13270.3 12590.4 12069.2 TRUE FALSE FALSE 12257.56911 10877.13586 12084.35059 12051.74933 11320.08742 11394.40429 11783.5695 12930.86494 12502.78238 12589.56228 0.973629491 0.863980464 0.959870592 0.957281044 0.899164496 0.90506755 0.935979285 1.027109971 0.993106997 1 13.6199405 -7.492807379 14.31423364 0.988372367 0.933582916 0.266653156 0.04123782 2.551824283 1214.787908 0.007030922 0.00773973 3.22E-08 7.492807379 -0.054789451 GTQEVAPPTPLTPT(ph)SHTANTSPRPVSGMER ddPTM_HeLa_SAHA_4h_R1 1 GTQEVAPPTPLTPTSHTANTSPRPVSGMER 30 1 H7BYT1;P48730-2;P48730 H7BYT1 CSNK1D Casein kinase I isoform delta 1 0 GTQEVAPPT(0.002)PLT(0.068)PT(0.181)S(0.181)HT(0.181)ANT(0.181)S(0.181)PRPVS(0.024)GMER 43.612 0.015895 14089000 837.43 864.52 596.45 998 870.33 1138.4 700.73 805.68 835.11 735.4 TRUE FALSE FALSE 925.5147297 892.5310152 677.7310998 1017.317733 803.6455034 1041.401916 621.8820162 785.0718722 829.2984015 767.106693 1.206500658 1.1635031 0.88349001 1.326175019 1.04763198 1.35757115 0.810685165 1.023419401 1.081073088 1 9.583283439 -4.732435896 24.99999263 1.115588064 0.917052347 0.256868627 0.144613706 232.1594352 200109.9908 0.019441047 0.072717231 1.85E-05 4.732435896 -0.198535718 GTQEVAPPTPLTPTSHTANTS(ph)PRPVSGMER ddPTM_HeLa_SAHA_4h_R1 1 GTQEVAPPTPLTPTSHTANTSPRPVSGMER 30 1 H7BYT1;P48730-2;P48730 H7BYT1 CSNK1D Casein kinase I isoform delta 1 0 GTQEVAPPTPLT(0.001)PT(0.12)S(0.12)HT(0.12)ANT(0.12)S(0.467)PRPVS(0.053)GMER 65.171 0.00025932 11191000 1571.9 1912.1 1331.5 1940.3 2040.2 2122.8 1937.3 2075 2484.8 2157.4 TRUE FALSE FALSE 1737.239654 1974.053295 1512.949886 1977.857312 1883.880317 1941.925497 1719.309905 2021.924505 2467.508074 2250.416072 0.771963761 0.877194808 0.67229785 0.87888517 0.837125339 0.862918427 0.763996457 0.898466968 1.096467496 1 11.13597605 -9.3538744 0.984970306 1.004186814 0.816102237 0.587088787 0.073273467 0.340814547 0.570522429 0.046629311 0.01112103 4.43E-10 9.3538744 -0.188084577 GTQGATAGAS(ph)SELDASK ddPTM_HeLa_SAHA_4h_R1 1 GTQGATAGASSELDASK 17 0 O76094-2;O76094 O76094-2 SRP72 Signal recognition particle subunit SRP72 1 0 GTQGAT(0.026)AGAS(0.72)S(0.249)ELDAS(0.005)K 91.926 0.004449 5065800 451.31 664.76 652.53 336.45 532.25 637.42 737.61 450.73 482.38 493.97 TRUE FALSE FALSE 498.7808565 686.2986602 741.4533902 342.9624763 491.46912 583.10823 654.6121815 439.2009792 479.0230783 515.2674641 0.968003787 1.331927024 1.438967996 0.665600877 0.95381361 1.131661264 1.270431819 0.852374756 0.929659083 1 9.009177688 GTQSIPNDS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 2 GTQSIPNDSPAR 12 0 J3QRX6;H9KV77;Q9NQ92 J3QRX6 COPRS Coordinator of PRMT5 and differentiation stimulator 1 0 GTQSIPNDS(1)PAR;GTQSIPNDS(1)PAR ; 204.17 1.69E-10 85550000 5048.3 6975.6 4995.6 5420.5 6046.6 7364.2 6210.7 4826.9 9152.3 5831.5 TRUE FALSE FALSE 5579.303356 7201.614017 5676.374352 5525.421616 5583.310814 6736.72873 5511.85569 4703.434887 9088.608399 6082.924504 0.917207398 1.183906526 0.933165346 0.90834953 0.917866203 1.107481891 0.906119365 0.773219343 1.494118231 1 12.57054938 GTQSTEGS(ph)PVSK ddPTM_HeLa_SAHA_4h_R1 1 GTQSTEGSPVSK 12 0 A0A087WXK8;Q9H4H8-2;Q9H4H8 A0A087WXK8 FAM83D Protein FAM83D 1 0 GTQSTEGS(0.991)PVS(0.009)K 177.93 3.37E-05 8543100 2093.7 2244.9 1620.4 2470.9 2868.2 3039 2909.5 2586.8 2790.5 3816.1 TRUE FALSE FALSE 2313.924972 2317.636233 1841.219673 2518.727842 2648.439136 2780.060103 2582.115403 2520.633402 2771.080683 3980.630747 0.581296061 0.582228391 0.462544705 0.632745915 0.665331528 0.698396882 0.648669914 0.633224622 0.696141104 1 11.95878133 -9.179081295 0.850405073 1.008447853 0.61270074 0.294783396 0.109887687 0.205976424 0.260022868 0.052358893 0.013726879 6.62E-10 9.179081295 -0.395747114 GTRPEDSSVLIPTDNS(ph)TPHKEDLSSK ddPTM_HeLa_SAHA_4h_R1 2 GTRPEDSSVLIPTDNSTPHKEDLSSK 26 2 Q7KZ85-2;U3KQE3;U3KQP6;U3KQ49;L0R819;U3KQP1 Q7KZ85-2 SUPT6H;ASNSD1 Transcription elongation factor SPT6 1 0 GTRPEDSSVLIPT(0.145)DNS(0.421)T(0.421)PHKEDLS(0.007)S(0.007)K;GTRPEDSSVLIPT(0.194)DNS(0.58)T(0.194)PHKEDLS(0.015)S(0.018)K ; 74.408 0.00014476 19152700 3799.4 3880.2 3632 4151.7 4062 4442.4 4324.6 4127.4 4673 3794.1 TRUE FALSE FALSE 4199.038324 4005.921026 4126.950045 4232.062157 3750.770438 4063.882528 3837.984626 4021.827084 4640.480213 3957.682219 1.060984205 1.012188651 1.042769434 1.069328441 0.94771895 1.026833966 0.969755633 1.016207685 1.172524714 1 11.95044006 -5.766652909 24.99949708 1.031781942 0.991295594 0.199455004 0.052756272 127.6562027 612129.5834 0.004612701 0.008546177 1.71E-06 5.766652909 -0.040486348 GTS(ph)PRPPEGGLGYSQLGDDDLK ddPTM_HeLa_SAHA_4h_R1 3 GTSPRPPEGGLGYSQLGDDDLK 22 1 P21127;A0A0D9SEN2;A0A0D9SER5;A0A0D9SEI3;P21127-6;P21127-9;P21127-2;P21127-8;P21127-3;Q9UQ88-3;Q5QPR3;Q5QPR4;Q9UQ88;Q9UQ88-2;Q9UQ88-4;P21127-10;P21127-5;P21127-12;P21127-4;Q9UQ88-5;Q9UQ88-10;Q9UQ88-8 P21127 CDK11B;CDK11A Cyclin-dependent kinase 11B;Cyclin-dependent kinase 11A 1 0 GT(0.331)S(0.669)PRPPEGGLGYSQLGDDDLK;GT(0.267)S(0.669)PRPPEGGLGY(0.045)S(0.02)QLGDDDLK;GT(0.235)S(0.716)PRPPEGGLGY(0.031)S(0.018)QLGDDDLK ;; 76.133 0.00085807 44118600 3234.99 4578.9 2905.55 3916.26 4246.3 5012.2 3889.8 3432.99 6404.1 3908.92 TRUE FALSE FALSE 3575.261091 4727.259364 3301.503223 3992.064875 3920.949411 4585.132362 3452.109467 3345.179087 6359.533347 4077.452671 0.876836932 1.159365846 0.809697497 0.979058544 0.961617394 1.124509033 0.846633853 0.820409054 1.559682934 1 11.99345242 -4.55353862 24.9953959 0.961494706 0.826964796 0.01239177 0.213447719 187.4372216 152807.4474 0.013335619 0.049898301 2.80E-05 4.55353862 -0.134529909 GTS(ph)PSSSSRPQR ddPTM_HeLa_SAHA_4h_R1 1 GTSPSSSSRPQR 12 1 H3BVG0;Q8N1F7;Q8N1F7-2 H3BVG0 NUP93 Nuclear pore complex protein Nup93 1 0 GT(0.034)S(0.901)PS(0.065)SSSRPQR 67.214 0.02251 3626400 191.66 222.27 172.7 361.68 249.09 345.14 367.32 412.04 212.01 454.58 TRUE FALSE FALSE 211.8196782 229.4716938 196.2346566 368.6808394 230.004778 315.7321303 325.9881869 401.5006134 210.5346051 474.1791685 0.446708106 0.483934574 0.413840737 0.777513784 0.485058799 0.665849854 0.687478929 0.846727651 0.443998006 1 8.889288474 -9.411132462 1.143962201 0.999475564 0.585288484 0 0.218689172 0.303623819 0.712061265 0.099127834 0.025244766 3.88E-10 9.411132462 -0.414187081 GTSISTK(ac)PPLTK ddPTM_HeLa_SAHA_4h_R1 2 GTSISTKPPLTK 12 1 C9JW34;C9JGY5;F8WE44;C9JXZ7;C9JTT7;C9J8M3;C9JZI1;P35249-2;P35249 C9JW34 RFC4 Replication factor C subunit 4 0 1 ; GTSISTK(1)PPLTK;GTSISTK(1)PPLTK 190.36 1.02E-16 6177600 5664.3 5124.1 4177.5 4865.9 5302.6 6253.6 5703.9 5734.4 4826.9 5103.4 FALSE TRUE FALSE 6260.097063 5290.124202 4746.787945 4960.086531 4896.315934 5720.758098 5062.08216 5587.722351 4793.30921 5323.432549 1.175951232 0.99374307 0.891678048 0.931745915 0.91976669 1.074637096 0.950905663 1.049646501 0.900417008 1 12.37814108 -7.022446369 23.6502819 1.083180678 0.967400676 0 0.087600369 351.5551428 370410.626 0.013627676 0.016772046 9.50E-08 7.022446369 -0.115780001 GTSS(ph)PDYR ddPTM_HeLa_SAHA_4h_R1 2 GTSSPDYR 8 0 Q66K14;Q66K14-2;G3V133 Q66K14 TBC1D9B TBC1 domain family member 9B 1 0 GT(0.002)S(0.226)S(0.772)PDYR;GT(0.093)S(0.124)S(0.782)PDYR ; 134.77 0.0014429 29010000 7529.6 8601.4 6214.1 10369.9 10627.9 15795.4 11480.4 9655.1 12052.1 13249.4 TRUE FALSE FALSE 8321.597875 8880.091004 7060.925186 10570.62441 9813.592598 14449.54306 10188.59518 9408.136522 11968.22845 13820.64647 0.602113504 0.642523562 0.510896882 0.764842978 0.710067551 1.045504136 0.737201056 0.680730568 0.865967339 1 13.75453748 -9.426147404 1.170483569 0.999054383 0.706369871 0.277814664 0.137102779 0.410387796 1.010617454 0.096115556 0.024491129 3.75E-10 9.426147404 -0.292684512 GTT(ph)PPPPSWEPNSQTK ddPTM_HeLa_SAHA_4h_R1 2 GTTPPPPSWEPNSQTK 16 0 O95835;O95835-2 O95835 LATS1 Serine/threonine-protein kinase LATS1 1 0 GT(0.003)T(0.997)PPPPSWEPNSQTK;GT(0.005)T(0.995)PPPPSWEPNSQTK ; 163.64 5.18E-06 8712100 1547.22 1719.48 1191.6 1701.08 2213.18 2025.07 2087.89 1705.72 2042.06 1495.98 TRUE FALSE FALSE 1709.963698 1775.19228 1353.985042 1734.006863 2043.606627 1852.522643 1852.955122 1662.090152 2027.849138 1560.479019 1.095794098 1.137594456 0.867672699 1.111201652 1.309602117 1.187149985 1.18742713 1.065115347 1.299504263 1 10.60777324 -5.998105905 24.99957496 1.040360087 1.190204054 0.112358125 0.118765798 48.07153194 634460.7253 0.012733598 0.022967515 1.00E-06 5.998105905 0.149843967 GTTITLVLK ddPTM_HeLa_SAHA_4h_R1 1 GTTITLVLK 9 0 P14625;Q96GW1;A0A1W2PRR1 P14625 HSP90B1 Endoplasmin 0 0 122.52 0.0041398 1435700 1170.7 1429.4 899.64 1253.4 1249 2536.2 1563.7 1897.9 2416.5 2003.1 FALSE FALSE TRUE 1293.839597 1475.713498 1022.238254 1277.661369 1153.30189 2320.101492 1387.748361 1849.354466 2399.68338 2089.463444 0.619220978 0.706264329 0.489234811 0.611478211 0.551960788 1.110381471 0.664164939 0.88508582 1.148468707 1 11.0289168 -3.753837549 6.191759384 0.767078962 4.83207357 0.02447071 0.223923623 6131.362363 4010.435258 0.030155855 336053.0994 0.000176264 3.753837549 4.064994607 GTTPPPPSWEPNSQTK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GTTPPPPSWEPNSQTKR 17 1 O95835;O95835-2 O95835 LATS1 Serine/threonine-protein kinase LATS1 0 1 ; GTTPPPPSWEPNSQTK(1)R;GTTPPPPSWEPNSQTK(1)R 74.89 0.0062617 5711200 0 534.72 411.6 646.23 1150.04 1289.06 1046.99 797 369.65 246.123 FALSE TRUE FALSE 0 552.0452788 467.6907045 658.7387161 1061.924184 1179.224836 929.1799297 776.613894 367.0775756 256.734567 0 2.150256918 1.821689654 2.565835695 4.136272711 4.59316737 3.61922409 3.024968173 1.429794125 1 8.004133745 -6.44835044 1.150989382 0.556650667 3.865630425 0.763297283 0.666652626 0.136489268 0.359814893 0.122076543 0.220452296 3.56E-07 6.44835044 3.308979758 GTVGEPTYDAEFQHFLR ddPTM_HeLa_SAHA_4h_R1 2 GTVGEPTYDAEFQHFLR 17 0 Q14204;A0A2R8Y706;A0A2R8Y5T0;A0A2R8Y542 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 ; ; 237.05 1.22E-28 9883400 6613.6 6289.8 5725.1 6070.4 6563.2 8488.8 7187.2 6353.7 8464.5 6738.7 FALSE FALSE TRUE 7309.248792 6493.593647 6505.286813 6187.90137 6060.329034 7765.506483 6378.47734 6191.181554 8405.594855 7029.238335 1.039835106 0.92379762 0.925461124 0.880308943 0.86216013 1.10474366 0.907420838 0.880775592 1.195804503 1 12.77915266 -7.254873996 24.50192835 1.018811023 0.928234551 0.342790287 0.085237117 365.54307 1364201.586 0.010750679 0.012999652 5.56E-08 7.254873996 -0.090576472 GTVPDDAVEALADS(ph)LGKK ddPTM_HeLa_SAHA_4h_R1 2 GTVPDDAVEALADSLGKK 18 1 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;P20810-2;E9PCH5;P20810-3;H0Y7F0;H0Y9H6;E7EQ12;E7EQA0;H0YD33;A0A0A0MR45 P20810-6 CAST Calpastatin 1 0 GTVPDDAVEALADS(1)LGKK;GTVPDDAVEALADS(1)LGKK ; 169.77 3.71E-07 23159000 3635.2 3277.4 3112 4353.1 4174.4 5575.3 4964.1 4863.5 4361.7 3788.4 TRUE FALSE FALSE 4017.567015 3383.58991 3536.087153 4437.360545 3854.558374 5100.253074 4405.526403 4739.098712 4331.346575 3951.736464 1.016658639 0.856228633 0.894818565 1.122888782 0.975408762 1.290635932 1.114833047 1.199244625 1.096061596 1 11.94827102 -5.276154251 24.72296337 0.99465049 1.192897386 0.55340571 0.085103865 352.5216634 592283.6035 0.011168859 0.025075519 5.29E-06 5.276154251 0.198246896 GTVTDFPGFDER ddPTM_HeLa_SAHA_4h_R1 7 GTVTDFPGFDER 12 0 P08758;D6RBE9;E9PHT9;D6RCN3 P08758 ANXA5 Annexin A5;Annexin 0 0 ;;;;;; ;;;;;; 256.24 7.61E-41 109259900 14743.06 15107.5 12640.76 15359.23 16448.5 16914.7 16558.2 15363.6 16739 14860.7 FALSE FALSE TRUE 16293.80269 15596.99291 14363.37694 15656.53011 15188.21948 15473.4724 14695.02776 14970.62136 16622.51194 15501.4175 1.05111695 1.006165592 0.926584742 1.01000635 0.979795524 0.998197255 0.947979612 0.965758219 1.072322059 1 13.92011253 -6.989621686 24.99939637 1.024375546 0.973070585 0.514258031 0.029142622 151.6420356 365275.2253 0.00449538 0.005904477 1.02E-07 6.989621686 -0.051304961 GTVTDFPGFDERADAETLR ddPTM_HeLa_SAHA_4h_R1 1 GTVTDFPGFDERADAETLR 19 1 P08758;D6RBE9;E9PHT9;D6RCN3 P08758 ANXA5 Annexin A5;Annexin 0 0 99.747 0.0021885 3707100 862.7 802.18 1046.3 815.59 981.48 679.6 1033.1 1084.1 480.15 728.3 FALSE FALSE TRUE 953.4427442 828.1711583 1188.884315 831.3769238 906.2792144 621.6942567 916.852869 1056.370292 476.8085971 759.7005772 1.255024378 1.090128378 1.564938017 1.094348153 1.192942643 0.818341167 1.20686083 1.390508739 0.627627004 1 9.569287107 -9.381097225 1.064812857 0.998191144 1.198174565 0.251142203 0.220872721 0.864166416 1.727245387 0.131002968 0.032463517 4.16E-10 9.381097225 0.199983421 GTYVPSS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 3 GTYVPSSPTR 10 0 Q9Y4P8-4;Q9Y4P8 Q9Y4P8-4 WIPI2 WD repeat domain phosphoinositide-interacting protein 2 1 0 GTYVPS(0.002)S(0.995)PT(0.003)R;GTYVPS(0.002)S(0.998)PTR;GTYVPS(0.004)S(0.996)PT(0.001)R ;; 188.27 1.05E-06 176342000 10724.1 10608.5 9353.8 9068.4 11285.9 11862 11330.3 11086.4 8679.8 10424.8 TRUE FALSE FALSE 11852.11004 10952.22236 10628.48715 9243.931995 10421.17678 10851.29087 10055.38482 10802.82594 8619.396565 10874.26415 1.089922949 1.007169057 0.977398287 0.850074255 0.958333975 0.997887372 0.924695657 0.993430525 0.792641824 1 13.40863016 -6.792489198 3.061635448 1.042394265 0.945555369 0 0.090532138 0.174813216 3.37990254 0.008253368 0.011414316 1.61E-07 6.792489198 -0.096838896 GVAPADS(ph)PEAPR ddPTM_HeLa_SAHA_4h_R1 3 GVAPADSPEAPR 12 0 Q9P2G1 Q9P2G1 ANKIB1 Ankyrin repeat and IBR domain-containing protein 1 1 0 GVAPADS(1)PEAPR;GVAPADS(1)PEAPR;GVAPADS(1)PEAPR ;; 151.7 0.00033125 43252100 3682.9 3993.5 3375.7 3632.96 4079.42 4379.85 4011.47 3557.68 4014.08 3785.79 TRUE FALSE FALSE 4070.28432 4122.89202 3835.722816 3703.281194 3766.855721 4006.66214 3560.088838 3466.679697 3986.14569 3949.013934 1.03070903 1.04403076 0.971311543 0.937773646 0.953872482 1.014598127 0.901513364 0.877859576 1.009402792 1 11.94727674 -6.550893868 4.427542602 1.017053949 0.941217678 0.55367825 0.035300356 0.132114617 6.106354817 0.005876446 0.008569169 2.81E-07 6.550893868 -0.075836271 GVAPADS(ph)PEAPRR ddPTM_HeLa_SAHA_4h_R1 2 GVAPADSPEAPRR 13 1 Q9P2G1 Q9P2G1 ANKIB1 Ankyrin repeat and IBR domain-containing protein 1 1 0 GVAPADS(1)PEAPRR;GVAPADS(1)PEAPRR ; 81.526 0.0093928 32141000 3363.5 3865.3 3354.8 3730.2 4034 4150.4 3901.4 3630.8 3637.7 3905 TRUE FALSE FALSE 3717.288362 3990.538256 3811.974673 3802.403415 3724.915792 3796.76257 3462.404204 3537.929393 3612.38495 4073.363661 0.912584456 0.979666582 0.935829695 0.933479977 0.91445697 0.932095164 0.85001107 0.868552304 0.886830946 1 11.99200491 -1.000000183 0.017373352 1.664014789 9.18E-06 0.113388507 0.041314331 1812.738779 2.454435877 90.98735131 151.3561488 0.099999958 1.000000183 -1.664005609 GVDEATIIDILTK ddPTM_HeLa_SAHA_4h_R1 1 GVDEATIIDILTK 13 0 P04083;Q5T3N1;Q5T3N0 P04083 ANXA1 Annexin A1;Annexin 0 0 137.4 0.002901 17817000 1072.3 663.88 628.81 668.53 747.72 987.73 927.71 813.87 838.68 847.67 FALSE FALSE TRUE 1185.089434 685.3901476 714.5009521 681.4703649 690.4298551 903.5698472 823.3216292 793.0523839 832.8435576 884.2172021 1.340269598 0.775137767 0.808060452 0.770704713 0.780837393 1.021886755 0.931130527 0.89689771 0.941899293 1 9.788256991 -7.249795138 24.99831607 1.160682867 0.85640714 0.396361632 0.12749159 468.1152424 1004969.15 0.024584225 0.029974613 5.63E-08 7.249795138 -0.304275727 GVDEATIIDILTKR ddPTM_HeLa_SAHA_4h_R1 1 GVDEATIIDILTKR 14 1 P04083;Q5T3N1;Q5T3N0 P04083 ANXA1 Annexin A1;Annexin 0 0 126.09 0.00031572 760980 261.85 277.85 470.7 452.54 339.66 267.64 424.02 392.37 196.06 279.05 FALSE FALSE TRUE 289.3925844 286.8525223 534.8445447 461.2995661 313.6353242 244.8355663 376.3081536 382.3337435 194.6956025 291.0812111 0.994198778 0.985472478 1.837440976 1.584779603 1.077483919 0.841124597 1.292794379 1.313495097 0.668870388 1 8.185277908 GVDEVTIVNILTNR ddPTM_HeLa_SAHA_4h_R1 4 GVDEVTIVNILTNR 14 0 P07355;P07355-2;H0YN42;H0YMU9;H0YMD0;H0YKS4;H0YMM1;H0YKX9;H0YMT9;H0YLV6;H0YKZ7;H0YMW4;H0YKL9;H0YKV8;H0YMD9 P07355 ANXA2 Annexin A2;Annexin 0 0 ;;; ;;; 269.04 1.23E-83 372367710 1495.22 1635.54 1323.91 1402.24 1819.87 1875.26 1943.127 1584.47 1807.03 1331.63 FALSE FALSE TRUE 1652.4941 1688.532569 1504.32556 1429.382383 1680.431954 1715.477298 1724.481236 1543.941552 1794.454731 1389.043086 1.189663673 1.21560849 1.082994167 1.029041069 1.209776695 1.235006542 1.241488657 1.111514515 1.291863981 1 10.43987564 -9.301333058 0.814382049 0.989284719 1.167103762 0 0.112393543 0.55854394 0.600584344 0.065238605 0.013900572 5.00E-10 9.301333058 0.177819043 GVDIVMDPLGGSDTAK ddPTM_HeLa_SAHA_4h_R1 1 GVDIVMDPLGGSDTAK 16 0 Q99536-3;Q99536;K7ESA3;K7ENX2;K7EM19;Q99536-2 Q99536-3 VAT1 Synaptic vesicle membrane protein VAT-1 homolog 0 0 150.49 0.001174 0 80.913 143.83 0 162.67 0 0 192.49 163.76 162.96 0 FALSE FALSE TRUE 89.42380058 148.4901864 0 165.8187131 0 0 170.8305186 159.5712563 161.8259481 0 0 GVDLLLEGVQGESS(ph)PTRR ddPTM_HeLa_SAHA_4h_R1 2 GVDLLLEGVQGESSPTRR 18 1 F5H7T0;F6RJM5;Q96S38-2;Q96S38 F5H7T0 RPS6KC1 Ribosomal protein S6 kinase delta-1 1 0 GVDLLLEGVQGES(0.125)S(0.438)PT(0.438)RR;GVDLLLEGVQGES(0.344)S(0.648)PT(0.009)RR ; 110.33 0.00062238 6781200 1434.65 1742.75 1367.47 1585.59 1650.13 2080.73 1901.86 1708.42 1780.64 1301.42 TRUE FALSE FALSE 1585.553069 1799.216243 1553.82169 1616.281387 1523.697396 1903.440098 1687.857707 1664.72109 1768.248381 1357.530585 1.16796858 1.325359637 1.144594241 1.190604031 1.122403733 1.402134227 1.243329414 1.22628625 1.302547729 1 10.40676899 -9.098567159 0.299302314 0.898770127 1.267066639 0 0.123856799 1.935838537 0.256488932 0.253771073 0.050161725 7.97E-10 9.098567159 0.368296512 GVDLVLNSLAEEK ddPTM_HeLa_SAHA_4h_R1 1 GVDLVLNSLAEEK 13 0 A0A0U1RQF0;P49327 A0A0U1RQF0 FASN Fatty acid synthase;[Acyl-carrier-protein] S-acetyltransferase;[Acyl-carrier-protein] S-malonyltransferase;3-oxoacyl-[acyl-carrier-protein] synthase;3-oxoacyl-[acyl-carrier-protein] reductase;3-hydroxyacyl-[acyl-carrier-protein] dehydratase;Enoyl-[acyl-carrier-protein] reductase;Oleoyl-[acyl-carrier-protein] hydrolase 0 0 105.95 0.014568 224150 0 147.58 0 0 160.83 162.77 0 194.92 60.222 64.448 FALSE FALSE TRUE 0 152.3616888 0 0 148.5072401 148.9010803 0 189.9342286 59.8029102 67.22666868 0 2.266387608 0 0 2.209052494 2.214910886 0 2.825280984 0.889571228 1 6.070961756 -5.758743592 24.99991923 0.584698965 1.711617438 0.247964394 0.93753649 75.81661146 703086.8438 0.133129653 0.256935255 1.74E-06 5.758743592 1.126918473 GVEEEEEDGEMRE ddPTM_HeLa_SAHA_4h_R1 6 GVEEEEEDGEMRE 13 1 P62306 P62306 SNRPF Small nuclear ribonucleoprotein F 0 0 ;;;;; ;;;;; 316.83 1.40E-96 74589000 9754.74 9704.82 8982.2 9309.11 10702.55 11945.83 11115.97 10536.93 9813.21 9986.36 FALSE FALSE TRUE 10780.78831 10019.26254 10206.24744 9489.301285 9882.522931 10927.97808 9865.1718 10267.41059 9744.919073 10416.92085 1.034930424 0.961825733 0.979775846 0.910950695 0.948699051 1.049060297 0.947033384 0.985647365 0.935489403 1 13.34664127 -7.252713494 24.67494812 1.016494922 0.968634475 0 0.042770939 510.4615895 1443477.932 0.005858809 0.007122607 5.59E-08 7.252713494 -0.047860448 GVEGLIDIENPNR ddPTM_HeLa_SAHA_4h_R1 2 GVEGLIDIENPNR 13 0 Q13442 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 0 0 ; ; 151.98 0.00087524 6869800 1390.64 1185.4 1533.77 1654.42 1922.44 1867.58 2135.9 1830.92 1745.16 1791.24 FALSE FALSE TRUE 1536.913896 1223.807738 1742.784188 1686.443691 1775.143063 1708.451677 1895.562911 1784.087718 1733.015289 1868.469123 0.822552472 0.65497884 0.932733738 0.902580445 0.950052126 0.914359064 1.014500528 0.954839283 0.927505447 1 10.86764101 -5.329644112 1.344880672 0.893031552 0.978845552 0.161006212 0.089815223 0.947374323 3.166989768 0.016697691 0.063685568 4.68E-06 5.329644112 0.085814 GVEICIAT(ph)PGR ddPTM_HeLa_SAHA_4h_R1 1 GVEICIATPGR 11 0 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2;P17844-2;P17844;J3KTA4;J3QSF1;J3KRZ1 A0A1X7SBZ2;P17844-2 DDX17;DDX5 Probable ATP-dependent RNA helicase DDX17;Probable ATP-dependent RNA helicase DDX5 1 0 GVEICIAT(1)PGR 96.604 0.018477 3524100 1287.6 1801.7 1323.4 1879.4 1569.7 1759.2 1861.4 1824.1 1681.2 1370.6 TRUE FALSE FALSE 1423.035676 1860.076262 1503.74606 1915.778505 1449.429925 1609.306263 1651.950373 1777.442163 1669.500392 1429.693274 0.995343338 1.301031694 1.051796275 1.339992668 1.013804815 1.125630436 1.15545789 1.243233214 1.167733264 1 10.48148995 -7.297943324 23.85050181 0.997800981 1.168443194 0.147969079 0.110005193 217.1669111 141889.3128 0.014818937 0.016946496 5.04E-08 7.297943324 0.170642213 GVEICIATPGR ddPTM_HeLa_SAHA_4h_R1 2 GVEICIATPGR 11 0 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2;P17844-2;P17844;J3KTA4;J3QSF1;J3KRZ1 A0A1X7SBZ2;P17844-2 DDX17;DDX5 Probable ATP-dependent RNA helicase DDX17;Probable ATP-dependent RNA helicase DDX5 0 0 ; ; 137.98 0.00038815 7285300 1608.31 2031.96 1596.58 1837.96 2078.79 2616.7 2116.93 1669.33 2170 2095.66 FALSE FALSE TRUE 1777.479425 2097.796837 1814.153608 1873.536374 1919.513559 2393.742439 1878.727465 1626.630956 2154.898793 2186.014159 0.813114324 0.959644671 0.82989106 0.857055919 0.878088347 1.095026045 0.859430602 0.744108152 0.985766165 1 11.09408703 -9.550491138 1.31120607 1.00016577 0.87711372 0.205513124 0.088971787 0.583757683 1.794111584 0.063752203 0.015003342 2.82E-10 9.550491138 -0.123052051 GVELCFPENET(ph)PPEGK ddPTM_HeLa_SAHA_4h_R1 2 GVELCFPENETPPEGK 16 0 A0A590UJ01;Q13535-2;Q13535-3;Q13535 A0A590UJ01 ATR Serine/threonine-protein kinase ATR 1 0 GVELCFPENET(1)PPEGK;GVELCFPENET(1)PPEGK ; 132.44 0.00022456 6814600 3241.11 2896.54 2166.28 3246.01 3290.07 4244.97 3188.58 3636.53 3859.96 2742.8 TRUE FALSE FALSE 3582.024821 2990.389796 2461.489357 3308.841217 3037.985547 3883.274674 2829.792587 3543.512828 3833.098224 2861.055531 1.251994162 1.045205087 0.86034309 1.156510659 1.061840819 1.357287418 0.989072933 1.238533398 1.339749677 1 11.48233178 -9.723896303 1.641245555 1.000042618 1.135906459 0 0.17200026 0.686183619 3.340352094 0.099085106 0.021670586 1.89E-10 9.723896303 0.135863841 GVEPSPS(ph)PIKPGDIKR ddPTM_HeLa_SAHA_4h_R1 3 GVEPSPSPIKPGDIKR 16 2 Q92890-1;Q92890;Q92890-3 Q92890-1 UFD1L Ubiquitin fusion degradation protein 1 homolog 1 0 GVEPS(0.043)PS(0.957)PIKPGDIKR;GVEPS(0.051)PS(0.949)PIKPGDIKR;GVEPS(0.025)PS(0.975)PIKPGDIKR ;; 57.328 0.01651 50230000 13808.3 12967.1 11274.6 14063 14591.3 15797.2 14987.5 14881.7 15279.6 13445.2 TRUE FALSE FALSE 15260.72035 13387.24255 12811.04377 14335.2097 13473.31775 14451.18969 13301.06706 14501.04766 15173.26802 14024.88837 1.088117063 0.954534695 0.913450677 1.022126474 0.960672013 1.030396058 0.948390226 1.033951022 1.081881554 1 13.77570167 -7.248710238 24.73279819 1.041610836 0.979446113 0.374502909 0.043814645 655.8890155 1274397.967 0.007821229 0.009542698 5.64E-08 7.248710238 -0.062164723 GVFSMKGGSRSTASGS(ph)T(ph)GS(ph)KLK ddPTM_HeLa_SAHA_4h_R1 1 GVFSMKGGSRSTASGSTGSKLK 22 3 E5RJ39;B3KT61;Q86SE5-2;Q86SE5;Q86SE5-3 E5RJ39 RALYL RNA-binding Raly-like protein 3 0 GVFS(0.038)MKGGS(0.038)RS(0.014)T(0.014)AS(0.165)GS(0.785)T(0.973)GS(0.973)KLK 46.131 0.0083582 0 493.27 795.92 445.09 635.54 685.27 933.48 582.13 528.01 970 648.27 TRUE FALSE FALSE 545.1544018 821.7083302 505.7445473 647.8417957 632.7647606 853.9422524 516.6272003 514.5042687 963.249691 676.2200923 0.806178947 1.215149239 0.74789932 0.958033935 0.935737888 1.262817036 0.76399268 0.76085327 1.424461802 1 9.401349073 -6.161172311 0.004737934 1.83969454 5.52E-08 0 0.230903633 99612.32767 176.2967913 33773.92838 34678.14853 6.90E-07 6.161172311 -1.839694485 GVGDDQLGEES(ph)EERDDHLLPM ddPTM_HeLa_SAHA_4h_R1 2 GVGDDQLGEESEERDDHLLPM 21 1 H0YF90;F5GX30;P20645 H0YF90 M6PR Cation-dependent mannose-6-phosphate receptor 1 0 GVGDDQLGEES(1)EERDDHLLPM;GVGDDQLGEES(1)EERDDHLLPM ; 80.061 0.00086534 18397000 4253.6 5267.9 4792.1 4496.5 5566.2 5019.2 5719.7 5486.9 3381 5411.3 TRUE FALSE FALSE 4701.013164 5438.583416 5445.142432 4583.53626 5139.718959 4591.535923 5076.104303 5346.553043 3357.471346 5644.607625 0.832832586 0.963500703 0.9646627 0.81202035 0.910553806 0.813437572 0.899283819 0.947196581 0.594810405 1 12.46265758 -6.281237725 24.67744224 0.925885849 0.876152854 0 0.118950896 1290.959571 1609100.2 0.011256858 0.01720946 5.23E-07 6.281237725 -0.049732995 GVGDDQLGEESEERDDHLLPM ddPTM_HeLa_SAHA_4h_R1 1 GVGDDQLGEESEERDDHLLPM 21 1 H0YF90;F5GX30;P20645 H0YF90 M6PR Cation-dependent mannose-6-phosphate receptor 0 0 69.612 0.0073607 2271500 1181.1 1397 1240.4 1224 1590.5 1311 1419.3 1431.2 1166.3 1489.7 FALSE FALSE TRUE 1305.333517 1442.263717 1409.435252 1247.69229 1468.636234 1199.295425 1259.596629 1394.591976 1158.183623 1553.928257 0.840021739 0.928140479 0.907014365 0.80292786 0.945111994 0.771783008 0.810588663 0.897462267 0.745326316 1 10.60170418 -13.52287874 0.249356907 1.905153747 0.843179324 0 0.097727532 28.19401957 0.372339397 12.54836571 0.031682707 3.00E-14 13.52287874 -1.061974423 GVGQADWT(ph)PDLGLR ddPTM_HeLa_SAHA_4h_R1 2 GVGQADWTPDLGLR 14 0 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 GVGQADWT(1)PDLGLR;GVGQADWT(1)PDLGLR ; 132.65 0.00072724 12699300 3535.8 4136.1 3772 4192.3 4806.2 4985.9 4029.1 4332 5530.8 4652.1 TRUE FALSE FALSE 3907.711667 4270.112354 4286.028516 4273.448029 4437.949994 4561.07327 3575.735064 4221.193713 5492.310712 4852.674798 0.805269636 0.87995024 0.883230114 0.880637629 0.914536865 0.939909114 0.736858581 0.869869482 1.131810999 1 12.24456447 -9.462268548 1.165192411 1.000974225 0.859575382 0.530338929 0.069524621 0.349282369 0.838943409 0.040183789 0.009650369 3.45E-10 9.462268548 -0.141398842 GVGSGPHPPDTQQPS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 3 GVGSGPHPPDTQQPSPSK 18 0 Q68CZ2;Q68CZ2-2;E9PCX8 Q68CZ2 TNS3 Tensin-3 1 0 GVGSGPHPPDT(0.002)QQPS(0.991)PS(0.006)K;GVGSGPHPPDTQQPS(0.998)PS(0.001)K;GVGSGPHPPDTQQPS(0.97)PS(0.03)K ;; 189.45 8.01E-13 44448900 5566.9 6090.6 3993.78 5215.14 7183.2 7708.3 5419 6130.1 5839.9 6076.67 TRUE FALSE FALSE 6152.452084 6287.939436 4538.03154 5316.086576 6632.824768 7051.509474 4809.239858 5973.300918 5799.25966 6338.664982 0.970622694 0.99199744 0.715928599 0.83867606 1.046407215 1.11245972 0.758714946 0.942359461 0.914902377 1 12.6299633 GVGSGPHPPDTQQPSPS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 GVGSGPHPPDTQQPSPSK 18 0 Q68CZ2;Q68CZ2-2;E9PCX8 Q68CZ2 TNS3 Tensin-3 1 0 GVGSGPHPPDTQQPS(0.293)PS(0.707)K 225.69 1.39E-28 10481000 1513.6 2131 1295.4 1654.9 2017.9 2308 2037.4 2016.4 2115.9 2067 TRUE FALSE FALSE 1672.807393 2200.045798 1471.930366 1686.932983 1863.288938 2111.345416 1808.14639 1964.823408 2101.17528 2156.118486 0.775842053 1.02037333 0.68267601 0.782393451 0.864186709 0.979234411 0.838611793 0.911278031 0.974517539 1 11.07422075 -9.525563021 1.248740165 1.00097607 0.84807318 0.230372163 0.094100752 0.511393966 1.412901001 0.067340093 0.015699732 2.98E-10 9.525563021 -0.15290289 GVGTDEACLIEILASR ddPTM_HeLa_SAHA_4h_R1 1 GVGTDEACLIEILASR 16 0 P50995-2;P50995 P50995-2 ANXA11 Annexin A11 0 0 137.62 0.00070365 2812400 541.67 503.93 510.51 776.09 715.96 925.44 766.06 821.81 614.88 652.35 FALSE FALSE TRUE 598.6453359 520.2576626 580.0796442 791.1123442 661.1032995 846.5873056 679.8609126 800.7892902 610.601 680.476001 0.879744965 0.764549612 0.852461576 1.162586694 0.971530662 1.244110453 0.999096091 1.176807542 0.897314526 1 9.410400472 -6.259826831 24.99983507 0.919340739 1.104285087 0.573300676 0.096896957 105.8265504 1640656.49 0.015536553 0.02489929 5.50E-07 6.259826831 0.184944348 GVHIHQAGGS(ph)PPASSTSSSSLTNDVAK ddPTM_HeLa_SAHA_4h_R1 2 GVHIHQAGGSPPASSTSSSSLTNDVAK 27 0 Q8N122;Q8N122-3;I3L436 Q8N122 RPTOR Regulatory-associated protein of mTOR 1 0 GVHIHQAGGS(0.387)PPAS(0.064)S(0.064)T(0.387)S(0.091)S(0.005)S(0.001)SLTNDVAK;GVHIHQAGGS(0.73)PPAS(0.026)S(0.026)T(0.149)S(0.031)S(0.005)S(0.005)S(0.023)LT(0.003)NDVAK ; 110.03 4.17E-08 14232000 2782.64 3866.72 2333.48 3073.85 5022.67 1311.77 4745.27 4666.19 4356.31 3801.5 TRUE FALSE FALSE 3075.330842 3992.004265 2651.474502 3133.348812 4637.83411 1199.999816 4211.319731 4546.835616 4325.994084 3965.401269 0.775540893 1.006708778 0.668652255 0.790171939 1.16957498 0.302617499 1.062016034 1.146626863 1.090934761 1 11.95325115 -9.530640134 1.265055163 1.000698905 0.848912125 0.06747381 0.247240997 1.255279086 3.570299014 0.165267586 0.038726852 2.95E-10 9.530640134 -0.15178678 GVHIHQAGGSPPASST(ph)SSSSLTNDVAK ddPTM_HeLa_SAHA_4h_R1 1 GVHIHQAGGSPPASSTSSSSLTNDVAK 27 0 Q8N122;Q8N122-3;I3L436 Q8N122 RPTOR Regulatory-associated protein of mTOR 1 0 GVHIHQAGGS(0.127)PPAS(0.044)S(0.044)T(0.573)S(0.194)S(0.015)S(0.002)S(0.002)LTNDVAK 96.181 3.20E-06 14365000 3210.6 4560.5 2140 4016.4 5703.4 1336.9 4881.3 5113.8 4741.5 4923 TRUE FALSE FALSE 3548.305639 4708.263192 2431.628055 4094.14323 5266.406724 1222.988599 4332.043277 4982.996401 4708.503515 5135.254623 0.690969757 0.916850972 0.473516551 0.797261973 1.025539552 0.238155396 0.843588799 0.970350405 0.916897771 1 12.3262201 -9.343512318 0.804523128 1.02072587 0.734187802 0.120178134 0.226219127 1.115071902 1.138097818 0.211389728 0.041894913 4.53E-10 9.343512318 -0.286538068 GVIS(ph)TPVIR ddPTM_HeLa_SAHA_4h_R1 3 GVISTPVIR 9 0 Q9NZB2-4;Q9NZB2;Q9NZB2-6;A0A494C0Y9;A0A0C4DG79 Q9NZB2-4 FAM120A Constitutive coactivator of PPAR-gamma-like protein 1 1 0 GVIS(0.5)T(0.5)PVIR;GVIS(0.5)T(0.5)PVIR;GVIS(0.5)T(0.5)PVIR ;; 102.07 0.0092975 18364700 8460.2 7749.6 7907.9 7720.3 10314 10182.9 7421.1 9689 7783.2 8379.4 TRUE FALSE FALSE 9350.082653 8000.692125 8985.547429 7869.73757 9523.743548 9315.259633 6586.058297 9441.16941 7729.036077 8740.676942 1.069720654 0.915340102 1.028015048 0.900357904 1.089588783 1.065736635 0.75349522 1.080141672 0.884260582 1 13.0935293 -7.275520293 24.75508787 1.03292364 0.974431523 0 0.108615786 1443.765587 2538220.103 0.015928455 0.018266274 5.30E-08 7.275520293 -0.058492117 GVITVK ddPTM_HeLa_SAHA_4h_R1 1 GVITVK 6 0 P10809;E7EXB4 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 109.7 0.015645 1328700 1459.5 1859.7 1306.2 1236.8 1836.2 1966.8 2263.8 1910.8 1656.1 1735.3 FALSE FALSE TRUE 1613.016906 1919.9555 1484.202134 1260.740052 1695.510753 1799.217575 2009.071266 1861.924503 1644.575065 1810.117275 0.891111824 1.06068017 0.819948052 0.696496337 0.936685582 0.993978456 1.10991221 1.028620923 0.908546141 1 10.82186746 -5.025845401 3.466824825 0.926524782 1.068431871 0.309780677 0.096417503 0.260247255 6.501323153 0.01495774 0.045964202 9.42E-06 5.025845401 0.141907088 GVITVK(ac)DGK ddPTM_HeLa_SAHA_4h_R1 1 GVITVKDGK 9 1 P10809;E7EXB4 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 1 GVITVK(1)DGK 116.3 0.0036707 1486900 476.74 588.06 511.34 789.25 573.44 385.25 730.97 649.23 580.86 707.04 FALSE TRUE FALSE 526.8857006 607.1135298 581.0227523 804.527075 529.5031511 352.4245326 648.7193318 632.6236367 576.817748 737.5239546 0.714398085 0.823178049 0.787801872 1.090848738 0.717947055 0.477848252 0.879590863 0.857766901 0.782100357 1 9.526546098 -9.434551646 1.097935595 1.003173656 0.786973479 0 0.160134804 0.653098092 1.374812946 0.110950599 0.026178586 3.68E-10 9.434551646 -0.216200177 GVLFGVPGAFTPGCSK ddPTM_HeLa_SAHA_4h_R1 2 GVLFGVPGAFTPGCSK 16 0 P30044-2;P30044-3;P30044 P30044-2 PRDX5 "Peroxiredoxin-5, mitochondrial" 0 0 ; ; 193.85 9.13E-19 1552620 589.02 710.69 792.739 724.82 875.7 867.85 877.05 884.23 794.482 888.84 FALSE FALSE TRUE 650.9758261 733.7168223 900.7693425 738.8499392 808.6040552 793.9042976 778.3620257 861.6126769 788.9531351 927.1622423 0.702116411 0.79135753 0.971533677 0.796893904 0.872127896 0.856273327 0.839510056 0.929300868 0.850933201 1 9.856678005 -9.648544561 1.503602955 0.999432435 0.824703962 0 0.085263405 0.340442936 1.391187823 0.058499419 0.013412637 2.25E-10 9.648544561 -0.174728474 GVLFYGPPGCGK ddPTM_HeLa_SAHA_4h_R1 2 GVLFYGPPGCGK 12 0 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 ; ; 210.1 3.13E-32 3465200 1359.6 1269.63 1023.1 1171.43 1363.27 1485.364 1667.82 1192.6 1248.187 1301 FALSE FALSE TRUE 1502.608966 1310.766845 1162.52274 1194.104722 1258.816547 1358.802631 1480.152504 1162.095019 1239.500765 1357.092477 1.107226657 0.965864057 0.856627503 0.879899301 0.927583469 1.00126016 1.090679176 0.856312328 0.913350259 1 10.40630332 -7.090198316 6.552316595 1.050350755 0.940099278 0.060331087 0.08291872 0.227940434 13.97090679 0.013060247 0.016056648 8.12E-08 7.090198316 -0.110251476 GVNLPGAAVDLPAVSEK ddPTM_HeLa_SAHA_4h_R1 3 GVNLPGAAVDLPAVSEK 17 0 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BR70;H3BQ34 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;; ;; 209.53 8.70E-34 36329430 6126.74 5339.41 4332.5 5756.2 4573.37 7072.33 6288.43 5228.43 8166.21 6045.72 FALSE FALSE TRUE 6771.178624 5512.410387 4922.910537 5867.619575 4222.959379 6469.727696 5580.839306 5094.694331 8109.38068 6306.380576 1.073702822 0.874100496 0.780623763 0.930425861 0.669632815 1.025901881 0.884951239 0.807863444 1.285900935 1 12.62259652 -7.206803865 6.294559734 1.034752083 0.853512733 0.469859657 0.119967607 0.140422333 12.58818412 0.014314433 0.017501587 6.21E-08 7.206803865 -0.181239349 GVNTDSGSVCR ddPTM_HeLa_SAHA_4h_R1 1 GVNTDSGSVCR 11 0 A0A494C194;V9GYE4;K7ES25;A0A494C165;P12955-3;P12955-2;P12955 A0A494C194 PEPD Xaa-Pro dipeptidase 0 0 108.7 0.004822 0 350.91 371.8 417.12 257.38 369.56 313.14 264.54 368.42 314.28 179.79 FALSE FALSE TRUE 387.8203238 383.8465639 473.9629413 262.3619621 341.2443926 286.4587103 234.773263 358.9963499 312.0928999 187.5416268 2.067915964 2.046727282 2.527241282 1.398953217 1.819566133 1.527440682 1.251846147 1.914222224 1.664126014 1 7.551067042 GVNTFS(ph)PEGR ddPTM_HeLa_SAHA_4h_R1 4 GVNTFSPEGR 10 0 P28066 P28066 PSMA5 Proteasome subunit alpha type-5 1 0 GVNT(0.003)FS(0.997)PEGR;GVNT(0.016)FS(0.984)PEGR;GVNTFS(1)PEGR;GVNTFS(1)PEGR ;;; 168.85 0.00011111 132946800 7748 7194.1 6214.3 6799 8473.2 8473.3 8301 7018.4 6865.4 6219.2 TRUE FALSE FALSE 8562.970189 7427.19356 7061.152441 6930.604477 7823.985247 7751.327171 7366.949633 6838.879491 6817.623122 6487.340148 1.319950857 1.144875001 1.088451088 1.068327592 1.206039003 1.194839024 1.135588618 1.054188517 1.050911925 1 12.66341137 -9.699568321 1.597419913 1.00031529 1.177544854 0.240994952 0.078222885 0.363037009 1.675356199 0.066682945 0.014841936 2.00E-10 9.699568321 0.177229564 GVNTFSPEGR ddPTM_HeLa_SAHA_4h_R1 1 GVNTFSPEGR 10 0 P28066 P28066 PSMA5 Proteasome subunit alpha type-5 0 0 133.99 0.00017829 0 984.79 928.38 1029.7 1305.3 1225.7 1126.8 1533.9 1275.4 1271 917.52 FALSE FALSE TRUE 1088.374731 958.4601211 1170.022154 1330.565969 1131.787131 1030.790301 1361.301535 1242.777115 1262.155008 957.0787774 1.137184061 1.001443292 1.22249305 1.390236625 1.182543337 1.077017196 1.42235056 1.298510785 1.3187577 1 9.902493868 -1 0.083007518 0.807066604 2.240207737 0 0.145334241 107.7953482 0.655446336 1.678016459 17.75923008 0.1 1 1.433141133 GVPAGNS(ph)DTEGGQPGR ddPTM_HeLa_SAHA_4h_R1 5 GVPAGNSDTEGGQPGR 16 0 S4R3H4;E7EQT4;Q9UKV3;G3V3B0;Q9UKV3-3;Q9UKV3-2;Q9UKV3-5;G3V3T3 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 GVPAGNS(0.741)DT(0.259)EGGQPGR;GVPAGNS(0.92)DT(0.08)EGGQPGR;GVPAGNS(0.804)DT(0.196)EGGQPGR;GVPAGNS(0.51)DT(0.49)EGGQPGR;GVPAGNS(0.712)DT(0.288)EGGQPGR ;;;; 171.29 7.13E-09 77530900 1035.14 1666.77 1151.49 1271.8 1013.441 1180.51 1176.76 1603.19 1447.01 881.37 TRUE FALSE FALSE 1144.020775 1720.774442 1308.40906 1296.417528 935.7913695 1079.923907 1044.347868 1562.182721 1436.94014 919.370174 1.244352718 1.871688347 1.423158046 1.410114842 1.017861353 1.17463448 1.135938382 1.69918795 1.562961449 1 9.844502053 -8.228581488 1.338541465 1.052358896 1.360306605 0 0.293672997 0.429477109 1.566962528 0.066281856 0.050396854 5.91E-09 8.228581488 0.307947709 GVPAGNS(ph)DTEGGQPGRK ddPTM_HeLa_SAHA_4h_R1 4 GVPAGNSDTEGGQPGRK 17 1 S4R3H4;E7EQT4;Q9UKV3;G3V3B0;Q9UKV3-3;Q9UKV3-2;Q9UKV3-5;G3V3T3 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 GVPAGNS(0.961)DT(0.039)EGGQPGRK;GVPAGNS(0.999)DT(0.001)EGGQPGRK;GVPAGNS(0.984)DT(0.016)EGGQPGRK;GVPAGNS(1)DTEGGQPGRK ;;; 222.09 7.07E-21 36157500 3570.35 4072.32 3331.17 3821.03 3711.47 4789.69 3902.45 3746.56 3325.97 3535.26 TRUE FALSE FALSE 3945.895794 4204.26584 3785.1245 3894.991561 3427.09797 4381.581466 3463.336055 3650.72842 3302.824304 3687.68236 1.07002052 1.140083508 1.02642368 1.056216664 0.929336542 1.188166723 0.939163333 0.989979088 0.895636875 1 11.84849868 GVPAGNSDT(ph)EGGQPGR ddPTM_HeLa_SAHA_4h_R1 1 GVPAGNSDTEGGQPGR 16 0 S4R3H4;E7EQT4;Q9UKV3;G3V3B0;Q9UKV3-3;Q9UKV3-2;Q9UKV3-5;G3V3T3 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 GVPAGNS(0.11)DT(0.89)EGGQPGR 143.43 0.00018359 71192000 264.03 131.17 187.16 229.24 274.17 280.23 151.51 111.33 163.53 203.24 TRUE FALSE FALSE 291.8018868 135.4199941 212.6651901 233.6772717 253.1631538 256.3528275 134.461696 108.4823398 162.3919814 212.002671 1.376406653 0.638765509 1.003125051 1.102237394 1.194150775 1.209196215 0.634245292 0.511702703 0.765990261 1 7.727938631 -4.699242732 5.309946198 1.127792005 0.549642029 0.367789456 0.219087985 0.116898467 6.364104917 0.030017829 0.116125558 2.00E-05 4.699242732 -0.578149975 GVPGCCYSS(ph)LPR ddPTM_HeLa_SAHA_4h_R1 2 GVPGCCYSSLPR 12 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 GVPGCCYS(0.008)S(0.992)LPR;GVPGCCYS(0.217)S(0.783)LPR ; 120.86 0.0014949 38051000 2310.31 1947.78 1730.54 1909.14 2258.18 2260.76 2255.9 2336.53 2106.19 2239.09 TRUE FALSE FALSE 2553.319006 2010.88935 1966.368979 1946.094165 2085.158736 2068.130529 2002.060195 2276.764946 2091.532852 2335.628128 1.093204426 0.860962979 0.841901566 0.833220898 0.892761442 0.88547081 0.857182773 0.974797708 0.895490522 1 11.18959488 -7.254089097 24.95574744 1.044013201 0.874978149 0.358270122 0.063369586 210.3778731 714277.2509 0.008206154 0.00994421 5.57E-08 7.254089097 -0.169035052 GVPTGFILPIR ddPTM_HeLa_SAHA_4h_R1 1 GVPTGFILPIR 11 0 V9GZ78;V9GYY3;A0A384N5Y3;F5H2F4;P11586;A0A494C1T2 V9GZ78 MTHFD1 "C-1-tetrahydrofolate synthase, cytoplasmic;Methylenetetrahydrofolate dehydrogenase;Methenyltetrahydrofolate cyclohydrolase;Formyltetrahydrofolate synthetase;C-1-tetrahydrofolate synthase, cytoplasmic, N-terminally processed" 0 0 105.52 0.014346 433440 0 74.372 0 0 0 153.83 151.67 0 0 0 FALSE FALSE TRUE 0 76.7817016 0 0 0 140.7228186 134.6036924 0 0 0 0 GVQGEPGPPGRGVQGPQGEPGAPGLPGIQGLPGPR ddPTM_HeLa_SAHA_4h_R1 1 GVQGEPGPPGRGVQGPQGEPGAPGLPGIQGLPGPR 35 1 A6NCT7;Q07092-2;Q07092 A6NCT7 COL16A1 Collagen alpha-1(XVI) chain 0 0 40.952 0.0015444 0 431.37 782.35 700.24 433.38 595.44 720.68 829.19 527.56 394.15 642.76 FALSE FALSE TRUE 476.7434758 807.6986533 795.6650605 441.7686966 549.8175158 659.2740096 735.8873589 514.0657791 391.4070781 670.4725292 0.711055942 1.204670763 1.186722835 0.658891569 0.820044807 0.983297571 1.097565265 0.766721613 0.583777949 1 9.389034413 GVQKPAGPST(ph)SPDGNSR ddPTM_HeLa_SAHA_4h_R1 2 GVQKPAGPSTSPDGNSR 17 1 Q86YV5 Q86YV5 SGK223 Tyrosine-protein kinase SgK223 1 0 GVQKPAGPS(0.087)T(0.456)S(0.456)PDGNSR;GVQKPAGPS(0.12)T(0.554)S(0.326)PDGNSR ; 92.671 0.0046988 21089800 3320.6 3097.9 2945.8 2821.2 3177.4 3516.9 3334.9 2836.7 3566.9 2884.9 TRUE FALSE FALSE 3669.875943 3198.273993 3347.238283 2875.808406 2933.948298 3217.240334 2959.648275 2764.141321 3542.077652 3009.282157 1.219518726 1.062802963 1.112304566 0.955645983 0.97496617 1.069105576 0.983506405 0.918538434 1.177050694 1 11.55520367 -6.267621344 24.50312877 1.103169607 0.985159213 0.501843167 0.0661932 364.633416 1445277.387 0.013536921 0.021002211 5.40E-07 6.267621344 -0.118010394 GVQVETISPGDGR ddPTM_HeLa_SAHA_4h_R1 3 GVQVETISPGDGR 13 0 P62942;Q1JUQ3;A0A087WTS4;A0A087WV48;A0A087WZM5 P62942 FKBP1A;FKBP12-Exin Peptidyl-prolyl cis-trans isomerase FKBP1A;Peptidyl-prolyl cis-trans isomerase 0 0 ;; ;; 169.23 0.00017222 15554220 2005.09 1958.38 2125.59 2156.03 2080.95 2281.32 2402.83 2275.45 2456.77 1989.27 FALSE FALSE TRUE 2215.994566 2021.832797 2415.254336 2197.763078 1921.508061 2086.938702 2132.457244 2217.247284 2439.673138 2075.037165 1.067930061 0.9743598 1.163957146 1.059143959 0.926011395 1.005735578 1.027671832 1.06853377 1.175725032 1 11.01892146 -4.258566761 21.42115019 1.030376468 1.068533859 0 0.075349186 121.2385615 903648.4654 0.008287225 0.074576482 5.51E-05 4.258566761 0.038157391 GVQVPAS(ph)PDTVPQPSLR ddPTM_HeLa_SAHA_4h_R1 2 GVQVPASPDTVPQPSLR 17 0 Q92613;F2Z2B6;F2Z3N8 Q92613 JADE3 Protein Jade-3 1 0 GVQVPAS(0.953)PDT(0.047)VPQPS(0.001)LR;GVQVPAS(0.768)PDT(0.232)VPQPSLR ; 181.72 1.60E-09 16833900 4876.05 4293.76 4031 5173.1 4710.05 5720.6 5322.1 4873.1 4441.65 4652.19 TRUE FALSE FALSE 5388.935311 4432.880641 4580.323687 5273.232831 4349.166987 5233.172697 4723.243301 4748.453158 4410.740196 4852.768678 1.110486749 0.913474541 0.943857825 1.086644178 0.896223841 1.078389069 0.973308974 0.978503917 0.908912105 1 12.24459238 -7.267869428 24.98733626 1.052174296 0.984216574 0 0.077803617 659.169329 2561542.376 0.011367897 0.013163776 5.40E-08 7.267869428 -0.067957722 GVQVPVS(ph)PGTIPQPVAR ddPTM_HeLa_SAHA_4h_R1 2 GVQVPVSPGTIPQPVAR 17 0 Q6IE81-2;Q6IE81;Q6IE81-3;D6RCS1;D6RC05;D6RBB3;D6RFK0;D6RGE7 Q6IE81-2 JADE1 Protein Jade-1 1 0 GVQVPVS(0.87)PGT(0.13)IPQPVAR;GVQVPVS(0.5)PGT(0.5)IPQPVAR ; 137.32 0.0001193 6914500 3007.9 2828.9 2743.5 2883.9 2960 3205.4 3183.8 3143.3 3226.2 2932.9 TRUE FALSE FALSE 3324.284723 2920.558216 3117.369892 2939.722055 2733.205439 2932.281887 2825.550445 3062.898937 3203.748612 3059.351672 1.086597776 0.954633049 1.018964221 0.960897069 0.893393677 0.958465126 0.923578178 1.001159483 1.047198542 1 11.57901024 -6.618799319 1.416837783 1.03859284 0.944136947 0.461883248 0.040312292 0.268634264 1.086742377 0.007995023 0.012656782 2.41E-07 6.618799319 -0.094455892 GVS(ph)GDRDENSFSLNSSISSSAR ddPTM_HeLa_SAHA_4h_R1 2 GVSGDRDENSFSLNSSISSSAR 22 1 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 GVS(0.995)GDRDENS(0.004)FSLNSSISSSAR;GVS(1)GDRDENSFSLNSSISSSAR ; 168.05 1.68E-22 9073200 342.82 311.916 658.95 474.24 583.06 614.607 700.85 637.51 655.82 228 TRUE FALSE FALSE 378.8793805 322.0222831 748.7482743 483.419601 538.3860688 562.2390259 621.9885135 621.2034173 651.2560952 237.8301958 1.593066764 1.354000832 3.148247311 2.032624997 2.263741435 2.3640355 2.615263009 2.61196193 2.738323841 1 7.893788086 -7.258325855 0.596238669 1.092251519 2.548483257 0 0.644416644 0.287718137 0.227400299 0.120742707 0.143770306 5.52E-08 7.258325855 1.456231738 GVS(ph)MPNMLEPK ddPTM_HeLa_SAHA_4h_R1 2 GVSMPNMLEPK 11 0 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639 J3QSX6 ABLIM1 Actin-binding LIM protein 1 1 0 GVS(1)MPNMLEPK;GVS(1)MPNMLEPK ; 153.49 0.00039233 30681000 10154 10134.2 9825.8 10249.2 10717.2 10913.1 11108.7 10424.3 10174 10061.3 TRUE FALSE FALSE 11222.04431 10462.55473 11164.80885 10447.58809 9896.050451 9983.242485 9858.71984 10157.6615 10103.19831 10495.09188 1.069265942 0.996899774 1.063812397 0.995473713 0.942921755 0.951229641 0.939364796 0.967848744 0.962659348 1 13.35742718 -5.954355668 3.922566156 1.032434738 0.950032482 0.480893724 0.031750225 0.105414479 3.449312588 0.004339101 0.007990225 1.11E-06 5.954355668 -0.082402256 GVS(ph)PTPSKIPVR ddPTM_HeLa_SAHA_4h_R1 1 GVSPTPSKIPVR 12 1 F8W130;Q12815;F8VXV6;F8VR46;F8VVX4;F8VVT5;F8W052;F8VXF3;B7Z5Q9;F8VVS4;F8W1E3;Q12815-3;Q12815-2 F8W130 TROAP Tastin 1 0 GVS(0.997)PT(0.003)PSKIPVR 84.507 0.010425 10969000 3751.5 3965.9 4216.5 3963.7 4002.7 3729.3 4614.2 3832.6 3064.9 3676.5 TRUE FALSE FALSE 4146.099982 4094.397762 4791.102661 4040.423145 3696.013991 3411.54266 4094.998072 3734.567642 3043.571111 3835.011907 1.08111789 1.067636258 1.249305811 1.053562086 0.963755545 0.889578114 1.067792792 0.973808617 0.793627552 1 11.90501534 -5.782110665 9.063571702 1.06022392 0.974424233 0.063232654 0.112701492 0.287127309 113.0118671 0.012128607 0.022361246 1.65E-06 5.782110665 -0.085799686 GVS(ph)QEKEAQISSAIVSSVQSK ddPTM_HeLa_SAHA_4h_R1 1 GVSQEKEAQISSAIVSSVQSK 21 1 Q12872;Q12872-2 Q12872 SFSWAP "Splicing factor, suppressor of white-apricot homolog" 1 0 GVS(0.996)QEKEAQIS(0.003)S(0.001)AIVSSVQSK 87.881 0.00054193 0 215.26 159.88 246.63 347.34 293.72 365.6 137.07 379.2 336.58 244.01 TRUE FALSE FALSE 237.9020344 165.0602169 280.239452 354.063268 271.2152371 334.4488232 121.6465229 369.5006131 334.2377124 254.5304653 0.934670175 0.648489039 1.101005539 1.391044752 1.065551178 1.313983467 0.477925197 1.451695037 1.313154054 1 7.991694535 -6.557756528 24.99454018 0.94092915 1.122505862 0.061271962 0.293848861 312.8926376 224227.8311 0.039582362 0.055978065 2.77E-07 6.557756528 0.181576713 GVSMS(ph)LPS(ph)SPLLPR ddPTM_HeLa_SAHA_4h_R1 1 GVSMSLPSSPLLPR 14 0 Q9C0D5;Q9C0D5-2 Q9C0D5 TANC1 Protein TANC1 2 0 GVS(0.084)MS(0.915)LPS(0.577)S(0.424)PLLPR 79.886 0.023508 6423700 1793.6 1611 1575.9 2226.8 1570.8 1757.3 1502.3 1582.4 1309.5 1665.1 TRUE FALSE FALSE 1982.259077 1663.197457 1790.655445 2269.902934 1450.445643 1607.568154 1333.25725 1541.924499 1300.387083 1736.89061 1.141268809 0.957571794 1.030954647 1.306877314 0.835081746 0.925543696 0.767611525 0.88774992 0.748686806 1 10.76229118 -5.669048648 24.8152566 1.071234643 0.852930714 0.247933525 0.140772962 10.02373167 2688.11564 0.014351629 0.028703255 2.14E-06 5.669048648 -0.21830393 GVSMS(ph)LPSSPLLPR ddPTM_HeLa_SAHA_4h_R1 1 GVSMSLPSSPLLPR 14 0 Q9C0D5;Q9C0D5-2 Q9C0D5 TANC1 Protein TANC1 1 0 GVS(0.002)MS(0.998)LPSSPLLPR 99.161 0.0028179 0 455.38 397.38 428.29 406.05 443.48 616.53 613.14 411.47 618.13 553.03 TRUE FALSE FALSE 503.2789578 410.2553727 486.6551308 413.9096849 409.5006582 563.9981755 544.1478735 400.9451932 613.828383 576.8738298 0.872424665 0.711170019 0.843607572 0.717504701 0.709861736 0.977680294 0.943270167 0.695030997 1.064060027 1 9.172112006 -8.264877897 0.916399761 0.981631184 0.808721171 0.430015636 0.09965362 0.409703843 0.725062668 0.032917985 0.021408122 5.43E-09 8.264877897 -0.172910013 GVSMSLPSS(ph)PLLPR ddPTM_HeLa_SAHA_4h_R1 1 GVSMSLPSSPLLPR 14 0 Q9C0D5;Q9C0D5-2 Q9C0D5 TANC1 Protein TANC1 1 0 GVSMS(0.003)LPS(0.153)S(0.844)PLLPR 144.51 0.00012333 11030000 1808.4 1800.8 1526.2 1964.3 1703.9 2353.3 1931.1 2032.4 2212.7 2153.3 TRUE FALSE FALSE 1998.615809 1859.147102 1734.182588 2002.321867 1573.34755 2152.785601 1713.807546 1980.414151 2197.301641 2246.139301 0.889800472 0.827707837 0.77207259 0.891450439 0.700467486 0.958438152 0.763001451 0.881696941 0.978257065 1 11.13323169 -8.189945365 0.701091374 0.990110809 0.824451802 0.441163953 0.070468779 0.365987397 0.394107743 0.026622415 0.015966945 6.46E-09 8.189945365 -0.165659007 GVSS(ph)PVETR ddPTM_HeLa_SAHA_4h_R1 1 GVSSPVETR 9 0 A8MVZ6;Q96G01-4;Q96G01-3;Q96G01 A8MVZ6 BICD1 Protein bicaudal D homolog 1 1 0 GVS(0.112)S(0.888)PVETR 126.31 0.0026384 12964000 2061.7 2038.2 1879.7 2192.9 2299 2437.1 2232.1 2495.6 2592.6 2436.3 TRUE FALSE FALSE 2278.559065 2104.239017 2135.855727 2235.34675 2122.851117 2229.445369 1980.938233 2431.766166 2574.557886 2541.340816 0.896597202 0.828003471 0.840444427 0.879593456 0.835327203 0.877271303 0.779485467 0.956883134 1.013070687 1 11.31137415 -8.442114301 0.66716611 0.996274548 0.853048036 0.618349208 0.045199735 0.315195545 0.294422313 0.021466998 0.010034099 3.61E-09 8.442114301 -0.143226512 GVT(ph)PAGFPK ddPTM_HeLa_SAHA_4h_R1 2 GVTPAGFPK 9 0 Q8WX93-3;Q8WX93;Q8WX93-4;A0A3B3ISX8 Q8WX93-3 PALLD Palladin 1 0 GVT(1)PAGFPK;GVT(1)PAGFPK ; 116.52 0.0074977 28360000 7165.9 6203 6206.9 5630 8907.6 7250 6355.5 6383.6 6411.7 6056.2 TRUE FALSE FALSE 7919.64224 6403.98127 7052.744008 5738.976791 8225.101612 6632.259213 5640.362413 6220.316755 6367.080458 6317.31242 1.25364106 1.01371926 1.116415263 0.908452267 1.301993801 1.049854554 0.892842088 0.984646055 1.00787804 1 12.62509521 -4.949078817 6.416798901 1.110586576 0.94371487 0.179233024 0.11598115 0.220192609 20.20563122 0.01740801 0.052940055 1.12E-05 4.949078817 -0.166871706 GVTEAIQNFS(ph)FR ddPTM_HeLa_SAHA_4h_R1 1 GVTEAIQNFSFR 12 0 E3W994;J3KR49;O75122;A0A0U1RQI6;E7ERI8;E7EW49;O75122-3 E3W994;E7ERI8 CLASP2 CLIP-associating protein 2 1 0 GVTEAIQNFS(1)FR 83.53 0.018391 2475600 160.59 277.22 164.72 280.07 251.85 244.27 261.23 415.31 298.71 284.59 TRUE FALSE FALSE 177.481593 286.2021099 187.1671838 285.4911598 232.5533074 223.4568218 231.8357129 404.6869716 296.6312528 296.8600676 0.597862806 0.964097705 0.630489595 0.961702805 0.783376859 0.752734524 0.780959577 1.363224683 0.999229216 1 8.213639231 -4.259730282 24.67006583 0.807900248 1.363224904 0.555092792 0.141958688 77.04423074 1111980.886 0.021868607 0.187598868 5.50E-05 4.259730282 0.555324656 GVTFNVTTVDTK ddPTM_HeLa_SAHA_4h_R1 2 GVTFNVTTVDTK 12 0 O00299 O00299 CLIC1 Chloride intracellular channel protein 1 0 0 ; ; 229 2.49E-43 7425800 1708.73 1973.37 2048.77 2271.3 2196.8 2520.04 2964.4 2097.39 2332.15 2090.39 FALSE FALSE TRUE 1888.462061 2037.308483 2327.965706 2315.264296 2028.481659 2305.318415 2630.83791 2043.741801 2315.920378 2180.516943 0.866061632 0.93432362 1.067621012 1.061796059 0.930275578 1.057234809 1.206520279 0.937273983 1.062096943 1 11.09045449 -6.7677094 24.86979496 0.934801996 1.047181452 0.121505865 0.087777094 135.0664544 535735.7496 0.013614049 0.018141262 1.71E-07 6.7677094 0.112379456 GVTFNVTTVDTKR ddPTM_HeLa_SAHA_4h_R1 1 GVTFNVTTVDTKR 13 1 O00299 O00299 CLIC1 Chloride intracellular channel protein 1 0 0 128.22 0.00027428 3881400 825.92 888.64 1018.8 905.02 1119.5 1079.2 1105.2 744.88 981.97 1079.3 FALSE FALSE TRUE 912.7940551 917.4325191 1157.636758 922.5379708 1033.724152 987.2460886 980.8399873 725.8270482 975.1363908 1125.833905 0.81077151 0.814891535 1.028248264 0.819426353 0.918185309 0.876902076 0.871211982 0.644701714 0.866145873 1 10.13677829 -13.52285337 0.318776482 2.497508571 0.842390455 0.012356042 0.101321636 48.26906742 0.650893533 46.73240895 0.033698418 3.00E-14 13.52285337 -1.655118115 GVTIASGGVLPNIHPELLAK ddPTM_HeLa_SAHA_4h_R1 1 GVTIASGGVLPNIHPELLAK 20 0 D6RCF2;O75367-2;O75367-3;O75367 D6RCF2 H2AFY Histone H2A;Core histone macro-H2A.1 0 0 187.56 2.56E-21 1180100 1597.7 1510.3 1076 1750.5 1750.6 1459 1708.4 1740.1 1362.9 1913.7 FALSE FALSE TRUE 1765.753417 1559.234711 1222.631676 1784.383459 1616.469406 1334.684992 1516.166336 1695.590762 1353.415468 1996.208972 0.884553391 0.781097937 0.612476796 0.893886103 0.809769633 0.668609855 0.759522854 0.849405441 0.677992879 1 10.96304704 -7.731731775 1.097983482 0.970911832 0.764031711 0 0.122123747 0.235698352 0.592870181 0.019377086 0.018227365 1.85E-08 7.731731775 -0.20688012 GVTIIGPATVGGIKPGCFK ddPTM_HeLa_SAHA_4h_R1 2 GVTIIGPATVGGIKPGCFK 19 1 P53396;P53396-2;P53396-3 P53396 ACLY ATP-citrate synthase 0 0 ; ; 265.43 1.91E-88 6308900 1917.65 1578.7 1360.53 1851.66 1911.35 1995.52 1744.72 1607.72 1544 1518.21 FALSE FALSE TRUE 2119.357225 1629.850916 1545.935943 1887.501557 1764.902776 1825.49047 1548.399514 1566.59685 1533.255178 1583.667463 1.338258994 1.029162342 0.976174594 1.19185473 1.114440258 1.152698096 0.977730205 0.989220835 0.96816738 1 10.62905372 -4.759690567 24.85348546 1.139165787 0.983475459 0.041932108 0.114258123 55.54926833 789368.1595 0.019177629 0.065009391 1.74E-05 4.759690567 -0.155690328 GVTIPYRPKPSS(ph)SPVIFAGGQDR ddPTM_HeLa_SAHA_4h_R1 1 GVTIPYRPKPSSSPVIFAGGQDR 23 2 Q15366-2;Q15366;Q15366-3;Q15366-6;H3BSS4 Q15366-2 PCBP2 Poly(rC)-binding protein 2 1 0 GVT(0.001)IPY(0.008)RPKPS(0.324)S(0.508)S(0.159)PVIFAGGQDR 42.831 0.019273 105380000 2219.6 2613.5 2357.2 2962.9 3096.8 2267.4 3004.6 2703.1 2644.6 2321.3 TRUE FALSE FALSE 2453.067712 2698.179115 2678.42694 3020.251214 2859.523853 2074.204764 2666.5145 2633.958616 2626.196013 2421.382603 1.013085544 1.114313414 1.106156019 1.247325065 1.180946724 0.856619999 1.101236334 1.08779117 1.084585315 1 11.24161534 -7.292184661 7.476126294 1.006061496 1.099059994 0.071261678 0.097020371 0.315445928 64.82381023 0.01644894 0.018926444 5.10E-08 7.292184661 0.092998499 GVTLGFR ddPTM_HeLa_SAHA_4h_R1 1 GVTLGFR 7 0 H0Y9V9;D6RAN4;A0A2R8Y5Y7;P32969;E7ESE0 H0Y9V9 RPL9 60S ribosomal protein L9 0 0 107.74 0.014577 1515300 804.57 937.92 1653.4 731.47 1093.3 342.17 1476.2 265.15 184.59 533.91 FALSE FALSE TRUE 889.1983641 968.3092234 1878.716741 745.6286596 1009.53159 313.015191 1310.094091 258.3678469 183.3054232 556.929473 1.59660856 1.738656814 3.373347672 1.338820615 1.812674026 0.562037396 2.352351876 0.463914839 0.329135792 1 9.121350833 GVTQFGNK(ac)YIQQTK ddPTM_HeLa_SAHA_4h_R1 2 GVTQFGNKYIQQTK 14 1 O43809 O43809 NUDT21 Cleavage and polyadenylation specificity factor subunit 5 0 1 ; GVTQFGNK(1)YIQQTK;GVTQFGNK(1)YIQQTK 237.59 1.08E-55 3902200 848.41 1246.69 954.95 2262.2 1839.61 1588.75 1953.92 1384.74 1149.18 793.48 FALSE TRUE FALSE 937.6496564 1287.083574 1085.085613 2305.988152 1698.659479 1453.379562 1734.059779 1349.320356 1141.182763 827.690806 1.132850153 1.555029444 1.31097942 2.78605022 2.052287481 1.755945036 2.095057438 1.630222719 1.37875491 1 9.692948122 -6.773990842 1.665059053 1.065235818 2.030428812 0.515276556 0.351279204 0.164631308 0.928664397 0.056269074 0.081444271 1.68E-07 6.773990842 0.965192994 GVTQFGNK(ac)YIQQTKPLTLER ddPTM_HeLa_SAHA_4h_R1 2 GVTQFGNKYIQQTKPLTLER 20 2 O43809 O43809 NUDT21 Cleavage and polyadenylation specificity factor subunit 5 0 1 ; GVTQFGNK(1)YIQQTKPLTLER;GVTQFGNK(1)YIQQTKPLTLER 246.48 9.11E-62 92049000 2409.4 2250.7 2791.3 4679.3 4163.5 2561.2 4442.3 2604.5 1772.69 1451.16 FALSE TRUE FALSE 2662.831747 2323.624157 3171.683828 4769.874618 3844.493529 2342.971351 3942.440713 2537.880661 1760.353706 1513.726609 1.759123299 1.535035549 2.095281808 3.151080643 2.53975421 1.547816717 2.604460203 1.676577954 1.162927107 1 10.56388895 -7.909811126 0.575709666 1.06922366 2.280716331 0.468915042 0.471648588 0.459800675 0.355215036 0.218434993 0.151906903 1.23E-08 7.909811126 1.211492671 GVTTVTLPMIFNS(ph)SYLRR ddPTM_HeLa_SAHA_4h_R1 1 GVTTVTLPMIFNSSYLRR 18 1 A0A499FJI4;O75592-2;O75592;H7C3U4 A0A499FJI4 MYCBP2 E3 ubiquitin-protein ligase MYCBP2 1 0 GVTTVTLPMIFNS(0.401)S(0.401)Y(0.198)LRR 50.966 0.023004 8823600 1255 1547.7 1104.8 1371.6 1578.1 1695.9 1595.7 1633 1434.9 1553.6 TRUE FALSE FALSE 1387.006658 1597.846495 1255.35639 1398.149301 1457.186319 1551.399779 1416.147636 1591.230225 1424.914414 1620.583299 0.855868784 0.985969988 0.774632437 0.862744483 0.89917397 0.957309495 0.873850568 0.98188734 0.879260211 1 10.66229746 -9.446791286 1.106225056 1.001697342 0.893646664 0 0.071290578 0.516525474 1.101498638 0.044231589 0.010320433 3.57E-10 9.446791286 -0.108050677 GVVDSDDLPLNVSR ddPTM_HeLa_SAHA_4h_R1 5 GVVDSDDLPLNVSR 14 0 P14625 P14625 HSP90B1 Endoplasmin 0 0 ;;;; ;;;; 282.05 3.91E-68 51695260 5152.39 4957.36 4842.19 5453.86 5894.11 6248.71 6608.83 5821.18 6113.84 5451.79 FALSE FALSE TRUE 5694.34202 5117.981717 5502.058436 5559.427347 5442.504565 5716.284754 5865.187055 5672.282645 6071.29329 5686.843347 1.0013186 0.899968823 0.967506594 0.9775946 0.957034374 1.005177109 1.031360756 0.997439581 1.067603399 1 12.47341235 -3.008372502 15.65893767 0.990165978 0.988074286 0 0.042541285 0 0 0.004828432 0 0.000980906 3.008372502 -0.002091691 GVVDSEDLPLNISR ddPTM_HeLa_SAHA_4h_R1 7 GVVDSEDLPLNISR 14 0 P07900;P07900-2;P08238 P07900;P08238 HSP90AA1;HSP90AB1 Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-beta 0 0 ;;;;;; ;;;;;; 295.34 1.06E-83 400741200 12965.49 12948.02 11831.11 13036.45 13439.53 13946.17 15711.36 13393.54 14398.93 12933.05 FALSE FALSE TRUE 14329.25973 13367.54434 13443.39206 13288.78934 12409.79611 12757.87786 13943.47642 13050.95264 14298.72667 13490.65708 1.062161735 0.990874223 0.996496463 0.985036478 0.919880777 0.945682466 1.033565403 0.967406744 1.059898461 1 13.719673 -6.788952363 1.945416844 1.028863305 0.971204615 0.425137019 0.033203264 0.283281637 2.193245494 0.006277847 0.008922288 1.63E-07 6.788952363 -0.05765869 GVVEVTHDLQK ddPTM_HeLa_SAHA_4h_R1 2 GVVEVTHDLQK 11 0 P50454;E9PKH2 P50454 SERPINH1 Serpin H1 0 0 ; ; 105.13 0.0030615 4538900 6048.5 17387.7 5859.9 6373.3 7376.5 5982.4 6650.5 5173.1 9118 5405.8 FALSE FALSE TRUE 6684.708982 17951.07289 6658.456655 6496.664437 6811.314164 5472.665864 5902.168237 5040.779593 9054.547096 5638.870493 1.1854695 3.183451883 1.180813899 1.15212159 1.207921723 0.970525191 1.046693348 0.893934273 1.605737728 1 12.46119049 -5.399568075 1.813770107 1.277670783 0.964964094 0.060171712 0.621349861 1.133318132 7.191925265 0.098328615 0.28902649 3.99E-06 5.399568075 -0.312706689 GVVPLAGTDGETTTQGLDGLSER ddPTM_HeLa_SAHA_4h_R1 1 GVVPLAGTDGETTTQGLDGLSER 23 0 P09972;K7EKH5;C9J8F3;J3KSV6;J3QKP5;A8MVZ9 P09972 ALDOC Fructose-bisphosphate aldolase C;Fructose-bisphosphate aldolase 0 0 72.175 0.012021 15841000 397.64 416.54 535 453.51 363.91 372.88 430.79 426.48 472.8 395.09 FALSE FALSE TRUE 439.4655996 430.0361693 607.9070138 462.2883418 336.0272944 341.1085262 382.3163754 415.5712591 469.5097463 412.1242634 1.066342457 1.043462391 1.475057568 1.12172076 0.81535431 0.827683678 0.927672572 1.008363972 1.139243155 1 8.686935593 -5.767360254 24.9981732 1.075695971 0.892327127 0.377948699 0.140470663 152.7912861 645094.1886 0.022398868 0.041388009 1.71E-06 5.767360254 -0.183368844 GVVPLAGTNGETTTQGLDGLSER ddPTM_HeLa_SAHA_4h_R1 5 GVVPLAGTNGETTTQGLDGLSER 23 0 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7;H3BR04;H3BMQ8;H3BU78 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 ;;;; ;;;; 299.65 3.59E-127 56882200 5096.5 4333.922 4155.015 4493.2 4178.328 4643.117 5134.733 5535.56 5071.72 4319.55 FALSE FALSE TRUE 5632.573254 4474.343916 4721.238806 4580.172383 3858.185411 4247.49731 4556.959329 5393.968391 5036.425488 4505.78694 1.250075365 0.993021636 1.047816701 1.016508868 0.85627338 0.942676022 1.011357037 1.197120162 1.117768229 1 12.13756338 GVVVLAK ddPTM_HeLa_SAHA_4h_R1 3 GVVVLAK 7 0 A0A0A0MSS8;P42330;S4R3Z2;P42330-2;P17516;A0A3B3IRI8;B4DK69;P52895;Q04828;H0Y804 A0A0A0MSS8;B4DK69;Q04828 AKR1C3;AKR1C4;AKR1C2;AKR1C1 Aldo-keto reductase family 1 member C3;Aldo-keto reductase family 1 member C4;Aldo-keto reductase family 1 member C2;Aldo-keto reductase family 1 member C1 0 0 ;; ;; 140.79 2.48E-05 18669400 11687.7 13579.6 19493 17402.7 15036.8 9907.1 17732.6 7716.1 5452.4 9011.1 FALSE FALSE TRUE 12917.06591 14019.58795 22149.40452 17739.55442 13884.68363 9062.959344 15737.28118 7518.733335 5414.456304 9399.61262 1.37421258 1.491506993 2.35641674 1.887264416 1.477154878 0.964184346 1.674247846 0.799898213 0.576029728 1 13.19838559 -5.295132333 24.60946886 1.367462368 1.198923499 0.052794301 0.497728962 1990.968176 1454208.164 0.071963153 0.160923184 5.07E-06 5.295132333 -0.168538869 GVVVLAK(ac)SYNEQR ddPTM_HeLa_SAHA_4h_R1 2 GVVVLAKSYNEQR 13 1 A0A0A0MSS8;P42330;S4R3Z2;P42330-2;P17516;B4DK69;P52895;Q04828;H0Y804 A0A0A0MSS8;B4DK69;Q04828 AKR1C3;AKR1C4;AKR1C2;AKR1C1 Aldo-keto reductase family 1 member C3;Aldo-keto reductase family 1 member C4;Aldo-keto reductase family 1 member C2;Aldo-keto reductase family 1 member C1 0 1 ; GVVVLAK(1)SYNEQR;GVVVLAK(1)SYNEQR 196.67 2.04E-23 2623600 442.72 833.27 693.75 745.83 911.56 995.66 1143.33 1521.32 718.89 913.72 FALSE TRUE FALSE 489.2873209 860.2684947 788.2906371 760.2666181 841.7164697 910.8241666 1014.679499 1482.406837 713.887186 953.1149408 0.51335605 0.902586307 0.827067758 0.797665198 0.883121682 0.955628883 1.064593005 1.555328506 0.749004297 1 9.896506396 -1.000001531 0.689537083 0.780586364 92.03592318 0.783671881 0.118749041 122.5454129 0.63211429 0.029897164 17235.91295 0.099999647 1.000001531 91.25533682 GVVVVIK ddPTM_HeLa_SAHA_4h_R1 2 GVVVVIK 7 0 H0YMF4;H0YKD8;P46779-4;P46779-5;P46779;P46779-2;P46779-3 H0YMF4 RPL28 60S ribosomal protein L28 0 0 ; ; 113.82 0.0076589 20354600 5028.3 7746.3 6608.1 7229.3 7871.1 8623.9 8724.6 6467.1 7695.2 7133.2 FALSE FALSE TRUE 5557.199665 7997.285203 7508.617454 7369.233555 7268.018018 7889.095203 7742.885046 6301.680946 7641.648477 7440.747161 0.746860435 1.074795989 1.009121435 0.990388921 0.976786049 1.060255782 1.040605853 0.846915076 1.027000154 1 12.86123178 -7.242136285 24.94064368 0.880461864 1.002837126 0.063047436 0.094179854 902.799386 1166466.79 0.017837748 0.021829312 5.73E-08 7.242136285 0.122375262 GVVVVIKR ddPTM_HeLa_SAHA_4h_R1 1 GVVVVIKR 8 1 H0YMF4;H0YKD8;P46779-4;P46779-5;P46779;P46779-2;P46779-3 H0YMF4 RPL28 60S ribosomal protein L28 0 0 132.72 4.09E-06 0 1843.3 1767.5 2205.7 2466 2919.9 2652.4 3137.8 2506.4 1792.5 3408 FALSE FALSE TRUE 2037.186751 1824.76816 2506.281309 2513.732996 2696.177893 2426.400598 2784.726486 2442.289917 1780.025847 3554.935558 0.5730587 0.513305552 0.705014555 0.707110707 0.758432283 0.682544186 0.783340919 0.687013837 0.500719582 1 11.79560769 -9.381396862 1.113914784 0.999417404 0.671568177 0 0.17057428 0.235012082 0.523101809 0.059332618 0.015368529 4.16E-10 9.381396862 -0.327849227 GVY(ph)SSWVT(ph)DNILAMARPS(ph)SELLEK ddPTM_HeLa_SAHA_4h_R1 1 GVYSSWVTDNILAMARPSSELLEK 24 1 A0A087WTF0;A2A3K4;A2A3K4-2 A0A087WTF0 PTPDC1 Protein tyrosine phosphatase domain-containing protein 1 3 0 GVY(0.735)S(0.267)S(0.288)WVT(0.71)DNILAMARPS(0.5)S(0.5)ELLEK 41.45 0.019954 6977800 419.71 450.38 338.83 420.65 339.69 559.67 485.58 322.39 353.27 510.31 TRUE FALSE FALSE 463.8570235 464.9726075 385.0039878 428.792289 313.6630256 511.9829674 430.9412604 314.1437306 350.8115653 532.3119615 0.871400714 0.873496448 0.723267587 0.805528187 0.589246623 0.961809999 0.809565239 0.590149674 0.659033782 1 9.056128175 -7.763425274 0.421797855 1.006743003 0.735121092 0 0.148125291 0.671677548 0.31565686 0.069392315 0.050748006 1.72E-08 7.763425274 -0.271621912 GWDLVDAVT(ph)PGPQPTLEQLEEGGPRPLER ddPTM_HeLa_SAHA_4h_R1 1 GWDLVDAVTPGPQPTLEQLEEGGPRPLER 29 1 Q27J81-2;Q27J81;A0A0A0MQU1 Q27J81-2 INF2 Inverted formin-2 1 0 GWDLVDAVT(0.996)PGPQPT(0.004)LEQLEEGGPRPLER 71.54 0.00027354 2963300 260.87 424.85 350.65 288.08 447.59 372.77 260.1 278.3 354.65 455.72 TRUE FALSE FALSE 288.3095035 438.6154188 398.4347559 293.656205 413.2957509 341.0078989 230.8328635 271.181489 352.1819618 475.3683194 0.606497092 0.922685423 0.838160095 0.617744584 0.86942216 0.717355122 0.485587394 0.570466053 0.740861238 1 8.892901949 -13.52287875 0.278824248 3.308712497 0.668015163 0.066778936 0.153964212 35.86355202 0.483589142 46.19102035 0.067455475 3.00E-14 13.52287875 -2.640697334 GWDSS(ph)HEDDLPVYLAR ddPTM_HeLa_SAHA_4h_R1 1 GWDSSHEDDLPVYLAR 16 0 Q14195-2 Q14195-2 DPYSL3 Dihydropyrimidinase-related protein 3 1 0 GWDS(0.188)S(0.812)HEDDLPVYLAR 102.5 0.0026844 0 342.95 363.86 472.82 390.4 375.31 614.21 425.46 213.47 831.89 414.39 TRUE FALSE FALSE 379.0230545 375.6493027 537.2534473 397.9567565 346.5538289 561.8758525 377.5861211 208.0097465 826.1008098 432.2563809 0.876847795 0.869042817 1.242904607 0.920649814 0.80173213 1.29986711 0.873523533 0.481218452 1.911136183 1 8.755743451 -4.297883643 4.200047551 0.967830704 0.457233225 0.15562314 0.33567863 0.123607158 4.513569709 0.020368756 0.172886562 5.04E-05 4.297883643 -0.510597479 GWEEGVAQMSVGQR ddPTM_HeLa_SAHA_4h_R1 2 GWEEGVAQMSVGQR 14 0 P62942;Q1JUQ5;Q5W0X3 P62942 FKBP1A;FKBP12-Exip2 Peptidyl-prolyl cis-trans isomerase FKBP1A;Peptidyl-prolyl cis-trans isomerase 0 0 ; ; 117.86 0.0012719 0 1249.61 1264.44 1192.79 1600.58 1305.87 1331 1401.9 1596.43 1505.17 1168.49 FALSE FALSE TRUE 1381.049713 1305.408686 1355.337209 1631.56154 1205.814523 1217.591312 1244.154522 1555.595632 1494.695399 1218.869322 1.133058063 1.070999706 1.111962689 1.338586106 0.989289418 0.998951479 1.0207448 1.276261207 1.226296677 1 10.25132774 -9.312172165 0.883051294 0.995236817 1.113150468 0 0.128771432 1.108931165 1.447965512 0.089445607 0.02031608 4.87E-10 9.312172165 0.117913651 GWERGGDRCDAPGGDAARR ddPTM_HeLa_SAHA_4h_R1 1 GWERGGDRCDAPGGDAARR 19 3 Q5VV17 Q5VV17 OTUD1 OTU domain-containing protein 1 0 0 43.532 0.018886 1332100 287.24 603.51 376.68 430.13 418.77 454.32 407.59 363.36 530.77 357.28 FALSE FALSE TRUE 317.4532211 623.06412 428.0119887 438.4557881 386.6839331 415.6093801 361.7269005 354.0657773 527.0763284 372.6840893 0.851802452 1.671829139 1.148457906 1.176481102 1.037564909 1.115178759 0.970599258 0.950042643 1.414271077 1 8.541809418 GWLRDPSAS(ph)PGDAGEQAIR ddPTM_HeLa_SAHA_4h_R1 3 GWLRDPSASPGDAGEQAIR 19 1 P18206;P18206-2 P18206 VCL Vinculin 1 0 GWLRDPS(0.063)AS(0.937)PGDAGEQAIR;GWLRDPS(0.026)AS(0.974)PGDAGEQAIR;GWLRDPS(0.073)AS(0.927)PGDAGEQAIR ;; 219.72 4.79E-25 23769500 1932.92 2096.63 2524.08 1374.81 2075.63 2205.08 2260.4 1308.4 1669.16 1929.19 TRUE FALSE FALSE 2136.233394 2164.562188 2868.048478 1401.421436 1916.595678 2017.194779 2006.053843 1274.933023 1657.54418 2012.366822 1.06155268 1.075630031 1.42521157 0.696404562 0.952408704 1.002399143 0.996862908 0.633549017 0.823678944 1 10.97467759 GWS(ph)QEGPVK ddPTM_HeLa_SAHA_4h_R1 2 GWSQEGPVK 9 0 Q9C0C2;E9PKK0 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 GWS(1)QEGPVK;GWS(1)QEGPVK ; 124.39 0.0029464 42527000 5080.3 8168.7 5799.1 2621.7 5623.8 8877.7 8143.5 3540.2 4499 5914.5 TRUE FALSE FALSE 5614.669263 8433.37124 6589.371148 2672.446795 5192.905659 8121.270015 7227.171947 3449.64681 4467.691093 6169.50304 0.910068319 1.366944985 1.068055418 0.433170513 0.841705665 1.316357244 1.171435025 0.559145005 0.72415737 1 12.59093857 -4.243172235 22.65461558 0.98334116 0.559143661 0.187231006 0.263851948 1306.781676 1620552.798 0.034738798 1.295391617 5.71E-05 4.243172235 -0.424197499 GY(ph)DTS(ph)HVTRMT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 GYDTSHVTRMTK 12 1 P09544 P09544 WNT2 Protein Wnt-2 3 0 GY(0.901)DT(0.423)S(0.578)HVT(0.1)RMT(0.999)K 52.254 0.0088113 0 220.84 302.53 214.21 205.65 155.93 291.91 222.55 403.21 282.5 243.9 TRUE FALSE FALSE 244.0689645 312.3321705 243.4014232 209.6306531 143.9826771 267.0376258 197.5080883 392.896472 280.5340595 254.4157226 0.959331294 1.227644924 0.956707474 0.823968939 0.565934666 1.049611333 0.776320293 1.544308929 1.102660074 1 7.99104402 -6.528300865 24.95895716 1.003220237 0.922648741 0.01716607 0.249633104 540.2989022 2487080.316 0.036871503 0.052237991 2.96E-07 6.528300865 -0.080571496 GYAAGAQPRPSANRENFS(ph)PER ddPTM_HeLa_SAHA_4h_R1 2 GYAAGAQPRPSANRENFSPER 21 2 A0A2R8Y880;Q7Z6E9-2;Q7Z6E9;H3BSK8 A0A2R8Y880 RBBP6 E3 ubiquitin-protein ligase RBBP6 1 0 GYAAGAQPRPS(0.226)ANRENFS(0.774)PER;GYAAGAQPRPS(0.161)ANRENFS(0.839)PER ; 56.424 0.014785 12307100 1093.83 697.81 987.68 869.06 1120.93 786.23 1101.57 1181 380.41 1010.47 TRUE FALSE FALSE 1208.884058 720.4195018 1122.275887 885.881913 1035.044586 719.2387808 977.6184444 1150.79173 377.7626958 1054.036307 1.146909314 0.68348642 1.064741204 0.840466222 0.98198191 0.68236623 0.927499782 1.091795152 0.358396284 1 10.04170885 -7.298270436 24.99846201 1.069373844 0.896694733 0 0.261800767 554.4864697 376347.0768 0.022349469 0.025557946 5.03E-08 7.298270436 -0.17267911 GYADS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 4 GYADSPSK 8 0 Q01518-2;Q01518;Q5T0R7;Q5T0R6;Q5T0R5;Q5T0R4;Q5T0R3;Q5T0R2;Q5T0R1;Q5T0R9;Q5T0R8;Q5T0S3 Q01518-2 CAP1 Adenylyl cyclase-associated protein 1;Adenylyl cyclase-associated protein 1 0 GYADS(1)PSK;GYADS(0.998)PS(0.002)K;GYADS(0.978)PS(0.022)K;GYADS(0.999)PS(0.001)K ;;; 164.66 1.02E-05 126136200 12801.9 15388 14577.4 18568.8 23833.4 43963.9 23454.2 16349.5 30073 37096.3 TRUE FALSE FALSE 14148.46258 15886.5813 16563.93216 18928.22597 22007.29004 40217.92839 20815.07169 15931.30346 29863.71954 38695.70304 0.365633946 0.410551561 0.428056111 0.489155759 0.568726973 1.039338356 0.537916876 0.411707301 0.77175803 1 15.23988575 -9.415399639 1.14652546 0.999630368 0.526109246 0.330419982 0.192847055 0.362304619 0.852848855 0.135617427 0.034397355 3.84E-10 9.415399639 -0.473521123 GYAFITFCGK ddPTM_HeLa_SAHA_4h_R1 2 GYAFITFCGK 10 0 O43390;B4DT28;O43390-4;O43390-3;O43390-2 O43390 HNRNPR Heterogeneous nuclear ribonucleoprotein R 0 0 ; ; 176.79 1.17E-11 3123100 2145.3 2465.2 3264.1 3219.9 3063.8 1652.28 3541 842.85 919.77 1997.48 FALSE FALSE TRUE 2370.952497 2545.074097 3708.914549 3282.225821 2829.052306 1511.496449 3142.557361 821.2911174 913.3692457 2083.601138 1.137910924 1.22147855 1.780050165 1.575265899 1.35777057 0.725425045 1.508233655 0.394169067 0.438360888 1 11.02486341 -5.267873952 24.8720595 1.189670896 0.939171697 0.111681896 0.423812265 928.5346637 3589144.527 0.052624347 0.12034966 5.40E-06 5.267873952 -0.2504992 GYAFNHSADFETVR ddPTM_HeLa_SAHA_4h_R1 2 GYAFNHSADFETVR 14 0 P61160;F5H6T1;P61160-2 P61160 ACTR2 Actin-related protein 2 0 0 ; ; 129.76 0.00054811 12301500 3801 3044.1 3303.7 4221.6 3796.3 3411.5 3815.8 2843.88 3054.1 3221.4 FALSE FALSE TRUE 4200.80662 3142.730837 3753.911031 4303.315173 3505.428314 3120.821007 3386.436141 2771.137667 3032.846269 3360.290319 1.250132048 0.935255748 1.1171389 1.28063791 1.0431921 0.928735529 1.007780822 0.824672098 0.902554833 1 11.71437017 -5.402623092 4.018036287 1.117057806 0.929829523 0.215436511 0.124656217 0.215316013 5.952027165 0.017655713 0.041075213 3.96E-06 5.402623092 -0.187228284 GYAFVTFCTK ddPTM_HeLa_SAHA_4h_R1 1 GYAFVTFCTK 10 0 O60506-2;O60506;O60506-4;O60506-3;B7Z645;O60506-5 O60506-2 SYNCRIP Heterogeneous nuclear ribonucleoprotein Q 0 0 104.2 0.013574 851350 290.14 257.07 489.35 550.27 462.08 268.37 629.91 172.22 169.2 133.05 FALSE FALSE TRUE 320.6582564 265.3992367 556.0360696 560.9212716 426.6755302 245.5033662 559.030869 167.8148618 168.0225234 138.7864366 2.310443759 1.912285113 4.006415058 4.041614477 3.074331618 1.768929098 4.027993531 1.209158948 1.210655216 1 7.116722772 -8.190755681 0.682714226 1.124695915 2.97260404 0.347036665 0.948767697 0.491599916 0.503555852 0.398243225 0.235341961 6.45E-09 8.190755681 1.847908125 GYAYVEFENPDEAEK ddPTM_HeLa_SAHA_4h_R1 3 GYAYVEFENPDEAEK 15 0 H3BMM9;H3BTC0;Q15287;H3BPG5;H3BV80;H3BMS0;Q15287-3;Q15287-2 H3BMM9 RNPS1 RNA-binding protein with serine-rich domain 1 0 0 ;; ;; 259.48 2.61E-57 14383900 2993.15 2936.42 2936.68 3285.29 3681.86 3979.25 3080.95 3466.58 3507.48 3249.67 FALSE FALSE TRUE 3307.98325 3031.561935 3336.875457 3348.881539 3399.756682 3640.195513 2734.273397 3377.909903 3483.071161 3389.779177 0.975869836 0.894324313 0.984393166 0.987935014 1.002943409 1.073873938 0.806622867 0.996498511 1.027521552 1 11.72697558 -4.403516006 0.00602734 1.911637462 0.001018822 0.055132435 0.068401938 38707.86664 38.61904092 5872.953233 6376.960192 3.95E-05 4.403516006 -1.91061864 GYDFESETDTETIAK ddPTM_HeLa_SAHA_4h_R1 1 GYDFESETDTETIAK 15 0 A0A6I8PRN4;A0A6I8PTT9;Q06210-2;Q06210 A0A6I8PRN4 GFPT1 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] 1 0 0 228.78 1.06E-57 0 458.75 475.75 611.65 575.85 485.81 486.54 462.57 591.35 598.08 435.87 FALSE FALSE TRUE 507.0034298 491.1646122 695.0024767 586.9964094 448.5873428 445.0840548 410.5204062 576.2241233 593.9179126 454.6624888 1.11512043 1.080284 1.528611869 1.291059685 0.986638119 0.978932869 0.902912416 1.267366755 1.306283072 1 8.828652172 -3.879983341 14.61181548 1.087310252 11.47872582 0 0.186691992 1810849.434 1716066.905 6.40617029 617294355.1 0.000131831 3.879983341 10.39141557 GYDRYEDYDYR ddPTM_HeLa_SAHA_4h_R1 4 GYDRYEDYDYR 11 1 Q13595;Q13595-4;Q13595-3 Q13595 TRA2A Transformer-2 protein homolog alpha 0 0 ;;; ;;; 124.67 0.0027215 137310000 12270.2 8890.5 11109.4 10741.4 11395 9477.6 12752.4 9851.4 9420.2 10205.1 FALSE FALSE TRUE 13560.83593 9178.558033 12623.33118 10949.31533 10521.91756 8670.05516 11317.46639 9599.415453 9354.644061 10645.0918 1.273905024 0.862233807 1.185835821 1.02857876 0.988429011 0.814465044 1.063162873 0.901769156 0.87877533 1 13.37790077 -5.876307615 2.452438715 1.112405862 0.937438498 0 0.139946351 0.310809284 3.797097191 0.020760256 0.041517091 1.33E-06 5.876307615 -0.174967363 GYDS(ph)EDDTWEPEQHLVNCEEYIHDFNR ddPTM_HeLa_SAHA_4h_R1 1 GYDSEDDTWEPEQHLVNCEEYIHDFNR 27 0 Q9Y232-2;Q9Y232 Q9Y232-2 CDYL Chromodomain Y-like protein 1 0 GY(0.005)DS(0.95)EDDT(0.045)WEPEQHLVNCEEYIHDFNR 118.98 2.77E-08 3493900 553.4 543.39 474.57 554.07 714.06 818.04 614.54 292.44 910.55 643.99 TRUE FALSE FALSE 611.6091511 560.9961925 539.2419281 564.794826 659.3488771 748.3383898 545.3903418 284.9598082 904.2134084 671.7555605 0.910463846 0.835119537 0.80273534 0.840774322 0.981530955 1.114004013 0.811888094 0.424201637 1.34604529 1 9.391792548 -4.316967663 3.425354107 0.939312031 0.387353582 0.524357918 0.156113581 0.103204327 2.02162889 0.013410933 0.134527857 4.82E-05 4.316967663 -0.551958449 GYDVIAQAQSGTGK ddPTM_HeLa_SAHA_4h_R1 1 GYDVIAQAQSGTGK 14 0 P60842;P60842-2;J3KT12;J3QS69;J3QL43;J3KTB5;Q14240-2;J3QR64;Q14240;E7EQG2;J3QLN6;J3KS25;J3QKZ9;J3KS93;J3KT04;J3KSN7;E7EMV8 P60842 EIF4A1;EIF4A2 "Eukaryotic initiation factor 4A-I;Eukaryotic initiation factor 4A-II;Eukaryotic initiation factor 4A-II, N-terminally processed" 0 0 164.11 5.70E-12 0 705.62 700.76 617.86 788.28 694.37 820.15 979.45 918.31 825.23 728.24 FALSE FALSE TRUE 779.8403491 723.4650838 702.0587431 803.5382993 641.1675206 750.268606 869.2397082 894.8209599 819.4871572 759.6379903 1.026594719 0.952381388 0.924201728 1.057791092 0.844043516 0.987665988 1.144281512 1.177957094 1.078786432 1 9.569168248 -4.726592268 5.228331438 0.991921887 1.166647993 0.546496863 0.064408452 0.098175011 6.551974005 0.008235681 0.031082992 1.88E-05 4.726592268 0.174726106 GYEEWLLNEIR ddPTM_HeLa_SAHA_4h_R1 2 GYEEWLLNEIR 11 0 O43707;O43707-2;F6THM6;A0A494C060;P12814-4;P12814-3;P12814;P12814-2;H9KV75;P35609-2;P35609;A0A494C1A0 O43707;P12814-4 ACTN4;ACTN2;ACTN1 Alpha-actinin-4;Alpha-actinin-1;Alpha-actinin-2 0 0 ; ; 232.88 7.98E-22 49806000 2860 2265.8 2599.7 3147.9 2894.4 2661.5 2878.5 2422.9 2714.1 3070.4 FALSE FALSE TRUE 3160.827922 2339.213407 2953.973577 3208.832156 2672.631697 2434.725227 2554.603604 2360.925726 2695.212357 3202.77997 0.986901364 0.730369688 0.92231549 1.001889667 0.834472465 0.760191224 0.797620701 0.737148898 0.841522797 1 11.64510897 -3.502966786 0.20487334 1.032088682 0.367138588 0.18079249 0.093382038 10.67148104 0.303443643 0.087634843 1.902958585 0.000314075 3.502966786 -0.664950093 GYFDEEMNR ddPTM_HeLa_SAHA_4h_R1 7 GYFDEEMNR 9 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;A0A075B730;P58107;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;A0A075B730;P58107;Q15149-3;Q15149-4 PLEC;EPPK1 Plectin;Epiplakin 0 0 ;;;;;; ;;;;;; 209.84 1.18E-10 170117300 19611.9 17445.9 19930.3 21344.6 21995.8 18432 22281.7 15363.9 13973.8 15342.1 FALSE FALSE TRUE 21674.76962 18011.15861 22646.29749 21757.7556 20310.48656 16861.4899 19774.50447 14970.91368 13876.55519 16003.57301 1.354370653 1.125446086 1.415077588 1.359556118 1.269121998 1.053607834 1.235630597 0.935473202 0.867091066 1 13.96610642 -4.256448951 23.87886516 1.199613369 0.935472992 0.165193009 0.167128695 373.0924266 1785103.671 0.022552293 0.245625463 5.54E-05 4.256448951 -0.264140377 GYFEYIEENK ddPTM_HeLa_SAHA_4h_R1 2 GYFEYIEENK 10 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1W2PP35;Q5RI18;A0A1W2PRI6 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 0 ; ; 190.02 5.17E-06 14240400 4697.1 3148.96 3019.4 3788.7 3274.77 4602.8 3650.9 3403 5253.7 3864.4 FALSE FALSE TRUE 5191.162529 3250.98837 3430.868108 3862.035767 3023.85783 4210.615545 3240.091123 3315.956187 5217.139074 4031.013196 1.287805888 0.806494103 0.851118054 0.958080656 0.750148333 1.044555138 0.803790751 0.822611097 1.294250061 1 11.97692679 -7.249049888 24.99174465 1.135908337 0.866080276 0.629475591 0.113981389 463.3048578 934566.551 0.021165376 0.025823929 5.64E-08 7.249049888 -0.269828062 GYFSEEMNR ddPTM_HeLa_SAHA_4h_R1 1 GYFSEEMNR 9 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 168.23 0.00018409 12553000 1235.3 1317.2 1565.3 1871 1647.7 1252.9 1875.1 1317.2 1069.8 1213.9 FALSE FALSE TRUE 1365.234522 1359.878144 1778.610932 1907.215911 1521.453582 1146.145871 1664.108813 1283.507931 1062.355175 1266.23717 1.078182314 1.073952161 1.404642807 1.506207491 1.201554984 0.905158922 1.314215735 1.013639437 0.838985934 1 10.30633194 -6.974039168 24.66504515 1.038979817 1.226749666 0.274861618 0.176044915 222.109713 211022.7754 0.027277254 0.035848765 1.06E-07 6.974039168 0.187769849 GYGFVDFDS(ph)PAAAQK ddPTM_HeLa_SAHA_4h_R1 2 GYGFVDFDSPAAAQK 15 0 E7EPF2;C9J9B2;E7ETU5;F6Y5H0;C9JIJ9;A0A1B0GUW5;P29558-2;P29558;Q6XE24-3;Q6XE24-4;Q6XE24-5;Q6XE24-2;Q6XE24 E7EPF2 RBMS1;RBMS3 "RNA-binding motif, single-stranded-interacting protein 1;RNA-binding motif, single-stranded-interacting protein 3" 1 0 GYGFVDFDS(1)PAAAQK;GYGFVDFDS(1)PAAAQK ; 218.6 6.85E-18 25163000 3913.9 3765.4 3229.2 3884 4253.8 5054.3 4356.5 3658.9 4796.1 4242.4 TRUE FALSE FALSE 4325.58196 3887.401431 3669.258559 3959.180436 3927.874763 4623.645205 3866.295154 3565.310636 4762.72355 4425.310626 0.97746403 0.878447133 0.829152769 0.894667238 0.887593006 1.044818228 0.873677688 0.805663362 1.076246156 1 12.11156301 -7.323194714 4.907114059 0.990027147 0.891224607 0.436781002 0.065479591 0.174265679 8.558117747 0.010526175 0.012062465 4.75E-08 7.323194714 -0.09880254 GYGFVDFDS(ph)PSAAQK ddPTM_HeLa_SAHA_4h_R1 1 GYGFVDFDSPSAAQK 15 0 F8W1T6;Q15434 F8W1T6 RBMS2 "RNA-binding motif, single-stranded-interacting protein 2" 1 0 GYGFVDFDS(0.993)PS(0.007)AAQK 98.654 0.0038561 1803900 1234 1282.9 1295.2 1371.7 1457.4 1427.1 1319.7 1175.7 1574.1 948.62 TRUE FALSE FALSE 1363.797782 1324.466802 1471.703111 1398.251237 1345.734327 1305.503051 1171.203883 1145.627296 1563.14571 989.5196506 1.378242242 1.338494694 1.487290434 1.413060606 1.359987471 1.319330092 1.183608513 1.157761037 1.579701534 1 9.950584547 -9.226331304 0.907984608 0.995138641 1.335109918 0 0.201341478 0.32914236 0.476937805 0.074977205 0.019689191 5.94E-10 9.226331304 0.339971278 GYGFVDFDSPS(ph)AAQK ddPTM_HeLa_SAHA_4h_R1 1 GYGFVDFDSPSAAQK 15 0 F8W1T6;Q15434 F8W1T6 RBMS2 "RNA-binding motif, single-stranded-interacting protein 2" 1 0 GYGFVDFDS(0.387)PS(0.613)AAQK 166.64 3.33E-06 25317000 1377 1795.3 1143.2 1778.6 1926.3 2087.7 1774.8 1644.8 2010.6 1426.3 TRUE FALSE FALSE 1521.839178 1853.468898 1298.989342 1813.027375 1778.70731 1909.816215 1575.094833 1602.728398 1996.608071 1487.794773 1.02288246 1.245782638 0.873097127 1.218600447 1.195532705 1.283655682 1.058677488 1.077250994 1.341991588 1 10.53895982 -7.047127129 0.740283661 1.003301336 1.155525889 0 0.15523132 0.648917853 0.728859635 0.026755956 0.036680637 8.97E-08 7.047127129 0.152224552 GYGFVHFETQEAAER ddPTM_HeLa_SAHA_4h_R1 4 GYGFVHFETQEAAER 15 0 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YAR2;H0YBN4;E5RGH3 P11940 PABPC1 Polyadenylate-binding protein 1;Polyadenylate-binding protein 0 0 ;;; ;;; 131.08 0.00027872 31641800 6151.1 6501.7 5999.8 8189.9 8252.8 8253.4 8786.7 5936.13 7762.4 7490.1 FALSE FALSE TRUE 6798.10092 6712.359346 6817.421498 8348.427357 7620.472247 7550.163888 7797.997391 5784.29239 7708.380826 7813.034867 0.870097348 0.859123178 0.872570213 1.068525547 0.975353672 0.966354818 0.998075335 0.74033874 0.9866052 1 12.93166734 -6.618194221 0.006922668 1.855712311 4.02E-05 0.068354401 0.087962312 11850.14744 43.45011312 5752.673162 5892.29139 2.41E-07 6.618194221 -1.85567207 GYISPYFINTSK ddPTM_HeLa_SAHA_4h_R1 3 GYISPYFINTSK 12 0 P10809;E7ESH4 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ;; ;; 247.96 7.48E-69 47353200 3426.9 4644.5 3355.96 3198.02 3423.95 3315.58 4390.3 2717.24 3604.49 3642.62 FALSE FALSE TRUE 3787.357065 4794.984847 3813.292752 3259.922302 3161.607691 3033.073931 3896.291889 2647.736935 3579.406061 3799.671175 0.996759164 1.261947318 1.003584936 0.857948531 0.832074026 0.798246425 1.025428704 0.696833177 0.94203048 1 11.89165886 -6.271654437 5.348788475 1.02311953 0.848585139 0.443396337 0.110507266 0.140925549 13.82633806 0.016146038 0.025699952 5.35E-07 6.271654437 -0.174534391 GYLDK(ac)LEPSK ddPTM_HeLa_SAHA_4h_R1 2 GYLDKLEPSK 10 1 P25705-2;P25705;P25705-3 P25705-2 ATP5A1 "ATP synthase subunit alpha, mitochondrial" 0 1 ; GYLDK(1)LEPSK;GYLDK(1)LEPSK 121.61 0.0031116 3189000 1986.43 5787.3 2949.9 1950.3 4577 3092 5308.9 2954.2 2959 2029.47 FALSE TRUE FALSE 2195.371821 5974.812317 3351.89701 1988.050877 4226.311249 2828.544205 4711.5286 2878.635842 2938.408078 2116.970384 1.037034735 2.822341004 1.583346199 0.939101884 1.99639602 1.336128378 2.225599676 1.359790323 1.388025123 1 11.04778537 -7.461690963 24.99999079 1.016335083 1.740288037 0.221171816 0.508432018 193.7501177 79162.30647 0.079554738 0.090962189 3.45E-08 7.461690963 0.723952954 GYLGPEQLPDCLK ddPTM_HeLa_SAHA_4h_R1 1 GYLGPEQLPDCLK 13 0 P40926;P40926-2 P40926 MDH2 "Malate dehydrogenase, mitochondrial" 0 0 152.67 1.85E-10 0 1207.1 1503.9 1232.3 1165.4 1303.1 1255.9 1434.7 1282.8 1361.9 1287 FALSE FALSE TRUE 1334.068316 1552.627347 1400.231426 1187.958002 1203.25676 1148.890254 1273.26378 1249.987833 1352.422427 1342.488868 0.993727656 1.156529028 1.043011573 0.884892255 0.896288072 0.855791271 0.948435261 0.931097354 1.00739936 1 10.39069441 -6.258156177 24.98258873 1.014596561 0.902779288 0.6163187 0.052066254 190.7669377 1451585.622 0.008633067 0.013931938 5.52E-07 6.258156177 -0.111817272 GYLPSHYER ddPTM_HeLa_SAHA_4h_R1 1 GYLPSHYER 9 0 Q6P2Q9;I3L1T8 Q6P2Q9 PRPF8 Pre-mRNA-processing-splicing factor 8 0 0 105.4 0.0083834 5911200 1105.4 1170.3 1202.7 1375.9 1118 1169.2 1090.6 727.51 752.15 920.49 FALSE FALSE TRUE 1221.671044 1208.218488 1366.597693 1402.532534 1032.339082 1069.577582 967.8828177 708.9013476 746.9157269 960.1768287 1.272339643 1.258329145 1.4232771 1.460702333 1.07515517 1.113938131 1.008025594 0.738302911 0.77789393 1 9.907156311 -4.257785947 1.343475682 1.184767519 0.54537544 0.339601621 0.189121034 1.095377477 1.679201122 0.025780892 0.954398445 5.52E-05 4.257785947 -0.639392079 GYNVNDEK ddPTM_HeLa_SAHA_4h_R1 1 GYNVNDEK 8 0 P80723;P80723-2;U3KQP0 P80723 BASP1 Brain acid soluble protein 1 0 0 133.23 0.0096191 6764300 1609.6 1903 1531 1655.2 2436.3 1962 2135.2 2166.2 1708.3 1808.6 FALSE FALSE TRUE 1778.905113 1964.658449 1739.636707 1687.238789 2249.63122 1794.826562 1894.941676 2110.791741 1696.411801 1886.577597 0.942927084 1.041387564 0.922112459 0.8943384 1.192440334 0.951366413 1.004433467 1.11884703 0.89920065 1 10.88155573 -5.795147557 24.99994919 0.968952166 1.054076368 0.348822869 0.074745089 189.4808061 140529.5071 0.010138105 0.018377617 1.60E-06 5.795147557 0.085124203 GYQSLSDS(ph)PPGSR ddPTM_HeLa_SAHA_4h_R1 1 GYQSLSDSPPGSR 13 0 Q9NPR2 Q9NPR2 SEMA4B Semaphorin-4B 1 0 GYQS(0.026)LS(0.238)DS(0.733)PPGS(0.002)R 83.869 0.015798 2288500 495.12 668.89 406.5 562.79 804.37 702.98 709.14 884.87 531.53 579.68 TRUE FALSE FALSE 547.1989933 690.5624749 461.895703 573.6836143 742.7393444 643.0821491 629.3457008 862.2363067 527.8310395 604.6728417 0.904950505 1.142043147 0.763877044 0.948750423 1.228332568 1.063520808 1.04080365 1.425955074 0.872920037 1 9.240010973 -1 0.598402286 0.960688252 27.22832426 0.532486658 0.123778255 89.75966884 0.643282156 0.020800371 3090.860089 0.1 1 26.26763601 GYRDDRS(ph)PAREPGDVSAR ddPTM_HeLa_SAHA_4h_R1 3 GYRDDRSPAREPGDVSAR 18 3 C9J366;A0A1W2PR91;A0A1W2PQT1;P0DPB3-2;P0DPB3;B3KU38-2;B3KU38 C9J366 IQCJ-SCHIP1 1 0 GY(0.001)RDDRS(0.999)PAREPGDVSAR;GY(0.001)RDDRS(0.998)PAREPGDVSAR;GY(0.081)RDDRS(0.919)PAREPGDVSAR ;; 55.782 0.014295 74357000 2529.62 2304.66 2140.3 2564.72 3123.74 3119.16 2720.57 2519.39 2672.87 2686.93 TRUE FALSE FALSE 2795.697038 2379.332496 2431.968938 2614.363864 2884.399716 2853.39002 2414.444303 2454.947652 2654.26928 2802.776702 0.997474054 0.84891975 0.867699855 0.932776365 1.029122197 1.018058277 0.861447258 0.875898408 0.94701418 1 11.45264109 -7.450697498 23.81681923 0.998885649 0.923473553 0.159173536 0.061372608 100.0034657 32996.73446 0.010881939 0.012443738 3.54E-08 7.450697498 -0.075412095 GYS(ph)FTTTAER ddPTM_HeLa_SAHA_4h_R1 2 GYSFTTTAER 10 0 P60709;A0A2R8Y793;A0A2R8YEA7;P63261;I3L3I0;I3L1U9;I3L4N8 P60709;P63261 ACTB;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 GYS(0.623)FT(0.357)T(0.01)T(0.01)AER;GYS(0.5)FT(0.5)T(0.001)TAER ; 155.53 0.0003542 25814000 1996.35 1703.45 1593.08 1971.96 2025.62 2163.37 2004.4 2057.3 1644.62 1904.92 TRUE FALSE FALSE 2206.335253 1758.642898 1810.176646 2010.130137 1870.417433 1979.038705 1778.859637 2004.677245 1633.174956 1987.050424 1.110356952 0.885051973 0.910986769 1.011615062 0.941303457 0.995968035 0.895226218 1.008870847 0.821909166 1 10.95641277 -7.263754119 24.99934396 1.052113005 0.950083332 0 0.087916709 147.9040727 1597368.59 0.009557325 0.011207875 5.45E-08 7.263754119 -0.102029673 GYSDRDGYGR ddPTM_HeLa_SAHA_4h_R1 2 GYSDRDGYGR 10 1 P38159;P38159-2;H3BUY5;H0Y6E7;H3BT71 P38159 RBMX "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed" 0 0 ; ; 100.02 0.0047011 721090 630.93 236.88 533.66 516.29 693.04 566.11 699.75 761.64 385.34 514.05 FALSE FALSE TRUE 697.2941122 244.5550674 606.3844056 526.2835395 639.9394249 517.8742432 621.0122884 742.1583516 382.6583876 536.2132112 1.300404573 0.456078034 1.130864352 0.981481859 1.193442108 0.965799112 1.158144327 1.384073231 0.713631033 1 9.066662955 -4.324700496 3.386705508 1.077338985 1.404718438 0.109976843 0.247565705 0.411886096 7.776032717 0.031616952 0.312072517 4.73E-05 4.324700496 0.327379453 GYSFSLT(ph)TFSPSGK ddPTM_HeLa_SAHA_4h_R1 1 GYSFSLTTFSPSGK 14 0 P25787;A0A024RA52;H3BT36 P25787 PSMA2 Proteasome subunit alpha type-2;Proteasome subunit alpha type 1 0 GYSFS(0.001)LT(0.489)T(0.489)FS(0.007)PS(0.014)GK 113.52 0.0029333 3253900 650.5 803.5 764.54 690.25 924.98 706.9 804.17 528.83 732.03 868.59 TRUE FALSE FALSE 718.9225746 829.5339272 868.7275296 703.6107869 854.1082322 646.6681431 713.6826751 515.3032943 726.9357436 906.0391657 0.793478474 0.915560782 0.958818959 0.776578777 0.942683567 0.713730893 0.787695171 0.568742847 0.802322649 1 9.823429605 -3.31179094 0.46768447 0.91105195 1.49E-37 0.550447021 0.083169226 5.835282432 0.448480102 0.01934982 3.582567799 0.000487763 3.31179094 -0.91105195 GYSFSLTTFS(ph)PSGK ddPTM_HeLa_SAHA_4h_R1 1 GYSFSLTTFSPSGK 14 0 P25787;A0A024RA52;H3BT36 P25787 PSMA2 Proteasome subunit alpha type-2;Proteasome subunit alpha type 1 0 GYSFSLT(0.045)T(0.255)FS(0.624)PS(0.075)GK 128.35 0.00056417 2847400 714.31 914.28 617.59 972.25 889.51 1043.3 1015.4 837.91 612.72 909.28 TRUE FALSE FALSE 789.4444032 943.9032719 701.7519489 991.0693046 821.355936 954.4049706 901.1445196 816.4774755 608.4560316 948.4835107 0.832322749 0.995170987 0.739867316 1.044898824 0.865967544 1.006243081 0.950089811 0.860824112 0.641504069 1 9.889478883 -4.243975452 21.81926737 0.924011163 0.860823813 0 0.125852723 1748.564648 2184426.813 0.012377098 0.399695935 5.70E-05 4.243975452 -0.06318735 GYSFSLTTFSPSGK ddPTM_HeLa_SAHA_4h_R1 2 GYSFSLTTFSPSGK 14 0 P25787;A0A024RA52;H3BT36 P25787 PSMA2 Proteasome subunit alpha type-2;Proteasome subunit alpha type 0 0 ; ; 311.88 7.46E-137 5003700 1349 1820.27 1729.25 1723.52 1740.43 1329.36 2229.56 1169.27 1046.03 1261.7 FALSE FALSE TRUE 1490.894009 1879.247942 1964.903184 1756.881222 1607.078629 1216.091049 1978.684041 1139.361766 1038.750592 1316.098062 1.132813772 1.427893557 1.492976277 1.334916655 1.221093379 0.924012492 1.503447272 0.86571191 0.789265346 1 10.36205127 -7.671618478 2.436202696 1.047759313 1.260628816 0.231149551 0.221851991 0.330792479 4.121607642 0.038621921 0.039449962 2.13E-08 7.671618478 0.212869504 GYSFTT(ph)TAER ddPTM_HeLa_SAHA_4h_R1 4 GYSFTTTAER 10 0 P60709;A0A2R8Y793;A0A2R8YEA7;P63261;I3L3I0;I3L1U9;I3L4N8 P60709;P63261 ACTB;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 GYS(0.385)FT(0.119)T(0.487)T(0.01)AER;GYS(0.005)FT(0.025)T(0.752)T(0.219)AER;GYS(0.405)FT(0.104)T(0.42)T(0.071)AER;GYS(0.013)FT(0.034)T(0.931)T(0.022)AER ;;; 175.65 9.74E-05 45302500 7999.7 6731.9 6143.37 6743.95 7932.6 7641.8 7786.2 8314.5 5752.63 6434.2 TRUE FALSE FALSE 8841.14515 6950.017977 6980.55647 6874.488904 7324.805902 6990.675648 6910.076284 8101.827129 5712.596979 6711.60985 1.317291283 1.03552175 1.04007185 1.024268254 1.091363483 1.041579562 1.029570615 1.207136188 0.851151528 1 12.71244314 GYSFTTTAER ddPTM_HeLa_SAHA_4h_R1 9 GYSFTTTAER 10 0 P60709;A0A2R8Y793;A0A2R8YEA7;P63261;I3L3I0;I3L1U9;I3L4N8 P60709;P63261 ACTB;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;;;;;;;; ;;;;;;;; 232.83 4.98E-25 1370119600 16490.99 16621.19 15784 16053.96 17511.46 15621.36 19031.91 14851.02 12750.92 14248.07 FALSE FALSE TRUE 18225.58799 17159.72746 17934.96132 16364.70761 16169.73572 14290.33224 16890.3894 14471.15241 12662.18531 14862.37403 1.226290494 1.154575133 1.206735969 1.101083016 1.087964526 0.96151074 1.13645299 0.973677044 0.851962499 1 13.85937696 -5.520293826 4.526600251 1.120729437 1.033204267 0.023959455 0.112413358 0.30633304 16.02403225 0.014266194 0.03092773 3.02E-06 5.520293826 -0.087525169 GYSYDLEVEQAYDLAR ddPTM_HeLa_SAHA_4h_R1 2 GYSYDLEVEQAYDLAR 16 0 P28074;P28074-3 P28074 PSMB5 Proteasome subunit beta type-5 0 0 ; ; 267.93 1.70E-101 7268600 1189.3 1310.47 1376.54 1101.14 1414.81 1227.88 1646.82 1244.14 1217.65 1171.85 FALSE FALSE TRUE 1314.396031 1352.930088 1564.127702 1122.454157 1306.407563 1123.257716 1461.515479 1212.3167 1209.176275 1222.374188 1.075281238 1.106805183 1.279581749 0.918257411 1.068746032 0.918914786 1.195636732 0.991772169 0.989203049 1 10.25547027 -9.071753723 1.040057363 1.003227048 1.070820446 0.070469539 0.10651954 1.187314084 2.456630974 0.052473132 0.018814359 8.48E-10 9.071753723 0.067593397 GYT(ph)SDSEVYTDHGRPGK ddPTM_HeLa_SAHA_4h_R1 2 GYTSDSEVYTDHGRPGK 17 1 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 1 0 GYT(0.494)S(0.494)DS(0.012)EVYTDHGRPGK;GYT(0.769)S(0.231)DSEVYTDHGRPGK ; 137.73 0.00090478 29684700 5975.7 5765.2 5336.8 6489.7 7718.1 7422.1 6115.4 7383.9 6306.8 6587.8 TRUE FALSE FALSE 6604.251543 5951.996263 6064.071311 6615.317528 7126.740845 6789.695324 5427.279097 7195.03053 6262.910465 6871.832298 0.961061222 0.866143993 0.882453332 0.962671561 1.037094699 0.988047297 0.789786313 1.047032322 0.911388723 1 12.74647911 -8.055665892 1.551143192 0.989895785 0.937919753 0 0.07858898 0.652034555 3.206599187 0.017025894 0.014448369 8.80E-09 8.055665892 -0.051976031 GYTS(ph)DDDTWEPEIHLEDCK ddPTM_HeLa_SAHA_4h_R1 3 GYTSDDDTWEPEIHLEDCK 19 0 Q99549-2;Q99549 Q99549-2 MPHOSPH8 M-phase phosphoprotein 8 1 0 GYT(0.135)S(0.824)DDDT(0.041)WEPEIHLEDCK;GYT(0.116)S(0.881)DDDT(0.002)WEPEIHLEDCK;GYT(0.153)S(0.835)DDDT(0.011)WEPEIHLEDCK ;; 205.68 7.26E-21 25499000 6592.91 7571.13 5375.57 5789.95 8066.4 8312.4 7579.2 6913.16 8834.14 7445.46 TRUE FALSE FALSE 7286.382523 7816.43958 6108.124685 5902.022855 7448.354175 7604.136756 6726.368469 6736.331377 8772.6625 7766.470218 0.93818457 1.006433986 0.786473715 0.759936327 0.959039817 0.979098167 0.866077932 0.867360743 1.129555931 1 12.92304334 -6.78232409 24.99963676 0.97266561 0.873550535 0.401094563 0.081685036 215.3383103 257765.642 0.011392207 0.014980735 1.65E-07 6.78232409 -0.099115075 GYTS(ph)DSEVYTDHGRPGK ddPTM_HeLa_SAHA_4h_R1 4 GYTSDSEVYTDHGRPGK 17 1 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 1 0 GYT(0.188)S(0.805)DS(0.007)EVYTDHGRPGK;GYT(0.172)S(0.822)DS(0.005)EVYTDHGRPGK;GYT(0.146)S(0.552)DS(0.112)EVYT(0.19)DHGRPGK;GYT(0.03)S(0.946)DS(0.024)EVYTDHGRPGK ;;; 125.73 0.0002061 292155900 5036.1 6114.5 5326.8 5811.3 7185.7 7028.5 6744.4 6883.4 6295.9 5823.8 TRUE FALSE FALSE 5565.820104 6312.613812 6052.708563 5923.786115 6635.133218 6429.632259 5985.502362 6707.332595 6252.086319 6074.892519 0.916200589 1.039131769 0.996348255 0.975126078 1.092222323 1.058394406 0.98528531 1.104107204 1.02916822 1 12.56864317 -6.28190966 1.066536382 0.963747121 1.052733027 0.168894497 0.049233471 0.398246472 0.896587072 0.008748012 0.017873975 5.23E-07 6.28190966 0.088985906 GYVLGETSNLPS(ph)PGK ddPTM_HeLa_SAHA_4h_R1 2 GYVLGETSNLPSPGK 15 0 B1AKT1;Q9H040 B1AKT1 SPRTN SprT-like domain-containing protein Spartan 1 0 GYVLGET(0.114)S(0.077)NLPS(0.81)PGK;GYVLGET(0.008)S(0.006)NLPS(0.986)PGK ; 147.07 3.33E-08 2959100 1649.54 1878.65 1598.55 1769.9 2154.2 2355.14 1934.27 1988.73 1884.82 1578.26 TRUE FALSE FALSE 1823.046186 1939.519493 1816.392069 1804.158974 1989.145661 2154.468822 1716.620849 1937.861166 1871.703384 1646.306512 1.107355266 1.178103517 1.10331342 1.09588279 1.20824746 1.308668104 1.042710356 1.177096216 1.136910636 1 10.68501725 -8.432683138 0.395716204 0.979185712 1.174163438 0.083309604 0.079642274 0.987764093 0.32585146 0.080764655 0.030085403 3.69E-09 8.432683138 0.194977726 GYYS(ph)PYSVSGS(ph)GSTAGSR ddPTM_HeLa_SAHA_4h_R1 1 GYYSPYSVSGSGSTAGSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 2 0 GY(0.004)Y(0.007)S(0.993)PYS(0.011)VS(0.103)GS(0.673)GS(0.189)T(0.02)AGSR 130.38 0.0011529 11529000 897.16 896.66 1023.8 1058.9 1069.9 1089.5 1193.3 899.33 1492 1123.5 TRUE FALSE FALSE 991.5274051 925.7123723 1163.318132 1079.396541 987.9244931 996.6684706 1059.026743 876.3264408 1481.617051 1171.939583 0.846056759 0.789897692 0.992643434 0.921034289 0.842982443 0.850443559 0.90365302 0.747757353 1.264243543 1 10.19468248 -9.277454462 0.866528105 1.00539896 0.865128858 0.407899743 0.106930123 0.554181442 0.702027165 0.052093963 0.012194729 5.28E-10 9.277454462 -0.140270102 GYYS(ph)PYSVSGSGS(ph)TAGSR ddPTM_HeLa_SAHA_4h_R1 1 GYYSPYSVSGSGSTAGSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 2 0 GY(0.054)Y(0.003)S(0.944)PYS(0.004)VS(0.051)GS(0.396)GS(0.541)T(0.009)AGSR 144.17 0.0016074 11002000 1424.9 1430.8 1083.2 1488.2 1309.9 1859.9 1789 1821.4 1717.2 1463 TRUE FALSE FALSE 1574.77752 1477.158859 1230.812855 1517.006263 1209.535745 1701.426056 1587.697012 1774.811225 1705.249865 1526.07709 1.031912169 0.967945111 0.80652076 0.994056115 0.792578405 1.114901775 1.040377988 1.162989234 1.117407421 1 10.57561213 GYYS(ph)PYSVSGSGSTAGSR ddPTM_HeLa_SAHA_4h_R1 5 GYYSPYSVSGSGSTAGSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 GYYS(0.995)PYS(0.005)VSGSGSTAGSR;GYYS(0.961)PYS(0.039)VSGSGSTAGSR;GYYS(0.993)PYS(0.007)VSGSGSTAGSR;GYYS(0.993)PYS(0.007)VSGSGSTAGSR;GYY(0.001)S(0.905)PYS(0.092)VS(0.001)GSGSTAGSR ;;;; 245.04 1.25E-37 795540000 7665.71 7093.58 6337.64 8210.63 8318.34 9204.01 8127.44 8746.75 8438.18 7816.86 TRUE FALSE FALSE 8472.024549 7323.416646 7201.300574 8369.558616 7680.990586 8419.776568 7212.919061 8523.0208 8379.458018 8153.883089 1.039017172 0.898150803 0.883174372 1.026450652 0.942004012 1.03260943 0.884599274 1.045271401 1.027664724 1 12.99327156 -7.28833812 24.87689919 1.018424777 0.957908358 0.19975883 0.057916148 811.44528 750450.8549 0.009350003 0.01069369 5.15E-08 7.28833812 -0.060516418 GYYSPYS(ph)VSGSGSTAGSR ddPTM_HeLa_SAHA_4h_R1 1 GYYSPYSVSGSGSTAGSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 GYYS(0.052)PYS(0.911)VS(0.036)GSGSTAGSR 154.81 9.41E-14 0 557.94 482.52 501.47 623.17 785.07 657.77 630.64 695.69 760.02 526.09 TRUE FALSE FALSE 616.6266891 498.1539646 569.8077201 635.2323565 724.9181062 601.7242955 559.6787274 677.8952571 754.7309589 548.7723145 1.123647591 0.907760744 1.038331754 1.157551756 1.320981557 1.096491714 1.019874204 1.2352942 1.375308008 1 9.100063889 -6.253676191 11.15786985 1.044807265 1.162684763 0.02549876 0.138351151 0.410086097 570.5421637 0.0147205 0.023788676 5.58E-07 6.253676191 0.117877498 GYYSPYSVS(ph)GSGSTAGS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 GYYSPYSVSGSGSTAGSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 2 0 GYYS(0.034)PYS(0.403)VS(0.544)GS(0.017)GS(0.002)T(0.002)AGS(0.997)R 128.1 0.0022168 28719000 1060.1 1095.1 972.81 903.07 1320.8 1282.7 1253.3 987.59 1063.9 1188 TRUE FALSE FALSE 1171.606182 1130.581959 1105.379481 920.5502257 1219.600589 1173.406744 1112.275385 962.3288778 1056.496233 1239.220494 0.94543803 0.912333168 0.891995804 0.742846193 0.984167543 0.946891009 0.897560516 0.776559848 0.852549033 1 10.27521719 -7.542718128 0.943671076 0.986264723 0.877521906 0 0.079955114 0.436803028 0.800292942 0.016685162 0.017042322 2.87E-08 7.542718128 -0.108742817 GYYSPYSVS(ph)GSGSTAGSR ddPTM_HeLa_SAHA_4h_R1 3 GYYSPYSVSGSGSTAGSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 GYYSPYS(0.054)VS(0.833)GS(0.054)GS(0.004)T(0.054)AGS(0.001)R;GYY(0.002)SPYS(0.024)VS(0.938)GS(0.02)GS(0.014)T(0.002)AGSR;GYYS(0.001)PYS(0.139)VS(0.835)GS(0.024)GS(0.001)TAGSR ;; 233.84 4.84E-29 107688000 4712.36 4651.59 4167.54 4733.37 4801.36 5604.52 5708.22 4569.78 4371.96 4037.97 TRUE FALSE FALSE 5208.027646 4802.304568 4735.470648 4824.991221 4433.480834 5126.983366 5065.916062 4452.891645 4341.535174 4212.066648 1.236454235 1.140130242 1.124262991 1.145516352 1.052566639 1.217213258 1.202715077 1.05717502 1.03073753 1 12.04031255 -9.534005141 1.297681009 1.000095478 1.157803766 0.4309033 0.059297593 0.31131723 0.939742017 0.043026461 0.01029204 2.92E-10 9.534005141 0.157708287 GYYSPYSVSGS(ph)GSTAGSR ddPTM_HeLa_SAHA_4h_R1 1 GYYSPYSVSGSGSTAGSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 GYYSPYS(0.003)VS(0.09)GS(0.906)GSTAGSR 268.13 4.51E-60 92871000 1927.9 1658.1 1495 1910.6 1829.7 2187.8 2097.9 1780.6 1974.3 1548.8 TRUE FALSE FALSE 2130.685368 1711.823528 1698.730814 1947.582426 1689.508781 2001.387132 1861.838771 1735.05483 1960.560686 1615.576348 1.318839169 1.059574517 1.051470466 1.205503181 1.045762265 1.238806903 1.152430074 1.073954092 1.213536388 1 10.65783321 GYYSPYSVSGSGS(ph)TAGS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 GYYSPYSVSGSGSTAGSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 2 0 GYYSPYSVSGS(0.004)GS(0.687)T(0.308)AGS(1)R 179.9 3.27E-08 33567000 2363.5 2738.5 2228.7 2291.6 3018.6 3229.9 2794.9 2477.7 2205.7 2570 TRUE FALSE FALSE 2612.103774 2827.229197 2532.415629 2335.957232 2787.31552 2954.694349 2480.410496 2414.324022 2190.350354 2680.805277 0.974372811 1.054619379 0.944647361 0.871364008 1.03973069 1.102166716 0.925248289 0.900596564 0.817049404 1 11.38845072 -7.284230908 0.003976913 1.965731415 2.42E-05 0 0.088289479 26608.67683 91.77175474 22660.74708 22696.32087 5.20E-08 7.284230908 -1.965707176 GYYSPYSVSGSGS(ph)TAGSR ddPTM_HeLa_SAHA_4h_R1 2 GYYSPYSVSGSGSTAGSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 GYYSPYSVSGS(0.001)GS(0.868)T(0.016)AGS(0.114)R;GYYSPYSVSGSGS(0.463)T(0.463)AGS(0.073)R ; 271.45 3.08E-60 896190000 2459 3260.1 2880 3110 3261.7 3657.8 3927.1 3427.7 2600.3 3258.5 TRUE FALSE FALSE 2717.648902 3365.729379 3272.471402 3170.198547 3011.789251 3346.134862 3485.212372 3340.024397 2582.204301 3398.989882 0.799546041 0.990214592 0.962777624 0.932688433 0.886083618 0.984449786 1.025367092 0.982652056 0.759697554 1 11.73089035 -5.124799599 5.010863984 0.915353384 1.00415481 0.242519564 0.074021336 0.285974624 10.44250229 0.011210237 0.029694521 7.50E-06 5.124799599 0.088801425 GYYSPYSVSGSGSTAGS(ph)R ddPTM_HeLa_SAHA_4h_R1 4 GYYSPYSVSGSGSTAGSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 GYYSPYSVS(0.001)GS(0.009)GS(0.065)T(0.288)AGS(0.638)R;GYYSPYSVSGS(0.013)GS(0.024)T(0.337)AGS(0.625)R;GYYSPYSVS(0.001)GS(0.003)GS(0.029)T(0.291)AGS(0.676)R;GYYSPYSVSGS(0.001)GS(0.015)T(0.015)AGS(0.97)R ;;; 242.1 1.80E-37 903605600 4568.03 5347.07 4476.03 5089.92 6264.16 7045.98 6208.88 5643.45 5094.63 5021.64 TRUE FALSE FALSE 5048.516354 5520.318576 5086.000058 5188.442762 5784.201414 6445.622864 5510.240482 5499.098721 5059.176055 5238.147476 0.963798056 1.053868491 0.970953965 0.990511013 1.104245621 1.23051573 1.05194451 1.049817468 0.96583307 1 12.35484096 -5.751094072 5.952364321 0.987738099 1.114560464 0.549692264 0.05238696 0.088325842 10.95473928 0.007593167 0.014781495 1.77E-06 5.751094072 0.126822365 HAAFVT(ph)PDQK ddPTM_HeLa_SAHA_4h_R1 1 HAAFVTPDQK 10 0 P10244-2;P10244 P10244-2 MYBL2 Myb-related protein B 1 0 HAAFVT(1)PDQK 93.011 0.017963 3469800 3117.1 2936.6 2647.3 3581 3907.8 2799.6 3603.1 3700.4 3804.7 2960.9 TRUE FALSE FALSE 3444.97088 3031.747767 3008.060257 3650.315433 3608.385208 2561.05833 3197.669705 3605.749126 3778.222783 3088.558889 1.115397505 0.981605945 0.973936507 1.181883061 1.168307077 0.829208191 1.03532742 1.167453578 1.223296339 1 11.59271812 -4.258345735 23.15829659 1.045381673 1.167453701 0.071915232 0.113297151 181.5770531 1359032.044 0.013728637 0.127227404 5.52E-05 4.258345735 0.122072028 HADGEKEDQFNGS(ph)PPRPQPR ddPTM_HeLa_SAHA_4h_R1 2 HADGEKEDQFNGSPPRPQPR 20 2 Q69YN4-3;Q69YN4;Q69YN4-4;Q69YN4-2 Q69YN4-3 KIAA1429 Protein virilizer homolog 1 0 HADGEKEDQFNGS(1)PPRPQPR;HADGEKEDQFNGS(1)PPRPQPR ; 49.425 0.014512 74026000 2372.28 2344.4 2559.5 3753 2795.4 1852.64 2924.9 3052.07 2851.6 2734.5 TRUE FALSE FALSE 2621.807295 2420.360098 2908.295331 3825.644742 2581.217056 1694.784649 2595.782554 2974.002469 2831.755483 2852.397677 0.919159105 0.848535293 1.019596725 1.341203147 0.904928887 0.594161418 0.910035292 1.042632482 0.992763213 1 11.47795942 -5.526016034 24.99722913 0.985742656 0.837467733 0.173819464 0.160488827 138.1076832 1100411.866 0.023739152 0.04767981 2.98E-06 5.526016034 -0.148274923 HADNS(ph)SDTEMEDMIAEETLEEMDSELLK ddPTM_HeLa_SAHA_4h_R1 1 HADNSSDTEMEDMIAEETLEEMDSELLK 28 0 E7EX82;Q8NDX5-2;Q8NDX5;Q8NDX5-7 E7EX82 PHC3 Polyhomeotic-like protein 3 1 0 HADNS(0.35)S(0.299)DT(0.35)EMEDMIAEETLEEMDSELLK 70.107 0.0003411 7648900 422.84 590.95 383.9 751.95 679.62 250.51 734.44 672.54 610.87 651.35 TRUE FALSE FALSE 467.3162513 610.0971677 436.2158927 766.5050796 627.5476624 229.1651387 651.7988783 655.3374006 606.6189059 679.4328861 0.687803403 0.8979506 0.642029407 1.128154223 0.923634512 0.337288853 0.959327833 0.964535886 0.89283124 1 9.408187239 -9.573073243 1.360212855 0.999761254 0.799982624 0.043304287 0.211254934 0.789968123 2.625297366 0.143590961 0.033801073 2.67E-10 9.573073243 -0.19977863 HAEELAAQK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 HAEELAAQKR 10 1 O60563 O60563 CCNT1 Cyclin-T1 0 1 ; HAEELAAQK(1)R;HAEELAAQK(1)R 85.958 0.0092469 2724600 1131 1227.61 1084.5 1106.71 1639.15 1297.79 1346.8 1908.87 1454.7 1207.25 FALSE TRUE FALSE 1249.963769 1267.385369 1232.290012 1128.131972 1513.558681 1187.210991 1195.254519 1860.043869 1444.576624 1259.300456 0.992585815 1.006420163 0.978551232 0.8958402 1.201904339 0.942754357 0.949141656 1.47704534 1.147126262 1 10.29840682 -4.257940725 24.79366782 0.996930844 1.477045544 0.704470209 0.089703502 94.05093061 666470.0719 0.009453081 0.092759922 5.52E-05 4.257940725 0.4801147 HAEMVHTGLK(ac)LER ddPTM_HeLa_SAHA_4h_R1 1 HAEMVHTGLKLER 13 1 Q01518-2;Q01518;Q5T0R7;Q5T0R6;Q5T0R5;Q5T0R4;Q5T0R3;Q5T0R2;Q5T0R1;Q5T0R9 Q01518-2 CAP1 Adenylyl cyclase-associated protein 1;Adenylyl cyclase-associated protein 0 1 HAEMVHTGLK(1)LER 100.22 0.0025075 992540 230.62 195.44 376.09 314.48 381.07 170.19 283.27 235.45 204.51 248.12 FALSE TRUE FALSE 254.8776697 201.7723842 427.3415866 320.5672151 351.8724989 155.6888545 251.3957141 229.4275299 203.0867983 258.8176675 0.984776937 0.779592777 1.651129889 1.238583201 1.359538174 0.601538744 0.971323621 0.886444624 0.78467131 1 8.015792292 -5.252375167 24.99812782 1.066958133 0.83492449 0.190136853 0.265620924 1026.964339 2832250.088 0.036747717 0.092231087 5.59E-06 5.252375167 -0.232033643 HALIK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 HALIKK 6 1 I3L0K7;Q12931-2;Q12931;I3L253 I3L0K7 TRAP1 "Heat shock protein 75 kDa, mitochondrial" 0 1 ; HALIK(1)K;HALIK(1)K 86.344 0.0098131 6242200 11263.6 12435.5 10204.1 10079.9 12632.4 7459.8 15433.1 11473 7698.8 10926.4 FALSE TRUE FALSE 12448.35713 12838.41836 11594.66161 10275.01104 11664.50824 6824.183072 13696.52697 11179.53727 7645.223424 11397.49058 1.092201572 1.126425003 1.017299513 0.901515204 1.023427759 0.598744349 1.201714261 0.98087708 0.670781289 1 13.4764286 -6.448115665 5.701915917 1.051902366 0.942028727 0 0.187146983 0.374576755 21.60426514 0.021289404 0.032518993 3.56E-07 6.448115665 -0.10987364 TVTPAK(ac)AVTTPGK ddPTM_HeLa_SAHA_4h_R1 2 TVTPAKAVTTPGK 13 1 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 ; TVTPAK(1)AVTTPGK;TVTPAK(1)AVTTPGK 161.48 5.96E-07 32422000 2443.99 3133.1 3622 5579.4 7248.3 7683.5 8400.6 7418.1 2483.5 2196.38 FALSE TRUE FALSE 2701.060082 3234.614496 4115.587297 5687.397355 6692.93682 7028.822574 7455.342379 7228.355743 2466.217121 2291.076691 1.178947912 1.411831611 1.7963551 2.482412474 2.921306322 3.067912394 3.254078054 3.155003834 1.076444595 1 11.16181004 -6.265933822 0.962451687 1.062628715 3.228599345 0.997582622 0.043596576 0.019907927 0.036495345 0.009922548 0.021380376 5.42E-07 6.265933822 2.165970629 up HAPS(ph)PEPAVQGTGVAGVPEESGDAAAIPAK ddPTM_HeLa_SAHA_4h_R1 4 HAPSPEPAVQGTGVAGVPEESGDAAAIPAK 30 0 P13051 P13051 UNG Uracil-DNA glycosylase 1 0 HAPS(1)PEPAVQGTGVAGVPEESGDAAAIPAK;HAPS(1)PEPAVQGTGVAGVPEESGDAAAIPAK;HAPS(1)PEPAVQGTGVAGVPEESGDAAAIPAK;HAPS(1)PEPAVQGTGVAGVPEESGDAAAIPAK ;;; 175.75 2.25E-18 378594000 12173.4 11772.5 11187.7 12833.8 12075.6 6945.35 14258.7 13669 13712.6 12754.2 TRUE FALSE FALSE 13453.85407 12153.93672 12712.30149 13082.21676 11150.37014 6353.567107 12654.27355 13319.36677 13617.1729 13304.09598 1.01125654 0.913548485 0.955517873 0.983322488 0.838115581 0.477564738 0.951156213 1.001147826 1.023532371 1 13.69958286 -5.727498254 4.855240156 0.992620222 0.799270069 0.265150487 0.132959187 0.179602623 9.970606792 0.019249207 0.0383539 1.87E-06 5.727498254 -0.193350153 HAPS(ph)PEPAVQGTGVAGVPEESGDAAAIPAKK ddPTM_HeLa_SAHA_4h_R1 2 HAPSPEPAVQGTGVAGVPEESGDAAAIPAKK 31 1 P13051 P13051 UNG Uracil-DNA glycosylase 1 0 HAPS(1)PEPAVQGTGVAGVPEESGDAAAIPAKK;HAPS(1)PEPAVQGTGVAGVPEESGDAAAIPAKK ; 129.33 1.19E-12 24285000 2284.18 2454.6 2283.46 2396.63 2140.04 1348.75 2742.41 2974.41 2496.61 2328.2 TRUE FALSE FALSE 2524.440533 2534.130651 2594.638037 2443.020239 1976.070598 1233.828912 2433.826809 2898.328899 2479.235888 2428.580096 1.039471804 1.043461838 1.068376555 1.00594592 0.813673224 0.508045386 1.002160404 1.193425287 1.020858193 1 11.24589735 -5.827214099 6.778888344 1.024987825 0.861881664 0.169261151 0.161372966 0.278535521 22.93115291 0.024067778 0.04405222 1.49E-06 5.827214099 -0.163106161 HAPTYTIPLSPVLS(ph)PTLPAEAPTAQVPPSLPR ddPTM_HeLa_SAHA_4h_R1 2 HAPTYTIPLSPVLSPTLPAEAPTAQVPPSLPR 32 0 Q9NPI6-2;Q9NPI6 Q9NPI6-2 DCP1A mRNA-decapping enzyme 1A 1 0 HAPT(0.013)Y(0.018)T(0.061)IPLS(0.383)PVLS(0.419)PT(0.104)LPAEAPT(0.001)AQVPPSLPR;HAPT(0.002)Y(0.002)T(0.002)IPLS(0.415)PVLS(0.473)PT(0.105)LPAEAPT(0.001)AQVPPSLPR ; 73.361 5.03E-05 83227000 1494.24 1534.76 1225.75 1338.8 1714.55 1626.45 1588.03 1781.79 1690.83 1525.6 TRUE FALSE FALSE 1651.411019 1584.487231 1392.788827 1364.71441 1583.181549 1487.86731 1409.340685 1736.214392 1679.063376 1591.376082 1.037725172 0.995671136 0.875210356 0.857568758 0.994850662 0.934956436 0.885611328 1.091014507 1.055101553 1 10.63605911 -6.979200793 20.78508509 1.017755909 0.935895838 0.282758755 0.064802382 33.49322673 33469.28053 0.009854942 0.012949597 1.05E-07 6.979200793 -0.081860071 HAQDSDPRS(ph)PTLGIAR ddPTM_HeLa_SAHA_4h_R1 2 HAQDSDPRSPTLGIAR 16 1 F5GX58;F8WDL1;Q99618;J3KMY0 F5GX58 CDCA3 Cell division cycle-associated protein 3 1 0 HAQDS(0.002)DPRS(0.894)PT(0.104)LGIAR;HAQDSDPRS(0.843)PT(0.157)LGIAR ; 73.918 0.01106 21351400 2502.86 3409.68 2841.65 2746.55 3143.39 2793.8 3028.58 2732.69 2893.31 3346.6 TRUE FALSE FALSE 2766.122298 3520.155869 3228.895263 2799.713447 2902.544137 2555.752523 2687.796208 2662.791747 2873.17522 3490.888304 0.792383502 1.008383988 0.924949463 0.802006023 0.831462907 0.732120968 0.769946207 0.762783428 0.823049886 1 11.76937848 -5.965665334 1.821985606 0.910336453 0.76403489 0.481422201 0.067371676 0.28273949 1.880266609 0.013360497 0.027248902 1.08E-06 5.965665334 -0.146301563 HAS(ph)APSHVQPSDSEK ddPTM_HeLa_SAHA_4h_R1 5 HASAPSHVQPSDSEK 15 0 A0A3B3IRT3;O60343-2;O60343-3;O60343 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 1 0 HAS(0.996)APS(0.004)HVQPSDSEK;HAS(0.986)APS(0.014)HVQPSDSEK;HAS(0.944)APS(0.056)HVQPSDSEK;HAS(0.71)APS(0.29)HVQPSDSEK;HAS(0.979)APS(0.021)HVQPSDSEK ;;;; 132.62 0.00018637 162502600 20031 24631.1 16001.29 27983.2 34733.3 18466.29 31710.6 34875.9 26857.4 24396.2 TRUE FALSE FALSE 22137.95249 25429.1638 18181.86247 28524.8553 32072.04206 16892.8582 28142.43983 33983.82498 26670.49717 25448.03957 0.869927619 0.999258262 0.714470064 1.120905806 1.260295197 0.663817665 1.1058785 1.335420156 1.048037397 1 14.6352669 HAS(ph)APSHVQPSDSEKNR ddPTM_HeLa_SAHA_4h_R1 1 HASAPSHVQPSDSEKNR 17 1 A0A3B3IRT3;O60343-2;O60343-3;O60343 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 1 0 HAS(0.963)APS(0.037)HVQPSDSEKNR 54.355 0.016597 2363900 1353.8 430.17 1142.1 1013.8 863.13 470.98 1163.2 1732.5 168.12 1032.1 TRUE FALSE FALSE 1496.198895 444.1077902 1297.73944 1033.423565 796.9971659 430.8498543 1032.313675 1688.185159 166.9500392 1076.598882 1.389745912 0.412509986 1.205406639 0.959896562 0.740291653 0.400195339 0.958865639 1.568072554 0.155071719 1 10.07226512 -7.310785217 24.99993472 1.184046646 0.88462831 0 0.468460321 551.7236416 279516.9015 0.059200209 0.067695424 4.89E-08 7.310785217 -0.299418336 HAS(ph)PILPITEFSDIPR ddPTM_HeLa_SAHA_4h_R1 4 HASPILPITEFSDIPR 16 0 P42167;G5E972;H0YJH7 P42167 TMPO "Lamina-associated polypeptide 2, isoforms beta/gamma;Thymopoietin;Thymopentin" 1 0 HAS(0.97)PILPIT(0.028)EFS(0.001)DIPR;HAS(0.999)PILPIT(0.001)EFSDIPR;HAS(1)PILPITEFSDIPR;HAS(1)PILPITEFSDIPR ;;; 128.72 0.0001824 32440400 3047.14 7998.02 4461.02 2711.5 5545.97 3344.75 4757.29 4285.45 4845.82 5469.83 TRUE FALSE FALSE 3367.652166 8257.161096 5068.944574 2763.985003 5121.038977 3059.758483 4221.987209 4175.834394 4812.097544 5705.66114 0.590229963 1.447187432 0.888406172 0.484428524 0.897536473 0.536267123 0.73996459 0.731875639 0.843389999 1 12.47817835 -6.353013515 24.99999242 0.865411881 0.685749454 0.216387001 0.233690338 112.2421524 30637.16014 0.040030586 0.061147733 4.44E-07 6.353013515 -0.179662427 HASAPS(ph)HVQPSDSEK ddPTM_HeLa_SAHA_4h_R1 2 HASAPSHVQPSDSEK 15 0 A0A3B3IRT3;O60343-2;O60343-3;O60343 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 1 0 HAS(0.125)APS(0.871)HVQPS(0.004)DSEK;HAS(0.49)APS(0.51)HVQPSDSEK ; 100.4 0.0043196 4857900 2308.42 2733.22 1495.41 3181.6 3590.8 2142.8 3497.7 3801.4 3071.3 2661.22 TRUE FALSE FALSE 2551.230207 2821.778121 1699.196687 3243.184469 3315.67368 1960.221385 3104.129591 3704.165692 3049.926573 2775.958218 0.919044887 1.016505977 0.612111766 1.168311701 1.194424923 0.706142251 1.118219133 1.334373719 1.098693256 1 11.43877014 -4.522884171 25 0.956051952 1.280335167 0.292952699 0.176875079 0.131558726 600203.4321 0.0220569 0.084357188 3.00E-05 4.522884171 0.324283216 HASSS(ph)PES(ph)PKPAPAPGSHR ddPTM_HeLa_SAHA_4h_R1 2 HASSSPESPKPAPAPGSHR 19 1 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 HAS(0.31)S(0.353)S(0.403)PES(0.933)PKPAPAPGSHR;HAS(0.28)S(0.332)S(0.395)PES(0.993)PKPAPAPGSHR ; 57.981 0.011117 8958800 1705.24 2052 1443.42 1760.8 2242.7 1627.77 2200.58 2696.3 2155.5 2340.9 TRUE FALSE FALSE 1884.604967 2118.486146 1640.121761 1794.88283 2070.864811 1489.074838 1952.964947 2627.33255 2140.4997 2441.827655 0.771800976 0.867582174 0.671677936 0.735057131 0.848079841 0.609819794 0.799796391 1.075969692 0.87659737 1 11.25374566 -9.213547008 0.760382719 1.012898221 0.786886059 0.137503331 0.124592256 0.745953108 0.707947117 0.104405159 0.0235083 6.12E-10 9.213547008 -0.226012162 HASSSPES(ph)PKPAPAPGSHR ddPTM_HeLa_SAHA_4h_R1 2 HASSSPESPKPAPAPGSHR 19 1 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 HASS(0.001)S(0.002)PES(0.997)PKPAPAPGSHR;HAS(0.001)S(0.002)S(0.007)PES(0.99)PKPAPAPGSHR ; 76.051 0.0023958 7950200 1849.69 2427.3 1429.9 2369.32 3003.1 3271.1 2793.7 3031.3 2700.4 2640.1 TRUE FALSE FALSE 2044.248881 2505.946113 1624.759325 2415.181615 2773.003127 2992.383877 2479.345523 2953.763735 2681.607697 2753.927631 0.74230305 0.909953509 0.589978947 0.876995309 1.006926651 1.086587695 0.900294363 1.072564036 0.973739348 1 11.42727493 -5.781623706 5.427549789 0.853520372 1.014107842 0.322025002 0.119472745 0.197189696 16.58685825 0.019902182 0.037757528 1.65E-06 5.781623706 0.160587469 HAVSDPSILDSLDLNEDEREVLINNINR ddPTM_HeLa_SAHA_4h_R1 1 HAVSDPSILDSLDLNEDEREVLINNINR 28 1 P05198;H0YJS4;G3V4T5 P05198 EIF2S1 Eukaryotic translation initiation factor 2 subunit 1 0 0 128.67 1.65E-09 7435800 1005 1095.7 950.9 1282.1 1313.3 847.09 1334.4 1163.2 1245.3 1220.3 FALSE FALSE TRUE 1110.710511 1131.201399 1080.4837 1306.916899 1212.675238 774.9131664 1184.2498 1133.447028 1236.633856 1272.913105 0.87257371 0.888671343 0.84882754 1.026713367 0.952677157 0.608771458 0.930346145 0.890435509 0.971499037 1 10.31391822 -13.52287875 0.202931593 1.608219239 0.852426269 0.155227159 0.102042437 66.70324515 0.815466008 16.03119896 0.101583221 3.00E-14 13.52287875 -0.75579297 HAYGDQYR ddPTM_HeLa_SAHA_4h_R1 3 HAYGDQYR 8 0 C9J4N6;O75874 C9J4N6 IDH1 Isocitrate dehydrogenase [NADP] cytoplasmic 0 0 ;; ;; 166.68 7.98E-06 11738870 2988.241 3165.765 3623.83 2940.2 3439.9 1938.01 3950.53 1666.75 1055.76 2085.618 FALSE FALSE TRUE 3302.557899 3268.337863 4117.66668 2997.111823 3176.335605 1772.880645 3506.005967 1624.116948 1048.41288 2175.539199 1.518041091 1.502311641 1.892710866 1.37764092 1.460022236 0.814915514 1.611557249 0.746535364 0.481909441 1 11.0871573 -5.298769835 24.7400329 1.342220382 1.113057597 0.071079981 0.412758139 974.277013 645681.7376 0.049836059 0.111439761 5.03E-06 5.298769835 -0.229162785 HCAPS(ph)PDRSPELSS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 HCAPSPDRSPELSSSR 16 1 A0A494C001;A0A499FJY3;A0A087WWP4;Q96T37-4;Q96T37-2;Q96T37-3;Q96T37 A0A494C001 RBM15 Putative RNA-binding protein 15 2 0 HCAPS(0.998)PDRS(0.215)PELS(0.075)S(0.641)S(0.071)R 130.38 0.0019442 3665300 430.19 657.51 733.71 479.66 822.6 349.13 860.2 738.8 943.74 609.17 TRUE FALSE FALSE 475.439358 678.8137554 833.6961778 488.9445129 759.5725657 319.3821598 763.4080321 719.9025658 937.1724365 635.4342999 0.748211669 1.068267413 1.312010035 0.769465093 1.195359718 0.502620271 1.201395695 1.132929975 1.474853398 1 9.311599157 -7.236367232 24.55370684 0.881099938 1.020269055 0 0.296441449 1293.358354 1266615.381 0.037810305 0.046296843 5.80E-08 7.236367232 0.139169117 HCAPS(ph)PDRSPELSSSR ddPTM_HeLa_SAHA_4h_R1 1 HCAPSPDRSPELSSSR 16 1 A0A494C001;A0A499FJY3;A0A087WWP4;Q96T37-4;Q96T37-2;Q96T37-3;Q96T37 A0A494C001 RBM15 Putative RNA-binding protein 15 1 0 HCAPS(0.994)PDRS(0.006)PELSSSR 87.447 0.0032303 5853800 810.07 674.06 603.48 791.43 988.49 832.18 758.53 612.7 1136 620.26 TRUE FALSE FALSE 895.2768793 695.8999863 685.7191116 806.7492721 912.7521098 761.2735823 673.1782081 597.0280212 1128.094484 647.0024441 1.38373029 1.075575514 1.059840064 1.246902975 1.410739817 1.176616239 1.040456979 0.922760071 1.743570668 1 9.337627352 -4.582795692 2.936549054 1.18951144 0.935152318 0.163165017 0.215211019 0.316945324 5.137361119 0.023134676 0.133433278 2.61E-05 4.582795692 -0.254359122 HCLGVFFPVFAYASR ddPTM_HeLa_SAHA_4h_R1 2 HCLGVFFPVFAYASR 15 0 Q9BPX3 Q9BPX3 NCAPG Condensin complex subunit 3 0 0 ; ; 101.3 0.0038672 738270 201.82 191.84 237.71 201.167 260.16 0 187.667 0 0 0 FALSE FALSE TRUE 223.0483536 198.0557419 270.1038809 205.0608782 240.226597 0 166.5502152 0 0 0 0 HCNGVDWR ddPTM_HeLa_SAHA_4h_R1 2 HCNGVDWR 8 0 O15371-2;O15371-3;O15371 O15371-2 EIF3D Eukaryotic translation initiation factor 3 subunit D 0 0 ; ; 120.87 0.0037601 8912200 1444.55 1115.11 1181.53 1109.98 1135.01 1717.29 1207.15 1227.6 1296.68 1183.97 FALSE FALSE TRUE 1596.494397 1151.240296 1342.542755 1131.465268 1048.045779 1570.967231 1071.318305 1196.19977 1287.656298 1235.016741 1.292690491 0.932165741 1.087064418 0.91615379 0.848608561 1.272021001 0.867452456 0.96856968 1.042622546 1 10.27031488 -7.233937245 24.95302802 1.138214973 0.987207965 0.146675168 0.136077436 922.9622063 837416.2067 0.025138517 0.030784745 5.84E-08 7.233937245 -0.151007008 HCQENK(ac)CPVPFCLNIK ddPTM_HeLa_SAHA_4h_R1 2 HCQENKCPVPFCLNIK 16 1 Q92793;Q92793-2;A0A669KB12;Q09472 Q92793;A0A669KB12 CREBBP;EP300 CREB-binding protein;Histone acetyltransferase p300 0 1 ; HCQENK(1)CPVPFCLNIK;HCQENK(1)CPVPFCLNIK 162.88 6.55E-08 8215600 4405.1 3117.2 3782.8 3512 4085.8 2974.2 4243.2 3748.1 2900.7 3743.7 FALSE TRUE FALSE 4868.448629 3218.199325 4298.300284 3579.979838 3772.746887 2720.781428 3765.743969 3652.229029 2880.513793 3905.109228 1.246686929 0.824099695 1.100686314 0.916742562 0.966105342 0.696723515 0.964312071 0.935243758 0.737626946 1 11.93114719 -6.537524001 1.117354433 1.107264684 0.884351859 0 0.169529046 0.412536847 1.029055179 0.025076335 0.043395073 2.90E-07 6.537524001 -0.222912825 HCQLEPDHEGVPEETDDFGEFR ddPTM_HeLa_SAHA_4h_R1 1 HCQLEPDHEGVPEETDDFGEFR 22 0 E9PFH4;C9J7E5;Q9Y5L0-5;Q9Y5L0-3;Q9Y5L0;Q9Y5L0-1 E9PFH4 TNPO3 Transportin-3 0 0 97.689 9.13E-05 2039600 402.77 406.54 448.4 507.75 451.38 333.34 466.16 323.7 513.14 375.29 FALSE FALSE TRUE 445.1351966 419.7121627 509.5056168 517.5782355 416.7953619 304.9375567 413.7064499 315.4202227 509.569017 391.4705885 1.137084649 1.072142263 1.301516977 1.322138241 1.064691382 0.778953938 1.056800848 0.805731598 1.30167893 1 8.612760111 -5.42877589 7.206076069 1.106158274 0.899848723 0.445647714 0.135871639 0.239506952 16.01004491 0.019213157 0.043110366 3.73E-06 5.42877589 -0.206309551 HDADGQATLLNLLLR ddPTM_HeLa_SAHA_4h_R1 1 HDADGQATLLNLLLR 15 0 O43242-2;O43242 O43242-2 PSMD3 26S proteasome non-ATPase regulatory subunit 3 0 0 78.985 0.011904 306460 425.92 250.58 267 330.43 368.38 275.08 249 192.04 208.28 182.75 FALSE FALSE TRUE 470.7202198 258.6989564 303.3853695 336.8259505 340.154804 251.6416364 220.9818647 187.1278949 206.8305625 190.6292469 2.46929696 1.357079046 1.591494351 1.766916441 1.78437889 1.320057864 1.1592233 0.981632661 1.084988615 1 7.574625668 -4.979913607 2.373552408 1.685725694 1.049653967 0.174337436 0.399849649 0.406069749 4.484706063 0.077848395 0.293508551 1.05E-05 4.979913607 -0.636071728 HDDYFQER ddPTM_HeLa_SAHA_4h_R1 1 HDDYFQER 8 0 Q8N684-2;Q8N684;Q8N684-3 Q8N684-2 CPSF7 Cleavage and polyadenylation specificity factor subunit 7 0 0 112.11 0.0062489 2100800 2019.5 2308.4 1773.9 3155 2383.6 1807.7 2475.8 2461.9 3707.7 2797.3 FALSE FALSE TRUE 2231.920276 2383.193675 2015.637854 3216.069587 2200.969083 1653.67379 2197.216468 2398.928163 3681.897814 2917.905293 0.764904975 0.816748124 0.69078248 1.102184363 0.754297642 0.566733195 0.753011578 0.822140516 1.261829102 1 11.51071734 -13.52287875 0.234405332 2.292746567 0.751919907 0.418237099 0.150410005 44.80051828 0.580874568 26.61114528 0.089625182 3.00E-14 13.52287875 -1.54082666 HDGGS(ph)PSIK ddPTM_HeLa_SAHA_4h_R1 1 HDGGSPSIK 9 0 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 1 0 HDGGS(0.984)PS(0.016)IK 90.149 0.0086137 0 534.47 489.09 483.16 718.63 728.36 768.21 807.22 935.03 801.57 863.87 TRUE FALSE FALSE 590.6880068 504.9368369 549.0025286 732.5401228 672.5532142 702.7541862 716.3894811 911.1132865 795.9918091 901.1156634 0.655507424 0.56034631 0.60924757 0.812925746 0.746356147 0.779871236 0.795002806 1.011094717 0.883340332 1 9.815568486 -2.804638841 14.71544908 0.797615891 43.57364827 0 0.144581868 0 0 0.023327286 0 0.001568055 2.804638841 42.77603238 HDLDLICR ddPTM_HeLa_SAHA_4h_R1 2 HDLDLICR 8 0 P62136-3;P62136;P62136-2;E9PMD7;F8VR82;F8VYE8;F8W0W8;P36873;P36873-2;P62140 P62136-3;P62140 PPP1CA;PPP1CC;PPP1CB Serine/threonine-protein phosphatase PP1-alpha catalytic subunit;Serine/threonine-protein phosphatase;Serine/threonine-protein phosphatase PP1-gamma catalytic subunit;Serine/threonine-protein phosphatase PP1-beta catalytic subunit 0 0 ; ; 111.95 0.0026698 8343400 3112.4 3446.8 3392.7 3249.4 3672.7 2854.7 4315.5 2925.3 4767.3 3475.1 FALSE FALSE TRUE 3439.776512 3558.478582 3855.039488 3312.296836 3391.298519 2611.4635 3829.908582 2850.475062 4734.123971 3624.928568 0.948922564 0.981668608 1.063480125 0.913755064 0.935549061 0.72041792 1.056547325 0.786353444 1.305990969 1 11.82373685 -5.828350595 2.569980174 0.981468515 0.872833544 0.211187014 0.134972974 0.283393966 3.812194381 0.012025487 0.024375963 1.48E-06 5.828350595 -0.10863497 HDS(ph)PDLAPNVTYSLPR ddPTM_HeLa_SAHA_4h_R1 4 HDSPDLAPNVTYSLPR 16 0 Q9BRD0;H7C462 Q9BRD0 BUD13 BUD13 homolog 1 0 HDS(1)PDLAPNVTYSLPR;HDS(1)PDLAPNVTYSLPR;HDS(1)PDLAPNVTYSLPR;HDS(1)PDLAPNVTYSLPR ;;; 129.46 0.00015007 52241000 8528.8 9533.7 8241.6 8826.3 9453.3 3857.45 11004.5 9987 10884.9 10345.5 TRUE FALSE FALSE 9425.898316 9842.598135 9364.722328 8997.1458 8728.990196 3528.773559 9766.244698 9731.547001 10809.15109 10791.54513 0.873452151 0.912065697 0.86778327 0.833721741 0.808873066 0.326994283 0.904990395 0.901775129 1.001631459 1 13.39761382 -6.147581703 1.498385586 0.93640241 0.721762231 0.266979617 0.15575032 0.403463878 1.779137351 0.025489394 0.050002938 7.12E-07 6.147581703 -0.214640179 HDS(ph)PDPS(ph)PPRR ddPTM_HeLa_SAHA_4h_R1 1 HDSPDPSPPRR 11 1 Q9BRD0;Q9BRD0-2 Q9BRD0 BUD13 BUD13 homolog 2 0 HDS(1)PDPS(1)PPRR 89.747 0.020028 5690400 2901.8 2845.2 2547.6 2669.3 3498.7 1575.2 3079.5 3135.2 3363.6 2892 TRUE FALSE FALSE 3207.024638 2937.386347 2894.773661 2720.968161 3230.630362 1440.984098 2732.986555 3055.006124 3340.192434 3016.688273 1.063094476 0.973712257 0.959586606 0.901971936 1.070919521 0.477670865 0.905955905 1.012701959 1.10723818 1 11.55874991 -6.000299514 1.187500694 1.025228872 0.831444846 0.222904904 0.149207674 0.496865186 1.386821111 0.023599999 0.055146764 9.99E-07 6.000299514 -0.193784026 HDT(ph)PDPSPLR ddPTM_HeLa_SAHA_4h_R1 3 HDTPDPSPLR 10 0 Q9BRD0;Q9BRD0-2 Q9BRD0 BUD13 BUD13 homolog 1 0 HDT(1)PDPSPLR;HDT(1)PDPSPLR;HDT(0.999)PDPS(0.001)PLR ;; 123.51 0.00056222 14966000 3232.67 3894.16 3523.45 4044.23 3452.16 1554.9 3999.57 3941.96 3936.96 3711.37 TRUE FALSE FALSE 3572.697063 4020.333339 4003.607417 4122.51192 3187.656247 1422.413772 3549.527857 3841.130371 3909.562375 3871.385324 0.922847189 1.038474087 1.03415369 1.064867373 0.82338904 0.367417256 0.916862456 0.99218498 1.009861341 1 11.91863419 -5.57508796 7.258420552 0.980210449 0.74553236 0.342706992 0.158529305 0.191423163 21.89165776 0.022804873 0.045914342 2.66E-06 5.57508796 -0.234678089 HEAMITDLEER ddPTM_HeLa_SAHA_4h_R1 1 HEAMITDLEER 11 0 P35579 P35579 MYH9 Myosin-9 0 0 112.64 0.003835 5887500 2161.3 2524.6 1679.7 2484.5 2938.7 2645.6 2326.6 2282.2 2911.8 2456.1 FALSE FALSE TRUE 2388.63545 2606.398696 1908.600768 2532.59109 2713.537441 2420.179996 2064.804845 2223.824629 2891.536547 2561.994491 0.932334343 1.01733189 0.744966773 0.988523238 1.059150381 0.944646839 0.805936489 0.868005234 1.128627152 1 11.32305166 HEAPS(ph)SPISGQPCGDDQNASPSK ddPTM_HeLa_SAHA_4h_R1 1 HEAPSSPISGQPCGDDQNASPSK 23 0 A0A088AWL3;O75376;O75376-2;O75376-3;E7EVU5;E7EW50;J3KS51 A0A088AWL3 NCOR1 Nuclear receptor corepressor 1 1 0 HEAPS(0.533)S(0.462)PIS(0.005)GQPCGDDQNASPSK 81.97 0.00044138 10741000 3821 4572.8 2815.6 4844.1 5855 4110 5242.1 4898.9 6353.2 4810.7 TRUE FALSE FALSE 4222.910311 4720.96172 3199.295305 4937.86456 5406.391165 3759.804878 4652.245112 4773.593232 6308.987564 5018.11282 0.841533553 0.940784293 0.637549497 0.984008279 1.077375372 0.749246781 0.927090577 0.9512726 1.257243069 1 12.29292919 -9.438625512 1.159103232 1.000249028 0.883796279 0.212164735 0.143887208 0.85176651 2.039605589 0.079612023 0.019717959 3.64E-10 9.438625512 -0.116452749 HEAPSS(ph)PISGQPCGDDQNASPSK ddPTM_HeLa_SAHA_4h_R1 1 HEAPSSPISGQPCGDDQNASPSK 23 0 A0A088AWL3;O75376;O75376-2;O75376-3;E7EVU5;E7EW50;J3KS51 A0A088AWL3 NCOR1 Nuclear receptor corepressor 1 1 0 HEAPS(0.18)S(0.812)PIS(0.008)GQPCGDDQNASPSK 117.96 1.05E-05 10711000 1398.9 1657.9 1276.2 1756 2315.4 1824.9 1738 2099.3 2055 1764.8 TRUE FALSE FALSE 1546.04272 1711.617048 1450.11389 1789.989919 2137.994552 1669.408253 1542.435666 2045.602946 2040.699088 1840.889165 0.839834766 0.929777349 0.787724713 0.972350728 1.161392328 0.906848867 0.837875357 1.111203751 1.108539898 1 10.84618705 -6.016781773 24.55801976 0.912160538 0.995651754 0.058737497 0.118704597 984.2459992 1440322.681 0.016341806 0.027570315 9.62E-07 6.016781773 0.083491217 HECQANGPEDLNR ddPTM_HeLa_SAHA_4h_R1 2 HECQANGPEDLNR 13 0 P60981;P60981-2 P60981 DSTN Destrin 0 0 ; ; 175.48 2.69E-11 921640 211.24 187.241 115.543 235.321 304.021 389.49 411.28 149.73 169.74 153.18 FALSE FALSE TRUE 233.4591924 193.3077313 131.2885983 239.8759782 280.7269767 356.3032608 365.001692 145.9001234 168.5587655 159.7843394 1.461089323 1.209803989 0.821661239 1.501248364 1.756911708 2.229901016 2.284339587 0.913106528 1.054914181 1 7.319982206 -5.894110898 3.25073859 1.194498089 1.866251428 0.397365874 0.387645228 0.19361904 4.072047647 0.058000806 0.110749821 1.28E-06 5.894110898 0.671753339 HEDEQALLDQNSQT(ph)PPPSPFSVQAFNK ddPTM_HeLa_SAHA_4h_R1 2 HEDEQALLDQNSQTPPPSPFSVQAFNK 27 0 A0A499FJI4;O75592-2;O75592;A0A087WY34 A0A499FJI4 MYCBP2 E3 ubiquitin-protein ligase MYCBP2 1 0 HEDEQALLDQNS(0.001)QT(0.999)PPPSPFSVQAFNK;HEDEQALLDQNSQT(1)PPPSPFSVQAFNK ; 143.84 1.23E-09 38278000 2327.93 2703.9 2741.4 2716.6 2706.5 2025 3158.5 3208.4 2276.34 2631.6 TRUE FALSE FALSE 2572.792358 2791.508134 3114.983715 2769.183721 2499.128555 1852.458608 2803.097267 3126.333774 2260.498765 2745.061155 0.937244095 1.016920198 1.134759315 1.008787624 0.910409063 0.674833274 1.021142011 1.138894035 0.823478472 1 11.42262257 -5.758346601 24.9299727 0.989655722 0.923700739 0.030954828 0.130594004 193.7018734 1561344.948 0.018052239 0.034907791 1.74E-06 5.758346601 -0.065954984 HEDGTQS(ph)DSEDPLAK ddPTM_HeLa_SAHA_4h_R1 1 HEDGTQSDSEDPLAK 15 0 J3KQR7;Q9Y4F5-3;Q9Y4F5-2;Q9Y4F5 J3KQR7 CEP170B Centrosomal protein of 170 kDa protein B 1 0 HEDGT(0.029)QS(0.934)DS(0.037)EDPLAK 82.942 0.013094 2396200 1053.2 1856.9 1281.4 1503.9 1389.3 576.01 1776.5 1134.3 1671.2 1135 TRUE FALSE FALSE 1163.980408 1917.064778 1456.022519 1533.010159 1282.852134 526.9307075 1576.603545 1105.286248 1659.569983 1183.935405 0.983145198 1.61923089 1.229815844 1.294842737 1.083549093 0.445067109 1.331663483 0.933569724 1.401740312 1 10.20937465 -3.978638664 17.62643833 1.058820362 0.635765776 0 0.312655493 29298961.58 568788855.9 0.0400689 345886899.1 0.000105042 3.978638664 -0.423054586 HEEAPGHRPTTNPNASK ddPTM_HeLa_SAHA_4h_R1 2 HEEAPGHRPTTNPNASK 17 1 E9PP21;P21291;E9PND2;E9PS42 E9PP21 CSRP1 Cysteine and glycine-rich protein 1 0 0 ; ; 57.973 0.010832 7449100 1536.97 2229.75 1598.05 1953.1 2667.3 1073.41 2369.2 2152.3 3082.3 1735.42 FALSE FALSE TRUE 1698.635556 2301.995363 1815.823932 1990.905075 2462.93205 981.9494292 2102.611381 2097.247282 3060.850023 1810.242449 0.938346992 1.271650305 1.003083279 1.099800237 1.360553693 0.542440837 1.161508162 1.158544969 1.690850872 1 10.82196722 HEEQPAPGYDTHGR ddPTM_HeLa_SAHA_4h_R1 1 HEEQPAPGYDTHGR 14 0 G3V1L9;Q07157;A0A087X0K9;G5E9E7;Q07157-2 G3V1L9 TJP1 Tight junction protein ZO-1 0 0 72.615 0.010623 1649100 434.24 505.36 361.96 360.36 579.31 371.63 567.22 471.14 482.11 525.93 FALSE FALSE TRUE 479.9153556 521.7339956 411.2860238 367.3352889 534.923393 339.9650333 503.3949128 459.088921 478.7549573 548.6054161 0.874791501 0.951018674 0.749693699 0.669580136 0.975060357 0.619689531 0.917590126 0.836828999 0.872676323 1 9.099625055 -8.066241896 0.524724229 0.995547212 0.800347616 0.143502289 0.113256639 0.71711345 0.460936588 0.058082863 0.0338474 8.59E-09 8.066241896 -0.195199596 HEEQS(ph)NEDIPIAEQSSK ddPTM_HeLa_SAHA_4h_R1 1 HEEQSNEDIPIAEQSSK 17 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 HEEQS(1)NEDIPIAEQSSK 89.663 0.0049692 0 757.22 1223.2 1032.9 1218.9 1539.8 1126.6 1292.3 1090.7 1550.4 1264.8 TRUE FALSE FALSE 836.8678738 1262.832483 1173.658233 1242.493572 1421.820857 1030.607342 1146.887003 1062.801473 1539.61064 1319.331718 0.634311949 0.957175868 0.889585399 0.941759798 1.077682616 0.781158618 0.869293891 0.805560466 1.1669625 1 10.36559163 HEERQDEHGYISR ddPTM_HeLa_SAHA_4h_R1 4 HEERQDEHGYISR 13 1 P04792 P04792 HSPB1 Heat shock protein beta-1 0 0 ;;; ;;; 62.891 0.012759 20715160 5034.46 2300.96 4917.33 4580.88 4727.45 1409.89 5288.28 5164.12 1978.94 4495 FALSE FALSE TRUE 5564.007602 2375.512614 5587.438124 4669.549556 4365.233802 1289.75944 4693.228816 5032.029288 1965.168395 4688.801448 1.186658822 0.506635361 1.191655946 0.99589407 0.930991395 0.275072309 1.000944243 1.073201615 0.419119559 1 12.19500347 -6.707353361 0.817375249 1.076310905 0.826808556 0 0.343913741 0.959207698 1.286175426 0.059000105 0.099568488 1.96E-07 6.707353361 -0.249502348 HEGGRDPPASHAVPNTPHRS(ph)PPSDVR ddPTM_HeLa_SAHA_4h_R1 1 HEGGRDPPASHAVPNTPHRSPPSDVR 26 2 I3L229;H7C0J3 I3L229 CHD3 1 0 HEGGRDPPASHAVPNT(0.06)PHRS(0.92)PPS(0.019)DVR 54.559 0.0036909 1418000 528.94 501.45 717.02 796.36 804.98 280.9 878.9 654.16 580.43 636.46 TRUE FALSE FALSE 584.5763361 517.697309 814.7317515 811.7746994 743.3026063 256.9657397 780.0038589 637.4275344 576.3907404 663.9009054 0.880517456 0.779780996 1.227188794 1.222734738 1.119598724 0.38705436 1.174879945 0.960124514 0.868187911 1 9.374824109 HELIEFR ddPTM_HeLa_SAHA_4h_R1 2 HELIEFR 7 0 A0A087WVQ6;Q00610-2;Q00610;J3KS13;K7EJJ5;J3KRF5 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 ; ; 143.11 0.00032492 7724700 4814.3 4689.3 4568.4 5974.3 6024.8 5119.4 5614.2 3632.7 5955.7 4747.1 FALSE FALSE TRUE 5320.690163 4841.236397 5190.957761 6089.941215 5563.181126 4683.198319 4982.47544 3539.780794 5914.253799 4951.770713 1.074502531 0.97767782 1.048303337 1.229851213 1.123473086 0.945762353 1.006200757 0.714851515 1.194371497 1 12.2737288 -3.810672377 1.399853968 1.049572209 0.097702277 0.591985877 0.087723677 1.978841934 1.451315019 0.011588924 3.613351721 0.000154642 3.810672377 -0.951869932 HELLQPFNVLYEK ddPTM_HeLa_SAHA_4h_R1 2 HELLQPFNVLYEK 13 0 Q9UQ80;Q9UQ80-2 Q9UQ80 PA2G4 Proliferation-associated protein 2G4 0 0 ; ; 134.61 0.00016173 2102060 1663.7 1863.51 2562.1 3636.9 2148.2 2355.14 2289.6 1607.89 2558.3 2224.51 FALSE FALSE TRUE 1838.695599 1923.888947 2911.249645 3707.297459 1983.60538 2154.468822 2031.968182 1566.762502 2540.496582 2320.419513 0.792397922 0.829112553 1.254622119 1.597684142 0.854847742 0.928482462 0.875690008 0.675206571 1.094843656 1 11.18016994 -2.964143578 9.462058227 0.947664662 0.816204255 0 0.258400447 0 0 0.03511326 0 0.001086067 2.964143578 -0.131460407 HELQANCYEEVK(ac)DR ddPTM_HeLa_SAHA_4h_R1 2 HELQANCYEEVKDR 14 1 P23528;G3V1A4;E9PP50;E9PK25 P23528 CFL1 Cofilin-1 0 1 ; HELQANCYEEVK(1)DR;HELQANCYEEVK(1)DR 200.97 1.76E-23 9915500 936.97 2943.2 1298.27 1681.41 2483.21 2031.85 2782.6 2055.5 2992.1 1054.21 FALSE TRUE FALSE 1035.524804 3038.561611 1475.191475 1713.956122 2292.946986 1858.724949 2469.494525 2002.923286 2971.277732 1099.662152 0.941675406 2.763177404 1.341495178 1.558620635 2.085137678 1.690269093 2.245684749 1.821398765 2.701991449 1 10.10284464 -7.311817637 24.88645945 0.972457562 1.901483213 0 0.661050736 161.1269569 79595.07178 0.058662274 0.067082909 4.88E-08 7.311817637 0.929025651 HELQANCYEEVKDR ddPTM_HeLa_SAHA_4h_R1 4 HELQANCYEEVKDR 14 1 P23528;G3V1A4;E9PP50;E9PK25 P23528 CFL1 Cofilin-1 0 0 ;;; ;;; 88.163 0.0063537 243327000 18277.8 20109.6 16861.9 21471.3 22585.6 19931.4 23211.7 16986 29213.7 21121 FALSE FALSE TRUE 20200.34287 20761.16423 19159.75192 21886.90806 20855.09621 18233.13259 20599.85843 16551.52272 29010.39948 22031.62967 0.916879194 0.942334477 0.869647511 0.993431189 0.946597983 0.827588919 0.935012921 0.751261843 1.316761398 1 14.42728859 -1 0.242279083 0.975071083 4.65E-16 0.266918091 0.121457004 31.91983513 0.394848816 0.030891582 12.6965995 0.1 1 -0.975071083 HELS(ph)PPQKR ddPTM_HeLa_SAHA_4h_R1 2 HELSPPQKR 9 1 Q9BXP5-5;Q9BXP5-4;Q9BXP5-2;Q9BXP5-3;Q9BXP5;C9JUL9 Q9BXP5-5;C9JUL9 SRRT Serrate RNA effector molecule homolog 1 0 HELS(1)PPQKR;HELS(1)PPQKR ; 68.786 0.021639 91842000 5406.5 7277.9 4805.4 6288.5 8011.1 4896.2 7099.9 6503.3 9872.8 7203.9 TRUE FALSE FALSE 5975.180476 7513.708735 5460.254887 6410.223011 7397.291249 4479.016215 6301.000566 6336.955003 9804.094381 7514.495384 0.795153922 0.999895316 0.726629615 0.853047701 0.984402927 0.596050165 0.8385128 0.843297478 1.304690985 1 12.87546051 -13.52287875 0.253893577 2.152287228 0.805708502 0.374577319 0.144351739 45.19364851 0.599526675 26.13592314 0.06055208 3.00E-14 13.52287875 -1.346578726 HEQNIDCGGGYVK ddPTM_HeLa_SAHA_4h_R1 1 HEQNIDCGGGYVK 13 0 P27797 P27797 CALR Calreticulin 0 0 119.96 0.0012621 15812000 4145.1 3945.3 3739.3 3678.9 4465.1 3974.5 4612.1 3824.8 4297.7 3835.9 FALSE FALSE TRUE 4581.100636 4073.130309 4248.872331 3750.110429 4122.985003 3635.85024 4093.13437 3726.967154 4267.791956 4001.284421 1.144907523 1.017955706 1.061877108 0.937226659 1.030415379 0.908670781 1.022955116 0.931442697 1.066605496 1 11.96624747 -6.276765706 22.27520451 1.065131597 0.969676296 0.44961886 0.050605319 161.5442887 234787.3541 0.009644681 0.014781576 5.29E-07 6.276765706 -0.095455301 HERPAGPGT(ph)PPPDSGPLAK ddPTM_HeLa_SAHA_4h_R1 1 HERPAGPGTPPPDSGPLAK 19 1 H0YME5;Q9P2K8-2;Q9P2K8 H0YME5 EIF2AK4 Eukaryotic translation initiation factor 2-alpha kinase 4 1 0 HERPAGPGT(0.998)PPPDS(0.002)GPLAK 58.093 0.010567 13775000 1437.2 1583.7 1385.9 1442.9 1608.4 1202 1532.2 1621.1 1613.5 1579.7 TRUE FALSE FALSE 1588.37129 1635.012919 1574.763235 1470.829416 1485.164739 1099.582838 1359.792823 1579.634609 1602.271522 1647.808598 0.963929483 0.99223473 0.955671209 0.892597246 0.901296875 0.667300097 0.825212846 0.958627483 0.97236507 1 10.68633296 -5.990425169 1.642420714 0.982738102 0.820538158 0.480522615 0.06931783 0.218665287 1.176027743 0.010783825 0.022344098 1.02E-06 5.990425169 -0.162199945 HFEASCGQLS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 1 HFEASCGQLSPAR 13 0 A0A1B0GV70;Q96N21-2;Q96N21 A0A1B0GV70 ENTHD2 AP-4 complex accessory subunit tepsin 1 0 HFEASCGQLS(1)PAR 161.49 5.60E-05 4919200 307.94 406.58 411.19 337.51 392.43 382.17 341.08 261.04 339.91 308.61 TRUE FALSE FALSE 340.3305421 419.7534588 467.2248318 344.0429941 362.3620982 349.606966 302.7007807 254.3629748 337.5445386 321.9156874 1.057203968 1.30392359 1.451388827 1.068736342 1.12564287 1.086020283 0.940310748 0.790154021 1.048549517 1 8.330539073 -4.492044243 2.235433467 1.091395193 0.775665712 0.374941113 0.137218206 0.425906688 3.364132148 0.022591412 0.217134893 3.22E-05 4.492044243 -0.315729481 HFEELETIMDR ddPTM_HeLa_SAHA_4h_R1 2 HFEELETIMDR 11 0 Q92922;F8VXC8;Q8TAQ2-2;Q8TAQ2-3;Q8TAQ2 Q92922;F8VXC8 SMARCC1;SMARCC2 SWI/SNF complex subunit SMARCC1;SWI/SNF complex subunit SMARCC2 0 0 ; ; 218.55 1.49E-15 8936800 3936.6 3899.3 4424.6 4961.9 5114.6 3946.5 4816.2 3492 5269 4832.7 FALSE FALSE TRUE 4350.66965 4025.639878 5027.561446 5057.94475 4722.720453 3610.235998 4274.2685 3402.679696 5232.3326 5041.061348 0.863046361 0.798569904 0.997322012 1.003349176 0.936850422 0.716165853 0.847890594 0.674992717 1.037942655 1 12.2995118 -5.268977279 24.44331765 0.933506738 0.756503806 0.566396706 0.080053183 259.5251557 841569.7395 0.01170911 0.026682629 5.38E-06 5.268977279 -0.177002931 HFGAEYR ddPTM_HeLa_SAHA_4h_R1 1 HFGAEYR 7 0 P04818-2;P04818 P04818-2 TYMS Thymidylate synthase 0 0 128.86 0.0018013 3588300 1216.3 873.66 770.29 1083.3 1129.1 892.12 1232 867.3 1031.5 903.58 FALSE FALSE TRUE 1344.236015 901.9671572 875.2611097 1104.268838 1042.588602 816.1063571 1093.372118 845.1157218 1024.321708 942.5377558 1.426187976 0.956955996 0.928621802 1.171591091 1.106150492 0.865860653 1.160030047 0.896638587 1.086769948 1 9.8804066 -7.211397274 24.99956367 1.20125575 1.018838444 0.195307814 0.143318116 466.5526377 233076.0921 0.030077173 0.036836829 6.15E-08 7.211397274 -0.182417306 HFIDVGAGVIDEDYR ddPTM_HeLa_SAHA_4h_R1 4 HFIDVGAGVIDEDYR 15 0 P33316-2;A0A0C4DGL3;H0YNJ9;H0YKC5;H0YMP1;H0YNW5;H0YMM5;P33316;H0YKI0 P33316-2;H0YNW5;P33316 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 0 0 ;;; ;;; 155.57 2.47E-05 46156900 9349.6 11490.7 10287.3 13168.8 12968 9441.9 14007 8749.5 15833.7 12819.3 FALSE FALSE TRUE 10333.03383 11863.00622 11689.19967 13423.70117 11974.39464 8637.397001 12430.8955 8525.700459 15723.51199 13372.00276 0.772736441 0.88715254 0.874154746 1.003866168 0.895482514 0.64593144 0.929621069 0.637578425 1.175853182 1 13.70692794 -13.52284627 0.340943658 2.964955358 0.822580835 0.384372192 0.122830158 54.75690736 0.729483647 75.13357331 0.037166167 3.00E-14 13.52284627 -2.142374523 HFNYPST(ph)PPSER ddPTM_HeLa_SAHA_4h_R1 1 HFNYPSTPPSER 12 0 Q9BX63;Q9BX63-2 Q9BX63 BRIP1 Fanconi anemia group J protein 1 0 HFNYPS(0.186)T(0.725)PPS(0.089)ER 101.75 0.0062451 5995500 2857.9 2809.8 2395.3 2988.2 3368.4 3059.2 3158.4 3078.4 2869.4 3301.7 TRUE FALSE FALSE 3158.507035 2900.839364 2721.71901 3046.040932 3110.31392 2798.538949 2803.00852 2999.658985 2849.431612 3444.052445 0.917090284 0.842275026 0.790266424 0.884435118 0.903097142 0.812571526 0.81386929 0.870967859 0.827348496 1 11.7498914 -7.912007669 0.786697837 0.987364802 0.842605077 0 0.06170324 0.212845792 0.287667506 0.012242125 0.009535681 1.22E-08 7.912007669 -0.144759725 HFPNIDR ddPTM_HeLa_SAHA_4h_R1 2 HFPNIDR 7 0 Q14204;A0A2R8Y706;A0A2R8YFZ7;A0A2R8Y6H2 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 ; ; 122.74 0.0012949 2664400 168.209 0 0 121.6 259.34 252.003 143.19 239.47 183.318 126.942 FALSE FALSE TRUE 185.9019944 0 0 123.9537438 239.4694252 230.5309267 127.0778843 233.3447041 182.0422751 132.4150909 1.403933594 0 0 0.936099828 1.808475331 1.740971706 0.959693367 1.76222138 1.374784958 1 7.04892374 -5.776657835 24.74526942 0.980814613 1.536767883 0.309269657 0.525354464 286.5278228 465895.2961 0.087552748 0.159153291 1.67E-06 5.776657835 0.55595327 HFS(ph)QEPR ddPTM_HeLa_SAHA_4h_R1 1 HFSQEPR 7 0 Q9Y4G2 Q9Y4G2 PLEKHM1 Pleckstrin homology domain-containing family M member 1 1 0 HFS(1)QEPR 104.42 0.011036 4049900 1740.6 1851.6 2055.9 1669.6 2572.3 1464.9 2541.6 1675.5 1506 1677.4 TRUE FALSE FALSE 1923.684294 1911.593055 2336.067345 1701.917522 2375.21093 1340.082279 2255.612479 1632.643136 1495.519623 1749.720923 1.099423496 1.092513114 1.335108539 0.972679414 1.357479869 0.76588344 1.289126997 0.933087737 0.854718946 1 10.77290912 -8.800231567 0.878478132 1.005515839 1.110712461 0.099512019 0.18358148 1.305628288 1.977379394 0.077322402 0.031840343 1.58E-09 8.800231567 0.105196622 HFSGLEEAVYR ddPTM_HeLa_SAHA_4h_R1 1 HFSGLEEAVYR 11 0 P50990-2;P50990;H7C4C8 P50990-2 CCT8 T-complex protein 1 subunit theta 0 0 147.28 0.00068369 2291000 772.03 953.22 987.48 1579.3 1171.9 777.33 1189.5 1339.5 1449.7 967.19 FALSE FALSE TRUE 853.2356576 984.1049534 1122.048632 1609.869635 1082.109275 711.0971109 1055.654329 1305.23753 1439.61142 1008.890294 0.845716985 0.975433066 1.112161192 1.595683539 1.072573779 0.704830956 1.046351953 1.293735837 1.426925631 1 9.97855359 -6.812590942 4.368552618 0.92693838 1.132175394 0 0.264014042 0.302504514 12.06149846 0.036443277 0.049159153 1.54E-07 6.812590942 0.205237013 HFSQS(ph)EETGNEVFGALNEEQPLPR ddPTM_HeLa_SAHA_4h_R1 2 HFSQSEETGNEVFGALNEEQPLPR 24 0 A0A1B0GUI1;Q6GYQ0-3;Q6GYQ0-4;Q6GYQ0;Q6GYQ0-7;Q6GYQ0-5;Q6GYQ0-6;Q6GYQ0-2 A0A1B0GUI1 RALGAPA1 Ral GTPase-activating protein subunit alpha-1 1 0 HFS(0.313)QS(0.686)EET(0.002)GNEVFGALNEEQPLPR;HFS(0.44)QS(0.555)EET(0.005)GNEVFGALNEEQPLPR ; 180.79 9.97E-12 34618000 2105.17 2766.6 1843.69 2436.73 2475.8 1593.16 2590.15 2395.29 2525.35 2264.65 TRUE FALSE FALSE 2326.601439 2856.239655 2094.938472 2483.896433 2286.104739 1457.413805 2298.699505 2334.02195 2507.775884 2362.290144 0.984892328 1.209097732 0.886825218 1.051478134 0.967749345 0.616949535 0.973080936 0.988033564 1.061586736 1 11.20597046 -5.504182712 24.73223004 1.005708322 0.85766433 0.271220764 0.122247434 697.2284883 922334.5836 0.016265055 0.035785687 3.13E-06 5.504182712 -0.148043992 HFSTESVPDEEGRQS(ph)PAMRPR ddPTM_HeLa_SAHA_4h_R1 1 HFSTESVPDEEGRQSPAMRPR 21 2 Q6P0Q8-2;Q6P0Q8;A0A669KBJ4;V9GXZ1 Q6P0Q8-2 MAST2 Microtubule-associated serine/threonine-protein kinase 2 1 0 HFSTESVPDEEGRQS(1)PAMRPR 59.252 0.010908 257510000 470.79 824.23 1045.3 2639.5 516.48 501.15 783.27 1369.9 1566.7 688.42 TRUE FALSE FALSE 520.3098523 850.9355928 1187.74804 2690.591339 476.907414 458.4492006 695.1343981 1334.859942 1555.797207 718.1011552 0.724563452 1.18498012 1.654012156 3.746813829 0.664122889 0.638418692 0.968017379 1.858874522 2.166543245 1 9.488043273 -6.971554964 4.145301287 0.871992294 1.569023204 0 0.927214213 0.346867135 13.52986596 0.141432413 0.18444922 1.07E-07 6.971554964 0.69703091 HGAPAAPS(ph)PPPR ddPTM_HeLa_SAHA_4h_R1 2 HGAPAAPSPPPR 12 0 Q4KMP7 Q4KMP7 TBC1D10B TBC1 domain family member 10B 1 0 HGAPAAPS(1)PPPR;HGAPAAPS(1)PPPR ; 111.07 0.00227 18465600 5931.7 7141.4 6048.3 6977.5 7749 6243.8 8338.3 7942 7930.1 7407.8 TRUE FALSE FALSE 6555.623422 7372.786046 6872.530826 7112.559602 7155.273294 5711.793113 7400.052539 7738.85514 7874.913788 7727.186511 0.848384262 0.954135899 0.889396266 0.92045916 0.925986876 0.739181474 0.957664543 1.001510075 1.019117861 1 12.91572751 -9.520021059 1.251469427 1.00045745 0.896863767 0.261267879 0.068725849 0.544869396 1.516856929 0.048501384 0.011435155 3.02E-10 9.520021059 -0.103593683 HGCFSVSS(ph)VLSS(ph)TIRETGK ddPTM_HeLa_SAHA_4h_R1 1 HGCFSVSSVLSSTIRETGK 19 1 K7EQT8 K7EQT8 HAUS1 2 0 HGCFS(0.289)VS(0.339)S(0.367)VLS(0.024)S(0.363)T(0.334)IRET(0.284)GK 40.012 0.019315 7180800 5326.5 1989.6 4693.4 4434.3 4358.9 1087.5 5181.7 3941.6 1258.6 3700.4 TRUE FALSE FALSE 5886.765709 2054.064345 5332.99211 4520.132289 4024.922024 994.8388819 4598.641479 3840.779579 1249.8413 3859.942353 1.525091613 0.532148969 1.381624807 1.171036216 1.042741486 0.257734129 1.191375688 0.995035477 0.323797919 1 11.91436359 -5.515867247 23.23930357 1.196672686 0.818690675 0 0.432385203 158.125219 524096.0799 0.050383572 0.104228183 3.05E-06 5.515867247 -0.377982011 HGDPGDAAQQEAK ddPTM_HeLa_SAHA_4h_R1 2 HGDPGDAAQQEAK 13 0 O14737;O14737-2;K7ESJ4;Q3HM38;X6R2P6 O14737 PDCD5 Programmed cell death protein 5 0 0 ; ; 114.72 0.00040063 318680 3454.08 3628.85 3861.96 3596.57 3798.75 3613.09 4257.77 3418.29 3478.92 3456.24 FALSE FALSE TRUE 3817.395982 3746.427121 4388.247797 3666.186813 3507.690596 3305.234405 3778.674514 3330.855091 3454.709912 3605.255421 1.058842034 1.039157198 1.217180833 1.016900714 0.972938166 0.916782313 1.048101749 0.923888796 0.958242762 1 11.81588576 -5.85112417 4.714754405 1.045191759 0.967903739 0.251169608 0.071172202 0.251570829 9.797646099 0.010185125 0.018979965 1.41E-06 5.85112417 -0.07728802 HGEEVS(ph)PAASDLAMVLTR ddPTM_HeLa_SAHA_4h_R1 1 HGEEVSPAASDLAMVLTR 18 0 A0A087WXN9;Q765P7 A0A087WXN9 MTSS1L MTSS1-like protein 1 0 HGEEVS(0.998)PAAS(0.002)DLAMVLTR 58.758 0.022631 1382300 641.64 658.38 463.01 511.78 697.72 332.1 598.1 480.68 513.83 595.47 TRUE FALSE FALSE 709.1306391 679.711944 526.1065915 521.6862419 644.2608443 303.8032117 530.8002139 468.3849016 510.2542152 621.1436259 1.14165325 1.094291104 0.846996684 0.839880215 1.037217187 0.489103001 0.854553105 0.754068596 0.821475411 1 9.278783088 -6.181679704 1.000516158 1.069537542 0.744443063 0.282586201 0.153469607 0.314120472 0.62064713 0.023432046 0.052572873 6.58E-07 6.181679704 -0.325094479 HGEIDYEAIVK ddPTM_HeLa_SAHA_4h_R1 2 HGEIDYEAIVK 11 0 A0A087X2I1;P62333 A0A087X2I1 PSMC6 26S protease regulatory subunit 10B 0 0 ; ; 128.81 0.0015782 9795800 9666 9390.5 9719 10649.5 9824.3 9149.6 10582.9 10280.6 10098.2 9570.4 FALSE FALSE TRUE 10682.71423 9694.758361 11043.45471 10855.63647 9071.564256 8370.002606 9392.084239 10017.63714 10027.9258 9983.02678 1.070087706 0.971124146 1.106223087 1.087409331 0.90869878 0.838423335 0.940805273 1.00346692 1.004497536 1 13.28526158 -5.749463703 24.99116904 1.038191576 0.918100792 0.527101868 0.054221525 139.2684961 290627.3909 0.008168254 0.01623455 1.78E-06 5.749463703 -0.120090784 HGESAWNLENR ddPTM_HeLa_SAHA_4h_R1 3 HGESAWNLENR 11 0 P18669 P18669 PGAM1 Phosphoglycerate mutase 1 0 0 ;; ;; 169.21 0.00011688 56675000 6714.9 7450 5915.1 8210.7 10119.1 6865.4 9305 5970.8 7206.9 7122.1 FALSE FALSE TRUE 7421.203991 7691.384888 6721.179023 8369.629971 9343.776744 6280.429296 8257.976911 5818.075582 7156.746596 7429.168586 0.998927929 1.035295511 0.904701374 1.126590395 1.257714997 0.845374449 1.111561383 0.783139528 0.963330757 1 12.85898505 -4.24539741 23.38655966 1.016568227 0.78313909 0.296207761 0.111746358 1164.417948 1697461.503 0.01414114 0.441602895 5.68E-05 4.24539741 -0.233429137 HGEVCPAGWKPGSDTIK(ac)PDVQK ddPTM_HeLa_SAHA_4h_R1 2 HGEVCPAGWKPGSDTIKPDVQK 22 2 Q06830;A0A0A0MRQ5 Q06830 PRDX1 Peroxiredoxin-1 0 1 ; HGEVCPAGWK(0.158)PGSDTIK(0.842)PDVQK;HGEVCPAGWK(0.001)PGSDTIK(0.999)PDVQK 46.962 0.016155 7990900 1744.01 5698.4 2231.05 2461.61 5080.8 3361.25 4542.5 3983.5 4417 1445.01 FALSE TRUE FALSE 1927.452974 5883.031899 2535.085875 2509.258021 4691.510202 3074.85259 4031.365945 3881.607838 4386.261737 1507.311453 1.278735705 3.902996881 1.68185936 1.664724312 3.112502193 2.039958354 2.674540777 2.575186323 2.90999032 1 10.55776183 -7.485463532 23.66444901 1.122970567 2.47537974 0.030122517 0.847268089 139.0645942 87956.87794 0.102478958 0.114691488 3.27E-08 7.485463532 1.352409173 HGEVCPAGWKPGSDTIKPDVQK ddPTM_HeLa_SAHA_4h_R1 1 HGEVCPAGWKPGSDTIKPDVQK 22 2 Q06830;A0A0A0MRQ5 Q06830 PRDX1 Peroxiredoxin-1 0 0 41.988 0.015986 8404000 8644.5 9248.3 6845.2 8464.3 9069.5 7878.2 9320.9 7456 9979.6 9284.9 FALSE FALSE TRUE 9553.768172 9547.950988 7778.028208 8628.138766 8374.596869 7206.933038 8272.087801 7265.286316 9910.151151 9685.217478 0.986427842 0.985827217 0.803082453 0.890856482 0.864678247 0.7441168 0.854094172 0.750141784 1.023224432 1 13.24156873 -6.557438399 0.832853231 0.99945221 0.796106088 0.755663937 0.049097408 0.192869171 0.26762355 0.00922214 0.017160106 2.77E-07 6.557438399 -0.203346122 HGGPGPGGPEPELS(ph)PITEGSEAR ddPTM_HeLa_SAHA_4h_R1 2 HGGPGPGGPEPELSPITEGSEAR 23 0 Q8WUF5 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 HGGPGPGGPEPELS(0.996)PIT(0.004)EGSEAR;HGGPGPGGPEPELS(0.992)PIT(0.007)EGS(0.001)EAR ; 178.46 5.56E-11 25312000 2506.12 2731.69 2547.25 2200.01 2929.5 1852.71 2750.25 2601.71 2739.67 2511.09 TRUE FALSE FALSE 2769.7252 2820.198548 2894.375964 2242.594375 2705.042343 1694.848685 2440.784632 2535.162025 2720.604413 2619.355379 1.057407186 1.076676564 1.104995522 0.856162701 1.032712997 0.64704801 0.931826453 0.967857224 1.03865418 1 11.35499609 -6.252324995 24.91982119 1.03761414 0.884356084 0.418581841 0.098091508 515.6106056 1409740.158 0.01428341 0.023477929 5.59E-07 6.252324995 -0.153258056 HGGS(ph)PQPLAT(ph)TPLSQEPVNPPS(ph)EASPTR ddPTM_HeLa_SAHA_4h_R1 1 HGGSPQPLATTPLSQEPVNPPSEASPTR 28 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 3 0 HGGS(1)PQPLAT(0.682)T(0.26)PLS(0.058)QEPVNPPS(0.601)EAS(0.334)PT(0.066)R 85.939 5.80E-06 10022000 132.34 152.39 0 146.43 200.95 0 0 162.32 310.89 0 TRUE FALSE FALSE 146.2601284 157.327536 0 149.2643644 185.5532544 0 0 158.1680894 308.7264912 0 0 HGGS(ph)PQPLAT(ph)TPLSQEPVNPPSEAS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 1 HGGSPQPLATTPLSQEPVNPPSEASPTR 28 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 3 0 HGGS(0.998)PQPLAT(0.501)T(0.501)PLSQEPVNPPS(0.431)EAS(0.455)PT(0.113)R 132.93 1.53E-10 9519300 691.35 1307.3 837.26 866.07 1236.6 704.77 1175.9 1190.3 1414.6 728.63 TRUE FALSE FALSE 764.069365 1349.657378 951.3574325 882.8340372 1141.851975 644.7196311 1043.584637 1159.85385 1404.755683 760.0448051 1.005295161 1.775760282 1.251712302 1.161555255 1.50234824 0.848265295 1.373056733 1.52603352 1.848253779 1 9.569940659 -7.442427138 24.99999993 1.002325144 1.329792872 0 0.353682685 88.00888177 27347.82656 0.037637252 0.043039686 3.61E-08 7.442427138 0.327467728 HGGS(ph)PQPLATTPLSQEPVNPPSEAS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 3 HGGSPQPLATTPLSQEPVNPPSEASPTR 28 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 HGGS(1)PQPLATTPLSQEPVNPPS(0.205)EAS(0.484)PT(0.311)R;HGGS(0.999)PQPLATTPLSQEPVNPPS(0.313)EAS(0.552)PT(0.135)R;HGGS(1)PQPLATTPLSQEPVNPPS(0.036)EAS(0.602)PT(0.362)R ;; 193.69 5.49E-19 153986000 1485.04 2243.27 1788.6 1783.06 2201.9 1577.67 2415.1 2016.05 3385.18 2349.79 TRUE FALSE FALSE 1641.243321 2315.95342 2032.341093 1817.573705 2033.190898 1443.24364 2143.346592 1964.48236 3361.622257 2451.100946 0.66959434 0.944862521 0.829154383 0.741533598 0.829501086 0.588814444 0.874442399 0.801469382 1.371474423 1 11.25921419 -9.52042192 1.233117235 1.001848892 0.774464827 0.428633286 0.154448376 0.363684797 0.976953284 0.070714494 0.016410768 3.02E-10 9.52042192 -0.227384065 HGGS(ph)PQPLATTPLSQEPVNPPSEASPT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 HGGSPQPLATTPLSQEPVNPPSEASPTR 28 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 HGGS(0.997)PQPLAT(0.002)T(0.001)PLSQEPVNPPS(0.045)EAS(0.262)PT(0.692)R 115.93 3.44E-08 45456000 445.94 710.75 696.39 714.51 760.36 460.89 790.38 386.55 938.51 664.21 TRUE FALSE FALSE 492.8460152 733.7787663 791.2904026 728.3403742 702.1013811 421.6195791 701.4443622 376.6626107 931.9788325 692.8473437 0.711334206 1.059077116 1.142084775 1.051227779 1.013356532 0.60853171 1.012408244 0.543644447 1.345143113 1 9.436393705 -4.250338973 23.78528417 0.905639201 0.543644024 0.199402474 0.21254255 891.5805384 1910351.529 0.02493969 0.481562072 5.62E-05 4.250338973 -0.361995176 HGGSPQPLATTPLSQEPVNPPS(ph)EASPTR ddPTM_HeLa_SAHA_4h_R1 2 HGGSPQPLATTPLSQEPVNPPSEASPTR 28 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 HGGSPQPLATTPLSQEPVNPPS(0.865)EAS(0.105)PT(0.03)R;HGGSPQPLATTPLS(0.001)QEPVNPPS(0.558)EAS(0.355)PT(0.086)R ; 133.88 2.17E-10 18492700 1444.53 2437.66 1295.84 2311.25 2918.33 3863.44 2552.88 2372.48 3285.78 2407.68 TRUE FALSE FALSE 1596.472293 2516.641783 1472.430327 2355.987586 2694.728186 3534.253177 2265.623224 2311.795397 3262.913989 2511.486868 0.635668183 1.002052535 0.58627833 0.938084772 1.072961289 1.40723538 0.902104348 0.920488746 1.299196118 1 11.29432602 -5.917853733 4.199987848 0.820792319 1.085218119 0.051224853 0.234332153 0.224722635 7.559090782 0.029942516 0.055558423 1.21E-06 5.917853733 0.2644258 HGGSPQPLATTPLSQEPVNPPSEAS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 2 HGGSPQPLATTPLSQEPVNPPSEASPTR 28 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 HGGSPQPLATTPLSQEPVNPPS(0.354)EAS(0.468)PT(0.178)R;HGGSPQPLATTPLSQEPVNPPS(0.182)EAS(0.409)PT(0.409)R ; 115.61 3.72E-08 17849900 1061.65 1610.73 1009.64 1412.94 1821.94 2326.65 1490.74 1589.61 2344.33 1813.14 TRUE FALSE FALSE 1173.319218 1662.918709 1147.228481 1440.289497 1682.343351 2128.406331 1322.998012 1548.950078 2328.015617 1891.313339 0.620372729 0.879240195 0.606577693 0.761528757 0.889510647 1.125358917 0.699512865 0.818981205 1.230898957 1 10.88517268 -5.745144009 23.51772591 0.799886816 0.887497402 0 0.199948392 332.2617567 479518.4499 0.026292657 0.052429237 1.80E-06 5.745144009 0.087610586 HGGVCAPAAVAT(ph)SPPGAIPK ddPTM_HeLa_SAHA_4h_R1 2 HGGVCAPAAVATSPPGAIPK 20 0 A0A494BZT8;Q9Y6A5;E7EMT0 A0A494BZT8 TACC3 Transforming acidic coiled-coil-containing protein 3 1 0 HGGVCAPAAVAT(0.858)S(0.142)PPGAIPK;HGGVCAPAAVAT(0.719)S(0.281)PPGAIPK ; 85.737 0.0023126 20741400 13240.9 12779.3 11821.2 14298.9 15406.3 15294.4 15188.2 14908.3 15535.2 13360.2 TRUE FALSE FALSE 14633.63861 13193.3577 13432.13157 14575.67589 14225.87262 13991.23108 13479.18376 14526.96727 15427.08928 13936.22361 1.050043328 0.946695323 0.963828649 1.045884186 1.020783896 1.003947086 0.9672049 1.042389078 1.106977738 1 13.76655206 -7.356377864 21.36778322 1.023631136 0.998934212 0.167484282 0.042150049 27.95482606 6285.509158 0.0060921 0.006966501 4.40E-08 7.356377864 -0.024696924 HGGVCAPAAVATS(ph)PPGAIPK ddPTM_HeLa_SAHA_4h_R1 3 HGGVCAPAAVATSPPGAIPK 20 0 A0A494BZT8;Q9Y6A5;E7EMT0 A0A494BZT8 TACC3 Transforming acidic coiled-coil-containing protein 3 1 0 HGGVCAPAAVAT(0.163)S(0.837)PPGAIPK;HGGVCAPAAVAT(0.085)S(0.915)PPGAIPK;HGGVCAPAAVAT(0.19)S(0.81)PPGAIPK ;; 115.39 0.00023473 30828700 14788.2 13505.9 13088.9 14724.5 16461.1 15533.7 16325.9 15949.7 16028.8 14052.4 TRUE FALSE FALSE 16343.69073 13943.50002 14872.58713 15009.51399 15199.85407 14210.14137 14488.86676 15541.72977 15917.25428 14658.26773 1.114981048 0.951237914 1.014621059 1.02396233 1.036947499 0.969428423 0.988443316 1.060270562 1.085889176 1 13.839427 -7.257458696 24.99700648 1.054296606 1.006466769 0.303344806 0.040709013 484.2387604 3040828.375 0.008465321 0.010167373 5.53E-08 7.257458696 -0.047829837 HGIVEDWDLMER ddPTM_HeLa_SAHA_4h_R1 4 HGIVEDWDLMER 12 0 B4DXW1;P61158;F8WDR7 B4DXW1 ACTR3 Actin-related protein 3 0 0 ;;; ;;; 199.8 2.98E-10 32706300 12041.6 11843.6 12830 12512.4 14309.6 9293.18 15390.6 8898.7 14900.4 13222.7 FALSE FALSE TRUE 13308.19074 12227.34041 14578.40558 12754.5956 13213.20154 8501.348782 13658.80918 8671.084139 14796.7069 13792.79531 0.964865384 0.886501984 1.056958018 0.924728839 0.957978513 0.616361556 0.990285789 0.628667645 1.072785217 1 13.75162725 -5.397009019 8.140691825 0.975971555 0.770000268 0.489925725 0.109272766 0.174061574 10.74949011 0.01306272 0.02927569 4.01E-06 5.397009019 -0.205971287 HGLAHDEMKS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 HGLAHDEMKSPR 12 1 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 HGLAHDEMKS(1)PR;HGLAHDEMKS(1)PR;HGLAHDEMKS(1)PR;HGLAHDEMKS(1)PR ;;; 70.977 0.014923 52914100 14352.3 15908.2 13605.8 14980.2 17193.1 2930.75 16321.8 12991.6 21981.6 16864.6 TRUE FALSE FALSE 15861.94076 16423.63612 15459.92757 15270.16343 15875.76839 2681.033612 14485.22811 12659.29368 21828.62826 17591.71544 0.901671063 0.933600602 0.878818647 0.868031517 0.902457094 0.152403193 0.823411916 0.719616784 1.240847053 1 14.10260855 -5.48404799 24.94111301 0.937086847 0.580380544 0.469678048 0.191643985 315.5166198 202657.0419 0.022308153 0.049873344 3.28E-06 5.48404799 -0.356706304 HGLLLPAS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 1 HGLLLPASPVR 11 0 Q96E09 Q96E09 FAM122A Protein FAM122A 1 0 HGLLLPAS(1)PVR 74.769 0.023102 3694500 3335.7 3594 4916.8 3614.3 3521.7 1471 4603.7 1490.4 553.74 2043.3 TRUE FALSE FALSE 3686.564231 3710.447958 5586.835898 3684.260003 3251.868107 1345.662524 4085.67956 1452.277726 549.8864783 2131.396663 1.729647182 1.740852852 2.621208898 1.728566093 1.525698226 0.631352459 1.916902485 0.681373745 0.257993497 1 11.05758339 -5.415544978 21.86074022 1.520701686 1.146886644 0.083052854 0.654786789 23.53219587 4772.078179 0.083463799 0.186630938 3.84E-06 5.415544978 -0.373815042 HGLQLGAQS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 2 HGLQLGAQSPGR 12 0 Q8N1G0;A6PVV7 Q8N1G0 ZNF687 Zinc finger protein 687 1 0 HGLQLGAQS(1)PGR;HGLQLGAQS(1)PGR ; 131.32 0.00099615 12414000 2322.66 2189.26 1750.5 2357.53 2155.31 2304.3 2388.39 2497.75 2427.8 2353.6 TRUE FALSE FALSE 2566.968036 2260.19346 1989.049024 2403.163402 1990.170613 2107.960676 2119.642071 2433.861172 2410.904742 2455.075214 1.045576128 0.920620862 0.810178447 0.978855307 0.810635292 0.858613481 0.863371541 0.991359107 0.982008506 1 11.26155151 -7.132637832 4.558584135 1.021294454 0.88290116 0.458667945 0.059406098 0.121274803 3.996270799 0.009240624 0.011398956 7.37E-08 7.132637832 -0.138393294 GSK(ac)K(ac)AVTK(ac)VQK ddPTM_HeLa_SAHA_4h_R1 2 GSKKAVTKVQK 11 3 Q5QNW6;Q5QNW6-2 Q5QNW6 HIST2H2BF Histone H2B type 2-F 0 3 ; GSK(1)K(1)AVTK(1)VQK;GSK(1)K(1)AVTK(1)VQK 193.62 3.57E-24 19342900 861.76 1393.07 1689.07 4987.1 6444.2 7973.8 6862.4 5901.5 1175.57 565.46 FALSE TRUE FALSE 952.4038707 1438.206382 1919.247663 5083.632532 5950.446788 7294.387381 6090.224691 5750.548175 1167.389113 589.8397479 1.614682419 2.438300211 3.25384593 8.618667274 10.08824314 12.36672741 10.3252192 9.749339877 1.979163183 1 9.204179235 -6.254876315 1.669734424 1.334230277 10.84676823 0.969258839 0.738249951 0.039006016 0.212373716 0.118095984 0.214216109 5.56E-07 6.254876315 9.512537956 up HGNPEEEEWLTAER ddPTM_HeLa_SAHA_4h_R1 1 HGNPEEEEWLTAER 14 0 Q93008;Q93008-3 Q93008 USP9X Probable ubiquitin carboxyl-terminal hydrolase FAF-X 0 0 125.73 0.00074016 1573300 632.89 697.24 630.06 826.76 821.75 535.44 779.75 924.41 617.58 739.04 FALSE FALSE TRUE 699.460274 719.8310335 715.9212956 842.7631353 758.7876925 489.8174997 692.0104778 900.7649307 613.2822105 770.9036312 0.907325178 0.933749699 0.928678069 1.09321464 0.984283459 0.635380974 0.897661458 1.16845335 0.795536803 1 9.590406713 HGS(ph)GADSDYENTQSGDPLLGLEGK ddPTM_HeLa_SAHA_4h_R1 2 HGSGADSDYENTQSGDPLLGLEGK 24 0 J3QRU8;A0A0C4DGN6;Q9Y2X7;Q9Y2X7-3;J3QL89 J3QRU8 GIT1 ARF GTPase-activating protein GIT1 1 0 HGS(0.799)GADS(0.201)DYENTQSGDPLLGLEGK;HGS(0.999)GADS(0.001)DYENTQSGDPLLGLEGK ; 188.86 5.57E-16 18438400 3712.9 5258.2 3204.1 4969.8 6741.8 1871.26 5708.1 5766.4 5962.3 4987.8 TRUE FALSE FALSE 4103.439857 5428.56913 3640.738062 5065.997665 6225.24474 1711.818121 5065.809565 5618.903838 5920.807869 5202.848468 0.788691019 1.043384055 0.69975862 0.973696946 1.196507025 0.329015564 0.973660793 1.079966844 1.137993525 1 12.34508597 -9.606452543 1.404472248 1.000077017 0.869135798 0.068063467 0.234866994 1.263443632 4.46884288 0.155125267 0.035666519 2.47E-10 9.606452543 -0.130941219 HGS(ph)GADSDYENTQSGDPLLGLEGKR ddPTM_HeLa_SAHA_4h_R1 1 HGSGADSDYENTQSGDPLLGLEGKR 25 1 J3QRU8;A0A0C4DGN6;Q9Y2X7;Q9Y2X7-3;J3QL89 J3QRU8 GIT1 ARF GTPase-activating protein GIT1 1 0 HGS(0.929)GADS(0.071)DYENTQSGDPLLGLEGKR 90.166 1.78E-05 5760200 1634.2 1586.3 1379.7 1423 2107.8 706.51 1962 2311.9 1366.3 1529.4 TRUE FALSE FALSE 1806.092654 1637.697161 1567.718331 1450.544223 1946.300819 646.3113733 1741.230596 2252.764946 1356.791807 1595.339919 1.132105223 1.026550606 0.98268608 0.909238342 1.219991299 0.405124554 1.091448021 1.412090877 0.850471922 1 10.63964814 -6.964502306 5.12286607 1.063216318 0.986564331 0 0.25390696 0.781273012 51.11312007 0.038972207 0.050982211 1.09E-07 6.964502306 -0.076651987 HGS(ph)PEFCGILGER ddPTM_HeLa_SAHA_4h_R1 2 HGSPEFCGILGER 13 0 Q15464 Q15464 SHB SH2 domain-containing adapter protein B 1 0 HGS(1)PEFCGILGER;HGS(1)PEFCGILGER ; 168.1 2.56E-05 20758100 6722.8 8345.1 6797.3 7536.1 7922.3 2923.3 8614.4 6536 9021.3 7061.2 TRUE FALSE FALSE 7429.934949 8615.486715 7723.600645 7681.972113 7315.295086 2674.218394 7645.08504 6368.818584 8958.520039 7365.642889 1.008728642 1.16968564 1.048598305 1.042946587 0.993164507 0.363066529 1.037938596 0.864665676 1.216257722 1 12.84659574 -5.488113988 24.98906698 1.023904104 0.765931813 0.386437278 0.174946504 493.7044513 354876.6736 0.021840431 0.048814372 3.25E-06 5.488113988 -0.257972291 HGS(ph)YEDAVHSGALND ddPTM_HeLa_SAHA_4h_R1 2 HGSYEDAVHSGALND 15 0 P17987;E7EQR6;F5H282 P17987 TCP1 T-complex protein 1 subunit alpha 1 0 HGS(1)YEDAVHSGALND;HGS(0.998)YEDAVHS(0.002)GALND ; 104.09 0.0031252 11230200 2082.55 2371.9 1767.82 2692.8 2423.2 1174.36 2266.4 2518.1 3501.7 2630.1 TRUE FALSE FALSE 2301.602164 2448.751116 2008.729303 2744.923038 2237.53494 1074.297921 2011.378707 2453.690648 3477.331385 2743.496482 0.838930241 0.892565794 0.73217856 1.000519977 0.815577842 0.391579843 0.733144263 0.894366245 1.267481627 1 11.42180001 -7.652195446 0.210160945 1.072193004 0.65114443 0.361478328 0.171714029 2.657937937 0.497441255 0.452497023 0.367338017 2.23E-08 7.652195446 -0.421048574 HGT(ph)PDPSPR ddPTM_HeLa_SAHA_4h_R1 1 HGTPDPSPR 9 0 Q9BRD0;Q9BRD0-2 Q9BRD0 BUD13 BUD13 homolog 1 0 HGT(1)PDPSPR 104.42 0.01398 1797200 2070.2 1587.8 1841 2702.5 2187.3 1582.7 2037.6 2298.8 2364.9 2359.8 TRUE FALSE FALSE 2287.953134 1639.245762 2091.881892 2754.810795 2019.709547 1447.845056 1808.323885 2240.000025 2348.442468 2461.542527 0.929479426 0.665942491 0.849825615 1.119140037 0.820505648 0.588186083 0.734630365 0.909998507 0.954053177 1 11.26534695 -7.2715612 0.272938043 1.035399008 0.739375907 0.161073255 0.139440759 1.932372186 0.510500462 0.192998083 0.215738286 5.35E-08 7.2715612 -0.2960231 HGVIVAADSR ddPTM_HeLa_SAHA_4h_R1 1 HGVIVAADSR 10 0 P28074;H0YJM8;P28074-2 P28074 PSMB5 Proteasome subunit beta type-5 0 0 82.831 0.0067077 0 2642.3 2765.6 3124.7 2217.4 2957.9 1831.9 3466.2 1516.5 1612.6 2311 FALSE FALSE TRUE 2920.229237 2855.207255 3550.517843 2260.320983 2731.266341 1675.811814 3076.174053 1477.710126 1601.377785 2410.63852 1.211392423 1.184419493 1.472853692 0.937644099 1.133005351 0.695173416 1.276082676 0.612995318 0.664296108 1 11.23519962 -5.313052811 24.75950581 1.126610606 0.90288355 0.119108528 0.257368329 358.8356565 172136.6444 0.029010189 0.064868817 4.86E-06 5.313052811 -0.223727056 HGYIGEFEIIDDHR ddPTM_HeLa_SAHA_4h_R1 4 HGYIGEFEIIDDHR 14 0 I3L3P7;I3L246;H3BN98;P62244 I3L3P7 RPS15A 40S ribosomal protein S15a 0 0 ;;; ;;; 169.09 1.56E-06 78271800 8943.9 8834.7 8284.8 11417.2 11569.8 2887.37 11620.3 8699.7 12058.9 10691.9 FALSE FALSE TRUE 9884.660438 9120.950077 9413.809399 11638.19642 10683.32442 2641.349832 10312.75326 8477.174271 11974.98113 11152.88013 0.886287696 0.817811181 0.844069808 1.043514884 0.957898255 0.236831186 0.924671756 0.760088351 1.073711991 1 13.4451287 -5.759856305 0.258651359 1.002611471 0.606156482 0.213420711 0.200966852 5.765141079 0.619121926 0.175494641 0.736901031 1.74E-06 5.759856305 -0.396454989 HHEDNLLR ddPTM_HeLa_SAHA_4h_R1 4 HHEDNLLR 8 0 O75643 O75643 SNRNP200 U5 small nuclear ribonucleoprotein 200 kDa helicase 0 0 ;;; ;;; 171.38 1.36E-06 6410760 1092.26 930.66 1116.08 1428.7 1358.31 125.25 1160.31 839.409 1000.8 1357.85 FALSE FALSE TRUE 1207.148918 960.8139946 1268.17357 1456.354554 1254.236581 114.5779954 1029.748865 817.9381332 993.8353513 1416.393559 0.852269421 0.678352417 0.895353952 1.028213201 0.88551418 0.08089418 0.727021709 0.577479422 0.701666105 1 10.46800647 -5.475266035 24.48690827 0.912680854 0.487467597 0.473681687 0.18845408 175.6409603 90330.70635 0.024521028 0.054829047 3.35E-06 5.475266035 -0.425213257 HHRWNCTTLDRDHTVFGRVMLR ddPTM_HeLa_SAHA_4h_R1 1 HHRWNCTTLDRDHTVFGRVMLR 22 3 Q5TEH8;Q93097-2;Q93097 Q5TEH8 WNT2B Protein Wnt;Protein Wnt-2b 0 0 56.553 0.023185 10634000 760.54 1224.1 1154.9 1415.2 1388.6 1660.3 1270.7 1366.7 902.79 510.09 FALSE FALSE TRUE 840.5370867 1263.761643 1312.283758 1442.593242 1282.205768 1518.833099 1127.717492 1331.741793 896.5074109 532.0824762 1.579712026 2.375123594 2.466316438 2.711221111 2.409787627 2.854506899 2.119441143 2.502886023 1.684903095 1 9.05550608 -7.470989237 1.110674906 1.162200366 2.538746559 0.764956604 0.266200338 0.100204268 0.247284549 0.049408541 0.053116555 3.38E-08 7.470989237 1.376546193 up HHTAAFEER ddPTM_HeLa_SAHA_4h_R1 1 HHTAAFEER 9 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;E9PMV1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 103.88 0.0088902 786660 0 0 0 146.47 150.06 0 52.734 0 0 118.34 FALSE FALSE TRUE 0 0 0 149.3051386 138.5624352 0 46.80023153 0 0 123.4422165 0 0 0 1.209514401 1.122488231 0 0.37912663 0 0 1 6.947692062 -9.510426663 1.29181161 0.996121328 0.320238519 0 0.536977856 0.553320531 1.667701757 0.322982864 0.0798509 3.09E-10 9.510426663 -0.67588281 HIADLAGNSEVILPVPAFNVINGGSHAGNK ddPTM_HeLa_SAHA_4h_R1 1 HIADLAGNSEVILPVPAFNVINGGSHAGNK 30 0 P06733;A0A2R8Y6G6;P06733-2;K7EM90;A0A2R8YEM5 P06733 ENO1 Alpha-enolase;Enolase 0 0 82.486 5.04E-07 2867200 1256.3 1410.8 1469.1 1042.9 1478.9 803.45 1677.7 787.4 1119.7 1324.1 FALSE FALSE TRUE 1388.443398 1456.510846 1669.301297 1063.086838 1365.587002 734.9915399 1488.920781 767.2594481 1111.907917 1381.188431 1.005252699 1.054534496 1.208597799 0.769689938 0.988704344 0.532144292 1.077999748 0.555506715 0.805037091 1 10.43169444 -5.884130101 1.929755598 1.018843451 0.773782287 0.250443904 0.185633384 0.290412968 2.189998949 0.023572221 0.049398797 1.31E-06 5.884130101 -0.245061164 HIAEEADR ddPTM_HeLa_SAHA_4h_R1 3 HIAEEADR 8 0 P67936;A0A2R8Y5V9;A0A2R8YH90;P67936-2;K7ENT6;A0A2R8YE05;A0A2R8YGX3;A0A2R8YHD2;A0A2R8YEU4;A0A5F9UN72;J3KN67;A0A2R2Y2Q3;P06753;A0A494C0P6;P06753-7;P06753-2;A0A087WWU8;P06753-5;P06753-3;P06753-6;P06753-4 P67936;J3KN67;P06753-2 TPM4;TPM3 Tropomyosin alpha-4 chain;Tropomyosin alpha-3 chain 0 0 ;; ;; 180.87 3.84E-07 20910400 1719.04 1343.22 2092.88 2864.22 1716.22 2346.38 3682.93 2862.95 2116.75 2114.6 FALSE FALSE TRUE 1899.856514 1386.741209 2378.086787 2919.66112 1584.723594 2146.455224 3268.517023 2789.719885 2102.019364 2205.770755 0.861311861 0.628687821 1.078120554 1.323646673 0.718444376 0.973108932 1.481802684 1.264736999 0.952963657 1 11.10706714 -4.801797028 8.125894969 0.935604069 1.372806859 0.461470995 0.186284996 0.134903394 24.04025963 0.025747593 0.078808718 1.58E-05 4.801797028 0.437202791 HIAEEADRKYEEVAR ddPTM_HeLa_SAHA_4h_R1 1 HIAEEADRKYEEVAR 15 2 P67936;A0A2R8Y5V9;A0A2R8YH90;P67936-2;K7ENT6;A0A2R8YE05;A0A2R8YGX3;A0A2R8YHD2;A0A2R8YEU4;A0A5F9UN72;J3KN67;A0A2R2Y2Q3;P06753;A0A494C0P6;P06753-7;P06753-2;A0A087WWU8;P06753-5;P06753-3;P06753-6;P06753-4 P67936;J3KN67;P06753-2 TPM4;TPM3 Tropomyosin alpha-4 chain;Tropomyosin alpha-3 chain 0 0 38.337 0.021995 13840000 2318 1250.5 2490.3 2090.7 2089.8 1477.8 2641.1 1881.8 1120.8 2326.3 FALSE FALSE TRUE 2561.817875 1291.01702 2829.665115 2131.168522 1929.679975 1351.883126 2343.916477 1833.666281 1113.000262 2426.598178 1.055723976 0.532027524 1.166103701 0.878253574 0.795220236 0.557110418 0.965926909 0.755653036 0.458666899 1 11.24471952 -6.75081012 0.634972923 1.027836353 0.775002661 0 0.256513682 0.795016301 0.662561589 0.045514211 0.079644306 1.77E-07 6.75081012 -0.252833691 HIDFSLR ddPTM_HeLa_SAHA_4h_R1 2 HIDFSLR 7 0 P46781 P46781 RPS9 40S ribosomal protein S9 0 0 ; ; 111.04 0.0022279 10622600 1769.95 1621.07 2270.2 2581.8 2324.5 1677.76 2834.6 1098.78 1166.87 1596.57 FALSE FALSE TRUE 1956.121462 1673.593732 2579.571033 2631.774472 2146.397312 1534.805409 2515.643348 1070.674799 1158.749657 1665.405946 1.174561353 1.00491639 1.548914269 1.580260043 1.288813287 0.921580359 1.510528621 0.642891183 0.695776102 1 10.70165816 -8.311746266 0.799832757 1.021443844 1.236871639 0.137184351 0.301217052 1.058868485 1.440957585 0.105973551 0.062018117 4.88E-09 8.311746266 0.215427796 HIDLVEGDEGR ddPTM_HeLa_SAHA_4h_R1 3 HIDLVEGDEGR 11 0 P19367-4;P19367-2;P19367;P19367-3 P19367-4 HK1 Hexokinase-1 0 0 ;; ;; 122.51 0.0021546 10024400 6468.48 6325.92 5581.84 5949.57 7596.73 6266.52 6862.64 6433.29 6235.87 6361.63 FALSE FALSE TRUE 7148.864405 6530.883959 6342.504086 6064.732531 7014.670189 5732.577242 6090.437686 6268.735757 6192.474073 6635.911002 1.077299621 0.984172928 0.955784983 0.91392614 1.057077195 0.863871929 0.917799784 0.944668449 0.933176179 1 12.69607882 -6.956004157 3.209270681 1.036457969 0.941413332 0.11431036 0.058964821 0.180901376 3.846061337 0.008664425 0.011393311 1.11E-07 6.956004157 -0.095044637 HIEDTGSTPS(ph)IGENDLK ddPTM_HeLa_SAHA_4h_R1 2 HIEDTGSTPSIGENDLK 17 0 Q6R327-3;Q6R327 Q6R327-3 RICTOR Rapamycin-insensitive companion of mTOR 1 0 HIEDTGS(0.001)T(0.204)PS(0.795)IGENDLK;HIEDTGS(0.001)T(0.006)PS(0.993)IGENDLK ; 233.52 4.52E-28 18272100 2583.94 2199.17 1994.33 2622.53 2654.85 2205.49 2784.34 3336.66 2528.81 2433.99 TRUE FALSE FALSE 2855.730665 2270.424551 2266.106906 2673.29286 2451.435967 2017.569844 2471.038735 3251.313069 2511.211805 2538.931221 1.124776694 0.894244213 0.892543637 1.052920551 0.965538549 0.79465321 0.973259423 1.280583358 0.98908225 1 11.3100056 -7.265672448 24.9687347 1.058922326 0.970774778 0.033354263 0.125874939 662.4842343 3907658.557 0.021426325 0.024964972 5.42E-08 7.265672448 -0.088147548 HIEIFTDLSSR ddPTM_HeLa_SAHA_4h_R1 1 HIEIFTDLSSR 11 0 P13010;C9JZ81 P13010 XRCC5 X-ray repair cross-complementing protein 5 0 0 79.23 0.018043 976140 225.23 253.17 492.23 455.69 375.49 346.36 397.89 282.26 447.4 511.89 FALSE FALSE TRUE 248.9207248 261.3728741 559.308541 464.5105389 346.7200373 316.8481794 353.11837 275.0401979 444.286507 533.960083 0.466178527 0.489498902 1.047472571 0.869934951 0.649336998 0.593393007 0.66131979 0.515095054 0.832059401 1 9.060588085 -9.542076095 1.323186509 0.998928186 0.647474224 0.230238298 0.176371523 0.415867399 1.310580464 0.129476724 0.031180668 2.87E-10 9.542076095 -0.351453963 HIEPELAGRDS(ph)PIR ddPTM_HeLa_SAHA_4h_R1 2 HIEPELAGRDSPIR 14 1 P86791;P86790 P86791 CCZ1;CCZ1B Vacuolar fusion protein CCZ1 homolog;Vacuolar fusion protein CCZ1 homolog B 1 0 HIEPELAGRDS(1)PIR;HIEPELAGRDS(1)PIR ; 149.6 4.82E-05 28942000 2251.8 2973.1 2209.1 2834 3333.9 2510.58 2845.5 2025.86 4245.4 2891.4 TRUE FALSE FALSE 2488.654656 3069.430391 2510.144644 2888.856168 3078.457302 2296.66446 2525.316851 1974.041435 4215.855916 3016.062404 0.825133675 1.01769459 0.832258855 0.957823739 1.020687536 0.761477765 0.837289324 0.65450948 1.397801289 1 11.55845056 -4.340895814 1.094970582 0.924028307 0.566104192 0.235926608 0.16901486 1.039093532 1.083350201 0.013194775 0.414122428 4.56E-05 4.340895814 -0.357924115 HIEPELAGRDS(ph)PIRAEMPGNLQHYGR ddPTM_HeLa_SAHA_4h_R1 2 HIEPELAGRDSPIRAEMPGNLQHYGR 26 2 P86791;P86790 P86791 CCZ1;CCZ1B Vacuolar fusion protein CCZ1 homolog;Vacuolar fusion protein CCZ1 homolog B 1 0 HIEPELAGRDS(1)PIRAEMPGNLQHYGR;HIEPELAGRDS(1)PIRAEMPGNLQHYGR ; 61.16 0.0015925 14291300 1966.43 1989.9 2031.77 2129.08 2499.35 1656.18 2268.19 2200.88 1859.72 2481.95 TRUE FALSE FALSE 2173.26813 2054.374066 2308.649035 2170.291422 2307.850343 1515.064147 2012.967292 2144.584676 1846.778057 2588.959011 0.839437056 0.793513554 0.891728693 0.838287286 0.891420194 0.58520206 0.777519954 0.82835791 0.713328426 1 11.33815641 -13.52287549 0.118632101 1.701620085 0.690331261 0 0.11944983 55.22431415 0.474287573 9.203897502 0.385576615 3.00E-14 13.52287549 -1.011288824 HIGISFTPK ddPTM_HeLa_SAHA_4h_R1 1 HIGISFTPK 9 0 Q14315-2;Q14315 Q14315-2 FLNC Filamin-C 0 0 78.113 0.018002 1957700 1232.5 1849.3 782.02 1598 2955.6 2459.2 2364.5 1837.1 1254.8 1958.3 FALSE FALSE TRUE 1362.140005 1909.218533 888.589613 1628.931601 2729.142567 2249.662325 2098.440237 1790.109642 1246.067745 2042.731897 0.666822703 0.934639801 0.435000606 0.797427995 1.336025825 1.101300826 1.027271489 0.876331174 0.61000063 1 10.99628415 -5.810194724 24.99967889 0.809867612 1.082240507 0.413749341 0.190525 106.387549 54550.69353 0.029961141 0.054309267 1.55E-06 5.810194724 0.272372894 HIISATS(ph)LSTSPTELGSR ddPTM_HeLa_SAHA_4h_R1 1 HIISATSLSTSPTELGSR 18 0 Q5JSZ5;Q5JSZ5-5;A0A1W2PQP5 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 HIISAT(0.038)S(0.958)LS(0.001)T(0.001)S(0.002)PTELGSR 149.6 7.70E-10 0 389.48 483 374.29 540.08 694.66 760.09 590.95 589.62 623.01 538 TRUE FALSE FALSE 430.4472934 498.6495169 425.296292 550.5340294 641.4353009 695.3260559 524.4547507 574.5383742 618.6744227 561.1958129 0.767018006 0.888548178 0.757839389 0.981001669 1.142979484 1.239007918 0.934530762 1.023775233 1.102421665 1 9.132360435 -5.99759503 6.585278234 0.877556236 1.083282781 0.325099807 0.120727983 0.110614593 23.95530289 0.017746724 0.031380177 1.01E-06 5.99759503 0.205726545 HIISATSLST(ph)SPTELGSR ddPTM_HeLa_SAHA_4h_R1 1 HIISATSLSTSPTELGSR 18 0 Q5JSZ5;Q5JSZ5-5;A0A1W2PQP5 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 HIISAT(0.02)S(0.152)LS(0.037)T(0.394)S(0.394)PT(0.001)ELGSR 145.69 3.65E-09 0 301.33 408.39 252.69 334.02 567.35 437.58 474.13 361.69 391.92 397.63 TRUE FALSE FALSE 333.025272 421.622104 287.1252772 340.4854401 523.8797656 400.2957222 420.7796446 352.4384935 389.1925968 414.7737753 0.802908216 1.016510997 0.692245495 0.820894329 1.263049394 0.965094097 1.014479867 0.849712577 0.938324986 1 8.69618087 HIISATSLSTS(ph)PTELGSR ddPTM_HeLa_SAHA_4h_R1 2 HIISATSLSTSPTELGSR 18 0 Q5JSZ5;Q5JSZ5-5;A0A1W2PQP5 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 HIISATSLS(0.001)T(0.326)S(0.67)PT(0.002)ELGSR;HIISATSLST(0.043)S(0.956)PTELGSR ; 179.78 2.33E-09 34416000 3271.9 4844.2 2458.1 4590.8 5845.4 4522.9 4958.2 5079.3 4894.6 4321.1 TRUE FALSE FALSE 3616.053454 5001.155258 2793.077067 4679.661572 5397.526715 4137.523475 4400.290287 4949.378861 4860.53808 4507.403768 0.802247511 1.109542325 0.61966427 1.038216635 1.197480189 0.917939392 0.976236102 1.098055359 1.078345391 1 12.13808098 -6.056060088 24.99954856 0.899902136 1.043689491 0.139447357 0.148610413 352.078251 157005.9635 0.020792349 0.034480301 8.79E-07 6.056060088 0.143787355 HIKEEPLS(ph)EEEPCTST(ph)AIASPEKK ddPTM_HeLa_SAHA_4h_R1 1 HIKEEPLSEEEPCTSTAIASPEKK 24 2 Q9Y2X3 Q9Y2X3 NOP58 Nucleolar protein 58 2 0 HIKEEPLS(0.999)EEEPCT(0.066)S(0.184)T(0.528)AIAS(0.223)PEKK 61.725 0.0050682 17910000 3625.2 2778.7 2196.3 2985.3 3817.3 1584.6 3687.7 3337 3529.7 3113.3 TRUE FALSE FALSE 4006.515169 2868.731703 2495.600326 3043.084798 3524.819299 1449.583165 3272.750291 3251.644372 3505.13653 3247.529599 1.233711671 0.883358139 0.768461149 0.937046055 1.085384811 0.446364882 1.007766116 1.001267047 1.079323967 1 11.66512696 -7.199042396 9.26295979 1.11030767 0.870248493 0.263983578 0.174748551 0.456294952 65.40660345 0.029853112 0.036566422 6.32E-08 7.199042396 -0.240059177 HIKEEPLS(ph)EEEPCTSTAIAS(ph)PEK ddPTM_HeLa_SAHA_4h_R1 3 HIKEEPLSEEEPCTSTAIASPEK 23 1 Q9Y2X3 Q9Y2X3 NOP58 Nucleolar protein 58 2 0 HIKEEPLS(0.785)EEEPCT(0.151)S(0.154)T(0.094)AIAS(0.816)PEK;HIKEEPLS(0.993)EEEPCT(0.01)S(0.01)T(0.009)AIAS(0.978)PEK;HIKEEPLS(0.998)EEEPCT(0.006)S(0.035)T(0.079)AIAS(0.882)PEK ;; 69.521 0.0059009 152898000 11651.1 11475.4 8085.7 11088 12749.9 6836.5 13496.3 11667.2 13984.4 11794.3 TRUE FALSE FALSE 12876.61616 11847.21049 9187.577087 11302.62427 11773.00542 6253.991739 11977.6608 11368.76992 13887.08142 12302.80999 1.046640252 0.96296785 0.74678688 0.918702661 0.956936295 0.508338481 0.973571144 0.924079127 1.128773136 1 13.58670025 -6.947852546 6.212979 1.021256008 0.838658719 0.351032133 0.132733597 0.175356024 14.92943037 0.019992857 0.026282726 1.13E-07 6.947852546 -0.182597288 HIKEEPLS(ph)EEEPCTSTAIAS(ph)PEKK ddPTM_HeLa_SAHA_4h_R1 1 HIKEEPLSEEEPCTSTAIASPEKK 24 2 Q9Y2X3 Q9Y2X3 NOP58 Nucleolar protein 58 2 0 HIKEEPLS(0.999)EEEPCT(0.003)S(0.006)T(0.015)AIAS(0.978)PEKK 69.551 0.0009037 124170000 2814.8 2614.8 2007.1 2774.6 2901.7 1524.9 2961.4 3007.3 2840.2 2653.2 TRUE FALSE FALSE 3110.873579 2699.521236 2280.617135 2828.306395 2679.372373 1394.969941 2628.175478 2930.377621 2820.434817 2767.592436 1.124036017 0.975404182 0.824043709 1.021937464 0.968123896 0.504037344 0.949625184 1.058818337 1.019093267 1 11.43441579 -6.990625024 5.558095233 1.05838874 0.883463225 0.191460892 0.147751484 0.19104881 19.7532044 0.024594283 0.031771331 1.02E-07 6.990625024 -0.174925515 HIKEEPLS(ph)EEEPCTSTAIASPEK ddPTM_HeLa_SAHA_4h_R1 3 HIKEEPLSEEEPCTSTAIASPEK 23 1 Q9Y2X3 Q9Y2X3 NOP58 Nucleolar protein 58 1 0 HIKEEPLS(0.713)EEEPCT(0.195)S(0.077)T(0.014)AIASPEK;HIKEEPLS(1)EEEPCTSTAIASPEK;HIKEEPLS(0.967)EEEPCT(0.023)S(0.008)T(0.003)AIASPEK ;; 96.505 8.59E-05 149540000 7498.5 7201.6 5591 8157 8788.7 4429.7 8629.3 9214.1 8196.3 7371.7 TRUE FALSE FALSE 8287.226634 7434.936565 6352.912363 8314.89053 8115.311705 4052.264639 7658.308453 8978.416664 8139.261281 7689.530063 1.077728621 0.96689089 0.826176933 1.081326227 1.055371608 0.526984693 0.995939725 1.167615783 1.058486177 1 12.90867972 -7.047872239 7.702961033 1.036104572 0.933954813 0.069818493 0.166038255 0.598559536 86.88314119 0.027277094 0.033623951 8.96E-08 7.047872239 -0.102149759 HIKEEPLSEEEPCT(ph)STAIASPEK ddPTM_HeLa_SAHA_4h_R1 1 HIKEEPLSEEEPCTSTAIASPEK 23 1 Q9Y2X3 Q9Y2X3 NOP58 Nucleolar protein 58 1 0 HIKEEPLS(0.398)EEEPCT(0.431)S(0.129)T(0.041)AIASPEK 105.06 8.74E-05 99530000 3643.5 4062.6 2982.2 4062 4296.3 2476.8 4872.2 4673.2 3946 4300 TRUE FALSE FALSE 4026.740047 4194.230906 3388.598685 4140.625884 3967.118422 2265.762706 4323.967233 4553.666311 3918.539465 4485.394044 0.897744994 0.935086386 0.755474024 0.923135369 0.8844526 0.505142399 0.964010562 1.015221019 0.873622123 1 12.13101902 -8.10583425 0.545572319 0.995875307 0.837933295 0.030577672 0.139529425 1.115707993 0.763733443 0.074127208 0.042301986 7.84E-09 8.10583425 -0.157942012 HIVLSGGSTMYPGLPSR ddPTM_HeLa_SAHA_4h_R1 1 HIVLSGGSTMYPGLPSR 17 0 P61160;F5H6T1;P61160-2 P61160 ACTR2 Actin-related protein 2 0 0 110.57 0.00082346 1424400 406.83 636.01 452.52 600.41 697.89 699.35 735.19 182.67 418.18 548.53 FALSE FALSE TRUE 449.622246 656.6171413 514.187069 612.0318038 644.417819 639.7614456 652.4644863 177.9975659 415.2698513 572.1798127 0.785805853 1.147571317 0.898645946 1.069649418 1.126250533 1.118112578 1.140313712 0.311086763 0.725768093 1 9.160324788 -4.251989887 24.92158926 0.966772761 0.311086401 0.656949392 0.147750706 630.3142263 1662321.824 0.021189299 0.362832592 5.60E-05 4.251989887 -0.65568636 HIVSNDSS(ph)DSDDESHEPK ddPTM_HeLa_SAHA_4h_R1 1 HIVSNDSSDSDDESHEPK 18 0 P47712 P47712 PLA2G4A Cytosolic phospholipase A2;Phospholipase A2;Lysophospholipase 1 0 HIVS(0.028)NDS(0.234)S(0.722)DS(0.015)DDES(0.001)HEPK 51.76 0.019659 6389000 2336.8 2703.6 2101 2957.1 2699.7 2056.2 2947.5 2964.4 3403.7 2669.9 TRUE FALSE FALSE 2582.595346 2791.198414 2387.313338 3014.338947 2492.849569 1881.000192 2615.839543 2888.57494 3380.013375 2785.012455 0.927319137 1.00222116 0.857200238 1.082343076 0.895094586 0.675400998 0.939255958 1.037185645 1.213643899 1 11.44346806 -5.542778487 24.91092161 0.967077945 0.872106577 0.136274174 0.126691288 301.9376327 377971.0243 0.014112918 0.028228442 2.87E-06 5.542778487 -0.094971368 HIYYITGETK ddPTM_HeLa_SAHA_4h_R1 2 HIYYITGETK 10 0 P07900;P07900-2;Q58FG0 P07900 HSP90AA1;HSP90AA5P Heat shock protein HSP 90-alpha;Putative heat shock protein HSP 90-alpha A5 0 0 ; ; 154.01 1.00E-07 10452100 10002.1 9951.7 10695.8 11713.4 12271.7 12315.4 13994.2 9797.4 12988.1 12201.5 FALSE FALSE TRUE 11054.16677 10274.14161 12153.36792 11940.12979 11331.445 11266.05864 12419.53579 9546.796694 12897.71475 12727.56638 0.868521636 0.807235359 0.954885448 0.93813141 0.89030728 0.885169898 0.975798155 0.750088148 1.013368493 1 13.63566897 -9.268965203 0.979893585 1.000544073 0.888113888 0.363783954 0.06418356 0.528828631 0.904334432 0.041659906 0.011130004 5.38E-10 9.268965203 -0.112430185 HK(ac)LDVTSVEDYK ddPTM_HeLa_SAHA_4h_R1 2 HKLDVTSVEDYK 12 1 B7ZAR1;E9PCA1;P48643;E7ENZ3;P48643-2 B7ZAR1 CCT5 T-complex protein 1 subunit epsilon 0 1 ; HK(1)LDVTSVEDYK;HK(1)LDVTSVEDYK 135.81 0.00048657 5215000 2874.6 10739.5 3919.6 4164.5 7942.3 6446.8 8267.3 6055.8 7190.8 2503.9 FALSE TRUE FALSE 3176.963617 11087.46685 4453.742676 4245.109919 7333.76269 5897.496371 7337.041646 5900.901405 7140.758637 2611.855383 1.216362758 4.245053888 1.705202633 1.625323495 2.807874715 2.257972019 2.809130128 2.259275702 2.733979333 1 11.3508593 -7.481853679 24.94734557 1.095453364 2.492729393 0.086792549 0.862910706 267.0494316 162393.9562 0.111729387 0.126314865 3.30E-08 7.481853679 1.397276029 HKAEEVEDETVELDVS(ph)DEEMAR ddPTM_HeLa_SAHA_4h_R1 3 HKAEEVEDETVELDVSDEEMAR 22 1 H3BSB3;H3BNT4;Q99547 H3BSB3 MPHOSPH6 M-phase phosphoprotein 6 1 0 HKAEEVEDETVELDVS(1)DEEMAR;HKAEEVEDETVELDVS(1)DEEMAR;HKAEEVEDETVELDVS(1)DEEMAR ;; 135.12 1.72E-06 20181200 6643.6 7456.4 9541.4 10135.8 12374.6 4654.1 11554.5 10904.1 11979.5 9691.5 TRUE FALSE FALSE 7342.40433 7697.992252 10841.6523 10331.99307 11426.46082 4257.544497 10254.35725 10625.18891 11896.13368 10109.34799 0.726298505 0.761472674 1.072438332 1.022023683 1.130286625 0.421149267 1.014344076 1.051026131 1.176745888 1 13.30340233 -4.551126734 24.99912041 0.874434509 1.041857862 0.022290709 0.217684052 332.9024115 294613.9592 0.027799025 0.104017541 2.81E-05 4.551126734 0.167423353 HKS(ph)DNETNLQQQVVWGNR ddPTM_HeLa_SAHA_4h_R1 2 HKSDNETNLQQQVVWGNR 18 1 A0A0U1RR27;Q7Z401;Q7Z401-2 A0A0U1RR27 DENND4A C-myc promoter-binding protein 1 0 HKS(1)DNETNLQQQVVWGNR;HKS(0.946)DNET(0.054)NLQQQVVWGNR ; 116.69 0.00040763 16985400 1596.94 1514.65 1666.05 1818.3 2062.92 1404.42 1985.09 1819.71 1386.96 1574.42 TRUE FALSE FALSE 1764.913476 1563.725654 1893.090618 1853.495826 1904.859515 1284.755515 1761.722449 1773.164453 1377.308032 1642.300951 1.074658987 0.95215536 1.152706278 1.128596939 1.159872381 0.782289941 1.072715964 1.079683021 0.838645336 1 10.68150281 -4.556455549 24.99992165 1.03653559 1.077944103 0.010682258 0.122839561 602.7432965 448777.2652 0.014222094 0.053214766 2.78E-05 4.556455549 0.041408513 HLAESESLLTS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 2 HLAESESLLTSPPK 14 0 Q14669;Q14669-2;Q14669-3;Q14669-4 Q14669 TRIP12 E3 ubiquitin-protein ligase TRIP12 1 0 HLAESESLLT(0.057)S(0.943)PPK;HLAESESLLT(0.174)S(0.826)PPK ; 120.21 0.00072028 11669100 4692.4 6435.5 3438.3 5688.8 7169.2 6007.2 5730.2 5746.2 7919.7 5335.9 TRUE FALSE FALSE 5185.968162 6644.014422 3906.853618 5798.91495 6619.897445 5495.352764 5085.422815 5599.220524 7864.586163 5565.956762 0.931729868 1.193687753 0.701919505 1.041854114 1.18935481 0.987315029 0.913665526 1.005976288 1.412980104 1 12.44241399 HLAQAS(ph)QELQ ddPTM_HeLa_SAHA_4h_R1 1 HLAQASQELQ 10 0 A0A669KBG0;Q8NBP7 A0A669KBG0 PCSK9 Proprotein convertase subtilisin/kexin type 9 1 0 HLAQAS(1)QELQ 88.056 0.019799 2782500 1456.7 1656.1 1521.4 1501.2 1477.3 1340.6 1735 1747.3 1900.2 1646.1 TRUE FALSE FALSE 1609.92239 1709.758727 1728.728469 1530.257897 1364.109593 1226.373338 1539.773234 1702.606596 1886.976353 1717.071427 0.937597798 0.995741179 1.006788909 0.891202237 0.794439632 0.714223834 0.896743845 0.991575871 1.098950413 1 10.74573434 -6.066202516 4.619924605 0.974217754 0.842650588 0.450859501 0.079462475 0.160969846 6.727189647 0.010974015 0.018791174 8.59E-07 6.066202516 -0.131567166 HLDGEEDGS(ph)SDQSQASGTTGGR ddPTM_HeLa_SAHA_4h_R1 1 HLDGEEDGSSDQSQASGTTGGR 22 0 Q5H909;Q9UNF1-2;Q9UNF1;Q5H907 Q5H909 MAGED2 Melanoma-associated antigen D2 1 0 HLDGEEDGS(0.845)S(0.155)DQSQASGTTGGR 126.27 7.36E-06 7043800 729.94 869.3 448.22 586.58 637.46 440.03 711.62 601.4 875.87 628.16 TRUE FALSE FALSE 806.7184383 897.4658904 509.3010874 597.9341041 588.6179525 402.5369685 631.5466447 586.0170588 869.7747494 655.2430517 1.23117435 1.369668687 0.777270489 0.912537878 0.898320022 0.614332296 0.963835699 0.894350665 1.327407818 1 9.35588634 -6.737639139 24.99585658 1.13175365 0.844134811 0.612472596 0.142784035 151.249635 158847.3558 0.022973465 0.032479163 1.83E-07 6.737639139 -0.287618839 HLDGEEDGSS(ph)DQSQASGTTGGR ddPTM_HeLa_SAHA_4h_R1 1 HLDGEEDGSSDQSQASGTTGGR 22 0 Q5H909;Q9UNF1-2;Q9UNF1;Q5H907 Q5H909 MAGED2 Melanoma-associated antigen D2 1 0 HLDGEEDGS(0.049)S(0.951)DQSQASGTTGGR 164.04 1.01E-07 7866900 1310.9 1369.9 1085.8 1323.4 1547.3 487.75 2205.2 1648.6 1865.4 1314.7 TRUE FALSE FALSE 1448.786477 1414.285659 1233.767169 1349.016321 1428.746208 446.190956 1957.065092 1606.431199 1852.41853 1371.383151 1.056441794 1.031284115 0.89965169 0.983690313 1.041828615 0.325358348 1.427073893 1.171394878 1.350766581 1 10.42141599 -6.881031036 14.58000121 1.027790241 0.968921601 0.020802987 0.279523208 3.741589249 456.3255474 0.040748734 0.053556699 1.32E-07 6.881031036 -0.05886864 HLDRSPES(ph)DRPR ddPTM_HeLa_SAHA_4h_R1 1 HLDRSPESDRPR 12 2 A0A494C001;A0A499FJY3;A0A087WWP4;Q96T37-4;Q96T37-2;Q96T37-3;Q96T37 A0A494C001 RBM15 Putative RNA-binding protein 15 1 0 HLDRS(0.013)PES(0.987)DRPR 124.81 0.006194 2078700 1097.3 944.65 1194 1213.7 1265.4 879.22 1281.8 1200.6 1147.4 1235.4 TRUE FALSE FALSE 1212.719049 975.2572798 1356.712102 1237.192919 1168.445325 804.3055096 1137.56849 1169.89039 1139.41515 1288.66414 0.941066808 0.756797097 1.05280504 0.960058467 0.906710515 0.624138971 0.882750171 0.907831881 0.884183174 1 10.33166059 -6.652863391 0.274640905 1.01172516 0.796520058 0.049241298 0.113378084 2.683647029 0.535559456 0.110798897 0.21515243 2.22E-07 6.652863391 -0.215205102 HLEINPDHPIVETLR ddPTM_HeLa_SAHA_4h_R1 2 HLEINPDHPIVETLR 15 0 P08238 P08238 HSP90AB1 Heat shock protein HSP 90-beta 0 0 ; ; 176.43 1.76E-07 62887000 4227.5 4058.1 4115.4 4400.1 4558.8 3445.2 4977.7 3759.8 4743.5 4559.5 FALSE FALSE TRUE 4672.167846 4189.585103 4676.22528 4485.270298 4209.505729 3151.649578 4417.596095 3663.62976 4710.489597 4756.082359 0.98235638 0.88088994 0.983209484 0.943059846 0.885078393 0.662656645 0.928830866 0.770304104 0.990413799 1 12.21555798 -5.653533131 2.96680779 0.979433147 0.798426449 0.550568526 0.069745514 0.130145465 2.296850658 0.009707729 0.020820326 2.22E-06 5.653533131 -0.181006698 HLEINPDHSIIETLR ddPTM_HeLa_SAHA_4h_R1 2 HLEINPDHSIIETLR 15 0 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 0 0 ; ; 160.65 2.87E-06 24241000 3760.4 2784.5 2658 3556 3581.7 2439.46 3800.2 2948.4 4245.4 3350.5 FALSE FALSE TRUE 4155.936125 2874.719627 3020.218398 3624.831522 3307.27092 2231.604284 3372.591494 2872.984197 4215.855916 3494.956452 1.189123865 0.822533747 0.864164816 1.037160712 0.946298177 0.638521342 0.964988131 0.822037195 1.206268511 1 11.77105876 -7.253569635 24.98438222 1.089308493 0.874547902 0.508980851 0.115181785 428.7747418 1361248.814 0.019975613 0.024224484 5.58E-08 7.253569635 -0.214760591 HLGVCISVANNR ddPTM_HeLa_SAHA_4h_R1 1 HLGVCISVANNR 12 0 O43390;B4DT28;O43390-4;O43390-3;O43390-2 O43390 HNRNPR Heterogeneous nuclear ribonucleoprotein R 0 0 116.84 0.001156 4809600 1361.5 1547.4 1599.5 2231.3 2232 1627.2 2288.9 1401.2 1489.1 1983.7 FALSE FALSE TRUE 1504.708817 1597.536775 1817.47153 2274.490038 2060.984642 1488.553406 2031.346948 1365.359333 1478.737232 2069.227015 0.727184019 0.772045195 0.87833356 1.099197923 0.99601669 0.719376557 0.981693615 0.65984028 0.714632673 1 11.01487622 -9.668278585 1.543855538 0.999452855 0.84312993 0 0.159364299 0.622062529 2.683761153 0.097657927 0.022215392 2.15E-10 9.668278585 -0.156322925 HLIPAANTGESK ddPTM_HeLa_SAHA_4h_R1 1 HLIPAANTGESK 12 0 P62258;P62258-2 P62258 YWHAE 14-3-3 protein epsilon 0 0 112.94 0.0013372 0 826.1 945.18 828.6 762.94 1062.8 925.38 998.65 854.96 1159.9 1013.7 FALSE FALSE TRUE 912.9929883 975.8044522 941.5172928 777.7078069 981.3684936 846.532418 886.2792737 833.0913612 1151.828161 1057.405568 0.863427445 0.922828933 0.890403192 0.735486771 0.928090908 0.800574958 0.838163994 0.787863604 1.089296478 1 10.04631311 -13.52287875 0.130089657 1.557341334 0.770974626 0.650247891 0.059095944 39.3680701 0.363152734 5.66018067 0.180120722 3.00E-14 13.52287875 -0.786366708 HLIVLINK ddPTM_HeLa_SAHA_4h_R1 1 HLIVLINK 8 0 H3BR35;P15170;P15170-2;P15170-3;Q8IYD1 H3BR35 GSPT1;GSPT2 Eukaryotic peptide chain release factor GTP-binding subunit ERF3A;Eukaryotic peptide chain release factor GTP-binding subunit ERF3B 0 0 139.92 2.11E-09 0 5625.2 6227.2 8142.3 8570.9 8823.4 3157.8 10205 4247.6 4587.4 6169.1 FALSE FALSE TRUE 6216.884345 6428.965366 9251.890241 8736.802163 8147.352998 2888.737675 9056.706542 4138.952542 4555.47591 6435.080092 0.966092769 0.999049782 1.437727287 1.357683516 1.266084164 0.448904696 1.407396087 0.643185863 0.707912853 1 12.65174239 -2.864819761 11.83860916 1.031040777 0.831601101 0 0.326941709 0 0 0.037984551 0 0.00136515 2.864819761 -0.199439676 HLLAVY(ph)LSQVMRT(ph)CQQLSVS(ph)DK ddPTM_HeLa_SAHA_4h_R1 1 HLLAVYLSQVMRTCQQLSVSDK 22 1 Q19AV6 Q19AV6 ZSWIM7 Zinc finger SWIM domain-containing protein 7 3 0 HLLAVY(0.799)LS(0.225)QVMRT(0.841)CQQLS(0.527)VS(0.607)DK 43.955 0.0088685 0 517.2 362.55 500.06 742.51 585.43 501.73 653.64 675.9 536.22 666.46 TRUE FALSE FALSE 571.601469 374.2968579 568.2055726 756.8823547 540.5744799 458.9797813 580.0907069 658.6114567 532.4884014 695.1943522 0.822218229 0.538406068 0.817333413 1.088734902 0.77758756 0.660217937 0.834429545 0.947377456 0.765956167 1 9.441272551 -8.871841887 0.983892825 0.988551905 0.809799661 0 0.156102798 0.628941061 1.19461784 0.066604296 0.02799768 1.34E-09 8.871841887 -0.178752243 HLLGAEHGDEPR ddPTM_HeLa_SAHA_4h_R1 1 HLLGAEHGDEPR 12 0 U3KQC1;K7EIR0;A0A0A0MQU0;Q9BV38 U3KQC1 WDR18 WD repeat-containing protein 18 0 0 99.752 0.0027526 1666500 1067.2 952.78 1032.5 1097.6 1006.1 1000.4 1458.3 945.72 1203.2 1223.8 FALSE FALSE TRUE 1179.452992 983.6506971 1173.203723 1118.845635 929.0128354 915.1602919 1294.208246 921.5298518 1194.826833 1276.564007 0.923927814 0.770545536 0.919032431 0.87645087 0.727744814 0.716893385 1.013821664 0.721882997 0.935970955 1 10.31805016 -7.658235258 0.632801371 0.992424334 0.814172605 0.28290004 0.093503509 0.502443373 0.455610642 0.031370618 0.027629418 2.20E-08 7.658235258 -0.17825173 HLLIGVSSDR ddPTM_HeLa_SAHA_4h_R1 2 HLLIGVSSDR 10 0 P36542-2;P36542 P36542-2 ATP5C1 "ATP synthase subunit gamma, mitochondrial" 0 0 ; ; 106.2 0.0027014 4597200 1491.54 2700.2 1571.36 1820.36 3161 2427 2957.5 1888.45 2305.1 2607.4 FALSE FALSE TRUE 1648.427021 2787.688252 1785.496758 1855.5957 2918.804863 2220.205946 2624.714316 1840.146183 2289.058621 2719.817774 0.60607995 1.024954053 0.656476612 0.682250009 1.073161919 0.816306874 0.965033151 0.676569659 0.841622054 1 11.40929428 -4.20515403 20.96970643 0.83028558 0.676563188 0.086922 0.157022547 18102.98396 6742808.033 0.024846994 31.12637534 6.24E-05 4.20515403 -0.153722392 HLLNS(ph)PTDPFNR ddPTM_HeLa_SAHA_4h_R1 2 HLLNSPTDPFNR 12 0 O95155-2;O95155;O95155-4;O95155-3 O95155-2 UBE4B Ubiquitin conjugation factor E4 B 1 0 HLLNS(0.944)PT(0.056)DPFNR;HLLNS(1)PTDPFNR ; 152.11 0.00025131 11820900 3502.22 3623.3 3218.81 3530.39 4407.9 2686.8 3738.12 4159.18 3807.19 3802.72 TRUE FALSE FALSE 3870.599568 3740.697297 3657.452664 3598.725803 4070.167654 2457.869524 3317.496899 4052.794198 3780.695455 3966.673869 0.975779632 0.94303122 0.922045216 0.907240152 1.026090823 0.619629847 0.836342238 1.021710968 0.953114771 1 11.95371407 -6.295693121 0.777674091 0.990399877 0.849784445 0.139806378 0.105797899 0.72180817 0.860019567 0.020511522 0.047746094 5.06E-07 6.295693121 -0.140615432 HLLQEARS(ph)PDPGIVPQEAPVGNSLSELSEENFDGK ddPTM_HeLa_SAHA_4h_R1 1 HLLQEARSPDPGIVPQEAPVGNSLSELSEENFDGK 35 1 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;X6RGP5;A0A0C4DH09;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 HLLQEARS(1)PDPGIVPQEAPVGNSLSELSEENFDGK 91.706 2.14E-11 10264000 372.3 298.61 549.4 398.75 503.36 323.75 648.96 372.29 153.83 414.75 TRUE FALSE FALSE 411.4602222 308.2851599 624.2693708 406.4683829 464.7926655 296.1646786 575.9373128 362.7673609 152.7594845 432.6319022 0.951063063 0.712580737 1.442957322 0.939524757 1.074337475 0.684565047 1.331240969 0.838512738 0.353093435 1 8.756996243 HLLS(ph)PQLVQYQCGDSGK ddPTM_HeLa_SAHA_4h_R1 4 HLLSPQLVQYQCGDSGK 17 0 Q9P209 Q9P209 CEP72 Centrosomal protein of 72 kDa 1 0 HLLS(1)PQLVQYQCGDSGK;HLLS(1)PQLVQYQCGDSGK;HLLS(1)PQLVQYQCGDSGK;HLLS(1)PQLVQYQCGDSGK ;;; 139.98 8.92E-09 11786300 9768.6 9762 9082.7 10493.4 11170.1 7904.67 11616.5 11121.2 10215.6 9511.2 TRUE FALSE FALSE 10796.10617 10078.29521 10320.44306 10696.51493 10314.24935 7231.147646 10309.38085 10836.73581 10144.50881 9921.274379 1.088177361 1.015826679 1.040233609 1.078139211 1.039609324 0.728852703 1.039118611 1.092272564 1.02250058 1 13.27630973 -5.467211973 24.99998026 1.043272455 0.949026068 0.159974956 0.09132971 386.0692751 173383.3202 0.012884781 0.028811119 3.41E-06 5.467211973 -0.094246386 HLLTDLPLPPELPGGDLS(ph)PPDSPEPK ddPTM_HeLa_SAHA_4h_R1 1 HLLTDLPLPPELPGGDLSPPDSPEPK 26 0 Q9NYV4-2;J3QSD7;Q9NYV4-3;Q9NYV4 Q9NYV4-2 CDK12 Cyclin-dependent kinase 12 1 0 HLLTDLPLPPELPGGDLS(0.841)PPDS(0.159)PEPK 65.495 0.0010878 51955000 1052.8 1209.2 997.16 1329.6 1469.7 1186.4 1810.3 1884.9 1257.1 1208.5 TRUE FALSE FALSE 1163.538334 1248.378873 1133.047772 1355.336331 1357.091904 1085.312045 1606.60028 1836.686987 1248.351739 1260.604349 0.923000413 0.990301893 0.898813155 1.075148068 1.076540712 0.86094582 1.274468298 1.456989252 0.990280368 1 10.29989983 -4.59416423 4.213854928 0.971099359 1.422855943 0.846028295 0.068134616 0.05088491 1.707501797 0.009463761 0.041573897 2.55E-05 4.59416423 0.451756584 HLQLAIR ddPTM_HeLa_SAHA_4h_R1 2 HLQLAIR 7 0 P16104;A0A0U1RR32;A0A0U1RRH7;Q99878;Q96KK5;Q16777;Q6FI13;P20671;P0C0S8;Q9BTM1;H0YFX9;Q9BTM1-2;A0A3B3IS11;Q96QV6;Q93077;Q7L7L0;P04908;P0C0S5;A0A494C189;Q71UI9-4;Q71UI9;C9J0D1;Q71UI9-3;Q71UI9-2;C9J386 P16104;A0A0U1RR32;Q93077;P0C0S5;Q71UI9 H2AFX;HIST1H2AJ;HIST1H2AH;HIST2H2AC;HIST2H2AA3;HIST1H2AD;HIST1H2AG;H2AFJ;HIST1H2AA;HIST1H2AC;HIST3H2A;HIST1H2AB;H2AFZ;H2AFV Histone H2AX;Histone H2A type 1-J;Histone H2A type 1-H;Histone H2A type 2-C;Histone H2A type 2-A;Histone H2A type 1-D;Histone H2A type 1;Histone H2A.J;Histone H2A;Histone H2A type 1-A;Histone H2A type 1-C;Histone H2A type 3;Histone H2A type 1-B/E;Histone H2A.Z;Histone H2A.V 0 0 ; ; 128.38 0.00015627 202306000 4517.1 4207 11393.4 6945.9 6055.4 1458.85 8840.8 1344.94 792.04 1831.76 FALSE FALSE TRUE 4992.229303 4343.30956 12946.03322 7080.347938 5591.43656 1334.547773 7846.009916 1310.538382 786.5281292 1910.736138 2.612725642 2.273107979 6.775416532 3.70556028 2.926325854 0.698446921 4.106275985 0.685881403 0.411636182 1 10.89991285 -8.503206311 0.881236051 1.170705131 3.067474524 0.215354287 1.673737249 0.686106901 1.09706734 0.655728179 0.350348858 3.14E-09 8.503206311 1.896769393 HLQLAIRNDEELNKLLGK ddPTM_HeLa_SAHA_4h_R1 1 HLQLAIRNDEELNKLLGK 18 2 A0A0U1RR32;A0A0U1RRH7;Q99878;Q96KK5;Q16777;Q6FI13;P20671;P0C0S8;Q9BTM1;H0YFX9;Q9BTM1-2 A0A0U1RR32 HIST1H2AJ;HIST1H2AH;HIST2H2AC;HIST2H2AA3;HIST1H2AD;HIST1H2AG;H2AFJ Histone H2A type 1-J;Histone H2A type 1-H;Histone H2A type 2-C;Histone H2A type 2-A;Histone H2A type 1-D;Histone H2A type 1;Histone H2A.J;Histone H2A 0 0 40.211 0.022154 3846800 5302.9 2036.1 4762.1 3706.8 2796.6 2246.6 4762.5 3655.5 2072.7 3635.9 FALSE FALSE TRUE 5860.683353 2102.070976 5411.054188 3778.550474 2582.325112 2055.177041 4226.610966 3561.997603 2058.275912 3792.661443 1.545269316 0.554246934 1.426716903 0.996279402 0.680874144 0.541882547 1.114418207 0.939181537 0.542699617 1 11.88899488 -6.011355175 7.868753478 1.211801021 0.822076676 0 0.357768047 0.163385788 70.07853711 0.04760798 0.082451928 9.74E-07 6.011355175 -0.389724346 HLQQGSES(ph)PMMIGELR ddPTM_HeLa_SAHA_4h_R1 2 HLQQGSESPMMIGELR 16 0 Q9UPU5 Q9UPU5 USP24 Ubiquitin carboxyl-terminal hydrolase 24 1 0 HLQQGSES(1)PMMIGELR;HLQQGSES(1)PMMIGELR ; 167.97 9.38E-07 7922200 1464.75 2111.97 1585.38 1625.14 2084.6 1802.44 1804.48 1735 2220.2 2054.73 TRUE FALSE FALSE 1618.819126 2180.399214 1801.42733 1656.596935 1924.878398 1648.861972 1601.435161 1690.621212 2204.749447 2143.319466 0.755285972 1.01730015 0.840484752 0.772911813 0.898082824 0.769302942 0.747175205 0.788786384 1.028661141 1 11.06563119 -9.48389389 1.023074261 1.008594615 0.819639061 0.479577385 0.078750289 0.475291301 0.821049901 0.070095332 0.014227251 3.28E-10 9.48389389 -0.188955554 HLQVIFGHLAASR ddPTM_HeLa_SAHA_4h_R1 2 HLQVIFGHLAASR 13 0 Q93008;Q93008-3 Q93008 USP9X Probable ubiquitin carboxyl-terminal hydrolase FAF-X 0 0 ; ; 105.65 0.0019788 2433800 206.239 439.36 521.23 578.43 677.08 0 632.53 206.49 172.59 184.517 FALSE FALSE TRUE 227.9321643 453.5955523 592.26051 589.6263491 625.2022767 0 561.3560597 201.2082848 171.3889321 192.4724309 1.184232792 2.356678046 3.077118667 3.063432754 3.24826924 0 2.916553073 1.04538756 0.890459643 1 7.588508003 -7.286958832 5.922375028 1.083766165 2.286750454 0.248528189 0.968266846 0.185889071 22.51377804 0.160307944 0.185725475 5.16E-08 7.286958832 1.202984289 HLS(ph)SEEMMR ddPTM_HeLa_SAHA_4h_R1 1 HLSSEEMMR 9 0 Q969E4;Q5H9L2;Q6IPX3-2;Q6IPX3 Q969E4 TCEAL3;TCEAL5;TCEAL6 Transcription elongation factor A protein-like 3;Transcription elongation factor A protein-like 5;Transcription elongation factor A protein-like 6 1 0 HLS(0.771)S(0.229)EEMMR 94.309 0.014641 1933500 426.04 517.06 363.76 398.07 521.11 367.03 605 570.67 463.7 444.44 TRUE FALSE FALSE 470.8528419 533.8130833 413.3313184 405.7752205 481.1826644 335.7569791 536.9238077 556.0730877 460.4730739 463.6019834 1.015640266 1.151446936 0.891565035 0.87526636 1.037921928 0.724235424 1.158156839 1.199462271 0.993250871 1 8.856742928 -4.552717758 24.9996552 0.985541777 1.18913667 0.372694467 0.109919295 137.2125903 114958.9107 0.014455933 0.05409047 2.80E-05 4.552717758 0.203594893 HLT(ph)PEPDIVASTK ddPTM_HeLa_SAHA_4h_R1 4 HLTPEPDIVASTK 13 0 Q5JSH3-2;Q5JSH3;Q5JSH3-4;H7BY83 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 HLT(1)PEPDIVASTK;HLT(1)PEPDIVASTK;HLT(1)PEPDIVASTK;HLT(1)PEPDIVASTK ;;; 148.18 0.0002246 57180800 18746.1 19790.2 17379.1 18922.7 20146.1 6657.2 21642.8 20027.5 19659.9 18319 TRUE FALSE FALSE 20717.90081 20431.41546 19747.43324 19288.97622 18602.51017 6089.969108 19207.49518 19515.22555 19523.08516 19108.82174 1.084206085 1.069213777 1.033419721 1.009427817 0.973503779 0.318699352 1.005163764 1.021267863 1.021679171 1 14.2219512 -5.503711736 24.89646058 1.038749195 0.777729997 0.28421981 0.180947892 661.5953631 859360.2817 0.024766538 0.054571693 3.14E-06 5.503711736 -0.261019198 HMDPPPAPVQDRS(ph)PSPR ddPTM_HeLa_SAHA_4h_R1 2 HMDPPPAPVQDRSPSPR 17 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 HMDPPPAPVQDRS(0.841)PS(0.159)PR;HMDPPPAPVQDRS(0.802)PS(0.198)PR ; 76.176 0.0046266 13672800 3823.8 4506.9 3907.5 4555.8 5179.5 4384.5 4523.8 4174.9 4761.8 4637.5 TRUE FALSE FALSE 4226.004828 4652.926517 4439.993751 4643.984097 4782.647829 4010.915933 4014.770118 4068.112103 4728.662246 4837.44532 0.873602604 0.961856147 0.91783854 0.960007564 0.988672225 0.829139281 0.82993602 0.840962912 0.977512289 1 12.24002964 -8.528349613 0.016457392 1.883426251 2.49E-06 0.434034599 0.049047635 727.2481765 4.645500251 277.3213542 254.0586907 2.96E-09 8.528349613 -1.883423757 HMGIGK(ac)R ddPTM_HeLa_SAHA_4h_R1 4 HMGIGKR 7 1 J3QR09;J3KTE4;P84098 J3QR09 RPL19 Ribosomal protein L19;60S ribosomal protein L19 0 1 ;;; HMGIGK(1)R;HMGIGK(1)R;HMGIGK(1)R;HMGIGK(1)R 96.048 0.0087802 11794290 1150.171 1149.98 1319.71 1487.37 1618.31 1287.85 1571.22 1496.609 1167.682 1224.82 FALSE TRUE FALSE 1271.151263 1187.240107 1499.553206 1516.160197 1494.315437 1178.117935 1394.42219 1458.327909 1159.556006 1277.627984 0.994930667 0.929253367 1.173700971 1.186699271 1.169601367 0.922113439 1.091414878 1.141433912 0.907585009 1 10.3192521 -6.761535806 25 0.992412803 1.110214566 0.466797938 0.078336545 2.153328223 558308.0921 0.012110564 0.016495731 1.73E-07 6.761535806 0.117801763 HNDDEQYAWESSAGGSFTVR ddPTM_HeLa_SAHA_4h_R1 3 HNDDEQYAWESSAGGSFTVR 20 0 P07900;P07900-2;Q14568;P08238 P07900;P08238 HSP90AA1;HSP90AA2P;HSP90AB1 Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-alpha A2;Heat shock protein HSP 90-beta 0 0 ;; ;; 128.01 7.99E-05 12801900 1092.08 1242.82 1097.64 1214.31 1350.96 987.79 1568.02 1094.76 1398.78 1339.333 FALSE FALSE TRUE 1206.949985 1283.088183 1247.220663 1237.814726 1247.449737 903.6247348 1391.582263 1066.757624 1389.045776 1397.0782 0.863910112 0.918408278 0.89273504 0.886002463 0.892899006 0.646796103 0.99606612 0.763563288 0.994250555 1 10.44819706 -13.52287875 0.144022238 1.525233473 0.801835544 0.330931372 0.086048453 62.72810153 0.623463233 9.349780501 0.214698737 3.00E-14 13.52287875 -0.723397929 HNGICIYFSR ddPTM_HeLa_SAHA_4h_R1 1 HNGICIYFSR 10 0 E9PF10;O75694-2;O75694 E9PF10 NUP155 Nuclear pore complex protein Nup155 0 0 86.014 0.010762 2712900 949.78 1018.7 1476.3 1992.9 1816 723.84 1548.2 604.64 766.94 1109.7 FALSE FALSE TRUE 1049.682218 1051.706548 1677.482476 2031.475461 1676.858472 662.1647598 1373.992461 589.1741843 761.6028021 1157.544598 0.906817949 0.908566763 1.449173085 1.754986776 1.44863401 0.572042547 1.18698879 0.508986164 0.657946833 1 10.17685206 -2.468988416 14.7804971 1.033300026 1.087753453 0 0.393843017 0 0 0.050209137 0 0.003396343 2.468988416 0.054453427 HNGSLS(ph)PGLEAR ddPTM_HeLa_SAHA_4h_R1 2 HNGSLSPGLEAR 12 0 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 HNGS(0.46)LS(0.54)PGLEAR;HNGS(0.001)LS(0.999)PGLEAR ; 133.87 0.00070582 35686000 2858.1 4595.1 2299.9 3300.7 4599.9 2463.2 4497.1 3983.1 3975.9 3991 TRUE FALSE FALSE 3158.728071 4743.984255 2613.318395 3364.589821 4247.456656 2253.321502 3991.074472 3881.218069 3948.231388 4163.071541 0.758749409 1.13953945 0.627738046 0.808198895 1.020269917 0.54126418 0.958685056 0.93229675 0.948393836 1 12.02343264 -9.540790396 1.230084281 1.002341231 0.837640653 0.075800917 0.170041205 0.840298509 2.223581375 0.119524928 0.026756638 2.88E-10 9.540790396 -0.164700578 HNIMDFAMPYFIQVMK ddPTM_HeLa_SAHA_4h_R1 4 HNIMDFAMPYFIQVMK 16 0 A0A087WVQ6;Q00610-2;Q00610;J3KS13;K7EJJ5;J3KRF5 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 ;;; ;;; 177.84 6.79E-13 7423490 2055.83 1611.06 2946.86 2612.67 2536.72 687.43 2755.25 302.29 1163.29 2189.16 FALSE FALSE TRUE 2272.071632 1663.259401 3348.442734 2663.242006 2342.357062 628.8570966 2445.222019 294.5578595 1155.19457 2283.545401 0.994975458 0.728367126 1.466335083 1.166275041 1.02575454 0.27538629 1.070800702 0.128991462 0.505877645 1 11.15705976 -5.28672753 22.62664694 1.02751414 0.549633698 0.306374502 0.331511315 162.9941822 145839.4324 0.0374029 0.083686608 5.17E-06 5.28672753 -0.477880442 HNMSGGEFQGK(ac)R ddPTM_HeLa_SAHA_4h_R1 4 HNMSGGEFQGKR 12 1 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 0 1 ;;; HNMSGGEFQGK(1)R;HNMSGGEFQGK(1)R;HNMSGGEFQGK(1)R;HNMSGGEFQGK(1)R 135.58 0.00011263 3977650 871.083 1026.86 746.23 1407.73 1845.46 1201.32 1306.1 1721.537 881.607 836.18 FALSE TRUE FALSE 962.7075066 1060.130938 847.9223382 1434.97865 1704.061253 1098.960778 1159.134191 1677.502576 875.4718251 872.231812 1.103728955 1.215423381 0.972129572 1.645180364 1.95367932 1.259941179 1.328929047 1.923230216 1.003714624 1 9.768567799 -6.258423569 24.940822 1.060118256 1.60419057 0.632169037 0.214579727 130.9981942 1083356.177 0.031970112 0.051541844 5.52E-07 6.258423569 0.544072314 HNQLPLVIEFTEQTAPK ddPTM_HeLa_SAHA_4h_R1 1 HNQLPLVIEFTEQTAPK 17 0 P07237;H7BZ94;I3L398;I3L312;I3L4M2;I3NI03 P07237 P4HB Protein disulfide-isomerase 0 0 81.992 0.0068838 1122200 289.42 460.84 518.43 396.61 582.63 553.85 696.07 507.49 579.33 432.27 FALSE FALSE TRUE 319.8625235 475.7715184 589.0789405 404.2869601 537.9890153 506.6588641 617.7463716 494.5091406 575.2983954 450.9072752 0.709375388 1.055142697 1.30643033 0.896607756 1.193125605 1.123643135 1.370007551 1.096698075 1.275868515 1 8.816686977 -7.033914866 7.696904549 0.863476833 1.162800842 0.021733868 0.188076244 0.167890238 33.27467476 0.02537685 0.031473882 9.25E-08 7.033914866 0.299324009 HNS(ph)SDGFFNNGPLR ddPTM_HeLa_SAHA_4h_R1 1 HNSSDGFFNNGPLR 14 0 Q9HC44 Q9HC44 GPBP1L1 Vasculin-like protein 1 1 0 HNS(0.619)S(0.381)DGFFNNGPLR 108.97 0.0019345 5770000 1004.5 1166.5 987.53 1295.8 1452.7 441.99 1427.5 924.99 854.89 812.24 TRUE FALSE FALSE 1110.157919 1204.295365 1122.105446 1320.882083 1341.39444 404.3299654 1266.873943 901.3300952 848.9407509 847.2596414 1.310292459 1.421400603 1.324393835 1.559005077 1.583215315 0.477220849 1.49526058 1.063818045 1.001984173 1 9.726660339 -3.113119321 14.05960112 1.206544165 1.198917442 0 0.325126297 0 0 0.041309894 0 0.000770692 3.113119321 -0.007626723 HNS(ph)TTSSTSSGGYR ddPTM_HeLa_SAHA_4h_R1 6 HNSTTSSTSSGGYR 14 0 A0A0A0MRT6;Q8IZP0-2;Q8IZP0-4;Q8IZP0-3;Q8IZP0-5;Q8IZP0-6;Q8IZP0-9;Q8IZP0-12;Q8IZP0 A0A0A0MRT6 ABI1 Abl interactor 1 1 0 HNS(0.979)T(0.016)T(0.005)SSTSSGGYR;HNS(0.696)T(0.12)T(0.12)S(0.039)S(0.022)T(0.003)SSGGYR;HNS(0.973)T(0.019)T(0.006)S(0.002)STSSGGYR;HNS(0.445)T(0.445)T(0.035)S(0.035)S(0.018)T(0.018)S(0.005)SGGYR;HNS(0.891)T(0.093)T(0.01)S(0.003)S(0.001)T(0.002)SSGGYR;HNS(0.954)T(0.037)T(0.006)S(0.002)STSSGGYR ;;;;; 125.61 0.00053566 10655870 125.438 822.54 118.57 272.21 908.65 962.037 950.69 582.58 465.06 620.018 TRUE FALSE FALSE 138.6321444 849.1908357 134.7281021 277.4790182 839.0294333 880.0660353 843.7158591 567.6784472 461.8236096 646.7500103 0.214351979 1.313012481 0.208315578 0.42903597 1.297300997 1.360751483 1.304547114 0.877740144 0.714068191 1 9.337064362 -5.753682114 24.95435956 0.629807408 1.227594243 0.397255209 0.339468583 148.919501 479055.1585 0.056584398 0.111500977 1.76E-06 5.753682114 0.597786835 HNS(ph)WSSSSR ddPTM_HeLa_SAHA_4h_R1 2 HNSWSSSSR 9 0 H3BQ37;H3BPW9;Q96F86 H3BQ37 EDC3 Enhancer of mRNA-decapping protein 3 1 0 HNS(0.992)WS(0.008)SSSR;HNS(0.992)WS(0.007)SS(0.001)SR ; 127.52 0.0024456 15206200 790.87 1098.48 473.84 1177.03 1661.64 1501.22 1351.14 1255.12 1100.6 1384.43 TRUE FALSE FALSE 874.0573352 1134.071473 538.4124475 1199.813118 1534.325502 1373.30761 1199.106171 1223.015848 1092.940835 1444.119553 0.605252753 0.785303039 0.372830938 0.830826725 1.062464323 0.950965319 0.83033719 0.846893767 0.756821576 1 10.49597447 -5.993396555 24.92840371 0.768650267 0.921660979 0.240544668 0.164901824 294.8801535 1113177.881 0.030484474 0.055164004 1.02E-06 5.993396555 0.153010712 HNSS(ph)DGFFNNGPLR ddPTM_HeLa_SAHA_4h_R1 1 HNSSDGFFNNGPLR 14 0 Q9HC44 Q9HC44 GPBP1L1 Vasculin-like protein 1 1 0 HNS(0.36)S(0.64)DGFFNNGPLR 82.877 0.011556 5279500 1012.7 1362.3 1142.7 1478.3 1476.7 736.36 1604.1 1087.6 1357.9 1108.5 TRUE FALSE FALSE 1119.220432 1406.439414 1298.421205 1506.914634 1363.555565 673.6179854 1423.602446 1059.780767 1348.450263 1156.29286 0.967938549 1.216334946 1.122917256 1.303229213 1.179247587 0.582566933 1.2311781 0.916533176 1.166184027 1 10.17529113 -2.504494881 14.23206808 1.026785551 0.730353647 0 0.204868372 0 0 0.025285455 0 0.003129717 2.504494881 -0.296431904 HNTPS(ph)LLEAALTQEASTPDSQVWPTAPDITR ddPTM_HeLa_SAHA_4h_R1 1 HNTPSLLEAALTQEASTPDSQVWPTAPDITR 31 0 Q6P2E9;Q6P2E9-2 Q6P2E9 EDC4 Enhancer of mRNA-decapping protein 4 1 0 HNT(0.344)PS(0.655)LLEAALTQEASTPDSQVWPTAPDITR 79.731 2.77E-06 3888700 360.13 573.59 501.25 444.35 478.93 100.05 425.59 359.75 579.63 603.78 TRUE FALSE FALSE 398.0101257 592.1746923 569.5577396 452.9510368 442.2344869 91.52517713 377.7014931 350.5481159 575.5963076 629.8119106 0.631950776 0.940240542 0.904329896 0.719184616 0.702169139 0.145321445 0.599705224 0.556591754 0.913917787 1 9.298777231 -5.485898071 5.983845969 0.827478249 0.444227178 0.597191228 0.152484868 0.128009123 12.96794612 0.025636553 0.056661763 3.27E-06 5.485898071 -0.383251071 HPDVEVDGFSELR ddPTM_HeLa_SAHA_4h_R1 2 HPDVEVDGFSELR 13 0 P09874;Q5VX84;Q5VX85 P09874 PARP1 Poly [ADP-ribose] polymerase 1 0 0 ; ; 168.76 3.31E-05 16796300 3441.3 3297.3 2501.92 3433.4 3582.6 3322.9 4001.8 2972.79 3866.5 3302.9 FALSE FALSE TRUE 3803.271723 3404.134683 2842.868628 3499.858422 3308.101962 3039.770226 3551.506932 2896.750336 3839.592712 3445.304183 1.103900126 0.988050547 0.825143 1.015834375 0.960177037 0.882293715 1.030825362 0.840782173 1.114442298 1 11.75041565 -7.001420988 24.99947365 1.048901393 0.931978789 0.455417447 0.070362403 41.72938443 734163.6685 0.011019449 0.01437252 9.97E-08 7.001420988 -0.116922604 HPEPVPEEGS(ph)EDELPPQVHKV ddPTM_HeLa_SAHA_4h_R1 6 HPEPVPEEGSEDELPPQVHKV 21 1 Q7Z3C6;H7C152;Q7Z3C6-2 Q7Z3C6 ATG9A Autophagy-related protein 9A 1 0 HPEPVPEEGS(1)EDELPPQVHKV;HPEPVPEEGS(1)EDELPPQVHKV;HPEPVPEEGS(1)EDELPPQVHKV;HPEPVPEEGS(1)EDELPPQVHKV;HPEPVPEEGS(1)EDELPPQVHKV;HPEPVPEEGS(1)EDELPPQVHKV ;;;;; 101.53 0.00016941 104287000 11499.34 13773.67 11837.45 11551.6 14183.69 6661.42 14291.17 13487.32 12106.56 13882.2 TRUE FALSE FALSE 12708.89334 14219.94595 13450.59604 11775.19792 13096.93874 6093.82954 12683.08994 13142.33388 12022.30946 14480.72958 0.877641784 0.981990988 0.928861765 0.813163305 0.904439149 0.420823378 0.875859871 0.907574015 0.830228159 1 13.82184667 -5.975195239 1.769418011 0.943759782 0.753560292 0.203363259 0.138165212 0.344814254 2.158852283 0.020833026 0.042607534 1.06E-06 5.975195239 -0.19019949 HPHDIIDDINSGAVECPAS ddPTM_HeLa_SAHA_4h_R1 2 HPHDIIDDINSGAVECPAS 19 0 P30050;P30050-2 P30050 RPL12 60S ribosomal protein L12 0 0 ; ; 145.55 9.99E-05 18506700 1530.51 1866.11 1735.36 1650.69 1573.97 1222.34 1929.79 1863.99 1872.68 1574.22 FALSE FALSE TRUE 1691.496064 1926.573188 1971.845823 1682.641492 1453.372759 1118.189755 1712.64495 1816.311835 1859.647867 1642.092328 1.030085845 1.173242914 1.200813005 1.024693595 0.885073716 0.680954253 1.042965076 1.106096048 1.132486789 1 10.68131953 -5.839303789 6.372150121 1.044520112 0.919567575 0.241240198 0.126189778 0.29061503 18.86257884 0.019415173 0.035573798 1.45E-06 5.839303789 -0.124952537 HPKGEEGS(ph)DDDETENGPKPK ddPTM_HeLa_SAHA_4h_R1 1 HPKGEEGSDDDETENGPKPK 20 2 Q6PD62 Q6PD62 CTR9 RNA polymerase-associated protein CTR9 homolog 1 0 HPKGEEGS(0.997)DDDET(0.003)ENGPKPK 49.662 0.014474 12803000 5304.4 3742.9 3869.2 4208.2 4631 1363.1 4834.1 4968.9 3681.3 3989.7 TRUE FALSE FALSE 5862.341129 3864.172416 4396.474426 4289.655796 4276.17378 1246.956211 4290.154345 4841.802733 3655.681534 4161.715492 1.408635727 0.928504705 1.056409174 1.030742203 1.02750267 0.29962553 1.030861998 1.163415121 0.878407364 1 12.02296263 -6.324894367 1.219902908 1.181170226 0.861058514 0.019076139 0.263318522 0.537901438 1.581345549 0.046576881 0.088558858 4.73E-07 6.324894367 -0.320111712 HPNYS(ph)PPGSPIEK ddPTM_HeLa_SAHA_4h_R1 1 HPNYSPPGSPIEK 13 0 Q9UHF7;Q9UHF7-3;Q9UHF7-2;E5RFF3;H0YAV4 Q9UHF7 TRPS1 Zinc finger transcription factor Trps1 1 0 HPNYS(0.969)PPGS(0.031)PIEK 115.12 0.00061544 0 860.46 854.45 788.14 1078.2 972.19 657 851.62 1061.4 777.51 722.31 TRUE FALSE FALSE 950.9671307 882.1347406 895.5436147 1099.07012 897.7010122 601.0199038 755.7934763 1034.250925 772.0992446 753.452319 1.262146398 1.170790398 1.188586978 1.45871224 1.191450328 0.79768804 1.00310724 1.372682649 1.024748647 1 9.557372406 -4.238095925 22.45073457 1.132614488 1.372683744 0.161104324 0.170099899 2478.30175 2383372.166 0.025457798 1.560684181 5.78E-05 4.238095925 0.240069256 HPPDDDLSQDSPEQEAS(ph)KSPR ddPTM_HeLa_SAHA_4h_R1 2 HPPDDDLSQDSPEQEASKSPR 21 1 Q9P0K8-2;Q9P0K8 Q9P0K8-2 FOXJ2 Forkhead box protein J2 1 0 HPPDDDLSQDS(0.022)PEQEAS(0.489)KS(0.489)PR;HPPDDDLS(0.003)QDS(0.088)PEQEAS(0.454)KS(0.454)PR ; 66.068 0.002492 14475300 5743.4 5980.8 5755 6665.3 7090.8 2202.05 7737.1 7711.2 7103.8 6224.9 TRUE FALSE FALSE 6347.517164 6174.581844 6539.261429 6794.31652 6547.504436 2014.422952 6866.501145 7513.95867 7054.364077 6493.285903 0.977550852 0.950917908 1.007080472 1.04636029 1.008349938 0.310231673 1.0574771 1.157188946 1.086408974 1 12.66473302 HPQGEQMYR ddPTM_HeLa_SAHA_4h_R1 1 HPQGEQMYR 9 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;E9PMV1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 143.7 0.00079389 1568400 0 123.94 0 0 0 108.62 108.44 147.18 0 0 FALSE FALSE TRUE 0 127.9557373 0 0 0 99.36496492 96.2380458 143.4153487 0 0 0 HPS(ph)SPSALR ddPTM_HeLa_SAHA_4h_R1 1 HPSSPSALR 9 0 O60504-2;O60504;H0YAZ3;H0YB51 O60504-2 SORBS3 Vinexin 1 0 HPS(0.851)S(0.149)PSALR 97.452 0.0097679 9599200 256.3 361.56 267.06 405.69 476.99 311.79 238.04 368.24 337.98 153.4 TRUE FALSE FALSE 283.2588099 373.2747812 303.453546 413.5427166 440.4431292 285.2237379 211.2551127 358.820954 335.6279697 160.0138247 1.770214608 2.332765821 1.896420803 2.584418673 2.752531727 1.782494346 1.320230381 2.242437206 2.097493577 1 7.322052745 -8.345011889 0.742870304 1.065168337 2.118973172 0.028537103 0.507852481 0.370737328 0.435897141 0.182247958 0.099398179 4.52E-09 8.345011889 1.053804835 HPVLCQSLLPILVQHITGPVRPR ddPTM_HeLa_SAHA_4h_R1 1 HPVLCQSLLPILVQHITGPVRPR 23 1 Q9BQG0;Q9BQG0-2;I3L1L3 Q9BQG0 MYBBP1A Myb-binding protein 1A 0 0 46.877 0.015634 1913100 245.48 1377.8 492.66 420.59 380.75 136.63 857.34 275.1 181.29 325.62 FALSE FALSE TRUE 271.3007127 1422.441624 559.7971391 428.7311276 351.5770173 124.9883553 760.8698468 268.0633403 180.0283881 339.6590717 0.798744198 4.18785112 1.648114788 1.262239591 1.035087965 0.367981796 2.240098705 0.789212957 0.530026733 1 8.407943577 -4.749732889 24.99850304 1.196687712 1.514654809 0 1.075268707 1161.976522 2481282.081 0.149584102 0.550454366 1.78E-05 4.749732889 0.317967097 HQAFEAELHANADR ddPTM_HeLa_SAHA_4h_R1 2 HQAFEAELHANADR 14 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 ; ; 149.32 3.42E-05 11895100 1492.34 1775.07 1562.71 1590.15 1800.44 1388.76 1956.97 1330.52 1815.04 1598.59 FALSE FALSE TRUE 1649.311168 1832.583433 1775.667981 1620.929653 1662.490676 1270.429835 1736.766585 1296.487225 1802.408989 1667.513038 0.989084421 1.098991966 1.064860028 0.972064155 0.996988112 0.761871005 1.041531038 0.777497504 1.080896489 1 10.70348233 -5.432991748 11.96674242 1.006886283 0.878403293 0.444592378 0.083229468 0.650393902 84.80801128 0.010380658 0.023215726 3.69E-06 5.432991748 -0.12848299 HQAS(ph)INELKR ddPTM_HeLa_SAHA_4h_R1 1 HQASINELKR 10 1 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0;Q9H4G0-4;H7C2K6;X6RC15 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 HQAS(1)INELKR 84.892 0.011756 17581000 2637 2944.9 3379.6 2681.6 2546.2 1892 3992.9 2304 1854.1 3033.8 TRUE FALSE FALSE 2914.371759 3040.316692 3840.154288 2733.506246 2351.110706 1730.790956 3543.608383 2245.067016 1841.197167 3164.601965 0.920928379 0.960726412 1.213471498 0.86377569 0.742940418 0.546922164 1.119764325 0.709431088 0.581810031 1 11.62780834 -6.00813581 24.40000934 0.981245177 0.789410998 0.098183437 0.198589737 289.2897227 867611.3771 0.021890028 0.038383073 9.81E-07 6.00813581 -0.191834179 HQELRDPT(ph)GS(ph)LGRS(ph)PNH ddPTM_HeLa_SAHA_4h_R1 1 HQELRDPTGSLGRSPNH 17 2 A0A087WUB7 A0A087WUB7 NBPF3 3 0 HQELRDPT(1)GS(1)LGRS(1)PNH 67.519 0.0057573 0 300.18 404.99 267.5 375.53 397.67 441.77 448.8 445.64 565.52 354.16 TRUE FALSE FALSE 331.7543097 418.1119417 303.9535069 382.7989262 367.2006105 404.1287107 398.2998428 434.2411741 561.5845003 369.4295708 0.898017744 1.131777136 0.822764421 1.036189186 0.993966481 1.093926265 1.078148243 1.175436967 1.520139547 1 8.529155541 -4.909069357 0.816681093 0.957655701 1.188908388 0 0.194331667 0.823074983 0.676528856 0.012654064 0.140358711 1.23E-05 4.909069357 0.231252688 HQGVMVGMGQK ddPTM_HeLa_SAHA_4h_R1 25 HQGVMVGMGQK 11 0 P60709;A0A2R8Y793;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5;Q562R1;P63267;P68133;P68032;P62736;A6NL76;F8WB63;B8ZZJ2;C9JFL5;F6UVQ4;F6QUT6;P63261;I3L3I0;I3L1U9;K7EM38;I3L3R2;J3KT65 P60709;P63267;P63261 ACTB;ACTBL2;ACTG2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Beta-actin-like protein 2;Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;;;;;;;;;;;;;;;;;;;;;;;; ;;;;;;;;;;;;;;;;;;;;;;;; 155.15 1.46E-07 320764200 109369.36 102933.92 105538.29 108461.33 120321.6 100591.25 130115.4 100918.34 80567.576 93918.37 FALSE FALSE TRUE 120873.3311 106269.0465 119920.4985 110560.7559 111102.585 92020.30959 115474.4727 98336.99499 80006.89968 97967.65056 1.233808613 1.084736093 1.224082622 1.128543506 1.134074201 0.939292808 1.178700031 1.003770065 0.816666514 1 16.58001782 HQNS(ph)LPELEAAEAGAPGSGPVDLFR ddPTM_HeLa_SAHA_4h_R1 2 HQNSLPELEAAEAGAPGSGPVDLFR 25 0 Q96BZ8 Q96BZ8 LENG1 Leukocyte receptor cluster member 1 1 0 HQNS(1)LPELEAAEAGAPGSGPVDLFR;HQNS(1)LPELEAAEAGAPGSGPVDLFR ; 129.96 7.82E-09 15053100 2579.1 3584.9 3035 1311.09 2202.41 1823.68 3446.1 1554.51 1500.36 2931.1 TRUE FALSE FALSE 2850.381571 3701.053112 3448.593994 1336.468043 2033.661822 1668.292204 3058.335758 1514.747885 1489.918873 3057.474065 0.932266803 1.210493706 1.127922566 0.437115087 0.665144423 0.545643943 1.000281832 0.495424606 0.487303846 1 11.57812455 -6.269639151 24.99933434 1.000148751 0.646772212 0.317830975 0.230344268 360.1274201 1097950.028 0.024695108 0.038117532 5.37E-07 6.269639151 -0.353376538 HQPS(ph)TPDPFLKPR ddPTM_HeLa_SAHA_4h_R1 2 HQPSTPDPFLKPR 13 1 O14686;O14686-3 O14686 KMT2D Histone-lysine N-methyltransferase 2D 1 0 HQPS(0.5)T(0.5)PDPFLKPR;HQPS(0.718)T(0.282)PDPFLKPR ; 59.864 0.018578 10793600 1920.89 1712.7 1853.67 1745.12 1688.27 2255.17 2224.9 1841.28 1891.96 2024.95 TRUE FALSE FALSE 2122.938024 1768.192604 2106.278494 1778.899321 1558.915117 2063.016829 1974.548396 1794.182724 1878.793696 2112.255504 1.005057399 0.837111136 0.997170319 0.842179991 0.738033403 0.976689053 0.934805658 0.849415575 0.889472742 1 11.04456864 -7.276155477 24.13263154 1.002388223 0.885195918 0.137151349 0.079518978 385.6218828 632372.1084 0.011902574 0.01364452 5.29E-08 7.276155477 -0.117192306 HQPWQS(ph)PERPLSR ddPTM_HeLa_SAHA_4h_R1 1 HQPWQSPERPLSR 13 1 E7ES68;G5E9D5;Q9BQ52;Q9BQ52-2;J3QRS2;V9GYU5;J3QL08;V9GYS7 E7ES68 ELAC2 Zinc phosphodiesterase ELAC protein 2 1 0 HQPWQS(0.985)PERPLS(0.015)R 66.568 0.014394 12927000 645.82 785.23 607.27 897.44 958.78 962.32 1099.4 566.93 1067.6 853.49 TRUE FALSE FALSE 713.7503107 810.6719672 690.0255931 914.8112489 885.3184835 880.3249221 975.6926185 552.4287515 1060.170485 890.2881308 0.801707095 0.910572588 0.775058736 1.027545148 0.994417934 0.988809007 1.095929042 0.620505578 1.190817274 1 9.798128512 -6.221817462 24.99755796 0.895413419 0.95893198 0 0.161820277 1470.470151 927723.0406 0.020313152 0.033685131 6.00E-07 6.221817462 0.063518561 HQPWQSPERPLS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 HQPWQSPERPLSR 13 1 E7ES68;G5E9D5;Q9BQ52;Q9BQ52-2;J3QRS2;V9GYU5;J3QL08;V9GYS7 E7ES68 ELAC2 Zinc phosphodiesterase ELAC protein 2 1 0 HQPWQS(0.003)PERPLS(0.997)R 82.942 0.009903 59964000 1166.5 1169.6 898.43 1290.2 1571.1 1134.8 1217.3 865.53 2093.3 1166.2 TRUE FALSE FALSE 1289.197822 1207.495807 1020.863362 1315.173687 1450.722657 1038.108656 1080.3262 843.3909959 2078.732555 1216.480589 1.059776731 0.992614118 0.839194123 1.081130022 1.192557177 0.853370506 0.888075165 0.693304113 1.708808651 1 10.24849758 -4.581575954 1.549522348 1.023260155 0.684060008 0.196205552 0.23620342 0.361284491 1.224158447 0.013522216 0.154412271 2.62E-05 4.581575954 -0.339200148 HQQQLLAS(ph)PGSSTVDNK ddPTM_HeLa_SAHA_4h_R1 3 HQQQLLASPGSSTVDNK 17 0 F2Z2X4;Q9C0E2 F2Z2X4 XPO4 Exportin-4 1 0 HQQQLLAS(1)PGSSTVDNK;HQQQLLAS(0.629)PGS(0.183)S(0.183)T(0.005)VDNK;HQQQLLAS(1)PGSSTVDNK ;; 286.84 8.08E-73 37532300 6097.3 6429.9 5236 5367.7 7220.5 6123.3 6702.5 6984.3 5483.1 6597.3 TRUE FALSE FALSE 6738.641989 6638.232979 5949.534812 5471.599595 6667.26685 5601.560391 5948.31706 6805.651719 5444.942661 6881.741889 0.979205861 0.964615222 0.864539081 0.795089337 0.968834193 0.813974206 0.864362127 0.988943182 0.791215763 1 12.74855807 -6.865690275 4.249906598 0.989363401 0.878695486 0 0.084536776 0.140137767 4.578999803 0.008718506 0.011635902 1.36E-07 6.865690275 -0.110667915 HQS(ph)DGNEIAHTR ddPTM_HeLa_SAHA_4h_R1 1 HQSDGNEIAHTR 12 0 O43166-3;O43166-2;O43166;F5GYF8 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 HQS(1)DGNEIAHTR 106.87 0.0029409 1461800 538.43 473.31 552.92 669.72 614.79 545.62 693.98 615.98 711.26 746.76 TRUE FALSE FALSE 595.0645378 488.6455546 628.2690581 682.683399 567.684923 499.1301064 615.8915439 600.2241235 706.3102837 778.9564782 0.76392527 0.627307903 0.806552196 0.876407628 0.728776175 0.640767643 0.79066233 0.770548985 0.906739084 1 9.605398914 -9.005897327 0.717175065 1.008834925 0.748706722 0.52027089 0.075556652 0.386590397 0.350397812 0.057271065 0.015849718 9.87E-10 9.005897327 -0.260128202 HQS(ph)FGAAVLSR ddPTM_HeLa_SAHA_4h_R1 4 HQSFGAAVLSR 11 0 Q5VV41 Q5VV41 ARHGEF16 Rho guanine nucleotide exchange factor 16 1 0 HQS(1)FGAAVLSR;HQS(1)FGAAVLSR;HQS(1)FGAAVLSR;HQS(1)FGAAVLSR ;;; 145.94 0.00053076 46851900 5863.13 7565.2 6879.74 5394.51 6511.51 4359.28 6783 4991.57 4430.94 6501.11 TRUE FALSE FALSE 6479.840914 7810.317444 7817.275139 5498.928542 6012.599511 3987.844819 6019.758988 4863.892867 4400.104728 6781.404668 0.955530783 1.151725612 1.152751609 0.81088341 0.886630397 0.58805587 0.887686148 0.717239732 0.648848571 1 12.72736842 -6.106620133 6.397057386 1.00590427 0.775114878 0.301079388 0.153782746 0.145316793 7.54029619 0.015925425 0.026599333 7.82E-07 6.106620133 -0.230789392 HRDYETATLSDIK ddPTM_HeLa_SAHA_4h_R1 2 HRDYETATLSDIK 13 1 O43707;O43707-2 O43707 ACTN4 Alpha-actinin-4 0 0 ; ; 99.732 0.0034467 17152500 4031.2 3892.5 4196.5 4576.4 5094.5 3532.6 5119.6 4088.3 4198.2 3787.4 FALSE FALSE TRUE 4455.220112 4018.619554 4768.377166 4664.98284 4704.160511 3231.602606 4543.529134 3983.727206 4168.984384 3950.693349 1.127705878 1.01719349 1.206972231 1.180801046 1.190717703 0.81798366 1.150058669 1.008361534 1.055253854 1 11.94789015 -3.938687115 13.0411006 1.07358109 0.597266374 0.032369294 0.112271229 1175470.762 7772870.329 0.015367853 14059551.86 0.000115163 3.938687115 -0.476314716 HREDS(ph)DVEMVEDDSRK ddPTM_HeLa_SAHA_4h_R1 1 HREDSDVEMVEDDSRK 16 2 H0Y4N0;H0Y806;E7EUC9;A0A087WX20;A0A669KB03;A0A669KBB4;A0A669KBK2;H0Y818;A0A669KAW3;P40692-2;P40692-3;P40692 H0Y4N0 MLH1 DNA mismatch repair protein Mlh1 1 0 HREDS(1)DVEMVEDDSRK 59.182 0.015277 19472000 1515.8 1738.8 1532.2 1720.9 2064.9 1094.8 2579.7 2123.9 1582 1894.4 TRUE FALSE FALSE 1675.238799 1795.138261 1741.000237 1754.210508 1906.687808 1001.516881 2289.425367 2069.573713 1570.990733 1976.076855 0.847759941 0.908435447 0.881038727 0.887723827 0.964885451 0.506820814 1.158571015 1.047314384 0.795004875 1 10.94842334 -9.476157062 1.200962055 1.000328426 0.8920726 0 0.170628949 1.201831907 3.086359749 0.107723257 0.026106387 3.34E-10 9.476157062 -0.108255826 HRGS(ph)ADYSMEAK ddPTM_HeLa_SAHA_4h_R1 2 HRGSADYSMEAK 12 1 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726;A0A0D9SES8 H0YKH0 TLE3 Transducin-like enhancer protein 3 1 0 HRGS(1)ADYSMEAK;HRGS(1)ADYSMEAK ; 99.451 0.0040943 29813000 7251 7781.3 7041.5 8210.4 8937.6 5228.1 8888.7 8621.8 8542.6 9015 TRUE FALSE FALSE 8013.693449 8033.419225 8001.078949 8369.324164 8252.803019 4782.636468 7888.520082 8401.26684 8483.151351 9403.680768 0.852186888 0.854284553 0.850845445 0.890005134 0.87761412 0.508591964 0.838875785 0.893401961 0.90210967 1 13.19900985 -9.422700285 0.214655271 1.137067358 0.756699537 0.19330695 0.108549801 7.100099292 0.46143133 0.758948165 0.146398431 3.78E-10 9.422700285 -0.380367821 HRHS(ph)PTGPPGFPR ddPTM_HeLa_SAHA_4h_R1 1 HRHSPTGPPGFPR 13 1 P98175-2;P98175;P98175-5 P98175-2 RBM10 RNA-binding protein 10 1 0 HRHS(0.985)PT(0.015)GPPGFPR 68.168 0.013487 8376600 1514.8 1312.1 1898.6 1832.6 1770.8 96.431 1977.3 1411.2 1335.9 1627 TRUE FALSE FALSE 1674.133614 1354.612901 2157.331321 1868.072623 1635.121687 88.21453629 1754.809 1375.103547 1326.603363 1697.147932 0.986439415 0.798170198 1.271151017 1.1007129 0.963452658 0.051978107 1.033975275 0.810243775 0.781666311 1 10.72889661 -5.488697868 24.99989854 1.007990055 0.644833102 0.270549277 0.265310321 557.6131774 407837.9396 0.033991125 0.075966457 3.25E-06 5.488697868 -0.363156953 HRHSPT(ph)GPPGFPR ddPTM_HeLa_SAHA_4h_R1 1 HRHSPTGPPGFPR 13 1 P98175-2;P98175;P98175-5 P98175-2 RBM10 RNA-binding protein 10 1 0 HRHS(0.372)PT(0.628)GPPGFPR 64.64 0.01638 9347900 2017.4 1682.1 2086 2255.6 2296.9 199.15 2283.6 1886.5 2235 2299.9 TRUE FALSE FALSE 2229.599388 1736.601144 2370.269217 2299.2604 2120.912018 182.1812996 2026.643318 1838.246062 2219.446453 2399.059944 0.929363767 0.723867341 0.987999163 0.958400562 0.884059618 0.075938619 0.844765602 0.766235986 0.92513172 1 11.22825349 -5.494757323 24.99726978 0.945873546 0.572131997 0.385487237 0.203239767 504.8827592 448792.4609 0.027409045 0.061159608 3.20E-06 5.494757323 -0.373741549 HRMS(ph)PGVAGSPR ddPTM_HeLa_SAHA_4h_R1 1 HRMSPGVAGSPR 12 1 E7EWM1;Q15596 E7EWM1 NCOA2 Nuclear receptor coactivator 2 1 0 HRMS(0.988)PGVAGS(0.012)PR 77.068 0.014459 2352300 293.08 255.05 115.55 229.69 305.7 274.01 232.69 292.81 397.59 336.61 TRUE FALSE FALSE 323.9074991 263.3137873 131.2965522 234.1359821 282.277332 250.6628065 206.5071088 285.3203442 394.8231388 351.1229044 0.922490373 0.749919142 0.373933317 0.666820589 0.803927424 0.713889078 0.588133403 0.81259394 1.124458512 1 8.455832299 -7.225063512 3.400369655 0.965719506 0.659909225 0.600227132 0.127805155 0.126968995 3.005850671 0.020441151 0.02460121 5.96E-08 7.225063512 -0.30581028 HRPELIEYDK ddPTM_HeLa_SAHA_4h_R1 2 HRPELIEYDK 10 1 O43707;K7EJH8 O43707 ACTN4 Alpha-actinin-4 0 0 ; ; 115.78 0.0023725 5983900 4558.9 4238.6 4250.1 5642.8 5997.5 4607 5681.4 3124.2 4333.3 4344.6 FALSE FALSE TRUE 5038.426019 4375.933421 4829.281494 5752.024554 5537.972846 4214.457682 5042.113919 3044.287488 4303.144212 4531.916968 1.111764857 0.965581111 1.065615617 1.269225494 1.221993449 0.92995033 1.112578619 0.67174388 0.94951965 1 12.14590571 -4.257605177 24.74901301 1.069316124 0.671743703 0.550522726 0.10784297 188.1083654 1214143.364 0.014469506 0.145109899 5.53E-05 4.257605177 -0.397572421 HRPS(ph)PPATPPPK ddPTM_HeLa_SAHA_4h_R1 1 HRPSPPATPPPK 12 1 A9Z1X7;Q8IYB3;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 HRPS(1)PPATPPPK 121.18 0.00088095 3464600 2391 2508.5 1931.4 2619.8 3028.1 2527.5 3254.6 2644.8 2722.6 2311.9 TRUE FALSE FALSE 2642.49635 2589.777046 2194.601134 2670.510017 2796.087632 2312.142781 2888.383842 2577.149846 2703.653205 2411.577323 1.095754353 1.073893431 0.910027272 1.107370679 1.159443492 0.95876784 1.197715626 1.068657356 1.121114044 1 11.23576135 HRPSAGGPDS(ph)AGR ddPTM_HeLa_SAHA_4h_R1 1 HRPSAGGPDSAGR 13 1 Q01970-2;Q01970 Q01970-2 PLCB3 "1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-3" 1 0 HRPSAGGPDS(1)AGR 72.428 0.016921 601860 0 0 0 138.72 123.01 170.06 192.17 105.28 205.65 124.15 TRUE FALSE FALSE 0 0 0 141.4051262 113.5850004 155.5699313 170.5465258 102.58709 204.2188649 129.5027141 0 0 0 1.091908592 0.877085868 1.201287034 1.316933989 0.792161699 1.576946602 1 7.016838524 -6.233296985 23.47633439 0.431818182 1.068524573 0.225440247 0.488513646 324.0587541 270328.6963 0.06954361 0.115302665 5.84E-07 6.233296985 0.63670639 HRS(ph)EPQHPK ddPTM_HeLa_SAHA_4h_R1 2 HRSEPQHPK 9 1 A0A087WZ32;A0A087X038;A8K727;Q9HB19 A0A087WZ32 PLEKHA2 Pleckstrin homology domain-containing family A member 2 1 0 HRS(1)EPQHPK;HRS(1)EPQHPK ; 106.67 0.0028448 1382250 569.38 705.29 1011.03 1616.43 646.67 398.038 1129.06 1397.87 1436.01 880.52 TRUE FALSE FALSE 629.2700008 728.1418588 1148.807903 1647.71834 597.1222843 364.1229231 1002.015197 1362.114509 1426.016689 918.4835264 0.68511844 0.79276529 1.250765931 1.793955246 0.650117577 0.396439253 1.090945203 1.483003745 1.552577317 1 9.843110036 -6.778930942 24.83593064 0.842760674 1.087597208 0 0.436683592 465.0790604 660354.8526 0.064726918 0.085174188 1.66E-07 6.778930942 0.244836534 HRWPT(ph)GDNIHAEHQVR ddPTM_HeLa_SAHA_4h_R1 1 HRWPTGDNIHAEHQVR 16 1 Q5T1Z4;Q5T1Z8;Q14671-2;Q14671;Q14671-3;E9PR38;Q14671-4;H0YEH2 Q5T1Z4 PUM1 Pumilio homolog 1 1 0 HRWPT(1)GDNIHAEHQVR 64.5 0.0086072 10574000 1831.1 1570.1 2039.5 2742.1 2303.2 592.59 2618.9 2311.9 1776.4 1988.4 TRUE FALSE FALSE 2023.703499 1620.97227 2317.432439 2795.177311 2126.729314 542.0979982 2324.214479 2252.764946 1764.037888 2074.129655 0.975688041 0.781519259 1.117303556 1.347638661 1.02535987 0.261361674 1.120573381 1.086125421 0.850495476 1 11.01829037 HRYTSAGIS(ph)QY(ph)T(ph)VK ddPTM_HeLa_SAHA_4h_R1 1 HRYTSAGISQYTVK 14 1 A0A087WVS4;A0A087WUG7;A0A087WXZ6;A0A0A0MRM3;Q92637-3;Q92637-2;Q92637 A0A087WVS4 FCGR1B High affinity immunoglobulin gamma Fc receptor IB 3 0 HRY(0.002)T(0.023)S(0.009)AGIS(0.976)QY(0.99)T(1)VK 55.314 0.020053 4204400 889.59 738.88 718.63 957.43 1087.1 1125.1 1310.3 1040.4 1014.9 883.67 TRUE FALSE FALSE 983.1611578 762.8201968 816.5611539 975.9624421 1003.806633 1029.23515 1162.861595 1013.788074 1007.837228 921.7693383 1.06660215 0.827560828 0.885862786 1.058792478 1.088999808 1.116586447 1.261553783 1.099828376 1.093372481 1 9.848261968 -5.480453039 1.797019577 1.004324944 1.175256359 0.44746603 0.086157533 0.279082779 1.762772725 0.013526176 0.037494005 3.31E-06 5.480453039 0.170931415 HS(ph)ASPVVFTSAR ddPTM_HeLa_SAHA_4h_R1 3 HSASPVVFTSAR 12 0 O43166-3;O43166-2;O43166;F5GYF8 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 HS(0.75)AS(0.25)PVVFTSAR;HS(0.983)AS(0.017)PVVFTSAR;HS(0.923)AS(0.077)PVVFTSAR ;; 155.88 0.0002259 24168400 4375.82 4548.18 4657.9 4823.09 4933.5 3348.62 5504.7 4599.76 4457.3 4718.96 TRUE FALSE FALSE 4836.088825 4695.544016 5292.654355 4916.447881 4555.496296 3063.298737 4885.296668 4482.1048 4426.281286 4922.41746 0.982462147 0.953910158 1.075214445 0.998787267 0.925459154 0.622315917 0.992458829 0.910549509 0.899208838 1 12.2651513 -5.519427184 22.44349108 0.994428552 0.843017265 0.303642978 0.096452371 28.65763824 186341.0265 0.012532248 0.025565379 3.02E-06 5.519427184 -0.151411287 HS(ph)EKVHVNLLLMEAR ddPTM_HeLa_SAHA_4h_R1 1 HSEKVHVNLLLMEAR 15 1 P58005-4;P58005 P58005-4 SESN3 Sestrin-3 1 0 HS(1)EKVHVNLLLMEAR 54.768 0.023586 10327000 1837.5 1664.3 1468 1801 1887.2 1558.5 2014.1 1428.7 2146.7 1796.2 TRUE FALSE FALSE 2030.776681 1718.224412 1668.051395 1835.860959 1742.603144 1425.707032 1787.468167 1392.155923 2131.76094 1873.642972 1.083865342 0.917050066 0.890271743 0.979834999 0.930061473 0.760927804 0.954006816 0.743020919 1.137762621 1 10.87163035 -6.062314374 0.623366443 1.03767107 0.816650483 0.55416074 0.078766035 0.503215901 0.360257631 0.016499631 0.053189605 8.66E-07 6.062314374 -0.221020587 HS(ph)FNSFR ddPTM_HeLa_SAHA_4h_R1 2 HSFNSFR 7 0 P51828 P51828 ADCY7 Adenylate cyclase type 7 1 0 HS(0.994)FNS(0.006)FR;HS(0.506)FNS(0.494)FR ; 118.33 0.0042449 12331200 502.16 1553.22 488.43 505.22 616.68 742.08 691.81 800.73 377.52 755.23 TRUE FALSE FALSE 554.9794928 1603.545347 554.9906968 514.9992637 569.4301116 678.8506092 613.9657181 780.248486 374.8928076 787.7916613 0.704474952 2.035494187 0.704489174 0.653725203 0.722818151 0.861713372 0.779350364 0.990424911 0.475878111 1 9.621670336 HS(ph)LEEGLDMVNR ddPTM_HeLa_SAHA_4h_R1 2 HSLEEGLDMVNR 12 0 Q7Z309;Q7Z309-2;Q7Z309-5 Q7Z309 FAM122B Protein FAM122B 1 0 HS(1)LEEGLDMVNR;HS(1)LEEGLDMVNR ; 141.37 0.00062268 14475900 2558.3 3106.4 2881.8 3281.7 3170.6 1374.18 3490.4 2932 3513.7 2864.8 TRUE FALSE FALSE 2827.393732 3207.049398 3274.516696 3345.222049 2927.669313 1257.092133 3097.651006 2857.003685 3489.247876 2988.315548 0.946149657 1.07319637 1.095773403 1.119434007 0.979705545 0.42066914 1.036587655 0.956058234 1.167630332 1 11.54511678 -5.488223712 24.99772412 1.003280356 0.806408964 0.287443618 0.167747674 661.6889851 477295.7969 0.022180366 0.049572815 3.25E-06 5.488223712 -0.196871392 HS(ph)LSLDDIR ddPTM_HeLa_SAHA_4h_R1 1 HSLSLDDIR 9 0 Q96NE9-3;Q96NE9-2;Q96NE9 Q96NE9-3 FRMD6 FERM domain-containing protein 6 1 0 HS(0.516)LS(0.484)LDDIR 94.82 0.011187 2565800 440.75 587.2 491.94 553.46 520.36 382.12 661.41 909.54 526.02 611.57 TRUE FALSE FALSE 487.1101072 606.2256653 558.9790213 564.1730186 480.4901292 349.5612263 586.9864061 886.2752838 522.359384 637.9377757 0.763569937 0.95028965 0.876228125 0.884369981 0.753192784 0.547955051 0.92013113 1.38928171 0.818824976 1 9.3172719 -4.276090419 4.732369232 0.857847107 1.414427625 0.64993678 0.121673301 0.094170508 5.71433706 0.019352838 0.167408762 5.30E-05 4.276090419 0.556580518 HS(ph)PQQPSNGSLR ddPTM_HeLa_SAHA_4h_R1 3 HSPQQPSNGSLR 12 0 G3V1L9;Q07157;A0A087X0K9;G5E9E7;Q07157-2 G3V1L9 TJP1 Tight junction protein ZO-1 1 0 HS(1)PQQPSNGSLR;HS(0.978)PQQPS(0.019)NGS(0.003)LR;HS(1)PQQPSNGSLR ;; 125.73 0.00098533 27314900 4039.9 5721.5 3268.96 5259.3 5611.4 3151.62 5217.7 4598.8 6758.4 4730.6 TRUE FALSE FALSE 4464.835218 5906.880354 3714.436845 5361.101357 5181.455744 2883.084245 4630.590664 4481.169355 6711.367744 4934.559317 0.904809311 1.197043135 0.752739324 1.086439743 1.050034139 0.584263773 0.938400041 0.908119463 1.360074388 1 12.26870553 HS(ph)PVQMNR ddPTM_HeLa_SAHA_4h_R1 1 HSPVQMNR 8 0 Q0JRZ9-3;Q0JRZ9 Q0JRZ9-3 FCHO2 F-BAR domain only protein 2 1 0 HS(1)PVQMNR 96.171 0.013674 5877800 1621 1830.5 1428.6 1788.3 1978.2 1136.3 2096.8 1460.3 2409.6 2105.2 TRUE FALSE FALSE 1791.504217 1889.809401 1623.282168 1822.915132 1826.630743 1039.480847 1860.862546 1422.94764 2392.831397 2195.965475 0.815816204 0.860582474 0.739211152 0.830120124 0.831812141 0.473359376 0.847400639 0.647982701 1.089648915 1 11.10063966 -13.5228787 0.068920415 1.954070487 0.400586726 0.582167054 0.104954694 128.6698688 0.689710466 19.69156802 2.918766841 3.00E-14 13.5228787 -1.55348376 HS(ph)S(ph)SS(ph)PKSKRR ddPTM_HeLa_SAHA_4h_R1 1 HSSSSPKSKRR 11 3 A7MD48 A7MD48 SRRM4 Serine/arginine repetitive matrix protein 4 3 0 HS(0.999)S(0.999)S(0.449)S(0.553)PKSKRR 69.451 0.0062841 0 174.51 710.46 242.95 211.54 156.27 2143.7 483.72 5864.6 1640.4 984.76 TRUE FALSE FALSE 192.8657625 733.4793701 276.0579608 215.6346626 144.2966264 1961.0447 429.2905525 5714.592024 1628.984323 1027.217823 0.187755467 0.71404463 0.268743352 0.209921068 0.14047325 1.909083601 0.417915794 5.563174525 1.585821708 1 10.00452642 -4.260084924 24.88702826 0.610040115 5.563176243 0.856953812 0.592862357 25.24735902 463846.0488 0.072639602 0.608163348 5.49E-05 4.260084924 4.953136128 HS(ph)SIS(ph)PSTLTLK ddPTM_HeLa_SAHA_4h_R1 1 HSSISPSTLTLK 12 0 Q14004-2;Q14004;A0A2R8Y7W5;A0A2R8Y4Z0;A0A2R8YCQ1 Q14004-2 CDK13 Cyclin-dependent kinase 13 2 0 HS(0.898)S(0.102)IS(0.724)PS(0.275)T(0.001)LTLK 136.01 0.0092566 8122800 1192.4 1128.7 1251.5 1376.3 1754.9 1162 1501.6 1670.3 1398 1399.1 TRUE FALSE FALSE 1317.822103 1165.270621 1422.047902 1402.940277 1620.439941 1062.991063 1332.636016 1627.576145 1388.271204 1459.422048 0.902975328 0.798446633 0.974391133 0.961298535 1.110329903 0.728364399 0.913125862 1.115219649 0.951247246 1 10.51118144 HS(ph)SNPPLESHVGWVMDSR ddPTM_HeLa_SAHA_4h_R1 1 HSSNPPLESHVGWVMDSR 18 0 Q6PKG0;Q6PKG0-3;H0YC33;H0YBR8 Q6PKG0 LARP1 La-related protein 1 1 0 HS(0.5)S(0.5)NPPLESHVGWVMDSR 104.45 0.0012902 8761000 691.52 462.18 461.36 565.37 495.47 488.2 581.02 547.32 538.66 415.31 TRUE FALSE FALSE 764.2572464 477.1549352 524.2317381 576.3135539 457.5071956 446.6026135 515.6421004 533.3203469 534.9114212 433.2160466 1.764148056 1.101424887 1.210093075 1.33031442 1.056071674 1.030900441 1.190265468 1.231072466 1.23474517 1 8.758942872 HS(ph)SPSGTVAAR ddPTM_HeLa_SAHA_4h_R1 2 HSSPSGTVAAR 11 0 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 HS(0.5)S(0.5)PSGTVAAR;HS(0.5)S(0.5)PSGTVAAR ; 82.705 0.01689 3288800 489.644 492.93 519.32 645.82 710.77 470.59 788.62 528.76 683.72 620.47 TRUE FALSE FALSE 541.1470025 508.9012554 590.0902251 658.32078 656.3109562 430.4930845 699.8824021 515.2350848 678.9619369 647.2214982 0.836107892 0.786286081 0.911728406 1.017149124 1.014043813 0.665140274 1.081364578 0.796072266 1.049041076 1 9.338115719 -9.494680492 1.280122681 0.999148216 0.887056172 0.160482127 0.120334328 0.792351481 2.351225156 0.075822836 0.01903769 3.20E-10 9.494680492 -0.112092044 HS(ph)TSGTDEGEDGDEPDDGSNDVVDLLPR ddPTM_HeLa_SAHA_4h_R1 1 HSTSGTDEGEDGDEPDDGSNDVVDLLPR 28 0 Q14008-2;Q14008;Q14008-3 Q14008-2 CKAP5 Cytoskeleton-associated protein 5 1 0 HS(0.294)T(0.262)S(0.234)GT(0.209)DEGEDGDEPDDGSNDVVDLLPR 75.758 6.58E-05 4572700 0 75.935 0 145.71 240 136.27 171.99 213.95 54.282 0 TRUE FALSE FALSE 0 78.39534382 0 148.5304278 221.6112518 124.6590294 152.6372325 208.4774688 53.90424714 0 0 HS(ph)VSPDLKY(ph)VLLAY(ph)DVK ddPTM_HeLa_SAHA_4h_R1 1 HSVSPDLKYVLLAYDVK 17 1 J3KQK8;J3KPP1;Q8N608-4;Q8N608-2;Q8N608;Q8N608-3 J3KQK8 DPP10 Inactive dipeptidyl peptidase 10 3 0 HS(0.859)VS(0.141)PDLKY(1)VLLAY(1)DVK 66.673 0.019355 18843000 703.67 1646.8 1157.1 1103.3 966.85 4827.7 1014.8 6147.4 2227.3 2438.1 TRUE FALSE FALSE 777.6852392 1700.157401 1314.783562 1124.655967 892.7701619 4416.3528 900.6120332 5990.158409 2211.800038 2543.218423 0.305787829 0.668506246 0.516976265 0.442217608 0.351039515 1.736521236 0.354122959 2.355345634 0.869685442 1 11.31243966 -4.254689848 24.76562363 0.673793217 2.355346513 0.594203519 0.41160776 375.292121 1376993.961 0.057949068 0.754710397 5.56E-05 4.254689848 1.681553296 HS(ph)YPPALGSPGALAGAGVGAAGPLER ddPTM_HeLa_SAHA_4h_R1 2 HSYPPALGSPGALAGAGVGAAGPLER 26 0 Q96IF1;H0YJL9 Q96IF1 AJUBA LIM domain-containing protein ajuba 1 0 HS(0.998)Y(0.002)PPALGSPGALAGAGVGAAGPLER;HS(0.999)Y(0.001)PPALGSPGALAGAGVGAAGPLER ; 182.5 2.36E-14 32595000 1776.86 1957.85 1300.77 1494.05 1859.32 691.69 1948.12 1536.32 2825.49 1745.93 TRUE FALSE FALSE 1963.758287 2021.285625 1478.032161 1522.969498 1716.859303 632.7541207 1728.91241 1497.023159 2805.827185 1821.205587 1.07827381 1.109861314 0.811567992 0.836242492 0.94270483 0.347436953 0.949323033 0.821995699 1.540642751 1 10.83067807 -6.693631857 6.076138265 1.043319457 0.779681923 0.37532662 0.224191546 0.156948406 10.51235999 0.024318387 0.034364677 2.02E-07 6.693631857 -0.263637534 HSAGS(ph)GAEESNSSSTVQK ddPTM_HeLa_SAHA_4h_R1 2 HSAGSGAEESNSSSTVQK 18 0 Q8IYL3 Q8IYL3 C1orf174 UPF0688 protein C1orf174 1 0 HS(0.019)AGS(0.981)GAEESNSSSTVQK;HS(0.021)AGS(0.979)GAEESNSSSTVQK ; 109.12 0.0010025 10704700 4093.6 4632 2420.52 3604.5 5888 4281.8 5529.6 6165.4 5042.7 4521.3 TRUE FALSE FALSE 4524.18363 4782.079839 2750.37586 3674.27031 5436.862712 3916.966551 4907.394855 6007.697995 5007.60744 4716.23537 0.959278593 1.013961235 0.583171883 0.779068478 1.152797154 0.830528217 1.040532219 1.27383337 1.061780647 1 12.20342 -4.338964317 3.229044566 0.943902476 1.295510052 0.317645773 0.154012138 0.268545464 4.468519756 0.020924717 0.208797694 4.58E-05 4.338964317 0.351607576 HSAS(ph)PVVFTSAR ddPTM_HeLa_SAHA_4h_R1 2 HSASPVVFTSAR 12 0 O43166-3;O43166-2;O43166;F5GYF8 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 HS(0.016)AS(0.984)PVVFTSAR;HS(0.002)AS(0.998)PVVFTSAR ; 130.27 0.00081286 40756000 4174 4339.4 4035 4831 4954.7 3186.2 5352 4323.1 4507.1 4084.6 TRUE FALSE FALSE 4613.040471 4479.999407 4584.868787 4924.510991 4575.071956 2914.717835 4749.778874 4212.521362 4475.734724 4260.707096 1.082693639 1.051468525 1.076081665 1.155796651 1.073782322 0.684092516 1.114786529 0.988690672 1.050467592 1 12.05687716 HSCSGSS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 2 HSCSGSSPPR 10 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 HS(0.039)CS(0.002)GS(0.002)S(0.957)PPR;HSCSGS(0.208)S(0.792)PPR ; 132.14 0.0011708 5371100 148.3 158.18 0 65.388 189.23 195.07 119.64 176.43 0 124.74 TRUE FALSE FALSE 163.8988744 163.3051358 0 66.65367929 174.7312383 178.4489386 106.1777923 171.9171761 0 130.1181519 1.259615758 1.255052684 0 0.512255042 1.342865971 1.371437697 0.816010609 1.321238994 0 1 7.023678426 HSCSPMGDGDPEAMEES(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 HSCSPMGDGDPEAMEESPR 19 0 A0A075B784;Q9P275 A0A075B784 USP36 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 36 1 0 HSCSPMGDGDPEAMEES(1)PR;HSCSPMGDGDPEAMEES(1)PR ; 176.7 2.76E-09 12794000 3328.5 4221.1 2760 3375.5 3980.4 2192.72 3661.2 4289.6 4201.2 3830.6 TRUE FALSE FALSE 3678.606902 4357.86641 3136.118427 3440.837684 3675.422612 2005.88792 3249.23214 4179.878243 4171.963507 3995.755913 0.920628532 1.090623778 0.784862363 0.861123091 0.919831614 0.502004618 0.813170827 1.046079474 1.044098688 1 11.96425274 -6.738430274 24.96609124 0.971079637 0.812606606 0.301285801 0.137334854 250.9641809 272308.7762 0.02105435 0.029764234 1.83E-07 6.738430274 -0.158473032 HSEAATAQREEWK ddPTM_HeLa_SAHA_4h_R1 1 HSEAATAQREEWK 13 1 Q14103-3;Q14103;D6RAF8;H0Y8G5;D6RD83 Q14103-3 HNRNPD Heterogeneous nuclear ribonucleoprotein D0 0 0 84.821 0.0091401 6071500 5152.1 3226.7 4714.4 4777.6 4132.5 3356.5 5387.9 5106.9 2360 4194.7 FALSE FALSE TRUE 5694.021517 3331.247197 5356.85388 4870.077357 3815.868743 3070.507317 4781.639312 4976.272893 2343.576568 4375.554045 1.301325834 0.761331517 1.224268704 1.113019587 0.872088129 0.701741376 1.092807736 1.137289779 0.535606815 1 12.09524999 -5.779671591 22.43550468 1.118861023 0.943309372 0 0.254947997 101.9495176 125453.3518 0.028417682 0.051620372 1.66E-06 5.779671591 -0.17555165 HSEEAEFT(ph)PPLKCSPK ddPTM_HeLa_SAHA_4h_R1 1 HSEEAEFTPPLKCSPK 16 1 Q3B726 Q3B726 TWISTNB DNA-directed RNA polymerase I subunit RPA43 1 0 HSEEAEFT(0.672)PPLKCS(0.328)PK 88.283 0.008479 27293000 1598 1674.5 1543.7 1800.3 1608.5 1294.7 1575.9 1729.7 1508.4 1484.9 TRUE FALSE FALSE 1766.084972 1728.754899 1754.067397 1835.14741 1485.257077 1184.384276 1398.575584 1685.456779 1497.902922 1548.921306 1.140203163 1.116102472 1.132444489 1.184790604 0.9588977 0.764651033 0.90293521 1.088148747 0.967061991 1 10.59704813 -5.57281781 8.213258305 1.084533644 0.907901355 0.411472983 0.095098321 0.184719476 27.19047839 0.014067445 0.028241853 2.67E-06 5.57281781 -0.176632289 HSKEYIVDDEDVES(ph)RDEYERQR ddPTM_HeLa_SAHA_4h_R1 1 HSKEYIVDDEDVESRDEYERQR 22 3 D6RDY0;A0A0J9YWD4;F8W6W8;D6RA03;A0A590UK62;A0A590UJL1;Q9UQ26-4;Q9UQ26-5;Q9UQ26-2;Q9UQ26-3;Q9UQ26-1;Q9UQ26-8;Q9UQ26 D6RDY0 RIMS2 Regulating synaptic membrane exocytosis protein 2 1 0 HSKEYIVDDEDVES(0.941)RDEY(0.058)ERQR 45.237 0.018363 13192000 724.42 928.4 758.85 995.36 1326.1 1145.9 1144.2 938.1 1205.2 909.91 TRUE FALSE FALSE 800.6178194 958.4807691 862.2621261 1014.626632 1224.494504 1048.262873 1015.451605 914.1047604 1196.812915 949.1406731 0.843518608 1.009840581 0.9084661 1.068994998 1.290108557 1.104433624 1.069864177 0.963086702 1.260943661 1 9.890478116 -6.171962137 4.811827673 0.930706376 1.111781594 0 0.135842907 0.161825359 6.402440494 0.014704082 0.024681099 6.73E-07 6.171962137 0.181075218 HSLDS(ph)DEEEDDDDGGSSK ddPTM_HeLa_SAHA_4h_R1 3 HSLDSDEEEDDDDGGSSK 18 0 O95400 O95400 CD2BP2 CD2 antigen cytoplasmic tail-binding protein 2 1 0 HS(0.003)LDS(0.997)DEEEDDDDGGSSK;HS(0.015)LDS(0.984)DEEEDDDDGGSSK;HS(0.02)LDS(0.98)DEEEDDDDGGSSK ;; 129.02 0.00012414 24517600 3193.23 3894.89 3305.96 3886.16 3942.88 3145.28 3687.46 3548.77 5461.08 3777.59 TRUE FALSE FALSE 3529.108582 4021.086992 3756.479012 3961.382246 3640.777386 2877.284449 3272.537296 3457.997602 5423.0759 3940.460392 0.895608186 1.020461213 0.953309674 1.005309495 0.92394721 0.730189918 0.830496178 0.877561822 1.376254387 1 11.94414848 -5.448390272 6.788962649 0.959239625 0.815310805 0.249725661 0.140319045 0.133088953 10.22791065 0.007813776 0.017522166 3.56E-06 5.448390272 -0.14392882 HSLGLDSLNK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 HSLGLDSLNKK 11 1 Q92585 Q92585 MAML1 Mastermind-like protein 1 0 1 HSLGLDSLNK(1)K 84.687 0.010957 1357900 700.22 1444.5 895.67 1358.5 1598.9 1717.7 1570.8 1760.4 1243.5 1103.2 FALSE TRUE FALSE 773.8723523 1491.302748 1017.727243 1384.795732 1476.392627 1571.342296 1394.04945 1715.371517 1234.846382 1150.764351 0.672485511 1.295923659 0.884392397 1.203370378 1.282966948 1.365477037 1.211411745 1.49063665 1.073066246 1 10.16837672 -6.28070896 0.959403739 0.859303834 1.355921061 0.437900266 0.173414193 0.286515845 0.522219638 0.032843453 0.070150165 5.24E-07 6.28070896 0.496617227 HSLS(ph)LDDIR ddPTM_HeLa_SAHA_4h_R1 1 HSLSLDDIR 9 0 Q96NE9-3;Q96NE9-2;Q96NE9 Q96NE9-3 FRMD6 FERM domain-containing protein 6 1 0 HS(0.035)LS(0.965)LDDIR 83.617 0.018665 2726600 363.55 387.09 356.61 446.7 507.04 258.84 545.9 404.53 414.94 389.78 TRUE FALSE FALSE 401.789857 399.63197 405.2069537 455.3465244 468.1907047 236.7853758 484.4738953 394.1827084 412.0523988 406.5853233 0.988205511 0.982898169 0.996609888 1.119928582 1.15151895 0.58237561 1.191567593 0.969495665 1.013446318 1 8.667414328 HSLSGS(ph)SPGMK ddPTM_HeLa_SAHA_4h_R1 3 HSLSGSSPGMK 11 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 HSLSGS(0.5)S(0.5)PGMK;HSLSGS(0.5)S(0.5)PGMK;HSLS(0.003)GS(0.499)S(0.499)PGMK ;; 129.74 0.0024232 21789400 9720.7 14610.7 6558.2 11207.5 15933.7 8613.6 15289.4 13761.9 19001.3 13006.7 TRUE FALSE FALSE 10743.16783 15084.09627 7451.917342 11424.43737 14712.86335 7879.672821 13568.99647 13409.89052 18869.06841 13567.48249 0.791832076 1.111782991 0.549248348 0.842045485 1.084421031 0.58077634 1.000111589 0.988384583 1.390756791 1 13.72786543 -9.526555921 1.223080301 1.001679196 0.858281222 0.153641904 0.220796943 1.029971432 2.705374019 0.12634282 0.028784756 2.97E-10 9.526555921 -0.143397973 HSLSGSS(ph)PGMK ddPTM_HeLa_SAHA_4h_R1 2 HSLSGSSPGMK 11 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 HSLS(0.01)GS(0.222)S(0.768)PGMK;HSLSGS(0.004)S(0.995)PGMK ; 163.46 1.22E-11 20054000 6654.1 9378 4437.6 8037.9 10335.2 5839.5 9122.6 8278.9 12671.5 8427.7 TRUE FALSE FALSE 7354.008768 9681.853353 5042.333018 8193.485177 9543.319209 5341.941748 8096.101039 8067.137726 12583.318 8791.059391 0.836532714 1.101329535 0.573575128 0.932024778 1.085571008 0.6076562 0.920947144 0.917652511 1.431376748 1 13.10182132 -9.530335491 0.718833402 1.023651195 0.866687861 0.172246029 0.213100677 2.248307914 1.544612936 0.230444296 0.030954046 2.95E-10 9.530335491 -0.156963334 HSPQQPSNGS(ph)LR ddPTM_HeLa_SAHA_4h_R1 1 HSPQQPSNGSLR 12 0 G3V1L9;Q07157;A0A087X0K9;G5E9E7;Q07157-2 G3V1L9 TJP1 Tight junction protein ZO-1 1 0 HS(0.063)PQQPS(0.071)NGS(0.866)LR 97.631 0.0079485 4485300 130.62 224.95 57.579 118.65 221.51 46.413 172.23 134.99 211.21 114.9 TRUE FALSE FALSE 144.3592109 232.2385276 65.42556626 120.9466423 204.5379517 42.45835129 152.8502271 131.5371513 209.7401724 119.8539013 1.204459841 1.937680168 0.545877652 1.009117275 1.706560649 0.354250891 1.275304562 1.097479096 1.749965334 1 6.90513306 HSPS(ph)PPPPTPTESR ddPTM_HeLa_SAHA_4h_R1 2 HSPSPPPPTPTESR 14 0 Q92922 Q92922 SMARCC1 SWI/SNF complex subunit SMARCC1 1 0 HS(0.05)PS(0.95)PPPPTPTESR;HS(0.062)PS(0.938)PPPPTPTESR ; 84.195 0.010703 6751400 2101.13 1838.93 1746.83 2287.7 1855.06 1935.02 2448.1 2885.4 2420.7 2047.04 TRUE FALSE FALSE 2322.136494 1898.512539 1984.878895 2331.981742 1712.925704 1770.14541 2172.633345 2811.595646 2403.854152 2135.297912 1.087500007 0.889108975 0.929555957 1.092110721 0.802195185 0.828992245 1.017484882 1.316722894 1.125769916 1 11.06022165 -7.283334028 24.68360142 1.041319444 0.973032739 0.061132035 0.142869477 1810.353059 2040951.284 0.024172741 0.027655559 5.21E-08 7.283334028 -0.068286705 HSQFIGYPITLFVEK ddPTM_HeLa_SAHA_4h_R1 2 HSQFIGYPITLFVEK 15 0 P07900;P07900-2;G3V2J8;Q58FG0 P07900 HSP90AA1;HSP90AA5P Heat shock protein HSP 90-alpha;Putative heat shock protein HSP 90-alpha A5 0 0 ; ; 139.66 4.83E-05 4014660 523.78 460.87 782.63 720.36 1019.99 352.63 982.13 289.1 248.67 580.71 FALSE FALSE TRUE 578.8735836 475.8024904 889.2827406 734.3036095 941.8385866 322.5839402 871.6181476 281.7052406 246.9394852 605.74725 0.955635512 0.785480232 1.468075572 1.212227723 1.554837577 0.532538844 1.438913916 0.465054097 0.407660927 1 9.24257214 -3.037428728 13.82947136 1.024456896 1.076433538 0 0.410235323 0 0 0.042359895 0 0.000917426 3.037428728 0.051976643 HSQFLGYPITLYLEK ddPTM_HeLa_SAHA_4h_R1 2 HSQFLGYPITLYLEK 15 0 Q58FF8 Q58FF8 HSP90AB2P Putative heat shock protein HSP 90-beta 2 0 0 ; ; 139.66 4.83E-05 6525600 1193.38 1081.52 1575.63 1323.89 1243.48 535.31 1518.65 448.08 184.45 700.34 FALSE FALSE TRUE 1318.905184 1116.561958 1790.348651 1349.515805 1148.204831 489.6985764 1347.767505 436.6187624 183.1663974 730.5350848 1.805396087 1.52841661 2.450736026 1.847297732 1.571731262 0.670328622 1.844904554 0.597669806 0.250729091 1 9.512809752 -4.245719432 23.42010802 1.488431396 0.597668193 0.142503197 0.610791064 1526.730699 2274483.901 0.072035443 2.179673147 5.68E-05 4.245719432 -0.890763203 HSQPAT(ph)PTPLQSR ddPTM_HeLa_SAHA_4h_R1 2 HSQPATPTPLQSR 13 0 Q9NR12-2;Q9NR12 Q9NR12-2 PDLIM7 PDZ and LIM domain protein 7 1 0 HSQPAT(0.986)PT(0.013)PLQS(0.001)R;HSQPAT(1)PTPLQSR ; 128.82 0.00089573 34146000 5869.3 5897.5 5070.1 5499.5 7752.8 12366 6352.5 5531.9 5758.4 6396 TRUE FALSE FALSE 6486.659903 6088.582869 5761.026824 5605.950775 7158.782139 11312.34723 5637.699981 5390.402008 5718.326826 6671.762861 0.972255765 0.91258982 0.863493944 0.840250304 1.072997091 1.695555952 0.845009048 0.807942686 0.857093836 1 12.7038523 -5.532618214 24.17029833 0.960778722 1.13825706 0.123683175 0.233327714 231.3765028 574202.6807 0.033141207 0.066355594 2.93E-06 5.532618214 0.177478338 HSQPS(ph)PEPHS(ph)PTEPPAWGSSIVK ddPTM_HeLa_SAHA_4h_R1 1 HSQPSPEPHSPTEPPAWGSSIVK 23 0 Q5VZ89-3;Q5VZ89;Q5VZ89-7;Q5VZ89-5 Q5VZ89-3 DENND4C DENN domain-containing protein 4C 2 0 HS(0.181)QPS(0.847)PEPHS(0.867)PT(0.104)EPPAWGSSIVK 73.13 0.0034286 8060800 1466.7 1357.1 1115.4 1379.2 1376 1781.7 1654.6 1849.7 1381 1691 TRUE FALSE FALSE 1620.974235 1401.07093 1267.400903 1405.89641 1270.571177 1629.889136 1468.420053 1802.387352 1371.389509 1763.907286 0.918967935 0.794299645 0.718519002 0.797035321 0.720316304 0.924021999 0.832481427 1.021815243 0.777472558 1 10.78455902 -7.595701059 1.991990461 0.97148546 0.824638745 0 0.106324912 0.246878732 2.009534736 0.01736955 0.018157507 2.54E-08 7.595701059 -0.146846715 HSS(ph)ETFSSTPSATR ddPTM_HeLa_SAHA_4h_R1 1 HSSETFSSTPSATR 14 0 P35568 P35568 IRS1 Insulin receptor substrate 1 1 0 HS(0.038)S(0.959)ET(0.002)FS(0.001)STPSATR 177.36 1.01E-06 9525100 347.67 597.73 298.97 553.1 724.57 608.66 632.74 628.09 600.56 387.67 TRUE FALSE FALSE 384.2395258 617.0968442 339.7120746 563.8060503 669.0536031 556.7987438 561.5424299 612.0243673 596.3806541 404.3843509 0.950183965 1.52601564 0.840072258 1.394233108 1.654499245 1.376904775 1.388635412 1.513471938 1.474786679 1 8.659583358 -6.524220289 0.825547734 0.977504935 1.484517531 0.077555656 0.253748316 0.333108681 0.453758365 0.039024065 0.074560271 2.99E-07 6.524220289 0.507012596 HSS(ph)GDPSSEGTSGSGSVSIR ddPTM_HeLa_SAHA_4h_R1 1 HSSGDPSSEGTSGSGSVSIR 20 0 C9JW56;Q9UPU7-2;Q9UPU7 C9JW56 TBC1D2B TBC1 domain family member 2B 1 0 HS(0.066)S(0.927)GDPSSEGT(0.002)S(0.002)GS(0.001)GS(0.001)VS(0.002)IR 99.813 0.00037388 0 182.8 230.98 246.55 334.74 424.43 430.45 335.88 405.91 500.71 259.71 TRUE FALSE FALSE 202.0277427 238.4639036 280.14855 341.2193767 391.9102651 393.7732384 298.0858984 395.52741 497.2255183 270.9073691 0.74574473 0.88024148 1.034111959 1.259542617 1.446657824 1.453534615 1.100324068 1.460009786 1.835407874 1 8.081655827 -6.348836623 2.258925116 0.877215293 1.352499686 0 0.323660757 0.117688498 1.173888888 0.021226196 0.035173242 4.48E-07 6.348836623 0.475284394 HSS(ph)NPPLESHVGWVMDSR ddPTM_HeLa_SAHA_4h_R1 4 HSSNPPLESHVGWVMDSR 18 0 Q6PKG0;Q6PKG0-3;H0YC33;H0YBR8 Q6PKG0 LARP1 La-related protein 1 1 0 HS(0.223)S(0.777)NPPLESHVGWVMDSR;HS(0.01)S(0.99)NPPLESHVGWVMDSR;HS(0.008)S(0.992)NPPLESHVGWVMDSR;HS(0.102)S(0.898)NPPLESHVGWVMDSR ;;; 198.45 2.24E-16 117636200 3057.99 3167.61 2725.12 3685.22 3628.12 3180.97 3843.07 3187.98 3872.94 3418.42 TRUE FALSE FALSE 3379.643419 3270.242642 3096.485162 3756.552762 3350.134229 2909.93346 3410.637649 3106.436088 3845.987895 3565.804816 0.9477926 0.917112072 0.868383246 1.053493659 0.939516996 0.816066389 0.956484672 0.8711739 1.078574991 1 11.80001202 HSS(ph)TGDSADAGPPAAGSAR ddPTM_HeLa_SAHA_4h_R1 3 HSSTGDSADAGPPAAGSAR 19 0 F5H1N7;Q6ZU35 F5H1N7 KIAA1211 Uncharacterized protein KIAA1211 1 0 HS(0.137)S(0.645)T(0.214)GDS(0.004)ADAGPPAAGSAR;HS(0.16)S(0.819)T(0.021)GDSADAGPPAAGSAR;HS(0.208)S(0.645)T(0.146)GDS(0.001)ADAGPPAAGSAR ;; 173.77 4.88E-09 8537900 616.81 832.27 579.492 883.07 1109.08 723.054 906.46 1028.73 771.389 702.6 TRUE FALSE FALSE 681.6889058 859.2360941 658.4621519 900.1630968 1024.10253 661.4457314 804.4627351 1002.416576 766.0208411 732.8925244 0.930134888 1.17239031 0.898442991 1.228233427 1.397343397 0.902513956 1.097654442 1.367753856 1.045202148 1 9.517457839 -6.254441605 24.95010389 0.980166322 1.187667174 0.280119318 0.147719518 487.9307678 1739683.633 0.021620418 0.035349865 5.57E-07 6.254441605 0.207500852 HSS(ph)YPAGTEDDEGMGEEPSPFR ddPTM_HeLa_SAHA_4h_R1 4 HSSYPAGTEDDEGMGEEPSPFR 22 0 Q92934 Q92934 BAD Bcl2-associated agonist of cell death 1 0 HS(0.19)S(0.81)YPAGTEDDEGMGEEPSPFR;HS(0.145)S(0.855)YPAGTEDDEGMGEEPSPFR;HS(0.166)S(0.834)YPAGTEDDEGMGEEPSPFR;HS(0.143)S(0.857)YPAGTEDDEGMGEEPSPFR ;;; 207.88 5.09E-22 53355400 8498.11 9295 8644.86 9972.36 11464.99 7471.47 11512.69 12554.83 11405.71 8985.85 TRUE FALSE FALSE 9391.980201 9596.164099 9822.9365 10165.38945 10586.54494 6834.858723 10217.25182 12233.69563 11326.33674 9373.273969 1.001995699 1.023779325 1.047972836 1.084507876 1.129439402 0.729185847 1.090040882 1.305167828 1.208365057 1 13.19433734 -4.338543565 4.112067004 1.004102759 1.311269885 0.302888729 0.119911345 0.132763162 3.805649893 0.012947925 0.0971183 4.59E-05 4.338543565 0.307167126 HSTPSNSSNPSGPPS(ph)PNSPHR ddPTM_HeLa_SAHA_4h_R1 3 HSTPSNSSNPSGPPSPNSPHR 21 0 Q9Y5S2 Q9Y5S2 CDC42BPB Serine/threonine-protein kinase MRCK beta 1 0 HSTPSNSSNPS(0.229)GPPS(0.766)PNS(0.005)PHR;HSTPSNSSNPSGPPS(0.969)PNS(0.031)PHR;HSTPSNSSNPS(0.04)GPPS(0.694)PNS(0.265)PHR ;; 146.18 3.03E-06 1761070 125.69 135.02 0 0 61.175 350.193 129.24 328.81 0 60.112 TRUE FALSE FALSE 138.9106509 139.3947366 0 0 56.48778472 320.3545863 114.6975751 320.3995163 0 62.7037225 2.21534935 2.223069557 0 0 0.900868122 5.109020222 1.829198818 5.109736767 0 1 5.970479188 -5.27420343 24.95197431 1.355214789 3.797306657 0.561447172 1.210452363 460.5321453 900277.1214 0.165436321 0.372163371 5.32E-06 5.27420343 2.442091868 HSTSGT(ph)DEGEDGDEPDDGSNDVVDLLPR ddPTM_HeLa_SAHA_4h_R1 1 HSTSGTDEGEDGDEPDDGSNDVVDLLPR 28 0 Q14008-2;Q14008;Q14008-3 Q14008-2 CKAP5 Cytoskeleton-associated protein 5 1 0 HS(0.009)T(0.028)S(0.087)GT(0.875)DEGEDGDEPDDGSNDVVDLLPR 92.766 1.54E-05 0 0 146.65 0 150.23 72.346 140.4 195.2 0 150.58 0 TRUE FALSE FALSE 0 151.4015562 0 153.1379189 66.80286511 128.4371301 173.2355823 0 149.5321015 0 0 HSVGVVIGR ddPTM_HeLa_SAHA_4h_R1 2 HSVGVVIGR 9 0 A0A087WTP3;Q92945;M0R0I5 A0A087WTP3 KHSRP Far upstream element-binding protein 2 0 0 ; ; 104.01 0.002215 6566800 3481.9 3240.4 3203.7 3761.1 3530.6 3397.7 3648.6 3945.9 4351.7 3795.2 FALSE FALSE TRUE 3848.142218 3345.391086 3640.283552 3833.901529 3260.086191 3108.196845 3238.049925 3844.969592 4321.416165 3958.829645 0.972040366 0.845045477 0.919535286 0.968443169 0.823497468 0.785130234 0.81793111 0.971238961 1.091589321 1 11.95085827 -7.106476417 0.637551012 0.997929771 0.853997793 0.466463453 0.068153711 0.451564148 0.392388174 0.01749842 0.02333868 7.83E-08 7.106476417 -0.143931978 HSVVAGGGGGEGR ddPTM_HeLa_SAHA_4h_R1 1 HSVVAGGGGGEGR 13 0 Q6PKG0;Q6PKG0-3 Q6PKG0 LARP1 La-related protein 1 0 0 91.307 0.010513 216590 0 175.23 0 134.29 201.25 120.37 164.72 193.01 0 0 FALSE FALSE TRUE 0 180.907567 0 136.8893771 185.8302685 110.1137988 146.1852721 188.0730837 0 0 0 HT(ph)AAETERT(ph)WAAER ddPTM_HeLa_SAHA_4h_R1 1 HTAAETERTWAAER 14 1 E9PKX9 E9PKX9 MBP 2 0 HT(0.997)AAET(0.018)ERT(0.985)WAAER 76.358 0.0071069 0 1386.1 1768.9 1468 1585.1 1875.3 2273.6 1656.9 1754.3 1563.8 1682.8 TRUE FALSE FALSE 1531.896358 1826.213521 1668.051395 1615.781903 1731.614919 2079.876489 1470.461251 1709.427546 1552.917388 1755.353743 0.872699513 1.040367805 0.950265097 0.920487912 0.98647633 1.184875981 0.837700809 0.9738365 0.884674895 1 10.77754608 -5.580805759 9.206302604 0.946733822 0.999711598 0.070899329 0.091018226 0.743065011 110.9060876 0.013377788 0.026798129 2.63E-06 5.580805759 0.052977775 HT(ph)PWST(ph)QSLSRNR ddPTM_HeLa_SAHA_4h_R1 2 HTPWSTQSLSRNR 13 1 B7WPD9;A0A0G2JR66;Q2KJY2-2;Q2KJY2 B7WPD9 KIF26B Kinesin-like protein;Kinesin-like protein KIF26B 2 0 HT(0.994)PWS(0.231)T(0.775)QSLSRNR;HT(0.994)PWS(0.214)T(0.787)QS(0.003)LS(0.002)RNR ; 68.413 0.0074428 0 274.85 277.22 265.71 198.101 360.63 366.6 333.99 500.95 330.69 196.62 TRUE FALSE FALSE 303.7599841 286.2021099 301.919575 201.9355313 332.9986073 335.3636176 296.4085662 488.1364244 328.3887014 205.0972504 1.481053419 1.395445864 1.472080071 0.984584293 1.623613221 1.635144386 1.445209848 2.380024224 1.601136537 1 7.680164341 -1 0.513040182 1.240253991 35.87553655 0.555225533 0.24494072 51.36715552 0.476583332 0.047602443 1940.641877 0.1 1 34.63528256 HT(ph)S(ph)PLIIS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 HTSPLIISPK 10 0 G3V3B1;G3XAE9;Q9Y4F4-2;Q9Y4F4-3;Q9Y4F4 G3V3B1 FAM179B Protein FAM179B 3 0 HT(1)S(1)PLIIS(1)PK 81.625 0.006632 0 814.27 1323.1 920.54 855.51 1442.5 1338.6 1236.6 1669.8 1642.5 1540 TRUE FALSE FALSE 899.9186546 1365.969308 1045.986397 872.0696331 1331.975962 1224.543749 1097.454513 1627.088934 1631.069709 1606.396937 0.560209394 0.850331121 0.651138192 0.542873068 0.829169884 0.762292134 0.683177668 1.012880999 1.015359076 1 10.64961271 -9.551284132 1.319751922 0.999998989 0.71145281 0.37790885 0.135484026 0.370724211 1.156805354 0.095181713 0.022520219 2.81E-10 9.551284132 -0.288546179 HTDDEMTGY(ph)VATR ddPTM_HeLa_SAHA_4h_R1 5 HTDDEMTGYVATR 13 0 E7EX54;B4E0K5;Q16539-5;Q16539-3;Q16539-4;Q16539-2;Q16539 E7EX54 MAPK14 Mitogen-activated protein kinase 14 1 0 HTDDEMTGY(1)VATR;HTDDEMTGY(1)VATR;HTDDEMTGY(1)VATR;HTDDEMT(0.037)GY(0.963)VATR;HTDDEMT(0.232)GY(0.768)VATR ;;;; 242.45 2.27E-31 126096800 10349.42 13697.87 10789.27 7390.64 14410.94 6681.86 15018.57 8334.13 10563.24 14228.68 TRUE FALSE FALSE 11438.01948 14141.68998 12259.57553 7533.696524 13306.77689 6112.527937 13328.64098 8120.955022 10489.72955 14842.14803 0.770644482 0.952806154 0.82599739 0.50758802 0.896553307 0.411835802 0.898026414 0.547154968 0.706752792 1 13.85741228 -13.52287874 0.072044031 2.036212646 0.35459186 0.079653707 0.184366068 167.6994888 0.936332735 28.78719672 3.928125435 3.00E-14 13.52287874 -1.681620786 HTGCCGDNDPIDVCEIGSK ddPTM_HeLa_SAHA_4h_R1 1 HTGCCGDNDPIDVCEIGSK 19 0 Q5SQT6;Q15181 Q5SQT6 PPA1 Inorganic pyrophosphatase 0 0 91.622 0.0021447 5684400 1449.4 1444.3 1275.4 1469 1357.2 1301.2 1413.7 1554.8 1909.5 1607.1 FALSE FALSE TRUE 1601.854542 1491.096268 1449.20487 1497.434619 1253.211629 1190.33044 1254.626755 1515.030467 1896.211634 1676.389946 0.955538147 0.889468629 0.864479576 0.893249582 0.747565703 0.710055821 0.748409854 0.903745856 1.131128016 1 10.71114206 -6.695431445 0.758545362 0.987463387 0.7737461 0.650346163 0.071884742 0.243622484 0.282653833 0.012353469 0.021458432 2.02E-07 6.695431445 -0.213717287 HTGMASIDSSAPETTSDS(ph)SPTLSR ddPTM_HeLa_SAHA_4h_R1 1 HTGMASIDSSAPETTSDSSPTLSR 24 0 H7BZ52;S4R3H3;S4R393;S4R410;A7E2V4-5;A7E2V4;A7E2V4-3;A7E2V4-4;A7E2V4-2;H0YCW2;S4R3B3;H7C453;S4R3U7 H7BZ52 ZSWIM8 Zinc finger SWIM domain-containing protein 8 1 0 HTGMASIDSSAPET(0.026)T(0.003)S(0.036)DS(0.391)S(0.391)PT(0.076)LS(0.076)R 125.53 1.46E-06 3918000 617 649.03 349.34 659.69 1088.8 1033 671.4 719.39 620.31 537.45 TRUE FALSE FALSE 681.8988909 670.0589978 396.9462359 672.4592539 1005.376379 944.9825885 595.852305 700.9890455 615.9932122 560.6220997 1.216325384 1.195206179 0.708046001 1.199487595 1.793322774 1.685596392 1.062841271 1.250377118 1.098767267 1 9.130884806 -5.987395882 24.95825288 1.080572887 1.444853862 0.397870547 0.232445953 202.6268938 401232.2573 0.036011953 0.065247963 1.03E-06 5.987395882 0.364280975 HTGPGILSMANAGPNTNGSQFFICTAK ddPTM_HeLa_SAHA_4h_R1 4 HTGPGILSMANAGPNTNGSQFFICTAK 27 0 P62937;F8WE65;C9J5S7;P62937-2 P62937 PPIA "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed;Peptidyl-prolyl cis-trans isomerase" 0 0 ;;; ;;; 255.01 1.06E-85 20517160 2598.487 2892.24 1872.78 3231.99 3597.73 1723.29 3523.93 813.1 1820.78 2574.69 FALSE FALSE TRUE 2871.807785 2985.950474 2127.992705 3294.54984 3322.072705 1576.455997 3127.408122 792.3020794 1808.109044 2685.697486 1.069296821 1.111797024 0.792342666 1.226701763 1.236949702 0.586981968 1.164467755 0.295007939 0.673236302 1 11.3910811 -4.254740031 24.86028658 1.025997311 0.295007576 0.459368769 0.22037216 367.2007794 1362588.859 0.023700277 0.306535696 5.56E-05 4.254740031 -0.730989734 HTGPNS(ph)PDTANDGFVR ddPTM_HeLa_SAHA_4h_R1 8 HTGPNSPDTANDGFVR 16 0 P31943;G8JLB6;E9PCY7;D6RBM0;D6RIT2;D6RJ04;D6RDU3;D6RIU0;E5RGV0;D6RFM3;D6R9T0;D6RAM1;P55795;D6RIH9;H0YAQ2;E5RGH4;E7EQJ0 P31943;E7EQJ0 HNRNPH1;HNRNPH2 "Heterogeneous nuclear ribonucleoprotein H;Heterogeneous nuclear ribonucleoprotein H, N-terminally processed;Heterogeneous nuclear ribonucleoprotein H2" 1 0 HT(0.002)GPNS(0.499)PDT(0.499)ANDGFVR;HTGPNS(1)PDTANDGFVR;HTGPNS(0.999)PDT(0.001)ANDGFVR;HTGPNS(1)PDTANDGFVR;HTGPNS(0.986)PDT(0.014)ANDGFVR;HTGPNS(1)PDTANDGFVR;HTGPNS(0.997)PDT(0.003)ANDGFVR;HT(0.14)GPNS(0.859)PDT(0.001)ANDGFVR ;;;;;;; 186.96 1.53E-11 1257349000 12041.6 11429.72 10416.06 12278.18 12257.78 4536.26 12581.54 12217.87 12247.39 11241.7 TRUE FALSE FALSE 13308.19074 11800.05043 11835.50641 12515.84193 11318.59154 4149.745128 11165.83201 11905.35458 12162.15942 11726.3847 1.1348929 1.006282049 1.009305657 1.067323156 0.965224307 0.353881033 0.952197313 1.015262153 1.037161898 1 13.51747067 -5.509049592 24.63393675 1.054498818 0.769610347 0.338429413 0.167564708 421.7720389 751303.4216 0.023521198 0.050624432 3.10E-06 5.509049592 -0.284888471 HTGPNS(ph)PDTANDGFVRL ddPTM_HeLa_SAHA_4h_R1 3 HTGPNSPDTANDGFVRL 17 1 E7EQJ0 E7EQJ0 HNRNPH1 1 0 HT(0.001)GPNS(0.998)PDT(0.001)ANDGFVRL;HTGPNS(0.791)PDT(0.209)ANDGFVRL;HTGPNS(0.948)PDT(0.052)ANDGFVRL ;; 205.12 3.10E-15 29666700 1621.68 2049.75 1792.56 1756.83 1997.89 2075.9 2125.42 8435.3 4116.37 2535.12 TRUE FALSE FALSE 1792.255743 2116.163245 2036.840742 1790.835985 1844.8121 1899.021641 1886.262148 8219.53724 4087.723846 2644.42143 0.677749667 0.800236763 0.770240597 0.677212779 0.697624092 0.718123677 0.713298617 3.108255419 1.545791378 1 11.3687364 -4.260135513 24.99996432 0.799885673 3.108256166 0.87573853 0.255324449 14.84258312 284555.5631 0.019535312 0.162685445 5.49E-05 4.260135513 2.308370493 HTGPNSPDTANDGFVR ddPTM_HeLa_SAHA_4h_R1 2 HTGPNSPDTANDGFVR 16 0 P31943;G8JLB6;E9PCY7;D6RBM0;D6RIT2;D6RJ04;D6RDU3;D6RIU0;E5RGV0;D6RFM3;D6R9T0;D6RAM1;P55795;D6RIH9;H0YAQ2;E5RGH4;E7EQJ0 P31943;E7EQJ0 HNRNPH1;HNRNPH2 "Heterogeneous nuclear ribonucleoprotein H;Heterogeneous nuclear ribonucleoprotein H, N-terminally processed;Heterogeneous nuclear ribonucleoprotein H2" 0 0 ; ; 290.1 3.52E-72 9904100 2162.69 2790.38 2117.18 2577.65 2768.5 3243.89 2667.85 2909.91 2881.23 1964.23 FALSE FALSE TRUE 2390.171657 2880.790143 2405.698265 2627.544143 2556.378128 2967.492322 2367.656497 2835.478716 2861.179286 2048.917568 1.166553352 1.406005877 1.174131308 1.282405981 1.247672512 1.448321967 1.155564545 1.383891065 1.396434552 1 11.00064623 -8.094190125 0.569602775 1.002505402 1.306143336 0 0.153164254 0.353949281 0.262700824 0.04511179 0.026517281 8.05E-09 8.094190125 0.303637934 HTIAVVWGGVNIPHSPYR ddPTM_HeLa_SAHA_4h_R1 2 HTIAVVWGGVNIPHSPYR 18 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 ; ; 69.878 0.004927 3997100 903 1324 1597.63 1295.04 1481.08 267.789 1655.76 481.32 379.91 719.59 FALSE FALSE TRUE 997.9816831 1366.898469 1815.346696 1320.107372 1367.59997 244.9718707 1469.449527 469.0085313 377.2661754 750.6150465 1.329551929 1.821037928 2.418478959 1.758700919 1.821972497 0.326361524 1.957660633 0.624832307 0.502609396 1 9.5519294 HTLGDS(ph)DNES ddPTM_HeLa_SAHA_4h_R1 2 HTLGDSDNES 10 0 G3V1D1;G3V192;P02794 G3V1D1 FTH1 "Ferritin;Ferritin heavy chain;Ferritin heavy chain, N-terminally processed" 1 0 HTLGDS(0.998)DNES(0.002);HTLGDS(0.999)DNES ; 106.62 0.006697 220278000 5956.4 8038.9 4770 8258.5 9491.1 9914.9 9397.1 7829.9 10384.3 8840.5 TRUE FALSE FALSE 6582.921481 8299.365635 5420.030759 8418.355209 8763.893968 9070.09474 8339.713576 7629.622496 10312.03481 9221.657219 0.713854498 0.899986351 0.587750187 0.912889626 0.95035998 0.983564507 0.904361697 0.827359152 1.118240959 1 13.17081032 -3.942999515 11.74336844 0.865039761 0.651378731 0 0.144380175 664781.8997 5067151.45 0.019405044 3046387.515 0.000114025 3.942999515 -0.213661031 HTLQQHQET(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 HTLQQHQETPK 11 0 Q7Z417;Q7Z417-2 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 HTLQQHQET(1)PK 119.25 0.0039374 384260 144.11 56.055 119.63 133.58 202.69 0 188.11 0 173.78 139.35 TRUE FALSE FALSE 159.268151 57.87121878 135.9325534 136.1656341 187.159936 0 166.9433677 0 172.5706508 145.3580605 1.09569535 0.398128722 0.935156626 0.936760119 1.287578655 0 1.148497491 0 1.187210742 1 7.183467264 -4.426544325 0.561620715 1.008199425 3.09E-26 0.252556861 0.397599053 3.341918597 0.795281169 0.070111594 2.108360309 3.75E-05 4.426544325 -1.008199425 HTNPSSSS(ph)PGTRT ddPTM_HeLa_SAHA_4h_R1 2 HTNPSSSSPGTRT 13 1 Q8WUH2 Q8WUH2 TGFBRAP1 Transforming growth factor-beta receptor-associated protein 1 1 0 HTNPSSS(0.001)S(0.619)PGT(0.19)RT(0.19);HTNPS(0.015)S(0.015)S(0.028)S(0.878)PGT(0.038)RT(0.026) ; 137.27 0.00025609 3533700 956.26 1176.4 357.846 1004.48 1881.04 1473.34 1113.35 1338.03 970.03 1348.34 TRUE FALSE FALSE 1056.843814 1214.516132 406.6113893 1023.923163 1736.915122 1347.803143 988.0729278 1303.80513 963.2794823 1406.473536 0.751413935 0.863518652 0.289099922 0.728007415 1.234943337 0.958285463 0.702517966 0.927002959 0.684889874 1 10.45786669 -3.937728078 18.59225447 0.847708768 2.067391227 0 0.23850696 368.4676317 259071.233 0.03302995 24373.39787 0.000115418 3.937728078 1.219682459 HTNYTMEHIR ddPTM_HeLa_SAHA_4h_R1 6 HTNYTMEHIR 10 0 O43707;O43707-2;F5GXS2;O43707-3;H7C144;F6THM6;H0YJW3;A0A494C060;P12814-4;P12814-3;P12814;P12814-2;H9KV75;P35609-2;P35609;A0A494C1A0;H7C5W8;H0YJ11 O43707;P12814-4 ACTN4;ACTN2;ACTN1 Alpha-actinin-4;Alpha-actinin-1;Alpha-actinin-2 0 0 ;;;;; ;;;;; 154.84 0.0001603 9229160 1836.05 1456.333 2193.062 1934.92 1762.28 1519.38 2712.89 1024.91 790.97 888.575 FALSE FALSE TRUE 2029.174163 1503.519145 2491.921068 1972.373175 1627.254487 1389.920276 2407.628477 998.6942863 785.4655754 926.8858168 2.189238552 1.622119054 2.688487647 2.127957013 1.755614831 1.499559332 2.597545926 1.077472832 0.847424312 1 9.856247814 -9.332207926 0.951466209 0.973921485 1.980021548 0.422294321 0.471152492 0.470512364 0.730807375 0.336658164 0.080026685 4.65E-10 9.332207926 1.006100064 HTPPTIGGS(ph)LPYR ddPTM_HeLa_SAHA_4h_R1 5 HTPPTIGGSLPYR 13 0 H7C3Q7;H0Y6B5;B7Z836;E7EW77;E7EP65;A0A0C4DG21;F8WAL6;Q9NYB9-3;Q9NYB9-2;Q9NYB9-4;Q9NYB9;E9PEZ7 H7C3Q7 ABI2 Abl interactor 2 1 0 HTPPTIGGS(1)LPYR;HTPPT(0.001)IGGS(0.999)LPYR;HT(0.002)PPT(0.294)IGGS(0.705)LPYR;HTPPT(0.018)IGGS(0.981)LPYR;HTPPT(0.119)IGGS(0.881)LPYR ;;;; 110.56 0.0019532 85773100 11680.2 12088.9 11395.5 13045.6 12799 9006.7 14056 12461.3 12669.1 11844.2 TRUE FALSE FALSE 12908.77703 12480.58829 12948.41939 13298.11645 11818.34339 8239.27849 12474.38189 12142.55799 12580.9347 12354.86143 1.044833817 1.010176307 1.048042463 1.076346872 0.956574338 0.666885545 1.009673962 0.982816203 1.018298325 1 13.59279121 -5.522181737 24.96344495 1.026036921 0.884271755 0.359785051 0.08777899 19.87256367 711734.3663 0.012263418 0.024764418 3.00E-06 5.522181737 -0.141765166 HTVDDGLDIR ddPTM_HeLa_SAHA_4h_R1 2 HTVDDGLDIR 10 0 A0A0C4DGH5;Q86VP6-2;Q86VP6 A0A0C4DGH5 CAND1 Cullin-associated NEDD8-dissociated protein 1 0 0 ; ; 131.83 0.0016462 5932500 981.11 1629.47 1267.33 1399 1338.75 1398.59 1387.66 1183.69 1771.95 1726.18 FALSE FALSE TRUE 1084.307651 1682.265897 1440.035132 1426.079668 1236.175264 1279.422264 1231.516845 1153.412924 1759.618856 1800.604068 0.602191048 0.934278628 0.799751127 0.792000692 0.68653364 0.71055169 0.683946497 0.640569987 0.977238077 1 10.81426527 -9.506246741 1.192860775 1.003509017 0.723353956 0.568170598 0.089478766 0.308604982 0.769844415 0.072530044 0.016643921 3.12E-10 9.506246741 -0.280155061 HTVLYIS(ph)PPPEDLLDNSR ddPTM_HeLa_SAHA_4h_R1 4 HTVLYISPPPEDLLDNSR 18 0 O94916-2;O94916;O94916-4;O94916-5 O94916-2 NFAT5 Nuclear factor of activated T-cells 5 1 0 HTVLY(0.001)IS(0.999)PPPEDLLDNSR;HTVLY(0.001)IS(0.998)PPPEDLLDNSR;HT(0.004)VLY(0.168)IS(0.828)PPPEDLLDNSR;HTVLY(0.006)IS(0.994)PPPEDLLDNSR ;;; 145.44 8.13E-05 13353100 4030.26 5199.56 4724.18 4823.35 4918.78 5157.79 5592.87 4657.11 6111.36 5706.09 TRUE FALSE FALSE 4454.181238 5368.029156 5367.966648 4916.712914 4541.904139 4718.317275 4963.545548 4537.98787 6068.830548 5952.107465 0.748336831 0.901870335 0.901859834 0.826045723 0.763074956 0.792713724 0.833913967 0.762416992 1.019610379 1 12.53918486 -9.452861827 1.074556277 1.004730063 0.813446765 0.68685764 0.051917178 0.292623033 0.579727314 0.043992645 0.009870677 3.52E-10 9.452861827 -0.191283298 SAPAPK(ac)KGSK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 SAPAPKKGSKK 11 3 O60814;P57053;P33778;P58876;P62807;Q16778;Q5QNW6;Q5QNW6-2;Q8N257;Q93079;U3KQK0;Q99877;Q99880 O60814;P33778;P58876;P62807;Q16778;Q5QNW6;Q8N257;Q93079;U3KQK0;Q99880 HIST1H2BK;H2BFS;HIST1H2BB;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST2H2BF;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-B;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 2-F;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-L 0 2 ; SAPAPK(0.805)K(0.197)GSK(0.998)K;SAPAPK(0.85)K(0.15)GSK(1)K 111.79 0.0012135 0 2850.4 2450.66 5953.7 10846.1 13097.2 12757 16834.4 15847.4 1016.91 1919.85 FALSE TRUE FALSE 3150.21815 2530.062992 6765.03923 11056.04195 12093.69537 11670.03183 14940.14901 15442.04645 1009.833241 2002.624129 1.573045138 1.263373868 3.378087347 5.520777359 6.038924225 5.82737003 7.460286126 7.710906021 0.504255005 1 10.96767595 -6.243014293 1.004557715 1.180175451 7.145823483 0.957246058 0.549138484 0.068410379 0.136534862 0.095827817 0.205818346 5.71E-07 6.243014293 5.965648032 up HVDSLSQRS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 HVDSLSQRSPK 11 1 Q9UHD8;Q9UHD8-5;Q9UHD8-2;Q9UHD8-7;K7ENL0;K7EJV0;K7EPY1 Q9UHD8 9-Sep Septin-9 1 0 HVDS(0.001)LS(0.144)QRS(0.855)PK;HVDS(0.004)LS(0.015)QRS(0.981)PK;HVDS(0.001)LS(0.012)QRS(0.987)PK ;; 76.357 0.016282 257938000 8032.1 9414.3 5217.4 9979.3 16801.4 17187.7 15786.5 18961.2 8853.6 12631 TRUE FALSE FALSE 8876.953131 9719.329497 5928.400101 10172.46378 15514.08036 15723.21126 14010.16147 18476.19996 8791.987077 13175.58422 0.673742658 0.737677308 0.44995349 0.772069277 1.177487093 1.193359702 1.063342713 1.402305935 0.667293907 1 13.68557931 -5.750301139 9.069273681 0.795646485 1.19815569 0.679316032 0.160247877 0.105056439 64.55359651 0.027841026 0.054163833 1.78E-06 5.750301139 0.402509205 HVEEFSPR ddPTM_HeLa_SAHA_4h_R1 1 HVEEFSPR 8 0 Q14566 Q14566 MCM6 DNA replication licensing factor MCM6 0 0 124.08 0.0031935 4094100 946.18 1100.2 546.85 789.15 937.82 925.17 912.69 982.33 806.92 851.07 FALSE FALSE TRUE 1045.703554 1135.847202 621.3718701 804.4251394 865.9644342 846.3403111 809.9917191 957.203421 801.304578 887.7637927 1.177907414 1.279447541 0.699929278 0.906125195 0.975444641 0.953339523 0.912395533 1.078218586 0.902610114 1 9.79403206 -6.770551686 24.99999745 1.10101688 0.923802859 0.291746663 0.128555431 171.4969129 470508.4638 0.019859318 0.026305339 1.70E-07 6.770551686 -0.177214022 HVFGESDELIGQK ddPTM_HeLa_SAHA_4h_R1 1 HVFGESDELIGQK 13 0 P60174;P60174-3;P60174-4;U3KPZ0;U3KQF3;U3KPS5 P60174 TPI1 Triosephosphate isomerase 0 0 99.215 0.0064135 5943200 2978 2854.9 2356.4 2770.7 3569.6 3977.9 3953.1 3201.8 3591.7 2793.1 FALSE FALSE TRUE 3291.239704 2947.400633 2677.51792 2824.330905 3296.098019 3638.960541 3508.286784 3119.902592 3566.705067 2913.52421 1.129642133 1.011627301 0.918996283 0.969386455 1.131309638 1.248989292 1.204138538 1.070834621 1.224189267 1 11.50854958 -5.560119505 7.543802624 1.041119571 1.179745255 0.311468468 0.090129755 0.163925193 27.22306492 0.011983156 0.024175675 2.75E-06 5.560119505 0.138625683 HVGNQQYNVTYVVK ddPTM_HeLa_SAHA_4h_R1 2 HVGNQQYNVTYVVK 14 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;A0A0A0MT44 O75369-8 FLNB Filamin-B 0 0 ; ; 119.39 0.00058689 4456900 4860.7 4460.8 5187.1 5314.1 6604.9 5153.3 5964.1 4767.7 5107.8 5617.8 FALSE FALSE TRUE 5371.970728 4605.332847 5893.970975 5416.96209 6098.833989 4714.209848 5293.003771 4645.749138 5072.254404 5860.010851 0.916716857 0.785891522 1.005795232 0.924394549 1.040754726 0.804471181 0.903241292 0.792788487 0.865570821 1 12.51668762 -7.930757356 0.017638198 1.879853326 3.54E-06 0 0.087856916 489.3367914 5.407987708 294.31441 281.2475767 1.17E-08 7.930757356 -1.879849788 HVLVTLGEK ddPTM_HeLa_SAHA_4h_R1 2 HVLVTLGEK 9 0 P60660-2;F8W1R7;G8JLA2;G3V1V0;P60660;J3KND3;B7Z6Z4;G3V1Y7;F8VPF3;F8VZU9;F8W180;F8VXL3;H0YI43 P60660-2 MYL6 Myosin light polypeptide 6 0 0 ; ; 123.86 0.00077669 46817000 25507 27291 33352 32930 34177 22132.1 35446 20203.6 16915.1 23072.2 FALSE FALSE TRUE 28189.94329 28175.24631 37897.03687 33567.40777 31558.36564 20246.32057 31457.52279 19686.82117 16797.38644 24066.95545 1.171313228 1.170702558 1.574650227 1.394750899 1.311273697 0.841249763 1.307083601 0.818002144 0.69794397 1 14.55476603 -3.264752425 13.48675767 1.139636276 1.142131389 0 0.268488467 0 0 0.030894586 0 0.00054356 3.264752425 0.002495114 HVS(ph)PVTPPR ddPTM_HeLa_SAHA_4h_R1 1 HVSPVTPPR 9 0 Q13443 Q13443 ADAM9 Disintegrin and metalloproteinase domain-containing protein 9 1 0 HVS(1)PVTPPR 80.245 0.021227 4941200 1504 1791.4 1741.1 1536.4 2011 1209.3 2173.4 1436.7 1218 1679.3 TRUE FALSE FALSE 1662.197621 1849.442535 1978.368041 1566.139244 1856.917614 1106.260837 1928.843312 1399.951294 1209.523839 1751.702841 0.948903879 1.05579696 1.129397061 0.894066737 1.060064282 0.631534533 1.101124726 0.79919451 0.690484602 1 10.77454234 HVTLPS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 2 HVTLPSSPR 9 0 Q5T4S7-3;Q5T4S7-4;Q5T4S7;Q5T4S7-2;X6RE05;A0A0A0MSW0 Q5T4S7-3 UBR4 E3 ubiquitin-protein ligase UBR4 1 0 HVT(0.01)LPS(0.495)S(0.495)PR;HVTLPS(0.612)S(0.388)PR ; 116.74 0.0033013 39847000 4694.3 6533 3354.2 5261.5 7460.8 8189.6 6225.4 6824.3 5356.9 5939.8 TRUE FALSE FALSE 5188.068012 6744.673486 3811.292908 5363.343941 6889.155116 7491.800007 5524.901608 6649.744287 5319.620897 6195.893847 0.837339719 1.088571505 0.615132054 0.865628765 1.111890437 1.209155643 0.891703723 1.073250196 0.858571988 1 12.59709671 -5.762105451 24.99984451 0.905912819 1.068489965 0.312096369 0.13721617 20.17847042 757410.285 0.020515491 0.038863267 1.73E-06 5.762105451 0.162577147 HVTLPSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 HVTLPSSPR 9 0 Q5T4S7-3;Q5T4S7-4;Q5T4S7;Q5T4S7-2;X6RE05;A0A0A0MSW0 Q5T4S7-3 UBR4 E3 ubiquitin-protein ligase UBR4 1 0 HVTLPS(0.462)S(0.538)PR;HVTLPS(0.209)S(0.791)PR ; 120.55 0.0027865 46781000 3895.3 5614.6 2449.8 4902.3 7425.3 7802.5 5725.9 6527.6 4289.4 5442.8 TRUE FALSE FALSE 4305.025526 5796.516724 2783.645986 4997.191105 6856.375118 7137.683104 5081.606662 6360.633444 4259.549716 5677.465744 0.758265346 1.020969035 0.490297275 0.880179878 1.207647113 1.257195274 0.895048406 1.120329691 0.750255467 1 12.47103138 -5.810010979 9.078364868 0.860908832 1.11360992 0.425102509 0.168137809 0.283992905 49.90374978 0.025788615 0.046929447 1.55E-06 5.810010979 0.252701088 HWDQNER ddPTM_HeLa_SAHA_4h_R1 1 HWDQNER 7 0 P08195-2;F5GZI0;F5GZS6;J3KPF3;P08195-3;P08195;P08195-4 P08195-2 SLC3A2 4F2 cell-surface antigen heavy chain 0 0 122.18 0.0035964 4814900 729.34 952.64 733.54 1165.1 1013.7 437.86 1252.1 645.92 863.02 872.08 FALSE FALSE TRUE 806.0553275 983.506161 833.5030111 1187.652195 936.030525 400.5518647 1111.210413 629.3983017 857.0141736 909.6796367 0.88608703 1.08115662 0.916259942 1.305571926 1.028967218 0.440321899 1.221540384 0.691890064 0.942105483 1 9.829214748 -4.17914797 20.91524708 0.961721586 0.691848603 0.128624051 0.220458746 59272.21106 15055971.6 0.028108548 438.0611958 6.62E-05 4.17914797 -0.269872983 HWILPQDYDHAQAEAR ddPTM_HeLa_SAHA_4h_R1 1 HWILPQDYDHAQAEAR 16 0 Q15293;Q15293-2 Q15293 RCN1 Reticulocalbin-1 0 0 85.006 0.0040225 4473100 1174.6 1234.6 959.63 1474.3 1393.8 1068.9 1321.6 960.26 1194.2 1218 FALSE FALSE TRUE 1298.149817 1274.60185 1090.403379 1502.837208 1287.007345 977.8237065 1172.89009 935.6979396 1185.889465 1270.513941 1.02175173 1.003217524 0.858238028 1.182857708 1.012981679 0.769628475 0.923161921 0.736471997 0.933393509 1 10.31119649 -5.271007596 24.47230292 1.011687106 0.82109491 0.489879664 0.089171009 273.5991381 699775.9878 0.011246156 0.025466121 5.36E-06 5.271007596 -0.190592195 HWMLDKLTGVFAPRPSTGPHK ddPTM_HeLa_SAHA_4h_R1 1 HWMLDKLTGVFAPRPSTGPHK 21 2 P62701;C9JEH7;Q8TD47;P22090 P62701 RPS4X;RPS4Y1;RPS4Y2 "40S ribosomal protein S4, X isoform;40S ribosomal protein S4, Y isoform 2;40S ribosomal protein S4, Y isoform 1" 0 0 46.337 0.01405 2891900 1899.2 2704.3 1544.7 2375.6 3017.9 1491.6 6171.6 4478.9 1245 2203.7 FALSE FALSE TRUE 2098.96657 2791.921094 1755.203672 2421.583173 2786.669154 1364.507288 5477.155325 4364.336223 1236.335944 2298.712292 0.913105384 1.214558736 0.763559528 1.053452049 1.212274004 0.593596377 2.382705894 1.898600464 0.537838488 1 11.16661019 -4.757510774 24.99999504 0.967715403 2.140653489 0.795377661 0.248140133 22.97721659 146211.027 0.025087319 0.087316263 1.75E-05 4.757510774 1.172938087 HYEDGYPGGSDNYGS(ph)LSR ddPTM_HeLa_SAHA_4h_R1 5 HYEDGYPGGSDNYGSLSR 18 0 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-8;O60716-9;O60716-17;O60716-7;O60716-4;O60716-6;A0A669KB62;O60716-11;O60716-13;O60716-19;O60716-21;O60716-20;O60716-22;O60716-23;O60716-14;O60716-24;O60716-16;O60716-15;O60716-12 O60716 CTNND1 Catenin delta-1 1 0 HYEDGYPGGSDNYGS(0.987)LS(0.013)R;HYEDGYPGGSDNYGS(1)LSR;HYEDGYPGGSDNYGS(0.994)LS(0.006)R;HYEDGYPGGS(0.004)DNYGS(0.503)LS(0.492)R;HYEDGYPGGSDNYGS(0.995)LS(0.005)R ;;;; 309.33 4.05E-103 147320000 9737.5 11093.8 8969.3 9900.5 12940.2 7757.1 11178.5 11720.8 10813.5 9973.7 TRUE FALSE FALSE 10761.73493 11453.2464 10191.58949 10092.13849 11948.72467 7096.15144 9920.66576 11420.99891 10738.24797 10403.71502 1.034412699 1.100880443 0.979610598 0.970051417 1.148505572 0.682078606 0.953569542 1.09778083 1.032155144 1 13.34481117 HYELYR ddPTM_HeLa_SAHA_4h_R1 2 HYELYR 6 0 D6RER5;D6RGI3;Q9NVA2;H0Y961;B1AMS2;E7EX04;E7EW69;B5ME97;D6RDU5;Q14141-4;Q92599-3;Q14141-2;Q14141;Q9NVA2-2;Q9P0V9;Q9P0V9-2;Q9P0V9-3;A0A087X142;A6NMH6;A6NFQ9;F8W8I8;Q92599-2;Q92599-4;Q92599 D6RER5;A0A087X142 SEPT11;SEPT6;SEPT10;SEPT8 Septin-11;Septin-6;Septin-8;Septin-10 0 0 ; ; 148.4 8.08E-07 6189200 911.63 1059.95 1054.47 1366.27 1209.19 717.87 1435.37 574.37 705.14 736.31 FALSE FALSE TRUE 1007.519426 1094.293075 1198.16768 1392.716132 1116.542123 656.7034374 1273.85839 559.6784471 700.2328733 768.0559275 1.311778726 1.424757021 1.560000564 1.813300414 1.453725026 0.855020336 1.658548999 0.728694913 0.911695162 1 9.585067557 -8.677031319 0.871356849 1.022978819 1.370676096 0.185610546 0.31984515 0.743679739 1.132691371 0.138734234 0.063598265 2.10E-09 8.677031319 0.347697277 HYGDQVDR ddPTM_HeLa_SAHA_4h_R1 4 HYGDQVDR 8 0 E7ES68;G5E9D5;Q9BQ52;Q9BQ52-3;Q9BQ52-2;Q9BQ52-4 E7ES68 ELAC2 Zinc phosphodiesterase ELAC protein 2 0 0 ;;; ;;; 124.23 0.003167 6057440 1214.9 1066.23 913.35 1254.15 1364.19 1009.36 1378.56 1132.83 1121.3 1216.29 FALSE FALSE TRUE 1342.688756 1100.776552 1037.816581 1278.425887 1259.666057 923.3568495 1223.440801 1103.853849 1113.496782 1268.730214 1.058293356 0.867620664 0.817996269 1.007642029 0.992855725 0.727780295 0.964303354 0.870046158 0.877646618 1 10.30916961 -7.260407315 24.99498462 1.027527419 0.894435042 0.088095193 0.092996298 72.25504645 1749905.97 0.013292712 0.015787702 5.49E-08 7.260407315 -0.133092377 HYGIT(ph)SPISLAAPK ddPTM_HeLa_SAHA_4h_R1 1 HYGITSPISLAAPK 14 0 G3XAH6;P51003;G3V457;G3V3I9;A0A0C4DGK1;P51003-2 G3XAH6 PAPOLA Poly(A) polymerase alpha 1 0 HYGIT(0.492)S(0.492)PIS(0.015)LAAPK 96.371 0.0067578 0 464.22 337.02 340.58 340.47 733.21 562.19 541.58 532.98 550.59 422.62 TRUE FALSE FALSE 513.0487895 347.9396691 386.9924687 347.0602892 677.0316082 514.2882492 480.639993 519.3471433 546.7583994 440.8412165 1.163794968 0.789263018 0.877850016 0.787268241 1.535772026 1.166606547 1.090279164 1.178082094 1.240261525 1 8.784115305 -5.774948882 24.99998765 1.020386831 1.226364751 0.331535388 0.178202226 260.019437 481178.5149 0.026748423 0.048679061 1.68E-06 5.774948882 0.20597792 HYLDFINHYANLFHEK ddPTM_HeLa_SAHA_4h_R1 1 HYLDFINHYANLFHEK 16 0 Q14204;A0A2R8Y706;A0A2R8YFZ7;A0A2R8Y6H2;A0A2R8Y5T0 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 72.681 0.0049459 1307900 501.85 456.35 830.51 819.78 752.23 90.276 874.37 180.82 343.52 362.88 FALSE FALSE TRUE 554.6368856 471.1360394 943.6875777 835.6480273 694.5942999 82.58397692 775.9835864 176.1948862 341.1294164 378.5255327 1.465256205 1.244661189 2.493061884 2.20763979 1.834999861 0.218172804 2.050016497 0.465476886 0.901205829 1 8.564246807 -3.207716528 14.56973341 1.358832038 1.135501277 0 0.719246402 0 0 0.091010068 0 0.000619846 3.207716528 -0.223330762 HYNGEAYEDDEHHPR ddPTM_HeLa_SAHA_4h_R1 3 HYNGEAYEDDEHHPR 15 0 P31689 P31689 DNAJA1 DnaJ homolog subfamily A member 1 0 0 ;; ;; 176.25 1.80E-07 23896490 1324.92 1021.72 1275.56 1262.06 1345.86 429.81 1469.47 1136.54 1449.77 1141.32 FALSE FALSE TRUE 1464.281165 1054.824398 1449.386674 1286.488996 1242.740498 393.18777 1304.121368 1107.468952 1439.680933 1190.527891 1.229942764 0.886014017 1.217431935 1.080603828 1.043856685 0.330263384 1.095414377 0.930233522 1.209279467 1 10.2173857 -5.496330759 24.8510373 1.098380547 0.794772345 0.325644116 0.205761669 611.6886404 572588.9034 0.028207014 0.062878639 3.19E-06 5.496330759 -0.303608202 HYS(ph)QDCSSIK ddPTM_HeLa_SAHA_4h_R1 1 HYSQDCSSIK 10 0 Q9P227;Q9P227-2 Q9P227 ARHGAP23 Rho GTPase-activating protein 23 1 0 HYS(0.889)QDCS(0.086)S(0.025)IK 115.33 0.00402 3631200 610.06 756.08 654.88 465.98 746.45 607.68 789.44 631.82 572.72 678.08 TRUE FALSE FALSE 674.2289099 780.5774881 744.1236359 474.9997167 689.2571623 555.9022453 700.6101335 615.6589593 568.7343949 707.3153472 0.953222509 1.103577762 1.052039432 0.671552962 0.9744694 0.785932678 0.990520192 0.870416515 0.804074727 1 9.466209755 HYYSITINYR ddPTM_HeLa_SAHA_4h_R1 1 HYYSITINYR 10 0 O00487 O00487 PSMD14 26S proteasome non-ATPase regulatory subunit 14 0 0 114.51 0.0020176 1278000 162.24 485.28 352.79 551.29 644.66 252.74 814.81 180.82 148.44 306.71 FALSE FALSE TRUE 179.3051476 501.0033904 400.8663839 561.9610151 595.2662901 231.2051301 723.1254343 176.1948862 147.406994 319.9337691 0.560444582 1.565959704 1.252966778 1.756491716 1.860592246 0.722665603 2.260234787 0.550723003 0.460742217 1 8.321629467 -7.255051134 24.66179311 0.792432161 1.452378964 0.310809477 0.501677741 377.5250396 1457433.985 0.075283671 0.091001604 5.56E-08 7.255051134 0.659946803 IAAPELHKGDS(ph)DSEEDEPTK ddPTM_HeLa_SAHA_4h_R1 1 IAAPELHKGDSDSEEDEPTK 20 1 Q92733 Q92733 PRCC Proline-rich protein PRCC 1 0 IAAPELHKGDS(0.984)DS(0.016)EEDEPTK 86.222 0.00076157 5233200 2406.2 2374.8 1879.1 2815.5 3231.5 2820.2 2568.8 2962.9 3278.3 2690.8 TRUE FALSE FALSE 2659.295156 2451.745078 2135.173962 2869.998074 2983.903168 2579.903094 2279.751863 2887.113308 3255.486043 2806.813556 0.94744275 0.873497662 0.760711005 1.02251112 1.063092759 0.919157273 0.812220626 1.028608866 1.15985119 1 11.45471752 -8.29009202 1.231225879 0.989783371 0.925377961 0.154436058 0.1054996 0.799331332 2.473727156 0.025664057 0.018457826 5.13E-09 8.29009202 -0.06440541 IAASSS(ph)FR ddPTM_HeLa_SAHA_4h_R1 5 IAASSSFR 8 0 Q99961-3;Q99961-2;Q99961 Q99961-3 SH3GL1 Endophilin-A2 1 0 IAAS(0.026)S(0.178)S(0.797)FR;IAAS(0.034)S(0.214)S(0.752)FR;IAAS(0.032)S(0.204)S(0.764)FR;IAAS(0.01)S(0.067)S(0.923)FR;IAASS(0.001)S(0.999)FR ;;;; 205.59 2.92E-12 1568638000 27750.2 33923.6 31714.6 22054.7 32232.8 27501.7 32349.6 22642.4 22257.7 27803 TRUE FALSE FALSE 30669.09336 35022.7469 36036.50053 22481.60061 29763.12983 25158.40044 28709.53787 22063.24019 22102.80685 29001.72339 1.057492099 1.207609162 1.242564107 0.77518154 1.026253834 0.867479498 0.989925236 0.760756176 0.762120463 1 14.82385101 -6.247429305 24.98254628 1.058931522 0.896802643 0.256286272 0.143870571 720.6638576 1285076.2 0.016950962 0.028023836 5.66E-07 6.247429305 -0.162128878 IAAYLFK ddPTM_HeLa_SAHA_4h_R1 2 IAAYLFK 7 0 A0A087WVQ6;Q00610-2;Q00610;J3KS13;K7EJJ5;J3KRF5 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 ; ; 109.88 0.012006 1259920 1068.97 694.69 3786.8 2313.5 1682.88 298.447 1725.69 426.95 257.83 452.31 FALSE FALSE TRUE 1181.409169 717.1984118 4302.845383 2358.281138 1553.938098 273.0176366 1531.510819 416.0292372 256.03574 471.8112977 2.503986605 1.520095884 9.119843897 4.998356652 3.293558475 0.57865854 3.24602405 0.881770401 0.542665556 1 8.882066154 -4.242880812 21.73416395 2.530864691 0.881761537 0.03373178 2.484477562 2048.378667 2398638.955 0.357172334 12.67807168 5.72E-05 4.242880812 -1.649103153 IAAYLQSDQFCK ddPTM_HeLa_SAHA_4h_R1 2 IAAYLQSDQFCK 12 0 P21266 P21266 GSTM3 Glutathione S-transferase Mu 3 0 0 ; ; 143.5 0.00019065 1612680 840.19 833.17 764.3 1008.76 819.08 1469.84 1135.83 756.98 850.71 749.77 FALSE FALSE TRUE 928.5650391 860.1652547 868.4548237 1028.286008 756.3222674 1344.601363 1008.023419 737.6175477 844.7898398 782.096254 1.187277185 1.099820195 1.110419362 1.314781912 0.967044994 1.719227469 1.288873862 0.943128859 1.080160959 1 9.611202363 -9.091647174 0.242834104 0.886159644 1.278474596 0.098589038 0.206952785 7.631077161 0.714427285 0.939085982 0.21539782 8.10E-10 9.091647174 0.392314952 IACDEEFS(ph)DS(ph)EDEGEGGRR ddPTM_HeLa_SAHA_4h_R1 2 IACDEEFSDSEDEGEGGRR 19 1 Q92769;Q92769-3 Q92769 HDAC2 Histone deacetylase 2 2 0 IACDEEFS(1)DS(1)EDEGEGGRR;IACDEEFS(1)DS(1)EDEGEGGRR ; 86.411 0.0057315 104398000 2011.92 2018.54 1642.92 2186.3 2312.6 2438.7 2211.14 2273.46 2032.23 1674.1 TRUE FALSE FALSE 2223.542977 2083.94202 1866.808582 2228.618998 2135.409088 2230.90904 1962.336708 2215.308185 2018.087546 1746.278644 1.273303653 1.193361682 1.069021023 1.276210418 1.222834108 1.277521802 1.12372485 1.26858803 1.155650361 1 10.77006806 -9.396451121 0.996229414 0.99340398 1.214364627 0.22831284 0.081202523 0.320777799 0.541722983 0.052722543 0.011943061 4.01E-10 9.396451121 0.220960647 IACDEEFS(ph)DSEDEGEGGRR ddPTM_HeLa_SAHA_4h_R1 1 IACDEEFSDSEDEGEGGRR 19 1 Q92769;Q92769-3 Q92769 HDAC2 Histone deacetylase 2 1 0 IACDEEFS(0.996)DS(0.004)EDEGEGGRR 146.15 4.58E-05 13492000 645.78 630.45 658.16 474.26 686.87 874.71 680.83 809.2 721.54 784.63 TRUE FALSE FALSE 713.7061033 650.8769937 747.8506173 483.4399881 634.242169 800.179787 604.2212166 788.5018357 716.5187444 818.4592392 0.872011787 0.795246681 0.913729825 0.590670818 0.77492212 0.97766602 0.738242282 0.963397806 0.875448294 1 9.676766759 -8.361788132 0.711827697 0.990663893 0.816609438 0.104036328 0.114069386 0.591089848 0.638084389 0.048053614 0.025164398 4.35E-09 8.361788132 -0.174054455 IACEEEFS(ph)DSEEEGEGGR ddPTM_HeLa_SAHA_4h_R1 1 IACEEEFSDSEEEGEGGR 18 0 Q13547 Q13547 HDAC1 Histone deacetylase 1 1 0 IACEEEFS(1)DSEEEGEGGR 169.02 6.90E-20 0 0 137.27 244.72 296.02 197.73 317.67 298.86 323.71 184.53 160.44 TRUE FALSE FALSE 0 141.7176381 278.0691672 301.7498952 182.5799701 290.6027288 265.2314862 315.4299669 183.2458407 167.3573536 0 0.8467966 1.661529423 1.803027406 1.090958755 1.736420436 1.584821226 1.88476909 1.09493749 1 7.386788133 -6.867843625 4.123600182 0.523583833 1.613933497 0.593861027 0.352509571 0.111397741 3.47592496 0.067540717 0.090211315 1.36E-07 6.867843625 1.090349664 IACEEEFS(ph)DSEEEGEGGRK ddPTM_HeLa_SAHA_4h_R1 1 IACEEEFSDSEEEGEGGRK 19 1 Q13547 Q13547 HDAC1 Histone deacetylase 1 1 0 IACEEEFS(0.705)DS(0.295)EEEGEGGRK 96.591 0.00086475 25493000 1156.3 1254.9 986.43 1276.1 1452.9 1400.7 1350.8 1594.4 1085.9 1300.9 TRUE FALSE FALSE 1277.924939 1295.559583 1120.855543 1300.800761 1341.579116 1281.35248 1198.804429 1553.617557 1078.343133 1356.988165 0.941736245 0.954731674 0.825987707 0.958594035 0.988644669 0.944262089 0.883430276 1.144901331 0.794659203 1 10.40619242 -4.247491873 24.60323445 0.9548404 1.144901491 0.406911039 0.071302372 1219.953178 2151938.337 0.007450144 0.203674742 5.66E-05 4.247491873 0.190061092 IACKS(ph)PPPESVDTPTSTK ddPTM_HeLa_SAHA_4h_R1 2 IACKSPPPESVDTPTSTK 18 1 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 IACKS(1)PPPESVDTPTSTK;IACKS(0.999)PPPES(0.001)VDTPTSTK ; 110.33 0.00070607 10585000 3370.2 2299.69 1874.35 2343 2245.15 2345.6 2850.3 3496.5 2721.9 2963.6 TRUE FALSE FALSE 3724.693099 2374.201465 2129.776657 2388.352153 2073.127092 2145.741684 2529.576742 3407.064593 2702.958076 3091.3753 1.204866035 0.768008163 0.688941474 0.772585636 0.670616438 0.694105851 0.818269054 1.102119368 0.874354556 1 11.5940331 -7.250010633 24.45787449 1.096742293 0.776479074 0.337222071 0.142841218 305.2053814 653149.3191 0.022794138 0.027780365 5.62E-08 7.250010633 -0.320263219 IADPEHDHTGFLT(ph)EYVATR ddPTM_HeLa_SAHA_4h_R1 1 IADPEHDHTGFLTEYVATR 19 0 B3KR49;E9PJF0;E9PQW4;P27361-2;P27361-3;P27361 B3KR49 MAPK3 Mitogen-activated protein kinase;Mitogen-activated protein kinase 3 1 0 IADPEHDHT(0.005)GFLT(0.849)EY(0.096)VAT(0.05)R 121.03 0.00038232 8135000 885.72 1566.7 1353.8 877.24 1361.6 816.48 1641.9 1659.4 1195.6 1594.7 TRUE FALSE FALSE 978.8840934 1617.462108 1538.288814 894.2202487 1257.274502 746.9113106 1457.149091 1616.954951 1187.279722 1663.455321 0.588464313 0.972350797 0.924755113 0.537567939 0.755821023 0.449011946 0.875977294 0.972045916 0.713743079 1 10.6999674 -6.29110331 24.71822928 0.824000585 0.71400448 0.098595655 0.180745469 1482.615924 1235424.398 0.032606815 0.049811952 5.12E-07 6.29110331 -0.109996104 IADPEHDHTGFLTEY(ph)VATR ddPTM_HeLa_SAHA_4h_R1 2 IADPEHDHTGFLTEYVATR 19 0 B3KR49;E9PJF0;E9PQW4;P27361-2;P27361-3;P27361 B3KR49 MAPK3 Mitogen-activated protein kinase;Mitogen-activated protein kinase 3 1 0 IADPEHDHTGFLT(0.106)EY(0.875)VAT(0.019)R;IADPEHDHTGFLT(0.003)EY(0.993)VAT(0.004)R ; 149.86 0.00028443 14377200 2430.7 4113.3 4310.9 2447.5 3428.7 2075.74 3910.9 3051.3 2739.7 3523.8 TRUE FALSE FALSE 2686.372178 4246.573619 4898.367002 2494.874902 3165.993747 1898.875274 3470.835239 2973.252164 2720.634205 3675.728263 0.730840798 1.155301294 1.332624898 0.67874302 0.861324211 0.516598382 0.944257842 0.808887913 0.740161952 1 11.8438144 IAEFTTNLTEEEEK ddPTM_HeLa_SAHA_4h_R1 2 IAEFTTNLTEEEEK 14 0 P35579 P35579 MYH9 Myosin-9 0 0 ; ; 297.64 3.20E-82 33256000 4203 3892.1 3008.5 4069.5 3785.8 4770 3786.1 3568.9 4398 4380.1 FALSE FALSE TRUE 4645.090824 4018.206594 3418.482712 4148.271057 3495.732822 4363.569165 3360.078064 3477.612706 4367.39396 4568.947547 1.016665387 0.879459997 0.748199159 0.907927048 0.765106797 0.955049083 0.735416205 0.761140869 0.955886211 1 12.15764616 -7.128505583 3.664095035 1.00790819 0.817020028 0.56575194 0.069204254 0.105982893 2.568456936 0.010556725 0.013079207 7.44E-08 7.128505583 -0.190888162 IAEFTTNLTEEEEKSK ddPTM_HeLa_SAHA_4h_R1 1 IAEFTTNLTEEEEKSK 16 1 P35579 P35579 MYH9 Myosin-9 0 0 174.59 4.73E-12 1780800 369.19 262.89 516.6 497.84 466.11 355.98 309.02 489.99 233.57 440.86 FALSE FALSE TRUE 408.0230981 271.4078085 586.9995577 507.4764131 430.3967525 325.6485013 274.2482563 477.4567653 231.9445674 459.8676321 0.88726205 0.590186805 1.276453302 1.103527141 0.935914429 0.708135295 0.596363469 1.038248252 0.504372457 1 8.845074847 -5.315142818 7.188265381 0.955256946 0.762693824 0.01215082 0.23983654 0.337617615 39.35293818 0.027066691 0.061121793 4.84E-06 5.315142818 -0.192563122 IAEK(ac)GSTIETEQKEDKGEDSEPVTSK ddPTM_HeLa_SAHA_4h_R1 1 IAEKGSTIETEQKEDKGEDSEPVTSK 26 3 A0A0U1RRM6;Q8N8S7-3;Q8N8S7-2;Q8N8S7 A0A0U1RRM6 ENAH Protein enabled homolog 0 1 IAEK(1)GSTIETEQKEDKGEDSEPVTSK 71.308 0.0014645 839090 222.94 306.97 381.31 476.07 612.98 496.81 660.45 487.67 162.31 337.17 FALSE TRUE FALSE 246.3898521 316.9160294 433.272941 485.2850233 566.0136048 454.478993 586.1344278 475.1961075 161.1804715 351.7070488 0.700554205 0.90107955 1.231914295 1.379798969 1.609332559 1.292208941 1.6665416 1.351113403 0.45828047 1 8.458230439 -6.567961018 2.160299646 0.855111025 1.473481718 0.769939628 0.177021449 0.099037381 0.933145759 0.023805348 0.036462359 2.70E-07 6.567961018 0.618370692 IAEPS(ph)VCGR ddPTM_HeLa_SAHA_4h_R1 1 IAEPSVCGR 9 0 A0A3B3ITP6;A0A3B3IT92;P33991;A0A3B3IU45 A0A3B3ITP6 MCM4 DNA replication licensing factor MCM4 1 0 IAEPS(1)VCGR 99.788 0.010867 7399000 1842.5 1935 1971.2 2062.1 2076.9 2431.5 2034.4 2319.8 2090.3 1916.3 TRUE FALSE FALSE 2036.302604 1997.69527 2239.82487 2102.014927 1917.768371 2224.322521 1805.483958 2260.462875 2075.753432 1998.921071 1.018700855 0.999386768 1.120516914 1.051574751 0.959401748 1.112761556 0.903229239 1.130841486 1.038436916 1 10.96500579 IAETDFEKR ddPTM_HeLa_SAHA_4h_R1 1 IAETDFEKR 9 1 K7EJL5;K7EN19;A0A6I8PUD4;A0A6I8PS32;A0A6I8PIK4;A0A6I8PR89;A0A6I8PRZ0;K7ER44;A0A6I8PLE7;A0A6I8PU89;A0A6I8PUC2;K7EIH8;K7EPP7;K7EK03;K7ESP1;K7EJV7;A0A6I8PU73;Q99615-2;Q99615 K7EJL5 DNAJC7 DnaJ homolog subfamily C member 7 0 0 119.21 0.0077163 5910000 1555.1 1452 1490.1 1403.7 1492.1 1587.1 1607 1533.1 1401.6 1167.5 FALSE FALSE TRUE 1718.672553 1499.045753 1693.163068 1430.870643 1377.77562 1451.870151 1426.176131 1493.885522 1391.846151 1217.836639 1.41125049 1.230908732 1.390303933 1.174928228 1.131330407 1.192171516 1.171073431 1.226671521 1.142884117 1 10.25010491 -9.584849695 1.391392391 1.000860585 1.259637827 0.27656174 0.097536404 0.302767763 1.056776568 0.072300359 0.017079834 2.60E-10 9.584849695 0.258777242 IAFAITAIK ddPTM_HeLa_SAHA_4h_R1 2 IAFAITAIK 9 0 P62269;A0A0G2JQH2;Q5GGW2 P62269 RPS18 40S ribosomal protein S18 0 0 ; ; 157.86 9.70E-07 2586400 1503.45 1566.22 3176.88 2572.5 2707.21 909.704 2768.44 619.682 334.91 1057.69 FALSE FALSE TRUE 1661.589769 1616.966556 3609.808662 2622.294457 2499.784155 832.1921013 2456.927845 603.8314317 332.579334 1103.292192 1.506028757 1.465583249 3.271851906 2.376790551 2.265749883 0.754280786 2.226905857 0.547299651 0.301442661 1 10.1075992 -5.236518918 24.94921479 1.564666838 1.281236727 0.051605806 0.877725462 3261.140688 3264898.761 0.123104821 0.313716426 5.80E-06 5.236518918 -0.28343011 IAGPGLGS(ph)GVR ddPTM_HeLa_SAHA_4h_R1 1 IAGPGLGSGVR 11 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 1 0 IAGPGLGS(1)GVR 84.31 0.020156 9900000 1259.9 1208.2 956.59 1193.3 1221.9 1227.6 1331.6 1434.7 1328.9 1347.7 TRUE FALSE FALSE 1392.422063 1247.346473 1086.949103 1216.398047 1128.278286 1123.001574 1181.764863 1398.002451 1319.652077 1405.805942 0.990479568 0.887282117 0.773185737 0.865267396 0.802584661 0.798831147 0.840631575 0.994449098 0.938715677 1 10.45718174 -7.17143105 3.479344212 0.995984726 0.841687483 0.477708546 0.059650656 0.116781794 2.684638519 0.009324918 0.011438238 6.74E-08 7.17143105 -0.154297243 IAGPGLGSGVR ddPTM_HeLa_SAHA_4h_R1 1 IAGPGLGSGVR 11 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 127.46 0.0093662 5073200 1186.4 1269.7 880.57 1308.2 1404.6 1147.7 1078.7 1139.3 1276.8 922.12 FALSE FALSE TRUE 1311.190995 1310.839113 1000.569494 1333.522103 1296.979851 1049.909503 957.321837 1110.158356 1267.914645 961.8771059 1.363158544 1.362792715 1.040225916 1.386374719 1.348384158 1.09152146 0.995264188 1.154158207 1.318166985 1 9.90970877 -5.028136897 23.84479969 1.207027516 1.066881562 0.196999057 0.14020279 642.8455957 544785.2339 0.024350409 0.062267979 9.37E-06 5.028136897 -0.140145955 IAGQVAAANK ddPTM_HeLa_SAHA_4h_R1 2 IAGQVAAANK 10 0 P39019;A0A075B6E2 P39019 RPS19 40S ribosomal protein S19 0 0 ; ; 174.52 2.12E-13 7976400 2887.4 3450.4 2990.2 3772.3 3414 3206.3 3266.2 3133.3 2837.4 2692.8 FALSE FALSE TRUE 3191.10998 3562.195224 3397.688884 3845.318321 3152.420058 2933.105202 2898.67858 3053.154723 2817.654302 2808.899786 1.136071139 1.268181671 1.209615559 1.368976686 1.12229709 1.044218529 1.031962263 1.086957512 1.003116706 1 11.45578944 -3.208040915 14.0347988 1.10767425 1.119850909 0 0.117544875 0 0 0.017313191 0 0.000619383 3.208040915 0.012176659 IAHIPLYFVNAQFPR ddPTM_HeLa_SAHA_4h_R1 1 IAHIPLYFVNAQFPR 15 0 F8VZ44;Q9NRG9-2;Q9NRG9 F8VZ44 AAAS Aladin 0 0 166.11 2.22E-08 668470 581.02 848.37 246.18 487.96 446.09 884.87 453.5 1080.8 1027.6 938.59 FALSE FALSE TRUE 642.1343494 875.8577446 279.7281283 497.4051714 411.9106806 809.4740979 402.4709865 1053.154701 1020.448848 979.0572082 0.6558701 0.89459302 0.28571173 0.508045053 0.420721769 0.826789376 0.411080152 1.075682495 1.042277039 1 9.935249352 -8.867757676 0.607142831 1.018943249 0.606888572 0.30460141 0.231800905 0.877273524 0.576706168 0.186642055 0.052703252 1.36E-09 8.867757676 -0.412054676 IAILTCPFEPPKPK ddPTM_HeLa_SAHA_4h_R1 2 IAILTCPFEPPKPK 14 1 B7ZAR1;E9PCA1;P48643;E7ENZ3;P48643-2 B7ZAR1 CCT5 T-complex protein 1 subunit epsilon 0 0 ; ; 175.48 4.54E-11 4481200 2002.87 1805.07 1580.46 2068.81 2045.2 1721.71 1764.62 1443.07 1821.8 1735.14 FALSE FALSE TRUE 2213.541056 1863.555452 1795.836858 2108.854809 1888.497218 1575.010622 1566.060313 1406.158359 1809.121945 1809.950377 1.222984389 1.029616876 0.992202262 1.165145098 1.043397234 0.870195472 0.865250414 0.776904371 0.99954229 1 10.82173443 -5.253018039 2.525237279 1.096412624 0.825450171 0.641634382 0.076773563 0.15042178 1.874196919 0.013738937 0.039280433 5.58E-06 5.253018039 -0.270962453 IAIS(ph)PLK ddPTM_HeLa_SAHA_4h_R1 1 IAISPLK 7 0 Q6MZP7;Q6MZP7-3 Q6MZP7 LIN54 Protein lin-54 homolog 1 0 IAIS(1)PLK 94.85 0.016957 4851000 5443.7 6696 4094 5356.7 6517.3 10346 6732.3 9403.4 10541 6909 TRUE FALSE FALSE 6016.293343 6912.954793 4651.908999 5460.386674 6017.945882 9464.462595 5974.763886 9162.874644 10467.64432 7206.880802 0.834798508 0.959215919 0.645481607 0.757662965 0.835027808 1.313253661 0.829036035 1.271406437 1.452451429 1 12.81515927 -5.291910848 24.9963587 0.884248041 1.107012525 0.121918502 0.238034998 619.8633122 508485.417 0.022550063 0.050429213 5.11E-06 5.291910848 0.222764484 IALEARPLLSQEDS(ph)EEEENELEAINRK ddPTM_HeLa_SAHA_4h_R1 1 IALEARPLLSQEDSEEEENELEAINRK 27 2 Q9H1H9-3;Q9H1H9-4;Q9H1H9-2 Q9H1H9-3 KIF13A Kinesin-like protein KIF13A 1 0 IALEARPLLS(0.004)QEDS(0.996)EEEENELEAINRK 57.826 0.0029084 18681000 496.75 524.13 592.28 580.05 634.04 634.04 721.5 800.42 398.84 574.29 TRUE FALSE FALSE 549.0004442 541.1121559 672.9928339 591.2777065 585.4599922 580.016225 640.3149211 779.9464154 396.06444 599.0504524 0.916451097 0.90328311 1.123432645 0.987024889 0.977313329 0.968226003 1.068883128 1.301971165 0.661153728 1 9.226533703 -4.261895722 1.999678667 0.97035785 1.401006292 0.474078421 0.113085378 0.293137663 1.235129366 0.008679693 0.230269213 5.47E-05 4.261895722 0.430648442 IALLEEENSRPHTNET(ph)SL ddPTM_HeLa_SAHA_4h_R1 1 IALLEEENSRPHTNETSL 18 1 D6REY2;P23508;P23508-2 D6REY2 MCC Colorectal mutant cancer protein 1 0 IALLEEENSRPHT(0.005)NET(0.497)S(0.497)L 65.887 0.019516 6311100 903.68 927.1 861.17 711.38 896.09 724.38 1005 888.66 846.36 956.74 TRUE FALSE FALSE 998.7332086 957.1386483 978.5257628 725.1497886 827.4317778 662.6587487 891.914755 865.929364 840.4701118 997.9897436 1.000744963 0.959066618 0.980496813 0.726610462 0.829098478 0.663993546 0.893711344 0.86767361 0.842163076 1 9.962881179 -6.317047701 7.607029299 0.995530624 0.796245218 0.472875503 0.079449211 0.114265087 14.10810564 0.009334231 0.014307651 4.82E-07 6.317047701 -0.199285406 IALLEEENSRPHTNETS(ph)L ddPTM_HeLa_SAHA_4h_R1 1 IALLEEENSRPHTNETSL 18 1 D6REY2;P23508;P23508-2 D6REY2 MCC Colorectal mutant cancer protein 1 0 IALLEEENSRPHTNET(0.439)S(0.561)L 89.624 0.0019194 6523600 1209.5 1303.2 1268.1 1063.6 1382.1 1334.7 1433.2 1280.6 1670.5 1431.3 TRUE FALSE FALSE 1336.720759 1345.424535 1440.910064 1084.187516 1276.203797 1220.976051 1271.932564 1247.844106 1658.874854 1493.010348 0.895319153 0.901148835 0.96510387 0.726175487 0.854785634 0.817794768 0.851924815 0.835790662 1.11109401 1 10.54400845 -8.14946183 0.285001754 1.033200843 0.809521884 0.605508186 0.06408523 1.114247484 0.241677926 0.096763771 0.048694646 7.09E-09 8.14946183 -0.223678959 IANLQTDLSDGLR ddPTM_HeLa_SAHA_4h_R1 3 IANLQTDLSDGLR 13 0 P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98 P21333-2 FLNA Filamin-A 0 0 ;; ;; 251.81 5.15E-69 20318600 2427.69 2271.4 1718.36 2227.61 2376.64 2613.14 2431.09 2413.7 2466.49 2564.53 FALSE FALSE TRUE 2683.045573 2344.99485 1952.529152 2270.728613 2194.542357 2390.485771 2157.537355 2351.961049 2449.325495 2675.099439 1.002970407 0.876601003 0.729890307 0.848838955 0.820359171 0.893606322 0.806526039 0.879205092 0.915601663 1 11.38537681 -7.174671558 3.962999474 1.001636805 0.830357139 0.599987 0.050350077 0.072513613 2.117722044 0.006743826 0.008271 6.69E-08 7.174671558 -0.171279666 IANPVEGSTDR ddPTM_HeLa_SAHA_4h_R1 2 IANPVEGSTDR 11 0 Q15366-2;Q15366;Q15366-3;Q15366-6;Q15366-5;H3BRU6;F8VZX2;Q15366-8;Q15366-4;Q15366-7;H3BSS4;F8VRH0 Q15366-2 PCBP2 Poly(rC)-binding protein 2 0 0 ; ; 115.23 0.017301 19220300 2870.63 2942.53 2359.79 2891.55 2752.21 3426.3 2948.9 3492.3 2977.04 2627.49 FALSE FALSE TRUE 3172.576034 3037.869903 2681.369892 2947.520132 2541.336264 3134.359964 2617.082011 3402.972023 2956.322536 2740.773953 1.157547499 1.10839856 0.978325808 1.075433503 0.927233077 1.143603967 0.954869703 1.241609882 1.078645152 1 11.42036763 -4.236944414 23.68325085 1.060540732 1.241610329 0.356552567 0.076492828 3382.392158 3270203.467 0.011367291 0.873941657 5.80E-05 4.236944414 0.181069597 IAQLEEELEEEQGNTELINDR ddPTM_HeLa_SAHA_4h_R1 2 IAQLEEELEEEQGNTELINDR 21 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ; ; 224.8 6.48E-34 13025700 3059.9 2945.4 2753.1 3046.5 2780 3261.1 2838.8 2981.3 3402.3 3006.3 FALSE FALSE TRUE 3381.754321 3040.832893 3128.27813 3105.469413 2566.997001 2983.235934 2519.370753 2905.042663 3378.623117 3135.916305 1.078394317 0.969679225 0.997564292 0.99029091 0.818579564 0.951312358 0.803392217 0.926377613 1.077395819 1 11.61467134 -5.911246606 4.933116048 1.027874152 0.875750695 0.65079844 0.052034344 0.095663619 4.020917132 0.007656891 0.014102704 1.23E-06 5.911246606 -0.152123457 IAQLEEQLDNETK ddPTM_HeLa_SAHA_4h_R1 5 IAQLEEQLDNETK 13 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ;;;; ;;;; 350.4 1.75E-153 47100800 6744.96 6116.95 5284.8 7013.13 6407.62 7336 6215.34 6889.75 7979.55 6602.05 FALSE FALSE TRUE 7454.42584 6315.143193 6004.985022 7148.879272 5916.66954 6710.931529 5515.973585 6713.520171 7924.019662 6886.696685 1.08243853 0.917006147 0.871968855 1.038070878 0.859144785 0.974477581 0.800960727 0.974853472 1.150627075 1 12.74959642 -7.247823529 23.63487822 1.038929305 0.917464224 0.461533329 0.074845984 260.27786 451799.3728 0.010672897 0.013025867 5.65E-08 7.247823529 -0.121465081 IAQLEEQLDNETKER ddPTM_HeLa_SAHA_4h_R1 1 IAQLEEQLDNETKER 15 1 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 149.59 0.00010072 2415200 1472.6 1575.1 1595.6 1667.8 1850.6 1725.4 1707.4 2005.6 1427.8 1341.9 FALSE FALSE TRUE 1627.494825 1626.134273 1813.040058 1700.082681 1708.807428 1578.386213 1515.278858 1954.299656 1417.863824 1399.755876 1.162699048 1.161727056 1.295254472 1.214556559 1.220789608 1.127615351 1.082530807 1.396171782 1.012936504 1 10.45095952 -8.684768039 0.554229084 0.989309022 1.212105652 0.49552189 0.082366107 0.618371154 0.360944226 0.066475528 0.021533761 2.07E-09 8.684768039 0.22279663 IAS(ph)DEEIQGTK ddPTM_HeLa_SAHA_4h_R1 4 IASDEEIQGTK 11 0 Q8WX93-3;Q8WX93;Q8WX93-8;Q8WX93-2;Q8WX93-9;Q8WX93-5;Q8WX93-4;A0A3B3ISX8 Q8WX93-3 PALLD Palladin 1 0 IAS(1)DEEIQGTK;IAS(1)DEEIQGTK;IAS(1)DEEIQGTK;IAS(0.999)DEEIQGT(0.001)K ;;; 206.46 1.68E-10 483208000 4556.03 6514.93 4937.59 6450.82 7196.58 7932.2 8712.5 7967.5 6484.77 5586.45 TRUE FALSE FALSE 5035.254139 6726.018007 5610.459051 6575.684949 6645.179595 7256.331935 7732.14657 7763.702887 6439.641958 5827.309199 0.864078766 1.154223635 0.962787259 1.128425612 1.140351296 1.245228576 1.326881122 1.332296369 1.105079847 1 12.50861415 -5.60072274 0.676488996 0.942055557 1.372958786 0.644595002 0.086327797 0.318678709 0.23632281 0.015175266 0.075975213 2.51E-06 5.60072274 0.430903229 IAS(ph)DEEIQGTKDAVIQDLER ddPTM_HeLa_SAHA_4h_R1 6 IASDEEIQGTKDAVIQDLER 20 1 Q8WX93-3;Q8WX93;Q8WX93-8;Q8WX93-2;Q8WX93-9;Q8WX93-5;Q8WX93-4;A0A3B3ISX8 Q8WX93-3 PALLD Palladin 1 0 IAS(1)DEEIQGTKDAVIQDLER;IAS(0.799)DEEIQGT(0.201)KDAVIQDLER;IAS(1)DEEIQGTKDAVIQDLER;IAS(1)DEEIQGTKDAVIQDLER;IAS(1)DEEIQGTKDAVIQDLER;IAS(1)DEEIQGTKDAVIQDLER ;;;;; 130.49 2.08E-05 132449000 6171.71 4555.3 6081 5484.87 6186.61 6430.66 9160.9 8835.5 3142.89 4724.41 TRUE FALSE FALSE 6820.878775 4702.894709 6909.687012 5591.03759 5712.593278 5882.73159 8130.091422 8609.500704 3121.018373 4928.102436 1.384078124 0.95430133 1.402098901 1.134521383 1.159187203 1.193711305 1.649740753 1.747021458 0.633310369 1 12.26681653 -4.7315658 4.28013342 1.179090319 1.722297424 0.522769933 0.218135765 0.095332126 3.850298929 0.022485478 0.08739429 1.86E-05 4.7315658 0.543207105 IAS(ph)LEVENQSLR ddPTM_HeLa_SAHA_4h_R1 2 IASLEVENQSLR 12 0 E9PQ49;E9PK01;P29692;E9PL71;P29692-3;E9PI39;P29692-2;A0A087X1X7;E9PRY8;E9PL12;E9PPR1;E9PMW7;E9PN91;H0YCK7;E9PIZ1 E9PQ49 EEF1D Elongation factor 1-delta 1 0 IAS(1)LEVENQSLR;IAS(1)LEVENQSLR ; 87.863 0.014446 5693900 579.62 617.93 656.93 554.6 931.78 1065.15 898.38 738.21 752.06 513.86 TRUE FALSE FALSE 640.587091 637.9513374 746.4529993 565.335085 860.3872177 974.3932276 797.291918 719.3276571 746.8263532 536.0150194 1.195091682 1.190174369 1.39259717 1.054700082 1.605155055 1.817846874 1.487443242 1.341991607 1.393293707 1 9.066129616 -6.510009591 0.507254797 1.046320083 1.585236467 0.271442281 0.203035854 0.553546913 0.291239549 0.053613697 0.12257878 3.09E-07 6.510009591 0.538916384 IAS(ph)PVSR ddPTM_HeLa_SAHA_4h_R1 2 IASPVSR 7 0 A0A087WU64;A6NMQ1;P09884 A0A087WU64 POLA1 DNA polymerase;DNA polymerase alpha catalytic subunit 1 0 IAS(0.917)PVS(0.083)R;IAS(0.5)PVS(0.5)R ; 104.01 0.011246 112093000 2108.7 1818.23 1488.4 1567.51 2151.2 2236.47 2029.36 2272.9 2052.56 2367.7 TRUE FALSE FALSE 2330.502741 1877.141845 1691.231401 1597.851423 1986.375521 2045.910174 1801.011072 2214.762509 2038.276068 2469.783134 0.943606225 0.760043187 0.684769192 0.646960213 0.804271231 0.828376446 0.729218305 0.896743717 0.825285443 1 11.27016865 -7.315812102 3.660875153 0.975869729 0.758598157 0.397528446 0.082629907 0.101309621 2.706335838 0.012225636 0.014123313 4.83E-08 7.315812102 -0.217271572 IASEASFSSSEGS(ph)PLSR ddPTM_HeLa_SAHA_4h_R1 3 IASEASFSSSEGSPLSR 17 0 A0A087WX12;A0A087X032;A0A087WTH3;A0A087X251;A0A087X0T6;Q2M2Z5-5;Q2M2Z5-2;Q2M2Z5-3;Q2M2Z5-4;Q2M2Z5 A0A087WX12 KIZ Centrosomal protein kizuna 1 0 IASEASFSS(0.001)S(0.034)EGS(0.826)PLS(0.14)R;IASEASFSSSEGS(1)PLSR;IASEASFSSSEGS(0.975)PLS(0.025)R ;; 265.43 4.94E-59 14235000 1692.48 2015.61 1681.13 1948.18 1986.38 2280.05 2358.96 2440.36 2726.6 2267.41 TRUE FALSE FALSE 1870.502812 2080.917086 1910.225641 1985.889841 1834.183994 2085.776913 2093.523612 2377.939125 2707.625369 2365.169142 0.790853719 0.879817452 0.80764864 0.839639671 0.775498023 0.881872199 0.885147525 1.005399184 1.144791432 1 11.20772764 -9.459384712 1.174710155 1.000624096 0.849218696 0.492717097 0.078528166 0.363949813 0.89246071 0.044895487 0.010919419 3.47E-10 9.459384712 -0.151405399 IASLEVENQSLR ddPTM_HeLa_SAHA_4h_R1 1 IASLEVENQSLR 12 0 E9PQ49;E9PK01;P29692;E9PL71;P29692-3;E9PI39;P29692-2;A0A087X1X7;E9PRY8;E9PL12;E9PPR1;E9PMW7;E9PN91;H0YCK7;E9PIZ1 E9PQ49 EEF1D Elongation factor 1-delta 0 0 126.03 0.0016391 5563100 612.28 476.25 510.26 506.96 390.96 482.72 629.7 672.19 559.21 337.67 FALSE FALSE TRUE 676.6824196 491.6808125 579.7955755 516.7729439 361.0047293 441.5895403 558.8444987 654.9963531 555.3184121 352.2286062 1.921145551 1.395913914 1.646077477 1.467152113 1.024915986 1.253701524 1.586596003 1.859577393 1.576585213 1 8.460368272 -4.412226645 3.51738634 1.419150944 1.856521766 0.214825385 0.263224524 0.42997854 8.734964994 0.05044767 0.380564064 3.87E-05 4.412226645 0.437370822 IATGHGQQGVTQVVLK(ac)GAPGQPGTILR ddPTM_HeLa_SAHA_4h_R1 1 IATGHGQQGVTQVVLKGAPGQPGTILR 27 1 P51610-2;P51610;A6NEM2;P51610-4 P51610-2 HCFC1 Host cell factor 1;HCF N-terminal chain 1;HCF N-terminal chain 2;HCF N-terminal chain 3;HCF N-terminal chain 4;HCF N-terminal chain 5;HCF N-terminal chain 6;HCF C-terminal chain 1;HCF C-terminal chain 2;HCF C-terminal chain 3;HCF C-terminal chain 4;HCF C-terminal chain 5;HCF C-terminal chain 6 0 1 IATGHGQQGVTQVVLK(1)GAPGQPGTILR 94.49 2.65E-05 1388500 0 0 151.25 182.75 269.06 171.48 138.3 138.22 0 0 FALSE TRUE FALSE 0 0 171.8615623 186.2873905 248.4446809 156.8689393 122.73812 134.6845325 0 0 0 IATTTASAATAAAIGAT(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 IATTTASAATAAAIGATPR 19 0 A0A087WY61;Q14980-5;Q14980-2;Q14980;H0YFY6 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 1 0 IATTTAS(0.002)AATAAAIGAT(0.998)PR 81.606 0.0062028 0 404.14 525.3 435.78 696.67 565.91 506.92 737.86 557.79 572.4 443.97 TRUE FALSE FALSE 446.6492995 542.3200647 495.165829 710.1550553 522.5500981 463.7275641 654.8340509 543.5225395 568.4166218 463.1117194 0.964452595 1.17103507 1.069214637 1.533442203 1.128345659 1.001329797 1.413987216 1.173631581 1.227385527 1 8.855216456 -6.990712371 1.84643485 0.982808655 1.233897653 0.094911151 0.166526326 0.258311953 1.744341842 0.024953291 0.032849438 1.02E-07 6.990712371 0.251088999 IAVAAQNCYK ddPTM_HeLa_SAHA_4h_R1 3 IAVAAQNCYK 10 0 P60174;P60174-3 P60174 TPI1 Triosephosphate isomerase 0 0 ;; ;; 220.25 7.21E-15 10413310 3798.75 3511.18 4288.2 3598.33 3771.05 3674.54 4525.7 3859.28 3064.51 2890.93 FALSE FALSE TRUE 4198.319954 3624.944536 4872.573564 3667.98088 3482.112964 3361.44852 4016.456325 3760.565206 3043.183825 3015.57214 1.392213404 1.202075217 1.615804012 1.216346587 1.15471055 1.114696768 1.331905237 1.247048663 1.009156367 1 11.55821603 -9.426154236 1.13219084 0.9985771 1.291719895 0.404013075 0.135355728 0.420084749 0.955609046 0.097443485 0.024019184 3.75E-10 9.426154236 0.293142795 ICDDELILIK ddPTM_HeLa_SAHA_4h_R1 2 ICDDELILIK 10 0 P17987;E7EQR6;F5H282;E7ERF2;F5GZ03 P17987 TCP1 T-complex protein 1 subunit alpha 0 0 ; ; 131.44 0.001393 1177500 517.01 532.68 919.95 704.83 786.19 606.3 956.08 678.93 857.13 703.72 FALSE FALSE TRUE 571.3914839 549.9391815 1045.315995 718.4730039 725.952292 554.639829 848.4993621 661.5639537 851.1651625 734.0608131 0.778398021 0.749173872 1.424018251 0.978764962 0.988953884 0.755577493 1.155897913 0.901238619 1.159529493 1 9.519755778 ICNGGLS(ph)PGNPGDSK ddPTM_HeLa_SAHA_4h_R1 1 ICNGGLSPGNPGDSK 15 0 Q9H792;H0YN99;H3BUZ5 Q9H792 PEAK1 Pseudopodium-enriched atypical kinase 1 1 0 ICNGGLS(0.998)PGNPGDS(0.002)K 145.04 9.97E-05 5388200 1667.6 2327 1445.5 1885 2321.4 2374.4 2018.2 1753.8 2523.4 1836.7 TRUE FALSE FALSE 1843.005819 2402.396327 1642.485212 1921.486901 2143.534834 2172.087762 1791.106824 1708.940335 2505.839454 1915.889126 0.961958495 1.253932858 0.857296589 1.002921764 1.118819876 1.133723102 0.934869769 0.891982899 1.307925088 1 10.90379836 ICNGGLSPGNPGDS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 ICNGGLSPGNPGDSK 15 0 Q9H792;H0YN99;H3BUZ5 Q9H792 PEAK1 Pseudopodium-enriched atypical kinase 1 1 0 ICNGGLS(0.012)PGNPGDS(0.988)K 152.94 4.19E-05 6976500 2034.7 1965.8 1819.3 1734.7 2227.5 2456.6 2162.7 1920.7 2400.3 2009.7 TRUE FALSE FALSE 2248.719082 2029.49321 2067.224729 1768.277627 2056.829431 2247.28386 1919.347304 1871.571275 2383.596117 2096.348002 1.072684058 0.968108924 0.986107615 0.843503858 0.98114885 1.071999428 0.915567121 0.892776997 1.137023106 1 11.03366251 -7.097984973 4.757957299 1.034232565 0.951169214 0.359157094 0.068024115 0.228495669 8.493331449 0.010614997 0.013133655 7.98E-08 7.097984973 -0.083063351 ICRDPQT(ph)PVLQTK ddPTM_HeLa_SAHA_4h_R1 1 ICRDPQTPVLQTK 13 1 Q9ULW0;Q9ULW0-2 Q9ULW0 TPX2 Targeting protein for Xklp2 1 0 ICRDPQT(0.997)PVLQT(0.003)K 92.439 0.009926 24135000 4708.1 3831.7 3933.9 4260 5350.8 5423.3 4763.3 5328.1 4706.1 4538.4 TRUE FALSE FALSE 5203.31956 3955.849594 4469.991405 4342.45846 4940.82286 4961.204329 4227.320948 5191.814917 4673.349867 4734.072634 1.099121193 0.835612357 0.944216904 0.917277532 1.043672804 1.047978076 0.892956504 1.096691014 0.98717325 1 12.20886613 ICT(ph)LPEK ddPTM_HeLa_SAHA_4h_R1 1 ICTLPEK 7 0 Q658Y4;E7ER68;G3V120 Q658Y4 FAM91A1 Protein FAM91A1 1 0 ICT(1)LPEK 125.86 0.0041865 33882000 1888 1750.6 1308.5 1670 1696.6 1355.5 1956.1 1700.8 1505.3 1480.6 TRUE FALSE FALSE 2086.588502 1807.320589 1486.815566 1702.325265 1566.606875 1240.003774 1735.99448 1657.295999 1494.824495 1544.435912 1.351035991 1.17021404 0.962691656 1.102231081 1.014355379 0.802884577 1.124031413 1.07307528 0.967877322 1 10.59286429 -6.773218829 24.49172343 1.170732272 1.012786849 0.099507739 0.131677873 213.0306188 442930.6549 0.024779341 0.032720785 1.69E-07 6.773218829 -0.157945423 IDAAEGPSDIPD ddPTM_HeLa_SAHA_4h_R1 1 IDAAEGPSDIPD 12 0 P42771-2;P42771 P42771-2 CDKN2A Cyclin-dependent kinase inhibitor 2A 0 0 107.15 0.022189 2279800 2081.6 2402.9 2261.9 2251.6 2400.2 2757.2 2674.7 2539.6 2702.3 2431.1 FALSE FALSE TRUE 2300.552239 2480.755537 2570.139953 2295.182974 2216.297195 2522.271048 2373.735717 2474.640709 2683.494474 2535.916619 0.90718765 0.97824807 1.013495449 0.905070363 0.87396296 0.994619078 0.936046438 0.975836781 1.058195074 1 11.30829159 -6.216455827 24.9948493 0.960974085 0.936735316 0.092891624 0.051718256 1170.334031 650289.6038 0.007432727 0.012325687 6.07E-07 6.216455827 -0.024238769 IDAGTMAEPSAS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 5 IDAGTMAEPSASPSK 15 0 Q8IXQ3 Q8IXQ3 C9orf40 Uncharacterized protein C9orf40 1 0 IDAGTMAEPS(0.003)AS(0.989)PS(0.007)K;IDAGTMAEPS(0.02)AS(0.966)PS(0.013)K;IDAGTMAEPS(0.002)AS(0.994)PS(0.004)K;IDAGTMAEPSAS(0.996)PS(0.004)K;IDAGTMAEPS(0.001)AS(0.812)PS(0.188)K ;;;; 246.66 9.68E-34 54179900 9872.2 10334.4 9005.6 8917.7 10882.5 11912.7 9765.6 9548.9 13227.6 12102.9 TRUE FALSE FALSE 10910.60329 10669.24134 10232.83627 9090.314979 10048.6852 10897.67094 8666.748986 9304.652965 13135.54805 12624.71525 0.864225693 0.845107484 0.810539966 0.720041189 0.795953414 0.863201326 0.686490651 0.737018838 1.040462917 1 13.62396323 -8.36723414 0.204448088 1.111147656 0.689705642 0.814400484 0.046831613 1.435169969 0.162753691 0.202687231 0.094766409 4.29E-09 8.36723414 -0.421442014 IDASKNEEDEGHSNS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 7 IDASKNEEDEGHSNSSPR 18 1 Q14103-3;Q14103;D6RAF8;D6RD83 Q14103-3 HNRNPD Heterogeneous nuclear ribonucleoprotein D0 1 0 IDASKNEEDEGHS(0.065)NS(0.473)S(0.462)PR;IDASKNEEDEGHS(0.294)NS(0.557)S(0.149)PR;IDASKNEEDEGHS(0.046)NS(0.477)S(0.477)PR;IDASKNEEDEGHS(0.078)NS(0.88)S(0.042)PR;IDASKNEEDEGHS(0.033)NS(0.484)S(0.484)PR;IDASKNEEDEGHS(0.012)NS(0.812)S(0.176)PR;IDASKNEEDEGHS(0.172)NS(0.414)S(0.414)PR ;;;;;; 140.27 6.29E-05 1645711100 17861.6 20338.99 15023.16 19911.5 22540.5 25322.5 22161.5 23526.8 21857.5 19150.4 TRUE FALSE FALSE 19740.36504 20997.98662 17070.43801 20296.91588 20813.45176 23164.88054 19667.82969 22925.01852 21705.39188 19976.06746 0.98820076 1.051157174 0.854544471 1.01606164 1.041919377 1.159631673 0.984569647 1.147624204 1.086569812 1 14.28598498 -5.661759923 3.242467718 0.988422242 1.087348432 0.257702292 0.072098282 0.204695066 4.267681229 0.008773985 0.018494776 2.18E-06 5.661759923 0.098926189 IDASKNEEDEGHSNSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 IDASKNEEDEGHSNSSPR 18 1 Q14103-3;Q14103;D6RAF8;D6RD83 Q14103-3 HNRNPD Heterogeneous nuclear ribonucleoprotein D0 1 0 IDASKNEEDEGHS(0.011)NS(0.252)S(0.737)PR;IDASKNEEDEGHS(0.002)NS(0.25)S(0.748)PR ; 110.34 0.00070564 1597890000 3584.7 3783.2 2601.1 4212.5 4278.2 5097.6 4088.3 4595.4 4144 3694.5 TRUE FALSE FALSE 3961.755193 3905.778162 2955.564362 4294.039029 3950.40524 4663.255802 3628.273724 4477.856322 4115.161567 3853.787975 1.028015869 1.013490671 0.766924486 1.114238525 1.025070727 1.210044723 0.941482445 1.161936347 1.067822515 1 11.91206149 IDDDDDERENFEITDWDLQNEFNPNR ddPTM_HeLa_SAHA_4h_R1 2 IDDDDDERENFEITDWDLQNEFNPNR 26 1 Q9UBB9;F6XM96;F6SQZ1;F6UKU9;F6UQ07 Q9UBB9 TFIP11 Tuftelin-interacting protein 11 0 0 ; ; 88.836 4.45E-05 6545800 216.26 226.15 274.15 478.48 737.41 714.13 472.21 544.494 817.76 520.68 FALSE FALSE TRUE 239.007219 233.4774084 311.5097343 487.7416723 680.9098051 653.2821064 419.075688 530.5666319 812.0691416 543.1290629 0.44005603 0.429874636 0.573546429 0.898021678 1.253679561 1.202811912 0.771595034 0.976870265 1.495167902 1 9.085151254 -6.027706611 6.440615569 0.69140989 1.046667509 0.094269793 0.321664959 0.184777158 27.14981389 0.040380408 0.069024956 9.38E-07 6.027706611 0.35525762 IDDIFER ddPTM_HeLa_SAHA_4h_R1 2 IDDIFER 7 0 A0A087WUZ3;Q01082;Q01082-2;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 0 0 ; ; 129.68 0.0087005 13350000 4072.1 3777.4 3721.6 4054.5 3886.8 4501.7 4256.7 4161.8 4382.7 3744.3 FALSE FALSE TRUE 4500.422161 3899.790238 4228.760267 4132.98071 3588.994224 4118.129834 3777.724913 4055.347182 4352.200434 3905.735097 1.152259959 0.998477916 1.082705345 1.058182546 0.918903647 1.054380221 0.967225073 1.038305743 1.114310194 1 11.93137839 -5.9677201 24.97738267 1.067904251 0.995945923 0.293964973 0.055577688 231.5196259 179143.1655 0.009727224 0.017632041 1.08E-06 5.9677201 -0.071958329 IDDPTDSKPEDWDKPEHIPDPDAK ddPTM_HeLa_SAHA_4h_R1 1 IDDPTDSKPEDWDKPEHIPDPDAK 24 2 P27797;K7EJB9;K7EL50 P27797 CALR Calreticulin 0 0 35.676 0.021051 23756000 1482.9 1838.9 1352.1 1759.3 1945.7 2052.1 1880 1705.8 2145.6 1745 FALSE FALSE TRUE 1638.878226 1898.481567 1536.357147 1793.353795 1796.620886 1877.249535 1668.457452 1662.168106 2130.668595 1820.23549 0.900366043 1.042986788 0.844043068 0.985231749 0.987026622 1.031322346 0.916616263 0.913161025 1.170545573 1 10.82990939 IDDRDS(ph)DEEGASDR ddPTM_HeLa_SAHA_4h_R1 5 IDDRDSDEEGASDR 14 1 Q8TDD1-2;Q8TDD1 Q8TDD1-2 DDX54 ATP-dependent RNA helicase DDX54 1 0 IDDRDS(1)DEEGASDR;IDDRDS(1)DEEGASDR;IDDRDS(0.998)DEEGAS(0.002)DR;IDDRDS(0.995)DEEGAS(0.005)DR;IDDRDS(0.993)DEEGAS(0.007)DR ;;;; 224.36 5.17E-18 157949000 12255.57 12877.89 10932.24 12112.7 14184.4 14907.7 14659.1 12708.98 13564.03 13376.8 TRUE FALSE FALSE 13544.66708 13295.14209 12422.02873 12347.15882 13097.59434 13637.48009 13009.61949 12383.90269 13469.63681 13953.53931 0.970697597 0.952815038 0.890242143 0.884876485 0.938657501 0.977349172 0.932352659 0.887509786 0.965320447 1 13.76834349 -7.274455719 1.823685176 0.988494705 0.921623486 0.462036687 0.028475441 0.208430991 1.312338915 0.005620521 0.006633315 5.32E-08 7.274455719 -0.066871218 IDEDGENTQIEDTEPMS(ph)PVLNSK ddPTM_HeLa_SAHA_4h_R1 7 IDEDGENTQIEDTEPMSPVLNSK 23 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 IDEDGENTQIEDTEPMS(0.819)PVLNS(0.181)K;IDEDGENTQIEDTEPMS(1)PVLNSK;IDEDGENTQIEDTEPMS(0.994)PVLNS(0.006)K;IDEDGENTQIEDTEPMS(0.999)PVLNS(0.001)K;IDEDGENTQIEDTEPMS(1)PVLNSK;IDEDGENTQIEDT(0.001)EPMS(0.999)PVLNSK;IDEDGENTQIEDTEPMS(1)PVLNSK ;;;;;; 211.18 9.04E-24 193679700 14245.2 17913.2 14186 16092.4 18247.3 21309.4 18863.7 16599.1 22087.6 16696.7 TRUE FALSE FALSE 15743.5755 18493.59943 16119.1942 16403.89167 16849.19582 19493.71924 16741.10683 16174.51906 21933.89059 17416.57645 0.903942031 1.061838961 0.925508767 0.941855118 0.967422953 1.119262405 0.961216854 0.928685331 1.259368663 1 14.08817344 -5.496089841 24.98790423 0.959103808 1.00628299 0 0.112991885 1354.220948 1263176.764 0.009167011 0.020438585 3.19E-06 5.496089841 0.047179182 IDENS(ph)DKEMEVEESPEK ddPTM_HeLa_SAHA_4h_R1 2 IDENSDKEMEVEESPEK 17 1 Q8N3X1-2;Q8N3X1 Q8N3X1-2 FNBP4 Formin-binding protein 4 1 0 IDENS(1)DKEMEVEESPEK;IDENS(1)DKEMEVEESPEK ; 94.569 0.002356 13903100 2200 3345.4 2761.83 3092 2952.7 4326 2977.4 2567.8 4631.6 2946.9 TRUE FALSE FALSE 2431.406094 3453.793155 3138.197809 3151.850131 2726.464764 3957.400463 2642.375116 2502.119394 4599.368318 3073.955281 0.790969898 1.123566493 1.02089898 1.025340268 0.886956548 1.287396888 0.859601027 0.813973908 1.496237875 1 11.58588046 -7.26416152 24.9836827 0.901291344 1.005130615 0 0.232791504 431.5569607 3960801.167 0.024565277 0.028782661 5.44E-08 7.26416152 0.103839271 IDEPLEGSEDR ddPTM_HeLa_SAHA_4h_R1 4 IDEPLEGSEDR 11 0 P61978;P61978-2;P61978-3;S4R359 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 ;;; ;;; 188.91 5.69E-06 118652000 4436.49 6013.4 4001.02 4955.3 5609.07 6061.6 5169.25 4828.83 7095.9 5047 FALSE FALSE TRUE 4903.140374 6208.238106 4546.258169 5051.216997 5179.304268 5545.117578 4587.592385 4705.315521 7046.519054 5264.600869 0.93134133 1.179241933 0.863552296 0.959468177 0.983798088 1.053283566 0.871403645 0.89376491 1.338471658 1 12.36210844 -4.735033003 24.99659547 0.979789945 0.882584156 0.055715983 0.138123478 266.7558645 252510.2583 0.010372844 0.038788325 1.84E-05 4.735033003 -0.097205789 IDFDSVSSIMAS(ph)SQ ddPTM_HeLa_SAHA_4h_R1 1 IDFDSVSSIMASSQ 14 0 A0A087WVB9;K7ERF1;Q9UBQ5;K7EK53 A0A087WVB9 EIF3K Eukaryotic translation initiation factor 3 subunit K 1 0 IDFDSVSSIMAS(0.914)S(0.086)Q 148.68 8.86E-05 7556900 1476.4 1936.3 1699.1 1760.6 1815.6 2394.3 2291.9 2081.5 2180.2 2032.8 TRUE FALSE FALSE 1631.694526 1999.03739 1930.644499 1794.678959 1676.48912 2190.29217 2034.00938 2028.258244 2165.027811 2120.443956 0.769506084 0.942744742 0.910490699 0.846369438 0.790631186 1.032940372 0.95923751 0.956525278 1.021025717 1 11.05015064 -5.244960711 24.86833085 0.885027355 0.980534694 0.184907744 0.079511361 1049.176765 1583333.551 0.01304922 0.033170068 5.69E-06 5.244960711 0.095507339 IDFDSVSSIMASS(ph)Q ddPTM_HeLa_SAHA_4h_R1 1 IDFDSVSSIMASSQ 14 0 A0A087WVB9;K7ERF1;Q9UBQ5;K7EK53 A0A087WVB9 EIF3K Eukaryotic translation initiation factor 3 subunit K 1 0 IDFDSVSSIMAS(0.16)S(0.84)Q 198.74 6.48E-12 6404900 1459.3 2154.2 1545.5 1810.3 1701.9 2264.6 2129.3 1897.8 1942.6 1755 TRUE FALSE FALSE 1612.79587 2223.997493 1756.112691 1845.340974 1571.50079 2071.64334 1889.70556 1849.257024 1929.081288 1830.666639 0.880988289 1.214856625 0.959274973 1.008015843 0.858430889 1.131633306 1.032249957 1.010154981 1.053758914 1 10.83815339 IDFSSIAVPGT(ph)SSPR ddPTM_HeLa_SAHA_4h_R1 1 IDFSSIAVPGTSSPR 15 0 Q5TDH0-2;Q5TDH0;Q5TDH0-3 Q5TDH0-2 DDI2 Protein DDI1 homolog 2 1 0 IDFSSIAVPGT(0.333)S(0.333)S(0.333)PR 194.67 4.00E-09 8026300 2179.3 2182.8 1834.9 2140.7 2364.2 2063 2303.5 2333 2121.3 2114.4 TRUE FALSE FALSE 2408.528773 2253.524152 2084.950616 2182.136344 2183.055507 1887.220794 2044.304118 2273.325238 2106.537701 2205.562132 1.092024903 1.021745939 0.945314841 0.989378768 0.989795515 0.855664307 0.926885753 1.030723735 0.955102407 1 11.10693069 -6.852372333 4.462571758 1.044018649 0.953375032 0.169919594 0.055828291 0.171768093 6.173536543 0.008935385 0.011928512 1.40E-07 6.852372333 -0.090643617 IDFSSIAVPGTS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 IDFSSIAVPGTSSPR 15 0 Q5TDH0-2;Q5TDH0;Q5TDH0-3 Q5TDH0-2 DDI2 Protein DDI1 homolog 2 1 0 IDFSSIAVPGT(0.228)S(0.386)S(0.386)PR 186.29 8.34E-09 35046000 1464.7 1297.5 1608.8 1785.6 1479.2 1616.2 1483.9 1696.1 1600.8 1656.5 TRUE FALSE FALSE 1618.763866 1339.539851 1828.038886 1820.16287 1365.864016 1478.490668 1316.927667 1652.716218 1589.659902 1727.919822 0.936828113 0.775232644 1.057941962 1.053383871 0.790467242 0.855647727 0.762146281 0.956477377 0.91998476 1 10.75482056 -2.248237743 0.086213199 1.090424548 0.50639688 0.060856883 0.102000988 153.5445066 1.252846611 1.529561687 10.89801417 0.005646278 2.248237743 -0.584027668 IDFSSIAVPGTSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 IDFSSIAVPGTSSPR 15 0 Q5TDH0-2;Q5TDH0;Q5TDH0-3 Q5TDH0-2 DDI2 Protein DDI1 homolog 2 1 0 IDFSSIAVPGT(0.001)S(0.228)S(0.772)PR;IDFSSIAVPGT(0.128)S(0.128)S(0.744)PR ; 182.7 9.77E-08 45443400 3506.6 3776.4 2975.2 3122 3522.7 3723.8 3471.3 3386.2 3746.1 3256 TRUE FALSE FALSE 3875.440277 3898.757838 3380.644762 3182.430824 3252.791487 3406.51129 3080.700188 3299.585907 3720.030585 3396.382094 1.141049555 1.147914966 0.995366442 0.937006125 0.957722481 1.002982349 0.907053477 0.971500207 1.095292132 1 11.72978306 -6.560519721 8.074558009 1.074556549 0.956383266 0.670017546 0.045833617 0.160819245 30.11524574 0.009831286 0.013953299 2.75E-07 6.560519721 -0.118173284 IDFYFDENPYFENK ddPTM_HeLa_SAHA_4h_R1 2 IDFYFDENPYFENK 14 0 Q01105;A0A0C4DFV9;Q01105-3;Q01105-4;A0A087X027;P0DME0;Q01105-2 Q01105;Q01105-2 SET;SETSIP Protein SET;Protein SETSIP 0 0 ; ; 260.57 4.82E-43 220308000 4313.4 4042.6 3673.4 4711.8 4590.4 4389.1 4212.1 3989.3 4768.2 4399.7 FALSE FALSE TRUE 4767.103203 4173.582892 4173.991822 4803.003702 4238.684544 4015.123988 3738.143422 3887.259482 4735.017708 4589.392599 1.038722031 0.909397661 0.909486764 1.046544526 0.923582904 0.874870454 0.814518118 0.847009577 1.031730802 1 12.16408751 -5.052407198 0.508066188 1.014937617 0.759766756 0.621281977 0.049186828 1.028017528 0.28967886 0.011641746 0.135020995 8.86E-06 5.052407198 -0.255170861 IDGATQS(ph)SPAEPKSEDADR ddPTM_HeLa_SAHA_4h_R1 2 IDGATQSSPAEPKSEDADR 19 1 Q32MZ4-3;Q32MZ4-2;Q32MZ4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 IDGAT(0.002)QS(0.488)S(0.488)PAEPKS(0.022)EDADR;IDGATQS(0.499)S(0.499)PAEPKS(0.001)EDADR ; 198.67 4.34E-19 28250300 1962.91 1306.98 2094.35 1196.65 1868.75 1380.52 1851.53 2164.9 976.24 1189.94 TRUE FALSE FALSE 2169.37788 1349.32701 2379.757111 1219.812891 1725.566779 1262.891929 1643.190971 2109.524993 969.4462664 1241.244137 1.747744715 1.08707624 1.917235329 0.982734061 1.390191283 1.017440399 1.323825767 1.699524638 0.781027872 1 10.27757119 -9.664597565 1.525762227 1.000799485 1.432566226 0.272238406 0.311659159 0.495086017 2.080315096 0.213389326 0.048268388 2.16E-10 9.664597565 0.431766741 IDGATQSS(ph)PAEPK ddPTM_HeLa_SAHA_4h_R1 6 IDGATQSSPAEPK 13 0 Q32MZ4-3;Q32MZ4-2;Q32MZ4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 IDGATQS(0.227)S(0.772)PAEPK;IDGAT(0.004)QS(0.228)S(0.768)PAEPK;IDGATQS(0.062)S(0.938)PAEPK;IDGATQS(0.079)S(0.921)PAEPK;IDGAT(0.002)QS(0.187)S(0.812)PAEPK;IDGATQS(0.185)S(0.815)PAEPK ;;;;; 233.62 2.31E-23 810937000 29475.8 29028.9 26829.8 28769.7 31615.5 32834.9 32867 30063.7 33287 28109.2 TRUE FALSE FALSE 32576.19988 29969.45541 30486.02542 29326.57915 29193.12722 30037.1818 29168.71866 29294.71409 33055.35306 29321.12518 1.111014659 1.022111369 1.039729043 1.000186008 0.995634617 1.024421185 0.99480216 0.999099247 1.127356227 1 14.83965285 -6.491022077 2.044677837 1.051854931 1.003094598 0.375070505 0.036546374 0.382596775 3.184101792 0.006917281 0.010984656 3.23E-07 6.491022077 -0.048760333 IDGATQSS(ph)PAEPKSEDADR ddPTM_HeLa_SAHA_4h_R1 1 IDGATQSSPAEPKSEDADR 19 1 Q32MZ4-3;Q32MZ4-2;Q32MZ4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 IDGAT(0.03)QS(0.151)S(0.573)PAEPKS(0.245)EDADR 110.04 0.00049983 5169500 1075.4 545.33 964.16 766.03 892.1 896.74 1163.7 1006.2 582.49 940.79 TRUE FALSE FALSE 1188.515506 562.9990498 1095.550704 780.8576183 823.7474907 820.3327071 1032.757413 980.462861 578.4364047 981.352061 1.211100025 0.573697322 1.116368679 0.795695703 0.839400582 0.835920909 1.052382172 0.999093903 0.589428022 1 9.938626987 IDGATQSSPAEPKS(ph)EDADR ddPTM_HeLa_SAHA_4h_R1 1 IDGATQSSPAEPKSEDADR 19 1 Q32MZ4-3;Q32MZ4-2;Q32MZ4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 IDGAT(0.001)QS(0.006)S(0.127)PAEPKS(0.866)EDADR 151.73 2.80E-05 22079000 1987.7 1202.1 2065.8 2003.7 1849.2 1891.2 2529.7 2271.1 844.79 1692.6 TRUE FALSE FALSE 2196.775406 1241.048829 2347.316466 2042.484511 1707.514696 1730.05912 2245.051498 2213.008551 838.9110376 1765.576269 1.244225721 0.702914312 1.329490267 1.156837315 0.967114661 0.979883537 1.271568687 1.253419968 0.475148569 1 10.78592343 -9.742218892 1.672406728 0.999837141 1.12889134 0.116992926 0.24531138 0.918943781 4.638868291 0.128439894 0.027655597 1.81E-10 9.742218892 0.1290542 IDGPPT(ph)PASLR ddPTM_HeLa_SAHA_4h_R1 2 IDGPPTPASLR 11 0 O94913;E9PQ01 O94913;E9PQ01 PCF11 Pre-mRNA cleavage complex 2 protein Pcf11 1 0 IDGPPT(0.773)PAS(0.227)LR;IDGPPT(0.5)PAS(0.5)LR ; 133.88 0.0020411 6167100 2196.9 3204.3 2601.7 2325.5 3202.7 2786.6 2692.6 1776.45 2335.1 2895.6 TRUE FALSE FALSE 2427.980022 3308.121422 2956.246127 2370.513415 2957.309818 2549.166003 2389.621561 1731.010981 2318.849849 3020.443487 0.803848849 1.095243608 0.978745717 0.784822966 0.979097881 0.843970766 0.791149238 0.573098285 0.767718336 1 11.56054468 -3.832468315 0.999024278 0.921488434 0.059196846 0.514151344 0.10048421 2.378396015 1.025386967 0.015358954 2.6966485 0.000147073 3.832468315 -0.862291588 IDGVLIR ddPTM_HeLa_SAHA_4h_R1 1 IDGVLIR 7 0 O75663 O75663 TIPRL TIP41-like protein 0 0 101.33 0.022296 4947000 1998.7 5250.2 2895.4 2601.2 4763.4 3685.1 4718.5 3042.4 2874 1824.2 FALSE FALSE TRUE 2208.932436 5420.309925 3289.970033 2651.549987 4398.429321 3371.108748 4187.561962 2964.579813 2853.9996 1902.850189 1.160854621 2.848521631 1.728969549 1.393462293 2.311495327 1.77161017 2.200678742 1.557968058 1.49985512 1 10.89394627 -7.482206407 23.31626004 1.070964581 1.959061452 0.395008099 0.41612133 110.7584004 63495.26669 0.063162235 0.071311836 3.29E-08 7.482206407 0.888096871 IDIDPEETVK ddPTM_HeLa_SAHA_4h_R1 2 IDIDPEETVK 10 0 P54727;Q5W0S5 P54727 RAD23B UV excision repair protein RAD23 homolog B 0 0 ; ; 150.08 0.0038217 8808900 4721.4 3647.5 3413 4848.4 5147 5308.9 3931.4 4141.4 5459.1 3919 FALSE FALSE TRUE 5218.018515 3765.681393 3878.105866 4942.247793 4752.637972 4856.551853 3489.028525 4035.468985 5421.109679 4087.967269 1.276433536 0.921162315 0.948663629 1.208974404 1.162591983 1.188011433 0.853487392 0.987157851 1.326113768 1 11.99716793 -4.760550703 24.99992727 1.116167989 0.920322599 0.281802093 0.131987065 23.87524186 671532.7285 0.018997497 0.06371533 1.74E-05 4.760550703 -0.19584539 IDILDSALLRPGR ddPTM_HeLa_SAHA_4h_R1 2 IDILDSALLRPGR 13 1 P62195-2;P62195 P62195-2 PSMC5 26S protease regulatory subunit 8 0 0 ; ; 109.39 0.0032092 1022060 362.33 280.95 505.22 577.89 610.78 590.88 720.67 253.51 402.3 482.33 FALSE FALSE TRUE 400.4415318 290.0529643 574.0687505 589.0758966 563.9821684 540.5336998 639.5783149 247.0255813 399.5003615 503.1256068 0.795907675 0.576502091 1.141004836 1.170832668 1.120956995 1.0743514 1.271210024 0.49098193 0.794037028 1 8.974774808 IDINMS(ph)GFNETDDLKR ddPTM_HeLa_SAHA_4h_R1 2 IDINMSGFNETDDLKR 16 1 P13797-3;P13797;A0A0A0MSQ0;P13797-2;H7C4N2 P13797-3 PLS3 Plastin-3 1 0 IDINMS(1)GFNETDDLKR;IDINMS(1)GFNETDDLKR ; 136.02 6.34E-05 10555900 1806.84 2369.1 2221.43 1599.28 2443.1 2565.5 2765.5 1656.61 2202.3 2184.28 TRUE FALSE FALSE 1996.891721 2445.860394 2524.154912 1630.236377 2255.910206 2346.904967 2454.318662 1614.236315 2186.974015 2278.455 0.876423594 1.073473206 1.107836192 0.715500801 0.990105227 1.030042273 1.077185488 0.708478471 0.959849554 1 11.15384016 IDIS(ph)PSTFR ddPTM_HeLa_SAHA_4h_R1 4 IDISPSTFR 9 0 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 IDIS(0.998)PS(0.002)TFR;IDIS(0.959)PS(0.041)TFR;IDIS(0.951)PS(0.047)T(0.002)FR;IDIS(0.93)PS(0.069)TFR ;;; 163.84 6.62E-05 2083981400 6805.65 7691.8 7093.68 8106 7673.8 9651.1 7756.04 8187.17 9535.3 7521.2 TRUE FALSE FALSE 7521.499492 7941.019367 8060.369768 8262.903351 7085.835102 8828.771984 6883.309966 7977.754046 9468.943071 7845.47574 0.958705341 1.012178181 1.027390822 1.053206157 0.903174688 1.125332902 0.87736043 1.016860457 1.206930387 1 12.93764522 -2.930681258 12.27929033 0.98909141 1.140819376 0 0.096852999 0 0 0.007905701 0 0.001173056 2.930681258 0.151727967 IDIS(ph)PSTLR ddPTM_HeLa_SAHA_4h_R1 5 IDISPSTLR 9 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 IDIS(0.972)PS(0.028)TLR;IDIS(0.986)PS(0.014)TLR;IDIS(0.935)PS(0.064)TLR;IDIS(0.735)PS(0.257)T(0.008)LR;IDIS(0.592)PS(0.4)T(0.008)LR ;;;; 108.43 0.0067601 2494654000 7884.9 8728.12 7803.72 8682.81 9376.9 10063.32 9484.83 8759.52 10317.48 8303.3 TRUE FALSE FALSE 8714.269959 9010.916815 8867.170322 8850.878343 8658.443948 9205.868521 8417.571966 8535.464162 10245.67982 8661.295898 1.006116182 1.04036589 1.023769471 1.021888462 0.999670725 1.062874266 0.97186057 0.98547195 1.18292689 1 13.08036718 IDISPS(ph)TFR ddPTM_HeLa_SAHA_4h_R1 1 IDISPSTFR 9 0 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 IDIS(0.487)PS(0.513)TFR 144.77 0.00066673 337440000 1825.3 2187 1484.5 1859.7 2002.8 2296.9 1732.5 2122.7 2340.3 1710.1 TRUE FALSE FALSE 2017.293429 2257.860235 1686.799929 1895.697183 1849.345897 2101.191198 1537.55454 2068.404408 2324.013662 1783.83078 1.130877128 1.265736784 0.94560535 1.062711331 1.036727204 1.177909486 0.861939685 1.159529497 1.302821819 1 10.80076305 IDLPEVQIEHDPELEKES(ph)PGLK ddPTM_HeLa_SAHA_4h_R1 2 IDLPEVQIEHDPELEKESPGLK 22 1 Q14966-3;Q14966;Q14966-5 Q14966-3 ZNF638 Zinc finger protein 638 1 0 IDLPEVQIEHDPELEKES(1)PGLK;IDLPEVQIEHDPELEKES(1)PGLK ; 101.64 6.80E-05 9667800 4718.8 3279.5 2571.53 3265.1 3471.1 4435.1 4021.1 5262 4399.8 3591.6 TRUE FALSE FALSE 5215.145035 3385.757952 2921.964716 3328.300732 3205.145068 4057.204529 3568.635245 5127.405659 4369.181434 3746.451453 1.392022585 0.903723962 0.779928621 0.888387525 0.855514907 1.082945977 0.952537432 1.368603257 1.166218617 1 11.87130904 -7.233634949 24.97029326 1.185121797 0.963624586 0.227928341 0.176205631 863.6645715 775631.1653 0.034389977 0.04211465 5.84E-08 7.233634949 -0.22149721 IDRPEAISEER ddPTM_HeLa_SAHA_4h_R1 1 IDRPEAISEER 11 1 D6RD69;Q9Y6B6;D6R9R5;Q9H029 D6RD69 SAR1B;DKFZp434B2017 GTP-binding protein SAR1b 0 0 96.067 0.016564 3740400 1770.6 1810.9 1441 1834.2 1924.4 2137.3 1897.7 1652.1 2342.9 1818.8 FALSE FALSE TRUE 1956.839832 1869.574348 1637.371976 1869.703593 1776.952888 1955.190016 1684.165802 1609.841674 2326.595568 1897.217369 1.031426269 0.985429703 0.863038681 0.985497826 0.936610067 1.030556671 0.887703133 0.848527797 1.226319981 1 10.88966927 -6.988894334 24.50343825 1.014502701 0.931026594 0.335425905 0.084600917 139.0917364 306888.9316 0.008291721 0.010891077 1.03E-07 6.988894334 -0.083476107 IDS(ph)LSAQLSQLQK ddPTM_HeLa_SAHA_4h_R1 2 IDSLSAQLSQLQK 13 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 IDS(0.976)LS(0.024)AQLSQLQK;IDS(0.979)LS(0.021)AQLSQLQK ; 130.27 7.42E-05 0 1008.81 990.05 1114.52 1237.12 1070.15 1361.89 1036.39 1263.45 1145.12 851.84 TRUE FALSE FALSE 1114.921264 1022.12827 1266.400981 1261.066247 988.1553382 1245.84931 919.7726696 1231.132778 1137.151017 888.5669912 1.254740808 1.150310871 1.425217225 1.419213474 1.112077478 1.402088219 1.035119106 1.385526123 1.279758339 1 9.795336738 -9.01908887 0.612943515 0.977913899 1.276497042 0 0.156127172 0.759298173 0.47442025 0.121100879 0.028891549 9.57E-10 9.01908887 0.298583144 IDSNIS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 IDSNISPK 8 0 Q9H501 Q9H501 ESF1 ESF1 homolog 1 0 IDS(0.002)NIS(0.998)PK;IDS(0.001)NIS(0.999)PK ; 99.752 0.011226 98553000 10492.5 10309.9 8659.9 9193.2 10372 10781.2 10572.2 9540.7 10712.5 9321.1 TRUE FALSE FALSE 11596.14929 10643.94752 9840.026073 9371.14768 9577.299601 9862.581107 9382.588231 9296.662709 10637.95084 9722.978237 1.192654042 1.094720904 1.01203827 0.963814528 0.985017077 1.014358036 0.964991179 0.956153812 1.09410415 1 13.24718258 -6.655009497 3.766801252 1.093854275 0.979457387 0.599942666 0.045722464 0.195684404 5.302048322 0.011718844 0.016761213 2.21E-07 6.655009497 -0.114396887 IDSVAAQPTATS(ph)PVVYTR ddPTM_HeLa_SAHA_4h_R1 1 IDSVAAQPTATSPVVYTR 18 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 IDSVAAQPT(0.396)AT(0.199)S(0.404)PVVYTR 154.48 9.70E-14 0 576.97 874.68 555.57 505.7 713.32 1072.8 655.86 626.97 1071.1 646.76 TRUE FALSE FALSE 637.6583518 903.0202059 631.2801863 515.4885548 658.6655757 981.3914046 582.0609067 610.9330152 1063.646128 674.6449888 0.945176148 1.338511693 0.935722042 0.764088615 0.976314338 1.454678269 0.86276622 0.905562222 1.576601243 1 9.397984718 IDTIEIITDR ddPTM_HeLa_SAHA_4h_R1 5 IDTIEIITDR 10 0 P22626;P22626-2;A0A087WUI2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 0 0 ;;;; ;;;; 166.07 3.69E-08 168248100 9564.12 6940.98 6058.29 8340.89 7186.02 10615.91 9512.05 7803.72 11083.7 8321.74 FALSE FALSE TRUE 10570.11802 7165.872306 6883.882211 8502.339987 6635.4287 9711.374745 8441.7291 7604.112142 11006.56763 8680.530937 1.21768105 0.825510831 0.79302548 0.979472344 0.764403554 1.118753543 0.97248995 0.875996203 1.267960187 1 13.08356757 -7.255658261 24.99107243 1.102793829 0.908350022 0.468008272 0.121002887 388.4386528 1679174.253 0.020734225 0.025017781 5.55E-08 7.255658261 -0.194443807 IDVGEAEPR ddPTM_HeLa_SAHA_4h_R1 1 IDVGEAEPR 9 0 P54577 P54577 YARS "Tyrosine--tRNA ligase, cytoplasmic;Tyrosine--tRNA ligase, cytoplasmic, N-terminally processed" 0 0 123.21 0.01881 3848200 1242.2 1027.8 981.94 1068.8 1040.5 1554.9 1641 1343.8 1188 1165.5 FALSE FALSE TRUE 1372.860295 1061.101394 1115.753669 1089.48817 960.7771148 1422.413772 1456.350361 1309.427542 1179.732611 1215.750409 1.129228734 0.872795425 0.917748957 0.896144605 0.790274967 1.169988315 1.197902424 1.077052932 0.97037402 1 10.24763136 IDVPQDLEDDLTATPLSHAT(ph)VPQSPAR ddPTM_HeLa_SAHA_4h_R1 1 IDVPQDLEDDLTATPLSHATVPQSPAR 27 0 E7EUC4;Q9NRH2 E7EUC4 SNRK SNF-related serine/threonine-protein kinase 1 0 IDVPQDLEDDLTATPLS(0.004)HAT(0.794)VPQS(0.202)PAR 134.57 1.24E-09 4357200 483.07 823.22 425.29 542.43 1200.6 1604.9 792.18 1102.7 1007 984.29 TRUE FALSE FALSE 533.881519 849.8928681 483.2463064 552.929517 1108.610287 1468.153491 703.0418215 1074.494531 999.992205 1026.727559 0.519983626 0.827768633 0.470666539 0.53853577 1.079751174 1.429934824 0.684740383 1.046523512 0.973960615 1 10.0038377 -5.74046991 24.59329889 0.73268861 1.059823387 0.325328918 0.23844201 214.5582449 251635.2846 0.0382582 0.076447737 1.82E-06 5.74046991 0.327134777 IDVTAPDVS(ph)IEEPEGK ddPTM_HeLa_SAHA_4h_R1 2 IDVTAPDVSIEEPEGK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 IDVT(0.041)APDVS(0.959)IEEPEGK;IDVT(0.121)APDVS(0.879)IEEPEGK ; 156.11 1.52E-05 9507300 3559.8 3818.7 3687.3 3013.7 4240.4 4843.6 4497.7 3728.7 4425.2 3728.2 TRUE FALSE FALSE 3934.236097 3942.428386 4189.786041 3072.034521 3915.501468 4430.898031 3991.606959 3633.325253 4394.404673 3888.940947 1.011647168 1.013753729 1.077359131 0.78994116 1.006829757 1.139358527 1.026399478 0.93427113 1.129974647 1 11.92516161 -4.250687136 22.6335377 1.006630277 0.934270975 0.053653558 0.092356972 967.8564573 2037183.768 0.011048082 0.197311518 5.61E-05 4.250687136 -0.072359302 IDYIAGLDSR ddPTM_HeLa_SAHA_4h_R1 1 IDYIAGLDSR 10 0 H3BQF1;H3BQB1;P07741-2;P07741 H3BQF1 APRT Adenine phosphoribosyltransferase 0 0 122.96 0.015879 7906700 3038.9 2327.8 2421.2 2796.5 2899.5 2865.3 2757.6 2572.5 2352 2536 FALSE FALSE TRUE 3358.545445 2403.222247 2751.148527 2850.630301 2677.340936 2621.16032 2447.30759 2506.699175 2335.632241 2645.339371 1.269608536 0.908474079 1.03999833 1.077604761 1.012097338 0.990859755 0.925139367 0.947590771 0.882923479 1 11.3692371 -5.781795491 0.738636919 1.113839115 0.933974073 0 0.114644466 0.883868672 0.85940542 0.022592533 0.086908516 1.65E-06 5.781795491 -0.179865043 IECDDKGDGSCDVR ddPTM_HeLa_SAHA_4h_R1 2 IECDDKGDGSCDVR 14 1 P21333-2;P21333;Q60FE5;A0A087WWY3;Q14315-2;Q14315 P21333-2;Q14315-2 FLNA;FLNC Filamin-A;Filamin-C 0 0 ; ; 187.78 6.78E-07 38033400 3910.25 3421.94 3619.53 4273.07 4135.6 4316.5 3912.24 4181.3 3643.97 3623.19 FALSE FALSE TRUE 4321.548036 3532.813101 4112.780699 4355.781449 3818.731221 3948.709916 3472.024459 4074.3484 3618.611316 3779.403452 1.143447131 0.93475416 1.08820896 1.152505019 1.010405814 1.044797139 0.918669971 1.07804008 0.957455684 1 11.88394282 -5.578790882 24.99928035 1.065886562 1.008197754 0.002951721 0.078449589 146.2598159 65394.64079 0.011260246 0.022520496 2.64E-06 5.578790882 -0.057688809 IECEIK(ac)INHEGEVNR ddPTM_HeLa_SAHA_4h_R1 2 IECEIKINHEGEVNR 15 1 E9PC52;Q16576;Q16576-2;Q5JP01 E9PC52 RBBP7 Histone-binding protein RBBP7 0 1 ; IECEIK(1)INHEGEVNR;IECEIK(1)INHEGEVNR 189.33 1.29E-16 16826900 4973.4 4562.3 4780.6 5312.6 5533.9 5647.2 6854 5475.9 5424.8 5321 FALSE TRUE FALSE 5496.525031 4710.121513 5432.075272 5415.433055 5109.893778 5166.02679 6082.769881 5335.834407 5387.048375 5550.41435 0.990290938 0.848607188 0.978679235 0.975680862 0.920632849 0.93074615 1.095912755 0.961339833 0.970566887 1 12.43837976 -7.492888676 24.97984733 0.99571663 0.959833814 0.040457525 0.058763128 754.4271953 628396.5682 0.010156855 0.01106497 3.21E-08 7.492888676 -0.035882816 IEDFLER ddPTM_HeLa_SAHA_4h_R1 2 IEDFLER 7 0 P46781;B5MCT8;C9JM19 P46781 RPS9 40S ribosomal protein S9 0 0 ; ; 124.59 0.016221 33625000 5955.6 6761 5724 6007.7 7313.2 6079 6858.4 6254.1 7037.1 5867.9 FALSE FALSE TRUE 6582.037333 6980.060836 6504.036911 6123.987721 6752.864196 5561.035 6086.674782 6094.129178 6988.128248 6120.893886 1.075339232 1.140366255 1.062595927 1.000505455 1.103248042 0.90853315 0.99440946 0.99562732 1.141684267 1 12.57952664 -5.263614339 24.99433119 1.047686939 0.969011927 0.387318685 0.055686762 175.0528616 2011696.646 0.007504811 0.017579793 5.45E-06 5.263614339 -0.078675012 IEDFLERR ddPTM_HeLa_SAHA_4h_R1 2 IEDFLERR 8 1 P46781;B5MCT8;C9JM19 P46781 RPS9 40S ribosomal protein S9 0 0 ; ; 124.08 0.0011773 0 3779.7 2188.9 3303.3 3299.1 3170.2 3026 3723.2 2591.5 2270.2 3307.5 FALSE FALSE TRUE 4177.266188 2259.821796 3753.456521 3362.958851 2927.299961 2768.167776 3304.255737 2525.213182 2254.401493 3450.102512 1.210765818 0.655001348 1.087926086 0.974741719 0.848467531 0.802343631 0.957726829 0.731924102 0.653430293 1 11.75242351 -7.280966306 24.97727864 1.099528301 0.878676887 0 0.189433953 623.6083265 797667.7401 0.022785662 0.026076025 5.24E-08 7.280966306 -0.220851413 IEDLSQEAQLAAAEK ddPTM_HeLa_SAHA_4h_R1 1 IEDLSQEAQLAAAEK 15 0 Q9BZK3 Q9BZK3 NACAP1 Putative nascent polypeptide-associated complex subunit alpha-like protein 0 0 240.42 2.45E-48 0 259.6 255.16 395.11 556.77 396.6 746.19 450.45 291.23 433.26 461.6 FALSE FALSE TRUE 286.9059191 263.4273514 448.9535332 567.5470885 366.2125937 682.610414 399.7641805 283.7807583 430.2449084 481.501835 0.595856336 0.547095218 0.932402538 1.178701818 0.760563236 1.417669393 0.830244355 0.589365892 0.893547806 1 8.911397486 -6.545932444 24.91424382 0.782052303 0.972460843 0.12450705 0.245446547 396.5376729 428538.5919 0.04180114 0.059117681 2.84E-07 6.545932444 0.19040854 IEDLSQQAQLAAAEK ddPTM_HeLa_SAHA_4h_R1 1 IEDLSQQAQLAAAEK 15 0 F8VZJ2;F8W0W4;H0YHX9;Q13765;E9PAV3-2;E9PAV3;F8W1N5;F8VNW4 F8VZJ2 NACA "Nascent polypeptide-associated complex subunit alpha;Nascent polypeptide-associated complex subunit alpha, muscle-specific form" 0 0 320.48 7.07E-158 1934400 525.28 586.98 648.39 752.65 522.42 663.12 693.5 479.96 618.14 744.68 FALSE FALSE TRUE 580.5313605 605.9985371 736.7492125 767.2186291 482.3922925 606.6184454 615.4655548 467.6833182 613.8383134 776.7867992 0.747349673 0.780134958 0.948457432 0.987682373 0.6210099 0.780933 0.792322366 0.602074235 0.79022753 1 9.601374873 -13.52287875 0.212688288 2.088359438 0.744697796 0.040757369 0.128414384 43.35009175 0.541428988 19.71208444 0.102285441 3.00E-14 13.52287875 -1.343661642 IEDS(ph)EPHIPLIDDTDAEDDAPTKR ddPTM_HeLa_SAHA_4h_R1 1 IEDSEPHIPLIDDTDAEDDAPTKR 24 1 H0YHH6;A0A0U1RQU3;E7ERY9;P20020-6;P20020;P20020-4;P20020-1 H0YHH6 ATP2B1 Calcium-transporting ATPase;Plasma membrane calcium-transporting ATPase 1 1 0 IEDS(0.999)EPHIPLIDDT(0.001)DAEDDAPTKR 49.394 0.014699 2364200 798.96 1395 880.3 788.27 1033 928.07 1213 962.15 1028.2 978.19 TRUE FALSE FALSE 882.9982786 1440.198915 1000.2627 803.5281057 953.8517632 848.9932148 1076.510048 937.5395962 1021.044672 1020.364558 0.865375293 1.411455253 0.980299337 0.787491196 0.934814675 0.832048907 1.055024931 0.918828069 1.000666541 1 9.994868978 -6.444503832 24.99933572 0.981023694 0.908715061 0.104661403 0.155613236 333.0016037 106215.9497 0.025380738 0.038769713 3.59E-07 6.444503832 -0.072308633 IEDVGS(ph)DEEDDSGK ddPTM_HeLa_SAHA_4h_R1 10 IEDVGSDEEDDSGK 14 0 P08238;Q58FF8 P08238;Q58FF8 HSP90AB1;HSP90AB2P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta 2 1 0 IEDVGS(0.685)DEEDDS(0.315)GK;IEDVGS(0.934)DEEDDS(0.066)GK;IEDVGS(1)DEEDDSGK;IEDVGS(0.982)DEEDDS(0.018)GK;IEDVGS(0.819)DEEDDS(0.181)GK;IEDVGS(0.916)DEEDDS(0.084)GK;IEDVGS(0.903)DEEDDS(0.097)GK;IEDVGS(1)DEEDDSGK;IEDVGS(0.988)DEEDDS(0.012)GK;IEDVGS(1)DEEDDSGK ;;;;;;;;; 238.88 6.64E-33 2589382500 16615.45 28167.2 15540.35 21022.8 23404.2 30349.3 21722.29 18472.18 46823.3 22090.6 TRUE FALSE FALSE 18363.13927 29079.83576 17658.10797 21429.72669 21610.97525 27763.3689 19278.04076 17999.68838 46497.45284 23043.03387 0.796906317 1.261979474 0.766310029 0.929987206 0.937852861 1.204848678 0.836610355 0.781133616 2.017852905 1 14.49204306 IEDVGS(ph)DEEDDSGKDK ddPTM_HeLa_SAHA_4h_R1 16 IEDVGSDEEDDSGKDK 16 1 P08238;Q58FF8 P08238;Q58FF8 HSP90AB1;HSP90AB2P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta 2 1 0 IEDVGS(0.996)DEEDDS(0.004)GKDK;IEDVGS(1)DEEDDSGKDK;IEDVGS(1)DEEDDSGKDK;IEDVGS(1)DEEDDSGKDK;IEDVGS(1)DEEDDSGKDK;IEDVGS(1)DEEDDSGKDK;IEDVGS(1)DEEDDSGKDK;IEDVGS(1)DEEDDSGKDK;IEDVGS(1)DEEDDSGKDK;IEDVGS(0.921)DEEDDS(0.079)GKDK;IEDVGS(1)DEEDDSGKDK;IEDVGS(0.999)DEEDDS(0.001)GKDK;IEDVGS(1)DEEDDSGKDK;IEDVGS(1)DEEDDSGKDK;IEDVGS(0.994)DEEDDS(0.006)GKDK;IEDVGS(1)DEEDDSGKDK ;;;;;;;;;;;;;;; 238.12 7.29E-29 14160102600 33835.94 49705.7 32565.7 37663.57 40812.33 51628.26 40211.66 35083.88 58323.42 41860.82 TRUE FALSE FALSE 37394.95941 51316.19729 37003.584 38392.60286 37685.29809 47229.2418 35686.93819 34186.48515 57917.54257 43665.64481 0.856393157 1.175207592 0.847430152 0.879240488 0.86304229 1.081611001 0.817277252 0.782914928 1.326386976 1 15.41421102 IEDVGS(ph)DEEDDSGKDKK ddPTM_HeLa_SAHA_4h_R1 7 IEDVGSDEEDDSGKDKK 17 2 P08238;Q58FF8 P08238;Q58FF8 HSP90AB1;HSP90AB2P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta 2 1 0 IEDVGS(0.996)DEEDDS(0.004)GKDKK;IEDVGS(0.998)DEEDDS(0.002)GKDKK;IEDVGS(0.994)DEEDDS(0.006)GKDKK;IEDVGS(1)DEEDDSGKDKK;IEDVGS(0.894)DEEDDS(0.106)GKDKK;IEDVGS(1)DEEDDSGKDKK;IEDVGS(0.988)DEEDDS(0.012)GKDKK ;;;;;; 82.709 0.0060022 13163293000 13321.79 50414.9 11935.33 20432.9 16981.9 21100.8 16341.2 14224.48 23067.7 20576.6 TRUE FALSE FALSE 14723.03699 52048.37584 13561.81462 20828.40833 15680.75049 19302.89313 14502.44517 13860.6384 22907.17 21463.75793 0.685948707 2.424942362 0.631847166 0.970398958 0.730568736 0.899324955 0.675671298 0.645769415 1.067248805 1 14.38961507 -5.759319223 1.864357877 0.972283059 0.73130796 0.084251046 0.485713313 0.994977135 7.029155283 0.07597805 0.172247609 1.74E-06 5.759319223 -0.240975099 IEDVGSDEEDDS(ph)GK ddPTM_HeLa_SAHA_4h_R1 1 IEDVGSDEEDDSGK 14 0 P08238;Q58FF8 P08238;Q58FF8 HSP90AB1;HSP90AB2P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta 2 1 0 IEDVGS(0.454)DEEDDS(0.546)GK 181.75 3.94E-07 851860000 2034 3546.7 1796.8 2634.6 3137.5 3813.7 2435 2011.6 5094.3 2744.6 TRUE FALSE FALSE 2247.945452 3661.615407 2041.658547 2685.596493 2897.105428 3488.751305 2161.007391 1960.146185 5058.848352 2862.933138 0.785189644 1.278973427 0.713135253 0.938057706 1.011936112 1.218593358 0.754822864 0.684663627 1.767015892 1 11.48327826 -4.544764407 24.98749905 0.940190015 0.702203094 0.04287113 0.309925725 217.6337794 248478.6708 0.023254127 0.087021836 2.85E-05 4.544764407 -0.237986921 IEDVGSDEEDDS(ph)GKDK ddPTM_HeLa_SAHA_4h_R1 1 IEDVGSDEEDDSGKDK 16 1 P08238;Q58FF8 P08238;Q58FF8 HSP90AB1;HSP90AB2P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta 2 1 0 IEDVGS(0.033)DEEDDS(0.967)GKDK 71.513 0.012966 8306800 1105 1662.3 1064.8 1575.8 1614.2 1880.7 1554.1 1404 2135.4 1715.4 TRUE FALSE FALSE 1221.22897 1716.159611 1209.905399 1606.301888 1490.520345 1720.453779 1379.228578 1368.087713 2120.539578 1789.359289 0.682495113 0.959091682 0.67616683 0.897696677 0.83299109 0.961491518 0.770794656 0.764568481 1.185083169 1 10.80522738 -9.609148223 1.419511448 0.999766274 0.804317248 0.42943573 0.114110625 0.374352799 1.356586067 0.068951151 0.015955039 2.46E-10 9.609148223 -0.195449026 IEDVGSDEEDDSGKDKK ddPTM_HeLa_SAHA_4h_R1 1 IEDVGSDEEDDSGKDKK 17 2 P08238;Q58FF8 P08238;Q58FF8 HSP90AB1;HSP90AB2P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta 2 0 0 73.415 0.0078821 11979000 1364.5 1918.8 1171.6 1721.8 1938.4 2356.7 1867.1 2047.7 2425.7 1913 FALSE FALSE TRUE 1508.024371 1980.970379 1331.259547 1755.127929 1789.880211 2155.895902 1657.008994 1995.322799 2408.819356 1995.478792 0.75572057 0.992729357 0.667137908 0.879552284 0.896967794 1.080390285 0.830381661 0.999921827 1.20713854 1 10.96251923 -4.240019033 21.65415319 0.886020434 0.999922559 0 0.152780755 1811.278401 1830862.269 0.017224096 0.80267357 5.75E-05 4.240019033 0.113902125 IEDVTPIPSDS(ph)TR ddPTM_HeLa_SAHA_4h_R1 3 IEDVTPIPSDSTR 13 0 P62263;A0A2R8Y811 P62263 RPS14 40S ribosomal protein S14 1 0 IEDVTPIPSDS(0.988)T(0.012)R;IEDVTPIPSDS(0.612)T(0.388)R;IEDVTPIPSDS(0.971)T(0.029)R ;; 199.13 6.64E-33 22979000 3076.96 3780.6 3057.21 4049 4648.7 4801.1 6241.9 5842.3 4962.9 3352.85 TRUE FALSE FALSE 3400.60877 3903.093921 3473.830658 4127.37425 4292.51761 4392.01927 5539.544984 5692.862426 4928.362775 3497.407772 0.972322644 1.115996239 0.993258689 1.180123829 1.227342618 1.255792735 1.583900233 1.627737684 1.409147316 1 11.7720703 -4.513712728 0.542332366 0.985656733 2.020261671 0.579196888 0.146007129 0.457100515 0.106983902 0.010923503 0.281958782 3.06E-05 4.513712728 1.034604938 IEDVTPIPSDS(ph)TRR ddPTM_HeLa_SAHA_4h_R1 2 IEDVTPIPSDSTRR 14 1 P62263;A0A2R8Y811 P62263 RPS14 40S ribosomal protein S14 1 0 IEDVTPIPS(0.001)DS(0.842)T(0.157)RR;IEDVTPIPS(0.003)DS(0.862)T(0.135)RR ; 151.39 3.47E-05 32984000 5828.8 7880.5 5343.3 8535.1 9831.7 8967.7 13629.7 12502.2 9573.4 6489.9 TRUE FALSE FALSE 6441.899927 8135.833371 6071.457097 8700.309202 9078.39727 8203.601509 12096.05028 12182.41183 9506.77793 6769.71135 0.95157675 1.201799154 0.896856126 1.285181709 1.341031663 1.211809645 1.786789666 1.799546716 1.404310677 1 12.72487861 -4.220538713 0.494104712 0.974640997 2.5486964 0.608167622 0.186656598 1.103227582 0.175018166 0.025201047 1.014484575 6.02E-05 4.220538713 1.574055403 IEDVTPIPSDST(ph)R ddPTM_HeLa_SAHA_4h_R1 1 IEDVTPIPSDSTR 13 0 P62263;A0A2R8Y811 P62263 RPS14 40S ribosomal protein S14 1 0 IEDVTPIPSDS(0.25)T(0.75)R 192.4 2.51E-07 12665000 1323 1531.4 1301.2 1647.5 2015.1 2005.9 2714.2 2445.4 2326 1588.1 TRUE FALSE FALSE 1462.15921 1581.018365 1478.52076 1679.389745 1860.703473 1834.986035 2408.791073 2382.850209 2309.813177 1656.570763 0.882642168 0.95439229 0.892518927 1.013774831 1.123226073 1.10770157 1.454082812 1.438423436 1.394334144 1 10.69398412 -4.904255519 0.986722924 0.941646375 1.545760063 0.464660164 0.155080823 0.18909443 0.252503615 0.010203781 0.095148635 1.25E-05 4.904255519 0.604113688 IEDVTPIPSDSTR ddPTM_HeLa_SAHA_4h_R1 5 IEDVTPIPSDSTR 13 0 P62263;A0A2R8Y811 P62263 RPS14 40S ribosomal protein S14 0 0 ;;;; ;;;; 172.61 2.01E-10 33024400 3894.57 3491.07 3402.14 3898.41 3713.88 4503.71 4390.9 3975.97 4100.42 3281.88 FALSE FALSE TRUE 4304.218742 3604.182959 3865.765922 3973.869363 3429.323317 4119.968571 3896.824376 3874.270445 4071.884843 3423.377908 1.257301664 1.052814809 1.129225585 1.160803589 1.001736708 1.203480504 1.138298044 1.131709834 1.189434808 1 11.74120485 -9.657425738 1.511509665 1.000272781 1.150096856 0 0.08949211 0.355820891 1.466689004 0.052816014 0.011984234 2.20E-10 9.657425738 0.149824076 IEDVTPIPSDSTRR ddPTM_HeLa_SAHA_4h_R1 5 IEDVTPIPSDSTRR 14 1 P62263;A0A2R8Y811 P62263 RPS14 40S ribosomal protein S14 0 0 ;;;; ;;;; 145.81 0.00022999 29613000 11806.7 11749.8 11356.1 12953.44 14164.71 12686.76 13974.84 13933.79 10821.84 12248.6 FALSE FALSE TRUE 13048.58288 12130.50123 12903.65017 13204.17256 13079.41298 11605.77667 12402.35422 13577.38383 10746.52993 12776.69709 1.021279818 0.949423873 1.009936299 1.033457432 1.023692813 0.908354999 0.970701124 1.062667741 0.841103914 1 13.64122731 IEEAMDGSET(ph)PQLFTVLPEKR ddPTM_HeLa_SAHA_4h_R1 2 IEEAMDGSETPQLFTVLPEKR 21 1 E9PPJ0;Q13435 E9PPJ0 SF3B2 Splicing factor 3B subunit 2 1 0 IEEAMDGS(0.004)ET(0.996)PQLFTVLPEKR;IEEAMDGS(0.041)ET(0.959)PQLFTVLPEKR ; 116.85 5.52E-05 36453000 4537.4 4801.1 4728.9 4399.7 4834.7 4707.4 4959.5 5117.5 4245.1 4968.4 TRUE FALSE FALSE 5014.66455 4956.65879 5373.329865 4484.862556 4464.26633 4306.303037 4401.444007 4986.60176 4215.558003 5182.612039 0.967594046 0.956401666 1.036799557 0.865367217 0.861393115 0.830913641 0.849271366 0.962179249 0.813404124 1 12.33946368 -6.246139486 24.71354342 0.985288594 0.869386206 0.209176385 0.066435657 295.3000462 476990.7649 0.005618373 0.009294048 5.67E-07 6.246139486 -0.115902388 IEEDRCS(ph)NSADITGPSFIR ddPTM_HeLa_SAHA_4h_R1 2 IEEDRCSNSADITGPSFIR 19 1 Q52LW3;F8VWZ8 Q52LW3 ARHGAP29 Rho GTPase-activating protein 29 1 0 IEEDRCS(0.997)NS(0.003)ADITGPSFIR;IEEDRCS(0.714)NS(0.286)ADITGPSFIR ; 114.99 0.00030398 4760500 720.17 795.61 746.63 854.4 745.45 1085.05 936.84 1008.73 963.05 815.72 TRUE FALSE FALSE 795.9207849 821.388286 848.3768481 870.9381475 688.333782 992.5976357 831.4242976 982.9281472 956.3480566 850.8896812 0.935398328 0.965328766 0.997046817 1.023561769 0.808957727 1.166540925 0.977123493 1.155176951 1.123938952 1 9.732828287 -5.235370232 24.99766741 0.965534455 1.087364746 0.266326607 0.088929793 586.1756414 562082.1337 0.009479798 0.024159818 5.82E-06 5.235370232 0.121830291 IEEEEEVEQELLSHS(ph)WGR ddPTM_HeLa_SAHA_4h_R1 4 IEEEEEVEQELLSHSWGR 18 0 Q86YV5 Q86YV5 SGK223 Tyrosine-protein kinase SgK223 1 0 IEEEEEVEQELLS(0.004)HS(0.996)WGR;IEEEEEVEQELLSHS(1)WGR;IEEEEEVEQELLSHS(1)WGR;IEEEEEVEQELLS(0.001)HS(0.999)WGR ;;; 250.45 1.79E-38 8669000 2479.87 3207.22 3302.83 3579.15 4286.57 4235.42 4323.36 3904.25 3555.2 3255.09 TRUE FALSE FALSE 2740.714105 3311.136032 3752.922472 3648.429624 3958.133933 3874.538388 3836.884154 3804.384938 3530.459074 3395.43286 0.807176645 0.975173467 1.105285431 1.074510902 1.165722927 1.141102931 1.13001326 1.12044181 1.03976701 1 11.72937979 -6.829770594 3.219038001 0.908228989 1.125994396 0.603890042 0.064038316 0.111878367 2.351458236 0.012193755 0.016625196 1.48E-07 6.829770594 0.217765406 IEEEEQEPEPPEPFEYIDD ddPTM_HeLa_SAHA_4h_R1 2 IEEEEQEPEPPEPFEYIDD 19 0 A0A087WW66;Q99460-2;Q99460 A0A087WW66 PSMD1 26S proteasome non-ATPase regulatory subunit 1 0 0 ; ; 144.28 0.00060439 9724300 3883.1 3913.6 3444.7 3679.7 4268 4855.9 4906.2 3979.2 4310.2 3714.3 FALSE FALSE TRUE 4291.542274 4040.403208 3914.125777 3750.925914 3940.986762 4442.150001 4354.141464 3877.417826 4280.204967 3874.44165 1.107654383 1.042834961 1.010242541 0.968120378 1.017175407 1.146526494 1.12381134 1.000768156 1.104728204 1 11.9197727 -9.682080288 1.56180032 1.000119545 1.060999273 0 0.06394461 0.69147753 3.047984211 0.042819312 0.009614037 2.08E-10 9.682080288 0.060879728 IEEELGSK ddPTM_HeLa_SAHA_4h_R1 4 IEEELGSK 8 0 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 ;;; ;;; 149.65 4.53E-05 238959000 14360.8 14225.9 14525.7 12641.8 13917.2 13478.6 15696.4 14292.3 12471.2 12630.7 FALSE FALSE TRUE 15871.33483 14686.82849 16505.18675 12886.50032 12850.86714 12330.14745 13930.19976 13926.72366 12384.4119 13175.27129 1.20463059 1.114726837 1.252739802 0.978082351 0.975377801 0.935855299 1.057298894 1.057035059 0.939973958 1 13.68554505 IEEELGSK(ac)AK ddPTM_HeLa_SAHA_4h_R1 2 IEEELGSKAK 10 1 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 1 ; IEEELGSK(1)AK;IEEELGSK(1)AK 167.93 2.33E-11 4903300 1301.69 1285.87 1297.53 1635.39 1262.4 1087.12 1415.13 1729.06 1287.59 1098.2 FALSE TRUE FALSE 1438.607727 1327.533032 1474.350631 1667.045338 1165.675185 994.49126 1255.895848 1684.833149 1278.629556 1145.548776 1.25582407 1.158862075 1.287025626 1.455237326 1.017569229 0.868135238 1.096326821 1.47076509 1.116172076 1 10.16182317 -9.396924836 1.093022293 0.998738926 1.195600116 0.080168329 0.178017039 0.848858752 1.795306833 0.128799233 0.032009935 4.01E-10 9.396924836 0.19686119 IEEVLSPEGSPSKS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 3 IEEVLSPEGSPSKSPSK 17 1 Q9UEY8-2;Q9UEY8 Q9UEY8-2 ADD3 Gamma-adducin 1 0 IEEVLSPEGSPS(0.125)KS(0.437)PS(0.437)K;IEEVLSPEGS(0.075)PS(0.361)KS(0.49)PS(0.075)K;IEEVLSPEGS(0.029)PS(0.339)KS(0.517)PS(0.115)K ;; 84.113 0.0045885 22411800 4142.5 5974.3 4269.6 5095.7 5739.5 7089.1 6275.4 6200.1 7207.4 5778.3 TRUE FALSE FALSE 4578.227156 6167.87124 4851.438853 5194.334642 5299.74075 6485.068798 5569.275476 6041.51042 7157.243117 6027.430791 0.75956528 1.023300218 0.804893332 0.861782544 0.879270278 1.075925883 0.923988291 1.002335925 1.187445093 1 12.55732747 -5.293855725 23.82467151 0.885959416 0.993073878 0 0.125563085 448.1655522 329382.5304 0.014557295 0.032554254 5.08E-06 5.293855725 0.107114462 IEGEMQVPDVDIR ddPTM_HeLa_SAHA_4h_R1 1 IEGEMQVPDVDIR 13 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 143.5 0.0011977 5544500 909.73 1076 1249 1132.3 1219.4 1278.9 1367 1275.5 1330 1095.3 FALSE FALSE TRUE 1005.419575 1110.863106 1419.207215 1154.217304 1125.969835 1169.930525 1213.181562 1242.874557 1320.744422 1142.523743 0.879998846 0.972288858 1.242168685 1.010234851 0.985511104 1.023987932 1.061843633 1.087832585 1.155988599 1 10.15800843 -6.98054897 24.99986384 0.942428084 1.063782149 0 0.097878096 200.1874929 257294.7308 0.012549651 0.016492317 1.05E-07 6.98054897 0.121354065 IEHAPS(ph)PSSGGTLK ddPTM_HeLa_SAHA_4h_R1 2 IEHAPSPSSGGTLK 14 0 Q14004-2;Q14004;A0A2R8Y7W5;A0A2R8Y4Z0;A0A2R8YCQ1;A0A2R8Y7Y0;A0A2R8YD28 Q14004-2 CDK13 Cyclin-dependent kinase 13 1 0 IEHAPS(0.985)PS(0.011)S(0.003)GGT(0.002)LK;IEHAPS(0.974)PS(0.022)S(0.002)GGT(0.002)LK ; 113.43 0.00063657 0 2259.61 2976.27 1703.78 2438.73 2250.88 1562.88 2563.9 2531.48 3197.5 2910.6 TRUE FALSE FALSE 2497.286147 3072.703101 1935.962265 2485.935146 2078.418061 1429.713831 2275.403224 2466.728407 3175.248337 3036.09021 0.822533579 1.012059224 0.637649784 0.818794889 0.684570588 0.470906242 0.749451784 0.812468746 1.045834648 1 11.56799894 -7.310158338 0.396775351 0.988993921 0.659604389 0.497416325 0.12210612 0.707355273 0.304909089 0.072488293 0.080647341 4.90E-08 7.310158338 -0.329389533 IEIESFYEGEDFSETLTR ddPTM_HeLa_SAHA_4h_R1 2 IEIESFYEGEDFSETLTR 18 0 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 ; ; 259.27 2.25E-47 8802400 1821.24 2092.7 1808.52 2362.9 2399.7 2603 2727.2 2679.1 2577.9 2285.57 FALSE FALSE TRUE 2012.806379 2160.504853 2054.975687 2408.637346 2215.835504 2381.209756 2420.328278 2610.572501 2559.960184 2384.112108 0.844258277 0.906209421 0.861945913 1.010286948 0.929417496 0.998782628 1.015190632 1.094987309 1.073758308 1 11.21923636 -4.480985097 0.811577575 0.921762053 1.152069091 0.281198622 0.068281364 1.415606586 0.820800547 0.010674154 0.272141115 3.30E-05 4.480985097 0.230307038 IEINFPAEYPFKPPK ddPTM_HeLa_SAHA_4h_R1 2 IEINFPAEYPFKPPK 15 1 P68036-2;P68036;P68036-3 P68036-2 UBE2L3 Ubiquitin-conjugating enzyme E2 L3 0 0 ; ; 179.56 4.68E-12 2751050 562.32 734.25 620.37 696.11 959.03 408.93 768.3 493.773 503.073 533.182 FALSE FALSE TRUE 621.4673976 758.0401818 704.9107929 709.5842156 885.5493286 374.0868634 681.8488619 481.1430016 499.572074 556.1700853 1.117405294 1.362964679 1.267437447 1.275840313 1.592227543 0.672612342 1.225971838 0.865100469 0.898236146 1 9.119382338 -3.082906047 13.84455486 1.114029207 1.131620173 0 0.258705559 0 0 0.0319128 0 0.000826217 3.082906047 0.017590966 IENHEGVR ddPTM_HeLa_SAHA_4h_R1 5 IENHEGVR 8 0 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BR70;H3BQ34 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;;;; ;;;; 135.71 0.0014654 26759770 8512.18 5462.64 11089.31 12803.36 6862.1 10997.94 15266.68 12272.64 7552.93 11708.98 FALSE FALSE TRUE 9407.530148 5639.63312 12600.50342 13051.18755 6336.32738 10060.85364 13548.83299 11958.72364 7500.368545 12213.81143 0.770237055 0.461742279 1.031660222 1.068559771 0.51878379 0.823727605 1.109304255 0.979114808 0.614089106 1 13.57622586 -4.768329612 24.97560901 0.851043457 1.044209543 0.143176067 0.208799805 224.7135403 814551.8374 0.028540322 0.088443845 1.70E-05 4.768329612 0.193166085 IEPGTST(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 IEPGTSTPR 9 0 Q86X27-3;Q86X27;H7C2H2;A0A0A0MR31 Q86X27-3 RALGPS2 Ras-specific guanine nucleotide-releasing factor RalGPS2 1 0 IEPGT(0.002)S(0.017)T(0.982)PR 123.86 0.0053029 10254000 2246 2333.3 1892.4 2076.7 2256.5 2422.9 2530.5 2042.7 2622.8 2518.9 TRUE FALSE FALSE 2482.244585 2408.900451 2150.286417 2116.897531 2083.607457 2216.455289 2245.76148 1990.450692 2604.547721 2627.502106 0.944716497 0.916802481 0.818376667 0.805669204 0.792999348 0.843559852 0.854713484 0.757544851 0.9912638 1 11.35947621 -7.041608867 1.249241511 0.979791773 0.810666359 0.875614454 0.028570313 0.106599802 0.323884327 0.005891369 0.007719968 9.09E-08 7.041608867 -0.169125414 IEPIPGES(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 IEPIPGESPK 10 0 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 1 0 IEPIPGES(1)PK;IEPIPGES(1)PK;IEPIPGES(1)PK;IEPIPGES(1)PK ;;; 187.58 1.13E-06 69061300 16544 14440.4 14425.4 17063.5 15829.2 17104.7 14461.6 15433.3 17006.4 16570.8 TRUE FALSE FALSE 18284.17383 14908.27843 16391.21839 17393.78872 14616.37012 15647.28333 12834.34271 15038.53853 16888.05108 17285.24828 1.057790639 0.86248564 0.948277868 1.006279368 0.845597927 0.905239142 0.742502653 0.870021552 0.97702103 1 14.07725371 -5.769704848 0.568622297 1.024596988 0.790633012 0.460037293 0.06569275 0.58384761 0.307532123 0.014618336 0.067181787 1.70E-06 5.769704848 -0.233963977 IEQHYFEDR ddPTM_HeLa_SAHA_4h_R1 2 IEQHYFEDR 9 0 C9JNK6;O75431-2;O75431 C9JNK6 MTX2 Metaxin-2 0 0 ; ; 90.685 0.018683 5928000 3025.5 2964.6 2434.5 3049.6 3705 4041 3497.5 2927.2 3231.2 3446 FALSE FALSE TRUE 3343.735971 3060.654985 2766.260982 3108.629418 3421.1237 3696.684066 3103.952095 2852.326463 3208.713816 3594.573924 0.930217612 0.851465306 0.769565751 0.864811653 0.951746653 1.028406744 0.863510436 0.793508917 0.892654841 1 11.81160506 -7.961424504 1.258969894 0.98283559 0.880851332 0.079414054 0.076227609 0.406027692 1.342704248 0.018757006 0.016057222 1.09E-08 7.961424504 -0.101984259 IERAS(ph)MDGS(ph)MRT(ph)VIVQDK ddPTM_HeLa_SAHA_4h_R1 1 IERASMDGSMRTVIVQDK 18 2 P98164 P98164 LRP2 Low-density lipoprotein receptor-related protein 2 3 0 IERAS(1)MDGS(1)MRT(1)VIVQDK 53.924 0.014216 6071900 0 141.07 0 52.389 0 0 0 0 0 0 TRUE FALSE FALSE 0 145.6407606 0 53.40306485 0 0 0 0 0 0 0 IES(ph)DEEEDFENVGK ddPTM_HeLa_SAHA_4h_R1 6 IESDEEEDFENVGK 14 0 Q96T23-3;Q96T23-2;Q96T23 Q96T23-3 RSF1 Remodeling and spacing factor 1 1 0 IES(1)DEEEDFENVGK;IES(1)DEEEDFENVGK;IES(1)DEEEDFENVGK;IES(1)DEEEDFENVGK;IES(1)DEEEDFENVGK;IES(1)DEEEDFENVGK ;;;;; 308.68 2.30E-98 625758200 8267.93 10860.1 8026.25 8126.52 8998.95 9735.67 8837.6 8274.08 8840.16 8524.84 TRUE FALSE FALSE 9137.588812 11211.97437 9120.025551 8283.820546 8309.452395 8906.136145 7843.169989 8062.441014 8778.640607 8892.387572 1.027574286 1.260850843 1.025599197 0.931563146 0.934445595 1.001546106 0.882009463 0.906667748 0.987208501 1 13.11835511 -6.279118127 6.402598775 1.03688844 0.932434697 0.385087049 0.078829949 0.174543526 31.56156978 0.012712768 0.019944584 5.26E-07 6.279118127 -0.104453743 IES(ph)DVQEPTEPEDDLDIMLGNK ddPTM_HeLa_SAHA_4h_R1 3 IESDVQEPTEPEDDLDIMLGNK 22 0 P20042 P20042 EIF2S2 Eukaryotic translation initiation factor 2 subunit 2 1 0 IES(0.992)DVQEPT(0.008)EPEDDLDIMLGNK;IES(1)DVQEPTEPEDDLDIMLGNK;IES(1)DVQEPTEPEDDLDIMLGNK ;; 166.57 6.38E-08 10295600 4089.77 4059.78 3322 3807.4 4754.38 5189.59 4168.7 4315.27 4946.46 4525.43 TRUE FALSE FALSE 4519.950773 4191.319536 3774.70486 3881.097733 4390.100432 4747.407736 3699.626905 4204.891642 4912.037182 4720.543434 0.957506447 0.8878892 0.799633541 0.822171809 0.929998949 1.005690934 0.783729025 0.890764316 1.040566039 1 12.20473724 -7.352687357 2.575493717 0.98276175 0.872345743 0.444633234 0.063945128 0.217908101 2.72460053 0.011468762 0.013142362 4.44E-08 7.352687357 -0.110416006 IESDVQEPT(ph)EPEDDLDIMLGNK ddPTM_HeLa_SAHA_4h_R1 2 IESDVQEPTEPEDDLDIMLGNK 22 0 P20042 P20042 EIF2S2 Eukaryotic translation initiation factor 2 subunit 2 1 0 IESDVQEPT(1)EPEDDLDIMLGNK;IESDVQEPT(1)EPEDDLDIMLGNK ; 159.5 2.42E-07 28373000 4027.5 4066.5 3238 3931.6 4459.7 4859.8 4552.6 4288.5 4749.8 4357.2 TRUE FALSE FALSE 4451.130929 4198.257268 3679.257777 4007.701803 4117.998749 4445.7177 4040.329466 4178.80638 4716.745755 4545.060216 0.979333764 0.923696732 0.809506938 0.881770893 0.906038326 0.97814275 0.888949601 0.919417165 1.037774096 1 12.15008369 -7.224141541 3.59041246 0.990824536 0.89825698 0.563837474 0.042009421 0.140355847 3.776188738 0.007029776 0.008469674 5.97E-08 7.224141541 -0.092567556 IESDVQEPT(ph)EPEDDLDIMLGNKK ddPTM_HeLa_SAHA_4h_R1 3 IESDVQEPTEPEDDLDIMLGNKK 23 1 P20042 P20042 EIF2S2 Eukaryotic translation initiation factor 2 subunit 2 1 0 IES(0.002)DVQEPT(0.998)EPEDDLDIMLGNKK;IESDVQEPT(1)EPEDDLDIMLGNKK;IESDVQEPT(1)EPEDDLDIMLGNKK ;; 142.21 2.89E-06 30929500 6371.7 5948.5 5096.7 5732.5 6942.3 6903.8 6913.7 7717 6402.4 6560.6 TRUE FALSE FALSE 7041.90464 6141.235303 5791.251734 5843.460827 6410.382474 6315.5574 6135.75228 7519.610314 6357.845177 6843.459573 1.02899777 0.897387533 0.846246211 0.853875261 0.936716642 0.922860336 0.896586327 1.098802475 0.929039634 1 12.74051012 -7.262584792 24.97775559 1.013693393 0.915911889 0.107320064 0.071369852 88.32917588 1926168.677 0.010956583 0.012899363 5.46E-08 7.262584792 -0.097781504 IET(ph)DEEESCDNAHGDANQPAR ddPTM_HeLa_SAHA_4h_R1 2 IETDEEESCDNAHGDANQPAR 21 0 Q96T23-3;Q96T23-2;Q96T23 Q96T23-3 RSF1 Remodeling and spacing factor 1 1 0 IET(1)DEEESCDNAHGDANQPAR;IET(0.99)DEEES(0.01)CDNAHGDANQPAR ; 203.75 3.74E-21 108364000 2586.42 2854.3 2051.14 2409.33 3262.8 3145.7 2728.4 2904.4 3084.2 2668.8 TRUE FALSE FALSE 2858.471523 2946.781193 2330.658677 2455.966066 3012.804969 2877.668663 2421.393251 2830.109654 3062.736801 2783.865029 1.026799609 1.058521574 0.83720247 0.88221449 1.082238161 1.033695468 0.869795492 1.016611662 1.100174315 1 11.44287355 IETIEVMEDR ddPTM_HeLa_SAHA_4h_R1 5 IETIEVMEDR 10 0 P51991;P51991-2 P51991 HNRNPA3 Heterogeneous nuclear ribonucleoprotein A3 0 0 ;;;; ;;;; 214.05 1.72E-14 98864610 6490.52 7140.02 6337.69 7590.91 7411.68 8303.55 8701.55 7983.77 8614.55 7039.06 FALSE FALSE TRUE 7173.222673 7371.361333 7201.357388 7737.84304 6843.79868 7596.040826 7722.428693 7779.556724 8554.600645 7342.548325 0.976939116 1.003924116 0.980770854 1.053836175 0.93207404 1.034523777 1.051736856 1.059517266 1.165072434 1 12.84206514 -5.016543191 23.34242645 0.990774972 1.052502915 0 0.061968881 170.4701861 240536.1681 0.003625548 0.009545816 9.63E-06 5.016543191 0.061727943 IETSIGQSTVIIDLTEDSNEQPDS(ph)LVDHNKLNSEASPSR ddPTM_HeLa_SAHA_4h_R1 2 IETSIGQSTVIIDLTEDSNEQPDSLVDHNKLNSEASPSR 39 1 Q13111;Q13111-3;Q13111-2;K7EJF1 Q13111 CHAF1A Chromatin assembly factor 1 subunit A 1 0 IETSIGQSTVIIDLT(0.048)EDS(0.04)NEQPDS(0.524)LVDHNKLNS(0.163)EAS(0.169)PS(0.056)R;IETSIGQSTVIIDLT(0.023)EDS(0.075)NEQPDS(0.894)LVDHNKLNS(0.003)EAS(0.004)PS(0.001)R ; 84.577 1.45E-09 12662000 284.91 925.32 423.56 896.02 1250.31 1255.39 996.23 798.25 1368.28 1126.97 TRUE FALSE FALSE 314.878141 955.3009751 481.280551 913.3637628 1154.511518 1148.423709 884.1315785 777.8319209 1358.758028 1175.559192 0.267853923 0.812635367 0.409405629 0.7769611 0.982095607 0.976916958 0.752094479 0.66166972 1.155839738 1 10.19913147 -3.927035528 10.33606644 0.698767893 0.451817308 0 0.27361251 375307.1956 2129256.857 0.042516288 1800369.058 0.000118294 3.927035528 -0.246950585 IEVDEGFCS(ph)PKPSEIK ddPTM_HeLa_SAHA_4h_R1 1 IEVDEGFCSPKPSEIK 16 1 Q9UHV7 Q9UHV7 MED13 Mediator of RNA polymerase II transcription subunit 13 1 0 IEVDEGFCS(0.954)PKPS(0.046)EIK 66.606 0.016856 12797000 1756.9 2154.1 1219.7 2085.5 2281.9 2251.8 1835.3 1423.8 2574.8 1867.1 TRUE FALSE FALSE 1941.698803 2223.894253 1385.914364 2125.867868 2107.061315 2059.933972 1628.787214 1387.381258 2556.881757 1947.599818 0.996970109 1.141864069 0.711601198 1.091532176 1.081875904 1.057678252 0.83630487 0.712354378 1.312837336 1 10.92748156 -4.568875551 3.795755488 1.003793088 0.731363334 0.337360746 0.147605185 0.13899591 4.044621005 0.014240599 0.069306078 2.70E-05 4.568875551 -0.272429753 IEVEK(ac)PFAIAK ddPTM_HeLa_SAHA_4h_R1 2 IEVEKPFAIAK 11 1 P23284 P23284 PPIB Peptidyl-prolyl cis-trans isomerase B 0 1 ; IEVEK(1)PFAIAK;IEVEK(1)PFAIAK 180.07 2.54E-12 1928880 386.93 1827.56 707.64 1106.34 1633.66 1837.59 1245.03 1116.18 1757.05 1008.45 FALSE TRUE FALSE 427.6290727 1886.774143 804.073494 1127.75481 1508.489324 1681.016994 1104.935948 1087.629732 1744.822546 1051.929215 0.406518867 1.79363223 0.764379849 1.072082413 1.434021703 1.598032425 1.050390019 1.033938136 1.658688172 1 10.03882191 -7.279261825 24.91910495 0.719745031 1.236859146 0 0.431731311 675.7517527 944824.7977 0.059332849 0.067925307 5.26E-08 7.279261825 0.517114114 IEVEK(ac)PFAIAKE ddPTM_HeLa_SAHA_4h_R1 2 IEVEKPFAIAKE 12 2 P23284 P23284 PPIB Peptidyl-prolyl cis-trans isomerase B 0 1 ; IEVEK(1)PFAIAKE;IEVEK(1)PFAIAKE 174.24 2.76E-10 3510000 808.13 2830.6 1258.63 1187.92 1991.67 2379.3 2206.4 2413 1626.29 808.05 FALSE TRUE FALSE 893.1328212 2922.313297 1430.149542 1210.913909 1839.068675 2176.570254 1958.130065 2351.278954 1614.972515 842.88899 1.059609073 3.467020369 1.696723482 1.436623237 2.181863444 2.582273918 2.323117384 2.789547594 1.915996691 1 9.719198828 -7.394151785 12.23399294 1.026311218 2.294205838 0.348915178 0.6001673 0.313875058 29.34016261 0.088972135 0.101699326 4.04E-08 7.394151785 1.26789462 IEVEKPFAIAKE ddPTM_HeLa_SAHA_4h_R1 1 IEVEKPFAIAKE 12 2 P23284 P23284 PPIB Peptidyl-prolyl cis-trans isomerase B 0 0 96.059 0.011172 1961600 938.62 753.51 648.79 802.46 871.41 1042.3 1120.8 831.66 670.66 857.17 FALSE FALSE TRUE 1037.348358 777.9242184 737.2037224 817.9927737 804.6427541 953.4901762 994.6846342 810.3873414 665.9928225 894.1267936 1.160180374 0.870037923 0.824495729 0.91485098 0.89992019 1.066392578 1.112464855 0.906344992 0.744852774 1 9.80433562 -7.259191451 24.99468966 1.075640732 0.946217158 0 0.137733802 213.3682901 2372440.018 0.01786903 0.021322845 5.51E-08 7.259191451 -0.129423574 IEVIEIMTDR ddPTM_HeLa_SAHA_4h_R1 4 IEVIEIMTDR 10 0 F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8VZ49;A0A2R8Y4L2;Q32P51;F8VYN5;H0YH80 F8W6I7 HNRNPA1;HNRNPA1L2 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed;Heterogeneous nuclear ribonucleoprotein A1-like 2" 0 0 ;;; ;;; 179.1 4.17E-11 27155400 3806.58 4049.33 3771.83 3999.33 3978.58 4135.81 4009.8 3725.313 4413.14 4069.14 FALSE FALSE TRUE 4206.97355 4180.530949 4285.83535 4076.742815 3673.74206 3783.415721 3558.606751 3630.024888 4382.428599 4244.580539 0.991139999 0.984910266 1.009719408 0.960458349 0.865513571 0.891352087 0.838388321 0.855214044 1.03247625 1 12.05140627 -5.84163278 2.917983402 0.995608858 0.860739174 0.930818835 0.018109818 0.035810921 0.617251754 0.002030235 0.004010354 1.44E-06 5.84163278 -0.134869684 IEVLDS(ph)PASK ddPTM_HeLa_SAHA_4h_R1 4 IEVLDSPASK 10 0 Q8N5I9 Q8N5I9 C12orf45 Uncharacterized protein C12orf45 1 0 IEVLDS(0.963)PAS(0.037)K;IEVLDS(0.916)PAS(0.084)K;IEVLDS(0.998)PAS(0.002)K;IEVLDS(0.976)PAS(0.024)K ;;; 166.11 0.0001457 68552000 13126.4 14726.4 11956.7 12569.9 13411.8 14340 14900.2 13518 15116.3 12740 TRUE FALSE FALSE 14507.09498 15203.54502 13586.09681 12813.20859 12384.19078 13118.15133 13223.59028 13172.22913 15011.10444 13289.28375 1.09163859 1.144045481 1.022334767 0.964176011 0.931893021 0.987122525 0.995056659 0.991191804 1.129564597 1 13.69797573 -6.444963386 5.178235372 1.053329059 0.97434226 0.538501882 0.046082968 0.188233077 8.956788818 0.007800379 0.01192585 3.59E-07 6.444963386 -0.0789868 IEVLEEELR ddPTM_HeLa_SAHA_4h_R1 1 IEVLEEELR 9 0 P15924-2;P15924-3;P15924 P15924-2 DSP Desmoplakin 0 0 134.77 0.0094051 2895400 809.34 788.95 792.34 820.37 824.2 887.07 1123.1 978.38 948.99 743.28 FALSE FALSE TRUE 894.4700946 814.5124976 900.3159689 836.2494476 761.0499741 811.4866455 996.7258322 953.3544563 942.3859013 775.3264383 1.153669023 1.050541369 1.161208911 1.078577237 0.981586512 1.046638687 1.285556358 1.229616854 1.215469839 1 9.598660051 -1 0.015129816 1.39E-10 2.464758529 0 0.100174274 5700.641906 6.727070789 438.4614555 683.0856356 0.1 1 2.464758529 IEVLPVDTGAGGYSGNSGS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 IEVLPVDTGAGGYSGNSGSPK 21 0 X6RAB3;Q92738;Q92738-2 X6RAB3 USP6NL USP6 N-terminal-like protein 1 0 IEVLPVDTGAGGYSGNS(0.003)GS(0.997)PK;IEVLPVDTGAGGYS(0.002)GNS(0.005)GS(0.993)PK ; 196.11 1.45E-15 14514400 5287.9 6347.8 6054.6 5000.5 5955.6 5697.3 6202.4 5028.3 5894.7 5792.7 TRUE FALSE FALSE 5844.105584 6553.472885 6879.689357 5097.291908 5499.283215 5211.857988 5504.489628 4899.683367 5853.678303 6042.451646 0.967174572 1.084571838 1.138559274 0.843580091 0.910107939 0.862540289 0.910969578 0.810876719 0.968758816 1 12.56091831 -6.222489651 24.99991625 1.003707019 0.872102292 0.644773845 0.059078442 333.0876727 213792.6721 0.009331137 0.015473748 5.99E-07 6.222489651 -0.131604727 IEWLESHQDADIEDFK ddPTM_HeLa_SAHA_4h_R1 2 IEWLESHQDADIEDFK 16 0 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 ; ; 201.72 3.92E-15 20774000 3600.2 3594.5 3032.8 4125.5 4353.1 5418.7 4396.9 3302.3 5742.8 4756.1 FALSE FALSE TRUE 3978.885554 3710.964158 3446.09419 4205.355018 4019.566418 4956.996275 3902.14924 3217.831948 5702.835387 4961.158747 0.802007305 0.74800351 0.69461478 0.847655806 0.810207176 0.999160988 0.786539887 0.648604915 1.149496656 1 12.27646141 -9.010640449 0.808688055 1.000502038 0.797227931 0.515598901 0.102633229 0.503809803 0.601522918 0.060947802 0.01871133 9.76E-10 9.010640449 -0.203274107 IEYDCELVPR ddPTM_HeLa_SAHA_4h_R1 1 IEYDCELVPR 10 0 Q9P258 Q9P258 RCC2 Protein RCC2 0 0 134.25 0.00016922 0 767.84 718.31 601.94 580.63 691.11 891.94 861.56 537.26 639.43 608.34 FALSE FALSE TRUE 848.6049342 741.5837153 683.9692484 591.8689333 638.1573011 815.9416941 764.6150013 523.5176671 634.9801546 634.5685145 1.337294421 1.168642469 1.07784933 0.932710842 1.005655475 1.285821271 1.204936872 0.824997861 1.000648693 1 9.30963213 -6.729915879 6.164347647 1.164482898 1.064213091 0.025738152 0.151899262 0.406739365 44.75715043 0.027579 0.038611808 1.86E-07 6.729915879 -0.100269807 IEYNDQNDGSCDVK ddPTM_HeLa_SAHA_4h_R1 2 IEYNDQNDGSCDVK 14 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 ; ; 248.36 1.03E-32 15493200 1987.61 2445.2 1994.11 2124.9 1988.81 2367.5 2228.9 2099.3 1881.76 2070.8 FALSE FALSE TRUE 2196.675939 2524.426084 2265.856926 2166.030512 1836.427807 2165.775681 1978.098306 2045.602946 1868.664679 2160.082322 1.016940844 1.168671239 1.048967858 1.002753687 0.850165657 1.002635714 0.915751351 0.947002309 0.865089566 1 11.07687058 -5.979956327 24.36428902 1.025614032 0.932373173 0.238520347 0.077262779 155.1601211 188604.9809 0.008945791 0.016214001 1.05E-06 5.979956327 -0.093240859 IEYQFFEDR ddPTM_HeLa_SAHA_4h_R1 2 IEYQFFEDR 9 0 Q9NYU2-2;Q9NYU2 Q9NYU2-2 UGGT1 UDP-glucose:glycoprotein glucosyltransferase 1 0 0 ; ; 128.6 0.013638 5074200 1124.13 1109.08 1473.79 1627.15 1320.32 1416.24 1659.21 1306.73 1590.74 1417.73 FALSE FALSE TRUE 1242.371151 1145.01492 1674.630426 1658.645841 1219.157367 1295.568384 1472.511324 1273.305739 1579.669911 1478.855279 0.840089743 0.774257587 1.132382898 1.121574143 0.824392613 0.876061643 0.995710226 0.861007671 1.068170722 1 10.53026516 -4.205871536 19.75951339 0.933723672 0.861001865 0.018523802 0.122694385 10991.26572 3906722.747 0.016826103 14.62770321 6.22E-05 4.205871536 -0.072721807 IFDIDEAEEGVK ddPTM_HeLa_SAHA_4h_R1 2 IFDIDEAEEGVK 12 0 P20042 P20042 EIF2S2 Eukaryotic translation initiation factor 2 subunit 2 0 0 ; ; 145.55 0.0029162 4316600 1826.43 1562.37 1266.95 1521.1 1490.24 2099.81 1736.45 1930.1 2131.11 1849.15 FALSE FALSE TRUE 2018.542287 1612.991813 1439.603348 1550.54309 1376.058133 1920.894375 1541.060076 1880.730837 2116.279432 1928.875906 1.04648634 0.836234103 0.746343165 0.803858395 0.713398995 0.995862082 0.798942053 0.975039831 1.09715686 1 10.91354462 -7.256156955 24.06025169 1.021951884 0.833363087 0.537686611 0.087889286 147.0129072 669610.327 0.013652031 0.01645207 5.54E-08 7.256156955 -0.188588797 IFDLGS(ph)DNEEVVAGPAPAHAK ddPTM_HeLa_SAHA_4h_R1 2 IFDLGSDNEEVVAGPAPAHAK 21 0 A0A096LNM2;Q969U6-2;Q969U6 A0A096LNM2 FBXW5 F-box/WD repeat-containing protein 5 1 0 IFDLGS(1)DNEEVVAGPAPAHAK;IFDLGS(1)DNEEVVAGPAPAHAK ; 191.2 4.40E-15 28411000 6041.7 8082 7153.8 5916.7 7099.8 7765.6 7337.7 7400.7 7320.3 7391.8 TRUE FALSE FALSE 6677.193726 8343.862103 8128.682609 6031.226284 6555.814858 7103.927192 6512.042684 7211.40081 7269.357436 7710.496673 0.865987499 1.082143273 1.054235927 0.782209829 0.850245469 0.921331983 0.84456851 0.935270595 0.942787183 1 12.91260808 -6.256505143 24.94647132 0.956342178 0.867612512 0.384741856 0.071590837 501.1360653 2533636.224 0.012645415 0.020547173 5.54E-07 6.256505143 -0.088729666 IFIGTFK ddPTM_HeLa_SAHA_4h_R1 2 IFIGTFK 7 0 J3QLE5;P14678-2;P63162;P14678;P63162-2;P14678-3;J3KRY3;S4R3P3 J3QLE5 SNRPN;SNRPB Small nuclear ribonucleoprotein-associated proteins B and B;Small nuclear ribonucleoprotein-associated protein N 0 0 ; ; 151.17 4.84E-06 20087500 5592.9 5146.2 6303.1 6369.7 6355.5 6639.6 7153.9 4632.5 5198.4 6032.3 FALSE FALSE TRUE 6181.186883 5312.940257 7162.053643 6492.994754 5868.542963 6073.868727 6348.924344 4514.007358 5162.223911 6292.381974 0.982328617 0.844344841 1.138210247 1.03188185 0.932642517 0.965273366 1.008985845 0.717376564 0.820392648 1 12.61939054 -4.258880299 24.60835066 0.989304734 0.717376442 0.407474416 0.088243325 98.78737767 949876.8646 0.009047561 0.082212377 5.51E-05 4.258880299 -0.271928292 IFINLPR ddPTM_HeLa_SAHA_4h_R1 2 IFINLPR 7 0 K7ER96;O43396 K7ER96 TXNL1 Thioredoxin-like protein 1 0 0 ; ; 118.06 0.0054184 2468200 1863.32 1685.92 2410.6 2285 2305.5 722.76 2781.8 509.73 257.21 1171.27 FALSE FALSE TRUE 2059.312547 1740.544914 2739.104014 2329.229479 2128.853088 661.1767819 2468.784543 496.6918447 255.4200547 1221.769182 1.685516853 1.424610262 2.241916112 1.906439869 1.742434758 0.541163414 2.020663624 0.406534927 0.209057536 1 10.25475604 -5.294845601 24.97812983 1.478047535 1.092574244 0.089353413 0.660131358 1159.956386 867307.9192 0.07948032 0.177733298 5.07E-06 5.294845601 -0.385473291 IFLGADAEEEIGT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 IFLGADAEEEIGTPR 15 0 P28749;P28749-2;H0YE05 P28749 RBL1 Retinoblastoma-like protein 1 1 0 IFLGADAEEEIGT(1)PR;IFLGADAEEEIGT(1)PR ; 95.981 0.010245 3752200 562.68 680.85 403.517 625.09 622.39 677.25 651.57 746.73 886.81 582.99 TRUE FALSE FALSE 621.8652641 702.9099867 458.5061953 637.1895208 574.7026127 619.5444899 578.2536288 727.6297279 880.638617 608.125552 1.022593545 1.155863266 0.753966338 1.047792711 0.94503941 1.01877727 0.950878691 1.196512341 1.448119741 1 9.248225399 -4.252555563 24.36250228 0.999084598 1.196512487 0.029206849 0.171713005 776.9875722 2130702.48 0.011964836 0.189374434 5.59E-05 4.252555563 0.197427889 IFRDGEEAGAYDGPR ddPTM_HeLa_SAHA_4h_R1 2 IFRDGEEAGAYDGPR 15 1 H7BZJ3;P30101 H7BZJ3;P30101 PDIA3 Protein disulfide-isomerase A3 0 0 ; ; 167.61 4.14E-06 30258000 3107.6 2407.7 3379.1 2595.3 3316.7 3154.1 3322.2 3362.7 1751.33 3010.4 FALSE FALSE TRUE 3434.471626 2485.71106 3839.58615 2645.535784 3062.575163 2885.352936 2948.377312 3276.687003 1739.142352 3140.193077 1.093713521 0.791579052 1.222722953 0.842475517 0.975282439 0.91884571 0.938915933 1.043466731 0.553832936 1 11.61663755 -6.195894244 24.99999581 1.034578182 0.94388922 0 0.187641616 291.4021977 111145.2753 0.015444849 0.025612382 6.37E-07 6.195894244 -0.090688961 IFREEQNGEDEDGGWR ddPTM_HeLa_SAHA_4h_R1 3 IFREEQNGEDEDGGWR 16 1 Q6Y7W6;I1E4Y6;Q6Y7W6-4;Q6Y7W6-5;Q6Y7W6-3;E7ESB6;C9JHW1;C9JH78;C9IYH5 Q6Y7W6 GIGYF2 PERQ amino acid-rich with GYF domain-containing protein 2 0 0 ;; ;; 191.63 1.32E-11 14838700 1824.75 1759.17 1925.99 2184.97 2293.29 2675.17 1963.3 1990.01 1977.16 2159.54 FALSE FALSE TRUE 2016.685577 1816.168262 2188.453887 2227.263254 2117.578616 2447.230466 1742.384317 1939.108426 1963.400783 2252.648338 0.895250956 0.806236922 0.971502675 0.988731004 0.940039588 1.086379274 0.77348261 0.860812757 0.871596667 1 11.1374064 -7.531299595 0.010984599 1.872486167 4.60E-07 0 0.092467502 1781.597758 16.52343039 1413.143486 1401.717108 2.94E-08 7.531299595 -1.872485707 IFTSIGEDYDER ddPTM_HeLa_SAHA_4h_R1 6 IFTSIGEDYDER 12 0 C9JZ20;E7ESE2;E9PCW0;C9JW96;P35232-2;P35232;D6RBK0 C9JZ20 PHB Prohibitin 0 0 ;;;;; ;;;;; 251.64 4.90E-33 105448600 5350.94 5687.58 4669.63 5362.06 6456.41 6686.06 6856.23 6160.12 6181.8 5780.32 FALSE FALSE TRUE 5913.77642 5871.861324 5305.982858 5465.850425 5961.721261 6116.370073 6084.748956 6002.55305 6138.78035 6029.537883 0.980800939 0.973849313 0.879998262 0.906512328 0.9887526 1.014401135 1.009156767 0.99552456 1.018117884 1 12.55783172 -5.520728997 24.99719846 0.973692184 1.005796497 0.170789919 0.040247771 154.9373329 1801589.196 0.006545494 0.013270294 3.01E-06 5.520728997 0.032104313 IFTT(ph)PLTPSQYYSGSK ddPTM_HeLa_SAHA_4h_R1 1 IFTTPLTPSQYYSGSK 16 0 P49454 P49454 CENPF Centromere protein F 1 0 IFT(0.002)T(0.997)PLTPSQYYSGSK 152.34 4.01E-12 0 440.64 468.31 406.52 392.85 554.63 481.15 482.88 405.91 476.91 473.33 TRUE FALSE FALSE 486.9885369 483.4835513 461.9184285 400.4541798 512.1343692 440.1533131 428.5450715 395.52741 473.5911445 493.7375727 0.986330723 0.979231839 0.935554542 0.811066854 1.037260272 0.891472186 0.867961231 0.801088335 0.95919608 1 8.947600626 -1.293986082 0.240413101 1.006293324 4.45E-16 0.440937141 0.057376983 24.11370325 0.337798138 0.032760713 9.520549384 0.050817573 1.293986082 -1.006293324 IFTTPLT(ph)PSQYYSGSK ddPTM_HeLa_SAHA_4h_R1 1 IFTTPLTPSQYYSGSK 16 0 P49454 P49454 CENPF Centromere protein F 1 0 IFT(0.022)T(0.022)PLT(0.475)PS(0.475)QYYS(0.005)GSK 155.2 3.13E-12 0 178.45 434.38 257.21 452.77 445.41 514.63 432.51 240.8 522.06 281.77 TRUE FALSE FALSE 197.2201898 448.454197 292.2612393 461.5340181 411.282782 470.7806288 383.8428365 234.6406847 518.426942 293.9184836 0.671003019 1.525777459 0.994361551 1.570278985 1.399309009 1.601738764 1.305949975 0.798318914 1.763846001 1 8.199272278 -7.263378661 24.99668434 0.844640312 1.325340088 0 0.383267226 120.0214107 1547031.783 0.043517574 0.051106684 5.45E-08 7.263378661 0.480699776 IFVFEPPPGVK ddPTM_HeLa_SAHA_4h_R1 2 IFVFEPPPGVK 11 0 Q14204;A0A2R8Y706;A0A2R8Y5T0;A0A2R8Y542 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 ; ; 120.12 0.0054827 525910 271.319 351.09 353.78 152.94 374.79 324.87 377.91 269.24 281.061 300.76 FALSE FALSE TRUE 299.8575773 362.4655464 401.991296 155.9003749 346.0736712 297.1892483 335.3865722 262.3532307 279.1050736 313.7272355 0.95579071 1.155352502 1.281340128 0.49692968 1.10310369 0.947285459 1.069038752 0.836246271 0.889642473 1 8.293366969 IFVGGLNPEATEEK ddPTM_HeLa_SAHA_4h_R1 2 IFVGGLNPEATEEK 14 0 Q99729-3;D6R9P3;D6RD18;D6RBZ0;Q99729-2 Q99729-3 HNRNPAB Heterogeneous nuclear ribonucleoprotein A/B 0 0 ; ; 196.27 3.80E-23 2635100 973.71 1014.87 1239.8 983.55 1556.94 1594.78 1304.34 1125.87 1405.43 1242.03 FALSE FALSE TRUE 1076.129285 1047.752454 1408.753487 1002.588032 1437.647594 1458.895772 1157.57223 1097.071876 1395.649498 1295.579992 0.830615857 0.808713056 1.087353538 0.773852667 1.1096556 1.126056115 0.893478008 0.846780502 1.077239157 1 10.33938238 -5.749914462 24.9974122 0.913685612 0.996245999 0.048580576 0.128236972 441.3830601 957348.1689 0.01802922 0.03581553 1.78E-06 5.749914462 0.082560387 IFVGGLS(ph)PDTPEEK ddPTM_HeLa_SAHA_4h_R1 2 IFVGGLSPDTPEEK 14 0 Q14103-3;Q14103;H0YA96;D6RAF8;H0Y8G5;Q14103-4;Q14103-2;D6RF44 Q14103-3 HNRNPD Heterogeneous nuclear ribonucleoprotein D0 1 0 IFVGGLS(0.988)PDT(0.012)PEEK;IFVGGLS(0.5)PDT(0.5)PEEK ; 181.67 4.06E-07 21183000 3254.5 3627.7 3321.7 3592.9 3445.9 4543 4513.9 4517.1 4201.7 3845.1 TRUE FALSE FALSE 3596.823242 3745.23986 3774.363977 3662.445775 3181.875886 4155.910842 4005.984092 4401.559123 4172.460028 4010.881078 0.896766364 0.933769859 0.941031136 0.913127491 0.793310952 1.036159078 0.998779075 1.097404544 1.040285151 1 11.96970348 -5.054894689 24.99991017 0.935239084 1.040436966 0.386137575 0.065082802 234.2888118 106698.6013 0.008923412 0.02275049 8.81E-06 5.054894689 0.105197883 IFVGGLSPDTPEEK ddPTM_HeLa_SAHA_4h_R1 1 IFVGGLSPDTPEEK 14 0 Q14103-3;Q14103;H0YA96;D6RAF8;H0Y8G5;Q14103-4;Q14103-2;D6RF44 Q14103-3 HNRNPD Heterogeneous nuclear ribonucleoprotein D0 0 0 197.73 3.30E-23 2139300 1401.6 1411.3 1474.9 1450.2 1794.9 2028.7 1754 1469.7 1254.8 1743 FALSE FALSE TRUE 1549.026719 1457.027046 1675.891691 1478.270718 1657.37515 1855.843347 1556.635304 1432.107202 1246.067745 1818.14926 0.851979952 0.801379226 0.921756936 0.813063454 0.911572656 1.020732119 0.856164748 0.787673066 0.685349532 1 10.82825493 -9.257560881 0.981337298 1.000233996 0.873342479 0 0.117280218 0.510683595 0.879967892 0.045210399 0.012281646 5.53E-10 9.257560881 -0.126891517 IFYPEIEEVQALDDT(ph)ERGSGGFGSTGKN ddPTM_HeLa_SAHA_4h_R1 2 IFYPEIEEVQALDDTERGSGGFGSTGKN 28 2 P33316-2;A0A0C4DGL3;H0YNW5;P33316 P33316-2;H0YNW5;P33316 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 1 0 IFYPEIEEVQALDDT(0.42)ERGS(0.331)GGFGS(0.2)T(0.049)GKN;IFYPEIEEVQALDDT(0.862)ERGS(0.138)GGFGSTGKN ; 123.74 5.40E-08 64564000 2922.2 3149.5 2868 2805.7 3177.4 3483.9 3623.7 3198.6 3572.5 3564.1 TRUE FALSE FALSE 3229.570404 3251.545866 3258.836104 2860.008381 2933.948298 3187.05212 3215.951739 3116.784444 3547.638682 3717.765793 0.868685814 0.874596746 0.876557665 0.769281482 0.789169749 0.857249299 0.865022682 0.838348787 0.954239422 1 11.86022017 -8.816740369 0.447591955 1.023910633 0.828671172 0.717392393 0.034421129 0.521625546 0.179705886 0.045596861 0.011545996 1.52E-09 8.816740369 -0.19523946 IFYPEIEEVQALDDTER ddPTM_HeLa_SAHA_4h_R1 3 IFYPEIEEVQALDDTER 17 0 P33316-2;A0A0C4DGL3;H0YKC5;H0YNW5;P33316 P33316-2;H0YNW5;P33316 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 0 0 ;; ;; 278.93 1.22E-71 45096100 5665.2 6066.91 5504.58 6139.62 6866.77 7096.5 7303.3 6143.4 7217.2 6627.13 FALSE FALSE TRUE 6261.091729 6263.481865 6254.715496 6258.461223 6340.639566 6491.838276 6481.513463 5986.260724 7166.974918 6912.858007 0.905716814 0.906062566 0.904794441 0.90533629 0.917224042 0.939096141 0.937602574 0.865960319 1.036760036 1 12.75506658 -9.19083963 0.78532813 1.004146294 0.911355686 0.764886253 0.023291873 0.282636547 0.293194701 0.016367262 0.003915496 6.44E-10 9.19083963 -0.092790608 IFYQFLYNNNTR ddPTM_HeLa_SAHA_4h_R1 1 IFYQFLYNNNTR 12 0 J3QQW9;Q15022 J3QQW9 SUZ12 Polycomb protein SUZ12 0 0 103.31 0.017012 243130 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 IGAEVYHNLK ddPTM_HeLa_SAHA_4h_R1 2 IGAEVYHNLK 10 0 P06733;A0A2R8Y6G6;P06733-2;K7EM90 P06733 ENO1 Alpha-enolase;Enolase 0 0 ; ; 137.05 0.0001216 55659000 14894.6 14354.8 20275.8 17155.3 17023.8 9424.6 19143.6 8663.4 5201.2 9054.2 FALSE FALSE TRUE 16461.28237 14819.90494 23038.88043 17487.36564 15719.44012 8621.571059 16989.51174 8441.802772 5165.004426 9444.570872 1.742935978 1.5691454 2.439378215 1.851578634 1.664389027 0.91286001 1.798865398 0.893825975 0.546875501 1 13.20526953 -9.258725547 0.992752402 1.000819709 1.632066608 0.321835879 0.452790588 0.646561221 1.144519075 0.286014063 0.078447835 5.51E-10 9.258725547 0.631246899 IGAEVYHNLK(ac)NVIK ddPTM_HeLa_SAHA_4h_R1 1 IGAEVYHNLKNVIK 14 1 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 1 IGAEVYHNLK(1)NVIK 105 0.012677 899730 493.46 636.87 682.15 607.18 618.24 467.91 598.85 456.42 329.18 451.19 FALSE TRUE FALSE 545.3643869 657.5050059 775.1098495 618.9328469 570.8705848 428.0414356 531.4658219 444.7454373 326.8892096 470.643009 1.158764449 1.397035531 1.646916739 1.315079232 1.212958811 0.909482192 1.129233435 0.944974065 0.694558728 1 8.878489355 -5.274417645 24.48531185 1.171783897 1.008030247 0.12583311 0.241768391 1086.74143 2050290.027 0.033373858 0.075071797 5.32E-06 5.274417645 -0.16375365 IGDELDSNMELQR ddPTM_HeLa_SAHA_4h_R1 1 IGDELDSNMELQR 13 0 K4JQN1;Q07812-5;Q07812-7;Q07812-8;Q07812;Q07812-2 K4JQN1 BAX Apoptosis regulator BAX 0 0 124.1 0.0043272 2286000 335.84 234.48 140.61 248.29 351.01 303.71 352.74 243.55 303.57 301.39 FALSE FALSE TRUE 371.1651921 242.0773058 159.7715985 253.096012 324.1156896 277.8321994 313.0487668 237.3203437 301.4574317 314.3843979 1.180609453 0.770004197 0.508204604 0.805052712 1.030953482 0.883734057 0.995751599 0.754873159 0.958881655 1 8.296385812 -7.256092582 24.96638278 1.085287798 0.825746838 0.320462752 0.147004865 344.9595681 1610758.164 0.026458103 0.031908547 5.55E-08 7.256092582 -0.25954096 IGEEQS(ph)AEDAEDGPPELLFIHGGHTAK ddPTM_HeLa_SAHA_4h_R1 4 IGEEQSAEDAEDGPPELLFIHGGHTAK 27 0 E9PC52;Q16576;Q16576-2;Q5JNZ6 E9PC52 RBBP7 Histone-binding protein RBBP7 1 0 IGEEQS(1)AEDAEDGPPELLFIHGGHTAK;IGEEQS(1)AEDAEDGPPELLFIHGGHTAK;IGEEQS(1)AEDAEDGPPELLFIHGGHTAK;IGEEQS(1)AEDAEDGPPELLFIHGGHTAK ;;; 142.47 5.15E-10 45226000 7319.2 7526.05 8400.38 8695.29 9854.5 5427.04 9977.2 7250.63 9753.54 8674.93 TRUE FALSE FALSE 8089.067038 7769.898958 9545.140039 8863.599912 9099.450339 4964.62566 8854.539197 7065.169383 9685.664321 9048.948686 0.893923407 0.858652118 1.054834144 0.979517093 1.005580941 0.548641155 0.978515793 0.7807724 1.070363493 1 13.14353447 IGEEQSAEDAEDGPPELLFIHGGHTAK ddPTM_HeLa_SAHA_4h_R1 2 IGEEQSAEDAEDGPPELLFIHGGHTAK 27 0 E9PC52;Q16576;Q16576-2;Q5JNZ6 E9PC52 RBBP7 Histone-binding protein RBBP7 0 0 ; ; 168.25 7.83E-12 12717600 2590.1 2321.17 2017.6 2399 2126.28 1987.37 2492.7 2352.3 2792.8 2520.5 FALSE FALSE TRUE 2862.538602 2396.377431 2292.548021 2445.436114 1963.364886 1818.034895 2212.214836 2292.131572 2773.364677 2629.17109 1.088760869 0.911457394 0.871966084 0.930116767 0.746761933 0.69148596 0.841411517 0.871807689 1.054843744 1 11.36039231 -6.692360842 1.236708194 1.041310578 0.798979355 0.695936485 0.065850543 0.182091822 0.559409952 0.013213132 0.020599609 2.03E-07 6.692360842 -0.242331223 IGEGT(ph)Y(ph)GVVYK ddPTM_HeLa_SAHA_4h_R1 1 IGEGTYGVVYK 11 0 E5RIU6;A0A087WZZ9;A0A024QZP7;P06493-2;P06493;G3V317;K7ELV5;E7ESI2;P24941-2;G3V5T9;P24941;Q00526 E5RIU6;G3V5T9 CDK1;CDC2;CDK2;CDK3 Cyclin-dependent kinase 1;Cyclin-dependent kinase 2;Cyclin-dependent kinase 3 2 0 IGEGT(1)Y(1)GVVYK 124.6 0.012364 9527300 1098.9 1315.2 1243.7 1252.2 1263.2 1196.7 1515.7 1800.7 913.25 1089.8 TRUE FALSE FALSE 1214.487344 1357.813343 1413.184959 1276.438142 1166.413889 1094.734428 1345.149447 1754.640701 906.8946189 1136.786611 1.068351203 1.194431153 1.243140045 1.122847621 1.026062303 0.963007847 1.183291071 1.543509295 0.79777032 1 10.15074575 -4.312720534 3.079755278 1.061948682 1.591747453 0.608391155 0.118423592 0.132616067 1.957322062 0.013392283 0.158644398 4.87E-05 4.312720534 0.529798772 IGEGT(ph)YGVVYK ddPTM_HeLa_SAHA_4h_R1 2 IGEGTYGVVYK 11 0 E5RIU6;A0A087WZZ9;A0A024QZP7;P06493-2;P06493;G3V317;K7ELV5;E7ESI2;P24941-2;G3V5T9;P24941;Q00526 E5RIU6;G3V5T9 CDK1;CDC2;CDK2;CDK3 Cyclin-dependent kinase 1;Cyclin-dependent kinase 2;Cyclin-dependent kinase 3 1 0 IGEGT(1)YGVVYK;IGEGT(0.999)Y(0.001)GVVYK ; 125.03 0.0030886 15477000 2438.36 1823.55 2114.01 1818.45 2011.03 1521.78 3521.5 3261.4 1258.38 1536.73 TRUE FALSE FALSE 2694.837892 1882.634216 2402.096274 1853.648729 1856.945316 1392.115783 3125.251552 3177.97811 1249.622831 1602.985951 1.681136314 1.174454595 1.498513616 1.156372411 1.15842894 0.868451643 1.949643757 1.982536471 0.779559441 1 10.64654607 -9.562180043 1.330380591 0.999534271 1.442374046 0.262063839 0.351036921 0.640273968 2.027357948 0.254528333 0.059637115 2.74E-10 9.562180043 0.442839775 IGEGTY(ph)GVVYK ddPTM_HeLa_SAHA_4h_R1 6 IGEGTYGVVYK 11 0 E5RIU6;A0A087WZZ9;A0A024QZP7;P06493-2;P06493;G3V317;K7ELV5;E7ESI2;P24941-2;G3V5T9;P24941;Q00526 E5RIU6;G3V5T9 CDK1;CDC2;CDK2;CDK3 Cyclin-dependent kinase 1;Cyclin-dependent kinase 2;Cyclin-dependent kinase 3 1 0 IGEGT(0.011)Y(0.989)GVVYK;IGEGT(0.151)Y(0.849)GVVYK;IGEGT(0.027)Y(0.965)GVVY(0.008)K;IGEGT(0.038)Y(0.962)GVVYK;IGEGT(0.002)Y(0.998)GVVYK;IGEGT(0.108)Y(0.892)GVVYK ;;;;; 172.59 0.00018641 4171216000 20416.5 19007.5 17163.5 17088 16940.87 19331.4 19460.7 17035.7 17069.3 17915.3 TRUE FALSE FALSE 22564.00114 19623.35547 19502.4524 17418.76295 15642.8642 17684.25596 17270.93082 16599.95146 16950.51335 18687.71626 1.207424216 1.050067071 1.043597416 0.93209693 0.837066658 0.946303749 0.924186272 0.888281437 0.907040385 1 14.18980265 -6.367764931 2.201663801 1.096934259 0.901799295 0.343112115 0.081605003 0.178656326 1.693972124 0.01309532 0.021612045 4.29E-07 6.367764931 -0.195134964 IGEGTYGVVYK ddPTM_HeLa_SAHA_4h_R1 2 IGEGTYGVVYK 11 0 E5RIU6;A0A087WZZ9;A0A024QZP7;P06493-2;P06493;G3V317;K7ELV5;E7ESI2;P24941-2;G3V5T9;P24941;Q00526 E5RIU6;G3V5T9 CDK1;CDC2;CDK2;CDK3 Cyclin-dependent kinase 1;Cyclin-dependent kinase 2;Cyclin-dependent kinase 3 0 0 ; ; 147.95 0.0036121 46117000 4628.2 3838.9 4009.4 4080.7 4316.4 4836.5 4156.4 4421.7 4683.3 4321.6 FALSE FALSE TRUE 5115.015311 3963.282879 4555.780152 4159.687849 3985.678365 4424.402991 3688.710933 4308.599317 4650.708534 4507.925325 1.134671704 0.879181129 1.01061571 0.922749946 0.884149154 0.981472112 0.818272413 0.955783205 1.031673819 1 12.1382479 -7.254424778 24.99368307 1.063594972 0.922074242 0.504511197 0.0605579 341.2184199 1215794.177 0.011364384 0.013756569 5.57E-08 7.254424778 -0.141520729 IGEHMEEHGIK ddPTM_HeLa_SAHA_4h_R1 6 IGEHMEEHGIK 11 0 Q16881;A0A087WSY9;A0A087WSW9;E9PIR7;A0A182DWI3;Q16881-5;F8W809;Q16881-2;Q16881-4;Q16881-3;Q16881-6;E2QRB9;Q16881-7 Q16881 TXNRD1 "Thioredoxin reductase 1, cytoplasmic" 0 0 ;;;;; ;;;;; 134.84 0.00046309 43967600 25065.77 23619.34 23534.9 23565.18 25848 11318.4 27263.9 21560.28 25326.19 25461.9 FALSE FALSE TRUE 27702.30269 24384.62211 26742.11361 24021.31813 23867.53182 10354.00864 24196.09422 21008.79926 25149.94298 26559.68712 1.043020672 0.918106528 1.006868548 0.904427753 0.898637537 0.389839255 0.911008255 0.791003266 0.946921659 1 14.69695053 -5.64824303 2.811766677 1.006120042 0.712824551 0.425768428 0.134081338 0.158299679 2.519987911 0.018534244 0.040235044 2.25E-06 5.64824303 -0.293295491 IGEHTPSALAIMENANVLAR ddPTM_HeLa_SAHA_4h_R1 2 IGEHTPSALAIMENANVLAR 20 0 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BR04;H3BU78 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 ; ; 195.46 2.03E-28 5495400 647.04 764.41 757.68 689.27 958.45 962.63 937.84 866.72 1044.52 1052.1 FALSE FALSE TRUE 715.0986359 789.1773855 860.9326846 702.6118176 885.0137681 880.6085084 832.3117749 844.5505574 1037.2511 1097.46118 0.651593559 0.719093668 0.784476663 0.640215645 0.806419201 0.802405155 0.758397463 0.769549368 0.945136939 1 10.09995419 -9.408514239 1.102027521 1.001937789 0.736002243 0.723484007 0.056783347 0.207694313 0.445944279 0.042928966 0.010574062 3.90E-10 9.408514239 -0.265935546 IGEK(ac)TNSVEESKEGNER ddPTM_HeLa_SAHA_4h_R1 1 IGEKTNSVEESKEGNER 17 2 Q5SZG2;Q8TAK5 Q5SZG2 GABPB2 GA-binding protein subunit beta-2 0 1 IGEK(1)TNSVEESKEGNER 99.238 0.0039521 1802100 323.28 251.94 376.8 702.52 406.96 699.12 608.83 651.96 456.79 596.89 FALSE TRUE FALSE 357.2840737 260.1030213 428.1483417 716.1182905 375.7788127 639.5510429 540.322846 635.2838072 453.6111612 622.624849 0.57383523 0.417752394 0.687650585 1.150160151 0.603539697 1.027185221 0.867814458 1.020331598 0.728546511 1 9.282219346 IGELGAPEVWGLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 IGELGAPEVWGLSPK 15 0 A0A494C050;Q8N5F7 A0A494C050 NKAP NF-kappa-B-activating protein 1 0 IGELGAPEVWGLS(1)PK;IGELGAPEVWGLS(1)PK ; 136.34 0.00019523 769100000 1553.69 1859.93 1581.08 1910.52 1872.96 2215.22 1767.44 1673.51 2730 1649.23 TRUE FALSE FALSE 1717.114243 1920.192952 1796.541348 1947.500877 1729.454209 2026.470794 1568.563 1630.704037 2711.001708 1720.336376 0.998127033 1.116172964 1.044296553 1.13204656 1.005300029 1.177950325 0.911776918 0.947898364 1.575855597 1 10.74847497 -1.397678201 11.31257186 1.021252423 0.005172003 0 0.193018607 0 0 0.010467786 0 0.040024121 1.397678201 -1.01608042 IGFPS(ph)TSPAK ddPTM_HeLa_SAHA_4h_R1 1 IGFPSTSPAK 10 0 Q9UDT6-2;Q9UDT6 Q9UDT6-2 CLIP2 CAP-Gly domain-containing linker protein 2 1 0 IGFPS(0.4)T(0.4)S(0.2)PAK 109.16 0.0059168 25958000 3004.9 2803.4 4031.6 3416.9 3651.5 2535.7 3937.7 2379.8 1409.1 2527.4 TRUE FALSE FALSE 3320.969169 2894.231999 4581.005452 3483.03904 3371.722859 2319.644095 3494.619633 2318.928162 1399.293958 2636.368583 1.259675597 1.097810078 1.737619498 1.321150261 1.278926961 0.879863351 1.325542891 0.87959179 0.530765678 1 11.36433637 -4.24166685 22.70503093 1.18187116 0.879590788 0.066572107 0.303259014 2038.864154 2341119.387 0.032359862 1.39881873 5.73E-05 4.24166685 -0.302280372 IGFPSTS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 1 IGFPSTSPAK 10 0 Q9UDT6-2;Q9UDT6 Q9UDT6-2 CLIP2 CAP-Gly domain-containing linker protein 2 1 0 IGFPS(0.079)T(0.079)S(0.842)PAK 128.51 0.0018561 30038000 5454.5 5651.6 6597 6641.6 7008.6 5444.4 7076.8 4253.3 2175.2 3769.3 TRUE FALSE FALSE 6028.229336 5834.715548 7496.004804 6770.157772 6471.602582 4980.506491 6280.499839 4144.506745 2160.062606 3931.81297 1.533193309 1.483975864 1.906500859 1.721892121 1.645958908 1.266720093 1.597354678 1.054095598 0.549380813 1 11.94097898 -9.019692129 0.799244006 0.996945844 1.541611176 0.512361807 0.270414684 0.471853402 0.546654765 0.152824903 0.045930927 9.56E-10 9.019692129 0.544665332 IGFPSTT(ph)PAK ddPTM_HeLa_SAHA_4h_R1 2 IGFPSTTPAK 10 0 F5H1T5;F5H6A0;J3KP58;P30622-2;P30622-1;P30622;F5H0N7 F5H1T5 CLIP1 CAP-Gly domain-containing linker protein 1 1 0 IGFPS(0.009)T(0.052)T(0.939)PAK;IGFPS(0.015)T(0.057)T(0.929)PAK ; 117.71 0.0059408 44591000 11347.7 9805.4 9822.6 11150.9 13980.8 12519.3 12479.3 12949 11803.9 10910.7 TRUE FALSE FALSE 12541.30315 10123.10139 11161.17277 11366.74179 12909.59412 11452.58521 11075.09632 12617.78333 11721.7557 11381.11367 1.10193989 0.889464923 0.980674923 0.998737217 1.134299726 1.006279837 0.973111827 1.108659811 1.029930465 1 13.47435412 -9.979560608 2.361625641 0.999436309 1.037941558 0 0.071601613 1.07131429 10.84884406 0.060703861 0.011069013 1.05E-10 9.979560608 0.038505249 IGFPWSEIR ddPTM_HeLa_SAHA_4h_R1 2 IGFPWSEIR 9 0 E7EQR4;P15311;A0A2R8Y7M3;A0A2R8Y5S7;P35241;P35241-5;P35241-4;P26038 E7EQR4;A0A2R8Y7M3;P26038 EZR;RDX;MSN Ezrin;Radixin;Moesin 0 0 ; ; 146.35 0.00019202 1602340 724.08 814.05 944.93 591.9 1052.43 386.27 766.18 408.22 214.43 325.73 FALSE FALSE TRUE 800.2420566 840.4257541 1073.700139 603.3570804 971.7930408 353.3576229 679.9674099 397.7783235 212.9377642 339.7738144 2.355219922 2.473485944 3.160043811 1.775760976 2.860117524 1.039978974 2.001235472 1.170715066 0.626704458 1 8.408430861 IGGDAGTS(ph)LNSNDYGYGGQK ddPTM_HeLa_SAHA_4h_R1 1 IGGDAGTSLNSNDYGYGGQK 20 0 Q96AE4;E9PEB5;Q96AE4-2;C9JSZ1 Q96AE4 FUBP1 Far upstream element-binding protein 1 1 0 IGGDAGT(0.04)S(0.96)LNSNDYGYGGQK 160.64 2.38E-06 4379600 914.77 766.3 830.89 740.11 981.19 1072.7 1203.7 1114.7 985.63 1053.4 TRUE FALSE FALSE 1010.989706 791.1286228 944.1193621 754.4358993 906.0114342 981.2999252 1068.256508 1086.187588 978.7709206 1098.817229 0.920070853 0.719981997 0.859214196 0.68658907 0.824533335 0.893051091 0.972187621 0.988506149 0.890749521 1 10.10173572 -7.750763856 2.107359462 0.973191669 0.848635494 0.122422979 0.095019547 0.300463315 2.784813924 0.01969944 0.019428351 1.78E-08 7.750763856 -0.124556175 IGGIFAFK ddPTM_HeLa_SAHA_4h_R1 1 IGGIFAFK 8 0 P22307-4;P22307-7;P22307-8;P22307;H0YF61;P22307-6;P22307-2 P22307-4 SCP2 Non-specific lipid-transfer protein 0 0 129.96 0.0010384 934020 1232.2 927.51 1828.7 1098.8 1237.9 1117.4 1390.3 555.24 289.58 783.28 FALSE FALSE TRUE 1361.80845 957.5619326 2077.905713 1120.068863 1143.052369 1022.191234 1233.859785 541.0377648 287.5647892 817.0510341 1.666736094 1.171973222 2.543177385 1.370867689 1.398997519 1.251073912 1.510137964 0.662183563 0.351954501 1 9.674282384 -4.256337769 23.48112835 1.407933715 0.662182806 0.13428571 0.522440501 285.9436443 1316001.349 0.05937198 0.649320932 5.54E-05 4.256337769 -0.745750909 IGGIGTVPVGR ddPTM_HeLa_SAHA_4h_R1 6 IGGIGTVPVGR 11 0 Q5VTE0;P68104;A0A087WVQ9;A0A2U3TZH3;Q05639 Q5VTE0;A0A2U3TZH3 EEF1A1P5;EEF1A1;EEF1A2 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha 2 0 0 ;;;;; ;;;;; 146.79 0.00034114 123656700 8894.91 8640.68 8121.88 9267.57 9225.64 9811.84 9614.5 10082.28 8965.53 9276.17 FALSE FALSE TRUE 9830.517445 8920.643701 9228.687509 9446.957218 8518.773456 8975.816032 8532.651156 9824.389877 8903.138147 9676.111085 1.015957481 0.921924482 0.953759979 0.976317566 0.880392276 0.927626394 0.881826498 1.015324213 0.92011533 1 13.24021162 -7.263311414 24.97676598 1.007535478 0.934286035 0.04928076 0.047261788 105.3078358 1405017.988 0.006084661 0.00715177 5.45E-08 7.263311414 -0.073249443 IGGNEGIDVPIPR ddPTM_HeLa_SAHA_4h_R1 1 IGGNEGIDVPIPR 13 0 Q96AE4;E9PEB5;Q96AE4-2 Q96AE4 FUBP1 Far upstream element-binding protein 1 0 0 112.84 0.0022099 0 1027.9 1131.6 1125 1264.7 1174.1 1359.8 1260.5 1244.7 1157.3 1082.3 FALSE FALSE TRUE 1136.019238 1168.264582 1278.309141 1289.180097 1084.140712 1243.93739 1118.665223 1212.862376 1149.246255 1128.96325 1.006249972 1.03481188 1.132285875 1.141915025 0.960297611 1.101840463 0.990878333 1.074315197 1.017966046 1 10.14078281 -7.000266657 24.99997054 1.003876612 1.065276113 0.196822726 0.053438915 10.83887142 1016322.413 0.008358414 0.010920047 9.99E-08 7.000266657 0.0613995 IGHPAPNFK ddPTM_HeLa_SAHA_4h_R1 2 IGHPAPNFK 9 0 Q06830;A0A0A0MSI0;A0A0A0MRQ5 Q06830 PRDX1 Peroxiredoxin-1 0 0 ; ; 82.241 0.014346 14514200 15226.9 14930.6 14843.3 15697 17040.1 1753.26 18252.8 15141.5 13939.6 15612.3 FALSE FALSE TRUE 16828.53521 15414.36124 16866.06762 16000.83813 15734.49122 1603.872384 16198.94691 14754.20235 13842.59319 16285.42266 1.033349613 0.946512815 1.035654277 0.982525199 0.966170271 0.098485156 0.99468999 0.905976017 0.849999013 1 13.99129354 -5.48913113 24.97236557 1.008504734 0.671399897 0.269216705 0.227781131 521.5409988 385926.508 0.029536659 0.066007339 3.24E-06 5.48913113 -0.337104837 IGIEIIK ddPTM_HeLa_SAHA_4h_R1 2 IGIEIIK 7 0 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ; ; 105.39 0.017409 14007200 5475.4 11534.2 7182.1 6575.9 10370.3 8968.6 10166.5 6494 12307 9570.2 FALSE FALSE TRUE 6051.327694 11907.91565 8160.839185 6703.186053 9575.729854 8204.424824 9022.538663 6327.892883 12221.35458 9982.818157 0.606174289 1.192841086 0.817488514 0.671472319 0.959221104 0.82185458 0.903806773 0.633878408 1.224238927 1 13.28523143 -4.249619386 22.88033753 0.841234463 0.633877995 0.060095711 0.199593138 1017.778317 1970020.029 0.025099639 0.496474061 5.63E-05 4.249619386 -0.207356469 IGIEIIK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 IGIEIIKR 8 1 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 1 ; IGIEIIK(1)R;IGIEIIK(1)R 117.04 0.0013102 5643900 559.7 2457.5 1584.23 1039.32 2602.9 1449.91 2538 1421.51 1663.86 1027.09 FALSE TRUE FALSE 618.571814 2537.124612 1800.120614 1059.437541 2403.466364 1326.369511 2252.41756 1385.149833 1652.281063 1071.372876 0.577363706 2.368106071 1.680199913 0.988859775 2.243351887 1.238009231 2.102365675 1.292873717 1.542209159 1 10.06524496 -7.280909884 24.98347879 0.80042173 1.692080232 0.235407024 0.492878019 478.733199 614282.5594 0.070437109 0.080609469 5.24E-08 7.280909884 0.891658502 IGITNHDEYSLVR ddPTM_HeLa_SAHA_4h_R1 2 IGITNHDEYSLVR 13 0 Q9Y490 Q9Y490 TLN1 Talin-1 0 0 ; ; 113.07 0.00045249 4859600 2794.3 2718.1 2319.7 2930.8 3515.6 3370.5 3687 2863.1 2978.1 3250 FALSE FALSE TRUE 3088.217295 2806.168223 2635.816636 2987.529872 3246.235488 3083.314438 3272.129056 2789.866048 2957.37516 3390.123405 0.910945392 0.827748105 0.777498728 0.881245169 0.957556732 0.909499174 0.965194674 0.822939378 0.872350297 1 11.72712208 -8.491144626 0.966770394 0.98908651 0.883606531 0 0.067319065 0.407658255 0.781496295 0.021861592 0.012464713 3.23E-09 8.491144626 -0.105479978 IGIVGLPNVGK ddPTM_HeLa_SAHA_4h_R1 1 IGIVGLPNVGK 11 0 J3KQ32;Q9NTK5;Q9NTK5-3;C9JTK6 J3KQ32 OLA1 Obg-like ATPase 1 0 0 114.89 0.0020177 0 330.59 360.05 330.43 414.11 436.08 348.07 476.78 287.74 326.24 472.7 FALSE FALSE TRUE 365.362973 371.7158562 375.4592796 422.1256979 402.6676446 318.4124778 423.1314596 280.3800274 323.9696693 493.0804103 0.740980508 0.75386458 0.761456492 0.856099105 0.816636873 0.645761769 0.858138857 0.568629419 0.657032124 1 8.945679127 -9.371747098 0.5956129 1.047695769 0.75055016 0 0.136779282 0.729847926 0.349650254 0.12161911 0.017990527 4.25E-10 9.371747098 -0.297145609 IGK(ac)TLPSEK ddPTM_HeLa_SAHA_4h_R1 1 IGKTLPSEK 9 1 Q14966-3;Q14966;Q14966-5;A0A096LNS4 Q14966-3 ZNF638 Zinc finger protein 638 0 1 IGK(1)TLPSEK 121.5 0.0026608 2989000 1948.3 1453.2 1430.6 1856.2 2180.9 2385.7 2212.6 3118.8 1706.6 1499.1 FALSE TRUE FALSE 2153.231133 1500.284633 1625.554718 1892.129435 2013.799913 2182.424938 1963.632425 3039.025612 1694.723632 1563.733537 1.376980848 0.959424734 1.039534344 1.210007581 1.287815261 1.395650145 1.255733396 1.943442114 1.083767529 1 10.61077898 -1.095692902 0.835758529 1.162256279 199.9999924 0.737588333 0.139336138 242.5105568 0.814071512 0.02679727 91434.47775 0.080224515 1.095692902 198.8377361 IGLIQFCLSAPK ddPTM_HeLa_SAHA_4h_R1 2 IGLIQFCLSAPK 12 0 P50991-2;P50991 P50991-2 CCT4 T-complex protein 1 subunit delta 0 0 ; ; 164.64 3.28E-07 1105590 343.01 457.59 1194.7 508.25 515.91 177.28 868.86 166.02 0 330.338 FALSE FALSE TRUE 379.0893656 472.4162162 1357.507494 518.0879137 476.3810873 162.1747466 771.0935861 161.7734488 0 344.5804878 1.10014751 1.370989458 3.939594789 1.503532359 1.382495829 0.470644022 2.237774956 0.469479424 0 1 8.4286972 -4.020197926 20.38897181 1.336972371 0.133660694 0.067849392 1.016056932 96114532.89 5722706492 0.130086261 1605620965 9.55E-05 4.020197926 -1.203311677 IGMVVKTGVVPQLVK ddPTM_HeLa_SAHA_4h_R1 1 IGMVVKTGVVPQLVK 15 1 P52292 P52292 KPNA2 Importin subunit alpha-1 0 0 74.537 0.015324 7469100 339.43 393.75 826.48 1866.7 3522.4 3512.7 5895.7 5512.6 552.94 420.12 FALSE FALSE TRUE 375.1328048 406.5077583 939.1083903 1902.832678 3252.514473 3213.398198 5232.300319 5371.595674 549.0920455 438.2334292 0.856011385 0.927605544 2.142941017 4.342052776 7.42187669 7.332617696 11.93952805 12.25738457 1.252967047 1 8.77555573 -5.348100868 0.715326417 0.809386122 13.63133912 0.968215447 0.765780744 0.111323197 0.08437927 0.132135756 0.863925075 4.49E-06 5.348100868 12.821953 up IGNSYFK(ac)EEK ddPTM_HeLa_SAHA_4h_R1 1 IGNSYFKEEK 10 1 P31948-3;P31948;P31948-2 P31948-3 STIP1 Stress-induced-phosphoprotein 1 0 1 IGNSYFK(1)EEK 107.11 0.0074704 2254900 166.73 299.12 264.55 0 146.47 389.93 371 321.76 184.29 61.184 FALSE TRUE FALSE 184.2674264 308.8116843 300.6014963 0 135.2475002 356.7057703 329.2541036 313.5298451 183.0075109 63.82194167 2.887211225 4.838644457 4.710002366 0 2.119137975 5.589077377 5.158948396 4.912571396 2.867470122 1 5.995980596 -1.000000032 0.105320134 1.79E-09 15.35471945 0.22178292 1.613811809 97.48149077 0.725433579 11.46521275 217.8201237 0.099999993 1.000000032 15.35471944 IGNTGGMLDNILASK ddPTM_HeLa_SAHA_4h_R1 1 IGNTGGMLDNILASK 15 0 P53396;P53396-2;P53396-3 P53396 ACLY ATP-citrate synthase 0 0 157.23 1.07E-06 627860 250.22 358.34 463.03 264.31 349.01 360.1 229.81 137.88 208.22 289.29 FALSE FALSE TRUE 276.5392877 369.9504511 526.129317 269.4261022 322.2689292 329.4174541 203.951174 134.3532292 206.7709801 301.7627077 0.916413064 1.225964779 1.743520003 0.892840949 1.06795479 1.091644016 0.675866066 0.445228074 0.685210514 1 8.237270716 -4.598812963 3.228018795 1.044734115 0.473632841 0.386997829 0.264442319 0.193632086 3.836564418 0.03578584 0.185164936 2.52E-05 4.598812963 -0.571101274 IGPLGLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 IGPLGLSPK 9 0 P30050 P30050 RPL12 60S ribosomal protein L12 1 0 IGPLGLS(1)PK 89.827 0.017818 48194000 2824.7 2256.6 1764.4 2267.4 2459 2832.6 2561.4 2491.6 2525.2 2670.8 TRUE FALSE FALSE 3121.814906 2329.715321 2004.843243 2311.288806 2270.591951 2591.246544 2273.184531 2427.86848 2507.626928 2785.951259 1.120556182 0.836236927 0.719626102 0.829622844 0.815014959 0.930111945 0.81594555 0.871468398 0.9000972 1 11.4439543 -7.249944086 24.19469831 1.056929307 0.829400043 0.504567419 0.075022222 180.7488697 380430.9168 0.010994002 0.013399851 5.62E-08 7.249944086 -0.227529264 IGPLGLSPK ddPTM_HeLa_SAHA_4h_R1 1 IGPLGLSPK 9 0 P30050 P30050 RPL12 60S ribosomal protein L12 0 0 98.458 0.015936 1391300 1461.8 1452.6 1719.5 1784.9 1940.1 1158.6 1731.7 897.51 606.49 1151.6 FALSE FALSE TRUE 1615.558831 1499.665193 1953.824505 1819.449321 1791.449957 1059.880762 1536.844558 874.5529938 602.2693867 1201.251112 1.344896846 1.248419401 1.626491319 1.514628626 1.491320124 0.882314074 1.279369936 0.728035117 0.501368432 1 10.23032205 -5.243183127 24.75653118 1.254620411 0.994852733 0.134152132 0.326670183 1035.075968 1403619.923 0.037078462 0.094324497 5.71E-06 5.243183127 -0.259767678 IGPYQPNVPVGIDYVIPK ddPTM_HeLa_SAHA_4h_R1 1 IGPYQPNVPVGIDYVIPK 18 0 A0A0R4J2E8;A8MXP9;P43243;B3KM87;P43243-2;Q68E03 A0A0R4J2E8 MATR3;DKFZp686L22104 Matrin-3 0 0 116.51 0.00059471 256400 0 73.431 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 75.81021258 0 0 0 0 0 0 0 0 0 IGQQVDREPGDVAT(ph)PPR ddPTM_HeLa_SAHA_4h_R1 4 IGQQVDREPGDVATPPR 17 1 H3BT22;Q9Y5N6 H3BT22 ORC6 Origin recognition complex subunit 6 1 0 IGQQVDREPGDVAT(1)PPR;IGQQVDREPGDVAT(1)PPR;IGQQVDREPGDVAT(1)PPR;IGQQVDREPGDVAT(1)PPR ;;; 120.15 0.00067144 156409400 4874.54 5492.48 4911.33 5405.37 5862.52 6330 6730.7 5593.47 5870.4 5776.49 TRUE FALSE FALSE 5387.266482 5670.439956 5580.620475 5509.998753 5413.334984 5790.648388 5973.343922 5450.397137 5829.547408 6025.542753 0.894071572 0.941067085 0.92616063 0.914440239 0.898397905 0.961016895 0.991337074 0.904548745 0.967472582 1 12.55687548 -9.500712313 1.240425681 1.000108376 0.926780145 0.332395353 0.029881386 0.344731239 0.947029518 0.021433147 0.005164603 3.16E-10 9.500712313 -0.073328231 IGVDHVAR ddPTM_HeLa_SAHA_4h_R1 2 IGVDHVAR 8 0 H7C3T0;E7EM64;Q7L5N1 H7C3T0 COPS6 COP9 signalosome complex subunit 6 0 0 ; ; 117.4 0.0043723 2690000 3491 3137.2 3102 2944.7 3607.3 3313.7 3585.6 2837.7 3240.1 2866.8 FALSE FALSE TRUE 3858.199397 3238.847338 3524.724405 3001.698927 3330.909453 3031.354118 3182.138851 2765.115743 3217.55188 2990.401778 1.290194323 1.083080997 1.17867921 1.003777803 1.113866865 1.013694595 1.064117496 0.924663623 1.075959727 1 11.54612362 -6.257076368 24.755305 1.138451351 1.030668893 0.258185318 0.084304897 460.438045 2612474.224 0.017430005 0.028283853 5.53E-07 6.257076368 -0.107782458 IGVDLIMK ddPTM_HeLa_SAHA_4h_R1 2 IGVDLIMK 8 0 O00303 O00303 EIF3F Eukaryotic translation initiation factor 3 subunit F 0 0 ; ; 124.83 0.0019532 815750 1054.98 1074.05 1187.8 1284.26 1362.04 1057.66 1673.2 865.88 659.89 918.83 FALSE FALSE TRUE 1165.947637 1108.849925 1349.667198 1309.118709 1257.680789 967.5414178 1484.927132 843.7320434 655.2977718 958.4452579 1.216498936 1.156925673 1.408183918 1.365877392 1.312209309 1.009490537 1.549308237 0.880313233 0.683709128 1 9.904552224 -8.773325313 0.667599781 0.997785497 1.255060529 0.298347287 0.211115516 0.850323779 0.718152322 0.114215688 0.03853296 1.69E-09 8.773325313 0.257275033 IHDENLR ddPTM_HeLa_SAHA_4h_R1 2 IHDENLR 7 0 O95232;D6RDI2;J3KPP4 O95232 LUC7L3 Luc7-like protein 3 0 0 ; ; 194.25 6.80E-12 6595800 878.13 925.48 1051.5 1204.77 996.59 119.53 1169.74 946.79 1266.06 1087.98 FALSE FALSE TRUE 970.4957424 955.4661592 1194.792944 1228.090065 920.2314895 109.3453715 1038.117777 922.5724827 1257.249385 1134.888142 0.855146605 0.841903377 1.052784763 1.082124326 0.810856555 0.09634903 0.914731362 0.812919308 1.107817888 1 10.14833439 -5.515302194 24.95778519 0.94221492 0.607828011 0.369796033 0.218648106 288.0941836 949004.3959 0.029810763 0.061753724 3.05E-06 5.515302194 -0.334386909 IHEDIFDIIDR ddPTM_HeLa_SAHA_4h_R1 2 IHEDIFDIIDR 11 0 K7EKE5;K7EIS0;Q9NRH3;P23258 K7EKE5 TUBG1;TUBG2 Tubulin gamma chain;Tubulin gamma-2 chain;Tubulin gamma-1 chain 0 0 ; ; 137.01 0.0011315 4043000 2291.41 2352.24 2264.1 2185.15 2803.5 685.45 2941.3 1632.68 3523.8 2666.2 FALSE FALSE TRUE 2532.431017 2428.454119 2572.639757 2227.446738 2588.696436 627.0458038 2610.337183 1590.91841 3499.277589 2781.15293 0.910568775 0.873182518 0.925026355 0.800907679 0.930799744 0.22546254 0.938580959 0.572035573 1.258211136 1 11.44146736 -5.444929115 24.9999958 0.934352887 0.608588898 0.431016078 0.197081844 74.10743211 23767.18369 0.02201146 0.049219115 3.59E-06 5.444929115 -0.325763989 IHEGCEEPATHNALAK ddPTM_HeLa_SAHA_4h_R1 1 IHEGCEEPATHNALAK 16 0 A0A087WVQ6;Q00610-2;Q00610 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 119.88 0.00029822 4407000 1643.8 1635.9 1486.9 1622.2 1897.1 899.74 1989 2105.5 2064.5 2030.4 FALSE FALSE TRUE 1816.702426 1688.904233 1689.526989 1653.600027 1751.744608 823.0770902 1765.192485 2051.644359 2050.132976 2117.940481 0.857768404 0.797427618 0.797721657 0.780758497 0.827098129 0.388621445 0.833447635 0.968697835 0.967984226 1 11.04844633 -7.935587806 0.519767089 0.995296924 0.742891957 0.270202357 0.139502729 0.742805875 0.479621191 0.074476369 0.048818908 1.16E-08 7.935587806 -0.252404967 IHFFLSK ddPTM_HeLa_SAHA_4h_R1 1 IHFFLSK 7 0 H0Y8X0;B4DFG0;H0Y993;P35659;A0A494C028;D6R9L5;A0A494C198;P35659-2;D6RDA2 H0Y8X0 DEK Protein DEK 0 0 80.18 0.01463 1212200 1951.6 1758.9 9985.4 4691.1 4583.2 0 5229.1 230.13 238.72 530.31 FALSE FALSE TRUE 2156.878242 1815.889514 11346.15831 4781.903024 4232.036206 0 4640.707906 224.2436078 237.0587281 553.1742594 3.89909365 3.28267175 20.51100195 8.644478558 7.650457581 0 8.389233279 0.405376071 0.428542587 1 9.111590216 -2.444784692 18.6681232 4.442411361 3.501918285 0 6.061024147 0 0 0.821756858 0 0.003590999 2.444784692 -0.940493075 IHFPLATYAPVISAEK ddPTM_HeLa_SAHA_4h_R1 2 IHFPLATYAPVISAEK 16 0 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;A0A1W2PQM2;P0DPH7-2;Q6PEY2;F8VVB9;C9JDS9;P68363;P68363-2;P68366-2;P68366 Q9BQE3;P68363;P68366-2 TUBA1C;TUBA3E;TUBA1B;TUBA4A Tubulin alpha-1C chain;Tubulin alpha-3E chain;Tubulin alpha-1B chain;Tubulin alpha-4A chain 0 0 ; ; 221.09 6.14E-44 9123600 1635.46 1477.19 1313.68 1422.1 1995.85 113.936 2297.3 1369.69 1458.93 1677.23 FALSE FALSE TRUE 1807.485187 1525.051925 1492.701469 1449.626802 1842.928404 104.2280118 2038.801758 1334.655313 1448.777187 1749.543593 1.033118119 0.871685582 0.853194784 0.828574268 1.05337667 0.059574401 1.165333499 0.762859135 0.828088647 1 10.7727629 -6.610866825 0.935764356 1.017312154 0.74874376 0.060790906 0.279273706 0.730251615 1.278219289 0.049896138 0.086498638 2.45E-07 6.610866825 -0.268568394 IHFS(ph)PSEPK ddPTM_HeLa_SAHA_4h_R1 1 IHFSPSEPK 9 0 Q8IZT6-2;Q8IZT6 Q8IZT6-2 ASPM Abnormal spindle-like microcephaly-associated protein 1 0 IHFS(0.99)PS(0.01)EPK 80.737 0.020853 3192800 4446.2 4902.8 3808.9 4678 5917.5 1242 4792 5277 4748.2 5447.7 TRUE FALSE FALSE 4913.871716 5061.653937 4327.957056 4768.549455 5464.102428 1136.174613 4252.791548 5142.021981 4715.15689 5682.577007 0.864725935 0.890732133 0.761618725 0.839152632 0.961553609 0.199940029 0.748391362 0.90487502 0.829756796 1 12.47232961 -6.774664385 0.429830965 0.979821132 0.658998018 0.132307943 0.198946002 1.185462133 0.503196057 0.080147773 0.146896009 1.68E-07 6.774664385 -0.320823115 IHGVGFK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 IHGVGFKK 8 1 B8ZZK4;H7C2W9;C9JU56;B7Z4E3;B7Z4C8;P62899-3;P62899;P62899-2 B8ZZK4 RPL31 60S ribosomal protein L31 0 1 ; IHGVGFK(1)K;IHGVGFK(1)K 91.9 0.005979 3919200 6145.8 6908.2 6893 7965.9 9826.5 509.53 9937.6 7088.3 5195.1 6068.6 FALSE TRUE FALSE 6792.243442 7132.030213 7832.342143 8120.091513 9073.595693 466.1151775 8819.395094 6906.99155 5158.946876 6330.247045 1.072982364 1.126659064 1.237288543 1.282744805 1.433371499 0.073633015 1.393214993 1.09110932 0.8149677 1 12.62804609 IHLDEK ddPTM_HeLa_SAHA_4h_R1 2 IHLDEK 6 0 P37837 P37837 TALDO1 Transaldolase 0 0 ; ; 134.12 0.00038916 6062000 14698.2 12281.8 13906.6 17091.8 13322.8 2682.6 15219.7 13185.3 10872.6 13705.9 FALSE FALSE TRUE 16244.22411 12679.73838 15801.71903 17422.6365 12302.00994 2454.027388 13507.1393 12848.03912 10796.93669 14296.82842 1.136211727 0.886891694 1.105260451 1.218636469 0.860471258 0.171648377 0.944764734 0.898663587 0.755198032 1 13.80340752 -5.523820576 24.95704003 1.06310876 0.66850955 0.297273333 0.231800064 21.25249285 563159.8374 0.029449617 0.05930345 2.99E-06 5.523820576 -0.39459921 IHLGSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 IHLGSSPK 8 0 Q9H410-4;Q9H410;Q5JW53 Q9H410-4 DSN1 Kinetochore-associated protein DSN1 homolog 1 0 IHLGS(0.026)S(0.974)PK;IHLGS(0.031)S(0.969)PK ; 130.66 0.001466 92387000 18866.5 20234.3 13886.7 19125.5 22278 713.77 22263 22715 20477 19250 TRUE FALSE FALSE 20850.96503 20889.9046 15779.10716 19495.70171 20571.06445 652.9527804 19757.90865 22133.98319 20334.49889 20079.96171 1.038396653 1.040335878 0.785813608 0.970903331 1.024457355 0.032517631 0.98396147 1.102292102 1.012676179 1 14.2934689 IHQDSES(ph)GDELSSSSTEQIR ddPTM_HeLa_SAHA_4h_R1 2 IHQDSESGDELSSSSTEQIR 20 0 Q1RLN5;Q8IWW6-3;Q8IWW6-2;Q8IWW6-4;Q8IWW6 Q1RLN5 ARHGAP12 Rho GTPase-activating protein 12 1 0 IHQDSES(1)GDELSSSSTEQIR;IHQDS(0.029)ES(0.971)GDELSSSSTEQIR ; 237.16 1.04E-33 14420200 1141.65 1416.04 1091.3 1455.45 1623.73 229.26 1867.16 1651.87 1589.81 1366 TRUE FALSE FALSE 1261.733985 1461.920625 1240.016681 1483.622339 1499.320158 209.7257582 1657.062243 1609.617557 1578.746383 1424.894945 0.885492639 1.025984849 0.870251302 1.041215245 1.05223207 0.147186822 1.162936432 1.129639461 1.107973881 1 10.47663984 IHRAS(ph)DPGLPAEEPK ddPTM_HeLa_SAHA_4h_R1 5 IHRASDPGLPAEEPK 15 1 P27708;F8VPD4 P27708 CAD CAD protein;Glutamine-dependent carbamoyl-phosphate synthase;Aspartate carbamoyltransferase;Dihydroorotase 1 0 IHRAS(1)DPGLPAEEPK;IHRAS(1)DPGLPAEEPK;IHRAS(1)DPGLPAEEPK;IHRAS(1)DPGLPAEEPK;IHRAS(1)DPGLPAEEPK ;;;; 166.9 1.41E-05 514415000 19955 23685.8 18736.6 19565.6 23260.4 3499.45 24749.2 21682.1 20575.2 21060.6 TRUE FALSE FALSE 22053.95846 24453.23546 21289.92627 19944.32048 21478.19318 3201.277173 21964.35488 21127.50328 20432.01551 21968.62553 1.003884309 1.113098105 0.969105975 0.907854724 0.977675783 0.145720412 0.999805602 0.961712568 0.930054339 1 14.42315699 -5.479451583 24.99990884 1.000156821 0.703743129 0.254160521 0.221981624 445.1509747 256261.6613 0.02962075 0.066229754 3.32E-06 5.479451583 -0.296413692 IHRAS(ph)DPGLPAEEPKEK ddPTM_HeLa_SAHA_4h_R1 2 IHRASDPGLPAEEPKEK 17 2 P27708;F8VPD4 P27708 CAD CAD protein;Glutamine-dependent carbamoyl-phosphate synthase;Aspartate carbamoyltransferase;Dihydroorotase 1 0 IHRAS(1)DPGLPAEEPKEK;IHRAS(1)DPGLPAEEPKEK ; 123.61 0.00032109 26103000 15219.1 10152.7 15797 12154.5 14197.2 780.02 16045.3 17519.8 7420 13345.5 TRUE FALSE FALSE 16819.91477 10481.65414 17949.73289 12389.76792 13109.4136 713.5579077 14239.84062 17071.66888 7368.363616 13920.88982 1.208249975 0.752944264 1.289409882 0.890012642 0.941708021 0.051258067 1.022911668 1.226334603 0.529302632 1 13.76496381 -5.877242274 2.787170502 1.082017264 0.76662029 0 0.360786033 0.361250537 5.676575588 0.046762601 0.091624872 1.33E-06 5.877242274 -0.315396974 IHS(ph)PIIR ddPTM_HeLa_SAHA_4h_R1 2 IHSPIIR 7 0 O60885 O60885 BRD4 Bromodomain-containing protein 4 1 0 IHS(1)PIIR;IHS(1)PIIR ; 101.9 0.0098093 51422000 2979.9 2794.7 2729.6 2691.06 2613.3 83.895 3494.8 2754.2 2963.8 2706.2 TRUE FALSE FALSE 3293.339554 2885.250114 3101.575673 2743.149358 2413.069519 76.74667402 3101.555906 2683.751552 2943.174674 2822.877526 1.166660446 1.022095393 1.098728388 0.97175642 0.854826147 0.027187391 1.098721385 0.950714839 1.042615079 1 11.46295082 -5.731783458 3.413447431 1.073518269 0.696722037 0.264197857 0.265977933 0.224231023 5.426929497 0.03844914 0.078249271 1.85E-06 5.731783458 -0.376796232 IHTGMK(ac)PYECK ddPTM_HeLa_SAHA_4h_R1 1 IHTGMKPYECK 11 1 Q86YE8-2;Q86YE8-4;Q86YE8-3;Q86YE8 Q86YE8-2 ZNF573 Zinc finger protein 573 0 1 IHTGMK(1)PYECK 65.842 0.017405 0 1191.9 1040.1 773.53 835.68 1270 410.45 1194 1349.5 1090.9 892.64 FALSE TRUE FALSE 1317.269511 1073.799922 878.94264 851.8557948 1172.692874 375.4773509 1059.647978 1314.981744 1083.308338 931.1260789 1.41470585 1.153227202 0.943956635 0.914866219 1.259435109 0.403250816 1.13802846 1.412248861 1.16343894 1 9.862832719 -6.872752697 5.643279715 1.199976353 0.997483958 0.088893381 0.266663185 0.384927512 17.80889976 0.045986458 0.060815712 1.34E-07 6.872752697 -0.202492396 IHVFYIDYGNR ddPTM_HeLa_SAHA_4h_R1 2 IHVFYIDYGNR 11 0 Q7KZF4 Q7KZF4 SND1 Staphylococcal nuclease domain-containing protein 1 0 0 ; ; 117.02 0.0015289 6912800 3345.8 3291.7 4251.6 5062.8 4446.8 574.69 4823.6 1762.37 2806.6 3680.3 FALSE FALSE TRUE 3697.726595 3398.35324 4830.985907 5160.797815 4106.087145 525.7231789 4280.835833 1717.291127 2787.068642 3838.975744 0.963206553 0.885223942 1.258404905 1.344316338 1.06957882 0.136943605 1.115098432 0.447330549 0.725992772 1 11.90650573 IIAFVGSPVEDNEKDLVK ddPTM_HeLa_SAHA_4h_R1 1 IIAFVGSPVEDNEKDLVK 18 1 Q5VWC4;P55036;A6PVX3;P55036-2 Q5VWC4 PSMD4 26S proteasome non-ATPase regulatory subunit 4 0 0 158.65 6.15E-09 617810 322.91 245.83 432.63 329.33 368.93 381.91 282.72 401.13 278.53 323.02 FALSE FALSE TRUE 356.8751554 253.7950533 491.5865634 335.7046584 340.6626631 349.3691194 250.9076015 390.8696754 276.5916871 336.946973 1.059143378 0.753219568 1.458943403 0.996313026 1.011027522 1.03686677 0.744650113 1.1600332 0.820876011 1 8.396377755 -4.914777275 24.83058049 1.036690743 0.936945541 0.007859198 0.199026384 56.73855124 16523.49816 0.023497176 0.070491541 1.22E-05 4.914777275 -0.099745202 IIALDGDTK ddPTM_HeLa_SAHA_4h_R1 2 IIALDGDTK 9 0 P29401;P29401-2;A0A0B4J1R6 P29401 TKT Transketolase 0 0 ; ; 128.38 0.0024717 8407500 8440.4 8597 8395.7 8487 8582.8 8851.3 9795.8 7129.3 5737.6 8040.3 FALSE FALSE TRUE 9328.199998 8875.548441 9539.822273 8651.278157 7925.187718 8097.119444 8693.550803 6946.942829 5697.671574 8386.956681 1.112227039 1.058256144 1.137459347 1.031515779 0.944942012 0.965441906 1.036556064 0.828303173 0.679349112 1 13.03393169 -5.857081369 4.425619916 1.061415389 0.951958864 0 0.134522959 0.171211097 5.987508671 0.009591973 0.017948945 1.39E-06 5.857081369 -0.109456525 IIAPPER ddPTM_HeLa_SAHA_4h_R1 1 IIAPPER 7 0 P60709;P63267-2;Q562R1;A0A2R8YFE2;P63267;P68133;P68032;P62736;A6NL76;P63261 P60709;P63267;P63261 ACTB;ACTG2;ACTBL2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Beta-actin-like protein 2;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 74.335 0.014192 747680 298.68 335.27 270.75 310.7 458.35 566.3 546.86 430.75 256.15 203.91 FALSE FALSE TRUE 330.0965328 346.132968 307.6464 316.7140478 423.231322 518.0480541 485.3258735 419.7320387 254.3674313 212.701558 1.551923436 1.627317502 1.446375865 1.489006713 1.989789478 2.435563044 2.281722231 1.973337867 1.195888896 1 7.732686791 -3.917498242 0.122185652 0.580891796 4.022930651 0.756546859 0.216106571 13.96119822 0.253766395 1.340128076 8.202491336 0.000120921 3.917498242 3.442038855 IIAPPERK ddPTM_HeLa_SAHA_4h_R1 1 IIAPPERK 8 1 P60709;P63267-2;Q562R1;A0A2R8YFE2;P63267;P68133;P68032;P62736;A6NL76;P63261 P60709;P63267;P63261 ACTB;ACTG2;ACTBL2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Beta-actin-like protein 2;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 73.248 0.021134 21210000 3725.7 3607.4 3690.1 3103.8 4097.6 4248.5 4304.8 4323.1 2886.4 3745 FALSE FALSE TRUE 4117.58622 3724.282127 4192.967611 3163.878537 3783.642773 3886.503899 3820.412574 4212.521362 2866.313307 3906.465278 1.054043983 0.953363684 1.073340555 0.809908271 0.968559172 0.994890169 0.977971722 1.07834604 0.73373577 1 11.93164808 -7.257716856 24.9476156 1.02552077 0.976684951 0 0.116205899 581.5842288 3897656.335 0.011611319 0.013933057 5.52E-08 7.257716856 -0.048835818 IIAPS(ph)PVK ddPTM_HeLa_SAHA_4h_R1 1 IIAPSPVK 8 0 Q9HCS5 Q9HCS5 EPB41L4A Band 4.1-like protein 4A 1 0 IIAPS(1)PVK 90.149 0.017793 14434000 4848 6136.3 6032.9 4440 5617.9 3367.5 7320.6 3206.8 1918.1 3673.3 TRUE FALSE FALSE 5357.934883 6335.120146 6855.032194 4525.94262 5187.457716 3080.570055 6496.866821 3124.774699 1904.751786 3831.67394 1.398327459 1.653355752 1.789043719 1.181192004 1.353835895 0.803975 1.69556881 0.81551164 0.497106961 1 11.90375908 -9.182753393 1.06349769 1.011113234 1.349939818 0.23477321 0.36032128 0.742451635 1.575756323 0.173975417 0.056002891 6.57E-10 9.182753393 0.338826584 IIDDSEITKEDDALWPPPDR ddPTM_HeLa_SAHA_4h_R1 1 IIDDSEITKEDDALWPPPDR 20 1 P61326;F5H3U9;F5H6N1;F5H6P7;Q96A72 P61326 MAGOH;MAGOHB Protein mago nashi homolog;Protein mago nashi homolog 2 0 0 86.005 0.0030222 3226300 291.17 352.11 410.45 273.86 269.49 247.75 466.13 337.28 416.41 292.4 FALSE FALSE TRUE 321.7965965 363.518595 466.3839885 279.1609563 248.8417344 226.6403062 413.6798256 328.652866 413.5121689 305.006795 1.055047303 1.191837694 1.529093765 0.915261433 0.815856363 0.743066417 1.356297081 1.077526374 1.355747399 1 8.252697573 IIDSLFNTVTDKK ddPTM_HeLa_SAHA_4h_R1 1 IIDSLFNTVTDKK 13 1 O60701;O60701-3;O60701-2 O60701 UGDH UDP-glucose 6-dehydrogenase 0 0 111.72 0.0015972 423120 0 86.091 215.98 179.2 153.02 247.99 0 167.47 172.51 0 FALSE FALSE TRUE 0 88.88040489 245.4126296 182.6686751 141.2956407 226.8598568 0 163.1863599 171.3094889 0 0 IIDVVYNASNNELVR ddPTM_HeLa_SAHA_4h_R1 1 IIDVVYNASNNELVR 15 0 P62241;Q5JR95 P62241 RPS8 40S ribosomal protein S8 0 0 169.17 1.73E-10 1037400 0 231.98 187.28 0 193.03 191.11 367.59 151.76 167.52 148.39 FALSE FALSE TRUE 0 239.4963042 212.8015431 0 178.2400831 174.8263528 326.2278058 147.8781989 166.3542147 154.7878191 0 1.547255498 1.374795151 0 1.151512336 1.129458079 2.107580607 0.955360698 1.074724198 1 7.274148134 -5.351561383 2.456330246 0.64007482 1.506243702 0.095186025 0.578788821 0.309493239 3.613316523 0.0907982 0.243103724 4.45E-06 5.351561383 0.866168882 IIEDGDGAGAET(ph)PVIENR ddPTM_HeLa_SAHA_4h_R1 3 IIEDGDGAGAETPVIENR 18 0 A0A5H1ZRS1;Q15154-5 A0A5H1ZRS1 PCM1 Pericentriolar material 1 protein 1 0 IIEDGDGAGAET(1)PVIENR;IIEDGDGAGAET(1)PVIENR;IIEDGDGAGAET(1)PVIENR ;; 235.02 6.19E-29 29696600 4195.39 3924.96 4230.03 4643.38 4664.42 4526.49 4395.87 5032.32 4271.39 3889.29 TRUE FALSE FALSE 4636.680369 4052.131279 4806.476459 4733.259334 4307.033147 4140.807587 3901.235138 4903.600541 4241.665049 4056.976326 1.142890665 0.998805749 1.184743532 1.166696316 1.061636254 1.020663483 0.961611512 1.208683548 1.045523737 1 11.98618917 -4.22137933 22.59719048 1.069784136 1.208684921 0.259261978 0.072545896 8594.736648 4847799.928 0.011095517 4.032140873 6.01E-05 4.22137933 0.138900785 IIEDQQESLNK ddPTM_HeLa_SAHA_4h_R1 2 IIEDQQESLNK 11 0 P05455 P05455 SSB Lupus La protein 0 0 ; ; 205.13 2.65E-31 2905500 1424.67 1543.62 1316.1 1350.67 1380.85 1737.44 1484.52 1628.57 1894.77 1473.02 FALSE FALSE TRUE 1574.523327 1593.634301 1495.451254 1376.814171 1275.049571 1589.400337 1317.477903 1586.913538 1881.584141 1536.529101 1.024727307 1.037165062 0.973265819 0.896054731 0.829824551 1.034409525 0.857437651 1.032791072 1.224567852 1 10.58545938 -6.511232879 5.044773809 1.013743912 0.926634155 0.273515913 0.091276099 0.160978614 11.845424 0.008918549 0.013245696 3.08E-07 6.511232879 -0.087109758 IIELPFQNK ddPTM_HeLa_SAHA_4h_R1 2 IIELPFQNK 9 0 P36952 P36952 SERPINB5 Serpin B5 0 0 ; ; 178.83 1.63E-11 1142830 1434.45 1377.65 1487.69 1579.83 1653.92 1235.29 1476.53 1135.65 874.13 1098.85 FALSE FALSE TRUE 1585.332032 1422.286764 1690.424646 1610.409894 1527.197007 1130.036342 1310.386958 1106.601717 868.0468582 1146.226801 1.383087563 1.240842356 1.474773268 1.404966183 1.332368956 0.985874996 1.143217867 0.96542998 0.757308115 1 10.16267682 -5.254615792 24.8054847 1.237980966 1.042678633 0.159106557 0.205161243 659.7505796 2398352.173 0.02677112 0.066621622 5.56E-06 5.254615792 -0.195302333 IIENELEGFGIR ddPTM_HeLa_SAHA_4h_R1 1 IIENELEGFGIR 12 0 Q9Y295 Q9Y295 DRG1 Developmentally-regulated GTP-binding protein 1 0 0 142.19 0.0035532 1874200 312.33 232.79 147.95 131.07 218.93 174.98 210.57 251.21 286.35 63.046 FALSE FALSE TRUE 345.1823024 240.3325487 168.1118555 133.6070494 202.1556307 160.0707196 186.8761094 244.7844119 284.357267 65.7642216 5.248785647 3.654457437 2.556281386 2.031606946 3.073945464 2.434009188 2.841607562 3.722151741 4.323890105 1 6.039231008 -6.691331162 24.99999497 3.111070651 2.743635349 0.050102769 1.118338293 274.6711744 97940.81974 0.259038315 0.366335456 2.04E-07 6.691331162 -0.367435301 IIEQLS(ph)PQAATSR ddPTM_HeLa_SAHA_4h_R1 2 IIEQLSPQAATSR 13 0 Q03468;D6R9X7;P0DP91 Q03468 ERCC6 DNA excision repair protein ERCC-6 1 0 IIEQLS(0.998)PQAAT(0.002)SR;IIEQLS(0.999)PQAAT(0.001)SR ; 116.9 0.0013083 13860700 3028.1 2859.7 2449.7 2619.7 2745.4 3066 3028.1 2855 3113.1 2780.5 TRUE FALSE FALSE 3346.609451 2952.356156 2783.532359 2670.408082 2535.048045 2804.759551 2687.370218 2781.973234 3091.435684 2900.380962 1.153851682 1.017920127 0.95971267 0.920709423 0.874039679 0.967031431 0.926557667 0.959175112 1.065872285 1 11.50202669 -6.824933411 2.938762917 1.072973306 0.930146172 0.684890181 0.042694646 0.14842087 2.61654819 0.010125149 0.013886823 1.50E-07 6.824933411 -0.142827134 IIEVVDAIMTTAQSHQR ddPTM_HeLa_SAHA_4h_R1 1 IIEVVDAIMTTAQSHQR 17 0 Q01813;Q01813-2;Q5VSR5 Q01813 PFKP "ATP-dependent 6-phosphofructokinase, platelet type" 0 0 60.246 0.016438 282910 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 IIFEDDR ddPTM_HeLa_SAHA_4h_R1 3 IIFEDDR 7 0 P49773;D6RC06;D6REP8;D6RE99;D6RD60 P49773 HINT1 Histidine triad nucleotide-binding protein 1 0 0 ;; ;; 167.82 3.82E-06 261454000 13564.1 15284.2 13332.3 14438.3 14504.2 16849.1 15947.7 14090.2 15468.7 14753.4 FALSE FALSE TRUE 14990.83427 15779.41811 15149.15641 14717.77417 13392.89133 15413.46189 14153.22282 13729.79309 15361.05206 15389.49128 0.974095505 1.025337214 0.984383183 0.956352222 0.870262122 1.001557596 0.919668011 0.892153798 0.998152037 1 13.90965792 -6.092730127 3.848520764 0.990515004 0.925362565 0.510239928 0.034350482 0.161331592 4.379197499 0.005005253 0.008643285 8.08E-07 6.092730127 -0.065152439 IIFVVGGPGSGK ddPTM_HeLa_SAHA_4h_R1 2 IIFVVGGPGSGK 12 0 Q5T9B7;P00568 Q5T9B7 AK1 Adenylate kinase isoenzyme 1 0 0 ; ; 196.52 2.93E-23 12522700 5214.7 7021.7 6575.8 7986 7669.1 8427.2 8974.6 5143.3 7266.9 7905.4 FALSE FALSE TRUE 5763.206072 7249.207687 7471.915779 8140.580578 7081.495215 7709.15515 7964.754388 5011.741833 7216.329051 8246.240482 0.698888916 0.879092443 0.90609967 0.9871869 0.85875439 0.934869067 0.965864918 0.607760815 0.875105336 1 13.00952082 -4.249654754 24.45421721 0.879026752 0.607760592 0.50834418 0.084024591 1278.376474 2652686.853 0.016374412 0.350686356 5.63E-05 4.249654754 -0.271266159 IIGEDS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 2 IIGEDSPSR 9 0 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;C9JQE8 C9JE98 NCOR2 Nuclear receptor corepressor 2 1 0 IIGEDS(0.984)PS(0.016)R;IIGEDS(0.724)PS(0.276)R ; 149.94 0.00043603 17459500 2447.95 2973.5 2301.57 2427.7 2911.79 3016.4 2705.39 2199.6 3680.4 2521.52 TRUE FALSE FALSE 2705.436613 3069.843351 2615.215974 2474.691644 2688.689279 2759.38575 2400.972397 2143.337417 3654.787797 2630.235067 1.028591188 1.1671365 0.994289828 0.9408633 1.02222395 1.049102335 0.912835673 0.814884359 1.38952896 1 11.36097603 -4.523579008 3.041350244 1.020664564 0.820294185 0.238350716 0.129027567 0.142339396 2.470324372 0.007848685 0.050575998 3.00E-05 4.523579008 -0.200370379 IIGEDS(ph)PSRLDR ddPTM_HeLa_SAHA_4h_R1 1 IIGEDSPSRLDR 12 1 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;C9JQE8 C9JE98 NCOR2 Nuclear receptor corepressor 2 1 0 IIGEDS(0.845)PS(0.155)RLDR 107.39 0.016236 6281700 2856.2 2647.4 2439.1 2774.4 2692.3 2843.4 2724.9 2860.2 3171.5 2827.1 TRUE FALSE FALSE 3156.628221 2733.177497 2771.487846 2828.102524 2486.016556 2601.126323 2418.28708 2787.040226 3149.429273 2948.990116 1.070409902 0.926818127 0.939809133 0.959007122 0.843006066 0.882039688 0.820039059 0.945082932 1.067968745 1 11.52600527 -6.639271627 1.105181544 1.032012139 0.875444771 0.660687218 0.04674873 0.205782184 0.503147034 0.008990758 0.014725312 2.29E-07 6.639271627 -0.156567367 IIGYGLPFPK ddPTM_HeLa_SAHA_4h_R1 1 IIGYGLPFPK 10 0 Q9UDY4 Q9UDY4 DNAJB4 DnaJ homolog subfamily B member 4 0 0 114.78 0.0010748 0 0 0 0 0 118.64 71.442 146.84 0 0 0 FALSE FALSE TRUE 0 0 0 0 109.5498288 65.35473968 130.3171767 0 0 0 0 IIIEELSLVAASPT(ph)LSPR ddPTM_HeLa_SAHA_4h_R1 1 IIIEELSLVAASPTLSPR 18 0 Q16513-3;Q16513-2;Q16513;Q16513-4;B1AL79;H0Y5V5 Q16513-3 PKN2 Serine/threonine-protein kinase N2 1 0 IIIEELSLVAAS(0.206)PT(0.794)LSPR 267.46 8.41E-60 6246300 621.39 1155.2 854.77 797.35 999.92 969.2 1105.2 878.84 1237.6 890.42 TRUE FALSE FALSE 686.7506512 1192.629238 971.2536041 812.7838622 923.3063456 886.6187074 980.8399873 856.3605453 1228.987441 928.8103638 0.739387369 1.284039546 1.045696347 0.875080527 0.994074121 0.95457452 1.056017488 0.92199719 1.323184461 1 9.85924026 IIIHLK ddPTM_HeLa_SAHA_4h_R1 2 IIIHLK 6 0 I3L0K7;Q12931-2;Q12931;I3L2D5;I3L239 I3L0K7 TRAP1 "Heat shock protein 75 kDa, mitochondrial" 0 0 ; ; 78.002 0.0175 9562500 9757.2 16280.7 18645 10511.9 14486.7 11582.2 17050.9 8938.7 15139.8 14388.8 FALSE FALSE TRUE 10783.50706 16808.20536 21185.8435 10715.37302 13376.73218 10595.3314 15132.28786 8710.060997 15034.4409 15009.17159 0.718461176 1.119862297 1.411526504 0.713921682 0.891237208 0.705923797 1.008202736 0.580315905 1.001683592 1 13.87355673 IIKPCNHVLSLSFPIRR ddPTM_HeLa_SAHA_4h_R1 2 IIKPCNHVLSLSFPIRR 17 2 P00367;P49448 P00367 GLUD1;GLUD2 "Glutamate dehydrogenase 1, mitochondrial;Glutamate dehydrogenase 2, mitochondrial" 0 0 ; ; 46.408 0.019778 6855800 4511 10500.9 3959.3 4362.8 8089.8 1921.84 16896 1730.75 1575.79 5112.3 FALSE FALSE TRUE 4985.487677 10841.13605 4498.852785 4447.248303 7469.961272 1758.08842 14994.81761 1686.479921 1564.823949 5332.716272 0.934887105 2.032948219 0.843632505 0.833955545 1.400779807 0.329679722 2.811853631 0.316251575 0.293438441 1 12.38065486 IILDLISES(ph)PIKGR ddPTM_HeLa_SAHA_4h_R1 1 IILDLISESPIKGR 14 1 P61978;P61978-2;P61978-3;Q5T6W2 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 1 0 IILDLIS(0.003)ES(0.997)PIKGR 110.32 0.0013318 2202400 460.1 558.13 504.97 390.5 539.37 787.59 942.45 492.92 521.23 818.35 TRUE FALSE FALSE 508.495429 576.2137782 573.7846818 398.0586922 498.0435871 720.4829011 836.4030456 480.3118201 517.602718 853.6330734 0.595683842 0.675013418 0.67216782 0.466311234 0.583439891 0.844019431 0.979815651 0.562667773 0.606352699 1 9.737472263 -9.341688045 1.00743249 1.004554194 0.673388212 0 0.183391913 0.446422676 0.793305642 0.107917125 0.026789056 4.55E-10 9.341688045 -0.331165982 IILTARPFR ddPTM_HeLa_SAHA_4h_R1 1 IILTARPFR 9 1 Q14697;Q14697-2;F5H6X6;E9PKU7;E9PNH1 Q14697 GANAB Neutral alpha-glucosidase AB 0 0 93.143 0.0097991 1676900 518.39 356.71 1972.7 1102.4 1039.1 200.4 1095.1 183.06 139.42 157.16 FALSE FALSE TRUE 572.9166387 368.267638 2241.529283 1123.738546 959.4843825 183.3247926 971.8764659 178.3775903 138.4497649 163.9359367 3.494759295 2.246411894 13.67320264 6.854741972 5.852800805 1.118270931 5.928391817 1.088093275 0.844535784 1 7.356988335 -4.198486035 19.82405768 3.644541772 1.087826814 0.022621003 3.796902533 16915.5567 5324020.746 0.554675358 952.1706025 6.33E-05 4.198486035 -2.556714957 IINEPTAAAIAYGLDK ddPTM_HeLa_SAHA_4h_R1 2 IINEPTAAAIAYGLDK 16 0 P11142;E9PKE3;P11142-2;E9PN89;E9PLF4;P54652;E9PI65;P11021 P11142;P11021 HSPA8;HSPA2;HSPA5 Heat shock cognate 71 kDa protein;Heat shock-related 70 kDa protein 2;78 kDa glucose-regulated protein 0 0 ; ; 173.44 1.80E-11 1294380 320.82 237.7 211.53 245.33 310.13 232.25 310.46 178.62 309.82 149.88 FALSE FALSE TRUE 354.5653196 245.401636 240.3562068 250.0787169 286.3679064 212.4609934 275.5262237 174.051159 307.6639374 156.3420603 2.267881841 1.569645657 1.537373924 1.599561349 1.831675404 1.358949684 1.762329492 1.113271494 1.967889746 1 7.288562145 -5.227476351 23.96027062 1.61813899 1.446598187 0.091880253 0.346392843 1495.430464 1054992.972 0.06774742 0.172710185 5.92E-06 5.227476351 -0.171540803 IINEPTAAAIAYGLDKR ddPTM_HeLa_SAHA_4h_R1 2 IINEPTAAAIAYGLDKR 17 1 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 ; ; 180.93 4.66E-18 3734800 1155.97 1582.85 1804.36 1574.53 1932.32 1475.04 1757.54 1426.78 966.28 1188.46 FALSE FALSE TRUE 1277.560228 1634.135379 2050.248784 1605.007305 1784.266059 1349.358294 1559.776974 1390.285034 959.5555788 1239.700327 1.030539559 1.318169676 1.653826122 1.294673616 1.439272073 1.088455221 1.258188725 1.121468635 0.774022204 1 10.2757757 -7.270157918 6.568517566 1.013991965 1.317897729 0.496963689 0.167578352 0.098803212 22.7629068 0.025808077 0.030256236 5.37E-08 7.270157918 0.303905764 IINEPTAAAIAYGLDR ddPTM_HeLa_SAHA_4h_R1 3 IINEPTAAAIAYGLDR 16 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;P17066 A0A0G2JIW1;P17066 HSPA1B;HSPA1A;HSPA6 Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A;Heat shock 70 kDa protein 6 0 0 ;; ;; 197.06 3.35E-24 67666730 1013.45 948.94 1157.26 1086.11 1102.6 1198.22 1475.51 852.56 869.84 985.28 FALSE FALSE TRUE 1120.049321 979.6862786 1314.965366 1107.13323 1018.119026 1096.124915 1309.481731 830.7527497 863.7867126 1027.760243 1.089796311 0.953224534 1.27944759 1.077229089 0.990619197 1.066518113 1.274112071 0.808313763 0.840455465 1 10.00528803 -9.34683229 0.79683404 0.993818489 1.076875221 0.092197481 0.141877695 2.23203716 2.220307104 0.12218003 0.023876666 4.50E-10 9.34683229 0.083056732 IINNK(ac)ILMATDLDSEDK ddPTM_HeLa_SAHA_4h_R1 1 IINNKILMATDLDSEDK 17 1 Q5SZK8-2;Q5SZK8 Q5SZK8-2 FREM2 FRAS1-related extracellular matrix protein 2 0 1 IINNK(1)ILMATDLDSEDK 57.148 0.017451 0 0 0 79.431 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 90.25544302 0 0 0 0 0 0 0 0 IIPELVGS(ph)PTQSTSSR ddPTM_HeLa_SAHA_4h_R1 1 IIPELVGSPTQSTSSR 16 0 H7C409;Q9NSI6-3;Q9NSI6-2;Q9NSI6 H7C409 BRWD1 Bromodomain and WD repeat-containing protein 1 1 0 IIPELVGS(0.476)PT(0.476)QS(0.005)T(0.001)SS(0.043)R 159.18 4.77E-06 8605300 1422.8 1171.9 1200 1172.6 1231.5 1420.3 1480.3 1561.8 1417.7 1432.4 TRUE FALSE FALSE 1572.456632 1209.870329 1363.529751 1195.297369 1137.142736 1299.28245 1313.732748 1521.851417 1407.83411 1494.157774 1.05240334 0.809733985 0.912574143 0.799980691 0.761059344 0.869575136 0.879246336 1.018534618 0.942225871 1 10.54511678 -7.266376793 24.99054428 1.024746024 0.860559553 0.402994782 0.072410165 224.5519325 1136559.541 0.011673704 0.013571216 5.42E-08 7.266376793 -0.164186471 IIPELVGSPTQSTSS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 IIPELVGSPTQSTSSR 16 0 H7C409;Q9NSI6-3;Q9NSI6-2;Q9NSI6 H7C409 BRWD1 Bromodomain and WD repeat-containing protein 1 1 0 IIPELVGS(0.185)PT(0.185)QSTS(0.003)S(0.626)R 183.75 3.53E-10 9425600 1425.2 1155.1 1153.3 1317 1416.1 1062.9 1137.2 1280.3 1066.9 1354.7 TRUE FALSE FALSE 1575.109075 1192.525998 1310.465718 1342.492439 1307.598724 972.3349403 1009.239263 1247.55178 1059.475356 1413.107747 1.11464188 0.843903093 0.927364329 0.950028363 0.925335472 0.688082662 0.71419838 0.882842644 0.749748459 1 10.46465576 -6.092858264 0.723522723 1.048327955 0.758672427 0 0.128020506 0.383259281 0.382237539 0.019063321 0.054880795 8.07E-07 6.092858264 -0.289655529 IIPGFMCQGGDFTR ddPTM_HeLa_SAHA_4h_R1 6 IIPGFMCQGGDFTR 14 0 P62937;F8WE65;C9J5S7;P0DN26;A0A0H2UH34;A0A0B4J2A2;A0A075B767;A0A075B759;Q9Y536;F5H284 P62937 PPIA;PPIAL4C;PPIAL4E;PPIAL4A;PPIAL4D "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed;Peptidyl-prolyl cis-trans isomerase;Peptidyl-prolyl cis-trans isomerase A-like 4A/B/C;Peptidyl-prolyl cis-trans isomerase A-like 4D" 0 0 ;;;;; ;;;;; 244.27 8.20E-56 314114400 1480.56 1466.799 1649.68 1763.97 1771.803 1790.047 1685.337 1689.21 1530.09 1583.25 FALSE FALSE TRUE 1636.292094 1514.32425 1874.489799 1798.11419 1636.047837 1637.524925 1495.698445 1646.002454 1519.441979 1651.511656 0.990784466 0.916932221 1.135014575 1.088768695 0.990636567 0.991530952 0.905654187 0.996664146 0.920031036 1 10.68957144 -4.980848111 22.85207132 1.006501107 0.950517396 0.09729313 0.065929141 141.979912 169403.9891 0.008418831 0.025247057 1.05E-05 4.980848111 -0.055983712 IIPTLEEGLQLPS(ph)PTATSQLPLESDAVECLNYQHYK ddPTM_HeLa_SAHA_4h_R1 1 IIPTLEEGLQLPSPTATSQLPLESDAVECLNYQHYK 36 0 P61978;P61978-2 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 1 0 IIPTLEEGLQLPS(0.283)PT(0.283)AT(0.283)S(0.15)QLPLES(0.001)DAVECLNYQHYK 111.89 4.03E-14 82097000 1050.1 1234 1065 989.43 1398.6 1211.4 1413.9 758.26 1245.6 1187.3 TRUE FALSE FALSE 1160.554336 1273.98241 1210.132654 1008.581848 1291.43957 1108.181905 1254.804251 738.8648071 1236.931768 1238.490314 0.937071791 1.028657548 0.977103043 0.814363938 1.042753065 0.894784475 1.013172438 0.596585051 0.998741576 1 10.27436687 -4.256935784 24.98844066 0.965624299 0.596584903 0.740734636 0.065807521 163.4801222 907045.2226 0.00830002 0.088602699 5.53E-05 4.256935784 -0.369039396 IIQLLDDYPK ddPTM_HeLa_SAHA_4h_R1 2 IIQLLDDYPK 10 0 F8VWS0;P05388-2;P05388;G3V210;F8VZS0;F8VU65;Q8NHW5;F8VS58;F8VQY6;F8VRK7 F8VWS0 RPLP0;RPLP0P6 60S acidic ribosomal protein P0;60S acidic ribosomal protein P0-like 0 0 ; ; 136.52 0.00065648 2373920 1904.4 2004.07 1862.86 2063.16 2467.07 2220.1 2693.04 1649.57 2317.52 2465.66 FALSE FALSE TRUE 2104.71353 2069.003183 2116.720859 2103.095445 2278.04363 2030.93499 2390.012052 1607.376388 2301.39219 2571.966669 0.818328462 0.804444011 0.822997003 0.817699339 0.88572051 0.789642811 0.929254675 0.624960038 0.894798606 1 11.32865623 -9.204231723 0.607280279 1.024709701 0.813994899 0.272768725 0.080876151 0.706948662 0.391520802 0.082000353 0.015411389 6.25E-10 9.204231723 -0.210714802 IIS(ph)NASCTTNCLAPLAK ddPTM_HeLa_SAHA_4h_R1 2 IISNASCTTNCLAPLAK 17 0 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 1 0 IIS(0.564)NAS(0.018)CT(0.209)T(0.209)NCLAPLAK;IIS(0.971)NAS(0.028)CT(0.001)TNCLAPLAK ; 154.49 3.28E-05 8761900 881.26 1070.68 646.94 908.21 1023.92 1047.61 949.94 860.16 1085.83 839.62 TRUE FALSE FALSE 973.9549702 1105.370734 735.1016141 925.7897178 945.4674708 958.3477343 843.0502511 838.1583527 1078.273621 875.8201272 1.112049084 1.26209789 0.839329437 1.057054627 1.079522429 1.094228946 0.962583783 0.956998277 1.231158759 1 9.774490794 -6.747452969 24.99985086 1.070079457 1.007388359 0.199654887 0.108393738 488.0847932 872418.5404 0.016001243 0.022563576 1.79E-07 6.747452969 -0.062691098 IISIFS(ph)GTEK ddPTM_HeLa_SAHA_4h_R1 2 IISIFSGTEK 10 0 Q13177 Q13177 PAK2 Serine/threonine-protein kinase PAK 2;PAK-2p27;PAK-2p34 1 0 IIS(0.066)IFS(0.925)GT(0.009)EK;IIS(0.046)IFS(0.477)GT(0.477)EK ; 174.24 6.44E-05 187363000 4334.5 8729.2 5479.7 1927.17 5683.6 8198 6774.8 2239.5 3135.3 6813 TRUE FALSE FALSE 4790.422597 9012.031807 6226.444979 1964.473162 5248.123796 7499.484279 6012.481674 2182.216833 3113.481192 7106.741772 0.674067351 1.26809614 0.876132154 0.276423884 0.738471154 1.055263371 0.846025066 0.307062913 0.43810248 1 12.79497256 -6.463863737 24.99996241 0.8828995 0.673102729 0.10046722 0.295821806 439.7970521 186306.7133 0.04236904 0.064719703 3.44E-07 6.463863737 -0.209796772 IISIFSGTEK ddPTM_HeLa_SAHA_4h_R1 2 IISIFSGTEK 10 0 Q13177 Q13177 PAK2 Serine/threonine-protein kinase PAK 2;PAK-2p27;PAK-2p34 0 0 ; ; 104.42 0.013496 1331010 734.88 801.91 1082.47 976.36 1141.67 1056.84 1193.01 939.17 871.49 968.76 FALSE FALSE TRUE 812.1780502 827.8924102 1229.983374 995.2588596 1054.195491 966.7912864 1058.769375 915.1473913 865.4252301 1010.527985 0.803716535 0.819267178 1.217169037 0.984889953 1.043212565 0.956718964 1.047738797 0.90561311 0.85640897 1 9.98089356 -6.818423451 24.99999558 0.898117532 1.022668564 0.391928617 0.092524968 87.6004376 38431.54457 0.016978833 0.022314564 1.52E-07 6.818423451 0.124551032 IISIFSGTEK(ac)GSK ddPTM_HeLa_SAHA_4h_R1 2 IISIFSGTEKGSK 13 1 Q13177 Q13177 PAK2 Serine/threonine-protein kinase PAK 2;PAK-2p27;PAK-2p34 0 1 ; IISIFSGTEK(1)GSK;IISIFSGTEK(1)GSK 210.95 1.78E-32 3405800 928.6 1308.27 1367.06 1886.01 2268.14 1927.33 1862.69 1948.74 1215.06 947.4 FALSE TRUE FALSE 1026.274409 1350.658806 1553.355817 1922.516451 2094.355603 1763.110641 1653.095219 1898.894053 1206.604299 988.2470505 1.038479607 1.366721819 1.57182945 1.945380409 2.119263197 1.78407883 1.672755024 1.921477076 1.220954111 1 9.948727934 -6.822168666 1.586243298 1.013716835 1.881357381 0.86963954 0.134743955 0.071834238 0.3655796 0.0217359 0.030936572 1.51E-07 6.822168666 0.867640545 IISLETYNLLR ddPTM_HeLa_SAHA_4h_R1 1 IISLETYNLLR 11 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 134.23 0.00080821 591570 0 70.204 68.535 143.74 200.51 0 0 0 0 0 FALSE FALSE TRUE 0 72.47865566 77.87459289 146.5222956 185.1469671 0 0 0 0 0 0 IISNASCT(ph)TNCLAPLAK ddPTM_HeLa_SAHA_4h_R1 2 IISNASCTTNCLAPLAK 17 0 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 1 0 IIS(0.172)NAS(0.022)CT(0.767)T(0.039)NCLAPLAK;IIS(0.21)NASCT(0.742)T(0.047)NCLAPLAK ; 151.41 1.28E-08 4793900 2255.86 2214.86 2058.31 2592.76 2550.33 2897.82 2021.8 2508.4 2685.83 2719.59 TRUE FALSE FALSE 2493.141705 2286.622917 2338.805768 2642.946619 2354.924266 2650.909433 1794.301743 2444.23876 2667.13909 2836.844834 0.878843169 0.806044409 0.824439088 0.931650046 0.830120928 0.934456972 0.632499078 0.861604671 0.940177996 1 11.47007153 -13.52287869 0.10366737 1.579242408 0.717196586 0.305558862 0.080678457 77.42639198 0.595693708 9.528150746 0.576878873 3.00E-14 13.52287869 -0.862045823 IISNASCTTNCLAPLAK ddPTM_HeLa_SAHA_4h_R1 4 IISNASCTTNCLAPLAK 17 0 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ;;; ;;; 247.17 2.73E-58 71280000 3523.86 3284.55 3097.38 3468.66 3357.65 3593.6 3473.86 3554.2 3473.51 3040.75 FALSE FALSE TRUE 3894.515763 3390.971575 3519.474816 3535.80093 3100.387582 3287.405063 3082.97213 3463.28871 3449.337561 3171.851614 1.227836683 1.069082665 1.1095963 1.114743488 0.977469302 1.036430913 0.971978675 1.091882324 1.087483899 1 11.63110956 -5.774655481 24.82424825 1.107500146 1.017263803 0.297609873 0.061270083 262.2305722 492556.6132 0.012975295 0.023621698 1.68E-06 5.774655481 -0.090236343 IISPGSST(ph)PSSTR ddPTM_HeLa_SAHA_4h_R1 2 IISPGSSTPSSTR 13 0 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 IISPGS(0.004)S(0.026)T(0.938)PS(0.03)S(0.002)TR;IISPGS(0.008)S(0.045)T(0.946)PS(0.001)STR ; 179.83 1.38E-05 15368000 2325.5 2726.4 2213.7 2309 2990.6 2822.5 2500.4 2640.5 3348.6 2748.3 TRUE FALSE FALSE 2570.10676 2814.737149 2515.371508 2353.694034 2761.460874 2582.007121 2219.048411 2572.959833 3325.29682 2866.792663 0.896509466 0.981841898 0.877416613 0.821019973 0.963257968 0.900660573 0.774052634 0.897504681 1.159936281 1 11.48522185 -13.52287873 0.104236601 1.388396942 0.804012476 0.460945159 0.074689357 80.44803643 0.621782508 6.749173871 0.402865088 3.00E-14 13.52287873 -0.584384465 IISPGSSTPS(ph)STRSPPPGR ddPTM_HeLa_SAHA_4h_R1 1 IISPGSSTPSSTRSPPPGR 19 1 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 IISPGSST(0.001)PS(0.291)S(0.236)T(0.236)RS(0.236)PPPGR 52.93 0.021181 9810400 872.14 1455.2 939.36 1076.9 1303.5 1456.6 1235.1 1236.2 1520.6 1296.2 TRUE FALSE FALSE 963.8756867 1502.349435 1067.371089 1097.744957 1203.626112 1332.489485 1096.123297 1204.579794 1510.018021 1352.085525 0.712880708 1.111134915 0.78942572 0.811890177 0.890199687 0.985506804 0.810690801 0.890905029 1.116806587 1 10.4009707 -9.751004704 1.698166239 1.00009846 0.85027492 0.234862257 0.11425966 0.499420842 2.603814753 0.081933104 0.017624087 1.77E-10 9.751004704 -0.14982354 IISPGSSTPSS(ph)TR ddPTM_HeLa_SAHA_4h_R1 1 IISPGSSTPSSTR 13 0 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 IIS(0.001)PGS(0.002)S(0.002)T(0.361)PS(0.021)S(0.511)T(0.102)R 104.94 0.0017833 0 985.77 905.96 1152.9 1197.6 1074.1 1416.9 987.3 1016.6 1307 1342 TRUE FALSE FALSE 1089.457811 935.3136984 1310.011208 1220.78128 991.80269 1296.172149 876.2064056 990.596844 1297.904481 1399.860188 0.778261873 0.668147938 0.935815748 0.872073719 0.708501248 0.925929718 0.625924227 0.707639843 0.927167221 1 10.45106703 -13.52287875 0.212260588 2.141159046 0.743102071 0.333528003 0.102778884 35.75266175 0.446148857 16.87029095 0.088302942 3.00E-14 13.52287875 -1.398056974 IISPGSSTPSSTRS(ph)PPPGR ddPTM_HeLa_SAHA_4h_R1 2 IISPGSSTPSSTRSPPPGR 19 1 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 IISPGSSTPS(0.014)S(0.095)T(0.379)RS(0.512)PPPGR;IISPGSSTPS(0.019)S(0.019)T(0.175)RS(0.787)PPPGR ; 90.259 0.0012241 15048500 2216.55 2168.84 1589.7 2462.3 2729.2 3675.2 3000.3 2557.7 3532.2 2470.1 TRUE FALSE FALSE 2449.696899 2239.111839 1806.336037 2509.961377 2520.089286 3362.052284 2662.698348 2492.277738 3507.619133 2576.598099 0.950748547 0.869018664 0.701054634 0.974137712 0.978068441 1.30484156 1.033416251 0.967274539 1.361337313 1 11.33125181 -5.499417241 24.77279649 0.945367714 1.102743621 0.082174095 0.175040524 722.0061503 762359.2322 0.017276256 0.038395393 3.17E-06 5.499417241 0.157375907 IISPGSSTPSSTRS(ph)PPPGRDESYPR ddPTM_HeLa_SAHA_4h_R1 1 IISPGSSTPSSTRSPPPGRDESYPR 25 2 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 IIS(0.001)PGS(0.001)S(0.002)T(0.005)PS(0.037)S(0.099)T(0.099)RS(0.738)PPPGRDES(0.009)Y(0.008)PR 41.45 0.020067 12211000 1077.8 987.78 1030.3 1342.8 1128.2 1053 1250.9 1205.1 1065.2 1029.1 TRUE FALSE FALSE 1191.167949 1019.78472 1170.703918 1368.791836 1041.75756 963.278476 1110.14544 1174.275287 1057.787186 1073.469537 1.109642992 0.949989436 1.090579544 1.275110088 0.970458428 0.897350547 1.03416576 1.093906484 0.985390968 1 10.06806554 -4.250300884 21.49529139 1.046833723 1.093906674 0.01772759 0.100824159 1011.773943 1952247.815 0.013983065 0.24241241 5.62E-05 4.250300884 0.047072951 IISSIEQK ddPTM_HeLa_SAHA_4h_R1 1 IISSIEQK 8 0 P62258;P62258-2;B4DJF2;I3L3T1;K7EIT4 P62258 YWHAE 14-3-3 protein epsilon 0 0 107.01 0.01024 1645000 1596.3 1709.6 1517 1415.3 1901.2 1727.3 1561.8 1626.1 1594.6 1556.2 FALSE FALSE TRUE 1764.206158 1764.992162 1723.72886 1442.695178 1755.530467 1580.124322 1386.062154 1584.506717 1583.503049 1623.295398 1.086805372 1.087289574 1.061870108 0.888744698 1.081460878 0.973405287 0.853857009 0.976104977 0.975486686 1 10.66470984 -5.270984951 0.911748561 1.043752004 0.908848115 0.246368996 0.06791926 0.679758414 0.903769967 0.01102024 0.06419345 5.36E-06 5.270984951 -0.134903889 IISVTPVK(ac)NIDPVK ddPTM_HeLa_SAHA_4h_R1 2 IISVTPVKNIDPVK 14 1 Q29RF7 Q29RF7 PDS5A Sister chromatid cohesion protein PDS5 homolog A 0 1 ; IISVTPVK(1)NIDPVK;IISVTPVK(1)NIDPVK 167.98 2.15E-10 938160 306.73 310.42 105.79 391.53 536.12 593.87 426.54 673.12 184.33 280.032 FALSE TRUE FALSE 338.9932687 320.4778117 120.2065103 399.1086293 495.0426014 543.268935 378.5445966 655.9025651 183.0472325 292.10555 1.160516357 1.09713017 0.411517379 1.366316489 1.694738773 1.859837771 1.295917166 2.24543 0.626647568 1 8.190345959 -5.923827558 4.00806602 1.029274862 1.742580673 0.619912741 0.323598558 0.118783896 3.746111392 0.04200982 0.078056575 1.19E-06 5.923827558 0.713305812 IITEGFEAAK ddPTM_HeLa_SAHA_4h_R1 2 IITEGFEAAK 10 0 P40227;P40227-2 P40227 CCT6A T-complex protein 1 subunit zeta 0 0 ; ; 134.26 1.84E-06 1328000 1470.25 1663.81 1408.29 1499.27 1914.39 1801.8 1654.04 1448.17 1452.51 1460.81 FALSE FALSE TRUE 1624.897641 1717.718536 1600.204427 1528.290539 1767.709852 1648.276503 1467.923066 1411.127908 1442.401865 1523.792668 1.066350872 1.127265258 1.050145772 1.00295176 1.160072422 1.081693421 0.963335168 0.926062934 0.946586694 1 10.5734509 -4.628598338 4.966206536 1.049886466 0.934869605 0.35911903 0.059129991 0.154630947 5.96502884 0.00772355 0.031067071 2.35E-05 4.628598338 -0.115016861 IITLAGPTNAIFK ddPTM_HeLa_SAHA_4h_R1 1 IITLAGPTNAIFK 13 0 Q15366-2;Q15366;Q15366-3;Q15366-6;Q15366-5;H3BRU6;F8VZX2;Q15366-8;Q15366-4;Q15366-7;F8W0G4;F8VXH9;F8W1G6 Q15366-2 PCBP2 Poly(rC)-binding protein 2 0 0 204.17 1.04E-23 1569100 1013.9 759.9 1493.4 1080.6 1126.1 252.82 1128.5 210.72 114.12 361.38 FALSE FALSE TRUE 1120.546654 784.5212586 1696.912775 1101.516576 1039.818461 231.2783137 1001.51821 205.3300875 113.3258296 376.9608604 2.972580901 2.08117431 4.501562239 2.922097999 2.758425531 0.613534024 2.656822804 0.544698692 0.300630229 1 8.558270927 -5.275148772 24.54936597 2.284635966 1.410198841 0.141214408 1.207669958 1122.001653 2009164.534 0.174703062 0.392672657 5.31E-06 5.275148772 -0.874437125 IITT(ph)PTK ddPTM_HeLa_SAHA_4h_R1 1 IITTPTK 7 0 D6RCT7;C9JKA9;Q9NS87-4;Q9NS87-2;Q9NS87 D6RCT7 KIF15 Kinesin-like protein;Kinesin-like protein KIF15 1 0 IIT(0.339)T(0.659)PT(0.002)K 101.46 0.022409 12051000 4676.5 4378 4258.8 4814 5439.6 5578.6 5306.9 4943.4 5111.1 5120.3 TRUE FALSE FALSE 5168.395727 4519.850073 4839.167085 4907.181931 5022.819023 5103.271896 4709.753645 4816.954986 5075.531439 5341.061191 0.967672068 0.846245701 0.906031014 0.918765346 0.940415929 0.955479017 0.881801102 0.901872271 0.950285207 1 12.3829107 -7.464715063 7.864536671 0.985863213 0.909469287 0.480578866 0.030762838 0.157773009 19.23808708 0.005267532 0.005962468 3.43E-08 7.464715063 -0.076393927 IIVDELKQEVISTSSK ddPTM_HeLa_SAHA_4h_R1 1 IIVDELKQEVISTSSK 16 1 P63244;H0YAF8;J3KPE3;H0Y8W2;D6RAC2;H0YAM7;D6REE5;D6RF23;H0Y9P0 P63244 GNB2L1 "Guanine nucleotide-binding protein subunit beta-2-like 1;Guanine nucleotide-binding protein subunit beta-2-like 1, N-terminally processed" 0 0 82.942 0.012619 704460 419.89 469.97 498.38 409.64 442.89 410.62 476.64 515.09 337.92 433.15 FALSE FALSE TRUE 464.0559567 485.1973364 566.2966309 417.5691745 408.9558639 375.6328659 423.0072128 501.9147436 335.5683872 451.8252163 1.027069628 1.073860685 1.253353311 0.924182979 0.905119611 0.831367645 0.936218691 1.110860407 0.742695129 1 8.819620979 IIVEK(ac)PFGR ddPTM_HeLa_SAHA_4h_R1 1 IIVEKPFGR 9 1 P11413-3;P11413;P11413-2;E7EM57;E7EUI8;E9PD92 P11413-3 G6PD Glucose-6-phosphate 1-dehydrogenase 0 1 IIVEK(1)PFGR 126.24 0.0017398 5769700 861.59 2041.5 1224.7 1497.8 1678.4 2095.7 2168.3 1350.2 1544.6 908.46 FALSE TRUE FALSE 952.2159893 2107.645939 1391.595738 1526.792085 1549.801355 1917.13457 1924.317177 1315.663839 1533.851003 947.6281565 1.004841385 2.224127602 1.468504 1.61117214 1.635453046 2.023087386 2.030666949 1.38837563 1.618621178 1 9.888177255 -7.286478186 24.23282494 1.002286129 1.765886279 0.348558437 0.315915629 205.2407988 198633.6539 0.040252258 0.046041984 5.17E-08 7.286478186 0.76360015 IIYGGSVTGATCK ddPTM_HeLa_SAHA_4h_R1 4 IIYGGSVTGATCK 13 0 P60174;P60174-3;P60174-4 P60174 TPI1 Triosephosphate isomerase 0 0 ;;; ;;; 199.08 5.64E-10 5405000 2416.3 2186.74 1935.43 2515.25 2031.5 2554.72 2269.61 2412.63 2284.23 2164.01 FALSE FALSE TRUE 2670.45752 2257.591811 2199.180321 2563.936301 1875.846909 2337.043484 2014.22751 2350.918418 2268.333857 2257.311062 1.183025931 1.000124373 0.974247794 1.135836502 0.831009488 1.035321859 0.89231278 1.041468523 1.004883153 1 11.14038952 -6.337224116 1.169908797 1.081945562 0.962313111 0.072018726 0.093790639 0.547278585 1.482220975 0.017341141 0.033178889 4.60E-07 6.337224116 -0.119632452 IK(ac)IIAPPER ddPTM_HeLa_SAHA_4h_R1 1 IKIIAPPER 9 1 P60709;P63267-2;Q562R1;A0A2R8YFE2;P63267;P68133;P68032;P62736;A6NL76;P63261 P60709;P63267;P63261 ACTB;ACTG2;ACTBL2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Beta-actin-like protein 2;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 1 IK(1)IIAPPER 93.111 0.018717 5910500 1063.2 1637.2 1449.6 1079.5 1358.3 1308.8 1486.8 1381.6 1259 1104.1 FALSE TRUE FALSE 1175.032254 1690.246354 1647.143939 1100.395283 1254.227347 1197.282877 1319.501351 1346.260673 1250.238516 1151.703154 1.020256174 1.467605909 1.430180974 0.955450438 1.089019634 1.039575929 1.145695699 1.168930264 1.085556215 1 10.1695532 -7.476911579 24.99866414 1.008936297 1.179898628 0.163237908 0.151981508 488.3916103 265607.2571 0.027115147 0.030880408 3.33E-08 7.476911579 0.170962331 IK(ac)IIAPPERK ddPTM_HeLa_SAHA_4h_R1 2 IKIIAPPERK 10 2 P60709;P63267-2;Q562R1;A0A2R8YFE2;P63267;P68133;P68032;P62736;A6NL76;P63261 P60709;P63267;P63261 ACTB;ACTG2;ACTBL2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;Beta-actin-like protein 2;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 1 ; IK(1)IIAPPERK;IK(1)IIAPPERK 107.55 0.0020484 0 5714.6 4970.1 5488.7 4023.7 5171.1 4904 6220.4 4994.4 3949.3 4317.5 FALSE TRUE FALSE 6315.687848 5131.134501 6236.671452 4101.584532 4774.891435 4486.151611 5520.464221 4866.65048 3921.8165 4503.648554 1.402349178 1.139328355 1.384804204 0.910724823 1.060227364 0.99611494 1.22577598 1.080601743 0.870808735 1 12.13687853 -6.253797824 24.98916588 1.203500256 1.061247393 0.058328992 0.168217314 937.4917865 3065752.06 0.026102742 0.042741876 5.57E-07 6.253797824 -0.142252863 IKDMDLWEQQEEER ddPTM_HeLa_SAHA_4h_R1 2 IKDMDLWEQQEEER 14 1 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 ; ; 118.52 0.0015061 10706500 2071.75 1977.36 1732.27 2288.96 2277.26 2586 2380.93 1813.91 2591.3 1995.62 FALSE FALSE TRUE 2289.666171 2041.427761 1968.334734 2333.266131 2102.776831 2365.658252 2113.02149 1767.512809 2573.266932 2081.660945 1.099922721 0.980672557 0.945559717 1.120867515 1.010143768 1.136428225 1.015065155 0.849087751 1.236160451 1 11.02351939 -4.283118976 4.222757929 1.044374228 0.837312501 0.351136239 0.084446569 0.130676778 5.134356493 0.008450218 0.077867745 5.21E-05 4.283118976 -0.207061727 IKDPDASKPEDWDER ddPTM_HeLa_SAHA_4h_R1 2 IKDPDASKPEDWDER 15 2 P27797;K7EJB9 P27797 CALR Calreticulin 0 0 ; ; 103.66 0.0054683 138746000 8286.6 7456.3 7479 8869.5 9129.8 10718.3 10184 9086.9 9264.1 8869.7 FALSE FALSE TRUE 9158.222608 7697.889012 8498.199171 9041.181998 8430.276696 9805.04054 9038.069517 8854.470256 9199.630374 9252.116174 0.989851666 0.832013873 0.918514101 0.977201521 0.91117281 1.059761935 0.976865114 0.957021085 0.994327157 1 13.17556767 -7.488443435 24.99903804 0.995522844 0.948679732 0.135651831 0.054741094 677.6080312 491927.9853 0.00970023 0.010737999 3.25E-08 7.488443435 -0.046843112 IKEEEPDPEEWQLS(ph)GDSTLNTNDLTHLR ddPTM_HeLa_SAHA_4h_R1 1 IKEEEPDPEEWQLSGDSTLNTNDLTHLR 28 1 A0A494C1G8;A0A494C0Z6;H0Y6K5;A0A494C070;H0Y7L6;Q02447-4;Q02447-3;Q02447-5;Q02447-6;Q02447-2;Q02447 A0A494C1G8 SP3 Transcription factor Sp3 1 0 IKEEEPDPEEWQLS(0.976)GDS(0.017)T(0.007)LNTNDLTHLR 60.172 0.001651 3138300 890.56 747.61 877.71 771.29 835.25 1024.1 1070.1 872.1 733.56 897.19 TRUE FALSE FALSE 984.2331868 771.8330545 997.3197479 786.2194333 771.2533254 936.8409186 949.6895317 849.7929448 728.4550962 935.8722516 1.051674719 0.824720525 1.065657996 0.840092686 0.824101072 1.001035042 1.014764066 0.908022375 0.778370226 1 9.870167802 -7.302380394 24.99870263 1.024401957 0.930031938 0 0.111072779 527.1361717 321869.7291 0.013290655 0.015198526 4.98E-08 7.302380394 -0.094370018 IKEEVLS(ph)ESEAENQQAGAAALAPEIVIK ddPTM_HeLa_SAHA_4h_R1 3 IKEEVLSESEAENQQAGAAALAPEIVIK 28 1 Q9UJX5;Q9UJX5-3 Q9UJX5 ANAPC4 Anaphase-promoting complex subunit 4 1 0 IKEEVLS(0.923)ES(0.077)EAENQQAGAAALAPEIVIK;IKEEVLS(0.724)ES(0.276)EAENQQAGAAALAPEIVIK;IKEEVLS(0.856)ES(0.144)EAENQQAGAAALAPEIVIK ;; 91.437 1.63E-06 86376000 4273.9 5000.6 3923.7 5321.3 5298.9 5851.3 5206.7 4977.2 4960.1 5274.4 TRUE FALSE FALSE 4723.448411 5162.622721 4458.401402 5424.301456 4892.899427 5352.736321 4620.828413 4849.890431 4925.58226 5501.805196 0.858527018 0.938350693 0.810352465 0.985913034 0.889326185 0.972905461 0.839874959 0.881508933 0.895266569 1 12.42568934 -9.43734529 1.118177452 1.001137805 0.895205496 0 0.061628363 0.432239952 0.949891135 0.03626817 0.008680182 3.65E-10 9.43734529 -0.105932309 IKGS(ph)SPGIQDTLEAEDGAFETDEAPEDR ddPTM_HeLa_SAHA_4h_R1 3 IKGSSPGIQDTLEAEDGAFETDEAPEDR 28 1 Q9UNX4 Q9UNX4 WDR3 WD repeat-containing protein 3 1 0 IKGS(0.463)S(0.463)PGIQDT(0.075)LEAEDGAFETDEAPEDR;IKGS(0.494)S(0.494)PGIQDT(0.013)LEAEDGAFETDEAPEDR;IKGS(0.496)S(0.496)PGIQDT(0.008)LEAEDGAFETDEAPEDR ;; 100.79 5.10E-07 79175100 4551.5 4431.37 3871.5 4675.2 5217.9 5396.2 4772.6 5634 3883.4 4836.1 TRUE FALSE FALSE 5030.247653 4574.949296 4399.087858 4765.695256 4818.105629 4936.413402 4235.574487 5489.890438 3856.375103 5044.607938 0.99715334 0.906898881 0.872037612 0.944710732 0.955100116 0.978552439 0.839624117 1.088269 0.76445487 1 12.30052643 -7.282888819 22.08710815 0.998655762 0.936369382 0 0.097208117 212.6330415 218953.5256 0.009747121 0.011155788 5.21E-08 7.282888819 -0.06228638 IKGSSPGIQDT(ph)LEAEDGAFETDEAPEDR ddPTM_HeLa_SAHA_4h_R1 1 IKGSSPGIQDTLEAEDGAFETDEAPEDR 28 1 Q9UNX4 Q9UNX4 WDR3 WD repeat-containing protein 3 1 0 IKGS(0.231)S(0.231)PGIQDT(0.537)LEAEDGAFETDEAPEDR 86.32 1.05E-05 3732400 644.86 689.47 678.35 423.71 655.79 796.8 618.09 695.45 562.83 708.42 TRUE FALSE FALSE 712.6893335 711.8092804 770.7920053 431.9115197 605.5435119 728.9081573 548.5408865 677.661396 558.9132202 738.9634531 0.964444629 0.9632537 1.043071889 0.584482924 0.819449878 0.986392702 0.742311253 0.917043181 0.756347581 1 9.529359205 IKNENTEGS(ph)PQEDGVELEGLK ddPTM_HeLa_SAHA_4h_R1 4 IKNENTEGSPQEDGVELEGLK 21 1 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 1 0 IKNENT(0.001)EGS(0.999)PQEDGVELEGLK;IKNENTEGS(1)PQEDGVELEGLK;IKNENTEGS(1)PQEDGVELEGLK;IKNENTEGS(1)PQEDGVELEGLK ;;; 128.51 6.35E-06 338672000 15007.8 11737.6 8052.1 8529.3 12933.9 14984 13062.9 13646.8 9539.1 11161.8 TRUE FALSE FALSE 16586.38926 12117.90594 9149.398254 8694.396935 11942.90738 13707.2789 11593.02811 13297.73462 9472.716626 11643.03982 1.424575499 1.040785407 0.785825557 0.746746302 1.025755091 1.177293826 0.995704583 1.142118795 0.813594797 1 13.50718015 -7.016077298 24.11359612 1.20218802 0.974685131 0 0.200274612 525.2069183 787733.9499 0.033813518 0.042077512 9.64E-08 7.016077298 -0.227502889 IKNPFLSLAACVMPSR ddPTM_HeLa_SAHA_4h_R1 1 IKNPFLSLAACVMPSR 16 1 Q92616 Q92616 GCN1L1 Translational activator GCN1 0 0 69.485 0.01511 419010 0 0 184.56 0 0 133.16 121.43 0 0 66.708 FALSE FALSE TRUE 0 0 209.7108757 0 0 121.8140189 107.7663768 0 0 69.58410834 0 0 3.013775424 0 0 1.750601132 1.5487211 0 0 1 6.120685955 IKREDY(ph)ES(ph)LPK ddPTM_HeLa_SAHA_4h_R1 1 IKREDYESLPK 11 2 A0A2R8YCS7;Q9Y3Z3-3;Q9Y3Z3-4;Q9Y3Z3;A0A2R8YF18;A0A2R8YFV6 A0A2R8YCS7 SAMHD1 Deoxynucleoside triphosphate triphosphohydrolase SAMHD1 2 0 IKREDY(1)ES(1)LPK 70.622 0.0059218 0 1346.7 2008.3 1344.8 1390 1515.1 2175.6 1589.3 1270.8 2393.3 1903.6 TRUE FALSE FALSE 1488.352085 2073.370238 1528.062341 1416.90546 1399.013365 1990.22664 1410.467781 1238.294776 2376.64483 1985.673512 0.749545218 1.044164726 0.769543599 0.713564164 0.704553572 1.002292989 0.710322101 0.623614491 1.196896074 1 10.95541272 -13.52287875 0.211105523 2.056568051 0.749698001 0.426166322 0.137777337 47.64138841 0.593085264 20.86193681 0.111791076 3.00E-14 13.52287875 -1.306870051 IKS(ph)VVMEGGEER ddPTM_HeLa_SAHA_4h_R1 1 IKSVVMEGGEER 12 1 A0A5H1ZRP3;O43151-3;O43151-2;O43151 A0A5H1ZRP3 TET3 Methylcytosine dioxygenase TET3 1 0 IKS(1)VVMEGGEER 114.86 0.019866 28157000 1100.1 1601.2 1241.9 1092.1 1414.9 1473.7 1324.9 1150.8 1948.3 1340.4 TRUE FALSE FALSE 1215.813565 1653.079931 1411.139664 1113.239175 1306.490668 1348.132469 1175.818765 1121.364202 1934.741622 1398.191204 0.869561732 1.182298906 1.009260866 0.796199527 0.934414881 0.964197504 0.840957061 0.802010626 1.383746097 1 10.44934595 -6.27534574 24.85889872 0.96384294 0.875161565 0.144464516 0.161398609 1090.098927 1948649.109 0.015811276 0.024230189 5.30E-07 6.27534574 -0.088681375 IKTEPS(ph)SPLSDPSDIIR ddPTM_HeLa_SAHA_4h_R1 1 IKTEPSSPLSDPSDIIR 17 1 Q9ULJ3-2;Q9ULJ3 Q9ULJ3-2 ZBTB21 Zinc finger and BTB domain-containing protein 21 1 0 IKT(0.011)EPS(0.476)S(0.476)PLS(0.017)DPS(0.02)DIIR 108.97 0.0074237 5451600 831.57 662.86 681.14 697.87 920.93 689.38 1015.4 756.44 845.51 875.41 TRUE FALSE FALSE 919.038348 684.3370989 773.962212 711.378283 850.3685424 630.6409457 901.1445196 737.0913601 839.6260271 913.1532093 1.006444854 0.749421994 0.847571036 0.77903497 0.931244104 0.690618988 0.986849206 0.807193527 0.919479906 1 9.834713126 -7.278981662 24.37704524 1.003043414 0.831196917 0.379186169 0.0844128 315.1498378 437936.3305 0.012214586 0.013985935 5.26E-08 7.278981662 -0.171846497 IKTEPSS(ph)PLSDPSDIIR ddPTM_HeLa_SAHA_4h_R1 1 IKTEPSSPLSDPSDIIR 17 1 Q9ULJ3-2;Q9ULJ3 Q9ULJ3-2 ZBTB21 Zinc finger and BTB domain-containing protein 21 1 0 IKT(0.001)EPS(0.077)S(0.578)PLS(0.233)DPS(0.111)DIIR 85.518 0.0041833 18606000 2742.5 1966.5 1883.2 2402 2427.1 2365.2 2469.4 2891.2 2539.7 2537.7 TRUE FALSE FALSE 3030.968733 2030.21589 2139.832689 2448.494183 2241.136122 2163.671654 2191.536613 2817.24729 2522.026021 2647.112666 1.145009342 0.766954847 0.808364795 0.924967877 0.846634203 0.817370443 0.827896992 1.064271773 0.952746006 1 11.37020388 -7.264439694 24.9998679 1.068476635 0.861331426 0.394644896 0.091735013 149.0403164 1241862.651 0.015353473 0.017959495 5.44E-08 7.264439694 -0.207145208 IKTLFPLIEAK ddPTM_HeLa_SAHA_4h_R1 1 IKTLFPLIEAK 11 1 P13010 P13010 XRCC5 X-ray repair cross-complementing protein 5 0 0 95.477 0.0087052 0 220.27 167.12 327.02 197.99 252.55 53.005 264.17 0 0 184.23 FALSE FALSE TRUE 243.4390092 172.5347977 371.5845826 201.8223827 233.1996736 48.4886758 234.4448963 0 0 192.1730569 1.266769719 0.897809508 1.933593546 1.050211648 1.21348787 0.252317763 1.219967565 0 0 1 7.586262271 -5.278351434 24.5136614 1.172476508 0.563682359 0.15626914 0.541304752 487.1483507 706110.7403 0.051926782 0.116412294 5.27E-06 5.278351434 -0.608794149 IKWDEQTSNTKGDDDEES(ph)DEEAVK ddPTM_HeLa_SAHA_4h_R1 1 IKWDEQTSNTKGDDDEESDEEAVK 24 2 O43395 O43395 PRPF3 U4/U6 small nuclear ribonucleoprotein Prp3 1 0 IKWDEQT(0.001)S(0.001)NT(0.001)KGDDDEES(0.997)DEEAVK 84.576 0.00014504 4896900 486.9 452.32 508.67 430.15 368.12 420.64 688.47 586.06 387.95 523.37 TRUE FALSE FALSE 538.114376 466.9754648 577.9888986 438.4761753 339.9147251 384.7991055 611.0015436 571.0694338 385.2502244 545.935042 0.985674732 0.855368183 1.058713682 0.803165471 0.622628516 0.704844122 1.119183596 1.046039162 0.705670446 1 9.092585492 -7.292536754 9.242165002 0.993290606 0.882252249 0 0.174007256 0.785044894 225.9786019 0.026952832 0.030933066 5.10E-08 7.292536754 -0.111038357 ILALCMGNHELYMR ddPTM_HeLa_SAHA_4h_R1 5 ILALCMGNHELYMR 14 0 A0A2R8Y7M3;A0A2R8Y5S7;P35241;P35241-5;P35241-4;P26038 A0A2R8Y7M3;P26038 RDX;MSN Radixin;Moesin 0 0 ;;;; ;;;; 139.78 7.70E-05 20877500 1342.73 1708.727 2383.02 1814.53 1793.6 599.982 2273.58 411.9 581.69 1327.13 FALSE FALSE TRUE 1483.964502 1764.090876 2707.765555 1849.652852 1656.174755 548.8601582 2017.750795 401.3641944 577.6419719 1384.349069 1.07195832 1.274310732 1.955984669 1.336117381 1.196356318 0.396475261 1.457544805 0.289929905 0.417266125 1 10.43499205 -5.328683407 24.99887299 1.156730343 0.788934101 0.169787255 0.459892421 254.3753144 94566.86877 0.057386436 0.128319991 4.69E-06 5.328683407 -0.367796242 ILAQILADSGIDTSDMK ddPTM_HeLa_SAHA_4h_R1 1 ILAQILADSGIDTSDMK 17 0 H7BZR5;A0A0A0MSY6;Q86XH1-2;Q86XH1-5;Q86XH1 H7BZR5 IQCA1 IQ and AAA domain-containing protein 1 0 0 79.82 0.019422 0 224.72 249.49 129.55 306.58 138.94 123.9 0 73.48 157 302.6 FALSE FALSE TRUE 248.3570807 257.5736397 147.2043993 312.5142992 128.2944472 113.343023 0 71.600488 155.9074242 315.6465669 0.786820155 0.816019139 0.466358309 0.990076662 0.406449684 0.359082071 0 0.226837531 0.493930366 1 8.30216625 -5.475923783 0.548295234 0.916254727 1.80E-33 0.533949722 0.215551403 0.523927177 0.22177056 0.037025676 0.243488139 3.34E-06 5.475923783 -0.916254727 ILAT(ph)PPQEDAPSVDIANIR ddPTM_HeLa_SAHA_4h_R1 2 ILATPPQEDAPSVDIANIR 19 0 P29401;P29401-2;A0A0B4J1R6;E9PFF2 P29401 TKT Transketolase 1 0 ILAT(1)PPQEDAPSVDIANIR;ILAT(1)PPQEDAPSVDIANIR ; 136.33 0.00014286 76087000 4728 4689.9 4193.5 4741.6 5169.2 5074.5 5136.3 4036.8 3926.5 4899.9 TRUE FALSE FALSE 5225.312733 4841.855837 4764.968341 4833.380524 4773.137013 4642.124052 4558.350006 3933.544501 3899.175167 5111.158669 1.022334283 0.947310806 0.93226774 0.945652608 0.933865944 0.908233211 0.89184279 0.769599372 0.762875 1 12.31943466 -2.12250002 0.30798418 1.013648113 1.27E-17 0 0.082325632 6.548985169 0.156639298 0.010465083 3.278055381 0.007542234 2.12250002 -1.013648113 ILATPPQEDAPS(ph)VDIANIR ddPTM_HeLa_SAHA_4h_R1 1 ILATPPQEDAPSVDIANIR 19 0 P29401;P29401-2;A0A0B4J1R6;E9PFF2 P29401 TKT Transketolase 1 0 ILATPPQEDAPS(1)VDIANIR 145.82 8.96E-05 5263700 1315.6 1069.8 1162.1 1637.9 1454.7 1271.5 1404.3 1184.7 976.4 1327.9 TRUE FALSE FALSE 1453.980844 1104.462222 1320.464936 1669.603923 1343.2412 1163.161047 1246.284468 1154.397089 969.6051529 1385.152268 1.04969026 0.797357986 0.95329948 1.205357679 0.969742628 0.83973515 0.899745463 0.833408078 0.699998964 1 10.43582886 -5.379631574 4.957175901 1.013243426 0.862828215 0 0.13783923 0.201803499 7.372050898 0.013936672 0.031867903 4.17E-06 5.379631574 -0.15041521 ILATPPQEDAPSVDIANIR ddPTM_HeLa_SAHA_4h_R1 4 ILATPPQEDAPSVDIANIR 19 0 P29401;P29401-2;A0A0B4J1R6;E9PFF2 P29401 TKT Transketolase 0 0 ;;; ;;; 260.29 1.38E-74 27484980 4194.59 3838.61 3135.38 4275.25 4093.59 4634.3 4219.73 4351.97 3994.14 3741.39 FALSE FALSE TRUE 4635.796222 3962.983483 3562.653258 4358.003646 3779.940019 4239.431568 3744.914875 4240.652909 3966.344455 3902.699633 1.187843457 1.015446705 0.912868935 1.116663862 0.968544949 1.086281796 0.959570356 1.086594744 1.016307897 1 11.93025672 ILCKS(ph)PQSDPADTPT(ph)NTK ddPTM_HeLa_SAHA_4h_R1 1 ILCKSPQSDPADTPTNTK 18 1 P46013;P46013-2 P46013 MKI67 Antigen KI-67 2 0 ILCKS(0.607)PQS(0.393)DPADT(0.246)PT(0.714)NT(0.04)K 84.025 0.022611 3143400 1839.3 1135 1007.5 1486.7 1172.8 1519.2 1451.1 1907.1 1265 1626.2 TRUE FALSE FALSE 2032.766013 1171.774745 1144.796853 1515.477228 1082.940317 1389.755613 1287.818409 1858.319143 1256.196762 1696.31344 1.198343398 0.690777257 0.67487342 0.893394577 0.638408145 0.819279963 0.759186586 1.09550458 0.740545192 1 10.72818706 -7.260640212 24.99996461 1.093662162 0.788439085 0.095968846 0.172185484 41.99378531 1313675.566 0.022955348 0.027244644 5.49E-08 7.260640212 -0.305223077 ILDEIEEHNIK ddPTM_HeLa_SAHA_4h_R1 2 ILDEIEEHNIK 11 0 B5MCX3;Q15019;Q15019-3;Q15019-2;H7C2Y0;C9J2Q4 B5MCX3 2-Sep Septin-2 0 0 ; ; 144.17 0.00081176 17090900 6549.7 6402.5 6738.4 7015.7 6815 8073.5 7405.7 6915.2 7274.7 6830.1 FALSE FALSE TRUE 7238.627497 6609.945201 7656.67406 7151.499018 6292.836172 7385.59238 6572.391145 6738.319197 7224.07477 7124.579037 1.016007747 0.927766422 1.074684416 1.003778466 0.883257262 1.036635616 0.922495366 0.94578489 1.013965139 1 12.79858906 -5.948777995 24.99877705 1.006559282 0.950667776 0.258778722 0.048773627 108.0577057 52736.70712 0.006550328 0.011873476 1.13E-06 5.948777995 -0.055891507 ILDSVGIEADDDRLNK ddPTM_HeLa_SAHA_4h_R1 4 ILDSVGIEADDDRLNK 16 1 P05387 P05387 RPLP2 60S acidic ribosomal protein P2 0 0 ;;; ;;; 231.58 1.88E-27 103910500 7456.37 9351.1 8797.35 8970.72 9284 10252.1 9848.58 8665.62 9519.6 8541.83 FALSE FALSE TRUE 8240.665208 9654.081775 9996.207043 9144.361257 8572.661926 9378.563403 8740.391858 8443.965988 9453.352329 8910.110094 0.924866822 1.083497474 1.121894897 1.02629049 0.962127497 1.052575479 0.980952173 0.947683687 1.060969194 1 13.12122754 -7.272060519 24.95172612 0.964520445 1.025727141 0 0.061303235 867.1210349 2037079.515 0.010144381 0.011670896 5.34E-08 7.272060519 0.061206696 ILDWHVANTDK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 ILDWHVANTDKK 12 1 P37837;F2Z393 P37837 TALDO1 Transaldolase 0 1 ; ILDWHVANTDK(1)K;ILDWHVANTDK(1)K 112.84 0.0013307 3032000 1692.63 3285.4 2152.6 2217.25 3743.6 3499.2 3684.9 2451.04 2797.2 1152.43 FALSE TRUE FALSE 1870.668589 3391.849116 2445.945118 2260.16808 3456.766177 3201.048474 3270.265354 2388.345946 2777.734057 1202.116897 1.556145325 2.821563463 2.034698226 1.880156651 2.87556575 2.662842925 2.720422083 1.986783441 2.310702116 1 10.23136148 -7.600969936 0.795074176 1.093174125 2.49025269 0.136940687 0.539097844 0.21813421 0.293634404 0.105852801 0.101890848 2.51E-08 7.600969936 1.397078565 ILEDHGS(ph)PAGEIDDEDKDKDETETVK ddPTM_HeLa_SAHA_4h_R1 3 ILEDHGSPAGEIDDEDKDKDETETVK 26 2 A0A5H1ZRS1;A0A4W8VX11;Q15154-5;Q15154-4;Q15154-2;Q15154;H0YBA1 A0A5H1ZRS1 PCM1 Pericentriolar material 1 protein 1 0 ILEDHGS(0.999)PAGEIDDEDKDKDETETVK;ILEDHGS(1)PAGEIDDEDKDKDETETVK;ILEDHGS(0.995)PAGEIDDEDKDKDET(0.004)ET(0.001)VK ;; 61.537 0.0014368 58427000 3851.26 3500.23 3508.56 3888.4 4747.9 4956.8 4196.88 4309.96 5296.5 4129.36 TRUE FALSE FALSE 4256.353197 3613.639749 3986.688285 3963.665605 4384.116928 4534.452754 3724.636017 4199.717464 5259.641225 4307.396918 0.988149752 0.838938184 0.925544676 0.920199759 1.017811224 1.052713005 0.864706942 0.97500127 1.221071874 1 12.07260056 -7.489243868 24.89720415 0.994771995 0.942600314 0.165422759 0.093635554 617.7226379 457254.5305 0.010580912 0.011678591 3.24E-08 7.489243868 -0.052171682 ILEDVVGVPEK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 ILEDVVGVPEKK 12 1 Q9ULW0;Q9ULW0-2 Q9ULW0 TPX2 Targeting protein for Xklp2 0 1 ; ILEDVVGVPEK(1)K;ILEDVVGVPEK(1)K 103.34 0.0048421 867930 731.66 716.43 330.44 846.94 706 847.08 878.84 1295.65 932.36 458.12 FALSE TRUE FALSE 808.6193558 739.6428021 375.4706423 863.3337484 651.9064325 774.9040185 779.9506102 1262.509149 925.8716308 477.8717952 1.692126139 1.547785012 0.785714173 1.806622105 1.364186878 1.621573038 1.632133593 2.641941127 1.937489595 1 8.90047981 -1.284075316 0.807562476 1.339017477 199.9983037 0.488267722 0.345563437 166.6343442 0.888432446 0.052857236 60133.13719 0.051990583 1.284075316 198.6592862 ILEGDNGMDS(ph)DMEEEADDGSK ddPTM_HeLa_SAHA_4h_R1 5 ILEGDNGMDSDMEEEADDGSK 21 0 Q9H8G2;A0A3B3ISJ3;Q9H8G2-2 Q9H8G2 CAAP1 Caspase activity and apoptosis inhibitor 1 1 0 ILEGDNGMDS(1)DMEEEADDGSK;ILEGDNGMDS(1)DMEEEADDGSK;ILEGDNGMDS(1)DMEEEADDGSK;ILEGDNGMDS(1)DMEEEADDGSK;ILEGDNGMDS(1)DMEEEADDGSK ;;;; 169.1 5.11E-08 25186400 9390.4 10247.1 8884.5 10554 11018.5 13660 12024 11021.2 11606.2 10142.7 TRUE FALSE FALSE 10378.12536 10579.11276 10095.23339 10758.28793 10174.26491 12496.09115 10671.02787 10739.29366 11525.43151 10580.00143 0.980919088 0.999916005 0.954180721 1.016851273 0.961650617 1.181104864 1.008603632 1.015055974 1.089360108 1 13.3690522 ILELDQFK ddPTM_HeLa_SAHA_4h_R1 2 ILELDQFK 8 0 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 0 ; ; 114.89 0.0053204 1380520 1215.8 1178.01 1211.18 1365.77 1296.58 789.56 1317.25 832.99 689.77 852.38 FALSE FALSE TRUE 1343.683422 1216.178297 1376.233303 1392.206453 1197.236321 722.2850461 1169.029563 811.683322 684.9698344 889.1302732 1.511233463 1.36782914 1.547842138 1.565807053 1.346525202 0.812350077 1.314801215 0.912895834 0.770381861 1 9.796251005 -4.25766613 22.95141296 1.278467013 0.912895369 0.107322234 0.278604483 187.1482216 1138192.626 0.037506285 0.36626473 5.53E-05 4.25766613 -0.365571644 ILELT(ph)PEPDRPR ddPTM_HeLa_SAHA_4h_R1 5 ILELTPEPDRPR 12 1 Q14004-2;Q14004;A0A2R8Y7W5;A0A2R8Y4Z0;A0A2R8YF61 Q14004-2 CDK13 Cyclin-dependent kinase 13 1 0 ILELT(1)PEPDRPR;ILELT(1)PEPDRPR;ILELT(1)PEPDRPR;ILELT(1)PEPDRPR;ILELT(1)PEPDRPR ;;;; 136.33 0.00088305 253561800 7970.83 8508.5 7743.71 9308.9 8178.95 9052.7 8409.9 9032.7 9049.5 8434.8 TRUE FALSE FALSE 8809.238471 8784.180983 8798.982471 9489.08722 7552.280618 8281.359031 7463.595918 8801.656613 8986.523793 8798.465507 1.001224414 0.998376476 1.000058756 1.078493427 0.858363383 0.941227652 0.848283819 1.000362689 1.021373987 1 13.10303622 -5.75328912 24.99991845 1.005234598 0.909587441 0.543351321 0.046225485 102.8700595 315538.5757 0.005896291 0.011631035 1.76E-06 5.75328912 -0.095647157 ILENEKDLEEAEEYK ddPTM_HeLa_SAHA_4h_R1 2 ILENEKDLEEAEEYK 15 1 E5RIW3;E5RJD8;E5RHG6;O75347 E5RIW3 TBCA Tubulin-specific chaperone A 0 0 ; ; 135.02 0.0003189 11964600 2626.91 2368.49 1944.65 2536.2 2325.54 3009.7 2505.99 2528.5 3290.4 2940.9 FALSE FALSE TRUE 2903.220446 2445.23063 2209.656775 2585.291818 2147.357628 2753.256628 2224.00941 2463.824631 3267.501838 3067.696591 0.946384481 0.797090115 0.720298344 0.842746908 0.699990225 0.897499654 0.72497698 0.803151341 1.065132011 1 11.58294009 -7.306171919 3.055743039 0.97761936 0.780840781 0.718171469 0.062888059 0.092140485 1.673788546 0.009231064 0.01073523 4.94E-08 7.306171919 -0.196778579 ILENEKDLEEAEEYKEAR ddPTM_HeLa_SAHA_4h_R1 4 ILENEKDLEEAEEYKEAR 18 2 E5RIW3;E5RJD8;E5RHG6;O75347 E5RIW3 TBCA Tubulin-specific chaperone A 0 0 ;;; ;;; 93.106 0.0014442 125761000 10291.7 8906.8 10621.3 10021.6 12256.2 12877.6 12419.6 11063.7 10911.7 11062.3 FALSE FALSE TRUE 11374.22823 9195.386164 12068.71545 10215.58256 11317.1326 11780.35603 11022.11392 10780.70657 10835.76459 11539.24989 0.985699099 0.796879022 1.04588388 0.885290002 0.98075115 1.020894438 0.955184611 0.934264071 0.939035439 1 13.49426182 -7.49563288 24.96281839 0.993690829 0.947429428 0.016834359 0.067814411 506.770129 464310.8088 0.010735388 0.011608816 3.19E-08 7.49563288 -0.0462614 ILENSEDS(ph)SPECLF ddPTM_HeLa_SAHA_4h_R1 2 ILENSEDSSPECLF 14 0 A0A087WSW7;F6XU50;A0A0B4J1V9;Q9NRZ9-6;Q9NRZ9-5;Q9NRZ9-3;Q9NRZ9-2;Q9NRZ9 A0A087WSW7 HELLS Lymphoid-specific helicase 1 0 ILENS(0.001)EDS(0.5)S(0.5)PECLF;ILENS(0.001)EDS(0.844)S(0.155)PECLF ; 103.76 0.0033809 2695800 973.85 842.57 475.56 757.36 737.6 746.27 959.54 852.61 593.49 550.71 TRUE FALSE FALSE 1076.284011 869.8698208 540.3668402 772.019798 681.0852474 682.6835976 851.5700338 830.8014708 589.3598548 574.4538032 1.873578006 1.514255482 0.94066196 1.343919726 1.185622314 1.188404696 1.482399506 1.446245923 1.025948216 1 9.166047068 ILEPDDFLDDLDDEDYEEDT(ph)PKRR ddPTM_HeLa_SAHA_4h_R1 1 ILEPDDFLDDLDDEDYEEDTPKRR 24 2 J3KMZ8;Q92785 J3KMZ8 DPF2 Zinc finger protein ubi-d4 1 0 ILEPDDFLDDLDDEDY(0.215)EEDT(0.785)PKRR 75.608 0.00095043 6725600 643.87 439.97 755.9 712.32 612.64 708.93 760.99 657.02 491.25 557.17 TRUE FALSE FALSE 711.5952008 454.2253167 858.9101154 726.1079836 565.6996556 648.5251757 675.3614024 640.2143798 487.8313513 581.1923254 1.224371296 0.781540459 1.477841461 1.249342002 0.973343299 1.115852958 1.162027392 1.101553396 0.83936303 1 9.182871842 -9.57139077 1.293958125 0.998484686 1.145701648 0.154825002 0.179085602 0.928769624 2.740007006 0.122236341 0.027400363 2.68E-10 9.57139077 0.147216962 ILEQQNS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 ILEQQNSSR 9 0 G3V1Q4;E7ES33;E7EPK1;Q16181-2;Q16181;Q5JXL7 G3V1Q4 SEPT7;DKFZp586I031 Septin-7 1 0 ILEQQNS(0.976)S(0.024)R 89.301 0.018328 3070100 1085 1258.5 1076.8 1251.1 1220.6 1694.1 1432.9 1564 1655.6 1394.7 TRUE FALSE FALSE 1199.125278 1299.276226 1223.540696 1275.31685 1127.077892 1549.753149 1271.666321 1523.995145 1644.078545 1454.832342 0.82423606 0.893076259 0.84101835 0.876607436 0.77471325 1.065245186 0.874098192 1.04754005 1.130081107 1 10.50663719 -1.12618285 1.056102544 0.901345923 149.724241 0.084309322 0.108061933 2120.992146 2.777506594 0.013472914 764349.5367 0.074785457 1.12618285 148.8228951 ILEQQNSSRT(ph)LEK ddPTM_HeLa_SAHA_4h_R1 2 ILEQQNSSRTLEK 13 1 G3V1Q4;E7ES33;E7EPK1;Q16181-2;Q16181;Q5JXL7 G3V1Q4 SEPT7;DKFZp586I031 Septin-7 1 0 ILEQQNS(0.024)S(0.032)RT(0.944)LEK;ILEQQNS(0.006)S(0.056)RT(0.938)LEK ; 177.39 0.00060581 122099000 4739 4815.2 6196.6 4705.5 5714.9 5635.4 6609.9 7234.8 4259.66 4702.97 TRUE FALSE FALSE 5237.469763 4971.215639 7041.040377 4796.581757 5277.025597 5155.232216 5866.136656 7049.744292 4230.016679 4905.738052 1.067621163 1.013347143 1.435266274 0.977749261 1.075684339 1.05085762 1.195770462 1.437040506 0.862258978 1 12.26025449 -4.329851824 2.0514513 1.059842652 1.513540827 0.407910508 0.139116234 0.411067517 2.087867451 0.017360587 0.327354237 4.68E-05 4.329851824 0.453698175 ILEVHIDK ddPTM_HeLa_SAHA_4h_R1 1 ILEVHIDK 8 0 P31689;P31689-2 P31689 DNAJA1 DnaJ homolog subfamily A member 1 0 0 71.692 0.021865 3443300 7024.8 7916.8 8222.8 8878.6 9191.2 9148 9739.8 7700.3 9008.8 8159.8 FALSE FALSE TRUE 7763.700695 8173.309514 9343.360361 9050.458142 8486.972242 8368.538935 8643.85207 7503.337476 8946.107027 8511.608911 0.912130806 0.960254354 1.097719651 1.063307565 0.997105521 0.983191195 1.015536799 0.881541616 1.051047707 1 13.05521615 -1.994076907 11.63819045 0.977053995 0.502383639 0 0.065986351 0 0 0.009027745 0 0.010137319 1.994076907 -0.474670356 ILFFNTPK ddPTM_HeLa_SAHA_4h_R1 1 ILFFNTPK 8 0 K7EJC1;K7EJR3;R4GMR5;P48556 K7EJC1 PSMD8 26S proteasome non-ATPase regulatory subunit 8 0 0 98.997 0.017086 188260 0 136.98 138.9 0 183.26 0 154.39 0 0 0 FALSE FALSE TRUE 0 141.4182419 157.8285686 0 169.2186584 0 137.0176309 0 0 0 0 ILGADTSVDLEETGR ddPTM_HeLa_SAHA_4h_R1 3 ILGADTSVDLEETGR 15 0 P25705-2;P25705;P25705-3;K7EK77;K7EQH4;K7EJP1;K7ERX7;K7ESA0 P25705-2 ATP5A1 "ATP synthase subunit alpha, mitochondrial" 0 0 ;; ;; 219.92 3.23E-17 18785300 1057.49 1200.36 1180.29 741.448 1222.04 1100.95 1010.93 1270.68 1025.16 1231.51 FALSE FALSE TRUE 1168.72165 1239.252452 1341.133775 755.7997982 1128.407559 1007.142866 897.1774958 1238.177846 1018.025828 1284.606423 0.909789667 0.964694267 1.044003635 0.588351253 0.878407222 0.784008898 0.698406516 0.963857741 0.792480724 1 10.3271107 -6.287436636 24.99985705 0.962886409 0.783328707 0.326915083 0.112550966 495.0897033 476094.1948 0.014290845 0.021833959 5.16E-07 6.287436636 -0.179557702 ILGQS(ph)SPEKK ddPTM_HeLa_SAHA_4h_R1 1 ILGQSSPEKK 10 1 H7C485;P29374-3;P29374-2;P29374 H7C485 ARID4A AT-rich interactive domain-containing protein 4A 1 0 ILGQS(0.662)S(0.338)PEKK 126.76 0.0054443 6448000 1532.9 1536.6 1761.2 1926 1864.4 1862.6 1669.2 1820.6 1436.1 1563.4 TRUE FALSE FALSE 1694.137455 1586.386848 2001.207164 1963.280515 1721.550075 1703.896001 1481.377223 1774.031688 1426.106063 1630.805825 1.038834562 0.972762559 1.2271278 1.203871414 1.05564381 1.044818442 0.90837131 1.087825209 0.874479378 1 10.6713693 -3.328745939 14.03895965 1.040826175 1.067373861 0 0.107357069 0 0 0.012806812 0 0.000469088 3.328745939 0.026547686 ILGSAS(ph)PEEEQEKPILDRPTR ddPTM_HeLa_SAHA_4h_R1 1 ILGSASPEEEQEKPILDRPTR 21 2 Q7Z422-2;Q7Z422-4;Q7Z422-3;Q7Z422-5;Q7Z422 Q7Z422-2 SZRD1 SUZ domain-containing protein 1 1 0 ILGS(0.09)AS(0.906)PEEEQEKPILDRPT(0.003)R 61.957 0.0072 84279000 1049.7 1156 1122 1144.1 1225 1334 1587.5 1178 1041.2 1278.4 TRUE FALSE FALSE 1160.112262 1193.455158 1274.900317 1166.24571 1131.140765 1220.335695 1408.870322 1147.868466 1033.954204 1333.51808 0.869963654 0.894967362 0.956042768 0.874563103 0.848238041 0.915124971 1.056506352 0.860782079 0.775358219 1 10.38102167 -9.476582744 1.213219692 1.000060489 0.908070809 0 0.090223246 0.529965931 1.394172031 0.040511367 0.00991244 3.34E-10 9.476582744 -0.09198968 ILHK(ac)LLQNGNSPAEVAK ddPTM_HeLa_SAHA_4h_R1 2 ILHKLLQNGNSPAEVAK 17 1 Q9Y6Q9-2;Q9Y6Q9-3;Q9Y6Q9-5;Q9Y6Q9;Q9Y6Q9-4 Q9Y6Q9-2 NCOA3 Nuclear receptor coactivator 3 0 1 ; ILHK(1)LLQNGNSPAEVAK;ILHK(1)LLQNGNSPAEVAK 226.65 7.73E-45 4208300 1548.65 1889.56 1940.17 1917.77 2714.03 1994.52 3257.61 2857.91 1358.09 1676.66 FALSE TRUE FALSE 1711.544112 1950.782984 2204.566264 1954.891211 2506.081608 1824.575675 2891.055149 2784.8088 1348.638941 1748.949018 0.978612924 1.115403001 1.260509163 1.117751971 1.432907181 1.043241202 1.653024256 1.592275573 0.771113925 1 10.77227252 -1.000003709 0.265438283 0.960294081 5.912904625 0.677482084 0.153265863 17.47264112 0.220935231 0.061942544 39.92365749 0.099999146 1.000003709 4.952610544 ILIFSSR ddPTM_HeLa_SAHA_4h_R1 2 ILIFSSR 7 0 Q8TDN6 Q8TDN6 BRIX1 Ribosome biogenesis protein BRX1 homolog 0 0 ; ; 105.27 0.017555 1844090 746.19 970.26 1447.57 1031.19 1240.74 923.06 1644.01 566.96 492.37 742.38 FALSE FALSE TRUE 824.6776878 1001.697061 1644.837301 1051.150174 1145.674769 844.410095 1459.021668 552.4579841 488.9435571 774.3876349 1.064941704 1.293534421 2.124049025 1.357395349 1.479459017 1.090423009 1.884097321 0.713412714 0.631393807 1 9.596912106 -7.163361789 4.17070813 1.03035893 1.460245823 0.260456609 0.386794854 0.239816572 7.377289351 0.056376345 0.069309327 6.86E-08 7.163361789 0.429886893 ILIPS(ph)DIESSK ddPTM_HeLa_SAHA_4h_R1 2 ILIPSDIESSK 11 0 A0A087WYW3;P30414 A0A087WYW3 NKTR NK-tumor recognition protein;Putative peptidyl-prolyl cis-trans isomerase 1 0 ILIPS(0.998)DIES(0.001)SK;ILIPS(0.997)DIES(0.003)SK ; 102.97 0.006172 17917100 6607.7 7097.6 6265.3 6792.2 6747.2 7966.3 8266.2 7382.8 7730.8 6931.9 TRUE FALSE FALSE 7302.728203 7327.566897 7119.102456 6923.672853 6230.230994 7287.526423 7336.065421 7193.958666 7677.000733 7230.768133 1.009951926 1.013387065 0.984556872 0.95752937 0.861627821 1.007849552 1.014562393 0.994909328 1.061713029 1 12.8199332 -6.540955457 4.341992561 1.005394683 0.966531092 0.222435805 0.043818689 0.291256489 13.15915409 0.00657478 0.009645647 2.88E-07 6.540955457 -0.03886359 ILISLATGHR ddPTM_HeLa_SAHA_4h_R1 2 ILISLATGHR 10 0 E5RK69;P08133-2;P08133;E7EMC6 E5RK69 ANXA6 Annexin;Annexin A6 0 0 ; ; 182.39 1.20E-17 3297500 1329.22 3087.8 1647.72 1958.51 3321.9 2699.3 3723.6 1585.07 1723.32 2334.5 FALSE FALSE TRUE 1469.033458 3187.846746 1872.262701 1996.419793 3067.37674 2469.304454 3304.610728 1544.526205 1711.327276 2435.15172 0.603261574 1.309095741 0.768848481 0.819833843 1.259624489 1.01402489 1.357045108 0.634262823 0.702760022 1 11.24979595 -5.787484672 24.84690401 0.846458018 1.083281621 0.125330133 0.252307795 283.4433633 270400.944 0.037684296 0.068324959 1.63E-06 5.787484672 0.236823603 ILITTVPPNLR ddPTM_HeLa_SAHA_4h_R1 2 ILITTVPPNLR 11 0 B4DY09;Q12905 B4DY09 ILF2 Interleukin enhancer-binding factor 2 0 0 ; ; 153.05 6.99E-06 2892600 1674.81 1475.55 1226.49 1510.44 1436.72 1914.45 1729.54 1528.9 1551.7 1669.96 FALSE FALSE TRUE 1850.9742 1523.358788 1393.62967 1539.67675 1326.638824 1751.32809 1534.927607 1489.792952 1540.901593 1741.960148 1.062581255 0.874508403 0.800035335 0.88387599 0.761578171 1.005377816 0.881149669 0.8552394 0.884579131 1 10.7664959 -7.251638078 22.98708144 1.029552259 0.866050411 0.271719904 0.07642001 111.6284584 261802.7681 0.010204807 0.012403272 5.60E-08 7.251638078 -0.163501847 ILK(ac)CAGNEDIITLR ddPTM_HeLa_SAHA_4h_R1 1 ILKCAGNEDIITLR 14 1 P12004 P12004 PCNA Proliferating cell nuclear antigen 0 1 ILK(1)CAGNEDIITLR 150.49 5.63E-05 629960 0 0 0 136.9 0 0 301.4 0 0 0 FALSE TRUE FALSE 0 0 0 139.5498975 0 0 267.4856788 0 0 0 0 ILLAELEQLKGQGK ddPTM_HeLa_SAHA_4h_R1 1 ILLAELEQLKGQGK 14 1 P08670;B0YJC4;A0A1B0GTT5 P08670 VIM Vimentin 0 0 162.31 3.05E-07 4690600 1200.1 1367.3 1877.6 1892.4 1760.3 1542.8 1898.1 1551.8 1370.5 1844.4 FALSE FALSE TRUE 1326.332024 1411.601417 2133.46955 1929.030138 1625.426194 1411.34476 1684.520792 1512.107203 1360.962579 1923.92111 0.689390026 0.733710655 1.108917376 1.002655529 0.844850751 0.733577252 0.875566458 0.785950731 0.707390013 1 10.90983393 -5.515668389 24.13498275 0.872700103 0.803273138 0.059110274 0.133986664 643.3963307 2153611.593 0.022723787 0.047032199 3.05E-06 5.515668389 -0.069426965 ILLDPNSEEVS(ph)EK ddPTM_HeLa_SAHA_4h_R1 1 ILLDPNSEEVSEK 13 0 A0A0U1RQZ9;F6VDE0;P51531-2;P51531 A0A0U1RQZ9 SMARCA2 Probable global transcription activator SNF2L2 1 0 ILLDPNS(0.002)EEVS(0.998)EK 99.732 0.0056371 2425600 1168.1 1403.6 1239 1312.1 1204.9 1592 1551.1 1341.6 1492 1477.8 TRUE FALSE FALSE 1290.966117 1449.077561 1407.844468 1337.497593 1112.580822 1456.352644 1376.566146 1307.283815 1481.617051 1541.51519 0.837465713 0.940034565 0.913286146 0.867651257 0.721744962 0.944754001 0.892995511 0.848051205 0.961143335 1 10.59013339 -9.428639647 0.861885479 1.010744162 0.869197751 0.332209852 0.061408145 0.616928387 0.713988143 0.061485672 0.011459741 3.73E-10 9.428639647 -0.141546411 ILLNACCPGWVR ddPTM_HeLa_SAHA_4h_R1 2 ILLNACCPGWVR 12 0 P16152 P16152 CBR1 Carbonyl reductase [NADPH] 1 0 0 ; ; 146.79 0.00012936 1915600 208.448 367.39 477.35 531.71 615.61 331 534.23 0 215.34 614.95 FALSE FALSE TRUE 230.373517 379.2936771 542.4007721 542.0020159 568.4420948 302.7969378 474.1170344 0 213.8414314 641.463504 0.359137372 0.591294243 0.845567626 0.844945991 0.886164359 0.472040788 0.739117707 0 0.333364923 1 9.325223375 -9.564860292 1.34973848 0.999331638 0.586032729 0 0.327691746 0.489624304 1.60288494 0.182785402 0.043274375 2.72E-10 9.564860292 -0.413298909 ILLTQENPFFR ddPTM_HeLa_SAHA_4h_R1 2 ILLTQENPFFR 11 0 Q08J23-3;Q08J23-2;Q08J23 Q08J23-3 NSUN2 tRNA (cytosine(34)-C(5))-methyltransferase 0 0 ; ; 173.39 6.45E-11 1419870 433.81 298.18 291.05 430.94 466.42 538.12 366.96 258.38 495.63 525.75 FALSE FALSE TRUE 479.4401262 307.8412276 330.7127783 439.2814668 430.6830004 492.2691486 325.668695 251.7710137 492.1808705 548.4176555 0.874224455 0.561326253 0.603030874 0.80099804 0.785319357 0.897617252 0.593833353 0.459086266 0.897456283 1 9.099131207 -7.478836334 3.669144069 0.948343956 0.68421863 0.459657862 0.125493673 0.155727341 4.115267518 0.024009238 0.026534383 3.32E-08 7.478836334 -0.264125326 ILLVDS(ph)PGMGNADDEQQEEGTSSK ddPTM_HeLa_SAHA_4h_R1 1 ILLVDSPGMGNADDEQQEEGTSSK 24 0 Q9UKN8 Q9UKN8 GTF3C4 General transcription factor 3C polypeptide 4 1 0 ILLVDS(1)PGMGNADDEQQEEGTSSK 94.767 4.30E-05 5207200 821.38 815.42 793.87 746.35 843.73 1233 720.21 987.37 832.33 844.62 TRUE FALSE FALSE 907.776517 841.840143 902.0544693 760.7966835 779.0835897 1127.941463 639.1700753 962.1145051 826.5377478 881.0357017 1.030351568 0.955511952 1.023856885 0.863525374 0.88428152 1.280244899 0.725475794 1.092026695 0.938143308 1 9.783056672 -7.26120241 24.96239654 1.014332684 0.971236687 0 0.141039232 82.88626955 8731639.5 0.021279398 0.025248817 5.48E-08 7.26120241 -0.043095998 ILMVGLDAAGK ddPTM_HeLa_SAHA_4h_R1 1 ILMVGLDAAGK 11 0 P61204-2;P84077;P61204;F5H423;C9J1Z8;P84085;F5H1V1;F5H6T5;F8WDB3;F5H0C7;C9JPM4;P18085 P61204-2 ARF3;ARF1;ARF5;ARF4 ADP-ribosylation factor 3;ADP-ribosylation factor 1;ADP-ribosylation factor 5;ADP-ribosylation factor 4 0 0 179.51 9.30E-12 1982900 890.37 1114.7 1110.5 1587.9 1529.7 1304.5 1345.7 1371.3 1707.5 1305.2 FALSE FALSE TRUE 984.0232018 1150.817011 1261.833157 1618.636101 1412.494716 1193.349261 1194.278294 1336.224132 1695.617368 1361.473559 0.722763358 0.845273126 0.926814295 1.188885446 1.037474953 0.87651299 0.877195364 0.981454338 1.245428056 1 10.41095325 -6.522686975 23.41873954 0.864705856 0.989572572 0 0.158517026 4.328725023 528632.639 0.021216445 0.030219888 3.00E-07 6.522686975 0.124866715 ILNFLMHPKPSGKPLPK ddPTM_HeLa_SAHA_4h_R1 2 ILNFLMHPKPSGKPLPK 17 2 H0Y8X0;B4DFG0;H0Y993;P35659;A0A494C028;P35659-2 H0Y8X0 DEK Protein DEK 0 0 ; ; 56.147 0.01175 3031050 1969.28 1751.49 1686.27 2069.25 2299.73 1223.08 2656.65 1578.59 1350.43 2099.84 FALSE FALSE TRUE 2176.417906 1808.239425 1916.066094 2109.303326 2123.525184 1118.866703 2357.71675 1538.211954 1341.032248 2190.374379 0.993628271 0.825538978 0.874766484 0.962987582 0.969480471 0.510810715 1.076398981 0.702259837 0.61223883 1 11.09696176 -6.514094671 0.470648337 1.008793753 0.795905814 0 0.192583482 1.22497286 0.560847205 0.045724971 0.105828878 3.06E-07 6.514094671 -0.212887939 ILPDILK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 ILPDILKK 8 1 P0DN79;P35520;P35520-2;C9JMA6 P0DN79 CBS Cystathionine beta-synthase 0 1 ILPDILK(1)K 68.224 0.018157 0 109.52 121.79 136.32 169.75 251.56 151.77 208.18 127.13 191.71 0 FALSE TRUE FALSE 121.0398161 125.7360759 154.8969797 173.0357567 232.2855271 138.8383422 184.7550385 123.8781987 190.3758745 0 0 ILPTS(ph)ETK ddPTM_HeLa_SAHA_4h_R1 1 ILPTSETK 8 0 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;H7C1M2 P18583-10 SON Protein SON 1 0 ILPT(0.224)S(0.769)ET(0.008)K 97.597 0.0127 3415900 1419.5 1508.6 1203.1 1559.9 1780.4 1948.1 1357 1565.8 1933.5 1425.5 TRUE FALSE FALSE 1568.809523 1557.47963 1367.052203 1590.09412 1643.986137 1782.11092 1204.306789 1525.749103 1920.044616 1486.960281 1.055044672 1.047425173 0.919360268 1.069358839 1.105601916 1.198492618 0.809911874 1.026085984 1.29125481 1 10.5381504 -4.745405119 24.99999354 1.038451209 0.917999047 0.167896533 0.115918137 251.8362789 392646.8871 0.01115844 0.041482942 1.80E-05 4.745405119 -0.120452163 ILQALHLQFGK ddPTM_HeLa_SAHA_4h_R1 2 ILQALHLQFGK 11 0 Q9Y223-5;Q9Y223-4;Q9Y223-3;Q9Y223;Q9Y223-2 Q9Y223-5 GNE Bifunctional UDP-N-acetylglucosamine 2-epimerase/N-acetylmannosamine kinase;UDP-N-acetylglucosamine 2-epimerase (hydrolyzing);N-acetylmannosamine kinase 0 0 ; ; 103.26 0.0033096 959250 654.53 831.54 758.45 986.16 1055.38 457.53 1030 226.038 428.71 545.93 FALSE FALSE TRUE 723.3764685 858.4824416 861.8076162 1005.248553 974.5170124 418.54587 914.1016892 220.2562753 425.7265722 569.467714 1.270267744 1.507517319 1.513356412 1.765242398 1.71127702 0.734977348 1.605186153 0.386775703 0.747586846 1 9.15347024 -2.907399329 13.95834752 1.224608438 1.187874953 0 0.453780699 0 0 0.054708908 0 0.001237658 2.907399329 -0.036733485 ILQEKLDQPVSAPPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 ILQEKLDQPVSAPPSPR 17 1 Q16204 Q16204 CCDC6 Coiled-coil domain-containing protein 6 1 0 ILQEKLDQPVS(0.014)APPS(0.986)PR 62.303 0.016726 6959700 1236.8 793.59 1205.3 747.55 828.22 947.4 1120.5 1535.1 391.61 1396.2 TRUE FALSE FALSE 1366.892299 819.3028367 1369.552007 762.0199112 764.7619625 866.6761901 994.418391 1495.834365 388.8847541 1456.397015 0.938543738 0.562554598 0.940369963 0.523222654 0.525105418 0.595082372 0.682793483 1.027078708 0.267018368 1 10.50818797 -7.367782231 5.877517612 0.972970013 0.686401366 0 0.275043866 0.16707223 7.843109987 0.027088517 0.030850412 4.29E-08 7.367782231 -0.286568647 ILQFEDILANTFYR ddPTM_HeLa_SAHA_4h_R1 1 ILQFEDILANTFYR 14 0 A0A494C0S0;Q9H3E2-2;Q9H3E2 A0A494C0S0 SNX25 Sorting nexin-25 0 0 81.494 0.017339 4021700 1370.1 1831.7 1978.9 1343.2 1998.4 1859 2379.2 1455.9 1590.8 1973.8 FALSE FALSE TRUE 1514.213404 1891.048282 2248.574186 1369.199578 1845.283024 1700.602742 2111.486154 1418.660186 1579.729493 2058.900178 0.735447702 0.918474971 1.092123946 0.665015037 0.896246959 0.825976296 1.025540809 0.689037867 0.767268618 1 11.00765817 -9.656278907 1.507580205 0.999758868 0.845427298 0 0.148828761 0.591438203 2.42406202 0.090291218 0.020474052 2.21E-10 9.656278907 -0.154331569 ILQK(ac)QGFK ddPTM_HeLa_SAHA_4h_R1 1 ILQKQGFK 8 1 E9PEX6;P09622-2;P09622-3;P09622 E9PEX6 DLD "Dihydrolipoyl dehydrogenase;Dihydrolipoyl dehydrogenase, mitochondrial" 0 1 ILQK(1)QGFK 126.67 0.00079288 1361100 585.68 934.19 1248.1 685.4 1046.1 508.22 1402.9 322.09 236.17 579.44 FALSE TRUE FALSE 647.2845096 964.4583689 1418.184568 698.6669081 965.948044 464.9167968 1245.042 313.8514042 234.5264737 604.4224941 1.070913998 1.595669219 2.346346441 1.15592473 1.598133844 0.769191751 2.059886937 0.519258312 0.388017448 1 9.239413542 -7.319320554 6.991954722 1.032433174 1.463679938 0.176174104 0.552859417 0.363767757 37.60114493 0.081176594 0.092788994 4.79E-08 7.319320554 0.431246764 ILQLCMGNHELYMR ddPTM_HeLa_SAHA_4h_R1 6 ILQLCMGNHELYMR 14 0 E7EQR4;P15311 E7EQR4 EZR Ezrin 0 0 ;;;;; ;;;;; 141.73 6.39E-05 24825300 2838.91 3230.39 4623.19 3387.95 4461.177 1613.51 4302.87 825.78 1482.85 3291.847 FALSE FALSE TRUE 3137.519579 3335.056756 5253.214257 3453.528671 4119.362582 1476.029871 3818.699743 804.6577433 1472.530726 3433.774634 0.913723209 0.971250915 1.529865765 1.005752864 1.199660147 0.429856362 1.112099701 0.234336213 0.428837324 1 11.74557964 -4.255638745 24.68775317 0.988814354 0.234335822 0.316637836 0.313808763 380.0345211 1617386.032 0.033914925 0.402713236 5.55E-05 4.255638745 -0.754478531 ILS(ph)DVTHSAVFGVPASK ddPTM_HeLa_SAHA_4h_R1 1 ILSDVTHSAVFGVPASK 17 0 Q2M2I8-2;Q2M2I8;E9PG46 Q2M2I8-2 AAK1 AP2-associated protein kinase 1 1 0 ILS(0.993)DVT(0.007)HSAVFGVPASK 105.06 0.0016482 1114200 938.01 1309.5 1188.1 1492.1 1238.3 1084.8 1191.7 917.37 1146.8 1237.8 TRUE FALSE FALSE 1036.674196 1351.928659 1350.008081 1520.981753 1143.421722 992.3689371 1057.60678 893.9050037 1138.819325 1291.167616 0.802896683 1.04705899 1.045571515 1.177989391 0.885571871 0.76858258 0.819108818 0.692322974 0.882007349 1 10.33446058 -5.360146735 4.250553817 0.947558377 0.765754091 0.465021863 0.104859841 0.222248904 6.958258732 0.01825194 0.042635213 4.36E-06 5.360146735 -0.181804287 ILS(ph)PSMASK ddPTM_HeLa_SAHA_4h_R1 2 ILSPSMASK 9 0 A0A494BZT8;Q9Y6A5;E7EMT0;C9JA91;Q8IX09;C9JWI7 A0A494BZT8 TACC3;ERIC-1s Transforming acidic coiled-coil-containing protein 3 1 0 ILS(0.97)PS(0.03)MASK;ILS(0.938)PS(0.062)MASK ; 125.23 0.0028121 75469000 8034.3 9431.2 9944.2 9062.2 11243.8 10273 10970 9168.6 8566.8 7823.8 TRUE FALSE FALSE 8879.384537 9736.777068 11299.34379 9237.611985 10382.30247 9397.682606 9735.626729 8934.080488 8507.182941 8161.122307 1.088010227 1.193068392 1.384533078 1.131904613 1.272166019 1.151518413 1.192927438 1.094712241 1.042403559 1 12.99455185 -7.49168506 2.043712555 1.032517867 1.207286957 0.479135466 0.077284121 0.184082041 1.518025513 0.014780702 0.016100392 3.22E-08 7.49168506 0.17476909 ILSDDVPIRDYR ddPTM_HeLa_SAHA_4h_R1 2 ILSDDVPIRDYR 12 1 P54725-2;P54725-3;P54725;A0A494C0B4;K7ENJ0;K7ELW1 P54725-2 RAD23A UV excision repair protein RAD23 homolog A 0 0 ; ; 101.3 0.0087695 12525700 5926 6018.9 5832.2 5805.6 6754.3 6574.7 6972.3 5675.8 5775.7 6669.5 FALSE FALSE TRUE 6549.323869 6213.916309 6626.981843 5917.975783 6236.786993 6014.498572 6187.758454 5530.621254 5735.506433 6957.054785 0.941393172 0.893182029 0.95255565 0.850643838 0.896469438 0.864517926 0.889422126 0.794965891 0.824415879 1 12.76426097 -1 0.084325797 1.100658992 0.354637192 0 0.062044037 47.30448063 0.29163267 0.37546908 4.116432377 0.1 1 -0.7460218 ILSLSEEGS(ph)LER ddPTM_HeLa_SAHA_4h_R1 1 ILSLSEEGSLER 12 0 A0A2R8Y661;A0A2R8YGD3;Q9Y4G8;H0Y8H7 A0A2R8Y661 RAPGEF2 Rap guanine nucleotide exchange factor 2 1 0 ILSLS(0.001)EEGS(0.999)LER 106.54 0.0038221 1748300 280.43 462.95 388.3 489.32 412.63 514.88 430.82 428.57 634.93 540.5 TRUE FALSE FALSE 309.9269141 477.9498838 441.2155018 498.7914962 381.0143785 471.0093274 382.3429997 417.6078 630.5114704 563.8036001 0.549707228 0.847724072 0.782569501 0.884690158 0.675792738 0.835413834 0.67814927 0.740697292 1.118317567 1 9.13904888 -9.621003955 1.444496191 0.999480995 0.726274146 0.560375898 0.104309329 0.295751275 1.111608108 0.077125258 0.017803106 2.39E-10 9.621003955 -0.273206848 ILSQS(ph)TDSLNMR ddPTM_HeLa_SAHA_4h_R1 1 ILSQSTDSLNMR 12 0 V9GYM8;A0A5F9ZI21;Q92974-3;Q92974-2;Q92974;V9GYF5;V9GYG5;V9GZ14 V9GYM8 ARHGEF2 Rho guanine nucleotide exchange factor 2 1 0 ILSQS(0.988)T(0.009)DS(0.003)LNMR 164.92 0.00012137 3130800 221.98 214.19 214.38 329.43 445.94 934.2 341.34 467.55 377.85 384.68 TRUE FALSE FALSE 245.3288749 221.1298965 243.59459 335.806594 411.7721735 854.6009043 302.9315248 455.590748 375.2205111 401.2654374 0.611388004 0.551081344 0.607065965 0.836868972 1.026184005 2.129764552 0.754940487 1.135384974 0.935093024 1 8.648413086 -5.518083375 19.3936119 0.780223789 1.330929434 0.363276527 0.345633998 9.449910931 38213.92646 0.050383031 0.103671771 3.03E-06 5.518083375 0.550705645 ILSQST(ph)DSLNMR ddPTM_HeLa_SAHA_4h_R1 1 ILSQSTDSLNMR 12 0 V9GYM8;A0A5F9ZI21;Q92974-3;Q92974-2;Q92974;V9GYF5;V9GYG5;V9GZ14 V9GYM8 ARHGEF2 Rho guanine nucleotide exchange factor 2 1 0 ILSQS(0.183)T(0.814)DS(0.004)LNMR 241.35 5.75E-31 42143000 639.19 505.85 454.2 823.99 754.23 671.79 819.27 1451.3 967.77 636.12 TRUE FALSE FALSE 706.4229369 522.2398719 516.0960106 839.939518 696.4410603 614.5497126 727.0835834 1414.177847 961.0352098 663.5462463 1.064617487 0.787043668 0.777784538 1.265834179 1.04957426 0.92615958 1.095754196 2.131242329 1.448331921 1 9.374053208 -4.262571132 4.324196124 1.008146326 2.213296405 0.738172308 0.193378962 0.053517525 2.353399218 0.018520033 0.197251762 5.46E-05 4.262571132 1.20515008 ILSQSTDS(ph)LNMR ddPTM_HeLa_SAHA_4h_R1 1 ILSQSTDSLNMR 12 0 V9GYM8;A0A5F9ZI21;Q92974-3;Q92974-2;Q92974;V9GYF5;V9GYG5;V9GZ14 V9GYM8 ARHGEF2 Rho guanine nucleotide exchange factor 2 1 0 ILSQS(0.04)T(0.152)DS(0.808)LNMR 246.63 1.61E-31 31750000 538.37 669.61 450.4 802.99 922.51 834.72 865.44 1304.6 894.42 804.85 TRUE FALSE FALSE 594.9982267 691.3058033 511.7781664 818.5330326 851.8274831 763.59716 768.0584135 1271.230221 888.1956584 839.5510223 0.708710026 0.823423217 0.609585544 0.974965203 1.01462265 0.90953038 0.914844236 1.514178635 1.05794125 1 9.713474195 -1.923675215 1.19373254 0.854374163 199.9999998 0.639683161 0.138213196 222.2355358 1.344361235 0.021768772 120031.3782 0.011921332 1.923675215 199.1456257 ILSYK(ac)IGK ddPTM_HeLa_SAHA_4h_R1 1 ILSYKIGK 8 1 P47755;P52907 P47755;P52907 CAPZA2;CAPZA1 F-actin-capping protein subunit alpha-2;F-actin-capping protein subunit alpha-1 0 1 ILSYK(1)IGK 95.099 0.015481 713030 226.52 317.86 260.27 327.99 264.68 211.87 351.74 202.49 0 229.26 FALSE TRUE FALSE 250.3464129 328.1588726 295.7382402 334.3387207 244.4002756 193.8174841 312.1612895 197.310599 0 239.1445206 1.046841518 1.37221991 1.236650706 1.39806139 1.021977317 0.810461739 1.305324867 0.82506845 0 1 7.901738926 -2.818104595 14.58459088 1.076521208 0.468769869 0 0.396414409 0 0 0.026615808 0 0.001520181 2.818104595 -0.60775134 ILTEAEIDAHLVALAERD ddPTM_HeLa_SAHA_4h_R1 3 ILTEAEIDAHLVALAERD 18 1 G3V5Z7;P60900;P60900-2;P60900-3;H0YJC4 G3V5Z7 PSMA6 Proteasome subunit alpha type;Proteasome subunit alpha type-6 0 0 ;; ;; 212.35 1.84E-37 11812400 4769.22 5353.1 5585.83 6848.5 6873.6 6168.6 6880.6 4401.69 6735.1 6128 FALSE FALSE TRUE 5270.868442 5526.543952 6347.037823 6981.062621 6346.946253 5643.000576 6106.376779 4289.101143 6688.229891 6392.20807 0.824577108 0.864575103 0.992933546 1.09212068 0.99291922 0.882793632 0.95528442 0.670988975 1.046309791 1 12.64209865 -4.258496407 24.55430445 0.933493501 0.670988852 0.499483674 0.083087663 165.7448971 1382775.215 0.01280134 0.120185138 5.51E-05 4.258496407 -0.262504648 ILTFDQLALDSPK ddPTM_HeLa_SAHA_4h_R1 1 ILTFDQLALDSPK 13 0 G3V203;H0YHA7;J3QQ67;Q07020-2;Q07020;F8VUA6 G3V203 RPL18 60S ribosomal protein L18 0 0 223.08 5.73E-43 1238200 538.44 666.37 790.05 946.36 809.08 779.74 739.89 673.04 721.29 830.44 FALSE FALSE TRUE 595.0755897 687.9608252 897.7138996 964.6781663 747.0884652 713.3017653 656.6356299 655.8246114 716.2704842 866.2443325 0.686960442 0.794187967 1.036328742 1.113632875 0.862445429 0.823441769 0.758025889 0.757089642 0.826868884 1 9.758630198 -4.978149705 2.756915886 0.879027986 0.756995397 0.179062836 0.118958231 0.537393454 8.167996169 0.022276352 0.078118999 1.05E-05 4.978149705 -0.122032588 ILTTNTWSSELSK ddPTM_HeLa_SAHA_4h_R1 1 ILTTNTWSSELSK 13 0 O60701;O60701-3;O60701-2 O60701 UGDH UDP-glucose 6-dehydrogenase 0 0 111.79 0.019975 0 79.788 0 0 63.019 0 187.42 0 227.33 211.88 70.216 FALSE FALSE TRUE 88.18046792 0 0 64.23882387 0 171.4507616 0 221.5152278 210.4055098 73.24335539 1.203938125 0 0 0.87706009 0 2.340837072 0 3.024373018 2.872690754 1 6.19462598 ILVATNLFGR ddPTM_HeLa_SAHA_4h_R1 1 ILVATNLFGR 10 0 O00148;Q13838;Q13838-2;H0Y400;A0A0G2JJZ9;Q5STU3;A0A140T9X3 O00148;Q13838 DDX39A;DDX39B ATP-dependent RNA helicase DDX39A;Spliceosome RNA helicase DDX39B 0 0 112.11 0.0108 15096000 1331.9 1480.1 3583.1 2542.3 2510.7 844.51 2989.6 476.91 473.52 852.01 FALSE FALSE TRUE 1471.995353 1528.056211 4071.386208 2591.509893 2318.330708 772.5529969 2653.20234 464.7113328 470.2247358 888.7443207 1.656264146 1.71934287 4.581054543 2.915922873 2.608546299 0.869263498 2.985338165 0.522885291 0.529088878 1 9.795624625 -2.645966656 15.19846775 1.767176262 1.892846981 0 1.261739608 0 0 0.167703184 0 0.002259609 2.645966656 0.125670719 ILYSQCGDVMR ddPTM_HeLa_SAHA_4h_R1 2 ILYSQCGDVMR 11 0 P60660-2;F8W1R7;G8JLA2;G3V1V0;P60660;J3KND3;B7Z6Z4;F8VPF3;F8W1I5;P14649 P60660-2 MYL6;MYL6B Myosin light polypeptide 6;Myosin light chain 6B 0 0 ; ; 113.71 0.014291 14217400 1393 1175.6 1695.77 1670.55 1482.57 1336.87 1823.71 914.53 734.48 1295.59 FALSE FALSE TRUE 1539.522131 1213.690211 1926.860704 1702.885911 1368.975807 1222.961155 1618.501351 891.1376468 729.3686939 1351.449225 1.139163871 0.898065712 1.425773657 1.260044313 1.012968731 0.904925714 1.197604261 0.659394101 0.539693745 1 10.40029159 -4.251777591 24.34117211 1.085081249 0.659393768 0.175788532 0.232290156 715.1288316 1801586.936 0.021365315 0.361789072 5.60E-05 4.251777591 -0.425687482 IMADIR ddPTM_HeLa_SAHA_4h_R1 1 IMADIR 6 0 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 124.32 0.019777 26044000 9777.5 9697.7 8643.5 10684 10239 10656 10883 10857 9207.2 9098.1 FALSE FALSE TRUE 10805.94231 10011.91184 9821.391167 10890.80427 9454.490032 9748.048851 9658.416198 10579.29366 9143.126346 9490.363616 1.138622581 1.054955558 1.034880386 1.147564489 0.996219999 1.027152304 1.017707707 1.114740603 0.963411595 1 13.21224765 IMAT(ph)PEQVGK ddPTM_HeLa_SAHA_4h_R1 2 IMATPEQVGK 10 0 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 1 0 IMAT(1)PEQVGK;IMAT(1)PEQVGK ; 116.71 0.0062899 84282000 9203.6 8353.6 7604.4 8710.9 9161.2 9518.4 8938.7 8897.3 8695.2 7897.5 TRUE FALSE FALSE 10171.67688 8624.262121 8640.68803 8879.512066 8459.270835 8707.378771 7932.893951 8669.719949 8634.689395 8237.999874 1.234726515 1.046887867 1.048881787 1.077872324 1.026859792 1.056977289 0.962963592 1.052405934 1.048153621 1 13.00807839 -7.03371654 24.93182105 1.112420136 1.03743016 0.121767858 0.063053467 926.977692 685455.4826 0.01492938 0.01829124 9.25E-08 7.03371654 -0.074989976 IMATPEQVGK(ac)MK ddPTM_HeLa_SAHA_4h_R1 5 IMATPEQVGKMK 12 1 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 1 ;;;; IMATPEQVGK(1)MK;IMATPEQVGK(1)MK;IMATPEQVGK(1)MK;IMATPEQVGK(1)MK;IMATPEQVGK(1)MK 189.17 1.35E-16 25328400 5348.05 5931.9 4425.813 4631.269 5603.76 6147.36 6086.07 6148.49 4850.36 4879.2 FALSE TRUE FALSE 5910.582437 6124.097452 5028.939747 4720.913908 5174.401119 5623.570344 5401.249386 5991.220529 4816.60595 5089.56619 1.1613136 1.203265116 0.988088092 0.927567052 1.016668401 1.10492135 1.061239639 1.177157405 0.946368663 1 12.31332698 -9.706010357 1.617995507 1.000238785 1.088731171 0.179443593 0.084790346 0.704524669 3.341995125 0.065152581 0.014521605 1.97E-10 9.706010357 0.088492386 IMDPNIVGSEHYDVAR ddPTM_HeLa_SAHA_4h_R1 1 IMDPNIVGSEHYDVAR 16 0 P06576;H0YH81 P06576 ATP5B "ATP synthase subunit beta, mitochondrial;ATP synthase subunit beta" 0 0 125.41 0.00045536 3260500 1393.6 1967.7 1030.4 1158.8 2233.1 1969.8 1971.7 1938.7 1507.1 1840.2 FALSE FALSE TRUE 1540.185242 2031.454771 1170.817546 1181.23025 2062.00036 1801.961958 1749.839127 1889.110861 1496.611968 1919.540028 0.802372037 1.058302896 0.609946929 0.615371512 1.07421587 0.938746748 0.911592935 0.984147678 0.779672185 1 10.90654493 -2.142573462 15.38628163 0.894185113 1.01673706 0 0.161553634 0 0 0.021276141 0 0.007201559 2.142573462 0.122551946 IMGIPEEEQMGLLR ddPTM_HeLa_SAHA_4h_R1 2 IMGIPEEEQMGLLR 14 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ; ; 176.95 4.70E-06 4938400 1374.14 1630.35 1608.34 1574.68 1700.77 1727.42 1948.63 1463 1698.2 1429.72 FALSE FALSE TRUE 1518.67835 1683.17441 1827.516199 1605.160208 1570.45737 1580.234098 1729.365024 1425.578578 1686.382088 1491.362226 1.018316224 1.128615423 1.225400622 1.076304724 1.053035502 1.059591071 1.159587519 0.955890228 1.130766261 1 10.54241499 -7.346310547 5.960071153 1.008166133 1.097924479 0 0.077636077 0.220601799 12.41947188 0.011267419 0.012849538 4.50E-08 7.346310547 0.089758345 IMK(ac)DILEK ddPTM_HeLa_SAHA_4h_R1 2 IMKDILEK 8 1 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 0 1 ; IMK(1)DILEK;IMK(1)DILEK 111.65 0.0041607 1294240 799.69 1426.7 1011.39 943.41 1318.16 1295.72 1420.37 1313.03 904.38 632.25 FALSE TRUE FALSE 883.8050633 1472.926016 1149.216962 961.6710647 1217.162866 1185.317366 1260.546229 1279.444594 898.0863459 659.5093917 1.340094735 2.233366249 1.742533126 1.458161289 1.845558048 1.797271398 1.911339316 1.939994502 1.361749139 1 9.365249394 -7.488732986 3.950312316 1.14060343 1.829328501 0.65573344 0.203079444 0.089660149 2.849681677 0.037638949 0.041495168 3.25E-08 7.488732986 0.688725071 IMNT(ph)FS(ph)VMPSPK ddPTM_HeLa_SAHA_4h_R1 1 IMNTFSVMPSPK 12 0 Q9BVA1;Q13885;K7ESM5;Q9BUF5;K7ES63 Q9BVA1;K7ESM5 TUBB2B;TUBB2A;TUBB6 Tubulin beta-2B chain;Tubulin beta-2A chain;Tubulin beta-6 chain 2 0 IMNT(1)FS(1)VMPSPK 94.547 0.003473 0 356.12 314.17 219.21 319.64 339.97 439.46 354.15 213.95 665.01 299.44 TRUE FALSE FALSE 393.5783355 324.3493141 249.0827972 325.8270944 313.921572 402.0155357 314.3001099 208.4774688 660.3821413 312.3503238 1.260054194 1.038415168 0.797446899 1.043146331 1.005030404 1.287066172 1.006242305 0.667447583 2.114235494 1 8.287021215 -7.007699487 24.83260016 1.124194495 0.983186938 0.109273 0.352873974 555.4338195 1791405.389 0.029033978 0.03725792 9.82E-08 7.007699487 -0.141007556 IMNTFS(ph)VVPSPK ddPTM_HeLa_SAHA_4h_R1 1 IMNTFSVVPSPK 12 0 P68371;M0R2D3;A0A0B4J269;Q13509;Q13509-2;G3V2A3;P04350;M0QYM7;M0R042;P07437;Q5JP53;Q5ST81 P68371;A0A0B4J269;P04350;P07437 TUBB4B;TUBB4A;TUBB3;TUBB Tubulin beta-4B chain;Tubulin beta-3 chain;Tubulin beta-4A chain;Tubulin beta chain 1 0 IMNT(0.051)FS(0.946)VVPS(0.003)PK 94.717 0.0096691 3863800 853.65 776.12 604.39 570.26 725.67 700.43 719.18 786.68 624.64 661.2 TRUE FALSE FALSE 943.4408237 801.2667972 686.7531217 581.2982069 670.0693214 640.7494235 638.2559736 766.5578647 620.2930794 689.7075678 1.367885272 1.161748594 0.995716379 0.842818368 0.971526706 0.929016084 0.925400856 1.111424465 0.899356638 1 9.429840987 -6.7239648 4.355600241 1.178262818 0.951357948 0.143972993 0.135974661 0.179366621 7.480578796 0.023750937 0.033297341 1.89E-07 6.7239648 -0.22690487 IMNTFSVVPSPK ddPTM_HeLa_SAHA_4h_R1 2 IMNTFSVVPSPK 12 0 P68371;M0R2D3;A0A0B4J269;Q13509;Q13509-2;G3V2A3;P04350;M0QYM7;M0R042;P07437;Q5JP53;Q5ST81 P68371;A0A0B4J269;P04350;P07437 TUBB4B;TUBB4A;TUBB3;TUBB Tubulin beta-4B chain;Tubulin beta-3 chain;Tubulin beta-4A chain;Tubulin beta chain 0 0 ; ; 223.08 5.23E-43 12198000 4246.8 4226.1 4825.2 4532.1 5126.7 3789.9 4766.6 2962.58 2369.21 3547.7 FALSE FALSE TRUE 4693.497909 4363.028413 5482.753127 4619.825349 4733.893354 3466.979199 4230.249623 2886.801493 2352.722475 3700.658709 1.268287156 1.178986974 1.481561408 1.248379197 1.2792029 0.936854617 1.143107202 0.780077743 0.635757755 1 11.85356637 -5.250010879 24.68953776 1.178893997 0.972322572 0.138083276 0.225581975 730.5537165 1578245.318 0.024233383 0.061157041 5.62E-06 5.250010879 -0.206571425 IMNVIGEPIDER ddPTM_HeLa_SAHA_4h_R1 2 IMNVIGEPIDER 12 0 P06576;H0YH81;F8W079 P06576 ATP5B "ATP synthase subunit beta, mitochondrial;ATP synthase subunit beta" 0 0 ; ; 156.58 0.00091413 10544300 1191.18 1585.23 1357.21 1425.92 1675.58 1616.44 1654.36 1815.67 1419.58 1445.39 FALSE FALSE TRUE 1316.473778 1636.592492 1542.163511 1453.520744 1547.197422 1478.710218 1468.207059 1769.22779 1409.701027 1507.707836 0.87316239 1.08548384 1.022853018 0.964059951 1.026191803 0.980767084 0.973800774 1.173455326 0.934996153 1 10.55814117 -7.258827449 24.99636368 0.940104462 1.024904153 0.311454016 0.06488427 253.214811 2423287.98 0.012014116 0.014366879 5.51E-08 7.258827449 0.084799691 IMPDS(ph)NDSPPAEREPGEVVDSLVGK ddPTM_HeLa_SAHA_4h_R1 4 IMPDSNDSPPAEREPGEVVDSLVGK 25 1 Q9Y657 Q9Y657 SPIN1 Spindlin-1 1 0 IMPDS(0.5)NDS(0.5)PPAEREPGEVVDSLVGK;IMPDS(0.561)NDS(0.439)PPAEREPGEVVDSLVGK;IMPDS(0.594)NDS(0.395)PPAEREPGEVVDS(0.011)LVGK;IMPDS(0.533)NDS(0.453)PPAEREPGEVVDS(0.013)LVGK ;;; 75.646 0.0001868 85684100 7143.9 7114.3 5940.44 7168.5 8011.7 7757.2 8216.6 7148.9 6673.78 7207.9 TRUE FALSE FALSE 7895.328179 7344.807988 6749.972227 7307.256683 7397.845277 7096.242919 7292.046543 6966.041489 6627.336622 7518.667844 1.050096685 0.976876242 0.897761727 0.971881833 0.983930323 0.94381652 0.969858849 0.926499432 0.881450911 1 12.87626135 -7.047678974 6.514111546 1.023310089 0.951086778 0 0.051729781 0.115474355 12.26139641 0.004762868 0.005895772 8.96E-08 7.047678974 -0.072223311 IMPDSNDS(ph)PPAEREPGEVVDSLVGK ddPTM_HeLa_SAHA_4h_R1 1 IMPDSNDSPPAEREPGEVVDSLVGK 25 1 Q9Y657 Q9Y657 SPIN1 Spindlin-1 1 0 IMPDS(0.158)NDS(0.842)PPAEREPGEVVDSLVGK 73.153 0.00039585 9134200 1519.7 1430.3 1420.5 1787 1988.3 1871.1 1874.6 1528.8 1445.7 1491.6 TRUE FALSE FALSE 1679.549019 1476.642658 1614.078342 1821.589969 1835.956884 1711.671753 1663.665074 1489.69551 1435.639256 1555.910176 1.079463998 0.949053925 1.037385299 1.170755226 1.179988994 1.100109621 1.069255218 0.957443131 0.922700602 1 10.60354306 -6.484948742 24.52802106 1.030094114 1.099507565 0.2562734 0.073549493 584.0678181 377696.457 0.010789291 0.016478195 3.27E-07 6.484948742 0.069413451 IMS(ph)SPLSK ddPTM_HeLa_SAHA_4h_R1 1 IMSSPLSK 8 0 P61254;J3QRI7;J3QQQ9;J3QQV1;E5RIT6;Q9UNX3;J3QRC4;E5RHH1;J3KSS0 P61254 RPL26;RPL26L1 60S ribosomal protein L26;60S ribosomal protein L26-like 1 1 0 IMS(0.984)S(0.016)PLSK 162.64 3.03E-08 0 4320.5 4479.3 2972.6 3952.2 5147.4 4773.3 4590 4600.1 4020.3 3997.8 TRUE FALSE FALSE 4774.950013 4624.432259 3377.690447 4028.700546 4753.007324 4366.587986 4073.52112 4482.436103 3992.322405 4170.164723 1.145026715 1.108932756 0.809965714 0.966077077 1.139764887 1.047102039 0.976824991 1.074882265 0.957353647 1 12.02588866 IMSCS(ph)PDTQCSR ddPTM_HeLa_SAHA_4h_R1 1 IMSCSPDTQCSR 12 0 Q9C0C9;K7EQ12 Q9C0C9 UBE2O E2/E3 hybrid ubiquitin-protein ligase UBE2O 1 0 IMS(0.006)CS(0.992)PDT(0.001)QCSR 139.19 0.00070366 14874000 1275.5 1061.5 895.95 1276.5 1404.4 1594.4 1533.9 1075.9 1188.9 1312.3 TRUE FALSE FALSE 1409.662942 1095.893296 1018.0454 1301.208503 1296.795175 1458.54815 1361.301535 1048.380036 1180.626348 1368.879675 1.029793172 0.80057679 0.743707003 0.950564558 0.947340514 1.065505009 0.994463984 0.765867194 0.862476352 1 10.41877992 -7.299753838 24.76717727 1.01406901 0.90406367 0.015817171 0.108267416 582.129392 376297.9303 0.017452194 0.019957541 5.01E-08 7.299753838 -0.11000534 IMSCSPDT(ph)QCSR ddPTM_HeLa_SAHA_4h_R1 1 IMSCSPDTQCSR 12 0 Q9C0C9;K7EQ12 Q9C0C9 UBE2O E2/E3 hybrid ubiquitin-protein ligase UBE2O 1 0 IMS(0.333)CS(0.139)PDT(0.523)QCS(0.006)R 124.48 0.0023082 15097000 1112.5 934.29 885.06 1014.2 1155.9 1059 1097 1072.4 882.05 906.67 TRUE FALSE FALSE 1229.517854 964.561609 1005.671368 1033.831308 1067.335192 968.7672422 973.5626729 1044.969561 875.9117422 945.7609808 1.300030218 1.019878837 1.063346224 1.093121125 1.128546444 1.024325661 1.029396108 1.104898153 0.926144935 1 9.885331812 IMSS(ph)IGEGIDFSQER ddPTM_HeLa_SAHA_4h_R1 2 IMSSIGEGIDFSQER 15 0 A0A3B3ISP1;Q92625 A0A3B3ISP1 ANKS1A Ankyrin repeat and SAM domain-containing protein 1A 1 0 IMS(0.006)S(0.994)IGEGIDFSQER;IMSS(1)IGEGIDFSQER ; 219.84 5.46E-18 8393900 2205.49 1642.92 2008.42 2409.9 2206.7 2344.7 2127 2523.9 2035.7 1873.28 TRUE FALSE FALSE 2437.473557 1696.151686 2282.117018 2456.547099 2037.623123 2144.918369 1887.664362 2459.342293 2021.533398 1954.046268 1.247398077 0.868020227 1.167893031 1.257159126 1.042771175 1.097680441 0.966028488 1.25858959 1.03453712 1 10.93224891 -4.209817946 21.85313269 1.101422459 1.258593596 0.146236571 0.118744854 17498.78892 7406803.425 0.017567413 18.21364117 6.17E-05 4.209817946 0.157171137 IMVGS(ph)TDDPSVFSLPDSK ddPTM_HeLa_SAHA_4h_R1 1 IMVGSTDDPSVFSLPDSK 18 0 O43741 O43741 PRKAB2 5-AMP-activated protein kinase subunit beta-2 1 0 IMVGS(0.876)T(0.124)DDPSVFSLPDSK 183.36 7.93E-28 0 728.03 688.69 536.53 720.29 1075.3 981.96 871.73 624.38 606.65 770.58 TRUE FALSE FALSE 804.6075357 711.0040079 609.6455143 734.2322545 992.9107463 898.2914836 773.6406461 608.4092637 602.4282733 803.8034749 1.00100032 0.884549557 0.758450956 0.913447475 1.235265556 1.117551132 0.962474871 0.756912955 0.749472094 1 9.650699004 -13.12906315 0.006080294 1.996985564 0.040590262 0 0.160429657 162468.6458 85.31712527 14875.32502 12660.11764 7.43E-14 13.12906315 -1.956395302 INAEK(ac)SSK ddPTM_HeLa_SAHA_4h_R1 2 INAEKSSK 8 1 Q9C005 Q9C005 DPY30 Protein dpy-30 homolog 0 1 ; INAEK(1)SSK;INAEK(1)SSK 143.03 7.13E-05 6569200 2571.61 2617.5 2220.09 3305.7 3270.8 3369.6 3885.3 2937.4 2511.06 2665.7 FALSE TRUE FALSE 2842.103739 2702.308717 2522.632303 3369.686604 3020.192011 3082.491123 3448.115818 2862.265561 2493.585329 2780.631373 1.022107341 0.97183278 0.907215652 1.211842259 1.086153325 1.108557989 1.240047801 1.029358148 0.896769472 1 11.44119678 -6.256858699 24.99834462 1.00015705 1.136813203 0.570617777 0.071978693 227.309632 1240504.643 0.00908861 0.014749601 5.54E-07 6.256858699 0.136656153 INEILSNALK ddPTM_HeLa_SAHA_4h_R1 1 INEILSNALK 10 0 A0A087X0X3;P52272-2;P52272;M0R019 A0A087X0X3 HNRNPM Heterogeneous nuclear ribonucleoprotein M 0 0 113.63 0.010161 700400 352.72 191.71 449.03 442.04 554.81 176.58 578.8 207.36 210.86 364.11 FALSE FALSE TRUE 389.8207079 197.9215298 510.22147 450.5963234 512.3005777 161.5343906 513.6719007 202.0560315 209.3926081 379.808564 1.026361027 0.521108655 1.343364838 1.18637747 1.348838932 0.425304761 1.352449495 0.531994406 0.551310918 1 8.569128626 -4.228241514 22.82701653 1.013863744 0.531991444 0.12021258 0.341861589 5509.715553 3788298.199 0.038106528 6.777500755 5.91E-05 4.228241514 -0.4818723 INEK(ac)PQVIADYESGR ddPTM_HeLa_SAHA_4h_R1 1 INEKPQVIADYESGR 15 1 O60869-2;O60869-3;O60869 O60869-2 EDF1 Endothelial differentiation-related factor 1 0 1 INEK(1)PQVIADYESGR 137.8 0.00017889 1036700 0 0 0 0 165.59 0 69.1 198.4 158.76 128.43 FALSE TRUE FALSE 0 0 0 0 152.90253 0 61.32468614 193.3252153 157.6551762 133.9672458 0 0 0 0 1.14134264 0 0.457758803 1.443078225 1.176818821 1 7.065736503 -9.504908738 1.289604817 0.995405779 0.317273453 0.226697176 0.501767951 0.572229446 1.721314102 0.333925832 0.083130591 3.13E-10 9.504908738 -0.678132326 INENEKS(ph)PSQNR ddPTM_HeLa_SAHA_4h_R1 1 INENEKSPSQNR 12 1 K7EQT1;Q9UM11-2;Q9UM11;Q9UM11-3 K7EQT1 FZR1 Fizzy-related protein homolog 1 0 INENEKS(0.999)PS(0.001)QNR 136.14 0.003635 4676000 1092 976.92 1165.5 1359.2 1044.5 1290.3 1283.9 1358.3 1646.6 1053.2 TRUE FALSE FALSE 1206.86157 1008.572849 1324.32827 1385.509281 964.4706357 1180.359181 1139.432193 1323.556653 1635.141177 1098.608606 1.098536425 0.918045647 1.205459581 1.261149124 0.877901948 1.074412829 1.037159355 1.204757222 1.488374629 1 10.10146178 -9.868890316 0.495649125 0.958878499 1.085352055 0 0.192811896 6.304391177 1.439148537 0.425628699 0.028530037 1.35E-10 9.868890316 0.126473556 INFDDNAEFR ddPTM_HeLa_SAHA_4h_R1 2 INFDDNAEFR 10 0 E9PDQ8;Q96I99;Q96I99-2 E9PDQ8 SUCLG2 "Succinyl-CoA ligase [GDP-forming] subunit beta, mitochondrial" 0 0 ; ; 141.91 0.0062854 8108200 1022.02 1084.29 877.28 1192.07 1401.97 970.56 1150.72 1518.32 1200.86 1168.36 FALSE FALSE TRUE 1129.520753 1119.421707 996.8311497 1215.144239 1294.551361 887.8628278 1021.237957 1479.483573 1192.503117 1218.733717 0.926798641 0.918512134 0.817923666 0.997054747 1.06221018 0.728512566 0.837950032 1.213951458 0.978477169 1 10.25116723 -9.073376826 0.913764232 0.998808512 0.929538706 0.020748447 0.128391994 1.70401727 2.637626426 0.074649016 0.02383836 8.45E-10 9.073376826 -0.069269806 INFS(ph)DLDQR ddPTM_HeLa_SAHA_4h_R1 2 INFSDLDQR 9 0 A0A5H1ZRS1;A0A4W8VX11;Q15154-5;Q15154-4;Q15154-2;Q15154;E7EV93;E9PGW9;E5RGQ4;Q15154-3 A0A5H1ZRS1 PCM1 Pericentriolar material 1 protein 1 0 INFS(1)DLDQR;INFS(1)DLDQR ; 122.46 0.0032542 15214500 5380.8 5483.7 4943.6 5291.1 6111.6 6880.6 5515.5 5338.8 6734.3 5757.4 TRUE FALSE FALSE 5946.777232 5661.375478 5617.288063 5393.516892 5643.330528 6294.334171 4894.881424 5202.241226 6687.435458 6005.62969 0.990200452 0.942678082 0.935337068 0.898076833 0.93967341 1.048072308 0.815048825 0.866227439 1.113527774 1 12.55209981 -1 0.222316952 1.005442395 0.203174431 0.401069251 0.064069876 35.91476614 0.431397614 0.038062571 10.47307353 0.1 1 -0.802267964 INFVGGNK(ac)LQSTGNK ddPTM_HeLa_SAHA_4h_R1 2 INFVGGNKLQSTGNK 15 1 Q96KR1 Q96KR1 ZFR Zinc finger RNA-binding protein 0 1 ; INFVGGNK(1)LQSTGNK;INFVGGNK(1)LQSTGNK 345.51 1.73E-205 11660100 1705.28 2138.87 1493.78 2470.5 2526.59 3142.44 2773.42 3429.26 2693.09 1615.25 FALSE TRUE FALSE 1884.649175 2208.170791 1697.344559 2518.3201 2333.00322 2874.686433 2461.347482 3341.544495 2674.348567 1684.891332 1.118558294 1.310571637 1.007391116 1.49464838 1.384660942 1.706155393 1.460834557 1.983240361 1.587252849 1 10.71843983 -1 0.222817782 0.969840201 6.057997135 0.403619282 0.229468557 13.33972672 0.160371723 0.089017265 24.74547726 0.1 1 5.088156934 INHEGEVNR ddPTM_HeLa_SAHA_4h_R1 1 INHEGEVNR 9 0 E9PC52;Q16576;Q16576-2;Q5JP01;Q09028-4;Q09028-2;Q09028-3;Q09028 E9PC52;Q09028-3 RBBP7;RBBP4 Histone-binding protein RBBP7;Histone-binding protein RBBP4 0 0 169.76 3.65E-05 7605200 4562.3 3400.2 4339.3 5132.7 3849.8 357.22 4803.7 4055.7 2848.3 3481.5 FALSE FALSE TRUE 5042.183647 3510.368711 4930.637206 5232.050831 3554.829156 326.7828463 4263.175033 3951.961067 2828.478448 3631.604503 1.388417611 0.966616466 1.35770214 1.440699511 0.978859111 0.089983049 1.173909502 1.088213505 0.778850904 1 11.82639138 -5.52433402 24.9907511 1.200608993 0.774922501 0.192211165 0.334208629 46.56482501 799637.2609 0.045459777 0.091477226 2.99E-06 5.52433402 -0.425686492 INHTVILDDPFDDPPDLLIPDRS(ph)PEPTR ddPTM_HeLa_SAHA_4h_R1 6 INHTVILDDPFDDPPDLLIPDRSPEPTR 28 1 Q8WUA2 Q8WUA2 PPIL4 Peptidyl-prolyl cis-trans isomerase-like 4 1 0 INHTVILDDPFDDPPDLLIPDRS(0.881)PEPT(0.119)R;INHTVILDDPFDDPPDLLIPDRS(0.798)PEPT(0.202)R;INHTVILDDPFDDPPDLLIPDRS(0.827)PEPT(0.173)R;INHTVILDDPFDDPPDLLIPDRS(0.562)PEPT(0.438)R;INHTVILDDPFDDPPDLLIPDRS(0.891)PEPT(0.109)R;INHTVILDDPFDDPPDLLIPDRS(0.75)PEPT(0.25)R ;;;;; 127.16 1.82E-09 360808000 5333.02 6371.74 5475.35 6717.17 7821.93 1363.31 7027.91 5768.23 9333.29 7029.09 TRUE FALSE FALSE 5893.971512 6578.188557 6221.502184 6847.190539 7222.615413 1247.148318 6237.11107 5620.687029 9268.338875 7332.148469 0.803853269 0.89717067 0.848523759 0.933858686 0.98506126 0.170093162 0.850652588 0.76658118 1.264068631 1 12.84002028 INHTVILDDPFDDPPDLLIPDRS(ph)PEPTREQLDSGR ddPTM_HeLa_SAHA_4h_R1 5 INHTVILDDPFDDPPDLLIPDRSPEPTREQLDSGR 35 2 Q8WUA2 Q8WUA2 PPIL4 Peptidyl-prolyl cis-trans isomerase-like 4 1 0 INHTVILDDPFDDPPDLLIPDRS(0.721)PEPT(0.195)REQLDS(0.084)GR;INHTVILDDPFDDPPDLLIPDRS(0.354)PEPT(0.291)REQLDS(0.354)GR;INHTVILDDPFDDPPDLLIPDRS(0.935)PEPT(0.06)REQLDS(0.005)GR;INHTVILDDPFDDPPDLLIPDRS(0.944)PEPT(0.033)REQLDS(0.024)GR;INHTVILDDPFDDPPDLLIPDRS(0.988)PEPT(0.008)REQLDS(0.004)GR ;;;; 114.6 2.34E-14 89370200 1906.19 1306.31 2234.65 1669.39 1839.77 486.12 2486.76 1686.66 1311.86 1901.65 TRUE FALSE FALSE 2106.69181 1348.635301 2539.176464 1701.703457 1698.80722 444.6998412 2206.94322 1643.517679 1302.730659 1983.639438 1.062033639 0.679879254 1.280059478 0.857869341 0.856409279 0.224183807 1.112572768 0.828536501 0.656737628 1 10.9539341 -5.875061066 3.135021465 1.016420376 0.739917128 0.044957713 0.272849773 0.288483369 5.664691526 0.0348818 0.067347395 1.33E-06 5.875061066 -0.276503248 INISEGNCPER ddPTM_HeLa_SAHA_4h_R1 2 INISEGNCPER 11 0 Q15366-2;Q15366;Q15366-3;Q15366-6;Q15366-5;H3BRU6;F8VZX2;Q15366-8;Q15366-4;Q15366-7;F8W0G4;P57721-3;P57721-5;P57721-2;F8VXH9;F8W1G6;E9PFP8;P57721-4;J3QT27;P57721;F8VTZ0;Q15365 Q15366-2;Q15365 PCBP2;PCBP3;PCBP1 Poly(rC)-binding protein 2;Poly(rC)-binding protein 3;Poly(rC)-binding protein 1 0 0 ; ; 144.55 0.0043824 25739000 1532.21 1675.89 1354.18 1586.57 1488.82 1903.6 1562.25 1460.81 1407.25 1591.88 FALSE FALSE TRUE 1693.374878 1730.189936 1538.720598 1617.280357 1374.746933 1741.402571 1386.461518 1423.444595 1397.456833 1660.513737 1.019789743 1.041960627 0.926653338 0.973963852 0.827904583 1.048713137 0.834959379 0.857231448 0.841581013 1 10.69741394 -6.355517582 1.482740036 1.011596604 0.900400425 0.059179058 0.08319866 0.291536815 1.260604174 0.009846653 0.017503066 4.41E-07 6.355517582 -0.111196179 INLVILGK ddPTM_HeLa_SAHA_4h_R1 1 INLVILGK 8 0 Q9NRY4 Q9NRY4 ARHGAP35 Rho GTPase-activating protein 35 0 0 104.37 0.02196 0 227.78 316.98 205.5 365.88 259.81 222.3 449.43 309.88 325.99 318.6 FALSE FALSE TRUE 251.7389455 327.25036 233.5044698 372.9621365 239.9034139 203.3587894 398.8589536 301.9537183 323.721409 332.3364052 0.757482303 0.984696094 0.702614779 1.122242796 0.721869197 0.611906448 1.200166299 0.908578517 0.974077483 1 8.376500529 INNFSADIK(ac)DSK ddPTM_HeLa_SAHA_4h_R1 2 INNFSADIKDSK 12 1 P13797-3;P13797 P13797-3 PLS3 Plastin-3 0 1 ; INNFSADIK(1)DSK;INNFSADIK(1)DSK 126.83 0.00080051 2074900 633.77 1024.99 1085.98 669.84 997.95 800.32 1024.27 626.53 763.88 733.66 FALSE TRUE FALSE 700.4328364 1058.200349 1233.971699 682.8057218 921.4872866 732.1282335 909.0164439 610.5042698 758.5640969 765.291673 0.91524952 1.382741229 1.61242013 0.892216322 1.204099455 0.956665621 1.187803913 0.797740641 0.991209135 1 9.579865892 INPPSSGGTSS(ph)SPIK ddPTM_HeLa_SAHA_4h_R1 1 INPPSSGGTSSSPIK 15 0 A0A0C4DG88;P14859-4;P14859-5;P14859-3;P14859;P14859-2;P14859-6;A0A0A0MT46 A0A0C4DG88 POU2F1 "POU domain protein;POU domain, class 2, transcription factor 1" 1 0 INPPS(0.024)S(0.027)GGT(0.006)S(0.149)S(0.54)S(0.254)PIK 134.88 0.000212 23031000 1020.4 956.47 662.29 960.66 985.41 1141.9 834.48 838.58 1145.7 1016.3 TRUE FALSE FALSE 1127.730354 987.4602556 752.5434321 979.2549634 909.9080987 1044.603696 740.5821142 817.1303378 1137.72698 1060.117667 1.063778474 0.931462881 0.709867834 0.923722898 0.858308589 0.985365803 0.698584825 0.770792114 1.073208207 1 10.05000869 -7.002895063 6.587444222 1.028715307 0.830869975 0.572111696 0.085487 0.080960538 17.65983914 0.013848207 0.017717019 9.93E-08 7.002895063 -0.197845332 INPPSSGGTSSS(ph)PIK ddPTM_HeLa_SAHA_4h_R1 2 INPPSSGGTSSSPIK 15 0 A0A0C4DG88;P14859-4;P14859-5;P14859-3;P14859;P14859-2;P14859-6;A0A0A0MT46 A0A0C4DG88 POU2F1 "POU domain protein;POU domain, class 2, transcription factor 1" 1 0 INPPS(0.03)S(0.018)GGT(0.018)S(0.07)S(0.213)S(0.65)PIK;INPPSSGGT(0.008)S(0.008)S(0.083)S(0.902)PIK ; 152.94 4.19E-05 56089000 3112.6 3563.5 2347.04 3570.5 3174.2 4072.8 3387.4 3069.7 4073.2 3162.2 TRUE FALSE FALSE 3439.997549 3678.959738 2666.882388 3639.612191 2930.993482 3725.774527 3006.240837 2991.181519 4044.85427 3298.537917 1.042885556 1.115330437 0.80850439 1.103401653 0.88857353 1.129523025 0.911385866 0.906820414 1.226256715 1 11.68761097 INS(ph)IYNAK ddPTM_HeLa_SAHA_4h_R1 1 INSIYNAK 8 0 E9PKM1;E9PNX7;E9PKE0;E9PJC3;B4DDL8;P78524-3;P78524-2;P78524 E9PKM1 ST5 Suppression of tumorigenicity 5 protein 1 0 INS(1)IYNAK 118.23 0.0024016 0 2006.3 1776.2 1482.3 1544.4 1831.8 1834 1909.6 1848.6 1789.5 1982.3 TRUE FALSE FALSE 2217.331839 1833.750045 1684.300125 1574.294095 1691.44788 1677.732882 1694.726782 1801.315489 1777.046724 2067.766654 1.072331752 0.886826394 0.814550385 0.761349977 0.818007137 0.811374378 0.819592858 0.871140602 0.859403899 1 11.01385767 -7.080604446 3.524621983 1.033916764 0.814798996 0.514969703 0.062978533 0.055342589 1.317178171 0.006291662 0.007893321 8.31E-08 7.080604446 -0.219117768 INS(ph)SPNVNTTASGVEDLNIIQVTIPDDDNER ddPTM_HeLa_SAHA_4h_R1 1 INSSPNVNTTASGVEDLNIIQVTIPDDDNER 31 0 P78347-2;P78347-4;P78347-3;P78347;A0A494C1K3 P78347-2 GTF2I General transcription factor II-I 1 0 INS(0.595)S(0.386)PNVNT(0.009)T(0.009)AS(0.001)GVEDLNIIQVTIPDDDNER 139.29 2.93E-14 9413200 202.32 309.2 214.06 363.61 490.04 261.28 334.32 425.57 277.87 327.14 TRUE FALSE FALSE 223.6009459 319.2182829 243.230982 370.6481973 452.4932411 239.0174741 296.7014337 414.6845356 275.93628 341.2446064 0.655251224 0.935452977 0.712776048 1.086165731 1.326008478 0.700428577 0.869468493 1.215211985 0.808617264 1 8.414662433 -6.249827546 24.68613341 0.833515046 1.027097521 0.252321239 0.185706159 887.6353097 1887063.625 0.031134889 0.051339994 5.63E-07 6.249827546 0.193582475 INSS(ph)PNVNTTASGVEDLNIIQVTIPDDDNER ddPTM_HeLa_SAHA_4h_R1 1 INSSPNVNTTASGVEDLNIIQVTIPDDDNER 31 0 P78347-2;P78347-4;P78347-3;P78347;A0A494C1K3 P78347-2 GTF2I General transcription factor II-I 1 0 INS(0.464)S(0.516)PNVNT(0.016)T(0.004)ASGVEDLNIIQVTIPDDDNER 91.396 3.98E-08 6938800 112.93 66.248 0 342.05 181.46 265.35 215.45 251.14 188.48 207.65 TRUE FALSE FALSE 124.8084955 68.39447867 0 348.6708724 167.556574 242.7406872 191.206999 244.7162024 187.1683523 216.6028077 0.576209038 0.31575989 0 1.60972462 0.77356603 1.120671933 0.882754019 1.129792384 0.864108616 1 7.758908134 -6.245695793 24.9992038 0.696245477 1.073695427 0.355354424 0.344034624 1065.576398 1692026.356 0.056485572 0.093464111 5.68E-07 6.245695793 0.37744995 INSSGES(ph)GDESDEFLQSR ddPTM_HeLa_SAHA_4h_R1 1 INSSGESGDESDEFLQSR 18 0 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 1 0 INSS(0.007)GES(0.929)GDES(0.063)DEFLQSR 231.4 7.55E-29 8820300 716.88 824.6 900.51 766.24 854.53 1151.2 944.24 1068.8 911.95 822.36 TRUE FALSE FALSE 792.2847276 851.317581 1023.226813 781.0716832 789.056096 1053.111284 837.9916301 1041.461644 905.6036657 857.8159641 0.923606882 0.992424502 1.192827898 0.910535261 0.9198431 1.227665755 0.976889759 1.214085173 1.055708571 1 9.744524355 -1 0.382329665 0.96963601 3.974591836 0.168164732 0.108568912 59.60121902 0.721465343 0.0263137 134.5449208 0.1 1 3.004955826 INSSGESGDES(ph)DEFLQSR ddPTM_HeLa_SAHA_4h_R1 1 INSSGESGDESDEFLQSR 18 0 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 1 0 INSSGES(0.003)GDES(0.997)DEFLQSR 279.5 2.24E-73 8012900 677.68 606.88 718.72 636.33 774.56 760.34 623.81 887.03 905.69 520.27 TRUE FALSE FALSE 748.9614917 626.5433102 816.6634187 648.6470873 715.2133801 695.5547544 553.617257 864.341057 899.3872295 542.7013858 1.380061874 1.154489977 1.504811744 1.195219147 1.317876458 1.281652807 1.020113955 1.592664179 1.657241446 1 9.084014783 -9.384180549 0.990314693 0.991281301 1.300559027 0 0.257126105 0.493190477 0.825434218 0.11260655 0.025825834 4.13E-10 9.384180549 0.309277725 INVDIPEEANQNLS(ph)FGATER ddPTM_HeLa_SAHA_4h_R1 1 INVDIPEEANQNLSFGATER 20 0 Q9H9A6 Q9H9A6 LRRC40 Leucine-rich repeat-containing protein 40 1 0 INVDIPEEANQNLS(0.769)FGAT(0.231)ER 88.951 0.0014607 3283000 1561.7 1496 1536.1 1551 1821 2348 1572.6 1530.2 1285 1838.8 TRUE FALSE FALSE 1725.966771 1544.471382 1745.431708 1581.021848 1681.475373 2147.937191 1395.646909 1491.0597 1276.05758 1918.079667 0.899841024 0.805217535 0.909989162 0.824273295 0.876645221 1.119837318 0.727627185 0.7773711 0.665278717 1 10.90544693 -13.52287874 0.150400627 1.502444201 0.826767266 0 0.146286095 80.73909102 0.827113891 11.8446915 0.234926722 3.00E-14 13.52287874 -0.675676935 INVELSTK(ac)GQK ddPTM_HeLa_SAHA_4h_R1 2 INVELSTKGQK 11 1 Q96PK6 Q96PK6 RBM14 RNA-binding protein 14 0 1 ; INVELSTK(1)GQK;INVELSTK(1)GQK 155.48 4.64E-07 5480600 1881.94 1923.54 1931.39 2134.28 2306.48 2177.78 2444.04 2382.23 1697.42 1933.37 FALSE TRUE FALSE 2079.891084 1985.863958 2194.589771 2175.592076 2129.758001 1992.220892 2169.030187 2321.296006 1685.607516 2016.727042 1.031320075 0.984696449 1.088193754 1.078773691 1.056046731 0.987848554 1.075519959 1.151021411 0.835813415 1 10.97780012 -1.00001329 0.841484976 1.02240888 44.60813877 0.275398902 0.068939426 385.9444878 1.052767559 0.005981099 32198.58804 0.09999694 1.00001329 43.58572989 INVYYNEATGGK ddPTM_HeLa_SAHA_4h_R1 4 INVYYNEATGGK 12 0 P68371 P68371 TUBB4B Tubulin beta-4B chain 0 0 ;;; ;;; 190.53 5.92E-07 28455800 10316.5 10048.3 9660.9 10349.9 11015.4 12927.9 11240.5 11499.4 10812.8 10005.3 FALSE FALSE TRUE 11401.6368 10373.87151 10977.43714 10550.23728 10171.40243 11826.37019 9975.689357 11205.262 10737.55284 10436.67745 1.092458482 0.993982191 1.051813395 1.010880841 0.974582427 1.133154708 0.955829995 1.073642647 1.028828657 1 13.34937488 -9.815667981 1.852028125 0.999861021 1.044278508 0 0.053096426 0.72126928 4.480683577 0.037828725 0.007820214 1.53E-10 9.815667981 0.044417487 INVYYNEATGGK(ac)YVPR ddPTM_HeLa_SAHA_4h_R1 1 INVYYNEATGGKYVPR 16 1 P68371 P68371 TUBB4B Tubulin beta-4B chain 0 1 INVYYNEATGGK(1)YVPR 172.1 1.15E-07 0 0 53.332 151.83 69.434 167.18 128.03 52.912 139.66 129.62 0 FALSE TRUE FALSE 0 55.05999179 172.5206017 70.77799547 154.3707045 117.1211237 46.9582025 136.0876994 128.7179639 0 0 INYTEGR ddPTM_HeLa_SAHA_4h_R1 3 INYTEGR 7 0 A0A2U3TZU2;P06744-2;P06744;K7EQ48;A0A0J9YXP8;A0A0J9YX90;A0A0J9YYH3;A0A2R8Y6C7;K7EP41;K7EPY4;K7ERC6;K7ELR7;A0A2R8YF08;K7ERK8 A0A2U3TZU2 GPI Glucose-6-phosphate isomerase 0 0 ;; ;; 134.81 0.005524 65697700 6582 6256.7 6075.4 6706.5 6596 7653.1 7372.3 6404.9 6793.9 6585.9 FALSE FALSE TRUE 7274.324959 6459.421185 6903.323873 6836.314005 6090.615905 7001.012825 6542.749401 6241.071932 6746.620697 6869.85038 1.058876767 0.940256458 1.004872521 0.995118325 0.886571842 1.019092475 0.952386011 0.90847276 0.982062246 1 12.74606296 -6.660381983 1.095516682 1.025826514 0.950726008 0.165893727 0.045586869 0.400685496 0.962413656 0.008410187 0.01363604 2.19E-07 6.660381983 -0.075100506 IPALS(ph)PSSGK ddPTM_HeLa_SAHA_4h_R1 2 IPALSPSSGK 10 0 Q5T5P2;Q5T5P2-9;Q5T5P2-2;Q5T5P2-7;Q5T5P2-10 Q5T5P2 KIAA1217 Sickle tail protein homolog 1 0 IPALS(0.769)PS(0.186)S(0.045)GK;IPALS(0.997)PS(0.003)SGK ; 108.56 0.006099 14508000 1962.36 1856.73 1806.18 1982.36 2520.1 2552.7 2537.7 2185.7 1965.94 2238.1 TRUE FALSE FALSE 2168.770028 1916.88927 2052.316804 2020.731444 2327.010482 2335.195599 2252.151317 2129.792959 1952.258863 2334.595444 0.928970385 0.821079847 0.879088841 0.865559577 0.99675106 1.00025707 0.964685904 0.912274957 0.836230049 1 11.18895686 -8.820083622 1.061481296 0.993768138 0.92300086 0 0.073219215 0.590976524 1.322398146 0.024591688 0.011445893 1.51E-09 8.820083622 -0.070767279 IPCKSS(ph)PELEDTATSSK ddPTM_HeLa_SAHA_4h_R1 1 IPCKSSPELEDTATSSK 17 1 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 IPCKS(0.273)S(0.597)PELEDT(0.119)AT(0.008)S(0.002)S(0.001)K 72.883 0.0092713 5188900 1444.7 874.4 653.62 1160.4 1132.1 1109.8 875.6 1295.9 1044.9 1367.9 TRUE FALSE FALSE 1596.660175 902.7311337 742.6919297 1182.86122 1045.358743 1015.238796 777.0751835 1262.752754 1037.628456 1426.876863 1.118989463 0.632662255 0.520501768 0.828986194 0.732620151 0.711511149 0.544598629 0.884976684 0.727202524 1 10.47864512 -7.260798505 24.99990515 1.056189472 0.688684162 0.308444686 0.151057871 22.39260763 873516.9404 0.018366677 0.021790604 5.49E-08 7.260798505 -0.36750531 IPDEELR ddPTM_HeLa_SAHA_4h_R1 1 IPDEELR 7 0 Q99961-3;Q99961-2;Q99961;Q99962 Q99961-3 SH3GL1;SH3GL2 Endophilin-A2;Endophilin-A1 0 0 124.59 0.0038474 0 1025.8 1103.1 979.49 975.95 1122.5 952.15 1045.6 1064.4 1050.4 952.2 FALSE FALSE TRUE 1133.698351 1138.841164 1112.969796 994.8409235 1036.494293 871.0214634 927.9463361 1037.174189 1043.090181 993.254002 1.141398221 1.146575963 1.120528882 1.0015977 1.043533971 0.876937281 0.934248777 1.044218485 1.050174657 1 9.956018891 -5.720195424 1.971992284 1.077997066 0.953896642 0.445562094 0.061824667 0.281648274 2.225868604 0.011389631 0.02595266 1.90E-06 5.720195424 -0.124100425 IPEPES(ph)PAKPNVPTASTAPPADSR ddPTM_HeLa_SAHA_4h_R1 1 IPEPESPAKPNVPTASTAPPADSR 24 1 K7EL81;Q9BZL4-5;Q9BZL4-2;Q9BZL4-3;Q9BZL4-4;Q9BZL4;K7ER83 K7EL81 PPP1R12C Protein phosphatase 1 regulatory subunit 12C 1 0 IPEPES(0.997)PAKPNVPT(0.001)AS(0.001)T(0.001)APPADSR 45.558 0.02256 9616300 266.51 341.84 220.65 204.33 193.82 366.92 302.51 157.01 375.59 270.98 TRUE FALSE FALSE 294.5427446 352.9158403 250.7190329 208.2851026 178.9695535 335.6563518 268.4707786 152.9939115 372.9762386 282.6632739 1.042026934 1.248538006 0.886988357 0.736866519 0.633154605 1.187477761 0.949790098 0.541258542 1.319507248 1 8.142940638 -6.539065324 24.94295279 1.038991094 0.826995972 0.349655996 0.199122558 249.1069007 383863.7454 0.02772793 0.039219411 2.89E-07 6.539065324 -0.211995123 IPESETESTASAPNS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 IPESETESTASAPNSPR 17 0 G5E9C8;Q07889 G5E9C8 SOS1 Son of sevenless homolog 1 1 0 IPESETESTASAPNS(1)PR 152.9 4.67E-05 6286700 288.2 197.06 51.491 219.35 241.9 170.2 64.17 236.82 207.4 164.14 TRUE FALSE FALSE 318.5141983 203.4448733 58.50792533 223.5958364 223.3656743 155.6980025 56.94942271 230.7624873 205.9566865 171.2168787 1.860296723 1.188229075 0.34171821 1.305921695 1.304577422 0.909361295 0.332615704 1.347778847 1.202899434 1 7.41968112 -6.996694812 24.99380011 1.412462386 0.917014282 0.191919573 0.396756292 120.1165562 908308.9988 0.073134277 0.095852064 1.01E-07 6.996694812 -0.495448103 IPEVPLHDT(ph)PER ddPTM_HeLa_SAHA_4h_R1 2 IPEVPLHDTPER 12 0 Q96AY2;Q96AY2-2 Q96AY2 EME1 Crossover junction endonuclease EME1 1 0 IPEVPLHDT(1)PER;IPEVPLHDT(1)PER ; 112.34 0.0029919 8641800 1936.89 1872.88 1474.64 1481.37 1885.16 1816.98 1529.51 1717.4 2140.1 1917.37 TRUE FALSE FALSE 2140.620977 1933.562541 1675.59626 1510.044058 1740.719448 1662.163082 1357.405509 1673.471395 2125.20687 2000.037204 1.070290579 0.966763287 0.837782545 0.755007985 0.870343534 0.831066081 0.67869013 0.836720133 1.062583669 1 10.96581112 -6.80246773 2.683770146 1.032947545 0.794083841 0.818240953 0.052660825 0.0821615 1.214248566 0.008928317 0.012390117 1.58E-07 6.80246773 -0.238863704 IPGTPGAGGRLS(ph)PENNQVLTK ddPTM_HeLa_SAHA_4h_R1 3 IPGTPGAGGRLSPENNQVLTK 21 1 Q16514-2;Q16514 Q16514-2 TAF12 Transcription initiation factor TFIID subunit 12 1 0 IPGTPGAGGRLS(0.996)PENNQVLT(0.004)K;IPGT(0.044)PGAGGRLS(0.951)PENNQVLT(0.006)K;IPGT(0.074)PGAGGRLS(0.922)PENNQVLT(0.003)K ;; 72.935 0.0020322 26332900 5350.74 4824.78 4432.82 5283.34 5172.26 5949.32 6104.58 5732.96 5657.47 5041.66 TRUE FALSE FALSE 5913.555383 4981.106038 5036.901624 5385.606686 4775.962556 5442.404466 5417.676592 5586.319184 5618.099206 5259.030636 1.124457299 0.947152885 0.957762366 1.024068323 0.908145034 1.034868371 1.030166388 1.062233627 1.068276569 1 12.36058119 -7.251083665 24.95677279 1.058771503 0.994161597 0.268288786 0.052224742 866.8477111 2089063.985 0.010470944 0.012751562 5.61E-08 7.251083665 -0.064609906 IPMPPS(ph)SPQPR ddPTM_HeLa_SAHA_4h_R1 1 IPMPPSSPQPR 11 0 Q8WUF5 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 IPMPPS(0.5)S(0.5)PQPR 109.16 0.0043725 16855000 889.93 868.96 899.29 1079.9 1197.9 1264.2 1083.7 1126.2 990.31 1016.2 TRUE FALSE FALSE 983.5369205 897.1148741 1021.840558 1100.803026 1106.117161 1156.483048 961.7592239 1097.393435 983.4183521 1060.013355 0.927853329 0.846324124 0.963988381 1.038480337 1.043493608 1.091007997 0.907308591 1.035263782 0.927741474 1 10.04986673 -6.329317716 6.345091661 0.953852868 1.021498207 0.347935033 0.058260137 0.285050381 21.53242406 0.009692447 0.014889403 4.68E-07 6.329317716 0.067645339 IPMPPSS(ph)PQPR ddPTM_HeLa_SAHA_4h_R1 1 IPMPPSSPQPR 11 0 Q8WUF5 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 IPMPPS(0.23)S(0.77)PQPR 117.27 0.0024162 14464000 830.09 1087.6 1001.3 812.22 1371.7 1124.8 1006.5 840.41 1024.8 1134.9 TRUE FALSE FALSE 917.4026748 1122.838954 1137.751949 827.9416926 1266.600642 1028.960712 893.245971 818.9135291 1017.668333 1183.831093 0.774943892 0.948479019 0.961076252 0.69937485 1.069916688 0.869178651 0.75453836 0.691748624 0.859639808 1 10.20924754 -9.51224566 1.210931886 1.001633791 0.844754306 0.020780328 0.122870934 0.637583447 1.645111917 0.084624333 0.019532196 3.07E-10 9.51224566 -0.156879485 IPMTPTSSFVSPPPPTAS(ph)PHSNR ddPTM_HeLa_SAHA_4h_R1 2 IPMTPTSSFVSPPPPTASPHSNR 23 0 Q7Z5L9;Q7Z5L9-2 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 1 0 IPMTPTSSFVSPPPPT(0.098)AS(0.804)PHS(0.098)NR;IPMTPTSSFVSPPPPT(0.183)AS(0.8)PHS(0.017)NR ; 102.66 6.53E-05 5418200 496.06 630.21 328.74 474.49 501.7 669.92 760.35 572.3 894.83 398.33 TRUE FALSE FALSE 548.2378668 650.6292175 373.5389752 483.6744401 463.2598544 612.8390471 674.7934169 557.6613947 888.6028052 415.5039557 1.319452822 1.565879719 0.899002212 1.164066993 1.114934883 1.474929513 1.624036084 1.342132577 2.13861455 1 8.698718402 -13.34215509 0.079778649 6.19E-22 1.658877274 0 0.4010329 184.3398388 1.16999821 34.1314028 4.056358822 4.55E-14 13.34215509 1.658877274 IPNIYAIGDVVAGPMLAHK ddPTM_HeLa_SAHA_4h_R1 1 IPNIYAIGDVVAGPMLAHK 19 0 E9PEX6;P09622-2;P09622-3;P09622 E9PEX6 DLD "Dihydrolipoyl dehydrogenase;Dihydrolipoyl dehydrogenase, mitochondrial" 0 0 90.714 0.0028487 334270 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 IPNSYEVLFPES(ph)PAR ddPTM_HeLa_SAHA_4h_R1 2 IPNSYEVLFPESPAR 15 0 O14686;O14686-3 O14686 KMT2D Histone-lysine N-methyltransferase 2D 1 0 IPNSYEVLFPES(1)PAR;IPNSYEVLFPES(1)PAR ; 203.06 1.58E-12 11131900 447.302 636.732 518.09 515.344 716.27 800.98 494.44 348.59 612.02 531.15 TRUE FALSE FALSE 494.3512767 657.3625346 588.6926071 525.3192283 661.3895473 732.7319978 438.8043099 339.6735726 607.760903 554.0504759 0.89224953 1.186466871 1.062525226 0.948143267 1.193735185 1.322500439 0.791993381 0.613073334 1.096941397 1 9.113873606 -4.531509622 24.91653704 1.012171892 0.657803226 0.51988514 0.137840146 106.8926747 308590.426 0.02089814 0.078444669 2.94E-05 4.531509622 -0.354368666 IPSIVS(ph)SPLNSPLDR ddPTM_HeLa_SAHA_4h_R1 1 IPSIVSSPLNSPLDR 15 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 IPSIVS(0.499)S(0.499)PLNS(0.003)PLDR 98.253 0.0029987 0 619.06 481.14 444.32 698.32 551.92 830.39 674.21 705.58 653.78 550.19 TRUE FALSE FALSE 684.1755711 496.7292517 504.8696157 711.8369934 509.6320088 759.6361004 598.3461164 687.5322853 649.2302917 573.9113835 1.192127549 0.865515594 0.879699602 1.240325622 0.887997735 1.323612185 1.042575794 1.197976386 1.131237871 1 9.16468418 -5.255048676 24.98535316 1.058931776 1.173506868 0.189675213 0.140844502 888.6981762 3474478.507 0.020258852 0.05031706 5.56E-06 5.255048676 0.114575092 IPSIVSS(ph)PLNSPLDR ddPTM_HeLa_SAHA_4h_R1 1 IPSIVSSPLNSPLDR 15 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 IPS(0.001)IVS(0.398)S(0.599)PLNS(0.003)PLDR 104.9 0.0029904 5558000 505.08 399.3 334.58 424.35 637.21 584.39 416.14 293.51 360.13 539.83 TRUE FALSE FALSE 558.2066318 412.237582 380.17482 432.5639079 588.3871075 534.5966843 369.314832 286.0024392 357.623826 563.1047132 0.991301651 0.732079793 0.67514054 0.768176678 1.044898211 0.949373486 0.655854628 0.507902762 0.635092937 1 9.137259416 -2.908019745 0.212772328 1.029107642 6.20E-16 0 0.183104434 19.2154402 0.458857627 0.144342962 5.741249146 0.001235891 2.908019745 -1.029107642 IPSLGWS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 3 IPSLGWSPSK 10 0 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 IPS(0.003)LGWS(0.725)PS(0.272)K;IPSLGWS(0.985)PS(0.015)K;IPSLGWS(0.978)PS(0.022)K ;; 132.5 0.0014789 24177200 3782.34 5070.5 4064.11 3911.14 5063.9 5673.2 5352.5 5748.7 5167.1 4453.33 TRUE FALSE FALSE 4180.183875 5234.787527 4617.945746 3986.84577 4675.905076 5189.811443 4750.222613 5601.656578 5131.14173 4645.33485 0.899867073 1.126891321 0.994103955 0.858247231 1.006580844 1.117209332 1.022579161 1.205867124 1.104579518 1 12.18156688 -1.000006536 0.524000089 0.961810819 9.720942238 0.232052667 0.088756439 75.22215843 0.677342492 0.015295399 737.4425566 0.099998495 1.000006536 8.75913142 IPSTENSSQEISVEERT(ph)PTK ddPTM_HeLa_SAHA_4h_R1 4 IPSTENSSQEISVEERTPTK 20 1 Q96T58 Q96T58 SPEN Msx2-interacting protein 1 0 IPSTENS(0.002)S(0.043)QEIS(0.001)VEERT(0.711)PT(0.243)K;IPSTENS(0.002)S(0.007)QEIS(0.274)VEERT(0.584)PT(0.133)K;IPSTENSSQEISVEERT(0.986)PT(0.014)K;IPS(0.003)T(0.011)ENS(0.159)S(0.383)QEIS(0.019)VEERT(0.399)PT(0.025)K ;;; 136.61 4.72E-05 80097000 4992.15 5423.98 4573.4 5396.68 5530.93 5598.9 5332.38 6002.36 5745.27 5218.98 TRUE FALSE FALSE 5517.247242 5599.720511 5196.639135 5501.140545 5107.151338 5121.842221 4732.366568 5848.828323 5705.288198 5443.995769 1.013455461 1.028604861 0.954563404 1.010496844 0.938125516 0.940824064 0.869281823 1.074363128 1.047996442 1 12.41045023 -6.091980606 1.424758905 1.006845006 0.949908379 0.176945028 0.05284493 0.470885942 1.885980543 0.007582787 0.015558737 8.09E-07 6.091980606 -0.056936627 IPTPIVGVK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 IPTPIVGVKR 10 1 G3XAH6;P51003;H0YJL4 G3XAH6 PAPOLA Poly(A) polymerase alpha 0 1 ; IPTPIVGVK(1)R;IPTPIVGVK(1)R 92.838 0.0094119 7701000 735.71 830.87 1118.47 1081.73 1226.32 961.59 1238.87 865.72 946.96 714.87 FALSE TRUE FALSE 813.0953534 857.7907332 1270.889267 1102.668448 1132.359627 879.6571222 1099.469087 843.5761359 940.3700283 745.6915442 1.090391006 1.150329167 1.704309613 1.47871926 1.51853623 1.179652806 1.474428798 1.131266866 1.261071063 1 9.542435172 -6.983193569 24.27505374 1.046772809 1.415279974 0.393064861 0.169682263 92.36906578 133416.326 0.024585695 0.032307018 1.04E-07 6.983193569 0.368507164 IPVEGPLS(ph)PSRGDFPK ddPTM_HeLa_SAHA_4h_R1 1 IPVEGPLSPSRGDFPK 16 1 O00512 O00512 BCL9 B-cell CLL/lymphoma 9 protein 1 0 IPVEGPLS(0.651)PS(0.349)RGDFPK 96.666 0.021371 2995700 299.91 320.25 301.77 327.06 310.89 376.77 363.92 378.4 274.97 326.6 TRUE FALSE FALSE 331.4559098 330.6263101 342.893644 333.3907192 287.0696754 344.6670763 322.9707638 368.7210759 273.0564614 340.6813243 0.972920692 0.970485573 1.00649381 0.978599927 0.842634024 1.011699356 0.94801429 1.082304927 0.801501115 1 8.412279053 -9.123635098 0.677086665 1.001970274 0.972814539 0 0.084406638 3.12246291 2.34131319 0.052130661 0.011872868 7.52E-10 9.123635098 -0.029155735 IPYQS(ph)PVSSSESAPGTIMNGHGGGR ddPTM_HeLa_SAHA_4h_R1 4 IPYQSPVSSSESAPGTIMNGHGGGR 25 0 Q5T6F2;H0YDN2 Q5T6F2 UBAP2 Ubiquitin-associated protein 2 1 0 IPY(0.004)QS(0.895)PVS(0.025)S(0.033)S(0.043)ESAPGTIMNGHGGGR;IPYQS(0.487)PVS(0.382)S(0.05)S(0.081)ESAPGTIMNGHGGGR;IPYQS(0.989)PVS(0.004)S(0.003)S(0.004)ESAPGTIMNGHGGGR;IPY(0.009)QS(0.791)PVS(0.068)S(0.068)S(0.046)ES(0.017)APGTIMNGHGGGR ;;; 131.68 2.05E-09 28568600 1831.32 2499.32 1439.88 2051.9 3071.74 3331.75 2456 2334.98 2528.47 2235.42 TRUE FALSE FALSE 2023.94664 2580.299608 1636.099348 2091.617492 2836.383945 3047.866156 2179.644416 2275.254593 2510.874171 2331.799896 0.867976126 1.106569913 0.701646548 0.896996992 1.216392517 1.307087354 0.934747626 0.975750362 1.076796588 1 11.18722827 -5.776656411 24.99547523 0.928071385 1.110269192 0.23491126 0.146254105 236.2784903 388110.684 0.020999108 0.038167994 1.67E-06 5.776656411 0.182197806 IQASTMAFK ddPTM_HeLa_SAHA_4h_R1 2 IQASTMAFK 9 0 P37802;P37802-2;X6RJP6 P37802 TAGLN2 Transgelin-2 0 0 ; ; 126.07 0.0029806 2022900 345.488 419.355 1002.05 457.98 602.08 119.02 573.162 140.64 0 69.965 FALSE FALSE TRUE 381.828013 432.9423771 1138.604156 466.8448652 555.9487605 108.8788264 508.6683033 137.0426324 0 72.98153355 5.2318442 5.932218139 15.60126377 6.396753294 7.617663448 1.491868163 6.969822071 1.877771345 0 1 6.189459561 -5.238988329 24.80296295 4.76436825 3.798822084 0.015031764 4.310035711 4958.392509 5477810.68 0.661801155 1.685819536 5.77E-06 5.238988329 -0.965546166 IQDPTEDAEAEDT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 IQDPTEDAEAEDTPR 15 0 O96028-5;O96028-3;O96028;H0Y9L4 O96028-5 WHSC1 Histone-lysine N-methyltransferase NSD2 1 0 IQDPTEDAEAEDT(1)PR;IQDPTEDAEAEDT(1)PR ; 165.16 7.41E-06 72684000 5019.7 4764.87 4280.4 5006.2 5132.5 5128.8 5021.1 4987.9 5629.4 4884.7 TRUE FALSE FALSE 5547.695077 4919.254914 4863.710621 5103.10224 4739.248959 4691.797386 4456.112613 4860.31674 5590.224547 5095.303322 1.08878603 0.965448886 0.954547809 1.001530609 0.930121066 0.92080826 0.874552962 0.953881729 1.097132829 1 12.31495232 -6.367315623 0.934256011 1.039507203 0.915198563 0.614692188 0.041664475 0.296382125 0.513999159 0.008620938 0.017547074 4.29E-07 6.367315623 -0.12430864 IQEAGTEVVK ddPTM_HeLa_SAHA_4h_R1 1 IQEAGTEVVK 10 0 P40926;P40926-2;G3XAL0 P40926 MDH2 "Malate dehydrogenase, mitochondrial;Malate dehydrogenase" 0 0 115.57 0.023668 6868900 1445 1576.9 1261.2 1692.6 1553 1930.5 1774.3 1806.2 1894.3 1376.2 FALSE FALSE TRUE 1596.99173 1627.992595 1433.069768 1725.362721 1434.009476 1766.010539 1574.651094 1760.000019 1881.117412 1435.534717 1.112471688 1.134067031 0.998282905 1.201895503 0.99893751 1.230210958 1.0969091 1.226024002 1.310394928 1 10.48737251 -13.52287874 0.054393852 0.49680148 1.365543051 0 0.119362705 292.6198599 1.256201028 21.10374547 4.621128195 3.00E-14 13.52287874 0.868741571 IQEAGTEVVK(ac)AK ddPTM_HeLa_SAHA_4h_R1 2 IQEAGTEVVKAK 12 1 P40926;P40926-2;G3XAL0 P40926 MDH2 "Malate dehydrogenase, mitochondrial;Malate dehydrogenase" 0 1 ; IQEAGTEVVK(1)AK;IQEAGTEVVK(1)AK 213.63 1.25E-32 5997700 1329.26 1692.1 1712.69 1268.38 1850.31 1826.3 2065.29 2012.38 1287.94 1626.54 FALSE TRUE FALSE 1469.077666 1746.92515 1946.086474 1292.931329 1708.539648 1670.688966 1832.898134 1960.906233 1278.977121 1696.668099 0.865860368 1.029621026 1.147004812 0.762041397 1.006996977 0.984688146 1.080292683 1.155739437 0.75381692 1 10.72848866 -4.605249845 1.533021787 0.949303764 1.175769835 0.286421641 0.11462282 0.56506491 1.906756974 0.014555867 0.158240484 2.48E-05 4.605249845 0.226466071 IQEQESSGEEDS(ph)DLSPEER ddPTM_HeLa_SAHA_4h_R1 1 IQEQESSGEEDSDLSPEER 19 0 P41236;Q6NXS1;E7EMN6 P41236 PPP1R2;PPP1R2P3 Protein phosphatase inhibitor 2;Protein phosphatase inhibitor 2-like protein 3 1 0 IQEQES(0.012)S(0.107)GEEDS(0.855)DLS(0.026)PEER 251 2.20E-42 19067000 1047.2 1285.2 1194.2 912.33 1237.8 1360.6 1250.4 1249.7 1489.1 962.58 TRUE FALSE FALSE 1157.349301 1326.841323 1356.939357 929.9894664 1142.960031 1244.669225 1109.701701 1217.734484 1478.737232 1004.081535 1.152644741 1.321447788 1.351423475 0.926209112 1.138313964 1.239609716 1.105190827 1.212784462 1.472726249 1 9.97166071 -8.721039046 0.947733471 1.012478685 1.177807446 0 0.183479456 0.538459869 0.966744185 0.049267993 0.023097538 1.90E-09 8.721039046 0.165328761 IQFK(ac)PDDGTTPER ddPTM_HeLa_SAHA_4h_R1 2 IQFKPDDGTTPER 13 1 Q96AE4;E9PEB5;Q96AE4-2 Q96AE4 FUBP1 Far upstream element-binding protein 1 0 1 ; IQFK(1)PDDGTTPER;IQFK(1)PDDGTTPER 180.18 2.77E-12 1256000 207.01 820.53 399.92 245.53 566.21 781.43 525.16 589.13 598.9 139.06 FALSE TRUE FALSE 228.7842616 847.1157104 454.4190149 250.2825882 522.8271121 714.8477678 466.0676147 574.0609077 594.7322061 145.0555571 1.577218178 5.839939724 3.132723929 1.725425714 3.604323215 4.928096392 3.213028331 3.957524406 4.100030484 1 7.180461757 -5.702946386 4.528928179 1.840338398 3.994323919 0 1.583920309 0.213200742 8.838803168 0.236862708 0.478133224 1.98E-06 5.702946386 2.153985522 IQFVEGPVEPGKPT(ph)SPEHVVYEGETVTR ddPTM_HeLa_SAHA_4h_R1 3 IQFVEGPVEPGKPTSPEHVVYEGETVTR 28 1 Q9H7C4-2;Q9H7C4;C9JTN4;C9JSS1 Q9H7C4-2 SYNC Syncoilin 1 0 IQFVEGPVEPGKPT(0.5)S(0.5)PEHVVY(0.001)EGETVTR;IQFVEGPVEPGKPT(0.497)S(0.497)PEHVVY(0.004)EGET(0.001)VT(0.001)R;IQFVEGPVEPGKPT(0.43)S(0.43)PEHVVY(0.122)EGET(0.009)VT(0.009)R ;; 64.779 0.00031618 37189000 2068.3 2269.68 1951.73 2371.49 2456.59 2875.08 2386.8 2031.7 3100.39 2228.31 TRUE FALSE FALSE 2285.853284 2343.219121 2217.7016 2417.393618 2268.366605 2630.107009 2118.230982 1979.732056 3078.814134 2324.383349 0.983423532 1.008103557 0.954103204 1.04001503 0.975900385 1.131528932 0.911308792 0.851723558 1.324572444 1 11.18263231 -4.534968838 24.97961476 1.000888572 0.866619806 0.176139965 0.112588669 95.02367804 196330.9589 0.005919212 0.022179936 2.92E-05 4.534968838 -0.134268766 IQIISTDSAVAS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 3 IQIISTDSAVASPQR 15 0 C9JMI6;C9JKS0;P49116;P49116-2;C9J2Y1 C9JMI6 NR2C2 Nuclear receptor subfamily 2 group C member 2 1 0 IQIIS(0.006)TDSAVAS(0.993)PQR;IQIISTDSAVAS(1)PQR;IQIISTDSAVAS(1)PQR ;; 181.81 1.44E-07 40397400 2324.77 2312.15 2504.99 2091.75 2457.43 2891.92 2389.85 2639.51 2791.02 2658.15 TRUE FALSE FALSE 2569.299975 2387.065177 2846.356992 2132.238846 2269.142244 2645.512147 2120.937788 2571.995156 2771.597065 2772.755855 0.926623226 0.860899878 1.026544399 0.768996247 0.818370734 0.954109299 0.764920498 0.927595248 0.99958208 1 11.43710488 -7.686864961 0.389574512 1.004866243 0.84751252 0.314178624 0.075765758 0.907555067 0.382545559 0.053528839 0.041655942 2.06E-08 7.686864961 -0.157353722 IQLLVFK ddPTM_HeLa_SAHA_4h_R1 1 IQLLVFK 7 0 B0QY90;B0QY89;Q9Y262-2;Q9Y262 B0QY90 EIF3L Eukaryotic translation initiation factor 3 subunit L 0 0 110.35 0.011444 1052900 795.51 948.99 1674.4 1619.1 1466.9 621.61 1308.3 226.84 469 683.91 FALSE FALSE TRUE 879.1853917 979.7378987 1902.578512 1650.440022 1354.506439 568.6453309 1161.086641 221.0377613 465.7361908 713.3967071 1.232393398 1.373342334 2.666929204 2.31349543 1.898672121 0.797095536 1.627546958 0.309838494 0.652843202 1 9.478560746 -4.25229468 23.4156562 1.371064341 0.309837117 0.223050202 0.625603789 663.9151993 1699909.212 0.091602507 1.431205453 5.59E-05 4.25229468 -1.061227224 IQNWHEEHR ddPTM_HeLa_SAHA_4h_R1 2 IQNWHEEHR 9 0 A0A2R8Y7M3;A0A2R8Y5S7;P35241;P35241-5;P35241-4 A0A2R8Y7M3 RDX Radixin 0 0 ; ; 96.668 0.0053507 8854600 3146.1 3035.4 3608.6 4206.6 4263.1 1570.54 4268.6 2727.3 3421.9 3644.1 FALSE FALSE TRUE 3477.021233 3133.748952 4100.361215 4288.024826 3936.462199 1436.721156 3788.285894 2657.539615 3398.086719 3801.214985 0.914713124 0.824407187 1.07869753 1.128066906 1.035579996 0.377963667 0.996598695 0.699128996 0.893947523 1 11.89224491 IQPAGNT(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 IQPAGNTSPR 10 0 H0Y5S9;H0Y682;P49674 H0Y5S9 CSNK1E Casein kinase I isoform epsilon 1 0 IQPAGNT(0.947)S(0.053)PR 98.898 0.019748 3745300 3530.2 3404.3 3114 3436 3383.5 4505.8 4174.7 3795.4 3287 3719 TRUE FALSE FALSE 3901.522633 3514.601554 3538.359703 3502.508749 3124.256961 4121.880491 3704.951769 3698.319164 3264.125499 3879.34429 1.005717034 0.905978251 0.91210252 0.902861021 0.805356969 1.062519896 0.955045877 0.953336153 0.841411655 1 11.9215971 -7.271039513 23.62449375 1.002699715 0.928057244 0 0.078682965 325.6546777 801385.6407 0.010160512 0.011703481 5.36E-08 7.271039513 -0.074642471 IQPAGNTS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 IQPAGNTSPR 10 0 H0Y5S9;H0Y682;P49674 H0Y5S9 CSNK1E Casein kinase I isoform epsilon 1 0 IQPAGNT(0.037)S(0.963)PR;IQPAGNT(0.03)S(0.97)PR ; 115.91 0.0038392 198329000 9102.5 9556.5 8184.2 9607.2 10405.1 11440.1 10866.1 10768.2 9784.8 9903.7 TRUE FALSE FALSE 10059.94271 9866.13687 9299.500155 9793.161248 9607.863486 10465.33912 9643.41783 10492.76504 9716.70678 10330.69697 0.973791288 0.955031098 0.900181292 0.947967138 0.930030521 1.01303321 0.933472142 1.015688008 0.940566431 1 13.33464997 -7.923221567 1.269305996 0.993319628 0.955195957 0 0.037662416 0.460578438 1.550107379 0.007876337 0.006879341 1.19E-08 7.923221567 -0.038123671 IQPEEKPVEVS(ph)PAVTK ddPTM_HeLa_SAHA_4h_R1 2 IQPEEKPVEVSPAVTK 16 1 Q8N0X7 Q8N0X7 SPG20 Spartin 1 0 IQPEEKPVEVS(0.981)PAVT(0.019)K;IQPEEKPVEVS(0.989)PAVT(0.011)K ; 74.444 0.010642 26097000 4016.7 4226 3819.2 3893.8 4647.9 5233.7 4893.5 3898.6 4683.7 4027 TRUE FALSE FALSE 4439.194935 4362.925173 4339.660686 3969.17013 4291.778906 4787.759316 4342.870501 3798.879457 4651.10575 4200.623678 1.056794247 1.038637476 1.033099135 0.944900194 1.021700403 1.139773444 1.033863263 0.904360816 1.107241712 1 12.03638783 -9.737834743 1.676762128 1.000022707 1.0300788 0 0.068685721 1.327467476 6.75636421 0.043106418 0.009387791 1.83E-10 9.737834743 0.030056092 IQPFHFIK(ac)DPK ddPTM_HeLa_SAHA_4h_R1 1 IQPFHFIKDPK 11 1 H3BVA4;H3BUC1;Q8NEZ5-3;Q8NEZ5 H3BVA4 FBXO22 F-box only protein 22 0 1 IQPFHFIK(1)DPK 102.4 0.0012005 0 209.15 306.05 341.58 448.81 478.55 489.1 408.31 352.23 422.03 360.55 FALSE TRUE FALSE 231.1493566 315.9662208 388.1287435 457.4973665 441.8836024 447.4259284 362.3658842 343.2204666 419.0930589 376.095075 0.614603519 0.840123261 1.031996347 1.216440727 1.174925256 1.189661759 0.963495425 0.912589633 1.114327431 1 8.554953604 -6.715688247 3.986991075 0.813699291 1.096211424 0.206457818 0.156903308 0.176188418 5.866500422 0.027528392 0.038739627 1.92E-07 6.715688247 0.282512133 IQPQPPDEDGDHS(ph)DKEDEQPQVVVLK ddPTM_HeLa_SAHA_4h_R1 2 IQPQPPDEDGDHSDKEDEQPQVVVLK 26 1 Q96AT1 Q96AT1 KIAA1143 Uncharacterized protein KIAA1143 1 0 IQPQPPDEDGDHS(1)DKEDEQPQVVVLK;IQPQPPDEDGDHS(1)DKEDEQPQVVVLK ; 89.721 1.36E-05 181355000 4237.3 4041.8 4021.3 4303 4923.1 4428.6 4512.8 4867.5 4896.6 4277.5 TRUE FALSE FALSE 4682.998655 4172.756972 4569.301822 4386.290787 4545.893142 4051.258365 4005.007867 4742.996398 4862.524162 4461.923959 1.049546944 0.93519231 1.024065373 0.983049202 1.018819053 0.907962216 0.897596621 1.062993552 1.089781943 1 12.12345021 -6.131948305 0.873452157 1.019615155 0.958340069 0.155639736 0.057212224 0.774243904 1.155981281 0.009675033 0.0241626 7.38E-07 6.131948305 -0.061275087 IQPSS(ph)PPPNHPNNHLFR ddPTM_HeLa_SAHA_4h_R1 1 IQPSSPPPNHPNNHLFR 17 0 H0Y4E8;Q9Y2K2-7;Q9Y2K2-8;Q9Y2K2 H0Y4E8 SIK3 Serine/threonine-protein kinase SIK3 1 0 IQPS(0.23)S(0.77)PPPNHPNNHLFR 83.856 0.0036383 3427400 1714.5 2109.2 2024.7 2221.6 2314.4 1851 2702.8 2177.7 1824.1 1898.7 TRUE FALSE FALSE 1894.838976 2177.539464 2300.615572 2264.60228 2137.071172 1693.284387 2398.673831 2121.997587 1811.40594 1980.562249 0.956717708 1.0994552 1.161597205 1.143413837 1.079022471 0.854951359 1.211107518 1.071411711 0.914591773 1 10.95169433 -7.257456478 24.71593295 0.97956114 1.088960399 0.294269689 0.091432424 306.6257345 1902768.363 0.014821422 0.017799507 5.53E-08 7.257456478 0.109399259 IQQFDDGGS(ph)DEEDIWEEK ddPTM_HeLa_SAHA_4h_R1 2 IQQFDDGGSDEEDIWEEK 18 0 H0YEN2;E9PQP7;H7BXH2;E9PKF6;Q5H9R7-4;Q5H9R7-6;Q5H9R7-2;Q5H9R7;Q5H9R7-5;Q5H9R7-3 H0YEN2 PPP6R3 Serine/threonine-protein phosphatase 6 regulatory subunit 3 1 0 IQQFDDGGS(1)DEEDIWEEK;IQQFDDGGS(1)DEEDIWEEK ; 156.23 1.61E-05 21749200 5366.7 6109.5 4953.2 5635.1 6632.8 7443.7 7488.3 6738.2 7315.7 5922.7 TRUE FALSE FALSE 5931.194129 6307.451809 5628.196301 5744.175509 6124.596297 6809.454883 6645.696776 6565.846601 7264.789448 6178.056582 0.960042054 1.020944325 0.910997856 0.929770622 0.991346747 1.102200149 1.075693738 1.062768933 1.175902058 1 12.59293737 -5.341923394 5.322975792 0.974559993 1.079515755 0.168286473 0.071079105 0.097481317 4.766886925 0.004879499 0.01116111 4.55E-06 5.341923394 0.104955762 IQQFDDGGS(ph)DEEDIWEEKHIAFTPESQR ddPTM_HeLa_SAHA_4h_R1 3 IQQFDDGGSDEEDIWEEKHIAFTPESQR 28 1 H0YEN2;E9PQP7;H7BXH2;E9PKF6;Q5H9R7-4;Q5H9R7-6;Q5H9R7-2;Q5H9R7;Q5H9R7-5;Q5H9R7-3 H0YEN2 PPP6R3 Serine/threonine-protein phosphatase 6 regulatory subunit 3 1 0 IQQFDDGGS(1)DEEDIWEEKHIAFTPESQR;IQQFDDGGS(1)DEEDIWEEKHIAFTPESQR;IQQFDDGGS(1)DEEDIWEEKHIAFTPESQR ;; 93.437 9.08E-07 74853000 5233.7 2883.18 5500.96 4244.06 4475.13 4781.14 5833.69 4754.12 2110.66 4346.99 TRUE FALSE FALSE 5784.204579 2976.596924 6250.602181 4326.209918 4132.246506 4373.759974 5177.267848 4632.516494 2095.971745 4534.410013 1.275624516 0.656446355 1.378481911 0.954084414 0.911308526 0.964570906 1.141773204 1.021635997 0.462236926 1 12.14669913 IQQHVGEEAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 IQQHVGEEASPR 12 0 Q8TER5-4;Q8TER5-3;Q8TER5;Q8TER5-2 Q8TER5-4 ARHGEF40 Rho guanine nucleotide exchange factor 40 1 0 IQQHVGEEAS(1)PR;IQQHVGEEAS(1)PR;IQQHVGEEAS(1)PR ;; 132.24 7.14E-05 8355100 1229.74 1619.91 1856.17 1571.13 1584.86 1710.43 1520.48 1442.34 1750.86 1531.18 TRUE FALSE FALSE 1359.089695 1672.396147 2109.119181 1601.541493 1463.428369 1564.691741 1349.391589 1405.447031 1738.675623 1597.196663 0.850921948 1.047082169 1.32051314 1.002720285 0.916248076 0.979648767 0.844849992 0.879946135 1.088579549 1 10.64132625 -4.764451884 24.79708232 0.971460648 0.862398047 0.105998769 0.127014047 124.7483742 1026901.767 0.019391041 0.062110684 1.72E-05 4.764451884 -0.109062601 IQQNQS(ph)IR ddPTM_HeLa_SAHA_4h_R1 3 IQQNQSIR 8 0 E9PF63;O75116;Q14DU5 E9PF63 ROCK2 Rho-associated protein kinase 2 1 0 IQQNQS(1)IR;IQQNQS(1)IR;IQQNQS(1)IR ;; 123.11 0.0030859 44621400 4309.9 5708.9 4060 3434.02 5469.4 4357.8 5926.2 4509 2949.47 4792.7 TRUE FALSE FALSE 4763.235057 5893.872106 4613.275656 3500.490423 5050.335754 3986.490924 5259.368379 4393.666309 2928.944398 4999.336752 0.952773396 1.178930806 0.922777537 0.700190965 1.010201154 0.79740396 1.052013225 0.878849841 0.585866595 1 12.28752099 -6.536555739 24.99878009 0.994962422 0.889928187 0 0.169832234 298.4837494 545566.2749 0.01643706 0.023251671 2.91E-07 6.536555739 -0.105034235 IQQNTFTR ddPTM_HeLa_SAHA_4h_R1 2 IQQNTFTR 8 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;O75369-5;O75369-4;P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98;Q14315-2;Q14315 O75369-8;P21333-2;Q14315-2 FLNB;FLNA;FLNC Filamin-B;Filamin-A;Filamin-C 0 0 ; ; 156.75 0.00026459 18977700 1294.54 1597.78 1263.26 1750 1512.55 1503.74 1669.7 1446.89 1388.62 1282.69 FALSE FALSE TRUE 1430.705657 1649.54912 1435.410494 1783.873781 1396.658746 1375.612892 1481.820962 1409.880649 1378.95648 1337.993043 1.069292299 1.232853286 1.072808638 1.333245931 1.043846045 1.028116625 1.107495266 1.053727937 1.030615583 1 10.3858549 -7.896456337 1.603038547 1.019797611 1.122793057 0.176970501 0.090261473 0.392905225 2.092006374 0.01970452 0.017974749 1.27E-08 7.896456337 0.102995446 IQSSLSS(ph)ASPSK ddPTM_HeLa_SAHA_4h_R1 1 IQSSLSSASPSK 12 0 Q5W0B1 Q5W0B1 RNF219 RING finger protein 219 1 0 IQSSLS(0.041)S(0.479)AS(0.479)PS(0.002)K 188.63 7.45E-07 17429000 1748.7 1689.1 1539.7 1915.4 1726.3 1920.8 1869.1 1779.4 2020.9 1464.4 TRUE FALSE FALSE 1932.636289 1743.827948 1749.522298 1952.475337 1594.031267 1757.137034 1658.783949 1733.885525 2006.836392 1527.537451 1.26519732 1.141594236 1.145322032 1.278184922 1.043530073 1.150307008 1.085920315 1.135085443 1.313772302 1 10.57699204 -3.802610962 16.38950662 1.133678624 3.568816061 0 0.09968214 19145.74733 1774628.586 0.014461082 204553.3587 0.000157539 3.802610962 2.435137437 IQSSLSSAS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 2 IQSSLSSASPSK 12 0 Q5W0B1 Q5W0B1 RNF219 RING finger protein 219 1 0 IQSSLS(0.201)S(0.329)AS(0.467)PS(0.003)K;IQSSLSSAS(0.98)PS(0.02)K ; 185.32 1.01E-06 27789000 3374.8 3747.5 3069.6 3584.4 3492 3487.9 3462.5 3668.1 3785.3 3594.4 TRUE FALSE FALSE 3729.776948 3868.921459 3487.909102 3653.781245 3224.443714 3190.711298 3072.890387 3574.275313 3758.957789 3749.372175 0.994773731 1.031885147 0.930264839 0.974504817 0.859995638 0.85099882 0.81957465 0.953299685 1.002556592 1 11.87243332 -5.973204131 1.613118663 0.997942171 0.864207844 0.662165538 0.040773936 0.146912191 0.763511909 0.005891681 0.012389477 1.06E-06 5.973204131 -0.133734328 IQVEQTRDEDLDTDS(ph)LD ddPTM_HeLa_SAHA_4h_R1 2 IQVEQTRDEDLDTDSLD 17 1 V9GYT7 V9GYT7 PSIP1 1 0 IQVEQTRDEDLDT(0.01)DS(0.99)LD;IQVEQTRDEDLDT(0.004)DS(0.996)LD ; 117.53 0.0033043 28812000 2414.4 2472.5 2381.9 2721.7 2559.6 3288.8 3125.8 2975.9 2118.9 2410.5 TRUE FALSE FALSE 2668.35767 2552.610622 2706.492928 2774.382439 2363.484001 3008.575738 2774.076757 2899.780787 2104.154402 2514.428452 1.061218373 1.015185228 1.076384944 1.103384921 0.939968683 1.196524696 1.10326335 1.153256433 0.836832084 1 11.29601479 -1 0.216315646 1.010824979 1.764091603 0.341509679 0.081098835 39.18937643 0.465613805 0.04252878 10.34500671 0.1 1 0.753266624 IQVLVEPDHFK ddPTM_HeLa_SAHA_4h_R1 2 IQVLVEPDHFK 11 0 P17931 P17931 LGALS3 Galectin-3 0 0 ; ; 131.17 0.00024144 5716000 3547.2 4100.3 3605.2 3633.3 4521.5 4201.5 4635.4 2934.5 4024.6 4169 FALSE FALSE TRUE 3920.310771 4233.15241 4096.497881 3703.627775 4175.063647 3843.508563 4113.812592 2859.439739 3996.592481 4348.745993 0.901480744 0.9734191 0.941995207 0.851654197 0.960061511 0.883819972 0.945976748 0.65753202 0.919021826 1 12.08638373 -4.260924117 24.72143712 0.941806396 0.657531924 0.782601301 0.042862192 13.62615998 653544.7848 0.006819128 0.054056455 5.48E-05 4.260924117 -0.284274472 IQVWHEEHR ddPTM_HeLa_SAHA_4h_R1 4 IQVWHEEHR 9 0 P26038 P26038 MSN Moesin 0 0 ;;; ;;; 92.051 0.0066578 38448900 6447.7 6578.3 8334 6154.7 7716.5 2153.15 9050.1 4339.92 4232.09 6883.5 FALSE FALSE TRUE 7125.898669 6791.441236 9469.714118 6273.833118 7125.263437 1969.689507 8031.758929 4228.911131 4202.638541 7180.281372 0.992426104 0.945846114 1.318850004 0.873758672 0.992337635 0.274319265 1.118585542 0.588961757 0.585302765 1 12.80982466 -5.471922386 24.99939083 1.008196791 0.694236673 0.199383395 0.257896742 302.1241206 148222.8817 0.027981396 0.062567625 3.37E-06 5.471922386 -0.313960118 IQYQLVDISQDNALRDEMR ddPTM_HeLa_SAHA_4h_R1 2 IQYQLVDISQDNALRDEMR 19 1 Q5T123;Q9H299 Q5T123 SH3BGRL3 SH3 domain-binding glutamic acid-rich-like protein 3 0 0 ; ; 124.68 0.00035345 13054300 1482.81 1466.49 1333.11 1650.28 1807.24 1988.46 2019.01 1676.97 2107.5 1626.68 FALSE FALSE TRUE 1638.778759 1514.005238 1514.779288 1682.223556 1668.769662 1819.032021 1791.825681 1634.075536 2092.833736 1696.814136 0.965797446 0.892263452 0.892719631 0.991401191 0.983472277 1.072027857 1.055994079 0.96302565 1.233390088 1 10.72861283 -5.441567405 5.792619119 0.969367257 1.032901593 0 0.094829966 0.248296451 13.75090156 0.007135372 0.016069967 3.62E-06 5.441567405 0.063534336 IRAEEEDLAAVPFLAS(ph)DNEEEEDEKGNSGSLIR ddPTM_HeLa_SAHA_4h_R1 1 IRAEEEDLAAVPFLASDNEEEEDEKGNSGSLIR 33 2 O95714;A0A3B3IRP6;A0A0J9YVP0 O95714 HERC2 E3 ubiquitin-protein ligase HERC2 1 0 IRAEEEDLAAVPFLAS(0.995)DNEEEEDEKGNS(0.001)GS(0.004)LIR 54.003 0.0018168 6130300 1681.1 1701.6 1634 1525.5 2234.8 2122 1884.1 1970 1464.3 1899.9 TRUE FALSE FALSE 1857.925811 1756.732956 1856.67301 1555.028258 2063.570107 1941.193662 1672.096109 1919.610253 1454.109817 1981.813987 0.937487485 0.886426763 0.936855337 0.784648947 1.041253175 0.979503462 0.843720006 0.968612728 0.73372669 1 10.95260584 -8.574509936 0.832561169 0.9951521 0.920295511 0 0.106768107 0.756179773 1.06917681 0.02904092 0.014083923 2.66E-09 8.574509936 -0.074856589 IRAENGTGSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 IRAENGTGSSPR 12 1 Q9NQT4;M0R050;M0R102 Q9NQT4 EXOSC5 Exosome complex component RRP46 1 0 IRAENGTGS(0.001)S(0.999)PR 151.66 0.0014774 12967000 1611.7 1452.9 1208.7 1530.9 1438.9 1798.5 1666.1 1682.1 1412.5 1410.5 TRUE FALSE FALSE 1781.226001 1499.974913 1373.415341 1560.532783 1328.651793 1645.257682 1478.626043 1639.074318 1402.670297 1471.313558 1.210636571 1.019480114 0.933462031 1.060639165 0.903037823 1.118223694 1.004970039 1.114021079 0.953345594 1 10.52288902 -7.075363843 24.99999596 1.100287914 1.018451003 0 0.092422763 192.3430122 63803.952 0.016071422 0.019683395 8.41E-08 7.075363843 -0.081836911 IRDGWQVEEADDWLR ddPTM_HeLa_SAHA_4h_R1 1 IRDGWQVEEADDWLR 15 1 E9PK47;P06737-2;P06737 E9PK47 PYGL "Alpha-1,4 glucan phosphorylase;Glycogen phosphorylase, liver form" 0 0 135.86 0.00030443 3137800 807.58 489.04 870.83 796.18 684.15 792.96 840.22 697.03 560.33 779.05 FALSE FALSE TRUE 892.5249697 504.8852169 989.5021773 811.5912152 631.7305748 725.3953469 745.6762343 679.2009819 556.4306179 812.6386581 1.098304838 0.621291163 1.217641036 0.998711059 0.777381889 0.892641938 0.917598771 0.835797036 0.684720832 1 9.666470187 -6.083522806 0.616273084 1.03629593 0.850764123 0 0.188914765 1.221680336 0.857738989 0.033825429 0.107440538 8.25E-07 6.083522806 -0.185531807 IREEFPDR ddPTM_HeLa_SAHA_4h_R1 4 IREEFPDR 8 1 P04350;M0QYM7;M0R042;K7ESM5;Q9BUF5;K7ES63 P04350;K7ESM5 TUBB4A;TUBB6 Tubulin beta-4A chain;Tubulin beta-6 chain 0 0 ;;; ;;; 128.12 0.0034492 58175400 9090.5 9408.2 9738.2 9424.5 9747.6 9241 10171.3 6913.3 7309.1 8978.5 FALSE FALSE TRUE 10046.6805 9713.031853 11065.27118 9606.924826 9000.740994 8453.614812 9026.798555 6736.467796 7258.235378 9365.607075 1.072720692 1.03709581 1.181479331 1.025766376 0.961041919 0.902623262 0.96382418 0.719277217 0.774988244 1 13.1931568 -3.427939262 0.691545129 1.044015815 6.61E-11 0.356874534 0.104241901 3.426289349 0.499911842 0.010758548 3.678559391 0.000373302 3.427939262 -1.044015815 IREEYPDR ddPTM_HeLa_SAHA_4h_R1 7 IREEYPDR 8 1 P68371;Q3ZCM7;A0A075B736;Q5SQY0;A6NNZ2;CON__ENSEMBL:ENSBTAP00000025008;Q9H4B7;P07437;Q5JP53;Q5ST81;Q9BVA1;Q13885 P68371;P07437;Q9BVA1 TUBB4B;TUBB8;TUBB1;TUBB;TUBB2B;TUBB2A Tubulin beta-4B chain;Tubulin beta-8 chain;Tubulin beta-8 chain-like protein LOC260334;Tubulin beta-1 chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain 0 0 ;;;;;; ;;;;;; 141.52 0.0011173 1273701300 24542.2 22197.7 24640.6 24002.5 25588.1 24432.1 26709.2 19649.6 18114.1 19910.2 FALSE FALSE TRUE 27123.6612 22916.92004 27998.49265 24467.1031 23627.54531 22350.34763 23703.81052 19146.99168 17988.0425 20768.62616 1.305992076 1.103439383 1.348114817 1.178079999 1.13765567 1.076159177 1.141327806 0.92191903 0.866116149 1 14.34211816 -3.454806101 1.113507919 1.160050366 2.24E-10 0.144367026 0.133914882 10.01752481 2.663793303 0.019062325 21.0712406 0.000350909 3.454806101 -1.160050366 IRELESQISELQEDLESER ddPTM_HeLa_SAHA_4h_R1 2 IRELESQISELQEDLESER 19 1 P35579 P35579 MYH9 Myosin-9 0 0 ; ; 195.48 3.23E-14 33218000 399.29 385.95 290.84 420.61 368.39 148.68 305.9 351.07 303.2 165.17 FALSE FALSE TRUE 441.2891542 398.4550332 330.4741606 428.7515148 340.1640378 136.0116275 271.4793269 342.0901377 301.0900065 172.291287 2.561296986 2.312682435 1.918113018 2.488526972 1.974354268 0.789428356 1.575699686 1.985533591 1.747563743 1 7.428705934 IRIDSLSAQLSQLQK ddPTM_HeLa_SAHA_4h_R1 1 IRIDSLSAQLSQLQK 15 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 188.39 6.06E-17 2387500 1982 1744.6 2666.4 2429.3 2237.2 1482.1 2646.2 1036.3 1119.7 2008.8 FALSE FALSE TRUE 2190.475854 1801.126185 3029.763106 2476.322614 2065.786219 1355.816742 2348.442612 1009.792947 1111.907917 2095.409199 1.045369017 0.859558212 1.445905224 1.18178474 0.985862914 0.647041515 1.120756086 0.48190728 0.53063999 1 11.03301629 -3.876787785 0.97242698 1.04344121 1.50E-13 0.188997844 0.259850016 3.340455769 1.460880528 0.030061731 4.358889633 0.000132804 3.876787785 -1.04344121 IRIEDPPR ddPTM_HeLa_SAHA_4h_R1 1 IRIEDPPR 8 1 P61160;F5H6T1;P61160-2 P61160 ACTR2 Actin-related protein 2 0 0 101.25 0.015462 2228000 1583.4 1651.6 1796.4 1873.2 2110.4 2127.1 1842.9 1566.1 1505.6 1982.7 FALSE FALSE TRUE 1749.949277 1705.112924 2041.204037 1909.458495 1948.701608 1945.859113 1635.532042 1526.04143 1495.122407 2068.1839 0.846128469 0.824449375 0.986954804 0.923253727 0.9422284 0.940854009 0.790805905 0.737865443 0.722915601 1 11.01414876 -13.52287875 0.017508545 2.059804521 3.26E-13 0 0.10384164 3733.319024 5.27563887 396.8735992 241.8588161 3.00E-14 13.52287875 -2.059804521 IRITLTSR ddPTM_HeLa_SAHA_4h_R1 1 IRITLTSR 8 1 P60866;P60866-2;E5RIP1;E5RJX2 P60866 RPS20 40S ribosomal protein S20 0 0 97.635 0.0063144 1432800 287.33 421.84 2384.4 913.66 731.55 275.87 826.6 205.64 326.56 369.82 FALSE FALSE TRUE 317.5526877 435.5078928 2709.333615 931.3452105 675.498797 252.364324 733.5887925 200.3800266 324.2874424 385.7647501 0.823177047 1.128946833 7.02327938 2.414282825 1.75106408 0.654192287 1.90164807 0.519435813 0.840635238 1 8.59157751 -4.245680833 21.80715037 1.523486491 0.519431772 0.006307338 1.826968242 1917.146279 2652731.004 0.263403718 7.179271744 5.68E-05 4.245680833 -1.004054719 IRLDETDDPDDYGDR ddPTM_HeLa_SAHA_4h_R1 2 IRLDETDDPDDYGDR 15 1 P07384 P07384 CAPN1 Calpain-1 catalytic subunit 0 0 ; ; 216.54 1.39E-17 11107700 2505.6 2950.6 1985.82 2820.8 3124.6 3745.3 2982 2574.4 4219.3 3227.5 FALSE FALSE TRUE 2769.150504 3046.201376 2256.437208 2875.400663 2885.193823 3426.17937 2646.457512 2508.550576 4189.937548 3366.65332 0.822523212 0.904815877 0.670231531 0.854082791 0.856991662 1.017681075 0.786079605 0.745116986 1.244540839 1 11.71709945 -9.208507458 0.764302826 1.009644091 0.833894173 0.420114852 0.118300779 0.718847516 0.692487995 0.078307892 0.017836972 6.19E-10 9.208507458 -0.175749918 IRSS(ph)VGPVR ddPTM_HeLa_SAHA_4h_R1 3 IRSSVGPVR 9 1 Q9NTI2 Q9NTI2 ATP8A2 Phospholipid-transporting ATPase IB 1 0 IRS(0.041)S(0.959)VGPVR;IRS(0.044)S(0.956)VGPVR;IRS(0.045)S(0.955)VGPVR ;; 82.494 0.014849 179914100 5409.4 4903.12 5915.4 5806 6529.2 6824.7 6721.7 6089.6 5375.8 5903.6 TRUE FALSE FALSE 5978.385511 5061.984305 6721.519906 5918.383526 6028.934107 6243.197165 5965.356625 5933.83685 5338.38937 6158.133088 0.970811352 0.821999823 1.091486626 0.961067817 0.979019781 1.01381329 0.968695632 0.963577234 0.866884378 1 12.58827733 IRT(ph)PSGEFLER ddPTM_HeLa_SAHA_4h_R1 1 IRTPSGEFLER 11 1 B3KT28;B1ANM7;Q9UNN5-2;Q9UNN5 B3KT28 FAF1 FAS-associated factor 1 1 0 IRT(0.851)PS(0.149)GEFLER 87.363 0.019037 8983500 878.05 971.54 825.32 983.63 1128.8 1261.8 974.92 778.6 1150.3 973.1 TRUE FALSE FALSE 970.4073276 1003.018533 937.7903115 1002.669581 1042.311588 1154.287541 865.2194358 758.6845394 1142.294969 1015.055103 0.956014432 0.988141954 0.923881185 0.987798177 1.026852222 1.137167369 0.852386666 0.747431875 1.125352668 1 9.987342332 -4.532591939 24.38939367 0.988207088 0.773670519 0.603639414 0.069637218 52.83738769 132672.9509 0.007637536 0.028656072 2.93E-05 4.532591939 -0.214536569 IRTPS(ph)GEFLER ddPTM_HeLa_SAHA_4h_R1 1 IRTPSGEFLER 11 1 B3KT28;B1ANM7;Q9UNN5-2;Q9UNN5 B3KT28 FAF1 FAS-associated factor 1 1 0 IRT(0.224)PS(0.776)GEFLER 85.287 0.011493 6169200 1190.9 976.71 1141.4 1351.2 1488 1173.2 1293 1693 1078.4 1240.1 TRUE FALSE FALSE 1316.164326 1008.356045 1296.944048 1377.35443 1373.989761 1073.23676 1147.508237 1649.695511 1070.895327 1293.56678 1.017469176 0.779516033 1.002610818 1.064772574 1.062171496 0.829672481 0.887088517 1.275307574 0.827862421 1 10.33713882 -6.535990262 24.96400597 0.986550504 1.01016774 0.024526896 0.138886384 1581.746502 3011595.795 0.020179154 0.028549507 2.91E-07 6.535990262 0.023617235 IRTRKS(ph)S(ph)R ddPTM_HeLa_SAHA_4h_R1 1 IRTRKSSR 8 3 Q14676;Q14676-3;Q14676-2;H0Y6Z8 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 2 0 IRT(0.002)RKS(0.999)S(1)R 63.076 0.0080985 0 865.82 1323.7 696.82 761.78 1919.7 2370.5 3395.5 1658.4 1663.3 1134.4 TRUE FALSE FALSE 956.8909201 1366.588749 791.7790007 776.5253535 1772.613001 2168.520064 3013.429404 1615.980529 1651.72496 1183.309536 0.808656477 1.154886957 0.669122471 0.656231806 1.498012944 1.832589021 2.546611274 1.365644813 1.395851981 1 10.20861179 -5.500763863 2.937771409 0.893053951 1.973889426 0.611561174 0.344470629 0.097310909 1.68658365 0.041396258 0.096543203 3.16E-06 5.500763863 1.080835475 IRVDVADQAQDKDRDDR ddPTM_HeLa_SAHA_4h_R1 2 IRVDVADQAQDKDRDDR 17 3 E7EX17;P23588-2;P23588;F8VP89;F8W0K0;F8VSC7 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 0 0 ; ; 36.583 0.022646 48714000 2888.2 2327.4 2798.7 2959.4 2821.3 2870.2 3219.1 2386 2716.3 2934.9 FALSE FALSE TRUE 3191.994128 2402.809287 3180.092261 3016.683466 2605.132604 2625.642813 2856.878396 2324.969575 2697.397047 3061.437902 1.042645394 0.784862984 1.038757722 0.985381237 0.85095066 0.857650195 0.933181886 0.759437117 0.881088277 1 11.5799937 -4.357587469 0.313300237 1.024278649 0.651608403 0.126311804 0.090512576 4.961008625 0.368384377 0.033855356 0.699228654 4.39E-05 4.357587469 -0.372670247 IRYESLTDPSK(ac)LDSGK ddPTM_HeLa_SAHA_4h_R1 2 IRYESLTDPSKLDSGK 16 2 P07900;P07900-2;G3V2J8;P08238;Q58FF7;Q58FF8 P07900;P08238;Q58FF8 HSP90AA1;HSP90AB1;HSP90AB3P;HSP90AB2P Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3;Putative heat shock protein HSP 90-beta 2 0 1 ; IRYESLTDPSK(1)LDSGK;IRYESLTDPSK(1)LDSGK 126.63 3.99E-05 2878700 968.01 3108.4 1467.87 1628.73 2302.4 2244.4 3339.1 2031.87 1961.01 777.64 FALSE TRUE FALSE 1069.829733 3209.114199 1667.903679 1660.256424 2125.990609 2053.164493 2963.37568 1979.897708 1947.363172 811.1678661 1.31887588 3.956165343 2.05617573 2.046748267 2.620900924 2.531121583 3.653221243 2.440798989 2.400690724 1 9.663856692 -7.417046085 8.316904488 1.140014224 2.72331023 0.323840485 0.708870491 0.14450093 10.31369564 0.097738763 0.111496949 3.83E-08 7.417046085 1.583296006 IS(ph)APNVDFNLEGPK ddPTM_HeLa_SAHA_4h_R1 4 ISAPNVDFNLEGPK 14 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 IS(1)APNVDFNLEGPK;IS(1)APNVDFNLEGPK;IS(1)APNVDFNLEGPK;IS(1)APNVDFNLEGPK ;;; 154.47 4.05E-05 235236300 14595.31 13648.01 10768.57 16974.78 20594.25 15945.34 18846.95 18186.7 17309.38 13128.69 TRUE FALSE FALSE 16130.51167 14090.21448 12236.05464 17303.35141 19016.32301 14586.70733 16726.24158 17721.51055 17188.92262 13694.73208 1.177862523 1.028878433 0.893486238 1.263504194 1.388586714 1.065132727 1.221363185 1.2940385 1.255148514 1 13.74133342 -6.21341823 24.9922234 1.068124883 1.242942211 0.354343594 0.118333417 335.6357515 174678.8403 0.017131381 0.028409138 6.12E-07 6.21341823 0.174817328 IS(ph)ASSATR ddPTM_HeLa_SAHA_4h_R1 2 ISASSATR 8 0 A0A1B0GTU4;F5GZ78;P49023;P49023-2;P49023-3;A0A1B0GU60;A0A1B0GV30;P49023-4 A0A1B0GTU4 PXN Paxillin 1 0 IS(0.996)AS(0.004)SATR;IS(0.602)AS(0.107)S(0.291)ATR ; 114.97 0.0047696 197294000 4559 3985.2 4431.8 4878.8 6384.2 5115.7 5230.7 6072.4 4039.9 3320.7 TRUE FALSE FALSE 5038.536537 4114.323095 5035.742624 4973.236229 5895.043975 4679.81358 4642.12787 5917.076801 4011.786007 3463.871628 1.454596786 1.187781632 1.453790199 1.435744959 1.701865602 1.351035512 1.340155863 1.708226354 1.158179759 1 11.75816975 -11.72072558 0.22509282 1.63E-11 1.532941543 0.522263596 0.147987547 10.77268204 0.280165324 5.092259827 0.117910839 1.90E-12 11.72072558 1.532941543 IS(ph)DAELEAELEK ddPTM_HeLa_SAHA_4h_R1 5 ISDAELEAELEK 12 0 Q8WUX9 Q8WUX9 CHMP7 Charged multivesicular body protein 7 1 0 IS(1)DAELEAELEK;IS(1)DAELEAELEK;IS(1)DAELEAELEK;IS(1)DAELEAELEK;IS(1)DAELEAELEK ;;;; 237.48 1.15E-23 59793800 5773.87 7704.98 5159.77 6532.15 7630.41 8334.66 8057.17 6399.08 8652.88 5882.61 TRUE FALSE FALSE 6381.192138 7954.626407 5862.916585 6658.589209 7045.769634 7624.500078 7150.556026 6235.400799 8592.663904 6136.238106 1.039919251 1.296336008 0.955457804 1.085125625 1.148222985 1.242536542 1.165299635 1.016160177 1.400314615 1 12.58313875 -7.495418403 22.19800451 1.017611146 1.130725514 0 0.153011603 87.54584739 70771.21063 0.015903006 0.017250282 3.20E-08 7.495418403 0.113114368 IS(ph)DAHLADTMIGK ddPTM_HeLa_SAHA_4h_R1 4 ISDAHLADTMIGK 13 0 Q9Y657 Q9Y657 SPIN1 Spindlin-1 1 0 IS(1)DAHLADTMIGK;IS(1)DAHLADTMIGK;IS(1)DAHLADTMIGK;IS(1)DAHLADTMIGK ;;; 134.25 0.0004634 54557000 24471.8 23087.8 20556.7 24792.1 29686.1 29120.4 28725.7 24643.1 26266.4 24890.7 TRUE FALSE FALSE 27045.8562 23835.85987 23358.06002 25271.98695 27411.55743 26639.17809 25493.40863 24012.76518 26083.60998 25963.85989 1.041673169 0.91803992 0.899637424 0.973352462 1.055758179 1.026009931 0.981880535 0.924853442 1.004612184 1 14.66421726 -7.29003243 24.89404164 1.019678996 0.972124379 0.172328957 0.046375644 936.1049054 815000.8867 0.008786757 0.010049226 5.13E-08 7.29003243 -0.047554617 IS(ph)EDETERNGDDGTHDK ddPTM_HeLa_SAHA_4h_R1 1 ISEDETERNGDDGTHDK 17 1 S4R3H4;E7EQT4;Q9UKV3;G3V3B0;Q9UKV3-3;Q9UKV3-2;Q9UKV3-5;G3V3T3 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 IS(0.999)EDET(0.001)ERNGDDGTHDK 69.07 0.011819 16017000 1415.6 1428.6 1435.5 1306.3 1423.3 1285.5 1193 1286.8 1838.6 1142.7 TRUE FALSE FALSE 1564.499303 1474.887577 1631.122464 1331.585325 1314.247061 1175.968168 1058.7605 1253.885519 1825.805033 1191.967389 1.312535324 1.237355645 1.368428767 1.117132346 1.102586424 0.986577467 0.888246197 1.051946161 1.531757537 1 10.21912905 -5.431453875 2.194969607 1.174977945 0.963140218 0.343467011 0.153145019 0.309616255 2.904362646 0.021071804 0.055596844 3.70E-06 5.431453875 -0.211837727 IS(ph)FVEEDVHPK ddPTM_HeLa_SAHA_4h_R1 2 ISFVEEDVHPK 11 0 Q8WYP5;Q8WYP5-3;Q8WYP5-2 Q8WYP5 AHCTF1 Protein ELYS 1 0 IS(1)FVEEDVHPK;IS(1)FVEEDVHPK ; 113.35 0.0026192 11399700 8491.1 8445.4 5751.5 6376.8 7425 8183 7329.5 7282 11384.7 9196.2 TRUE FALSE FALSE 9384.232857 8719.036501 6535.284467 6500.232185 6856.098104 7485.762364 6504.76537 7095.736984 11305.47295 9592.693187 0.978268842 0.908924775 0.681277337 0.677623276 0.714720879 0.780360866 0.678095843 0.739702276 1.178550458 1 13.2277202 -6.897785594 3.524035377 0.988470511 0.711949593 0.830035467 0.067840044 0.037230064 0.908408741 0.005376124 0.007174451 1.27E-07 6.897785594 -0.276520917 IS(ph)MSEVDLNVAAPK ddPTM_HeLa_SAHA_4h_R1 6 ISMSEVDLNVAAPK 14 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 IS(0.949)MS(0.051)EVDLNVAAPK;IS(0.678)MS(0.322)EVDLNVAAPK;IS(0.999)MS(0.001)EVDLNVAAPK;IS(0.841)MS(0.159)EVDLNVAAPK;IS(0.999)MS(0.001)EVDLNVAAPK;IS(0.992)MS(0.008)EVDLNVAAPK ;;;;; 186.77 2.15E-08 67782200 9694.22 10741.5 9121.46 11664.89 15374.4 12821.63 14211.28 13760.39 13063.56 10184.91 TRUE FALSE FALSE 10713.90254 11089.53165 10364.48507 11890.68081 14196.41679 11729.15499 12612.18937 13408.41915 12972.64962 10624.03131 1.008459239 1.043815791 0.975569891 1.11922494 1.336255172 1.104021124 1.18713782 1.262083926 1.221066584 1 13.37504368 -6.035973212 4.949189534 1.00668461 1.213766259 0.416867112 0.088760534 0.068349637 4.156096623 0.008013018 0.01384218 9.21E-07 6.035973212 0.207081648 IS(ph)PDLNIK ddPTM_HeLa_SAHA_4h_R1 1 ISPDLNIK 8 0 E9PEI0;Q69YH5 E9PEI0 CDCA2 Cell division cycle-associated protein 2 1 0 IS(1)PDLNIK 115.7 0.0045238 4233600 1883.6 2174.9 1779.9 2377.2 2243.6 2455.9 2452.7 2405.3 3065.8 2140.3 TRUE FALSE FALSE 2081.72569 2245.368187 2022.455503 2423.214143 2071.695853 2246.643503 2176.715741 2343.775909 3044.464848 2232.578807 0.932431 1.005728523 0.905883141 1.085387954 0.92793851 1.006299753 0.974978233 1.049806574 1.363653923 1 11.12449539 -6.28693756 24.99798448 0.966461858 1.002358343 0 0.134426511 1259.024023 1234322.953 0.007222972 0.01103642 5.16E-07 6.28693756 0.035896485 IS(ph)PLGDR ddPTM_HeLa_SAHA_4h_R1 1 ISPLGDR 7 0 A0A087X275;A0A087WZE8;A0A087WY72;A0A087WVC8;Q8NDB6 A0A087X275 FAM156A;FAM156B Protein FAM156A/FAM156B 1 0 IS(1)PLGDR 96.668 0.015815 2713700 1638.2 2035 1734.1 2062.2 2215.6 2917.9 2174.3 2122.4 2706.6 2369.2 TRUE FALSE FALSE 1810.513392 2100.935335 1970.414117 2102.116863 2045.841207 2669.278504 1929.642042 2068.112081 2687.76455 2471.347807 0.732601614 0.850117223 0.797303444 0.850595314 0.827824073 1.080090183 0.780805533 0.836835704 1.08757033 1 11.27108235 -9.592619052 1.403460612 0.99946634 0.83255948 0.400463342 0.092293479 0.411462745 1.461275488 0.063842863 0.015018322 2.55E-10 9.592619052 -0.16690686 IS(ph)PSSLSNNYNNMNNR ddPTM_HeLa_SAHA_4h_R1 2 ISPSSLSNNYNNMNNR 16 0 Q9Y4E8 Q9Y4E8 USP15 Ubiquitin carboxyl-terminal hydrolase 15 1 0 IS(0.783)PS(0.143)S(0.051)LS(0.023)NNYNNMNNR;IS(0.986)PS(0.014)S(0.001)LSNNYNNMNNR ; 97.223 0.0052176 8172800 1244.67 1243.25 1209.04 1257.68 1354.28 1284.49 1545.8 1273.68 1107.19 1183.76 TRUE FALSE FALSE 1375.590101 1283.532116 1373.801675 1282.024215 1250.515359 1175.044226 1371.862516 1241.10111 1099.484975 1234.797687 1.114020634 1.039467541 1.112572278 1.038246369 1.012728945 0.951608703 1.111001851 1.005104823 0.890417099 1 10.27005897 -6.004353682 23.92384223 1.058669065 1.022182415 0 0.071651509 221.7764199 1218709.325 0.008363039 0.014893081 9.90E-07 6.004353682 -0.03648665 IS(ph)PTAGNQNGLLNK ddPTM_HeLa_SAHA_4h_R1 1 ISPTAGNQNGLLNK 14 0 A0A087WVB5;Q75MD7;A0A2R8Y8C6;Q8WXX7-2;Q8WXX7;A0A2R8Y568;A0A024RDL5;A0A2R8Y522;Q8WXX7-5 A0A087WVB5 AUTS2 Autism susceptibility gene 2 protein 1 0 IS(0.77)PT(0.23)AGNQNGLLNK 90.689 0.0085372 2361300 677.26 906.78 844.12 704.87 764.44 844.25 810.46 888.18 947.22 886.71 TRUE FALSE FALSE 748.4973142 936.160267 959.1522776 718.5137781 705.8687723 772.3151504 719.2649078 865.4616417 940.6282189 924.9404076 0.80923842 1.012130359 1.036988188 0.776821698 0.763150541 0.834989091 0.777633783 0.935694489 1.016960889 1 9.853216608 -6.23332382 24.88191532 0.925585865 0.813369007 0.422210035 0.082395137 758.4977703 671261.2189 0.014274251 0.023667774 5.84E-07 6.23332382 -0.112216858 IS(ph)QKGLDY(ph)AS(ph)QQGTAALQK ddPTM_HeLa_SAHA_4h_R1 1 ISQKGLDYASQQGTAALQK 19 1 A0A2R8YDF1;P17213 A0A2R8YDF1 BPI Bactericidal permeability-increasing protein 3 0 IS(1)QKGLDY(0.99)AS(0.909)QQGT(0.1)AALQK 60.735 0.0085037 0 124.85 0 0 0 0 114.24 0 184.83 0 58.252 TRUE FALSE FALSE 137.9822958 0 0 0 0 104.5061093 0 180.1023162 0 60.7635288 2.270807811 0 0 0 0 1.719882162 0 2.963987112 0 1 5.925133751 -7.259193271 24.98693139 1.600103683 0.606595779 0 1.095755158 256.7785274 2856546.648 0.166039531 0.198144814 5.51E-08 7.259193271 -0.993507904 IS(ph)SPTETER ddPTM_HeLa_SAHA_4h_R1 1 ISSPTETER 9 0 P31949 P31949 S100A11 "Protein S100-A11;Protein S100-A11, N-terminally processed" 1 0 IS(0.591)S(0.404)PT(0.005)ETER 128.03 0.0023634 4373200 558.6 739.07 661.64 656.39 821.52 1091.9 885.24 852.02 836.13 616.23 TRUE FALSE FALSE 617.3561109 763.0163529 751.8048535 669.0953776 758.5753151 998.8639771 785.6304654 830.2265621 830.3113033 642.7986911 0.960419054 1.187022257 1.169580561 1.040909677 1.180113348 1.5539297 1.222202964 1.291580978 1.29171281 1 9.328223181 -6.151043039 0.672620521 0.981011375 1.349219161 0.157085822 0.149654913 0.395071597 0.340452222 0.024399327 0.06937598 7.06E-07 6.151043039 0.368207786 IS(ph)SVPNSLSK ddPTM_HeLa_SAHA_4h_R1 2 ISSVPNSLSK 10 0 Q5VZ89-3;Q5VZ89;Q5VZ89-7;X6RAE7;X6R5W5 Q5VZ89-3 DENND4C DENN domain-containing protein 4C 1 0 IS(0.496)S(0.496)VPNS(0.007)LSK;IS(0.43)S(0.43)VPNS(0.078)LS(0.062)K ; 99.343 0.010937 11972700 4486 4211.5 4268.9 4540.5 5924.2 5765 6057.5 5408.1 4320.1 4177.7 TRUE FALSE FALSE 4957.858063 4347.955363 4850.643461 4628.387943 5470.289076 5273.789567 5375.894158 5269.768633 4290.036072 4357.821092 1.13769197 0.997736087 1.11308917 1.062087645 1.255280784 1.210189555 1.233619748 1.209266861 0.984445204 1 12.08939125 -5.767148299 24.95426607 1.064750394 1.22634859 0.754536845 0.049233633 60.35476732 263818.0077 0.008201198 0.015170197 1.71E-06 5.767148299 0.161598196 IS(ph)VQPS(ph)S(ph)S(ph)LS(ph)AR ddPTM_HeLa_SAHA_4h_R1 1 ISVQPSSSLSAR 12 0 C9J159;F5H6W4;Q9H992 C9J159 7-Mar E3 ubiquitin-protein ligase MARCH7 5 0 IS(1)VQPS(1)S(1)S(1)LS(1)AR 79.614 0.0074532 8919800 0 0 0 0 71.706 129.41 0 159.82 0 103.57 TRUE FALSE FALSE 0 0 0 0 66.21190177 118.38354 0 155.7320358 0 108.0354096 0 0 0 0 0.612872224 1.095784618 0 1.441490678 0 1 6.755360436 -9.521299854 1.31341032 0.99544249 0.328280412 0 0.581486893 0.570267032 1.780132969 0.332306244 0.082115301 3.01E-10 9.521299854 -0.667162078 ISAPELLLHS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 2 ISAPELLLHSPAR 13 0 Q5VUA4 Q5VUA4 ZNF318 Zinc finger protein 318 1 0 ISAPELLLHS(1)PAR;IS(0.001)APELLLHS(0.999)PAR ; 131.67 0.00053315 6784500 5443.5 5386.9 5108.2 6094.4 6068.2 5526.9 5239.2 4903.3 6985.2 6325.2 TRUE FALSE FALSE 6016.072306 5561.439094 5804.318894 6212.365925 5603.255827 5055.977027 4649.671427 4777.880686 6936.589424 6597.910327 0.911814803 0.842909167 0.879720791 0.94156568 0.849247042 0.766299749 0.704718797 0.724150595 1.051331267 1 12.68779345 -2.048451233 0.183066767 1.012103372 1.70E-20 0.831619121 0.044418337 11.04048896 0.169884885 0.055739307 2.908450215 0.00894435 2.048451233 -1.012103372 ISAS(ph)SATR ddPTM_HeLa_SAHA_4h_R1 1 ISASSATR 8 0 A0A1B0GTU4;F5GZ78;P49023;P49023-2;P49023-3;A0A1B0GU60;A0A1B0GV30;P49023-4 A0A1B0GTU4 PXN Paxillin 1 0 IS(0.006)AS(0.772)S(0.221)ATR 112.11 0.0057317 49076000 1868.9 1973.8 1885.1 1886.2 2484 2571 2300.6 2327.9 1491.2 1631.9 TRUE FALSE FALSE 2065.479477 2037.752415 2141.991611 1922.710128 2293.676457 2351.936336 2041.730433 2268.355689 1480.822618 1702.259195 1.213375426 1.197087036 1.258322832 1.129504915 1.347430793 1.381655827 1.199423941 1.332555991 0.869916063 1 10.73323501 -13.52286944 0.134538256 0.046626491 1.372782301 0.743924282 0.07663108 29.30938743 0.277262296 7.388823538 0.211666824 3.00E-14 13.52286944 1.326155811 ISASS(ph)ATR ddPTM_HeLa_SAHA_4h_R1 1 ISASSATR 8 0 A0A1B0GTU4;F5GZ78;P49023;P49023-2;P49023-3;A0A1B0GU60;A0A1B0GV30;P49023-4 A0A1B0GTU4 PXN Paxillin 1 0 IS(0.181)AS(0.181)S(0.637)ATR 114.89 0.0047944 150090000 2868.4 3103.8 3255 3810 4791.6 4198.2 4489.2 3756.3 3621.3 2965.7 TRUE FALSE FALSE 3170.111473 3204.365156 3698.574449 3883.748059 4424.468643 3840.489742 3984.063401 3660.219285 3596.099078 3093.565841 1.024743495 1.035816052 1.195569979 1.255427639 1.430216414 1.24144432 1.28785473 1.183171613 1.162444656 1 11.59505502 -6.639269508 2.169172842 1.0113411 1.286313765 0.644708917 0.075756779 0.087109302 0.835238273 0.009481501 0.01413284 2.29E-07 6.639269508 0.274972665 ISDEDWDIIHR ddPTM_HeLa_SAHA_4h_R1 4 ISDEDWDIIHR 11 0 E7ER27;A0A2R8YD50;P51659-3;P51659;A0A2R8YDT8;A0A2R8YF45;P51659-2 E7ER27 HSD17B4 Peroxisomal multifunctional enzyme type 2;(3R)-hydroxyacyl-CoA dehydrogenase;Enoyl-CoA hydratase 2 0 0 ;;; ;;; 196.11 1.99E-07 32608500 18064.2 17003 16561.1 17800.9 19602.8 20808.5 21246.6 13565.3 16093.9 19166.8 FALSE FALSE TRUE 19964.27544 17553.90836 18817.96046 18145.46216 18100.8377 19035.49873 18855.87665 13218.31927 15981.90124 19993.17455 0.998554551 0.877995053 0.941219235 0.907582841 0.905350856 0.952099862 0.943115692 0.661141593 0.799367864 1 14.28721994 -3.791394741 1.552574135 0.972375995 4.35E-11 0.455114599 0.071459978 1.610745141 1.322674537 0.008009056 3.428912489 0.000161661 3.791394741 -0.972375995 ISDS(ph)ESEDPPR ddPTM_HeLa_SAHA_4h_R1 1 ISDSESEDPPR 11 0 Q96ST2-3;Q96ST2;B8ZZB6 Q96ST2-3 IWS1 Protein IWS1 homolog 1 0 IS(0.289)DS(0.688)ES(0.024)EDPPR 172.61 7.67E-05 12530000 1546.1 1770.2 1583.7 1623.5 1583.9 2071.1 1928.9 1549.9 3317.1 2024.3 TRUE FALSE FALSE 1708.725892 1827.555641 1799.518388 1654.92519 1462.541924 1894.630628 1711.855095 1510.255802 3294.016031 2111.57748 0.80921771 0.865493054 0.852215183 0.783738795 0.692630007 0.897258399 0.810699637 0.715226326 1.559978766 1 11.04410547 -12.40758552 0.213777477 1.59909243 0.768968168 0.387092407 0.184586674 14.41836026 0.274864887 3.688685934 0.052733573 3.91E-13 12.40758552 -0.830124262 ISDSES(ph)EDPPR ddPTM_HeLa_SAHA_4h_R1 1 ISDSESEDPPR 11 0 Q96ST2-3;Q96ST2;B8ZZB6 Q96ST2-3 IWS1 Protein IWS1 homolog 1 0 IS(0.454)DS(0.062)ES(0.484)EDPPR 94.82 0.0053926 0 457.9 663.84 520.59 508.14 556.04 673.39 598.92 567.98 890.24 581.95 TRUE FALSE FALSE 506.0640229 685.3488516 591.5332941 517.9757845 513.4363353 616.0133836 531.5279453 553.451894 884.0447474 607.0407125 0.833657467 1.128999814 0.974454072 0.853280141 0.845802143 1.014781004 0.875605103 0.911721212 1.45631871 1 9.245649467 -6.27726827 24.10575501 0.941936268 0.902208718 0 0.182970391 1592.126366 2424641.352 0.014994849 0.022957981 5.28E-07 6.27726827 -0.039727549 ISDYFEFAGGSAPGTS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 2 ISDYFEFAGGSAPGTSPGR 19 0 Q86UE8-2;Q86UE8 Q86UE8-2 TLK2 Serine/threonine-protein kinase tousled-like 2 1 0 ISDYFEFAGGSAPGT(0.037)S(0.963)PGR;ISDYFEFAGGSAPGT(0.237)S(0.763)PGR ; 168.68 9.80E-07 18834400 2568.6 3154.7 2550.4 2662.6 2789 2716.7 3257.9 2729.8 3176.8 2819.9 TRUE FALSE FALSE 2838.777133 3256.91435 2897.95523 2714.138473 2575.307423 2485.221876 2891.312518 2659.975669 3154.69239 2941.479689 0.96508473 1.107236729 0.985203209 0.922711954 0.875514263 0.844888335 0.98294492 0.904298499 1.072484846 1 11.52232636 -6.220736127 4.083458973 0.994641949 0.903719675 0.508537905 0.055038032 0.167515551 6.160563907 0.0077788 0.012940589 6.02E-07 6.220736127 -0.090922274 ISDYFEYQGGNGS(ph)SPVR ddPTM_HeLa_SAHA_4h_R1 2 ISDYFEYQGGNGSSPVR 17 0 B3KRP1;Q9UKI8-5;Q9UKI8;Q9UKI8-2;C9JWT6;Q9UKI8-4 B3KRP1 TLK1 Serine/threonine-protein kinase tousled-like 1 1 0 ISDYFEYQGGNGS(0.5)S(0.5)PVR;ISDYFEYQGGNGS(0.5)S(0.5)PVR ; 130.38 0.00012094 7054500 2160.87 1963.29 1877.29 2200.92 2301.06 1775.76 1942.66 2058.24 2188.12 2034.21 TRUE FALSE FALSE 2388.160221 2026.901884 2133.117305 2243.521989 2124.75328 1624.455258 1724.066784 2005.593201 2172.892695 2121.914748 1.125474161 0.955223053 1.005279456 1.057310145 1.001337722 0.765561038 0.812505208 0.945180857 1.024024503 1 11.05115098 -5.405177094 4.941941172 1.046742478 0.839500008 0.650535074 0.060652763 0.105586646 3.8458804 0.009972426 0.022734511 3.93E-06 5.405177094 -0.207242471 ISDYFEYQGGNGSS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 3 ISDYFEYQGGNGSSPVR 17 0 B3KRP1;Q9UKI8-5;Q9UKI8;Q9UKI8-2;C9JWT6;Q9UKI8-4 B3KRP1 TLK1 Serine/threonine-protein kinase tousled-like 1 1 0 ISDYFEYQGGNGS(0.004)S(0.996)PVR;ISDYFEYQGGNGS(0.104)S(0.896)PVR;ISDYFEYQGGNGS(0.138)S(0.862)PVR ;; 282.97 1.41E-72 100409300 5610.7 5891.4 5139.8 4624.21 5987.2 4214.12 6237.9 5599.6 6276.9 5371.1 TRUE FALSE FALSE 6200.859169 6082.285225 5840.225177 4713.718271 5528.462029 3855.053268 5535.995075 5456.37034 6233.218542 5602.674407 1.106767718 1.085603907 1.042399532 0.841333608 0.986754116 0.688073764 0.98809866 0.973886745 1.112543419 1 12.45189994 -6.310640092 8.058749238 1.054512997 0.89437081 0.484525301 0.08898626 0.228479953 34.76151982 0.01352345 0.020729192 4.89E-07 6.310640092 -0.160142187 ISEEDELDTK ddPTM_HeLa_SAHA_4h_R1 2 ISEEDELDTK 10 0 B1AKZ5;Q15121;Q15121-2 B1AKZ5 PEA15 Astrocytic phosphoprotein PEA-15 0 0 ; ; 150.61 0.0036561 11395300 2195.09 1990.75 1767.52 2635.6 2361.3 2524.3 2514.87 2267.7 2179.06 1918.61 FALSE FALSE TRUE 2425.979638 2055.251606 2008.388421 2686.615849 2180.377704 2309.215439 2231.890209 2209.695518 2163.895744 2001.330667 1.212183313 1.026942544 1.003526531 1.342414771 1.089463995 1.153840031 1.115203123 1.104113156 1.081228495 1 10.96674384 -9.553767843 1.296203543 0.999294567 1.139587583 0.103433926 0.093708153 0.522383547 1.559672265 0.064914671 0.015015441 2.79E-10 9.553767843 0.140293016 ISEGLPT(ph)PTK ddPTM_HeLa_SAHA_4h_R1 2 ISEGLPTPTK 10 0 A0A3B3IS71;P06400 A0A3B3IS71 RB1 Retinoblastoma-associated protein 1 0 ISEGLPT(0.966)PT(0.034)K;ISEGLPT(0.79)PT(0.21)K ; 107.09 0.011467 11492800 6174.6 6807.9 5417.8 6802 7346.9 8121.3 7527.6 7159.2 8468 6495.5 TRUE FALSE FALSE 6824.072758 7028.480427 6156.109569 6933.662546 6783.982109 7429.319551 6680.574636 6976.07803 8409.070499 6775.552793 1.007161034 1.037329446 0.908576725 1.023335329 1.001244078 1.096489066 0.985982228 1.029595406 1.241089953 1 12.72612294 -5.463501893 24.99991186 1.000142022 1.034992965 0 0.086384713 376.8699767 158675.6173 0.005387327 0.012046422 3.44E-06 5.463501893 0.034850943 ISEQSDAK(ac)LK ddPTM_HeLa_SAHA_4h_R1 2 ISEQSDAKLK 10 1 P25705-2;P25705;P25705-3 P25705-2 ATP5A1 "ATP synthase subunit alpha, mitochondrial" 0 1 ; ISEQSDAK(1)LK;ISEQSDAK(1)LK 164.64 5.31E-08 4482800 2207.1 3117.3 2280.5 1818.62 2923 2206.1 3087 2200.15 2269.2 2392.8 FALSE TRUE FALSE 2439.252905 3218.302565 2591.274664 1853.82202 2699.040371 2018.127869 2739.642635 2143.873349 2253.408452 2495.965318 0.977278365 1.289401957 1.038185365 0.742727476 1.081361328 0.808556054 1.097628487 0.858935552 0.902820418 1 11.28538217 ISESVLRDS(ph)PPPHEDYEDEVFVRDPHPK ddPTM_HeLa_SAHA_4h_R1 2 ISESVLRDSPPPHEDYEDEVFVRDPHPK 28 2 A0A2R8Y5P9;Q8TF72 A0A2R8Y5P9 SHROOM3 Protein Shroom3 1 0 IS(0.043)ES(0.043)VLRDS(0.914)PPPHEDYEDEVFVRDPHPK;IS(0.029)ES(0.025)VLRDS(0.946)PPPHEDYEDEVFVRDPHPK ; 61.437 0.0010737 17337400 3261.1 2732.5 2572.1 3200.3 3647.5 3128.8 3110.9 2307.1 3586.7 3148.7 TRUE FALSE FALSE 3604.11746 2821.034793 2922.612393 3262.246434 3368.029338 2862.208638 2760.853345 2248.087723 3561.739863 3284.455866 1.097325587 0.858904765 0.889831531 0.993238018 1.02544515 0.871440736 0.840581654 0.684462759 1.084423115 1 11.68143866 -3.221033771 0.443581433 1.032275542 4.88E-17 0.639012134 0.073099689 5.318860084 0.356996368 0.018445864 3.547995187 0.000601127 3.221033771 -1.032275542 ISFPGSSES(ph)PLSSK ddPTM_HeLa_SAHA_4h_R1 1 ISFPGSSESPLSSK 14 0 Q15911;Q15911-2 Q15911 ZFHX3 Zinc finger homeobox protein 3 1 0 ISFPGSS(0.007)ES(0.721)PLS(0.264)S(0.009)K 173.25 1.59E-06 7550300 965.1 880.77 826.23 572.65 864.98 1249.6 807.55 850.98 965.62 978.66 TRUE FALSE FALSE 1066.613646 909.3075259 938.8243216 583.7344688 798.7054193 1143.12705 716.6823486 829.2131638 958.9001718 1020.854822 1.044824027 0.890731479 0.919645283 0.571809484 0.782388839 1.119774355 0.7020414 0.812273348 0.939311008 1 9.995561997 -6.933147675 2.116533588 1.020689128 0.810324557 0.251598838 0.135409665 0.264043344 2.385962602 0.022663552 0.030367467 1.17E-07 6.933147675 -0.21036457 ISGLIYEETR ddPTM_HeLa_SAHA_4h_R1 2 ISGLIYEETR 10 0 P62805 P62805 HIST1H4A Histone H4 0 0 ; ; 150.81 0.0035934 49034000 1186.3 2416.25 1542.56 1324.85 2174.81 2964.1 2325.03 2393.56 2002.97 1716.89 FALSE FALSE TRUE 1311.080477 2494.538085 1752.772043 1350.494388 2008.176528 2711.542004 2063.411505 2332.336201 1989.031169 1790.91353 0.732073579 1.392885834 0.978702776 0.754081291 1.121314063 1.514055234 1.152155853 1.302316478 1.110623788 1 10.80647997 -5.529098231 7.627483425 0.915732089 1.308245898 0.3055102 0.200846286 0.090360479 36.85496875 0.029599881 0.061154561 2.96E-06 5.529098231 0.392513809 ISHSLYSGIEGLDES(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 ISHSLYSGIEGLDESPSR 18 0 Q5VWV2;Q8TEW0-4;Q8TEW0-11;Q8TEW0-2;Q8TEW0;Q8TEW0-8;Q8TEW0-3;Q8TEW0-7;Q8TEW0-6;Q5VWU8;Q8TEW0-9;Q8TEW0-10;Q8TEW0-5;F5GZI3;B1AP52 Q5VWV2 PARD3 Partitioning defective 3 homolog 1 0 ISHSLYSGIEGLDES(0.709)PS(0.291)R 167.35 1.71E-06 3516000 786.02 778.11 430.82 821.45 980.53 300.8 1042.9 863.86 939.22 951.09 TRUE FALSE FALSE 868.69719 803.3212745 489.529906 837.3503526 905.4020032 275.1701477 925.5501472 841.7637121 932.6838915 992.0961444 0.875617948 0.809721194 0.493429905 0.844021376 0.912615182 0.27736238 0.932923843 0.848469896 0.94011442 1 9.954336129 -7.528731057 1.326881021 0.960891985 0.721450929 0.204138313 0.192742621 0.422412553 1.490473728 0.039522274 0.041786882 2.96E-08 7.528731057 -0.239441056 DGVCGPPPSK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 DGVCGPPPSKK 11 1 Q08J23-3;Q08J23-2;Q08J23;A0A140T9Z1 Q08J23-3 NSUN2 tRNA (cytosine(34)-C(5))-methyltransferase 0 1 ; DGVCGPPPSK(1)K;DGVCGPPPSK(1)K 176.95 9.24E-12 11186900 3246.3 3929.1 3121.7 5457.2 5998.3 7072.2 6649 6646.4 4028.1 2354.52 FALSE TRUE FALSE 3587.760729 4056.405418 3547.109019 5562.831997 5538.71155 6469.608773 5900.837021 6476.394712 4000.068124 2456.03488 1.460793883 1.651607414 1.444242119 2.264964575 2.255143685 2.634168116 2.402586815 2.636931081 1.628669103 1 11.26211533 -6.238636954 0.424269459 1.065478405 2.834074915 0.810164781 0.235663583 0.257784208 0.087328506 0.060811469 0.186565296 5.77E-07 6.238636954 1.76859651 up ISINQT(ph)PGK ddPTM_HeLa_SAHA_4h_R1 3 ISINQTPGK 9 0 E9PMS6;Q8WWI1-3;E9PMP7;H0YDG6;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 ISINQT(1)PGK;ISINQT(1)PGK;ISINQT(1)PGK ;; 147.62 0.00094412 279572000 13451.8 12671.5 11184 12734.1 14049.3 13001.2 13256.2 10991.1 12608.5 11288.4 TRUE FALSE FALSE 14866.72204 13082.06491 12708.09728 12980.58692 12972.84567 11893.42462 11764.57749 10709.96358 12520.75642 11775.09817 1.262556102 1.110994127 1.079234932 1.102376111 1.101718685 1.010048872 0.999106531 0.909543464 1.063325014 1 13.52345147 -4.709745108 0.881919471 1.122893059 0.875617042 0.479364275 0.064471107 1.146023836 0.993185916 0.015690927 0.234108108 1.95E-05 4.709745108 -0.247276017 ISIPDVGLHLK ddPTM_HeLa_SAHA_4h_R1 2 ISIPDVGLHLK 11 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ; ; 91.855 0.0081782 3159700 4331.3 4174.3 3767.1 3797.1 4738 4256.3 4880.1 2986.2 3478.1 3747.1 FALSE FALSE TRUE 4786.886007 4309.550059 4280.46077 3870.598361 4374.975464 3893.639295 4330.978304 2909.817328 3453.895619 3908.655819 1.224688545 1.102565756 1.095123482 0.990263288 1.119304351 0.996158136 1.108048011 0.744454734 0.883653046 1 11.93245684 -3.821705776 1.821508108 1.095342584 1.24E-13 0.432758966 0.097598803 2.368862948 2.64808951 0.013254951 6.649642547 0.000150763 3.821705776 -1.095342584 ISLEQPPNGS(ph)DTPNPEK ddPTM_HeLa_SAHA_4h_R1 4 ISLEQPPNGSDTPNPEK 17 0 Q9UHI6;E9PJ60 Q9UHI6 DDX20 Probable ATP-dependent RNA helicase DDX20 1 0 ISLEQPPNGS(0.97)DT(0.03)PNPEK;ISLEQPPNGS(0.982)DT(0.018)PNPEK;ISLEQPPNGS(0.929)DT(0.071)PNPEK;ISLEQPPNGS(0.709)DT(0.291)PNPEK ;;; 199.61 2.27E-15 18589300 3658.59 4490.43 2990.37 3430.37 4122.24 4584.19 3773.06 3696.83 4977.68 4149.8 TRUE FALSE FALSE 4043.417282 4635.922878 3397.88205 3496.769772 3806.394862 4193.591222 3348.505359 3602.270442 4943.03992 4328.718187 0.934091135 1.070968975 0.784962639 0.807807212 0.879335336 0.968783608 0.773555869 0.832179478 1.141917701 1 12.07972416 -6.751625752 24.99398118 0.975663687 0.844061567 0.538981569 0.081094512 126.5362918 322269.7203 0.01006238 0.014129414 1.77E-07 6.751625752 -0.13160212 ISLEQPPNGSDT(ph)PNPEK ddPTM_HeLa_SAHA_4h_R1 1 ISLEQPPNGSDTPNPEK 17 0 Q9UHI6;E9PJ60 Q9UHI6 DDX20 Probable ATP-dependent RNA helicase DDX20 1 0 ISLEQPPNGS(0.086)DT(0.914)PNPEK 124.84 0.0006805 6417200 867.58 1134.7 905.47 1024.6 1271.3 1348.5 1070.3 918.8 1366.8 967.06 TRUE FALSE FALSE 958.836045 1171.465025 1028.862736 1044.432615 1173.893269 1233.600214 949.8670271 895.2984264 1357.288328 1008.754689 0.950514585 1.161298219 1.019933535 1.035368287 1.16370539 1.222894155 0.941623407 0.887528391 1.345508816 1 9.978359665 -7.299803521 24.97121136 0.976631883 1.0646377 0 0.151939639 785.5322797 511300.9789 0.017191534 0.019659571 5.01E-08 7.299803521 0.088005817 ISLGLPVGAVINCADNTGAK ddPTM_HeLa_SAHA_4h_R1 2 ISLGLPVGAVINCADNTGAK 20 0 C9JD32;B9ZVP7;J3KT29;P62829 C9JD32 RPL23 60S ribosomal protein L23 0 0 ; ; 82.755 0.002983 999580 204.89 229.78 0 272.56 148.09 135.21 81.924 168.24 0 175.1 FALSE FALSE TRUE 226.4412703 237.2250228 0 277.8357929 136.7433762 123.6893473 72.70569591 163.9366644 0 182.6494179 1.239759058 1.298799774 0 1.521142504 0.74866582 0.677195409 0.398061471 0.897548244 0 1 7.512933346 -6.098761843 0.680496815 1.112524968 0.634144284 0 0.533011062 1.027935923 0.898892404 0.080522575 0.238828215 7.97E-07 6.098761843 -0.478380685 ISLIKECISQS(ph)PT(ph)CY(ph)KQS(ph)TK ddPTM_HeLa_SAHA_4h_R1 1 ISLIKECISQSPTCYKQSTK 20 2 H0Y5G7;A2RRP1-2;A2RRP1 H0Y5G7 NBAS Neuroblastoma-amplified sequence 4 0 IS(0.021)LIKECIS(0.026)QS(0.962)PT(0.986)CY(0.69)KQS(0.669)T(0.646)K 48.389 0.017669 5229100 158.73 124.11 225.83 229.08 53.003 178.17 148.67 182.48 257.13 233.25 TRUE FALSE FALSE 175.4259497 128.1312454 256.6049363 233.5141747 48.94192159 162.9889136 131.9412603 177.8124258 255.3406114 243.306549 0.721007924 0.526624729 1.054656923 0.959752936 0.201153326 0.66989119 0.542284048 0.730816439 1.049460495 1 7.926631343 -5.797698381 24.99999974 0.857969369 0.546042623 0.416704283 0.20071829 141.7406199 97727.50422 0.029939149 0.054270521 1.59E-06 5.797698381 -0.311926746 ISLPLPNFS(ph)SLNLR ddPTM_HeLa_SAHA_4h_R1 2 ISLPLPNFSSLNLR 14 0 P08670;B0YJC4 P08670 VIM Vimentin 1 0 IS(0.008)LPLPNFS(0.797)S(0.195)LNLR;ISLPLPNFS(0.917)S(0.083)LNLR ; 192.46 1.04E-08 120881800 2236.81 2133.9 2142.38 2003.81 3140 2151.9 2503 1790.18 2101.65 2222.79 TRUE FALSE FALSE 2472.087939 2203.03976 2434.332389 2042.59664 2899.413878 1968.546014 2221.355852 1744.389788 2087.024447 2318.625355 1.066186882 0.950149085 1.04990329 0.880951567 1.2504883 0.84901427 0.958048633 0.752337925 0.900112837 1 11.17905401 -4.059050698 1.083404827 1.026036534 0.535161547 0.289336273 0.110041528 1.786780472 1.250983352 0.013826999 1.11056457 8.73E-05 4.059050698 -0.490874987 ISLPLPNFSSLNLR ddPTM_HeLa_SAHA_4h_R1 1 ISLPLPNFSSLNLR 14 0 P08670;B0YJC4 P08670 VIM Vimentin 0 0 131.79 0.0009778 24609000 2402.4 2158.2 3113.2 3180.6 3367.8 1025.5 3306.8 567.14 684.88 1689.4 FALSE FALSE TRUE 2655.095455 2228.127096 3537.450683 3242.165112 3109.759892 938.1216307 2934.710161 552.63338 680.1138643 1762.238302 1.506660848 1.264373322 2.007362273 1.839799481 1.764664795 0.532346635 1.66533105 0.313597417 0.385937511 1 10.78319331 -5.261802443 24.9990056 1.381923648 0.919915659 0.174822466 0.546628019 45.74290389 3149813.906 0.067486941 0.160199866 5.47E-06 5.261802443 -0.462007989 ISLS(ph)KSPTKTDPK ddPTM_HeLa_SAHA_4h_R1 1 ISLSKSPTKTDPK 13 2 A0A0A0MRN4;Q5BKZ1-3;Q5BKZ1 A0A0A0MRN4 ZNF326 DBIRD complex subunit ZNF326 1 0 IS(0.049)LS(0.92)KS(0.031)PTKTDPK 78.249 0.014902 65051000 2364.5 2610.1 2159.3 2452.2 2363.5 2482.2 2752.4 2609 2654.6 2537 TRUE FALSE FALSE 2613.208959 2694.668953 2453.558159 2499.665877 2182.409141 2270.702596 2442.692708 2542.265558 2636.126422 2646.382486 0.987464576 1.018246216 0.927136637 0.94455956 0.824676385 0.858040214 0.923030862 0.960656886 0.996124497 1 11.36980588 -6.453359412 1.995268622 0.995598743 0.894315632 0.588252025 0.038438307 0.171709853 1.352258139 0.006312729 0.0102075 3.52E-07 6.453359412 -0.101283111 ISMPDIDLNLT(ph)GPK ddPTM_HeLa_SAHA_4h_R1 2 ISMPDIDLNLTGPK 14 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 IS(0.221)MPDIDLNLT(0.779)GPK;ISMPDIDLNLT(1)GPK ; 239.51 1.11E-32 229700000 2611.87 3012.7 2290.59 2587.7 3031.1 3097.5 2434.87 1995.27 2647.2 2343.94 TRUE FALSE FALSE 2886.59847 3110.313457 2602.739676 2637.788675 2798.857773 2833.575574 2160.892019 1944.233883 2628.77792 2444.998724 1.180613487 1.272112507 1.06451576 1.078850737 1.144727703 1.15892722 0.883800878 0.795188097 1.075165354 1 11.255618 -4.649238692 4.521085315 1.106426567 0.815917689 0.706413724 0.07301557 0.105930441 3.593236537 0.012758284 0.052263127 2.24E-05 4.649238692 -0.290508877 ISMPDLDLNLKGPK ddPTM_HeLa_SAHA_4h_R1 1 ISMPDLDLNLKGPK 14 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 107.99 0.0036145 640140 351.89 148.02 276.96 278.32 366.21 198.2 364.74 142.22 313.07 346.26 FALSE FALSE TRUE 388.9034047 152.8159451 314.7026665 283.7072861 338.1510689 181.312245 323.6984953 138.5822183 310.8913204 361.1889632 1.076731142 0.423091403 0.871296464 0.785481604 0.936216506 0.501987224 0.89620262 0.383683425 0.860744242 1 8.496609999 -7.29447662 24.98584307 1.036234176 0.70711774 0.305361865 0.195561711 421.0037954 318401.2809 0.029209053 0.033402962 5.08E-08 7.29447662 -0.329116436 ISMPDVDLHLKGPK ddPTM_HeLa_SAHA_4h_R1 1 ISMPDVDLHLKGPK 14 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 63.473 0.016874 4006800 1168.8 1058.5 1167.5 839.45 974.32 985.5 1243.8 1138.9 784.04 1109.5 FALSE FALSE TRUE 1291.739747 1092.796095 1326.60082 855.6987686 899.6678121 901.5298557 1103.84435 1109.768587 778.5838018 1157.335975 1.116132026 0.944234102 1.146253853 0.739369368 0.777360967 0.778969872 0.953780384 0.95889924 0.672737925 1 10.17659202 -6.262693734 24.99986728 1.052410783 0.840847261 0.067774397 0.147076426 63.08306711 1257278.052 0.013878428 0.021942529 5.46E-07 6.262693734 -0.211563521 ISMPDVGLNLK ddPTM_HeLa_SAHA_4h_R1 1 ISMPDVGLNLK 11 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 117.02 0.007286 378720 128.13 156.24 178.03 224.88 0 358.23 179.57 0 181.82 151.97 FALSE FALSE TRUE 141.6073013 161.3022785 202.2910013 229.2328776 0 327.7067887 159.364311 0 180.5546998 158.5221704 0.893296508 1.017537661 1.276105422 1.446061942 0 2.067261556 1.005312447 0 1.138987054 1 7.308540815 -4.263096204 8.914582593 1.022221913 4.38E-11 0.299399619 0.491129295 0.071488432 113.3195419 0.060669674 0.459060338 5.46E-05 4.263096204 -1.022221912 ISMQDVDLS(ph)LGSPK ddPTM_HeLa_SAHA_4h_R1 2 ISMQDVDLSLGSPK 14 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 ISMQDVDLS(0.998)LGS(0.002)PK;ISMQDVDLS(0.946)LGS(0.054)PK ; 191.01 2.35E-08 55341500 4880.8 5005.4 5316.1 5428.3 5254.4 5450.8 5717.5 5652 4941 5360.5 TRUE FALSE FALSE 5394.184938 5167.578244 6040.550423 5533.372596 4851.809007 4986.361175 5074.151852 5507.430024 4906.615179 5591.617389 0.964691352 0.924165207 1.080286794 0.989583552 0.867693311 0.891756504 0.907456913 0.984944005 0.877494799 1 12.44904993 -5.782208709 24.89840857 0.98647924 0.911054689 0.183632647 0.057404592 176.1287625 211143.987 0.006777349 0.012294856 1.65E-06 5.782208709 -0.075424551 ISMQDVDLSLGS(ph)PK ddPTM_HeLa_SAHA_4h_R1 10 ISMQDVDLSLGSPK 14 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 ISMQDVDLS(0.005)LGS(0.995)PK;ISMQDVDLS(0.319)LGS(0.681)PK;ISMQDVDLS(0.072)LGS(0.928)PK;ISMQDVDLS(0.004)LGS(0.996)PK;ISMQDVDLS(0.02)LGS(0.98)PK;ISMQDVDLSLGS(1)PK;ISMQDVDLSLGS(1)PK;ISMQDVDLSLGS(1)PK;ISMQDVDLSLGS(1)PK;ISMQDVDLS(0.001)LGS(0.999)PK ;;;;;;;;; 210.08 6.25E-13 246976400 24655.73 25499.33 25481.08 27311.46 30339.13 30778.54 29623.6 27682.06 29374.48 27502.79 TRUE FALSE FALSE 27249.13281 26325.52502 28953.50888 27840.1128 28014.55241 28156.03524 26290.27456 26973.99299 29170.0606 28688.56987 0.949825416 0.917631138 1.009235002 0.970425257 0.976505714 0.981437393 0.91640241 0.940234843 1.016783365 1 14.80818843 -6.931728943 0.005926112 1.928977411 1.80E-05 0.285193548 0.028873814 4346.222666 17.90092316 2895.465556 2930.321243 1.17E-07 6.931728943 -1.928959369 ISNLIVLHLR ddPTM_HeLa_SAHA_4h_R1 1 ISNLIVLHLR 10 0 Q14566 Q14566 MCM6 DNA replication licensing factor MCM6 0 0 76.927 0.020042 1368200 251.87 234.25 1034.9 520.64 376.82 0 515.64 0 0 142.4 FALSE FALSE TRUE 278.3628422 241.8398537 1175.930782 530.7177401 347.948133 0 457.6188301 0 0 148.5395609 1.873998015 1.628117467 7.916616795 3.572905002 2.342461031 0 3.080787552 0 0 1 7.214703408 ISNLS(ph)PEEEQGLWK ddPTM_HeLa_SAHA_4h_R1 5 ISNLSPEEEQGLWK 14 0 F5GX09;Q5HYJ3-3;Q5HYJ3-2;Q5HYJ3 F5GX09 FAM76B Protein FAM76B 1 0 ISNLS(1)PEEEQGLWK;ISNLS(1)PEEEQGLWK;ISNLS(1)PEEEQGLWK;IS(0.01)NLS(0.99)PEEEQGLWK;IS(0.226)NLS(0.774)PEEEQGLWK ;;;; 257.46 1.35E-43 175842000 10007.4 9467.5 10328.1 10699.6 11229.2 12773.8 12944.5 11982.3 10149.3 10050.1 TRUE FALSE FALSE 11060.02425 9774.253212 11735.55968 10906.70623 10368.82112 11685.40038 11487.95079 11675.81012 10078.67019 10483.40899 1.055002648 0.932354468 1.119441175 1.040377823 0.989069598 1.114656538 1.095822055 1.113741734 0.961392444 1 13.35582031 -1 0.283005194 1.015705083 1.858829371 0.359319509 0.052228281 42.84982631 0.546651328 0.020248814 18.1730028 0.1 1 0.843124288 ISNYGWDQSDKFVK ddPTM_HeLa_SAHA_4h_R1 1 ISNYGWDQSDKFVK 14 1 Q9HB71;Q9HB71-3 Q9HB71 CACYBP Calcyclin-binding protein 0 0 86.756 0.015969 1335300 140.15 183.72 143.39 173.9 156.28 342.46 298.62 57.902 106.61 192.25 FALSE FALSE TRUE 154.89162 189.6726485 162.9304425 177.266086 144.3058602 313.2804814 265.0184917 56.42095068 105.8680923 200.5388383 0.772377168 0.945815036 0.81246328 0.883948902 0.719590586 1.562193558 1.321531998 0.281346751 0.527918149 1 7.64773786 ISPS(ph)SLSNNYNNMNNR ddPTM_HeLa_SAHA_4h_R1 1 ISPSSLSNNYNNMNNR 16 0 Q9Y4E8 Q9Y4E8 USP15 Ubiquitin carboxyl-terminal hydrolase 15 1 0 IS(0.054)PS(0.923)S(0.023)LSNNYNNMNNR 144.88 9.72E-05 4985700 586.21 585.84 607.46 785.82 889.66 1068.9 944.83 678.74 932.47 756.38 TRUE FALSE FALSE 647.8702574 604.8216004 690.2414853 801.0306824 821.494443 977.8237065 838.5152417 661.3788136 925.9808653 788.9912434 0.82113745 0.766575809 0.874840489 1.015259281 1.041195894 1.239334042 1.062768755 0.83825875 1.173626289 1 9.623865478 -6.115714212 3.678533965 0.897244255 1.05796156 0.122416503 0.138573225 0.249702828 6.109963931 0.018651955 0.032144286 7.66E-07 6.115714212 0.160717305 ISREPEPAAGPQAEESATVSAPAPMS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 6 ISREPEPAAGPQAEESATVSAPAPMSPTR 29 1 Q9BWG6-2;Q9BWG6 Q9BWG6-2 SCNM1 Sodium channel modifier 1 1 0 ISREPEPAAGPQAEESATVS(0.001)APAPMS(0.733)PT(0.266)R;ISREPEPAAGPQAEESATVS(0.001)APAPMS(0.739)PT(0.261)R;ISREPEPAAGPQAEESATVSAPAPMS(0.993)PT(0.007)R;ISREPEPAAGPQAEESATVSAPAPMS(0.954)PT(0.046)R;ISREPEPAAGPQAEESATVSAPAPMS(0.992)PT(0.007)R;ISREPEPAAGPQAEESATVS(0.001)APAPMS(0.937)PT(0.063)R ;;;;; 207.81 1.83E-29 202567000 7056.53 6995.41 6433.73 6989.26 7862.72 7962.18 8120.7 7456.3 7089.45 7282.47 TRUE FALSE FALSE 7798.768202 7222.065874 7310.485219 7124.547234 7260.280092 7283.75747 7206.937463 7265.578643 7040.11394 7596.452921 1.026632862 0.950715544 0.962355101 0.937878153 0.955746079 0.95883665 0.948724035 0.956443582 0.926763321 1 12.89111021 -7.254437187 24.99467339 1.012576629 0.952909131 0 0.028483036 135.2453453 482765.3494 0.001882924 0.00227975 5.57E-08 7.254437187 -0.059667499 ISRPGDSDDSR ddPTM_HeLa_SAHA_4h_R1 1 ISRPGDSDDSR 11 1 P14866;M0QXS5;A0A3B3ITJ4;P14866-2;B4DVF8;M0QYL7;M0R1W6 P14866 HNRNPL Heterogeneous nuclear ribonucleoprotein L 0 0 96.756 0.015846 25210000 3232.6 3460.3 2781.3 3140.3 3368.2 3631.5 3832.1 3383.7 3758 3383.4 FALSE FALSE TRUE 3572.6197 3572.41599 3160.32108 3201.085047 3110.129244 3322.07577 3400.902022 3297.149854 3731.847772 3529.274932 1.012281494 1.012223774 0.895459022 0.907009261 0.881237451 0.941291295 0.963626265 0.934228678 1.057397863 1 11.78515611 -6.769615919 24.99999616 1.006443462 0.92098728 0.754849892 0.027455719 65.71530367 200926.1684 0.003904241 0.005179926 1.70E-07 6.769615919 -0.085456182 ISS(ph)PTETER ddPTM_HeLa_SAHA_4h_R1 4 ISSPTETER 9 0 P31949 P31949 S100A11 "Protein S100-A11;Protein S100-A11, N-terminally processed" 1 0 IS(0.039)S(0.959)PT(0.001)ETER;IS(0.029)S(0.968)PT(0.003)ETER;IS(0.033)S(0.965)PT(0.002)ETER;IS(0.037)S(0.96)PT(0.003)ETER ;;; 164.66 6.17E-05 89459000 7401.1 7275.9 7380.5 7669.6 8561.4 8852.2 8610.7 8158.8 8283.8 7710.6 TRUE FALSE FALSE 8179.581655 7511.643934 8386.276104 7818.056198 7905.427382 8097.942759 7641.801374 7950.10971 8226.152361 8043.041701 1.016976159 0.933930746 1.042674701 0.972027311 0.982890264 1.006825907 0.95011336 0.988445666 1.022766345 1 12.97352548 -5.993145035 0.485404516 1.006805669 0.972570805 0.110056664 0.029894567 1.986481203 0.80263118 0.007822181 0.030069873 1.02E-06 5.993145035 -0.034234864 ISS(ph)TPPSGSR ddPTM_HeLa_SAHA_4h_R1 3 ISSTPPSGSR 10 0 Q3Y452 Q3Y452 TDRG1 Testis development-related protein 1 1 0 IS(0.003)S(0.934)T(0.056)PPSGS(0.007)R;IS(0.001)S(0.973)T(0.025)PPS(0.001)GS(0.001)R;ISS(0.499)T(0.499)PPS(0.001)GSR ;; 119.34 0.0031623 160004000 7787.5 7476.8 7384.2 8039.6 8204.5 8813.2 8685.1 8579.3 8323.5 8100.6 TRUE FALSE FALSE 8606.62498 7719.053226 8390.480321 8195.218083 7575.872982 8062.265778 7707.82969 8359.853929 8265.576086 8449.856509 1.018552797 0.913512936 0.992973113 0.969864763 0.89656824 0.954130496 0.912184684 0.989348626 0.978191296 1 13.04471113 -7.275222642 24.8172281 1.008761045 0.946594995 0.339576849 0.032350243 436.931575 786708.4584 0.005030846 0.005768515 5.31E-08 7.275222642 -0.06216605 ISS(ph)TPTTETIR ddPTM_HeLa_SAHA_4h_R1 1 ISSTPTTETIR 11 0 A0A075B754;Q96QE3-2;Q96QE3 A0A075B754 ATAD5 ATPase family AAA domain-containing protein 5 1 0 IS(0.048)S(0.891)T(0.054)PT(0.006)T(0.001)ETIR 134.38 0.0011455 3639700 1197.3 1166.8 1136.5 1389.4 1513.8 1408.3 1423.4 1253.6 1247.2 1098.8 TRUE FALSE FALSE 1323.237507 1204.605086 1291.376301 1416.293846 1397.812971 1288.304917 1263.235286 1221.534727 1238.520634 1146.174645 1.154481573 1.050978654 1.12668371 1.235670194 1.219546233 1.124004027 1.102131591 1.065749214 1.080568863 1 10.16261117 -9.410959425 0.629641833 0.974593351 1.140655566 0.235907424 0.060786771 0.929650932 0.49709089 0.090304908 0.013132479 3.88E-10 9.410959425 0.166062214 ISSIQSIVPALEIANAHR ddPTM_HeLa_SAHA_4h_R1 2 ISSIQSIVPALEIANAHR 18 0 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ; ; 189.45 6.38E-19 7692190 591.37 907.7 706.01 728.01 910.49 450.19 1008.63 439.71 699.82 951.14 FALSE FALSE TRUE 653.5730099 937.1100756 802.2213661 742.1016863 840.7284529 411.8312793 895.1362978 428.4628549 694.9498956 992.1483002 0.65874528 0.944526212 0.808570015 0.747974558 0.847381841 0.415090445 0.902220261 0.43185364 0.700449616 1 9.954411972 -13.52287875 0.194081702 2.250638163 0.656178308 0.029800467 0.186993741 48.31546223 0.577745358 23.10245551 0.176032898 3.00E-14 13.52287875 -1.594459855 ISSIQSIVPALEIANAHRK ddPTM_HeLa_SAHA_4h_R1 2 ISSIQSIVPALEIANAHRK 19 1 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ; ; 89.466 0.0019808 1785400 1051.57 1772.62 1375.98 1137.65 1664.17 1189 1624.99 788.86 1303.91 1468.58 FALSE FALSE TRUE 1162.178957 1830.054051 1563.491389 1159.670861 1536.661654 1087.690511 1442.141848 768.6821035 1294.835984 1531.897671 0.758653126 1.194632047 1.020623909 0.757015878 1.003109857 0.710028177 0.941408735 0.501784237 0.845249659 1 10.58110421 -3.95005522 2.026936056 0.906105319 9.50E-19 0.416198117 0.14388771 2.09238576 4.072200344 0.021236119 4.763067314 0.000112188 3.95005522 -0.906105319 ISSLLEEQFQQGK ddPTM_HeLa_SAHA_4h_R1 2 ISSLLEEQFQQGK 13 0 P62241;Q5JR95 P62241 RPS8 40S ribosomal protein S8 0 0 ; ; 271.21 8.73E-84 1816080 841.32 758.239 897.03 906.487 982.99 970.59 990.77 913.16 980.42 1083.48 FALSE FALSE TRUE 929.8138977 782.8064411 1019.272577 924.0333667 907.6735186 887.8902716 879.285952 889.8026894 973.5971774 1130.194125 0.822702823 0.692630074 0.901856198 0.817588188 0.803112933 0.785608642 0.777995508 0.787300756 0.861442433 1 10.14235488 -8.943123501 0.609119245 1.01491624 0.794717235 0.318155661 0.064546839 0.387783879 0.247899001 0.044813247 0.011637989 1.14E-09 8.943123501 -0.220199005 ISSLPVSRPISPS(ph)PSAILER ddPTM_HeLa_SAHA_4h_R1 1 ISSLPVSRPISPSPSAILER 20 1 Q5T5P2;Q5T5P2-9;Q5T5P2-2;Q5T5P2-7;Q5T5P2-10;Q5T5P2-3;Q5T5P2-4;Q5T5P2-8;Q5T5P2-6;Q5T5P0;Q5T5P1 Q5T5P2 KIAA1217 Sickle tail protein homolog 1 0 IS(0.001)S(0.003)LPVS(0.057)RPIS(0.368)PS(0.553)PS(0.018)AILER 59.182 0.01153 68689000 416.69 661.86 505.58 384.69 457.46 613.65 597.15 602.56 401.06 528.33 TRUE FALSE FALSE 460.519366 683.3046983 574.4778095 392.1362312 422.4095136 561.3635677 529.9571104 587.1473877 398.2689908 551.1088919 0.835623182 1.239872389 1.042403449 0.711540382 0.766471962 1.01860735 0.961619597 1.065392695 0.722668418 1 9.106193594 -9.896916101 2.074810804 1.000582027 0.929969982 0 0.171639103 1.304576759 10.18041038 0.120517592 0.023481807 1.27E-10 9.896916101 -0.070612045 ISSPTETER ddPTM_HeLa_SAHA_4h_R1 6 ISSPTETER 9 0 P31949 P31949 S100A11 "Protein S100-A11;Protein S100-A11, N-terminally processed" 0 0 ;;;;; ;;;;; 162.25 0.0004501 194013600 8128.19 8121.12 7040.47 8930.36 8527.35 9191.26 9241.66 9760.28 8672.41 7725.95 FALSE FALSE TRUE 8983.150318 8384.249616 7999.908586 9103.220031 7873.986285 8408.112939 8201.764094 9510.62617 8612.057993 8059.053514 1.114665674 1.040351649 0.992661058 1.12956441 0.977036109 1.043312707 1.017708107 1.180117014 1.068619035 1 12.9763947 -4.253239001 24.18713452 1.04748017 1.180117119 0.423386125 0.047827811 574.0305509 1693049.454 0.00738458 0.108757608 5.58E-05 4.253239001 0.13263695 ISST(ph)PTTETIR ddPTM_HeLa_SAHA_4h_R1 1 ISSTPTTETIR 11 0 A0A075B754;Q96QE3-2;Q96QE3 A0A075B754 ATAD5 ATPase family AAA domain-containing protein 5 1 0 IS(0.008)S(0.044)T(0.876)PT(0.016)T(0.056)ETIR 126.66 0.0028497 3657200 1528.8 1162.1 789.71 1350.4 1510.5 1395 1289.4 1411.8 1318.3 1352.1 TRUE FALSE FALSE 1689.606198 1199.752802 897.3275662 1376.538945 1394.765816 1276.138152 1144.313318 1375.6882 1309.125843 1410.395648 1.197966117 0.850649819 0.636224004 0.97599489 0.988918123 0.904808629 0.811342066 0.975391694 0.928197591 1 10.46188421 -7.247929396 24.75435685 1.093484 0.874895198 0.254702537 0.119491797 496.3098858 909389.8082 0.020288247 0.024772305 5.65E-08 7.247929396 -0.218588803 ISTVVSSK ddPTM_HeLa_SAHA_4h_R1 1 ISTVVSSK 8 0 H0YLA2;P37108 H0YLA2 SRP14 Signal recognition particle 14 kDa protein 0 0 111.74 0.0075121 0 1118.7 1265.2 790.07 1354.5 1036.7 1058 1292.6 1106.8 1013.4 1098.6 FALSE FALSE TRUE 1236.369999 1306.19331 897.7366251 1380.718306 957.26827 967.8524479 1147.153246 1078.489659 1006.347667 1145.966022 1.07888888 1.139818533 0.783388519 1.204850998 0.835337393 0.844573424 1.001036002 0.941118356 0.878165362 1 10.16234855 -5.727508284 24.99999867 1.03598726 0.907986098 0.144963184 0.122556348 202.4211238 149140.3753 0.015190946 0.030380576 1.87E-06 5.727508284 -0.128001162 ISVSS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 1 ISVSSPGR 8 0 O75864-2;O75864 O75864-2 PPP1R37 Protein phosphatase 1 regulatory subunit 37 1 0 IS(0.002)VS(0.083)S(0.915)PGR 98.582 0.012026 23880000 4710.8 4602.9 4148.3 4746.9 5299.3 5508.3 5229.7 5183 4333 4363.7 TRUE FALSE FALSE 5206.303558 4752.03698 4713.608721 4838.783114 4893.268779 5038.961851 4641.240392 5050.426365 4302.8463 4551.840462 1.143779884 1.043981444 1.035539088 1.06303882 1.07500885 1.107016358 1.019640392 1.109535013 0.945298135 1 12.15223428 -9.669279777 1.535611856 1.000160631 1.082711567 0.459753678 0.040812451 0.353045054 1.503273399 0.029240971 0.006602679 2.14E-10 9.669279777 0.082550936 ISVYYNEATGGK ddPTM_HeLa_SAHA_4h_R1 4 ISVYYNEATGGK 12 0 P07437;Q5JP53 P07437 TUBB Tubulin beta chain 0 0 ;;; ;;; 224.66 4.50E-43 62900000 7931.3 7761.5 7186.1 7240.6 8266.4 7795 8864 7693.3 7212.1 6904.5 FALSE FALSE TRUE 8765.550524 8012.977693 8165.384284 7380.752283 7633.030218 7130.822147 7866.599391 7496.516526 7161.910409 7202.186785 1.217067925 1.112575657 1.133736812 1.024793233 1.059821197 0.990091254 1.09225151 1.040866719 0.994407757 1 12.8142193 -6.257219904 24.70140028 1.108153084 1.042535316 0.101645958 0.065582061 510.865421 2990673.954 0.012672895 0.020550461 5.53E-07 6.257219904 -0.065617768 ISYIPDEEVS(ph)SPSPPQR ddPTM_HeLa_SAHA_4h_R1 1 ISYIPDEEVSSPSPPQR 17 0 F8W930;Q9Y6M1-5;Q9Y6M1-6;Q9Y6M1-3;Q9Y6M1-4;Q9Y6M1-1;Q9Y6M1 F8W930 IGF2BP2 Insulin-like growth factor 2 mRNA-binding protein 2 1 0 ISYIPDEEVS(0.595)S(0.377)PS(0.028)PPQR 185.74 8.85E-12 9978500 1390.2 1838.3 1463.6 1296.2 1859.2 1985.1 1727.7 1310.1 2050.3 1590.5 TRUE FALSE FALSE 1536.427614 1897.862126 1663.051786 1321.289825 1716.748498 1815.958312 1533.294649 1276.589539 2036.031795 1659.074239 0.926075265 1.143928392 1.00239745 0.796401869 1.034762916 1.094561214 0.924186883 0.76945896 1.227209577 1 10.69616273 ISYIPDEEVSSPS(ph)PPQR ddPTM_HeLa_SAHA_4h_R1 1 ISYIPDEEVSSPSPPQR 17 0 F8W930;Q9Y6M1-5;Q9Y6M1-6;Q9Y6M1-3;Q9Y6M1-4;Q9Y6M1-1;Q9Y6M1 F8W930 IGF2BP2 Insulin-like growth factor 2 mRNA-binding protein 2 1 0 ISYIPDEEVS(0.036)S(0.165)PS(0.8)PPQR 139.12 0.00012077 9698000 1259 1485.8 869.37 1075.8 1223 1497.4 1304.9 1102.8 1352.1 1278.3 TRUE FALSE FALSE 1391.427396 1533.940895 987.8432161 1096.623665 1129.294004 1369.813096 1158.069218 1074.591973 1342.690626 1333.413769 1.043507596 1.150386272 0.74083772 0.822418135 0.846919411 1.027297848 0.86849952 0.805895363 1.006957223 1 10.38090881 -6.76118808 24.99999971 1.030857385 0.859124502 0.59617046 0.079159496 4.112014895 409044.2371 0.012967787 0.017690401 1.73E-07 6.76118808 -0.171732883 ISYT(ph)PPES(ph)PVPSYASSTPLHVPVPR ddPTM_HeLa_SAHA_4h_R1 2 ISYTPPESPVPSYASSTPLHVPVPR 25 0 P41212 P41212 ETV6 Transcription factor ETV6 2 0 IS(0.102)Y(0.223)T(0.916)PPES(0.759)PVPSYASSTPLHVPVPR;IS(0.115)Y(0.122)T(0.769)PPES(0.992)PVPS(0.001)YASSTPLHVPVPR ; 101.16 6.29E-06 36434000 2121.65 2720.69 1381.57 2480.13 3550.7 4342.3 3310.45 3399.06 2638.45 2914.2 TRUE FALSE FALSE 2344.814881 2808.842141 1569.843165 2528.136502 3278.646133 3972.311611 2937.949453 3312.116967 2620.088812 3039.845424 0.771359906 0.924008214 0.516422037 0.831666138 1.078556859 1.306747896 0.966479884 1.089567562 0.861915146 1 11.56978225 -5.713119014 5.802685742 0.857083709 1.11738133 0.485043077 0.144599953 0.162260308 12.32865558 0.023491156 0.046957792 1.94E-06 5.713119014 0.260297621 IT(ph)PDGITK ddPTM_HeLa_SAHA_4h_R1 1 ITPDGITK 8 0 Q14694;Q14694-3;Q14694-2;H3BQC6 Q14694 USP10 Ubiquitin carboxyl-terminal hydrolase 10 1 0 IT(1)PDGITK 105.17 0.014118 17320000 3128.6 4563.1 3228.8 4107.5 5136.5 5458.2 4296.6 3595.9 6388.7 4484.6 TRUE FALSE FALSE 3457.680503 4710.947434 3668.804049 4187.006602 4742.94248 4993.130653 3813.13526 3503.922085 6344.240517 4677.953053 0.739143908 1.007053166 0.784275517 0.895051009 1.013892706 1.06737511 0.815129014 0.749028912 1.356200125 1 12.19166167 -5.993475939 24.68195519 0.877499042 0.920482802 0 0.189625122 604.5733908 2287204.836 0.020015492 0.036216933 1.02E-06 5.993475939 0.04298376 IT(ph)SPLMEPSSIEK ddPTM_HeLa_SAHA_4h_R1 2 ITSPLMEPSSIEK 13 0 P28066 P28066 PSMA5 Proteasome subunit alpha type-5 1 0 IT(0.618)S(0.382)PLMEPSSIEK;IT(0.596)S(0.403)PLMEPSSIEK ; 161.21 9.98E-05 38461000 5581.2 5820.9 5278.2 5227.8 6162.5 6633.8 6985.3 5758.8 5346.2 4598.9 TRUE FALSE FALSE 6168.256223 6009.500979 5997.485608 5328.991629 5690.330581 6068.562919 6199.29566 5611.498235 5308.995359 4797.181085 1.285808502 1.252715057 1.250210384 1.110858968 1.186182152 1.265026859 1.292278851 1.169749095 1.10669063 1 12.22797118 -9.347988946 1.004304017 0.996220115 1.230338658 0.531572972 0.062172089 0.251081187 0.441700296 0.042974813 0.010539483 4.49E-10 9.347988946 0.234118543 IT(ph)T(ph)ELKR ddPTM_HeLa_SAHA_4h_R1 1 ITTELKR 7 1 Q9UBC0 Q9UBC0 ONECUT1 Hepatocyte nuclear factor 6 2 0 IT(1)T(1)ELKR 87.989 0.0097871 5883000 905.83 1050.4 1192.5 1312.6 1383.1 1173.2 1154.8 857.55 764.95 1101 TRUE FALSE FALSE 1001.109355 1084.433649 1355.00769 1338.007271 1277.127177 1073.23676 1024.858865 835.6151127 759.6266507 1148.469498 0.871689981 0.944242447 1.179837768 1.165035095 1.112025334 0.934493046 0.89236925 0.727590166 0.661425185 1 10.16549683 -4.367437489 1.960411615 0.984185102 0.685510633 0.231532351 0.144116875 0.613462573 2.931747105 0.017745628 0.303551865 4.29E-05 4.367437489 -0.298674469 ITAASK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 ITAASKK 7 1 P50914 P50914 RPL14 60S ribosomal protein L14 0 1 ITAASK(1)K 94.302 0.0096649 1949000 1000.2 923.67 1919.9 2804.8 2768.3 1214.6 3621.8 1579.8 271.12 544.16 FALSE TRUE FALSE 1105.405625 953.597514 2181.533974 2859.09096 2556.193452 1111.109247 3214.265532 1539.391004 269.2332538 567.6214007 1.947434723 1.679988656 3.843290565 5.036968227 4.503342279 1.957483008 5.662692647 2.712003109 0.474318363 1 9.148785173 -6.766372679 4.560071789 1.465903015 4.031140923 0.600631745 1.066297039 0.098414231 5.044539762 0.157189941 0.215914692 1.71E-07 6.766372679 2.565237908 ITAFK(ac)MEK ddPTM_HeLa_SAHA_4h_R1 1 ITAFKMEK 8 1 D6RIY6;Q06265-3;Q06265-4;Q06265;Q06265-2 D6RIY6 EXOSC9 Exosome complex component RRP45 0 1 ITAFK(1)MEK 111.65 0.0041607 594390 487.86 517.43 802.18 747.25 787.15 44.353 936.81 190.25 40.948 195.72 FALSE TRUE FALSE 539.1753532 534.1950715 911.4969128 761.7141043 726.8387371 40.57387488 831.3976733 185.3836805 40.66303953 204.158447 2.640965197 2.616570998 4.46465442 3.7309948 3.560169798 0.198737184 4.072315818 0.908038257 0.199173927 1 7.67354545 ITAHSS(ph)PPLTK ddPTM_HeLa_SAHA_4h_R1 2 ITAHSSPPLTK 11 0 A0A1W2PNZ9;Q15652-3;Q15652;Q15652-2 A0A1W2PNZ9 JMJD1C Probable JmjC domain-containing histone demethylation protein 2C 1 0 ITAHS(0.204)S(0.795)PPLTK;ITAHS(0.079)S(0.921)PPLTK ; 165.35 0.00015168 21146900 4885.7 5243.3 4219.5 4706.1 5133 5347.4 5556.9 4810.2 4492 4236.9 TRUE FALSE FALSE 5399.600342 5413.18636 4794.511486 4797.193371 4739.710649 4891.771436 4931.622987 4687.162049 4460.739806 4419.573494 1.221746929 1.224820985 1.084835786 1.085442606 1.07243621 1.106842423 1.115859481 1.060546239 1.009314544 1 12.10969144 ITEFCHR ddPTM_HeLa_SAHA_4h_R1 2 ITEFCHR 7 0 P07237;H7BZ94;I3L398;H0Y3Z3 P07237 P4HB Protein disulfide-isomerase 0 0 ; ; 183.89 1.61E-10 16888900 8382.2 8656.9 8259.9 9976 10664.9 10879.3 11020.3 8229.7 8215.8 8276.6 FALSE FALSE TRUE 9263.878255 8937.38924 9385.516156 10169.09991 9847.757666 9952.322435 9780.26684 8019.19619 8158.625579 8633.444731 1.073022246 1.035205473 1.087111396 1.177872822 1.140652193 1.152763786 1.132834824 0.928852438 0.945002352 1 13.07572059 -8.173183418 0.555532698 1.003626747 1.10710609 0.295606733 0.069874792 0.84350616 0.588748491 0.037520805 0.02027302 6.71E-09 8.173183418 0.103479343 ITEK(ac)LEK ddPTM_HeLa_SAHA_4h_R1 2 ITEKLEK 7 1 P51532;P51532-4;P51532-3;P51532-2;P51532-5;A0A0A0MT49;Q9HBD4;A0A2R8Y4P4;A0A2R8Y7S2;A0A2R8YGG3;A0A2R8Y440;A0A2R8Y4C5;A0A2R8YGP5 P51532 SMARCA4 Transcription activator BRG1 0 1 ; ITEK(1)LEK;ITEK(1)LEK 112.84 0.0050249 11293900 6044.4 4758.9 4458.7 5333.6 5726.5 6611.3 5821.6 6813.1 4688.4 4938.8 FALSE TRUE FALSE 6680.177725 4913.091482 5066.308416 5436.839541 5287.736807 6047.980046 5166.538246 6638.830767 4655.773043 5151.735838 1.296684833 0.953676904 0.98341774 1.055341289 1.026399057 1.173969364 1.002873286 1.288659003 0.903728993 1 12.3308429 -7.237230511 24.9598989 1.140101199 1.065192735 0 0.136527211 1825.954101 1882602.662 0.023050665 0.028224 5.79E-08 7.237230511 -0.074908464 ITES(ph)EEVVSR ddPTM_HeLa_SAHA_4h_R1 2 ITESEEVVSR 10 0 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 IT(0.033)ES(0.967)EEVVSR;IT(0.006)ES(0.994)EEVVSR ; 128.08 0.0019176 9345500 1406.14 1352.59 1551.8 1331.02 1454.66 1988.89 1336.16 1470.53 1446.12 1413.72 TRUE FALSE FALSE 1554.044257 1396.414803 1763.271223 1356.783817 1343.204265 1819.425383 1185.81176 1432.915972 1436.056333 1474.672388 1.053823391 0.946932224 1.195703695 0.920057789 0.910849268 1.23378277 0.804118779 0.971684276 0.973813808 1 10.52617877 ITES(ph)SLVEITEHK ddPTM_HeLa_SAHA_4h_R1 1 ITESSLVEITEHK 13 0 F8VXG7;Q99590-2;Q99590;A0A0A0MTP7 F8VXG7 SCAF11 Protein SCAF11 1 0 IT(0.171)ES(0.8)S(0.028)LVEITEHK 99.796 0.0043894 3364500 880.71 1313.9 811.56 1061.8 1320.5 1588.8 1264.9 914.32 2328.9 1551.1 TRUE FALSE FALSE 973.3471186 1356.471222 922.1551704 1082.352674 1219.323575 1453.425302 1122.570123 890.9330183 2312.692995 1617.975512 0.601583344 0.838375619 0.569943836 0.668954917 0.753610649 0.898298702 0.693811566 0.550646788 1.429374535 1 10.65997406 -9.415538541 1.054357556 1.006203297 0.696113868 0.512979002 0.175485696 0.345053198 0.663717147 0.082079087 0.019132868 3.84E-10 9.415538541 -0.310089429 ITESEEVVSR ddPTM_HeLa_SAHA_4h_R1 5 ITESEEVVSR 10 0 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ;;;; ;;;; 214.05 1.72E-14 68753400 5979.87 6392.6 5695.51 6892 6496.48 7604.1 7078.2 7708.6 6431.41 5781.61 FALSE FALSE TRUE 6608.860163 6599.724434 6471.664442 7025.404626 5998.721106 6956.187901 6281.742307 7511.425174 6386.653294 6030.883502 1.095836151 1.094321327 1.073087291 1.164904715 0.994667051 1.153427669 1.041595697 1.24549333 1.058991322 1 12.55815365 -13.52287875 0.13174802 0.630563068 1.153086095 0.209795876 0.065681224 68.30790498 0.636153485 6.621868765 0.202603735 3.00E-14 13.52287875 0.522523027 ITESS(ph)LVEITEHK ddPTM_HeLa_SAHA_4h_R1 1 ITESSLVEITEHK 13 0 F8VXG7;Q99590-2;Q99590;A0A0A0MTP7 F8VXG7 SCAF11 Protein SCAF11 1 0 IT(0.02)ES(0.018)S(0.963)LVEITEHK 172.43 1.58E-05 2767600 1105.5 1947 1192.4 1525.6 2177.9 1942 1390.4 1194.1 2845.1 1712.7 TRUE FALSE FALSE 1221.781562 2010.084077 1354.894062 1555.130194 2011.029773 1776.530675 1233.948533 1163.556651 2825.300717 1786.542879 0.683880346 1.125125012 0.758388773 0.870469001 1.125654355 0.994395766 0.690690689 0.651289518 1.581434597 1 10.80295483 -9.774802515 1.751082341 1.000260732 0.840081568 0.152187766 0.249627778 0.719422123 3.989820612 0.129628183 0.027470134 1.68E-10 9.774802515 -0.160179165 ITHS(ph)PDSVK ddPTM_HeLa_SAHA_4h_R1 2 ITHSPDSVK 9 0 A0A1W2PNZ9;Q15652-3;Q15652;Q15652-2 A0A1W2PNZ9 JMJD1C Probable JmjC domain-containing histone demethylation protein 2C 1 0 IT(0.192)HS(0.41)PDS(0.398)VK;ITHS(0.963)PDS(0.037)VK ; 161.51 7.91E-05 16461800 6243.4 6895.2 5539.6 5752.5 7719.7 1449.09 7205.3 7248.7 6208.2 6043.7 TRUE FALSE FALSE 6900.109458 7118.609004 6294.507839 5863.847956 7128.218254 1325.61938 6394.540681 7063.28875 6164.996631 6304.273484 1.094513028 1.129171985 0.998450948 0.930138575 1.130696229 0.21027314 1.014318414 1.120396945 0.977907549 1 12.62211441 ITITNDK ddPTM_HeLa_SAHA_4h_R1 1 ITITNDK 7 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37;P11142;E9PKE3;E9PNE6;A8K7Q2;P54652;E9PS65;E9PM13;P17066 A0A0G2JIW1;P11142;P17066 HSPA1B;HSPA1A;HSPA8;HSPA2;HSPA6 Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A;Heat shock cognate 71 kDa protein;Heat shock-related 70 kDa protein 2;Heat shock 70 kDa protein 6 0 0 101.6 0.021969 4057800 2785.8 3883.8 2702.8 3211.5 4275.3 3780.7 4101.7 2812.8 3239.9 3241.1 FALSE FALSE TRUE 3078.823226 4009.637668 3071.123508 3273.663226 3947.727438 3458.56309 3640.165921 2740.852649 3217.353272 3380.839683 0.910668211 1.185988702 0.908390754 0.968298865 1.167676615 1.02298938 1.076704684 0.810701751 0.951643253 1 11.72316589 ITITNDK(ac)GR ddPTM_HeLa_SAHA_4h_R1 1 ITITNDKGR 9 1 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37;P11142;E9PKE3;E9PNE6;A8K7Q2;P54652;E9PS65;E9PM13;P17066 A0A0G2JIW1;P11142;P17066 HSPA1B;HSPA1A;HSPA8;HSPA2;HSPA6 Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A;Heat shock cognate 71 kDa protein;Heat shock-related 70 kDa protein 2;Heat shock 70 kDa protein 6 0 1 ITITNDK(1)GR 150.35 5.19E-05 7168300 2079.8 4346.1 3294.2 2946.9 4568.9 3101.9 5762.2 2990.7 977.47 1296.7 FALSE TRUE FALSE 2298.562906 4486.916492 3743.116421 3003.941511 4218.831869 2837.600669 5113.822091 2914.202224 970.6677067 1352.607083 1.699357438 3.317235691 2.767334629 2.22085301 3.119037245 2.097875063 3.78071515 2.154507589 0.717627254 1 10.4015271 -7.483322678 2.98703155 1.277747037 2.781468221 0.647958295 0.554626385 0.113655502 1.984780204 0.092025372 0.101174226 3.29E-08 7.483322678 1.503721184 ITK(ac)TYMNGK ddPTM_HeLa_SAHA_4h_R1 1 ITKTYMNGK 9 1 O96028-5;O96028-3;O96028;D6RIS1;D6R9V2;O96028-7;O96028-6 O96028-5 WHSC1 Histone-lysine N-methyltransferase NSD2 0 1 ITK(1)TYMNGK 99.442 0.0077865 3572700 914.79 902.55 1174.9 1124.1 1137.1 1060.8 1012.4 919.02 1111.3 927.49 FALSE TRUE FALSE 1011.011809 931.7932122 1335.009253 1145.858581 1049.975644 970.4138721 898.4820875 895.5127991 1103.566373 967.4786329 1.044996525 0.96311503 1.379885 1.184376111 1.085270111 1.003033906 0.928684166 0.925615066 1.140662269 1 9.918085989 -4.931361568 3.143371759 1.060843837 0.926165795 0.219392865 0.117342381 0.359324854 7.111425997 0.017824994 0.06213792 1.17E-05 4.931361568 -0.134678042 ITLDNAYMEK ddPTM_HeLa_SAHA_4h_R1 4 ITLDNAYMEK 10 0 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BQ34;H3BUW1;H3BTJ2;H3BT25 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;;; ;;; 147.3 6.02E-05 26943700 8561.3 8542.6 7861.27 9472.4 9534.5 9534.2 9959.7 7158.39 7651.5 8361.9 FALSE FALSE TRUE 9461.816815 8819.385845 8932.562936 9655.751999 8803.96867 8721.832522 8839.008344 6975.288749 7598.252589 8722.422431 1.084769385 1.011116569 1.024091989 1.107003482 1.009349036 0.999932369 1.013366231 0.799696278 0.871117244 1 13.09051315 -3.609541627 1.339622675 1.039630821 2.93E-17 0.469791006 0.063355748 2.359833613 1.045376784 0.005847388 5.136279114 0.00024573 3.609541627 -1.039630821 ITLPVDFVTADKFDENAK ddPTM_HeLa_SAHA_4h_R1 3 ITLPVDFVTADKFDENAK 18 1 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 0 0 ;; ;; 241.8 3.10E-58 53362030 1552.88 1479.82 1645.97 1343.989 1548.475 2130.93 1632.3 1735.95 1822.36 1596.33 FALSE FALSE TRUE 1716.219043 1527.767139 1870.27422 1370.003851 1429.83118 1949.362776 1448.629308 1691.546913 1809.678048 1665.155599 1.03066587 0.917492119 1.123182855 0.822748248 0.85867722 1.170679051 0.869966332 1.015849158 1.086792159 1 10.70144128 -6.271847458 24.98985386 1.013443238 0.950726808 0.125577176 0.105404278 1362.916142 3272366.341 0.014825464 0.022790041 5.35E-07 6.271847458 -0.06271643 ITNYGIEK ddPTM_HeLa_SAHA_4h_R1 1 ITNYGIEK 8 0 O60938 O60938 KERA Keratocan 0 0 97.602 0.02028 664250000 1005.6 933.51 812.34 1094.1 1082.8 1121.8 1028.6 1245.9 841.24 1084.5 FALSE FALSE TRUE 1111.373622 963.7563365 923.0414647 1115.277888 999.8360979 1026.216329 912.8592209 1214.031682 835.3857423 1131.258102 0.982422685 0.851933201 0.815942412 0.985873944 0.883826684 0.907146059 0.806941598 1.073169491 0.738457246 1 10.14371241 -7.36917445 6.50851046 0.99222488 0.89914724 0 0.109659996 0.234427649 12.34964606 0.011794948 0.013441399 4.27E-08 7.36917445 -0.09307764 ITPGNYGNT(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 ITPGNYGNTPR 11 0 Q5VYS8-5;Q5VYS8-3;Q5VYS8-2;Q5VYS8-4;Q5VYS8-6;Q5VYS8 Q5VYS8-5 ZCCHC6 Terminal uridylyltransferase 7 1 0 ITPGNY(0.001)GNT(0.999)PR 99.834 0.014583 3670900 752.9 592.73 667.17 972.45 669.5 958.08 517.19 901.07 900.4 782.68 TRUE FALSE FALSE 832.0934764 611.9348409 758.0884531 991.2731759 618.2030546 876.446194 458.99442 878.0219341 894.1340431 816.4251651 1.019191362 0.749529616 0.928546161 1.214162936 0.757207251 1.073516877 0.562200235 1.075446926 1.095181875 1 9.673176842 -5.525769371 0.367914532 1.010432318 0.820919821 0.053943036 0.183850859 5.509226341 0.991194841 0.064715348 0.412596317 2.98E-06 5.525769371 -0.189512497 ITPHT(ph)SPAPR ddPTM_HeLa_SAHA_4h_R1 1 ITPHTSPAPR 10 0 A0A0C4DFZ9;Q58A45-2;Q58A45-4;Q58A45-3;Q58A45 A0A0C4DFZ9 PAN3 PAB-dependent poly(A)-specific ribonuclease subunit PAN3 1 0 ITPHT(0.892)S(0.108)PAPR 129.76 0.001901 8882200 567.24 388.88 552.77 623.66 655.76 526.03 721.3 700.08 442.93 545.94 TRUE FALSE FALSE 626.9049058 401.4799672 628.0986169 635.7318411 605.5158105 481.2092846 640.1374256 682.1729673 439.8476141 569.4781452 1.100841026 0.704996268 1.102937175 1.116341069 1.063281911 0.845000442 1.124077247 1.197891391 0.772369612 1 9.153496667 -4.533552571 24.93939849 1.021886947 1.17943795 0.146397207 0.147724411 217.8024982 508897.2064 0.016995182 0.063716542 2.93E-05 4.533552571 0.157551002 ITPHTS(ph)PAPR ddPTM_HeLa_SAHA_4h_R1 1 ITPHTSPAPR 10 0 A0A0C4DFZ9;Q58A45-2;Q58A45-4;Q58A45-3;Q58A45 A0A0C4DFZ9 PAN3 PAB-dependent poly(A)-specific ribonuclease subunit PAN3 1 0 IT(0.014)PHT(0.112)S(0.874)PAPR 105.13 0.0071534 7619200 2412 2075.5 2041.4 2255.4 2516.4 2495.5 3002.1 2867.9 2519 2606.9 TRUE FALSE FALSE 2665.705227 2142.747562 2319.591361 2299.056528 2323.593976 2282.869361 2664.295807 2794.543271 2501.470074 2719.296217 0.980292331 0.787978724 0.853011653 0.845460128 0.854483583 0.839507423 0.979774028 1.027671518 0.919896133 1 11.4090176 -7.430096608 10.12777688 0.991326825 0.882142652 0.203564642 0.070379622 0.401808139 41.86070558 0.011939278 0.013635173 3.71E-08 7.430096608 -0.109184173 ITPLSLQTQGSS(ph)HETLNIVEEK ddPTM_HeLa_SAHA_4h_R1 2 ITPLSLQTQGSSHETLNIVEEK 22 0 O43491;E9PMV8;Q6R5J7 O43491 EPB41L2 Band 4.1-like protein 2 1 0 IT(0.004)PLS(0.011)LQT(0.017)QGS(0.063)S(0.675)HET(0.23)LNIVEEK;ITPLSLQT(0.002)QGS(0.285)S(0.696)HET(0.018)LNIVEEK ; 96.287 0.00018702 4659900 706.15 1104.69 417.35 1050.12 1470.62 1760.46 1248.43 1135.75 970.54 1012.44 TRUE FALSE FALSE 780.4260969 1140.482681 474.2242845 1070.446591 1357.941413 1610.458904 1107.953371 1106.69916 963.7859331 1056.091243 0.738976014 1.07990923 0.449037228 1.013592905 1.285818268 1.52492402 1.04910762 1.047920023 0.912597221 1 10.04451877 -5.950406532 5.570735831 0.857609514 1.230096711 0.449929225 0.202681637 0.14549033 10.15505857 0.030804354 0.056135316 1.12E-06 5.950406532 0.372487197 ITPPAAKPGS(ph)PQAK ddPTM_HeLa_SAHA_4h_R1 2 ITPPAAKPGSPQAK 14 1 A0A494C1F2;P35658-2;P35658-4;P35658;P35658-3;P35658-5;A0A0A0MSW3;A0A494BZU9 A0A494C1F2 NUP214 Nuclear pore complex protein Nup214 1 0 ITPPAAKPGS(1)PQAK;IT(0.005)PPAAKPGS(0.995)PQAK ; 72.583 0.01542 716460000 8957.3 8265.2 8190.6 9125.2 9111.8 9237.5 10246.3 9308.5 8087.4 8580.7 TRUE FALSE FALSE 9899.469912 8532.997903 9306.772313 9301.831441 8413.655853 8450.413031 9093.359357 9070.402049 8031.119125 8950.65597 1.106004962 0.953337714 1.039786619 1.039234607 0.940004384 0.94411103 1.015943344 1.01337847 0.897265983 1 13.1277777 -6.351099959 1.214545038 1.045625725 0.982735218 0 0.065438985 0.55762589 1.626991994 0.009523529 0.017872872 4.46E-07 6.351099959 -0.062890507 ITPSYVAFTPEGER ddPTM_HeLa_SAHA_4h_R1 3 ITPSYVAFTPEGER 14 0 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 ;; ;; 164.9 4.45E-07 8170300 1231.2 1119.33 1367.73 1178.07 1341.03 1508.99 1295.22 1403.5 1098.84 1153.29 FALSE FALSE TRUE 1360.703265 1155.597026 1554.117122 1200.873248 1238.280571 1380.415563 1149.478437 1367.600502 1091.193083 1203.013976 1.131078518 0.960584872 1.291852923 0.99822053 1.0293152 1.147464277 0.955498822 1.136811816 0.907049382 1 10.23243769 -3.948757294 20.93956377 1.064967279 1.986774403 0.034624802 0.109734947 461.2435534 436713.4543 0.012570389 62699.15568 0.000112523 3.948757294 0.921807125 ITPVTVK(ac)AQTK ddPTM_HeLa_SAHA_4h_R1 2 ITPVTVKAQTK 11 1 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9;S4R3C2;S4R349 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 ; ITPVTVK(1)AQTK;ITPVTVK(1)AQTK 120.96 0.0029718 4587900 2409.1 2844.6 2537.9 3119.2 3695.5 3141.6 4727 3193.9 1851.74 2112.62 FALSE TRUE FALSE 2662.500191 2936.766906 2883.751795 3179.576626 3412.351588 2873.918006 4195.105519 3112.204663 1838.853591 2203.705387 1.208192441 1.332649511 1.308592252 1.442831989 1.548460882 1.304129864 1.903659874 1.412259861 0.834437126 1 11.10571565 -6.613060314 0.29027314 0.963566193 1.729646592 0.682310608 0.156074236 0.811307475 0.171756753 0.113666307 0.232343455 2.44E-07 6.613060314 0.766080399 ITQVSAPPAGS(ph)MTPK ddPTM_HeLa_SAHA_4h_R1 1 ITQVSAPPAGSMTPK 15 0 H0Y6R1;Q9UBP9-3;Q9UBP9-4;Q9UBP9 H0Y6R1 GULP1 PTB domain-containing engulfment adapter protein 1 1 0 ITQVSAPPAGS(0.812)MT(0.188)PK 125.41 0.00053368 2070300 761.65 667.76 493.39 641.33 835.14 672.6 756.48 695.95 746.5 624.59 TRUE FALSE FALSE 841.7638416 689.3958621 560.6266197 653.7438695 771.1517536 615.2906961 671.3588795 678.1486067 741.3050457 651.5191316 1.292001725 1.058136022 0.860491415 1.003414693 1.183621042 0.944393904 1.03045152 1.040872898 1.137810096 1 9.347663733 -7.009662928 24.97467544 1.139846504 1.01126021 0.258610458 0.100463805 615.0994712 1589781.679 0.021288785 0.027115826 9.78E-08 7.009662928 -0.128586294 ITQVSAPPAGSMT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 ITQVSAPPAGSMTPK 15 0 H0Y6R1;Q9UBP9-3;Q9UBP9-4;Q9UBP9 H0Y6R1 GULP1 PTB domain-containing engulfment adapter protein 1 1 0 ITQVS(0.001)APPAGS(0.161)MT(0.839)PK 126.63 0.00082012 3247500 1186 1158.4 1082.2 1080.2 1089.6 1137.9 968.59 1164 1281.2 1176.7 TRUE FALSE FALSE 1310.748922 1195.93292 1229.67658 1101.108833 1006.115083 1040.944518 859.601704 1134.226565 1272.284025 1227.433296 1.067877926 0.974336385 1.001827622 0.897082421 0.819690232 0.84806606 0.700324577 0.92406371 1.036540258 1 10.26142891 -6.129384636 1.477423752 1.029650904 0.810279833 0.727274827 0.056014217 0.137181725 0.588951294 0.00875778 0.017413699 7.42E-07 6.129384636 -0.219371071 ITS(ph)PLMEPSSIEK ddPTM_HeLa_SAHA_4h_R1 2 ITSPLMEPSSIEK 13 0 P28066 P28066 PSMA5 Proteasome subunit alpha type-5 1 0 IT(0.229)S(0.771)PLMEPSSIEK;IT(0.478)S(0.522)PLMEPSSIEK ; 113.44 0.0034592 20391200 3143 3508.1 3525 3145.1 3730.4 4529.6 4543.4 4169.8 4101.4 3847.8 TRUE FALSE FALSE 3473.595161 3621.764742 4005.368643 3205.977958 3444.577558 4143.652597 4032.164674 4063.142554 4072.858023 4013.697489 0.865435218 0.902351199 0.997924894 0.798759241 0.858205574 1.032377903 1.004601041 1.012319081 1.01473966 1 11.97071617 -5.241913195 24.54377251 0.922088306 1.015249523 0.309928004 0.066114481 706.7708828 888385.6866 0.010107354 0.02572088 5.73E-06 5.241913195 0.093161217 ITSFPES(ph)EGYSYETSTK ddPTM_HeLa_SAHA_4h_R1 1 ITSFPESEGYSYETSTK 17 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 ITS(0.002)FPES(0.808)EGY(0.026)S(0.163)Y(0.001)ETSTK 122.96 6.74E-05 0 274.39 480.49 400.89 337.75 322.01 316.4 406.01 567.56 235.79 425.25 TRUE FALSE FALSE 303.2515991 496.0581913 455.5212015 344.2876396 297.3376634 289.44094 360.3246862 553.042637 234.1491182 443.5846086 0.683638686 1.118294417 1.026909394 0.77614875 0.670306538 0.65250447 0.812302048 1.246757949 0.527856724 1 8.793065498 ITSIS(ph)PTPEPPAALEDNPDAWGDGSPR ddPTM_HeLa_SAHA_4h_R1 1 ITSISPTPEPPAALEDNPDAWGDGSPR 27 0 Q14934-2;Q14934-9;Q14934-3;Q14934-4;Q14934-5;Q14934-6;Q14934-7;Q14934;Q14934-8;Q14934-10;Q14934-18;Q14934-11;Q14934-12;Q14934-13;Q14934-14;Q14934-15;Q14934-16;Q14934-17;G3V5H0 Q14934-2 NFATC4 "Nuclear factor of activated T-cells, cytoplasmic 4" 1 0 IT(0.05)S(0.165)IS(0.707)PT(0.079)PEPPAALEDNPDAWGDGSPR 126.62 1.63E-08 6475300 1035.7 896.92 989.22 1208.7 1023.1 1477.1 1145.7 1139.7 1377.4 1093.9 TRUE FALSE FALSE 1144.639678 925.9807965 1124.02575 1232.096136 944.710299 1351.24277 1016.782821 1110.548124 1367.814561 1141.063382 1.003134178 0.81150689 0.985068636 1.079778876 0.827920967 1.184196067 0.89108356 0.973257175 1.198719179 1 10.15616322 ITSISPT(ph)PEPPAALEDNPDAWGDGSPR ddPTM_HeLa_SAHA_4h_R1 1 ITSISPTPEPPAALEDNPDAWGDGSPR 27 0 Q14934-2;Q14934-9;Q14934-3;Q14934-4;Q14934-5;Q14934-6;Q14934-7;Q14934;Q14934-8;Q14934-10;Q14934-18;Q14934-11;Q14934-12;Q14934-13;Q14934-14;Q14934-15;Q14934-16;Q14934-17;G3V5H0 Q14934-2 NFATC4 "Nuclear factor of activated T-cells, cytoplasmic 4" 1 0 IT(0.168)S(0.06)IS(0.359)PT(0.413)PEPPAALEDNPDAWGDGSPR 111.52 5.66E-07 5688800 1501.5 1447.5 995.33 1841.2 1724.9 2044.4 1527.9 1483 1971.1 1349.5 TRUE FALSE FALSE 1659.434659 1494.39995 1130.968389 1876.839088 1592.738535 1870.205619 1355.976671 1445.067007 1957.382955 1407.683549 1.178840699 1.061602198 0.803425166 1.333281965 1.131460644 1.328569634 0.963268109 1.02655672 1.390499275 1 10.45910733 -6.203449324 24.99999185 1.065357591 1.15403917 0.030959217 0.175280954 588.5283416 253718.8448 0.022339234 0.037045424 6.26E-07 6.203449324 0.088681579 ITSLSSS(ph)LDTSLDFSK ddPTM_HeLa_SAHA_4h_R1 1 ITSLSSSLDTSLDFSK 16 0 E9PR71;Q9P2Y5-2;Q9P2Y5 E9PR71 UVRAG UV radiation resistance-associated gene protein 1 0 ITSLSS(0.011)S(0.986)LDT(0.003)SLDFSK 218.28 1.29E-20 1442800 554.92 394.18 343.3 566.53 489.55 642.16 576.56 508.36 535.39 530.64 TRUE FALSE FALSE 613.2890317 406.9516906 390.0831362 577.4960074 452.0407848 587.4443553 511.6839514 495.3568873 531.6641774 553.5184873 1.107982923 0.73520885 0.704733708 1.043318373 0.816667907 1.061291301 0.924420707 0.894923835 0.960517471 1 9.112487693 -7.28502324 24.91878155 1.050991938 0.888158678 0.226478958 0.114714098 679.2479396 717693.6645 0.01961269 0.022434614 5.19E-08 7.28502324 -0.16283326 ITSVIPS(ph)PPPPPPLPPPQR ddPTM_HeLa_SAHA_4h_R1 2 ITSVIPSPPPPPPLPPPQR 19 0 O15085;O15085-2 O15085 ARHGEF11 Rho guanine nucleotide exchange factor 11 1 0 IT(0.024)S(0.25)VIPS(0.726)PPPPPPLPPPQR;IT(0.025)S(0.017)VIPS(0.958)PPPPPPLPPPQR ; 77.051 0.0055741 2440600 1197.91 1003.98 889.18 1188.03 1026.97 1324.88 1202.75 1104.72 1263.44 1397.78 TRUE FALSE FALSE 1323.91167 1036.509611 1010.35282 1211.026039 948.2837805 1211.99277 1067.413405 1076.462862 1254.647618 1458.045136 0.908004586 0.710889934 0.692950303 0.830581995 0.650380264 0.831245028 0.732085296 0.738291864 0.860499848 1 10.50981967 -7.435341251 2.670271991 0.963710193 0.741989565 0.612986945 0.0644231 0.092529846 1.254243862 0.010246292 0.011428367 3.67E-08 7.435341251 -0.221720628 ITVNGDSS(ph)AEAEELANEI ddPTM_HeLa_SAHA_4h_R1 2 ITVNGDSSAEAEELANEI 18 0 A0A0B4J1W3;Q9BXJ9 A0A0B4J1W3 NAA15 "N-alpha-acetyltransferase 15, NatA auxiliary subunit" 1 0 ITVNGDS(0.197)S(0.803)AEAEELANEI;ITVNGDS(0.008)S(0.992)AEAEELANEI ; 199.05 1.86E-37 6584300 2002.2 2148.61 1525.59 2394.41 2198.33 2331.1 1991.18 2014.09 2918.93 1941.58 TRUE FALSE FALSE 2212.800582 2218.226374 1733.48946 2440.757268 2029.89443 2132.477166 1767.127186 1962.572494 2898.616928 2025.291016 1.092584012 1.09526303 0.855921172 1.205139039 1.002272965 1.052923826 0.872530008 0.969032341 1.431210086 1 10.98391351 -4.772943208 24.93480175 1.04392266 0.920781175 0.112309827 0.149910597 183.2741153 397253.7729 0.011336331 0.034433795 1.69E-05 4.772943208 -0.123141485 ITVQAS(ph)PGLDR ddPTM_HeLa_SAHA_4h_R1 1 ITVQASPGLDR 11 0 Q16584-2;Q16584 Q16584-2 MAP3K11 Mitogen-activated protein kinase kinase kinase 11 1 0 ITVQAS(1)PGLDR 85.45 0.01915 6430300 1376 1679.9 1665.6 1678.7 1943.9 2122.5 1986.5 1872.2 1810.3 1846.2 TRUE FALSE FALSE 1520.733993 1734.329862 1892.579294 1711.193666 1794.958802 1941.651059 1762.973792 1824.311835 1797.701975 1925.798717 0.789664039 0.900576912 0.982750314 0.888563094 0.932059403 1.008231567 0.915450704 0.947301407 0.933483837 1 10.91124121 -6.886468241 10.86813925 0.897763556 0.943942718 0.096218309 0.057519114 0.816270555 74.81847568 0.013429518 0.017655448 1.30E-07 6.886468241 0.046179161 ITVTSEVPFSK ddPTM_HeLa_SAHA_4h_R1 2 ITVTSEVPFSK 11 0 K7ERI7;P35268;K7EMH1;K7EP65;K7EKS7;K7ELC4;K7EJT5 K7ERI7 RPL22 60S ribosomal protein L22 0 0 ; ; 250.92 2.72E-69 8174500 3201.9 4128.9 2676.1 3779.2 3875 4052 4155.6 3377.4 4448 3675.8 FALSE FALSE TRUE 3538.690533 4262.679069 3040.784971 3852.351881 3578.098337 3706.746804 3688.000951 3291.010998 4417.046006 3834.281727 0.922908327 1.111728186 0.793052047 1.004712787 0.933186081 0.966738249 0.961849236 0.858312256 1.151987861 1 11.90474063 ITVTSEVPFSK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 ITVTSEVPFSKR 12 1 K7ERI7;P35268;K7EMH1;K7EP65;K7EKS7;K7ELC4 K7ERI7 RPL22 60S ribosomal protein L22 0 1 ITVTSEVPFSK(1)R 130.01 0.00030937 1046400 123.22 247.27 232.63 60.505 295.37 172.33 326.33 194.55 0 0 FALSE TRUE FALSE 136.180845 255.2817102 264.3316049 61.67616177 272.7388144 157.6465145 289.6104895 189.5736927 0 0 0 ITVTSEVPFSKR ddPTM_HeLa_SAHA_4h_R1 2 ITVTSEVPFSKR 12 1 K7ERI7;P35268;K7EMH1;K7EP65;K7EKS7;K7ELC4 K7ERI7 RPL22 60S ribosomal protein L22 0 0 ; ; 119.74 0.00093024 7002100 5320.8 3331.7 5086.1 4254.9 4602.8 3587.2 5410.2 4106.9 2519.7 3892.9 FALSE FALSE TRUE 5880.466157 3439.649266 5779.207221 4337.259742 4250.134458 3281.550379 4801.430057 4001.851445 2502.165203 4060.74197 1.448126032 0.847049453 1.423189965 1.068095381 1.046639873 0.808115956 1.182402155 0.985497595 0.616184239 1 11.98752764 -6.015907985 22.8442489 1.200333084 1.010826142 0 0.262620064 336.8128131 483674.159 0.032083901 0.054343302 9.64E-07 6.015907985 -0.189506942 IVADK(ac)DYSVTANSK ddPTM_HeLa_SAHA_4h_R1 2 IVADKDYSVTANSK 14 1 A0A5F9ZHM4;P07195;A0A3B3IS95;A8MW50;C9J7H8;F5H793 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain;L-lactate dehydrogenase 0 1 ; IVADK(1)DYSVTANSK;IVADK(1)DYSVTANSK 360.2 1.52E-231 13911000 1801.76 5465 2215.8 2508.9 3941.8 4623.3 4363.5 3793.7 4168.1 1546.83 FALSE TRUE FALSE 1991.277384 5642.069586 2517.757685 2557.463387 3639.780136 4229.36883 3872.507496 3696.662647 4139.093853 1613.521411 1.234118971 3.496742929 1.560411698 1.585019802 2.255799093 2.621204033 2.400034774 2.291052738 2.565254991 1 10.65599701 -7.484849988 23.71628152 1.103286951 2.278004867 0.067383394 0.690061575 138.6704538 86481.51122 0.08625926 0.096724379 3.27E-08 7.484849988 1.174717916 IVADKDYSVTANSK ddPTM_HeLa_SAHA_4h_R1 2 IVADKDYSVTANSK 14 1 A0A5F9ZHM4;P07195;A0A3B3IS95;A8MW50;C9J7H8;F5H793 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain;L-lactate dehydrogenase 0 0 ; ; 157.09 6.38E-07 18324600 8449.5 7995.4 8010 8711 8517.8 10200.8 9210.8 8560.8 8198.3 8933.3 FALSE FALSE TRUE 9338.257178 8254.456206 9101.561086 8879.614001 7865.168004 9331.634452 8174.376543 8341.827132 8141.247363 9318.458282 1.002124697 0.885817799 0.976723918 0.952905914 0.844041768 1.001413986 0.877224139 0.895193913 0.873668918 1 13.18587557 -7.278148667 23.90855288 1.001003335 0.92124131 0 0.060461159 311.7720599 446099.0323 0.007157846 0.008199395 5.27E-08 7.278148667 -0.079762025 IVAHAVEVPAVQS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 IVAHAVEVPAVQSPR 15 0 Q96FF9;B5MBX0;H0YCL8 Q96FF9 CDCA5 Sororin 1 0 IVAHAVEVPAVQS(1)PR;IVAHAVEVPAVQS(1)PR ; 156.17 1.43E-05 57482000 4240.7 4592.9 4025.1 5361.9 4900.8 4815 4858.6 4736 5142.8 4580.2 TRUE FALSE FALSE 4686.756283 4741.712974 4573.619666 5465.687328 4525.301763 4404.734912 4311.897541 4614.859978 5107.010836 4777.674837 0.980970125 0.992472936 0.957289858 1.144005717 0.947176591 0.921941124 0.902509628 0.965921737 1.068932276 1 12.22209295 -5.540862955 24.99975662 0.999594253 0.928562 0.346680641 0.054743166 209.512277 291241.1332 0.00696859 0.013939203 2.88E-06 5.540862955 -0.071032254 IVATKPLYVALAQR ddPTM_HeLa_SAHA_4h_R1 2 IVATKPLYVALAQR 14 1 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YAR2;Q9H361;H0YB86 P11940 PABPC1;PABPC3 Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 3 0 0 ; ; 108.68 0.0033043 4564300 2631.5 2157.24 5755.4 3536 3530.5 781.82 4533 382.34 304.8 1072.62 FALSE FALSE TRUE 2908.293244 2227.135991 6539.715939 3604.444393 3259.993853 715.2045376 4022.93491 372.5602964 302.678872 1118.865897 2.599322448 1.990529872 5.844950636 3.221516002 2.913659144 0.639222752 3.59554699 0.332980295 0.270522922 1 10.12782142 -4.227341055 22.17297996 2.250232544 0.332963149 0.130980596 1.561486163 5542.305673 3603683.708 0.212810007 37.87825665 5.92E-05 4.227341055 -1.917269395 IVDKMHDSNTGIRSSPNMEQGS(ph)TYK ddPTM_HeLa_SAHA_4h_R1 1 IVDKMHDSNTGIRSSPNMEQGSTYK 25 2 H0YJ64;Q9NYT0 H0YJ64 PLEK2 Pleckstrin-2 1 0 IVDKMHDS(0.002)NT(0.001)GIRS(0.111)S(0.111)PNMEQGS(0.305)T(0.247)Y(0.223)K 48.641 0.0076111 0 417.71 476.33 383.72 310.49 487.1 660.71 308.5 339.91 425.92 415.12 TRUE FALSE FALSE 461.6466543 491.7634045 436.0113633 316.4999829 449.7785032 604.4137909 273.7867681 331.2155944 422.955988 433.0178547 1.066114594 1.135665422 1.00691313 0.730916703 1.038706599 1.395817249 0.632275933 0.764900548 0.976763391 1 8.758282703 -4.715301021 24.99999432 1.036184826 0.698587207 0.434322362 0.157421435 86.78783538 47024.58188 0.020813272 0.07787559 1.93E-05 4.715301021 -0.337597618 IVEDEPNKICEADR ddPTM_HeLa_SAHA_4h_R1 1 IVEDEPNKICEADR 14 1 P55060-4;P55060-3;P55060;P55060-2 P55060-4 CSE1L Exportin-2 0 0 119.39 0.0014489 5211900 1447 1216.3 1547.1 1209.6 1411.3 1429.3 1747.7 1603.9 1244.5 1213.6 FALSE FALSE TRUE 1599.202099 1255.708918 1757.930731 1233.013557 1303.166499 1307.515599 1551.044196 1562.87456 1235.839423 1265.924235 1.263268413 0.991930546 1.388653983 0.974002648 1.02941903 1.032854544 1.225226718 1.234571957 0.976234903 1 10.30597535 -9.649738958 1.495504362 1.000253651 1.154966871 0.176343595 0.129873012 0.600649123 2.421996834 0.091308801 0.02077347 2.24E-10 9.649738958 0.15471322 IVEMSTSK ddPTM_HeLa_SAHA_4h_R1 2 IVEMSTSK 8 0 I3L397;I3L504;P63241;P63241-2;F8WCJ1;C9J7B5;C9J4W5;Q9GZV4 I3L397 EIF5A;EIF5A2 Eukaryotic translation initiation factor 5A;Eukaryotic translation initiation factor 5A-1;Eukaryotic translation initiation factor 5A-2 0 0 ; ; 138.54 0.00029245 6701000 6429 5834.3 7801.1 8236.7 7103.5 4154.9 7976.9 4768.5 3248.5 4647.2 FALSE FALSE TRUE 7105.231717 6023.335148 8864.193282 8396.133239 6559.231365 3800.879145 7079.318218 4646.528675 3225.893424 4847.563535 1.465732562 1.242548985 1.828587334 1.732031603 1.353098586 0.784080315 1.460386887 0.95852868 0.665466971 1 12.24304409 IVEMSTSK(ac)TGK ddPTM_HeLa_SAHA_4h_R1 5 IVEMSTSKTGK 11 1 I3L397;I3L504;P63241;P63241-2;F8WCJ1;C9J7B5;C9J4W5;Q9GZV4 I3L397 EIF5A;EIF5A2 Eukaryotic translation initiation factor 5A;Eukaryotic translation initiation factor 5A-1;Eukaryotic translation initiation factor 5A-2 0 1 ;;;; IVEMSTSK(1)TGK;IVEMSTSK(1)TGK;IVEMSTSK(1)TGK;IVEMSTSK(1)TGK;IVEMSTSK(1)TGK 205.13 1.67E-24 189015700 14442.84 12393.68 12047.94 14787.53 13549.93 14804.04 13784.49 12513.49 12820 11355.21 FALSE TRUE FALSE 15962.00418 12795.24336 13689.77052 15073.76403 12511.73729 13542.65251 12233.42291 12193.41305 12730.78458 11844.78867 1.347597211 1.080242435 1.155763171 1.272607257 1.056307346 1.143342687 1.032810567 1.029432722 1.074800482 1 13.53196484 -4.894359217 1.259162011 1.164810754 1.013905854 0.140657365 0.099321023 1.034471479 2.580661199 0.020426849 0.149697686 1.28E-05 4.894359217 -0.1509049 IVENEK(ac)INAEK ddPTM_HeLa_SAHA_4h_R1 2 IVENEKINAEK 11 1 Q9C005 Q9C005 DPY30 Protein dpy-30 homolog 0 1 ; IVENEK(1)INAEK;IVENEK(1)INAEK 227.81 8.33E-44 3315200 989.79 818.53 1003.39 986.4 1021.55 1124.7 1133.6 1289.42 1027.32 922.55 FALSE TRUE FALSE 1093.900654 845.0509091 1140.126764 1005.493198 943.2790597 1028.869233 1006.044345 1256.438503 1020.170796 962.3256454 1.136726075 0.878134042 1.184761904 1.044857532 0.980207754 1.069148721 1.045430255 1.305627164 1.060109747 1 9.910381366 -4.26024863 24.12542907 1.053763329 1.305627288 0.488001477 0.079759483 42.60322524 862991.0047 0.011044 0.09115072 5.49E-05 4.26024863 0.251863959 IVENEKINAEK(ac)SSK ddPTM_HeLa_SAHA_4h_R1 2 IVENEKINAEKSSK 14 2 Q9C005 Q9C005 DPY30 Protein dpy-30 homolog 0 1 ; IVENEKINAEK(1)SSK;IVENEKINAEK(1)SSK 162.88 2.21E-07 3764900 1826.12 819.83 1542.75 1349.42 1531.9 1323.27 1180.63 1796.35 517.06 1360.3 FALSE TRUE FALSE 2018.19968 846.3930299 1752.987936 1375.539975 1414.526153 1210.519951 1047.782405 1750.401968 513.4617374 1418.94919 1.422319907 0.596492838 1.23541276 0.969407492 0.996882878 0.853110147 0.73842137 1.233590308 0.361860552 1 10.47060721 -7.281230613 24.99759496 1.199428832 0.948584117 0 0.336821992 946.7823413 1195843.684 0.038911194 0.044528304 5.23E-08 7.281230613 -0.250844715 IVEPEVVGES(ph)DSEVEGDAWR ddPTM_HeLa_SAHA_4h_R1 3 IVEPEVVGESDSEVEGDAWR 20 0 P55081 P55081 MFAP1 Microfibrillar-associated protein 1 1 0 IVEPEVVGES(0.995)DS(0.005)EVEGDAWR;IVEPEVVGES(0.923)DS(0.077)EVEGDAWR;IVEPEVVGES(0.972)DS(0.028)EVEGDAWR ;; 302.9 3.72E-92 44065400 2640.8 3311.45 3009.04 3500.27 3399.1 4379.95 4330.75 3850.64 4571.58 3235.69 TRUE FALSE FALSE 2918.57146 3418.743153 3419.096301 3568.022787 3138.661692 4006.753619 3843.442612 3752.146204 4539.766003 3375.196431 0.864711586 1.012901981 1.013006612 1.05713041 0.929919712 1.187117165 1.138731535 1.111682322 1.345037569 1 11.72075575 -5.585098548 0.778523592 0.941698258 1.157514675 0 0.142814117 0.480406223 0.495665806 0.013392 0.061288918 2.60E-06 5.585098548 0.215816417 IVEPYIAWGYPNLK ddPTM_HeLa_SAHA_4h_R1 1 IVEPYIAWGYPNLK 14 0 P18124;A8MUD9 P18124 RPL7 60S ribosomal protein L7 0 0 136.48 0.00065276 174530 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 IVEYS(ph)PPSAPR ddPTM_HeLa_SAHA_4h_R1 3 IVEYSPPSAPR 11 0 O95696-2;O95696 O95696-2 BRD1 Bromodomain-containing protein 1 1 0 IVEYS(0.984)PPS(0.015)APR;IVEYS(0.999)PPS(0.001)APR;IVEYS(0.92)PPS(0.079)APR ;; 140.45 0.00089646 44149000 3988.1 3406.79 3470.85 4154.38 4579.9 5021.4 4626.8 4251.7 4441.9 4263.84 TRUE FALSE FALSE 4407.586656 3517.172231 3943.839363 4234.794032 4228.989051 4593.54847 4106.180287 4142.94767 4410.988456 4447.675009 0.990986672 0.790788946 0.886719321 0.952136571 0.950831399 1.032797689 0.923219497 0.93148615 0.991751521 1 12.11883566 -7.478492895 24.99995411 0.996023645 0.926122101 0.240902677 0.057101564 468.6690199 263975.619 0.010201266 0.011598076 3.32E-08 7.478492895 -0.069901543 IVFSGNLFQHQEDSKK ddPTM_HeLa_SAHA_4h_R1 2 IVFSGNLFQHQEDSKK 16 1 Q96TA1-2;Q96TA1 Q96TA1-2 FAM129B Niban-like protein 1 0 0 ; ; 64.394 0.010426 6053200 2931.7 3156.1 2981.7 4087.7 4890.1 5040.2 6391.9 3980.2 3619.4 3786.5 FALSE FALSE TRUE 3240.069657 3258.359711 3388.030548 4166.823344 4515.421594 4610.746605 5672.666589 3878.392247 3594.212301 3949.754546 0.820321774 0.824952455 0.857782556 1.054957541 1.143215747 1.167350161 1.43620737 0.981932473 0.909983711 1 11.94754729 -5.896598529 2.069219496 0.901157265 1.210367428 0.597700813 0.115138173 0.172883128 1.499275565 0.018501927 0.037891592 1.27E-06 5.896598529 0.309210163 IVGELEQMVSEDVPLDHR ddPTM_HeLa_SAHA_4h_R1 4 IVGELEQMVSEDVPLDHR 18 0 A0A024R4E5;Q00341-2;Q00341 A0A024R4E5 HDLBP Vigilin 0 0 ;;; ;;; 154.31 0.00020043 6292860 3655.09 3531.06 3463.57 4139.22 4453.11 4664.65 4293.35 4081.32 4260.02 4271.25 FALSE FALSE TRUE 4039.549136 3645.468661 3935.567282 4219.340589 4111.913674 4267.195577 3810.250959 3976.925744 4230.374174 4455.40449 0.906662716 0.818212728 0.883324351 0.94701628 0.922904684 0.957757166 0.85519754 0.892607114 0.94949273 1 12.1213407 -8.882873697 0.88288129 0.996268244 0.899141972 0.328597789 0.041636493 0.387737293 0.583355307 0.021907557 0.008348536 1.31E-09 8.882873697 -0.097126272 IVHSLDYYNTCEYPNEDEMPNR ddPTM_HeLa_SAHA_4h_R1 2 IVHSLDYYNTCEYPNEDEMPNR 22 0 Q9BXP5-5;Q9BXP5-4;Q9BXP5-2;Q9BXP5-3;Q9BXP5;H7C3A1 Q9BXP5-5 SRRT Serrate RNA effector molecule homolog 0 0 ; ; 83.849 0.0037655 13246100 1212.71 1525.63 1472.28 1587.21 1701.07 1306.63 1749.17 1356.74 1516.59 1474.47 FALSE FALSE TRUE 1340.268402 1575.061413 1672.914651 1617.932745 1570.734384 1195.297773 1552.348788 1322.036555 1506.035927 1538.041618 0.871412312 1.024069437 1.087691407 1.051943411 1.0212561 0.777155676 1.0093022 0.859558376 0.979190621 1 10.58687883 -4.239892888 22.16212333 0.959363202 0.859557888 0.104739655 0.088617254 2201.384528 2264110.805 0.013218376 0.66078363 5.76E-05 4.239892888 -0.099805314 IVIGLFGK ddPTM_HeLa_SAHA_4h_R1 2 IVIGLFGK 8 0 P45877 P45877 PPIC Peptidyl-prolyl cis-trans isomerase C 0 0 ; ; 132.94 0.0007794 4002800 3024.4 3462.4 4269.2 4116.8 4716.9 4005.2 4707.6 2108.43 2645.21 3751.5 FALSE FALSE TRUE 3342.520268 3574.584032 4850.984343 4196.486617 4355.492141 3663.934427 4177.888458 2054.499414 2626.801768 3913.245524 0.854155521 0.913457643 1.239631992 1.072380098 1.113012745 0.936290454 1.06762748 0.525011631 0.671259125 1 11.93414992 -4.254285915 24.36314923 0.977946227 0.525011323 0.464306496 0.148136551 364.8393678 1242518.301 0.017692202 0.236117686 5.57E-05 4.254285915 -0.452934903 IVIGYQSHADTATK ddPTM_HeLa_SAHA_4h_R1 1 IVIGYQSHADTATK 14 0 D6RBW1;P06730;P06730-3;P06730-2 D6RBW1 EIF4E Eukaryotic translation initiation factor 4E 0 0 115.24 0.00076119 2358700 1660.9 1858.2 1742.6 1926.2 1910 1907.5 1931 1703.7 1776.3 1750.1 FALSE FALSE TRUE 1835.601082 1918.406899 1980.072453 1963.484386 1763.656213 1744.970269 1713.718798 1660.121821 1763.938584 1825.555376 1.005502822 1.050862069 1.084641134 1.075554548 0.966092969 0.95585721 0.938738326 0.909379054 0.966247646 1 10.83411972 -5.552194755 9.617839553 1.018213769 0.939329856 0.582740168 0.036237191 0.215484192 67.61770555 0.005660411 0.01137231 2.80E-06 5.552194755 -0.078883913 IVLYAK ddPTM_HeLa_SAHA_4h_R1 1 IVLYAK 6 0 A0A087WVQ6;Q00610-2;Q00610;A0A087WX41;P53675-2;P53675 A0A087WVQ6 CLTC;CLTCL1 Clathrin heavy chain;Clathrin heavy chain 1;Clathrin heavy chain 2 0 0 105.82 0.02244 1272400 2765.8 2729 4642.5 3708.8 3689.2 1486.6 3966.2 1221.7 705.41 1681.7 FALSE FALSE TRUE 3056.719534 2817.421391 5275.155723 3780.589187 3406.534293 1359.933317 3519.912738 1190.450683 700.5009944 1754.206317 1.742508566 1.606094656 3.007146692 2.155156523 1.941923399 0.775241375 2.00655573 0.67862638 0.399326458 1 10.77660272 -5.273806896 24.78163154 1.601240674 1.23878257 0.090338097 0.731002652 1737.50767 3481561.371 0.102402511 0.230573395 5.32E-06 5.273806896 -0.362458104 IVNHWAS(ph)PELR ddPTM_HeLa_SAHA_4h_R1 4 IVNHWASPELR 11 0 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 IVNHWAS(1)PELR;IVNHWAS(1)PELR;IVNHWAS(1)PELR;IVNHWAS(1)PELR ;;; 168.98 0.00010976 81624600 14902.3 13962.5 14322 15380.8 16890.5 16219.2 17011.8 13690.5 13858.9 15118.8 TRUE FALSE FALSE 16469.79229 14414.89416 16273.72757 15678.51763 15596.35354 14837.23291 15097.58749 13340.31683 13762.45479 15770.64546 1.044332163 0.91403324 1.031899907 0.994158271 0.988948333 0.940813295 0.957322104 0.845895424 0.872662747 1 13.94495409 -2.468200128 0.490318162 1.01518078 6.79E-11 0.151606377 0.057530696 9.785140718 0.39983058 0.007316731 8.466226841 0.003402514 2.468200128 -1.01518078 IVNY(ph)T(ph)PDMTHSEVEKAFKK ddPTM_HeLa_SAHA_4h_R1 1 IVNYTPDMTHSEVEKAFKK 19 2 Q7Z5M0;G5E971;P45452 Q7Z5M0 MMP13 Collagenase 3 2 0 IVNY(0.85)T(0.864)PDMT(0.272)HS(0.014)EVEKAFKK 48.053 0.017266 8681900 952.82 837.14 874.18 737.78 876.69 927.57 820.52 893.24 721.9 702.52 TRUE FALSE FALSE 1053.041979 864.2638853 993.3086979 752.0607987 809.5182016 848.5358176 728.1929301 870.3922142 716.8762391 732.8090752 1.436993638 1.179384801 1.35548089 1.026271131 1.104678188 1.157922092 0.993700753 1.187747592 0.978257862 1 9.51729356 -6.239648767 24.70738691 1.219315178 1.092625577 0.08505547 0.141906089 1237.387997 1403018.145 0.025897087 0.042919006 5.76E-07 6.239648767 -0.126689601 IVPQSQVPNPES(ph)PGK ddPTM_HeLa_SAHA_4h_R1 2 IVPQSQVPNPESPGK 15 0 Q9ULM3 Q9ULM3 YEATS2 YEATS domain-containing protein 2 1 0 IVPQSQVPNPES(1)PGK;IVPQSQVPNPES(1)PGK ; 181.51 1.60E-07 15954200 2291.83 2585 1835.21 2230.8 2606.8 2762.5 2196 2129.2 3298.7 2259.2 TRUE FALSE FALSE 2532.895195 2668.755696 2085.302861 2273.98036 2407.067547 2527.119459 1948.9003 2074.738147 3275.744078 2356.605168 1.074806772 1.132457712 0.884875791 0.964939053 1.021413167 1.072355901 0.826994834 0.880392768 1.390026688 1 11.20249435 -4.757948646 24.99994993 1.028184511 0.853693747 0.260291698 0.131427052 51.68582255 370146.0209 0.009401724 0.032557299 1.75E-05 4.757948646 -0.174490765 IVQAEGEAEAAK ddPTM_HeLa_SAHA_4h_R1 2 IVQAEGEAEAAK 12 0 J3KPX7;Q99623;F5GY37 J3KPX7 PHB2 Prohibitin-2 0 0 ; ; 153.95 0.0016483 11347400 2270.42 2628.3 1995.8 2504.51 2374.54 2616 2561.1 2680.3 3110.3 2707 FALSE FALSE TRUE 2509.233193 2713.458644 2267.77723 2552.988413 2192.603258 2393.102083 2272.918288 2611.741807 3088.655169 2823.712018 0.888629285 0.960954455 0.803119162 0.904124924 0.776496769 0.847502177 0.804939836 0.924932072 1.093827965 1 11.46337724 -8.611038066 0.334499352 1.031862977 0.83407215 0.58057928 0.060918947 1.164586229 0.252327583 0.08994782 0.028017684 2.45E-09 8.611038066 -0.197790827 IVQK(ac)HPHTGDTK ddPTM_HeLa_SAHA_4h_R1 2 IVQKHPHTGDTK 12 1 P51397;B4DQ75 P51397 DAP Death-associated protein 1 0 1 ; IVQK(1)HPHTGDTK;IVQK(1)HPHTGDTK 115.34 0.0049025 13316100 3425.2 5680.9 6152.7 8691.6 10314.1 2857 11044.3 9518.4 3820.2 2420.92 FALSE TRUE FALSE 3785.478251 5864.964887 6991.157914 8859.838486 9523.835886 2613.567527 9801.566297 9274.93311 3793.614917 2525.297709 1.499022566 2.32248454 2.768448999 3.508433265 3.771371531 1.034954223 3.881350806 3.672807795 1.502244628 1 11.30223776 -6.803328506 0.882456832 1.139686818 3.86820122 0.515487845 0.165598359 0.038659698 0.060118773 0.027794833 0.043418572 1.57E-07 6.803328506 2.728514402 up IVVFQYSDGK ddPTM_HeLa_SAHA_4h_R1 2 IVVFQYSDGK 10 0 F5GY55;Q16531;Q16531-2 F5GY55 DDB1 DNA damage-binding protein 1 0 0 ; ; 142.98 0.00010108 1795330 814.85 1247.26 1276.36 1450.59 1159.22 1433.38 1371.56 984.13 1013.67 1453.69 FALSE FALSE TRUE 900.5596617 1287.672042 1450.295694 1478.668267 1070.400814 1311.24796 1217.228459 958.9573796 1006.615788 1516.36569 0.593893457 0.84918305 0.956428719 0.975139623 0.705898861 0.864730697 0.802727513 0.632405089 0.663834453 1 10.566402 -4.270593949 3.980640476 0.825798288 0.616456839 0.167028675 0.128919206 0.408746983 13.36107015 0.022453183 0.2429867 5.36E-05 4.270593949 -0.209341449 IVVLFYK ddPTM_HeLa_SAHA_4h_R1 1 IVVLFYK 7 0 Q7L1Q6-2;Q7L1Q6;Q7L1Q6-4;Q7L1Q6-3;E9PFD4;B5MCH7;B5MCE7;E7ETZ4;Q9Y6E2 Q7L1Q6-2;B5MCE7;E7ETZ4 BZW1;BZW2 Basic leucine zipper and W2 domain-containing protein 1;Basic leucine zipper and W2 domain-containing protein 2 0 0 126.05 0.0011923 390640 420.94 335.48 1250.5 1210.4 753.24 287.29 672.39 225.05 158.3 234.06 FALSE FALSE TRUE 465.2164005 346.3497721 1420.911628 1233.829042 695.5269139 262.8112758 596.7309076 219.2935469 157.1983774 244.1514721 1.905441719 1.418585639 5.819795456 5.053539231 2.848751671 1.07642716 2.444101207 0.898186462 0.643855948 1 7.931632666 -4.249372205 21.88875822 2.091644153 0.898182456 0.032409753 1.678555794 1025.963505 1860793.736 0.252042135 4.846206902 5.63E-05 4.249372205 -1.193461697 IVVNLTGR ddPTM_HeLa_SAHA_4h_R1 2 IVVNLTGR 8 0 I3L3P7;I3L246;H3BN98;P62244 I3L3P7 RPS15A 40S ribosomal protein S15a 0 0 ; ; 122.18 0.0028537 10652700 4070.4 3522.1 6336.4 5878.4 5595.4 2130.4 6843.3 1676.01 920.5 2245.3 FALSE FALSE TRUE 4498.543348 3636.218351 7199.891593 5992.184932 5166.681661 1948.877935 6073.273873 1633.140091 914.0941656 2342.105871 1.920725874 1.552542264 3.074110219 2.558460318 2.205998339 0.83210497 2.593082554 0.697295588 0.390287295 1 11.19359058 -8.938241174 0.780292919 1.003853515 1.973014922 0.279252288 0.745458092 0.802916981 0.90555061 0.446980284 0.144184426 1.15E-09 8.938241174 0.969161407 IVVVTAGVR ddPTM_HeLa_SAHA_4h_R1 1 IVVVTAGVR 9 0 A0A5F9ZHM4;P07195;A0A3B3IS95;A8MW50;C9J7H8;F5H793 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain;L-lactate dehydrogenase 0 0 110.12 0.0083135 4284100 1036.3 1199.7 4081.7 2044.9 2001.9 374.06 2394.6 190.2 208.56 460.35 FALSE FALSE TRUE 1145.302789 1238.571067 4637.932819 2084.481996 1848.514854 342.1879836 2125.153306 185.3349594 207.108614 480.1979414 2.385063929 2.579292747 9.658377139 4.340880743 3.849485171 0.712597773 4.42557771 0.385955339 0.431298421 1 8.907485409 -4.219835164 21.49425271 2.662840051 0.385917442 0.058227489 2.605784577 9531.917786 4923888.543 0.376163703 127.0886784 6.03E-05 4.219835164 -2.276922609 IVY(ph)MHMERDSYPR ddPTM_HeLa_SAHA_4h_R1 1 IVYMHMERDSYPR 13 1 O14921 O14921 RGS13 Regulator of G-protein signaling 13 1 0 IVY(1)MHMERDSYPR 68.626 0.0076734 0 1815.7 1698.3 2329.9 4610.3 2014.4 1601.9 2260.4 3779.3 2997 1863.3 TRUE FALSE FALSE 2006.683657 1753.326034 2647.406638 4699.539023 1860.057107 1465.409108 2006.053843 3682.630978 2976.143633 1943.635982 1.032438006 0.902085602 1.362089745 2.417911104 0.9569987 0.753952449 1.032113967 1.894712288 1.531224808 1 10.92454233 -6.74732685 21.405152 1.007253609 1.382469309 0.059520146 0.48166882 66.97561918 101582.5395 0.072374196 0.101906625 1.79E-07 6.74732685 0.3752157 IVYLYTK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 IVYLYTKK 8 1 P49207 P49207 RPL34 60S ribosomal protein L34 0 1 IVYLYTK(1)K 131.06 0.0002688 721000 899.05 612.51 1802.4 1244.2 1324 403.09 1565.1 157.27 128.74 295.85 FALSE TRUE FALSE 993.616204 632.3557259 2048.021686 1268.28329 1222.555406 368.7444643 1388.990829 153.2472611 127.8440879 308.6055414 3.219696573 2.049074437 6.636373658 4.109722996 3.96154716 1.194873114 4.500861594 0.496579745 0.414263747 1 8.269620157 -5.246315158 24.67140313 2.692689769 2.307781031 0.025232399 1.929964841 4971.080949 8109061.671 0.281130591 0.713414576 5.67E-06 5.246315158 -0.384908738 IWDLEGK ddPTM_HeLa_SAHA_4h_R1 1 IWDLEGK 7 0 P63244;H0YAF8;J3KPE3;H0Y8W2;D6RAC2;H0YAM7;D6REE5;D6RF23;H0Y9P0 P63244 GNB2L1 "Guanine nucleotide-binding protein subunit beta-2-like 1;Guanine nucleotide-binding protein subunit beta-2-like 1, N-terminally processed" 0 0 114.6 0.0072453 1430200 1803.2 1763.7 1678.3 1871.4 1890.4 1569.1 1809.2 1547.9 1533.9 1681.4 FALSE FALSE TRUE 1992.868849 1820.845037 1907.009984 1907.623653 1745.55796 1435.403852 1605.624054 1508.306959 1523.225465 1753.893383 1.136254272 1.038173161 1.087300974 1.087650864 0.995247475 0.818409982 0.915462747 0.859976424 0.868482361 1 10.77634534 -5.46451605 3.994842914 1.066615905 0.870874643 0.489800144 0.074452662 0.08929115 2.851546148 0.007923857 0.018061691 3.43E-06 5.46451605 -0.195741262 IWLS(ph)TETLANED ddPTM_HeLa_SAHA_4h_R1 1 IWLSTETLANED 12 0 Q9NXD2 Q9NXD2 MTMR10 Myotubularin-related protein 10 1 0 IWLS(0.927)T(0.072)ET(0.001)LANED 99.522 0.0068315 5779600 508.8 660.33 706.32 831.19 945.36 683.72 779.48 793.23 529.55 803.52 TRUE FALSE FALSE 562.3179185 681.7251253 802.5736112 847.2788844 872.926721 625.4632095 691.7708589 772.9403252 525.8648184 838.1636795 0.670892729 0.813355603 0.957538045 1.010875209 1.041475242 0.74623039 0.825341011 0.922183034 0.627401105 1 9.711088196 -6.769595103 24.92044288 0.837903397 0.915220485 0.165218766 0.127533136 426.580624 1303449.309 0.023996663 0.0318441 1.70E-07 6.769595103 0.077317088 IWLST(ph)ETLANED ddPTM_HeLa_SAHA_4h_R1 1 IWLSTETLANED 12 0 Q9NXD2 Q9NXD2 MTMR10 Myotubularin-related protein 10 1 0 IWLS(0.077)T(0.923)ETLANED 150.09 0.00065052 5295400 713.95 702.97 702 819.64 774.22 722.34 959.11 804.3 606.93 637.76 TRUE FALSE FALSE 789.0465367 725.7466892 797.6649041 835.5053174 714.8994309 660.7925682 851.1884186 783.7271706 602.7063247 665.2569547 1.186077847 1.090926873 1.199032792 1.255913691 1.074621506 0.99328923 1.279488193 1.17808189 0.905975233 1 9.377767877 -9.338848184 0.847014339 0.990304809 1.158023592 0.445924652 0.087102408 0.660955982 0.768569769 0.075098646 0.015753866 4.58E-10 9.338848184 0.167718783 IWSTVPT(ph)DEEDEMEESTNRPR ddPTM_HeLa_SAHA_4h_R1 1 IWSTVPTDEEDEMEESTNRPR 21 1 Q9GZL7 Q9GZL7 WDR12 Ribosome biogenesis protein WDR12 1 0 IWSTVPT(1)DEEDEMEESTNRPR 99.603 0.00033131 3391900 408.91 467.96 524.15 427.32 494.34 435.65 430.24 363.82 474.83 467.23 TRUE FALSE FALSE 451.9210299 483.122211 595.5784323 435.5913965 456.463776 398.5301691 381.8282629 354.5140112 471.5256194 487.3745719 0.92725607 0.991274964 1.222013758 0.893750765 0.936576921 0.81770817 0.783439032 0.727395379 0.967480961 1 8.928887172 -5.199138444 1.493176362 0.983879566 0.744854043 0.601789929 0.08269376 0.253925839 1.039945727 0.012960447 0.052389422 6.32E-06 5.199138444 -0.239025524 IWSTVPTDEEDEMEESTNRPR ddPTM_HeLa_SAHA_4h_R1 2 IWSTVPTDEEDEMEESTNRPR 21 1 Q9GZL7 Q9GZL7 WDR12 Ribosome biogenesis protein WDR12 0 0 ; ; 157.83 7.10E-07 10151400 1165.8 1325.17 1100.94 1187.79 1071.42 1687.19 1428.39 1587.07 1309.05 1432.85 FALSE FALSE TRUE 1288.424193 1368.106377 1250.97037 1210.781393 989.3280311 1543.43192 1267.663798 1546.475047 1299.940214 1494.627176 0.862037178 0.915349593 0.836978204 0.81008924 0.661922951 1.032653457 0.848147162 1.034689502 0.869742124 1 10.54556994 -9.176747482 0.762621008 1.006584961 0.869181865 0 0.109536282 1.013928017 0.986225495 0.085465646 0.020256364 6.66E-10 9.176747482 -0.137403096 IYANFFPYGDASK ddPTM_HeLa_SAHA_4h_R1 1 IYANFFPYGDASK 13 0 E9PC71;P37235;P84074 E9PC71 HPCAL1;HPCA Hippocalcin-like protein 1;Neuron-specific calcium-binding protein hippocalcin 0 0 138.94 0.0083543 0 0 121.2 0 0 104.6 136.31 0 0 82.178 0 FALSE FALSE TRUE 0 125.1269595 0 0 96.5855706 124.6956211 0 0 81.60611661 0 0 IYAS(ph)EEDD ddPTM_HeLa_SAHA_4h_R1 1 IYASEEDD 8 0 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 IYAS(1)EEDD 98.582 0.0093694 57531000 5199.7 5497.6 4498 4181.8 5797.5 5226.6 6138.1 4451.9 5237.3 4722.4 TRUE FALSE FALSE 5746.628303 5675.725847 5110.964015 4262.744786 5353.296802 4781.264276 5447.424833 4338.026844 5200.853203 4926.005775 1.166589843 1.152196345 1.037547305 0.865355215 1.086741885 0.970616864 1.105850274 0.880637791 1.05579519 1 12.2662026 -6.523371068 24.99993859 1.086784525 0.989685881 0.281361355 0.083526493 21.14627849 1073782.94 0.014476948 0.020584822 3.00E-07 6.523371068 -0.097098644 IYEFPET(ph)DDEEENKLVK ddPTM_HeLa_SAHA_4h_R1 1 IYEFPETDDEEENKLVK 17 1 G3V1Q4;E7ES33;E7EPK1;Q16181-2;Q16181 G3V1Q4 7-Sep Septin-7 1 0 IYEFPET(1)DDEEENKLVK 81.723 0.009661 10598000 867.53 824.89 908.5 641.5 1005.6 1169.5 967.76 868.04 1189.1 821.82 TRUE FALSE FALSE 958.7807858 851.6169772 1032.305649 653.9171601 928.5511452 1069.852021 858.8650978 845.8367937 1180.824956 857.2526821 1.118434279 0.993425853 1.204202297 0.762805616 1.083170884 1.248000785 1.001880911 0.98668317 1.377452624 1 9.743576703 -9.74881402 1.695397021 0.999979446 1.061918505 0 0.173860005 1.31397807 6.831071875 0.088930898 0.019179048 1.78E-10 9.74881402 0.061939059 IYGADDIELLPEAQHK ddPTM_HeLa_SAHA_4h_R1 1 IYGADDIELLPEAQHK 16 0 V9GZ78;V9GYY3;A0A384N5Y3;F5H2F4;P11586 V9GZ78 MTHFD1 "C-1-tetrahydrofolate synthase, cytoplasmic;Methylenetetrahydrofolate dehydrogenase;Methenyltetrahydrofolate cyclohydrolase;Formyltetrahydrofolate synthetase;C-1-tetrahydrofolate synthase, cytoplasmic, N-terminally processed" 0 0 67.648 0.015066 863240 467.01 728.36 555.59 568.25 663.96 789.54 513.5 543.85 909.02 526.71 FALSE FALSE TRUE 516.1322545 751.9593419 631.3029118 579.2493005 613.0875282 722.2667502 455.7196285 529.9391045 902.6940558 549.4190458 0.939414566 1.368644476 1.149037182 1.054294177 1.115883282 1.31460086 0.829457282 0.964544474 1.642997386 1 9.101763112 IYGISFPDPK ddPTM_HeLa_SAHA_4h_R1 2 IYGISFPDPK 10 0 P26639;P26639-2 P26639 TARS "Threonine--tRNA ligase, cytoplasmic" 0 0 ; ; 131.62 0.0013674 2979260 2145.83 1908.62 2075.43 2341.93 2066.6 2104.61 2798.41 1943.79 1301.03 1790.05 FALSE FALSE TRUE 2371.538245 1970.46054 2358.258792 2387.261442 1908.257554 1925.285388 2483.525542 1894.070666 1291.976026 1867.227816 1.270085109 1.055286625 1.262973255 1.278505719 1.021973612 1.031092924 1.330060275 1.014375777 0.691922012 1 10.86668224 -9.570601928 1.350562224 1.000037879 1.173647813 0.299745198 0.15356926 0.507979191 1.66146623 0.079941606 0.01875814 2.69E-10 9.570601928 0.173609934 IYHLPDAES(ph)DEDEDFK ddPTM_HeLa_SAHA_4h_R1 2 IYHLPDAESDEDEDFK 16 0 B5MCX3;Q15019;Q15019-3;Q15019-2;H7C2Y0 B5MCX3 2-Sep Septin-2 1 0 IYHLPDAES(1)DEDEDFK;IYHLPDAES(1)DEDEDFK ; 178.22 3.36E-09 9372600 3662.7 5699 3601.6 4817.8 5037.1 1689.99 4673.8 4295.5 7454.4 4276.5 TRUE FALSE FALSE 4047.959591 5883.651339 4092.407292 4911.055486 4651.158486 1545.993344 4147.891723 4185.62733 7402.524223 4460.880844 0.907435041 1.318943847 0.917398925 1.100916088 1.042654724 0.346566833 0.929836924 0.938296152 1.659431059 1 12.1231129 IYHLPDAES(ph)DEDEDFKEQTR ddPTM_HeLa_SAHA_4h_R1 8 IYHLPDAESDEDEDFKEQTR 20 1 B5MCX3;Q15019;Q15019-3;Q15019-2;H7C2Y0 B5MCX3 2-Sep Septin-2 1 0 IY(0.001)HLPDAES(0.999)DEDEDFKEQTR;IYHLPDAES(1)DEDEDFKEQTR;IYHLPDAES(1)DEDEDFKEQTR;IYHLPDAES(1)DEDEDFKEQTR;IYHLPDAES(1)DEDEDFKEQTR;IYHLPDAES(1)DEDEDFKEQTR;IY(0.001)HLPDAES(0.998)DEDEDFKEQT(0.001)R;IYHLPDAES(1)DEDEDFKEQTR ;;;;;;; 131.41 2.13E-05 4589621000 19449.5 21526.9 19419.3 20695.7 21255.5 6898.17 21887.2 19805.2 20895.2 20737.7 TRUE FALSE FALSE 21495.28765 22224.38568 22065.66107 21096.2952 19626.90818 6310.407108 19424.39465 19298.61166 20749.7886 21631.80373 0.993689103 1.027394015 1.020056457 0.975244388 0.907317227 0.291718952 0.897955385 0.89214066 0.959226002 1 14.40086635 -5.507832077 24.62517411 0.997690031 0.69520304 0.425840418 0.156869234 377.6864142 618115.688 0.021100858 0.04571412 3.11E-06 5.507832077 -0.302486991 IYIDSNNNPER ddPTM_HeLa_SAHA_4h_R1 1 IYIDSNNNPER 11 0 A0A087WVQ6;Q00610-2;Q00610 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 128.03 0.0015021 1154100 0 0 0 0 0 0 80.637 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 71.56351254 0 0 0 0 IYISLLK ddPTM_HeLa_SAHA_4h_R1 1 IYISLLK 7 0 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-8;O60716-9;O60716-17;O60716-7;O60716-4;O60716-6;A0A669KB62;O60716-11;O60716-13;O60716-19;O60716-21;O60716-20;O60716-22;O60716-23;O60716-14;O60716-24;O60716-16;O60716-15;O60716-12;O60716-25;O60716-26;O60716-27;O60716-29;O60716-32;O60716-28;O60716-31;O60716-30 O60716 CTNND1 Catenin delta-1 0 0 135.35 0.00031946 2103600 1231.4 1452.9 1704.3 1661.4 1568.8 1327.9 2024 931.75 986.96 1362.1 FALSE FALSE TRUE 1360.924302 1499.974913 1936.553128 1693.558799 1448.598883 1214.755449 1796.254193 907.9171842 980.091665 1420.826797 0.957839692 1.055705675 1.362976214 1.191953026 1.019546426 0.85496378 1.264231641 0.639006236 0.689803759 1 10.47251498 -2.903659925 10.46577653 1.018056878 0.731599605 0 0.222083746 0 0 0.024437317 0 0.001248361 2.903659925 -0.286457274 IYLTADNLVLNLQDESFTR ddPTM_HeLa_SAHA_4h_R1 1 IYLTADNLVLNLQDESFTR 19 0 J3KPX7;Q99623;Q99623-2 J3KPX7 PHB2 Prohibitin-2 0 0 146.84 0.00049364 17044000 568.36 607.54 643.4 580.32 691.46 791.27 686.49 720.15 882.57 559.98 FALSE FALSE TRUE 628.1427125 627.2246946 731.0792013 591.5529328 638.4804842 723.8493444 609.2443385 701.7296058 876.4281235 584.1234783 1.075359467 1.073787851 1.251583318 1.012718979 1.093057389 1.239206044 1.043006079 1.201337785 1.500415847 1 9.190129563 -8.094813591 0.38852816 0.987269164 1.144693249 0 0.174426385 1.074522148 0.402091208 0.069295449 0.036251088 8.04E-09 8.094813591 0.157424085 IYLYLTK ddPTM_HeLa_SAHA_4h_R1 2 IYLYLTK 7 0 P41250 P41250 GARS Glycine--tRNA ligase 0 0 ; ; 119.89 0.0044498 2936400 2087.98 1947.63 5570 2717.5 3047.9 1117.04 3827.6 986.46 632.52 1010.78 FALSE FALSE TRUE 2307.603316 2010.73449 6329.050593 2770.101142 2814.37056 1021.861908 3396.908374 961.2277816 628.1182418 1054.359672 2.188630101 1.907066955 6.002743426 2.627282904 2.669269922 0.969177724 3.221773806 0.911669715 0.595734319 1 10.04215138 -4.836359353 19.61327233 2.038055465 2.073849471 0 1.532089762 365.5628729 95608.65787 0.218972018 0.65692257 1.46E-05 4.836359353 0.035794006 IYNISGNGS(ph)PLADSK ddPTM_HeLa_SAHA_4h_R1 1 IYNISGNGSPLADSK 15 0 Q53HL2 Q53HL2 CDCA8 Borealin 1 0 IYNISGNGS(0.846)PLADS(0.154)K 226.22 1.36E-24 20287000 1840.2 1966.3 1266.2 1812.8 1996 1984.4 1677.2 1874 2073.1 1575.4 TRUE FALSE FALSE 2033.760679 2030.00941 1438.751142 1847.889365 1843.066911 1815.317956 1488.477042 1826.065794 2058.673128 1643.323204 1.237590192 1.235307458 0.875513191 1.124483219 1.121548644 1.104662766 0.905772546 1.111203073 1.252749991 1 10.68240054 -6.794020778 24.9998315 1.124563589 1.044818528 0.216494561 0.111896151 376.8559922 289161.5654 0.020090009 0.02640451 1.61E-07 6.794020778 -0.079745061 IYNISGNGSPLADS(ph)K ddPTM_HeLa_SAHA_4h_R1 2 IYNISGNGSPLADSK 15 0 Q53HL2 Q53HL2 CDCA8 Borealin 1 0 IYNIS(0.002)GNGS(0.33)PLADS(0.668)K;IYNIS(0.002)GNGS(0.495)PLADS(0.503)K ; 145.46 9.66E-05 36643000 3332.4 3088.1 2583.41 3254 3945.2 3730 3785.5 2616.46 4693.3 3632 TRUE FALSE FALSE 3682.917122 3188.156466 2935.463661 3316.985875 3642.919628 3412.183016 3359.545577 2549.534742 4660.638943 3788.593295 0.972106752 0.841514572 0.774816253 0.875519122 0.961549405 0.900646427 0.886752764 0.672950233 1.230176633 1 11.88744656 -1.000000001 0.108872026 1.08206101 0.194415451 0.464374129 0.103002328 77.31722701 0.59104842 0.497403282 10.34745184 0.1 1.000000001 -0.88764556 IYPTFLHLHGK ddPTM_HeLa_SAHA_4h_R1 2 IYPTFLHLHGK 11 0 Q08945;E9PMD4 Q08945 SSRP1 FACT complex subunit SSRP1 0 0 ; ; 69.276 0.017126 2800800 2619.8 2697.8 3275.1 3601.5 3601 499.16 4157 1045.73 2103.5 2909.9 FALSE FALSE TRUE 2895.362584 2785.21049 3721.413572 3671.21224 3325.092158 456.6287598 3689.243419 1018.981741 2088.861572 3035.36003 0.953877812 0.917588182 1.226020484 1.209481644 1.095452311 0.150436441 1.21542202 0.335703749 0.688175884 1 11.56765193 IYQY(ph)IQSR ddPTM_HeLa_SAHA_4h_R1 3 IYQYIQSR 8 0 A0A2R8Y443;A0A2R8YDF3;A0A2R8Y6L5;A0A2R8Y6I6;Q13627-4;Q13627-3;Q13627-5;Q9Y463-2;Q9Y463-3;Q9Y463;Q13627-2;Q13627 A0A2R8Y443 DYRK1A;DYRK1B Dual specificity tyrosine-phosphorylation-regulated kinase 1A;Dual specificity tyrosine-phosphorylation-regulated kinase 1B 1 0 IYQY(1)IQSR;IYQY(1)IQSR;IYQY(1)IQSR ;; 145.16 0.0010671 253679000 4360.4 4309.1 4423.92 4756.4 4799.7 5382.8 4632.2 4804.4 5320.8 4277.2 TRUE FALSE FALSE 4819.046878 4448.717667 5026.788779 4848.467 4431.948023 4924.155157 4110.972665 4681.510405 5283.77212 4461.611024 1.08011363 0.997110157 1.126675712 1.086707688 0.993351504 1.103671999 0.921409922 1.049286991 1.18427449 1 12.12334903 -4.764971636 24.99999982 1.045865025 0.985348468 0.122804084 0.068764002 109.9011676 777868.4561 0.007404838 0.02359813 1.72E-05 4.764971636 -0.060516557 IYSFNS(ph)TNDSSGPANLDK ddPTM_HeLa_SAHA_4h_R1 1 IYSFNSTNDSSGPANLDK 18 0 A0A087WYN9;Q7Z478 A0A087WYN9 DHX29 ATP-dependent RNA helicase DHX29 1 0 IYS(0.001)FNS(0.959)T(0.039)NDS(0.001)SGPANLDK 148.19 0.000102 4402600 502.79 629.06 514.46 143.33 514.44 865.54 590.78 189.81 217.01 579.72 TRUE FALSE FALSE 555.6757591 649.4419567 584.5679296 146.1043594 475.0237183 791.7911226 524.3038796 184.954935 215.4998097 604.7145663 0.918905861 1.073964467 0.966684056 0.241608798 0.785533779 1.309363403 0.867027039 0.305854936 0.356366163 1 9.240110521 -6.455908982 24.99987451 0.971500418 0.734919086 0.000812947 0.342040812 287.822362 107443.9256 0.043552664 0.066527773 3.50E-07 6.455908982 -0.236581332 IYSS(ph)DSDEGSEEDKAQR ddPTM_HeLa_SAHA_4h_R1 1 IYSSDSDEGSEEDKAQR 17 1 Q8WVC0-2;Q8WVC0 Q8WVC0-2 LEO1 RNA polymerase-associated protein LEO1 1 0 IYS(0.065)S(0.927)DS(0.008)DEGSEEDKAQR 132.5 6.87E-05 3897100 560.73 552.65 575.07 701.75 806.5 882.31 904.79 627.56 555.14 687.68 TRUE FALSE FALSE 619.7101541 570.5562226 653.4375448 715.333386 744.7061442 807.1322243 802.9806479 611.5079239 551.2767355 717.3292502 0.863913125 0.795389596 0.91093113 0.997217646 1.038165032 1.125190732 1.119403186 0.852478724 0.768512835 1 9.48649165 -6.054263054 3.139539605 0.91986679 1.045429711 0.338811201 0.098620448 0.264987797 5.195050268 0.014603877 0.026148796 8.83E-07 6.054263054 0.125562921 IYVDDGLISLQVK ddPTM_HeLa_SAHA_4h_R1 3 IYVDDGLISLQVK 13 0 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BQ34 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;; ;; 258.92 1.67E-41 318494580 2813.53 2668.59 2283.56 2993.4 2796.25 2749.5 2596.35 2856.69 3023.79 2193.87 FALSE FALSE TRUE 3109.469994 2755.054067 2594.751665 3051.341586 2582.001929 2515.227132 2304.201865 2783.620006 3002.747199 2288.458472 1.358761818 1.203890785 1.133842583 1.333361135 1.128271262 1.09909232 1.006879475 1.216373397 1.312126585 1 11.1601604 -5.535190862 24.94915311 1.185407236 1.100106511 0.14108691 0.112954263 491.6478141 996268.9395 0.021253951 0.042532826 2.92E-06 5.535190862 -0.085300725 IYVISLAEPR ddPTM_HeLa_SAHA_4h_R1 2 IYVISLAEPR 10 0 P14868-2;P14868;C9J7S3;C9JLC1;C9JQM9 P14868-2 DARS "Aspartate--tRNA ligase, cytoplasmic" 0 0 ; ; 123.98 0.0037595 791230 241.325 237.287 170.25 375.08 192.48 257.489 239.271 137.52 69.46 413.15 FALSE FALSE TRUE 266.7086707 244.9752545 193.4507834 382.3402158 177.732224 235.5494886 212.3475974 134.0024375 68.9766222 430.9629184 0.618866866 0.568436968 0.448880345 0.887176598 0.412407231 0.546565559 0.492728233 0.31093728 0.160052337 1 8.75141993 -13.52287874 0.128645305 2.659373782 0.316432865 0 0.295829688 34.45336958 0.315136054 14.57109635 0.479881319 3.00E-14 13.52287874 -2.342940917 IYVLLR ddPTM_HeLa_SAHA_4h_R1 1 IYVLLR 6 0 P84090 P84090 ERH Enhancer of rudimentary homolog 0 0 118.11 0.0062362 10104000 1785.1 2325.9 3807.3 3223.5 3435.9 1042.3 3337.9 402.87 608.09 1366.3 FALSE FALSE TRUE 1972.865008 2401.260686 4326.139016 3285.895504 3172.642084 953.4901762 2962.310707 392.5651687 603.8582522 1425.20788 1.384264735 1.684849432 3.035444217 2.305555246 2.226090755 0.669018316 2.078511317 0.275444147 0.423698368 1 10.47695665 -5.233190085 24.89818463 1.513431549 1.114743494 0.097521561 0.823468731 2045.514176 1802859.719 0.118721571 0.302621325 5.85E-06 5.233190085 -0.398688055 IYVLLRR ddPTM_HeLa_SAHA_4h_R1 2 IYVLLRR 7 1 P84090 P84090 ERH Enhancer of rudimentary homolog 0 0 ; ; 120.06 0.00094656 3307400 938.7 613.41 4918.4 2488.3 1291.02 379.43 1959.72 241.017 97.16 502.79 FALSE FALSE TRUE 1037.436773 633.2848865 5588.653938 2536.464645 1192.102327 347.1004294 1739.207148 234.8521341 96.48385565 524.4677375 1.978075483 1.207481111 10.65585838 4.836264394 2.272975516 0.661814645 3.316137531 0.447791384 0.183965283 1 9.034710218 -4.240529229 21.75249719 2.384855669 0.447780422 0.03367075 2.942464807 2609.387364 2714241.665 0.416789227 18.68213858 5.75E-05 4.240529229 -1.937075247 IYWGTATTGKPHVAYFVPMSK ddPTM_HeLa_SAHA_4h_R1 1 IYWGTATTGKPHVAYFVPMSK 21 1 P54577;A0A0C4DGZ5 P54577 YARS "Tyrosine--tRNA ligase, cytoplasmic;Tyrosine--tRNA ligase, cytoplasmic, N-terminally processed;Tyrosine--tRNA ligase" 0 0 42.711 0.020476 1767400 724.46 793.36 726.88 974.85 902.53 865.14 943.6 456.34 929.66 818.5 FALSE FALSE TRUE 800.6620267 819.0653845 825.935421 993.7196314 833.3783464 791.4252049 837.4236446 444.6674836 923.1904204 853.7895406 0.937774462 0.959329373 0.967375895 1.163892955 0.976093413 0.926955845 0.980831463 0.52081627 1.081285699 1 9.737736679 -4.261366982 23.00072205 0.979950422 0.520815907 0.803095133 0.070492493 0.577225037 182141.3304 0.008884437 0.06847293 5.48E-05 4.261366982 -0.459134515 K(ac)AINK(ac)AQK ddPTM_HeLa_SAHA_4h_R1 1 KAINKAQK 8 2 Q99879 Q99879 HIST1H2BM Histone H2B type 1-M 0 2 K(1)AINK(1)AQK 93.374 0.0048977 0 1792.4 1975.2 2939.5 3356.7 4228.5 2781.1 4264.1 2558.5 1022 1548.3 FALSE TRUE FALSE 1980.932856 2039.197776 3340.079752 3421.673782 3904.513244 2544.134634 3784.292246 2493.057275 1014.887819 1615.05479 1.2265422 1.262618326 2.068090675 2.118611581 2.417573241 1.575262121 2.34313552 1.543636346 0.628392191 1 10.65736739 -6.820461082 4.152981259 1.113380555 2.032593151 0.7035206 0.311197877 0.078956516 2.760349594 0.041332913 0.055770613 1.51E-07 6.820461082 0.919212596 K(ac)AVTK(ac)AQK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 KAVTKAQKK 9 3 O60814;P57053;P58876;P62807;Q16778;Q8N257;Q93079;U3KQK0;Q99877;Q99880 O60814;P58876;P62807;Q16778;Q8N257;Q93079;U3KQK0;Q99880 HIST1H2BK;H2BFS;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-L 0 3 ; K(1)AVTK(1)AQK(1)K;K(1)AVTK(1)AQK(1)K 133.75 0.00057827 97125000 4410.1 4103.9 8827.3 9081.2 8043.7 2579.4 7079.2 1581.57 379.98 2164.2 FALSE TRUE FALSE 4873.974552 4236.869053 10030.23847 9256.979758 7427.393444 2359.620609 6282.629785 1541.115729 377.3356882 2257.509253 2.159005349 1.87678923 4.443055309 4.100527935 3.290083278 1.045231866 2.78299182 0.682661977 0.167146907 1 11.14051619 -4.239548016 21.54811596 2.087230303 0.682652181 0.099007441 1.324318978 1582.595618 1557613.46 0.188720485 9.130521426 5.76E-05 4.239548016 -1.404578122 K(ac)AVTK(ac)VQKK ddPTM_HeLa_SAHA_4h_R1 1 KAVTKVQKK 9 3 Q5QNW6;Q5QNW6-2 Q5QNW6 HIST2H2BF Histone H2B type 2-F 0 2 K(1)AVTK(1)VQKK 93.258 0.015182 0 1751.8 1305.4 3172.7 3478.6 3579.3 2376.5 3440.6 2358.4 234.88 1046.9 FALSE TRUE FALSE 1936.062362 1347.695817 3605.059033 3545.933333 3305.054807 2174.00883 3053.454633 2298.075543 233.245451 1092.036982 1.772890839 1.234111883 3.30122431 3.247081729 3.026504469 1.990783156 2.796109181 2.104393514 0.213587502 1 10.092806 -6.772387421 24.99992776 1.365359153 2.748125806 0.664307529 0.571489807 98.06925175 223941.4506 0.080404527 0.106240205 1.69E-07 6.772387421 1.382766653 PEPSK(ac)SAPAPK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 PEPSKSAPAPKK 12 2 P33778;U3KQK0;Q99877 P33778;U3KQK0 HIST1H2BB;HIST1H2BN Histone H2B type 1-B;Histone H2B;Histone H2B type 1-N 0 2 ; PEPSK(1)SAPAPK(1)K;PEPSK(1)SAPAPK(1)K 211.63 1.43E-31 4293600 389.2 677.42 790.74 2783.7 3734.6 3805.9 3900.8 3541.8 399.13 458.49 FALSE TRUE FALSE 430.1378417 699.3688525 898.4979292 2837.582539 3448.455755 3481.615909 3461.871718 3451.205884 396.3524218 478.2577477 0.899384994 1.462326237 1.878689752 5.933165856 7.210454554 7.279789873 7.238506296 7.216204863 0.828742292 1 8.90164453 -6.233263848 2.198191586 0.983258442 7.263073562 0.99677576 0.165697364 0.011884473 0.112232794 0.02745394 0.047883174 5.84E-07 6.233263848 6.27981512 up K(ac)DLEK(ac)AK(ac)LDISAIK ddPTM_HeLa_SAHA_4h_R1 1 KDLEKAKLDISAIK 14 3 H3BUD4;A0A0A0MT40;Q15111-2;Q15111 H3BUD4 PLCL1 Phosphoinositide phospholipase C;Inactive phospholipase C-like protein 1 0 3 K(1)DLEK(1)AK(1)LDISAIK 54.023 0.015499 0 129.15 251.22 242.2 347.58 352.34 290.99 373.32 229.57 142.36 0 FALSE TRUE FALSE 142.7345896 259.3596928 275.2057547 354.3079135 325.3437853 266.1960149 331.3130511 223.6979318 141.3693052 0 0 K(ac)FAETQPK ddPTM_HeLa_SAHA_4h_R1 2 KFAETQPK 8 1 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 0 1 ; K(1)FAETQPK;K(1)FAETQPK 105.1 0.0033002 10530000 2836.5 9071.5 3428.3 5298.3 6971.2 6749 8410.8 6487.3 5879.4 2445 FALSE TRUE FALSE 3134.856084 9365.422552 3895.49087 5400.856258 6437.068162 6173.947231 7464.394648 6321.364259 5838.484777 2550.415916 1.229154847 3.672115789 1.527394354 2.117637451 2.523928792 2.420760941 2.926736225 2.478562113 2.289228491 1 11.31651682 -7.425463901 10.06744105 1.100854472 2.481404445 0.29208206 0.63926918 0.210482755 20.61074668 0.083448669 0.095307194 3.75E-08 7.425463901 1.380549973 K(ac)FDQLLAEEK ddPTM_HeLa_SAHA_4h_R1 2 KFDQLLAEEK 10 1 P35579;P35579-2;Q7Z406-2;Q7Z406;Q7Z406-6;A0A0C4DFM8;A1L2Z2;P35749-4;P35749-3;P35749;P35749-2;P35580;P35580-5;P35580-2;P35580-3;P35580-4 P35579;P35749-4;P35580 MYH9;MYH14;MYH11;MYH10 Myosin-9;Myosin-14;Myosin-11;Myosin-10 0 1 ; K(1)FDQLLAEEK;K(1)FDQLLAEEK 143.97 2.61E-05 5263700 767.54 2959.8 1516.98 1853.84 2404.82 1129.76 2878.21 1473.98 1126.95 805.61 FALSE TRUE FALSE 848.2733788 3055.699462 1723.706134 1889.723754 2220.563211 1033.498092 2554.346236 1436.277726 1119.107463 840.3437897 1.009436125 3.636249235 2.051191614 2.248750782 2.642446149 1.229851526 3.03964433 1.709154924 1.33172575 1 9.714835854 -7.374519727 16.3478729 1.004177607 2.341672034 0.44275763 0.639539241 1.008977609 142.2759397 0.09714043 0.111075547 4.22E-08 7.374519727 1.337494426 K(ac)FGDPVVQSDMK ddPTM_HeLa_SAHA_4h_R1 2 KFGDPVVQSDMK 12 1 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 0 1 ; K(1)FGDPVVQSDMK;K(1)FGDPVVQSDMK 146.5 3.84E-05 4742900 1384.33 4625.4 1814.65 2050.86 3841.8 3578.4 3966.1 2856.9 2560.4 1340.53 FALSE TRUE FALSE 1529.940181 4775.265995 2061.941052 2090.557361 3547.442114 3273.500188 3519.82399 2783.824635 2542.581968 1398.326809 1.09412204 3.414985657 1.474577358 1.495042037 2.536919189 2.34101225 2.517168353 1.990825476 1.818303098 1 10.44948586 -7.469614565 24.98526892 1.041524033 2.220908279 0.332568037 0.580501367 174.2234784 81725.50357 0.085847769 0.09809097 3.39E-08 7.469614565 1.179384246 KPAPAGEPVNSSK(ac)WK ddPTM_HeLa_SAHA_4h_R1 2 KPAPAGEPVNSSKWK 15 2 Q8TEK3-1;Q8TEK3;H7C2S2 Q8TEK3-1 DOT1L "Histone-lysine N-methyltransferase, H3 lysine-79 specific" 0 1 ; KPAPAGEPVNSSK(1)WK;KPAPAGEPVNSSK(1)WK 172.09 3.31E-11 3497400 724.61 792.54 1145.83 2147.49 2116.87 2915 2772.73 2890.4 882.13 512.1 FALSE TRUE FALSE 800.8278044 818.218816 1301.977745 2189.057774 1954.675878 2666.625601 2460.735123 2816.467753 875.9911855 534.1791372 1.499174619 1.531731135 2.437342934 4.097984406 3.659214189 4.992006268 4.606572874 5.272515449 1.639882812 1 9.061179821 -6.223329859 0.835120644 1.159323594 5.028617755 0.944673212 0.363439398 0.077229121 0.105871758 0.061384368 0.146079645 5.98E-07 6.223329859 3.869294161 up K(ac)FGTINIVHPK ddPTM_HeLa_SAHA_4h_R1 1 KFGTINIVHPK 11 1 Q9Y617;Q9Y617-2 Q9Y617 PSAT1 Phosphoserine aminotransferase 0 1 K(1)FGTINIVHPK 83.182 0.012188 1422100 894.07 1850.6 1404.9 1393.4 2446.3 2410.1 2191.5 1227 2017.3 770.33 FALSE TRUE FALSE 988.1123847 1910.560654 1596.352456 1420.371272 2258.865022 2204.745921 1944.906652 1195.615117 2003.261445 803.5426962 1.229694936 2.377671608 1.986642979 1.767636342 2.811132542 2.743781919 2.420414822 1.487929792 2.493036717 1 9.650230873 -7.314622007 4.728706856 1.100876398 2.251782425 0.061750367 0.587063889 0.097023018 4.691663626 0.06892034 0.079227355 4.85E-08 7.314622007 1.150906027 K(ac)FIEDR ddPTM_HeLa_SAHA_4h_R1 1 KFIEDR 6 1 P40227;P40227-2;Q92526-3;Q92526;J3KRI6;Q92526-2 P40227 CCT6A;CCT6B T-complex protein 1 subunit zeta;T-complex protein 1 subunit zeta-2 0 1 K(1)FIEDR 81.635 0.020211 2290500 960.95 2745.4 1313.4 1713.3 2814.8 2761.8 2982 2132 2425.5 886.87 FALSE TRUE FALSE 1062.02713 2834.352761 1492.383312 1746.463399 2599.130632 2526.479103 2646.457512 2077.466527 2408.620748 925.1073059 1.148004262 3.063809726 1.613200223 1.887849537 2.809545028 2.731011945 2.860703288 2.245649249 2.603612286 1 9.853476908 -7.317642059 8.971457074 1.068655736 2.443342312 0.162323913 0.646499322 0.175631839 26.97610026 0.073989527 0.084559944 4.81E-08 7.317642059 1.374686576 K(ac)FLDGIYVSEK ddPTM_HeLa_SAHA_4h_R1 1 KFLDGIYVSEK 11 1 H0Y9V9;D6RAN4;A0A2R8Y5Y7;P32969;H0Y9R4 H0Y9V9 RPL9 60S ribosomal protein L9 0 1 K(1)FLDGIYVSEK 96.82 0.0073573 487040 210.51 933.1 313.71 504.15 933.63 773.86 673.87 507.63 643.04 329.36 FALSE TRUE FALSE 232.6524077 963.3330522 356.4607651 513.9085523 862.0954711 707.9227744 598.0443741 494.6455596 638.5650323 343.5603214 0.677180667 2.803970634 1.037549283 1.495832086 2.509298709 2.060548702 1.740725971 1.439763351 1.858669329 1 8.424419616 -7.297874126 24.99421232 0.847557452 1.850270267 0.163731848 0.585606753 351.7721672 241314.624 0.081647869 0.093369395 5.04E-08 7.297874126 1.002712815 K(ac)FLPLFDR ddPTM_HeLa_SAHA_4h_R1 2 KFLPLFDR 8 1 P61604;B8ZZL8;S4R3N1 P61604 HSPE1;HSPE1-MOB4 "10 kDa heat shock protein, mitochondrial" 0 1 ; K(1)FLPLFDR;K(1)FLPLFDR 110.41 0.0022416 10065300 1279.02 2381 2200.4 1655.63 2598.2 1210.31 3226.9 951.2 661.51 1108.51 FALSE TRUE FALSE 1413.553192 2458.145962 2500.259053 1687.677113 2399.126477 1107.184779 2863.800719 926.8696813 656.9064981 1156.303291 1.222476147 2.125866095 2.162286549 1.459545368 2.074824569 0.957521083 2.476686473 0.801580077 0.568109166 1 10.17530414 -7.429641903 5.875362103 1.096384663 1.74196026 0.304854325 0.533311863 0.21404395 10.79472602 0.078477112 0.088997398 3.72E-08 7.429641903 0.645575597 K(ac)FVADGIFK ddPTM_HeLa_SAHA_4h_R1 2 KFVADGIFK 9 1 E9PPU1;P23396;F2Z2S8;H0YCJ7;E9PL09;P23396-2;E9PQ96;E9PJH4;E9PK82;E9PQX2 E9PPU1 RPS3 40S ribosomal protein S3 0 1 ; K(1)FVADGIFK;K(1)FVADGIFK 102.06 0.0032141 1028030 1286.16 1864.6 1882.47 1625.16 2503.9 918.54 2855 880.73 618.63 625.44 FALSE TRUE FALSE 1421.44421 1925.014263 2139.003208 1656.617322 2312.051723 840.2752244 2533.747886 858.2022019 614.3249035 652.4057792 2.178773173 2.950639502 3.278639271 2.539243787 3.543886024 1.287964103 3.883699328 1.315442366 0.941630076 1 9.349625752 -8.332766962 0.786862401 1.118786628 2.714912011 0.39104895 0.819796333 0.39586986 0.520722188 0.295253969 0.168359353 4.65E-09 8.332766962 1.596125383 K(ac)GATPGKALVATPGK ddPTM_HeLa_SAHA_4h_R1 1 KGATPGKALVATPGK 15 2 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 K(0.58)GATPGK(0.42)ALVATPGK 143.38 4.15E-05 11161000 5604.8 5467.3 5348.8 7019.5 7668.9 8988.6 9023.3 8306.5 5497.2 4915.7 FALSE TRUE FALSE 6194.33858 5644.444107 6077.706609 7155.372573 7081.310539 8222.720712 8007.974536 8094.031758 5458.944538 5127.639884 1.208029175 1.100787933 1.185283434 1.395451462 1.381007773 1.603607293 1.561727172 1.57851018 1.064611529 1 12.32407923 -5.481049124 0.342991133 1.032767241 1.816405671 0.907227837 0.065326752 0.718807604 0.110062679 0.032741654 0.213202116 3.30E-06 5.481049124 0.78363843 TAAAASEK(ac)NR ddPTM_HeLa_SAHA_4h_R1 2 TAAAASEKNR 10 1 K7EN09;Q9UNZ5 K7EN09 C19orf53 Leydig cell tumor 10 kDa protein homolog 0 1 ; TAAAASEK(1)NR;TAAAASEK(1)NR 145.9 4.37E-05 3211500 540.118 650.49 523.84 1104.62 1418.02 1277.02 1759.77 1028.78 309.08 427.9 FALSE TRUE FALSE 596.9300894 671.5663028 595.2261872 1126.001517 1309.371614 1168.210712 1561.756048 1002.465297 306.9290871 446.3488631 1.337362182 1.504577156 1.333544759 2.522693818 2.933516185 2.617259297 3.498958275 2.245923268 0.687643932 1 8.802027941 -6.222713707 2.326161108 1.188954276 2.866413447 0.834431965 0.356447009 0.076159426 0.806908917 0.048353773 0.084050482 5.99E-07 6.222713707 1.677459171 up AAFK(ac)SGK ddPTM_HeLa_SAHA_4h_R1 2 AAFKSGK 7 1 A0A1W2PQJ7;Q7Z5J4-3;Q7Z5J4-2;Q7Z5J4 A0A1W2PQJ7 RAI1 Retinoic acid-induced protein 1 0 1 ; AAFK(1)SGK;AAFK(1)SGK 106.04 0.0098944 8973700 2139.2 2896.6 3998.6 12630.2 14314.2 13496.9 22525 14117.7 2276.63 2029.8 FALSE TRUE FALSE 2364.210871 2990.451741 4543.508384 12874.67578 13217.44909 12346.88819 19990.42772 13756.58968 2260.786746 2117.314612 1.116608206 1.412379494 2.145882506 6.080662606 6.242553193 5.831390442 9.441406397 6.497187334 1.067761368 1 11.04801994 -6.218111906 1.452368032 1.030979572 7.31182141 0.900583344 0.916730967 0.077071608 0.318725763 0.141588431 0.270426212 6.05E-07 6.218111906 6.280841839 up (ac)PEPTK(ac)SAPAPK ddPTM_HeLa_SAHA_4h_R1 1 PEPTKSAPAPK 11 1 P58876 P58876 HIST1H2BD Histone H2B type 1-D 0 1 PEPTK(1)SAPAPK 45.161 0.017008 900550 553.41 644.84 737.7 1617.7 1853.8 2067.1 2283.3 2159.3 486.6 435.92 FALSE TRUE FALSE 611.6202029 665.7332391 838.2299142 1649.012923 1711.762244 1890.971451 2026.377075 2104.068233 483.213711 454.7146445 1.34506379 1.464068173 1.843419657 3.626478589 3.764475732 4.15858929 4.456370823 4.627227774 1.062674618 1 8.828817658 -6.204404807 1.135329542 1.140499123 4.442727385 0.980849735 0.198492785 0.043566794 0.110857272 0.03614227 0.075587434 6.25E-07 6.204404807 3.302228262 up K(ac)ISSIQSIVPALEIANAHR ddPTM_HeLa_SAHA_4h_R1 1 KISSIQSIVPALEIANAHR 19 1 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 1 K(1)ISSIQSIVPALEIANAHR 90.442 0.002845 753250 242.4 144.6 126.63 70.021 209.9 197.4 235.72 150.09 229.91 137.35 FALSE TRUE FALSE 267.8967442 149.2851349 143.8864769 71.37635771 193.8175073 180.5804095 209.1961652 146.2509151 228.3100376 143.2718307 1.869849383 1.041971295 1.004290071 0.498188355 1.352795636 1.260404146 1.460134656 1.020793232 1.593544499 1 7.162611172 K(ac)KFQGIKHECQANGPEDLNR ddPTM_HeLa_SAHA_4h_R1 1 KKFQGIKHECQANGPEDLNR 20 3 P60981;P60981-2 P60981 DSTN Destrin 0 1 K(0.45)K(0.45)FQGIK(0.1)HECQANGPEDLNR 69.975 0.0035285 9390100 4189.9 2223 4033.4 2995.6 3553.8 2412.3 3607.2 2822.4 1067.7 3458 FALSE TRUE FALSE 4630.612906 2295.026659 4583.050747 3053.58417 3281.508612 2206.758469 3201.308362 2750.207095 1060.269789 3607.091303 1.283752619 0.636254108 1.270566881 0.846550285 0.909738162 0.611783369 0.887504112 0.762444547 0.29394038 1 11.81662023 -6.090998608 0.983974322 1.11375908 0.761463353 0 0.320868356 0.443361504 0.844102049 0.03429654 0.082805442 8.11E-07 6.090998608 -0.352295727 K(ac)KGAKLTPEEEEILNK ddPTM_HeLa_SAHA_4h_R1 2 KKGAKLTPEEEEILNK 16 3 P62241;Q5JR95 P62241 RPS8 40S ribosomal protein S8 0 1 ; K(0.333)K(0.333)GAK(0.333)LTPEEEEILNK;K(0.333)K(0.333)GAK(0.333)LTPEEEEILNK 68.513 0.0085792 10472700 13820.4 10653 12597.7 11857.6 12943.6 12975.1 14053.5 13781.5 9888.9 10973.4 FALSE TRUE FALSE 15274.09308 10998.16419 14314.44895 12087.12099 11951.86416 11869.54848 12472.16319 13428.98919 9820.08234 11446.51698 1.334387842 0.960830636 1.250550624 1.055964973 1.044148555 1.036957225 1.089603346 1.173194362 0.857910084 1 13.48262105 K(ac)LAAAEGLEPK ddPTM_HeLa_SAHA_4h_R1 1 KLAAAEGLEPK 11 1 P41236;Q6NXS1 P41236 PPP1R2;PPP1R2P3 Protein phosphatase inhibitor 2;Protein phosphatase inhibitor 2-like protein 3 0 1 K(1)LAAAEGLEPK 105.2 0.00083969 0 0 203.28 0 238.3 75.827 158.47 183.46 0 147.85 0 FALSE TRUE FALSE 0 209.8664054 0 242.9126411 70.01715164 144.9674645 162.816598 0 146.8210998 0 0 K(ac)LAVNMVPFPR ddPTM_HeLa_SAHA_4h_R1 3 KLAVNMVPFPR 11 1 P68371;Q3ZCM7;A0A075B736;Q5SQY0;A6NNZ2;CON__ENSEMBL:ENSBTAP00000025008;Q9H4B7;A0A0B4J269;Q13509;Q13509-2;P04350;P07437;Q5JP53;Q5ST81;Q9BVA1;Q13885;K7ESM5;Q9BUF5 P68371;A0A0B4J269;P04350;P07437;Q9BVA1;K7ESM5 TUBB4B;TUBB8;TUBB1;TUBB3;TUBB4A;TUBB;TUBB2B;TUBB2A;TUBB6 Tubulin beta-4B chain;Tubulin beta-8 chain;Tubulin beta-8 chain-like protein LOC260334;Tubulin beta-1 chain;Tubulin beta-3 chain;Tubulin beta-4A chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain;Tubulin beta-6 chain 0 1 ;; K(1)LAVNMVPFPR;K(1)LAVNMVPFPR;K(1)LAVNMVPFPR 182.76 6.88E-17 4917760 1446.64 3175.15 2728.46 2451.96 3538.77 1649.67 3321.43 1282.91 656.1 1052.844 FALSE TRUE FALSE 1598.804233 3278.026943 3100.28032 2499.421231 3267.630207 1509.108835 2947.693955 1250.09502 651.5341467 1098.237257 1.455791289 2.984807628 2.822960429 2.275848151 2.975340879 1.37411914 2.684022906 1.138274095 0.593254456 1 10.10097404 -7.441874853 5.244588872 1.195674217 2.341608914 0.471737399 0.629584038 0.147880363 6.792861636 0.100344431 0.113240917 3.62E-08 7.441874853 1.145934698 K(ac)LDEAVAEAHLGK ddPTM_HeLa_SAHA_4h_R1 1 KLDEAVAEAHLGK 13 1 P23526-2;P23526 P23526-2 AHCY Adenosylhomocysteinase 0 1 K(1)LDEAVAEAHLGK 112.02 0.001251 1721300 1063.3 2918.1 1344.8 1459.7 2616 2290.1 2748.7 1813.4 2245.4 989.35 FALSE TRUE FALSE 1175.142773 3012.648355 1528.062341 1487.954604 2415.562645 2094.970596 2439.409042 1767.015854 2229.774079 1032.00572 1.138697925 2.919216721 1.480672355 1.441808485 2.340648504 2.029999016 2.363755349 1.712215174 2.160621821 1 10.01123525 -7.464983042 18.23548434 1.061185357 2.020718212 0.109605648 0.544231558 8.171275075 2573.648111 0.068008718 0.077688296 3.43E-08 7.464983042 0.959532855 K(ac)LDPGSEETQTLVR ddPTM_HeLa_SAHA_4h_R1 2 KLDPGSEETQTLVR 14 1 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 0 1 ; K(1)LDPGSEETQTLVR;K(1)LDPGSEETQTLVR 194.3 1.27E-23 8932700 913.75 2619 1098.49 1201.84 1946.32 1971.78 2358.12 1360.59 1511.41 654.49 FALSE TRUE FALSE 1009.862417 2703.857318 1248.186497 1225.103351 1797.193382 1803.773251 2092.778131 1325.788078 1500.891975 682.7082669 1.479200511 3.96048715 1.828286776 1.794475635 2.632447078 2.64208497 3.065406167 1.941954041 2.198438261 1 9.415125411 -7.486928649 16.54976141 1.211371906 2.535647399 0.272180573 0.689395141 5.076044009 2337.083313 0.103598078 0.115488828 3.26E-08 7.486928649 1.324275493 K(ac)LEAAEER ddPTM_HeLa_SAHA_4h_R1 2 KLEAAEER 8 1 P16949;P16949-2;A2A2D0;E5RIR6;E7EVN3;Q9H169-3;Q9H169;Q9H169-4;Q9H169-2;E5RGX5;Q93045;Q93045-2 P16949;E5RGX5 STMN1;STMN4;STMN2 Stathmin;Stathmin-4;Stathmin-2 0 1 ; K(1)LEAAEER;K(1)LEAAEER 85.377 0.014201 5880300 3341.2 4270.6 4067.3 4648.2 4548.6 5199.8 5748.2 5468.5 4486.3 3132.1 FALSE TRUE FALSE 3692.642746 4408.970242 4621.570462 4738.172632 4200.087251 4756.747787 5101.397408 5328.623688 4455.079473 3267.140159 1.130237017 1.349489164 1.414561432 1.450250801 1.285554658 1.455936249 1.561425944 1.630974929 1.363602189 1 11.67381263 -6.526204746 0.296500622 0.950450656 1.688871656 0.408988155 0.137995421 0.538282202 0.112001361 0.066356402 0.147733867 2.98E-07 6.526204746 0.738420999 K(ac)LENCNYAVELGKHPAK ddPTM_HeLa_SAHA_4h_R1 1 KLENCNYAVELGKHPAK 17 2 P13797-3;P13797;A0A0A0MSQ0;P13797-2 P13797-3 PLS3 Plastin-3 0 1 K(1)LENCNYAVELGKHPAK 132.84 4.41E-06 1807300 1049.2 2503.7 1144.6 1382.1 2608.3 1885.5 2606.9 1230.5 1720.7 1039.5 FALSE TRUE FALSE 1159.55967 2584.821523 1300.580127 1408.852544 2408.452617 1724.844792 2313.564751 1199.025592 1708.725509 1084.317932 1.069390845 2.383822536 1.199445374 1.29929839 2.221168299 1.590718682 2.133659033 1.105787847 1.575852854 1 10.08257212 -7.473948452 24.80143599 1.030613372 1.703543224 0.167645573 0.447382156 247.8050386 125606.3888 0.064913077 0.074067916 3.36E-08 7.473948452 0.672929853 K(ac)LESTESR ddPTM_HeLa_SAHA_4h_R1 2 KLESTESR 8 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 1 ; K(1)LESTESR;K(1)LESTESR 103.55 0.0036104 2491600 1268.6 1276.56 1438.05 1768.93 2371.2 2392.4 2236.1 2390.1 1701.2 1598.4 FALSE TRUE FALSE 1402.037169 1317.921382 1634.019965 1803.170198 2189.519168 2188.554061 1984.488143 2328.964703 1689.361211 1667.314846 0.84089527 0.790445419 0.980030837 1.081481522 1.313200787 1.312621947 1.190229996 1.396835581 1.013222676 1 10.70331085 -6.010318578 2.204397848 0.913262439 1.298416459 0.830698222 0.080365359 0.097092436 0.941568242 0.013544818 0.025967692 9.77E-07 6.010318578 0.385154021 K(ac)LFEELVR ddPTM_HeLa_SAHA_4h_R1 1 KLFEELVR 8 1 P14618-2;H3BTN5;H3BR70 P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 1 K(1)LFEELVR 88.37 0.011811 267270 0 222.05 210.15 0 295.79 225.65 237.55 70.059 162.45 0 FALSE TRUE FALSE 0 229.2445657 238.7881476 0 273.1266341 206.4233505 210.8202488 68.26699222 161.3194972 0 0 K(ac)LLEATELK ddPTM_HeLa_SAHA_4h_R1 1 KLLEATELK 9 1 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 1 K(1)LLEATELK 99.973 0.0023546 0 0 318.95 0 263.64 309.16 309.28 272.24 136.96 251.64 188.52 FALSE TRUE FALSE 0 329.2841893 0 268.7431334 285.4722276 282.927604 241.6068387 133.4567615 249.8888168 196.6480198 0 1.674485152 0 1.366620085 1.451691341 1.43875135 1.228625841 0.678658049 1.270741587 1 7.619471848 -6.230431762 24.55143326 0.584044051 1.256228357 0.087005802 0.54165543 576.8309359 456727.2625 0.081783522 0.135612341 5.88E-07 6.230431762 0.672184305 K(ac)LLEGEEER ddPTM_HeLa_SAHA_4h_R1 2 KLLEGEEER 9 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8;P20700;E9PBF6;Q03252 P02545;P02545-2;P20700;Q03252 LMNA;LMNB1;LMNB2 Prelamin-A/C;Lamin-A/C;Lamin-B1;Lamin-B2 0 1 ; K(1)LLEGEEER;K(1)LLEGEEER 121.83 0.0012443 9606700 2043.88 3640.2 1926.78 1807.83 3255.2 3408.5 3908.7 3335.8 3070.6 1305.44 FALSE TRUE FALSE 2258.864676 3758.144868 2189.351544 1842.823164 3005.787279 3118.076624 3468.882789 3250.475066 3049.231445 1361.723907 1.658827215 2.759843496 1.607779325 1.353301616 2.207339728 2.289800897 2.547420054 2.387029448 2.239243527 1 10.41121851 -8.080220517 0.131201303 4.04E-12 3.137641032 0 0.549060018 4.608071106 0.365309248 4.869791628 3.296362441 8.31E-09 8.080220517 3.137641032 K(ac)LLQLLTCSSDDR ddPTM_HeLa_SAHA_4h_R1 1 KLLQLLTCSSDDR 13 1 Q9Y6Q9-2;Q9Y6Q9-3;Q9Y6Q9-5;Q9Y6Q9;Q9Y6Q9-4 Q9Y6Q9-2 NCOA3 Nuclear receptor coactivator 3 0 1 K(1)LLQLLTCSSDDR 116.03 0.0013149 353400 0 0 0 0 176.98 116.88 0 59.683 0 0 FALSE TRUE FALSE 0 0 0 0 163.4198306 106.9211665 0 58.15639528 0 0 0 K(ac)LMVALAK ddPTM_HeLa_SAHA_4h_R1 2 KLMVALAK 8 1 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YKS4;H0YNA0;H0YN52 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 1 ; K(1)LMVALAK;K(1)LMVALAK 112.94 0.0017362 1011980 882.78 1364.67 2436.5 1815.04 2040.71 543.85 2702.6 605.16 313.21 708.04 FALSE TRUE FALSE 975.6348507 1408.886203 2768.533531 1850.172724 1884.351241 497.5109204 2398.496335 589.6808835 311.0303461 738.5670695 1.320983417 1.907594126 3.748520135 2.505084237 2.551361032 0.67361644 3.247499698 0.798412098 0.421126745 1 9.528585128 -7.218589155 3.585921999 1.144147451 2.286510133 0.283239512 0.927611179 0.23656438 6.286370684 0.145580992 0.175805824 6.05E-08 7.218589155 1.142362682 K(ac)LNVTEQEK ddPTM_HeLa_SAHA_4h_R1 2 KLNVTEQEK 9 1 P06733;K7EM90;A0A2R8YEM5;A0A2R8Y879;A0A2R8Y6I8 P06733 ENO1 Alpha-enolase;Enolase 0 1 ; K(1)LNVTEQEK;K(1)LNVTEQEK 194.06 1.56E-24 26355000 4021.3 13377.2 5620.9 4787.5 9681.2 8040.6 9514.1 6853.1 7535.8 2897.8 FALSE TRUE FALSE 4444.278784 13810.63006 6386.88698 4880.168985 8939.428548 7355.495645 8443.548428 6677.807625 7483.357754 3022.738339 1.470282335 4.568913517 2.112947355 1.614486084 2.957394105 2.433388146 2.79334414 2.209191427 2.475688238 1 11.56164038 -5.775422125 23.99301004 1.604916149 2.600477468 0 1.026224767 206.4668676 354277.1046 0.16486581 0.300064242 1.68E-06 5.775422125 0.995561319 K(ac)LVESLPQEIK ddPTM_HeLa_SAHA_4h_R1 1 KLVESLPQEIK 11 1 B4DLN1;P52815 B4DLN1 MRPL12 "39S ribosomal protein L12, mitochondrial" 0 1 K(1)LVESLPQEIK 160.67 1.23E-07 1105600 710.64 1441.1 626.37 564.08 1328.5 965.8 1130 1098.6 1153 594.17 FALSE TRUE FALSE 785.3883757 1487.792586 711.7284416 574.9985841 1226.710617 883.5084066 1002.849426 1070.499403 1144.976179 619.7875765 1.267189607 2.400487912 1.148342543 0.92773493 1.979243637 1.425501962 1.618053449 1.727203712 1.847368716 1 9.275630026 -7.500261768 14.45988375 1.117812325 1.587358842 0 0.451156427 2.071981766 1324.826824 0.067041044 0.072738748 3.16E-08 7.500261768 0.469546517 K(ac)LWGDR ddPTM_HeLa_SAHA_4h_R1 1 KLWGDR 6 1 P13639 P13639 EEF2 Elongation factor 2 0 1 K(1)LWGDR 91.041 0.013438 7307600 1731.8 2759.3 1664.7 2180.1 3125.3 3225.8 3246 2070.7 2806.4 1770 FALSE TRUE FALSE 1913.95867 2848.70313 1891.556647 2222.298988 2885.840189 2950.943692 2880.751537 2017.734492 2786.870034 1846.313362 1.036638043 1.542914214 1.024504662 1.203641285 1.563028383 1.598289734 1.560272268 1.09284509 1.509424181 1 10.85043172 -6.861645102 0.665441933 0.997874153 1.451397016 0 0.258608992 0.460756154 0.422280295 0.050682419 0.080571408 1.38E-07 6.861645102 0.453522863 K(ac)LYVSNLGIGHTR ddPTM_HeLa_SAHA_4h_R1 2 KLYVSNLGIGHTR 13 1 D6RCC8;Q06203 D6RCC8 PPAT Amidophosphoribosyltransferase 0 1 ; K(1)LYVSNLGIGHTR;K(1)LYVSNLGIGHTR 160.27 2.18E-07 6205300 1134.58 1765.64 695.52 1361.58 1953.25 2182.6 2619.3 1211.43 1329.51 1661.34 FALSE TRUE FALSE 1253.92033 1822.847894 790.3018435 1387.93535 1803.592407 1996.630201 2324.56947 1180.443375 1320.257832 1732.968498 0.723567873 1.051864415 0.456039359 0.800900508 1.040753141 1.152144545 1.341380108 0.681168398 0.761847566 1 10.75902971 -5.676942999 5.251107776 0.843057413 1.086921298 0.229366856 0.217928205 0.251423973 11.69427578 0.03178982 0.064186895 2.10E-06 5.676942999 0.243863885 K(ac)NNK(ac)K(ac)TNK ddPTM_HeLa_SAHA_4h_R1 1 KNNKKTNK 8 3 Q92793;Q92793-2 Q92793 CREBBP CREB-binding protein 0 3 K(1)NNK(1)K(1)TNK 140.75 0.0001131 540230 334.61 224.28 285.32 204.15 134.25 78.109 0 0 208.09 383.36 FALSE TRUE FALSE 369.805815 231.5468192 324.2019237 208.1016185 123.963794 71.45367377 0 0 206.6418847 399.8885257 0.924772258 0.579028415 0.810730748 0.520399074 0.309995876 0.178683981 0 0 0.516748722 1 8.643454075 -6.009165408 0.663037416 0.976309059 2.13E-21 0.75025491 0.170991996 0.127415549 0.103115443 0.018742651 0.061496913 9.79E-07 6.009165408 -0.976309059 down K(ac)NNK(ac)K(ac)TSK ddPTM_HeLa_SAHA_4h_R1 1 KNNKKTSK 8 3 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 0 3 K(1)NNK(1)K(1)TSK 107.24 0.00055765 0 74.76 219.4 77.976 154.57 74.301 0 0 165.07 0 75.282 FALSE TRUE FALSE 82.62359981 226.508704 88.6021632 157.5619259 68.60807343 0 0 160.8477484 0 78.52777544 1.052157652 2.884440603 1.128290757 2.006448355 0.873679065 0 0 2.048291162 0 1 6.295131123 -5.527838511 24.97012047 1.257784721 0.58487931 0.099967447 0.879759911 206.6460438 1040366.113 0.114275056 0.229191265 2.97E-06 5.527838511 -0.672905412 K(ac)QLATK(ac)AAR ddPTM_HeLa_SAHA_4h_R1 3 KQLATKAAR 9 2 K7EK07;P84243;Q6NXT2;Q71DI3;P68431;K7EMV3;K7EP01;A0A590UJJ6;B4DEB1;Q5TEC6;K7ES00 K7EK07 H3F3B;H3F3A;H3F3C;HIST2H3A;HIST1H3A;HIST2H3PS2 Histone H3;Histone H3.3;Histone H3.3C;Histone H3.2;Histone H3.1 0 2 ;; K(1)QLATK(1)AAR;K(1)QLATK(1)AAR;K(1)QLATK(1)AAR 200.6 9.39E-32 2660200000 1844.62 4393.36 14030.28 15836.15 19387.79 4643.35 37990.57 4125.6 298.421 768.48 FALSE TRUE FALSE 2038.645595 4535.707747 15942.25349 16142.68158 17902.30172 4247.710457 33715.77108 4020.073126 296.344264 801.6129336 2.543179519 5.658226753 19.8877199 20.13775091 22.33285039 5.298954494 42.05991403 5.014980369 0.369684983 1 9.646761976 -6.837973671 3.411889815 1.801833865 19.82939965 0.420723267 9.676965682 0.151081544 3.527089709 1.40255134 1.902307758 1.45E-07 6.837973671 18.02756579 K(ac)QNK(ac)THAPK ddPTM_HeLa_SAHA_4h_R1 1 KQNKTHAPK 9 2 A6NHN6 A6NHN6 NPIPB15 Nuclear pore complex-interacting protein family member B15 0 2 K(1)QNK(1)THAPK 76.1 0.0068801 0 0 74.789 278.99 627.38 757.09 874.79 1056.4 997.44 42.649 112.88 FALSE TRUE FALSE 0 77.21221267 317.0093043 639.5238471 699.0819278 800.2529706 937.5310917 971.9269291 42.35220214 117.7468092 0 0.655747813 2.692296347 5.431347578 5.937162394 6.79638774 7.962263249 8.254380187 0.359688746 1 6.879544155 -6.16090429 1.131545278 0.467473387 7.694225218 0.973570979 0.510178525 0.06031803 0.152436685 0.107994038 0.23237126 6.90E-07 6.16090429 7.22675183 NGAGNGAK(ac)GK(ac)GK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 NGAGNGAKGKGKR 13 3 O00512 O00512 BCL9 B-cell CLL/lymphoma 9 protein 0 3 ; NGAGNGAK(1)GK(1)GK(1)R;NGAGNGAK(1)GK(1)GK(1)R 234.67 1.51E-68 5033300 142.57 220.47 339.06 736.26 869.14 1194.15 898.01 1097.05 124.46 271.09 FALSE TRUE FALSE 157.5661667 227.6133727 385.2653311 750.5113769 802.546681 1092.401702 796.9635514 1068.98905 123.5938727 282.7780166 0.557207978 0.804918909 1.362430276 2.654065496 2.838080169 3.863106882 2.818336308 3.780311717 0.437070301 1 8.143526158 -6.188454397 1.542418564 0.776876245 3.382940379 0.93030547 0.331821595 0.064620067 0.30113671 0.050738595 0.096756751 6.48E-07 6.188454397 2.606064134 up K(ac)SVSGK(ac)ASIK ddPTM_HeLa_SAHA_4h_R1 1 KSVSGKASIK 10 2 O75179-4;O75179-6;O75179-2;O75179;H0YM23;O75179-7 O75179-4 ANKRD17 Ankyrin repeat domain-containing protein 17 0 2 K(1)SVSGK(1)ASIK 60.434 0.019934 0 151.04 0 158.63 447.76 377.4 330.05 455 372.84 0 0 FALSE TRUE FALSE 166.9270802 0 180.2472703 456.4270423 348.4836935 301.9278832 403.8022025 363.3032927 0 0 0 K(ac)TNK(ac)NK(ac)SSISR ddPTM_HeLa_SAHA_4h_R1 2 KTNKNKSSISR 11 3 Q92793;Q92793-2 Q92793 CREBBP CREB-binding protein 0 3 ; K(1)TNK(1)NK(1)SSISR;K(1)TNK(1)NK(1)SSISR 162.93 1.82E-10 6631500 664.84 819.04 866.02 260.455 382.66 364.99 52.149 0 405.49 435.14 FALSE TRUE FALSE 734.7709216 845.5774334 984.0366956 265.4964831 353.3406735 333.8907986 46.28105727 0 402.6681621 453.9010149 1.618791096 1.862911528 2.167954385 0.584921545 0.778453147 0.73560267 0.101962886 0 0.887127697 1 8.826233904 -5.324692648 1.075965086 1.388438019 0.026794941 0.592868869 0.43253534 0.346006863 0.698639897 0.074279899 0.345663911 4.73E-06 5.324692648 -1.361643078 K(ac)TSK(ac)NK(ac)SSLSR ddPTM_HeLa_SAHA_4h_R1 2 KTSKNKSSLSR 11 3 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 0 3 ; K(1)TSK(1)NK(1)SSLSR;K(1)TSK(1)NK(1)SSLSR 179.67 2.10E-16 9698000 1599.67 1436.44 1802.82 1091.05 884.68 802 686.16 219.042 888.64 1199.01 FALSE TRUE FALSE 1767.93063 1482.981598 2048.498921 1112.16885 816.8960095 733.6650881 608.9514709 213.4392228 882.4558819 1250.705189 1.41354705 1.185716356 1.637875128 0.889233418 0.653148333 0.586601139 0.486886499 0.170655103 0.705566659 1 10.28852605 -5.75535231 1.963792209 1.229657805 0.428100001 0.633161387 0.256405662 0.132644491 1.04105185 0.034827228 0.077874711 1.76E-06 5.75535231 -0.801557804 K(ac)YAEAVTR ddPTM_HeLa_SAHA_4h_R1 2 KYAEAVTR 8 1 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 0 1 ; K(1)YAEAVTR;K(1)YAEAVTR 98.048 0.0054911 9049200 3147.4 6884.9 3930 4411.4 5786.3 5864.2 6705.8 5075.7 3600.9 2151.2 FALSE TRUE FALSE 3478.457973 7107.975277 4465.559933 4496.789026 5342.954944 5364.537169 5951.245735 4945.870944 3575.841044 2243.94876 1.550150358 3.167619246 1.990045412 2.003962437 2.381050334 2.390668301 2.652130852 2.204092639 1.593548439 1 11.13182402 -7.47299399 5.076374189 1.234314496 2.379869922 0.642384144 0.34914089 0.084420925 4.531101727 0.061596309 0.068724099 3.37E-08 7.47299399 1.145555425 K(ac)YEEIDNAPEER ddPTM_HeLa_SAHA_4h_R1 2 KYEEIDNAPEER 12 1 P49411 P49411 TUFM "Elongation factor Tu, mitochondrial" 0 1 ; K(1)YEEIDNAPEER;K(1)YEEIDNAPEER 193.23 1.03E-17 2288130 510.02 1300.03 788.17 564 835.69 964.15 1165.27 730.24 674.61 452.55 FALSE TRUE FALSE 563.6662437 1342.151825 895.577703 574.9170356 771.6596127 881.9989958 1034.150753 711.5615182 669.9153341 472.0616452 1.194052195 2.843170672 1.89716261 1.217885506 1.634658567 1.86839792 2.190711241 1.507348723 1.419126804 1 8.882831459 -7.490496865 24.51488436 1.085610731 1.868715942 0.342204118 0.422085756 220.0511134 166592.7004 0.071212235 0.078242628 3.23E-08 7.490496865 0.783105211 K(ac)YELGRPAANTK ddPTM_HeLa_SAHA_4h_R1 1 KYELGRPAANTK 12 2 P62241;Q5JR95 P62241 RPS8 40S ribosomal protein S8 0 1 K(1)YELGRPAANTK 107.93 0.0031849 11654000 1350.8 4195.5 1840.4 1942.9 3590.9 3281.1 4017.1 2723.4 2824.3 1151 FALSE TRUE FALSE 1492.883342 4331.436953 2091.200128 1980.507639 3315.766018 3001.531821 3565.085336 2653.739371 2804.645466 1200.625243 1.243421584 3.607651079 1.741759254 1.649563551 2.761699404 2.499973942 2.969357305 2.210297832 2.335987422 1 10.22957019 -7.426135526 9.714443258 1.107086388 2.459302622 0.245342354 0.665312443 0.213753611 20.21930339 0.089647117 0.102363947 3.75E-08 7.426135526 1.352216234 K(ac)YHQRPTFR ddPTM_HeLa_SAHA_4h_R1 1 KYHQRPTFR 9 2 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 1 K(1)YHQRPTFR 68.016 0.017251 832200 189.4 0 196.2 220.04 264.76 0 148.3 163.9 276.37 114.83 FALSE TRUE FALSE 209.321961 0 222.9371142 224.2991924 244.474146 0 131.6128937 159.7076753 274.4467187 119.7808833 1.747540637 0 1.8612078 1.872579215 2.041011381 0 1.098780457 1.333331922 2.29123973 1 6.904253866 -5.273137104 24.98503177 1.375267547 0.839511694 0.157815116 0.703726486 1171.26906 2501699.653 0.093410596 0.21047504 5.33E-06 5.273137104 -0.535755853 K(ac)YVIYIER ddPTM_HeLa_SAHA_4h_R1 2 KYVIYIER 8 1 P61254;J3QRI7;J3QQQ9;J3QQV1;E5RIT6;Q9UNX3;J3QRC4;J3KS10 P61254 RPL26;RPL26L1 60S ribosomal protein L26;60S ribosomal protein L26-like 1 0 1 ; K(1)YVIYIER;K(1)YVIYIER 112.84 0.001756 4460000 1448.19 2357.4 2031.26 2090.32 2536.4 2448.7 2645 1667.06 2155.2 1931.67 FALSE TRUE FALSE 1600.517269 2433.781307 2308.069534 2130.781166 2342.06158 2240.056984 2347.377639 1624.419019 2140.201788 2014.953747 0.794319607 1.20785964 1.145470231 1.05748391 1.16234012 1.11171633 1.164978423 0.80618179 1.062159263 1 10.97653101 -7.261249113 24.99999995 0.902873148 1.100387705 0.180358323 0.125183264 13.99171066 1838506.413 0.020681428 0.02447909 5.48E-08 7.261249113 0.197514557 KAAAPAPEEEMDECEQALAAEPK ddPTM_HeLa_SAHA_4h_R1 2 KAAAPAPEEEMDECEQALAAEPK 23 1 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 0 0 ; ; 106.03 8.63E-05 10760200 2355.5 2270.58 2035.43 2600 2641.4 3403.4 2804.3 2896 2576.9 2416 FALSE FALSE TRUE 2603.262297 2344.148282 2312.8078 2650.32676 2439.016503 3113.411173 2488.752783 2821.924513 2558.967143 2520.165584 1.03297272 0.930156454 0.917720572 1.051647867 0.9678001 1.235399449 0.987535422 1.119737739 1.015396433 1 11.29930281 KAAS(ph)LTEDRDR ddPTM_HeLa_SAHA_4h_R1 3 KAASLTEDRDR 11 2 Q04637-9;Q04637;E7EX73;E9PGM1;Q04637-3;Q04637-8;E7EUU4;Q04637-7;Q04637-4;Q04637-5;Q04637-6 Q04637-9 EIF4G1 Eukaryotic translation initiation factor 4 gamma 1 1 0 KAAS(0.897)LT(0.103)EDRDR;KAAS(0.5)LT(0.5)EDRDR;KAAS(0.951)LT(0.049)EDRDR ;; 138.89 0.00097923 297645000 8096.4 8645.8 10304.8 12996.3 12938.6 14095.2 16079.5 15011.9 7930.7 8624.8 TRUE FALSE FALSE 8948.0165 8925.929593 11709.08448 13247.86218 11947.24726 12894.20966 14270.19234 14627.91733 7875.509613 8996.657337 0.994593455 0.992138442 1.30149277 1.472531595 1.327965134 1.433222271 1.58616604 1.625928029 0.875381747 1 13.13517336 -6.576239632 2.184994586 0.994447308 1.486795969 0.890136594 0.086402572 0.070121173 0.676859415 0.013527391 0.020630174 2.65E-07 6.576239632 0.492348661 KAAS(ph)PS(ph)PQSVR ddPTM_HeLa_SAHA_4h_R1 2 KAASPSPQSVR 11 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 2 0 KAAS(0.991)PS(0.543)PQS(0.466)VR;KAAS(0.905)PS(0.922)PQS(0.173)VR ; 103.97 0.010557 46049000 16311.1 14139.8 13227.1 14608.6 16879.2 18168.1 16198.1 15743.9 16409.9 13711.1 TRUE FALSE FALSE 18026.77634 14597.9388 15029.6203 14891.37058 15585.91934 16620.07567 14375.44716 15341.19383 16295.70217 14302.25262 1.260415182 1.020674098 1.050856862 1.041190571 1.089752765 1.162059999 1.005117693 1.072641789 1.13938011 1 13.80395477 KAAVPAK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 KAAVPAKR 8 2 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9;S4R3C2 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 KAAVPAK(1)R 82.279 0.015952 1980800 341.77 201.93 630.43 728.05 774.73 553.44 1414.6 520.93 0 46.032 FALSE TRUE FALSE 377.7189367 208.4726645 716.3417173 742.1424605 715.3703548 506.2837984 1255.425485 507.6053649 0 48.0166648 7.866413428 4.341673154 14.91860629 15.45593522 14.89837659 10.54391846 26.14562028 10.57144154 0 1 5.585463293 -7.01247172 0.373500114 1.069531474 18.65683947 0.613559533 4.624998494 0.56093917 0.207326741 2.526339621 3.698095831 9.72E-08 7.01247172 17.58730799 PDPAK(ac)SAPAPK ddPTM_HeLa_SAHA_4h_R1 3 PDPAKSAPAPK 11 1 Q5QNW6;Q5QNW6-2;Q93079 Q5QNW6;Q93079 HIST2H2BF;HIST1H2BH Histone H2B type 2-F;Histone H2B type 1-H 0 1 ;; PDPAK(1)SAPAPK;PDPAK(1)SAPAPK;PDPAK(1)SAPAPK 141.71 7.57E-05 1098000000 4690.4 8909 8885.38 19532.7 21178.54 24073.85 28199.38 27381.9 3815.5 4326.41 FALSE TRUE FALSE 5183.757792 9197.657445 10096.23331 19910.78365 19555.84484 22022.62254 25026.31155 26681.51065 3788.947625 4512.942708 1.1486425 2.03806209 2.237172942 4.411929187 4.333280103 4.879880816 5.54545297 5.912220113 0.839573615 1 12.13985275 -6.185762727 0.787082768 0.999321957 5.695258299 0.971346985 0.318110771 0.065314677 0.078915155 0.059267789 0.150012632 6.52E-07 6.185762727 4.695936342 up K(ac)GSK(ac)K(ac)AVTK ddPTM_HeLa_SAHA_4h_R1 1 KGSKKAVTK 9 3 O60814;P57053;P58876;P62807;Q16778;Q5QNW6;Q5QNW6-2;Q8N257;Q93079;U3KQK0;Q99877;Q99880 O60814;P58876;P62807;Q16778;Q5QNW6;Q8N257;Q93079;U3KQK0;Q99880 HIST1H2BK;H2BFS;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST2H2BF;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 2-F;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-L 0 3 K(1)GSK(1)K(1)AVTK 109.24 0.017545 5500100000 426.73 607.79 1604.5 3257.7 4993.2 5279.5 6700.4 4694.1 271.26 305.8 FALSE TRUE FALSE 471.6154193 627.4827948 1823.152904 3320.757494 4610.622095 4829.656898 5946.453358 4574.031719 269.3722796 318.9845345 1.478489921 1.967126073 5.715489958 10.41040281 14.45406155 15.14072431 18.64182339 14.33935261 0.844468149 1 8.317342669 -6.169143294 1.175588072 1.148788807 16.48068092 0.974485776 1.053071207 0.041018884 0.111838654 0.160086461 0.337328992 6.77E-07 6.169143294 15.33189211 up KADRDQS(ph)PFSK ddPTM_HeLa_SAHA_4h_R1 2 KADRDQSPFSK 11 2 Q13427;E9PG73 Q13427 PPIG Peptidyl-prolyl cis-trans isomerase G 1 0 KADRDQS(0.986)PFS(0.014)K;KADRDQS(0.995)PFS(0.005)K ; 54.95 0.022064 15024000 12305 8007.3 11242.7 12939 10629.7 11732 12972.5 14534.3 7198 10944.6 TRUE FALSE FALSE 13599.29636 8266.741774 12774.79661 13189.45306 9815.254682 10732.3676 11512.80016 14162.53365 7147.908532 11416.47527 1.191199213 0.72410631 1.118979046 1.155299928 0.859744751 0.940077156 1.008437358 1.240534694 0.626104675 1 13.47882968 KADTT(ph)TPTTSAITASR ddPTM_HeLa_SAHA_4h_R1 1 KADTTTPTTSAITASR 16 1 Q15059;Q15059-2 Q15059 BRD3 Bromodomain-containing protein 3 1 0 KADT(0.005)T(0.956)T(0.022)PT(0.005)T(0.002)S(0.009)AITASR 117.84 0.0011366 7483600 2287.8 3307.7 3112 3349.2 4585.5 3648.8 3724 3232.2 3020.6 3326.8 TRUE FALSE FALSE 2528.441301 3414.87165 3536.087153 3414.028609 4234.159981 3337.901712 3304.965719 3149.525004 2999.579399 3470.234629 0.72860817 0.98404633 1.01897639 0.983803395 1.220136513 0.961866291 0.952375292 0.907582726 0.864373658 1 11.76081749 -7.026210235 23.97247102 0.871026129 1.010642771 0.296449481 0.099012341 508.2731296 464877.3987 0.02089575 0.025647817 9.41E-08 7.026210235 0.139616642 KADTTTPTPTAILAPGS(ph)PAS(ph)PPGSLEPK ddPTM_HeLa_SAHA_4h_R1 1 KADTTTPTPTAILAPGSPASPPGSLEPK 28 1 P25440-2;P25440;A0A0G2JK44;A0A140T9E9;H0Y6K2;P25440-3;P25440-4;E9PIQ3;A0A140T9V2;A0A140T9F7;A0A0G2JHL0;U3KQA6;U3KPW0;H0YDJ7 P25440-2 BRD2 Bromodomain-containing protein 2 2 0 KADTTTPTPTAILAPGS(0.997)PAS(0.997)PPGS(0.005)LEPK 93.166 3.11E-06 4237500 933.83 621.9 796.83 819.26 668.05 689.2 890.69 753.33 740.51 733.77 TRUE FALSE FALSE 1032.054524 642.049968 905.4178427 835.117962 616.8641533 630.4762827 790.467217 734.0609094 735.3567306 765.4064157 1.34837454 0.838835362 1.182924292 1.091077818 0.80593021 0.823714395 1.032741823 0.959047239 0.960740223 1 9.580082184 -5.900191626 6.088730327 1.140167248 0.909683356 0.145549474 0.149603624 0.205856448 10.75427928 0.024908733 0.045547677 1.26E-06 5.900191626 -0.230483892 KADTTTPTPTAILAPGS(ph)PASPPGSLEPK ddPTM_HeLa_SAHA_4h_R1 2 KADTTTPTPTAILAPGSPASPPGSLEPK 28 1 P25440-2;P25440;A0A0G2JK44;A0A140T9E9;H0Y6K2;P25440-3;P25440-4;E9PIQ3;A0A140T9V2;A0A140T9F7;A0A0G2JHL0;U3KQA6;U3KPW0;H0YDJ7 P25440-2 BRD2 Bromodomain-containing protein 2 1 0 KADTTTPTPTAILAPGS(0.925)PAS(0.075)PPGSLEPK;KADTTTPTPTAILAPGS(0.885)PAS(0.114)PPGSLEPK ; 167.72 3.10E-12 19978300 4037.9 4220.7 4329.6 4829.6 5017.4 5162.5 5745.2 5604.1 4798 4041.7 TRUE FALSE FALSE 4462.624849 4357.453449 4919.61534 4923.083892 4632.967896 4722.625957 5098.734975 5460.755237 4764.610327 4215.957467 1.058508034 1.033562004 1.166903457 1.167726176 1.09891239 1.120178748 1.209389567 1.295258617 1.130137191 1 12.0416446 -1 0.179816747 0.98447011 2.188405716 0.541073953 0.056164222 18.34600843 0.199074608 0.054353807 6.070179651 0.1 1 1.203935607 KADVSEEQLQKMT(ph)EEQTY(ph)QAAEK ddPTM_HeLa_SAHA_4h_R1 1 KADVSEEQLQKMTEEQTYQAAEK 23 2 Q96M83 Q96M83 CCDC7 Coiled-coil domain-containing protein 7 2 0 KADVS(0.008)EEQLQKMT(0.988)EEQT(0.251)Y(0.752)QAAEK 40.689 0.017883 84498000 646.4 901.37 600.73 988.26 878.11 1058.6 851.15 816.25 968.23 762.04 TRUE FALSE FALSE 714.3913178 930.5749794 682.5943559 1007.389201 810.8294015 968.4013245 755.3763619 795.3715069 961.4920086 794.8952737 0.898723821 1.170688781 0.858722373 1.267323174 1.020045569 1.218275358 0.950284128 1.000599114 1.20958325 1 9.63462099 -7.277142923 24.96341402 0.952175138 1.068171777 0 0.144483236 991.0461707 1575430.795 0.019223949 0.022023121 5.28E-08 7.277142923 0.115996639 KADYQAVDDEIEANLEEFDISEDDIDDGFRR ddPTM_HeLa_SAHA_4h_R1 2 KADYQAVDDEIEANLEEFDISEDDIDDGFRR 31 2 P17655;P17655-2 P17655 CAPN2 Calpain-2 catalytic subunit 0 0 ; ; 131.32 3.29E-14 6709200 528.86 534.1 562.45 961.35 735.79 951.3 909.15 532.37 807.33 727.36 FALSE FALSE TRUE 584.4879213 551.4051904 639.0977569 979.9583194 679.4139292 870.2438881 806.8500492 518.7527463 801.7117248 758.7200492 0.770360454 0.72675711 0.842336719 1.291594074 0.895473805 1.146989445 1.063435783 0.683720889 1.056663424 1 9.567423851 KAEAAVVAVAEK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 KAEAAVVAVAEKR 13 2 A0A087WYP2;Q8IZQ5 A0A087WYP2 C11orf31;SELH Selenoprotein H 0 1 ; KAEAAVVAVAEK(1)R;KAEAAVVAVAEK(1)R 163.8 1.51E-07 28063000 5654.5 7616.3 8501.4 10601 9962.7 10337.5 12078.1 11216 6778.2 5933.1 FALSE TRUE FALSE 6249.266254 7863.073117 9659.926519 10806.19768 9199.360078 9456.686843 10719.0404 10929.11096 6731.029954 6188.904977 1.009753143 1.270511205 1.560845829 1.746059719 1.486427747 1.528006469 1.731976891 1.765919981 1.087596268 1 12.59546846 -6.925546602 2.084952785 1.002636043 1.643330474 0.90357459 0.089824022 0.058771601 0.515738351 0.015240541 0.020490077 1.19E-07 6.925546602 0.640694432 KAEAGAGS(ph)ATEFQFR ddPTM_HeLa_SAHA_4h_R1 1 KAEAGAGSATEFQFR 15 1 P46783;Q9NQ39 P46783 RPS10;RPS10P5 40S ribosomal protein S10;Putative 40S ribosomal protein S10-like 1 0 KAEAGAGS(0.94)AT(0.06)EFQFR 132.25 0.00062642 7919400 481.55 420.44 223.4 315.05 540.87 543.26 449.62 427.29 354.21 439.74 TRUE FALSE FALSE 532.2016384 434.0625319 253.8437886 321.1482483 499.4286574 496.9711917 399.0275743 416.3605405 351.7450238 458.6993434 1.160240681 0.946289848 0.553399067 0.700127988 1.088793051 1.083435585 0.869910934 0.907698139 0.766831322 1 8.841405032 -7.008836914 24.7647374 1.074490066 0.868835466 0 0.18206158 407.6088867 1142293.399 0.027869403 0.035595335 9.80E-08 7.008836914 -0.2056546 KAEAGAGSAT(ph)EFQFR ddPTM_HeLa_SAHA_4h_R1 1 KAEAGAGSATEFQFR 15 1 P46783;Q9NQ39 P46783 RPS10;RPS10P5 40S ribosomal protein S10;Putative 40S ribosomal protein S10-like 1 0 KAEAGAGS(0.23)AT(0.77)EFQFR 108.97 0.0031377 32161000 1496.2 2064.4 1542.3 1790.6 2215.5 2347.1 2523.4 1975 1980.5 1968.9 TRUE FALSE FALSE 1653.577181 2131.287915 1752.476612 1825.259652 2045.748869 2147.113876 2239.460391 1924.48236 1966.717539 2053.788915 0.805134924 1.037734647 0.853289547 0.88872797 0.996085262 1.045440386 1.090404362 0.937039998 0.957604516 1 11.0040722 -5.625679982 4.413675488 0.911017572 1.02957324 0.274621985 0.073374059 0.216161968 7.434324 0.01273762 0.026195525 2.37E-06 5.625679982 0.118555669 KAEDS(ph)DS(ph)EPEPEDNVR ddPTM_HeLa_SAHA_4h_R1 1 KAEDSDSEPEPEDNVR 16 1 Q9H0D6-2;Q9H0D6 Q9H0D6-2 XRN2 5-3 exoribonuclease 2 2 0 KAEDS(1)DS(1)EPEPEDNVR 124.46 0.00088004 7016600 809.3 575.71 704.79 707.23 647.81 819.17 776.69 666.49 741.09 721.97 TRUE FALSE FALSE 894.4258872 594.3633817 800.8351108 720.9194593 598.1749378 749.3721075 689.2947971 649.4421509 735.9326944 753.0976599 1.18766255 0.789224842 1.063388128 0.957272207 0.794286013 0.995053029 0.91527943 0.862361132 0.977207517 1 9.556693152 -7.267453058 24.95123755 1.088618425 0.917533583 0.298426199 0.096767518 359.1490796 1490135.44 0.017129859 0.019854842 5.40E-08 7.267453058 -0.171084842 KAEDS(ph)DSEPEPEDNVR ddPTM_HeLa_SAHA_4h_R1 1 KAEDSDSEPEPEDNVR 16 1 Q9H0D6-2;Q9H0D6 Q9H0D6-2 XRN2 5-3 exoribonuclease 2 1 0 KAEDS(0.938)DS(0.062)EPEPEDNVR 92.133 0.003191 5325100 1343.3 1233.5 996.14 1210.2 1482.4 1398.9 1433.7 1187.2 1518.6 1420.3 TRUE FALSE FALSE 1484.594457 1273.466209 1131.888772 1233.625171 1368.818832 1279.70585 1272.376303 1156.833143 1508.031939 1481.536084 1.002064326 0.859558011 0.763996762 0.832666301 0.923918659 0.863769613 0.858822351 0.780833593 1.017884043 1 10.53287805 -7.235744266 5.068675907 1.001250568 0.841192349 0.766067904 0.04211779 0.067788955 4.956234713 0.007210924 0.00868744 5.81E-08 7.235744266 -0.160058219 KAEEAGGTRLEPLK(ac)PLK ddPTM_HeLa_SAHA_4h_R1 2 KAEEAGGTRLEPLKPLK 17 3 Q9ULL5;Q9ULL5-2;A0A3Q5ADB5 Q9ULL5 PRR12 Proline-rich protein 12 0 1 ; K(0.002)AEEAGGTRLEPLK(0.998)PLK;K(0.029)AEEAGGTRLEPLK(0.971)PLK 59.709 0.011754 15368100 9420.4 6616.4 8180.9 9270.9 9184.6 9153.4 9599.4 10313.6 5986.6 8251.1 FALSE TRUE FALSE 10411.28089 6830.775701 9295.750448 9450.351675 8480.877932 8373.478824 8519.250248 10049.79305 5944.938763 8606.845301 1.209651217 0.793644531 1.080041539 1.098004129 0.985364281 0.972885945 0.98982263 1.167651177 0.690722158 1 13.07126882 KAEEDAALQAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 KAEEDAALQAKK 12 2 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;A0A2R8Y857;H0YA99;A0A2R8Y4M7;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8 E7ETY2;Q13428 TCOF1 Treacle protein 0 1 ; KAEEDAALQAK(1)K;KAEEDAALQAK(1)K 182.07 1.44E-16 8598500 11032.7 11753.5 12115 13310.3 13221.8 12887.8 14584.5 12081.9 11077.8 9474.8 FALSE TRUE FALSE 12193.17001 12134.32111 13765.96911 13567.9401 12208.74854 11789.68694 12943.41368 11772.86249 11000.70869 9883.304997 1.233713824 1.227759451 1.392850783 1.372814065 1.235290072 1.192889113 1.309624026 1.191186804 1.11305972 1 13.27077785 -8.775527305 0.656101747 0.995606973 1.278758352 0.564261035 0.073109986 0.333997814 0.271303539 0.0491438 0.016312377 1.68E-09 8.775527305 0.283151379 KAEEK(ac)LESYR ddPTM_HeLa_SAHA_4h_R1 2 KAEEKLESYR 10 2 A0A6I8PRS5;Q8N954-2;Q8N954 A0A6I8PRS5 GPATCH11 G patch domain-containing protein 11 0 1 ; KAEEK(1)LESYR;KAEEK(1)LESYR 99.539 0.0040533 11093500 3525.5 4421.1 5919.1 6211 7704.2 8618.1 7998.2 7917.3 3302 3622.6 FALSE TRUE FALSE 3896.328266 4564.346541 6725.724123 6331.222886 7113.90586 7883.789396 7098.221486 7714.78693 3279.021113 3778.788015 1.031105278 1.207886371 1.779862775 1.675463895 1.882589294 2.086327512 1.878438658 2.041603525 0.867744129 1 11.88370787 -6.702383378 1.241949473 1.001977683 1.957583093 0.938147296 0.110397195 0.061205888 0.189640813 0.017595324 0.027271268 1.98E-07 6.702383378 0.95560541 KAEENAS(ph)QEEEEAAEDEGGEEDLASELR ddPTM_HeLa_SAHA_4h_R1 1 KAEENASQEEEEAAEDEGGEEDLASELR 28 1 H0Y6F5;Q9H4I2;Q9H4I2-2 H0Y6F5 ZHX3 Zinc fingers and homeoboxes protein 3 1 0 KAEENAS(1)QEEEEAAEDEGGEEDLASELR 72.848 0.00013919 4137900 588.67 653.39 430.23 465.78 533.12 588.04 716.67 645.88 782.45 752.26 TRUE FALSE FALSE 650.5890115 674.5602647 488.8595039 474.7958454 492.2724608 537.9356838 636.0284054 629.3593248 777.0048667 784.6936101 0.829099413 0.859647965 0.622994118 0.605071635 0.627343532 0.685535956 0.810543628 0.802044667 0.990201598 1 9.615985642 -7.82703911 0.710883327 0.972607778 0.697788585 0.660559157 0.080335659 0.291103435 0.326400873 0.030364094 0.024310542 1.49E-08 7.82703911 -0.274819193 KAEGAAT(ph)EEEGTPK ddPTM_HeLa_SAHA_4h_R1 2 KAEGAATEEEGTPK 14 1 P80723;P80723-2;U3KQP0 P80723 BASP1 Brain acid soluble protein 1 1 0 KAEGAAT(1)EEEGTPK;KAEGAAT(1)EEEGTPK ; 114.21 0.002108 9600900 5159.6 7303 5934.2 6145.6 6456.3 6797.7 6354.4 6432 7749.2 6232.2 TRUE FALSE FALSE 5702.310401 7539.621992 6742.881872 6264.556975 5961.619689 6218.497717 5639.386188 6267.478753 7695.272686 6500.900642 0.877156984 1.159781145 1.037222724 0.963644473 0.917045194 0.956559415 0.867477677 0.964093915 1.183724088 1 12.66642389 -3.875163087 19.4818444 0.957416822 2.774802002 0 0.107957717 14687.20084 2023506.775 0.01190082 139778.9837 0.000133302 3.875163087 1.81738518 KAEGAATEEEGT(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 KAEGAATEEEGTPK 14 1 P80723;P80723-2;U3KQP0 P80723 BASP1 Brain acid soluble protein 1 1 0 KAEGAATEEEGT(1)PK;KAEGAATEEEGT(1)PK;KAEGAATEEEGT(1)PK;KAEGAATEEEGT(1)PK ;;; 154.31 5.66E-05 73040600 13926.4 24231.3 16431.1 17402.2 20484.8 20902.5 21835.4 17912.5 26535.7 19840.9 TRUE FALSE FALSE 15391.24265 25016.41002 18670.24474 17739.04475 18915.25905 19121.48941 19378.42332 17454.32419 26351.0359 20696.3383 0.743669843 1.208736041 0.902103767 0.857110301 0.913942301 0.923906883 0.936321346 0.843353251 1.273222129 1 14.33708792 -4.241254505 21.46401442 0.906970302 0.843352838 0 0.162551891 2662.803386 2831221.663 0.01781975 0.725286883 5.74E-05 4.241254505 -0.063617464 KAEGEPQEES(ph)PLK ddPTM_HeLa_SAHA_4h_R1 8 KAEGEPQEESPLK 13 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 KAEGEPQEES(1)PLK;KAEGEPQEES(1)PLK;KAEGEPQEES(1)PLK;KAEGEPQEES(1)PLK;KAEGEPQEES(1)PLK;KAEGEPQEES(1)PLK;KAEGEPQEES(1)PLK;KAEGEPQEES(1)PLK ;;;;;;; 174.4 4.39E-05 1441182000 36233.9 44880.1 32644.1 37180.8 42478.1 51914.5 42830.9 38330.2 58365.7 40321.3 TRUE FALSE FALSE 40045.14785 46334.24469 37092.66794 37900.48815 39223.43715 47491.09254 38011.45441 37349.76899 57959.52834 42059.74857 0.952101456 1.101629141 0.881904177 0.901110668 0.932564708 1.129134009 0.903748969 0.888016934 1.378028407 1 15.36015261 KAEGEPQEES(ph)PLKSK ddPTM_HeLa_SAHA_4h_R1 4 KAEGEPQEESPLKSK 15 2 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 KAEGEPQEES(0.688)PLKS(0.312)K;KAEGEPQEES(0.971)PLKS(0.029)K;KAEGEPQEES(0.964)PLKS(0.036)K;KAEGEPQEES(0.906)PLKS(0.094)K ;;; 90.718 0.005499 330473000 18887.5 16189.2 17511.6 18650 18172.9 19726.7 20049.6 19946.6 17504.2 18032.7 TRUE FALSE FALSE 20874.17391 16713.7407 19897.98965 19010.99772 16780.49633 18045.87418 17793.56624 19436.39485 17382.38685 18810.17795 1.109727615 0.888547719 1.057831016 1.010676123 0.892096629 0.959367542 0.945954169 1.033291387 0.924094758 1 14.19922588 -7.27196632 24.93475034 1.051815816 0.970354584 0 0.070087867 680.8187156 1612624.945 0.010816342 0.012435774 5.35E-08 7.27196632 -0.081461232 KAEGEPQEESPLKS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 KAEGEPQEESPLKSK 15 2 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 KAEGEPQEES(0.486)PLKS(0.514)K 107.65 0.0018148 94304000 2550.8 2196 2609.5 2604.1 1967.2 2232.6 3091.9 2439.2 2091.6 2150.2 TRUE FALSE FALSE 2819.104847 2267.151841 2965.10907 2654.506121 1816.473561 2042.36992 2743.991275 2376.808796 2077.044385 2242.905645 1.256898548 1.010810172 1.321994564 1.183512167 0.809875157 0.910591101 1.223409144 1.059700751 0.926050719 1 11.13115321 KAEK(ac)AAAEEPR ddPTM_HeLa_SAHA_4h_R1 2 KAEKAAAEEPR 11 2 Q9UHB7;Q9UHB7-2 Q9UHB7 AFF4 AF4/FMR2 family member 4 0 1 ; K(0.037)AEK(0.963)AAAEEPR;K(0.018)AEK(0.982)AAAEEPR 110.29 0.0029208 3597000 5695.5 5247.4 4740.2 5790.1 6461.8 7811.7 7653.6 8084.2 4286 5450 FALSE TRUE FALSE 6294.578822 5417.419203 5386.16977 5902.175758 5966.69828 7146.099213 6792.396785 7877.41787 4256.173377 5684.976172 1.107230467 0.952936132 0.947439287 1.038205892 1.049555548 1.257014805 1.194797758 1.385655389 0.748670399 1 12.47293859 -5.054477652 1.45665129 1.033024967 1.324007652 0.587546277 0.109338013 0.190110529 0.717704951 0.01046093 0.051632206 8.82E-06 5.054477652 0.290982685 KAEPSEVDMNS(ph)PK ddPTM_HeLa_SAHA_4h_R1 6 KAEPSEVDMNSPK 13 1 Q9NR30 Q9NR30 DDX21 Nucleolar RNA helicase 2 1 0 KAEPS(0.002)EVDMNS(0.998)PK;KAEPSEVDMNS(1)PK;KAEPS(0.001)EVDMNS(0.999)PK;KAEPSEVDMNS(1)PK;KAEPSEVDMNS(1)PK;KAEPSEVDMNS(1)PK ;;;;; 119.76 0.00061234 222174200 51272.8 38094.74 34990.45 44337.5 43046.14 44644.7 47911.6 49014.7 45133.6 39385.7 TRUE FALSE FALSE 56665.90835 39329.03457 39758.7663 45195.71643 39747.95405 40840.7204 42520.46067 47760.97495 44819.5116 41083.81028 1.379275875 0.957287903 0.967747783 1.100085803 0.967484607 0.994083074 1.034968772 1.162525448 1.090928794 1 15.32628237 -7.216413013 24.99861887 1.179102688 1.023727696 0.226454052 0.108043333 543.7274934 301877.6853 0.024862589 0.030450261 6.08E-08 7.216413013 -0.155374992 KAEQGS(ph)EEEGEGEEEEEEGGESK ddPTM_HeLa_SAHA_4h_R1 1 KAEQGSEEEGEGEEEEEEGGESK 23 1 Q8NE71;Q5STZ8 Q8NE71 ABCF1 ATP-binding cassette sub-family F member 1 1 0 KAEQGS(1)EEEGEGEEEEEEGGESK 101.06 5.68E-05 104300000 2095.7 2596.5 1586.2 2423.4 2364.2 3092.5 3264.3 2590.8 3454.5 2427.7 TRUE FALSE FALSE 2316.135341 2680.628304 1802.359075 2470.308411 2183.055507 2829.001602 2896.992373 2524.531087 3430.459853 2532.370028 0.914611734 1.058545266 0.711728166 0.975492674 0.862060237 1.117135952 1.143984623 0.996904504 1.354643996 1 11.30627251 -5.247498559 24.42047215 0.942928006 1.091806003 0.042286772 0.161356863 511.3717165 895779.3055 0.013002403 0.032952227 5.66E-06 5.247498559 0.148877997 KAGLSEEDDS(ph)LVDVYYR ddPTM_HeLa_SAHA_4h_R1 1 KAGLSEEDDSLVDVYYR 17 1 A0A3B3IUD7;Q14690 A0A3B3IUD7 PDCD11 Protein RRP5 homolog 1 0 KAGLS(0.003)EEDDS(0.997)LVDVYYR 77.576 0.0057073 4570600 1573.6 1855.8 1478.6 1898.1 2222 2262.2 2317.5 2127.2 1661 1830.1 TRUE FALSE FALSE 1739.118468 1915.929138 1680.095908 1934.84047 2051.75084 2069.447833 2056.728801 2072.789304 1649.440966 1909.004567 0.911008018 1.00362732 0.880090041 1.013533704 1.074775239 1.084045512 1.07738286 1.085795885 0.864031964 1 10.89860484 -5.928764913 3.694590494 0.955369317 1.080300671 0.69140275 0.045464902 0.103091004 2.827858665 0.006160383 0.011492735 1.18E-06 5.928764913 0.124931353 KAGNFYVPAEPK ddPTM_HeLa_SAHA_4h_R1 1 KAGNFYVPAEPK 12 1 P18124;A8MUD9;C9JZ88;C9JIJ5 P18124 RPL7 60S ribosomal protein L7 0 0 73.848 0.023375 1644500 2333.4 1854 1909.2 2457.5 2612 2922.4 2527.2 2454 2632.3 2331.1 FALSE FALSE TRUE 2578.837718 1914.070816 2169.375833 2505.068466 2411.869124 2673.395079 2242.832805 2391.230233 2613.98161 2431.605129 1.060549547 0.787163505 0.892157944 1.03021187 0.991883549 1.099436355 0.922367196 0.983395784 1.075002507 1 11.24769325 KAIACLLFGGSR ddPTM_HeLa_SAHA_4h_R1 2 KAIACLLFGGSR 12 1 B1AHB1;P33992 B1AHB1 MCM5 DNA helicase;DNA replication licensing factor MCM5 0 0 ; ; 101.72 0.0040414 1355330 531.73 649.16 803.23 699.46 863.57 652.45 706.28 202.81 359.98 637.71 FALSE FALSE TRUE 587.6598011 670.1932099 912.6900014 712.9990597 797.4034532 596.8575894 626.8075156 197.6224139 357.4748699 665.204799 0.883426881 1.00749906 1.372043621 1.071848942 1.198733765 0.897253884 0.942277501 0.297085069 0.537390696 1 9.377654766 -4.200742508 2.710779242 1.003014329 0.092101009 0.506283292 0.205566623 0.301147568 2.520514004 0.022324063 0.652751291 6.30E-05 4.200742508 -0.91091332 K(ac)GSK(ac)K(ac)AITK ddPTM_HeLa_SAHA_4h_R1 2 KGSKKAITK 9 3 P33778 P33778 HIST1H2BB Histone H2B type 1-B 0 3 ; K(1)GSK(1)K(1)AITK;K(1)GSK(1)K(1)AITK 121.08 0.0074717 52443000 1444.15 1869.77 3509.1 8719.2 14409.5 11849.9 18374.9 12882.6 666.72 544.39 FALSE TRUE FALSE 1596.052323 1930.351775 3987.301873 8887.972724 13305.44722 10840.22185 16307.30789 12553.08175 662.0802412 567.8613171 2.810637518 3.399336628 7.021612062 15.65166081 23.43080401 19.08955854 28.71706067 22.10589341 1.165918898 1 9.149394828 -6.168061127 1.27743918 1.795890673 24.24643995 0.947608417 2.283761456 0.058069989 0.186649872 0.349703725 0.714403301 6.79E-07 6.168061127 22.45054928 up KAKDDATLSGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 KAKDDATLSGKR 12 3 Q13442 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 0 1 ; KAKDDATLSGK(1)R;KAKDDATLSGK(1)R 84.352 0.0084599 69141000 16920.3 8642.4 14326.3 20599.7 16890.4 15525 22579.4 29000.7 7036.3 10325.3 FALSE TRUE FALSE 18700.05479 8922.41943 16278.61356 20998.43698 15596.2612 14202.18266 20038.70649 28258.90409 6987.333815 10770.47421 1.736233189 0.828414725 1.511411033 1.949629753 1.448057058 1.318621852 1.86052221 2.62373815 0.648748948 1 13.39479415 -1.06739701 0.747802545 1.353709929 200 0.534946074 0.38040029 190.7582287 0.873642288 0.059037595 63740.80335 0.085625474 1.06739701 198.6462901 KALDS(ph)NSLENDDLSAPGREPGHFNPESR ddPTM_HeLa_SAHA_4h_R1 1 KALDSNSLENDDLSAPGREPGHFNPESR 28 2 Q32MZ4-3;Q32MZ4-2;Q32MZ4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 KALDS(0.582)NS(0.417)LENDDLS(0.001)APGREPGHFNPESR 60.517 0.0014798 16004000 1227.7 1330 1110.7 1254.7 1771.5 1675.5 1626.4 1419.2 1413.2 1236.3 TRUE FALSE FALSE 1356.835119 1373.092873 1262.060412 1278.986533 1635.768053 1532.737974 1443.393192 1382.898919 1403.365426 1289.602943 1.052134012 1.064740802 0.978642627 0.991767691 1.268427667 1.188534798 1.119253953 1.072344729 1.088215123 1 10.33271123 -5.783109278 24.99884424 1.02265101 1.160962338 0.566377787 0.056784492 120.4029453 138899.1397 0.008184079 0.014844518 1.65E-06 5.783109278 0.138311328 KALVVPEPEPDS(ph)DSNQER ddPTM_HeLa_SAHA_4h_R1 1 KALVVPEPEPDSDSNQER 18 1 C9J0A5;C9JXC9;Q5VTR2 C9J0A5 RNF20 E3 ubiquitin-protein ligase BRE1A 1 0 KALVVPEPEPDS(0.996)DS(0.004)NQER 152.48 3.07E-05 74745000 2197.3 1943.1 2234.9 2100 2226.7 2507.9 2317.4 2530.8 1756 2586.7 TRUE FALSE FALSE 2428.422096 2006.057715 2539.460533 2140.648537 2056.090727 2294.212811 2056.640053 2466.065801 1743.779853 2698.225296 0.900007164 0.743473022 0.94115956 0.793354261 0.762015955 0.850267327 0.762219543 0.913958447 0.646269181 1 11.3977951 -8.044299498 0.65928701 0.992055276 0.817426974 0 0.125707099 0.341355619 0.332817137 0.024686528 0.016195078 9.03E-09 8.044299498 -0.174628302 KALVVPEPEPDSDS(ph)NQER ddPTM_HeLa_SAHA_4h_R1 2 KALVVPEPEPDSDSNQER 18 1 C9J0A5;C9JXC9;Q5VTR2 C9J0A5 RNF20 E3 ubiquitin-protein ligase BRE1A 1 0 KALVVPEPEPDS(0.291)DS(0.709)NQER;KALVVPEPEPDS(0.047)DS(0.953)NQER ; 186.88 5.49E-13 71230000 4382.94 4359.22 4651.65 5338.55 5699.38 6221.72 7062.33 6241.37 4372.74 4278.83 TRUE FALSE FALSE 4843.957739 4500.461588 5285.552637 5441.885355 5262.694736 5691.594454 6267.658041 6081.724793 4342.309746 4463.311301 1.085283417 1.008323481 1.184222269 1.219248443 1.179100981 1.275195493 1.404261907 1.362603767 0.972889734 1 12.12389872 -4.850929014 0.339510224 1.009831398 1.603302193 0.889019784 0.047908315 1.015425947 0.110763785 0.018144593 0.233776296 1.41E-05 4.850929014 0.593470795 KANNSQEPS(ph)PQLASSVASTR ddPTM_HeLa_SAHA_4h_R1 2 KANNSQEPSPQLASSVASTR 20 1 Q96HC4;H0Y8Y3;Q96HC4-7;Q96HC4-4 Q96HC4 PDLIM5 PDZ and LIM domain protein 5 1 0 KANNSQEPS(1)PQLASSVASTR;KANNSQEPS(0.999)PQLAS(0.001)SVASTR ; 115.38 0.0001576 51946000 4716.3 4485 4550.8 4505.2 5408.4 5663.3 5910.8 4928.4 5013.2 4714 TRUE FALSE FALSE 5212.382073 4630.316943 5170.959324 4592.404661 4994.00956 5180.754979 5245.701228 4802.338664 4978.312733 4917.24361 1.060021119 0.941648881 1.051597142 0.933938813 1.015611582 1.053589244 1.066797101 0.976632245 1.012419381 1 12.26363412 -11.5759222 13.24743808 3.68E-07 1.0197345 0 0.046664012 0 0 0 0.006081401 2.66E-12 11.5759222 1.019734132 KANSSVGK(ac)WQDR ddPTM_HeLa_SAHA_4h_R1 1 KANSSVGKWQDR 12 2 Q6UN15-5;Q6UN15;A0A0B4J203;Q6UN15-4 Q6UN15-5 FIP1L1 Pre-mRNA 3-end-processing factor FIP1 0 1 KANSSVGK(1)WQDR 112.42 0.0020199 3747800 284.98 278.51 318.98 513.02 426.29 578.57 799.16 570.87 528.66 434.45 FALSE TRUE FALSE 314.9555039 287.5339067 362.4489332 522.9502439 393.6277523 529.2725811 709.2364135 556.267972 524.981012 453.1812656 0.694987917 0.634478802 0.799787989 1.153953801 0.868587875 1.167904812 1.565017063 1.227473451 1.158434939 1 8.823944412 -5.196369949 1.405063216 0.842372462 1.416688955 0.505254187 0.189345874 0.241068519 0.862540712 0.027599169 0.117659547 6.36E-06 5.196369949 0.574316493 KAPAGPSLEETSVSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 KAPAGPSLEETSVSSPK 17 1 A0A087WXZ7;K7EIX2;Q6AI08 A0A087WXZ7 HEATR6 HEAT repeat-containing protein 6 1 0 KAPAGPSLEETSVS(0.007)S(0.993)PK;KAPAGPSLEET(0.001)S(0.12)VS(0.219)S(0.66)PK;KAPAGPSLEETSVS(0.031)S(0.969)PK;KAPAGPSLEETSVS(0.006)S(0.994)PK ;;; 202.21 9.25E-16 67765000 18374.4 19578.6 17058 20108.6 21364.2 24568.2 20723.2 21870.4 22619.3 20563.5 TRUE FALSE FALSE 20307.1037 20212.95949 19382.57541 20497.83103 19727.27961 22474.85114 18391.371 21310.98684 22461.89045 21450.09312 0.946714011 0.942325023 0.903612646 0.95560569 0.919682703 1.047774059 0.857402851 0.993514887 1.047169834 1 14.38869629 -8.974543351 0.788297286 1.000106824 0.944273591 0.241795097 0.050658242 0.881745537 1.005382813 0.028709464 0.00897379 1.06E-09 8.974543351 -0.055833233 KAPAGQEEPGT(ph)PPS(ph)SPLSAEQLDR ddPTM_HeLa_SAHA_4h_R1 3 KAPAGQEEPGTPPSSPLSAEQLDR 24 1 P13051;Q68DM5;F5GYA2;P13051-2 P13051 UNG;DKFZp781L1143 Uracil-DNA glycosylase 2 0 KAPAGQEEPGT(1)PPS(0.96)S(0.037)PLS(0.003)AEQLDR;KAPAGQEEPGT(1)PPS(0.542)S(0.447)PLS(0.011)AEQLDR;KAPAGQEEPGT(1)PPS(0.617)S(0.371)PLS(0.012)AEQLDR ;; 129.42 6.03E-07 40322000 3489.35 3790.44 3389.45 3944.43 3316.9 3979.43 4285.89 4330.6 4217.29 3854.28 TRUE FALSE FALSE 3856.375843 3913.252743 3851.346595 4020.780146 3062.759839 3640.360176 3803.630377 4219.829523 4187.941536 4020.456873 0.959188461 0.973335336 0.957937547 1.000080407 0.761793979 0.905459327 0.94606919 1.049589551 1.041658117 1 11.97314374 KAPAGQEEPGT(ph)PPSS(ph)PLSAEQLDR ddPTM_HeLa_SAHA_4h_R1 1 KAPAGQEEPGTPPSSPLSAEQLDR 24 1 P13051;Q68DM5;F5GYA2;P13051-2 P13051 UNG;DKFZp781L1143 Uracil-DNA glycosylase 2 0 KAPAGQEEPGT(1)PPS(0.275)S(0.639)PLS(0.085)AEQLDR 105.53 2.06E-05 22501000 4556.7 4801.6 4563.7 4821.6 3833.9 5091.5 4987.6 4206.4 5358.3 4907.2 TRUE FALSE FALSE 5035.994613 4957.17499 5185.617269 4914.92904 3540.14741 4657.675556 4426.382121 4098.806379 5321.011154 5118.773407 0.983828393 0.968430246 1.01305857 0.960177107 0.691600727 0.909920246 0.864734922 0.800739953 1.039509025 1 12.32158243 -5.972944319 23.42296549 0.9911966 0.826713558 0.712024002 0.055462794 42.48267616 36778.11557 0.007205035 0.013059873 1.06E-06 5.972944319 -0.164483041 KAPAGQEEPGT(ph)PPSSPLSAEQLDR ddPTM_HeLa_SAHA_4h_R1 3 KAPAGQEEPGTPPSSPLSAEQLDR 24 1 P13051;Q68DM5;F5GYA2;P13051-2 P13051 UNG;DKFZp781L1143 Uracil-DNA glycosylase 1 0 KAPAGQEEPGT(0.964)PPS(0.026)S(0.01)PLSAEQLDR;KAPAGQEEPGT(0.953)PPS(0.038)S(0.009)PLSAEQLDR;KAPAGQEEPGT(0.998)PPS(0.001)S(0.001)PLSAEQLDR ;; 122.38 3.78E-06 191750000 4201.9 3917.48 3945.71 4939.6 4638.25 4484.4 4967.5 4762.2 5249.8 4540 TRUE FALSE FALSE 4643.875121 4044.408922 4483.41081 5035.213101 4282.868287 4102.303891 4408.543826 4640.38982 5213.266214 4735.741618 0.980601455 0.854018071 0.946717784 1.063236449 0.904371191 0.866243183 0.930908859 0.979865498 1.100834174 1 12.20937465 -7.495060161 22.39898868 0.991441947 0.935077856 0.247528461 0.065479101 122.6964285 98795.53484 0.009890906 0.010736163 3.20E-08 7.495060161 -0.056364091 KAPAGQEEPGTPPS(ph)SPLSAEQLDR ddPTM_HeLa_SAHA_4h_R1 2 KAPAGQEEPGTPPSSPLSAEQLDR 24 1 P13051;Q68DM5;F5GYA2;P13051-2 P13051 UNG;DKFZp781L1143 Uracil-DNA glycosylase 1 0 KAPAGQEEPGTPPS(0.638)S(0.36)PLS(0.002)AEQLDR;KAPAGQEEPGTPPS(0.9)S(0.096)PLS(0.004)AEQLDR ; 153.77 1.12E-07 21714000 2154.7 1909.33 2162.6 2132.6 2118.9 2850.6 2841 2355.3 1724.58 2379.1 TRUE FALSE FALSE 2381.341232 1971.193545 2457.307866 2173.879557 1956.55034 2607.712843 2521.323203 2295.054836 1712.578507 2481.674644 0.95957028 0.794299748 0.990181316 0.875972828 0.788399214 1.05078756 1.015976534 0.924800857 0.69008986 1 11.27709827 -7.609911095 4.142398823 0.983792786 0.92204134 0 0.123803823 0.347783042 12.40532881 0.015050189 0.01587237 2.46E-08 7.609911095 -0.061751446 KAPAPPVLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 KAPAPPVLSPK 11 1 Q8NDI1-3;Q8NDI1-2;Q8NDI1 Q8NDI1-3 EHBP1 EH domain-binding protein 1 1 0 KAPAPPVLS(1)PK 83.856 0.010793 5905800 3302.6 3348.3 3406.1 3486.9 4288 4292.3 3935.4 3181.5 3474.7 3652.1 TRUE FALSE FALSE 3649.982621 3456.787117 3870.26557 3554.393992 3959.454366 3926.571892 3492.578435 3100.121837 3450.51928 3809.559904 0.95811136 0.907398021 1.015935086 0.933019583 1.039346924 1.030715356 0.916793153 0.813774272 0.905752729 1 11.89540863 -4.409038303 3.263107827 0.980679822 0.812071164 0.517630684 0.046636331 0.134900989 2.352344192 0.005589227 0.045504933 3.90E-05 4.409038303 -0.168608658 KAPDFVFYAPR ddPTM_HeLa_SAHA_4h_R1 1 KAPDFVFYAPR 11 1 E7EQR4;P15311;A0A2R8Y7M3;A0A2R8Y5S7;P35241;P35241-5;P35241-4;P26038 E7EQR4;A0A2R8Y7M3;P26038 EZR;RDX;MSN Ezrin;Radixin;Moesin 0 0 95.618 0.0062941 1067400 863.62 961.08 1607.5 1266.9 1334.4 876.44 1617.2 499.7 501.45 990.34 FALSE FALSE TRUE 954.459514 992.2196226 1826.561728 1291.422681 1232.15856 801.7623813 1435.2284 486.9183976 497.9603686 1033.038404 0.923934203 0.960486676 1.768145038 1.250120689 1.19275194 0.776120595 1.389327245 0.471345882 0.482034711 1 10.01267817 -3.309435708 14.29827424 1.037385322 1.045142805 0 0.380068998 0 0 0.042492592 0 0.000490416 3.309435708 0.007757483 KAPEPEEEIEEVEES(ph)EDEGEDPALDSLSQAIAFQQAK ddPTM_HeLa_SAHA_4h_R1 2 KAPEPEEEIEEVEESEDEGEDPALDSLSQAIAFQQAK 37 1 G3V1V1;Q8TBF4 G3V1V1 ZCRB1 Zinc finger CCHC-type and RNA-binding motif-containing protein 1 1 0 KAPEPEEEIEEVEES(0.906)EDEGEDPALDS(0.071)LS(0.023)QAIAFQQAK;KAPEPEEEIEEVEES(0.992)EDEGEDPALDS(0.007)LS(0.002)QAIAFQQAK ; 99.7 4.24E-12 10377300 1283.67 1662.63 1388.25 1491.1 1798.45 2015.79 1868.13 1637.15 1492.39 1460.56 TRUE FALSE FALSE 1418.6923 1716.500303 1577.43348 1519.962397 1660.65315 1844.033351 1657.923096 1595.274074 1482.004336 1523.531889 0.931186482 1.126658598 1.035379365 0.997657094 1.090002225 1.210367413 1.088210301 1.047089388 0.972742577 1 10.57320398 -6.624857381 0.855744192 0.969966297 1.106385285 0.355095538 0.062309225 0.412519306 0.604710046 0.013756985 0.024234795 2.37E-07 6.624857381 0.136418988 KAPLNIPGT(ph)PVLEDFPQNDDEKER ddPTM_HeLa_SAHA_4h_R1 1 KAPLNIPGTPVLEDFPQNDDEKER 24 2 C9J470;E9PHA2;Q15003;C9JZP1 C9J470 NCAPH Condensin complex subunit 2 1 0 KAPLNIPGT(1)PVLEDFPQNDDEKER 60.332 0.011566 6847000 1046 782.72 1001.3 992.12 1322.8 983.32 1095.2 1036.7 1014.7 863.75 TRUE FALSE FALSE 1156.023079 808.0806416 1137.751949 1011.323917 1221.44735 899.535604 971.9652136 1010.182715 1007.63862 900.9904896 1.283058026 0.896880323 1.262779089 1.122457927 1.355671746 0.998385238 1.07877411 1.121191319 1.118367654 1 9.815368068 -3.413099902 13.42995439 1.12997519 0.419728977 0 0.135441057 376997.9114 15968.42726 0.019237891 0 0.000386278 3.413099902 -0.710246214 KAPPPPIS(ph)PTQLSDVSSPR ddPTM_HeLa_SAHA_4h_R1 2 KAPPPPISPTQLSDVSSPR 19 1 Q9P0K7-3;Q9P0K7;Q9P0K7-2 Q9P0K7-3 RAI14 Ankycorbin 1 0 KAPPPPIS(0.882)PT(0.118)QLSDVSSPR;KAPPPPIS(0.395)PT(0.395)QLS(0.07)DVS(0.07)S(0.07)PR ; 190.63 3.43E-14 11486000 4292.5 4353 4252.6 4164.9 4748.9 5492.6 5489.5 5794.5 4715 4497.3 TRUE FALSE FALSE 4744.004845 4494.040056 4832.122181 4245.517662 4385.040308 5024.599579 4871.807012 5646.28508 4682.187931 4691.200612 1.011256017 0.957972261 1.030039553 0.904995973 0.934737324 1.071069007 1.038498972 1.203590626 0.998078811 1 12.19574148 -3.958589371 1.287642165 0.993785215 1.436577851 0.692214539 0.04361642 1.212656459 1.026740986 0.006443509 0.850402452 0.000110005 3.958589371 0.442792636 TTK(ac)LGQR ddPTM_HeLa_SAHA_4h_R1 2 TTKLGQR 7 1 O60885;O60885-2;O60885-3;M0QZD9 O60885 BRD4 Bromodomain-containing protein 4 0 1 ; TTK(1)LGQR;TTK(1)LGQR 110.12 0.0069741 9168000 3083.6 3162.7 3014.2 5070.6 5903.4 4415.2 8283.1 4955.4 1470.33 1735.03 FALSE TRUE FALSE 3407.947196 3265.173555 3424.959479 5168.748795 5451.082767 4039.000121 7351.063788 4828.648043 1460.097854 1809.835634 1.883014751 1.804127122 1.892414656 2.855921663 3.01192145 2.231694439 4.061730054 2.668003631 0.806757159 1 10.82164297 -6.161153952 0.241957766 0.829181332 4.04012676 0.730410389 0.478804416 1.393734885 0.169675962 0.520199915 1.474456328 6.90E-07 6.161153952 3.210945428 KAQAVS(ph)EEEEEEEGK ddPTM_HeLa_SAHA_4h_R1 1 KAQAVSEEEEEEEGK 15 1 Q9GZR7-2;Q9GZR7;G3V529 Q9GZR7-2 DDX24 ATP-dependent RNA helicase DDX24 1 0 KAQAVS(1)EEEEEEEGK 165.02 1.41E-13 0 266.46 313.49 359.62 211.96 345.1 277.43 470.73 331.19 424.51 216 TRUE FALSE FALSE 294.4874854 323.6472817 408.6271408 216.0627923 318.6585126 253.7914032 417.7622215 322.7186394 421.5558003 225.3128171 1.307016126 1.43643529 1.813599182 0.958945856 1.414293766 1.126395766 1.854143173 1.432313721 1.870980115 1 7.815785574 -11.98727478 0.16040718 9.04E-09 1.562691712 0 0.378973589 35.11710159 0.592976005 11.89114084 0.549943175 1.03E-12 11.98727478 1.562691703 KAQAVSEEEEEEEGKSS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 KAQAVSEEEEEEEGKSSSPK 20 2 Q9GZR7-2;Q9GZR7;G3V529 Q9GZR7-2 DDX24 ATP-dependent RNA helicase DDX24 1 0 KAQAVSEEEEEEEGKS(0.09)S(0.455)S(0.455)PK 63.46 0.0044002 7606900 1934.3 1589.6 1439.3 1625.7 2036.9 1699.6 2064.8 2035 2222.8 2004.3 TRUE FALSE FALSE 2137.758549 1641.104083 1635.440308 1657.167774 1880.833162 1554.784518 1832.46327 1982.947647 2207.331354 2090.715182 1.022501088 0.784948661 0.782239648 0.792632009 0.899612333 0.743661562 0.876476761 0.948454225 1.055778125 1 11.02978082 -7.267892413 24.96052733 1.010625518 0.829949919 0.680921205 0.060409646 208.4052156 806116.1631 0.009846354 0.011402032 5.40E-08 7.267892413 -0.180675599 KAS(ph)GSENEGDYNPGR ddPTM_HeLa_SAHA_4h_R1 2 KASGSENEGDYNPGR 15 1 Q02880-2;Q02880 Q02880-2 TOP2B DNA topoisomerase 2-beta 1 0 KAS(0.91)GS(0.09)ENEGDYNPGR;KAS(0.978)GS(0.022)ENEGDYNPGR ; 63.392 0.019251 17962500 3369.7 3196.6 2353.8 2600.8 4091.1 4834.2 5256.7 5388.3 2498.5 3125.2 TRUE FALSE FALSE 3724.140507 3300.171937 2674.563606 2651.142245 3777.640802 4422.298964 4665.202281 5250.475088 2481.112735 3259.942666 1.14239448 1.012340484 0.820432713 0.81324812 1.158805902 1.356557282 1.431068813 1.610603506 0.761090911 1 11.67063088 -5.128018871 1.926845764 1.027678726 1.529682604 0.735484273 0.139262683 0.145100126 1.022576763 0.019291678 0.070243697 7.45E-06 5.128018871 0.502003878 KAS(ph)PEAASTPR ddPTM_HeLa_SAHA_4h_R1 4 KASPEAASTPR 11 1 P29590;P29590-4;P29590-5;P29590-9;P29590-3;P29590-8;H3BVD2;H3BT29;P29590-14;P29590-10;P29590-11;H3BT57;P29590-12;P29590-13;H3BUJ5;P29590-2 P29590;P29590-11;P29590-2 PML Protein PML 1 0 KAS(0.997)PEAAS(0.003)T(0.001)PR;KAS(0.95)PEAAS(0.048)T(0.002)PR;KAS(0.987)PEAAS(0.01)T(0.003)PR;KAS(0.992)PEAAS(0.008)TPR ;;; 138.31 0.0025464 23590200 3532.7 4944.3 2688.55 4371.3 4591.65 6384.7 4768.1 4308.68 6567.1 4681.59 TRUE FALSE FALSE 3904.285595 5104.498564 3054.931593 4455.912833 4239.838769 5840.687641 4231.580839 4198.470204 6521.399016 4883.436256 0.799495558 1.045267778 0.625570077 0.912454386 0.86820807 1.196020043 0.866517062 0.859736871 1.335411926 1 12.25368095 -4.560554134 24.99997665 0.911164045 0.86142692 0 0.195675329 623.5521536 413764.6563 0.019957898 0.074675966 2.75E-05 4.560554134 -0.049737125 KAS(ph)PEAASTPRDPIDVDLDVSNTTTAQK ddPTM_HeLa_SAHA_4h_R1 1 KASPEAASTPRDPIDVDLDVSNTTTAQK 28 2 P29590-11;H3BT57;P29590-12;P29590-13;H3BUJ5 P29590-11 PML Protein PML 1 0 KAS(0.911)PEAAS(0.044)T(0.044)PRDPIDVDLDVSNTTTAQK 100.92 3.18E-07 18903000 2177.5 2493.8 2052.9 2356.8 2723.9 2337 2823.4 2723.1 2507.2 2302.5 TRUE FALSE FALSE 2406.539441 2574.600756 2332.658521 2402.419272 2515.19537 2137.874452 2505.703601 2653.447045 2489.752191 2401.772043 1.00198495 1.071958833 0.971223946 1.00026948 1.047224851 0.890123798 1.043272865 1.104787214 1.036631348 1 11.22988351 -4.521750456 24.99999627 1.000038028 1.089408664 0.309529078 0.046786755 26.7317988 592276.1903 0.005697305 0.021907041 3.01E-05 4.521750456 0.089370636 KAS(ph)PEAASTPRDPIDVDLPEEAER ddPTM_HeLa_SAHA_4h_R1 2 KASPEAASTPRDPIDVDLPEEAER 24 2 P29590;P29590-4;P29590-5;P29590-9;P29590-3;P29590-8;H3BVD2;H3BT29;P29590-2 P29590;P29590-2 PML Protein PML 1 0 KAS(0.958)PEAAS(0.01)T(0.031)PRDPIDVDLPEEAER;KAS(0.993)PEAAS(0.004)T(0.004)PRDPIDVDLPEEAER ; 72.564 0.00044272 92207000 1545.36 1487.19 1085.49 1453.3 1526.4 1699.41 1788.65 1881.8 1443.25 1400.69 TRUE FALSE FALSE 1707.908055 1535.375932 1233.414924 1481.430723 1409.447562 1554.610707 1587.386395 1833.666281 1433.206306 1461.080601 1.168934865 1.050849577 0.844179933 1.013928131 0.964661061 1.064014337 1.086446835 1.255006931 0.980922137 1 10.51282005 -4.232308154 2.415741691 1.048824564 1.31182328 0.377789873 0.084740904 0.65036082 4.288594248 0.014160484 0.364807844 5.86E-05 4.232308154 0.262998717 KAS(ph)PEPEGEAAGK ddPTM_HeLa_SAHA_4h_R1 6 KASPEPEGEAAGK 13 1 Q8IU81 Q8IU81 IRF2BP1 Interferon regulatory factor 2-binding protein 1 1 0 KAS(1)PEPEGEAAGK;KAS(1)PEPEGEAAGK;KAS(1)PEPEGEAAGK;KAS(1)PEPEGEAAGK;KAS(1)PEPEGEAAGK;KAS(1)PEPEGEAAGK ;;;;; 148.33 0.0005077 377112400 22346.3 22050 19920.6 22858 23531.7 27081.9 25756 25532 24610.3 23606.2 TRUE FALSE FALSE 24696.78636 22764.43447 22635.27563 23300.44964 21728.70623 24774.36976 22857.86709 24878.92841 24439.03492 24623.97881 1.002956775 0.924482377 0.919237131 0.946250394 0.882420603 1.0061075 0.928276753 1.010353713 0.992489277 1 14.58777627 -7.272725965 24.14391637 1.001396258 0.943602992 0.305589681 0.036593267 349.5008495 747640.3456 0.005783318 0.006648472 5.34E-08 7.272725965 -0.057793265 KAS(ph)PEPPDSAEGALK ddPTM_HeLa_SAHA_4h_R1 5 KASPEPPDSAEGALK 15 1 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 KAS(0.775)PEPPDS(0.225)AEGALK;KAS(1)PEPPDSAEGALK;KAS(1)PEPPDSAEGALK;KAS(0.993)PEPPDS(0.007)AEGALK;KAS(0.939)PEPPDS(0.061)AEGALK ;;;; 172.93 1.58E-06 396201000 14645 15540 13789.9 16635.6 16324.4 19455.1 16513 14922.7 17229.9 15421.2 TRUE FALSE FALSE 16185.42829 16043.5062 15669.11576 16957.60609 15073.628 17797.41603 14654.91378 14540.99894 17109.99572 16086.0834 1.006175828 0.997353165 0.974078983 1.054178675 0.937060167 1.10638591 0.911030573 0.903948996 1.063652058 1 13.97352548 -4.572811428 24.99960123 1.005145287 0.905718776 0.454571399 0.046657329 50.81877414 25443.09691 0.00496528 0.018578387 2.67E-05 4.572811428 -0.099426511 KAS(ph)PEPPDSAEGALKLGEEQQR ddPTM_HeLa_SAHA_4h_R1 3 KASPEPPDSAEGALKLGEEQQR 22 2 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 KAS(0.97)PEPPDS(0.03)AEGALKLGEEQQR;KAS(1)PEPPDSAEGALKLGEEQQR;KAS(0.999)PEPPDS(0.001)AEGALKLGEEQQR ;; 78.206 0.0008186 61281000 7253.41 3395.93 6792.5 5062.58 5029.67 4273.36 6114.67 7569.54 2421.13 5305.61 TRUE FALSE FALSE 8016.356944 3505.96036 7718.146526 5160.573557 4644.297771 3909.245687 5426.631239 7375.922127 2404.281159 5534.360812 1.448470242 0.633489662 1.394586798 0.932460628 0.839175097 0.706359021 0.980534415 1.332750498 0.434427975 1 12.43420099 -7.277623446 24.92235044 1.2117776 0.973507065 0 0.349037086 1141.400061 1757673.36 0.046201027 0.052917763 5.28E-08 7.277623446 -0.238270535 KAS(ph)QQSNQIQTQR ddPTM_HeLa_SAHA_4h_R1 1 KASQQSNQIQTQR 13 1 Q05D32;H0YMH7;Q05D32-2;H0YNU2;H0YNW9 Q05D32 CTDSPL2 CTD small phosphatase-like protein 2 1 0 KAS(0.996)QQS(0.004)NQIQTQR 66.977 0.019081 1050900 0 50.203 0 0 0 0 160.06 115.4 98.999 108.01 TRUE FALSE FALSE 0 51.82961014 0 0 0 0 142.0496275 112.4482351 98.3100579 112.6668397 0 0.460025419 0 0 0 0 1.260793575 0.998059726 0.872573138 1 6.815919151 -9.479975286 1.213128458 1.001069127 0.294821382 0.224291611 0.435997889 0.55867518 1.467456967 0.328447485 0.079937443 3.31E-10 9.479975286 -0.706247745 KAS(ph)SPSPLTIGTPESQR ddPTM_HeLa_SAHA_4h_R1 1 KASSPSPLTIGTPESQR 17 1 Q9NPI6-2;Q9NPI6 Q9NPI6-2 DCP1A mRNA-decapping enzyme 1A 1 0 KAS(0.974)S(0.026)PSPLTIGTPESQR 99.915 0.0015527 6970500 1660.3 1549.6 1738.9 2035.3 1838.8 1892.3 1983.1 2406 1636.3 1814.4 TRUE FALSE FALSE 1834.937972 1599.808057 1975.868236 2074.696175 1697.911541 1731.065394 1759.956369 2344.458004 1624.912855 1892.627663 0.969518732 0.845284092 1.043981484 1.096198801 0.897118632 0.914635999 0.929901006 1.238731764 0.858548613 1 10.8861749 KAS(ph)TAPGAEASPS(ph)PCITERSKQK ddPTM_HeLa_SAHA_4h_R1 1 KASTAPGAEASPSPCITERSKQK 23 3 Q66PJ3 Q66PJ3 ARL6IP4 ADP-ribosylation factor-like protein 6-interacting protein 4 2 0 KAS(0.334)T(0.334)APGAEAS(0.335)PS(0.994)PCIT(0.003)ERS(0.001)KQK 61.181 0.011154 19785000 638.44 1032.1 597.11 347.05 671.41 654.87 715.07 551.29 787.53 736.24 TRUE FALSE FALSE 705.5940485 1065.540717 678.4810412 353.7676546 619.9667109 599.0713918 634.6084416 537.1888001 782.0495146 767.9829095 0.918762696 1.387453684 0.883458516 0.460645218 0.807266286 0.780058234 0.826331464 0.699480149 1.0183163 1 9.584930396 -6.517323489 24.99825673 0.99930956 0.723955175 0.522263484 0.157481983 186.0578716 837247.8277 0.024665942 0.035509877 3.04E-07 6.517323489 -0.275354385 KASAISIK(ac)LGSSKPK ddPTM_HeLa_SAHA_4h_R1 1 KASAISIKLGSSKPK 15 3 Q8WW12;Q8WW12-2 Q8WW12 PCNP PEST proteolytic signal-containing nuclear protein 0 1 KASAISIK(1)LGSSKPK 134.06 5.60E-05 3374700 1200.8 1328.2 1649.9 2521.2 2757.1 2631.8 2728.2 3033.4 1561.5 1505.7 FALSE TRUE FALSE 1327.105653 1371.234551 1874.73978 2570.001472 2545.851594 2407.555834 2421.215756 2955.81002 1550.633394 1570.618096 0.844957572 0.873054089 1.193631848 1.636299415 1.620923381 1.532871575 1.541568738 1.881940637 0.9872759 1 10.61711671 -6.432508438 2.731190857 0.921178534 1.633470372 0.917188307 0.101925895 0.05629424 0.820317292 0.017006313 0.02675725 3.69E-07 6.432508438 0.712291838 KASGPPVSELITK(ac)AVAASK ddPTM_HeLa_SAHA_4h_R1 2 KASGPPVSELITKAVAASK 19 2 P10412;P16403;P16402 P10412;P16403;P16402 HIST1H1E;HIST1H1C;HIST1H1D Histone H1.4;Histone H1.2;Histone H1.3 0 1 ; KASGPPVSELITK(1)AVAASK;K(0.447)ASGPPVSELITK(0.553)AVAASK 89.049 0.0043524 1450290 354.17 413.86 398.42 43.109 381.22 230.34 468.25 538.93 203.52 287.1 FALSE TRUE FALSE 391.4232256 427.2693355 452.7146027 43.94343703 352.011006 210.7137361 415.5612776 525.144951 202.1036877 299.478286 1.307017049 1.426712237 1.511677553 0.146733299 1.17541412 0.703602718 1.38761739 1.753532645 0.674852559 1 8.226307593 -4.523728622 24.86410752 1.099491091 1.662054013 0.239935205 0.398605369 24.49857084 716783.9647 0.051421368 0.195971236 2.99E-05 4.523728622 0.562562923 KASGS(ph)ENEGDYNPGR ddPTM_HeLa_SAHA_4h_R1 3 KASGSENEGDYNPGR 15 1 Q02880-2;Q02880 Q02880-2 TOP2B DNA topoisomerase 2-beta 1 0 KAS(0.046)GS(0.954)ENEGDYNPGR;KASGS(1)ENEGDYNPGR;KAS(0.002)GS(0.998)ENEGDYNPGR ;; 195.28 4.78E-09 14925000 1566.34 1223.28 863.18 807.99 1383.58 1498.34 1581.31 1433.48 785.41 1359.99 TRUE FALSE FALSE 1731.094828 1262.915075 980.8096752 823.6298148 1277.570399 1370.673003 1403.376837 1396.813657 779.9442679 1418.625825 1.220261748 0.890238323 0.691380108 0.580582843 0.900568971 0.966197696 0.989250874 0.984624439 0.549788573 1 10.4702784 -7.13868424 6.199591855 1.103594913 0.848775702 0 0.21972122 0.192577035 9.056133447 0.026215905 0.032200065 7.27E-08 7.13868424 -0.254819211 KASS(ph)PSPLT(ph)IGTPESQR ddPTM_HeLa_SAHA_4h_R1 1 KASSPSPLTIGTPESQR 17 1 Q9NPI6-2;Q9NPI6 Q9NPI6-2 DCP1A mRNA-decapping enzyme 1A 2 0 KAS(0.432)S(0.582)PS(0.135)PLT(0.473)IGT(0.306)PES(0.072)QR 111.73 0.00035404 0 700.49 960.66 857.77 1090.2 1001.5 808.83 808.7 815.04 1231.9 878.45 TRUE FALSE FALSE 774.1707522 991.7860143 974.6624285 1111.302397 924.7652864 739.9131336 717.7029476 794.192457 1223.327108 916.3242785 0.844865481 1.082352653 1.063665398 1.21278288 1.009211813 0.807479569 0.783241222 0.866715502 1.335037318 1 9.839714435 -5.255192821 23.59456533 0.974431113 0.815554982 0.222503352 0.151273174 252.5947086 954093.5841 0.017550595 0.043471331 5.56E-06 5.255192821 -0.158876131 KASSPS(ph)PLTIGTPES(ph)QR ddPTM_HeLa_SAHA_4h_R1 1 KASSPSPLTIGTPESQR 17 1 Q9NPI6-2;Q9NPI6 Q9NPI6-2 DCP1A mRNA-decapping enzyme 1A 2 0 KAS(0.034)S(0.26)PS(0.68)PLT(0.032)IGT(0.4)PES(0.594)QR 96.455 0.0011651 0 490.26 768.32 594.5 479.25 834.51 792.02 727.1 547.81 521.18 622.02 TRUE FALSE FALSE 541.8277962 793.2140721 675.515364 488.5265768 770.5700241 724.5354402 645.2847944 533.7978134 517.5530659 648.8383263 0.83507366 1.222514207 1.041115077 0.752924969 1.187614838 1.116665602 0.99452324 0.822697723 0.797661058 1 9.341715231 KASSPS(ph)PLTIGTPESQR ddPTM_HeLa_SAHA_4h_R1 3 KASSPSPLTIGTPESQR 17 1 Q9NPI6-2;Q9NPI6 Q9NPI6-2 DCP1A mRNA-decapping enzyme 1A 1 0 KAS(0.003)S(0.06)PS(0.695)PLT(0.228)IGT(0.015)PESQR;KAS(0.2)S(0.112)PS(0.682)PLT(0.006)IGTPESQR;KAS(0.168)S(0.116)PS(0.706)PLT(0.008)IGT(0.001)PESQR ;; 127.5 0.00013673 91703000 5768.7 6024.4 5923.6 4938.9 5751.6 5824.7 6463.4 5796.4 5561.2 6128.4 TRUE FALSE FALSE 6375.478334 6219.594513 6730.837359 5034.499551 5310.913651 5328.402791 5736.121221 5648.136481 5522.499156 6392.625316 0.997317693 0.972932748 1.052906596 0.787548042 0.83078757 0.8335234 0.897302898 0.883539423 0.863885944 1 12.64219282 -6.263119088 24.99999922 1.000049302 0.847762103 0.57351573 0.054706536 43.287064 644265.6493 0.005117729 0.008076691 5.46E-07 6.263119088 -0.152287199 KASTK(ac)DSESPSQK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 KASTKDSESPSQKK 14 3 E7ETY2;Q13428-6;Q13428-7;H0YA99;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8 E7ETY2;Q13428 TCOF1 Treacle protein 0 2 KASTK(1)DSESPSQK(1)K 104.07 0.01203 3117800 0 107.94 393.41 2106.7 2065.7 6658.3 2617.2 2617.5 294.57 379.01 FALSE TRUE FALSE 0 111.4373268 447.021866 2147.478225 1907.426512 6090.975381 2322.705768 2550.54814 292.5200634 395.3509759 0 0.281869361 1.13069625 5.431827302 4.824640961 15.40650144 5.875047513 6.451351572 0.739899687 1 8.626990176 -5.97848217 1.675805165 0.491579721 8.774901283 0.653429448 2.632221749 0.155593847 0.872701977 0.396129864 0.821125489 1.05E-06 5.97848217 8.283321561 KATATISAK(ac)PQITNPK ddPTM_HeLa_SAHA_4h_R1 2 KATATISAKPQITNPK 16 2 Q9Y2W2 Q9Y2W2 WBP11 WW domain-binding protein 11 0 1 ; KATATISAK(1)PQITNPK;KATATISAK(1)PQITNPK 183.36 1.63E-17 5097600 4496.5 3957.7 3909.4 4855.8 4785 5690.1 5211.7 5353.8 4430.8 4286.1 FALSE TRUE FALSE 4969.462501 4085.932077 4442.152673 4949.791031 4418.374334 5205.271468 4625.2658 5216.857548 4399.965702 4470.894747 1.111514089 0.913895833 0.993571293 1.107114193 0.988252818 1.164257215 1.034528 1.166848661 0.98413538 1 12.12634787 -5.2615904 24.99989439 1.039044949 1.11314296 0.299169636 0.068126389 17.50421982 2897862.807 0.009999126 0.0238009 5.48E-06 5.2615904 0.074098011 KAVAISLPK ddPTM_HeLa_SAHA_4h_R1 1 KAVAISLPK 9 1 P50454;E9PPV6;E9PKH2 P50454 SERPINH1 Serpin H1 0 0 96.342 0.0064309 0 2642.3 2874.3 3011.8 2970.6 3606.6 2624.2 3325.6 1539.4 1285.1 2527.2 FALSE FALSE TRUE 2920.229237 2967.429206 3422.232419 3028.100259 3330.263087 2400.603397 2951.394736 1500.024377 1276.156884 2636.15996 1.107758741 1.12566356 1.298188453 1.148678496 1.263300838 0.910644055 1.11958105 0.569018724 0.484096908 1 11.3642222 -4.259310948 24.80368507 1.088071706 0.569018524 0.288210982 0.220305199 83.9025787 977680.9024 0.016168143 0.1425036 5.50E-05 4.259310948 -0.519053182 KAVIFCLSADKK ddPTM_HeLa_SAHA_4h_R1 2 KAVIFCLSADKK 12 2 P60981;P60981-2;F6RFD5 P60981 DSTN Destrin 0 0 ; ; 100.69 0.0036081 6332200 3128.7 3527.9 5415.7 4753.8 5339.9 3711.8 5567.9 2217.43 2564.8 4888.9 FALSE FALSE TRUE 3457.791021 3642.206275 6153.723392 4845.816673 4930.758016 3395.533758 4941.385238 2160.711351 2546.951348 5099.684405 0.678040198 0.714202289 1.206687101 0.950218933 0.966875129 0.665832136 0.968959027 0.423695111 0.499433131 1 12.31619225 -4.25330161 24.4415352 0.86878105 0.423694808 0.288526983 0.198889908 653.2563685 1961972.265 0.024781241 0.363932831 5.58E-05 4.25330161 -0.445086242 KAVLFCLSEDK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 KAVLFCLSEDKK 12 2 P23528;G3V1A4;E9PP50;E9PK25;E9PQB7;E9PLJ3;E9PS23 P23528 CFL1 Cofilin-1 0 1 KAVLFCLSEDK(1)K 205.72 1.20E-24 3169100 1226.9 3212.9 1981.4 2523.5 3394.8 3023.4 3799 2089.7 2951 1242.1 FALSE TRUE FALSE 1355.950971 3317.000068 2251.414873 2572.345992 3134.691157 2765.789311 3371.526522 2036.2485 2930.463751 1295.65301 1.046538665 2.560099072 1.737668077 1.985366431 2.419390943 2.134668225 2.602183221 1.571600177 2.261765865 1 10.33946368 -7.275811 24.51525913 1.021976532 2.150469424 0.176433887 0.501530437 200.1272054 341378.3171 0.048778587 0.055922573 5.30E-08 7.275811 1.128492892 KAVPMAPAPAS(ph)PGSSNDSSAR ddPTM_HeLa_SAHA_4h_R1 2 KAVPMAPAPASPGSSNDSSAR 21 1 Q66K74-2;Q66K74 Q66K74-2 MAP1S Microtubule-associated protein 1S;MAP1S heavy chain;MAP1S light chain 1 0 KAVPMAPAPAS(1)PGSSNDSSAR;KAVPMAPAPAS(0.998)PGS(0.001)SNDSSAR ; 201.31 2.29E-21 50594000 6529.7 5343.3 6121.4 6251.8 6798 6586.4 6779.8 6993.5 5277.6 5746.3 TRUE FALSE FALSE 7216.523805 5516.426426 6955.592513 6372.812629 6277.138709 6025.201666 6016.919061 6814.616396 5240.872752 5994.051115 1.203947659 0.920316881 1.160415949 1.06318957 1.047228091 1.005196911 1.003815107 1.136896611 0.874345689 1 12.54931567 -6.004724596 22.81429538 1.088199535 1.043677453 0 0.105868894 190.4069839 919478.18 0.014213597 0.025228498 9.89E-07 6.004724596 -0.044522081 KAVTK(ac)AQK ddPTM_HeLa_SAHA_4h_R1 1 KAVTKAQK 8 2 O60814;P57053;P58876;P62807;Q16778;Q8N257;Q93079;U3KQK0;Q99877;Q99880 O60814;P58876;P62807;Q16778;Q8N257;Q93079;U3KQK0;Q99880 HIST1H2BK;H2BFS;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-L 0 1 KAVTK(1)AQK 83.883 0.023376 0 1354.4 2411.7 2935.1 2736.8 2133.5 1353.9 4078.2 1599.2 541.86 660.6 FALSE TRUE FALSE 1496.862006 2489.840662 3335.080143 2789.774721 1970.031691 1238.540103 3619.310203 1558.29478 538.0891521 689.0816989 2.17225622 3.61327353 4.839890753 4.048539855 2.858923251 1.797377735 5.25236733 2.261407874 0.7808786 1 9.428531232 -7.598435554 1.612373573 1.384970117 3.564132045 0.488797394 1.045105398 0.220746155 1.169432998 0.209795318 0.217306385 2.52E-08 7.598435554 2.179161928 KAVTK(ac)AQK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 KAVTKAQKK 9 3 O60814;P57053;P58876;P62807;Q16778;Q8N257;Q93079;U3KQK0;Q99877;Q99880 O60814;P58876;P62807;Q16778;Q8N257;Q93079;U3KQK0;Q99880 HIST1H2BK;H2BFS;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-L 0 2 KAVTK(1)AQK(1)K 135.8 1.62E-09 0 8570.4 6691.5 16048 11754 9844.8 1633.2 14111 1809.4 569.68 2627.1 FALSE TRUE FALSE 9471.873994 6908.30899 18234.93787 11981.51567 9090.493551 1494.042172 12523.19314 1763.118168 565.7155505 2740.367138 3.456425186 2.520942868 6.654195204 4.372230093 3.317253891 0.545197814 4.569896117 0.643387575 0.206437868 1 11.42015347 KAVTK(ac)VQK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 KAVTKVQKK 9 3 Q5QNW6;Q5QNW6-2 Q5QNW6 HIST2H2BF Histone H2B type 2-F 0 2 KAVTK(1)VQK(1)K 103.34 0.0048934 0 1887.9 2122.5 4247.7 2916.6 2694.9 1522 4141.1 1628.5 461.59 793.77 FALSE TRUE FALSE 2086.477984 2191.270393 4826.554435 2973.05501 2488.417344 1392.317037 3675.132529 1586.845328 458.3777576 827.9933093 2.519921309 2.646483212 5.829219126 3.590675162 3.005359242 1.681555904 4.438601723 1.916495351 0.553600799 1 9.6934753 -4.79350246 24.99970542 2.315896525 3.177557305 0 1.517067726 474.9409488 370312.9518 0.22789906 0.683775839 1.61E-05 4.79350246 0.86166078 KAVVLPGGTATS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 KAVVLPGGTATSPK 14 1 Q8N1G0;H0Y5I5;F8WCX2;Q8N1G0-2 Q8N1G0 ZNF687 Zinc finger protein 687 1 0 KAVVLPGGTAT(0.245)S(0.755)PK;KAVVLPGGTAT(0.129)S(0.871)PK ; 133.9 0.0002015 13530200 7926.4 7163.2 7414.8 7479.7 7995.4 7872.8 8242 7406.7 7880.6 7513.6 TRUE FALSE FALSE 8760.13512 7395.29238 8425.250329 7624.480409 7382.794179 7201.993149 7314.588468 7217.247339 7825.758263 7837.548067 1.117713735 0.943572188 1.074985475 0.972814501 0.941977531 0.918908961 0.933275102 0.920855257 0.998495728 1 12.93618667 -6.024466543 1.502049838 1.049812047 0.923332161 0.450604978 0.047412127 0.238107567 1.066094367 0.008703329 0.018208586 9.45E-07 6.024466543 -0.126479886 KAYS(ph)FCGTVEYMAPEVVNR ddPTM_HeLa_SAHA_4h_R1 2 KAYSFCGTVEYMAPEVVNR 19 1 B4DG22;B1AXG1;B7ZB17;P51812;Q9UK32-2;Q9UK32;E9PGT3;Q15418-3;Q15418-4;Q15418;Q15418-2 B4DG22;E9PGT3 RPS6KA3;RPS6KA6;RPS6KA1 Ribosomal protein S6 kinase alpha-3;Ribosomal protein S6 kinase alpha-6;Ribosomal protein S6 kinase;Ribosomal protein S6 kinase alpha-1 1 0 KAYS(0.999)FCGTVEYMAPEVVNR;KAY(0.001)S(0.986)FCGT(0.012)VEYMAPEVVNR ; 99.097 0.00077995 24309000 1785.77 1909.8 1924.19 2183.13 2441.06 2262.87 2651.09 2201.51 1784.97 2051 TRUE FALSE FALSE 1973.605482 1971.678773 2186.408592 2225.387638 2254.02651 2070.060745 2352.782376 2145.198562 1772.548248 2139.428647 0.922491846 0.921591274 1.021959108 1.04017848 1.053564704 0.967576436 1.099724629 1.002696942 0.828514777 1 11.06300985 -6.639678016 6.685845133 0.959335764 1.033655721 0.429039265 0.056304518 0.162595311 8.961917211 0.006739847 0.009545301 2.29E-07 6.639678016 0.074319957 KCS(ph)LPAEEDSVLEK ddPTM_HeLa_SAHA_4h_R1 5 KCSLPAEEDSVLEK 14 1 E7EVA0;P27816;P27816-6 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 KCS(1)LPAEEDSVLEK;KCS(1)LPAEEDSVLEK;KCS(1)LPAEEDSVLEK;KCS(1)LPAEEDSVLEK;KCS(0.652)LPAEEDS(0.348)VLEK ;;;; 173.51 4.02E-06 538610100 18314.4 16078.3 14372.7 18499.8 18304.1 17505.2 18808.8 18132.6 18554.8 16785.5 TRUE FALSE FALSE 20240.79262 16599.24747 16331.33671 18857.89038 16901.64381 16013.65848 16692.38432 17668.79435 18425.67564 17509.20505 1.156008657 0.94802976 0.932728622 1.077027217 0.965300467 0.914585124 0.953349068 1.009114594 1.052342216 1 14.09582596 -7.238403058 24.90121515 1.073670759 0.970899805 0.394467706 0.055566198 667.1816026 721193.7438 0.011769702 0.014408976 5.78E-08 7.238403058 -0.102770953 KDAPTS(ph)PASVASSSSTPSSK ddPTM_HeLa_SAHA_4h_R1 1 KDAPTSPASVASSSSTPSSK 20 1 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726;A0A0D9SES8 H0YKH0 TLE3 Transducin-like enhancer protein 3 1 0 KDAPT(0.19)S(0.786)PAS(0.023)VASSSSTPSSK 73.649 0.0028699 5230200 1399 1095.8 974.88 1168.5 1170.7 1357.6 1566.5 1256.3 1199.3 1094.2 TRUE FALSE FALSE 1546.153239 1131.304639 1107.731569 1191.118007 1081.001219 1241.924842 1390.233297 1224.165665 1190.953974 1141.376317 1.354639321 0.991175848 0.970522652 1.043580447 0.94710325 1.088094105 1.218032367 1.072534665 1.043436732 1 10.15655882 KDAS(ph)SSPASTASSASSTSLK ddPTM_HeLa_SAHA_4h_R1 1 KDASSSPASTASSASSTSLK 20 1 A0A669KBK8;Q04724 A0A669KBK8 TLE1 Transducin-like enhancer protein 1 1 0 KDAS(0.359)S(0.359)S(0.282)PASTASSASSTSLK 84.933 0.0011485 3568600 1226 1694.8 1445 1953.5 1438.4 1730.1 1678.1 1815.8 1866.2 1613.8 TRUE FALSE FALSE 1354.956305 1749.712632 1641.917075 1991.312817 1328.190103 1582.685747 1489.275771 1769.354465 1853.212962 1683.378816 0.80490279 1.039405163 0.975369928 1.182926148 0.789002505 0.940183951 0.884694376 1.051073263 1.100888846 1 10.71714415 KDDRVEERDPPR ddPTM_HeLa_SAHA_4h_R1 1 KDDRVEERDPPR 12 3 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 36 0.023782 9826000 1978.7 1721.5 2007.3 2021.1 2070.7 2119.1 2393 1633.1 1291.4 2103.2 FALSE FALSE TRUE 2186.828745 1777.27773 2280.84439 2060.221313 1912.043413 1938.540758 2123.733342 1591.327667 1282.413042 2193.879245 0.996786286 0.810107363 1.039639896 0.939076897 0.871535395 0.883613245 0.968026543 0.725348795 0.584541307 1 11.0992684 -1.345277193 0.237353103 1.007851069 1.89E-12 0 0.151020456 29.39160956 0.418288989 0.043666105 11.36910091 0.045156763 1.345277193 -1.007851069 KDDS(ph)DDDGGGWITPSNIK ddPTM_HeLa_SAHA_4h_R1 5 KDDSDDDGGGWITPSNIK 18 1 Q9ULX3 Q9ULX3 NOB1 RNA-binding protein NOB1 1 0 KDDS(1)DDDGGGWITPSNIK;KDDS(1)DDDGGGWITPSNIK;KDDS(1)DDDGGGWITPSNIK;KDDS(1)DDDGGGWITPSNIK;KDDS(1)DDDGGGWITPSNIK ;;;; 96.181 0.0012819 89229100 9787.5 12497.3 8760.8 11740.8 12009 14632.9 11645.2 10314.34 16103.7 11396.35 TRUE FALSE FALSE 10816.99416 12902.22072 9954.6762 11968.06016 11088.87301 13386.0946 10334.85145 10050.51412 15991.63304 11887.70242 0.909931438 1.085341832 0.837392782 1.006759737 0.932802035 1.126045566 0.869373331 0.84545472 1.345224878 1 13.53718229 -9.218479236 0.005819881 1.938233486 9.57E-07 0.016820424 0.147817922 37411.89107 56.30059727 9608.389719 9144.100474 6.05E-10 9.218479236 -1.938232529 KDEGEGAAGAGDHKDPS(ph)LGAGEAASK ddPTM_HeLa_SAHA_4h_R1 1 KDEGEGAAGAGDHKDPSLGAGEAASK 26 2 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 KDEGEGAAGAGDHKDPS(0.983)LGAGEAAS(0.017)K 66.3 0.00049819 15531000 3829.6 3326.5 3099.6 4151.1 3951.7 4278.1 3714 4485.3 4415.7 3702.5 TRUE FALSE FALSE 4232.414899 3434.280783 3521.997346 4231.450543 3648.9216 3913.581812 3296.090945 4370.572521 4384.970784 3862.132895 1.095875003 0.889218698 0.911930646 1.095625308 0.944794418 1.013321374 0.853437993 1.131647367 1.135375427 1 11.91518209 -7.280274377 24.82165983 1.045274305 0.974578344 0.18219307 0.089624523 1124.640312 1482100.782 0.014112184 0.016153128 5.24E-08 7.280274377 -0.070695961 KDELSDWSLAGEDDRDSR ddPTM_HeLa_SAHA_4h_R1 2 KDELSDWSLAGEDDRDSR 18 2 B4DXZ6;P51114;P51114-3;P51114-2;H7C4S4;E7EU85;E9PFF5 B4DXZ6 FXR1 Fragile X mental retardation syndrome-related protein 1 0 0 ; ; 85.576 0.0024711 21326000 4236.3 4554.1 3976.1 4141 5354.8 5661.4 4928 3241.5 6204.6 4976.1 FALSE FALSE TRUE 4681.893471 4701.655828 4517.942201 4221.155043 4944.516381 5179.01687 4373.48847 3158.587124 6161.421683 5190.644023 0.901987008 0.905794311 0.870401087 0.813223759 0.952582446 0.997759979 0.842571452 0.608515458 1.187024511 1 12.34169784 -4.328070117 2.928136239 0.935542127 0.576401209 0.533974042 0.096729043 0.140872538 1.83021106 0.009156628 0.10890195 4.70E-05 4.328070117 -0.359140918 NVFHIASQK(ac)NFK ddPTM_HeLa_SAHA_4h_R1 2 NVFHIASQKNFK 12 1 E5RGR5;A0A087WWE7;Q8N0T1-2;Q8N0T1 E5RGR5 C8orf59 Uncharacterized protein C8orf59 0 1 ; NVFHIASQK(1)NFK;NVFHIASQK(1)NFK 142.1 0.00017328 4710000 2002.29 2191.22 1557.84 4196.1 5798.5 5650.5 5924.7 5258 2016.46 1531.3 FALSE TRUE FALSE 2212.900049 2262.216966 1770.134322 4277.321583 5354.220183 5169.045611 5258.037163 5123.507973 2002.427291 1597.321837 1.385381454 1.416256207 1.108188896 2.677808244 3.351998363 3.236070209 3.291783184 3.207561466 1.253615423 1 10.64143931 -6.135640058 3.044126596 1.198729878 3.261956906 0.980413501 0.137417088 0.031374969 0.555718032 0.027756155 0.048414499 7.32E-07 6.135640058 2.063227029 up KDEWGLVAPIS(ph)PGPLTPMR ddPTM_HeLa_SAHA_4h_R1 1 KDEWGLVAPISPGPLTPMR 19 1 A0A669KB77;P11137-3;P11137;E7EV03 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 KDEWGLVAPIS(0.978)PGPLT(0.022)PMR 62.646 0.0088679 677570 398.78 447.62 382.6 507.92 613.22 593.18 625.54 623.5 775.95 515.51 TRUE FALSE FALSE 440.7255101 462.1231817 434.7387355 517.7515261 566.2352161 542.6377269 555.1525929 607.5517728 770.5501008 537.7361589 0.819594336 0.859386474 0.808461042 0.962835616 1.052998216 1.009115191 1.032388437 1.12983247 1.432951993 1 9.070754676 -5.91649327 3.908356375 0.899787627 1.050707592 0 0.17872043 0.165414189 4.912127114 0.012202773 0.022757663 1.21E-06 5.91649327 0.150919965 KDFSDVILCMEATESS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 KDFSDVILCMEATESSK 17 1 A0A0U1RQG2;Q9BY79-2;Q9BY79 A0A0U1RQG2 MFRP Membrane frizzled-related protein 1 0 KDFSDVILCMEAT(0.084)ES(0.084)S(0.832)K 53.777 0.022915 6105800 1160 1613 1148.7 1386.4 1569 1781.3 1317.4 1207.9 1264.3 1358.8 TRUE FALSE FALSE 1282.014122 1665.262258 1305.238854 1413.235777 1448.783559 1629.523219 1169.162685 1177.003667 1255.501633 1417.384518 0.904492822 1.174883906 0.920878447 0.99707296 1.022152804 1.149669125 0.824873328 0.830405336 0.885787602 1 10.46901548 KDGNASGTTLLEALDCILPPTRPTDKPLR ddPTM_HeLa_SAHA_4h_R1 1 KDGNASGTTLLEALDCILPPTRPTDKPLR 29 3 Q5VTE0;P68104;A0A087WVQ9;A0A087WV01 Q5VTE0 EEF1A1P5;EEF1A1 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha 0 0 71.492 5.90E-05 1648900 426.17 364.26 398.92 670.68 494.36 454.56 688.08 147.73 638.07 391.87 FALSE FALSE TRUE 470.9965159 376.062263 453.2827401 683.6619812 456.4822436 415.8289307 610.6554275 143.9512805 633.6296189 408.7654335 1.152241548 0.919995264 1.10890673 1.672504388 1.116733966 1.017280075 1.493901826 0.35216109 1.550105677 1 8.675129392 -4.242866913 24.17420075 1.126062245 0.352160027 0.465856971 0.261719972 1628.025754 2119011.552 0.030729753 1.33864228 5.72E-05 4.242866913 -0.773902218 KDGSASAAAK(ac)K(ac)K ddPTM_HeLa_SAHA_4h_R1 1 KDGSASAAAKKK 12 3 A0A0R4J2E8;A8MXP9;P43243;D6REM6;B3KM87;P43243-2;Q68E03 A0A0R4J2E8 MATR3;DKFZp686L22104 Matrin-3 0 2 KDGSASAAAK(1)K(1)K 108.23 0.0032839 1125100 930.64 660.39 950.54 1567.3 953.19 902.65 1240.1 948.32 481.51 620.66 FALSE TRUE FALSE 1028.528985 681.7870693 1080.074641 1597.637358 880.1567881 825.7391418 1100.560684 924.0633476 478.1591327 647.41969 1.588658796 1.053083618 1.668275861 2.467699674 1.359484121 1.275430999 1.699918463 1.427301891 0.738561307 1 9.338557433 -9.334013258 0.500588889 0.859533687 1.601569769 0.364011396 0.362441198 1.826620041 0.597262252 0.67634469 0.096018079 4.63E-10 9.334013258 0.742036082 KDGSS(ph)PPLLEK ddPTM_HeLa_SAHA_4h_R1 3 KDGSSPPLLEK 11 1 Q6W2J9-4;Q6W2J9-2;Q6W2J9;H7BYY2;Q6W2J9-3 Q6W2J9-4 BCOR BCL-6 corepressor 1 0 KDGS(0.077)S(0.923)PPLLEK;KDGS(0.248)S(0.752)PPLLEK;KDGS(0.333)S(0.667)PPLLEK ;; 156.24 0.00074603 29224800 7415.87 7460.74 6345.78 6782.73 6859.34 7279.9 8044.19 7410.69 7105.9 6760.61 TRUE FALSE FALSE 8195.905232 7702.472871 7210.549851 6914.019547 6333.778851 6659.611564 7139.03657 7221.13528 7056.449463 7052.092983 1.16219472 1.092225087 1.022469481 0.980420928 0.89814171 0.944345399 1.012328764 1.023970515 1.000617757 1 12.78383578 -6.491303678 2.921383277 1.079682714 0.968751134 0.368014189 0.055095429 0.225174836 3.863602572 0.011159531 0.017112215 3.23E-07 6.491303678 -0.110931579 QNEVANVQPSSK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 QNEVANVQPSSKR 13 1 Q6ZW49-2;Q6ZW49-1;Q6ZW49 Q6ZW49-2 PAXIP1 PAX-interacting protein 1 0 1 ; QNEVANVQPSSK(1)R;QNEVANVQPSSK(1)R 229.56 6.97E-44 7355100 628.75 1116.03 1101.34 1420.29 2163.01 2035.74 2602.4 2242.9 713.16 697.29 FALSE TRUE FALSE 694.8848098 1152.190104 1251.42488 1447.781767 1997.280641 1862.283499 2309.571103 2185.529866 708.1970615 727.3535844 0.955360398 1.584085277 1.720517925 1.990478631 2.74595559 2.560355155 3.175307241 3.0047695 0.973662709 1 9.506513054 -6.124053594 0.714578871 0.951847669 3.120933381 0.959232247 0.164637991 0.087108927 0.085044114 0.032721311 0.092224268 7.52E-07 6.124053594 2.169085712 up KDKAKS(ph)CT(ph)VM ddPTM_HeLa_SAHA_4h_R1 1 KDKAKSCTVM 10 3 E9PFH1;P61587 E9PFH1 RND3 Rho-related GTP-binding protein RhoE 2 0 KDKAKS(1)CT(1)VM 55.401 0.007859 0 280.4 282.94 266.34 541.41 372.96 524.35 377.19 328.59 447.81 365.1 TRUE FALSE FALSE 309.8937585 292.1074416 302.6354282 551.8897734 344.3838854 479.6724301 334.7475885 320.1851436 444.6936537 380.8412478 0.813708495 0.767005789 0.794649818 1.449133403 0.904271497 1.259507558 0.878968837 0.840731264 1.167661477 1 8.573045931 KDKS(ph)PVREPIDNLTPEER ddPTM_HeLa_SAHA_4h_R1 2 KDKSPVREPIDNLTPEER 18 3 Q14498-2;Q14498;G3XAC6;Q14498-3;Q5QP22;Q5QP23;H0Y4X3 Q14498-2 RBM39 RNA-binding protein 39 1 0 KDKS(1)PVREPIDNLTPEER;KDKS(0.999)PVREPIDNLT(0.001)PEER ; 50.851 0.018193 27165000 6904 7021.6 6795.4 8326 7829.4 9123.8 8106.5 8001.2 8245.5 8108.1 TRUE FALSE FALSE 7630.194397 7249.104447 7721.441723 8487.16177 7229.513063 8346.400911 7194.335285 7796.54089 8188.118894 8457.679871 0.902161646 0.857103196 0.912950341 1.003485814 0.854786794 0.98684285 0.850627524 0.921829746 0.96812826 1 13.04604624 -9.186384849 0.917038276 1.000380465 0.911286605 0.243945356 0.050109447 0.534549975 0.804832752 0.031531701 0.008804615 6.51E-10 9.186384849 -0.089093859 KDLGSTEDGDGT(ph)DDFLTDKEDEK ddPTM_HeLa_SAHA_4h_R1 2 KDLGSTEDGDGTDDFLTDKEDEK 23 2 Q15527 Q15527 SURF2 Surfeit locus protein 2 1 0 KDLGS(0.107)T(0.107)EDGDGT(0.78)DDFLT(0.006)DKEDEK;KDLGS(0.004)T(0.004)EDGDGT(0.992)DDFLTDKEDEK ; 97.295 0.00081285 34583400 2007.37 2048.64 1500.47 2005.43 1901.12 2806.7 2377.46 2119.2 2839.3 2095.39 TRUE FALSE FALSE 2218.514387 2115.01728 1704.946237 2044.247998 1755.456596 2567.55337 2109.941944 2064.993933 2819.54108 2185.732517 1.014998116 0.967646893 0.780034256 0.93526906 0.803143377 1.174687822 0.965324863 0.944760585 1.289975355 1 11.09390114 -7.002820443 24.98811252 1.006252978 0.934823602 0.140226964 0.134341915 208.6495747 1848580.351 0.016056432 0.020898458 9.94E-08 7.002820443 -0.071429376 KDLYANTVLSGGTTMYPGIADR ddPTM_HeLa_SAHA_4h_R1 2 KDLYANTVLSGGTTMYPGIADR 22 1 P60709;A0A2R8Y793;P63261 P60709;P63261 ACTB;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ; ; 192.27 1.21E-26 9930200 1204.94 1619.91 1486.09 1241.78 1295.97 1586.29 1801.2 1139.72 1376.23 1264.31 FALSE FALSE TRUE 1331.681118 1672.396147 1688.606606 1265.816448 1196.673059 1451.129168 1598.524236 1110.567613 1366.652703 1318.820591 1.009751536 1.268099814 1.280391447 0.959809436 0.907381236 1.100323408 1.212086197 0.842091502 1.036268854 1 10.3650326 -7.476728736 24.99878738 1.004301952 1.087442571 0.042097676 0.139827786 881.5711786 477537.2386 0.02396115 0.02729027 3.34E-08 7.476728736 0.083140619 KDNDFIYHDR ddPTM_HeLa_SAHA_4h_R1 2 KDNDFIYHDR 10 1 Q8WUM4;Q8WUM4-2 Q8WUM4 PDCD6IP Programmed cell death 6-interacting protein 0 0 ; ; 107.03 0.0030002 18943900 25828 25845 23770 28540 32022 30552 31747 20984.2 38172 29661 FALSE FALSE TRUE 28544.70754 26682.39496 27009.25181 29092.43297 29568.48128 27948.79772 28174.74401 20447.45455 37906.35794 30939.83087 0.922587705 0.862396277 0.872960551 0.940290627 0.955676888 0.903327424 0.910630188 0.660878032 1.225163709 1 14.91717769 -3.748668413 1.44455754 0.94499479 3.38E-09 0.448125852 0.097983434 1.850060363 1.237932554 0.007658215 3.640086454 0.000178374 3.748668413 -0.944994786 KDNEESEQPPVPGT(ph)PTLR ddPTM_HeLa_SAHA_4h_R1 1 KDNEESEQPPVPGTPTLR 18 1 A0A2R8YDC1;A0A2R8Y6V8;O15439-4;O15439-3;O15439-2;O15439 A0A2R8YDC1 ABCC4 Multidrug resistance-associated protein 4 1 0 KDNEESEQPPVPGT(0.803)PT(0.197)LR 80.41 0.0088981 4820600 707.53 2005.8 1027.2 789.32 1326.8 808.74 1701.9 808.71 720.69 1053.2 TRUE FALSE FALSE 781.9512517 2070.789236 1167.181467 804.59843 1225.140871 739.8308022 1510.397733 788.0243692 715.6746596 1098.608606 0.711765088 1.884919911 1.062417917 0.732379508 1.115175017 0.673425274 1.374827873 0.717293097 0.651437332 1 10.10146178 KDPSGASNPSADS(ph)PLHR ddPTM_HeLa_SAHA_4h_R1 3 KDPSGASNPSADSPLHR 17 1 P55317-2;P55317 P55317-2 FOXA1 Hepatocyte nuclear factor 3-alpha 1 0 KDPSGASNPS(0.136)ADS(0.864)PLHR;KDPSGASNPS(0.068)ADS(0.932)PLHR;KDPSGASNPS(0.39)ADS(0.61)PLHR ;; 160.47 2.81E-06 20354200 4246.8 4544.8 3650.2 4022.7 3797.9 4281.5 3931.2 3292.6 4976.8 4284.8 TRUE FALSE FALSE 4693.497909 4692.054502 4147.630247 4100.565175 3506.905722 3916.692113 3488.85103 3208.38006 4942.166044 4469.538697 1.050107903 1.04978496 0.927977254 0.917447069 0.78462364 0.87630791 0.780584142 0.717832483 1.1057441 1 12.12591022 -6.042326982 1.072909988 1.026738425 0.777494207 0.842342377 0.049477818 0.131518187 0.298450858 0.007550794 0.01803874 9.07E-07 6.042326982 -0.249244217 KDS(ph)EEEVSLLGSQDIEEGNHQVEDGCR ddPTM_HeLa_SAHA_4h_R1 1 KDSEEEVSLLGSQDIEEGNHQVEDGCR 27 1 Q9Y487 Q9Y487 ATP6V0A2 V-type proton ATPase 116 kDa subunit a isoform 2 1 0 KDS(0.973)EEEVS(0.027)LLGSQDIEEGNHQVEDGCR 117.77 3.45E-08 5262600 589.51 944.32 952.56 1071.6 907.92 830.93 1077.7 811.14 858.69 879.52 TRUE FALSE FALSE 651.5173666 974.9165876 1082.369916 1092.342368 838.3553657 760.1300893 956.4343596 790.3922133 852.7143064 917.4404115 0.710146794 1.062648402 1.179771354 1.190641216 0.913798166 0.828533472 1.042502976 0.861518856 0.929449254 1 9.841470647 -7.231486011 24.79980775 0.863124851 1.015134257 0.167193491 0.13271673 852.0925037 705488.4369 0.026575789 0.032546191 5.87E-08 7.231486011 0.152009406 KDS(ph)FQENEDGYR ddPTM_HeLa_SAHA_4h_R1 1 KDSFQENEDGYR 12 1 Q5VYS8-5;Q5VYS8-3;Q5VYS8-2;Q5VYS8-4;Q5VYS8-6;Q5VYS8 Q5VYS8-5 ZCCHC6 Terminal uridylyltransferase 7 1 0 KDS(1)FQENEDGYR 118.52 0.0041597 4346400 522.76 605.62 714.93 624.1 879.38 784.31 708.28 846.26 763.27 613.48 TRUE FALSE FALSE 577.7462953 625.2424854 812.3569372 636.180358 812.0020944 717.4823756 628.5824703 824.6138946 757.9583419 639.9301251 0.902827157 0.977048057 1.269446312 0.994140349 1.268891809 1.121188623 0.982267353 1.288599899 1.184439226 1 9.321770574 -6.891318394 8.091526719 0.953421863 1.142439468 0.156783473 0.126386028 0.161963654 11.1375546 0.015671263 0.020624478 1.28E-07 6.891318394 0.189017605 KDS(ph)SSEVFSDAAK ddPTM_HeLa_SAHA_4h_R1 2 KDSSSEVFSDAAK 13 1 Q5T5U3;E7ESW5;A0A1B0GV73;Q5T5U3-3;A0A1B0GTZ9 Q5T5U3 ARHGAP21 Rho GTPase-activating protein 21 1 0 KDS(0.892)S(0.091)S(0.015)EVFS(0.001)DAAK;KDS(0.496)S(0.496)S(0.009)EVFSDAAK ; 191.15 4.56E-07 12990700 2259.56 2365.62 2576.84 2879.77 3545.2 4193.6 4237.2 3278.76 3221 2593.11 TRUE FALSE FALSE 2497.230888 2442.26764 2927.998336 2935.512113 3273.567542 3836.281687 3760.419104 3194.894067 3198.584799 2704.911662 0.923220866 0.902901072 1.082474661 1.085252488 1.210230851 1.418265055 1.390218822 1.181145437 1.182509892 1 11.40136576 -5.876600442 1.437752115 0.96177651 1.336246868 0.630395047 0.101280459 0.116437534 0.48270464 0.011878581 0.027596669 1.33E-06 5.876600442 0.374470358 KDS(ph)VS(ph)NIATEIK ddPTM_HeLa_SAHA_4h_R1 1 KDSVSNIATEIK 12 1 Q5JPF3-3;Q5JPF3;A0A087X1R3;A6QL64-3;Q5JPF3-2;Q8N2N9-3;Q8N2N9-2;Q8N2N9;A6QL64 Q5JPF3-3 ANKRD36C;ANKRD36B;ANKRD36 Ankyrin repeat domain-containing protein 36C;Ankyrin repeat domain-containing protein 36A;Ankyrin repeat domain-containing protein 36B 2 0 KDS(0.741)VS(0.994)NIAT(0.265)EIK 67.704 0.0087486 0 692.03 658.47 633.97 698.75 614.9 1015.6 973.06 903.14 858.88 732.49 TRUE FALSE FALSE 764.8208905 679.80486 720.36413 712.2753167 567.7864948 929.0651664 863.5687278 880.0389865 852.9029842 764.0712286 1.000981141 0.889713988 0.942797089 0.932210624 0.74310676 1.215940519 1.130220188 1.151776109 1.116261092 1 9.577563326 -5.214274892 24.99998901 0.967420397 1.162403138 0.53124326 0.093036152 248.4076342 131670.4442 0.011910907 0.030366908 6.11E-06 5.214274892 0.19498274 KDSFQENEDGY(ph)R ddPTM_HeLa_SAHA_4h_R1 1 KDSFQENEDGYR 12 1 Q5VYS8-5;Q5VYS8-3;Q5VYS8-2;Q5VYS8-4;Q5VYS8-6;Q5VYS8 Q5VYS8-5 ZCCHC6 Terminal uridylyltransferase 7 1 0 KDS(0.096)FQENEDGY(0.904)R 107.55 0.0040838 5905500 615.72 487.28 394.61 662.71 798.81 477.09 628.59 581.01 758.57 522.12 TRUE FALSE FALSE 680.4842546 503.0681917 448.3853958 675.5377103 737.6053504 436.439248 557.8593988 566.1486055 753.2910496 544.6311484 1.249440574 0.923686046 0.823282688 1.240358199 1.354320906 0.801348306 1.024288457 1.039508312 1.383121498 1 9.089135685 -5.236745808 24.99053733 1.105811582 0.961972426 0.157937558 0.183650048 1332.982903 1349011.867 0.024830898 0.063276958 5.80E-06 5.236745808 -0.143839157 KDSGSSSVSSTSSS(ph)SSSSPGDK ddPTM_HeLa_SAHA_4h_R1 1 KDSGSSSVSSTSSSSSSSPGDK 22 1 Q9H7S9 Q9H7S9 ZNF703 Zinc finger protein 703 1 0 KDSGSSSVSSTS(0.016)S(0.164)S(0.495)S(0.164)S(0.035)S(0.104)S(0.023)PGDK 118.85 1.35E-06 0 424.22 409.08 443.4 450.9 481.37 664.26 718.9 607.4 637.45 620.8 TRUE FALSE FALSE 468.841406 422.3344604 503.8242429 459.6278215 444.4875346 607.661311 638.00748 591.8635875 633.0139335 647.5657261 0.724005899 0.652187791 0.778027963 0.70977787 0.68639756 0.938377815 0.985239728 0.913982263 0.97752847 1 9.33888282 -5.039201487 23.43431258 0.819926802 0.952660549 0.258307376 0.113524275 353.5929878 211375.1068 0.020145697 0.051377255 9.14E-06 5.039201487 0.132733747 KDSGSSSVSSTSSSSSS(ph)SPGDK ddPTM_HeLa_SAHA_4h_R1 1 KDSGSSSVSSTSSSSSSSPGDK 22 1 Q9H7S9 Q9H7S9 ZNF703 Zinc finger protein 703 1 0 KDSGSSSVSSTS(0.001)S(0.096)S(0.16)S(0.16)S(0.035)S(0.452)S(0.096)PGDK 123.71 7.16E-06 2454300 580.32 802.44 423.71 821.27 768.49 848.19 736.25 711.41 678.8 777.09 TRUE FALSE FALSE 641.3607202 828.4395825 481.4509922 837.1668684 709.6084622 775.9194402 653.4052123 693.2131623 674.0761755 810.5941529 0.791222979 1.022015246 0.593948267 1.032781775 0.875417692 0.957223091 0.806081823 0.855191417 0.831582825 1 9.662835959 -9.535388549 1.273335417 1.000605531 0.8601768 0 0.130550675 0.646157574 1.863073763 0.079084382 0.018512437 2.91E-10 9.535388549 -0.140428731 KDTDDIES(ph)PKR ddPTM_HeLa_SAHA_4h_R1 3 KDTDDIESPKR 11 2 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;Q9UPQ0-3;D6RD46;D6RJ93;D6R8Y0;Q9UPQ0-7;D6RGH8 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 KDTDDIES(1)PKR;KDTDDIES(1)PKR;KDTDDIES(1)PKR ;; 113.43 0.0023799 221200100 10787.5 11273.3 10420 10799.4 11808.4 12360.5 10707.8 11591.6 10916 10816.8 TRUE FALSE FALSE 11922.17874 11638.56232 11839.98333 11008.438 10903.64294 11307.31586 9502.930163 11295.10366 10840.03467 11283.16518 1.056634247 1.031498 1.049349464 0.975651586 0.96636385 1.002140417 0.842222019 1.001058078 0.9607264 1 13.46188421 -5.669970002 1.200551375 1.02906937 0.933294193 0.270156877 0.049441847 0.333536089 0.937817064 0.006999389 0.02096485 2.14E-06 5.669970002 -0.095775177 KDTGS(ph)PPASEGPTDGSR ddPTM_HeLa_SAHA_4h_R1 1 KDTGSPPASEGPTDGSR 17 1 Q969R8 Q969R8 ITFG2 Integrin-alpha FG-GAP repeat-containing protein 2 1 0 KDT(0.042)GS(0.958)PPASEGPTDGSR 97.689 0.0017709 10844000 1541.6 1460 1333.4 1189.9 1594.4 1875.6 1838.2 1455.6 1464.4 1756.4 TRUE FALSE FALSE 1703.752561 1507.304958 1515.108808 1212.932235 1472.237416 1715.788328 1631.360898 1418.36786 1454.209121 1832.127 0.929931474 0.822707683 0.826967131 0.66203502 0.803567338 0.93650076 0.890419113 0.774164597 0.793727248 1 10.8393038 -7.457979742 1.6311564 0.975859962 0.815997611 0.05576455 0.089759172 0.223775113 1.166166373 0.014724605 0.016171916 3.48E-08 7.457979742 -0.159862351 KDVETTS(ph)S(ph)VS(ph)VK ddPTM_HeLa_SAHA_4h_R1 1 KDVETTSSVSVK 12 1 Q96RL1-2;Q96RL1;D6RC40;D6RCQ3;Q96RL1-5;D6R9M3;D6RDZ5 Q96RL1-2 UIMC1 BRCA1-A complex subunit RAP80 3 0 KDVET(0.104)T(0.163)S(0.749)S(0.984)VS(1)VK 51.771 0.019982 6404700 2661.9 2577.2 2773.1 4188 2542.4 2560.8 2970.9 4068.7 3497.8 2698 TRUE FALSE FALSE 2941.890855 2660.702971 3151.003626 4269.064796 2347.601861 2342.605433 2636.606513 3964.628545 3473.458525 2814.323984 1.045327714 0.945414596 1.119630734 1.51690595 0.834161907 0.832386551 0.936852519 1.408732103 1.234207058 1 11.45857271 -6.738000589 24.66141608 1.016303544 1.093923468 0 0.222000866 703.1041905 739777.7336 0.03338217 0.047192039 1.83E-07 6.738000589 0.077619924 KDYTAAGFS(ph)S(ph)FQK ddPTM_HeLa_SAHA_4h_R1 1 KDYTAAGFSSFQK 13 1 H0Y859;Q9P2N4-4;Q9P2N4 H0Y859 ADAMTS9 A disintegrin and metalloproteinase with thrombospondin motifs 9 2 0 KDYTAAGFS(1)S(1)FQK 80.916 0.00484 0 394.58 319.32 314.55 298.23 403.29 457.43 436.94 491.75 616.41 351.52 TRUE FALSE FALSE 436.0837348 329.6661775 357.4152359 304.0026729 372.3900073 418.4543906 387.7743612 479.171747 612.1203526 366.6757475 1.189289823 0.899067309 0.974744685 0.829077666 1.015583959 1.141210984 1.057540249 1.306799673 1.6693778 1 8.518361037 -3.47625408 1.382986904 1.047097926 2.687977668 0.056893029 0.222374469 10.0854611 3.344629964 0.018191623 39.11992004 0.000334 3.47625408 1.640879743 KECSEAMEVETS(ph)VISIDSPQK ddPTM_HeLa_SAHA_4h_R1 1 KECSEAMEVETSVISIDSPQK 21 1 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 KECSEAMEVET(0.25)S(0.676)VIS(0.044)IDS(0.03)PQK 51.942 0.014384 4385100 438.27 780.65 617.75 907.79 762.15 901.03 900.17 881.08 988.85 737.95 TRUE FALSE FALSE 484.3692495 805.9435722 701.9337529 925.3615881 703.7542317 824.2571749 798.8805025 858.5432494 981.9685123 769.7666359 0.629241678 1.046997278 0.91187864 1.202132627 0.914243615 1.070788388 1.037821679 1.115329256 1.2756704 1 9.588277331 -7.212990449 24.43878575 0.824919647 1.039786226 0 0.183662913 275.6915732 139065.36 0.025386435 0.031091868 6.12E-08 7.212990449 0.214866579 KECSEAMEVETSVISIDS(ph)PQK ddPTM_HeLa_SAHA_4h_R1 1 KECSEAMEVETSVISIDSPQK 21 1 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 KECSEAMEVET(0.008)S(0.035)VIS(0.146)IDS(0.811)PQK 71.071 0.0022164 13882000 1332 2082.3 1684.4 2108 2661.6 2191.5 2300.6 2120.8 2987.1 2269.5 TRUE FALSE FALSE 1472.105871 2149.767886 1913.94126 2148.803388 2457.668783 2004.771871 2041.730433 2066.553007 2966.312528 2367.349252 0.621837217 0.90809072 0.808474398 0.907683303 1.038152179 0.846842463 0.862454254 0.872939641 1.253010102 1 11.20905685 -6.254253119 22.00768182 0.823883091 0.907314712 0 0.169495612 254.7321043 780099.4514 0.022453788 0.036643094 5.57E-07 6.254253119 0.083431621 KEDEVEEWQHR ddPTM_HeLa_SAHA_4h_R1 2 KEDEVEEWQHR 11 1 E7EQR4;P15311 E7EQR4 EZR Ezrin 0 0 ; ; 136.81 0.00047755 15903900 10112.1 10712.2 9575.7 9147.1 12386.8 12142.5 12471.7 8249.9 13650.3 11144.2 FALSE FALSE TRUE 11175.73707 11059.28231 10880.62653 9324.155347 11437.72606 11107.89069 11068.35149 8038.879504 13555.30645 11624.681 0.961380108 0.951362219 0.935993558 0.80209989 0.983917413 0.955543699 0.952142385 0.691535493 1.166079865 1 13.50490351 -4.260800349 5.410411055 0.961644149 0.681036665 0.494036163 0.083676099 0.069956809 7.547045903 0.007917769 0.072421969 5.49E-05 4.260800349 -0.280607484 KEDGTFYEFGEDIPEAPER ddPTM_HeLa_SAHA_4h_R1 2 KEDGTFYEFGEDIPEAPER 19 1 O43776 O43776 NARS "Asparagine--tRNA ligase, cytoplasmic" 0 0 ; ; 159.75 9.99E-06 29638000 2452.43 2522.5 2378.62 2049.91 2651.5 2863.1 2740 2236.73 3017.7 2214.57 FALSE FALSE TRUE 2710.38784 2604.230655 2702.765946 2089.588972 2448.342643 2619.147773 2431.687989 2179.517685 2996.69958 2310.050951 1.17330219 1.127347713 1.170002742 0.904564019 1.059865213 1.133805197 1.052655565 0.943493339 1.297243933 1 11.17370896 -6.295769756 24.99934758 1.094064502 1.029415207 0.215540701 0.099306599 1116.310868 812893.8983 0.014156055 0.021624377 5.06E-07 6.295769756 -0.064649295 KEDLEAEEEYSSLCELLGS(ph)PEQRPGMQDPLSPK ddPTM_HeLa_SAHA_4h_R1 2 KEDLEAEEEYSSLCELLGSPEQRPGMQDPLSPK 33 2 A0A1W2PQJ7;Q7Z5J4-3;Q7Z5J4-2;Q7Z5J4;A8MXE8;Q7Z5J4-4 A0A1W2PQJ7 RAI1 Retinoic acid-induced protein 1 1 0 KEDLEAEEEY(0.001)S(0.026)S(0.101)LCELLGS(0.841)PEQRPGMQDPLS(0.031)PK;KEDLEAEEEYS(0.002)S(0.009)LCELLGS(0.895)PEQRPGMQDPLS(0.093)PK ; 66.98 5.52E-05 11953400 1674.01 1988.32 1795.42 2015.43 1812.18 2693.7 2692.5 1980.17 2685 2180.73 TRUE FALSE FALSE 1850.090052 2052.742873 2040.090487 2054.441562 1673.33116 2464.181606 2389.532814 1929.520119 2666.314866 2274.751943 0.813315077 0.902402954 0.89684086 0.903149712 0.735610388 1.083274866 1.050458632 0.8482332 1.17213434 1 11.15149352 -5.226704316 24.9999909 0.897232195 0.99963584 0.057311959 0.123231185 830.7699341 597932.0626 0.013915796 0.035476402 5.93E-06 5.226704316 0.102403645 KEDS(ph)DEEEDDDS(ph)EEDEEDDEDEDEDEDEIEPAAMK ddPTM_HeLa_SAHA_4h_R1 2 KEDSDEEEDDDSEEDEEDDEDEDEDEDEIEPAAMK 35 1 P19338;C9J1H7;C9JWL1 P19338 NCL Nucleolin 2 0 KEDS(1)DEEEDDDS(1)EEDEEDDEDEDEDEDEIEPAAMK;KEDS(1)DEEEDDDS(1)EEDEEDDEDEDEDEDEIEPAAMK ; 68.191 5.09E-05 14945100 5041.1 5435 5497.3 3726.4 5600.2 6984.9 5903 5951.9 5396.8 5823.2 TRUE FALSE FALSE 5571.346027 5611.097566 6246.443415 3798.52986 5171.113886 6389.747224 5238.778904 5799.659016 5359.243229 6074.26665 0.917204718 0.923748971 1.028345276 0.625347895 0.85131493 1.051937228 0.862454549 0.95479164 0.882286462 1 12.56849453 -8.59060249 0.563412708 1.00210228 0.893642612 0 0.115976501 1.603972186 1.008995835 0.082920577 0.02996732 2.57E-09 8.59060249 -0.108459667 KEEAS(ph)SPGAGEGPAEEGTR ddPTM_HeLa_SAHA_4h_R1 1 KEEASSPGAGEGPAEEGTR 19 1 J3KPS2;A0A494C1T9;Q6ZRV2 J3KPS2 FAM83H Protein FAM83H 1 0 KEEAS(0.834)S(0.166)PGAGEGPAEEGTR 125.08 0.00011635 4369800 854.55 745.83 588.15 636.67 856.84 1228.2 1103.9 945.06 781.4 809.66 TRUE FALSE FALSE 944.4354898 769.9953814 668.300019 648.9936685 791.1891043 1123.55045 979.6862667 920.8867336 775.9621738 844.568405 1.118246295 0.911702802 0.791291759 0.768432331 0.936796948 1.330324985 1.159984509 1.090363703 0.918767703 1 9.722070467 -5.276896393 24.80320403 0.996625609 1.190200422 0.425745042 0.125062239 728.1003716 1168350.63 0.021391365 0.047998529 5.29E-06 5.276896393 0.193574813 KEEEESQPAK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 KEEEESQPAKK 11 2 O75400-2;O75400-3;O75400;F5H578 O75400-2 PRPF40A Pre-mRNA-processing factor 40 homolog A 0 1 KEEEESQPAK(1)K 150.06 9.96E-06 1951200 1078.8 914.66 864.78 1075.9 1144.4 1598.1 1435.9 1274.9 1356.8 967.42 FALSE TRUE FALSE 1192.273134 944.2955841 982.6277148 1096.7256 1056.716319 1461.932889 1274.328753 1242.289904 1347.357918 1009.130211 1.181485918 0.935751972 0.973737288 1.086802861 1.047155568 1.448705899 1.262799131 1.231050157 1.335167557 1 9.978896626 -5.280567842 24.85938711 1.065257333 1.30904647 0.440400612 0.120118936 398.3719765 517724.4011 0.014188958 0.031775169 5.24E-06 5.280567842 0.243789136 KEEELQAALAR ddPTM_HeLa_SAHA_4h_R1 1 KEEELQAALAR 11 1 P35579;Q7Z406-2;Q7Z406;Q7Z406-6;Q7Z406-4;Q7Z406-5;A0A0C4DFM8;P35749-4;P35749-3;P35749;P35749-2 P35579;P35749-4 MYH9;MYH14;MYH11 Myosin-9;Myosin-14;Myosin-11 0 0 116.74 0.0051412 20478000 1931.1 1981 1763.5 2388.3 2641.3 2289.6 2126 2457.3 1940.2 2223.7 FALSE FALSE TRUE 2134.221958 2045.1857 2003.820596 2434.529 2438.924165 2094.513199 1886.776885 2394.445824 1926.69799 2319.57459 0.920091972 0.881707236 0.86387418 1.049558402 1.051453217 0.902972988 0.813415052 1.032278003 0.830625581 1 11.17964452 -9.321555011 1.116316116 0.999007512 0.936146441 0 0.093540849 1.05236782 2.402393827 0.049527071 0.013973093 4.77E-10 9.321555011 -0.062861071 KEEENADS(ph)DDEGELQDLLSQDWR ddPTM_HeLa_SAHA_4h_R1 4 KEEENADSDDEGELQDLLSQDWR 23 1 J3QQQ3;Q96NB3 J3QQQ3 ZNF830 Zinc finger protein 830 1 0 KEEENADS(1)DDEGELQDLLSQDWR;KEEENADS(1)DDEGELQDLLSQDWR;KEEENADS(1)DDEGELQDLLSQDWR;KEEENADS(1)DDEGELQDLLSQDWR ;;; 111.15 2.46E-05 17024300 1891.7 1773.7 1644.77 1888.08 1873.45 2092.16 1937.68 2051.71 2356.53 1850.1 TRUE FALSE FALSE 2090.677685 1831.169044 1868.91069 1924.626519 1729.906666 1913.896198 1719.647147 1999.230229 2340.130716 1929.866865 1.083327417 0.948857705 0.968414311 0.997284607 0.896386532 0.991724472 0.891070352 1.035942046 1.212586608 1 10.91428561 -7.245730737 24.83038869 1.039349058 0.958996933 0.363782205 0.07118768 564.3339542 892034.0644 0.007870051 0.009618269 5.68E-08 7.245730737 -0.080352125 KEEKTRQELEK ddPTM_HeLa_SAHA_4h_R1 1 KEEKTRQELEK 11 3 P35580;P35580-5;P35580-2;P35580-3;P35580-4 P35580 MYH10 Myosin-10 0 0 15.89 0.023671 1846100 2209 1294.3 2409.5 1572.7 1379.3 903.6 1596.8 930.56 1679.5 1924.7 FALSE FALSE TRUE 2441.352755 1336.236169 2737.854112 1603.141883 1273.618332 826.6081965 1417.123861 906.7576226 1667.812223 2007.683236 1.216004951 0.665561252 1.363688286 0.798503396 0.63437215 0.411722418 0.705850323 0.451643768 0.830714822 1 10.97131595 -5.93567185 3.066831789 1.083398937 0.549004878 0.523699989 0.202110322 0.116177584 2.223372968 0.026965876 0.051010515 1.16E-06 5.93567185 -0.534394059 KEEPSQNDIS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 KEEPSQNDISPK 12 1 Q9NR30;Q9NR30-2 Q9NR30 DDX21 Nucleolar RNA helicase 2 1 0 KEEPSQNDIS(1)PK;KEEPS(0.125)QNDIS(0.875)PK ; 184.87 2.72E-06 21264000 5144.3 3591.8 3207.4 4368.5 3670.1 4425.8 4312.3 4546.8 4477.3 3775.1 TRUE FALSE FALSE 5685.401077 3708.176677 3644.487769 4453.058634 3388.897731 4048.696941 3827.068655 4430.49944 4446.142105 3937.863036 1.443778269 0.941672334 0.925498865 1.130831264 0.860593093 1.028145698 0.971864339 1.125102473 1.129074847 1 11.94319722 -7.218640155 24.99790215 1.209562079 0.994925261 0.315276657 0.129616645 501.2826118 292786.3091 0.029325887 0.03591661 6.04E-08 7.218640155 -0.214636819 KEES(ph)DEEETASKAER ddPTM_HeLa_SAHA_4h_R1 2 KEESDEEETASKAER 15 2 Q9BY89;A0A1B0GVJ7;Q9BY89-2 Q9BY89 KIAA1671 Uncharacterized protein KIAA1671 1 0 KEES(1)DEEETASKAER;KEES(1)DEEETASKAER ; 105.01 0.002129 54223000 4011.1 2950.64 4104.5 4025.7 3488.4 4066.9 4409.9 4520.3 2469.01 3479.7 TRUE FALSE FALSE 4433.005902 3046.242672 4663.839885 4103.623245 3221.119546 3720.37724 3913.686446 4404.677271 2451.827958 3629.726896 1.221305632 0.83924845 1.284901046 1.130559781 0.887427522 1.024974426 1.078231657 1.213501015 0.67548552 1 11.82564529 KEESEES(ph)DDDMGFGLFD ddPTM_HeLa_SAHA_4h_R1 3 KEESEESDDDMGFGLFD 17 1 P05387;H0YDD8;P05386-2;P05386 P05387 RPLP2;RPLP1 60S acidic ribosomal protein P2;60S acidic ribosomal protein P1 1 0 KEES(0.062)EES(0.938)DDDMGFGLFD;KEES(0.026)EES(0.974)DDDMGFGLFD;KEES(0.101)EES(0.899)DDDMGFGLFD ;; 66.702 0.011812 10133960 3931.2 4470.5 3921.33 4466.42 5141.72 5785.95 5969.3 5002.01 5582.51 5178.57 TRUE FALSE FALSE 4344.701653 4615.347133 4455.708431 4552.874018 4747.762524 5292.954509 5297.618654 4874.065827 5543.660858 5401.843496 0.804299802 0.854402231 0.824849597 0.842837083 0.878915231 0.979842254 0.98070569 0.902296749 1.026253512 1 12.39923613 -5.26863506 23.80589649 0.888509571 0.956923977 0.146498888 0.07068499 460.1141874 1522228.399 0.011829999 0.027014348 5.39E-06 5.26863506 0.068414406 KEFAPS(ph)DEELDSYR ddPTM_HeLa_SAHA_4h_R1 1 KEFAPSDEELDSYR 14 1 I3L0X5;I3L4C3;O75391 I3L0X5 SPAG7 Sperm-associated antigen 7 1 0 KEFAPS(0.957)DEELDS(0.042)Y(0.001)R 60.134 0.023654 4822700 1257.3 1232.3 1121.3 1080.1 1313.5 1642.1 1290 1746.6 1294.2 1538.3 TRUE FALSE FALSE 1389.548583 1272.227329 1274.104925 1101.006897 1212.859914 1502.183842 1144.845805 1701.924501 1285.193557 1604.623641 0.865965418 0.792850919 0.794021035 0.686146501 0.7558532 0.93615961 0.713466869 1.060637808 0.800931461 1 10.64801924 -8.394345712 0.80455223 0.98669521 0.81363969 0 0.119172808 0.484264119 0.658983928 0.040131896 0.02208192 4.03E-09 8.394345712 -0.17305552 KEFSPFGTITSAK ddPTM_HeLa_SAHA_4h_R1 1 KEFSPFGTITSAK 13 1 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YAR2;H0YB86;H0YAP2 P11940 PABPC1 Polyadenylate-binding protein 1;Polyadenylate-binding protein 0 0 81.185 0.015738 1106600 1105.2 649.35 713 836.32 661.76 498.33 659.16 770.48 584 693.83 FALSE FALSE TRUE 1221.450007 670.3893661 810.1639269 852.5081829 611.0560918 455.8694805 584.989582 750.7722372 579.9358965 723.7444068 1.687681446 0.926279167 1.119406132 1.177913328 0.844298189 0.629876343 0.808282007 1.037344441 0.801299314 1 9.499336484 -6.157636865 1.170200681 1.303786848 0.813209107 0.034690194 0.271393534 0.40805482 1.102549314 0.050656289 0.107694205 6.96E-07 6.157636865 -0.490577741 KEGGLGPLNIPLLADVTR ddPTM_HeLa_SAHA_4h_R1 1 KEGGLGPLNIPLLADVTR 18 1 P32119;A6NIW5 P32119 PRDX2 Peroxiredoxin-2 0 0 193.27 1.06E-19 4516600 2152.3 1864.6 2402.9 2201.4 2697.5 2842.7 2542.5 2239.2 2400.7 2246.9 FALSE FALSE TRUE 2378.688789 1925.014263 2730.354698 2244.01128 2490.818133 2600.485967 2256.411209 2181.924506 2383.993333 2343.774855 1.014896454 0.821330709 1.164938984 0.957434659 1.0627378 1.109528913 0.962725239 0.930944584 1.017159702 1 11.19461827 KEGVFAK(ac)EVR ddPTM_HeLa_SAHA_4h_R1 1 KEGVFAKEVR 10 2 A0A0U1RQF0;P49327 A0A0U1RQF0 FASN Fatty acid synthase;[Acyl-carrier-protein] S-acetyltransferase;[Acyl-carrier-protein] S-malonyltransferase;3-oxoacyl-[acyl-carrier-protein] synthase;3-oxoacyl-[acyl-carrier-protein] reductase;3-hydroxyacyl-[acyl-carrier-protein] dehydratase;Enoyl-[acyl-carrier-protein] reductase;Oleoyl-[acyl-carrier-protein] hydrolase 0 1 KEGVFAK(1)EVR 88.155 0.011607 2062300 1309.1 1417.5 1954.1 1608.7 1661.9 1263 1874.3 1182.3 737.68 1538.8 FALSE TRUE FALSE 1446.797144 1463.42793 2220.394571 1639.838715 1534.565581 1155.385295 1663.398831 1152.058478 732.5464248 1605.145199 0.901349701 0.911710624 1.383298267 1.021613942 0.956029138 0.719801109 1.036291815 0.717728514 0.456373931 1 10.64848809 -4.251970855 23.84594908 0.971716373 0.717728251 0.049732876 0.226869294 889.5379534 2240159.386 0.021705747 0.355972034 5.60E-05 4.251970855 -0.253988122 KELEEVS(ph)PETPVVPATTQR ddPTM_HeLa_SAHA_4h_R1 2 KELEEVSPETPVVPATTQR 19 1 Q15149 Q15149 PLEC Plectin 1 0 KELEEVS(0.998)PET(0.002)PVVPATTQR;KELEEVS(0.997)PET(0.003)PVVPATTQR ; 102.72 0.0006575 16017100 3651.1 4115.2 3297 4129.7 4230.8 4932.3 3934.8 3853.2 4736.2 4635 TRUE FALSE FALSE 4035.13945 4248.53518 3746.29799 4209.636315 3906.637018 4512.040292 3492.045948 3754.640723 4703.240399 4834.837533 0.8345967 0.878733805 0.77485499 0.870688267 0.808018261 0.933235142 0.722267486 0.776580536 0.972781477 1 12.2392517 -13.52287875 0.184772612 1.783768628 0.785503356 0.584050591 0.055702416 26.11628829 0.304193038 7.333783008 0.06806812 3.00E-14 13.52287875 -0.998265272 KELQAEATVSGS(ph)PEAPGTNVVSEPR ddPTM_HeLa_SAHA_4h_R1 3 KELQAEATVSGSPEAPGTNVVSEPR 25 1 K7EJ02;Q9BZV1-2;Q9BZV1 K7EJ02 UBXN6 UBX domain-containing protein 6 1 0 KELQAEATVS(0.249)GS(0.751)PEAPGTNVVSEPR;KELQAEATVS(0.247)GS(0.753)PEAPGTNVVSEPR;KELQAEATVS(0.009)GS(0.991)PEAPGTNVVSEPR ;; 166.93 3.84E-11 49518600 10155.4 9770.4 8081.9 10408.3 11382.2 12566.5 11321.2 10324.6 11397.1 10083.7 TRUE FALSE FALSE 11223.59157 10086.96737 9183.259243 10609.7677 10510.0983 11495.7635 10047.30878 10060.51168 11317.78665 10518.45766 1.067037767 0.958977799 0.873061388 1.008680934 0.999205267 1.092913417 0.955207418 0.956462631 1.075992985 1 13.36063555 -7.25104825 24.70171063 1.031656724 0.979330576 0.23293006 0.055847495 873.3641984 2076157.216 0.009816385 0.011943998 5.61E-08 7.25104825 -0.052326147 KELS(ph)PAGSISK ddPTM_HeLa_SAHA_4h_R1 1 KELSPAGSISK 11 1 O95453;O95453-2;A0A494C0W0;A0A494C0Q6;O95453-3;A0A494C0K5;O95453-4 O95453 PARN Poly(A)-specific ribonuclease PARN 1 0 KELS(0.938)PAGS(0.062)ISK 133.04 0.0031051 9737300 1375.3 1334.3 1106.7 1339.9 1373 1333 1401.4 1527.6 1413.1 1060.8 TRUE FALSE FALSE 1519.960364 1377.532195 1257.515313 1365.835702 1267.801037 1219.420901 1243.710784 1488.526204 1403.266122 1106.536279 1.37362 1.244904682 1.136442913 1.234334316 1.145738337 1.102016195 1.123967471 1.345212291 1.268160971 1 10.11183504 -9.61588462 1.444999833 1.000785814 1.228041448 0 0.119687527 0.330637698 1.24641455 0.07149969 0.016657422 2.42E-10 9.61588462 0.227255635 KELSPAGS(ph)ISK ddPTM_HeLa_SAHA_4h_R1 1 KELSPAGSISK 11 1 O95453;O95453-2;A0A494C0W0;A0A494C0Q6;O95453-3;A0A494C0K5;O95453-4 O95453 PARN Poly(A)-specific ribonuclease PARN 1 0 KELS(0.316)PAGS(0.668)IS(0.016)K 63.727 0.023418 25921000 6538.6 6964.4 6056.8 7224.3 7464.1 7616.9 7836.8 7957.8 7565.3 6740.4 TRUE FALSE FALSE 7226.359948 7190.05113 6882.189162 7364.136773 6892.202271 6967.897268 6954.982639 7754.250999 7512.652461 7031.011631 1.027783814 1.022619718 0.97883342 1.047379404 0.980257555 0.991023431 0.989186621 1.102864197 1.068502352 1 12.77951657 -4.253901604 24.90609873 1.009135377 1.102864244 0.478560199 0.028422216 421.1170707 1391405.851 0.002957336 0.04092816 5.57E-05 4.253901604 0.093728868 KEMLPPPPVSS(ph)S(ph)S(ph)QK ddPTM_HeLa_SAHA_4h_R1 1 KEMLPPPPVSSSSQK 15 1 A0A669KBI3;F5GXF9;P51825;P51825-3;P51825-2 A0A669KBI3 AFF1 AF4/FMR2 family member 1 3 0 KEMLPPPPVS(0.022)S(0.984)S(0.997)S(0.997)QK 57.804 0.0082808 0 64.044 57.226 0 0 110.74 150.82 0 0 0 135.07 TRUE FALSE FALSE 70.78044176 59.08015995 0 0 102.2551251 137.9692875 0 0 0 140.8935287 0.502368295 0.419324865 0 0 0.725761687 0.979245028 0 0 0 1 7.13846154 -8.48600997 0.634358929 0.992223041 0.309198976 0 0.442233398 0.612793536 0.511088578 0.199968718 0.086708327 3.27E-09 8.48600997 -0.683024065 KEPAITSQNS(ph)PEAR ddPTM_HeLa_SAHA_4h_R1 5 KEPAITSQNSPEAR 14 1 E5RIS7;A0A1W2PRL9;A0A1W2PPZ5;P23193-2;P23193 E5RIS7 TCEA1 Transcription elongation factor A protein 1 1 0 KEPAIT(0.002)S(0.243)QNS(0.755)PEAR;KEPAITSQNS(1)PEAR;KEPAIT(0.017)S(0.114)QNS(0.869)PEAR;KEPAITS(0.001)QNS(0.999)PEAR;KEPAITSQNS(1)PEAR ;;;; 217.32 5.76E-17 45256200 6885.66 6888.15 6629.27 7375.2 7583.61 9565.21 7861.27 8792.37 9743.21 8757.66 TRUE FALSE FALSE 7609.925311 7111.330579 7532.672392 7517.957661 7002.55544 8750.200296 6976.69921 8567.473907 9675.406208 9135.245582 0.83302909 0.778449853 0.824572511 0.822961747 0.766542659 0.957850582 0.763712278 0.937848231 1.059129295 1 13.1572278 -9.047585943 0.818300321 1.000998097 0.832780554 0.561945667 0.066457002 0.384680886 0.465974288 0.039153587 0.011639705 8.96E-10 9.047585943 -0.168217542 KEQSEVSVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 KEQSEVSVSPR 11 1 Q7L4I2;E9PI52 Q7L4I2 RSRC2 Arginine/serine-rich coiled-coil protein 2 1 0 KEQSEVS(0.001)VS(0.999)PR;KEQSEVS(0.003)VS(0.997)PR;KEQSEVS(0.001)VS(0.999)PR;KEQSEVS(0.275)VS(0.725)PR ;;; 177.42 0.00011871 93880200 7636.81 7559.98 6547.41 8105.07 8536.63 9072.12 9155 9092.06 8842.3 7777.45 TRUE FALSE FALSE 8440.084715 7804.928312 7439.656937 8261.95535 7882.555254 8299.124338 8124.855305 8859.49827 8780.765714 8112.773931 1.040345113 0.96205421 0.917029983 1.01838846 0.971622693 1.022969999 1.001489179 1.092043035 1.082338272 1 12.98597957 -4.259981049 23.891677 1.004982348 1.092043086 0.281584937 0.042972177 66.12368078 1083081.555 0.005396311 0.045219676 5.50E-05 4.259981049 0.087060738 KES(ph)VSPEDSEK ddPTM_HeLa_SAHA_4h_R1 1 KESVSPEDSEK 11 1 P35251-2;P35251;A0A1W2PP02 P35251-2 RFC1 Replication factor C subunit 1 1 0 KES(0.957)VS(0.043)PEDSEK 147.52 0.0015984 8731900 1837.6 1246.4 820.9 1381.1 1721.3 1816.9 1728.5 1669.9 1289.2 1393.4 TRUE FALSE FALSE 2030.887199 1286.784178 932.7679769 1407.833188 1589.414366 1662.089898 1534.004631 1627.186376 1280.228352 1453.476293 1.397262005 0.885314872 0.641749701 0.968597282 1.093526171 1.143527353 1.055403957 1.11951353 0.880804426 1 10.50529183 -7.240256841 24.85914468 1.187595963 0.985603967 0 0.190064959 999.9716878 1173535.694 0.03456054 0.042304205 5.75E-08 7.240256841 -0.201991996 KESS(ph)DSS(ph)SK ddPTM_HeLa_SAHA_4h_R1 1 KESSDSSSK 9 1 A0A494C050;Q8N5F7 A0A494C050 NKAP NF-kappa-B-activating protein 2 0 KES(0.197)S(0.422)DS(0.416)S(0.937)S(0.028)K 64.82 0.0087135 0 267.04 290.46 240.82 405.5 273.12 622.26 309.44 949.63 484.09 555.3 TRUE FALSE FALSE 295.1284924 299.8710946 273.6376955 413.3490389 252.1936046 569.2399473 274.6209968 925.3398396 480.7211783 579.2417006 0.509508366 0.517695971 0.472406761 0.713603731 0.435385789 0.982733023 0.474104327 1.597502111 0.829914659 1 9.178021658 -4.252319524 24.68936317 0.701346078 1.597502669 0.643287676 0.207453359 601.9458316 1629552.6 0.03357557 0.549293387 5.59E-05 4.252319524 0.896156591 KESVS(ph)PEDSEK ddPTM_HeLa_SAHA_4h_R1 1 KESVSPEDSEK 11 1 P35251-2;P35251;A0A1W2PP02 P35251-2 RFC1 Replication factor C subunit 1 1 0 KES(0.051)VS(0.522)PEDS(0.428)EK 121.45 0.005342 9533400 2331.7 1897.1 1318.3 1861.1 2242.9 2762.8 2490.1 2966.1 1587.7 1845.9 TRUE FALSE FALSE 2576.958904 1958.567285 1497.951059 1897.124282 2071.049487 2527.393897 2209.907394 2890.231457 1576.651066 1925.485783 1.338342213 1.01718086 0.777960072 0.98527047 1.075598431 1.312600654 1.14771421 1.501040144 0.818832879 1 10.91100676 -2.850266623 1.001565564 1.110792322 6.945504749 0.327554997 0.179365524 28.56987883 2.216549991 0.029084161 329.1954632 0.001411671 2.850266623 5.834712427 KESVSPEDS(ph)EK ddPTM_HeLa_SAHA_4h_R1 1 KESVSPEDSEK 11 1 P35251-2;P35251;A0A1W2PP02 P35251-2 RFC1 Replication factor C subunit 1 1 0 KES(0.002)VS(0.429)PEDS(0.569)EK 109.16 0.011309 10333000 3303.3 2104.6 1273.9 2391.6 3009.5 3333.1 2942.7 3814.2 2571.9 2511.9 TRUE FALSE FALSE 3650.75625 2172.790421 1447.500458 2437.892876 2778.91276 3049.101128 2611.579651 3716.638287 2554.001938 2620.200302 1.393311896 0.829245924 0.552438856 0.930422332 1.060572643 1.163690091 0.996709927 1.418455789 0.974735381 1 11.35546139 -7.251961615 24.92328661 1.18573062 0.983016951 0.038702941 0.237142627 1072.801367 2821103.258 0.04340192 0.052790845 5.60E-08 7.251961615 -0.202713668 KESYSIYVYK ddPTM_HeLa_SAHA_4h_R1 2 KESYSIYVYK 10 1 P33778;Q16778;Q8N257 P33778;Q16778;Q8N257 HIST1H2BB;HIST2H2BE;HIST3H2BB Histone H2B type 1-B;Histone H2B type 2-E;Histone H2B type 3-B 0 0 ; ; 142.1 2.38E-05 23790000 18379.5 17814.5 19887.1 21611.1 24147 21954.3 24287 11259.8 17013.7 22057.1 FALSE FALSE TRUE 20312.74014 18391.70149 22597.21042 22029.41409 22296.86208 20083.67013 21554.16284 10971.79062 16895.30028 23008.08953 0.882852099 0.799358046 0.982141972 0.957463855 0.96908794 0.872896035 0.936808022 0.476866652 0.734319999 1 14.48985357 -4.261205813 24.80369506 0.933759225 0.476866511 0.682266103 0.085254677 5.269331138 559196.2279 0.009069447 0.070632698 5.48E-05 4.261205813 -0.456892714 KESYSVYVYK ddPTM_HeLa_SAHA_4h_R1 3 KESYSVYVYK 10 1 O60814;P57053;P58876;P62807;Q5QNW6;Q5QNW6-2;Q93079;U3KQK0;Q99877;Q99879;Q99880 O60814;P58876;P62807;Q5QNW6;Q93079;U3KQK0;Q99879;Q99880 HIST1H2BK;H2BFS;HIST1H2BD;HIST1H2BC;HIST2H2BF;HIST1H2BH;HIST1H2BN;HIST1H2BM;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-F;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-M;Histone H2B type 1-L 0 0 ;; ;; 150.06 7.42E-06 62683800 21708.6 21682.4 23181.4 24058.1 28563.6 27436.5 28058.8 15292.7 19152.4 23700.8 FALSE FALSE TRUE 23992.01015 22384.92399 26340.44047 24523.77931 26375.06314 25098.75585 24901.54998 14901.53488 19019.11689 24722.65748 0.970446246 0.905441658 1.065437261 0.991955632 1.066837704 1.0152127 1.007235974 0.602748102 0.769299049 1 14.59354621 -4.260308338 24.99999896 0.994488006 0.602747977 0.637267903 0.083734355 23.42067031 517613.3535 0.006057135 0.049930973 5.49E-05 4.260308338 -0.391740029 KET(ph)ES(ph)EAEDNLDDLEK ddPTM_HeLa_SAHA_4h_R1 2 KETESEAEDNLDDLEK 16 1 A9Z1X7;Q8IYB3;Q8IYB3-2 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 2 0 KET(1)ES(1)EAEDNLDDLEK;KET(1)ES(1)EAEDNLDDLEK ; 90.968 0.005304 10051200 4420 3971.5 4109.7 4358.6 4447.5 5529 4976.4 4987.3 4962.7 4661.3 TRUE FALSE FALSE 4884.91588 4100.179206 4669.748514 4442.967006 4106.733511 5057.898095 4416.442375 4859.732088 4928.164167 4862.271455 1.00465717 0.84326415 0.960404732 0.913763669 0.844612142 1.040233591 0.908308476 0.999477741 1.013551837 1 12.24741472 KET(ph)ESEAEDNLDDLEK ddPTM_HeLa_SAHA_4h_R1 2 KETESEAEDNLDDLEK 16 1 A9Z1X7;Q8IYB3;Q8IYB3-2 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 KET(0.583)ES(0.417)EAEDNLDDLEK;KET(0.538)ES(0.462)EAEDNLDDLEK ; 115.42 0.0015219 10336500 2307.4 2154.5 2500.55 2500.4 2473.1 2714 2427.4 2597.8 2272.8 2515.9 TRUE FALSE FALSE 2550.102919 2224.307214 2841.311932 2548.798858 2283.611612 2482.751931 2154.262563 2531.352038 2256.9834 2624.372762 0.971699964 0.847557651 1.082663246 0.97120306 0.870155203 0.946036313 0.820867597 0.964555064 0.860008697 1 11.35775694 -5.835578273 6.837454554 0.982050651 0.898165217 0.051643698 0.07553347 0.205106891 15.41006381 0.008953817 0.016367145 1.46E-06 5.835578273 -0.083885435 KET(ph)PPPLVPPAAR ddPTM_HeLa_SAHA_4h_R1 3 KETPPPLVPPAAR 13 1 Q9BQA1-2;Q9BQA1 Q9BQA1-2 WDR77 Methylosome protein 50 1 0 KET(1)PPPLVPPAAR;KET(1)PPPLVPPAAR;KET(1)PPPLVPPAAR ;; 101.01 0.0068122 120162000 10622.4 10588.6 9761.1 10648.7 11250.5 12469.9 11703.7 11745.8 11915.6 10538.4 TRUE FALSE FALSE 11739.71277 10931.67759 11091.29187 10854.82099 10388.48912 11407.39437 10386.76887 11445.35944 11832.67837 10992.762 1.067949326 0.994443215 1.008963159 0.987451651 0.945029932 1.037718671 0.944873443 1.041172314 1.076406309 1 13.4242663 -7.111139884 11.05959249 1.032084986 0.992251758 0.281763366 0.036766201 0.603944593 56.75551293 0.006057774 0.007421048 7.74E-08 7.111139884 -0.039833228 KET(ph)SPESSLIQDEIAVK ddPTM_HeLa_SAHA_4h_R1 2 KETSPESSLIQDEIAVK 17 1 A0A669KB77;P11137-3;P11137 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 KET(0.417)S(0.417)PES(0.137)S(0.029)LIQDEIAVK;KET(0.483)S(0.483)PES(0.033)S(0.002)LIQDEIAVK ; 129.02 0.00025254 82319000 6215.2 7743.4 6887.3 7794.4 8127.6 9324.4 8120.4 7547 8925.2 8473.3 TRUE FALSE FALSE 6868.943252 7994.291241 7825.865376 7945.271883 7504.865044 8529.908662 7206.67122 7353.958668 8863.088807 8838.62543 0.777150622 0.904472229 0.885416566 0.89892619 0.849098664 0.965071858 0.815361085 0.832025152 1.002767781 1 13.10960631 -9.576182014 1.365100397 0.999827377 0.857700577 0.530164419 0.050374739 0.299652413 1.003088243 0.038864393 0.009134808 2.65E-10 9.576182014 -0.1421268 KETES(ph)EAEDNLDDLEK ddPTM_HeLa_SAHA_4h_R1 13 KETESEAEDNLDDLEK 16 1 A9Z1X7;Q8IYB3;Q8IYB3-2 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 KET(0.255)ES(0.745)EAEDNLDDLEK;KET(0.122)ES(0.878)EAEDNLDDLEK;KET(0.119)ES(0.881)EAEDNLDDLEK;KET(0.011)ES(0.989)EAEDNLDDLEK;KET(0.011)ES(0.989)EAEDNLDDLEK;KET(0.082)ES(0.918)EAEDNLDDLEK;KET(0.044)ES(0.956)EAEDNLDDLEK;KET(0.181)ES(0.819)EAEDNLDDLEK;KET(0.064)ES(0.936)EAEDNLDDLEK;KET(0.325)ES(0.675)EAEDNLDDLEK;KET(0.013)ES(0.987)EAEDNLDDLEK;KET(0.039)ES(0.961)EAEDNLDDLEK;KET(0.074)ES(0.926)EAEDNLDDLEK ;;;;;;;;;;;; 152.09 2.34E-05 3603469700 47488 46786.9 45846.39 49049.3 52472.2 58575.02 53779.57 53695.8 54109.19 49797.83 TRUE FALSE FALSE 52483.00572 48302.82626 52094.09727 49998.72013 48451.79137 53584.09876 47728.15124 52322.33919 53732.63974 51944.85816 1.010359978 0.929886575 1.00287303 0.96253454 0.93275433 1.031557322 0.918823401 1.007266957 1.034416911 1 15.66469333 -7.329770191 24.99975783 1.004892232 0.969447028 0.239750259 0.035850793 191.2090006 69955.93784 0.005229937 0.005980656 4.68E-08 7.329770191 -0.035445203 KETQS(ph)PEQVK ddPTM_HeLa_SAHA_4h_R1 2 KETQSPEQVK 10 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 KET(0.058)QS(0.942)PEQVK;KET(0.005)QS(0.995)PEQVK ; 89.992 0.0095627 259910000 11297.9 13637.5 9782.2 15157.4 14474.2 18032.1 17847.9 14344.2 17045.8 16914.7 TRUE FALSE FALSE 12486.26496 14079.36395 11115.26727 15450.79339 13365.18992 16495.66363 15839.60732 13977.29613 16927.17689 17643.9755 0.707678661 0.797970047 0.629975216 0.875697963 0.757493113 0.934917623 0.897734602 0.792185193 0.959374314 1 14.10688804 -9.471507089 1.217322438 0.999694411 0.79280987 0.409137515 0.0861898 0.361792592 0.961351542 0.062102102 0.015366883 3.38E-10 9.471507089 -0.206884541 KETTSGTSTEPVKNS(ph)SPAPPQPAPGK ddPTM_HeLa_SAHA_4h_R1 1 KETTSGTSTEPVKNSSPAPPQPAPGK 26 2 Q9NYV4-2;J3QSD7;Q9NYV4-3;Q9NYV4 Q9NYV4-2 CDK12 Cyclin-dependent kinase 12 1 0 KETTSGTS(0.003)T(0.003)EPVKNS(0.497)S(0.497)PAPPQPAPGK 60.939 0.0017217 11338000 3371.2 3566.9 2672.3 2947.1 3611.8 3971.5 3644 3581.7 4270.4 3703.7 TRUE FALSE FALSE 3725.798284 3682.4699 3036.467127 3004.145382 3335.064664 3633.105857 3233.96753 3490.0853 4240.681939 3863.384632 0.964387095 0.953171959 0.785960347 0.777594174 0.863249451 0.940394551 0.837081429 0.903375054 1.097659783 1 11.9156496 -6.912856594 6.17496807 0.981977425 0.852163611 0.611231932 0.058978248 0.104732894 6.042808325 0.007990981 0.010535071 1.22E-07 6.912856594 -0.129813814 KETTSGTSTEPVKNSS(ph)PAPPQPAPGK ddPTM_HeLa_SAHA_4h_R1 1 KETTSGTSTEPVKNSSPAPPQPAPGK 26 2 Q9NYV4-2;J3QSD7;Q9NYV4-3;Q9NYV4 Q9NYV4-2 CDK12 Cyclin-dependent kinase 12 1 0 KET(0.001)T(0.001)S(0.002)GT(0.002)S(0.005)T(0.005)EPVKNS(0.43)S(0.554)PAPPQPAPGK 45.737 0.013274 10323000 1105.9 1088.2 935.63 1009.6 1232.1 1407.3 1127.4 1210.5 1251.6 817.7 TRUE FALSE FALSE 1222.223636 1123.458394 1063.132784 1029.142268 1137.696764 1287.390123 1000.541985 1179.537163 1242.890014 852.9550487 1.432928544 1.317136695 1.246411268 1.206560966 1.333829685 1.509329389 1.173030145 1.382883148 1.457157696 1 9.736325902 -9.412478592 1.076319859 0.995267626 1.329231212 0 0.169876554 0.283523791 0.57413029 0.073101945 0.017479909 3.87E-10 9.412478592 0.333963585 KEVS(ph)PEVVR ddPTM_HeLa_SAHA_4h_R1 1 KEVSPEVVR 9 1 Q5T200-2;Q5T200;A0A087WX14 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 KEVS(1)PEVVR 71.085 0.020012 82661000 4666.5 4815.5 4416.7 5485.5 5476.4 5592.3 5952.8 5533.5 5211.2 4829.2 TRUE FALSE FALSE 5157.343881 4971.52536 5018.584875 5591.679785 5056.799415 5115.804579 5282.975277 5391.961082 5174.934835 5037.410446 1.023808549 0.986920842 0.996262848 1.110030609 1.003848995 1.015562387 1.048748228 1.070383512 1.027300612 1 12.29846657 KEVVEEAENGR ddPTM_HeLa_SAHA_4h_R1 2 KEVVEEAENGR 11 1 B8ZZQ6;P06454-2;P06454;B8ZZA1;B8ZZW7;H7C2N1 B8ZZQ6 PTMA "Prothymosin alpha;Prothymosin alpha, N-terminally processed;Thymosin alpha-1" 0 0 ; ; 108.56 0.0092403 23714100 3642.2 4154.8 3829.2 4093.8 4116.4 4741 4463.3 4054.1 5213.1 4006.7 FALSE FALSE TRUE 4025.303307 4289.418246 4351.023434 4173.041419 3801.002321 4337.040128 3961.077737 3950.401992 5176.821613 4179.448445 0.963118306 1.026312037 1.041052065 0.998467016 0.909450702 1.037706335 0.94775131 0.945196967 1.238637509 1 12.02909685 -4.57597997 24.99989913 0.98854888 0.945834523 0 0.087336452 108.1004735 50892.99953 0.005122429 0.019166386 2.65E-05 4.57597997 -0.042714357 KEY(ph)Y(ph)QARR ddPTM_HeLa_SAHA_4h_R1 1 KEYYQARR 8 2 A0A087WZG6;A0A087X1S9;Q8TEW8-5;Q8TEW8-2;Q8TEW8;A0A087WYL6;Q8TEW8-6;Q8TEW8-3 A0A087WZG6 PARD3B Partitioning defective 3 homolog B 2 0 KEY(1)Y(1)QARR 66.692 0.014543 97524000 4200.1 4324.5 4233.6 4653.1 5450.6 4893.2 5863.1 2999.7 3165.1 4292.9 TRUE FALSE FALSE 4641.885789 4464.616637 4810.53296 4743.167479 5032.976206 4476.271832 5203.368557 2922.972018 3143.073811 4477.987928 1.036600782 0.997013996 1.074262155 1.05921846 1.123936975 0.999616771 1.161988072 0.652742273 0.701894213 1 12.12863492 -4.249561928 24.96202376 1.036016195 0.652742037 0.45139751 0.118903821 552.469445 1161066.121 0.007384863 0.16285382 5.63E-05 4.249561928 -0.383274158 KEYEEDDILAS(ph)DDPSSIEQYENTR ddPTM_HeLa_SAHA_4h_R1 2 KEYEEDDILASDDPSSIEQYENTR 24 1 Q96RS0 Q96RS0 TGS1 Trimethylguanosine synthase 1 0 KEYEEDDILAS(0.995)DDPS(0.004)S(0.001)IEQYENTR;KEYEEDDILAS(1)DDPSSIEQYENTR ; 135.08 2.58E-07 34942000 5165.7 5457 4455 4904.4 6311.9 6466.5 6067.5 5776.3 5008.5 4402.8 TRUE FALSE FALSE 5709.052027 5633.81038 5062.104199 4999.331754 5828.283586 5915.51782 5384.768931 5628.55061 4973.645441 4592.626255 1.243090927 1.226707785 1.102224287 1.088556193 1.269052447 1.288046859 1.172481415 1.225562521 1.082963247 1 12.16510367 -9.342729987 0.898846243 0.990741327 1.202835468 0.464347695 0.066717731 0.384507128 0.516927662 0.056848932 0.012575749 4.54E-10 9.342729987 0.212094141 KFELLPT(ph)PPLSPS(ph)RR ddPTM_HeLa_SAHA_4h_R1 1 KFELLPTPPLSPSRR 15 2 H0YBT0;A0A087WUS5;P01106;P01106-2;H0YBG3;A0A0B4J1R1 H0YBT0 MYC Myc proto-oncogene protein 2 0 KFELLPT(0.944)PPLS(0.313)PS(0.743)RR 73.346 0.022469 6206100 3702.6 3457.9 3465.5 2284.1 1785.2 2034.1 1712.1 1686.6 4404.2 3835.3 TRUE FALSE FALSE 4092.056456 3569.938229 3937.760292 2328.312058 1648.418362 1860.783236 1519.450002 1643.459214 4373.550814 4000.658553 1.022845715 0.892337644 0.984278023 0.581982198 0.412036753 0.465119233 0.379799971 0.410797171 1.09320772 1 11.96602179 -6.154516652 2.299252747 1.002758899 0.415002284 0.966551275 0.05169544 0.030361164 0.313682383 0.006662701 0.011929911 7.01E-07 6.154516652 -0.587756615 down KFLDGIYVSEK ddPTM_HeLa_SAHA_4h_R1 1 KFLDGIYVSEK 11 1 H0Y9V9;D6RAN4;A0A2R8Y5Y7;P32969;H0Y9R4 H0Y9V9 RPL9 60S ribosomal protein L9 0 0 90.926 0.0089961 910150 1222.9 1206.8 1100.9 1267.4 1337.5 1315 1420.5 1131.6 1122.9 1293 FALSE FALSE TRUE 1351.530233 1245.901112 1250.924919 1291.93236 1235.021039 1202.954602 1260.661601 1102.655311 1115.085647 1348.747558 1.002063155 0.923746705 0.927471499 0.957875588 0.915679907 0.891904934 0.934690554 0.817540172 0.826756379 1 10.39740463 -1 0.187883518 1.020352768 0.246988501 0 0.063891024 19.42774965 0.215924141 0.03280834 4.371436858 0.1 1 -0.773364266 KFLPLFDR ddPTM_HeLa_SAHA_4h_R1 1 KFLPLFDR 8 1 P61604;B8ZZL8;S4R3N1 P61604 HSPE1;HSPE1-MOB4 "10 kDa heat shock protein, mitochondrial" 0 0 70.919 0.023389 1605100 2028.3 2109.6 3499.1 2242.6 2465.1 1273.4 3306.1 957.08 566.58 1563.4 FALSE FALSE TRUE 2241.6459 2177.952424 3975.939125 2286.008766 2276.224571 1164.899156 2934.088927 932.5992794 562.6371236 1630.805825 1.374563339 1.335506895 2.43802117 1.401766373 1.395766765 0.714308925 1.799165101 0.571864084 0.345005589 1 10.6713693 -3.003300343 14.46521508 1.27806052 1.133341806 0 0.585086993 0 0 0.064855438 0 0.000992429 3.003300343 -0.144718714 KFNALFAQGNYSEAAK ddPTM_HeLa_SAHA_4h_R1 2 KFNALFAQGNYSEAAK 16 1 A0A087WVQ6;Q00610-2;Q00610 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 ; ; 219.52 8.27E-35 3940600 3214.7 3302.9 3581.8 3637.6 4305.4 5624.1 4170.7 3831.6 3270.6 4119.7 FALSE FALSE TRUE 3552.836896 3409.916127 4069.909051 3708.011008 3975.521182 5144.89504 3701.401859 3733.59322 3247.839628 4297.320428 0.826756337 0.793498224 0.947080656 0.862865842 0.925116302 1.197233282 0.861327872 0.868818903 0.755782512 1 12.06922164 -5.505618262 24.74719832 0.904410176 0.980484783 0.109875461 0.112584825 1318.689002 1890667.494 0.016111624 0.035274932 3.12E-06 5.505618262 0.076074607 KFNHDGEEEEEDDDYGSR ddPTM_HeLa_SAHA_4h_R1 2 KFNHDGEEEEEDDDYGSR 18 1 Q6PJT7;Q6PJT7-5;H0YJA2;Q6PJT7-2;Q6PJT7-9;Q6PJT7-3;Q6PJT7-11;Q6PJT7-4;Q6PJT7-10;G3V256;G3V5I6 Q6PJT7 ZC3H14 Zinc finger CCCH domain-containing protein 14 0 0 ; ; 131.82 4.60E-05 15530800 5143 4633.6 4482.6 4570.6 5373.2 4490 6402 4755.8 5261.8 5301.1 FALSE FALSE TRUE 5683.964337 4783.73168 5093.465384 4659.070572 4961.506577 4107.42674 5681.630111 4634.153522 5225.182705 5529.656364 1.027905527 0.865104695 0.921117887 0.842560598 0.897254052 0.742799637 1.027483398 0.838054522 0.944938051 1 12.43297411 -7.261030267 24.99999741 1.013177611 0.878243841 0.338642035 0.071362079 22.05840689 1347950.846 0.01049745 0.012443376 5.48E-08 7.261030267 -0.13493377 KFSEK(ac)IALQK ddPTM_HeLa_SAHA_4h_R1 1 KFSEKIALQK 10 2 J3KNE6;Q5T4K5;Q53ET0 J3KNE6 CRTC2 CREB-regulated transcription coactivator 2 0 1 K(0.234)FSEK(0.766)IALQK 108.37 0.0014992 0 1261.8 1522.5 2127.7 1819.6 2290.8 1676.7 2444.7 1521.3 703.55 760.18 FALSE TRUE FALSE 1394.521913 1571.829999 2417.651875 1854.820989 2115.279399 1533.835727 2169.615922 1482.387349 698.6539383 792.95508 1.758639232 1.982243432 3.048914039 2.339124921 2.66759045 1.934328647 2.736114537 1.869446815 0.881076313 1 9.631095331 -7.820996489 0.803110231 1.13704155 2.425596207 0.68687583 0.376621643 0.219462944 0.307050735 0.10838017 0.090448615 1.51E-08 7.820996489 1.288554656 KFTFGLDWVPK ddPTM_HeLa_SAHA_4h_R1 1 KFTFGLDWVPK 11 1 P45974-2;P45974;H7C5J3;Q92995-2;Q92995 P45974-2 USP5;USP13 Ubiquitin carboxyl-terminal hydrolase 5;Ubiquitin carboxyl-terminal hydrolase 13 0 0 110.08 0.0024921 333040 471.28 485.53 510.76 498.41 593.5 642.91 733.49 219.74 491.51 584.92 FALSE FALSE TRUE 520.8513927 501.2614906 580.3637129 508.0574463 548.0261582 588.1304511 650.9557748 214.119369 488.0895419 610.1387637 0.85366055 0.82155326 0.951199542 0.832691637 0.898199214 0.963929004 1.066897915 0.350935528 0.799964813 1 9.252993582 -4.252537803 24.86743434 0.923947905 0.35093521 0.803389456 0.082672415 338.8954617 946716.1076 0.011319182 0.18199762 5.59E-05 4.252537803 -0.573012695 KLLEDTLFPSSK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 KLLEDTLFPSSKK 13 2 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 0 1 ; KLLEDTLFPSSK(1)K;KLLEDTLFPSSK(1)K 177.63 1.90E-11 10130800 2399.5 2430.5 3576.7 4258.8 4724.2 4961.9 5834.6 5799.5 2082.5 2098.71 FALSE TRUE FALSE 2651.890419 2509.249795 4064.114049 4341.235232 4362.232817 4539.118205 5178.075452 5651.157188 2068.007713 2189.195659 1.211353772 1.146197136 1.856441672 1.983027517 1.992618978 2.073418238 2.365286735 2.581385161 0.944642707 1 11.09618519 -6.116564709 0.513872447 1.021774664 2.567341873 0.931553794 0.14689912 0.197175257 0.094367216 0.040628964 0.135171467 7.65E-07 6.116564709 1.545567209 up KGAANASGS(ph)SPDAPAK ddPTM_HeLa_SAHA_4h_R1 1 KGAANASGSSPDAPAK 16 1 E7EPJ7;O75962-5;O75962-4;O75962 E7EPJ7 TRIO Triple functional domain protein 1 0 KGAANAS(0.003)GS(0.498)S(0.498)PDAPAK 119.54 0.0019248 3967400 869.07 1062.1 778.17 1121.3 1158.4 1027.9 1090 979.15 1346.8 1143.5 TRUE FALSE FALSE 960.48277 1096.512737 884.2149551 1143.004383 1069.643642 940.3171372 967.3503313 954.1047608 1337.427509 1192.801881 0.805232441 0.919274822 0.741292388 0.95825166 0.896748789 0.788326337 0.810989944 0.799885359 1.121248659 1 10.22013872 -9.377364524 0.871320936 1.010246672 0.839324747 0.553308619 0.074661549 0.479632737 0.586627608 0.057032739 0.011621793 4.19E-10 9.377364524 -0.170921925 KGAANASGS(ph)SPDAPAKDAR ddPTM_HeLa_SAHA_4h_R1 1 KGAANASGSSPDAPAKDAR 19 2 E7EPJ7;O75962-5;O75962-4;O75962 E7EPJ7 TRIO Triple functional domain protein 1 0 KGAANASGS(0.599)S(0.401)PDAPAKDAR 112.85 0.00048976 6186900 1417.2 993.76 1394.3 1271.4 1600.4 1472.8 1268.8 1537.6 578.85 1136.4 TRUE FALSE FALSE 1566.267598 1025.958476 1584.307943 1296.009785 1477.777698 1347.309154 1126.031285 1498.270418 574.8217357 1185.395765 1.321303521 0.865498685 1.336522357 1.093314 1.246653431 1.136590153 0.949920117 1.263941092 0.48491968 1 10.21115309 -3.93729609 20.24295118 1.138087073 3.605077249 0 0.253405855 790.3817893 289664.2322 0.021220476 11661.74869 0.000115532 3.93729609 2.466990176 KGAANASGSS(ph)PDAPAK ddPTM_HeLa_SAHA_4h_R1 4 KGAANASGSSPDAPAK 16 1 E7EPJ7;O75962-5;O75962-4;O75962 E7EPJ7 TRIO Triple functional domain protein 1 0 KGAANAS(0.004)GS(0.19)S(0.805)PDAPAK;KGAANASGS(0.001)S(0.999)PDAPAK;KGAANASGS(0.006)S(0.994)PDAPAK;KGAANASGS(0.008)S(0.992)PDAPAK ;;; 163.44 1.59E-06 95354000 24332.4 29515.9 19456.5 25399.6 30374.1 32666.2 28170.7 25295.1 30820.3 26600 TRUE FALSE FALSE 26891.79347 30472.23453 22107.93049 25891.24599 28046.84302 29882.85598 25000.85869 24648.08797 30605.81902 27746.85618 0.969183438 1.09822296 0.796772447 0.933123588 1.010811562 1.076981687 0.901033924 0.888320025 1.103037361 1 14.7600367 -6.11814903 0.007628561 1.924479925 1.30E-06 0.111176681 0.089611459 10999.49591 30.49687175 3761.918039 3931.071292 7.62E-07 6.11814903 -1.924478623 KGAANASGSS(ph)PDAPAKDAR ddPTM_HeLa_SAHA_4h_R1 3 KGAANASGSSPDAPAKDAR 19 2 E7EPJ7;O75962-5;O75962-4;O75962 E7EPJ7 TRIO Triple functional domain protein 1 0 KGAANAS(0.011)GS(0.271)S(0.717)PDAPAKDAR;KGAANASGS(0.255)S(0.745)PDAPAKDAR;KGAANASGS(0.251)S(0.749)PDAPAKDAR ;; 125.75 0.00014486 35211500 9167.7 6428.9 7301.8 7904.1 7461.8 8123 9014.8 8622.1 5901.5 7727.9 TRUE FALSE FALSE 10132.00075 6637.200578 8296.851278 8057.095285 6890.078496 7430.874701 8000.430978 8401.559167 5860.430981 8061.087588 1.256902451 0.823362915 1.029247132 0.999504744 0.854733114 0.921820365 0.992475381 1.042236432 0.727002519 1 12.97675878 -7.260286797 24.99889011 1.121315045 0.953381579 0 0.152814463 91.75840181 1990190.487 0.019096024 0.022703608 5.49E-08 7.260286797 -0.167933466 KGAGDGS(ph)DEEVDGK ddPTM_HeLa_SAHA_4h_R1 17 KGAGDGSDEEVDGK 14 1 P35579;P35579-2 P35579 MYH9 Myosin-9 1 0 KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK;KGAGDGS(1)DEEVDGK ;;;;;;;;;;;;;;;; 215.15 7.44E-17 2952479800 48436.4 67238.7 42098.06 61903.1 66388.8 79641.4 61834.8 55969.7 88792.5 64698.2 TRUE FALSE FALSE 53531.16279 69417.278 47834.96438 63101.32401 61302.10449 72855.50467 54876.98556 54538.07612 88174.58576 67487.65603 0.793199319 1.028592221 0.708795759 0.935005418 0.908345438 1.079538229 0.813141081 0.808119282 1.306529089 1 16.04233603 -9.631443609 1.456304997 0.999901862 0.875606215 0.234116605 0.145059908 0.616773585 2.35309898 0.073842029 0.016879187 2.34E-10 9.631443609 -0.124295647 KGAGDGS(ph)DEEVDGKADGAEAK ddPTM_HeLa_SAHA_4h_R1 2 KGAGDGSDEEVDGKADGAEAK 21 2 P35579;P35579-2 P35579 MYH9 Myosin-9 1 0 KGAGDGS(1)DEEVDGKADGAEAK;KGAGDGS(1)DEEVDGKADGAEAK ; 70.593 0.0031708 32428300 4266.1 5172.5 3962.9 4088 5363.9 6086.9 5149.3 4160.3 6170.6 4938.7 TRUE FALSE FALSE 4714.827972 5340.092394 4502.943374 4167.129151 4952.919141 5568.261876 4569.887212 4053.88555 6127.658292 5151.631526 0.915210637 1.036582754 0.874081027 0.808895033 0.961427291 1.080873476 0.887075713 0.786912948 1.189459739 1 12.33081369 KGAGDGS(ph)DEEVDGKADGAEAKPAE ddPTM_HeLa_SAHA_4h_R1 1 KGAGDGSDEEVDGKADGAEAKPAE 24 3 P35579;P35579-2 P35579 MYH9 Myosin-9 1 0 KGAGDGS(1)DEEVDGKADGAEAKPAE 55.344 0.0058422 36018000 2362.3 2478.8 2272.5 2036.3 2469.4 2332.4 2559.1 2478.4 2039.2 2701.6 TRUE FALSE FALSE 2610.777553 2559.114746 2582.184465 2075.715531 2280.195105 2133.666398 2271.143333 2415.006117 2025.009041 2818.079197 0.926438673 0.908106042 0.91629237 0.736571042 0.809130953 0.757135002 0.805918916 0.85696886 0.718577761 1 11.46049644 -6.867687045 0.837852085 0.97549543 0.79137863 0 0.091445724 0.196964111 0.27706667 0.009571549 0.014459827 1.36E-07 6.867687045 -0.1841168 KGAGDGSDEEVDGKADGAEAKPAE ddPTM_HeLa_SAHA_4h_R1 2 KGAGDGSDEEVDGKADGAEAKPAE 24 3 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ; ; 73.383 0.00032706 13994500 3733.3 3024.7 3554.51 3469.8 4190.9 3791.3 4073.6 4473.5 3858.1 4101.9 FALSE FALSE TRUE 4125.985623 3122.702265 4038.900112 3536.962996 3869.794147 3468.259911 3615.227807 4359.074348 3831.251168 4278.752983 0.964296289 0.729815971 0.943943277 0.826634071 0.904421022 0.81057727 0.844925571 1.018772143 0.895413029 1 12.06297468 -7.490278524 21.17221361 0.984248754 0.866495696 0.167335578 0.079137159 50.55302998 32832.8146 0.011784502 0.012987318 3.23E-08 7.490278524 -0.117753059 KGATPGK(ac)ALVATPGK ddPTM_HeLa_SAHA_4h_R1 1 KGATPGKALVATPGK 15 2 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 K(0.344)GATPGK(0.656)ALVATPGK 115.31 0.00066098 10247000 7674.7 8403 8394.9 9343 10939 12238 12785 12693 8870.7 8361.3 FALSE TRUE FALSE 8481.960159 8675.262713 9538.913253 9523.847275 10100.85618 11195.25355 11346.39815 12368.33144 8808.968076 8721.796562 0.972501491 0.994664649 1.09368674 1.091959347 1.158116463 1.283594896 1.300924422 1.418094466 1.009994674 1 13.09040962 -5.192135946 0.619004591 0.983742135 1.469056806 0.967602509 0.026314006 0.165375015 0.080731898 0.005177619 0.0461273 6.42E-06 5.192135946 0.48531467 KGATPGK(ac)ALVATPGKK ddPTM_HeLa_SAHA_4h_R1 2 KGATPGKALVATPGKK 16 3 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 ; KGATPGK(1)ALVATPGKK;KGATPGK(1)ALVATPGKK 238.83 3.78E-57 6247600 4915.1 3964.8 5170.5 5054.5 5986.6 6394.5 7453.5 7250.6 4299.9 4105 FALSE TRUE FALSE 5432.092769 4093.262121 5875.108813 5152.337156 5527.908001 5849.652626 6614.812563 7065.140151 4269.976646 4281.986639 1.268591714 0.955925944 1.372052112 1.203258578 1.290968064 1.366107164 1.544799907 1.649967818 0.997195229 1 12.06406458 -1 0.23414722 1.059523346 4.496673058 0.769499402 0.106291046 18.8324014 0.230470486 0.072147353 25.22093519 0.1 1 3.437149712 KGDIFLVR ddPTM_HeLa_SAHA_4h_R1 1 KGDIFLVR 8 1 P55072;C9JUP7;C9IZA5 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 72.879 0.021448 953400 2327 1533.7 1884 2246.9 2129.2 2182.5 2357.3 1071.9 2151 2356.9 FALSE FALSE TRUE 2571.764537 1583.392886 2140.741709 2290.391999 1966.061156 1996.538722 2092.0504 1044.48235 2136.031016 2458.517493 1.046063143 0.644043775 0.870744957 0.931615091 0.799693783 0.812090509 0.850939806 0.42484235 0.868828886 1 11.26357291 -3.388018687 0.274197964 1.032220736 1.83E-11 0.357031371 0.136368192 8.372565835 0.326385251 0.066616336 3.169499138 0.000409243 3.388018687 -1.032220736 KGDIVDIK ddPTM_HeLa_SAHA_4h_R1 1 KGDIVDIK 8 1 G3V1B3;M0R181;P46778 G3V1B3 RPL21 60S ribosomal protein L21 0 0 75.652 0.019088 2091100 2221.8 2369.8 2195.6 2600.5 2234.2 2349.3 2649.5 2451.9 2158.7 2190.4 FALSE FALSE TRUE 2455.499118 2446.583075 2494.804934 2650.836438 2063.016079 2149.126423 2351.371287 2389.183948 2143.677431 2284.838864 1.074692468 1.070790205 1.091895351 1.160185289 0.902915348 0.940603058 1.029119088 1.045668465 0.938218211 1 11.15787671 -5.745128553 24.99964965 1.051578401 0.980331474 0.239657385 0.066374637 287.5081087 440661.711 0.009181962 0.018319752 1.80E-06 5.745128553 -0.071246928 KGDRS(ph)PEPGQTWTR ddPTM_HeLa_SAHA_4h_R1 2 KGDRSPEPGQTWTR 14 2 Q09666;E9PJZ0;E9PKR9;E9PJC6;E9PLK4;Q09666-2 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 KGDRS(1)PEPGQTWTR;KGDRS(0.985)PEPGQT(0.015)WTR ; 157.37 7.80E-05 517313000 7091.8 7814 7853.8 6747.4 8278.2 8866.3 9145.1 8421.9 7780.4 7825.8 TRUE FALSE FALSE 7837.748062 8067.178727 8924.074963 6878.005684 7643.926104 8110.84136 8116.069279 8206.479993 7726.255563 8163.208537 0.960130815 0.988236267 1.093206785 0.842561556 0.93638746 0.993584976 0.994225401 1.00530079 0.946472888 1 12.9949206 -6.274263333 24.98364894 0.98897545 0.957798791 0.116147583 0.056768652 1759.239472 3427348.479 0.00865687 0.013272301 5.32E-07 6.274263333 -0.031176659 KGDS(ph)SAEELK ddPTM_HeLa_SAHA_4h_R1 2 KGDSSAEELK 10 1 P26373;P26373-2 P26373 RPL13 60S ribosomal protein L13 1 0 KGDS(0.5)S(0.5)AEELK;KGDS(0.666)S(0.334)AEELK ; 128.21 0.0049111 12736900 3410.3 3446.6 2764.8 4124.8 3954 5120.2 4792.9 4204.9 4221.2 4685.6 TRUE FALSE FALSE 3769.011001 3558.272101 3141.572546 4204.641469 3651.045374 4683.930155 4253.590278 4097.344747 4191.824326 4887.619147 0.771134347 0.728017465 0.642761322 0.860263728 0.746998746 0.958325519 0.870278586 0.83831097 0.857641359 1 12.25491616 -9.226281075 0.99926489 0.998155042 0.801576696 0.172562048 0.092980189 0.414939423 0.753979381 0.056488013 0.016265009 5.94E-10 9.226281075 -0.196578346 KGDVEGSQS(ph)QDEGEGSGESER ddPTM_HeLa_SAHA_4h_R1 6 KGDVEGSQSQDEGEGSGESER 21 1 Q9UQE7 Q9UQE7 SMC3 Structural maintenance of chromosomes protein 3 1 0 KGDVEGS(0.007)QS(0.988)QDEGEGS(0.004)GESER;KGDVEGSQS(1)QDEGEGSGESER;KGDVEGS(0.001)QS(0.994)QDEGEGS(0.004)GES(0.001)ER;KGDVEGSQS(0.996)QDEGEGS(0.003)GES(0.001)ER;KGDVEGS(0.001)QS(0.999)QDEGEGSGESER;KGDVEGSQS(1)QDEGEGSGESER ;;;;; 163.15 1.46E-07 25693600 2619.88 2859.91 2408.5 3131.62 3086.58 3064.8 3420.16 2747.39 3202.62 3013.56 TRUE FALSE FALSE 2895.450999 2952.57296 2736.717837 3192.237033 2850.086907 2803.661798 3035.314595 2677.115742 3180.332707 3143.48932 0.921094588 0.939266102 0.870598739 1.015507517 0.906663461 0.891894806 0.965587692 0.85163825 1.011720538 1 11.61815115 -13.52287875 0.21726034 1.416156352 0.91000675 0.383999707 0.044007957 40.94212932 0.515981338 7.214647411 0.034132223 3.00E-14 13.52287875 -0.506149601 KGDVVIVLTGWRPGSGFTNTMR ddPTM_HeLa_SAHA_4h_R1 2 KGDVVIVLTGWRPGSGFTNTMR 22 2 P14618;P14618-3;B4DNK4;P14618-2;H3BR70 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ; ; 70.944 0.0039871 25241600 1866.08 2128.14 2476.4 2798.6 2875.3 1057.73 3580.7 548.64 1053.07 2745.3 FALSE FALSE TRUE 2062.362856 2197.093132 2813.870895 2852.77095 2654.995135 967.6054534 3177.790212 534.6065832 1045.7416 2863.663318 0.720183425 0.76723165 0.982612334 0.996196352 0.927132432 0.337890787 1.109694073 0.186686256 0.365176169 1 11.48364617 -4.247089098 24.20317149 0.855610631 0.18668553 0.320708308 0.257123914 1067.063505 1799661.43 0.027999404 0.773202278 5.66E-05 4.247089098 -0.668925102 KGEITGEVR ddPTM_HeLa_SAHA_4h_R1 2 KGEITGEVR 9 1 P21333-2;P21333;Q60FE5;A0A087WWY3;H0Y5F3 P21333-2 FLNA Filamin-A 0 0 ; ; 88.681 0.0096179 5098900 8783.4 10867.5 8026.7 8065.9 11597.2 12720 10912.9 9568.4 13451.2 11211.7 FALSE FALSE TRUE 9707.278312 11219.61413 9120.536875 8222.027158 10708.62504 11636.18444 9684.951771 9323.654183 13357.592 11695.09126 0.830030147 0.959343872 0.779860257 0.703032322 0.91565126 0.994963116 0.828121094 0.797227998 1.142153722 1 13.5136155 -9.346587353 0.748023534 1.01515757 0.850620773 0.427003289 0.094250914 0.888959337 0.755599124 0.093244735 0.01717926 4.50E-10 9.346587353 -0.164536797 KGEQGGPPPKAS(ph)PSTAGETPSGVK ddPTM_HeLa_SAHA_4h_R1 1 KGEQGGPPPKASPSTAGETPSGVK 24 2 A0A087WW69;F8W8L6;A0A087WTA5;E7ERK9;Q9UI10-3;Q9UI10;Q9UI10-2 A0A087WW69 EIF2B4 Translation initiation factor eIF-2B subunit delta 1 0 KGEQGGPPPKAS(0.657)PS(0.215)T(0.097)AGET(0.027)PS(0.003)GVK 45.243 0.014991 5641500 1010.1 910.35 724.86 751.2 1570.7 1218.4 1069.3 1229.1 1276.3 1186.4 TRUE FALSE FALSE 1116.346953 939.8459373 823.6401459 765.7405623 1450.353305 1114.585465 948.9795498 1197.661402 1267.418124 1237.55151 0.902061 0.759439853 0.665540092 0.618754497 1.171953889 0.900637635 0.766820243 0.967766911 1.024133633 1 10.27327286 -7.966766531 1.458819266 0.973929794 0.836528156 0.159617509 0.15078963 0.543398917 2.391994421 0.035740437 0.031258859 1.08E-08 7.966766531 -0.137401638 KGGEFDEFVNDDT(ph)DDDLPISK ddPTM_HeLa_SAHA_4h_R1 4 KGGEFDEFVNDDTDDDLPISK 21 1 Q6PD62 Q6PD62 CTR9 RNA polymerase-associated protein CTR9 homolog 1 0 KGGEFDEFVNDDT(1)DDDLPISK;KGGEFDEFVNDDT(1)DDDLPISK;KGGEFDEFVNDDT(1)DDDLPISK;KGGEFDEFVNDDT(1)DDDLPISK ;;; 133.15 7.22E-06 625148000 15744.9 17320.8 15469.7 17703.7 19450.5 21583.7 19516.7 17986 17874.7 16942 TRUE FALSE FALSE 17401.02082 17882.00528 17577.83015 18046.38071 17960.20689 19744.64733 17320.62955 17525.94416 17750.30851 17672.45253 0.984640971 1.011857593 0.99464577 1.021158817 1.01628265 1.117255644 0.980092012 0.991709789 1.004405499 1 14.10921465 -6.182967229 2.119012498 0.994045139 1.02913676 0.114198654 0.035041058 0.43179461 3.787156607 0.005433983 0.009733243 6.56E-07 6.182967229 0.035091621 KGGPGSTLSFVGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 KGGPGSTLSFVGKR 14 2 Q9BQ61 Q9BQ61 C19orf43 Uncharacterized protein C19orf43 0 1 ; KGGPGSTLSFVGK(1)R;KGGPGSTLSFVGK(1)R 139.77 0.00010917 4514100 1740.77 1644.28 1545.55 2668.7 3338 3639.9 3628.9 3585.8 2636.8 1962.63 FALSE TRUE FALSE 1923.872176 1697.555751 1756.169505 2720.356548 3082.243161 3329.760042 3220.566621 3494.080428 2618.450294 2047.248584 0.939735502 0.829188875 0.857819377 1.32878663 1.505553935 1.626456146 1.573119477 1.706720159 1.279009454 1 10.99947057 -5.979579874 2.347746364 0.950243098 1.612655421 0.842439439 0.12643514 0.048878372 0.541604663 0.012135836 0.023338896 1.05E-06 5.979579874 0.662412323 KGIMAY(ph)S(ph)LEDLLLKVR ddPTM_HeLa_SAHA_4h_R1 1 KGIMAYSLEDLLLKVR 16 2 A0A0A0MRY9;Q96AQ7 A0A0A0MRY9 CIDEC Cell death activator CIDE-3 2 0 KGIMAY(1)S(1)LEDLLLKVR 56.936 0.0077847 0 270.87 383.65 357.44 312.45 288 273.48 362.15 229.13 255.07 224.53 TRUE FALSE FALSE 299.3613494 396.0805117 406.1500617 318.4979216 265.9335022 250.1779654 321.3999289 223.2691864 253.2949471 234.2105871 1.278171722 1.691129836 1.734123409 1.359878413 1.135446119 1.068175305 1.372269003 0.953283919 1.081483763 1 7.871662482 KGLTPSQIGVILR ddPTM_HeLa_SAHA_4h_R1 2 KGLTPSQIGVILR 13 1 P62277;J3KMX5 P62277 RPS13 40S ribosomal protein S13 0 0 ; ; 131.79 0.0023769 0 3654.3 4218.2 3369.6 5275.2 4329.6 4253.7 5089.7 4681.4 3938.1 3554.1 FALSE FALSE TRUE 4038.676041 4354.872448 3828.79154 5377.309124 3997.866983 3891.260829 4516.993561 4561.656567 3910.694441 3707.334644 1.089374558 1.174663974 1.032761244 1.450451508 1.078366904 1.049611433 1.218393804 1.230441005 1.05485337 1 11.85616663 -7.718685623 0.667247006 1.012350488 1.184812973 0.224604783 0.113022951 0.602953925 0.601231735 0.037483717 0.031945296 1.91E-08 7.718685623 0.172462485 KGNAEGS(ph)S(ph)DEEGKLVIDEPAK ddPTM_HeLa_SAHA_4h_R1 2 KGNAEGSSDEEGKLVIDEPAK 21 2 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 2 0 KGNAEGS(1)S(1)DEEGKLVIDEPAK;KGNAEGS(1)S(1)DEEGKLVIDEPAK ; 63.578 0.005969 23387000 3844.96 5302.7 3555.3 4875 5262.8 6045.2 4335.1 4591.6 9555.8 4139.65 TRUE FALSE FALSE 4249.390534 5474.510959 4039.797769 4969.362674 4859.565401 5530.114951 3847.303139 4474.153521 9489.30041 4318.13057 0.984081066 1.267796531 0.935543218 1.150813435 1.125386396 1.280673398 0.890964985 1.036132059 2.19754828 1 12.07619115 KGNAEGS(ph)SDEEGKLVIDEPAK ddPTM_HeLa_SAHA_4h_R1 1 KGNAEGSSDEEGKLVIDEPAK 21 2 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 1 0 KGNAEGS(0.5)S(0.5)DEEGKLVIDEPAK 43.848 0.019797 10805000 1568.5 2628.4 1682 2210.8 2615.7 3003.4 2259 1970.7 4097.3 2383.9 TRUE FALSE FALSE 1733.482027 2713.561885 1911.214201 2253.593231 2415.285631 2747.493423 2004.811375 1920.292348 4068.786556 2486.681596 0.697106549 1.091238174 0.768580185 0.906265295 0.971288659 1.104883483 0.806219573 0.772230892 1.636231419 1 11.28000608 -6.016310698 24.12027652 0.867249058 0.922032812 0 0.277403254 1677.461734 2480637.117 0.023370739 0.03948957 9.63E-07 6.016310698 0.054783754 KGNS(ph)PNSEPPTPK ddPTM_HeLa_SAHA_4h_R1 2 KGNSPNSEPPTPK 13 1 P48634;P48634-2;P48634-3;P48634-4 P48634 PRRC2A Protein PRRC2A 1 0 KGNS(0.809)PNS(0.19)EPPTPK;KGNS(0.985)PNS(0.015)EPPTPK ; 106.19 0.0017384 44050000 12107.3 10719.5 10942 12459.3 11801 12930.5 12728.9 13051.9 11862.9 11456.1 TRUE FALSE FALSE 13380.80136 11066.81883 12433.11878 12700.46777 10896.80993 11828.74865 11296.61067 12718.0513 11780.34511 11950.02854 1.119729658 0.926091415 1.040425865 1.062798112 0.911864762 0.98985108 0.945320811 1.064269534 0.985800584 1 13.54472644 -7.262479015 24.99998925 1.056539004 0.991235592 0.065252757 0.061418285 120.3592773 2894290.138 0.010885803 0.012842488 5.46E-08 7.262479015 -0.065303412 KGNSPNS(ph)EPPTPK ddPTM_HeLa_SAHA_4h_R1 1 KGNSPNSEPPTPK 13 1 P48634;P48634-2;P48634-3;P48634-4 P48634 PRRC2A Protein PRRC2A 1 0 KGNS(0.192)PNS(0.808)EPPTPK 120.32 0.00060014 21528000 7235 6474.8 6008.4 6889 6502.3 7165.2 7563.7 7955.3 6771.9 7125.3 TRUE FALSE FALSE 7996.010495 6684.587768 6827.193462 7022.346557 6004.095179 6554.68465 6712.612569 7751.814945 6724.773797 7432.506553 1.075816138 0.899371931 0.918558687 0.944815387 0.807815659 0.881894231 0.903142503 1.042961064 0.904778724 1 12.85963311 -7.252929208 24.49381895 1.035802065 0.909688643 0.133385394 0.0710099 296.5580731 853547.8522 0.010099391 0.012256705 5.59E-08 7.252929208 -0.126113423 KGPGQPS(ph)SPQRLDR ddPTM_HeLa_SAHA_4h_R1 1 KGPGQPSSPQRLDR 14 2 O95400 O95400 CD2BP2 CD2 antigen cytoplasmic tail-binding protein 2 1 0 KGPGQPS(0.5)S(0.5)PQRLDR 68.173 0.02316 40644000 1706.2 1882.4 2181.6 1947.9 2141.2 2023.6 2043.7 2178.9 1421.9 1347.1 TRUE FALSE FALSE 1885.665944 1943.390995 2478.897087 1985.604421 1977.141719 1851.177896 1813.737497 2123.166893 1412.004882 1405.180074 1.341939001 1.383019181 1.764113464 1.413060474 1.40703797 1.317395493 1.290750937 1.51095716 1.004856893 1 10.45653931 -8.603834374 0.722971625 1.013201153 1.434997807 0.64320224 0.126927451 0.334387613 0.352833928 0.071446795 0.030414656 2.49E-09 8.603834374 0.421796654 KGPGQPSS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 2 KGPGQPSSPQR 11 1 O95400 O95400 CD2BP2 CD2 antigen cytoplasmic tail-binding protein 2 1 0 KGPGQPS(0.002)S(0.998)PQR;KGPGQPS(0.093)S(0.907)PQR ; 142.76 0.0020737 15121900 1742.63 2166.27 1318.99 1921.74 2033.58 2383.21 1975.71 1817.02 2623.14 2163.18 TRUE FALSE FALSE 1925.927819 2236.458569 1498.735088 1958.938057 1877.76754 2180.1471 1753.397911 1770.543259 2604.885355 2256.445276 0.853522946 0.991142392 0.664201833 0.868152256 0.832179517 0.966186561 0.777062014 0.784660403 1.154419911 1 11.13983608 -9.73060825 0.324733755 1.097167045 0.824738361 0.442499913 0.099625791 4.051943207 0.438003991 0.415629685 0.039752733 1.86E-10 9.73060825 -0.272428685 KGPTQAGAAAAATEPPGK ddPTM_HeLa_SAHA_4h_R1 1 KGPTQAGAAAAATEPPGK 18 1 Q9NYX4 Q9NYX4 CALY Neuron-specific vesicular protein calcyon 0 0 72.11 0.0062096 5308800 152.01 0 0 213.31 487.59 838.42 608.92 557.66 0 0 FALSE FALSE TRUE 167.9991092 0 0 217.4389235 450.2309595 766.9818992 540.402719 543.3958647 0 0 0 KGQASLYGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 KGQASLYGKR 10 2 Q92922 Q92922 SMARCC1 SWI/SNF complex subunit SMARCC1 0 1 ; KGQASLYGK(1)R;KGQASLYGK(1)R 92.611 0.0086504 31406000 3078.6 3548.8 8343.5 10455.8 14998.3 6265.1 22933.6 4970.6 428.04 1330.1 FALSE TRUE FALSE 3402.421273 3663.783448 9480.508729 10658.18713 13849.13349 5731.278234 20353.05097 4843.459249 425.0612348 1387.44712 2.452288972 2.640665287 6.833059502 7.681869076 9.981737892 4.13080841 14.66942464 3.490914485 0.306362115 1 10.43821707 -6.733043497 1.837517625 1.651100628 8.307345054 0.517482608 2.955036799 0.179416634 1.238299628 0.441403276 0.644262275 1.85E-07 6.733043497 6.656244426 KGQAVDYEGSR ddPTM_HeLa_SAHA_4h_R1 1 KGQAVDYEGSR 11 1 A0A499FI48;P13667 A0A499FI48 PDIA4 Protein disulfide-isomerase A4 0 0 93.839 0.0044561 0 1137.3 1620.5 1537 1412.2 1878.5 2019.8 1611.6 1808.2 1458.2 1642.3 FALSE FALSE TRUE 1256.926432 1673.005263 1746.454356 1439.535173 1734.569736 1847.701677 1430.258527 1761.948862 1448.052267 1713.10759 0.73371132 0.976590888 1.019465657 0.840306342 1.012528195 1.078567212 0.834891244 1.028510335 0.845278064 1 10.74240005 KGRS(ph)PDELPSAGGDGGK ddPTM_HeLa_SAHA_4h_R1 1 KGRSPDELPSAGGDGGK 17 2 B4E2I7;A0A2R8Y5N1;A0A140T8Z0;A0A0G2JH68;O60610-2;O60610-3;O60610 B4E2I7 DIAPH1 Protein diaphanous homolog 1 1 0 KGRS(0.999)PDELPS(0.001)AGGDGGK 112.14 0.00094134 9567500 3521.5 3221.9 3207.6 3356.5 3900.6 4096.2 3558 4044.5 3089 3367.9 TRUE FALSE FALSE 3891.907527 3326.291674 3644.715024 3421.469911 3601.736871 3747.180715 3157.644476 3941.047546 3067.503397 3513.106651 1.107825043 0.946823426 1.037462106 0.973915753 1.025228445 1.066628795 0.89881828 1.121812668 0.873159771 1 11.77853166 -7.265119928 24.9979835 1.05091738 1.008235455 0 0.084736506 611.7047983 4154633.981 0.010962992 0.012768905 5.43E-08 7.265119928 -0.042681925 KGS(ph)DALRPPVPQGEDEVPK ddPTM_HeLa_SAHA_4h_R1 2 KGSDALRPPVPQGEDEVPK 19 2 Q8N3D4;E9PIH6 Q8N3D4 EHBP1L1 EH domain-binding protein 1-like protein 1 1 0 KGS(1)DALRPPVPQGEDEVPK;KGS(1)DALRPPVPQGEDEVPK ; 54.292 0.012644 36823000 4180.94 5202.9 3953.39 6192 5768.8 6813.5 5567.2 6110.9 6852 5501.1 TRUE FALSE FALSE 4620.710452 5371.477374 4492.137401 6311.855114 5326.79579 6232.951468 4940.764004 5954.592026 6804.316374 5738.279343 0.805243206 0.936078056 0.782837003 1.099956056 0.928291474 1.086205654 0.861018384 1.037696437 1.185776427 1 12.48640249 -6.25696922 24.92966498 0.899709113 0.995278856 0 0.126228291 497.7092494 2775675.793 0.014886209 0.024139981 5.53E-07 6.25696922 0.095569743 KGS(ph)ITEYTAAEEK ddPTM_HeLa_SAHA_4h_R1 3 KGSITEYTAAEEK 13 1 J3KN59;Q12982;Q12982-2 J3KN59 BNIP2 BCL2/adenovirus E1B 19 kDa protein-interacting protein 2 1 0 KGS(0.772)IT(0.227)EYT(0.001)AAEEK;KGS(0.971)IT(0.028)EYTAAEEK;KGS(0.935)IT(0.065)EYT(0.001)AAEEK ;; 102.39 0.0024477 237805000 10331.2 14330.5 10186.5 12282.8 14965.9 17321.3 15564.6 13748.7 18150.1 12888.9 TRUE FALSE FALSE 11417.88302 14794.8176 11574.66317 12520.55136 13819.21598 15845.42779 13813.23024 13397.02816 18023.79198 13444.60356 0.849253975 1.100427955 0.860915171 0.931269658 1.027863404 1.17857159 1.02741819 0.996461376 1.340596761 1 13.71473959 -5.656459456 4.414716343 0.936002524 1.068904144 0 0.150762658 0.192387496 6.582109751 0.012665524 0.025890088 2.21E-06 5.656459456 0.13290162 KGS(ph)QITQQSTNQSR ddPTM_HeLa_SAHA_4h_R1 1 KGSQITQQSTNQSR 14 1 P50750;P50750-2 P50750 CDK9 Cyclin-dependent kinase 9 1 0 KGS(0.999)QIT(0.001)QQSTNQSR 66.977 0.017905 4248700 825.99 1504.1 768.79 1115.3 1381.6 1099.5 1394.8 998.55 1291.1 1207.7 TRUE FALSE FALSE 912.871418 1552.833827 873.5566975 1136.888244 1275.742106 1005.816414 1237.853433 973.0085369 1282.11513 1259.769857 0.724633482 1.232632943 0.693425622 0.902457094 1.012678704 0.798412828 0.982602835 0.772370073 1.017737583 1 10.29894448 -9.803682159 1.817139745 1.000432724 0.865858404 0.069718816 0.153169895 0.705733446 4.21503887 0.110457801 0.022945503 1.57E-10 9.803682159 -0.134574321 KGS(ph)SGNASEVSVACLTER ddPTM_HeLa_SAHA_4h_R1 2 KGSSGNASEVSVACLTER 18 1 F8WAN1;Q69YQ0-2;Q69YQ0;A0A494C1J1;C9J8U1 F8WAN1 SPECC1L-ADORA2A;SPECC1L Cytospin-A 1 0 KGS(0.935)S(0.065)GNASEVSVACLTER;KGS(0.955)S(0.045)GNASEVSVACLTER ; 104.97 0.00084364 58347000 3299.8 3268.3 2921.6 3690.7 4208 4957.5 5371.1 4842.3 3458.1 3499.3 TRUE FALSE FALSE 3646.888104 3374.195064 3319.740433 3762.138835 3885.583949 4535.09311 4766.729692 4718.440978 3434.034801 3650.171948 0.999100359 0.924393457 0.909475082 1.030674414 1.0644934 1.242432733 1.305891821 1.292662659 0.940787133 1 11.83374871 -5.303615182 1.877523001 0.987191692 1.303881885 0.933579841 0.037357638 0.065617906 0.441855111 0.005729375 0.017923315 4.97E-06 5.303615182 0.316690193 KGSIT(ph)EYTAAEEK ddPTM_HeLa_SAHA_4h_R1 1 KGSITEYTAAEEK 13 1 J3KN59;Q12982;Q12982-2 J3KN59 BNIP2 BCL2/adenovirus E1B 19 kDa protein-interacting protein 2 1 0 KGS(0.283)IT(0.714)EYT(0.003)AAEEK 167.92 0.0016388 12233000 832.27 612.54 693.07 1033.5 874.37 1027.4 849.83 852.75 921.73 664.14 TRUE FALSE FALSE 919.8119772 632.3866979 787.5179702 1053.504887 807.3759595 939.85974 754.2048918 830.9378898 915.3156059 692.7743256 1.327722381 0.91283218 1.136759752 1.520704287 1.165424193 1.356660756 1.088673272 1.199435168 1.321231997 1 9.436241654 -9.528823201 1.198649692 0.996038056 1.22400694 0 0.184473007 0.615540377 1.537849106 0.119301027 0.026517721 2.96E-10 9.528823201 0.227968884 KGSK(ac)K(ac)AITK ddPTM_HeLa_SAHA_4h_R1 1 KGSKKAITK 9 3 P33778 P33778 HIST1H2BB Histone H2B type 1-B 0 2 K(0.011)GSK(0.989)K(1)AITK 90.614 0.017317 0 891.23 848.14 2180.5 3216.2 3413.7 1993.8 4973.1 1635.2 281.25 513.51 FALSE TRUE FALSE 984.9736605 875.6202925 2477.647184 3278.454202 3152.143043 1823.917023 4413.5137 1593.373952 279.2927584 535.6499292 1.838838403 1.634687591 4.625497082 6.120516448 5.884707291 3.405054167 8.239548741 2.974655395 0.52140912 1 9.065146634 -6.71741657 3.497278973 1.405510536 5.412633285 0.656150896 1.409462257 0.096863518 2.448404351 0.200685339 0.283095908 1.92E-07 6.71741657 4.007122749 KGTDVNVFNTILTTR ddPTM_HeLa_SAHA_4h_R1 1 KGTDVNVFNTILTTR 15 1 P04083 P04083 ANXA1 Annexin A1 0 0 116.78 0.00050556 1303500 532.93 716.5 496.52 538.44 653.02 577.84 648.25 372.05 753.42 672.94 FALSE FALSE TRUE 588.9860226 739.7150701 564.1831598 548.8622848 602.9857487 528.6047812 575.3072039 362.5334997 748.1768889 701.9537367 0.839066724 1.053794618 0.803732683 0.781906636 0.859010669 0.753047891 0.819579944 0.516463523 1.065849286 1 9.45523214 -2.816704384 0.26102357 0.960029219 7.76E-28 0.6370592 0.093168422 10.5225579 0.301615351 0.048105533 3.734274352 0.00152509 2.816704384 -0.960029219 KGTENGVNGTLTSNVADS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 KGTENGVNGTLTSNVADSPR 20 1 G3XAN4;Q15629-2;Q15629 G3XAN4 TRAM1 Translocating chain-associated membrane protein 1 1 0 KGTENGVNGTLTSNVADS(1)PR;KGTENGVNGTLTSNVADS(1)PR ; 207.16 8.64E-21 17256600 4044 12827.7 5788.9 3628.4 6984.2 6018.6 6568.9 4809 5082.3 6231 TRUE FALSE FALSE 4469.366475 13243.3259 6577.781145 3698.632929 6449.072105 5505.78142 5829.750084 4685.992743 5046.931861 6499.648904 0.687631985 2.037544811 1.012020994 0.569051188 0.992218534 0.847089051 0.896933076 0.720960903 0.776492998 1 12.66614607 KGVAINFVK ddPTM_HeLa_SAHA_4h_R1 1 KGVAINFVK 9 1 P38919;I3L3H2 P38919 EIF4A3 "Eukaryotic initiation factor 4A-III;Eukaryotic initiation factor 4A-III, N-terminally processed" 0 0 120.12 0.0001691 0 6204.5 5127.8 5935.6 6405.8 7424.4 6831 8433.4 5161.8 4095.9 6828.1 FALSE FALSE TRUE 6857.117777 5293.944084 6744.472657 6529.793522 6855.544076 6248.96037 7484.451637 5029.76863 4067.396298 7122.492807 0.962741271 0.743271243 0.946925864 0.916784853 0.962520323 0.877355799 1.050819122 0.706180935 0.571063588 1 12.79816654 -7.498131687 20.5828242 0.983562912 0.89542835 0 0.161701755 43.02188924 35784.8905 0.015338725 0.016575298 3.18E-08 7.498131687 -0.088134563 KGVAINMVTEEDK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 KGVAINMVTEEDKR 14 2 P60842 P60842 EIF4A1 Eukaryotic initiation factor 4A-I 0 1 ; KGVAINMVTEEDK(1)R;KGVAINMVTEEDK(1)R 118.52 0.0007647 5839200 2250.04 6432 3804.2 3813.9 7269.3 6398.8 7405.6 4675.7 5516.9 2857 FALSE TRUE FALSE 2486.709531 6640.40102 4322.616565 3887.723549 6712.327804 5853.586241 6572.302398 4556.102364 5478.507444 2980.179252 0.834416094 2.228188461 1.450455224 1.304526749 2.252323514 1.964172537 2.205337949 1.528801451 1.838314739 1 11.54118339 -7.273013942 24.88390384 0.921807575 1.845316678 0.225739065 0.4310772 307.9145559 661977.6501 0.054232276 0.062295202 5.33E-08 7.273013942 0.923509104 KGVAINMVTEEDKR ddPTM_HeLa_SAHA_4h_R1 1 KGVAINMVTEEDKR 14 2 P60842 P60842 EIF4A1 Eukaryotic initiation factor 4A-I 0 0 108.68 0.001941 7036000 3313.7 3155.1 3309.4 3445.2 3507.7 4223.5 4614.1 3485.9 3924.8 3729.1 FALSE FALSE TRUE 3662.25017 3257.32731 3760.387797 3511.886828 3238.940784 3863.634039 4094.909324 3396.735726 3897.486997 3889.879751 0.941481589 0.837385091 0.966710551 0.902826579 0.832658332 0.993252822 1.052708461 0.873223838 1.001955651 1 11.92550984 -8.598336133 1.005441049 0.99342877 0.927558283 0.17238082 0.06534012 0.697419444 1.428559578 0.024471223 0.013176198 2.52E-09 8.598336133 -0.065870487 KGVITVK(ac)DGK ddPTM_HeLa_SAHA_4h_R1 2 KGVITVKDGK 10 2 P10809;E7EXB4 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 1 ; KGVITVK(1)DGK;KGVITVK(1)DGK 108.35 0.0015153 0 8408 10128.5 9086.9 6908.5 9501.2 8155.5 11625.5 10231.9 8481.6 9147.5 FALSE TRUE FALSE 9292.392017 10456.67005 10325.21541 7042.224007 8773.220109 7460.605518 10317.36814 9970.182814 8422.575855 9541.893492 0.973851995 1.0958695 1.082092922 0.738032133 0.919442259 0.781878935 1.081270521 1.04488515 0.88269439 1 13.22005987 KGVNLPGAAVDLPAVSEK ddPTM_HeLa_SAHA_4h_R1 2 KGVNLPGAAVDLPAVSEK 18 1 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BR70;H3BQ34 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ; ; 181.41 1.82E-18 11351700 5292.7 6329.8 5485.5 5767.5 6375.7 7856.1 6795.9 5170.7 8169.6 6802.5 FALSE FALSE TRUE 5849.41047 6534.889673 6233.035373 5879.138302 5887.195243 7186.716083 6031.207446 5038.440981 8112.747088 7095.789066 0.824349542 0.920953204 0.878413284 0.828539046 0.8296745 1.012814222 0.849969946 0.710060704 1.143318525 1 12.79274741 -9.400122716 0.924066049 1.007422587 0.859533343 0.451478604 0.086747991 0.601245794 0.841465757 0.064109498 0.013385 3.98E-10 9.400122716 -0.147889244 KGVNLPGAAVDLPAVSEKDIQDLK ddPTM_HeLa_SAHA_4h_R1 1 KGVNLPGAAVDLPAVSEKDIQDLK 24 2 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BR70;H3BQ34 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 98.188 2.72E-05 2948000 821.79 585.82 1086 757.29 813.66 730.59 875.55 847.97 626.43 854.36 FALSE FALSE TRUE 908.2296427 604.8009524 1233.994424 771.948443 751.3175466 668.3396218 777.0308097 826.2801552 622.0706226 891.1956407 1.01911365 0.678639936 1.384650427 0.866194142 0.843044459 0.749935919 0.871897005 0.927159108 0.698018027 1 9.799598366 -6.032626079 24.99905072 1.010073934 0.844198626 0.034204811 0.190854543 741.0458523 567809.9709 0.022563408 0.03743751 9.28E-07 6.032626079 -0.165875309 KGVSQTGT(ph)PVCEEDGDAGLGIR ddPTM_HeLa_SAHA_4h_R1 1 KGVSQTGTPVCEEDGDAGLGIR 22 1 Q12888;Q12888-3;Q12888-2 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 KGVS(0.033)QT(0.158)GT(0.809)PVCEEDGDAGLGIR 66.972 0.0062549 8510200 1021.3 836.03 916.93 966.33 927.45 1176 1048.5 1141.3 905.21 1175.9 TRUE FALSE FALSE 1128.72502 863.1179205 1041.884445 985.0347145 856.3889814 1075.798184 930.5200205 1112.107199 898.9105699 1226.598804 0.920207175 0.703667669 0.849409311 0.803061858 0.698181817 0.877057911 0.758618073 0.906659288 0.732848073 1 10.26044773 -7.476186772 4.159099525 0.966712956 0.79893496 0 0.098800959 0.109911273 3.781393248 0.011242192 0.01246886 3.34E-08 7.476186772 -0.167777996 KHEAIETDIAAYEER ddPTM_HeLa_SAHA_4h_R1 1 KHEAIETDIAAYEER 15 1 A0A087WUZ3;Q01082;Q01082-2;F8W6C1;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 0 0 76.391 0.0082379 3734500 4510.9 4389.7 5060.2 4908.1 5524.8 1098.4 5494.8 3613.3 5813.1 5134.8 FALSE FALSE TRUE 4985.377159 4531.92916 5749.777704 5003.103373 5101.491018 1004.810141 4876.510642 3520.877018 5772.646164 5356.186357 0.930769922 0.84611118 1.073483505 0.934079406 0.95244838 0.187598055 0.910444543 0.657347744 1.077753046 1 12.38699044 -5.461458144 24.99984886 0.962420615 0.609721381 0.500740819 0.176995032 141.8461368 57734.91505 0.022357881 0.049993687 3.46E-06 5.461458144 -0.352699234 KHLEINPDHPIVETLR ddPTM_HeLa_SAHA_4h_R1 2 KHLEINPDHPIVETLR 16 1 P08238 P08238 HSP90AB1 Heat shock protein HSP 90-beta 0 0 ; ; 60.631 0.010879 5965100 5325.9 3681.4 5372.7 4764.8 5371.6 280.95 5549.2 4053.5 4262 4969.5 FALSE FALSE TRUE 5886.102598 3800.679775 6104.863576 4857.029594 4960.029168 257.0114794 4924.789411 3949.817339 4232.340395 5183.759465 1.135489144 0.733189841 1.177690365 0.93697048 0.956840147 0.049580132 0.950042039 0.761959996 0.816461571 1 12.33978306 -5.496644953 24.82216739 1.035740988 0.603434021 0.299664875 0.251550143 487.3749946 461149.2166 0.032338451 0.072070763 3.19E-06 5.496644953 -0.432306967 KHLEINPDHSIIETLR ddPTM_HeLa_SAHA_4h_R1 1 KHLEINPDHSIIETLR 16 1 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 0 0 52.008 0.016236 2554700 1425.7 947.07 1299.2 1140.7 1391.3 309.7 1398.6 1084.6 1150.1 1354.3 FALSE FALSE TRUE 1575.661667 977.7556894 1476.24821 1162.779898 1284.698895 283.3118177 1241.225847 1056.857502 1142.09636 1412.690501 1.115362258 0.692123072 1.044990541 0.823095998 0.909398693 0.200547691 0.878625464 0.748116804 0.80845476 1 10.46422971 -6.150138866 0.916950836 1.042140211 0.64765069 0.171941976 0.220475508 0.435211434 0.719214118 0.036593979 0.087767022 7.08E-07 6.150138866 -0.394489522 KHS(ph)PS(ph)PPPPTPTESR ddPTM_HeLa_SAHA_4h_R1 1 KHSPSPPPPTPTESR 15 1 Q92922 Q92922 SMARCC1 SWI/SNF complex subunit SMARCC1 2 0 KHS(0.981)PS(0.945)PPPPT(0.066)PT(0.008)ESR 96.756 0.010446 7790400 3244.4 2595.9 3114.3 3353.5 3300.1 137.5 3451.4 3335.3 3361.1 3313.3 TRUE FALSE FALSE 3585.660878 2680.008863 3538.700585 3418.411842 3047.247051 125.7842264 3063.039388 3249.987855 3337.709831 3456.152578 1.037471812 0.775431293 1.023884364 0.98908013 0.881687652 0.036394292 0.886256992 0.940348489 0.965729885 1 11.75495119 -5.507765525 24.68016358 0.994195296 0.616111528 0.29157846 0.237836578 481.4781124 786261.4587 0.032549449 0.070546998 3.11E-06 5.507765525 -0.378083768 KHS(ph)PSPPPPTPTESR ddPTM_HeLa_SAHA_4h_R1 2 KHSPSPPPPTPTESR 15 1 Q92922 Q92922 SMARCC1 SWI/SNF complex subunit SMARCC1 1 0 KHS(0.999)PS(0.001)PPPPTPTESR;KHS(0.978)PS(0.022)PPPPTPTESR ; 115.53 0.00064627 24497000 2915.86 2643.71 2144.59 2669.25 3278.4 301.62 3279.9 3516.6 3252.5 3113.1 TRUE FALSE FALSE 3222.563533 2729.367939 2436.843557 2720.917194 3027.2097 275.9202791 2910.83702 3426.650464 3229.865588 3247.320976 0.992376041 0.840498355 0.750416597 0.837895981 0.93221758 0.084968588 0.89638106 1.055223826 0.99462468 1 11.66503428 -7.023445433 1.404600507 1.000830754 0.737053646 0.152497304 0.245095577 0.501696433 1.93120176 0.045278811 0.05943506 9.47E-08 7.023445433 -0.263777108 KHSLEVTQEEVQR ddPTM_HeLa_SAHA_4h_R1 1 KHSLEVTQEEVQR 13 1 O15021;H7C1I9;O15021-2;O15021-3;O15021-6 O15021 MAST4 Microtubule-associated serine/threonine-protein kinase 4 0 0 83.045 0.014414 50750000 5329.7 3906.1 7888.4 11999 3026.1 2577.2 5685.1 11107 4068 4365.4 FALSE FALSE TRUE 5890.3023 4032.660203 8963.390071 12231.258 2794.240872 2357.608061 5045.397586 10822.89902 4039.690457 4553.613758 1.293544559 0.885595577 1.968412463 2.686055218 0.613631507 0.517744408 1.107998582 2.376771417 0.887139461 1 12.15279621 -8.070791424 0.808793916 1.049174681 1.42858828 0.076240032 0.684231951 1.483654008 2.106139633 0.239267609 0.168384056 8.50E-09 8.070791424 0.379413599 KIAELEEEQSQGSTTNS(ph)DWMK ddPTM_HeLa_SAHA_4h_R1 1 KIAELEEEQSQGSTTNSDWMK 21 1 P46821;D6RA40;D6RA32 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 KIAELEEEQSQGS(0.005)T(0.035)T(0.063)NS(0.897)DWMK 123.79 1.58E-06 0 1467.4 1524.8 1439.1 1548.2 1795.7 1961.9 1413.9 1804.6 1444.7 1505 TRUE FALSE FALSE 1621.747865 1574.20452 1635.213053 1578.16765 1658.113854 1794.735083 1254.804251 1758.440945 1434.646215 1569.887915 1.033034173 1.002749626 1.041611339 1.005274093 1.056198878 1.143224981 0.799295439 1.120106046 0.913852639 1 10.61644584 -3.936769604 22.71606017 1.014647395 4.000355569 0.126243321 0.08735208 2083.707824 727014.0187 0.009767895 9048.210208 0.000115673 3.936769604 2.985708174 KIAFAITAIK ddPTM_HeLa_SAHA_4h_R1 1 KIAFAITAIK 10 1 P62269;A0A0G2JQH2;Q5GGW2 P62269 RPS18 40S ribosomal protein S18 0 0 117.09 0.00019187 0 1408.5 1722.5 2893.2 2314 2400.2 961.94 2470 499.25 610.21 1512 FALSE FALSE TRUE 1556.652492 1778.31013 3287.470229 2358.790816 2216.297195 879.9773003 2192.069099 486.4799079 605.9634989 1577.18972 0.986978594 1.12751821 2.084384769 1.49556568 1.405219148 0.557940043 1.389857588 0.308447298 0.384204571 1 10.6231405 -5.261742222 24.99999899 1.150214359 0.815859248 0.147249284 0.484451144 49.99917686 4127706.191 0.063748651 0.151377102 5.47E-06 5.261742222 -0.334355111 KIDAGTMAEPS(ph)ASPSK ddPTM_HeLa_SAHA_4h_R1 3 KIDAGTMAEPSASPSK 16 1 Q8IXQ3 Q8IXQ3 C9orf40 Uncharacterized protein C9orf40 1 0 KIDAGTMAEPS(0.665)AS(0.327)PS(0.008)K;KIDAGTMAEPS(0.74)AS(0.257)PS(0.003)K;KIDAGTMAEPS(0.522)AS(0.474)PS(0.004)K ;; 170.98 3.83E-09 26714600 12008.3 11689.2 10342.8 11543.3 12641.3 13786.5 11729.3 12358.4 15811.8 13961.2 TRUE FALSE FALSE 13271.38809 12067.93775 11752.26292 11766.73726 11672.72633 12611.81264 10409.48829 12042.29002 15701.7644 14563.13566 0.911300176 0.828663417 0.806987121 0.807981024 0.801525619 0.866009418 0.714783446 0.826902276 1.078185685 1 13.8300334 -7.616190643 0.620135255 0.990197717 0.791741821 0.780848126 0.047231814 0.188522826 0.164730637 0.012849952 0.011641245 2.42E-08 7.616190643 -0.198455896 KIDAGTMAEPSAS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 5 KIDAGTMAEPSASPSK 16 1 Q8IXQ3 Q8IXQ3 C9orf40 Uncharacterized protein C9orf40 1 0 KIDAGTMAEPS(0.265)AS(0.651)PS(0.084)K;KIDAGTMAEPS(0.345)AS(0.649)PS(0.006)K;KIDAGTMAEPS(0.134)AS(0.828)PS(0.038)K;KIDAGTMAEPS(0.474)AS(0.516)PS(0.01)K;KIDAGTMAEPS(0.065)AS(0.87)PS(0.065)K ;;;; 136.02 6.34E-05 39533700 18253.2 17153.2 14633.6 15471.6 17323.7 18124.5 16920.8 17430.9 20584.9 19316.6 TRUE FALSE FALSE 20173.15532 17708.97493 16627.7908 15771.07519 15996.36185 16580.19063 15016.82705 16985.04282 20441.648 20149.43316 1.001177312 0.878882041 0.82522375 0.782705651 0.793886444 0.822861393 0.745272928 0.842953878 1.014502385 1 14.29845163 -7.037616556 2.014778327 1.001891398 0.797058446 0.927042567 0.025480437 0.048374564 0.385970968 0.003989546 0.00514609 9.17E-08 7.037616556 -0.204832952 KIDK(ac)YTEVLK ddPTM_HeLa_SAHA_4h_R1 1 KIDKYTEVLK 10 2 Q8J015;M0QYS1;P40429 Q8J015 RPL13a;RPL13A 60S ribosomal protein L13a 0 1 K(0.003)IDK(0.997)YTEVLK 110.64 0.0010014 0 1122.9 1992.2 1415.9 1692.7 2151.1 1549.3 2324.9 1462.8 1078.9 880.82 FALSE TRUE FALSE 1241.011774 2056.748587 1608.851478 1725.464656 1986.283183 1417.290924 2063.296133 1425.383694 1071.391847 918.7964608 1.350692811 2.238524717 1.751042311 1.877961801 2.161831556 1.542551571 2.245650937 1.551359583 1.166081818 1 9.843601489 -7.470837665 3.505459603 1.143290281 1.910477314 0.653795289 0.248101073 0.097847162 2.317437116 0.042685217 0.04726462 3.38E-08 7.470837665 0.767187033 KIGGIFAFK ddPTM_HeLa_SAHA_4h_R1 2 KIGGIFAFK 9 1 P22307-4;P22307-7;P22307-8;P22307;H0YF61;P22307-6;P22307-2 P22307-4 SCP2 Non-specific lipid-transfer protein 0 0 ; ; 124.92 4.55E-06 0 2293.8 1883.41 2663.4 2422.3 2600.1 1934.26 3204.4 1224.38 1061.4 2313.4 FALSE FALSE TRUE 2535.072408 1944.43372 3026.354282 2469.187119 2400.8809 1769.450166 2843.832478 1193.062132 1054.013631 2413.141996 1.050527658 0.805768464 1.254113636 1.023224959 0.994919033 0.733255718 1.178477058 0.49440196 0.436780609 1 11.23669709 -4.249659264 24.69282839 1.011500937 0.49440159 0.202259745 0.232133464 847.9393883 1777365.772 0.017983754 0.39070791 5.63E-05 4.249659264 -0.517099346 KIIIPPFLAYGEK ddPTM_HeLa_SAHA_4h_R1 1 KIIIPPFLAYGEK 13 1 Q96AY3 Q96AY3 FKBP10 Peptidyl-prolyl cis-trans isomerase FKBP10 0 0 114.7 0.001088 249010 122.39 146.88 244.72 135.53 272.14 143.62 231.38 164.27 170.87 191.72 FALSE FALSE TRUE 135.2635417 151.6390084 278.0691672 138.1533791 251.288692 131.382768 205.3445134 160.0682113 169.6809018 199.9859875 0.676365097 0.758248167 1.390443254 0.690815296 1.256531496 0.656959868 1.026794507 0.800397134 0.848463954 1 7.643755107 KILDSVGIEADDDRLNK ddPTM_HeLa_SAHA_4h_R1 1 KILDSVGIEADDDRLNK 17 2 P05387 P05387 RPLP2 60S acidic ribosomal protein P2 0 0 88.561 0.0052708 1566600 579.26 779.22 879.14 497.93 614.49 781.54 589.38 579.92 772.96 876.2 FALSE FALSE TRUE 640.1892245 804.4672393 998.9446208 507.5681552 567.407909 714.9483952 523.0614112 565.0864861 767.5809084 913.97727 0.700443267 0.880182982 1.092964403 0.55534002 0.620811838 0.782238704 0.572291487 0.618271925 0.839824943 1 9.836014477 -6.237841889 24.99603963 0.872900102 0.634566879 0.586810864 0.113087538 613.0562564 649390.4403 0.021267634 0.035255529 5.78E-07 6.237841889 -0.238333223 KINS(ph)SPNVNTTASGVEDLNIIQVTIPDDDNER ddPTM_HeLa_SAHA_4h_R1 1 KINSSPNVNTTASGVEDLNIIQVTIPDDDNER 32 1 P78347-2;P78347-4;P78347-3;P78347;A0A494C1K3 P78347-2 GTF2I General transcription factor II-I 1 0 KINS(0.5)S(0.5)PNVNTTASGVEDLNIIQVTIPDDDNER 105.75 6.20E-10 4175000 399.51 434.23 416.23 438.8 506.79 426.35 472.78 392.5 368.09 458.45 TRUE FALSE FALSE 441.5322948 448.2993369 472.9516568 447.2936085 467.9598597 390.0225814 419.5815501 382.4604183 365.5284317 478.2160231 0.923290466 0.937441063 0.988991656 0.935337979 0.978553284 0.815578238 0.87738915 0.799764959 0.764358395 1 8.90151866 -5.262267597 24.99994944 0.961576367 0.835558615 0.248659895 0.068976874 28.32961651 855156.6174 0.004991759 0.011815458 5.47E-06 5.262267597 -0.126017752 KIQSSLSSASPS(ph)K ddPTM_HeLa_SAHA_4h_R1 2 KIQSSLSSASPSK 13 1 Q5W0B1 Q5W0B1 RNF219 RING finger protein 219 1 0 KIQSSLS(0.001)S(0.019)AS(0.417)PS(0.563)K;KIQSSLS(0.004)S(0.065)AS(0.287)PS(0.643)K ; 84.653 0.007927 14128100 8378.5 7532.8 6780.1 7239.9 8479.9 7942.2 7815.6 8290 9419 8348.3 TRUE FALSE FALSE 9259.789072 7776.867662 7704.056719 7380.038734 7830.171894 7265.479878 6936.168118 8077.953804 9353.452412 8708.236069 1.063336937 0.89304741 0.884686251 0.847478028 0.899168538 0.834322798 0.796506671 0.927622281 1.074092656 1 13.0881648 -7.157221028 4.414152632 1.029792501 0.863240631 0.806310872 0.039600591 0.073068451 2.403273516 0.006712846 0.008259216 6.96E-08 7.157221028 -0.166551871 KIS(ph)CLSFALDDLDDQADAAEAR ddPTM_HeLa_SAHA_4h_R1 1 KISCLSFALDDLDDQADAAEAR 22 1 Q9Y247 Q9Y247 FAM50B Protein FAM50B 1 0 KIS(0.5)CLS(0.5)FALDDLDDQADAAEAR 51.645 0.013743 3762800 557.74 548.03 384.92 545.25 779.69 762.48 861.53 790.99 599.87 693.66 TRUE FALSE FALSE 616.4056522 565.7865316 437.374893 555.8041022 719.9503206 697.5124144 764.588377 770.7576211 595.6954558 723.5670773 0.851898423 0.781940679 0.604470417 0.768144543 0.995001491 0.963991365 1.056693154 1.065219308 0.823276065 1 9.498982956 -5.26136948 2.030879417 0.880511631 1.049393296 0.369336389 0.112598675 0.41843631 3.306055784 0.020429337 0.063650411 5.48E-06 5.26136948 0.168881665 KIS(ph)ENSYSLDDLEIGPGQLSSSTFDSEK ddPTM_HeLa_SAHA_4h_R1 1 KISENSYSLDDLEIGPGQLSSSTFDSEK 28 1 Q9UHB6;F8VQE1;Q9UHB6-2;F8VRN8;Q9UHB6-4;Q9UHB6-5 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 KIS(0.693)ENS(0.226)Y(0.018)S(0.062)LDDLEIGPGQLSSSTFDSEK 67.871 0.00030179 904550 0 144.76 67.433 151.78 208.32 137.17 134.83 59.459 0 188.5 TRUE FALSE FALSE 0 149.450319 76.62241806 154.7179214 192.3585666 125.4823443 119.6585735 57.93812488 0 196.6271575 0 0.76006957 0.389683801 0.786859371 0.978290939 0.638174024 0.60855568 0.29465983 0 1 7.619318786 -9.752147683 1.70454245 1.000092422 0.479563643 0 0.41098536 0.418014712 2.197730319 0.238724299 0.051439978 1.77E-10 9.752147683 -0.52052878 KIS(ph)QS(ph)AQT(ph)YDPR ddPTM_HeLa_SAHA_4h_R1 1 KISQSAQTYDPR 12 1 M0R014;P21817-3;P21817-2;P21817 M0R014 RYR1 Ryanodine receptor 1 3 0 KIS(0.984)QS(0.99)AQT(0.961)Y(0.065)DPR 62.081 0.0083379 0 986.25 1027.4 900.88 1100.6 1336.2 1259.7 1241.1 1250.6 1260 1208.1 TRUE FALSE FALSE 1089.9883 1060.688434 1023.647235 1121.903704 1233.820645 1152.366473 1101.448162 1218.611463 1251.231557 1260.187103 0.86494164 0.841691231 0.812297818 0.890267565 0.979077346 0.914440776 0.874035418 0.967008359 0.992893479 1 10.29942224 -9.308740567 1.068884922 0.99909859 0.890220892 0.41509988 0.04885264 0.423646934 0.877407849 0.033864387 0.009326138 4.91E-10 9.308740567 -0.108877698 KISENS(ph)YSLDDLEIGPGQLSSSTFDSEK ddPTM_HeLa_SAHA_4h_R1 1 KISENSYSLDDLEIGPGQLSSSTFDSEK 28 1 Q9UHB6;F8VQE1;Q9UHB6-2;F8VRN8;Q9UHB6-4;Q9UHB6-5 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 KIS(0.375)ENS(0.569)Y(0.002)S(0.055)LDDLEIGPGQLSSSTFDSEK 138.82 1.63E-10 117580000 3250 4825.5 2902.9 4586.9 5045.9 5494.8 5116.5 3933.2 5679.5 3817.3 TRUE FALSE FALSE 3591.849912 4981.849366 3298.492094 4675.686082 4659.284232 5026.612127 4540.777954 3832.594439 5639.975897 3981.882484 0.902048196 1.25112918 0.828375048 1.174240099 1.170120979 1.262370787 1.140359609 0.962508174 1.416409429 1 11.95923493 -6.233457047 24.72338285 0.971057025 1.150091708 0 0.187512789 561.3744716 495994.3605 0.018185668 0.030153368 5.84E-07 6.233457047 0.179034683 KISSIQSIVPALEIANAHR ddPTM_HeLa_SAHA_4h_R1 1 KISSIQSIVPALEIANAHR 19 1 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 130.4 7.87E-08 6045900 1610.1 2013.8 1734.5 1533.4 1830.4 1026.7 2734.7 796.38 1287.7 2251.3 FALSE FALSE TRUE 1779.457705 2079.048441 1970.868627 1563.081174 1690.155147 939.2193839 2426.984359 776.0097527 1278.738791 2348.364561 0.757743382 0.885317585 0.839251563 0.66560414 0.719715829 0.399946158 1.033478532 0.330446885 0.544523117 1 11.19744067 -8.285209279 0.060572316 1.699700886 9.11E-11 0 0.228158955 39.1869593 1.1270974 17.57461385 13.68707433 5.19E-09 8.285209279 -1.699700886 KITSLSS(ph)SLDTSLDFSK ddPTM_HeLa_SAHA_4h_R1 1 KITSLSSSLDTSLDFSK 17 1 E9PR71;Q9P2Y5-2;Q9P2Y5 E9PR71 UVRAG UV radiation resistance-associated gene protein 1 0 KITSLS(0.001)S(0.919)S(0.08)LDTSLDFSK 137.12 6.26E-05 2585200 1525.4 1768 1735.2 1828.8 1700.8 1985.1 1849.8 1727.9 2010.8 1866.4 TRUE FALSE FALSE 1685.848571 1825.28436 1971.664019 1864.199068 1570.485071 1815.958312 1641.655636 1683.70282 1996.806679 1946.869638 0.865927815 0.937548321 1.012735512 0.957536669 0.806671921 0.932758042 0.843228331 0.86482566 1.025649915 1 10.92694057 -5.784100469 24.99987101 0.942925966 0.865602711 0.435925021 0.054432602 235.054979 259313.7937 0.009016045 0.016351201 1.64E-06 5.784100469 -0.077323255 KIVEPEVVGES(ph)DSEVEGDAWR ddPTM_HeLa_SAHA_4h_R1 4 KIVEPEVVGESDSEVEGDAWR 21 1 P55081 P55081 MFAP1 Microfibrillar-associated protein 1 1 0 KIVEPEVVGES(0.974)DS(0.026)EVEGDAWR;KIVEPEVVGES(0.843)DS(0.157)EVEGDAWR;KIVEPEVVGES(0.881)DS(0.119)EVEGDAWR;KIVEPEVVGES(0.577)DS(0.423)EVEGDAWR ;;; 211.68 3.30E-27 50698000 7645.8 6226.4 7551.3 8724.2 8070.2 9091.6 10102 10054.6 7914.4 7516.2 TRUE FALSE FALSE 8450.020324 6428.139445 8580.351839 8893.069506 7451.863019 8316.944532 8965.296373 9797.417891 7859.323046 7840.260165 1.07777295 0.819888538 1.094396316 1.13428245 0.950461192 1.06079956 1.143494754 1.249629181 1.002431409 1 12.93668581 -4.525858934 1.957129237 1.027167244 1.262499903 0.450890244 0.083201567 0.340747739 1.99211038 0.011664085 0.118544301 2.98E-05 4.525858934 0.235332659 KIVFVPGCSIPLTIVK ddPTM_HeLa_SAHA_4h_R1 1 KIVFVPGCSIPLTIVK 16 1 P54136-2;P54136 P54136-2 RARS "Arginine--tRNA ligase, cytoplasmic" 0 0 153.09 3.79E-07 256480 278.23 277.28 259.87 365.33 456.06 245.15 353.68 177.22 184.8 288.24 FALSE FALSE TRUE 307.495508 286.2640539 295.2837303 372.4014904 421.1167813 224.2618408 313.8829956 172.686969 183.5139618 300.667437 1.022709712 0.952095301 0.982094148 1.238582715 1.400606549 0.745880043 1.043954073 0.574345432 0.610355293 1 8.232024819 -3.927171116 1.620508343 1.035892081 1.08E-10 0.244527861 0.213190991 2.12236551 2.600578649 0.023185964 4.492336481 0.000118258 3.927171116 -1.035892081 KIVFVTGNAK ddPTM_HeLa_SAHA_4h_R1 1 KIVFVTGNAK 10 1 Q9BY32-3;Q9BY32 Q9BY32-3 ITPA Inosine triphosphate pyrophosphatase 0 0 80.706 0.014649 0 872.98 714.06 1127.7 1086 885.54 819.99 1217.1 544.05 554.38 908.9 FALSE FALSE TRUE 964.8040418 737.1960125 1281.377083 1107.0211 817.6901165 750.1222389 1080.148705 530.1339888 550.5220244 948.087127 1.017632256 0.777561462 1.351539375 1.167636464 0.862463051 0.791195469 1.13929266 0.559161678 0.580666068 1 9.888875835 -4.250824366 24.41117527 1.008947364 0.559161323 0.220067027 0.215762547 845.6658064 1944711.505 0.022082353 0.414589771 5.61E-05 4.250824366 -0.449786041 KKAEPSEVDMNS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 KKAEPSEVDMNSPK 14 2 Q9NR30 Q9NR30 DDX21 Nucleolar RNA helicase 2 1 0 KKAEPSEVDMNS(1)PK;KKAEPSEVDMNS(1)PK ; 89.353 0.0067349 19091300 5991.4 4721.1 4618.1 5901 5239.8 6542 5548.7 5960.3 4920.7 5326.5 TRUE FALSE FALSE 6621.602942 4874.066738 5247.430618 6015.222388 4838.327656 5984.584796 4924.345673 5807.844156 4886.456448 5556.151482 1.191760693 0.877237914 0.944436205 1.0826239 0.87080557 1.077109725 0.886287152 1.045299822 0.879467823 1 12.43987022 -7.258925715 24.9998781 1.09055366 0.969717826 0 0.109054812 231.9240651 2306621.42 0.016159043 0.01930371 5.51E-08 7.258925715 -0.120835834 DSEKENQIPEEAGSSGLGK(ac)AK ddPTM_HeLa_SAHA_4h_R1 2 DSEKENQIPEEAGSSGLGKAK 21 2 H0YKX3;H0YMA4;A0A0U1RQM0;Q15004 H0YKX3 KIAA0101 PCNA-associated factor 0 1 ; DSEKENQIPEEAGSSGLGK(1)AK;DSEKENQIPEEAGSSGLGK(1)AK 276.3 5.15E-105 16397900 1765.03 2227.34 2982.23 4394.8 4570.4 6146.2 6457.3 6291.1 1082.38 1079.53 FALSE TRUE FALSE 1950.683954 2299.507277 3388.632774 4479.867709 4220.216939 5622.509182 5730.707609 6130.182771 1074.847629 1126.073821 1.73228781 2.042057309 3.009245672 3.978307304 3.747726711 4.993020063 5.089104729 5.44385515 0.954509029 1 10.13708569 -6.098813785 0.502364562 1.10796027 5.796181398 0.977664639 0.241619457 0.109966531 0.049831077 0.066666918 0.227508461 7.97E-07 6.098813785 4.688221128 up KKEEPSQNDIS(ph)PK ddPTM_HeLa_SAHA_4h_R1 5 KKEEPSQNDISPK 13 2 Q9NR30;Q9NR30-2 Q9NR30 DDX21 Nucleolar RNA helicase 2 1 0 KKEEPS(0.001)QNDIS(0.999)PK;KKEEPSQNDIS(1)PK;KKEEPSQNDIS(1)PK;KKEEPSQNDIS(1)PK;KKEEPSQNDIS(1)PK ;;;; 84.94 0.007456 433427000 85430.3 64668.1 56906.4 74294.5 73833.2 75732.9 76114 84147.6 74358.3 71126.1 TRUE FALSE FALSE 94416.25092 66763.38887 64661.30784 75732.57748 68176.11617 69280.03086 67549.4524 81995.22624 73840.83454 74192.69425 1.272581511 0.899864731 0.871532008 1.020755187 0.918906057 0.933785079 0.910459622 1.105165772 0.995257488 1 16.17898951 -7.240760813 24.83600501 1.128719053 0.947570891 0.268277876 0.097834482 614.4873704 738030.9868 0.019197494 0.023498254 5.74E-08 7.240760813 -0.181148161 KKEESTAASETTEGSQGDSK(ac)NAK ddPTM_HeLa_SAHA_4h_R1 2 KKEESTAASETTEGSQGDSKNAK 23 3 Q92793;Q92793-2 Q92793 CREBBP CREB-binding protein 0 1 ; KKEESTAASETTEGSQGDSK(1)NAK;KKEESTAASETTEGSQGDSK(1)NAK 145.19 6.36E-14 7464500 628.8 1713 633.56 819.39 674.758 801.851 515.35 566 1286.38 1207.7 FALSE TRUE FALSE 694.940069 1768.502324 719.8982574 835.2504783 623.0581878 733.5287837 457.3614617 551.5225396 1277.427977 1259.769857 0.551640496 1.403829687 0.571452201 0.663018307 0.494580962 0.582272055 0.363051599 0.437796266 1.014016941 1 10.29894448 -6.071271337 1.683839945 0.826926302 0.462785317 0.427620557 0.234601268 0.354765685 1.986073725 0.040296554 0.079550866 8.49E-07 6.071271337 -0.364140985 KKELFYHLQRER ddPTM_HeLa_SAHA_4h_R1 1 KKELFYHLQRER 12 3 E9PR89 E9PR89 SGK1 0 0 22.046 0.023462 2151400 1546.9 1009.8 1922.8 1607.4 1042.9 719.95 1134.6 786.37 1387.8 1271.9 FALSE FALSE TRUE 1709.610039 1042.518183 2184.82917 1638.513551 962.9932273 658.6062097 1006.931822 766.2557941 1378.142187 1326.737834 1.28858166 0.785775574 1.64676782 1.234994217 0.725835356 0.496410212 0.758953123 0.577548763 1.038744922 1 10.3736676 -5.68204229 5.067593979 1.158743722 0.625843906 0.58306588 0.218932332 0.116506487 5.283352896 0.032199827 0.065047507 2.08E-06 5.68204229 -0.532899816 QTVGTK(ac)QPK ddPTM_HeLa_SAHA_4h_R1 2 QTVGTKQPK 9 1 A0A669KBI3;F5GXF9;P51825;P51825-3;P51825-2 A0A669KBI3 AFF1 AF4/FMR2 family member 1 0 1 ; QTVGTK(1)QPK;QTVGTK(1)QPK 163.38 2.31E-07 25347000 5041.6 4522.2 5079.9 7620.5 8282.3 8406.8 10966.6 7944.2 2106.85 3362.2 FALSE TRUE FALSE 5571.89862 4668.722247 5772.162317 7768.005797 7647.711963 7690.493345 9732.609305 7740.998867 2092.188259 3507.160896 1.588720559 1.331197052 1.645821931 2.214898611 2.18059912 2.192797414 2.775067809 2.2071981 0.596547555 1 11.7760879 -6.091253538 0.289380763 0.991089699 2.927452144 0.823135075 0.264554344 0.784904756 0.122187581 0.161931839 0.534658743 8.10E-07 6.091253538 1.936362445 KKEPAITSQNS(ph)PEAR ddPTM_HeLa_SAHA_4h_R1 5 KKEPAITSQNSPEAR 15 2 E5RIS7;A0A1W2PRL9;A0A1W2PPZ5;P23193-2;P23193 E5RIS7 TCEA1 Transcription elongation factor A protein 1 1 0 KKEPAITS(0.003)QNS(0.997)PEAR;KKEPAITSQNS(1)PEAR;KKEPAITSQNS(1)PEAR;KKEPAITS(0.001)QNS(0.999)PEAR;KKEPAIT(0.003)S(0.002)QNS(0.996)PEAR ;;;; 111.09 0.00075424 439249500 32972.9 33061.4 30126.7 34382.3 35733.3 39197.6 36908.5 34923.9 35836.3 32827.8 TRUE FALSE FALSE 36441.14091 34132.61105 34232.20978 35047.81913 32995.42227 35857.74396 32755.45844 34030.59721 35586.91227 34243.16711 1.064187223 0.996771442 0.999680014 1.023498178 0.963562224 1.047150336 0.956554583 0.993792341 1.039241264 1 15.06352852 -7.14135349 22.36589217 1.030323022 0.997439587 0.259630332 0.028520294 9.952445435 1819.087704 0.005330619 0.006528643 7.22E-08 7.14135349 -0.032883435 KKEQSEVSVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 KKEQSEVSVSPR 12 2 Q7L4I2;E9PI52 Q7L4I2 RSRC2 Arginine/serine-rich coiled-coil protein 2 1 0 KKEQSEVS(0.061)VS(0.939)PR 64.842 0.015771 10304000 4041.9 3485.8 3803.7 3403.2 4058.4 4124.3 3790.7 4287.6 3564 3739.7 TRUE FALSE FALSE 4467.045587 3598.742207 4322.048427 3469.073857 3747.446269 3772.886437 3364.160459 4177.9294 3539.197834 3900.936769 1.14512125 0.922532822 1.107951419 0.889292512 0.960652913 0.967174466 0.8623981 1.071006696 0.907268701 1 11.9296049 -6.26427918 24.99780197 1.059685637 0.946766641 0.020350824 0.09038764 233.9080134 2059013.804 0.012442394 0.019529202 5.44E-07 6.26427918 -0.112918996 KKKEEEEDEEDEEDEEEEEDEEDEDEEEDDDDE ddPTM_HeLa_SAHA_4h_R1 1 KKKEEEEDEEDEEDEEEEEDEEDEDEEEDDDDE 33 3 P09429 P09429 HMGB1 High mobility group protein B1 0 0 38.986 0.017522 92562000 1822.2 2185.1 2620.4 2629.8 3048.2 3269.6 3146 3607.4 2801 2521.9 FALSE FALSE TRUE 2013.867357 2255.898674 2977.494466 2680.703582 2814.647575 2991.011686 2792.0038 3515.127931 2781.507613 2630.631451 0.765545229 0.857550256 1.13185542 1.019034263 1.069951313 1.136993814 1.061343579 1.336229722 1.057353592 1 11.36119343 -6.759871032 24.99797685 0.883811614 1.116070354 0.439843556 0.110448301 26.78534426 426928.1704 0.018365841 0.025193054 1.74E-07 6.759871032 0.23225874 KKPAPLPPSS(ph)SPGPPSQDSR ddPTM_HeLa_SAHA_4h_R1 1 KKPAPLPPSSSPGPPSQDSR 20 2 Q8N3F8 Q8N3F8 MICALL1 MICAL-like protein 1 1 0 KKPAPLPPS(0.12)S(0.437)S(0.437)PGPPS(0.006)QDS(0.001)R 47.618 0.016692 6224900 1305.7 1940 1495.7 1833.2 1780.9 2301.8 1960.9 1686.6 2330.5 2193.6 TRUE FALSE FALSE 1443.039517 2002.857273 1699.526207 1868.684237 1644.447827 2105.67369 1740.254371 1643.459214 2314.281861 2288.176831 0.630650349 0.875307033 0.742742512 0.816669504 0.718671653 0.920240806 0.760541907 0.718239601 1.011408659 1 11.15998283 -9.561961822 1.335958806 1.000003069 0.760312722 0.572137583 0.079611706 0.278088634 0.889454906 0.059908886 0.0141025 2.74E-10 9.561961822 -0.239690348 KKS(ph)GHPAPS(ph)S(ph)MR ddPTM_HeLa_SAHA_4h_R1 1 KKSGHPAPSSMR 12 2 Q8N137;Q8N137-3;Q8N137-2 Q8N137 CNTROB Centrobin 3 0 KKS(1)GHPAPS(1)S(1)MR 79.639 0.018216 4779100 560.04 700.2 638.56 633.26 569.2 702.26 526.34 657.78 681.35 890.35 TRUE FALSE FALSE 618.9475768 722.8869394 725.5796313 645.517663 525.588019 642.4234972 467.1148379 640.9549401 676.6084299 928.7373458 0.666439849 0.778354551 0.781253855 0.695048677 0.565916749 0.691717093 0.50295688 0.690135853 0.728525059 1 9.859126839 -13.52287875 0.178871296 2.439398153 0.582165197 0.220586888 0.111905222 19.56744859 0.223766503 9.803833773 0.103302536 3.00E-14 13.52287875 -1.857232956 KKTEFLDLDNSPLSPPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 KKTEFLDLDNSPLSPPSPR 19 2 Q8NCF5 Q8NCF5 NFATC2IP NFATC2-interacting protein 1 0 KKTEFLDLDNS(0.018)PLS(0.012)PPS(0.97)PR 49.765 0.015983 2334700 1582.7 1398.7 1640.5 1529.4 1860.1 2031.6 2058.2 1805 1847.1 1753.4 TRUE FALSE FALSE 1749.175648 1444.018798 1864.058797 1559.003749 1717.57954 1858.496251 1826.605919 1758.830714 1834.245881 1828.997655 0.956357513 0.78951375 1.019169594 0.852381491 0.939082418 1.016128285 0.998692324 0.961636396 1.002869455 1 10.83683751 -3.237341822 16.60952812 0.961862748 0.954416423 0 0.072774216 0 0 0.009314571 0 0.000578973 3.237341822 -0.007446325 KKVEEEDEEEEEEEEEEEEEEDE ddPTM_HeLa_SAHA_4h_R1 4 KKVEEEDEEEEEEEEEEEEEEDE 23 2 O15347 O15347 HMGB3 High mobility group protein B3 0 0 ;;; ;;; 103.99 0.00014722 50142600 5211.45 5145.55 5533.33 5824.94 6318.82 6262.44 6663.3 6344.07 5711.64 5705.07 FALSE FALSE TRUE 5759.614222 5312.269196 6287.383396 5937.690137 5834.673377 5728.84488 5913.527947 6181.797876 5671.892232 5951.043488 0.967832656 0.892661801 1.056517804 0.997756133 0.980445428 0.962662244 0.993695973 1.03877545 0.953092049 1 12.53892695 KLAVNMVPFPR ddPTM_HeLa_SAHA_4h_R1 3 KLAVNMVPFPR 11 1 P68371;Q3ZCM7;A0A075B736;Q5SQY0;A6NNZ2;CON__ENSEMBL:ENSBTAP00000025008;Q9H4B7;A0A0B4J269;Q13509;Q13509-2;P04350;P07437;Q5JP53;Q5ST81;Q9BVA1;Q13885;K7ESM5;Q9BUF5 P68371;A0A0B4J269;P04350;P07437;Q9BVA1;K7ESM5 TUBB4B;TUBB8;TUBB1;TUBB3;TUBB4A;TUBB;TUBB2B;TUBB2A;TUBB6 Tubulin beta-4B chain;Tubulin beta-8 chain;Tubulin beta-8 chain-like protein LOC260334;Tubulin beta-1 chain;Tubulin beta-3 chain;Tubulin beta-4A chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain;Tubulin beta-6 chain 0 0 ;; ;; 145.25 1.95E-05 55684800 10013.04 9174.44 18762.5 12858.71 13463.59 5037.59 15772.7 2590.28 1758.248 5462.66 FALSE FALSE TRUE 11066.25749 9471.697876 21319.35579 13107.60893 12432.01264 4608.358991 13997.91428 2524.024388 1746.012209 5698.182006 1.942068098 1.662231544 3.741431173 2.30031419 2.181750711 0.808741979 2.456557946 0.442952574 0.306415662 1 12.47628599 -4.237711058 23.07645913 1.735079604 0.442948323 0.161208857 0.924805843 3350.357952 3258172.098 0.121489051 8.311933056 5.78E-05 4.237711058 -1.292131281 KLCQPQSTGSLLGDPAAS(ph)SPPGER ddPTM_HeLa_SAHA_4h_R1 2 KLCQPQSTGSLLGDPAASSPPGER 24 1 U3KQ90;P55199 U3KQ90 ELL RNA polymerase II elongation factor ELL 1 0 KLCQPQSTGSLLGDPAAS(0.751)S(0.249)PPGER;KLCQPQST(0.002)GS(0.09)LLGDPAAS(0.454)S(0.454)PPGER ; 128.18 5.73E-07 8665900 1341.77 1227.94 1400.56 1617.31 1560.17 1879.41 1676.5 1717.38 1697.09 1326.9 TRUE FALSE FALSE 1482.903525 1267.726062 1591.421023 1648.615374 1440.630112 1719.273695 1487.855808 1673.451906 1685.279813 1384.109153 1.071377588 0.915914803 1.149780001 1.19110214 1.040835623 1.242151814 1.074955544 1.209046196 1.217591697 1 10.434742 -6.7127157 24.97571838 1.025813515 1.14875743 0.205457201 0.091018805 75.04910649 38469.86202 0.010048218 0.014210311 1.94E-07 6.7127157 0.122943914 KLDDTPSGAGK(ac)FPAGHSVIQLAR ddPTM_HeLa_SAHA_4h_R1 2 KLDDTPSGAGKFPAGHSVIQLAR 23 2 Q9HC52;C9J6K3 Q9HC52 CBX8 Chromobox protein homolog 8 0 1 ; KLDDTPSGAGK(1)FPAGHSVIQLAR;K(0.005)LDDTPSGAGK(0.995)FPAGHSVIQLAR 108.69 6.05E-06 4379800 506.86 656.64 591.09 878.52 1150.47 1440.27 1521.26 1335.84 770.05 640.99 FALSE TRUE FALSE 560.1738604 677.9155668 671.6406669 895.525025 1062.321237 1317.550893 1350.083821 1301.671147 764.6911594 668.6262158 0.83779823 1.01389319 1.004508425 1.339350752 1.588811823 1.970534302 2.019190676 1.946784491 1.143675108 1 9.385056112 -5.764921403 1.214440515 0.925294316 2.018208294 0.956662442 0.090566182 0.047301846 0.137767233 0.011920319 0.032735916 1.72E-06 5.764921403 1.092913978 KLDEAVAEAHLGK ddPTM_HeLa_SAHA_4h_R1 1 KLDEAVAEAHLGK 13 1 P23526-2;P23526 P23526-2 AHCY Adenosylhomocysteinase 0 0 47.189 0.023079 1446900 2923.7 2686 3056.4 3017 3807.4 3603.6 3236 2478.4 3614.2 3667.7 FALSE FALSE TRUE 3231.22818 2773.028162 3472.910275 3075.398398 3515.677835 3296.553007 2871.876763 2415.006117 3589.048488 3825.832496 0.844581717 0.724816929 0.90775283 0.80385077 0.918931458 0.861656387 0.750654078 0.631236762 0.938109154 1 11.901558 -13.52287875 0.064935872 1.711827976 0.523445474 0.465992826 0.077557078 163.3338823 0.828479787 18.2621388 3.010056718 3.00E-14 13.52287875 -1.188382503 KLDFNSPGGS(ph)SPVENSDCSTNSR ddPTM_HeLa_SAHA_4h_R1 1 KLDFNSPGGSSPVENSDCSTNSR 23 1 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 KLDFNSPGGS(0.5)S(0.5)PVENSDCSTNSR 153.82 3.74E-07 6195300 1179.9 1354 1269.2 1281.9 1383.6 1795.2 1263.1 1232 1445 1038.8 TRUE FALSE FALSE 1304.007296 1397.870488 1442.159966 1306.713028 1277.588867 1642.23886 1120.972664 1200.487224 1434.944127 1083.587752 1.203416422 1.290039026 1.330912023 1.205913435 1.179035906 1.515556869 1.034501047 1.107881869 1.324252812 1 10.08160028 -8.757613555 0.765888359 1.005585937 1.239016417 0 0.157732357 0.54913229 0.627733771 0.06904233 0.026500398 1.75E-09 8.757613555 0.23343048 KLDFNSPGGSS(ph)PVENSDCSTNSR ddPTM_HeLa_SAHA_4h_R1 1 KLDFNSPGGSSPVENSDCSTNSR 23 1 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 KLDFNSPGGS(0.167)S(0.832)PVENSDCSTNSR 129.62 1.17E-06 7100700 602.77 692.26 460.54 588.04 634.03 639.14 729.68 542.13 827.91 556.45 TRUE FALSE FALSE 666.1721142 714.6896782 523.2999928 599.4223645 585.4507584 584.6816763 647.574486 528.2630996 822.1485069 580.4412827 1.147699404 1.23128678 0.901555434 1.032701123 1.008630461 1.007305465 1.115658905 0.91010601 1.416419768 1 9.181006322 -6.739293763 24.99999949 1.0838113 1.004189515 0.205017201 0.132716515 347.3264233 392093.0821 0.01427458 0.020177598 1.82E-07 6.739293763 -0.079621786 KLDPAQS(ph)ASRENLLEEQGSIALR ddPTM_HeLa_SAHA_4h_R1 1 KLDPAQSASRENLLEEQGSIALR 23 2 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 1 0 KLDPAQS(0.5)AS(0.5)RENLLEEQGSIALR 95.624 5.80E-05 17967000 996.99 904.81 905.87 1182.1 1097.1 1135.2 1188.3 1101.3 1190.6 866.85 TRUE FALSE FALSE 1101.857983 934.1264377 1029.317246 1204.981255 1013.040435 1038.474574 1054.589357 1073.130341 1182.314518 904.2241458 1.218567307 1.033069557 1.138343021 1.332613446 1.120342163 1.148470297 1.166291966 1.18679682 1.307545837 1 9.820536633 -9.442827325 0.91650166 0.988463828 1.170869299 0 0.119651104 0.517378796 0.693445259 0.068859008 0.013343168 3.61E-10 9.442827325 0.182405471 KLDPEEEDDS(ph)FNNYEVQSEAK ddPTM_HeLa_SAHA_4h_R1 2 KLDPEEEDDSFNNYEVQSEAK 21 1 A0A087WWW8;Q9Y6J0-2;Q9Y6J0 A0A087WWW8 CABIN1 Calcineurin-binding protein cabin-1 1 0 KLDPEEEDDS(0.757)FNNY(0.243)EVQSEAK;KLDPEEEDDS(0.679)FNNY(0.32)EVQS(0.001)EAK ; 75.358 0.0012386 2482100 1689.44 1489.8 1215.75 1452.83 1885.4 1674.89 1557.65 1972.75 1878.44 1697.48 TRUE FALSE FALSE 1867.143051 1538.070497 1381.426079 1480.951625 1740.941059 1532.179949 1382.379122 1922.289912 1865.367783 1770.66667 1.054485908 0.86863921 0.780172859 0.836380811 0.983212193 0.86531247 0.780711099 1.085630596 1.053483309 1 10.79007693 -7.256965219 24.82997303 1.025729457 0.87869104 0.376641516 0.087968148 257.2766163 1427792.444 0.014021335 0.016867755 5.53E-08 7.256965219 -0.147038418 KLDPELHLDIK ddPTM_HeLa_SAHA_4h_R1 1 KLDPELHLDIK 11 1 B4DY09;Q12905 B4DY09 ILF2 Interleukin enhancer-binding factor 2 0 0 72.34 0.013982 1745300 4625.8 3633.1 4653.7 4986.1 4611.1 5473.9 5574.9 3699.6 4718.4 4788.1 FALSE FALSE TRUE 5112.362868 3750.814824 5287.882001 5082.613176 4257.798514 5007.492925 4947.59758 3604.969589 4685.56427 4994.538423 1.023590657 0.750983275 1.05873287 1.017634213 0.852490892 1.002593733 0.990601565 0.721782332 0.938137596 1 12.28613564 -4.260741915 24.3954779 0.985436277 0.721782219 0.349438564 0.091256708 29.42091054 1028758.233 0.012014241 0.095970366 5.49E-05 4.260741915 -0.263654059 KLDPGSEETQTLVR ddPTM_HeLa_SAHA_4h_R1 2 KLDPGSEETQTLVR 14 1 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 0 0 ; ; 129.17 0.001081 27517000 5008.3 4930.5 4572.2 5407.1 4931.9 5334.4 4929.7 5340 4915.8 4580.9 FALSE FALSE TRUE 5535.095973 5090.251435 5195.275605 5511.762239 4554.018887 4879.879109 4374.997182 5203.410532 4881.590548 4778.405017 1.158356387 1.065261613 1.08724053 1.153473224 0.953041626 1.021235976 0.915576885 1.088942966 1.021594136 1 12.22231343 -5.747805212 24.99993405 1.081684237 0.990943228 0.312107304 0.062653193 247.6003659 454003.3724 0.010427523 0.020764291 1.79E-06 5.747805212 -0.090741009 KLDVEEPDSANSS(ph)FYSTR ddPTM_HeLa_SAHA_4h_R1 2 KLDVEEPDSANSSFYSTR 18 1 A0A087WY61;Q14980-5;Q14980-2;Q14980;H0YFY6 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 1 0 KLDVEEPDSANS(0.236)S(0.763)FYS(0.002)TR;KLDVEEPDSANS(0.085)S(0.902)FYS(0.012)T(0.002)R ; 198.6 1.49E-16 43623000 9865.7 7284 7377.8 8945.3 8928.1 11111.9 7629.4 8262.5 6282.6 8419 TRUE FALSE FALSE 10903.41959 7520.006379 8383.208162 9118.449217 8244.030907 10165.10361 6770.919833 8051.157214 6238.878875 8781.984292 1.241566738 0.856299229 0.954591569 1.038313087 0.938743527 1.15749508 0.771001132 0.916781099 0.710417904 1 13.10033124 -7.254585886 24.98954738 1.114073182 0.952300717 0 0.168891761 548.837685 2001198.944 0.021299267 0.025782916 5.56E-08 7.254585886 -0.161772465 KLEEEQIILEDQNCK ddPTM_HeLa_SAHA_4h_R1 2 KLEEEQIILEDQNCK 15 1 P35579 P35579 MYH9 Myosin-9 0 0 ; ; 186.43 1.69E-08 22983600 6856.5 6828.9 7022.4 8017.5 8128.7 8926.1 8104.3 7892.2 8218.9 7258.3 FALSE FALSE TRUE 7577.698129 7050.160841 7979.376101 8172.690306 7505.880762 8165.546063 7192.382835 7690.328952 8161.704006 7571.240834 1.000852871 0.931176408 1.053905994 1.079438692 0.991367324 1.07849509 0.94996091 1.015729009 1.077987636 1 12.88631404 KLEKEEEEGISQES(ph)S(ph)EEEQ ddPTM_HeLa_SAHA_4h_R1 1 KLEKEEEEGISQESSEEEQ 19 2 P17096;P17096-2 P17096 HMGA1 High mobility group protein HMG-I/HMG-Y 2 0 KLEKEEEEGIS(0.042)QES(0.979)S(0.979)EEEQ 56.215 0.023352 25574000 1332.4 1154.8 1199.9 1313.8 1209.4 1277.6 1201.7 1788.8 1001.5 953.13 TRUE FALSE FALSE 1472.547945 1192.216278 1363.416123 1339.230499 1116.736033 1168.741292 1066.481553 1743.045086 994.53048 994.2240988 1.481102648 1.199142406 1.371336829 1.347010699 1.123223662 1.175531044 1.072677231 1.75317123 1.000308161 1 9.957427263 -9.543551315 1.307970378 0.999977871 1.318197546 0.309590309 0.187859294 0.459756678 1.408722266 0.129233728 0.030683698 2.86E-10 9.543551315 0.318219676 KLEKEEEEGISQES(ph)SEEEQ ddPTM_HeLa_SAHA_4h_R1 2 KLEKEEEEGISQESSEEEQ 19 2 P17096;P17096-2 P17096 HMGA1 High mobility group protein HMG-I/HMG-Y 1 0 KLEKEEEEGIS(0.002)QES(0.499)S(0.499)EEEQ;KLEKEEEEGIS(0.003)QES(0.499)S(0.499)EEEQ ; 70.235 0.0075281 15875100 3672.5 2898 3427.8 3866 3531.4 2986.7 3675 4242.2 2862.2 3036.2 TRUE FALSE FALSE 4058.7904 2991.897101 3894.922733 3940.83202 3260.824895 2732.216357 3261.479328 4133.690667 2842.281717 3167.105441 1.281545713 0.944678716 1.229805198 1.244300859 1.029591517 0.862685632 1.029798151 1.305195152 0.897438298 1 11.62894918 KLENCNYAVELGK(ac)HPAK ddPTM_HeLa_SAHA_4h_R1 1 KLENCNYAVELGKHPAK 17 2 P13797-3;P13797;A0A0A0MSQ0;P13797-2 P13797-3 PLS3 Plastin-3 0 1 KLENCNYAVELGK(1)HPAK 84.508 0.0043139 2418100 1347.4 2489.3 1761.2 1590.4 3084.1 1940 3188.8 1650.3 2129.3 1209.5 FALSE TRUE FALSE 1489.125714 2569.954953 2001.207164 1621.184492 2847.796924 1774.701086 2829.987832 1608.087716 2114.482028 1261.647464 1.180302546 2.03698341 1.586185698 1.28497424 2.257204968 1.40665371 2.243089224 1.274593546 1.675968991 1 10.30109313 -7.394795679 5.535445569 1.078392161 1.731403484 0.158561245 0.391415774 0.143513113 5.867060306 0.053595226 0.060909301 4.03E-08 7.394795679 0.653011324 KLENS(ph)PLGEALR ddPTM_HeLa_SAHA_4h_R1 1 KLENSPLGEALR 12 1 D6RI08;D6RDK1;D6RIV2;D6R9T5;D6RG39;D6RIT9;D6RDK6;D6RBN5;Q9NX40-3;Q9NX40-2;Q9NX40-4;Q9NX40 D6RI08 OCIAD1 OCIA domain-containing protein 1 1 0 KLENS(1)PLGEALR 89.136 0.0069763 66019000 4111.4 5148.9 3670.8 3953.9 6055.8 4918.2 6227.7 4569.3 4245.7 4478 TRUE FALSE FALSE 4543.855916 5315.727738 4171.037507 4030.433452 5591.805912 4499.141691 5526.942806 4452.423922 4216.153828 4671.068495 0.97276585 1.138011088 0.892951476 0.862850428 1.197114947 0.96319326 1.183228808 0.953191743 0.902610149 1 12.18953689 -5.762258104 24.99999571 0.983795567 1.074043431 0.203449161 0.103729984 29.34690059 896165.8113 0.013504806 0.025572766 1.73E-06 5.762258104 0.090247864 KLFVGGLK ddPTM_HeLa_SAHA_4h_R1 3 KLFVGGLK 8 1 Q13151 Q13151 HNRNPA0 Heterogeneous nuclear ribonucleoprotein A0 0 0 ;; ;; 103.74 0.0060481 0 15827.7 17074.9 19667.4 20566.1 20446.7 17918 21572.6 10489.5 14216.9 16850.5 FALSE FALSE TRUE 17492.53011 17628.13796 22347.57085 20964.1866 18880.07826 16391.2856 19145.19427 10221.19378 14117.96344 17577.00752 0.995193868 1.002908939 1.271409301 1.192705105 1.07413496 0.932541309 1.089218074 0.581509325 0.803206315 1 14.10140185 -4.257210083 24.87843072 1.034599041 0.581509133 0.552137424 0.123828698 208.3867747 1225765.051 0.015038126 0.15620844 5.53E-05 4.257210083 -0.453089907 KLGAGEGGEASVS(ph)PEK ddPTM_HeLa_SAHA_4h_R1 3 KLGAGEGGEASVSPEK 16 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 KLGAGEGGEAS(0.003)VS(0.997)PEK;KLGAGEGGEAS(0.024)VS(0.976)PEK;KLGAGEGGEASVS(1)PEK ;; 136.85 0.00018378 261809600 8423.4 9442.07 7421.03 9333.64 9336.7 11896.6 9376.5 8817.17 13906.7 9696.14 TRUE FALSE FALSE 9309.41186 9747.999263 8432.329321 9514.306099 8621.324063 10882.94275 8321.431542 8591.639559 13809.92214 10114.18805 0.920430965 0.963794545 0.833712927 0.940689065 0.852399028 1.076007555 0.822748351 0.849464091 1.365400967 1 13.30409289 -13.52287875 0.146492512 1.347166941 0.874261656 0.23378608 0.13557336 79.74649889 0.802167485 7.931006915 0.172038294 3.00E-14 13.52287875 -0.472905285 KLGAGEGGEASVS(ph)PEKTSTTSK ddPTM_HeLa_SAHA_4h_R1 4 KLGAGEGGEASVSPEKTSTTSK 22 2 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 KLGAGEGGEAS(0.009)VS(0.964)PEKT(0.009)S(0.004)T(0.005)T(0.007)S(0.002)K;KLGAGEGGEAS(0.243)VS(0.617)PEKT(0.042)S(0.042)T(0.019)T(0.025)S(0.011)K;KLGAGEGGEAS(0.008)VS(0.291)PEKT(0.122)S(0.122)T(0.165)T(0.225)S(0.069)K;KLGAGEGGEAS(0.248)VS(0.751)PEKTSTTSK ;;; 74.392 0.0014637 89925000 15422.8 13445.45 14035.7 15650.7 16022.5 16925.6 18235.6 18750.3 13472.9 16003.8 TRUE FALSE FALSE 17045.04087 13881.0914 15948.4121 15953.64193 14794.85951 15483.44366 16183.68229 18270.69448 13379.14099 16693.80214 1.021040068 0.831511676 0.955349295 0.955662574 0.886248644 0.927496536 0.969442561 1.094459748 0.801443606 1 14.02702496 KLGDVS(ph)PTQIDVSQFGSFKEDTK ddPTM_HeLa_SAHA_4h_R1 1 KLGDVSPTQIDVSQFGSFKEDTK 23 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 KLGDVS(0.768)PT(0.231)QIDVS(0.001)QFGSFKEDTK 46.808 0.013875 98615000 512.27 595.27 581.08 580.95 510.52 507.43 613.75 688.3 435.05 502.62 TRUE FALSE FALSE 566.152909 614.5571386 660.2665563 592.1951273 471.4040679 464.1941093 544.6892347 670.6942826 432.0224516 524.290408 1.079846017 1.172169334 1.259352729 1.129517379 0.899127775 0.885375933 1.038907496 1.279241948 0.824013648 1 9.034222341 -3.037660764 2.298573146 1.049619727 40.03058782 0.230957344 0.130550739 321.5980977 11.8311254 0.017013128 64950.07632 0.000916936 3.037660764 38.9809681 KLGDVSPT(ph)QIDVSQFGSFK ddPTM_HeLa_SAHA_4h_R1 2 KLGDVSPTQIDVSQFGSFK 19 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 KLGDVS(0.082)PT(0.918)QIDVSQFGSFK;KLGDVS(0.055)PT(0.945)QIDVSQFGSFK ; 134.83 0.00010492 465797900 5781.3 7271.6 5276.7 6799.1 7147.8 9255 7917.1 7183.1 8566 6603.4 TRUE FALSE FALSE 6389.40366 7507.204611 5995.781196 6930.706412 6600.137108 8466.421933 7026.247071 6999.366703 8506.388509 6888.10489 0.927599646 1.089879543 0.870454398 1.006184796 0.958193467 1.229136616 1.02005518 1.016152747 1.234938876 1 12.7498914 KLGDVSPT(ph)QIDVSQFGSFKEDTK ddPTM_HeLa_SAHA_4h_R1 1 KLGDVSPTQIDVSQFGSFKEDTK 23 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 KLGDVS(0.403)PT(0.597)QIDVSQFGSFKEDTK 82.541 0.00088412 12656000 1987.6 1590 2156.2 2017.2 1876.9 1761 2469.8 2146.1 1372.6 1611.2 TRUE FALSE FALSE 2196.664887 1641.517043 2450.035707 2056.245823 1733.092327 1610.952893 2191.891604 2091.20587 1363.047965 1680.666717 1.307019926 0.976705867 1.457776061 1.223470306 1.031193341 0.958520138 1.304179812 1.244271603 0.811016218 1 10.71481795 -9.567940101 1.336099754 0.999680121 1.198309938 0.281995393 0.163476119 0.602978427 1.924283347 0.108022955 0.025179614 2.70E-10 9.567940101 0.198629816 KLIHLEIKPAIR ddPTM_HeLa_SAHA_4h_R1 2 KLIHLEIKPAIR 12 2 G5E9C7;P36507;A0A1B0GUL7;Q02750;Q02750-2 G5E9C7;Q02750 MAP2K2;MAP2K1 Dual specificity mitogen-activated protein kinase kinase 2;Dual specificity mitogen-activated protein kinase kinase 1 0 0 ; ; 54.343 0.019448 13130900 9263.2 9084.4 10399.7 11970.6 11725.3 7708.7 13648.9 7652.3 9692 11606.3 FALSE FALSE TRUE 10237.54588 9378.74052 11816.91696 12202.30827 10826.91005 7051.875392 12113.08985 7456.565246 9624.552583 12106.70439 0.845609635 0.77467329 0.976063888 1.007896772 0.894290444 0.582476879 1.000527431 0.6159038 0.794977086 1 13.56351858 -1.000000394 0.04225508 1.362734123 5.57E-09 0.052726688 0.145350923 748.1623984 2.427998817 20.97990845 71.68620784 0.099999909 1.000000394 -1.362734118 YQVSSLCGTDNEDKITTGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 YQVSSLCGTDNEDKITTGKR 20 2 Q9UBW7 Q9UBW7 ZMYM2 Zinc finger MYM-type protein 2 0 1 ; YQVSSLCGTDNEDKITTGK(1)R;YQVSSLCGTDNEDKITTGK(1)R 292.35 2.10E-122 12232100 1526.2 1825.36 2247.38 2423.2 3306.2 3706 3924.7 3748.3 1480.35 1151.33 FALSE TRUE FALSE 1686.732718 1884.502862 2553.641243 2470.10454 3052.87967 3390.227951 3483.082427 3652.423913 1470.048124 1200.969471 1.404475933 1.569151346 2.126316534 2.05675881 2.542012719 2.822909352 2.900225619 3.041229609 1.224051202 1 10.22998376 -6.089533978 0.440518439 1.041957285 3.308877946 0.975005095 0.111566644 0.124851635 0.042792241 0.03350671 0.118962714 8.14E-07 6.089533978 2.26692066 up KLLEGEEER ddPTM_HeLa_SAHA_4h_R1 1 KLLEGEEER 9 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8;P20700;E9PBF6;Q03252 P02545;P02545-2;P20700;Q03252 LMNA;LMNB1;LMNB2 Prelamin-A/C;Lamin-A/C;Lamin-B1;Lamin-B2 0 0 75.652 0.02088 1954100 2015.7 1696.4 2316 3157.6 3324.8 3239 3047 2667.1 2639.4 2372.9 FALSE FALSE TRUE 2227.720574 1751.364473 2631.612419 3218.719914 3070.054542 2963.018978 2704.143541 2598.879444 2621.032201 2475.207332 0.900013726 0.707562737 1.063188681 1.300383961 1.240322175 1.197079105 1.09249173 1.049964345 1.058914204 1 11.27333366 -6.525549511 24.99910008 0.930802058 1.176709493 0.564211376 0.107190776 47.39010853 443581.6306 0.016919692 0.024009095 2.98E-07 6.525549511 0.245907435 KLLLDPS(ph)SPPTK ddPTM_HeLa_SAHA_4h_R1 1 KLLLDPSSPPTK 12 1 H0YFI1;F5H479;F5GX19;F5H3Y3;Q6IAA8 H0YFI1 LAMTOR1 Ragulator complex protein LAMTOR1 1 0 KLLLDPS(0.635)S(0.342)PPT(0.023)K 92.952 0.0056237 17378000 5094.8 10022 8133.9 4888.1 8369.9 6817.6 9708.1 5426.8 4769 7026.1 TRUE FALSE FALSE 5630.69444 10346.71938 9242.345532 4982.716244 7728.60007 6236.702125 8615.719038 5287.990314 4735.812141 7329.029556 0.768272852 1.411744802 1.261059935 0.679860302 1.054518884 0.85095879 1.175560689 0.721513029 0.646171789 1 12.83940647 KLLLDPSS(ph)PPTK ddPTM_HeLa_SAHA_4h_R1 1 KLLLDPSSPPTK 12 1 H0YFI1;F5H479;F5GX19;F5H3Y3;Q6IAA8 H0YFI1 LAMTOR1 Ragulator complex protein LAMTOR1 1 0 KLLLDPS(0.323)S(0.615)PPT(0.062)K 74.338 0.014642 9171300 2979.9 5153.9 3779.8 2129.5 4111.2 3122.1 4008.9 3231.4 2004 3769.6 TRUE FALSE FALSE 3293.339554 5320.889742 4294.89146 2170.719552 3796.200744 2856.079516 3557.808021 3148.745467 1990.054001 3932.125904 0.837546822 1.35318397 1.092256852 0.552047316 0.965432145 0.726344879 0.904805214 0.800774325 0.506101292 1 11.9410938 -6.296713665 24.99675898 0.971939746 0.802488327 0.120566827 0.223879131 799.398881 566484.1371 0.027382547 0.041828393 5.05E-07 6.296713665 -0.169451419 KLLMS(ph)S(ph)TK ddPTM_HeLa_SAHA_4h_R1 1 KLLMSSTK 8 1 Q9NQT4;M0R050 Q9NQT4 EXOSC5 Exosome complex component RRP46 2 0 KLLMS(0.85)S(0.897)T(0.253)K 85.533 0.0038525 0 1118.4 1533.3 1015.7 1029.8 1559.6 1582.9 1452.1 1486.9 1913.2 1388.3 TRUE FALSE FALSE 1236.038443 1582.979926 1154.114306 1049.733268 1440.103785 1448.028015 1288.705886 1448.867251 1899.885885 1448.156407 0.853525515 1.093100109 0.796954183 0.724875616 0.994439397 0.999911341 0.88989413 1.000490861 1.311934178 1 10.50000171 -4.241881422 21.83022622 0.924504407 1.000491267 0 0.160361973 2144.7057 2393654.804 0.014712654 0.579419908 5.73E-05 4.241881422 0.07598686 KLMHQAALLGQALQDSR ddPTM_HeLa_SAHA_4h_R1 1 KLMHQAALLGQALQDSR 17 1 Q16881;A0A087WSY9;A0A087WSW9;E9PIR7;A0A182DWI3;Q16881-5;F8W809;Q16881-2;Q16881-4;Q16881-3;Q16881-6;E2QRB9;Q16881-7;E9PKD3;A0A0B4J225;E9PIZ5 Q16881 TXNRD1 "Thioredoxin reductase 1, cytoplasmic" 0 0 68.329 0.0065914 1118400 529.99 377.15 531.24 445.95 640.17 370.95 581.75 345.25 386.03 722.03 FALSE FALSE TRUE 585.7367799 389.3699075 603.6346206 454.5820071 591.1203129 339.3429731 516.2899589 336.4190049 383.3435858 753.1602468 0.777705385 0.516981491 0.801469041 0.603566119 0.78485331 0.450558795 0.685498154 0.446676529 0.508980111 1 9.556813044 -13.52281467 0.073327089 2.415256532 0.159727834 0 0.193699683 83.59168446 0.474332472 19.52717412 2.575899644 3.00E-14 13.52281467 -2.255528698 KLMVALAK ddPTM_HeLa_SAHA_4h_R1 2 KLMVALAK 8 1 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YKS4;H0YNA0;H0YN52 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ; ; 93.429 0.010022 0 7801.3 8827.2 23012 15736.7 13573 2655.3 16021.1 2230.48 889.09 3324 FALSE FALSE TRUE 8621.876528 9113.207072 26147.95552 16041.30658 12533.03967 2429.053502 14218.36366 2173.427551 882.9027503 3467.313907 2.486615506 2.628319015 7.541271491 4.626436202 3.61462504 0.700557713 4.100685442 0.626833223 0.254635944 1 11.75960274 -5.283478689 24.59688169 2.572827965 2.038490382 0.026485609 2.142005666 3636.142861 4058097.867 0.33160479 0.742106786 5.21E-06 5.283478689 -0.534337583 KLNSSSSSSSNSSNEREDFDSTSSSSST(ph)PPLQPR ddPTM_HeLa_SAHA_4h_R1 1 KLNSSSSSSSNSSNEREDFDSTSSSSSTPPLQPR 34 2 A0A669KAU9;A0A669KAX4;K4DI93;Q13620-1;Q13620 A0A669KAU9 CUL4B Cullin-4B 1 0 KLNSSSSSSSNSSNEREDFDS(0.004)T(0.011)S(0.04)S(0.04)S(0.148)S(0.148)S(0.148)T(0.461)PPLQPR 67.345 0.00013146 11845000 380.32 460.84 350.88 363.63 459.51 359.59 430.37 289.78 515.78 338.97 TRUE FALSE FALSE 420.3238026 475.7715184 398.6960991 370.6685845 424.3024431 328.950909 381.9436349 282.3678472 512.190645 353.5846556 1.188750122 1.345566078 1.127583148 1.048316375 1.200002422 0.930331404 1.080204214 0.798586259 1.448565816 1 8.465911858 -3.514642456 0.913599539 1.114292342 1.64E-17 0.319226915 0.149957702 5.976923861 1.407756828 0.018654461 9.211799389 0.000305744 3.514642456 -1.114292342 KLNVTEQEK(ac)IDK ddPTM_HeLa_SAHA_4h_R1 2 KLNVTEQEKIDK 12 2 P06733;K7EM90;A0A2R8YEM5;A0A2R8Y879 P06733 ENO1 Alpha-enolase;Enolase 0 1 ; KLNVTEQEK(1)IDK;KLNVTEQEK(1)IDK 204.35 2.14E-24 31062000 2675.1 7580.41 4255.24 3690.04 6010.38 5315.56 7907.17 5251.58 4317.96 2057.24 FALSE TRUE FALSE 2956.479292 7826.020258 4835.121947 3761.46606 5549.865983 4862.644383 7017.434421 5117.252188 4287.910965 2145.937684 1.37770976 3.646900054 2.253151143 1.752830983 2.586219546 2.26597651 3.270101677 2.38462292 1.998152601 1 11.06739247 -7.434201993 8.124801615 1.165569597 2.562030144 0.432044432 0.571826418 0.147380095 12.2541323 0.086281168 0.098332666 3.68E-08 7.434201993 1.396460548 KLNVTEQEKIDK ddPTM_HeLa_SAHA_4h_R1 2 KLNVTEQEKIDK 12 2 P06733;K7EM90;A0A2R8YEM5;A0A2R8Y879 P06733 ENO1 Alpha-enolase;Enolase 0 0 ; ; 98.182 0.0046133 18970300 7588.1 7998 9304 7761.3 8305.3 7605.6 10282.9 8035.4 6147.2 7767.7 FALSE FALSE TRUE 8386.251173 8257.140448 10571.90067 7911.531185 7668.949708 6957.560092 9125.841029 7829.866103 6104.421135 8102.603561 1.035006972 1.019072498 1.304753538 0.976418397 0.94647969 0.858682032 1.126285022 0.966339528 0.753390079 1 12.98416984 -3.931865784 13.72709286 1.024568542 0.46478627 0 0.141090416 638010.2056 3386000.397 0.014926656 9848201.775 0.000116986 3.931865784 -0.559782272 KLPS(ph)DSGDLEALEGK ddPTM_HeLa_SAHA_4h_R1 1 KLPSDSGDLEALEGK 15 1 G3V5V3;O60524-4;O60524-5;O60524-3;O60524;O60524-2 G3V5V3 NEMF Nuclear export mediator factor NEMF 1 0 KLPS(0.912)DS(0.088)GDLEALEGK 71.434 0.013202 4650600 2823.4 2917.7 2142.7 2822.8 2896.5 3512.3 3039.5 3306.2 4595.3 2819.3 TRUE FALSE FALSE 3120.378166 3012.235394 2434.695997 2877.439376 2674.570796 3213.03228 2697.48746 3221.632191 4563.320933 2940.85382 1.061044974 1.024272398 0.827887459 0.978436723 0.909453839 1.092550829 0.917246359 1.09547512 1.55169934 1 11.52201936 -10.34218677 22.32283541 0.999999598 1.006499902 0 0.193147198 147.3382099 481058.0345 0.132200201 0.011507028 4.55E-11 10.34218677 0.006500304 KLPVGFTFSFPCQQSK ddPTM_HeLa_SAHA_4h_R1 2 KLPVGFTFSFPCQQSK 16 1 P19367-4;P19367-2;P19367;P19367-3 P19367-4 HK1 Hexokinase-1 0 0 ; ; 228.51 5.89E-45 2749900 2007.14 1864.64 2043.58 2496.8 2399.45 1596.82 2883.2 1224.47 1034.84 1988.12 FALSE FALSE TRUE 2218.260194 1925.055559 2322.06844 2545.129174 2215.604659 1460.761953 2558.774748 1193.14983 1027.638464 2073.837583 1.069640271 0.92825763 1.119696383 1.227255787 1.068359778 0.704376256 1.233835653 0.575334269 0.495525046 1 11.0180872 -4.24509521 24.44952946 1.03578025 0.575333787 0.199448045 0.223536201 1524.749838 2280851.618 0.018375623 0.650398171 5.69E-05 4.24509521 -0.460446463 KLPVVSSVVK(ac)VK ddPTM_HeLa_SAHA_4h_R1 1 KLPVVSSVVKVK 12 2 Q6PJT7;Q6PJT7-5;H0YJA2;Q6PJT7-2;Q6PJT7-9;Q6PJT7-3;Q6PJT7-11;Q6PJT7-4;Q6PJT7-10;G3V256;G3V5I6 Q6PJT7 ZC3H14 Zinc finger CCCH domain-containing protein 14 0 1 KLPVVSSVVK(1)VK 128.21 0.00031721 1254900 888.42 954.37 1217.8 1578.8 1242.5 1274.6 1374.3 1085.9 1036.3 632.19 FALSE TRUE FALSE 981.8680918 985.2922142 1383.755442 1609.359957 1147.299918 1165.996909 1219.660147 1058.12425 1029.088304 659.4468048 1.488926908 1.494119324 2.098357945 2.440469717 1.739791459 1.768143997 1.849520141 1.604563466 1.560532702 1 9.365112477 -7.774686445 0.782075079 1.091868781 1.90279724 0.385784927 0.286981099 0.266817576 0.354510508 0.080984599 0.069225894 1.68E-08 7.774686445 0.81092846 KLPVY(ph)T(ph)RT(ph)GSGGQFIQR ddPTM_HeLa_SAHA_4h_R1 1 KLPVYTRTGSGGQFIQR 17 2 Q96MV8-2 Q96MV8-2 3 0 KLPVY(0.993)T(0.973)RT(0.517)GS(0.517)GGQFIQR 43.592 0.020602 1132000 136.98 0 0 0 62.289 0 0 0 0 0 TRUE FALSE FALSE 151.3881849 0 0 0 57.51643028 0 0 0 0 0 0 KLQANGPVAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 KLQANGPVAKK 11 2 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9;S4R3C2 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 ; KLQANGPVAK(1)K;KLQANGPVAK(1)K 157.38 2.09E-06 0 3931.1 3938.5 4005.4 5255 6217.9 6719.8 6184 6465.8 3655.1 3657.3 FALSE TRUE FALSE 4344.591135 4066.109984 4551.235053 5356.718124 5741.485845 6147.235235 5488.160045 6300.414198 3629.663862 3814.984101 1.138822868 1.065826194 1.192989258 1.404125936 1.504982902 1.611339673 1.438580057 1.6514916 0.951423064 1 11.89746133 -6.217268915 1.356378537 1.063043703 1.560852485 0.917836365 0.069987189 0.080966379 0.292665037 0.01132615 0.022079294 6.06E-07 6.217268915 0.497808782 KLQEES(ph)DLELAK ddPTM_HeLa_SAHA_4h_R1 1 KLQEESDLELAK 12 1 O75822-2;O75822;O75822-3 O75822-2 EIF3J Eukaryotic translation initiation factor 3 subunit J 1 0 KLQEES(1)DLELAK 62.237 0.023612 6060500 1529.9 2175.4 1827.7 3601.1 2930.7 1962.7 2388.7 3928 3025.6 2593.8 TRUE FALSE FALSE 1690.821901 2245.884387 2076.769438 3670.804498 2706.150399 1795.466918 2119.917189 3827.527448 3004.544603 2705.631412 0.624926919 0.830077733 0.767572933 1.356727484 1.000191817 0.663603664 0.78352032 1.414652207 1.110478164 1 11.4017496 KLS(ph)DASDERGEPDLASGSDVNGSTESFEMVIEEATIDSATK ddPTM_HeLa_SAHA_4h_R1 1 KLSDASDERGEPDLASGSDVNGSTESFEMVIEEATIDSATK 41 2 Q658Y4;E7ER68 Q658Y4 FAM91A1 Protein FAM91A1 1 0 KLS(0.334)DAS(0.334)DERGEPDLAS(0.066)GS(0.066)DVNGS(0.066)T(0.066)ES(0.066)FEMVIEEAT(0.001)IDSATK 40.907 0.015322 3541400 221.07 395.93 624.13 450.4 540.89 761.51 776.84 662.7 518.31 478.65 TRUE FALSE FALSE 244.3231569 408.7583918 709.1831861 459.1181433 499.4471251 696.6250639 689.4279187 645.7490936 514.7030385 499.286944 0.489344173 0.818684319 1.42039201 0.919547665 1.00032082 1.395239896 1.380825049 1.293342639 1.030876222 1 8.963725371 -6.857740025 6.689165912 0.754026802 1.222912031 0.44533379 0.211838662 0.148176512 8.826825377 0.039881075 0.052613721 1.39E-07 6.857740025 0.468885229 KLS(ph)GDQITLPTTVDYSSVPK ddPTM_HeLa_SAHA_4h_R1 2 KLSGDQITLPTTVDYSSVPK 20 1 E9PJ38;E9PND3;E9PN10;O00559;O00559-2 E9PJ38 EBAG9 Receptor-binding cancer antigen expressed on SiSo cells 1 0 KLS(0.996)GDQIT(0.004)LPTTVDYSSVPK;KLS(1)GDQITLPTTVDYSSVPK ; 80.477 0.0015715 39974000 7873 10925.6 9118 8760.6 11311.2 8790.3 11920.5 10777.9 6865.5 10464.6 TRUE FALSE FALSE 8701.118263 11279.59661 10360.55356 8930.174081 10444.5383 8041.316987 10579.17397 10502.21692 6817.722427 10915.78012 0.797113735 1.033329408 0.949135421 0.818097652 0.956829305 0.736669015 0.969163344 0.962113272 0.624574914 1 13.41412762 KLS(ph)GDQPAAR ddPTM_HeLa_SAHA_4h_R1 4 KLSGDQPAAR 10 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 KLS(1)GDQPAAR;KLS(1)GDQPAAR;KLS(1)GDQPAAR;KLS(1)GDQPAAR ;;; 91.307 0.0090228 1388380000 17673.4 19492.3 17721.8 22148.3 24991.8 28742.3 28156.8 28238.2 22062.9 21431.9 TRUE FALSE FALSE 19532.3693 20123.86331 20136.83461 22577.01237 23076.93368 26293.29434 24988.52276 27515.90773 21909.36248 22355.93409 0.873699538 0.90015757 0.900737787 1.00988902 1.032250927 1.176121482 1.117757936 1.230810022 0.980024471 1 14.44837021 -5.512222549 1.410416324 0.933105471 1.182619336 0.834838544 0.046437429 0.150522245 0.579756659 0.008854565 0.027395094 3.07E-06 5.512222549 0.249513864 KLS(ph)NPDIFSSTGK ddPTM_HeLa_SAHA_4h_R1 3 KLSNPDIFSSTGK 13 1 Q6P0Q8-2;Q6P0Q8 Q6P0Q8-2 MAST2 Microtubule-associated serine/threonine-protein kinase 2 1 0 KLS(1)NPDIFSSTGK;KLS(1)NPDIFSSTGK;KLS(1)NPDIFSSTGK ;; 89.669 0.0055761 19834700 16355.7 16285.3 15859.4 17875.5 18408.2 19362.9 18528.2 19171 17887 17575.9 TRUE FALSE FALSE 18076.06757 16812.95441 18020.63644 18221.50615 16997.76769 17713.07199 16443.35817 18680.63358 17762.52291 18333.68306 0.985948514 0.917052746 0.982925055 0.993881376 0.927133279 0.966149133 0.896893336 1.018924213 0.968846404 1 14.16220902 -7.485674213 15.42433149 0.993802776 0.956387289 0.098420454 0.035665082 5.867319872 2432.764326 0.005516624 0.006167412 3.27E-08 7.485674213 -0.037415488 KLS(ph)QS(ph)FALPVTGGTVVT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 KLSQSFALPVTGGTVVTPK 19 1 Q96C34-2;Q96C34 Q96C34-2 RUNDC1 RUN domain-containing protein 1 3 0 KLS(0.983)QS(0.981)FALPVT(0.048)GGT(0.094)VVT(0.894)PK 40.844 0.0086766 0 65.095 109.84 125.91 207.96 255.68 227.8 199.37 199.98 131.13 182.46 TRUE FALSE FALSE 71.94199077 113.3988881 143.0683591 211.9853665 236.0898536 208.3901584 176.9363629 194.8648012 130.2174557 190.3267435 0.377992023 0.595811634 0.751698665 1.113797055 1.24044498 1.094907392 0.929645302 1.02384351 0.684178446 1 7.572334484 -6.320248372 4.786102731 0.68973444 1.082175012 0.608704104 0.160202034 0.179036813 8.609976735 0.038271195 0.059630612 4.78E-07 6.320248372 0.392440572 KLS(ph)SERPSSDGEGVVENGITTCNGK ddPTM_HeLa_SAHA_4h_R1 1 KLSSERPSSDGEGVVENGITTCNGK 25 2 Q8N556;Q8N556-2 Q8N556 AFAP1 Actin filament-associated protein 1 1 0 KLS(0.272)S(0.272)ERPS(0.228)S(0.228)DGEGVVENGITTCNGK 45.011 0.01472 18196000 2158.7 1871.2 1781.7 1911 2335.8 2080.8 2132.6 2084.2 1823.7 1563.3 TRUE FALSE FALSE 2385.76197 1931.828108 2024.500797 1947.990168 2156.831509 1903.504134 1892.634235 2030.889182 1811.008723 1630.701514 1.463027998 1.184660768 1.241490721 1.194571877 1.322640281 1.167291572 1.160625792 1.245408289 1.110570333 1 10.67127702 -9.643970545 1.490340756 1.000692193 1.274107109 0.361040111 0.093927894 0.28839225 1.156206298 0.077106665 0.017659501 2.27E-10 9.643970545 0.273414916 KLS(ph)SSDAPAQDTGSSAAAVETDASR ddPTM_HeLa_SAHA_4h_R1 3 KLSSSDAPAQDTGSSAAAVETDASR 25 1 H0YHT2;A0A1B0GV47;Q7Z4S6-6;Q7Z4S6-3;Q7Z4S6-5;Q7Z4S6-2;Q7Z4S6;Q7Z4S6-4;H0YIM6 H0YHT2 KIF21A Kinesin-like protein KIF21A 1 0 KLS(0.333)S(0.333)S(0.333)DAPAQDTGSSAAAVETDASR;KLS(0.659)S(0.108)S(0.233)DAPAQDTGSSAAAVETDASR;KLS(0.605)S(0.198)S(0.198)DAPAQDTGSSAAAVETDASR ;; 165 5.70E-11 138839500 3576.26 4609.59 3587.47 3920.53 4914.62 4988.39 6295.05 5417.15 3683.26 3971.08 TRUE FALSE FALSE 3952.427435 4758.94374 4076.351729 3996.417527 4538.062877 4563.351108 5586.714406 5278.587147 3657.627894 4142.292693 0.95416421 1.148867087 0.984081047 0.964783955 1.095543752 1.101648639 1.348701026 1.274315346 0.882996004 1 12.01621378 -5.012861477 1.490458 0.992659618 1.328362508 0.730893261 0.073129819 0.149297506 0.589269488 0.009447732 0.048368669 9.71E-06 5.012861477 0.33570289 KLSDAS(ph)DERGEPDLASGSDVNGSTESFEMVIEEATIDSATK ddPTM_HeLa_SAHA_4h_R1 1 KLSDASDERGEPDLASGSDVNGSTESFEMVIEEATIDSATK 41 2 Q658Y4;E7ER68 Q658Y4 FAM91A1 Protein FAM91A1 1 0 KLS(0.313)DAS(0.345)DERGEPDLAS(0.068)GS(0.068)DVNGS(0.068)T(0.068)ES(0.068)FEMVIEEATIDSATK 48.503 0.0043657 3702000 217.04 236.52 195.43 251.08 316.2 241.53 272.26 223.77 271.14 231.58 TRUE FALSE FALSE 239.869263 244.1834032 222.0621826 255.9400165 291.9728243 220.9502852 241.6245883 218.0462874 269.2531147 241.5645471 0.992982066 1.010841227 0.919266446 1.059509847 1.208674153 0.914663546 1.000248551 0.902641923 1.114621818 1 7.916264925 -4.061219979 1.597436429 1.007187641 0.823066962 0.132719795 0.084406008 2.833262223 4.565303554 0.010833926 0.938792815 8.69E-05 4.061219979 -0.184120678 KLSGDQPAAR ddPTM_HeLa_SAHA_4h_R1 2 KLSGDQPAAR 10 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 0 0 ; ; 108.9 0.0017693 0 3322.8 3493 3133.6 4094.5 5059.8 5521.5 4884.5 5474.1 4428.6 3941.4 FALSE FALSE TRUE 3672.30735 3606.175492 3560.630689 4173.754968 4672.119217 5051.037137 4334.883205 5334.080448 4397.781012 4111.333043 0.893215731 0.877130472 0.866052604 1.015182892 1.136400084 1.228564333 1.054374131 1.297408989 1.069672772 1 12.00539053 -5.822654266 2.816494343 0.936080512 1.179424868 0.661538861 0.080738268 0.109469758 1.767242436 0.010965965 0.021954192 1.50E-06 5.822654266 0.243344356 KLSLGQY(ph)DNDAGGQLPFSK ddPTM_HeLa_SAHA_4h_R1 1 KLSLGQYDNDAGGQLPFSK 19 1 Q68CZ2;Q68CZ2-2;E9PCX8 Q68CZ2 TNS3 Tensin-3 1 0 KLS(0.327)LGQY(0.673)DNDAGGQLPFSK 81.157 0.0034889 53920000 2815 2628.1 3047.1 2801.9 3215.4 3247 3494.1 2970.5 2271.3 2870.4 TRUE FALSE FALSE 3111.094616 2713.252164 3462.342919 2856.134826 2969.036747 2970.337333 3100.934672 2894.518911 2255.493838 2994.156991 1.039055275 0.906182332 1.156366526 0.95390283 0.991610245 0.992044619 1.035662018 0.966722493 0.753298456 1 11.54793415 KLSSERPS(ph)SDGEGVVENGITTCNGK ddPTM_HeLa_SAHA_4h_R1 1 KLSSERPSSDGEGVVENGITTCNGK 25 2 Q8N556;Q8N556-2 Q8N556 AFAP1 Actin filament-associated protein 1 1 0 KLS(0.003)S(0.003)ERPS(0.497)S(0.497)DGEGVVENGITTCNGK 89.631 2.42E-05 10425000 900.41 719.22 731.48 1039.6 869.81 767.26 1083.1 668.57 852.02 528.12 TRUE FALSE FALSE 995.119255 742.5231999 831.162285 1059.722961 803.1653457 701.8851315 961.2267374 651.4689475 846.0907234 550.8898378 1.80638521 1.347861494 1.508763147 1.923656762 1.457941844 1.274093446 1.744861988 1.182575722 1.535861919 1 9.10562004 -9.494267157 1.214640067 0.997224749 1.562844873 0 0.277660213 0.336938891 0.882533072 0.159902322 0.03810268 3.20E-10 9.494267157 0.565620124 KLSSS(ph)DAPAQDTGSSAAAVETDASR ddPTM_HeLa_SAHA_4h_R1 1 KLSSSDAPAQDTGSSAAAVETDASR 25 1 H0YHT2;A0A1B0GV47;Q7Z4S6-6;Q7Z4S6-3;Q7Z4S6-5;Q7Z4S6-2;Q7Z4S6;Q7Z4S6-4;H0YIM6 H0YHT2 KIF21A Kinesin-like protein KIF21A 1 0 KLS(0.304)S(0.304)S(0.392)DAPAQDTGSSAAAVETDASR 97.243 7.87E-06 5496500 684.57 1219.3 922.14 1020.5 1080.6 1320.2 1334.3 1138.6 1034.6 1101.9 TRUE FALSE FALSE 756.5762135 1258.80612 1047.804437 1040.253253 997.8046615 1207.711533 1184.161052 1109.476261 1027.400134 1149.408302 0.658231033 1.095177509 0.911603331 0.905033705 0.868102884 1.050724561 1.03023534 0.965258611 0.893851326 1 10.16667566 -5.719553237 0.815211501 0.855723451 1.018849105 0.05679082 0.113838422 1.094627546 1.313162421 0.027022499 0.102999093 1.91E-06 5.719553237 0.163125654 KLSSSS(ph)EPY(ph)EEDEFNDDQSIKK ddPTM_HeLa_SAHA_4h_R1 1 KLSSSSEPYEEDEFNDDQSIKK 22 2 D6RAY8;Q9H4L7;Q9H4L7-2 D6RAY8 SMARCAD1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A containing DEAD/H box 1 2 0 KLS(0.324)S(0.147)S(0.149)S(0.41)EPY(0.969)EEDEFNDDQSIKK 77.357 0.0018583 14055000 1480 1314.3 1546.9 1627.9 1394.6 1741.2 1804.5 1836.4 1625.4 1782.7 TRUE FALSE FALSE 1635.67319 1356.884182 1757.703476 1659.410358 1287.746049 1592.839964 1601.452911 1789.427547 1614.088709 1859.560921 0.879601831 0.729679876 0.945225002 0.892366762 0.69250006 0.856567777 0.861199487 0.962284982 0.867994531 1 10.8607463 -8.639430953 0.769503712 0.99462744 0.847662598 0.046299961 0.089029119 0.530022607 0.630457975 0.040371488 0.017430772 2.29E-09 8.639430953 -0.146964842 KLSSWDQAET(ph)PGHT(ph)PSLR ddPTM_HeLa_SAHA_4h_R1 1 KLSSWDQAETPGHTPSLR 18 1 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 2 0 KLS(0.003)S(0.003)WDQAET(0.994)PGHT(0.815)PS(0.185)LR 73.279 0.0036314 15467000 2591.1 2350.5 2348 3297.3 3380.6 3131.7 2852.1 3456 2065.7 2817.3 TRUE FALSE FALSE 2863.643786 2426.657742 2667.973212 3361.124009 3121.579158 2864.861542 2531.174202 3367.600524 2051.324626 2938.767591 0.97443697 0.825739929 0.907854442 1.143718891 1.062206882 0.974851346 0.861304654 1.145922711 0.698022066 1 11.52099555 KLSSWDQAET(ph)PGHTPS(ph)LR ddPTM_HeLa_SAHA_4h_R1 1 KLSSWDQAETPGHTPSLR 18 1 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 2 0 KLSSWDQAET(1)PGHT(0.429)PS(0.571)LR 81.656 0.0022246 12649000 3133.1 2456.5 2291.3 3245.5 3685 3116.5 3098.1 3581.7 2563.2 3277.9 TRUE FALSE FALSE 3462.653833 2536.092212 2603.546431 3308.321346 3402.656096 2850.956667 2749.493634 3490.0853 2545.362483 3419.226311 1.012700979 0.741715225 0.761443144 0.96756431 0.995153812 0.833801687 0.804127421 1.020723691 0.744426444 1 11.7394542 -7.32817504 24.99982177 1.005997774 0.874448838 0 0.122524609 163.6527293 61305.41458 0.01552081 0.017748721 4.70E-08 7.32817504 -0.131548935 KLSVPT(ph)S(ph)DEEDEVPAPKPR ddPTM_HeLa_SAHA_4h_R1 2 KLSVPTSDEEDEVPAPKPR 19 2 Q8NE71;Q5STZ8;Q8NE71-2;F5GYK6 Q8NE71 ABCF1 ATP-binding cassette sub-family F member 1 2 0 KLS(0.363)VPT(0.818)S(0.818)DEEDEVPAPKPR;KLS(0.005)VPT(0.998)S(0.998)DEEDEVPAPKPR ; 125.41 0.00021283 21119300 5661.9 4278.5 3840.2 4518.2 4173.8 4714 5267.6 5244.1 4572.4 3977.4 TRUE FALSE FALSE 6257.44462 4417.126207 4363.522457 4605.656294 3854.004346 4312.34068 4674.875784 5109.963515 4540.580296 4148.885179 1.508223137 1.06465376 1.051733723 1.110094904 0.928925285 1.039397451 1.126778781 1.231647369 1.094409727 1 12.01850802 KLSVPT(ph)SDEEDEVPAPKPR ddPTM_HeLa_SAHA_4h_R1 1 KLSVPTSDEEDEVPAPKPR 19 2 Q8NE71;Q5STZ8;Q8NE71-2;F5GYK6 Q8NE71 ABCF1 ATP-binding cassette sub-family F member 1 1 0 KLS(0.017)VPT(0.491)S(0.491)DEEDEVPAPKPR 75.97 0.010204 16599000 2466.7 2100.2 1434.4 2483.9 2377.1 2431.9 2385.1 2722.5 2247.2 2092.3 TRUE FALSE FALSE 2726.158824 2168.247858 1629.872562 2531.979476 2194.967112 2224.688439 2116.722271 2652.862392 2231.561552 2182.509292 1.249093799 0.993465579 0.746788372 1.160123114 1.005708026 1.019325987 0.969857163 1.215510239 1.022475167 1 11.09177208 KLSVPTS(ph)DEEDEVPAPKPR ddPTM_HeLa_SAHA_4h_R1 3 KLSVPTSDEEDEVPAPKPR 19 2 Q8NE71;Q5STZ8;Q8NE71-2;F5GYK6 Q8NE71 ABCF1 ATP-binding cassette sub-family F member 1 1 0 KLS(0.002)VPT(0.184)S(0.814)DEEDEVPAPKPR;KLS(0.009)VPT(0.193)S(0.798)DEEDEVPAPKPR;KLS(0.005)VPT(0.38)S(0.616)DEEDEVPAPKPR ;; 73.735 0.0030273 59798000 7607.1 6556.8 5234 6764 7022 8175.2 7890.4 9525.3 7657.9 6756 TRUE FALSE FALSE 8407.249681 6769.244622 5947.262262 6894.927001 6483.975877 7478.626968 7002.551426 9281.656618 7604.60805 7047.284223 1.19297724 0.960546561 0.843908387 0.978380718 0.920067316 1.061206946 0.993652477 1.317054389 1.079083489 1 12.78285169 -4.255033004 23.99219727 1.04184979 1.317054612 0.446304783 0.096604999 396.7450836 1485755.848 0.0167718 0.207939072 5.56E-05 4.255033004 0.275204822 KLT(ph)FDPMT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 KLTFDPMTR 9 1 O95402 O95402 MED26 Mediator of RNA polymerase II transcription subunit 26 2 0 KLT(1)FDPMT(1)R 75.739 0.014356 8813500 1759.6 1680.6 1384.1 1280.5 1836 2148.1 1781.4 1658 1241.5 1593.9 TRUE FALSE FALSE 1944.682801 1735.052543 1572.71794 1305.285929 1695.326077 1965.069795 1580.952184 1615.590761 1232.8603 1662.620829 1.169649007 1.043564782 0.945927004 0.785077335 1.0196709 1.181910969 0.950879573 0.971713293 0.741516213 1 10.69924348 -6.949129797 6.096739463 1.081447421 0.978134032 0 0.145721323 0.281880276 23.49277985 0.018362065 0.024133644 1.12E-07 6.949129797 -0.103313389 KLT(ph)KNS(ph)EADGMFAY(ph)VFHDEFVASMIK ddPTM_HeLa_SAHA_4h_R1 1 KLTKNSEADGMFAYVFHDEFVASMIK 26 2 Q9HCM2-2;Q9HCM2-3;Q9HCM2 Q9HCM2-2 PLXNA4 Plexin-A4 3 0 KLT(1)KNS(0.999)EADGMFAY(0.988)VFHDEFVAS(0.013)MIK 45.784 0.010386 8676800 0 82.185 222.03 0 0 303.99 163.33 161.01 187.79 227.89 TRUE FALSE FALSE 0 84.84784792 252.2870921 0 0 278.0883418 144.9516785 156.8915973 186.4831541 237.7154532 0 0.3569303 1.061298661 0 0 1.169837039 0.609769691 0.659997469 0.78448057 1 7.893091881 -9.655784345 1.514993255 0.998342142 0.416157037 0.11885211 0.40500387 0.517050225 2.144457518 0.298114943 0.068006429 2.21E-10 9.655784345 -0.582185106 KLTS(ph)DEEGEPSGK ddPTM_HeLa_SAHA_4h_R1 3 KLTSDEEGEPSGK 13 1 Q8WVC0-2;Q8WVC0 Q8WVC0-2 LEO1 RNA polymerase-associated protein LEO1 1 0 KLT(0.004)S(0.995)DEEGEPS(0.001)GK;KLT(0.053)S(0.947)DEEGEPSGK;KLT(0.255)S(0.745)DEEGEPSGK ;; 174.24 4.45E-05 199631000 8814.3 8799.9 8151.6 9575.9 9706.7 10498.3 10448.6 10414.5 9807.7 9079.3 TRUE FALSE FALSE 9741.428515 9085.022534 9262.457596 9761.255391 8962.974743 9603.785778 9272.896029 10148.11217 9739.447417 9470.753056 1.028580141 0.959271399 0.978006452 1.030673626 0.946384589 1.014046689 0.979108628 1.071521146 1.028370961 1 13.20926343 KLY(ph)T(ph)IMNSFCRR ddPTM_HeLa_SAHA_4h_R1 1 KLYTIMNSFCRR 12 2 Q9NRR1 Q9NRR1 CYTL1 Cytokine-like protein 1 2 0 KLY(1)T(1)IMNSFCRR 60.641 0.017854 3516600 1272.7 1721.3 1568.2 3447 1610.9 1244.3 1878.2 2760.3 2156.2 1567.3 TRUE FALSE FALSE 1406.568425 1777.071249 1781.906129 3513.721669 1487.47319 1138.27864 1666.859993 2689.695523 2141.194829 1634.873973 0.860352815 1.086977515 1.089934856 2.149230905 0.909839666 0.696248554 1.019564823 1.645200527 1.309700236 1 10.67496371 -6.862070722 2.953341709 0.936293102 1.242954495 0.025682455 0.401754712 0.438448504 7.739005584 0.064444675 0.087377069 1.37E-07 6.862070722 0.306661393 KLYGDADYLEER ddPTM_HeLa_SAHA_4h_R1 2 KLYGDADYLEER 12 1 B4E1E0;P17812-2;P17812;A0A3B3IRI2 B4E1E0 CTPS1 CTP synthase;CTP synthase 1 0 0 ; ; 102.33 0.010578 33213000 5188.8 4175.5 4140.3 4559.1 5218.8 5193.4 5194.1 4072.6 3888.8 4216.4 FALSE FALSE TRUE 5734.581791 4310.78894 4704.518522 4647.347973 4818.936671 4750.893103 4609.646198 3968.428789 3861.737524 4398.189639 1.303850507 0.980128029 1.069648858 1.056650203 1.095663686 1.080192873 1.04807809 0.902286876 0.87802888 1 12.1026941 KMANSS(ph)PVLSK ddPTM_HeLa_SAHA_4h_R1 1 KMANSSPVLSK 11 1 Q9NXE8 Q9NXE8 CWC25 Pre-mRNA-splicing factor CWC25 homolog 1 0 KMANS(0.258)S(0.742)PVLSK 63.212 0.023788 13762000 3577.8 3684.6 3074.8 3326.2 3149.2 3674.2 3421.7 3720.3 3697.9 2764.9 TRUE FALSE FALSE 3954.12942 3803.983458 3493.817731 3390.583411 2907.908976 3361.13749 3036.681311 3625.140113 3672.166013 2884.10837 1.37100584 1.31894609 1.211403069 1.17560888 1.008252327 1.165399166 1.052901251 1.256936165 1.273241342 1 11.49390966 -5.98023341 24.62148328 1.195111117 1.115789265 0.140038327 0.113408486 530.8200832 661190.9224 0.023074425 0.041822097 1.05E-06 5.98023341 -0.079321852 KMEES(ph)DEEAVQAK ddPTM_HeLa_SAHA_4h_R1 4 KMEESDEEAVQAK 13 1 I3VM54;Q9Y2K7-3;Q9Y2K7;Q9Y2K7-4;Q9Y2K7-5;Q9Y2K7-2 I3VM54 KDM2A Lysine-specific demethylase 2A 1 0 KMEES(1)DEEAVQAK;KMEES(1)DEEAVQAK;KMEES(1)DEEAVQAK;KMEES(1)DEEAVQAK ;;; 145.7 1.81E-07 13754300 3788.39 2964.52 3139.49 3565.58 3916.16 4070.89 3990.8 4258.7 3324.83 3480.41 TRUE FALSE FALSE 4186.870242 3060.572393 3567.323347 3634.596957 3616.104667 3724.02727 3541.744681 4149.768621 3301.692237 3630.467508 1.153259252 0.843024318 0.982607155 1.001137443 0.996043804 1.02577072 0.975561597 1.143039736 0.909439963 1 11.82593963 KMEGHDGIEK ddPTM_HeLa_SAHA_4h_R1 1 KMEGHDGIEK 10 1 Q8TDB6 Q8TDB6 DTX3L E3 ubiquitin-protein ligase DTX3L 0 0 105.98 0.00795 9842500 1408.5 1549.5 1345.2 1411.3 1581.9 1885.9 1927.7 2083.6 1511.9 1658.5 FALSE FALSE TRUE 1556.652492 1599.704817 1528.51685 1438.617752 1460.695164 1725.21071 1710.790123 2030.304529 1501.378565 1730.006052 0.899795981 0.924681631 0.883532661 0.831568046 0.844329511 0.997228136 0.988892565 1.173582328 0.867845846 1 10.75656137 -4.141810571 1.565057879 0.930029194 1.317008553 0.65898573 0.056908584 0.852734395 1.543978682 0.009633072 0.548304545 7.21E-05 4.141810571 0.386979359 KMLGEDS(ph)DEEEEMDTSER ddPTM_HeLa_SAHA_4h_R1 3 KMLGEDSDEEEEMDTSER 18 1 H7C256;A0A087WWF4;A0A087X0M4;Q9BWU0 H7C256 SLC4A1AP Kanadaptin 1 0 KMLGEDS(0.998)DEEEEMDT(0.001)S(0.001)ER;KMLGEDS(0.998)DEEEEMDT(0.001)SER;KMLGEDS(0.984)DEEEEMDT(0.012)S(0.004)ER ;; 113.71 0.00048258 30591900 2727.03 2653.86 2437.98 2865.01 3168.74 3250.21 3029.05 3133.99 2937.29 2606.6 TRUE FALSE FALSE 3013.871527 2739.846805 2770.215218 2920.466411 2925.951826 2973.273823 2688.213322 3053.827074 2916.84916 2718.983282 1.108455336 1.007673281 1.018842314 1.074102379 1.076119829 1.093524128 0.988683284 1.123150368 1.07277201 1 11.40885157 -6.175816745 24.99999999 1.046348912 1.068059333 0.096065416 0.043636639 250.2959671 73077.1629 0.007721308 0.012804341 6.67E-07 6.175816745 0.021710421 KMQQNIQELEEQLEEEESAR ddPTM_HeLa_SAHA_4h_R1 4 KMQQNIQELEEQLEEEESAR 20 1 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ;;; ;;; 188.54 9.23E-14 19684500 5445.49 5748.86 5841.58 6333.97 6925.31 6721.8 5739.67 5572.97 5649.5 5445.28 FALSE FALSE TRUE 6018.271623 5935.126836 6637.640101 6456.573148 6394.694244 6149.064824 5093.827226 5430.421497 5610.18467 5680.052669 1.059545038 1.044907007 1.168587773 1.136710084 1.125816012 1.082571797 0.896792252 0.956051257 0.98769941 1 12.47168859 -4.762664424 24.99996757 1.05756446 0.926421731 0.492838736 0.058299746 23.46709187 478957.0086 0.009355255 0.030544706 1.73E-05 4.762664424 -0.131142729 KMS(ph)GGSTMSSGGGNTNNSNSK ddPTM_HeLa_SAHA_4h_R1 4 KMSGGSTMSSGGGNTNNSNSK 21 1 A0A6E1WJ75;Q86U70-3;Q86U70-2;Q86U70 A0A6E1WJ75 LDB1 LIM domain-binding protein 1 1 0 KMS(0.368)GGS(0.293)T(0.328)MS(0.006)S(0.006)GGGNTNNSNSK;KMS(0.795)GGS(0.09)T(0.112)MS(0.002)SGGGNTNNSNSK;KMS(0.605)GGS(0.098)T(0.287)MS(0.009)S(0.001)GGGNT(0.001)NNSNSK;KMS(0.58)GGS(0.067)T(0.353)MSSGGGNTNNSNSK ;;; 151.6 1.90E-06 57635500 6301.15 6727.64 5776.35 6358.79 7090.18 7719.9 7816.95 7343.97 6354.58 6114.01 TRUE FALSE FALSE 6963.933868 6945.61995 6563.520896 6481.873575 6546.93194 7062.121089 6937.366213 7156.121881 6310.35796 6377.614892 1.091933895 1.089062301 1.029149769 1.016347598 1.026548647 1.107329497 1.087768128 1.122068673 0.989454219 1 12.63880127 KMSGGS(ph)TMSSGGGNTNNSNSK ddPTM_HeLa_SAHA_4h_R1 2 KMSGGSTMSSGGGNTNNSNSK 21 1 A0A6E1WJ75;Q86U70-3;Q86U70-2;Q86U70 A0A6E1WJ75 LDB1 LIM domain-binding protein 1 1 0 KMS(0.272)GGS(0.248)T(0.248)MS(0.216)S(0.012)GGGNT(0.005)NNSNSK;KMS(0.304)GGS(0.515)T(0.181)MSSGGGNTNNSNSK ; 125.99 9.47E-06 46333400 3773 3211.53 3317.68 3210.87 3163.03 4128.04 3634.42 3735.59 3348.89 3203.26 TRUE FALSE FALSE 4169.861451 3315.585679 3769.796153 3273.021032 2920.679325 3776.307768 3225.465496 3640.039017 3325.584802 3341.368215 1.247950295 0.992283839 1.128219313 0.979545151 0.874096818 1.1301681 0.965312797 1.089385779 0.995276362 1 11.70622326 -6.263613562 24.57256774 1.109474969 1.00472798 0.036338989 0.100220268 215.8350677 2439367.023 0.017387767 0.02738313 5.45E-07 6.263613562 -0.104746989 KMSQPGS(ph)PSPK ddPTM_HeLa_SAHA_4h_R1 1 KMSQPGSPSPK 11 1 Q14839-2;A0A2R8YD40;A0A2R8Y5J0;A0A2R8Y425;A0A2R8YFD8;A0A2R8YE38;F5GWX5;A0A2R8YDJ9;A0A2R8Y212;A0A2U3TZM0;A0A2R8Y4X2;A0A2R8YDW2;A0A2R8Y521;A0A0C4DGG9;A0A2R8Y5M9;Q14839;A0A2R8YFK9;A0A2R8Y8C1;A0A2R8Y445;A0A2R8YER1;A0A2R8Y7I0;A0A2R8Y7M9 Q14839-2 CHD4 Chromodomain-helicase-DNA-binding protein 4 1 0 KMS(0.001)QPGS(0.856)PS(0.143)PK 70.451 0.018591 10492000 6199.8 4912.8 4847.3 5571.8 5020.1 5616.3 6329.9 6553.5 4911.5 5436.7 TRUE FALSE FALSE 6851.92341 5071.977943 5507.8648 5679.650246 4635.461023 5137.759644 5617.642993 6385.870959 4877.320472 5671.102744 1.208217117 0.894354797 0.971215837 1.001507203 0.817382656 0.905954252 0.990573306 1.126036901 0.860030349 1 12.46941358 -7.24880269 24.92368132 1.098324752 0.95414262 0 0.116849499 709.8373302 1400031.94 0.01786168 0.021793304 5.64E-08 7.24880269 -0.144182132 KMSQPGSPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 KMSQPGSPSPK 11 1 Q14839-2;A0A2R8YD40;A0A2R8Y5J0;A0A2R8Y425;A0A2R8YFD8;A0A2R8YE38;F5GWX5;A0A2R8YDJ9;A0A2R8Y212;A0A2U3TZM0;A0A2R8Y4X2;A0A2R8YDW2;A0A2R8Y521;A0A0C4DGG9;A0A2R8Y5M9;Q14839;A0A2R8YFK9;A0A2R8Y8C1;A0A2R8Y445;A0A2R8YER1;A0A2R8Y7I0;A0A2R8Y7M9 Q14839-2 CHD4 Chromodomain-helicase-DNA-binding protein 4 1 0 KMSQPGS(0.09)PS(0.91)PK 67.648 0.020603 7900500 5361.9 4260.7 4023.9 4564 4755.5 5680.2 5600.1 5580.2 4587.1 5094.1 TRUE FALSE FALSE 5925.889243 4398.749476 4572.256136 4652.34282 4391.134617 5196.215004 4969.962009 5437.466564 4555.177998 5313.731581 1.11520297 0.827807993 0.860460501 0.875532147 0.82637494 0.97788436 0.935305432 1.023285893 0.857246537 1 12.37550964 -7.264533824 24.99906963 1.054401403 0.902135045 0.044373195 0.089861417 170.1923012 1374928.618 0.012486815 0.014602705 5.44E-08 7.264533824 -0.152266358 KMT(ph)REER ddPTM_HeLa_SAHA_4h_R1 1 KMTREER 7 2 Q8IZD2-4;Q8IZD2-8;Q8IZD2-6;Q8IZD2-5;Q8IZD2-7;Q8IZD2 Q8IZD2-4 KMT2E Histone-lysine N-methyltransferase 2E 1 0 KMT(1)REER 70.256 0.0080397 0 853.94 853.28 905.55 796.19 1065.9 1386 990.48 897.72 901.22 842.6 TRUE FALSE FALSE 943.7613272 880.9268319 1028.953638 811.6014088 984.2309723 1267.905003 879.0285836 874.7576223 894.9483366 878.9286096 1.073763349 1.002273475 1.170690801 0.923398556 1.11980764 1.442557437 1.000113745 0.995254464 1.018226426 1 9.779602178 -5.537169622 24.98072441 1.036659976 1.156354652 0.143530796 0.129349054 315.9986495 552370.6188 0.018177534 0.036366488 2.90E-06 5.537169622 0.119694676 KNDMDEPPPLDYGS(ph)GEDDGK ddPTM_HeLa_SAHA_4h_R1 2 KNDMDEPPPLDYGSGEDDGK 20 1 Q12873-2;Q12873;Q12873-3;A0A5F9ZHX5;H7C2H0 Q12873-2 CHD3 Chromodomain-helicase-DNA-binding protein 3 1 0 KNDMDEPPPLDY(0.048)GS(0.952)GEDDGK;KNDMDEPPPLDY(0.001)GS(0.999)GEDDGK ; 134.28 2.09E-05 18033300 3919.1 4432.7 3707.3 4465.7 4437.8 5893.2 4528.1 4975.9 6433.1 4227.9 TRUE FALSE FALSE 4331.328919 4576.322388 4212.511537 4552.140081 4097.776723 5391.066206 4018.586271 4848.623683 6388.331533 4410.18546 0.98211945 1.037671189 0.955177866 1.032187903 0.929161996 1.222412584 0.911205732 1.099414917 1.448540337 1 12.10662361 KNDMDEPPPLDYGS(ph)GEDDGKSDK ddPTM_HeLa_SAHA_4h_R1 1 KNDMDEPPPLDYGSGEDDGKSDK 23 2 Q12873-2;Q12873;Q12873-3;A0A5F9ZHX5;H7C2H0 Q12873-2 CHD3 Chromodomain-helicase-DNA-binding protein 3 1 0 KNDMDEPPPLDY(0.447)GS(0.553)GEDDGKSDK 87.062 0.00023896 7302300 617.99 663.03 446.99 658.14 727.1 751.88 499.14 628.58 937.52 753.27 TRUE FALSE FALSE 682.9930236 684.512607 507.9034694 670.8792514 671.3897551 687.815594 442.9754535 612.5018338 930.995722 785.7471561 0.869227484 0.871161418 0.646395555 0.853810601 0.854460306 0.875365044 0.563763356 0.779515177 1.184854078 1 9.617921335 -13.52287412 0.042149103 2.134605287 0.154531113 0.538894714 0.110431688 353.6647717 1.188151739 49.95990667 15.29755413 3.00E-14 13.52287412 -1.980074174 KNGFVVLK ddPTM_HeLa_SAHA_4h_R1 1 KNGFVVLK 8 1 I3L397;I3L504;P63241;P63241-2;F8WCJ1;C9J7B5;C9J4W5;Q9GZV4;Q6IS14 I3L397 EIF5A;EIF5A2;EIF5AL1 Eukaryotic translation initiation factor 5A;Eukaryotic translation initiation factor 5A-1;Eukaryotic translation initiation factor 5A-2;Eukaryotic translation initiation factor 5A-1-like 0 0 98.458 0.009757 0 1936.1 2345.6 2682.3 2446.9 2254.3 2486.6 2527.8 1381.2 1504.2 2073.6 FALSE FALSE TRUE 2139.747881 2421.598979 3047.829875 2494.263288 2081.576021 2274.727691 2243.365291 1345.870904 1493.73215 2163.003044 0.989248668 1.119554124 1.409073318 1.153148302 0.962354642 1.051652561 1.03715309 0.622223306 0.690582546 1 11.07881998 -4.261430593 6.556649242 1.045297861 0.614051491 0.359880511 0.169533093 0.085189884 22.56270344 0.019499491 0.162227272 5.48E-05 4.261430593 -0.43124637 KNGSTAVAESVAS(ph)PQK ddPTM_HeLa_SAHA_4h_R1 7 KNGSTAVAESVASPQK 16 1 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 KNGSTAVAESVAS(1)PQK;KNGSTAVAESVAS(1)PQK;KNGSTAVAES(0.005)VAS(0.995)PQK;KNGSTAVAESVAS(1)PQK;KNGSTAVAESVAS(1)PQK;KNGSTAVAESVAS(1)PQK;KNGSTAVAESVAS(1)PQK ;;;;;; 178.07 1.81E-09 179124000 32912.7 32735.4 30581.4 32789.9 32727.5 36303.6 35122.7 34045.8 34641 33850.5 TRUE FALSE FALSE 36374.60879 33796.04844 34748.87393 33424.59593 30219.92602 33210.32904 31170.60136 33174.95773 34399.93046 35309.96072 1.030151494 0.957125065 0.984109674 0.946605299 0.855847059 0.940537128 0.882770774 0.939535391 0.974227378 1 15.1077876 -6.434214535 1.275656106 1.012742551 0.90565187 0.578807937 0.031997853 0.163215363 0.527330104 0.004978749 0.008820671 3.68E-07 6.434214535 -0.10709068 KNQKPSQVNGAPGS(ph)PTEPAGQK ddPTM_HeLa_SAHA_4h_R1 1 KNQKPSQVNGAPGSPTEPAGQK 22 2 Q9BQG0;Q9BQG0-2;I3L1L3 Q9BQG0 MYBBP1A Myb-binding protein 1A 1 0 KNQKPSQVNGAPGS(0.93)PT(0.07)EPAGQK 84.107 0.00028132 19304000 4203.9 4599.2 3813.5 4639.7 4898.5 4452 5094.4 4927.3 4040.3 4232.4 TRUE FALSE FALSE 4646.08549 4748.217098 4333.18392 4729.508103 4523.177988 4072.664554 4521.164704 4801.266801 4012.183223 4414.879477 1.052369723 1.075503221 0.981495405 1.071265507 1.024530344 0.92248601 1.024074321 1.087519337 0.908786581 1 12.10815834 -5.500452998 24.96450916 1.029604842 1.006110817 0 0.060076345 2124.06785 2364527.929 0.006737045 0.014956446 3.16E-06 5.500452998 -0.023494025 KNQS(ph)SEDILR ddPTM_HeLa_SAHA_4h_R1 2 KNQSSEDILR 10 1 Q13625-2;Q13625;Q13625-3;H0Y847 Q13625-2 TP53BP2 Apoptosis-stimulating of p53 protein 2 1 0 KNQS(0.5)S(0.5)EDILR;KNQS(0.92)S(0.08)EDILR ; 141.34 0.0027765 37563000 2970.1 1710.58 1908.13 3495.1 3190.3 3009.6 3372 4287 2392.06 2175.2 TRUE FALSE FALSE 3282.508745 1766.003914 2168.160019 3562.752714 2945.859903 2753.165148 2992.573685 4177.344748 2375.41346 2268.983517 1.446686906 0.778323818 0.955564464 1.570197706 1.298317013 1.213391427 1.318904991 1.841064387 1.046906441 1 11.14783041 -1.367656265 0.945755045 1.188932285 199.9999956 0.449462744 0.224051019 441.5753403 1.647476825 0.038353407 188691.7781 0.042888784 1.367656265 198.8110633 KNS(ph)ITEISDNEDDLLEYHR ddPTM_HeLa_SAHA_4h_R1 1 KNSITEISDNEDDLLEYHR 19 1 Q86UU1-3;Q86UU1-2;Q86UU1 Q86UU1-3 PHLDB1 Pleckstrin homology-like domain family B member 1 1 0 KNS(0.951)IT(0.049)EISDNEDDLLEYHR 133.78 3.92E-05 3855700 261.64 600.02 420.48 496.15 511.48 563.92 618.7 541.56 491.09 502.08 TRUE FALSE FALSE 289.1604956 619.4610417 477.7808246 505.7537007 472.2905129 515.8708435 549.0822477 527.7076794 487.6724647 523.7271259 0.552120525 1.182793503 0.912270534 0.965681699 0.90178738 0.984999283 1.048412848 1.007600434 0.931157545 1 9.032671519 -7.253349086 24.98999513 0.788501358 0.993222637 0.24692688 0.132622768 677.9123943 2093995.599 0.029520975 0.035815743 5.58E-08 7.253349086 0.204721279 KNS(ph)TGSGHSAQELPTIR ddPTM_HeLa_SAHA_4h_R1 1 KNSTGSGHSAQELPTIR 17 1 I3L280;O94763-2;O94763-4;O94763-3;O94763 I3L280 URI1 Unconventional prefoldin RPB5 interactor 1 1 0 KNS(0.712)T(0.246)GS(0.04)GHS(0.002)AQELPTIR 75.611 0.006566 5011600 478.68 634.54 267.98 551.71 949.85 1146.7 889.13 1053 724.23 667.62 TRUE FALSE FALSE 529.0297587 655.0995123 304.4989188 562.3891448 877.0726982 1048.994709 789.0827523 1026.065785 719.1900245 696.4043655 0.759658878 0.940688406 0.437244414 0.8075612 1.259430213 1.506301168 1.133081284 1.47337644 1.032719007 1 9.443781436 -5.698342246 4.94609 0.845889415 1.350055358 0.656744506 0.182402205 0.101818526 4.886698473 0.027050414 0.054498115 2.00E-06 5.698342246 0.504165943 KNSS(ph)QDDLFPTSDTPR ddPTM_HeLa_SAHA_4h_R1 1 KNSSQDDLFPTSDTPR 16 1 Q9H6T3-3;Q9H6T3-2;Q9H6T3 Q9H6T3-3 RPAP3 RNA polymerase II-associated protein 3 1 0 KNS(0.16)S(0.556)QDDLFPT(0.142)S(0.142)DTPR 102.63 0.008094 9260400 936.05 631.25 569.6 640.25 939.54 616.3 733.61 1082.6 833.41 848.43 TRUE FALSE FALSE 1034.508034 651.7029142 647.2221217 652.6429646 867.5526482 563.7877728 651.062272 1054.90866 827.610232 885.0099694 1.168922464 0.736379178 0.731316193 0.73744137 0.980274435 0.637041155 0.735655297 1.191973759 0.93514227 1 9.789549897 -7.259492783 24.99884207 1.079768942 0.810460482 0.252349087 0.16197877 129.4756221 1662771.784 0.025976506 0.030960541 5.50E-08 7.259492783 -0.26930846 KNSSTDQGS(ph)DEEGSLQK ddPTM_HeLa_SAHA_4h_R1 4 KNSSTDQGSDEEGSLQK 17 1 Q12789-3;Q12789 Q12789-3 GTF3C1 General transcription factor 3C polypeptide 1 1 0 KNS(0.009)S(0.009)T(0.009)DQGS(0.97)DEEGS(0.002)LQK;KNSSTDQGS(0.998)DEEGS(0.002)LQK;KNSSTDQGS(1)DEEGSLQK;KNSSTDQGS(0.987)DEEGS(0.013)LQK ;;; 111.57 0.0007239 28423000 8206.6 9536 6827.1 7752.6 8612.5 9681.1 7070.5 7424.7 10697.6 9182.2 TRUE FALSE FALSE 9069.807841 9844.972657 7757.461634 7902.662783 7952.612111 8856.215816 6274.908731 7234.786925 10623.15453 9578.089579 0.946932869 1.027863915 0.809917424 0.825077143 0.8302921 0.924632803 0.655131556 0.755347595 1.109109958 1 13.22552221 -4.363055361 0.269889877 1.006625171 0.48751724 0.634682411 0.079042027 3.916248588 0.229498895 0.040640674 0.672758719 4.33E-05 4.363055361 -0.519107931 KNSTDLDSAPEDPT(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 KNSTDLDSAPEDPTSPK 17 1 I3L2J0;A0A0A0MQR4;Q96RK0;I3L373;I3L135;I3L1Q4 I3L2J0 CIC Protein capicua homolog 1 0 KNSTDLDSAPEDPT(0.635)S(0.365)PK 94.325 0.0054186 6829600 3491.7 3588.2 3231.4 3555 4076.6 3680.3 2557.5 2658.2 5097.1 3684.4 TRUE FALSE FALSE 3858.973026 3704.460034 3671.758364 3623.812166 3764.251789 3366.717735 2269.723369 2590.207093 5061.628866 3843.252515 1.004090419 0.963886713 0.95537786 0.942902438 0.979444305 0.876007424 0.590573573 0.673962245 1.317016992 1 11.90811205 -4.913878068 3.188402817 0.988881198 0.62996999 0.662950794 0.108341601 0.036585642 0.736515985 0.004856626 0.017105223 1.22E-05 4.913878068 -0.358911208 KNTFTAWS(ph)DEESDYEIDDRDVNK ddPTM_HeLa_SAHA_4h_R1 2 KNTFTAWSDEESDYEIDDRDVNK 23 2 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50 Q6PKG0 LARP1 La-related protein 1 1 0 KNTFT(0.003)AWS(0.676)DEES(0.319)DY(0.001)EIDDRDVNK;KNT(0.001)FT(0.008)AWS(0.963)DEES(0.028)DYEIDDRDVNK ; 122.44 6.52E-06 57190000 730.47 893.82 736.32 861.43 808.54 898.6 932.95 897.32 1029.22 709.69 TRUE FALSE FALSE 807.3041861 922.7803545 836.661855 878.1042233 746.5898399 822.0342246 827.9720106 874.3678537 1022.057574 740.288209 1.090526874 1.246514997 1.130183954 1.186165351 1.008512402 1.110424581 1.118445493 1.181118169 1.380621171 1 9.53194324 -8.281327952 1.053933789 1.01521505 1.133325441 0 0.130191293 0.329481711 0.758635191 0.018643269 0.012753866 5.23E-09 8.281327952 0.118110391 KNTFTAWSDEES(ph)DY(ph)EIDDRDVNK ddPTM_HeLa_SAHA_4h_R1 1 KNTFTAWSDEESDYEIDDRDVNK 23 2 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50 Q6PKG0 LARP1 La-related protein 1 2 0 KNT(0.004)FT(0.007)AWS(0.321)DEES(0.679)DY(0.988)EIDDRDVNK 66.36 0.0054878 32677000 773.69 831.99 765.59 957.34 941.45 988.29 1001.6 847.87 706.96 750.21 TRUE FALSE FALSE 855.070264 858.9470219 869.9206182 975.8707 869.3163044 904.082132 888.8973319 826.1827131 702.0402078 782.5552245 1.092664437 1.097618411 1.111641186 1.247031097 1.110868955 1.155294992 1.135890866 1.055750044 0.897112671 1 9.612048756 -8.275685749 0.580170921 1.002662064 1.138820581 0.563932575 0.058497917 0.433257948 0.320574562 0.026232312 0.013158011 5.30E-09 8.275685749 0.136158517 KNVYS(ph)ANQK ddPTM_HeLa_SAHA_4h_R1 1 KNVYSANQK 9 1 Q99541 Q99541 PLIN2 Perilipin-2 1 0 KNVY(0.125)S(0.875)ANQK 101.6 0.0038159 0 1165.3 1463.1 1043.5 1241 1620.8 1617.4 1725.8 1379.1 1559.1 1417.6 TRUE FALSE FALSE 1287.871601 1510.5054 1185.702746 1265.02135 1496.614654 1479.588421 1531.608442 1343.824619 1548.250096 1478.719674 0.870936949 1.021495438 0.801844168 0.855484222 1.012101672 1.0005875 1.035766595 0.908775776 1.047020692 1 10.53013287 -5.721393573 24.99999123 0.927847339 0.993432093 0.107434493 0.078669534 240.9168573 150399.5648 0.011156786 0.02231335 1.90E-06 5.721393573 0.065584754 KPAAAAAPGTAEK ddPTM_HeLa_SAHA_4h_R1 1 KPAAAAAPGTAEK 13 1 P50454;E9PPV6;E9PR70;E9PJH8;E9PIG2;E9PRS3;E9PNX1;E9PK86;E9PMI5;E9PQ34 P50454 SERPINH1 Serpin H1 0 0 97.631 0.0059946 1111700 2076.5 2189.7 1729.5 2013.5 2222.6 2596.5 1971.6 2286.7 2487.5 1805.4 FALSE FALSE TRUE 2294.915797 2260.647717 1965.187253 2052.474204 2052.304868 2375.263592 1749.750379 2228.209525 2470.189285 1883.239629 1.218599992 1.200403646 1.043514178 1.089863537 1.08977362 1.261264661 0.929117225 1.18317897 1.311670191 1 10.87900087 -9.600419001 1.424937118 1.000617095 1.135547978 0 0.133202525 0.498611857 1.829888028 0.063137272 0.014887757 2.51E-10 9.600419001 0.134930884 KPAAAGVK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 KPAAAGVKK 9 2 P16401 P16401 HIST1H1B Histone H1.5 0 1 KPAAAGVK(1)K 126.07 9.65E-06 0 945.34 836.25 3035.9 1682.8 1298.2 586.48 4470.9 900.21 137.02 590.51 FALSE TRUE FALSE 1044.775199 863.3450487 3449.616642 1715.373027 1198.732196 536.5086046 3967.822565 877.1839317 136.0664667 615.969776 1.696146855 1.40160294 5.600301794 2.784833111 1.94608931 0.870998262 6.441586454 1.424069761 0.22089796 1 9.266715753 -6.941616598 24.99985368 1.340306825 3.177046728 0.268317684 1.675851049 84.15909113 36036.60673 0.249982524 0.328541397 1.14E-07 6.941616598 1.836739903 GGPGK(ac)MDK ddPTM_HeLa_SAHA_4h_R1 1 GGPGKMDK 8 1 H7BY36;A0A0D9SFL3;B0QYK0;C9JGE3;Q01844-2;Q01844-6;Q01844-3;Q01844;Q01844-5 H7BY36 EWSR1 RNA-binding protein EWS 0 1 GGPGK(1)MDK 110.41 0.0046787 6138500 1845.2 2349.9 2466.5 4078.9 5009.6 6406.6 5723.3 6102 2398.5 1794.6 FALSE TRUE FALSE 2039.286602 2426.038302 2802.621775 4157.853008 4625.76553 5860.721637 5079.299221 5945.919676 2381.808643 1871.973989 1.089377638 1.295978639 1.497147819 2.221106187 2.471062931 3.130770872 2.713338568 3.176283277 1.272351356 1 10.87034467 -6.087434263 0.97011744 1.030525419 3.038844121 0.961588645 0.158585534 0.049795896 0.092071566 0.021695718 0.052925691 8.18E-07 6.087434263 2.008318702 up KPAATSPLS(ph)PMANGGR ddPTM_HeLa_SAHA_4h_R1 1 KPAATSPLSPMANGGR 16 1 Q86UU1-3;Q86UU1-2;Q86UU1;A0A087WXY7 Q86UU1-3 PHLDB1 Pleckstrin homology-like domain family B member 1 1 0 KPAAT(0.004)S(0.342)PLS(0.653)PMANGGR 59.996 0.020158 4073600 1371.6 1427 1401 1585.8 1762.5 1883.1 1433.4 1735.6 1717.1 1810.3 TRUE FALSE FALSE 1515.871181 1473.235736 1591.920984 1616.495452 1627.457631 1722.649286 1272.110059 1691.205865 1705.150561 1888.350892 0.802748677 0.78017054 0.843021808 0.856035527 0.861840687 0.912250627 0.673661905 0.895599368 0.902983957 1 10.88291116 -9.247372249 0.88753163 1.004492672 0.825853834 0.295803025 0.070014115 0.390872898 0.531712165 0.046746568 0.011673625 5.66E-10 9.247372249 -0.178638838 KPAEK(ac)KPTTEEK ddPTM_HeLa_SAHA_4h_R1 1 KPAEKKPTTEEK 12 3 P36578;H3BM89 P36578 RPL4 60S ribosomal protein L4 0 1 KPAEK(0.955)K(0.045)PTTEEK 97.463 0.0073299 1653300 701.65 884.65 526.34 909.95 1371 1413.9 936.09 914.69 1037.1 669.06 FALSE TRUE FALSE 775.4527663 913.3132404 598.0668741 927.5633981 1265.954276 1293.427766 830.7586895 891.2935543 1029.882737 697.9064509 1.111112765 1.308647082 0.856944184 1.329065517 1.813931186 1.853296762 1.190358233 1.277096025 1.475674477 1 9.446889857 -6.004276384 24.29679168 1.065031732 1.536918697 0.311004308 0.253391376 80.82285746 459212.8361 0.033029525 0.058808417 9.90E-07 6.004276384 0.471886966 AGEK(ac)GSHEEEPVK ddPTM_HeLa_SAHA_4h_R1 1 AGEKGSHEEEPVK 13 1 C9JQA7;C9J8X5;Q9P0W2-3;Q9P0W2 C9JQA7 HMG20B SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related 0 1 AGEK(1)GSHEEEPVK 90.689 0.0044274 0 121.95 222.05 245.9 429.75 323.43 514.72 622.88 488.03 275.34 173.71 FALSE TRUE FALSE 134.7772605 229.2445657 279.4099714 438.0684327 298.6488633 470.8629603 552.7919031 475.5468993 273.4238865 181.1994882 0.743805967 1.265150183 1.54200199 2.417603035 1.64817719 2.598588798 3.050736558 2.624438424 1.508966108 1 7.50143507 -6.085541735 0.734019506 0.858877215 2.843440805 0.758119862 0.363515596 0.180270425 0.185226272 0.061910656 0.177911303 8.21E-07 6.085541735 1.98456359 up KPATPAEDDEDDDIDLFGS(ph)DNEEEDKEAAQLR ddPTM_HeLa_SAHA_4h_R1 6 KPATPAEDDEDDDIDLFGSDNEEEDKEAAQLR 32 2 E9PQ49;E9PK01;P29692;E9PL71;P29692-3;E9PI39;E9PQZ1;P29692-2;A0A087X1X7;E9PRY8;P29692-4;H0YE72 E9PQ49 EEF1D Elongation factor 1-delta 1 0 KPATPAEDDEDDDIDLFGS(1)DNEEEDKEAAQLR;KPATPAEDDEDDDIDLFGS(1)DNEEEDKEAAQLR;KPATPAEDDEDDDIDLFGS(1)DNEEEDKEAAQLR;KPATPAEDDEDDDIDLFGS(1)DNEEEDKEAAQLR;KPATPAEDDEDDDIDLFGS(1)DNEEEDKEAAQLR;KPATPAEDDEDDDIDLFGS(1)DNEEEDKEAAQLR ;;;;; 135.17 9.08E-15 352107000 10504.2 15639.9 11452 13751.4 15021.7 18123.6 15243.7 12311.7 21117.7 15678.6 TRUE FALSE FALSE 11609.07995 16146.64302 13012.61892 14017.57823 13870.74059 16579.36732 13528.43876 11996.78454 20970.74021 16354.58118 0.709836579 0.987285633 0.795655895 0.857104079 0.848125699 1.013744537 0.827195671 0.733542756 1.2822548 1 13.99740719 -9.664937394 1.522845467 0.999782302 0.832109694 0.354837649 0.129755442 0.415577647 1.738048589 0.069534635 0.015687516 2.16E-10 9.664937394 -0.167672608 KPATPAEDDEDDDIDLFGS(ph)DNEEEDKEAAQLREER ddPTM_HeLa_SAHA_4h_R1 3 KPATPAEDDEDDDIDLFGSDNEEEDKEAAQLREER 35 3 E9PQ49;E9PK01;P29692;E9PL71;P29692-3;E9PI39;E9PQZ1;P29692-2;A0A087X1X7;E9PRY8;P29692-4;H0YE72 E9PQ49 EEF1D Elongation factor 1-delta 1 0 KPATPAEDDEDDDIDLFGS(1)DNEEEDKEAAQLREER;KPATPAEDDEDDDIDLFGS(1)DNEEEDKEAAQLREER;KPATPAEDDEDDDIDLFGS(1)DNEEEDKEAAQLREER ;; 77.301 1.04E-07 113102000 3935.29 3498.81 3455.75 3741.76 3982.57 3938.21 4609.93 4363.97 3073.82 3754.47 TRUE FALSE FALSE 4349.221858 3612.17374 3926.681613 3814.187175 3677.426347 3602.652352 4091.208544 4252.345966 3052.429036 3916.343576 1.110531233 0.92233321 1.002639717 0.973915363 0.938994824 0.919902016 1.044650058 1.085794922 0.779407878 1 11.93529162 -7.262348224 24.9988956 1.052195303 0.982492013 0 0.102461511 97.24373941 2674804.462 0.010864924 0.012799814 5.47E-08 7.262348224 -0.06970329 KPDAEVLTVES(ph)PEEEAMTK ddPTM_HeLa_SAHA_4h_R1 2 KPDAEVLTVESPEEEAMTK 19 1 Q8IVF2;Q8IVF2-3;Q8IVF2-2 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 KPDAEVLTVES(1)PEEEAMTK;KPDAEVLTVES(1)PEEEAMTK ; 167.34 8.23E-07 13056800 3443.5 4851.9 4188.4 3672.6 4966.1 6319 5718.1 5398.1 4234.5 4024.6 TRUE FALSE FALSE 3805.703129 5009.104743 4759.17334 3743.688484 4585.598491 5780.58565 5074.684339 5260.024418 4205.03177 4198.120202 0.906525527 1.193178018 1.133643896 0.891753524 1.092298045 1.376946198 1.208799199 1.252947549 1.001646348 1 12.03552776 -5.53262468 0.704074069 0.969162199 1.31112698 0.433866923 0.11209309 0.596352094 0.473357501 0.022205403 0.116934259 2.93E-06 5.53262468 0.341964782 KPDGVKESTES(ph)SNTTIEDEDVK ddPTM_HeLa_SAHA_4h_R1 1 KPDGVKESTESSNTTIEDEDVK 22 2 H0Y9J2;D6R938;Q13557-8;Q13557-12;Q13557 H0Y9J2 CAMK2D Calcium/calmodulin-dependent protein kinase type II subunit delta 1 0 KPDGVKES(0.135)T(0.158)ES(0.22)S(0.22)NT(0.22)T(0.047)IEDEDVK 40.012 0.023697 12658000 3299.6 3926.6 3211.2 3511.4 4245.5 3532 4643.5 4955.2 5037.7 4345.4 TRUE FALSE FALSE 3646.667067 4053.824416 3648.805613 3579.368225 3920.210707 3231.05373 4121.001159 4828.453159 5002.642236 4532.75146 0.804515116 0.894340767 0.804986915 0.789667878 0.864863371 0.712823934 0.909161068 1.065236689 1.103665683 1 12.14617134 -9.384027182 1.027051405 1.002945848 0.84690342 0.371056657 0.095572346 0.569568375 1.041973619 0.066560194 0.015839604 4.13E-10 9.384027182 -0.156042428 KPEDS(ph)PSDDDVLIVYELTPTAEQK ddPTM_HeLa_SAHA_4h_R1 1 KPEDSPSDDDVLIVYELTPTAEQK 24 1 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 1 0 KPEDS(0.975)PS(0.025)DDDVLIVYELTPTAEQK 121.38 1.62E-06 5174300 2026.1 2688.2 2456.9 3409.4 3334.2 3285.7 3019 2998.5 3101.3 3119.7 TRUE FALSE FALSE 2239.214494 2775.299444 2791.713537 3475.393867 3078.734316 3005.739875 2679.294174 2921.802712 3079.717801 3254.205534 0.688098668 0.852834713 0.857878677 1.067969995 0.946078631 0.923647828 0.823332806 0.897854386 0.94638085 1 11.66808966 -6.486419309 24.81716003 0.848928382 0.929777945 0.080530257 0.094842548 1106.582354 753227.492 0.019834148 0.030290301 3.26E-07 6.486419309 0.080849563 KPEDWDEEMDGEWEPPVIQNPEYK ddPTM_HeLa_SAHA_4h_R1 4 KPEDWDEEMDGEWEPPVIQNPEYK 24 1 P27797;K7EJB9;K7EL50 P27797 CALR Calreticulin 0 0 ;;; ;;; 146.06 1.16E-06 73644000 6179.35 7076.6 6287.7 7338 7717.3 10039.9 8384 7294.1 9444.3 7319.5 FALSE FALSE TRUE 6829.322385 7305.886483 7144.555011 7480.037601 7126.002141 9184.444037 7440.610255 7107.527484 9378.576347 7635.079466 0.894466445 0.956884145 0.935753851 0.979693484 0.9333239 1.202927105 0.974529511 0.930904192 1.228353469 1 12.89842746 KPEENPASK(ac)FSSASK ddPTM_HeLa_SAHA_4h_R1 2 KPEENPASKFSSASK 15 2 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 0 1 ; KPEENPASK(1)FSSASK;KPEENPASK(1)FSSASK 173.51 2.75E-11 14321700 2885.2 3177.6 3524.1 4650.8 4557.3 4382.6 4698 5106.9 1937.07 1685.84 FALSE TRUE FALSE 3188.678574 3280.556325 4004.345995 4740.822959 4208.120659 4009.177824 4169.368676 4976.272893 1923.589772 1758.524813 1.813269026 1.865516086 2.2771052 2.695909051 2.392983385 2.27985286 2.370946742 2.829799646 1.093865585 1 10.78014998 -7.854764505 0.345518301 0.854150707 2.663533943 0.906074915 0.180159828 0.282047058 0.095519917 0.202174606 0.132662042 1.40E-08 7.854764505 1.809383236 KPEESLGK(ac)GAAQENGAPECSPR ddPTM_HeLa_SAHA_4h_R1 2 KPEESLGKGAAQENGAPECSPR 22 2 Q6IE81-2;Q6IE81;Q6IE81-3 Q6IE81-2 JADE1 Protein Jade-1 0 1 ; KPEESLGK(1)GAAQENGAPECSPR;KPEESLGK(1)GAAQENGAPECSPR 205.33 1.07E-33 18694600 5004.5 4787.1 3866.7 4853.3 4880.2 4807.3 5107.5 4720.8 4641.9 4854.4 FALSE TRUE FALSE 5530.896271 4942.205181 4393.633739 4947.242639 4506.28013 4397.690995 4532.790658 4600.048772 4609.59664 5063.696941 1.092264473 0.9760073 0.867673123 0.977002119 0.889919002 0.868474367 0.895154412 0.908436825 0.910322378 1 12.30597535 -6.988389698 4.815266346 1.043412574 0.902880469 0.344702883 0.055005637 0.07768837 4.871883818 0.007163208 0.009265433 1.03E-07 6.988389698 -0.140532105 KPGGFDISLFYR ddPTM_HeLa_SAHA_4h_R1 2 KPGGFDISLFYR 12 1 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 0 ; ; 82.705 0.01588 3112690 1304.54 997.84 1745.67 1672.53 1113.94 459.56 1520.36 110.89 402.69 684.13 FALSE FALSE TRUE 1441.757503 1030.170671 1983.560817 1704.904237 1028.590158 420.4029026 1349.285091 108.0535944 399.8876475 713.6261924 2.020325933 1.443571833 2.779551588 2.389071835 1.44135707 0.589108005 1.890744911 0.151414838 0.560360104 1 9.479024758 -5.509724127 23.55813939 1.665120072 0.984584231 0.198815972 0.726353753 414.3070304 741965.0553 0.102081152 0.218748412 3.09E-06 5.509724127 -0.680535842 KPGPPLS(ph)PEIR ddPTM_HeLa_SAHA_4h_R1 2 KPGPPLSPEIR 11 1 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 KPGPPLS(1)PEIR;KPGPPLS(1)PEIR ; 63.682 0.02345 46017000 4248.1 4839.8 4205.3 5241.1 5096.9 7146.4 5831.5 5143.1 5379.6 5255.3 TRUE FALSE FALSE 4694.934649 4996.612696 4778.376384 5342.549069 4706.376623 6537.486515 5175.324272 5011.546949 5342.162926 5481.881702 0.856445816 0.911477658 0.871667184 0.974583065 0.858533051 1.192562494 0.944078065 0.914201951 0.974512625 1 12.42045548 KPGPSGPSES(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 KPGPSGPSESPK 12 1 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 KPGPSGPS(0.016)ES(0.984)PK;KPGPSGPS(0.035)ES(0.965)PK;KPGPSGPS(0.059)ES(0.941)PK ;; 115.58 0.0010399 343749300 15132.8 15965.4 13742.6 15908.9 15990 18531.7 16267 15400.7 18402 16025.4 TRUE FALSE FALSE 16724.53734 16482.68944 15615.36996 16216.83976 14764.84965 16952.6949 14436.59435 15006.77239 18273.93898 16716.33342 1.000490772 0.986023012 0.93413846 0.970119425 0.883258863 1.014139553 0.863622063 0.8977311 1.093178661 1 14.02897082 -4.883057604 0.332477371 1.006881698 0.832707811 0.479959548 0.047958976 2.719511605 0.290003709 0.014770133 0.180318461 1.31E-05 4.883057604 -0.174173887 KPIDSLRDS(ph)R ddPTM_HeLa_SAHA_4h_R1 3 KPIDSLRDSR 10 2 Q9UQ35;Q9UQ35-2;I3L4U6 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 KPIDS(0.001)LRDS(0.999)R;KPIDSLRDS(1)R;KPIDS(0.001)LRDS(0.999)R ;; 88.163 0.014112 28618700 5247.5 6383.2 5544.7 6732 7117.6 8236.2 6199.6 5829.9 9032.4 7434.5 TRUE FALSE FALSE 5799.456126 6590.019868 6300.30284 6862.307595 6572.251026 7534.429424 5502.004692 5680.7796 8969.542793 7755.037679 0.747830812 0.849772772 0.812414214 0.88488385 0.847481508 0.97155291 0.709474914 0.732527659 1.156608538 1 12.92091808 -9.457545599 1.157800796 1.001335369 0.81728453 0.52958912 0.090312527 0.370467931 0.878020627 0.055223693 0.013273506 3.49E-10 9.457545599 -0.184050839 KPIETGS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 KPIETGSPK 9 1 Q5T757;Q05519-2;Q05519 Q5T757 SRSF11 Serine/arginine-rich splicing factor 11 1 0 KPIET(0.297)GS(0.703)PK 77.204 0.015783 423070000 5634.7 5209.4 5694.2 8305.3 5730 9411.3 9560.2 8817 6233.9 8714.1 TRUE FALSE FALSE 6227.383599 5378.187978 6470.175922 8466.061091 5290.968638 8609.404293 8484.461135 8591.473907 6190.517782 9089.807497 0.685095213 0.591672374 0.711805605 0.93137958 0.582077084 0.947149243 0.93340383 0.945176662 0.681039481 1 13.15003403 KPISDNSFS(ph)SDEEQSTGPIK ddPTM_HeLa_SAHA_4h_R1 1 KPISDNSFSSDEEQSTGPIK 20 1 O60293-2;O60293 O60293-2 ZFC3H1 Zinc finger C3H1 domain-containing protein 1 0 KPIS(0.001)DNS(0.002)FS(0.497)S(0.497)DEEQS(0.002)T(0.001)GPIK 64.68 0.0084186 0 319.85 363.97 222.46 300.02 330.69 287.72 339.99 391.31 363.12 362.56 TRUE FALSE FALSE 353.4932905 375.7628668 252.7756903 305.8273209 305.3526036 263.2046373 301.7334304 381.3008568 360.5930184 378.1917359 0.934693323 0.993577678 0.66837973 0.808656805 0.807401576 0.695955549 0.797831898 1.008221018 0.95346615 1 8.562974028 -6.784487388 24.99843235 0.970130347 0.79405387 0.489145548 0.086409499 141.8160945 153816.6587 0.01365861 0.017957205 1.64E-07 6.784487388 -0.176076477 KPLHLLDCIHVLLIR ddPTM_HeLa_SAHA_4h_R1 1 KPLHLLDCIHVLLIR 15 1 E9PF10;O75694-2;O75694 E9PF10 NUP155 Nuclear pore complex protein Nup155 0 0 55.291 0.015176 572410 129.03 0 143.13 269.06 263.48 0 247.32 145.19 158.15 212.68 FALSE FALSE TRUE 142.6019674 0 162.635011 274.2680454 243.2922193 0 219.4909027 141.47625 157.0494213 221.8496756 0.642786459 0 0.73308654 1.236278776 1.096653482 0 0.989367697 0.637712224 0.707909177 1 7.793438634 -9.112277636 1.091703399 0.984211428 0.673236477 0.014846687 0.397860005 0.958055108 2.188030282 0.200714015 0.071677734 7.72E-10 9.112277636 -0.310974951 KPLSLAGDEETECQS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 2 KPLSLAGDEETECQSSPK 18 1 F5H1K3;Q86TN4-2;Q86TN4;Q86TN4-4 F5H1K3 TRPT1 tRNA 2-phosphotransferase 1 1 0 KPLSLAGDEETECQS(0.5)S(0.5)PK;KPLSLAGDEET(0.001)ECQS(0.499)S(0.499)PK ; 86.357 0.002315 12027800 4060.2 4519.3 3676.7 4200.5 3937.1 4757.5 4572.1 4566.5 4974.9 4256.9 TRUE FALSE FALSE 4487.270465 4665.728285 4177.741529 4281.806752 3635.440249 4352.134235 4057.635275 4449.695542 4940.279266 4440.435792 1.010547315 1.050736573 0.940840432 0.964276245 0.818712491 0.980114214 0.913792129 1.002085325 1.11256631 1 12.11648556 -6.655934765 7.349422399 1.008483809 0.93278488 0.396845022 0.058413896 0.176495259 11.1024272 0.007107604 0.010058218 2.21E-07 6.655934765 -0.075698929 KPLSLAGDEETECQSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 KPLSLAGDEETECQSSPK 18 1 F5H1K3;Q86TN4-2;Q86TN4;Q86TN4-4 F5H1K3 TRPT1 tRNA 2-phosphotransferase 1 1 0 KPLSLAGDEETECQS(0.414)S(0.586)PK;KPLSLAGDEETECQS(0.36)S(0.64)PK ; 128.29 9.92E-05 13680000 3272.3 3653.5 3138.3 3642.8 3666.1 4151.6 3461.4 3989.9 4228 3897.7 TRUE FALSE FALSE 3616.495528 3771.875797 3565.97118 3713.311662 3385.20421 3797.860324 3071.914162 3887.844135 4198.577004 4065.748922 0.889502918 0.927719805 0.877076093 0.913315537 0.832615165 0.934110885 0.755559239 0.956243046 1.032670016 1 11.98930541 -11.2500863 0.224546867 1.207703625 0.859838495 0.476995789 0.054839456 11.65067757 0.363585091 1.201235836 0.043416131 5.62E-12 11.2500863 -0.347865131 KPNAGGS(ph)PAPVR ddPTM_HeLa_SAHA_4h_R1 1 KPNAGGSPAPVR 12 1 Q3KQU3-4;Q3KQU3;Q3KQU3-2 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 KPNAGGS(1)PAPVR 82.578 0.010111 9069500 444.56 659.6 459.29 571.04 509.74 814.85 488.21 895.73 1253 827.85 TRUE FALSE FALSE 491.3208605 680.9714728 521.8796493 582.0933049 470.6838313 745.4201958 433.2753259 872.8185236 1244.280271 863.5426649 0.568959567 0.78857884 0.604347267 0.674075907 0.545061467 0.863211774 0.501741655 1.010741633 1.440901905 1 9.754123648 -9.429522483 1.098213451 1.004333913 0.677595895 0.432177991 0.207840544 0.38705481 0.81702638 0.099147582 0.023579839 3.72E-10 9.429522483 -0.326738018 KPPAPPSPVQS(ph)QS(ph)PSTNWSPAVPVK ddPTM_HeLa_SAHA_4h_R1 1 KPPAPPSPVQSQSPSTNWSPAVPVK 25 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 2 0 KPPAPPS(0.204)PVQS(0.364)QS(0.625)PS(0.396)T(0.405)NWS(0.005)PAVPVK 60.23 0.0078248 6755200 1978.4 2075.6 1768.5 1893.8 2486.5 2688.1 2382.9 2389.8 2611.6 2082.2 TRUE FALSE FALSE 2186.497189 2142.850802 2009.50197 1930.457237 2295.984907 2459.058757 2114.769821 2328.672376 2593.425663 2171.973832 1.006686709 0.986591445 0.925196216 0.888803175 1.057096026 1.132176972 0.973662661 1.072145687 1.194040934 1 11.08479101 -5.595523394 25 0.987596286 1.058085717 0.094573724 0.08343081 41.3595546 14232.60083 0.007840258 0.015680517 2.54E-06 5.595523394 0.070489431 KPPATTYEGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 KPPATTYEGSPR 12 1 A0A1B0GTT1;A0A1B0GVM0;Q9BUH8 A0A1B0GTT1 BEGAIN Brain-enriched guanylate kinase-associated protein 1 0 KPPATTYEGS(1)PR;KPPATTYEGS(1)PR ; 117.13 0.0008797 30808000 5280.4 5614.3 4747.9 5200.5 6025.5 6122.9 6216.7 5520 6639.8 6258.8 TRUE FALSE FALSE 5835.816699 5796.207004 5394.919086 5301.163198 5563.827492 5601.194474 5517.180555 5378.806393 6593.593091 6528.647498 0.893878357 0.887811297 0.826345593 0.811984902 0.852217476 0.857941017 0.845072514 0.823877594 1.009947787 1 12.67256843 -8.331061556 0.456532498 1.009488623 0.832278633 0.920074716 0.018894035 0.225534153 0.102962113 0.017300414 0.007387712 4.67E-09 8.331061556 -0.17720999 KPPLS(ph)PAQTNPVVQR ddPTM_HeLa_SAHA_4h_R1 1 KPPLSPAQTNPVVQR 15 1 Q8IY33-4;Q8IY33-2;Q8IY33 Q8IY33-4 MICALL2 MICAL-like protein 2 1 0 KPPLS(0.972)PAQT(0.028)NPVVQR 72.21 0.012619 7708500 1785.5 1629.7 2160.8 1986.8 1877.8 1972.4 1669.6 1988.5 1867 1956.2 TRUE FALSE FALSE 1973.307082 1682.503349 2455.262571 2025.257387 1733.92337 1804.340424 1481.732214 1937.637049 1854.007395 2040.541355 0.967050767 0.824537736 1.203240779 0.992509846 0.849736941 0.884245947 0.726146623 0.949570095 0.908586043 1 10.99473623 -5.756766657 9.663336213 0.989514267 0.845554962 0.273898096 0.103276063 0.107330218 127.3563174 0.0137835 0.026506872 1.75E-06 5.756766657 -0.143959305 KPPTSPSS(ph)PPAPVPR ddPTM_HeLa_SAHA_4h_R1 1 KPPTSPSSPPAPVPR 15 1 O75161-2;O75161 O75161-2 NPHP4 Nephrocystin-4 1 0 KPPT(0.002)S(0.011)PS(0.045)S(0.942)PPAPVPR 82.859 0.0069065 3744800 1733.1 1669.3 1564.6 1635.8 2039.7 2168.5 2238.3 2087.8 1882.2 2190.6 TRUE FALSE FALSE 1915.39541 1723.386415 1777.81554 1667.463274 1883.418627 1983.7316 1986.440593 2034.397099 1869.101617 2285.047487 0.838230024 0.754201576 0.778021267 0.729728062 0.824236099 0.868135832 0.869321362 0.890308456 0.81797058 1 11.15800843 -8.805036303 0.825530288 0.993741453 0.817014238 0.000694629 0.073318089 0.305754047 0.405355675 0.030082237 0.011719663 1.57E-09 8.805036303 -0.176727215 KPRPS(ph)EGDEDCLPASK ddPTM_HeLa_SAHA_4h_R1 2 KPRPSEGDEDCLPASK 16 2 Q5VU10;P78346;P78346-2 Q5VU10 RPP30 Ribonuclease P protein subunit p30 1 0 KPRPS(1)EGDEDCLPASK;KPRPS(1)EGDEDCLPASK ; 82.36 0.0081668 66907000 9073.1 8749.4 7572.2 9335.8 9869.9 11953.5 12234.6 11664.6 9913.2 9028.2 TRUE FALSE FALSE 10027.45029 9032.886301 8604.099982 9516.507909 9113.670394 10934.99455 10857.93061 11366.23642 9844.213234 9417.449885 1.064773416 0.959164786 0.913633742 1.010518561 0.967742914 1.161141783 1.152958682 1.206933571 1.045316233 1 13.20112074 -5.244101187 17.70547481 1.011585033 1.171607927 0.765135377 0.044801625 8.60801413 8788.625252 0.007332528 0.018546096 5.70E-06 5.244101187 0.160022894 KPS(ph)DGSPDTKPSR ddPTM_HeLa_SAHA_4h_R1 1 KPSDGSPDTKPSR 13 2 Q92733 Q92733 PRCC Proline-rich protein PRCC 1 0 KPS(0.936)DGS(0.016)PDT(0.046)KPS(0.002)R 83.823 0.01134 24379000 2201.8 1930.3 1796.2 2535.8 2081.5 2210.6 2490.3 2569.9 2174.5 2294.3 TRUE FALSE FALSE 2433.395426 1992.842987 2040.976782 2584.884076 1922.01592 2022.244444 2210.08489 2504.165679 2159.367477 2393.218501 1.016787822 0.832704154 0.852816732 1.080086952 0.803109252 0.844989474 0.923478107 1.046358984 0.90228597 1 11.22473641 -7.292353298 24.12552183 1.007927594 0.909811972 0.047137672 0.091601543 475.5081122 371089.9513 0.014163065 0.016197242 5.10E-08 7.292353298 -0.098115622 KPS(ph)EDEVLNK ddPTM_HeLa_SAHA_4h_R1 1 KPSEDEVLNK 10 1 Q8NDI1-3;Q8NDI1-2;Q8NDI1 Q8NDI1-3 EHBP1 EH domain-binding protein 1 1 0 KPS(1)EDEVLNK 112.02 0.013024 7782700 1186.2 1015.4 1202.2 1146.8 1664.4 1718.5 2214.6 1734.8 1159.5 1226.7 TRUE FALSE FALSE 1310.969958 1048.299626 1366.029555 1168.997972 1536.874032 1572.074132 1965.407379 1690.426328 1151.430945 1279.58904 1.024524216 0.819247112 1.067553341 0.91357298 1.201068455 1.228577365 1.535967656 1.321069714 0.899844332 1 10.32146483 -5.292222549 1.698841275 0.994819558 1.421372938 0.771409885 0.099839651 0.119729237 0.65415206 0.012902144 0.043234523 5.10E-06 5.292222549 0.426553381 KPS(ph)GSPDLWK ddPTM_HeLa_SAHA_4h_R1 1 KPSGSPDLWK 10 1 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 KPS(0.658)GS(0.342)PDLWK 66.004 0.022997 7460100 2959.8 2828.9 2873.6 2698.4 3691.3 4156.7 3811.5 3168.9 3766 4032.4 TRUE FALSE FALSE 3271.125344 2920.558216 3265.199243 2750.631434 3408.473391 3802.525775 3382.619989 3087.844127 3739.792099 4206.256498 0.777680901 0.69433669 0.776272023 0.653938112 0.810334176 0.904016618 0.804187759 0.734107425 0.889102246 1 12.03832111 -8.999361552 0.807074457 1.000199997 0.771007854 0.459831468 0.072232708 0.336286316 0.401204242 0.045663633 0.01417585 1.00E-09 8.999361552 -0.229192142 KPS(ph)PAASPATK ddPTM_HeLa_SAHA_4h_R1 2 KPSPAASPATK 11 1 Q8N3F8;H0Y6J8 Q8N3F8 MICALL1 MICAL-like protein 1 1 0 KPS(1)PAASPATK;KPS(1)PAASPATK ; 95.822 0.0058254 111702000 13828.4 14761 12580 15212.9 16290.1 17016.4 18163.8 15367.2 16875.1 15231 TRUE FALSE FALSE 15282.93456 15239.26609 14294.33689 15507.36768 15041.95606 15566.50699 16119.96142 14974.12928 16757.66481 15887.68295 0.961936024 0.959187449 0.899711867 0.976062257 0.946768393 0.979784594 1.014620034 0.942499251 1.054758259 1 13.95562112 -8.957134446 0.900741841 0.998713846 0.960980888 0.327429399 0.033313743 0.683725349 1.056432354 0.01552193 0.005569599 1.10E-09 8.957134446 -0.037732957 KPS(ph)PEPEGEVGPPK ddPTM_HeLa_SAHA_4h_R1 4 KPSPEPEGEVGPPK 14 1 Q7Z5L9;Q7Z5L9-2 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 1 0 KPS(1)PEPEGEVGPPK;KPS(1)PEPEGEVGPPK;KPS(1)PEPEGEVGPPK;KPS(1)PEPEGEVGPPK ;;; 152.94 6.62E-05 154542000 17774.7 18695.7 16351 18489.4 18537.2 20755.7 19987.6 19396.7 22589.2 18711.2 TRUE FALSE FALSE 19644.3245 19301.45295 18579.22913 18847.28907 17116.88374 18987.19759 17738.54264 18900.5605 22431.99992 19517.9314 1.006475742 0.98890874 0.951905647 0.965639682 0.876982473 0.972807886 0.908833128 0.96836904 1.149302119 1 14.25251254 -6.669431224 1.628557687 1.003286923 0.934705014 0.383658827 0.053645191 0.177665702 0.957040222 0.004175061 0.006337084 2.14E-07 6.669431224 -0.068581909 KPS(ph)PQPSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 KPSPQPSSPR 10 1 G3V5E1;O75909-1;O75909;O75909-4 G3V5E1 CCNK Cyclin-K 2 0 KPS(1)PQPS(0.058)S(0.942)PR;KPS(1)PQPSS(1)PR;KPS(1)PQPS(0.006)S(0.994)PR ;; 181.76 3.31E-05 38441000 14204 13587.5 11130.7 16053.8 14815 18153.3 16846.7 16482.3 15747.4 15890.1 TRUE FALSE FALSE 15698.04189 14027.74392 12647.53383 16364.54451 13679.8779 16606.53671 14951.06498 16060.70663 15637.81256 16575.19998 0.94708009 0.846309181 0.763039592 0.987290925 0.825322043 1.00189058 0.902014154 0.968960052 0.943446389 1 14.01673866 -7.718255538 2.137403341 0.981876605 0.899286751 0.130777852 0.072605676 0.322198503 3.078037449 0.013939323 0.013926299 1.91E-08 7.718255538 -0.082589854 KPS(ph)VSEEVQATPNK ddPTM_HeLa_SAHA_4h_R1 2 KPSVSEEVQATPNK 14 1 Q9UKJ3-2;Q9UKJ3 Q9UKJ3-2 GPATCH8 G patch domain-containing protein 8 1 0 KPS(0.984)VS(0.016)EEVQATPNK;KPS(0.996)VS(0.004)EEVQATPNK ; 164.02 4.73E-06 99107000 8492.7 8974.2 8444.5 10121.7 10439.2 11986.5 12976.5 10987.7 8733.2 8495.8 TRUE FALSE FALSE 9386.001152 9264.969968 9595.272483 10317.62014 9639.350751 10965.18277 11516.35007 10706.65054 8672.42495 8862.095515 1.05911758 1.045460405 1.082731783 1.164241586 1.087705581 1.237312636 1.299506426 1.208139827 0.978597549 1 13.11343216 -5.495786417 0.463600978 1.015929952 1.318387333 0.823948751 0.042305657 0.51949173 0.150695655 0.010671192 0.071863756 3.19E-06 5.495786417 0.302457381 KPSDGS(ph)PDTKPSR ddPTM_HeLa_SAHA_4h_R1 2 KPSDGSPDTKPSR 13 2 Q92733 Q92733 PRCC Proline-rich protein PRCC 1 0 KPS(0.243)DGS(0.673)PDT(0.073)KPS(0.011)R;KPS(0.19)DGS(0.799)PDT(0.008)KPS(0.003)R ; 83.964 0.01125 25648000 9489.2 9095.6 8173.9 11774.2 9518.2 11761.8 12200.9 11255 9968.5 12395.1 TRUE FALSE FALSE 10487.31759 9390.303408 9287.796524 12002.10667 8788.917572 10759.62847 10828.02262 10967.1134 9899.128397 12929.51342 0.811114638 0.726268894 0.718340762 0.928272107 0.679756251 0.832175823 0.837465593 0.848223211 0.765622655 1 13.65838036 -8.918209464 0.795998338 0.998199517 0.796333988 0 0.099172412 0.362777701 0.430613636 0.042031513 0.014107909 1.21E-09 8.918209464 -0.201865529 KPSGS(ph)PDLWK ddPTM_HeLa_SAHA_4h_R1 1 KPSGSPDLWK 10 1 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 KPS(0.006)GS(0.994)PDLWK 66.674 0.022513 6947600 2951.6 2638.4 2907.8 3094.3 3485.8 3792.5 3722 3192.6 2784.2 2933.2 TRUE FALSE FALSE 3262.06283 2723.885891 3304.059841 3154.194651 3218.718757 3469.357664 3303.190764 3110.937915 2764.824526 3059.664607 1.066150461 0.890256365 1.079876478 1.030895558 1.051984178 1.133901296 1.079592435 1.01675782 0.90363647 1 11.5791578 -5.628534202 3.477578497 1.024122756 1.07899289 0.165903869 0.067040907 0.333936076 7.882262685 0.008200397 0.017332188 2.35E-06 5.628534202 0.054870134 KPSPQPS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 KPSPQPSSPR 10 1 G3V5E1;O75909-1;O75909;O75909-4 G3V5E1 CCNK Cyclin-K 1 0 KPS(0.002)PQPS(0.786)S(0.211)PR 73.877 0.017313 32782000 2433.5 2210.8 1745.5 2568.3 2316.5 2830.3 2698.8 2550.2 2288.9 2681.6 TRUE FALSE FALSE 2689.466695 2282.431371 1983.36765 2618.01316 2139.01027 2589.142517 2395.123921 2484.969577 2272.971359 2797.216899 0.961479496 0.815965101 0.70905036 0.935934986 0.764692316 0.925613783 0.856252485 0.888372145 0.812583164 1 11.44977641 -7.349806888 4.642446313 0.983176623 0.841653603 0.056041057 0.084898113 0.132030603 4.905701765 0.010951238 0.012490661 4.47E-08 7.349806888 -0.14152302 KPSPQPSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 KPSPQPSSPR 10 1 G3V5E1;O75909-1;O75909;O75909-4 G3V5E1 CCNK Cyclin-K 1 0 KPSPQPS(0.057)S(0.942)PR;KPSPQPS(0.344)S(0.656)PR ; 78.287 0.014597 51325000 7988.7 7326.6 6202.1 10519.2 9261.1 10704.8 10682 9926.6 9011.4 10526.2 TRUE FALSE FALSE 8828.988119 7563.986647 7047.289889 10722.81433 8551.516519 9792.690816 9480.033247 9672.691946 8948.688934 10980.036 0.804094643 0.688885414 0.641827576 0.976573695 0.778824088 0.891863271 0.863388176 0.880934448 0.81499632 1 13.42259516 -9.093398579 0.982840695 0.994528494 0.815863625 0 0.108022321 0.466169731 0.846466142 0.054201915 0.018061392 8.06E-10 9.093398579 -0.17866487 KPSVGVPPPAS(ph)PSYPR ddPTM_HeLa_SAHA_4h_R1 4 KPSVGVPPPASPSYPR 16 1 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 KPSVGVPPPAS(0.821)PS(0.176)Y(0.003)PR;KPS(0.001)VGVPPPAS(0.842)PS(0.147)Y(0.01)PR;KPSVGVPPPAS(0.783)PS(0.217)YPR;KPS(0.002)VGVPPPAS(0.79)PS(0.207)Y(0.001)PR ;;; 99.603 0.0020894 48295700 10744.7 11062.7 10448.1 10393.1 10625.2 11079.2 12196.2 10726.8 11729.6 10330.8 TRUE FALSE FALSE 11874.87684 11421.13874 11871.91266 10594.27348 9811.099471 10135.18983 10823.85148 10452.42399 11647.97276 10776.21135 1.101952854 1.059847322 1.101677786 0.983116713 0.910440521 0.940515131 1.004420861 0.969953507 1.080896837 1 13.39556243 -6.077743049 6.20621996 1.053890741 0.957192318 0.681692054 0.036253206 0.148865799 9.574626198 0.007058072 0.01182924 8.36E-07 6.077743049 -0.096698423 KPSVGVPPPASPS(ph)YPR ddPTM_HeLa_SAHA_4h_R1 1 KPSVGVPPPASPSYPR 16 1 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 KPSVGVPPPAS(0.244)PS(0.749)Y(0.007)PR 106.47 0.0012789 35918000 2603.2 2995 2931.2 3154.4 3393.4 2875.9 3528.9 2897.8 3253.7 2749.8 TRUE FALSE FALSE 2877.01652 3092.039965 3330.648671 3215.457973 3133.398425 2630.857141 3131.818884 2823.678472 3231.057237 2868.357335 1.003018865 1.077982833 1.161169367 1.12101025 1.092401699 0.917199928 1.091851021 0.984423537 1.126448646 1 11.48600905 -7.26974869 21.84615531 1.001425564 1.066221083 0 0.076178195 145.1154089 381524.3719 0.011259291 0.01301551 5.37E-08 7.26974869 0.064795519 KPT(ph)PFS(ph)S(ph)RMS(ph)FR ddPTM_HeLa_SAHA_4h_R1 1 KPTPFSSRMSFR 12 2 E9PIT1;E9PPH6;Q8NEV8-2;Q8NEV8 E9PIT1 EXPH5 Exophilin-5 4 0 KPT(1)PFS(1)S(1)RMS(1)FR 68.262 0.018265 4960800 541.32 522.39 500.62 484.64 698.26 799.47 663.12 644.31 439.91 474.16 TRUE FALSE FALSE 598.2585213 539.3157788 568.8418865 494.020908 644.7594697 731.3506583 588.5039924 627.8294831 436.8486305 494.6033581 1.2095723 1.09040056 1.150097097 0.99882239 1.303588945 1.478660924 1.189850378 1.269359524 0.883230215 1 8.950128225 -13.45584742 0.044870785 4.03E-09 1.776877203 0.477887977 0.118845747 420.0499239 1.516779025 55.36450953 15.94507691 3.50E-14 13.45584742 1.776877199 KPT(ph)YDPVSEDQDPLSSDFKR ddPTM_HeLa_SAHA_4h_R1 1 KPTYDPVSEDQDPLSSDFKR 20 2 A0A5F9ZHD0;A0A5F9ZHP4;C9J1X3;A0A5F9ZI29;A0A5F9ZHJ2;Q07912;A0A5F9ZHK8;A0A5F9ZHC7;A0A5F9ZHX6;A0A5F9ZGY5 A0A5F9ZHD0 TNK2 Activated CDC42 kinase 1 1 0 KPT(0.555)Y(0.445)DPVSEDQDPLSSDFKR 62.916 0.02004 5261600 1537.1 1722.2 1723.4 1492.3 1886 2064.8 1656.9 1775.7 1949 1494.9 TRUE FALSE FALSE 1698.77923 1778.00041 1958.255977 1521.185624 1741.495087 1888.867424 1470.461251 1730.280165 1935.43675 1559.352455 1.089413253 1.140217149 1.255813572 0.975523923 1.116806583 1.21131526 0.942994797 1.109614545 1.241179789 1 10.60673134 -8.71643663 0.910616164 1.006737278 1.104321465 0 0.115319956 0.716337057 1.186198086 0.03835557 0.01754062 1.92E-09 8.71643663 0.097584188 KPTAEAS(ph)PVK ddPTM_HeLa_SAHA_4h_R1 1 KPTAEASPVK 10 1 Q6ZRI6-2;Q6ZRI6;H3BMJ2 Q6ZRI6-2 C15orf39 Uncharacterized protein C15orf39 1 0 KPTAEAS(1)PVK 81.789 0.01309 18570000 1798.9 1895.2 1661 2228.7 2363.5 2102.2 2448.5 1998.7 1707.3 2171.7 TRUE FALSE FALSE 1988.116556 1956.605723 1887.35243 2271.839711 2182.409141 1923.080733 2172.988336 1947.576148 1695.41876 2265.332615 0.877626774 0.86371675 0.833145834 1.002872468 0.96339457 0.848917603 0.959235885 0.859730768 0.748419349 1 11.14550718 -9.3313778 1.065985645 0.999753082 0.901826693 0 0.094564423 0.497425046 1.015698509 0.036106127 0.009614156 4.66E-10 9.3313778 -0.097926389 KPVAGALDVSFNK ddPTM_HeLa_SAHA_4h_R1 1 KPVAGALDVSFNK 13 1 H7C3S9;E9PGT6;Q99627-2;Q99627 H7C3S9 COPS8 COP9 signalosome complex subunit 8 0 0 88.224 0.011058 1641500 1272.2 1507 1580.8 1800.5 1568.8 1918.2 1734.8 1726.1 1637.9 1991.1 FALSE FALSE TRUE 1406.015833 1555.827789 1796.223192 1835.351281 1448.598883 1754.758569 1539.595738 1681.948861 1626.501721 2076.946065 0.676963093 0.749093977 0.864838631 0.883677873 0.697465816 0.844874404 0.741278632 0.809818266 0.78312179 1 11.02024804 -9.489704149 1.229691855 1.000171935 0.774451901 0 0.092754279 0.264457715 0.714729963 0.050172021 0.012192904 3.24E-10 9.489704149 -0.225720034 KPVTVSPT(ph)TPT(ph)SPTEGEAS ddPTM_HeLa_SAHA_4h_R1 1 KPVTVSPTTPTSPTEGEAS 19 1 Q9Y6G9;E9PHI6 Q9Y6G9 DYNC1LI1 Cytoplasmic dynein 1 light intermediate chain 1 2 0 KPVT(0.004)VS(0.056)PT(0.55)T(0.501)PT(0.465)S(0.409)PT(0.009)EGEAS(0.005) 55.33 0.0076379 0 76.639 205.74 278 159.32 231.97 289.81 261.51 191.83 371.49 205.83 TRUE FALSE FALSE 84.70024165 212.406111 315.8843922 162.403869 214.1965087 265.1165576 232.0842065 186.9232664 368.9047708 214.7043386 0.394497113 0.989295849 1.471252953 0.75640702 0.997634748 1.234798324 1.080947912 0.870607774 1.718198958 1 7.746207534 -7.02121985 24.31245453 0.71290113 1.073553446 0 0.390663863 539.6023741 618244.1181 0.046326964 0.057075824 9.52E-08 7.02121985 0.360652316 KPVTVSPT(ph)TPTS(ph)PTEGEAS ddPTM_HeLa_SAHA_4h_R1 1 KPVTVSPTTPTSPTEGEAS 19 1 Q9Y6G9;E9PHI6 Q9Y6G9 DYNC1LI1 Cytoplasmic dynein 1 light intermediate chain 1 2 0 KPVT(0.011)VS(0.288)PT(0.619)T(0.201)PT(0.129)S(0.406)PT(0.254)EGEAS(0.094) 65.231 0.020847 4903700 930.18 961.44 710.67 786.37 1282.8 1659.7 1152.1 1241.2 998.85 932.44 TRUE FALSE FALSE 1028.0206 992.5912868 807.5164066 801.5913285 1184.512141 1518.284223 1022.462676 1209.451901 991.8989215 972.6420517 1.056936206 1.020510356 0.83022979 0.824138055 1.217829457 1.560989698 1.051221952 1.243470709 1.019798517 1 9.925765157 -5.591902481 8.097619409 0.998340894 1.282769389 0.533985022 0.139865806 0.165208658 17.11564431 0.020398849 0.040909511 2.56E-06 5.591902481 0.284428495 KPVTVSPTTPT(ph)SPTEGEAS ddPTM_HeLa_SAHA_4h_R1 1 KPVTVSPTTPTSPTEGEAS 19 1 Q9Y6G9;E9PHI6 Q9Y6G9 DYNC1LI1 Cytoplasmic dynein 1 light intermediate chain 1 1 0 KPVTVS(0.01)PT(0.032)T(0.322)PT(0.633)S(0.002)PTEGEAS 118.19 0.020601 14004000 1357.3 1703.6 1445 1180.2 1759.3 1918.5 1929.9 1630.3 1388.8 1675 TRUE FALSE FALSE 1500.067042 1758.797758 1641.917075 1203.044478 1624.502814 1755.033007 1712.742573 1588.599287 1379.135228 1747.217447 0.858546281 1.006627859 0.939732531 0.688548801 0.929765678 1.004473146 0.980268698 0.909216703 0.789332335 1 10.77084345 -9.573629023 1.337701502 1.000266669 0.90904702 0 0.109006327 0.78356528 2.501722854 0.064703811 0.014957492 2.67E-10 9.573629023 -0.091219649 KPVTVSPTTPTS(ph)PTEGEAS ddPTM_HeLa_SAHA_4h_R1 1 KPVTVSPTTPTSPTEGEAS 19 1 Q9Y6G9;E9PHI6 Q9Y6G9 DYNC1LI1 Cytoplasmic dynein 1 light intermediate chain 1 1 0 KPVTVSPTTPT(0.035)S(0.898)PT(0.056)EGEAS(0.01) 84.859 0.0090011 82869000 1910.9 1910.7 1788.7 1616.9 2272.1 3149.5 2499.1 2319.6 1532.2 2276.1 TRUE FALSE FALSE 2111.89723 1972.607934 2032.454721 1648.197438 2098.012189 2881.144881 2217.894691 2260.267991 1521.537295 2374.23381 0.889506847 0.830839796 0.856046575 0.694201822 0.883658627 1.213505119 0.934151759 0.951998906 0.640854026 1 11.2132463 KPYRIES(ph)DEEEDFENVGK ddPTM_HeLa_SAHA_4h_R1 1 KPYRIESDEEEDFENVGK 18 2 Q96T23-3;Q96T23-2;Q96T23 Q96T23-3 RSF1 Remodeling and spacing factor 1 1 0 KPY(0.074)RIES(0.926)DEEEDFENVGK 57.142 0.022908 7654600 1710.7 708.31 1484.4 1227.4 991.69 958.9 1774 2012.1 513.16 1103.2 TRUE FALSE FALSE 1890.639275 731.2597087 1686.686302 1251.158102 915.7069264 877.1963254 1574.384851 1960.633395 509.5888778 1150.764351 1.642942166 0.63545565 1.465709552 1.087240929 0.795738003 0.762272767 1.36812098 1.703766191 0.442826437 1 10.16837672 -7.293243492 24.99678414 1.303611522 1.11284565 0 0.440358647 1714.715856 1347695.107 0.066420394 0.075958739 5.09E-08 7.293243492 -0.190765871 KQEGPATQVDSAVGTLPAT(ph)SPQSTSVQAK ddPTM_HeLa_SAHA_4h_R1 4 KQEGPATQVDSAVGTLPATSPQSTSVQAK 29 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06 E7ETY2 TCOF1 Treacle protein 1 0 KQEGPATQVDSAVGT(0.007)LPAT(0.36)S(0.36)PQS(0.081)T(0.081)S(0.111)VQAK;KQEGPATQVDSAVGT(0.05)LPAT(0.627)S(0.207)PQS(0.038)T(0.038)S(0.038)VQAK;KQEGPATQVDSAVGT(0.141)LPAT(0.428)S(0.428)PQST(0.001)S(0.001)VQAK;KQEGPATQVDS(0.001)AVGT(0.324)LPAT(0.404)S(0.264)PQS(0.002)T(0.003)S(0.001)VQAK ;;; 139.73 1.03E-13 26221400 5396.21 4608.93 4490.51 4954.85 4929.95 5824.74 5026.13 5805.92 5262.46 4864.82 TRUE FALSE FALSE 5963.808126 4758.262356 5102.453317 5050.758287 4552.218296 5328.439383 4460.576624 5657.412973 5225.838112 5074.566198 1.175235063 0.937668792 1.005495469 0.995308385 0.897065506 1.050028549 0.87900649 1.114856473 1.029809822 1 12.30906878 -7.242696525 24.89845033 1.082749895 0.979430515 0.193757692 0.078148893 829.1977689 1101526.9 0.014178131 0.017347774 5.72E-08 7.242696525 -0.10331938 KQEGPATQVDSAVGTLPATS(ph)PQSTSVQAK ddPTM_HeLa_SAHA_4h_R1 1 KQEGPATQVDSAVGTLPATSPQSTSVQAK 29 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06 E7ETY2 TCOF1 Treacle protein 1 0 KQEGPATQVDSAVGT(0.012)LPAT(0.211)S(0.771)PQS(0.002)T(0.002)S(0.003)VQAK 174.55 2.34E-18 3531800 814.18 788.5 553.63 728.49 737.08 623.3 753.03 557.8 761.99 655.99 TRUE FALSE FALSE 899.819188 814.0479174 629.0758132 742.5909774 680.6050896 570.1913334 668.2970825 543.5322837 756.6872495 684.2729392 1.315000399 1.189653822 0.919334636 1.085226281 0.994639786 0.833280553 0.976652801 0.794320881 1.105826646 1 9.418428084 -5.874416809 0.979580487 1.148456443 0.869602935 0.497655128 0.106611648 0.432643153 0.804285282 0.024114309 0.06935963 1.34E-06 5.874416809 -0.278853507 KQELEEICHDLEAR ddPTM_HeLa_SAHA_4h_R1 5 KQELEEICHDLEAR 14 1 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ;;;; ;;;; 182.02 1.63E-07 87987200 24672.9 21565 23057.5 24644 26901.6 28243.1 27276.7 19909.1 25827.5 24674 FALSE FALSE TRUE 27268.10883 22263.72015 26199.65602 25121.02026 24840.40522 25836.62899 24207.45393 19399.85405 25647.76432 25737.81689 1.059456944 0.865019758 1.01794399 0.976035394 0.965132564 1.003839179 0.940540296 0.753749012 0.996501158 1 14.65160207 -3.572796828 1.099227131 1.009248041 4.14E-14 0.621429966 0.051580479 3.002838071 0.981310994 0.008280749 5.090062027 0.000267426 3.572796828 -1.009248041 KQELLEALTK ddPTM_HeLa_SAHA_4h_R1 1 KQELLEALTK 10 1 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 0 112.84 0.00034386 0 1419.1 1510 1656.4 1582.9 1443 1563.4 1658.1 1497.2 1226.8 1387 FALSE FALSE TRUE 1568.367449 1558.924991 1882.125566 1613.539318 1332.437652 1430.189525 1471.526224 1458.903792 1218.262599 1446.800358 1.084024787 1.077498345 1.300888236 1.115246696 0.920954743 0.988518918 1.017090033 1.008365656 0.842039188 1 10.49865014 -5.770115779 24.99996247 1.070244427 0.986456924 0.130956084 0.108714943 272.7366164 785858.5977 0.013952449 0.025578822 1.70E-06 5.770115779 -0.083787503 KQEVQAWDGEVR ddPTM_HeLa_SAHA_4h_R1 1 KQEVQAWDGEVR 12 1 P45974-2;P45974 P45974-2 USP5 Ubiquitin carboxyl-terminal hydrolase 5 0 0 96.756 0.017311 6526800 2884.6 2716.5 2530.6 2801.5 2694.7 3649.7 3333.7 2481.5 2973.9 2686.8 FALSE FALSE TRUE 3188.015463 2804.516382 2875.456989 2855.727084 2488.232668 3338.725027 2958.583302 2418.026823 2953.204388 2802.641097 1.137504002 1.000669114 1.025981169 1.018941414 0.887817092 1.191278124 1.055641161 0.862767204 1.053721931 1 11.45257129 -7.143101645 17.34341075 1.065171727 1.011874862 0.076039623 0.090395411 4.974327776 709.0237537 0.015826994 0.019384191 7.19E-08 7.143101645 -0.053296865 KQGGLGPMNIPLVSDPKR ddPTM_HeLa_SAHA_4h_R1 1 KQGGLGPMNIPLVSDPKR 18 2 Q06830;A0A0A0MSI0 Q06830 PRDX1 Peroxiredoxin-1 0 0 94.45 0.0031409 4372100 3118 2330.6 3079.2 3554.1 3118.1 3370.4 3592.5 3585.4 2667.5 3366.1 FALSE FALSE TRUE 3445.965546 2406.112969 3498.81734 3622.894745 2879.191852 3083.222959 3188.262445 3493.69066 2648.93665 3511.229044 0.981412919 0.685262322 0.99646514 1.031802454 0.819995453 0.878103627 0.908018932 0.995005058 0.754418643 1 11.77776039 -7.487452554 24.99417454 0.991799918 0.90160786 0 0.120477471 588.6784739 415332.6064 0.015831184 0.017591071 3.25E-08 7.487452554 -0.090192058 KQISGQYSGS(ph)PQLLK ddPTM_HeLa_SAHA_4h_R1 1 KQISGQYSGSPQLLK 15 1 Q96N67-2;Q96N67-6;Q96N67;Q96N67-4;Q96N67-3;Q96N67-5;A0A1B0GUE9;Q96N67-7 Q96N67-2 DOCK7 Dedicator of cytokinesis protein 7 1 0 KQISGQYS(0.093)GS(0.906)PQLLK 76.533 0.0093672 4146600 2248.4 1685.3 2010.6 2200.9 2162.5 2317.4 2033.2 2144.1 1687.9 1947.6 TRUE FALSE FALSE 2484.897028 1739.904826 2284.594097 2243.501602 1996.809717 2119.944483 1804.418985 2089.257027 1676.153766 2031.570567 1.223140888 0.856433369 1.124545775 1.104318815 0.982889666 1.043500293 0.888189174 1.028395006 0.825053185 1 10.98837976 -5.528243208 1.384396852 1.089308212 0.966500144 0 0.129782366 0.619648366 2.302204023 0.017774183 0.054879744 2.96E-06 5.528243208 -0.122808067 KQLATK(ac)AAR ddPTM_HeLa_SAHA_4h_R1 3 KQLATKAAR 9 2 K7EK07;P84243;Q6NXT2;Q71DI3;P68431;K7EMV3;K7EP01;A0A590UJJ6;B4DEB1;Q5TEC6;K7ES00 K7EK07 H3F3B;H3F3A;H3F3C;HIST2H3A;HIST1H3A;HIST2H3PS2 Histone H3;Histone H3.3;Histone H3.3C;Histone H3.2;Histone H3.1 0 1 ;; KQLATK(1)AAR;KQLATK(1)AAR;KQLATK(1)AAR 142 7.89E-05 601512000 5544.9 11680.7 47084 22575.3 19067.2 1634.81 31556.9 1565.3 793.19 1862.96 FALSE TRUE FALSE 6128.138023 12059.16234 53500.36232 23012.27758 17606.27526 1495.514991 28006.03456 1525.261893 787.6701262 1943.281323 3.153500191 6.205566947 27.53094042 11.8419692 9.060075373 0.769582342 14.41172425 0.784889905 0.405329952 1 10.92427906 -1.013789789 18.38771515 5.58432983 6.367176191 0 8.433059179 0 0 1.183125339 0 0.096874664 1.013789789 0.782846361 KQMVIDVLHPGK ddPTM_HeLa_SAHA_4h_R1 2 KQMVIDVLHPGK 12 1 E7ETK0;A0A2R8Y849;A0A2R8YD14;P62847-2;P62847-3;P62847;P62847-4 E7ETK0 RPS24 40S ribosomal protein S24 0 0 ; ; 71.03 0.014233 2866100 4880.7 4026.6 5114.6 6111.1 5409.2 5187 5951.3 3525.6 4765.5 5312.5 FALSE FALSE TRUE 5394.074419 4157.064482 5811.591052 6229.389177 4994.748265 4745.038419 5281.644061 3435.420257 4732.336497 5541.547874 0.973387678 0.750163055 1.048730641 1.1241244 0.901327279 0.856265889 0.953099058 0.619938749 0.853973764 1 12.43607329 -3.768921083 1.216532387 0.975368701 1.15E-13 0.415554913 0.106705894 2.677889826 1.446945696 0.014490572 4.407644765 0.000170247 3.768921083 -0.975368701 KQNET(ph)S(ph)T(ph)SK ddPTM_HeLa_SAHA_4h_R1 1 KQNETSTSK 9 1 Q96N64-3;Q96N64-2;Q96N64 Q96N64-3 PWWP2A PWWP domain-containing protein 2A 3 0 KQNET(0.698)S(0.802)T(0.802)S(0.698)K 80.755 0.019247 44707000 4642.5 4172.1 4468.3 4771.2 4875.9 5255.1 5442.2 4795.5 4939.1 4800 TRUE FALSE FALSE 5130.819451 4307.278777 5077.216654 4863.553475 4502.309595 4807.335916 4829.829333 4672.838054 4904.728401 5006.951491 1.024739197 0.860259738 1.014033522 0.971360215 0.899211747 0.960132313 0.964624751 0.933270087 0.979583767 1 12.28971676 KQNS(ph)PVAPTAQPK ddPTM_HeLa_SAHA_4h_R1 2 KQNSPVAPTAQPK 13 1 Q6P1N0;Q6P1N0-2 Q6P1N0 CC2D1A Coiled-coil and C2 domain-containing protein 1A 1 0 KQNS(1)PVAPTAQPK;KQNS(0.979)PVAPT(0.021)AQPK ; 94.922 0.0041605 82932000 16146.5 19233.4 15117.8 17152.4 19523.6 20899.6 19728 17846.3 20889.8 17281.3 TRUE FALSE FALSE 17844.86295 19856.57478 17177.97505 17484.4095 18027.70599 19118.8365 17508.15352 17389.81749 20744.42618 18026.38142 0.989930399 1.101528605 0.952935293 0.969934514 1.00007348 1.060603127 0.971251696 0.964687093 1.150781496 1 14.1378222 KQPPVS(ph)PGTALVGSQK ddPTM_HeLa_SAHA_4h_R1 4 KQPPVSPGTALVGSQK 16 1 P17096;P17096-3 P17096 HMGA1 High mobility group protein HMG-I/HMG-Y 1 0 KQPPVS(0.981)PGT(0.019)ALVGSQK;KQPPVS(0.954)PGT(0.046)ALVGSQK;KQPPVS(0.575)PGT(0.425)ALVGSQK;KQPPVS(0.933)PGT(0.067)ALVGSQK ;;; 144.18 5.37E-05 77910600 18458 21720.8 17680.2 20724.6 22907.8 28230.4 22433.5 20292.5 32643.2 20283.8 TRUE FALSE FALSE 20399.49713 22424.56817 20089.56558 21125.7546 21152.60931 25825.0111 19909.22354 19773.44723 32416.03331 21158.33388 0.964135326 1.059845652 0.949487124 0.998460215 0.999729441 1.220559768 0.940963672 0.934546517 1.532069278 1 14.36893841 -5.503007831 24.99210653 0.987706735 1.03745521 0 0.189009473 1622.013789 2040041.437 0.010800277 0.023847282 3.14E-06 5.503007831 0.049748475 KQPPVSPGT(ph)ALVGSQKEPSEVPT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 KQPPVSPGTALVGSQKEPSEVPTPK 25 2 P17096;P17096-3 P17096 HMGA1 High mobility group protein HMG-I/HMG-Y 2 0 KQPPVS(0.06)PGT(0.841)ALVGS(0.154)QKEPS(0.335)EVPT(0.609)PK 44.267 0.019721 16085000 2526 2618.9 2602.5 2635.1 2977.4 3053.3 3191.5 2831.1 2624.6 2799.8 TRUE FALSE FALSE 2791.69627 2703.754078 2957.155147 2686.106171 2749.272255 2793.141663 2832.38402 2758.684561 2606.335195 2920.51308 0.955892404 0.925780506 1.012546448 0.919737764 0.941366185 0.956387315 0.969824118 0.944589011 0.892423736 1 11.51200613 -9.082396719 0.627747457 1.004329388 0.952779886 0 0.041483017 0.830672809 0.531477024 0.023428285 0.005273232 8.27E-10 9.082396719 -0.051549502 KQPPVSPGTALVGS(ph)QKEPSEVPTPK ddPTM_HeLa_SAHA_4h_R1 1 KQPPVSPGTALVGSQKEPSEVPTPK 25 2 P17096;P17096-3 P17096 HMGA1 High mobility group protein HMG-I/HMG-Y 1 0 KQPPVS(0.003)PGT(0.155)ALVGS(0.586)QKEPS(0.249)EVPT(0.008)PK 47.991 0.010246 36415000 2463 1986.6 2397 2685.5 2406.1 2903.3 2809 2857.1 2716.9 2250.6 TRUE FALSE FALSE 2722.069641 2050.967143 2723.650677 2737.481736 2221.745138 2655.922506 2492.923927 2784.019519 2697.992872 2347.63438 1.159494708 0.873631414 1.160168168 1.166059655 0.946376129 1.131318628 1.061887638 1.185882922 1.149238951 1 11.19699203 -9.666910167 1.509819224 0.999878661 1.092324899 0 0.107652353 0.732486393 2.998779861 0.067481864 0.015033577 2.15E-10 9.666910167 0.092446238 KQQQEPTGEPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 KQQQEPTGEPSPK 13 1 F5H2U8;F5H2A4;F5H6H0;P52926-3;P52926-6;P52926-4;P52926-5;P52926-2;P52926 F5H2U8 HMGA2 High mobility group protein HMGI-C 1 0 KQQQEPTGEPS(1)PK;KQQQEPTGEPS(1)PK;KQQQEPTGEPS(1)PK;KQQQEPTGEPS(1)PK ;;; 146.27 1.64E-07 28904400 10276.7 9639.58 8937.98 10376.25 9578.82 10481.83 11537.12 11875.06 10970.37 9368.92 TRUE FALSE FALSE 11357.65046 9951.908717 10156.00137 10577.09732 8844.892881 9588.719115 10238.93289 11571.31316 10894.0263 9772.859992 1.162162404 1.018321016 1.039204632 1.082292935 0.905046515 0.981157934 1.047690533 1.184025267 1.114722437 1 13.25456511 KQS(ph)LGELIGTLNAAK ddPTM_HeLa_SAHA_4h_R1 1 KQSLGELIGTLNAAK 15 1 P60174;P60174-3 P60174 TPI1 Triosephosphate isomerase 1 0 KQS(1)LGELIGTLNAAK 98.443 0.0026244 1156300 1207.3 1087.4 994.47 1375.7 952.46 1214 1231.8 1052.3 1067.1 1157.4 TRUE FALSE FALSE 1334.289353 1122.632473 1129.991193 1402.328663 879.4827206 1110.56037 1093.194622 1025.38369 1059.673964 1207.301178 1.10518351 0.929869442 0.935964623 1.161540043 0.728470026 0.919870195 0.905486255 0.849318884 0.877721304 1 10.23756991 -5.762991132 24.99998911 1.03835957 0.859628047 0.334264453 0.096026406 25.40612687 409324.1389 0.01230275 0.023192213 1.73E-06 5.762991132 -0.178731523 KQSAGPNS(ph)PTGGGGGGGSGGTR ddPTM_HeLa_SAHA_4h_R1 1 KQSAGPNSPTGGGGGGGSGGTR 22 1 H7BZ52;S4R3H3;S4R393;S4R410;A7E2V4-5;A7E2V4;A7E2V4-3;A7E2V4-4;A7E2V4-2 H7BZ52 ZSWIM8 Zinc finger SWIM domain-containing protein 8 1 0 KQS(0.001)AGPNS(0.987)PT(0.012)GGGGGGGSGGTR 124.96 6.08E-06 4016000 623.34 325.91 401.93 506.98 545.17 528.93 708.81 616.44 299.83 636.12 TRUE FALSE FALSE 688.9057612 336.4696978 456.7029272 516.793331 503.3991924 483.8621883 629.0528333 600.6723574 297.7434586 663.5462463 1.038218157 0.507077991 0.688275956 0.778835437 0.758649748 0.729206428 0.948016565 0.905245657 0.448715459 1 9.374053208 -7.318420405 24.99970843 1.018047555 0.763419203 0 0.212567838 163.1311399 71571.34863 0.020016518 0.022889762 4.80E-08 7.318420405 -0.254628352 KQSAGPNSPT(ph)GGGGGGGSGGTR ddPTM_HeLa_SAHA_4h_R1 1 KQSAGPNSPTGGGGGGGSGGTR 22 1 H7BZ52;S4R3H3;S4R393;S4R410;A7E2V4-5;A7E2V4;A7E2V4-3;A7E2V4-4;A7E2V4-2 H7BZ52 ZSWIM8 Zinc finger SWIM domain-containing protein 8 1 0 KQS(0.001)AGPNS(0.189)PT(0.785)GGGGGGGS(0.019)GGT(0.006)R 99.093 0.0002777 4788400 461.09 360.81 295.83 334.31 389.15 402.21 474.29 412.79 213.29 389.36 TRUE FALSE FALSE 509.5895618 372.5004807 336.1441718 340.7810535 359.3334111 367.9394452 420.9216409 402.2314295 211.8056975 406.1472151 1.254691754 0.917156309 0.827641208 0.839057959 0.884736858 0.905926303 1.036377021 0.990358704 0.521499815 1 8.665858942 -7.205844577 12.74797338 1.120263976 0.911402058 0 0.206380472 1.218900338 278.7398449 0.01878782 0.023009853 6.23E-08 7.205844577 -0.208861918 KQSFDDNDS(ph)EELEDKDSK ddPTM_HeLa_SAHA_4h_R1 2 KQSFDDNDSEELEDKDSK 18 2 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 1 0 KQS(0.015)FDDNDS(0.984)EELEDKDS(0.001)K;KQS(0.003)FDDNDS(0.991)EELEDKDS(0.005)K ; 91.733 0.0020599 38462000 2387.4 1876.93 2088.95 2525.8 2352.1 2346.4 2381.7 2862.5 2523.3 2043.4 TRUE FALSE FALSE 2638.517686 1937.743763 2373.621227 2574.690511 2171.882606 2146.47352 2113.704848 2789.281395 2505.74015 2131.500974 1.237868393 0.90909823 1.113591434 1.207923685 1.018945162 1.007024414 0.991650895 1.308599634 1.175575419 1 11.057654 KQSLGELIGTLNAAK ddPTM_HeLa_SAHA_4h_R1 1 KQSLGELIGTLNAAK 15 1 P60174;P60174-3 P60174 TPI1 Triosephosphate isomerase 0 0 174.62 1.95E-11 2310800 3126.6 4024.8 5343 2649.1 3520.2 3503.5 4367.3 2128.4 2088.7 3538.9 FALSE FALSE TRUE 3455.470133 4155.206161 6071.116215 2700.377161 3250.483037 3204.98209 3875.87991 2073.95861 2074.164567 3691.479298 0.936066507 1.125620876 1.644629625 0.731516268 0.88053671 0.868210772 1.04995304 0.561823172 0.561878965 1 11.84998335 KQSSSSTTSQGGVK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 KQSSSSTTSQGGVKR 15 2 P18615;P18615-3;A0A0A0MT02;E9PD43;A0A0A0MSN9;P18615-4;A0A0G2JI50;A2ABK4 P18615 NELFE Negative elongation factor E 0 1 KQSSSSTTSQGGVK(1)R 84.62 0.016166 0 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 KQVAPEK(ac)PVKK ddPTM_HeLa_SAHA_4h_R1 1 KQVAPEKPVKK 11 3 P53999;D6RC37;D6R970 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 0 1 KQVAPEK(0.995)PVK(0.005)K 118.61 0.0017157 3102000 1229.5 1747.6 1844.8 2218.6 2039.8 2229.9 2232.8 2212.7 1672.1 1521 FALSE TRUE FALSE 1358.824451 1804.223387 2096.199737 2261.544211 1883.510965 2039.899975 1981.559468 2156.102338 1660.46372 1586.577754 0.856449958 1.137179305 1.321208325 1.425422868 1.187153268 1.285723294 1.248952006 1.358964181 1.046569395 1 10.63170251 -7.01803568 3.550319358 0.932892464 1.299884254 0.789820015 0.07732094 0.067708501 1.81319506 0.013248008 0.016982343 9.59E-08 7.01803568 0.366991789 KQVVAK(ac)APVK ddPTM_HeLa_SAHA_4h_R1 1 KQVVAKAPVK 10 2 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9;S4R3C2;S4R349 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 KQVVAK(1)APVK 114.4 0.00068233 0 388.64 305.05 1759.1 1370.3 1268.7 187.22 1930.2 114.98 0 119.14 FALSE TRUE FALSE 429.5189383 314.9338202 1998.820987 1396.824138 1171.49248 171.2678027 1713.008816 112.0389781 0 124.2767085 3.456149939 2.534133902 16.08363314 11.23962933 9.426484614 1.378116663 13.78382834 0.901528367 0 1 6.957412126 -6.948694318 24.99916643 2.203802043 8.870238633 0.361536179 4.578278487 84.74972082 41294.79772 0.691984327 0.909445501 1.13E-07 6.948694318 6.66643659 KRAEFTVETR ddPTM_HeLa_SAHA_4h_R1 1 KRAEFTVETR 10 2 P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98 P21333-2 FLNA Filamin-A 0 0 97.597 0.0038086 6157200 4642.3 3491.6 4583.8 4509 5066.5 4357 5306.2 2802.7 3888 4311.2 FALSE FALSE TRUE 5130.598414 3604.730131 5208.456393 4596.278215 4678.305865 3985.759088 4709.132411 2731.010992 3860.943091 4497.076931 1.14087406 0.801571818 1.158187079 1.022059059 1.040299274 0.886299957 1.04715407 0.607285807 0.85854504 1 12.13477185 -3.90047655 1.647278943 1.04315652 5.96E-29 0.429562939 0.12097999 1.59714459 1.887916899 0.015083793 3.545695777 0.000125754 3.90047655 -1.04315652 KRDS(ph)DAGSSTPTTSTR ddPTM_HeLa_SAHA_4h_R1 1 KRDSDAGSSTPTTSTR 16 2 P51532;P51532-4;P51532-3;P51532-2;P51532-5;A0A0A0MT49;Q9HBD4;A0A2R8Y4P4;A0A2R8Y7S2;A0A2R8YGG3;A0A2R8Y440;A0A2R8Y4C5;A0A2R8Y6N0;A0A2R8YG32;A0A2R8Y7F3;K7EP28;A0A2R8YF58;A0A2R8Y7Y7;A0A2R8Y526;A0A2R8YF80;A0A2R8Y6V2;A0A2R8YDA1;A0A2R8Y523;A0A2R8Y5K3;K7EQF0;A0A2R8YFK5 P51532 SMARCA4 Transcription activator BRG1 1 0 KRDS(1)DAGSSTPTTSTR 87.356 0.0059747 3450700 640.15 452.59 471.29 580.91 516.75 704.79 516.59 776.46 624.41 453.96 TRUE FALSE FALSE 707.4839141 467.254213 535.5149468 592.1543531 477.1567266 644.737927 458.4619336 756.5992775 620.06468 473.5324372 1.494055863 0.986741723 1.130893904 1.250504309 1.00765373 1.361549656 0.968174295 1.597777086 1.309444995 1 8.887319444 -4.237663015 23.44895977 1.195781702 1.59777817 0.342623892 0.174870328 3208.109039 3163819.025 0.02859348 2.051667688 5.79E-05 4.237663015 0.401996468 KRDSDAGS(ph)STPTTSTR ddPTM_HeLa_SAHA_4h_R1 1 KRDSDAGSSTPTTSTR 16 2 P51532;P51532-4;P51532-3;P51532-2;P51532-5;A0A0A0MT49;Q9HBD4;A0A2R8Y4P4;A0A2R8Y7S2;A0A2R8YGG3;A0A2R8Y440;A0A2R8Y4C5;A0A2R8Y6N0;A0A2R8YG32;A0A2R8Y7F3;K7EP28;A0A2R8YF58;A0A2R8Y7Y7;A0A2R8Y526;A0A2R8YF80;A0A2R8Y6V2;A0A2R8YDA1;A0A2R8Y523;A0A2R8Y5K3;K7EQF0;A0A2R8YFK5 P51532 SMARCA4 Transcription activator BRG1 1 0 KRDSDAGS(0.333)S(0.333)T(0.333)PT(0.001)TSTR 87.654 0.0058437 2320200 450.88 255.81 340.58 433.11 338.44 363.01 218.05 447.95 196.96 245.94 TRUE FALSE FALSE 498.3056271 264.0984118 386.9924687 441.4934703 312.5088003 332.0795058 193.5144401 436.4920876 195.5893393 256.543677 1.942381246 1.029448143 1.508485702 1.720929066 1.218150468 1.294436525 0.754313817 1.701433817 0.762401715 1 8.003060658 -5.580117415 24.99566385 1.444329504 1.209784321 0 0.402442324 182.1644155 79548.86727 0.060173078 0.12034617 2.63E-06 5.580117415 -0.234545183 KREDDDDDDDDDDDYDNL ddPTM_HeLa_SAHA_4h_R1 2 KREDDDDDDDDDDDYDNL 18 2 Q16594 Q16594 TAF9 Transcription initiation factor TFIID subunit 9 0 0 ; ; 95.347 0.0043158 32683000 7937.3 7553.4 7439.8 7662.7 8303.9 9594.3 8679.6 8646.8 8182 7685.9 FALSE FALSE TRUE 8772.181632 7798.135116 8453.657199 7811.022639 7667.656976 8776.811664 7702.948565 8425.627376 8125.060796 8017.276763 1.094159762 0.972666324 1.054430008 0.974273793 0.956391703 1.094737268 0.960793645 1.05093383 1.013443971 1 12.96889656 -7.247610116 24.92236542 1.044464334 1.008973316 0.050022104 0.049193282 1430.726745 2578382.284 0.008647636 0.010564197 5.65E-08 7.247610116 -0.035491018 KREEGS(ph)DIEDEDMEELLNDTR ddPTM_HeLa_SAHA_4h_R1 4 KREEGSDIEDEDMEELLNDTR 21 2 F5H5U2;Q8NHQ9-2;Q8NHQ9 F5H5U2 DDX55 ATP-dependent RNA helicase DDX55 1 0 KREEGS(1)DIEDEDMEELLNDTR;KREEGS(1)DIEDEDMEELLNDTR;KREEGS(1)DIEDEDMEELLNDTR;KREEGS(1)DIEDEDMEELLNDTR ;;; 108.47 6.37E-05 74059000 5338.88 5362.14 4902.83 5238.62 5829.1 6220.74 5900.15 5073.73 5676.14 5130.39 TRUE FALSE FALSE 5900.447894 5535.876854 5570.96214 5340.021065 5382.475617 5690.697955 5236.249594 4943.951333 5636.63928 5351.58622 1.102560559 1.034436637 1.040992691 0.997838929 1.005772008 1.063366583 0.978448142 0.923829147 1.053265153 1 12.38575086 -2.748962061 0.699855994 1.04484032 3.62E-08 0.5472926 0.031930627 14.11779277 0.918194272 0.007156708 18.77474002 0.001782534 2.748962061 -1.044840283 KREENTSNESTDVTK(ac)GDSK ddPTM_HeLa_SAHA_4h_R1 1 KREENTSNESTDVTKGDSK 19 3 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 0 1 KREENTSNESTDVTK(1)GDSK 48.711 0.019073 2317400 3134.8 2697.7 1984.8 2439.5 2790.9 2424.6 2706.8 2142.8 3952.5 3302.4 FALSE TRUE FALSE 3464.532647 2785.10725 2255.278208 2486.72005 2577.061845 2218.01044 2402.22374 2087.990279 3924.994231 3444.782626 1.005733314 0.808500144 0.65469391 0.721880107 0.748105795 0.643875298 0.697351328 0.606131215 1.139402586 1 11.75019723 -7.084981366 2.750815652 1.003590647 0.683243393 0.887589429 0.058065171 0.043763102 0.645585463 0.006524187 0.008228011 8.22E-08 7.084981366 -0.320347254 KREPEDEGEDDD ddPTM_HeLa_SAHA_4h_R1 1 KREPEDEGEDDD 12 2 P39687 P39687 ANP32A Acidic leucine-rich nuclear phosphoprotein 32 family member A 0 0 88.441 0.023809 4930100 2555.8 2228.7 1817.8 3075.1 2484.3 3378.1 3189.4 3195.4 2370.3 2856.5 FALSE FALSE TRUE 2824.63077 2300.911342 2065.520317 3134.623007 2293.953471 3090.266875 2830.520318 3113.666295 2353.804889 2979.657694 0.947971566 0.772206602 0.69320725 1.052007757 0.769871477 1.037121439 0.949948151 1.044974495 0.789958153 1 11.54093089 -2.249495672 12.69024247 0.94212285 0.918134768 0 0.133707977 0 0 0.016391901 0 0.005629947 2.249495672 -0.023988082 KRES(ph)ESESDETPPAAPQLIK ddPTM_HeLa_SAHA_4h_R1 1 KRESESESDETPPAAPQLIK 20 2 O60832 O60832 DKC1 H/ACA ribonucleoprotein complex subunit 4 1 0 KRES(0.325)ES(0.325)ES(0.325)DET(0.025)PPAAPQLIK 69.152 0.0058083 10604000 954.16 1000.8 930 831.43 940.78 1108.1 1203.3 881.01 1577.4 1154.5 TRUE FALSE FALSE 1054.522927 1033.226577 1056.735557 847.5235299 868.6976396 1013.683646 1067.901517 858.4750399 1566.422745 1204.276145 0.875648771 0.857964829 0.877486083 0.703761785 0.721344223 0.841736881 0.886758009 0.712855638 1.300717241 1 10.23395053 -7.991748118 0.451868541 1.003786202 0.780403686 0.513904568 0.116152237 0.487463285 0.244876004 0.044134649 0.026301383 1.02E-08 7.991748118 -0.223382516 KRESESES(ph)DETPPAAPQLIK ddPTM_HeLa_SAHA_4h_R1 1 KRESESESDETPPAAPQLIK 20 2 O60832 O60832 DKC1 H/ACA ribonucleoprotein complex subunit 4 1 0 KRES(0.02)ES(0.115)ES(0.712)DET(0.153)PPAAPQLIK 93.729 0.00078789 8866500 1303.7 1401.5 957.91 1347.2 1309 1628.4 1409.2 1553.2 1849.5 1253.8 TRUE FALSE FALSE 1440.829148 1446.90952 1088.448986 1373.277004 1208.704703 1489.651159 1250.633107 1513.471393 1836.629179 1307.857454 1.101671396 1.106320505 0.83223824 1.050020398 0.924186882 1.139001161 0.956245731 1.157214334 1.40430379 1 10.35298959 -4.234860214 22.75268402 1.031764855 1.157214906 0.014557429 0.148040419 3595.040578 3077312.08 0.012040968 1.056310889 5.82E-05 4.234860214 0.125450052 KRGEK(ac)GEVVETVEDVIVR ddPTM_HeLa_SAHA_4h_R1 1 KRGEKGEVVETVEDVIVR 18 3 Q9H0E9-4;Q9H0E9-2;H7C179;B5MCW3;H7C127;Q9H0E9;H7C128 Q9H0E9-4 BRD8 Bromodomain-containing protein 8 0 1 K(0.384)RGEK(0.616)GEVVETVEDVIVR 84.41 0.0032028 3851400 1799.6 1540.5 2283.5 2554.5 3296.5 2469.3 2800.2 2445.6 1885 2204 FALSE TRUE FALSE 1988.890185 1590.413211 2594.683488 2603.946041 3043.922882 2258.901748 2485.114126 2383.045093 1871.882132 2299.025226 0.865101506 0.69177719 1.128601574 1.132630478 1.324005865 0.982547613 1.080942522 1.036545866 0.814206869 1 11.16680658 KRQS(ph)PEPSPVTLGR ddPTM_HeLa_SAHA_4h_R1 1 KRQSPEPSPVTLGR 14 2 Q9NRL2;Q9NRL2-2 Q9NRL2 BAZ1A Bromodomain adjacent to zinc finger domain protein 1A 1 0 KRQS(1)PEPSPVTLGR 56.29 0.019894 4124500 2620.9 1662.6 1612.3 1807.3 2264.7 1903.8 2197 2277.5 1932.3 2232.1 TRUE FALSE FALSE 2896.578287 1716.469331 1832.015848 1842.282905 2091.179175 1741.58553 1949.787778 2219.244848 1918.852967 2328.336755 1.244054702 0.737208364 0.786834569 0.791244179 0.898142922 0.747995549 0.83741657 0.953145993 0.824130342 1 11.18508402 -7.255970276 24.99834331 1.115248054 0.819907621 0.27917914 0.123583391 212.3890233 970794.5991 0.017848466 0.021525502 5.55E-08 7.255970276 -0.295340434 KRS(ph)PS(ph)PSPTPEAK ddPTM_HeLa_SAHA_4h_R1 2 KRSPSPSPTPEAK 13 2 F8VXC8;Q8TAQ2-2;Q8TAQ2-3;Q8TAQ2 F8VXC8 SMARCC2 SWI/SNF complex subunit SMARCC2 2 0 KRS(0.982)PS(0.73)PS(0.252)PT(0.036)PEAK;KRS(0.989)PS(0.978)PS(0.033)PTPEAK ; 101.61 0.0014024 0 1166.41 1285.19 1151.41 1141.33 1380.1 1499.79 1361.67 1525.95 1047.46 1115.16 TRUE FALSE FALSE 1289.098355 1326.830999 1308.318159 1163.422093 1274.357036 1371.999454 1208.451308 1486.918409 1040.170641 1163.240005 1.108196374 1.140633913 1.12471902 1.000156535 1.095523736 1.179463781 1.038866702 1.278255908 0.894201228 1 10.18393308 -13.52287875 0.130123743 0.594992927 1.171597574 0.428997602 0.077260477 72.42333828 0.66820509 7.637453198 0.242845842 3.00E-14 13.52287875 0.576604647 KRS(ph)SSEDAESLAPR ddPTM_HeLa_SAHA_4h_R1 2 KRSSSEDAESLAPR 14 2 Q4G0J3;Q4G0J3-3;H0YA82 Q4G0J3 LARP7 La-related protein 7 1 0 KRS(0.89)S(0.067)S(0.042)EDAES(0.001)LAPR;KRS(0.596)S(0.39)S(0.008)EDAES(0.006)LAPR ; 83.891 0.0099674 24322000 3259.9 2801.4 2822 3751.2 3190.6 3967.5 4431.6 4175.3 2867.3 3441.1 TRUE FALSE FALSE 3602.791239 2892.167198 3206.567464 3823.8099 2946.136917 3629.446679 3932.944705 4068.501872 2847.346226 3589.462661 1.003713252 0.805738204 0.89332799 1.065287554 0.820773802 1.011139277 1.095691772 1.133457081 0.793251385 1 11.80955217 -4.783139446 3.601303592 0.971205406 1.121334654 0.29708151 0.099587224 0.200202903 5.398503192 0.011936496 0.045556223 1.65E-05 4.783139446 0.150129248 KRS(ph)VQEGENPDDGVR ddPTM_HeLa_SAHA_4h_R1 2 KRSVQEGENPDDGVR 15 2 H7C5M1;Q5TCT4;A2A2V2;P42696-2;P42696 H7C5M1 RBM34 RNA-binding protein 34 1 0 KRS(1)VQEGENPDDGVR;KRS(1)VQEGENPDDGVR ; 90.444 0.0029845 8744400 2590.3 2286.3 2282.89 2541.1 2777.8 2487.63 3452.6 2954.2 1934.34 2028.54 TRUE FALSE FALSE 2862.759639 2360.37762 2593.99036 2590.286665 2564.965564 2275.669929 3064.104361 2878.635842 1920.87877 2116.000287 1.352910799 1.115490217 1.225893199 1.22414287 1.212176378 1.075458233 1.448064247 1.360413729 0.907787576 1 11.04712411 -9.46802811 1.127255381 0.99569465 1.255665 0.520510097 0.111544824 0.397398768 0.878897642 0.083294449 0.01916704 3.40E-10 9.46802811 0.25997035 KS(ph)AFATY(ph)K ddPTM_HeLa_SAHA_4h_R1 1 KSAFATYK 8 1 A0A1B0GUV5;A0A0A0MTL7;Q9NQB0-14;Q9NQB0-15;Q9NQB0-10;Q9NQB0-9;Q9NQB0-6;Q9NQB0-11 A0A1B0GUV5 TCF7L2 2 0 KS(0.982)AFAT(0.169)Y(0.849)K 43.808 0.0088321 0 1028.1 1444 1477.6 1327.9 1641.9 1603.5 2075.6 1657.2 1758.7 1802.3 TRUE FALSE FALSE 1136.240275 1490.786547 1678.959633 1353.603425 1516.097977 1466.872779 1842.048025 1614.811224 1746.461064 1880.005973 0.604381205 0.792969048 0.893060797 0.719999534 0.806432532 0.780248999 0.979809666 0.858939411 0.928965699 1 10.87652153 -4.772726649 24.93302206 0.804811716 0.919374548 0.122012728 0.108035692 357.5430789 789801.826 0.020724603 0.062990139 1.69E-05 4.772726649 0.114562833 KS(ph)ASPEVSEGHENQHGQESEAK ddPTM_HeLa_SAHA_4h_R1 1 KSASPEVSEGHENQHGQESEAK 22 1 O60930 O60930 RNASEH1 Ribonuclease H1 1 0 KS(0.494)AS(0.494)PEVS(0.012)EGHENQHGQESEAK 89.557 0.00022156 6848300 1107.7 1531.3 584.94 1274.6 2463.4 799.13 1770.1 2186.6 1610 1545.3 TRUE FALSE FALSE 1224.212968 1580.915125 664.652577 1299.271726 2274.654824 731.0396282 1570.923689 2130.669938 1598.795879 1611.925446 0.759472451 0.980761939 0.412334565 0.806037109 1.411141459 0.453519504 0.974563491 1.321816678 0.991854731 1 10.6545693 -4.318208106 4.175510509 0.861661328 1.337517793 0.210277585 0.27161867 0.227378403 7.40279823 0.035213988 0.275810181 4.81E-05 4.318208106 0.475856465 KS(ph)DLET(ph)S(ph)EPK ddPTM_HeLa_SAHA_4h_R1 1 KSDLETSEPK 10 1 D6RF93;A0A494C1E9;P19838-3;P19838;P19838-2 D6RF93 NFKB1 Nuclear factor NF-kappa-B p105 subunit;Nuclear factor NF-kappa-B p50 subunit 3 0 KS(1)DLET(1)S(1)EPK 65.395 0.0073543 0 165.2 168.57 111.2 68.438 190.84 257.53 230.46 352.67 148.65 214.01 TRUE FALSE FALSE 182.576494 174.0317786 126.3537569 69.76271645 176.2178804 235.5869952 204.5280343 343.6492121 147.6155325 223.2370184 0.8178594 0.779582973 0.566007187 0.312505143 0.789375712 1.055322262 0.916192286 1.539391694 0.661250242 1 7.802432473 -2.7467774 12.45331382 0.875248097 0.892621158 0 0.311235744 0 0 0.040540062 0 0.001791524 2.7467774 0.017373061 KS(ph)NT(ph)ILGS(ph)QEGNTMK ddPTM_HeLa_SAHA_4h_R1 1 KSNTILGSQEGNTMK 15 1 A0A5H1ZRQ6;A0A5H1ZRR0;P0CF51;P03986 A0A5H1ZRQ6 TRGC1;TRGC2 T-cell receptor gamma chain C region 1;T-cell receptor gamma-2 chain C region 3 0 KS(1)NT(0.999)ILGS(0.651)QEGNT(0.35)MK 52.254 0.0087047 0 266.78 143.03 197.36 179.89 349.27 281.75 195.67 221.52 128.08 0 TRUE FALSE FALSE 294.8411444 147.6642658 224.255193 183.3720311 322.5090081 257.7433149 173.6526966 215.8538392 127.1886809 0 0 KS(ph)PLGGGGGSGASSQAACLK ddPTM_HeLa_SAHA_4h_R1 1 KSPLGGGGGSGASSQAACLK 20 1 Q68DK7;J3QQY0;J3KSZ8;Q68DK7-2 Q68DK7 MSL1 Male-specific lethal 1 homolog 1 0 KS(0.999)PLGGGGGS(0.001)GASSQAACLK 78.645 0.0017454 3332400 1110 1022.3 784.22 1113.2 1345.6 1068.3 1337.3 1115.6 1044.5 906.21 TRUE FALSE FALSE 1226.754893 1055.423191 891.0894176 1134.747596 1242.500419 977.2748299 1186.823484 1087.064567 1037.231239 945.281148 1.297767226 1.116517761 0.942671309 1.200433964 1.314424202 1.033845679 1.255524335 1.149990741 1.097272744 1 9.884599673 KS(ph)PSSDSWTCADTSTER ddPTM_HeLa_SAHA_4h_R1 1 KSPSSDSWTCADTSTER 17 1 F8VWH9;Q8N6T3-5;Q8N6T3;Q8N6T3-2;Q8N6T3-4;E5RHH7;H0YIQ0 F8VWH9 ARFGAP1 ADP-ribosylation factor GTPase-activating protein 1 1 0 KS(0.626)PS(0.326)S(0.045)DS(0.004)WTCADTSTER 136.36 0.00030654 5829900 628.66 1005.8 739.32 1113.8 883.03 1364.6 1078.4 877.23 1433.7 886.63 TRUE FALSE FALSE 694.7853432 1038.38858 840.0706794 1135.35921 815.3724322 1248.328403 957.0555938 854.7917268 1423.722765 924.8569584 0.751235461 1.122755871 0.908324981 1.227605198 0.881620044 1.349752945 1.034814719 0.924242089 1.539397798 1 9.85308644 -7.246223125 24.89189683 0.882527854 1.067287135 0 0.255409224 825.1306436 1349811.836 0.025671876 0.031377021 5.67E-08 7.246223125 0.184759281 KS(ph)S(ph)MPWNK ddPTM_HeLa_SAHA_4h_R1 1 KSSMPWNK 8 1 Q08J23-3;Q08J23-2;Q08J23 Q08J23-3 NSUN2 tRNA (cytosine(34)-C(5))-methyltransferase 2 0 KS(1)S(1)MPWNK 57.859 0.0066816 0 2008.3 2433.3 2388.4 2378.4 2858.8 2565.4 2726.5 2016.6 1753.9 2134.9 TRUE FALSE FALSE 2219.542208 2512.140517 2713.878714 2424.437371 2639.759362 2346.813487 2419.707044 1965.018292 1741.694467 2226.945987 0.996675367 1.128065311 1.218654934 1.088682611 1.185371974 1.053825958 1.086558479 0.882382556 0.782100005 1 11.12085085 -7.271980402 23.39664449 0.998430027 1.098604592 0.260135474 0.108909812 319.0362591 708124.7086 0.014181106 0.01631709 5.35E-08 7.271980402 0.100174566 KS(ph)S(ph)PKS(ph)SS(ph)ASK ddPTM_HeLa_SAHA_4h_R1 1 KSSPKSSSASK 11 2 Q5T200-2;Q5T200;A0A087WX14 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 4 0 KS(1)S(1)PKS(0.993)S(0.008)S(0.638)AS(0.361)K 81.565 0.0033273 0 1110.2 1310.2 1128.2 976.76 1333.2 1580.4 1405 1387.3 1332.5 1235.4 TRUE FALSE FALSE 1226.97593 1352.65134 1281.945221 995.6666022 1231.050504 1445.741029 1246.905702 1351.814875 1323.227024 1288.66414 0.95213011 1.0496539 0.994786136 0.772634678 0.955291969 1.121891255 0.967595562 1.049004805 1.026820708 1 10.33166059 KS(ph)SPEMEDAR ddPTM_HeLa_SAHA_4h_R1 1 KSSPEMEDAR 10 1 Q96T58 Q96T58 SPEN Msx2-interacting protein 1 0 KS(0.5)S(0.5)PEMEDAR 126.5 0.0055421 8445600 2174.9 1820.8 1598.8 2406.9 2418.2 2358.9 2350.9 2039.5 2139 2058.8 TRUE FALSE FALSE 2403.665961 1879.795115 1816.676138 2453.48903 2232.918038 2157.908449 2086.370545 1987.332543 2124.114525 2147.564944 1.119251815 0.875314677 0.845923726 1.142451611 1.039744127 1.004816388 0.971505216 0.925388799 0.989080461 1 11.06848604 -7.280608616 24.98293747 1.056313354 0.977687479 0.088099125 0.086024526 1219.125461 1588861.015 0.015751021 0.01802556 5.24E-08 7.280608616 -0.078625875 KS(ph)SPSTGSLDSGNESK ddPTM_HeLa_SAHA_4h_R1 2 KSSPSTGSLDSGNESK 16 1 A0A0U1RQT1;A0A087X1H5;Q15057 A0A0U1RQT1 ACAP2 "Arf-GAP with coiled-coil, ANK repeat and PH domain-containing protein 2" 1 0 KS(0.46)S(0.46)PS(0.078)T(0.003)GSLDSGNESK;KS(0.491)S(0.491)PS(0.018)T(0.001)GSLDSGNESK ; 111.45 0.00089575 29994000 3968.8 4196.7 3457.3 4350.8 5106.4 5434.8 4541 4410.7 4765.3 4403.9 TRUE FALSE FALSE 4386.256594 4332.675834 3928.442839 4435.016025 4715.148735 4971.724465 4030.034729 4297.880681 4732.137889 4593.773681 0.954826445 0.943162666 0.855166822 0.965440688 1.026421644 1.082274576 0.877281949 0.93558825 1.030119944 1 12.16546407 -9.033231427 0.99413301 0.99815208 0.95625645 0.114374079 0.062532999 1.273255372 2.403831715 0.033924701 0.012209214 9.26E-10 9.033231427 -0.04189563 KS(ph)SPSVKPAVDPAAAK ddPTM_HeLa_SAHA_4h_R1 2 KSSPSVKPAVDPAAAK 16 2 H3BV90;Q6FI81-3;Q6FI81;H3BPG7;H3BT65 H3BV90 CIAPIN1 Anamorsin 1 0 KS(0.498)S(0.498)PS(0.004)VKPAVDPAAAK;KS(0.42)S(0.42)PS(0.159)VKPAVDPAAAK ; 80.733 0.0088804 71531000 9447.9 8666.7 7806.7 8233.6 9024.9 9941.2 9661.8 7953.9 8705.3 8020.3 TRUE FALSE FALSE 10441.67347 8947.506766 8870.55642 8392.973234 8333.414112 9094.153832 8574.628836 7750.450755 8644.719109 8366.094383 1.248094151 1.069496273 1.060298392 1.003212831 0.996093724 1.08702501 1.024926141 0.926412063 1.033304038 1 13.03033856 -6.688750872 2.527751506 1.117827646 1.013783796 0.175793537 0.072975739 0.360066049 4.704615829 0.016237868 0.023489455 2.05E-07 6.688750872 -0.10404385 KS(ph)ST(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 KSSTPK 6 1 Q66K74-2;Q66K74 Q66K74-2 MAP1S Microtubule-associated protein 1S;MAP1S heavy chain;MAP1S light chain 2 0 KS(0.999)S(0.029)T(0.971)PK 52.299 0.0081523 0 922.25 1223.7 790.9 799.96 1111.2 985.78 1009.6 856.22 815.76 1042.6 TRUE FALSE FALSE 1019.256486 1263.348683 898.6797332 815.4443826 1026.060096 901.7859982 895.9971509 834.3191322 810.0830597 1087.551588 0.937202885 1.161644833 0.826332969 0.749798346 0.943458781 0.829189169 0.823866344 0.767153615 0.744868628 1 10.08686812 -6.611293503 24.99999614 0.984347941 0.825626093 0.274407333 0.106921212 12.30166272 3475.433173 0.011651245 0.01647735 2.45E-07 6.611293503 -0.158721848 KS(ph)TAALEEDAQILK ddPTM_HeLa_SAHA_4h_R1 2 KSTAALEEDAQILK 14 1 E9PDQ5;B1ALK7;A0A2R8YG42;Q14155-6;Q14155-1;Q14155-5;Q14155-2;Q14155-3;Q14155;Q15052-2;Q15052 E9PDQ5 ARHGEF7;ARHGEF6 Rho guanine nucleotide exchange factor 7;Rho guanine nucleotide exchange factor 6 1 0 KS(0.824)T(0.176)AALEEDAQILK;KS(0.879)T(0.121)AALEEDAQILK ; 172.37 9.01E-07 25480000 6820.8 7004.4 5732.2 9368.1 9728.4 8890.5 9717 11218.6 7831.4 6023 TRUE FALSE FALSE 7538.243039 7231.347156 6513.354364 9549.433122 8983.012094 8132.979383 8623.617586 10931.64446 7776.90065 6282.681006 1.199844944 1.150997026 1.036715752 1.51996148 1.429805538 1.294507771 1.372601534 1.739964904 1.237831531 1 12.61716462 -1 0.165928742 0.96776608 3.526559646 0.561873371 0.141885086 26.69424458 0.276287251 0.206824816 16.9349224 0.1 1 2.558793566 KS(ph)VSSPTSSNTPTPTK ddPTM_HeLa_SAHA_4h_R1 1 KSVSSPTSSNTPTPTK 16 1 Q5M775-4;Q5M775;Q5M775-5;Q5M775-3;Q5M775-2 Q5M775-4 SPECC1 Cytospin-B 1 0 KS(0.759)VS(0.221)S(0.012)PT(0.007)S(0.001)SNTPTPTK 123.58 0.00027273 14577000 3424.4 2103.9 1525 3807.3 2360.1 2964.5 2476.2 2513.8 1532.3 1702 TRUE FALSE FALSE 3784.594104 2172.06774 1732.819058 3880.995797 2179.269648 2711.907922 2197.571459 2449.500636 1521.6366 1775.381549 2.131707466 1.223437149 0.976026285 2.186006607 1.227493689 1.5275071 1.237802353 1.379703781 0.857075821 1 10.79391339 -5.034878713 1.900222158 1.512729859 1.318141413 0 0.4474472 1.485315695 10.16145723 0.072701844 0.296215362 9.23E-06 5.034878713 -0.194588447 VAVATPAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 VAVATPAKK 9 1 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 ; VAVATPAK(1)K;VAVATPAK(1)K 157.68 2.82E-07 331090000 6475.8 9598.4 12877.7 25564.1 34822 38028 46456 40973 4839.5 4722.2 FALSE TRUE FALSE 7156.954356 9909.394458 14632.60589 26058.93012 32153.94588 34787.80046 41228.64861 39924.96999 4805.821525 4925.797152 1.452953529 2.011734173 2.970606674 5.290297046 6.52766342 7.062369681 8.369944466 8.105280984 0.975643409 1 12.2661415 -6.071138373 0.856460972 1.132470747 8.286841244 0.992610302 0.245575772 0.03266454 0.046548902 0.045630689 0.121091219 8.49E-07 6.071138373 7.154370497 up KSDASDMNSDTS(ph)PSCR ddPTM_HeLa_SAHA_4h_R1 4 KSDASDMNSDTSPSCR 16 1 Q86WR7-2;Q86WR7;X6RHS9 Q86WR7-2 PROSER2 Proline and serine-rich protein 2 1 0 KSDASDMNS(0.012)DT(0.039)S(0.738)PS(0.211)CR;KSDASDMNS(0.012)DT(0.145)S(0.421)PS(0.421)CR;KSDASDMNS(0.005)DT(0.198)S(0.728)PS(0.069)CR;KSDASDMNSDT(0.008)S(0.807)PS(0.185)CR ;;; 140.35 5.85E-05 33354400 3971.33 4294.99 4455.4 4265.06 4950.96 5285.49 5711.73 5037.74 4139.52 4391.35 TRUE FALSE FALSE 4389.052711 4434.150494 5062.558709 4347.616404 4571.618514 4835.136517 5069.031108 4908.881905 4110.712743 4580.682589 0.95816565 0.96801086 1.105197448 0.94911977 0.998021239 1.055549347 1.106610425 1.071648561 0.897401787 1 12.16134688 -5.161152285 2.861719272 0.986786656 1.088377464 0.437078844 0.050520194 0.167637206 2.638666896 0.006070871 0.017879305 6.90E-06 5.161152285 0.101590809 KSDGIYIINLK ddPTM_HeLa_SAHA_4h_R1 2 KSDGIYIINLK 11 1 C9J9K3;A0A0C4DG17;P08865;F8WD59 C9J9K3 RPSA 40S ribosomal protein SA 0 0 ; ; 136.96 3.51E-05 0 1282.11 1680.3 1844.84 1468.3 2039.03 806.41 1919.91 484.37 1396.53 1580.55 FALSE FALSE TRUE 1416.968212 1734.742822 2096.245188 1496.72107 1882.799962 737.6993313 1703.876674 471.9805168 1386.811434 1648.695246 0.859448231 1.052191317 1.271457047 0.907821548 1.141993929 0.447444325 1.033469756 0.286275173 0.841156932 1 10.68710903 -4.088652812 1.026005413 0.967509247 1.73E-13 0.427809319 0.218140184 1.903322117 1.236598368 0.030600901 2.185317866 8.15E-05 4.088652812 -0.967509247 KSDIDEIVLVGGSTR ddPTM_HeLa_SAHA_4h_R1 1 KSDIDEIVLVGGSTR 15 1 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 83.751 0.010644 1160600 778.98 1322.6 1348.4 1765.8 1645.8 1472.7 1710.8 1613.7 1812.8 1427.7 FALSE FALSE TRUE 860.9166905 1365.453108 1532.15293 1799.979612 1519.69916 1347.217675 1518.296281 1572.423891 1800.184577 1489.255134 0.578085427 0.916869834 1.028804867 1.208644222 1.020442451 0.904625167 1.019500451 1.055845875 1.208781851 1 10.54037522 -6.954349461 4.611836838 0.798277394 1.037337356 0 0.175111973 0.192210214 9.065844277 0.027962049 0.036686966 1.11E-07 6.954349461 0.239059962 KSDVEAIFSK ddPTM_HeLa_SAHA_4h_R1 2 KSDVEAIFSK 10 1 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;B2R5W2;G3V4W0;G3V576;G3V575;A0A0G2JPF8;G3V555;B7ZW38;P0DMR1;B4DSU6;G3V251;G3V3K6;G3V5X6;G3V4M8;G3V2H6;B4DY08;A0A0G2JNQ3;B2RXH8;O60812 P07910;B4DY08;A0A0G2JNQ3 HNRNPC;HNRNPCL3;HNRNPCL4;HNRNPCL2;HNRNPCL1 Heterogeneous nuclear ribonucleoproteins C1/C2;Heterogeneous nuclear ribonucleoprotein C-like 3;Heterogeneous nuclear ribonucleoprotein C-like 4;Heterogeneous nuclear ribonucleoprotein C-like 2;Heterogeneous nuclear ribonucleoprotein C-like 1 0 0 ; ; 105.65 0.0028368 4429200 8866 10068.2 10813.3 11889.3 10550.2 7731.4 13147.4 9179.3 9380.5 10254.1 FALSE FALSE TRUE 9798.566559 10394.41629 12286.88021 12119.43459 9741.845955 7072.641224 11668.01995 8944.506797 9315.220337 10696.20443 0.916078841 0.971785492 1.14871404 1.133059364 0.910775969 0.661229062 1.090856109 0.836231848 0.870890267 1 13.38481132 -5.533613577 24.99126561 0.988288617 0.868984334 0.205898741 0.126318282 288.5221447 671693.9847 0.01787581 0.035777821 2.93E-06 5.533613577 -0.119304283 KSEAPAEVTHFS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 KSEAPAEVTHFSPK 14 1 Q6PID6 Q6PID6 TTC33 Tetratricopeptide repeat protein 33 1 0 KSEAPAEVTHFS(1)PK;KSEAPAEVT(0.001)HFS(0.999)PK ; 93.342 0.0039292 19515200 5356.5 5215.6 5441.9 5673 6032.5 6675.9 6366.9 6248.7 6026.4 5658.1 TRUE FALSE FALSE 5919.921247 5384.588862 6183.493792 5782.809118 5570.291153 6107.075762 5650.479655 6088.867302 5984.461792 5902.048381 1.003028248 0.912325436 1.047686056 0.97979697 0.943789477 1.034738343 0.957376031 1.031653234 1.013963527 1 12.52700003 KSLDS(ph)DES(ph)EDEEDDYQQKR ddPTM_HeLa_SAHA_4h_R1 1 KSLDSDESEDEEDDYQQKR 19 2 Q13442 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 2 0 KS(0.018)LDS(0.795)DES(0.993)EDEEDDY(0.194)QQKR 58.5 0.019846 8088900 1557 1337.9 1614.1 1450.5 1438.8 1538.3 1782.7 1814.9 1435.9 1519.1 TRUE FALSE FALSE 1720.772404 1381.248838 1834.061142 1478.576525 1328.559455 1407.228186 1582.105904 1768.477486 1425.907455 1584.595835 1.08593773 0.871672642 1.157431505 0.933093785 0.83842165 0.888067578 0.998428665 1.11604325 0.899855612 1 10.6298992 KSLS(ph)DSESDDSK ddPTM_HeLa_SAHA_4h_R1 1 KSLSDSESDDSK 12 1 Q13185;S4R2Y4 Q13185 CBX3 Chromobox protein homolog 3 1 0 KS(0.001)LS(0.962)DS(0.008)ES(0.018)DDS(0.012)K 170.42 0.00018977 100770000 568.96 566.47 440.68 756.7 871.34 860.96 728.81 791.19 839.61 857.02 TRUE FALSE FALSE 628.8058233 584.8239997 500.7335754 771.3470227 804.5781174 787.6013644 646.8023807 770.9525054 833.7670856 893.9703264 0.703385565 0.654187262 0.560123262 0.862832915 0.900005396 0.881015109 0.723516611 0.862391606 0.932656332 1 9.804083134 -9.333723235 1.095467569 0.997969902 0.763922011 0.348740295 0.10686284 0.425639829 0.926125855 0.074581762 0.02032552 4.64E-10 9.333723235 -0.234047891 KSLSDSES(ph)DDSK ddPTM_HeLa_SAHA_4h_R1 3 KSLSDSESDDSK 12 1 Q13185;S4R2Y4 Q13185 CBX3 Chromobox protein homolog 3 1 0 KSLS(0.032)DS(0.036)ES(0.616)DDS(0.316)K;KS(0.125)LS(0.208)DS(0.07)ES(0.587)DDS(0.009)K;KS(0.006)LS(0.196)DS(0.232)ES(0.566)DDSK ;; 120.6 0.0038981 176559000 3586.27 4238.76 3406.44 5078 5728.6 8654.6 7034.7 6887.2 5774.9 6673.5 TRUE FALSE FALSE 3963.490333 4376.098605 3870.651903 5176.292033 5289.675906 7917.179391 6243.137042 6711.035397 5734.712001 6961.227244 0.569366606 0.628638953 0.556030103 0.743589004 0.759876918 1.137325232 0.89684431 0.964059233 0.823807613 1 12.76512596 -5.29659519 19.33337049 0.754639251 0.98915249 0.448214783 0.136341109 42.54334515 23395.98031 0.027345259 0.061160136 5.05E-06 5.29659519 0.234513239 KSNLDEEVNVIPPHT(ph)PVR ddPTM_HeLa_SAHA_4h_R1 2 KSNLDEEVNVIPPHTPVR 18 1 A0A3B3IS71;P06400 A0A3B3IS71 RB1 Retinoblastoma-associated protein 1 0 KSNLDEEVNVIPPHT(1)PVR;KSNLDEEVNVIPPHT(1)PVR ; 94.671 0.0013779 24245000 15979.8 15821.2 14772.7 16420.6 17301.5 17514.1 18573.5 18996.1 13467.3 15234 TRUE FALSE FALSE 17660.62868 16333.81726 16785.84662 16738.44446 15975.86281 16021.80015 16483.5609 18510.20727 13373.57996 15890.81229 1.111373563 1.027878057 1.056324014 1.053341022 1.005352182 1.008242993 1.037301341 1.164837072 0.841591966 1 13.95590525 -9.69212879 1.580052621 1.000098108 1.06237463 0.25946121 0.068613519 0.539230623 2.432659601 0.034512612 0.0076998 2.03E-10 9.69212879 0.062276522 KSPGGGGGGGSGNDNNQAATK(ac)SPR ddPTM_HeLa_SAHA_4h_R1 2 KSPGGGGGGGSGNDNNQAATKSPR 24 2 Q9NS37;E9PIM0;J3KN20 Q9NS37 CREBZF CREB/ATF bZIP transcription factor 0 1 ; KSPGGGGGGGSGNDNNQAATK(1)SPR;KSPGGGGGGGSGNDNNQAATK(1)SPR 123.85 8.85E-08 581880 0 217.51 0 209.03 77.192 245.401 162.57 79.704 0 51.178 FALSE TRUE FALSE 0 224.5574667 0 213.0760779 71.27756564 224.4914542 144.2771957 77.66528709 0 53.38453404 0 4.206414288 0 3.991344717 1.335172572 4.20517774 2.702602886 1.454827479 0 1 5.738349936 -7.284002432 24.89421202 0.527777729 2.535420009 0.369063555 1.324564226 578.0147568 637732.1039 0.205961688 0.235605614 5.20E-08 7.284002432 2.00764228 KSPSS(ph)DSWTCADTSTER ddPTM_HeLa_SAHA_4h_R1 1 KSPSSDSWTCADTSTER 17 1 F8VWH9;Q8N6T3-5;Q8N6T3;Q8N6T3-2;Q8N6T3-4;E5RHH7;H0YIQ0 F8VWH9 ARFGAP1 ADP-ribosylation factor GTPase-activating protein 1 1 0 KS(0.001)PS(0.201)S(0.702)DS(0.017)WT(0.079)CADTSTER 125.41 0.00093537 7066200 1201.6 1235.6 813.99 1093 1307.9 1405.5 1343.4 1155.7 1793.8 992.83 TRUE FALSE FALSE 1327.989801 1275.634251 924.9163181 1114.156596 1207.688985 1285.743493 1192.237096 1126.138867 1781.3168 1035.63576 1.28229427 1.231740251 0.893090364 1.075818969 1.16613295 1.241501638 1.151212755 1.087388936 1.720022491 1 10.01630097 -9.674597897 1.551891581 1.000444731 1.161250525 0 0.248620645 0.508976367 2.217069027 0.082673325 0.018693225 2.12E-10 9.674597897 0.160805794 KSS(ph)ADTEFSDECTTAER ddPTM_HeLa_SAHA_4h_R1 1 KSSADTEFSDECTTAER 17 1 Q9H6S0 Q9H6S0 YTHDC2 Probable ATP-dependent RNA helicase YTHDC2 1 0 KS(0.011)S(0.936)ADT(0.032)EFS(0.021)DECTTAER 141.85 0.00031816 3799000 584.34 621.01 575.59 673.73 527.47 835.02 853.15 900.57 386.29 648.72 TRUE FALSE FALSE 645.8035622 641.1311315 654.0284077 686.7710184 487.0553626 763.8715983 757.1513166 877.5347234 383.6017764 676.689494 0.954357306 0.947452469 0.96651184 1.014898302 0.719761969 1.128836202 1.118905086 1.296805597 0.566880053 1 9.40235018 -4.71139504 1.99899379 0.963193675 1.266199013 0.374394676 0.154790101 0.195446594 1.396409171 0.012175979 0.077837729 1.94E-05 4.71139504 0.303005338 KSS(ph)PEMEDAR ddPTM_HeLa_SAHA_4h_R1 2 KSSPEMEDAR 10 1 Q96T58 Q96T58 SPEN Msx2-interacting protein 1 0 KS(0.206)S(0.794)PEMEDAR;KS(0.312)S(0.688)PEMEDAR ; 144.28 0.0024233 22292000 3872.3 3836.7 3537.3 4318.6 3856 4330.4 4272.8 4347.7 4200.9 4079.7 TRUE FALSE FALSE 4279.606281 3961.011597 4019.344823 4402.192748 3560.554113 3961.425558 3792.013299 4236.492129 4171.665595 4255.595833 1.005642088 0.930777206 0.944484622 1.034448035 0.836675815 0.93087448 0.891065188 0.995510922 0.980277676 1 12.05514542 -6.814769526 0.82056622 1.00407288 0.924097007 0.173768931 0.051858721 0.514957503 0.696106818 0.010578155 0.016604456 1.53E-07 6.814769526 -0.079975873 KSS(ph)PSTGSLDSGNESK ddPTM_HeLa_SAHA_4h_R1 1 KSSPSTGSLDSGNESK 16 1 A0A0U1RQT1;A0A087X1H5;Q15057 A0A0U1RQT1 ACAP2 "Arf-GAP with coiled-coil, ANK repeat and PH domain-containing protein 2" 1 0 KS(0.054)S(0.708)PS(0.196)T(0.026)GS(0.016)LDSGNESK 165.66 5.52E-06 4386300 878.43 1262.1 953.53 948.85 1154.7 1235 1108.3 771.8 987.89 1247.2 TRUE FALSE FALSE 970.8272978 1302.992868 1083.472103 967.2163638 1066.227135 1129.771052 983.5911671 752.0584736 981.0151931 1300.972896 0.746231763 1.001552663 0.832816814 0.743456199 0.819561375 0.868404758 0.756042782 0.578073898 0.754062745 1 10.34537519 -13.52287875 0.191428419 1.9063437 0.744758381 0 0.121361731 42.84479765 0.508670302 14.65869015 0.118113309 3.00E-14 13.52287875 -1.161585319 KSS(ph)PSVKPAVDPAAAK ddPTM_HeLa_SAHA_4h_R1 1 KSSPSVKPAVDPAAAK 16 2 H3BV90;Q6FI81-3;Q6FI81;H3BPG7;H3BT65 H3BV90 CIAPIN1 Anamorsin 1 0 KS(0.089)S(0.905)PS(0.006)VKPAVDPAAAK 77.726 0.0102 16546000 2785.2 2819.3 2618.4 2780.5 3222.1 3544.8 3034 2970.2 3028 2981.1 TRUE FALSE FALSE 3078.160115 2910.64717 2975.221916 2834.320598 2975.223394 3242.763097 2692.606335 2894.226585 3006.927901 3109.62981 0.989879922 0.936010827 0.956776883 0.911465599 0.956777358 1.042813227 0.865892887 0.930730267 0.966972947 1 11.60252713 -7.317092189 5.105995197 0.995515531 0.943641019 0.161783306 0.042827406 0.218859479 12.36097019 0.007061279 0.008099865 4.82E-08 7.317092189 -0.051874513 KSS(ph)TSGSDFDTK ddPTM_HeLa_SAHA_4h_R1 1 KSSTSGSDFDTK 12 1 P46100-5;P46100-3;P46100-4;P46100;P46100-2;A0A096LNW1;A0A096LNL9;P46100-6 P46100-5 ATRX Transcriptional regulator ATRX 1 0 KS(0.002)S(0.995)T(0.003)SGSDFDTK 136.33 0.0020954 7876700 1374.8 1052.1 1040.9 1231.7 1435.1 1560.9 1825.3 1683.5 1204.2 1278.6 TRUE FALSE FALSE 1519.407772 1086.18873 1182.748431 1255.541335 1325.142948 1427.902539 1619.91244 1640.438508 1195.819874 1333.726703 1.139219728 0.814401277 0.886799693 0.941378268 0.993564082 1.070611044 1.214575997 1.229966007 0.896600384 1 10.38124736 -4.822329213 3.198412302 1.020522244 1.229533666 0.462751489 0.098672518 0.208408064 4.2271677 0.015869589 0.060916616 1.51E-05 4.822329213 0.209011423 KSSEAS(ph)PTAQR ddPTM_HeLa_SAHA_4h_R1 1 KSSEASPTAQR 11 1 J3KNN7;Q7Z569 J3KNN7 BRAP BRCA1-associated protein 1 0 KSS(0.004)EAS(0.65)PT(0.346)AQR 107.93 0.0011916 0 209.28 0 136.45 362.23 149.41 232.82 446.73 212.4 148.88 321.7 TRUE FALSE FALSE 231.2930306 0 155.0446954 369.2414854 137.9622381 212.9824262 396.4627647 206.9671156 147.843932 335.5700614 0.68925407 0 0.462033755 1.100340966 0.41112797 0.634688403 1.181460477 0.616762755 0.440575453 1 8.390470198 -8.724133588 1.12261399 0.965151679 0.646048117 0 0.357729214 0.65529904 1.65454057 0.119385332 0.062256362 1.89E-09 8.724133588 -0.319103562 KSSEGGVGVGPGGGDEPPT(ph)SPR ddPTM_HeLa_SAHA_4h_R1 3 KSSEGGVGVGPGGGDEPPTSPR 22 1 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 KSSEGGVGVGPGGGDEPPT(0.5)S(0.5)PR;KSSEGGVGVGPGGGDEPPT(0.5)S(0.5)PR;KSSEGGVGVGPGGGDEPPT(0.5)S(0.5)PR ;; 101.71 0.00023494 27197500 7489.4 8409.8 8216.2 8697.7 10115.5 10623.4 11132.4 10386.2 9222 8514.1 TRUE FALSE FALSE 8277.169455 8682.283038 9335.860948 8866.056561 9340.452575 9718.226554 9879.753053 10120.53604 9157.823351 8881.184518 0.931989358 0.977604172 1.051195472 0.998296628 1.051712478 1.094248919 1.112436414 1.139547999 1.031148867 1 13.11653639 -5.466229341 0.726758447 0.968982508 1.147402072 0.721808028 0.032223629 0.319025793 0.265755522 0.00605726 0.033711516 3.42E-06 5.466229341 0.178419565 KSST(ph)SGSDFDTK ddPTM_HeLa_SAHA_4h_R1 1 KSSTSGSDFDTK 12 1 P46100-5;P46100-3;P46100-4;P46100;P46100-2;A0A096LNW1;A0A096LNL9;P46100-6 P46100-5 ATRX Transcriptional regulator ATRX 1 0 KSS(0.035)T(0.909)S(0.028)GS(0.028)DFDTK 175.6 0.0022326 6795200 2922.5 2458.2 2108.5 2955.4 3043.3 3525.9 3569.9 3356.9 2463.8 3244.7 TRUE FALSE FALSE 3229.901959 2537.847293 2395.835399 3012.606041 2810.123011 3225.473484 3168.205457 3271.035359 2446.654215 3384.594896 0.954294992 0.749823057 0.707864744 0.890093536 0.830268643 0.952986571 0.936066369 0.966448115 0.722879485 1 11.72476745 -7.476874936 12.00618391 0.979863712 0.861484711 0 0.113692213 1.208528303 314.4852678 0.01482903 0.016765383 3.34E-08 7.476874936 -0.118379001 KSSTS(ph)DWPTDNQDGWDGKQENEER ddPTM_HeLa_SAHA_4h_R1 1 KSSTSDWPTDNQDGWDGKQENEER 24 2 A5PLL3;A0A3B3IS53;A0A3F2YNX6;Q92794;A0A3B3ISZ3 A5PLL3 MYST3;KAT6A Histone acetyltransferase;Histone acetyltransferase KAT6A 1 0 KS(0.212)S(0.212)T(0.141)S(0.425)DWPT(0.011)DNQDGWDGKQENEER 49.662 0.0086245 5306800 473.38 636.18 752.53 840.03 993.26 1072.8 1263.7 1018.7 795.56 831.93 TRUE FALSE FALSE 523.1722803 656.7926494 855.0808694 856.2899954 917.1566334 981.3914046 1121.50515 992.6431291 790.0236332 867.7985737 0.602872943 0.756849192 0.985344866 0.986738192 1.056877323 1.130897693 1.292356526 1.143863518 0.910376736 1 9.761216405 -5.899727941 1.115604121 0.808251637 1.204288458 0.641110052 0.112076947 0.300028414 0.735914066 0.026859542 0.069772576 1.26E-06 5.899727941 0.396036821 KSVSS(ph)PTSSNTPTPTK ddPTM_HeLa_SAHA_4h_R1 1 KSVSSPTSSNTPTPTK 16 1 Q5M775-4;Q5M775;Q5M775-5;Q5M775-3;Q5M775-2 Q5M775-4 SPECC1 Cytospin-B 1 0 KS(0.248)VS(0.084)S(0.39)PT(0.205)S(0.069)S(0.004)NTPTPTK 86.959 0.0045094 16231000 2989.6 1605.4 1629.8 3090.5 1971.9 2959.5 1720 1789.4 1433.2 1530.4 TRUE FALSE FALSE 3304.059845 1657.416013 1851.900656 3150.321096 1820.813448 2707.33395 1526.461073 1743.629739 1423.226245 1596.383034 2.069716212 1.03823204 1.160060347 1.973411788 1.14058682 1.695917517 0.95619976 1.092237704 0.891531803 1 10.64059114 -4.749143252 24.98249353 1.474853723 1.024218504 0.061480256 0.403455373 342.9019838 696673.1445 0.061787475 0.227803702 1.78E-05 4.749143252 -0.450635219 KSYES(ph)SEDCSEAAGSPAR ddPTM_HeLa_SAHA_4h_R1 3 KSYESSEDCSEAAGSPAR 18 1 Q6P6C2-3;Q6P6C2;K7ER58 Q6P6C2-3 ALKBH5 RNA demethylase ALKBH5 1 0 KS(0.009)YES(0.917)S(0.074)EDCS(0.001)EAAGSPAR;KS(0.039)Y(0.003)ES(0.804)S(0.154)EDCSEAAGSPAR;KS(0.024)Y(0.012)ES(0.845)S(0.069)EDCS(0.049)EAAGS(0.001)PAR ;; 103.35 0.00091321 15933000 2291.74 2018.35 1868.15 2131.66 2120.914 2669.07 2535.51 2325.1 1718.08 1903.97 TRUE FALSE FALSE 2532.795728 2083.745864 2122.731753 2172.921362 1958.410028 2441.65022 2250.207742 2265.627309 1706.123741 1986.059465 1.275286956 1.04918604 1.068815809 1.094086759 0.986078243 1.229394318 1.133001193 1.140765092 0.859049677 1 10.9556931 -9.745130297 1.688197241 0.999987689 1.144568232 0.328120494 0.09422548 0.435968052 2.247513861 0.068602569 0.014835352 1.80E-10 9.745130297 0.144580543 KSYESSEDCSEAAGS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 4 KSYESSEDCSEAAGSPAR 18 1 Q6P6C2-3;Q6P6C2;K7ER58 Q6P6C2-3 ALKBH5 RNA demethylase ALKBH5 1 0 KSYESSEDCSEAAGS(1)PAR;KSYESSEDCSEAAGS(1)PAR;KSYESSEDCSEAAGS(1)PAR;KSYESSEDCSEAAGS(1)PAR ;;; 237.66 1.59E-29 99197400 9590.89 8377.34 8402.89 9878.55 9171.4 8828.97 9212.92 9607.92 9586.96 9094.72 TRUE FALSE FALSE 10599.70381 8648.771313 9547.992089 10069.76362 8468.689313 8076.692086 8176.257995 9362.163319 9520.243565 9486.837888 1.117306308 0.911660072 1.006446215 1.061445736 0.892677772 0.851357658 0.861852821 0.986858153 1.003521266 1 13.21171158 -5.756519483 24.93300866 1.04100575 0.892246373 0.436460461 0.062288062 74.37092 376891.5746 0.010189265 0.019877231 1.75E-06 5.756519483 -0.148759378 KSYESSEDCSEAAGS(ph)PARK ddPTM_HeLa_SAHA_4h_R1 1 KSYESSEDCSEAAGSPARK 19 2 Q6P6C2-3;Q6P6C2;K7ER58 Q6P6C2-3 ALKBH5 RNA demethylase ALKBH5 1 0 KSYESSEDCS(0.058)EAAGS(0.942)PARK 45.885 0.019811 5635600 1020.9 1058.8 859.23 1460.6 1216.5 954.11 989.4 847.21 1248.3 738.97 TRUE FALSE FALSE 1128.282946 1093.105815 976.3213897 1488.872025 1123.292033 872.8144603 878.070108 825.5395949 1239.612979 770.8306131 1.463723582 1.418088223 1.26658357 1.93151647 1.457248861 1.132303836 1.139121998 1.070974065 1.608152242 1 9.590270058 -2.96679275 10.94537999 1.280303102 1.280914959 0 0.279269424 0 0 0.03918719 0 0.001079462 2.96679275 0.000611857 KT(ph)AT(ph)FKS(ph)RAPK ddPTM_HeLa_SAHA_4h_R1 1 KTATFKSRAPK 11 3 I3L2J0;I3L2I4 I3L2J0 CIC 3 0 KT(1)AT(1)FKS(1)RAPK 51.726 0.0085081 0 826.3 976.29 813.69 1035.2 1062.9 875.76 752 925.89 876.23 1095.2 TRUE FALSE FALSE 913.2140252 1007.922437 924.5754357 1055.237793 981.4608316 801.1403211 667.3829808 902.2070745 870.1322441 1142.419432 0.799368428 0.882270039 0.809313471 0.923686838 0.859107263 0.701266364 0.584183849 0.789733656 0.761657426 1 10.15787671 -13.52285852 0.033901331 2.213246843 4.68E-09 0.113638526 0.104126985 543.2050529 1.475635113 77.16888393 29.69931363 3.00E-14 13.52285852 -2.213246839 KT(ph)GSYGALAEITASK ddPTM_HeLa_SAHA_4h_R1 2 KTGSYGALAEITASK 15 1 O14974-5;O14974-4;O14974-3;O14974-2;O14974;H0YIS4;H0YHI8;A0A3B3ISH4;F8VZN8 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 KT(0.863)GS(0.137)YGALAEITASK;KT(0.648)GS(0.352)YGALAEITASK ; 136.02 0.0002694 131749000 9911.4 10964.3 10349.5 11818.7 13433.3 13117.3 12325.7 12147.8 10353.5 10444.8 TRUE FALSE FALSE 10953.92653 11319.55051 11759.87596 12047.46803 12404.04346 11999.63224 10938.7798 11837.07687 10281.44915 10895.12644 1.005396916 1.038955406 1.079370306 1.105766701 1.138494677 1.101376134 1.004006686 1.086456126 0.943674147 1 13.41139532 -6.956871057 2.25525955 1.002337586 1.086843561 0.598374672 0.036845908 0.162213198 1.661329108 0.005780205 0.007662504 1.10E-07 6.956871057 0.084505975 KT(ph)ITT(ph)T(ph)EIMNK ddPTM_HeLa_SAHA_4h_R1 1 KTITTTEIMNK 11 1 Q92954-5;Q92954-4;Q92954-3;Q92954-6;Q92954-2;Q92954 Q92954-5 PRG4 Proteoglycan 4;Proteoglycan 4 C-terminal part 3 0 KT(0.627)IT(0.627)T(0.751)T(0.995)EIMNK 53.683 0.018728 16508000 1157 1202.9 1273.4 2641.4 1154.7 1100.3 1201 1953.6 1599.3 1249.9 TRUE FALSE FALSE 1278.698569 1241.874749 1446.93232 2692.528117 1066.227135 1006.54825 1065.860319 1903.629741 1588.170341 1303.789306 0.980755528 0.952511839 1.10978999 2.065155853 0.817790981 0.772017569 0.817509635 1.46007467 1.218118859 1 10.34849503 -6.630476079 6.521652337 0.988518062 1.166842235 0.026520736 0.367116444 0.570819997 31.23098963 0.057303776 0.081191043 2.34E-07 6.630476079 0.178324172 KT(ph)PELGIVPPPPIPR ddPTM_HeLa_SAHA_4h_R1 1 KTPELGIVPPPPIPR 15 1 Q8TEH3;Q8TEH3-7;Q8TEH3-6 Q8TEH3 DENND1A DENN domain-containing protein 1A 1 0 KT(1)PELGIVPPPPIPR 88.486 0.012298 7930700 791.58 1086.3 827.98 879.68 1039.7 1501 1102 1290.3 1125 911.6 TRUE FALSE FALSE 874.8420163 1121.496833 940.8128025 896.7074784 960.0384106 1373.106356 978.0000597 1257.295994 1117.171033 950.9035373 0.920011318 1.179401263 0.989388267 0.943005724 1.009606519 1.444001733 1.028495553 1.322211923 1.174852117 1 9.893155187 -5.417293246 8.603222108 0.980348598 1.240778641 0.35342709 0.132657248 0.187428263 13.95357237 0.015683179 0.035123151 3.83E-06 5.417293246 0.260430042 KT(ph)S(ph)NLSVLR ddPTM_HeLa_SAHA_4h_R1 1 KTSNLSVLR 9 1 Q99583 Q99583 MNT Max-binding protein MNT 2 0 KT(1)S(1)NLSVLR 79.036 0.0047885 0 3293.5 3588.3 3065.7 3252.6 3853.6 4013.1 3892.3 3334.8 4141.7 3734 TRUE FALSE FALSE 3639.925441 3704.563274 3483.477631 3315.558776 3558.338001 3671.161303 3454.32816 3249.500645 4112.877572 3894.991014 0.934514464 0.951109582 0.894348053 0.851236566 0.913567705 0.94253396 0.886864218 0.834276801 1.055940195 1 11.92740428 -13.52287873 0.062412373 1.408120932 0.735524448 0.703041636 0.034475995 125.1923641 0.611938403 7.691977683 1.356473211 3.00E-14 13.52287873 -0.672596484 KT(ph)SDANETEDHLESLICK ddPTM_HeLa_SAHA_4h_R1 2 KTSDANETEDHLESLICK 18 1 F2Z2T1;Q09161 F2Z2T1 NCBP1 Nuclear cap-binding protein subunit 1 1 0 KT(0.584)S(0.201)DANET(0.215)EDHLESLICK;KT(0.417)S(0.417)DANET(0.167)EDHLESLICK ; 83.37 0.0029237 53411000 5076.2 5897.1 4966.6 8065.2 9662.1 12505.3 11269.1 11485.9 6909.5 6871.7 TRUE FALSE FALSE 5610.138006 6088.169909 5643.422383 8221.313608 8921.791985 11439.77809 10001.07121 11192.10731 6861.416227 7167.972616 0.782667332 0.849357306 0.787310818 1.146951035 1.244674396 1.595957281 1.395244059 1.561404864 0.957232483 1 12.80734941 -5.756752681 1.73217453 0.883809419 1.504395425 0.893356511 0.095240049 0.089562811 0.544729833 0.016752346 0.03901016 1.75E-06 5.756752681 0.620586005 KT(ph)SPASLDFPESQK ddPTM_HeLa_SAHA_4h_R1 1 KTSPASLDFPESQK 14 1 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 KT(0.794)S(0.206)PASLDFPESQK 104.94 0.0043002 30261000 4620.1 4477.1 4595.5 4234 4842 5349 4834.3 4821.6 4641.3 3926.2 TRUE FALSE FALSE 5106.063316 4622.160978 5221.750808 4315.955192 4471.007006 4893.235107 4290.331841 4698.270454 4609.000815 4095.477696 1.24675647 1.128601184 1.275004089 1.053834378 1.091693653 1.194789832 1.04757788 1.147184969 1.125387844 1 11.99981602 -3.910068461 19.65714417 1.125077511 2.44347075 0.001826412 0.083664037 3942.582024 801418.5226 0.014120388 16199.0779 0.000123007 3.910068461 1.318393239 KTAVQYIES(ph)SDSEEIETSELPQK ddPTM_HeLa_SAHA_4h_R1 1 KTAVQYIESSDSEEIETSELPQK 23 1 A0A0C4DGA6;Q14527-2;Q14527 A0A0C4DGA6 HLTF Helicase-like transcription factor 1 0 KTAVQYIES(0.548)S(0.433)DS(0.014)EEIET(0.004)S(0.001)ELPQK 74.062 0.00078789 4304600 710.18 703.06 846.83 973.31 998.63 833.9 1037.6 829.81 720.23 814.33 TRUE FALSE FALSE 784.8799908 725.8396053 962.2315823 992.1498225 922.1151851 762.8470286 920.8465172 808.5846618 715.2178608 849.4397515 0.923997246 0.854492157 1.132783791 1.168004936 1.085556902 0.898059017 1.084063367 0.951903487 0.841987745 1 9.730367814 -6.753626199 24.99999063 0.954885671 1.05439993 0.344156238 0.090367606 199.1193561 637123.8563 0.013813795 0.01933216 1.76E-07 6.753626199 0.099514259 KTEAPAAPAAQETK ddPTM_HeLa_SAHA_4h_R1 2 KTEAPAAPAAQETK 14 1 P80723;P80723-2 P80723 BASP1 Brain acid soluble protein 1 0 0 ; ; 107.13 0.0027813 3432600 2720.4 3357.4 2793.5 3224.2 3171.2 2882.5 3816.6 3465.7 2763.2 2988.1 FALSE FALSE TRUE 3006.544154 3466.181963 3174.183632 3286.609053 2928.223341 2636.894783 3387.146123 3377.052412 2743.970666 3116.931614 0.964584574 1.11204941 1.01836807 1.054437331 0.939457038 0.84599058 1.086692473 1.083454124 0.880343558 1 11.60591079 -9.374953049 0.003657767 1.48E-08 1.980126226 0.053400137 0.083281608 142373.5667 124.8514969 34367.46967 33225.46007 4.22E-10 9.374953049 1.980126211 KTETQEK(ac)NPLPSK ddPTM_HeLa_SAHA_4h_R1 1 KTETQEKNPLPSK 13 2 P62328 P62328 TMSB4X Thymosin beta-4;Hematopoietic system regulatory peptide 0 1 KTETQEK(1)NPLPSK 169.4 7.27E-11 13288000 2160.9 7605 3076.2 4474.2 7341.7 7797 6780.4 5856.6 7490.9 2495.5 FALSE TRUE FALSE 2388.193377 7851.40699 3495.408516 4560.804611 6779.180532 7132.651735 6017.451547 5706.796652 7438.770217 2603.093218 0.917444431 3.016183568 1.342790374 1.752071182 2.60427882 2.740067734 2.311654268 2.192313596 2.857665706 1 11.34601126 -7.283479724 24.632004 0.96101534 2.254959261 0 0.750306958 293.8728258 328427.5984 0.076696498 0.087746066 5.21E-08 7.283479724 1.293943921 KTETQEK(ac)NTLPTK ddPTM_HeLa_SAHA_4h_R1 1 KTETQEKNTLPTK 13 2 P63313;CON__P21752 P63313 TMSB10 Thymosin beta-10 0 1 KTETQEK(1)NTLPTK 123.95 0.00057006 3425600 1794.1 2096.9 1963.2 2202.9 2549.3 2598.2 2534.1 3383.6 2355.1 1585.7 FALSE TRUE FALSE 1982.81167 2164.840936 2230.734672 2245.540315 2353.973185 2376.818743 2248.956399 3297.052411 2338.710667 1654.067287 1.198749099 1.308798592 1.348635989 1.357587042 1.423142337 1.436954084 1.359652304 1.993300053 1.413915072 1 10.69180221 -1 0.161404619 0.943227487 4.030499168 0.467897851 0.173611099 20.59983082 0.209574357 0.206118563 15.22636759 0.1 1 3.087271681 KTETQEKNPLPSK(ac)ETIEQEK ddPTM_HeLa_SAHA_4h_R1 1 KTETQEKNPLPSKETIEQEK 20 3 P62328 P62328 TMSB4X Thymosin beta-4;Hematopoietic system regulatory peptide 0 1 K(0.032)TETQEK(0.45)NPLPSK(0.518)ETIEQEK 54.171 0.011969 15304000 1070.8 2546 1218.5 1349.3 2048.5 1944.1 2432.8 2057.2 1497 572.2 FALSE TRUE FALSE 1183.431657 2628.49207 1384.550834 1375.417653 1891.544373 1778.451743 2159.054941 2004.579803 1486.582255 596.8703423 1.982728196 4.403790714 2.319684421 2.304382636 3.169104307 2.979628266 3.617293051 3.358484516 2.490628449 1 9.22127376 -7.608795657 2.514150507 1.362587804 3.112026082 0.384987717 0.709562988 0.129362396 1.70701252 0.122255016 0.127934525 2.46E-08 7.608795657 1.749438278 KTFT(ph)ET(ph)FFMR ddPTM_HeLa_SAHA_4h_R1 1 KTFTETFFMR 10 1 A0A0U1RRM5;A0A0C4DG54;Q5R372-2;Q5R372-4;Q5R372;Q5R372-3 A0A0U1RRM5 RABGAP1L Rab GTPase-activating protein 1-like 2 0 KT(0.067)FT(0.933)ET(1)FFMR 95.909 0.0020442 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 KTGS(ph)YGALAEITASK ddPTM_HeLa_SAHA_4h_R1 4 KTGSYGALAEITASK 15 1 O14974-5;O14974-4;O14974-3;O14974-2;O14974;H0YIS4;H0YHI8;A0A3B3ISH4;F8VZN8 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 KT(0.233)GS(0.767)YGALAEITASK;KT(0.058)GS(0.942)YGALAEITASK;KT(0.205)GS(0.795)YGALAEITASK;KT(0.036)GS(0.964)YGALAEITASK ;;; 148.26 2.76E-08 193140000 9218.19 11856.72 9266.61 10081.66 11921.75 12445.76 12468.69 11822.5 9435.86 9297.97 TRUE FALSE FALSE 10187.80152 12240.88551 10529.41535 10276.80511 11008.30809 11385.31123 11065.68019 11520.09757 9370.195082 9698.85099 1.050413243 1.262096461 1.085635336 1.059589957 1.13501157 1.173882478 1.14092692 1.187779623 0.966113934 1 13.24359813 -7.479001991 11.70088179 1.022205263 1.144386687 0.582263434 0.055668848 0.637074275 169.2430472 0.009265919 0.010448788 3.32E-08 7.479001991 0.122181424 KTGSHNMLS(ph)EVANS(ph)REPIR ddPTM_HeLa_SAHA_4h_R1 1 KTGSHNMLSEVANSREPIR 19 2 O60237-5;O60237;O60237-6 O60237-5 PPP1R12B Protein phosphatase 1 regulatory subunit 12B 2 0 KTGSHNMLS(1)EVANS(1)REPIR 63.691 0.012319 2941500 0 151.72 0 0 66.699 75.109 229.88 72.372 141.59 142.16 TRUE FALSE FALSE 0 156.6358275 0 0 61.58853703 68.70929065 204.0132974 70.52082903 140.6046637 148.2892133 0 1.056286051 0 0 0.415327155 0.463346518 1.375779754 0.47556277 0.948178634 1 7.212269848 -1.182494368 17.47255784 0.526088222 0.245552264 0 0.474858077 0 0 0.067690533 0 0.065690964 1.182494368 -0.280535958 KTGSPGS(ph)PGAGGVQSTAK ddPTM_HeLa_SAHA_4h_R1 1 KTGSPGSPGAGGVQSTAK 18 1 O43237;O43237-2;J3KRZ2;J3KRI4 O43237 DYNC1LI2 Cytoplasmic dynein 1 light intermediate chain 2 1 0 KT(0.084)GS(0.159)PGS(0.757)PGAGGVQSTAK 94.73 0.0013566 16401000 1549.9 1529.2 1388.1 1744.8 1845 1777.1 1337.4 1572.2 1767 1573.7 TRUE FALSE FALSE 1712.925593 1578.747083 1577.263039 1778.573127 1703.636499 1625.681082 1186.912232 1531.985401 1754.703303 1641.549909 1.043480667 0.961741751 0.9608377 1.083471857 1.037821933 0.990333022 0.723043647 0.933255451 1.068930828 1 10.6808429 -4.885357104 7.125163915 1.017517518 0.82955571 0.61303722 0.060760777 0.090307726 5.2550913 0.007482654 0.022770189 1.30E-05 4.885357104 -0.187961808 KTKPYIQVDIGGGQTK ddPTM_HeLa_SAHA_4h_R1 1 KTKPYIQVDIGGGQTK 16 2 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 57.794 0.022244 3300900 1512.4 1577.1 1645.1 1891.4 1951.5 1842.3 1962 1867.3 1597 2013.2 FALSE FALSE TRUE 1671.481171 1628.199075 1869.285661 1928.010782 1801.976492 1685.325676 1741.230596 1819.53717 1585.886347 2099.998904 0.79594383 0.775333297 0.890136493 0.918100851 0.858084491 0.802536455 0.829157859 0.866446723 0.755184369 1 11.03617286 -9.364712599 1.063293893 1.000938421 0.839523634 0 0.085813288 0.269793886 0.540875838 0.032748715 0.008298486 4.32E-10 9.364712599 -0.161414786 KTPLALAGSPT(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 KTPLALAGSPTPK 13 1 M0QXA7;A0A669KBH9;A0A669KAV7;O95785-3;B9EGQ5;A0A669KBG4;A0A2R8YFV2;O95785-4;O95785 M0QXA7 WIZ Protein Wiz 1 0 KTPLALAGS(0.401)PT(0.599)PK;KTPLALAGS(0.333)PT(0.667)PK ; 100.77 0.0069639 21806000 8417.4 8972.8 6572.5 8253.1 9268.8 9879 9237.7 8195.2 10966.1 8559.1 TRUE FALSE FALSE 9302.780752 9263.524607 7468.166072 8412.850685 8558.626546 9037.253622 8198.249684 7985.578651 10889.78602 8928.124688 1.041963579 1.037566671 0.836476453 0.942286424 0.958614137 1.012223052 0.918249909 0.894429562 1.219717062 1 13.12414146 -6.812877707 24.9999867 1.02170117 0.932645431 0.412239197 0.076393488 65.72723456 31944.37835 0.00733315 0.009637654 1.54E-07 6.812877707 -0.089055739 KTPSKPPAQLS(ph)PSVPK ddPTM_HeLa_SAHA_4h_R1 1 KTPSKPPAQLSPSVPK 16 2 F5H8D7;P18887;M0QYS5 F5H8D7 XRCC1 DNA repair protein XRCC1 1 0 KTPS(0.003)KPPAQLS(0.908)PS(0.089)VPK 55.536 0.017702 11325000 9502.4 8128.8 8209.4 9052.6 9233.9 8973.6 10488 8930.4 9427.4 9120.2 TRUE FALSE FALSE 10501.90603 8392.178454 9328.134279 9227.826163 8526.400577 8208.998796 9307.862637 8701.973299 9361.793956 9513.416455 1.103904794 0.882141394 0.980524118 0.96998026 0.896250113 0.862886518 0.97839327 0.914705389 0.984062245 1 13.21574782 -7.259008985 24.99961722 1.049066153 0.928564517 0.464612135 0.049237435 123.9530088 1275010.757 0.008931069 0.010668884 5.51E-08 7.259008985 -0.120501636 KTPSKPPAQLSPS(ph)VPK ddPTM_HeLa_SAHA_4h_R1 1 KTPSKPPAQLSPSVPK 16 2 F5H8D7;P18887;M0QYS5 F5H8D7 XRCC1 DNA repair protein XRCC1 1 0 KTPSKPPAQLS(0.498)PS(0.502)VPK 49.216 0.021888 8877100 3944.9 3746.1 3189.4 3679.9 4068.5 3966.7 4100.1 3513.9 4142.1 4258.6 TRUE FALSE FALSE 4359.842682 3867.476098 3624.034822 3751.129786 3756.772409 3628.714844 3638.745957 3424.019526 4113.274789 4442.209087 0.981458233 0.870620005 0.815818155 0.844428912 0.845699141 0.81687169 0.819129826 0.770792067 0.92595254 1 12.11706158 -7.161214698 2.362940179 0.992966736 0.820802537 0.837732461 0.029014039 0.04776964 0.512632192 0.003607063 0.004437235 6.90E-08 7.161214698 -0.172164199 KTQEQLALEMAELTAR ddPTM_HeLa_SAHA_4h_R1 1 KTQEQLALEMAELTAR 16 1 P26038 P26038 MSN Moesin 0 0 117.18 0.00029355 536640 245.72 330.21 350.11 229.52 367.8 350.22 384.74 232.78 254.45 175.68 FALSE FALSE TRUE 271.565957 340.9090207 397.8211675 233.9626915 339.6192435 320.3792857 341.4480426 226.8258247 252.6792617 183.2544246 1.481906686 1.860304445 2.170868008 1.276709646 1.853266268 1.748275855 1.863245831 1.237764519 1.378843989 1 7.517704221 -8.279924809 0.842092211 1.059564274 1.720130138 0.306885819 0.289119145 0.314800285 0.474121228 0.096056717 0.059236849 5.25E-09 8.279924809 0.660565863 KTQMAEVLPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 KTQMAEVLPSPR 12 1 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 1 0 KTQMAEVLPS(1)PR 69.331 0.018297 5562000 2669 1813.1 1415 2048.1 2385.4 3284.3 2521.9 3058.5 2109.1 2358.7 TRUE FALSE FALSE 2949.737666 1871.84563 1607.828831 2087.743937 2202.631167 3004.459163 2238.129175 2980.267999 2094.422601 2460.3951 1.198887799 0.760790667 0.653484 0.848540113 0.89523474 1.221128738 0.909662507 1.21129651 0.851254582 1 11.26467429 -7.2739905 24.82666299 1.093919235 0.924171607 0 0.188701544 988.9180216 1956119.391 0.03190823 0.036621127 5.32E-08 7.2739905 -0.169747628 KTS(ph)PASLDFPESQK ddPTM_HeLa_SAHA_4h_R1 2 KTSPASLDFPESQK 14 1 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 KT(0.077)S(0.874)PAS(0.048)LDFPESQK;KT(0.231)S(0.699)PAS(0.071)LDFPESQK ; 105.5 0.0016156 18946100 11442.4 11420.8 10928.2 11608 12135.9 13828.1 13405.3 12574.6 13354.2 11363.2 TRUE FALSE FALSE 12645.96413 11790.84141 12417.43818 11832.68963 11206.04996 12649.86809 11896.90036 12252.95994 13261.26703 11853.12316 1.066888782 0.994745541 1.047608973 0.998276105 0.945409055 1.067218143 1.003693305 1.03373261 1.118799396 1 13.53297962 -6.249540803 24.27440709 1.030131981 1.008961565 0.092690584 0.044572238 1230.399632 2510151.511 0.005740973 0.009466187 5.63E-07 6.249540803 -0.021170416 KTS(ph)QSEEEEAPR ddPTM_HeLa_SAHA_4h_R1 4 KTSQSEEEEAPR 12 1 Q7RTP6;A0A5F9ZHV5;J3KSK6;Q7RTP6-2;Q7RTP6-4;Q7RTP6-3;Q7RTP6-5 Q7RTP6 MICAL3 Protein-methionine sulfoxide oxidase MICAL3 1 0 KT(0.092)S(0.878)QS(0.03)EEEEAPR;KT(0.062)S(0.936)QS(0.002)EEEEAPR;KT(0.004)S(0.996)QSEEEEAPR;KT(0.003)S(0.919)QS(0.078)EEEEAPR ;;; 169.58 0.00020878 12301900 2996.44 2794.07 2763.55 3420.79 3840.91 4381.27 4023.22 3953.84 3320.69 3290.01 TRUE FALSE FALSE 3311.619307 2884.599701 3140.152202 3487.004337 3546.620306 4007.961148 3570.516697 3852.706498 3297.581048 3431.858432 0.964963845 0.84053575 0.915000506 1.016068817 1.033440154 1.167869021 1.040403259 1.122629786 0.960873274 1 11.74477433 -5.684242181 2.380847199 0.966050901 1.102633495 0.626481802 0.055091852 0.179535667 2.066764129 0.008931505 0.019725617 2.07E-06 5.684242181 0.136582595 KTS(ph)SDDES(ph)EEDEDDLLQR ddPTM_HeLa_SAHA_4h_R1 1 KTSSDDESEEDEDDLLQR 18 1 Q9Y5J1 Q9Y5J1 UTP18 U3 small nucleolar RNA-associated protein 18 homolog 2 0 KT(0.323)S(0.412)S(0.323)DDES(0.942)EEDEDDLLQR 107.92 0.0017932 27279000 2872.9 2889.9 1905.1 2759.4 2919.8 3284.4 3274.1 3312.3 3079.7 2966.9 TRUE FALSE FALSE 3175.084803 2983.534656 2164.717107 2812.812177 2696.085555 3004.550642 2905.689651 3227.576162 3058.268117 3094.817579 1.025936012 0.964042171 0.699465171 0.908878183 0.871161381 0.970832873 0.938888829 1.042897063 0.988190108 1 11.59563866 -6.995304616 24.99619342 1.01133923 0.902068307 0.226284672 0.08297242 131.8992965 702168.6195 0.013387219 0.017558291 1.01E-07 6.995304616 -0.109270922 KTSAVSS(ph)PLLDQQR ddPTM_HeLa_SAHA_4h_R1 2 KTSAVSSPLLDQQR 14 1 Q5T200-2;Q5T200;A0A087WX14 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 KT(0.004)S(0.016)AVS(0.239)S(0.742)PLLDQQR;KTSAVS(0.051)S(0.949)PLLDQQR ; 126.43 0.00034026 38998000 4532.2 4148.3 5113.8 4896.6 5212.5 4605.7 5219.6 4503.6 4133.8 4477.5 TRUE FALSE FALSE 5008.91759 4282.707642 5810.682032 4991.380774 4813.119376 4213.268449 4632.276871 4388.404433 4105.032549 4670.546937 1.072447758 0.916960626 1.244111688 1.06869299 1.030525855 0.902093161 0.991806085 0.939591121 0.878919023 1 12.18937579 -5.389256129 6.200489923 1.045026313 0.949716743 0.133100793 0.095472196 0.267928031 12.39379743 0.011309592 0.025508677 4.08E-06 5.389256129 -0.09530957 KTSFDQDS(ph)DVDIFPSDFPTEPPSLPR ddPTM_HeLa_SAHA_4h_R1 2 KTSFDQDSDVDIFPSDFPTEPPSLPR 26 1 Q02880-2;Q02880 Q02880-2 TOP2B DNA topoisomerase 2-beta 1 0 KT(0.063)S(0.025)FDQDS(0.912)DVDIFPSDFPTEPPSLPR;KT(0.003)S(0.011)FDQDS(0.979)DVDIFPS(0.007)DFPTEPPSLPR ; 100.15 3.42E-06 20352700 1974.42 1463.2 1462.52 1162.16 2121.17 2128.93 2333.52 2554.9 1324.65 2127.5 TRUE FALSE FALSE 2182.098555 1510.60864 1661.824609 1184.655287 1958.646413 1947.533187 2070.946188 2489.549357 1315.431653 2219.226937 0.983269678 0.680691377 0.748830406 0.533814396 0.882580497 0.877572796 0.933183603 1.121809273 0.59274319 1 11.11584149 -7.386550386 9.287212247 0.992606465 0.819746105 0 0.194289055 0.395531765 28.14437037 0.026278707 0.030009225 4.11E-08 7.386550386 -0.17286036 KTSPAS(ph)LDFPESQK ddPTM_HeLa_SAHA_4h_R1 1 KTSPASLDFPESQK 14 1 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 KT(0.002)S(0.313)PAS(0.685)LDFPESQK 165.86 1.84E-05 7903800 1585.7 1684.1 1667.4 1509.5 1800.6 2143.8 2122 1979.9 1678.8 1773.3 TRUE FALSE FALSE 1752.491201 1738.665945 1894.624589 1538.718555 1662.638417 1961.136179 1883.226975 1929.257025 1667.117094 1849.755641 0.947417682 0.939943583 1.024256689 0.831849635 0.898842193 1.06021365 1.018095003 1.042979398 0.901263419 1 10.85311898 -5.241870861 24.7271173 0.960273931 1.038195921 0.379106255 0.055597817 716.7761498 905729.0844 0.007916507 0.020149888 5.73E-06 5.241870861 0.07792199 KTTEEQVQAS(ph)TPCPR ddPTM_HeLa_SAHA_4h_R1 2 KTTEEQVQASTPCPR 15 1 Q14137 Q14137 BOP1 Ribosome biogenesis protein BOP1 1 0 KTTEEQVQAS(0.638)T(0.362)PCPR;KTTEEQVQAS(0.619)T(0.381)PCPR ; 99.813 0.0023745 9107200 4776.8 4610.4 4163.2 5328.3 5589.2 6157.8 5385 5820.7 4895.3 5243.3 TRUE FALSE FALSE 5279.245741 4759.779985 4730.539215 5431.436951 5160.956703 5633.120797 4779.065627 5671.814922 4861.233209 5469.364323 0.965239364 0.870262009 0.864915726 0.993065488 0.943611798 1.029940678 0.873788131 1.03701538 0.888811372 1 12.41715745 -7.999235425 1.772243355 0.990156533 0.943851997 0 0.067682361 0.526842777 3.375482981 0.012735076 0.011257852 1.00E-08 7.999235425 -0.046304536 KTVEDEDQDS(ph)EEEKDNDSYIK ddPTM_HeLa_SAHA_4h_R1 1 KTVEDEDQDSEEEKDNDSYIK 21 2 Q9Y5T5-4;Q9Y5T5-3;Q9Y5T5-2;Q9Y5T5 Q9Y5T5-4 USP16 Ubiquitin carboxyl-terminal hydrolase 16 1 0 KT(0.001)VEDEDQDS(0.998)EEEKDNDS(0.001)YIK 62.648 0.0033519 25023000 1664.7 2037.2 1568.6 2554.8 1941.5 2325.8 2146.1 1800.5 2365.6 1845 TRUE FALSE FALSE 1839.800784 2103.206617 1782.360639 2604.251848 1792.742689 2127.628755 1904.61518 1754.445817 2349.137597 1924.546979 0.95596564 1.092832048 0.926119579 1.353176553 0.931514122 1.10552186 0.989643381 0.91161496 1.220618474 1 10.91030317 -7.273537882 23.9530835 0.979205996 1.047586271 0 0.144261604 927.7400867 1836772.333 0.019497115 0.022390641 5.33E-08 7.273537882 0.068380275 KTVSLTPS(ph)PT(ph)TQVETPDLVDHDNTSPLFR ddPTM_HeLa_SAHA_4h_R1 1 KTVSLTPSPTTQVETPDLVDHDNTSPLFR 29 1 Q05209-2;Q05209-3;Q05209;H3BM04 Q05209-2 PTPN12 Tyrosine-protein phosphatase non-receptor type 12 2 0 KTVS(0.003)LT(0.008)PS(0.517)PT(0.568)T(0.568)QVET(0.335)PDLVDHDNTSPLFR 60.621 0.0026752 3872800 245.38 306.78 226 242.04 270.08 285.03 244.44 383.39 308.77 185.45 TRUE FALSE FALSE 271.1901942 316.7198733 256.798103 246.7250342 249.3865287 260.7438405 216.9349679 373.5834389 306.6212444 193.4456571 1.401893422 1.637255021 1.327494796 1.275422969 1.289181326 1.347891932 1.121425889 1.931206131 1.585051063 1 7.59578453 -9.07147966 0.827258673 0.996589739 1.398139313 0 0.278395121 0.560456601 0.690406303 0.137809745 0.040227484 8.48E-10 9.07147966 0.401549574 PEPTK(ac)SAPAPK ddPTM_HeLa_SAHA_4h_R1 3 PEPTKSAPAPK 11 1 P58876 P58876 HIST1H2BD Histone H2B type 1-D 0 1 ;; PEPTK(1)SAPAPK;PEPTK(1)SAPAPK;PEPTK(1)SAPAPK 180.66 1.71E-16 1800317600 4111.6 7907.8 6975.62 18304.5 19532.54 22775.5 28132.7 26128 1037.98 3252.47 FALSE TRUE FALSE 4544.076953 8164.017908 7926.221166 18658.81007 18035.961 20834.89927 24967.13455 25459.68359 1030.756613 3392.699899 1.339368965 2.406348381 2.336257672 5.499693643 5.316108569 6.141097029 7.359075456 7.504254532 0.30381603 1 11.72821811 -6.057829872 0.722761484 1.05025186 7.555637559 0.958646834 0.526819054 0.081660867 0.080740538 0.089215794 0.265413938 8.75E-07 6.057829872 6.505385699 up DSGSDLSHRPK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 DSGSDLSHRPKR 12 2 O95251-4;O95251;E7EUP3;D6RFZ5 O95251-4 KAT7 Histone acetyltransferase KAT7;Histone acetyltransferase 0 1 ; DSGSDLSHRPK(1)R;DSGSDLSHRPK(1)R 99.343 0.002935 1801280 284.24 503.04 328.44 1294.59 1952.24 2762.5 1711.19 1970.24 348.67 376.59 FALSE TRUE FALSE 314.1376673 519.3388261 373.1980928 1319.648661 1802.659793 2527.119459 1518.642398 1919.844114 346.2435771 392.8266379 0.799685248 1.322056032 0.950032551 3.359366535 4.588944891 6.433167242 3.86593538 4.887255416 0.881415728 1 8.617748953 -6.057518853 2.193685186 0.926712601 5.001144211 0.904400337 0.608520262 0.061177926 0.582289337 0.090234995 0.169551067 8.76E-07 6.057518853 4.074431611 up KVAEPELMGT(ph)PDGTCYPPPPVPR ddPTM_HeLa_SAHA_4h_R1 1 KVAEPELMGTPDGTCYPPPPVPR 23 1 P27708;F8VPD4;H7BZB3 P27708 CAD CAD protein;Glutamine-dependent carbamoyl-phosphate synthase;Aspartate carbamoyltransferase;Dihydroorotase 1 0 KVAEPELMGT(1)PDGTCYPPPPVPR 135.75 1.75E-10 0 888.22 607.1 658.27 732.18 731.17 854.94 810.56 650.04 714.53 692.39 TRUE FALSE FALSE 981.6470549 626.7704383 747.9756075 746.3524027 675.1479126 782.0943022 719.3536555 633.412918 709.5575276 722.2423214 1.359165789 0.867811841 1.035629712 1.03338226 0.934794172 1.082869667 0.99600042 0.877008864 0.982436928 1 9.49633915 -7.246807072 24.98277819 1.169606073 0.98327566 0.176913387 0.119180081 790.744766 1350095.729 0.023929003 0.029234913 5.66E-08 7.246807072 -0.186330413 KVDLTLLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 KVDLTLLSPK 10 1 E7EVA0;P27816-4;B5MEG9 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 KVDLTLLS(1)PK;KVDLTLLS(1)PK ; 92.265 0.0086316 49296050 4044 4050.5 3659.66 4234.6 4256.3 4198.1 4510 3888.1 3863.1 3940.6 TRUE FALSE FALSE 4469.366475 4181.738858 4158.379406 4316.566806 3930.183214 3840.398262 4002.52293 3788.648032 3836.216373 4110.498551 1.087305206 1.017331306 1.01164843 1.050132181 0.956132976 0.934290139 0.973731746 0.921700369 0.933272771 1 12.00509767 -5.722682636 6.315071649 1.03830396 0.946744238 0.3366476 0.042145669 0.098684074 10.38979108 0.005186368 0.010320929 1.89E-06 5.722682636 -0.091559721 KVDT(ph)RLRALDLT(ph)LGER ddPTM_HeLa_SAHA_4h_R1 1 KVDTRLRALDLTLGER 16 3 Q96A99-2;Q96A99 Q96A99-2 PTX4 Pentraxin-4 2 0 KVDT(1)RLRALDLT(1)LGER 54.457 0.0085459 0 641.89 609.78 600.85 603.1 581.51 712.48 942.75 815.71 625.85 641.03 TRUE FALSE FALSE 709.4069353 629.5372721 682.7307089 614.7738726 536.9548294 651.7726957 836.6692888 794.8453193 621.4946589 668.6679404 1.060925599 0.94147967 1.021031019 0.91940085 0.803021645 0.974732982 1.251247799 1.188699609 0.929451857 1 9.385146138 -4.763033568 24.99961134 0.995724858 1.219973755 0.631739458 0.075895435 22.40862267 351435.7963 0.011760596 0.038256343 1.73E-05 4.763033568 0.224248897 KVDVDEYDENKFVDEEDGGDGQAGPDEGEVDSCLR ddPTM_HeLa_SAHA_4h_R1 2 KVDVDEYDENKFVDEEDGGDGQAGPDEGEVDSCLR 35 2 B1ALC0;O15511;O15511-2 B1ALC0 ARPC5 Actin-related protein 2/3 complex subunit 5 0 0 ; ; 136.27 1.45E-19 21398000 1062.17 1408.82 994.5 981.55 1292.43 1382.65 1517.87 877.91 1329.76 1073.96 FALSE FALSE TRUE 1173.893914 1454.466692 1130.025281 1000.54932 1193.404293 1264.840441 1347.075273 855.4543334 1320.506092 1120.263671 1.047872875 1.298325322 1.008713671 0.893137344 1.065288756 1.129056019 1.202462694 0.76361874 1.178745795 1 10.12962262 -8.560023461 1.420328534 1.008196691 1.058480789 0 0.151455018 1.386874346 5.606262532 0.039531461 0.025522672 2.75E-09 8.560023461 0.050284098 KVEEAEPEEFVVEK ddPTM_HeLa_SAHA_4h_R1 4 KVEEAEPEEFVVEK 14 1 Q13185;S4R2Y4;C9JMM0;B8ZZ43 Q13185 CBX3 Chromobox protein homolog 3 0 0 ;;; ;;; 174.59 2.87E-06 60473600 16436 17152.9 16023 18433.9 16822.9 18442.8 17319.9 19406.9 20567.9 17914.7 FALSE FALSE TRUE 18164.81389 17708.66521 18206.531 18790.71479 15533.93304 16871.36968 15371.01927 18910.4996 20424.76631 18687.09039 0.972051481 0.947641652 0.974283883 1.00554524 0.831265473 0.902835558 0.822547489 1.01195527 1.092988041 1 14.18975434 -5.774592987 24.99954739 0.983359682 0.887942453 0.408283322 0.06112551 140.8902321 267773.8873 0.006775191 0.012334611 1.68E-06 5.774592987 -0.095417229 KVEEEGS(ph)PGDPDHEASTQGR ddPTM_HeLa_SAHA_4h_R1 2 KVEEEGSPGDPDHEASTQGR 20 1 Q9NZT2-2;Q9NZT2;A0A0A0MRN5 Q9NZT2-2 OGFR Opioid growth factor receptor 1 0 KVEEEGS(0.981)PGDPDHEAS(0.015)T(0.004)QGR;KVEEEGS(0.998)PGDPDHEAS(0.001)T(0.001)QGR ; 86.508 0.0009989 2185100 637.3 596.73 615.71 631.68 813.53 700.56 904.22 787.15 664.99 979.07 TRUE FALSE FALSE 704.334138 616.0644435 699.6157523 643.9070798 751.1975072 640.8683468 802.4747858 767.0158428 660.3622804 1021.282499 0.689656524 0.603226281 0.685036464 0.630488705 0.735543307 0.627513296 0.785752019 0.751032005 0.646600995 1 9.996166273 -9.049883923 0.786167054 1.005296133 0.686517197 0 0.120884463 0.220506451 0.243187777 0.041974899 0.011990589 8.91E-10 9.049883923 -0.318778936 KVEEEGSPGDPDHEAS(ph)TQGR ddPTM_HeLa_SAHA_4h_R1 1 KVEEEGSPGDPDHEASTQGR 20 1 Q9NZT2-2;Q9NZT2;A0A0A0MRN5 Q9NZT2-2 OGFR Opioid growth factor receptor 1 0 KVEEEGS(0.158)PGDPDHEAS(0.772)T(0.07)QGR 69.612 0.0041178 39674000 2325.5 2462 1919 2608.3 2805.2 3593.4 3053.7 3101.6 2879.9 2504.4 TRUE FALSE FALSE 2570.10676 2541.770415 2180.511326 2658.787418 2590.266182 3287.222104 2710.089639 3022.265563 2859.858541 2612.37694 0.983819264 0.972972306 0.834684801 1.017765613 0.991536153 1.258326107 1.037403752 1.156902557 1.094734262 1 11.35114736 -5.388049274 8.376644537 0.980049629 1.13925393 0.483969978 0.078136329 0.166235818 10.53407682 0.009407937 0.021079134 4.09E-06 5.388049274 0.159204301 KVEEEQEADEEDVS(ph)EEEAESK ddPTM_HeLa_SAHA_4h_R1 3 KVEEEQEADEEDVSEEEAESK 21 1 Q9H3N1 Q9H3N1 TMX1 Thioredoxin-related transmembrane protein 1 1 0 KVEEEQEADEEDVS(0.998)EEEAES(0.002)K;KVEEEQEADEEDVS(0.994)EEEAES(0.006)K;KVEEEQEADEEDVS(0.999)EEEAES(0.001)K ;; 165.48 1.02E-07 66859900 5003.1 20035.6 7360.9 5883.6 9128.6 9463.5 9903.6 7609.6 10813 8930.2 TRUE FALSE FALSE 5529.349013 20684.76659 8364.005118 5997.485586 8429.16864 8657.15656 8789.220863 7414.957451 10737.75145 9315.224625 0.59358193 2.220533312 0.8978855 0.643836926 0.904880878 0.929355642 0.943532896 0.796004149 1.152709879 1 13.18537484 -4.251336156 21.00467334 0.915017374 0.796003494 0 0.441176405 1127.399871 2343370.723 0.060636301 0.941252604 5.61E-05 4.251336156 -0.11901388 KVEGNFNPFAS(ph)PQK ddPTM_HeLa_SAHA_4h_R1 2 KVEGNFNPFASPQK 14 1 Q5TH58;Q9H6K1-2;Q9H6K1 Q5TH58 C6orf106 Uncharacterized protein C6orf106 1 0 KVEGNFNPFAS(1)PQK;KVEGNFNPFAS(1)PQK ; 102.39 0.0018797 14960000 6276.17 7502.15 5714.95 6079.76 6218.94 7282.01 7210.23 6370.75 7534.19 6374.49 TRUE FALSE FALSE 6936.326357 7745.224582 6493.753624 6197.442546 5742.446161 6661.541781 6398.915944 6207.79544 7481.758958 6649.32546 1.043162408 1.164813578 0.976603366 0.932040789 0.863613339 1.001837227 0.962340614 0.933597773 1.125190668 1 12.69899228 -6.530985841 24.99596572 1.033637643 0.940836215 0.500809315 0.060899905 148.7442681 458610.0481 0.008884502 0.012576812 2.94E-07 6.530985841 -0.092801428 KVELS(ph)ESEEDKGGK ddPTM_HeLa_SAHA_4h_R1 3 KVELSESEEDKGGK 14 2 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 KVELS(0.973)ES(0.027)EEDKGGK;KVELS(0.984)ES(0.016)EEDKGGK;KVELS(0.994)ES(0.006)EEDKGGK ;; 109.72 0.0016757 189571000 7124.8 7309.1 7695.2 8440.7 7941.8 8756.2 8204.1 7694.8 7887.9 8287.7 TRUE FALSE FALSE 7874.219154 7545.919636 8743.861781 8604.081954 7333.301 8010.122499 7280.953076 7497.978158 7833.007462 8645.023306 0.910838395 0.872862845 1.011432991 0.995264171 0.848268505 0.926558809 0.842213239 0.867317287 0.906071295 1 13.07765414 -1.000003278 0.018566762 1.644780458 1.65E-11 0.131543927 0.056611098 2699.989436 3.905202194 131.5549068 226.599355 0.099999245 1.000003278 -1.644780458 VTSAVVGPSHEVQEQSSGPFK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 VTSAVVGPSHEVQEQSSGPFKK 22 1 A0A3B3IRW6;Q2KHR3-2;Q2KHR3 A0A3B3IRW6 QSER1 Glutamine and serine-rich protein 1 0 1 VTSAVVGPSHEVQEQSSGPFK(1)K 162.09 1.38E-16 2301800 265.1 514.31 342.32 764.79 1145.5 1042.8 1155.4 1240.2 312.21 502.51 FALSE TRUE FALSE 292.9844343 530.9739815 388.9695869 779.5936164 1057.732037 953.9475734 1025.391351 1208.47748 310.0373052 524.1756653 0.55894322 1.012969538 0.742059604 1.487275484 2.017896113 1.819900534 1.956197929 2.305481845 0.591475961 1 9.033906568 -6.037823586 2.352825593 0.799689154 2.015268124 0.911577047 0.182651709 0.069956662 0.769414686 0.031970397 0.059898938 9.17E-07 6.037823586 1.21557897 up KVESLQEEIAFLK ddPTM_HeLa_SAHA_4h_R1 1 KVESLQEEIAFLK 13 1 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 153.09 3.43E-06 4421900 1565.2 1648.8 1791.7 1704 2234.2 1993.5 2181.8 1667.5 1796.9 1657.9 FALSE FALSE TRUE 1729.834917 1702.222202 2035.863545 1736.983384 2063.016079 1823.642585 1936.298122 1624.847765 1784.395227 1729.380183 1.000262947 0.984296119 1.177221507 1.004396489 1.192922239 1.054506466 1.119648612 0.939554981 1.031812001 1 10.75603935 -6.820551488 24.99987081 0.998940446 1.08346606 0.217214813 0.071539442 70.93618463 30000.12376 0.010166314 0.013361159 1.51E-07 6.820551488 0.084525615 KVESLQEEIAFLK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 KVESLQEEIAFLKK 14 2 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 1 KVESLQEEIAFLK(1)K 153.94 6.92E-07 657510 274.88 863.88 520.81 483.22 702.62 764.18 817.97 503.86 651.32 290.68 FALSE TRUE FALSE 303.7931396 891.8702788 591.7832745 492.5734218 648.7854074 699.0675648 725.9298628 490.9719908 646.7874111 303.2126374 1.001914505 2.941402069 1.951710455 1.624514816 2.139704377 2.305535716 2.394127993 1.619233272 2.133114954 1 8.244186073 -7.294693395 23.79500294 1.000903839 2.128626086 0.233395046 0.508854417 138.5835922 99163.49371 0.059015991 0.067489574 5.07E-08 7.294693395 1.127722247 KVESLQEEIAFLKK ddPTM_HeLa_SAHA_4h_R1 1 KVESLQEEIAFLKK 14 2 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 134.04 0.00015085 4275000 2539.3 1941.2 2731.8 2824.3 2747.7 2839.6 3072.8 2179.4 2633.9 2927.9 FALSE FALSE TRUE 2806.395225 2004.096154 3104.075477 2878.968411 2537.17182 2597.650105 2727.040457 2123.654104 2615.570475 3054.136098 0.918883486 0.656190847 1.016351393 0.942645749 0.830733058 0.85053515 0.892900765 0.695337089 0.856402725 1 11.57654864 -12.53062536 0.024634882 2.118616306 2.35E-06 0.038605153 0.10948241 1346.061056 3.186635719 182.8554319 102.0178662 2.95E-13 12.53062536 -2.118613959 KVIQYLAYVASSHK ddPTM_HeLa_SAHA_4h_R1 2 KVIQYLAYVASSHK 14 1 P35579;P35579-2;Q5BKV1 P35579 MYH9 Myosin-9 0 0 ; ; 151.7 7.04E-06 12767500 1257.07 5635.3 3105.1 3482.1 2795 2096.58 8133.3 3099 1355.21 1706.11 FALSE FALSE TRUE 1389.29439 5817.887417 3528.246857 3549.501081 2580.847704 1917.939589 7218.119678 3019.732067 1345.778983 1779.668752 0.780647741 3.269084436 1.982530094 1.994472891 1.450184312 1.077694704 4.055878192 1.696794454 0.756196333 1 10.79739302 -7.294342863 24.76304357 0.896416862 2.197718465 0.36728433 0.824389312 445.3791257 335189.6117 0.135673443 0.155154417 5.08E-08 7.294342863 1.301301602 KVMEEEVLIK ddPTM_HeLa_SAHA_4h_R1 1 KVMEEEVLIK 10 1 Q8WXE1-5 Q8WXE1-5 ATRIP ATR-interacting protein 0 0 73.841 0.015844 18450000 2478.2 2417.8 3222.9 2181 2496.1 1173.7 3190.1 898.91 1028.8 1951.5 FALSE FALSE TRUE 2738.868446 2496.138306 3662.100028 2223.216409 2304.849357 1073.694157 2831.141552 875.9171838 1021.640497 2035.638715 1.345459008 1.226218723 1.798993112 1.092146849 1.132248733 0.527448289 1.39078783 0.430291081 0.501877121 1 10.99126582 -5.472338459 10.53528979 1.216443311 0.84100056 0.150522061 0.387075391 0.869143273 178.6220457 0.04424875 0.098765102 3.37E-06 5.472338459 -0.375442751 KVMVLDFVTPTPLGTR ddPTM_HeLa_SAHA_4h_R1 3 KVMVLDFVTPTPLGTR 16 1 Q16881;A0A087WSY9;A0A087WSW9;E9PIR7;A0A182DWI3;Q16881-5;F8W809;Q16881-2;Q16881-4;Q16881-3;Q16881-6;E9PKD3;A0A0B4J225;E9PIZ5;E9PKI4;E9PLT3;E9PQI3 Q16881 TXNRD1 "Thioredoxin reductase 1, cytoplasmic" 0 0 ;; ;; 112.67 0.00054712 2198050 1365.24 1517.74 2004.43 2178.82 1958.52 1707.85 1916.5 970.76 1438.98 1782.44 FALSE FALSE TRUE 1508.842207 1566.915772 2277.583282 2220.994212 1808.458621 1562.331572 1700.850376 945.9293648 1428.966021 1859.289711 0.811515386 0.84274966 1.224974929 1.194539075 0.972661017 0.840284095 0.91478502 0.508758457 0.768554794 1 10.86053587 -3.961640288 1.70069508 0.949065383 4.42E-14 0.452133171 0.146596771 1.850501554 2.696872689 0.022285201 3.653261599 0.000109234 3.961640288 -0.949065383 KVNLGVGAYR ddPTM_HeLa_SAHA_4h_R1 1 KVNLGVGAYR 10 1 P17174 P17174 GOT1 "Aspartate aminotransferase, cytoplasmic" 0 0 79.986 0.017505 2680500 2224.5 2171.1 2601.6 2706.4 2532.4 2352.6 2650 1689.9 1527.7 2301 FALSE FALSE TRUE 2458.483116 2241.445065 2956.132499 2758.786286 2338.368059 2152.145245 2351.815026 1646.674805 1517.068611 2400.207371 1.024279463 0.933854754 1.231615458 1.149394973 0.974235846 0.896649711 0.979838265 0.686055224 0.632057309 1 11.22894334 -3.678276395 1.03919125 1.027910977 1.31E-19 0.20910058 0.154654586 3.153162438 1.143746364 0.014061009 4.819730756 0.00020976 3.678276395 -1.027910977 KVPT(ph)IILS(ph)VS(ph)Y(ph)K ddPTM_HeLa_SAHA_4h_R1 2 KVPTIILSVSYK 12 1 R4GN78;F8VR14;H0YI72;Q7Z6G8-9;Q7Z6G8-8;Q7Z6G8-10;Q7Z6G8-7;Q7Z6G8-2;Q7Z6G8-5;Q7Z6G8-4;Q7Z6G8-3;Q7Z6G8-6;Q7Z6G8 R4GN78 ANKS1B Ankyrin repeat and sterile alpha motif domain-containing protein 1B 4 0 KVPT(1)IILS(1)VS(1)Y(1)K;KVPT(1)IILS(1)VS(1)Y(1)K ; 82.85 0.0061334 9448900 645.89 629.78 610.4 698.35 856.51 843.8 806.71 867.04 900.38 921.98 TRUE FALSE FALSE 713.8276736 650.1852852 693.5821332 711.8675741 790.8843888 771.9034929 715.9368677 844.8623723 894.1141823 961.7310699 0.742232102 0.676057274 0.721180957 0.740194007 0.822355036 0.802618858 0.744425225 0.878480896 0.92969252 1 9.909489717 -9.165320759 0.908137606 1.000495445 0.763412334 0.647453957 0.057791417 0.249711539 0.37016067 0.038745419 0.01100827 6.83E-10 9.165320759 -0.237083111 KVQIPVSRPDPEPVS(ph)DNEEDS(ph)YDEEIHDPR ddPTM_HeLa_SAHA_4h_R1 1 KVQIPVSRPDPEPVSDNEEDSYDEEIHDPR 30 2 G3V1L9;Q07157;A0A087X0K9;G5E9E7;Q07157-2;H0YKB1 G3V1L9 TJP1 Tight junction protein ZO-1 2 0 KVQIPVS(0.001)RPDPEPVS(0.968)DNEEDS(0.786)Y(0.246)DEEIHDPR 46.404 0.013934 22599000 1738.9 1477.2 1809.4 1730.1 1909.2 1342.5 1814 1594.7 1789.2 1720.3 TRUE FALSE FALSE 1921.80548 1525.062249 2055.975609 1763.588587 1762.917508 1228.111447 1609.883946 1553.909883 1776.748812 1794.470552 1.070959609 0.849867526 1.145728252 0.982790487 0.982416516 0.684386515 0.897135896 0.865943373 0.990124251 1 10.80934253 -5.443874294 7.083336271 1.023577063 0.823940461 0.48288747 0.087931038 0.151562966 11.73870521 0.011781278 0.026417153 3.60E-06 5.443874294 -0.199636603 KVQTESSTGS(ph)VGSNR ddPTM_HeLa_SAHA_4h_R1 2 KVQTESSTGSVGSNR 15 1 Q9BRX2 Q9BRX2 PELO Protein pelota homolog 1 0 KVQTES(0.002)S(0.005)T(0.138)GS(0.854)VGS(0.001)NR;KVQTESS(0.008)T(0.166)GS(0.822)VGS(0.004)NR ; 130.02 0.00074789 2276240 588.66 690.31 811.63 480.94 931.714 1009 596.68 924.27 436.72 588.71 TRUE FALSE FALSE 650.5779597 712.6764969 922.2347096 490.2492892 860.3262746 923.0275235 529.539996 900.6285117 433.68083 614.0921692 1.059414193 1.160536696 1.501785491 0.798331771 1.400972554 1.503076525 0.862313546 1.466601525 0.706214558 1 9.262311396 -7.199131527 3.469860913 1.026770349 1.240254544 0.220917825 0.256680054 0.333031331 7.952105865 0.037255592 0.045302233 6.32E-08 7.199131527 0.213484195 KVQVAALQAS(ph)PPLDQDDR ddPTM_HeLa_SAHA_4h_R1 5 KVQVAALQASPPLDQDDR 18 1 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1;B1AN86;A0A3B3IU26;U3KQJ2 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 KVQVAALQAS(1)PPLDQDDR;KVQVAALQAS(1)PPLDQDDR;KVQVAALQAS(1)PPLDQDDR;KVQVAALQAS(1)PPLDQDDR;KVQVAALQAS(1)PPLDQDDR ;;;; 128.95 8.48E-05 74800000 15716.94 17634.84 14572.85 16646.53 19187.864 19559.48 19453.51 17135.2 20128.2 17082.19 TRUE FALSE FALSE 17370.11986 18206.22039 16558.76211 16968.74766 17717.69401 17892.90227 17264.54986 16696.9064 19988.12622 17818.68681 0.974826038 1.021748717 0.929291944 0.952300685 0.994332197 1.004165035 0.968901358 0.93704472 1.121750802 1 14.1211034 KVQVAALQAS(ph)PPLDQDDRAFEVMDEFDGR ddPTM_HeLa_SAHA_4h_R1 2 KVQVAALQASPPLDQDDRAFEVMDEFDGR 29 2 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1;B1AN86;A0A3B3IU26;U3KQJ2 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 KVQVAALQAS(1)PPLDQDDRAFEVMDEFDGR;KVQVAALQAS(1)PPLDQDDRAFEVMDEFDGR ; 67.899 0.00016197 14876300 2650.5 1280.36 2468.5 2067.51 2206.1 1930.99 2663.1 1741.68 946.39 1903.69 TRUE FALSE FALSE 2929.291751 1321.844504 2804.894325 2107.529646 2037.069095 1766.458789 2363.440979 1697.130348 939.8039949 1985.767392 1.475143444 0.665659286 1.412498934 1.061317481 1.025834699 0.889559772 1.190190245 0.854647102 0.47326993 1 10.95548092 -6.015630093 22.83156017 1.194055055 1.002974734 0 0.321489553 384.3208882 561397.7846 0.037461732 0.063511114 9.65E-07 6.015630093 -0.19108032 KVS(ph)VSESNVLLDEEVLTDPK ddPTM_HeLa_SAHA_4h_R1 1 KVSVSESNVLLDEEVLTDPK 20 1 H0Y465;P21359-2;P21359-6;P21359;J3QSG6 H0Y465 NF1 Neurofibromin;Neurofibromin truncated 1 0 KVS(0.478)VS(0.261)ES(0.261)NVLLDEEVLTDPK 160.12 1.31E-06 7785800 2657.7 4431.5 3646.5 5082.2 5363.3 6195.8 5850.6 4996.2 4370.6 3728.7 TRUE FALSE FALSE 2937.24908 4575.083508 4143.42603 5180.57333 4952.365113 5667.882983 5192.27509 4868.404438 4340.184639 3889.462505 0.75518123 1.176276543 1.065295275 1.331950963 1.273277505 1.457240679 1.334959544 1.251690801 1.115882884 1 11.92535508 -6.666244734 1.394622739 0.888921416 1.338305362 0.575655666 0.124931383 0.151009318 0.592830757 0.021452707 0.033274732 2.16E-07 6.666244734 0.449383947 KVSIIDAPDIS(ph)S(ph)LK ddPTM_HeLa_SAHA_4h_R1 1 KVSIIDAPDISSLK 14 1 Q8ND71 Q8ND71 GIMAP8 GTPase IMAP family member 8 2 0 KVSIIDAPDIS(1)S(1)LK 71.354 0.0075312 0 2442.4 2633.8 2818.1 2655.1 3245 3430.8 2872.5 2735.2 2722.5 2959.2 TRUE FALSE FALSE 2699.302838 2719.136848 3202.135992 2706.4933 2996.368801 3138.476539 2549.27874 2665.237545 2703.553901 3086.785594 0.874470466 0.880895924 1.037369099 0.8767999 0.970708431 1.016745881 0.82586842 0.863434619 0.875847648 1 11.59188956 KVSVS(ph)ESNVLLDEEVLTDPK ddPTM_HeLa_SAHA_4h_R1 1 KVSVSESNVLLDEEVLTDPK 20 1 H0Y465;P21359-2;P21359-6;P21359;J3QSG6 H0Y465 NF1 Neurofibromin;Neurofibromin truncated 1 0 KVS(0.291)VS(0.661)ES(0.048)NVLLDEEVLTDPK 124.19 6.95E-05 5676900 1886.9 2527.6 2296 3362.2 3318.4 3264.5 3443.8 3279.2 2939.5 2247.5 TRUE FALSE FALSE 2085.372799 2609.495898 2608.886923 3427.280243 3064.144909 2986.346234 3056.29456 3195.322812 2919.04378 2344.400724 0.889512095 1.11307588 1.112816122 1.461900352 1.307005615 1.273820727 1.303657062 1.362959318 1.245112984 1 11.19500347 -6.691392697 1.867428414 0.95042892 1.331794528 0.500396512 0.117405267 0.089087363 0.634447464 0.012560962 0.01861557 2.04E-07 6.691392697 0.381365607 KVTAEADSS(ph)SPTGILATSESK ddPTM_HeLa_SAHA_4h_R1 1 KVTAEADSSSPTGILATSESK 21 1 A0MZ66-7;A0MZ66-8;A0MZ66-4;A0MZ66-5;A0MZ66-6;A0MZ66;A0MZ66-3 A0MZ66-7 KIAA1598 Shootin-1 1 0 KVTAEADS(0.019)S(0.419)S(0.419)PT(0.143)GILATSESK 81.144 0.00070719 2599300 1431.6 1220.6 1698.3 1390.2 1180.4 1572.7 1386 1520.1 1532.5 1463.5 TRUE FALSE FALSE 1582.182256 1260.148241 1929.73548 1417.109331 1089.958007 1438.697112 1230.043632 1481.218043 1521.835208 1526.598647 1.0364101 0.82546139 1.264075193 0.928278912 0.713978104 0.94242001 0.805741335 0.970273389 0.996879704 1 10.5761051 -6.004109412 24.96061876 1.020474066 0.855478545 0.303873056 0.119094135 150.3919018 913493.7065 0.015876404 0.028296925 9.91E-07 6.004109412 -0.164995522 KVTAEADSSS(ph)PTGILATSESK ddPTM_HeLa_SAHA_4h_R1 1 KVTAEADSSSPTGILATSESK 21 1 A0MZ66-7;A0MZ66-8;A0MZ66-4;A0MZ66-5;A0MZ66-6;A0MZ66;A0MZ66-3 A0MZ66-7 KIAA1598 Shootin-1 1 0 KVTAEADS(0.002)S(0.168)S(0.814)PT(0.015)GILATSESK 79.332 0.00080014 11748000 2989.2 3631.2 3047.3 3436.8 3498.9 4058.9 3813.5 3401.2 3318.4 3690.3 TRUE FALSE FALSE 3303.617771 3748.853263 3462.570174 3503.324234 3230.815038 3713.058885 3384.394943 3314.202229 3295.306984 3849.406893 0.858214749 0.97387815 0.899507449 0.91009455 0.839302035 0.964579476 0.879199066 0.860964383 0.856055771 1 11.91042046 -9.467725521 1.09744356 1.002457065 0.896531023 0 0.060519971 0.374093271 0.775055307 0.031618642 0.007081727 3.41E-10 9.467725521 -0.105926041 KVTGTEGSSSTLVDYTSTSSTGGS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 2 KVTGTEGSSSTLVDYTSTSSTGGSPVR 27 1 A0A2R8Y880;Q7Z6E9-2;Q7Z6E9 A0A2R8Y880 RBBP6 E3 ubiquitin-protein ligase RBBP6 1 0 KVTGTEGSSSTLVDYTSTSSTGGS(0.999)PVR;KVTGTEGSSSTLVDYTS(0.002)T(0.001)S(0.028)S(0.028)T(0.019)GGS(0.922)PVR ; 137.9 5.30E-10 15150400 1966.85 2357.77 2132.21 2754.7 2732.3 2394.12 3086.7 2859.9 2833.3 2561.1 TRUE FALSE FALSE 2173.732307 2434.163295 2422.776475 2808.021202 2522.951764 2190.127507 2739.376392 2786.747899 2813.582835 2671.521555 0.813668265 0.911152407 0.906890109 1.051094346 0.944387576 0.819805292 1.025399322 1.043131355 1.053176168 1 11.38344594 KVTLSVLSR ddPTM_HeLa_SAHA_4h_R1 2 KVTLSVLSR 9 1 O00625 O00625 PIR Pirin 0 0 ; ; 89.08 0.0093666 6733800 3988.8 4446.4 11178.7 7495.4 7547.7 1479.94 8218.1 713.1 236.49 2218.3 FALSE FALSE TRUE 4408.360285 4590.466277 12702.07502 7640.484306 6969.396857 1353.840786 7293.377759 694.8599346 234.8442468 2313.941769 1.905130174 1.983829645 5.489366755 3.301934564 3.011915403 0.585079886 3.15192796 0.300292749 0.101490993 1 11.17613684 -5.258433748 24.93643773 2.027473317 1.526383123 0.049318134 1.561787816 1138.363665 9444451.645 0.2288511 0.556839466 5.52E-06 5.258433748 -0.501090194 KVTSPSSSSSSSSSDSES(ph)DDEADVSEVTPR ddPTM_HeLa_SAHA_4h_R1 2 KVTSPSSSSSSSSSDSESDDEADVSEVTPR 30 1 P56181-2 P56181-2 NDUFV3 "NADH dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial" 1 0 KVTSPSSSSSSSSSDS(0.012)ES(0.978)DDEADVS(0.01)EVT(0.001)PR;KVTSPSSSSSS(0.007)S(0.074)S(0.296)S(0.074)DS(0.095)ES(0.453)DDEADVSEVTPR ; 107.21 1.49E-09 19789400 3576 3228.1 2661.1 3248.6 3432.8 3912.6 3890.8 3411.7 3289.9 3367 TRUE FALSE FALSE 3952.140087 3332.692558 3023.74085 3311.481351 3169.779606 3579.224468 3452.996944 3324.433654 3267.005318 3512.167848 1.125270847 0.948899 0.8609329 0.942859651 0.902513702 1.019092658 0.983152598 0.946547488 0.930196238 1 11.77814608 -7.191014051 9.237664708 1.059124915 0.942934023 0.145833138 0.063491412 0.308111098 38.78570213 0.010189194 0.012482979 6.44E-08 7.191014051 -0.116190892 KVVDYSQFQES(ph)DDADEDYGR ddPTM_HeLa_SAHA_4h_R1 19 KVVDYSQFQESDDADEDYGR 20 1 Q9H1E3 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(0.999)DDADEDYGR;KVVDYSQFQES(0.999)DDADEDYGR;KVVDYSQFQES(0.999)DDADEDY(0.001)GR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR;KVVDYSQFQES(1)DDADEDYGR ;;;;;;;;;;;;;;;;;; 162.82 9.84E-07 1966383100 33650.48 46122.45 36567.86 41654.69 43531.39 49831.03 43762.93 39312.73 56908.34 43039.11 TRUE FALSE FALSE 37189.99188 47616.84764 41551.13752 42460.97676 40196.0243 45585.1459 38838.60994 38307.16729 56512.31023 44894.73666 0.828382003 1.060633187 0.925523583 0.945789639 0.895339349 1.015378401 0.865103859 0.853266332 1.258773621 1 15.4542587 -4.558434734 24.94760045 0.933562717 0.856225473 0.009215762 0.120732616 220.200207 154501.5174 0.010511288 0.039329921 2.76E-05 4.558434734 -0.077337244 KVVDYSQFQES(ph)DDADEDYGRDSGPPTK ddPTM_HeLa_SAHA_4h_R1 3 KVVDYSQFQESDDADEDYGRDSGPPTK 27 2 Q9H1E3 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 KVVDYSQFQES(1)DDADEDYGRDSGPPTK;KVVDY(0.001)S(0.001)QFQES(0.999)DDADEDYGRDSGPPTK;KVVDY(0.005)S(0.005)QFQES(0.988)DDADEDY(0.001)GRDS(0.001)GPPTK ;; 72.286 0.00017509 1662573300 4139.91 3634.35 4374.71 4382.12 4022.14 3870.36 3850.1 3901.27 3735.06 4081.84 TRUE FALSE FALSE 4575.364728 3752.105325 4970.872696 4466.942269 3713.964502 3540.583554 3416.876615 3801.481162 3709.067413 4257.828098 1.074577137 0.881225178 1.167466742 1.049112873 0.872267366 0.831546853 0.802492852 0.892821663 0.871117229 1 12.05590199 -5.704141567 4.901837341 1.035179927 0.84131999 0.421745553 0.08698844 0.097164998 4.756162154 0.009996926 0.020112278 1.98E-06 5.704141567 -0.193859937 KVVVS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 1 KVVVSPTK 8 1 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 1 0 KVVVS(0.551)PT(0.449)K 64.827 0.023339 3358900000 17086 15537 14207 15491 14899 16659 17860 17771 16592 16130 TRUE FALSE FALSE 18883.18387 16040.40899 16143.05597 15790.85071 13757.44184 15239.55948 15850.3458 17316.44355 16476.53492 16825.44324 1.122299342 0.953342433 0.959443133 0.938510236 0.817657024 0.905744904 0.942046255 1.029182014 0.979263053 1 14.03835689 -7.106853628 5.510223082 1.057583718 0.928645442 0.334045362 0.061560765 0.157397806 6.831939955 0.011241914 0.013848771 7.82E-08 7.106853628 -0.128938276 KVVVS(ph)PTKK ddPTM_HeLa_SAHA_4h_R1 1 KVVVSPTKK 9 2 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 1 0 KVVVS(0.951)PT(0.049)KK 130.1 0.00065332 0 7438.6 5670.7 6230.4 8433.7 6001 6870.2 9177.8 8883.7 5780 7107.7 TRUE FALSE FALSE 8221.026078 5854.434401 7079.446465 8596.946459 5541.204676 6284.820309 8145.089789 8656.467817 5739.776509 7414.147731 1.108829548 0.789630125 0.954856407 1.159532662 0.747382555 0.847679401 1.098587469 1.167560741 0.774165382 1 12.85606515 KVYEDSGIPLPAES(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 KVYEDSGIPLPAESPK 16 1 F8W038;F8W1H0;H0YIS7;Q8IXM2-2;Q8IXM2;Q8IXM2-3 F8W038 C17orf49;RNASEK-C17orf49;BAP18 Chromatin complexes subunit BAP18 1 0 KVYEDSGIPLPAES(1)PK;KVYEDS(0.001)GIPLPAES(0.999)PK ; 117.48 0.00045116 12627100 3502.7 4084.1 3022.1 3189.8 3408.7 4087.4 3736.9 3486.4 4295.1 3773.8 TRUE FALSE FALSE 3871.130057 4216.42752 3433.93605 3251.543192 3147.526142 3739.130525 3316.414177 3397.222936 4265.210049 3936.506987 0.983392147 1.071108862 0.872330739 0.825997058 0.799573366 0.94986 0.842476385 0.863004422 1.083501201 1 11.94270032 -6.66272843 7.357094374 0.997727437 0.856907478 0.724375808 0.051147444 0.088776931 5.824103453 0.006618807 0.009365486 2.17E-07 6.66272843 -0.140819959 KWDGS(ph)EEDEDNSK ddPTM_HeLa_SAHA_4h_R1 4 KWDGSEEDEDNSK 13 1 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 1 0 KWDGS(1)EEDEDNSK;KWDGS(0.998)EEDEDNS(0.002)K;KWDGS(1)EEDEDNSK;KWDGS(1)EEDEDNSK ;;; 181.58 1.29E-05 187423300 8647.5 7665.69 7572.55 7919.82 8929.18 8966.2 9827.7 8970.51 8072.9 8212.58 TRUE FALSE FALSE 9557.083726 7914.063386 8604.497678 8073.119568 8245.028157 8202.229318 8721.861331 8741.057343 8016.720032 8566.664515 1.115613167 0.923820861 1.004416324 0.942387735 0.96245489 0.957458916 1.018116364 1.020357145 0.93580413 1 13.06451788 -7.257451276 24.99200539 1.054595106 0.975841191 0 0.054537032 286.7278852 1796819.043 0.008566039 0.010284418 5.53E-08 7.257451276 -0.078753915 KWDGS(ph)EEDEDNSKK ddPTM_HeLa_SAHA_4h_R1 2 KWDGSEEDEDNSKK 14 2 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 1 0 KWDGS(0.944)EEDEDNS(0.056)KK;KWDGS(0.949)EEDEDNS(0.051)KK ; 84.94 0.0093462 18669200 2740 1996.1 2132.99 2274.65 2616.3 3059.1 2555 2850 2254.13 2355.8 TRUE FALSE FALSE 3028.205772 2060.77495 2423.662769 2318.67914 2415.839659 2798.44747 2267.504676 2777.101127 2238.443326 2457.370067 1.232295376 0.838609934 0.986283182 0.943561237 0.983099653 1.138797736 0.922736346 1.130111074 0.910910146 1 11.26289942 -7.270943393 24.96777625 1.109695033 0.992464445 0 0.117469133 829.4570635 2179045.314 0.019686395 0.022663824 5.36E-08 7.270943393 -0.117230588 KWDGSEEDEDNS(ph)KK ddPTM_HeLa_SAHA_4h_R1 2 KWDGSEEDEDNSKK 14 2 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 1 0 KWDGS(0.311)EEDEDNS(0.689)KK;KWDGS(0.068)EEDEDNS(0.932)KK ; 80.96 0.011702 27397000 3150.1 2570.7 2787.6 2893.7 3104.6 3979.2 3508.3 3664.1 3533.1 2863.69 TRUE FALSE FALSE 3481.441971 2653.992367 3167.479611 2949.711748 2866.726219 3640.149774 3113.536851 3570.377628 3508.512869 2987.15769 1.165469765 0.888467447 1.060365719 0.987464357 0.959683591 1.218599803 1.042307495 1.195242434 1.174532192 1 11.54455768 -3.075964186 0.896789568 1.055002764 2.066154844 0.156401894 0.098708796 23.9733964 2.786057474 0.015471396 38.81832169 0.000839529 3.075964186 1.01115208 KY(ph)EADMCVRR ddPTM_HeLa_SAHA_4h_R1 1 KYEADMCVRR 10 2 Q9NRZ7-2;Q9NRZ7;Q9NRZ7-3 Q9NRZ7-2 AGPAT3 1-acyl-sn-glycerol-3-phosphate acyltransferase gamma 1 0 KY(1)EADMCVRR 52.579 0.023422 6778200 1753.7 1912.7 2096.1 2117.1 2454.7 2412.9 2317.4 1593.6 2087.1 1866.5 TRUE FALSE FALSE 1938.162212 1974.672735 2381.745592 2158.079532 2266.621416 2207.307345 2056.640053 1552.83802 2072.575701 1946.973949 0.995474137 1.014226583 1.223306348 1.108427533 1.16417655 1.133711802 1.056326436 0.797564867 1.064511265 1 10.92701787 -6.973060687 24.99109507 0.998230515 1.089613172 0.059329954 0.107951988 320.3590751 297190.4616 0.016851427 0.022146818 1.06E-07 6.973060687 0.091382656 KY(ph)IGPCGGR ddPTM_HeLa_SAHA_4h_R1 2 KYIGPCGGR 9 1 A0A2R8Y548;P53420 A0A2R8Y548 COL4A4 Collagen alpha-4(IV) chain 1 0 KY(1)IGPCGGR;KY(1)IGPCGGR ; 71.501 0.011123 92051000 7615.4 5588.5 7111.8 7528.8 7507.2 7101.8 8174.4 4823.5 6460.9 7276.9 TRUE FALSE FALSE 8416.422713 5769.571067 8080.959067 7674.530811 6931.999958 6496.686686 7254.594998 4700.121854 6415.938071 7590.642771 1.108789198 0.760089921 1.064594832 1.011051507 0.913229639 0.855880968 0.95572868 0.619199453 0.845243053 1 12.89000634 -3.286764283 0.471074462 1.035774504 2.04E-14 0.271459213 0.12006686 6.198442463 0.472329881 0.022237002 4.38691026 0.000516697 3.286764283 -1.035774504 KY(ph)Y(ph)AEVETR ddPTM_HeLa_SAHA_4h_R1 1 KYYAEVETR 9 1 Q96KP1 Q96KP1 EXOC2 Exocyst complex component 2 2 0 KY(1)Y(1)AEVETR 51.445 0.020655 5224300 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 KYAVLYQPLFDKR ddPTM_HeLa_SAHA_4h_R1 2 KYAVLYQPLFDKR 13 2 P55209;F8W118;P55209-2;F8W0J6;H0YIV4;B7Z9C2;H0YHC3;F8VV59;F5H4R6;F8VY35;F8W020;H0YH88;F8VRJ2;F8W543;F8VVB5 P55209 NAP1L1 Nucleosome assembly protein 1-like 1 0 0 ; ; 77.597 0.015469 4478900 2661.8 2015.97 3523.6 2832.4 2930 1459.35 3223.5 779.4 726.63 1656.25 FALSE FALSE TRUE 2941.780337 2081.288751 4003.777858 2887.225198 2705.504033 1335.00517 2860.783296 759.4640766 721.5733227 1727.659043 1.702755152 1.204687209 2.31745834 1.671177661 1.565994195 0.772724905 1.655872614 0.439591411 0.417659564 1 10.75460281 -4.252241054 24.14258382 1.412422997 0.439590578 0.221197688 0.516255993 749.4894567 1967094.857 0.061232255 0.993213922 5.59E-05 4.252241054 -0.972832419 KYDAFLASESLIK ddPTM_HeLa_SAHA_4h_R1 1 KYDAFLASESLIK 13 1 P62906 P62906 RPL10A 60S ribosomal protein L10a 0 0 124.51 0.00044328 1345800 1491.2 1831.8 1767.6 1860.6 1860.1 1621 2108.1 1660.5 1681.7 1642 FALSE FALSE TRUE 1648.051258 1891.151522 2008.479323 1896.614603 1717.57954 1482.881681 1870.89104 1618.026814 1669.996913 1712.794656 0.96220014 1.104132078 1.172632876 1.10732165 1.002793612 0.865767344 1.092303175 0.944670635 0.975012917 1 10.74213648 -2.655442582 14.52523867 1.008337374 0.641799084 0 0.08985369 0 0 0.012314371 0 0.002210841 2.655442582 -0.366538291 KYEEIDNAPEER ddPTM_HeLa_SAHA_4h_R1 2 KYEEIDNAPEER 12 1 P49411 P49411 TUFM "Elongation factor Tu, mitochondrial" 0 0 ; ; 133.04 0.0019066 29928000 8035.6 9831.1 8197.4 7789 9901 8971 9538.2 8828.8 9499 9707.4 FALSE FALSE TRUE 8880.821277 10149.63409 9314.498982 7939.767358 9142.387519 8206.620331 8464.936633 8602.97208 9432.895686 10125.93352 0.877037288 1.002340581 0.919865705 0.78410226 0.90286861 0.810455679 0.835966049 0.849597922 0.931558129 1 13.3057673 -6.43636015 6.354032914 0.945580254 0.839266641 0.615210566 0.043752008 0.16109902 9.799486922 0.008293298 0.012678643 3.66E-07 6.43636015 -0.106313613 KYEFGESDLR ddPTM_HeLa_SAHA_4h_R1 1 KYEFGESDLR 10 1 Q14204;A0A2R8Y706;A0A2R8Y5T0;A0A2R8Y542;A0A2R8Y6I5 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 89.679 0.0062313 0 5658.4 6118.1 5957.8 6385.6 7643.6 7802.8 7115.3 7462.8 6855.4 6453.8 FALSE FALSE TRUE 6253.576474 6316.330454 6769.697957 6509.202522 7057.949019 7137.957543 6314.667718 7271.912382 6807.692713 6732.054902 0.928925353 0.938247021 1.005591614 0.966896827 1.048409308 1.060294018 0.938000033 1.080192079 1.011235472 1 12.71683123 -5.774641468 24.63120815 0.966597938 1.027070023 0.271865455 0.043779468 179.1185918 334183.0378 0.006497012 0.011831211 1.68E-06 5.774641468 0.060472085 KYEQGFITDPVVLSPK ddPTM_HeLa_SAHA_4h_R1 1 KYEQGFITDPVVLSPK 16 1 P12268;H0Y4R1 P12268 IMPDH2 Inosine-5-monophosphate dehydrogenase 2 0 0 137.52 1.29E-05 767020 627 548.36 674.05 687 715.4 474.43 601.1 519.65 737.15 698.47 FALSE FALSE TRUE 692.9507368 566.1272238 765.9060237 700.2978784 660.5862066 434.0058949 533.462646 506.3581054 732.0201131 728.5844599 0.951091843 0.777023468 1.05122476 0.961175975 0.906670733 0.595683711 0.732190536 0.694988891 1.004715518 1 9.508952414 -5.390244948 4.710763232 0.963870335 0.681459875 0.740248593 0.075176749 0.082408449 2.798445941 0.01058598 0.024275374 4.07E-06 5.390244948 -0.28241046 KYES(ph)DEDSLGSSGR ddPTM_HeLa_SAHA_4h_R1 1 KYESDEDSLGSSGR 14 1 O00418 O00418 EEF2K Eukaryotic elongation factor 2 kinase 1 0 KYES(0.981)DEDS(0.017)LGS(0.001)S(0.001)GR 60.528 0.023289 12883000 1345.1 1458.7 1371.2 1634 1686.3 2089.4 1780.7 1713.8 1659.9 1657.6 TRUE FALSE FALSE 1486.58379 1505.962837 1558.059995 1665.628433 1557.096058 1911.371365 1580.330949 1669.963478 1648.348621 1729.067248 0.859760539 0.870968344 0.901098553 0.963310383 0.900541063 1.105434949 0.913978882 0.965817541 0.953316664 1 10.75577827 KYGGSVGSQPPPVAPEPGPVPS(ph)SPSQEPPTKR ddPTM_HeLa_SAHA_4h_R1 1 KYGGSVGSQPPPVAPEPGPVPSSPSQEPPTKR 32 2 A0A087WTZ5;E9PJ81;E9PRQ7;Q04323;Q04323-2;E9PS08 A0A087WTZ5 UBXN1 UBX domain-containing protein 1 1 0 KYGGSVGSQPPPVAPEPGPVPS(0.458)S(0.458)PS(0.062)QEPPT(0.022)KR 47.274 0.0073841 6778400 892.11 550.27 419.36 791.66 523.42 665.81 527.2 455.58 536.03 539.77 TRUE FALSE FALSE 985.9462229 568.099109 476.5081969 806.9837241 483.3156727 609.0792423 467.8780685 443.9269233 532.2997236 563.0421263 1.751105605 1.008981535 0.846310027 1.433256388 0.858400553 1.081764958 0.830982349 0.788443533 0.945399463 1 9.137099057 -5.776756783 0.757024586 1.325819098 0.822484207 0.044813606 0.284763769 0.867519442 0.891446381 0.063489215 0.241153672 1.67E-06 5.776756783 -0.503334891 KYGGSVGSQPPPVAPEPGPVPSS(ph)PSQEPPTKR ddPTM_HeLa_SAHA_4h_R1 2 KYGGSVGSQPPPVAPEPGPVPSSPSQEPPTKR 32 2 A0A087WTZ5;E9PJ81;E9PRQ7;Q04323;Q04323-2;E9PS08 A0A087WTZ5 UBXN1 UBX domain-containing protein 1 1 0 KYGGSVGSQPPPVAPEPGPVPS(0.231)S(0.625)PS(0.072)QEPPT(0.072)KR;KYGGSVGSQPPPVAPEPGPVPS(0.256)S(0.581)PS(0.072)QEPPT(0.091)KR ; 68.93 5.63E-05 7224200 1583.67 1246.57 1565.84 1255.33 1483.84 1993.81 1665.47 1567.51 1492.67 1348.08 TRUE FALSE FALSE 1750.247677 1286.959686 1779.224521 1279.628727 1370.1485 1823.926171 1478.066932 1527.415364 1482.282388 1406.202326 1.244662766 0.915202359 1.26526922 0.909989056 0.974360854 1.297058138 1.051105452 1.08619886 1.054103211 1 10.45758847 KYS(ph)ASSGGLCEEATAAK ddPTM_HeLa_SAHA_4h_R1 2 KYSASSGGLCEEATAAK 17 1 Q9UHV7;J3QRB7 Q9UHV7 MED13 Mediator of RNA polymerase II transcription subunit 13 1 0 KYS(0.96)AS(0.034)S(0.007)GGLCEEATAAK;KY(0.002)S(0.98)AS(0.016)S(0.001)GGLCEEATAAK ; 113.24 0.00062616 20146300 8474.6 6733.7 6524.8 7909.2 8188.3 8508.5 9159.2 8598.6 6916.1 6521.5 TRUE FALSE FALSE 9365.997311 6951.876298 7413.965764 8062.294003 7560.914223 7783.527932 8128.58271 8378.660263 6867.970297 6802.67378 1.376811179 1.021932923 1.089860547 1.18516546 1.11146212 1.144186563 1.194909968 1.231671624 1.009598655 1 12.73188619 -9.741706405 1.680469644 0.999997818 1.198739388 0.296100427 0.093165424 0.383143142 1.95685418 0.082555641 0.017885467 1.81E-10 9.741706405 0.19874157 KYSDVEVPASVTGY(ph)SFASDGDSGTCSPLR ddPTM_HeLa_SAHA_4h_R1 1 KYSDVEVPASVTGYSFASDGDSGTCSPLR 29 1 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;H0Y9H2 E7EV99 ADD1 Alpha-adducin 1 0 KYSDVEVPASVT(0.156)GY(0.577)S(0.07)FAS(0.107)DGDS(0.045)GT(0.025)CS(0.019)PLR 114.9 6.93E-10 6966400 1210.5 1359.5 1200.9 1485.6 1472.6 1548.6 1682.8 1437.7 1504 1342.2 TRUE FALSE FALSE 1337.825944 1403.548692 1364.552398 1514.355936 1359.769706 1416.650568 1493.446915 1400.925716 1493.533542 1400.068811 0.955542995 1.002485507 0.974632381 1.081629649 0.97121634 1.01184353 1.066695368 1.000612045 1.066757241 1 10.45128202 KYTELPHGAISEDQAVGPADIPCDS(ph)TGQTST ddPTM_HeLa_SAHA_4h_R1 2 KYTELPHGAISEDQAVGPADIPCDSTGQTST 31 1 Q9H773;H3BPN2;H3BSA6 Q9H773 DCTPP1 dCTP pyrophosphatase 1 1 0 KYTELPHGAIS(0.001)EDQAVGPADIPCDS(0.393)T(0.393)GQT(0.073)S(0.073)T(0.066);KYTELPHGAISEDQAVGPADIPCDS(0.209)T(0.209)GQT(0.186)S(0.209)T(0.186) ; 70.983 8.55E-05 13179900 1495.06 1371.01 1293.73 1826.35 1660.53 1688.81 1617.56 1778.25 1878.41 1624.19 TRUE FALSE FALSE 1652.31727 1415.431624 1470.032787 1861.701645 1533.30055 1544.913887 1435.547892 1732.76494 1865.337992 1694.216779 0.975269098 0.835448946 0.867676914 1.09885681 0.905020284 0.911874977 0.847322438 1.022752791 1.101003139 1 10.72640277 -7.49485672 19.90549969 0.989089846 0.925297461 0.190556383 0.083861982 45.75687762 32505.8324 0.012934173 0.014083223 3.20E-08 7.49485672 -0.063792384 KYTGEDFDEDLR ddPTM_HeLa_SAHA_4h_R1 2 KYTGEDFDEDLR 12 1 Q14204;A0A2R8Y706;A0A2R8YFZ7;A0A2R8Y6H2 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 ; ; 97.911 0.015916 22644000 6020.7 5537.8 5359 6836.5 6672.6 7377.8 6347.8 6526.6 5731 5691.9 FALSE FALSE TRUE 6653.98485 5717.228353 6089.296612 6968.830343 6161.34683 6749.169934 5633.528838 6359.659022 5691.117504 5937.305664 1.120707814 0.962933134 1.025599313 1.173736159 1.037734484 1.13673951 0.948835912 1.071135525 0.958535374 1 12.53559267 -9.692469166 1.571403961 1.000012728 1.067674344 0.151587916 0.069721902 0.697438458 3.105129073 0.048429251 0.010735458 2.03E-10 9.692469166 0.067661615 KYVATLGVEVHPLVFHTNR ddPTM_HeLa_SAHA_4h_R1 2 KYVATLGVEVHPLVFHTNR 19 1 F5H018;B5MDF5;J3KQE5;P62826;H0YFC6 F5H018 RAN GTP-binding nuclear protein Ran 0 0 ; ; 119.51 2.21E-05 14079600 7267.2 6457.2 8623.1 11244 10892.6 2049.8 11019.2 1522.6 3936.4 7977.1 FALSE FALSE TRUE 8031.597439 6666.417517 9798.211161 11461.64388 10058.01134 1875.145508 9779.290615 1483.654097 3909.006272 8321.03182 0.965216528 0.801152749 1.177523578 1.377430603 1.208745689 0.225350119 1.175249756 0.178301697 0.469774225 1 13.02254672 -4.180469954 1.015378991 1.009320828 3.95E-24 0.223260932 0.357282502 2.090765902 1.495591169 0.044995981 2.375475283 6.60E-05 4.180469954 -1.009320828 LAAAEETAVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 LAAAEETAVSPR 12 0 Q9BUH6 Q9BUH6 C9orf142 Protein PAXX 1 0 LAAAEETAVS(1)PR;LAAAEETAVS(1)PR;LAAAEETAVS(1)PR;LAAAEETAVS(1)PR ;;; 179.83 2.40E-05 363404000 12872.62 14899.78 12712.42 12317.49 15044.88 16729.3 15582.99 14744.6 15286.3 14364.97 TRUE FALSE FALSE 14226.62123 15382.54265 14444.80239 12555.91283 13892.14454 15303.86952 13829.55095 14367.45448 15179.92139 14984.31416 0.949434261 1.026576358 0.963994898 0.837937105 0.927112472 1.021325992 0.922935198 0.958832972 1.013054133 1 13.87116543 -6.511892875 24.97158648 0.980002787 0.933886846 0.259956671 0.047154967 725.3695588 1648811.4 0.007458959 0.010969355 3.08E-07 6.511892875 -0.046115941 LAAAILGGVDQIHIKPGAK ddPTM_HeLa_SAHA_4h_R1 1 LAAAILGGVDQIHIKPGAK 19 1 M0R0P1;M0R299;M0QXL5;M0R2Q4;P22087;M0R2U2;M0R1H0;M0R2B0 M0R0P1 FBL rRNA 2-O-methyltransferase fibrillarin 0 0 147.39 9.50E-09 1671900 698.07 734.81 703.57 781.42 725.13 879.47 1124.2 575.02 843.97 686.34 FALSE FALSE TRUE 771.4962055 758.6183261 799.4488556 796.5455141 669.5706961 804.5342082 997.7020573 560.311821 838.0967441 715.9314763 1.077611798 1.059624212 1.116655549 1.112600214 0.93524411 1.123758677 1.393571997 0.78263331 1.170638213 1 9.4836777 -9.195643898 0.444585626 0.978300328 1.090264121 0 0.155649085 5.095507951 1.391907175 0.260481107 0.04249028 6.37E-10 9.195643898 0.111963793 LAADEDDDDDDEEDDDEDDDDDDFDDEEAEEKAPVKK ddPTM_HeLa_SAHA_4h_R1 4 LAADEDDDDDDEEDDDEDDDDDDFDDEEAEEKAPVKK 37 2 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 0 0 ;;; ;;; 142.78 1.03E-20 171914000 26074 25484.2 24685.1 23795.3 28077.8 30474.1 31264.4 28359.8 27339.8 23939 FALSE FALSE TRUE 28816.58295 26309.9048 28049.05687 24255.89244 25926.48503 27877.53524 27746.44743 27634.39738 27149.54011 24971.12744 1.153996071 1.053613012 1.12325953 0.971357521 1.038258488 1.116390732 1.111141157 1.106653972 1.087237257 1 14.60797334 -9.63485733 1.473204973 1.000229351 1.092114153 0 0.05638713 0.431830081 1.690875284 0.038438637 0.008839332 2.32E-10 9.63485733 0.091884802 LAALNPESNTAGLDIFAK ddPTM_HeLa_SAHA_4h_R1 1 LAALNPESNTAGLDIFAK 18 0 O00299 O00299 CLIC1 Chloride intracellular channel protein 1 0 0 325.24 2.94E-160 763770 228.4 0 152.01 214.66 0 0 132.07 155.23 168.68 217.06 FALSE FALSE TRUE 252.4241599 0 172.7251312 218.8150547 0 0 117.209136 151.2594414 167.5061421 226.4185189 1.114856511 0 0.762857791 0.966418541 0 0 0.517665854 0.668052428 0.739807605 1 7.822848151 -7.284381219 24.71206514 1.054237832 0.422766376 0.336648221 0.334972852 450.8259039 485610.9855 0.055674672 0.063689768 5.20E-08 7.284381219 -0.631471456 LAAPSVSHVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 LAAPSVSHVSPR 12 0 Q8WXE1-5;A0A0U1RRM7;A0A0U1RQW3;A0A0U1RQJ8;Q8WXE1-3;Q8WXE1-2;Q8WXE1 Q8WXE1-5 ATRIP ATR-interacting protein 1 0 LAAPSVSHVS(1)PR;LAAPSVSHVS(1)PR ; 152.94 0.00023482 18659600 4039.1 5101 3152.1 4311.4 7008.5 8278 5404.4 6416.5 4725 5299.8 TRUE FALSE FALSE 4463.95107 5266.275747 3581.651773 4394.853381 6471.510244 7572.667829 4796.282688 6252.375221 4692.11834 5528.300315 0.807472607 0.952603051 0.647875761 0.794973705 1.170614814 1.369800372 0.867587218 1.130976044 0.848745197 1 12.43262027 -5.754623923 24.99419824 0.88169465 1.132451678 0.476332857 0.146886616 132.6610233 486500.7407 0.022774849 0.044747034 1.76E-06 5.754623923 0.250757028 LAAQESS(ph)EAEDMSVPR ddPTM_HeLa_SAHA_4h_R1 1 LAAQESSEAEDMSVPR 16 0 A0A0A0MR88;A0A096LPC5;Q9Y4E1-6;Q9Y4E1;J3KP36;Q9Y4E1-3;Q9Y4E1-2;Q9Y4E1-1;Q9Y4E1-5;Q5SRD0 A0A0A0MR88 FAM21C;FAM21D WASH complex subunit FAM21C;Putative WASH complex subunit FAM21 1 0 LAAQES(0.162)S(0.543)EAEDMS(0.295)VPR 91.789 0.0046255 0 304.59 310.83 232.16 114.69 480.88 367.57 296.16 365.55 374.49 309.87 TRUE FALSE FALSE 336.6281737 320.9010959 263.7975558 116.9099908 444.0350783 336.2509681 262.8352973 356.1997603 371.8838936 323.2300122 1.041450859 0.992794864 0.816129523 0.36169287 1.373743346 1.04028387 0.813152515 1.102000888 1.150524022 1 8.336417349 -6.979244328 22.86864088 1.019445027 0.913283514 0.057975812 0.246074789 260.4854406 287000.1698 0.0384494 0.050527546 1.05E-07 6.979244328 -0.106161514 LAAQESS(ph)ETEDMSVPR ddPTM_HeLa_SAHA_4h_R1 2 LAAQESSETEDMSVPR 16 0 E7ESD2;Q641Q2-2;Q641Q2;F8W7U3;A0A087WYF6 E7ESD2 FAM21A WASH complex subunit FAM21A 1 0 LAAQES(0.086)S(0.913)ET(0.001)EDMSVPR;LAAQES(0.059)S(0.854)ET(0.086)EDMS(0.001)VPR ; 235.95 4.23E-28 9186700 1669.79 1644.96 1406.03 1902.87 1665.72 2020.54 1855.6 1837.08 2128.51 1683.65 TRUE FALSE FALSE 1845.426173 1698.257783 1597.636446 1939.7028 1538.092893 1848.378625 1646.803004 1790.090154 2113.697526 1756.240391 1.050782218 0.966984811 0.90969121 1.104463153 0.875787222 1.052463338 0.937686556 1.019273992 1.203535425 1 10.77827462 -7.249672115 23.98237824 1.023980492 0.979967012 0.135790065 0.085779781 742.5321273 1513321.338 0.009762391 0.011894942 5.63E-08 7.249672115 -0.04401348 LAAQLGAPT(ph)SPIPDSAIVNTR ddPTM_HeLa_SAHA_4h_R1 1 LAAQLGAPTSPIPDSAIVNTR 21 0 B8ZZS4;Q9H8Y5 B8ZZS4 ANKZF1 Ankyrin repeat and zinc finger domain-containing protein 1 1 0 LAAQLGAPT(0.5)S(0.5)PIPDSAIVNTR 86.803 0.0013894 3732900 1184 1201.7 1315.2 1143.5 1343.9 1513.8 1329.6 1259 1490.1 1329.1 TRUE FALSE FALSE 1308.538552 1240.635868 1494.428607 1165.634096 1240.930672 1384.815724 1179.989909 1226.796603 1479.730273 1386.404005 0.943836391 0.894858832 1.077917116 0.840760768 0.895071471 0.998854387 0.851115479 0.884876701 1.067315347 1 10.43713201 -1.000000001 0.076347151 1.071998823 0.578244073 0.304759172 0.068176204 213.0117938 1.202648902 1.2684423 11.21783151 0.1 1.000000001 -0.49375475 LAAQLGAPTS(ph)PIPDSAIVNTR ddPTM_HeLa_SAHA_4h_R1 3 LAAQLGAPTSPIPDSAIVNTR 21 0 B8ZZS4;Q9H8Y5 B8ZZS4 ANKZF1 Ankyrin repeat and zinc finger domain-containing protein 1 1 0 LAAQLGAPT(0.171)S(0.829)PIPDSAIVNTR;LAAQLGAPT(0.2)S(0.8)PIPDS(0.001)AIVNTR;LAAQLGAPT(0.375)S(0.625)PIPDSAIVNTR ;; 196.36 1.24E-15 19307700 3728.27 4099 3236.36 3390.9 4612.5 5382.2 4346.6 3989.5 4644 3947.6 TRUE FALSE FALSE 4120.426545 4231.810289 3677.394287 3456.535773 4259.091246 4923.606281 3857.509128 3887.454367 4611.682026 4117.800355 1.000637765 1.027687096 0.893048222 0.839413151 1.034312225 1.195688439 0.93678877 0.944060914 1.119938226 1 12.00765817 LAAVAQDEEENASRSS(ph)G ddPTM_HeLa_SAHA_4h_R1 1 LAAVAQDEEENASRSSG 17 1 Q99666 Q99666 RGPD5 RANBP2-like and GRIP domain-containing protein 5/6 1 0 LAAVAQDEEENAS(0.005)RS(0.239)S(0.756)G 124.04 0.00018388 0 368.7 435.48 312.05 385.59 462.2 354.73 481.69 517.57 340.99 393.12 TRUE FALSE FALSE 407.4815577 449.5898377 354.5745489 393.053652 426.7863359 324.5050083 427.4889735 504.3313088 338.6170228 410.0693271 0.993689434 1.096375193 0.864669766 0.95850537 1.040766299 0.791341822 1.042479759 1.229868404 0.82575555 1 8.679724025 -4.31769572 4.076324203 0.982275966 1.239337939 0.407059947 0.09652042 0.132012902 4.053442238 0.010669585 0.08594612 4.81E-05 4.31769572 0.257061972 LAAVDATVNQVLASR ddPTM_HeLa_SAHA_4h_R1 1 LAAVDATVNQVLASR 15 0 Q15084-3;Q15084;Q15084-4;Q15084-5;Q15084-2 Q15084-3 PDIA6 Protein disulfide-isomerase A6 0 0 123.28 0.0012745 423480 0 72.492 60.828 0 0 0 148.33 0 0 129.93 FALSE FALSE TRUE 0 74.84078836 69.11732306 0 0 0 131.639518 0 0 135.5319182 0 0.552200466 0.509970817 0 0 0 0.971280565 0 0 1 7.08248884 -9.433400021 1.059447572 1.017995821 0.246611099 0 0.439451192 0.40987649 0.79138329 0.244949294 0.05583321 3.69E-10 9.433400021 -0.771384721 LACLS(ph)EEGNEIESGK ddPTM_HeLa_SAHA_4h_R1 2 LACLSEEGNEIESGK 15 0 F2Z2C0;Q9Y2L1-2;Q9Y2L1;G3V1J5 F2Z2C0 DIS3 Exosome complex exonuclease RRP44 1 0 LACLS(1)EEGNEIESGK;LACLS(1)EEGNEIESGK ; 169.37 1.66E-06 7526800 1683.66 1750.22 1342.81 1578.99 1753.01 2291.5 1592.73 1955.4 1547.06 1482.94 TRUE FALSE FALSE 1860.755084 1806.928276 1525.801154 1609.553635 1618.694753 2096.251308 1413.511829 1905.383699 1536.293883 1546.876801 1.202910977 1.16811389 0.986375355 1.04051831 1.046427713 1.355150783 0.913784361 1.231761766 0.993158526 1 10.59514258 -9.61074212 1.436525331 1.000437223 1.124551317 0.133761443 0.122318389 0.691964822 2.577835685 0.081314285 0.018996676 2.45E-10 9.61074212 0.124114094 LADALQELR ddPTM_HeLa_SAHA_4h_R1 1 LADALQELR 9 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 96.331 0.022106 1503800 665.97 1375.7 1073.5 1687.9 1020.7 1104.4 1385 1397.8 600.61 623.22 FALSE FALSE TRUE 736.0197802 1420.273583 1219.790989 1720.571745 942.4941865 1010.298907 1229.156155 1362.0463 596.4303061 650.0900642 1.132181248 2.184733564 1.876341536 2.646666731 1.449790173 1.554090675 1.890747487 2.095165539 0.917457963 1 9.344495794 -7.310449172 7.209379294 1.060729454 1.942396043 0.647411558 0.31739112 0.11984241 15.26595909 0.053969545 0.061766128 4.89E-08 7.310449172 0.881666589 LADFGVLHR ddPTM_HeLa_SAHA_4h_R1 1 LADFGVLHR 9 0 P26639;P26639-2 P26639 TARS "Threonine--tRNA ligase, cytoplasmic" 0 0 99.442 0.0027455 706220 949.13 1200.7 983.12 1206.7 1139.1 551.97 996.66 343.73 636.05 809.08 FALSE FALSE TRUE 1048.963848 1239.603468 1117.094474 1230.057423 1051.822404 504.9390507 884.5131937 334.9378843 631.6236763 843.9633983 1.242902062 1.468788185 1.323629053 1.457477215 1.246289124 0.598294964 1.048046865 0.396863045 0.748401741 1 9.721036622 -5.266418578 24.91231971 1.194436204 0.717766141 0.482515082 0.250854097 252.9791325 1265728.359 0.032682506 0.075253735 5.41E-06 5.266418578 -0.476670063 LADILS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 LADILSPR 8 0 Q96PE2 Q96PE2 ARHGEF17 Rho guanine nucleotide exchange factor 17 1 0 LADILS(1)PR;LADILS(1)PR ; 120.45 0.0035162 26314600 8620.7 7258.6 7569.6 8654.6 7085.2 8267 6400.2 7269.9 9695.5 7567.6 TRUE FALSE FALSE 9527.464779 7493.783403 8601.145667 8822.122298 6542.333507 7562.605091 5680.032652 7083.946485 9628.028226 7893.876271 1.206943769 0.949316045 1.089597223 1.117590648 0.82878592 0.958034409 0.719549237 0.89739771 1.219683194 1 12.94651819 -5.760133775 24.99375551 1.088196108 0.849206072 0.615200094 0.095244964 19.17983449 367153.72 0.014591734 0.027955898 1.74E-06 5.760133775 -0.238990037 LADPVPS(ph)GGSSSPR ddPTM_HeLa_SAHA_4h_R1 1 LADPVPSGGSSSPR 14 0 Q96DN6 Q96DN6 MBD6 Methyl-CpG-binding domain protein 6 1 0 LADPVPS(0.828)GGS(0.044)S(0.044)S(0.084)PR 88.224 0.007373 0 943.76 1426.1 1151.2 975.67 1194.7 1325.8 1000.6 1184.5 1045.3 1091.6 TRUE FALSE FALSE 1043.029007 1472.306576 1308.079541 994.5555037 1103.162344 1212.834381 888.0098546 1154.202205 1038.025672 1138.664218 0.916011051 1.293012068 1.148784268 0.873440552 0.968821472 1.065137871 0.779869816 1.013645802 0.911617012 1 10.15312666 -4.779868474 24.96771126 0.996782957 0.896757657 0.103865828 0.131391407 414.2115731 561175.1328 0.01867791 0.056181853 1.66E-05 4.779868474 -0.1000253 LADS(ph)PPPQVWQLISK ddPTM_HeLa_SAHA_4h_R1 2 LADSPPPQVWQLISK 15 0 Q5HY81;P11441 Q5HY81 UBL4A Ubiquitin-like protein 4A 1 0 LADS(1)PPPQVWQLISK;LADS(0.999)PPPQVWQLIS(0.001)K ; 104.21 0.0031061 126582000 3144.3 3529.1 3257 3170.9 3217 3572.6 3140.8 2723.3 3635.5 3287.4 TRUE FALSE FALSE 3475.031901 3643.445156 3700.846998 3232.277355 2970.514155 3268.194381 2787.388918 2653.641929 3610.200259 3429.135902 1.013384129 1.062496576 1.079236024 0.942592375 0.866257343 0.95306645 0.812854608 0.773851491 1.052801744 1 11.74362937 -4.924004632 0.758550009 1.014901776 0.73450372 0.775165329 0.048131549 0.486585563 0.33475699 0.008283625 0.095367958 1.19E-05 4.924004632 -0.280398056 LADSALER ddPTM_HeLa_SAHA_4h_R1 1 LADSALER 8 0 P28221 P28221 HTR1D 5-hydroxytryptamine receptor 1D 0 0 133.81 0.0092566 9008600 3000.3 2674.9 2194.4 2516 2906.1 2818.9 2613.6 2651.7 2557.8 2760 FALSE FALSE TRUE 3315.88532 2761.568515 2493.441404 2564.700818 2683.435246 2578.713861 2319.510849 2583.873354 2540.000062 2878.997107 1.15175014 0.95921198 0.866079857 0.890831329 0.932072922 0.895698664 0.805666266 0.897490778 0.882251689 1 11.49135062 -7.025399975 4.647535621 1.071521833 0.882618976 0.295798395 0.075285527 0.089404488 4.817560458 0.010529269 0.013335694 9.43E-08 7.025399975 -0.188902857 LAEAPSPAPTPSPTPVEDLGPQTSTSPGRLS(ph)PDFAEELR ddPTM_HeLa_SAHA_4h_R1 2 LAEAPSPAPTPSPTPVEDLGPQTSTSPGRLSPDFAEELR 39 1 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;H0YCG0 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 LAEAPSPAPT(0.001)PS(0.015)PT(0.045)PVEDLGPQT(0.183)S(0.183)T(0.183)S(0.183)PGRLS(0.206)PDFAEELR;LAEAPSPAPT(0.001)PS(0.004)PT(0.013)PVEDLGPQT(0.175)S(0.175)T(0.175)S(0.208)PGRLS(0.249)PDFAEELR ; 57.025 0.00062308 8549400 1530.21 2245.97 1789.43 1741.54 1928.62 2330.2 2633.5 1968.71 1834.29 1453.31 TRUE FALSE FALSE 1691.164509 2318.740902 2033.284201 1775.250025 1780.849552 2131.653851 2337.171649 1918.353249 1821.525027 1515.969306 1.115566457 1.529543436 1.341243647 1.171032961 1.174726655 1.406132592 1.541701167 1.265430138 1.201557986 1 10.56602483 -7.445377461 5.797270976 1.04991271 1.343327262 0.410112882 0.129637093 0.131106198 7.361347311 0.02234745 0.025266022 3.59E-08 7.445377461 0.293414552 LAEDEGDS(ph)EPEAVGQSR ddPTM_HeLa_SAHA_4h_R1 2 LAEDEGDSEPEAVGQSR 17 0 Q9UIG0-2;Q9UIG0 Q9UIG0-2 BAZ1B Tyrosine-protein kinase BAZ1B 1 0 LAEDEGDS(1)EPEAVGQSR;LAEDEGDS(1)EPEAVGQSR ; 188.58 6.77E-12 294430000 3307.6 2564.8 2379.19 2413.32 2525.11 2832.1 3297.4 2929.5 2698.7 2921.7 TRUE FALSE FALSE 3655.508544 2647.901203 2703.413623 2460.033298 2331.636617 2590.789147 2926.367874 2854.567632 2679.919527 3047.668785 1.199444166 0.868828403 0.887043118 0.807185253 0.765055779 0.850088815 0.960198788 0.936639718 0.879334244 1 11.57349041 -7.242285184 23.45568445 1.094181961 0.865180399 0.291380604 0.097135097 192.5509722 235792.3683 0.015412793 0.018856217 5.72E-08 7.242285184 -0.229001562 LAELEEFINGPNNAHIQQVGDR ddPTM_HeLa_SAHA_4h_R1 1 LAELEEFINGPNNAHIQQVGDR 22 0 A0A087WVQ6;Q00610-2;Q00610;J3KS13 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 68.42 0.0055927 396270 0 0 0 0 0 0 0 0 0 66.846 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 69.7280582 0 0 0 0 0 0 0 0 0 1 6.123667401 -9.157829429 0.677150941 1.083625666 2.50E-23 0 0.307667284 0.066591669 0.049088893 0.041658111 0.0090835 6.95E-10 9.157829429 -1.083625666 LAEQAER ddPTM_HeLa_SAHA_4h_R1 1 LAEQAER 7 0 P31947-2;P31947;E7EX29;P63104;E7ESK7;E5RIR4;E9PD24;E7EVZ2;E5RGE1;P27348;E9PG15;P31946-2;P31946;Q4VY20;Q4VY19;A0A0J9YWE8;P61981;P62258;B4DJF2;I3L3T1;I3L0W5;Q04917;F8WEB6;A2IDB1 P31947-2;E7EX29;P27348;P31946-2;P61981;P62258;Q04917 SFN;YWHAZ;YWHAQ;YWHAB;YWHAG;YWHAE;YWHAH "14-3-3 protein sigma;14-3-3 protein zeta/delta;14-3-3 protein theta;14-3-3 protein beta/alpha;14-3-3 protein beta/alpha, N-terminally processed;14-3-3 protein gamma;14-3-3 protein gamma, N-terminally processed;14-3-3 protein epsilon;14-3-3 protein eta" 0 0 117.4 0.0057661 1892100 612.26 506.35 565.93 710.27 733.41 1064.4 1001.7 870.15 731.05 768.42 FALSE FALSE TRUE 676.6603159 522.7560722 643.0519932 724.0183029 677.2162842 973.7071318 888.9860797 847.892823 725.9625635 801.5503468 0.844189412 0.652181207 0.802260264 0.903272397 0.844883028 1.214779753 1.10908327 1.057816052 0.905698022 1 9.646649331 -5.268357945 24.9014225 0.887709882 1.125412051 0.6204386 0.096177364 335.5958509 1207884.403 0.016805106 0.038361241 5.39E-06 5.268357945 0.237702169 LAEQAERYDEMVESMK ddPTM_HeLa_SAHA_4h_R1 2 LAEQAERYDEMVESMK 16 1 P62258;B4DJF2;I3L3T1 P62258 YWHAE 14-3-3 protein epsilon 0 0 ; ; 170.35 3.55E-07 11437200 2452.5 2679.4 2356.9 2311.8 2631.2 2529.2 2491 2848.6 2107.8 2105.7 FALSE FALSE TRUE 2710.465202 2766.214318 2678.086058 2356.548232 2429.598024 2313.697931 2210.706124 2775.736937 2093.131648 2196.487032 1.234000093 1.259381129 1.219258761 1.072871452 1.106129009 1.053362891 1.006473561 1.263716515 0.952945143 1 11.10098227 -4.222780743 22.6214516 1.117923928 1.263717846 0.170111329 0.101801169 10034.74232 5871522.747 0.015390856 4.703285508 5.99E-05 4.222780743 0.145793918 LAES(ph)PQLSK ddPTM_HeLa_SAHA_4h_R1 1 LAESPQLSK 9 0 Q96A19 Q96A19 CCDC102A Coiled-coil domain-containing protein 102A 1 0 LAES(0.976)PQLS(0.024)K 107.03 0.0071904 5333400 1075.7 1103 1457 1096.8 1060.7 1292.2 1462.6 1337 1426.4 1253.2 TRUE FALSE FALSE 1188.847061 1138.737924 1655.552372 1118.03015 979.4293952 1182.09729 1298.024399 1302.801476 1416.473566 1307.231585 0.909438752 0.871106495 1.266456832 0.855265557 0.74923939 0.904275343 0.992956729 0.996611076 1.083567428 1 10.35229903 LAETQEEISAEVAAK ddPTM_HeLa_SAHA_4h_R1 2 LAETQEEISAEVAAK 15 0 Q96HJ9-2;A0A0A6YYJ8;Q9Y383-3;Q9Y383-2;Q9Y383 Q96HJ9-2 LUC7L2 Putative RNA-binding protein Luc7-like 2 0 0 ; ; 227.63 7.21E-24 5019000 1473.62 1398.26 1145.75 1730.6 1609.38 1519.22 1534.93 1882.56 1731.84 1447.43 FALSE FALSE TRUE 1628.622113 1443.564541 1301.886843 1764.098265 1486.069652 1389.773909 1362.215637 1834.406841 1719.787984 1509.835791 1.078674994 0.956106982 0.862270487 1.168404058 0.984259123 0.920480172 0.902227676 1.214971093 1.13905631 1 10.56017594 -7.259077479 24.91405745 1.03715208 0.994761552 0.050198393 0.1119694 645.855963 6812682.161 0.01745201 0.020875734 5.51E-08 7.259077479 -0.042390528 LAEVEAALEK ddPTM_HeLa_SAHA_4h_R1 2 LAEVEAALEK 10 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 135.43 0.00081413 872340 513.85 722.74 727.72 701.2 542.06 667.98 694.886 480.22 598.46 814.93 FALSE FALSE TRUE 567.8991006 746.1572502 826.8898918 714.77274 500.5274799 611.064346 616.6955984 467.9366678 594.2952681 850.0656205 0.668065014 0.877764295 0.972736542 0.840844192 0.588810402 0.718843736 0.725468227 0.55047123 0.699116931 1 9.731430404 -5.790700487 12.97594325 0.853137392 0.656806075 0.436455396 0.109131922 1.065962558 471.804184 0.020162783 0.036659338 1.62E-06 5.790700487 -0.196331317 LAFVIR ddPTM_HeLa_SAHA_4h_R1 2 LAFVIR 6 0 P18124;A8MUD9;C9JZ88;C9JIJ5 P18124 RPL7 60S ribosomal protein L7 0 0 ; ; 110.43 0.014369 33280000 4918.7 4683.1 4844.1 5633.8 6361 5271.3 6841.5 2861.2 3334.8 4536.4 FALSE FALSE TRUE 5436.071434 4834.835513 5504.228721 5742.850346 5873.621554 4822.155584 6071.676414 2788.014647 3311.592855 4731.986405 1.148792699 1.02173487 1.163196225 1.213623594 1.241259178 1.019055249 1.283113664 0.589184839 0.699831439 1 12.20823021 -4.248581586 24.78589578 1.102718099 0.589184474 0.463980573 0.160075965 827.0730632 1594313.423 0.014346354 0.348405187 5.64E-05 4.248581586 -0.513533626 LAGEDKDSEPAADGPAASEDPSATESDLPNPHVGEVSVLS(ph)SGSPR ddPTM_HeLa_SAHA_4h_R1 1 LAGEDKDSEPAADGPAASEDPSATESDLPNPHVGEVSVLSSGSPR 45 1 O14686;O14686-3;F8VWW4 O14686 KMT2D Histone-lysine N-methyltransferase 2D 1 0 LAGEDKDSEPAADGPAASEDPSATESDLPNPHVGEVS(0.087)VLS(0.429)S(0.314)GS(0.17)PR 109.96 5.62E-23 17487000 1516 1893 1053.7 1646.1 2127 2013.1 2261.9 2339.8 1993.4 1699.7 TRUE FALSE FALSE 1675.459836 1954.334442 1197.292749 1677.962646 1964.02972 1841.572555 2007.385059 2279.951304 1979.527767 1772.982385 0.944995196 1.10228644 0.675298728 0.946406834 1.107754784 1.038686323 1.132208123 1.285941317 1.116496015 1 10.79196249 -4.346727516 0.91371986 0.962690124 1.424880491 0.391266386 0.119720626 1.269169457 0.860348278 0.016846824 0.564048307 4.50E-05 4.346727516 0.462190367 LAGEDKDSEPAADGPAASEDPSATESDLPNPHVGEVSVLSSGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 LAGEDKDSEPAADGPAASEDPSATESDLPNPHVGEVSVLSSGSPR 45 1 O14686;O14686-3;F8VWW4 O14686 KMT2D Histone-lysine N-methyltransferase 2D 1 0 LAGEDKDSEPAADGPAASEDPSATESDLPNPHVGEVS(0.054)VLS(0.106)S(0.245)GS(0.595)PR 118.84 2.45E-29 13023000 1048.7 819.74 487.69 831.86 979.32 1498.2 1064.4 1204.1 1307.6 869.93 TRUE FALSE FALSE 1159.007078 846.3001139 554.1498534 847.9618532 904.2847132 1370.544931 944.6309107 1173.300866 1298.500305 907.4369396 1.277231538 0.932626915 0.610675882 0.93445816 0.996526231 1.5103473 1.04098794 1.292983363 1.430953765 1 9.825653579 -5.329164966 24.99997482 1.055592074 1.257402738 0.194000727 0.231608855 261.875969 96667.35355 0.03307705 0.073962547 4.69E-06 5.329164966 0.201810664 LAGGQTSQPTT(ph)PLTSPQR ddPTM_HeLa_SAHA_4h_R1 1 LAGGQTSQPTTPLTSPQR 18 0 O95155-2;O95155;O95155-4;B1AQ61 O95155-2 UBE4B Ubiquitin conjugation factor E4 B 1 0 LAGGQTSQPT(0.038)T(0.724)PLT(0.119)S(0.119)PQR 112.84 0.00037558 0 1377.6 1454.1 1885.1 2077.9 1674.3 1054.4 1552.7 1810.7 1274.5 1371.3 TRUE FALSE FALSE 1522.502289 1501.213794 2141.991611 2118.120759 1546.015496 964.5591881 1377.98611 1764.384916 1265.630651 1430.423454 1.064371732 1.04948908 1.497452803 1.480764842 1.080809666 0.674317235 0.963341384 1.233470348 0.884794392 1 10.48222658 -4.230068547 21.42286752 1.069667508 1.233472281 0.03692916 0.236473967 5174.059451 3532906.145 0.033614457 4.109032355 5.89E-05 4.230068547 0.163804773 LAGIINFQRPK ddPTM_HeLa_SAHA_4h_R1 2 LAGIINFQRPK 11 1 O00232-2;O00232 O00232-2 PSMD12 26S proteasome non-ATPase regulatory subunit 12 0 0 ; ; 125.71 0.00069552 1961740 1212.61 935.28 1522.88 1587.4 1533.14 747.73 1699.01 761.86 789.99 1184.07 FALSE FALSE TRUE 1340.157883 965.5836857 1730.410156 1618.126422 1415.671144 684.0191974 1507.832923 742.3727244 784.4923953 1235.121052 1.08504173 0.78177251 1.401004503 1.310095411 1.146180078 0.553807415 1.220797686 0.601052604 0.635154258 1 10.27043673 -4.246749717 23.80994224 1.049409728 0.601051987 0.165522034 0.268865054 1450.898884 2351632.496 0.030779481 0.862777461 5.67E-05 4.246749717 -0.448357741 LAGTQPLEVLEAVQR ddPTM_HeLa_SAHA_4h_R1 2 LAGTQPLEVLEAVQR 15 0 P22314-2;P22314;Q5JRR6 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 ; ; 166.62 4.97E-08 1563700 70.294 140.23 0 0 62.578 140.16 133.98 0 187.38 74.523 FALSE FALSE TRUE 77.68784544 144.773544 0 0 57.78328716 128.2175795 118.9042178 0 186.0760073 77.73605124 0.999379879 1.862373271 0 0 0.743326761 1.649396611 1.529589115 0 2.393689985 1 6.28051192 -6.752880445 24.99992112 1.06439896 0.713147942 0.150213223 0.740401383 435.0168913 1270643.184 0.099845844 0.139913674 1.77E-07 6.752880445 -0.351251018 LAHYNK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 LAHYNKR 7 1 O60814;P33778;P58876;P62807;Q16778;Q5QNW6;Q5QNW6-2;Q8N257;Q93079;U3KQK0;Q99877;Q99879;Q99880 O60814;P33778;P58876;P62807;Q16778;Q5QNW6;Q8N257;Q93079;U3KQK0;Q99879;Q99880 HIST1H2BK;HIST1H2BB;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST2H2BF;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BM;HIST1H2BL Histone H2B type 1-K;Histone H2B type 1-B;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 2-F;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-M;Histone H2B type 1-L 0 1 LAHYNK(1)R 88.643 0.0078835 926530 1160.2 1152.6 2753.2 1635.1 1739.6 241.58 2620.2 808.46 506.18 692.53 FALSE TRUE FALSE 1282.235159 1189.944996 3128.391758 1666.749725 1606.312224 220.9960249 2325.3682 787.7807638 502.6574522 722.3883575 1.77499422 1.647237229 4.330623169 2.307276561 2.223613112 0.305924123 3.219000107 1.090522509 0.695827178 1 9.496630831 -8.117834699 0.999957161 1.147567209 2.183981579 0.180337948 1.049496484 0.639115381 1.348302158 0.296684179 0.21978048 7.62E-09 8.117834699 1.036414371 LAIEAGFR ddPTM_HeLa_SAHA_4h_R1 2 LAIEAGFR 8 0 A0A0A0MSS8;P42330;S4R3Z2;P17516;A6NHU4;S4R3D5;Q04828 A0A0A0MSS8;Q04828 AKR1C3;AKR1C4;AKR1C1 Aldo-keto reductase family 1 member C3;Aldo-keto reductase family 1 member C4;Aldo-keto reductase family 1 member C1 0 0 ; ; 113.89 0.005661 25410000 6437.6 6400.5 9538.8 8741.1 7674.2 4625.6 9463.8 3192.1 3057.7 4562.1 FALSE FALSE TRUE 7114.736305 6607.8804 10838.69799 8910.29663 7086.204454 4231.472857 8398.908317 3110.450704 3036.421217 4758.794457 1.495071151 1.388561842 2.277614233 1.872385267 1.489075546 0.889190087 1.764923531 0.65362157 0.638065217 1 12.21638043 -5.301761541 24.92971031 1.39486063 1.168812279 0.082304431 0.495364006 1373.024636 848888.4218 0.069651175 0.155746623 4.99E-06 5.301761541 -0.22604835 LAIK(ac)LPDDQIPK ddPTM_HeLa_SAHA_4h_R1 1 LAIKLPDDQIPK 12 1 Q01813;Q01813-2;B1APP6 Q01813 PFKP "ATP-dependent 6-phosphofructokinase, platelet type" 0 1 LAIK(1)LPDDQIPK 142.07 9.43E-05 0 0 322.83 0 264 281.25 211.2 248.44 220.07 216.98 0 FALSE TRUE FALSE 0 333.2899038 0 269.1101018 259.7006858 193.2045718 220.4848773 214.4409281 215.4700185 0 0 LAILGIHNEVSK ddPTM_HeLa_SAHA_4h_R1 2 LAILGIHNEVSK 12 0 P12814-4;P12814-3;P12814;P12814-2;H9KV75;H7C5W8 P12814-4 ACTN1 Alpha-actinin-1 0 0 ; ; 113.38 0.0014615 4086800 3737.2 5040.4 5615 4848.2 6416.8 5871 6513.6 3608.1 4581.3 5478.4 FALSE FALSE TRUE 4130.295843 5203.712267 6380.182958 4942.043922 5925.14617 5370.757771 5780.672585 3515.810026 4549.41836 5714.600635 0.72276194 0.910599463 1.116470488 0.864810026 1.036843438 0.939830815 1.011561954 0.615232848 0.796104339 1 12.48043696 -4.248308188 24.22878188 0.908643627 0.615232556 0.399387825 0.113437349 1396.012856 2575759.083 0.018594176 0.449156285 5.65E-05 4.248308188 -0.293411071 LAILYAK ddPTM_HeLa_SAHA_4h_R1 2 LAILYAK 7 0 Q8NFI4;P50502;H7C3I1;Q3KNR6;F6VDH7;Q8IZP2 Q8NFI4 ST13P5;ST13;ST13P4 Putative protein FAM10A5;Hsc70-interacting protein;Putative protein FAM10A4 0 0 ; ; 142.42 2.17E-05 1817880 2210.7 2680 9569.3 5352.5 4935 510.16 6024.8 427.24 162.702 832.69 FALSE FALSE TRUE 2443.231569 2766.833758 10873.35437 5456.105377 4556.881366 466.6914979 5346.873648 416.3118194 161.5697435 868.591341 2.812866596 3.185426365 12.51837758 6.281556262 5.246289194 0.537296973 6.15579893 0.479295383 0.186013532 1 9.76253376 -1.659814914 16.9863072 3.230756836 1.646896717 0 3.707212015 0 0 0.505618713 0 0.021886942 1.659814914 -1.583860119 LAIQGPEDS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 5 LAIQGPEDSPSR 12 0 Q15773 Q15773 MLF2 Myeloid leukemia factor 2 1 0 LAIQGPEDS(0.993)PS(0.007)R;LAIQGPEDS(0.983)PS(0.017)R;LAIQGPEDS(0.998)PS(0.002)R;LAIQGPEDS(0.975)PS(0.025)R;LAIQGPEDS(0.5)PS(0.5)R ;;;; 235.93 3.57E-23 664744000 10312.2 10944.6 9721.05 10173.6 10676.3 10338.8 10716.2 10288 10586.9 10325.2 TRUE FALSE FALSE 11396.88451 11299.21222 11045.78407 10370.52474 9858.284201 9457.876075 9510.384973 10024.84786 10513.2249 10770.3699 1.058170203 1.049101593 1.025571468 0.962875447 0.915315285 0.878138463 0.883013774 0.930780275 0.976124775 1 13.39478018 -5.978146863 2.064666807 1.030304937 0.896297847 0.822840566 0.026149413 0.088240181 0.753831278 0.00411751 0.008111677 1.05E-06 5.978146863 -0.134007089 LAIQGPEDSPS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 LAIQGPEDSPSR 12 0 Q15773 Q15773 MLF2 Myeloid leukemia factor 2 1 0 LAIQGPEDS(0.233)PS(0.767)R 137.39 0.00077044 14460000 1678.8 1341.6 1537.2 1442.7 1749.7 1689.5 1508.3 1536.9 1528.3 1536.3 TRUE FALSE FALSE 1855.383887 1385.06872 1746.681611 1470.625545 1615.638364 1545.545095 1338.582114 1497.588323 1517.664436 1602.537411 1.157778828 0.864297277 1.089947478 0.917685624 1.008175131 0.964436202 0.835289151 0.934510678 0.947038381 1 10.64614232 -5.92603389 0.701799122 1.065994093 0.893734466 0.054867155 0.09007413 0.700308779 0.630157848 0.018070449 0.062150671 1.19E-06 5.92603389 -0.172259627 LAIQLLK ddPTM_HeLa_SAHA_4h_R1 1 LAIQLLK 7 0 Q5SRE5-2;Q5SRE5 Q5SRE5-2 NUP188 Nucleoporin NUP188 homolog 0 0 122.15 0.0032507 278330 341.16 373.63 385.74 537.01 443.83 308.47 353.56 333.54 250.31 374.65 FALSE FALSE TRUE 377.0447741 385.7358571 438.3066384 547.4046051 409.8238413 282.1866206 313.7764983 325.0085298 248.5680723 390.802995 0.964794996 0.987034035 1.121553939 1.400717528 1.048671189 0.722068726 0.80290198 0.831642884 0.636044441 1 8.610297713 -5.268226639 24.75106427 1.029798956 0.787274272 0.272205086 0.17742752 361.4019903 1317924.892 0.020373461 0.046530282 5.39E-06 5.268226639 -0.242524684 LAKPLSSLTPLIMAAK ddPTM_HeLa_SAHA_4h_R1 1 LAKPLSSLTPLIMAAK 16 1 Q13177;H7C1X3 Q13177 PAK2 Serine/threonine-protein kinase PAK 2;PAK-2p27;PAK-2p34 0 0 89.507 0.0079881 274580 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 LALDMEIHAYR ddPTM_HeLa_SAHA_4h_R1 3 LALDMEIHAYR 11 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ;; ;; 113.69 0.011137 11190200 4069.78 4736.9 5952.2 6031.3 5903.1 5238.3 5853.8 2865.56 5014 5244.4 FALSE FALSE TRUE 4497.858133 4890.378668 6763.334818 6148.044533 5450.805753 4791.96737 5195.115018 2792.263124 4979.107166 5470.511749 0.822200617 0.893952685 1.236325801 1.12385181 0.996397778 0.875963272 0.949657958 0.510420826 0.9101721 1 12.41746008 -4.261114775 7.707251352 0.952719016 0.506117707 0.573863158 0.119186433 0.066198473 41.25101038 0.018907994 0.151860721 5.48E-05 4.261114775 -0.446601309 LALEDSENTAS(ph)TNCDSSSEGLEKDTATQR ddPTM_HeLa_SAHA_4h_R1 1 LALEDSENTASTNCDSSSEGLEKDTATQR 29 1 Q49AR2 Q49AR2 C5orf22 UPF0489 protein C5orf22 1 0 LALEDS(0.006)ENT(0.042)AS(0.388)T(0.388)NCDS(0.144)S(0.016)S(0.016)EGLEKDTATQR 57.673 0.0036705 3069800 285.88 179.23 270.03 336.58 380.16 330.88 479.62 289.42 287.61 691.46 TRUE FALSE FALSE 315.9501701 185.0371696 306.8282821 343.0949926 351.0322229 302.6871625 425.6518953 282.0170555 285.6084986 721.2722245 0.438045663 0.256542763 0.425398721 0.475680306 0.486684793 0.419657311 0.590140422 0.390999467 0.395978784 1 9.494400058 -9.065290078 0.792479075 1.010130403 0.437242492 0 0.200395018 0.186019799 0.207795782 0.064140506 0.018121648 8.60E-10 9.065290078 -0.572887912 LALK(ac)TLSK ddPTM_HeLa_SAHA_4h_R1 2 LALKTLSK 8 1 I3L1Q5;Q2NL82 I3L1Q5 TSR1 Pre-rRNA-processing protein TSR1 homolog 0 1 ; LALK(1)TLSK;LALK(1)TLSK 115.71 0.0030011 4394300 3643.1 2868.8 6356.3 7446.8 6580.1 1617.19 7791.9 1267.3 526.34 1110.62 FALSE TRUE FALSE 4026.297973 2961.751002 7222.503462 7590.943582 6075.93416 1479.396314 6915.134905 1234.884301 522.6771571 1158.504263 3.475427843 2.556530084 6.234334814 6.552365685 5.244636857 1.276988234 5.969019816 1.065929872 0.451165502 1 10.17804764 LALPGHAESYNPPPEYLLSEEER ddPTM_HeLa_SAHA_4h_R1 1 LALPGHAESYNPPPEYLLSEEER 23 0 Q14137;Q14137-2 Q14137 BOP1 Ribosome biogenesis protein BOP1 0 0 97.49 0.00014879 4307600 426.2 411.11 198.52 316.29 400.79 449.53 502.03 683.35 668.29 429.36 FALSE FALSE TRUE 471.0296715 424.4302337 225.5732718 322.4122503 370.0815568 411.227515 445.5402631 665.8708965 663.6393155 447.8718108 1.051706448 0.947660075 0.503655882 0.719876184 0.826311341 0.918181285 0.994794163 1.486744377 1.481761744 1 8.806942055 -7.003453853 24.9793287 1.023115172 0.885798726 0.087102277 0.27620191 328.8283709 2378208.726 0.0389857 0.050654584 9.92E-08 7.003453853 -0.137316447 LALTLRPCAPILGAK ddPTM_HeLa_SAHA_4h_R1 1 LALTLRPCAPILGAK 15 1 A0A2R8Y7K6;M0QZR8;A0A087WYJ2;M0R2B7;P28340 A0A2R8Y7K6 POLD1 DNA polymerase;DNA polymerase delta catalytic subunit 0 0 109.44 0.0024506 799470 229.52 296.71 288.26 134.53 298.83 326.03 304.06 0 0 226.45 FALSE FALSE TRUE 253.6619667 306.3235987 327.5425716 137.1340227 275.93371 298.2504098 269.8463686 0 0 236.2133677 1.073867957 1.296808905 1.386638592 0.58055149 1.168154506 1.262631377 1.142383986 0 0 1 7.883946801 -4.259280141 25 1.075598585 2.72E-05 0.337698934 0.400173733 80.33480966 930063.8838 0.028207176 0.249942872 5.50E-05 4.259280141 -1.075571397 LAMQEFMILPVGAANFR ddPTM_HeLa_SAHA_4h_R1 2 LAMQEFMILPVGAANFR 17 0 P06733;A0A2R8Y6G6;P06733-2;K7EM90 P06733 ENO1 Alpha-enolase;Enolase 0 0 ; ; 185.95 3.28E-18 1896860 0 0 196.65 169.66 170.85 112.99 169.41 0 127 119.35 FALSE FALSE TRUE 0 0 223.4484379 172.9440146 157.7595099 103.3626163 150.3475409 0 126.1161967 124.4957626 0 0 1.794827657 1.389155832 1.267187787 0.830250076 1.207651874 0 1.013015978 1 6.959952828 -6.774354948 24.99994592 0.475000054 1.098248522 0.215444411 0.538949913 273.1138658 528650.2175 0.09457348 0.124729743 1.68E-07 6.774354948 0.623248468 LAPDYDALDVANK ddPTM_HeLa_SAHA_4h_R1 3 LAPDYDALDVANK 13 0 K7EMA7;H7BY10;K7EJV9;K7ERT8;A8MUS3;P62750 K7EMA7 RPL23A 60S ribosomal protein L23a 0 0 ;; ;; 232.14 1.13E-43 3863200 1848.32 1976.62 2039.02 2160.68 2367.9 2461.8 2568.15 2459.35 2284.56 2036.19 FALSE FALSE TRUE 2042.734778 2040.663785 2316.887027 2202.503086 2186.472014 2252.04079 2279.175003 2396.443388 2268.661561 2123.980116 0.961748541 0.960773488 1.090823313 1.036969729 1.029422073 1.060292784 1.073067957 1.128279578 1.068118079 1 11.05255454 -6.763677783 24.99993108 0.979844852 1.066196314 0.416114361 0.039546206 26.96603694 301175.6451 0.004889918 0.006600434 1.72E-07 6.763677783 0.086351462 LAPGGHVGR ddPTM_HeLa_SAHA_4h_R1 5 LAPGGHVGR 9 0 P36578;H3BM89 P36578 RPL4 60S ribosomal protein L4 0 0 ;;;; ;;;; 161.9 8.39E-05 16914300 14187.5 14334.4 12748.16 13518.07 14195.4 13536.71 14800.43 11872.16 12202.29 12325.5 FALSE FALSE TRUE 15679.80634 14798.84397 14485.41286 13779.73179 13107.75152 12383.30615 13135.04666 11568.48734 12117.37327 12856.91262 1.219562332 1.151041809 1.126663397 1.071776109 1.019510041 0.963163281 1.021633035 0.89978735 0.942479242 1 13.65025662 -5.677827191 1.772249683 1.112064969 0.965125009 0.310785802 0.078977027 0.303602876 1.924844578 0.013372943 0.032460363 2.10E-06 5.677827191 -0.146939961 LAPLGPLNPSYKS(ph)SPTR ddPTM_HeLa_SAHA_4h_R1 1 LAPLGPLNPSYKSSPTR 17 1 Q96T17-2;Q96T17 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 LAPLGPLNPS(0.201)YKS(0.778)S(0.016)PT(0.004)R 144.33 7.25E-05 6377000 1028.3 769.23 1030.4 795.3 1035.9 865.92 1099.8 1049.5 527.94 1013.3 TRUE FALSE FALSE 1136.461312 794.1535567 1170.817546 810.6941815 956.5295658 792.1387445 976.0476095 1022.65531 524.2660226 1056.988322 1.075188144 0.751336169 1.107692036 0.766984994 0.904957553 0.749429987 0.923423267 0.967518078 0.495999825 1 10.04574372 -7.285948622 24.9306735 1.035505516 0.883327452 0 0.200571838 618.6122589 629247.4227 0.016854092 0.019278102 5.18E-08 7.285948622 -0.152178064 LAPPS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 3 LAPPSPAR 8 0 O75145-2;O75145 O75145-2 PPFIA3 Liprin-alpha-3 1 0 LAPPS(1)PAR;LAPPS(1)PAR;LAPPS(1)PAR ;; 112.3 0.0056685 64665000 3048.44 3413.46 2636.97 3467.56 3640.08 4085.64 4231.07 3380.52 3510.5 3406.52 TRUE FALSE FALSE 3369.088906 3524.058344 2996.322539 3534.679638 3361.177857 3737.520487 3754.978868 3294.051193 3486.070145 3553.391748 0.948133261 0.991744956 0.843228879 0.994734014 0.945906924 1.051817742 1.056730902 0.927016053 0.981054269 1 11.79498103 -3.90021627 12.77293834 0.976291935 1.85E-05 0.067655785 0.057236502 355021.9786 859841.1698 0.007844623 9496188.662 0.00012583 3.90021627 -0.976273454 LAPVPS(ph)PEPQKPAPVS(ph)PESVK ddPTM_HeLa_SAHA_4h_R1 1 LAPVPSPEPQKPAPVSPESVK 21 1 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 2 0 LAPVPS(1)PEPQKPAPVS(0.979)PES(0.021)VK 75.005 0.013317 43853000 3799 3244 3945.5 4155 4069.8 4233.3 4222.2 4591.3 3956.7 4154.1 TRUE FALSE FALSE 4198.59625 3349.107728 4483.172193 4235.426033 3757.972803 3872.599024 3747.106944 4473.861194 3929.165003 4333.203581 0.96893584 0.772894157 1.034609178 0.977435275 0.867250461 0.893703458 0.86474288 1.032460421 0.906757536 1 12.0812183 -7.500841527 21.13519474 0.986295635 0.918173578 0.015587813 0.079873462 47.55787242 45614.10193 0.012712308 0.0136779 3.16E-08 7.500841527 -0.068122057 LAPVPS(ph)PEPQKPAPVSPESVK ddPTM_HeLa_SAHA_4h_R1 4 LAPVPSPEPQKPAPVSPESVK 21 1 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 LAPVPS(1)PEPQKPAPVSPESVK;LAPVPS(0.999)PEPQKPAPVS(0.001)PESVK;LAPVPS(1)PEPQKPAPVSPESVK;LAPVPS(0.999)PEPQKPAPVS(0.001)PESVK ;;; 116.6 3.02E-05 33938600 10717.3 10360.5 11341.3 10623.6 11555.7 13200.2 12657.8 12629.3 11860.4 11512.4 TRUE FALSE FALSE 11844.59479 10696.187 12886.8333 10829.23514 10670.30476 12075.4687 11233.51103 12306.26079 11777.86251 12008.7559 0.986329881 0.89069901 1.073119764 0.901778271 0.88854373 1.005555346 0.935443365 1.024773997 0.980772913 1 13.55179908 -7.49814468 22.61179209 0.993969167 0.958614648 0.049916522 0.057612648 163.54853 149519.9665 0.009390586 0.010127689 3.18E-08 7.49814468 -0.035354519 LAQANGWGVMVSHR ddPTM_HeLa_SAHA_4h_R1 4 LAQANGWGVMVSHR 14 0 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 ;;; ;;; 170.95 5.78E-11 26892700 4724.97 4782.77 7329.89 5854.74 5614.44 2022.78 6189.17 1482.64 1684.75 3499.28 FALSE FALSE TRUE 5221.964024 4937.734886 8328.769237 5968.066959 5184.26282 1850.427764 5492.748303 1444.716216 1673.025688 3650.151086 1.430615857 1.352748084 2.281760136 1.635019159 1.420287188 0.506945527 1.50480026 0.395796278 0.45834423 1 11.83374047 -5.286871059 24.62140084 1.34788572 0.872742576 0.198733628 0.513786704 789.4710872 764316.5986 0.066404172 0.148540226 5.17E-06 5.286871059 -0.475143143 LAQDFLDSQNLS(ph)AYNTRL ddPTM_HeLa_SAHA_4h_R1 1 LAQDFLDSQNLSAYNTRL 18 1 E9PKK8 E9PKK8 DPP3 1 0 LAQDFLDSQNLS(0.359)AY(0.281)NT(0.359)RL 71.555 0.0067738 0 82.979 81.833 0 64.5 0 147 0 0 166.54 0 TRUE FALSE FALSE 91.70711194 84.48444289 0 65.74849077 0 134.474773 0 0 165.3810346 0 0 LAQPYVGVFLK ddPTM_HeLa_SAHA_4h_R1 1 LAQPYVGVFLK 11 0 K7EQF8;K7EJE8;K7EKE6;P36776-2;P36776 K7EQF8 LONP1 "Lon protease homolog, mitochondrial" 0 0 108.98 0.01217 224640 151.71 172.82 235.59 184.69 243.94 217.71 309.88 0 0 0 FALSE FALSE TRUE 167.6675539 178.4194814 267.6949783 188.264942 225.2493699 199.1598832 275.0114868 0 0 0 0 LAQTLSTQLFQMVHTQR ddPTM_HeLa_SAHA_4h_R1 1 LAQTLSTQLFQMVHTQR 17 0 P53367;P53367-2 P53367 ARFIP1 Arfaptin-1 0 0 120.39 0.00011326 886320 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 LARFADGS(ph)AVVQS(ph)GDT(ph)AVMVT(ph)AVSK ddPTM_HeLa_SAHA_4h_R1 1 LARFADGSAVVQSGDTAVMVTAVSK 25 1 H7BXF6;Q8TCS8 H7BXF6 PNPT1 "Polyribonucleotide nucleotidyltransferase 1, mitochondrial" 4 0 LARFADGS(1)AVVQS(1)GDT(0.997)AVMVT(0.609)AVS(0.395)K 42.319 0.01751 2360300 214.83 146.85 307.9 224.82 257.28 395.35 155.73 187.53 220.51 143.88 TRUE FALSE FALSE 237.4268051 151.6080364 349.8590085 229.1717162 237.567262 361.6639558 138.2068505 182.7332541 218.975453 150.0833709 1.581966101 1.01015879 2.331097752 1.526962746 1.58290196 2.409753683 0.92086718 1.217544975 1.459025418 1 7.229620327 -9.119217252 0.595734272 0.934114897 1.602874434 0.042376215 0.483317761 1.442227616 0.799972339 0.517455341 0.106859643 7.60E-10 9.119217252 0.668759537 LAS(ph)PELER ddPTM_HeLa_SAHA_4h_R1 5 LASPELER 8 0 P05412;P17535 P05412 JUN;JUND Transcription factor AP-1;Transcription factor jun-D 1 0 LAS(1)PELER;LAS(1)PELER;LAS(1)PELER;LAS(1)PELER;LAS(1)PELER ;;;; 112.3 0.0056685 155049700 15939.6 15030.8 14386.1 13077.6 14963.4 14775.2 14280.4 12772.5 15508.3 14118.2 TRUE FALSE FALSE 17616.20026 15517.80778 16346.56279 13330.73586 13816.90752 13516.26984 12673.53181 12445.79794 15400.37648 14726.90469 1.196191639 1.053704638 1.109979533 0.905196043 0.938208525 0.917794344 0.860569962 0.845106165 1.045730708 1 13.84616662 -6.254700811 17.83887309 1.092641124 0.895399142 0.747761001 0.054309271 5.524958702 14623.75355 0.011693205 0.018988785 5.56E-07 6.254700811 -0.197241982 LAS(ph)PSGSTSSGLEVVAPEGTSAPGGGPGTLDDSATICR ddPTM_HeLa_SAHA_4h_R1 4 LASPSGSTSSGLEVVAPEGTSAPGGGPGTLDDSATICR 38 0 Q13263;Q13263-2;M0R0K9 Q13263 TRIM28 Transcription intermediary factor 1-beta 1 0 LAS(0.491)PS(0.176)GS(0.202)T(0.073)S(0.027)S(0.031)GLEVVAPEGTSAPGGGPGTLDDSATICR;LAS(0.56)PS(0.164)GS(0.262)T(0.011)S(0.003)S(0.001)GLEVVAPEGTSAPGGGPGTLDDSATICR;LAS(0.539)PS(0.179)GS(0.261)T(0.018)S(0.002)SGLEVVAPEGTSAPGGGPGTLDDSATICR;LAS(0.605)PS(0.174)GS(0.213)T(0.006)S(0.001)S(0.001)GLEVVAPEGTSAPGGGPGTLDDSATICR ;;; 177.53 5.60E-26 63867000 3301.16 3259.39 2743.2 3305.53 3400.11 5106.43 4134.21 5263.62 4686.76 4035.69 TRUE FALSE FALSE 3648.391155 3364.996375 3117.02901 3369.513313 3139.594306 4671.333436 3669.01781 5128.984222 4654.144456 4209.688346 0.866665381 0.799345723 0.740441751 0.800418709 0.745802076 1.109662534 0.871565187 1.218376231 1.105579338 1 12.03949772 -1.748667736 1.242758154 0.895430745 199.9881288 0.353002125 0.130231845 791.2988555 2.482006965 0.018301775 447663.7336 0.017837429 1.748667736 199.0926981 LAS(ph)SVLR ddPTM_HeLa_SAHA_4h_R1 1 LASSVLR 7 0 J3QR09;J3KTE4;P84098 J3QR09 RPL19 Ribosomal protein L19;60S ribosomal protein L19 1 0 LAS(0.5)S(0.5)VLR 88.177 0.021551 4299600 2707 2791.9 2572.3 2418 3478.6 2628.8 3621 3012.8 2415.4 2357.1 TRUE FALSE FALSE 2991.73468 2882.359392 2922.839648 2464.803886 3212.07042 2404.811451 3213.55555 2935.736938 2398.591035 2458.726116 1.216782406 1.172297871 1.188761785 1.002471918 1.306396185 0.978072114 1.30700021 1.194007303 0.97554218 1 11.26369532 -9.370809021 1.014003523 0.996650177 1.171879259 0.329924374 0.103299256 0.544717155 0.971506518 0.070726506 0.016942752 4.26E-10 9.370809021 0.175229082 LAS(ph)TSDIEEK ddPTM_HeLa_SAHA_4h_R1 3 LASTSDIEEK 10 0 O14974-5;O14974-4;O14974-3;O14974-2;O14974;H0YIS4;H0YHI8;A0A3B3ISH4;F8VZN8 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 LAS(0.757)T(0.071)S(0.173)DIEEK;LAS(0.967)T(0.027)S(0.006)DIEEK;LAS(0.485)T(0.485)S(0.029)DIEEK ;; 123.67 0.0025453 23086800 2903.78 4690.1 3517 3460.6 4681.3 5369 4685.2 4185.1 3716.6 3718.7 TRUE FALSE FALSE 3209.212903 4842.062317 3996.278444 3527.584917 4322.619805 4911.530995 4158.008965 4078.051202 3690.735878 3879.031356 0.827323269 1.248265836 1.030225868 0.909398402 1.114355469 1.266174605 1.0719194 1.051306583 0.951458119 1 11.92148072 -7.274250535 24.99435546 0.918458212 1.09488509 0.360693141 0.105024352 651.6016011 1271261.385 0.019900927 0.022833876 5.32E-08 7.274250535 0.176426878 LAS(ph)TSDIEEKENR ddPTM_HeLa_SAHA_4h_R1 2 LASTSDIEEKENR 13 1 O14974-5;O14974-4;O14974-3;O14974-2;O14974;H0YIS4;H0YHI8;A0A3B3ISH4;F8VZN8 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 LAS(0.333)T(0.333)S(0.333)DIEEKENR;LAS(0.333)T(0.333)S(0.333)DIEEKENR ; 226.23 2.69E-22 20534600 2433.2 3011.9 3092.5 2388.9 3071 3978.4 3957.3 3066.4 1503.08 2587.5 TRUE FALSE FALSE 2689.13514 3109.487536 3513.929795 2435.140614 2835.700643 3639.417938 3512.014189 2987.965928 1492.619944 2699.059788 0.996322924 1.15206323 1.301908839 0.902218108 1.050625353 1.348402119 1.301199108 1.107039548 0.553014776 1 11.39824122 -6.109037138 0.405050743 0.985145556 1.266326127 0.290029556 0.188214576 1.514053425 0.441733751 0.049329237 0.172785453 7.78E-07 6.109037138 0.281180571 LAS(ph)VSADAEVAR ddPTM_HeLa_SAHA_4h_R1 2 LASVSADAEVAR 12 0 A0A669KB77;P11137-3;P11137 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 LAS(0.878)VS(0.122)ADAEVAR;LAS(0.946)VS(0.054)ADAEVAR ; 124.48 0.0013188 10537600 1500.76 1146.38 1015.47 1516.32 1615.36 1801.39 1741.07 1707.5 1017.65 1273.35 TRUE FALSE FALSE 1658.616823 1183.523464 1153.852963 1545.670566 1491.591466 1647.901438 1545.160221 1663.824622 1010.568091 1328.25035 1.248723046 0.891039452 0.868701418 1.163689184 1.122974645 1.240655753 1.163304961 1.252643843 0.760826519 1 10.37531138 -5.555519016 2.20084985 1.08291945 1.212581579 0.193447285 0.152339396 0.483825572 4.679095932 0.020992602 0.051015858 2.78E-06 5.555519016 0.129662128 LASDDRPS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 2 LASDDRPSPPR 11 1 P98175-2;P98175;P98175-5;P98175-4;P98175-3 P98175-2 RBM10 RNA-binding protein 10 1 0 LASDDRPS(1)PPR;LASDDRPS(1)PPR ; 131.08 0.0056969 345271000 3855 4581.2 4263.6 4160.2 4969.6 5324.7 4743.8 4724.8 4366.8 4296 TRUE FALSE FALSE 4260.486587 4729.633886 4844.621204 4240.726687 4588.830322 4871.005604 4210.015139 4603.946457 4336.411083 4481.221584 0.950742227 1.055434059 1.081093874 0.946332737 1.02401326 1.086981644 0.93947935 1.027386477 0.967685039 1 12.12967635 -7.267633012 24.975941 0.976739385 1.021540964 0.186952624 0.047652212 666.5898693 2688034.86 0.008165365 0.009466431 5.40E-08 7.267633012 0.044801579 LASDNVS(ph)IDQFLR ddPTM_HeLa_SAHA_4h_R1 1 LASDNVSIDQFLR 13 0 Q6N043-5;Q6N043-2;Q6N043 Q6N043-5 ZNF280D Zinc finger protein 280D 1 0 LASDNVS(1)IDQFLR 80.755 0.018578 22468000 0 67.073 0 0 65.839 122.24 0 0 0 67.448 TRUE FALSE FALSE 0 69.24620921 0 0 60.79443004 111.8244643 0 0 0 70.35601336 0 0.984225881 0 0 0.864097142 1.589408765 0 0 0 1 6.136601831 -9.621316482 1.439551649 0.999389731 0.391778907 0 0.609793054 0.665941954 2.482344528 0.385887801 0.088711393 2.39E-10 9.621316482 -0.607610824 LASDS(ph)DAESDSR ddPTM_HeLa_SAHA_4h_R1 2 LASDSDAESDSR 12 0 A0A0A0MRB5;Q8WXG6-6;Q8WXG6-8;Q8WXG6-5;Q8WXG6-4;Q8WXG6-7;Q8WXG6-3;Q8WXG6-2;Q8WXG6 A0A0A0MRB5 MADD MAP kinase-activating death domain protein 1 0 LASDS(1)DAESDSR;LASDS(1)DAESDSR ; 297.5 1.61E-130 0 1983.61 1960.64 1644.19 1744.68 1990.58 2291.84 2013.41 2019.73 2016.99 1857.45 TRUE FALSE FALSE 2192.255201 2024.166022 1868.251651 1778.450804 1838.06219 2096.562338 1786.855808 1968.068231 2002.953602 1937.53376 1.13146684 1.044712647 0.964242115 0.917894099 0.94866073 1.082077836 0.92223209 1.015759453 1.033764492 1 10.92000573 -6.836155245 5.118122882 1.063195164 0.973837273 0.322957846 0.054419647 0.194620409 9.253807426 0.010469885 0.013936673 1.46E-07 6.836155245 -0.089357891 LAST(ph)SDIEEK ddPTM_HeLa_SAHA_4h_R1 1 LASTSDIEEK 10 0 O14974-5;O14974-4;O14974-3;O14974-2;O14974;H0YIS4;H0YHI8;A0A3B3ISH4;F8VZN8 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 LAS(0.309)T(0.689)S(0.002)DIEEK 117.09 0.0060939 16876000 1140.5 1657.2 1086.9 1272.7 2001.9 2147.1 1781.2 1407.2 1458.5 1417.4 TRUE FALSE FALSE 1260.463023 1710.894367 1235.017072 1297.334949 1848.514854 1964.155001 1580.774688 1371.205862 1448.35018 1478.511051 0.852521882 1.157173879 0.835311357 0.877460434 1.250254338 1.328468259 1.069166637 0.927423479 0.97960051 1 10.52992931 -5.767907602 24.9994985 0.936410747 1.151683794 0.337684948 0.131700273 124.8745693 482638.5613 0.020035766 0.036948863 1.71E-06 5.767907602 0.215273047 LASTS(ph)DIEEKENR ddPTM_HeLa_SAHA_4h_R1 1 LASTSDIEEKENR 13 1 O14974-5;O14974-4;O14974-3;O14974-2;O14974;H0YIS4;H0YHI8;A0A3B3ISH4;F8VZN8 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 LAST(0.026)S(0.974)DIEEKENR 187.74 1.18E-06 5625700 1728.6 1956.5 2018.6 1448.1 2100 2270.2 2120.4 1810.3 1982.4 1634.3 TRUE FALSE FALSE 1910.422079 2019.891884 2293.684296 1476.130069 1939.098454 2076.766188 1881.807011 1763.995147 1968.604317 1704.762671 1.120638146 1.184852248 1.345456664 0.865885964 1.137459475 1.218214256 1.103852779 1.034745292 1.154767376 1 10.73535519 -8.897229694 0.922352024 1.005801014 1.127812851 0 0.125845194 0.804516019 1.326091255 0.057985849 0.02258569 1.27E-09 8.897229694 0.122011837 LASVPAGGAVAVS(ph)AAPGSAAPAAGSAPAAAEEK ddPTM_HeLa_SAHA_4h_R1 1 LASVPAGGAVAVSAAPGSAAPAAGSAPAAAEEK 33 0 P05387;H0YDD8 P05387 RPLP2 60S acidic ribosomal protein P2 1 0 LASVPAGGAVAVS(0.838)AAPGS(0.162)AAPAAGSAPAAAEEK 158.77 1.66E-21 7142500 2766.6 2892.6 2255.6 2853.8 3578.8 3390.8 2744 2580.4 3006.7 2866.1 TRUE FALSE FALSE 3057.603682 2986.322138 2562.981421 2909.039426 3304.593117 3101.884764 2435.237898 2514.397104 2985.77613 2989.671597 1.022722256 0.998879656 0.85727858 0.973029756 1.105336493 1.03753361 0.814550301 0.84102786 0.998697025 1 11.5457713 -4.757561159 24.99807423 1.004637492 0.827789009 0.574021218 0.058909842 50.76497125 327204.3431 0.00847101 0.02946561 1.75E-05 4.757561159 -0.176848483 LASVS(ph)ADAEVAR ddPTM_HeLa_SAHA_4h_R1 1 LASVSADAEVAR 12 0 A0A669KB77;P11137-3;P11137 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 LAS(0.084)VS(0.916)ADAEVAR 158.34 0.00017877 8048200 527.59 743.34 538.22 909.82 934.05 1002.8 1018.7 1210.9 475.44 666.62 TRUE FALSE FALSE 583.0843369 767.4247037 611.5658187 927.4308817 862.4832908 917.3557984 904.0731949 1179.926931 472.1313743 695.3612506 0.838534411 1.103634554 0.879493671 1.333739665 1.240338443 1.319250674 1.300148943 1.696854592 0.678972799 1 9.441618864 -5.118729378 0.524552083 0.920437565 1.714756247 0.741273557 0.144556761 0.713959382 0.224944463 0.02802714 0.295521984 7.61E-06 5.118729378 0.794318681 LASYLDR ddPTM_HeLa_SAHA_4h_R1 2 LASYLDR 7 0 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 ; ; 149.4 0.00083906 36676500 5573.5 5762.9 6124.8 6577.4 6148 5711.2 6781.2 5938.4 5167.2 4620 FALSE FALSE TRUE 6159.746302 5949.621741 6959.455847 6704.715088 5676.941568 5224.57363 6018.161529 5786.504327 5131.241034 4819.19081 1.278170246 1.234568619 1.444112948 1.391253294 1.17798647 1.084118441 1.248790879 1.200721149 1.064751581 1 12.23457521 -9.156409571 0.864853197 0.996860741 1.25882166 0.449841799 0.098544025 0.447781389 0.593538046 0.075207659 0.020626058 6.98E-10 9.156409571 0.261960919 LAT(ph)QSNEITIPVTFESR ddPTM_HeLa_SAHA_4h_R1 2 LATQSNEITIPVTFESR 17 0 P04792;C9J3N8 P04792 HSPB1 Heat shock protein beta-1 1 0 LAT(0.99)QS(0.01)NEITIPVTFESR;LAT(0.983)QS(0.017)NEITIPVTFESR ; 239.19 3.57E-36 32971000 1463.37 1618.5 1615.8 1930.65 1786.77 2120.89 1939.2 1841.15 1911.94 1937.87 TRUE FALSE FALSE 1617.293971 1670.940462 1835.992809 1968.020523 1649.868069 1940.17824 1720.996112 1794.056049 1898.634654 2021.421059 0.800077729 0.826616728 0.908268369 0.973582675 0.816192184 0.959809057 0.851379333 0.887522192 0.939257383 1 10.98115415 -9.556019351 1.350278309 0.999463725 0.870005792 0.259822227 0.057953014 0.347543744 1.142885912 0.040436197 0.009717516 2.78E-10 9.556019351 -0.129457933 LATLLGLQAPPTR ddPTM_HeLa_SAHA_4h_R1 1 LATLLGLQAPPTR 13 0 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 127.87 0.0012907 674580 155.04 0 0 123.87 169.12 217.23 316.82 155.3 67.279 206.54 FALSE FALSE TRUE 171.3478185 0 0 126.267683 156.1620621 198.7207819 281.1705798 151.3276509 66.81079996 215.4449502 0.795320653 0 0 0.586078638 0.724835101 0.922373821 1.305069251 0.702395906 0.310106131 1 7.751175473 -7.642509246 3.724163614 0.919948867 0.61364287 0 0.416836886 0.371072429 10.80480806 0.076546053 0.079816156 2.28E-08 7.642509246 -0.306305997 LATNAAVTVLR ddPTM_HeLa_SAHA_4h_R1 2 LATNAAVTVLR 11 0 P50990-2;P50990;P50990-3;H7C2U0 P50990-2 CCT8 T-complex protein 1 subunit theta 0 0 ; ; 160.91 4.15E-07 13272900 1760.5 2147.56 1866.53 1766.06 2307.75 1798.44 2505.03 1778.48 1768.36 1624.93 FALSE FALSE TRUE 1945.677467 2217.142353 2120.890988 1800.244645 2130.930694 1645.202794 2223.157432 1732.989057 1756.053839 1694.988685 1.147899974 1.308057318 1.251271473 1.062098326 1.257194643 0.970627597 1.311606061 1.022419248 1.03602688 1 10.72705993 -8.757202171 0.935758369 1.010878874 1.16905996 0.211083748 0.1133134 0.524791878 0.913336074 0.046500948 0.020922752 1.75E-09 8.757202171 0.158181086 LATNTS(ph)APDLK ddPTM_HeLa_SAHA_4h_R1 3 LATNTSAPDLK 11 0 E7EVA0;P27816;P27816-6;P27816-2;P27816-4;B5MEG9;P27816-5;H0Y2V1;H7C4C5;F8W9U4 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 LATNT(0.331)S(0.669)APDLK;LATNT(0.024)S(0.976)APDLK;LATNT(0.078)S(0.922)APDLK ;; 187.74 1.07E-06 131581100 12598.3 10101.5 8823.6 15620.5 13980.7 13058.2 13806.8 16421.9 11492.1 10644.7 TRUE FALSE FALSE 13923.447 10428.79523 10026.03426 15922.85737 12909.50179 11945.5679 12253.22253 16001.85158 11412.12554 11103.64511 1.253952811 0.939222672 0.902949811 1.434020739 1.162636383 1.075824 1.103531534 1.441134998 1.027781906 1 13.43874574 -6.267756765 24.96069871 1.091747523 1.221857492 0.292110589 0.15154472 821.569203 3246107.57 0.025605264 0.039712328 5.40E-07 6.267756765 0.130109969 LATQLTGPVMPVR ddPTM_HeLa_SAHA_4h_R1 1 LATQLTGPVMPVR 13 0 P26373;P26373-2 P26373 RPL13 60S ribosomal protein L13 0 0 187.31 3.94E-16 1519900 192.48 272.16 299.22 363.31 423.36 239.45 508.32 388.49 359.87 322.46 FALSE FALSE TRUE 212.7259295 280.9781626 339.9961433 370.3423904 390.9222483 219.0475129 451.1224958 378.5529883 357.3656354 336.3628287 0.632429958 0.835342489 1.010801772 1.101020561 1.162204069 0.651223899 1.341178208 1.125430506 1.062440927 1 8.393874473 -6.692068871 3.763101966 0.821687523 1.070460492 0.150556579 0.196794634 0.249803928 7.053493382 0.032940628 0.046718256 2.03E-07 6.692068871 0.248772969 LATQSNEITIPVTFESR ddPTM_HeLa_SAHA_4h_R1 4 LATQSNEITIPVTFESR 17 0 P04792;C9J3N8 P04792 HSPB1 Heat shock protein beta-1 0 0 ;;; ;;; 311.33 1.75E-138 69833200 2376.31 2379.06 2221.48 2158.6 2731.41 2748.2 2789.46 2469.53 2591.5 2429.32 FALSE FALSE TRUE 2626.261189 2456.143105 2524.211725 2200.382824 2522.129956 2514.037899 2475.582619 2406.362998 2573.465541 2534.059874 1.036384821 0.969252199 0.996113687 0.868323139 0.995292172 0.992098855 0.976923491 0.949607791 1.015550409 1 11.3072349 -7.172995448 5.797386894 1.017131474 0.963876548 0.31524449 0.03607303 0.2073337 10.89974132 0.006085523 0.007467547 6.71E-08 7.172995448 -0.053254927 LATTTTDT(ph)S(ph)S(ph)VPK ddPTM_HeLa_SAHA_4h_R1 1 LATTTTDTSSVPK 13 0 Q4W8S1;E7ER26;P57071-6;P57071-5;P57071-3;P57071-2;P57071 Q4W8S1 ZNF298;PRDM15 PR domain zinc finger protein 15 3 0 LATT(0.001)T(0.001)T(0.001)DT(0.999)S(0.999)S(1)VPK 64.64 0.022375 8849500 2483.7 3074.1 4046.1 6916.9 2492.4 2471.5 3411.2 5066.8 4362.2 2545.2 TRUE FALSE FALSE 2744.946962 3173.702857 4597.481437 7050.786602 2301.43285 2260.914296 3027.362798 4937.198593 4331.843095 2654.936028 1.03390324 1.195397111 1.731673151 2.655727493 0.866850586 0.851588992 1.140277116 1.859629965 1.631618634 1 11.37446138 -6.967341371 5.566603059 1.020188798 1.492374173 0.03172443 0.533547803 0.263107783 22.13911734 0.084164917 0.110048294 1.08E-07 6.967341371 0.472185375 LAVEALS(ph)SLDGDLAGR ddPTM_HeLa_SAHA_4h_R1 1 LAVEALSSLDGDLAGR 16 0 P12277;G3V4N7 P12277 CKB Creatine kinase B-type 1 0 LAVEALS(0.5)S(0.5)LDGDLAGR 159.41 4.67E-06 1272100 409.83 372.37 421.38 380.54 407.53 615.61 362.76 419.3 350.82 417.32 TRUE FALSE FALSE 452.9377998 384.4350323 478.8034719 387.905902 376.3051394 563.1565647 321.9412901 408.5749131 348.3786151 435.3127075 1.040488348 0.883123846 1.099906949 0.891097125 0.864447862 1.293682805 0.739563271 0.93857796 0.800295073 1 8.765908325 LAVEALSS(ph)LDGDLAGR ddPTM_HeLa_SAHA_4h_R1 1 LAVEALSSLDGDLAGR 16 0 P12277;G3V4N7 P12277 CKB Creatine kinase B-type 1 0 LAVEALS(0.4)S(0.6)LDGDLAGR 204.67 2.49E-15 993470 401.89 472.99 482.36 436.71 489.88 488.97 580.6 578.21 566.09 406.68 TRUE FALSE FALSE 444.1626341 488.3151863 548.0935088 445.1631535 452.3455002 447.3070051 515.2693599 563.4202254 562.1505336 424.213965 1.047025017 1.151105872 1.292021371 1.049383543 1.066314496 1.054437246 1.214644973 1.328151056 1.32515801 1 8.728648305 -1 0.140187351 0.959930059 1.947085095 0 0.134106069 57.26860113 0.530227493 0.252766335 11.37757189 0.1 1 0.987155036 LAVEALSSLDGDLAGR ddPTM_HeLa_SAHA_4h_R1 1 LAVEALSSLDGDLAGR 16 0 P12277;G3V4N7 P12277 CKB Creatine kinase B-type 0 0 134.99 7.95E-05 358390 0 0 53.896 0 46.818 116.19 0 0 0 137.25 FALSE FALSE TRUE 0 0 61.2406662 0 43.23081495 106.2899583 0 0 0 143.1675192 0 0 0.427755308 0 0.301959657 0.742416708 0 0 0 1 7.161560411 -9.332135523 0.996679354 1.011911212 0.184722307 0 0.385487639 0.297947733 0.517931938 0.178456592 0.044429917 4.65E-10 9.332135523 -0.827188905 LAVEAVLR ddPTM_HeLa_SAHA_4h_R1 1 LAVEAVLR 8 0 P78371;F5GWF6;P78371-2;F8VQ14 P78371 CCT2 T-complex protein 1 subunit beta 0 0 111.01 0.0074418 1902000 1032 1165.3 1986.9 1826.9 1836.2 796.73 1841.7 601.44 586.32 639.76 FALSE FALSE TRUE 1140.550495 1203.056485 2257.664385 1862.262291 1695.510753 728.8441217 1634.467069 586.0560357 582.2397514 667.3431845 1.709091396 1.802755333 3.383063523 2.79056164 2.540687898 1.092157886 2.449215197 0.878192884 0.87247426 1 9.382285055 -7.967381478 1.03500603 1.154748182 2.173525498 0.284625031 0.722150056 0.448893894 1.017249695 0.195666564 0.159942619 1.08E-08 7.967381478 1.018777317 LAVEILNK ddPTM_HeLa_SAHA_4h_R1 1 LAVEILNK 8 0 F8WBH4;C9JZT2;P19525-2;P19525 F8WBH4 EIF2AK2 "Interferon-induced, double-stranded RNA-activated protein kinase" 0 0 106.04 0.010916 530390 400.37 305.94 548.3 729.78 369.04 669.64 536.39 430.3 522.21 577.37 FALSE FALSE TRUE 442.4827536 315.8526567 623.0194686 743.9059472 340.7642349 612.5829047 476.0339855 419.2935491 518.5758981 602.2632463 0.734699911 0.524442856 1.034463704 1.235184036 0.565806127 1.017134797 0.790408494 0.696196475 0.861045234 1 9.234250409 -9.512625536 1.32241089 0.998113017 0.820883597 0.022841753 0.212021449 0.884443553 2.814625612 0.1365219 0.034432405 3.07E-10 9.512625536 -0.177229421 LAVIFR ddPTM_HeLa_SAHA_4h_R1 1 LAVIFR 6 0 E9PFH4;C9J7E5;Q9Y5L0-5;Q9Y5L0-3;Q9Y5L0;Q9Y5L0-1 E9PFH4 TNPO3 Transportin-3 0 0 106.05 0.022044 1100800 729.76 740.84 852.94 962.84 1137.7 1129.4 1183 562.31 769.7 749.3 FALSE FALSE TRUE 806.5195051 764.8437021 969.1742213 981.4771605 1050.529672 1033.168766 1049.885727 547.9269244 764.343595 781.60599 1.031874775 0.978554044 1.239977986 1.255718576 1.344065533 1.321853695 1.343241659 0.701027028 0.977914198 1 9.610297713 -6.758753912 24.99840733 1.012735196 1.221933334 0.23368752 0.177576991 72.70426728 676782.4416 0.026529535 0.036558743 1.74E-07 6.758753912 0.209198138 LAVNMVPFPR ddPTM_HeLa_SAHA_4h_R1 5 LAVNMVPFPR 10 0 P68371;Q3ZCM7;A0A075B736;Q5SQY0;A6NNZ2;CON__ENSEMBL:ENSBTAP00000025008;Q9H4B7;A0A0B4J269;Q13509;Q13509-2;P04350;P07437;Q5JP53;Q5ST81;Q9BVA1;Q13885;K7ESM5;Q9BUF5 P68371;A0A0B4J269;P04350;P07437;Q9BVA1;K7ESM5 TUBB4B;TUBB8;TUBB1;TUBB3;TUBB4A;TUBB;TUBB2B;TUBB2A;TUBB6 Tubulin beta-4B chain;Tubulin beta-8 chain;Tubulin beta-8 chain-like protein LOC260334;Tubulin beta-1 chain;Tubulin beta-3 chain;Tubulin beta-4A chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain;Tubulin beta-6 chain 0 0 ;;;; ;;;; 171.38 2.85E-11 21998360 2255.32 2865.17 4747.35 3223.388 3489.324 824.96 3741.94 756.67 181.367 1205.92 FALSE FALSE TRUE 2492.544905 2958.003388 5394.294135 3285.781336 3221.972749 754.6687669 3320.887063 737.315477 180.1048523 1257.913113 1.981492108 2.351516458 4.28828834 2.612089263 2.561363512 0.599937117 2.639997174 0.586141817 0.143177498 1 10.29681656 -4.234705706 22.45994713 1.870660419 0.586135075 0.112116827 1.142982182 3876.575862 3256647.31 0.154565324 13.50358922 5.82E-05 4.234705706 -1.284525344 LAVYIDK ddPTM_HeLa_SAHA_4h_R1 2 LAVYIDK 7 0 P20700;E9PBF6;A0A0D9SFE5;A0A0D9SFY5 P20700 LMNB1 Lamin-B1 0 0 ; ; 108.09 0.014165 6235000 7144.4 8438.4 7944.1 8569.2 9078.5 9112.6 10057.5 6775.5 8152.1 8017.4 FALSE FALSE TRUE 7895.880772 8711.809697 9026.680577 8735.069257 8382.907291 8336.155214 8925.80363 6602.192521 8095.368872 8363.06935 0.944136709 1.041700042 1.0793502 1.044481265 1.002372089 0.996781787 1.067288008 0.789446105 0.967990164 1 13.02981681 -4.249251165 24.82342921 0.997584438 0.789445964 0.689242876 0.044103983 946.6675981 1928016.994 0.007169774 0.161305623 5.63E-05 4.249251165 -0.208138475 LAVYIDR ddPTM_HeLa_SAHA_4h_R1 2 LAVYIDR 7 0 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 124.37 0.0020769 31657000 3799.4 4104.2 4742.7 4733.8 4763.6 4566.1 4939.6 3603 3962.2 4039 FALSE FALSE TRUE 4199.038324 4237.178773 5389.010457 4825.429544 4398.613997 4177.042592 4383.783208 3510.840477 3934.626728 4213.141056 0.99665268 1.005705415 1.279095664 1.145328267 1.044022485 0.991431935 1.040502359 0.833307129 0.933893899 1 12.0406805 -4.259883121 23.70724404 1.032059842 0.833306997 0.307618678 0.093986197 69.08927532 1052248.697 0.013444623 0.113054029 5.50E-05 4.259883121 -0.198752846 LAWVGDVFTATPAEPRPLT(ph)SPLR ddPTM_HeLa_SAHA_4h_R1 1 LAWVGDVFTATPAEPRPLTSPLR 23 1 P48634;P48634-2;P48634-3;P48634-4 P48634 PRRC2A Protein PRRC2A 1 0 LAWVGDVFTATPAEPRPLT(0.5)S(0.5)PLR 76.78 0.00087021 3221700 481.08 497.71 631.14 245.74 405.54 552.26 725.76 579.27 662.5 527.16 TRUE FALSE FALSE 531.6822017 513.8361306 717.1484724 250.496653 374.4676128 505.2043411 644.0955747 564.4531122 657.8896086 549.8884475 0.96689102 0.934437035 1.304170829 0.455540854 0.680988325 0.918739689 1.171320434 1.026486581 1.196405583 1 9.102995167 -6.29551784 24.99842993 1.001234018 0.862792623 0.178601722 0.214365956 1205.349459 884187.696 0.032564319 0.049744378 5.06E-07 6.29551784 -0.138441395 LAYINPDLALEEK ddPTM_HeLa_SAHA_4h_R1 2 LAYINPDLALEEK 13 0 P31948-3;P31948;P31948-2 P31948-3 STIP1 Stress-induced-phosphoprotein 1 0 0 ; ; 189.33 2.75E-16 2331630 1008.85 1232.42 1190.76 1190.93 1221.36 1409.5 1382.91 1304.07 1135 1048.99 FALSE FALSE TRUE 1114.965472 1272.351217 1353.030572 1213.982172 1127.779661 1289.40267 1227.301327 1270.713778 1127.101443 1094.217093 1.018961849 1.162795962 1.236528456 1.109452759 1.030672678 1.178379208 1.121625074 1.161299514 1.030052857 1 10.09568328 -7.29089256 7.667269856 1.008804997 1.141502349 0.567096266 0.050563964 0.121477988 27.25182827 0.008764354 0.01008736 5.12E-08 7.29089256 0.132697352 LCAGIMITAS(ph)HNPK ddPTM_HeLa_SAHA_4h_R1 8 LCAGIMITASHNPK 14 0 Q96G03-2;Q96G03 Q96G03-2 PGM2 Phosphoglucomutase-2 1 0 LCAGIMIT(0.056)AS(0.944)HNPK;LCAGIMITAS(1)HNPK;LCAGIMITAS(1)HNPK;LCAGIMITAS(1)HNPK;LCAGIMITAS(1)HNPK;LCAGIMIT(0.006)AS(0.994)HNPK;LCAGIMITAS(1)HNPK;LCAGIMIT(0.008)AS(0.992)HNPK ;;;;;;; 167.18 4.51E-06 67029900 14368.94 19918.01 19333.45 19219.95 20788.44 19065.3 20936.25 13875.95 18397.57 19679.48 TRUE FALSE FALSE 15880.33104 20563.36659 21968.11188 19591.97992 19195.63422 17440.82918 18580.44805 13521.02329 18269.53981 20527.95869 0.773595235 1.001724862 1.070155694 0.954404684 0.935097079 0.84961342 0.90512887 0.658663801 0.88998327 1 14.32530255 -3.731464117 1.512090922 0.917647384 3.38E-12 0.497497838 0.080896192 4.408801681 3.010836747 0.015274522 9.007165779 0.000185582 3.731464117 -0.917647384 LCDDGPQLPT(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 LCDDGPQLPTSPR 13 0 O60504-2;O60504;H0YAZ3;H0YB51 O60504-2 SORBS3 Vinexin 1 0 LCDDGPQLPT(0.5)S(0.5)PR 118.73 0.0021155 7616100 896.23 994.78 642.36 720.44 794.99 518.33 888.4 660.8 814.11 733.19 TRUE FALSE FALSE 990.4995835 1027.011525 729.8974755 734.385158 734.0780379 474.165368 788.4348939 643.8976928 808.4445422 764.801409 1.295106902 1.342847323 0.954362096 0.960229871 0.959828302 0.619984956 1.030901466 0.841914888 1.057064661 1 9.578941371 -6.583409613 7.804913946 1.158534362 0.887968239 0.496623537 0.138874788 0.186312083 20.92811003 0.025255163 0.035775962 2.61E-07 6.583409613 -0.270566123 LCDDGPQLPTS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 LCDDGPQLPTSPR 13 0 O60504-2;O60504;H0YAZ3;H0YB51 O60504-2 SORBS3 Vinexin 1 0 LCDDGPQLPT(0.002)S(0.998)PR;LCDDGPQLPT(0.346)S(0.654)PR;LCDDGPQLPT(0.001)S(0.999)PR;LCDDGPQLPT(0.033)S(0.967)PR ;;; 221.86 1.41E-16 363167000 12088.8 13486.9 11041.4 12091.5 11981.5 9066.1 13018.5 10750.7 14167.7 12077.2 TRUE FALSE FALSE 13360.35545 13923.88441 12546.06449 12325.54847 11063.48006 8293.617276 11553.62412 10475.71266 14069.10582 12597.9072 1.060521819 1.105253769 0.995884816 0.978380637 0.878199838 0.658332939 0.917106622 0.831543882 1.116781193 1 13.62089647 -5.774289355 2.542489333 1.032836594 0.808739645 0.703953085 0.071917838 0.115675559 1.527652169 0.009996743 0.020821475 1.68E-06 5.774289355 -0.224096949 LCDFGSASHVADNDITPY(ph)LVSR ddPTM_HeLa_SAHA_4h_R1 4 LCDFGSASHVADNDITPYLVSR 22 0 Q13523;H0YDJ3 Q13523 PRPF4B Serine/threonine-protein kinase PRP4 homolog 1 0 LCDFGSASHVADNDIT(0.06)PY(0.915)LVS(0.025)R;LCDFGSASHVADNDIT(0.019)PY(0.975)LVS(0.006)R;LCDFGSASHVADNDIT(0.333)PY(0.479)LVS(0.188)R;LCDFGSASHVADNDIT(0.284)PY(0.627)LVS(0.089)R ;;; 223.44 8.35E-30 445248100 9099.9 11877.78 6945.22 11509.68 16930.61 13584.5 13185.88 13263.74 13270.05 12659.04 TRUE FALSE FALSE 10057.06923 12262.62787 7891.678412 11732.4665 15633.39032 12427.02418 11702.17008 12924.47274 13177.70264 13204.83317 0.761620318 0.928646936 0.597635602 0.888497897 1.183914263 0.941096644 0.886203554 0.978768347 0.99794541 1 13.68877845 -5.975615528 24.99879469 0.863104179 0.991853814 0.204146797 0.131448746 333.9715231 342383.5721 0.020908285 0.037898417 1.06E-06 5.975615528 0.128749635 LCDFGSASHVADNDITPYLVSR ddPTM_HeLa_SAHA_4h_R1 2 LCDFGSASHVADNDITPYLVSR 22 0 Q13523;H0YDJ3 Q13523 PRPF4B Serine/threonine-protein kinase PRP4 homolog 0 0 ; ; 120.15 2.13E-05 7178500 853.93 1605.24 1000.28 1209.86 1930.07 1622.11 1565.09 1767.19 1727.83 1504.73 FALSE FALSE TRUE 943.7502754 1657.250829 1136.592949 1233.27859 1782.188454 1483.897102 1388.981954 1721.987839 1715.80589 1569.606274 0.601265611 1.055838561 0.72412615 0.785724809 1.135436627 0.945394477 0.884923803 1.097082668 1.093144133 1 10.616187 -5.783102113 24.99658439 0.818746113 1.001345109 0.087375419 0.162951482 284.5478195 328338.6137 0.025540829 0.046326589 1.65E-06 5.783102113 0.182598996 LCLAHS(ph)PPVK ddPTM_HeLa_SAHA_4h_R1 1 LCLAHSPPVK 10 0 Q9UQK1 Q9UQK1 PPP1R3C Protein phosphatase 1 regulatory subunit 3C 1 0 LCLAHS(1)PPVK 77.387 0.022343 3263500 2072.3 2108.1 2000 3324.9 3913.6 3603.5 4253.5 3379.1 2287.1 2577.8 TRUE FALSE FALSE 2290.274022 2176.403823 2272.549584 3389.258247 3613.740813 3296.461527 3774.884985 3292.667515 2271.183885 2688.941573 0.851738113 0.809390522 0.845146509 1.260443247 1.343926863 1.225932746 1.403855339 1.224521777 0.844638614 1 11.39282269 -6.216823273 6.2760529 0.911474924 1.29937621 0.886602191 0.074660241 0.063031281 6.558735942 0.012851318 0.021285553 6.07E-07 6.216823273 0.387901286 LCNLEEGS(ph)PGSGTYTR ddPTM_HeLa_SAHA_4h_R1 3 LCNLEEGSPGSGTYTR 16 0 R4GNH9;R4GMQ7;B1AMU7;B1AMU3;B1AMU4;Q9Y3B2 R4GNH9 EXOSC1 Exosome complex component CSL4 1 0 LCNLEEGS(0.88)PGS(0.105)GT(0.013)Y(0.001)T(0.001)R;LCNLEEGS(0.995)PGS(0.004)GT(0.001)YTR;LCNLEEGS(0.782)PGS(0.173)GT(0.044)YTR ;; 132.4 0.00012838 18632000 1622.71 1541.31 1100.15 1747.84 2007.94 1838.25 2163.62 2390.51 1686.27 1721.48 TRUE FALSE FALSE 1793.394083 1591.249455 1250.072713 1781.671971 1854.092071 1681.620758 1920.163783 2329.364216 1674.53511 1795.701428 0.998715073 0.886143671 0.696147307 0.9921872 1.0325169 0.936470135 1.069311275 1.297189043 0.93252424 1 10.81033178 -4.311301709 2.357813035 0.967986617 1.356080541 0.561245931 0.094978401 0.325300224 2.325367778 0.014264607 0.245576641 4.88E-05 4.311301709 0.388093924 LCPSCPAS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 2 LCPSCPASSPK 11 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 LCPSCPAS(0.86)S(0.14)PK;LCPSCPAS(0.936)S(0.064)PK ; 139.15 0.00094981 80383000 11381.2 10070.9 11428.2 11272.8 11115.5 12722.9 11986.6 11346.8 11064.9 10218.6 TRUE FALSE FALSE 12578.32683 10397.20377 12985.57558 11491.00134 10263.83279 11638.83734 10637.83622 11056.56529 10987.89846 10659.17385 1.180047066 0.97542304 1.218253474 1.078038646 0.962910722 1.091908013 0.997998191 1.037281635 1.030839595 1 13.37980801 -5.971937965 24.39097726 1.088991134 1.025071905 0.116508144 0.076427621 288.3156328 250596.4524 0.012621286 0.022877674 1.07E-06 5.971937965 -0.06391923 LCRQFSTY(ph)FRY(ph)GACHTTR ddPTM_HeLa_SAHA_4h_R1 1 LCRQFSTYFRYGACHTTR 18 2 A0A2R8YEJ5;Q96M69 A0A2R8YEJ5 LRGUK Leucine-rich repeat and guanylate kinase domain-containing protein 2 0 LCRQFS(0.013)T(0.277)Y(0.655)FRY(0.621)GACHT(0.311)T(0.123)R 41.386 0.022863 3796000 327.86 535.87 335.22 397.47 303.1 390.17 368.95 426.89 566.21 520.78 TRUE FALSE FALSE 362.3458191 553.2325396 380.9020358 405.1636066 279.8765435 356.925321 327.434775 415.9707719 562.2696985 543.2333744 0.667016859 1.018406758 0.701175689 0.745837104 0.515204987 0.657038646 0.60275158 0.765731252 1.035042626 1 9.085428306 -6.387869813 2.316470851 0.851095319 0.640853531 0.454478111 0.129294968 0.284665947 2.98861262 0.023161236 0.037681761 4.09E-07 6.387869813 -0.210241788 LCS(ph)SSSSDTSSR ddPTM_HeLa_SAHA_4h_R1 1 LCSSSSSDTSSR 12 0 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 LCS(0.367)S(0.367)S(0.203)S(0.031)S(0.031)DTSSR 184.98 1.04E-06 78429000 993.54 1100.9 793.9 1254.6 1403 1299.9 1498.3 1665.7 869.18 1366.1 TRUE FALSE FALSE 1098.045096 1136.569882 902.0885575 1278.884597 1295.502443 1189.141207 1329.707341 1623.093806 863.1313056 1424.999257 0.770558364 0.797593316 0.633044932 0.897463343 0.909124996 0.834485493 0.933128445 1.139013791 0.605706495 1 10.47674545 -4.291590577 2.601237463 0.862910014 1.186089271 0.339517987 0.124503564 0.406144161 3.684589264 0.016611283 0.276559735 5.11E-05 4.291590577 0.323179258 LCSSS(ph)SSDTSSR ddPTM_HeLa_SAHA_4h_R1 2 LCSSSSSDTSSR 12 0 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 LCS(0.141)S(0.141)S(0.35)S(0.35)S(0.019)DTSSR;LCS(0.1)S(0.1)S(0.777)S(0.001)S(0.022)DTSSR ; 231.17 1.11E-22 94450400 1807.1 2270.3 1725.29 2117.7 2555.2 2504.2 2747.2 2463.4 1871.85 1961.95 TRUE FALSE FALSE 1997.179069 2343.85921 1960.403536 2158.691146 2359.421128 2290.828072 2438.077826 2400.389795 1858.823643 2046.539266 0.975881139 1.145279374 0.957911519 1.054800747 1.152883391 1.119366782 1.191317394 1.172901901 0.908276559 1 10.99897063 -5.687849209 0.635700756 0.990808878 1.202852562 0.633231595 0.058385214 0.43610296 0.288758227 0.010306382 0.048708415 2.05E-06 5.687849209 0.212043684 LCYVALDFEQEMATAASSSSLEK ddPTM_HeLa_SAHA_4h_R1 2 LCYVALDFEQEMATAASSSSLEK 23 0 P60709;A0A2R8Y793;Q6S8J3;A0A2R8YEA7;P63261;I3L4N8 P60709;P63261 ACTB;POTEE;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;POTE ankyrin domain family member E;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ; ; 213.93 9.21E-30 15312500 3030.28 3570.38 3654.15 3395.35 3754.04 3990.8 3833.36 3793.47 4268.43 3528.84 FALSE FALSE TRUE 3349.018754 3686.062655 4152.118532 3461.071909 3466.406266 3650.761388 3402.020244 3696.43853 4238.725648 3680.985562 0.909815781 1.001379275 1.127990986 0.940256855 0.941706021 0.991789108 0.924214504 1.004198052 1.151519227 1 11.84587638 -3.975998609 14.66160605 0.969197041 1.082884641 0 0.082519494 3168462.643 53183767.49 0.008754403 8185974.729 0.000105682 3.975998609 0.113687599 LDALVAEEHLTVDAR ddPTM_HeLa_SAHA_4h_R1 2 LDALVAEEHLTVDAR 15 0 A6NFX8;Q9UKK9 A6NFX8 NUDT5 ADP-sugar pyrophosphatase 0 0 ; ; 155.06 2.88E-05 3331900 1462.28 2313.8 1248.79 1998.52 2704.7 2826.3 2418.11 1894.48 2090.46 2392.86 FALSE FALSE TRUE 1616.08932 2388.768638 1418.968598 2037.204245 2497.46647 2585.48334 2146.017899 1846.021945 2075.912319 2496.027905 0.647464444 0.957028018 0.568490679 0.816178473 1.000576342 1.035839116 0.8597732 0.739583857 0.831686342 1 11.28541835 -4.256238136 22.11662983 0.845768835 0.739583653 0.050109268 0.14619705 377.6644023 1605601.76 0.023721887 0.255050185 5.54E-05 4.256238136 -0.106185182 LDAQSLNLSQEDFDRYMSGQT(ph)SPR ddPTM_HeLa_SAHA_4h_R1 5 LDAQSLNLSQEDFDRYMSGQTSPR 24 1 E9PFK9;Q9UJ41;Q9UJ41-4;Q9UJ41-3;A0A0A0MSJ3;Q3HKR1 E9PFK9 RABGEF1 Rab5 GDP/GTP exchange factor 1 0 LDAQS(0.001)LNLS(0.089)QEDFDRY(0.22)MS(0.188)GQT(0.441)S(0.061)PR;LDAQSLNLSQEDFDRY(0.079)MS(0.086)GQT(0.417)S(0.417)PR;LDAQSLNLSQEDFDRY(0.013)MS(0.016)GQT(0.485)S(0.485)PR;LDAQSLNLSQEDFDRY(0.015)MS(0.072)GQT(0.457)S(0.457)PR;LDAQSLNLS(0.004)QEDFDRY(0.092)MS(0.108)GQT(0.398)S(0.398)PR ;;;; 75.611 0.00048336 118351200 4362.86 3718.64 3867.05 3628.72 4591.34 4101.21 4731.88 3904.91 3554.51 4267.69 TRUE FALSE FALSE 4821.765632 3839.126376 4394.031435 3698.959123 4239.552521 3751.763835 4199.436409 3805.028056 3529.773876 4451.691001 1.083131248 0.862397317 0.987047716 0.830911023 0.95234654 0.842772743 0.943335107 0.854737684 0.792906308 1 12.12013774 -7.259662496 24.97788342 1.039256424 0.899117595 0 0.09371206 75.81573515 1065752.778 0.0086894 0.010349193 5.50E-08 7.259662496 -0.140138828 LDDCGLTEAR ddPTM_HeLa_SAHA_4h_R1 2 LDDCGLTEAR 10 0 P13489;E9PMA9;E9PMN0;E9PIK5;E9PMJ3;E9PLZ3;E9PIM9 P13489 RNH1 Ribonuclease inhibitor 0 0 ; ; 122.19 0.0067382 2922400 2283.3 3213.1 2152.76 2333.5 2566.2 3190.2 2504.5 2083.89 3661.8 2716.7 FALSE FALSE TRUE 2523.46797 3317.206548 2446.126922 2378.668267 2369.57831 2918.377012 2222.687069 2030.587111 3636.317236 2833.830232 0.890479585 1.170573491 0.863187531 0.839382769 0.836175112 1.029834808 0.784340234 0.716552138 1.283181044 1 11.46853762 -6.556791279 24.99999283 0.966050337 0.848588507 0.287017373 0.142799029 206.8710555 152502.6073 0.016429328 0.02323464 2.77E-07 6.556791279 -0.11746183 LDEDEDEDDADLSKYNLDAS(ph)EEEDSNKKK ddPTM_HeLa_SAHA_4h_R1 1 LDEDEDEDDADLSKYNLDASEEEDSNKKK 29 3 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 LDEDEDEDDADLS(0.017)KY(0.178)NLDAS(0.79)EEEDS(0.015)NKKK 49.266 0.0066771 31254000 1660.7 2202.5 2149 2018.6 1998.4 2574.4 2191.6 2026.4 2319.2 2300.2 TRUE FALSE FALSE 1835.380046 2273.862445 2441.854528 2057.672922 1845.283024 2355.046637 1944.9954 1974.567622 2303.060498 2399.372879 0.764941565 0.947690317 1.017705314 0.857587806 0.769068885 0.981525905 0.810626567 0.822951547 0.959859353 1 11.22844166 -9.639399534 1.472815554 0.999848452 0.85990523 0.199554419 0.083450875 0.461189204 1.801220998 0.062699456 0.014299376 2.29E-10 9.639399534 -0.139943222 LDEGT(ph)PPEPK ddPTM_HeLa_SAHA_4h_R1 4 LDEGTPPEPK 10 0 Q9Y4G6;H0YMT1;A0A1B0GVU7;H0YN01 Q9Y4G6 TLN2 Talin-2 1 0 LDEGT(1)PPEPK;LDEGT(1)PPEPK;LDEGT(1)PPEPK;LDEGT(1)PPEPK ;;; 150.09 0.0011136 231041000 20305.2 25968.7 19004.3 20804.3 24469.6 27654.5 24456.8 21515.9 29107.7 22002.4 TRUE FALSE FALSE 22440.9941 26810.10292 21594.10703 21206.99731 22594.74453 25298.18102 21704.8565 20965.55443 28905.13715 22951.03114 0.977777162 1.168143721 0.940877423 0.924010655 0.984476227 1.102267731 0.945702891 0.913490741 1.259426514 1 14.48627135 LDEIYVAGLVAHSDLDER ddPTM_HeLa_SAHA_4h_R1 2 LDEIYVAGLVAHSDLDER 18 0 O60506-2;O60506;O60506-4;O60506-3;F6UXX1 O60506-2 SYNCRIP Heterogeneous nuclear ribonucleoprotein Q 0 0 ; ; 131.37 0.00010818 5909800 1644.19 1400.6 1346.02 1767.96 1910.9 2148.1 1971.08 1423.48 2592.6 1799.49 FALSE FALSE TRUE 1817.133448 1445.980359 1529.448596 1802.181422 1764.487255 1965.069795 1749.288891 1387.069443 2574.557886 1877.07482 0.968066605 0.770337092 0.814804279 0.960101005 0.940019671 1.046878778 0.931922836 0.738952666 1.371579789 1 10.87427044 -7.494053735 21.36873263 0.985912091 0.894327818 0.208522323 0.150291787 80.26332656 59503.62434 0.015888523 0.017308576 3.21E-08 7.494053735 -0.091584273 LDFIESDS(ph)PCSSEALSK ddPTM_HeLa_SAHA_4h_R1 3 LDFIESDSPCSSEALSK 17 0 A0A0A0MSA7;A0A0U1RQK7;O43432;O43432-3;O43432-4 A0A0A0MSA7 EIF4G3 Eukaryotic translation initiation factor 4 gamma 3 1 0 LDFIES(0.008)DS(0.989)PCS(0.002)S(0.001)EALSK;LDFIES(0.002)DS(0.798)PCS(0.154)S(0.046)EALSK;LDFIES(0.029)DS(0.917)PCS(0.021)S(0.033)EALSK ;; 182.18 1.74E-27 15660800 2697.86 3419.89 2307.24 2956.57 3099.11 4193.89 2916.92 2814.61 4033.65 2773.65 TRUE FALSE FALSE 2981.633293 3530.69668 2621.658652 3013.798688 2861.656861 3836.546978 2588.700485 2742.616352 4005.579501 2893.235625 1.030553221 1.220328081 0.906133821 1.041670668 0.989085312 1.32604028 0.894742365 0.947940889 1.384463632 1 11.49846811 -8.042690678 2.134042893 1.008967811 1.047475941 0 0.174780307 1.204624582 11.05107902 0.026473356 0.023418547 9.06E-09 8.042690678 0.03850813 LDGLVET(ph)PTGYIESLPR ddPTM_HeLa_SAHA_4h_R1 4 LDGLVETPTGYIESLPR 17 0 P55209;F8W118;P55209-2;F8W0J6;H0YIV4;B7Z9C2;H0YHC3;F8VV59;F5H4R6;F8VY35;F8W020;F8VRJ2;F8VXI6;F8VUX1;P55209-3 P55209 NAP1L1 Nucleosome assembly protein 1-like 1 1 0 LDGLVET(0.965)PT(0.023)GYIES(0.012)LPR;LDGLVET(0.84)PT(0.159)GYIES(0.001)LPR;LDGLVET(0.998)PT(0.002)GYIESLPR;LDGLVET(0.759)PT(0.241)GYIES(0.001)LPR ;;; 209.23 6.99E-16 298027400 8607.05 8532.69 8192.69 9452.63 9625.97 9868.11 9592.93 8356.58 7917.77 8369.85 TRUE FALSE FALSE 9512.37901 8809.154755 9309.147128 9635.599322 8888.430258 9027.291512 8513.508269 8142.830784 7862.669594 8730.715195 1.08953033 1.008984322 1.066252526 1.103643757 1.018064392 1.033969304 0.97512152 0.932664805 0.900575659 1 13.09188412 -4.574181515 1.658657566 1.045834552 0.921760953 0.186718768 0.055655668 0.378345599 1.519485002 0.005726576 0.061722454 2.67E-05 4.574181515 -0.124073599 LDGLVETPT(ph)GYIESLPR ddPTM_HeLa_SAHA_4h_R1 1 LDGLVETPTGYIESLPR 17 0 P55209;F8W118;P55209-2;F8W0J6;H0YIV4;B7Z9C2;H0YHC3;F8VV59;F5H4R6;F8VY35;F8W020;F8VRJ2;F8VXI6;F8VUX1;P55209-3 P55209 NAP1L1 Nucleosome assembly protein 1-like 1 1 0 LDGLVET(0.437)PT(0.554)GYIES(0.01)LPR 107.98 0.0031155 3071400 656.39 726.67 459.74 588.03 578.32 858.78 708.48 856.45 590.38 356.62 TRUE FALSE FALSE 725.4321118 750.2145848 522.390973 599.412171 534.0092465 785.6071126 628.7599658 834.5432491 586.2714975 371.9956335 1.950109213 2.016729545 1.404293293 1.611341954 1.435525577 2.111871866 1.690234802 2.243422164 1.576017149 1 8.539141877 -9.31658155 0.925365212 0.975338818 1.798041514 0.22821353 0.316555038 0.36544728 0.534042738 0.210123411 0.049680143 4.82E-10 9.31658155 0.822702696 LDGLVETPTGYIES(ph)LPR ddPTM_HeLa_SAHA_4h_R1 4 LDGLVETPTGYIESLPR 17 0 P55209;F8W118;P55209-2;F8W0J6;H0YIV4;B7Z9C2;H0YHC3;F8VV59;F5H4R6;F8VY35;F8W020;F8VRJ2;F8VXI6;F8VUX1;P55209-3 P55209 NAP1L1 Nucleosome assembly protein 1-like 1 1 0 LDGLVETPT(0.002)GYIES(0.998)LPR;LDGLVETPTGYIES(1)LPR;LDGLVETPTGYIES(1)LPR;LDGLVETPT(0.001)GYIES(0.998)LPR ;;; 198.51 2.48E-15 46128500 6894.47 7349.48 6348.85 6779.62 7847.81 7895.86 7470.51 7354.43 6135.43 7237.22 TRUE FALSE FALSE 7619.661988 7587.607974 7214.038215 6910.849349 7246.512493 7223.088307 6629.908553 7166.31433 6092.733043 7549.251972 1.009326754 1.005080769 0.955596427 0.915434983 0.959898083 0.956795234 0.878220594 0.949274757 0.80706447 1 12.88211798 -6.641619694 3.398561521 1.004701984 0.931977704 0 0.066338498 0.095046146 2.162676372 0.00345015 0.004973188 2.28E-07 6.641619694 -0.07272428 LDGLVETPTGYIESLPR ddPTM_HeLa_SAHA_4h_R1 1 LDGLVETPTGYIESLPR 17 0 P55209;F8W118;P55209-2;F8W0J6;H0YIV4;B7Z9C2;H0YHC3;F8VV59;F5H4R6;F8VY35;F8W020;F8VRJ2;F8VXI6;F8VUX1;P55209-3 P55209 NAP1L1 Nucleosome assembly protein 1-like 1 0 0 117.92 0.00084665 595460 52.986 0 0 61.696 0 0 0 64.335 0 0 FALSE FALSE TRUE 58.55931059 0 0 62.89021529 0 0 0 62.68940386 0 0 0 LDHK(ac)FDLMYAK ddPTM_HeLa_SAHA_4h_R1 2 LDHKFDLMYAK 11 1 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;Q9NY65;C9J2C0;Q9NY65-2;V9GZ17;A6NHL2-2;A6NHL2;P68363;P68363-2;P68366-2;P68366 Q9BQE3;P68363;P68366-2 TUBA1C;TUBA8;TUBAL3;TUBA1B;TUBA4A Tubulin alpha-1C chain;Tubulin alpha-8 chain;Tubulin alpha chain-like 3;Tubulin alpha-1B chain;Tubulin alpha-4A chain 0 1 ; LDHK(1)FDLMYAK;LDHK(1)FDLMYAK 137.16 0.00038334 3566100 2577.1 7548.8 7256.7 4228.2 8260 632.72 9950 1980.38 1480.13 1655.88 FALSE TRUE FALSE 2848.171202 7793.386073 8245.605285 4310.042925 7627.120584 578.8086964 8830.399813 1929.724747 1469.829655 1727.27309 1.648940876 4.511959409 4.773770477 2.495287485 4.415700462 0.335099701 5.112335659 1.117208829 0.850953832 1 10.75428048 -4.771038312 24.99977474 2.044162812 3.114772787 0 1.814941648 468.3537049 1219808.348 0.265175309 0.810453053 1.69E-05 4.771038312 1.070609974 LDIDPETITWQR ddPTM_HeLa_SAHA_4h_R1 1 LDIDPETITWQR 12 0 V9GZ78;V9GYY3;A0A384N5Y3;F5H2F4;P11586;A0A494C1T2 V9GZ78 MTHFD1 "C-1-tetrahydrofolate synthase, cytoplasmic;Methylenetetrahydrofolate dehydrogenase;Methenyltetrahydrofolate cyclohydrolase;Formyltetrahydrofolate synthetase;C-1-tetrahydrofolate synthase, cytoplasmic, N-terminally processed" 0 0 126.39 0.0073602 3097400 844.48 853.71 719.5 809.1 707.89 1024.8 993.51 864.64 837.22 894.79 FALSE FALSE TRUE 933.306281 881.3707641 817.549713 824.7613005 653.6516211 937.4812746 881.71764 842.5237608 831.3937179 933.3687759 0.999933044 0.94428996 0.875912859 0.883639266 0.700314429 1.004406081 0.944661599 0.902669751 0.890745158 1 9.866303395 -7.010474312 2.734583258 1.000044904 0.884855629 0.123608616 0.080264343 0.229621343 3.460293006 0.01228962 0.015906091 9.76E-08 7.010474312 -0.115189275 LDIDS(ph)PPITAR ddPTM_HeLa_SAHA_4h_R1 6 LDIDSPPITAR 11 0 P14618;B4DNK4;H3BU13;H3BN34;H3BQZ3;P14618-2;H3BTN5;H3BQ34;H3BUW1;H3BTJ2;H3BT25 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 1 0 LDIDS(1)PPITAR;LDIDS(0.955)PPIT(0.045)AR;LDIDS(1)PPITAR;LDIDS(1)PPITAR;LDIDS(0.996)PPIT(0.004)AR;LDIDS(1)PPITAR ;;;;; 213.99 2.38E-15 185278200 18550.75 19107.08 16214.1 19233.5 19378.46 21363.84 21251.22 17987.48 21039.81 18200.26 TRUE FALSE FALSE 20502.003 19726.16193 18423.67311 19605.7922 17893.68658 19543.52064 18859.9768 17527.38631 20893.39225 18984.96228 1.079907492 1.039041408 0.970435065 1.032701141 0.942518943 1.029421094 0.993416606 0.923224711 1.100523243 1 14.21256951 -6.771299396 24.47071291 1.038886484 0.985145931 0.405046193 0.041414848 154.6669299 383853.7605 0.006697003 0.008865498 1.69E-07 6.771299396 -0.053740554 LDIDSPPIT(ph)AR ddPTM_HeLa_SAHA_4h_R1 1 LDIDSPPITAR 11 0 P14618;B4DNK4;H3BU13;H3BN34;H3BQZ3;P14618-2;H3BTN5;H3BQ34;H3BUW1;H3BTJ2;H3BT25 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 1 0 LDIDSPPIT(1)AR 148.13 0.0010415 6708700 2468.1 2329.4 1999.4 2199.8 2555.9 2759.6 2795.2 2652.4 2551.1 2372.4 TRUE FALSE FALSE 2727.706082 2404.874088 2271.86782 2242.38031 2360.067494 2524.466555 2480.676739 2584.555449 2533.346687 2474.685774 1.102243408 0.971789677 0.918042946 0.906127288 0.953683703 1.020116001 1.002420899 1.044397424 1.023704389 1 11.27302963 -7.226126125 21.71489754 1.048281599 0.971158566 0.304270111 0.046841467 119.7992288 73666.80576 0.009521525 0.011660721 5.94E-08 7.226126125 -0.077123032 LDIDSPPITAR ddPTM_HeLa_SAHA_4h_R1 5 LDIDSPPITAR 11 0 P14618;B4DNK4;H3BU13;H3BN34;H3BQZ3;P14618-2;H3BTN5;H3BQ34;H3BUW1;H3BTJ2;H3BT25 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;;;; ;;;; 183.43 2.99E-07 165442000 7126.7 7095.3 6577.45 8128.2 7017.69 8349.6 7894.8 7830.4 7255.9 6558 FALSE FALSE TRUE 7876.319004 7325.192375 7473.790632 8285.533065 6479.996108 7638.167106 7006.456326 7630.109706 7205.405601 6840.747474 1.151382803 1.070817539 1.092540057 1.211202883 0.947264335 1.116569079 1.024223793 1.115391225 1.053306766 1 12.73993826 -3.927744907 13.48833741 1.075656943 1.48989176 0.0285258 0.07172371 3130118.757 15055081.7 0.010575889 35471658.62 0.000118101 3.927744907 0.414234817 LDITPKSAQKLKPVLEK ddPTM_HeLa_SAHA_4h_R1 1 LDITPKSAQKLKPVLEK 17 3 A0A1C7CYV8;A0A1C7CYY7;Q14863 A0A1C7CYV8 POU6F1 "POU domain, class 6, transcription factor 1" 0 0 7.7298 0.022566 5969100 1168.1 1567.1 1367.9 4022.8 1766.9 723.1 1533.3 3202.3 2582.4 1436 FALSE FALSE TRUE 1290.966117 1617.875068 1554.310288 4100.667111 1631.520504 661.487812 1360.769049 3120.389803 2564.428868 1497.912988 0.861843197 1.080086148 1.037650585 2.737586993 1.089195779 0.4416063 0.908443321 2.083158253 1.712001224 1 10.54873811 -6.498151558 24.77496819 0.949313482 1.399722648 0.01470631 0.642008469 1176.984934 1179259.816 0.092490067 0.140847724 3.18E-07 6.498151558 0.450409166 RNETSFLPAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 RNETSFLPAKK 11 2 F8WAJ0;Q9H8H2-3;Q9H8H2-4;Q9H8H2-2;Q9H8H2 F8WAJ0 DDX31 Probable ATP-dependent RNA helicase DDX31 0 1 ; RNETSFLPAK(1)K;RNETSFLPAK(1)K 116.84 0.001904 6442100 3513.9 4408.5 5352.2 9095.2 11360.2 11302.9 14474.3 13736.9 3332.7 3574.8 FALSE TRUE FALSE 3883.508124 4551.338293 6081.569943 9271.250748 10489.78393 10339.82933 12845.61367 13385.52999 3309.507469 3728.927123 1.041454552 1.220549006 1.630916814 2.48630516 2.813083653 2.77286978 3.444855114 3.589646445 0.8875227 1 11.86454489 -6.018449537 0.796643713 0.98416413 3.480784576 0.972415163 0.165512644 0.071307753 0.086489191 0.031807563 0.092358991 9.58E-07 6.018449537 2.496620446 up LDLAGR ddPTM_HeLa_SAHA_4h_R1 3 LDLAGR 6 0 P60709;A0A2R8Y793;P63267-2;Q6S8J3;A5A3E0;Q562R1;P0CG38;A0A2R8YEA7;P0CG39;Q9BYX7;P63267;P68133;P68032;P62736;P63261;I3L3I0;I3L1U9;I3L4N8 P60709;P63267;P63261 ACTB;ACTG2;POTEE;POTEF;ACTBL2;POTEI;POTEJ;POTEKP;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;POTE ankyrin domain family member E;POTE ankyrin domain family member F;Beta-actin-like protein 2;POTE ankyrin domain family member I;POTE ankyrin domain family member J;Putative beta-actin-like protein 3;Putative beta-actin-like protein 3, N-terminally processed;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;; ;; 126.68 0.00057659 444903000 20262.4 19975.5 20899.1 20296 20973.3 18204.4 22972.6 15111 15941 15687.2 FALSE FALSE TRUE 22393.6922 20622.71931 23747.12051 20688.85843 19366.33029 16653.2827 20387.66259 14724.4825 15830.06528 16363.55196 1.368510471 1.260283791 1.451220405 1.264325647 1.183504066 1.017705859 1.24591914 0.899834127 0.967397868 1 13.99819832 -4.256057468 24.0455885 1.201318417 0.899833908 0.254766515 0.151366806 414.4055975 1851399.33 0.023394964 0.266009183 5.55E-05 4.256057468 -0.301484509 LDLTENLTGS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 LDLTENLTGSK 11 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 LDLTENLT(0.103)GS(0.897)K 107.99 0.0017617 0 720.04 1200.7 650.81 884.65 843.39 1283.5 1017.1 952.51 1403.9 1149.4 TRUE FALSE FALSE 795.7771109 1239.603468 739.4989975 901.77368 778.7696404 1174.138579 902.6532311 928.1461734 1394.130146 1198.956259 0.66372489 1.033902162 0.616785635 0.752132259 0.64953966 0.979300596 0.752865857 0.774128469 1.162786495 1 10.22756331 -9.514228419 1.208035088 1.002689928 0.768270882 0.400795854 0.139248151 0.45885854 1.176094972 0.091021063 0.020889638 3.06E-10 9.514228419 -0.234419047 LDNS(ph)PNMNITQPSK ddPTM_HeLa_SAHA_4h_R1 1 LDNSPNMNITQPSK 14 0 Q9Y6Q9-2;Q9Y6Q9-3;Q9Y6Q9-5;Q9Y6Q9;Q9Y6Q9-4 Q9Y6Q9-2 NCOA3 Nuclear receptor coactivator 3 1 0 LDNS(0.994)PNMNIT(0.006)QPSK 141.55 0.00018945 5833000 1208.8 1402.1 1063.5 1357.4 1596.4 1485 1284.3 1217.8 1281.1 1414.2 TRUE FALSE FALSE 1335.94713 1447.52896 1208.428242 1383.67444 1474.084177 1358.469646 1139.787184 1186.650439 1272.184721 1475.173083 0.905620598 0.981260421 0.819177258 0.9379743 0.999261845 0.920888309 0.772646408 0.804414379 0.862396918 1 10.52666852 -2.286587388 0.382764695 0.95876933 5.34E-50 0.29155931 0.066096272 16.022139 0.489864886 0.016671261 9.806263967 0.005169072 2.286587388 -0.95876933 LDNVPHT(ph)PSSYIETLPK ddPTM_HeLa_SAHA_4h_R1 1 LDNVPHTPSSYIETLPK 17 0 E9PNJ7;C9J6D1;Q99733;Q99733-2;E9PS34;A8MXH2;E9PNW0;E9PJJ2;E9PKI2;E9PP22 E9PNJ7 NAP1L4 Nucleosome assembly protein 1-like 4 1 0 LDNVPHT(0.96)PS(0.035)S(0.005)YIETLPK 97.776 0.0038014 59296000 2465.2 3072.5 2469 3160.5 3666.3 2910.8 3281.7 3350.5 3068 2935 TRUE FALSE FALSE 2724.501047 3172.051016 2805.462462 3221.676048 3385.388886 2662.783464 2912.434479 3264.799061 3046.649538 3061.542214 0.889911312 1.036095796 0.916355963 1.052304957 1.105778934 0.869752327 0.951296528 1.066390346 0.995135564 1 11.58004286 -7.247815229 24.90066502 0.948013673 0.99574666 0.041704447 0.073740581 1577.546888 2883263.304 0.012864288 0.015710829 5.65E-08 7.247815229 0.047732988 LDPFADGGK(ac)TPDPK ddPTM_HeLa_SAHA_4h_R1 1 LDPFADGGKTPDPK 14 1 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 0 1 LDPFADGGK(1)TPDPK 126.1 0.00086367 699660 193.77 308.84 204.28 308.11 269.01 205.08 250.49 276.88 189.19 171 FALSE TRUE FALSE 214.1516176 318.8466186 232.1182146 314.0739146 248.3985119 187.6060303 222.3042059 269.7978105 187.8734114 178.3726469 1.200585524 1.787530904 1.301310591 1.760773976 1.392581858 1.05176457 1.246290896 1.512551477 1.053263573 1 7.478750587 -7.55357215 3.92440785 1.081394091 1.423941409 0.368539754 0.21316843 0.176460659 5.918459603 0.039916928 0.042826596 2.80E-08 7.55357215 0.342547318 LDPITGR ddPTM_HeLa_SAHA_4h_R1 1 LDPITGR 7 0 Q14103-3;Q14103;H0YA96;D6RAF8;H0Y8G5;Q14103-4;Q14103-2;D6RD83;D6RF44;D6RBQ9 Q14103-3 HNRNPD Heterogeneous nuclear ribonucleoprotein D0 0 0 124.34 0.016593 9208200 573.4 527.61 476.52 605.92 715.59 635.49 615.9 760.76 762.98 617.71 FALSE FALSE TRUE 633.7128429 544.7049102 541.457664 617.6484578 660.7616488 581.3426768 546.597311 741.3008608 757.6703601 644.3425011 0.983503093 0.845365484 0.840325856 0.958571655 1.025482019 0.902226185 0.848302432 1.150476431 1.175881397 1 9.331683948 -7.491783204 23.83023007 0.992722019 0.932715244 0.125249292 0.107011857 412.3714799 316027.4868 0.015014073 0.016430359 3.22E-08 7.491783204 -0.060006775 LDPPPS(ph)PHSNR ddPTM_HeLa_SAHA_4h_R1 2 LDPPPSPHSNR 11 0 H0Y873;Q96P47;Q96P47-2;Q96P47-4 H0Y873 AGAP3 "Arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3" 1 0 LDPPPS(0.997)PHS(0.003)NR;LDPPPS(1)PHSNR ; 133.88 0.0011662 16416600 4043.6 4450.7 3613.3 4212 4474.5 4329.6 4790.7 4479.6 4583.8 4099.9 TRUE FALSE FALSE 4468.924401 4594.9056 4105.701707 4293.529351 4131.664777 3960.693722 4251.637828 4365.018318 4551.900963 4276.666753 1.044955022 1.074412823 0.960023762 1.00394293 0.966094628 0.926116986 0.994147562 1.020658978 1.064357179 1 12.06227108 -6.734810968 24.99988853 1.025810739 0.977420752 0.462426827 0.032857978 197.7724545 185676.8176 0.00530504 0.007501152 1.84E-07 6.734810968 -0.048389987 LDPVYREEEESLKDWYFK ddPTM_HeLa_SAHA_4h_R1 1 LDPVYREEEESLKDWYFK 18 2 A6NCM1 A6NCM1 IQCA1L IQ and AAA domain-containing protein 1-like 0 0 32.329 0.023113 8586500 4580.2 4219.5 4960.4 4703.4 4787.9 5536.7 5239.7 5528.4 4510.3 5022.4 FALSE FALSE TRUE 5061.966451 4356.214569 5636.377479 4794.441108 4421.052136 5064.942011 4650.115166 5386.991533 4478.912455 5238.940243 0.966219544 0.831506825 1.075862143 0.915154761 0.84388291 0.966787514 0.887606071 1.028259778 0.854927189 1 12.35505929 -7.588726869 4.366520047 0.986272014 0.933869884 0 0.083006275 0.324840238 13.0250319 0.012175994 0.012917774 2.58E-08 7.588726869 -0.05240213 LDQPMTEIVSR ddPTM_HeLa_SAHA_4h_R1 2 LDQPMTEIVSR 11 0 P22314-2;P22314;Q5JRR6 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 ; ; 206.73 6.97E-10 15421700 1273.48 1194.19 1333.99 1299.1 1277.62 1674.34 1436.99 1413.72 1400.02 1447.31 FALSE FALSE TRUE 1407.430469 1232.88254 1515.77921 1324.245959 1179.729032 1531.676812 1275.296103 1377.559089 1390.277147 1509.710617 0.932251819 0.816635006 1.004019706 0.87715218 0.78142726 1.014549938 0.844728843 0.912465657 0.920889826 1 10.56005632 -8.300271301 0.659230851 0.997000611 0.892452786 0.071310639 0.074069596 0.673403609 0.633975845 0.031961297 0.01685275 5.01E-09 8.300271301 -0.104547825 LDQPVSAPPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 LDQPVSAPPSPR 12 0 Q16204 Q16204 CCDC6 Coiled-coil domain-containing protein 6 1 0 LDQPVSAPPS(1)PR;LDQPVSAPPS(1)PR;LDQPVSAPPS(1)PR;LDQPVSAPPS(1)PR ;;; 178.68 2.98E-05 170715000 5400.05 6056.04 4952.95 6008.05 6135.57 7451.1 6373.21 6291.71 6804.52 5665.42 TRUE FALSE FALSE 5968.052035 6252.25967 5627.912232 6124.344496 5665.463952 6816.224361 5656.079637 6130.777168 6757.166791 5909.683982 1.009876679 1.057968529 0.952320335 1.036323518 0.958674604 1.15339913 0.957086649 1.037412015 1.143405775 1 12.52886527 LDRETEELHHDR ddPTM_HeLa_SAHA_4h_R1 4 LDRETEELHHDR 12 1 O60869-2;O60869-3;O60869 O60869-2 EDF1 Endothelial differentiation-related factor 1 0 0 ;;; ;;; 92.19 0.0068243 41719000 11328.1 9749 10964.9 13479.5 12554.2 7884 13713.1 9528.9 13817.1 13188 FALSE FALSE TRUE 12519.64153 10064.874 12459.13947 13740.41521 11592.29991 7212.238846 12170.0659 9285.164536 13720.94568 13756.59922 0.910082596 0.731639691 0.905684557 0.998823546 0.842671922 0.524274839 0.88467111 0.674960751 0.997408259 1 13.74783624 -1.677079829 0.119413528 1.082487222 3.28E-09 0.389733888 0.117179348 59.99194093 0.578678662 0.560297657 10.63848614 0.021033918 1.677079829 -1.082487219 LDRPAGGPS(ph)AESPRPSSAYNGDLNGLLVPDPLCSGDSTSANK ddPTM_HeLa_SAHA_4h_R1 1 LDRPAGGPSAESPRPSSAYNGDLNGLLVPDPLCSGDSTSANK 42 2 Q6P2E9 Q6P2E9 EDC4 Enhancer of mRNA-decapping protein 4 1 0 LDRPAGGPS(0.208)AES(0.182)PRPS(0.208)S(0.208)AY(0.195)NGDLNGLLVPDPLCSGDSTSANK 52.057 0.00072943 8530700 293.43 325.21 364.91 286.99 371.54 367.93 420.16 218.99 490.1 501 TRUE FALSE FALSE 324.2943137 335.7470174 414.6380344 292.5451064 343.0726855 336.5802941 372.882491 213.3885529 486.6893542 522.6005618 0.620539543 0.642454375 0.793412914 0.559787202 0.656472095 0.644048856 0.713513376 0.408320558 0.931283641 1 9.029564865 -9.922831713 0.40063888 1.2288825 0.61413345 0.664857197 0.095423928 1.543792082 0.221116844 0.429500022 0.02829 1.19E-10 9.922831713 -0.61474905 LDS(ph)LPEHEDSEK ddPTM_HeLa_SAHA_4h_R1 2 LDSLPEHEDSEK 12 0 Q8TDY2-2;Q8TDY2 Q8TDY2-2 RB1CC1 RB1-inducible coiled-coil protein 1 1 0 LDS(1)LPEHEDSEK;LDS(1)LPEHEDSEK ; 103.14 0.0036775 7032200 4684.6 8114.7 4533.3 5358 7449.4 9544.5 7707.5 6136.2 8614.1 5779 TRUE FALSE FALSE 5177.347722 8377.621604 5151.074516 5461.711838 6878.628581 8731.254904 6840.231815 5979.244889 8554.153777 6028.160972 0.858860231 1.389747494 0.854501819 0.906032845 1.141082432 1.44841104 1.134712866 0.991885405 1.419032076 1 12.55750223 -5.644433713 5.424267115 0.961918547 1.202242409 0 0.2299597 0.211180171 9.229845881 0.026139999 0.052884762 2.27E-06 5.644433713 0.240323861 LDS(ph)PPPS(ph)PITEASEAAEAAEAGNLAVSSR ddPTM_HeLa_SAHA_4h_R1 2 LDSPPPSPITEASEAAEAAEAGNLAVSSR 29 0 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 2 0 LDS(1)PPPS(0.999)PIT(0.001)EASEAAEAAEAGNLAVSSR;LDS(0.999)PPPS(0.998)PIT(0.004)EASEAAEAAEAGNLAVSSR ; 116.51 5.12E-10 13833600 1028.35 1418.96 899.48 1290.75 1535.87 1598.23 1491.36 1469.73 1283.96 1121.13 TRUE FALSE FALSE 1136.516571 1464.935235 1022.05645 1315.734333 1418.191972 1462.051813 1323.548248 1432.136435 1275.024818 1169.467401 0.971824072 1.252651621 0.873950355 1.125071406 1.212681919 1.250186035 1.131753007 1.224605691 1.090261102 1 10.19163593 -6.028748149 6.445958757 1.002488255 1.199335603 0.368144822 0.097863211 0.1119159 16.18180328 0.013401918 0.022886271 9.36E-07 6.028748149 0.196847348 LDS(ph)PPPSPITEASEAAEAAEAGNLAVSSR ddPTM_HeLa_SAHA_4h_R1 4 LDSPPPSPITEASEAAEAAEAGNLAVSSR 29 0 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 LDS(0.994)PPPS(0.006)PITEASEAAEAAEAGNLAVSSR;LDS(0.992)PPPS(0.008)PITEASEAAEAAEAGNLAVSSR;LDS(0.98)PPPS(0.019)PIT(0.001)EASEAAEAAEAGNLAVSSR;LDS(0.906)PPPS(0.093)PIT(0.001)EASEAAEAAEAGNLAVSSR ;;; 197.4 5.48E-24 46127500 2789.76 2978.9 2685.7 2518.85 2986.55 3213.42 3407.14 3096.9 3249.17 2972.94 TRUE FALSE FALSE 3083.199757 3075.418315 3051.693209 2567.605984 2757.721184 2939.618538 3023.75964 3017.685782 3226.558761 3101.117993 0.994222008 0.99171277 0.984062269 0.827961397 0.889266771 0.947922183 0.975054689 0.973096086 1.040450176 1 11.5985727 -6.49503019 24.94311874 0.996354995 0.923208529 0.466851957 0.042420971 525.9986127 471121.5245 0.006489039 0.009897461 3.20E-07 6.49503019 -0.073146466 LDS(ph)SPSVSSTLAAK ddPTM_HeLa_SAHA_4h_R1 2 LDSSPSVSSTLAAK 14 0 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 LDS(0.75)S(0.235)PS(0.013)VS(0.001)STLAAK;LDS(0.75)S(0.239)PS(0.011)VSSTLAAK ; 198.48 6.61E-12 184782000 3631.2 4689.1 3228.8 3853.2 4132.7 4629.7 3810.1 3520.7 5803.9 3575.5 TRUE FALSE FALSE 4013.146277 4841.029917 3668.804049 3927.784258 3816.053419 4235.223514 3381.37752 3430.645592 5763.510187 3729.657303 1.076009389 1.297982502 0.983683956 1.053122027 1.023164626 1.135552993 0.906618825 0.919828637 1.545318971 1 11.86482736 -4.74232452 24.82128325 1.057261435 0.913223574 0.081947104 0.176801401 212.5729389 276028.1308 0.012153666 0.045318788 1.81E-05 4.74232452 -0.144037861 LDS(ph)SPVSSPR ddPTM_HeLa_SAHA_4h_R1 2 LDSSPVSSPR 10 0 O60293-2;O60293 O60293-2 ZFC3H1 Zinc finger C3H1 domain-containing protein 1 0 LDS(0.971)S(0.029)PVSSPR;LDS(0.795)S(0.205)PVSSPR ; 182.92 1.05E-05 43294000 8075.4 6504.3 4892.5 6567.2 7745.9 8505.1 8208.5 8650 7445.8 6957.7 TRUE FALSE FALSE 8924.807623 6715.043588 5559.224421 6694.317652 7152.410815 7780.417632 7284.857976 8428.745525 7393.984072 7257.680497 1.229705224 0.925232737 0.765978114 0.922377012 0.98549541 1.072025372 1.003744651 1.161355274 1.018780597 1 12.82529283 -7.239758371 24.62461285 1.10847192 0.971471007 0.14338058 0.113441279 826.4051117 938606.0779 0.021968016 0.026891193 5.76E-08 7.239758371 -0.137000912 LDSDAGFHS(ph)LPR ddPTM_HeLa_SAHA_4h_R1 1 LDSDAGFHSLPR 12 0 Q5SYE7-2;Q5SYE7 Q5SYE7-2 NHSL1 NHS-like protein 1 1 0 LDS(0.002)DAGFHS(0.998)LPR 111.34 0.0022267 7486900 3247.9 5186.7 3313.3 4822.1 4657.6 4875.9 4975.5 4818.6 5469.4 5068.8 TRUE FALSE FALSE 3589.529024 5354.752483 3764.819269 4915.438718 4300.735694 4460.445889 4415.643645 4695.347189 5431.338 5287.340774 0.678891181 1.012749643 0.712043999 0.929661796 0.813402404 0.843608551 0.835135058 0.888035667 1.027234338 1 12.3683266 -9.676357407 1.544756297 0.999786422 0.816658689 0.329482726 0.094188104 0.370722592 1.596051555 0.068560954 0.015378055 2.11E-10 9.676357407 -0.183127733 LDSQEPGRQT(ph)PDR ddPTM_HeLa_SAHA_4h_R1 2 LDSQEPGRQTPDR 13 1 Q8TB03-2;Q8TB03 Q8TB03-2 CXorf38 Uncharacterized protein CXorf38 1 0 LDSQEPGRQT(1)PDR;LDSQEPGRQT(1)PDR ; 77.726 0.023202 36607000 4791.1 4636.4 4848.1 4755.4 5517 6212.5 5379.1 5454.1 5052.1 4736.4 TRUE FALSE FALSE 5295.04988 4786.622402 5508.77382 4847.447643 5094.288652 5683.160049 4773.829511 5314.592019 5016.942025 4940.609383 1.071740239 0.968832391 1.114998858 0.981143674 1.031105327 1.15029536 0.966243056 1.075695649 1.015450046 1 12.27047328 -9.564335756 1.301690893 0.999673039 1.046774352 0.058885483 0.05841831 0.92391431 2.773897966 0.038830543 0.008863471 2.73E-10 9.564335756 0.047101313 LDSQPQET(ph)SPELPR ddPTM_HeLa_SAHA_4h_R1 1 LDSQPQETSPELPR 14 0 O14545 O14545 TRAFD1 TRAF-type zinc finger domain-containing protein 1 1 0 LDSQPQET(0.907)S(0.093)PELPR 196.97 2.92E-09 12729000 1145.3 1454.1 1194.9 1368.1 1647.1 1684.9 1390.3 1473.1 935.02 1133.5 TRUE FALSE FALSE 1265.767909 1501.213794 1357.734749 1394.581554 1520.899554 1541.337041 1233.859785 1435.420235 928.5131197 1182.370732 1.070533864 1.269664204 1.148315594 1.179479089 1.286313601 1.303598777 1.0435473 1.214018747 0.785297787 1 10.20746675 -7.436787833 3.921023188 1.029475313 1.203490216 0.515724321 0.10568718 0.131135765 3.576769166 0.013039977 0.014624098 3.66E-08 7.436787833 0.174014903 LDSQPQETS(ph)PELPR ddPTM_HeLa_SAHA_4h_R1 6 LDSQPQETSPELPR 14 0 O14545 O14545 TRAFD1 TRAF-type zinc finger domain-containing protein 1 1 0 LDSQPQET(0.169)S(0.831)PELPR;LDSQPQET(0.211)S(0.789)PELPR;LDSQPQET(0.37)S(0.63)PELPR;LDSQPQET(0.064)S(0.936)PELPR;LDSQPQET(0.229)S(0.771)PELPR;LDSQPQET(0.205)S(0.795)PELPR ;;;;; 211.13 8.08E-14 923287800 10902.67 11143.27 12444.98 13187.44 14608.15 14953.92 16287.2 15672.06 12819.53 10377.52 TRUE FALSE FALSE 12049.46285 11504.31926 14140.91706 13442.70197 13488.8767 13679.76189 14454.52139 15271.1914 12730.31785 10824.94567 1.113119938 1.06276 1.306326839 1.241826276 1.246091861 1.263725685 1.335297361 1.410740696 1.176016789 1 13.40207216 -3.484377728 0.14805101 0.916716641 1.948074482 0.619567837 0.074650869 8.082977047 0.1578984 0.148633859 1.643408578 0.00032781 3.484377728 1.03135784 LDSS(ph)PSVSSTLAAK ddPTM_HeLa_SAHA_4h_R1 2 LDSSPSVSSTLAAK 14 0 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 LDS(0.007)S(0.98)PS(0.013)VSSTLAAK;LDS(0.044)S(0.901)PS(0.05)VS(0.004)S(0.001)TLAAK ; 136.83 0.00030943 201043000 7618.6 9613.9 6260.6 7783.9 8219.4 10326.3 9223.6 7837.9 12975.8 8034.7 TRUE FALSE FALSE 8419.959303 9925.396668 7113.761964 7934.56864 7589.631348 9446.441146 8185.736253 7637.417867 12885.50035 8381.115238 1.004634713 1.184257272 0.84878465 0.946719907 0.905563416 1.12711028 0.976688188 0.911265106 1.537444598 1 13.03292651 LDSS(ph)PSVSSTLAAKDDPDGK ddPTM_HeLa_SAHA_4h_R1 1 LDSSPSVSSTLAAKDDPDGK 20 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 LDS(0.393)S(0.459)PS(0.037)VS(0.078)S(0.016)T(0.016)LAAKDDPDGK 77.1 0.0021466 31963000 1723.3 2331.8 1575.6 2393.8 2186.5 2757.7 2351.5 2361.3 2967.9 2252.8 TRUE FALSE FALSE 1904.564601 2407.35185 1790.314563 2440.13546 2018.970842 2522.728446 2086.903031 2300.901365 2947.246142 2349.929233 0.810477428 1.024435892 0.761858926 1.038386785 0.859162401 1.073533794 0.888070586 0.979136449 1.254185063 1 11.1984016 LDSSEMDHS(ph)ENEDYTMSSPLPGK ddPTM_HeLa_SAHA_4h_R1 2 LDSSEMDHSENEDYTMSSPLPGK 23 0 Q9NTI5-2;Q9NTI5;A9IYQ1 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 1 0 LDS(0.003)S(0.003)EMDHS(0.992)ENEDY(0.001)T(0.001)MSSPLPGK;LDS(0.003)S(0.002)EMDHS(0.525)ENEDY(0.363)T(0.077)MS(0.024)S(0.006)PLPGK ; 74.703 0.0010412 13550700 4473.6 4222.1 2636.69 3806.6 5086.8 4154.8 4373.1 4950.7 4872.1 4948.9 TRUE FALSE FALSE 4944.153774 4358.89881 2996.004382 3880.282247 4697.050483 3800.787666 3881.027279 4824.068263 4838.194659 5162.271298 0.95774776 0.844376159 0.580365542 0.751661822 0.909880595 0.736262673 0.751806144 0.934485614 0.937222083 1 12.33379025 -7.193714846 3.566235194 0.981014238 0.77545796 0.437970508 0.093785264 0.144140366 3.608166194 0.015662438 0.019087168 6.40E-08 7.193714846 -0.205556278 LDSSPS(ph)VSSTLAAKDDPDGK ddPTM_HeLa_SAHA_4h_R1 1 LDSSPSVSSTLAAKDDPDGK 20 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 LDS(0.014)S(0.4)PS(0.551)VS(0.026)S(0.008)T(0.001)LAAKDDPDGK 123.58 8.45E-05 36012000 2768.3 3336.5 2226.1 2922.2 3197.2 3892.1 3037 2707.7 4167.2 3266.8 TRUE FALSE FALSE 3059.482495 3444.604789 2529.461315 2978.763407 2952.231227 3560.471184 2695.268767 2638.440955 4138.200116 3407.647735 0.897828277 1.010845327 0.742289553 0.87414065 0.866354581 1.044847197 0.790947004 0.774270453 1.214386121 1 11.73456049 -13.52287874 0.085258995 1.435312737 0.751365523 0.349299892 0.111722491 166.4494569 1.081817596 13.44185216 1.298751018 3.00E-14 13.52287874 -0.683947213 LDTDDLDEIEK ddPTM_HeLa_SAHA_4h_R1 2 LDTDDLDEIEK 11 0 F6QDS0;H3BQK0;Q9NUU7;Q9UMR2;I3L352;I3L0H8;Q9UMR2-3;Q9NUU7-2;Q9UMR2-2;Q9UMR2-4 F6QDS0 DDX19A;DDX19B ATP-dependent RNA helicase DDX19A;ATP-dependent RNA helicase DDX19B 0 0 ; ; 133.89 0.0069943 13032900 3615 3717.4 3687 3951.8 3862.7 5283.1 4052.8 4768.4 4340.2 3935.2 FALSE FALSE TRUE 3995.242286 3837.846199 4189.445159 4028.292803 3566.74076 4832.950158 3596.768278 4646.431233 4309.996195 4104.86573 0.973294268 0.934950483 1.020604676 0.981345814 0.868905585 1.17737107 0.876220689 1.131932574 1.049972515 1 12.00311932 -4.226417872 23.38298041 0.984677827 1.13193332 0.210654013 0.084082848 7849.151273 5240461.335 0.00964616 2.360405111 5.94E-05 4.226417872 0.147255493 LDTGPQSLS(ph)GK ddPTM_HeLa_SAHA_4h_R1 1 LDTGPQSLSGK 11 0 P35269;M0QXD6 P35269 GTF2F1 General transcription factor IIF subunit 1 1 0 LDT(0.004)GPQS(0.06)LS(0.936)GK 90.861 0.014513 9937900 1431.5 1492.4 1418.5 1501.3 1602.7 1856 1683 1652.8 1620.7 1846.9 TRUE FALSE FALSE 1582.071738 1540.754739 1611.805793 1530.359832 1479.901472 1697.858358 1493.624411 1610.523769 1609.421417 1926.528898 0.821203222 0.799756879 0.836637226 0.794361213 0.76816988 0.881304381 0.775293022 0.835971768 0.835399572 1 10.91178811 -9.085384101 0.62055326 1.017937526 0.809644308 0.128198143 0.059411451 0.272281112 0.169280631 0.030872778 0.006860064 8.22E-10 9.085384101 -0.208293218 LDTGS(ph)PEPETR ddPTM_HeLa_SAHA_4h_R1 1 LDTGSPEPETR 11 0 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 LDT(0.078)GS(0.92)PEPET(0.002)R 142.76 0.00080174 54069000 2633.4 2353.3 1933 1981.3 2409.6 2725.6 2599.7 2619.7 1907 2661.7 TRUE FALSE FALSE 2910.393094 2429.548464 2196.419173 2019.650927 2224.976969 2493.363546 2307.174914 2552.691867 1893.729032 2776.458913 1.048239209 0.875052915 0.791086503 0.727419706 0.801372193 0.898037257 0.83097751 0.919405598 0.682066291 1 11.43903033 -7.143640181 4.071538154 1.02267908 0.826098415 0 0.119618445 0.088710287 2.534698533 0.009404192 0.01160162 7.18E-08 7.143640181 -0.196580666 LDVGNFSWGSECCTR ddPTM_HeLa_SAHA_4h_R1 1 LDVGNFSWGSECCTR 15 0 P62241 P62241 RPS8 40S ribosomal protein S8 0 0 190.57 3.15E-08 28543000 705.91 555.01 388.21 672.47 421.62 663.53 588.75 554.42 603.67 592.6 FALSE FALSE TRUE 780.1608526 572.9926882 441.1132371 685.4866293 389.3155667 606.9935111 522.5023005 540.2387392 599.4690113 618.1498861 1.262090102 0.926947818 0.713602392 1.108932711 0.629807714 0.98195199 0.845267972 0.873960752 0.969779377 1 9.271812888 -7.079404139 6.582262246 1.123139534 0.861265265 0.297648328 0.144851711 0.175984797 12.19440137 0.023952039 0.029466541 8.33E-08 7.079404139 -0.26187427 LDVQFSGLTK ddPTM_HeLa_SAHA_4h_R1 1 LDVQFSGLTK 10 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 146.71 6.58E-05 687580 339.72 606.48 537.07 606.15 496.06 363.79 793.37 360.36 265.69 381.62 FALSE FALSE TRUE 375.4533083 626.1303499 610.2591027 617.8829098 458.05199 332.7930454 704.0979196 351.142513 263.8410417 398.0735058 0.943175828 1.572901338 1.533031196 1.552182953 1.150671882 0.83600903 1.768763581 0.882104706 0.66279478 1 8.636891044 -7.284807615 24.15923206 0.973166334 1.335678955 0.308816201 0.302859031 493.1817777 509874.0769 0.046597989 0.053306911 5.19E-08 7.284807615 0.362512621 LDVTILS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 LDVTILSPSR 10 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 1 0 LDVTILS(0.645)PS(0.355)R 158.06 0.00024734 20686000 1392.5 1817.1 1610.4 1801.3 2041.5 2503.9 1836.6 1736.4 2352.2 1508.1 TRUE FALSE FALSE 1538.969539 1875.975232 1829.856925 1836.166766 1885.080711 2290.553633 1629.940934 1691.985402 2335.830849 1573.121571 0.978290278 1.192517645 1.163201216 1.167212248 1.198305805 1.456056337 1.036118863 1.075559215 1.484838102 1 10.61941445 -7.260207778 24.66649488 0.989748184 1.187992639 0 0.188172462 62.9780783 1261322.442 0.017497245 0.020805486 5.49E-08 7.260207778 0.198244455 LDVTILS(ph)PSRK ddPTM_HeLa_SAHA_4h_R1 1 LDVTILSPSRK 11 1 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 1 0 LDVTILS(0.629)PS(0.371)RK 110.98 0.010156 64385000 728.67 645.51 662.35 747.06 842.85 1025.6 789.6 554.98 873.29 917.8 TRUE FALSE FALSE 805.3148539 666.4249475 752.6116086 761.5204266 778.2710151 938.2131101 700.7521299 540.7844152 867.2127038 957.3708496 0.84117336 0.696099059 0.78612338 0.795428884 0.812925331 0.979989218 0.731954739 0.564864092 0.905827354 1 9.902934069 -13.52287874 0.130376292 1.795039968 0.683304737 0.313377704 0.103188943 58.34678088 0.53911895 11.88992014 0.375801638 3.00E-14 13.52287874 -1.11173523 LDVTILSPS(ph)R ddPTM_HeLa_SAHA_4h_R1 3 LDVTILSPSR 10 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 1 0 LDVTILS(0.145)PS(0.855)R;LDVTILS(0.164)PS(0.836)R;LDVTILS(0.321)PS(0.679)R ;; 121.21 0.0028958 130065000 3326.45 3997.1 3039.67 3239.2 4286.5 4589.4 3982.5 3609.9 4778.9 3750.6 TRUE FALSE FALSE 3676.341273 4126.608663 3453.900398 3301.8994 3958.069296 4198.357301 3534.378619 3517.563985 4745.643246 3912.306721 0.939686363 1.054776365 0.882829656 0.843977642 1.011697083 1.073115581 0.903400186 0.899102304 1.213003883 1 11.93380377 -9.739666795 0.588631507 1.017147764 0.95057532 0.143645023 0.097887423 4.834965453 1.769683442 0.191651005 0.016212319 1.82E-10 9.739666795 -0.066572444 LDVTILSPSR ddPTM_HeLa_SAHA_4h_R1 1 LDVTILSPSR 10 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 143.37 9.74E-05 2486100 807.91 1238.1 1180.2 1321.2 1238.8 977.86 1301.2 654.12 651.78 891.97 FALSE FALSE TRUE 892.8896806 1278.215252 1341.03151 1346.773736 1143.883412 894.5408267 1154.785551 637.3885576 647.2442099 930.4271919 0.959655617 1.373793956 1.441307306 1.447478909 1.229417435 0.961430227 1.241134784 0.685049366 0.695641976 1 9.86174945 -7.287373625 24.4040138 0.980948468 1.209984799 0.239566834 0.236145653 687.03831 646498.0789 0.037648366 0.043061058 5.16E-08 7.287373625 0.229036332 LDVTILSPSRK ddPTM_HeLa_SAHA_4h_R1 1 LDVTILSPSRK 11 1 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 87.568 0.01093 4109300 1552.1 1974.3 1698.6 1681.5 1732.1 1854.6 2113.8 1757.3 1814.5 1536.4 FALSE FALSE TRUE 1715.356999 2038.268615 1930.076362 1714.047864 1599.386872 1696.577646 1875.949661 1712.350811 1801.872747 1602.641723 1.070330926 1.271818015 1.204309319 1.069514065 0.997969071 1.058613177 1.170535893 1.068455155 1.124314138 1 10.64623623 -7.953046692 1.830374203 1.020612187 1.116883326 0.018046089 0.083361013 0.358000504 2.455226684 0.018025522 0.016286491 1.11E-08 7.953046692 0.096271139 LDYDEDASAMLK ddPTM_HeLa_SAHA_4h_R1 2 LDYDEDASAMLK 12 0 Q8NFI4;P50502;H7C3I1 Q8NFI4 ST13P5;ST13 Putative protein FAM10A5;Hsc70-interacting protein 0 0 ; ; 199.08 1.74E-09 14500400 3032.9 3027.3 2722.1 4504.6 3439.1 3228.5 3153.5 4196.8 3839.3 3348.1 FALSE FALSE TRUE 3351.914337 3125.386506 3093.053612 4591.793047 3175.596901 2953.413637 2798.65988 4089.451933 3812.581999 3492.452976 0.959759333 0.894897233 0.885639301 1.314775912 0.909274061 0.845655949 0.801345043 1.170939727 1.091663087 1 11.77002498 -5.372296469 0.00411996 1.929524182 4.08E-05 0.000936533 0.15236838 184467.2432 183.0092704 42046.24893 43669.2575 4.24E-06 5.372296469 -1.929483376 LDYWEDDLR ddPTM_HeLa_SAHA_4h_R1 1 LDYWEDDLR 9 0 E9PEM5;A0A494C1L5;P50851-2;P50851;H0YAC6;A0A494BZW2;Q5T321;A0A0D9SF28;F5GXV7;Q8NFP9 E9PEM5 LRBA;NBEA Lipopolysaccharide-responsive and beige-like anchor protein;Neurobeachin 0 0 166.52 0.00030873 2823600 1170.5 1017.3 913.67 953.78 1138 1335.4 1321.4 781.79 1308.7 931.39 FALSE FALSE TRUE 1293.61856 1050.261187 1038.180189 972.2417911 1050.806686 1221.616407 1172.712594 761.7929438 1299.59265 971.546781 1.331504139 1.081019677 1.068584869 1.000715364 1.081581151 1.257393294 1.207057259 0.784103204 1.337653189 1 9.924139655 -7.06284355 24.99813034 1.159160363 1.078942412 0.139739303 0.15110132 579.2565356 230417.3448 0.027706903 0.033933911 8.65E-08 7.06284355 -0.080217951 LEAALGEAK ddPTM_HeLa_SAHA_4h_R1 2 LEAALGEAK 9 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 111.46 0.0078232 3305600 3125.6 3159.1 3815 4024.7 3715.2 3070.8 3778.3 2873.7 2156.4 2578.1 FALSE FALSE TRUE 3454.364949 3261.456913 4334.888332 4102.603888 3430.542179 2809.150564 3353.15574 2800.194915 2141.393437 2689.254508 1.28450652 1.212773616 1.611929373 1.525554341 1.275648016 1.04458338 1.246871849 1.04125322 0.796277716 1 11.39299058 -9.003212545 0.844185874 1.003285465 1.287264537 0.375359255 0.184183113 0.66472732 0.877416696 0.113552962 0.036564438 9.93E-10 9.003212545 0.283979072 LEAALGEAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 LEAALGEAKK 10 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 1 ; LEAALGEAK(1)K;LEAALGEAK(1)K 134.68 0.00026328 3569200 2462.3 4430.2 3290.8 3455.4 4510.2 4789.3 5240.7 4888.2 3349.1 1743.63 FALSE TRUE FALSE 2721.296011 4573.741387 3739.253086 3522.284264 4164.62945 4381.224696 4651.002643 4763.166922 3325.79334 1818.806422 1.496198814 2.514693884 2.055882935 1.936591063 2.289759591 2.408846066 2.557172982 2.61884215 1.828558168 1 10.82877629 -7.361566358 0.398028574 0.928267464 2.606744763 0.518814314 0.343342301 0.27406434 0.119417232 0.147424129 0.1563589 4.35E-08 7.361566358 1.678477299 LEAEIATYR ddPTM_HeLa_SAHA_4h_R1 4 LEAEIATYR 9 0 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 ;;; ;;; 153.08 0.0017769 59039700 6199.9 6166.9 5546.9 6464.7 7101.9 7897.4 7897 6421.9 7123.5 6594.8 FALSE FALSE TRUE 6852.033928 6366.711606 6302.802645 6589.833617 6557.753956 7224.49709 7008.408776 6257.637097 7073.926984 6879.134102 0.996060525 0.925510611 0.916220349 0.957945218 0.95328189 1.050204427 1.018792289 0.909654762 1.028316483 1 12.74801126 -7.476320652 24.76319089 0.99826202 0.964744418 0.186486329 0.042705085 604.5441693 321545.4944 0.007457218 0.008496113 3.34E-08 7.476320652 -0.033517602 LEAEIATYRR ddPTM_HeLa_SAHA_4h_R1 2 LEAEIATYRR 10 1 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 ; ; 184.71 2.96E-06 8311500 3662.6 4287.8 6013.1 4725.1 5035.1 3369 4449 3592.7 2250 3570.4 FALSE FALSE TRUE 4047.849073 4426.727533 6832.533953 4816.561143 4649.311726 3081.942247 3948.386811 3500.803936 2234.342067 3724.337417 1.086864218 1.188594651 1.834563625 1.293266588 1.248359427 0.82751424 1.060158189 0.939980336 0.599930086 1 11.86276807 -5.265969741 24.26814048 1.14566026 0.954311653 0.112728301 0.293043984 484.8276841 2597127.955 0.038994788 0.090066947 5.42E-06 5.265969741 -0.191348608 LEALS(ph)VKEETKEDAEEKQ ddPTM_HeLa_SAHA_4h_R1 1 LEALSVKEETKEDAEEKQ 18 3 P43487-2;P43487;F6WQW2 P43487-2 RANBP1 Ran-specific GTPase-activating protein 1 0 LEALS(0.982)VKEET(0.018)KEDAEEKQ 45.618 0.022986 6399100 1438.7 1486 1354.7 1533.9 1693.4 1971.4 1384.6 1766.7 2131.9 1748.5 TRUE FALSE FALSE 1590.029067 1534.147375 1539.311461 1563.590853 1563.652058 1803.425629 1228.801164 1721.510372 2117.063934 1823.886392 0.871780761 0.84114196 0.843973324 0.857285223 0.857318781 0.988781778 0.673726812 0.9438693 1.160743314 1 10.83280015 -8.95078642 0.606151404 1.010710186 0.853521828 0.420063388 0.093234492 0.797526143 0.502294354 0.065749182 0.016860326 1.12E-09 8.95078642 -0.157188358 LEAPLEELR ddPTM_HeLa_SAHA_4h_R1 2 LEAPLEELR 9 0 F2Z3J2;Q16401-2;Q16401 F2Z3J2 PSMD5 26S proteasome non-ATPase regulatory subunit 5 0 0 ; ; 127.46 0.014732 4956700 2633.1 2174.4 1748.1 2321.2 2207.22 2490.1 2447.87 2436.2 2224.94 2188.2 FALSE FALSE TRUE 2910.061539 2244.851987 1986.321964 2366.130183 2038.10328 2277.929471 2172.429225 2373.885532 2209.456461 2282.544011 1.274920232 0.983486836 0.870222854 1.036619742 0.892908645 0.997978335 0.95175787 1.040017419 0.967979785 1 11.15642696 -7.038150385 22.13318887 1.129790915 0.962562056 0.182130888 0.095038984 118.8700787 68962.97067 0.018226121 0.02232789 9.16E-08 7.038150385 -0.16722886 LEAS(ph)YSDSPPGEEDLLVHVAEGSK ddPTM_HeLa_SAHA_4h_R1 4 LEASYSDSPPGEEDLLVHVAEGSK 24 0 Q7Z3C6;C9JS65;C9JFV2;F2Z3I6;C9JX27;C9IYZ9;C9JKV7;C9JDK4;C9JXG2;Q7Z3C6-3 Q7Z3C6 ATG9A Autophagy-related protein 9A 1 0 LEAS(0.951)YS(0.049)DSPPGEEDLLVHVAEGSK;LEAS(0.988)YS(0.012)DSPPGEEDLLVHVAEGSK;LEAS(0.96)YS(0.032)DS(0.008)PPGEEDLLVHVAEGSK;LEAS(0.993)YS(0.007)DSPPGEEDLLVHVAEGSK ;;; 220.98 6.84E-31 58890300 9156.2 12317.9 10149.3 10406.6 12226 13458.9 11966.8 10606 8514.8 11881.7 TRUE FALSE FALSE 10119.29113 12717.00804 11532.39375 10608.03479 11289.24652 12312.126 10620.26417 10334.71388 8455.544814 12393.97823 0.816468363 1.026063448 0.930483621 0.855902325 0.910865447 0.993395806 0.856889045 0.833849607 0.682230084 1 13.59735172 -9.665340851 1.518722303 0.999941497 0.893776175 0 0.117992255 0.463229672 1.924547968 0.049047909 0.011026086 2.16E-10 9.665340851 -0.106165323 LEASYSDS(ph)PPGEEDLLVHVAEGSK ddPTM_HeLa_SAHA_4h_R1 2 LEASYSDSPPGEEDLLVHVAEGSK 24 0 Q7Z3C6;C9JS65;C9JFV2;F2Z3I6;C9JX27;C9IYZ9;C9JKV7;C9JDK4;C9JXG2;Q7Z3C6-3 Q7Z3C6 ATG9A Autophagy-related protein 9A 1 0 LEAS(0.013)YS(0.059)DS(0.928)PPGEEDLLVHVAEGSK;LEAS(0.009)YS(0.035)DS(0.957)PPGEEDLLVHVAEGSK ; 144.23 5.12E-07 26658000 3479.5 5033.9 4317.8 4651.9 5956.9 5647.1 5454.6 5788.2 4544.9 5481.5 TRUE FALSE FALSE 3845.489775 5197.001663 4906.207298 4741.944251 5500.483609 5165.93531 4840.834052 5640.146225 4513.271671 5717.834291 0.672543061 0.908910857 0.858053425 0.829325232 0.961987237 0.903477619 0.846620207 0.986413026 0.789332366 1 12.48125309 -5.77530132 24.95492847 0.847116828 0.917542298 0.176028022 0.08566753 514.8614213 926878.1748 0.018427895 0.033527555 1.68E-06 5.77530132 0.070425469 LEATINELV ddPTM_HeLa_SAHA_4h_R1 1 LEATINELV 9 0 P10599;P10599-2 P10599 TXN Thioredoxin 0 0 119.21 0.022642 5510600 7967.7 5786.6 5698.8 7534.9 6981.1 7603.7 7383.1 7789.6 7821.5 6538.5 FALSE FALSE TRUE 8805.779243 5974.089637 6475.402786 7680.748885 6446.209626 6955.821983 6552.334157 7590.353311 7767.069545 6820.406734 1.291092978 0.875913984 0.949415928 1.126142353 0.945135661 1.019854424 0.960695515 1.11288866 1.138798586 1 12.73564206 -7.253612641 24.95820238 1.137460574 0.998899369 0.318131126 0.096978181 684.1281519 2181574.409 0.020916039 0.025372736 5.58E-08 7.253612641 -0.138561205 LEDLDTCMMT(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 LEDLDTCMMTPK 12 0 Q5VZK9;Q5VZK9-2 Q5VZK9 LRRC16A Leucine-rich repeat-containing protein 16A 1 0 LEDLDT(0.101)CMMT(0.899)PK;LEDLDTCMMT(1)PK;LEDLDT(0.001)CMMT(0.999)PK;LEDLDTCMMT(1)PK ;;; 169.17 0.00014754 40762400 6787.3 8581.2 7444.1 6586.53 8368.9 9088.2 7364 6065.49 8887 8632.27 TRUE FALSE FALSE 7501.219355 8859.23651 8458.543181 6714.021812 7727.67669 8313.834231 6535.383339 5910.343549 8825.154643 9004.449405 0.833056972 0.983873207 0.939373725 0.745633798 0.858206465 0.923302898 0.725794887 0.656380339 0.980088204 1 13.13642235 -1.710002475 0.201392738 0.96703235 6.68E-37 0.582429749 0.07445157 26.93795155 0.398763938 0.081800995 7.820113038 0.019498335 1.710002475 -0.96703235 LEDLVCDVVDR ddPTM_HeLa_SAHA_4h_R1 2 LEDLVCDVVDR 11 0 O43776 O43776 NARS "Asparagine--tRNA ligase, cytoplasmic" 0 0 ; ; 175.73 6.16E-16 1044200 713.07 629.44 462.06 630.11 655.03 720.58 655.86 518.47 746.33 628.92 FALSE FALSE TRUE 788.0739743 649.834269 525.0271305 642.3066902 604.8417429 659.1825301 582.0609067 505.2082881 741.1362288 656.0358191 1.201266686 0.990546934 0.800302537 0.979072593 0.921964511 1.004796554 0.887239522 0.770092537 1.129719151 1 9.357630777 -7.003188806 24.30383024 1.095088092 0.903096958 0.583118417 0.081544078 61.48436951 468616.0302 0.015859226 0.020608605 9.93E-08 7.003188806 -0.191991134 LEDNDSAAS(ph)DPDAETTAR ddPTM_HeLa_SAHA_4h_R1 2 LEDNDSAASDPDAETTAR 18 0 F8WF85;C9J6R3;C9J9X8;C9JCX6;C9JXA0;Q9BYV8-5;Q9BYV8-2;Q9BYV8 F8WF85 CEP41 Centrosomal protein of 41 kDa 1 0 LEDNDS(0.005)AAS(0.512)DPDAET(0.476)T(0.007)AR;LEDNDS(0.044)AAS(0.956)DPDAETTAR ; 184.2 7.19E-28 5164300 1362.81 1415.19 1411.89 1386.89 1702.49 1772.89 1843.47 1686.18 1692.56 1569.69 TRUE FALSE FALSE 1506.156609 1461.043085 1604.295016 1413.735261 1572.045584 1621.829798 1636.037904 1643.049957 1680.781337 1637.367018 0.919864998 0.892312517 0.979801718 0.863419897 0.960105808 0.990510851 0.999188261 1.003470779 1.026514715 1 10.67716202 -5.260850771 4.090677075 0.94945148 0.99896705 0.195542557 0.045882262 0.283706892 11.46475806 0.006634202 0.016755257 5.48E-06 5.260850771 0.04951557 LEDNPSSGS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 3 LEDNPSSGSPPR 12 0 Q05D32;H0YMH7;Q05D32-2 Q05D32 CTDSPL2 CTD small phosphatase-like protein 2 1 0 LEDNPS(0.024)S(0.234)GS(0.742)PPR;LEDNPS(0.001)S(0.011)GS(0.989)PPR;LEDNPSS(0.008)GS(0.991)PPR ;; 184.96 1.04E-06 15948500 3134.3 3522.59 2794.5 3212.08 3907 4239.9 3617.56 2891.8 5106.1 3658.61 TRUE FALSE FALSE 3463.980055 3636.724227 3175.319907 3274.254453 3607.646504 3878.636667 3210.502628 2817.831943 5070.566234 3816.350582 0.907668198 0.952932428 0.832030454 0.857954316 0.94531318 1.01632085 0.841249398 0.738357728 1.328642672 1 11.89797799 -11.12061305 0.018649438 2.005829289 2.67E-06 0.302234308 0.126811693 1716.14414 4.22159074 266.1160144 192.9553489 7.58E-12 11.12061305 -2.005826616 LEDTENWLYEDGEDQPK ddPTM_HeLa_SAHA_4h_R1 2 LEDTENWLYEDGEDQPK 17 0 A0A087WYC1;P34932 A0A087WYC1 HSPA4 Heat shock 70 kDa protein 4 0 0 ; ; 206.18 3.34E-47 5477400 1430.08 1777.27 1530.82 1657.25 1775.98 1851.27 1554.16 1408.9 1924.78 1645.17 FALSE FALSE TRUE 1580.502376 1834.854714 1739.432177 1689.32847 1639.904796 1693.531381 1379.281826 1372.862378 1911.385299 1716.10133 0.920984296 1.069199518 1.013595262 0.984399022 0.955599047 0.986848126 0.803729828 0.799989111 1.113795127 1 10.74491903 -4.758791081 24.96392101 0.975525596 0.801859389 0.638323574 0.057902781 26.13559035 246349.0874 0.006292911 0.021573625 1.74E-05 4.758791081 -0.173666206 LEEALR ddPTM_HeLa_SAHA_4h_R1 2 LEEALR 6 0 A0A1B0GUG6;A0A1B0GTG4;Q86WH2;Q8WWW0-2;Q8WWW0;Q155Q3-2;Q155Q3 A0A1B0GUG6 RASSF3;RASSF5;DIXDC1 Ras association domain-containing protein 3;Ras association domain-containing protein 5;Dixin 0 0 ; ; 132.8 0.002414 40039000 10202.2 9906.4 7667.7 8112.3 9553.9 11109.4 10180.9 8216.4 9993.8 8705.1 FALSE FALSE TRUE 11275.31421 10227.37386 8712.614224 8269.325297 8821.882246 10162.81662 9035.318337 8006.236385 9924.252332 9080.419463 1.241717329 1.126310728 0.959494686 0.910676575 0.971528054 1.119201229 0.995033145 0.881703364 1.092928842 1 13.14854323 -6.763952101 24.97796379 1.118246111 0.977697727 0.429464202 0.080207992 64.39121598 640089.5559 0.017275855 0.023301326 1.72E-07 6.763952101 -0.140548384 LEEEDEDEEDGESGCTFLVGLIQK ddPTM_HeLa_SAHA_4h_R1 1 LEEEDEDEEDGESGCTFLVGLIQK 24 0 P17655;P17655-2 P17655 CAPN2 Calpain-2 catalytic subunit 0 0 199.99 4.02E-22 5333100 2195.1 2376.9 2013.3 2712.1 2643.8 2734.5 2730.2 2838.8 2683.9 2396 FALSE FALSE TRUE 2425.990689 2453.91312 2287.662039 2764.596617 2441.232615 2501.505216 2422.990711 2766.187607 2665.222521 2499.303286 0.970666787 0.981838872 0.915319902 1.106146914 0.976765257 1.000881018 0.969466461 1.106783487 1.066386195 1 11.28731027 -6.276055187 24.99863455 0.980575398 1.023735682 0.126626206 0.056090216 1090.331145 1864881.007 0.007140439 0.010938086 5.30E-07 6.276055187 0.043160284 LEEEPSASS(ph)PQYACDFNLFLEDSADNR ddPTM_HeLa_SAHA_4h_R1 1 LEEEPSASSPQYACDFNLFLEDSADNR 27 0 Q2NKX8;B5MDQ0 Q2NKX8 ERCC6L DNA excision repair protein ERCC-6-like 1 0 LEEEPS(0.003)AS(0.15)S(0.532)PQY(0.316)ACDFNLFLEDSADNR 80.171 4.38E-05 1862700 0 245.49 248.08 151.03 235.41 205.2 261.75 257.33 408.75 228.62 TRUE FALSE FALSE 0 253.4440371 281.8870505 153.953404 217.3729367 187.7158056 232.2972011 250.7478712 405.9054755 238.476927 0 1.06276125 1.182030706 0.645569389 0.911505106 0.787144517 0.974086693 1.051455478 1.702074412 1 7.89770588 LEEEQIILEDQNCK ddPTM_HeLa_SAHA_4h_R1 2 LEEEQIILEDQNCK 14 0 P35579 P35579 MYH9 Myosin-9 0 0 ; ; 253.88 1.19E-42 10909400 4391.5 4285 3457.5 4751.9 4086.9 4045 4060.3 3992.4 4856.3 3383.09 FALSE FALSE TRUE 4853.418119 4423.836811 3928.670094 4843.879896 3773.762605 3700.343243 3603.424358 3890.280189 4822.504613 3528.951566 1.37531446 1.253583884 1.113268352 1.372611611 1.069372173 1.048567308 1.021103376 1.102389794 1.366554491 1 11.78502391 -5.560246578 24.93755609 1.19565779 1.054601662 0.319252059 0.120275739 221.7307886 147972.1622 0.022037736 0.04407556 2.75E-06 5.560246578 -0.141056127 LEEFS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 LEEFSPR 7 0 Q9UGU0-2;Q9UGU0;I3L1M7 Q9UGU0-2 TCF20 Transcription factor 20 1 0 LEEFS(1)PR 90.601 0.019628 4582800 2129.4 1817 1929.5 2038.6 2085.1 2479.4 2164.8 2129.2 2279.8 2097.4 TRUE FALSE FALSE 2353.380062 1875.871992 2192.442212 2078.060051 1925.340088 2268.141171 1921.211007 2074.738147 2263.934686 2187.829178 1.075669017 0.857412457 1.002108498 0.949827377 0.880023042 1.03670853 0.878135745 0.948309021 1.034785855 1 11.09528438 -7.277247073 24.9422155 1.035732592 0.938629889 0.411335238 0.055164516 565.0373283 891544.1104 0.009326297 0.010683219 5.28E-08 7.277247073 -0.097102702 LEEKALAYDKLEKTK ddPTM_HeLa_SAHA_4h_R1 1 LEEKALAYDKLEKTK 15 3 P35580;P35580-5;P35580-2;P35580-3;P35580-4 P35580 MYH10 Myosin-10 0 0 3.6201 0.022132 134590 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 LEELLK ddPTM_HeLa_SAHA_4h_R1 1 LEELLK 6 0 F2Z3J2 F2Z3J2 PSMD5 0 0 119.7 0.0017635 0 2697.8 2578.2 3108.7 3035.1 2790.4 2320.6 3150.5 2079.7 2221.6 2691.9 FALSE FALSE TRUE 2981.566982 2661.735372 3532.337447 3093.848749 2576.600155 2122.871825 2795.997448 2026.504285 2206.139705 2807.960983 1.061826357 0.947924629 1.257972411 1.101813297 0.917605398 0.756018989 0.995739423 0.721699588 0.785673205 1 11.45530717 -5.576752535 5.058835199 1.046256053 0.840388141 0.313320064 0.131698308 0.128847515 7.001906829 0.014512445 0.029854786 2.65E-06 5.576752535 -0.205867913 LEEPPELNRQS(ph)PNPR ddPTM_HeLa_SAHA_4h_R1 5 LEEPPELNRQSPNPR 15 1 Q7Z5L9;Q7Z5L9-2 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 1 0 LEEPPELNRQS(1)PNPR;LEEPPELNRQS(1)PNPR;LEEPPELNRQS(1)PNPR;LEEPPELNRQS(1)PNPR;LEEPPELNRQS(1)PNPR ;;;; 138.81 9.94E-05 1025269600 9050.2 9404.9 8763.3 8123.3 8924.8 10066.5 9136.8 8577.4 10300.5 10100.3 TRUE FALSE FALSE 10002.14156 9709.624931 9957.516887 8280.538218 8240.983752 9208.777567 8108.703217 8358.002528 10228.81798 10535.77336 0.949350486 0.921586351 0.945114947 0.785944983 0.782190682 0.874048563 0.769635312 0.793297487 0.970865415 1 13.3630086 -6.342719962 3.698029635 0.970067364 0.801873942 0.846902433 0.033102846 0.071005916 1.857966408 0.005790376 0.009130665 4.54E-07 6.342719962 -0.168193421 LEEPTPAPSTS(ph)YSPQADSLR ddPTM_HeLa_SAHA_4h_R1 1 LEEPTPAPSTSYSPQADSLR 20 0 G3V1L9;Q07157 G3V1L9 TJP1 Tight junction protein ZO-1 1 0 LEEPTPAPSTS(0.971)YS(0.028)PQADSLR 319.09 1.71E-124 15484000 832.36 971.3 891.9 882.69 1113.3 1277.7 1181.2 915.35 970.59 838.04 TRUE FALSE FALSE 919.9114438 1002.770757 1013.443487 899.7757413 1027.999195 1168.832772 1048.288267 891.9366724 963.8355852 874.1720057 1.052323156 1.147109208 1.159318167 1.029289128 1.175969017 1.337074128 1.199178492 1.020321706 1.102569722 1 9.771773368 -7.210435571 0.608908201 1.006564524 1.180125388 0.169748273 0.089369376 0.539856947 0.439248655 0.026394833 0.032614799 6.16E-08 7.210435571 0.173560864 LEEPTPAPSTSYS(ph)PQADSLR ddPTM_HeLa_SAHA_4h_R1 1 LEEPTPAPSTSYSPQADSLR 20 0 G3V1L9;Q07157 G3V1L9 TJP1 Tight junction protein ZO-1 1 0 LEEPTPAPST(0.001)S(0.011)YS(0.988)PQADSLR 227.36 1.07E-32 13772000 1922.2 2423.3 2332.8 2138.9 2689.1 2875.2 2331.3 2461.8 2476.4 2217.7 TRUE FALSE FALSE 2124.385815 2501.81651 2650.701835 2180.301502 2483.061739 2630.216785 2068.975988 2398.830721 2459.166531 2313.3159 0.918329319 1.081485028 1.145845163 0.942500547 1.073377717 1.136989887 0.894376764 1.036966339 1.063048298 1 11.17574657 -7.259319109 24.9911713 0.96143329 1.043373631 0.032171153 0.082282804 232.2381649 2737344.326 0.012982413 0.015487746 5.50E-08 7.259319109 0.081940342 LEESVALR ddPTM_HeLa_SAHA_4h_R1 2 LEESVALR 8 0 Q08209-3;Q08209;Q08209-2;E9PK68;Q08209-4;E9PPC8 Q08209-3 PPP3CA Serine/threonine-protein phosphatase 2B catalytic subunit alpha isoform;Serine/threonine-protein phosphatase 0 0 ; ; 128.57 0.013221 38392000 5479 5188.2 4935.8 4808 5977.2 6313 5972.1 5476.6 5019.4 4928.9 FALSE FALSE TRUE 6055.306359 5356.301084 5608.425119 4901.065792 5519.228227 5775.096884 5300.10359 5336.516502 4984.469587 5141.409 1.177752316 1.041796341 1.090834267 0.953253435 1.073485542 1.123251794 1.030865973 1.037948255 0.969475408 1 12.32794807 -6.717776445 2.772268404 1.083817378 1.04862383 0 0.068769098 0.787270619 12.40592366 0.012675129 0.018057301 1.92E-07 6.717776445 -0.035193549 LEEVLTNK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 LEEVLTNKK 9 1 Q5TA02;P78417-3;P78417 Q5TA02 GSTO1 Glutathione S-transferase omega-1 0 1 ; LEEVLTNK(1)K;LEEVLTNK(1)K 185.6 3.46E-17 3879000 1669.06 3195.9 1918.55 2216.7 3160.9 3144.8 2969.7 2342.3 2965.7 1884.72 FALSE TRUE FALSE 1844.619389 3299.449257 2180.000003 2259.607434 2918.712525 2876.845348 2635.54154 2282.387358 2945.061452 1965.979503 0.938269899 1.67827246 1.10886202 1.149354523 1.484609845 1.463314009 1.340574272 1.160941584 1.498012288 1 10.94103256 -7.305625818 24.99887063 0.970849614 1.334788604 0 0.235041057 252.7849567 143014.755 0.027371565 0.031300641 4.95E-08 7.305625818 0.36393899 LEFQQQLGEAPSDAS(ph)P ddPTM_HeLa_SAHA_4h_R1 2 LEFQQQLGEAPSDASP 16 0 Q9BUW7 Q9BUW7 C9orf16 UPF0184 protein C9orf16 1 0 LEFQQQLGEAPSDAS(1)P;LEFQQQLGEAPSDAS(1)P ; 179.56 2.64E-09 16837100 3286.1 3674.1 3445.5 3834.4 4199.7 4447.4 4221.3 3931.2 3123.9 3108 TRUE FALSE FALSE 3631.747075 3793.143251 3915.034797 3908.620357 3877.919893 4068.4565 3746.308214 3830.645596 3102.160526 3242.00109 1.120217722 1.170000609 1.207598236 1.205619692 1.196150089 1.254921385 1.155554273 1.181568263 0.956865972 1 11.66266886 -8.078859308 0.567381947 1.004553984 1.206279567 0.875857499 0.031788547 0.171581373 0.126758159 0.014451667 0.008599057 8.34E-09 8.078859308 0.201725583 LEGDS(ph)DVDSELEDRVDGVK ddPTM_HeLa_SAHA_4h_R1 1 LEGDSDVDSELEDRVDGVK 19 1 Q92614;Q92614-2 Q92614 MYO18A Unconventional myosin-XVIIIa 1 0 LEGDS(0.983)DVDS(0.017)ELEDRVDGVK 54.047 0.019904 3260000 680.11 979.1 631.11 802.4 1048.5 1201.6 1016.6 994.4 1223.4 958.15 TRUE FALSE FALSE 751.6470903 1010.823482 717.1143841 817.9316123 968.1641565 1099.21692 902.2094925 968.9646879 1214.88626 999.4605356 0.752052796 1.01136908 0.717501451 0.818373095 0.968686729 1.099810228 0.902696465 0.969487692 1.215542001 1 9.965005792 -5.636789097 6.685716366 0.873238446 0.990119573 0 0.14643694 0.292238203 16.07096763 0.017163582 0.034499366 2.31E-06 5.636789097 0.116881127 LEGDSDDLLEDS(ph)DSEEHSR ddPTM_HeLa_SAHA_4h_R1 1 LEGDSDDLLEDSDSEEHSR 19 0 A0A3B3IUB9;Q9NR09 A0A3B3IUB9 BIRC6 Baculoviral IAP repeat-containing protein 6 1 0 LEGDSDDLLEDS(0.971)DS(0.029)EEHSR 117.43 0.00034499 10952000 1357.3 2151.4 1302.5 1515.2 2137.1 2349.4 1879 1652.4 2403.7 1850.5 TRUE FALSE FALSE 1500.067042 2221.106772 1479.997917 1544.528887 1973.35586 2149.217903 1667.569975 1610.134001 2386.972456 1930.284111 0.777122411 1.150663138 0.766725431 0.800156245 1.022313683 1.113420501 0.863898721 0.834143529 1.236591257 1 10.91459749 -5.739034008 24.99558316 0.897046354 0.96276057 0 0.16838221 677.4440743 755756.9043 0.020418064 0.04081136 1.82E-06 5.739034008 0.065714217 LEGGRQDS(ph)EDEEER ddPTM_HeLa_SAHA_4h_R1 1 LEGGRQDSEDEEER 14 1 A0A3B3ISZ4;Q9BYE7-3;Q9BYE7 A0A3B3ISZ4 PCGF6 Polycomb group RING finger protein 6 1 0 LEGGRQDS(1)EDEEER 74.726 0.01355 11025000 940.33 1131.2 840.3 1227.8 998.01 1172.2 1137.8 1301.9 1592.1 1064.2 TRUE FALSE FALSE 1039.238224 1167.851622 954.8117079 1251.565844 921.5426894 1072.321965 1009.771749 1268.599283 1581.020446 1110.08287 0.936180759 1.052040036 0.860126513 1.127452624 0.830156662 0.965983707 0.909636367 1.142796918 1.424236414 1 10.11645167 LEGGSGGDSEVQR ddPTM_HeLa_SAHA_4h_R1 1 LEGGSGGDSEVQR 13 0 P62195-2;P62195;J3QQM1 P62195-2 PSMC5 26S protease regulatory subunit 8 0 0 111.5 0.013918 4224300 1404.1 1472.5 1514.8 1636.6 1428.3 1553.2 1679.8 1573 1477.4 1363.4 FALSE FALSE TRUE 1551.78968 1520.209966 1721.229055 1668.27876 1318.863963 1420.858622 1490.784483 1532.764938 1467.118653 1422.182846 1.091132328 1.068927227 1.210272687 1.17304098 0.927351899 0.999068879 1.048236861 1.077755186 1.031596364 1 10.47389125 -4.248251995 20.10587608 1.054995657 1.07775536 0 0.079110092 1010.477484 1540132.182 0.01171129 0.224236557 5.65E-05 4.248251995 0.022759704 LEGIFFS(ph)CSTEFNT(ph)GK ddPTM_HeLa_SAHA_4h_R1 1 LEGIFFSCSTEFNTGK 16 0 Q96FC7-2;Q96FC7 Q96FC7-2 PHYHIPL Phytanoyl-CoA hydroxylase-interacting protein-like 2 0 LEGIFFS(0.983)CS(0.01)T(0.011)EFNT(0.996)GK 51.348 0.022577 3184200 824.51 737.95 504.56 734.88 808.83 763.53 821.51 818.97 1102.8 896.09 TRUE FALSE FALSE 911.2357448 761.8600642 573.3188092 749.1046651 746.8576201 698.4729485 729.0715327 798.0219333 1095.125525 934.7248253 0.974870593 0.815063475 0.61335571 0.801417321 0.799013357 0.74724981 0.779985203 0.853750657 1.171602054 1 9.868397901 -7.217193262 3.869451485 0.989044029 0.765345999 0.689562339 0.082426837 0.07854268 2.491440722 0.009818822 0.011878616 6.06E-08 7.217193262 -0.22369803 LEGPVS(ph)PDVEPGKEETEESK ddPTM_HeLa_SAHA_4h_R1 3 LEGPVSPDVEPGKEETEESK 20 1 O14686;O14686-3;A0A3B3ISC8 O14686 KMT2D Histone-lysine N-methyltransferase 2D 1 0 LEGPVS(1)PDVEPGKEETEESK;LEGPVS(1)PDVEPGKEETEESK;LEGPVS(1)PDVEPGKEETEESK ;; 129.43 3.06E-05 67241900 3863.22 5103.88 3654.25 4229.4 4440.65 5757.7 4805.02 4595.17 5816.74 5125.5 TRUE FALSE FALSE 4269.571205 5269.249061 4152.232159 4311.266153 4100.408356 5267.111568 4264.346503 4477.632205 5776.260833 5346.485389 0.798575306 0.985553813 0.776628356 0.806373877 0.766935296 0.985154019 0.797598084 0.837490778 1.080384666 1 12.38437511 -9.430878807 0.917231416 1.010081587 0.84154871 0.473621012 0.079724638 0.550532767 0.744195222 0.067429177 0.013324731 3.71E-10 9.430878807 -0.168532876 LEGQGDVPT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 LEGQGDVPTPK 11 0 Q9Y2Z0-2;Q9Y2Z0 Q9Y2Z0-2 SUGT1 Suppressor of G2 allele of SKP1 homolog 1 0 LEGQGDVPT(1)PK 95.428 0.019895 8972600 1197 1801.3 1049.3 1014.1 1873.2 2404.6 1488.3 1350.5 2115.9 1460.9 TRUE FALSE FALSE 1322.905952 1859.663302 1192.293139 1033.729372 1729.675821 2199.714552 1320.832567 1315.956166 2101.17528 1523.886548 0.86811315 1.220342357 0.782402824 0.678350611 1.135042384 1.44348971 0.86675256 0.863552583 1.378826581 1 10.57353978 LEGVDGGQS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 LEGVDGGQSPR 11 0 O00418;H3BRH4 O00418 EEF2K Eukaryotic elongation factor 2 kinase 1 0 LEGVDGGQS(1)PR;LEGVDGGQS(1)PR ; 154.23 0.00036437 83573500 4203.6 4636.2 3721.3 4274 4629.6 5722.6 4211.3 4501.7 6074.5 4522.8 TRUE FALSE FALSE 4645.753935 4786.415922 4228.419384 4356.72945 4274.881048 5235.002286 3737.43344 4386.553032 6032.22706 4717.800042 0.984728876 1.014544042 0.896269309 0.923466321 0.906117472 1.109627843 0.792198357 0.929787823 1.278610159 1 12.20389856 -6.767136932 24.99622545 0.994218799 0.927445971 0.165132933 0.115907468 181.8435004 797780.737 0.011059288 0.014758494 1.71E-07 6.767136932 -0.066772829 LEITGGGIES(ph)SVEVK ddPTM_HeLa_SAHA_4h_R1 1 LEITGGGIESSVEVK 15 0 Q9BY14;Q9BY14-2 Q9BY14 TEX101 Testis-expressed sequence 101 protein 1 0 LEITGGGIES(0.967)S(0.032)VEVK 56.817 0.02228 9009100 5429.2 4491.4 5147.9 6006 6097.6 5167.3 7081.1 4248.1 5392.8 5259.3 TRUE FALSE FALSE 6000.268166 4636.924307 5849.429003 6122.254815 5630.403205 4727.01697 6284.315992 4139.439753 5355.271066 5486.054161 1.093731121 0.845220293 1.066236102 1.115966893 1.026311998 0.861642417 1.145507464 0.754538623 0.976160809 1 12.42155315 -4.245244634 24.0501494 1.029753221 0.754538265 0.388847191 0.096093139 1317.185036 1956043.935 0.012505467 0.415663336 5.69E-05 4.245244634 -0.275214956 LEKEQAAALGPAS(ph)ATPALSSSPPPPSTLYR ddPTM_HeLa_SAHA_4h_R1 1 LEKEQAAALGPASATPALSSSPPPPSTLYR 30 1 Q9P242 Q9P242 NYAP2 Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter 2 1 0 LEKEQAAALGPAS(0.765)AT(0.155)PALS(0.01)S(0.034)S(0.034)PPPPS(0.001)T(0.001)LY(0.001)R 64.289 0.0030076 0 392.65 373.49 293.18 364.71 446.8 293.89 337.02 213.57 155.8 391.88 TRUE FALSE FALSE 433.9507285 385.5913211 333.1330436 371.7694894 412.5662805 268.8489186 299.0976226 208.1071886 154.7157751 408.7758646 1.061585984 0.943282993 0.81495282 0.909470254 1.009272602 0.65769274 0.731691004 0.509098522 0.378485592 1 8.675166207 -3.891447353 0.425690812 1.028168513 1.96E-19 0 0.220683834 2.154458685 0.210485656 0.02053699 1.196884901 0.000128396 3.891447353 -1.028168513 LEKEQAAALGPASATPALSSS(ph)PPPPSTLYR ddPTM_HeLa_SAHA_4h_R1 1 LEKEQAAALGPASATPALSSSPPPPSTLYR 30 1 Q9P242 Q9P242 NYAP2 Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter 2 1 0 LEKEQAAALGPASAT(0.001)PALS(0.229)S(0.229)S(0.524)PPPPS(0.012)T(0.005)LY(0.001)R 75.083 3.96E-05 3922300 892.33 547.42 808.99 664.45 846.65 470.74 584.35 537.03 300.42 508.81 TRUE FALSE FALSE 986.1893636 565.1567672 919.2349442 677.3113906 781.7798599 430.6303037 518.5974001 523.2935502 298.3293528 530.7472892 1.858114744 1.064832131 1.731963522 1.276146679 1.472979469 0.811365998 0.977107958 0.985956143 0.562093032 1 9.051881287 -5.265318889 24.77284578 1.406861027 0.930039818 0.103272991 0.366927465 277.7974318 1773899.216 0.047996291 0.111237897 5.43E-06 5.265318889 -0.476821209 LEKPAK(ac)YDDIK ddPTM_HeLa_SAHA_4h_R1 2 LEKPAKYDDIK 11 2 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 1 ; LEKPAK(1)YDDIK;LEKPAK(1)YDDIK 152.4 3.56E-06 18700700 6044.7 14806.6 6596.7 8035.6 12608.5 12827.3 13439.3 10709.2 9587.1 4108.2 FALSE TRUE FALSE 6680.50928 15286.34355 7495.663922 8191.140658 11642.43945 11734.34188 11927.07459 10435.27417 9520.382591 4285.324607 1.558927244 3.567137838 1.74914729 1.911439951 2.716816232 2.738262081 2.783237138 2.43511872 2.221624606 1 12.06518878 -7.464609901 7.327530457 1.243789024 2.528367397 0.340932274 0.569025056 0.133088747 14.39146033 0.084689607 0.095721918 3.43E-08 7.464609901 1.284578373 LEKPETQSS(ph)PITVQSSK ddPTM_HeLa_SAHA_4h_R1 1 LEKPETQSSPITVQSSK 17 1 Q96CB8;A0A087WXN4;E9PGI3 Q96CB8 INTS12 Integrator complex subunit 12 1 0 LEKPET(0.002)QS(0.159)S(0.748)PIT(0.091)VQSSK 72.771 0.0093463 8070300 2218.9 2035 1770.6 1999.8 2581.5 2300.4 2400.8 2541.6 2286.7 2347.7 TRUE FALSE FALSE 2452.294083 2100.935335 2011.888147 2038.509021 2383.706028 2104.392978 2130.655665 2476.589552 2270.786669 2448.920836 1.001377442 0.857902511 0.821540704 0.832411155 0.973369981 0.859314416 0.870038604 1.01129833 0.927260136 1 11.25793042 -7.270229219 23.97963154 1.000650464 0.885934691 0.271050151 0.06124259 227.4625134 620540.9452 0.009405207 0.01084701 5.37E-08 7.270229219 -0.114715774 LEKPETQSSPIT(ph)VQSSK ddPTM_HeLa_SAHA_4h_R1 1 LEKPETQSSPITVQSSK 17 1 Q96CB8;A0A087WXN4;E9PGI3 Q96CB8 INTS12 Integrator complex subunit 12 1 0 LEKPETQS(0.05)S(0.105)PIT(0.843)VQS(0.001)SK 93.215 0.004588 10471000 1843.1 1394.6 1178.3 1539 1781.5 1704.2 1509.2 1553.3 1556.8 1621.8 TRUE FALSE FALSE 2036.965714 1439.785955 1338.872588 1568.78957 1645.001855 1558.992572 1339.380844 1513.568835 1545.966102 1691.723735 1.204077044 0.851076287 0.791425077 0.927332009 0.972382086 0.921540876 0.791725514 0.894690311 0.913840759 1 10.72427827 -7.24797828 24.83417276 1.096369716 0.879035455 0.347810526 0.091314337 398.5314634 735244.9811 0.015484524 0.018907207 5.65E-08 7.24797828 -0.217334261 LEKVPDS(ph)PENELK ddPTM_HeLa_SAHA_4h_R1 2 LEKVPDSPENELK 13 1 A0A2R8Y549;Q8NI35-4;Q8NI35-3;Q8NI35-2;Q8NI35;A0A0U1RR46;A0A0X1KG69;A0A087WUZ6 A0A2R8Y549 INADL InaD-like protein 1 0 LEKVPDS(1)PENELK;LEKVPDS(1)PENELK ; 83.792 0.009451 20261700 6679 5978 5338 6422.5 6844.6 6232.7 6741.1 6003.7 6173.1 5933.6 TRUE FALSE FALSE 7381.527864 6171.691122 6065.434841 6546.816775 6320.168227 5701.638896 5982.573686 5850.134047 6130.140894 6189.426534 1.192602873 0.997134563 0.979967176 1.05774206 1.021123394 0.921190172 0.966579642 0.945181919 0.990421465 1 12.59559003 -5.954901395 0.847455045 1.084378174 0.945090975 0.145260243 0.066148732 0.59585123 0.818420256 0.015135948 0.044693679 1.11E-06 5.954901395 -0.1392872 LELQFPRT(ph)PEGR ddPTM_HeLa_SAHA_4h_R1 1 LELQFPRTPEGR 12 1 P48681 P48681 NES Nestin 1 0 LELQFPRT(1)PEGR 89.356 0.014268 27651000 3029.2 2657.5 2844 2733.3 3103.2 3295.5 3263.5 2963.6 2652.1 2991.2 TRUE FALSE FALSE 3347.825154 2743.604744 3231.565509 2786.206974 2865.433486 3014.70486 2896.282391 2887.795403 2633.64382 3120.165271 1.072964046 0.879313916 1.035703313 0.892967754 0.918359522 0.966200377 0.928246468 0.925526423 0.844071897 1 11.60740673 -7.268684465 24.9986356 1.034455244 0.937708875 0 0.074400724 339.1339025 1170155.057 0.007708623 0.008912647 5.39E-08 7.268684465 -0.09674637 LELQGPR ddPTM_HeLa_SAHA_4h_R1 1 LELQGPR 7 0 P19338;H7BY16 P19338 NCL Nucleolin 0 0 120.62 0.022094 12460000 1742 1262.8 1651 1711.6 1623.7 1476.3 1759.6 1370.1 1374.1 1295.5 FALSE FALSE TRUE 1925.231553 1303.715549 1875.989682 1744.730493 1499.292457 1350.510935 1561.605177 1335.054826 1364.537526 1351.355345 1.424667139 0.964746655 1.388228262 1.291096749 1.109473139 0.999375138 1.155584416 0.987937651 1.009754785 1 10.40019137 -5.55722171 8.073339863 1.206732901 1.057683675 0.111631125 0.156686197 0.36262089 73.85350159 0.026357184 0.053101823 2.77E-06 5.55722171 -0.149049226 LELQGPRGS(ph)PNAR ddPTM_HeLa_SAHA_4h_R1 2 LELQGPRGSPNAR 13 1 P19338;H7BY16 P19338 NCL Nucleolin 1 0 LELQGPRGS(1)PNAR;LELQGPRGS(1)PNAR ; 152 0.00064706 593600000 7380 4100 6065.8 4572.2 5555.6 4425 6152.8 6556.7 1797.01 4423.6 TRUE FALSE FALSE 8156.262261 4232.84269 6892.415635 4660.701543 5129.931128 4047.965106 5460.470751 6388.989108 1784.504461 4614.323045 1.767596716 0.917326908 1.493700282 1.010050986 1.111740786 0.877260882 1.18337418 1.384599441 0.386731584 1 12.17190329 -6.252343953 24.59314691 1.340162486 1.104080819 0 0.394351436 963.4688806 2605123.967 0.049564118 0.081407222 5.59E-07 6.252343953 -0.236081667 LELSSSAS(ph)PQEER ddPTM_HeLa_SAHA_4h_R1 3 LELSSSASPQEER 13 0 A0A075B6T1;Q9C0C7-6;Q9C0C7-4;Q9C0C7-2;Q9C0C7-3;Q9C0C7;Q9C0C7-5 A0A075B6T1 AMBRA1 Activating molecule in BECN1-regulated autophagy protein 1 1 0 LELSSS(0.005)AS(0.994)PQEER;LELSS(0.03)S(0.157)AS(0.813)PQEER;LELS(0.051)S(0.037)S(0.207)AS(0.705)PQEER ;; 117.48 0.0012605 13677400 2687.92 2556.42 2194.96 2785.37 3051.01 2829.03 3204.09 3048.58 3008.13 2564.43 TRUE FALSE FALSE 2970.647758 2639.249685 2494.077718 2839.284864 2817.242273 2587.980728 2843.55736 2970.601738 2987.196178 2674.995127 1.110524549 0.986637194 0.9323672 1.061416836 1.0531766 0.967471193 1.063014034 1.110507345 1.116710886 1 11.38532055 -9.89063126 2.054467653 0.999619033 1.047547653 0 0.067055696 0.776455703 5.938916453 0.048273719 0.009443989 1.29E-10 9.89063126 0.04792862 LELSVLYK ddPTM_HeLa_SAHA_4h_R1 1 LELSVLYK 8 0 J3KR44;F5H6Q1;F5GYJ8;Q96FW1;F5GYN4 J3KR44 OTUB1 Ubiquitin thioesterase OTUB1 0 0 130.27 2.86E-05 0 576.9 678.3 929.71 774.84 787.68 677.3 998.86 317.97 528.05 552.88 FALSE FALSE TRUE 637.5809889 700.277365 1056.406037 789.8381486 727.3281286 619.5902296 886.4656439 309.8367878 524.3752571 576.7173625 1.105534583 1.214247065 1.83175695 1.36954113 1.26115178 1.074339477 1.537088532 0.537241997 0.909241322 1 9.171720646 -7.289342616 3.372744643 1.046408016 1.292007147 0.115573821 0.316326093 0.398050107 9.215907698 0.052236077 0.061078443 5.14E-08 7.289342616 0.245599131 LENARLS(ph)SEMNTSTVNSAR ddPTM_HeLa_SAHA_4h_R1 1 LENARLSSEMNTSTVNSAR 19 1 P20700;E9PBF6;A0A0D9SFE5 P20700 LMNB1 Lamin-B1 1 0 LENARLS(0.944)S(0.056)EMNTSTVNSAR 117.27 0.0019799 4726800 656.76 521.37 350.21 581.15 559.69 495.42 605.79 568.33 550.78 409.49 TRUE FALSE FALSE 725.8410301 538.2627301 397.934795 592.3989986 516.8066731 453.2074288 537.6249148 553.7929415 546.9470771 427.1451179 1.699284388 1.26014019 0.931614991 1.386879947 1.209908885 1.061015121 1.258646985 1.296498352 1.28047133 1 8.738582483 -7.001647348 24.99882389 1.338085767 1.189245798 0.087343534 0.19664904 158.3524776 2403083.726 0.045362789 0.05913617 9.96E-08 7.001647348 -0.14883997 LENEGS(ph)DEDIETDVLYSPQMALK ddPTM_HeLa_SAHA_4h_R1 6 LENEGSDEDIETDVLYSPQMALK 23 0 O60502-3;O60502 O60502-3 MGEA5 Protein O-GlcNAcase 1 0 LENEGS(1)DEDIETDVLYSPQMALK;LENEGS(1)DEDIETDVLYSPQMALK;LENEGS(1)DEDIETDVLYSPQMALK;LENEGS(1)DEDIETDVLYSPQMALK;LENEGS(1)DEDIETDVLYSPQMALK;LENEGS(1)DEDIETDVLYSPQMALK ;;;;; 149.87 1.04E-06 14422800 3892.12 4638.1 4648.09 4428.07 5221.79 5853.06 4726.86 4577.46 4834.15 4328.13 TRUE FALSE FALSE 4301.511039 4788.377483 5281.507499 4513.781698 4821.697578 5354.34636 4194.981272 4460.375201 4800.508757 4514.736866 0.952771151 1.060610535 1.169837281 0.999788433 1.067990831 1.185970859 0.929175143 0.987959063 1.063297574 1 12.14042619 -7.249993885 23.01694872 0.977697489 1.059875357 0.050730378 0.078974136 297.8026967 598881.9979 0.012401669 0.015102992 5.62E-08 7.249993885 0.082177868 LENS(ph)PLGEALR ddPTM_HeLa_SAHA_4h_R1 1 LENSPLGEALR 11 0 D6RI08;D6RDK1;D6RIV2;D6R9T5;D6RG39;D6RIT9;D6RDK6;D6RBN5;Q9NX40-3;Q9NX40-2;Q9NX40-4;Q9NX40 D6RI08 OCIAD1 OCIA domain-containing protein 1 1 0 LENS(1)PLGEALR 101.2 0.0073893 1650300 914.64 1069.7 653.61 851.84 998.16 1296.4 1100.4 930.52 910.33 1244.9 TRUE FALSE FALSE 1010.846032 1104.358982 742.6805669 868.328595 921.6811964 1185.939427 976.5800959 906.7186458 903.9949394 1298.573731 0.778427907 0.850439952 0.571920214 0.6686787 0.709764239 0.913263065 0.752040544 0.698241943 0.696144483 1 10.34271222 -8.798543482 0.604579894 1.010739643 0.735089089 0 0.127833836 0.53365153 0.358419149 0.074771626 0.022729043 1.59E-09 8.798543482 -0.275650554 LENTS(ph)PMVK ddPTM_HeLa_SAHA_4h_R1 1 LENTSPMVK 9 0 A0A088AWL3;O75376;O75376-2;E7EVK1;J3KS29;J3QKP0 A0A088AWL3 NCOR1 Nuclear receptor corepressor 1 1 0 LENT(0.357)S(0.643)PMVK 92.611 0.01581 5784100 1695.6 1669.7 1721.3 1608.4 1836.8 1798.2 1800.8 1797.3 2255.7 1801.3 TRUE FALSE FALSE 1873.950988 1723.799376 1955.8698 1639.532908 1696.064781 1644.983244 1598.169245 1751.327668 2240.0024 1878.962858 0.99733264 0.917420676 1.040930528 0.872573346 0.902660089 0.875474061 0.850559253 0.932071467 1.192148312 1 10.87572083 -6.250110477 24.97398456 0.994192314 0.88492822 0.466212999 0.071602145 282.4925007 622740.0902 0.004868298 0.008027522 5.62E-07 6.250110477 -0.109264094 LEPAS(ph)PPEDTSAEVSR ddPTM_HeLa_SAHA_4h_R1 2 LEPASPPEDTSAEVSR 16 0 E9PFE2;Q9UHL9-2;Q9UHL9;Q9UHL9-3 E9PFE2 GTF2IRD1 General transcription factor II-I repeat domain-containing protein 1 1 0 LEPAS(0.998)PPEDT(0.001)S(0.001)AEVSR;LEPAS(0.967)PPEDT(0.016)S(0.016)AEVSR ; 171.15 7.21E-09 36786000 1251.96 1406.23 1222.39 1367.74 1532.46 2117.74 1473.27 1211.6 1882.26 1759.11 TRUE FALSE FALSE 1383.646897 1451.792775 1388.970943 1394.214585 1415.043246 1937.296638 1307.493782 1180.609026 1869.161199 1834.953841 0.754049975 0.791187627 0.756951435 0.759809078 0.771160132 1.055774044 0.712548595 0.64339985 1.018642081 1 10.84152806 -9.271016312 0.862748869 1.008395766 0.784238478 0.445838518 0.101235935 0.554503439 0.697008887 0.082952695 0.019508492 5.36E-10 9.271016312 -0.224157288 LEPGS(ph)DVEVK ddPTM_HeLa_SAHA_4h_R1 1 LEPGSDVEVK 10 0 H7BYF1;Q9ULI0-2;Q9ULI0 H7BYF1 ATAD2B ATPase family AAA domain-containing protein 2B 1 0 LEPGS(1)DVEVK 92.247 0.016454 3156800 871.76 1416.4 968.31 1175.7 1396.9 2225.5 1315.3 1397.8 2078.5 1121.4 TRUE FALSE FALSE 963.4557166 1462.292289 1100.266244 1198.457374 1289.869824 2035.87488 1167.298982 1362.0463 2064.035549 1169.749042 0.823643091 1.250090606 0.940600252 1.0245423 1.102689361 1.740437313 0.997905483 1.164391892 1.764511425 1 10.19198333 -5.603558677 3.928579184 0.951653065 1.290201037 0 0.329236666 0.184849051 5.53901313 0.029883089 0.062672446 2.49E-06 5.603558677 0.338547972 LEPLK(ac)PLK ddPTM_HeLa_SAHA_4h_R1 2 LEPLKPLK 8 1 Q9ULL5;Q9ULL5-2;A0A3Q5ADB5 Q9ULL5 PRR12 Proline-rich protein 12 0 1 ; LEPLK(1)PLK;LEPLK(1)PLK 97.431 0.012303 9857600 6436 7840.1 5764.3 7153.4 7659.9 7600.4 7842.4 5547.9 6982.6 5957.2 FALSE TRUE FALSE 7112.968009 8094.124384 6549.828785 7291.864401 7073.000117 6952.803161 6959.952512 5405.992751 6934.007518 6214.044046 1.144660057 1.30255343 1.054036427 1.173449101 1.138228192 1.118885401 1.120035916 0.8699637 1.115860697 1 12.60131675 -4.258645899 24.39121212 1.101876651 0.869963583 0.464241522 0.078757724 161.9576636 1414014.72 0.012794618 0.119271274 5.51E-05 4.258645899 -0.231913069 LEPNS(ph)PMHGGTLLEDVVGGR ddPTM_HeLa_SAHA_4h_R1 4 LEPNSPMHGGTLLEDVVGGR 20 0 Q5VY60;Q7Z4H7-3;Q7Z4H7 Q5VY60 HAUS6 HAUS augmin-like complex subunit 6 1 0 LEPNS(0.999)PMHGGT(0.001)LLEDVVGGR;LEPNS(1)PMHGGTLLEDVVGGR;LEPNS(1)PMHGGTLLEDVVGGR;LEPNS(1)PMHGGTLLEDVVGGR ;;; 103.4 0.00055671 16827800 1532.55 2654.29 2049.56 2098.97 2296.69 2792.73 2877.41 1903.77 2573.95 2056.55 TRUE FALSE FALSE 1693.750641 2740.290738 2328.863363 2139.5986 2120.718108 2554.773693 2553.636254 1855.07432 2556.037672 2145.217935 0.789547119 1.277395034 1.085606886 0.997380529 0.98857933 1.190915688 1.190385467 0.864748653 1.191504896 1 11.0669085 -7.277535631 24.99712725 0.900619476 1.086073189 0 0.152204199 734.3423155 1140415.081 0.0224404 0.025703243 5.28E-08 7.277535631 0.185453714 LEPSTSTDQPVT(ph)PEPTSQATR ddPTM_HeLa_SAHA_4h_R1 3 LEPSTSTDQPVTPEPTSQATR 21 0 Q14676;Q14676-3;Q14676-2 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 1 0 LEPSTST(0.001)DQPVT(0.332)PEPT(0.332)S(0.332)QAT(0.005)R;LEPSTS(0.001)T(0.039)DQPVT(0.96)PEPTSQATR;LEPSTSTDQPVT(1)PEPTSQATR ;; 233.59 3.59E-34 15465400 1671.55 1720.59 1592.87 1305.44 1760.56 2116.14 1554.57 1603.28 1995.69 1819.86 TRUE FALSE FALSE 1847.371298 1776.338245 1809.938028 1330.708679 1625.666273 1935.832967 1379.645692 1562.270419 1981.801831 1898.323071 0.973159588 0.935740745 0.953440463 0.70099168 0.856369655 1.01975949 0.726770755 0.822973941 1.043975002 1 10.89050983 -6.487746849 18.21763325 0.981268767 0.83189542 0.464881483 0.084011883 16.8087491 8715.69669 0.012333008 0.01881603 3.25E-07 6.487746849 -0.149373347 LEPSTSTDQPVTPEPT(ph)SQATR ddPTM_HeLa_SAHA_4h_R1 1 LEPSTSTDQPVTPEPTSQATR 21 0 Q14676;Q14676-3;Q14676-2 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 1 0 LEPST(0.005)S(0.001)T(0.02)DQPVT(0.292)PEPT(0.659)S(0.022)QATR 214.52 8.61E-27 5626500 974.29 967.48 716.53 695.83 964.65 1159.9 933.68 1232.7 1079.2 1036 TRUE FALSE FALSE 1076.770292 998.8269868 814.1749769 709.2987958 890.7387254 1061.069995 828.6198691 1201.169319 1071.689759 1080.66703 0.996394137 0.924268955 0.753400404 0.656352767 0.824249006 0.981865797 0.766767049 1.111507324 0.991692843 1 10.07770636 -7.016096123 4.574472173 0.997235272 0.840804047 0.23436328 0.118713024 0.19579185 10.40517261 0.019171074 0.024418346 9.64E-08 7.016096123 -0.156431225 LEPTAPALS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 LEPTAPALSPR 11 0 Q96IF1 Q96IF1 AJUBA LIM domain-containing protein ajuba 1 0 LEPTAPALS(1)PR;LEPTAPALS(1)PR;LEPTAPALS(1)PR ;; 150.51 0.00050502 57337600 3112.58 3394.37 3152.67 2769.83 2878.24 3318.71 3482.23 2451.42 2844.84 2916.28 TRUE FALSE FALSE 3439.975445 3504.349815 3582.299449 2823.444065 2657.709873 3035.937237 3090.400316 2388.716226 2825.042527 3042.015103 1.130821291 1.151983043 1.177607385 0.928149259 0.873667547 0.998002027 1.015905645 0.785241409 0.928674721 1 11.5708116 -6.232139574 23.02965924 1.07944403 0.927248416 0.428524421 0.090820817 201.4144485 158311.337 0.013161268 0.021821973 5.86E-07 6.232139574 -0.152195614 LEPTNVQTVTCS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 LEPTNVQTVTCSPR 14 0 J3KTI7;J3QR52;J3QLN7;Q99741 J3KTI7 CDC6 Cell division control protein 6 homolog 1 0 LEPTNVQTVTCS(1)PR;LEPTNVQTVT(0.001)CS(0.999)PR ; 188 1.91E-08 57474000 2510.96 1796.92 1529.01 2573.7 2367.7 2420.9 2244.9 2734.5 2363.5 1717 TRUE FALSE FALSE 2775.074293 1855.141387 1737.37552 2623.517685 2186.287338 2214.6257 1992.297944 2664.55545 2347.052211 1791.028273 1.549430758 1.035796819 0.970043604 1.464810871 1.220688345 1.236510743 1.112376602 1.487723834 1.310449559 1 10.8065724 -4.241920595 22.67025935 1.232304755 1.487724687 0.16146227 0.183475286 2281.841212 2650110.746 0.031655492 1.347317796 5.73E-05 4.241920595 0.255419932 LEPVS(ph)PPS(ph)PPHTDPELELVPPR ddPTM_HeLa_SAHA_4h_R1 4 LEPVSPPSPPHTDPELELVPPR 22 0 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9JQE8;C9J330;H7C1Y3;H0YGK8 C9JE98 NCOR2 Nuclear receptor corepressor 2 2 0 LEPVS(1)PPS(0.999)PPHT(0.001)DPELELVPPR;LEPVS(1)PPS(1)PPHTDPELELVPPR;LEPVS(1)PPS(0.999)PPHT(0.001)DPELELVPPR;LEPVS(1)PPS(1)PPHTDPELELVPPR ;;; 128.52 1.11E-05 15258100 4828.06 5279.99 4137.53 4950.64 5956.95 6652.95 5592.97 5123.71 6057.73 5314.09 TRUE FALSE FALSE 5335.897503 5451.06514 4701.371041 5046.466796 5500.529778 6086.081232 4963.634296 4992.652917 6015.573764 5543.206426 0.962601262 0.98337762 0.848132052 0.910387672 0.99230109 1.097935159 0.895444606 0.900679595 1.085215542 1 12.43650502 -8.378186836 0.850701021 0.995546995 0.949217645 0.159855037 0.070990252 1.162329863 1.76452137 0.025809097 0.014870492 4.19E-09 8.378186836 -0.04632935 LEPVYSPPGS(ph)PPPGDPR ddPTM_HeLa_SAHA_4h_R1 1 LEPVYSPPGSPPPGDPR 17 0 A0A0A6YYC0;E9PJN1;O75676-2;O75676 A0A0A6YYC0 RPS6KA4 Ribosomal protein S6 kinase;Ribosomal protein S6 kinase alpha-4 1 0 LEPVYS(0.087)PPGS(0.913)PPPGDPR 136.26 0.00011843 21674000 795.15 966.42 874.56 789.44 781.63 1038.3 829.24 1073.3 815.61 622.89 TRUE FALSE FALSE 878.7875253 997.7326421 993.7404823 804.7207527 721.7416783 949.8309987 735.9317328 1045.84654 809.9341036 649.7458362 1.352509668 1.535573737 1.529429551 1.238516213 1.110806161 1.461850074 1.132645554 1.609624074 1.246539891 1 9.343731673 -8.987486876 0.860144216 1.005865956 1.361039758 0.190908275 0.177331182 0.448094953 0.619886592 0.095701953 0.031899291 1.03E-09 8.987486876 0.355173802 LEQLCEEFS(ph)EEER ddPTM_HeLa_SAHA_4h_R1 2 LEQLCEEFSEEER 13 0 Q9H3C7-3;Q9H3C7 Q9H3C7-3 GGNBP2 Gametogenetin-binding protein 2 1 0 LEQLCEEFS(1)EEER;LEQLCEEFS(1)EEER ; 192.32 1.46E-07 8858500 1222.42 1611.41 1236.76 1457.39 1395.99 2300.14 1667.76 1310.56 2000.38 1710.84 TRUE FALSE FALSE 1350.999744 1663.620741 1405.299212 1485.599891 1289.029548 2104.155132 1480.099255 1277.037773 1986.459193 1784.602685 0.757031106 0.932207911 0.787457748 0.832454139 0.72230618 1.179060835 0.829371864 0.715586603 1.113110055 1 10.8013872 -9.547723789 1.309916217 1.000133406 0.83986691 0.263525379 0.133181638 0.623309364 1.913362381 0.088491347 0.020899178 2.83E-10 9.547723789 -0.160266496 LEQLCEEFS(ph)EEERVR ddPTM_HeLa_SAHA_4h_R1 3 LEQLCEEFSEEERVR 15 1 Q9H3C7-3;Q9H3C7 Q9H3C7-3 GGNBP2 Gametogenetin-binding protein 2 1 0 LEQLCEEFS(1)EEERVR;LEQLCEEFS(1)EEERVR;LEQLCEEFS(1)EEERVR ;; 147.49 4.87E-05 16417700 1993.44 2341.79 2127.61 2106.99 2559.39 2894.01 2760.49 2171.74 2193.5 2456.74 TRUE FALSE FALSE 2203.119165 2417.665533 2417.549611 2147.773838 2363.290091 2647.424067 2449.8724 2116.190035 2178.235255 2562.662084 0.859699443 0.943419559 0.943374324 0.838102632 0.922201216 1.033075755 0.955987297 0.825778025 0.849989262 1 11.32342754 -9.590196593 1.390489227 0.999850858 0.911783915 0 0.074531555 0.525870143 1.82865234 0.042864979 0.010028661 2.57E-10 9.590196593 -0.088066942 LEQLESGEEELVLAEYES(ph)DEEKKVASR ddPTM_HeLa_SAHA_4h_R1 1 LEQLESGEEELVLAEYESDEEKKVASR 27 2 F5GXJ8;F6WZM0;F5H235;C9K0E8;B4DMS8;Q96FC9-5;Q96FC9-4;Q96FC9-3;Q96FC9-2;Q96FC9 F5GXJ8 DDX11 Probable ATP-dependent RNA helicase DDX11 1 0 LEQLESGEEELVLAEY(0.304)ES(0.348)DEEKKVAS(0.348)R 42.472 0.018119 4775300 713.94 1018.4 596.4 906.05 1182 1358 1164.2 772.23 1174.3 1109.4 TRUE FALSE FALSE 789.0354849 1051.396828 677.6742861 923.5879079 1091.435415 1242.29076 1033.201152 752.4774748 1166.127951 1157.231663 0.68183019 0.908544816 0.585599502 0.798101138 0.943143409 1.07350222 0.892821364 0.650239272 1.00768756 1 10.17646199 -4.253980801 23.07742663 0.853116198 0.650238987 0.1633716 0.145162541 517.2061737 1600151.718 0.02228551 0.294630937 5.57E-05 4.253980801 -0.20287721 LERENAEVDGDDDAEEMEAK ddPTM_HeLa_SAHA_4h_R1 2 LERENAEVDGDDDAEEMEAK 20 1 P05198 P05198 EIF2S1 Eukaryotic translation initiation factor 2 subunit 1 0 0 ; ; 185.55 9.05E-14 8830400 2023.62 1971.92 2058.25 2238.4 2326.97 2466.4 2038.58 2358.05 2017.93 2078.07 FALSE FALSE TRUE 2236.473636 2035.811502 2338.737591 2281.727469 2148.678061 2256.248844 1809.193613 2297.734495 2003.887061 2167.665768 1.031742841 0.939172234 1.078919834 1.052619598 0.991240483 1.040865653 0.83462757 1.060004051 0.924444668 1 11.08192661 LES(ph)LNIQR ddPTM_HeLa_SAHA_4h_R1 2 LESLNIQR 8 0 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 1 0 LES(1)LNIQR;LES(1)LNIQR ; 93.561 0.015459 13489500 4086.9 4363.1 3906.7 4296.8 5061.2 5608.9 4783.1 5331.3 4400.5 3947.6 TRUE FALSE FALSE 4516.778893 4504.467303 4439.084731 4379.970777 4673.411949 5130.990165 4244.893 5194.933066 4369.876562 4117.800355 1.096891181 1.093901334 1.078023301 1.063667589 1.134929221 1.246051222 1.030864207 1.261579634 1.061216228 1 12.00765817 -1.000000175 0.042234816 0.683154489 1.828834024 0.37785916 0.064245014 395.0580976 1.281484976 9.316651705 31.81549369 0.09999996 1.000000175 1.145679534 LESDYEILER ddPTM_HeLa_SAHA_4h_R1 1 LESDYEILER 10 0 J3KR24;A0A0A0MSX9;P41252;Q5TCD1 J3KR24 IARS "Isoleucine--tRNA ligase, cytoplasmic" 0 0 170.5 0.00054133 5047600 1759.7 1461.9 1231.2 1698.6 1470.3 1875.6 1723.5 1834.1 2378.7 1620.2 FALSE FALSE TRUE 1944.79332 1509.266519 1398.981524 1731.478859 1357.645932 1715.788328 1529.567244 1787.186378 2362.146433 1690.054751 1.150727998 0.89302818 0.827772901 1.024510513 0.803314763 1.015226475 0.905040054 1.057472473 1.397674502 1 10.72285427 -7.250405687 24.91473012 1.071177111 0.929036951 0.345036713 0.133778757 565.7896409 1277586.998 0.014913877 0.018166922 5.62E-08 7.250405687 -0.14214016 LESEEEGVPSTAIR ddPTM_HeLa_SAHA_4h_R1 1 LESEEEGVPSTAIR 14 0 E5RIU6;A0A087WZZ9;A0A024QZP7;P06493-2;P06493 E5RIU6 CDK1;CDC2 Cyclin-dependent kinase 1 0 0 201.46 3.05E-11 2363700 476.54 517.35 702.53 630.64 523.86 862.58 804.96 562.86 787.01 501.25 FALSE FALSE TRUE 526.6646636 534.1124794 798.2671298 642.8469491 483.72196 789.0833313 714.3837823 548.4628562 781.5331333 522.8613406 1.007274057 1.021518399 1.526728155 1.22947883 0.925143862 1.509163654 1.366296811 1.048964254 1.494723501 1 9.030284594 -6.954115031 24.97203193 1.004011788 1.266486 0 0.232938841 101.1958913 55073.67739 0.026919442 0.03537907 1.11E-07 6.954115031 0.262474212 LESEST(ph)SPSLEMK ddPTM_HeLa_SAHA_4h_R1 1 LESESTSPSLEMK 13 0 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 LESEST(0.985)S(0.015)PSLEMK 177.16 2.16E-05 15897000 2440.7 2455.9 2051 2260.7 2233.8 2932.4 2476.7 2550 2798.8 2516.8 TRUE FALSE FALSE 2697.424024 2535.472771 2330.499599 2304.459118 2062.646727 2682.543023 2198.015198 2484.774692 2779.322923 2625.311565 1.027468153 0.965779759 0.887704008 0.877785002 0.785676928 1.021799873 0.83723975 0.946468498 1.058664031 1 11.35827293 -6.922500524 3.160168877 1.012713494 0.890348809 0.498071867 0.06082236 0.149255251 3.022035286 0.009089278 0.012082496 1.20E-07 6.922500524 -0.122364684 LESESTS(ph)PSLEMK ddPTM_HeLa_SAHA_4h_R1 1 LESESTSPSLEMK 13 0 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 LESEST(0.204)S(0.793)PS(0.003)LEMK 225.79 6.26E-23 17189000 1300.8 1080.6 1224.3 1128.3 1345.1 1363.2 1392.7 1156.7 1421.1 1229.6 TRUE FALSE FALSE 1437.624112 1115.612149 1391.141228 1150.139878 1242.038729 1247.047691 1235.989731 1127.113289 1411.210449 1282.614074 1.120854778 0.869795656 1.084614037 0.896715467 0.968365118 0.972270394 0.96364897 0.878762608 1.100261161 1 10.32487143 -7.268160549 24.99844848 1.057070311 0.953389643 0.429474328 0.065472049 449.5883202 1672177.93 0.011570937 0.013386075 5.39E-08 7.268160549 -0.103680667 LESGGGGEGGEGT(ph)EEEDGAER ddPTM_HeLa_SAHA_4h_R1 4 LESGGGGEGGEGTEEEDGAER 21 0 Q96LA8 Q96LA8 PRMT6 Protein arginine N-methyltransferase 6 1 0 LESGGGGEGGEGT(1)EEEDGAER;LESGGGGEGGEGT(1)EEEDGAER;LESGGGGEGGEGT(1)EEEDGAER;LESGGGGEGGEGT(1)EEEDGAER ;;; 185.96 2.05E-22 3668200 692.5 924.28 447.83 873.95 1007.15 982.97 806.346 685.457 1126.06 852.17 TRUE FALSE FALSE 765.3403273 954.2272784 508.8579402 890.866566 929.9823846 899.215426 715.6138259 667.9240025 1118.223657 888.9112191 0.860986239 1.073478721 0.572450802 1.00219971 1.0462039 1.011591941 0.80504533 0.751395627 1.257970012 1 9.795895525 -9.433766823 0.967318266 1.005223422 0.892728797 0.164791689 0.167988162 1.493485944 2.302544513 0.125289111 0.026010553 3.68E-10 9.433766823 -0.112494625 LESLSETPGPS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 LESLSETPGPSSPR 14 0 A0A2R8YFR7;Q12774;A0A2R8YF49;H0Y895;C9J591;Q12774-2 A0A2R8YFR7 ARHGEF5 Rho guanine nucleotide exchange factor 5 1 0 LESLS(0.004)ET(0.112)PGPS(0.794)S(0.09)PR 144.51 0.00012333 33113000 2226.4 2605.7 2188.5 2439 2472.9 2583.5 2709.8 2734.3 3174.1 2702 TRUE FALSE FALSE 2460.582967 2690.12639 2486.737383 2486.210372 2283.426936 2363.371266 2404.886172 2664.360565 3152.01118 2818.496443 0.873012621 0.954454421 0.882292184 0.882105201 0.810157821 0.838521997 0.853251448 0.945312729 1.118330728 1 11.46071003 -10.21949355 0.321440708 1.110196683 0.86370985 0.599294747 0.055041849 3.558136331 0.292172055 0.338761004 0.018697137 6.03E-11 10.21949355 -0.246486833 LESLSETPGPS(ph)SPRQPR ddPTM_HeLa_SAHA_4h_R1 1 LESLSETPGPSSPRQPR 17 1 A0A2R8YFR7;Q12774;A0A2R8YF49;H0Y895;C9J591;Q12774-2 A0A2R8YFR7 ARHGEF5 Rho guanine nucleotide exchange factor 5 1 0 LESLSET(0.001)PGPS(0.5)S(0.5)PRQPR 73.984 0.0085363 3840900 1156.1 1063.2 1502.4 1648.1 1532.3 2787.6 1540.7 1457.4 1394.3 2050.3 TRUE FALSE FALSE 1277.703902 1097.648378 1707.139248 1680.001359 1414.895505 2550.080797 1367.336381 1420.121818 1384.596953 2138.698467 0.597421246 0.513231947 0.798214089 0.785525115 0.661568485 1.192351721 0.639331071 0.664012174 0.647401667 1 11.06251738 -9.495838629 1.278711259 0.99806329 0.722732019 0 0.204593722 0.510021605 1.508856764 0.119916746 0.030021823 3.19E-10 9.495838629 -0.27533127 LESLSETPGPSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 LESLSETPGPSSPR 14 0 A0A2R8YFR7;Q12774;A0A2R8YF49;H0Y895;C9J591;Q12774-2 A0A2R8YFR7 ARHGEF5 Rho guanine nucleotide exchange factor 5 1 0 LESLSET(0.007)PGPS(0.126)S(0.867)PR;LESLSETPGPS(0.009)S(0.991)PR;LESLSETPGPS(0.006)S(0.994)PR;LESLS(0.001)ET(0.002)PGPS(0.489)S(0.509)PR ;;; 202.61 4.48E-12 52152700 5785.03 6526.27 5906.08 6835.4 6973.8 8332.7 6776.2 6596.7 8228.1 6915 TRUE FALSE FALSE 6393.525998 6737.72543 6710.929825 6967.709051 6439.468951 7622.707082 6013.724142 6427.965966 8170.839982 7213.139491 0.886372155 0.934090549 0.930375717 0.965974533 0.892741497 1.056780767 0.833717988 0.891146771 1.132771658 1 12.81641161 LESS(ph)EGEIIQTVDR ddPTM_HeLa_SAHA_4h_R1 1 LESSEGEIIQTVDR 14 0 F8VXG7;Q99590-2;Q99590;A0A0A0MTP7 F8VXG7 SCAF11 Protein SCAF11 1 0 LES(0.042)S(0.958)EGEIIQTVDR 164.93 8.08E-06 3199000 522.73 693.78 534.43 446.64 630.45 737.32 527.54 727.39 852.47 795.55 TRUE FALSE FALSE 577.7131398 716.2589272 607.2593372 455.2853631 582.1450572 674.496188 468.1798108 708.784417 846.5375919 829.8500538 0.696165695 0.863118492 0.731769956 0.548635697 0.70150632 0.812792847 0.564173984 0.854111431 1.0201091 1 9.696706868 -9.512832274 0.50916913 1.08805859 0.705170108 0.567473198 0.100850513 1.108547245 0.337418411 0.219173453 0.024649909 3.07E-10 9.512832274 -0.382888482 CIAAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 CIAAKK 6 1 Q01780-2;Q01780 Q01780-2 EXOSC10 Exosome component 10 0 1 ; CIAAK(1)K;CIAAK(1)K 123.34 0.00079379 16872000 8307.6 7685.8 7621 12047.9 14214.9 14728.1 17234.1 14851.2 5597 6574 FALSE TRUE FALSE 9181.431485 7934.824963 8659.550192 12281.10453 13125.75743 13473.18302 15294.87371 14471.32781 5558.050021 6857.437312 1.338901264 1.157112286 1.262796843 1.790917506 1.914090765 1.964754821 2.230406639 2.110311352 0.810514157 1 12.74345381 -6.016183097 0.918326272 1.142252678 2.170342783 0.901877062 0.149232566 0.120776208 0.198317167 0.025036993 0.066658598 9.63E-07 6.016183097 1.028090106 up LETLPS(ph)FEESEELEAASR ddPTM_HeLa_SAHA_4h_R1 2 LETLPSFEESEELEAASR 18 0 A0A0A0MTL4;A0A0A0MTE8;Q8IVL1-4;Q8IVL1-8;Q8IVL1-9;Q8IVL1-10;Q8IVL1-13;Q8IVL1-12;Q8IVL1-11;Q8IVL1-3;Q8IVL1-2;Q8IVL1 A0A0A0MTL4 NAV2 Neuron navigator 2 1 0 LET(0.287)LPS(0.712)FEES(0.001)EELEAASR;LET(0.001)LPS(0.997)FEES(0.002)EELEAASR ; 117.53 0.00016117 1348500 358.39 459.54 560.36 670.29 784.62 722.66 718.2 699.61 481.17 534.57 TRUE FALSE FALSE 396.0871046 474.4293975 636.7229426 683.2644322 724.5025851 661.0853024 637.3862458 681.7149892 477.8214988 557.6179288 0.710319888 0.850814461 1.141862393 1.22532723 1.299281368 1.185552451 1.143051923 1.222548548 0.856897661 1 9.123133138 -6.694906646 4.132713095 0.857943527 1.211156427 0.839927027 0.074971091 0.09396688 3.180985272 0.01836584 0.02598285 2.02E-07 6.694906646 0.3532129 LETVVCTGS(ph)VPVDK ddPTM_HeLa_SAHA_4h_R1 2 LETVVCTGSVPVDK 14 0 A0A087WX11;J3KNG8;Q8TF40-3;Q8TF40 A0A087WX11 FNIP1 Folliculin-interacting protein 1 1 0 LETVVCT(0.029)GS(0.971)VPVDK;LETVVCT(0.003)GS(0.997)VPVDK ; 224.16 1.77E-18 11235100 1570.48 1719.64 1820.56 2458.52 2266.36 2618.4 1949.4 2599.26 1815.83 1861.79 TRUE FALSE FALSE 1735.670292 1775.357464 2068.656436 2506.10821 2092.711986 2395.297589 1730.048381 2532.774693 1803.193491 1942.060878 0.893725996 0.914161592 1.065186194 1.290437513 1.077572804 1.23337925 0.890831179 1.304168536 0.928494833 1 10.92337271 -6.579378691 4.939107459 0.946425245 1.147135414 0.459614523 0.114248109 0.141756087 7.22082604 0.017020879 0.024414321 2.63E-07 6.579378691 0.200710169 LEVPAERS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 LEVPAERSPR 10 1 Q9UJF2-2 Q9UJF2-2 RASAL2 Ras GTPase-activating protein nGAP 1 0 LEVPAERS(1)PR 91.202 0.010285 13017000 2350.8 2190.3 1877.9 1797.6 2186.7 2160.3 2295.8 2033 2041.4 2000.8 TRUE FALSE FALSE 2598.06793 2261.267157 2133.810432 1832.395147 2019.155518 1976.230286 2037.470542 1980.998804 2027.193731 2087.06428 1.244843273 1.083467902 1.022398042 0.877977341 0.967462065 0.946894787 0.976237561 0.949179584 0.97131351 1 11.02725932 -6.635984349 3.045037123 1.116987212 0.947033883 0.348788534 0.076555382 0.18837967 3.513594344 0.015131405 0.021986334 2.31E-07 6.635984349 -0.169953329 LEVS(ph)PEAQPTAR ddPTM_HeLa_SAHA_4h_R1 1 LEVSPEAQPTAR 12 0 Q6WKZ4 Q6WKZ4 RAB11FIP1 Rab11 family-interacting protein 1 1 0 LEVS(1)PEAQPTAR 128.21 0.0011379 9311000 1292.2 1299.2 1162.1 1273.3 1371.7 1199.4 1214.2 1811.3 1259.3 1312.9 TRUE FALSE FALSE 1428.119525 1341.294932 1320.464936 1297.946563 1266.600642 1097.204372 1077.57502 1764.969569 1250.536429 1369.505544 1.042799374 0.979400878 0.964191012 0.947748308 0.924859814 0.801168259 0.786835092 1.288764092 0.913129877 1 10.41943939 -6.736887547 1.730037957 1.019866354 0.931463542 0 0.133648674 0.66348898 4.050627671 0.02103016 0.030814587 1.83E-07 6.736887547 -0.088402812 LEVTEIVKPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 LEVTEIVKPSPK 12 1 A0A2R8Y880;Q7Z6E9-2;Q7Z6E9 A0A2R8Y880 RBBP6 E3 ubiquitin-protein ligase RBBP6 1 0 LEVTEIVKPS(1)PK 68.972 0.021055 2992400 1005.8 1238.5 851.06 1238.4 1403.1 1426.7 1339.8 1199.7 1594.1 1245.3 TRUE FALSE FALSE 1111.594659 1278.628213 967.0380247 1262.371023 1295.594781 1305.137134 1189.042178 1169.013411 1583.006528 1298.990977 0.855737013 0.984324168 0.744453227 0.971808923 0.997385512 1.004731485 0.915358304 0.899939593 1.218643205 1 10.34317569 LFCVGFTK ddPTM_HeLa_SAHA_4h_R1 2 LFCVGFTK 8 0 D6R9B6;H0Y9Y4;D6RAT0;P61247;D6RG13;D6RB09;E9PFI5;D6RAS7;H0Y8L7 D6R9B6 RPS3A 40S ribosomal protein S3a 0 0 ; ; 146.35 8.25E-05 30988000 6191.8 6513.4 7614 7617.9 9202.5 7788.4 10119.9 5354.7 4932.8 6435.1 FALSE FALSE TRUE 6843.081933 6724.438434 8651.596268 7765.35547 8497.406438 7124.784504 8981.182218 5217.734528 4898.472243 6712.548654 1.019446158 1.001771277 1.288869059 1.156841592 1.265898674 1.061412717 1.337969031 0.777310497 0.72974849 1 12.71264492 -6.802244339 24.87274043 1.008883536 1.158501284 0.225007147 0.171356781 155.5392348 94808.64799 0.021019725 0.027625508 1.58E-07 6.802244339 0.149617748 LFDDEAS(ph)VDEPR ddPTM_HeLa_SAHA_4h_R1 2 LFDDEASVDEPR 12 0 A0A2R8Y549;Q8NI35-4;Q8NI35-3;Q8NI35-2;Q8NI35;A0A0U1RR46;A0A0X1KG69;A0A087WUZ6;Q8NI35-5 A0A2R8Y549;Q8NI35-5 INADL InaD-like protein 1 0 LFDDEAS(1)VDEPR;LFDDEAS(1)VDEPR ; 128.21 0.0011379 12098600 1135.76 1590.47 1197.88 1342.82 1408.14 1505.72 1476.45 1483.87 1451.65 1468.04 TRUE FALSE FALSE 1255.224448 1642.002272 1361.120848 1368.812223 1300.248617 1377.424185 1310.31596 1445.914754 1441.547849 1531.334389 0.819693241 1.07226892 0.888846262 0.893868924 0.84909516 0.899492753 0.855669389 0.944218823 0.941367124 1 10.58057364 -6.566148985 24.99980918 0.926961867 0.885699527 0.148991116 0.066397265 343.749249 198603.2537 0.012889137 0.018227998 2.72E-07 6.566148985 -0.04126234 LFDQAFGLPR ddPTM_HeLa_SAHA_4h_R1 2 LFDQAFGLPR 10 0 P04792;F8WE04 P04792 HSPB1 Heat shock protein beta-1 0 0 ; ; 147.4 5.93E-05 3776300 2480.9 2800.8 3785.9 2499.5 3049 626.61 3606.2 537.53 821.99 2148.13 FALSE FALSE TRUE 2741.852445 2891.547758 4301.822736 2547.881437 2815.386279 573.2193028 3200.420885 523.7807609 816.2697047 2240.746397 1.223633539 1.290439544 1.919816871 1.137068184 1.256450209 0.255816233 1.428283401 0.233752807 0.364284734 1 11.12976366 -5.304120719 24.92654244 1.195847214 0.718183572 0.203689064 0.471543269 465.3167861 271751.267 0.05399675 0.120741201 4.96E-06 5.304120719 -0.477663642 LFEDDDS(ph)NEK ddPTM_HeLa_SAHA_4h_R1 1 LFEDDDSNEK 10 0 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 LFEDDDS(1)NEK 90.434 0.017864 2376800 812.68 985.89 714.63 1083.1 956.27 1396.4 957.69 912.37 1490.1 1063.8 TRUE FALSE FALSE 898.1614111 1017.833483 812.0160548 1104.064967 883.0007992 1277.418864 849.9282007 889.0328965 1479.730273 1109.665624 0.809398247 0.917243412 0.731766432 0.994952842 0.795735923 1.151174585 0.765931811 0.801171882 1.333492036 1 10.1159093 -9.498602485 1.239481318 1.0001453 0.868039055 0.237250608 0.160181252 0.698646483 1.917428251 0.07814752 0.018878921 3.17E-10 9.498602485 -0.132106245 LFEEPEDPSNR ddPTM_HeLa_SAHA_4h_R1 2 LFEEPEDPSNR 11 0 Q9Y2T4-2;E5RFR9;A0A590UJJ1;A0A590UJY3;Q9Y2T4-3;Q9Y2T4-4;Q9Y2T4;P63151;P63151-2 Q9Y2T4-2 PPP2R2C;PPP2R2A Serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B gamma isoform;Serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform 0 0 ; ; 160.75 0.0012287 6251700 1742.7 2306.9 2003.22 2925.1 2286 2893.2 2288.5 4101.4 3858.2 3044.3 FALSE FALSE TRUE 1926.005182 2381.645074 2276.208389 2981.71954 2110.847174 2646.683083 2030.991957 3996.492127 3831.350472 3175.554671 0.606509848 0.749993409 0.716790805 0.938960229 0.66471763 0.833455367 0.639570773 1.258517815 1.206513781 1 11.63279289 -4.249573788 24.56337342 0.790859323 1.258518177 0.345194871 0.178940669 1056.097257 2186213.195 0.021774596 0.470544223 5.63E-05 4.249573788 0.467658854 LFELEEQDLFR ddPTM_HeLa_SAHA_4h_R1 1 LFELEEQDLFR 11 0 Q9NZN4-2;Q9NZN4 Q9NZN4-2 EHD2 EH domain-containing protein 2 0 0 185.96 7.58E-06 3108500 549.24 694.23 646.54 727.15 712.63 834.35 777.33 578.73 797.71 822.11 FALSE FALSE TRUE 607.0115832 716.7235075 734.6471042 741.2250397 658.0284434 763.2586861 689.8627826 563.9269246 792.1586712 857.5551854 0.707839674 0.835775376 0.856676184 0.864346753 0.767330726 0.890040314 0.804452931 0.657598408 0.923740751 1 9.744085704 -9.489898061 1.209424064 1.000998061 0.795206283 0.445577198 0.071588262 0.299379959 0.777501481 0.051499188 0.0123025 3.24E-10 9.489898061 -0.205791778 LFFLQVK ddPTM_HeLa_SAHA_4h_R1 1 LFFLQVK 7 0 E7EQR4;P15311;E9PQ82;E9PNV3;P35241-3;A0A2R8Y5P0;A0A2R8Y7M3;A0A2R8Y5S7;P35241;P35241-5;P26038;V9GZ54 E7EQR4;A0A2R8Y7M3;P26038 EZR;RDX;MSN Ezrin;Radixin;Moesin 0 0 142.63 2.13E-05 8821100 2449.2 2878 13068 5407.9 5090.8 852.26 6560 479.6 526.82 1145 FALSE FALSE TRUE 2706.818093 2971.249088 14848.83898 5512.577724 4700.744004 779.6426533 5821.851535 467.3325265 523.1538167 1194.366553 2.266321077 2.487719603 12.43239686 4.615482331 3.935763263 0.652766649 4.874426128 0.391280654 0.438017806 1 10.22202996 -4.210297853 19.87697908 2.848558981 0.391120891 0.032978953 3.387871198 7578.456004 2944406.733 0.48670017 287.7407213 6.16E-05 4.210297853 -2.45743809 K(ac)SAPSTGGVK(ac)KPHR ddPTM_HeLa_SAHA_4h_R1 2 KSAPSTGGVKKPHR 14 3 K7EK07;P84243;K7EMV3;K7EP01;A0A590UJJ6;B4DEB1;K7ES00 K7EK07 H3F3B;H3F3A Histone H3;Histone H3.3 0 2 ; K(1)SAPSTGGVK(0.5)K(0.5)PHR;K(1)SAPSTGGVK(0.5)K(0.5)PHR 55.98 0.017667 9369100 2017.38 1374.24 1229.72 3704.9 4058.6 6068.4 4985.9 4674.7 1355.62 1462.05 FALSE TRUE FALSE 2229.577284 1418.766278 1397.299837 3776.613697 3747.630945 5551.33818 4424.87341 4555.127943 1346.18613 1525.086131 1.461935323 0.930286001 0.916210442 2.476328137 2.457324127 3.640016173 2.901392466 2.986800451 0.882695149 1 10.57467501 -6.004306447 2.063869264 1.175979173 3.08092062 0.885162928 0.33472838 0.077827076 0.661527915 0.051708399 0.100637873 9.90E-07 6.004306447 1.904941448 up LFIGGLNTETNEK ddPTM_HeLa_SAHA_4h_R1 2 LFIGGLNTETNEK 13 0 P38159;P38159-2;H0Y6E7;H3BT71;H3BR27;P38159-3;H3BNC1;Q96E39;A0A1B0GUK8 P38159;Q96E39 RBMX;RBMXL1 "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed;RNA binding motif protein, X-linked-like-1" 0 0 ; ; 249.83 6.21E-69 3766400 988.13 1121.93 943.42 1101.76 1401.08 1102.33 1254.94 1340.01 1373.11 1228.34 FALSE FALSE TRUE 1092.066047 1158.281268 1071.984364 1123.086158 1293.729553 1008.405282 1113.730848 1305.734485 1363.554416 1281.299749 0.852311138 0.903989304 0.836638238 0.876521016 1.009700934 0.787017467 0.869219595 1.019070273 1.064196272 1 10.32339231 -9.410536648 1.102872609 1.000849176 0.888282294 0.34447954 0.071944186 0.533732445 1.147168576 0.046753859 0.011490425 3.89E-10 9.410536648 -0.112566882 LFIGGLSFETTEESLR ddPTM_HeLa_SAHA_4h_R1 1 LFIGGLSFETTEESLR 16 0 P22626;P22626-2;A0A087WUI2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 0 0 352.15 1.38E-158 8013200 283.75 461.19 404.69 513.34 338.81 426.45 521.29 373.36 670.77 340.23 FALSE FALSE TRUE 313.5961269 476.1328586 459.8390457 523.276438 312.850451 390.1140609 462.6330772 363.8099918 666.102057 354.8989803 0.883620817 1.341601089 1.29568996 1.474437705 0.881519723 1.099225646 1.303562712 1.025108586 1.876877911 1 8.471264619 -7.271962228 24.78058698 0.94504316 1.20453354 0 0.336523703 513.1859517 1208515.584 0.028041217 0.032245979 5.35E-08 7.271962228 0.259490381 LFPADT(ph)SPSTATK ddPTM_HeLa_SAHA_4h_R1 2 LFPADTSPSTATK 13 0 Q6NZY4-2;Q6NZY4 Q6NZY4-2 ZCCHC8 Zinc finger CCHC domain-containing protein 8 1 0 LFPADT(0.483)S(0.483)PS(0.034)T(0.001)ATK;LFPADT(0.499)S(0.499)PS(0.002)TATK ; 147.73 0.00035791 43993000 4521.9 4522.8 4220.1 4542.6 5025.8 5000.5 4526.8 4981 4670.7 4275.9 TRUE FALSE FALSE 4997.534189 4669.341688 4795.193251 4630.528592 4640.72429 4574.429268 4017.43255 4853.593232 4638.196218 4460.254975 1.120459305 1.046877749 1.075093975 1.038175759 1.040461659 1.025598154 0.900718137 1.088187393 1.039894859 1 12.12291047 -5.152411921 3.282996474 1.05658022 0.989520117 0.148045826 0.051577248 0.319495931 6.459837195 0.008237978 0.023442767 7.04E-06 5.152411921 -0.067060103 LFPADTS(ph)PSTATK ddPTM_HeLa_SAHA_4h_R1 2 LFPADTSPSTATK 13 0 Q6NZY4-2;Q6NZY4 Q6NZY4-2 ZCCHC8 Zinc finger CCHC domain-containing protein 8 1 0 LFPADT(0.197)S(0.679)PS(0.062)T(0.062)ATK;LFPADT(0.368)S(0.629)PS(0.002)TATK ; 198.48 9.86E-11 41627000 5506.5 4926.1 4663.8 5066.1 5433.5 5458.4 5642.7 5239.4 5233.6 4998.6 TRUE FALSE FALSE 6085.698935 5085.708872 5299.358376 5164.161691 5017.186404 4993.313612 5007.768545 5105.383735 5197.178951 5214.114109 1.167158756 0.975373528 1.016348754 0.990419769 0.9622318 0.957653306 0.960425576 0.979146913 0.996752055 1 12.34820644 -7.216408635 24.15626736 1.078936085 0.977379884 0.3153755 0.048342707 238.6204033 128005.3867 0.010488946 0.012846233 6.08E-08 7.216408635 -0.101556201 LFPDT(ph)PLALDANK ddPTM_HeLa_SAHA_4h_R1 3 LFPDTPLALDANK 13 0 Q12906;Q12906-7;Q12906-5;Q12906-4;Q12906-2;Q12906-6;Q12906-3 Q12906 ILF3 Interleukin enhancer-binding factor 3 1 0 LFPDT(1)PLALDANK;LFPDT(1)PLALDANK;LFPDT(1)PLALDANK ;; 181.75 8.24E-06 239645210 7655.02 8237.7 7191.72 7698.81 9476.3 9787.3 9236 7649.5 8533.7 7844.6 TRUE FALSE FALSE 8460.210126 8504.606885 8171.770149 7847.8316 8750.227941 8953.366978 8196.740972 7453.836866 8474.313287 8182.819097 1.033899201 1.039324808 0.998649738 0.959062092 1.069341487 1.094166555 1.001701354 0.91091307 1.03562271 1 12.99838224 -4.292723535 4.282391298 1.021402312 0.905366967 0.475501732 0.036371173 0.135687417 5.388200538 0.00519305 0.044362569 5.10E-05 4.292723535 -0.116035345 LFPDTPLALDANK ddPTM_HeLa_SAHA_4h_R1 2 LFPDTPLALDANK 13 0 Q12906;Q12906-7;Q12906-5;Q12906-4;Q12906-2;Q12906-6;Q12906-3 Q12906 ILF3 Interleukin enhancer-binding factor 3 0 0 ; ; 152.54 0.000409 210680 199.17 196.94 158.38 256.003 106.37 267.94 230.094 75.082 0 188.14 FALSE FALSE TRUE 220.1196144 203.3209852 179.9632016 260.9583083 98.21995358 245.1100046 204.2032175 73.16151116 0 196.2516361 1.121619258 1.036021861 0.917002299 1.329712778 0.500479667 1.248957764 1.040517274 0.372794401 0 1 7.616560871 -4.261445011 14.98412144 1.040659199 0.372716484 0.065939367 0.390541419 0.028915975 2885.467398 0.025614142 0.196797656 5.48E-05 4.261445011 -0.667942715 LFPEFDDS(ph)DYDEVPEEGPGAPAR ddPTM_HeLa_SAHA_4h_R1 2 LFPEFDDSDYDEVPEEGPGAPAR 23 0 Q96P48-3;Q96P48 Q96P48-3 ARAP1 "Arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1" 1 0 LFPEFDDS(0.999)DY(0.001)DEVPEEGPGAPAR;LFPEFDDS(0.998)DY(0.002)DEVPEEGPGAPAR ; 117.82 1.06E-05 1807100 482.24 640.73 514.56 472.47 585.13 695.88 916.65 765.99 761.07 525.68 TRUE FALSE FALSE 532.9642158 661.4900724 584.6815571 481.6153401 540.2974658 636.5871091 813.5061295 746.3970849 755.7736519 548.3446374 0.971951177 1.206340005 1.066266573 0.878307742 0.98532461 1.160925202 1.48356722 1.361182428 1.378282198 1 9.098939109 -4.946957745 3.399824341 1.001986572 1.421589084 0.427649248 0.146192675 0.075239479 1.773795603 0.012331647 0.041295451 1.13E-05 4.946957745 0.419602512 LFPLIQAMHPTLAGK ddPTM_HeLa_SAHA_4h_R1 2 LFPLIQAMHPTLAGK 15 0 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;Q9H361;H0YAS6;H0YB75 P11940 PABPC1;PABPC3 Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 3 0 0 ; ; 124.47 0.0001966 2872500 375 3336.2 463.68 563.92 1507.39 1508.88 4409.7 2322.3 1089.8 953.03 FALSE FALSE TRUE 414.4442206 3444.295069 526.8678957 574.835487 1391.894104 1380.314935 3913.50895 2262.898929 1082.215993 994.1197873 0.416895656 3.464668054 0.529984316 0.578235636 1.400127149 1.38847949 3.936657333 2.276283962 1.088617294 1 9.957275891 LFPLIQTMHSNLAGK ddPTM_HeLa_SAHA_4h_R1 1 LFPLIQTMHSNLAGK 15 0 B1ANR0;Q13310-2;Q13310;Q13310-3;H0Y5F5;H0Y6X6 B1ANR0 PABPC4 Polyadenylate-binding protein;Polyadenylate-binding protein 4 0 0 255.08 3.43E-70 3673900 1655.5 1717.3 1428.3 1598.3 1649.3 1002.9 2068.6 860.76 1269.4 1526.4 FALSE FALSE TRUE 1829.633086 1772.941647 1622.941286 1629.237408 1522.93099 917.4472778 1835.835684 838.7430056 1260.566142 1592.210574 1.14911502 1.113509529 1.019300658 1.023254985 0.956488429 0.576209763 1.153010609 0.526778944 0.791708184 1 10.63681543 -5.532726851 4.123480783 1.067325408 0.787071808 0.258659891 0.18477952 0.155129051 6.139060543 0.021733457 0.047119885 2.93E-06 5.532726851 -0.2802536 LFQCLLHR ddPTM_HeLa_SAHA_4h_R1 2 LFQCLLHR 8 0 P13010 P13010 XRCC5 X-ray repair cross-complementing protein 5 0 0 ; ; 153.73 1.40E-07 1548030 1100.5 1021.08 3580.4 1948.04 1846.28 234.83 2374.7 0 99.884 359.85 FALSE FALSE TRUE 1216.255639 1054.163662 4068.318266 1985.747131 1704.818425 214.8211629 2107.492506 0 99.18889911 375.3648946 3.240195492 2.808370408 10.83830248 5.290178064 4.541763095 0.572299557 5.614516799 0 0.264246605 1 8.55214992 -8.159902862 1.019202505 1.421073197 4.336316784 0.181732063 2.869539711 0.629023798 1.371939747 0.83685034 0.608487677 6.92E-09 8.159902862 2.915243587 LFQECCPHSTDR ddPTM_HeLa_SAHA_4h_R1 1 LFQECCPHSTDR 12 0 P61978;P61978-2;P61978-3;Q5T6W2 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 119.21 0.0017166 8418900 1112.1 1492.2 788.33 1346.6 2134.1 2419.5 1624.6 1711.9 1592.4 1619.5 FALSE FALSE TRUE 1229.07578 1540.548259 895.759507 1372.66539 1970.585719 2213.344988 1441.795732 1668.112077 1581.318359 1689.324571 0.727554552 0.911931482 0.530247131 0.812552788 1.166493256 1.310195226 0.853474671 0.98744321 0.936065447 1 10.72223083 -5.77030765 24.85723787 0.839632375 1.079749217 0.371639197 0.164197674 173.2219913 485532.1978 0.026934371 0.049353049 1.70E-06 5.77030765 0.240116842 LFQSDTNAMLGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 LFQSDTNAMLGKK 13 1 F8VTR4;F8W0J4;F8W1B9;O95619 F8VTR4 YEATS4 YEATS domain-containing protein 4 0 1 ; LFQSDTNAMLGK(1)K;LFQSDTNAMLGK(1)K 215.72 4.46E-33 2009400 509.01 498.23 588.6 423.77 412.9 572.8 732.7 424.9 617.25 478.2 FALSE TRUE FALSE 562.5500072 514.3729789 668.8113427 431.9726811 381.2636912 523.9942175 650.2546676 414.0316732 612.954507 498.8175423 1.127767088 1.031184622 1.340793549 0.865993363 0.76433497 1.050472714 1.303592221 0.830026289 1.228815058 1 8.962368392 LFRPPS(ph)PAPAAPGAR ddPTM_HeLa_SAHA_4h_R1 3 LFRPPSPAPAAPGAR 15 1 Q86U90 Q86U90 YRDC "YrdC domain-containing protein, mitochondrial" 1 0 LFRPPS(1)PAPAAPGAR;LFRPPS(1)PAPAAPGAR;LFRPPS(1)PAPAAPGAR ;; 100.58 0.0025358 173370000 15795.6 15420.9 13318.8 14708.6 16302.4 16921.6 16317.5 16199.8 16559.5 16006.8 TRUE FALSE FALSE 17457.05368 15920.54728 15133.8167 14993.30622 15053.31363 15479.78448 14481.41195 15785.43257 16444.26109 16696.93148 1.045524664 0.953501384 0.906383111 0.897967764 0.901561682 0.927103552 0.867309779 0.945409196 0.984867256 1 14.02729537 -7.028067735 3.356402927 1.021332778 0.906366235 0.771834011 0.024680555 0.067891835 1.5793985 0.004024409 0.005147365 9.37E-08 7.028067735 -0.114966543 LFSLS(ph)NPSLSTTNLSGPSR ddPTM_HeLa_SAHA_4h_R1 2 LFSLSNPSLSTTNLSGPSR 19 0 Q6UUV7;Q6UUV7-3 Q6UUV7 CRTC3 CREB-regulated transcription coactivator 3 1 0 LFS(0.188)LS(0.762)NPS(0.016)LS(0.034)TTNLSGPSR;LFS(0.001)LS(0.997)NPS(0.001)LSTTNLSGPSR ; 168.08 1.24E-06 17691300 2421.54 2047.92 2149.99 2157.14 2520.78 2051.06 2184.68 1621.37 2423.4 2283.83 TRUE FALSE FALSE 2676.248688 2114.273952 2442.979441 2198.894564 2327.638381 1876.298149 1938.854057 1579.897703 2406.535362 2382.297088 1.123389984 0.887493824 1.025472202 0.92301442 0.977056301 0.787600404 0.813859055 0.663182485 1.010174329 1 11.21813762 -4.627509747 0.516454542 1.052076709 0.515486647 0.745974634 0.064953206 1.07238197 0.242802002 0.015062063 0.322207979 2.36E-05 4.627509747 -0.536590062 LFT(ph)VQFS(ph)SAYSEIERY(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 LFTVQFSSAYSEIERYPR 18 1 K7EMN7 K7EMN7 AP2B1 3 0 LFT(0.989)VQFS(0.986)S(0.025)AYS(0.001)EIERY(0.999)PR;LFT(0.99)VQFS(0.971)S(0.036)AY(0.003)S(0.003)EIERY(0.996)PR;LFT(0.989)VQFS(0.973)S(0.035)AY(0.006)S(0.006)EIERY(0.99)PR ;; 65.477 0.0068444 23621000 2991.79 3140.76 2503.14 2682.39 3012.01 361.295 2933.2 3382.78 2346.22 2695.35 TRUE FALSE FALSE 3306.480199 3242.522685 2844.254883 2734.311537 2781.230445 330.5106334 2603.148616 3296.253386 2329.892464 2811.559729 1.176030573 1.153282518 1.011628831 0.972524791 0.989212648 0.117554192 0.925873489 1.172393157 0.828683254 1 11.45715498 -5.502984417 24.90975834 1.074150184 0.723341914 0.175052781 0.265758399 718.5972779 899757.4816 0.035699737 0.078823698 3.14E-06 5.502984417 -0.35080827 LFVDTDADTR ddPTM_HeLa_SAHA_4h_R1 1 LFVDTDADTR 10 0 A0A2R8Y653;Q9BZX2-2;Q9BZX2 A0A2R8Y653 UCK2 Uridine-cytidine kinase 2 0 0 134.05 0.0084486 2880600 1782.4 1678.8 1614.2 1262.8 1707.1 1432.7 1854.4 1455.1 1452.9 1520 FALSE FALSE TRUE 1969.88101 1733.194222 1834.17477 1287.24332 1576.302367 1310.6259 1645.738031 1417.880649 1442.789151 1585.534639 1.242408057 1.093129207 1.156817849 0.811867044 0.994177187 0.826614486 1.037970405 0.894260279 0.909970123 1 10.63075368 -6.274217271 24.73743177 1.118325354 0.919635014 0.352206842 0.107422659 456.4999033 883762.368 0.016247153 0.024918652 5.32E-07 6.274217271 -0.19869034 LFVGNLPADITEDEFKR ddPTM_HeLa_SAHA_4h_R1 1 LFVGNLPADITEDEFKR 17 1 P23246;P23246-2 P23246 SFPQ "Splicing factor, proline- and glutamine-rich" 0 0 127.2 1.07E-05 1291000 615.94 469.52 520.11 656.43 616.13 489.46 635.48 416.62 454.42 567.15 FALSE FALSE TRUE 680.7273952 484.7327561 590.9878822 669.1361519 568.9222525 447.7552544 563.9741179 405.9634637 451.2576542 591.6026121 1.150649746 0.819355334 0.998960907 1.131056791 0.961662848 0.756851382 0.953298898 0.686209721 0.762771572 1 9.208484612 -4.314514675 0.521912051 1.058968407 0.524398587 0.096385537 0.143945857 2.618071225 0.493970572 0.023696253 0.842120848 4.85E-05 4.314514675 -0.534569821 LFVGSIPK ddPTM_HeLa_SAHA_4h_R1 2 LFVGSIPK 8 0 O43390;B4DT28;O43390-4;O43390-3;O43390-2;O60506-2;O60506;O60506-4;O60506-3;B7Z645;O60506-5 O43390;O60506-2 HNRNPR;SYNCRIP Heterogeneous nuclear ribonucleoprotein R;Heterogeneous nuclear ribonucleoprotein Q 0 0 ; ; 111.82 0.0068764 6045400 8029.5 6780.8 5802.6 7979.8 7986.4 8056.1 8027 7664.5 7058.1 7547.4 FALSE FALSE TRUE 8874.079651 7000.502369 6593.348109 8134.260568 7374.483757 7369.674958 7123.780834 7468.453188 7008.982107 7872.80535 1.127181387 0.889200489 0.837483948 1.033209918 0.936703428 0.936092616 0.904859261 0.94863938 0.890277582 1 12.94266209 -7.253694032 24.99612187 1.060057877 0.927189087 0.068913464 0.076679179 376.7208403 1215770.805 0.010873431 0.013182081 5.58E-08 7.253694032 -0.132868791 LFVT(ph)PPEGSSR ddPTM_HeLa_SAHA_4h_R1 3 LFVTPPEGSSR 11 0 A0A087WZ40;Q14244-5;Q14244-3;Q14244-6;Q14244;Q14244-7;Q14244-2;Q14244-4 A0A087WZ40 MAP7 Ensconsin 1 0 LFVT(1)PPEGSSR;LFVT(0.991)PPEGS(0.008)S(0.001)R;LFVT(0.746)PPEGS(0.224)S(0.03)R ;; 128.57 0.0025697 82930800 7591.1 6903.7 7269.8 8586 9392.1 10442.2 8474.2 8676.6 9415.8 8206.2 TRUE FALSE FALSE 8389.566727 7127.38441 8260.490485 8752.194446 8672.479327 9552.465814 7520.660713 8454.665136 9350.274681 8560.009442 0.98008849 0.832637447 0.965009506 1.022451494 1.013138991 1.115941037 0.87858089 0.987693436 1.092320604 1 13.06339667 -6.274480183 23.32134769 0.97425389 1.003393249 0.03311445 0.079829281 1014.497262 1814261.306 0.011193758 0.017170916 5.32E-07 6.274480183 0.029139359 LFVTNDAATILR ddPTM_HeLa_SAHA_4h_R1 2 LFVTNDAATILR 12 0 P50990-2;P50990;H7C4C8 P50990-2 CCT8 T-complex protein 1 subunit theta 0 0 ; ; 163.9 4.28E-07 2089500 791.65 679.75 824.52 792.56 1029.78 612.62 990.63 655.01 539.39 781.94 FALSE FALSE TRUE 874.9193792 701.774346 936.8812917 807.9011449 950.8784789 560.4213295 879.1617052 638.2557926 535.6363411 815.6532601 1.072660923 0.86038318 1.14862692 0.99049582 1.165787627 0.687082805 1.077862062 0.782508725 0.656696132 1 9.671812173 -5.273388116 24.99808868 1.03467852 0.87202227 0.063520231 0.171057328 648.6516119 1357051.623 0.015518268 0.034958034 5.33E-06 5.273388116 -0.162656249 LFVTPPEGS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 LFVTPPEGSSR 11 0 A0A087WZ40;Q14244-5;Q14244-3;Q14244-6;Q14244;Q14244-7;Q14244-2;Q14244-4 A0A087WZ40 MAP7 Ensconsin 1 0 LFVT(0.114)PPEGS(0.863)S(0.023)R 93.143 0.01294 9113900 2146.5 2299.7 2126 2162.4 2681.3 2968.6 2445.4 2565.7 2879.8 2035.4 TRUE FALSE FALSE 2372.278718 2374.211789 2415.720208 2204.256379 2475.859373 2715.658579 2170.237156 2500.073109 2859.759237 2123.156055 1.117336012 1.118246482 1.13779682 1.038198004 1.166122183 1.279066874 1.022175054 1.177526778 1.346937843 1 11.0519947 -9.96828664 0.284179651 0.8939665 1.150214457 0 0.128768465 5.330747452 0.406754476 0.467077658 0.039450855 1.08E-10 9.96828664 0.256247957 LFYADHPFIFLVR ddPTM_HeLa_SAHA_4h_R1 1 LFYADHPFIFLVR 13 0 P50454;E9PKH2;H0YEP8 P50454 SERPINH1 Serpin H1 0 0 90.434 0.0095384 2914500 1044.8 862.81 1504.4 1602.5 1689.8 101.48 1819.8 0 145.9 771.82 FALSE FALSE TRUE 1154.696858 890.7656101 1709.411797 1633.518705 1560.327889 92.83333309 1615.031315 0 144.88467 805.0969374 1.434233325 1.106407898 2.123237238 2.028971455 1.938062135 0.115307025 2.006008518 0 0.179959286 1 9.653018691 -5.272155122 24.99704989 1.378170227 0.836995473 0.147563396 0.744033174 1093.155752 2550049.184 0.0912025 0.205858748 5.34E-06 5.272155122 -0.541174753 LGADES(ph)EEEGR ddPTM_HeLa_SAHA_4h_R1 1 LGADESEEEGR 11 0 O43847;O43847-2;F5H7V1 O43847 NRD1 Nardilysin 1 0 LGADES(1)EEEGR 128.36 0.0014852 7397300 718.42 884.93 572.11 1004.1 958.37 1008.4 839.68 878.21 1064.5 905.8 TRUE FALSE FALSE 793.9867118 913.6023126 650.0741714 1023.535807 884.9398976 922.4786469 745.1969965 855.7466598 1057.092058 944.8534709 0.840327878 0.966924863 0.688015858 1.083274644 0.936589561 0.976319266 0.788690542 0.905692455 1.118789411 1 9.883946801 -9.529131579 1.28468971 1.000051562 0.892808883 0.212730707 0.110373525 0.735023582 2.170425316 0.068666522 0.016386117 2.96E-10 9.529131579 -0.107242679 LGADESEEEGRRGS(ph)LSNAGDPEIVK ddPTM_HeLa_SAHA_4h_R1 1 LGADESEEEGRRGSLSNAGDPEIVK 25 2 O43847;O43847-2;F5H7V1 O43847 NRD1 Nardilysin 1 0 LGADES(0.168)EEEGRRGS(0.596)LS(0.236)NAGDPEIVK 41.16 0.020503 24796000 2289.3 1610.8 2061.1 1751.9 1969.6 1831.8 1989 2314 1061.2 1763.7 TRUE FALSE FALSE 2530.099078 1662.990977 2341.975974 1785.810558 1818.689674 1675.720335 1765.192485 2254.811231 1053.815023 1839.741738 1.375246876 0.903926319 1.272991706 0.970685461 0.988557054 0.910845419 0.959478414 1.225612913 0.572805955 1 10.84528754 -6.242215619 24.04963311 1.163389188 1.001356578 0 0.236863563 710.0377241 888282.5083 0.026238528 0.04346018 5.73E-07 6.242215619 -0.16203261 LGAGEGGEAS(ph)VSPEK ddPTM_HeLa_SAHA_4h_R1 1 LGAGEGGEASVSPEK 15 0 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 LGAGEGGEAS(0.877)VS(0.123)PEK 112.62 0.0017118 7758400 1240.3 1545.8 1090.9 1216.4 1343.8 2128.6 1296.2 1488.6 2088.2 1332.3 TRUE FALSE FALSE 1370.760445 1595.884934 1239.562171 1239.945181 1240.838334 1947.231305 1150.348165 1450.523767 2073.668046 1389.741973 0.986341689 1.148331824 0.891936917 0.892212515 0.892855191 1.401145927 0.827742262 1.043736028 1.4921245 1 10.44060133 LGAGEGGEAS(ph)VSPEKTSTTSK ddPTM_HeLa_SAHA_4h_R1 1 LGAGEGGEASVSPEKTSTTSK 21 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 LGAGEGGEAS(0.829)VS(0.166)PEKT(0.004)S(0.001)TTSK 138.25 3.85E-06 337650000 4285.9 4631.3 4172.8 4828.7 4849 5313.8 4925.8 4560.2 4537 3880.7 TRUE FALSE FALSE 4736.710626 4781.357159 4741.447453 4922.166471 4477.470668 4861.034345 4371.53602 4443.556687 4505.426648 4048.015969 1.170131408 1.181160647 1.171301568 1.215945418 1.106090169 1.200843668 1.079920646 1.097712243 1.112996263 1 11.98299927 -9.196128672 0.883554414 0.997636707 1.154424924 0.246003887 0.054587556 0.308117423 0.423253571 0.031678217 0.008428781 6.37E-10 9.196128672 0.156788216 LGAGEGGEASVS(ph)PEK ddPTM_HeLa_SAHA_4h_R1 6 LGAGEGGEASVSPEK 15 0 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 LGAGEGGEAS(0.314)VS(0.686)PEK;LGAGEGGEAS(0.001)VS(0.999)PEK;LGAGEGGEAS(0.063)VS(0.937)PEK;LGAGEGGEAS(0.006)VS(0.994)PEK;LGAGEGGEAS(0.003)VS(0.997)PEK;LGAGEGGEASVS(1)PEK ;;;;; 228.76 1.07E-24 543659100 12174.44 16477.05 10967.06 13287.99 15470.62 17802.09 14649.94 13106.05 22353.77 13938.25 TRUE FALSE FALSE 13455.00346 17010.91723 12461.59382 13545.19826 14285.26444 16285.25178 13001.49019 12770.81622 22198.20829 14539.19617 0.925429666 1.170003969 0.857103355 0.931633228 0.982534679 1.120092995 0.894237208 0.878371546 1.526783739 1 13.82765989 LGAGEGGEASVS(ph)PEKTSTTSK ddPTM_HeLa_SAHA_4h_R1 3 LGAGEGGEASVSPEKTSTTSK 21 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 LGAGEGGEASVS(0.996)PEKT(0.003)S(0.001)TTSK;LGAGEGGEAS(0.033)VS(0.967)PEKTSTTSK;LGAGEGGEAS(0.001)VS(0.886)PEKT(0.082)S(0.024)T(0.007)T(0.001)SK ;; 139.04 3.65E-06 548766300 6675.36 5621.08 5798.78 5933.5 6990.39 6987.08 7066.73 6626.69 6375.28 6548.4 TRUE FALSE FALSE 7377.504992 5803.20668 6589.00754 6048.351472 6454.787828 6391.741476 6271.562942 6457.188865 6330.913907 6830.733571 1.080045784 0.849572981 0.964611995 0.885461482 0.944962611 0.935732804 0.918139008 0.945314116 0.92682782 1 12.73782481 -7.270840161 24.99481212 1.037799398 0.922318956 0.288676939 0.050205894 293.1306871 779374.7741 0.006799316 0.00782874 5.36E-08 7.270840161 -0.115480442 LGAGEGGEASVSPEKT(ph)STTSK ddPTM_HeLa_SAHA_4h_R1 1 LGAGEGGEASVSPEKTSTTSK 21 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 LGAGEGGEAS(0.019)VS(0.281)PEKT(0.505)S(0.141)T(0.04)T(0.011)S(0.003)K 95.954 0.00040001 177450000 2360.8 2343.9 2269.2 2406 2273.7 2286.5 2689.9 2646.9 2190.2 2378.2 TRUE FALSE FALSE 2609.119776 2419.843898 2578.434759 2452.571609 2099.489597 2091.677337 2387.225373 2579.196131 2174.95822 2480.735841 1.05175236 0.97545408 1.03938304 0.988646824 0.846317275 0.843168104 0.96230535 1.039689953 0.876739145 1 11.2765524 -5.986161731 23.47025254 1.021294303 0.919679912 0.087869142 0.072222804 87.46937133 148349.2016 0.008615273 0.015609199 1.03E-06 5.986161731 -0.101614391 LGAGGGS(ph)PEK ddPTM_HeLa_SAHA_4h_R1 1 LGAGGGSPEK 10 0 H3BS86;Q9UNE7 H3BS86 STUB1 E3 ubiquitin-protein ligase CHIP 1 0 LGAGGGS(1)PEK 91.937 0.016695 42483000 2920 3956.4 2053.6 3653.4 3907 5156.3 3871.2 3870.1 5641.1 4473.7 TRUE FALSE FALSE 3227.138997 4084.589956 2333.453913 3724.11684 3607.646504 4716.954231 3435.602388 3771.108446 5601.843126 4666.583101 0.691542169 0.87528495 0.500034793 0.798039328 0.773080952 1.010794007 0.736213695 0.808109138 1.200416451 1 12.18815087 -9.4200136 1.108489758 1.00199327 0.768468392 0.423877431 0.140277416 0.478820711 1.037811196 0.08756441 0.021325954 3.80E-10 9.4200136 -0.233524878 LGAGGGS(ph)PEKSPSAQELK ddPTM_HeLa_SAHA_4h_R1 5 LGAGGGSPEKSPSAQELK 18 1 H3BS86;Q9UNE7 H3BS86 STUB1 E3 ubiquitin-protein ligase CHIP 1 0 LGAGGGS(0.976)PEKS(0.002)PS(0.022)AQELK;LGAGGGS(0.504)PEKS(0.462)PS(0.034)AQELK;LGAGGGS(0.998)PEKS(0.001)PS(0.001)AQELK;LGAGGGS(0.969)PEKS(0.027)PS(0.004)AQELK;LGAGGGS(0.923)PEKS(0.034)PS(0.043)AQELK ;;;; 158.17 3.47E-05 98986200 10290.35 10716.1 9640.33 10814.55 10892 12062.3 11592.32 11179.35 12666.31 10977.25 TRUE FALSE FALSE 11372.73623 11063.30867 10954.06397 11023.88125 10057.45731 11034.52418 10287.92164 10893.39841 12578.16412 11450.53297 0.993205841 0.966182858 0.95664228 0.962739576 0.878339667 0.963669046 0.898466619 0.951344225 1.098478486 1 13.48312713 -6.676062356 0.981309382 0.998037679 0.925123699 0.492040547 0.0403184 0.222079155 0.427324261 0.004306498 0.007085147 2.11E-07 6.676062356 -0.07291398 LGAGGGSPEKS(ph)PSAQELK ddPTM_HeLa_SAHA_4h_R1 2 LGAGGGSPEKSPSAQELK 18 1 H3BS86;Q9UNE7 H3BS86 STUB1 E3 ubiquitin-protein ligase CHIP 1 0 LGAGGGS(0.097)PEKS(0.558)PS(0.345)AQELK;LGAGGGS(0.015)PEKS(0.852)PS(0.133)AQELK ; 80.387 0.0039186 368580000 3503.3 4071 2819.7 3907.3 3999.4 4135.3 3921.9 3265.1 3980.5 3569.5 TRUE FALSE FALSE 3871.793168 4202.903071 3203.954032 3982.931442 3692.966836 3782.949175 3480.59749 3181.58347 3952.799376 3723.398614 1.039854598 1.128781392 0.860491815 1.069703208 0.991826882 1.015993604 0.934790457 0.854483712 1.061610584 1 11.86240436 -4.437809541 1.762243954 1.018123697 0.828374446 0.397335474 0.065808195 0.456301882 1.824438356 0.008492202 0.127990225 3.65E-05 4.437809541 -0.189749251 LGAGGGSPEKSPS(ph)AQELK ddPTM_HeLa_SAHA_4h_R1 2 LGAGGGSPEKSPSAQELK 18 1 H3BS86;Q9UNE7 H3BS86 STUB1 E3 ubiquitin-protein ligase CHIP 1 0 LGAGGGS(0.001)PEKS(0.186)PS(0.814)AQELK;LGAGGGSPEKS(0.021)PS(0.979)AQELK ; 173.04 3.28E-08 10958500 2135.48 2210.55 2069.19 2494.7 2742.6 3121.5 2975.8 3293.4 2886.9 2869.5 TRUE FALSE FALSE 2360.099584 2282.17327 2351.168437 2542.988526 2532.462581 2855.530639 2640.955152 3209.159597 2866.809828 2993.218188 0.788482308 0.762448017 0.785498514 0.849583414 0.846066816 0.954000163 0.882312944 1.072143558 0.957768411 1 11.54748173 LGAPENSGIST(ph)LER ddPTM_HeLa_SAHA_4h_R1 4 LGAPENSGISTLER 14 0 A0A1B0GV68;C9JME2;Q9Y4F1;Q9Y4F1-2;M0QYB0;Q9Y4F1-3 A0A1B0GV68 FARP1 "FERM, RhoGEF and pleckstrin domain-containing protein 1" 1 0 LGAPENSGIS(0.004)T(0.996)LER;LGAPENSGIS(0.003)T(0.997)LER;LGAPENSGIS(0.002)T(0.998)LER;LGAPENS(0.001)GIS(0.016)T(0.983)LER ;;; 241.3 9.43E-33 110911000 8094.8 13799 12476.2 7165.2 11127 8914 14649.1 8873.8 6739.5 10430.4 TRUE FALSE FALSE 8946.248204 14246.09665 14176.39156 7303.892807 10274.45166 8154.477051 13000.74471 8646.821045 6692.599271 10880.10559 0.82225748 1.309371176 1.302964521 0.671307162 0.944333819 0.749485102 1.194909793 0.794736869 0.61512264 1 13.40940494 LGAQT(ph)PVGVSTLEPGQTLLPR ddPTM_HeLa_SAHA_4h_R1 1 LGAQTPVGVSTLEPGQTLLPR 21 0 O94887-3;O94887-2;O94887;C9JWM9;C9JVQ5 O94887-3 FARP2 "FERM, RhoGEF and pleckstrin domain-containing protein 2" 1 0 LGAQT(0.833)PVGVS(0.003)T(0.001)LEPGQT(0.162)LLPR 96.707 0.00058794 0 569.94 703.3 809.92 644.01 923.5 1063.7 914.99 982.33 652.37 744.36 TRUE FALSE FALSE 629.8889042 726.0873815 920.2916797 656.4757448 852.7416295 973.0667758 812.0329171 957.203421 647.8301041 776.4530024 0.811238932 0.935133716 1.185250977 0.845480335 1.09825273 1.253220443 1.045823655 1.232789902 0.834345546 1 9.600754793 -5.782425761 0.865942082 0.916594943 1.184075329 0.454256997 0.116736823 0.48173929 0.67322538 0.021709733 0.074166827 1.65E-06 5.782425761 0.267480386 LGASEAAAFDS(ph)DESEAVGATR ddPTM_HeLa_SAHA_4h_R1 4 LGASEAAAFDSDESEAVGATR 21 0 H0YBE8;H3BLZ3;Q8IX03;Q8IX03-2 H0YBE8 WWC1 Protein KIBRA 1 0 LGASEAAAFDS(0.99)DES(0.009)EAVGATR;LGASEAAAFDS(1)DESEAVGATR;LGASEAAAFDS(1)DESEAVGATR;LGASEAAAFDS(1)DESEAVGATR ;;; 271.2 1.14E-65 21606800 2276.84 2286.09 2150.59 2276.78 2883.96 2786.68 3032.66 2503.5 2528.97 2570.5 TRUE FALSE FALSE 2516.328478 2360.160816 2443.661205 2320.850369 2662.991608 2549.239187 2691.417115 2439.464095 2511.370692 2681.326835 0.938463915 0.880221234 0.911362678 0.865560416 0.993161883 0.950737953 1.003763167 0.909797367 0.93661491 1 11.38873137 -8.842437669 0.961429377 0.995951854 0.933301677 0.030091188 0.045619923 0.547335128 0.994805713 0.019979356 0.008483788 1.44E-09 8.842437669 -0.062650177 LGASNS(ph)PGQPNS(ph)VKR ddPTM_HeLa_SAHA_4h_R1 1 LGASNSPGQPNSVKR 15 1 P49756 P49756 RBM25 RNA-binding protein 25 2 0 LGAS(0.435)NS(0.565)PGQPNS(1)VKR 87.157 0.018786 3673500 1166.1 1159.5 1063.2 1161.6 1266.5 1334.9 1264.1 1035 1047.6 1153.3 TRUE FALSE FALSE 1288.755748 1197.068561 1208.087359 1184.084448 1169.461044 1221.15901 1121.860141 1008.526199 1040.309666 1203.024407 1.071263177 0.995049272 1.00420852 0.98425638 0.972100846 1.015074177 0.932533151 0.838325634 0.86474527 1 10.2324502 -2.83618106 0.574928648 1.02803434 3.35E-12 0.243186602 0.058332968 5.908026509 0.37950066 0.006308715 5.877570218 0.001458206 2.83618106 -1.02803434 LGASNS(ph)PGQPNSVK ddPTM_HeLa_SAHA_4h_R1 5 LGASNSPGQPNSVK 14 0 P49756 P49756 RBM25 RNA-binding protein 25 1 0 LGAS(0.114)NS(0.75)PGQPNS(0.136)VK;LGAS(0.14)NS(0.731)PGQPNS(0.129)VK;LGAS(0.01)NS(0.984)PGQPNS(0.006)VK;LGAS(0.029)NS(0.971)PGQPNSVK;LGAS(0.011)NS(0.989)PGQPNSVK ;;;; 213 3.52E-17 654651000 23066.9 22608 19826.9 22395.5 23607.8 23859.2 22803.2 21973 23964 20646.4 TRUE FALSE FALSE 25493.18238 23340.51403 22528.80668 22828.99729 21798.97546 21826.26193 20237.32392 21410.96248 23797.23257 21536.56735 1.18371614 1.083762034 1.046072307 1.060010954 1.012184306 1.013451289 0.939672678 0.994167832 1.104968688 1 14.3945007 -5.648678231 1.119335537 1.086865634 0.970196846 0.507120235 0.045675582 0.483612367 1.164426169 0.011445983 0.036685602 2.25E-06 5.648678231 -0.116668788 LGASNSPGQPNS(ph)VK ddPTM_HeLa_SAHA_4h_R1 1 LGASNSPGQPNSVK 14 0 P49756 P49756 RBM25 RNA-binding protein 25 1 0 LGASNS(0.284)PGQPNS(0.716)VK 167.92 5.00E-06 447370000 4586.5 4571.5 3585.2 4177.6 4586.2 5045.3 4206.4 4149.9 4419.2 3586.1 TRUE FALSE FALSE 5068.929114 4719.619599 4073.772385 4258.463489 4234.806347 4615.412056 3733.084801 4043.751567 4388.446427 3740.714321 1.355069829 1.261689398 1.089035953 1.138409171 1.13208494 1.233831739 0.997960411 1.081010529 1.173157331 1 11.86909808 -6.714371222 24.993988 1.179408446 1.114512916 0.138808564 0.100163046 349.3329054 185500.6359 0.023060544 0.032612486 1.93E-07 6.714371222 -0.06489553 LGDAS(ph)DTEAADGER ddPTM_HeLa_SAHA_4h_R1 1 LGDASDTEAADGER 14 0 J3KQR7;Q9Y4F5-3;Q9Y4F5-2;Q9Y4F5 J3KQR7 CEP170B Centrosomal protein of 170 kDa protein B 1 0 LGDAS(0.9)DT(0.1)EAADGER 134.37 0.00037167 15187000 972.89 914.61 706.26 1093.5 850.03 939.64 1171.3 1016 1100.6 868.07 TRUE FALSE FALSE 1075.223034 944.2439641 802.5054348 1114.666274 784.900885 859.5773857 1039.502241 990.0121912 1092.940835 905.4967459 1.187439976 1.042791118 0.886259877 1.230999756 0.866818007 0.949288211 1.14799114 1.093336001 1.207006916 1 9.822565646 -7.01938757 24.49707509 1.089913439 1.027009466 0.101031417 0.119777665 1463.032169 1848604.761 0.020147032 0.024890924 9.56E-08 7.01938757 -0.062903973 LGDASDT(ph)EAADGER ddPTM_HeLa_SAHA_4h_R1 1 LGDASDTEAADGER 14 0 J3KQR7;Q9Y4F5-3;Q9Y4F5-2;Q9Y4F5 J3KQR7 CEP170B Centrosomal protein of 170 kDa protein B 1 0 LGDAS(0.027)DT(0.973)EAADGER 212.55 6.40E-17 16991000 937.26 1010.7 737.27 873.1 1247.3 1008.7 896.15 800.73 1072.2 952.6 TRUE FALSE FALSE 1035.845307 1043.447343 837.7413161 890.000113 1151.732143 922.7530852 795.3128435 780.248486 1064.738473 993.6712479 1.042442668 1.050093122 0.843076941 0.895668577 1.159067595 0.928630155 0.800378239 0.785217936 1.071519856 1 9.956624811 -4.874851978 3.758299349 1.008650697 0.791100024 0.507546546 0.084017558 0.130165118 3.434941778 0.011529548 0.039436199 1.33E-05 4.874851978 -0.217550673 LGDDEDREPSLRPDDDRVPR ddPTM_HeLa_SAHA_4h_R1 2 LGDDEDREPSLRPDDDRVPR 20 3 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 ; ; 45.342 0.01466 7302300 2531 2374.5 2381.2 2904.2 2695.7 3156.2 2599.8 2036.79 3058.3 2559 FALSE FALSE TRUE 2797.222193 2451.435358 2705.697535 2960.414991 2489.156048 2887.274004 2307.263662 1984.691861 3037.017041 2669.331013 1.047911323 0.918370687 1.013623834 1.109047539 0.932501828 1.081647045 0.864360265 0.743516578 1.137744636 1 11.3822625 -4.554885408 3.814798944 1.017719181 0.760928233 0.652249647 0.068039909 0.076722211 2.323390364 0.007379295 0.036892801 2.79E-05 4.554885408 -0.256790947 LGDDNLCNTPHLPPCS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 1 LGDDNLCNTPHLPPCSPPK 19 0 J3KTI7;J3QR52;J3QLN7;Q99741 J3KTI7 CDC6 Cell division control protein 6 homolog 1 0 LGDDNLCNTPHLPPCS(1)PPK 88.565 0.0021079 0 641.18 909.09 602.87 660.59 928.05 1121.9 878.12 790.45 970.56 731.05 TRUE FALSE FALSE 708.6222542 938.5451125 685.025984 673.3766747 856.9430095 1026.307808 779.3116265 770.2314336 963.8057939 762.5691432 0.929256397 1.230767231 0.898313274 0.883036877 1.123757783 1.345855412 1.021955364 1.010047994 1.263892989 1 9.574724344 -5.677573488 8.853234624 0.97698617 1.134742747 8.63E-05 0.15409228 0.299850231 28.65809403 0.01792994 0.03589191 2.10E-06 5.677573488 0.157756577 LGDELEMIR ddPTM_HeLa_SAHA_4h_R1 2 LGDELEMIR 9 0 Q9UMX3 Q9UMX3 BOK Bcl-2-related ovarian killer protein 0 0 ; ; 104.37 0.010426 8878900 1911.93 1651.65 3746.6 5510.5 4732.6 5151 3312 2159.4 3094.5 4740.2 FALSE FALSE TRUE 2113.03557 1705.164544 4257.167137 5617.163696 4369.98921 4712.105821 2939.325043 2104.165675 3072.965123 4944.57322 0.427344379 0.344855758 0.860977671 1.136025992 0.883795025 0.952985346 0.594454751 0.425550514 0.621482378 1 12.27163029 -9.677602862 1.565326647 0.998758421 0.67440309 0 0.271864534 0.599984511 2.663996222 0.19748149 0.044810377 2.10E-10 9.677602862 -0.324355331 LGDLYEEEMR ddPTM_HeLa_SAHA_4h_R1 6 LGDLYEEEMR 10 0 P08670;B0YJC4 P08670 VIM Vimentin 0 0 ;;;;; ;;;;; 209.21 5.29E-10 372687400 12045.05 12156.97 11491.48 11827.21 14706.8 14580.09 14094.63 11882.92 13927.65 12601.62 FALSE FALSE TRUE 13312.00362 12550.8638 13057.47905 12056.14275 13579.96816 13337.78431 12508.66514 11578.97211 13830.72635 13144.93751 1.01270954 0.954805894 0.993346605 0.917170032 1.03309492 1.014670804 0.951595634 0.880869316 1.052171328 1 13.68221966 -4.408879932 2.796074126 0.997517243 0.875778915 0.492538462 0.036381508 0.185075814 2.296206943 0.004482299 0.043026183 3.90E-05 4.408879932 -0.121738328 LGDSHDLQR ddPTM_HeLa_SAHA_4h_R1 2 LGDSHDLQR 9 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 ; ; 170.5 3.21E-05 12250500 9788.2 10059.4 10543.6 10532.1 11266.2 10105.3 11314.7 9647.4 9139.8 8761.1 FALSE FALSE TRUE 10817.76779 10385.33116 11980.4269 10735.96403 10402.98619 9244.271589 10041.54018 9400.633477 9076.195388 9138.833897 1.183714236 1.136395658 1.31093606 1.174763011 1.138327527 1.011537325 1.098776966 1.028646935 0.993145897 1 13.15779438 -5.273179255 23.82542386 1.119427265 1.051566062 0.155469625 0.088928027 791.21498 1605728.553 0.014863731 0.033517815 5.33E-06 5.273179255 -0.067861204 LGDSS(ph)LSR ddPTM_HeLa_SAHA_4h_R1 3 LGDSSLSR 8 0 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 1 0 LGDS(0.234)S(0.766)LSR;LGDS(0.042)S(0.955)LS(0.004)R;LGDS(0.02)S(0.98)LSR ;; 134.77 0.0014429 77965200 9627.9 10396 8910.1 10466.8 11116.8 12902.8 9309.1 10557.1 9908.5 9653.2 TRUE FALSE FALSE 10640.6067 10732.83722 10124.32203 10669.40005 10265.03319 11803.40885 8261.615568 10287.06467 9839.545942 10069.39669 1.056727331 1.06588682 1.00545468 1.059586823 1.01942882 1.172206162 0.820467782 1.021616784 0.977173334 1 13.29768963 -4.751241875 24.99988824 1.038198915 0.92104236 0.341892003 0.068090831 161.9263527 396965.3389 0.008237672 0.030124946 1.77E-05 4.751241875 -0.117156555 LGDVISIQPCPDVK ddPTM_HeLa_SAHA_4h_R1 2 LGDVISIQPCPDVK 14 0 P55072;C9JUP7;C9IZA5 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 ; ; 205.31 7.30E-24 2584410 1227.31 1470.56 1305.4 1498.35 1540.15 1677.56 1496.7 1312.12 1395.01 1355.22 FALSE FALSE TRUE 1356.404097 1518.207109 1483.293114 1527.352731 1422.14404 1534.62245 1328.287377 1278.55787 1385.302012 1413.650166 0.959504783 1.073962388 1.049264626 1.080431897 1.006008469 1.085574413 0.939615337 0.904437251 0.979946839 1 10.46520943 -2.315028992 13.98170481 0.998809791 0.52879339 0 0.060620098 0 0 0.008353709 0 0.0048414 2.315028992 -0.4700164 LGDVS(ph)PTQIDVSQFGSFK ddPTM_HeLa_SAHA_4h_R1 2 LGDVSPTQIDVSQFGSFK 18 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 LGDVS(0.999)PT(0.001)QIDVSQFGSFK;LGDVS(0.973)PT(0.027)QIDVSQFGSFK ; 211.06 5.05E-18 39668000 3126.78 5010.7 2791.06 4746.8 4050.1 5192.9 4186.6 3996.5 5877.9 3592.08 TRUE FALSE FALSE 3455.669067 5173.049968 3171.411122 4838.681178 3739.782213 4750.435706 3715.512749 3894.275317 5836.995215 3746.952148 0.922261329 1.38060209 0.846397551 1.291364551 0.998086462 1.267813283 0.991609341 1.039318135 1.557798174 1 11.87150184 LGDVTDADS(ph)EADENEQVSAV ddPTM_HeLa_SAHA_4h_R1 2 LGDVTDADSEADENEQVSAV 20 0 E9PCH4;Q8TEU7;Q8TEU7-4;A0A5F9ZHG7 E9PCH4 RAPGEF6 Rap guanine nucleotide exchange factor 6 1 0 LGDVTDADS(0.999)EADENEQVSAV;LGDVT(0.002)DADS(0.998)EADENEQVSAV ; 91.657 0.001184 12126100 3294 3561 3180.9 3377.9 3446.3 3803.6 4122.2 3549.6 3120 3887.4 TRUE FALSE FALSE 3640.478033 3676.378736 3614.376487 3443.284139 3182.245239 3479.511882 3658.359207 3458.806372 3098.287666 4055.004838 0.897774029 0.90662746 0.891337158 0.849144274 0.784769776 0.858078355 0.902183685 0.852972194 0.764065097 1 11.98548792 -8.563312641 0.386195705 1.021046478 0.848568796 0 0.079143196 0.628517989 0.184259421 0.045110252 0.014636267 2.73E-09 8.563312641 -0.172477682 LGDVYVNDAFGTAHR ddPTM_HeLa_SAHA_4h_R1 3 LGDVYVNDAFGTAHR 15 0 P00558;P00558-2;P07205 P00558;P07205 PGK1;PGK2 Phosphoglycerate kinase 1;Phosphoglycerate kinase 2 0 0 ;; ;; 236.12 2.31E-56 13065200 6830.1 6022.5 5895.2 6819.9 7413 7552.6 7048.6 6066.2 7107.7 7194 FALSE FALSE TRUE 7548.521256 6217.632952 6698.567155 6951.909026 6845.017542 6909.07599 6255.472977 5911.035388 7058.236937 7504.168547 1.005910409 0.82855721 0.892646149 0.926406301 0.91216202 0.920698402 0.833599744 0.787700243 0.940575481 1 12.87347652 -1 0.157271015 1.040720428 0.133312669 0.412576168 0.052028817 31.68729308 0.317084055 0.099181419 6.663652683 0.1 1 -0.907407759 LGEAS(ph)DSELADADK ddPTM_HeLa_SAHA_4h_R1 3 LGEASDSELADADK 14 0 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 LGEAS(0.999)DS(0.001)ELADADK;LGEAS(0.959)DS(0.041)ELADADK;LGEAS(0.999)DS(0.001)ELADADK ;; 272.09 8.48E-56 75558000 4332.1 5412.3 4132 5634 5683.8 6217.3 5235.1 5445.1 8537.7 5126.4 TRUE FALSE FALSE 4787.770154 5587.662071 4695.087441 5743.054217 5248.308472 5687.551062 4646.03277 5305.822226 8478.285451 5347.424192 0.89534138 1.044925906 0.878009163 1.073985158 0.981464773 1.06360574 0.868835649 0.992220186 1.585489601 1 12.38462841 -7.267860593 24.95408553 0.950577876 0.983655393 0 0.212446457 1396.626849 5427547.33 0.012057213 0.013962134 5.40E-08 7.267860593 0.033077516 LGEASDS(ph)ELADADK ddPTM_HeLa_SAHA_4h_R1 1 LGEASDSELADADK 14 0 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 LGEAS(0.116)DS(0.884)ELADADK 231.58 2.03E-24 14819000 1004 1268.2 694.29 929.61 1094.1 1126.5 1293.3 1113.2 1657 988.01 TRUE FALSE FALSE 1109.605327 1309.290512 788.9042255 947.6039458 1010.270294 1030.515862 1147.77448 1084.725956 1645.468802 1030.607946 1.076651243 1.270405994 0.765474619 0.919461129 0.980266354 0.999910651 1.113686814 1.052510763 1.59660015 1 10.00927991 LGEASDS(ph)ELADADKASVASEVSTTSSTSKPPTGR ddPTM_HeLa_SAHA_4h_R1 1 LGEASDSELADADKASVASEVSTTSSTSKPPTGR 34 2 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 LGEAS(0.161)DS(0.835)ELADADKAS(0.003)VAS(0.001)EVSTTSSTSKPPTGR 73.276 1.13E-05 47672000 1059.4 1018.1 1124.3 1119.2 1250 1164.2 1261 1474.2 1027.7 1185.3 TRUE FALSE FALSE 1170.832553 1051.087108 1277.513749 1140.863734 1154.22527 1065.00361 1119.108961 1436.492099 1020.548152 1236.404084 0.946965938 0.850116173 1.033249377 0.922727245 0.933534016 0.861371799 0.905132049 1.1618306 0.825416355 1 10.27193461 -8.959773436 0.992309786 0.997263891 0.946060107 0 0.101026679 1.264035934 2.410334612 0.039866039 0.015473545 1.10E-09 8.959773436 -0.051203784 LGELLGNPEGQSLGSS(ph)PSQDR ddPTM_HeLa_SAHA_4h_R1 1 LGELLGNPEGQSLGSSPSQDR 21 0 O75123-2;O75123 O75123-2 ZNF623 Zinc finger protein 623 1 0 LGELLGNPEGQS(0.042)LGS(0.073)S(0.853)PS(0.032)QDR 77.357 0.0028132 0 283.5 389.22 249.33 341.82 345.98 371.84 353.68 314.45 346.15 269.96 TRUE FALSE FALSE 313.3198307 401.8309834 283.3073939 348.4364204 319.4710871 340.1571401 313.8829956 306.4068243 343.741114 281.5992968 1.112644223 1.426960181 1.006065701 1.237348333 1.134488228 1.207947406 1.114644103 1.088095133 1.220674618 1 8.137499921 -8.240119842 1.235084829 1.022482313 1.168330964 0 0.123728374 0.382291033 1.194305741 0.027385206 0.020255563 5.75E-09 8.240119842 0.14584865 LGEWVGLCK ddPTM_HeLa_SAHA_4h_R1 1 LGEWVGLCK 9 0 P25398 P25398 RPS12 40S ribosomal protein S12 0 0 111.95 0.0076426 1375400 946.64 814.6 781.19 1029.5 820.51 1010.4 1035.3 722.44 989.79 801.38 FALSE FALSE TRUE 1046.211939 840.9935745 887.6465049 1049.427461 757.6427011 924.3082356 918.8053192 703.9610309 982.9019708 835.9314137 1.251552366 1.006055713 1.061865233 1.255399 0.906345531 1.105722575 1.0991396 0.842127738 1.175816526 1 9.707240767 -4.26143124 7.030156776 1.102910857 0.83833992 0.341138931 0.105339602 0.105418265 39.97295793 0.016169895 0.131783301 5.48E-05 4.26143124 -0.264570937 LGEYEDVSR ddPTM_HeLa_SAHA_4h_R1 2 LGEYEDVSR 9 0 K7EL99;K7EP07;K7EK42;A0A494C0X0;Q99426-2;Q99426 K7EL99 TBCB Tubulin-folding cofactor B 0 0 ; ; 136.27 0.0085586 25500000 2913.1 3173.9 3163.3 3368.6 3401.2 3546.8 4033.5 3581 3331 3161.2 FALSE FALSE TRUE 3219.513224 3276.736442 3594.37805 3433.804124 3140.600791 3244.592686 3579.639964 3489.403205 3307.8193 3297.494803 0.976351266 0.993704809 1.090032969 1.041337236 0.95242024 0.983956877 1.085563489 1.058198243 1.003131012 1 11.68715467 -6.964600463 24.97761875 0.988632273 1.032564299 0.203535073 0.040151761 216.9182556 153055.3016 0.006830433 0.008976939 1.08E-07 6.964600463 0.043932026 LGFHLPLEVAYQR ddPTM_HeLa_SAHA_4h_R1 2 LGFHLPLEVAYQR 13 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 110.93 0.0017498 4820500 1444.73 1176.3 1695.92 1460.26 1714.47 469.28 1881.82 157.444 651.2 1241.25 FALSE FALSE TRUE 1596.69333 1214.412892 1927.031146 1488.525444 1583.107679 429.2947039 1670.072661 153.4168105 646.6682462 1294.766362 1.233190309 0.937939792 1.488323455 1.149647911 1.222697566 0.331561521 1.28986411 0.118489957 0.499447827 1 10.33847607 -5.279959239 24.63492015 1.137868529 0.650961063 0.253181464 0.374104078 507.7206412 675364.0705 0.040507009 0.090737875 5.25E-06 5.279959239 -0.486907465 LGFSLT(ph)PSK ddPTM_HeLa_SAHA_4h_R1 4 LGFSLTPSK 9 0 P38432 P38432 COIL Coilin 1 0 LGFS(0.001)LT(0.997)PS(0.002)K;LGFS(0.01)LT(0.989)PSK;LGFSLT(0.773)PS(0.226)K;LGFS(0.013)LT(0.94)PS(0.046)K ;;; 138.25 0.0021711 67745000 17786 19528 15130.8 17526.7 17793.2 19896.4 17529.6 15872.8 24273.4 19911.4 TRUE FALSE FALSE 19656.81309 20160.72001 17192.74663 17865.95462 16429.88886 18201.11479 15557.12327 15466.79676 24104.47943 20769.8779 0.94640966 0.97067109 0.82777312 0.860185828 0.791044075 0.876322667 0.749023338 0.744674419 1.160549886 1 14.34220511 -5.801415946 0.332450364 1.003475652 0.689474106 0.71788187 0.065192958 0.745385022 0.126948529 0.01876672 0.086808072 1.58E-06 5.801415946 -0.314001547 LGFSS(ph)SPTK ddPTM_HeLa_SAHA_4h_R1 2 LGFSSSPTK 9 0 Q8IVF2;Q8IVF2-3;Q8IVF2-2 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 LGFS(0.078)S(0.453)S(0.453)PT(0.015)K;LGFS(0.004)S(0.754)S(0.198)PT(0.044)K ; 153.1 0.00029525 69243000 8125.7 8886.3 8624.2 7918.9 9779.4 8581.6 9632.1 7365.9 6637.9 7337.3 TRUE FALSE FALSE 8980.398408 9174.221951 9799.461063 8072.18176 9030.104485 7850.399401 8548.270758 7177.490944 6591.706313 7653.646911 1.173348929 1.198673267 1.280364926 1.054684369 1.17984336 1.025707025 1.116888571 0.937787048 0.86125038 1 12.90193163 -4.259358716 24.01382787 1.107133971 0.937786977 0.149640058 0.113785927 135.3887526 1562374.476 0.013520533 0.11914232 5.50E-05 4.259358716 -0.169346994 LGFSSS(ph)PTKK ddPTM_HeLa_SAHA_4h_R1 1 LGFSSSPTKK 10 1 Q8IVF2;Q8IVF2-3;Q8IVF2-2 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 LGFSS(0.017)S(0.982)PT(0.001)KK 126.19 0.0056546 25502000 4818.7 5080.1 4633.6 4365.8 4859.8 5384.6 5757.3 4973.6 4528.7 4694.5 TRUE FALSE FALSE 5325.552975 5244.698573 5265.042877 4450.306372 4487.443174 4925.801787 5109.473452 4846.382514 4497.184408 4896.902869 1.087534941 1.071023607 1.075178132 0.908800213 0.916383946 1.005901468 1.043409189 0.989683202 0.91837321 1 12.25765386 -6.282486662 24.95347923 1.047392222 0.97545714 0.161026154 0.059593101 743.8388618 881887.4527 0.008208749 0.012546881 5.22E-07 6.282486662 -0.071935082 LGGAVPFAPPEVS(ph)PEQAK ddPTM_HeLa_SAHA_4h_R1 3 LGGAVPFAPPEVSPEQAK 18 0 A0A096LNZ0;A0A096LP25;Q6ZSR9 A0A096LNZ0 AAK1 Uncharacterized protein FLJ45252 1 0 LGGAVPFAPPEVS(1)PEQAK;LGGAVPFAPPEVS(1)PEQAK;LGGAVPFAPPEVS(1)PEQAK ;; 147.53 0.00010865 27114500 4184.2 4272.2 4014.09 4128.4 4101.6 5028.4 5426.9 4380.36 5173.5 4959.2 TRUE FALSE FALSE 4624.313354 4410.622083 4561.109281 4208.311152 3787.336294 4599.952031 4816.250929 4268.316734 5137.497192 5173.015382 0.893929945 0.852621103 0.881711912 0.813512205 0.732133198 0.889220637 0.93103356 0.825111935 0.993133949 1 12.33678977 -8.352327818 0.588416987 0.998425324 0.843041055 0.578568385 0.050334437 0.441073309 0.328776066 0.031189881 0.014664407 4.44E-09 8.352327818 -0.155384269 LGGLGPDFESIR ddPTM_HeLa_SAHA_4h_R1 1 LGGLGPDFESIR 12 0 Q6NUN7 Q6NUN7 C11orf63 Uncharacterized protein C11orf63 0 0 86.189 0.0050956 0 869.97 643.69 808.09 841.48 913.66 886.52 956.95 818.56 746.5 806.32 FALSE FALSE TRUE 961.4774362 664.5459783 918.2122968 857.7680622 843.6555682 810.9835086 849.2714674 797.6224205 741.3050457 841.0844012 1.143140254 0.790106174 1.091700542 1.019835894 1.003056967 0.964211805 1.009733941 0.948326255 0.881368201 1 9.716106769 LGGLRPES(ph)PESLTSVSR ddPTM_HeLa_SAHA_4h_R1 3 LGGLRPESPESLTSVSR 17 1 Q9H6F5;H0YG79 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 1 0 LGGLRPES(0.979)PES(0.02)LT(0.001)SVSR;LGGLRPES(0.987)PES(0.013)LTSVSR;LGGLRPES(0.776)PES(0.097)LT(0.035)S(0.057)VS(0.035)R ;; 248.75 2.13E-36 1820590000 5871.98 5815.81 4984.5 5564.87 6054.6 6424.3 7054.9 6072 6184.7 5870.2 TRUE FALSE FALSE 6489.621798 6004.24606 5663.761702 5672.586106 5590.697856 5876.913498 6261.064085 5916.687032 6141.660169 6123.29305 1.059825448 0.980558339 0.924953559 0.92639468 0.913021443 0.959763554 1.0224995 0.966259002 1.002999549 1 12.58009201 -7.043346125 5.821434957 1.028057216 0.952637057 0.468549702 0.032524234 0.134341521 11.70656648 0.006308058 0.007850527 9.05E-08 7.043346125 -0.075420159 LGGLRPESPESLTSVS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 LGGLRPESPESLTSVSR 17 1 Q9H6F5;H0YG79 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 1 0 LGGLRPES(0.397)PES(0.03)LT(0.011)S(0.016)VS(0.546)R 68.088 0.012475 1462000000 1022.5 1280.1 1251.5 1208.9 1269.6 878.93 1130.6 1241.5 1341.9 1009.3 TRUE FALSE FALSE 1130.051241 1321.57608 1422.047902 1232.300008 1172.323522 804.0402193 1003.381912 1209.744228 1332.561609 1052.815862 1.073360767 1.255277515 1.35070904 1.170480092 1.113512404 0.763704507 0.953045968 1.149055852 1.265711941 1 10.04003742 -3.914558572 17.71158135 1.062846197 3.960216393 0 0.167571925 8282447.21 18943465.51 0.023024773 939071568 0.000121742 3.914558572 2.897370196 LGGS(ph)AVISLEGKPL ddPTM_HeLa_SAHA_4h_R1 1 LGGSAVISLEGKPL 14 1 P23528;G3V1A4;E9PK25 P23528 CFL1 Cofilin-1 1 0 LGGS(0.978)AVIS(0.022)LEGKPL 110.55 0.0097656 69188000 2241.8 2057.7 2664.4 2390.9 2366.8 2289.9 2074.1 2107.7 2214.5 1760.4 TRUE FALSE FALSE 2477.60281 2124.37083 3027.490556 2437.179327 2185.456295 2094.787637 1840.716809 2053.788086 2199.089114 1836.299459 1.349236802 1.156876031 1.64869109 1.327223245 1.190141556 1.140765809 1.002405572 1.11843854 1.197565628 1 10.84258563 -5.081792776 2.9829065 1.219063559 1.061183627 0.168653682 0.165438368 0.506707291 8.6933338 0.029096491 0.089519988 8.28E-06 5.081792776 -0.157879932 LGGS(ph)LIVAFEGCPV ddPTM_HeLa_SAHA_4h_R1 1 LGGSLIVAFEGCPV 14 0 P60981;P60981-2 P60981 DSTN Destrin 1 0 LGGS(1)LIVAFEGCPV 127.56 0.00059892 3510100 325.69 440.04 427.97 332.59 433.41 333.92 242.94 376.64 319.93 391.22 TRUE FALSE FALSE 359.9475685 454.2975847 486.2915228 339.0277604 400.2022194 305.4681374 215.6037518 367.0060942 317.7035811 408.0874088 0.882035468 1.113235976 1.191635695 0.830772411 0.980677695 0.748536051 0.528327381 0.89933207 0.77851846 1 8.672734388 -5.204210844 4.440539831 0.96875764 0.698395239 0.37597404 0.143015311 0.150082485 6.188585091 0.018391286 0.048352539 6.25E-06 5.204210844 -0.270362401 LGGSAVIS(ph)LEGKPL ddPTM_HeLa_SAHA_4h_R1 1 LGGSAVISLEGKPL 14 1 P23528;G3V1A4;E9PK25 P23528 CFL1 Cofilin-1 1 0 LGGS(0.085)AVIS(0.915)LEGKPL 102.97 0.016281 1880600 457.57 541.54 569.47 576.64 689.29 607.39 513.72 675.45 598.18 512.16 TRUE FALSE FALSE 505.699312 559.0862513 647.0744059 587.801701 636.4767491 555.6369549 455.9148736 658.172967 594.0172167 534.2417241 0.946573974 1.046504281 1.211201553 1.100254201 1.191364733 1.040047847 0.853386872 1.231975972 1.111888477 1 9.061348844 -7.005881072 24.76842399 0.975916726 1.096977208 0.070240863 0.110769189 258.1440753 1087191.812 0.016406615 0.021176558 9.87E-08 7.005881072 0.121060481 LGGSAVISLEGKPL ddPTM_HeLa_SAHA_4h_R1 1 LGGSAVISLEGKPL 14 1 P23528;G3V1A4;E9PK25 P23528 CFL1 Cofilin-1 0 0 129.74 0.0027341 8657600 3614.4 3918.1 3986.8 3711.5 3940.5 4238 4519 3877.9 4057.7 3921.2 FALSE FALSE TRUE 3994.579175 4045.049011 4530.100342 3783.341449 3638.579741 3876.898558 4010.510227 3778.708933 4029.462135 4090.262122 0.976607136 0.988946158 1.107533015 0.92496308 0.889571287 0.947836212 0.980502009 0.923830508 0.98513543 1 11.99797759 LGHDPYR ddPTM_HeLa_SAHA_4h_R1 2 LGHDPYR 7 0 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6 P18583-10 SON Protein SON 0 0 ; ; 106.42 0.010919 8107300 9934.7 9271.7 9321.8 10381.7 10290.4 1510.33 11046.5 9179.1 9658.4 9317.5 FALSE FALSE TRUE 10979.67733 9572.109163 10592.12636 10582.65282 9501.951775 1381.641387 9803.518747 8944.311913 9591.186408 9719.223024 1.129686735 0.984863619 1.089812049 1.088837327 0.977645204 0.142155539 1.008673093 0.920270261 0.986826456 1 13.24662527 -5.501272889 24.94295459 1.059321195 0.695147535 0.349002015 0.218139701 581.1635175 670925.6467 0.029334076 0.065006511 3.15E-06 5.501272889 -0.36417366 LGHDPYRLT(ph)PDPYR ddPTM_HeLa_SAHA_4h_R1 1 LGHDPYRLTPDPYR 14 1 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6 P18583-10 SON Protein SON 1 0 LGHDPY(0.003)RLT(0.994)PDPY(0.003)R 88.311 0.011196 24423000 1009.1 918.45 1165.5 878.39 963.92 112.93 1281.6 667.11 879.69 884.17 TRUE FALSE FALSE 1115.241768 948.2083826 1324.32827 895.3925086 890.0646578 103.3077287 1137.390995 650.0462922 873.5681657 922.2908957 1.209208259 1.028101206 1.435911681 0.970835246 0.965058489 0.112012088 1.233223704 0.704816989 0.947172058 1 9.849078046 -5.614407966 3.644095211 1.115435198 0.714665712 0.282674681 0.287712877 0.212253284 5.489986164 0.039016324 0.082348872 2.43E-06 5.614407966 -0.400769485 LGHPEALSAGTGS(ph)PQPPSFTYAQQR ddPTM_HeLa_SAHA_4h_R1 5 LGHPEALSAGTGSPQPPSFTYAQQR 25 0 Q15942;Q15942-2;H0Y2Y8;H7C3D3 Q15942 ZYX Zyxin 1 0 LGHPEALSAGT(0.001)GS(0.999)PQPPSFTYAQQR;LGHPEALS(0.002)AGT(0.016)GS(0.982)PQPPSFTYAQQR;LGHPEALS(0.009)AGT(0.175)GS(0.816)PQPPSFTYAQQR;LGHPEALSAGT(0.023)GS(0.977)PQPPSFTYAQQR;LGHPEALS(0.026)AGT(0.188)GS(0.785)PQPPSFTYAQQR ;;;; 166.22 6.75E-11 188414600 3161.05 4394.09 2624.86 3255.37 4300.54 2071.77 4265.9 3783.11 3536.08 3926.89 TRUE FALSE FALSE 3493.543742 4536.461399 2982.562251 3318.382394 3971.033554 1895.243541 3785.889705 3686.343524 3511.472131 4096.197446 0.85287484 1.107481136 0.728129513 0.8101129 0.969443882 0.462683639 0.924244926 0.899942831 0.857251677 1 12.00006954 -6.733508238 24.99997807 0.941854847 0.797734478 0.207176838 0.148013812 274.7875195 245950.0538 0.02251782 0.031841234 1.85E-07 6.733508238 -0.144120369 LGHVVMGNNAVS(ph)PYQQVIEK ddPTM_HeLa_SAHA_4h_R1 2 LGHVVMGNNAVSPYQQVIEK 20 0 E5RGA2;P60228;H0YAW4 E5RGA2 EIF3E Eukaryotic translation initiation factor 3 subunit E 1 0 LGHVVMGNNAVS(0.989)PY(0.011)QQVIEK;LGHVVMGNNAVS(0.999)PY(0.001)QQVIEK ; 101.75 0.00060887 20692000 3710.4 3617 3606 3563.1 4091.4 1851.42 3810.4 4195.7 4591.6 3772.1 TRUE FALSE FALSE 4100.676896 3734.193173 4097.406901 3632.068953 3777.917816 1693.6686 3381.643764 4088.380069 4559.646682 3934.733691 1.042173935 0.949033268 1.041342877 0.923078723 0.960145746 0.430440465 0.859433961 1.039048736 1.158819641 1 11.94205028 -5.498526254 24.8300355 1.007461945 0.769732459 0.336378474 0.152167271 556.7334389 567650.3192 0.019732797 0.043905073 3.17E-06 5.498526254 -0.237729486 LGIAVIHGEAQDAES(ph)DLVDGRHSPPMVR ddPTM_HeLa_SAHA_4h_R1 1 LGIAVIHGEAQDAESDLVDGRHSPPMVR 28 1 C9K0K7;I3L0S1;E7EPA1;O60256-4;O60256-3;O60256-2;O60256 C9K0K7 PRPSAP2 Phosphoribosyl pyrophosphate synthase-associated protein 2 1 0 LGIAVIHGEAQDAES(0.796)DLVDGRHS(0.204)PPMVR 61.537 0.0010633 58652000 1437.9 1385.6 1586 1752.5 2011.4 1826.3 2202.9 1353.9 1902.2 1788.7 TRUE FALSE FALSE 1589.144919 1430.494349 1802.13182 1786.422172 1857.286967 1670.688966 1955.023894 1319.269198 1888.962435 1865.819611 0.851714126 0.766684164 0.965866052 0.957446348 0.995426865 0.895418269 1.047809704 0.707072212 1.01240357 1 10.8655938 -7.158457144 0.009103377 1.834384114 7.45E-05 0.087454377 0.102254366 3766.461521 28.18453126 2825.709291 2850.940532 6.94E-08 7.158457144 -1.834309658 LGIAVIHGEAQDAESDLVDGRHS(ph)PPMVR ddPTM_HeLa_SAHA_4h_R1 6 LGIAVIHGEAQDAESDLVDGRHSPPMVR 28 1 C9K0K7;I3L0S1;E7EPA1;O60256-4;O60256-3;O60256-2;O60256 C9K0K7 PRPSAP2 Phosphoribosyl pyrophosphate synthase-associated protein 2 1 0 LGIAVIHGEAQDAES(0.027)DLVDGRHS(0.973)PPMVR;LGIAVIHGEAQDAES(0.004)DLVDGRHS(0.996)PPMVR;LGIAVIHGEAQDAES(0.224)DLVDGRHS(0.776)PPMVR;LGIAVIHGEAQDAES(0.017)DLVDGRHS(0.983)PPMVR;LGIAVIHGEAQDAES(0.034)DLVDGRHS(0.966)PPMVR;LGIAVIHGEAQDAES(0.008)DLVDGRHS(0.992)PPMVR ;;;;; 100.85 2.41E-07 257730100 8071.85 9563.71 9124.12 10961.8 12878.6 11355.1 12553.2 8512.88 11173.09 12255.5 TRUE FALSE FALSE 8920.884218 9873.580479 10367.50756 11173.98149 11891.84445 10387.5816 11140.6809 8295.132856 11095.33556 12783.89458 0.697822104 0.772345267 0.810981934 0.874067086 0.930220785 0.812552195 0.8714622 0.64887369 0.867915132 1 13.6420398 -9.527737602 1.298889043 0.999497207 0.797439445 0.216015551 0.08778338 0.334335912 1.014000215 0.059012221 0.014272555 2.97E-10 9.527737602 -0.202057762 LGIHEDS(ph)TNR ddPTM_HeLa_SAHA_4h_R1 2 LGIHEDSTNR 10 0 P08238 P08238 HSP90AB1 Heat shock protein HSP 90-beta 1 0 LGIHEDS(0.836)T(0.164)NR;LGIHEDS(0.785)T(0.215)NR ; 90.434 0.013986 8427300 4998.8 4736.5 4261.4 4631.1 4836.1 5530.8 4943.5 5545.9 5796.8 5270.7 TRUE FALSE FALSE 5524.596719 4889.965708 4842.1214 4720.741637 4465.559063 5059.544725 4387.244369 5404.043908 5756.459597 5497.945671 1.004847456 0.889416884 0.880714669 0.858637375 0.812223207 0.920260953 0.797978851 0.982920573 1.047020095 1 12.42467694 -7.213961308 3.966422123 1.00265288 0.871395471 0.608168617 0.05102194 0.100019834 3.331868233 0.007399319 0.008967058 6.11E-08 7.213961308 -0.131257409 LGIHEDSQNR ddPTM_HeLa_SAHA_4h_R1 3 LGIHEDSQNR 10 0 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 0 0 ;; ;; 187.5 1.24E-06 86458000 22479.5 24411.4 17032.4 23568.4 27243.1 29439.6 28617.1 27660.5 24271 22408 FALSE FALSE TRUE 24843.99695 25202.34538 19353.48677 24024.60046 25155.73956 26931.18046 25397.02859 26952.98446 24102.09613 23374.11854 1.06288487 1.078215862 0.827987876 1.027829153 1.076221955 1.15217951 1.08654487 1.153112337 1.031144601 1 14.51262434 -5.58160261 3.333506742 1.017628083 1.125472572 0.408656619 0.067343831 0.217204998 4.909302199 0.010226704 0.022222673 2.62E-06 5.58160261 0.107844489 LGIHEDSTNR ddPTM_HeLa_SAHA_4h_R1 6 LGIHEDSTNR 10 0 P08238 P08238 HSP90AB1 Heat shock protein HSP 90-beta 0 0 ;;;;; ;;;;; 256.47 5.39E-41 205798100 30893.2 37862.5 28784.4 36206.1 43877.1 47073.7 42545.5 39732.5 35080.1 33592.4 FALSE FALSE TRUE 34142.68852 39089.26984 32706.98813 36906.92142 40515.24608 43062.75593 37758.16837 38716.20018 34835.97473 35040.73276 0.974371419 1.115538026 0.933399092 1.053257695 1.156232843 1.22893423 1.077550764 1.104891283 0.994156571 1 15.09674532 -5.927940469 4.106883738 0.995287862 1.142769045 0.566154688 0.056814265 0.11163893 3.719111888 0.00826909 0.01532425 1.18E-06 5.927940469 0.147481183 LGIHEDSTNRR ddPTM_HeLa_SAHA_4h_R1 1 LGIHEDSTNRR 11 1 P08238 P08238 HSP90AB1 Heat shock protein HSP 90-beta 0 0 65.347 0.019351 4330400 3010.5 3325 2492.8 3861.8 4319.8 4969.8 3830.2 3125.4 3503.4 3626.8 FALSE FALSE TRUE 3327.158203 3432.732182 2832.505802 3936.550723 3988.817857 4546.345081 3399.215815 3045.456794 3479.019554 3783.169097 0.879463253 0.907369481 0.74871245 1.040543159 1.05435886 1.201729281 0.898510145 0.805001499 0.91960456 1 11.88537955 LGK(ac)ELQQK ddPTM_HeLa_SAHA_4h_R1 2 LGKELQQK 8 1 E9PF63;O75116;Q14DU5 E9PF63 ROCK2 Rho-associated protein kinase 2 0 1 ; LGK(1)ELQQK;LGK(1)ELQQK 95.909 0.014376 13890300 2935.7 3891.1 7162.6 10893.8 13471.9 7027.4 13459.9 4835.3 1326.18 2201.18 FALSE TRUE FALSE 3244.490395 4017.174193 8138.681827 11104.66525 12439.68593 6428.625985 11945.35663 4711.620027 1316.951005 2296.083642 1.413054096 1.749576592 3.544592922 4.836350492 5.417784311 2.799822213 5.202491934 2.052024561 0.573564038 1 11.16495948 -6.76770095 2.746675535 1.204714091 4.140975089 0.658859547 0.995919045 0.109867426 1.70602236 0.148029015 0.207547058 1.71E-07 6.76770095 2.936260997 LGLAMALEPNT(ph)T(ph)FLRK ddPTM_HeLa_SAHA_4h_R1 1 LGLAMALEPNTTFLRK 16 1 Q9HB96 Q9HB96 FANCE Fanconi anemia group E protein 2 0 LGLAMALEPNT(1)T(1)FLRK 54.103 0.021606 8663700 1423.9 1569.6 1274.4 1191.1 1711 1948.5 2057 1581.4 1762.9 1604.9 TRUE FALSE FALSE 1573.672335 1620.45607 1448.068595 1214.155463 1579.90355 1782.476838 1825.540946 1540.950078 1750.631835 1674.095093 0.940013707 0.967959393 0.864985867 0.72526075 0.943735846 1.064740495 1.090464307 0.920467472 1.045718276 1 10.70916576 -3.919599015 17.11529283 0.959182255 0.000155961 0.013734482 0.100899645 272.9839535 95162.31851 0.013980704 6312.61314 0.000120337 3.919599015 -0.959026294 LGLELGK ddPTM_HeLa_SAHA_4h_R1 2 LGLELGK 7 0 B1ALA9;A0A2R8Y7H4;P60891;A0A0B4J207;P21108;P11908;P11908-2;Q15244;A6NMS2;B1ALA7;D3YTJ7 B1ALA9 PRPS1;PRPS1L1;PRPS2 Ribose-phosphate pyrophosphokinase 1;Ribose-phosphate pyrophosphokinase 3;Ribose-phosphate pyrophosphokinase 2 0 0 ; ; 119.57 0.0046198 3761200 4460.2 4522.1 3946.1 4578.1 5257.8 5634 5283.7 4264 4870 4324.3 FALSE FALSE TRUE 4929.3443 4668.619007 4483.853958 4666.715746 4854.9485 5153.951504 4689.16417 4154.933054 4836.109273 4510.741736 1.092801271 1.035000291 0.994039167 1.034578351 1.07630824 1.142595122 1.03955501 0.921119696 1.072131715 1 12.13914897 -9.687590324 1.572554966 1.000098049 1.052240128 0 0.060492113 0.772261341 3.451677506 0.041196811 0.009222465 2.05E-10 9.687590324 0.052142079 LGLGIDEDDPTADDTSAAVTEEMPPLEGDDDTSR ddPTM_HeLa_SAHA_4h_R1 2 LGLGIDEDDPTADDTSAAVTEEMPPLEGDDDTSR 34 0 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 0 0 ; ; 181.31 3.53E-24 6364500 1774.57 2144.08 1386.02 1898.11 2213.8 2285.8 1862.95 1907.07 2740.1 2293.5 FALSE FALSE TRUE 1961.227415 2213.549599 1574.899588 1934.850664 2044.179122 2091.03698 1653.325963 1858.289911 2721.031421 2392.384009 0.81977952 0.925248451 0.658297155 0.80875422 0.854452761 0.874039022 0.691078839 0.776752354 1.137372349 1 11.22423326 -10.3093203 0.261136158 1.207825913 0.768296922 0.601202045 0.084988166 5.364258496 0.305236207 0.7618656 0.050902923 4.91E-11 10.3093203 -0.43952899 LGLGLDDESNNQQAAAT(ph)QSPGDSRR ddPTM_HeLa_SAHA_4h_R1 1 LGLGLDDESNNQQAAATQSPGDSRR 25 1 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 1 0 LGLGLDDESNNQQAAAT(0.5)QS(0.5)PGDS(0.001)RR 91.565 3.50E-05 4429100 564.7 520.51 523.76 398.62 608.6 792.28 583.83 774.07 765.62 708.07 TRUE FALSE FALSE 624.0977369 537.3748655 595.1352852 406.3358665 561.9691995 724.7732868 518.1359118 754.2704102 760.2919881 738.5983629 0.844975792 0.727560326 0.805763071 0.550144553 0.760858983 0.981282011 0.701512402 1.021218633 1.029371342 1 9.528646255 -8.429164716 0.854958894 0.983364436 0.788920305 0.300608791 0.128884259 0.513600465 0.782052259 0.048785192 0.027107545 3.72E-09 8.429164716 -0.19444413 LGLLGLPAPK ddPTM_HeLa_SAHA_4h_R1 1 LGLLGLPAPK 10 0 Q99459 Q99459 CDC5L Cell division cycle 5-like protein 0 0 104.45 0.006838 0 253.15 240.55 304.92 355.33 339.18 294.94 303.62 122.92 223.08 276.55 FALSE FALSE TRUE 279.7774785 248.3439778 346.4729096 362.207926 313.1921017 269.8094527 269.4558785 119.7758844 221.5275681 288.4734239 0.969855298 0.860890319 1.2010566 1.255602409 1.085687886 0.935300899 0.934075226 0.415205958 0.767930595 1 8.172294604 -4.115247751 1.985271187 1.01646947 0.055650306 0.621321041 0.138251147 0.554092956 1.651691207 0.017405695 1.09973047 7.67E-05 4.115247751 -0.960819163 LGLPPLT(ph)PEQQEALQK ddPTM_HeLa_SAHA_4h_R1 1 LGLPPLTPEQQEALQK 16 0 Q9UHX1;A0A0J9YYL3;Q9UHX1-2;Q9UHX1-5;Q9UHX1-3;Q9UHX1-6;Q9UHX1-4;A0A0J9YXX5;A0A0J9YVP6;A0A0J9YXJ8;E9PMU7;E9PL19;A0A0J9YWM1;H0YEM1;A0A0J9YVR6;E9PN18;E9PQ56 Q9UHX1 PUF60 Poly(U)-binding-splicing factor PUF60 1 0 LGLPPLT(1)PEQQEALQK 83.499 0.018743 2335600 377.31 454.86 371.38 387.41 525.94 473.9 581.55 474.25 432.53 528.33 TRUE FALSE FALSE 416.997197 469.5977624 421.9897323 394.9088808 485.6425908 433.5210539 516.1124634 462.1193717 429.5199885 551.1088919 0.756651187 0.852096145 0.765710259 0.716571419 0.881209862 0.786634112 0.93649816 0.83852643 0.779374085 1 9.106193594 -9.398325628 1.070768751 1.002250933 0.813109774 0 0.090880902 0.317830975 0.639369143 0.046022854 0.011181522 4.00E-10 9.398325628 -0.18914116 LGLSLVVPGGGIK ddPTM_HeLa_SAHA_4h_R1 1 LGLSLVVPGGGIK 13 0 Q99747-2;Q99747 Q99747-2 NAPG Gamma-soluble NSF attachment protein 0 0 134.68 0.010315 0 254.77 246.46 290.01 216.26 279.74 244.05 422.68 253.83 184.4 223.54 FALSE FALSE TRUE 281.5678775 254.4454657 329.5310525 220.446025 258.3063816 223.255567 375.118934 247.3373961 183.1167454 233.1779034 1.207523841 1.091207452 1.413217323 0.945398435 1.107765264 0.957447356 1.608724191 1.06072399 0.785309168 1 7.865287271 -9.322677645 0.828099067 0.988544576 1.17917969 0.193113329 0.20488721 1.322094976 1.465645614 0.168021337 0.035293761 4.76E-10 9.322677645 0.190635113 LGMLS(ph)PEGTCK ddPTM_HeLa_SAHA_4h_R1 2 LGMLSPEGTCK 11 0 A0A0U1RQF0;P49327 A0A0U1RQF0 FASN Fatty acid synthase;[Acyl-carrier-protein] S-acetyltransferase;[Acyl-carrier-protein] S-malonyltransferase;3-oxoacyl-[acyl-carrier-protein] synthase;3-oxoacyl-[acyl-carrier-protein] reductase;3-hydroxyacyl-[acyl-carrier-protein] dehydratase;Enoyl-[acyl-carrier-protein] reductase;Oleoyl-[acyl-carrier-protein] hydrolase 1 0 LGMLS(0.97)PEGT(0.03)CK;LGMLS(0.94)PEGT(0.06)CK ; 101.72 0.0070338 16592500 4471.6 4567 4527.1 3991.4 4957.8 4622.9 4667.9 5191.5 4121.9 4540.2 TRUE FALSE FALSE 4941.943404 4714.973797 5144.029612 4068.659319 4577.934435 4229.002912 4142.655607 5058.708947 4093.215362 4735.950241 1.043495635 0.995570806 1.086166313 0.859100943 0.966634826 0.892957632 0.874725323 1.068150781 0.864285973 1 12.20943821 -6.263957986 24.99996097 1.02326599 0.928834795 0.109424048 0.078015559 169.2089357 1679589.554 0.008450138 0.013287161 5.45E-07 6.263957986 -0.094431195 LGNGINIIVATPGR ddPTM_HeLa_SAHA_4h_R1 1 LGNGINIIVATPGR 14 0 Q9NVP1 Q9NVP1 DDX18 ATP-dependent RNA helicase DDX18 0 0 155.99 2.27E-06 801120 139.82 118.77 202.42 105.96 167.08 166.95 57.838 0 60.281 181.54 FALSE FALSE TRUE 154.5269091 122.6182259 230.0047434 108.011009 154.2783665 152.7249208 51.32991602 0 59.86149961 189.3670778 0.816017815 0.647516069 1.214597311 0.570379024 0.814705324 0.806501967 0.271060401 0 0.316113552 1 7.565041725 -4.663086441 2.151754636 0.883295162 8.64E-16 0.492482018 0.247213884 0.126816305 1.049173926 0.023918671 0.156593807 2.17E-05 4.663086441 -0.883295162 LGNPYCSPT(ph)LVR ddPTM_HeLa_SAHA_4h_R1 1 LGNPYCSPTLVR 12 0 Q6ZV89-2;Q6ZV89 Q6ZV89-2 SH2D5 SH2 domain-containing protein 5 1 0 LGNPYCS(0.213)PT(0.787)LVR 132.24 0.0016836 13382000 1011.1 1276.9 925.55 865.6 1006.9 1043.2 1161.7 1031.3 879.56 644.68 TRUE FALSE FALSE 1117.452137 1318.272398 1051.679134 882.3549397 929.7515395 954.3134911 1030.982459 1004.920839 873.4390703 672.4753098 1.661699873 1.960328325 1.56389256 1.312100127 1.38258093 1.41910562 1.533115705 1.494360945 1.298841842 1 9.393337489 -9.296287671 1.061502477 1.004913814 1.543250879 0.371257678 0.190200775 0.314069533 0.642613571 0.123147614 0.034260392 5.05E-10 9.296287671 0.538337065 LGPGGLDDRY(ph)SLVSEQLEPAATSTYR ddPTM_HeLa_SAHA_4h_R1 2 LGPGGLDDRYSLVSEQLEPAATSTYR 26 1 Q9Y446;Q9Y446-2;E9PKC4;E9PK71;E9PJR7;E9PRW6;E9PQ15 Q9Y446 PKP3 Plakophilin-3 1 0 LGPGGLDDRY(0.932)S(0.068)LVSEQLEPAATSTYR;LGPGGLDDRY(0.575)S(0.425)LVSEQLEPAATSTYR ; 155.25 7.41E-10 17423900 842.61 604.13 793.57 1084.92 1311.42 975.36 1367.32 1431.25 985.16 855.92 TRUE FALSE FALSE 931.2395858 623.7042084 901.7135869 1105.920195 1210.939283 892.2538408 1213.465555 1394.640697 978.3041913 892.8229 1.043028338 0.698575505 1.009957951 1.238678125 1.356304014 0.999362629 1.359133547 1.562057489 1.095742718 1 9.802230221 -6.214967976 4.038319014 0.990312473 1.297682805 0.512179307 0.163059771 0.158919455 5.567118145 0.024631203 0.041094302 6.10E-07 6.214967976 0.307370332 LGPGRPLPTFPTSECT(ph)SDVEPDTR ddPTM_HeLa_SAHA_4h_R1 2 LGPGRPLPTFPTSECTSDVEPDTR 24 1 Q8TDD1-2;Q8TDD1;H0YHZ9 Q8TDD1-2 DDX54 ATP-dependent RNA helicase DDX54 1 0 LGPGRPLPTFPT(0.001)S(0.007)ECT(0.496)S(0.496)DVEPDT(0.001)R;LGPGRPLPTFPT(0.004)S(0.106)ECT(0.445)S(0.445)DVEPDTR ; 97.188 5.83E-05 88524000 2701.55 2426.42 2718.7 2878.5 2515.8 3468.8 3031.1 2846.7 3012.3 2693.1 TRUE FALSE FALSE 2985.711424 2505.0376 3089.190278 2934.21753 2323.039948 3173.238725 2690.032651 2773.885536 2991.337159 2809.212721 1.062828529 0.89172229 1.099664064 1.044498164 0.826936291 1.129582926 0.957575277 0.987424525 1.064831131 1 11.45595016 LGPGRPLPTFPTSECTS(ph)DVEPDTR ddPTM_HeLa_SAHA_4h_R1 1 LGPGRPLPTFPTSECTSDVEPDTR 24 1 Q8TDD1-2;Q8TDD1;H0YHZ9 Q8TDD1-2 DDX54 ATP-dependent RNA helicase DDX54 1 0 LGPGRPLPTFPT(0.02)S(0.109)ECT(0.151)S(0.716)DVEPDT(0.004)R 69.581 0.0010228 5909300 475.36 398.47 523.43 489.77 565.59 461.69 466.2 822.14 589.94 533.25 TRUE FALSE FALSE 525.3605458 411.3806894 594.7603145 499.2502066 522.2546164 422.3514146 413.741949 801.1108492 585.8345595 556.2410172 0.944483649 0.739572733 1.069249293 0.897542956 0.938899866 0.759295704 0.743817763 1.440222538 1.053202733 1 9.119566323 -8.461141599 1.25190249 0.990637037 0.927008884 0.017979909 0.196454265 1.595258554 5.051124033 0.053759974 0.035258645 3.46E-09 8.461141599 -0.063628153 LGPLFSLLNENHR ddPTM_HeLa_SAHA_4h_R1 1 LGPLFSLLNENHR 13 0 F2Z3J2;Q16401-2;Q16401 F2Z3J2 PSMD5 26S proteasome non-ATPase regulatory subunit 5 0 0 118.76 0.00079416 669080 162.34 232.38 218.95 208.11 327.22 167.55 99.624 128.72 0 69.007 FALSE FALSE TRUE 179.415666 239.9092645 248.7873658 212.13827 302.1484743 153.2737974 88.41404532 125.4275288 0 71.98222948 2.492499431 3.332895719 3.456233122 2.947092241 4.197542594 2.129328287 1.228276006 1.742479077 0 1 6.169568882 -4.846319436 6.827673462 2.252342477 1.490855771 0.079517736 1.171366736 0.479950626 31.57827655 0.169697398 0.519534899 1.42E-05 4.846319436 -0.761486706 LGQSDPAPLQHQMDIYQK ddPTM_HeLa_SAHA_4h_R1 2 LGQSDPAPLQHQMDIYQK 18 0 P29401;P29401-2;A0A0B4J1R6;E9PFF2 P29401 TKT Transketolase 0 0 ; ; 159.54 3.70E-09 4410900 2182.23 3004.76 3047.6 2593.39 3075 2349.62 3084.9 1388.36 1785.43 2228.05 FALSE FALSE TRUE 2411.766964 3102.116195 3462.911057 2643.588814 2839.394164 2149.419157 2737.778933 1352.847762 1773.005047 2324.112139 1.037715402 1.334753235 1.489993102 1.137461816 1.221711344 0.92483453 1.177989171 0.582092292 0.762874139 1 11.18246397 -5.223904145 20.01573653 1.099862333 0.923272533 0.174723691 0.230720483 94.76782973 50532.52409 0.031102741 0.079285508 5.97E-06 5.223904145 -0.1765898 LGRGS(ph)VSDCSDGTSELEEPLGEDPR ddPTM_HeLa_SAHA_4h_R1 1 LGRGSVSDCSDGTSELEEPLGEDPR 25 1 P50548-2;P50548 P50548-2 ERF ETS domain-containing transcription factor ERF 1 0 LGRGS(0.987)VS(0.011)DCS(0.002)DGTSELEEPLGEDPR 84.515 5.16E-05 5068400 708.17 412.13 293.95 324.7 388.85 678.71 403.73 565.12 284.06 247.95 TRUE FALSE FALSE 782.6585698 425.4832824 334.0079752 330.985038 359.056397 620.8800897 358.3012378 550.6650487 282.0832033 258.6403379 3.026049904 1.645077043 1.291399392 1.27971159 1.388245932 2.400553969 1.385326205 2.129076435 1.09063886 1 8.014803487 -9.789773847 1.788950393 0.99809033 2.004647333 0.17712757 0.560965396 0.444396474 2.574681111 0.512224092 0.107712307 1.62E-10 9.789773847 1.006557003 LGS(ph)ALLIR ddPTM_HeLa_SAHA_4h_R1 2 LGSALLIR 8 0 Q14993 Q14993 COL19A1 Collagen alpha-1(XIX) chain 1 0 LGS(1)ALLIR;LGS(1)ALLIR ; 102.62 0.0092635 6540300 2117 2294.4 2011.13 2172.8 2191.8 2537.5 2603.7 2221.73 2433.2 2258.7 TRUE FALSE FALSE 2339.675773 2368.740065 2285.196323 2214.857686 2023.864758 2321.290724 2310.724823 2164.901364 2416.267163 2356.083611 0.99303597 1.005371819 0.969913085 0.940059035 0.858995304 0.985232745 0.980748227 0.918855916 1.025543895 1 11.20217502 -6.476633855 3.167534263 0.997174522 0.937883015 0.47031539 0.034058331 0.189425476 3.809498874 0.005200233 0.007975326 3.34E-07 6.476633855 -0.059291508 LGS(ph)FGSITR ddPTM_HeLa_SAHA_4h_R1 5 LGSFGSITR 9 0 Q14315-2;Q14315 Q14315-2 FLNC Filamin-C 1 0 LGS(0.948)FGS(0.051)ITR;LGS(0.901)FGS(0.097)IT(0.003)R;LGS(0.994)FGS(0.002)IT(0.005)R;LGS(0.997)FGS(0.003)ITR;LGS(0.993)FGS(0.007)ITR ;;;; 152.04 0.00034254 1353294000 13059.2 11063.8 10036.9 14561 14171.3 12321.9 12156 13936 15881.8 12540.4 TRUE FALSE FALSE 14432.82657 11422.27438 11404.67646 14842.84921 13085.49806 11272.0048 10788.17489 13579.5373 15771.27726 13081.07802 1.103336174 0.873190601 0.871845306 1.134680887 1.000337896 0.861703048 0.824716042 1.038105367 1.205655776 1 13.67519382 -6.154522386 0.588366193 1.041438349 0.912263066 0.172451726 0.112953248 1.303497082 0.843475823 0.02551635 0.077370328 7.01E-07 6.154522386 -0.129175284 LGS(ph)LSAR ddPTM_HeLa_SAHA_4h_R1 4 LGSLSAR 7 0 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2;H0Y4T4;Q00G26 H0Y2V6 CEP170;PLIN5 Centrosomal protein of 170 kDa;Perilipin-5 1 0 LGS(0.969)LS(0.031)AR;LGS(0.993)LS(0.007)AR;LGS(0.997)LS(0.003)AR;LGS(0.997)LS(0.003)AR ;;; 129.42 0.0015142 59731000 8446.6 7334.3 6762.3 8997.9 9039.6 11548.6 9805 9364.5 8421.8 7679.1 TRUE FALSE FALSE 9335.052142 7571.936132 7683.831027 9172.067366 8346.987801 10564.59431 8701.715595 9124.96965 8363.192008 8010.183582 1.165398027 0.945288713 0.959257793 1.145050831 1.042047004 1.318895404 1.086331606 1.139171101 1.044069955 1 12.96761959 LGS(ph)LVDEFK ddPTM_HeLa_SAHA_4h_R1 2 LGSLVDEFK 9 0 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 1 0 LGS(1)LVDEFK;LGS(1)LVDEFK ; 131.82 0.0018439 27624900 3734.3 3776.2 3290.1 3999 3411.8 4770.4 4337.4 4122.3 4809.8 4228.6 TRUE FALSE FALSE 4127.090808 3898.551358 3738.457694 4076.406428 3150.388621 4363.935082 3849.344337 4016.857535 4776.32821 4410.91564 0.935653988 0.883841741 0.847546858 0.924163317 0.714225544 0.989349024 0.872686002 0.910662969 1.082842793 1 12.10686245 -7.799678134 0.897433247 0.986816797 0.874519856 0.395799951 0.073356543 0.397560846 0.683129147 0.017286584 0.015058156 1.59E-08 7.799678134 -0.112296941 LGS(ph)PAPQGCYAEALNGAAR ddPTM_HeLa_SAHA_4h_R1 1 LGSPAPQGCYAEALNGAAR 19 0 A0A2U3U043 A0A2U3U043 1 0 LGS(0.99)PAPQGCY(0.01)AEALNGAAR 76.068 0.0058213 0 430.07 433.62 361.37 444 581.6 524.64 405.48 583.22 325.1 315.88 TRUE FALSE FALSE 475.3067358 447.6695725 410.6156217 452.594262 537.0379336 479.9377205 359.8543232 568.3020769 322.8376026 329.4991327 1.442512859 1.358636573 1.246181191 1.37358256 1.629861448 1.456567477 1.092125252 1.724745289 0.97978286 1 8.364130857 -9.544800251 0.532105267 0.874771074 1.419695774 0.509512419 0.167542716 1.228375918 0.405051018 0.358147238 0.039108408 2.85E-10 9.544800251 0.5449247 LGS(ph)PLAVDEALR ddPTM_HeLa_SAHA_4h_R1 4 LGSPLAVDEALR 12 0 Q7RTP6 Q7RTP6 MICAL3 Protein-methionine sulfoxide oxidase MICAL3 1 0 LGS(1)PLAVDEALR;LGS(1)PLAVDEALR;LGS(1)PLAVDEALR;LGS(1)PLAVDEALR ;;; 151.66 0.00033215 18792300 3642.42 3948.77 3842.43 4064.79 4348.91 6040.05 4255.58 4437.66 5360.74 4086.3 TRUE FALSE FALSE 4025.546448 4076.712739 4366.05635 4143.469888 4015.697455 5525.40376 3776.730938 4324.151083 5323.434174 4262.480391 0.944414068 0.956417946 1.024299457 0.972079519 0.942103444 1.29628837 0.88604066 1.014468264 1.248905258 1 12.05747748 LGS(ph)PLAVDEALRR ddPTM_HeLa_SAHA_4h_R1 3 LGSPLAVDEALRR 13 1 Q7RTP6 Q7RTP6 MICAL3 Protein-methionine sulfoxide oxidase MICAL3 1 0 LGS(1)PLAVDEALRR;LGS(1)PLAVDEALRR;LGS(1)PLAVDEALRR ;; 112.03 0.0011652 25501900 4409.93 4727.79 4398.1 4729.7 5078.3 5302.7 4985.5 5052.4 5427.6 4830.87 TRUE FALSE FALSE 4873.786671 4880.973498 4997.450164 4821.250183 4689.201751 4850.880128 4424.518419 4923.166924 5389.82889 5039.152447 0.967183812 0.968610009 0.991724346 0.956758152 0.93055366 0.962638098 0.878028292 0.976983129 1.069590362 1 12.29896539 -5.73906749 0.193111636 1.008055923 0.893759366 0.409037725 0.035721834 5.395411549 0.369734849 0.049935232 0.169766354 1.82E-06 5.73906749 -0.114296558 LGS(ph)PVDNLEDMDRDDLTDDSVFTR ddPTM_HeLa_SAHA_4h_R1 2 LGSPVDNLEDMDRDDLTDDSVFTR 24 1 Q5VUA4;Q5VUA4-2 Q5VUA4 ZNF318 Zinc finger protein 318 1 0 LGS(0.991)PVDNLEDMDRDDLT(0.005)DDS(0.003)VFT(0.001)R;LGS(0.999)PVDNLEDMDRDDLT(0.001)DDSVFTR ; 64.423 0.0016035 9563200 135.333 233.75 158.64 324.188 415.56 254.231 539.13 456.33 213.47 149.84 TRUE FALSE FALSE 149.5679459 241.3236534 180.258633 330.4631275 383.7198826 232.5690885 478.4656735 444.6577394 211.9844449 156.3003357 0.956926581 1.543973993 1.153283723 2.114282903 2.455016369 1.487962822 3.061194151 2.844893054 1.356263529 1 7.288177067 -5.409859116 0.459011144 0.924532542 3.308543246 0.691491691 0.405847871 0.669301457 0.181713739 0.098112717 0.732002352 3.89E-06 5.409859116 2.384010704 LGS(ph)VDSFER ddPTM_HeLa_SAHA_4h_R1 3 LGSVDSFER 9 0 A0A3B3IRT3;O60343-2;O60343-3;O60343;Q5JU47 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 1 0 LGS(0.98)VDS(0.02)FER;LGS(0.923)VDS(0.077)FER;LGS(0.873)VDS(0.127)FER ;; 134.84 0.0015599 28474900 5239.6 5161.9 4778.6 5881.8 5915.5 7755.9 7018 6299.2 5301.6 4877.9 TRUE FALSE FALSE 5790.725168 5329.148947 5429.802722 5995.650744 5462.255668 7095.053686 6228.31617 6138.075585 5264.705734 5088.210141 1.13806722 1.047352369 1.067134134 1.178341809 1.073512201 1.394410508 1.224068188 1.206332957 1.034687167 1 12.31294254 -1 0.107704628 0.931315206 1.95721195 0.506474717 0.079025818 67.67476358 0.512858279 0.512408482 10.34710736 0.1 1 1.025896744 LGS(ph)YSGPTSVSR ddPTM_HeLa_SAHA_4h_R1 2 LGSYSGPTSVSR 12 0 A0A2R8YFI4;V9GYZ0;Q9BZ23-3;Q9BZ23-4;Q9BZ23 A0A2R8YFI4 PANK2 "Pantothenate kinase 2, mitochondrial" 1 0 LGS(0.954)YS(0.046)GPTSVSR;LGS(0.955)YS(0.045)GPTSVSR ; 187.62 8.27E-07 56006000 1906.89 2069.05 2000.19 1929.71 2237.3 2366.7 1989.09 2215.2 2062.06 1619.7 TRUE FALSE FALSE 2107.465439 2136.088578 2272.765477 1967.062327 2065.878557 2165.043845 1765.272358 2158.538392 2047.709957 1689.533194 1.247365513 1.264306961 1.345203211 1.164263795 1.222751092 1.281444989 1.044828456 1.277594545 1.21199747 1 10.72240898 -9.165233589 0.876290926 0.99747837 1.228822535 0.059657289 0.099732868 0.356567529 0.485945286 0.053313077 0.014641768 6.84E-10 9.165233589 0.231344165 LGSGGSGDGPS(ph)VSWSR ddPTM_HeLa_SAHA_4h_R1 1 LGSGGSGDGPSVSWSR 16 0 Q9Y6R9-2;Q9Y6R9 Q9Y6R9-2 CCDC61 Coiled-coil domain-containing protein 61 1 0 LGS(0.004)GGS(0.221)GDGPS(0.768)VS(0.002)WS(0.005)R 91.789 0.0046255 0 921.52 1232.7 778.93 814.54 969.01 1172.2 866.52 968.95 1175.6 1042.8 TRUE FALSE FALSE 1018.449702 1272.640289 885.0785239 830.3065995 894.7646631 1072.321965 769.016889 944.165662 1167.418904 1087.760211 0.936281444 1.169964001 0.813670618 0.763317679 0.822575283 0.985807308 0.706972806 0.867990622 1.07323185 1 10.08714484 LGSLSARSDS(ph)EATISR ddPTM_HeLa_SAHA_4h_R1 1 LGSLSARSDSEATISR 16 1 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2;H0Y4T4 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 LGSLSARS(0.28)DS(0.716)EAT(0.003)ISR 178.47 1.43E-08 9894600 842.44 456.56 1052.3 826.02 847.49 493.13 812.95 1090.6 272.56 629.46 TRUE FALSE FALSE 931.0517045 471.3528436 1195.701964 842.0088115 782.5554993 451.1125497 721.4747264 1062.704031 270.6632328 656.5991011 1.417991135 0.717870071 1.821053306 1.282378867 1.191831512 0.687044117 1.098805535 1.618497542 0.412219926 1 9.358868965 -4.254832046 23.53578968 1.17701614 1.618498013 0.097162324 0.394642396 506.8171141 1805201.272 0.043150158 0.536059585 5.56E-05 4.254832046 0.441481873 LGSLVDEFK ddPTM_HeLa_SAHA_4h_R1 2 LGSLVDEFK 9 0 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 0 ; ; 155.07 1.26E-06 2462600 1829 1897.71 1523.77 2135.88 1914.77 2052.95 1961.07 1855.21 2127.64 1869.61 FALSE FALSE TRUE 2021.382612 1959.197049 1731.42144 2177.223046 1768.060736 1878.02711 1740.405242 1807.756415 2112.83358 1950.218037 1.036490574 1.004604107 0.887809162 1.11639981 0.906596444 0.962983151 0.892415725 0.926950926 1.083383263 1 10.92941971 -5.678500883 25 1.012003207 0.923015926 0.397190251 0.059190869 20.71592288 6242.371376 0.007416596 0.014833191 2.10E-06 5.678500883 -0.088987282 LGSPDTVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 LGSPDTVSPR 10 0 H0Y9Y2 H0Y9Y2 BOD1L1 1 0 LGSPDTVS(1)PR;LGSPDT(0.001)VS(0.999)PR ; 124.67 0.0024033 20074900 4803.1 4432.7 3742.4 4708.7 4589.9 5329.7 4544.8 4710.7 5082.7 4059.9 TRUE FALSE FALSE 5308.312095 4576.322388 4252.394782 4799.843697 4238.222854 4875.579576 4033.407143 4590.207115 5047.329077 4234.942158 1.253455631 1.080610364 1.004121101 1.133390615 1.000774673 1.151274184 0.952411389 1.083888975 1.191829519 1 12.04812655 -7.007970524 24.65475577 1.122179254 1.054173542 0.184416787 0.083253543 644.9432813 1994972.784 0.017200297 0.022038283 9.82E-08 7.007970524 -0.068005712 LGSPDY(ph)GNSALLSLPGYRPTTR ddPTM_HeLa_SAHA_4h_R1 1 LGSPDYGNSALLSLPGYRPTTR 22 1 A0A087WY61;Q14980-5;Q14980-2;Q14980;H0YFY6 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 1 0 LGS(0.366)PDY(0.479)GNS(0.151)ALLS(0.003)LPGY(0.001)RPTTR 61.561 0.012356 51553000 179.24 289.45 341.96 368.8 395.84 466 247.14 305.79 200.97 323.24 TRUE FALSE FALSE 198.0932856 298.8283699 388.5605279 375.9386573 365.5108247 426.2941784 219.3311568 297.9683346 199.5714334 337.1764583 0.587506277 0.886267005 1.152395188 1.114961167 1.084034237 1.264305879 0.650493685 0.883716307 0.591890176 1 8.39736 -6.989553506 20.56009333 0.801615285 1.025091103 0.302839797 0.193513514 32.47891208 63919.33925 0.035554442 0.046665141 1.02E-07 6.989553506 0.223475819 LGSQHS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 1 LGSQHSPGR 9 0 A0A0A0MRT6;Q8IZP0-2;Q8IZP0-4;Q8IZP0-3;Q8IZP0-5;Q8IZP0-6;Q8IZP0-9;Q8IZP0-12;Q8IZP0;B6VEX4;Q8IZP0-11;Q8IZP0-10;Q8IZP0-8;Q8IZP0-7 A0A0A0MRT6 ABI1 Abl interactor 1 1 0 LGS(0.001)QHS(0.999)PGR 96.756 0.010143 1458500 562.15 622.61 946.06 1089.9 1218.1 3004.9 1724.2 1412 977.55 2014.2 TRUE FALSE FALSE 621.2795162 642.7829725 1074.98413 1110.996591 1124.769441 2748.865615 1530.188478 1375.883085 970.74715 2101.042019 0.295700662 0.305935325 0.511643327 0.528783613 0.535338861 1.308334431 0.728299798 0.654857481 0.462031288 1 11.0368893 -2.369220228 16.92212773 0.655633216 0.644044266 0 0.29841327 0 0 0.046521782 0 0.004273461 2.369220228 -0.01158895 LGSQPIRAS(ph)NPDLR ddPTM_HeLa_SAHA_4h_R1 1 LGSQPIRASNPDLR 14 1 Q9UKE5-8;Q9UKE5-5;Q9UKE5-7;Q9UKE5-3;Q9UKE5-6;Q9UKE5-2;Q9UKE5-4;Q9UKE5 Q9UKE5-8 TNIK TRAF2 and NCK-interacting protein kinase 1 0 LGSQPIRAS(1)NPDLR 70.628 0.017126 12373000 2305.1 1976.5 1878.7 2246.5 2105.2 2007.2 2492.8 2522.3 2277.4 2405.5 TRUE FALSE FALSE 2547.560994 2040.539897 2134.719452 2289.984256 1943.900031 1836.175268 2212.303583 2457.783218 2261.551388 2509.212877 1.015282927 0.813219124 0.850752629 0.912630521 0.774705107 0.731773412 0.881672338 0.979503668 0.901299132 1 11.29301916 -7.26671808 24.88517563 1.007216941 0.845550168 0.34101381 0.073566562 220.1217172 1037709.954 0.011336738 0.013171606 5.41E-08 7.26671808 -0.161666773 LGSSDILNYS(ph)GNLMEPPFQNQK ddPTM_HeLa_SAHA_4h_R1 1 LGSSDILNYSGNLMEPPFQNQK 22 0 O14530 O14530 TXNDC9 Thioredoxin domain-containing protein 9 1 0 LGSSDILNYS(0.999)GNLMEPPFQNQK 112.13 5.55E-05 6489700 2341.8 2609.8 2352.6 2546.1 2669.1 2493.9 2524.4 2398.6 2561 2422.2 TRUE FALSE FALSE 2588.121269 2694.359232 2673.200076 2595.383447 2464.594135 2281.40569 2240.347868 2337.247285 2543.177792 2526.632896 1.024336093 1.066383342 1.058008894 1.027210344 0.975446072 0.90294308 0.886693066 0.925044271 1.0065482 1 11.30300035 -5.434387617 2.804950992 1.021057587 0.902309935 0.861339987 0.022343593 0.087952252 1.339280852 0.003905556 0.009551454 3.68E-06 5.434387617 -0.118747652 LGSVDS(ph)FER ddPTM_HeLa_SAHA_4h_R1 3 LGSVDSFER 9 0 A0A3B3IRT3;O60343-2;O60343-3;O60343;Q5JU47 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 1 0 LGS(0.007)VDS(0.993)FER;LGS(0.004)VDS(0.996)FER;LGS(0.234)VDS(0.766)FER ;; 137.46 0.0013144 43355300 4661.9 5308.2 4893.8 6030.2 5717.4 6152.5 6732.6 6912.2 8346.5 5766.1 TRUE FALSE FALSE 5152.260032 5480.189163 5560.701578 6146.923241 5279.334047 5628.272387 5975.030129 6735.395933 8288.416027 6014.70479 0.856610625 0.91113186 0.92451779 1.021982534 0.877737849 0.935752058 0.993403723 1.119821532 1.378025409 1 12.55427821 -4.317419658 2.124477735 0.931499695 1.157981136 0 0.148761221 0.397457653 2.170649464 0.008554604 0.163219111 4.81E-05 4.317419658 0.226481441 LGTS(ph)AEGAHLR ddPTM_HeLa_SAHA_4h_R1 2 LGTSAEGAHLR 11 0 Q15042-4;Q15042;Q15042-3 Q15042-4 RAB3GAP1 Rab3 GTPase-activating protein catalytic subunit 1 0 LGT(0.423)S(0.577)AEGAHLR;LGT(0.292)S(0.708)AEGAHLR ; 94.538 0.0066954 2831900 2085.94 2774.65 2172.83 1883.08 3440.6 3841.9 3522 2911.3 2515.06 2535.5 TRUE FALSE FALSE 2305.34874 2864.550481 2468.931957 1919.529736 3176.981971 3514.548506 3125.695291 2836.833162 2497.557493 2644.817813 0.871647464 1.083080455 0.933497931 0.725770118 1.201210138 1.328843328 1.181818753 1.072600595 0.944321185 1 11.36895263 -5.696565954 14.61388978 0.936115927 1.204690449 0.617666307 0.103707147 0.856813409 192.1734488 0.015432923 0.030866033 2.01E-06 5.696565954 0.268574522 LGTSES(ph)LPCTAEELSR ddPTM_HeLa_SAHA_4h_R1 2 LGTSESLPCTAEELSR 16 0 Q9BZL6-2;Q9BZL6;Q9BZL6-3 Q9BZL6-2 PRKD2 Serine/threonine-protein kinase D2 1 0 LGT(0.002)S(0.028)ES(0.965)LPCT(0.006)AEELSR;LGT(0.002)S(0.281)ES(0.6)LPCT(0.117)AEELSR ; 156.72 1.08E-05 15750200 1355.46 1541.92 1368 1136.47 1638.25 2295.72 1582.32 1605.5 1164.74 1389.94 TRUE FALSE FALSE 1498.033502 1591.87922 1554.423916 1158.46802 1512.727639 2100.111741 1404.273189 1564.433635 1156.63448 1449.867116 1.033221242 1.097948359 1.072114747 0.799016688 1.043356058 1.44848567 0.968553031 1.079018634 0.797752061 1 10.50170496 -5.500580298 24.98280109 1.010353143 1.162380558 0.228336735 0.151113973 889.5968317 996688.5594 0.01837091 0.040773671 3.16E-06 5.500580298 0.152027415 LGVIEDHSNR ddPTM_HeLa_SAHA_4h_R1 5 LGVIEDHSNR 10 0 P14625;Q58FF3 P14625;Q58FF3 HSP90B1;HSP90B2P Endoplasmin;Putative endoplasmin-like protein 0 0 ;;;; ;;;; 188.91 1.07E-06 65125040 23443.09 25807.5 23067.82 26860.25 30939.94 33746.2 31274.6 30167.1 27486.95 26854.34 FALSE FALSE TRUE 25908.94177 26643.67993 26211.38238 27380.16898 28569.32848 30870.83391 27755.4997 29395.46926 27295.66608 28012.16202 0.924917604 0.95114686 0.935714364 0.97743862 1.019890163 1.102051098 0.990837468 1.049382381 0.974421969 1 14.77376572 -5.735432383 3.294685261 0.960463494 1.044009255 0.611260353 0.031854141 0.148763578 3.343577195 0.005546411 0.011313021 1.84E-06 5.735432383 0.08354576 LGVSVS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 6 LGVSVSPSR 9 0 E7ERS3;Q86VM9;H3BP01 E7ERS3 ZC3H18 Zinc finger CCCH domain-containing protein 18 1 0 LGVS(0.001)VS(0.994)PS(0.005)R;LGVS(0.005)VS(0.987)PS(0.007)R;LGVSVS(0.995)PS(0.005)R;LGVS(0.001)VS(0.997)PS(0.002)R;LGVSVS(0.977)PS(0.023)R;LGVS(0.007)VS(0.983)PS(0.01)R ;;;;; 136.49 0.0014055 1168450300 13569.7 13923.1 12017.7 12860.8 13321.6 14329.3 15618.8 13490 14337.4 11811.5 TRUE FALSE FALSE 14997.02331 14374.21758 13655.40957 13109.73938 12300.90189 13108.36303 13861.33152 13144.94533 14237.62487 12320.75157 1.217216598 1.166667268 1.108326022 1.064037312 0.998388923 1.063925602 1.125039446 1.066894764 1.155580874 1 13.58880264 -6.268611944 6.985187941 1.111439628 1.063391349 0.201006889 0.06053919 0.346759691 108.5600224 0.013600034 0.021514958 5.39E-07 6.268611944 -0.04804828 LGVTVLSR ddPTM_HeLa_SAHA_4h_R1 2 LGVTVLSR 8 0 O75828 O75828 CBR3 Carbonyl reductase [NADPH] 3 0 0 ; ; 161.11 2.99E-07 14614100 3702.4 4180 4260.6 4225.6 4328.1 2888.9 4995.9 1514.88 2465 3456.1 FALSE FALSE TRUE 4091.835419 4315.434743 4841.21238 4307.392598 3996.481913 2642.749467 4433.748184 1476.131563 2447.845864 3605.109385 1.13501006 1.197032956 1.342875309 1.194802193 1.108560514 0.733056666 1.229851222 0.409455416 0.678993507 1 11.81582732 -4.254186387 24.87281804 1.090417423 0.409455071 0.483951894 0.203201672 413.2842199 1417245.465 0.022022244 0.300965105 5.57E-05 4.254186387 -0.680962351 LGVVEK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 LGVVEKK 7 1 O15228-2;O15228 O15228-2 GNPAT Dihydroxyacetone phosphate acyltransferase 0 1 ; LGVVEK(1)K;LGVVEK(1)K 85.212 0.014823 6647400 5560.6 7998 6261.1 4810 6874.3 7616 7928.2 6982.8 4198.8 6763 FALSE TRUE FALSE 6145.489421 8257.140448 7114.330102 4903.104505 6347.592619 6967.073954 7036.09807 6804.190087 4169.580209 7054.586027 0.871133954 1.170464208 1.008468828 0.695023703 0.899782439 0.987595009 0.997379299 0.964505934 0.591045342 1 12.78434571 -9.792019108 1.788047083 1.000177713 0.936237008 0 0.17203281 1.199957397 6.93617877 0.088002274 0.018408991 1.61E-10 9.792019108 -0.063940706 LGYLVS(ph)PPQQIR ddPTM_HeLa_SAHA_4h_R1 1 LGYLVSPPQQIR 12 0 A0A2R8Y880;Q7Z6E9-2;Q7Z6E9;H3BSK8 A0A2R8Y880 RBBP6 E3 ubiquitin-protein ligase RBBP6 1 0 LGYLVS(1)PPQQIR 113.95 0.0023142 6005900 888.56 857.03 794.87 1007.2 1053.5 1089.5 912.32 943.26 1055.7 949.25 TRUE FALSE FALSE 982.0228177 884.7983343 903.1907441 1026.695812 972.7810576 996.6684706 809.6633525 919.132775 1048.353298 990.176813 0.991765112 0.893576099 0.912150974 1.036881291 0.982431668 1.006556059 0.817695731 0.92825116 1.058753633 1 9.951542356 -1 0.301950555 0.994761901 0.023838018 0.22441811 0.061536235 51.46812776 0.6584055 0.021577871 27.42919896 0.1 1 -0.970923883 LHELRIARLRQEER ddPTM_HeLa_SAHA_4h_R1 1 LHELRIARLRQEER 14 3 Q9BYN8 Q9BYN8 MRPS26 "28S ribosomal protein S26, mitochondrial" 0 0 83.617 0.0068658 66301000 6053.1 5485.6 6173 6925.7 7512.8 4883.4 8058.3 5428.7 7197.7 7490.9 FALSE FALSE TRUE 6689.792831 5663.337039 7014.224292 7059.756938 6937.170887 4467.306847 7151.558876 5289.841715 7147.61062 7813.869359 0.856143419 0.724780103 0.897663369 0.903490526 0.887802261 0.571715067 0.915239115 0.67698108 0.914733827 1 12.93182142 -13.52287872 0.089523776 1.684422694 0.62708352 0.275174761 0.107120309 111.1404444 0.75407068 14.51827191 1.257018499 3.00E-14 13.52287872 -1.057339174 LHFFMPGFAPLTAR ddPTM_HeLa_SAHA_4h_R1 4 LHFFMPGFAPLTAR 14 0 A0A0B4J269;Q13509;Q13509-2 A0A0B4J269 TUBB3 Tubulin beta-3 chain 0 0 ;;; ;;; 122.39 0.00039918 5935770 2792.68 2856.42 7931.81 4110.97 4635.6 515.92 5271.19 457.92 733.47 1810.923 FALSE FALSE TRUE 3086.426896 2948.969882 9012.71576 4190.543769 4280.421329 471.9607135 4678.061828 446.2070695 728.3657226 1889.000753 1.633893947 1.561126896 4.771155197 2.218391794 2.265971214 0.249846758 2.476474306 0.236213283 0.385582547 1 10.88340756 -4.236812137 22.53289958 1.668424645 0.236206677 0.119830189 1.227067703 3221.130666 2947021.085 0.165813561 11.75363122 5.80E-05 4.236812137 -1.432217968 LHFFMPGFAPLTSR ddPTM_HeLa_SAHA_4h_R1 8 LHFFMPGFAPLTSR 14 0 P68371;Q3ZCM7;A0A075B736;Q5SQY0;A6NNZ2;P04350;P07437;Q5JP53;Q5ST81;Q9BVA1;Q13885;K7ESM5;Q9BUF5 P68371;P04350;P07437;Q9BVA1;K7ESM5 TUBB4B;TUBB8;TUBB4A;TUBB;TUBB2B;TUBB2A;TUBB6 Tubulin beta-4B chain;Tubulin beta-8 chain;Tubulin beta-8 chain-like protein LOC260334;Tubulin beta-4A chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain;Tubulin beta-6 chain 0 0 ;;;;;;; ;;;;;;; 140.91 6.82E-05 719872900 10679.485 16893.04 18081.68 16256.6 16636.44 174.9229 20092.35 3294.346 1703.497 8806.79 FALSE FALSE TRUE 11802.80223 17440.38558 20545.75719 16571.27 15361.75956 160.0184848 17831.5059 3210.081399 1691.642226 9186.493816 1.284799453 1.898481176 2.236517827 1.8038732 1.672211386 0.017418886 1.941056757 0.349434884 0.184144491 1 13.16529862 LHGELQDR ddPTM_HeLa_SAHA_4h_R1 3 LHGELQDR 8 0 Q9NR30;Q9NR30-2 Q9NR30 DDX21 Nucleolar RNA helicase 2 0 0 ;; ;; 153.08 0.00018451 14608900 3348.91 2784.87 2338.01 3330.18 2830.39 713.12 3333.56 3076.75 2478.77 2751.94 FALSE FALSE TRUE 3701.163719 2875.101615 2656.621827 3394.640449 2613.52613 652.3581641 2958.459055 2998.05119 2461.520038 2870.589601 1.289339207 1.001571807 0.925462081 1.18255861 0.910449243 0.22725581 1.030610246 1.044402582 0.857496326 1 11.48713137 -5.532929566 11.8850172 1.111182654 0.756313188 0.172380016 0.244580578 0.381691411 444.634251 0.034776257 0.070330492 2.93E-06 5.532929566 -0.354869466 LHIIEVGTPPTGNQPFPK ddPTM_HeLa_SAHA_4h_R1 1 LHIIEVGTPPTGNQPFPK 18 0 A0A087WVQ6;Q00610-2;Q00610 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 174.59 3.42E-13 948110 692.31 636.06 744.5 705.62 764.51 124.29 960.45 764.57 907.77 522.31 FALSE FALSE TRUE 765.1303422 656.6687613 845.9565828 719.2782954 705.933409 113.6997928 852.3776382 745.0134065 901.4527547 544.8293402 1.404348639 1.205274226 1.552700122 1.32019009 1.295696389 0.208688821 1.564485565 1.367425268 1.654559856 1 9.089660587 LHKTEDGGWEWS(ph)DDEFDEESEEGK ddPTM_HeLa_SAHA_4h_R1 3 LHKTEDGGWEWSDDEFDEESEEGK 24 1 C9JIG9;O95747 C9JIG9 OXSR1 Serine/threonine-protein kinase OSR1 1 0 LHKTEDGGWEWS(0.999)DDEFDEES(0.001)EEGK;LHKTEDGGWEWS(1)DDEFDEESEEGK;LHKT(0.002)EDGGWEWS(0.996)DDEFDEES(0.002)EEGK ;; 85.062 8.36E-05 22125500 6469.7 7121.5 6342.8 8934 8082.4 1149.18 8513.8 6578.5 9872 10419.6 TRUE FALSE FALSE 7150.21273 7352.241273 7207.163752 9106.930489 7463.128258 1051.263399 7555.804817 6410.231496 9803.299948 10868.83995 0.657863467 0.676451333 0.663103311 0.837893513 0.686653617 0.096722686 0.695180429 0.589780651 0.901963779 1 13.40791035 -13.52287875 0.129972088 2.410298825 0.420377347 0.395038035 0.178386096 56.6370307 0.522093879 20.58477088 0.656888079 3.00E-14 13.52287875 -1.989921478 LHKTEDGGWEWS(ph)DDEFDEESEEGKAAISQLR ddPTM_HeLa_SAHA_4h_R1 2 LHKTEDGGWEWSDDEFDEESEEGKAAISQLR 31 2 C9JIG9;O95747 C9JIG9 OXSR1 Serine/threonine-protein kinase OSR1 1 0 LHKT(0.004)EDGGWEWS(0.996)DDEFDEESEEGKAAISQLR;LHKT(0.001)EDGGWEWS(0.962)DDEFDEES(0.036)EEGKAAISQLR ; 82.541 9.82E-07 24193000 3526.6 2246.58 3514.5 3870.7 4168.5 707.09 3616.5 3623.7 2905.9 3884.1 TRUE FALSE FALSE 3897.543969 2319.370666 3993.437757 3945.622996 3849.110431 646.841954 3209.561902 3531.011001 2885.677605 4051.562559 0.961985385 0.572463249 0.985653732 0.973852171 0.950031099 0.159652466 0.792178784 0.871518321 0.712238195 1 11.9842627 -6.363988884 0.466344703 0.998588429 0.651148248 0 0.2508141 1.415373145 0.605772382 0.076191587 0.203847456 4.33E-07 6.363988884 -0.347440181 LHLGFIEIR ddPTM_HeLa_SAHA_4h_R1 2 LHLGFIEIR 9 0 Q96HJ9-2;A0A0A6YYJ8;Q9Y383-3;Q9Y383-2;Q9Y383 Q96HJ9-2 LUC7L2 Putative RNA-binding protein Luc7-like 2 0 0 ; ; 120.99 0.00097339 3557200 1346.59 1502.24 2175 2245.53 1815.72 17.979 2359.4 814.28 746.61 1579.92 FALSE FALSE TRUE 1488.230515 1550.913562 2471.397673 2288.99548 1676.599926 16.44708805 2093.914102 793.4518967 741.4142802 1648.038083 0.903031629 0.941066579 1.499599857 1.388921472 1.017330815 0.009979799 1.270549585 0.481452404 0.44987691 1 10.68653387 -5.465901958 24.99997576 1.031806003 0.631983593 0.208671707 0.390915209 322.4050753 141462.6661 0.048079924 0.107509655 3.42E-06 5.465901958 -0.39982241 LHPDGS(ph)PDVAGEK ddPTM_HeLa_SAHA_4h_R1 2 LHPDGSPDVAGEK 13 0 Q7Z2Z1-2;Q7Z2Z1 Q7Z2Z1-2 TICRR Treslin 1 0 LHPDGS(1)PDVAGEK;LHPDGS(1)PDVAGEK ; 157.09 7.52E-05 21172900 5751.2 5075.1 4263.3 4911.4 5676.7 617.6 5781.2 6006 5148.7 5104.2 TRUE FALSE FALSE 6356.137603 5239.53657 4844.280322 5006.467249 5241.752472 564.9770055 5130.684161 5852.375217 5112.869777 5324.267041 1.193805186 0.984085984 0.90984924 0.940311072 0.984502173 0.106113574 0.963641403 1.099188897 0.960295518 1 12.37836722 -6.265217655 1.233755477 1.086399232 0.761603292 0.134573296 0.261119997 0.508382641 1.525495195 0.044324392 0.086787627 5.43E-07 6.265217655 -0.324795941 LHPSSVPGPDFS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 LHPSSVPGPDFSK 13 0 Q14094-2;H0YA27;Q14094 Q14094-2 CCNI Cyclin-I 1 0 LHPSSVPGPDFS(1)K 83.045 0.012945 4562000 1381.6 1594.5 1479 1270.1 1097.7 1558 2151.8 1288.3 1391.8 1205.4 TRUE FALSE FALSE 1526.923027 1646.162846 1680.550418 1294.684622 1013.594463 1425.249635 1909.673801 1255.347151 1382.11435 1257.370693 1.214377777 1.309210446 1.33655924 1.029676156 0.806122227 1.13351587 1.518783451 0.998390656 1.099209929 1 10.29619433 -9.301853269 1.09474054 1.002645817 1.174161003 0.049460245 0.190321676 0.960526072 2.108268766 0.121462802 0.034540633 4.99E-10 9.301853269 0.171515186 LHS(ph)SNPNLSTLDFGEEK ddPTM_HeLa_SAHA_4h_R1 1 LHSSNPNLSTLDFGEEK 17 0 Q9H4L5-7;Q9H4L5-5;Q9H4L5-3;Q9H4L5;Q9H4L5-8;Q9H4L5-6;Q9H4L5-4;Q9H4L5-2 Q9H4L5-7 OSBPL3 Oxysterol-binding protein-related protein 3 1 0 LHS(0.5)S(0.5)NPNLSTLDFGEEK 206.13 1.00E-15 17240000 1000.1 1027.7 855.2 1085.5 1205.1 148.98 888.6 1021.6 917.54 1062.5 TRUE FALSE FALSE 1105.295107 1060.998154 971.7422023 1106.511422 1112.765498 136.2860659 788.6123893 995.4689513 911.1547644 1108.309575 0.997280121 0.957312089 0.876778677 0.998377572 1.004020468 0.122967507 0.711545228 0.898186729 0.822112147 1 10.1141452 LHS(ph)SNPNLSTLDFGEEKNYSDGSETSSEFSK ddPTM_HeLa_SAHA_4h_R1 1 LHSSNPNLSTLDFGEEKNYSDGSETSSEFSK 31 1 Q9H4L5-7;Q9H4L5-5;Q9H4L5-3;Q9H4L5;Q9H4L5-8;Q9H4L5-6;Q9H4L5-4;Q9H4L5-2 Q9H4L5-7 OSBPL3 Oxysterol-binding protein-related protein 3 1 0 LHS(0.418)S(0.418)NPNLS(0.081)T(0.081)LDFGEEKNY(0.001)SDGSETSSEFSK 56.234 0.0021497 6136800 1077.1 979.81 1023.6 708.59 905.62 168.42 1093.8 751.28 495.18 983.93 TRUE FALSE FALSE 1190.39432 1011.556487 1163.090877 722.3057841 836.2315912 154.0696685 970.7227453 732.0633454 491.7340021 1026.352038 1.159830425 0.985584332 1.13322801 0.703760267 0.814760979 0.150113862 0.945799014 0.713267299 0.479108516 1 10.00330994 -6.187120166 4.129699751 1.073408342 0.652800952 0.148049025 0.273469189 0.140759069 4.621523077 0.029203115 0.049142276 6.50E-07 6.187120166 -0.42060739 LHS(ph)SSLELGPRPLEQENER ddPTM_HeLa_SAHA_4h_R1 1 LHSSSLELGPRPLEQENER 19 1 Q86X02 Q86X02 CDR2L Cerebellar degeneration-related protein 2-like 1 0 LHS(0.489)S(0.489)S(0.022)LELGPRPLEQENER 58.712 0.014564 16199000 135.61 135.64 55.172 0 0 0 67.497 0 0 0 TRUE FALSE FALSE 149.874082 140.034825 62.69055284 0 0 0 59.90205992 0 0 0 0 LHSS(ph)NPNLSTLDFGEEK ddPTM_HeLa_SAHA_4h_R1 1 LHSSNPNLSTLDFGEEK 17 0 Q9H4L5-7;Q9H4L5-5;Q9H4L5-3;Q9H4L5;Q9H4L5-8;Q9H4L5-6;Q9H4L5-4;Q9H4L5-2 Q9H4L5-7 OSBPL3 Oxysterol-binding protein-related protein 3 1 0 LHS(0.012)S(0.988)NPNLSTLDFGEEK 238.81 2.10E-36 13532000 2236.9 3134.7 2330.3 2528.2 3177 426.55 2844.2 2365.4 3025.7 2962 TRUE FALSE FALSE 2472.187405 3236.266337 2647.861148 2577.136967 2933.578946 390.2055403 2524.16313 2304.896493 3004.643907 3089.706316 0.800136697 1.047434936 0.856994445 0.834104185 0.949468541 0.126292113 0.816958919 0.745992097 0.972469096 1 11.593254 LHSS(ph)SLELGPRPLEQENER ddPTM_HeLa_SAHA_4h_R1 1 LHSSSLELGPRPLEQENER 19 1 Q86X02 Q86X02 CDR2L Cerebellar degeneration-related protein 2-like 1 0 LHS(0.124)S(0.562)S(0.314)LELGPRPLEQENER 67.685 0.0074041 15335000 202.91 261.12 124.84 206.48 142.03 171.02 169.26 191.21 134.24 125.68 TRUE FALSE FALSE 224.2530048 269.5804593 141.8525451 210.476719 131.1476921 156.4481339 150.2144193 186.3191251 133.3058129 131.0986799 1.71056646 2.056317116 1.082028783 1.605483131 1.000373857 1.193361627 1.145811838 1.421212824 1.016835662 1 7.034509348 -5.758241909 24.9925775 1.399167272 1.187246746 0.098614404 0.326938286 192.3029844 1503084.741 0.054239529 0.104945509 1.74E-06 5.758241909 -0.211920525 LHSYS(ph)SPSTK ddPTM_HeLa_SAHA_4h_R1 4 LHSYSSPSTK 10 0 A0A494C001;A0A499FJY3;A0A087WWP4;Q96T37-4;Q96T37-2;Q96T37-3;Q96T37 A0A494C001 RBM15 Putative RNA-binding protein 15 1 0 LHS(0.011)YS(0.941)S(0.049)PSTK;LHSYS(0.642)S(0.355)PS(0.002)TK;LHSYS(0.938)S(0.062)PSTK;LHSYS(0.685)S(0.315)PSTK ;;; 105.03 0.005625 116198000 26856.4 31990.1 20671.4 29278 33687.3 2162.38 32802.5 32675.3 33635.3 31437.7 TRUE FALSE FALSE 29681.27937 33026.60023 23488.39074 29844.71803 31106.18635 1978.133059 29111.47637 31839.51314 33401.22921 32793.1331 0.905106544 1.007119391 0.716259428 0.910090473 0.948557927 0.060321563 0.887730864 0.970920133 1.018543398 1 15.00110612 -6.181343495 1.063033198 0.956897318 0.68980789 0.160228971 0.250781488 0.6691591 1.493179765 0.042727898 0.093245327 6.59E-07 6.181343495 -0.267089428 LHTDDELNWLDHGR ddPTM_HeLa_SAHA_4h_R1 4 LHTDDELNWLDHGR 14 0 Q9Y490 Q9Y490 TLN1 Talin-1 0 0 ;;; ;;; 186.51 9.05E-09 58732000 5940.8 5796.1 5323.6 6843.1 7421.1 584.514 7072.3 5216.57 7188.2 6320.1 FALSE FALSE TRUE 6565.680601 5983.897443 6049.072484 6975.558096 6852.496921 534.7101188 6276.506191 5083.137693 7138.176731 6592.590441 0.995918169 0.907670133 0.917556238 1.058090618 1.03942403 0.081107741 0.952054621 0.771037992 1.082757498 1 12.68662974 LHVAILER ddPTM_HeLa_SAHA_4h_R1 2 LHVAILER 8 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;E9PMV1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 110.12 0.001692 10856200 5227.1 5220.6 9175.9 8457.2 8022.6 270.766 8230.4 3382.2 3097 4406.5 FALSE FALSE TRUE 5776.910361 5389.750865 10426.34387 8620.901335 7407.910121 247.6952135 7304.293731 3295.688221 3075.447725 4596.48578 1.256810232 1.172580777 2.268329408 1.875541827 1.611646479 0.053887954 1.589103955 0.717001722 0.669086748 1 12.16631556 LHVAVK ddPTM_HeLa_SAHA_4h_R1 1 LHVAVK 6 0 Q12906;Q12906-7;Q12906-5;Q12906-4;Q12906-2;Q12906-6;Q12906-3;Q96SI9-2;Q96SI9 Q12906 ILF3;STRBP Interleukin enhancer-binding factor 3;Spermatid perinuclear RNA-binding protein 0 0 74.949 0.019706 4165000 17589 14623 13792 18785 15853 569.45 18816 15223 10990 14301 FALSE FALSE TRUE 19439.09172 15096.79479 15671.50193 19148.61084 14638.34656 520.9296564 16698.77416 14833.6177 10913.5197 14917.5861 1.303099013 1.01201325 1.050538729 1.283626635 0.981281185 0.034920506 1.119401896 0.994371181 0.731587512 1 13.86472648 -5.513436517 24.81766794 1.136435578 0.715140378 0.179816986 0.309663367 369.6285008 971519.1007 0.040294223 0.084401104 3.07E-06 5.513436517 -0.421295201 LHVGNIS(ph)PTCTNK ddPTM_HeLa_SAHA_4h_R1 1 LHVGNISPTCTNK 13 0 E9PB51;Q9BWF3;D6R9K7;J3QRR5;Q9BWF3-3;Q9BWF3-4;Q9BWF3-2 E9PB51 RBM4 RNA-binding protein 4 1 0 LHVGNIS(0.835)PT(0.165)CTNK 139.21 0.00032954 20943000 4606.6 4387.5 4342.8 5079.1 4668 136.75 5022 4832.4 5040.6 4031 TRUE FALSE FALSE 5091.143324 4529.657879 4934.614168 5177.413325 4310.338848 125.0981307 4456.911343 4708.794205 5005.522054 4204.796137 1.21079433 1.077259808 1.173567994 1.231311378 1.025100554 0.029751295 1.059958961 1.119862664 1.190431567 1 12.03782014 -5.502116233 24.96896337 1.114959135 0.728627477 0.293313909 0.282447092 741.2210891 891390.6928 0.039158174 0.086630252 3.15E-06 5.502116233 -0.386331657 LHVGNIS(ph)PTCTNQELR ddPTM_HeLa_SAHA_4h_R1 1 LHVGNISPTCTNQELR 16 0 Q9BQ04;E9PLB0;E9PM61;U3KQD5 Q9BQ04 RBM4B RNA-binding protein 4B 1 0 LHVGNIS(0.997)PT(0.001)CT(0.002)NQELR 90.765 0.0050591 4635400 930.66 956.6 869.09 1333.7 1015.5 941.13 1282.2 1127.6 1315.8 1233.5 TRUE FALSE FALSE 1028.551089 987.5944676 987.5250592 1359.515692 937.6926094 860.9404293 1137.923481 1098.757625 1306.643241 1286.682222 0.799382374 0.767551188 0.767497244 1.05660564 0.728767829 0.669116597 0.884385797 0.85394638 1.015513558 1 10.32944007 -9.200061848 0.825956368 1.006492276 0.81457292 0.368214352 0.099650915 0.64310021 0.750416656 0.078928522 0.019577396 6.31E-10 9.200061848 -0.191919356 LHVGNISPT(ph)CTNK ddPTM_HeLa_SAHA_4h_R1 1 LHVGNISPTCTNK 13 0 E9PB51;Q9BWF3;D6R9K7;J3QRR5;Q9BWF3-3;Q9BWF3-4;Q9BWF3-2 E9PB51 RBM4 RNA-binding protein 4 1 0 LHVGNIS(0.404)PT(0.579)CT(0.017)NK 140.77 0.00041578 19296000 5150.5 4922.1 5060.7 6154.8 6091.2 282.89 6859.9 6591 6319.4 5416.4 TRUE FALSE FALSE 5692.253221 5081.57927 5750.345841 6273.935054 5624.493572 258.7861805 6088.005998 6422.411764 6275.422781 5649.927511 1.007491372 0.8994061 1.017773384 1.11044523 0.99549836 0.045803451 1.07753701 1.136724631 1.110708548 1 12.46401664 -5.465566539 24.99997794 1.004818727 0.741586421 0.157908426 0.280497873 380.0747395 165790.5334 0.037817174 0.084561547 3.42E-06 5.465566539 -0.263232306 LHYCVSCAIHSK ddPTM_HeLa_SAHA_4h_R1 2 LHYCVSCAIHSK 12 0 P62854;Q5JNZ5 P62854 RPS26;RPS26P11 40S ribosomal protein S26;Putative 40S ribosomal protein S26-like 1 0 0 ; ; 155 2.15E-07 6506600 3454.1 6291.5 3670.2 5759 7406.5 539.36 9917.6 4435.6 3220.2 5335.1 FALSE FALSE TRUE 3817.418086 6495.348728 4170.355742 5870.473773 6839.01557 493.4034936 8801.645546 4322.143775 3197.790366 5565.12227 0.685954037 1.167152924 0.749373606 1.054868786 1.228906615 0.088659956 1.581572716 0.776648484 0.574612778 1 12.44219767 -7.283404222 24.81858285 0.85170054 0.947882011 0.03396384 0.38383538 3395.897312 3837092.86 0.060050263 0.068702713 5.21E-08 7.283404222 0.096181471 LIAMK(ac)TEK ddPTM_HeLa_SAHA_4h_R1 2 LIAMKTEK 8 1 E7EWM1;Q15596 E7EWM1 NCOA2 Nuclear receptor coactivator 2 0 1 ; LIAMK(1)TEK;LIAMK(1)TEK 98.033 0.011482 3000700 2181.51 2745.64 3455.9 3130.8 2867.5 2030.42 3349.3 1181.87 1459.54 2127 FALSE TRUE FALSE 2410.971231 2834.600537 3926.852054 3191.401161 2647.792769 1857.416793 2972.427949 1151.639477 1449.382942 2218.705379 1.086656774 1.277592133 1.769884407 1.438406916 1.193395389 0.837162433 1.339712779 0.519059217 0.653256154 1 11.11550239 -5.27348313 23.75914759 1.155452735 0.942751603 0.135350923 0.332158003 751.1765224 1481874.615 0.045571256 0.102723876 5.33E-06 5.27348313 -0.212701132 LIAPVAEEEATVPNNK ddPTM_HeLa_SAHA_4h_R1 4 LIAPVAEEEATVPNNK 16 0 A0A5F9ZHM4;P07195;A0A3B3IS95;A8MW50;C9J7H8;F5H793 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain;L-lactate dehydrogenase 0 0 ;;; ;;; 312.95 2.56E-101 34086800 9008.48 7679.01 8047.11 8732.78 8086.26 10226.49 9759.31 9497.05 9915.34 8239.15 FALSE FALSE TRUE 9956.033259 7927.814962 9143.728243 8901.815585 7466.692506 9355.135519 8661.166754 9254.129213 9846.338342 8594.380078 1.158435299 0.922441746 1.063919464 1.035771691 0.868787794 1.08851778 1.007770971 1.07676518 1.145671736 1 13.06917786 -7.263482462 24.98419399 1.074816667 1.009872755 0.209480411 0.077081165 307.2310827 3757009.127 0.014080283 0.016533048 5.45E-08 7.263482462 -0.064943912 LIAS(ph)LIPMTS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 LIASLIPMTSR 11 0 F5GYU8;Q6UXY8-2;Q6UXY8;H3BN68;Q6UXY8-3 F5GYU8 TMC5 Transmembrane channel-like protein;Transmembrane channel-like protein 5 2 0 LIAS(0.818)LIPMT(0.363)S(0.818)R 93.143 0.017653 2738800 311.68 543.92 421.46 316.73 288.05 402.65 552.65 464.64 484.53 538.29 TRUE FALSE FALSE 344.4639324 561.5433649 478.8943739 322.8607671 265.9796712 368.3419548 490.4643675 452.7551816 481.1581163 561.4983162 0.613472779 1.000080229 0.852886572 0.574998638 0.473696294 0.655998325 0.873492143 0.806333997 0.856918182 1 9.133137886 -6.28162997 24.03035118 0.831852067 0.675374714 0.279915573 0.145897419 754.2302931 897664.8571 0.028950176 0.044261974 5.23E-07 6.28162997 -0.156477353 LIDFLECGK ddPTM_HeLa_SAHA_4h_R1 2 LIDFLECGK 9 0 P17844-2;P17844;J3KTA4;J3QSF1;J3KRZ1 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 0 0 ; ; 115.7 0.0063654 1157860 2496.1 2208 2129.2 3227.7 3211.4 4000.2 3464 2903.1 2763.5 3660.3 FALSE FALSE TRUE 2758.651251 2279.540649 2419.356288 3290.176801 2965.343226 3659.360455 3074.221603 2828.842906 2744.268578 3818.113446 0.722516837 0.597033242 0.633652279 0.861728403 0.776651419 0.958421091 0.805167695 0.740900695 0.718749879 1 11.89864425 -9.241840088 1.039784149 0.996346366 0.763540292 0 0.129875476 0.407205888 0.807689014 0.066925311 0.019610265 5.73E-10 9.241840088 -0.232806075 LIDFLESGK ddPTM_HeLa_SAHA_4h_R1 1 LIDFLESGK 9 0 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 0 0 120.12 0.0049224 443430 531.38 639.08 433 408.36 607.92 577.93 383.89 663.06 483.45 606.49 FALSE FALSE TRUE 587.2729865 659.7866113 492.006985 416.2643983 561.3413009 528.6871127 340.6936869 646.0998853 480.0856321 632.638752 0.9282912 1.042912103 0.77770605 0.657981189 0.88730148 0.835685628 0.538528008 1.021277756 0.758862195 1 9.30523812 -6.747434169 24.6274812 0.970949444 0.776133428 0.183200129 0.141153322 148.4212992 260990.7268 0.017961909 0.025325589 1.79E-07 6.747434169 -0.194816015 LIDLES(ph)PTPESQK ddPTM_HeLa_SAHA_4h_R1 6 LIDLESPTPESQK 13 0 O43166-3;O43166-2;O43166;F5GYF8 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 LIDLES(0.973)PT(0.027)PESQK;LIDLES(0.896)PT(0.104)PESQK;LIDLES(0.561)PT(0.439)PESQK;LIDLES(0.92)PT(0.08)PES(0.001)QK;LIDLES(0.981)PT(0.019)PESQK;LIDLES(0.992)PT(0.008)PESQK ;;;;; 260.5 2.08E-42 274415500 17364.51 16894 18096.7 18449.2 18781 22102.6 21004.4 20611.4 17009.43 16751.6 TRUE FALSE FALSE 19190.98883 17441.37668 20562.82403 18806.31094 17342.00384 20219.33413 18640.92963 20084.19023 16891.05999 17473.84346 1.098269472 0.998141979 1.176777398 1.076254975 0.99245503 1.157120023 1.066790468 1.149385954 0.966648238 1 14.09290935 -13.52287875 0.223297951 0.5130578 1.102609895 0.349399515 0.058647751 47.86312277 0.609844209 10.19092125 0.04272426 3.00E-14 13.52287875 0.589552095 LIDLHSPSEIVK ddPTM_HeLa_SAHA_4h_R1 2 LIDLHSPSEIVK 12 0 P60866;P60866-2;G3XAN0 P60866 RPS20 40S ribosomal protein S20 0 0 ; ; 108.35 0.0025064 4595100 3679.8 3492.6 3155.4 4030.4 4212.5 3583.8 4269.5 3125.8 2673.5 3121.2 FALSE FALSE TRUE 4066.858248 3605.762532 3585.401479 4108.41422 3889.73916 3278.440078 3789.084623 3045.846562 2654.894896 3255.770207 1.249123246 1.107499087 1.101245251 1.261887037 1.194721652 1.006962983 1.163805915 0.935522586 0.81544296 1 11.66878316 -3.635741213 1.886541471 1.128633105 6.38E-12 0.083556156 0.130400007 10.86898695 6.966543188 0.01528646 38.95674513 0.000231344 3.635741213 -1.128633105 LIEDTEDWRPR ddPTM_HeLa_SAHA_4h_R1 2 LIEDTEDWRPR 11 1 Q96HC4;H0Y8Y3;Q96HC4-7;Q96HC4-4;Q96HC4-6;H0YBI4;Q96HC4-3;Q96HC4-2 Q96HC4 PDLIM5 PDZ and LIM domain protein 5 0 0 ; ; 210.08 6.41E-11 39395000 5041.3 5143.9 5603.7 5947.8 6238.7 7252.2 6501.8 4921.4 6737.2 5826.2 FALSE FALSE TRUE 5571.567064 5310.565735 6367.343053 6062.92827 5760.692154 6634.27176 5770.200352 4795.517714 6690.315277 6077.395995 0.916768805 0.873822561 1.047709094 0.99761942 0.947888234 1.091630653 0.949452752 0.789074419 1.100852286 1 12.56923758 -4.275855203 4.877668711 0.970174455 0.781257047 0.387967613 0.072264456 0.117131426 7.992382506 0.008586618 0.07244718 5.30E-05 4.275855203 -0.188917408 LIEEVMIGEDK ddPTM_HeLa_SAHA_4h_R1 2 LIEEVMIGEDK 11 0 P78371;F5GWF6;P78371-2;F8VQ14 P78371 CCT2 T-complex protein 1 subunit beta 0 0 ; ; 154.24 0.0021848 5590800 4531.6 2404.2 2313.5 4164.1 3272.9 4104 3104.3 3266.5 3951.9 3396.3 FALSE FALSE TRUE 5008.25448 2482.097657 2628.771732 4244.702177 3022.131109 3754.316112 2754.995994 3182.94766 3924.398406 3542.731114 1.413670504 0.700617004 0.742018417 1.198144042 0.853051223 1.059723696 0.7776475 0.898444606 1.107732503 1 11.79064626 -7.258868331 24.99263824 1.195344403 0.896904786 0.366540044 0.170124429 201.1917559 1955744.196 0.033960047 0.040591422 5.51E-08 7.258868331 -0.298439617 LIES(ph)PFER ddPTM_HeLa_SAHA_4h_R1 4 LIESPFER 8 0 E9PDC2;A0A088AWP5;Q8WUY3-4;Q8WUY3;Q8WUY3-2;Q8WUY3-3;H7BZH9 E9PDC2 PRUNE2 Protein prune homolog 2 1 0 LIES(1)PFER;LIES(1)PFER;LIES(1)PFER;LIES(1)PFER ;;; 142.36 0.00064918 39012000 4806.38 5054.75 4739.53 5044.27 5598.69 5624.99 4800.19 4549.55 5545.97 5219.17 TRUE FALSE FALSE 5311.937101 5218.527217 5385.408466 5141.90914 5169.719582 5145.709207 4260.059988 4433.179099 5507.375143 5444.193961 0.975706806 0.958549099 0.989202167 0.944475744 0.949584019 0.945173747 0.782495998 0.814294849 1.011605241 1 12.41050275 -4.843522102 3.804585608 0.979506391 0.796550431 0.906272523 0.022378574 0.044325271 1.224655304 0.003347389 0.01166606 1.43E-05 4.843522102 -0.18295596 LIESLS(ph)PDFCHQNK ddPTM_HeLa_SAHA_4h_R1 2 LIESLSPDFCHQNK 14 0 Q9H6R7-2;Q9H6R7 Q9H6R7-2 C2orf44 WD repeat and coiled-coil-containing protein C2orf44 1 0 LIES(0.071)LS(0.929)PDFCHQNK;LIES(0.019)LS(0.981)PDFCHQNK ; 109.04 0.0019249 20637900 6237.2 6498.4 6062.4 7060.1 8010 8217.8 8305.9 8036.3 7494 6950.3 TRUE FALSE FALSE 6893.257313 6708.952424 6888.5523 7196.758445 7396.27553 7517.597208 7371.298272 7830.743082 7441.848644 7249.961447 0.950799168 0.925377669 0.950150197 0.992661616 1.02018136 1.036915474 1.016736203 1.080108238 1.02646734 1 12.82375761 -5.722573878 2.034116936 0.9697672 1.041784598 0.539144412 0.030128096 0.188625681 1.587382111 0.004519325 0.010188344 1.89E-06 5.722573878 0.072017398 LIEVDDER ddPTM_HeLa_SAHA_4h_R1 2 LIEVDDER 8 0 P62753;A2A3R7 P62753 RPS6 40S ribosomal protein S6 0 0 ; ; 164.53 6.23E-05 100750000 7247 7856.3 7709.3 8246 7824.9 8876.2 8563.2 8216.9 7634.6 7318.2 FALSE FALSE TRUE 8009.27271 8110.849275 8759.883256 8405.613254 7225.357852 8119.897824 7599.646199 8006.723596 7581.470197 7633.723416 1.049196083 1.062502377 1.147524318 1.101115772 0.946505062 1.063687716 0.995535964 1.048862155 0.99315495 1 12.8981712 -3.911998022 18.93412153 1.035514137 1.667880554 0 0.055799275 1045.476008 463521.9102 0.007671966 29925.86538 0.000122462 3.911998022 0.632366417 QATSPASK(ac)KPAQEGGK ddPTM_HeLa_SAHA_4h_R1 1 QATSPASKKPAQEGGK 16 2 E9PKP7;P17480-2;P17480 E9PKP7 UBTF Nucleolar transcription factor 1 0 1 QATSPASK(0.987)K(0.013)PAQEGGK 85.469 0.0099746 789360 196.91 284.1 273.94 446.96 587.31 815.49 654.64 664.7 180.27 263.41 FALSE TRUE FALSE 217.6218973 293.3050264 311.2711166 455.6115571 542.3104347 746.0056642 580.9781843 647.6979365 179.0154864 274.7668942 0.792023718 1.06746858 1.132855243 1.658174863 1.973710975 2.715049302 2.114440264 2.357263375 0.651517669 1 8.102064379 -6.00028345 1.35545955 0.908085198 2.376975076 0.926164497 0.184491231 0.068675349 0.250604696 0.02713312 0.059779751 9.99E-07 6.00028345 1.468889878 up LIFQMPQNK ddPTM_HeLa_SAHA_4h_R1 1 LIFQMPQNK 9 0 P46940;H0YLE8;A0A0J9YXZ5;E9PDT6;E7EWC2;F5H7S7;F2Z2E2;Q13576-3;Q13576-2;Q86VI3;Q13576 P46940;Q13576 IQGAP1;IQGAP2;IQGAP3 Ras GTPase-activating-like protein IQGAP1;Ras GTPase-activating-like protein IQGAP2;Ras GTPase-activating-like protein IQGAP3 0 0 133.81 0.0014955 262860 289.7 191.83 190.72 221.44 202.31 245.32 255.63 252.4 165.86 247.85 FALSE FALSE TRUE 320.1719752 198.0454179 216.7103284 225.7262914 186.8090515 224.4173559 226.8658396 245.9439735 164.7057668 258.5360264 1.238403713 0.766026386 0.838221007 0.873094147 0.722564875 0.868031272 0.877501843 0.951294784 0.637070852 1 8.014221521 -7.254870904 24.99837726 1.112579532 0.841139076 0 0.170154498 261.4297652 994952.9428 0.017401865 0.021048133 5.56E-08 7.254870904 -0.271440456 LIFSTITSK ddPTM_HeLa_SAHA_4h_R1 2 LIFSTITSK 9 0 P43686;P43686-2 P43686 PSMC4 26S protease regulatory subunit 6B 0 0 ; ; 190.26 5.40E-17 1887150 1669 1499.66 1837.13 2011.11 1981.74 1737.44 2376.7 1422.76 1312.81 1601.83 FALSE FALSE TRUE 1844.553078 1548.249968 2087.484509 2050.037942 1829.899509 1589.400337 2109.267461 1386.367859 1303.674048 1670.89273 1.103932673 0.926600457 1.249322875 1.226911761 1.095162769 0.951228232 1.262359589 0.829716854 0.780226058 1 10.7064034 -3.255405223 13.93461492 1.065723147 1.091579083 0 0.165733062 0 0 0.0169646 0 0.000555386 3.255405223 0.025855936 LIHPDEDISLEER ddPTM_HeLa_SAHA_4h_R1 4 LIHPDEDISLEER 13 0 J3KS31;J3QRS9;X6R4W8;O43670-3;O43670-2;O43670;O43670-4 J3KS31 ZNF207 BUB3-interacting and GLEBS motif-containing protein ZNF207 0 0 ;;; ;;; 265.75 4.49E-54 26262400 9025.3 8796.7 7320.7 9718.9 10210 4944.59 9705.7 9333 10573.9 8998.6 FALSE FALSE TRUE 9974.622464 9081.718852 8318.326871 9907.023363 9427.712006 4523.283114 8613.589092 9094.275374 10500.31537 9386.573684 1.062647863 0.967522246 0.88619417 1.055446183 1.004382677 0.481888628 0.917649973 0.968859957 1.118652633 1 13.19638292 -5.471480813 24.99998932 1.015374105 0.792426299 0.373541184 0.133027855 264.2613542 128536.5612 0.017665119 0.039500009 3.38E-06 5.471480813 -0.222947806 LIHPDEDISLEERR ddPTM_HeLa_SAHA_4h_R1 2 LIHPDEDISLEERR 14 1 J3KS31;J3QRS9;X6R4W8;O43670-3;O43670-2;O43670;O43670-4 J3KS31 ZNF207 BUB3-interacting and GLEBS motif-containing protein ZNF207 0 0 ; ; 151.13 3.12E-05 10908100 2366.97 1455.91 2085.01 2405.4 2443.7 1056.26 2656.76 1723.88 1677.44 2500.76 FALSE FALSE TRUE 2615.938765 1503.082439 2369.144305 2451.959995 2256.464234 966.2607056 2357.814373 1679.785646 1665.766558 2608.580002 1.002820984 0.576207146 0.908212247 0.939959669 0.865016305 0.370416359 0.903868914 0.643946379 0.638572157 1 11.34904896 -6.583010806 0.455937955 1.02097278 0.663486605 0 0.211555356 0.939786252 0.415068708 0.061567806 0.134232556 2.61E-07 6.583010806 -0.357486175 LIHTLDDR ddPTM_HeLa_SAHA_4h_R1 2 LIHTLDDR 8 0 Q9BXP5-5;Q9BXP5-4;Q9BXP5-2;Q9BXP5-3;Q9BXP5;H7C3A1 Q9BXP5-5 SRRT Serrate RNA effector molecule homolog 0 0 ; ; 153.04 0.00018626 13654300 4479.4 4435.1 4207.1 4611.8 4812.5 3500.3 5662.6 4695.4 4852.4 5114.9 FALSE FALSE TRUE 4950.563844 4578.80015 4780.421678 4701.068058 4443.76729 3202.054748 5025.429345 4575.298467 4818.631753 5335.428371 0.927866237 0.858187915 0.895977107 0.881104146 0.832879196 0.600149515 0.941898006 0.857531607 0.903138683 1 12.38138839 -7.250229983 0.53346297 0.991173518 0.808583728 0.239614498 0.087984054 0.581839599 0.384500162 0.030493503 0.036442805 5.62E-08 7.250229983 -0.18258979 LIIESPS(ph)NTSSTEPA ddPTM_HeLa_SAHA_4h_R1 2 LIIESPSNTSSTEPA 15 0 P38432 P38432 COIL Coilin 1 0 LIIES(0.266)PS(0.73)NT(0.003)S(0.001)S(0.001)TEPA;LIIES(0.272)PS(0.728)NTSSTEPA ; 178.32 3.28E-07 11735500 1909.62 1916.82 1665.93 1907.15 2018.09 2489.3 2530.6 2522.6 2381.7 1988.47 TRUE FALSE FALSE 2110.482593 1978.926226 1892.954265 1944.065646 1863.46438 2277.197636 2245.850228 2458.075545 2365.125556 2074.202673 1.01749102 0.954065989 0.912617792 0.937259252 0.898400337 1.097866503 1.082753512 1.185070088 1.140257693 1 11.01834115 -5.095061707 6.28814196 0.985167298 1.123756296 0.47674903 0.068456776 0.128946461 7.068131298 0.007762852 0.020180828 8.03E-06 5.095061707 0.138588998 LIIESPSNTSS(ph)TEPA ddPTM_HeLa_SAHA_4h_R1 1 LIIESPSNTSSTEPA 15 0 P38432 P38432 COIL Coilin 1 0 LIIESPS(0.001)NT(0.215)S(0.044)S(0.37)T(0.37)EPA 73.985 0.021491 1744800 866.29 752.85 711.24 756.76 737.42 746.13 909.1 791.43 1011.4 693.48 TRUE FALSE FALSE 957.4103569 777.242834 808.1640832 771.4081841 680.9190389 682.5555264 806.8056754 771.1863666 1004.361585 723.3793166 1.32352465 1.074460959 1.117206512 1.066395135 0.941302887 0.943565168 1.115328648 1.066088494 1.388430056 1 9.498608538 -6.336108516 2.012749924 1.150561177 1.018830805 0.293075774 0.117753101 0.450567435 3.566727858 0.021157721 0.035823629 4.61E-07 6.336108516 -0.131730373 LIINSLYK ddPTM_HeLa_SAHA_4h_R1 1 LIINSLYK 8 0 P14625;Q96GW1;A0A1W2PRR1;F8W026 P14625 HSP90B1 Endoplasmin 0 0 101.43 0.014142 457330 1723.4 1800.1 2845.9 3461.3 2075.6 1064.4 1803.1 2301.2 1628.8 1321.4 FALSE FALSE TRUE 1904.675119 1858.424421 3233.724431 3528.298467 1916.567976 973.7071318 1600.210443 2242.338636 1617.465048 1378.372021 1.381829499 1.348274916 2.346046193 2.559757753 1.39045769 0.706418236 1.160942342 1.6268022 1.173460447 1 10.42874961 -8.104244805 1.044444278 1.076841055 1.581242796 0.128785876 0.510891863 0.705250677 1.617029523 0.160118516 0.12132037 7.87E-09 8.104244805 0.50440174 LILEVHQFSR ddPTM_HeLa_SAHA_4h_R1 2 LILEVHQFSR 10 0 A0A087WUZ3;Q01082;Q01082-2;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 0 0 ; ; 115.7 0.0018637 5339400 1963.06 2292.39 2563.15 3012.9 3615 2410.86 3295.7 1088.74 2151 2592.9 FALSE FALSE TRUE 2169.543658 2366.66494 2912.442734 3071.219036 3338.019481 2205.441165 2924.859162 1060.891607 2136.031016 2704.692608 0.802140565 0.87502178 1.076810993 1.135515003 1.23415854 0.815412871 1.081401692 0.392241101 0.789750011 1 11.40124892 -4.253310351 24.7006306 0.953840201 0.392240772 0.579772423 0.148465973 521.7441871 1585313.904 0.021507574 0.31842461 5.58E-05 4.253310351 -0.561599428 LILGLMMPPAHYDAK ddPTM_HeLa_SAHA_4h_R1 4 LILGLMMPPAHYDAK 15 0 E5RK69;P08133-2;P08133;E7EMC6 E5RK69 ANXA6 Annexin;Annexin A6 0 0 ;;; ;;; 115.37 0.00046514 5317480 514.372 876.93 712.27 770.059 734.073 604.83 658.27 320.982 932.04 689.03 FALSE FALSE TRUE 568.476007 905.3431074 809.3344463 784.9646055 677.8284853 553.2950813 584.1997271 312.7717452 925.5538578 718.7374553 0.790936945 1.259629786 1.126050187 1.09214373 0.943082179 0.769815288 0.812813807 0.435168284 1.287749582 1 9.48932106 -4.040710276 1.100662257 0.957775065 9.04E-15 0.509906785 0.172236418 1.705624831 1.202042313 0.024538454 2.119582189 9.11E-05 4.040710276 -0.957775065 LILIESR ddPTM_HeLa_SAHA_4h_R1 2 LILIESR 7 0 P62277 P62277 RPS13 40S ribosomal protein S13 0 0 ; ; 149.4 8.26E-06 6103200 3853 4420.5 5386.5 6885.3 5882.3 5225.9 5962.4 2928 3230.4 4591.5 FALSE FALSE TRUE 4258.276218 4563.7271 6120.544168 7018.574938 5431.599445 4780.62392 5291.49506 2853.106 3207.919383 4789.462035 0.889092801 0.952868415 1.277918924 1.465420309 1.134072972 0.998154675 1.104820337 0.595704899 0.669786995 1 12.2256479 -3.107950889 13.93110009 1.008184495 1.041424893 0 0.246793479 0 0 0.030531445 0 0.000779918 3.107950889 0.033240398 LILQIGR ddPTM_HeLa_SAHA_4h_R1 1 LILQIGR 7 0 A0A096LNJ4;A0A087WX43;A0A096LNL2;D6RE84;A0A096LP10;A0A087WTT9;A0A1B0GVW6;Q9NP73-2;Q9NP73 A0A096LNJ4 ALG13 Putative bifunctional UDP-N-acetylglucosamine transferase and deubiquitinase ALG13 0 0 107.55 0.014808 521070 267.31 586.65 649.88 584.81 602.61 223.95 696.81 180.8 304.33 253.91 FALSE FALSE TRUE 295.4268923 605.6578449 738.442262 596.1298432 556.438152 204.8682001 618.4031049 176.1753978 302.2121428 264.8573027 1.115419093 2.286732662 2.788075898 2.250758567 2.100897904 0.773504064 2.334853895 0.665171003 1.141037607 1 8.049071477 -7.328785019 7.627046294 1.052735976 1.916680278 0.245543734 0.640593711 0.278178292 28.41000449 0.107555699 0.122827378 4.69E-08 7.328785019 0.863944303 LIMGIGHR ddPTM_HeLa_SAHA_4h_R1 3 LIMGIGHR 8 0 P53396;P53396-2;P53396-3 P53396 ACLY ATP-citrate synthase 0 0 ;; ;; 97.602 0.0042557 8958600 7389.92 6258.66 8098.29 8120.06 8917.31 6173.97 9911.1 3613.18 3610.79 6270.49 FALSE FALSE TRUE 8167.225692 6461.44469 9201.882787 8277.235503 8234.067634 5647.913022 8795.876943 3520.760087 3585.662218 6540.841511 1.248650602 0.987861375 1.406834697 1.26546951 1.258869768 0.863484158 1.34476228 0.538273261 0.548195857 1 12.67526054 -4.249246428 24.53703177 1.14400126 0.538272775 0.302015395 0.250415094 883.6853052 1778282.682 0.022988125 0.511913077 5.63E-05 4.249246428 -0.605728485 LIMWALS(ph)DMVVLS(ph)VR ddPTM_HeLa_SAHA_4h_R1 1 LIMWALSDMVVLSVR 15 0 Q9NSI5 Q9NSI5 IGSF5 Immunoglobulin superfamily member 5 2 0 LIMWALS(1)DMVVLS(1)VR 70.056 0.011087 8505500 1443.5 1245.6 973.08 1114.5 1042 1499.4 1085.2 1210.9 1511.2 1458.8 TRUE FALSE FALSE 1595.333953 1285.958257 1105.686275 1136.072759 962.1621851 1371.642685 963.0904399 1179.926931 1500.683436 1521.696007 1.048392021 0.845082231 0.726614429 0.746583256 0.632295925 0.901390736 0.632905939 0.775402528 0.986191348 1 10.57146446 -7.064867724 3.007953491 1.022920492 0.735098961 0.73692464 0.073414614 0.081496153 1.451682923 0.011380081 0.014417611 8.61E-08 7.064867724 -0.28782153 LINRPIIVFR ddPTM_HeLa_SAHA_4h_R1 2 LINRPIIVFR 10 1 Q16658;C9JPH9;C9JFC0;A0A0A0MSB2 Q16658 FSCN1 Fascin 0 0 ; ; 146.79 2.03E-05 44934000 4217.9 3451.6 4796.3 4734.8 5044.1 2115.6 5392.7 1274.28 2053.99 3757 FALSE FALSE TRUE 4661.558074 3563.434105 5449.914786 4826.448901 4657.622148 1935.338978 4785.899203 1241.685763 2039.696116 3918.982656 1.18948168 0.909275293 1.390645293 1.231556586 1.188477357 0.493837087 1.22120959 0.3168388 0.520465717 1 11.93626347 -4.072501869 0.983499541 1.105485571 3.32E-15 0.236149421 0.310075191 2.096785695 1.218985326 0.035761221 2.666894987 8.46E-05 4.072501869 -1.105485571 LIPGPLS(ph)PVAR ddPTM_HeLa_SAHA_4h_R1 3 LIPGPLSPVAR 11 0 P48634;P48634-2;P48634-3 P48634 PRRC2A Protein PRRC2A 1 0 LIPGPLS(1)PVAR;LIPGPLS(1)PVAR;LIPGPLS(1)PVAR ;; 171.67 8.27E-05 156186000 9714.2 8679.7 7973.9 8625.2 9278.5 9046.7 9690.5 9767.2 9045.5 8790.9 TRUE FALSE FALSE 10735.98413 8960.927975 9060.541566 8792.153218 8567.583335 8275.870265 8600.099436 9517.369167 8982.551629 9169.918721 1.17078291 0.977209095 0.988072178 0.958803833 0.934313989 0.90250203 0.937859942 1.037890243 0.979567203 1 13.16269323 -7.09177547 7.592956149 1.080615535 0.957291601 0.272753285 0.06017069 0.2110834 15.52721881 0.011762137 0.01443455 8.10E-08 7.09177547 -0.123323934 LIPNATGTGT(ph)FSPGASPGSEAR ddPTM_HeLa_SAHA_4h_R1 1 LIPNATGTGTFSPGASPGSEAR 22 0 Q16512;Q16512-2;Q16512-3;K7EN76 Q16512 PKN1 Serine/threonine-protein kinase N1 1 0 LIPNAT(0.027)GT(0.098)GT(0.583)FS(0.289)PGAS(0.002)PGSEAR 69.922 0.0073644 0 502.75 376.7 297.53 390.48 548.21 530.84 314.47 357.36 495.8 399.4 TRUE FALSE FALSE 555.6315517 388.9053272 338.0758389 398.038305 506.2062682 485.6094456 279.085008 348.2192487 492.3496874 416.6200886 1.333664811 0.933477136 0.811472726 0.955398734 1.215030869 1.165592968 0.669878903 0.835819631 1.181771357 1 8.702588595 -7.224586152 24.27774846 1.157563953 0.945284069 0.281555131 0.16843424 494.4374034 325719.922 0.033260179 0.040734435 5.96E-08 7.224586152 -0.212279884 LIPVLVNGMK ddPTM_HeLa_SAHA_4h_R1 2 LIPVLVNGMK 10 0 Q92973-2;Q92973;Q92973-3 Q92973-2 TNPO1 Transportin-1 0 0 ; ; 111.82 0.010902 823990 639.42 660.49 848.16 719 762.98 648.64 850.48 451.42 698.85 749.91 FALSE FALSE TRUE 706.6771294 681.8903094 963.7428278 732.9172847 704.5206372 593.3722229 754.7817521 439.87333 693.9866459 782.2422901 0.90339929 0.871712407 1.232025985 0.936944082 0.900642481 0.758552983 0.964895099 0.562323638 0.887176077 1 9.611471724 -3.700920475 0.889824335 0.961976179 2.20E-18 0.456175191 0.119091158 3.595105057 1.060617296 0.017821133 4.271885741 0.000199104 3.700920475 -0.961976179 LIQNLDANHDGR ddPTM_HeLa_SAHA_4h_R1 1 LIQNLDANHDGR 12 0 Q96FQ6 Q96FQ6 S100A16 Protein S100-A16 0 0 205.8 1.42E-10 6247000 3179.9 3354.3 2576.9 3776.4 3676.6 4146 3462.2 3073.6 3789.7 3364.3 FALSE FALSE TRUE 3514.376472 3462.981521 2928.066512 3849.497683 3394.899702 3792.737475 3072.624144 2994.981763 3763.327169 3509.351437 1.001431898 0.986786756 0.834361153 1.096925672 0.967386642 1.080751684 0.875553275 0.85342885 1.072371131 1 11.77698872 -4.643635875 7.663309367 0.99651521 0.859468402 0.382700514 0.070913529 0.152085434 9.406656436 0.008402691 0.031774171 2.27E-05 4.643635875 -0.137046808 LIRDFQEYVEPGEDFPAS(ph)PQRR ddPTM_HeLa_SAHA_4h_R1 3 LIRDFQEYVEPGEDFPASPQRR 22 2 Q9Y6G9;C9JGM7 Q9Y6G9 DYNC1LI1 Cytoplasmic dynein 1 light intermediate chain 1 1 0 LIRDFQEYVEPGEDFPAS(1)PQRR;LIRDFQEYVEPGEDFPAS(1)PQRR;LIRDFQEYVEPGEDFPAS(1)PQRR ;; 77.939 0.0010955 2734200 1577.85 857.59 1369.18 946.78 1191.52 1035.29 1261.25 1067.96 622.409 1071.38 TRUE FALSE FALSE 1743.815502 885.3764787 1555.76472 965.106296 1100.225995 947.0774676 1119.330831 1040.64313 618.0776051 1117.572435 1.560360159 0.792231851 1.392092961 0.863573819 0.984478465 0.847441685 1.001573406 0.93116392 0.553053731 1 10.12615263 -6.250723507 24.31149308 1.237083845 0.928788178 0 0.294925347 523.3818067 1187413.951 0.037352058 0.061496382 5.61E-07 6.250723507 -0.308295667 LIRGPGENGDDS(ph) ddPTM_HeLa_SAHA_4h_R1 1 LIRGPGENGDDS 12 1 Q6IBS0 Q6IBS0 TWF2 Twinfilin-2 1 0 LIRGPGENGDDS(1) 108.32 0.015387 4779700 1788.4 1607.8 1770.1 1708.7 1685 2542.1 2203.3 2054.4 1194.4 1735.1 TRUE FALSE FALSE 1976.512117 1659.893775 2011.32001 1741.774359 1555.895664 2325.498779 1955.378885 2001.851423 1186.088073 1809.908652 1.092050759 0.917114669 1.111282609 0.962354844 0.859654249 1.2848708 1.080374351 1.106051082 0.655330351 1 10.82170117 -5.253623944 24.99980152 1.023055479 1.149426287 0.192162232 0.14659485 582.2056707 1862338.741 0.012601336 0.031467596 5.58E-06 5.253623944 0.126370809 LIRPEYAWIVQPVSGAVYDRPGAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 LIRPEYAWIVQPVSGAVYDRPGASPK 26 2 G3V198;Q12769 G3V198 NUP160 Nuclear pore complex protein Nup160 1 0 LIRPEYAWIVQPVS(0.213)GAVY(0.358)DRPGAS(0.429)PK 58.758 0.0027617 1128900 515.01 469.04 417.3 411.04 528.28 316.97 517.49 243.05 526.09 512.37 TRUE FALSE FALSE 569.1811148 484.2372037 474.1674708 418.9962736 487.8033005 289.9623728 459.2606632 236.8331329 522.4288969 534.4607782 1.064963301 0.906029448 0.887188527 0.783960752 0.912701774 0.542532557 0.859297224 0.443125375 0.977487812 1 9.061940268 -5.20643485 0.449190006 1.038135876 0.448285781 0.639478022 0.113359983 0.967833358 0.224967621 0.027628949 0.263976394 6.22E-06 5.20643485 -0.589850095 LIS(ph)PLASPADGVK ddPTM_HeLa_SAHA_4h_R1 1 LISPLASPADGVK 13 0 Q8WYP5;Q8WYP5-3;Q8WYP5-2 Q8WYP5 AHCTF1 Protein ELYS 1 0 LIS(0.999)PLAS(0.001)PADGVK 91.202 0.00588 0 801.99 476.04 502.54 503.53 518.52 671.11 437.67 523.63 461.17 498.63 TRUE FALSE FALSE 886.3469879 491.4640083 571.0235341 513.2765513 478.7911096 613.9276524 388.4222197 510.2363028 457.9606804 520.1283795 1.704092725 0.944889815 1.097851139 0.986826659 0.920524871 1.180338694 0.746781439 0.980981471 0.880476241 1 9.022723947 -7.196162207 24.99716102 1.332489321 0.981034544 0.066501173 0.237949275 198.7768054 76119.17907 0.045542843 0.05577836 6.37E-08 7.196162207 -0.351454777 LISWYDNEFGYSNR ddPTM_HeLa_SAHA_4h_R1 3 LISWYDNEFGYSNR 14 0 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ;; ;; 280.21 4.63E-68 383839140 3772.06 2991.41 3659.99 3636.86 3640.89 3744.9 4246.07 3640.15 3738.7 3639.17 FALSE FALSE TRUE 4168.822578 3088.333647 4158.754377 3707.256684 3361.925795 3425.813452 3768.291029 3547.040234 3712.682082 3796.072428 1.098193635 0.813560253 1.095541367 0.976603254 0.885632679 0.902462615 0.992681541 0.934397407 0.978032467 1 11.8902918 -7.304496489 24.99988066 1.046369214 0.948290561 0.179395102 0.076375569 454.4381305 263855.4769 0.012775115 0.014608941 4.96E-08 7.304496489 -0.098078653 LITAAQER ddPTM_HeLa_SAHA_4h_R1 1 LITAAQER 8 0 E7EW32;Q7L1V2-2;Q7L1V2 E7EW32 MON1B Vacuolar fusion protein MON1 homolog B 0 0 96.253 0.023369 4212500 465.38 395.28 764.88 432.98 499.46 286.49 594.67 286.34 111.98 199.83 FALSE FALSE TRUE 514.3308036 408.0873314 869.1138631 441.360954 461.1914827 262.0794403 527.7561665 279.0158374 111.2007221 208.4456492 2.467457611 1.957763728 4.169498698 2.117391059 2.212526308 1.25730348 2.53186463 1.338554383 0.53347586 1 7.70352745 -4.196713593 20.21316587 1.964462576 1.338494338 0.041677602 0.948687842 23737.82986 7409767.577 0.130336627 294.9448494 6.36E-05 4.196713593 -0.625968238 LITLEEEMTK ddPTM_HeLa_SAHA_4h_R1 2 LITLEEEMTK 10 0 P07237;H7BZ94;I3L398;H0Y3Z3 P07237 P4HB Protein disulfide-isomerase 0 0 ; ; 206.43 1.69E-25 1220090 704.8 1222.49 1050.01 1041.69 1087.67 1239.49 1452.35 1607.67 809.41 967.92 FALSE FALSE TRUE 778.9340977 1262.099478 1193.099895 1061.853416 1004.33296 1133.878479 1288.927756 1566.548129 803.7772499 1009.651768 0.771487876 1.250034436 1.181694454 1.051702626 0.994732037 1.123039165 1.276606248 1.551572709 0.79609354 1 9.979642074 -1 0.372213132 0.917207073 9.239840654 0.620722434 0.136118646 30.12265141 0.369127018 0.042098186 181.8250271 0.1 1 8.322633581 LITPAVVSER ddPTM_HeLa_SAHA_4h_R1 2 LITPAVVSER 10 0 P62851 P62851 RPS25 40S ribosomal protein S25 0 0 ; ; 105.57 0.0055941 1181100 1192.83 1460.26 828.71 1162.69 1088.49 1098.8 1305.36 1070.47 1288.98 1434.91 FALSE FALSE TRUE 1318.297332 1507.573382 941.6422831 1185.195546 1005.090131 1005.176058 1158.477457 1043.088927 1280.009883 1496.775992 0.880757935 1.007213765 0.6291137 0.79183228 0.671503376 0.671560784 0.773981854 0.696890472 0.855177989 1 10.54764261 -6.764414522 24.99999971 0.94688211 0.709705706 0.760941766 0.063002774 25.9828896 218333.6455 0.009906564 0.013338398 1.72E-07 6.764414522 -0.237176404 LITPPPPPPS(ph)PER ddPTM_HeLa_SAHA_4h_R1 3 LITPPPPPPSPER 13 0 J3QKY4;J3QR53;Q96HE9 J3QKY4 PRR11 Proline-rich protein 11 1 0 LIT(0.01)PPPPPPS(0.99)PER;LIT(0.039)PPPPPPS(0.961)PER;LIT(0.001)PPPPPPS(0.999)PER ;; 122.78 0.0010409 9103300 3073.76 3786.41 2683.66 2932.06 4000.2 3435.2 4283.99 3250.82 4229.8 3680.93 TRUE FALSE FALSE 3397.07218 3909.092168 3049.375209 2988.814261 3693.70554 3142.501634 3801.94417 3167.668732 4200.364477 3839.632906 0.884738792 1.018090079 0.794184049 0.778411461 0.961994449 0.818438041 0.990184287 0.824992599 1.093949495 1 11.90675267 -9.374026394 0.444102645 1.035538189 0.877626015 0.355506176 0.083933657 2.377223196 0.58271543 0.173686056 0.022761735 4.23E-10 9.374026394 -0.157912174 LITSEEERS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 3 LITSEEERSPAK 12 1 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 LITSEEERS(1)PAK;LITS(0.002)EEERS(0.998)PAK;LIT(0.001)S(0.001)EEERS(0.998)PAK ;; 161.87 0.00065812 45050500 3866.1 4018.71 3460.29 3711.48 4184.4 5032.9 4265.23 4153.83 5149.1 4004.6 TRUE FALSE FALSE 4272.754136 4148.918841 3931.840301 3783.321062 3863.792176 4604.068606 3785.295095 4047.581043 5113.266994 4177.257904 1.022860985 0.993215869 0.941249114 0.905694872 0.924958972 1.10217485 0.906167439 0.968956463 1.224072612 1 12.0283405 -6.938592092 5.165532672 1.010701044 0.958676976 0.173618707 0.085736036 0.264646214 14.21177041 0.008452962 0.011130532 1.15E-07 6.938592092 -0.052024069 LITSEEERS(ph)PAKR ddPTM_HeLa_SAHA_4h_R1 2 LITSEEERSPAKR 13 2 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 LITSEEERS(1)PAKR;LITS(0.002)EEERS(0.998)PAKR ; 65.695 0.014665 81962000 5805.6 4969.8 5085.3 5705.3 6155.2 5851.9 6387.4 5684 6084.3 6065.1 TRUE FALSE FALSE 6416.259645 5130.824781 5778.298201 5815.734332 5683.589906 5353.285198 5668.672941 5538.61151 6041.958861 6326.596143 1.014172471 0.810992936 0.913334449 0.919251711 0.898364583 0.84615567 0.896006765 0.87544888 0.955009412 1 12.62721379 -7.281412674 24.98826894 1.006692561 0.882760699 0.670255131 0.034642721 246.0890934 307877.3832 0.005036195 0.005763001 5.23E-08 7.281412674 -0.123931863 LIVALMKPSR ddPTM_HeLa_SAHA_4h_R1 2 LIVALMKPSR 10 1 P08758;D6RBL5;E9PHT9 P08758 ANXA5 Annexin A5;Annexin 0 0 ; ; 118.71 0.0021936 10181100 3083.9 3184.8 9138.3 5844.3 5691.2 1853.46 5918 1355.52 1273.46 1967.39 FALSE FALSE TRUE 3408.278751 3287.98961 10383.61993 5957.424877 5255.141486 1695.534781 5252.091065 1320.847761 1264.597888 2052.213811 1.66078151 1.602167178 5.059716428 2.902926023 2.560718312 0.826197919 2.559231907 0.64362093 0.616211567 1 11.00296533 -5.251451809 24.46485254 1.82375887 1.464638693 0.029480147 1.29117611 2813.28561 6891200.331 0.196128884 0.493336303 5.60E-06 5.251451809 -0.359120177 LIVENLSS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 LIVENLSSR 9 0 Q08170;A0A0D9SEM4;Q13247;Q13247-3;A0A590UJK4;A0A590UK01;A0A590UJP7;A0A590UK80;B4DJK0;B4DUA4;Q13243;Q13243-3 Q08170;Q13247;B4DJK0 SRSF4;SRSF6;SRSF5 Serine/arginine-rich splicing factor 4;Serine/arginine-rich splicing factor 6;Serine/arginine-rich splicing factor 5 1 0 LIVENLS(0.001)S(0.999)R 122.18 0.0032991 7129200 3170.5 2911.9 2962.4 3942.1 4028.1 4374.7 3998.5 5274.1 2675.2 2267.9 TRUE FALSE FALSE 3503.987737 3006.247471 3366.100444 4018.405046 3719.467848 4001.950949 3548.578257 5139.196159 2656.583065 2365.680268 1.481175535 1.270775054 1.422889006 1.698625592 1.572261433 1.691670258 1.500024456 2.172396764 1.122967927 1 11.20803938 -1.0000024 0.054258276 1.72E-08 4.51135602 0.737260976 0.1607964 138.6216481 0.571262382 10.66932881 51.2394404 0.099999447 1.0000024 4.511356003 LIVNVNDLR ddPTM_HeLa_SAHA_4h_R1 1 LIVNVNDLR 9 0 P25205;P25205-2 P25205 MCM3 DNA replication licensing factor MCM3 0 0 98.392 0.016128 1022200 697.8 830.41 609.07 800.14 887.33 714.76 937.46 599.95 678.7 629.14 FALSE FALSE TRUE 771.1978056 857.3158289 692.0708877 815.6278667 819.3429671 653.8584269 831.9745335 584.6041477 673.9768714 656.2653043 1.175131156 1.30635556 1.054559617 1.242832527 1.248493501 0.996332463 1.267741153 0.890804594 1.026988425 1 9.358135352 -9.192184754 1.002959311 1.002564119 1.154983884 0.150359618 0.125827063 0.675450247 1.250859299 0.070327199 0.021214591 6.42E-10 9.192184754 0.152419765 LIYFQLHR ddPTM_HeLa_SAHA_4h_R1 2 LIYFQLHR 8 0 Q13263;Q13263-2 Q13263 TRIM28 Transcription intermediary factor 1-beta 0 0 ; ; 130.04 0.00021647 1786770 755.27 633.65 3484 1512.51 1309.49 310.04 1825.79 47.718 153.04 292.83 FALSE FALSE TRUE 834.7127639 654.1806758 3958.781376 1541.786818 1209.157159 283.6228478 1620.347304 46.49744265 151.9749822 305.4553344 2.732683538 2.141657395 12.9602627 5.047503332 3.958539999 0.928524782 5.304694735 0.152223377 0.497535859 1 8.254817625 -4.219904709 21.10043825 3.07080536 0.152157391 0.052767272 3.520852173 7607.262306 3864017.377 0.502207759 155.5206754 6.03E-05 4.219904709 -2.918647969 LK(ac)DDEVAQLK ddPTM_HeLa_SAHA_4h_R1 1 LKDDEVAQLK 10 1 A0A5F9ZHM4;P07195 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain 0 1 LK(1)DDEVAQLK 96.229 0.014443 1462000 157.2 597.29 413.26 620.63 508.39 504.92 643.79 407.44 482.24 335.21 FALSE TRUE FALSE 173.7350173 616.6425879 469.5769206 632.6431911 469.437268 461.8979754 571.3490548 397.0182748 478.8840526 349.6625436 0.496864821 1.763536299 1.342943158 1.809296428 1.342543766 1.320982141 1.634001312 1.135432668 1.369560627 1 8.44981945 -7.262280228 24.99979817 0.762408385 1.480614393 0.341932005 0.29830374 35.17564834 1045824.07 0.043233161 0.050986117 5.47E-08 7.262280228 0.718206008 LK(ac)LEDFFAR ddPTM_HeLa_SAHA_4h_R1 1 LKLEDFFAR 9 1 P11413-3;P11413;P11413-2;E7EM57;E7EUI8;E9PD92 P11413-3 G6PD Glucose-6-phosphate 1-dehydrogenase 0 1 LK(1)LEDFFAR 101.97 0.0067276 578110 242.41 716.91 498.66 548.15 690.7 693.96 757.96 269.37 509.39 166.62 FALSE TRUE FALSE 267.907796 740.1383544 566.6147879 558.7602359 637.7787152 634.8307039 672.672346 262.4799054 505.8451135 173.8038036 1.541438049 4.258470407 3.260082784 3.214890723 3.669532553 3.652570834 3.870297036 1.510208062 2.910437533 1 7.441315845 -7.378445779 5.477328365 1.236446654 3.37983809 0.342752711 0.871665282 0.092794299 3.827606599 0.114164381 0.129870452 4.18E-08 7.378445779 2.143391436 LK(ac)LSILYPATTGR ddPTM_HeLa_SAHA_4h_R1 1 LKLSILYPATTGR 13 1 P30041 P30041 PRDX6 Peroxiredoxin-6 0 1 LK(1)LSILYPATTGR 114.76 0.0029718 275750 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 LK(ac)SEDEPTR ddPTM_HeLa_SAHA_4h_R1 1 LKSEDEPTR 9 1 Q92973-2;Q92973;E7EW37;K7ENW1;K7ESC1;A0A075B780;O14787-2;O14787 Q92973-2 TNPO1;TNPO2 Transportin-1;Transportin-2 0 1 LK(1)SEDEPTR 79.148 0.0216 0 226.17 689.36 442.57 464.57 614.97 645.21 921.51 761.3 571.57 210.31 FALSE TRUE FALSE 249.9595983 711.6957163 502.8811348 473.5624241 567.8511315 590.2344781 817.8192695 741.8270483 567.5923978 219.3774933 1.139404022 3.244160126 2.292309604 2.158664578 2.588465767 2.690496957 3.727908716 3.381509366 2.587286367 1 7.777271712 -6.383479894 0.36655815 0.817421331 3.76429892 0.24422382 0.734981589 0.613071113 0.168691338 0.26434174 0.702573411 4.14E-07 6.383479894 2.946877588 LK(ac)YALTGDEVKK ddPTM_HeLa_SAHA_4h_R1 2 LKYALTGDEVKK 12 2 P62701;C9JEH7;Q8TD47;P22090 P62701 RPS4X;RPS4Y1;RPS4Y2 "40S ribosomal protein S4, X isoform;40S ribosomal protein S4, Y isoform 2;40S ribosomal protein S4, Y isoform 1" 0 1 ; LK(1)YALTGDEVKK;LK(1)YALTGDEVKK 92.939 0.010332 2553000 353.57 852.84 483.99 385.59 862.73 616.93 733.7 587.49 354.24 330.91 FALSE TRUE FALSE 390.7601148 880.4725756 549.9456367 393.053652 796.6278138 564.3640932 651.142145 572.4628565 351.774815 345.1771495 1.132056729 2.550784653 1.593227238 1.138701251 2.307881083 1.634998418 1.886399913 1.658461046 1.019113853 1 8.431193152 -7.482040182 23.51344534 1.05825982 1.805550669 0.481119397 0.368736432 136.5676942 78631.84402 0.059828472 0.067577216 3.30E-08 7.482040182 0.74729085 LKAEAELLQQQK ddPTM_HeLa_SAHA_4h_R1 2 LKAEAELLQQQK 12 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 140.14 7.95E-05 2951600 4746.9 4865.4 4854.7 5235.4 5430.2 5682.1 5454.9 5340.2 4956.3 4941.7 FALSE FALSE TRUE 5246.200722 5023.042152 5516.273234 5336.738738 5014.139249 5197.953113 4841.100295 5203.605417 4921.808705 5154.760871 1.017738912 0.974447172 1.070131743 1.035302873 0.972720049 1.008379097 0.939151285 1.009475618 0.954808347 1 12.33168979 -5.744407395 24.9939436 1.012573433 0.981193462 0.113931464 0.034904242 297.80921 437024.1865 0.004178273 0.008341489 1.80E-06 5.744407395 -0.031379971 LKAS(ph)Y(ph)DT(ph)LCVFDGDK ddPTM_HeLa_SAHA_4h_R1 1 LKASYDTLCVFDGDK 15 1 O00507-2;O00507 O00507-2 USP9Y Probable ubiquitin carboxyl-terminal hydrolase FAF-Y 3 0 LKAS(1)Y(1)DT(1)LCVFDGDK 48.288 0.021792 4776400 2017 1488.2 1390.7 1449.1 1412.3 523.07 1672.9 1633.4 1766.4 1496.3 TRUE FALSE FALSE 2229.157314 1536.418656 1580.217354 1477.149426 1304.089879 478.5014933 1484.660889 1591.619993 1754.107479 1560.812816 1.428202852 0.984370862 1.012432329 0.946397551 0.835519715 0.306571992 0.951210084 1.019737906 1.123842309 1 10.60808181 -6.39297057 1.380763562 1.194739706 0.768735996 0.35442307 0.212168233 0.331698079 1.249609418 0.041616784 0.073860002 4.05E-07 6.39297057 -0.42600371 LKATVTPS(ph)PVK ddPTM_HeLa_SAHA_4h_R1 5 LKATVTPSPVK 11 1 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 LKATVT(0.028)PS(0.971)PVK;LKAT(0.002)VT(0.113)PS(0.885)PVK;LKATVT(0.023)PS(0.977)PVK;LKATVT(0.1)PS(0.9)PVK;LKATVT(0.018)PS(0.982)PVK ;;;; 117.2 0.010071 353999000 35439.1 40211.6 42607 39243.7 40193.6 27923.6 43576.3 20789.1 15559.22 26827.8 TRUE FALSE FALSE 39166.74714 41514.48222 48413.26007 40003.31856 37113.97505 25544.35219 38672.98004 20257.34492 15450.94212 27984.47775 1.399588282 1.483482472 1.730004058 1.429482405 1.326234328 0.91280432 1.381943961 0.723877898 0.552125441 1 14.7723392 -5.275366952 24.09018672 1.283522463 1.043782245 0.115034066 0.335425653 756.4643953 1308438.798 0.041153545 0.092519687 5.30E-06 5.275366952 -0.239740219 LKATVTPS(ph)PVKGK ddPTM_HeLa_SAHA_4h_R1 2 LKATVTPSPVKGK 13 2 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 LKAT(0.256)VT(0.167)PS(0.577)PVKGK;LKAT(0.006)VT(0.019)PS(0.975)PVKGK ; 140.77 0.0017452 454084000 11446.4 9443.7 11038.3 9872.8 9095 8858.5 11219.2 11351.4 8243.1 10465 TRUE FALSE FALSE 12650.38487 9749.682076 12542.54204 10063.90232 8398.143065 8103.705963 9956.786089 11061.04762 8185.735596 10916.19736 1.1588637 0.893139044 1.148984543 0.921923815 0.769328621 0.742356124 0.912111219 1.013269297 0.749870612 1 13.41418276 -6.066897077 5.455195003 1.064975972 0.8533382 0.04762473 0.140533589 0.145156999 8.357880438 0.01611751 0.027253799 8.57E-07 6.066897077 -0.211637772 PDPSK(ac)SAPAPK ddPTM_HeLa_SAHA_4h_R1 2 PDPSKSAPAPK 11 1 Q8N257 Q8N257 HIST3H2BB Histone H2B type 3-B 0 1 ; PDPSK(1)SAPAPK;PDPSK(1)SAPAPK 122.69 0.0023718 36264000 2178.83 2495.4 3857.3 8507.3 10016.7 11974.2 14048.5 13422.2 1538.07 1975.45 FALSE TRUE FALSE 2408.009336 2576.252597 4382.952756 8671.971093 9249.22261 10953.93079 12467.72581 13078.87956 1527.366446 2060.621317 1.168584114 1.250230974 2.127005442 4.208425401 4.488560093 5.315838822 6.050469197 6.347056323 0.741216464 1 11.00886369 -5.998304396 0.895157351 1.017721692 6.178430615 0.981136637 0.291673328 0.050908785 0.079064448 0.051416251 0.141143158 1.00E-06 5.998304396 5.160708923 up LKDDEVAQLK ddPTM_HeLa_SAHA_4h_R1 1 LKDDEVAQLK 10 1 A0A5F9ZHM4;P07195 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain 0 0 91.313 0.011544 1863300 1458.4 1439 1214.3 1460.9 1824.1 1983.3 1868.7 1534.3 1982.3 1920.2 FALSE FALSE TRUE 1611.801203 1485.624544 1379.77848 1489.177832 1684.337852 1814.311682 1658.428958 1495.054828 1968.505013 2002.989219 0.804697892 0.741703715 0.688859664 0.743477707 0.840912091 0.905802021 0.827976977 0.74641182 0.982783629 1 10.96793894 -8.903258763 0.81109517 0.996564349 0.789205438 0.6503194 0.0594028 0.335805973 0.417467716 0.039967657 0.01386094 1.25E-09 8.903258763 -0.207358911 LKDDEVAQLK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 LKDDEVAQLKK 11 2 A0A5F9ZHM4;P07195 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain 0 1 LKDDEVAQLK(1)K 190.36 2.02E-17 14596000 4178.3 12728 6335.7 6455.4 11270 11000 11659 9680.2 9796.2 3682.6 FALSE TRUE FALSE 4617.792765 13140.39555 7199.096201 6580.353602 10406.49503 10062.73812 10347.09864 9432.594501 9728.027447 3841.374908 1.202119781 3.420753211 1.874093618 1.713020405 2.709054774 2.619566784 2.693592498 2.455525619 2.532433745 1 11.90740706 -7.385618905 7.822143935 1.089187202 2.462862349 0.207207821 0.637056372 0.115395715 6.892207969 0.075134555 0.085711269 4.12E-08 7.385618905 1.373675147 LKDLFDYS(ph)PPLHK ddPTM_HeLa_SAHA_4h_R1 3 LKDLFDYSPPLHK 13 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 LKDLFDYS(1)PPLHK;LKDLFDYS(1)PPLHK;LKDLFDY(0.009)S(0.991)PPLHK ;; 125.41 0.00055533 577373600 8654.6 8490 9321.7 9685.6 9738.4 9975.9 10515.7 9061.1 10047.5 9014.5 TRUE FALSE FALSE 9564.930537 8765.08157 10592.01273 9873.078794 8992.245896 9125.897197 9332.44576 8829.330182 9977.578629 9403.159211 1.017203934 0.932142206 1.126431287 1.049974649 0.956300504 0.970513951 0.99247982 0.938974868 1.061087918 1 13.19892983 -5.741265374 24.99931586 1.014456018 0.966985788 0.267189734 0.049525594 318.0855693 394164.2737 0.006778848 0.013544521 1.81E-06 5.741265374 -0.04747023 LKDLYIRPNIAQK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 LKDLYIRPNIAQKR 14 3 Q9Y5B9 Q9Y5B9 SUPT16H FACT complex subunit SPT16 0 1 ; LKDLYIRPNIAQK(1)R;LKDLYIRPNIAQK(1)R 92.781 0.0048525 13116400 7273.6 5096.9 7774.5 7140.4 7793 4782.5 8540.4 3584.8 2732.8 7016.1 FALSE TRUE FALSE 8038.67062 5262.042904 8833.968372 7278.612767 7195.902024 4375.004094 7579.411715 3493.106007 2713.782222 7318.598407 1.09838936 0.71899599 1.207057401 0.994536435 0.983234989 0.597792617 1.035637057 0.477291663 0.370806276 1 12.83735167 -3.71485741 0.538775441 1.036432797 1.59E-18 0 0.273136943 4.628390787 0.599069588 0.030981378 3.434288255 0.000192816 3.71485741 -1.036432797 LKDPANFQYPAESVLAYK ddPTM_HeLa_SAHA_4h_R1 1 LKDPANFQYPAESVLAYK 18 1 B4DLR8;H3BNV2;P15559-3;P15559-2;P15559;H3BRK3 B4DLR8 NQO1 NAD(P)H dehydrogenase [quinone] 1 0 0 135.09 3.38E-06 1028300 391.89 375.86 523.14 487.51 427.77 454.27 633.23 361.83 546.02 342.62 FALSE FALSE TRUE 433.1107883 388.0381106 594.4307948 496.946461 394.994355 415.5636403 561.9772938 352.5749125 542.2202024 357.3920249 1.211864726 1.085749215 1.663245829 1.390479995 1.10521312 1.162766966 1.572439379 0.986521489 1.517158091 1 8.481363631 -8.356472354 0.688161786 1.01508068 1.295993799 0 0.256562222 0.719558926 0.728114671 0.093897689 0.048364617 4.40E-09 8.356472354 0.280913119 LKEDILENEDEQNS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 4 LKEDILENEDEQNSPPK 17 1 Q9NTI5-2;Q9NTI5;A9IYQ1;Q9NTI5-5 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 1 0 LKEDILENEDEQNS(1)PPK;LKEDILENEDEQNS(1)PPK;LKEDILENEDEQNS(1)PPK;LKEDILENEDEQNS(1)PPK ;;; 159.77 3.40E-06 103533000 14248.6 12619.2 9747.2 13396.7 15213.8 17238.5 13852.3 14850.4 16728.3 13956.7 TRUE FALSE FALSE 15747.33312 13028.07036 11075.49765 13656.0125 14048.12193 15769.68282 12293.60275 14470.54827 16611.8864 14558.44164 1.081663375 0.894880832 0.760761208 0.938013342 0.964946818 1.083198546 0.844431228 0.993962721 1.14104839 1 13.82956831 -7.257231355 24.82350123 1.038563261 0.9243052 0.347428456 0.089319177 322.4581778 1902209.209 0.014577664 0.017510406 5.53E-08 7.257231355 -0.114258061 LKETCVSGEDPTQGADLS(ph)PDEK ddPTM_HeLa_SAHA_4h_R1 3 LKETCVSGEDPTQGADLSPDEK 22 1 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 LKETCVSGEDPTQGADLS(1)PDEK;LKETCVSGEDPT(0.106)QGADLS(0.894)PDEK;LKETCVSGEDPTQGADLS(1)PDEK ;; 105.55 7.89E-05 18289800 4427.5 4757.2 4041.19 4554.3 5551.1 5961.7 4692 4436.3 5603.8 3861.66 TRUE FALSE FALSE 4893.204764 4911.336401 4591.902328 4642.455062 5125.775917 5453.72962 4164.043811 4322.82587 5564.8027 4028.155061 1.214750845 1.219252071 1.139951729 1.152501577 1.27248724 1.353902602 1.033734737 1.073152797 1.381476784 1 11.9759035 -9.272752592 0.893298832 0.994447586 1.186492098 0 0.147193968 0.549191779 0.750758941 0.071462104 0.017348556 5.34E-10 9.272752592 0.192044512 LKFS(ph)DDEEEEEVVK ddPTM_HeLa_SAHA_4h_R1 3 LKFSDDEEEEEVVK 14 1 Q5JSZ5;Q5JSZ5-5 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 LKFS(1)DDEEEEEVVK;LKFS(1)DDEEEEEVVK;LKFS(1)DDEEEEEVVK ;; 130.29 0.00052044 75149000 6345.77 8232.59 6512.19 7100.22 7767.46 10115.7 7198.96 6456.79 11383.91 7168.3 TRUE FALSE FALSE 7013.247204 8499.331318 7399.637339 7237.655025 7172.318893 9253.785451 6388.914074 6291.634661 11304.68844 7477.360494 0.937930866 1.136675345 0.989605536 0.967942502 0.959204642 1.237573801 0.854434406 0.841424546 1.511855481 1 12.86831337 -4.569588943 24.99996238 0.998296535 0.844671385 0.066601738 0.186098799 92.02099856 49250.72574 0.012336929 0.046160599 2.69E-05 4.569588943 -0.15362515 LKGEATVSFDDPPSAK ddPTM_HeLa_SAHA_4h_R1 1 LKGEATVSFDDPPSAK 16 1 H3BPE7;P35637-2;P35637 H3BPE7 FUS RNA-binding protein FUS 0 0 138.98 1.48E-05 3196900 4172.6 4640.4 4040.2 4612.7 4210 5116.9 4843.1 4958.1 4878.3 4670.9 FALSE FALSE TRUE 4611.493213 4790.752005 4590.777416 4701.985479 3887.43071 4680.911333 4298.141642 4831.278981 4844.351513 4872.285358 0.94647437 0.983265891 0.942222608 0.965047228 0.797865975 0.960721918 0.882161312 0.991583749 0.994266788 1 12.25038292 -5.962505488 24.99995698 0.971816173 0.906424691 0.277507351 0.05051871 160.372612 106929.8547 0.007043432 0.012767287 1.09E-06 5.962505488 -0.065391482 LKLPAVVTADLR ddPTM_HeLa_SAHA_4h_R1 1 LKLPAVVTADLR 12 1 P38117-2;P38117;M0QY67 P38117-2 ETFB Electron transfer flavoprotein subunit beta 0 0 113.22 0.0034647 0 1328.6 2124.2 1655.3 1325.9 1872.4 1104.1 2320.4 1019.2 789.3 1730.7 FALSE FALSE TRUE 1468.348244 2193.025474 1880.875664 1351.564712 1728.937117 1010.024469 2059.302485 993.1303398 783.807197 1805.318947 0.813345612 1.214757912 1.041852281 0.748657025 0.957690673 0.559471483 1.140686242 0.550113508 0.434165497 1 10.81803803 -6.251714268 24.64170489 0.946018399 0.807094735 0.02861652 0.250728652 984.1505989 2493661.126 0.027884487 0.045849776 5.60E-07 6.251714268 -0.138923663 LKLPSIPLVPVSAQK ddPTM_HeLa_SAHA_4h_R1 2 LKLPSIPLVPVSAQK 15 1 Q15785 Q15785 TOMM34 Mitochondrial import receptor subunit TOM34 0 0 ; ; 135.14 0.00012528 720710 403.1 478.69 329.67 568.39 672.95 894.89 548.82 495.55 469.08 662.11 FALSE FALSE TRUE 445.4999075 494.1998701 374.5957108 579.3920104 621.3887164 818.6403375 487.0653292 482.8745485 465.8156341 690.6568024 0.645038036 0.715550572 0.542376053 0.838900027 0.899706937 1.185306993 0.705220491 0.699152672 0.674453118 1 9.431825182 -4.57963377 24.99994065 0.828332088 0.700625806 0.053045206 0.177165221 169.1284492 74498.41479 0.027660295 0.103495379 2.63E-05 4.57963377 -0.127706282 LKLSILYPATTGR ddPTM_HeLa_SAHA_4h_R1 1 LKLSILYPATTGR 13 1 P30041 P30041 PRDX6 Peroxiredoxin-6 0 0 108.23 0.013089 0 4343.2 2984.6 4215.9 4961.9 4161.5 3712.7 5003.4 2660.9 1955.4 4005 FALSE FALSE TRUE 4800.037703 3081.302998 4790.420897 5057.94475 3842.646769 3396.357073 4440.404264 2592.838031 1941.792212 4177.67515 1.14897342 0.737564049 1.146671468 1.210708006 0.919805066 0.812977781 1.062888833 0.620641371 0.464802107 1 12.0284846 -3.589523802 0.736473363 1.054066734 5.63E-13 0 0.239313334 5.461448014 1.04458661 0.024464281 6.018938004 0.000257322 3.589523802 -1.054066734 LKNGFPHPEPDCNPSEAAS(ph)EES(ph)NSEIEQEIPVEQK ddPTM_HeLa_SAHA_4h_R1 2 LKNGFPHPEPDCNPSEAASEESNSEIEQEIPVEQK 35 1 Q9NR30;Q9NR30-2 Q9NR30 DDX21 Nucleolar RNA helicase 2 2 0 LKNGFPHPEPDCNPS(0.128)EAAS(0.661)EES(0.711)NS(0.5)EIEQEIPVEQK;LKNGFPHPEPDCNPS(0.226)EAAS(0.591)EES(0.591)NS(0.591)EIEQEIPVEQK ; 53.033 0.0018365 21332000 1668.27 1344.15 1485.09 1665.63 1713.51 1967.54 1955.1 1915.2 1374.04 1617.6 TRUE FALSE FALSE 1843.746293 1387.701342 1687.470331 1697.870677 1582.221234 1799.894523 1735.107002 1866.211957 1364.477944 1687.342652 1.092692282 0.822418221 1.000075669 1.006239411 0.937700017 1.066703624 1.02830744 1.106006509 0.808654924 1 10.72053726 -3.993383112 1.445593865 1.016437693 1.195288874 0 0.097885967 4.45359039 5.065006877 0.011491553 1.377556826 0.000101535 3.993383112 0.178851181 LKNGFPHPEPDCNPSEAASEES(ph)NSEIEQEIPVEQK ddPTM_HeLa_SAHA_4h_R1 1 LKNGFPHPEPDCNPSEAASEESNSEIEQEIPVEQK 35 1 Q9NR30;Q9NR30-2 Q9NR30 DDX21 Nucleolar RNA helicase 2 1 0 LKNGFPHPEPDCNPS(0.226)EAAS(0.226)EES(0.274)NS(0.274)EIEQEIPVEQK 50.464 0.002075 11128000 906.26 893.17 580.05 673.89 776.55 869.84 1005.9 924.98 760.93 765.95 TRUE FALSE FALSE 1001.584585 922.109294 659.0961932 686.9341154 717.0509068 795.7247384 892.7134846 901.320351 755.6346262 798.973853 1.253588689 1.154116985 0.824928364 0.859770458 0.897464797 0.995933391 1.11732503 1.128097431 0.945756389 1 9.64200448 -6.795226914 24.99421243 1.125673719 0.970047697 0.154974597 0.122949108 208.071405 153919.3681 0.022405354 0.029447295 1.60E-07 6.795226914 -0.155626022 LKPGGVGAPSSSSPS(ph)PSPSAR ddPTM_HeLa_SAHA_4h_R1 2 LKPGGVGAPSSSSPSPSPSAR 21 1 Q92797 Q92797 SYMPK Symplekin 1 0 LKPGGVGAPS(0.033)S(0.026)S(0.021)S(0.071)PS(0.662)PS(0.157)PS(0.03)AR;LKPGGVGAPS(0.003)S(0.01)S(0.226)S(0.025)PS(0.564)PS(0.146)PS(0.025)AR ; 124.39 1.35E-05 52959000 1234.67 1788.03 1173.23 1676.39 1942.09 2363.1 1695.23 1911.9 1971.49 1463.06 TRUE FALSE FALSE 1364.538255 1845.963345 1333.111674 1708.838953 1793.287484 2161.750586 1504.478259 1862.996366 1957.770241 1526.139677 0.894110989 1.209563825 0.873518784 1.119713339 1.175048071 1.416482789 0.985806399 1.220724679 1.282825072 1 10.57567129 -6.04682398 3.918263064 0.967162494 1.196727284 0.041655625 0.163736339 0.167596915 5.355493149 0.019058382 0.033423381 8.98E-07 6.04682398 0.22956479 LKPQLLQGVYAMGFNRPSK ddPTM_HeLa_SAHA_4h_R1 1 LKPQLLQGVYAMGFNRPSK 19 2 F6QDS0;H3BQK0;Q9NUU7;Q9UMR2;H3BTB3;H3BMQ5;H3BN59 F6QDS0 DDX19A;DDX19B ATP-dependent RNA helicase DDX19A;ATP-dependent RNA helicase DDX19B 0 0 117.48 5.03E-05 3040400 1769.7 1637.6 2074.3 2476 2346.9 1375.3 2674.9 824.86 1273.3 1870.9 FALSE FALSE TRUE 1955.845166 1690.659314 2356.974802 2523.92656 2167.081029 1258.116703 2373.913212 803.7612756 1264.439002 1951.563655 1.002193887 0.866310105 1.207736573 1.293284262 1.110433177 0.644671107 1.216415978 0.411855014 0.647910714 1 10.93041481 -4.249658579 24.76100404 1.019641312 0.411854596 0.399450907 0.214525222 977.2162347 2053880.738 0.023535987 0.510428499 5.63E-05 4.249658579 -0.607786716 LKPTNPAAQK(ac)ALTTPTHYK ddPTM_HeLa_SAHA_4h_R1 2 LKPTNPAAQKALTTPTHYK 19 2 P52948-6;P52948-2;P52948-5;P52948;A0A3B3ITD8;P52948-4;P52948-3;H0YEN4;H0YCR0 P52948-6 NUP98 Nuclear pore complex protein Nup98-Nup96;Nuclear pore complex protein Nup98;Nuclear pore complex protein Nup96 0 1 ; LKPTNPAAQK(1)ALTTPTHYK;LKPTNPAAQK(1)ALTTPTHYK 87.668 0.0024133 4438400 1644.05 1530.27 1453.49 2273.75 2285 2557.4 2922 2745.8 2310.6 1790.41 FALSE TRUE FALSE 1816.978722 1579.851752 1651.564048 2317.761719 2109.923794 2339.495132 2593.20887 2675.566412 2294.520346 1867.603337 0.972893272 0.845924678 0.884322712 1.241035327 1.129749424 1.252672388 1.388522294 1.432620278 1.228590837 1 10.86697236 -5.356439989 0.911425451 0.970916293 1.443234225 0.641524347 0.116339312 0.234081017 0.322610726 0.01437192 0.075122741 4.40E-06 5.356439989 0.472317932 LKQS(ph)QEEMS(ph)SS(ph)GPS(ph)VR ddPTM_HeLa_SAHA_4h_R1 1 LKQSQEEMSSSGPSVR 16 1 E7EX48;P51957-3;P51957-2;P51957 E7EX48 NEK4 Serine/threonine-protein kinase Nek4 4 0 LKQS(1)QEEMS(0.981)S(0.067)S(0.981)GPS(0.971)VR 65.887 0.0092238 10438000 2589.8 2423.8 1819.6 3780 3952 1690.2 5167.6 7157.3 10075 2644.2 TRUE FALSE FALSE 2862.207046 2502.33271 2067.565612 3853.167366 3649.198614 1546.185451 4586.128048 6974.22663 10004.88725 2758.204402 1.037706649 0.907232513 0.749605653 1.396983981 1.323034149 0.560576819 1.662722329 2.52853872 3.627319007 1 11.42951366 -4.445224683 3.291811127 1.015722799 2.511759608 0.065769589 0.859540917 0.079777109 1.500981857 0.031085471 0.230949101 3.59E-05 4.445224683 1.496036808 LKS(ph)EDGVEGDLGETQSR ddPTM_HeLa_SAHA_4h_R1 7 LKSEDGVEGDLGETQSR 17 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 LKS(1)EDGVEGDLGETQSR;LKS(0.985)EDGVEGDLGET(0.015)QSR;LKS(1)EDGVEGDLGETQSR;LKS(0.978)EDGVEGDLGET(0.018)QS(0.004)R;LKS(1)EDGVEGDLGETQSR;LKS(0.997)EDGVEGDLGET(0.003)QSR;LKS(0.767)EDGVEGDLGET(0.232)QS(0.001)R ;;;;;; 226.65 4.96E-27 205961700 8180.09 8754.22 8307.43 10565.7 10517.98 14321.03 15622.66 14751.39 7879.25 8162.87 TRUE FALSE FALSE 9040.509398 9037.862472 9439.523297 10770.2144 9712.094645 13100.79768 13864.75718 14374.0708 7824.417658 8514.811274 1.061739257 1.061428396 1.108600413 1.26487999 1.140611851 1.538589319 1.628310568 1.68812559 0.918918506 1 13.05575884 -5.068020248 0.680592158 1.026886128 1.850572622 0.924892071 0.072138546 0.21290769 0.122174501 0.011009271 0.110057036 8.55E-06 5.068020248 0.823686494 LKS(ph)PQAVLQLGVNNEDSK ddPTM_HeLa_SAHA_4h_R1 1 LKSPQAVLQLGVNNEDSK 18 1 D6RJ90;Q9Y6G5 D6RJ90 COMMD10 COMM domain-containing protein 10 1 0 LKS(1)PQAVLQLGVNNEDSK 93.729 0.0015974 7688600 1003.5 1244 1094.7 1012.7 1380 1239 1338.1 1265 1329.1 1405.1 TRUE FALSE FALSE 1109.052734 1284.306416 1243.880015 1032.302273 1274.264698 1133.43023 1187.533466 1232.643132 1319.850685 1465.680737 0.756680978 0.876252504 0.848670507 0.704315917 0.869401272 0.773313178 0.810226563 0.841003842 0.900503535 1 10.51735517 -9.391636283 0.953911512 1.008019211 0.806318899 0.444393268 0.058769109 0.283917135 0.431799354 0.041741811 0.009115502 4.06E-10 9.391636283 -0.201700312 LKS(ph)Y(ph)S(ph)LSRKK ddPTM_HeLa_SAHA_4h_R1 1 LKSYSLSRKK 10 3 A0A2R8Y3W8;C9JSP6;A0A2R8YEK7;A0A2R8Y5L8;A0A2R8Y6L0;A0A0U1RQX7;A0A2R8YDJ8;Q9UNH5-4;Q9UNH5-3;Q9UNH5;Q9UNH5-5;Q9UNH5-2 A0A2R8Y3W8 CDC14A Dual specificity protein phosphatase CDC14A 3 0 LKS(0.994)Y(0.995)S(0.995)LS(0.016)RKK 49.097 0.0087274 0 172.83 246.59 0 203.27 195.39 376.47 255.79 149.19 187.13 194.67 TRUE FALSE FALSE 191.0090524 254.5796778 0 207.2045848 180.4192604 344.392638 227.007836 145.3739358 185.8277471 203.0631764 0.940638553 1.253696915 0 1.020394679 0.88848832 1.695987644 1.117917291 0.715904963 0.915122822 1 7.665784834 LKSVEDEMDS(ph)PGEEPFYTGQGR ddPTM_HeLa_SAHA_4h_R1 5 LKSVEDEMDSPGEEPFYTGQGR 22 1 A0A590UJA3;S4R3W2;A0A590UJU2;A0A590UK38;A0A590UK73;B1AKN7;B1AKN5;A0A590UK09;B1AKN8;Q12857-2;Q12857-3;Q12857;Q12857-4 A0A590UJA3 NFIA Nuclear factor 1;Nuclear factor 1 A-type 1 0 LKS(0.004)VEDEMDS(0.996)PGEEPFYTGQGR;LKS(0.004)VEDEMDS(0.996)PGEEPFYTGQGR;LKSVEDEMDS(1)PGEEPFYTGQGR;LKSVEDEMDS(1)PGEEPFYTGQGR;LKSVEDEMDS(1)PGEEPFYTGQGR ;;;; 142.23 2.20E-06 71924300 6152.25 5255.05 5617.85 4917.06 5962.42 5690.5 6734.85 5974.13 4501.96 5816.25 TRUE FALSE FALSE 6799.371883 5425.317068 6383.421341 5012.236806 5505.580668 5205.637386 5977.026953 5821.320405 4470.630494 6067.017002 1.120710867 0.894231394 1.05215155 0.826145172 0.907460893 0.858022548 0.985167332 0.9595029 0.736874562 1 12.56677164 -7.252794016 24.97476294 1.057002354 0.926038185 0 0.120943006 451.8003453 1305162.964 0.012083997 0.014681382 5.59E-08 7.252794016 -0.130964169 LKTEAEIALK ddPTM_HeLa_SAHA_4h_R1 1 LKTEAEIALK 10 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 135.99 1.68E-07 0 2117.2 1858.3 1757.7 2010.2 2020.3 2220.3 2074.3 1902.5 1577.4 2046.9 FALSE FALSE TRUE 2339.89681 1918.510139 1997.230202 2049.110328 1865.50505 2031.117949 1840.894305 1853.836805 1566.422745 2135.151876 1.095892445 0.898535678 0.935404279 0.959702376 0.873710705 0.951275631 0.862184243 0.868245873 0.73363528 1 11.06012298 -7.250825786 24.92443057 1.045282543 0.908825133 0 0.105827135 304.304246 714613.4626 0.007815248 0.009517291 5.61E-08 7.250825786 -0.136457411 LKTEEGEIDYS(ph)AEEGENR ddPTM_HeLa_SAHA_4h_R1 1 LKTEEGEIDYSAEEGENR 18 1 B7WPG3;V9GYK2;Q8WVV9-5;Q8WVV9;C9IYN3;Q8WVV9-2;Q8WVV9-4;Q8WVV9-3 B7WPG3 HNRNPLL Heterogeneous nuclear ribonucleoprotein L-like 1 0 LKT(0.001)EEGEIDY(0.009)S(0.99)AEEGENR 61.985 0.01354 3958900 942.61 850.2 899.8 1072.4 1066.4 1421.9 1332.9 1029.2 1581.8 1142.8 TRUE FALSE FALSE 1041.758045 877.7470378 1022.420058 1093.157853 984.6926624 1300.746121 1182.918584 1002.874554 1570.792125 1192.071701 0.873905524 0.736320674 0.857683357 0.917023575 0.826034761 1.091164332 0.992321673 0.841287109 1.317699367 1 10.2192553 -4.211723141 20.92467577 0.923669508 0.841284374 0.008442144 0.156639853 12179.50096 5125050.368 0.014266273 9.43823142 6.14E-05 4.211723141 -0.082385134 LKTEEGEIDYS(ph)AEEGENRR ddPTM_HeLa_SAHA_4h_R1 1 LKTEEGEIDYSAEEGENRR 19 2 B7WPG3;V9GYK2;Q8WVV9-5;Q8WVV9;C9IYN3;Q8WVV9-2;Q8WVV9-4;Q8WVV9-3 B7WPG3 HNRNPLL Heterogeneous nuclear ribonucleoprotein L-like 1 0 LKTEEGEIDY(0.012)S(0.988)AEEGENRR 60.347 0.0081781 15393000 1773.4 1835.2 1579.6 1687.4 2006.3 2105.6 1723.1 1890.3 1734.7 1732.8 TRUE FALSE FALSE 1959.934349 1894.661684 1794.859662 1720.062067 1852.577727 1926.191034 1529.212253 1841.948863 1722.628081 1807.509488 1.084328664 1.048216729 0.993001516 0.951619938 1.024933888 1.065660262 0.846032767 1.019053496 0.953039579 1 10.8197875 -6.682676053 4.925736245 1.041548462 0.980391754 0.044318517 0.064114575 0.271789869 11.87911879 0.009614674 0.013611725 2.08E-07 6.682676053 -0.061156708 LKVPEWVDTVK ddPTM_HeLa_SAHA_4h_R1 2 LKVPEWVDTVK 11 1 P39019;M0R2L9;M0QYF7;M0R140 P39019 RPS19 40S ribosomal protein S19 0 0 ; ; 131.69 0.0003414 4274600 3981.5 3447.1 3072.37 3776.5 4181.2 3955.3 3788.2 3275.55 3644 3897.3 FALSE FALSE TRUE 4400.292438 3558.788302 3491.056583 3849.599618 3860.837359 3618.286188 3361.941766 3191.766174 3618.641107 4065.331676 1.082394449 0.87539925 0.85873844 0.946933713 0.949697999 0.890034683 0.826978469 0.78511827 0.890121987 1 11.98915735 -7.252656838 24.8728225 1.03890849 0.879657139 0.30374765 0.06873881 283.9824335 804260.123 0.009694672 0.011772833 5.59E-08 7.252656838 -0.159251351 LKVPPAINQFTQALDR ddPTM_HeLa_SAHA_4h_R1 1 LKVPPAINQFTQALDR 16 1 P62424;Q5T8U3 P62424 RPL7A 60S ribosomal protein L7a 0 0 154.69 7.55E-08 1384900 302.19 183.36 213.63 370.53 396.28 280.16 244.38 173.17 314.14 342.06 FALSE FALSE TRUE 333.9757307 189.3009843 242.7423839 377.7021439 365.917112 256.2887919 216.8817192 168.7405621 311.9538742 356.8078806 0.936009962 0.530540368 0.680316767 1.058558862 1.025529793 0.718282319 0.607838927 0.472917139 0.874290875 1 8.479003669 -4.899677455 2.369789017 0.922621904 0.516884176 0.377444921 0.161380959 0.214987446 2.362566896 0.025401214 0.105312864 1.26E-05 4.899677455 -0.405737729 LLACIASRPGQCGR ddPTM_HeLa_SAHA_4h_R1 2 LLACIASRPGQCGR 14 1 P62241;Q5JR95 P62241 RPS8 40S ribosomal protein S8 0 0 ; ; 115 0.0011484 28176000 2931.1 2630.8 3266.7 3066.3 3346.2 3322.1 3782 2892.6 2489 3083.7 FALSE FALSE TRUE 3239.406546 2716.039646 3711.868864 3125.65267 3089.814879 3039.03839 3356.439406 2818.61148 2471.678846 3216.653398 1.007073547 0.84436814 1.153953629 0.971709502 0.960568173 0.944782671 1.043456969 0.876255888 0.768400738 1 11.65134478 -4.246198035 23.89898341 0.995987052 0.876255729 0 0.103245077 1806.978938 2833322.244 0.009145218 0.270925462 5.67E-05 4.246198035 -0.119731323 LLADPTGAFGK ddPTM_HeLa_SAHA_4h_R1 1 LLADPTGAFGK 11 0 P30044-2;P30044-3;P30044;P30044-4 P30044-2 PRDX5 "Peroxiredoxin-5, mitochondrial" 0 0 114.51 0.008747 1022200 1823.3 1808.7 1291.1 2006.4 2265.1 2317.4 1726.1 2021.3 2042.4 2140.9 FALSE FALSE TRUE 2015.08306 1867.303067 1467.044384 2045.236773 2091.548527 2119.944483 1531.874685 1969.598073 2028.186772 2233.204676 0.902327978 0.83615402 0.656923389 0.915830419 0.936568219 0.949283559 0.685953554 0.881960392 0.90819565 1 11.12489977 -8.055967447 1.003351164 0.981072881 0.838807617 0.166068675 0.096951029 0.437039677 0.93097024 0.027263392 0.020981641 8.79E-09 8.055967447 -0.142265264 LLAEPVPGIK ddPTM_HeLa_SAHA_4h_R1 1 LLAEPVPGIK 10 0 F8VZ29;F8VSD4;F8VV71;P61088;Q5JXB2 F8VZ29 UBE2N;UBE2NL Ubiquitin-conjugating enzyme E2 N;Putative ubiquitin-conjugating enzyme E2 N-like 0 0 133.23 0.0011325 656710 1252.1 1279.8 1255.7 1352.2 1320.3 1549.3 1315.1 1298 1402.7 1384.7 FALSE FALSE TRUE 1383.801623 1321.26636 1426.820257 1378.373786 1219.138899 1417.290924 1167.121487 1264.799039 1392.938496 1444.401194 0.958045195 0.914750255 0.987828218 0.954287349 0.844044511 0.98123079 0.808031378 0.875656324 0.964370912 1 10.4962558 -1.000000001 0.173392039 1.008240188 0.329658257 0.419624879 0.047492307 32.81769019 0.348750536 0.060304508 5.840034811 0.1 1.000000001 -0.678581931 LLAEVTLK ddPTM_HeLa_SAHA_4h_R1 1 LLAEVTLK 8 0 K7ER16;K7EPH2;K7ER00;Q9Y285 K7ER16 FARSA Phenylalanine--tRNA ligase alpha subunit 0 0 143.61 0.00011337 283580 292.59 403.02 512.57 408.89 306.9 508.89 400.87 459.5 456.15 402.59 FALSE FALSE TRUE 323.3659587 416.0781124 582.4203703 416.8046572 283.3853883 465.5297091 355.7630526 447.7466553 452.975615 419.9476251 0.770014972 0.990785725 1.386888115 0.99251581 0.674811265 1.108542307 0.84716053 1.066196422 1.078647879 1 8.714065599 -7.029966931 24.24687564 0.89081723 1.009543606 0 0.188652466 971.5916964 786133.8218 0.031619396 0.038761436 9.33E-08 7.029966931 0.118726376 LLANMVYQYK ddPTM_HeLa_SAHA_4h_R1 1 LLANMVYQYK 10 0 P28074;P28074-3;H0YJM8;P28074-2 P28074 PSMB5 Proteasome subunit beta type-5 0 0 157.86 3.37E-07 400530 171.51 76.738 152.2 187.75 74.806 0 77.805 0 0 0 FALSE FALSE TRUE 189.5502087 79.22436155 172.9410234 191.3841727 69.07438044 0 69.05017663 0 0 0 0 LLAS(ph)SPALPSSGAQAR ddPTM_HeLa_SAHA_4h_R1 2 LLASSPALPSSGAQAR 16 0 Q9NYZ3 Q9NYZ3 GTSE1 G2 and S phase-expressed protein 1 1 0 LLAS(0.949)S(0.051)PALPSSGAQAR;LLAS(0.5)S(0.5)PALPSSGAQAR ; 257.81 7.91E-47 23762000 3398.3 3310.4 3456.6 3027.8 4097.4 4195.5 3748.3 3148.4 3645.8 3513.5 TRUE FALSE FALSE 3755.748786 3417.659132 3927.647447 3086.407447 3783.458097 3838.019797 3326.531419 3067.868487 3620.428581 3664.98418 1.024765347 0.932516749 1.071668322 0.842133907 1.032325901 1.047213196 0.907652327 0.837075506 0.987842895 1 11.83959126 -4.564123284 4.366009025 1.001673706 0.849845892 0.383921201 0.062636895 0.122705447 5.042126998 0.00803042 0.036255006 2.73E-05 4.564123284 -0.151827814 LLASEGSTMDEIDLES(ph)ILGET(ph)K ddPTM_HeLa_SAHA_4h_R1 1 LLASEGSTMDEIDLESILGETK 22 0 A0A494C179;A0A0A0MRH8;A0A0A0MSH9;A0A494C1F7;Q86WJ1-5;Q86WJ1-3;Q86WJ1-4;Q86WJ1-2;Q86WJ1 A0A494C179 CHD1L Chromodomain-helicase-DNA-binding protein 1-like 2 0 LLASEGSTMDEIDLES(1)ILGET(1)K 51.566 0.014111 7364200 129.42 0 47.48 0 70.808 0 52.229 111.8 0 0 TRUE FALSE FALSE 143.0329894 0 53.95032713 0 65.38270634 0 46.35205546 108.9403179 0 0 0 LLASS(ph)PALPSSGAQAR ddPTM_HeLa_SAHA_4h_R1 1 LLASSPALPSSGAQAR 16 0 Q9NYZ3 Q9NYZ3 GTSE1 G2 and S phase-expressed protein 1 1 0 LLAS(0.003)S(0.997)PALPSSGAQAR 176.56 4.27E-09 18163000 1498 1616.9 1731 1527.3 1986.5 2105.4 1571.4 1407.7 1734.5 1728 TRUE FALSE FALSE 1655.566513 1669.288621 1966.891665 1556.8631 1834.294799 1926.008075 1394.581936 1371.693072 1722.429473 1802.502537 0.91848221 0.926095019 1.091200498 0.863723112 1.017637846 1.068518926 0.77369208 0.760993699 0.955576726 1 10.81578557 -4.7411419 24.4144592 0.970229677 0.767342543 0.621268277 0.066100817 92.04368615 110710.6704 0.008998712 0.033577134 1.81E-05 4.7411419 -0.202887134 LLAVAATAPPDAPNREEVFDER ddPTM_HeLa_SAHA_4h_R1 1 LLAVAATAPPDAPNREEVFDER 22 1 P18206;P18206-2 P18206 VCL Vinculin 0 0 68.625 0.0061325 10038000 435.62 535.2 479.22 428.53 474.32 584.41 426.94 360.53 589.42 552.86 FALSE FALSE TRUE 481.4405103 552.5408312 544.5256059 436.8248178 437.9777041 534.6149802 378.8995876 351.3081646 585.3181782 576.6965002 0.834824748 0.958113723 0.944215208 0.757460497 0.759459619 0.927030041 0.657017317 0.609173394 1.014950113 1 9.171668457 -2.635350325 0.239416584 0.963299493 1.40E-23 0.657480463 0.08030879 12.51350118 0.304185363 0.056812055 4.103993305 0.002315526 2.635350325 -0.963299493 LLCDAYMCMYQS(ph)PTMS(ph)LY(ph)K ddPTM_HeLa_SAHA_4h_R1 1 LLCDAYMCMYQSPTMSLYK 19 0 Q9NQC7-2;Q9NQC7;H3BS09 Q9NQC7-2 CYLD Ubiquitin carboxyl-terminal hydrolase CYLD 3 0 LLCDAY(0.03)MCMY(0.476)QS(0.514)PT(0.238)MS(0.759)LY(0.983)K 40.52 0.0088466 0 0 104.15 0 214.08 65.619 0 68.414 222.43 0 124.27 TRUE FALSE FALSE 0 107.5245283 0 218.223828 60.5912864 0 60.71587666 216.7405627 0 129.6278879 0 0.829486078 0 1.683463578 0.467424776 0 0.468385913 1.672021092 0 1 7.01823232 -4.259198434 24.09416976 0.53877758 1.67202173 0.306919851 0.527135181 124.2559045 1335815.644 0.073727826 0.652898299 5.51E-05 4.259198434 1.13324415 LLCGLLAER ddPTM_HeLa_SAHA_4h_R1 2 LLCGLLAER 9 0 P14174 P14174 MIF Macrophage migration inhibitory factor 0 0 ; ; 128.61 0.0024314 2979800 1030.64 1501.93 3591.2 2143.12 2066.78 391.36 2546.99 109.54 75.973 593.51 FALSE FALSE TRUE 1139.047444 1550.593517 4080.590034 2184.603187 1908.423763 358.0139263 2260.395982 106.7381254 75.44429771 619.0991207 1.839846651 2.504596543 6.59117401 3.52868081 3.082581931 0.578282078 3.65110514 0.172408782 0.12186142 1 9.2740266 -4.225699673 24.79752286 2.136863573 0.172409331 0.097685436 1.815782559 40271.91525 27941599.13 0.259079924 83.6269065 5.95E-05 4.225699673 -1.964454242 LLDEDEIR ddPTM_HeLa_SAHA_4h_R1 1 LLDEDEIR 8 0 O43719;Q5H919;Q5H918 O43719 HTATSF1 HIV Tat-specific factor 1 0 0 131.03 0.011001 1683600 1060.7 800.49 862.07 892.06 770.05 1412.7 877.28 868.5 1492 923.6 FALSE FALSE TRUE 1172.269293 826.4264012 979.5484101 909.3271112 711.0489354 1292.330012 778.5661455 846.2850276 1481.617051 963.420916 1.216777914 0.857804089 1.016739821 0.943852366 0.738045981 1.341397089 0.808126679 0.878416706 1.537870962 1 9.912022435 -7.255593886 24.98120761 1.102367348 0.946204238 0.232440765 0.211942319 645.8411032 2760057.865 0.027260111 0.032932286 5.55E-08 7.255593886 -0.156163111 LLDEEEATDNDLR ddPTM_HeLa_SAHA_4h_R1 2 LLDEEEATDNDLR 13 0 Q8WUM4;Q8WUM4-2 Q8WUM4 PDCD6IP Programmed cell death 6-interacting protein 0 0 ; ; 257.13 2.15E-41 21923000 2341.7 2107.52 1828.34 2247.2 2603.5 2790.2 2644.1 2505.8 2713 2279.2 FALSE FALSE TRUE 2588.01075 2175.805031 2077.496654 2290.697806 2404.020392 2552.459263 2346.578909 2441.705264 2694.120012 2377.467466 1.088557798 0.915177626 0.873827585 0.963503324 1.011168576 1.073604287 0.98700779 1.027019423 1.133189013 1 11.21520988 -7.271418957 24.94669976 1.041818959 0.979347591 0.284653661 0.063256078 892.6661102 2231459.406 0.011234397 0.012923317 5.35E-08 7.271418957 -0.062471368 LLDESES(ph)AASSR ddPTM_HeLa_SAHA_4h_R1 2 LLDESESAASSR 12 0 Q8N108-19;Q8N108-16;Q8N108-14;Q8N108-18;Q8N108-17;Q8N108-15;Q8N108;Q8N108-13;Q8N108-12 Q8N108-19 MIER1 Mesoderm induction early response protein 1 1 0 LLDES(0.004)ES(0.995)AAS(0.001)SR;LLDES(0.266)ES(0.734)AASSR ; 182.37 1.12E-05 8062900 1063.18 1312.88 1028.62 1408.58 1251.05 1438.8 1022.46 915.35 1775.25 1284.18 TRUE FALSE FALSE 1175.01015 1355.418173 1168.794977 1435.845103 1155.194819 1316.206146 907.4101098 891.9366724 1762.895891 1339.547284 0.877169596 1.01184795 0.872529839 1.071888331 0.862377038 0.982575353 0.677400582 0.665849338 1.316038569 1 10.38752979 -4.756124746 24.98654007 0.946631279 0.671624808 0.456621974 0.133426361 46.32960071 217809.3491 0.009054077 0.031974093 1.75E-05 4.756124746 -0.275006471 LLDLPAAAS(ph)SEDIER ddPTM_HeLa_SAHA_4h_R1 1 LLDLPAAASSEDIER 15 0 P22466 P22466 GAL Galanin peptides;Galanin;Galanin message-associated peptide 1 0 LLDLPAAAS(0.823)S(0.177)EDIER 141.82 0.00013234 3588500 1025.8 1295.9 847.88 1200.3 984.96 1350.2 1076.4 1027.8 1645.9 1056 TRUE FALSE FALSE 1133.698351 1337.88801 963.4246708 1223.533542 909.4925776 1235.155364 955.2806391 1001.510364 1634.446048 1101.529328 1.029203964 1.214573209 0.874624621 1.110758934 0.825663516 1.121309558 0.867231235 0.909199909 1.483797123 1 10.10529219 -5.773631411 24.999959 1.025307062 0.939910935 0.088671362 0.181350805 332.5334451 681865.199 0.014701103 0.026789347 1.68E-06 5.773631411 -0.085396127 LLDLPAAAS(ph)SEDIERS ddPTM_HeLa_SAHA_4h_R1 1 LLDLPAAASSEDIERS 16 1 P22466 P22466 GAL Galanin peptides;Galanin;Galanin message-associated peptide 1 0 LLDLPAAAS(0.968)S(0.031)EDIERS 130.47 0.00035022 18134000 1656.1 2047.5 2318.6 2116.3 2264.7 2061.3 2319.1 1711.8 1922.5 2202.6 TRUE FALSE FALSE 1830.296196 2113.840343 2634.566733 2157.264047 2091.179175 1885.665643 2058.148764 1668.014635 1909.121166 2297.564865 0.796624384 0.92003511 1.146677847 0.938934991 0.910171986 0.820723572 0.895795716 0.725992402 0.830932434 1 11.16588988 -3.33470445 0.889777969 0.922695323 3.57E-10 0.287208107 0.094350255 11.47501328 2.001244128 0.016955264 15.28344773 0.000462696 3.33470445 -0.922695322 LLDLPAAASS(ph)EDIERS ddPTM_HeLa_SAHA_4h_R1 1 LLDLPAAASSEDIERS 16 1 P22466 P22466 GAL Galanin peptides;Galanin;Galanin message-associated peptide 1 0 LLDLPAAAS(0.09)S(0.893)EDIERS(0.016) 213.02 6.05E-20 19593000 2471.8 2825.2 3111 3136.2 2517.3 3258.2 3198.2 2489.6 2614.3 2789.3 TRUE FALSE FALSE 2731.795265 2916.738334 3534.950879 3196.905686 2324.425018 2980.58303 2838.330119 2425.919637 2596.106873 2909.560374 0.938903104 1.002467026 1.214943299 1.098759014 0.798892176 1.024410099 0.975518551 0.833775322 0.892267745 1 11.50658547 -4.267574356 4.386741143 0.990188774 0.823413486 0.170769065 0.106088936 0.27989259 12.98400237 0.01430673 0.143297751 5.40E-05 4.267574356 -0.166775288 LLDMDGIIVEK ddPTM_HeLa_SAHA_4h_R1 1 LLDMDGIIVEK 11 0 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 108.43 0.012514 209780 66.559 0 54.935 151.74 0 132.91 116.75 0 122.11 187.34 FALSE FALSE TRUE 73.559981 0 62.42125571 154.6771471 0 121.5853203 103.6129827 0 121.2602266 195.4171442 0.376425422 0 0.319425688 0.791522912 0 0.622183487 0.530214394 0 0.620519899 1 7.610413232 -8.971600911 0.787587662 1.00221663 0.341789962 0.279999739 0.282511923 0.431610713 0.491615097 0.166019714 0.052023843 1.07E-09 8.971600911 -0.660426668 LLDPEDISVDHPDEK ddPTM_HeLa_SAHA_4h_R1 2 LLDPEDISVDHPDEK 15 0 A0A087WUZ3;Q01082;Q01082-2;F8W6C1;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 0 0 ; ; 154.13 3.62E-05 6387500 2538.3 3022.9 2503.2 2831.4 3335.2 4283.1 3393 3218 4107 2961.7 FALSE FALSE TRUE 2805.29004 3120.843943 2844.32306 2886.205841 3079.657697 3918.155784 3011.21071 3135.68822 4078.419053 3089.393381 0.908039118 1.010180174 0.920673643 0.934230603 0.996848674 1.268260561 0.974693197 1.01498509 1.320135881 1 11.59310787 -5.50958841 24.96721916 0.956037803 1.084468249 0 0.138607221 503.6737056 946200.0789 0.011009716 0.02363125 3.09E-06 5.50958841 0.128430445 LLDPEDVDVPQPDEK ddPTM_HeLa_SAHA_4h_R1 2 LLDPEDVDVPQPDEK 15 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;E9PMV1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 173.76 3.41E-06 11076800 6437 6390.6 5581.3 6442.4 6341.9 7117.1 6930.2 7280.9 6809.6 6124.7 FALSE FALSE TRUE 7114.073194 6597.659633 6341.890498 6567.101968 5855.984992 6510.68304 6150.395657 7094.665121 6762.211439 6388.765791 1.113528564 1.032697058 0.992662856 1.027914026 0.916606616 1.019083068 0.962689173 1.11049072 1.058453489 1 12.64132154 -6.945054181 5.489013965 1.054556313 1.001118908 0.162196501 0.053092362 0.288845938 18.50494407 0.009685043 0.012737386 1.13E-07 6.945054181 -0.053437406 LLDPEDVDVS(ph)SPDEK ddPTM_HeLa_SAHA_4h_R1 1 LLDPEDVDVSSPDEK 15 0 Q03001;F8W9J4;Q03001-14;F6QMI7;E9PHM6;A0A494C1D7;E7ETB9;Q03001-13;Q5T0V7 Q03001 DST Dystonin 1 0 LLDPEDVDVS(0.698)S(0.302)PDEK 108.06 0.0012549 0 1044.2 1074 964.98 888.84 1089.1 1174.1 1104.4 941.33 1007.6 1121.8 TRUE FALSE FALSE 1154.033747 1108.798305 1096.482449 906.0447835 1005.653393 1074.060075 980.1300054 917.2521416 1000.58803 1170.166288 0.986213463 0.947556186 0.937031309 0.774287204 0.85941067 0.91786961 0.837598908 0.783864782 0.855081914 1 10.19249785 -6.600420061 2.219070518 0.991631314 0.841147079 0.377857463 0.059661389 0.112241238 1.121462442 0.006710012 0.010124973 2.51E-07 6.600420061 -0.150484235 LLDQIVEK ddPTM_HeLa_SAHA_4h_R1 1 LLDQIVEK 8 0 Q96AE4;E9PEB5;Q96AE4-2;C9JSZ1 Q96AE4 FUBP1 Far upstream element-binding protein 1 0 0 104.17 0.012228 528240 454.81 610.7 627.42 665.64 616.77 690.81 774.06 829.15 920.63 797.3 FALSE FALSE TRUE 502.6490025 630.4870807 712.9215301 678.5244247 569.5132158 631.9491016 686.9607316 807.9415436 914.2232609 831.6755049 0.604381155 0.758092642 0.857211167 0.815852362 0.684778153 0.759850564 0.82599611 0.971462474 1.099254764 1 9.699876931 -9.616129518 1.443955293 0.999226623 0.758534165 0.486341348 0.102330133 0.333621294 1.25537948 0.076405242 0.017779488 2.42E-10 9.616129518 -0.240692458 LLDRS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 LLDRSPSR 8 1 A0A096LNR9;A0A1B0GUM4;A0A669KBC2;O76039;O76039-1;A0A1B0GTX4 A0A096LNR9 CDKL5 Cyclin-dependent kinase-like 5 1 0 LLDRS(0.995)PS(0.005)R 71.692 0.021762 5191600 1969.1 2195.6 1924.2 2596.3 2873.7 2350.5 2937.4 2436.2 1729.7 2170.3 TRUE FALSE FALSE 2176.218973 2266.738881 2186.419955 2646.555141 2653.517727 2150.224176 2606.876021 2373.885532 1717.662877 2263.872254 0.961281702 1.001266249 0.96578769 1.169039082 1.172114602 0.949799253 1.15151198 1.048595179 0.758727827 1 11.14457684 -6.280039775 24.74242693 0.981943149 1.097033675 0.380667174 0.094353847 475.0517263 631917.5317 0.009224876 0.01410593 5.25E-07 6.280039775 0.115090527 LLDSSTVTHLFK ddPTM_HeLa_SAHA_4h_R1 1 LLDSSTVTHLFK 12 0 G3V5Z7;P60900;G3V295;P60900-2;G3V3U4;G3V3I1 G3V5Z7 PSMA6 Proteasome subunit alpha type;Proteasome subunit alpha type-6 0 0 115.57 0.0012676 803470 842.12 1149.2 740.62 1276.5 1397.7 1067.3 1229.5 799.23 494.56 968.54 FALSE FALSE TRUE 930.6980454 1186.434834 841.5478366 1301.208503 1290.608528 976.3600355 1091.153424 778.7868539 491.1183167 1010.298499 0.921210955 1.174340885 0.832969501 1.287944607 1.277452682 0.966407489 1.080030728 0.770848273 0.486112092 1 9.980565894 -7.292658622 24.75882828 0.962794063 1.062107251 0.105220379 0.220709607 1202.360823 953544.9003 0.026882215 0.03074249 5.10E-08 7.292658622 0.099313188 LLDTVDDMLANDIAR ddPTM_HeLa_SAHA_4h_R1 1 LLDTVDDMLANDIAR 15 0 Q9H4M9;A0A024R571;C9J2Z4 Q9H4M9 EHD1 EH domain-containing protein 1 0 0 103.21 0.014663 1112300 139.9 122.5 164.21 266.74 143.77 327.34 260.32 408.63 278.97 119.18 FALSE FALSE TRUE 154.6153239 126.4690804 186.5876836 271.9031384 132.7543737 299.4487904 231.0281085 398.1778363 277.0286251 124.3184331 1.243703931 1.017299505 1.500885098 2.187150624 1.06785752 2.408723977 1.858357629 3.202886543 2.228379318 1 6.957896415 -1 0.30511894 1.043297936 18.09881543 0.419808103 0.53073366 17.88458781 0.228745559 0.126128475 169.7961257 0.1 1 17.05551749 LLEAISS(ph)LDGK ddPTM_HeLa_SAHA_4h_R1 1 LLEAISSLDGK 11 0 Q9BVJ6-3;Q9BVJ6 Q9BVJ6-3 UTP14A U3 small nucleolar RNA-associated protein 14 homolog A 1 0 LLEAIS(0.318)S(0.682)LDGK 117.27 0.0024162 6435500 2259.8 2106.3 1881 2747.5 2341 3143.5 2864 2791.5 2869.7 2482.7 TRUE FALSE FALSE 2497.496132 2174.545502 2137.332884 2800.681835 2161.633086 2875.656115 2541.735182 2720.097472 2849.729524 2589.741347 0.96438053 0.839676713 0.825307472 1.081452338 0.834690726 1.110402828 0.98146295 1.050335577 1.100391561 1 11.3385923 -5.233817363 24.99986641 0.95862821 1.040806681 0.173389793 0.096264129 1063.493993 962535.5303 0.0119405 0.030434684 5.84E-06 5.233817363 0.082178471 LLEAQIATGGVIDPVHSHR ddPTM_HeLa_SAHA_4h_R1 2 LLEAQIATGGVIDPVHSHR 19 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;A0A075B730;P58107;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;A0A075B730;P58107;Q15149-3;Q15149-4 PLEC;EPPK1 Plectin;Epiplakin 0 0 ; ; 81.713 0.0025156 4219300 1587.19 1712.49 1827.59 2117.8 1992.55 575.56 1840.38 1098.55 1966.51 1757.41 FALSE FALSE TRUE 1754.137926 1767.9758 2076.644448 2158.793081 1839.881249 526.51905 1633.295599 1070.450682 1952.824897 1833.180546 0.956882251 0.964430811 1.13280956 1.17762164 1.003655234 0.287216145 0.89096276 0.583930854 1.065265994 1 10.84013317 -5.338441469 14.51124483 1.006460515 0.617751239 0.64032942 0.154283325 1.13855913 213.939502 0.020587107 0.046036326 4.59E-06 5.338441469 -0.388709276 LLEDGEDFNLGDALDS(ph)SNSMQTIQK ddPTM_HeLa_SAHA_4h_R1 2 LLEDGEDFNLGDALDSSNSMQTIQK 25 0 P05783 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 LLEDGEDFNLGDALDS(0.454)S(0.454)NS(0.091)MQT(0.001)IQK;LLEDGEDFNLGDALDS(0.779)S(0.144)NS(0.077)MQTIQK ; 162.21 1.25E-10 28657000 5076.3 5123 4824.1 4729.7 6484.6 7345.5 5614 5821.7 5618 5456.1 TRUE FALSE FALSE 5610.248525 5288.988561 5481.503225 4821.250183 5987.751349 6719.622075 4982.297945 5672.789344 5578.903881 5691.339173 0.985751921 0.929304756 0.963130655 0.847120517 1.052081271 1.180675035 0.875417506 0.996740692 0.980244493 1 12.47455244 -3.918353794 21.05513508 0.98598701 1.561030164 0 0.088173739 18082.59033 3060443.204 0.011462102 170021.1773 0.000120683 3.918353794 0.575043154 LLEDGEDFNLGDALDSS(ph)NSMQTIQK ddPTM_HeLa_SAHA_4h_R1 1 LLEDGEDFNLGDALDSSNSMQTIQK 25 0 P05783 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 LLEDGEDFNLGDALDS(0.24)S(0.674)NS(0.086)MQTIQK 136.18 2.29E-09 18253000 3261.8 2868.3 3142.3 3505.6 4286 4873.3 3943.9 3527 3320.4 3536.3 TRUE FALSE FALSE 3604.89109 2961.234802 3570.51628 3573.455957 3957.607606 4458.067424 3500.121992 3436.784447 3297.293066 3688.767199 0.97726175 0.802770856 0.96794297 0.968739897 1.072880828 1.208552121 0.948859552 0.931689169 0.893873993 1 11.84892303 -5.773922544 24.19133308 0.970412208 1.045954046 0.183968291 0.091945615 238.3963106 461993.1385 0.01363741 0.024850712 1.68E-06 5.773922544 0.075541838 LLEDGEDFNLGDALDSSNS(ph)MQTIQK ddPTM_HeLa_SAHA_4h_R1 1 LLEDGEDFNLGDALDSSNSMQTIQK 25 0 P05783 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 LLEDGEDFNLGDALDS(0.202)S(0.202)NS(0.595)MQTIQK 170.1 1.03E-11 14012000 2297.1 2842.8 2084.8 2400.2 2682 3244.6 2740.6 2402.7 2402.9 2561 TRUE FALSE FALSE 2538.719517 2934.908585 2368.905687 2446.659342 2476.505739 2968.141826 2432.220475 2341.242413 2386.178023 2671.417243 0.950326844 1.098633541 0.8867599 0.915865669 0.927038165 1.111073844 0.910460723 0.87640462 0.893225508 1 11.38338961 LLEDS(ph)EES(ph)SEETVSR ddPTM_HeLa_SAHA_4h_R1 1 LLEDSEESSEETVSR 15 0 A2AB15;A0A140T947;O60231 A2AB15 DHX16 Putative pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 2 0 LLEDS(1)EES(0.815)S(0.175)EET(0.01)VSR 113.43 0.017773 46919000 1273.4 1530.4 1077.2 1779.3 1608.2 1748.7 1876.5 1757.6 1729.4 1441.5 TRUE FALSE FALSE 1407.342055 1579.985964 1223.995206 1813.740924 1484.980063 1599.700922 1665.351281 1712.643137 1717.364965 1503.65012 0.935950482 1.050767026 0.814015967 1.206225372 0.98758351 1.063878426 1.107539088 1.138990457 1.142130701 1 10.55425319 -6.250618741 24.99763593 0.965732377 1.092869524 0.239952205 0.095154556 537.4180148 1241532.338 0.01087276 0.01791303 5.62E-07 6.250618741 0.127137146 LLEDS(ph)EESSEETVSR ddPTM_HeLa_SAHA_4h_R1 2 LLEDSEESSEETVSR 15 0 A2AB15;A0A140T947;O60231 A2AB15 DHX16 Putative pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 1 0 LLEDS(0.999)EES(0.001)SEETVSR;LLEDS(0.999)EES(0.001)SEETVSR ; 233.62 5.21E-25 9950700 1517.9 1146.26 1000.12 1180.89 1499.86 1686.81 1822.85 1273.53 1703.97 1222.52 TRUE FALSE FALSE 1677.559686 1183.399576 1136.411145 1203.747834 1384.941051 1543.084298 1617.738121 1240.954947 1692.111934 1275.22882 1.315496999 0.927989987 0.891142928 0.943946541 1.086033368 1.210045032 1.268586543 0.973123354 1.326908479 1 10.31654042 -7.244385486 24.62694329 1.148984707 1.050090695 0.184851232 0.146137234 1500.854052 2167333.262 0.028298671 0.034605819 5.70E-08 7.244385486 -0.098894012 LLEDTLFPSSK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 LLEDTLFPSSKK 12 1 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 0 1 ; LLEDTLFPSSK(1)K;LLEDTLFPSSK(1)K 181.68 1.65E-16 1064810 177.31 287.854 432.91 675.31 584.48 705.31 702.84 647.14 324.87 171.8 FALSE TRUE FALSE 195.9602793 297.1806585 491.9047203 688.3816016 539.6972687 645.21362 623.7545934 630.5870958 322.6092032 179.2071388 1.093484783 1.658308148 2.744894672 3.841262163 3.011583536 3.600379005 3.480634743 3.518761028 1.800202857 1 7.485484298 -6.753401792 1.970013334 1.041973385 3.477777001 0.90586053 0.317397931 0.034224714 0.272051455 0.032062635 0.046157095 1.76E-07 6.753401792 2.435803616 LLEEENQES(ph)LR ddPTM_HeLa_SAHA_4h_R1 1 LLEEENQESLR 11 0 P48681 P48681 NES Nestin 1 0 LLEEENQES(1)LR 96.866 0.010377 2208100 388.35 464.93 352.64 510.35 487.45 495.06 457.4 471.19 489.73 401.68 TRUE FALSE FALSE 429.1984348 479.9940371 400.6959427 520.2285622 450.1016863 452.8781029 405.9321482 459.1376421 486.3219291 418.9983906 1.024343875 1.145574894 0.956318572 1.241600383 1.074232495 1.080858812 0.968815531 1.095798104 1.16067732 1 8.710800892 -7.483048905 14.88010917 1.010735523 1.0779067 0 0.089999599 5.942271329 2220.049968 0.012386347 0.013916631 3.29E-08 7.483048905 0.067171177 LLEEERR ddPTM_HeLa_SAHA_4h_R1 1 LLEEERR 7 1 Q8NE71;Q8NE71-2;H0YGW7;Q5JSZ5;A0A494C0D3;Q5JSZ5-5;H0Y412;A0A494C065 Q8NE71;Q5JSZ5 ABCF1;PRRC2B ATP-binding cassette sub-family F member 1;Protein PRRC2B 0 0 94.262 0.0064161 0 883.14 858.62 641.79 883.07 881.71 1023.7 768.01 947.8 806.56 885.36 FALSE FALSE TRUE 976.0327172 886.4398514 729.2497989 900.1630968 814.1535703 936.4750008 681.5914935 923.5566484 800.9470833 923.5322024 1.056847519 0.959836429 0.789631154 0.974695949 0.881564896 1.014014453 0.738026776 1.00002647 0.867264922 1 9.851018457 -7.001137246 24.9936345 1.025870841 0.897985361 0.04566876 0.09702647 33.31576276 732213.0234 0.01222817 0.015956083 9.97E-08 7.001137246 -0.12788548 LLEELEEGQK ddPTM_HeLa_SAHA_4h_R1 2 LLEELEEGQK 10 0 E5RIF1;D6RG00;H0YBX6;I3L0A0;Q13404-8;Q15819;Q13404;Q13404-7;Q13404-2;Q13404-1 E5RIF1 UBE2V2;UBE2V1;TMEM189-UBE2V1 Ubiquitin-conjugating enzyme E2 variant 1;Ubiquitin-conjugating enzyme E2 variant 2 0 0 ; ; 168.83 0.00066817 12212000 3852.4 2958.4 3235.8 3721 3135.4 5072.4 4474.6 4215.9 5181.8 4300.6 FALSE FALSE TRUE 4257.613107 3054.254101 3676.757973 3793.025336 2895.166329 4640.202983 3971.106231 4108.063383 5145.739432 4486.019913 0.949084754 0.680838284 0.819603578 0.845521288 0.645375274 1.03436968 0.885218146 0.915747915 1.147061211 1 12.13122031 -7.486451555 16.67777203 0.977541265 0.833571385 0.353846107 0.117500983 8.607158464 3941.177512 0.017851692 0.019923208 3.26E-08 7.486451555 -0.14396988 LLEENETEAVTVPTPS(ph)PTPVR ddPTM_HeLa_SAHA_4h_R1 3 LLEENETEAVTVPTPSPTPVR 21 0 Q9UHR4 Q9UHR4 BAIAP2L1 Brain-specific angiogenesis inhibitor 1-associated protein 2-like protein 1 1 0 LLEENETEAVTVPT(0.135)PS(0.656)PT(0.209)PVR;LLEENETEAVTVPT(0.006)PS(0.749)PT(0.245)PVR;LLEENETEAVTVPT(0.023)PS(0.977)PTPVR ;; 364.64 1.00E-270 43088000 10427.4 11847 11141.8 11228.3 12663.6 13220.2 12582.3 11497.1 11550.6 11192.5 TRUE FALSE FALSE 11524.20177 12230.85057 12660.14648 11445.63998 11693.3177 12093.76459 11166.50649 11203.02083 11470.21843 11675.06345 0.987078299 1.047604634 1.084374962 0.980349275 1.001563525 1.035862857 0.956440754 0.959568304 0.982454484 1 13.51114277 -4.737385346 24.62799254 1.005902991 0.958004451 0.303310653 0.032264893 215.8329551 220978.7012 0.004684355 0.017508074 1.83E-05 4.737385346 -0.04789854 LLEGEEER ddPTM_HeLa_SAHA_4h_R1 4 LLEGEEER 8 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8;P20700;E9PBF6;Q03252 P02545;P02545-2;P20700;Q03252 LMNA;LMNB1;LMNB2 Prelamin-A/C;Lamin-A/C;Lamin-B1;Lamin-B2 0 0 ;;; ;;; 124.98 0.0037919 68179200 7530 7173.1 6192.74 7042.2 7722.3 8667.7 8543.9 7886.3 7901.5 6733 FALSE FALSE TRUE 8322.039949 7405.513146 7036.654357 7178.511964 7130.619042 7929.163197 7582.517886 7684.579865 7846.512818 7023.292581 1.184920015 1.054421849 1.001902495 1.022100657 1.015281502 1.128980903 1.079624378 1.094156306 1.117212864 1 12.77793182 LLEGEESRIS(ph)LPLPNFSSLNLR ddPTM_HeLa_SAHA_4h_R1 2 LLEGEESRISLPLPNFSSLNLR 22 1 P08670;B0YJC4 P08670 VIM Vimentin 1 0 LLEGEES(0.145)RIS(0.447)LPLPNFS(0.073)S(0.336)LNLR;LLEGEES(0.041)RIS(0.959)LPLPNFSSLNLR ; 133.27 1.60E-06 65626000 1179.98 1367.68 1075.57 1281.25 1295.6 1457.06 1625.31 890.28 1340.61 1022.09 TRUE FALSE FALSE 1304.09571 1411.993729 1222.143078 1306.050446 1196.331408 1332.910291 1442.425841 867.5079267 1331.280586 1066.157302 1.22317383 1.32437655 1.146306531 1.225007271 1.122096529 1.250200405 1.352920285 0.813677236 1.248671827 1 10.0582046 -9.23194399 0.99010606 1.00110129 1.19344811 0 0.160144615 0.635789952 1.128598161 0.084646613 0.023984858 5.86E-10 9.23194399 0.19234682 LLELTS(ph)SYSPDVSDYKEGR ddPTM_HeLa_SAHA_4h_R1 1 LLELTSSYSPDVSDYKEGR 19 1 P38432 P38432 COIL Coilin 1 0 LLELT(0.001)S(0.815)S(0.166)YS(0.018)PDVSDYKEGR 158.5 3.23E-06 15341000 907.66 661.7 722.48 680.2 882.59 932.61 1109.2 1088 825.32 1066.1 TRUE FALSE FALSE 1003.131843 683.1395142 820.9358119 693.3662546 814.9661449 853.1463813 984.3898967 1060.170535 819.5765309 1112.064788 0.902044426 0.614298305 0.738208619 0.623494478 0.732840526 0.767173271 0.885191139 0.953335225 0.736986315 1 10.11902513 -7.47463855 5.171749865 0.958223199 0.756631544 0.091258193 0.12057495 0.144683016 8.216736579 0.018715158 0.020873815 3.35E-08 7.47463855 -0.201591656 LLEMILNKPGLK ddPTM_HeLa_SAHA_4h_R1 2 LLEMILNKPGLK 12 1 B4DK69;P52895;S4R3P0 B4DK69 AKR1C2 Aldo-keto reductase family 1 member C2 0 0 ; ; 141.71 5.37E-05 11695300 1130.73 1665.12 1588.82 2099.7 2094.46 2214.07 2324.54 1357.17 1560.33 1924.52 FALSE FALSE TRUE 1249.665369 1719.070981 1805.336115 2140.34273 1933.982927 2025.41878 2062.976641 1322.455557 1549.471536 2007.495476 0.622499719 0.856326204 0.899297726 1.066175618 0.963380964 1.008928192 1.027637007 0.658758923 0.771843103 1 10.97118102 -6.688025579 3.45913697 0.81880312 0.955652863 0.171668484 0.135531805 0.394320226 9.461608681 0.027446228 0.039063593 2.05E-07 6.688025579 0.136849743 LLEPVLLLGK ddPTM_HeLa_SAHA_4h_R1 1 LLEPVLLLGK 10 0 M0R210;P62249;M0R1M5;M0R3H0;Q6IPX4;M0QX76 M0R210 RPS16 40S ribosomal protein S16 0 0 141.48 1.83E-07 0 1768.7 1921.7 2216 1914.6 2161 1997 2559.7 1453.2 1390.3 1692.6 FALSE FALSE TRUE 1954.739981 1983.964341 2517.98494 1951.659852 1995.424647 1826.844365 2271.675819 1416.029248 1380.624789 1765.576269 1.107139926 1.123692233 1.426154725 1.10539538 1.130183205 1.034701472 1.286648364 0.802021002 0.781968365 1 10.78592343 -8.493938664 0.969163896 1.013401146 1.137635422 0.167617229 0.168940593 0.81628482 1.571922293 0.051631443 0.029419463 3.21E-09 8.493938664 0.124234276 LLEQWEKDDDIEEGDLPEHK ddPTM_HeLa_SAHA_4h_R1 1 LLEQWEKDDDIEEGDLPEHK 20 1 Q14696 Q14696 MESDC2 LDLR chaperone MESD 0 0 73.252 0.0034849 7353600 981.15 1168.4 1124.4 1579.7 1412.7 1658.8 1366.7 1332.2 1779.6 1432.9 FALSE FALSE TRUE 1084.351859 1206.256927 1277.627376 1610.277378 1304.459231 1517.460908 1212.915319 1298.124253 1767.215619 1494.679331 0.725474579 0.807033924 0.854783598 1.077339697 0.872735177 1.015241782 0.811488654 0.868496824 1.18233763 1 10.54562029 LLEQYK(ac)EESK ddPTM_HeLa_SAHA_4h_R1 1 LLEQYKEESK 10 1 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;Q5RI18;A0A1W2PP34;A0A1W2PPH7;A0A1W2PPL4;A0A1W2PQL0;A0A1W2PQD4 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 1 LLEQYK(1)EESK 174.98 1.03E-11 1075800 333.43 590.69 242.49 324.13 536.88 494.85 439.99 453.76 528.07 232.21 FALSE TRUE FALSE 368.5016972 609.8287436 275.5352744 330.4040048 495.7443704 452.685996 390.4811672 442.1534762 524.3951179 242.2217095 1.521340502 2.517646931 1.137533357 1.364056118 2.046655403 1.868891096 1.612081626 1.825408124 2.164938555 1 7.920184364 -8.450907371 0.781055593 1.037683088 1.744572063 0 0.503818374 0.454764937 0.578973842 0.156500809 0.080668956 3.54E-09 8.450907371 0.706888975 LLEQYK(ac)EESKK ddPTM_HeLa_SAHA_4h_R1 1 LLEQYKEESKK 11 2 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;Q5RI18;A0A1W2PP34;A0A1W2PPH7;A0A1W2PPL4;A0A1W2PQL0;A0A1W2PQD4 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 1 LLEQYK(1)EESKK 93.011 0.0092459 3552800 890.42 2417.4 1143.9 1286.1 2212 1740.7 2240.1 1870.9 1843.9 742.56 FALSE TRUE FALSE 984.078461 2495.725346 1299.784735 1310.994325 2042.517038 1592.382567 1988.038052 1823.045087 1831.06815 774.5753956 1.270474723 3.222056058 1.678060964 1.69253288 2.636950579 2.055813516 2.566616579 2.353605727 2.363963741 1 9.597261865 -7.432178904 8.874161032 1.118796404 2.278840674 0.172674048 0.58528977 0.170126693 15.47352633 0.071292988 0.081335337 3.70E-08 7.432178904 1.16004427 LLES(ph)PGVEAGEGEAEKEEAGAQGRPLR ddPTM_HeLa_SAHA_4h_R1 2 LLESPGVEAGEGEAEKEEAGAQGRPLR 27 2 A0A0G2JHC2;Q6NYC8;Q6NYC8-3 A0A0G2JHC2 PPP1R18 Phostensin 1 0 LLES(1)PGVEAGEGEAEKEEAGAQGRPLR;LLES(1)PGVEAGEGEAEKEEAGAQGRPLR ; 50.837 0.0060534 68588000 3512.8 3601.1 3446 3773 4548 4468.8 4416.8 3657 3704.8 3676.4 TRUE FALSE FALSE 3882.292421 3717.778003 3915.602934 3846.031871 4199.533223 4088.033099 3919.81004 3563.459235 3679.017995 3834.907596 1.012356184 0.969456997 1.021042316 1.002900793 1.095080681 1.066005633 1.022139371 0.929216453 0.959349842 1 11.9049761 LLETTDRPDGHQNNLR ddPTM_HeLa_SAHA_4h_R1 1 LLETTDRPDGHQNNLR 16 1 Q14974;Q14974-2;J3KTM9 Q14974 KPNB1 Importin subunit beta-1 0 0 104.81 0.0016383 8691900 673.62 1012.9 768.12 931.37 924.39 1180.6 973.56 784.15 1070.9 910.9 FALSE FALSE TRUE 744.4744423 1045.718625 872.7953934 949.3980131 853.5634379 1080.006238 864.0124665 764.0925784 1063.44752 950.1733568 0.783514331 1.100555617 0.918564373 0.999183998 0.898323902 1.136641256 0.909320873 0.804161233 1.119214207 1 9.892046943 -7.270886873 24.90913306 0.897770663 0.967780316 0 0.125342412 1383.618137 3648021.205 0.019941128 0.02296506 5.36E-08 7.270886873 0.070009653 LLFNDVQTLK ddPTM_HeLa_SAHA_4h_R1 1 LLFNDVQTLK 10 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;E9PMV1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 182.71 5.57E-17 676150 508.98 510.59 447.64 364.16 453.64 377.8 722.51 598.69 289.55 377.21 FALSE FALSE TRUE 562.5168517 527.133451 508.642048 371.2088434 418.8822012 345.6093146 641.2112733 583.3763767 287.534998 393.4733691 1.429618612 1.339692829 1.292697519 0.943415419 1.064575735 0.878355034 1.629617971 1.482632428 0.730761013 1 8.620122185 -9.589238894 1.404571281 1.001164392 1.269684018 0.254635635 0.242467392 0.671699205 2.393238317 0.167369059 0.039628822 2.57E-10 9.589238894 0.268519626 LLGELLQDNAK ddPTM_HeLa_SAHA_4h_R1 2 LLGELLQDNAK 11 0 P37837;F2Z393 P37837 TALDO1 Transaldolase 0 0 ; ; 169.65 9.82E-11 1197120 774.14 764.93 676.91 568.68 832.4 508.322 514.85 502.9 537.19 368.75 FALSE FALSE TRUE 855.5675971 789.7142339 769.1557696 579.6876237 768.6216918 465.0101059 456.917723 490.0365462 533.4516511 384.6486171 2.224283564 2.053079613 1.999632224 1.507057605 1.998243741 1.208921819 1.187883441 1.273984942 1.386854462 1 8.587397311 -2.345377922 9.208169233 1.60434346 1.36393048 0 0.419288862 0 0 0.071090782 0 0.004514629 2.345377922 -0.24041298 LLGPSLTSTTPASSSSGSSS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 LLGPSLTSTTPASSSSGSSSR 21 0 A0A087WVP4;A0A087X1R1;P53814-5;P53814;P53814-6 A0A087WVP4 SMTN Smoothelin 1 0 LLGPSLT(0.001)S(0.014)T(0.011)T(0.244)PAS(0.002)S(0.001)S(0.002)S(0.002)GS(0.002)S(0.039)S(0.683)R 108.34 0.00016774 2120900 362.36 404.98 365.15 362.29 291.05 388.93 312.94 466.14 396.71 219.99 TRUE FALSE FALSE 400.4746874 418.1016177 414.9107404 369.3026468 268.7498119 355.7909759 277.7271676 454.2168138 393.9492628 229.4748455 1.745179026 1.821993242 1.808088113 1.609338252 1.17115151 1.550457416 1.210272817 1.979375181 1.716742687 1 7.842192207 -9.322436388 1.050662338 1.000585248 1.603137837 0 0.32693479 0.381643991 0.75540834 0.168938013 0.044906751 4.76E-10 9.322436388 0.60255259 LLGPVLVK ddPTM_HeLa_SAHA_4h_R1 2 LLGPVLVK 8 0 A2AB88;O15212 A2AB88 PFDN6 Prefoldin subunit 6 0 0 ; ; 118.06 0.0030829 0 1825.14 1460.44 1307.78 1249.55 1274.89 1505.27 1514.37 1151.07 1378.15 1231.87 FALSE FALSE TRUE 2017.116599 1507.759214 1485.997448 1273.736847 1177.208204 1377.012528 1343.969102 1121.627296 1368.559342 1284.981944 1.569762601 1.173369961 1.156434496 0.991248829 0.916128206 1.071620137 1.045905048 0.872873974 1.06504169 1 10.32753237 -6.503869762 2.244173127 1.26985369 0.984209332 0.290940406 0.155159502 0.317125159 3.188610073 0.035377263 0.055294126 3.13E-07 6.503869762 -0.285644358 LLGQFSEK(ac)ELAAEK ddPTM_HeLa_SAHA_4h_R1 2 LLGQFSEKELAAEK 14 1 P53004 P53004 BLVRA Biliverdin reductase A 0 1 ; LLGQFSEK(1)ELAAEK;LLGQFSEK(1)ELAAEK 234.52 1.41E-55 3544190 450.73 438.33 551.83 612.3 632.15 584.38 493 345.031 225.068 375.64 FALSE TRUE FALSE 498.1398494 452.5321796 627.0305186 624.1519519 583.7148036 534.5875364 437.5263425 336.2056066 223.5017335 391.8356787 1.271297833 1.154902946 1.600238448 1.592892087 1.489692836 1.364315618 1.116606696 0.858027038 0.570396586 1 8.614104958 -8.657036277 0.746869366 1.012001931 1.326791645 0.320593439 0.259722129 0.761022358 0.847281647 0.124197377 0.05153577 2.20E-09 8.657036277 0.314789714 LLGWIQNK ddPTM_HeLa_SAHA_4h_R1 2 LLGWIQNK 8 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;O75369-5;O75369-4;P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98;Q14315-2;Q14315 O75369-8;P21333-2;Q14315-2 FLNB;FLNA;FLNC Filamin-B;Filamin-A;Filamin-C 0 0 ; ; 164.1 1.49E-07 3826700 3125.8 2772.4 3583.8 3351.7 3373.8 2321.87 4510.3 1475.69 1400.87 2608.6 FALSE FALSE TRUE 3454.585986 2862.227579 4072.1816 3416.577 3115.300173 2124.033614 4002.789174 1437.943987 1391.121232 2721.069512 1.269569179 1.05187595 1.496537145 1.255600779 1.144880775 0.780587781 1.471035251 0.52844809 0.511240608 1 11.4099581 -4.241492359 24.45047339 1.153054674 0.528447298 0.256788931 0.28767513 2522.258387 3091648.137 0.027792772 1.455028359 5.73E-05 4.241492359 -0.624607375 LLHEDLDES(ph)DDDMDEK ddPTM_HeLa_SAHA_4h_R1 7 LLHEDLDESDDDMDEK 16 0 O43150;O43150-2 O43150 ASAP2 "Arf-GAP with SH3 domain, ANK repeat and PH domain-containing protein 2" 1 0 LLHEDLDES(1)DDDMDEK;LLHEDLDES(1)DDDMDEK;LLHEDLDES(1)DDDMDEK;LLHEDLDES(1)DDDMDEK;LLHEDLDES(1)DDDMDEK;LLHEDLDES(1)DDDMDEK;LLHEDLDES(1)DDDMDEK ;;;;;; 158.58 3.92E-06 19063700 9275.97 15287.01 10609.77 10085.45 13499.32 9592.5 12805.49 10830.67 15818.3 13074.59 TRUE FALSE FALSE 10251.65908 15782.31915 12055.6142 10280.66847 12465.00502 8775.165034 11364.58256 10553.63714 15708.21916 13638.29956 0.751681618 1.157205785 0.883952882 0.753808671 0.913970614 0.643420757 0.833284422 0.773823533 1.151772557 1 13.73537616 -6.342363365 6.186582867 0.905255325 0.786078127 0.263455225 0.140416344 0.343734629 21.33376223 0.020541549 0.031533528 4.55E-07 6.342363365 -0.119177198 LLHIEELR ddPTM_HeLa_SAHA_4h_R1 1 LLHIEELR 8 0 Q9Y224 Q9Y224 C14orf166 UPF0568 protein C14orf166 0 0 139.97 4.78E-05 0 908.71 1120.9 1197.2 1222.1 1067.1 294.18 1610 1124.3 1436.7 1466.4 FALSE FALSE TRUE 1004.292287 1157.217895 1360.348181 1245.755513 985.3390285 269.114209 1428.838563 1095.542034 1426.701888 1529.62368 0.656561676 0.756537644 0.8893352 0.814419604 0.644170878 0.175934913 0.934111168 0.716216706 0.932714305 1 10.57896105 -5.741598116 5.140806196 0.830536392 0.606029705 0.238662545 0.195880559 0.234674736 16.62592593 0.031221404 0.061538558 1.81E-06 5.741598116 -0.224506687 LLHPS(ph)PDLVSQEATLSEAR ddPTM_HeLa_SAHA_4h_R1 1 LLHPSPDLVSQEATLSEAR 19 0 A0A087WU05;A0A087WY48;Q8IY22-3;Q8IY22-2;Q8IY22 A0A087WU05 CMIP C-Maf-inducing protein 1 0 LLHPS(1)PDLVSQEATLSEAR 79.545 0.0038405 7908200 628.35 659.63 689.26 727.83 821.04 427.02 839.59 897.38 699.04 763.57 TRUE FALSE FALSE 694.442736 681.0024448 783.1887633 741.9182021 758.1320926 390.6354937 745.1171235 874.426319 694.1753237 796.4912395 0.871877431 0.855003057 0.983298653 0.931483192 0.951839838 0.490445437 0.935499459 1.097848006 0.871541693 1 9.637514684 LLHPSPDLVS(ph)QEATLSEAR ddPTM_HeLa_SAHA_4h_R1 1 LLHPSPDLVSQEATLSEAR 19 0 A0A087WU05;A0A087WY48;Q8IY22-3;Q8IY22-2;Q8IY22 A0A087WU05 CMIP C-Maf-inducing protein 1 0 LLHPS(0.147)PDLVS(0.778)QEAT(0.072)LS(0.004)EAR 127.32 0.00015737 6884500 841.37 799.38 646.59 829.48 818.42 440.4 917.52 1081.7 765.77 853.32 TRUE FALSE FALSE 929.8691569 825.2804365 734.7039179 845.5357848 755.7128364 402.8754424 814.2782348 1054.03168 760.4409442 890.1108012 1.044666749 0.927165961 0.82540726 0.949921946 0.849009848 0.452612688 0.914805476 1.184157836 0.854321668 1 9.797841124 -7.028598777 3.40407772 1.020825887 0.850028602 0.037182815 0.177038134 0.322346659 7.737430716 0.028597915 0.036554344 9.36E-08 7.028598777 -0.170797285 LLIDPNCSGHS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 LLIDPNCSGHSPR 13 0 Q8WYQ5-3;Q8WYQ5;C9JSD5;Q8WYQ5-2 Q8WYQ5-3 DGCR8 Microprocessor complex subunit DGCR8 1 0 LLIDPNCS(0.005)GHS(0.995)PR;LLIDPNCSGHS(1)PR;LLIDPNCS(0.042)GHS(0.958)PR ;; 122.5 0.00082399 6482300 5950.4 6786.3 4501 7346.2 8103.4 8698.1 7587.8 8060.4 7589.4 7318 TRUE FALSE FALSE 6576.290373 7006.180573 5114.37284 7488.396324 7482.519243 7956.972946 6734.000774 7854.226639 7536.584747 7633.514793 0.861502277 0.917818431 0.669989248 0.980989299 0.980219394 1.042373423 0.882162537 1.028913528 0.987302043 1 12.89813177 LLIEMEQR ddPTM_HeLa_SAHA_4h_R1 1 LLIEMEQR 8 0 P12277;H0YJG0 P12277 CKB Creatine kinase B-type 0 0 124.59 0.012487 3498100 1342.6 1678.2 2765.4 2214.3 2226.7 1129.1 2599.4 765.06 612.37 1015.9 FALSE FALSE TRUE 1483.820828 1732.574781 3142.25431 2257.160978 2056.090727 1032.894328 2306.908671 745.490873 608.1084673 1059.700421 1.400226705 1.634966588 2.965228898 2.129999134 1.940256592 0.974704084 2.176944187 0.703492099 0.573849416 1 10.04944075 -7.551746203 1.836865503 1.142162374 1.831766074 0.251327593 0.624977498 0.377561974 2.569648881 0.117629709 0.124832018 2.81E-08 7.551746203 0.6896037 LLIT(ph)LS(ph)ANLFTVPERS(ph)LT(ph)TTFSFSR ddPTM_HeLa_SAHA_4h_R1 1 LLITLSANLFTVPERSLTTTFSFSR 25 1 F8WCH4;Q8NI32-2 F8WCH4 LYPD6B 4 0 LLIT(0.966)LS(0.968)ANLFT(0.067)VPERS(0.813)LT(0.817)T(0.099)T(0.097)FS(0.092)FS(0.081)R 47.96 0.0086175 28048000 694.65 950.19 706.67 674.1 1171 1236.5 1346 873.24 1028.7 787.09 TRUE FALSE FALSE 767.7164742 980.9767794 802.9713074 687.1481803 1081.278233 1131.143244 1194.544538 850.9037852 1021.541193 821.0253018 0.93507042 1.194819182 0.978010429 0.836939104 1.316985275 1.377720323 1.454942418 1.036391672 1.244226202 1 9.681282873 -5.745858923 24.83358227 0.979862575 1.313627411 0.386869064 0.154882435 110.4661384 176070.042 0.01799976 0.035895894 1.80E-06 5.745858923 0.333764836 LLIVSTTPYSEK ddPTM_HeLa_SAHA_4h_R1 1 LLIVSTTPYSEK 12 0 Q9Y230;M0R0Y3;Q9Y230-2 Q9Y230 RUVBL2 RuvB-like 2 0 0 164.64 3.28E-07 696690 469.13 922.15 476.89 688.31 665.03 804.7 773.38 625.9 1146.3 642.02 FALSE FALSE TRUE 518.4752458 952.028265 541.8780857 701.6332354 614.0755451 736.1350329 686.357247 609.8903843 1138.322805 669.7006242 0.774189581 1.42157291 0.809134808 1.047681919 0.91694038 1.099200159 1.024871744 0.910691079 1.699748759 1 9.387372502 LLIVSTTPYSEKDTK ddPTM_HeLa_SAHA_4h_R1 2 LLIVSTTPYSEKDTK 15 1 Q9Y230;M0R0Y3;Q9Y230-2 Q9Y230 RUVBL2 RuvB-like 2 0 0 ; ; 164.88 7.48E-08 5394300 2548.9 2769 3154.1 3524.6 3234.3 3270.6 3981.7 2538.1 2381.52 2938.8 FALSE FALSE TRUE 2817.004997 2858.717417 3583.924322 3592.82373 2986.488633 2991.92648 3533.668637 2473.179077 2364.946808 3065.50605 0.918936368 0.932543394 1.16911344 1.172016519 0.974223695 0.975997578 1.152719512 0.806776772 0.771470279 1 11.58190954 LLKEGEEPTVYS(ph)DEEEPKDESAR ddPTM_HeLa_SAHA_4h_R1 5 LLKEGEEPTVYSDEEEPKDESAR 23 2 O00264-2;O00264 O00264-2 PGRMC1 Membrane-associated progesterone receptor component 1 1 0 LLKEGEEPTVY(0.002)S(0.998)DEEEPKDESAR;LLKEGEEPT(0.002)VY(0.036)S(0.962)DEEEPKDESAR;LLKEGEEPT(0.001)VY(0.425)S(0.574)DEEEPKDESAR;LLKEGEEPT(0.006)VY(0.35)S(0.645)DEEEPKDESAR;LLKEGEEPT(0.144)VY(0.336)S(0.508)DEEEPKDES(0.012)AR ;;;; 129.98 1.35E-06 451546000 5053.93 10581.36 7459.98 5645.82 6523.32 6921.92 8317.37 7116.22 5196.66 6726.36 TRUE FALSE FALSE 5585.525546 10924.20301 8476.587224 5755.10301 6023.504631 6332.133474 7381.477637 6934.197397 5160.49602 7016.366298 0.796070973 1.55696019 1.208116405 0.820239817 0.858493467 0.902480459 1.052037098 0.988288966 0.735494101 1 12.77650835 LLKPGEEPS(ph)EYTDEEDTKDHNKQD ddPTM_HeLa_SAHA_4h_R1 1 LLKPGEEPSEYTDEEDTKDHNKQD 24 3 U3KPU8;U3KQM0;O15173;O15173-2 U3KPU8 PGRMC2 Membrane-associated progesterone receptor component 2 1 0 LLKPGEEPS(0.35)EY(0.299)T(0.35)DEEDT(0.001)KDHNKQD 70.452 0.00064145 57420000 1067.8 2798.1 1764.3 1273 1706.1 1392.8 1815.1 1351.5 1500.8 1291.2 TRUE FALSE FALSE 1180.116103 2888.760276 2004.729616 1297.640756 1575.378987 1274.125604 1610.860171 1316.930587 1490.355811 1346.869951 0.876191575 2.144795252 1.488435921 0.963449184 1.169659317 0.945990074 1.196002754 0.977771155 1.106532824 1 10.39539484 LLKPGEEPSEYT(ph)DEEDTKDHNKQD ddPTM_HeLa_SAHA_4h_R1 1 LLKPGEEPSEYTDEEDTKDHNKQD 24 3 U3KPU8;U3KQM0;O15173;O15173-2 U3KPU8 PGRMC2 Membrane-associated progesterone receptor component 2 1 0 LLKPGEEPS(0.06)EY(0.424)T(0.51)DEEDT(0.006)KDHNKQD 57.986 0.0080347 52206000 2022.2 5338.7 2629.1 2546.5 2692.3 2358.5 3729 2698.6 2644.7 3159.3 TRUE FALSE FALSE 2234.904274 5511.677383 2987.380056 2595.79119 2486.016556 2157.542531 3309.403106 2629.57372 2626.295317 3295.512884 0.678165843 1.672479391 0.90649928 0.787674417 0.754364083 0.654690971 1.004214889 0.797925486 0.796930678 1 11.6862873 -6.290215596 7.886205003 0.923199809 0.800532317 0.093397431 0.266196092 0.766659403 186.0482878 0.043920402 0.067823533 5.13E-07 6.290215596 -0.122667492 LLKS(ph)EGKTETTMQVGNS(ph)QTK ddPTM_HeLa_SAHA_4h_R1 1 LLKSEGKTETTMQVGNSQTK 20 2 Q96M83;A0A1W2PNE7;Q96M83-4;Q96M83-3;Q96M83-5 Q96M83 CCDC7 Coiled-coil domain-containing protein 7 2 0 LLKS(0.866)EGKT(0.134)ET(0.001)T(0.001)MQVGNS(0.5)QT(0.5)K 62.475 0.0047967 0 578.84 566.99 440.84 651.55 710.4 682.79 691.46 898.18 442.34 788.8 TRUE FALSE FALSE 639.725047 585.360848 500.9153794 664.1616924 655.9693055 624.6124507 613.655101 875.2058561 439.2617199 822.8090283 0.777489095 0.711417629 0.608786926 0.807188144 0.797231536 0.759122019 0.745805017 1.063680424 0.533856223 1 9.684413814 -9.00788751 0.883516499 0.995526233 0.776557562 0 0.179724363 0.472690364 0.690574478 0.063194353 0.021091601 9.82E-10 9.00788751 -0.218968671 LLLAADPGGS(ph)PAQR ddPTM_HeLa_SAHA_4h_R1 1 LLLAADPGGSPAQR 14 0 Q5SQI0-7;Q5SQI0-6;Q5SQI0-5;Q5SQI0-4;Q5SQI0-3;Q5SQI0-2;Q5SQI0 Q5SQI0-7 ATAT1 Alpha-tubulin N-acetyltransferase 1 1 0 LLLAADPGGS(1)PAQR 123.68 0.00076843 3060000 954.56 754.62 641.06 832.57 674.83 729.5 748.85 700.04 768.56 834.6 TRUE FALSE FALSE 1054.965 779.0701831 728.4203183 848.6855963 623.1246712 667.3424959 664.5874271 682.1339904 763.2115284 870.5836904 1.211790448 0.894882585 0.836703382 0.974846652 0.715755048 0.766546058 0.763381435 0.783536377 0.876666467 1 9.765839183 -7.070427687 4.351547651 1.099619723 0.809544318 0.422661686 0.106993683 0.104577656 3.806108315 0.01712093 0.021363713 8.50E-08 7.070427687 -0.290075404 LLLAEDS(ph)EEEVDFLSER ddPTM_HeLa_SAHA_4h_R1 3 LLLAEDSEEEVDFLSER 17 0 Q14676;Q14676-3;Q14676-2;Q14676-4 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 1 0 LLLAEDS(1)EEEVDFLSER;LLLAEDS(1)EEEVDFLSER;LLLAEDS(1)EEEVDFLSER ;; 273.54 1.90E-59 112999000 3627.49 3865.15 2767.48 3789.63 3877.2 4764.31 4635.43 4139.93 4752.4 4092.53 TRUE FALSE FALSE 4009.046042 3990.383396 3144.617762 3862.983769 3580.129774 4358.363985 4113.839217 4034.036585 4719.327661 4268.978997 0.939111213 0.934739524 0.736620575 0.90489641 0.838638414 1.020938259 0.963658809 0.944965199 1.105493296 1 12.05967535 -8.113417179 1.077948407 0.987602216 0.906835211 0.266061634 0.081728452 0.573020418 1.394215141 0.021055796 0.016027854 7.70E-09 8.113417179 -0.080767005 LLLAEDS(ph)EEEVDFLSERR ddPTM_HeLa_SAHA_4h_R1 2 LLLAEDSEEEVDFLSERR 18 1 Q14676;Q14676-3;Q14676-2;Q14676-4 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 1 0 LLLAEDS(0.997)EEEVDFLS(0.003)ERR;LLLAEDS(1)EEEVDFLSERR ; 117.03 0.0003456 2876100 814.34 647.33 538.7 679.61 715.99 876.47 806.56 884.38 408 581.78 TRUE FALSE FALSE 899.9960175 668.3039167 612.1112306 692.7648343 661.1310009 801.7898251 715.8037461 861.7588402 405.1606948 606.863383 1.483029036 1.101242776 1.008647494 1.1415499 1.089423121 1.32120317 1.179513818 1.420021152 0.667630815 1 9.245227963 -2.009213733 1.389779491 1.195716299 131.813463 0.038973484 0.217999437 1632.758812 6.919840005 0.028363982 677342.3763 0.009790081 2.009213733 130.6177467 LLLAS(ph)PPNER ddPTM_HeLa_SAHA_4h_R1 1 LLLASPPNER 10 0 Q52LW3 Q52LW3 ARHGAP29 Rho GTPase-activating protein 29 1 0 LLLAS(1)PPNER 85.924 0.021546 18194000 935.2 892.44 960.74 1020.9 945.34 1348.3 1131.3 1104.5 1008.4 952.15 TRUE FALSE FALSE 1033.568627 921.3556416 1091.664644 1040.660996 872.9082534 1233.417255 1004.003147 1076.248489 1001.382462 993.2018462 1.040643079 0.927662031 1.099136745 1.047783992 0.878883035 1.241859607 1.010875232 1.083615071 1.00823661 1 9.955943133 -5.263753933 24.99925637 1.012818379 1.101992488 0.282714188 0.079389017 225.2735262 2433181.712 0.010379825 0.024272571 5.45E-06 5.263753933 0.089174109 LLLEFK ddPTM_HeLa_SAHA_4h_R1 1 LLLEFK 6 0 Q9H672-2;Q9H672 Q9H672-2 ASB7 Ankyrin repeat and SOCS box protein 7 0 0 118.03 0.0062931 5184900 4519.6 5090 5108.5 6029 6022.6 4931 6728.3 3402.6 5405.3 4752.2 FALSE FALSE TRUE 4994.992265 5254.91934 5804.659776 6145.700013 5561.149689 4510.851059 5971.213976 3315.566419 5367.684077 4957.090599 1.00764595 1.060081359 1.170981175 1.239779643 1.121857585 0.909979547 1.20458036 0.668853303 1.082829529 1 12.27527791 -4.24558145 24.5443999 1.046034755 0.668852939 0.569158077 0.1037736 1504.398502 2328413.158 0.015086592 0.502483322 5.68E-05 4.24558145 -0.377181816 LLLERPS(ph)PIR ddPTM_HeLa_SAHA_4h_R1 1 LLLERPSPIR 10 1 A0A494C001;A0A499FJY3;A0A087WWP4;Q96T37-4;Q96T37-2;Q96T37-3;Q96T37 A0A494C001 RBM15 Putative RNA-binding protein 15 1 0 LLLERPS(1)PIR 69.216 0.023459 3445900 1289.4 1422.6 1298.3 1551.2 1574.6 1714.4 1578.5 1202.5 1370.5 1548.6 TRUE FALSE FALSE 1425.025008 1468.693173 1475.225563 1581.225719 1453.954488 1568.323475 1400.883026 1171.741791 1360.962579 1615.367725 0.882167562 0.909200519 0.913244421 0.978864252 0.900076475 0.970877065 0.867222369 0.725371551 0.842509454 1 10.6576469 -1.000000049 0.02054309 1.603145571 4.27E-07 0.039078672 0.073803592 2492.330005 3.985382081 114.8596907 209.5856137 0.099999989 1.000000049 -1.603145144 LLLIATGK ddPTM_HeLa_SAHA_4h_R1 1 LLLIATGK 8 0 Q9NQW6;Q9NQW6-2;H7C1K5 Q9NQW6 ANLN Actin-binding protein anillin 0 0 108.46 0.010697 0 384.75 428.44 388.41 421.57 462.39 381.34 645.87 409.11 417.94 465.04 FALSE FALSE TRUE 425.2197703 442.3217371 441.340492 429.730097 426.9617781 348.8476866 573.1950078 398.6455586 415.0315215 485.0901503 0.876578859 0.911834093 0.909811283 0.885876773 0.88016996 0.719139909 1.18162574 0.821796852 0.855576064 1 8.922109076 -9.35222366 0.969813466 1.002664813 0.899911567 0 0.117993538 1.06547619 1.718687555 0.079096173 0.018618411 4.44E-10 9.35222366 -0.102753247 LLLIGDSGVGK ddPTM_HeLa_SAHA_4h_R1 1 LLLIGDSGVGK 11 0 A0A2R8YDI9;E9PLD0;G3V196;H0YLJ8;H0YNE9;E7END7;A0A2R8YFB8;H0YMN7;H0YL94;P62820-2;P62820-3;P61026;Q92928;P51153;P62820;Q92930;P61006;P61006-2;P59190-2;P59190;Q9H0U4 A0A2R8YDI9 RAB1B;RAB15;RAB8B;RAB1A;RAB10;RAB1C;RAB13;RAB8A Ras-related protein Rab-1A;Ras-related protein Rab-10;Putative Ras-related protein Rab-1C;Ras-related protein Rab-13;Ras-related protein Rab-8B;Ras-related protein Rab-8A;Ras-related protein Rab-15;Ras-related protein Rab-1B 0 0 143.03 0.00011315 539110 203.74 223.16 315.25 215.01 270.66 223.09 313.77 157.83 260.13 270.82 FALSE FALSE TRUE 225.170308 230.3905304 358.2106282 219.1718295 249.9220893 204.0814769 278.4637738 153.7929371 258.3197342 282.4963756 0.797073263 0.815552164 1.268018492 0.775839439 0.884691313 0.722421576 0.98572512 0.544406762 0.91441787 1 8.142088548 -4.253052064 24.38638824 0.902843101 0.544406507 0.352015686 0.147517545 670.7167409 1950067.198 0.020237083 0.30397121 5.58E-05 4.253052064 -0.358436594 LLLLVQGK ddPTM_HeLa_SAHA_4h_R1 2 LLLLVQGK 8 0 H3BM67;H3BUP2;H3BUN4;O60936;O60936-3;O60936-1 H3BM67 NOL3 Nucleolar protein 3 0 0 ; ; 114.19 0.0057967 0 744.82 666.48 909.17 730.2 884.51 595.26 1142.72 630.33 319.42 518.1 FALSE FALSE TRUE 823.163585 688.0743893 1033.066953 744.3340769 816.7390349 544.5404992 1014.138138 614.2070713 317.1971302 540.4378265 1.523142061 1.273179551 1.911537095 1.377279754 1.511254385 1.007591387 1.876512132 1.136499041 0.586926219 1 9.077984846 -9.257524001 0.841779361 0.980469477 1.464411178 0.38936551 0.304056753 0.644247432 0.767332574 0.204925559 0.047930043 5.53E-10 9.257524001 0.4839417 LLLNNGAK ddPTM_HeLa_SAHA_4h_R1 1 LLLNNGAK 8 0 P15121;E9PEF9;E9PCX2 P15121 AKR1B1 Aldose reductase 0 0 132.09 0.010335 4257000 2126.4 1806.1 1613.8 2294.2 1887.9 1875.3 2074.1 1884.4 2032.5 1783.8 FALSE FALSE TRUE 2350.064508 1864.618825 1833.72026 2338.607558 1743.24951 1715.51389 1840.716809 1836.199777 2018.355667 1860.708348 1.262994553 1.002101607 0.985495799 1.256837248 0.936874128 0.921968181 0.989255953 0.986828365 1.084724358 1 10.86163623 -5.724763902 24.99390317 1.113641796 0.958285861 0.339194765 0.094326981 173.5435413 118266.994 0.017164779 0.034328769 1.88E-06 5.724763902 -0.155355935 LLLPGELAK ddPTM_HeLa_SAHA_4h_R1 5 LLLPGELAK 9 0 O60814;P57053;P33778;P58876;P62807;Q16778;Q5QNW6;Q5QNW6-2;Q8N257;Q93079;U3KQK0;Q99877;Q99879;Q99880 O60814;P33778;P58876;P62807;Q16778;Q5QNW6;Q8N257;Q93079;U3KQK0;Q99879;Q99880 HIST1H2BK;H2BFS;HIST1H2BB;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST2H2BF;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BM;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-B;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 2-F;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-M;Histone H2B type 1-L 0 0 ;;;; ;;;; 138.54 0.006628 287654100 32486.4 30542.8 27906.9 32307.5 33987 34554.3 35118.4 32204 29832 30581 FALSE FALSE TRUE 35903.4686 31532.40676 31709.907 32932.85838 31382.9234 31610.07924 31166.78521 31380.26831 29624.39668 31899.49657 1.125518346 0.988492301 0.994056659 1.032394298 0.983806228 0.990927213 0.977030629 0.983722995 0.928679129 1 14.96124604 -7.203535718 24.99758533 1.059272615 0.993442504 0 0.051924494 250.6687597 108215.9992 0.007936059 0.009719645 6.26E-08 7.203535718 -0.065830111 LLLPGELAK(ac)HAVSEGTK ddPTM_HeLa_SAHA_4h_R1 2 LLLPGELAKHAVSEGTK 17 1 O60814;P57053;P33778;P58876;P62807;Q16778;Q5QNW6;Q5QNW6-2;Q8N257;Q93079;U3KQK0;Q99877;Q99879;Q99880 O60814;P33778;P58876;P62807;Q16778;Q5QNW6;Q8N257;Q93079;U3KQK0;Q99879;Q99880 HIST1H2BK;H2BFS;HIST1H2BB;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST2H2BF;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BM;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-B;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 2-F;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-M;Histone H2B type 1-L 0 1 ; LLLPGELAK(1)HAVSEGTK;LLLPGELAK(1)HAVSEGTK 157.83 4.25E-08 4704000 2184.4 2216.8 1888.66 2274.1 3012.4 2616.1 2789 3870.5 2386.9 2450 FALSE TRUE FALSE 2414.165214 2288.625774 2146.036749 2318.118494 2781.590563 2393.193562 2475.17438 3771.498214 2370.289369 2555.63149 0.944645276 0.895522607 0.839728559 0.907062893 1.08841614 0.936439221 0.968517718 1.475759799 0.927476977 1 11.31946411 -4.261546323 6.765716658 0.959329403 1.484535942 0.859327198 0.064171246 0.031817555 9.89110919 0.009259357 0.076137169 5.48E-05 4.261546323 0.525206539 LLNGNHENGDLDPT(ph)SPLENMDYIK ddPTM_HeLa_SAHA_4h_R1 1 LLNGNHENGDLDPTSPLENMDYIK 24 0 Q6VMQ6-2;Q6VMQ6-5;Q6VMQ6;Q6VMQ6-4;A8MV73;F8WE35;F5H8I0;F5H2W9;F5H2H9;F5GZ10;F5H502;F5H1K9;F5H6X8;F5H221;F5H592 Q6VMQ6-2 ATF7IP Activating transcription factor 7-interacting protein 1 1 0 LLNGNHENGDLDPT(0.5)S(0.5)PLENMDYIK 165.1 2.10E-08 4349100 656.19 669.65 626.96 804.52 890.2 925.26 1132.8 636.06 1192.5 854.06 TRUE FALSE FALSE 725.2110749 691.3470994 712.3988437 820.092648 821.9930683 846.4226426 1005.334363 619.7905062 1184.201295 890.8827063 0.814036539 0.776024829 0.799655037 0.920539418 0.922672606 0.950094369 1.12846995 0.695703825 1.329244902 1 9.799091689 -3.996387533 17.31031703 0.9086808 0.449767075 0.124951562 0.165533644 23089950.87 704838794.8 0.015346082 224911305.7 0.000100835 3.996387533 -0.458913725 LLNLQDS(ph)DSEECTSR ddPTM_HeLa_SAHA_4h_R1 1 LLNLQDSDSEECTSR 15 0 Q52LR7 Q52LR7 EPC2 Enhancer of polycomb homolog 2 1 0 LLNLQDS(0.967)DS(0.02)EECT(0.001)S(0.012)R 92.952 0.0069052 2936300 790.18 974.87 674.66 569.48 718.15 896.29 804.6 1129.7 1008 835.6 TRUE FALSE FALSE 873.2947579 1006.456428 766.5991513 580.5031089 663.1255021 819.9210496 714.0642904 1100.80391 1000.985246 871.6268053 1.001913609 1.154687329 0.879503873 0.665999606 0.760790625 0.940679021 0.819231678 1.262930308 1.148410352 1 9.767566754 -6.570496836 24.83004958 1.012683403 0.870754798 0.208505636 0.159444738 145.2472829 75737.40272 0.023384221 0.03307029 2.69E-07 6.570496836 -0.141928605 RGEDVETSK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 RGEDVETSKK 10 2 O60869-2;O60869-3;O60869 O60869-2 EDF1 Endothelial differentiation-related factor 1 0 1 ; RGEDVETSK(1)K;RGEDVETSK(1)K 164.48 2.45E-08 4795100 1714.44 1867.3 2068.17 3136.9 3124.9 3691.1 4096.7 3940.3 2044.5 1671.12 FALSE TRUE FALSE 1894.772665 1927.801745 2350.009437 3197.619236 2885.470837 3376.597514 3635.728534 3839.512831 2030.272158 1743.170161 1.086969423 1.105917132 1.348123946 1.834370107 1.655300728 1.937044122 2.085699156 2.202603576 1.164701073 1 10.76749769 -5.991419409 0.666777465 1.012569039 2.189943393 0.934482937 0.110311164 0.118092547 0.096339976 0.020791571 0.069191122 1.02E-06 5.991419409 1.177374355 up LLPDPGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 LLPDPGSPR 9 0 A6ND36 A6ND36 FAM83G Protein FAM83G 1 0 LLPDPGS(1)PR;LLPDPGS(1)PR ; 100.82 0.010157 24543000 8733.3 8440.2 8302.4 8816.2 8314.2 8468.8 8664.5 8183.5 7964.6 8032.1 TRUE FALSE FALSE 9651.908564 8713.668018 9433.807835 8986.850299 7677.167792 7747.210596 7689.547656 7974.17792 7909.1737 8378.403139 1.151998585 1.040015367 1.125967285 1.072620898 0.916304416 0.924664338 0.917782008 0.951753907 0.943995361 1 13.03245959 -5.764539219 24.86295757 1.075370173 0.926711439 0.525866438 0.057834994 38.61211028 309701.1669 0.008608039 0.016099435 1.72E-06 5.764539219 -0.148658734 LLPEGEETLESDDEKDEHT(ph)SK ddPTM_HeLa_SAHA_4h_R1 1 LLPEGEETLESDDEKDEHTSK 21 1 Q8N6N3 Q8N6N3 C1orf52 UPF0690 protein C1orf52 1 0 LLPEGEETLES(0.023)DDEKDEHT(0.859)S(0.118)K 89.261 0.00022816 7596500 2512.4 2073.5 2602.7 2447.4 2451.3 2992.7 2355.3 2710.7 2380 2356.8 TRUE FALSE FALSE 2776.665759 2140.68276 2957.382402 2494.772966 2263.481924 2737.705124 2090.275445 2641.364219 2363.437386 2458.413182 1.129454471 0.870757925 1.202963938 1.01478994 0.920708504 1.113606591 0.85025392 1.074418344 0.961367033 1 11.26351169 -6.006906126 24.67994597 1.057388213 0.986020059 0.008955684 0.109781965 513.0884335 1833604.069 0.014953714 0.026375838 9.84E-07 6.006906126 -0.071368154 LLPPVGTGRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 7 LLPPVGTGRSPR 12 1 Q9NWZ5;Q9NWZ5-3;Q9NWZ5-2;Q9NWZ5-4 Q9NWZ5 UCKL1 Uridine-cytidine kinase-like 1 1 0 LLPPVGTGRS(1)PR;LLPPVGT(0.014)GRS(0.986)PR;LLPPVGT(0.016)GRS(0.984)PR;LLPPVGT(0.184)GRS(0.816)PR;LLPPVGT(0.002)GRS(0.998)PR;LLPPVGTGRS(1)PR;LLPPVGT(0.001)GRS(0.999)PR ;;;;;; 135.14 8.28E-05 32174000 12758.37 11873.61 11215.49 11885.65 13034 13758.6 13984.62 13839.2 12054.47 12323.6 TRUE FALSE FALSE 14100.35389 12258.32275 12743.87857 12115.71394 12035.33774 12586.28988 12411.03375 13485.2133 11970.58196 12854.93071 1.096882917 0.953589174 0.991361125 0.942495469 0.93624291 0.979102118 0.96546874 1.049030416 0.931205483 1 13.65003421 -7.244800462 24.99317989 1.045750267 0.971790006 0 0.051694987 648.7010267 974409.2111 0.007538392 0.009218596 5.69E-08 7.244800462 -0.073960261 LLPS(ph)PVTCTPK ddPTM_HeLa_SAHA_4h_R1 1 LLPSPVTCTPK 11 0 H0YCH4;Q9BU19-2;Q9BU19;Q9BU19-5 H0YCH4 ZNF692 Zinc finger protein 692 1 0 LLPS(0.916)PVT(0.084)CT(0.001)PK 134.99 0.0011206 9224700 5443.7 5262.1 4982.3 5225.1 5153.5 5692 5973.5 5397.7 5167.8 4751.1 TRUE FALSE FALSE 6016.293343 5432.595493 5661.261897 5326.239366 4758.639943 5207.009578 5301.346059 5259.63465 5131.836859 4955.943172 1.213955272 1.096177923 1.142317759 1.074717603 0.960188561 1.050659662 1.069694683 1.06127824 1.035491466 1 12.27494393 -5.996461717 24.90120617 1.106084681 1.036295244 0.181966713 0.060846234 165.1626191 1162336.039 0.01239041 0.022380254 1.01E-06 5.996461717 -0.069789437 LLPS(ph)VWSESEDGAGSPPPYR ddPTM_HeLa_SAHA_4h_R1 1 LLPSVWSESEDGAGSPPPYR 20 0 K7EN65;K7EPZ6;A0A0A0MS90;Q9UIS9-4;Q9UIS9-11;Q9UIS9-7;K7EMA9;Q9UIS9-8;Q9UIS9-10;Q9UIS9-2;Q9UIS9-6;Q9UIS9-5;Q9UIS9;Q9UIS9-9;Q9UIS9-12 K7EN65;Q9UIS9-6 MBD1 Methyl-CpG-binding domain protein 1 1 0 LLPS(0.695)VWS(0.303)ES(0.001)EDGAGSPPPYR 119.51 0.00020482 9557600 708.62 594.58 805.71 559.2 795.66 881.35 881.25 773.21 583.17 1039.3 TRUE FALSE FALSE 783.1559029 613.8447821 915.5079628 570.0241246 734.6967027 806.2540217 782.0894307 753.4324078 579.1116725 1084.109309 0.7223957 0.566220377 0.844479385 0.525799493 0.677696148 0.743701779 0.721411968 0.694978266 0.534181994 1 10.08229451 -8.881753571 0.673713466 1.009256243 0.682346261 0 0.166221706 0.344610656 0.284814884 0.060663486 0.018329835 1.31E-09 8.881753571 -0.326909982 LLPSAPQTLPDGPLAS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 4 LLPSAPQTLPDGPLASPAR 19 0 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;X6RGP5;A0A0C4DH09;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 LLPSAPQTLPDGPLAS(1)PAR;LLPSAPQTLPDGPLAS(1)PAR;LLPSAPQTLPDGPLAS(1)PAR;LLPSAPQTLPDGPLAS(1)PAR ;;; 250.39 4.21E-42 55468800 5179.68 6646.3 5180.89 5533.11 6730 7150.6 5850.8 4480.72 7994.4 6230.43 TRUE FALSE FALSE 5724.502508 6861.644481 5886.914708 5640.211345 6214.348854 6541.328652 5192.452586 4366.10967 7938.766319 6499.054328 0.880820842 1.055791217 0.90581097 0.867851084 0.956192784 1.006504688 0.798955098 0.67180692 1.221526382 1 12.66601409 -4.541187357 3.680057345 0.946537168 0.688094109 0.469951209 0.10360941 0.095775492 2.692654202 0.008764747 0.046467078 2.88E-05 4.541187357 -0.258443059 LLPSVWS(ph)ESEDGAGSPPPYR ddPTM_HeLa_SAHA_4h_R1 1 LLPSVWSESEDGAGSPPPYR 20 0 K7EN65;K7EPZ6;A0A0A0MS90;Q9UIS9-4;Q9UIS9-11;Q9UIS9-7;K7EMA9;Q9UIS9-8;Q9UIS9-10;Q9UIS9-2;Q9UIS9-6;Q9UIS9-5;Q9UIS9;Q9UIS9-9;Q9UIS9-12 K7EN65;Q9UIS9-6 MBD1 Methyl-CpG-binding domain protein 1 1 0 LLPSVWS(0.612)ES(0.388)EDGAGSPPPYR 122.97 0.00015124 2025400 629.15 759.13 608.06 259.81 638.6 941.69 696.13 744.23 352.77 674.58 TRUE FALSE FALSE 695.3268836 783.7263101 690.9232502 264.8389982 589.670606 861.4527142 617.7996203 725.1936742 350.3150448 703.6644451 0.988151225 1.113778471 0.981893081 0.376371153 0.837999717 1.224237945 0.877974757 1.030595875 0.49784389 1 9.458743808 -6.49524842 24.98681379 1.005326946 0.867000793 0 0.258008689 1392.921344 1259655.612 0.031568508 0.048145084 3.20E-07 6.49524842 -0.138326154 LLPSVWSES(ph)EDGAGSPPPYR ddPTM_HeLa_SAHA_4h_R1 1 LLPSVWSESEDGAGSPPPYR 20 0 K7EN65;K7EPZ6;A0A0A0MS90;Q9UIS9-4;Q9UIS9-11;Q9UIS9-7;K7EMA9;Q9UIS9-8;Q9UIS9-10;Q9UIS9-2;Q9UIS9-6;Q9UIS9-5;Q9UIS9;Q9UIS9-9;Q9UIS9-12 K7EN65;Q9UIS9-6 MBD1 Methyl-CpG-binding domain protein 1 1 0 LLPSVWS(0.006)ES(0.753)EDGAGS(0.241)PPPYR 105.53 0.00063715 3881800 582.84 974.59 752.62 684.92 969.22 879.69 898.49 638.53 710.9 786.46 TRUE FALSE FALSE 644.1457854 1006.167355 855.1831341 698.177617 894.958573 804.735463 797.3895405 622.1973272 705.952789 820.3681394 0.785191129 1.22648273 1.042438258 0.851054037 1.090923123 0.980944315 0.971989894 0.758436728 0.860531699 1 9.680127653 LLQDFFNGK ddPTM_HeLa_SAHA_4h_R1 2 LLQDFFNGK 9 0 P11142;E9PKE3;P11142-2;E9PNE6;E9PN89;A8K7Q2;P54652;P17066 P11142;P17066 HSPA8;HSPA2;HSPA6 Heat shock cognate 71 kDa protein;Heat shock-related 70 kDa protein 2;Heat shock 70 kDa protein 6 0 0 ; ; 200.54 2.83E-24 11710400 7139.3 8411.6 7373.1 8342.1 8857.3 9233.3 9244.5 7372.7 7177.3 8190.3 FALSE FALSE TRUE 7890.24433 8684.141359 8377.867671 8503.573408 8178.655588 8446.570895 8204.28453 7184.11701 7127.352585 8543.423915 0.923545924 1.016470849 0.980621792 0.995335534 0.957304199 0.988663442 0.960304043 0.840894363 0.834250139 1 13.06059865 -4.264861658 4.366066148 0.971334819 0.831852371 0.331883404 0.05009902 0.107579068 4.906914426 0.004465895 0.046093148 5.43E-05 4.264861658 -0.139482448 LLQDFFNGR ddPTM_HeLa_SAHA_4h_R1 2 LLQDFFNGR 9 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 0 0 ; ; 185.72 1.20E-16 6023900 1716.85 1947.23 2066.24 1996.09 2238.2 2489.68 2387.12 1641.32 1816.22 2055.6 FALSE FALSE TRUE 1897.43616 2010.32153 2347.816427 2034.727208 2066.7096 2277.545257 2118.514975 1599.337411 1803.580777 2144.226976 0.884904528 0.937550713 1.094947715 0.948932754 0.963848335 1.062175452 0.988008732 0.74588065 0.84113333 1 11.06624191 -4.257801918 24.718377 0.965368794 0.745880552 0.467941559 0.071294716 206.4989334 1403191.496 0.00952042 0.093753835 5.52E-05 4.257801918 -0.219488242 LLQDSS(ph)SPVDLAK ddPTM_HeLa_SAHA_4h_R1 1 LLQDSSSPVDLAK 13 0 E7EWM1;Q15596 E7EWM1 NCOA2 Nuclear receptor coactivator 2 1 0 LLQDS(0.001)S(0.618)S(0.381)PVDLAK 205.3 4.61E-11 14160000 3087.5 3059.1 2692.4 2880.4 2986 3148.9 3029.6 2880.6 3236.8 2722.3 TRUE FALSE FALSE 3412.257416 3158.216847 3059.306251 2936.154307 2757.213325 2880.596005 2688.701435 2806.918423 3214.274845 2839.671676 1.201638008 1.112176761 1.07734506 1.033976686 0.970962013 1.014411641 0.946835318 0.988465831 1.131917775 1 11.47150842 -6.090587585 2.080173632 1.098809206 0.979447013 0.586513717 0.049378764 0.286245429 2.437485473 0.012036006 0.022498631 8.12E-07 6.090587585 -0.119362193 LLQDSSS(ph)PVDLAK ddPTM_HeLa_SAHA_4h_R1 1 LLQDSSSPVDLAK 13 0 E7EWM1;Q15596 E7EWM1 NCOA2 Nuclear receptor coactivator 2 1 0 LLQDS(0.023)S(0.221)S(0.756)PVDLAK 196.97 2.27E-08 15817000 1633 1547.9 1567.4 1500.1 1716.3 1683.2 1347.1 1472.1 1638.5 1607.9 TRUE FALSE FALSE 1804.766432 1598.052976 1780.997109 1529.136605 1584.797465 1539.781891 1195.520763 1434.445814 1627.097545 1677.224438 1.076043487 0.952796143 1.061871667 0.911706609 0.944892901 0.918053575 0.712797128 0.855249769 0.970113187 1 10.71186004 -5.346507259 0.822703906 1.032598967 0.76972925 0.616394436 0.061357093 0.332771066 0.355844117 0.009788694 0.056916835 4.50E-06 5.346507259 -0.262869717 LLQNGNS(ph)PAEVAK ddPTM_HeLa_SAHA_4h_R1 2 LLQNGNSPAEVAK 13 0 Q9Y6Q9-2;Q9Y6Q9-3;Q9Y6Q9-5;Q9Y6Q9;Q9Y6Q9-4 Q9Y6Q9-2 NCOA3 Nuclear receptor coactivator 3 1 0 LLQNGNS(1)PAEVAK;LLQNGNS(1)PAEVAK ; 188.39 2.49E-07 7971100 2296.6 2717.3 2411.5 2405.1 2380.1 2986.4 2392.8 2298.1 2778.6 2748 TRUE FALSE FALSE 2538.166925 2805.342303 2740.126661 2451.654188 2197.737252 2731.941919 2123.555846 2239.31793 2759.263496 2866.479728 0.885464809 0.9786716 0.955920474 0.855283979 0.766702527 0.953065145 0.740823605 0.781208361 0.96259655 1 11.48506436 -1 0.14371711 1.013280841 0.139150368 0.541694939 0.062058208 42.81348531 0.403339106 0.158556634 7.761679834 0.1 1 -0.874130472 LLQTCFS(ph)SPADDSMDR ddPTM_HeLa_SAHA_4h_R1 1 LLQTCFSSPADDSMDR 16 0 Q9NZL4-2;Q9NZL4;Q9NZL4-3 Q9NZL4-2 HSPBP1 Hsp70-binding protein 1 1 0 LLQT(0.005)CFS(0.609)S(0.386)PADDSMDR 128.74 0.00023181 5567500 1105.2 1197.3 913.99 1037.9 1097.1 1451 1026.7 1228 754.26 867.49 TRUE FALSE FALSE 1221.450007 1236.093306 1038.543797 1057.990055 1013.040435 1327.366637 911.1730139 1196.589538 749.0110432 904.8917393 1.349829989 1.366012366 1.147699501 1.169189649 1.119515618 1.466878942 1.006941465 1.322356572 0.82773553 1 9.821601389 -9.467180873 1.21871643 1.000690607 1.248697289 0.430654193 0.142609757 0.419768445 1.120299685 0.086211818 0.021499306 3.41E-10 9.467180873 0.248006683 LLQTCFSS(ph)PADDSMDR ddPTM_HeLa_SAHA_4h_R1 1 LLQTCFSSPADDSMDR 16 0 Q9NZL4-2;Q9NZL4;Q9NZL4-3 Q9NZL4-2 HSPBP1 Hsp70-binding protein 1 1 0 LLQTCFS(0.373)S(0.548)PADDS(0.079)MDR 140.68 0.00011076 5591400 475.45 581.96 544.81 831.64 800.84 887.06 813.57 690.62 522.57 669.29 TRUE FALSE FALSE 525.4600124 600.8158858 619.0538696 847.7375948 739.4798122 811.4774975 722.0249624 672.9549404 518.9333928 698.1463673 0.752650214 0.860587284 0.886710722 1.214269148 1.059204555 1.162331476 1.034202849 0.963916697 0.743301716 1 9.447385721 -6.33370676 9.644459691 0.878264334 1.086439029 0.604827332 0.094746603 0.339821653 43.85847952 0.01698072 0.02595089 4.64E-07 6.33370676 0.208174695 LLQTCFSSPADDS(ph)MDR ddPTM_HeLa_SAHA_4h_R1 2 LLQTCFSSPADDSMDR 16 0 Q9NZL4-2;Q9NZL4;Q9NZL4-3 Q9NZL4-2 HSPBP1 Hsp70-binding protein 1 1 0 LLQTCFSSPADDS(1)MDR;LLQTCFSSPADDS(1)MDR ; 208.85 9.19E-16 11583200 1124.97 822.8 896.78 764.05 1044.96 1339.39 1202.08 1107.54 1014.64 918.48 TRUE FALSE FALSE 1243.299506 849.4592599 1018.988508 778.8392926 964.8953906 1225.266437 1066.818795 1079.21073 1007.579038 958.0801677 1.297698823 0.886626494 1.063573323 0.812916621 1.007113416 1.278876735 1.113496376 1.126430508 1.051664643 1 9.904002569 -6.177499606 0.002318605 0.85244418 1.349059767 0 0.148921629 3283296.677 2844.801903 302682.2597 306633.4027 6.65E-07 6.177499606 0.496615587 LLQTT(ph)NNSPMNSKPQQIK ddPTM_HeLa_SAHA_4h_R1 1 LLQTTNNSPMNSKPQQIK 18 1 O00178;B0QY59 O00178 GTPBP1 GTP-binding protein 1 1 0 LLQT(0.179)T(0.725)NNS(0.096)PMNSKPQQIK 77.221 0.0084264 2152600 1239.7 1252.7 943.19 1079.8 1293.1 1517.7 1295.2 1279.6 1292.4 1345.9 TRUE FALSE FALSE 1370.097334 1293.288302 1071.723021 1100.70109 1194.022957 1388.383422 1149.460687 1246.869685 1283.406083 1403.928336 0.975902615 0.921192535 0.76337445 0.784015154 0.850487113 0.988927559 0.818745984 0.888129154 0.914153558 1 10.45525358 -7.065325039 3.686766904 0.98828896 0.850400086 0.382300683 0.063231954 0.138661173 3.707645185 0.010176187 0.012803018 8.60E-08 7.065325039 -0.137888873 LLQTTNNS(ph)PMNSKPQQIK ddPTM_HeLa_SAHA_4h_R1 2 LLQTTNNSPMNSKPQQIK 18 1 O00178;B0QY59 O00178 GTPBP1 GTP-binding protein 1 1 0 LLQT(0.012)T(0.056)NNS(0.932)PMNSKPQQIK;LLQT(0.057)T(0.237)NNS(0.706)PMNSKPQQIK ; 69.805 0.0074489 3876500 991.33 1151.76 1062.84 1245.56 1079.83 1527.48 1338.89 1372.88 1377.54 1128.81 TRUE FALSE FALSE 1095.602638 1189.07778 1207.6783 1269.669615 997.0936587 1397.330111 1188.234573 1337.763718 1367.953587 1177.478523 0.930465071 1.009850928 1.025647837 1.078295349 0.846804115 1.186713883 1.009134816 1.13612579 1.161765213 1 10.20148503 -4.449948963 0.527863763 0.971272129 1.195243311 0 0.100944616 3.371529419 0.713396898 0.015653272 0.445933054 3.55E-05 4.449948963 0.223971182 LLRS(ph)AKNIS(ph)SMSNMNSSRMDSPK ddPTM_HeLa_SAHA_4h_R1 1 LLRSAKNISSMSNMNSSRMDSPK 23 3 F5GZ52;Q12879-2;Q12879 F5GZ52 GRIN2A "Glutamate receptor ionotropic, NMDA 2A" 2 0 LLRS(0.976)AKNIS(0.686)S(0.116)MS(0.116)NMNS(0.029)S(0.038)RMDS(0.038)PK 49.528 0.0082795 0 0 145.74 140.86 0 64.815 159.4 67.057 0 0 0 TRUE FALSE FALSE 0 150.4620716 160.0556672 0 59.8488887 145.8182232 59.51156988 0 0 0 0 LLRYESSALPSGQLT(ph)S(ph)LS(ph)EYASRMRAGT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 LLRYESSALPSGQLTSLSEYASRMRAGTR 29 3 I3L0K7;Q12931-2;Q12931 I3L0K7 TRAP1 "Heat shock protein 75 kDa, mitochondrial" 4 0 LLRY(0.165)ES(0.163)S(0.138)ALPS(0.078)GQLT(0.657)S(0.658)LS(0.664)EY(0.376)AS(0.106)RMRAGT(0.994)R 44.474 0.007126 0 212.43 137.31 115.78 224.55 358.01 152.2 299.86 238.27 340.02 212.06 TRUE FALSE FALSE 234.7743621 141.7589341 131.5578954 228.89649 330.5793511 139.2317037 266.1189636 232.1753984 337.6537731 221.2029444 1.061352789 0.640854644 0.594738446 1.034780484 1.494461803 0.629429704 1.203053442 1.049603562 1.526443394 1 7.789226779 -6.004680796 24.98557181 0.958293544 1.093210645 0.03735288 0.3095411 520.8888155 2780472.727 0.038201347 0.067962313 9.89E-07 6.004680796 0.134917101 LLS(ph)DSLPPSTGTFQEAQSR ddPTM_HeLa_SAHA_4h_R1 5 LLSDSLPPSTGTFQEAQSR 19 0 Q9Y490 Q9Y490 TLN1 Talin-1 1 0 LLS(0.845)DS(0.155)LPPSTGTFQEAQSR;LLS(0.976)DS(0.024)LPPSTGTFQEAQSR;LLS(0.775)DS(0.225)LPPSTGTFQEAQSR;LLS(0.769)DS(0.231)LPPSTGTFQEAQSR;LLS(0.667)DS(0.333)LPPSTGTFQEAQSR ;;;; 194.67 1.13E-14 18324300 2390.697 2475.85 2177.55 2354.09 2916.49 3156.94 2779.5 2886.56 3003.55 2356.78 TRUE FALSE FALSE 2642.161479 2556.069164 2474.295174 2399.656816 2693.029166 2887.950952 2466.743345 2812.725975 2982.648051 2458.39232 1.074751763 1.039732 1.006468802 0.976108165 1.095443207 1.174731522 1.003396946 1.144132266 1.213251452 1 11.26349945 -1 0.157557636 1.008812472 1.379921262 0 0.081995824 84.76177615 0.849180816 0.108035412 7.306580117 0.1 1 0.371108791 LLS(ph)PLSSAR ddPTM_HeLa_SAHA_4h_R1 6 LLSPLSSAR 9 0 A0A087WZ13;Q8IY67-2;E9PAU2 A0A087WZ13 RAVER1 Ribonucleoprotein PTB-binding 1 1 0 LLS(0.999)PLS(0.001)SAR;LLS(0.998)PLS(0.002)SAR;LLS(1)PLSSAR;LLS(0.626)PLS(0.37)S(0.004)AR;LLS(0.999)PLS(0.001)SAR;LLS(1)PLSSAR ;;;;; 159.34 9.11E-05 193346000 21607.56 21292.4 20468.92 20176.44 20826.7 19471.1 21547.3 15748.03 17578.4 18801.9 TRUE FALSE FALSE 23880.3423 21982.28773 23258.31782 20566.98417 19230.96275 17812.05274 19122.74109 15345.2182 17456.07048 19612.54192 1.217605673 1.120828081 1.185890024 1.048664893 0.980544124 0.908197051 0.975026142 0.782418631 0.890046306 1 14.25948891 -5.592871579 1.577406174 1.112750708 0.887498001 0.408347914 0.099265229 0.239061973 1.179881712 0.014402021 0.039107742 2.55E-06 5.592871579 -0.225252707 LLS(ph)PQQPALQR ddPTM_HeLa_SAHA_4h_R1 4 LLSPQQPALQR 11 0 Q14814-4;Q14814;Q14814-6;Q14814-3;Q14814-5;Q14814-2 Q14814-4 MEF2D Myocyte-specific enhancer factor 2D 1 0 LLS(1)PQQPALQR;LLS(1)PQQPALQR;LLS(1)PQQPALQR;LLS(1)PQQPALQR ;;; 134.18 0.0011537 72003000 5993.6 7311.6 6592.2 4861.42 6744.2 7025.9 6654 5826.4 6142.2 6374.5 TRUE FALSE FALSE 6624.034348 7548.500637 7490.550685 4955.519814 6227.460853 6427.253793 5905.274408 5677.369125 6099.45593 6649.335891 0.996194877 1.135226248 1.126511099 0.745265376 0.936553809 0.96660086 0.88809988 0.853824986 0.917303025 1 12.69899454 -6.270661506 24.99621635 1.019362408 0.886793847 0.475423875 0.081361674 500.6321009 1356942.742 0.012046979 0.018562329 5.36E-07 6.270661506 -0.132568562 LLS(ph)PSNEK ddPTM_HeLa_SAHA_4h_R1 2 LLSPSNEK 8 0 Q14694;Q14694-3;Q14694-2;H3BNA1;J3KT19 Q14694 USP10 Ubiquitin carboxyl-terminal hydrolase 10 1 0 LLS(0.5)PS(0.5)NEK;LLS(0.909)PS(0.091)NEK ; 98.04 0.012396 18649100 9610.8 9491.4 7782.7 9068.3 9356.5 11410.4 10784.1 10736.8 10428.8 9328.9 TRUE FALSE FALSE 10621.70804 9798.927588 8843.285825 9243.830059 8639.606991 10438.16973 9570.644686 10462.1682 10356.22513 9731.114534 1.091520196 1.006968683 0.908763924 0.949925112 0.887833245 1.07265922 0.983509613 1.075125379 1.064238335 1 13.24838934 -7.003348584 24.9265752 1.04353506 0.97679622 0.217044416 0.060658692 172.7543619 1285979.515 0.010567522 0.013737122 9.92E-08 7.003348584 -0.06673884 LLS(ph)PYSPQTQETDSAVQK ddPTM_HeLa_SAHA_4h_R1 2 LLSPYSPQTQETDSAVQK 18 0 Q9P265 Q9P265 DIP2B Disco-interacting protein 2 homolog B 1 0 LLS(0.809)PY(0.003)S(0.18)PQT(0.005)QET(0.003)DSAVQK;LLS(0.827)PY(0.021)S(0.14)PQT(0.011)QET(0.002)DSAVQK ; 124.68 1.08E-05 0 817.62 875.7 715.37 730.18 952.11 959.67 913.7 689.36 881.48 981.3 TRUE FALSE FALSE 903.621023 904.0732546 812.8568981 744.3136898 879.1595375 877.900717 810.8880713 671.7271694 875.3457089 1023.608645 0.882779788 0.883221589 0.794109059 0.72714674 0.858882485 0.857652699 0.792185641 0.656234365 0.85515662 1 9.999448522 -11.34806504 0.03430361 2.069155051 4.05E-09 0.375664159 0.070777225 227.1670303 0.970937169 39.76407532 21.29489573 4.49E-12 11.34806504 -2.069155047 LLS(ph)QESR ddPTM_HeLa_SAHA_4h_R1 1 LLSQESR 7 0 D6RBD3;Q3KP44-2;Q3KP44 D6RBD3 ANKRD55 Ankyrin repeat domain-containing protein 55 1 0 LLS(1)QESR 82.305 0.020696 626230 276.03 216.87 415.31 313.48 260.32 308.23 338.79 410.2 416.73 339.73 TRUE FALSE FALSE 305.0641019 223.8967303 471.906284 319.5478587 240.3743378 281.9670699 300.6684576 399.707678 413.829942 354.3774229 0.860845195 0.631803032 1.33164884 0.901716187 0.678300372 0.795668831 0.848441346 1.127915189 1.167766103 1 8.469142884 -5.994364909 24.99071154 0.940233418 0.848444011 0.055064762 0.204894902 417.0322987 1849447.503 0.027900876 0.050467192 1.01E-06 5.994364909 -0.091789407 LLS(ph)SNEDDANILSSPTDR ddPTM_HeLa_SAHA_4h_R1 2 LLSSNEDDANILSSPTDR 18 0 H0YEG1;F5GY88;A0A0B4J1W0;O75448-2;O75448 H0YEG1 MED24 Mediator of RNA polymerase II transcription subunit 24 1 0 LLS(0.824)S(0.176)NEDDANILSSPTDR;LLS(0.5)S(0.5)NEDDANILSSPTDR ; 267.56 4.76E-60 11898900 1107.03 1785.53 1500.99 711.63 1535.77 2120.45 1624.24 1160.83 883.03 1605.3 TRUE FALSE FALSE 1223.472495 1843.382344 1705.5371 725.4046277 1418.099634 1939.775731 1441.47624 1131.137649 876.8849223 1674.512339 0.73064406 1.100847274 1.01852764 0.433203513 0.846873207 1.158412324 0.860833454 0.675502726 0.523665847 1 10.70952529 -9.657926575 1.49769329 1.000076001 0.842584144 0 0.250130775 0.941236345 3.79506173 0.146494663 0.032892589 2.20E-10 9.657926575 -0.157491857 LLSFS(ph)PEEFPTLK ddPTM_HeLa_SAHA_4h_R1 1 LLSFSPEEFPTLK 13 0 Q5JSZ5;Q5JSZ5-5;A0A1W2PQP5 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 LLS(0.211)FS(0.789)PEEFPTLK 135.91 0.00053461 64150000 3076.5 3167.5 2853.1 3505.2 3313.1 3622.3 3380 3257.5 3555.8 3319 TRUE FALSE FALSE 3400.100385 3270.129078 3241.90561 3573.048215 3059.250994 3313.659661 2999.673504 3174.177867 3531.054898 3462.098333 0.982092378 0.944551184 0.936399056 1.032047005 0.8836407 0.957124652 0.866432208 0.916836427 1.019917564 1 11.75743099 -4.045458744 0.251119541 1.003300886 0.782890482 0.459694255 0.038721468 6.844347463 0.314051611 0.023726654 0.477214415 9.01E-05 4.045458744 -0.220410404 LLSGPSQES(ph)PQTLGK ddPTM_HeLa_SAHA_4h_R1 2 LLSGPSQESPQTLGK 15 0 E7EVL6;C9JZE3;C9JYJ8;Q9BWE0;Q9BWE0-4 E7EVL6 REPIN1 Replication initiator 1 1 0 LLS(0.001)GPS(0.043)QES(0.645)PQT(0.311)LGK;LLSGPS(0.001)QES(0.992)PQT(0.007)LGK ; 148.7 7.29E-05 7417700 1113.15 749.78 752.43 1320.01 905.34 1034.57 1381.22 854.84 955.26 1081.35 TRUE FALSE FALSE 1230.236224 774.0733639 854.9672419 1345.560702 835.9730448 946.4188157 1225.80149 832.9744306 948.6122679 1127.97229 1.090661743 0.68625211 0.757968302 1.192902267 0.741129061 0.839044384 1.086730145 0.73847065 0.840988982 1 10.13951591 -7.303587541 24.99901525 1.042812502 0.874817748 0.046139597 0.166701408 543.5223714 322373.9839 0.025370593 0.029012483 4.97E-08 7.303587541 -0.167994754 LLSISGK ddPTM_HeLa_SAHA_4h_R1 1 LLSISGK 7 0 P06748;P06748-3;P06748-2;E5RI98 P06748 NPM1 Nucleophosmin 0 0 124.59 0.0019601 7253800 4281.7 5631.4 4264.5 5470.2 5498.4 5890.8 5481 3905.2 7004.6 5166 FALSE FALSE TRUE 4732.068851 5813.861055 4845.643851 5576.083631 5077.11378 5388.870699 4864.263455 3805.310639 6955.854418 5388.731542 0.87814151 1.078892316 0.899217898 1.034767382 0.942172335 1.000025824 0.902673183 0.706160737 1.290814798 1 12.39573 -4.293936421 3.088206593 0.957601549 0.676336713 0.303980777 0.120620089 0.174092743 2.56988232 0.008784956 0.113875388 5.08E-05 4.293936421 -0.281264836 LLSISGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 LLSISGKR 8 1 P06748;P06748-3;P06748-2;E5RI98 P06748 NPM1 Nucleophosmin 0 1 ; LLSISGK(1)R;LLSISGK(1)R 160.63 9.21E-08 71866000 3508.2 4657.3 3922.3 4640.5 4952.5 3374 5276.6 2736.8 2622.9 3011.1 FALSE TRUE FALSE 3877.208572 4808.199576 4456.810618 4730.323588 4573.04052 3086.516218 4682.863081 2666.796619 2604.647025 3140.923257 1.234416843 1.530823641 1.418949224 1.506029661 1.455954236 0.982678011 1.490919293 0.84904864 0.829261594 1 11.61697298 -8.376966271 1.021058383 1.035176465 1.324243073 0.29089216 0.229277104 0.481213669 1.035165038 0.068475192 0.043479125 4.20E-09 8.376966271 0.289066608 LLSPQMS(ph)GEEEDSDLAAK ddPTM_HeLa_SAHA_4h_R1 2 LLSPQMSGEEEDSDLAAK 18 0 P42858;A0A3B3IU44 P42858 HTT Huntingtin 1 0 LLSPQMS(1)GEEEDSDLAAK;LLS(0.023)PQMS(0.934)GEEEDS(0.043)DLAAK ; 201.18 2.26E-16 13007100 2292.6 2099.31 1687.52 1826.48 2818.8 3319 2476.2 2898.8 1597.81 1966.29 TRUE FALSE FALSE 2533.746187 2167.329021 1917.486437 1861.834162 2602.824153 3036.202528 2197.571459 2824.652893 1586.69071 2051.066385 1.235331146 1.056683995 0.934872928 0.907739591 1.269010195 1.480304368 1.071428734 1.377163077 0.773593055 1 11.00215847 -5.597091539 10.51963919 1.081879117 1.300565037 0.404121299 0.163873058 0.370150799 50.13647214 0.021457036 0.042935129 2.53E-06 5.597091539 0.21868592 LLSSES(ph)EDEEEFIPLAQR ddPTM_HeLa_SAHA_4h_R1 1 LLSSESEDEEEFIPLAQR 18 0 Q96AY2;Q96AY2-2;D6RIT8;F8W714 Q96AY2 EME1 Crossover junction endonuclease EME1 1 0 LLS(0.001)S(0.016)ES(0.982)EDEEEFIPLAQR 171.56 8.32E-09 2018000 161.9 298.03 255.95 39.685 91.734 154.23 487.41 182.15 0 113.98 TRUE FALSE FALSE 178.9293848 307.6863675 290.8295331 40.45316056 84.70536074 141.0887363 432.565344 177.4908668 0 118.8942356 1.504945836 2.587899792 2.44611971 0.340244927 0.712442957 1.186674321 3.63823647 1.492846696 0 1 6.89353496 -8.250337874 1.225405647 1.099762642 1.745919426 0.154106901 0.973928266 0.817893169 2.515152942 0.259837146 0.190693403 5.62E-09 8.250337874 0.646156785 LLSSLSGSHTGESLPLATSNQVLIK ddPTM_HeLa_SAHA_4h_R1 1 LLSSLSGSHTGESLPLATSNQVLIK 25 0 A0A087X0K4;Q7Z408-2;Q7Z408;Q7Z408-4 A0A087X0K4 CSMD2 CUB and sushi domain-containing protein 2 0 0 44.863 0.016005 991680 541.55 534.1 650.96 736.34 685.83 854.46 824.95 871.35 856.27 807.47 FALSE FALSE TRUE 598.5127137 551.4051904 739.6694387 750.5929255 633.2818536 781.6552009 732.1244549 849.0621287 850.3111474 842.2839834 0.71058304 0.654654726 0.878171084 0.891139972 0.751862633 0.928018598 0.869213317 1.00804734 1.009530235 1 9.718162922 -3.546863368 1.065629527 0.842710265 1.501982698 0.1491291 0.111093963 11.52368612 3.462632151 0.019545692 12.45575823 0.000283881 3.546863368 0.659272433 LLSSNEDDANILSS(ph)PTDR ddPTM_HeLa_SAHA_4h_R1 2 LLSSNEDDANILSSPTDR 18 0 H0YEG1;F5GY88;A0A0B4J1W0;O75448-2;O75448 H0YEG1 MED24 Mediator of RNA polymerase II transcription subunit 24 1 0 LLSSNEDDANILS(0.227)S(0.77)PT(0.003)DR;LLSSNEDDANILS(0.207)S(0.792)PT(0.001)DR ; 244.27 1.39E-37 19090300 2488.8 2187.6 1908.04 2245.5 2538.8 2610.9 2205.13 2429.3 3110.9 2474.1 TRUE FALSE FALSE 2750.583403 2258.479675 2168.057755 2288.9649 2344.277692 2388.436631 1957.002969 2367.162024 3089.250994 2580.770559 1.06579928 0.875118351 0.840081559 0.886930801 0.908363467 0.925474224 0.758301803 0.917230714 1.197026595 1 11.33358617 -7.252607232 24.20577188 1.031071882 0.871294398 0.634537602 0.070804537 165.615176 453892.1758 0.008165848 0.009914428 5.59E-08 7.252607232 -0.159777485 LLSSS(ph)LTADCSLR ddPTM_HeLa_SAHA_4h_R1 3 LLSSSLTADCSLR 13 0 Q147X3;Q147X3-2 Q147X3 NAA30 N-alpha-acetyltransferase 30 1 0 LLS(0.003)S(0.046)S(0.894)LT(0.058)ADCSLR;LLS(0.01)S(0.055)S(0.929)LT(0.006)ADCSLR;LLSS(0.059)S(0.887)LT(0.054)ADCSLR ;; 123.26 0.0010213 21291200 2970.17 2765.37 2904.59 2762.91 3194.71 3478.1 3700.5 3199.47 2899.12 3053.69 TRUE FALSE FALSE 3282.586108 2854.969802 3300.412399 2816.390118 2949.93201 3181.746313 3284.110001 3117.63219 2878.944788 3185.34952 1.030526191 0.896281486 1.036122528 0.884169885 0.926093665 0.998868819 1.031004598 0.978741005 0.903808128 1 11.63723597 LLSVNIR ddPTM_HeLa_SAHA_4h_R1 1 LLSVNIR 7 0 P07814 P07814 EPRS Bifunctional glutamate/proline--tRNA ligase;Glutamate--tRNA ligase;Proline--tRNA ligase 0 0 107.32 0.015091 3747500 2395.2 2187.1 3573.1 2899.6 2958.4 1480 2968.2 1185 819.5 1511.5 FALSE FALSE TRUE 2647.138126 2257.963475 4060.02346 2955.725951 2731.728031 1353.895674 2634.210324 1154.689416 813.7970328 1576.668162 1.678944365 1.432110782 2.575065291 1.874665844 1.732595417 0.858706801 1.670744921 0.732360457 0.516149848 1 10.62266334 -2.650894623 11.16892798 1.437400565 1.208847406 0 0.59644221 0 0 0.072751729 0 0.002234114 2.650894623 -0.228553159 LLT(ph)PTQSSLAR ddPTM_HeLa_SAHA_4h_R1 2 LLTPTQSSLAR 11 0 Q96T17-2 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 LLT(0.655)PT(0.289)QS(0.016)S(0.04)LAR;LLT(0.487)PT(0.229)QS(0.055)S(0.229)LAR ; 106.26 0.0088982 22155000 2947.5 2555.9 3064.9 3185.5 3637.4 3737.9 3300.6 2682.7 2701.1 3066.1 TRUE FALSE FALSE 3257.531574 2638.712837 3482.568611 3247.159959 3358.703198 3419.409891 2929.207801 2614.080419 2682.302825 3198.294576 1.018521433 0.825037461 1.088883006 1.015278575 1.050154424 1.069135381 0.915865544 0.817335726 0.838666596 1 11.64308711 -4.508138843 3.982984942 1.008125472 0.830104186 0.248532925 0.086607471 0.13990656 4.847881292 0.008964235 0.049730255 3.10E-05 4.508138843 -0.178021286 LLVDVDES(ph)TLSPEEQKER ddPTM_HeLa_SAHA_4h_R1 1 LLVDVDESTLSPEEQKER 18 1 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 LLVDVDES(0.803)T(0.14)LS(0.057)PEEQKER 132.52 6.16E-05 10232000 3197.4 3728.7 3073.2 3459.9 3869.1 4118.1 3706.7 3498.6 4181.7 3395.7 TRUE FALSE FALSE 3533.717202 3849.512326 3491.999691 3526.871368 3572.650394 3767.214712 3289.612361 3409.110878 4152.599209 3542.105245 0.997631905 1.086786546 0.985854301 0.995699202 1.008623445 1.06355245 0.928716719 0.962453299 1.172353423 1 11.79039136 -4.736467399 24.99971901 1.008140824 0.94558497 0.145006144 0.061334242 180.4426296 180640.1237 0.004389414 0.016410527 1.83E-05 4.736467399 -0.062555853 LLVDVDESTLS(ph)PEEQKER ddPTM_HeLa_SAHA_4h_R1 3 LLVDVDESTLSPEEQKER 18 1 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 LLVDVDEST(0.001)LS(0.999)PEEQKER;LLVDVDESTLS(1)PEEQKER;LLVDVDES(0.017)T(0.017)LS(0.965)PEEQKER ;; 136.53 7.02E-05 35246000 4128.32 5183.9 4319.38 4568.39 5675.6 6591.1 5908.8 5061 6127.2 5537.3 TRUE FALSE FALSE 4562.555639 5351.861761 4908.002612 4656.817794 5240.736754 6029.501199 5243.926273 4931.546948 6084.560316 5776.040102 0.789910658 0.926562432 0.849717544 0.80623017 0.907323471 1.043881464 0.907875669 0.853793752 1.053413794 1 12.49586504 -4.255892066 21.88231169 0.901281321 0.853793626 0.008513388 0.088340571 431.4557732 1701605.105 0.012845516 0.140704968 5.55E-05 4.255892066 -0.047487695 LLVDVDESTLSPEEQKER ddPTM_HeLa_SAHA_4h_R1 1 LLVDVDESTLSPEEQKER 18 1 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 0 0 114.29 0.00031072 0 503 624.68 631.98 603.56 599.02 607.41 687.26 496.78 498.8 418.55 FALSE FALSE TRUE 555.9078478 644.9200419 718.1029432 615.2427766 553.123217 555.6552508 609.927696 484.0730869 495.3288102 436.5957388 1.273278226 1.477156061 1.644777718 1.409181817 1.266900173 1.272699666 1.397007899 1.108744415 1.134525068 1 8.770154239 -8.448026007 0.916875765 1.032502818 1.366609419 0.396824101 0.140672938 0.325774923 0.56635867 0.054040851 0.030856765 3.56E-09 8.448026007 0.334106601 LLVHLK ddPTM_HeLa_SAHA_4h_R1 2 LLVHLK 6 0 E9PPJ0;Q13435 E9PPJ0 SF3B2 Splicing factor 3B subunit 2 0 0 ; ; 72.054 0.02173 7854800 11391 10223.8 13941.3 14313.2 12717.5 8847.8 13746.7 6611.7 6723.5 9627.1 FALSE FALSE TRUE 12589.15764 10555.05783 15841.14776 14590.25268 11743.0879 8093.917664 12199.88514 6442.582288 6676.710616 10042.17139 1.253629036 1.05107326 1.577462397 1.452898194 1.169377362 0.805992782 1.214865257 0.641552711 0.664867224 1 13.29378363 -4.257385139 24.01883349 1.157285578 0.641552352 0.237234701 0.260495944 218.0375343 1291641.972 0.030831819 0.311633906 5.53E-05 4.257385139 -0.515733226 LLYNNVSNFGR ddPTM_HeLa_SAHA_4h_R1 2 LLYNNVSNFGR 11 0 A0A087WVQ6;Q00610-2;Q00610;J3KS13 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 ; ; 133.99 0.00083443 2365500 0 0 0 186.96 0 0 0 0 0 159.4 FALSE FALSE TRUE 0 0 0 190.5788811 0 0 0 0 0 166.2725141 0 0 0 1.146183915 0 0 0 0 0 1 7.377405891 -9.293505505 0.908464507 1.02591124 0.144832986 0 0.456816092 0.448984415 0.633682043 0.271988705 0.065229615 5.09E-10 9.293505505 -0.881078254 LMAELMQNRSQR ddPTM_HeLa_SAHA_4h_R1 1 LMAELMQNRSQR 12 1 Q9H2T7 Q9H2T7 RANBP17 Ran-binding protein 17 0 0 67.726 0.017694 932040 455.32 401.25 323.03 306.43 625.76 781.83 727.55 559.08 414.21 412.84 FALSE FALSE TRUE 503.2126467 414.2507633 367.0508461 312.3613958 577.814404 715.2136855 645.6841592 544.7795431 411.3274789 430.6395528 1.168523986 0.961943139 0.852338908 0.725343025 1.341758787 1.660817454 1.49936102 1.265047624 0.9551549 1 8.750337022 -5.547953985 13.86741591 1.030653854 1.481473687 0.705743103 0.1532007 0.810872393 447.9917979 0.024363815 0.048788484 2.83E-06 5.547953985 0.450819833 LMDVGLIAIR ddPTM_HeLa_SAHA_4h_R1 1 LMDVGLIAIR 10 0 P31948-3;P31948;P31948-2 P31948-3 STIP1 Stress-induced-phosphoprotein 1 0 0 109.21 0.011815 265700 0 0 373.33 325.99 174.82 0 275.61 168.05 0 0 FALSE FALSE TRUE 0 0 424.2054682 332.3000078 161.4253294 0 244.5976374 163.7515243 0 0 0 LMEDLDR ddPTM_HeLa_SAHA_4h_R1 4 LMEDLDR 7 0 R4GN98;P06703 R4GN98 S100A6 Protein S100;Protein S100-A6 0 0 ;;; ;;; 147.69 0.0010134 310884800 18250.5 22085 16337.1 23706.9 21818.9 27338 22789.3 21044.3 28474.4 22071.7 FALSE FALSE TRUE 20170.17133 22800.56849 18563.43491 24165.78133 20147.1406 25008.6486 20224.98799 20506.01728 28276.24433 23023.319 0.876075744 0.990325004 0.806288394 1.049621965 0.875075422 1.086231251 0.878456663 0.890662952 1.228156737 1 14.4908082 -9.637018305 1.473971314 0.999852909 0.926016918 0.172147695 0.110344902 0.749748392 2.936662882 0.05371091 0.012311104 2.31E-10 9.637018305 -0.073835991 LMELFPANK ddPTM_HeLa_SAHA_4h_R1 1 LMELFPANK 9 0 Q7L1Q6-2;Q7L1Q6;Q7L1Q6-4;Q7L1Q6-3;C9IZ80 Q7L1Q6-2 BZW1 Basic leucine zipper and W2 domain-containing protein 1 0 0 114.89 0.006628 209440 244.67 241.62 356.33 380.7 379.7 299.04 422.9 301.4 202.96 336.96 FALSE FALSE TRUE 270.4055132 249.4486465 404.8887967 388.068999 350.607468 273.5601096 375.314179 293.6906244 201.5475848 351.4879946 0.769316498 0.709693219 1.151927812 1.104074691 0.99749486 0.778291475 1.067786623 0.835563743 0.573412429 1 8.457331603 -6.760961133 24.99993204 0.874419427 0.98877567 0.220425253 0.160799831 21.31259031 1114051.316 0.023469476 0.032049651 1.73E-07 6.760961133 0.114356243 LMELHGEGSSS(ph)GK ddPTM_HeLa_SAHA_4h_R1 2 LMELHGEGSSSGK 13 0 D6R9B6;H0Y9Y4;D6RAT0;P61247;D6RG13 D6R9B6 RPS3A 40S ribosomal protein S3a 1 0 LMELHGEGS(0.278)S(0.278)S(0.443)GK;LMELHGEGS(0.25)S(0.25)S(0.499)GK ; 106.6 0.0025325 9616400 3397.8 4804.6 2772.89 3768.4 5553.7 5090.3 4538.3 4639 5110.4 4576.3 TRUE FALSE FALSE 3755.196194 4960.272192 3150.765009 3841.342831 5128.176706 4656.577803 4027.63854 4520.341097 5074.83631 4773.606689 0.786658063 1.039103662 0.66003867 0.80470451 1.074277174 0.975484179 0.843730706 0.946944604 1.063103151 1 12.22086399 -3.88649307 15.29516296 0.898324776 3.595760968 0 0.132369282 4231968.061 4604853.631 0.017774411 391598568.2 0.000129869 3.88649307 2.697436192 LMGAGK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 LMGAGKK 7 1 O00193;E9PM92 O00193 SMAP;C11orf58 Small acidic protein 0 1 LMGAGK(1)K 88.591 0.01256 6241600 3242 2352.6 2545.4 3543.8 3902.1 3957.3 4089.4 5110.7 3127.8 2501.7 FALSE TRUE FALSE 3583.008435 2428.825784 2892.273856 3612.395373 3603.121941 3620.115777 3629.249949 4979.975694 3106.033385 2609.56053 1.373031357 0.930741309 1.108337524 1.384292616 1.380738979 1.387251123 1.390751396 1.908357992 1.190251519 1 11.34959115 -1 0.40958018 1.146858512 12.84765688 0.701703771 0.142396009 34.10316231 0.396760861 0.040985628 327.8434417 0.1 1 11.70079837 LMHNASDS(ph)EVDQDDVVEWK ddPTM_HeLa_SAHA_4h_R1 1 LMHNASDSEVDQDDVVEWK 19 0 Q9H2P0;A0A669KBJ7;A0A2R8Y6X0 Q9H2P0 ADNP Activity-dependent neuroprotector homeobox protein 1 0 LMHNAS(0.364)DS(0.636)EVDQDDVVEWK 146.17 6.82E-05 4279400 1354.8 1835.5 1339.9 1416.9 1581.9 457.39 1824.3 1514 2954 1595.1 TRUE FALSE FALSE 1497.30408 1894.971404 1522.494594 1444.326148 1460.695164 418.4177988 1619.024963 1475.274072 2933.442873 1663.872567 0.899891079 1.138892149 0.915030769 0.868050941 0.877888843 0.251472262 0.97304625 0.886650878 1.763021358 1 10.70032923 -5.508563315 24.73487369 0.955276499 0.702992979 0.162234215 0.31796103 573.0580826 990155.3351 0.026113819 0.056365882 3.10E-06 5.508563315 -0.252283519 LMIEMDGTENK ddPTM_HeLa_SAHA_4h_R1 7 LMIEMDGTENK 11 0 P06733;A0A2R8Y6G6;K7EM90;A0A2R8YEM5;A0A2R8Y879 P06733 ENO1 Alpha-enolase;Enolase 0 0 ;;;;;; ;;;;;; 201.33 1.46E-23 91366400 10125.5 10017.96 10230.67 10189.91 10160.28 11852.52 11695.19 9929.59 10280.88 9736.45 FALSE FALSE TRUE 11190.54655 10342.54848 11624.85243 10387.15044 9381.801541 10842.61862 10379.21644 9675.605466 10209.33452 10156.23601 1.101839947 1.018344638 1.144602431 1.022736222 0.923747886 1.067582381 1.021955027 0.952676312 1.005228168 1 13.31007821 -6.002916223 24.9995269 1.054513991 0.995869146 0.223399442 0.054731272 157.5331981 1350487.26 0.008537672 0.015275026 9.93E-07 6.002916223 -0.058644845 LMLPDS(ph)PLVEEGR ddPTM_HeLa_SAHA_4h_R1 2 LMLPDSPLVEEGR 13 0 Q9P2F8;Q9P2F8-2 Q9P2F8 SIPA1L2 Signal-induced proliferation-associated 1-like protein 2 1 0 LMLPDS(1)PLVEEGR;LMLPDS(1)PLVEEGR ; 116.79 0.00133 1780170 1121.82 1225.07 988.85 1126.52 1366.14 1602.98 1872.91 1477.24 1193.16 1228.62 TRUE FALSE FALSE 1239.818175 1264.763072 1123.605328 1148.325424 1261.466648 1466.397086 1662.165238 1439.45434 1184.856702 1281.591821 0.967404875 0.98686887 0.876726357 0.896014944 0.984296738 1.144199785 1.296953687 1.123176909 0.924519557 1 10.32372113 -5.181199902 3.460434108 0.968830506 1.21152309 0.785689971 0.057323628 0.08382007 1.930659098 0.008102227 0.022403021 6.59E-06 5.181199902 0.242692583 LMLSTSEYSQS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 LMLSTSEYSQSPK 13 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 LMLSTSEYSQS(1)PK;LMLSTSEYS(0.005)QS(0.994)PK;LMLSTSEYS(0.001)QS(0.999)PK ;; 250.52 1.17E-32 35119000 8854.9 8797.5 7945.1 7440.56 6867.3 7272.79 7013.8 6332.75 9758.4 9063.7 TRUE FALSE FALSE 9786.29901 9082.544772 9027.816852 7584.582798 6341.128958 6653.107376 6224.588765 6170.767425 9690.4905 9454.480464 1.035096434 0.960660378 0.954871808 0.802221003 0.670700942 0.703698887 0.658374491 0.65268181 1.024962772 1 13.20678247 -6.147540336 1.453652822 1.014742345 0.66380175 0.980569254 0.021683367 0.036776532 0.152731674 0.00373098 0.007385014 7.12E-07 6.147540336 -0.350940595 LMPVSAQT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 LMPVSAQTPK 10 0 Q99549-2;Q99549;A0A0A0MT47 Q99549-2 MPHOSPH8 M-phase phosphoprotein 8 1 0 LMPVS(0.004)AQT(0.996)PK 102.97 0.014207 6121900 3535.3 3458.8 2885.2 3274.5 4535.4 4126.5 4176 3829 3129.5 3448.3 TRUE FALSE FALSE 3907.159075 3570.867389 3278.380031 3337.882683 4187.898632 3774.898985 3706.105489 3731.059724 3107.721555 3596.973089 1.086235281 0.992742315 0.911427456 0.927969879 1.164284116 1.049465451 1.030340066 1.037277631 0.863982431 1 11.81256765 -5.766297005 24.9999805 1.019850505 1.065993371 0.118033491 0.078777099 245.0307202 1261070.807 0.010584135 0.019622047 1.71E-06 5.766297005 0.046142866 LMS(ph)MRKDMRT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 LMSMRKDMRTK 11 3 B5MCA1;Q96G28;Q96G28-2 B5MCA1 CFAP36 Cilia- and flagella-associated protein 36 2 0 LMS(1)MRKDMRT(1)K 69.346 0.017934 7645300 773.73 629.8 666.77 645.24 527.64 737.5 881 809.36 468.73 606.69 TRUE FALSE FALSE 855.1144714 650.2059332 757.6339432 657.7295532 487.2123372 674.6608509 781.8675613 788.6577431 465.4680698 632.847375 1.351217537 1.027429296 1.197182722 1.039317819 0.769873364 1.066071975 1.235475712 1.246205285 0.735513946 1 9.305713794 LMVALAK ddPTM_HeLa_SAHA_4h_R1 2 LMVALAK 7 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YKS4;H0YNA0;H0YN52 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ; ; 120.76 0.0039905 9310300 6060.7 7559.1 22092.2 11336.3 10628.6 1111.76 14673.9 1034.77 459.53 2072.03 FALSE FALSE TRUE 6698.192233 7804.0198 25102.80996 11555.73048 9814.238964 1017.031793 13022.75415 1008.302082 456.3320933 2161.365354 3.099055984 3.610689783 11.61432977 5.346495658 4.540758899 0.470550614 6.025244242 0.466511634 0.2111314 1 11.07772725 LNAS(ph)PAAR ddPTM_HeLa_SAHA_4h_R1 3 LNASPAAR 8 0 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 1 0 LNAS(1)PAAR;LNAS(1)PAAR;LNAS(1)PAAR ;; 102.95 0.0090357 93380000 7994.5 12172 7081 10077.7 10617 12415.6 10185.2 8629.5 16386 11503.8 TRUE FALSE FALSE 8835.39819 12566.38079 8045.961804 10272.76846 9803.527754 11357.72103 9039.13449 8408.769885 16271.96849 11999.78512 0.736296367 1.047217151 0.670508824 0.856079368 0.816975276 0.946493701 0.753274696 0.700743372 1.356021657 1 13.55072095 -9.495849568 1.140100171 1.003999655 0.813122649 0.359971814 0.157981579 0.511304071 1.147864647 0.080094878 0.017837838 3.19E-10 9.495849568 -0.190877006 LNCS(ph)TSPEIFR ddPTM_HeLa_SAHA_4h_R1 1 LNCSTSPEIFR 11 0 Q9BRS8 Q9BRS8 LARP6 La-related protein 6 1 0 LNCS(0.625)T(0.187)S(0.187)PEIFR 106.79 0.0049545 12168000 1179.8 1103.5 986.15 1267.1 1099 3425.8 1605.9 1508.1 1552.4 1259.3 TRUE FALSE FALSE 1303.896777 1139.254124 1120.537386 1291.626553 1014.794857 3133.902567 1425.199906 1469.524986 1541.596722 1313.594586 0.99261735 0.867279857 0.853031368 0.983276398 0.772532765 2.385745648 1.084961769 1.118705118 1.17357116 1 10.35930437 LNDGHFMPVLGFGTYAPAEVPK ddPTM_HeLa_SAHA_4h_R1 2 LNDGHFMPVLGFGTYAPAEVPK 22 0 B4DK69;P52895;S4R3P0;P52895-2;Q04828 B4DK69;Q04828 AKR1C2;AKR1C1 Aldo-keto reductase family 1 member C2;Aldo-keto reductase family 1 member C1 0 0 ; ; 237.14 1.68E-65 3698800 1857.39 1703.77 2286.16 2390.71 2202.89 1544.65 2626.67 1393.73 1936.76 2358.29 FALSE FALSE TRUE 2052.758802 1758.973266 2597.705979 2436.985649 2034.105044 1413.03713 2331.110179 1358.080405 1923.281929 2459.967423 0.834465848 0.715039252 1.055992024 0.990657692 0.826882919 0.574412944 0.947618313 0.552072516 0.781832276 1 11.2644235 -2.24734535 0.232417701 0.955755319 1.02E-43 0.191738551 0.149819937 29.19608397 0.591366182 0.098773435 9.528412168 0.005657892 2.24734535 -0.955755319 LNDGHFMPVLGFGTYAPPEVPR ddPTM_HeLa_SAHA_4h_R1 1 LNDGHFMPVLGFGTYAPPEVPR 22 0 A0A0A0MSS8;P42330 A0A0A0MSS8 AKR1C3 Aldo-keto reductase family 1 member C3 0 0 187.07 7.06E-26 934410 307.65 272.54 339.2 320.9 351.31 274.71 366.09 270.18 396.99 361.81 FALSE FALSE TRUE 340.0100385 281.3704748 385.4244095 327.1114835 324.3927037 251.3031625 324.8965897 263.2691868 394.2273143 377.4093998 0.900905062 0.745531179 1.021236911 0.866728502 0.859524707 0.665863549 0.860859825 0.697569236 1.044561462 1 8.559986545 -1.000000002 0.10320153 1.090871707 0.029917574 0.522149587 0.086935322 71.6287994 0.524250792 0.601661817 10.82491828 0.099999999 1.000000002 -1.060954133 LNDS(ph)PTLK ddPTM_HeLa_SAHA_4h_R1 4 LNDSPTLK 8 0 Q9BYW2;C9JG86;H7C3H4;Q9BYW2-3;Q9BYW2-2;H7BZ93;H7BXT4 Q9BYW2 SETD2 Histone-lysine N-methyltransferase SETD2 1 0 LNDS(0.987)PT(0.013)LK;LNDS(0.983)PT(0.017)LK;LNDS(0.954)PT(0.046)LK;LNDS(0.939)PT(0.061)LK ;;; 134.75 0.0014442 210124000 16827.2 16622.8 15656.9 15181.6 17382.8 17564.6 18508 16534.2 17966.8 15746.8 TRUE FALSE FALSE 18597.1621 17161.38963 17790.54079 15475.46182 16050.93362 16067.99726 16425.43113 16111.27911 17841.76758 16425.72161 1.132197571 1.044787561 1.083090364 0.942148064 0.97718286 0.978221697 0.999982315 0.980856701 1.086209057 1 14.00366913 -6.26787275 24.97488229 1.063817674 0.977253432 0.649135827 0.034272991 386.7124609 1501248.406 0.007764212 0.012044349 5.40E-07 6.26787275 -0.086564242 LNECIS(ph)PVANEMNHLPAHSHDLQR ddPTM_HeLa_SAHA_4h_R1 2 LNECISPVANEMNHLPAHSHDLQR 24 0 P23497;P23497-2;P23497-3;P23497-4;P23497-5 P23497 SP100 Nuclear autoantigen Sp-100 1 0 LNECIS(1)PVANEMNHLPAHSHDLQR;LNECIS(1)PVANEMNHLPAHSHDLQR ; 116.57 2.43E-06 30097000 2988.3 3241.4 2384.3 2999.8 3596.6 1309.51 3186.5 2996.7 4514.2 2822.6 TRUE FALSE FALSE 3302.623105 3346.423487 2709.219987 3057.865467 3321.029285 1197.932381 2827.946634 2920.048753 4482.785315 2944.296099 1.121702096 1.136578446 0.920158807 1.038572672 1.127953566 0.406865458 0.960483096 0.991764637 1.522532097 1 11.52370705 LNEQAS(ph)EEILKVEQK ddPTM_HeLa_SAHA_4h_R1 2 LNEQASEEILKVEQK 15 1 Q01105;A0A0C4DFV9;Q01105-3;Q01105-4;Q01105-2 Q01105;Q01105-2 SET Protein SET 1 0 LNEQAS(1)EEILKVEQK;LNEQAS(1)EEILKVEQK ; 69.361 0.016746 21016000 2312.64 3260.1 2582.62 3775.2 3733.4 4213.8 3912.7 3584.8 5398.7 3838.9 TRUE FALSE FALSE 2555.894086 3365.729379 2934.566004 3848.274455 3447.347699 3854.760534 3472.432698 3493.106007 5361.130007 4004.413766 0.638269229 0.840504897 0.732832863 0.961008197 0.860886986 0.96262793 0.867151324 0.872313954 1.338805209 1 11.96737534 -6.248582456 24.21316245 0.819303731 0.903479516 0 0.18818777 1104.543278 2080159.164 0.02092027 0.034537651 5.64E-07 6.248582456 0.084175784 LNEQASEEILK ddPTM_HeLa_SAHA_4h_R1 1 LNEQASEEILK 11 0 Q01105;A0A0C4DFV9;Q01105-3;Q01105-4;Q01105-2 Q01105;Q01105-2 SET Protein SET 0 0 116.55 0.015366 3598900 1877 841.95 588.18 1001.9 916.54 1660.6 1251.8 1200.7 1683.4 1450.2 FALSE FALSE TRUE 2074.431472 869.2297324 668.3341073 1021.293223 846.3149032 1519.107538 1110.944169 1169.987833 1671.685082 1512.725219 1.371320743 0.574611781 0.441808002 0.675134658 0.559463736 1.004219087 0.734399186 0.773430507 1.105081783 1 10.56293424 -7.255068415 24.99895474 1.175345908 0.680931743 0.637069822 0.165315193 267.0086529 1047712.779 0.03326275 0.040207598 5.56E-08 7.255068415 -0.494414165 LNFAVASR ddPTM_HeLa_SAHA_4h_R1 1 LNFAVASR 8 0 P30101 P30101 PDIA3 Protein disulfide-isomerase A3 0 0 115.49 0.0051173 4774400 1809.8 2246.3 2705.2 2875.1 3158.3 963.79 2867.8 774.58 609.67 1542.4 FALSE FALSE TRUE 2000.163068 2319.081594 3073.850568 2930.751718 2916.311736 881.6696699 2545.107596 754.7673652 605.4272568 1608.900412 1.243186373 1.441407794 1.910528796 1.821586778 1.812611715 0.547995179 1.581892563 0.469120002 0.376298777 1 10.65185931 -3.002867258 14.20753445 1.238264714 1.125773118 0 0.561182725 0 0 0.064625979 0 0.00099342 3.002867258 -0.112491596 LNGPGENVS(ph)EDEAQSSNQR ddPTM_HeLa_SAHA_4h_R1 4 LNGPGENVSEDEAQSSNQR 19 0 G3V0E9;H0Y9K3;D6R9W6;A0A3B3IT29;A0A3B3ISF8;D6RJB0;A0A3B3ISF0;Q659C4-3;Q659C4-9;Q659C4-2;Q659C4 G3V0E9 LARP1B La-related protein 1B 1 0 LNGPGENVS(1)EDEAQSSNQR;LNGPGENVS(0.997)EDEAQS(0.002)SNQR;LNGPGENVS(0.981)EDEAQS(0.017)S(0.002)NQR;LNGPGENVS(1)EDEAQSSNQR ;;; 252.58 1.51E-51 31556500 4127.48 4455.16 3657.92 4879.27 4280.26 5244.15 4305.25 4551.11 5363.57 4531.13 TRUE FALSE FALSE 4561.627284 4599.510107 4156.402288 4973.715326 3952.307404 4797.318917 3820.811939 4434.699196 5326.24448 4726.489189 0.965119585 0.973134587 0.879384702 1.052306506 0.836203627 1.014985696 0.808382668 0.938264961 1.126892344 1 12.20655324 -1 0.129422312 1.022238454 0.569356906 0.253366472 0.080353575 88.23968755 0.771132738 0.210731761 7.316039812 0.1 1 -0.452881548 LNGTDPEDVIR ddPTM_HeLa_SAHA_4h_R1 3 LNGTDPEDVIR 11 0 J3QRS3;P19105;O14950;J3KTJ1;P24844 J3QRS3;P24844 MYL12A;MYL12B;MYL9 Myosin regulatory light chain 12A;Myosin regulatory light chain 12B;Myosin regulatory light polypeptide 9 0 0 ;; ;; 161.67 0.0011653 33614900 3064.24 2655.6 2492.4 2817.93 3120.04 3124.1 2985.69 3110.59 2509.57 2838.71 FALSE FALSE TRUE 3386.550822 2741.643182 2832.051292 2872.47511 2880.983209 2857.909104 2649.732303 3031.025612 2492.105698 2961.10068 1.143679729 0.925886513 0.95641844 0.970070058 0.972943348 0.96515094 0.894847082 1.023614507 0.841614645 1 11.53191783 -7.246613315 24.99650498 1.067848762 0.957162403 0 0.084435153 557.1951797 939422.9122 0.009861509 0.012049781 5.67E-08 7.246613315 -0.110686359 LNHS(ph)PPQSSSR ddPTM_HeLa_SAHA_4h_R1 2 LNHSPPQSSSR 11 0 A0A087X0H9;Q5T8P6-3;Q5T8P6-2;Q5T8P6 A0A087X0H9 RBM26 RNA-binding protein 26 1 0 LNHS(0.994)PPQS(0.003)S(0.002)SR;LNHS(1)PPQSSSR ; 94.673 0.0066349 8505400 338.39 124.484 140.13 269.22 418.98 540.19 382.83 280.71 363.2 188.37 TRUE FALSE FALSE 373.9834128 128.5173633 159.2261866 274.4311424 386.8778429 494.162773 339.7529608 273.5298447 360.6724616 196.4915526 1.903305297 0.654060501 0.810346219 1.396656186 1.968928628 2.514931388 1.729097035 1.392069232 1.835562175 1 7.61832348 -11.76088541 0.12707936 5.46E-25 1.935174206 0.005683801 0.549529291 90.87668081 1.302050812 30.24081253 2.766204815 1.73E-12 11.76088541 1.935174206 LNHVAAGLVS(ph)PSLK ddPTM_HeLa_SAHA_4h_R1 3 LNHVAAGLVSPSLK 14 0 Q5T757;Q05519-2;Q05519;Q5T760 Q5T757 SRSF11 Serine/arginine-rich splicing factor 11 1 0 LNHVAAGLVS(0.977)PS(0.023)LK;LNHVAAGLVS(0.939)PS(0.061)LK;LNHVAAGLVS(0.669)PS(0.331)LK ;; 105.28 0.0031161 113221000 10189.6 11508.9 10122.1 10998 12495.8 2427.85 11978.4 9873.2 14650.6 11951.1 TRUE FALSE FALSE 11261.38888 11881.79591 11501.48707 11210.88219 11538.3745 2220.983521 10630.55891 9620.65784 14548.64528 12466.37041 0.903341431 0.953107883 0.922601102 0.899289996 0.925560057 0.178157992 0.852738893 0.771728861 1.167031366 1 13.60575386 -5.475299061 24.99993922 0.945714211 0.613694362 0.459056329 0.181184131 258.4564198 135801.2486 0.022315132 0.049896965 3.35E-06 5.475299061 -0.332019848 LNILDTLSK ddPTM_HeLa_SAHA_4h_R1 1 LNILDTLSK 9 0 Q13200;Q13200-2;Q13200-3;H7C1H2 Q13200 PSMD2 26S proteasome non-ATPase regulatory subunit 2 0 0 103.26 0.010834 173820 144.2 260.05 400.34 209.26 273.25 173.7 349.42 366.47 171.04 167.52 FALSE FALSE TRUE 159.3676176 268.4757906 454.8962503 213.3105299 252.313644 158.8997828 310.102342 357.096228 169.8497187 174.742607 0.912013506 1.536407149 2.603236029 1.220712759 1.443915988 0.909336226 1.774623529 2.043555571 0.971999455 1 7.449087609 -7.220959923 5.742993716 0.958132903 1.639741122 0.347076233 0.43211021 0.168621043 15.10448919 0.072681797 0.0884096 6.01E-08 7.220959923 0.681608219 LNLEAINYMAADGDFK ddPTM_HeLa_SAHA_4h_R1 1 LNLEAINYMAADGDFK 16 0 P09382 P09382 LGALS1 Galectin-1 0 0 180.27 1.35E-08 51453000 1691.9 2058.1 1735.5 1905.1 1808 1834.3 1914.5 1972.3 2200.4 1915.5 FALSE FALSE TRUE 1869.861805 2124.78379 1972.004902 1941.975965 1669.471431 1678.007321 1699.075421 1921.851422 2185.087237 1998.086579 0.935826217 1.06340927 0.986946673 0.971917827 0.83553508 0.839807112 0.850351251 0.961845919 1.093589867 1 10.96440338 -5.775292247 23.15168451 0.978376058 0.868055479 0.537298607 0.058192569 53.7330248 89801.90845 0.007124028 0.012973117 1.68E-06 5.775292247 -0.110320579 LNLGTDSDS(ph)SPQK ddPTM_HeLa_SAHA_4h_R1 1 LNLGTDSDSSPQK 13 0 Q16512;Q16512-2;Q16512-3;K7EN76 Q16512 PKN1 Serine/threonine-protein kinase N1 1 0 LNLGTDS(0.014)DS(0.834)S(0.152)PQK 136.33 0.00052014 25816000 5180.4 5797.5 4383.6 5497.3 6289.2 6096 5324.3 5521.2 5942.5 5999.4 TRUE FALSE FALSE 5725.298241 5985.342804 4980.974179 5603.708191 5807.322855 5576.586505 4725.195751 5379.975699 5901.145659 6258.063494 0.914867394 0.956420913 0.795928994 0.895438053 0.927974422 0.891104175 0.755057176 0.859686979 0.942966728 1 12.61150058 -6.575464689 0.02561554 1.78847687 6.41E-09 0.412900797 0.05376177 132.7257043 1.74293004 57.86250377 63.53463759 2.66E-07 6.575464689 -1.788476864 LNLGTDSDSS(ph)PQK ddPTM_HeLa_SAHA_4h_R1 3 LNLGTDSDSSPQK 13 0 Q16512;Q16512-2;Q16512-3;K7EN76 Q16512 PKN1 Serine/threonine-protein kinase N1 1 0 LNLGTDS(0.001)DS(0.025)S(0.974)PQK;LNLGTDSDS(0.012)S(0.987)PQK;LNLGTDS(0.001)DS(0.069)S(0.93)PQK ;; 228.17 5.07E-23 139714000 13740.7 13210.7 10915.7 12137.9 15383 16479.5 15295.5 14966 14623 14124.7 TRUE FALSE FALSE 15186.00987 13638.73535 12403.23475 12372.84661 14204.35786 15075.35389 13574.41008 14583.19139 14521.23735 14733.68494 1.030700054 0.925683928 0.841828422 0.839765928 0.96407368 1.023189647 0.921318064 0.989785749 0.985580824 1 13.84683068 -7.255317784 24.10389188 1.014497248 0.92719661 0.27829787 0.055470299 266.0612803 1047620.719 0.009862418 0.011907504 5.55E-08 7.255317784 -0.087300638 LNLTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 LNLTSPK 7 0 Q8IWZ3;Q8IWZ3-4;Q8IWZ3-6;H0Y785;H0Y472;H0Y4P6;A0A0A0MQZ8;H0Y7Y3 Q8IWZ3 ANKHD1 Ankyrin repeat and KH domain-containing protein 1 1 0 LNLT(0.039)S(0.961)PK 92.051 0.018716 240030000 10367 10387 10335 11634 11538 10447 10496 10631 10740 10230 TRUE FALSE FALSE 11457.44863 10723.54562 11743.39998 11859.19289 10653.96093 9556.856827 9314.962456 10359.07441 10665.25947 10671.06536 1.073693041 1.004917995 1.10048993 1.111341041 0.998397121 0.895586008 0.872917758 0.970762905 0.999455921 1 13.3814166 -5.411001505 4.168171778 1.043740986 0.909986787 0.648343119 0.044290805 0.114349117 3.363196913 0.006778005 0.015668303 3.88E-06 5.411001505 -0.133754199 LNLYELK(ac)EGR ddPTM_HeLa_SAHA_4h_R1 2 LNLYELKEGR 10 1 A0A087WUL2;P49720;A0A087WXQ8;A0A087WY10 A0A087WUL2 PSMB3 Proteasome subunit beta type-3 0 1 ; LNLYELK(1)EGR;LNLYELK(1)EGR 149.23 2.50E-05 3812200 1347.61 1480.43 1572.42 1680.04 1707.97 1219.63 1742.26 991.46 926.24 1214.87 FALSE TRUE FALSE 1489.357803 1528.396903 1786.701209 1712.559604 1577.105708 1115.710663 1546.216319 966.0998888 919.7942204 1267.248991 1.175268486 1.206074666 1.40990541 1.351399461 1.244511314 0.880419452 1.220136161 0.762359959 0.725819651 1 10.3074843 -4.253126852 23.79162935 1.136408041 0.762359584 0.238411431 0.199700419 522.1298506 1494339.705 0.023518487 0.343678004 5.58E-05 4.253126852 -0.374048458 LNNLVLFDK ddPTM_HeLa_SAHA_4h_R1 1 LNNLVLFDK 9 0 P62851 P62851 RPS25 40S ribosomal protein S25 0 0 154.56 1.32E-06 479260 184.33 298.05 328.38 243 272.91 179.57 320.85 145.21 213.51 139.65 FALSE FALSE TRUE 203.7186751 307.7070156 373.1299163 247.7036164 251.9996948 164.2696258 284.7471136 141.4957385 212.0241665 145.6709949 1.39848482 2.112342376 2.561456496 1.700431967 1.729923619 1.127675594 1.954727595 0.971337764 1.455500229 1 7.186569836 -7.757548819 1.925009688 1.130323443 1.745339458 0.157530999 0.447731167 0.293874559 2.271614113 0.09135243 0.089433899 1.75E-08 7.757548819 0.615016015 LNNS(ph)SPNSSGGVK ddPTM_HeLa_SAHA_4h_R1 1 LNNSSPNSSGGVK 13 0 O00472;H0Y8G1;O00472-2 O00472 ELL2 RNA polymerase II elongation factor ELL2 1 0 LNNS(0.911)S(0.089)PNSSGGVK 201.72 7.36E-11 7069400 2052.4 2733.2 1953.9 2471.8 2785.9 3345.6 3083.2 2695.3 3751.6 2386.9 TRUE FALSE FALSE 2268.280849 2821.757473 2220.167317 2519.645263 2572.444944 3060.536058 2736.270221 2626.358129 3725.49231 2489.81094 0.911025336 1.133321984 0.891701165 1.011982566 1.033188867 1.229224279 1.098987147 1.054842392 1.496295261 1 11.28182048 -5.59430646 3.023830678 0.969099445 1.12561052 0 0.182890354 0.171058863 3.156033942 0.011041925 0.024266614 2.55E-06 5.59430646 0.156511075 LNNSS(ph)PNSSGGVK ddPTM_HeLa_SAHA_4h_R1 1 LNNSSPNSSGGVK 13 0 O00472;H0Y8G1;O00472-2 O00472 ELL2 RNA polymerase II elongation factor ELL2 1 0 LNNS(0.204)S(0.795)PNS(0.001)SGGVK 220.99 1.83E-16 9656800 1453 1707.4 1170.7 2077.4 2020.3 2577.8 2098 2061.3 2452.9 1541.6 TRUE FALSE FALSE 1605.833207 1762.72088 1330.236899 2117.611081 1865.50505 2358.156938 1861.927518 2008.574931 2435.830069 1608.06592 0.998611553 1.096174515 0.827227841 1.316868329 1.160092398 1.466455391 1.157867656 1.249062557 1.514757597 1 10.65111083 -6.244843478 24.99000755 0.996395215 1.268636372 0.101341321 0.193179794 363.0767405 546718.7434 0.013817297 0.022871054 5.69E-07 6.244843478 0.272241157 LNPEDIK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 LNPEDIKK 8 1 P53396;P53396-2 P53396 ACLY ATP-citrate synthase 0 1 LNPEDIK(1)K 80.239 0.019944 1690600 454.69 1002.2 662.6 514.45 994.36 820.23 844.41 914.37 791.88 434.36 FALSE TRUE FALSE 502.5163804 1034.671938 752.8956773 524.4079237 918.1723516 750.3417895 749.3947644 890.9817394 786.3692426 453.0873853 1.109093735 2.283603497 1.661700815 1.157410117 2.026479618 1.656064181 1.653974021 1.966467768 1.735579643 1 8.823645514 -7.402397276 8.430003096 1.047996543 1.744690766 0.212240328 0.355283767 0.152912433 10.00976548 0.046310762 0.05284829 3.96E-08 7.402397276 0.696694223 LNQPGT(ph)PTR ddPTM_HeLa_SAHA_4h_R1 6 LNQPGTPTR 9 0 G5E9C7;P36507;M0R1B6 G5E9C7 MAP2K2 Dual specificity mitogen-activated protein kinase kinase 2 1 0 LNQPGT(0.985)PT(0.015)R;LNQPGT(0.986)PT(0.014)R;LNQPGT(0.999)PT(0.001)R;LNQPGT(0.902)PT(0.098)R;LNQPGT(0.989)PT(0.011)R;LNQPGT(0.895)PT(0.105)R ;;;;; 142.89 0.0014073 1536692000 13697.6 13163.5 12468.8 14794.9 15112.5 16275.6 17443.9 15733 13194.2 13535.3 TRUE FALSE FALSE 15138.37641 13590.00604 14167.98313 15081.27668 13954.58351 14888.82732 15481.06646 15330.57264 13102.38049 14118.87302 1.072208553 0.962541841 1.00347833 1.06816434 0.988363837 1.054533693 1.096480324 1.08582127 0.928004697 1 13.78533732 -4.949093776 4.482370407 1.026741627 1.089918071 0.305670064 0.045260156 0.182068278 7.799652433 0.005285675 0.016626772 1.12E-05 4.949093776 0.063176444 LNQS(ph)AENGSSLPSAASSCAEAR ddPTM_HeLa_SAHA_4h_R1 2 LNQSAENGSSLPSAASSCAEAR 22 0 Q8NB90-3;Q8NB90-2;Q8NB90 Q8NB90-3 SPATA5 Spermatogenesis-associated protein 5 1 0 LNQS(1)AENGSSLPSAASSCAEAR;LNQS(1)AENGSSLPSAASSCAEAR ; 175.77 9.51E-17 4169600 501.36 760.83 389.12 541.7 673.63 716.73 753.41 499.32 682.12 517.8 TRUE FALSE FALSE 554.0953451 785.4813912 442.1472472 552.1853868 622.0166149 655.6605718 668.6343239 486.5481174 677.3730714 540.1248921 1.025865227 1.454258826 0.818601871 1.022329085 1.151616273 1.21390549 1.237925402 0.900806692 1.254104525 1 9.077149227 -7.490569038 24.99257891 1.011411 1.118672588 0 0.185152467 788.6835725 610077.4284 0.027944619 0.03068561 3.23E-08 7.490569038 0.107261588 LNQS(ph)PSLAPVKR ddPTM_HeLa_SAHA_4h_R1 1 LNQSPSLAPVKR 12 1 Q9H2P0;A0A669KBJ7;A0A2R8Y6X0 Q9H2P0 ADNP Activity-dependent neuroprotector homeobox protein 1 0 LNQS(0.755)PS(0.245)LAPVKR 98.531 0.019184 3757200 913.15 1105.3 1045.1 1070.8 1205.1 1224.7 1299.3 1044.1 1089 998.08 TRUE FALSE FALSE 1009.199307 1141.112445 1187.520785 1091.526882 1112.765498 1120.34867 1153.099344 1017.393434 1081.42156 1041.112113 0.969347387 1.096051454 1.140627191 1.048423958 1.06882389 1.076107612 1.107565006 0.977217939 1.038717681 1 10.02390972 -7.262777225 24.94353879 0.985525154 1.07638457 0.330429079 0.044113338 65.03746191 1212593.399 0.006671873 0.007853265 5.46E-08 7.262777225 0.090859416 LNQS(ph)SPDNVTDTK ddPTM_HeLa_SAHA_4h_R1 1 LNQSSPDNVTDTK 13 0 Q08AD1-2;Q08AD1-3;Q08AD1 Q08AD1-2 CAMSAP2 Calmodulin-regulated spectrin-associated protein 2 1 0 LNQS(0.709)S(0.289)PDNVT(0.002)DTK 160.87 5.82E-05 18338000 1229 1117.7 1136.3 912.64 1215.3 1168.9 1215.7 1264.9 1188.1 977.21 TRUE FALSE FALSE 1358.271859 1153.914213 1291.149046 930.3054669 1122.183977 1069.303144 1078.906236 1232.54569 1179.831915 1019.342305 1.33249827 1.132018368 1.266649132 0.91265266 1.100890222 1.049012818 1.058433689 1.20915779 1.157444275 1 9.993422889 -6.282299364 24.98755741 1.166204306 1.066598763 0.213882899 0.105918116 1445.437368 1731442.91 0.021600946 0.033014691 5.22E-07 6.282299364 -0.099605544 LNQSDSIEDPNS(ph)PAGRR ddPTM_HeLa_SAHA_4h_R1 2 LNQSDSIEDPNSPAGRR 17 1 Q86VS8 Q86VS8 HOOK3 Protein Hook homolog 3 1 0 LNQSDSIEDPNS(1)PAGRR;LNQSDSIEDPNS(1)PAGRR ; 121.47 0.00028983 11657600 1228.51 1346.08 1059.84 1381.72 1484.38 1591.12 1494.07 1338.32 1572.07 1502.78 TRUE FALSE FALSE 1357.730318 1389.693875 1204.269476 1408.465189 1370.647125 1455.547625 1325.953311 1304.087712 1561.129837 1567.5722 0.866135747 0.886526231 0.768238602 0.898500999 0.874375754 0.928536258 0.845864268 0.831915565 0.995890229 1 10.61431618 -9.071127624 0.69528731 1.007598769 0.86207042 0.636157017 0.040840165 0.423959332 0.347229522 0.035300585 0.008785753 8.49E-10 9.071127624 -0.145528349 LNQSPSLAPVK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 LNQSPSLAPVKR 12 1 Q9H2P0;A0A669KBJ7;A0A2R8Y6X0 Q9H2P0 ADNP Activity-dependent neuroprotector homeobox protein 0 1 ; LNQSPSLAPVK(1)R;LNQSPSLAPVK(1)R 130.56 0.00029636 2741100 660.52 800.91 591.4 706.83 1193.84 688.95 1081.29 1043.12 758.68 613.98 FALSE TRUE FALSE 729.9965242 826.8600095 671.9929121 720.5117167 1102.368237 630.2475841 959.6204034 1016.438501 753.4002841 640.4516825 1.13981514 1.291057596 1.049248414 1.12500558 1.721235602 0.984067341 1.498349414 1.58706508 1.176357725 1 9.322945924 -1 0.174939565 0.971618688 3.356171518 0.321607274 0.20262806 40.31812368 0.43068311 0.254402535 25.50156341 0.1 1 2.38455283 LNQSS(ph)PDNVTDTK ddPTM_HeLa_SAHA_4h_R1 1 LNQSSPDNVTDTK 13 0 Q08AD1-2;Q08AD1-3;Q08AD1 Q08AD1-2 CAMSAP2 Calmodulin-regulated spectrin-associated protein 2 1 0 LNQS(0.07)S(0.929)PDNVTDTK 127.03 0.00086524 119060000 6538.6 6070.2 5678 6262.2 6841.3 7581.4 7857.8 7212 7492.7 7135.8 TRUE FALSE FALSE 7226.359948 6266.878463 6451.76827 6383.413936 6317.121072 6935.422068 6973.619663 7027.527483 7440.557691 7443.45926 0.970833546 0.841930915 0.866770146 0.857587005 0.848680815 0.931747166 0.936878865 0.944121172 0.999610185 1 12.86175754 -7.404637443 5.507514944 0.987349978 0.889594499 0.624835687 0.035838818 0.122262083 5.03137017 0.006845804 0.007773758 3.94E-08 7.404637443 -0.097755479 LNQVIFPVSYNDK(ac)FYRK ddPTM_HeLa_SAHA_4h_R1 1 LNQVIFPVSYNDKFYRK 17 2 Q9GZZ1-2 Q9GZZ1-2 0 1 LNQVIFPVSYNDK(1)FYRK 65.949 0.016881 928340 272.85 279.52 121.31 201.82 201.01 226.05 176.64 0 281.78 200.21 FALSE TRUE FALSE 301.5496149 288.5766314 137.841495 205.7265179 185.6086572 206.7892683 156.7640023 0 279.81907 208.8420329 1.443912467 1.381793825 0.660027549 0.985081954 0.888751439 0.99017073 0.750634344 0 1.339859923 1 7.706268297 -4.571050314 0.721024693 1.186148569 2.43E-30 0.624571022 0.246422332 1.19568501 0.561361885 0.047037899 1.050242622 2.69E-05 4.571050314 -1.186148569 LNRSDSDS(ph)STLAK ddPTM_HeLa_SAHA_4h_R1 1 LNRSDSDSSTLAK 13 1 Q6AWC2-7;Q6AWC2-3;Q6AWC2-2;Q6AWC2-4;Q6AWC2;Q6AWC2-6 Q6AWC2-7 WWC2 Protein WWC2 1 0 LNRSDS(0.166)DS(0.503)S(0.166)T(0.166)LAK 193.45 5.14E-07 6067100 1704.4 1333.4 1917 1284.9 1836.8 1857.7 1665.4 1855.4 887 1467.8 TRUE FALSE FALSE 1883.676612 1376.603035 2178.238777 1309.771097 1696.064781 1699.413509 1478.004809 1807.941555 880.8272948 1531.084041 1.230289495 0.89910351 1.422677474 0.855453432 1.107754202 1.109941364 0.965332254 1.180824505 0.575296503 1 10.58033776 LNRSDSDS(ph)STLSK ddPTM_HeLa_SAHA_4h_R1 2 LNRSDSDSSTLSK 13 1 H0YBE8;H3BLZ3;Q8IX03;Q8IX03-2;H0YAU4 H0YBE8 WWC1 Protein KIBRA 1 0 LNRSDS(0.108)DS(0.883)S(0.008)T(0.001)LSK;LNRS(0.072)DS(0.354)DS(0.504)S(0.054)T(0.015)LSK ; 193.11 5.54E-07 18355900 8055.3 5123.4 6449.5 6109.3 7285.2 6615.8 7721.3 7367.7 4446.6 6597.6 TRUE FALSE FALSE 8902.593413 5289.401522 7328.404272 6227.554336 6727.00955 6052.096621 6852.479003 7179.244902 4415.655749 6882.054824 1.293595247 0.768578812 1.064857003 0.904897519 0.977471078 0.879402559 0.995702472 1.043183335 0.641618799 1 12.74862367 -7.266550525 24.9998863 1.138642197 0.9509465 0 0.188401515 377.1344142 1844654.815 0.021850701 0.025388879 5.41E-08 7.266550525 -0.187695697 LNS(ph)SGSSEDSFVEIR ddPTM_HeLa_SAHA_4h_R1 1 LNSSGSSEDSFVEIR 15 0 Q96CV9-2;Q96CV9;Q96CV9-3;A0A087WY28 Q96CV9-2 OPTN Optineurin 1 0 LNS(0.991)S(0.008)GS(0.001)SEDSFVEIR 130.27 0.00027573 1895200 208.34 246.4 204.56 303.89 302.65 516.11 431.42 271.39 322.47 360.58 TRUE FALSE FALSE 230.2541571 254.3835217 232.4363715 309.7722304 279.4610224 472.1345244 382.8754862 264.4482368 320.225905 376.1263684 0.612172335 0.676324616 0.617974146 0.823585519 0.742997689 1.255255053 1.017943751 0.703083482 0.851378504 1 8.55507364 LNSEAS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 LNSEASPSR 9 0 Q13111;Q13111-3;Q13111-2;K7EJF1 Q13111 CHAF1A Chromatin assembly factor 1 subunit A 1 0 LNSEAS(0.5)PS(0.5)R 142.76 0.00081642 25108000 1555.3 2757.7 1521.4 2567.3 2634.4 3934.2 2406.1 2433.2 4194.9 3135.2 TRUE FALSE FALSE 1718.89359 2847.051289 1728.728469 2616.993804 2432.552841 3598.984027 2135.359295 2370.962267 4165.707349 3270.373815 0.525595448 0.870558367 0.528602712 0.800212438 0.743814921 1.100480933 0.652940433 0.724982036 1.273771007 1 11.67523983 -9.638551321 1.479619812 0.999314874 0.717392516 0.368359461 0.18369221 0.427794511 1.689809704 0.117267956 0.026913274 2.30E-10 9.638551321 -0.281922358 LNSEAS(ph)PSREAINGQR ddPTM_HeLa_SAHA_4h_R1 1 LNSEASPSREAINGQR 16 1 Q13111;Q13111-3;Q13111-2;K7EJF1 Q13111 CHAF1A Chromatin assembly factor 1 subunit A 1 0 LNSEAS(0.844)PS(0.156)REAINGQR 151.49 0.00021769 11276000 1420.9 1112.7 1221.8 1255.9 1539.6 1343.3 1505.2 1381 980.84 1129.2 TRUE FALSE FALSE 1570.356781 1148.75221 1388.300541 1280.209761 1421.636181 1228.843283 1335.830935 1345.67602 974.0142546 1177.885338 1.333200041 0.975266584 1.178638104 1.086871293 1.206939364 1.043262228 1.134092506 1.142450777 0.826917717 1 10.20198339 LNSEASPS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 LNSEASPSR 9 0 Q13111;Q13111-3;Q13111-2;K7EJF1 Q13111 CHAF1A Chromatin assembly factor 1 subunit A 1 0 LNS(0.001)EAS(0.103)PS(0.896)R 133.88 0.0016507 27473000 1682.1 3210.4 1454.7 2457.9 2978.9 3758 2768.1 1906.5 4649 3062.4 TRUE FALSE FALSE 1859.030996 3314.419066 1652.93894 2505.476209 2750.657326 3437.797258 2456.626103 1857.734491 4616.64723 3194.435051 0.58195924 1.037560324 0.517443277 0.784325293 0.861077869 1.076183176 0.769033041 0.581553377 1.445215557 1 11.64134509 -9.660377188 1.513377155 0.999701078 0.756823124 0.283728647 0.228074335 0.532678196 2.199343505 0.128472155 0.029033973 2.19E-10 9.660377188 -0.242877955 LNSS(ph)TEANVIK ddPTM_HeLa_SAHA_4h_R1 1 LNSSTEANVIK 11 0 Q8NI08-2;Q8NI08;Q8NI08-7 Q8NI08-2 NCOA7 Nuclear receptor coactivator 7 1 0 LNS(0.049)S(0.902)T(0.049)EANVIK 145.81 0.00068249 4111900 1183.3 1295 1208.8 1228.4 1323.9 1770 1352.8 1272.8 1531.4 1547.9 TRUE FALSE FALSE 1307.764923 1336.95885 1373.528969 1252.177458 1222.463068 1619.186042 1200.579384 1240.243619 1520.742863 1614.637544 0.809943339 0.828024131 0.850673251 0.775516129 0.757112996 1.00281704 0.743559685 0.768125096 0.941847827 1 10.65699463 -9.255583059 0.650852454 1.022575649 0.815580687 0.412818166 0.07210174 0.672480406 0.42739653 0.080444762 0.014911757 5.55E-10 9.255583059 -0.206994962 LNSSSSSSSNSSNEREDFDSTSSSSS(ph)TPPLQPR ddPTM_HeLa_SAHA_4h_R1 1 LNSSSSSSSNSSNEREDFDSTSSSSSTPPLQPR 33 1 A0A669KAU9;A0A669KAX4;K4DI93;Q13620-1;Q13620 A0A669KAU9 CUL4B Cullin-4B 1 0 LNSSSSSSSNSSNEREDFDS(0.035)T(0.035)S(0.035)S(0.035)S(0.113)S(0.113)S(0.404)T(0.231)PPLQPR 78.025 2.34E-07 6383500 258.85 224.5 253.26 182.73 262.78 328.33 220.11 137.11 291.1 186.49 TRUE FALSE FALSE 286.0770306 231.7739473 287.7729539 186.2670034 242.6458532 300.3544369 195.3426435 133.6029247 289.0742114 194.5304966 1.47060248 1.191453018 1.479320513 0.957520834 1.247340944 1.54399666 1.004174908 0.686796811 1.486009734 1 7.603852534 -4.488280114 4.74843643 1.244279255 0.737768543 0.463253038 0.201141936 0.154593247 8.25354432 0.03014362 0.164928467 3.25E-05 4.488280114 -0.506510713 LNT(ph)SDFQK ddPTM_HeLa_SAHA_4h_R1 2 LNTSDFQK 8 0 Q96B36;Q96B36-2;Q96B36-3 Q96B36;Q96B36-3 AKT1S1 Proline-rich AKT1 substrate 1 1 0 LNT(0.92)S(0.08)DFQK;LNT(0.5)S(0.5)DFQK ; 104.07 0.014762 623020000 7397.2 6420.1 6183 7517.3 7069.6 7538.7 7207.9 6759.2 6661.7 6845 TRUE FALSE FALSE 8175.271436 6628.115452 7025.58704 7662.808212 6527.928775 6896.360348 6396.848122 6586.309451 6615.340687 7140.121449 1.144976524 0.928291696 0.983959039 1.073204184 0.914260188 0.965860371 0.895901865 0.922436614 0.926502544 1 12.8017329 -5.868287149 0.755218672 1.060866099 0.907056452 0.025341256 0.074250235 0.590099519 0.617647028 0.014046367 0.04870137 1.35E-06 5.868287149 -0.153809648 PEPAK(ac)SAPAPK(ac)K(ac)GSK ddPTM_HeLa_SAHA_4h_R1 2 PEPAKSAPAPKKGSK 15 3 O60814;P57053;P62807;Q16778 O60814;P62807;Q16778 HIST1H2BK;H2BFS;HIST1H2BC;HIST2H2BE Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E 0 3 ; PEPAK(1)SAPAPK(1)K(1)GSK;PEPAK(1)SAPAPK(1)K(1)GSK 185.67 1.25E-16 446300000 3005.4 3328.6 7375.1 24995 33834 39641 45684 46356 0 2270.77 FALSE TRUE FALSE 3321.521761 3436.448824 8380.14022 25478.81437 31241.64623 36263.36379 40543.51609 45170.28064 0 2368.674008 1.402270532 1.45079011 3.537903567 10.75657279 13.18950862 15.30956293 17.11654536 19.06985955 0 1 11.20986394 -5.976579184 1.050891324 1.041957754 17.75521987 0.982887046 0.936176834 0.041059074 0.089146283 0.152023722 0.385500308 1.06E-06 5.976579184 16.71326212 up LNTS(ph)DFQK ddPTM_HeLa_SAHA_4h_R1 3 LNTSDFQK 8 0 Q96B36;Q96B36-2;Q96B36-3 Q96B36;Q96B36-3 AKT1S1 Proline-rich AKT1 substrate 1 1 0 LNT(0.08)S(0.92)DFQK;LNT(0.085)S(0.915)DFQK;LNT(0.073)S(0.927)DFQK ;; 144.7 0.00045501 725415000 14709 13767.3 12510.7 14325.9 15158.4 14830 14944.2 14328.9 14070.7 12551.1 TRUE FALSE FALSE 16256.16011 14213.36955 14215.59304 14603.19851 13996.96667 13566.40057 13262.63929 13962.38749 13972.78085 13092.23934 1.241663835 1.085633189 1.085803022 1.115408764 1.069104093 1.036216969 1.01301534 1.066462896 1.067256753 1 13.67642426 -5.557787447 2.43199141 1.11238004 1.035821444 0.155920817 0.058601412 0.489541642 5.80367962 0.013382943 0.031540073 2.77E-06 5.557787447 -0.076558596 LNVCVSK ddPTM_HeLa_SAHA_4h_R1 2 LNVCVSK 7 0 B7WPG3;V9GYK2;Q8WVV9-5;Q8WVV9;C9IYN3;Q8WVV9-4;H7C464;P14866;M0QXS5;A0A3B3ITJ4;P14866-2;M0QYT0 B7WPG3;P14866 HNRNPLL;HNRNPL Heterogeneous nuclear ribonucleoprotein L-like;Heterogeneous nuclear ribonucleoprotein L 0 0 ; ; 133.6 0.00042627 26861000 9409.3 8089 7613.7 8341.2 8414.5 8586.6 9801.1 8701.9 7796 7768.7 FALSE FALSE TRUE 10399.01335 8351.088907 8651.255386 8502.655988 7769.782828 7854.973373 8698.254433 8479.317998 7741.747001 8103.646676 1.28325108 1.030534677 1.067575591 1.049238241 0.958800789 0.969313408 1.073375331 1.046358305 0.955341134 1 12.98435556 -7.057764416 24.99990062 1.134975135 1.026783878 0 0.092259989 347.8210032 150533.0212 0.018205095 0.022296633 8.75E-08 7.057764416 -0.108191257 LNVDFALIHK ddPTM_HeLa_SAHA_4h_R1 1 LNVDFALIHK 10 0 B1ALA9;A0A2R8Y7H4;P60891;P60891-2 B1ALA9 PRPS1 Ribose-phosphate pyrophosphokinase 1 0 0 79.82 0.017088 1149800 923.64 968.44 1344.2 1165.8 1283.7 831.87 1400.5 524.35 795.67 1093.2 FALSE FALSE TRUE 1020.792693 999.8180914 1527.380576 1188.365745 1185.343183 760.989996 1242.912054 510.9378862 790.1328677 1140.333202 0.895170544 0.876777147 1.339416035 1.042121498 1.039470903 0.667340032 1.089955157 0.448060168 0.692896485 1 10.15523972 -4.253240802 24.60017507 0.970723963 0.448059842 0.405689215 0.185632709 549.3860036 1648408.375 0.021913955 0.327628488 5.58E-05 4.253240802 -0.52266412 LNYSDES(ph)PEAGK ddPTM_HeLa_SAHA_4h_R1 2 LNYSDESPEAGK 12 0 Q9GZR1;Q9GZR1-2 Q9GZR1 SENP6 Sentrin-specific protease 6 1 0 LNYS(0.001)DES(0.999)PEAGK;LNYS(0.026)DES(0.974)PEAGK ; 130.95 0.0010098 14096900 3899.9 4000.4 3007.3 3843.6 4365.1 5362.3 4255.4 4361.1 5577.1 3907.8 TRUE FALSE FALSE 4310.109375 4130.015585 3417.119183 3917.998436 4030.646981 4905.401873 3776.571192 4249.549377 5538.288507 4076.284382 1.057362287 1.013181417 0.838292637 0.961169062 0.988804166 1.203400306 0.926473925 1.04250562 1.358660973 1 11.99303899 LPAAGVGDMVMATVK ddPTM_HeLa_SAHA_4h_R1 1 LPAAGVGDMVMATVK 15 0 C9JD32;B9ZVP7;J3KT29;P62829 C9JD32 RPL23 60S ribosomal protein L23 0 0 169.23 1.72E-10 359430 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 LPDGYEFK ddPTM_HeLa_SAHA_4h_R1 2 LPDGYEFK 8 0 P09382 P09382 LGALS1 Galectin-1 0 0 ; ; 116.25 0.0048611 8411400 8245.5 8828.9 8481.1 9540.5 10174.4 9730.7 9865 8039.5 8656.6 8458.6 FALSE FALSE TRUE 9112.799522 9114.962153 9636.86014 9725.170173 9394.83967 8901.589617 8754.964237 7833.861231 8596.358016 8823.291641 1.032811777 1.033056882 1.092206915 1.102215655 1.064777189 1.00887401 0.992256019 0.887861532 0.974280163 1 13.10710126 -4.221005022 1.755767486 1.032187 0.829796707 0.592672587 0.037835144 0.613882348 1.710723003 0.005855314 0.213042529 6.01E-05 4.221005022 -0.202390293 LPDLS(ph)PVENK ddPTM_HeLa_SAHA_4h_R1 2 LPDLSPVENK 10 0 E7EPN9;Q9Y520-2;Q9Y520-6;Q9Y520-4;Q9Y520-5;Q9Y520;Q9Y520-7;Q9Y520-3;A0A2R8Y7F4;A0A2R8YET2;H7C5N8 E7EPN9 PRRC2C Protein PRRC2C 1 0 LPDLS(1)PVENK;LPDLS(1)PVENK ; 166.24 0.00014405 48292000 4563.4 6352.4 3844.1 5488.4 6086.5 7224.3 5907.3 5237.1 10745.3 5706 TRUE FALSE FALSE 5043.39935 6558.221928 4367.953929 5594.635918 5620.153685 6608.748997 5242.595057 5103.142565 10670.52258 5952.013584 0.847343387 1.101849288 0.733861552 0.939956846 0.944244096 1.110338359 0.880810331 0.857380867 1.792758439 1 12.5391621 -4.543637509 24.998817 0.938861922 0.863237889 0 0.289708723 436.164818 525252.6163 0.014553361 0.054463443 2.86E-05 4.543637509 -0.075624033 LPDS(ph)DDDEDEETAIQR ddPTM_HeLa_SAHA_4h_R1 4 LPDSDDDEDEETAIQR 16 0 H3BRM1;H3BRF9;Q96K21-3;Q96K21-2;Q96K21;Q96K21-4 H3BRM1 ZFYVE19 Abscission/NoCut checkpoint regulator 1 0 LPDS(1)DDDEDEETAIQR;LPDS(1)DDDEDEETAIQR;LPDS(1)DDDEDEETAIQR;LPDS(1)DDDEDEETAIQR ;;; 241.64 3.18E-36 177942100 1012.99 1234.38 915.99 1232.76 1365 1412.5 1590.182 1480.88 1357.71 1277.82 TRUE FALSE FALSE 1119.540936 1274.374722 1040.816347 1256.621852 1260.413995 1292.147053 1411.250536 1443.001234 1348.261586 1332.913074 0.83992044 0.956082394 0.780858383 0.942763543 0.945608547 0.969415845 1.058771621 1.082592153 1.011515013 1 10.38036698 -4.846580708 1.440582859 0.915404397 1.094672858 0.434936335 0.06559348 0.395828799 1.357027562 0.01077309 0.074548633 1.42E-05 4.846580708 0.179268461 LPDS(ph)PALAK ddPTM_HeLa_SAHA_4h_R1 1 LPDSPALAK 9 0 H0YDB2;E9PNJ4;G0XQ39;Q13586 H0YDB2 STIM1 Stromal interaction molecule 1 1 0 LPDS(1)PALAK 94.465 0.007619 0 716.75 2763.9 984.41 1505.1 1326.2 1347.6 1600.2 1488.5 2323.9 1643.1 TRUE FALSE FALSE 792.1410536 2853.452173 1118.560268 1534.233387 1224.586843 1232.776899 1420.141285 1450.426325 2307.727791 1713.942082 0.462174925 1.66484749 0.65262431 0.89514891 0.714485545 0.719264035 0.82858184 0.846251656 1.346444442 1 10.74310264 -5.748365027 24.6071817 0.818218398 0.776685438 0 0.346937104 2054.065004 3865915.431 0.048443355 0.096393583 1.78E-06 5.748365027 -0.04153296 LPEGPVDS(ph)EDDEEEDEEIDRTDPLQGR ddPTM_HeLa_SAHA_4h_R1 2 LPEGPVDSEDDEEEDEEIDRTDPLQGR 27 1 E9PCH4;Q8TEU7;Q8TEU7-4;B7Z7Y1;Q8TEU7-2;Q8TEU7-5;Q8TEU7-3;D6RD23;D6RIH0;D6RB02;Q8TEU7-6 E9PCH4 RAPGEF6 Rap guanine nucleotide exchange factor 6 1 0 LPEGPVDS(1)EDDEEEDEEIDRTDPLQGR;LPEGPVDS(0.976)EDDEEEDEEIDRT(0.024)DPLQGR ; 112.47 2.53E-07 16391100 238.07 241.7 244.2 244.38 348.28 538.246 291.62 461.5 555.15 251.55 TRUE FALSE FALSE 263.1112949 249.5312386 277.4783043 249.1103283 321.5948616 492.3844127 258.8061501 449.6954982 551.2866659 262.3955516 1.002727727 0.950973586 1.057480977 0.94936948 1.225610952 1.8764968 0.986320647 1.71380763 2.100975656 1 8.035599452 -5.519410465 6.928677702 1.001473508 1.485319136 0.033188332 0.408873947 0.072315813 19.79209088 0.027018673 0.056934071 3.02E-06 5.519410465 0.483845627 LPELDPRGS(ph)DEENLDSETSASTESLLEER ddPTM_HeLa_SAHA_4h_R1 2 LPELDPRGSDEENLDSETSASTESLLEER 29 1 M0R300;M0R0P8;Q13459-2;Q13459;M0R240;M0QXP0 M0R300 MYO9B Unconventional myosin-IXb 1 0 LPELDPRGS(0.773)DEENLDS(0.104)ET(0.05)S(0.025)AS(0.021)T(0.021)ES(0.007)LLEER;LPELDPRGS(0.989)DEENLDS(0.001)ET(0.002)S(0.003)AS(0.003)T(0.001)ES(0.001)LLEER ; 50.802 0.0077401 13984300 2094.16 3047.4 2262.43 3125 3361.9 3198.9 3513 2655.7 3494 3235.9 TRUE FALSE FALSE 2314.433357 3146.137759 2570.742178 3185.488894 3104.311948 2926.335723 3117.707994 2587.771039 3469.68497 3375.415485 0.685673621 0.932074221 0.761607627 0.943732381 0.919682914 0.866955709 0.923651624 0.766652595 1.027928261 1 11.72084938 -6.222421048 24.93851151 0.848982764 0.887350854 0 0.107963978 2247.689162 1436608.024 0.01895994 0.031441118 5.99E-07 6.222421048 0.03836809 LPFAAAQIGNSFR ddPTM_HeLa_SAHA_4h_R1 2 LPFAAAQIGNSFR 13 0 P41250 P41250 GARS Glycine--tRNA ligase 0 0 ; ; 115.57 0.0047481 971420 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 LPGEGNAGLLGLGPEAAAPGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 LPGEGNAGLLGLGPEAAAPGKR 22 1 P25440-2;P25440;A0A0G2JK44;A0A140T9E9;H0Y6K2;E9PIQ3;A0A140T9V2;A0A140T9F7;A0A0G2JHL0;U3KQA6;E9PKQ9;A0A140T9X8;H0Y799 P25440-2 BRD2 Bromodomain-containing protein 2 0 1 ; LPGEGNAGLLGLGPEAAAPGK(1)R;LPGEGNAGLLGLGPEAAAPGK(1)R 241.32 1.39E-65 1480830 0 69.782 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 72.04298259 0 0 0 0 0 0 0 0 0 LPGSGAVQAAS(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 LPGSGAVQAASPER 14 0 Q86U90 Q86U90 YRDC "YrdC domain-containing protein, mitochondrial" 1 0 LPGSGAVQAAS(1)PER 182.7 2.62E-07 29077000 454.87 423.53 414.77 427.08 471.45 404.17 225.55 348.08 417.59 461.67 TRUE FALSE FALSE 502.7153136 437.2526499 471.2926956 435.346751 435.3276029 369.7324422 200.1705204 339.1766176 414.6839572 481.5748531 1.043898597 0.907964042 0.97864889 0.904006404 0.903966642 0.767756954 0.415658166 0.704307161 0.861099691 1 8.911616249 -5.217061947 1.436268717 1.004013566 0.550452705 0.690707314 0.096740762 0.130148385 0.490865224 0.012208608 0.049905645 6.07E-06 5.217061947 -0.45356086 LPLLPPES(ph)PGPLR ddPTM_HeLa_SAHA_4h_R1 3 LPLLPPESPGPLR 13 0 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;A0A0G2JPP5;Q14160-3;A0A669KAX5 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 LPLLPPES(1)PGPLR;LPLLPPES(1)PGPLR;LPLLPPES(1)PGPLR ;; 245.5 6.27E-32 83225000 2693.93 5039.03 3111.25 3319.5 3904.81 3417.5 4548.17 3325.83 3957.46 3285.74 TRUE FALSE FALSE 2977.289918 5202.297878 3535.234947 3383.753723 3605.624301 3126.309774 4036.397941 3240.760084 3929.919714 3427.404331 0.868671925 1.517853564 1.031461306 0.987264237 1.051998525 0.91215085 1.17768362 0.945543557 1.146616895 1 11.74290068 LPLPS(ph)PALEYTLGSR ddPTM_HeLa_SAHA_4h_R1 2 LPLPSPALEYTLGSR 15 0 Q8IU81 Q8IU81 IRF2BP1 Interferon regulatory factor 2-binding protein 1 1 0 LPLPS(0.997)PALEYTLGS(0.002)R;LPLPS(1)PALEYTLGSR ; 130.02 0.00028916 161433000 366.36 633.98 288.679 365.467 517.2 577.07 539.52 391.47 514.99 581.9 TRUE FALSE FALSE 404.8954257 654.521368 328.0186707 372.5411423 477.5722477 527.9003895 478.8117897 381.4567642 511.4061427 606.9885567 0.66705611 1.078309238 0.540403385 0.613753156 0.786789541 0.869704023 0.788831658 0.628441443 0.842530122 1 9.245525508 -9.460659879 0.938333752 1.016772608 0.744565728 0.143549765 0.152126871 0.667695058 0.940220562 0.135025118 0.026043778 3.46E-10 9.460659879 -0.27220688 LPLQES(ph)EEEEREER ddPTM_HeLa_SAHA_4h_R1 2 LPLQESEEEEREER 14 1 P23497;P23497-2;P23497-3;P23497-4;E9PHV6;P23497-7;P23497-6;P23497-5;C9JBL0 P23497 SP100 Nuclear autoantigen Sp-100 1 0 LPLQES(1)EEEEREER;LPLQES(1)EEEEREER ; 97.579 0.0034554 16739300 1184.92 1645.43 1144.48 1300.5 1531.38 1938.92 1331.82 1320.22 2475.8 1320.13 TRUE FALSE FALSE 1309.555322 1698.743012 1300.443774 1325.673058 1414.045995 1773.713108 1181.960108 1286.450684 2458.570706 1377.047265 0.950987926 1.233612712 0.944371197 0.962692488 1.026868163 1.288055358 0.858329368 0.934209534 1.785393115 1 10.42736236 LPLQLDDAVRPEAEGEEEGR ddPTM_HeLa_SAHA_4h_R1 1 LPLQLDDAVRPEAEGEEEGR 20 1 P14868-2;P14868;C9J7S3;C9JLC1 P14868-2 DARS "Aspartate--tRNA ligase, cytoplasmic" 0 0 148.36 5.69E-05 7839100 560.78 583.94 469.45 361.1 327.97 633.79 540.06 642.53 601.34 588.58 FALSE FALSE TRUE 619.7654134 602.8600391 533.4242012 368.0896127 302.8410095 579.7875264 479.2910274 626.095013 597.155226 613.9565642 1.009461336 0.981926205 0.86883052 0.599536896 0.493261294 0.944346164 0.780659505 1.019770859 0.972634321 1 9.261992782 -6.619597147 3.607144285 1.003060863 0.760685263 0.351005881 0.141920269 0.183480163 4.670053304 0.022798624 0.032937575 2.40E-07 6.619597147 -0.242375599 LPLS(ph)PPLVEDSAFEPSR ddPTM_HeLa_SAHA_4h_R1 4 LPLSPPLVEDSAFEPSR 17 0 O96007 O96007 MOCS2 Molybdopterin synthase catalytic subunit 1 0 LPLS(1)PPLVEDSAFEPSR;LPLS(1)PPLVEDSAFEPSR;LPLS(0.722)PPLVEDS(0.277)AFEPS(0.001)R;LPLS(0.995)PPLVEDS(0.005)AFEPSR ;;; 114.54 0.0010474 13766800 1228.09 1961.81 1052.98 1625.001 1930.41 2343.3 1694.31 1347.23 2870.58 1780.91 TRUE FALSE FALSE 1357.266141 2025.373931 1196.474631 1656.455244 1782.502403 2143.637657 1503.66178 1312.769807 2850.6034 1857.693746 0.730618889 1.090262556 0.64406452 0.89167294 0.95952436 1.15392414 0.809423934 0.70666643 1.534485115 1 10.85929697 -2.8541608 15.34019968 0.88229108 0.732803998 0 0.260425054 0 0 0.021705608 0 0.001399069 2.8541608 -0.149487082 LPLVPES(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 LPLVPESPR 9 0 C9J0I9;Q86WB0-2;Q86WB0;Q86WB0-3 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 LPLVPES(1)PR;LPLVPES(1)PR;LPLVPES(1)PR;LPLVPES(1)PR ;;; 149.94 0.00043603 54921000 2369.41 2447.59 2300.91 2662.34 2760.7 2952.98 2975.16 2576.12 2603.95 2124.72 TRUE FALSE FALSE 2618.635415 2526.893522 2614.466032 2713.873441 2549.175762 2701.369491 2640.387167 2510.226581 2585.8289 2216.327077 1.181520292 1.14012663 1.179639079 1.224491398 1.150180309 1.218849654 1.191334616 1.132606557 1.166718092 1 11.11395509 -9.273854882 0.566785514 0.967769824 1.184060168 0.035116439 0.059197547 0.350227688 0.158184483 0.040534474 0.006630621 5.32E-10 9.273854882 0.216290344 LPLVPES(ph)PRR ddPTM_HeLa_SAHA_4h_R1 2 LPLVPESPRR 10 1 C9J0I9;Q86WB0-2;Q86WB0;Q86WB0-3 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 LPLVPES(1)PRR;LPLVPES(1)PRR ; 99.732 0.0055837 82436000 2877.58 3223.1 2480.74 3073.99 3095.32 3533.7 3633.26 2795.34 3225.5 3437.1 TRUE FALSE FALSE 3180.257067 3327.530555 2818.802328 3133.491522 2858.15725 3232.60888 3224.436023 2723.83925 3203.053483 3585.290202 0.887029191 0.928106337 0.786213157 0.873985464 0.797189931 0.901631025 0.899351473 0.759726297 0.893387509 1 11.80787418 -8.812529046 0.353322563 1.037407047 0.83552543 0.247213113 0.059735878 1.160421356 0.247581594 0.092973046 0.023293955 1.54E-09 8.812529046 -0.201881616 LPNLTHLNLSGNK ddPTM_HeLa_SAHA_4h_R1 1 LPNLTHLNLSGNK 13 0 Q92688-2;Q92688 Q92688-2 ANP32B Acidic leucine-rich nuclear phosphoprotein 32 family member B 0 0 95.183 0.0070673 815620 666.12 633.4 672.48 877.78 1173.8 653.77 958.9 434.98 472.91 752.2 FALSE FALSE TRUE 736.1855579 653.9225756 764.1220723 894.7707012 1083.863698 598.065118 851.0020483 423.8538414 469.6189808 784.6310232 0.93825701 0.833414122 0.973861662 1.140371302 1.381367376 0.762224664 1.084588836 0.540195109 0.598522066 1 9.615870568 -4.254096129 24.65436105 0.991789154 0.54019485 0.276370064 0.204488547 552.369925 1854480.671 0.021694875 0.297779225 5.57E-05 4.254096129 -0.451594303 LPNS(ph)IASR ddPTM_HeLa_SAHA_4h_R1 2 LPNSIASR 8 0 Q9ULT0;Q9ULT0-4;H7C055;G5E9G4 Q9ULT0 TTC7A Tetratricopeptide repeat protein 7A 1 0 LPNS(0.936)IAS(0.064)R;LPNS(0.999)IAS(0.001)R ; 113.38 0.0053041 14148100 2016.65 1972.75 1643.73 1771.73 2109.5 1997.56 2320.1 2838.6 1881.22 1680.01 TRUE FALSE FALSE 2228.7705 2036.668394 1867.728964 1806.024396 1947.870566 1827.35665 2059.036242 2765.992722 1868.128437 1752.443453 1.27180737 1.162187796 1.065785581 1.030574991 1.111516929 1.042747854 1.174951602 1.578363466 1.066013533 1 10.77515218 -4.270611311 3.78968307 1.115820594 1.621363086 0.78056414 0.075967299 0.122330201 3.382133365 0.014801637 0.169666316 5.36E-05 4.270611311 0.505542492 LPPGLSAS(ph)PQPSSVAPR ddPTM_HeLa_SAHA_4h_R1 1 LPPGLSASPQPSSVAPR 17 0 P52945 P52945 PDX1 Pancreas/duodenum homeobox protein 1 1 0 LPPGLS(0.434)AS(0.559)PQPS(0.004)S(0.004)VAPR 81.606 0.008918 2862600 779.49 896.69 1015.4 1306.6 1290.2 1482.2 1383.2 1469 1175.6 1338.2 TRUE FALSE FALSE 861.4803346 925.7433443 1153.773424 1331.891132 1191.345155 1355.908221 1227.558696 1431.425107 1167.418904 1395.896351 0.617152079 0.663189171 0.826546629 0.954147585 0.853462475 0.971353081 0.879405333 1.025452288 0.836322054 1 10.44697611 -6.345933203 5.239353007 0.800171821 0.930696491 0.324040202 0.106556671 0.355119485 16.51292492 0.024323477 0.037514624 4.51E-07 6.345933203 0.13052467 LPPQSSGVDTSPCPNS(ph)PVFR ddPTM_HeLa_SAHA_4h_R1 3 LPPQSSGVDTSPCPNSPVFR 20 0 O75815;O75815-2;O75815-3 O75815 BCAR3 Breast cancer anti-estrogen resistance protein 3 1 0 LPPQSSGVDT(0.121)S(0.121)PCPNS(0.759)PVFR;LPPQSS(0.001)GVDT(0.045)S(0.008)PCPNS(0.945)PVFR;LPPQSSGVDT(0.225)S(0.225)PCPNS(0.55)PVFR ;; 114.55 0.000105 11178400 414.44 749.855 493.837 626.104 777.343 920.7 664.29 761.26 716.62 746.304 TRUE FALSE FALSE 458.0327007 774.150794 561.1345346 638.2231483 717.7831473 842.2511803 589.5423409 741.7880715 711.6329831 778.4808178 0.588367356 0.994437854 0.720807144 0.819831566 0.922030615 1.081916421 0.757298481 0.952866217 0.914130402 1 9.604517681 -5.767315475 6.038685486 0.810440053 0.927787451 0.068035502 0.138336954 0.307285971 41.38687008 0.025453129 0.048630543 1.71E-06 5.767315475 0.117347398 LPPSGSKPVAASTCSGK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 LPPSGSKPVAASTCSGKK 18 2 O43663-3;O43663-2;O43663-4;O43663;G3V3N7;H3BSJ8;H0YNE4 O43663-3 PRC1 Protein regulator of cytokinesis 1 0 1 LPPSGSKPVAASTCSGK(1)K 58.658 0.02147 2606400 578.85 855.39 880.75 1126 1265.2 1870.2 1335.2 1328.6 829.92 810.51 FALSE TRUE FALSE 639.7360989 883.1051972 1000.774023 1147.795358 1168.260649 1710.848439 1184.959782 1294.616336 824.1445191 845.4550526 0.756676652 1.044532402 1.1837105 1.357606599 1.381812842 2.023582961 1.401564493 1.531265715 0.974794008 1 9.723584248 -6.287360063 1.201806388 0.887558075 1.614300892 0.73206882 0.175935049 0.162430151 0.463095812 0.031364984 0.061186863 5.16E-07 6.287360063 0.726742816 LPPVLVLHLK ddPTM_HeLa_SAHA_4h_R1 1 LPPVLVLHLK 10 0 Q14694;Q14694-3;Q14694-2;H3BQP1 Q14694 USP10 Ubiquitin carboxyl-terminal hydrolase 10 0 0 88.37 0.0073013 0 189.63 354.89 338.7 261.64 354.97 119.41 317.2 0 105.8 116.22 FALSE FALSE TRUE 209.5761535 366.3886689 384.8562721 266.7044205 327.7722753 109.2355962 281.5078212 0 105.0637292 121.230813 1.728736683 3.022240467 3.174574703 2.199972218 2.703704341 0.90105472 2.322081444 0 0.866642124 1 6.921612622 -4.248941401 23.4949306 1.75149483 1.07E-06 0.299267943 0.845271001 968.9390816 1821429.043 0.128209207 2.806125764 5.64E-05 4.248941401 -1.751493756 LPQLPITNFSR ddPTM_HeLa_SAHA_4h_R1 2 LPQLPITNFSR 11 0 P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98 P21333-2 FLNA Filamin-A 0 0 ; ; 140.78 0.00013705 2998000 970.95 1583.93 927.1 963.54 1309.85 1361.65 1450.82 1082.75 961.37 773.75 FALSE FALSE TRUE 1073.078976 1635.250371 1053.44036 982.19071 1209.489576 1245.62976 1287.569915 1055.054823 954.6797479 807.1101491 1.329532254 2.026056014 1.305200239 1.21692276 1.498543386 1.543320649 1.59528401 1.30720054 1.182837001 1 9.656621766 -8.306197204 1.031736726 1.052326698 1.485337007 0.322058651 0.221481338 0.328971293 0.726032596 0.068539012 0.045763875 4.94E-09 8.306197204 0.433010308 LPQTS(ph)DDEKKDF ddPTM_HeLa_SAHA_4h_R1 1 LPQTSDDEKKDF 12 2 Q9GZT3-2;Q9GZT3 Q9GZT3-2 SLIRP "SRA stem-loop-interacting RNA-binding protein, mitochondrial" 1 0 LPQT(0.026)S(0.974)DDEKKDF 123.28 0.0065482 19999000 2374.4 2038.3 1795.6 1438.6 2045.2 1955.7 2347.8 2003.3 2242.9 2017.5 TRUE FALSE FALSE 2624.150286 2104.342257 2040.295017 1466.446183 1888.497218 1789.063358 2083.619365 1952.058487 2227.291476 2104.484298 1.246932699 0.999932506 0.969498807 0.696819731 0.897368167 0.850119604 0.990085489 0.927570944 1.058354998 1 11.03925103 -6.827981916 2.720110056 1.116098523 0.878801975 0.501048998 0.095390989 0.177788875 2.68945922 0.019365017 0.0266334 1.49E-07 6.827981916 -0.237296548 LPS(ph)DSER ddPTM_HeLa_SAHA_4h_R1 1 LPSDSER 7 0 Q96T58;A0A669KB49 Q96T58 SPEN Msx2-interacting protein 1 0 LPS(0.994)DS(0.006)ER 123.21 0.0030445 5938700 1062.5 1430.9 1004.8 1328.6 1502.5 1598.3 1573.1 1393.9 1943 1311.4 TRUE FALSE FALSE 1174.258625 1477.262099 1141.728911 1354.316974 1387.378775 1462.115848 1396.090648 1358.246056 1929.478505 1367.940872 0.85841329 1.079916632 0.834633232 0.99004058 1.014209607 1.068844333 1.020578211 0.99291284 1.410498469 1 10.41779016 -6.009401934 20.68143852 0.936949557 1.023956946 0 0.163824641 51.21258184 112657.6656 0.010870399 0.018915539 9.79E-07 6.009401934 0.087007388 LPS(ph)GSGAAS(ph)PTGSAVDIR ddPTM_HeLa_SAHA_4h_R1 2 LPSGSGAASPTGSAVDIR 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 2 0 LPS(0.989)GS(0.011)GAAS(0.826)PT(0.14)GS(0.034)AVDIR;LPS(0.774)GS(0.226)GAAS(0.971)PT(0.006)GS(0.022)AVDIR ; 124.98 0.003679 21136000 1183.82 2540 1837.88 1243.46 1918.99 2844.5 2495.33 1770.11 1567.13 2013.78 TRUE FALSE FALSE 1308.339619 2622.297667 2088.336715 1267.528966 1771.957401 2602.132597 2214.548901 1724.833149 1556.224215 2100.603911 0.622839752 1.248354177 0.994160158 0.603411695 0.843546654 1.238754524 1.05424392 0.821112986 0.7408461 1 11.03658844 -5.380270531 22.48939095 0.848562219 1.03997317 0.128763557 0.203534215 12.96467835 2406.167124 0.032154702 0.07190013 4.17E-06 5.380270531 0.19141095 LPS(ph)GSGAASPTGSAVDIR ddPTM_HeLa_SAHA_4h_R1 5 LPSGSGAASPTGSAVDIR 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 LPS(0.939)GS(0.06)GAASPTGSAVDIR;LPS(0.998)GS(0.001)GAASPTGSAVDIR;LPS(0.983)GS(0.017)GAASPTGSAVDIR;LPS(0.798)GS(0.087)GAAS(0.115)PTGSAVDIR;LPS(0.998)GS(0.002)GAASPTGSAVDIR ;;;; 250.38 2.43E-38 547854000 788.58 1391.239 1126.064 733.43 1218.765 1870.3 1212.969 936.7 1393.22 1506.217 TRUE FALSE FALSE 871.5264625 1436.316056 1279.518138 747.6265982 1125.383489 1710.939918 1076.482536 912.7405703 1383.524469 1571.157386 0.554703475 0.91417707 0.814379354 0.475844498 0.716276739 1.088967874 0.685152579 0.580935162 0.880576625 1 10.61761199 -9.576058628 1.353581353 1.000219347 0.715045977 0.178499241 0.173947576 0.484436382 1.589305385 0.125716943 0.029298326 2.65E-10 9.576058628 -0.28517337 LPS(ph)PGLHGQR ddPTM_HeLa_SAHA_4h_R1 2 LPSPGLHGQR 10 0 P10070;P10070-4;P10070-3;P10070-2;P10070-1 P10070 GLI2 Zinc finger protein GLI2 1 0 LPS(1)PGLHGQR;LPS(1)PGLHGQR ; 111.79 0.0017625 4495700 2227.57 2598 2393.7 2133.51 2665.8 2899 2577.7 2149.8 2801.3 2303.7 TRUE FALSE FALSE 2461.876033 2682.176905 2719.90097 2174.807171 2461.54698 2651.988891 2287.650412 2094.811229 2781.805525 2403.023781 1.024490915 1.116167441 1.131866023 0.9050294 1.024353982 1.10360493 0.951988253 0.8717397 1.157627131 1 11.23063521 -4.528192812 6.010287579 1.026290156 0.889205369 0.332552659 0.076291017 0.109118854 15.77111834 0.008922141 0.038859131 2.96E-05 4.528192812 -0.137084786 LPSANQGS(ph)PFK ddPTM_HeLa_SAHA_4h_R1 2 LPSANQGSPFK 11 0 Q56NI9;E5RFP7;E5RIE3;E5RFE4 Q56NI9 ESCO2 N-acetyltransferase ESCO2 1 0 LPSANQGS(1)PFK;LPSANQGS(1)PFK ; 147.52 0.00061799 31340000 2866.8 3341.2 2674.5 4160.7 4187.3 4920.3 4270.4 3454.8 4666.7 3293.5 TRUE FALSE FALSE 3168.343177 3449.457072 3038.966932 4241.236365 3866.469979 4501.062759 3789.883353 3366.431218 4634.224055 3435.498903 0.922236702 1.004062924 0.884578053 1.234532883 1.125446431 1.31016277 1.103153708 0.979895879 1.348923165 1 11.74630391 -6.261967462 24.99999725 0.96068742 1.155463219 0.041124796 0.150356298 27.96371484 1323847.113 0.01315451 0.02086485 5.47E-07 6.261967462 0.194775799 LPSGSGAAS(ph)PTGSAVDIR ddPTM_HeLa_SAHA_4h_R1 5 LPSGSGAASPTGSAVDIR 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 LPSGS(0.001)GAAS(0.757)PT(0.059)GS(0.184)AVDIR;LPSGSGAAS(0.99)PT(0.01)GS(0.001)AVDIR;LPSGSGAAS(0.766)PT(0.23)GS(0.004)AVDIR;LPSGS(0.002)GAAS(0.768)PT(0.227)GS(0.004)AVDIR;LPSGSGAAS(0.945)PT(0.055)GSAVDIR ;;;; 241.98 1.82E-37 3153827400 2601.18 2689.414 2059.2 2523.78 2918.95 3086.24 3154.92 2480.16 3095.97 2505.32 TRUE FALSE FALSE 2874.784047 2776.552778 2339.817052 2572.631411 2695.300682 2823.274989 2799.920098 2416.721098 3074.424893 2613.336606 1.100043538 1.06245509 0.895337037 0.984424052 1.031363765 1.080333464 1.071396655 0.924764568 1.176436623 1 11.35167724 LPSPEPSMS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 LPSPEPSMSPK 11 0 O43303-2;O43303 O43303-2 CCP110 Centriolar coiled-coil protein of 110 kDa 1 0 LPS(0.003)PEPS(0.073)MS(0.924)PK;LPSPEPS(0.06)MS(0.94)PK;LPSPEPS(0.022)MS(0.978)PK;LPSPEPS(0.029)MS(0.971)PK ;;; 99.161 0.0087958 24954500 4367.09 4382.2 4645.99 8129.8 6412.4 5987.8 5491.17 7943.84 6062.86 5667.8 TRUE FALSE FALSE 4826.440563 4524.186155 5279.121322 8287.164035 5921.083297 5477.605754 4873.2891 7740.648075 6020.668064 5912.166596 0.816357335 0.765233199 0.892924994 1.401713551 1.001508195 0.926497193 0.824281424 1.30927435 1.018352235 1 12.52947121 LPSRPPLPGSGGSQSGAK(ac)MR ddPTM_HeLa_SAHA_4h_R1 2 LPSRPPLPGSGGSQSGAKMR 20 2 Q9Y570;Q9Y570-4 Q9Y570 PPME1 Protein phosphatase methylesterase 1 0 1 ; LPSRPPLPGSGGSQSGAK(1)MR;LPSRPPLPGSGGSQSGAK(1)MR 137.27 3.34E-08 5316700 367.54 57.323 270.83 549.93 556.28 757.15 709.04 1078.53 348.62 201.87 FALSE TRUE FALSE 406.1995435 59.18030281 307.737302 560.5746904 513.6579466 692.6365604 629.2569531 1050.942764 346.193925 210.5736036 1.929014542 0.281043311 1.461423923 2.662131819 2.439327331 3.289284832 2.988299304 4.990857098 1.644051862 1 7.718180789 -1 0.329810712 1.236496507 38.41671582 0.791443861 0.575327378 17.55528632 0.222866037 0.193053279 403.2636536 0.1 1 37.18021931 LPSS(ph)PLGCR ddPTM_HeLa_SAHA_4h_R1 3 LPSSPLGCR 9 0 C9JWC4;Q8NCD3-3;Q8NCD3-2;Q8NCD3 C9JWC4 HJURP Holliday junction recognition protein 1 0 LPS(0.035)S(0.965)PLGCR;LPS(0.305)S(0.695)PLGCR;LPS(0.052)S(0.948)PLGCR ;; 121.61 0.0033902 36933700 4580.2 5060.2 3743.1 4654.1 5143.9 5159.7 4790.7 4375.5 6517.3 5139.4 TRUE FALSE FALSE 5061.966451 5224.1538 4253.190175 4744.186835 4749.775493 4720.064532 4251.637828 4263.581046 6471.945579 5360.984686 0.944223263 0.974476539 0.793359881 0.884946911 0.885989379 0.880447308 0.793070318 0.795298121 1.207230753 1 12.3882823 -2.96553456 0.13629637 1.05278341 0.439185006 0.579150884 0.077830564 17.06446077 0.261347526 0.150251031 1.917013536 0.001082594 2.96553456 -0.613598403 LPSS(ph)PVYEDAASFK ddPTM_HeLa_SAHA_4h_R1 6 LPSSPVYEDAASFK 14 0 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 1 0 LPS(0.272)S(0.728)PVYEDAASFK;LPS(0.101)S(0.896)PVY(0.003)EDAASFK;LPS(0.019)S(0.981)PVYEDAASFK;LPS(0.01)S(0.99)PVYEDAASFK;LPS(0.002)S(0.998)PVYEDAASFK;LPS(0.308)S(0.692)PVYEDAASFK ;;;;; 199.38 6.15E-12 1026000700 11870.31 15854.28 11964.61 13277.71 15686.54 19507.84 16047.11 14017.81 20375.17 13377.07 TRUE FALSE FALSE 13118.88367 16367.96907 13595.08474 13534.71928 14484.64069 17845.66228 14241.44695 13659.25472 20233.37753 13953.82095 0.940164254 1.173009825 0.974291184 0.969965096 1.038041175 1.278908648 1.020612705 0.978889923 1.450024162 1 13.76837261 -6.69122446 0.766939861 0.975212463 1.074744485 0 0.17916013 0.932174946 1.104545477 0.022084767 0.038356842 2.04E-07 6.69122446 0.099532022 LPSSPASPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 LPSSPASPSPK 11 0 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0;Q9H4G0-4;H7C2K6;X6RC15 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 LPS(0.001)S(0.016)PAS(0.202)PS(0.782)PK 164.22 0.00016476 6266700 1574.1 1513.5 1257.5 1207.8 1600.8 1837.4 1471.2 1277.4 2266 1452.7 TRUE FALSE FALSE 1739.67106 1562.538393 1428.865551 1231.178716 1478.14705 1680.843183 1305.656704 1244.725958 2250.230722 1515.333006 1.148045382 1.031151824 0.942938315 0.81248063 0.975460208 1.109223633 0.861630215 0.821420739 1.4849744 1 10.56541916 -6.810410162 3.757615929 1.070534519 0.922981291 0.307670152 0.157118478 0.199077536 5.809944936 0.015977677 0.021740725 1.55E-07 6.810410162 -0.147553229 LPSSSGLPAADVSPATAEEPLS(ph)PSTPTR ddPTM_HeLa_SAHA_4h_R1 1 LPSSSGLPAADVSPATAEEPLSPSTPTR 28 0 O43149 O43149 ZZEF1 Zinc finger ZZ-type and EF-hand domain-containing protein 1 1 0 LPSSSGLPAADVSPATAEEPLS(0.778)PS(0.11)T(0.041)PT(0.071)R 130.58 2.00E-10 4932800 1479.6 1916.8 1476.9 1754 2075.6 2894.8 2317.4 2103 1605.2 1776.8 TRUE FALSE FALSE 1635.231117 1978.905578 1678.164241 1787.951206 1916.567976 2648.146754 2056.640053 2049.208305 1594.029283 1853.406543 0.882284096 1.067712631 0.905448536 0.964683767 1.034078564 1.428799722 1.109654037 1.105644259 0.860053769 1 10.85596365 -5.503833347 17.58773769 0.953330807 1.208737243 0.588220775 0.100151984 8.506555618 7854.387287 0.013668053 0.029864974 3.13E-06 5.503833347 0.255406435 LPSTSDDCPAIGT(ph)PLR ddPTM_HeLa_SAHA_4h_R1 4 LPSTSDDCPAIGTPLR 16 0 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 1 0 LPSTSDDCPAIGT(1)PLR;LPSTSDDCPAIGT(1)PLR;LPSTSDDCPAIGT(1)PLR;LPSTSDDCPAIGT(1)PLR ;;; 139.08 6.12E-08 12364500 720.42 1041.18 834.7 826.05 1058.72 1294.01 1110.17 910.727 1366.94 920.03 TRUE FALSE FALSE 796.197081 1074.914915 948.4485691 842.0393922 977.6011023 1183.753068 985.2507498 887.4319221 1357.427353 959.6969958 0.829633816 1.120056559 0.988279189 0.877401301 1.018655999 1.233465431 1.026626898 0.924700115 1.414433263 1 9.906435167 -5.534862175 16.83541757 0.937899244 1.069426358 0 0.1821341 5.174918329 7269.890644 0.016308679 0.032722964 2.92E-06 5.534862175 0.131527114 LPTEMEGK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 LPTEMEGKK 9 1 Q9NWX6 Q9NWX6 THG1L Probable tRNA(His) guanylyltransferase 0 1 LPTEMEGK(1)K 119.75 9.52E-05 0 1630.2 2407.7 2046.7 2164.8 2545 2903.4 2372.9 1975.9 2158.6 1603.1 FALSE TRUE FALSE 1801.671916 2485.71106 2325.613617 2206.702834 2350.00265 2656.013986 2105.895047 1925.359339 2143.578127 1672.217486 1.077414828 1.48647594 1.390736334 1.319626695 1.405321179 1.58831851 1.259342797 1.151380939 1.281877593 1 10.70754678 -7.35556326 5.450195242 1.034090308 1.375175332 0.372120622 0.137489966 0.10106157 4.630672967 0.020017083 0.022808333 4.41E-08 7.35556326 0.341085024 LPVDLAEELGHR ddPTM_HeLa_SAHA_4h_R1 3 LPVDLAEELGHR 12 0 P42771-2;P42771;K7ES20;K7ENC6;J3QRG6;P42771-4 P42771-2 CDKN2A Cyclin-dependent kinase inhibitor 2A 0 0 ;; ;; 150.51 0.00039375 7689190 4068.46 4999.07 4784.28 5350.94 5857.74 6160.04 5778.57 4256.03 6603.9 5512.89 FALSE FALSE TRUE 4496.39929 5161.043148 5436.256763 5454.515181 5408.921227 5635.169937 5128.350095 4147.166915 6557.942922 5750.577667 0.781903932 0.897482557 0.945340986 0.948516044 0.940587457 0.979931107 0.89179738 0.721173968 1.140397244 1 12.48949117 -9.695494349 1.588936166 0.999779132 0.878380113 0.337574215 0.089205489 0.485259124 2.215231396 0.060785841 0.013556481 2.02E-10 9.695494349 -0.121399019 LQAALDDEEAGGRPAMEPGNGS(ph)LDLGGDSAGR ddPTM_HeLa_SAHA_4h_R1 9 LQAALDDEEAGGRPAMEPGNGSLDLGGDSAGR 32 1 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 1 0 LQAALDDEEAGGRPAMEPGNGS(0.999)LDLGGDS(0.001)AGR;LQAALDDEEAGGRPAMEPGNGS(1)LDLGGDSAGR;LQAALDDEEAGGRPAMEPGNGS(0.999)LDLGGDS(0.001)AGR;LQAALDDEEAGGRPAMEPGNGS(0.999)LDLGGDS(0.001)AGR;LQAALDDEEAGGRPAMEPGNGS(1)LDLGGDSAGR;LQAALDDEEAGGRPAMEPGNGS(0.998)LDLGGDS(0.002)AGR;LQAALDDEEAGGRPAMEPGNGS(1)LDLGGDSAGR;LQAALDDEEAGGRPAMEPGNGS(0.998)LDLGGDS(0.002)AGR;LQAALDDEEAGGRPAMEPGNGS(1)LDLGGDSAGR ;;;;;;;; 110.42 3.49E-10 652399200 8211.4 7529.62 8303.51 8422.94 8354.85 9813.43 10230.39 9273.1 9632.06 8821.47 TRUE FALSE FALSE 9075.112727 7773.584628 9435.0691 8585.978183 7714.703198 8977.270555 9079.239592 9035.907529 9565.02971 9201.806743 0.986231615 0.844788947 1.025349626 0.933075256 0.838390048 0.975598685 0.986680099 0.981971017 1.039473005 1 13.16770144 -7.492057488 24.96187812 0.993925751 0.940988405 0.21003799 0.058341082 501.3309543 406027.9023 0.009598504 0.010484228 3.22E-08 7.492057488 -0.052937346 LQAALDDEEAGGRPAMEPGNGSLDLGGDSAGR ddPTM_HeLa_SAHA_4h_R1 2 LQAALDDEEAGGRPAMEPGNGSLDLGGDSAGR 32 1 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 0 ; ; 200.97 3.07E-29 17697000 748.63 821.3 907.96 988.22 679 872.92 974.81 814.05 718.69 908.35 FALSE FALSE TRUE 827.3743382 847.9106589 1031.69206 1007.348427 626.9751667 798.5423051 865.1218132 793.2277797 713.6885778 947.5134139 0.873205937 0.894879847 1.088841641 1.063149516 0.661705848 0.842776781 0.913044397 0.837167863 0.753222664 1 9.888002557 -5.776208162 24.99996443 0.955042516 0.822850363 0.258250366 0.108334294 222.079554 375926.7457 0.01436807 0.026124113 1.67E-06 5.776208162 -0.132192153 LQADPKPIS(ph)PQQK ddPTM_HeLa_SAHA_4h_R1 2 LQADPKPISPQQK 13 1 H7C1N2;J3KR05;O75128-2;O75128-6;O75128-3;O75128;O75128-7 H7C1N2;O75128-3 COBL Protein cordon-bleu 1 0 LQADPKPIS(1)PQQK;LQADPKPIS(1)PQQK ; 111.64 0.0013651 25155000 5630.8 4331.8 4389.2 4581 5312.4 6262.2 5891.2 5146.9 4866 4686.1 TRUE FALSE FALSE 6223.073379 4472.153162 4987.337318 4669.671879 4905.36506 5728.62533 5228.306671 5015.249751 4832.13711 4888.140704 1.273096205 0.914898615 1.020293322 0.955306355 1.003523703 1.171943624 1.069590052 1.026003557 0.988542966 1 12.2550701 -7.250159468 24.96317826 1.1289621 1.027128267 0.032434461 0.09912464 1089.235629 2410550.96 0.019855631 0.024196779 5.62E-08 7.250159468 -0.101833832 LQAEK(ac)SRPVMQA ddPTM_HeLa_SAHA_4h_R1 1 LQAEKSRPVMQA 12 2 A0A075B6F9;Q9Y314 A0A075B6F9 NOSIP Nitric oxide synthase-interacting protein 0 1 LQAEK(1)SRPVMQA 125.74 0.0039804 1514300 232.61 86.074 0 172.32 0 234.1 140.67 0 0 163.69 FALSE TRUE FALSE 257.0769871 88.86285408 0 175.6555028 0 214.153363 124.8414414 0 0 170.747477 1.505597574 0.520434361 0 1.028744353 0 1.254210995 0.731146624 0 0 1 7.415720451 -7.247458073 24.02709163 1.238754404 0.523758051 0 0.57595857 358.8000843 616603.5214 0.069778145 0.085201894 5.66E-08 7.247458073 -0.714996354 LQAFSAAIESCNK ddPTM_HeLa_SAHA_4h_R1 1 LQAFSAAIESCNK 13 0 Q02790 Q02790 FKBP4 "Peptidyl-prolyl cis-trans isomerase FKBP4;Peptidyl-prolyl cis-trans isomerase FKBP4, N-terminally processed" 0 0 190.66 1.97E-16 834880 341.27 448.44 652.96 543.39 637.82 513.52 519.54 387.75 610.68 393.01 FALSE FALSE TRUE 377.1663444 462.9697502 741.9419883 553.9080992 588.9503694 469.765207 461.0799918 377.8319165 606.4302282 409.9545844 0.920019823 1.129319607 1.809815078 1.35114503 1.43662345 1.145895728 1.12470993 0.92164335 1.479261975 1 8.679320284 -6.998591143 24.99510678 0.965517782 1.306958588 0 0.273211622 41.16075431 730229.728 0.036689208 0.048015325 1.00E-07 6.998591143 0.341440806 LQALAEEPSQPHT(ph)RSPAK ddPTM_HeLa_SAHA_4h_R1 1 LQALAEEPSQPHTRSPAK 18 1 Q5VV41 Q5VV41 ARHGEF16 Rho guanine nucleotide exchange factor 16 1 0 LQALAEEPS(0.003)QPHT(0.862)RS(0.135)PAK 73.279 0.0045625 9742300 6570 5180.1 4931.8 5703.9 5368.2 5398.1 5573.7 6264.2 4537 5886.8 TRUE FALSE FALSE 7261.062744 5347.938639 5603.88002 5814.307232 4956.889676 4938.151511 4946.532607 6103.970834 4505.426648 6140.608757 1.182466272 0.870913431 0.912593562 0.946861698 0.807230988 0.804179472 0.805544336 0.994033503 0.733710097 1 12.58416597 -7.244545301 24.38969895 1.086164627 0.873095406 0 0.13274245 320.0451016 462044.0705 0.014761908 0.018052664 5.69E-08 7.244545301 -0.21306922 LQALAEEPSQPHTRS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 1 LQALAEEPSQPHTRSPAK 18 1 Q5VV41 Q5VV41 ARHGEF16 Rho guanine nucleotide exchange factor 16 1 0 LQALAEEPS(0.012)QPHT(0.164)RS(0.824)PAK 69.485 0.0056803 7836200 4882.3 3819.4 4314.3 3937.7 4633.5 4265.3 3872.9 4746 3525.6 4529.3 TRUE FALSE FALSE 5395.842715 3943.151066 4902.230336 4013.919878 4278.482231 3901.872444 3437.111099 4624.604192 3501.065063 4724.580289 1.142078742 0.834603462 1.037601234 0.849582319 0.905579325 0.82586647 0.727495542 0.978839158 0.741031975 1 12.20597046 -6.617759306 1.082315241 1.062273977 0.845023523 0 0.137938585 0.302854092 0.709801873 0.018056708 0.030072608 2.41E-07 6.617759306 -0.217250455 LQALK(ac)DTANR ddPTM_HeLa_SAHA_4h_R1 2 LQALKDTANR 10 1 P29401;P29401-2;E9PFF2;F8WAX4;F8W888 P29401 TKT Transketolase 0 1 ; LQALK(1)DTANR;LQALK(1)DTANR 174.98 1.03E-11 5519100 1308.33 2393.87 1810.57 1538.15 2369.53 2067.42 2813 1933.14 1182.06 925.74 FALSE TRUE FALSE 1445.946152 2471.432959 2057.305051 1567.923117 2187.977123 1891.264185 2496.473837 1883.693078 1173.833948 965.6531819 1.497376262 2.559338078 2.130480269 1.623691763 2.265800149 1.958533582 2.585269622 1.950693182 1.21558544 1 9.915361322 -7.566110784 2.286478752 1.18208466 2.14410866 0.675080422 0.291187663 0.118493337 1.266582861 0.057366572 0.060886946 2.72E-08 7.566110784 0.962024 LQANGPVAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 LQANGPVAKK 10 1 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9;S4R3C2 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 ; LQANGPVAK(1)K;LQANGPVAK(1)K 147.51 1.66E-05 6719200 3287.8 3202.1 2924.9 3865.1 4596.2 5141.1 4939.7 5269 2731 3096.6 FALSE TRUE FALSE 3633.625889 3305.850141 3323.49014 3939.9146 4244.040149 4703.049357 4383.871955 5134.226609 2711.994749 3230.10958 1.124923412 1.023448294 1.028909409 1.219746421 1.313899743 1.456003036 1.357189856 1.589489917 0.839598373 1 11.65736739 -5.71462807 1.248242175 1.053222708 1.477126246 0.825707796 0.092513844 0.112602131 0.346002969 0.011042105 0.031066015 1.93E-06 5.71462807 0.423903537 LQAVTDDHIR ddPTM_HeLa_SAHA_4h_R1 2 LQAVTDDHIR 10 0 A0A2R8YEP4;P30043 A0A2R8YEP4 BLVRB Flavin reductase (NADPH) 0 0 ; ; 158.08 0.00026939 16218400 13349.4 12044.1 11744.5 14267.8 11875.1 14103.6 13225 13462.9 13286.9 11704.9 FALSE FALSE TRUE 14753.55114 12434.33674 13344.9793 14543.9739 10965.2324 12901.89394 11736.88819 13118.53851 13194.43538 12209.55552 1.208361035 1.018410271 1.092994686 1.191196017 0.898086125 1.056704637 0.961287098 1.074448492 1.080664678 1 13.57572306 -5.764690755 24.99979873 1.09936888 0.999255065 0.297446854 0.076001138 101.2265166 778338.2845 0.013563162 0.025349519 1.72E-06 5.764690755 -0.100113815 LQDAEIAR ddPTM_HeLa_SAHA_4h_R1 3 LQDAEIAR 8 0 R4GN98;P06703 R4GN98 S100A6 Protein S100;Protein S100-A6 0 0 ;; ;; 150.36 0.0015722 258222000 12263.6 11745.3 10239.3 12717.1 12016.6 12176.7 13100.5 12470.1 12274.9 10968.5 FALSE FALSE TRUE 13553.54172 12125.85543 11634.65848 12963.25786 11095.8907 11139.17666 11626.39726 12151.1329 12189.47797 11441.40571 1.184604589 1.05982217 1.016890649 1.13301269 0.96980135 0.973584622 1.016168603 1.062031467 1.065382898 1 13.48197669 -5.754855863 24.99987851 1.083932749 1.003893667 0.278923032 0.05533538 197.2576839 749048.0772 0.011067736 0.021734013 1.76E-06 5.754855863 -0.080039082 LQDEFENR ddPTM_HeLa_SAHA_4h_R1 1 LQDEFENR 8 0 H0Y3P2;D3DQV9;P78344-2;P78344;H0YCH5;H0YD77;H0YEC5 H0Y3P2 EIF4G2 Eukaryotic translation initiation factor 4 gamma 2 0 0 128.38 0.013399 6493400 1779.4 1904.6 1764.6 1753.5 1920.2 2243.7 2029.7 1882.4 1871.4 1877.8 FALSE FALSE TRUE 1966.565456 1966.31029 2005.070498 1787.441528 1773.074691 2052.524137 1801.312814 1834.250934 1858.376775 1958.761148 1.003984308 1.003854039 1.023642163 0.912536748 0.905202093 1.047868516 0.919618411 0.936434203 0.948751091 1 10.93572577 -6.270121077 24.96790628 1.003592277 0.946537163 0.268400305 0.041691762 519.0666721 1492794.292 0.005609074 0.008648059 5.37E-07 6.270121077 -0.057055115 LQDEIQNMKEEMAR ddPTM_HeLa_SAHA_4h_R1 1 LQDEIQNMKEEMAR 14 1 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 143.94 8.95E-05 3089800 1323.1 953.46 1240.9 1198.2 1244.8 1078.3 1374.4 1394.9 1137.9 1399.3 FALSE FALSE TRUE 1462.269729 984.3527296 1410.00339 1221.392894 1149.423693 986.4227736 1219.748895 1359.220478 1129.981261 1459.630671 1.001808031 0.674384794 0.966000111 0.836782152 0.787475706 0.675802991 0.83565584 0.931208493 0.774155602 1 10.51138766 -7.298220289 23.73615067 1.00085384 0.816294123 0.060556516 0.11336317 184.4378892 119024.45 0.014475335 0.016553521 5.03E-08 7.298220289 -0.184559717 LQDGTPQAALS(ph)PLTPAR ddPTM_HeLa_SAHA_4h_R1 1 LQDGTPQAALSPLTPAR 17 0 A0A087WVP4;A0A087X1R1;P53814-5;P53814;P53814-6 A0A087WVP4 SMTN Smoothelin 1 0 LQDGTPQAALS(0.969)PLT(0.031)PAR 111.73 0.00038524 0 636.79 433.2 507.15 689.03 679.25 775.19 672.23 646.65 750.68 510.44 TRUE FALSE FALSE 703.7704939 447.2359642 576.2617609 702.367172 627.2060117 709.1394509 596.5889112 630.1096293 745.4559568 532.4475664 1.32176488 0.839962453 1.08228828 1.319129274 1.177967656 1.331848422 1.120465091 1.183420996 1.400055149 1 9.056495651 -6.283367764 24.09296785 1.122692784 1.223820881 0.08699342 0.157592134 1014.037979 1114132.231 0.024608969 0.037610986 5.21E-07 6.283367764 0.101128097 LQDIVSALEDR ddPTM_HeLa_SAHA_4h_R1 1 LQDIVSALEDR 11 0 A0A3B3ISR4;A0A3B3ITU8;A0A3B3IS59;A0A3B3IRP0;A0A3B3IU13;A0A3B3IU05;A0A3B3ITQ1;A0A3F2YNW8;A0A3B3ISE3;A0A3B3IU04;Q14643-6;Q14643-2;Q14643-3;Q14643-5;Q14643-7;Q14643-8;Q14643-4;Q14643 A0A3B3ISR4 ITPR1 "Inositol 1,4,5-trisphosphate receptor type 1" 0 0 113.71 0.019546 5801300 784.97 1048.3 847.86 1018.2 1086.5 1251.6 780.87 1087 1327.6 1098.3 FALSE FALSE TRUE 867.5367462 1082.265608 963.4019453 1037.908733 1003.252605 1144.956639 693.0044525 1059.196114 1318.361124 1145.653088 0.757242096 0.944671314 0.840919433 0.905953769 0.875703662 0.999392094 0.604899039 0.92453477 1.150750727 1 10.16195454 -9.574491191 1.35258288 1.000077281 0.844443309 0.312410205 0.116364896 0.505442401 1.656390053 0.071502801 0.016694897 2.66E-10 9.574491191 -0.155633972 LQDS(ph)SDPDTGS(ph)EEEGSSRLSPPHSPR ddPTM_HeLa_SAHA_4h_R1 1 LQDSSDPDTGSEEEGSSRLSPPHSPR 26 1 V9GYM8;A0A5F9ZI21;Q92974-3;Q92974-2;Q92974;V9GYF0 V9GYM8 ARHGEF2 Rho guanine nucleotide exchange factor 2 2 0 LQDS(0.499)S(0.413)DPDT(0.148)GS(0.883)EEEGS(0.012)S(0.012)RLS(0.017)PPHS(0.016)PR 41.084 0.022929 5896600 717.1 777.89 735.41 844.94 971.99 1022 1030.2 1213.3 817.9 706 TRUE FALSE FALSE 792.5278682 803.0941464 835.6278449 861.2950355 897.5163362 934.9198504 914.2791847 1182.265543 812.2081673 736.4391151 1.076162105 1.090509901 1.134686939 1.169540045 1.218724424 1.269514114 1.241486453 1.605381244 1.102885698 1 9.524422446 -1 0.302644762 1.018967418 5.438670652 0.864053802 0.058572099 9.927716793 0.126996647 0.018767282 24.15868578 0.1 1 4.419703235 LQDSSDPDT(ph)GSEEEGSSRLSPPHSPR ddPTM_HeLa_SAHA_4h_R1 1 LQDSSDPDTGSEEEGSSRLSPPHSPR 26 1 V9GYM8;A0A5F9ZI21;Q92974-3;Q92974-2;Q92974;V9GYF0 V9GYM8 ARHGEF2 Rho guanine nucleotide exchange factor 2 1 0 LQDS(0.028)S(0.073)DPDT(0.792)GS(0.054)EEEGS(0.016)S(0.016)RLS(0.022)PPHSPR 75.106 0.00032478 5758600 547.31 452.39 359.76 530.18 456.49 572.62 431.39 557.59 551.24 313.55 TRUE FALSE FALSE 604.8785769 467.0477328 408.7862193 540.4424006 421.5138348 523.8295545 382.8488618 543.3276552 547.403876 327.068675 1.84939318 1.427980631 1.249848275 1.652382028 1.288762474 1.601588885 1.170545794 1.661203584 1.673666474 1 8.353449782 -9.607728797 1.424604687 1.001275291 1.523649591 0 0.28846634 0.312417359 1.142502412 0.15383346 0.03581577 2.47E-10 9.607728797 0.5223743 LQEAGILSAEELQR ddPTM_HeLa_SAHA_4h_R1 1 LQEAGILSAEELQR 14 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 142.85 0.00031815 500630 0 202.34 0 0 62.101 183.24 132.02 134.12 153.62 159.62 FALSE FALSE TRUE 0 208.8959488 0 0 57.3428348 167.6269211 117.1647621 130.6894046 152.5509459 166.5019994 0 1.254615257 0 0 0.344397275 1.006756206 0.703683815 0.784911924 0.916210895 1 7.379395691 -5.266737781 24.68515107 0.481762556 0.818973961 0.109938808 0.426554299 704.664037 3283025.19 0.069170505 0.159115756 5.41E-06 5.266737781 0.337211405 LQEAPSSS(ph)PDS(ph)WNNPVMMTLT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 LQEAPSSSPDSWNNPVMMTLTK 22 0 Q14432 Q14432 PDE3A "cGMP-inhibited 3,5-cyclic phosphodiesterase A" 3 0 LQEAPS(0.223)S(0.223)S(0.679)PDS(0.875)WNNPVMMT(0.488)LT(0.512)K 41.136 0.0088592 0 531.65 615.88 506.34 457.66 591.31 791.03 564.15 840.56 894.43 623.97 TRUE FALSE FALSE 587.5713863 635.8349161 575.3413783 466.5186711 546.0039555 723.6297938 500.6703572 819.0596923 888.2055888 650.8724003 0.902744357 0.976896417 0.883954179 0.716759031 0.838880179 1.11178442 0.769229663 1.258402863 1.364638581 1 9.346230929 -4.242769716 24.31935748 0.927836408 1.258403285 0.203006778 0.176755686 2064.198933 2688793.987 0.015167961 0.672102756 5.72E-05 4.242769716 0.330566877 LQEDEMRRAAEERR ddPTM_HeLa_SAHA_4h_R1 2 LQEDEMRRAAEERR 14 3 A0A087WTZ5;E9PJ81;E9PRQ7;Q04323;Q04323-2 A0A087WTZ5 UBXN1 UBX domain-containing protein 1 0 0 ; ; 76.927 0.011069 3089000 0 0 204.71 187.41 61.794 347.31 127.46 0 0 224.96 FALSE FALSE TRUE 0 0 232.6068127 191.0375915 57.05935707 317.7172341 113.1178653 0 0 234.6591265 0 0 0.991254064 0.814106804 0.243158482 1.353952172 0.482051847 0 0 1 7.874422762 -9.682241317 1.57000059 0.998253957 0.434128971 0 0.534013503 0.571822643 2.55187926 0.328666006 0.074178222 2.08E-10 9.682241317 -0.564124987 LQEDPNYS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 2 LQEDPNYSPQR 11 0 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6;P46379-5;A0A0G2JL47;H0Y710;P46379-4;H0Y4L1 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 1 0 LQEDPNYS(1)PQR;LQEDPNYS(1)PQR ; 151.66 0.00046147 16824700 3611.86 5289.2 3371.03 4025.2 4714 5488.7 4546.7 4188.5 6995.8 4558.6 TRUE FALSE FALSE 3991.772007 5460.57355 3830.416413 4103.113567 4352.814338 5021.031881 4035.09335 4081.364235 6947.115658 4755.143555 0.839464037 1.148350936 0.805531183 0.862879011 0.915390732 1.055915941 0.848574455 0.858305157 1.46096865 1 12.21527318 LQEDPNYS(ph)PQRFPNAQR ddPTM_HeLa_SAHA_4h_R1 3 LQEDPNYSPQRFPNAQR 17 1 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6;P46379-5;A0A0G2JL47;H0Y710;P46379-4;H0Y4L1 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 1 0 LQEDPNY(0.001)S(0.999)PQRFPNAQR;LQEDPNY(0.377)S(0.623)PQRFPNAQR;LQEDPNY(0.071)S(0.929)PQRFPNAQR ;; 102.36 0.011122 64713400 4122.26 4043.4 3421.7 4146.81 4499.75 4700.04 4391.62 4560.14 4901.49 4376.33 TRUE FALSE FALSE 4555.85822 4174.408813 3887.991457 4227.077504 4154.980127 4299.57015 3897.463359 4443.498222 4867.380132 4565.015004 0.99799414 0.914434851 0.851693029 0.925972313 0.910178855 0.941852359 0.853767919 0.973380858 1.066235298 1 12.15640389 -7.249748778 5.607333382 0.999201522 0.907283283 0.599011762 0.040479622 0.07651985 8.879535883 0.005264658 0.006290047 5.63E-08 7.249748778 -0.091918239 LQEEERER ddPTM_HeLa_SAHA_4h_R1 2 LQEEERER 8 1 H0YN88;A0A075B716;H3BNC9;P08708 H0YN88 RPS17 40S ribosomal protein S17 0 0 ; ; 109.48 0.0070003 4300400 2531.73 2048.7 2345.91 3345.4 2570.04 2316.55 3155.5 3287.5 2017.03 2292.9 FALSE FALSE TRUE 2798.028977 2115.079224 2665.598398 3410.155055 2373.12409 2119.166907 2800.434835 3203.41051 2002.993324 2391.75814 1.169862843 0.88431986 1.11449329 1.425794271 0.992209058 0.886028931 1.170868738 1.339353865 0.837456468 1 11.22385579 LQEEGGGS(ph)DEEETGSPSEDGMQSAR ddPTM_HeLa_SAHA_4h_R1 2 LQEEGGGSDEEETGSPSEDGMQSAR 25 0 Q13610-2;Q13610 Q13610-2 PWP1 Periodic tryptophan protein 1 homolog 1 0 LQEEGGGS(1)DEEETGSPSEDGMQSAR;LQEEGGGS(1)DEEETGSPSEDGMQSAR ; 117.53 1.35E-07 17665900 1419.16 1505.8 1099.03 1053.05 1542.21 1555.18 1661.6 1261.75 1480.06 1364.67 TRUE FALSE FALSE 1568.43376 1554.588908 1248.800085 1073.433305 1424.046203 1422.669915 1474.632395 1229.476262 1469.760142 1423.507602 1.101809191 1.09208332 0.877269698 0.754076272 1.000378362 0.999411533 1.035914661 0.863694904 1.032491951 1 10.47523448 -6.764149478 24.98336009 1.052720388 0.926455321 0.396877197 0.081233619 63.77441407 587913.0469 0.014299879 0.01927177 1.72E-07 6.764149478 -0.126265067 LQEEMLQREEAENTLQSFR ddPTM_HeLa_SAHA_4h_R1 1 LQEEMLQREEAENTLQSFR 19 1 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 122.97 0.00026213 13931000 322.23 199.35 218.11 232.87 190.79 0 205.13 241.21 149.75 184.16 FALSE FALSE TRUE 356.1236298 205.8090708 247.8328949 237.3775356 176.1717114 0 182.0482325 235.0401975 148.7078776 192.1000389 1.853844653 1.071364025 1.290124127 1.235697489 0.917083164 0 0.947674106 1.223530192 0.774116853 1 7.585714001 -5.746027443 3.209497014 1.370385571 0.710339842 0.15821437 0.407704469 0.221136971 4.717544814 0.064315781 0.130944276 1.79E-06 5.746027443 -0.660045728 LQEES(ph)DLELAK ddPTM_HeLa_SAHA_4h_R1 2 LQEESDLELAK 11 0 O75822-2;O75822;O75822-3 O75822-2 EIF3J Eukaryotic translation initiation factor 3 subunit J 1 0 LQEES(1)DLELAK;LQEES(1)DLELAK ; 150.22 0.00051616 14252900 1586.86 2209.67 1873.02 1871.07 2324.35 2479.75 2321.44 2011.04 2428.7 2115.29 TRUE FALSE FALSE 1753.773216 2281.264758 2128.265411 1907.287265 2146.258805 2268.461349 2060.225462 1959.600509 2411.798479 2206.490504 0.794824728 1.033888319 0.964547732 0.864398583 0.972702489 1.028085707 0.933711456 0.888107384 1.093047296 1 11.10753782 -7.239269803 24.97892893 0.903111662 0.954606565 0 0.090717287 1767.357565 1991321.689 0.014892745 0.018230923 5.76E-08 7.239269803 0.051494902 LQEKEDLQELNDR ddPTM_HeLa_SAHA_4h_R1 6 LQEKEDLQELNDR 13 1 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ;;;;; ;;;;; 158.52 0.00010077 181133500 14804.52 14161.38 13719.88 15268.1 15319.85 15720.37 17098.5 16161.31 15129.32 13339.95 FALSE FALSE TRUE 16361.72734 14620.218 15589.5538 15563.63615 14146.0464 14380.90604 15174.53178 15747.92709 15024.03383 13915.10053 1.175825306 1.050672827 1.120333537 1.118470982 1.016596781 1.033474822 1.090508239 1.131714935 1.079692798 1 13.76436371 -4.303130249 4.374455803 1.07968699 1.133732052 0.096438577 0.050736143 0.510925495 20.51179245 0.009562276 0.075699474 4.98E-05 4.303130249 0.054045061 LQELAS(ph)PPAGRPTPAPR ddPTM_HeLa_SAHA_4h_R1 1 LQELASPPAGRPTPAPR 17 1 Q8N3F8 Q8N3F8 MICALL1 MICAL-like protein 1 1 0 LQELAS(0.994)PPAGRPT(0.006)PAPR 90.422 0.021038 6342900 701.89 834.85 441.88 634.49 690.94 749.52 692.32 689.17 612.17 639.36 TRUE FALSE FALSE 775.7180106 861.8996878 502.0971052 646.7714714 638.0003265 685.6566793 614.4183315 671.5420293 607.9098591 666.9259386 1.163124668 1.292346928 0.752852867 0.969780052 0.956628449 1.028085189 0.921269208 1.006921444 0.911510295 1 9.38138275 -6.760236626 24.99998592 1.095332109 0.944653415 0.291277274 0.116291296 30.58433563 635708.5798 0.017668265 0.024203355 1.74E-07 6.760236626 -0.150678694 LQELESCSGLGS(ph)TSDDTDVR ddPTM_HeLa_SAHA_4h_R1 1 LQELESCSGLGSTSDDTDVR 20 0 Q14C86-4;Q14C86-5;Q14C86-2;Q14C86;Q14C86-6;F8W9S7;Q14C86-3;H0Y4E7;H0Y7I9;C9IZ08;B4DGD8 Q14C86-4 GAPVD1 GTPase-activating protein and VPS9 domain-containing protein 1 1 0 LQELESCS(0.013)GLGS(0.958)T(0.023)S(0.006)DDTDVR 160.95 2.31E-06 2362700 243.52 265.48 217.95 445.41 380.47 432.94 426.28 476.79 451.88 343.68 TRUE FALSE FALSE 269.1345509 274.0817262 247.651091 454.0315546 351.3184708 396.0510763 378.3138525 464.5944022 448.7353303 358.4977267 0.750728752 0.764528491 0.690802403 1.266483776 0.979974055 1.104751988 1.055275457 1.295947973 1.251710393 1 8.48582016 -6.258451227 24.99505353 0.855537244 1.124850068 0.329324591 0.173146152 180.0223662 1505833.542 0.021302489 0.034335665 5.52E-07 6.258451227 0.269312824 LQELESCSGLGST(ph)SDDTDVR ddPTM_HeLa_SAHA_4h_R1 1 LQELESCSGLGSTSDDTDVR 20 0 Q14C86-4;Q14C86-5;Q14C86-2;Q14C86;Q14C86-6;F8W9S7;Q14C86-3;H0Y4E7;H0Y7I9;C9IZ08;B4DGD8 Q14C86-4 GAPVD1 GTPase-activating protein and VPS9 domain-containing protein 1 1 0 LQELESCSGLGS(0.263)T(0.559)S(0.174)DDT(0.004)DVR 169.62 5.26E-07 14589000 615.68 956.96 604.02 836.5 1058.5 1094 973.81 813.9 793.11 797.67 TRUE FALSE FALSE 680.4400472 987.9661319 686.3327 852.6916671 977.3979587 1000.785045 864.2343359 793.0816165 787.5906829 832.0614574 0.817776189 1.187371585 0.824858181 1.024794094 1.174670392 1.202777795 1.038666469 0.95315269 0.946553498 1 9.700546282 -6.00514574 22.94316567 0.930297482 1.096794474 0.220565231 0.116746405 77.19441457 344194.5865 0.018348634 0.032526992 9.88E-07 6.00514574 0.166496993 LQELNAHIVVS(ph)DPEDITDCPR ddPTM_HeLa_SAHA_4h_R1 2 LQELNAHIVVSDPEDITDCPR 21 0 Q16513-3;Q16513-2;Q16513;B1AL79 Q16513-3 PKN2 Serine/threonine-protein kinase N2 1 0 LQELNAHIVVS(0.999)DPEDIT(0.001)DCPR;LQELNAHIVVS(0.995)DPEDIT(0.005)DCPR ; 136.77 4.80E-06 26888000 2434.79 2872.1 2753.53 2967.56 2938.48 2770.7 3045.62 3142.46 3169.09 2926.64 TRUE FALSE FALSE 2690.892383 2965.157924 3128.766729 3025.001415 2713.334297 2534.620772 2702.918822 3062.080423 3147.036045 3052.821773 0.881444311 0.971284321 1.02487697 0.990887002 0.888795514 0.830255076 0.885383761 1.003032817 1.030861373 1 11.57592765 -5.742393501 24.96576567 0.954652163 0.895574289 0.232696998 0.059756601 355.2823213 465709.5298 0.009518802 0.019012469 1.81E-06 5.742393501 -0.059077874 LQELNAHIVVSDPEDITDCPRT(ph)PDTPNNDPR ddPTM_HeLa_SAHA_4h_R1 1 LQELNAHIVVSDPEDITDCPRTPDTPNNDPR 31 1 Q16513-3;Q16513-2;Q16513;B1AL79 Q16513-3 PKN2 Serine/threonine-protein kinase N2 1 0 LQELNAHIVVS(0.07)DPEDIT(0.367)DCPRT(0.433)PDT(0.13)PNNDPR 54.683 0.0027432 6770800 744.85 1140.7 877.93 778.97 1070.3 1287.6 1199.3 1202.9 1015.6 1278.8 TRUE FALSE FALSE 823.1967405 1177.659428 997.5697283 794.0480908 988.2938452 1177.889236 1064.351608 1172.13156 1008.532357 1333.935326 0.617118929 0.882845971 0.747839651 0.595267308 0.740885878 0.883018249 0.797903457 0.878701941 0.756057912 1 10.38147301 -9.556210889 1.325276851 1.000087427 0.749968422 0 0.122389241 0.335992987 1.056784232 0.075088421 0.017698223 2.78E-10 9.556210889 -0.250119004 LQELSAEER ddPTM_HeLa_SAHA_4h_R1 1 LQELSAEER 9 0 J3KQ32;Q9NTK5;Q9NTK5-2 J3KQ32 OLA1 Obg-like ATPase 1 0 0 120.45 0.021452 5668400 1577.8 1459 1294.2 1734.2 1631.6 1376.2 1618.5 1585.5 1582.4 1411.5 FALSE FALSE TRUE 1743.760243 1506.272557 1470.566836 1767.767949 1506.58716 1258.940018 1436.38212 1544.945206 1571.38795 1472.356673 1.184332761 1.023035101 0.998784373 1.200638392 1.023248774 0.855050981 0.975566686 1.049300916 1.067260385 1 10.52391149 -5.521761855 24.99400327 1.084621401 0.957801841 0.316474382 0.078275642 39.72969087 889072.1778 0.013231267 0.026739567 3.01E-06 5.521761855 -0.126819559 LQFHDVAGDIFHQQCK ddPTM_HeLa_SAHA_4h_R1 2 LQFHDVAGDIFHQQCK 16 0 P11413-3;P11413;P11413-2 P11413-3 G6PD Glucose-6-phosphate 1-dehydrogenase 0 0 ; ; 113.53 0.00024026 2456040 2099.45 2276.2 2853.2 2803.8 2543 1512.58 3093.6 1512.16 2173.1 2449.9 FALSE FALSE TRUE 2320.279784 2349.950373 3242.019237 2858.071603 2348.155889 1383.699674 2745.499986 1473.481137 2157.97722 2555.527179 0.907945649 0.919556009 1.26863031 1.118388263 0.918853812 0.541453711 1.074338011 0.576585978 0.844435245 1 11.31940522 -5.508559526 24.59148624 0.989763481 0.759314864 0.329318728 0.175286133 522.4958366 897320.4947 0.023500929 0.050719488 3.10E-06 5.508559526 -0.230448617 LQFPHIS(ph)QCEELR ddPTM_HeLa_SAHA_4h_R1 1 LQFPHISQCEELR 13 0 D6RC88;D6R9V4;D6RDA3;D6RHC7 D6RC88 GRK6 1 0 LQFPHIS(1)QCEELR 82.774 0.016775 11675000 766.33 836.87 815 563.37 1401 1471 1053.2 920.64 1208.7 670.6 TRUE FALSE FALSE 846.9361054 863.9851371 926.0639557 574.274841 1293.655683 1345.662524 934.6911641 897.0913619 1200.288558 699.5128478 1.210751322 1.235124043 1.323869831 0.820963965 1.849366579 1.923713808 1.336202998 1.282451587 1.715892084 1 9.450206745 -5.758111903 24.99997194 1.114424817 1.602508686 0.246072427 0.294305434 55.0441075 413550.0666 0.034220566 0.066267748 1.75E-06 5.758111903 0.488083869 LQFSLK ddPTM_HeLa_SAHA_4h_R1 2 LQFSLK 6 0 P20290;P20290-2 P20290 BTF3 Transcription factor BTF3 0 0 ; ; 105.39 0.023195 12390900 10750 11472.3 10346.2 12270.8 13333 11681.3 13104.6 8382.7 10688.2 10940.8 FALSE FALSE TRUE 11880.73432 11844.01005 11756.12626 12508.31908 12311.42842 10685.98752 11630.03592 8168.282672 10613.81995 11412.51143 1.041027156 1.03780926 1.030108607 1.096018099 1.078765922 0.936339699 1.019060177 0.715730514 0.93001615 1 13.47832868 -3.772106242 1.580949501 1.028407034 1.04E-17 0.746935935 0.052337105 1.328029127 1.065915672 0.006133266 3.102416958 0.000169003 3.772106242 -1.028407034 LQGSWLPAS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 LQGSWLPASR 10 0 A0A1B0GTZ4 A0A1B0GTZ4 1 0 LQGSWLPAS(1)R 90.709 0.01765 6047400 296.01 382.11 204.82 494.04 360.04 655.85 495.54 558.22 649.24 490.44 TRUE FALSE FALSE 327.1456899 394.4906147 232.7318029 503.6028586 332.453813 599.9678903 439.780535 543.9415407 644.721886 511.5852686 0.639474414 0.771114102 0.4549228 0.984396717 0.649850247 1.172762249 0.859642687 1.063247076 1.260243259 1 8.998830911 -5.263600587 24.98927293 0.794265861 1.014659867 0.143662748 0.225278636 223.6975599 2586555.707 0.027445059 0.064360042 5.45E-06 5.263600587 0.220394006 LQIELGK ddPTM_HeLa_SAHA_4h_R1 2 LQIELGK 7 0 P20700;E9PBF6;A0A0D9SFE5;A0A0D9SFY5 P20700 LMNB1 Lamin-B1 0 0 ; ; 133.12 0.00045579 4546000 5385.1 6317.3 5102.4 6393.1 6500.9 5786.6 6640.8 4616.8 5218.8 4875.1 FALSE FALSE TRUE 5951.529526 6521.984665 5797.7285 6516.847695 6002.802446 5293.549125 5893.559706 4498.708941 5182.481946 5085.289419 1.170342341 1.282519858 1.14009804 1.281509696 1.180424938 1.040953364 1.158942829 0.884651506 1.019112487 1 12.31211417 -4.255554719 24.0875404 1.120750238 0.88465133 0.378478135 0.095469823 394.1808228 1613408.246 0.015146284 0.179865128 5.55E-05 4.255554719 -0.236098908 LQISHEAAACITGLR ddPTM_HeLa_SAHA_4h_R1 1 LQISHEAAACITGLR 15 0 Q08211;Q08211-2 Q08211 DHX9 ATP-dependent RNA helicase A 0 0 67.416 0.019107 1131900 355.6 330.79 538.36 584.04 557.5 819.17 562.11 430.14 583.34 419.08 FALSE FALSE TRUE 393.0036396 341.507813 611.7248971 595.3449387 514.7844704 749.3721075 498.8599034 419.1376416 579.2804894 437.1485897 0.899016144 0.781216779 1.399352329 1.361882327 1.177596091 1.714227439 1.141167821 0.958799025 1.325134069 1 8.771979935 -6.755661504 24.99998841 0.93814852 1.302452239 0.263144367 0.228456158 95.20356907 411929.4831 0.030226343 0.04208554 1.76E-07 6.755661504 0.364303719 LQIVEMPLAHK ddPTM_HeLa_SAHA_4h_R1 2 LQIVEMPLAHK 11 0 P50454;E9PPV6;E9PKH2;E9PR70 P50454 SERPINH1 Serpin H1 0 0 ; ; 80.979 0.016369 1660230 968.84 1239.18 997.98 1292.8 1468.9 996.33 1355.03 516.71 770.58 1203.8 FALSE FALSE TRUE 1070.747036 1279.330245 1133.979517 1317.824013 1356.353199 911.4370788 1202.558458 503.4933064 765.217471 1255.701709 0.852708114 1.018816997 0.903064405 1.049472183 1.080155573 0.725838845 0.957678443 0.400965693 0.609394306 1 10.29427808 -4.260218339 24.90530808 0.938852894 0.400965511 0.524914234 0.143286564 39.81960021 812088.0931 0.013818624 0.114495524 5.49E-05 4.260218339 -0.537887383 LQKEEEIEFLYNENTVR ddPTM_HeLa_SAHA_4h_R1 1 LQKEEEIEFLYNENTVR 17 1 J3KR24;A0A0A0MSX9;P41252 J3KR24 IARS "Isoleucine--tRNA ligase, cytoplasmic" 0 0 90.453 0.0071613 3149900 555.94 653.8 975.08 912.84 987.38 1048 811.96 917.31 950.74 884.12 FALSE FALSE TRUE 614.4163199 674.983549 1107.958824 930.5093382 911.7271577 958.7045041 720.5961238 893.8465384 944.1237229 922.23874 0.666222631 0.731896764 1.201379617 1.008967958 0.988602103 1.039540482 0.781355296 0.969213827 1.023730279 1 9.848996459 -6.791967928 24.99931703 0.829692458 0.990256834 0.19085496 0.13941992 254.925431 208753.2904 0.025949783 0.034106825 1.61E-07 6.791967928 0.160564376 LQLDNQY(ph)AVLENQK ddPTM_HeLa_SAHA_4h_R1 1 LQLDNQYAVLENQK 14 0 D6R9V8;Q9UKY7 D6R9V8 CDV3 Protein CDV3 homolog 1 0 LQLDNQY(1)AVLENQK 125.54 0.0016682 5724600 787.87 814.19 505.55 1258.9 2896.4 816.8 1472.4 2799.8 1576.7 1147.4 TRUE FALSE FALSE 870.7417815 840.5702902 574.4437212 1283.26783 2674.478458 747.2040448 1306.721677 2728.18517 1565.727616 1196.870029 0.727515737 0.702307076 0.479954972 1.072186452 2.234560472 0.6242984 1.091782437 2.279433108 1.308185165 1 10.22505078 -5.99128771 24.97447698 0.823837318 1.48206573 0.308603522 0.499805718 182.470598 523061.9099 0.067480668 0.122187625 1.02E-06 5.99128771 0.658228412 LQLEETMPS(ph)PYGR ddPTM_HeLa_SAHA_4h_R1 2 LQLEETMPSPYGR 13 0 Q02880-2;Q02880 Q02880-2 TOP2B DNA topoisomerase 2-beta 1 0 LQLEETMPS(1)PYGR;LQLEETMPS(1)PYGR ; 130.2 0.00073382 8886900 981.15 1115.4 877.79 951.64 1540.24 1701.69 1142.73 1156.35 1469.67 1131.89 TRUE FALSE FALSE 1084.351859 1151.539692 997.4106499 970.0603683 1422.227144 1556.696439 1014.147013 1126.772241 1459.442447 1180.691317 0.918404195 0.975309698 0.844768345 0.821603711 1.204571528 1.318461833 0.858943399 0.954332623 1.236091454 1 10.20541612 -5.760992131 24.99999987 0.943258313 1.084738082 0.107397848 0.158773973 15.06905648 842225.8325 0.01976395 0.037671212 1.73E-06 5.760992131 0.141479769 LQLELSK ddPTM_HeLa_SAHA_4h_R1 2 LQLELSK 7 0 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 117.04 0.005958 11780300 8030.9 8728.2 13262 10242.8 11133.6 5343.7 12449.9 4544 2658.4 5111.4 FALSE FALSE TRUE 8875.626909 9010.999407 15069.27629 10441.06421 10280.54597 4888.386697 11049.00449 4427.77106 2639.899978 5331.777469 1.664665669 1.69005542 2.826313811 1.958270814 1.928164863 0.916839971 2.07229288 0.830449336 0.495125686 1 12.38040085 -5.272247371 24.72308362 1.550904535 1.353103908 0.046015918 0.660767564 2658.862321 6082098.207 0.093710065 0.211502779 5.34E-06 5.272247371 -0.197800627 LQLERPVS(ph)PETQADLQR ddPTM_HeLa_SAHA_4h_R1 3 LQLERPVSPETQADLQR 17 1 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 LQLERPVS(0.981)PET(0.019)QADLQR;LQLERPVS(0.748)PET(0.252)QADLQR;LQLERPVS(0.535)PET(0.465)QADLQR ;; 84.371 0.0045142 35460200 2840.38 4340.2 2983.76 3531.92 4172.8 4418.23 4420.04 2923.69 5085.5 3425.37 TRUE FALSE FALSE 3139.144201 4480.825328 3390.371274 3600.285419 3853.080965 4041.771948 3922.685466 2848.906243 5050.109591 3573.054464 0.878560412 1.254060181 0.948871983 1.007621198 1.078371742 1.131181175 1.097852133 0.797330763 1.413387241 1 11.80294219 LQLERPVSPET(ph)QADLQR ddPTM_HeLa_SAHA_4h_R1 1 LQLERPVSPETQADLQR 17 1 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 LQLERPVS(0.19)PET(0.81)QADLQR 132.25 0.0058273 6520600 531.44 701.1 412.23 497.46 644.33 702.63 655.94 696.58 829.53 546.95 TRUE FALSE FALSE 587.3392975 723.8161 468.4065576 507.0890576 594.9615746 642.7619711 582.1319049 678.7624922 823.7572332 570.5316912 1.029459549 1.268669403 0.821000069 0.88880086 1.042819503 1.126601696 1.020332286 1.189701646 1.443841325 1 9.156163216 -1.000008569 0.864964956 1.014551589 67.04624942 0 0.177438888 1021.826339 2.503676693 0.017411485 132966.9034 0.099998027 1.000008569 66.03169783 LQLGT(ph)PPPLLAAR ddPTM_HeLa_SAHA_4h_R1 1 LQLGTPPPLLAAR 13 0 Q9P2N5 Q9P2N5 RBM27 RNA-binding protein 27 1 0 LQLGT(1)PPPLLAAR 103.83 0.0065678 6487100 1748.6 1500.2 1686.8 1595.7 1911.9 1993 1677.7 1297.9 1266.5 1444.5 TRUE FALSE FALSE 1932.525771 1548.807464 1916.66832 1626.587081 1765.410635 1823.185188 1488.920781 1264.701597 1257.686323 1506.779464 1.282553829 1.027892602 1.27202976 1.079512377 1.171645006 1.209988078 0.988147779 0.839340877 0.834685071 1 10.55725256 -4.518339066 3.552291048 1.14122985 0.85476411 0.266153072 0.132146273 0.169226762 4.337308364 0.015832737 0.091615919 3.03E-05 4.518339066 -0.286465739 LQLIPGVCGFR ddPTM_HeLa_SAHA_4h_R1 1 LQLIPGVCGFR 11 0 Q16719 Q16719 KYNU Kynureninase 0 0 107.57 0.013053 340340 134.44 0 123.22 165.6 157.25 46.916 138.11 0 58.75 120.4 FALSE FALSE TRUE 148.581016 0 140.0117799 168.8054275 145.201539 42.91849286 122.5694993 0 58.34115397 125.5910332 1.183054333 0 1.114823059 1.344088213 1.156145747 0.341732142 0.975941484 0 0.464532797 1 6.972589654 -4.438552296 1.078815159 1.021614459 9.15E-18 0.136374958 0.448061124 1.365561475 1.537592763 0.061514744 1.472620079 3.64E-05 4.438552296 -1.021614459 LQLLSNLFHGMDK ddPTM_HeLa_SAHA_4h_R1 1 LQLLSNLFHGMDK 13 0 Q7L2H7;E9PN86;J3KNJ2 Q7L2H7 EIF3M Eukaryotic translation initiation factor 3 subunit M 0 0 104.17 0.0030543 2631500 194.95 181.51 0 189.69 207.3 0 165.14 109.91 130.44 200.35 FALSE FALSE TRUE 215.4557355 187.3910431 0 193.3617242 191.4167188 0 146.5580126 107.0986613 129.5322574 208.988069 1.030947539 0.896659049 0 0.925228532 0.915921754 0 0.701274543 0.512463041 0.619806949 1 7.707276772 -6.979671059 24.99872537 1.011939911 0.525156055 0.217359828 0.324003785 180.2095214 221605.0814 0.045628057 0.059963559 1.05E-07 6.979671059 -0.486783856 LQLLSNLFHGMDKNTPVR ddPTM_HeLa_SAHA_4h_R1 1 LQLLSNLFHGMDKNTPVR 18 1 Q7L2H7;E9PN86;J3KNJ2 Q7L2H7 EIF3M Eukaryotic translation initiation factor 3 subunit M 0 0 80.719 0.003377 1799900 461.57 361.27 361.6 536.8 527.61 401.37 685.25 715.05 258.9 529.85 FALSE FALSE TRUE 510.1200504 372.975385 410.8769649 547.1905402 487.1846358 367.171018 608.1438665 696.7600564 257.0982938 552.6944265 0.922969413 0.674831095 0.743407107 0.990041719 0.881471953 0.664329149 1.100325672 1.260660544 0.465172583 1 9.110338254 -4.531325524 24.75833377 0.905691348 1.220576913 0.299408226 0.187202041 101.4583058 297385.5637 0.019254375 0.072292468 2.94E-05 4.531325524 0.314885565 LQLNYLGNYIPR ddPTM_HeLa_SAHA_4h_R1 1 LQLNYLGNYIPR 12 0 Q02809;Q02809-2 Q02809 PLOD1 "Procollagen-lysine,2-oxoglutarate 5-dioxygenase 1" 0 0 122.33 0.0031958 397740 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 LQLQGLDLS(ph)SR ddPTM_HeLa_SAHA_4h_R1 2 LQLQGLDLSSR 11 0 P49454 P49454 CENPF Centromere protein F 1 0 LQLQGLDLS(0.961)S(0.039)R;LQLQGLDLS(0.5)S(0.5)R ; 166.62 0.00013705 9831400 2896.77 2954.38 2642.9 2726.74 2840.53 3362.2 3122.9 2303.77 3710.9 3265.4 TRUE FALSE FALSE 3201.465559 3050.10385 3003.060648 2779.519996 2622.889205 3075.721645 2771.503073 2244.842899 3685.075545 3406.187374 0.939897078 0.895459796 0.881648693 0.816020873 0.770036676 0.902980754 0.813667238 0.659048564 1.081876931 1 11.73394208 -1.422230071 0.140662675 1.05275524 1.44E-20 0.763461537 0.055187942 22.978794 0.238074275 0.136546077 4.789901907 0.037824216 1.422230071 -1.05275524 LQLQGLDLSS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 LQLQGLDLSSR 11 0 P49454 P49454 CENPF Centromere protein F 1 0 LQLQGLDLS(0.082)S(0.918)R 174.21 6.64E-05 5708600 1569.3 1981.3 1408.1 1476 1561 1962 1494.5 1270.3 2229.8 2103.1 TRUE FALSE FALSE 1734.366174 2045.49542 1599.988535 1504.570114 1441.396517 1794.826562 1326.334927 1237.807565 2214.28264 2193.774933 0.790585282 0.932408967 0.729331214 0.685836132 0.657039378 0.818145259 0.604590246 0.564236352 1.009348136 1 11.09919981 -5.924985969 0.070455373 1.454272383 8.21E-15 0.771682374 0.072413096 18.7883545 0.43824583 3.504687608 5.539870575 1.19E-06 5.924985969 -1.454272383 LQLSFQDDDS(ph)ISR ddPTM_HeLa_SAHA_4h_R1 1 LQLSFQDDDSISR 13 0 K7ELX0;Q8TEP8 K7ELX0 CEP192 Centrosomal protein of 192 kDa 1 0 LQLS(0.304)FQDDDS(0.686)IS(0.011)R 141.82 0.00033109 2862000 347.97 400.96 508.57 412.79 311.23 516.73 298.49 241.46 683 537.65 TRUE FALSE FALSE 384.5710811 413.9513671 577.8752711 420.7801474 287.3836246 472.701697 264.9031196 235.2838028 678.2469474 560.8307227 0.685716858 0.738103942 1.03039161 0.75028013 0.512424896 0.842859847 0.472340599 0.419527307 1.209361256 1 9.131421573 -4.125881984 0.122675452 1.094650343 1.61E-29 0.535180988 0.167720541 27.17657673 0.531242414 0.93553216 5.160274823 7.48E-05 4.125881984 -1.094650343 LQLVMK ddPTM_HeLa_SAHA_4h_R1 2 LQLVMK 6 0 E5RI99;P62888;E5RJH3;A0A0C4DH44 E5RI99 RPL30 60S ribosomal protein L30 0 0 ; ; 119.7 0.005187 14508800 7777.5 7842.7 8104.6 7088.8 9016.4 8793.7 9818.3 6251.5 5985.6 7647.1 FALSE FALSE TRUE 8595.573134 8096.808626 9209.052681 7226.013975 8325.56538 8044.427288 8713.519044 6091.595682 5943.945722 7976.803905 1.077571072 1.015044211 1.154479011 0.905878352 1.043721957 1.008477503 1.092357183 0.763663712 0.745153798 1 12.9615951 -4.254185251 24.92218119 1.036395917 0.763663579 0.25995 0.111014032 388.3246869 1334088.524 0.008077799 0.110265966 5.57E-05 4.254185251 -0.272732338 LQMEAPHIIVGTPGR ddPTM_HeLa_SAHA_4h_R1 3 LQMEAPHIIVGTPGR 15 0 P60842;P60842-2;J3KT12;J3QS69;J3QL43;J3KTB5;J3QR64;J3KSZ0;J3QLN6;J3KS25;J3QKZ9 P60842 EIF4A1 Eukaryotic initiation factor 4A-I 0 0 ;; ;; 115.8 0.00052197 14236100 5701 4894.96 5767.7 5649.2 6060.1 6373.1 6112 4595.2 5046.8 5976.8 FALSE FALSE TRUE 6300.657337 5053.559916 6553.692119 5758.548435 5595.776447 5830.076026 5424.261674 4477.661438 5011.678908 6234.489098 1.010613258 0.810581242 1.051199548 0.923660038 0.897551725 0.935132925 0.870041087 0.718208239 0.803863609 1 12.60605562 -2.670413016 0.38193366 1.000232453 5.24E-17 0.174346029 0.089969207 8.71409092 0.342055195 0.016632911 5.211497715 0.00213593 2.670413016 -1.000232453 LQNAT(ph)PTNFK ddPTM_HeLa_SAHA_4h_R1 1 LQNATPTNFK 10 0 Q9NXF1-2;Q9NXF1 Q9NXF1-2 TEX10 Testis-expressed sequence 10 protein 1 0 LQNAT(0.665)PT(0.335)NFK 122.42 0.0047657 7608400 2070.9 1935.3 1433.1 1780.2 2286.7 2169 2267.1 2064.9 2044.8 2023.6 TRUE FALSE FALSE 2288.726764 1998.00499 1628.395405 1814.658345 2111.49354 1984.188998 2011.999941 2012.082848 2030.57007 2110.847299 1.084269224 0.946541699 0.771441594 0.859682435 1.000306152 0.939996464 0.953171715 0.953210992 0.961969192 1 11.0436065 -7.106466711 5.809682108 1.039387539 0.913154143 0.302243753 0.066452932 0.166899971 7.743303583 0.01153785 0.014200106 7.83E-08 7.106466711 -0.126233396 LQPFATEADVEEALR ddPTM_HeLa_SAHA_4h_R1 3 LQPFATEADVEEALR 15 0 B1AHB1;P33992 B1AHB1 MCM5 DNA helicase;DNA replication licensing factor MCM5 0 0 ;; ;; 190.24 3.29E-08 5608500 740.53 784.54 548.94 950.08 853.48 1066.13 809.79 806.07 908.82 1013.47 FALSE FALSE TRUE 818.4223431 809.9596108 623.7466844 968.4701722 788.0865468 975.2897261 718.6702979 785.4518966 902.4954476 1057.165652 0.774166605 0.76616149 0.590017925 0.91610068 0.7454712 0.92255147 0.679808597 0.742979017 0.853693502 1 10.04598574 -9.032346448 0.747197645 1.006323032 0.767039987 0.233454304 0.102831882 0.484077937 0.477490476 0.0675166 0.018793279 9.28E-10 9.032346448 -0.239283044 LQPQEIS(ph)PPPTANLDR ddPTM_HeLa_SAHA_4h_R1 2 LQPQEISPPPTANLDR 16 0 Q05397-5;Q05397;Q05397-7;Q05397-2;E7ESA6;H0YBP1;H0YB16;H0YBZ1;E9PEI4;Q05397-6;B4DWJ1 Q05397-5 PTK2 Focal adhesion kinase 1 1 0 LQPQEIS(1)PPPTANLDR;LQPQEIS(0.998)PPPT(0.002)ANLDR ; 173.77 5.78E-09 22940100 1967.8 2209.15 1903.39 1887 2136.99 3040.26 2301.27 2597.02 2346.8 2278.78 TRUE FALSE FALSE 2174.782233 2280.727909 2162.774077 1923.525614 1973.254288 2781.212744 2042.325043 2530.591989 2330.468428 2377.029358 0.914916017 0.959486639 0.909864268 0.809214075 0.830134589 1.170037187 0.859192183 1.064602749 0.980412135 1 11.21494401 -2.776345259 14.5212324 0.950219027 1.050807557 0 0.105044125 0 0 0.013069992 0 0.001673612 2.776345259 0.100588529 LQPSS(ph)SPENSLDPFPPR ddPTM_HeLa_SAHA_4h_R1 1 LQPSSSPENSLDPFPPR 17 0 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 LQPS(0.125)S(0.568)S(0.306)PENSLDPFPPR 133.86 2.73E-06 0 287.44 314.5 369.42 350.48 378.92 439.9 416.42 350.11 283.94 199.71 TRUE FALSE FALSE 317.674258 324.6900064 419.7626337 357.2640472 349.8872315 402.4180452 369.5633256 341.1546932 281.9640384 208.3204755 1.524930554 1.558608224 2.014985002 1.714973271 1.67956237 1.931725839 1.774013451 1.637643599 1.35351092 1 7.702660836 -8.347596918 0.510908167 0.978546921 1.803042147 0.655534393 0.161587275 0.253021893 0.142997601 0.092658702 0.040662138 4.49E-09 8.347596918 0.824495226 LQPSSS(ph)PENSLDPFPPR ddPTM_HeLa_SAHA_4h_R1 5 LQPSSSPENSLDPFPPR 17 0 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 LQPS(0.017)S(0.064)S(0.915)PENS(0.004)LDPFPPR;LQPS(0.008)S(0.029)S(0.963)PENS(0.001)LDPFPPR;LQPS(0.008)S(0.03)S(0.961)PENSLDPFPPR;LQPS(0.038)S(0.12)S(0.804)PENS(0.038)LDPFPPR;LQPS(0.007)S(0.061)S(0.569)PENS(0.364)LDPFPPR ;;;; 220.72 4.15E-21 236689200 6774.07 7360.81 6919.65 6621.86 7960.91 8209.19 8263.35 7477.1 8057.17 7204.63 TRUE FALSE FALSE 7486.597763 7599.305074 7862.623866 6750.035676 7350.946796 7509.720828 7333.53611 7285.846609 8001.099498 7515.256858 0.996186545 1.011183678 1.046221575 0.898177641 0.978136468 0.999263361 0.975819756 0.969474064 1.06464751 1 12.8756067 -6.294045528 24.999917 1.002608114 0.967546244 0.356285323 0.034459984 651.6737951 499652.7531 0.004280439 0.006538673 5.08E-07 6.294045528 -0.03506187 LQQELDDLLVDLDHQR ddPTM_HeLa_SAHA_4h_R1 2 LQQELDDLLVDLDHQR 16 0 P35579 P35579 MYH9 Myosin-9 0 0 ; ; 223.15 3.47E-21 23981000 2358.05 2603.41 2081.66 2233.85 2968.61 2658.72 2959.76 3005.8 3027 2473.45 FALSE FALSE TRUE 2606.080518 2687.762192 2365.337784 2277.089397 2741.155743 2432.182098 2626.720015 2928.915988 3005.934861 2580.092534 1.010072501 1.041730929 0.91676471 0.882561136 1.062425361 0.94267243 1.018072019 1.13519804 1.165049246 1 11.33320709 -4.288695249 3.785446967 0.99294512 1.14605049 0.203625675 0.07600907 0.180229923 4.89474167 0.007205722 0.073013781 5.14E-05 4.288695249 0.15310537 LQQELDDLTVDLDHQR ddPTM_HeLa_SAHA_4h_R1 1 LQQELDDLTVDLDHQR 16 0 P35580;P35580-5;P35580-2;P35580-3;P35580-4 P35580 MYH10 Myosin-10 0 0 216 1.90E-20 1346300 704.02 818.05 876.32 848.8 932.7 941.59 1119.8 818.24 1113.9 953.95 FALSE FALSE TRUE 778.0720538 844.5553567 995.7403259 865.2297514 861.2367275 861.3612348 993.7971568 797.3106056 1106.148279 995.079453 0.781919526 0.84873158 1.000664141 0.869508207 0.865495438 0.865620561 0.998711363 0.80125321 1.111618048 1 9.958667913 -9.633683755 1.47627504 0.999567096 0.869491609 0.406253265 0.077907171 0.404840677 1.593829451 0.051008523 0.01177948 2.32E-10 9.633683755 -0.130075487 LQQGAGLES(ph)PQGQPEPGAAS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 3 LQQGAGLESPQGQPEPGAASPQR 23 0 Q9H6F5 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 2 0 LQQGAGLES(1)PQGQPEPGAAS(1)PQR;LQQGAGLES(1)PQGQPEPGAAS(1)PQR;LQQGAGLES(1)PQGQPEPGAAS(1)PQR ;; 180.11 1.00E-10 21989000 2747.38 3131.92 2682.98 3498.01 3034.72 3565.52 3089.55 3362.94 3420.01 3227.16 TRUE FALSE FALSE 3036.362034 3233.396263 3048.602542 3565.719042 2802.200409 3261.717637 2741.905703 3276.920864 3396.209872 3366.298661 0.901988308 0.960519725 0.9056245 1.059240252 0.832427747 0.968932934 0.81451647 0.973449237 1.008885489 1 11.71694746 LQQGAGLESPQGQPEPGAAS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 4 LQQGAGLESPQGQPEPGAASPQR 23 0 Q9H6F5 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 1 0 LQQGAGLES(0.001)PQGQPEPGAAS(0.999)PQR;LQQGAGLES(0.005)PQGQPEPGAAS(0.995)PQR;LQQGAGLESPQGQPEPGAAS(1)PQR;LQQGAGLESPQGQPEPGAAS(1)PQR ;;; 124.57 5.54E-06 165323000 5845.5 6671.8 5295.41 6140.6 5949.5 7198.4 6642.2 5802.2 7613.9 6089.6 TRUE FALSE FALSE 6460.35651 6887.970698 6017.040897 6259.460192 5493.650595 6585.055823 5894.802175 5653.788125 7560.91425 6352.152458 1.017034234 1.084352232 0.947244408 0.985407739 0.864848669 1.036665267 0.928000739 0.890058632 1.190291685 1 12.63302982 -6.574907249 24.88639038 1.014077919 0.943855418 0.327661055 0.07478268 80.80745789 38651.6543 0.00741534 0.010486875 2.66E-07 6.574907249 -0.070222501 LQQGAGLESPQGQPEPGAAS(ph)PQRQQDLHLESPQR ddPTM_HeLa_SAHA_4h_R1 2 LQQGAGLESPQGQPEPGAASPQRQQDLHLESPQR 34 1 Q9H6F5 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 1 0 LQQGAGLES(0.001)PQGQPEPGAAS(0.994)PQRQQDLHLES(0.005)PQR;LQQGAGLES(0.001)PQGQPEPGAAS(0.998)PQRQQDLHLES(0.001)PQR ; 87.749 2.43E-08 44310000 2644.9 2146.8 2543.9 2354.4 2521.5 2741.1 3346.2 3695.3 2136.29 2793.3 TRUE FALSE FALSE 2923.102717 2216.357729 2890.569444 2399.972817 2328.303215 2507.542859 2969.676769 3600.779577 2121.423384 2913.732833 1.003215766 0.760659215 0.99205027 0.823676347 0.79907917 0.86059464 1.019200091 1.235796067 0.728077523 1 11.50865288 -4.316198991 3.406147407 0.948772552 1.256815221 0.365875197 0.117490676 0.210218131 4.060248351 0.015063848 0.15276145 4.83E-05 4.316198991 0.308042669 LQQQAALS(ph)PTTAPAVSSVSK ddPTM_HeLa_SAHA_4h_R1 1 LQQQAALSPTTAPAVSSVSK 20 0 A0A0U1RRM1;Q8WXI9;A0A0U1RR30 A0A0U1RRM1 GATAD2B Transcriptional repressor p66-beta 1 0 LQQQAALS(0.788)PT(0.173)T(0.038)APAVSSVSK 174.2 2.49E-09 10892000 2462.2 2860.9 2829.5 2629.6 2812.5 3314.7 2949.1 2868.2 2890.5 2893.7 TRUE FALSE FALSE 2721.185493 2953.595037 3215.089525 2680.49971 2597.006858 3032.268912 2617.259506 2794.835597 2870.384775 3018.461568 0.901514043 0.978510069 1.065141779 0.888035063 0.860374333 1.004574298 0.867083926 0.925913925 0.950942959 1 11.55959772 LQQQHSEQPPLQPS(ph)PVMTR ddPTM_HeLa_SAHA_4h_R1 3 LQQQHSEQPPLQPSPVMTR 19 0 A0A0A0MSK5;J3KN66;Q5JTV8;Q5JTV8-3;H0YDU3;Q5JTV8-2 A0A0A0MSK5 TOR1AIP1 Torsin-1A-interacting protein 1 1 0 LQQQHSEQPPLQPS(0.801)PVMT(0.199)R;LQQQHSEQPPLQPS(0.979)PVMT(0.021)R;LQQQHSEQPPLQPS(0.951)PVMT(0.049)R ;; 164.19 2.30E-06 33271300 2267.28 3674.17 2495.39 2488.05 2885.77 3213.21 3185.67 2579.25 3141.07 2770.26 TRUE FALSE FALSE 2505.762913 3793.215519 2835.448754 2536.209806 2664.662926 2939.426431 2827.210027 2513.27652 3119.211038 2889.699466 0.867136165 1.312667827 0.981226175 0.877672518 0.922124587 1.017208352 0.978375108 0.869736299 1.079424028 1 11.49670374 -4.256462903 21.59991816 0.966452903 0.869736032 0.022157591 0.12505996 209.3190854 908292.3886 0.01700843 0.178034466 5.54E-05 4.256462903 -0.096716871 LQQTVPADAS(ph)PDSK ddPTM_HeLa_SAHA_4h_R1 1 LQQTVPADASPDSK 14 0 Q9NS56-2;Q9NS56 Q9NS56-2 TOPORS E3 ubiquitin-protein ligase Topors 1 0 LQQTVPADAS(0.809)PDS(0.191)K 182.7 2.62E-07 14055000 3280.8 3970.6 2801.1 4355.8 4731.3 5453.2 4632.8 4281.9 5338 3850.2 TRUE FALSE FALSE 3625.889597 4099.250045 3182.81932 4440.112808 4368.788816 4988.556681 4111.505151 4172.375198 5300.852423 4016.200964 0.902815778 1.020678517 0.792495034 1.105550456 1.087791387 1.242108332 1.023729935 1.038886061 1.319867325 1 11.97161575 -6.175103118 24.99867065 0.94797381 1.102657813 0.018400605 0.142296413 52.95196601 15331.23814 0.012034651 0.019957211 6.68E-07 6.175103118 0.154684003 LQS(ph)EPESIR ddPTM_HeLa_SAHA_4h_R1 1 LQSEPESIR 9 0 P09496-2;P09496-4;P09496-3;P09496;F8WF69 P09496-2 CLTA Clathrin light chain A 1 0 LQS(1)EPESIR 109.72 0.0063651 2969000 466.83 641.27 664.16 533.57 790.4 897.14 526.87 799.11 679.19 698.92 TRUE FALSE FALSE 515.9333213 662.0475688 754.668266 543.8980189 729.8397228 820.6986248 467.585201 778.6699233 674.4634615 729.0538616 0.707675178 0.908091437 1.035133761 0.746032697 1.001077919 1.125703694 0.641358925 1.068055413 0.925121582 1 9.509881593 -7.014541287 24.62310804 0.859111705 0.929561905 0.023204827 0.154206282 1695.420707 2870897.472 0.027315435 0.034150839 9.67E-08 7.014541287 0.070450201 LQS(ph)PIKEENTTAVEEIGR ddPTM_HeLa_SAHA_4h_R1 1 LQSPIKEENTTAVEEIGR 18 1 S4R3Y0;S4R3P6;S4R3N2;A0A087X1L0;S4R2X9;Q9NS73-3;Q9NS73-2;Q9NS73-5;Q9NS73 S4R3Y0 MBIP MAP3K12-binding inhibitory protein 1 1 0 LQS(0.826)PIKEENT(0.073)T(0.102)AVEEIGR 61.52 0.014071 13556000 1069.5 1676.3 1311.6 1204.8 1455.4 1825.7 1576.5 1266 1183.6 1559.3 TRUE FALSE FALSE 1181.994917 1730.61322 1490.338017 1228.120646 1343.887566 1670.140089 1399.108071 1233.617553 1175.363231 1626.529054 0.726697697 1.063991581 0.916268919 0.755056077 0.826230287 1.026812331 0.86018019 0.758435609 0.722620496 1 10.66758088 LQS(ph)PLEPHSK ddPTM_HeLa_SAHA_4h_R1 1 LQSPLEPHSK 10 0 O15211-2;O15211 O15211-2 RGL2 Ral guanine nucleotide dissociation stimulator-like 2 1 0 LQS(1)PLEPHSK 99.941 0.0060974 0 1643.6 1421.1 1365.7 1753.2 1489.7 1720.5 1631.8 1349.6 1675.2 1477.6 TRUE FALSE FALSE 1816.481389 1467.144572 1551.810484 1787.135721 1375.559508 1573.903721 1448.185569 1315.079186 1663.542147 1541.306567 1.178533478 0.951883683 1.006814943 1.159494003 0.892463276 1.02114904 0.939583079 0.853223631 1.079306468 1 10.58993813 -4.356224074 0.566943925 1.075332049 0.739391617 0.36882199 0.080429267 2.815210299 0.650590561 0.017785496 0.606321581 4.40E-05 4.356224074 -0.335940432 LQSFDS(ph)PER ddPTM_HeLa_SAHA_4h_R1 6 LQSFDSPER 9 0 E9PGM9;P78332;P78332-2 E9PGM9 RBM6 RNA-binding protein 6 1 0 LQS(0.033)FDS(0.967)PER;LQS(0.001)FDS(0.999)PER;LQS(0.001)FDS(0.999)PER;LQSFDS(1)PER;LQS(0.008)FDS(0.992)PER;LQS(0.009)FDS(0.991)PER ;;;;; 147.58 0.00054154 133193600 12753.8 13272.3 11425.7 12482.3 12634.4 13781.7 13979.3 12386.3 13552 12907 TRUE FALSE FALSE 14095.3032 13702.33123 12982.73489 12723.91297 11666.355 12607.42163 12406.31237 12069.47638 13457.69053 13463.48394 1.046928363 1.017740378 0.964292375 0.945068381 0.866518284 0.936415989 0.921478603 0.896460117 0.999569695 1 13.71676416 -6.442453047 1.850956235 1.022676411 0.909639065 0.816624599 0.023104565 0.10467903 0.708815071 0.004119315 0.006762955 3.61E-07 6.442453047 -0.113037346 LQSIGT(ph)ENTEENR ddPTM_HeLa_SAHA_4h_R1 1 LQSIGTENTEENR 13 0 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7;H3BR04;H3BMQ8 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 1 0 LQSIGT(0.975)ENT(0.025)EENR 180.85 1.09E-05 8797400 660.26 1041.5 512.78 1019.2 810.99 1045.6 935.02 765.51 1053.6 972.74 TRUE FALSE FALSE 729.7091762 1075.245283 582.658988 1038.92809 748.8521214 956.5089976 829.8090888 745.9293626 1046.267912 1014.679582 0.719152321 1.059689485 0.574229538 1.0238977 0.738018321 0.942670982 0.817804067 0.735137846 1.031131335 1 9.986808506 -9.56757654 1.324836285 1.00064696 0.818162258 0.216927759 0.141596706 0.557426387 1.743500209 0.091471572 0.02114887 2.71E-10 9.56757654 -0.182484702 LQSIGTENTEENR ddPTM_HeLa_SAHA_4h_R1 4 LQSIGTENTEENR 13 0 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7;H3BR04;H3BMQ8 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 ;;; ;;; 282.21 1.12E-66 40490100 2396.25 2487.25 1972.98 2383.35 2558.92 3452.52 2891.9 2565.36 3841.95 2509.97 FALSE FALSE TRUE 2648.298569 2567.838532 2241.84744 2429.483186 2362.856102 3158.345873 2566.495801 2499.741806 3815.213557 2618.18709 1.011500889 0.980769687 0.856259451 0.927925737 0.902477944 1.206310231 0.980256839 0.954760573 1.457196688 1 11.35435248 LQSIGTENTEENRR ddPTM_HeLa_SAHA_4h_R1 5 LQSIGTENTEENRR 14 1 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7;H3BR04;H3BMQ8 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 ;;;; ;;;; 154.13 8.87E-05 219617700 7639.96 7483.5 6525.45 7513.14 7593.44 8054.2 7933.22 8401.29 7860.7 6993.93 FALSE FALSE TRUE 8443.566046 7725.97031 7414.704343 7658.567689 7011.632268 7367.936848 7040.553207 8186.397167 7805.996749 7295.47255 1.157370683 1.059008893 1.016343258 1.049769927 0.96109364 1.009932777 0.965057871 1.122120207 1.069978222 1 12.83278571 -6.835536411 4.535832181 1.07580987 1.01619821 0.169384475 0.055264506 0.326367096 12.7262355 0.011353821 0.015194114 1.46E-07 6.835536411 -0.059611659 LQSS(ph)QEPEAPPPR ddPTM_HeLa_SAHA_4h_R1 2 LQSSQEPEAPPPR 13 0 Q5H909;Q9UNF1-2;Q9UNF1;Q5H907 Q5H909 MAGED2 Melanoma-associated antigen D2 1 0 LQS(0.339)S(0.661)QEPEAPPPR;LQS(0.085)S(0.915)QEPEAPPPR ; 131.86 0.00067429 26741000 2248.2 3343.2 2353.35 3234.8 2835.29 3758.8 3057.7 3049.9 3744.5 3226.6 TRUE FALSE FALSE 2484.675991 3451.521874 2674.052282 3297.414232 2618.050693 3438.529094 2713.639549 2971.887974 3718.44172 3365.714517 0.738231356 1.025494544 0.794497652 0.979707047 0.777858811 1.021634211 0.806259573 0.882988726 1.104800096 1 11.7166971 -9.719564448 1.632872833 0.999923721 0.858095086 0.257501682 0.104972185 0.46855678 2.25780552 0.070305487 0.015420731 1.91E-10 9.719564448 -0.141828636 LQSVQATGPS(ph)SPGR ddPTM_HeLa_SAHA_4h_R1 1 LQSVQATGPSSPGR 14 0 D6REY2;P23508;P23508-2;A0A096LNU0 D6REY2 MCC Colorectal mutant cancer protein 1 0 LQSVQATGPS(0.5)S(0.5)PGR 108.36 0.0025782 4798100 2500.9 2301.5 2250.5 2613.1 2580.7 2643.8 2437.5 2623 2821.7 2567.9 TRUE FALSE FALSE 2763.956137 2376.07011 2557.18642 2663.680329 2382.967324 2418.533366 2163.226085 2555.907458 2802.06356 2678.614736 1.031860274 0.887051832 0.954667495 0.994424578 0.889626751 0.902904525 0.807591348 0.954190024 1.046086816 1 11.38727138 -6.303387021 0.62956053 1.014742839 0.874972642 0.466008475 0.05190489 0.475657505 0.366987574 0.011693338 0.029899565 4.97E-07 6.303387021 -0.139770197 LQSVQATGPSS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 3 LQSVQATGPSSPGR 14 0 D6REY2;P23508;P23508-2;A0A096LNU0 D6REY2 MCC Colorectal mutant cancer protein 1 0 LQSVQATGPS(0.011)S(0.989)PGR;LQSVQATGPS(0.03)S(0.97)PGR;LQSVQATGPS(0.008)S(0.992)PGR ;; 220.52 1.27E-17 57592900 6895.3 6845.8 6243.4 6618.9 6517.2 6771.3 7110.9 7378.1 7625.5 6391.3 TRUE FALSE FALSE 7620.579291 7067.608412 7094.218038 6747.018381 6017.853544 6194.347146 6310.762817 7189.378885 7572.433525 6666.860221 1.143053707 1.060110483 1.064101811 1.012023375 0.902651825 0.929125096 0.94658694 1.078375524 1.135832052 1 12.70279176 -6.068588049 3.65691417 1.068169464 0.95990323 0.465089324 0.057998776 0.200108476 5.220928438 0.0102229 0.017890739 8.54E-07 6.068588049 -0.108266234 LQT(ph)PNT(ph)FPK ddPTM_HeLa_SAHA_4h_R1 1 LQTPNTFPK 9 0 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 2 0 LQT(1)PNT(1)FPK 93.442 0.0050693 0 1444.2 1606 1503.2 1549.1 1502.1 1994.8 1646.2 1582.6 1804.4 1899 TRUE FALSE FALSE 1596.107582 1658.035454 1708.048268 1579.085071 1387.009423 1824.831818 1460.965243 1542.119384 1791.843033 1980.875183 0.805758786 0.83702167 0.862269507 0.797165356 0.700200313 0.921225039 0.737535235 0.778504065 0.904571398 1 10.95192226 -10.25521626 0.321990415 1.18052668 0.785924917 0.424538766 0.064988318 3.020177816 0.244140452 0.462543445 0.024430271 5.56E-11 10.25521626 -0.394601763 LQTMKEELDFQK ddPTM_HeLa_SAHA_4h_R1 1 LQTMKEELDFQK 12 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 84.821 0.020281 1929200 281.35 321.1 386.86 589.59 571.97 485.58 731.8 374.08 495.43 634.51 FALSE FALSE TRUE 310.9436839 331.5038507 439.5792661 601.002367 528.1457822 444.2058522 649.455938 364.5115753 491.9822623 661.8668313 0.469797955 0.500861858 0.66415062 0.908041223 0.797963816 0.671140826 0.981248655 0.550732501 0.743325151 1 9.370397163 -9.602284571 1.431760878 0.998314518 0.672099659 0.067570398 0.176117671 0.398888496 1.479441748 0.122433643 0.028919912 2.50E-10 9.602284571 -0.326214859 LQTPNT(ph)FPK ddPTM_HeLa_SAHA_4h_R1 2 LQTPNTFPK 9 0 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 1 0 LQT(0.152)PNT(0.848)FPK;LQT(0.074)PNT(0.926)FPK ; 107.11 0.012538 29111600 5660.5 5307.3 5007.8 5150.7 6112.4 6454.8 5681.9 5645.2 6451 5632.4 TRUE FALSE FALSE 6255.897361 5479.260002 5690.236904 5250.399247 5644.069233 5904.814726 5042.557658 5500.803958 6406.106966 5875.240328 1.064790036 0.93260185 0.968511344 0.893648422 0.960653338 1.005033734 0.858272577 0.936268757 1.090356583 1 12.52043215 -7.249616724 24.47994697 1.030595295 0.936580359 0.571149702 0.044668683 337.4201349 698661.0716 0.00719269 0.00877305 5.63E-08 7.249616724 -0.094014935 LQTSSVLVSGLR ddPTM_HeLa_SAHA_4h_R1 2 LQTSSVLVSGLR 12 0 P22314-2;P22314;Q5JRR9;Q5JRS0;Q5JRS2;Q5JRS1;Q5JRS3 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 ; ; 119.34 0.0044564 5194000 543.97 696.7 423.819 581.09 870.24 778.61 785.67 683.01 639.15 484.14 FALSE FALSE TRUE 601.1872604 719.2735371 481.5748462 592.3378372 803.5623992 712.2680477 697.2643438 665.5395932 634.7021031 505.0136447 1.190437658 1.424265551 0.953587792 1.172914521 1.591169679 1.41039367 1.380684168 1.317864577 1.25680189 1 8.980178558 -7.305130042 0.21027039 0.904877523 1.510827461 0.171908674 0.170280142 1.798405458 0.352614374 0.402614045 0.42902419 4.95E-08 7.305130042 0.605949938 LQTTDNLLPMS(ph)PEEFDEVSR ddPTM_HeLa_SAHA_4h_R1 4 LQTTDNLLPMSPEEFDEVSR 20 0 A0A669KB68;A0A669KB56;A0A669KBA4;A0A669KB53;P42224 A0A669KB68 STAT1 Signal transducer and activator of transcription 1-alpha/beta 1 0 LQTTDNLLPMS(1)PEEFDEVSR;LQTT(0.001)DNLLPMS(0.999)PEEFDEVSR;LQTTDNLLPMS(1)PEEFDEVSR;LQT(0.001)T(0.002)DNLLPMS(0.996)PEEFDEVSR ;;; 120.54 0.0001479 6147800 3064.93 3245.33 3556.25 3200.46 3755.1 4105.03 4080.2 3688.03 3082.33 3363.16 TRUE FALSE FALSE 3387.3134 3350.480821 4040.87723 3262.409531 3467.385049 3755.25835 3621.085158 3593.695533 3060.879815 3508.162287 0.965552082 0.955052973 1.151850143 0.929948293 0.988376468 1.070434616 1.032188611 1.024381211 0.872502343 1 11.77649977 LQVELDNVTGLLSQSDSK ddPTM_HeLa_SAHA_4h_R1 2 LQVELDNVTGLLSQSDSK 18 0 P35579 P35579 MYH9 Myosin-9 0 0 ; ; 192.24 5.99E-18 8838500 1477.2 1322.1 1040.9 1442.07 1355.7 1591.03 1211.58 1326.08 1454.8 1352.55 FALSE FALSE TRUE 1632.578674 1364.936907 1182.748431 1469.98335 1251.826559 1455.465293 1075.24983 1292.160794 1444.675928 1410.86505 1.157147293 0.967446821 0.83831436 1.041902165 0.887275902 1.031611984 0.762120963 0.915864203 1.023964644 1 10.46236428 -7.044445616 7.268484175 1.073824097 0.914951631 0.365423162 0.086380864 0.188361647 26.44861857 0.015184723 0.01876367 9.03E-08 7.044445616 -0.158872466 LQVTMPGIK ddPTM_HeLa_SAHA_4h_R1 2 LQVTMPGIK 9 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ; ; 128.86 0.0023865 1571060 2240.4 2556.6 2708.1 2526.2 2645.1 2354.4 3032.4 2195.6 2204 2243.8 FALSE FALSE TRUE 2476.055551 2639.435517 3077.145765 2575.098254 2442.433009 2153.791875 2691.186371 2139.439731 2188.662185 2340.541199 1.057898726 1.127703079 1.314715488 1.10021488 1.04353344 0.92021105 1.149813715 0.914079074 0.935109446 1 11.19262644 -3.029870053 12.98343588 1.053268451 0.655457911 0 0.118073395 0 0 0.014962831 0 0.000933534 3.029870053 -0.39781054 SAGAAQK(ac)KPAATTAK ddPTM_HeLa_SAHA_4h_R1 2 SAGAAQKKPAATTAK 15 2 Q6PL18;E5RHW7;E5RIP2 Q6PL18 ATAD2 ATPase family AAA domain-containing protein 2 0 1 ; SAGAAQK(0.99)K(0.01)PAATTAK;SAGAAQK(0.743)K(0.257)PAATTAK 156.17 3.06E-07 19493300 3177.5 3793.5 5052.3 8427.6 10514.9 10736.8 13648.9 13211.4 3109.2 2539.36 FALSE TRUE FALSE 3511.724029 3916.411889 5740.801133 8590.728385 9709.250634 9821.964236 12113.08985 12873.47152 3087.562824 2648.844237 1.325757091 1.478536123 2.167285283 3.243198775 3.665466809 3.708018803 4.572971744 4.860033421 1.16562642 1 11.37114729 -5.968889036 0.649863125 1.061551312 4.86635771 0.977640521 0.207854207 0.08427336 0.064525153 0.046066789 0.159190345 1.07E-06 5.968889036 3.804806398 up LQWDGSSDLS(ph)PSDSGSSK ddPTM_HeLa_SAHA_4h_R1 4 LQWDGSSDLSPSDSGSSK 18 0 K7EJK2;K7ENU1;K7EKG9;Q14CW9;Q14CW9-2 K7EJK2 ATXN7L3 Ataxin-7-like protein 3 1 0 LQWDGSS(0.001)DLS(0.86)PS(0.136)DS(0.002)GSSK;LQWDGS(0.005)S(0.056)DLS(0.85)PS(0.088)DS(0.001)GSSK;LQWDGS(0.004)S(0.089)DLS(0.906)PS(0.001)DSGSSK;LQWDGSS(0.001)DLS(0.732)PS(0.247)DS(0.018)GS(0.002)SK ;;; 205.65 1.26E-16 32003400 5805.2 5841 5392.74 5330.9 5779.4 6171.6 6254.3 6365 6482.5 6038.1 TRUE FALSE FALSE 6415.817571 6030.252232 6127.634523 5434.087278 5336.583621 5645.74496 5550.549704 6202.192516 6437.387755 6298.432041 1.018637262 0.957421179 0.972882534 0.862768264 0.84728764 0.896373085 0.881258965 0.984720082 1.022061953 1 12.62077701 -6.609824987 1.884488156 1.007305587 0.892297979 0.626569699 0.038468707 0.148196163 1.066913895 0.00622165 0.009518434 2.46E-07 6.609824987 -0.115007608 LQYKT(ph)PPPSYNSALAQPVTTVPSMGETER ddPTM_HeLa_SAHA_4h_R1 1 LQYKTPPPSYNSALAQPVTTVPSMGETER 29 1 E9PR71;Q9P2Y5-2;Q9P2Y5 E9PR71 UVRAG UV radiation resistance-associated gene protein 1 0 LQY(0.137)KT(0.681)PPPS(0.096)Y(0.085)NS(0.001)ALAQPVTTVPSMGETER 82.65 5.60E-06 3742100 1500 1386.7 1304.2 1830.9 1645.5 1875.2 1802.4 1536 1591.8 1458.7 TRUE FALSE FALSE 1657.776882 1431.62999 1481.929584 1866.339717 1519.422145 1715.42241 1599.589208 1496.711344 1580.722534 1521.591696 1.089501794 0.940876579 0.973933801 1.226570651 0.998574157 1.127386812 1.051260475 0.98364847 1.038861173 1 10.57136556 -9.61185522 1.380744945 0.99965491 1.05542422 0.007511927 0.080696211 1.086377152 3.680126748 0.056680359 0.012682685 2.44E-10 9.61185522 0.05576931 LRAETEQGEQQR ddPTM_HeLa_SAHA_4h_R1 1 LRAETEQGEQQR 12 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 187.78 1.23E-06 4838200 788.33 850.21 742.56 781.64 1013.5 935.02 842.07 874.24 913.94 1043.2 FALSE FALSE TRUE 871.2501664 877.7573618 843.7522097 796.7697725 935.845849 855.3510357 747.3180674 851.8782067 907.5798171 1088.177457 0.800650813 0.806630716 0.775381078 0.732205733 0.860012163 0.786040025 0.68676121 0.782848607 0.834036591 1 10.08769813 -9.434010366 0.370397011 1.095220424 0.758201909 0.291791361 0.066743923 0.94406314 0.153895804 0.130309649 0.016232843 3.68E-10 9.434010366 -0.337018516 LRDADPILR ddPTM_HeLa_SAHA_4h_R1 1 LRDADPILR 9 1 P31327;P31327-3;P31327-2 P31327 CPS1 "Carbamoyl-phosphate synthase [ammonia], mitochondrial" 0 0 100.25 0.015997 3680100 1352.5 1635.1 1898.7 1635.3 1842.1 1247.9 2087.4 1338.1 1552.4 2022.7 FALSE FALSE TRUE 1494.762155 1688.078313 2157.444948 1666.953596 1700.958696 1141.5719 1852.520258 1303.87334 1541.596722 2109.908496 0.708448806 0.800071812 1.022530101 0.790059663 0.806176523 0.5410528 0.878009763 0.61797625 0.730646246 1 11.04296472 -13.52287874 0.283608524 2.828825497 0.74872365 0 0.151412877 41.67367321 0.562843358 43.26903807 0.057948467 3.00E-14 13.52287874 -2.080101847 LRDEELAELEDALR ddPTM_HeLa_SAHA_4h_R1 1 LRDEELAELEDALR 14 1 Q15628-2;Q15628 Q15628-2 TRADD Tumor necrosis factor receptor type 1-associated DEATH domain protein 0 0 155.09 2.45E-11 0 364.91 392.79 217.49 323.38 310.8 325.69 511.51 272.63 453.06 538.95 FALSE FALSE TRUE 403.2929081 405.5166537 247.1284046 329.6394875 286.9865711 297.9393797 453.9535486 265.6565194 449.9071186 562.1867721 0.717364634 0.721320162 0.439584168 0.586352266 0.510482611 0.529965119 0.807478175 0.472541391 0.800280513 1 9.134905698 -8.278007958 0.554858554 0.998035904 0.566683233 0.52246983 0.118179261 0.328040752 0.22258303 0.062638193 0.030629158 5.27E-09 8.278007958 -0.431352671 LRDLEDSLAR ddPTM_HeLa_SAHA_4h_R1 5 LRDLEDSLAR 10 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ;;;; ;;;; 187.99 1.64E-06 113743000 14719.06 13359.28 14644.26 15627.99 15939.07 12865.88 16678.95 13759.31 11082.59 13774.76 FALSE FALSE TRUE 16267.27826 13792.12944 16639.90349 15930.49234 14717.8219 11769.63464 14802.19065 13407.36677 11005.46535 14368.65732 1.132136282 0.959876009 1.158069479 1.108697354 1.024300432 0.819118612 1.030172153 0.933098095 0.765935544 1 13.81063763 -5.509190039 23.99352959 1.066186503 0.935063131 0.040008253 0.119551227 302.1822117 529662.756 0.011017579 0.02368389 3.10E-06 5.509190039 -0.131123372 LRECELS(ph)PGVNR ddPTM_HeLa_SAHA_4h_R1 1 LRECELSPGVNR 12 1 Q9BXP5-5;Q9BXP5-4;Q9BXP5-2;Q9BXP5-3;Q9BXP5;H7C3A1 Q9BXP5-5 SRRT Serrate RNA effector molecule homolog 1 0 LRECELS(1)PGVNR 91.845 0.0067695 21173000 978.13 945.57 602.89 972.62 940.09 1214.5 988.66 942.43 1034.9 842.82 TRUE FALSE FALSE 1081.014201 976.2070884 685.0487095 991.4464665 868.0605073 1111.017767 877.4133748 918.3240052 1027.698047 879.1580949 1.229601601 1.110388557 0.779209921 1.127722616 0.987377029 1.263729213 0.998015465 1.044549337 1.168957043 1 9.779978812 LREQVEER ddPTM_HeLa_SAHA_4h_R1 1 LREQVEER 8 1 O00567;H0Y653;H0YDU4;A0A494C128 O00567 NOP56 Nucleolar protein 56 0 0 106.88 0.011354 1494100 565.37 535.78 583.11 591.76 753.46 594.05 623.94 646.11 554.77 413.98 FALSE FALSE TRUE 624.8382106 553.1396235 662.5731941 603.2143705 695.7300576 543.433598 553.7326291 629.5834418 550.9093104 431.8287038 1.446958493 1.280923706 1.534342642 1.396883452 1.611125086 1.258447142 1.282296948 1.457947182 1.275758896 1 8.754315333 -9.266986428 0.738020941 0.965522892 1.41125293 0.313641063 0.136375308 0.387017329 0.332318118 0.10687369 0.021767008 5.41E-10 9.266986428 0.445730038 LRESTPGDS(ph)PSTVNK ddPTM_HeLa_SAHA_4h_R1 3 LRESTPGDSPSTVNK 15 1 Q5T6F2 Q5T6F2 UBAP2 Ubiquitin-associated protein 2 1 0 LRESTPGDS(0.995)PS(0.005)T(0.001)VNK;LRESTPGDS(0.568)PS(0.427)T(0.004)VNK;LREST(0.12)PGDS(0.88)PSTVNK ;; 238.83 1.10E-32 44127300 6873.2 6260.5 6395.1 6171.5 7977 8575.7 7904.2 7375.7 6714.3 6592 TRUE FALSE FALSE 7596.154711 6463.344308 7266.590924 6290.958307 7365.803983 7845.002114 7014.798613 7187.040274 6667.57464 6876.21338 1.10470026 0.939956914 1.056772168 0.914887011 1.071200612 1.140889859 1.020154295 1.045203207 0.969657902 1 12.7473986 LREVMESAVGNSSGSGQNEES(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 LREVMESAVGNSSGSGQNEESPR 23 1 Q9NVF7 Q9NVF7 FBXO28 F-box only protein 28 1 0 LREVMESAVGNS(0.001)S(0.01)GS(0.155)GQNEES(0.833)PR 61.393 0.0080681 0 348.53 402.47 315.53 489.51 316.77 585.32 403.77 407.33 358.98 311.86 TRUE FALSE FALSE 385.1899845 415.5102921 358.5287852 498.9851739 292.499151 535.4474431 358.3367369 396.9110884 356.481829 325.3058108 1.184085779 1.277291331 1.102128438 1.533895668 0.899151326 1.645981797 1.101538076 1.220116811 1.095836032 1 8.345652783 -8.523122888 0.482336702 0.981709682 1.268358426 0.132627544 0.203467282 1.271521104 0.595596349 0.164052892 0.058637284 3.00E-09 8.523122888 0.286648744 LRIEEEIR ddPTM_HeLa_SAHA_4h_R1 1 LRIEEEIR 8 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 109.48 0.0059414 0 826.09 815.94 1061.3 1216.2 1034.4 1184.4 1378.2 1327.9 1420.4 1323 FALSE FALSE TRUE 912.9819364 842.3769914 1205.928437 1239.74131 955.1444955 1083.482457 1223.121309 1293.934241 1410.515321 1380.041005 0.661561456 0.610399973 0.873835222 0.898336575 0.692113127 0.785108887 0.886293454 0.937605648 1.022082182 1 10.43049542 -9.539353328 1.337114683 0.998598633 0.776634913 0.394001465 0.105682867 0.397163067 1.284432138 0.078228477 0.019123689 2.89E-10 9.539353328 -0.22196372 LRLCDDGPQLPT(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 LRLCDDGPQLPTSPR 15 1 O60504-2;O60504;H0YAZ3;H0YB51 O60504-2 SORBS3 Vinexin 1 0 LRLCDDGPQLPT(0.776)S(0.224)PR 118.5 0.00098101 18675000 1208.6 1018.2 1454.3 879.95 835.99 1162.3 1046.7 1212 1036.2 1155.2 TRUE FALSE FALSE 1335.726093 1051.190348 1652.48443 896.9827047 771.9366268 1063.265501 928.9225612 1180.998795 1028.989 1205.006325 1.108480566 0.872352556 1.371349175 0.74438008 0.640607946 0.882373377 0.770886046 0.980076843 0.853928297 1 10.234825 LRLCDDGPQLPTS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 LRLCDDGPQLPTSPR 15 1 O60504-2;O60504;H0YAZ3;H0YB51 O60504-2 SORBS3 Vinexin 1 0 LRLCDDGPQLPT(0.04)S(0.96)PR;LRLCDDGPQLPT(0.008)S(0.992)PR;LRLCDDGPQLPT(0.146)S(0.854)PR ;; 134.82 0.00012669 159090000 5274.2 4190.51 5263.4 4622.1 4574.4 4986.4 5319 4589.2 3664.8 5044.4 TRUE FALSE FALSE 5828.964555 4326.285273 5980.668741 4711.567429 4223.91046 4561.530667 4720.492121 4471.814909 3639.296358 5261.888771 1.107770386 0.82219246 1.136601134 0.895413726 0.802736554 0.866899865 0.897109826 0.84984976 0.691633084 1 12.36136504 -6.095004794 6.315544238 1.036999062 0.857013678 0 0.136565474 0.144778069 8.056572546 0.012484244 0.020873777 8.04E-07 6.095004794 -0.179985384 LRLDTGS(ph)PEPETR ddPTM_HeLa_SAHA_4h_R1 4 LRLDTGSPEPETR 13 1 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 LRLDT(0.002)GS(0.998)PEPETR;LRLDT(0.026)GS(0.974)PEPETR;LRLDT(0.025)GS(0.967)PEPET(0.009)R;LRLDT(0.001)GS(0.999)PEPETR ;;; 98.408 0.0037325 112671000 6128.1 6366 5972.37 5496.4 6594.9 7239.3 7782.9 6949.8 5411.4 5943.4 TRUE FALSE FALSE 6772.681675 6572.262577 6786.253481 5602.79077 6089.600187 6622.470913 6907.147609 6772.034179 5373.741627 6199.64906 1.092429847 1.060102356 1.094618972 0.903727084 0.982249177 1.068200933 1.114119129 1.092325406 0.866781583 1 12.59797084 -4.998196205 7.689533568 1.035080798 1.10056957 0.14584437 0.075705646 0.161899142 76.21075844 0.008591396 0.024595868 1.00E-05 4.998196205 0.065488771 LRLS(ph)PSPT(ph)SQR ddPTM_HeLa_SAHA_4h_R1 3 LRLSPSPTSQR 11 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 2 0 LRLS(0.97)PS(0.131)PT(0.836)S(0.063)QR;LRLS(0.938)PS(0.062)PT(0.929)S(0.071)QR;LRLS(0.957)PS(0.047)PT(0.926)S(0.07)QR ;; 140.33 0.0055072 983642000 14683.1 13786.7 13721.7 15347.3 16015.4 17312.6 15350.3 15679.8 16741.7 14795.9 TRUE FALSE FALSE 16227.53583 14233.39813 15591.62182 15644.36918 14788.30351 15837.46908 13623.04384 15278.73342 16625.19315 15433.82366 1.0514268 0.922221119 1.010224178 1.013641825 0.958174969 1.0261533 0.882674582 0.989951276 1.077192115 1 13.91380791 -5.483903395 0.539746149 1.020015358 0.937622838 0.208414807 0.049357742 1.643540832 0.672973194 0.010367724 0.067969572 3.28E-06 5.483903395 -0.08239252 LRLS(ph)PSPTSQR ddPTM_HeLa_SAHA_4h_R1 2 LRLSPSPTSQR 11 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 LRLS(1)PSPTSQR;LRLS(0.99)PS(0.008)PT(0.002)S(0.001)QR ; 72.815 0.019167 2190700000 848.87 869.55 825.95 823.73 949.37 978.33 933.15 828.18 722.32 712.41 TRUE FALSE FALSE 938.1580414 897.7239905 938.5061646 839.6744853 876.6294757 894.9707801 828.1495061 806.9963548 717.2933163 743.1254815 1.262449027 1.208038229 1.262917486 1.129922881 1.17965202 1.204333322 1.114414088 1.085948975 0.965238488 1 9.53746203 -9.454156997 1.191578221 1.000121714 1.189244208 0.644843057 0.057854893 0.2747385 0.698478071 0.042423869 0.010551172 3.51E-10 9.454156997 0.189122494 LRPVS(ph)PEEIR ddPTM_HeLa_SAHA_4h_R1 1 LRPVSPEEIR 10 1 J3KNG6;Q08AE8-4;Q08AE8-3;Q08AE8-5;Q08AE8-2;Q08AE8;K7EMJ7 J3KNG6 SPIRE1 Protein spire homolog 1 1 0 LRPVS(1)PEEIR 77.204 0.017088 3435900 588.45 726.03 462.88 800.43 656.42 971.11 1005.5 766.39 948.11 731.37 TRUE FALSE FALSE 650.3458709 749.5538484 525.9588758 815.9234801 606.1252414 888.3659647 892.3584937 746.7868535 941.5120253 762.9029399 0.852462138 0.982502241 0.689417812 1.069498408 0.7944985 1.164454766 1.169688104 0.978875312 1.234117705 1 9.575355712 -5.24845431 24.96240766 0.917182457 1.110874274 0.168789891 0.151540096 605.5606485 1164123.055 0.015469976 0.039170284 5.64E-06 5.24845431 0.193691817 LRQDLQDR ddPTM_HeLa_SAHA_4h_R1 2 LRQDLQDR 8 1 P12270 P12270 TPR Nucleoprotein TPR 0 0 ; ; 104.2 0.0065321 0 2064.77 1976.38 1838.57 1821.81 2444.1 2076.42 2181.52 1950.63 1833.39 2093.32 FALSE FALSE TRUE 2281.951982 2040.416009 2089.120745 1857.073767 2256.833586 1899.497334 1936.049628 1900.735709 1820.63129 2183.57327 1.045054001 0.934438994 0.956744055 0.850474675 1.033550656 0.869903182 0.886642851 0.870470314 0.833785298 1 11.09247523 -7.06509139 2.600930332 1.021218614 0.910955653 0 0.0783031 0.17178536 2.284679408 0.008591303 0.010920083 8.61E-08 7.06509139 -0.110262961 LRQIFNGTFVK ddPTM_HeLa_SAHA_4h_R1 1 LRQIFNGTFVK 11 1 P18124;A8MUD9;C9JZ88;C9JIJ5 P18124 RPL7 60S ribosomal protein L7 0 0 111.52 0.0033027 796890 356.47 306.42 560.4 387.18 500.91 174.07 512.57 125.51 0 248.18 FALSE FALSE TRUE 393.9651501 316.348209 636.7683936 394.6744288 462.530384 159.2382567 454.8942746 122.2996359 0 258.8802544 1.521804554 1.221986628 2.459702441 1.524544349 1.786657639 0.61510391 1.757160953 0.472417783 0 1 8.01614112 -5.263630171 24.99148549 1.395719004 1.029120911 0.06802846 0.668099262 373.441483 4260070.659 0.074124634 0.173698364 5.45E-06 5.263630171 -0.366598093 LRRPS(ph)PPEPWDEEDGASCSTFFGSEER ddPTM_HeLa_SAHA_4h_R1 1 LRRPSPPEPWDEEDGASCSTFFGSEER 27 2 A0A0J9YX88;E9PJ24;B7ZM65;F8WEF5;A0A0J9YYB5;A0A0J9YWD5;Q9P1Y6-2;Q9P1Y6-3;Q9P1Y6 A0A0J9YX88 PHRF1 PHD and RING finger domain-containing protein 1 1 0 LRRPS(0.999)PPEPWDEEDGAS(0.001)CSTFFGSEER 72.009 0.00034395 16680000 596.57 436.05 633.87 547.18 745.45 659.93 821.12 487.67 651.51 545.8 TRUE FALSE FALSE 659.3199698 450.1783061 720.2505025 557.7714601 688.333782 603.7002513 728.7254165 475.1961075 646.9760889 569.3321091 1.158058643 0.790713011 1.265079715 0.979694367 1.209019781 1.060365719 1.279965428 0.834655379 1.136377307 1 9.153126657 LRS(ph)PPEALVQGR ddPTM_HeLa_SAHA_4h_R1 1 LRSPPEALVQGR 12 1 Q9UHB6;F8VRN8;Q9UHB6-4 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 LRS(1)PPEALVQGR 89.356 0.0077951 34521000 1105.3 1117.5 1237.2 1159.8 1104.2 1387 1188.7 1265 1201.1 1243.8 TRUE FALSE FALSE 1221.560525 1153.707733 1405.799173 1182.249606 1019.596435 1268.819797 1054.944348 1232.643132 1192.741447 1297.426305 0.941525943 0.88922795 1.083529113 0.911226789 0.78586077 0.977951343 0.81310541 0.950067936 0.919313446 1 10.34143688 -6.011478699 24.88375449 0.972820045 0.879318791 0.237749386 0.071887133 480.9426436 1042600.322 0.009666739 0.016675327 9.74E-07 6.011478699 -0.093501253 LRS(ph)PSNDSAHR ddPTM_HeLa_SAHA_4h_R1 4 LRSPSNDSAHR 11 1 Q5T200-2;Q5T200 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 LRS(0.995)PS(0.005)NDSAHR;LRS(0.993)PS(0.004)NDS(0.003)AHR;LRS(0.962)PS(0.036)NDS(0.002)AHR;LRS(0.977)PS(0.023)NDSAHR ;;; 115.09 0.0017377 29715500 1271.95 1560.075 834.6 1776.22 1933.07 3102.23 2415.87 2460.76 1687.52 2334.29 TRUE FALSE FALSE 1405.739537 1610.622454 948.3349416 1810.601307 1784.958594 2837.902551 2144.029949 2397.817322 1675.776411 2434.932666 0.577321729 0.661464884 0.389470705 0.743593994 0.733062815 1.165495289 0.880529462 0.984757138 0.688222896 1 11.24966616 -5.287824184 23.7891804 0.745559553 0.997287517 0.418564639 0.165059368 446.4140962 402497.2561 0.030668899 0.068603257 5.15E-06 5.287824184 0.251727963 LRTGDLGIPPNPEDRS(ph)PS(ph)PEPIYNSEGK ddPTM_HeLa_SAHA_4h_R1 1 LRTGDLGIPPNPEDRSPSPEPIYNSEGK 28 2 Q15637-6;Q15637-4;Q15637-3;Q15637-2;Q15637;Q15637-7;Q15637-5 Q15637-6 SF1 Splicing factor 1 2 0 LRT(0.011)GDLGIPPNPEDRS(0.927)PS(0.915)PEPIY(0.091)NS(0.056)EGK 47.73 0.019458 3777700 462.83 423.92 682.17 633.8 546.76 763.98 767.43 603.68 516 717.2 TRUE FALSE FALSE 511.5125829 437.6552861 775.132575 646.0681155 504.8673669 698.884606 681.0767566 588.2387397 512.409114 748.1220019 0.683728833 0.585005233 1.036104503 0.863586573 0.674846303 0.934185339 0.910381936 0.786287181 0.684927208 1 9.54712975 -9.566844674 1.381835766 0.998658178 0.797166023 0 0.160935901 0.49882446 1.725193787 0.091560792 0.022129973 2.71E-10 9.566844674 -0.201492154 LRTPIKMGIS(ph)AS(ph)TMT(ph)MKK ddPTM_HeLa_SAHA_4h_R1 1 LRTPIKMGISASTMTMKK 18 3 Q12955 Q12955 ANK3 Ankyrin-3 3 0 LRT(0.096)PIKMGIS(0.835)AS(0.546)T(0.546)MT(0.977)MKK 42.813 0.0088014 0 842.16 605.96 606.79 875.91 732.06 1054.7 1032.2 928.52 829.85 992.37 TRUE FALSE FALSE 930.7422528 625.5935016 689.4801812 892.8645046 675.969721 964.8336264 916.0541394 904.7698029 824.0750063 1035.155927 0.899132419 0.604347118 0.666064081 0.862541073 0.653012462 0.932065983 0.884943143 0.874042044 0.796087801 1 10.01563238 -7.522447179 4.670108655 0.95782907 0.783467327 0.126383284 0.117765521 0.161330917 8.365645488 0.019987228 0.021702384 3.00E-08 7.522447179 -0.174361743 LRVEFPR ddPTM_HeLa_SAHA_4h_R1 2 LRVEFPR 7 1 Q13242;S4R3G0;J3KTL2;Q07955;Q07955-3;Q07955-2 Q13242;J3KTL2 SRSF9;SRSF1 Serine/arginine-rich splicing factor 9;Serine/arginine-rich splicing factor 1 0 0 ; ; 96.19 0.0095444 2425800 1390.26 1431.55 3076.6 1777.87 1919.26 752.54 2138.02 636.38 623.6 853.84 FALSE FALSE TRUE 1536.493926 1477.933159 3495.863026 1812.283245 1772.206713 688.4193583 1897.444363 620.1023211 619.2603168 890.653221 1.725131498 1.659381142 3.925055166 2.034779869 1.989783085 0.772937595 2.13039634 0.696233176 0.695287798 1 9.798720012 -4.237347996 21.33533636 1.632855 0.696225037 0.099944936 0.884244606 1677.459524 1485380.5 0.123643305 7.260190163 5.79E-05 4.237347996 -0.936629963 LRVQS(ph)PEPPAPER ddPTM_HeLa_SAHA_4h_R1 1 LRVQSPEPPAPER 13 1 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;A0A0G2JPP5;Q14160-3;H0YCG0 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 LRVQS(1)PEPPAPER 96.773 0.0041956 17496000 623.51 748.77 683.89 688.92 510 504.67 863.19 822.29 695.29 488.63 TRUE FALSE FALSE 689.0936426 773.0306393 777.0869677 702.2550428 470.9239102 461.6692768 766.0615894 801.2570125 690.4514203 509.6972306 1.351966621 1.516646732 1.524605042 1.377788618 0.923928721 0.905771601 1.502973812 1.572025439 1.354630512 1 8.993496704 -9.135813159 0.969619457 1.006232654 1.323852776 0 0.249772455 0.705342153 1.228262426 0.147892857 0.046321149 7.31E-10 9.135813159 0.317620122 LS(ph)AFRPWSPAVS(ph)AS(ph)EK ddPTM_HeLa_SAHA_4h_R1 1 LSAFRPWSPAVSASEK 16 1 P12755 P12755 SKI Ski oncogene 3 0 LS(1)AFRPWS(0.009)PAVS(0.996)AS(0.995)EK 62.611 0.01945 2438500 737.19 768.96 719.74 711.63 744.18 999.64 1057.7 924.28 763.3 861.49 TRUE FALSE FALSE 814.7310265 793.8748085 817.822419 725.4046277 687.1610892 914.4650482 938.6848123 900.6382559 757.9881332 898.6330499 0.906633722 0.883424896 0.910073827 0.807231192 0.764673733 1.017617868 1.044569652 1.002231396 0.843490158 1 9.811588312 -5.043710261 24.9984127 0.922197022 1.025324193 0.356514347 0.072852545 480.5862773 274852.8156 0.01183567 0.030177387 9.04E-06 5.043710261 0.103127171 LS(ph)CEPVMEEK ddPTM_HeLa_SAHA_4h_R1 1 LSCEPVMEEK 10 0 C9JEZ4;Q9UKI2 C9JEZ4 CDC42EP3 Cdc42 effector protein 3 1 0 LS(1)CEPVMEEK 136.96 0.0012746 9804400 563.68 725.82 628.8 803.97 918.87 1047.8 801.62 819.59 761.62 572.4 TRUE FALSE FALSE 622.9704487 749.3370442 714.4895894 819.5320019 848.4663791 958.5215452 711.4196079 798.6260746 756.3198244 597.0789653 1.043363583 1.255004929 1.196641702 1.372568872 1.421028756 1.605351387 1.191500035 1.3375552 1.266699831 1 9.221777934 -6.907529208 1.067113035 1.011709587 1.389754688 0.400650792 0.131013724 0.182242864 0.410242895 0.020357401 0.028926722 1.24E-07 6.907529208 0.378045101 LS(ph)CSENELFVS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 LSCSENELFVSR 12 0 A0A1B0GUQ4;Q68DX3-2;Q68DX3 A0A1B0GUQ4 FRMPD2 FERM and PDZ domain-containing protein 2 2 0 LS(0.985)CS(0.015)ENELFVS(1)R 66.738 0.019358 15826000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 LS(ph)DSENEEPSR ddPTM_HeLa_SAHA_4h_R1 1 LSDSENEEPSR 11 0 Q8NCN4 Q8NCN4 RNF169 E3 ubiquitin-protein ligase RNF169 1 0 LS(0.895)DS(0.103)ENEEPS(0.001)R 89.26 0.0074383 0 247.72 398.38 173.99 268.17 313.02 241.98 377.81 309.86 430.4 146.29 TRUE FALSE FALSE 273.7763262 411.2877734 197.7004511 273.3608181 289.0364752 221.3619427 335.2978245 301.9342299 427.4048114 152.5972778 1.794110158 2.69524974 1.295569973 1.791387252 1.894112918 1.450628385 2.197272646 1.978634443 2.800867862 1 7.253585416 -8.875883429 0.807957656 1.014780142 1.8803331 0 0.662934874 0.423401249 0.525970643 0.208140269 0.074059004 1.33E-09 8.875883429 0.865552958 LS(ph)HQT(ph)VLMT(ph)R ddPTM_HeLa_SAHA_4h_R1 2 LSHQTVLMTR 10 0 J3KNY7;Q9NXS3-2;Q9NXS3 J3KNY7 KLHL28 Kelch-like protein 28 3 0 LS(1)HQT(1)VLMT(1)R;LS(1)HQT(1)VLMT(1)R ; 92.19 0.018364 8127400 267.29 237.73 227.3 208.52 361.18 385.44 139 264.04 366.7 244.65 TRUE FALSE FALSE 295.4047886 245.432608 258.2752603 212.5562061 333.5064664 352.5983436 123.3593542 257.2862391 364.1481048 255.1980588 1.15755108 0.961733836 1.012058091 0.83290683 1.306853461 1.381665461 0.483386726 1.008182587 1.426923491 1 7.995473545 -4.7572438 24.99999694 1.079198652 0.745784774 0.305948124 0.222105434 87.89367417 523706.2685 0.025663022 0.089567419 1.75E-05 4.7572438 -0.333413878 LS(ph)KSQGGEEEGPLSDK ddPTM_HeLa_SAHA_4h_R1 1 LSKSQGGEEEGPLSDK 16 1 E9PR76;E9PSH4;Q9H063 E9PR76 MAF1 Repressor of RNA polymerase III transcription MAF1 homolog 1 0 LS(0.612)KS(0.388)QGGEEEGPLSDK 81.357 0.0071609 29221000 1342.4 1514.2 1269.3 1321.7 1625 1660.5 1748.1 1656.9 1068 1405.5 TRUE FALSE FALSE 1483.599791 1563.261074 1442.273594 1347.283415 1500.492851 1519.016058 1551.399187 1614.518897 1060.567701 1466.097983 1.011937679 1.066273258 0.983749797 0.918958644 1.023460143 1.036094501 1.058182471 1.10123533 0.72339483 1 10.51776581 -4.680546167 1.514220703 1.003419524 1.103083202 0.118993444 0.095155527 0.408124757 1.427224255 0.005219843 0.047992376 2.09E-05 4.680546167 0.099663679 LS(ph)LLDQRDLETDEV ddPTM_HeLa_SAHA_4h_R1 1 LSLLDQRDLETDEV 14 1 C9IYH8 C9IYH8 BACH1 1 0 LS(1)LLDQRDLETDEV 58.098 0.018956 6798900 0 0 0 0 198.25 129.36 0 0 62.395 0 TRUE FALSE FALSE 0 0 0 0 183.0601278 118.3378002 0 0 61.96078811 0 0 LS(ph)NGSFSAPSLTNSR ddPTM_HeLa_SAHA_4h_R1 2 LSNGSFSAPSLTNSR 15 0 O94806;O94806-2 O94806 PRKD3 Serine/threonine-protein kinase D3 1 0 LS(0.999)NGS(0.001)FSAPSLTNSR;LS(0.642)NGS(0.209)FS(0.129)APS(0.018)LT(0.001)NSR ; 150.9 5.68E-05 31949000 1022.05 814.6 931.82 1105.46 991.18 1321.51 1075.24 1393.65 1267.42 1082.24 TRUE FALSE FALSE 1129.553908 840.9935745 1058.803577 1126.857777 915.2360025 1208.909913 954.2511653 1358.002451 1258.599921 1128.900663 1.000578656 0.744966853 0.937906772 0.998190376 0.810732098 1.070873597 0.845292413 1.202942381 1.114889877 1 10.14070283 -3.210446335 13.61586438 0.972673308 0.959798443 0 0.134379709 0 0 0.015246955 0 0.000615962 3.210446335 -0.012874865 LS(ph)PANQR ddPTM_HeLa_SAHA_4h_R1 1 LSPANQR 7 0 Q13263;Q13263-2;M0R0K9 Q13263 TRIM28 Transcription intermediary factor 1-beta 1 0 LS(1)PANQR 96.665 0.015817 18188000 1571.7 2015.5 1227.9 2406.6 2489.9 3498.1 2662.4 1851.5 3204 2636.2 TRUE FALSE FALSE 1737.018617 2080.803522 1395.231817 2453.183223 2299.1244 3200.0422 2362.819745 1804.141311 3181.703103 2749.859483 0.63167541 0.756694491 0.50738295 0.892112211 0.836087958 1.163711171 0.859251085 0.65608491 1.157042068 1 11.42514218 -4.253943165 22.76224065 0.826197761 0.656084664 0.058386728 0.200855189 640.11794 1943535.461 0.02743605 0.36164831 5.57E-05 4.253943165 -0.170113096 LS(ph)PENNQVLTK ddPTM_HeLa_SAHA_4h_R1 2 LSPENNQVLTK 11 0 Q16514-2;Q16514 Q16514-2 TAF12 Transcription initiation factor TFIID subunit 12 1 0 LS(1)PENNQVLTK;LS(1)PENNQVLTK ; 170.26 9.50E-05 22573000 2509.6 3466.5 2440 2625.6 3025.6 4295.9 3058.7 2771 4730.5 2883.5 TRUE FALSE FALSE 2773.571242 3578.816874 2772.510493 2676.422285 2793.779182 3929.865152 2714.527026 2700.121832 4697.580065 3007.821797 0.922119537 1.189836738 0.921766873 0.889820763 0.928838 1.306548532 0.902489313 0.897700068 1.561788026 1 11.55450338 LS(ph)PEPGREGVR ddPTM_HeLa_SAHA_4h_R1 2 LSPEPGREGVR 11 1 Q9NWK9-2;Q9NWK9 Q9NWK9-2 ZNHIT6 Box C/D snoRNA protein 1 1 0 LS(1)PEPGREGVR;LS(1)PEPGREGVR ; 118.5 0.010289 629870000 6171.2 5672.2 5065.2 5787.5 6607.9 6891.9 6788.7 6018.5 6037.3 5441.2 TRUE FALSE FALSE 6820.31513 5855.983002 5755.459078 5899.525431 6101.60413 6304.671347 6024.817609 5864.555485 5995.285938 5675.796761 1.201648935 1.031746422 1.014035442 1.03941802 1.075021603 1.110799349 1.061492838 1.03325678 1.056289749 1 12.47060721 LS(ph)PEVAPPAHR ddPTM_HeLa_SAHA_4h_R1 3 LSPEVAPPAHR 11 0 Q8TAD8 Q8TAD8 SNIP1 Smad nuclear-interacting protein 1 1 0 LS(1)PEVAPPAHR;LS(1)PEVAPPAHR;LS(1)PEVAPPAHR ;; 88.552 0.012849 56648700 11766.6 13614.3 9896.8 12416.7 14421.1 15297.5 14071.6 14197.5 16038.7 12171.8 TRUE FALSE FALSE 13004.26498 14055.41225 11245.48436 12657.04318 13316.15843 13994.06694 12488.22653 13834.34851 15927.08538 12696.58587 1.024233216 1.107022975 0.885709315 0.996885566 1.04879836 1.102191336 0.983589342 1.0896117 1.254438441 1 13.63215299 -5.703890624 6.896862353 1.008306191 1.054585938 0 0.09714089 0.347108633 33.00241888 0.008075775 0.016161144 1.98E-06 5.703890624 0.046279747 LS(ph)PGESAYQK ddPTM_HeLa_SAHA_4h_R1 2 LSPGESAYQK 10 0 A0A0G2JHC2;Q6NYC8;Q6NYC8-2 A0A0G2JHC2 PPP1R18 Phostensin 1 0 LS(0.998)PGES(0.002)AYQK;LS(0.998)PGES(0.002)AYQK ; 174.57 6.23E-05 109695000 4259.5 5307.8 4032.2 4504.1 5306.7 5192 5534.7 4407.8 5881.9 4668.4 TRUE FALSE FALSE 4707.533753 5479.776203 4581.687217 4591.283369 4900.101792 4749.612391 4911.920989 4295.054858 5840.967379 4869.677571 0.966703377 1.125285221 0.940860488 0.942831081 1.006247687 0.975344327 1.008674788 0.881999844 1.199456698 1 12.24961054 LS(ph)PGTDSSSNLGGVK ddPTM_HeLa_SAHA_4h_R1 3 LSPGTDSSSNLGGVK 15 0 A0A1W2PRB5;A0A0J9YVS1;A0A3B3IT55;A0A0G2JNB1;A0A0G2JNT7;Q7Z3B3;A0A0G2JQF5;A0A0G2JQF4;A0A1W2PRR3;I3L233;A0A1W2PPV8 A0A1W2PRB5 KANSL1 KAT8 regulatory NSL complex subunit 1 1 0 LS(0.975)PGT(0.018)DS(0.003)S(0.003)S(0.003)NLGGVK;LS(0.773)PGT(0.149)DS(0.021)S(0.021)S(0.036)NLGGVK;LS(1)PGTDSSSNLGGVK ;; 181.75 1.47E-07 16954200 1996.77 2466.08 1672.79 2323.49 2564.88 3374.77 2475.31 2509.55 3506.61 2085.39 TRUE FALSE FALSE 2206.79943 2545.98261 1900.74911 2368.464509 2368.359449 3087.22061 2196.781604 2445.359345 3482.207216 2175.301369 1.014479861 1.170404546 0.873786565 1.088798335 1.088750038 1.419215128 1.009874602 1.124147385 1.600793005 1 11.08699957 -5.756916788 2.939563724 1.012744061 1.174528274 0 0.220506563 0.242752043 4.309749139 0.016462817 0.033746055 1.75E-06 5.756916788 0.161784213 LS(ph)PIPEEVPK ddPTM_HeLa_SAHA_4h_R1 2 LSPIPEEVPK 10 0 Q96T23-3;Q96T23-2;Q96T23;H0YER1;H0YCN2 Q96T23-3 RSF1 Remodeling and spacing factor 1 1 0 LS(1)PIPEEVPK;LS(1)PIPEEVPK ; 129.82 0.0016703 82350000 6981.8 8419.2 6828.9 7444.3 8102.4 9080.8 7167.6 7350.2 10795.3 8039.8 TRUE FALSE FALSE 7716.177758 8691.987604 7759.506929 7588.395191 7481.595862 8307.064753 6361.082784 7162.192527 10720.17463 8386.435124 0.920078394 1.036434132 0.925244972 0.904841578 0.892106807 0.990535863 0.758496631 0.854021097 1.278275509 1 13.03384197 -1.303445214 0.26193277 0.979361931 1.69E-11 0.276760578 0.111469566 27.86970327 0.406052405 0.028212685 11.9924565 0.049722709 1.303445214 -0.979361931 LS(ph)PQQAFPR ddPTM_HeLa_SAHA_4h_R1 2 LSPQQAFPR 9 0 A0A1B0GTT1;A0A1B0GVM0;Q9BUH8 A0A1B0GTT1 BEGAIN Brain-enriched guanylate kinase-associated protein 1 0 LS(1)PQQAFPR;LS(1)PQQAFPR ; 121.68 0.0033787 28497000 2841.3 2990.4 2560.1 2600.2 3125 3768.2 3364.5 3280.1 3116.4 2831.7 TRUE FALSE FALSE 3140.16097 3087.290922 2908.977096 2650.530631 2885.563175 3447.128161 2985.917605 3196.199792 3094.712719 2953.788445 1.063096098 1.045197034 0.984829195 0.897332588 0.976902452 1.167019313 1.010877272 1.082067945 1.047709671 1 11.52835079 -5.297594596 24.99955871 1.014920624 1.079077223 0.29241729 0.057538775 721.5883828 498941.8089 0.008860852 0.019814207 5.04E-06 5.297594596 0.064156599 LS(ph)PSWNPK ddPTM_HeLa_SAHA_4h_R1 2 LSPSWNPK 8 0 Q96BY7 Q96BY7 ATG2B Autophagy-related protein 2 homolog B 1 0 LS(0.991)PS(0.009)WNPK;LS(0.931)PS(0.069)WNPK ; 108.43 0.0069678 9730100 3788.4 4407.1 3445.4 4112.9 4815.1 6213.3 5008 4359.2 6376.8 4159.2 TRUE FALSE FALSE 4186.881294 4549.892932 3914.921169 4192.511127 4446.168078 5683.891885 4444.48666 4247.697976 6332.42333 4338.523467 0.965047516 1.048719217 0.902362566 0.966345154 1.024811347 1.310098223 1.024423792 0.979065345 1.459580288 1 12.08298842 -5.511482363 24.85973943 0.98130748 1.108341284 0 0.174590797 455.851873 994380.9428 0.012024881 0.025517601 3.08E-06 5.511482363 0.127033803 LS(ph)PTFPESIEHPLAR ddPTM_HeLa_SAHA_4h_R1 2 LSPTFPESIEHPLAR 15 0 M9T4I7;Q5U5Q3 M9T4I7 MEX3C RNA-binding E3 ubiquitin-protein ligase MEX3C 1 0 LS(0.994)PT(0.006)FPESIEHPLAR;LS(0.979)PT(0.021)FPESIEHPLAR ; 113.88 0.001177 4181200 816.66 1297.31 605.69 1081.95 1416.98 1751.36 848.16 1104.96 1696.93 1029.36 TRUE FALSE FALSE 902.5600458 1339.343695 688.2302789 1102.892707 1308.411299 1602.134275 752.7228046 1076.696723 1685.120926 1073.740747 0.840575389 1.247362269 0.640965038 1.027149905 1.218554201 1.492105314 0.701028443 1.00275297 1.569392733 1 10.06842998 -6.004140318 24.65192241 0.928496006 1.105135062 0 0.307300399 254.5311936 1515531.031 0.033520757 0.059729382 9.91E-07 6.004140318 0.176639057 LS(ph)QELDEAIMAEERK ddPTM_HeLa_SAHA_4h_R1 1 LSQELDEAIMAEERK 15 1 I3L156;Q9BSJ6 I3L156 FAM64A Protein FAM64A 1 0 LS(1)QELDEAIMAEERK 61.477 0.020956 2721300 189.73 189.1 249.37 0 322.79 319.64 165.94 317.45 405.37 182.89 TRUE FALSE FALSE 209.6866719 195.2269641 283.3528449 0 298.0578999 292.4048738 147.2679945 309.3300887 402.5489972 190.7752829 1.099129136 1.023334685 1.485270212 0 1.562350716 1.532718858 0.771944836 1.621436928 2.11006893 1 7.575730456 LS(ph)SDSFAR ddPTM_HeLa_SAHA_4h_R1 1 LSSDSFAR 8 0 A0A087WSV0;Q9HB09-3;Q9HB09 A0A087WSV0 BCL2L12 Bcl-2-like protein 12 1 0 LS(0.497)S(0.497)DS(0.006)FAR 136.99 0.0012106 6333400 1162 1872.8 1507.2 1408.3 1647.7 1390.4 1655.6 1404.2 1644.5 1456 TRUE FALSE FALSE 1284.224491 1933.479949 1712.593367 1435.559683 1521.453582 1271.930098 1469.307531 1368.282597 1633.055791 1518.775285 0.845565834 1.273052022 1.127614719 0.945208746 1.001763458 0.837470895 0.967429181 0.900911814 1.07524517 1 10.56869271 -4.259330948 19.72883904 0.96438187 0.900911478 0 0.129413861 45.4785512 424800.9086 0.018711422 0.159944961 5.50E-05 4.259330948 -0.063470392 LS(ph)SPISK ddPTM_HeLa_SAHA_4h_R1 1 LSSPISK 7 0 A0A494C142;Q99728-3;Q99728-2;Q99728 A0A494C142 BARD1 BRCA1-associated RING domain protein 1 1 0 LS(0.5)S(0.5)PIS(0.001)K 85.676 0.023631 9281300 7045.7 8181.7 5308.2 7894.7 8117.8 8889.6 7713.3 7321.4 10145 7597.5 TRUE FALSE FALSE 7786.799053 8446.792448 6031.573852 8047.513334 7495.815918 8132.156068 6845.379184 7134.129189 10074.40012 7925.065406 0.982553286 1.065832522 0.761075593 1.015450715 0.945836474 1.026131098 0.863763115 0.900198146 1.271207189 1 12.95220713 -1 0.173823129 1.009031577 0.551622029 0.152132939 0.118218241 87.72557455 0.933607658 0.107963557 10.55650303 0.1 1 -0.457409548 LS(ph)SPVLHR ddPTM_HeLa_SAHA_4h_R1 2 LSSPVLHR 8 0 Q16643;Q16643-2;Q16643-3;D6R9W4;D6RCR4 Q16643 DBN1 Drebrin 1 0 LS(0.876)S(0.124)PVLHR;LS(0.643)S(0.357)PVLHR ; 145.46 0.0003359 250313000 8573.6 9449.9 8537.7 9523 10018.8 10064.3 10340.5 9622.3 9498.3 8999 TRUE FALSE FALSE 9475.410585 9756.08296 9701.173294 9707.331435 9251.161708 9206.76502 9176.959725 9376.175499 9432.200557 9386.99093 1.009419382 1.039319526 1.033469976 1.034126006 0.985530057 0.98080046 0.977625289 0.998847828 1.0048162 1 13.19644705 -5.659968611 11.31726587 1.011727066 0.984667311 0.524842458 0.014806204 0.351576582 36.80598673 0.002564492 0.005130081 2.19E-06 5.659968611 -0.027059755 LS(ph)VEGPR ddPTM_HeLa_SAHA_4h_R1 1 LSVEGPR 7 0 H0Y687;Q5TGP6;Q5TGP6-2 H0Y687 MROH9 Maestro heat-like repeat-containing protein family member 9 1 0 LS(1)VEGPR 87.696 0.021951 2869600 1232.8 1501.3 1304.9 1583.8 1398.8 1865.8 1311.6 1285.1 1753.6 1613.6 TRUE FALSE FALSE 1362.47156 1549.943105 1482.724976 1614.456739 1291.624246 1706.823343 1164.015316 1252.229003 1741.396555 1683.170193 0.809467495 0.920847524 0.880912092 0.95917617 0.767375903 1.014052738 0.69156127 0.74397052 1.034593271 1 10.71696535 -13.52287875 0.247908126 1.950379599 0.827753973 0.350948499 0.093894402 46.89508587 0.618360763 21.89026896 0.056816227 3.00E-14 13.52287875 -1.122625627 LSAFPEPPEDGTLLS(ph)EAK ddPTM_HeLa_SAHA_4h_R1 2 LSAFPEPPEDGTLLSEAK 18 0 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 LSAFPEPPEDGT(0.058)LLS(0.942)EAK;LSAFPEPPEDGT(0.078)LLS(0.922)EAK ; 194.05 1.51E-37 2799900 2776.32 2083.33 1898.6 2582.64 2699.85 2269.94 1912.7 2318.33 1908.1 2356.96 TRUE FALSE FALSE 3068.346076 2150.831259 2157.331321 2632.630732 2492.988076 2076.528342 1697.477962 2259.030476 1894.821377 2458.58008 1.248015511 0.874826603 0.87747043 1.070793159 1.013995068 0.844604721 0.69043021 0.918835426 0.770697441 1 11.26360963 -5.680813222 0.642921705 1.101957968 0.777100494 0 0.159845165 0.806849236 0.547211218 0.029391868 0.139000837 2.09E-06 5.680813222 -0.324857474 LSAK(ac)PPAK ddPTM_HeLa_SAHA_4h_R1 2 LSAKPPAK 8 1 A6NEL0;P05114;F2Z2W6;F2Z2Y5;H7BXJ5;A0A494C035 A6NEL0 HMGN1 Non-histone chromosomal protein HMG-14 0 1 ; LSAK(1)PPAK;LSAK(1)PPAK 100.02 0.0090051 16371400 6993.8 9291.8 5341.5 7809.7 8619.8 9648.3 10330.3 8790.8 10665.1 6034.8 FALSE TRUE FALSE 7729.439973 9592.860417 6069.411803 7960.868037 7959.352786 8826.21056 9167.907456 8565.944065 10590.8807 6294.989762 1.227871731 1.523888168 0.964165476 1.264635581 1.264394874 1.40210086 1.456381631 1.360755837 1.682430171 1 12.61998832 -12.70056482 0.077516957 1.35E-09 1.69206941 0 0.253585213 101.9605809 0.718810639 19.16176224 3.016176892 1.99E-13 12.70056482 1.692069409 LSAMLVPVT(ph)PEVKPK ddPTM_HeLa_SAHA_4h_R1 1 LSAMLVPVTPEVKPK 15 1 Q5JSK7;Q5JSK8;Q5JSL0;Q5JSK6;P82970 Q5JSK7 HMGN5 High mobility group nucleosome-binding domain-containing protein 5 1 0 LSAMLVPVT(1)PEVKPK 80.585 0.016136 25286000 2315.3 2453.6 2007.3 2554.9 2862 3017.6 2934.3 2508.6 2473.7 2706.8 TRUE FALSE FALSE 2558.833877 2533.09825 2280.84439 2604.353784 2642.714178 2760.483503 2604.124841 2444.433644 2456.48532 2823.503395 0.906262015 0.89714723 0.807806498 0.922383798 0.935969896 0.977680249 0.922302713 0.865744893 0.870013234 1 11.46327065 -9.023557521 0.860254337 0.998948597 0.90619141 0 0.057955481 0.496410257 0.67968283 0.028063461 0.008982705 9.47E-10 9.023557521 -0.092757187 LSAS(ph)SEDISER ddPTM_HeLa_SAHA_4h_R1 1 LSASSEDISER 11 0 Q13233 Q13233 MAP3K1 Mitogen-activated protein kinase kinase kinase 1 1 0 LS(0.002)AS(0.981)S(0.018)EDISER 114.24 0.0031264 3808900 597.67 629.59 529.86 504.65 826.43 647.98 654.92 653.85 596.59 670.05 TRUE FALSE FALSE 660.5356728 649.9891291 602.0665614 514.4182305 763.1091119 592.7684586 581.2266779 637.1254638 592.4382816 698.9391346 0.945054641 0.929965281 0.861400559 0.735998608 1.091810537 0.848097394 0.83158411 0.911560724 0.847624997 1 9.449023017 -7.539756241 1.014083593 0.985090109 0.881554118 0 0.095452028 0.522584321 1.09646145 0.019367844 0.01996393 2.89E-08 7.539756241 -0.103535991 LSASS(ph)EDISER ddPTM_HeLa_SAHA_4h_R1 3 LSASSEDISER 11 0 Q13233 Q13233 MAP3K1 Mitogen-activated protein kinase kinase kinase 1 1 0 LS(0.001)AS(0.379)S(0.62)EDISER;LSAS(0.256)S(0.743)EDISER;LS(0.001)AS(0.254)S(0.744)EDISER ;; 151.13 3.43E-07 10577100 6018.2 5633.72 5372.43 5584.4 6937.6 6763.9 6367.2 6699.2 6336.4 6275.44 TRUE FALSE FALSE 6651.221888 5816.256224 6104.556782 5692.494137 6406.042587 6187.577667 5650.745898 6527.844164 6292.304476 6546.00493 1.016073462 0.888519988 0.932562204 0.869613482 0.978618662 0.945244884 0.863235815 0.997225672 0.961243467 1 12.67639897 -7.272919768 24.84833625 1.007590248 0.923628352 0.317013609 0.043660798 390.2812009 844729.5111 0.006441881 0.007399628 5.33E-08 7.272919768 -0.083961896 LSASTASELS(ph)PK ddPTM_HeLa_SAHA_4h_R1 6 LSASTASELSPK 12 0 Q3KQU3-4;Q3KQU3;Q3KQU3-2;H0YF21 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 LSASTAS(0.319)ELS(0.681)PK;LSASTAS(0.012)ELS(0.988)PK;LSASTAS(0.009)ELS(0.991)PK;LSASTAS(0.001)ELS(0.999)PK;LSASTAS(0.006)ELS(0.994)PK;LSASTASELS(1)PK ;;;;; 225.72 1.96E-22 743295800 12314.4 11268.5 9923.67 11303.25 12142.2 12100 11522.9 12862.78 11797.6 11201.9 TRUE FALSE FALSE 13609.68509 11633.60679 11276.01607 11522.04075 11211.86726 11069.01193 10226.31297 12533.76871 11715.49954 11684.86873 1.164727256 0.995612964 0.965010077 0.986065057 0.959520172 0.947294504 0.875175682 1.07264951 1.002621408 1 13.51235391 -7.042697841 9.738710018 1.077953661 0.96437554 0.260601704 0.06304594 0.460054182 103.0341377 0.012074219 0.014848667 9.06E-08 7.042697841 -0.11357812 LSCFAQTVSPAEK ddPTM_HeLa_SAHA_4h_R1 1 LSCFAQTVSPAEK 13 0 Q16658 Q16658 FSCN1 Fascin 0 0 154.67 2.22E-06 1587000 194.11 191.46 152.81 302.48 395.7 368.92 343.6 281.18 339.26 270.45 FALSE FALSE TRUE 214.5273804 197.6634296 173.634151 308.3349378 365.3815515 337.4859405 304.9372237 273.9878227 336.899062 282.1104231 0.760437626 0.700659789 0.615482934 1.092958333 1.295172109 1.196290222 1.080914418 0.971207727 1.194209907 1 8.14011616 -6.059439526 11.55431067 0.848752167 1.143492672 0.39635175 0.169043013 0.718462343 138.8416014 0.023634382 0.039226728 8.72E-07 6.059439526 0.294740505 LSCIGS(ph)PIVSPR ddPTM_HeLa_SAHA_4h_R1 2 LSCIGSPIVSPR 12 0 Q9UKT4;Q9UKT4-2 Q9UKT4 FBXO5 F-box only protein 5 1 0 LS(0.036)CIGS(0.949)PIVS(0.014)PR;LSCIGS(0.942)PIVS(0.057)PR ; 101.39 0.0057299 4907900 1763.65 1658.3 1766.98 1808.95 1577.75 1634.38 1793.85 1466.59 1892.2 1556.79 TRUE FALSE FALSE 1949.158799 1712.030008 2007.774832 1843.964843 1456.863136 1495.121629 1592.001277 1429.076751 1879.032026 1623.910836 1.200286836 1.054263553 1.236382434 1.135508676 0.897132468 0.920691947 0.980350178 0.880021686 1.157102955 1 10.66525671 -5.761274906 24.99999904 1.107797361 0.92397362 0.680820414 0.06972435 2.811033241 427133.6713 0.013020399 0.02478534 1.73E-06 5.761274906 -0.183823741 LSDDFDS(ph)PVKGPLCK ddPTM_HeLa_SAHA_4h_R1 1 LSDDFDSPVKGPLCK 15 1 Q96T23-3;Q96T23-2;Q96T23;H0YER1;H0YCN2 Q96T23-3 RSF1 Remodeling and spacing factor 1 1 0 LS(0.006)DDFDS(0.994)PVKGPLCK 81.713 0.0083292 57725000 3187.9 2653.5 3056.1 3174.6 2944.8 2755.2 2555.3 2821.4 2631.3 2906.7 TRUE FALSE FALSE 3523.217949 2739.475141 3472.569393 3236.048974 2719.17006 2520.44146 2267.770919 2749.232673 2612.988569 3032.022062 1.162002742 0.903514251 1.145298194 1.067290708 0.896817373 0.831274116 0.747940111 0.906732411 0.861797347 1 11.56606454 -5.641465254 3.054190749 1.069514766 0.823834793 0.391022282 0.101405328 0.123043277 2.291991952 0.012634079 0.027106739 2.28E-06 5.641465254 -0.245679973 LSDGVAVLK ddPTM_HeLa_SAHA_4h_R1 2 LSDGVAVLK 9 0 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ; ; 147.19 0.00017019 16424300 9433.9 12657.8 10833.4 8580.5 12160.1 6619.9 13539.1 10428 10949.9 11535.1 FALSE FALSE TRUE 10426.20089 13067.92103 12309.71933 8746.587985 11228.39577 6055.847277 12015.64484 10161.26686 10873.69875 12032.43461 0.866508003 1.08605793 1.023044773 0.726917558 0.933177377 0.503293595 0.998604623 0.84448968 0.903698969 1 13.55464096 -6.26323918 24.98840044 0.95478432 0.803029117 0.283506996 0.13670436 184.1173495 2556284.722 0.020354064 0.032092955 5.45E-07 6.26323918 -0.151755203 LSDK(ac)GLK ddPTM_HeLa_SAHA_4h_R1 2 LSDKGLK 7 1 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 1 ; LSDK(1)GLK;LSDK(1)GLK 143.12 1.21E-05 12240200 11344 11623.8 11731.4 12575.9 12775.4 8650.9 14680.4 12846.2 10598 10001.7 FALSE TRUE FALSE 12537.21397 12000.41875 13330.0941 12819.32473 11796.55161 7913.794651 13028.52276 12517.61281 10524.24766 10432.92223 1.201697251 1.150245202 1.277695146 1.228737687 1.130704451 0.758540558 1.248789406 1.199818471 1.00875358 1 13.34885569 -2.398373757 1.57075808 1.109727541 39.64257599 0.038510977 0.147011184 1346.347405 12.65028404 0.021956582 185340.4856 0.003996007 2.398373757 38.53284845 LSDLDS(ph)ETR ddPTM_HeLa_SAHA_4h_R1 2 LSDLDSETR 9 0 Q9Y266 Q9Y266 NUDC Nuclear migration protein nudC 1 0 LSDLDS(0.774)ET(0.226)R;LSDLDS(0.969)ET(0.031)R ; 91.313 0.016704 7224500 3170.93 2646.4 2507.54 2830.38 3000.63 3570.25 3069.42 3135.7 3037.48 2926.58 TRUE FALSE FALSE 3504.462966 2732.145096 2849.254492 2885.166098 2770.722378 3266.044614 2724.040783 3055.493334 3016.341929 3052.759186 1.147965743 0.894975637 0.933337456 0.945101111 0.907612494 1.069866444 0.892320887 1.000895632 0.988070708 1 11.57589807 -7.254483692 24.98381798 1.069872712 0.949252591 0.290336066 0.065634313 415.5899656 1492739.071 0.011833727 0.014332962 5.57E-08 7.254483692 -0.120620121 LSDLDSETR ddPTM_HeLa_SAHA_4h_R1 2 LSDLDSETR 9 0 Q9Y266 Q9Y266 NUDC Nuclear migration protein nudC 0 0 ; ; 181.41 3.81E-05 32696000 6284.9 6222.9 5811.8 6257 6582.3 6567 6634.6 6580.5 6274.6 6165.1 FALSE FALSE TRUE 6945.974618 6424.526043 6603.801837 6378.113283 6077.965596 6007.454655 5888.057347 6412.180338 6230.934548 6430.907632 1.080092425 0.999007669 1.026884884 0.991790529 0.94511785 0.934153466 0.915587299 0.997087924 0.968904376 1 12.65080665 -6.046688637 1.752785082 1.035585914 0.943372087 0.379684717 0.035795631 0.194458416 1.18312432 0.005710654 0.011295243 8.98E-07 6.046688637 -0.092213827 LSDSPS(ph)MKK ddPTM_HeLa_SAHA_4h_R1 1 LSDSPSMKK 9 1 F6VRR5;Q9BY77-2;Q9BY77 F6VRR5 POLDIP3 Polymerase delta-interacting protein 3 1 0 LSDS(0.39)PS(0.609)MKK 110.84 0.015578 15745000 1966.4 1337.6 1216.5 1686.5 1854.2 1334.5 1719.6 2065.9 1624.6 1531.2 TRUE FALSE FALSE 2173.234974 1380.939118 1382.278285 1719.144646 1712.131597 1220.793092 1526.106082 2013.057269 1613.294276 1597.217526 1.360638072 0.864590512 0.865428949 1.076337204 1.071946413 0.764324879 0.955477922 1.260352605 1.010065474 1 10.64134509 -7.246058108 24.86968018 1.170301319 0.973418882 0.122896448 0.161581132 906.8069913 1466199.608 0.030370894 0.037124567 5.67E-08 7.246058108 -0.196882436 LSDT(ph)PAPK ddPTM_HeLa_SAHA_4h_R1 1 LSDTPAPK 8 0 I3NI13;I3L270;J3KNE2;H3BNM4;Q8NBZ0-2;Q8NBZ0 I3NI13 INO80E INO80 complex subunit E 1 0 LS(0.001)DT(0.999)PAPK 109.83 0.011372 8414900 3136.9 3163.5 2692.9 3349 3721.9 3164.8 3334.6 3761.4 2749.6 3044.6 TRUE FALSE FALSE 3466.853535 3265.999476 3059.874388 3413.824738 3436.728826 2895.141235 2959.382032 3665.188834 2730.46531 3175.867606 1.091624074 1.028380235 0.963476683 1.074926654 1.082138569 0.9116064 0.931834194 1.15407482 0.859754136 1 11.63293506 -5.301585724 24.99527451 1.041591983 0.9924378 0 0.090919158 962.1103462 599012.1226 0.010185403 0.022775468 4.99E-06 5.301585724 -0.049154183 LSDVDANTAIKHEEQS(ph)NEDIPIAEQSSK ddPTM_HeLa_SAHA_4h_R1 1 LSDVDANTAIKHEEQSNEDIPIAEQSSK 28 1 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 LSDVDANTAIKHEEQS(1)NEDIPIAEQSSK 72.122 0.00012093 26477000 2243.5 2095.8 1855.9 2295 2536.3 2226.3 2568.6 2919.8 1890.8 2117.5 TRUE FALSE FALSE 2479.481624 2163.705295 2108.812387 2339.423044 2341.969242 2036.606715 2279.574368 2845.115744 1877.641769 2208.795788 1.122549055 0.979585939 0.954733977 1.05913958 1.060292334 0.922043915 1.032043967 1.288084557 0.850074859 1 11.10904433 -4.260755239 23.77450609 1.036753294 1.288084703 0.478443153 0.082335583 16.70897164 580394.3927 0.009406442 0.075096248 5.49E-05 4.260755239 0.25133141 LSEEAECPNPS(ph)TPSK ddPTM_HeLa_SAHA_4h_R1 1 LSEEAECPNPSTPSK 15 0 O94804 O94804 STK10 Serine/threonine-protein kinase 10 1 0 LSEEAECPNPS(0.901)T(0.099)PSK 145.52 9.62E-05 12903000 3895.3 3760 3316.8 3862.7 4588.7 4529.4 4487.2 4516.1 3606.3 3467.5 TRUE FALSE FALSE 4305.025526 3881.826467 3768.796231 3937.468144 4237.114797 4143.469638 3982.288446 4400.584701 3581.203465 3617.000895 1.190219647 1.073216894 1.041967182 1.088600268 1.171444222 1.145553943 1.100991833 1.216639097 0.990103008 1 11.82057824 -9.510319655 1.221245019 0.998966352 1.131114618 0.510806319 0.051956423 0.358632218 0.94527573 0.04017509 0.009383132 3.09E-10 9.510319655 0.132148265 LSEEAECPNPST(ph)PSK ddPTM_HeLa_SAHA_4h_R1 3 LSEEAECPNPSTPSK 15 0 O94804 O94804 STK10 Serine/threonine-protein kinase 10 1 0 LSEEAECPNPS(0.079)T(0.897)PS(0.023)K;LSEEAECPNPS(0.085)T(0.912)PS(0.003)K;LSEEAECPNPS(0.103)T(0.896)PSK ;; 238.64 4.40E-33 36517000 7300.3 6655.4 5940.66 6992.5 7159.2 8280.8 7988.4 7447.6 6530.4 6221.74 TRUE FALSE FALSE 8068.179049 6871.039327 6750.222207 7127.849949 6610.663643 7575.229253 7089.524208 7257.101176 6484.954415 6489.98966 1.243172866 1.058713447 1.040097529 1.098283714 1.018593864 1.167217461 1.092378352 1.118199189 0.999224152 1 12.66400046 LSEELSGGR ddPTM_HeLa_SAHA_4h_R1 2 LSEELSGGR 9 0 B4DXW1;P61158;Q9P1U1-2;Q9P1U1 B4DXW1 ACTR3;ACTR3B Actin-related protein 3;Actin-related protein 3B 0 0 ; ; 138.06 0.0075477 8015100 1813.32 1633.65 1595.41 1927.96 1909.37 1876.98 1797.98 1803.5 2274.4 1564.09 FALSE FALSE TRUE 2004.053317 1686.581332 1812.824166 1965.278454 1763.074483 1717.050744 1595.666558 1757.369081 2258.572265 1631.525574 1.228330925 1.033744955 1.111122127 1.204564908 1.080629388 1.052420367 0.978021174 1.077132415 1.384331512 1 10.67200589 -5.27471982 3.260582934 1.111191599 1.027174648 0.126365554 0.110016075 0.394155609 8.683445478 0.013323943 0.034733799 5.31E-06 5.27471982 -0.084016951 LSEGPAAMAGPGS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 2 LSEGPAAMAGPGSPPR 16 0 Q8N2Y8 Q8N2Y8 RUSC2 Iporin 1 0 LSEGPAAMAGPGS(1)PPR;LSEGPAAMAGPGS(1)PPR ; 164.63 1.39E-13 6679300 1085.32 960.71 990.46 905.89 1034.89 1091.29 1086.07 934.8 1203.65 1167.13 TRUE FALSE FALSE 1199.478937 991.8376343 1125.434731 923.4248109 955.5969518 998.3059526 963.8625452 910.8891696 1195.273702 1217.450686 0.985238212 0.814684033 0.924419152 0.758490526 0.784916352 0.819997035 0.791705616 0.748193894 0.98178408 1 10.24964762 -6.973812594 0.961076864 0.999244568 0.783332706 0.785374436 0.044197969 0.136978006 0.25020772 0.008528842 0.011841713 1.06E-07 6.973812594 -0.215911862 LSEGPAAMAGPGS(ph)PPRR ddPTM_HeLa_SAHA_4h_R1 1 LSEGPAAMAGPGSPPRR 17 1 Q8N2Y8 Q8N2Y8 RUSC2 Iporin 1 0 LSEGPAAMAGPGS(1)PPRR 102.24 0.0013244 7211500 1225.3 1119.2 1065.2 1206.1 1594.6 1426.5 1138.9 1462.5 1254.9 1442.3 TRUE FALSE FALSE 1354.182676 1155.462814 1210.359909 1229.44581 1472.422092 1304.954175 1010.747975 1425.091368 1246.167049 1504.484611 0.900097393 0.768012385 0.804501355 0.817187361 0.978688703 0.86737622 0.671823405 0.947228943 0.828301625 1 10.55505363 -8.118524916 0.956544303 0.98282912 0.836189691 0 0.096745077 0.382582169 0.742178841 0.024911941 0.01815469 7.61E-09 8.118524916 -0.146639429 LSEGS(ph)QPAEEEEDQETPSR ddPTM_HeLa_SAHA_4h_R1 2 LSEGSQPAEEEEDQETPSR 19 0 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 LS(0.001)EGS(0.999)QPAEEEEDQETPSR;LSEGS(1)QPAEEEEDQETPSR ; 269.34 6.40E-64 23388000 1323.74 1577.82 1680.57 1527.6 1635.38 2210.7 2158.2 1867.81 1744.57 1334.73 TRUE FALSE FALSE 1462.977047 1628.942403 1909.589328 1557.168907 1510.077538 2022.335923 1915.353656 1820.034125 1732.429395 1392.276742 1.050780353 1.16998464 1.371558735 1.118433469 1.084610187 1.452538753 1.375698952 1.307235889 1.244313966 1 10.44323029 -6.222683264 0.35082361 0.98270819 1.427980123 0.206829048 0.131377756 0.991969473 0.23268515 0.054763394 0.169242737 5.99E-07 6.222683264 0.445271932 LSEGSQPAEEEEDQET(ph)PSR ddPTM_HeLa_SAHA_4h_R1 2 LSEGSQPAEEEEDQETPSR 19 0 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 LSEGSQPAEEEEDQET(0.999)PS(0.001)R;LSEGSQPAEEEEDQET(1)PSR ; 260.98 8.71E-52 17425300 1769.86 1341.99 1531.18 1501.24 1699.1 1796.33 1547.87 1571.82 1756 1605.13 TRUE FALSE FALSE 1956.021995 1385.471357 1739.841236 1530.298671 1568.915325 1643.272578 1373.699594 1531.61512 1743.779853 1674.33501 1.168238127 0.827475594 1.039123728 0.913974003 0.937037878 0.981447899 0.820444885 0.914760255 1.041476074 1 10.7093725 -7.262907023 24.99961458 1.079445781 0.922877736 0.474052225 0.072471208 91.02368799 1550478.962 0.014078133 0.01655962 5.46E-08 7.262907023 -0.156568046 LSEIDVSSEGVK ddPTM_HeLa_SAHA_4h_R1 2 LSEIDVSSEGVK 12 0 Q96C19;H0Y4Y4 Q96C19 EFHD2 EF-hand domain-containing protein D2 0 0 ; ; 223.78 8.79E-16 11945300 3002.94 3147.4 2873.56 3156.1 2680.39 2878 3068.28 2997.4 3149.3 2842.69 FALSE FALSE TRUE 3318.803007 3249.377825 3265.153792 3217.190879 2475.019097 2632.778209 2723.029059 2920.730848 3127.383765 2965.252278 1.119231248 1.095818339 1.101138617 1.084963631 0.83467404 0.887876633 0.918312779 0.984985618 1.054677131 1 11.53393914 -5.773308864 24.99998189 1.066435036 0.905981186 0.760402549 0.046429092 104.4024059 219896.6168 0.008765444 0.015979982 1.69E-06 5.773308864 -0.16045385 LSELLPEEVEAEVK ddPTM_HeLa_SAHA_4h_R1 1 LSELLPEEVEAEVK 14 0 Q9Y2X3;H7BZ72 Q9Y2X3 NOP58 Nucleolar protein 58 0 0 131.17 0.0027181 1676500 631.2 508.31 465.5 639.42 466.78 740.66 751.36 768.67 473.45 826.34 FALSE FALSE TRUE 697.592512 524.7795775 528.9359158 651.7968987 431.0154172 677.5516012 666.8149953 749.0085344 470.1552229 861.9675614 0.809302511 0.608815924 0.613637844 0.75617335 0.500036703 0.78605232 0.773596392 0.868952114 0.545444218 1 9.751489767 -8.174692623 0.937066633 0.969038526 0.701512838 0 0.169644841 0.280839703 0.522168281 0.033918302 0.023656689 6.69E-09 8.174692623 -0.267525689 LSELLR ddPTM_HeLa_SAHA_4h_R1 2 LSELLR 6 0 P07900;P07900-2;P08238;A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 P07900;P08238;A0A669KB10 HSP90AA1;HSP90AB1;GBF1 Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-beta;Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 0 0 ; ; 107.74 0.019075 12008300 7193.6 7324 6726.5 6835.1 7705.7 8335.3 8348.4 6808.6 6702.7 6712.2 FALSE FALSE TRUE 7950.255853 7561.302405 7643.15239 6967.403244 7115.290931 7625.085547 7409.01606 6634.445871 6656.055365 7001.595791 1.135491978 1.079939864 1.091630054 0.995116464 1.016238461 1.089049665 1.05818963 0.947561966 0.950648333 1 12.77346806 -6.269086244 24.53995432 1.0689433 1.026774795 0.017147162 0.060053482 849.6747032 2726738.31 0.009425365 0.014579666 5.38E-07 6.269086244 -0.042168505 LSEPSLPIEDSQDLY(ph)NASPEPK ddPTM_HeLa_SAHA_4h_R1 1 LSEPSLPIEDSQDLYNASPEPK 22 0 E7ESG2;Q9HAW4-2;Q9HAW4-3;Q9HAW4 E7ESG2 CLSPN Claspin 1 0 LSEPSLPIEDS(0.002)QDLY(0.963)NAS(0.035)PEPK 89.659 0.0016297 4013300 2034.1 2058.2 2300.5 2021.3 2158.5 2248.7 2069.5 2568.7 2286 2271.7 TRUE FALSE FALSE 2248.055971 2124.88703 2614.00016 2060.425184 1993.116196 2057.098109 1836.634413 2502.996373 2270.09154 2369.644104 0.948689285 0.896711462 1.103119306 0.869508286 0.841103604 0.868104246 0.775067619 1.056275231 0.95798839 1 11.21045468 LSEPSLPIEDSQDLYNAS(ph)PEPK ddPTM_HeLa_SAHA_4h_R1 1 LSEPSLPIEDSQDLYNASPEPK 22 0 E7ESG2;Q9HAW4-2;Q9HAW4-3;Q9HAW4 E7ESG2 CLSPN Claspin 1 0 LSEPSLPIEDSQDLY(0.409)NAS(0.591)PEPK 80.981 0.0013906 0 1731 1432.3 1422.9 1902.6 1882.2 1805.4 1674.2 1682 1939.2 1720.7 TRUE FALSE FALSE 1913.074522 1478.70746 1616.805402 1939.427574 1737.986243 1651.569763 1485.81461 1638.976876 1925.704949 1794.887798 1.065846302 0.823843954 0.90078355 1.080528586 0.968297988 0.920152093 0.827803616 0.913136118 1.072883192 1 10.80967795 -4.801682504 0.34745395 1.02758206 0.787767814 0.248779485 0.079141329 4.607672659 0.511896017 0.031539929 0.438376944 1.58E-05 4.801682504 -0.239814247 LSESSAS(ph)PQPK ddPTM_HeLa_SAHA_4h_R1 2 LSESSASPQPK 11 0 Q8N5Y2;Q8N5Y2-3;Q8N5Y2-2;A0A3B3IT59;Q8N5Y2-6;Q8N5Y2-4;A0A3B3ITL5;A0A3B3ITF3;A0A3F2YNX2;A0A3B3IRN2;A0A3B3IU80;A0A3B3IUB0;A0A3B3IS72;A0A3B3ISB4;A0A3B3IRI6;A0A3B3ITV8;A0A3B3IRT2;A0A3B3ITF8;A0A3B3IT49;Q8N5Y2-5;A0A3B3ITX5 Q8N5Y2 MSL3 Male-specific lethal 3 homolog 1 0 LSES(0.003)S(0.016)AS(0.981)PQPK;LSES(0.073)S(0.12)AS(0.808)PQPK ; 150.09 0.00052105 28563000 3251.06 3323.8 3048.3 3570 3198.5 3729.6 3136.7 3360.9 3545.7 3523.7 TRUE FALSE FALSE 3593.021407 3431.493301 3463.706449 3639.102512 2953.431621 3411.817098 2783.750261 3274.933045 3521.025185 3675.623952 0.977526933 0.933581168 0.942345162 0.99006388 0.803518439 0.928228008 0.757354478 0.890986969 0.95793945 1 11.84377346 -5.837684617 0.617574445 0.991926038 0.818341123 0.476601927 0.054925231 0.478675902 0.3132046 0.010241691 0.041789007 1.45E-06 5.837684617 -0.173584914 LSEVDTEWS(ph)MLK ddPTM_HeLa_SAHA_4h_R1 1 LSEVDTEWSMLK 12 0 Q9C093-4;A0A1B0GWD8 Q9C093-4 1 0 LSEVDT(0.01)EWS(0.99)MLK 99.802 0.0066663 9082400 1438.2 1630.1 1121.1 1237.2 1294.1 1488.2 1402 1429.8 1258.5 1286.7 TRUE FALSE FALSE 1589.476475 1682.91631 1273.87767 1261.147795 1194.946338 1361.396988 1244.24327 1393.227786 1249.741996 1342.175934 1.184253446 1.253871618 0.949113777 0.939629271 0.890305293 1.014320815 0.927034406 1.038036632 0.93113128 1 10.39035808 -6.670524434 25 1.101969005 0.956661701 0.329390326 0.092197215 15.47921999 4251.38018 0.014716721 0.020812584 2.14E-07 6.670524434 -0.145307304 LSFASETPLEKEPHS(ph)PADQPEQQAESTLTSAETR ddPTM_HeLa_SAHA_4h_R1 1 LSFASETPLEKEPHSPADQPEQQAESTLTSAETR 34 1 H3BSS6;Q9H2Y7;A0A0C4DGM5;Q9H2Y7-2 H3BSS6 ZNF106 Zinc finger protein 106 1 0 LSFASETPLEKEPHS(0.999)PADQPEQQAESTLTSAETR 103.93 1.68E-13 7986400 913.82 969.7 941.66 1114.5 965.88 997.4 1148.5 1317.5 860.24 1107.5 TRUE FALSE FALSE 1009.93978 1001.118916 1069.984521 1136.072759 891.8744831 912.4159088 1019.267757 1283.800258 854.2535198 1155.249745 0.874217705 0.866582244 0.926193254 0.983400138 0.772018766 0.789799706 0.882292129 1.111275084 0.739453545 1 10.17398906 -9.299444139 0.929740131 1.002694149 0.893520721 0 0.12202149 0.920604473 1.370991362 0.069910316 0.017012455 5.02E-10 9.299444139 -0.109173427 LSFDS(ph)ATFMESEK ddPTM_HeLa_SAHA_4h_R1 2 LSFDSATFMESEK 13 0 A0A087WWW8;Q9Y6J0-2;Q9Y6J0 A0A087WWW8 CABIN1 Calcineurin-binding protein cabin-1 1 0 LSFDS(0.5)AT(0.5)FMESEK;LSFDS(0.5)AT(0.5)FMESEK ; 95.523 0.013516 14164600 901.63 826.9 826.42 951.26 1102.6 910.21 1271.13 862.22 1215.72 1030.37 TRUE FALSE FALSE 996.4675802 853.6921025 939.0402138 969.6730128 1018.119026 832.6549873 1128.099107 840.1656609 1207.259706 1074.794293 0.927123996 0.794284179 0.873692966 0.902194047 0.947268731 0.774711024 1.049595364 0.781699034 1.123247223 1 10.06984485 -8.120392469 1.130531166 0.985207869 0.882531279 0.327950928 0.091188829 0.419860202 1.11792144 0.019899266 0.015304088 7.58E-09 8.120392469 -0.10267659 LSFS(ph)DSESDNSADSSLPSR ddPTM_HeLa_SAHA_4h_R1 1 LSFSDSESDNSADSSLPSR 19 0 Q03111 Q03111 MLLT1 Protein ENL 1 0 LS(0.015)FS(0.57)DS(0.415)ESDNSADSSLPSR 137.99 8.62E-05 3374800 200.83 257.6 191.61 119.75 263.66 342.65 259.25 270.05 336.1 210.68 TRUE FALSE FALSE 221.9542208 265.946409 217.7216129 122.0679344 243.4584278 313.4542923 230.0785077 263.142512 333.7610527 219.7634458 1.009968787 1.210148521 0.990708951 0.555451494 1.107820397 1.426325889 1.046937114 1.197389816 1.518728701 1 7.779807627 -5.524891919 24.99976223 0.986249899 1.21608686 0.062153889 0.243553841 64.1465496 796578.2178 0.025118708 0.050510763 2.99E-06 5.524891919 0.229836961 LSFSDS(ph)ESDNSADSSLPSR ddPTM_HeLa_SAHA_4h_R1 1 LSFSDSESDNSADSSLPSR 19 0 Q03111 Q03111 MLLT1 Protein ENL 1 0 LS(0.004)FS(0.136)DS(0.86)ESDNSADSSLPSR 139.39 9.01E-05 3392600 779.47 908.31 751.87 740.3 1125.9 1126.2 936.64 929.25 1403.3 877.52 TRUE FALSE FALSE 861.4582309 937.73984 854.330928 754.629577 1039.633785 1030.241424 831.2468021 905.4811305 1393.534321 915.3541817 0.941120113 1.024455734 0.933333725 0.824412661 1.135772148 1.125511244 0.908114934 0.989213955 1.522399033 1 9.838186269 -5.740293524 24.99999717 0.963428246 1.036390136 0 0.193581608 356.1326172 421040.8413 0.011760416 0.023502262 1.82E-06 5.740293524 0.07296189 LSGEHS(ph)ESSTPRPR ddPTM_HeLa_SAHA_4h_R1 1 LSGEHSESSTPRPR 14 1 Q7Z3K3-5;Q7Z3K3-7;Q7Z3K3-2;Q7Z3K3-3;Q7Z3K3-6;Q7Z3K3 Q7Z3K3-5 POGZ Pogo transposable element with ZNF domain 1 0 LSGEHS(1)ESSTPRPR 123.63 0.00045902 10991000 612.27 860.92 440.97 800.96 1099.7 1363 967.76 959.19 804.81 900.36 TRUE FALSE FALSE 676.6713678 888.8143729 501.0630951 816.463739 1015.441224 1246.864732 858.8650978 934.6553087 799.2092617 939.1789259 0.720492495 0.946373847 0.533511859 0.869337798 1.081201032 1.327611489 0.914485062 0.995183434 0.850965923 1 9.875256226 -5.776869151 6.024139761 0.84316314 1.086415778 0.395521903 0.155742405 0.153055891 19.13488203 0.025487661 0.048206155 1.67E-06 5.776869151 0.243252638 LSGEMPPAS(ph)PSFPR ddPTM_HeLa_SAHA_4h_R1 1 LSGEMPPASPSFPR 14 0 Q96JM7-2;Q96JM7 Q96JM7-2 L3MBTL3 Lethal(3)malignant brain tumor-like protein 3 1 0 LSGEMPPAS(0.916)PS(0.084)FPR 122.1 0.00083744 6479500 1322.8 1180.7 1349.5 1362.2 1164.3 1852.9 1440 1184.8 1538.9 1257.2 TRUE FALSE FALSE 1461.938173 1218.955455 1533.402832 1388.567351 1075.091586 1695.022496 1277.96741 1154.494532 1528.19067 1311.404045 1.114788519 0.929504114 1.169283287 1.058840223 0.819801944 1.292524987 0.974503179 0.880349985 1.165308797 1 10.35689653 LSGEMPPASPS(ph)FPR ddPTM_HeLa_SAHA_4h_R1 1 LSGEMPPASPSFPR 14 0 Q96JM7-2;Q96JM7 Q96JM7-2 L3MBTL3 Lethal(3)malignant brain tumor-like protein 3 1 0 LSGEMPPAS(0.211)PS(0.789)FPR 98.676 0.0053655 4900800 759.04 935.86 866.11 840.34 865.65 1051 1190.1 1066.4 1120.6 740.18 TRUE FALSE FALSE 838.8793098 966.182478 984.1389603 856.6059959 799.324084 961.4488872 1056.186816 1039.123032 1112.801653 772.0927822 1.08650065 1.251381311 1.274638208 1.109459919 1.035269468 1.245250454 1.367953231 1.34585254 1.4412797 1 9.592630416 -1.000000001 0.128417121 0.927668421 2.319070623 0 0.162441856 45.42590019 0.394690466 0.338497526 11.46674651 0.1 1.000000001 1.391402202 LSGFS(ph)FK ddPTM_HeLa_SAHA_4h_R1 2 LSGFSFK 7 0 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 LS(0.003)GFS(0.997)FK;LSGFS(1)FK ; 113.18 0.0065509 169622000 12428.6 11721.2 10338.4 13174.7 13485.1 15159.1 11479.8 10114.3 13566.7 10605.1 TRUE FALSE FALSE 13735.89717 12100.97457 11747.26331 13429.71537 12451.87455 13867.4594 10188.06269 9855.590851 13472.28823 11062.33776 1.241681231 1.09388945 1.061915082 1.214003374 1.125609688 1.253574036 0.920968326 0.890913934 1.217851825 1 13.43336868 -4.665995378 7.814283912 1.12652919 0.900301678 0.57773327 0.08178856 0.160895883 11.47931392 0.013804082 0.052112806 2.16E-05 4.665995378 -0.226227512 LSGFSFK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 LSGFSFKK 8 1 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 0 1 ; LSGFSFK(1)K;LSGFSFK(1)K 99.136 0.0047812 2641700 1229.45 1599.72 1560.36 1794.15 2116.7 2172.29 2384.4 2095.1 1458.49 1401.33 FALSE TRUE FALSE 1358.769192 1651.551978 1772.997735 1828.878368 1954.518903 1987.198671 2116.101037 2041.510376 1448.340249 1461.748194 0.929550792 1.129847113 1.212929656 1.251158288 1.33711053 1.359467163 1.447650864 1.396622471 0.990827459 1 10.51347909 -6.497280345 0.936480309 0.963865803 1.40097767 0.943003844 0.041933673 0.089448107 0.15653626 0.009580678 0.017866696 3.18E-07 6.497280345 0.437111867 LSGINEIPRPFS(ph)PPVTSNTSPPPAAPLAR ddPTM_HeLa_SAHA_4h_R1 1 LSGINEIPRPFSPPVTSNTSPPPAAPLAR 29 1 Q0JRZ9-3;Q0JRZ9 Q0JRZ9-3 FCHO2 F-BAR domain only protein 2 1 0 LSGINEIPRPFS(0.998)PPVT(0.002)SNTSPPPAAPLAR 121.48 1.75E-11 35712000 667.09 750.01 512.99 460.55 639.22 563.22 708.81 583.76 533.45 518.03 TRUE FALSE FALSE 737.2575869 774.3108161 582.8976057 469.4646112 590.2431017 515.2304874 629.0528333 568.8282645 529.737678 540.3648085 1.364370098 1.432940865 1.078711264 0.868791979 1.092304851 0.953486384 1.164126204 1.052674518 0.980333415 1 9.077789911 -6.53777832 24.99901879 1.199265159 1.027578591 0.220213977 0.149555701 309.4411467 519189.1784 0.027404945 0.03876407 2.90E-07 6.53777832 -0.171686568 LSGLS(ph)FK ddPTM_HeLa_SAHA_4h_R1 2 LSGLSFK 7 0 P49006 P49006 MARCKSL1 MARCKS-related protein 1 0 LSGLS(1)FK;LSGLS(1)FK ; 85.862 0.023476 38274000 6016.6 7374.2 5355.3 8358.5 8765.8 11216 9918.9 8741.6 11023.9 9721 TRUE FALSE FALSE 6649.453593 7613.128918 6085.092395 8520.290854 8094.166298 10260.3337 8802.799267 8518.00253 10947.18378 10140.11988 0.655756901 0.750792792 0.600100636 0.840255436 0.798231815 1.011855266 0.868115897 0.840029766 1.079591159 1 13.30778709 -5.377105224 16.43663122 0.806967076 0.903370991 0.073316466 0.140930686 3.720761519 512.2316402 0.021949384 0.049080864 4.20E-06 5.377105224 0.096403915 LSGSNPYT(ph)T(ph)VT(ph)PQIINS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 LSGSNPYTTVTPQIINSK 18 0 O43707;O43707-2;F5GXS2;O43707-3;H7C144 O43707 ACTN4 Alpha-actinin-4 4 0 LS(0.304)GS(0.302)NPY(0.256)T(0.766)T(0.771)VT(0.618)PQIINS(0.983)K 42.185 0.021212 17865000 1819.3 1331.3 1578.5 1890.3 1484.2 2101 1941.2 1922 1936.9 1369.1 TRUE FALSE FALSE 2010.662321 1374.434993 1793.60976 1926.88949 1370.480917 1921.98298 1722.771067 1872.838023 1923.420955 1428.128601 1.407900045 0.96240282 1.255916139 1.349240879 0.959634108 1.345805258 1.206313679 1.311393121 1.346812152 1 10.47991018 -9.635253008 1.460230904 1.0000716 1.244444245 0 0.1808599 0.441146907 1.691110718 0.104175694 0.023720165 2.32E-10 9.635253008 0.244372646 LSGSNPYTTVTPQIINSK ddPTM_HeLa_SAHA_4h_R1 2 LSGSNPYTTVTPQIINSK 18 0 O43707;O43707-2;F5GXS2;O43707-3;H7C144 O43707 ACTN4 Alpha-actinin-4 0 0 ; ; 309.88 9.76E-139 2945100 1039.73 1111.59 1028.74 853.54 1017.35 1249.47 1083.6 1025.22 1257.77 986.63 FALSE FALSE TRUE 1149.093572 1147.606245 1168.93133 870.0615009 939.4008628 1143.008127 961.6704761 998.9963569 1249.017076 1029.168448 1.116526235 1.115081062 1.135801756 0.845402424 0.912776587 1.110613262 0.93441504 0.970683039 1.213617731 1 10.00726342 -6.277452314 24.92531132 1.067390947 0.959970877 0.417420991 0.086085248 751.4099093 1169622.94 0.012519938 0.019161955 5.28E-07 6.277452314 -0.10742007 LSILYPATTGR ddPTM_HeLa_SAHA_4h_R1 2 LSILYPATTGR 11 0 P30041 P30041 PRDX6 Peroxiredoxin-6 0 0 ; ; 172.98 6.82E-11 10680700 2250.7 2524.42 2306.1 2645.1 2568.8 2586.1 2571.46 2116.51 2407.5 2513.2 FALSE FALSE TRUE 2487.438953 2606.212864 2620.363298 2696.299735 2371.979099 2365.749731 2282.112553 2062.372739 2390.746011 2621.556351 0.948840543 0.994147184 0.999544907 1.028511073 0.904798059 0.902421849 0.870518214 0.786697848 0.911956751 1 11.35620784 -4.685532375 0.935476571 0.98117896 0.758920958 0.736246539 0.036125714 0.396746766 0.392619212 0.005137614 0.076553774 2.06E-05 4.685532375 -0.222258002 LSKDPNIVIAK ddPTM_HeLa_SAHA_4h_R1 1 LSKDPNIVIAK 11 1 P30101 P30101 PDIA3 Protein disulfide-isomerase A3 0 0 88.596 0.021281 0 1582.4 1688.6 1910.7 2178.3 2320 2475.5 2441.6 2134.4 2173.1 1994.2 FALSE FALSE TRUE 1748.844092 1743.311748 2171.080246 2220.464146 2142.242101 2264.573473 2166.864742 2079.805139 2157.97722 2080.179721 0.840717787 0.838058236 1.043698399 1.067438608 1.029835105 1.088643183 1.04167189 0.999819928 1.037399412 1 11.02249246 -6.73306292 22.35590107 0.91617741 1.047314352 0.453135143 0.061836056 44.70391265 35218.66571 0.010833437 0.015317476 1.85E-07 6.73306292 0.131136942 LSKREVS(ph)S(ph)LLS(ph)YT(ph)QS(ph)LRR ddPTM_HeLa_SAHA_4h_R1 1 LSKREVSSLLSYTQSLRR 18 3 Q9UBC3-7 Q9UBC3-7 5 0 LS(0.061)KREVS(0.966)S(0.977)LLS(0.677)Y(0.648)T(0.677)QS(0.994)LRR 45.395 0.0087635 0 354.79 189.16 264.99 397.55 307.54 317.33 371.55 337.39 185.14 264.46 TRUE FALSE FALSE 392.10844 195.2889081 301.1014572 405.2451551 283.9763516 290.2916988 329.7422161 328.7600523 183.8515957 275.8621648 1.421392601 0.707922046 1.091492403 1.469013177 1.029413917 1.052307042 1.195315118 1.191754776 0.666461803 1 8.107803791 LSKS(ph)DEQLSSLDR ddPTM_HeLa_SAHA_4h_R1 1 LSKSDEQLSSLDR 13 1 Q13905-2;Q13905;Q13905-4;Q13905-3 Q13905-2 RAPGEF1 Rap guanine nucleotide exchange factor 1 1 0 LS(0.005)KS(0.995)DEQLSSLDR 108.66 0.012679 5337000 339.16 683.99 382.06 564.91 328.14 724.22 419.05 432.47 685.17 545.13 TRUE FALSE FALSE 374.8344049 706.1517248 434.1251471 575.8446499 302.9979841 662.5123816 371.8973911 421.4080436 680.4018462 568.6332221 0.659184849 1.24184043 0.763453717 1.012682037 0.532853116 1.165096157 0.654019809 0.741089383 1.19655662 1 9.15135458 LSKS(ph)QGGEEEGPLSDK ddPTM_HeLa_SAHA_4h_R1 1 LSKSQGGEEEGPLSDK 16 1 E9PR76;E9PSH4;Q9H063 E9PR76 MAF1 Repressor of RNA polymerase III transcription MAF1 homolog 1 0 LS(0.064)KS(0.936)QGGEEEGPLSDK 97.256 0.0027631 34295000 2607 1977.2 2224.6 2626.8 2721.4 2386.1 3280.7 3131.8 2139.8 2337 TRUE FALSE FALSE 2881.216221 2041.262577 2527.756903 2677.645512 2512.88692 2182.790856 2911.547002 3051.693091 2124.908958 2437.759507 1.181911593 0.837351909 1.036918078 1.098404295 1.030818222 0.895408612 1.194353665 1.251843376 0.87166472 1 11.25134009 -4.543982739 24.4579229 1.052833883 1.237471029 0.313394384 0.112477183 144.0139841 166901.1663 0.015084881 0.05645415 2.86E-05 4.543982739 0.184637146 LSLEGDHS(ph)TPPSAYGSVK ddPTM_HeLa_SAHA_4h_R1 4 LSLEGDHSTPPSAYGSVK 18 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YKS4;H0YMM1;H0YKX9;H0YMT9;H0YLV6;H0YKZ7;H0YMW4;H0YKL9;H0YKV8;H0YMD9;H0YNB8;H0YKN4 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 1 0 LSLEGDHS(0.884)T(0.116)PPSAYGSVK;LSLEGDHS(0.5)T(0.5)PPSAYGSVK;LSLEGDHS(0.5)T(0.5)PPSAYGSVK;LSLEGDHS(0.977)T(0.023)PPSAYGSVK ;;; 137.73 9.56E-05 518099100 12198.7 17085.5 9416.7 13300.3 22021.4 25927.1 18233.7 16270.8 17354.5 17628.5 TRUE FALSE FALSE 13481.81524 17639.08141 10699.95884 13557.74654 20334.12509 23717.96522 16181.99609 15854.6165 17233.72862 18388.55091 0.733163549 0.959242602 0.581881568 0.737292819 1.105803562 1.289822419 0.880003877 0.86220043 0.937198842 1 14.16652017 -5.753547105 24.99223176 0.845277478 1.041665524 0.280959568 0.162179556 216.9916838 687135.4421 0.026211198 0.051668285 1.76E-06 5.753547105 0.196388046 LSLEGDHST(ph)PPSAYGSVK ddPTM_HeLa_SAHA_4h_R1 1 LSLEGDHSTPPSAYGSVK 18 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YKS4;H0YMM1;H0YKX9;H0YMT9;H0YLV6;H0YKZ7;H0YMW4;H0YKL9;H0YKV8;H0YMD9;H0YNB8;H0YKN4 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 1 0 LSLEGDHS(0.359)T(0.641)PPSAYGSVK 69.765 0.016215 4552500 1048.5 1221.9 872.69 1218.6 1942 2052.4 1490.9 1569 1832.7 1632.7 TRUE FALSE FALSE 1158.786041 1261.490362 991.6156484 1242.187765 1793.20438 1877.523974 1323.140008 1528.867252 1819.946091 1703.093687 0.680400643 0.740705207 0.582243746 0.729371364 1.052910003 1.102419666 0.77690383 0.897700029 1.068611847 1 10.73394208 -5.766285848 24.99949785 0.806815032 0.954937434 0.191760997 0.157784876 184.409914 951246.046 0.025672942 0.047632935 1.71E-06 5.766285848 0.148122402 LSLEGDHSTPPSAY(ph)GSVK ddPTM_HeLa_SAHA_4h_R1 2 LSLEGDHSTPPSAYGSVK 18 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YKS4;H0YMM1;H0YKX9;H0YMT9;H0YLV6;H0YKZ7;H0YMW4;H0YKL9;H0YKV8;H0YMD9;H0YNB8;H0YKN4 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 1 0 LSLEGDHSTPPSAY(0.618)GS(0.382)VK;LSLEGDHSTPPS(0.013)AY(0.649)GS(0.337)VK ; 127.49 0.0010438 33873600 2421.1 4922 1282.41 3203.3 9199.5 9602.9 5310.7 5200.3 3907.7 5360.1 TRUE FALSE FALSE 2675.762406 5081.476029 1457.170156 3265.304504 8494.636297 8784.678896 4713.126059 5067.283856 3880.505998 5591.200143 0.478566737 0.908834579 0.260618493 0.584007802 1.519286751 1.571161588 0.842954274 0.906296274 0.694038113 1 12.44894227 -5.774890557 24.99642741 0.709250749 1.209515215 0.460169878 0.291174805 196.4484424 365061.6705 0.04927197 0.089673125 1.68E-06 5.774890557 0.500264466 LSLEGDHSTPPSAYGS(ph)VK ddPTM_HeLa_SAHA_4h_R1 2 LSLEGDHSTPPSAYGSVK 18 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YKS4;H0YMM1;H0YKX9;H0YMT9;H0YLV6;H0YKZ7;H0YMW4;H0YKL9;H0YKV8;H0YMD9;H0YNB8;H0YKN4 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 1 0 LSLEGDHST(0.004)PPS(0.362)AY(0.001)GS(0.634)VK;LSLEGDHST(0.004)PPS(0.022)AYGS(0.974)VK ; 110.57 0.000913 16661900 2220.4 3184.9 1011.09 3382.7 5193.8 7240.3 4344 4608.3 3376.2 2744.2 TRUE FALSE FALSE 2453.95186 3288.09285 1148.87608 3448.17705 4795.852166 6623.385707 3855.201687 4490.426359 3352.704749 2862.515892 0.857270999 1.148672348 0.401351861 1.204596649 1.675397569 2.31383369 1.346787872 1.568699189 1.171244065 1 11.48306799 -5.862710889 3.719011338 0.910937216 1.744481902 0.612043083 0.30358267 0.105156141 2.790906121 0.041738444 0.079342946 1.37E-06 5.862710889 0.833544687 LSLFPAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 LSLFPASPR 9 0 Q53GA4 Q53GA4 PHLDA2 Pleckstrin homology-like domain family A member 2 1 0 LSLFPAS(1)PR 87.568 0.020009 5759800 2150.5 2029.9 2025.6 2354.4 2485 2196.2 2831.8 1974.2 1759.7 1920.3 TRUE FALSE FALSE 2376.699457 2095.670092 2301.638219 2399.972817 2294.599837 2009.071405 2513.158411 1923.702823 1747.454104 2003.093531 1.186514469 1.046216794 1.149041811 1.198133177 1.145528055 1.002984321 1.254638574 0.960365951 0.872377689 1 10.96801407 -9.509842362 1.231666711 0.999276395 1.128313803 0.310530663 0.09673662 0.520511331 1.40057521 0.057089271 0.013460449 3.09E-10 9.509842362 0.129037408 LSLPGLLSQVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 LSLPGLLSQVSPR 13 0 Q96Q42-3;Q96Q42 Q96Q42-3 ALS2 Alsin 1 0 LSLPGLLS(0.24)QVS(0.76)PR 113.37 0.0019691 17156000 1093.2 1397.2 1345 1141.9 1180.6 1129.1 1245.5 1081.2 1121.2 1161.5 TRUE FALSE FALSE 1208.187792 1442.470197 1528.289596 1164.003126 1090.142683 1032.894328 1105.353062 1053.54447 1113.397478 1211.577949 0.997201866 1.190571517 1.261404267 0.960733172 0.899770984 0.852519913 0.912325173 0.869563919 0.918964792 1 10.24267151 -6.001894947 15.4506523 1.037352977 0.889235209 0.443941782 0.096476498 0.528288362 4304.541342 0.01530346 0.02714493 9.96E-07 6.001894947 -0.148117768 LSLS(ph)PLR ddPTM_HeLa_SAHA_4h_R1 1 LSLSPLR 7 0 Q66K74-2;Q66K74 Q66K74-2 MAP1S Microtubule-associated protein 1S;MAP1S heavy chain;MAP1S light chain 1 0 LS(0.005)LS(0.995)PLR 90.601 0.019628 30280000 1809.6 2166.4 2532.9 2487.9 2549.8 1501.3 2874.6 1168.7 783.43 1250 TRUE FALSE FALSE 1999.942031 2236.592781 2878.070421 2536.056902 2354.434875 1373.380794 2551.142442 1138.806346 777.9780468 1303.893617 1.533823008 1.715318452 2.207289293 1.944987588 1.805695529 1.05329206 1.956557198 0.873389003 0.596657608 1 10.34861045 -8.594022649 0.859163312 1.044674646 1.664000976 0.3631789 0.414358399 0.512620526 0.769332065 0.164805732 0.080366242 2.55E-09 8.594022649 0.61932633 LSLTSDPEEGDPLALGPES(ph)PGEPQPPQLK ddPTM_HeLa_SAHA_4h_R1 1 LSLTSDPEEGDPLALGPESPGEPQPPQLK 29 0 Q5T1M5;Q5T1M5-2 Q5T1M5 FKBP15 FK506-binding protein 15 1 0 LSLTSDPEEGDPLALGPES(1)PGEPQPPQLK 134.28 8.80E-14 6807300 2819 2328.2 1993.9 2471.2 2156.2 2787.5 2434.4 2510.5 2721.7 2369.7 TRUE FALSE FALSE 3115.515354 2403.635208 2265.618308 2519.033649 1990.992422 2549.989318 2160.474905 2446.285045 2702.759468 2471.869364 1.260388352 0.972395727 0.916560697 1.019080412 0.805460212 1.031603593 0.87402471 0.989649809 1.093407082 1 11.27138678 -7.077004767 8.435658403 1.122881195 0.938643371 0.46157984 0.086602557 0.26881958 27.41511892 0.018182533 0.022304088 8.38E-08 7.077004767 -0.184237824 LSNIFVIGK ddPTM_HeLa_SAHA_4h_R1 2 LSNIFVIGK 9 0 P62701 P62701 RPS4X "40S ribosomal protein S4, X isoform" 0 0 ; ; 111.61 0.0077675 8942800 2634.6 3182.72 3058.4 3428.9 3132.07 3459.47 3559.1 2899.9 2554.42 3143.6 FALSE FALSE TRUE 2911.719316 3285.842216 3475.182825 3495.271318 2892.091473 3164.703694 3158.620701 2825.724757 2536.643583 3279.13598 0.887953209 1.002045123 1.059786128 1.065912283 0.881967534 0.965102915 0.963247855 0.861728447 0.773570721 1 11.67910001 -4.26130996 24.99999811 0.962869288 0.861728445 0.094805796 0.084214465 15.22689505 2938110.493 0.009427454 0.073077778 5.48E-05 4.26130996 -0.101140842 LSNLALVK(ac)PEK ddPTM_HeLa_SAHA_4h_R1 1 LSNLALVKPEK 11 1 O14737;K7EQA1;O14737-2 O14737 PDCD5 Programmed cell death protein 5 0 1 LSNLALVK(1)PEK 141.73 7.56E-05 504390 292.63 645.42 466.38 648.89 831.71 527.43 613.71 622.57 588.24 251.23 FALSE TRUE FALSE 323.410166 666.3320315 529.9358376 661.4502043 767.9845595 482.4899968 544.6537356 606.6455609 584.1463899 262.0617548 1.234099063 2.542652712 2.02217923 2.524024174 2.930548031 1.841130909 2.078341176 2.314895439 2.229040977 1 8.033763012 -7.321441943 5.410549992 1.104296039 2.313551898 0.325021526 0.461375319 0.069893634 4.283084164 0.051867866 0.059382255 4.77E-08 7.321441943 1.209255859 LSPGESAY(ph)QK ddPTM_HeLa_SAHA_4h_R1 1 LSPGESAYQK 10 0 A0A0G2JHC2;Q6NYC8;Q6NYC8-2 A0A0G2JHC2 PPP1R18 Phostensin 1 0 LSPGES(0.06)AY(0.94)QK 89.08 0.0073472 0 1291.8 1607.8 1586.1 1594 1831.7 2047.4 1704.9 1752.3 1844.1 1821.2 TRUE FALSE FALSE 1427.677451 1659.893775 1802.245448 1624.854175 1691.355542 1872.950002 1513.060165 1707.478703 1831.266758 1899.720845 0.751519601 0.873756678 0.948689621 0.855312074 0.890317936 0.985908012 0.796464475 0.898805058 0.963966239 1 10.89157172 -9.675285391 1.550807732 0.999659691 0.858131164 0.265178165 0.06599191 0.368138672 1.600459107 0.052641813 0.011879209 2.11E-10 9.675285391 -0.141528526 LSPGET(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 LSPGETPER 9 0 A0A0G2JHC2;Q6NYC8;Q6NYC8-2 A0A0G2JHC2 PPP1R18 Phostensin 1 0 LS(0.02)PGET(0.98)PER 110.54 0.010701 7080500 1923.1 1431.7 1553.2 1862.4 2054.7 1686 1558.4 1847.3 1996.6 1690.9 TRUE FALSE FALSE 2125.380481 1478.088019 1764.862007 1898.449445 1897.26933 1542.343315 1383.044731 1800.048741 1982.705498 1763.802974 1.204998808 0.838011978 1.000600426 1.076338725 1.075669651 0.874441952 0.784126544 1.020549782 1.124108263 1 10.7844737 -5.261597026 24.2143778 1.068784464 0.882148125 0.283724364 0.106385378 8.002121177 1229351.914 0.017031819 0.0405097 5.48E-06 5.261597026 -0.18663634 LSPLPPGS(ph)PGSAAR ddPTM_HeLa_SAHA_4h_R1 2 LSPLPPGSPGSAAR 14 0 Q6ZN18-2;Q6ZN18 Q6ZN18-2 AEBP2 Zinc finger protein AEBP2 1 0 LSPLPPGS(0.931)PGS(0.069)AAR;LSPLPPGS(0.902)PGS(0.098)AAR ; 181.75 3.94E-07 17421700 3159.9 2736.5 2769.9 2836.6 2990.5 3448.7 3206.4 3035.9 3012.9 2904.5 TRUE FALSE FALSE 3492.27278 2825.164395 3147.367547 2891.506495 2761.368536 3154.851358 2845.607433 2958.246074 2991.932984 3029.727209 1.152669049 0.932481442 1.03882869 0.954378495 0.911424807 1.041298817 0.939228926 0.976406742 0.987525535 1 11.56497219 -7.246231378 24.96486259 1.072093719 0.971819365 0.227614968 0.058942054 679.2299499 1114998.581 0.011049224 0.013506123 5.67E-08 7.246231378 -0.100274355 LSPPYSS(ph)PQEFAQDVGR ddPTM_HeLa_SAHA_4h_R1 1 LSPPYSSPQEFAQDVGR 17 0 Q13263;Q13263-2;M0R0K9 Q13263 TRIM28 Transcription intermediary factor 1-beta 1 0 LSPPYS(0.413)S(0.587)PQEFAQDVGR 115.58 0.00093083 10868000 510.43 731.08 495.32 544.87 599.42 759.21 555.28 578.77 718.34 623.24 TRUE FALSE FALSE 564.1193693 754.7674717 562.8196301 555.4167467 553.4925691 694.5210368 492.798433 563.9659014 713.3410135 650.1109265 0.86772787 1.160982597 0.865728612 0.854341504 0.851381736 1.068311589 0.758022074 0.867491806 1.097260459 1 9.344542092 LSPS(ph)PSSR ddPTM_HeLa_SAHA_4h_R1 7 LSPSPSSR 8 0 P20700;Q03252 P20700;Q03252 LMNB1;LMNB2 Lamin-B1;Lamin-B2 1 0 LS(0.006)PS(0.918)PS(0.076)S(0.001)R;LS(0.001)PS(0.985)PS(0.014)SR;LS(0.006)PS(0.916)PS(0.072)S(0.006)R;LS(0.001)PS(0.874)PS(0.124)S(0.001)R;LS(0.041)PS(0.875)PS(0.083)S(0.001)R;LSPS(0.933)PS(0.033)S(0.033)R;LS(0.022)PS(0.935)PS(0.042)SR ;;;;;; 201.61 4.95E-12 1964865000 25988.1 26038.8 20168.2 24908.7 27054.7 28169 26353 26188.1 27013.5 25101.3 TRUE FALSE FALSE 28721.6476 26882.4742 22916.61726 25390.84391 24981.77473 25768.84273 23387.69108 25518.24632 26825.51085 26183.53989 1.09693524 1.026693653 0.87522991 0.969725408 0.954102266 0.984161914 0.89322113 0.974591153 1.024518112 1 14.67637254 -6.921313908 8.113429314 1.046603436 0.943577919 0.579080267 0.039764711 0.149024552 13.58498105 0.007469785 0.009827997 1.20E-07 6.921313908 -0.103025517 LSPS(ph)PTSQR ddPTM_HeLa_SAHA_4h_R1 10 LSPSPTSQR 9 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 LS(0.017)PS(0.983)PTSQR;LS(0.002)PS(0.996)PT(0.001)SQR;LSPS(1)PTSQR;LS(0.002)PS(0.94)PT(0.057)SQR;LS(0.024)PS(0.976)PTSQR;LS(0.019)PS(0.981)PT(0.001)SQR;LS(0.002)PS(0.998)PTSQR;LS(0.023)PS(0.958)PT(0.018)SQR;LS(0.001)PS(0.988)PT(0.011)SQR;LS(0.004)PS(0.964)PT(0.032)SQR ;;;;;;;;; 229.82 7.37E-23 12694521600 26063 26713.2 24630 28639.8 29214.9 31420.4 29526.4 30021.8 27546.8 26598.6 TRUE FALSE FALSE 28804.42592 27578.72521 27986.44813 29194.16474 26976.46067 28743.20515 26204.01176 29253.88583 27355.09958 27745.39582 1.03816958 0.993992855 1.008688011 1.052216553 0.972286027 1.03596306 0.944445411 1.054369021 0.985932937 1 14.75996076 -5.747841976 24.99367926 1.017800536 1.000114234 0.014523904 0.034181511 533.8232838 981229.0266 0.004427784 0.008822844 1.79E-06 5.747841976 -0.017686303 LSPS(ph)PTTEDPR ddPTM_HeLa_SAHA_4h_R1 2 LSPSPTTEDPR 11 0 E7EQY4;F6RRE2;E7EV10;Q9BTC8-2;Q9BTC8 E7EQY4 MTA3 Metastasis-associated protein MTA3 1 0 LS(0.115)PS(0.539)PT(0.237)T(0.109)EDPR;LS(0.016)PS(0.496)PT(0.333)T(0.155)EDPR ; 134.13 0.0011558 12988600 2767.7 3300.8 2057.33 2720.7 2981.2 3287.9 2879.1 2162.35 4678.7 3340.8 TRUE FALSE FALSE 3058.819385 3407.748086 2337.692218 2773.363083 2752.7811 3007.752423 2555.136091 2107.040218 4646.140546 3484.838237 0.877750752 0.977878413 0.670818 0.795836964 0.789930812 0.863096711 0.733215121 0.60463071 1.333244251 1 11.76687597 -2.122236273 0.09879391 1.13989621 2.27E-19 0.538057963 0.133128842 46.93696136 0.423433132 0.741936707 7.27525966 0.007546815 2.122236273 -1.13989621 LSQGS(ph)GSSITAAGMR ddPTM_HeLa_SAHA_4h_R1 1 LSQGSGSSITAAGMR 15 0 A0A140T8W4;A0A2R8YDS2;A0A0A0MQZ2;B7ZCA0;A0A2R8Y6T2;Q96PV0-3;Q96PV0-2;Q96PV0-4;Q96PV0 A0A140T8W4 SYNGAP1 Ras/Rap GTPase-activating protein SynGAP 1 0 LSQGS(0.992)GS(0.003)S(0.003)IT(0.003)AAGMR 87.863 0.016867 18787000 430.42 487.83 478.33 729.21 711.35 611.34 388.24 491.55 783.36 551.3 TRUE FALSE FALSE 475.6935504 503.6360121 543.5143214 743.324914 656.8465167 559.2503927 344.5542134 478.9768628 777.908534 575.069241 0.827193521 0.875783256 0.945128486 1.292583329 1.142204225 0.972492272 0.59915257 0.832902942 1.352721513 1 9.167591863 -4.777501112 24.92044866 0.96124569 0.716027772 0.24729793 0.18715383 197.1276148 305853.0694 0.022399584 0.067504264 1.67E-05 4.777501112 -0.245217918 LSQMQS(ph)PIPLTETR ddPTM_HeLa_SAHA_4h_R1 1 LSQMQSPIPLTETR 14 0 H3BSW6;Q2VPK5-3;Q2VPK5;Q2VPK5-5 H3BSW6 CTU2 Cytoplasmic tRNA 2-thiolation protein 2 1 0 LS(0.474)QMQS(0.526)PIPLTETR 140.49 0.00021654 3368500 753.12 754.6 661.15 488.57 945.95 1160 703.71 853.18 775.91 810.35 TRUE FALSE FALSE 832.336617 779.0495351 751.2480789 498.0269788 873.4715154 1061.161474 624.5266987 831.356891 770.5103791 845.2881543 0.984677962 0.921637824 0.888747908 0.589180123 1.03334172 1.255384295 0.7388329 0.983518918 0.911535759 1 9.723299422 -7.265952067 3.689287037 0.993387598 0.9123192 0.010220453 0.167103547 0.628975531 18.70281326 0.028616241 0.033798787 5.42E-08 7.265952067 -0.081068398 LSQSSQDS(ph)SPVRNLQSFGTEEPAYSTR ddPTM_HeLa_SAHA_4h_R1 2 LSQSSQDSSPVRNLQSFGTEEPAYSTR 27 1 O95251-4;O95251;O95251-2 O95251-4 KAT7 Histone acetyltransferase KAT7 1 0 LS(0.001)QS(0.003)S(0.008)QDS(0.385)S(0.385)PVRNLQS(0.15)FGT(0.06)EEPAY(0.005)S(0.002)T(0.001)R;LS(0.001)QS(0.007)S(0.022)QDS(0.485)S(0.485)PVRNLQS(0.001)FGTEEPAYSTR ; 67.586 0.00051645 28208000 899.05 421.31 716.23 682.76 770.83 475.59 776.21 745.78 406.89 731.77 TRUE FALSE FALSE 993.616204 434.9607204 813.8340944 695.9758071 711.7691719 435.0670564 688.8688079 726.7040275 404.0584194 763.3201859 1.301703037 0.569827352 1.066176566 0.911774403 0.932464757 0.569966659 0.902463764 0.952030407 0.529343291 1 9.576144533 -7.27670865 24.98106226 1.142470875 0.849882983 0 0.254753744 628.3992552 1028081.013 0.030660995 0.035132159 5.29E-08 7.27670865 -0.292587892 LSQSSQDSS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 4 LSQSSQDSSPVR 12 0 O95251-4;O95251;O95251-2 O95251-4 KAT7 Histone acetyltransferase KAT7 1 0 LSQSSQDS(0.015)S(0.985)PVR;LSQSSQDS(0.004)S(0.996)PVR;LSQSSQDS(0.004)S(0.996)PVR;LSQSSQDS(0.098)S(0.902)PVR ;;; 176.43 4.12E-05 377200000 11083.3 10949.3 8250.3 10367.1 9974.2 11352.1 9951.8 9995.2 12486.4 10860.7 TRUE FALSE FALSE 12249.09235 11304.0645 9374.607918 10567.77021 9209.978951 10384.83721 8831.997272 9739.537257 12399.50613 11328.95793 1.081219687 0.997802673 0.827490752 0.932810438 0.812959057 0.916663058 0.779594851 0.859702836 1.094496617 1 13.46772754 -6.860052426 4.601178877 1.03834275 0.856002136 0.776217912 0.049924542 0.075468625 2.783044235 0.007939125 0.01057342 1.38E-07 6.860052426 -0.182340614 LSRLMSGSS(ph)RSLER ddPTM_HeLa_SAHA_4h_R1 2 LSRLMSGSSRSLER 14 2 B5MC67;Q7Z6J6-2;Q7Z6J6;F8WEJ8;F8WCI0 B5MC67 FRMD5 FERM domain-containing protein 5 1 0 LSRLMSGSS(0.999)RSLER;LSRLMSGSS(1)RSLER ; 170.52 1.10E-05 30325000 1485.26 1905.06 1248.59 1434.46 1638.99 2194.01 2057.77 1522.53 2024.25 1555.87 TRUE FALSE FALSE 1641.486461 1966.785194 1418.741343 1462.226048 1513.41094 2007.068005 1826.224304 1483.585887 2010.163079 1622.95117 1.011420733 1.211857282 0.87417377 0.90096737 0.93250553 1.236677999 1.125249076 0.914128481 1.238585064 1 10.66440388 -5.297475287 24.99296887 0.999059302 1.095341819 0.02712788 0.136442572 865.6247757 600359.5026 0.0158775 0.035504195 5.04E-06 5.297475287 0.096282517 LSS(ph)DSFAR ddPTM_HeLa_SAHA_4h_R1 1 LSSDSFAR 8 0 A0A087WSV0;Q9HB09-3;Q9HB09 A0A087WSV0 BCL2L12 Bcl-2-like protein 12 1 0 LS(0.213)S(0.762)DS(0.026)FAR 125.16 0.0027543 6352800 1022.4 1729.9 1102.7 1135.2 1722.1 1617.1 1503.5 1132.4 1413.9 1458.1 TRUE FALSE FALSE 1129.940723 1785.949895 1252.970213 1157.173438 1590.15307 1479.313982 1334.322223 1103.434848 1404.060555 1520.965827 0.74291 1.174220922 0.823799057 0.760814883 1.045489019 0.972614872 0.877286129 0.725482998 0.923137476 1 10.57077202 -9.782787318 1.768643933 1.000267954 0.871275712 0.015979737 0.137735533 0.701807173 3.970422995 0.102760684 0.021654646 1.65E-10 9.782787318 -0.128992242 LSS(ph)GFDDIDLPSAVK ddPTM_HeLa_SAHA_4h_R1 4 LSSGFDDIDLPSAVK 15 0 Q9Y446;Q9Y446-2;E9PKC4 Q9Y446 PKP3 Plakophilin-3 1 0 LS(0.118)S(0.881)GFDDIDLPSAVK;LS(0.26)S(0.74)GFDDIDLPSAVK;LS(0.347)S(0.653)GFDDIDLPSAVK;LS(0.002)S(0.998)GFDDIDLPSAVK ;;; 258.41 4.40E-44 30206700 3510.83 4708.42 4159.72 3613.39 4485.76 4616.68 4717.16 3879.26 3937.43 4421.1 TRUE FALSE FALSE 3880.115208 4860.975897 4726.584979 3683.332388 4142.062038 4223.312891 4186.372742 3780.034146 3910.029104 4611.715257 0.841360533 1.054049443 1.024908242 0.798690332 0.898160838 0.915779196 0.907769129 0.81965905 0.847847034 1 12.17108772 -6.257629544 24.99935839 0.941713911 0.87454916 0.243911881 0.07344938 540.0176876 3543484.663 0.012544648 0.0202917 5.53E-07 6.257629544 -0.067164751 LSS(ph)LRAS(ph)TSKSESSQK ddPTM_HeLa_SAHA_4h_R1 2 LSSLRASTSKSESSQK 16 2 P62753;A2A3R5 P62753 RPS6 40S ribosomal protein S6 2 0 LS(0.152)S(0.848)LRAS(0.998)T(0.002)SKSESSQK;LS(0.238)S(0.881)LRAS(0.881)T(0.001)SKSESSQK ; 96.012 0.0039824 111416000 14571.4 12699.6 13824.4 12964.8 14475 14814.9 15793.1 15290.5 9430.5 13060.9 TRUE FALSE FALSE 16104.08671 13111.07537 15708.31724 13215.75245 13365.92863 13552.58717 14016.01882 14899.39115 9364.872383 13624.01932 1.182036397 0.962350028 1.152987006 0.970033302 0.981056201 0.994756896 1.028772677 1.09361201 0.687379558 1 13.73386477 -6.245521262 24.97975143 1.081477645 1.011626615 0 0.141892103 1249.245017 1960397.688 0.012442605 0.020588405 5.68E-07 6.245521262 -0.06985103 LSS(ph)PGPSR ddPTM_HeLa_SAHA_4h_R1 1 LSSPGPSR 8 0 Q86VQ6;H0YBI6;H0YBQ0 Q86VQ6 TXNRD3 Thioredoxin reductase 3 1 0 LS(0.147)S(0.853)PGPSR 102.06 0.0096464 10492000 3043.7 3005.7 2393.6 3407.1 3500 4467.7 3947.4 2969.4 3993.9 4809.1 TRUE FALSE FALSE 3363.850331 3103.086652 2719.787343 3473.049347 3231.830756 4087.026825 3503.228163 2893.447048 3966.106125 5016.443836 0.670564735 0.618582955 0.542174383 0.692332948 0.644247372 0.814725921 0.698348926 0.576792473 0.790621056 1 12.29244928 -9.018752252 0.754715197 1.007431919 0.658771995 0.452608151 0.094137937 0.273543113 0.277670858 0.055571396 0.015863641 9.58E-10 9.018752252 -0.348659924 LSS(ph)PISK ddPTM_HeLa_SAHA_4h_R1 1 LSSPISK 7 0 A0A494C142;Q99728-3;Q99728-2;Q99728 A0A494C142 BARD1 BRCA1-associated RING domain protein 1 1 0 LS(0.002)S(0.996)PIS(0.003)K 97.635 0.015207 19829000 10303 10030 8284.8 9587.7 10567 11854 10493 10108 13884 10332 TRUE FALSE FALSE 11386.71681 10354.97858 9413.809399 9773.283798 9757.358743 10843.97251 9312.300024 9849.451996 13787.38011 10777.46308 1.056530347 0.960799262 0.873471737 0.906826006 0.90534838 1.006171158 0.864053066 0.913893364 1.279278807 1 13.39573 -7.038109793 4.804571162 1.026317021 0.913237808 0.427085748 0.088547122 0.09543673 5.261759516 0.006659646 0.0083699 9.16E-08 7.038109793 -0.113079213 LSS(ph)PVLHR ddPTM_HeLa_SAHA_4h_R1 4 LSSPVLHR 8 0 Q16643;Q16643-2;Q16643-3;D6R9W4;D6RCR4 Q16643 DBN1 Drebrin 1 0 LS(0.384)S(0.616)PVLHR;LS(0.134)S(0.866)PVLHR;LS(0.126)S(0.874)PVLHR;LS(0.093)S(0.907)PVLHR ;;; 143.03 0.00057888 1544250000 24726.7 26645.2 23658.9 24612.9 26974.5 28741.6 28843.4 26114.7 24436.6 24515.8 TRUE FALSE FALSE 27327.56776 27508.52196 26883.01168 25089.31827 24907.71964 26292.65398 25597.86472 25446.72379 24266.54371 25572.79612 1.068618685 1.075694728 1.05123474 0.981094056 0.973992814 1.028149361 1.000980284 0.995070061 0.948920235 1 14.64232229 -6.263806898 24.99344354 1.038445897 0.996721232 0.141852512 0.037045569 214.1250884 2260477.443 0.005020115 0.007901792 5.45E-07 6.263806898 -0.041724665 LSS(ph)SLGR ddPTM_HeLa_SAHA_4h_R1 1 LSSSLGR 7 0 Q9BST9-3;Q9BST9-2;Q9BST9 Q9BST9-3 RTKN Rhotekin 1 0 LS(0.082)S(0.591)S(0.327)LGR 89.752 0.020241 11509000 3160.2 3185.5 3181.3 3485.5 3931.8 4091.7 3272.3 4098.7 3178.6 3583.3 TRUE FALSE FALSE 3492.604336 3288.71229 3614.830997 3552.966893 3630.546333 3743.064141 2904.092192 3993.861189 3156.479864 3737.793599 0.934402674 0.879853904 0.967102891 0.950551923 0.971307333 1.001410068 0.7769536 1.068507686 0.84447677 1 11.86797119 -9.156703055 0.970266395 0.99909453 0.940253202 0 0.086891243 1.027631346 1.781540556 0.040278911 0.012308699 6.97E-10 9.156703055 -0.058841328 LSS(ph)TDDGYIDLQFK ddPTM_HeLa_SAHA_4h_R1 2 LSSTDDGYIDLQFK 14 0 Q5JWB9;A0A087WTT2;Q96A57;Q96A57-2 Q5JWB9 TMEM230 Transmembrane protein 230 1 0 LS(0.005)S(0.994)T(0.002)DDGYIDLQFK;LSS(0.975)T(0.025)DDGYIDLQFK ; 283.82 5.35E-69 24866000 2346.3 6432.5 4216.6 1930.26 4555.1 4988.3 4907.1 2133.6 2477.2 4045.8 TRUE FALSE FALSE 2593.094599 6640.917221 4791.216289 1967.622974 4206.089222 4563.268777 4354.940193 2079.025601 2459.960964 4220.234238 0.614443288 1.573589722 1.135296294 0.466235489 0.996648287 1.081283294 1.031919071 0.492632751 0.582896784 1 12.04310736 LSS(ph)TPPLSALGR ddPTM_HeLa_SAHA_4h_R1 1 LSSTPPLSALGR 12 0 Q8N201 Q8N201 INTS1 Integrator complex subunit 1 1 0 LS(0.001)S(0.488)T(0.488)PPLS(0.024)ALGR 90.434 0.012198 8828200 1877.4 1987.4 1869 1874.6 2115 2320.3 1793.3 2090 1582.4 2041.3 TRUE FALSE FALSE 2074.873546 2051.793064 2123.697587 1910.885594 1952.949157 2122.597386 1591.513164 2036.540826 1571.38795 2129.310433 0.974434499 0.963595083 0.997364008 0.897419918 0.917174465 0.996847314 0.747431253 0.956432089 0.737979735 1 11.05617058 -5.590992954 0.506374472 0.992465605 0.85456155 0 0.101612383 1.242985407 0.462059706 0.013819642 0.081652098 2.56E-06 5.590992954 -0.137904055 LSSAGLIYLHFGHK ddPTM_HeLa_SAHA_4h_R1 2 LSSAGLIYLHFGHK 14 0 F8VQQ3;Q9HB07 F8VQQ3 C12orf10 "UPF0160 protein MYG1, mitochondrial" 0 0 ; ; 58.781 0.019346 2037890 1974.32 2858.9 3711.2 4698.2 3143.3 1231.87 4202.8 1507.8 1716.21 3072.3 FALSE FALSE TRUE 2181.988036 2951.530236 4216.943009 4789.140455 2902.461033 1126.907746 3729.889883 1469.232659 1704.266755 3204.761888 0.680858083 0.920982693 1.315836607 1.494382616 0.905671352 0.351635405 1.163858662 0.458452987 0.531792006 1 11.64600145 -5.491635497 24.52373754 0.941718509 0.695250511 0.158603132 0.328489662 966.7886029 758859.3746 0.046822948 0.104581038 3.22E-06 5.491635497 -0.246467998 LSSAGPRS(ph)PYCK ddPTM_HeLa_SAHA_4h_R1 1 LSSAGPRSPYCK 12 1 Q6PL18;Q6PL18-2 Q6PL18 ATAD2 ATPase family AAA domain-containing protein 2 1 0 LSS(0.001)AGPRS(0.99)PY(0.008)CK 66.784 0.022867 30670000 3580.3 3712.1 2670.7 3669.3 3519.7 3674.5 3464.6 4031.5 3719.4 3592.7 TRUE FALSE FALSE 3956.892381 3832.374476 3034.649088 3740.324607 3250.021346 3361.411928 3074.75409 3928.380068 3693.516393 3747.598879 1.055847359 1.02262131 0.809758244 0.998058951 0.867227644 0.896950831 0.820459763 1.048239204 0.985568763 1 11.87175083 -6.856172448 10.72669343 1.027001253 0.904812713 0.359302338 0.070835151 0.253849225 26.84970099 0.01035761 0.013617738 1.39E-07 6.856172448 -0.12218854 LSSERPS(ph)SDGEGVVENGITTCNGK ddPTM_HeLa_SAHA_4h_R1 2 LSSERPSSDGEGVVENGITTCNGK 24 1 Q8N556;Q8N556-2 Q8N556 AFAP1 Actin filament-associated protein 1 1 0 LS(0.02)S(0.063)ERPS(0.458)S(0.458)DGEGVVENGITTCNGK;LS(0.008)S(0.023)ERPS(0.699)S(0.27)DGEGVVENGITTCNGK ; 97.813 3.04E-05 51503000 3608.5 3276.5 2741.5 3432.5 3558.6 3894.1 3408.5 3551.1 3702.1 3679.5 TRUE FALSE FALSE 3988.058586 3382.66075 3115.097343 3498.941001 3285.940837 3562.300772 3024.966609 3460.268004 3676.336785 3838.141252 1.039059879 0.881327843 0.811616128 0.911623823 0.856128168 0.928131754 0.788133216 0.901547853 0.957843014 1 11.90619209 -7.224200957 6.424379692 1.018465048 0.866084832 0.623661842 0.045760862 0.06995114 8.761998337 0.00653873 0.007956723 5.97E-08 7.224200957 -0.152380216 LSSERPSS(ph)DGEGVVENGITTCNGK ddPTM_HeLa_SAHA_4h_R1 2 LSSERPSSDGEGVVENGITTCNGK 24 1 Q8N556;Q8N556-2 Q8N556 AFAP1 Actin filament-associated protein 1 1 0 LS(0.004)S(0.013)ERPS(0.389)S(0.593)DGEGVVENGITTCNGK;LS(0.021)S(0.066)ERPS(0.18)S(0.733)DGEGVVENGITTCNGK ; 99.641 2.61E-05 80557000 5433.2 5516.8 4449.3 5099.6 5796.9 6130.2 6498.8 5521.6 6279.4 5274.2 TRUE FALSE FALSE 6004.688904 5695.54794 5055.627433 5198.310132 5352.742774 5607.872472 5767.53792 5380.365467 6235.701144 5501.596573 1.091444788 1.035253651 0.918938233 0.944873013 0.972943527 1.019317283 1.04833894 0.977964377 1.133434824 1 12.42563464 -6.969104796 24.79773067 1.044243692 0.98278292 0.398551558 0.048379949 189.1486904 151817.8768 0.007976657 0.01048332 1.07E-07 6.969104796 -0.061460772 LSSETGGMGS(ph)S ddPTM_HeLa_SAHA_4h_R1 1 LSSETGGMGSS 11 0 Q15366-2;Q15366;Q15366-3;Q15366-6;Q15366-5;H3BRU6;F8VZX2;Q15366-8;Q15366-4;Q15366-7;H3BSS4 Q15366-2 PCBP2 Poly(rC)-binding protein 2 1 0 LSSETGGMGS(0.606)S(0.394) 86.189 0.018498 2506000 3215.9 3914.6 3275.4 2978.2 3710.1 4100.7 4397.2 4129.1 3490.7 3545.7 TRUE FALSE FALSE 3554.163117 4041.435608 3721.754454 3035.847368 3425.83294 3751.29729 3902.415483 4023.483601 3466.407934 3698.572479 0.960955379 1.092701476 1.006267817 0.820815973 0.92625816 1.014255449 1.055113968 1.08784771 0.937228608 1 11.85275283 -4.815624351 2.867041821 0.976023762 1.077683943 0.286998986 0.066288427 0.285419664 4.638744343 0.00963405 0.039492914 1.53E-05 4.815624351 0.101660181 LSSGDPSTSPS(ph)LSQTTPSKDTDDQSRK ddPTM_HeLa_SAHA_4h_R1 1 LSSGDPSTSPSLSQTTPSKDTDDQSRK 27 2 Q99504-2;Q99504-4;Q99504-5;Q99504-3;Q99504 Q99504-2 EYA3 Eyes absent homolog 3 1 0 LSSGDPS(0.001)T(0.011)S(0.039)PS(0.488)LS(0.356)QT(0.052)T(0.052)PSKDTDDQSRK 76.106 4.69E-05 13512000 1312.2 1419.4 1248.2 1364.7 1604.6 1589.5 1688.9 1607.5 1269.7 1211.6 TRUE FALSE FALSE 1450.223217 1465.389491 1418.298196 1391.115742 1481.655895 1454.065658 1498.860527 1566.382478 1260.864054 1263.838005 1.147475555 1.159475728 1.122215181 1.100707318 1.172346367 1.150515851 1.185959372 1.239385484 0.997646889 1 10.30359584 -13.52287875 0.156441983 0.382494701 1.21090395 0.838526444 0.029463793 20.23092149 0.212838352 3.818849309 0.066038563 3.00E-14 13.52287875 0.82840925 LSSGLVS(ph)PAPSFYSK ddPTM_HeLa_SAHA_4h_R1 2 LSSGLVSPAPSFYSK 15 0 Q15911;Q15911-2 Q15911 ZFHX3 Zinc finger homeobox protein 3 1 0 LS(0.008)S(0.057)GLVS(0.932)PAPS(0.004)FYSK;LSS(0.004)GLVS(0.976)PAPS(0.019)FYSK ; 137.79 0.00017862 10500200 2710 3471.8 2667.8 2444.1 3017.6 3740.6 2734 2986.4 2398.1 2892.8 TRUE FALSE FALSE 2995.050234 3584.288598 3031.353891 2491.40909 2786.39214 3421.879836 2426.363125 2910.012212 2381.411427 3017.522765 0.992552656 1.187824874 1.004583603 0.825647156 0.92340385 1.134002989 0.804091075 0.964371254 0.789194188 1 11.55914894 -6.4886469 24.81295188 1.014805506 0.932313872 0.05323372 0.122945109 879.3441937 637393.4193 0.015130615 0.023103687 3.25E-07 6.4886469 -0.082491634 LSSGPEQITLEASSTEGHPGAPS(ph)PQHTDQTEAFQK ddPTM_HeLa_SAHA_4h_R1 1 LSSGPEQITLEASSTEGHPGAPSPQHTDQTEAFQK 35 0 H3BND4;Q6P996-3;Q6P996-4;Q6P996-5;Q6P996 H3BND4 PDXDC1 Pyridoxal-dependent decarboxylase domain-containing protein 1 1 0 LSSGPEQITLEAS(0.003)S(0.046)T(0.046)EGHPGAPS(0.902)PQHT(0.001)DQTEAFQK 83.479 6.10E-08 4515900 416.37 696.58 387.73 717.36 1089 1396.9 882.3 1025.4 834.82 884.32 TRUE FALSE FALSE 460.165707 719.149649 440.5678252 731.2455401 1005.561055 1277.876261 783.0212819 999.1717528 829.0104196 922.447363 0.498853079 0.779610499 0.47760755 0.792723324 1.090101285 1.385310764 0.848851992 1.083174816 0.898707561 1 9.84932278 -5.788408354 4.947527189 0.735682265 1.106163412 0.461878508 0.191441168 0.158782607 9.667901471 0.034321763 0.065292814 1.63E-06 5.788408354 0.370481147 LSSLIILMPHHVEPLER ddPTM_HeLa_SAHA_4h_R1 3 LSSLIILMPHHVEPLER 17 0 P50454;E9PPV6;E9PKH2;E9PR70 P50454 SERPINH1 Serpin H1 0 0 ;; ;; 68.173 0.0059254 6578400 1974.06 2805.06 2635.17 3203.84 3620.23 1460.24 3771.33 1595.17 2905.76 2988.89 FALSE FALSE TRUE 2181.700688 2895.945784 2994.277244 3265.854956 3342.84876 1335.819337 3346.970023 1554.367861 2885.53858 3117.755675 0.699766407 0.92885591 0.960395091 1.047501888 1.072197153 0.428455426 1.073519022 0.498553454 0.925517866 1 11.60629216 -4.239871784 23.36990391 0.876099565 0.498552508 0.278049025 0.191303061 2435.289709 2638696.355 0.026677076 1.493223094 5.76E-05 4.239871784 -0.377547057 LSSLPFQK ddPTM_HeLa_SAHA_4h_R1 1 LSSLPFQK 8 0 H3BRV9;P61970 H3BRV9 NUTF2 Nuclear transport factor 2 0 0 98.523 0.01817 17230000 924.09 1964.7 1625.6 2181.8 1150.4 951.39 1756.4 2195.2 693.18 677.02 FALSE FALSE TRUE 1021.290026 2028.357569 1847.128302 2224.031894 1062.256601 870.3262196 1558.765249 2139.049963 688.3561039 706.2096455 1.446157005 2.872174831 2.615552356 3.149251654 1.504166089 1.232390729 2.207227357 3.02891638 0.974719205 1 9.463952715 -7.435065522 4.77356676 1.190384586 2.32687894 0.476615202 0.594593734 0.165696685 6.259517593 0.110933991 0.125065421 3.67E-08 7.435065522 1.136494354 LSSPAAFLPACNS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 4 LSSPAAFLPACNSPSK 16 0 Q86YS7;Q86YS7-5;H0YFE9;Q86YS7-3;Q86YS7-2;Q86YS7-4 Q86YS7;Q86YS7-3 C2CD5 C2 domain-containing protein 5 1 0 LSSPAAFLPACNS(0.987)PS(0.013)K;LSSPAAFLPACNS(0.99)PS(0.01)K;LS(0.002)S(0.01)PAAFLPACNS(0.969)PS(0.019)K;LSSPAAFLPACNS(0.963)PS(0.037)K ;;; 204.07 2.72E-15 24195100 4126.1 6303.64 3832.06 5381.81 6022.5 6892.08 5738.67 5049.39 7790.02 5498.25 TRUE FALSE FALSE 4560.102129 6507.882072 4354.27318 5485.982715 5561.057351 6304.83601 5092.939748 4920.233915 7735.808617 5735.306465 0.795093018 1.1347052 0.759204971 0.95652826 0.969618169 1.099302374 0.887997839 0.857885092 1.348804752 1 12.48565486 -6.045909733 24.98271261 0.909648778 0.959866462 0 0.179591435 1295.536315 704990.303 0.018346909 0.030425772 9.00E-07 6.045909733 0.050217684 LSSPVLHR ddPTM_HeLa_SAHA_4h_R1 1 LSSPVLHR 8 0 Q16643;Q16643-2;Q16643-3;D6R9W4;D6RCR4 Q16643 DBN1 Drebrin 0 0 104.44 0.0024468 0 2248.2 2457.5 1973 2671.6 2841.9 3089.5 3032.7 3147.8 2466 2416.3 FALSE FALSE TRUE 2484.675991 2537.124612 2241.870165 2723.312681 2624.154236 2826.257219 2691.452614 3067.283834 2448.838905 2520.478518 0.985795345 1.006604339 0.88946212 1.080474466 1.041133347 1.121317718 1.067833983 1.216945041 0.971576979 1 11.29948194 -4.310040547 0.598748807 0.988558827 1.315526559 0.675211183 0.048791618 1.424681686 0.357769639 0.008421956 0.31676133 4.90E-05 4.310040547 0.326967733 LSSS(ph)PGLFGAFSVR ddPTM_HeLa_SAHA_4h_R1 1 LSSSPGLFGAFSVR 14 0 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 LS(0.012)S(0.05)S(0.937)PGLFGAFS(0.001)VR 91.712 0.0081309 50329000 1433.8 1562.6 1652.9 1718.7 1858.5 1689.8 1669.5 1501.9 1690.5 1798.6 TRUE FALSE FALSE 1584.613663 1613.229265 1878.148604 1751.967924 1716.102132 1545.819533 1481.643466 1463.483573 1678.735673 1876.146448 0.844610859 0.859863188 1.001067164 0.933811924 0.91469519 0.8239333 0.789726979 0.780047621 0.89477859 1 10.87355673 -13.52287821 0.019941096 2.089775134 1.01E-07 0.324299865 0.061587835 2139.545798 3.440813898 238.4981015 135.7147021 3.00E-14 13.52287821 -2.089775033 LSSS(ph)SATLLNSPDR ddPTM_HeLa_SAHA_4h_R1 1 LSSSSATLLNSPDR 14 0 A0A087WZ40;Q14244-5;Q14244-3;Q14244-6;Q14244;Q14244-7 A0A087WZ40 MAP7 Ensconsin 1 0 LS(0.001)S(0.056)S(0.887)S(0.056)ATLLNSPDR 127.07 0.00062024 13840000 1598.7 1850.5 1670.1 1997.1 2215.8 2214.9 2065 2091.2 1702 1713.3 TRUE FALSE FALSE 1766.858601 1910.457414 1897.69253 2035.756758 2046.025883 2026.178059 1832.640765 2037.710132 1690.155643 1787.168748 0.988635574 1.068985465 1.061842947 1.139095992 1.144842022 1.133736286 1.025443606 1.140188991 0.945716875 1 10.80346015 -6.940316908 1.656680577 0.994162868 1.111945651 0.690617107 0.038583666 0.145761384 0.796950805 0.006236115 0.008414796 1.15E-07 6.940316908 0.117782783 LSSS(ph)TVAISYSPDR ddPTM_HeLa_SAHA_4h_R1 1 LSSSTVAISYSPDR 14 0 Q96T17-2;Q96T17;Q96T17-5 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 LS(0.002)S(0.009)S(0.96)T(0.029)VAISYSPDR 109.95 0.0022992 4228800 1230.3 1345 1187.9 1682.7 1857.7 1381.2 1399.8 1886.9 1561.9 1577.5 TRUE FALSE FALSE 1359.708599 1388.578882 1349.780826 1715.271092 1715.363427 1263.51399 1242.29082 1838.63583 1551.030611 1645.513745 0.826312514 0.843857359 0.820279277 1.042392442 1.042448556 0.767853805 0.75495621 1.117362791 0.942581376 1 10.68432236 -9.563391167 1.36909373 0.999394789 0.888076561 0.033752317 0.120617052 0.805189713 2.728120467 0.08125361 0.019565546 2.73E-10 9.563391167 -0.111318228 LSSSDRYS(ph)DASDDS(ph)FSEPR ddPTM_HeLa_SAHA_4h_R1 1 LSSSDRYSDASDDSFSEPR 19 1 Q9NRF8 Q9NRF8 CTPS2 CTP synthase 2 2 0 LS(0.001)S(0.006)S(0.009)DRY(0.157)S(0.83)DAS(0.407)DDS(0.581)FS(0.009)EPR 102.67 0.01735 8590500 618.24 654.8 260.84 647.03 500.93 818.68 584.5 658.07 636.49 526.44 TRUE FALSE FALSE 683.2693198 676.0159496 296.3859168 659.5542013 462.5488516 748.9238582 518.7305217 641.2375223 632.0606143 549.1374047 1.244259294 1.231050633 0.539729973 1.201073166 0.842318967 1.363818694 0.944627915 1.1677178 1.151006303 1 9.101023374 LSSSGAPPADFPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 LSSSGAPPADFPSPR 15 0 Q8NG08 Q8NG08 HELB DNA helicase B 1 0 LSSSGAPPADFPS(1)PR;LSSSGAPPADFPS(1)PR;LSSSGAPPADFPS(1)PR;LSSSGAPPADFPS(1)PR ;;; 151.11 5.53E-05 27953600 3294.55 2972.17 2809.7 3056.2 3305.27 3465.49 3308.36 3288.79 3433.01 3097.79 TRUE FALSE FALSE 3641.085885 3068.470258 3192.591284 3115.35717 3052.020927 3170.210756 2936.094626 3204.667514 3409.119404 3231.350887 1.126799909 0.949593642 0.988005139 0.964103646 0.944503099 0.98107908 0.908627608 0.991742347 1.055013684 1 11.6579217 -7.238897994 24.62665256 1.059877736 0.960357002 0.609431243 0.036501522 430.1641756 469958.3025 0.008377731 0.010256261 5.77E-08 7.238897994 -0.099520734 LSSSS(ph)ATLLNSPDR ddPTM_HeLa_SAHA_4h_R1 1 LSSSSATLLNSPDR 14 0 A0A087WZ40;Q14244-5;Q14244-3;Q14244-6;Q14244;Q14244-7 A0A087WZ40 MAP7 Ensconsin 1 0 LSS(0.01)S(0.265)S(0.666)AT(0.058)LLNSPDR 140.33 0.00022058 11476000 990.42 762.11 808.22 1296.8 1187.7 1266.3 959.29 1371.5 951.3 849.75 TRUE FALSE FALSE 1094.59692 786.802864 918.3600126 1321.901439 1096.698683 1158.404116 851.3481645 1336.419016 944.6798258 886.3868811 1.234897473 0.887651748 1.036071305 1.491336873 1.237268631 1.306883191 0.960470177 1.507715248 1.065764675 1 9.791792719 -6.304250037 24.97988772 1.088340339 1.278647149 0.356251006 0.16560672 530.6752893 309646.3869 0.026138033 0.039926635 4.96E-07 6.304250037 0.190306811 LSSSS(ph)SNDSGNKVGIQLPEVELSVSTK ddPTM_HeLa_SAHA_4h_R1 1 LSSSSSNDSGNKVGIQLPEVELSVSTK 27 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 LS(0.01)S(0.03)S(0.03)S(0.342)S(0.294)NDS(0.294)GNKVGIQLPEVELSVSTK 60.86 0.0023945 36435000 418.8 484.7 460.92 609.06 536.35 789.57 677.38 636.58 466.11 547.44 TRUE FALSE FALSE 462.8513055 500.404598 523.7317772 620.849237 495.2549789 722.294194 601.1594196 620.2972054 462.8663026 571.0428175 0.810536953 0.87629961 0.91714975 1.087220114 0.867281688 1.264868714 1.052739657 1.086253406 0.810563216 1 9.157455115 -5.712025373 1.218418839 0.90717229 1.115812587 0.455522736 0.102878945 0.365471874 1.066432109 0.017251839 0.04937732 1.94E-06 5.712025373 0.208640297 LSSSSATLLNS(ph)PDR ddPTM_HeLa_SAHA_4h_R1 4 LSSSSATLLNSPDR 14 0 A0A087WZ40;Q14244-5;Q14244-3;Q14244-6;Q14244;Q14244-7 A0A087WZ40 MAP7 Ensconsin 1 0 LSSSSATLLNS(1)PDR;LSSSSATLLNS(1)PDR;LSSSSATLLNS(1)PDR;LSSSSATLLNS(1)PDR ;;; 233.28 1.51E-24 346595000 4685.95 5412.35 4206.11 5540.32 5753.91 6557.46 5799.74 5378.64 6483.88 5472.87 TRUE FALSE FALSE 5178.839721 5587.713691 4779.296766 5647.560905 5313.046659 5998.727517 5147.137991 5241.062177 6438.758151 5708.832209 0.907162714 0.978784012 0.837175904 0.989267279 0.930671364 1.050780142 0.901609612 0.918062046 1.127859064 1 12.47897994 -9.519271926 1.268351497 1.000059766 0.937030595 0.251819201 0.068634446 0.674343249 1.939081488 0.036670433 0.008775443 3.03E-10 9.519271926 -0.063029171 LSSSSATLLNS(ph)PDRAR ddPTM_HeLa_SAHA_4h_R1 4 LSSSSATLLNSPDRAR 16 1 A0A087WZ40;Q14244-5;Q14244-3;Q14244-6;Q14244;Q14244-7 A0A087WZ40 MAP7 Ensconsin 1 0 LSSSSAT(0.003)LLNS(0.997)PDRAR;LSSSSATLLNS(1)PDRAR;LSSSSAT(0.012)LLNS(0.988)PDRAR;LSSSSATLLNS(1)PDRAR ;;; 171.87 3.03E-08 90461000 7528.7 6746.2 6161.5 6777.6 7641.4 7979.8 7905.7 8400 5862.7 6824.6 TRUE FALSE FALSE 8320.603209 6964.781306 7001.157132 6908.790249 7055.917583 7299.876147 7016.129829 8185.140163 5821.900993 7118.841905 1.168814158 0.978358755 0.983468551 0.970493564 0.991160877 1.025430294 0.9855718 1.149785354 0.817815745 1 12.79742685 -7.220270843 24.99289648 1.079717852 1.00803587 0 0.103423598 690.7114453 419322.8017 0.012773263 0.015643927 6.02E-08 7.220270843 -0.071681982 LSSSSSNDS(ph)GNKVGIQLPEVELSVSTK ddPTM_HeLa_SAHA_4h_R1 1 LSSSSSNDSGNKVGIQLPEVELSVSTK 27 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 LSS(0.002)S(0.024)S(0.235)S(0.196)NDS(0.543)GNKVGIQLPEVELSVSTK 86.946 1.52E-05 79812000 227.68 352.67 318.75 199.2 356.25 499.42 439.8 361.29 271.77 307.17 TRUE FALSE FALSE 251.628427 364.0967394 362.18759 203.055804 328.954202 456.8666063 390.3125465 352.0487249 269.8787304 320.413602 0.785323799 1.136333593 1.130375202 0.633730287 1.026654923 1.425865205 1.218152239 1.098732147 0.842282378 1 8.323791583 -5.511334874 24.73231584 0.915284794 1.241576807 0.451024647 0.160844893 334.6505772 716975.3841 0.023846677 0.05063124 3.08E-06 5.511334874 0.326292013 LSSSTVAISYS(ph)PDR ddPTM_HeLa_SAHA_4h_R1 4 LSSSTVAISYSPDR 14 0 Q96T17-2;Q96T17;Q96T17-5 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 LSSSTVAISYS(1)PDR;LSSSTVAISYS(1)PDR;LSSSTVAIS(0.001)YS(0.999)PDR;LSSSTVAISYS(1)PDR ;;; 244.57 3.69E-33 93363000 2335.96 3327.61 2708.14 2901.75 3345.57 4240.13 3424.49 2632.08 4164.3 3246.78 TRUE FALSE FALSE 2581.666991 3435.426747 3077.191216 2957.917567 3089.233149 3878.84707 3039.157372 2564.755205 4135.320297 3386.764575 0.762281208 1.014368336 0.908593186 0.873375607 0.912148772 1.145295749 0.897363045 0.757287715 1.221023843 1 11.72569199 -5.509229222 24.49154576 0.896371173 0.946220564 0 0.150477082 1710.313727 3068837.515 0.018183787 0.039109133 3.10E-06 5.509229222 0.049849391 LSSWDQAETPGHT(ph)PSLR ddPTM_HeLa_SAHA_4h_R1 1 LSSWDQAETPGHTPSLR 17 0 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 LSSWDQAET(0.006)PGHT(0.709)PS(0.286)LR 89.462 0.0057899 6600300 751.44 873.1 488.08 663.77 887.28 1188.7 804.46 983.01 822.97 876.47 TRUE FALSE FALSE 830.4799069 901.3890129 554.5930006 676.6182282 819.2967981 1087.416073 713.9400436 957.8660276 817.2428848 914.258911 0.908364028 0.985923136 0.606603878 0.740072883 0.896132144 1.189396198 0.780894815 1.047696682 0.89388561 1 9.836458973 -3.893998975 17.45830276 0.922489274 9.92531936 0.050596376 0.153652783 340.505806 56153.6272 0.021086696 156.745144 0.000127644 3.893998975 9.002830086 LST(ph)ASEET(ph)VQNRVS(ph)LEK ddPTM_HeLa_SAHA_4h_R1 1 LSTASEETVQNRVSLEK 17 1 O43379;O43379-4;H7C3R4;O43379-3;O43379-2 O43379 WDR62 WD repeat-containing protein 62 3 0 LS(0.082)T(0.46)AS(0.46)EET(0.999)VQNRVS(1)LEK 49.482 0.01532 17942000 0 0 158.55 0 52.347 155.76 0 158.65 142.18 180.8 TRUE FALSE FALSE 0 0 180.1563683 0 48.33618417 142.4883717 0 154.5919627 141.1905578 188.5951728 0 0 0.955254398 0 0.256295978 0.75552502 0 0.819702649 0.74864354 1 7.55914894 -9.49384933 1.251662951 0.998313054 0.306796051 0.238329071 0.362411196 0.400758964 1.127918932 0.234802367 0.057715714 3.21E-10 9.49384933 -0.691517003 LSTEADTDT(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 LSTEADTDTPK 11 0 Q9BYW2;H7C3H4;A0A1W2PPX9 Q9BYW2 SETD2 Histone-lysine N-methyltransferase SETD2 1 0 LSTEADT(0.034)DT(0.966)PK;LSTEADT(0.025)DT(0.975)PK;LSTEADT(0.108)DT(0.892)PK;LSTEADT(0.029)DT(0.971)PK ;;; 162.93 0.00031451 35147000 9553.7 9199.5 8482.3 8835.2 9676.8 9740.1 9471 9136.8 10831.8 9823.1 TRUE FALSE FALSE 10558.602 9497.569836 9638.22367 9006.218072 8935.365675 8910.188684 8405.298154 8903.093886 10756.42062 10246.62191 1.030447116 0.926897656 0.940624505 0.878945095 0.872030387 0.869573286 0.820299434 0.868880882 1.049752856 1 13.32286074 -6.626769217 1.05443898 1.014810064 0.853254438 0.888196394 0.024720825 0.101571968 0.225870255 0.004455986 0.007426126 2.36E-07 6.626769217 -0.161555627 LSTS(ph)SETVSSTAASK ddPTM_HeLa_SAHA_4h_R1 2 LSTSSETVSSTAASK 15 0 Q9P242 Q9P242 NYAP2 Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter 2 1 0 LS(0.001)T(0.048)S(0.942)S(0.003)ET(0.002)VS(0.004)STAASK;LST(0.002)S(0.997)S(0.001)ETVSSTAASK ; 238.67 2.51E-33 12925000 3306 3496.1 2925.5 3478.2 3834.3 3573.3 3745.6 3750.7 3023.3 2584.2 TRUE FALSE FALSE 3653.740248 3609.375934 3324.171905 3545.525591 3540.516762 3268.834737 3324.13523 3654.762525 3002.260609 2695.617509 1.3554372 1.338979259 1.233176403 1.315292537 1.313434399 1.212647835 1.233162798 1.355816437 1.113756161 1 11.39640009 -9.319817772 0.964665446 0.994043517 1.294366736 0.707789333 0.059575695 0.189603627 0.306132328 0.040513801 0.009936979 4.79E-10 9.319817772 0.300323219 LSVAS(ph)TPISQR ddPTM_HeLa_SAHA_4h_R1 2 LSVASTPISQR 11 0 Q9BXS6-4;Q9BXS6-6;Q9BXS6-3;Q9BXS6-5;Q9BXS6-2;Q9BXS6;Q9BXS6-7;H0YMD2 Q9BXS6-4 NUSAP1 Nucleolar and spindle-associated protein 1 1 0 LSVAS(0.5)T(0.5)PISQR;LS(0.017)VAS(0.56)T(0.389)PIS(0.034)QR ; 103.46 0.0058336 15172500 4142.5 4766.9 3591.8 4432.8 6875.4 5555.9 5846.6 5363.7 5498.1 4625 TRUE FALSE FALSE 4578.227156 4921.350688 4081.271799 4518.603254 6348.608337 5082.506063 5188.725181 5226.504321 5459.838274 4824.406384 0.94897212 1.020094556 0.845963518 0.936613314 1.315935647 1.053498743 1.075515777 1.083346614 1.131711933 1 12.23613572 -5.86142402 21.95985832 0.965737346 1.123021189 0.364837268 0.096457118 3.386824311 736.3177409 0.011608013 0.021041342 1.38E-06 5.86142402 0.157283843 LSVDYGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 LSVDYGKK 8 1 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;P0DPH7-2;F8VQQ4;C9JDS9;P68363;P68366-2;P68366;C9JEV8;C9JQ00;C9JJQ8 Q9BQE3;P68363;P68366-2 TUBA1C;TUBA1A;TUBA4A;TUBA1B Tubulin alpha-1C chain;Tubulin alpha-1B chain;Tubulin alpha-4A chain 0 1 ; LSVDYGK(1)K;LSVDYGK(1)K 124.08 0.00062979 19243800 6345.2 19977.9 14645.2 9699.7 17299.9 9528.6 21206.3 7990.8 5011 3812.9 FALSE TRUE FALSE 7012.617249 20625.19707 16640.97159 9887.45172 15974.3854 8716.709674 18820.11131 7786.406907 4976.128043 3977.292779 1.763163448 5.18573769 4.18399462 2.485975328 4.016396652 2.191618812 4.731889845 1.957715295 1.251134457 1 11.95757105 -7.445511481 7.365175143 1.333348756 3.535536473 0.499985288 1.016191037 0.157174078 13.08843229 0.164838773 0.187350515 3.58E-08 7.445511481 2.202187717 LSVGEQPDVTHDPYEFLQS(ph)PEPAASAK ddPTM_HeLa_SAHA_4h_R1 1 LSVGEQPDVTHDPYEFLQSPEPAASAK 27 0 Q9H8M2-2;Q9H8M2-3;Q9H8M2-1;Q9H8M2-6;Q9H8M2 Q9H8M2-2 BRD9 Bromodomain-containing protein 9 1 0 LSVGEQPDVTHDPY(0.003)EFLQS(0.996)PEPAAS(0.001)AK 125.02 2.27E-08 27336000 1020.8 1448.2 876.68 1126.2 1052.7 1177 1317 931.99 1356.4 1407.4 TRUE FALSE FALSE 1128.172428 1495.12263 996.1493848 1147.99923 972.0423534 1076.712978 1168.807694 908.1510453 1346.960702 1468.079902 0.768468001 1.018420475 0.678538943 0.781973262 0.662118153 0.733415788 0.796147194 0.618597833 0.917498224 1 10.51971478 -13.52287875 0.117654775 1.843721701 0.612641478 0.492529787 0.093938327 52.32683482 0.446458964 10.52024008 0.451305489 3.00E-14 13.52287875 -1.231080223 LSVGEQPDVTHDPYEFLQS(ph)PEPAASAKT ddPTM_HeLa_SAHA_4h_R1 1 LSVGEQPDVTHDPYEFLQSPEPAASAKT 28 1 Q9H8M2-2;Q9H8M2-3;Q9H8M2-1;Q9H8M2-6;Q9H8M2 Q9H8M2-2 BRD9 Bromodomain-containing protein 9 1 0 LSVGEQPDVTHDPYEFLQS(1)PEPAASAKT 131.3 1.37E-10 8054300 2045.7 1092.9 1223.6 1240.5 1059 922.92 1301.3 1458.8 844.85 1285 TRUE FALSE FALSE 2260.876112 1128.310677 1390.345836 1264.511671 977.8596488 844.2820238 1154.874299 1421.486008 838.9706201 1340.402639 1.686714161 0.841769961 1.037259847 0.943381962 0.729526801 0.62987195 0.861587605 1.060491801 0.625909407 1 10.38845072 -7.227586856 24.27570259 1.324281704 0.865895983 0 0.295361063 347.6232741 249281.3965 0.046526651 0.056981292 5.92E-08 7.227586856 -0.458385722 LSVGSVT(ph)S(ph)RPSTPTLGTPTPQTMSVSTK ddPTM_HeLa_SAHA_4h_R1 1 LSVGSVTSRPSTPTLGTPTPQTMSVSTK 28 1 Q16594;D6RIE8 Q16594 TAF9 Transcription initiation factor TFIID subunit 9 2 0 LS(0.022)VGS(0.13)VT(0.648)S(0.64)RPS(0.27)T(0.268)PT(0.022)LGTPTPQTMSVSTK 81.292 7.91E-05 3765300 384.27 520.26 339.95 328.87 306.73 362.05 303.06 296.16 431.32 418.16 TRUE FALSE FALSE 424.6892817 537.1167654 386.2766156 335.2357544 283.2284137 331.2013032 268.9588912 288.584656 428.318409 436.188924 0.973636097 1.231385612 0.885571812 0.76855632 0.649325093 0.759307 0.616611006 0.661604732 0.981956179 1 8.768809326 -6.272344348 2.621013846 1.006395555 0.678613147 0.795369797 0.084257257 0.097223718 1.322105207 0.012941001 0.021718833 5.34E-07 6.272344348 -0.327782408 LSVLGAITSVQQR ddPTM_HeLa_SAHA_4h_R1 2 LSVLGAITSVQQR 13 0 B7Z7P8;P62495-2;P62495;D6RCB3;D6RJE8;I3L492 B7Z7P8 ETF1 Eukaryotic peptide chain release factor subunit 1 0 0 ; ; 246.08 3.45E-56 2026950 382.39 528.79 630.27 653.51 483.3 432.18 483.72 188.177 170.15 472.88 FALSE FALSE TRUE 422.6115347 545.923143 716.1599133 666.159631 446.2696584 395.3558326 429.2905525 183.3637048 168.9659123 493.268171 0.856758168 1.106747151 1.451867271 1.350501959 0.90472016 0.801502825 0.870298506 0.371732286 0.342543716 1 8.946228388 -4.128709715 1.259691425 1.008740038 5.75E-16 0.284605152 0.288349702 1.502439482 1.620707042 0.033771477 2.112443483 7.44E-05 4.128709715 -1.008740038 LSVPT(ph)SDEEDEVPAPK ddPTM_HeLa_SAHA_4h_R1 1 LSVPTSDEEDEVPAPK 16 0 Q8NE71;Q5STZ8;Q8NE71-2;F5GYK6 Q8NE71 ABCF1 ATP-binding cassette sub-family F member 1 1 0 LSVPT(0.5)S(0.5)DEEDEVPAPK 154.72 3.28E-12 0 1012.8 1171.8 800.43 1033.6 1097.5 1441 1326.2 1230.6 1692.1 1060.4 TRUE FALSE FALSE 1119.330951 1209.767089 909.5084319 1053.606823 1013.409787 1318.218693 1176.972486 1199.123034 1680.324538 1106.119033 1.01194439 1.093704251 0.822251859 0.952525714 0.916185109 1.191751207 1.064055902 1.084081367 1.519117281 1 10.11129093 -5.264473332 24.99971309 0.98918234 1.108372131 0 0.183421685 222.2946661 1831711.363 0.01063367 0.02477434 5.44E-06 5.264473332 0.119189791 LSVPT(ph)SDEEDEVPAPKPR ddPTM_HeLa_SAHA_4h_R1 1 LSVPTSDEEDEVPAPKPR 18 1 Q8NE71;Q5STZ8;Q8NE71-2;F5GYK6 Q8NE71 ABCF1 ATP-binding cassette sub-family F member 1 1 0 LS(0.001)VPT(0.499)S(0.499)DEEDEVPAPKPR 193.54 2.07E-11 6437200 1449.7 1234.9 842.83 1360.6 1158.8 1161.8 1414.8 1696.1 1376.4 939.72 TRUE FALSE FALSE 1602.186097 1274.91157 957.6864831 1386.93638 1070.012994 1062.808104 1255.60298 1652.716218 1366.82152 980.2359281 1.634490281 1.300617059 0.9769959 1.414900577 1.091587202 1.084237043 1.280919159 1.686039218 1.39438015 1 9.936985216 -9.716900543 1.631702154 1.000421279 1.344853136 0 0.249374228 0.480130901 2.312409505 0.174587399 0.038460025 1.92E-10 9.716900543 0.344431857 LSVPTS(ph)DEEDEVPAPK ddPTM_HeLa_SAHA_4h_R1 1 LSVPTSDEEDEVPAPK 16 0 Q8NE71;Q5STZ8;Q8NE71-2;F5GYK6 Q8NE71 ABCF1 ATP-binding cassette sub-family F member 1 1 0 LSVPT(0.09)S(0.91)DEEDEVPAPK 157.38 5.94E-06 2780300 922.47 1109.7 627.13 1006 1038.3 1261.6 1272.8 1043.7 1562.2 1054.2 TRUE FALSE FALSE 1019.499627 1145.655008 712.5920104 1025.472585 958.7456783 1154.104582 1129.581194 1017.003665 1551.328523 1099.651721 0.927111382 1.041834415 0.648016092 0.932543063 0.871863027 1.04951828 1.027217229 0.924841607 1.410745323 1 10.10283095 -5.250088023 24.57348052 0.938330158 1.00319485 0 0.183143127 1368.174462 2961823.38 0.015192537 0.038328754 5.62E-06 5.250088023 0.064864693 LSVPTS(ph)DEEDEVPAPKPR ddPTM_HeLa_SAHA_4h_R1 6 LSVPTSDEEDEVPAPKPR 18 1 Q8NE71;Q5STZ8;Q8NE71-2;F5GYK6 Q8NE71 ABCF1 ATP-binding cassette sub-family F member 1 1 0 LSVPT(0.107)S(0.893)DEEDEVPAPKPR;LSVPT(0.03)S(0.97)DEEDEVPAPKPR;LS(0.013)VPT(0.192)S(0.795)DEEDEVPAPKPR;LSVPT(0.23)S(0.77)DEEDEVPAPKPR;LSVPT(0.04)S(0.96)DEEDEVPAPKPR;LSVPT(0.033)S(0.967)DEEDEVPAPKPR ;;;;; 212.34 8.73E-22 383985600 16803.77 12276.79 11518.23 14416.02 14927.76 16302.84 15921.16 19205.17 15108.58 13596.84 TRUE FALSE FALSE 18571.26763 12674.56605 13087.8744 14695.06291 13783.99825 14913.74631 14129.66917 18713.92956 15003.43816 14183.06631 1.309397222 0.893640752 0.922781725 1.036099147 0.971863062 1.051517774 0.996235148 1.319455832 1.057841642 1 13.79188185 -7.251222075 24.97646073 1.146104246 1.021279899 0.088707636 0.132252444 1093.313129 2672632.081 0.025567682 0.031136537 5.61E-08 7.251222075 -0.124824347 LSVPYVPQVTDEDRLS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 LSVPYVPQVTDEDRLSR 17 1 A0A1B0GUZ7;Q14156-3;Q14156-2;Q14156 A0A1B0GUZ7 EFR3A Protein EFR3 homolog A 1 0 LSVPYVPQVT(0.001)DEDRLS(0.999)R;LSVPYVPQVT(0.001)DEDRLS(0.999)R ; 123.61 0.00026721 9802800 1641.41 3943.1 2728.2 1612.03 3006.7 2166.71 4011.8 2357.6 1800.84 2404 TRUE FALSE FALSE 1814.061035 4070.859027 3099.984888 1643.233172 2776.327296 1982.094118 3560.381706 2297.296006 1788.307808 2507.648205 0.723411295 1.623377242 1.236212034 0.655288556 1.107143853 0.790419531 1.419809086 0.916115746 0.713141422 1 11.29211925 LSVQSNPS(ph)PQLR ddPTM_HeLa_SAHA_4h_R1 2 LSVQSNPSPQLR 12 0 E9PBY7;E9PQ61;O75152;A0A1W2PPR9 E9PBY7 ZC3H11A Zinc finger CCCH domain-containing protein 11A 1 0 LSVQS(0.009)NPS(0.991)PQLR;LSVQSNPS(1)PQLR ; 196.7 9.21E-08 32681000 2387.5 2130.07 1848.41 2331.7 2116.3 2574 2375.4 2181.43 2384.9 2449.3 TRUE FALSE FALSE 2638.628204 2199.085666 2100.301689 2376.833425 1954.149551 2354.680719 2108.11374 2125.632179 2368.303287 2554.90131 1.032771088 0.860732138 0.822067639 0.93030342 0.764863028 0.92163275 0.825125312 0.831982109 0.926964685 1 11.31905185 -7.248412543 11.06831971 1.015479301 0.851285133 0.554366315 0.053883721 0.185627819 155.482063 0.007008111 0.008459352 5.64E-08 7.248412543 -0.164194168 LT(ph)AQSEEK ddPTM_HeLa_SAHA_4h_R1 1 LTAQSEEK 8 0 H0Y4U7;Q8IUA7-4;Q8IUA7-3;Q8IUA7 H0Y4U7 ABCA9 ATP-binding cassette sub-family A member 9 1 0 LT(0.998)AQS(0.002)EEK 101.54 0.017506 7969900 923.88 1292.9 821.74 986.12 1009.8 987.6 1343.8 1060.9 942.05 1244.8 TRUE FALSE FALSE 1021.057937 1334.790808 933.7224478 1005.207779 932.4293422 903.4509239 1192.592087 1033.763714 935.4941973 1298.46942 0.786355013 1.027972463 0.719094677 0.774148211 0.718098808 0.695781441 0.918459895 0.796140208 0.720459168 1 10.34259632 -10.35031088 0.329093949 1.192871775 0.782899211 0 0.128899482 5.279311496 0.420897359 0.864981802 0.039680101 4.46E-11 10.35031088 -0.409972564 LT(ph)LSEGHPETPVDGDLGK ddPTM_HeLa_SAHA_4h_R1 1 LTLSEGHPETPVDGDLGK 18 0 E9PDC2;A0A088AWP5;Q8WUY3-4;Q8WUY3;Q8WUY3-2;Q8WUY3-3;H7BZH9 E9PDC2 PRUNE2 Protein prune homolog 2 1 0 LT(0.597)LS(0.403)EGHPETPVDGDLGK 84.107 0.0059199 3863900 1221.1 1548 1324.1 1317.4 1743.4 1656.3 1662.7 1389.1 1650.4 1563.6 TRUE FALSE FALSE 1349.540901 1598.156216 1504.541452 1342.900182 1609.821069 1515.173922 1475.60862 1353.568833 1638.914732 1631.014448 0.827424246 0.979854113 0.922457465 0.82335272 0.987006014 0.928976395 0.904718301 0.829893834 1.004843785 1 10.67155385 -9.613749445 1.423837772 0.9999371 0.894108018 0.337076467 0.056417591 0.413440234 1.506198191 0.041389277 0.009531565 2.43E-10 9.613749445 -0.105829082 LT(ph)PAAIGIANAT(ph)PIPGDLLR ddPTM_HeLa_SAHA_4h_R1 1 LTPAAIGIANATPIPGDLLR 20 0 Q8IWY7;A0A0B4J292;Q6IQ55-3;Q6IQ55-2;Q6IQ55 Q8IWY7 TTBK2 Tau-tubulin kinase 2 2 0 LT(1)PAAIGIANAT(1)PIPGDLLR 138.04 0.00018877 2144700 300.66 599.64 508.36 697.49 693.93 710.66 561.86 612.99 580.22 608.31 TRUE FALSE FALSE 332.2847983 619.0687294 577.6366534 710.9909275 640.7612333 650.1077699 498.6380341 597.3106034 576.1822018 634.5372211 0.523664786 0.975622405 0.910327455 1.120487347 1.009808743 1.024538433 0.785829448 0.941332649 0.908035309 1 9.309560983 -7.119139412 19.28534794 0.773712362 0.967561385 0.193064493 0.140449946 4.463488309 704.9018699 0.03183811 0.038993681 7.60E-08 7.119139412 0.193849023 LT(ph)PEEEEILNK ddPTM_HeLa_SAHA_4h_R1 1 LTPEEEEILNK 11 0 P62241;Q5JR95 P62241 RPS8 40S ribosomal protein S8 1 0 LT(1)PEEEEILNK 158.42 0.00040557 1883500 405.07 745.13 566.34 530.63 543.59 604.9 606.06 571.1 920.97 585.13 TRUE FALSE FALSE 447.6771211 769.2727009 643.5178658 540.901111 501.9402516 553.3591169 537.8645337 556.4920889 914.5608948 610.3578179 0.733466678 1.260363476 1.054328866 0.886203298 0.82237048 0.906614285 0.881228221 0.911747294 1.498401213 1 9.25351145 -3.977568847 15.81916931 0.909009422 0.917914518 0 0.232346421 36930.46215 2142.766309 0.021374381 8309.482358 0.000105301 3.977568847 0.008905096 LT(ph)PLS(ph)DPALAPHT(ph)CSPPK ddPTM_HeLa_SAHA_4h_R1 1 LTPLSDPALAPHTCSPPK 18 0 A8MTI9 A8MTI9 PRSS47 Putative serine protease 47 3 0 LT(1)PLS(1)DPALAPHT(0.95)CS(0.05)PPK 55.755 0.02136 3907600 822.8 1014.8 524.08 623.29 685.16 1077.8 817.92 598.77 938.47 1115.2 TRUE FALSE FALSE 909.3458791 1047.680186 595.4988931 635.3546792 632.6631888 985.9653765 725.885489 583.4543304 931.9391109 1163.28173 0.781707351 0.900624637 0.511912874 0.546174382 0.543860677 0.847572305 0.623998014 0.501558922 0.801129328 1 10.18398482 -7.802165635 0.474485769 0.994645274 0.596542916 0.412511254 0.1321285 0.466155787 0.262578105 0.07061984 0.051005349 1.58E-08 7.802165635 -0.398102359 LT(ph)PSEPCDPLS(ph)S(ph)T(ph)LR ddPTM_HeLa_SAHA_4h_R1 1 LTPSEPCDPLSSTLR 15 0 Q49AJ0-3;Q49AJ0-4;Q49AJ0-2;Q49AJ0 Q49AJ0-3 FAM135B Protein FAM135B 4 0 LT(0.782)PS(0.222)EPCDPLS(0.999)S(0.999)T(0.999)LR 53.924 0.0082091 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 LT(ph)PVSPESSSTEEK ddPTM_HeLa_SAHA_4h_R1 2 LTPVSPESSSTEEK 14 0 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 1 0 LT(0.979)PVS(0.02)PES(0.001)SSTEEK;LT(0.996)PVS(0.004)PESSSTEEK ; 180.85 9.13E-07 10999200 1409.57 1520.22 1640.04 1796.62 1438.64 1957.36 1511.17 1938.63 1794.05 1541.35 TRUE FALSE FALSE 1557.83504 1569.476125 1863.53611 1831.396178 1328.411714 1790.581916 1341.129174 1889.042652 1781.56506 1607.805142 0.9689203 0.976160658 1.159055946 1.139066004 0.82622681 1.113680924 0.834136637 1.174920146 1.108072747 1 10.65087685 LT(ph)RTSGETTQTHTEPTGDSK ddPTM_HeLa_SAHA_4h_R1 1 LTRTSGETTQTHTEPTGDSK 20 1 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 LT(0.245)RT(0.189)S(0.147)GET(0.189)T(0.189)QT(0.037)HT(0.003)EPTGDSK 60.472 0.018406 3870000 755.94 478.11 540.75 552.19 742.82 701.24 803.34 757.37 672.01 765.44 TRUE FALSE FALSE 835.4532376 493.6010777 614.4405939 562.8784359 685.9052921 641.4904069 712.9460689 737.9975721 667.3334277 798.4418644 1.0463545 0.618205407 0.769549571 0.704971096 0.85905477 0.803427821 0.892921703 0.924297191 0.835794636 1 9.641043557 -7.291161748 24.9788267 1.02188964 0.797969512 0.300739823 0.103061338 340.7070478 286331.0192 0.014857674 0.016991647 5.11E-08 7.291161748 -0.223920129 LT(ph)SDEEGEPSGK ddPTM_HeLa_SAHA_4h_R1 2 LTSDEEGEPSGK 12 0 Q8WVC0-2;Q8WVC0 Q8WVC0-2 LEO1 RNA polymerase-associated protein LEO1 1 0 LT(0.644)S(0.356)DEEGEPSGK;LT(0.674)S(0.326)DEEGEPSGK ; 224.25 1.34E-16 48319000 6505.3 7448.7 6717.5 7481.3 7875.9 8497.8 8346.6 7242.9 9372.4 6716.6 TRUE FALSE FALSE 7189.557301 7690.042767 7632.925917 7626.11138 7272.450244 7773.739633 7407.418601 7057.637106 9307.176705 7006.185496 1.026172845 1.097607646 1.089455299 1.088482653 1.038004239 1.109553785 1.05726841 1.007343741 1.328422822 1 12.77441347 -7.452622486 4.125189522 1.01097201 1.070926258 0 0.104467321 0.145876012 4.554542572 0.005142002 0.00574861 3.53E-08 7.452622486 0.059954248 LT(ph)VENSPK ddPTM_HeLa_SAHA_4h_R1 1 LTVENSPK 8 0 F8VVL1;O43583 F8VVL1 DENR Density-regulated protein 1 0 LT(0.988)VENS(0.012)PK 96.342 0.023729 71018000 4032.7 5097.8 3538.5 4622.5 4800.5 5408.7 4171.5 4133.1 7023.1 4402.7 TRUE FALSE FALSE 4456.877889 5262.972065 4020.708352 4711.975172 4432.686727 4947.848331 3702.111841 4027.381287 6974.225675 4592.521943 0.970464147 1.145987353 0.875490287 1.026010377 0.965196635 1.077370646 0.806117398 0.876943287 1.518604758 1 12.1650709 -4.750637804 24.99978971 0.995557237 0.841530291 0.105578265 0.179533893 133.1859258 308246.9357 0.008629047 0.031641263 1.78E-05 4.750637804 -0.154026946 LT(ph)VLEEDEK ddPTM_HeLa_SAHA_4h_R1 1 LTVLEEDEK 9 0 H0YE86;Q99062-4;Q99062;Q99062-3 H0YE86 CSF3R Granulocyte colony-stimulating factor receptor 1 0 LT(1)VLEEDEK 95.358 0.015763 3579900 1926.8 2661 2265.6 2230.6 2737.9 2784.1 2591.9 2232.8 2520.3 2398.6 TRUE FALSE FALSE 2129.469664 2747.218146 2574.344169 2273.776489 2528.122693 2546.879017 2300.25259 2175.688209 2502.761027 2502.015384 0.851101747 1.0980021 1.028908209 0.908777981 1.010434512 1.017930998 0.919359891 0.869574273 1.000298017 1 11.28887495 -1.047658711 20.53022469 0.950972184 0.007328399 0 0.077412691 0 0 0.011326321 0 0.089606866 1.047658711 -0.943643785 LTAEDLFEAR ddPTM_HeLa_SAHA_4h_R1 3 LTAEDLFEAR 10 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ;; ;; 154.85 0.0023381 15348800 4494.5 4700.3 4126 4901.7 4805.2 5681.7 5134 5060.8 5686.3 4873.6 FALSE FALSE TRUE 4967.252132 4852.592804 4688.269793 4996.579491 4437.026614 5197.587196 4556.308808 4931.352064 5646.728575 5083.724747 0.977089118 0.954534922 0.922211572 0.982857991 0.87279049 1.022397446 0.896254033 0.970027354 1.110746324 1 12.3116702 -7.503693335 1.171583162 0.993347568 0.943513121 0.265488525 0.054926426 0.426205663 1.172766474 0.007849512 0.008334262 3.14E-08 7.503693335 -0.049834447 LTAEEMDER ddPTM_HeLa_SAHA_4h_R1 1 LTAEEMDER 9 0 P46940;H0YLE8;A0A0J9YXZ5;A0A087X225 P46940 IQGAP1 Ras GTPase-activating-like protein IQGAP1 0 0 176.6 9.53E-05 6692900 1915.3 2277.5 1982.9 2277.6 2011.7 2309.2 2711.5 2542.1 2426.2 2250.8 FALSE FALSE TRUE 2116.760042 2351.292494 2253.119286 2321.686241 1857.563981 2112.443169 2406.394884 2477.076763 2409.315877 2347.843003 0.901576485 1.001469217 0.959655004 0.988859237 0.791178958 0.89973783 1.024938584 1.055043612 1.026182702 1 11.19712023 -5.651455413 0.002525299 1.897345583 1.74E-07 0 0.076034998 389396.113 272.2350465 101252.5937 103290.3118 2.23E-06 5.651455413 -1.897345409 LTAFVNTLNGK ddPTM_HeLa_SAHA_4h_R1 1 LTAFVNTLNGK 11 0 Q5VWC4;P55036;A6PVX3;P55036-2;A2A3N6 Q5VWC4 PSMD4;PIPSL 26S proteasome non-ATPase regulatory subunit 4;Putative PIP5K1A and PSMD4-like protein 0 0 135.99 0.00061109 861070 238.61 195 132.91 212.99 120.25 118.52 135.75 0 140.24 156.47 FALSE FALSE TRUE 263.7080946 201.3181279 151.0222826 217.1127294 111.036471 108.4214292 120.4750527 0 139.2640584 163.2161874 1.615698165 1.233444618 0.925289856 1.330215666 0.680303055 0.664281104 0.738131766 0 0.853249059 1 7.350640338 -4.912372461 0.680021601 1.284141636 1.41E-23 0.588651584 0.269158179 0.782297962 0.406303992 0.051490732 0.653169063 1.22E-05 4.912372461 -1.284141636 LTAS(ph)PSDPK ddPTM_HeLa_SAHA_4h_R1 2 LTASPSDPK 9 0 E7EWD6;Q76L83;Q76L83-2;A0A5F9ZHN2 E7EWD6 ASXL2 Putative Polycomb group protein ASXL2 1 0 LTAS(0.5)PS(0.5)DPK;LTAS(0.924)PS(0.076)DPK ; 131.12 0.0019099 23296000 13474.2 14612.6 11785.5 13986 14418.4 16781.8 15819.1 14732 16661.5 15007.1 TRUE FALSE FALSE 14891.47818 15086.05783 13391.56656 14256.71925 13313.66531 15351.89623 14039.09323 14355.17677 16545.55126 15654.12952 0.95128114 0.963711065 0.855465425 0.910732164 0.850489022 0.980693063 0.896830016 0.917021719 1.05694483 1 13.93425567 -7.637868505 0.814976945 0.989348425 0.905327364 0.505187204 0.043362142 0.34160296 0.483039971 0.010174647 0.009607789 2.30E-08 7.637868505 -0.084021061 LTASSTPPTLDR ddPTM_HeLa_SAHA_4h_R1 1 LTASSTPPTLDR 12 0 F2Z2X4;Q9C0E2 F2Z2X4 XPO4 Exportin-4 0 0 117.81 0.0098567 5171100 953.58 1336.7 1046.2 1526.9 1332.7 1364.5 1167.6 1217.5 2081.6 1180.9 FALSE FALSE TRUE 1053.88192 1380.009957 1188.770688 1556.455357 1230.588814 1248.236924 1036.218575 1186.358113 2067.113976 1231.814378 0.85555254 1.120306745 0.965056675 1.263546996 0.999005074 1.013331997 0.841213249 0.963098121 1.678105088 1 10.26656916 -3.135526011 13.85582963 0.970298172 1.000679363 0 0.253565586 0 0 0.016796176 0 0.000731937 3.135526011 0.03038119 LTEDLEYHELLDR ddPTM_HeLa_SAHA_4h_R1 4 LTEDLEYHELLDR 13 0 P22059;H0YCV6 P22059 OSBP Oxysterol-binding protein 1 0 0 ;;; ;;; 255.24 4.84E-42 16339800 13021.6 12655.3 12830.6 14232.4 15651.6 15590.1 14651.7 12468.5 15404.1 14715.7 FALSE FALSE TRUE 14391.27163 13065.34002 14579.08735 14507.88868 14452.37779 14261.73577 13003.05215 12149.57382 15296.90161 15350.16584 0.937531997 0.851153021 0.949767416 0.945129117 0.941512811 0.92909327 0.847095223 0.791494629 0.996530055 1 13.90596662 -1 0.231008847 0.982648126 0.047112914 0.621478988 0.039483155 26.23218361 0.319559378 0.028610647 9.390425629 0.1 1 -0.935535212 LTEGCS(ph)FR ddPTM_HeLa_SAHA_4h_R1 2 LTEGCSFR 8 0 P42677;H0YMV8;Q71UM5;C9J1C5 P42677 RPS27;RPS27L 40S ribosomal protein S27;40S ribosomal protein S27-like 1 0 LTEGCS(1)FR;LTEGCS(1)FR ; 114.86 0.0048066 98524000 6160.6 10193.4 6542.6 7246.2 10019.7 8744.5 15023.1 10695.9 8848.3 8281.4 TRUE FALSE FALSE 6808.600174 10523.67285 7434.191456 7386.460679 9251.992751 7999.419405 13332.66125 10422.31437 8786.72396 8638.451682 0.788173671 1.218236003 0.860593047 0.855067662 1.071024426 0.926024674 1.543408673 1.206502594 1.017164219 1 13.07655704 -4.775019998 24.99468092 0.928301473 1.374955595 0.55504341 0.142762278 96.07103787 176816.6346 0.019801942 0.0598734 1.68E-05 4.775019998 0.446654122 LTESCCS(ph)SDAFER ddPTM_HeLa_SAHA_4h_R1 1 LTESCCSSDAFER 13 0 F8WF45;A0A2R8Y7M0;P82094;P82094-2 F8WF45 TMF1 TATA element modulatory factor 1 0 LTESCCS(0.982)S(0.018)DAFER 161.87 5.47E-05 5233800 697.23 828.76 623.04 674.27 752.45 1017.5 717.7 619.1 804.82 681.58 TRUE FALSE FALSE 770.5678504 855.6123678 707.9446465 687.3214709 694.7974436 930.8032757 636.9425071 603.2643184 799.2191921 710.9662494 1.083831829 1.203450049 0.995750005 0.966742755 0.977257984 1.309208808 0.895882903 0.8485133 1.124130988 1 9.473637264 LTESCCSS(ph)DAFER ddPTM_HeLa_SAHA_4h_R1 1 LTESCCSSDAFER 13 0 F8WF45;A0A2R8Y7M0;P82094;P82094-2 F8WF45 TMF1 TATA element modulatory factor 1 0 LTESCCS(0.317)S(0.683)DAFER 108.23 0.0029298 6343000 984.69 1252.3 1049.8 1193.7 1081.4 1347.4 1168.2 1120.7 1426.5 1021.5 TRUE FALSE FALSE 1088.264212 1292.875342 1192.861277 1216.80579 998.5433656 1232.59394 1036.751061 1092.034117 1416.57287 1065.541864 1.021324688 1.213350113 1.11948795 1.141959627 0.937122603 1.156776642 0.97298013 1.024862705 1.329438963 1 10.05737156 -7.494665297 24.74699477 1.009407892 1.080807893 0 0.129029035 409.3727173 359079.1559 0.013741148 0.014898291 3.20E-08 7.494665297 0.071400001 LTFDSSFSPNTGKK ddPTM_HeLa_SAHA_4h_R1 1 LTFDSSFSPNTGKK 14 1 C9JI87;P21796 C9JI87 VDAC1 Voltage-dependent anion-selective channel protein 1 0 0 104.7 0.0035403 1051300 130.69 464.29 355.6 249.65 350.83 198.31 415.83 270.89 0 160.22 FALSE FALSE TRUE 144.4365738 479.3333006 404.0593161 254.4823367 323.9494812 181.4128723 369.039714 263.961026 0 167.1278683 0.864227943 2.868063271 2.417665708 1.522680444 1.938333113 1.085473501 2.208127931 1.579395637 0 1 7.38480851 -7.309604507 24.99856355 0.935885201 1.924288835 0.523116716 0.555326197 235.4152287 122184.1884 0.079869607 0.091334461 4.90E-08 7.309604507 0.988403634 LTFPLPCVVLYATHQENKR ddPTM_HeLa_SAHA_4h_R1 1 LTFPLPCVVLYATHQENKR 19 1 Q9UKG1 Q9UKG1 APPL1 DCC-interacting protein 13-alpha 0 0 55.975 0.010965 703890 284.98 501.49 602.19 779.55 724.4 591.1 771.16 448.43 526.07 627.21 FALSE FALSE TRUE 314.9555039 517.738605 684.2533171 794.6393175 668.8966285 540.7349546 684.3870472 436.9598099 522.409036 654.2520926 0.481397778 0.79134421 1.045855756 1.214576654 1.022383629 0.826493275 1.046060158 0.667876824 0.79848279 1 9.353702823 -6.852090565 6.079829051 0.749492382 0.980362452 0.231970518 0.180041662 0.276696577 15.20227184 0.037784194 0.049948198 1.41E-07 6.852090565 0.23087007 LTFS(ph)VIWTLT(ph)PEGK ddPTM_HeLa_SAHA_4h_R1 1 LTFSVIWTLTPEGK 14 0 H7C440;Q8IYB7-3;Q8IYB7-2;Q8IYB7 H7C440 DIS3L2 DIS3-like exonuclease 2 2 0 LT(0.022)FS(0.977)VIWT(0.029)LT(0.972)PEGK 54.412 0.023324 59394000 1926.3 2011 1748 1905.7 1979.6 2370.1 2086.4 1341.7 1898.2 1792.5 TRUE FALSE FALSE 2128.917072 2076.157719 1986.208337 1942.587579 1827.923476 2168.154146 1851.632781 1307.381257 1884.990272 1869.783447 1.13859018 1.110373355 1.06226651 1.0389372 0.977612396 1.159575003 0.990292637 0.699215334 1.008132933 1 10.86865548 -4.295800704 3.362530838 1.066873533 0.664049618 0.780325331 0.057395019 0.103801684 1.960183563 0.00893429 0.101788891 5.06E-05 4.295800704 -0.402823915 LTGIKHELQANCYEEVK(ac)DR ddPTM_HeLa_SAHA_4h_R1 1 LTGIKHELQANCYEEVKDR 19 2 P23528;G3V1A4;E9PP50;E9PK25 P23528 CFL1 Cofilin-1 0 1 LTGIKHELQANCYEEVK(1)DR 91.926 0.0019856 3843100 1076.7 1678.8 1259.9 1369.6 2569.8 2020.2 2486.5 1739.3 1645 960.9 FALSE TRUE FALSE 1189.952246 1733.194222 1431.592611 1396.110588 2372.902479 1848.067595 2206.712476 1694.811224 1633.552311 1002.329102 1.187187167 1.729166816 1.428266034 1.392866461 2.367388591 1.84377326 2.201584761 1.69087301 1.629756443 1 9.969140561 -6.700280306 0.597337062 1.029809477 2.041206151 0.368812504 0.319441659 0.299500216 0.221805359 0.065356778 0.121059867 1.99E-07 6.700280306 1.011396674 LTGS(ph)QLSITQVASIK ddPTM_HeLa_SAHA_4h_R1 2 LTGSQLSITQVASIK 15 0 Q9UJF2-2;H0Y638;Q9UJF2 Q9UJF2-2 RASAL2 Ras GTPase-activating protein nGAP 1 0 LTGS(0.991)QLS(0.008)ITQVASIK;LT(0.007)GS(0.993)QLSITQVASIK ; 194.37 2.50E-09 7345400 2795.7 2507.19 2031.76 3596.5 3447.4 2652.4 2987.8 2952.2 3100.5 2598.78 TRUE FALSE FALSE 3089.764553 2588.424601 2308.637672 3666.115458 3183.260957 2426.400598 2651.604881 2876.686999 3078.923368 2710.826124 1.139787066 0.954847151 0.851636205 1.352397863 1.17427707 0.895077916 0.978153802 1.061184623 1.135787847 1 11.40451686 -5.253557962 24.89187263 1.070663909 0.978140295 0.113732887 0.133904676 1172.45038 3702935.839 0.019377993 0.048418446 5.58E-06 5.253557962 -0.092523614 LTGS(ph)TSSLNK ddPTM_HeLa_SAHA_4h_R1 5 LTGSTSSLNK 10 0 Q9NV70-2;Q9NV70 Q9NV70-2 EXOC1 Exocyst complex component 1 1 0 LTGS(0.689)T(0.194)S(0.093)S(0.024)LNK;LTGS(0.507)T(0.09)S(0.09)S(0.312)LNK;LTGS(0.709)T(0.212)S(0.061)S(0.018)LNK;LTGS(0.795)T(0.166)S(0.019)S(0.019)LNK;LT(0.001)GS(0.325)T(0.325)S(0.095)S(0.254)LNK ;;;; 178.53 3.77E-05 74578000 10517.1 9721.8 8415.76 11176.6 11135.8 11470 11203.9 12156.9 11308.7 10149.5 TRUE FALSE FALSE 11623.33683 10036.7927 9562.615945 11392.93925 10282.57741 10492.69147 9943.207685 11845.9441 11230.00184 10587.09462 1.097877865 0.948021442 0.903233256 1.076115749 0.971236943 0.991083187 0.939181905 1.11890415 1.060725557 1 13.37001911 -7.25504689 24.87116748 1.046220103 0.989391576 0.152670405 0.064263544 728.1938152 2833175.127 0.011081942 0.013416545 5.56E-08 7.25504689 -0.056828527 LTGST(ph)SSLNK ddPTM_HeLa_SAHA_4h_R1 1 LTGSTSSLNK 10 0 Q9NV70-2;Q9NV70 Q9NV70-2 EXOC1 Exocyst complex component 1 1 0 LTGS(0.026)T(0.464)S(0.306)S(0.204)LNK 134.13 0.0024578 14961000 2030 1898.9 1934.4 2688.6 2350.5 2580.3 2274.3 2222 2214.4 2114.6 TRUE FALSE FALSE 2243.524714 1960.425606 2198.009958 2740.641741 2170.405198 2360.443924 2018.389778 2165.164457 2198.98981 2205.770755 1.017115994 0.888771239 0.996481594 1.242487115 0.983966803 1.070122051 0.91504966 0.981590881 0.996925816 1 11.10706714 LTGSTSS(ph)LNK ddPTM_HeLa_SAHA_4h_R1 1 LTGSTSSLNK 10 0 Q9NV70-2;Q9NV70 Q9NV70-2 EXOC1 Exocyst complex component 1 1 0 LTGS(0.011)T(0.096)S(0.307)S(0.586)LNK 155.47 0.00035732 16959000 3622.6 2700.7 2595.2 3159.2 3216.3 3729.6 3285.6 3463.7 3399.5 2884.4 TRUE FALSE FALSE 4003.641689 2788.204452 2948.860341 3220.350884 2969.867789 3411.817098 2915.895641 3375.103569 3375.842603 3008.7606 1.330661432 0.926695348 0.980091384 1.070324733 0.987073478 1.133960973 0.969135145 1.121758763 1.12200439 1 11.5549536 -7.238737608 24.99635516 1.156145695 1.027219438 0.251825617 0.097726156 1059.751184 1166867.049 0.022143962 0.027110967 5.77E-08 7.238737608 -0.128926257 LTHDVELNLDYER ddPTM_HeLa_SAHA_4h_R1 1 LTHDVELNLDYER 13 0 H7C3V5;G3V0E5;P02786 H7C3V5 TFRC "Transferrin receptor protein 1;Transferrin receptor protein 1, serum form" 0 0 93.649 0.0092989 2628300 1038.3 1390.1 1110.2 1639.3 1516.1 1705.7 1631.5 1857.4 1688.4 1692.6 FALSE FALSE TRUE 1147.513158 1435.140152 1261.492274 1671.031022 1399.936746 1560.364764 1447.919326 1809.890397 1676.650287 1765.576269 0.649936895 0.812845175 0.71449322 0.946450771 0.792906412 0.883770807 0.820083137 1.02509896 0.949633452 1 10.78592343 -4.259624002 22.63413675 0.829349647 1.025099189 0.21395171 0.103600862 62.02316173 773033.2248 0.018316907 0.156071257 5.50E-05 4.259624002 0.195749542 LTKSIYNWT(ph)EEY(ph)GR ddPTM_HeLa_SAHA_4h_R1 1 LTKSIYNWTEEYGR 14 1 Q9NX78 Q9NX78 TMEM260 Transmembrane protein 260 2 0 LTKSIYNWT(1)EEY(1)GR 80.763 0.0077786 0 236.85 177.22 163.99 153.53 43.963 202.92 229.06 123.42 174.55 137.49 TRUE FALSE FALSE 261.7629697 182.9620443 186.3377032 156.5017952 40.59456444 185.6300744 203.2855659 120.2630951 173.3352923 143.4178668 1.825176846 1.275726996 1.299264223 1.091229417 0.283050957 1.294330188 1.417435432 0.838550299 1.208603197 1 7.164080954 -6.283194947 3.4091296 1.386851536 0.982800299 0.187685941 0.344873292 0.338496912 8.280164579 0.064530505 0.105046394 5.21E-07 6.283194947 -0.404051237 LTLDES(ph)YDLVVENK ddPTM_HeLa_SAHA_4h_R1 1 LTLDESYDLVVENK 14 0 Q9Y6Y8-2;Q9Y6Y8 Q9Y6Y8-2 SEC23IP SEC23-interacting protein 1 0 LT(0.001)LDES(0.999)YDLVVENK 109.07 0.0011514 0 325.48 442.07 515.85 400.63 534.05 628.42 371.81 325.71 634.26 369.45 TRUE FALSE FALSE 359.7154798 456.3933581 586.1473516 408.384773 493.1312044 574.8750806 329.9729602 317.3788098 629.846133 385.3787975 0.933407551 1.1842721 1.520964192 1.059697045 1.279601285 1.491714345 0.856230188 0.823550262 1.634355956 1 8.590133391 -7.254929276 23.25413393 0.968553563 1.18678061 0 0.302680074 260.9908975 932259.5776 0.036876513 0.044547205 5.56E-08 7.254929276 0.218227047 LTLDK(ac)LDVK ddPTM_HeLa_SAHA_4h_R1 1 LTLDKLDVK 9 1 P00558 P00558 PGK1 Phosphoglycerate kinase 1 0 1 LTLDK(1)LDVK 131.28 0.0011606 7037100 662.35 2586.4 1629.6 1322 2161.3 1919.2 2682.6 1425.4 1297.6 750.34 FALSE TRUE FALSE 732.019012 2670.201057 1851.673401 1347.589222 1995.701661 1755.673363 2380.746788 1388.940332 1288.569896 782.6908295 0.935259472 3.411565533 2.365778838 1.721738867 2.549795635 2.243124995 3.041746112 1.774570852 1.646333198 1 9.612298731 -7.28851195 24.63876027 0.969427954 2.432582564 0.52943028 0.527462331 242.3698906 220580.2813 0.07700321 0.088069546 5.15E-08 7.28851195 1.46315461 LTLFVNGQPR ddPTM_HeLa_SAHA_4h_R1 1 LTLFVNGQPR 10 0 C9JTY3;C9JUE0;C9JJP5;Q92734-4;Q92734-3;Q92734-2;Q92734 C9JTY3 TFG Protein TFG 0 0 101.65 0.014471 1174700 0 297.22 342.91 221.64 376.39 299.3 235.14 119.08 318.11 216.77 FALSE FALSE TRUE 0 306.850123 389.639989 225.9301627 347.5510795 273.7979562 208.6814283 116.034106 315.8962466 226.1160155 0 1.357047276 1.723186162 0.999178064 1.537047602 1.210873788 0.92289539 0.51316182 1.397053835 1 7.82091937 -7.239811909 24.8967048 0.527777756 1.199359692 0.035198377 0.475182318 710.3207187 817694.4412 0.08041024 0.098434474 5.76E-08 7.239811909 0.671581936 LTLFVNGQPRPLESSQVK ddPTM_HeLa_SAHA_4h_R1 2 LTLFVNGQPRPLESSQVK 18 1 C9JTY3;C9JUE0;C9JJP5;Q92734-4;Q92734-3;Q92734-2;Q92734 C9JTY3 TFG Protein TFG 0 0 ; ; 167.29 1.13E-12 3607100 859.83 935.69 1193.9 969.44 1019.04 1039.4 1287.49 778.91 734.03 1001.85 FALSE FALSE TRUE 950.2708644 966.0069699 1356.598474 988.204913 940.9613754 950.8372725 1142.618237 758.98661 728.9218255 1045.044656 0.909311252 0.924369082 1.298124885 0.945610225 0.90040303 0.909853246 1.093367857 0.72627194 0.697503041 1 10.02934888 -4.242853662 23.82919101 0.97601913 0.726271524 0.188746263 0.146221488 2129.792132 2730576.304 0.015858202 0.675470002 5.72E-05 4.242853662 -0.249747607 LTLT(ph)SDESTLIEDGGAR ddPTM_HeLa_SAHA_4h_R1 1 LTLTSDESTLIEDGGAR 17 0 Q9NRX5 Q9NRX5 SERINC1 Serine incorporator 1 1 0 LTLT(0.982)S(0.018)DESTLIEDGGAR 205.33 2.02E-15 6832800 494.29 1032.9 664.78 650.69 825.91 1043.3 885.72 661.23 802.23 868.68 TRUE FALSE FALSE 546.2816901 1066.366638 755.3727564 663.2850459 762.6289542 954.4049706 786.0564545 644.316694 796.6472161 906.133046 0.602871391 1.176832301 0.833622347 0.731995206 0.841630219 1.053272447 0.867484591 0.71106191 0.879172457 1 9.823579084 LTPAEEENNSFQRLS(ph)P ddPTM_HeLa_SAHA_4h_R1 1 LTPAEEENNSFQRLSP 16 1 Q5HYI7-5;Q5HYI7 Q5HYI7-5 MTX3 Metaxin-3 1 0 LTPAEEENNS(0.04)FQRLS(0.96)P 106.6 0.01075 9070000 2429.8 2646.9 1956.5 2317.5 2294.1 2780.4 2750.2 2630.1 2410.6 2268 TRUE FALSE FALSE 2685.377512 2732.661297 2223.121631 2362.358564 2118.326554 2543.494278 2440.740258 2562.82585 2393.824438 2365.784579 1.135089617 1.15507613 0.939697405 0.998551848 0.895401286 1.075116602 1.031683222 1.083287918 1.011852245 1 11.208103 -6.751597456 24.99998779 1.072421041 1.003271277 0.204120988 0.069097121 297.0683186 754596.9812 0.012353978 0.017348306 1.77E-07 6.751597456 -0.069149763 LTPEEEEILNK ddPTM_HeLa_SAHA_4h_R1 3 LTPEEEEILNK 11 0 P62241;Q5JR95 P62241 RPS8 40S ribosomal protein S8 0 0 ;; ;; 232.72 3.54E-44 27143200 2118.2 2144.76 2334.15 2138.75 1972.06 2229.32 2353.34 2227.88 2541.73 2053.03 FALSE FALSE TRUE 2341.001995 2214.251631 2652.235806 2180.148599 1820.961189 2039.369394 2088.53599 2170.894056 2524.041894 2141.546171 1.093136364 1.033949985 1.238467721 1.018025494 0.850302092 0.952288315 0.975246772 1.013704064 1.178607274 1 11.06443707 -5.991361163 24.99242928 1.06052502 0.948155382 0.413164823 0.081032681 180.3972305 521890.8892 0.011348883 0.020548921 1.02E-06 5.991361163 -0.112369638 LTPEELER ddPTM_HeLa_SAHA_4h_R1 1 LTPEELER 8 0 Q5H8X8;O95399;O95399-2 Q5H8X8 UTS2 Urotensin-2 0 0 127.46 0.014294 21190000 1395.7 1688.8 1296.6 1569.8 1749 1983.1 1720.7 2286.2 1886.3 1552.5 FALSE FALSE TRUE 1542.50613 1743.518228 1473.293896 1600.185749 1614.991998 1814.128723 1527.082307 2227.722314 1873.173085 1619.435873 0.952495962 1.076620728 0.909757478 0.988113068 0.997255912 1.120222637 0.942971768 1.375616257 1.15668247 1 10.66127563 LTPIHDR ddPTM_HeLa_SAHA_4h_R1 2 LTPIHDR 7 0 I3L3X7;A0A087X2I4;P28072 I3L3X7 PSMB6 Proteasome subunit beta type;Proteasome subunit beta type-6 0 0 ; ; 126.28 0.0024949 6670400 9362 8771.8 7053.5 10442.1 10097.7 11327.9 10548.9 7998.1 10934.3 9304.6 FALSE FALSE TRUE 10346.73811 9056.012075 8014.714247 10644.22195 9324.016408 10362.69919 9361.910009 7793.520183 10858.20732 9705.766842 1.06604025 0.933054773 0.825768265 1.096690464 0.960667669 1.067684745 0.964571905 0.802978303 1.118737704 1 13.24462649 -7.256029366 24.66938776 1.031185674 0.956524285 0.21667079 0.091193317 565.17685 2577178.289 0.014507907 0.017486421 5.55E-08 7.256029366 -0.074661389 LTPS(ph)PDIIVLSDNEASSPR ddPTM_HeLa_SAHA_4h_R1 4 LTPSPDIIVLSDNEASSPR 19 0 A0A0U1RRM1;Q8WXI9;A0A0U1RRK3;A0A0U1RR34 A0A0U1RRM1 GATAD2B Transcriptional repressor p66-beta 1 0 LT(0.212)PS(0.788)PDIIVLSDNEASSPR;LT(0.006)PS(0.843)PDIIVLS(0.15)DNEASS(0.001)PR;LT(0.029)PS(0.971)PDIIVLSDNEASSPR;LT(0.002)PS(0.998)PDIIVLSDNEASSPR ;;; 202.84 6.53E-20 23025300 1600.7 1839.62 2177.58 2771.62 2986.5 2994.07 3029.44 3638.58 2126.11 1896.27 TRUE FALSE FALSE 1769.06897 1899.224895 2474.329262 2825.268713 2757.675015 2738.958392 2688.559438 3545.510392 2111.314227 1978.02748 0.894360158 0.960161026 1.250907425 1.428326321 1.394154047 1.38469178 1.35921238 1.79244749 1.067383668 1 10.94984675 -6.557428518 2.148694063 0.947098892 1.460771054 0.776385755 0.123595589 0.095402057 0.88767544 0.018947382 0.029155057 2.77E-07 6.557428518 0.513672161 LTPSPDIIVLS(ph)DNEASSPR ddPTM_HeLa_SAHA_4h_R1 3 LTPSPDIIVLSDNEASSPR 19 0 A0A0U1RRM1;Q8WXI9;A0A0U1RRK3;A0A0U1RR34 A0A0U1RRM1 GATAD2B Transcriptional repressor p66-beta 1 0 LTPSPDIIVLS(1)DNEASSPR;LTPSPDIIVLS(1)DNEASSPR;LTPSPDIIVLS(1)DNEASSPR ;; 294.39 3.17E-91 25638600 2343.51 2653.64 2535.24 2868.41 2974.19 3881.3 3471.25 3409.11 2785.36 2515.6 TRUE FALSE FALSE 2590.011134 2739.619677 2880.729304 2923.932223 2746.308205 3550.591404 3080.655814 3321.909903 2765.976453 2624.059827 0.987024422 1.044038573 1.097813882 1.114278033 1.046587496 1.353090874 1.17400365 1.265942898 1.054082847 1 11.3575849 -5.757865943 0.670366429 0.992591946 1.276438567 0.651349585 0.06634816 0.331331887 0.255147108 0.011804795 0.049859048 1.75E-06 5.757865943 0.283846621 LTPSPDIIVLSDNEASS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 LTPSPDIIVLSDNEASSPR 19 0 A0A0U1RRM1;Q8WXI9;A0A0U1RRK3;A0A0U1RR34 A0A0U1RRM1 GATAD2B Transcriptional repressor p66-beta 1 0 LTPSPDIIVLSDNEAS(0.098)S(0.902)PR;LTPSPDIIVLS(0.212)DNEAS(0.337)S(0.451)PR;LTPSPDIIVLS(0.209)DNEAS(0.152)S(0.639)PR ;; 265.42 9.11E-64 22547700 2780.71 3212.48 2756.35 3519.53 4004.3 4001 3952.4 3633.3 3675.4 3216.14 TRUE FALSE FALSE 3073.197836 3316.56646 3131.971024 3587.655592 3697.491399 3660.092291 3507.66555 3540.365447 3649.822592 3354.803535 0.91605896 0.988602291 0.933578074 1.069408553 1.102148415 1.091000487 1.045565117 1.055312304 1.087939295 1 11.71201257 -6.251341452 24.00574522 0.960095561 1.073834383 0.402820917 0.048630839 168.9634317 401675.3607 0.005414293 0.008903771 5.61E-07 6.251341452 0.113738822 LTPVS(ph)PES(ph)SSTEEK ddPTM_HeLa_SAHA_4h_R1 1 LTPVSPESSSTEEK 14 0 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 2 0 LT(0.003)PVS(0.997)PES(0.574)S(0.394)S(0.028)T(0.004)EEK 139.86 0.0026185 4926000 2173.3 2220.9 1420.2 1815.1 1725.5 2094.6 1626.9 1798.1 2609.5 1707.2 TRUE FALSE FALSE 2401.897665 2292.858617 1613.73746 1850.233885 1593.292563 1916.128296 1443.83693 1752.107206 2591.340277 1780.805747 1.348770168 1.287539992 0.906183879 1.038986924 0.894703179 1.075989506 0.810777331 0.983884519 1.455150446 1 10.79831444 -6.75151453 24.97760119 1.178512077 0.952365112 0.516205911 0.140909485 172.7714006 434807.6638 0.023645113 0.033207937 1.77E-07 6.75151453 -0.226146964 LTPVS(ph)PESS(ph)STEEK ddPTM_HeLa_SAHA_4h_R1 1 LTPVSPESSSTEEK 14 0 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 2 0 LTPVS(0.833)PES(0.284)S(0.497)S(0.366)T(0.02)EEK 118.19 0.0011012 0 1069.6 1423.9 748.44 1104.4 1159.1 1333.4 1064.1 1045.6 1571.8 1524.1 TRUE FALSE FALSE 1182.105436 1470.035294 850.4335055 1125.777259 1070.290008 1219.786818 944.3646674 1018.855066 1560.861716 1589.81141 0.743550731 0.924660174 0.534927288 0.708120002 0.673218221 0.767252525 0.594010498 0.640865363 0.981790485 1 10.63463992 -11.92569146 0.15815323 1.702958247 0.581549011 0.651045463 0.0908934 16.73720335 0.284066745 3.99884803 0.19995138 1.19E-12 11.92569146 -1.121409236 LTPVS(ph)PESSSTEEK ddPTM_HeLa_SAHA_4h_R1 4 LTPVSPESSSTEEK 14 0 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 1 0 LT(0.021)PVS(0.504)PES(0.316)S(0.071)S(0.071)T(0.016)EEK;LT(0.008)PVS(0.937)PES(0.027)S(0.026)S(0.003)T(0.001)EEK;LT(0.001)PVS(0.972)PES(0.024)S(0.002)STEEK;LT(0.017)PVS(0.966)PES(0.013)S(0.002)S(0.001)TEEK ;;; 192.39 1.06E-08 1226711700 5243.33 5237.43 4543.17 5004.24 5539.2 6011.33 5873.03 5193.96 5972.52 4824.29 TRUE FALSE FALSE 5794.847507 5407.126168 5162.289548 5101.104301 5114.787693 5499.130865 5212.181207 5061.106024 5930.956747 5032.288751 1.151533188 1.074486468 1.025833334 1.013674802 1.01639392 1.092769342 1.035747642 1.005726474 1.178580372 1 12.29699899 -6.767367315 23.96990893 1.073776425 1.033137374 0.237575101 0.052440513 162.2993688 656267.6397 0.009717546 0.012969912 1.71E-07 6.767367315 -0.04063905 LTPVSLSNS(ph)PIK ddPTM_HeLa_SAHA_4h_R1 2 LTPVSLSNSPIK 12 0 P46100-5;P46100-3;P46100-4;P46100;P46100-2 P46100-5 ATRX Transcriptional regulator ATRX 1 0 LTPVSLS(0.001)NS(0.999)PIK;LTPVS(0.001)LS(0.293)NS(0.706)PIK ; 143.56 0.00054122 19391500 2586.4 3499.9 2367.49 2919.4 3317.1 3702.6 2944.7 3000.1 4325.9 3252.5 TRUE FALSE FALSE 2858.449419 3613.299056 2690.119208 2975.909209 3062.944515 3387.11765 2613.354606 2923.361786 4295.79571 3392.731192 0.842521631 1.065011889 0.792906675 0.877142644 0.902796108 0.998345421 0.770280478 0.861654408 1.266176265 1 11.72823141 -9.49644742 1.057009171 1.004792314 0.886034377 0.287834266 0.11946043 0.726537152 1.352592072 0.068682197 0.014126572 3.19E-10 9.49644742 -0.118757937 LTPVSPES(ph)SSTEEK ddPTM_HeLa_SAHA_4h_R1 1 LTPVSPESSSTEEK 14 0 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 1 0 LTPVS(0.284)PES(0.538)S(0.143)S(0.017)T(0.017)EEK 97.452 0.0058516 10604000 1370.4 1363.5 1416.4 1414.3 1525.8 1669.6 1609.6 1466.2 1724.6 1570.2 TRUE FALSE FALSE 1514.54496 1407.678295 1609.419616 1441.675822 1408.893534 1527.340687 1428.483572 1428.696727 1712.598368 1637.899006 0.924687636 0.859441449 0.982612243 0.880198239 0.860183398 0.932499917 0.872143866 0.872274006 1.045606818 1 10.67763069 -10.05449835 0.194755755 1.111466933 0.865230337 0.635383385 0.03799135 6.698361012 0.283172408 0.416900558 0.054437108 8.82E-11 10.05449835 -0.246236595 LTPVSPESS(ph)STEEK ddPTM_HeLa_SAHA_4h_R1 1 LTPVSPESSSTEEK 14 0 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 1 0 LTPVSPES(0.004)S(0.873)S(0.061)T(0.061)EEK 232.53 1.73E-24 12600000 909.51 1032.5 766.94 1041 892.02 1184.5 977.9 1190.7 1252.4 896.95 TRUE FALSE FALSE 1005.176435 1065.953677 871.4545891 1061.15006 823.6736203 1083.573936 867.8641183 1160.243618 1243.684446 935.6219041 1.074340426 1.139299618 0.931417473 1.134165474 0.8803488 1.158132288 0.927579949 1.240077443 1.329259652 1 9.869781827 -11.20640807 0.007092093 7.66E-06 2.025866929 0 0.146865107 43136.38231 39.44447283 5996.149352 5290.236223 6.22E-12 11.20640807 2.025859267 LTPYEVDELRR ddPTM_HeLa_SAHA_4h_R1 2 LTPYEVDELRR 11 1 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 0 0 ; ; 171.67 0.00016914 15661600 2922.8 2433.3 2216.23 3016.4 3442.7 3305.5 2955.9 2359.54 2627.1 2668.4 FALSE FALSE TRUE 3230.233514 2512.140517 2518.246283 3074.786784 3178.92107 3023.852804 2623.294352 2299.186383 2608.817797 2783.447783 1.160515219 0.902528343 0.904721942 1.104668391 1.142080369 1.08636951 0.942462211 0.826021022 0.937261268 1 11.4426573 -4.511793077 3.035416562 1.059925458 0.831909984 0.271548197 0.093673354 0.226397 3.87588212 0.013872458 0.092422531 3.08E-05 4.511793077 -0.228015473 LTQAEISEQPTMATVVPQVPTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 LTQAEISEQPTMATVVPQVPTSPK 24 0 C9K0J5;Q70E73 C9K0J5 RAPH1 Ras-associated and pleckstrin homology domains-containing protein 1 1 0 LTQAEISEQPTMAT(0.002)VVPQVPT(0.211)S(0.787)PK;LTQAEISEQPTMAT(0.001)VVPQVPT(0.285)S(0.714)PK ; 89.659 7.18E-05 12245900 2355.3 2382.2 2242.4 2364.4 2679.6 3051.3 2588.7 2589.8 2751.1 2441.02 TRUE FALSE FALSE 2603.041261 2459.384843 2547.982594 2410.166381 2474.289627 2791.312074 2297.412663 2523.556666 2731.954871 2546.264318 1.022298134 0.965879632 1.000674822 0.946549957 0.971733221 1.096238145 0.902267941 0.991081974 1.07292666 1 11.31416647 -7.267338438 24.70675505 1.010529674 0.982336199 0.130204562 0.05060042 802.3786935 3360569.41 0.007522445 0.008711787 5.40E-08 7.267338438 -0.028193476 LTQDQDVDVK ddPTM_HeLa_SAHA_4h_R1 2 LTQDQDVDVK 10 0 P30153;B3KQV6;E9PH38 P30153 PPP2R1A Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform 0 0 ; ; 173.64 0.00040862 10980000 2567.8 2884.1 2544 2932.3 3492 3558.1 3050 3837.2 3280.7 2940.4 FALSE FALSE TRUE 2837.892985 2977.546732 2890.683071 2989.058907 3224.443714 3254.929863 2706.805973 3739.04998 3257.869342 3067.175034 0.925246507 0.970778224 0.942457812 0.974531572 1.051274765 1.061214253 0.882507827 1.219053343 1.06217262 1 11.58269478 -5.818651692 5.377159329 0.962772735 1.041878919 0.136868179 0.083941979 0.240053617 14.19364166 0.010720877 0.019932437 1.52E-06 5.818651692 0.079106184 LTQTSS(ph)TEQLNVLETETEVLNK ddPTM_HeLa_SAHA_4h_R1 3 LTQTSSTEQLNVLETETEVLNK 22 0 Q5JSH3-2;Q5JSH3;Q5JSH3-4;H7BY83 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 LT(0.005)QT(0.043)S(0.164)S(0.624)T(0.164)EQLNVLETETEVLNK;LT(0.001)QT(0.066)S(0.191)S(0.551)T(0.191)EQLNVLETETEVLNK;LT(0.003)QT(0.051)S(0.175)S(0.596)T(0.175)EQLNVLETETEVLNK ;; 208.28 4.49E-22 78848000 6423.2 9540.5 7843.3 10269.5 9718.5 10720.7 10888.8 8239.1 13697.7 9140.7 TRUE FALSE FALSE 7098.821647 9849.61846 8912.144078 10468.28102 8973.87063 9807.236047 9663.563566 8028.355752 13602.37659 9534.80031 0.744517076 1.033017802 0.934696458 1.097902492 0.941170275 1.028572778 1.013504557 0.842005652 1.426603195 1 13.21898701 -7.220510788 24.99321462 0.879355203 0.988017564 0 0.193640957 656.7067614 401021.1432 0.018297176 0.022409262 6.02E-08 7.220510788 0.108662361 LTQTSST(ph)EQLNVLETETEVLNK ddPTM_HeLa_SAHA_4h_R1 1 LTQTSSTEQLNVLETETEVLNK 22 0 Q5JSH3-2;Q5JSH3;Q5JSH3-4;H7BY83 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 LT(0.002)QT(0.02)S(0.057)S(0.033)T(0.889)EQLNVLETETEVLNK 163.19 1.64E-07 9411900 2061.8 3830.6 3151.8 3355.8 3255.6 4473.2 3709.5 3352.1 4880.9 3268.4 TRUE FALSE FALSE 2278.669584 3954.713953 3581.31089 3420.756362 3006.156631 4092.058194 3292.097297 3266.358136 4846.933419 3409.316719 0.668365474 1.159972592 1.050448282 1.003355406 0.88174754 1.200257568 0.965617914 0.95806826 1.421672968 1 11.73526691 -7.252996479 24.99494507 0.843394806 1.029224203 0 0.216308027 641.2286575 1898338.649 0.024507981 0.029752736 5.58E-08 7.252996479 0.185829397 LTRPAAS(ph)PAVGEK ddPTM_HeLa_SAHA_4h_R1 2 LTRPAASPAVGEK 13 1 F5H0Q6;A0A0A0MQS2;Q8N2M8-3;Q8N2M8;Q8N2M8-4 F5H0Q6 CLASRP CLK4-associating serine/arginine rich protein 1 0 LT(0.013)RPAAS(0.987)PAVGEK;LTRPAAS(1)PAVGEK ; 68.625 0.020218 159115000 8841 9123.9 8638.3 8764.7 8991.2 10143.5 9578.5 9446 10150.4 9011 TRUE FALSE FALSE 9770.936944 9419.520346 9815.482538 8934.353442 8302.296198 9279.216734 8500.701971 9204.384998 10079.76254 9399.508309 1.039515752 1.002129052 1.044254892 0.950512851 0.883269202 0.987202355 0.904377303 0.979241115 1.072371257 1 13.19836958 -6.167684721 5.703432733 1.019301701 0.937202598 0.607415089 0.035826881 0.112724052 5.544992934 0.004552755 0.007607591 6.80E-07 6.167684721 -0.082099102 LTRTSGETT(ph)QTHTEPTGDSK ddPTM_HeLa_SAHA_4h_R1 1 LTRTSGETTQTHTEPTGDSK 20 1 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 LT(0.169)RT(0.152)S(0.152)GET(0.152)T(0.187)QT(0.187)HTEPTGDSK 64.028 0.012134 3770700 1160.7 794.99 516.42 860.07 679.07 673.78 743.35 1080 798.24 1004.7 TRUE FALSE FALSE 1282.787751 820.7481976 586.7950282 876.7178985 627.0398033 616.3701534 659.7063016 1052.375164 792.6849828 1048.017534 1.224013635 0.783143574 0.559909552 0.836548884 0.598310413 0.588129619 0.629480214 1.004157974 0.756366146 1 10.03344714 -7.135667279 5.03349842 1.105059149 0.694134437 0.297129894 0.175306347 0.105533986 3.925557713 0.024048818 0.029613666 7.32E-08 7.135667279 -0.410924712 LTS(ph)DEEGEPSGK ddPTM_HeLa_SAHA_4h_R1 1 LTSDEEGEPSGK 12 0 Q8WVC0-2;Q8WVC0 Q8WVC0-2 LEO1 RNA polymerase-associated protein LEO1 1 0 LT(0.125)S(0.875)DEEGEPSGK 229.56 1.36E-22 18332000 2630.8 3087.3 2597.6 2904.3 2767.8 3649.9 3302.8 3093.5 3602 2775.7 TRUE FALSE FALSE 2907.519615 3187.330546 2951.5874 2960.516926 2555.731762 3338.907986 2931.160252 3014.372749 3576.933389 2895.374011 1.004194831 1.100835517 1.019414897 1.022498964 0.882694862 1.153187109 1.012359799 1.041099609 1.235395971 1 11.49953401 -1.000000004 0.073232596 0.964609696 1.164097326 0 0.0998805 604.6273217 3.288245497 1.527616187 12.41262436 0.099999999 1.000000004 0.19948763 LTS(ph)DEEGEPSGKR ddPTM_HeLa_SAHA_4h_R1 3 LTSDEEGEPSGKR 13 1 Q8WVC0-2;Q8WVC0 Q8WVC0-2 LEO1 RNA polymerase-associated protein LEO1 1 0 LTS(1)DEEGEPSGKR;LT(0.05)S(0.95)DEEGEPSGKR;LT(0.002)S(0.996)DEEGEPS(0.002)GKR ;; 166.45 1.53E-07 15505300 3832.8 4593.3 3836.2 4482.7 4408.2 4612.3 4482.7 4755.1 4199.6 4107.8 TRUE FALSE FALSE 4235.95149 4742.125934 4358.977358 4569.469141 4070.444668 4219.306092 3978.294798 4633.471427 4170.374642 4284.907361 0.988574812 1.106704424 1.017286254 1.066410252 0.949949281 0.984690155 0.928443596 1.081346932 0.973270666 1 12.0650483 -4.1983014 21.08526768 1.001330657 1.081352151 0.187240601 0.049774379 15935.71454 5320310.186 0.006616708 16.88570163 6.33E-05 4.1983014 0.080021494 LTSPVTS(ph)ISPIQASEK ddPTM_HeLa_SAHA_4h_R1 1 LTSPVTSISPIQASEK 16 0 E9PMC9;Q7Z589-6;Q7Z589;Q7Z589-5;Q7Z589-4;Q7Z589-7 E9PMC9 C11orf30;EMSY Protein EMSY 1 0 LT(0.003)S(0.092)PVT(0.04)S(0.836)IS(0.029)PIQASEK 164.63 2.56E-06 3703200 1001.6 963.97 842.54 905.63 1240.4 1149 916.73 978.95 1323.8 1040.2 TRUE FALSE FALSE 1106.952884 995.2032605 957.3569634 923.1597782 1145.36082 1051.098736 813.5771277 953.9098765 1314.587568 1085.048113 1.020187834 0.917197356 0.882317523 0.850800778 1.055585284 0.968711639 0.749807422 0.879140626 1.211547721 1 10.0835433 -1 0.200354293 1.025241789 0.067299222 0.345556119 0.098350743 43.00846631 0.493784966 0.074887355 13.04192678 0.1 1 -0.957942568 LTSPVTSIS(ph)PIQASEK ddPTM_HeLa_SAHA_4h_R1 1 LTSPVTSISPIQASEK 16 0 E9PMC9;Q7Z589-6;Q7Z589;Q7Z589-5;Q7Z589-4;Q7Z589-7 E9PMC9 C11orf30;EMSY Protein EMSY 1 0 LT(0.002)S(0.001)PVT(0.006)S(0.087)IS(0.904)PIQASEK 135.57 0.00012163 2944900 440.35 297.61 343.37 485.25 321.26 591.49 419.76 647.35 623.77 423.6 TRUE FALSE FALSE 486.6680334 307.2527593 390.1626754 494.6427154 296.6451282 541.0917244 372.5275001 630.7917244 619.4291338 441.863469 1.101399114 0.695356781 0.882993736 1.119446956 0.6713502 1.224567683 0.843082821 1.427571566 1.401856404 1 8.787456851 -4.248239992 24.25184076 0.995488234 1.427571995 0.263078866 0.218000579 1206.754937 2217167.638 0.023088842 0.563441655 5.65E-05 4.248239992 0.43208376 LTSS(ph)LEAGLQR ddPTM_HeLa_SAHA_4h_R1 2 LTSSLEAGLQR 11 0 B7Z879;A0A087WXL6;Q9H270 B7Z879 VPS11 Vacuolar protein sorting-associated protein 11 homolog 1 0 LT(0.001)S(0.049)S(0.951)LEAGLQR;LTS(0.037)S(0.963)LEAGLQR ; 162.93 0.00017969 7517800 1714.08 2092.3 2000.55 1839.04 1662.76 2191.7 1614.1 1638.33 1947.65 1811.33 TRUE FALSE FALSE 1894.374799 2160.091893 2273.174536 1874.637278 1535.359688 2004.95483 1432.47722 1596.423891 1934.096145 1889.425301 1.002619579 1.143253397 1.203103682 0.99217327 0.812606716 1.061145328 0.75815499 0.844925645 1.023642556 1 10.88373177 -5.907101219 6.317875464 1.030795093 0.876037543 0.46266774 0.098696246 0.188775143 10.73389263 0.015224491 0.027801111 1.24E-06 5.907101219 -0.154757551 LTTFYGAFGPEK ddPTM_HeLa_SAHA_4h_R1 1 LTTFYGAFGPEK 12 0 E7ES84;P50748 E7ES84 KNTC1 Kinetochore-associated protein 1 0 0 108.43 0.020626 2957000 518.2 711.91 560.05 729.6 773.44 922.32 754 794.63 1109.2 613.84 FALSE FALSE TRUE 572.7066536 734.9763511 636.3706974 743.722463 714.1791943 843.7331472 669.1579356 774.3045152 1101.480987 640.3056465 0.894426992 1.147852366 0.993854577 1.161511642 1.11537232 1.317703743 1.045060182 1.209273289 1.720242501 1 9.322616922 -6.61341696 1.10458641 0.953449657 1.174018261 0 0.257538526 0.260888175 0.637068492 0.01593675 0.026488442 2.44E-07 6.61341696 0.220568604 LTTGTPAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 LTTGTPASPR 10 0 A0A5E8;Q99501 A0A5E8 GAS2L1 GAS2-like protein 1 1 0 LTT(0.001)GTPAS(0.998)PR 95.483 0.013938 9898500 1307.6 1128.7 1193.8 1343.3 1423.8 1427.9 1496.1 1331.6 1354.8 1391.3 TRUE FALSE FALSE 1445.139367 1165.270621 1356.484847 1369.301514 1314.708752 1306.234887 1327.75489 1297.5396 1345.371836 1451.285752 0.99576487 0.802922939 0.934677988 0.943509238 0.905892413 0.900053546 0.914881779 0.894062109 0.927020633 1 10.50311589 -7.459173553 24.99953217 0.998131664 0.903060743 0.356807961 0.042380838 96.5877913 37903.59727 0.005780556 0.006609813 3.47E-08 7.459173553 -0.09507092 LTTPTYGDLNHLVSATMS(ph)GVTTCLR ddPTM_HeLa_SAHA_4h_R1 1 LTTPTYGDLNHLVSATMSGVTTCLR 25 0 P68371;M0R2D3;P04350;P07437;Q5JP53;Q5ST81;Q9BVA1;Q13885 P68371;P04350;P07437;Q9BVA1 TUBB4B;TUBB4A;TUBB;TUBB2B;TUBB2A Tubulin beta-4B chain;Tubulin beta-4A chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain 1 0 LT(0.001)T(0.001)PTYGDLNHLVS(0.004)AT(0.061)MS(0.537)GVT(0.198)T(0.198)CLR 48.607 0.019016 7411100 485.46 539.51 494.77 648.06 591.59 396.56 532.24 471.39 570.2 419.87 TRUE FALSE FALSE 536.5229102 556.990478 562.1946789 660.6041384 546.262502 362.770857 472.3509544 459.3325264 566.2319318 437.9726505 1.225014643 1.271747168 1.283629647 1.508322809 1.247252543 0.828295686 1.07849418 1.048769885 1.292847695 1 8.774696972 -5.281503867 24.82584814 1.173977302 0.994517308 0.322786929 0.149454663 962.9391399 1191446.226 0.025773726 0.057698738 5.23E-06 5.281503867 -0.179459994 LTTTGQVT(ph)SPVK ddPTM_HeLa_SAHA_4h_R1 4 LTTTGQVTSPVK 12 0 K7ENR9;K7ERZ5;P49916-4;P49916-3;P49916-2;P49916 K7ENR9 LIG3 DNA ligase 3 1 0 LTTTGQVT(0.5)S(0.5)PVK;LTTTGQVT(0.5)S(0.5)PVK;LTTTGQVT(0.5)S(0.5)PVK;LTTTGQVT(0.846)S(0.154)PVK ;;; 197.38 6.35E-08 112364000 11835.5 14638.8 7949.6 10839.8 12051.1 14413.8 12327.1 10399.3 16806 12703.2 TRUE FALSE FALSE 13080.41219 15113.10672 9032.930088 11049.62 11127.74732 13185.66315 10940.02226 10133.30096 16689.04568 13250.89712 0.987134084 1.140534606 0.681684418 0.833877126 0.839773128 0.995077015 0.825606158 0.764725654 1.259465342 1 13.69380242 -6.764494649 24.99999858 1.004750425 0.832571094 0.513079289 0.117273226 49.97984621 408964.8831 0.013495887 0.018166342 1.72E-07 6.764494649 -0.172179331 LTTTGQVT(ph)SPVKGASFVTSTNPR ddPTM_HeLa_SAHA_4h_R1 1 LTTTGQVTSPVKGASFVTSTNPR 23 1 K7ENR9;K7ERZ5;P49916-4;P49916-3;P49916-2;P49916 K7ENR9 LIG3 DNA ligase 3 1 0 LTTT(0.001)GQVT(0.595)S(0.403)PVKGASFVTSTNPR 102.28 0.00010755 14374000 1670 1492 1246.2 1588.9 1317.2 1561.1 1576 1483.5 1480.7 1534.7 TRUE FALSE FALSE 1845.658262 1540.341779 1416.025646 1619.655457 1216.276421 1428.085497 1398.664332 1445.554218 1470.395688 1600.868428 1.152910652 0.962191366 0.884535932 1.011735524 0.75976039 0.89206925 0.873690997 0.902981278 0.918498774 1 10.64463903 -7.020745908 4.336397101 1.072159027 0.888279664 0.311219528 0.082361991 0.116712086 5.233240684 0.012898879 0.016414274 9.53E-08 7.020745908 -0.183879363 LTTTGQVTS(ph)PVKGASFVTSTNPR ddPTM_HeLa_SAHA_4h_R1 1 LTTTGQVTSPVKGASFVTSTNPR 23 1 K7ENR9;K7ERZ5;P49916-4;P49916-3;P49916-2;P49916 K7ENR9 LIG3 DNA ligase 3 1 0 LTTT(0.001)GQVT(0.226)S(0.772)PVKGASFVTSTNPR 91.655 0.00010874 21386000 1133.1 870.17 767.64 1075 1039.6 913.97 1300.3 941.97 695.58 1191.5 TRUE FALSE FALSE 1252.284657 898.3640789 872.2499815 1095.808179 959.9460726 836.0946141 1153.986822 917.8757714 690.7394021 1242.871396 1.007573801 0.722813383 0.701802282 0.881674631 0.772361546 0.67271209 0.928484496 0.738512266 0.555760962 1 10.27946131 -7.26946396 24.6199807 1.003576525 0.777389119 0 0.159830749 197.3259128 605408.9087 0.011958174 0.013806974 5.38E-08 7.26946396 -0.226187405 LTVAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 LTVASPK 7 0 O75179-4;O75179-6;O75179-2;O75179;H0YM23;O75179-7 O75179-4 ANKRD17 Ankyrin repeat domain-containing protein 17 1 0 LT(0.001)VAS(0.999)PK 120.31 0.0037593 188820000 10372 10359 9544.6 11015 10721 11106 10936 10421 10811 9434.8 TRUE FALSE FALSE 11462.97455 10694.6384 10845.28838 11228.21125 9899.559296 10159.70632 9705.452498 10154.44591 10735.76537 9841.580401 1.164749368 1.086678964 1.101986464 1.14089514 1.005891218 1.032324678 0.986168085 1.031790169 1.090857864 1 13.26467429 -5.734736702 24.98898148 1.086309083 1.013358188 0.465423906 0.042828627 258.489154 241898.8685 0.009339559 0.01867527 1.84E-06 5.734736702 -0.072950894 LTVDEAVR ddPTM_HeLa_SAHA_4h_R1 1 LTVDEAVR 8 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 131.03 0.011001 5581700 2309.5 2179.9 2093.6 2196.6 2280.4 2819.2 2337.3 2434.2 2349.9 1909.5 FALSE FALSE TRUE 2552.423806 2250.53019 2378.904905 2239.118369 2105.676245 2578.9883 2074.300853 2371.936689 2333.546855 1991.82789 1.28144797 1.129881855 1.194332561 1.124152534 1.057157727 1.294784711 1.041405667 1.190834158 1.171560488 1 10.95987728 -9.59330134 1.399909745 1.000422153 1.176253988 0 0.094605619 0.347724863 1.22716624 0.056816859 0.013315386 2.55E-10 9.59330134 0.175831835 LTVEDLEK(ac)ER ddPTM_HeLa_SAHA_4h_R1 1 LTVEDLEKER 10 1 Q15691 Q15691 MAPRE1 Microtubule-associated protein RP/EB family member 1 0 1 LTVEDLEK(1)ER 108.43 0.0071952 930090 0 194.52 145.43 235.7 215.33 204.51 241.07 254.56 130.6 0 FALSE TRUE FALSE 0 200.8225756 165.248443 240.2623143 198.8314619 187.0845975 213.9441691 248.0487238 129.691144 0 0 LTVENS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 LTVENSPK 8 0 F8VVL1;O43583 F8VVL1 DENR Density-regulated protein 1 0 LT(0.261)VENS(0.739)PK;LT(0.125)VENS(0.875)PK;LT(0.473)VENS(0.527)PK ;; 121.29 0.0033811 180430000 12229.1 13866.7 10511.3 13862.6 14157.2 16088 12679.4 11139.6 19461.3 14170.4 TRUE FALSE FALSE 13515.41285 14315.99018 11943.72522 14130.93067 13072.47839 14717.21189 11252.68054 10854.66516 19325.86723 14781.35529 0.914355455 0.968516749 0.808026395 0.955996956 0.884389701 0.99566052 0.76127529 0.734348437 1.307448935 1 13.85149093 -3.041877591 0.530240912 0.954232156 1.33E-53 0.301869691 0.128819443 6.968840526 0.503832128 0.012499644 5.537565433 0.000908076 3.041877591 -0.954232156 LTVENS(ph)PKQEAGISEGQGTAGEEEEK ddPTM_HeLa_SAHA_4h_R1 2 LTVENSPKQEAGISEGQGTAGEEEEK 26 1 F8VVL1;O43583 F8VVL1 DENR Density-regulated protein 1 0 LT(0.114)VENS(0.881)PKQEAGIS(0.005)EGQGTAGEEEEK;LT(0.034)VENS(0.961)PKQEAGIS(0.004)EGQGT(0.001)AGEEEEK ; 95.052 7.88E-06 109489000 1884.92 2202.37 1508.12 2272.81 2414.3 2446.3 2004.59 1821.14 2945.2 2027.15 TRUE FALSE FALSE 2083.184534 2273.728233 1713.63874 2316.803524 2229.316856 2237.861477 1779.028257 1774.557876 2924.704113 2114.550357 0.98516667 1.075277411 0.810403372 1.095648309 1.054274658 1.058315528 0.841326976 0.839212871 1.383132874 1 11.0461352 -4.748156397 24.94806833 1.000899313 0.840269788 0.196807958 0.142582183 152.8662339 287107.6354 0.009697109 0.035854855 1.79E-05 4.748156397 -0.160629525 LTVENS(ph)PKQEAGISEGQGTAGEEEEKKK ddPTM_HeLa_SAHA_4h_R1 1 LTVENSPKQEAGISEGQGTAGEEEEKKK 28 3 F8VVL1;O43583 F8VVL1 DENR Density-regulated protein 1 0 LT(0.011)VENS(0.983)PKQEAGIS(0.006)EGQGTAGEEEEKKK 85.097 4.86E-06 7060900 2038 1585.7 1740.1 1640 1623 1643.3 1865.9 2249.8 1399.6 1448.7 TRUE FALSE FALSE 2252.366191 1637.07772 1977.231766 1671.744571 1498.646091 1503.281595 1655.944021 2192.253374 1389.86007 1511.160547 1.490487689 1.083324815 1.308419393 1.106265363 0.991718646 0.994786158 1.095809459 1.450708449 0.919730251 1 10.56144123 -6.232942002 22.51770023 1.229257632 1.111120974 0 0.196860043 510.882582 403680.9199 0.032835661 0.054439434 5.85E-07 6.232942002 -0.118136658 LTVENSPKQEAGIS(ph)EGQGTAGEEEEK ddPTM_HeLa_SAHA_4h_R1 1 LTVENSPKQEAGISEGQGTAGEEEEK 26 1 F8VVL1;O43583 F8VVL1 DENR Density-regulated protein 1 0 LT(0.002)VENS(0.049)PKQEAGIS(0.548)EGQGT(0.4)AGEEEEK 49.851 0.010877 72612000 796.82 1028.8 710.52 1278.2 1199.1 1467.2 1203.8 784.2 1389.2 1238.8 TRUE FALSE FALSE 880.6331835 1062.133795 807.3459654 1302.941409 1107.225217 1342.186306 1068.345256 764.1412995 1379.532444 1292.210731 0.681493477 0.821950917 0.624778874 1.008304124 0.856845707 1.038674478 0.826757765 0.591344184 1.067575444 1 10.33562565 -9.585611868 1.393919766 0.999289938 0.799125882 0.282497248 0.14119718 0.537047302 1.882009763 0.099299636 0.023471621 2.60E-10 9.585611868 -0.200164055 LTVENSPKQEAGISEGQGT(ph)AGEEEEK ddPTM_HeLa_SAHA_4h_R1 1 LTVENSPKQEAGISEGQGTAGEEEEK 26 1 F8VVL1;O43583 F8VVL1 DENR Density-regulated protein 1 0 LTVENS(0.032)PKQEAGIS(0.358)EGQGT(0.609)AGEEEEK 62.781 0.0023967 22710000 1035.5 1420.2 977.49 936.61 1347.2 1534.4 1450.3 1398.4 1989.7 1245.6 TRUE FALSE FALSE 1144.418641 1466.215412 1110.697247 954.7394409 1243.977827 1403.660488 1287.108427 1362.630953 1975.853516 1299.303912 0.880793655 1.128462247 0.854840224 0.73480841 0.957418673 1.080317295 0.990613832 1.048739206 1.520701583 1 10.34352321 -5.426865368 6.986920924 0.933860376 1.033569759 0 0.209671042 0.368277974 23.19751401 0.014744418 0.033103536 3.74E-06 5.426865368 0.099709383 LTVVS(ph)PNR ddPTM_HeLa_SAHA_4h_R1 1 LTVVSPNR 8 0 A0A087X1J2;Q14CZ0 A0A087X1J2 C16orf72 UPF0472 protein C16orf72 1 0 LTVVS(1)PNR 92.239 0.016363 16368000 1273.9 1542.4 1141.9 1656.9 1429.3 1729.3 1424.9 1319.3 1985.6 1248.8 TRUE FALSE FALSE 1407.894647 1592.374772 1297.512185 1688.971695 1319.787343 1581.953911 1264.566502 1285.554216 1971.782048 1302.641879 1.080799465 1.222419452 0.996062084 1.296574079 1.01316207 1.214419662 0.970770648 0.986882302 1.5136793 1 10.3472248 -8.597502462 0.990028178 1.008857707 1.100163825 0 0.192097925 0.781793239 1.553517877 0.037916301 0.020239233 2.53E-09 8.597502462 0.091306118 LTVVS(ph)PNRATSTETSSSVETDLQPFR ddPTM_HeLa_SAHA_4h_R1 1 LTVVSPNRATSTETSSSVETDLQPFR 26 1 A0A087X1J2;Q14CZ0 A0A087X1J2 C16orf72 UPF0472 protein C16orf72 1 0 LT(0.11)VVS(0.75)PNRAT(0.11)S(0.015)T(0.015)ET(0.001)SSSVETDLQPFR 61.904 0.0019582 7652500 346.92 150.19 237.61 334.37 398.19 390.77 347.35 359.29 429.49 395 TRUE FALSE FALSE 383.4106373 155.0562545 269.9902534 340.8422149 367.6807682 357.4741976 308.2652638 350.099882 426.5011441 412.0303831 0.93053972 0.37632238 0.655267826 0.827225925 0.892363241 0.867591839 0.748161486 0.849694334 1.035120616 1 8.686606915 -7.495455035 24.50402884 0.969355961 0.748119773 0.379584447 0.142749347 210.4881699 188080.8401 0.025948545 0.028084266 3.20E-08 7.495455035 -0.221236189 LTVVSPNRAT(ph)STETSSSVETDLQPFR ddPTM_HeLa_SAHA_4h_R1 1 LTVVSPNRATSTETSSSVETDLQPFR 26 1 A0A087X1J2;Q14CZ0 A0A087X1J2 C16orf72 UPF0472 protein C16orf72 1 0 LT(0.009)VVS(0.312)PNRAT(0.571)S(0.103)T(0.004)ETSSSVETDLQPFR 81.65 8.95E-05 5206900 554.42 439.92 428.83 377.17 759.15 628.64 660.33 422.23 397.2 550.41 TRUE FALSE FALSE 612.7364394 454.1736966 487.2687191 384.4706707 700.984091 575.0763354 586.0279305 411.429968 394.4358529 574.1408687 1.067223172 0.791049238 0.848691925 0.669645189 1.220927004 1.001629333 1.020704086 0.716601082 0.687001874 1 9.165260944 -7.287877116 24.83596521 1.031744279 0.906513104 0 0.187324517 1067.492945 1002814.523 0.026051694 0.029795685 5.15E-08 7.287877116 -0.125231175 LTWHS(ph)CPEDEAQ ddPTM_HeLa_SAHA_4h_R1 6 LTWHSCPEDEAQ 12 0 Q13185 Q13185 CBX3 Chromobox protein homolog 3 1 0 LTWHS(1)CPEDEAQ;LTWHS(1)CPEDEAQ;LT(0.001)WHS(0.999)CPEDEAQ;LT(0.002)WHS(0.998)CPEDEAQ;LTWHS(1)CPEDEAQ;LTWHS(1)CPEDEAQ ;;;;; 101.56 0.0056311 233919000 17706.2 16828.8 17527 19902.9 17178 18701.7 19955.6 19015.5 19376.3 17556.1 TRUE FALSE FALSE 19568.61935 17374.06416 19915.48828 20288.14941 15861.82535 17108.20995 17710.14337 18529.11104 19241.45875 18313.02939 1.068562658 0.948726931 1.087503758 1.107853266 0.866149724 0.934209714 0.967078848 1.01179934 1.050697749 1 14.16058284 -5.764195472 24.99999982 1.035471046 0.945642966 0.440834782 0.054168552 58.91283828 534395.3219 0.008250408 0.015454706 1.72E-06 5.764195472 -0.08982808 LVAGEMGQNEPDQGGQR ddPTM_HeLa_SAHA_4h_R1 2 LVAGEMGQNEPDQGGQR 17 0 Q99714;Q99714-2;Q5H928 Q99714 HSD17B10 3-hydroxyacyl-CoA dehydrogenase type-2 0 0 ; ; 160.18 2.41E-05 21659000 1778.58 2487.7 1815.63 1450.77 2382.3 2267.6 2462.3 1956.24 2421.6 2122.7 FALSE FALSE TRUE 1965.659205 2568.303112 2063.054601 1478.851751 2199.768689 2074.387723 2185.235524 1906.202213 2404.747888 2214.219985 0.887743412 1.159913256 0.931729735 0.667888358 0.993473414 0.936848071 0.986909855 0.86089107 1.086047414 1 11.11258285 -6.520380866 24.9999502 0.965494379 0.892744087 0.175510822 0.11493522 201.1228475 2012937.907 0.017519308 0.025018625 3.02E-07 6.520380866 -0.072750292 LVAIVDVIDQNR ddPTM_HeLa_SAHA_4h_R1 1 LVAIVDVIDQNR 12 0 P50914;E7EPB3 P50914 RPL14 60S ribosomal protein L14 0 0 155.11 1.61E-06 1081600 380.01 573.95 484.42 469.58 669.95 572 719.6 452.39 423.12 476.04 FALSE FALSE TRUE 419.9811953 592.5463566 550.4342348 478.6693999 618.6185757 523.262382 638.6287141 440.8185189 420.1754735 496.5644141 0.845773848 1.193292028 1.108485061 0.963962351 1.245797238 1.053765367 1.286094404 0.88773683 0.846165093 1 8.955837065 -7.261685346 24.99991246 0.927170984 1.110596318 0.372259132 0.121988141 18.34233582 1864283.794 0.019536502 0.023092309 5.47E-08 7.261685346 0.183425334 LVARPEPATGYTLEFR ddPTM_HeLa_SAHA_4h_R1 2 LVARPEPATGYTLEFR 16 1 Q16658 Q16658 FSCN1 Fascin 0 0 ; ; 154.72 7.53E-08 8327400 1608.53 1642.9 1585.09 2302.67 2270.24 1979.52 2018.35 1185.75 1799.56 1872.75 FALSE FALSE TRUE 1777.722566 1696.131038 1801.09781 2347.241508 2096.294702 1810.85376 1791.239946 1155.420232 1787.036715 1953.493418 0.910022296 0.868255313 0.921988165 1.201561002 1.073100469 0.926982268 0.91694189 0.591463591 0.914790242 1 10.93184068 -4.188172733 2.294502174 0.971804668 0.44911844 0.605663632 0.092792666 0.447830227 2.308713404 0.013885069 0.502782334 6.48E-05 4.188172733 -0.522686228 LVDVS(ph)PDRGSPPSR ddPTM_HeLa_SAHA_4h_R1 1 LVDVSPDRGSPPSR 14 1 Q9NYZ3 Q9NYZ3 GTSE1 G2 and S phase-expressed protein 1 1 0 LVDVS(0.778)PDRGS(0.21)PPS(0.012)R 132.24 0.0018937 21635000 2619.5 2899 2421.5 3048.6 3352.7 3519.7 3576.4 3415.5 3571.4 3136.4 TRUE FALSE FALSE 2895.031029 2992.929502 2751.489409 3107.610061 3095.81685 3219.801759 3173.974059 3328.136456 3546.546337 3271.625553 0.884890701 0.914814197 0.841015992 0.949867279 0.946262584 0.984159619 0.970151996 1.017273035 1.084031861 1 11.67579192 -5.198536311 1.660971514 0.933542874 0.996154423 0.080550495 0.062934138 0.552648504 2.850480548 0.008229418 0.030725746 6.33E-06 5.198536311 0.062611549 LVEALCAEHQINLIK ddPTM_HeLa_SAHA_4h_R1 2 LVEALCAEHQINLIK 15 0 P25398 P25398 RPS12 40S ribosomal protein S12 0 0 ; ; 141.37 6.87E-05 3720200 1492.4 2018.87 1794.63 2379.63 2388.58 2448.99 2436.11 1973.39 2488.62 2297.6 FALSE FALSE TRUE 1649.377479 2084.282713 2039.19283 2425.69118 2205.567516 2240.322274 2161.992491 1922.913541 2471.301491 2396.66078 0.688198135 0.869661126 0.850847499 1.012112853 0.920266871 0.934768196 0.902085314 0.802330291 1.031143628 1 11.22681001 -6.438723853 25 0.85040272 0.916738698 0 0.102208408 209.7707515 62314.0204 0.019044349 0.02909072 3.64E-07 6.438723853 0.066335978 LVEDEERR ddPTM_HeLa_SAHA_4h_R1 2 LVEDEERR 8 1 Q14204;A0A2R8Y706;A0A2R8YFZ7;A0A2R8Y6H2 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 ; ; 116.25 0.0088725 12102900 3813.3 4118.6 3848 3937.8 4733.5 4750.7 4284.2 4259.4 3388.6 4303 FALSE FALSE TRUE 4214.40039 4252.045342 4372.3854 4014.021813 4370.820253 4345.913633 3802.130541 4150.450716 3365.018457 4488.523388 0.938928023 0.947314957 0.974125569 0.894285596 0.973776869 0.968227913 0.847078251 0.924680648 0.749693867 1 12.1320252 LVEDMENK ddPTM_HeLa_SAHA_4h_R1 2 LVEDMENK 8 0 B1AK87;P47756-2;P47756;B1AK88 B1AK87 CAPZB F-actin-capping protein subunit beta 0 0 ; ; 124.83 0.012316 13167200 1510.81 1459.73 1456.03 1660.49 1668.65 1907.03 1723.72 1488.33 1630.05 1234.02 FALSE FALSE TRUE 1669.723928 1507.02621 1654.450186 1692.631185 1540.798397 1744.540315 1529.762489 1450.260674 1618.706349 1287.224641 1.297150376 1.170756185 1.285284738 1.314946227 1.196992621 1.355272622 1.188419208 1.126657016 1.257516596 1 10.33004813 -9.340783902 0.897219055 0.988804515 1.247827188 0 0.104213727 0.317810946 0.425753335 0.057297895 0.012688124 4.56E-10 9.340783902 0.259022674 LVEIDNGK ddPTM_HeLa_SAHA_4h_R1 2 LVEIDNGK 8 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 137.9 0.0066907 9893000 5091.9 4986 4948.7 4785.1 4717.5 5443.7 5341.9 5281.8 5551 4773.6 FALSE FALSE TRUE 5627.489404 5147.549671 5623.083064 4877.72253 4356.046169 4979.866135 4740.815353 5146.699204 5512.370139 4979.413257 1.130151107 1.03376631 1.129266195 0.979577769 0.874811136 1.00009095 0.952083129 1.033595514 1.107032065 1 12.28176004 -6.104127617 7.265707712 1.06498386 0.961958952 0.505831259 0.054443362 0.209633306 12.89827636 0.009390209 0.015638776 7.87E-07 6.104127617 -0.103024908 LVEPHS(ph)PSPSSK ddPTM_HeLa_SAHA_4h_R1 3 LVEPHSPSPSSK 12 0 O15014 O15014 ZNF609 Zinc finger protein 609 1 0 LVEPHS(0.966)PS(0.02)PS(0.01)S(0.003)K;LVEPHS(0.956)PS(0.039)PS(0.004)S(0.001)K;LVEPHS(0.987)PS(0.013)PSSK ;; 164.68 0.00012343 46694500 9323.3 9046.9 6323.9 8949.2 11362.4 12408 10907.7 10546.1 9149.8 8863.3 TRUE FALSE FALSE 10303.96747 9340.025496 7185.688159 9122.424707 10491.81537 11350.76859 9680.336889 10276.34603 9086.125797 9245.440239 1.114491815 1.010230476 0.777214278 0.986694465 1.134809711 1.227715317 1.047039042 1.111504241 0.982768323 1 13.1745263 -5.749834696 24.79263708 1.024389898 1.131282841 0.321503334 0.094848658 268.7646067 574193.423 0.01561805 0.031024132 1.78E-06 5.749834696 0.106892943 LVEQANS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 LVEQANSPK 9 0 O95391 O95391 SLU7 Pre-mRNA-splicing factor SLU7 1 0 LVEQANS(1)PK;LVEQANS(1)PK;LVEQANS(1)PK;LVEQANS(1)PK ;;; 127.83 0.0023959 210760000 14490.6 16656.1 14215.9 16921 17627.6 20075.7 18558.9 17254.9 19045.3 15760.7 TRUE FALSE FALSE 16014.78779 17195.76857 16153.16882 17248.53042 16276.9771 18365.13742 16470.60373 16813.54464 18912.76221 16440.22091 0.974122421 1.045957269 0.982539645 1.049166585 0.990070461 1.117085806 1.001848079 1.022707951 1.150395868 1 14.00494206 -6.583572647 1.007660066 0.988918729 1.037693662 0 0.063161283 0.520976214 1.057238684 0.006655577 0.011506744 2.61E-07 6.583572647 0.048774933 LVEVDSGR ddPTM_HeLa_SAHA_4h_R1 2 LVEVDSGR 8 0 P20700;E9PBF6;A0A0D9SFE5 P20700 LMNB1 Lamin-B1 0 0 ; ; 143.89 0.0029389 12297000 4371.9 3883.7 3766.7 4466.8 3909.1 5386.6 4466.2 4677.2 4527.5 4141.4 FALSE FALSE TRUE 4831.756501 4009.534428 4280.00626 4553.261373 3609.585603 4927.631376 3963.651422 4557.563997 4495.992759 4319.956022 1.118473539 0.928142418 0.990752276 1.054006418 0.835560729 1.140667023 0.917521244 1.055002406 1.04074966 1 12.07680091 -7.260368464 24.99965568 1.055945837 0.988594818 0.108290005 0.084389106 153.1442972 3575044.994 0.013923993 0.016536125 5.49E-08 7.260368464 -0.067351019 LVFGFLNGR ddPTM_HeLa_SAHA_4h_R1 1 LVFGFLNGR 9 0 P00491;G3V2H3;G3V5M2 P00491 PNP Purine nucleoside phosphorylase 0 0 138.37 0.00067656 4077100 732.49 809.03 1263.9 1200.9 1198.8 733.53 1132.1 182.78 665.51 768.17 FALSE FALSE TRUE 809.536659 835.2431028 1436.13771 1224.145156 1106.948203 671.0291173 1004.713128 178.1047523 660.8786617 801.289568 1.010292273 1.042373614 1.792283049 1.527718823 1.381458398 0.837436482 1.253870222 0.222272646 0.824768833 1 9.646179884 -4.256139649 24.36401805 1.121199221 0.2222721 0.469217949 0.300423625 301.1429961 1384355.674 0.04348568 0.490052934 5.54E-05 4.256139649 -0.898927122 LVFLACCVAPTNPR ddPTM_HeLa_SAHA_4h_R1 2 LVFLACCVAPTNPR 14 0 Q14566 Q14566 MCM6 DNA replication licensing factor MCM6 0 0 ; ; 196.48 3.73E-23 2021100 328.76 406.44 404.18 458.11 436.723 283.75 536.59 143.82 312.344 342.23 FALSE FALSE TRUE 363.3404852 419.6089227 459.2595455 466.9773815 403.2613781 259.5729037 476.211481 140.1412926 310.1703727 356.9852101 1.017802628 1.175423829 1.286494601 1.308114085 1.129630491 0.727125092 1.333980981 0.392568904 0.868860569 1 8.479720495 -4.246488348 24.78266442 1.063825708 0.392568366 0.549365324 0.188837797 1420.210623 2354083.25 0.024696931 0.752379107 5.67E-05 4.246488348 -0.671257342 LVFLGLDNAGK ddPTM_HeLa_SAHA_4h_R1 2 LVFLGLDNAGK 11 0 D6RD69;Q9Y6B6;X1WI22;D6RAA2;Q5SQT8;D6RDB2;Q9NR31 D6RD69 SAR1B;SAR1A GTP-binding protein SAR1b;GTP-binding protein SAR1a 0 0 ; ; 170.47 9.08E-11 2434300 1274.62 1197.62 1347.77 1689.64 1381.16 1404.45 1637.45 1243.09 1271.7 1138.48 FALSE FALSE TRUE 1408.69038 1236.423674 1531.437077 1722.345425 1275.335819 1284.782959 1453.199816 1211.293558 1262.850136 1187.565444 1.18620021 1.041141505 1.289560153 1.450316219 1.073907821 1.081862869 1.223679776 1.019980468 1.063394141 1 10.2137913 -9.190621995 0.712495647 0.987043995 1.178058341 0.158667742 0.124793804 1.055289138 0.864969273 0.12026997 0.026289151 6.45E-10 9.190621995 0.191014346 LVGDVDFEGVR ddPTM_HeLa_SAHA_4h_R1 1 LVGDVDFEGVR 11 0 B9A062;P13995-2;P13995 B9A062 MTHFD2 "Bifunctional methylenetetrahydrofolate dehydrogenase/cyclohydrolase, mitochondrial;NAD-dependent methylenetetrahydrofolate dehydrogenase;Methenyltetrahydrofolate cyclohydrolase" 0 0 128.86 0.0086633 1880400 872.81 927.19 562.19 693.57 865.21 852.14 808.74 761.69 661.11 617.82 FALSE FALSE TRUE 964.6161604 957.2315644 638.8023254 706.9950503 798.9177967 779.532878 717.7384467 742.2070727 656.5092817 644.4572437 1.496788452 1.485329824 0.991225301 1.097039497 1.239675408 1.209595959 1.113709953 1.151677757 1.018701067 1 9.331940837 -6.735095913 24.99992665 1.259954692 1.139490659 0.104998991 0.164989014 503.2320977 477565.8964 0.03340038 0.047227309 1.84E-07 6.735095913 -0.120464033 LVGIISSR ddPTM_HeLa_SAHA_4h_R1 2 LVGIISSR 8 0 P12268;H0Y4R1;E7ETK5 P12268 IMPDH2 Inosine-5-monophosphate dehydrogenase 2 0 0 ; ; 115.46 0.0051292 3960200 1706.01 1888.59 2798.8 2496.1 2144.83 1996.73 2622.4 1940.8 1840.1 1729.92 FALSE FALSE TRUE 1885.455959 1949.781555 3180.205888 2544.415625 1980.493589 1826.597371 2327.32065 1891.157146 1827.294594 1804.505317 1.044860296 1.080507514 1.762369918 1.410034983 1.097527156 1.01224272 1.289727787 1.048019714 1.012629099 1 10.81738768 -6.979052446 24.99994412 1.023368134 1.271340675 0.249323261 0.202243014 260.7558572 311199.2962 0.03377975 0.044393194 1.05E-07 6.979052446 0.247972541 LVHDS(ph)LEDLQMTR ddPTM_HeLa_SAHA_4h_R1 1 LVHDSLEDLQMTR 13 0 A0A087WYY3;A0A2R8Y635;A0A2R8YDN7;Q9H7F0-2;Q9H7F0 A0A087WYY3 ATP13A3 Probable cation-transporting ATPase 13A3 1 0 LVHDS(1)LEDLQMTR 130.01 0.00058075 2284100 1098.5 1952.4 1660.9 1492.9 1735.2 1648.5 1981.5 1623.5 1928.8 1726.4 TRUE FALSE FALSE 1214.04527 2015.659041 1887.238802 1521.797238 1602.249351 1508.038526 1758.536405 1581.973221 1915.377324 1800.833553 0.674157402 1.119292251 1.047980697 0.84505158 0.889726509 0.837411388 0.976512461 0.878467207 1.063605973 1 10.81444913 -7.265106042 24.99881014 0.846129891 0.937692647 0 0.131012352 657.4147912 4482158.855 0.02482788 0.02896934 5.43E-08 7.265106042 0.091562757 LVHLQTLVLNGNPLLHAQLR ddPTM_HeLa_SAHA_4h_R1 1 LVHLQTLVLNGNPLLHAQLR 20 0 Q13045-3;Q13045;J3KT47;J3QQU5;J3QLR6;J3QQQ2;J3KS54 Q13045-3 FLII Protein flightless-1 homolog 0 0 97.214 0.00090982 1146400 156.78 160.38 153.74 128.57 222.39 69.547 200.26 127.36 70.763 164.23 FALSE FALSE TRUE 173.2708397 165.5764172 174.6908866 131.0586583 205.3505262 63.62120434 177.7262177 124.1023156 70.27055452 171.310759 1.011441667 0.966526669 1.019730971 0.765034602 1.198701864 0.371378918 1.037449246 0.72442803 0.410193469 1 7.420471951 -5.289784516 24.99994903 0.996292769 0.743721501 0.04074809 0.25786201 574.4581031 506661.8051 0.022498637 0.050317193 5.13E-06 5.289784516 -0.252571268 LVIIEGDLER ddPTM_HeLa_SAHA_4h_R1 3 LVIIEGDLER 10 0 J3KN67;A0A2R2Y2Q3;P06753;A0A494C0P6;P06753-7;P06753-2;A0A087WWU8;P06753-5;P06753-3;P06753-6;P06753-4 J3KN67;P06753-2 TPM3 Tropomyosin alpha-3 chain 0 0 ;; ;; 181.41 0.00011925 15894900 4649.3 3140.15 3334.33 3785.34 3504.09 4344.9 4023.27 4111.4 4603.8 3608.7 FALSE FALSE TRUE 5138.334706 3241.89292 3788.715128 3858.610729 3235.607381 3974.690076 3570.561071 4006.236341 4571.761781 3764.288718 1.365021413 0.861223239 1.006488984 1.025057061 0.859553457 1.055894054 0.948535391 1.06427446 1.214508802 1 11.87816157 -7.246766014 24.9797247 1.172371229 0.975331115 0.466135392 0.106578338 759.422334 1292830.565 0.024228175 0.029603152 5.67E-08 7.246766014 -0.197040114 LVIIEGDLERTEER ddPTM_HeLa_SAHA_4h_R1 2 LVIIEGDLERTEER 14 1 J3KN67;A0A2R2Y2Q3;P06753;A0A494C0P6;P06753-7;P06753-2;A0A087WWU8;P06753-5;P06753-3;P06753-6;P06753-4 J3KN67;P06753-2 TPM3 Tropomyosin alpha-3 chain 0 0 ; ; 132.86 0.00062163 5122200 1065.25 1632.81 1759.47 2079.9 2183.07 1662.75 2015.73 1741.36 1135.06 1728.03 FALSE FALSE TRUE 1177.297883 1685.714115 1999.241409 2120.159472 2015.803648 1521.074346 1788.914755 1696.818533 1127.161025 1802.53383 0.653134972 0.935191388 1.10912837 1.176210641 1.11831668 0.843853425 0.992444483 0.941351837 0.625320316 1 10.81581062 -7.001164122 24.49523133 0.833990023 1.029960914 0.415035237 0.135340004 36.02578793 758077.2212 0.02560123 0.033392303 9.97E-08 7.001164122 0.195970891 LVIIESDLER ddPTM_HeLa_SAHA_4h_R1 2 LVIIESDLER 10 0 P09493-3;P09493-9;Q6ZN40;P09493-10;P09493-4;P09493;A0A0S2Z4G6;P09493-2;H7BYY1;H0YKX5;P09493-8;P09493-7;P09493-5;P09493-6;F5H7S3;B7Z596;H0YK48;A0A494BZZ2;H0YKJ4;A0A494C0V8;H0YL42 P09493-3 TPM1 Tropomyosin alpha-1 chain 0 0 ; ; 168.25 0.00071181 5618900 2221.6 1628.35 1362.91 1782.66 1609.97 2081.89 2299.7 1700.54 2213.73 1666.54 FALSE FALSE TRUE 2455.278081 1681.109608 1548.640277 1817.165962 1486.614446 1904.50126 2040.931704 1657.042649 2198.324473 1738.392695 1.41238403 0.967048247 0.890846056 1.045313851 0.855166068 1.095552958 1.174033755 0.953203873 1.264573004 1 10.7635383 -7.198410159 24.99744673 1.194737679 1.000169398 0.388397273 0.12954343 250.1847656 99223.4386 0.028874142 0.035363454 6.33E-08 7.198410159 -0.194568281 LVIITAGAR ddPTM_HeLa_SAHA_4h_R1 2 LVIITAGAR 9 0 P00338-3;P00338;P00338-2;P00338-5;F5GXY2;F5GYU2;F5GXH2 P00338-3 LDHA L-lactate dehydrogenase A chain 0 0 ; ; 164.72 2.48E-07 17415100 1392.39 1913.95 5989 3229.2 2431.9 616.5 3111.5 572.2 398.63 822.32 FALSE FALSE TRUE 1538.847969 1975.963236 6805.149731 3291.705836 2245.568347 563.9707317 2761.385831 557.5639525 395.8559014 857.7742395 1.794001146 2.303593585 7.933497437 3.837496726 2.617901359 0.657481544 3.219245465 0.65001247 0.461491944 1 9.74445418 -4.227554259 21.59300695 2.172493848 0.649995842 0.034268969 2.097938287 6837.590408 4356718.977 0.306148521 48.7495205 5.92E-05 4.227554259 -1.522498006 LVILANNCPALR ddPTM_HeLa_SAHA_4h_R1 2 LVILANNCPALR 12 0 E5RI99;P62888;E5RJH3 E5RI99 RPL30 60S ribosomal protein L30 0 0 ; ; 325.67 1.11E-157 12505000 2417.93 2879.4 2514.69 2392.24 3235 2463.3 2973.98 1640.63 2121.2 2698.85 FALSE FALSE TRUE 2672.258971 2972.694449 2857.378857 2438.545264 2987.134999 2253.412982 2639.339943 1598.66506 2106.438396 2815.210631 0.949221682 1.055940332 1.014978711 0.866203487 1.061069806 0.800442055 0.937528409 0.567866945 0.748234741 1 11.45902715 -3.818460037 1.0946938 0.97862985 7.34E-23 0.499556726 0.105334589 1.485892238 0.735410576 0.01021185 2.122792049 0.000151894 3.818460037 -0.97862985 LVILEGELERAEER ddPTM_HeLa_SAHA_4h_R1 4 LVILEGELERAEER 14 1 P67936;A0A2R8Y5V9;A0A2R8YH90;P67936-2;K7ENT6;A0A2R8YE05;A0A2R8YGX3;A0A2R8YHD2;A0A2R8YEU4;A0A5F9UN72 P67936 TPM4 Tropomyosin alpha-4 chain 0 0 ;;; ;;; 177.1 1.59E-06 13912200 2880.98 3485.73 5000.06 5057.9 4775.64 4555.6 4690 4363.16 3430.49 3872.79 FALSE FALSE TRUE 3184.014695 3598.669939 5681.442138 5155.802968 4409.731495 4167.437251 4162.268857 4251.556685 3406.616941 4039.76493 0.788168309 0.890811718 1.40637939 1.276263114 1.091581211 1.031603899 1.030324519 1.052426752 0.843271081 1 11.98005563 -6.882758511 21.6432494 0.896453031 1.14140767 0.534455349 0.121864193 2.316510575 421.6812782 0.022909552 0.030109081 1.31E-07 6.882758511 0.24495464 LVINGNPITIFQER ddPTM_HeLa_SAHA_4h_R1 2 LVINGNPITIFQER 14 0 P04406;P04406-2 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ; ; 253.79 3.76E-69 30300900 306.69 323.25 115.69 381.16 349.13 211.044 234.66 153.21 482.4 302.64 FALSE FALSE TRUE 338.9490613 333.7235121 131.4556307 388.537903 322.3797348 193.0618639 208.2554392 149.29111 479.0429391 315.6882915 1.073682713 1.057129837 0.416409586 1.230764376 1.021196362 0.611558519 0.659686928 0.472906706 1.517455516 1 8.302356944 -4.128601776 0.526843176 1.023552831 2.34E-12 0.379365146 0.26447785 3.165976296 0.535278617 0.041529449 2.04999389 7.44E-05 4.128601776 -1.023552831 LVINGNPITIFQERDPSK ddPTM_HeLa_SAHA_4h_R1 4 LVINGNPITIFQERDPSK 18 1 P04406;P04406-2 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ;;; ;;; 220.34 5.66E-36 212825070 8766.84 7935.45 9457.95 10137.72 10256.1 10326.41 11078.33 7718.03 8979.16 9935.78 FALSE FALSE TRUE 9688.976455 8192.563787 10746.83017 10333.95023 9470.279834 9446.541773 9831.767152 7520.613968 8916.673294 10364.1601 0.934853993 0.790470594 1.036922439 0.99708516 0.913752754 0.911462355 0.948631347 0.725636607 0.860337278 1 13.33931559 -3.664044091 1.484775445 0.95706923 1.12E-11 0.384861752 0.072150449 3.797055666 2.145045271 0.009679131 8.324094571 0.000216748 3.664044091 -0.95706923 LVINGNPITIFQERDPSK(ac)IK ddPTM_HeLa_SAHA_4h_R1 1 LVINGNPITIFQERDPSKIK 20 2 P04406;P04406-2 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 1 LVINGNPITIFQERDPSK(1)IK 122.29 2.10E-05 772890 187.46 0 0 65.723 161.32 225.3 0 0 0 135.83 FALSE TRUE FALSE 207.1779029 0 0 66.9951637 148.9596965 206.1031725 0 0 0 141.686296 1.462229649 0 0 0.472841521 1.051334537 1.454644368 0 0 0 1 7.146556417 -7.271523158 24.96796709 1.218275118 0.45828006 0 0.614499988 607.1019271 1503213.689 0.089611783 0.103103482 5.35E-08 7.271523158 -0.759995058 LVLAES(ph)PQPK ddPTM_HeLa_SAHA_4h_R1 4 LVLAESPQPK 10 0 E7EUR8;A0A1B0GVL4;P78312-4;P78312-6;P78312-2;P78312-5;P78312 E7EUR8 FAM193A Protein FAM193A 1 0 LVLAES(1)PQPK;LVLAES(1)PQPK;LVLAES(1)PQPK;LVLAES(1)PQPK ;;; 144.1 0.00094616 53403000 16307.1 15895.7 14389.8 15547.4 16994.7 17354.9 16867.9 16121.6 16853.1 15839.9 TRUE FALSE FALSE 18022.3556 16410.73111 16350.76701 15848.34241 15692.56976 15876.16488 14969.8795 15709.23282 16735.8179 16522.83561 1.090754397 0.993215178 0.989586013 0.959178121 0.949750402 0.960862001 0.906011526 0.950758888 1.012890178 1 14.01217368 -6.60692696 1.560159952 1.042006004 0.942477793 0.635637389 0.028339581 0.195534476 0.960834536 0.006428683 0.01008805 2.47E-07 6.60692696 -0.099528211 LVLEVAQHLGESTVR ddPTM_HeLa_SAHA_4h_R1 2 LVLEVAQHLGESTVR 15 0 P06576 P06576 ATP5B "ATP synthase subunit beta, mitochondrial" 0 0 ; ; 91.076 0.0076023 2081180 590.16 1075.03 547.91 768.44 1363.11 1142.67 1246.29 866.3 1284.81 1154.15 FALSE FALSE TRUE 652.2357366 1109.861677 622.5763214 783.3142674 1258.668806 1045.308088 1106.054169 844.1413004 1275.868903 1203.911055 0.541764056 0.921880128 0.517128171 0.650641311 1.04548322 0.868260229 0.918717512 0.701165835 1.05977007 1 10.23351309 -3.959658611 13.43009712 0.792603496 0.382849224 0 0.193814582 6028236.526 66764169.06 0.028878041 57367112.89 0.000109734 3.959658611 -0.409754271 LVLILNK ddPTM_HeLa_SAHA_4h_R1 2 LVLILNK 7 0 Q9BVP2-2;Q9BVP2 Q9BVP2-2 GNL3 Guanine nucleotide-binding protein-like 3 0 0 ; ; 126.04 4.01E-05 0 930.37 1052.76 2175.22 1580.27 1742.17 608.9 2092.85 271.02 198.55 602.47 FALSE FALSE TRUE 1028.230585 1086.870115 2471.647654 1610.858411 1608.685311 557.0182944 1857.35701 264.0877008 197.1682744 628.4454301 1.636149355 1.72945822 3.932955091 2.563243098 2.5597852 0.886343138 2.955478584 0.420223759 0.31373969 1 9.295643666 -7.636668172 1.47178071 1.20374124 2.221169393 0.224497918 0.990999084 0.448053992 1.990576735 0.194475961 0.197145594 2.31E-08 7.636668172 1.017428153 LVLPSNT(ph)PNVR ddPTM_HeLa_SAHA_4h_R1 1 LVLPSNTPNVR 11 0 H0Y8J2;Q03188;H0Y9W1 H0Y8J2 CENPC Centromere protein C 1 0 LVLPS(0.008)NT(0.992)PNVR 145.14 0.0012394 2879100 1645 1531 1190.9 1627.5 1840.6 1709 1751.7 1502.3 2063.2 1885.9 TRUE FALSE FALSE 1818.028648 1580.605405 1353.18965 1659.002616 1699.573626 1563.383585 1554.594106 1463.873341 2048.842023 1967.210378 0.924165848 0.803475532 0.687872362 0.843327503 0.863951128 0.794721095 0.790253103 0.74413665 1.041496144 1 10.94193554 -7.408075135 2.250365582 0.970716368 0.789969769 0.75316911 0.052387753 0.116387996 1.124820642 0.009676547 0.010879427 3.91E-08 7.408075135 -0.1807466 LVLSK(ac)LYEEGSNKR ddPTM_HeLa_SAHA_4h_R1 1 LVLSKLYEEGSNKR 14 2 P25788-2;P25788 P25788-2 PSMA3 Proteasome subunit alpha type-3 0 1 LVLSK(1)LYEEGSNKR 86.498 0.019068 0 63.841 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 70.55608929 0 0 0 0 0 0 0 0 0 0 LVLVLGDLHIPHR ddPTM_HeLa_SAHA_4h_R1 2 LVLVLGDLHIPHR 13 0 F8VXU5;Q9UBQ0;Q9UBQ0-2 F8VXU5 VPS29 Vacuolar protein sorting-associated protein 29 0 0 ; ; 132.32 0.00019879 1566430 564.95 566.53 646.37 902.39 777.93 553.73 894.74 342.99 624.48 638.54 FALSE FALSE TRUE 624.3740331 584.8859437 734.4539374 919.8570633 718.3251715 506.5490888 794.0615004 334.2168124 620.1341928 666.0705843 0.9373992 0.878114058 1.102666826 1.381020398 1.078452026 0.760503617 1.192158187 0.501773866 0.931033748 1 9.379531259 -4.247550976 24.58768122 1.004211463 0.501773441 0.468423649 0.166626756 1374.587362 2433484.086 0.022750853 0.615095487 5.66E-05 4.247550976 -0.502438022 LVNHFVEEFKR ddPTM_HeLa_SAHA_4h_R1 1 LVNHFVEEFKR 11 1 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 0 0 52.79 0.022642 998920 1310.1 977.9 1239.5 1324.9 1477.5 1094.2 1456.9 704.55 1108.8 1069.1 FALSE FALSE TRUE 1447.902329 1009.584602 1408.412605 1350.545355 1364.294269 1000.968004 1292.965778 686.5286312 1101.083771 1115.194133 1.298341057 0.90529942 1.262930429 1.211040585 1.223369303 0.897572875 1.159408698 0.615613561 0.987347169 1 10.12307916 -3.950059211 1.828651161 1.135271765 2.15E-24 0.483010971 0.146279736 1.615126963 2.614498528 0.021478529 4.147830568 0.000112187 3.950059211 -1.135271765 LVNTTIT(ph)PEPEPKPQPNSR ddPTM_HeLa_SAHA_4h_R1 1 LVNTTITPEPEPKPQPNSR 19 1 Q86V48-2;Q86V48-3;Q86V48 Q86V48-2 LUZP1 Leucine zipper protein 1 1 0 LVNT(0.08)T(0.232)IT(0.688)PEPEPKPQPNSR 92.136 0.0021086 31270000 879.46 842.36 553.65 854.63 960.29 946.08 865.58 853.64 723.98 841.24 TRUE FALSE FALSE 971.9656379 869.6530167 629.0985387 871.1725995 886.7127877 865.4686615 768.1826603 831.8051249 718.9417642 877.5099733 1.10764056 0.991046305 0.716913263 0.992778004 1.010487419 0.986277863 0.875411886 0.947915295 0.819297542 1 9.777271712 -6.997838189 24.99997678 1.050752017 0.923427755 0 0.110125212 62.52391581 723036.7456 0.014038314 0.018385362 1.00E-07 6.997838189 -0.127324262 LVPFLK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 LVPFLKK 7 1 H3BR35;P15170;P15170-2;P15170-3;Q8IYD1 H3BR35 GSPT1;GSPT2 Eukaryotic peptide chain release factor GTP-binding subunit ERF3A;Eukaryotic peptide chain release factor GTP-binding subunit ERF3B 0 1 LVPFLK(1)K 83.801 0.01624 818230 1612.3 2197.7 2274.3 2248.5 2290.1 1574.4 2576.3 923.23 517.84 992.52 FALSE TRUE FALSE 1781.889111 2268.906922 2584.22976 2292.022969 2114.633033 1440.252263 2286.407944 899.6151134 514.2363093 1035.312394 1.721112508 2.191519134 2.496086953 2.21384674 2.042507212 1.391128195 2.208423231 0.868931076 0.496696757 1 10.01585044 -8.528599079 0.889589037 1.072519768 1.928653049 0.436356879 0.488051679 0.40948441 0.664697192 0.178536082 0.094052259 2.96E-09 8.528599079 0.856133281 LVPGGGATEIELAK ddPTM_HeLa_SAHA_4h_R1 2 LVPGGGATEIELAK 14 0 P50990-2;P50990;P50990-3 P50990-2 CCT8 T-complex protein 1 subunit theta 0 0 ; ; 183.99 6.54E-16 3864900 854.65 875.7 769.64 881.14 764.87 905.55 894.83 984.85 726.07 843.25 FALSE FALSE TRUE 944.5460083 904.0732546 874.5225311 898.1957388 706.2658258 828.3920455 794.1413733 959.658963 721.0172198 879.6066343 1.073827745 1.027815411 0.994220026 1.021133429 0.802933719 0.941775577 0.902836953 1.091009237 0.819704163 1 9.780714675 -5.961892979 24.99854917 1.031264735 0.930271558 0 0.095847642 144.1163 94541.01832 0.00997429 0.018079911 1.09E-06 5.961892979 -0.100993178 LVPS(ph)QEETK ddPTM_HeLa_SAHA_4h_R1 2 LVPSQEETK 9 0 P49321-4;P49321;P49321-3 P49321-4 NASP Nuclear autoantigenic sperm protein 1 0 LVPS(1)QEETK;LVPS(1)QEETK ; 124.6 0.0029123 56358000 6057.5 8224 5496.2 6574.4 6975.7 9059.3 6049.7 6132.7 11652.5 6565.4 TRUE FALSE FALSE 6694.655643 8490.462996 6245.193513 6701.657019 6441.223373 8287.396674 5368.971834 5975.834414 11571.4093 6848.466524 0.977540829 1.239761188 0.911911227 0.978563156 0.940535133 1.210109832 0.783967011 0.872579926 1.689635083 1 12.74156527 -4.715609331 24.99999576 1.009092243 0.828273018 0.063334367 0.240174015 107.3361864 58549.65103 0.013637594 0.05102681 1.92E-05 4.715609331 -0.180819226 LVPS(ph)QEETKLSVEESEAAGDGVDTK ddPTM_HeLa_SAHA_4h_R1 2 LVPSQEETKLSVEESEAAGDGVDTK 25 1 P49321-4;P49321;P49321-3 P49321-4 NASP Nuclear autoantigenic sperm protein 1 0 LVPS(0.86)QEET(0.139)KLS(0.001)VEESEAAGDGVDTK;LVPS(0.62)QEET(0.339)KLS(0.041)VEESEAAGDGVDTK ; 103.84 1.67E-06 114488000 3895.6 3711.2 3703.7 4214.2 4117.5 4944.5 4281.6 4685 4534 4165.7 TRUE FALSE FALSE 4305.357082 3831.445315 4208.420948 4295.771935 3802.01804 4523.200783 3799.823099 4565.164484 4502.447525 4345.303713 0.990806941 0.881743963 0.968498689 0.988601078 0.87497176 1.040940077 0.874466631 1.050597331 1.036164057 1 12.0852413 -7.487668168 24.89886193 0.995944272 0.952124561 0.132653547 0.06144473 665.1332517 470347.462 0.009118172 0.010123625 3.25E-08 7.487668168 -0.043819711 LVPVGYGIK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 LVPVGYGIKK 10 1 P24534 P24534 EEF1B2 Elongation factor 1-beta 0 1 ; LVPVGYGIK(1)K;LVPVGYGIK(1)K 144.38 2.51E-05 13167000 8127.4 8038.8 13716.4 11376.1 10840 3926 11019 3587.8 1855.8 3828.6 FALSE TRUE FALSE 8982.277222 8299.262394 15585.59956 11596.30087 10009.44154 3591.482713 9779.11312 3496.029271 1842.885337 3993.669683 2.24912873 2.078104364 3.902576026 2.903670505 2.506326847 0.899293882 2.448653468 0.875392696 0.461451618 1 11.9634993 -4.240281291 21.86073395 1.93316936 0.875386713 0.103985197 0.981894207 1729.787515 1787070.587 0.138289255 6.402807359 5.75E-05 4.240281291 -1.057782647 LVPVS(ph)PLPPK ddPTM_HeLa_SAHA_4h_R1 2 LVPVSPLPPK 10 0 O95396 O95396 MOCS3 Adenylyltransferase and sulfurtransferase MOCS3;Molybdopterin-synthase adenylyltransferase;Molybdopterin-synthase sulfurtransferase 1 0 LVPVS(1)PLPPK;LVPVS(1)PLPPK ; 100.93 0.0097025 21273100 11844.3 12260.2 11583.2 11957 12066 13067 11924.8 12531.7 11355.4 11230.6 TRUE FALSE FALSE 13090.13782 12657.43852 13161.69817 12188.44503 11141.50569 11953.61809 10582.99012 12211.15726 11276.37685 11714.80613 1.117401148 1.080465045 1.123509688 1.040430793 0.951061893 1.020385481 0.903385852 1.042369556 0.962574773 1 13.51604546 -5.90318763 5.447646363 1.064478314 0.977344459 0.284383596 0.057779252 0.184095498 8.523624646 0.008495047 0.015592437 1.25E-06 5.90318763 -0.087133856 LVQAFQFTDK ddPTM_HeLa_SAHA_4h_R1 3 LVQAFQFTDK 10 0 Q06830;A0A0A0MSI0;A0A0A0MRQ5 Q06830 PRDX1 Peroxiredoxin-1 0 0 ;; ;; 188.04 6.58E-17 166890200 4482.99 5232.49 5541.5 5527.01 5182.36 5154.7 5706.06 4069.52 4180.16 4503.25 FALSE FALSE TRUE 4954.531457 5402.026109 6296.666761 5633.993271 4785.288696 4715.49056 5063.999111 3965.427571 4151.069926 4697.407146 1.054737497 1.15000168 1.340455823 1.199383638 1.018708523 1.003849659 1.078041344 0.8441737 0.883693876 1 12.19764893 -4.259778787 23.91148603 1.067816607 0.844173571 0.253969234 0.119864786 91.3794498 1315577.387 0.016509595 0.140273872 5.50E-05 4.259778787 -0.223643036 LVQAFQYTDK ddPTM_HeLa_SAHA_4h_R1 3 LVQAFQYTDK 10 0 Q13162;H7C3T4 Q13162 PRDX4 Peroxiredoxin-4 0 0 ;; ;; 153.24 0.0028369 152937200 792.32 930.91 1191.35 877.42 1244.35 1233.78 1241.243 909.91 964.404 966.15 FALSE FALSE TRUE 875.6598529 961.0720948 1353.700974 894.4037329 1149.008172 1128.655003 1101.575071 886.6358197 957.692634 1007.805455 0.868877866 0.95362859 1.343216558 0.887476575 1.140109102 1.119913568 1.09304337 0.879768824 0.950275303 1 9.977001455 -6.965071143 24.99992299 0.936668997 1.080332155 0.211924099 0.126736051 195.586272 139988.1735 0.019689095 0.025876496 1.08E-07 6.965071143 0.143663158 LVQGSILK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 LVQGSILKK 9 1 P12004 P12004 PCNA Proliferating cell nuclear antigen 0 1 ; LVQGSILK(1)K;LVQGSILK(1)K 123.86 0.0010554 2785500 1265.96 2542.3 1285.96 1780.71 2645.9 2425.1 2235.94 2225.9 1865.58 1043.34 FALSE TRUE FALSE 1399.119481 2624.672188 1461.203932 1815.178217 2443.171714 2218.467837 1984.346147 2168.964701 1852.597277 1088.323493 1.285573168 2.411665469 1.342619121 1.667866428 2.244894766 2.038426856 1.823305441 1.992941174 1.702248723 1 10.08789173 -7.437849101 6.030706626 1.123729163 1.91075751 0.367885323 0.335761894 0.110333069 6.184180966 0.049090165 0.05563588 3.65E-08 7.437849101 0.787028346 LVQSPNSYFMDVK ddPTM_HeLa_SAHA_4h_R1 2 LVQSPNSYFMDVK 13 0 P42677;H0YMV8;Q71UM5;C9JLI6 P42677 RPS27;RPS27L 40S ribosomal protein S27;40S ribosomal protein S27-like 0 0 ; ; 148.68 0.00012748 1623990 516.66 253.9 314.121 447.52 449.74 507.37 466.37 323.93 275.22 462.674 FALSE FALSE TRUE 571.0046693 262.1265266 356.927774 456.1823967 415.2810184 464.1392216 413.8928202 315.6443396 273.3047216 482.6221404 1.183129868 0.543129924 0.739559469 0.945216472 0.860468229 0.961703127 0.857591862 0.654019601 0.566291305 1 8.914750291 -7.286263343 24.99119909 1.086477998 0.80960017 0 0.20831456 492.9535512 496273.178 0.023778377 0.027197739 5.17E-08 7.286263343 -0.276877828 LVRLS(ph)SDSFAR ddPTM_HeLa_SAHA_4h_R1 2 LVRLSSDSFAR 11 1 A0A087WSV0;Q9HB09-3;Q9HB09 A0A087WSV0 BCL2L12 Bcl-2-like protein 12 1 0 LVRLS(0.936)S(0.06)DS(0.004)FAR;LVRLS(0.764)S(0.234)DS(0.002)FAR ; 95.428 0.0067706 12124000 1209.83 1575.13 1625.83 1702.82 1713.46 1286.64 2326.7 1583.95 1597.82 1452.59 TRUE FALSE FALSE 1337.08547 1626.165245 1847.389645 1735.780543 1582.175065 1177.011034 2064.893592 1543.434853 1586.700641 1515.218264 0.882437535 1.073221782 1.219223454 1.145564692 1.044189542 0.776793061 1.362769736 1.018622128 1.04717629 1 10.56530991 -7.155404549 6.234916549 0.944695858 1.096264932 0.102960251 0.14730375 0.292820279 14.86404548 0.023611724 0.028986551 6.99E-08 7.155404549 0.151569074 LVS(ph)PEPPPK ddPTM_HeLa_SAHA_4h_R1 2 LVSPEPPPK 9 0 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0;Q9H4G0-4 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 LVS(1)PEPPPK;LVS(1)PEPPPK ; 103.26 0.0084793 7360700 3091 4511.7 3694.9 3938.3 4714.3 5830.3 4444.4 4392.3 6609.2 4008.7 TRUE FALSE FALSE 3416.125562 4657.88204 4198.42173 4014.531491 4353.091352 5333.52564 3944.304415 4279.951326 6563.206039 4181.534675 0.816954976 1.113916876 1.004038483 0.960061748 1.041027204 1.275494777 0.943267179 1.023536012 1.569568723 1 12.02981681 -7.252884221 24.99035421 0.913562072 1.05030447 0 0.229008796 649.5142717 1897287.745 0.018184235 0.022083097 5.59E-08 7.252884221 0.136742398 LVS(ph)PGSANETSSILVESVTR ddPTM_HeLa_SAHA_4h_R1 3 LVSPGSANETSSILVESVTR 20 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;A0A0A0MT44 O75369-8 FLNB Filamin-B 1 0 LVS(1)PGSANETSSILVESVTR;LVS(0.714)PGS(0.286)ANETSSILVESVTR;LVS(0.751)PGS(0.249)ANETSSILVESVTR ;; 157.73 3.05E-06 89907200 1685.99 2611.79 1890.01 2774.04 2817.88 2794.8 2651.45 2465.14 3451.15 2101.29 TRUE FALSE FALSE 1863.330164 2696.41371 2147.57072 2827.735556 2601.974643 2556.667317 2353.101868 2402.085288 3427.133166 2191.886895 0.850103246 1.230179219 0.979781723 1.290091912 1.18709348 1.166423013 1.073550772 1.095898376 1.563553837 1 11.09795764 -7.262442081 24.99835259 0.929215421 1.144846016 0 0.218862533 51.09226596 1273775.323 0.01582722 0.018651791 5.46E-08 7.262442081 0.215630595 LVSEK(ac)LASYQAAR ddPTM_HeLa_SAHA_4h_R1 2 LVSEKLASYQAAR 13 1 H0YBT0;A0A087WUS5;P01106;P01106-2;H0YBG3;A0A0B4J1R1;A0A494C1T8 H0YBT0 MYC Myc proto-oncogene protein 0 1 ; LVSEK(1)LASYQAAR;LVSEK(1)LASYQAAR 234.63 1.54E-55 58495000 2361.6 2106.43 2181.85 1521.82 1421.53 1161.08 1200.93 720.94 1637.9 2252.7 FALSE TRUE FALSE 2610.003923 2174.679714 2479.181155 1551.277027 1312.612679 1062.149452 1065.798196 702.4993987 1626.501721 2349.824921 1.110722718 0.925464572 1.055049307 0.660167067 0.558600203 0.452012166 0.453564938 0.298958187 0.69217996 1 11.19833755 -5.970770419 1.264000534 1.050657241 0.395651939 0.760469341 0.132777643 0.069760164 0.221303777 0.01162378 0.026893221 1.07E-06 5.970770419 -0.655005302 down LVSFHDDS(ph)DEDLLHI ddPTM_HeLa_SAHA_4h_R1 7 LVSFHDDSDEDLLHI 15 0 P11717 P11717 IGF2R Cation-independent mannose-6-phosphate receptor 1 0 LVSFHDDS(1)DEDLLHI;LVS(0.009)FHDDS(0.991)DEDLLHI;LVSFHDDS(1)DEDLLHI;LVSFHDDS(1)DEDLLHI;LVSFHDDS(1)DEDLLHI;LVSFHDDS(1)DEDLLHI;LVSFHDDS(1)DEDLLHI ;;;;;; 130.66 0.00020397 19755600 2598.35 5042.61 2909.22 3978.78 6918.12 7064.3 5297.3 5083.77 4220.73 4890.56 TRUE FALSE FALSE 2871.656375 5205.993873 3305.673351 4055.79504 6388.05514 6462.381897 4701.233862 4953.734525 4191.357596 5101.415975 0.562913589 1.020499778 0.647991336 0.795033195 1.252212164 1.266781993 0.921554699 0.97105089 0.82160671 1 12.31668203 -5.780412678 24.53973403 0.795656377 1.101652534 0.436367042 0.163825168 164.1658691 212329.0553 0.029939484 0.054338456 1.66E-06 5.780412678 0.305996157 LVSGWVKPIIIGR ddPTM_HeLa_SAHA_4h_R1 2 LVSGWVKPIIIGR 13 1 C9J4N6;O75874 C9J4N6 IDH1 Isocitrate dehydrogenase [NADP] cytoplasmic 0 0 ; ; 169.21 9.72E-08 0 1082.6 757.64 935.35 917.17 1129.77 1137.35 1393.08 623.87 1052.1 955 FALSE FALSE TRUE 1196.472835 782.1880331 1062.814627 934.9231516 1043.207267 1040.441381 1236.326972 607.9123088 1044.77835 996.1747237 1.201067249 0.785191608 1.066895798 0.938513224 1.047213146 1.04443664 1.241074425 0.610246671 1.048790263 1 9.960254995 -7.300305858 24.99838841 1.094948406 0.982263168 0.088703827 0.168459066 997.3686565 641491.4694 0.02795725 0.031970613 5.01E-08 7.300305858 -0.112685238 LVSLYFDTKR ddPTM_HeLa_SAHA_4h_R1 1 LVSLYFDTKR 10 1 J3QRY4;O00231;O00231-2;J3KSW3 J3QRY4 PSMD11 26S proteasome non-ATPase regulatory subunit 11 0 0 78.098 0.019499 1497200 776.83 746.01 1245.7 1187.1 1033.1 639.64 1230.3 351.58 392.51 721.64 FALSE FALSE TRUE 858.5405436 770.1812135 1415.457509 1210.078037 953.9441012 585.1390735 1091.863406 342.5870927 389.778491 752.753432 1.140533549 1.023152045 1.880373371 1.607535729 1.267273002 0.777331658 1.450492764 0.455111964 0.517803672 1 9.55603357 -3.049287127 11.48083773 1.139368344 0.526457682 0 0.435887402 0 0 0.049896036 0 0.000892715 3.049287127 -0.612910662 LVSPET(ph)EASEESLQFNLEKPATGER ddPTM_HeLa_SAHA_4h_R1 1 LVSPETEASEESLQFNLEKPATGER 25 1 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 LVS(0.447)PET(0.552)EAS(0.001)EESLQFNLEKPATGER 115.12 6.15E-07 10742000 442.5 687.95 510.28 552.15 594.2 633.11 827.96 686.21 877.25 581.44 TRUE FALSE FALSE 489.0441803 710.2400314 579.818301 562.8376617 548.6725244 579.1654662 734.7957617 668.6577418 871.1451458 606.5087239 0.806326704 1.171030199 0.95599334 0.927995987 0.904640779 0.954916959 1.211517218 1.102470114 1.436327478 1 9.244384587 -4.813791483 6.905830795 0.93199224 1.156522189 0 0.184277407 0.132426417 13.68730465 0.014752173 0.04553377 1.54E-05 4.813791483 0.224529949 LVSPETEAS(ph)EESLQFNLEKPATGER ddPTM_HeLa_SAHA_4h_R1 2 LVSPETEASEESLQFNLEKPATGER 25 1 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 LVSPET(0.01)EAS(0.973)EES(0.017)LQFNLEKPATGER;LVSPET(0.037)EAS(0.961)EES(0.002)LQFNLEKPATGER ; 155.04 4.88E-10 29499000 778.47 903.95 762.23 897.56 1047.78 984.27 912.05 916.29 1105.39 793.43 TRUE FALSE FALSE 860.3530463 933.2385731 866.1027349 914.9335717 967.4993228 900.4046586 809.4237336 892.8526286 1097.697501 827.6386503 1.03952739 1.127591821 1.046474491 1.10547468 1.168987604 1.087920022 0.977991704 1.078795231 1.326300434 1 9.69285721 -7.701496094 1.663910873 1.012426477 1.083256985 0 0.110329562 0.320418599 1.842594504 0.010497518 0.010425617 1.99E-08 7.701496094 0.070830509 LVSPGS(ph)ANETSSILVESVTR ddPTM_HeLa_SAHA_4h_R1 2 LVSPGSANETSSILVESVTR 20 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;A0A0A0MT44 O75369-8 FLNB Filamin-B 1 0 LVS(0.004)PGS(0.996)ANETSSILVESVTR;LVS(0.287)PGS(0.712)ANETSSILVESVTR ; 145.52 4.83E-05 26134000 1591.75 2347.72 1951.98 1174.17 1971.56 2580.88 2264.49 1483.27 1686.75 2350.88 TRUE FALSE FALSE 1759.177568 2423.787668 2217.985669 1196.897758 1820.499499 2360.974504 2009.683625 1445.330101 1675.011769 2452.237942 0.717376376 0.988398241 0.904474085 0.488083859 0.742382894 0.962783613 0.819530434 0.589392276 0.68305434 1 11.25988326 LVSS(ph)DPEINTK ddPTM_HeLa_SAHA_4h_R1 2 LVSSDPEINTK 11 0 Q9Y266 Q9Y266 NUDC Nuclear migration protein nudC 1 0 LVS(0.146)S(0.854)DPEINTK;LVS(0.027)S(0.973)DPEINTK ; 178.71 3.76E-05 6600700 2911.4 2952.5 2698 3490.8 3251.3 3425.1 3169.2 3008.2 3336.4 3079.5 TRUE FALSE FALSE 3217.63441 3048.162937 3065.669389 3558.369482 3002.186096 3133.262211 2812.593275 2931.2546 3313.181721 3212.272316 1.001669253 0.948911748 0.954361613 1.107742163 0.934598876 0.975403672 0.875577472 0.912517468 1.031413714 1 11.64937849 -4.998905676 1.863384167 0.998352163 0.892947528 0.412660332 0.047652013 0.246925211 1.617033506 0.006301244 0.027220768 1.00E-05 4.998905676 -0.105404635 LVTSGAESGNLNT(ph)SPSSNQTR ddPTM_HeLa_SAHA_4h_R1 2 LVTSGAESGNLNTSPSSNQTR 21 0 Q8NHV4-2;Q8NHV4;Q8NHV4-3 Q8NHV4-2 NEDD1 Protein NEDD1 1 0 LVTSGAESGNLNT(0.815)S(0.081)PS(0.024)S(0.081)NQTR;LVTSGAESGNLNT(0.73)S(0.228)PS(0.029)S(0.012)NQTR ; 261.06 1.91E-53 40927700 3074.52 2956.71 2486.9 2812.44 3027.56 3926.06 3183.32 3102.23 3777.77 3356.92 TRUE FALSE FALSE 3397.91212 3052.509344 2825.801781 2866.878843 2795.589007 3591.537601 2825.124456 3022.879449 3751.480191 3501.65325 0.970373671 0.871733757 0.80699075 0.818721512 0.798362604 1.025669118 0.806797319 0.86327207 1.071345426 1 11.77382051 -7.270702366 3.289335275 0.987398403 0.853712998 0.527149649 0.067520446 0.151518463 3.352788105 0.010652478 0.012561127 5.36E-08 7.270702366 -0.133685405 LVTSGAESGNLNTS(ph)PSSNQTR ddPTM_HeLa_SAHA_4h_R1 2 LVTSGAESGNLNTSPSSNQTR 21 0 Q8NHV4-2;Q8NHV4;Q8NHV4-3 Q8NHV4-2 NEDD1 Protein NEDD1 1 0 LVTSGAESGNLNT(0.468)S(0.53)PS(0.001)SNQTR;LVTSGAESGNLNT(0.122)S(0.551)PS(0.229)S(0.098)NQTR ; 192.72 4.33E-15 36123900 2373.6 2514.7 2170.4 2891.6 2816.4 3177.5 3013.4 2724.6 2833 2873.2 TRUE FALSE FALSE 2623.266138 2596.17793 2466.170809 2947.571099 2600.60804 2906.759124 2674.324301 2654.908677 2813.284922 2997.077713 0.875274647 0.86623644 0.822858479 0.983481705 0.867714584 0.969864449 0.89231063 0.885832445 0.938676001 1 11.54934078 -9.283567687 1.007734879 1.00007434 0.89563161 0.234752289 0.048944874 0.405824901 0.737807896 0.03017561 0.008122657 5.21E-10 9.283567687 -0.10444273 LVVECVMNNVTCTR ddPTM_HeLa_SAHA_4h_R1 2 LVVECVMNNVTCTR 14 0 I6L8B7;Q01469 I6L8B7 FABP5 "Fatty acid-binding protein, epidermal" 0 0 ; ; 168.83 3.37E-10 1517190 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 LVVLGIRPIR ddPTM_HeLa_SAHA_4h_R1 2 LVVLGIRPIR 10 1 Q92900-2;Q92900 Q92900-2 UPF1 Regulator of nonsense transcripts 1 0 0 ; ; 120.87 0.00012265 0 1323.28 1168.93 1658.4 1648.39 1736.34 1336.35 2346.36 782.22 1202.85 1587.75 FALSE FALSE TRUE 1462.468662 1206.804099 1884.398115 1680.296972 1603.302004 1222.485462 2082.341398 762.211945 1194.479269 1656.205673 0.88302358 0.728655939 1.137780257 1.014546079 0.968057308 0.738124185 1.25729638 0.460215756 0.721214333 1 10.69366613 -4.235606181 24.73887291 0.950249474 0.460215022 0.416167112 0.169543256 4744.966239 4543886.701 0.019347573 1.991963533 5.81E-05 4.235606181 -0.490034452 LVVPASQCGSLIGK ddPTM_HeLa_SAHA_4h_R1 2 LVVPASQCGSLIGK 14 0 Q15366-2;Q15366;Q15366-3;Q15366-6;Q15366-5;H3BRU6;F8VZX2;Q15366-8;Q15366-4;Q15366-7;F8W0G4;P57721-3;P57721-5;P57721-2;F8VXH9;F8W1G6;E9PFP8;P57721-4;J3QT27;P57721;H3BND9 Q15366-2 PCBP2;PCBP3 Poly(rC)-binding protein 2;Poly(rC)-binding protein 3 0 0 ; ; 138.42 0.00051757 2029490 617.94 890.11 727.54 619.4 942.83 737.8 746.5 667.1 662.52 539.85 FALSE FALSE TRUE 682.9377644 918.950148 826.6853623 631.3893827 870.5905691 674.9352893 662.5018553 650.0365479 657.9094694 563.1255755 1.212762826 1.631874289 1.46803022 1.121223063 1.545997211 1.198552008 1.176472681 1.154336752 1.168317509 1 9.137312865 -8.20724 1.227567806 1.043619135 1.320012891 0.211617516 0.173579581 0.348693781 1.079296957 0.046773898 0.035146392 6.21E-09 8.20724 0.276393756 LVVPATQCGSLIGK ddPTM_HeLa_SAHA_4h_R1 2 LVVPATQCGSLIGK 14 0 Q15365 Q15365 PCBP1 Poly(rC)-binding protein 1 0 0 ; ; 180.18 1.03E-11 1983310 802.86 1047.56 867.02 592.64 909.59 1143.8 803.36 955.42 839.2 1203.92 FALSE FALSE TRUE 887.3084985 1081.501631 985.1729704 604.1114042 839.8974107 1046.341805 712.9638185 930.9817398 833.3599389 1255.826883 0.706553196 0.861186877 0.784481511 0.481046721 0.668800312 0.833189526 0.567724603 0.741329679 0.663594601 1 10.29442189 -10.17334419 0.303604908 1.264520617 0.666059035 0 0.150539357 3.946689396 0.302343709 0.864262863 0.053956822 6.71E-11 10.17334419 -0.598461582 LVVSS(ph)PTSPK ddPTM_HeLa_SAHA_4h_R1 1 LVVSSPTSPK 10 0 Q9Y4G2 Q9Y4G2 PLEKHM1 Pleckstrin homology domain-containing family M member 1 1 0 LVVS(0.029)S(0.683)PT(0.177)S(0.111)PK 99.53 0.00513 0 1259.4 1225.3 1405.1 1716.7 1315.8 1806.8 1474.9 1494.9 1587.3 1462.3 TRUE FALSE FALSE 1391.86947 1265.000524 1596.579711 1749.929211 1214.983688 1652.850475 1308.94037 1456.662623 1576.25385 1525.346909 0.912493717 0.829319885 1.04669941 1.14723359 0.79652942 1.083589881 0.858126346 0.954971367 1.033374009 1 10.57492168 LVVSSPTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 LVVSSPTSPK 10 0 Q9Y4G2 Q9Y4G2 PLEKHM1 Pleckstrin homology domain-containing family M member 1 1 0 LVVSSPT(0.002)S(0.998)PK;LVVSS(0.002)PT(0.024)S(0.974)PK ; 172.21 7.70E-05 13595000 6143 6352.1 6768.5 6975.4 7858.2 7921.8 8237.7 7947.2 5875.3 5667.7 TRUE FALSE FALSE 6789.148925 6557.912208 7690.875931 7110.418954 7256.106414 7246.818073 7310.772316 7743.922131 5834.413309 5912.062284 1.148355447 1.109242747 1.300878706 1.202696895 1.227339305 1.225768222 1.236585808 1.309851243 0.986866009 1 12.52944575 -8.446459553 0.222662192 0.896425791 1.308755895 0.840126039 0.04287083 1.13042626 0.137585579 0.157523878 0.066377904 3.58E-09 8.446459553 0.412330103 LVVVK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 LVVVKK 6 1 Q9BW85 Q9BW85 CCDC94 Coiled-coil domain-containing protein 94 0 1 ; LVVVK(1)K;LVVVK(1)K 106.84 0.0058919 8568100 5619.2 5760 6801.8 10093.3 11922.8 13868.5 14568.4 14127.2 10286.3 8105.7 FALSE TRUE FALSE 6210.253238 5946.627779 7728.713882 10288.67042 11009.27764 12686.82578 12929.12529 13765.84668 10214.7168 8455.176395 0.734491269 0.70331209 0.914080738 1.216848701 1.302075454 1.500480319 1.529137263 1.628096924 1.208102152 1 13.04561914 -5.836995886 1.322881181 0.855939932 1.559597001 0.784812142 0.144540166 0.114369405 0.399649339 0.020394949 0.050587292 1.46E-06 5.836995886 0.703657069 LVVVLCNLKPQK ddPTM_HeLa_SAHA_4h_R1 2 LVVVLCNLKPQK 12 1 P54577 P54577 YARS "Tyrosine--tRNA ligase, cytoplasmic;Tyrosine--tRNA ligase, cytoplasmic, N-terminally processed" 0 0 ; ; 121.6 0.0010943 10738000 1526.04 1558.23 2588.5 2159 1802.75 1723.32 2767.9 995.93 1391.2 1836.92 FALSE FALSE TRUE 1686.555889 1608.717674 2941.2473 2200.790567 1664.623684 1576.483441 2456.448607 970.4555527 1381.518526 1916.118611 0.880193887 0.839571029 1.535002731 1.14856698 0.868747725 0.822748358 1.281991936 0.506469457 0.720998438 1 10.90397115 -4.236564687 23.97193917 0.992466879 0.506468411 0.288797041 0.235877558 4262.446706 4107644.803 0.030239512 2.568833496 5.80E-05 4.236564687 -0.485998468 LVY(ph)HDFFR ddPTM_HeLa_SAHA_4h_R1 1 LVYHDFFR 8 0 I3L1A8;I3L2A9;I3L2T0;I3L3N8;I3L437;I3L1Q3;Q8TE02-3;Q8TE02-2;Q8TE02;Q8TE02-4 I3L1A8 ELP5 Elongator complex protein 5 1 0 LVY(1)HDFFR 113.89 0.0015823 0 874.96 844.56 907.84 1115.9 1258.1 311.71 1146.2 857.49 1079.9 981.64 TRUE FALSE FALSE 966.9923073 871.9242981 1031.555707 1137.499858 1161.70465 285.1505544 1017.226559 835.5566474 1072.384888 1023.963304 0.944362267 0.851519087 1.007414722 1.110879514 1.134517853 0.278477318 0.993420912 0.81600253 1.047288397 1 9.999948299 LWAQDGSEDEPPKDS(ph)DGEDPETAAVGCR ddPTM_HeLa_SAHA_4h_R1 4 LWAQDGSEDEPPKDSDGEDPETAAVGCR 28 1 A0A087WXB3;A0A087X223;A0A087WYW1;Q96NU1-4;Q96NU1-5;H7C3J6;A0A087X1J5;Q96NU1-1;Q96NU1-2;H7BY14;A0A087WYU3;Q96NU1-6;Q96NU1 A0A087WXB3;H7BY14 SAMD11 Sterile alpha motif domain-containing protein 11 1 0 LWAQDGS(0.003)EDEPPKDS(0.981)DGEDPET(0.016)AAVGCR;LWAQDGS(0.023)EDEPPKDS(0.954)DGEDPET(0.023)AAVGCR;LWAQDGS(0.257)EDEPPKDS(0.727)DGEDPET(0.016)AAVGCR;LWAQDGSEDEPPKDS(0.99)DGEDPET(0.009)AAVGCR ;;; 81.726 1.05E-05 63364100 2806.71 2779.9 2794.51 3517.77 3139.79 3928.61 3394.02 3404.13 3193.92 2798.78 TRUE FALSE FALSE 3101.932635 2869.970584 3175.33127 3585.861525 2899.219969 3593.870326 3012.115937 3317.057284 3171.693251 2919.449103 1.062506153 0.983052104 1.087647415 1.228266498 0.993070907 1.231009756 1.031741206 1.13619288 1.086401283 1 11.51148044 -6.547821277 10.32633791 1.027226645 1.121615945 0.247456505 0.074561687 0.364526423 146.7762063 0.01038738 0.01473487 2.83E-07 6.547821277 0.0943893 LWDLTTGTTTR ddPTM_HeLa_SAHA_4h_R1 2 LWDLTTGTTTR 11 0 P63244;H0YAF8;J3KPE3;H0Y8W2;D6R9L0;D6R9Z1;D6RHH4;D6RFX4;D6RFZ9;E9PD14;D6RAU2 P63244 GNB2L1 "Guanine nucleotide-binding protein subunit beta-2-like 1;Guanine nucleotide-binding protein subunit beta-2-like 1, N-terminally processed" 0 0 ; ; 164.46 1.77E-07 2293400 942.51 1105.11 980.58 1000.94 1028.31 1047.59 1108.84 1280.44 1317.71 989.07 FALSE FALSE TRUE 1041.647526 1140.916289 1114.208336 1020.314641 949.52111 958.3294384 984.0704049 1247.688199 1308.539949 1031.713648 1.009628523 1.105845882 1.079958899 0.988951385 0.920333963 0.928871533 0.953821253 1.20933575 1.26831699 1 10.01082689 -6.096800311 21.20358471 1.019684437 0.989247407 0 0.114652548 46.48759799 10168.22715 0.012526786 0.020773366 8.00E-07 6.096800311 -0.03043703 LWDVDR ddPTM_HeLa_SAHA_4h_R1 1 LWDVDR 6 0 A0A0D9SF63;Q9BZK7 A0A0D9SF63 TBL1XR1 F-box-like/WD repeat-containing protein TBL1XR1 0 0 128.82 0.007544 5861800 4283.8 4300.5 3969.8 4093.9 4551.2 4199.6 4749.2 3729.1 4419.8 4163.4 FALSE FALSE TRUE 4734.389739 4439.839022 4510.78367 4173.143354 4202.488039 3841.770454 4214.807517 3633.715022 4389.042252 4342.904549 1.090143632 1.022320194 1.038655955 0.960910678 0.967667604 0.88460854 0.970504295 0.836701562 1.010623697 1 12.08444453 -5.822327257 1.10465774 1.042878864 0.899028053 0.666051858 0.040414469 0.234927465 0.562011776 0.007348466 0.020421231 1.51E-06 5.822327257 -0.143850811 LWISVAR ddPTM_HeLa_SAHA_4h_R1 2 LWISVAR 7 0 Q15029-3;Q15029;Q15029-2 Q15029-3 EFTUD2 116 kDa U5 small nuclear ribonucleoprotein component 0 0 ; ; 128.48 0.00073843 3263700 764.66 1071.28 1616.78 1498.47 1199.64 932.47 1517.67 449.191 580.55 609.28 FALSE FALSE TRUE 845.0904472 1105.990175 1837.106359 1527.475054 1107.723842 853.0183101 1346.897777 437.7013446 576.5099053 635.5490425 1.329701393 1.740212164 2.890581585 2.403394469 1.742939991 1.342175431 2.119266472 0.688697984 0.907105301 1 9.311859646 -7.35822427 2.728882135 1.136217614 1.89844019 0.283756874 0.563174966 0.274002643 3.832581665 0.102161604 0.116812628 4.38E-08 7.35822427 0.762222576 LWQTVVGK ddPTM_HeLa_SAHA_4h_R1 1 LWQTVVGK 8 0 H0YH33;Q9Y3F4;Q9Y3F4-2 H0YH33 STRAP Serine-threonine kinase receptor-associated protein 0 0 116.25 0.0048611 484680 637 395.9 418.69 443.3 474.16 435.39 500.88 447.01 543.23 324.74 FALSE FALSE TRUE 704.0025827 408.7274198 475.7468928 451.8807125 437.8299632 398.2923226 444.5196642 435.5761315 539.4496182 338.7411306 2.078290821 1.206607001 1.404455644 1.334000131 1.292520818 1.175801479 1.31226953 1.285867266 1.592512894 1 8.404039362 LY(ph)SMKFQGPDNGQGPK ddPTM_HeLa_SAHA_4h_R1 1 LYSMKFQGPDNGQGPK 16 1 K7ER96;O43396 K7ER96 TXNL1 Thioredoxin-like protein 1 1 0 LY(0.897)S(0.103)MKFQGPDNGQGPK 45.434 0.020647 6116200 3068.2 2695 3252.9 5272.3 2758.3 2788.9 2835.2 2669.4 4260.2 4540.4 TRUE FALSE FALSE 3390.927353 2782.319768 3696.188272 5374.35299 2546.95965 2551.27003 2516.175834 2601.120613 4230.552921 4736.158864 0.715965712 0.587463353 0.78041898 1.134749307 0.537769049 0.53867915 0.531269306 0.54920468 0.893245569 1 12.20950176 -13.52286997 0.053450501 2.385409717 4.06E-09 0.373780842 0.164489616 289.5622013 1.222546777 56.68928627 12.73570789 3.00E-14 13.52286997 -2.385409713 LYDAYELK ddPTM_HeLa_SAHA_4h_R1 2 LYDAYELK 8 0 P08758;D6RBL5;E9PHT9 P08758 ANXA5 Annexin A5;Annexin 0 0 ; ; 133.55 0.00072665 2322200 2274.81 2386.86 2246.35 2961.5 3012.4 1893.8 2767.77 1888.65 2174.2 2142.42 FALSE FALSE TRUE 2514.084953 2464.19583 2552.47088 3018.824115 2781.590563 1732.437586 2456.333235 1840.341068 2159.069565 2234.790211 1.124975821 1.102651971 1.142152345 1.350831098 1.244676368 0.775212625 1.099133701 0.82349612 0.966117336 1 11.12592369 -5.26192525 24.9999995 1.103194913 0.919266109 0.380088127 0.132305781 44.74522322 2302411.193 0.019469693 0.046195623 5.47E-06 5.26192525 -0.183928804 LYDS(ph)SPSR ddPTM_HeLa_SAHA_4h_R1 2 LYDSSPSR 8 0 E9PP00;Q9C0D7;Q9C0D7-2 E9PP00 ZC3H12C Probable ribonuclease ZC3H12C 1 0 LY(0.001)DS(0.631)S(0.369)PSR;LYDS(0.624)S(0.376)PSR ; 101.9 0.0097595 8369300 3937.9 3806.4 3415.9 3388.2 3756.9 3498.5 3655 3155.6 3865.6 3720.3 TRUE FALSE FALSE 4352.10639 3929.729857 3881.401063 3453.78351 3469.047134 3200.408118 3243.729781 3074.884321 3838.698975 3880.70034 1.121474479 1.012634193 1.000180566 0.889989746 0.89392296 0.824698595 0.835861957 0.792352939 0.98917686 1 11.92210132 -6.152596468 1.183821897 1.057048795 0.82251124 0.83334139 0.040465886 0.140280608 0.387871473 0.008377881 0.017781851 7.04E-07 6.152596468 -0.234537555 LYEALT(ph)PVH ddPTM_HeLa_SAHA_4h_R1 3 LYEALTPVH 9 0 G5E9W3;Q9UKF6 G5E9W3 CPSF3 Cleavage and polyadenylation specificity factor subunit 3 1 0 LYEALT(1)PVH;LYEALT(1)PVH;LYEALT(1)PVH ;; 122.28 0.0057454 23978100 11807.1 10572 9071 11127.3 11840 15199.3 12415.2 14480 14897.5 12214.9 TRUE FALSE FALSE 13049.02495 10914.53974 10307.14864 11342.68498 10932.82176 13904.23413 11018.20902 14109.62257 14793.82708 12741.54412 1.024132148 0.856610442 0.808940309 0.890212746 0.858045278 1.091251892 0.864746762 1.10737148 1.161070193 1 13.6372525 -7.284817649 24.08752132 1.011395743 0.920951293 0.21992046 0.105449744 634.9976417 654260.4317 0.01554154 0.017778885 5.19E-08 7.284817649 -0.09044445 LYEEDDLDRLEQMEDSEGTVR ddPTM_HeLa_SAHA_4h_R1 2 LYEEDDLDRLEQMEDSEGTVR 21 1 Q86W92-3;Q86W92-4;Q86W92;H0YFE4;Q86W92-2 Q86W92-3;Q86W92-2 PPFIBP1 Liprin-beta-1 0 0 ; ; 166.67 1.41E-07 8297000 788.73 1046.98 1265.67 1158.74 1374.7 1217.92 1373.2 1201.87 1374.75 1375.46 FALSE FALSE TRUE 871.6922402 1080.902839 1438.148916 1181.169088 1269.370783 1114.146364 1218.683922 1171.127906 1365.183003 1434.762812 0.607551459 0.753366919 1.002360045 0.823250421 0.884725177 0.776536968 0.849397484 0.816251924 0.951504312 1 10.48659654 LYENFISEFEHR ddPTM_HeLa_SAHA_4h_R1 1 LYENFISEFEHR 12 0 E9PPD2;E9PQG3;J3KNQ3;A0A087WUL9;Q9UNM6 E9PPD2 PSMD13 26S proteasome non-ATPase regulatory subunit 13 0 0 118.24 0.00031895 0 641.68 698.48 128.78 528.67 685.46 616.61 700.52 553.56 841.63 431.73 FALSE FALSE TRUE 709.1748465 721.1112103 146.3294677 538.9031723 632.9402029 564.071359 621.6956459 539.4007367 835.7730283 450.3439931 1.574740326 1.601245318 0.32492821 1.196647853 1.40545941 1.252534435 1.380490593 1.197752707 1.855854727 1 8.814883608 -9.763894994 1.734196496 0.999953355 1.294538256 0 0.431609022 0.787548737 4.290244327 0.258086041 0.055334909 1.72E-10 9.763894994 0.294584901 LYFSTCPFR ddPTM_HeLa_SAHA_4h_R1 1 LYFSTCPFR 9 0 E9PF10;O75694-2;O75694 E9PF10 NUP155 Nuclear pore complex protein Nup155 0 0 111.01 0.0079876 1044500 68.284 187.51 225.04 0 0 0 233.51 0 0 0 FALSE FALSE TRUE 75.46642442 193.585447 255.7072792 0 0 0 207.2348402 0 0 0 0 LYGDADYLEER ddPTM_HeLa_SAHA_4h_R1 1 LYGDADYLEER 11 0 B4E1E0;P17812-2;P17812;A0A3B3IRI2 B4E1E0 CTPS1 CTP synthase;CTP synthase 1 0 0 125.97 0.010118 4389600 1616.4 1467.6 1300.1 1310.6 1726.2 1387.8 1934 1760 1892.3 1535.1 FALSE FALSE TRUE 1786.420368 1515.151203 1477.270857 1335.968558 1593.938929 1269.551632 1716.38123 1714.981748 1879.13133 1601.285674 1.115616281 0.946209179 0.922552972 0.834309942 0.995411971 0.792832693 1.071876966 1.071002993 1.173514109 1 10.645015 -7.233501364 20.37160414 1.05459654 0.943060405 0.309744253 0.095590157 78.94880666 57566.57116 0.01537015 0.018817553 5.84E-08 7.233501364 -0.111536135 LYGPS(ph)SVSFADDFVR ddPTM_HeLa_SAHA_4h_R1 1 LYGPSSVSFADDFVR 15 0 P50454;E9PPV6;E9PR70;E9PJH8;E9PIG2;E9PRS3;E9PNX1;E9PK86;E9PMI5;E9PQ34 P50454 SERPINH1 Serpin H1 1 0 LYGPS(0.679)S(0.318)VS(0.002)FADDFVR 144.88 0.00010089 2066300 353.31 297.76 190.25 415.04 488.94 432.27 363.66 257.92 463.21 239.27 TRUE FALSE FALSE 390.4727668 307.4076194 216.1762792 423.0736994 451.4775228 395.4381641 322.7400197 251.3227799 459.9864839 249.5861007 1.564481218 1.231669626 0.866139094 1.695101203 1.80890491 1.584375745 1.293100933 1.006958237 1.842997197 1 7.963393783 -6.231516151 24.97982684 1.242858048 1.491761332 0.052247993 0.330096289 1172.412437 978726.8119 0.048538837 0.080485258 5.87E-07 6.231516151 0.248903284 LYGPSSVSFADDFVR ddPTM_HeLa_SAHA_4h_R1 1 LYGPSSVSFADDFVR 15 0 P50454;E9PPV6;E9PR70;E9PJH8;E9PIG2;E9PRS3;E9PNX1;E9PK86;E9PMI5;E9PQ34 P50454 SERPINH1 Serpin H1 0 0 149.23 7.00E-05 296930 0 0 0 152.24 0 0 0 68.813 0 60.249 FALSE FALSE TRUE 0 0 0 155.1868253 0 0 0 67.0528631 0 62.84662924 0 0 0 2.469294332 0 0 0 1.066928551 0 1 5.973763463 -9.593229404 1.418846494 0.996524877 0.375747917 0 0.815271474 0.892018989 3.250021842 0.516697996 0.122786601 2.55E-10 9.593229404 -0.620776959 LYIQT(ph)TTLTIS(ph)MNLS(ph)ASVALGMLY(ph)MPK ddPTM_HeLa_SAHA_4h_R1 1 LYIQTTTLTISMNLSASVALGMLYMPK 27 0 A0A0A0MSC3;H7C3K2;Q14831-5;Q14831-3;Q14831-4;Q14831;Q14831-2 A0A0A0MSC3 GRM7 Metabotropic glutamate receptor 7 4 0 LY(0.017)IQT(0.718)T(0.132)T(0.141)LT(0.079)IS(0.83)MNLS(0.628)AS(0.46)VALGMLY(0.995)MPK 44.893 0.0080578 0 0 111.34 82.445 0 143.64 167.38 173.55 0 135.76 132.8 TRUE FALSE FALSE 0 114.9474891 93.68017524 0 132.6343342 153.1182823 154.0216972 0 134.8152351 138.5256579 0 0.829792046 0.676265875 0 0.957471246 1.105342394 1.111864037 0 0.973214906 1 7.114009409 -4.217879126 23.19904013 0.610184624 6.08E-05 0.167545073 0.412124158 22356.84243 11905993.32 0.06630808 38.5658106 6.06E-05 4.217879126 -0.610123853 LYKS(ph)EPELTTVAEVDESNGEEKSEPVSEIETSVVK ddPTM_HeLa_SAHA_4h_R1 1 LYKSEPELTTVAEVDESNGEEKSEPVSEIETSVVK 35 2 B4DJX4;Q9HAU0-8;Q9HAU0;Q9HAU0-2;Q9HAU0-4;Q9HAU0-6;A0JP02 B4DJX4 PLEKHA5 Pleckstrin homology domain-containing family A member 5 1 0 LY(0.172)KS(0.755)EPELT(0.057)T(0.017)VAEVDESNGEEKSEPVSEIETSVVK 81.001 6.91E-08 42098000 2033.7 1749 1951.3 2710 2617.4 2796.8 2670.6 3357.2 2211.2 2219.2 TRUE FALSE FALSE 2247.613897 1805.668748 2217.213002 2762.455969 2416.855377 2558.496906 2370.097059 3271.327685 2195.812079 2314.880573 0.970941622 0.78002674 0.957808808 1.193347079 1.044051864 1.105239266 1.023852845 1.413173416 0.948563872 1 11.17672205 -6.27126451 24.08416902 0.965238234 1.139563188 0.464090346 0.117184528 346.5909387 849591.8339 0.017417172 0.026823986 5.35E-07 6.27126451 0.174324954 LYNNHEIR ddPTM_HeLa_SAHA_4h_R1 4 LYNNHEIR 8 0 O60506-2;O60506;O60506-4;O60506-3;B7Z645;O60506-5 O60506-2 SYNCRIP Heterogeneous nuclear ribonucleoprotein Q 0 0 ;;; ;;; 148.99 0.00033672 21619800 11673.9 9819.6 10452.7 12024.2 11788.6 10727.3 12224.1 8829.6 8453.8 11509.3 FALSE FALSE TRUE 12901.81436 10137.76148 11877.13952 12256.94578 10885.36001 9813.27369 10848.6121 8603.751617 8394.969317 12005.52225 1.074656654 0.844424863 0.98930636 1.020942323 0.906696085 0.817396652 0.903635167 0.716649508 0.699258986 1 13.55141054 -3.501603838 0.366847905 1.032648618 0.330755035 0 0.124311855 4.76014353 0.292412715 0.020696735 1.654572216 0.000315062 3.501603838 -0.701893583 LYNSEES(ph)RPYTNK ddPTM_HeLa_SAHA_4h_R1 1 LYNSEESRPYTNK 13 1 Q9NYV4-2;J3QSD7;Q9NYV4-3;Q9NYV4 Q9NYV4-2 CDK12 Cyclin-dependent kinase 12 1 0 LYNSEES(0.999)RPYT(0.001)NK 147.7 0.00091181 10981000 1374.3 1183.3 1280.4 1150.6 1356.7 1468.9 1641.8 1556.2 928.56 1196.4 TRUE FALSE FALSE 1518.85518 1221.639696 1454.886244 1172.871527 1252.749939 1343.741456 1457.060343 1516.394657 922.0980754 1247.982659 1.217048305 0.978891564 1.165790433 0.939813962 1.003819989 1.076730872 1.167532523 1.215076705 0.738870904 1 10.28538217 -4.634995415 3.514978621 1.080142757 1.20647699 0.083191442 0.135992584 0.316309188 7.261674272 0.014204507 0.065810377 2.32E-05 4.634995415 0.126334233 LYPPGDEEEAELADSSGLY(ph)HEGSPSPGSPWK ddPTM_HeLa_SAHA_4h_R1 1 LYPPGDEEEAELADSSGLYHEGSPSPGSPWK 31 0 Q8NCF5 Q8NCF5 NFATC2IP NFATC2-interacting protein 1 0 LYPPGDEEEAELADS(0.01)S(0.039)GLY(0.643)HEGS(0.24)PS(0.017)PGS(0.052)PWK 112.26 4.26E-09 8442000 1366.6 1874.7 933.19 1513.1 2535.8 2584.9 2135.2 2341.3 1784.7 1592.1 TRUE FALSE FALSE 1510.345258 1935.44151 1060.360273 1542.388238 2341.507552 2364.651978 1894.941676 2281.412936 1772.280127 1660.743223 0.909439363 1.165406839 0.638485384 0.928733724 1.409915464 1.42385165 1.141020268 1.37373009 1.067160837 1 10.69761331 -5.767292353 24.9973514 0.945243281 1.32931604 0.623863223 0.146577726 65.16491913 278312.9188 0.020199705 0.03732932 1.71E-06 5.767292353 0.38407276 LYPPGDEEEAELADSSGLYHEGSPSPGS(ph)PWK ddPTM_HeLa_SAHA_4h_R1 1 LYPPGDEEEAELADSSGLYHEGSPSPGSPWK 31 0 Q8NCF5 Q8NCF5 NFATC2IP NFATC2-interacting protein 1 0 LYPPGDEEEAELADS(0.002)S(0.009)GLY(0.035)HEGS(0.226)PS(0.323)PGS(0.404)PWK 124.96 6.73E-12 5905500 1794.7 2286.8 1422.8 2245.3 3458.1 4129.2 2786.7 3648.3 2902.7 2526.8 TRUE FALSE FALSE 1983.47478 2360.89382 1616.691774 2288.761028 3193.141125 3777.36893 2473.133182 3554.981769 2882.499874 2635.742714 0.75252974 0.895722412 0.613372377 0.868355252 1.211476791 1.433132646 0.938305992 1.348759023 1.093619593 1 11.36399383 -5.759158446 6.693256566 0.857693821 1.227603623 0.521138659 0.169933872 0.082865715 17.40367117 0.023745324 0.045648514 1.74E-06 5.759158446 0.369909802 LYS(ph)VSYLLK ddPTM_HeLa_SAHA_4h_R1 1 LYSVSYLLK 9 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 1 0 LYS(0.997)VS(0.003)YLLK 131.82 0.0018439 6193500 693.11 716.34 731.09 782.47 1030.6 870.11 954.65 610.36 521.14 612.03 TRUE FALSE FALSE 766.0144899 739.549886 830.7191378 797.6158383 951.6356507 795.9717329 847.2302695 594.747875 517.5133443 638.4176085 1.199864289 1.158410852 1.301215892 1.249363783 1.490616233 1.246788501 1.32707848 0.931596916 0.810618845 1 9.318356634 -8.566506268 0.561033986 0.994304131 1.264062457 0.414049116 0.147792836 0.744936504 0.468934542 0.095217152 0.035186733 2.71E-09 8.566506268 0.269758326 LYSEFLGK ddPTM_HeLa_SAHA_4h_R1 1 LYSEFLGK 8 0 A0A3B3IU61;A0A3B3IRM5;Q5T8R1;E7EWW9;P09488-2;P46439;P09488 A0A3B3IU61 GSTM5;GSTM1 Glutathione S-transferase Mu 1;Glutathione S-transferase Mu 5 0 0 122.13 0.0028699 410160 175.12 161.69 278.87 217.23 184.35 190.1 125.58 65.408 156.35 63.637 FALSE FALSE TRUE 193.5399251 166.9288621 316.8729513 221.4348008 170.2251428 173.9024105 111.4494079 63.73495807 155.2619476 66.3807025 2.915605256 2.514719727 4.77357032 3.335830933 2.564376941 2.619773578 1.678942881 0.960142868 2.338962104 1 6.052691992 -4.497181254 3.224415233 2.35785084 1.001815669 0.198789383 0.954514374 0.44957746 8.802783929 0.1710838 1.128484867 3.18E-05 4.497181254 -1.356035171 LYSILGTTLKDEGK ddPTM_HeLa_SAHA_4h_R1 1 LYSILGTTLKDEGK 14 1 O75083;O75083-3 O75083 WDR1 WD repeat-containing protein 1 0 0 159.58 4.79E-07 1975400 1244 1031.5 1033.1 1209.1 1410 1411.7 1240.1 1039.9 807.85 1262.5 FALSE FALSE TRUE 1374.849628 1064.921277 1173.885488 1232.503879 1301.966105 1291.415218 1100.560684 1013.300864 802.2281061 1316.932554 1.04397877 0.808637674 0.891378594 0.935889902 0.988635372 0.980623658 0.835700113 0.769440212 0.609164155 1 10.36296574 -1.702684758 0.25555336 1.02048936 2.93E-13 0 0.14694947 25.15881861 0.434918567 0.043002282 10.46495023 0.019829659 1.702684758 -1.02048936 LYSILQGDS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 3 LYSILQGDSPTK 12 0 O15042-2;O15042;O15042-3 O15042-2 U2SURP U2 snRNP-associated SURP motif-containing protein 1 0 LYSILQGDS(0.978)PT(0.022)K;LYSILQGDS(0.99)PT(0.01)K;LYSILQGDS(0.957)PT(0.043)K ;; 113.99 0.00072617 0 1884.47 2029.43 2185.34 2165.26 2810.81 2650.53 2380.33 2643.65 2423.08 2191.39 TRUE FALSE FALSE 2082.687201 2095.184864 2483.146754 2207.171738 2595.446345 2424.689933 2112.489004 2576.029261 2406.217589 2285.871547 0.911112964 0.916580315 1.086301965 0.965571202 1.135429656 1.060728865 0.924150356 1.126935266 1.052647771 1 11.15852862 -6.763138997 24.99980581 0.953744357 1.044692365 0.209787009 0.072729843 42.76876847 629093.1229 0.010677612 0.014448768 1.73E-07 6.763138997 0.090948008 LYSILQGDSPT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 LYSILQGDSPTK 12 0 O15042-2;O15042;O15042-3 O15042-2 U2SURP U2 snRNP-associated SURP motif-containing protein 1 0 LYSILQGDS(0.349)PT(0.651)K 94.023 0.0084069 0 941.66 760.93 747.61 659.39 1236.9 1167.4 895.73 1037.3 849.51 920.81 TRUE FALSE FALSE 1040.708119 785.5846313 849.4903974 672.1534469 1142.128989 1067.930952 794.940103 1010.767368 843.5981907 960.5106254 1.083494645 0.817882291 0.884415409 0.699787622 1.189085221 1.111836688 0.827622394 1.052322943 0.878280956 1 9.907657763 -7.299692936 24.94606005 1.039428027 0.940830881 0 0.148991811 981.0536713 639766.1162 0.024263597 0.027746806 5.02E-08 7.299692936 -0.098597147 LYSVSYLLK ddPTM_HeLa_SAHA_4h_R1 2 LYSVSYLLK 9 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 123.72 0.0037468 1100920 123.83 533.1 2173.4 1097.4 724.58 229.06 1048.35 122.02 0 0 FALSE FALSE TRUE 136.8550076 550.3727898 2469.579633 1118.641764 669.0628369 209.5427993 930.3868989 118.8989051 0 0 0 LYTDFDEIRQEIENETER ddPTM_HeLa_SAHA_4h_R1 1 LYTDFDEIRQEIENETER 18 1 O00429-4;O00429-5;O00429-3;O00429-9;O00429-2;O00429;O00429-8;O00429-6;B4DPZ9;F8VUJ9;B4DDQ3;F8VZ52 O00429-4 DNM1L Dynamin-1-like protein 0 0 110.57 0.0017678 2854100 274.64 326.89 323.95 364.85 507.71 287.65 233.86 410.87 310.69 365.7 FALSE FALSE TRUE 303.5278953 337.4814505 368.0962189 371.9121993 468.8093695 263.1406017 207.5454573 400.3605403 308.527883 381.4671167 0.79568561 0.884693426 0.964948754 0.974952186 1.228964042 0.689812018 0.544071686 1.049528315 0.808792867 1 8.575414889 -9.621121493 1.447981867 0.999700864 0.875876332 0 0.189236517 1.089391498 4.117889912 0.128862102 0.029813975 2.39E-10 9.621121493 -0.123824533 LYTLVLTDPDAPSR ddPTM_HeLa_SAHA_4h_R1 3 LYTLVLTDPDAPSR 14 0 P30086 P30086 PEBP1 Phosphatidylethanolamine-binding protein 1;Hippocampal cholinergic neurostimulating peptide 0 0 ;; ;; 234.39 2.39E-55 37442460 1226.89 1524.55 1123 1352.05 1468.62 1349.816 1452.71 1115.22 1328.64 1132.34 FALSE FALSE TRUE 1355.939919 1573.94642 1276.036592 1378.220883 1356.094653 1234.804083 1289.247247 1086.694287 1319.393886 1181.160719 1.147972412 1.33254213 1.08032427 1.166836029 1.148103413 1.045415804 1.09150874 0.920022373 1.117031632 1 10.20598957 -3.645580038 1.446008318 1.10271748 0.32211992 0.305859657 0.086995993 7.530905182 3.9474255 0.014810078 13.20519141 0.000226162 3.645580038 -0.78059756 LYTSAPNT(ph)SQGK ddPTM_HeLa_SAHA_4h_R1 1 LYTSAPNTSQGK 12 0 Q5QJE6;J3KP30 Q5QJE6 DNTTIP2 Deoxynucleotidyltransferase terminal-interacting protein 2 1 0 LYT(0.002)S(0.376)APNT(0.501)S(0.122)QGK 102.97 0.0038914 0 760.07 1182.1 647.17 1013.4 935.49 1050.5 884.06 1117.9 1645.7 949.22 TRUE FALSE FALSE 840.0176499 1220.400816 735.3629573 1033.015822 863.8129583 960.99149 784.5832421 1089.305737 1634.24744 990.1455196 0.848377974 1.232546925 0.7426817 1.043296972 0.872410107 0.970555813 0.792391852 1.100147115 1.650512382 1 9.95149676 LYVIYK ddPTM_HeLa_SAHA_4h_R1 2 LYVIYK 6 0 H0YMA0;P09661;H0YKK0 H0YMA0 SNRPA1 U2 small nuclear ribonucleoprotein A 0 0 ; ; 118.11 0.0062368 3062400 4510.4 4604.4 4511 5817.7 5952.1 5192 5949.3 3074.3 3923.5 4160.1 FALSE FALSE TRUE 4984.824566 4753.585581 5125.735588 5930.309996 5496.051384 4749.612391 5279.869106 2995.663858 3896.196044 4339.46227 1.148719416 1.095431942 1.181191417 1.366600198 1.266528211 1.094516347 1.216710453 0.690330661 0.897852269 1 12.08330057 -2.924741499 8.520556628 1.103622746 1.128106392 0 0.184546551 0 0 0.022485967 0 0.00118921 2.924741499 0.024483646 MAAADS(ph)VQQR ddPTM_HeLa_SAHA_4h_R1 1 MAAADSVQQR 10 0 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 MAAADS(1)VQQR 91.123 0.017328 8412900 1227.8 1157.6 1085.9 1143.4 1598.9 1699.3 1434.5 1860.7 1431.3 1272.7 TRUE FALSE FALSE 1356.945637 1195.107 1233.880797 1165.53216 1476.392627 1554.51008 1273.086285 1813.105988 1421.339467 1327.572325 1.022125583 0.90021988 0.929426422 0.877942496 1.112099581 1.170941914 0.958958137 1.365730479 1.070630533 1 10.37457475 -1.382607321 1.055253735 0.997030859 199.9922353 0.562495296 0.092576065 528.3087467 1.304270929 0.013483756 253525.0776 0.041437417 1.382607321 198.9952045 MAAAGGTVSGPS(ph)SACKPGR ddPTM_HeLa_SAHA_4h_R1 2 MAAAGGTVSGPSSACKPGR 19 1 A0A087X2H1;Q9ULT8;A0A087WVU6;G3V4V5 A0A087X2H1 HECTD1 E3 ubiquitin-protein ligase HECTD1 1 0 MAAAGGTVS(0.005)GPS(0.498)S(0.498)ACKPGR;MAAAGGT(0.001)VS(0.05)GPS(0.539)S(0.41)ACKPGR ; 102.24 0.00076408 15346100 2370.1 2184.3 2209.59 2210.8 2525.3 2963.3 2218.21 2407.07 2146.6 2345.3 TRUE FALSE FALSE 2619.397992 2255.072753 2510.701418 2253.593231 2331.81206 2710.810169 1968.611173 2345.500635 2131.661636 2446.417361 1.070707736 0.921785787 1.026276815 0.921181016 0.953153823 1.108073468 0.804691466 0.958749179 0.871340136 1 11.25645483 -7.260706849 24.99454378 1.033389764 0.957504279 0 0.09062878 82.48695043 2814552.158 0.012333366 0.014618071 5.49E-08 7.260706849 -0.075885485 MAADDVEEYMIERPEPEFQDLNEK ddPTM_HeLa_SAHA_4h_R1 1 MAADDVEEYMIERPEPEFQDLNEK 24 1 H7C5M9;C9JSA3;C9JND6;C9J363;C9J6F3;C9J5C3;Q9BUL8 H7C5M9 PDCD10 Programmed cell death protein 10 0 0 76.492 0.00062321 3760900 467.25 335.69 360.65 296.42 480.1 488.65 574.37 447.58 308.34 294.88 FALSE FALSE TRUE 516.3974988 346.5665763 409.7975038 302.1576377 443.3148417 447.0142709 509.7403759 436.1315517 306.1942368 307.5937199 1.678829786 1.12670238 1.33226876 0.98232707 1.441235022 1.453262021 1.657187202 1.417881847 0.995450222 1 8.264882238 -9.609477889 1.416446382 1.000250761 1.418479038 0.361002424 0.202612726 0.400263152 1.44283424 0.157680675 0.036384448 2.46E-10 9.609477889 0.418228276 MACEDKFTK(ac)MGAHGK ddPTM_HeLa_SAHA_4h_R1 1 MACEDKFTKMGAHGK 15 2 H7C3Q1 H7C3Q1 AOX1 0 1 MACEDK(0.001)FTK(0.999)MGAHGK 45.115 0.021063 5231600 3145 3346.7 3942 4116.7 3915.4 2917.7 4315.1 1886.6 3116.9 3887 FALSE TRUE FALSE 3475.80553 3455.135276 4479.195231 4196.384681 3615.402898 2669.095545 3829.553591 1838.343504 3095.209239 4054.587593 0.857252544 0.852154553 1.104722769 1.034972013 0.891682031 0.658290266 0.944498917 0.453398394 0.76338448 1 11.98533946 -3.871306453 0.926822406 0.939492781 6.08E-16 0.479295681 0.131779452 2.366669038 0.94036027 0.018832279 2.653817652 0.000134491 3.871306453 -0.939492781 MAEAPAS(ph)PAPLSPLEVELDPEFEPQSRPR ddPTM_HeLa_SAHA_4h_R1 1 MAEAPASPAPLSPLEVELDPEFEPQSRPR 29 1 O43524;A0A2Z4LIS9 O43524 FOXO3 Forkhead box protein O3 1 0 MAEAPAS(0.804)PAPLS(0.196)PLEVELDPEFEPQSRPR 63.115 0.00044725 1901800 0 208.36 318.14 320.08 266.78 352.3 204.76 258.4 318.54 295.23 TRUE FALSE FALSE 0 215.1110007 361.4944624 326.2756112 246.339374 322.282058 181.7198659 251.7905022 316.3232542 307.9588101 0 0.698505753 1.173840301 1.059478088 0.799910137 1.046510272 0.590078478 0.817610972 1.027160918 1 8.266593591 -6.997229848 24.87622287 0.518381732 0.909608694 0.053775185 0.315142852 108.4261596 973662.2955 0.064219271 0.08413506 1.01E-07 6.997229848 0.391226963 MAEDELFNRY(ph)ERAIY(ph)AALS(ph)GNLK ddPTM_HeLa_SAHA_4h_R1 1 MAEDELFNRYERAIYAALSGNLK 23 2 P57740;P57740-3;P57740-2 P57740 NUP107 Nuclear pore complex protein Nup107 3 0 MAEDELFNRY(1)ERAIY(1)AALS(1)GNLK 42.711 0.0086046 0 259.9 246.12 241.87 0 281.5 300.8 203.89 304.47 163.66 278.72 TRUE FALSE FALSE 287.2374745 254.0944495 274.830784 0 259.9315308 275.1701477 180.9477606 296.6820983 162.5210767 290.7369832 0.987963317 0.873966726 0.945290073 0 0.894043571 0.946457326 0.622376137 1.020448431 0.558996915 1 8.183570791 -6.489139291 24.97792319 0.981535796 0.692907216 0.022635263 0.297928554 715.5462061 529732.0253 0.039240324 0.059917728 3.24E-07 6.489139291 -0.288628581 MAEESSSSSSSSS(ph)PTAATSQQQQLK ddPTM_HeLa_SAHA_4h_R1 1 MAEESSSSSSSSSPTAATSQQQQLK 25 0 A0A669KAU9;A0A669KAX4;K4DI93;Q13620-1;Q13620 A0A669KAU9 CUL4B Cullin-4B 1 0 MAEESSSSSSS(0.006)S(0.006)S(0.817)PT(0.17)AATSQQQQLK 166.85 1.46E-25 0 348.36 174.92 294.78 322.67 252.48 493.57 483.3 426.33 462.58 252.8 TRUE FALSE FALSE 385.0021031 180.5875228 334.9510833 328.9157444 233.1350369 451.5150593 428.917812 415.4250959 459.3608681 263.6994452 1.460003463 0.684823294 1.270200182 1.247312994 0.884093771 1.712233634 1.626540442 1.575373417 1.741986479 1 8.042750726 -5.24462399 24.72338799 1.168109411 1.636898346 0.354959453 0.279873542 514.3377529 756220.5071 0.033937733 0.086266279 5.69E-06 5.24462399 0.468788934 MAFYS(ph)YNSVLAIAR ddPTM_HeLa_SAHA_4h_R1 1 MAFYSYNSVLAIAR 14 0 E9PIC7;E9PN52;E5RK40;A8K1M9;E9PMA4;Q2VYF4 E9PIC7 LETM2 "LETM1 domain-containing protein LETM2, mitochondrial" 1 0 MAFY(0.396)S(0.553)Y(0.051)NSVLAIAR 83.862 0.013946 1618700 0 0 0 72.448 79.506 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 73.8503358 73.41426746 0 0 0 0 0 0 MAGAIIENMS(ph)T(ph)K ddPTM_HeLa_SAHA_4h_R1 1 MAGAIIENMSTK 12 0 E9PM23;Q7Z430;Q5T9L3-3;Q5T9L3;Q5T9L3-2 E9PM23 WLS Protein wntless homolog 2 0 MAGAIIENMS(1)T(1)K 75.819 0.01909 1973400 0 56.812 64.094 0 84.162 63.342 0 0 0 0 TRUE FALSE FALSE 0 58.65274608 72.82839653 0 77.71352574 57.94490525 0 0 0 0 0 MAGGGSDLS(ph)TRLFTEDQDVDEGLVYDTVFK ddPTM_HeLa_SAHA_4h_R1 1 MAGGGSDLSTRLFTEDQDVDEGLVYDTVFK 30 1 H7BYP4;U5Y3L1 H7BYP4 SP140L 1 0 MAGGGS(0.305)DLS(0.324)T(0.324)RLFT(0.048)EDQDVDEGLVYDTVFK 45.07 0.0078469 0 757.12 712.14 672.38 923.79 964.59 1186.8 907.32 798.16 1138 825.14 TRUE FALSE FALSE 836.7573554 735.2138033 764.0084448 941.6712913 890.6833226 1085.677963 805.2259657 777.7442229 1130.080565 860.7158235 0.972164485 0.854188785 0.88764308 1.094055977 1.034816949 1.261366334 0.935530571 0.903601632 1.312954328 1 9.749393182 -6.244728621 24.85581775 0.967696477 1.051101568 0 0.148658482 1240.254195 1844772.078 0.015624746 0.025862807 5.69E-07 6.244728621 0.08340509 MAGNEALS(ph)PTSPFR ddPTM_HeLa_SAHA_4h_R1 1 MAGNEALSPTSPFR 14 0 Q86WR7-2;Q86WR7;D3DRR9 Q86WR7-2 PROSER2;C10orf47 Proline and serine-rich protein 2 1 0 MAGNEALS(0.539)PT(0.154)S(0.307)PFR 121.45 0.00086582 6478600 1027 1062.6 1188.5 1101.3 1504.1 1217.4 1474 1243.1 1063.8 1316.8 TRUE FALSE FALSE 1135.024572 1097.028937 1350.462591 1122.617254 1388.856183 1113.670671 1308.141641 1211.303302 1056.396929 1373.573692 0.82632958 0.798667697 0.983174473 0.817296706 1.01112608 0.810783344 0.952363639 0.881862625 0.76908646 1 10.4237186 -9.49894125 1.273135719 0.999380109 0.880537548 0 0.100904476 0.451013631 1.319037598 0.045787093 0.011358121 3.17E-10 9.49894125 -0.118842561 MAGNEALSPT(ph)SPFR ddPTM_HeLa_SAHA_4h_R1 1 MAGNEALSPTSPFR 14 0 Q86WR7-2;Q86WR7;D3DRR9 Q86WR7-2 PROSER2;C10orf47 Proline and serine-rich protein 2 1 0 MAGNEALS(0.343)PT(0.517)S(0.14)PFR 151.38 0.00011591 6871200 921.17 1122.2 981.29 832.07 1058.6 1105.7 1275.4 1214.8 1026.2 1365.9 TRUE FALSE FALSE 1018.062887 1158.560016 1115.015091 848.175918 977.4902967 1011.48814 1131.888635 1183.727175 1019.058591 1424.790634 0.714535078 0.813144043 0.78258171 0.595298634 0.686058901 0.709920542 0.794424534 0.830807802 0.71523392 1 10.47653422 -9.306675584 0.670040552 1.033682674 0.733435481 0 0.11035609 0.478115063 0.316799852 0.085263751 0.015093773 4.94E-10 9.306675584 -0.300247193 MAGNEALSPTS(ph)PFR ddPTM_HeLa_SAHA_4h_R1 2 MAGNEALSPTSPFR 14 0 Q86WR7-2;Q86WR7;D3DRR9 Q86WR7-2 PROSER2;C10orf47 Proline and serine-rich protein 2 1 0 MAGNEALS(0.037)PT(0.216)S(0.747)PFR;MAGNEALS(0.044)PT(0.086)S(0.87)PFR ; 101.75 0.0041436 13472600 2091.9 2764.8 2373.31 2173 2430.7 2859.6 2619.4 2267.6 2433 2667.3 TRUE FALSE FALSE 2311.93564 2854.381334 2696.732327 2215.061557 2244.460291 2615.945992 2324.658218 2209.598075 2416.068555 2782.300356 0.830943947 1.025906972 0.969245582 0.796125965 0.806692306 0.940209775 0.83551663 0.794162309 0.868370861 1 11.44206246 -6.263192862 24.98852949 0.931098993 0.83891887 0.377135653 0.066559204 178.9572878 2550290.438 0.012262966 0.019362372 5.46E-07 6.263192862 -0.092180122 MAKPEEVLVVENDQGEVVR ddPTM_HeLa_SAHA_4h_R1 1 MAKPEEVLVVENDQGEVVR 19 1 O14980 O14980 XPO1 Exportin-1 0 0 67.928 0.018567 5844100 1374.1 1325.5 1250.8 1350.7 1347.9 1378.9 1506.5 1431.8 1686.9 1654.3 FALSE FALSE TRUE 1518.634143 1368.44707 1421.25251 1376.844752 1244.624193 1261.409963 1336.984655 1395.176629 1675.160726 1725.624969 0.880048776 0.793015339 0.823616102 0.797881797 0.721259958 0.730987315 0.774782864 0.808505124 0.970755961 1 10.75290324 -7.787168901 0.500705848 0.997396142 0.754533568 0.8845097 0.030166516 0.180246791 0.110931862 0.016473629 0.012228904 1.63E-08 7.787168901 -0.242862573 MALPPQEDAT(ph)ASPPRQK ddPTM_HeLa_SAHA_4h_R1 1 MALPPQEDATASPPRQK 17 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 MALPPQEDAT(0.663)AS(0.337)PPRQK 63.69 0.017377 28883000 3081.5 1908.6 2599.5 2411 2541 2560.4 2857.2 3128.9 1694.1 2254.8 TRUE FALSE FALSE 3405.626308 1970.439892 2953.746322 2457.668391 2346.309129 2342.239516 2535.700336 3048.867269 1682.31062 2352.015463 1.44796085 0.837766555 1.255836269 1.044920168 0.997573854 0.995843587 1.078096797 1.296278582 0.715263418 1 11.19968183 -7.261076112 24.9998522 1.211537062 1.072739167 0 0.223159944 60.85340535 4187890.769 0.03342974 0.039624544 5.48E-08 7.261076112 -0.138797896 MALPPQEDATAS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 12 MALPPQEDATASPPR 15 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 MALPPQEDAT(0.172)AS(0.828)PPR;MALPPQEDAT(0.172)AS(0.828)PPR;MALPPQEDAT(0.399)AS(0.601)PPR;MALPPQEDAT(0.062)AS(0.938)PPR;MALPPQEDAT(0.069)AS(0.931)PPR;MALPPQEDAT(0.069)AS(0.931)PPR;MALPPQEDAT(0.396)AS(0.604)PPR;MALPPQEDATAS(1)PPR;MALPPQEDATAS(1)PPR;MALPPQEDATAS(1)PPR;MALPPQEDAT(0.04)AS(0.96)PPR;MALPPQEDATAS(1)PPR ;;;;;;;;;;; 252.01 8.59E-44 492929300 36481.34 45603.95 32995.02 38862.06 44165.74 53200.1 44644.78 36795.88 55615.12 41884.89 TRUE FALSE FALSE 40318.61472 47081.5479 37491.40949 39614.29137 40781.77054 48667.15218 39621.23186 35854.69467 55228.08985 43690.75259 0.922818041 1.077608993 0.858108576 0.906697391 0.933418816 1.113900524 0.906856246 0.82064722 1.264068174 1 15.41504034 -13.52287874 0.007891452 2.023303932 3.02E-09 0.098547069 0.121945441 43380.10056 27.68850346 3967.912641 3173.180857 3.00E-14 13.52287874 -2.023303929 MALPPQEDATAS(ph)PPRQK ddPTM_HeLa_SAHA_4h_R1 6 MALPPQEDATASPPRQK 17 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 MALPPQEDAT(0.094)AS(0.906)PPRQK;MALPPQEDAT(0.001)AS(0.999)PPRQK;MALPPQEDAT(0.041)AS(0.959)PPRQK;MALPPQEDAT(0.001)AS(0.999)PPRQK;MALPPQEDAT(0.069)AS(0.931)PPRQK;MALPPQEDAT(0.001)AS(0.999)PPRQK ;;;;; 182.09 6.11E-09 213536900 22802.7 17918 22587.4 21329.8 21129.5 22304.4 23806.7 23934.4 15307.95 20209.1 TRUE FALSE FALSE 25201.19261 18498.55496 25665.49324 21742.66912 19510.56227 20403.93964 21127.90746 23322.1927 15201.42073 21080.4132 1.195479062 0.877523357 1.217504277 1.031415699 0.925530353 0.967909853 1.002253004 1.106344192 0.721115881 1 14.36361553 -6.007307977 24.79834387 1.085438029 0.995826314 0 0.151916317 495.823062 1682499.175 0.015931654 0.028059799 9.83E-07 6.007307977 -0.089611716 MALVS(ph)ADSR ddPTM_HeLa_SAHA_4h_R1 2 MALVSADSR 9 0 Q96ES7;H3BPL5 Q96ES7 CCDC101 SAGA-associated factor 29 homolog 1 0 MALVS(1)ADSR;MALVS(1)ADSR ; 85.265 0.022242 114755000 5953.6 5478.6 5503.8 6222.4 6310 6887.5 6929.2 6697.5 6259.8 5685 TRUE FALSE FALSE 6579.826964 5656.110235 6253.829201 6342.84355 5826.529163 6300.646252 6149.508179 6526.187648 6216.237542 5930.108172 1.109562722 0.953795457 1.054589397 1.069599975 0.982533369 1.062484203 1.03699764 1.100517471 1.048250278 1 12.53384271 MANS(ph)SPVLSK ddPTM_HeLa_SAHA_4h_R1 4 MANSSPVLSK 10 0 Q9NXE8 Q9NXE8 CWC25 Pre-mRNA-splicing factor CWC25 homolog 1 0 MANS(0.5)S(0.5)PVLS(0.001)K;MANS(0.945)S(0.055)PVLS(0.001)K;MANS(0.483)S(0.483)PVLS(0.035)K;MANS(0.5)S(0.5)PVLS(0.001)K ;;; 155.47 0.00035732 92564000 14625.1 15100.4 12155.1 13646.8 15558.4 15497.2 15744 14197.1 16221.5 13116.4 TRUE FALSE FALSE 16163.43512 15589.66287 13811.53373 13910.95355 14366.31875 14176.75138 13972.44368 13833.95874 16108.61326 13681.91219 1.181372522 1.139435968 1.009473934 1.016740449 1.050022727 1.036167399 1.021234714 1.01111296 1.177365637 1 13.73998226 -6.743640958 24.99108705 1.092075336 1.025382803 0.423051238 0.052193275 331.5731564 465566.565 0.011165157 0.015770411 1.80E-07 6.743640958 -0.066692533 MAPALS(ph)GANLTSPR ddPTM_HeLa_SAHA_4h_R1 1 MAPALSGANLTSPR 14 0 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 MAPALS(0.924)GANLT(0.038)S(0.038)PR 80.905 0.01639 47965000 2076.6 2212.2 1859.7 2439.1 2708.7 3048.3 2347.5 2238.2 2935.3 2747.3 TRUE FALSE FALSE 2295.026316 2283.876731 2113.130231 2486.312307 2501.159991 2788.567691 2083.353122 2180.950085 2914.873008 2865.749548 0.800846786 0.796956152 0.737374357 0.867595813 0.872776895 0.97306748 0.726983669 0.761040017 1.017141575 1 11.48469682 -9.202730529 0.870157544 1.003791926 0.819045904 0.5379427 0.07034067 0.448265279 0.592181408 0.054123324 0.014068504 6.27E-10 9.202730529 -0.184746022 MAPALSGANLTS(ph)PR ddPTM_HeLa_SAHA_4h_R1 5 MAPALSGANLTSPR 14 0 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 MAPALS(0.003)GANLT(0.325)S(0.672)PR;MAPALS(0.001)GANLT(0.406)S(0.593)PR;MAPALS(0.001)GANLT(0.136)S(0.864)PR;MAPALSGANLT(0.277)S(0.723)PR;MAPALS(0.001)GANLT(0.265)S(0.735)PR ;;;; 115.83 0.0017028 144330000 8724.64 9409.7 7441.67 8815.2 10038.03 11012 8962.6 8432.54 9911.2 9742.7 TRUE FALSE FALSE 9642.337665 9714.580454 8455.782033 8985.830943 9268.91831 10073.71565 7954.10466 8216.847837 9842.227152 10162.75548 0.948791663 0.955900245 0.832036356 0.884192379 0.912047754 0.991238614 0.78267205 0.808525587 0.96846049 1 13.311004 -1 0.125027268 1.039879468 0.322277469 0.456501003 0.054654572 53.00619728 0.451414929 0.214629987 6.69055525 0.1 1 -0.717602 MAPPVDDLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 7 MAPPVDDLSPK 11 0 Q92576-2;Q92576;E7ER40;E7EVH3 Q92576-2 PHF3 PHD finger protein 3 1 0 MAPPVDDLS(1)PK;MAPPVDDLS(1)PK;MAPPVDDLS(1)PK;MAPPVDDLS(1)PK;MAPPVDDLS(1)PK;MAPPVDDLS(1)PK;MAPPVDDLS(1)PK ;;;;;; 160.22 0.00021091 239139000 27629.3 22532.7 19398.6 24733.6 23544.5 28561.3 24951.7 28396 26886.2 24995.1 TRUE FALSE FALSE 30535.47654 23262.77426 22042.14018 25212.35459 21740.5255 26127.71656 22144.06905 27669.67144 26699.09675 26072.76108 1.171163899 0.892225192 0.845408743 0.966999794 0.833840552 1.002107773 0.849318144 1.061248226 1.024022606 1 14.67025575 -7.24666462 24.82878626 1.080827398 0.917350774 0.392023316 0.081046372 504.7982227 848307.0523 0.014492599 0.017709438 5.67E-08 7.24666462 -0.163476624 MAPT(ph)PIPTR ddPTM_HeLa_SAHA_4h_R1 1 MAPTPIPTR 9 0 Q16643;Q16643-2;Q16643-3;D6R9Q9 Q16643 DBN1 Drebrin 1 0 MAPT(1)PIPTR 103.21 0.014891 23579000 1742 1886.7 1832.9 1872.7 2014.6 2322.5 2029.6 1459.2 1823.4 1766.2 TRUE FALSE FALSE 1925.231553 1947.830318 2082.678067 1908.948816 1860.241783 2124.609934 1801.224066 1421.875777 1810.710811 1842.349526 1.044987135 1.05725341 1.130446768 1.036149107 1.009711652 1.153206764 0.977677711 0.771773085 0.982826975 1 10.84733108 -4.311364472 3.630498149 1.039950648 0.754482246 0.714876985 0.0526932 0.097551747 2.250089233 0.007188081 0.06837831 4.88E-05 4.311364472 -0.285468402 MAPTPIPT(ph)RSPSDSSTASTPVAEQIER ddPTM_HeLa_SAHA_4h_R1 5 MAPTPIPTRSPSDSSTASTPVAEQIER 27 1 Q16643;Q16643-2;Q16643-3;D6R9Q9 Q16643 DBN1 Drebrin 1 0 MAPT(0.007)PIPT(0.95)RS(0.042)PSDSSTASTPVAEQIER;MAPT(0.008)PIPT(0.894)RS(0.096)PS(0.001)DSSTASTPVAEQIER;MAPT(0.024)PIPT(0.42)RS(0.42)PS(0.111)DS(0.01)S(0.005)T(0.004)AS(0.002)T(0.003)PVAEQIER;MAPT(0.019)PIPT(0.651)RS(0.288)PS(0.022)DS(0.004)S(0.009)T(0.005)AS(0.001)T(0.001)PVAEQIER;MAPT(0.008)PIPT(0.946)RS(0.045)PSDSSTASTPVAEQIER ;;;; 137.9 1.29E-09 813503300 4546.22 4386.59 4964.22 4949.73 4874.64 5218.66 5662.12 5427.94 5372.37 4686.72 TRUE FALSE FALSE 5024.412278 4528.718394 5640.718049 5045.539182 4501.146136 4774.000809 5025.003356 5289.101154 5334.98324 4888.787435 1.027742021 0.926347986 1.153807181 1.032063523 0.920708089 0.97652043 1.027862926 1.081884051 1.091269218 1 12.25526096 -4.321474845 3.701187543 1.009845179 1.0856095 0.073187907 0.066597522 0.396920881 9.425846823 0.00816221 0.072692812 4.77E-05 4.321474845 0.075764321 MAPTPIPTRS(ph)PSDSSTASTPVAEQIER ddPTM_HeLa_SAHA_4h_R1 4 MAPTPIPTRSPSDSSTASTPVAEQIER 27 1 Q16643;Q16643-2;Q16643-3;D6R9Q9 Q16643 DBN1 Drebrin 1 0 MAPT(0.006)PIPT(0.378)RS(0.607)PS(0.009)DSSTASTPVAEQIER;MAPT(0.001)PIPT(0.128)RS(0.736)PS(0.083)DS(0.03)S(0.011)T(0.004)AS(0.001)T(0.006)PVAEQIER;MAPT(0.001)PIPT(0.174)RS(0.737)PS(0.028)DS(0.033)S(0.012)T(0.012)AST(0.002)PVAEQIER;MAPT(0.005)PIPT(0.184)RS(0.761)PS(0.018)DS(0.02)S(0.009)T(0.004)ASTPVAEQIER ;;; 118.54 3.69E-08 650826700 3404.36 3273.65 3087.84 3073.41 3503.8 3970.17 3725.94 3110.99 3533 3328.76 TRUE FALSE FALSE 3762.446205 3379.718408 3508.634754 3132.900295 3235.339601 3631.88918 3306.687425 3031.41538 3508.413565 3472.279134 1.083566747 0.973342948 1.010470247 0.902260496 0.931762533 1.04596694 0.952310369 0.87303332 1.010406546 1 11.76166721 -6.780598728 1.9405572 1.038379351 0.949111144 0.320421609 0.05076739 0.272092756 2.096669828 0.009311235 0.013278809 1.66E-07 6.780598728 -0.089268206 MAPTPIPTRSPS(ph)DSSTASTPVAEQIER ddPTM_HeLa_SAHA_4h_R1 1 MAPTPIPTRSPSDSSTASTPVAEQIER 27 1 Q16643;Q16643-2;Q16643-3;D6R9Q9 Q16643 DBN1 Drebrin 1 0 MAPT(0.007)PIPT(0.059)RS(0.256)PS(0.436)DS(0.16)S(0.059)T(0.022)AS(0.001)T(0.001)PVAEQIER 103.74 6.57E-07 116060000 1226.6 1031.1 992.07 973.4 1149.7 1304 1324.7 1384.8 1241.8 991.33 TRUE FALSE FALSE 1355.619416 1064.508317 1127.264133 992.2415646 1061.610234 1192.891864 1175.64127 1349.378821 1233.158213 1034.071088 1.310953794 1.029434368 1.090122475 0.959548697 1.026631773 1.15358787 1.136905657 1.304918818 1.192527503 1 10.01411965 -9.800732083 1.815053874 0.999632484 1.151957761 0 0.124514073 0.538032149 3.209326321 0.095062471 0.019846101 1.58E-10 9.800732083 0.152325278 MAPYQGPDAVPGALDYK ddPTM_HeLa_SAHA_4h_R1 2 MAPYQGPDAVPGALDYK 17 0 O43707;O43707-2;F5GXS2;O43707-3;H7C144 O43707 ACTN4 Alpha-actinin-4 0 0 ; ; 165.34 1.00E-08 765710 687.49 945.41 765.82 940.2 704.23 864.25 768.91 820.42 773.95 604 FALSE FALSE TRUE 759.8033525 976.0419043 870.1819614 958.3989306 650.2720495 790.6110379 682.3902231 799.4348444 768.5640189 630.0413959 1.205957827 1.549171071 1.381150456 1.521168191 1.032110039 1.254855702 1.083087917 1.268860823 1.219862733 1 9.299302812 -8.353293589 1.119572003 1.034854372 1.286850768 0.118917348 0.168246161 0.398576268 1.024009315 0.049947694 0.033497908 4.43E-09 8.353293589 0.251996396 MAS(ph)NIFGTPEENQASWAK ddPTM_HeLa_SAHA_4h_R1 2 MASNIFGTPEENQASWAK 18 0 Q9UK76;J3KT51;Q9UK76-3;Q9UK76-2;J3KSH8 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 1 0 MAS(0.947)NIFGT(0.053)PEENQASWAK;MAS(0.998)NIFGT(0.002)PEENQASWAK ; 187.58 9.79E-13 42809000 6220.2 6839.3 6537.7 6749.1 7893.7 8214 8408 7795.8 6588.8 6758.9 TRUE FALSE FALSE 6874.469175 7060.897807 7428.623709 6879.73859 7288.886411 7514.120989 7461.909711 7596.394724 6542.948004 7050.309256 0.975059239 1.001501856 1.053659271 0.975806641 1.033839247 1.065786013 1.058380482 1.077455534 0.928037022 1 12.78347083 -5.361759942 0.648549184 0.989398189 1.087405948 0.594923081 0.029355936 0.542109973 0.325019421 0.004394169 0.030346389 4.35E-06 5.361759942 0.098007759 MASNIFGT(ph)PEENQASWAK ddPTM_HeLa_SAHA_4h_R1 3 MASNIFGTPEENQASWAK 18 0 Q9UK76;J3KT51;Q9UK76-3;Q9UK76-2;J3KSH8 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 1 0 MAS(0.005)NIFGT(0.995)PEENQASWAK;MAS(0.028)NIFGT(0.971)PEENQAS(0.001)WAK;MAS(0.148)NIFGT(0.852)PEENQASWAK ;; 123.14 0.0049411 8139900 1894.17 1544.12 1656.9 1654.73 2089.99 2096.56 1675.94 1852.06 1668.95 1926.2 TRUE FALSE FALSE 2093.407491 1594.150501 1882.693703 1686.759692 1929.855418 1917.921293 1487.35882 1804.686987 1657.335641 2009.247909 1.041886112 0.793406575 0.937014141 0.839498045 0.960486463 0.954546865 0.740256498 0.898190303 0.824853735 1 10.97243986 -7.277532677 24.86396497 1.019779557 0.876999948 0.01557866 0.09110614 441.2321441 681697.2156 0.011109472 0.012726058 5.28E-08 7.277532677 -0.142779609 MAT(ph)PGAVQES(ph)CSPHPLT(ph)VDTQPEQAPQK ddPTM_HeLa_SAHA_4h_R1 1 MATPGAVQESCSPHPLTVDTQPEQAPQK 28 0 F8WBD4;Q9Y2L8 F8WBD4 ZKSCAN5 Zinc finger protein with KRAB and SCAN domains 5 3 0 MAT(0.999)PGAVQES(0.885)CS(0.482)PHPLT(0.599)VDT(0.035)QPEQAPQK 60.735 0.0026554 0 345.81 462.23 316.56 415.05 522.64 403.42 293.27 460.98 459.86 378.56 TRUE FALSE FALSE 382.1838824 477.2065553 359.6991482 423.0838929 482.5954361 369.0463464 260.2704878 449.1887991 456.6597968 394.8815742 0.967844304 1.208480178 0.910903855 1.071419688 1.222127006 0.934574745 0.659110236 1.137527878 1.156447468 1 8.625276241 -5.00539812 24.99985601 1.018657319 0.872949929 0.129294116 0.151483463 323.9036316 1500096.242 0.018777309 0.054060035 9.88E-06 5.00539812 -0.145707389 MATEVAADALGEEWK ddPTM_HeLa_SAHA_4h_R1 2 MATEVAADALGEEWK 15 0 P62753;A2A3R7;A2A3R5 P62753 RPS6 40S ribosomal protein S6 0 0 ; ; 225.63 8.57E-24 10025000 1410.93 1349.99 1270.36 1475.53 1150.46 1504.99 1382.44 1443.54 1500.75 1408.39 FALSE FALSE TRUE 1559.338091 1393.730562 1443.478045 1504.091017 1062.312003 1376.756385 1226.884213 1406.616337 1490.306159 1469.112585 1.06141497 0.948688736 0.982551004 1.023809225 0.723097749 0.937134702 0.835119258 0.957459865 1.014426106 1 10.52072925 -5.814184186 24.99964668 1.018788802 0.866477445 0.521803883 0.065766863 50.75709406 24057.33404 0.009299977 0.016857654 1.53E-06 5.814184186 -0.152311357 MATFPGPGSS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 2 MATFPGPGSSPAR 13 0 O43187 O43187 IRAK2 Interleukin-1 receptor-associated kinase-like 2 1 0 MATFPGPGS(0.315)S(0.685)PAR;MATFPGPGS(0.159)S(0.841)PAR ; 101.38 0.0048535 14089000 2602.8 2298.5 2519.2 2961.8 3172.2 3431.2 3834.8 3450.1 2270.1 2133.73 TRUE FALSE FALSE 2876.574446 2372.972908 2862.503457 3019.129922 2929.146721 3138.842457 3403.298211 3361.851438 2254.302189 2225.725543 1.292421007 1.066157018 1.286099028 1.356469998 1.316041293 1.410255845 1.52907362 1.510451928 1.01283925 1 11.12005999 -1 0.072468928 0.648514648 2.925886986 0.841344101 0.072894433 70.15124406 0.377920368 2.047843198 16.29634091 0.1 1 2.277372338 MAVTFIGNSTAIQELFK ddPTM_HeLa_SAHA_4h_R1 1 MAVTFIGNSTAIQELFK 17 0 P07437;Q5JP53;Q5ST81 P07437 TUBB Tubulin beta chain 0 0 111.72 0.005978 24777000 1225.9 1268.3 1271.7 1686 1386 1652.8 1629.2 1469.9 1424.5 1598.3 FALSE FALSE TRUE 1354.845787 1309.393752 1445.000653 1718.634968 1279.804979 1511.972142 1445.878128 1432.302086 1414.586789 1667.210535 0.81264229 0.785379965 0.866717564 1.030844595 0.767632493 0.906887349 0.867243877 0.859100909 0.848475198 1 10.70322058 -9.410422489 1.14817373 0.999682239 0.859584629 0 0.082947832 0.423823262 1.002934631 0.046844092 0.011985711 3.89E-10 9.410422489 -0.140097611 MAVTFIGNSTAIQELFKR ddPTM_HeLa_SAHA_4h_R1 1 MAVTFIGNSTAIQELFKR 18 1 P07437;Q5JP53;Q5ST81 P07437 TUBB Tubulin beta chain 0 0 189.52 4.29E-19 5976100 253.46 71.042 334.31 229.97 298.1 180.71 432.14 151.79 0 174.06 FALSE FALSE TRUE 280.1200857 73.34380741 379.8680258 234.4214019 275.2596424 165.3124914 383.5144699 147.9074316 0 181.5645784 1.542812415 0.403954384 2.092192371 1.291118587 1.516042638 0.910488669 2.112275826 0.814627131 0 1 7.504338963 -9.544729353 1.164858259 0.988993548 1.369725555 0.137819137 0.60104115 1.155888692 2.671312078 0.373042024 0.078352885 2.85E-10 9.544729353 0.380732007 MCDLVSDFDGFSER ddPTM_HeLa_SAHA_4h_R1 6 MCDLVSDFDGFSER 14 0 P30520 P30520 ADSS Adenylosuccinate synthetase isozyme 2 0 0 ;;;;; ;;;;; 312.65 6.21E-98 14780200 3737.48 3590.68 3712.8 4341.8 3937.6 3000.89 4281.75 3225.66 3698.43 4337.85 FALSE FALSE TRUE 4130.605295 3707.020388 4218.761049 4425.841817 3635.901939 2745.197289 3799.956221 3143.152288 3672.692325 4524.875942 0.912865976 0.819253486 0.932348445 0.978113405 0.80353627 0.606690067 0.839792354 0.694638334 0.811666965 1 12.14366252 -1.973873889 0.165461721 1.027601101 7.59E-10 0.280878186 0.099126313 24.43221839 0.33715363 0.145099545 5.832082202 0.010620039 1.973873889 -1.027601101 MCLFAGFQR ddPTM_HeLa_SAHA_4h_R1 1 MCLFAGFQR 9 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;Q5RI18;A0A1W2PP34;A0A1W2PPH7;A0A1W2PPL4;A0A1W2PQL0;A0A1W2PQ74;A0A1W2PQD4;A0A1W2PRZ7 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 0 170.17 9.88E-11 1354600 339.03 492.63 1791.9 1074.3 846.93 11.053 978.5 122.01 0 61.046 FALSE FALSE TRUE 374.6907309 508.5915352 2036.0908 1095.09463 782.0384064 10.11122222 868.3966047 118.8891609 0 63.67799181 5.884148043 7.986927991 31.97479604 17.19738011 12.28114116 0.158786763 13.63731142 1.867036907 0 1 5.992722934 -1.49710354 18.98550679 7.24158036 8.680549956 0 9.746794934 0 0 1.377434742 0 0.031834385 1.49710354 1.438969596 MCS(ph)PSPDATSGTGSQR ddPTM_HeLa_SAHA_4h_R1 1 MCSPSPDATSGTGSQR 16 0 A0A2R8Y589;A0A2R8Y4C1;A0A2R8Y7U5;A8MST6;A0A2U3TZI9;A0A2R8Y5W6;A0A2R8Y432;A0A2R8YCP0;A0A2R8Y7A4;Q5JTW2;Q5JTW2-3;Q5JTW2-5;Q5JTW2-2 A0A2R8Y589 CEP78 Centrosomal protein of 78 kDa 1 0 MCS(0.989)PS(0.011)PDATSGTGSQR 113.43 0.0025036 955330 207.67 228.98 0 60.159 216.72 195.54 128.48 0 220.21 0 TRUE FALSE FALSE 229.5136834 236.3991022 0 61.32346444 200.1149604 178.8788919 114.0230923 0 218.6775407 0 0 MDATANDVPSPYEVR ddPTM_HeLa_SAHA_4h_R1 1 MDATANDVPSPYEVR 15 0 P30101 P30101 PDIA3 Protein disulfide-isomerase A3 0 0 159.5 8.26E-07 834270 146.04 149.37 159.12 66.552 152.28 166.84 0 150.04 0 0 FALSE FALSE TRUE 161.4011573 154.209686 180.8040449 67.8402102 140.6123393 152.6242934 0 146.2021941 0 0 0 MDCQECPEGYR ddPTM_HeLa_SAHA_4h_R1 2 MDCQECPEGYR 11 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 160.75 0.00089838 233080000 1370.21 2252.7 1204.69 1412.8 1645.09 1994.88 1686.62 1231.66 2222.64 1575.28 FALSE FALSE TRUE 1514.334975 2325.688958 1368.858879 1440.146787 1519.04356 1824.905001 1496.837079 1200.155921 2207.172467 1643.19803 0.921577891 1.415343078 0.833045594 0.876429232 0.924443391 1.110581298 0.910929207 0.73037814 1.343217571 1 10.68229064 MDETVAEFIK ddPTM_HeLa_SAHA_4h_R1 1 MDETVAEFIK 10 0 Q96H22-5;Q96H22-4;Q96H22;Q96H22-3;H3BMD5;H3BMC7;Q96H22-2 Q96H22-5 CENPN Centromere protein N 0 0 143.73 0.0042286 19337000 1908.2 2062.7 1655.7 2147 2550.8 2458.2 2513.8 2060 2188.5 2093.6 FALSE FALSE TRUE 2108.913231 2129.532833 1881.330173 2188.55829 2355.358255 2248.747531 2230.940608 2007.308183 2173.27005 2183.865342 0.965679152 0.975120944 0.86146803 1.002148918 1.078527238 1.029709794 1.021555938 0.919153825 0.995148377 1 11.09266819 -6.011576564 24.99738669 0.972407165 1.017423895 0.170087018 0.052151023 870.7339226 1880191.193 0.007895118 0.013594575 9.74E-07 6.011576564 0.045016729 MDGTYACSYT(ph)PVK ddPTM_HeLa_SAHA_4h_R1 2 MDGTYACSYTPVK 13 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 1 0 MDGTYACS(0.017)YT(0.983)PVK;MDGT(0.005)YACS(0.29)YT(0.704)PVK ; 157.5 6.81E-11 10770000 2429.89 2619.1 2257.6 2128.88 3118.1 2696.35 2719.3 2124.94 3091.3 2181.56 TRUE FALSE FALSE 2685.476979 2703.960558 2565.253971 2170.087551 2879.191852 2466.605811 2413.317207 2070.587112 3069.787392 2275.617728 1.180109008 1.188231453 1.127278075 0.953625701 1.265235288 1.083928017 1.060510813 0.909901117 1.348990805 1 11.15204251 -4.258849996 2.463524151 1.100293382 0.866566088 0.212196383 0.116486017 0.590343817 4.34729306 0.013570647 0.290511447 5.51E-05 4.258849996 -0.233727294 MDIDAPDVDVHGPDWHLK ddPTM_HeLa_SAHA_4h_R1 1 MDIDAPDVDVHGPDWHLK 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 107.82 0.00057134 5799900 5804.5 5921 6120.5 6065.3 6938.4 4015.9 7249.3 5851.3 7384.3 6011.7 FALSE FALSE TRUE 6415.043942 6112.844285 6954.569866 6182.702652 6406.781291 3673.722727 6433.589685 5701.632219 7332.912055 6270.893808 1.022987175 0.974796332 1.109023702 0.98593643 1.021669556 0.585837177 1.025944607 0.909221619 1.169356758 1 12.61445537 MDMNS(ph)FSPMMPTSPLS(ph)MINQIK ddPTM_HeLa_SAHA_4h_R1 1 MDMNSFSPMMPTSPLSMINQIK 22 0 B7ZC83;Q9UNH6-2;Q9UNH6 B7ZC83 SNX7 Sorting nexin-7 2 0 MDMNS(0.915)FS(0.072)PMMPT(0.034)S(0.092)PLS(0.888)MINQIK 41.366 0.016411 2765700 402.06 236.45 303.46 291.88 514.23 399.81 362.16 548.14 518.74 409.41 TRUE FALSE FALSE 444.3505155 244.1111351 344.8139484 297.5297595 474.8298085 365.7439387 321.4088036 534.1193725 515.1300461 427.0616687 1.040483256 0.571606288 0.807410203 0.696690388 1.111853026 0.856419495 0.752605132 1.250684413 1.206219345 1 8.738300603 MDMT(ph)SPEQSR ddPTM_HeLa_SAHA_4h_R1 1 MDMTSPEQSR 10 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 MDMT(0.5)S(0.5)PEQSR 96.113 0.023537 7299300 1939.1 2057.7 1800.6 2080.7 2236.4 2818 2499.8 2463 2481.9 1877.8 TRUE FALSE FALSE 2143.063435 2124.37083 2045.976391 2120.974957 2065.047515 2577.890546 2218.515925 2400.000026 2464.628256 1958.761148 1.094091251 1.084548176 1.044525716 1.082814492 1.054262036 1.316082131 1.132611767 1.225264259 1.2582587 1 10.93572577 -1 0.16835365 0.997054748 1.939476986 0.003910987 0.097623228 34.84154968 0.363813849 0.095874437 8.292419695 0.1 1 0.942422238 MDMTS(ph)PEQSR ddPTM_HeLa_SAHA_4h_R1 1 MDMTSPEQSR 10 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 MDMT(0.392)S(0.607)PEQS(0.001)R 87.713 0.02008 8655500 1464.7 1551.5 1305.3 1404.5 1482.7 1818.4 1867.6 1616.2 1946.7 1611.8 TRUE FALSE FALSE 1618.763866 1601.769618 1483.179486 1431.686128 1369.095846 1663.46209 1657.452733 1574.859944 1933.152756 1681.292586 0.962809139 0.952701291 0.882166197 0.851538953 0.814311475 0.989394769 0.985820521 0.936695943 1.149801511 1 10.7153551 -7.273624362 1.690608201 0.985485374 0.911214792 0.307929079 0.073588714 0.374990871 2.032887237 0.010889605 0.012857523 5.33E-08 7.273624362 -0.074270583 MDPLS(ph)ELQDDLTLDDT(ph)SEALNQLK ddPTM_HeLa_SAHA_4h_R1 1 MDPLSELQDDLTLDDTSEALNQLK 24 0 E9PNR6;Q07960 E9PNR6 ARHGAP1 Rho GTPase-activating protein 1 2 0 MDPLS(0.866)ELQDDLT(0.141)LDDT(0.962)S(0.031)EALNQLK 54.672 0.0059267 0 0 166.99 156.21 149.47 147.19 330.19 158.71 186.22 173.77 163.48 TRUE FALSE FALSE 0 172.4005856 177.4974853 152.363208 135.912334 302.0559544 140.8515331 181.456762 172.5607204 170.5284229 0 1.010978596 1.040867454 0.893476908 0.797006925 1.771293895 0.825971007 1.064085148 1.011917647 1 7.41386841 -7.041001646 23.58409889 0.526604537 1.06323758 0.15448311 0.373467827 269.3737072 154942.9065 0.07270725 0.08905616 9.10E-08 7.041001646 0.536633043 MDRT(ph)PPPPT(ph)LSPAAITVGR ddPTM_HeLa_SAHA_4h_R1 4 MDRTPPPPTLSPAAITVGR 19 1 E7EX82;Q8NDX5-2;Q8NDX5;Q8NDX5-7;H7C4H9 E7EX82 PHC3 Polyhomeotic-like protein 3 2 0 MDRT(1)PPPPT(0.969)LS(0.031)PAAITVGR;MDRT(1)PPPPT(0.745)LS(0.255)PAAITVGR;MDRT(1)PPPPT(0.894)LS(0.1)PAAIT(0.006)VGR;MDRT(1)PPPPT(0.718)LS(0.27)PAAIT(0.012)VGR ;;; 133.47 6.42E-05 47303300 4673.78 5130.9 4984.05 5486.4 5642.6 7012.6 6084.8 6563.3 5431.9 5256.65 TRUE FALSE FALSE 5165.389624 5297.144527 5663.250378 5592.597205 5210.265207 6415.087028 5400.12229 6395.42029 5394.098966 5483.289907 0.942023805 0.966052245 1.032819799 1.01993462 0.950207867 1.169933952 0.984832533 1.166347284 0.983734046 1 12.42082604 -4.802687381 0.596037824 0.972883961 1.163869077 0.408808697 0.059978514 1.50840714 0.529975245 0.010848587 0.174333602 1.58E-05 4.802687381 0.190985116 MDRT(ph)PPPPTLS(ph)PAAITVGR ddPTM_HeLa_SAHA_4h_R1 4 MDRTPPPPTLSPAAITVGR 19 1 E7EX82;Q8NDX5-2;Q8NDX5;Q8NDX5-7;H7C4H9 E7EX82 PHC3 Polyhomeotic-like protein 3 2 0 MDRT(1)PPPPT(0.049)LS(0.743)PAAIT(0.208)VGR;MDRT(1)PPPPT(0.171)LS(0.829)PAAIT(0.001)VGR;MDRT(1)PPPPT(0.267)LS(0.643)PAAIT(0.09)VGR;MDRT(1)PPPPT(0.338)LS(0.632)PAAIT(0.03)VGR ;;; 136.26 0.0003503 42289300 3294.7 3799.74 3155.45 3654.44 4502.51 5059.69 4094.42 4339.87 3983.11 3670.52 TRUE FALSE FALSE 3641.251663 3922.854069 3585.458293 3725.176971 4157.528657 4628.575947 3633.705086 4228.862409 3955.391213 3828.77408 0.951022856 1.024571831 0.936450733 0.972942486 1.085864188 1.208892416 0.94905184 1.104495152 1.033069889 1 11.90266682 -5.760205499 24.52553264 0.976694352 1.08591824 0.358834772 0.06519695 18.75743948 372816.403 0.008751737 0.016752093 1.74E-06 5.760205499 0.109223888 MDRT(ph)PPPPTLSPAAITVGR ddPTM_HeLa_SAHA_4h_R1 6 MDRTPPPPTLSPAAITVGR 19 1 E7EX82;Q8NDX5-2;Q8NDX5;Q8NDX5-7;H7C4H9 E7EX82 PHC3 Polyhomeotic-like protein 3 1 0 MDRT(1)PPPPTLSPAAITVGR;MDRT(1)PPPPTLSPAAITVGR;MDRT(1)PPPPTLSPAAITVGR;MDRT(1)PPPPTLSPAAITVGR;MDRT(1)PPPPTLSPAAITVGR;MDRT(1)PPPPTLSPAAITVGR ;;;;; 111.35 0.00051505 67950500 2754.45 2859.25 2493.61 2790.4 2701.69 2901.71 2376.07 2698.2 2794.52 2765.39 TRUE FALSE FALSE 3044.175689 2951.891576 2833.426185 2844.412227 2494.687096 2654.467983 2108.70835 2629.183951 2775.072708 2884.619496 1.055312735 1.023320954 0.982253011 0.9860615 0.864823627 0.920214256 0.731017853 0.911449137 0.962023834 1 11.49416531 -5.748705798 1.178263546 1.026080055 0.831196695 0.61670838 0.054898299 0.178713369 0.487416475 0.007770674 0.022032213 1.78E-06 5.748705798 -0.19488336 MDS(ph)DEDEKEGEEEK ddPTM_HeLa_SAHA_4h_R1 3 MDSDEDEKEGEEEK 14 1 Q96ST2-3;Q96ST2;Q96ST2-2 Q96ST2-3 IWS1 Protein IWS1 homolog 1 0 MDS(1)DEDEKEGEEEK;MDS(1)DEDEKEGEEEK;MDS(1)DEDEKEGEEEK ;; 80.488 0.0099681 89360400 5558.5 7469.5 5397.8 6342.2 7285.4 7411.4 6265.6 6223.8 9175.8 6497.7 TRUE FALSE FALSE 6143.168533 7711.516701 6133.384073 6464.962452 6727.194226 6779.907025 5560.578198 6064.604208 9111.944861 6777.847646 0.906359785 1.137753031 0.904916191 0.953837087 0.992526622 1.00030384 0.82040472 0.894768446 1.344371449 1 12.72661149 -4.763313827 24.99990726 0.969134276 0.857586571 0.089298737 0.135192551 40.9453234 546136.0614 0.009163866 0.029706481 1.72E-05 4.763313827 -0.111547706 MDS(ph)FDEDLAR ddPTM_HeLa_SAHA_4h_R1 2 MDSFDEDLAR 10 0 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 MDS(1)FDEDLAR;MDS(1)FDEDLAR ; 144.7 0.00091532 3369500 3461.6 4544.4 3572 4160.1 4080.8 4696.7 4243.3 3836.1 5560.9 4455.7 TRUE FALSE FALSE 3825.70697 4691.641542 4058.773558 4240.624751 3768.129986 4296.514737 3765.832716 3737.978117 5522.201244 4647.807033 0.82312087 1.009431224 0.873266366 0.912392602 0.810732881 0.924417625 0.810238611 0.804245549 1.188130489 1 12.18233446 -13.52287875 0.3075812 2.222045789 0.85819115 0.477690003 0.084012078 37.10680346 0.501854859 28.20417603 0.024692 3.00E-14 13.52287875 -1.363854639 MDS(ph)FDEDLARPSGLLAQER ddPTM_HeLa_SAHA_4h_R1 3 MDSFDEDLARPSGLLAQER 19 1 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 MDS(1)FDEDLARPSGLLAQER;MDS(1)FDEDLARPSGLLAQER;MDS(1)FDEDLARPSGLLAQER ;; 77.53 0.0032438 16235100 876.59 954.85 969.92 861.08 1139.55 1419.64 1236.32 1174.23 970.72 796.76 TRUE FALSE FALSE 968.7937581 985.7877665 1102.095646 877.7474485 1052.237925 1298.678685 1097.20602 1144.194897 963.9646805 831.1122228 1.16565938 1.186106689 1.326049138 1.056111828 1.266059981 1.562579216 1.320165905 1.376703248 1.159849 1 9.698899483 -3.551057135 0.105686237 0.808341989 2.09515995 0.456613458 0.115025294 28.34586768 0.394836715 0.940140226 5.481992668 0.000281153 3.551057135 1.286817962 MDSFDEDLARPS(ph)GLLAQER ddPTM_HeLa_SAHA_4h_R1 1 MDSFDEDLARPSGLLAQER 19 1 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 MDS(0.004)FDEDLARPS(0.996)GLLAQER 90.453 0.0090852 4648800 306.48 315.34 399.86 427.15 409.25 347.35 554.69 494.14 518.27 461.87 TRUE FALSE FALSE 338.7169726 325.5572229 454.3508384 435.4181059 377.8933534 317.7538259 492.2748213 481.5006143 514.6633169 481.783476 0.703048131 0.675733476 0.943060236 0.903763055 0.784363458 0.65953658 1.021776059 0.999412886 1.068246095 1 8.912241103 -4.695760929 24.99999588 0.836805547 1.010596873 0.205719656 0.131996395 72.04784077 27422.63157 0.019240109 0.071989882 2.01E-05 4.695760929 0.173791325 MDSFDEDLARPSGLLAQER ddPTM_HeLa_SAHA_4h_R1 2 MDSFDEDLARPSGLLAQER 19 1 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 0 0 ; ; 132.4 0.00010727 10169800 2405.9 2180.88 2119.65 2691.65 2710.72 2894.39 2998.99 2693.92 2224.14 2296.91 FALSE FALSE TRUE 2658.963601 2251.541943 2408.504863 2743.750778 2503.025219 2647.771689 2661.535752 2625.013427 2208.662029 2395.941031 1.109778399 0.939731786 1.005243799 1.145166238 1.044694 1.105107202 1.110851944 1.095608528 0.921834887 1 11.22637669 -6.26906202 24.97383439 1.039787949 1.098052049 0.323426749 0.060733531 744.1808445 2438136.15 0.008874714 0.013705258 5.38E-07 6.26906202 0.058264101 MDSNFGLAGLPGS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 MDSNFGLAGLPGSPK 15 0 O43463;O43463-2 O43463 SUV39H1 Histone-lysine N-methyltransferase SUV39H1 1 0 MDSNFGLAGLPGS(1)PK;MDSNFGLAGLPGS(1)PK ; 145.69 9.50E-05 22036000 4087.3 3656.8 3226.4 3450.4 3487.89 3689 3695.9 3564.76 4220.7 4177.1 TRUE FALSE FALSE 4517.220967 3775.282719 3666.07699 3517.187481 3220.648622 3374.676446 3280.027605 3473.578601 4191.327805 4357.195223 1.036726779 0.866447916 0.841384607 0.807213655 0.739156374 0.774506597 0.752784174 0.79720518 0.961932525 1 12.08918404 -6.942535394 1.613427304 1.018517554 0.773563382 0.893143851 0.032964986 0.060691737 0.314208893 0.005335652 0.007202463 1.14E-07 6.942535394 -0.244954172 MDSTEPPYSQK ddPTM_HeLa_SAHA_4h_R1 1 MDSTEPPYSQK 11 0 Q5VTE0;P68104;A0A087WV01 Q5VTE0 EEF1A1P5;EEF1A1 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha 0 0 115.23 0.017301 4370800 904.13 702.42 969.24 778.1 702.67 1171.5 863.43 971.62 1108.5 966.01 FALSE FALSE TRUE 999.2305417 725.1788689 1101.32298 793.1612507 648.8315764 1071.681609 766.274584 946.7673673 1100.785858 1007.659419 0.991635193 0.719666641 1.092951606 0.787132275 0.643899679 1.063535545 0.760449979 0.939570801 1.092418567 1 9.976792386 -7.463694047 24.48681841 0.99630975 0.860031704 0.229831184 0.138884389 240.3994917 99462.19492 0.021306152 0.024358779 3.44E-08 7.463694047 -0.136278046 MDYEDDRLR ddPTM_HeLa_SAHA_4h_R1 5 MDYEDDRLR 9 1 A0A0R4J2E8;A8MXP9;P43243;D6REM6;D6R991 A0A0R4J2E8 MATR3 Matrin-3 0 0 ;;;; ;;;; 155.58 0.00027983 87410500 10521.3 10387.2 10599.3 11526.9 11852.6 12263.7 12402.4 10328.5 11141.3 10427 FALSE FALSE TRUE 11627.97861 10723.7521 12043.71741 11750.01982 10944.45635 11218.76377 11006.84931 10064.31193 11063.76679 10876.559 1.069086152 0.985950805 1.107309527 1.080306724 1.00624254 1.031462595 1.011979001 0.92532132 1.017212042 1 13.40893458 -3.920766372 1.403564476 1.037365501 0.7787481 0.462296435 0.036268876 2.149857079 1.994774948 0.005745717 0.98580365 0.000120014 3.920766372 -0.258617401 MEDLT(ph)NPEDIR ddPTM_HeLa_SAHA_4h_R1 1 MEDLTNPEDIR 11 0 Q14692 Q14692 BMS1 Ribosome biogenesis protein BMS1 homolog 1 0 MEDLT(1)NPEDIR 112.5 0.0062193 12794000 772.68 947.56 856.64 625.38 814.84 745.45 865.73 764.06 731 943.91 TRUE FALSE FALSE 853.9540276 978.2615657 973.378438 637.4851342 752.4071352 681.9334662 768.3157819 744.5164515 725.9129115 984.6065795 0.867304815 0.993555788 0.988596317 0.647451629 0.76417033 0.69259487 0.780327694 0.756156283 0.737261894 1 9.94340357 -6.267940443 24.94867935 0.944352247 0.731066405 0.554558946 0.083018957 191.9114636 736484.8291 0.009592855 0.014870792 5.40E-07 6.267940443 -0.213285842 MEDSASASLSS(ph)AAATGTS(ph)TSTPAAPT(ph)AR ddPTM_HeLa_SAHA_4h_R1 1 MEDSASASLSSAAATGTSTSTPAAPTAR 28 0 O76021;J3QSV6;I3L3U9;J3KPU7;I3L2F2;I3L4T8;I3L1Y4 O76021 RSL1D1 Ribosomal L1 domain-containing protein 1 3 0 MEDS(0.01)AS(0.04)AS(0.038)LS(0.15)S(0.689)AAAT(0.083)GT(0.084)S(0.244)T(0.244)S(0.259)T(0.261)PAAPT(0.898)AR 47.018 0.010985 4709900 394.33 301.17 208.67 334.99 351.02 489.85 378.24 302.45 279.67 289.38 TRUE FALSE FALSE 435.8074387 310.9281056 237.1064609 341.4742159 324.1249234 448.1120242 335.6794397 294.7137669 277.7237537 301.856588 1.443756592 1.030052409 0.785493742 1.131246524 1.073771242 1.48451961 1.112049407 0.976337038 0.920051987 1 8.237719478 -11.54569401 10.78491576 0.6825554 1.16226294 0 0.217577741 0 0 0 0.031184538 2.85E-12 11.54569401 0.47970754 MEDSVGCLETAEEVK ddPTM_HeLa_SAHA_4h_R1 1 MEDSVGCLETAEEVK 15 0 P35579 P35579 MYH9 Myosin-9 0 0 200.44 1.25E-11 2716400 560.81 383.53 355.19 626.19 525.83 391.02 570.66 452.18 640.97 608.17 FALSE FALSE TRUE 619.7985689 395.9566236 403.5934435 638.3108129 485.541019 357.7028962 506.4478349 440.6138903 636.5094376 634.391185 0.976997448 0.624152152 0.636190182 1.006178566 0.765365331 0.563852249 0.798321047 0.694546048 1.003339032 1 9.309228914 -7.282371447 21.02696252 0.989137827 0.732143292 0.530749432 0.114738879 60.27757166 60550.48846 0.019515317 0.022342506 5.22E-08 7.282371447 -0.256994534 MEEADALIESLCR ddPTM_HeLa_SAHA_4h_R1 1 MEEADALIESLCR 13 0 A0A087WW66;Q99460-2;Q99460;H7C378 A0A087WW66 PSMD1 26S proteasome non-ATPase regulatory subunit 1 0 0 107.85 0.018015 1441800 307.03 372.61 406.08 496.01 430.36 400.47 492.26 369.54 530.86 436.56 FALSE FALSE TRUE 339.3248241 384.6828085 461.4184676 505.6109908 397.3859098 366.347703 436.8696092 360.0877019 527.165702 455.3822381 0.745142862 0.844747064 1.013255303 1.110300202 0.872642533 0.804483953 0.959347056 0.790737257 1.15763343 1 8.830934211 -4.2360576 22.35013728 0.897872144 0.790736689 0.007153889 0.132525674 4326.847623 3809784.45 0.017553194 1.304580064 5.81E-05 4.2360576 -0.107135455 MEES(ph)DEEAVQAK ddPTM_HeLa_SAHA_4h_R1 2 MEESDEEAVQAK 12 0 I3VM54;Q9Y2K7-3;Q9Y2K7;Q9Y2K7-4;Q9Y2K7-5;Q9Y2K7-2 I3VM54 KDM2A Lysine-specific demethylase 2A 1 0 MEES(1)DEEAVQAK;MEES(1)DEEAVQAK ; 179.93 2.35E-05 8767800 1483.91 1747.37 1503.39 1562.27 1838.99 1922.72 1750.03 1770.66 1511.23 1545.93 TRUE FALSE FALSE 1639.994462 1803.985934 1708.26416 1592.509995 1698.086983 1758.893439 1553.112019 1725.369081 1500.713227 1612.582608 1.016998729 1.118693657 1.059334357 0.987552506 1.053023253 1.090730751 0.963120904 1.069941517 0.930627194 1 10.65515735 -7.498812925 20.7588049 1.007499197 1.047023021 0.234575056 0.04929678 47.10026003 40630.55574 0.007319067 0.00789928 3.17E-08 7.498812925 0.039523824 MEGFSGASWST(ph)MAKPT(ph)S(ph)K ddPTM_HeLa_SAHA_4h_R1 1 MEGFSGASWSTMAKPTSK 18 1 H3BMQ0 H3BMQ0 TSC2 3 0 MEGFS(0.005)GAS(0.012)WS(0.479)T(0.549)MAKPT(0.978)S(0.978)K 48.244 0.015474 8198900 131.97 222.7 114.07 94.878 162.48 211.37 210.37 160.09 164.08 174.57 TRUE FALSE FALSE 145.8512101 229.9156261 129.6148655 96.71450089 150.0308175 193.3600869 186.6986139 155.9951296 162.9381539 182.096567 0.800955298 1.262602749 0.711791923 0.531116552 0.823907995 1.061854652 1.025272563 0.856661562 0.894789817 1 7.508559914 -9.607069216 1.357742721 1.001104455 0.875766938 0.003724948 0.19258512 1.254899636 4.091270399 0.145904007 0.032345609 2.47E-10 9.607069216 -0.125337516 MEGS(ph)DFESSGGR ddPTM_HeLa_SAHA_4h_R1 2 MEGSDFESSGGR 12 0 A0A1B0GW41;Q8WYH8-2;Q8WYH8;E9PEN0 A0A1B0GW41 ING5 Inhibitor of growth protein 5 1 0 MEGS(1)DFESSGGR;MEGS(1)DFESSGGR ; 131.32 0.00099615 9467200 2304.12 2855.82 1992.07 2726.5 3098 4134.8 3440.3 2800.91 3311 3018.5 TRUE FALSE FALSE 2546.477913 2948.350442 2263.538925 2779.27535 2860.631909 3782.491778 3053.18839 2729.266778 3287.958481 3148.642307 0.808754271 0.936387863 0.718893639 0.882690086 0.908528702 1.201308821 0.969684102 0.866807504 1.044246428 1 11.62051416 -5.489922116 24.96860761 0.892359816 1.01607692 0.166565886 0.11511422 812.6842522 615705.4582 0.016567212 0.037017997 3.24E-06 5.489922116 0.123717104 MEIDESNAGSS(ph)KEEAGETSPADESGAPK ddPTM_HeLa_SAHA_4h_R1 1 MEIDESNAGSSKEEAGETSPADESGAPK 28 1 Q9UKY1 Q9UKY1 ZHX1 Zinc fingers and homeoboxes protein 1 1 0 MEIDES(0.165)NAGS(0.122)S(0.64)KEEAGET(0.058)S(0.015)PADESGAPK 83.992 8.16E-06 4865200 451.71 445.61 323.19 446.31 501.31 493.04 390.42 843.33 662.23 529.61 TRUE FALSE FALSE 499.2229303 460.0480564 367.2326501 454.9489754 462.8997361 451.0302182 346.4889141 821.7588397 657.6214875 552.4440789 0.903662378 0.832750452 0.664741761 0.823520412 0.837912386 0.816426921 0.627192737 1.487496873 1.19038562 1 9.109684625 -8.129211695 1.13413555 0.980033205 0.85152006 0.082006072 0.23215034 0.938568459 2.51265498 0.055884484 0.042811908 7.43E-09 8.129211695 -0.128513145 MEIGDTLSTAEESS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 3 MEIGDTLSTAEESSPPK 17 0 Q9BYW2;C9JG86;Q9BYW2-3;Q9BYW2-2 Q9BYW2 SETD2 Histone-lysine N-methyltransferase SETD2 1 0 MEIGDTLSTAEES(0.209)S(0.791)PPK;MEIGDTLSTAEES(0.081)S(0.919)PPK;MEIGDTLS(0.001)T(0.005)AEES(0.034)S(0.96)PPK ;; 154.13 3.59E-05 16476100 3712.02 4216.8 2921.69 3988.41 3763.39 4865 3892.76 3885.14 5602.8 3505.17 TRUE FALSE FALSE 4102.467295 4353.427087 3319.842698 4065.611443 3475.039871 4450.47463 3454.7364 3785.763744 5563.809659 3656.295033 1.122028518 1.190666248 0.907979982 1.111948409 0.950426549 1.217208839 0.944873531 1.03540981 1.521706976 1 11.83616677 -6.764968927 24.99996804 1.069212786 1.033090861 0.001440008 0.172474231 310.833727 2201645.822 0.015495614 0.020818279 1.72E-07 6.764968927 -0.036121925 MEIGDTLSTAEESS(ph)PPKSR ddPTM_HeLa_SAHA_4h_R1 2 MEIGDTLSTAEESSPPKSR 19 1 Q9BYW2;C9JG86;Q9BYW2-3;Q9BYW2-2 Q9BYW2 SETD2 Histone-lysine N-methyltransferase SETD2 1 0 MEIGDTLSTAEES(0.199)S(0.8)PPKS(0.001)R;MEIGDTLSTAEES(0.051)S(0.948)PPKS(0.001)R ; 152.09 2.65E-05 50303000 3799.3 3652.6 3822.6 3460.8 3666.1 4199.6 4551.7 4246.9 3236.3 3713.7 TRUE FALSE FALSE 4198.927806 3770.946637 4343.524021 3527.788788 3385.20421 3841.770454 4039.530737 4138.270447 3213.778325 3873.815781 1.083925525 0.973445009 1.121252085 0.910675413 0.873868145 0.99172771 1.042778223 1.068267228 0.829615683 1 11.91953963 -6.252782807 24.95665921 1.040186267 0.976129129 0 0.093172122 892.9791721 2574430.599 0.010608876 0.017420525 5.59E-07 6.252782807 -0.064057138 MEISAELPQT(ph)PQR ddPTM_HeLa_SAHA_4h_R1 2 MEISAELPQTPQR 13 0 H3BS20;H3BNQ6;A0A087WTJ9;Q8IWV7-2;Q8IWV7 H3BS20 UBR1 E3 ubiquitin-protein ligase UBR1 1 0 MEISAELPQT(1)PQR;MEISAELPQT(1)PQR ; 110.51 0.0043824 24425000 2696.2 2752 2007.15 2460.7 3091.7 3009.6 2863.7 2909.6 2567.8 2574 TRUE FALSE FALSE 2979.798687 2841.166606 2280.673949 2508.330407 2854.814614 2753.165148 2541.468939 2835.176645 2549.930471 2684.977737 1.109803871 1.058171383 0.84942006 0.934209015 1.063254482 1.025395895 0.946551215 1.055940467 0.94970265 1 11.39069441 MEKAPIDTS(ph)DVEEK ddPTM_HeLa_SAHA_4h_R1 2 MEKAPIDTSDVEEK 14 1 D6RIY6;Q06265-3;Q06265-4;Q06265;Q06265-2 D6RIY6 EXOSC9 Exosome complex component RRP45 1 0 MEKAPIDT(0.062)S(0.938)DVEEK;MEKAPIDT(0.086)S(0.914)DVEEK ; 98.572 0.0032204 15493000 3806.9 3432.41 3902.1 3660.6 3933.3 4406.3 4012.3 4220.8 3783.14 4444.7 TRUE FALSE FALSE 4207.327209 3543.622336 4433.857867 3731.456206 3631.931404 4030.858451 3560.825444 4112.838048 3756.812821 4636.332769 0.907468773 0.764315789 0.956328652 0.804829246 0.783362969 0.869406631 0.768026288 0.887088622 0.810298356 1 12.1787684 -8.014821498 0.538650413 0.999458225 0.822750995 0 0.082049593 0.400711968 0.272336115 0.028902345 0.017845698 9.66E-09 8.014821498 -0.176707229 MELAGSNTTAS(ph)SPAR ddPTM_HeLa_SAHA_4h_R1 1 MELAGSNTTASSPAR 15 0 J3KPG5;F8VU39;Q9UIF9-2;Q9UIF9-3;Q9UIF9;A0A0C4DGI9 J3KPG5 BAZ2A Bromodomain adjacent to zinc finger domain protein 2A 1 0 MELAGSNT(0.002)T(0.008)AS(0.664)S(0.326)PAR 123.63 0.00062804 3653100 600.7 555.25 272.4 820.84 468.18 634.98 480.25 515.75 680.73 651.07 TRUE FALSE FALSE 663.8843821 573.2404643 309.5212534 836.7285452 432.3081495 580.8761317 426.2110061 502.5578618 675.9927445 679.140814 0.977535687 0.844067169 0.455754163 1.232039848 0.636551567 0.855310298 0.627573836 0.739990664 0.995364629 1 9.407566926 -7.169057381 4.163918825 0.989601279 0.76464714 0.228244701 0.189770405 0.23745522 7.409582184 0.029305224 0.0359902 6.78E-08 7.169057381 -0.224954139 MELAGSNTTASS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 2 MELAGSNTTASSPAR 15 0 J3KPG5;F8VU39;Q9UIF9-2;Q9UIF9-3;Q9UIF9;A0A0C4DGI9 J3KPG5 BAZ2A Bromodomain adjacent to zinc finger domain protein 2A 1 0 MELAGSNTTAS(0.01)S(0.99)PAR;MELAGSNTTAS(0.02)S(0.98)PAR ; 166.79 3.24E-06 25333000 3868.6 3305.6 2838.7 3831.1 3331.7 3496.3 3404.9 3585 4002 3322.4 TRUE FALSE FALSE 4275.517098 3412.703609 3225.543253 3905.25648 3076.425866 3198.39557 3021.771691 3493.300891 3974.149756 3465.644923 1.233685848 0.984723965 0.930719483 1.126848413 0.887692171 0.922886112 0.871921896 1.007980035 1.146727332 1 11.75890813 -7.059096687 11.11298558 1.110336686 0.957032812 0.434712536 0.08605643 0.805484778 150.200157 0.017787419 0.021801199 8.73E-08 7.059096687 -0.153303874 MELQEIQLK ddPTM_HeLa_SAHA_4h_R1 1 MELQEIQLK 9 0 J3KN67;A0A2R2Y2Q3;P06753;A0A494C0P6;P06753-7;P06753-2;A0A087WWU8;P06753-5;P06753-3;P06753-6;P06753-4 J3KN67;P06753-2 TPM3 Tropomyosin alpha-3 chain 0 0 138.66 0.0072115 32835000 1098 1050.1 1034.5 1140.6 881.34 1136.4 1212.2 866.04 1091.1 985.6 FALSE FALSE TRUE 1213.492678 1084.123929 1175.476273 1162.677962 813.8119196 1039.572327 1075.800066 843.8879508 1083.506946 1028.094039 1.180332374 1.054498798 1.143354817 1.130906238 0.791573425 1.011164628 1.046402396 0.820827588 1.053898675 1 10.00575652 -5.788349244 24.99519966 1.092294097 0.933390688 0.495728622 0.086529081 167.7528532 155816.6614 0.014227181 0.025793949 1.63E-06 5.788349244 -0.158903409 MELS(ph)LENVTVEGNACK ddPTM_HeLa_SAHA_4h_R1 1 MELSLENVTVEGNACK 16 0 Q5UIP0;Q5UIP0-2;H7C2B5 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 MELS(1)LENVTVEGNACK 96.096 0.0035302 0 142.3 201.75 257.12 314.59 338.41 332.9 219.18 298.15 283.83 208.25 TRUE FALSE FALSE 157.2677669 208.2868324 292.1589746 320.6793444 312.4810989 304.5350472 194.5172895 290.5237547 281.8548039 217.2286767 0.723973323 0.958836723 1.344937414 1.476229333 1.438489171 1.401909968 0.895449406 1.337409771 1.297502743 1 7.763070758 -6.833634721 4.631185413 0.868825999 1.313758413 0.295836284 0.212170145 0.115162295 4.691586762 0.030162593 0.040341916 1.47E-07 6.833634721 0.444932414 MENFILYEEIGRGSK ddPTM_HeLa_SAHA_4h_R1 1 MENFILYEEIGRGSK 15 1 C9JVZ3;A0A0C4DG77;Q96C45 C9JVZ3 ULK4 Serine/threonine-protein kinase ULK4 0 0 65.895 0.023468 1926100 542.76 742.59 612.94 474.22 655.81 866.72 679.66 568.3 342.31 700.44 FALSE FALSE TRUE 599.8499871 766.6504032 696.4682711 483.3992138 605.5619795 792.87058 603.182868 553.7637089 339.9278368 730.6393963 0.820993215 1.049286977 0.953231204 0.661611208 0.828811015 1.085173595 0.82555481 0.757916575 0.465247068 1 9.513015736 MEREDS(ph)S(ph)EEEEEEIDDEEIER ddPTM_HeLa_SAHA_4h_R1 2 MEREDSSEEEEEEIDDEEIER 21 1 P55081 P55081 MFAP1 Microfibrillar-associated protein 1 2 0 MEREDS(1)S(1)EEEEEEIDDEEIER;MEREDS(1)S(1)EEEEEEIDDEEIER ; 76.027 0.00099176 17999000 943.56 1406.69 1019.69 1134.95 1514.69 1638.9 1298.54 1436.49 1330.64 1377 TRUE FALSE FALSE 1042.80797 1452.267679 1158.648043 1156.918598 1398.634779 1499.2565 1152.424862 1399.746666 1321.379968 1436.369209 0.726002732 1.011068512 0.806650571 0.805446532 0.973729297 1.043782121 0.802317994 0.974503392 0.91994451 1 10.48821092 -5.743459053 24.9655592 0.869901349 0.94493561 0.102536588 0.100016901 521.9279989 724689.3527 0.017710656 0.035364176 1.81E-06 5.743459053 0.075034261 MES(ph)SPFNRR ddPTM_HeLa_SAHA_4h_R1 1 MESSPFNRR 9 1 Q9UHB6;F8VRN8;F8VVQ7;F8VTU2;Q9UHB6-4 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 MES(1)SPFNRR 67.993 0.020803 1297600 747.39 984.46 1085.7 1356 1613 904.85 1737.1 774.19 334.99 763.83 TRUE FALSE FALSE 826.0039093 1016.35715 1233.653542 1382.247341 1489.412288 827.7516895 1541.636936 754.3873408 332.6587773 796.7624494 1.036700349 1.275608747 1.548332935 1.734829926 1.869330425 1.038893951 1.934876496 0.946815881 0.417513121 1 9.638005846 -7.025105646 2.524183458 1.015976765 1.536309615 0.399239613 0.355670257 0.20030361 2.543106435 0.046575331 0.060077038 9.44E-08 7.025105646 0.520332849 MESEGGADDS(ph)AEEGDLLDDDDNEDR ddPTM_HeLa_SAHA_4h_R1 1 MESEGGADDSAEEGDLLDDDDNEDR 25 0 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 1 0 MESEGGADDS(1)AEEGDLLDDDDNEDR 115.06 3.94E-07 4795900 714.48 1259.9 811.09 1281.3 1080.2 1461.8 1345.1 978.07 1783 1095.4 TRUE FALSE FALSE 789.6322846 1300.721587 921.6211212 1306.101414 997.4353094 1337.246416 1193.745808 953.0523856 1770.591958 1142.628055 0.691066775 1.138359575 0.806580162 1.143067868 0.872930877 1.170325208 1.044737002 0.834088032 1.549578579 1 10.15814014 -7.254974235 24.98269312 0.854114866 1.002611813 0 0.261388685 708.7862483 2738901.659 0.026247335 0.031737923 5.56E-08 7.254974235 0.148496947 MESEGGADDS(ph)AEEGDLLDDDDNEDRGDDQLELIKDDEK ddPTM_HeLa_SAHA_4h_R1 3 MESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEK 38 2 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V2D6;G3V5V7 P07910 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 1 0 MES(0.001)EGGADDS(0.999)AEEGDLLDDDDNEDRGDDQLELIKDDEK;MES(0.025)EGGADDS(0.975)AEEGDLLDDDDNEDRGDDQLELIKDDEK;MES(0.003)EGGADDS(0.997)AEEGDLLDDDDNEDRGDDQLELIKDDEK ;; 80.877 9.73E-09 28233400 1169.38 1824.11 1392.48 1864.14 1892.62 2496.36 1853.19 1394.72 2873.28 2273.34 TRUE FALSE FALSE 1292.380754 1883.212361 1582.239923 1900.223125 1747.607864 2283.656084 1644.664184 1359.045082 2853.284611 2371.354813 0.544996787 0.794150395 0.667230359 0.801323832 0.736965997 0.963017458 0.693554661 0.573109125 1.20322973 1 11.21149583 -9.571009871 1.359462561 0.999518686 0.70799986 0.53397336 0.132828512 0.327558072 1.088063987 0.086760332 0.020481983 2.69E-10 9.571009871 -0.291518827 MESEGGADDS(ph)AEEGDLLDDDDNEDRGDDQVK ddPTM_HeLa_SAHA_4h_R1 1 MESEGGADDSAEEGDLLDDDDNEDRGDDQVK 31 1 B4DY08 B4DY08 HNRNPC 1 0 MESEGGADDS(1)AEEGDLLDDDDNEDRGDDQVK 92.349 1.84E-08 3273000 925.12 825.3 726.12 886.22 1105.5 1020.8 1151 1249.3 1127.3 1162.7 TRUE FALSE FALSE 1022.428366 852.0402615 825.0718521 903.3740696 1020.796829 933.8220971 1021.486451 1217.344715 1119.455028 1212.829687 0.843010669 0.702522597 0.680286656 0.74484825 0.841665437 0.769953199 0.842234043 1.003722722 0.923010905 1 10.24416126 -8.516794225 0.93411227 0.982421184 0.797032594 0.326421902 0.088942496 0.36767845 0.657559113 0.034805308 0.01907882 3.04E-09 8.516794225 -0.18538859 MESFMESLNRLK ddPTM_HeLa_SAHA_4h_R1 1 MESFMESLNRLK 12 1 Q8NC74 Q8NC74 RBBP8NL RBBP8 N-terminal-like protein 0 0 93.442 0.0020767 0 1298.1 1381.7 1629.9 1234.8 1708.9 1585.6 1611.8 1413 1173.3 1602.8 FALSE FALSE TRUE 1434.640114 1426.467987 1852.014284 1258.70134 1577.964451 1450.49796 1430.436022 1376.857506 1165.13491 1671.904552 0.858087331 0.853199416 1.107727281 0.752854784 0.943812522 0.86757223 0.855572778 0.823526382 0.696890805 1 10.70727677 -13.52287875 0.261123345 1.807986812 0.869569373 0 0.130169584 53.56598739 0.714978897 22.42646738 0.04536393 3.00E-14 13.52287875 -0.938417439 MESSFGS(ph)PSKQESSESLPK ddPTM_HeLa_SAHA_4h_R1 1 MESSFGSPSKQESSESLPK 19 1 Q6VMQ6-2;Q6VMQ6-5;Q6VMQ6;Q6VMQ6-4;A8MV73 Q6VMQ6-2 ATF7IP Activating transcription factor 7-interacting protein 1 1 0 MES(0.008)S(0.057)FGS(0.823)PS(0.083)KQES(0.018)S(0.007)ES(0.004)LPK 64.346 0.0088972 31714000 1811.6 2166.7 1636.6 1847.9 2007.4 2165.8 2200.5 2044.4 2694.1 1761.7 TRUE FALSE FALSE 2002.1524 2236.902502 1859.627325 1883.668777 1853.593446 1981.261656 1952.893949 1992.107208 2675.351539 1837.655509 1.089514542 1.217258888 1.011956439 1.025039115 1.008672973 1.078146392 1.06270949 1.084048234 1.455850417 1 10.84365063 -9.303248604 1.157604092 1.001965201 1.071877878 0 0.153371787 0.651743779 1.626355337 0.034163795 0.010215998 4.97E-10 9.303248604 0.069912676 MESSFGSPS(ph)KQESSESLPK ddPTM_HeLa_SAHA_4h_R1 1 MESSFGSPSKQESSESLPK 19 1 Q6VMQ6-2;Q6VMQ6-5;Q6VMQ6;Q6VMQ6-4;A8MV73 Q6VMQ6-2 ATF7IP Activating transcription factor 7-interacting protein 1 1 0 MESS(0.001)FGS(0.127)PS(0.636)KQES(0.101)S(0.101)ES(0.032)LPK 63.894 0.0090996 36680000 928.4 1158.4 952.05 1381.6 1122.6 1178.8 1126.1 1209.3 1463 1120.4 TRUE FALSE FALSE 1026.053372 1195.93292 1081.790416 1408.342866 1036.586631 1078.359608 999.3882643 1178.367857 1452.818864 1168.705927 0.877939735 1.023296701 0.925630983 1.205044685 0.886952489 0.922695422 0.855123809 1.008267204 1.24310045 1 10.19069625 MET(ph)EADAPSPAPS(ph)LGER ddPTM_HeLa_SAHA_4h_R1 1 METEADAPSPAPSLGER 17 0 Q12873-2;Q12873;Q12873-3 Q12873-2 CHD3 Chromodomain-helicase-DNA-binding protein 3 2 0 MET(0.93)EADAPS(0.07)PAPS(1)LGER 169.06 2.28E-05 7889000 1066 1249.9 956.14 1398.9 1594.8 1270 1121.3 1211.3 978.31 1354.5 TRUE FALSE FALSE 1178.126771 1290.39758 1086.43778 1425.977732 1472.606769 1161.788855 995.1283729 1180.3167 971.5018611 1412.899124 0.833836437 0.913297742 0.768942214 1.009256576 1.042258958 0.822273038 0.704316647 0.835386391 0.687594638 1 10.46444275 -13.52287874 0.287418813 2.105154363 0.853539135 0 0.139101706 58.51866772 0.791109087 37.22844397 0.04655695 3.00E-14 13.52287874 -1.251615228 METEADAPS(ph)PAPS(ph)LGERLEPR ddPTM_HeLa_SAHA_4h_R1 2 METEADAPSPAPSLGERLEPR 21 1 Q12873-2;Q12873;Q12873-3 Q12873-2 CHD3 Chromodomain-helicase-DNA-binding protein 3 2 0 METEADAPS(1)PAPS(1)LGERLEPR;METEADAPS(1)PAPS(1)LGERLEPR ; 106.58 0.0010211 18220400 7843.3 5017.2 6919.9 6955 8120.8 6793.5 7684.7 8579.9 3951.58 6919.6 TRUE FALSE FALSE 8668.29428 5179.760572 7862.907935 7089.624082 7498.586058 6214.655581 6819.997331 8360.438582 3924.080633 7217.93782 1.200937788 0.71762333 1.089356563 0.982222937 1.038882053 0.86100154 0.944867842 1.158286313 0.543656752 1 12.817371 METEADAPS(ph)PAPSLGER ddPTM_HeLa_SAHA_4h_R1 6 METEADAPSPAPSLGER 17 0 Q12873-2;Q12873;Q12873-3 Q12873-2 CHD3 Chromodomain-helicase-DNA-binding protein 3 1 0 METEADAPS(0.999)PAPS(0.001)LGER;MET(0.033)EADAPS(0.964)PAPS(0.003)LGER;METEADAPS(0.986)PAPS(0.014)LGER;METEADAPS(0.977)PAPS(0.023)LGER;METEADAPS(0.997)PAPS(0.003)LGER;METEADAPS(1)PAPSLGER ;;;;; 205.52 1.12E-15 200100900 13734.87 14525.72 12223.26 14511.98 15060.39 14714.15 16531.45 15014.21 15222.4 14558.96 TRUE FALSE FALSE 15179.56664 14996.36286 13888.98222 14792.88036 13906.46617 13460.42164 14671.28774 14630.16825 15116.46608 15186.66802 0.999532394 0.987468933 0.914550987 0.974070174 0.915702257 0.88633146 0.966063637 0.963356033 0.995377397 1 13.89051775 -6.878117036 5.538874755 0.999447066 0.936619909 0.563821988 0.025466935 0.11037235 4.974001619 0.004087575 0.005406135 1.32E-07 6.878117036 -0.062827157 METVSNASSSS(ph)NPSS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 1 METVSNASSSSNPSSPGR 18 0 Q9NTI5-2;Q9NTI5;A9IYQ1 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 2 0 METVSNASS(0.002)S(0.02)S(0.978)NPS(0.045)S(0.955)PGR 185.63 1.31E-11 5211100 2965.1 3005.6 2097.5 2706.4 3218.9 3157.4 2653.6 3471.7 3136.6 2860.7 TRUE FALSE FALSE 3276.982822 3102.983412 2383.336377 2758.786286 2972.268577 2888.371757 2355.009944 3382.898941 3114.772145 2984.038777 1.098170321 1.039860285 0.798694841 0.924514221 0.996055614 0.967940423 0.789202192 1.133664538 1.043810881 1 11.54305057 -6.953983889 24.99811719 1.047550824 0.931103344 0.246887517 0.094422228 125.0448533 67929.91923 0.014672552 0.019283508 1.11E-07 6.953983889 -0.11644748 METVSNASSSSNPS(ph)SPGR ddPTM_HeLa_SAHA_4h_R1 3 METVSNASSSSNPSSPGR 18 0 Q9NTI5-2;Q9NTI5;A9IYQ1 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 1 0 METVSNASSSSNPS(0.5)S(0.5)PGR;MET(0.006)VS(0.02)NAS(0.093)S(0.093)S(0.02)S(0.093)NPS(0.54)S(0.135)PGR;METVSNASSSSNPS(0.795)S(0.205)PGR ;; 310.08 3.74E-103 23318800 2417.44 2122.73 2027.2 1876.57 2200.08 2705.52 2780.26 2645.36 2260.16 2076 TRUE FALSE FALSE 2671.717431 2191.507845 2303.456259 1912.893726 2031.510346 2474.994475 2467.417828 2577.695522 2244.431363 2165.50652 1.233760973 1.012007041 1.06370322 0.883347018 0.93812248 1.14291712 1.139418332 1.190342997 1.036446366 1 11.0804888 -8.727174517 0.002705515 3.77E-05 2.164058589 0 0.107448006 384764.8667 354.8123305 143096.2662 140701.2307 1.87E-09 8.727174517 2.16402084 METVSNASSSSNPSS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 14 METVSNASSSSNPSSPGR 18 0 Q9NTI5-2;Q9NTI5;A9IYQ1 Q9NTI5-2 PDS5B Sister chromatid cohesion protein PDS5 homolog B 1 0 METVSNASSSSNPS(0.046)S(0.954)PGR;METVSNASSSSNPS(0.03)S(0.97)PGR;METVSNASSSSNPS(0.04)S(0.96)PGR;METVSNASSSSNPS(0.021)S(0.979)PGR;METVSNASSSSNPS(0.234)S(0.766)PGR;METVSNASSSSNPS(0.085)S(0.915)PGR;METVSNASSSSNPS(0.036)S(0.964)PGR;METVSNASSSSNPS(0.013)S(0.987)PGR;METVSNAS(0.001)S(0.001)S(0.001)S(0.008)NPS(0.066)S(0.923)PGR;METVSNASSSSNPS(0.025)S(0.975)PGR;METVSNASSSSNPS(0.007)S(0.993)PGR;METVSNASSSSNPS(0.026)S(0.974)PGR;METVSNASSSSNPS(0.112)S(0.888)PGR;METVSNASSSSNPS(0.026)S(0.974)PGR ;;;;;;;;;;;;; 284.72 1.31E-73 393563910 28731.47 22762.99 18160.23 23243.79 26446.16 28873.23 26173.49 31078.06 23295.83 22047.26 TRUE FALSE FALSE 31753.57784 23500.52581 20635.01157 23693.70717 24419.86093 26413.06837 23228.38002 30283.12823 23133.71242 22997.82528 1.380720892 1.021858612 0.897259255 1.030258595 1.061833484 1.148502872 1.010025067 1.316782255 1.005908696 1 14.48920982 MEVDRS(ph)PGLPMSDLK ddPTM_HeLa_SAHA_4h_R1 3 MEVDRSPGLPMSDLK 15 1 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;J3KSW8;Q6WCQ1-3;H0Y2S9 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 MEVDRS(1)PGLPMSDLK;MEVDRS(1)PGLPMSDLK;MEVDRS(1)PGLPMSDLK ;; 126.8 0.00027385 67425000 7814.1 7466.9 7169.1 7865.6 8627.6 9353.8 9729.8 8849.4 7618 7231.6 TRUE FALSE FALSE 8636.02289 7708.832459 8146.067613 8017.850062 7966.555152 8556.803617 8634.977297 8623.045162 7564.985718 7543.389667 1.144846451 1.021932155 1.079894845 1.062897506 1.056097524 1.134344638 1.144707841 1.143126041 1.002862911 1 12.88099724 -9.505131039 1.187231374 0.998629096 1.100933414 0.46950597 0.04114219 0.391931008 0.967038284 0.033560701 0.007677733 3.13E-10 9.505131039 0.102304318 MEVGPFS(ph)TGQESPTAENAR ddPTM_HeLa_SAHA_4h_R1 1 MEVGPFSTGQESPTAENAR 19 0 Q9Y4W2-3;Q9Y4W2-2;Q9Y4W2 Q9Y4W2-3 LAS1L Ribosomal biogenesis protein LAS1L 1 0 MEVGPFS(0.45)T(0.45)GQES(0.038)PT(0.063)AENAR 183.73 2.94E-10 4465600 756.75 1065 996.87 1165 1040.5 1023.9 1012.3 735.52 1648.6 1144.8 TRUE FALSE FALSE 836.3484371 1099.506699 1132.718252 1187.55026 960.7771148 936.6579597 898.3933398 716.7064634 1637.127258 1194.157931 0.70036669 0.920738096 0.948549788 0.994466669 0.804564531 0.784366905 0.752323723 0.600177284 1.370947022 1 10.22177793 -4.365919262 1.070444743 0.874387683 0.505460345 0.229376312 0.179049767 1.380652146 1.403012146 0.018669914 0.551148596 4.31E-05 4.365919262 -0.368927338 MEVGPFSTGQES(ph)PTAENAR ddPTM_HeLa_SAHA_4h_R1 1 MEVGPFSTGQESPTAENAR 19 0 Q9Y4W2-3;Q9Y4W2-2;Q9Y4W2 Q9Y4W2-3 LAS1L Ribosomal biogenesis protein LAS1L 1 0 MEVGPFS(0.001)T(0.026)GQES(0.923)PT(0.05)AENAR 133.95 7.50E-05 5492200 594.28 825.23 770.58 535.59 759.37 809.03 729.65 643.54 857.51 737.91 TRUE FALSE FALSE 656.7890971 851.9679935 875.5906294 545.9571189 701.1872347 740.0960925 647.5478617 627.0791786 851.5425181 769.7249113 0.853277694 1.10684737 1.137537082 0.709288618 0.910958219 0.961507263 0.8412718 0.814679594 1.106294607 1 9.588199129 -6.250642655 24.99028325 0.959068166 0.857047447 0.320949554 0.112217349 1058.186754 2449296.358 0.01729732 0.028495927 5.62E-07 6.250642655 -0.10202072 MEVPS(ph)SFS(ph)EDMSNIR ddPTM_HeLa_SAHA_4h_R1 1 MEVPSSFSEDMSNIR 15 0 H7C150;H7C183;Q70CQ2-3;Q70CQ2-2;Q70CQ2 H7C150 USP34 Ubiquitin carboxyl-terminal hydrolase 34 2 0 MEVPS(0.546)S(0.546)FS(0.908)EDMSNIR 54.784 0.021028 7758000 554.06 619.71 573.1 563.01 727.82 671.27 590.26 679.72 1145 693.4 TRUE FALSE FALSE 612.3385729 639.7890106 651.1990834 573.9078727 672.0545888 614.0740195 523.8423913 662.3337466 1137.031852 723.2958674 0.846594873 0.884546752 0.900321864 0.79346212 0.929155853 0.848994232 0.724243584 0.915716205 1.57201486 1 9.498442099 -12.15624317 0.247688947 1.438182713 0.832925391 0.279720417 0.18851828 14.57246352 0.348423673 3.17320869 0.035798332 6.98E-13 12.15624317 -0.605257323 MFGGPGTASRPSSSR ddPTM_HeLa_SAHA_4h_R1 1 MFGGPGTASRPSSSR 15 1 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 0 0 71.976 0.022059 4171700 931.79 1224.6 1206.2 1046.4 1027.7 1021.2 1140.6 865.92 577.99 999.93 FALSE FALSE TRUE 1029.799947 1264.277843 1370.574654 1066.654585 948.957848 934.1880149 1012.256686 843.7710202 573.9677205 1043.041876 0.987304509 1.212106506 1.314016902 1.022638314 0.909798417 0.895638072 0.970485183 0.8089522 0.550282528 1 10.02658136 -5.772653608 5.410888181 1.040861129 0.900564173 0.075305465 0.190414379 0.209524622 18.35196827 0.018761447 0.035883557 1.69E-06 5.772653608 -0.140296956 MFIFSEEKR ddPTM_HeLa_SAHA_4h_R1 1 MFIFSEEKR 9 1 E9PLT2 E9PLT2 UBTF 0 0 99.136 0.023143 33275000 1291.8 1390.7 1572.1 1662.9 1853.8 1922 1885.3 1387.6 1825.6 1764.4 FALSE FALSE TRUE 1427.677451 1435.759592 1786.337601 1695.087834 1711.762244 1758.234787 1673.161082 1352.107201 1812.895501 1840.471919 0.775712705 0.780104047 0.970586719 0.92100717 0.930067026 0.955317367 0.909093513 0.734652448 0.985016659 1 10.84586002 -9.624794958 1.467539709 0.999393096 0.864590133 0.27163409 0.078085539 0.461115566 1.796623125 0.059763087 0.013930949 2.37E-10 9.624794958 -0.134802962 MFIGGLSWDTSKK ddPTM_HeLa_SAHA_4h_R1 1 MFIGGLSWDTSKK 13 1 O14979-3;O14979-2;A0A087WUK2;O14979 O14979-3 HNRNPDL Heterogeneous nuclear ribonucleoprotein D-like 0 0 110.98 0.0017981 1555700 401.13 360 724.11 537.46 454 304.36 321.3 278.59 208.98 306.49 FALSE FALSE TRUE 443.3226939 371.6642362 822.7879398 547.8633155 419.2146181 278.4268157 285.1464784 271.4640712 207.5256912 319.7042838 1.386664853 1.162525043 2.573590601 1.713656473 1.311257432 0.870888599 0.891906968 0.849109896 0.649117643 1 8.320594265 -5.271152877 6.354346069 1.34074145 0.871126684 0.197633074 0.478396108 0.215248241 43.11025584 0.069173573 0.164112247 5.36E-06 5.271152877 -0.469614766 MFIGGLSWDTTKK ddPTM_HeLa_SAHA_4h_R1 2 MFIGGLSWDTTKK 13 1 Q14103-3;Q14103;H0YA96;D6RAF8;H0Y8G5;Q14103-4;Q14103-2;D6RD83;D6RF44;D6RBQ9 Q14103-3 HNRNPD Heterogeneous nuclear ribonucleoprotein D0 0 0 ; ; 122.34 0.00058593 3800200 2034.25 2087.85 2685.76 3123.83 3243.4 2801.12 3464.92 1888.29 2342.48 2610.34 FALSE FALSE TRUE 2248.221748 2155.49771 3051.761386 3184.296247 2994.891393 2562.448817 3075.038082 1839.990276 2326.178491 2722.884532 0.825676492 0.791622885 1.120782519 1.169456952 1.099896583 0.941078767 1.129331063 0.675750387 0.854306697 1 11.41092009 -6.753846167 24.99070041 0.905926136 1.034029633 0.197344893 0.143983012 253.8345865 835414.7204 0.023117396 0.03233142 1.76E-07 6.753846167 0.128103496 MFLHLWVMTK ddPTM_HeLa_SAHA_4h_R1 1 MFLHLWVMTK 10 0 P08118-2 P08118-2 0 0 87.323 0.0069244 0 1026.4 1131.4 996.93 1089 880.11 1101.1 1112.5 1158.8 1199.2 824.35 FALSE FALSE TRUE 1134.361461 1168.058102 1132.786429 1110.07917 812.6761619 1007.280085 987.3185721 1129.159574 1190.85467 859.8917628 1.319190985 1.358378057 1.317359321 1.290952208 0.945091228 1.171403343 1.148189359 1.313141517 1.38488903 1 9.748011265 -9.423358618 1.184349816 1.001567152 1.235388651 0 0.165223553 0.445495159 1.129224597 0.08355284 0.02162801 3.77E-10 9.423358618 0.233821499 MFLYADNEDR ddPTM_HeLa_SAHA_4h_R1 1 MFLYADNEDR 10 0 Q5TGM0;A0A087WY55;Q9NP79-2;Q9NP79 Q5TGM0 VTA1 Vacuolar protein sorting-associated protein VTA1 homolog 0 0 125.71 0.01353 2932300 795.59 764.12 979.52 703.1 659.03 934.15 844.48 744.04 813.66 870.88 FALSE FALSE TRUE 879.2738065 788.8779894 1113.003884 716.7095172 608.5352638 854.5551646 749.4568879 725.0085342 807.9976738 908.4278988 0.967907093 0.868399122 1.225197824 0.788955863 0.669877339 0.940696742 0.825004262 0.798091445 0.889446124 1 9.827228203 MFNSMTPPPISS(ph)YGEPCCLR ddPTM_HeLa_SAHA_4h_R1 1 MFNSMTPPPISSYGEPCCLR 20 0 E9PQQ1;P08151-2;P08151 E9PQQ1 GLI1 Zinc finger protein GLI1 1 0 MFNS(0.013)MT(0.003)PPPIS(0.203)S(0.706)Y(0.076)GEPCCLR 50.055 0.017116 5053200 359.17 594.59 381.6 386.05 321.7 111.21 548.05 383.79 776.07 434.73 TRUE FALSE FALSE 396.9491485 613.8551061 433.6024607 393.522556 297.0514155 101.7342823 486.3819716 373.9732075 770.6692657 453.4733378 0.875352784 1.353674086 0.956180716 0.867796457 0.655058172 0.224344573 1.072570162 0.824686208 1.699480877 1 8.824873919 -5.953251671 3.559588073 0.976756528 0.689309588 0.234721052 0.325415933 0.258749565 6.836163145 0.035184417 0.06522315 1.11E-06 5.953251671 -0.28744694 MFS(ph)PMEEK ddPTM_HeLa_SAHA_4h_R1 3 MFSPMEEK 8 0 Q9UHB7;Q9UHB7-2 Q9UHB7 AFF4 AF4/FMR2 family member 4 1 0 MFS(1)PMEEK;MFS(1)PMEEK;MFS(1)PMEEK ;; 109.83 0.0064976 20784000 4836.2 6534.3 4392.7 5493.9 6027.5 7702.1 6375.6 5882.6 8069.4 6485.1 TRUE FALSE FALSE 5344.893705 6746.015607 4991.31428 5600.242379 5565.674252 7045.837749 5658.200708 5732.13161 8013.244388 6764.704398 0.790114895 0.997237309 0.737846621 0.827862098 0.822752026 1.041558852 0.836429853 0.847358772 1.184566822 1 12.72381118 -9.519283134 1.239532101 1.000939128 0.856830541 0.365802713 0.105676533 0.498833195 1.35750979 0.06154368 0.014385381 3.02E-10 9.519283134 -0.144108587 MFVGGLSWDTSKK ddPTM_HeLa_SAHA_4h_R1 1 MFVGGLSWDTSKK 13 1 Q99729-3;Q99729-4;D6R9P3;D6RD18;D6RBZ0;Q99729-2;Q99729 Q99729-3 HNRNPAB Heterogeneous nuclear ribonucleoprotein A/B 0 0 115.57 0.0010308 1409700 1097.3 710.26 1257.8 1350.7 1084.1 1077.2 1322 779.26 749.37 1086.1 FALSE FALSE TRUE 1212.719049 733.27289 1429.206434 1376.844752 1001.036492 985.4164998 1173.245081 759.3276576 744.1550732 1132.927086 1.070429918 0.647237496 1.261516695 1.215298644 0.883584217 0.869796929 1.035587457 0.67023524 0.656842865 1 10.1458393 -3.695676048 1.139754327 1.021961602 8.78E-31 0.079128403 0.204667703 5.511296696 2.359209861 0.024246208 9.22404736 0.000201523 3.695676048 -1.021961602 MFVLDEADEMLSR ddPTM_HeLa_SAHA_4h_R1 2 MFVLDEADEMLSR 13 0 P60842;P60842-2;J3KT12;J3QS69;J3QL43;J3KTB5;Q14240-2;J3QR64;Q14240;E7EQG2;J3KSZ0;J3QLN6;J3KTN0 P60842 EIF4A1;EIF4A2 "Eukaryotic initiation factor 4A-I;Eukaryotic initiation factor 4A-II;Eukaryotic initiation factor 4A-II, N-terminally processed" 0 0 ; ; 328.29 6.69E-114 147519000 544.74 481.32 587.73 639.67 545.09 674.64 717.68 774.3 715.5 599.06 FALSE FALSE TRUE 602.0382526 496.9150838 667.8227836 652.0517378 503.325322 617.1568766 636.9247576 754.4945272 710.5207772 624.8884083 0.963433222 0.795206115 1.068707268 1.043469088 0.805464328 0.98762734 1.019261598 1.207406822 1.137036258 1 9.287454768 -4.254283651 2.365042562 0.967315213 1.26693943 0.319022086 0.101059699 0.435320106 2.837415573 0.01164596 0.268504181 5.57E-05 4.254283651 0.299624217 MFVSSSGLPPS(ph)PVPSPR ddPTM_HeLa_SAHA_4h_R1 5 MFVSSSGLPPSPVPSPR 17 0 Q7Z309;Q7Z309-2;G1UD79;Q7Z309-4;Q7Z309-3;Q7Z309-5 Q7Z309 FAM122B;SPACIA2 Protein FAM122B 1 0 MFVSSS(0.001)GLPPS(0.995)PVPS(0.004)PR;MFVSSSGLPPS(0.977)PVPS(0.023)PR;MFVSSSGLPPS(0.999)PVPS(0.001)PR;MFVSSSGLPPS(0.786)PVPS(0.214)PR;MFVSS(0.001)S(0.001)GLPPS(0.996)PVPS(0.003)PR ;;;; 158.14 6.54E-06 27547200 6062.74 6699.69 5735.64 6624.61 7085.96 7628.51 7189.9 6838.58 7168.03 7087.11 TRUE FALSE FALSE 6700.44681 6916.764352 6517.263149 6752.838906 6543.035276 6978.518031 6380.873529 6663.659026 7118.147096 7392.669996 0.906363576 0.93562466 0.881584482 0.913450608 0.885070655 0.943978026 0.863135178 0.901387324 0.962865528 1 12.8518798 -9.587320328 0.39814604 1.04387375 0.896798679 0.591558256 0.025207355 1.073135683 0.184734797 0.068770072 0.006970658 2.59E-10 9.587320328 -0.147075071 MGAGLGHGMDR ddPTM_HeLa_SAHA_4h_R1 1 MGAGLGHGMDR 11 0 A0A087X0X3;P52272-2;P52272;M0R2T0;M0QZM1 A0A087X0X3 HNRNPM Heterogeneous nuclear ribonucleoprotein M 0 0 101.93 0.0075111 2311100 2770.6 2423.7 2602.8 2619.3 2799.9 2829.5 2999.1 2770.7 3148.6 2537.9 FALSE FALSE TRUE 3062.02442 2502.22947 2957.496029 2670.000339 2585.372267 2588.410682 2661.633375 2699.829506 3126.688636 2647.321289 1.156650095 0.945192969 1.117165507 1.008566792 0.976599356 0.977747088 1.005406252 1.019834471 1.181076377 1 11.37031758 -6.080747893 7.647435709 1.067037045 0.99417928 0.268821815 0.066524284 0.359330033 30.45815162 0.010413051 0.017341091 8.30E-07 6.080747893 -0.072857766 MGANS(ph)LER ddPTM_HeLa_SAHA_4h_R1 1 MGANSLER 8 0 A0A087X0X3;P52272-2;P52272;M0R2I7;M0QY96;M0QZM1 A0A087X0X3 HNRNPM Heterogeneous nuclear ribonucleoprotein M 1 0 MGANS(1)LER 88.134 0.019735 24501000 2677.7 2397.5 2778.1 3115.5 2937.8 3497.1 2746.1 3115.2 2819.1 2671.2 TRUE FALSE FALSE 2959.352772 2475.180573 3156.685 3175.805008 2712.706399 3199.127406 2437.101601 3035.517695 2799.481654 2786.368505 1.062082337 0.88831774 1.132902915 1.139764896 0.973563401 1.148135073 0.874651575 1.089417171 1.004706179 1 11.44417036 -4.759400964 24.9999833 1.037501479 0.982034446 0.064122375 0.091810221 118.6071063 1454529.128 0.011660366 0.039668472 1.74E-05 4.759400964 -0.055467033 MGESDDSILR ddPTM_HeLa_SAHA_4h_R1 1 MGESDDSILR 10 0 Q8WVC2;P63220 Q8WVC2 RPS21 40S ribosomal protein S21 0 0 160.82 0.0012749 14458000 1494.2 1601.7 1546 1474.9 1759.7 1993.1 1770 1756.9 1897.2 1428.5 FALSE FALSE TRUE 1651.366812 1653.596131 1756.680829 1503.448822 1624.872166 1823.276667 1570.834942 1711.961042 1883.997231 1490.089626 1.108233212 1.109729309 1.178909509 1.008965364 1.09045264 1.223602014 1.054188228 1.148898034 1.264351619 1 10.54118339 -9.143583583 0.557486921 0.982778713 1.117660793 0 0.100645995 1.015535485 0.475792983 0.07116832 0.013619321 7.18E-10 9.143583583 0.134882079 MGGEEKPIGAGEEK ddPTM_HeLa_SAHA_4h_R1 1 MGGEEKPIGAGEEK 14 1 P26639;P26639-2;D6RCA5;D6R9F8;D6RDJ6;D6RJ97;D6RHV7;D6RCS6 P26639 TARS "Threonine--tRNA ligase, cytoplasmic" 0 0 102.52 0.0058201 5970900 1079 1128.3 844.44 1113.4 1098.1 1254.1 1159.7 1196.3 1369.6 1035.7 FALSE FALSE TRUE 1192.494171 1164.85766 959.5158855 1134.951467 1013.963815 1147.243625 1029.207504 1165.700378 1360.068842 1080.354096 1.10379937 1.078218396 0.888149441 1.050536552 0.938547666 1.061914449 0.952657567 1.078998435 1.258910248 1 10.07728853 MGIYVGAK ddPTM_HeLa_SAHA_4h_R1 2 MGIYVGAK 8 0 Q01813;Q5VSR5;V9GYV7;P17858;P17858-2 Q01813;P17858 PFKP;PFKL "ATP-dependent 6-phosphofructokinase, platelet type;ATP-dependent 6-phosphofructokinase, liver type" 0 0 ; ; 129.96 0.0010384 3303600 4114.9 3736.9 4788.5 4883 4424.7 3714 4487.7 2476.2 2440.7 3112.4 FALSE FALSE TRUE 4547.724062 3857.978012 5441.051843 4977.517526 4085.680442 3397.546306 3982.732185 2412.862389 2423.71497 3246.590796 1.400769098 1.188316685 1.675927822 1.533152109 1.258452543 1.046496624 1.226742893 0.743198802 0.746541564 1 11.66470984 -3.864964952 1.400743335 1.253208125 4.55E-15 0.244132314 0.254466676 3.502225636 2.885883181 0.035020333 8.09360927 0.000136469 3.864964952 -1.253208125 MGLS(ph)MER ddPTM_HeLa_SAHA_4h_R1 1 MGLSMER 7 0 A0A087X0X3;P52272-2;P52272;M0R2I7;M0QZM1 A0A087X0X3 HNRNPM Heterogeneous nuclear ribonucleoprotein M 1 0 MGLS(1)MER 85.862 0.023476 14609000 1701.1 1847.4 1471.8 1637.1 1934 2034.9 2216.9 1959.3 1868.6 1613.5 TRUE FALSE FALSE 1880.029503 1907.256972 1672.369239 1668.788438 1785.817338 1861.515072 1967.448577 1909.183943 1855.59626 1683.065881 1.117026686 1.13320399 0.993644549 0.991517003 1.061050169 1.106026266 1.168967061 1.134348907 1.102509582 1 10.71687593 MGPSGGEGMEPERR ddPTM_HeLa_SAHA_4h_R1 1 MGPSGGEGMEPERR 14 1 C9J9W2;Q14847;Q14847-2;Q14847-3 C9J9W2 LASP1 LIM and SH3 domain protein 1 0 0 86.699 0.0062328 0 1357.3 1629 1038 1142.8 1652.8 2120.9 1771 1830.7 1766.9 1261.6 FALSE FALSE TRUE 1500.067042 1681.780669 1179.453234 1164.920547 1526.162821 1940.187388 1571.722419 1783.873345 1754.603999 1315.99375 1.139873986 1.277954906 0.896245316 0.885202188 1.1597037 1.474313528 1.19432362 1.355533295 1.333292046 1 10.36193692 -5.51426284 24.65213991 1.058300898 1.325071046 0.345105859 0.15180333 223.3095022 638939.847 0.018652674 0.038895778 3.06E-06 5.51426284 0.266770148 MGPSGGEGMEPERRDS(ph)QDGSSYR ddPTM_HeLa_SAHA_4h_R1 1 MGPSGGEGMEPERRDSQDGSSYR 23 2 C9J9W2;Q14847;Q14847-2;Q14847-3 C9J9W2 LASP1 LIM and SH3 domain protein 1 1 0 MGPSGGEGMEPERRDS(0.834)QDGS(0.048)S(0.071)Y(0.048)R 68.134 0.0011817 42772000 1031.2 848.98 836.8 999.25 1057.1 1017.3 1283.8 972.19 1148.7 913.83 TRUE FALSE FALSE 1139.666347 876.487509 950.8347461 1018.591929 976.1052264 930.6203168 1139.343445 947.3227875 1140.706103 953.2296835 1.195584199 0.919492463 0.997487555 1.068569251 1.023997934 0.976281302 1.195245453 0.993803282 1.19667497 1 9.896680067 -7.26568271 24.90549321 1.092359201 1.030238972 0.198178433 0.087395163 669.7423672 3930916.955 0.016390263 0.019100772 5.42E-08 7.26568271 -0.062120229 MGQAPSQSLLPPAQDQPRS(ph)PVPSAFSDQSR ddPTM_HeLa_SAHA_4h_R1 4 MGQAPSQSLLPPAQDQPRSPVPSAFSDQSR 30 1 Q9UQ35;I3L3Q8 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 MGQAPS(0.001)QS(0.001)LLPPAQDQPRS(0.928)PVPS(0.064)AFS(0.005)DQS(0.001)R;MGQAPSQSLLPPAQDQPRS(0.493)PVPS(0.191)AFS(0.083)DQS(0.233)R;MGQAPSQSLLPPAQDQPRS(0.878)PVPS(0.087)AFS(0.034)DQS(0.001)R;MGQAPSQSLLPPAQDQPRS(0.915)PVPS(0.08)AFS(0.005)DQSR ;;; 110.7 1.10E-09 323427000 3583.31 2983.5 3002.25 3087.6 3776.15 4114.86 3978.17 3490.01 3562.36 3197.48 TRUE FALSE FALSE 3960.218987 3080.167358 3411.380995 3147.364963 3486.822203 3764.250778 3530.535842 3400.740598 3537.569247 3335.339011 1.187351263 0.923494538 1.022798877 0.943641697 1.04541763 1.128596154 1.058523835 1.019608677 1.060632588 1 11.70361769 -7.262341611 24.99993493 1.088471427 1.024047019 0.143510979 0.068958229 144.181491 3995089.64 0.014847445 0.01750058 5.47E-08 7.262341611 -0.064424409 MGS(ph)KSPGNTSQPPAFFSK ddPTM_HeLa_SAHA_4h_R1 2 MGSKSPGNTSQPPAFFSK 18 1 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;H7C184;Q9Y618-2 C9JE98;Q9Y618-2 NCOR2 Nuclear receptor corepressor 2 1 0 MGS(0.497)KS(0.497)PGNT(0.004)S(0.002)QPPAFFSK;MGS(0.491)KS(0.491)PGNT(0.015)S(0.003)QPPAFFSK ; 63.522 0.011964 33247000 6945.8 5638.8 6576.5 7268.4 6812.2 7355.1 7395.9 6977.2 5351.9 6377.9 TRUE FALSE FALSE 7676.391112 5821.50082 7472.711171 7409.090392 6290.250708 6728.404101 6563.693867 6798.733327 5314.655692 6652.882482 1.153844388 0.875034368 1.123229095 1.113666206 0.945492533 1.011351714 0.986593989 1.021922955 0.798850078 1 12.69976383 -5.760439915 24.99999952 1.064651071 0.992430667 0 0.113154235 40.90718553 1023178.654 0.012311068 0.02353687 1.74E-06 5.760439915 -0.072220404 MGS(ph)PAPLLPGDLLGGGSDSI ddPTM_HeLa_SAHA_4h_R1 1 MGSPAPLLPGDLLGGGSDSI 20 0 Q9UPQ9-1;Q9UPQ9;Q9UPQ9-2 Q9UPQ9-1 TNRC6B Trinucleotide repeat-containing gene 6B protein 1 0 MGS(1)PAPLLPGDLLGGGSDSI 110.6 0.00046377 24486000 679.33 796.38 863.32 819.4 819.63 578.7 899.24 240.36 622.17 627.65 TRUE FALSE FALSE 750.7850463 822.1832345 980.9687536 835.2606719 756.8301265 529.3915043 798.0551485 234.2119392 617.8402683 654.7110631 1.146742569 1.255795542 1.498323167 1.275769907 1.155975772 0.808587993 1.218942513 0.357733285 0.943683868 1 9.354714547 -4.256891653 24.56703932 1.121266726 0.35773289 0.619411033 0.18426731 199.0366691 1075155.248 0.026330808 0.279977138 5.53E-05 4.256891653 -0.763533836 MGS(ph)S(ph)KKHR ddPTM_HeLa_SAHA_4h_R1 1 MGSSKKHR 8 2 O43290;E9PQI8 O43290 SART1 U4/U6.U5 tri-snRNP-associated protein 1 2 0 MGS(1)S(1)KKHR 53.166 0.0077879 0 560.48 366.84 181.41 622.82 663.62 902.38 563.95 569.83 726.17 665.51 TRUE FALSE FALSE 619.433858 378.7258567 206.1316101 634.8755817 612.773579 825.4921473 500.4928618 555.2545737 721.1165238 694.203393 0.892294483 0.545554603 0.296932588 0.914538287 0.882700351 1.189121453 0.720959976 0.799844223 1.038768365 1 9.439214606 -7.493049791 9.104469026 0.952764559 0.76752607 0.163346381 0.222757739 0.512860519 145.2505714 0.041133415 0.045457505 3.21E-08 7.493049791 -0.185238489 MGS(ph)SPLEVPKPR ddPTM_HeLa_SAHA_4h_R1 1 MGSSPLEVPKPR 12 1 Q8NCE2-2;Q8NCE2 Q8NCE2-2 MTMR14 Myotubularin-related protein 14 1 0 MGS(0.5)S(0.5)PLEVPKPR 76.311 0.014976 2723400 534.35 670.86 785.02 583.13 767.98 929.9 925.34 1131 855.25 791.6 TRUE FALSE FALSE 590.5553847 692.5963042 891.9984374 594.4173244 709.1375383 850.6672885 821.2183078 1102.070658 849.2982456 825.72975 0.715192089 0.838768743 1.080254693 0.719869091 0.858801004 1.030200606 0.994536418 1.334662652 1.028542626 1 9.689525874 -3.175315364 0.857556907 0.866515784 3.694564926 0.518644723 0.122113174 7.253716168 0.961076624 0.020823041 29.98501425 0.000667859 3.175315364 2.828049142 MHDGELEEQEEDDEKS(ph)DSEGGDLDK ddPTM_HeLa_SAHA_4h_R1 1 MHDGELEEQEEDDEKSDSEGGDLDK 25 1 Q9NU22 Q9NU22 MDN1 Midasin 1 0 MHDGELEEQEEDDEKS(0.889)DS(0.111)EGGDLDK 43.956 0.016555 5033100 625.36 860.87 618.31 835.69 688.81 323.52 721.59 659.27 843.16 772.33 TRUE FALSE FALSE 691.1382341 888.7627528 702.5700668 851.8659884 636.0335266 295.9542759 640.3947941 642.406828 837.2923809 805.628926 0.857886568 1.103191214 0.872076516 1.057392505 0.789486954 0.367358056 0.794900448 0.797397918 1.039302778 1 9.653971674 -5.526279637 18.09502075 0.947242545 0.652559555 0.546096286 0.135618891 1.893943202 10077.25588 0.018874606 0.038114925 2.98E-06 5.526279637 -0.29468299 MHDLNTDQENLVGTHDAPIR ddPTM_HeLa_SAHA_4h_R1 1 MHDLNTDQENLVGTHDAPIR 20 0 J3QT28;O43684-2;O43684;J3QSX4 J3QT28 BUB3 Mitotic checkpoint protein BUB3 0 0 71.842 0.0026988 6905000 806.3 1027.5 931.37 1120 1202.9 761.78 1222.8 1311.5 1056.9 940.46 FALSE FALSE TRUE 891.1103334 1060.791674 1058.292253 1141.67922 1110.734062 696.8720583 1085.207326 1277.953729 1049.544947 981.0078331 0.908362098 1.081328444 1.078780635 1.163781961 1.132237709 0.710363399 1.106216779 1.302694725 1.069863982 1 9.938120846 -7.247948653 23.4211647 0.956726547 1.073753529 0.054799461 0.14633533 537.8930942 933832.4105 0.023942213 0.029217845 5.65E-08 7.247948653 0.117026982 MHEFHS(ph)QENLVVHIPK ddPTM_HeLa_SAHA_4h_R1 2 MHEFHSQENLVVHIPK 16 0 H3BRG5;Q9Y3M8-5;Q9Y3M8-3;Q9Y3M8-4;Q9Y3M8-2;Q9Y3M8 H3BRG5 STARD13 StAR-related lipid transfer protein 13 1 0 MHEFHS(1)QENLVVHIPK;MHEFHS(1)QENLVVHIPK ; 86.898 0.015264 20958000 1070.37 1306.55 1100.5 1116.6 1147.24 1172.06 1407.56 947.46 841.26 886.5 TRUE FALSE FALSE 1182.956428 1348.883077 1250.470409 1138.213408 1059.338719 1072.193894 1249.177644 923.2253451 835.4056032 924.7213534 1.279257177 1.458691391 1.352267258 1.230871768 1.14557614 1.159477815 1.350869253 0.998382206 0.903413336 1 9.852874893 -9.153791659 1.004387252 1.006073441 1.252537171 0.444752745 0.127298749 0.437351676 0.821320797 0.072437302 0.02292976 7.02E-10 9.153791659 0.24646373 MHQMNAKMHFR ddPTM_HeLa_SAHA_4h_R1 1 MHQMNAKMHFR 11 1 Q9HCL0-2;Q9HCL0 Q9HCL0-2 PCDH18 Protocadherin-18 0 0 45.973 0.022937 8693000 1204.4 914.07 757.75 1260.3 1016.9 837.72 1085.7 804.16 769.64 927.78 FALSE FALSE TRUE 1331.084318 943.6864677 861.0122238 1284.694929 938.9853417 766.3415431 963.5341786 783.5907516 764.2840126 967.7811362 1.375398081 0.975103184 0.889676593 1.327464321 0.970245551 0.791854185 0.995611655 0.809677645 0.789728156 1 9.918537009 -5.547916704 11.77027995 1.149960909 0.879075504 0.067873389 0.189450049 0.62301472 290.9259003 0.026652134 0.053446728 2.83E-06 5.547916704 -0.270885405 MIAGQVLDINLAAEPK ddPTM_HeLa_SAHA_4h_R1 1 MIAGQVLDINLAAEPK 16 0 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;B2R5W2;G3V4W0;G3V576;G3V575;G3V555;B4DSU6;G3V251;G3V3K6;G3V5X6;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 0 0 175.15 1.77E-11 1051100 0 65.479 0 236.35 0 0 0 158.34 0 0 FALSE FALSE TRUE 0 67.60056256 0 240.924896 0 0 0 154.2898921 0 0 0 MIAILTENYGGK ddPTM_HeLa_SAHA_4h_R1 1 MIAILTENYGGK 12 0 P26639;P26639-2 P26639 TARS "Threonine--tRNA ligase, cytoplasmic" 0 0 167.09 2.60E-10 331390 0 200.65 166.09 164.03 320.41 0 151.09 0 109.89 168.19 FALSE FALSE TRUE 0 207.1511917 188.7238802 167.2050378 295.860255 0 134.0889556 0 109.1252665 175.441494 0 1.180742291 1.075708351 0.953052975 1.686375602 0 0.764294424 0 0.622003746 1 7.454846192 MIIPPMFGAVQSVR ddPTM_HeLa_SAHA_4h_R1 1 MIIPPMFGAVQSVR 14 0 E9PIN9 E9PIN9 ACER3 0 0 99.53 0.0021834 0 1177.9 754.14 609.32 1025.8 1040 948.26 1181.8 1063.8 874.16 1072.1 FALSE FALSE TRUE 1301.796926 778.5746308 692.3549564 1045.655842 960.3154247 867.4629132 1048.820754 1036.589536 868.0766494 1118.323478 1.164061161 0.696198056 0.619100797 0.935020916 0.858709885 0.775681572 0.937850966 0.926913864 0.776230372 1 10.12712184 -7.266834018 24.9910106 1.077473328 0.822107396 0.108073911 0.142104642 266.8108884 1236016.331 0.020117631 0.023353123 5.41E-08 7.266834018 -0.255365932 MIKPFFHSLSEK ddPTM_HeLa_SAHA_4h_R1 1 MIKPFFHSLSEK 12 1 P10599 P10599 TXN Thioredoxin 0 0 65.179 0.019119 4262100 4910.6 5847.8 5921.5 5103 7553 5030.5 8781.2 2997 3517.5 5153.9 FALSE FALSE TRUE 5427.119439 6037.272557 6728.451182 5201.775944 6974.290772 4601.873099 7793.116265 2920.34108 3493.021431 5376.109852 1.009488197 1.122981621 1.251546447 0.96757248 1.297274603 0.85598569 1.44958278 0.543207107 0.649730293 1 12.3923469 -7.312512264 9.185376777 1.004418595 1.087917914 0.036789129 0.263337988 1.489113261 259.6168083 0.035347593 0.040411988 4.87E-08 7.312512264 0.083499318 MINLSVPDTIDER ddPTM_HeLa_SAHA_4h_R1 1 MINLSVPDTIDER 13 0 P13796;Q5TBN3;P13797-3;P13797;A0A0A0MSQ0;P13797-2;U3KQI3 P13796;P13797-3 LCP1;PLS3 Plastin-2;Plastin-3 0 0 112.84 0.0090699 2888200 567.06 711.41 727.26 642.86 697.64 780.54 729.68 612.6 736.37 697.84 FALSE FALSE TRUE 626.7059726 734.4601508 826.3672054 655.3034849 644.1869739 714.0336008 647.574486 596.930579 731.2455412 727.9272975 0.860945832 1.008974596 1.135233159 0.900232052 0.884960594 0.980913346 0.889614235 0.820041481 1.004558482 1 9.507650557 -4.463995518 3.04110558 0.949230194 0.820365575 0.251450918 0.077081228 0.375994857 6.096802948 0.011912999 0.090268243 3.44E-05 4.463995518 -0.128864619 MIPCDFLIPVQTQHPIR ddPTM_HeLa_SAHA_4h_R1 1 MIPCDFLIPVQTQHPIR 17 0 A0A2U3TZU2;P06744-2;P06744;K7EQ48;K7ESF4 A0A2U3TZU2 GPI Glucose-6-phosphate isomerase 0 0 87.519 0.0062983 319300 215.61 69.712 0 0 0 308.81 171.9 281.82 175.5 217.54 FALSE FALSE TRUE 238.2888491 71.97071454 0 0 0 282.4976507 152.5573596 274.6114525 174.2786812 226.919214 1.050104329 0.31716448 0 0 0 1.244926094 0.672298114 1.210172764 0.768020822 1 7.826034962 -7.269928805 24.05797699 1.023660401 0.471188791 0.169328045 0.440636196 399.0555605 1130871.805 0.077809771 0.089781116 5.37E-08 7.269928805 -0.55247161 MIPCDFLIPVQTQHPIRK ddPTM_HeLa_SAHA_4h_R1 2 MIPCDFLIPVQTQHPIRK 18 1 A0A2U3TZU2;P06744-2;P06744;K7EQ48;K7ESF4 A0A2U3TZU2 GPI Glucose-6-phosphate isomerase 0 0 ; ; 70.98 0.0039348 1938490 1398.57 905.95 1161.42 1416.66 1365.77 1363.12 1388.24 976.99 1045.17 1251.82 FALSE FALSE TRUE 1545.678009 935.3033744 1319.692269 1444.081503 1261.124998 1246.974507 1232.031582 952.0000105 1037.896577 1305.792086 1.183709126 0.716272816 1.01064502 1.105904621 0.965793108 0.954956398 0.943512826 0.729059412 0.794840609 1 10.35070949 -3.113060539 0.492688808 1.060915346 7.94E-15 0 0.147016469 10.49802665 0.741143962 0.026941785 8.343352978 0.000770796 3.113060539 -1.060915346 MISDAIPELK ddPTM_HeLa_SAHA_4h_R1 1 MISDAIPELK 10 0 P40926;P40926-2;G3XAL0 P40926 MDH2 "Malate dehydrogenase, mitochondrial;Malate dehydrogenase" 0 0 111.65 0.01096 637950 581.97 1024.9 672.85 575.76 949.37 688.95 869.71 699.91 715.2 627.33 FALSE FALSE TRUE 643.1842748 1058.107432 764.5424939 586.9046674 876.6294757 630.2475841 771.8479418 682.0073157 710.222865 654.3772664 0.982895201 1.616968509 1.168351245 0.896890368 1.339639258 0.963125733 1.179515215 1.042223425 1.085341593 1 9.353978818 MISTPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 MISTPSPK 8 0 Q53F19;Q53F19-2 Q53F19 C17orf85 Uncharacterized protein C17orf85 1 0 MISTPS(1)PK 134.84 0.0014347 76628000 4901.6 4697.5 4141.8 4781.2 5210.3 4912.3 4736.4 4690.7 5121.6 4881.2 TRUE FALSE FALSE 5417.172777 4849.702082 4706.222934 4873.74704 4811.08794 4493.744404 4203.447806 4570.718686 5085.958369 5091.65242 1.063932164 0.952480979 0.92430169 0.957203406 0.944897166 0.882570929 0.825556707 0.897688669 0.998881689 1 12.31391822 -6.110848813 0.689098862 1.028901538 0.859934289 0.672993056 0.036664264 0.312960987 0.281894641 0.008817521 0.025676868 7.75E-07 6.110848813 -0.168967249 MIYASSK ddPTM_HeLa_SAHA_4h_R1 2 MIYASSK 7 0 P23528;G3V1A4;E9PP50;E9PK25;E9PQB7;Q9Y281-3;P60981;P60981-2;F6RFD5;Q9Y281 P23528;P60981;Q9Y281 CFL1;CFL2;DSTN Cofilin-1;Cofilin-2;Destrin 0 0 ; ; 132.09 0.004049 29884900 6639.3 5362.9 9350.2 8076.8 7348.6 3958.5 8826 3848.7 2653.88 3665.3 FALSE FALSE TRUE 7337.652036 5536.661479 10624.39656 8233.138143 6785.551856 3621.21353 7832.875251 3750.255827 2635.411433 3823.329021 1.919178809 1.448125821 2.77883397 2.153395143 1.774775809 0.947136255 2.048705515 0.980887548 0.689297578 1 11.90061364 MK(ac)FNPFVTSDR ddPTM_HeLa_SAHA_4h_R1 1 MKFNPFVTSDR 11 1 P61254;J3QRI7;J3QQQ9;J3QQV1;E5RIT6;Q9UNX3;E5RHH1;J3KSS0 P61254 RPL26;RPL26L1 60S ribosomal protein L26;60S ribosomal protein L26-like 1 0 1 MK(1)FNPFVTSDR 144.17 6.02E-05 1360500 202.71 360.75 237.08 179.79 423.38 347.73 392.26 268.53 325.24 207.84 FALSE TRUE FALSE 224.0319679 372.4385367 269.3880277 183.2700954 390.9407159 318.1014477 348.1218724 261.6613914 322.9766284 216.8009995 1.033353021 1.717882009 1.242558975 0.845337871 1.803223771 1.467250836 1.605720791 1.206919673 1.489737727 1 7.760227598 -7.377267211 9.290337524 1.014791363 1.408701667 0.045407751 0.300841344 0.29328544 21.87309752 0.043421033 0.049586949 4.20E-08 7.377267211 0.393910304 MK(ac)K(ac)VIGIIEHLK ddPTM_HeLa_SAHA_4h_R1 1 MKKVIGIIEHLK 12 2 A0A0C4DGV9;P49917 A0A0C4DGV9 LIG4 DNA ligase;DNA ligase 4 0 2 MK(1)K(1)VIGIIEHLK 54.023 0.017772 0 537.49 1160.6 878.26 746.22 1454.5 928.85 1697.6 809.38 589.6 447.2 FALSE TRUE FALSE 594.0256643 1198.204201 997.944699 760.6641672 1343.056524 849.7067544 1506.58158 788.6772316 585.4969256 466.4809805 1.27341883 2.568602476 2.139304153 1.630643475 2.879123866 1.821524971 3.229674184 1.690695365 1.255135686 1 8.86567445 -7.345321093 5.005865592 1.119950952 2.290540533 0.517140993 0.488800942 0.110933263 4.785526702 0.076809927 0.08763151 4.52E-08 7.345321093 1.170589581 MKALDEPPY(ph)LT(ph)VGT(ph)DVSAK ddPTM_HeLa_SAHA_4h_R1 1 MKALDEPPYLTVGTDVSAK 19 1 Q4LE39-2;Q4LE39;Q4LE39-3;X6RCR8 Q4LE39-2 ARID4B AT-rich interactive domain-containing protein 4B 3 0 MKALDEPPY(0.993)LT(0.994)VGT(0.595)DVS(0.419)AK 60.991 0.005367 0 421.14 331.46 283.58 243.68 351.09 169.26 211.88 382.69 354.89 343.52 TRUE FALSE FALSE 465.4374375 342.1995215 322.2248056 248.3967788 324.18956 154.8380958 188.0387048 372.9013439 352.4202916 358.3308283 1.298904255 0.954982085 0.899238302 0.693205159 0.904721376 0.432109335 0.524762845 1.040662188 0.983505364 1 8.485148358 -6.653097666 1.693524265 1.139094244 0.698271665 0.420601454 0.185553816 0.213780278 1.245508409 0.032836724 0.049962562 2.22E-07 6.653097666 -0.44082258 MKDTDSEEEIREAFR ddPTM_HeLa_SAHA_4h_R1 3 MKDTDSEEEIREAFR 15 2 P0DP25;P0DP24;P0DP23;E7EMB3;G3V361;A0A590UJI2;Q96HY3;A0A590UJC0;G3V226 P0DP25 CALM2;CALM1 0 0 ;; ;; 92.856 0.0036534 78557000 9697.3 6746.5 10789 9212.3 10141.2 10592.5 10643.1 8400.5 7379 8965.3 FALSE FALSE TRUE 10717.30651 6965.091027 12259.26873 9390.617388 9364.183447 9689.959408 9445.510377 8185.627374 7327.648938 9351.837958 1.146010715 0.744783117 1.31089405 1.004146717 1.001320114 1.036155615 1.010016472 0.875296109 0.783551744 1 13.19103422 -3.213826216 0.889430136 1.056394378 6.87E-11 0 0.15902292 17.57690669 2.540494358 0.019701433 28.04769462 0.000611187 3.213826216 -1.056394378 MKEIAEAYLGK ddPTM_HeLa_SAHA_4h_R1 2 MKEIAEAYLGK 11 1 P11142;E9PKE3;P11142-2;E9PN89;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;E9PI65 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ; ; 188.06 3.99E-17 4971200 7042.3 6435.8 7513.7 7903.4 8531.4 7847.9 8947.6 6963.7 6266.5 7071.7 FALSE FALSE TRUE 7783.041425 6644.324143 8537.627906 8056.381736 7877.725975 7179.214769 7940.792499 6785.578637 6222.890916 7376.595595 1.055099378 0.900730433 1.157394058 1.092154454 1.067935184 0.973242287 1.076484728 0.919879442 0.843599305 1 12.84873943 -1.801576438 12.6018002 1.028486968 0.879419313 0 0.095604922 0 0 0.009260975 0 0.015791506 1.801576438 -0.149067655 MKETIQGTGSWGPEPPGPGIPPAYS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 2 MKETIQGTGSWGPEPPGPGIPPAYSSPR 28 1 Q9H4L4 Q9H4L4 SENP3 Sentrin-specific protease 3 1 0 MKETIQGTGSWGPEPPGPGIPPAYS(0.5)S(0.5)PR;MKETIQGTGSWGPEPPGPGIPPAY(0.103)S(0.449)S(0.449)PR ; 110.44 9.09E-08 10228600 660.294 603.76 1028.682 911.14 892 918.36 1054.79 1069.8 892.72 952.36 TRUE FALSE FALSE 729.7467525 623.3222201 1168.865426 928.7764322 823.6551527 840.1105614 936.1022531 1042.436065 886.5074888 993.4209003 0.734579625 0.627450278 1.176606437 0.934927413 0.82910995 0.845674337 0.94230175 1.049339776 0.892378536 1 9.956261289 -6.762185876 24.99999275 0.852619623 0.949358715 0.209383656 0.132303642 41.46171262 1388568.32 0.024941877 0.033886711 1.73E-07 6.762185876 0.096739092 MKETIQGTGSWGPEPPGPGIPPAYSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 MKETIQGTGSWGPEPPGPGIPPAYSSPR 28 1 Q9H4L4 Q9H4L4 SENP3 Sentrin-specific protease 3 1 0 MKETIQGTGSWGPEPPGPGIPPAY(0.019)S(0.406)S(0.575)PR 104.07 1.68E-07 5170400 317.38 495.27 266.63 340.14 359.74 483.84 551.56 412.3 442.3 544.66 TRUE FALSE FALSE 350.7634846 511.317073 302.9649479 346.7239016 332.1767989 442.61411 489.4970172 401.753963 439.2219983 568.1429581 0.617385958 0.899979601 0.53325478 0.610275806 0.584671154 0.779054116 0.861573676 0.707135339 0.773083591 1 9.150110181 -9.388548001 0.94860528 1.012796254 0.694693596 0.166316085 0.132407937 0.425210891 0.638781529 0.098234788 0.02143148 4.09E-10 9.388548001 -0.318102658 MKGDY(ph)DVTVPK ddPTM_HeLa_SAHA_4h_R1 1 MKGDYDVTVPK 11 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 MKGDY(0.998)DVT(0.002)VPK 84.479 0.0039411 0 894.03 1343.8 924.09 1103.6 2671.9 1762.2 1524.5 1541.1 1630.6 1173.6 TRUE FALSE FALSE 988.0681774 1387.340002 1050.020173 1124.961774 2467.179599 1612.050646 1352.959248 1501.680893 1619.252522 1224.199639 0.807113599 1.133262874 0.857719721 0.918936534 2.015340897 1.316820063 1.105178603 1.226663401 1.322702989 1 10.25762313 -5.904191163 24.52476493 0.92176349 1.396781011 0.328185171 0.270528758 8.608037826 2197.076426 0.035181327 0.063771573 1.25E-06 5.904191163 0.475017522 MKLDYILGLK ddPTM_HeLa_SAHA_4h_R1 2 MKLDYILGLK 10 1 P46781;B5MCT8;C9JM19 P46781 RPS9 40S ribosomal protein S9 0 0 ; ; 90.827 0.0159 0 1498.72 1584 1731.26 2034.9 2247.03 1719.89 1848.69 889.04 802.76 1394.57 FALSE FALSE TRUE 1656.362246 1635.322639 1967.187097 2074.288432 2074.863047 1573.345696 1640.670536 866.2996441 797.1735278 1454.696738 1.138630618 1.124167393 1.35230048 1.425924991 1.426319997 1.081562676 1.12784369 0.595519067 0.547999805 1 10.50650271 -3.076013309 11.22482198 1.116159668 1.128954599 0 0.292777106 0 0 0.031185591 0 0.000839434 3.076013309 0.012794931 MKLINGKKQTFPWFGMDIGGTLVK ddPTM_HeLa_SAHA_4h_R1 1 MKLINGKKQTFPWFGMDIGGTLVK 24 3 Q8TE04-3;Q8TE04-2 Q8TE04-3 0 0 12.677 0.023814 2916200 406.19 354.74 279.31 370.17 571.07 519.27 476.55 538.52 483.45 438.23 FALSE FALSE TRUE 448.9149279 366.2338088 317.3729122 377.3351756 527.31474 475.0252747 422.9273398 524.7454382 480.0856321 457.1242399 0.982041398 0.801169084 0.69428152 0.825454313 1.153547972 1.039160108 0.925191234 1.147927395 1.050230091 1 8.836442513 -1.000000182 0.894483198 0.953584469 84.56935224 0.169803346 0.130260473 1438.217497 3.10651551 0.021552526 245484.2556 0.099999958 1.000000182 83.61576777 MKLNISFPATGCQK ddPTM_HeLa_SAHA_4h_R1 5 MKLNISFPATGCQK 14 1 P62753;A2A3R7 P62753 RPS6 40S ribosomal protein S6 0 0 ;;;; ;;;; 241.76 3.37E-56 34195500 26383.61 18733.59 31647.34 28298.64 25496.58 18448.36 31593.97 19284.15 10532.32 21142.71 FALSE FALSE TRUE 29158.75915 19340.57061 35960.07468 28846.4011 23543.03755 16876.45594 28038.93334 18790.88937 10459.02473 22054.2757 1.322136331 0.876953334 1.630526215 1.307973179 1.067504455 0.765223768 1.271360426 0.852029313 0.474240228 1 14.42877076 -5.527931115 24.32905663 1.182555402 0.980827434 0 0.318088526 150.2940344 723721.4528 0.033835687 0.067877058 2.97E-06 5.527931115 -0.201727968 MKPDIVT(ph)YGAGVR ddPTM_HeLa_SAHA_4h_R1 1 MKPDIVTYGAGVR 13 1 H3BV53;Q14703 H3BV53 MBTPS1 Membrane-bound transcription factor site-1 protease 1 0 MKPDIVT(0.849)Y(0.151)GAGVR 60.549 0.019156 5959000 1977.5 1610.7 1829.2 1564 1669.5 1952.9 1877.1 1925.5 1361.1 1649 TRUE FALSE FALSE 2185.502523 1662.887737 2078.47385 1594.273482 1541.583271 1786.501933 1665.883768 1876.248498 1351.627994 1720.09646 1.270569746 0.96674098 1.208347263 0.926851208 0.896219082 1.038605668 0.96848276 1.090780978 0.785786161 1 10.74827376 -6.25339604 24.94995771 1.121869572 0.981451477 0 0.143907177 665.9268384 2065663.731 0.018116437 0.029712154 5.58E-07 6.25339604 -0.140418095 MKPLVVFVLGGPGAGK ddPTM_HeLa_SAHA_4h_R1 3 MKPLVVFVLGGPGAGK 16 1 P30085-2;P30085 P30085-2 CMPK1 UMP-CMP kinase 0 0 ;; ;; 203.7 2.90E-25 9565100 6011.1 6306.9 7396.3 8434.4 7711.7 5981.7 8440.4 3760.1 6266 7363.5 FALSE FALSE TRUE 6643.375078 6511.247698 8404.229246 8597.660008 7120.831212 5472.025508 7490.663978 3663.922087 6222.394396 7680.976521 0.864912822 0.847710923 1.094161559 1.119344654 0.927073686 0.712412737 0.975222871 0.477012536 0.810104598 1 12.90707402 -3.980828976 1.90192031 0.942020288 4.52E-39 0.534704183 0.123046933 1.291975714 2.449488005 0.01716882 2.773792913 0.000104513 3.980828976 -0.942020288 MKQELEAEYLAVFK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 MKQELEAEYLAVFKK 15 2 Q5QPE4;Q5QPE5;Q9Y5X3 Q5QPE4 SNX5 Sorting nexin-5 0 1 MKQELEAEYLAVFK(1)K 68.044 0.02272 37633000 2087.1 7316.9 4739.8 4197.1 2686.6 1865.7 8258.9 4141.7 3027.6 2784.3 FALSE TRUE FALSE 2306.630754 7553.972361 5385.71526 4278.34094 2480.753288 1706.731864 7329.586836 4035.761311 3006.530685 2904.344799 0.794200039 2.600921338 1.854364971 1.473082997 0.854152472 0.587647811 2.523662768 1.389559984 1.0351838 1 11.50399702 MKRIFSCS(ph)STQCVK ddPTM_HeLa_SAHA_4h_R1 2 MKRIFSCSSTQCVK 14 2 F6XZD3 F6XZD3 ANKRD35 1 0 MKRIFSCS(0.708)S(0.178)T(0.114)QCVK;MKRIFS(0.112)CS(0.601)S(0.144)T(0.144)QCVK ; 82.349 0.0091164 48095000 13917.5 13291.6 11593.1 13025.6 14165 14801.7 15304.4 15561.6 14409.1 14266.2 TRUE FALSE FALSE 15381.40651 13722.25656 13172.94729 13277.72932 13079.68076 13540.51189 13582.30863 15163.5568 14308.8259 14881.2857 1.033607365 0.922114986 0.885202231 0.892243425 0.87893486 0.909902018 0.912710696 1.018968193 0.961531563 1 13.86121156 -7.22483641 7.052029156 1.01586956 0.912803953 0.426933844 0.041478196 0.111326614 17.49607833 0.006384235 0.007776605 5.96E-08 7.22483641 -0.103065608 MKS(ph)SSSVTTSETQPCTPSSSDYSDLQR ddPTM_HeLa_SAHA_4h_R1 1 MKSSSSVTTSETQPCTPSSSDYSDLQR 27 1 P50552;K7EM16 P50552 VASP Vasodilator-stimulated phosphoprotein 1 0 MKS(0.142)S(0.142)S(0.142)S(0.142)VT(0.142)T(0.142)S(0.142)ET(0.003)QPCTPSSSDYSDLQR 80.68 0.0002121 13948000 862.59 805.07 576.84 876.26 845.21 775.78 993.92 1192.2 876.2 789.05 TRUE FALSE FALSE 953.3211739 831.1547962 655.4487511 893.2212794 780.4501924 709.6791796 882.0815057 1161.70525 870.1024529 823.069807 1.158250692 1.009822969 0.796346489 1.085231498 0.948218712 0.862234495 1.071697076 1.411429797 1.057142961 1 9.684870985 -4.27347467 4.627362429 1.030176598 1.431490924 0.56695428 0.105534337 0.118386252 6.652634663 0.016639214 0.150226679 5.33E-05 4.27347467 0.401314326 MKS(ph)Y(ph)PS(ph)STNVETVNDGAESAMFK ddPTM_HeLa_SAHA_4h_R1 1 MKSYPSSTNVETVNDGAESAMFK 23 1 O75366-2;O75366 O75366-2 AVIL Advillin 3 0 MKS(0.866)Y(0.856)PS(0.684)S(0.293)T(0.293)NVET(0.004)VNDGAES(0.004)AMFK 43.164 0.019513 9627900 813.4 989.14 824.62 804.26 1085.5 1268 1240.3 1145.6 1064.1 947.59 TRUE FALSE FALSE 898.957144 1021.188785 936.9949192 819.8276153 1002.329225 1159.959266 1100.73818 1116.297211 1056.694841 988.4452423 0.909465801 1.033126309 0.947948231 0.829411261 1.014046284 1.173518994 1.113605623 1.129346536 1.069047425 1 9.949017236 -5.430426238 4.825361838 0.952703229 1.134212908 0.58701553 0.064582917 0.099367983 3.837329278 0.008274301 0.018820018 3.71E-06 5.430426238 0.18150968 MKSS(ph)SSVTTSETQPCTPSSSDYSDLQR ddPTM_HeLa_SAHA_4h_R1 1 MKSSSSVTTSETQPCTPSSSDYSDLQR 27 1 P50552;K7EM16 P50552 VASP Vasodilator-stimulated phosphoprotein 1 0 MKS(0.097)S(0.337)S(0.138)S(0.138)VT(0.197)T(0.081)S(0.01)ET(0.004)QPCTPSSSDYSDLQR 86.81 1.56E-05 22945000 730.17 605.13 699.53 714.12 800.08 715.67 1009.7 1144.3 753.27 724.28 TRUE FALSE FALSE 806.9726307 624.736609 794.8583054 727.9428252 738.7780432 654.6908898 896.0858986 1115.030463 748.0279327 755.5072553 1.068120293 0.826910138 1.052085602 0.963515334 0.97785698 0.866558044 1.186071864 1.47586996 0.990100264 1 9.5613018 -4.410718056 3.177916896 1.002053468 1.483001588 0.796030055 0.078425503 0.09767724 1.615276299 0.011194445 0.093195038 3.88E-05 4.410718056 0.480948121 MKSSSS(ph)VTTSETQPCTPSSSDYSDLQR ddPTM_HeLa_SAHA_4h_R1 1 MKSSSSVTTSETQPCTPSSSDYSDLQR 27 1 P50552;K7EM16 P50552 VASP Vasodilator-stimulated phosphoprotein 1 0 MKS(0.219)S(0.219)S(0.219)S(0.314)VT(0.017)T(0.006)S(0.005)ET(0.001)QPCTPSSSDYSDLQR 95.516 4.27E-06 21679000 503.07 640.49 448.14 562.76 594.07 609.67 579.65 888.66 540.36 411.62 TRUE FALSE FALSE 555.9852108 661.2422962 509.2101854 573.6530336 548.5524849 557.7226861 514.4262564 865.929364 536.5995908 429.3669526 1.294895211 1.540040034 1.185955701 1.33604375 1.277584317 1.298941809 1.198103984 2.016758297 1.249745905 1 8.746067344 -1 0.039543133 2.73E-09 3.503869961 0.265984538 0.222302154 548.2150149 1.668540965 41.22908397 130.3530756 0.1 1 3.503869958 MLAEDELR ddPTM_HeLa_SAHA_4h_R1 2 MLAEDELR 8 0 P61204-2;P84077;P61204;F5H423 P61204-2 ARF3;ARF1 ADP-ribosylation factor 3;ADP-ribosylation factor 1 0 0 ; ; 161.9 8.48E-05 16894900 8590.6 8025.4 6724.5 9162.6 7925.2 9380.9 9091.5 8277.8 10694.5 8037.5 FALSE FALSE TRUE 9494.198723 8285.428226 7640.87984 9339.955372 7317.972888 8581.594544 8068.500492 8066.065862 10620.0761 8384.03596 1.132413884 0.988238632 0.911360576 1.114016617 0.872846076 1.023563661 0.962364729 0.96207434 1.266702118 1 13.03342919 -7.070476225 10.94104053 1.062451147 0.975470171 0.29702582 0.093281623 0.813064757 124.426732 0.011968492 0.014665078 8.50E-08 7.070476225 -0.086980976 MLDAEDIVGTARPDEK ddPTM_HeLa_SAHA_4h_R1 3 MLDAEDIVGTARPDEK 16 1 P12814-4;P12814-3;P12814;P12814-2;H9KV75;G3V2N5;G3V2W4 P12814-4 ACTN1 Alpha-actinin-1 0 0 ;; ;; 156.72 1.64E-05 21085800 4734.39 4974.74 5131.91 5437.7 5280.2 5847.9 5311.47 5691.78 6244.24 5344.89 FALSE FALSE TRUE 5232.374862 5135.92484 5831.259969 5542.954547 4875.632217 5349.626021 4713.809417 5546.192509 6200.785825 5575.334365 0.93848629 0.921186875 1.045903185 0.994192309 0.874500415 0.959516626 0.845475645 0.994773075 1.112181875 1 12.44484261 -5.775010777 24.99988855 0.973826884 0.916270676 0.212266421 0.066517926 255.4680195 470597.7808 0.00732572 0.013329991 1.68E-06 5.775010777 -0.057556208 MLDAEDIVNTARPDEK ddPTM_HeLa_SAHA_4h_R1 2 MLDAEDIVNTARPDEK 16 1 O43707 O43707 ACTN4 Alpha-actinin-4 0 0 ; ; 119.62 0.00068813 20592400 2226.22 2251.29 2213.14 2389.6 2771.1 2184.1 2555.6 2226.1 2385.3 2011.53 FALSE FALSE TRUE 2460.384034 2324.233273 2514.735194 2435.854163 2558.778917 1998.002393 2268.037162 2169.159585 2368.700503 2098.256902 1.172584744 1.107697189 1.19848775 1.16089415 1.219478374 0.952220098 1.080914906 1.033791231 1.128889651 1 11.03497561 -5.244976133 24.85236581 1.108332252 1.028169379 0.313939622 0.069363894 1183.207008 1786126.488 0.012579043 0.03197971 5.69E-06 5.244976133 -0.080162873 MLENTDNSS(ph)PSTEHSQGLEK ddPTM_HeLa_SAHA_4h_R1 1 MLENTDNSSPSTEHSQGLEK 20 0 Q96H79 Q96H79 ZC3HAV1L Zinc finger CCCH-type antiviral protein 1-like 1 0 MLENTDNS(0.023)S(0.617)PS(0.345)T(0.014)EHSQGLEK 130.07 3.25E-05 5576000 1237.3 1515.9 1144.6 1687.4 1388.7 1730.1 1454.1 1518.2 1628.8 1422.9 TRUE FALSE FALSE 1367.444891 1565.016155 1300.580127 1720.062067 1282.298106 1582.685747 1290.480841 1479.366642 1617.465048 1484.248183 0.921304743 1.054416757 0.876255159 1.158877664 0.863937798 1.066321499 0.869450848 0.996711102 1.089753767 1 10.53551663 -2.964838363 10.17302089 0.970791525 0.949444978 0 0.100123046 0 0 0.010611031 0 0.00108433 2.964838363 -0.021346547 MLGEDS(ph)DEEEEMDTSER ddPTM_HeLa_SAHA_4h_R1 5 MLGEDSDEEEEMDTSER 17 0 H7C256;A0A087WWF4;A0A087X0M4;Q9BWU0 H7C256 SLC4A1AP Kanadaptin 1 0 MLGEDS(0.998)DEEEEMDT(0.002)SER;MLGEDS(1)DEEEEMDTSER;MLGEDS(1)DEEEEMDTSER;MLGEDS(1)DEEEEMDTSER;MLGEDS(1)DEEEEMDTSER ;;;; 281.49 1.64E-72 125940800 5736.49 5985.1 4956.79 5581.09 5939.5 7012.36 6752.94 5874.01 6457.38 5671.51 TRUE FALSE FALSE 6339.880338 6179.021167 5632.275527 5689.120067 5484.416793 6414.867478 5993.081418 5723.76133 6412.442567 5916.036552 1.071643199 1.044452838 0.952035282 0.961643833 0.927042412 1.084318432 1.013023055 0.967499318 1.083908544 1 12.53041525 -6.781513376 24.99488882 1.035573408 0.986487028 0.312161664 0.045776717 302.0588212 376103.7795 0.007863257 0.010341306 1.65E-07 6.781513376 -0.04908638 MLGEDS(ph)DEEEEMDTSERK ddPTM_HeLa_SAHA_4h_R1 1 MLGEDSDEEEEMDTSERK 18 1 H7C256;A0A087WWF4;A0A087X0M4;Q9BWU0 H7C256 SLC4A1AP Kanadaptin 1 0 MLGEDS(1)DEEEEMDTSERK 167.95 9.52E-07 8342500 1231.5 1492.1 1377.8 1354.6 1376.5 1868.6 1535.5 1353.4 1870.9 1330.2 TRUE FALSE FALSE 1361.03482 1540.445019 1565.559409 1380.820242 1271.032867 1709.384768 1362.721499 1318.781988 1857.880255 1387.551432 0.980889637 1.110189492 1.128289282 0.995148872 0.916025769 1.231943356 0.982105216 0.950438274 1.338963163 1 10.43832553 -7.343052946 24.99999995 0.990975601 1.046000176 0 0.141222881 193.0153238 59122.95111 0.014744185 0.016860614 4.54E-08 7.343052946 0.055024575 MLGEDSDEEEEMDT(ph)SER ddPTM_HeLa_SAHA_4h_R1 1 MLGEDSDEEEEMDTSER 17 0 H7C256;A0A087WWF4;A0A087X0M4;Q9BWU0 H7C256 SLC4A1AP Kanadaptin 1 0 MLGEDSDEEEEMDT(0.997)S(0.003)ER 130.01 0.004646 18503000 840.69 963.43 1024.2 1067.8 1175.1 1262 1191.1 1107.9 1354.9 1185.7 TRUE FALSE FALSE 929.1176314 994.6457641 1163.772642 1088.468813 1085.064092 1154.4705 1057.074293 1079.561522 1345.471141 1236.82133 0.751214108 0.80419519 0.940938367 0.880053397 0.877300598 0.93341736 0.854670168 0.872851637 1.087846004 1 10.27242139 MLGSTCHT(ph)T(ph)T(ph)LPALVR ddPTM_HeLa_SAHA_4h_R1 1 MLGSTCHTTTLPALVR 16 0 E9PB85 E9PB85 ZNF385B 3 0 MLGST(0.006)CHT(0.997)T(0.997)T(1)LPALVR 73.499 0.0039705 0 560.98 801.48 685.1 782.44 875.91 1147.5 763.61 762.13 927.36 798.05 TRUE FALSE FALSE 619.9864503 827.4484779 778.4618602 797.5852576 808.797965 1049.726544 677.6865931 742.6358182 920.9064263 832.4578411 0.744766185 0.993982442 0.935136678 0.958108889 0.971578289 1.260996645 0.814079176 0.892100214 1.106249927 1 9.7012334 MLISAVS(ph)PEIR ddPTM_HeLa_SAHA_4h_R1 1 MLISAVSPEIR 11 0 E9PMT9;A0AVK6 E9PMT9 E2F8 Transcription factor E2F8 1 0 MLIS(0.02)AVS(0.98)PEIR 92.792 0.013182 2733600 760.65 790.06 677.66 951.39 872.93 762.37 907.19 859.47 1227 762.23 TRUE FALSE FALSE 840.658657 815.6584624 770.0079757 969.8055292 806.046292 697.411787 805.1105936 837.4860019 1218.461207 795.0934656 1.057307969 1.02586488 0.968449634 1.219737768 1.013775521 0.877144408 1.01259868 1.053317677 1.532475438 1 9.634980653 -5.515993598 24.99783224 1.038030556 0.977725071 0 0.173593659 525.3775479 1907483.095 0.010812552 0.02232391 3.05E-06 5.515993598 -0.060305485 MLISILTER ddPTM_HeLa_SAHA_4h_R1 2 MLISILTER 9 0 P12429;D6RFG5;D6RA82;D6RCA8;D6RAZ8 P12429 ANXA3 Annexin A3;Annexin 0 0 ; ; 141.52 0.00031879 10654800 311.62 472.75 670.28 533.06 549.42 341.29 605.83 297.25 199.73 144.74 FALSE FALSE TRUE 344.3976214 488.0674102 761.6222677 543.3781471 507.3235583 312.210172 537.6604139 289.6467754 198.3400627 150.9804497 2.281074284 3.232653042 5.0445092 3.598996745 3.360193715 2.067884766 3.561126059 1.91843895 1.313680434 1 7.238217939 -7.891142349 1.142854612 1.309720469 3.277050477 0.48084624 0.844872711 0.26124496 0.717037156 0.220076941 0.191715687 1.28E-08 7.891142349 1.967330007 MLITILGTVKPNANR ddPTM_HeLa_SAHA_4h_R1 4 MLITILGTVKPNANR 15 1 P17931;G3V3R6 P17931 LGALS3 Galectin-3;Galectin 0 0 ;;; ;;; 201.48 3.38E-24 34378000 2296.26 2741.241 2782.34 3078.36 3351.16 3571.43 3407.95 2348.49 3142.87 3619.01 FALSE FALSE TRUE 2537.791162 2830.059007 3161.502805 3137.946109 3094.394845 3267.124072 3024.478497 2288.419026 3120.998512 3775.043232 0.672254861 0.74967592 0.837474596 0.831234483 0.819697856 0.865453419 0.801177182 0.606196773 0.826745105 1 11.88227745 -9.485372496 1.22355677 1.000197066 0.770189005 0.192577711 0.09171105 0.300081935 0.802767026 0.057783306 0.014066676 3.27E-10 9.485372496 -0.230008061 MLK(ac)KHVK ddPTM_HeLa_SAHA_4h_R1 2 MLKKHVK 7 2 A6NKK0 A6NKK0 OR5H1 Olfactory receptor 5H1 0 1 ; MLK(0.924)K(0.076)HVK;MLK(0.935)K(0.065)HVK 96.964 0.0038065 0 0 193.987 206.63 167.13 0 67.247 170.22 0 99.446 0 FALSE TRUE FALSE 0 200.2723061 234.7884603 170.3650428 0 61.51717728 151.0663976 0 98.75394719 0 0 MLLADQGQSWK ddPTM_HeLa_SAHA_4h_R1 1 MLLADQGQSWK 11 0 P09211;A8MX94;A0A087X2E9 P09211 GSTP1 Glutathione S-transferase P 0 0 147.4 6.68E-05 479680 169.74 284.44 357.66 284.12 322.19 438.11 437.86 187.23 293.54 340.1 FALSE FALSE TRUE 187.594032 293.6560426 406.4000422 289.6195534 297.5038718 400.7805633 388.5908404 182.4409277 291.4972312 354.7633754 0.528786355 0.827751857 1.145552417 0.816373881 0.838598041 1.129712341 1.095352191 0.514260886 0.821666642 1 8.470713268 -6.988271286 24.86558002 0.772260679 0.93637042 0.08627061 0.205459088 400.5945482 849280.6779 0.038570378 0.05067025 1.03E-07 6.988271286 0.164109741 MLLS(ph)WDGGESR ddPTM_HeLa_SAHA_4h_R1 2 MLLSWDGGESR 11 0 Q658Y4;E7ER68 Q658Y4 FAM91A1 Protein FAM91A1 1 0 MLLS(0.993)WDGGES(0.007)R;MLLS(0.998)WDGGES(0.002)R ; 113.38 0.0033375 3074400 747.39 726.47 774.91 767.19 663.57 1015.74 995.5 613 610 879.85 TRUE FALSE FALSE 826.0039093 750.0081047 880.5106992 782.0400718 612.72741 929.1932376 883.48372 597.3203476 605.7549603 917.7846394 0.899997531 0.817194004 0.959387052 0.852095403 0.667615673 1.012430583 0.962626396 0.650828443 0.66001863 1 9.842011851 -13.52287782 0.113387988 1.509127149 0.771911503 0 0.1549963 112.6525927 0.933093584 13.02871826 0.620255285 3.00E-14 13.52287782 -0.737215646 MLLYTEVTR ddPTM_HeLa_SAHA_4h_R1 2 MLLYTEVTR 9 0 P50395;V9GYJ7;V9GYF8;G5E9U5;Q5SX90;Q5SX86;P31150 P50395 GDI2;GDI1 Rab GDP dissociation inhibitor beta;Rab GDP dissociation inhibitor alpha 0 0 ; ; 125.31 0.0032264 3113900 1376.97 1880.07 2001.83 1918.15 1779.54 1769.18 2091.82 1461.34 1801.79 1824.44 FALSE FALSE TRUE 1521.806022 1940.985502 2274.628967 1955.278567 1643.19203 1618.435911 1856.442908 1423.961039 1789.251197 1903.100537 0.799645627 1.01990697 1.195222703 1.02741738 0.863428914 0.850420605 0.975483361 0.748232167 0.940176918 1 10.89413606 -5.653574351 23.14262071 0.944554346 0.867033343 0.186018049 0.112087233 12.77312353 2693.884605 0.019686568 0.039373129 2.22E-06 5.653574351 -0.077521003 MLNRHLK(ac)CHNQVK ddPTM_HeLa_SAHA_4h_R1 1 MLNRHLKCHNQVK 13 2 Q9BRP0-2;Q9BRP0 Q9BRP0-2 OVOL2 Transcription factor Ovo-like 2 0 1 MLNRHLK(1)CHNQVK 73.985 0.01327 0 188.14 783.09 615.75 591.25 922.77 963.21 678.05 469.48 790.32 302.07 FALSE TRUE FALSE 207.9294284 808.4626298 699.6612033 602.6944987 852.067562 881.1390891 601.7540295 457.4713814 784.8200988 315.093716 0.659897097 2.565784682 2.220486058 1.912746806 2.704171866 2.796434979 1.909762077 1.451858156 2.490751351 1 8.299637172 -7.265095023 24.99942204 0.83939583 2.239512922 0.121757427 0.652210556 120.1048275 821345.3178 0.069306619 0.08089509 5.43E-08 7.265095023 1.400117092 MLPDK(ac)DCR ddPTM_HeLa_SAHA_4h_R1 1 MLPDKDCR 8 1 P23528;G3V1A4;E9PP50;E9PK25;E9PQB7;E9PLJ3;E9PS23 P23528 CFL1 Cofilin-1 0 1 MLPDK(1)DCR 96.668 0.013342 8601700 2265.2 7446.6 4197.3 3909.8 6307.4 4192.3 6697.5 3861.6 2213.1 1561.1 FALSE TRUE FALSE 2503.464129 7687.874726 4769.286185 3985.479833 5824.128375 3835.092455 5943.879673 3762.825864 2197.698857 1628.406661 1.537370357 4.721102481 2.928805378 2.447472077 3.576581031 2.355119607 3.650119971 2.310740894 1.349600754 1 10.66924531 -7.45327343 10.14174703 1.236393114 3.11522903 0.598375121 0.696585859 0.265845334 37.83769088 0.11230816 0.128061709 3.52E-08 7.45327343 1.878835916 MLPDKDCR ddPTM_HeLa_SAHA_4h_R1 2 MLPDKDCR 8 1 P23528;G3V1A4;E9PP50;E9PK25;E9PQB7;E9PLJ3;E9PS23 P23528 CFL1 Cofilin-1 0 0 ; ; 107.32 0.011131 21969700 9195.9 8413.7 10452.9 10784.4 10548.6 7985.3 10256.7 6053.5 4754.2 6282.3 FALSE FALSE TRUE 10163.16695 8686.3094 11877.36678 10993.14766 9740.368547 7304.907516 9102.589122 5898.660235 4721.115135 6553.160698 1.550880167 1.325514481 1.812463836 1.677533661 1.486361925 1.114715151 1.389037984 0.90012446 0.720433292 1 12.67797519 -2.947175626 14.00666931 1.325605071 1.277283512 0 0.33752932 0 0 0.042271743 0 0.001129339 2.947175626 -0.048321559 MLPHAPGVQMQAIPEDAIPEES(ph)GDEDEDDPDKR ddPTM_HeLa_SAHA_4h_R1 10 MLPHAPGVQMQAIPEDAIPEESGDEDEDDPDKR 33 1 Q13547 Q13547 HDAC1 Histone deacetylase 1 1 0 MLPHAPGVQMQAIPEDAIPEES(1)GDEDEDDPDKR;MLPHAPGVQMQAIPEDAIPEES(1)GDEDEDDPDKR;MLPHAPGVQMQAIPEDAIPEES(1)GDEDEDDPDKR;MLPHAPGVQMQAIPEDAIPEES(1)GDEDEDDPDKR;MLPHAPGVQMQAIPEDAIPEES(1)GDEDEDDPDKR;MLPHAPGVQMQAIPEDAIPEES(1)GDEDEDDPDKR;MLPHAPGVQMQAIPEDAIPEES(1)GDEDEDDPDKR;MLPHAPGVQMQAIPEDAIPEES(1)GDEDEDDPDKR;MLPHAPGVQMQAIPEDAIPEES(1)GDEDEDDPDKR;MLPHAPGVQMQAIPEDAIPEES(1)GDEDEDDPDKR ;;;;;;;;; 133.45 3.90E-19 232207000 16182.23 15756.73 15164.67 17064.49 18714.93 19625.46 19230.73 18685.95 17891.31 16079.3 TRUE FALSE FALSE 17884.3512 16267.25839 17231.23225 17394.79788 17280.99611 17953.2604 17066.83765 18207.99046 17766.80292 16772.55731 1.066286486 0.969873472 1.027346751 1.037098729 1.030313731 1.070394935 1.017545347 1.085582247 1.059278116 1 14.03381505 -1.000000001 0.516044881 1.026681558 2.664981426 0.20407775 0.029879365 147.9384753 1.361484138 0.006237219 266.2634816 0.1 1.000000001 1.638299868 MLPHAPGVQMQAIPEDAVHEDS(ph)GDEDGEDPDKR ddPTM_HeLa_SAHA_4h_R1 14 MLPHAPGVQMQAIPEDAVHEDSGDEDGEDPDKR 33 1 Q92769;Q92769-3 Q92769 HDAC2 Histone deacetylase 2 1 0 MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR;MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR;MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR;MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR;MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR;MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR;MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR;MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR;MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR;MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR;MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR;MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR;MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR;MLPHAPGVQMQAIPEDAVHEDS(1)GDEDGEDPDKR ;;;;;;;;;;;;; 98.133 1.25E-11 509913000 23095.35 20375.04 21317.99 21739.65 24968.55 23723.56 25764.83 24996.03 23687.41 22653.5 TRUE FALSE FALSE 25524.62488 21035.20466 24223.09466 22160.45236 23055.46509 21702.17922 22865.70352 24356.66775 23522.56739 23630.20325 1.080169502 0.890182977 1.025090407 0.937802021 0.975677816 0.918408487 0.967647349 1.030743049 0.995444988 1 14.52834442 -7.277216029 24.95240906 1.037857819 0.963895473 0.257368375 0.046445809 643.4523399 1017684.673 0.008022025 0.009189447 5.28E-08 7.277216029 -0.073962346 MLQSYIS(ph)EIGR ddPTM_HeLa_SAHA_4h_R1 1 MLQSYISEIGR 11 0 C9J856;B4DZU5 C9J856 TAF8 1 0 MLQSYIS(1)EIGR 92.792 0.013182 3191700 214.28 177.05 241.6 350.14 300.16 330.59 349.32 305.99 292.72 249.03 TRUE FALSE FALSE 236.8189536 182.7865362 274.5239898 356.917466 277.1618056 302.4218722 310.0135942 298.1632189 290.6829377 259.766902 0.91165946 0.703655988 1.056808961 1.37399131 1.06696351 1.164204792 1.193429924 1.147810659 1.11901453 1 8.021073813 -6.521989695 24.9980707 0.935269119 1.184729964 0.503098988 0.119876321 18.25061709 513170.03 0.016630703 0.023688404 3.01E-07 6.521989695 0.249460845 MLQYCLQGLFHPAR ddPTM_HeLa_SAHA_4h_R1 1 MLQYCLQGLFHPAR 14 0 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 0 0 76.24 0.018148 0 1070.8 1009.1 1017.7 1245 1010.8 1369.7 1540.1 917.59 1008.2 1208.2 FALSE FALSE TRUE 1183.431657 1041.795502 1156.386856 1269.098775 933.3527224 1252.993854 1366.803895 894.1193765 1001.183854 1260.291415 0.939014297 0.826630643 0.917555132 1.006988352 0.740584845 0.994209625 1.084514168 0.709454469 0.794406629 1 10.29954165 -8.257867178 0.999519586 0.990241555 0.907541447 0 0.127180196 0.836439771 1.745220058 0.032533106 0.02209832 5.52E-09 8.257867178 -0.082700108 MLS(ph)KS(ph)GY(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 MLSKSGYPK 9 1 P13521 P13521 SCG2 Secretogranin-2;Secretoneurin;Manserin 3 0 MLS(1)KS(1)GY(1)PK 41.189 0.0087463 0 0 66.552 0 225.87 0 189.66 195.82 52.137 307.96 286.32 TRUE FALSE FALSE 0 68.70832847 0 230.2420405 0 173.499901 173.7858182 50.80341103 305.8168813 298.6646564 0 0.230051755 0 0.770904878 0 0.580918757 0.581876076 0.170101851 1.023947343 1 8.222382711 -9.451528944 1.182105195 1.000462605 0.276237018 0.546779778 0.260876725 0.308084292 0.769277784 0.181448576 0.044947497 3.54E-10 9.451528944 -0.724225587 MLS(ph)QDAPTVK ddPTM_HeLa_SAHA_4h_R1 1 MLSQDAPTVK 10 0 A0A0C4DG07;O60934 A0A0C4DG07 NBN Nibrin 1 0 MLS(0.995)QDAPT(0.005)VK 105.95 0.0069021 5942100 1410.2 1512.4 1280.9 1600 1555.5 2077.7 1827.1 1747 1860.6 1434.7 TRUE FALSE FALSE 1558.531306 1561.402752 1455.454381 1630.970314 1436.317926 1900.668271 1621.509899 1702.31427 1847.651933 1496.556938 1.0414113 1.043330001 0.972535254 1.089815076 0.959748266 1.270027369 1.083493623 1.137487139 1.234601829 1 10.54743145 -5.276098462 24.98672515 1.020141722 1.155651812 0.221051208 0.087621677 382.3898678 651791.1503 0.007201427 0.016165582 5.30E-06 5.276098462 0.13551009 MLS(ph)S(ph)KELEPLGESPHTLSMPT(ph)YPK ddPTM_HeLa_SAHA_4h_R1 1 MLSSKELEPLGESPHTLSMPTYPK 24 1 Q6UXX5 Q6UXX5 ITIH6 Inter-alpha-trypsin inhibitor heavy chain H6 3 0 MLS(0.812)S(0.812)KELEPLGES(0.285)PHT(0.096)LS(0.139)MPT(0.445)Y(0.41)PK 40.756 0.0085723 0 388.04 350.66 319.81 371.21 440.53 471.48 416.65 285.39 426.63 504.47 TRUE FALSE FALSE 428.8558276 362.0216141 363.3920413 378.3953063 406.7766866 431.3072515 369.7674454 278.090137 423.6610471 526.2201705 0.814974134 0.687966054 0.690570339 0.719081722 0.773016143 0.819632686 0.702685807 0.52846727 0.805102257 1 9.039522739 -8.521212879 0.367565084 1.055269047 0.681161092 0.332993907 0.094757273 0.730643485 0.199298499 0.11157617 0.037772793 3.01E-09 8.521212879 -0.374107955 MLSCAGADR ddPTM_HeLa_SAHA_4h_R1 1 MLSCAGADR 9 0 X1WI28;P27635;F8W7C6;A0A087WV22;H7C123;H7C2C5;B8A6G2;A6QRI9;Q96L21 X1WI28 RPL10;RPL10L 60S ribosomal protein L10;60S ribosomal protein L10-like 0 0 122.18 0.014477 11423000 2866 2484.4 3052.5 2952.9 2970.1 2940.2 2990.1 2621.7 2353.2 2394.9 FALSE FALSE TRUE 3167.45903 2564.89619 3468.478803 3010.057649 2742.53158 2689.678419 2653.646078 2554.64071 2336.82389 2498.155859 1.2679189 1.026715839 1.388415695 1.204911871 1.097822447 1.076665577 1.062242001 1.022610619 0.935419574 1 11.28664777 -5.370523219 2.809267278 1.147699507 1.051944832 0.075051646 0.126176739 0.54133574 8.209753784 0.019150707 0.048549648 4.26E-06 5.370523219 -0.095754676 MLTAQDMSYDEAR ddPTM_HeLa_SAHA_4h_R1 2 MLTAQDMSYDEAR 13 0 A0A087WUZ3;Q01082;Q01082-2;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 0 0 ; ; 208.56 9.23E-11 7670400 896.1 1043.81 846.21 1135.35 1332.42 1218.96 1047.79 1279.97 912.9 1100.11 FALSE FALSE TRUE 990.3559095 1077.630129 961.5270919 1157.326341 1230.330267 1115.09775 929.8899116 1247.230221 906.5470546 1147.541126 0.863024328 0.939077567 0.837902076 1.008527115 1.072144814 0.971727919 0.810332537 1.086871915 0.789990907 1 10.16433014 MLTTVGPASS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 MLTTVGPASSSPK 13 0 A0A0A0MTL4;A0A0A0MTE8;Q8IVL1-4;Q8IVL1-8;Q8IVL1-9;Q8IVL1-10;Q8IVL1-13;Q8IVL1-12;Q8IVL1-11;Q8IVL1-3;Q8IVL1-2;Q8IVL1 A0A0A0MTL4 NAV2 Neuron navigator 2 1 0 MLTTVGPASS(0.61)S(0.39)PK 119.21 0.0021034 3605200 1725.3 1630.4 1406.9 1505.2 1543.7 1484.8 1498.4 1469.6 1562.9 1591.4 TRUE FALSE FALSE 1906.77497 1683.22603 1598.625005 1534.335323 1425.42204 1358.286687 1329.796088 1432.00976 1552.023652 1660.013042 1.148650596 1.013983618 0.963019545 0.924291125 0.858681229 0.818238563 0.801075687 0.862649704 0.934946661 1 10.69697886 -6.283306686 1.24321782 1.069082927 0.827404621 0.654701939 0.058637948 0.156732225 0.477617441 0.010257249 0.019834804 5.21E-07 6.283306686 -0.241678306 MLTTVGPASSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 MLTTVGPASSSPK 13 0 A0A0A0MTL4;A0A0A0MTE8;Q8IVL1-4;Q8IVL1-8;Q8IVL1-9;Q8IVL1-10;Q8IVL1-13;Q8IVL1-12;Q8IVL1-11;Q8IVL1-3;Q8IVL1-2;Q8IVL1 A0A0A0MTL4 NAV2 Neuron navigator 2 1 0 MLTTVGPASS(0.228)S(0.772)PK;MLTTVGPASS(0.046)S(0.953)PK ; 264.58 2.49E-43 32027000 6450.4 6384.6 5942.2 6627.3 6121.7 6716.9 6518.3 6750.5 6738.1 5608.1 TRUE FALSE FALSE 7128.882667 6591.465229 6751.97207 6755.580975 5652.656669 6144.582332 5784.843729 6577.831985 6691.209013 5849.892636 1.218634787 1.126766872 1.154204443 1.154821361 0.966283831 1.050375231 0.988880325 1.12443636 1.143817405 1 12.51419443 -5.771879744 24.99668703 1.115078656 1.030655907 0.341053384 0.065660047 287.2160146 687663.5319 0.01334981 0.024385051 1.69E-06 5.771879744 -0.084422748 MLVELSK ddPTM_HeLa_SAHA_4h_R1 2 MLVELSK 7 0 P50991-2;P50991 P50991-2 CCT4 T-complex protein 1 subunit delta 0 0 ; ; 120.49 0.0041319 3279400 4035.5 3582.6 4474.2 4657 4494.7 3704.1 4805.1 3168 3130.7 3110.1 FALSE FALSE TRUE 4459.972406 3698.678591 5083.920675 4747.142969 4150.317057 3388.489841 4264.417502 3086.967147 3108.913204 3244.191631 1.374756153 1.140092513 1.567083962 1.463274525 1.279306998 1.044478942 1.314477684 0.951536622 0.958301345 1 11.66364333 -3.210678279 14.11190965 1.216166012 1.217187535 0 0.21012451 0 0 0.028603336 0 0.000615633 3.210678279 0.001021523 MLWGSDPYPHAEPQQAT(ph)TPK ddPTM_HeLa_SAHA_4h_R1 1 MLWGSDPYPHAEPQQATTPK 20 0 E7EPN9;Q9Y520-2;Q9Y520-6;Q9Y520-4;Q9Y520-5;Q9Y520;Q9Y520-7;Q9Y520-3 E7EPN9 PRRC2C Protein PRRC2C 1 0 MLWGSDPY(0.002)PHAEPQQAT(0.534)T(0.464)PK 66.732 0.010439 9602200 1531.9 1594.6 1410.6 2075.9 1813 2066.2 1982.3 1876.6 1916.7 1598.2 TRUE FALSE FALSE 1693.032271 1646.266086 1602.829222 2116.082046 1674.088332 1890.148136 1759.246387 1828.599289 1903.361529 1667.106223 1.015551527 0.987499215 0.961443968 1.269314466 1.00418816 1.133789863 1.055269522 1.096870292 1.141715808 1 10.70313032 MLWGSDPYPHAEPQQATT(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 MLWGSDPYPHAEPQQATTPK 20 0 E7EPN9;Q9Y520-2;Q9Y520-6;Q9Y520-4;Q9Y520-5;Q9Y520;Q9Y520-7;Q9Y520-3 E7EPN9 PRRC2C Protein PRRC2C 1 0 MLWGSDPYPHAEPQQAT(0.073)T(0.927)PK;MLWGSDPYPHAEPQQAT(0.039)T(0.961)PK ; 94.384 0.0012166 11886000 1975.62 1883.96 1967.44 2111.85 2375.48 2530.17 2765.26 2600.89 2633.84 2297.44 TRUE FALSE FALSE 2183.424776 1945.00154 2235.552477 2152.727911 2193.471236 2314.585282 2454.105667 2534.363 2615.510893 2396.493882 0.911091321 0.811602965 0.932842973 0.898282248 0.91528347 0.965821486 1.02404003 1.05752951 1.091390599 1 11.22670954 -4.750703781 2.436401051 0.936878901 1.052933961 0.269616646 0.068083173 0.267369578 3.045354552 0.008457665 0.042330005 1.78E-05 4.750703781 0.11605506 MMLVRR ddPTM_HeLa_SAHA_4h_R1 1 MMLVRR 6 1 A0A0G2JQD6;Q8IXL6 A0A0G2JQD6 FAM20C Extracellular serine/threonine protein kinase FAM20C 0 0 72.054 0.019818 966820 720.68 625.11 1204.4 1589.4 1046.6 1161.1 1061.9 721.36 583.23 1123.7 FALSE FALSE TRUE 796.484429 645.3639741 1368.52936 1620.165135 966.4097341 1062.167748 942.4122172 702.9086557 579.1712549 1172.148206 0.679508295 0.550582231 1.167539525 1.382218671 0.824477424 0.906171884 0.804004316 0.59967558 0.494110943 1 10.19493928 -4.303237168 2.401124949 0.886603484 0.547704123 0.094295087 0.255312001 0.90862753 6.737375924 0.034953982 0.610466514 4.97E-05 4.303237168 -0.338899361 MMQINLTGFLNGK ddPTM_HeLa_SAHA_4h_R1 2 MMQINLTGFLNGK 13 0 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088;M0QXG5 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 0 0 ; ; 155.15 5.28E-07 4858400 840.34 800.61 1130.43 1332.44 1384.51 1039.58 1338.03 406.19 658.06 1201.17 FALSE FALSE TRUE 928.7308168 826.5502893 1284.479113 1358.231303 1278.429143 951.0019355 1187.471343 395.800248 653.4805069 1252.958317 0.741230418 0.659679 1.025157099 1.084019544 1.02032855 0.759005246 0.947734116 0.31589259 0.521550077 1 10.29112271 -4.257834682 24.48382846 0.889635131 0.315892295 0.452767956 0.177832153 152.6201883 1036564.585 0.02118894 0.208339595 5.52E-05 4.257834682 -0.573742836 MNEEIS(ph)SDSESESLAPR ddPTM_HeLa_SAHA_4h_R1 1 MNEEISSDSESESLAPR 17 0 O43818 O43818 RRP9 U3 small nucleolar RNA-interacting protein 2 1 0 MNEEIS(0.301)S(0.301)DS(0.301)ES(0.079)ES(0.016)LAPR 114.56 0.00030505 0 116.85 290.05 120.51 257.52 284.47 309.87 314.07 328.98 366.89 252.1 TRUE FALSE FALSE 129.1408191 299.4478103 136.9324752 262.504672 262.6739701 283.4673327 278.730017 320.565168 364.3367826 262.9692647 0.491087121 1.138717905 0.520716652 0.998233281 0.998877075 1.077948531 1.059933819 1.219021425 1.385472873 1 8.03875038 -6.04503754 10.2655689 0.771138384 1.075281776 0 0.270699646 0.657828019 148.3684528 0.034118029 0.056797721 9.01E-07 6.04503754 0.304143393 MNEVS(ph)VIK ddPTM_HeLa_SAHA_4h_R1 2 MNEVSVIK 8 0 P31751;P31751-2;C9JHS6;J3QLS6;M0QZK3;A0A1B0GXA2;E7EVP8;A8MX96;C9JIF6;C9J258;A0A5F9ZHJ8;A0A0A0MRF1;C9JIJ1;C9JC83;J3KSY8;J3KRI8 P31751 AKT2 RAC-beta serine/threonine-protein kinase 1 0 MNEVS(1)VIK;MNEVS(1)VIK ; 128.6 0.0038882 236670000 3747.2 4029.5 3492.4 4335.3 4528.2 4438.2 4381.3 4346.6 4081 3878.7 TRUE FALSE FALSE 4141.347689 4160.058444 3968.326084 4419.216 4181.250294 4060.040391 3888.304593 4235.420266 4052.599989 4045.929739 1.023583689 1.028208277 0.980819327 1.092262171 1.033446096 1.003487617 0.961041057 1.046834854 1.001648632 1 11.98225555 -9.263987965 0.915365051 0.999574738 1.020421936 0.053999982 0.033890757 1.765596587 2.569821314 0.025099617 0.006316391 5.45E-10 9.263987965 0.020847198 MNGVMFPGNS(ph)PSYTER ddPTM_HeLa_SAHA_4h_R1 7 MNGVMFPGNSPSYTER 16 0 Q9NY27-2;Q9NY27-3;Q9NY27 Q9NY27-2 PPP4R2 Serine/threonine-protein phosphatase 4 regulatory subunit 2 1 0 MNGVMFPGNS(0.912)PS(0.063)Y(0.003)T(0.022)ER;MNGVMFPGNS(0.996)PS(0.004)YTER;MNGVMFPGNS(0.973)PS(0.026)YT(0.001)ER;MNGVMFPGNS(0.658)PS(0.298)YT(0.043)ER;MNGVMFPGNS(0.933)PS(0.066)YT(0.001)ER;MNGVMFPGNS(0.839)PS(0.153)Y(0.005)T(0.004)ER;MNGVMFPGNS(0.489)PS(0.489)YT(0.022)ER ;;;;;; 139 0.00011801 82476600 10951.9 9939.3 9106.02 9991.47 11304.14 12472.5 11864.7 12479.4 11274.6 10346.8 TRUE FALSE FALSE 12103.87109 10261.33984 10346.94098 10184.86935 10438.01924 11409.77283 10529.65273 12160.19502 11196.13914 10792.90118 1.121465942 0.950748985 0.958680229 0.943663726 0.967118948 1.057155313 0.975609111 1.12668455 1.037361405 1 13.3977951 -7.24949378 24.95259914 1.057358918 0.993892691 0.150941815 0.060092318 1013.495018 2117042.652 0.011312227 0.013798173 5.63E-08 7.24949378 -0.063466227 MNGVMFPGNSPS(ph)YTER ddPTM_HeLa_SAHA_4h_R1 2 MNGVMFPGNSPSYTER 16 0 Q9NY27-2;Q9NY27-3;Q9NY27 Q9NY27-2 PPP4R2 Serine/threonine-protein phosphatase 4 regulatory subunit 2 1 0 MNGVMFPGNS(0.12)PS(0.806)Y(0.06)T(0.014)ER;MNGVMFPGNS(0.04)PS(0.956)YT(0.004)ER ; 189.04 1.24E-11 40012000 4571.8 4422.5 4012 4654.9 5273.9 5232.8 5151 5065 4974 4564.1 TRUE FALSE FALSE 5052.6829 4565.791902 4558.734466 4745.002321 4869.814921 4786.936001 4571.395923 4935.444634 4939.385529 4760.880687 1.061291646 0.959022543 0.957540162 0.996664826 1.02288111 1.005472793 0.96019964 1.036666314 1.03749408 1 12.21701276 -7.260826389 24.99999813 1.028943277 0.990696181 0.300527822 0.028970543 63.11733122 2574099.179 0.005638464 0.006682763 5.48E-08 7.260826389 -0.038247096 MNQVEDEVFEEFCR ddPTM_HeLa_SAHA_4h_R1 2 MNQVEDEVFEEFCR 14 0 Q14683;G8JLG1 Q14683 SMC1A Structural maintenance of chromosomes protein 1A;Structural maintenance of chromosomes protein 0 0 ; ; 185.59 1.43E-07 5633400 485.37 673.8 365.69 648.07 713.45 682.21 585.86 727.24 684.61 486.01 FALSE FALSE TRUE 536.4234436 695.6315621 415.5243288 660.614332 658.7856151 624.08187 519.9374909 708.6382538 679.8457433 506.9642696 1.058108975 1.372151064 0.819632376 1.303078682 1.299471491 1.231017465 1.025590011 1.397807097 1.341013133 1 8.985740261 -7.061246727 0.419631739 0.99350586 1.249234278 0 0.195060426 1.119050389 0.4968421 0.074684493 0.105022978 8.68E-08 7.061246727 0.255728418 MNRGINDSKDLPEEY(ph)LS(ph)AIYNEIAGKK ddPTM_HeLa_SAHA_4h_R1 1 MNRGINDSKDLPEEYLSAIYNEIAGKK 27 3 E5RIF2;Q9Y6D6 E5RIF2 ARFGEF1 Brefeldin A-inhibited guanine nucleotide-exchange protein 1 2 0 MNRGINDS(0.002)KDLPEEY(0.927)LS(0.93)AIY(0.14)NEIAGKK 42.806 0.014261 14985000 3531.5 3824.2 3996.9 2980.2 4352.2 3849 4986.3 4272.2 2689.6 3843 TRUE FALSE FALSE 3902.959373 3948.106589 4541.576717 3037.88608 4018.735376 3521.043546 4425.228401 4162.92331 2670.882855 4008.690537 0.973624513 0.984886848 1.132932731 0.757825043 1.002505766 0.878352548 1.10390871 1.038474602 0.666273146 1 11.96891533 -4.732147138 24.99867554 0.976301761 1.071191702 0.06676057 0.134702304 289.3535765 246936.92 0.011662446 0.043622761 1.85E-05 4.732147138 0.094889941 MNS(ph)TGGQTPR ddPTM_HeLa_SAHA_4h_R1 2 MNSTGGQTPR 10 0 Q96ST2-3;Q96ST2;Q96ST2-2;A0A1B0GW95 Q96ST2-3 IWS1 Protein IWS1 homolog 1 0 MNS(0.908)T(0.086)GGQT(0.005)PR;MNS(0.921)T(0.079)GGQTPR ; 143.55 0.00097232 14583600 1880.92 1813.45 1479.2 2308.3 2366.63 2773.7 2593.2 2423 2439.13 2218.43 TRUE FALSE FALSE 2078.763796 1872.20697 1680.777673 2352.980484 2185.299321 2537.365156 2301.406311 2361.023168 2422.155896 2314.077374 0.898312139 0.809051154 0.726327344 1.016811499 0.944350152 1.096491061 0.994524356 1.020287046 1.0467048 1 11.17622139 -5.6710381 2.291229469 0.922863918 1.029213329 0.240342399 0.094283446 0.39130639 4.166715469 0.014755075 0.033129086 2.13E-06 5.6710381 0.106349411 MNSTGGQT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 MNSTGGQTPR 10 0 Q96ST2-3;Q96ST2;Q96ST2-2;A0A1B0GW95 Q96ST2-3 IWS1 Protein IWS1 homolog 1 0 MNSTGGQT(1)PR;MNSTGGQT(1)PR ; 108.72 0.010593 14495100 3052.9 3502.9 2603 4584.7 5048.2 6762.3 4663.9 4508.6 4367 6251.8 TRUE FALSE FALSE 3374.018029 3616.396258 2957.723284 4673.443498 4661.408007 6186.113996 4139.105697 4393.27654 4336.609691 6521.345694 0.517380643 0.554547547 0.453544931 0.716637902 0.714792349 0.948594705 0.634701163 0.673676377 0.664986936 1 12.67095398 -9.425230008 1.167665386 0.998988117 0.643387765 0.024760218 0.162946473 0.340093293 0.833017764 0.096653187 0.024602764 3.76E-10 9.425230008 -0.355600352 MPCES(ph)SPPESADTPTSTR ddPTM_HeLa_SAHA_4h_R1 1 MPCESSPPESADTPTSTR 18 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 MPCES(0.877)S(0.123)PPESADTPTSTR 83.54 0.0096136 2235500 347.62 270.73 201.09 347.62 229.72 261.13 153.56 238.97 410.87 231.57 TRUE FALSE FALSE 384.1842665 279.5018296 228.493498 354.3486878 212.1189032 238.8802549 136.2810247 232.8574934 408.0107222 241.554116 1.590468724 1.157098187 0.945930882 1.466953632 0.878142367 0.988930592 0.564184237 0.963997208 1.689106893 1 7.916202626 -5.666143041 7.052997182 1.258873557 0.832715895 0.439276518 0.250648113 0.186003065 11.86583886 0.038434331 0.077116058 2.16E-06 5.666143041 -0.426157662 MPCESS(ph)PPESADTPTSTR ddPTM_HeLa_SAHA_4h_R1 2 MPCESSPPESADTPTSTR 18 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 MPCES(0.052)S(0.783)PPES(0.165)ADTPTSTR;MPCES(0.083)S(0.723)PPES(0.194)ADTPTSTR ; 170.35 3.50E-07 10401500 955.98 677.52 551.6 635.05 643.09 810.49 777.01 978.03 894.87 795.8 TRUE FALSE FALSE 1056.534363 699.4720925 626.7691754 647.342311 593.8165831 741.4316923 689.5787898 953.0134088 888.6425268 830.1108326 1.272763011 0.842624942 0.755042762 0.779826363 0.715346144 0.893171927 0.830706892 1.148055623 1.070510698 1 9.697160161 -7.241075949 23.75448176 1.128804749 0.841092959 0.464738817 0.128347911 282.3212893 329335.2015 0.024401623 0.029862125 5.74E-08 7.241075949 -0.28771179 MPCQSLQPEPINT(ph)PTHTK ddPTM_HeLa_SAHA_4h_R1 1 MPCQSLQPEPINTPTHTK 18 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 MPCQSLQPEPINT(0.973)PT(0.023)HT(0.004)K 82.177 0.0067139 4304300 791.65 386.37 487.9 704.44 567.43 624.96 592.44 868.1 843.27 648.84 TRUE FALSE FALSE 874.9193792 398.8886415 554.3884711 718.0754548 523.953636 571.7098921 525.777092 845.895259 837.4016154 676.8146677 1.292701564 0.589361698 0.81911415 1.060963199 0.774146396 0.844706711 0.77684057 1.249818155 1.237268717 1 9.402617024 -7.279191901 24.98640341 1.138220179 0.870023968 0.361080468 0.182581807 738.4181959 1039310.118 0.032386473 0.037077041 5.26E-08 7.279191901 -0.268196211 MPDLHLK(ac)APK ddPTM_HeLa_SAHA_4h_R1 1 MPDLHLKAPK 10 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 1 MPDLHLK(1)APK 66.568 0.023638 0 0 102.33 254.22 193.92 2264.2 3758.8 2848.5 2331.3 462.84 208.49 FALSE TRUE FALSE 0 105.6455591 288.8637777 197.673602 2090.717485 3438.529094 2527.979283 2271.668722 459.6190588 217.4790242 0 0.485773557 1.328237418 0.908931805 9.613421306 15.81085397 11.62401428 10.44546126 2.113394891 1 7.76473245 -5.690366405 3.59302764 0.571764962 12.56235995 0.934964588 1.421059457 0.034724114 0.892217122 0.1916494 0.394818413 2.04E-06 5.690366405 11.99059499 MPETVPQEEMPGPPLNS(ph)ESGEEAPTGR ddPTM_HeLa_SAHA_4h_R1 2 MPETVPQEEMPGPPLNSESGEEAPTGR 27 0 O15446;O15446-2 O15446 CD3EAP DNA-directed RNA polymerase I subunit RPA34 1 0 MPETVPQEEMPGPPLNS(0.854)ES(0.146)GEEAPT(0.001)GR;MPETVPQEEMPGPPLNS(0.881)ES(0.119)GEEAPTGR ; 132.13 8.06E-10 9034800 1753.04 1569.79 1543.63 1807.77 1879.86 1878.82 1901.15 2063.83 1862.71 1635.66 TRUE FALSE FALSE 1937.43279 1620.652226 1753.987858 1842.762002 1735.825533 1718.733966 1687.227598 2011.040217 1849.747249 1706.181307 1.135537461 0.949871048 1.028019619 1.080050517 1.017374605 1.007357166 0.988891152 1.178679082 1.084144599 1 10.73655525 -7.276138646 24.96340377 1.064003795 1.03355471 0.058505119 0.065435987 2419.292846 4108617.94 0.012431152 0.014245343 5.29E-08 7.276138646 -0.030449085 MPFLSIS(ph)S(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 MPFLSISSPK 10 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 2 0 MPFLS(0.427)IS(0.914)S(0.66)PK 72.789 0.0081019 0 380.8 327.93 370.51 402.56 366.18 420.96 380.98 441.06 624.6 459.45 TRUE FALSE FALSE 420.8542912 338.5551472 421.0011733 410.3521309 338.1233675 385.0918397 338.1111277 429.7783238 620.2533577 479.259138 0.878135142 0.706413546 0.878441619 0.856221819 0.705512615 0.803514861 0.705487076 0.896755617 1.294192032 1 8.90466213 -8.135482515 0.579141741 0.997652878 0.783530984 0.495671406 0.119493429 0.380138153 0.288836849 0.034663305 0.019775213 7.32E-09 8.135482515 -0.214121894 MPFLSISS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 MPFLSISSPK 10 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 MPFLSIS(0.071)S(0.928)PK;MPFLS(0.001)IS(0.341)S(0.658)PK ; 166.69 0.00013831 888660000 5010.5 7320.9 6994.8 4157.6 6475.3 6278.9 6320.4 3642.47 4422.8 6171.4 TRUE FALSE FALSE 5537.527379 7558.101963 7948.014917 4238.07636 5979.163913 5743.902396 5609.211958 3549.300892 4392.021375 6437.479256 0.8602012 1.174077875 1.234647072 0.65834408 0.928805154 0.892259558 0.871336704 0.551349488 0.682257946 1 12.65228016 -6.23276731 24.99713539 0.974633554 0.799927044 0.25125592 0.178515434 870.8128524 759199.9776 0.024388392 0.040438858 5.85E-07 6.23276731 -0.174706511 MPFQTS(ph)PGGK ddPTM_HeLa_SAHA_4h_R1 1 MPFQTSPGGK 10 0 I6LM39;A0A087X1U4;P51608;P51608-2 I6LM39 MECP2 Methyl-CpG-binding protein 2 1 0 MPFQT(0.007)S(0.993)PGGK 113.22 0.0046663 5425400 1794.4 2543.3 1967 1783.7 2358.4 3108.4 2264.6 2189.4 2279.2 2186.8 TRUE FALSE FALSE 1983.143225 2625.704589 2235.052516 1818.226093 2177.699902 2843.546833 2009.781248 2133.398318 2263.338862 2281.08365 0.869386454 1.15107773 0.979820497 0.79708874 0.954677792 1.246577184 0.881064247 0.935256503 0.992220895 1 11.15550364 -5.486438886 24.95259071 0.946311577 1.022584381 0.031098643 0.124118471 1276.195267 873887.5767 0.017849038 0.039899274 3.26E-06 5.486438886 0.076272804 MPGPRR ddPTM_HeLa_SAHA_4h_R1 1 MPGPRR 6 1 F5H1M8;Q9NRC8-3;P16066 F5H1M8 PCMTD1;NPR1 Atrial natriuretic peptide receptor 1 0 0 5.4561 0.02375 665480 200.48 562.04 212.07 317.77 543.45 341.5 678.2 337.76 304.91 125.02 FALSE FALSE TRUE 221.5674062 580.2504648 240.9697952 323.9208979 501.8109784 312.4022788 601.8871511 329.1205883 302.7881065 130.410224 1.69900334 4.449424645 1.847783001 2.483861218 3.847942001 2.395535174 4.615337145 2.523733018 2.32181264 1 7.02691317 -7.447804399 6.617562705 1.30394782 3.143529834 0.340151427 0.925291026 0.143878738 10.39128036 0.142204836 0.161203588 3.57E-08 7.447804399 1.839582014 MPIDLVIDDREGGSKS(ph)DSEDITR ddPTM_HeLa_SAHA_4h_R1 1 MPIDLVIDDREGGSKSDSEDITR 23 2 E9PDC4;F5GYS8;H0YNY8;U3KPR8;O00470;O00470-2 E9PDC4 MEIS1 Homeobox protein Meis1 1 0 MPIDLVIDDREGGS(0.258)KS(0.643)DS(0.074)EDIT(0.025)R 58.796 0.0081596 4127500 394.7 311.86 653.68 629.25 455.11 610.17 592.09 742.92 299.73 518.8 TRUE FALSE FALSE 436.2163569 321.9644686 742.7601062 641.4300437 420.2395701 558.1800833 525.4664749 723.9171821 297.6441545 541.1680069 0.80606457 0.594943649 1.372512966 1.185269704 0.776541785 1.03143585 0.970985846 1.337693975 0.550003235 1 9.079932742 -6.760564502 24.99999938 0.882349848 1.090343305 0.343358996 0.218796397 29.04909864 830073.8531 0.031917726 0.043660688 1.74E-07 6.760564502 0.207993457 MPLDDLDREDEVR ddPTM_HeLa_SAHA_4h_R1 2 MPLDDLDREDEVR 13 1 P57740;P57740-3;P57740-2 P57740 NUP107 Nuclear pore complex protein Nup107 0 0 ; ; 132.86 8.56E-05 3307500 2934.5 2671 2233.08 2974.8 3232.5 3357.4 2702.67 2971.6 3126.9 2611.12 FALSE FALSE TRUE 3243.164174 2757.542153 2537.392513 3032.381556 2984.826548 3071.330632 2398.558459 2895.590775 3105.139648 2723.698162 1.190720844 1.012425749 0.931598276 1.113332453 1.095872733 1.127632524 0.880625648 1.063110008 1.140045432 1 11.41135112 MPLDLS(ph)PLATPIIR ddPTM_HeLa_SAHA_4h_R1 2 MPLDLSPLATPIIR 14 0 E9PEK8;H7C2N6;B8ZZU6;E9PBF9;P15336-3;P15336-7;P15336-5;P15336;C9JCI8;P15336-4 E9PEK8 ATF2 Cyclic AMP-dependent transcription factor ATF-2 1 0 MPLDLS(1)PLATPIIR;MPLDLS(1)PLATPIIR ; 141.82 0.00018277 28156000 1285.32 1622.36 1220.24 1423.45 1327.17 1704.76 1271.08 1179.19 1741.19 1495.63 TRUE FALSE FALSE 1420.515855 1674.925528 1386.527952 1451.002933 1225.482521 1559.504857 1128.054733 1149.028027 1729.072917 1560.113929 0.91052059 1.073591805 0.888735064 0.930062162 0.785508352 0.999609598 0.723059202 0.73650264 1.108299135 1 10.60743567 -2.769687934 0.377229906 0.97044569 3.22E-14 0.510036577 0.08944989 9.26006302 0.382334398 0.020240015 5.203163714 0.001699464 2.769687934 -0.97044569 MPLLELGGETTPPLSTERS(ph)PEAVGSECPSR ddPTM_HeLa_SAHA_4h_R1 1 MPLLELGGETTPPLSTERSPEAVGSECPSR 30 1 Q9Y4K1;A0A0J9YWL0 Q9Y4K1 AIM1 Absent in melanoma 1 protein 1 0 MPLLELGGET(0.009)T(0.008)PPLS(0.076)T(0.076)ERS(0.61)PEAVGS(0.173)ECPS(0.047)R 54.66 0.0047027 5144700 0 160.33 0 152.85 121.34 207.63 279.43 213.45 133.12 62.566 TRUE FALSE FALSE 0 165.5247972 0 155.8086328 112.0429554 189.9387559 247.987801 207.9902581 132.1936071 65.26352645 0 2.536252731 0 2.387376859 1.716777525 2.91033547 3.799791621 3.186929505 2.025535767 1 6.028205039 -5.581745903 0.740042383 0.593112093 3.76626653 0.462966896 0.896810669 0.368403926 0.336327103 0.14150867 0.676970815 2.62E-06 5.581745903 3.173154437 MPLPS(ph)PTESR ddPTM_HeLa_SAHA_4h_R1 1 MPLPSPTESR 10 0 A6NF31;O75665-3;O75665 A6NF31 OFD1 Oral-facial-digital syndrome 1 protein 1 0 MPLPS(0.955)PT(0.044)ES(0.001)R 112.94 0.0047544 9379600 1389.5 1896.1 1398.4 1861.1 1880.4 3030.6 2013.9 2678.6 2369.7 1660.9 TRUE FALSE FALSE 1535.653985 1957.534884 1588.966669 1897.124282 1736.324158 2772.37583 1787.290672 2610.085291 2353.209065 1732.509527 0.886375492 1.129884052 0.917147435 1.095015209 1.002201795 1.60020813 1.031619534 1.506534452 1.358266161 1 10.75864757 -5.385941094 7.655384067 0.970507207 1.34380364 0.298345466 0.197977429 0.139077498 8.059341748 0.020227629 0.045378311 4.11E-06 5.385941094 0.373296433 MPPLIADS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 MPPLIADSPK 10 0 A0A087WXX9;P54646 A0A087WXX9 PRKAA2 5-AMP-activated protein kinase catalytic subunit alpha-2 1 0 MPPLIADS(1)PK 124.21 0.002469 3870800 1733.7 1311.1 1502.7 1460.6 1468.8 1751.6 1556.3 1813.6 1698.7 1695.4 TRUE FALSE FALSE 1916.058521 1353.5805 1707.48013 1488.872025 1356.260861 1602.353826 1381.181028 1767.210738 1686.878608 1768.496991 1.083438949 0.765384678 0.9654979 0.841885529 0.766900293 0.90605403 0.780991449 0.999272686 0.95384873 1 10.78830805 -7.271301647 24.97938244 1.039401728 0.859203418 0.404942141 0.082257427 358.4074671 907781.2024 0.012631215 0.014536291 5.35E-08 7.271301647 -0.18019831 MPQDGS(ph)DDEDEEWPTLEK ddPTM_HeLa_SAHA_4h_R1 4 MPQDGSDDEDEEWPTLEK 18 0 F8WBL2;Q13895 F8WBL2 BYSL Bystin 1 0 MPQDGS(1)DDEDEEWPTLEK;MPQDGS(1)DDEDEEWPTLEK;MPQDGS(1)DDEDEEWPTLEK;MPQDGS(1)DDEDEEWPTLEK ;;; 115.55 0.00060595 20075200 6339.86 6300.5 5311.22 6143.91 7579.4 7566 7502.4 7661.7 6320.31 6238.03 TRUE FALSE FALSE 7006.715563 6504.640334 6035.005402 6262.834262 6998.668009 6921.334235 6658.210207 7465.724808 6276.326448 6506.982001 1.076799592 0.99964013 0.927466128 0.962479113 1.075562835 1.063678097 1.023240913 1.147340627 0.964552606 1 12.66777285 -1.302529206 1.125211471 1.024056127 130.9315387 0.372789259 0.050114207 1524.14296 2.388191959 0.008067458 510692.3575 0.049827695 1.302529206 129.9074826 MPQPSSGRES(ph)PRH ddPTM_HeLa_SAHA_4h_R1 1 MPQPSSGRESPRH 13 2 P56181-2;P56181 P56181-2 NDUFV3 "NADH dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial" 1 0 MPQPSS(0.021)GRES(0.979)PRH 68.751 0.020252 781710 261.39 403.36 419.75 275.23 319.37 269.73 457.36 306.79 156.8 378.81 TRUE FALSE FALSE 288.8841995 416.4291287 476.951344 280.5574746 294.8999396 246.7474865 405.8966491 298.942756 155.708816 395.142353 0.731088929 1.053871157 1.207036756 0.710016207 0.746313164 0.624452137 1.027216258 0.756544455 0.394057521 1 8.626228678 MPS(ph)GATPEVSR ddPTM_HeLa_SAHA_4h_R1 1 MPSGATPEVSR 11 0 Q8WXI7 Q8WXI7 MUC16 Mucin-16 1 0 MPS(0.838)GAT(0.161)PEVSR 85.67 0.018956 7254200 1473.4 1511.2 1171.8 1135.1 1467.8 1756.7 1629.4 1646.6 1466 1023.1 TRUE FALSE FALSE 1628.378972 1560.163872 1331.486802 1157.071502 1355.337481 1607.019277 1446.055624 1604.482356 1455.797987 1067.210848 1.525826855 1.461907808 1.247632372 1.084201406 1.269980982 1.505812352 1.354985874 1.503435202 1.364114682 1 10.05962952 -9.465047525 1.195515828 0.999495013 1.376117769 0.006283824 0.172140492 0.335895533 0.857058986 0.103984656 0.025519434 3.43E-10 9.465047525 0.376622755 MPS(ph)LEISAPK ddPTM_HeLa_SAHA_4h_R1 1 MPSLEISAPK 10 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 MPS(0.921)LEIS(0.079)APK 122.18 0.00044289 0 1739.8 2095.5 2126.8 1433.5 1833.6 2031 1670.2 1628.5 1591.7 1649.9 TRUE FALSE FALSE 1922.800146 2163.395575 2416.629228 1461.247465 1693.109964 1857.947374 1482.2647 1586.845328 1580.62323 1721.035263 1.117234601 1.257031521 1.404171826 0.849051438 0.983774127 1.079552182 0.86126341 0.922029526 0.918414203 1 10.74906094 MPSLPSYK ddPTM_HeLa_SAHA_4h_R1 1 MPSLPSYK 8 0 P29401;P29401-2;A0A0B4J1R6;E9PFF2 P29401 TKT Transketolase 0 0 110.81 0.0075818 1855900 1928.8 1426.1 1699.2 1539.9 1775.4 1784.5 1710.2 1419 1259.6 1614.9 FALSE FALSE TRUE 2131.680034 1472.306576 1930.758127 1569.706991 1639.369236 1632.450561 1517.763795 1382.704035 1250.834341 1684.526242 1.265447804 0.874018189 1.146172781 0.931838847 0.973193052 0.969085859 0.901003355 0.820826651 0.742543696 1 10.71812719 -5.927121373 0.801480398 1.114672372 0.877155176 0 0.15615402 0.575878326 0.696970701 0.023306824 0.073284824 1.18E-06 5.927121373 -0.237517196 MPTQSEEEKLS(ph)PSPTTEDPR ddPTM_HeLa_SAHA_4h_R1 1 MPTQSEEEKLSPSPTTEDPR 20 1 E7EQY4;F6RRE2;E7EV10;Q9BTC8-2;Q9BTC8 E7EQY4 MTA3 Metastasis-associated protein MTA3 1 0 MPTQS(0.001)EEEKLS(0.308)PS(0.173)PT(0.259)T(0.259)EDPR 63.46 0.0068287 13279000 1281.1 1143.3 1120.3 1050.4 1592.8 1124.2 1199.9 963.79 1585.5 1128.1 TRUE FALSE FALSE 1415.851976 1180.34367 1272.96865 1070.732011 1470.760008 1028.411835 1064.884094 939.1376474 1574.466376 1176.737912 1.203200782 1.003064198 1.081777545 0.909915454 1.249862007 0.873951476 0.904945854 0.798085655 1.337992395 1 10.20057732 -5.146424229 8.676828385 1.084284423 0.861263041 0.453292938 0.124890927 0.208868005 14.51810847 0.014795155 0.037867289 7.14E-06 5.146424229 -0.223021382 MPTQSEEEKLSPS(ph)PTTEDPR ddPTM_HeLa_SAHA_4h_R1 1 MPTQSEEEKLSPSPTTEDPR 20 1 E7EQY4;F6RRE2;E7EV10;Q9BTC8-2;Q9BTC8 E7EQY4 MTA3 Metastasis-associated protein MTA3 1 0 MPTQSEEEKLS(0.022)PS(0.629)PT(0.175)T(0.175)EDPR 66.12 0.005896 11026000 858.72 782.71 521.28 485.95 811.93 501.39 822.06 835.65 736.91 627.51 TRUE FALSE FALSE 949.0441095 808.0703176 592.3173237 495.3562649 749.7200988 458.6687513 729.5596453 814.275283 731.7817833 654.5650271 1.449885146 1.234514959 0.904902186 0.756771664 1.145371457 0.700722972 1.114571685 1.243994484 1.117966517 1 9.354392712 -6.76839898 24.9533214 1.220036957 0.968929138 0.245177244 0.189979961 181.1289616 649428.9812 0.036256943 0.048232702 1.70E-07 6.76839898 -0.251107819 MPWVDS(ph)DLKR ddPTM_HeLa_SAHA_4h_R1 1 MPWVDSDLKR 10 1 B8ZZ55 B8ZZ55 C2orf70 1 0 MPWVDS(1)DLKR 107.01 0.017012 9543900 1223.9 1150 481.56 668.42 748.93 1770.6 733.22 1507.9 1889.2 1529.8 TRUE FALSE FALSE 1352.635417 1187.260755 547.1844889 681.3582357 691.5471452 1619.734919 650.7161559 1469.330101 1876.052903 1595.757165 0.847644897 0.744010919 0.342899597 0.426981154 0.433366154 1.015025942 0.407778934 0.920772994 1.175650622 1 10.64002541 -7.265805257 2.165405655 0.937337465 0.587723558 0.393199019 0.225316277 0.249486845 2.217510671 0.037681699 0.044596243 5.42E-08 7.265805257 -0.349613907 MQAS(ph)IEK ddPTM_HeLa_SAHA_4h_R1 5 MQASIEK 7 0 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 1 0 MQAS(1)IEK;MQAS(1)IEK;MQAS(1)IEK;MQAS(1)IEK;MQAS(1)IEK ;;;; 103.26 0.011675 1416732000 17798.3 20870.9 15383.6 19112.6 27075.4 29679.3 24820 22847.2 28120.3 23176.7 TRUE FALSE FALSE 19670.40686 21547.13085 17479.99689 19482.55201 25000.8887 27150.45667 22027.18828 22262.80171 27924.60854 24175.96096 0.813634953 0.891262643 0.723032144 0.805864637 1.034121818 1.123035263 0.911119451 0.920865224 1.155056818 1 14.56128562 -5.746619136 24.98389771 0.885837542 1.000112868 0.128132179 0.124146109 307.8839793 519026.4175 0.016141952 0.032177914 1.79E-06 5.746619136 0.114275326 MQAS(ph)IEKGGSLPK ddPTM_HeLa_SAHA_4h_R1 3 MQASIEKGGSLPK 13 1 P06748;P06748-2 P06748 NPM1 Nucleophosmin 1 0 MQAS(1)IEKGGSLPK;MQAS(0.984)IEKGGS(0.016)LPK;MQAS(1)IEKGGSLPK ;; 85.576 0.0085023 67667000 11339.1 6300.5 9890.3 10315 11105.5 9333 12102.4 11651.9 4984.9 7905.2 TRUE FALSE FALSE 12531.79856 6504.640334 11238.09858 10514.66174 10254.59899 8537.775894 10740.6061 11353.86127 4950.209675 8246.031859 1.51973686 0.788820665 1.362849279 1.275117768 1.243579841 1.035379931 1.302518143 1.376887873 0.600314158 1 13.00948432 -9.736743204 1.666010522 0.999901292 1.275961147 0.273513859 0.23333024 0.494460868 2.479693294 0.147078537 0.031880005 1.83E-10 9.736743204 0.276059855 MQASIEK ddPTM_HeLa_SAHA_4h_R1 2 MQASIEK 7 0 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 0 0 ; ; 128.61 0.00073092 11087000 9458.4 9021 11335.2 10990.3 10535.4 8171.2 11207.6 7017.8 5281.2 6989.9 FALSE FALSE TRUE 10453.27791 9313.286319 12879.90202 11203.03315 9728.179928 7474.96779 9946.491351 6838.294838 5244.447699 7291.268797 1.433670627 1.277320392 1.766482952 1.536499814 1.334223192 1.02519438 1.364164678 0.937874467 0.719277789 1 12.83195417 -3.166812552 14.22342153 1.263038301 1.224394253 0 0.300002801 0 0 0.036467445 0 0.000681063 3.166812552 -0.038644048 MQEAMTQEVSDVFSDTTT(ph)PIK ddPTM_HeLa_SAHA_4h_R1 2 MQEAMTQEVSDVFSDTTTPIK 21 0 P18206;P18206-2 P18206 VCL Vinculin 1 0 MQEAMTQEVSDVFS(0.003)DT(0.002)T(0.26)T(0.735)PIK;MQEAMTQEVSDVFS(0.001)DT(0.021)T(0.257)T(0.721)PIK ; 123.71 2.80E-05 4987800 1736.71 4143 2735.1 2148.1 3461.8 3642.8 3184.7 1864.7 4262.9 2992 TRUE FALSE FALSE 1919.385126 4277.235918 3107.825184 2189.679582 3196.557632 3332.412946 2826.349174 1817.003674 4233.234132 3120.999762 0.614990475 1.370469799 0.995778731 0.701595562 1.024209508 1.06773893 0.905590961 0.582186419 1.35637118 1 11.60779253 MQEEVVR ddPTM_HeLa_SAHA_4h_R1 1 MQEEVVR 7 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 129.68 0.0063614 7251900 1895.3 1743.9 2012.2 1898.2 1705.9 2350.6 2155.2 2175.1 2090.5 1872.8 FALSE FALSE TRUE 2094.65635 1800.403504 2286.412137 1934.942406 1575.194311 2150.315656 1912.691224 2119.464092 2075.95204 1953.545573 1.072233163 0.921608141 1.17039099 0.990477229 0.806325858 1.100724593 0.979087076 1.084931993 1.062658619 1 10.9318792 -6.044031423 24.99431066 1.036058051 0.986863703 0.067290807 0.094708296 1051.533127 596898.149 0.013566935 0.022499271 9.04E-07 6.044031423 -0.049194348 MQEEVVRR ddPTM_HeLa_SAHA_4h_R1 2 MQEEVVRR 8 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 110.31 0.0073059 9825100 3771.3 2522.29 3172.7 3097.8 3707 3917.6 3935.1 3857.9 2405.99 3320 FALSE FALSE TRUE 4167.982637 2604.013851 3605.059033 3157.762398 3422.970461 3583.79844 3492.312191 3759.220504 2389.24652 3463.141448 1.203526538 0.751922464 1.040979437 0.911820221 0.98840042 1.03484033 1.008423203 1.085494359 0.689907287 1 11.7578656 MQHLIAR ddPTM_HeLa_SAHA_4h_R1 2 MQHLIAR 7 0 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BR70 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ; ; 92.467 0.0088116 0 5185.2 4982.9 6756.9 5439.9 5569.5 534.76 6475.8 2253.25 1198.78 3265.4 FALSE FALSE TRUE 5730.603127 5144.349229 7677.695144 5545.197131 5142.766113 489.1954395 5747.125941 2195.615128 1190.437592 3406.187374 1.682409831 1.510295431 2.254043686 1.627977713 1.509830655 0.14361965 1.687260655 0.644596109 0.349492691 1 11.73394208 MQIFVK ddPTM_HeLa_SAHA_4h_R1 1 MQIFVK 6 0 P62979;A0A2R8Y422;P0CG48;B4DV12;Q96C32;Q5PY61;J3QKN0;F5GXK7;F5H747;F5H388;F5H265;F5H2Z3;F5GYU3;F5H6Q2;J3QTR3;J3QS39;P0CG47;F5GZ39;Q49A90;M0R1V7;J3QSA3;P62987 P62979;P62987 RPS27A;UBC;UBB;UBA52 Ubiquitin-40S ribosomal protein S27a;Ubiquitin;40S ribosomal protein S27a;Polyubiquitin-C;Ubiquitin;Polyubiquitin-B;Ubiquitin;Ubiquitin-60S ribosomal protein L40;Ubiquitin;60S ribosomal protein L40 0 0 110.54 0.014189 3436900 3068.6 3974.9 3767.8 3270.9 3893.2 3230.4 3749.2 2771 3298.4 3484.8 FALSE FALSE TRUE 3391.369427 4103.689368 4281.256162 3334.212999 3594.903857 2955.151746 3327.330149 2700.121832 3275.446166 3635.046782 0.932964451 1.128923399 1.177771957 0.91724074 0.988956696 0.812961132 0.91534727 0.742802499 0.901074006 1 11.82775822 -5.267301714 22.6340611 0.993384138 0.832867985 0.445388837 0.092581617 99.72902549 385051.5735 0.013341678 0.030674969 5.40E-06 5.267301714 -0.160516154 MQMYS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 MQMYSR 6 0 A0A6I8PLD9 A0A6I8PLD9 1 0 MQMY(0.143)S(0.857)R 52.299 0.020415 777900 167.47 170.95 0 172.27 0 178.14 66.926 192.54 228.39 0 TRUE FALSE FALSE 185.085263 176.4888922 0 175.604535 0 162.9614698 59.39531034 187.6151056 226.8006154 0 0 MQNDTAENETTEKEEK ddPTM_HeLa_SAHA_4h_R1 3 MQNDTAENETTEKEEK 16 1 E7EX44;Q05682-3;Q05682-6;Q05682-2;Q05682;Q05682-5;Q05682-4;E9PGZ1;C9J813 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 0 0 ;; ;; 173.51 5.51E-09 16385400 2448.55 2129.08 2169.58 2274.57 2612.5 3570.11 2516.3 2320.64 2548.05 2037.61 FALSE FALSE TRUE 2706.099723 2198.063589 2465.239064 2318.597591 2412.330814 3265.916543 2233.159301 2261.281389 2530.317913 2125.461339 1.273182285 1.034158349 1.159860694 1.090867921 1.134968099 1.536568313 1.050670394 1.063901445 1.190479387 1 11.0535603 -5.48696637 24.99941123 1.123835859 1.222968883 0.077546757 0.143471804 1273.169249 886280.8338 0.022288758 0.049819927 3.26E-06 5.48696637 0.099133025 MQQNIQELEEQLEEEESAR ddPTM_HeLa_SAHA_4h_R1 9 MQQNIQELEEQLEEEESAR 19 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ;;;;;;;; ;;;;;;;; 316.12 1.08E-106 21905000 5050.35 5678.87 5204.53 6102.17 5848.01 6658.09 6269.89 5927.89 6445.49 5621.65 FALSE FALSE TRUE 5581.568985 5862.869114 5913.776244 6220.286324 5399.936737 6090.783275 5564.385476 5776.263157 6400.63531 5864.026843 0.9518321 0.999802571 1.008483829 1.060753385 0.92085812 1.038669064 0.948901774 0.985033546 1.091508528 1 12.51767599 MQQQLDEYQELLDIK ddPTM_HeLa_SAHA_4h_R1 2 MQQQLDEYQELLDIK 15 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 154.72 0.00017345 37050500 1459.83 1511.95 1214.94 1700.33 1167.65 1861.26 1645.69 1750.23 1750.66 1189.93 FALSE FALSE TRUE 1613.381617 1560.938172 1380.505696 1733.242346 1078.184909 1702.670177 1460.51263 1705.461651 1738.477015 1241.233706 1.299820985 1.25756992 1.112204486 1.396386787 0.868639729 1.371756317 1.176662077 1.374005268 1.400604098 1 10.27755906 -9.395535982 1.067085161 0.997144901 1.231000192 0 0.193315507 0.556209492 1.110912076 0.099328663 0.024148778 4.02E-10 9.395535982 0.233855291 MQRDFRWLWVY(ph)EIGY(ph)AADNSR ddPTM_HeLa_SAHA_4h_R1 1 MQRDFRWLWVYEIGYAADNSR 21 2 Q16206 Q16206 ENOX2 Ecto-NOX disulfide-thiol exchanger 2;Hydroquinone [NADH] oxidase;Protein disulfide-thiol oxidoreductase 2 0 MQRDFRWLWVY(1)EIGY(0.999)AADNS(0.001)R 50.397 0.012541 1674100 0 152.97 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 157.9263284 0 0 0 0 0 0 0 0 0 MQS(ph)LQLDCVAVPSSR ddPTM_HeLa_SAHA_4h_R1 3 MQSLQLDCVAVPSSR 15 0 Q13546-2;Q13546 Q13546-2 RIPK1 Receptor-interacting serine/threonine-protein kinase 1 1 0 MQS(1)LQLDCVAVPSSR;MQS(1)LQLDCVAVPSSR;MQS(1)LQLDCVAVPSSR ;; 116.61 0.0010516 40657900 4114.28 4620.1 4319.76 3971.19 5099.7 5582.6 5586.2 4259.59 4401.43 4875.6 TRUE FALSE FALSE 4547.038847 4769.794271 4908.434396 4048.058125 4708.962088 5106.931073 4957.626074 4150.635856 4370.80009 5085.810977 0.894063674 0.937863065 0.965123246 0.795951352 0.925901908 1.004152749 0.974795583 0.816120747 0.859410645 1 12.31226213 -9.388493161 0.98448435 1.002663051 0.916278954 0 0.076120978 0.779761513 1.283743489 0.049695851 0.011257007 4.09E-10 9.388493161 -0.086384098 MQS(ph)LSLNK ddPTM_HeLa_SAHA_4h_R1 1 MQSLSLNK 8 0 Q13442 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 1 0 MQS(0.644)LS(0.356)LNK 86.882 0.020943 9619900 2437.8 2035.5 2173.6 2514.2 2713 2672.1 3073.1 2799.1 1929 1912.9 TRUE FALSE FALSE 2694.218989 2101.451536 2469.806888 2562.865977 2505.130526 2444.422047 2727.3067 2727.503075 1915.575932 1995.374481 1.350232257 1.053161477 1.2377661 1.284403505 1.255468861 1.225044257 1.366814463 1.366912879 0.960008234 1 10.96244381 -9.458114259 0.930618342 0.98171154 1.270197666 0.625283812 0.088426743 0.406577084 0.561537511 0.0867073 0.016652776 3.48E-10 9.458114259 0.288486126 MQSLS(ph)LNK ddPTM_HeLa_SAHA_4h_R1 1 MQSLSLNK 8 0 Q13442 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 1 0 MQS(0.007)LS(0.993)LNK 117.52 0.0039908 10851000 2533 2322.5 2136 2629.4 2567.2 2162.3 2916.7 2600.9 1795.1 1888 TRUE FALSE FALSE 2799.432562 2397.750524 2427.082956 2680.295839 2370.501691 1978.059875 2588.50524 2534.372744 1782.607753 1969.40092 1.421464027 1.21750249 1.232396579 1.360970137 1.203666388 1.004396746 1.31436175 1.286874967 0.90515229 1 10.94354112 -9.568255237 1.356513403 1.000516716 1.271180552 0.522876668 0.111777523 0.334434054 1.106423734 0.082055299 0.019416856 2.70E-10 9.568255237 0.270663836 MRDAGDPS(ph)PPNK ddPTM_HeLa_SAHA_4h_R1 2 MRDAGDPSPPNK 12 1 A0A0A0MRT2;Q9BTA9-5;Q9BTA9-2;Q9BTA9;E9PMZ7;C9JMU2;A0A494C0B7;A0A494C0C1;A0A494C0S5;C9JVK6;C9JD58;J3QTA0;Q9BTA9-3 A0A0A0MRT2 WAC WW domain-containing adapter protein with coiled-coil 1 0 MRDAGDPS(1)PPNK;MRDAGDPS(1)PPNK ; 139.86 0.0030197 18502500 4582.6 4364.8 3898.5 4235.1 4903.6 4408.3 4606 4696.3 4012.9 4035.9 TRUE FALSE FALSE 5064.618894 4506.222384 4429.767277 4317.076485 4527.887227 4032.68804 4087.720758 4576.175446 3984.973902 4209.9074 1.203023823 1.070385155 1.052224397 1.025456399 1.075531311 0.957904214 0.970976406 1.087001449 0.94657044 1 12.03957279 -6.596306311 2.277773595 1.096861975 1.019614313 0 0.075841067 0.440112557 4.632087433 0.013682434 0.02062485 2.53E-07 6.596306311 -0.077247662 MRDELHVRGGR ddPTM_HeLa_SAHA_4h_R1 2 MRDELHVRGGR 11 2 O94874-2 O94874-2 UFL1 E3 UFM1-protein ligase 1 0 0 ; ; 73.499 0.018826 20063900 7336.8 8720.5 5219.3 8211.9 12272.5 14504.1 9688.7 9559.5 8693.5 8533.5 FALSE FALSE TRUE 8108.518286 9003.049922 5930.559023 8370.853199 11332.1837 13268.26908 8598.501977 9314.981832 8633.001226 8901.420947 0.910924035 1.011417163 0.666248575 0.940395163 1.273075812 1.49057877 0.965969594 1.046460097 0.969845295 1 13.11981994 -5.772388305 24.44672467 0.93600999 1.198914362 0.41961083 0.158877055 128.6219047 287187.0796 0.02389713 0.043636197 1.69E-06 5.772388305 0.262904373 MREDYDS(ph)VEQDGDEPGPQR ddPTM_HeLa_SAHA_4h_R1 3 MREDYDSVEQDGDEPGPQR 19 1 Q9Y5S9;Q9Y5S9-2 Q9Y5S9 RBM8A RNA-binding protein 8A 1 0 MREDY(0.003)DS(0.997)VEQDGDEPGPQR;MREDYDS(1)VEQDGDEPGPQR;MREDYDS(1)VEQDGDEPGPQR ;; 216.35 8.01E-25 26107600 2127.93 1742.6 2206.75 2250.23 2511.19 2640.72 2156.72 2383.41 2334.47 2028.57 TRUE FALSE FALSE 2351.755441 1799.061383 2507.474398 2293.786456 2318.783165 2415.7158 1914.040189 2322.445823 2318.224233 2116.03158 1.111399028 0.850205356 1.184989119 1.084003886 1.095816899 1.141625589 0.904542355 1.097547808 1.095552758 1 11.04714544 -9.66797677 1.504217534 0.999838698 1.064480413 0 0.102566204 1.051621405 4.265206074 0.067712312 0.014996603 2.15E-10 9.66797677 0.064641715 MREDYDSVEQDGDEPGPQR ddPTM_HeLa_SAHA_4h_R1 1 MREDYDSVEQDGDEPGPQR 19 1 Q9Y5S9;Q9Y5S9-2 Q9Y5S9 RBM8A RNA-binding protein 8A 0 0 177.07 5.09E-09 7943800 826.01 1013.3 1147.9 1056.9 842.17 1219.4 986.42 1258.3 842.01 1110.5 FALSE FALSE TRUE 912.8935217 1046.131585 1304.329834 1077.357828 777.6431165 1115.50026 875.4254255 1226.114508 836.1503839 1158.37909 0.788078385 0.903099507 1.125995666 0.93005635 0.671320057 0.962983767 0.755733104 1.05847431 0.721827933 1 10.17789175 MRRISDWT(ph)GS(ph)LSRK ddPTM_HeLa_SAHA_4h_R1 1 MRRISDWTGSLSRK 14 3 E9PMZ8;Q8IVF5;Q8IVF5-5;Q8IVF5-2 E9PMZ8 TIAM2 T-lymphoma invasion and metastasis-inducing protein 2 2 0 MRRIS(0.004)DWT(0.981)GS(0.507)LS(0.507)RK 73.887 0.022151 57194000 740.05 919 747.14 872.46 823.95 1057.3 945.6 526.2 1034.9 938.87 TRUE FALSE FALSE 817.8918545 948.776203 848.9563483 889.3477249 760.819129 967.2120918 839.1985993 512.7405659 1027.698047 979.3492804 0.835138056 0.968782254 0.866857581 0.908100657 0.776861886 0.987606885 0.856894079 0.523552298 1.049368256 1 9.935679672 -4.27434863 3.697224986 0.912437592 0.48665128 0.695985691 0.078689604 0.105888782 2.697425922 0.010521949 0.120876788 5.32E-05 4.27434863 -0.425786312 MRTETSRCTSARAWPR ddPTM_HeLa_SAHA_4h_R1 1 MRTETSRCTSARAWPR 16 3 A0A096LNX7;A0A096LNT2 A0A096LNX7 0 0 41.542 0.020613 702380 284.53 474.48 352.26 597.79 341.1 0 380.36 409.09 580.79 309.24 FALSE FALSE TRUE 314.4581709 489.8534633 400.2641583 609.3610899 314.9649917 0 337.5608917 398.6260702 576.7482351 322.5728498 0.974843887 1.518582434 1.240848877 1.889065029 0.97641507 0 1.046464053 1.235770681 1.787962736 1 8.333481205 -5.514433735 24.99742575 1.122351795 0.739131944 0.155756406 0.46109381 605.8073973 1793201.611 0.061974214 0.129014285 3.06E-06 5.514433735 -0.383219851 MRYKT(ph)S(ph)LVMR ddPTM_HeLa_SAHA_4h_R1 1 MRYKTSLVMR 10 2 C9JZU7;C9J6T3;C9JD04;Q8N9L1-4;Q8N9L1-2;Q8N9L1;Q8N9L1-5;Q8N9L1-3 C9JZU7 ZIC4 Zinc finger protein ZIC 4 2 0 MRY(0.534)KT(0.733)S(0.733)LVMR 81.191 0.004535 0 129.73 186.38 162.72 237.81 186.84 271.37 157.65 137.43 167.53 202.63 TRUE FALSE FALSE 143.3755966 192.4188343 184.8946342 242.4131564 172.5243596 248.2477493 139.9108071 133.9147396 166.3641451 211.3663709 0.67832738 0.9103569 0.874758995 1.146886117 0.816233722 1.174490285 0.661935039 0.633566915 0.787088998 1 7.723602047 -4.564004841 24.99990086 0.889012695 0.640657127 0.337239397 0.148693266 129.3731428 78643.60601 0.023092133 0.086403035 2.73E-05 4.564004841 -0.248355568 MRYVASYLLAALGGNSSPSAK ddPTM_HeLa_SAHA_4h_R1 1 MRYVASYLLAALGGNSSPSAK 21 1 P05387 P05387 RPLP2 60S acidic ribosomal protein P2 0 0 198.05 7.42E-29 4541400 1660 1732.1 1139.2 2452.6 2542.4 2641.7 2656.4 3564.7 2668.5 3758 FALSE FALSE TRUE 1834.606416 1788.221176 1294.444243 2500.07362 2347.601861 2416.612298 2357.494881 3473.520136 2649.929691 3920.025771 0.468008764 0.456175873 0.330213197 0.63776969 0.598874089 0.616478676 0.601397802 0.88609625 0.675998028 1 11.93664742 -9.305662833 1.027656571 1.000288538 0.562846255 0.197158416 0.168316061 0.310693947 0.587033947 0.098356532 0.026184866 4.95E-10 9.305662833 -0.437442283 MS(ph)ADMSEIEAR ddPTM_HeLa_SAHA_4h_R1 3 MSADMSEIEAR 11 0 Q9UG54;O43318-4;O43318-3;O43318-2;O43318 Q9UG54 DKFZp586F0420;MAP3K7 Mitogen-activated protein kinase kinase kinase 7 1 0 MS(0.787)ADMS(0.213)EIEAR;MS(0.999)ADMS(0.001)EIEAR;MS(0.974)ADMS(0.026)EIEAR ;; 196.02 1.93E-07 30448100 2613.63 2678.83 2778.42 3022.05 3410.87 3412.3 3342.3 3391.65 3296.7 2463.84 TRUE FALSE FALSE 2888.543595 2765.62585 3157.048608 3080.546148 3149.529877 3121.552843 2966.215608 3304.896504 3273.757996 2570.0682 1.123917099 1.076090451 1.228390985 1.198624281 1.225465487 1.21457977 1.15413887 1.285917823 1.273801993 1 11.32759093 -7.921375735 0.282533964 0.96049044 1.253184539 0 0.094402904 0.590605505 0.143804584 0.068571086 0.042643729 1.20E-08 7.921375735 0.2926941 MS(ph)AVGAATPY(ph)LHHPGDSHSGR ddPTM_HeLa_SAHA_4h_R1 1 MSAVGAATPYLHHPGDSHSGR 21 0 E9PJE4;Q9GZQ3 E9PJE4 COMMD5 COMM domain-containing protein 5 2 0 MS(0.999)AVGAAT(0.268)PY(0.733)LHHPGDSHSGR 55.322 0.0068227 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 MS(ph)DMDRTAIHEVMEQGRVTIAK ddPTM_HeLa_SAHA_4h_R1 1 MSDMDRTAIHEVMEQGRVTIAK 22 2 P25205;P25205-2;J3KQ69;A0A499FHX9 P25205 MCM3 DNA replication licensing factor MCM3 1 0 MS(0.804)DMDRT(0.195)AIHEVMEQGRVTIAK 47.854 0.0084378 0 255.45 325.65 152.08 280.67 374.24 405.1 484.15 391.1 313.61 365.87 TRUE FALSE FALSE 282.319403 336.2012737 172.8046704 286.1027737 345.5658121 370.583201 429.6721678 381.0962283 311.4275625 381.6444462 0.73974456 0.880927987 0.45278969 0.749657899 0.905465324 0.971016884 1.125844152 0.998563538 0.816014921 1 8.576085387 -5.215287732 2.482037985 0.831960698 1.058378362 0.365607756 0.142153321 0.329509033 3.943651045 0.024600317 0.072991039 6.09E-06 5.215287732 0.226417664 MS(ph)DPEGETLR ddPTM_HeLa_SAHA_4h_R1 1 MSDPEGETLR 10 0 A0A087X2G9;A0A087WTJ8;Q96NG3-2;Q96NG3 A0A087X2G9 TTC25 Tetratricopeptide repeat protein 25 1 0 MS(0.999)DPEGET(0.001)LR 84.817 0.022452 33482000 1028.1 906.63 934.95 1021.5 1262.1 1238.3 1232 1187 1403.4 1346.9 TRUE FALSE FALSE 1136.240275 936.0054069 1062.360117 1041.27261 1165.398171 1132.789874 1093.372118 1156.638259 1393.633625 1404.971451 0.808728373 0.666209556 0.756143562 0.741134355 0.829481745 0.806272521 0.778216609 0.823246806 0.991930209 1 10.4563251 -8.741650416 0.806565344 0.991904706 0.774402929 0.774672756 0.047008471 0.225158174 0.288434243 0.026526189 0.010788502 1.81E-09 8.741650416 -0.217501777 MS(ph)DPPLSTMPTAPGLR ddPTM_HeLa_SAHA_4h_R1 1 MSDPPLSTMPTAPGLR 16 0 P78314;P78314-3;P78314-4 P78314 SH3BP2 SH3 domain-binding protein 2 1 0 MS(1)DPPLSTMPTAPGLR 82.202 0.020356 22704000 1132 1159.3 1657.4 3514.6 1100.2 894.15 1579.4 3311.2 2049.6 1583.8 TRUE FALSE FALSE 1251.068954 1196.862081 1883.261841 3582.630165 1015.902914 817.9633896 1401.681755 3226.504299 2035.336667 1652.085369 0.75726653 0.724455348 1.1399301 2.168550265 0.614921561 0.495109638 0.848431795 1.952988846 1.231980323 1 10.69007252 -6.678993348 7.983418302 0.870341871 1.17376723 0.057860033 0.515531048 0.544825641 46.33336717 0.080206038 0.113440251 2.09E-07 6.678993348 0.30342536 MS(ph)EPLIRR ddPTM_HeLa_SAHA_4h_R1 1 MSEPLIRR 8 1 Q5VYS4 Q5VYS4 MEDAG Mesenteric estrogen-dependent adipogenesis protein 1 0 MS(1)EPLIRR 46.001 0.0082688 0 335.71 381.91 402.95 317.79 364.92 310.69 397.21 358.27 326.51 291.01 TRUE FALSE FALSE 371.0215181 394.2841346 457.8619275 323.941285 336.9599084 284.2174641 352.5148854 349.1059722 324.2377903 303.5568653 1.222247165 1.298880637 1.508323415 1.067151898 1.110038833 0.936290681 1.161281215 1.150051315 1.068128669 1 8.245822991 -2.899442984 2.530748184 1.136507706 11.14183533 0 0.15539438 27032.19896 309.6551772 0.024198952 1565803.71 0.001260541 2.899442984 10.00532763 MS(ph)ESPTPCSGSSFEETEALVNTAAK ddPTM_HeLa_SAHA_4h_R1 1 MSESPTPCSGSSFEETEALVNTAAK 25 0 D6RAA5;Q4VXL8;E7EMZ9;E9PBC6;O95359-6;O95359-1;O95359-5;O95359-3;O95359;H0Y911;Q4VXL4;O95359-2 D6RAA5 TACC2 Transforming acidic coiled-coil-containing protein 2 1 0 MS(0.461)ES(0.199)PT(0.239)PCS(0.048)GS(0.044)S(0.009)FEETEALVNTAAK 70.535 0.0013948 0 550.3 807.25 460.99 602.76 615.83 722.66 610.63 682.62 524.9 479.29 TRUE FALSE FALSE 608.1830789 833.4054297 523.8113165 614.4272914 568.6452384 661.0853024 541.9203053 665.1595688 521.2471782 499.9545375 1.216476766 1.666962428 1.047717897 1.228966327 1.137393894 1.322290834 1.083939168 1.330440108 1.042589154 1 8.965653102 -8.750020663 1.015485563 1.019435303 1.247140871 0.237169169 0.164770522 0.502193617 1.033920226 0.064793444 0.031081481 1.78E-09 8.750020663 0.227705568 MS(ph)GFIYQGK ddPTM_HeLa_SAHA_4h_R1 2 MSGFIYQGK 9 0 E9PDQ5;B1ALK7;A0A2R8YG42;Q14155-6;Q14155-1;Q14155-5;Q14155-2;Q14155-3;Q14155;Q15052-2;Q15052;E7EUY6;F6SJA5 E9PDQ5 ARHGEF7;ARHGEF6 Rho guanine nucleotide exchange factor 7;Rho guanine nucleotide exchange factor 6 1 0 MS(1)GFIYQGK;MS(1)GFIYQGK ; 135.8 0.0014706 80488000 2830.5 3583.9 2953 2836.4 4045.3 4268.6 3583.4 3058.3 3768.3 3218.4 TRUE FALSE FALSE 3128.224977 3700.020711 3355.419461 2891.302624 3735.349988 3904.891266 3180.186401 2980.073114 3742.076093 3357.160974 0.931806667 1.102127881 0.999481254 0.861234432 1.112651439 1.163152823 0.947284454 0.887676563 1.114654949 1 11.713026 MS(ph)GGSTMSSGGGNTNNSNSK ddPTM_HeLa_SAHA_4h_R1 6 MSGGSTMSSGGGNTNNSNSK 20 0 A0A6E1WJ75;Q86U70-3;Q86U70-2;Q86U70 A0A6E1WJ75 LDB1 LIM domain-binding protein 1 1 0 MS(0.779)GGS(0.157)T(0.041)MS(0.019)S(0.004)GGGNTNNSNSK;MS(0.713)GGS(0.141)T(0.141)MS(0.004)SGGGNTNNSNSK;MS(0.991)GGS(0.008)T(0.001)MSSGGGNTNNSNSK;MS(1)GGSTMSSGGGNTNNSNSK;MS(0.926)GGS(0.011)T(0.062)MS(0.002)SGGGNTNNSNSK;MS(0.919)GGS(0.078)T(0.002)MSSGGGNTNNSNSK ;;;;; 298 1.07E-91 9885550 1026.36 1582.537 1501.93 1318.73 1462.55 1677.22 1612.72 1973.42 1670.31 1300.49 TRUE FALSE FALSE 1134.317254 1633.812237 1706.605199 1344.255926 1350.489735 1534.31142 1431.252501 1922.942774 1658.686177 1356.560488 0.836171526 1.204378464 1.258038409 0.990929588 0.995524893 1.131030598 1.055059847 1.417513476 1.222714498 1 10.40573766 -7.258188892 24.99572391 0.922636553 1.138000354 0.025776333 0.157894788 225.9751024 1737712.682 0.022118956 0.026503896 5.52E-08 7.258188892 0.215363801 MS(ph)MTLGY(ph)WDIR ddPTM_HeLa_SAHA_4h_R1 1 MSMTLGYWDIR 11 0 A0A1W2PNX1;A0A0A0MR85;Q03013-3;Q03013-2;Q03013 A0A1W2PNX1 GSTM4 Glutathione S-transferase Mu 4 2 0 MS(0.964)MT(0.036)LGY(1)WDIR 69.65 0.0063519 0 205.82 173.4 187.35 232.92 268.48 383.99 240.66 179.09 0 152.33 TRUE FALSE FALSE 227.4690919 179.0182738 212.8810823 237.4285034 247.9091204 351.2718917 213.5803034 174.5091371 0 158.8976918 1.431544344 1.126626018 1.339736782 1.494222482 1.560180753 2.210679638 1.344137231 1.098248409 0 1 7.311954357 -6.329365148 2.135682803 1.20321457 1.579849406 0.198578327 0.472925676 0.356398455 3.176129314 0.049310756 0.08299009 4.68E-07 6.329365148 0.376634836 MS(ph)NSNT(ph)T(ph)QETLEIMK ddPTM_HeLa_SAHA_4h_R1 1 MSNSNTTQETLEIMK 15 0 A0A0U1RRA6;B5MCU0;B5MCG9;Q9Y2K5;C9J7N6 A0A0U1RRA6 R3HDM2 R3H domain-containing protein 2 3 0 MS(0.997)NS(0.011)NT(0.829)T(0.811)QET(0.353)LEIMK 66.568 0.0074636 0 253.36 432.93 335.28 272.92 520.84 485.62 298.3 297.76 525.32 320.69 TRUE FALSE FALSE 280.0095673 446.9572161 380.9702123 278.2027612 480.9333517 444.242444 264.7344989 290.1437304 521.6642553 334.5165153 0.837057528 1.336128997 1.138868172 0.831656282 1.437696884 1.328013487 0.791394406 0.867352484 1.5594574 1 8.385933629 -7.299722048 24.99429805 0.923054944 1.104652517 0 0.29374375 850.0442462 554981.8834 0.037827181 0.043257507 5.02E-08 7.299722048 0.181597573 MS(ph)PGVAGSPR ddPTM_HeLa_SAHA_4h_R1 1 MSPGVAGSPR 10 0 E7EWM1;Q15596 E7EWM1 NCOA2 Nuclear receptor coactivator 2 1 0 MS(1)PGVAGSPR 100.09 0.01036 4505800 2072 2325.6 2052.6 2187.2 2140.5 2681 2480.3 2310.5 2548 2093.4 TRUE FALSE FALSE 2289.942467 2400.950966 2332.317639 2229.536419 1976.495352 2452.563717 2201.210116 2251.400756 2530.268261 2183.656719 1.048673286 1.099509344 1.068078887 1.021010491 0.905130983 1.123145271 1.008038533 1.031023208 1.158729868 1 11.09253036 MS(ph)PKPELTEEQKQEIR ddPTM_HeLa_SAHA_4h_R1 1 MSPKPELTEEQKQEIR 16 2 P41208 P41208 CETN2 Centrin-2 1 0 MS(1)PKPELTEEQKQEIR 79.885 0.0092523 5193400 1100.3 884.06 1283.8 1085.7 899.88 1162.4 1050.2 1331.2 1217.9 1127.5 TRUE FALSE FALSE 1216.034602 912.7041241 1458.749578 1106.715293 830.9313888 1063.356981 932.028732 1297.149832 1209.424535 1176.112043 1.033944521 0.776035013 1.240315144 0.94099478 0.706506998 0.904128979 0.792465937 1.102913485 1.02832425 1 10.19980979 -5.99948396 24.9999029 1.01342167 0.866383925 0.178388888 0.14037518 21.23973497 1028852.42 0.018877595 0.033992913 1.00E-06 5.99948396 -0.147037745 MS(ph)PMGTASGSNSPTSDSASVQR ddPTM_HeLa_SAHA_4h_R1 13 MSPMGTASGSNSPTSDSASVQR 22 0 Q5QPB1;O76080 Q5QPB1 ZFAND5 AN1-type zinc finger protein 5 1 0 MS(0.998)PMGT(0.002)ASGSNSPTSDSASVQR;MS(0.995)PMGT(0.005)ASGSNSPTSDSASVQR;MS(0.999)PMGT(0.001)ASGSNSPTSDSASVQR;MS(0.986)PMGT(0.014)ASGSNSPTSDSASVQR;MS(0.961)PMGT(0.038)AS(0.002)GSNSPTSDSASVQR;MS(1)PMGTASGSNSPTSDSASVQR;MS(1)PMGTASGSNSPTSDSASVQR;MS(1)PMGTASGSNSPTSDSASVQR;MS(1)PMGTASGSNSPTSDSASVQR;MS(1)PMGTASGSNSPTSDSASVQR;MS(0.988)PMGT(0.012)ASGSNSPTSDSASVQR;MS(0.992)PMGT(0.008)AS(0.001)GSNSPTSDSASVQR;MS(1)PMGTASGSNSPTSDSASVQR ;;;;;;;;;;;; 332.36 8.15E-133 136534500 6013.03 7052.9 7339.68 7956.567 9075.07 10259.31 9846.29 9669.95 6539.611 6401.756 TRUE FALSE FALSE 6645.508084 7281.418588 8339.893367 8110.57786 8379.740097 9385.159071 8738.359535 9422.606681 6494.101315 6677.767031 0.995169202 1.090397217 1.248904511 1.214564363 1.254871585 1.405433737 1.308575081 1.411041541 0.972495938 1 12.70515005 -6.457557945 0.77409202 0.989768261 1.369055119 0.912871363 0.046568584 0.115616467 0.138120478 0.009510553 0.019549386 3.49E-07 6.457557945 0.379286858 MS(ph)QT(ph)S(ph)SIGSAESLISLERK ddPTM_HeLa_SAHA_4h_R1 1 MSQTSSIGSAESLISLERK 19 1 C9J6X7;C9J319;B4DDH2 C9J6X7 STK33 3 0 MS(0.75)QT(0.75)S(0.75)S(0.75)IGSAESLISLERK 54.368 0.010647 5942500 1607.8 1688.7 1546.8 2938 2342.5 1558.8 2055.8 2941.3 2447.2 1811 TRUE FALSE FALSE 1776.915781 1743.414988 1757.589849 2994.869238 2163.018156 1425.98147 1824.475973 2866.065805 2430.169736 1889.081073 0.940624416 0.922890506 0.930394081 1.585357707 1.145010761 0.754854564 0.96580078 1.517174591 1.286429561 1 10.8834689 MS(ph)RT(ph)FS(ph)AKGGRDLVEGPQYLMPPK ddPTM_HeLa_SAHA_4h_R1 1 MSRTFSAKGGRDLVEGPQYLMPPK 24 3 J3KQ32 J3KQ32 OLA1 Obg-like ATPase 1 3 0 MS(0.999)RT(0.997)FS(0.997)AKGGRDLVEGPQY(0.007)LMPPK 45.047 0.0084016 0 167.35 121.77 60.764 0 184.92 238.47 131.5 125.41 119 163.93 TRUE FALSE FALSE 184.9526408 125.7154279 69.04460147 0 170.7514696 218.1510144 116.7032739 122.2021938 118.1718693 170.9978246 1.081608151 0.735187294 0.403774736 0 0.998559309 1.275753156 0.682483969 0.714641804 0.691072355 1 7.417834161 -7.208218439 5.554607959 1.038570939 0.682103468 0.066476239 0.334955248 0.264046359 18.56095475 0.056562731 0.069053103 6.19E-08 7.208218439 -0.356467471 MS(ph)S(ph)ANVY(ph)LES(ph)K ddPTM_HeLa_SAHA_4h_R1 1 MSSANVYLESK 11 0 H0YJZ7;H0YFL6;Q8N3F9 H0YJZ7 GPR137C Integral membrane protein GPR137C 4 0 MS(1)S(1)ANVY(1)LES(1)K 41.825 0.021397 7234900 669.45 582.37 531.87 754.62 896.76 692.33 584.54 584.49 548.1 758.86 TRUE FALSE FALSE 739.8658225 601.2391701 604.3504737 769.2267613 828.0504425 633.3395891 518.7660208 569.5395921 544.2857275 791.5781684 0.934671839 0.759544912 0.763475419 0.971763487 1.046075392 0.800097343 0.655356655 0.719498863 0.687595678 1 9.628588013 -2.057317583 0.203100305 1.00128044 3.17E-20 0 0.139051194 27.06618925 0.455705464 0.109655834 7.985573301 0.008763597 2.057317583 -1.00128044 MS(ph)S(ph)KGNS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 MSSKGNSK 8 1 Q6ZMI0-5;Q6ZMI0-2;Q6ZMI0 Q6ZMI0-5 PPP1R21 Protein phosphatase 1 regulatory subunit 21 3 0 MS(1)S(1)KGNS(1)K 51.436 0.0075779 0 330.61 342.49 347.64 324.79 270.12 366.93 240.57 326.26 363.44 285.77 TRUE FALSE FALSE 365.3850767 353.5869007 395.0145688 331.0767801 249.423464 335.6654997 213.5004305 317.9147416 360.9107914 298.0909432 1.225750346 1.18617123 1.325147837 1.110656958 0.836736136 1.126050648 0.716225821 1.066502518 1.210740546 1 8.219608733 -5.858351619 7.279077221 1.134950218 0.934785342 0.412884879 0.135095642 0.213052144 13.91191595 0.021204029 0.038640151 1.39E-06 5.858351619 -0.200164876 MS(ph)S(ph)Y(ph)FVNSLFS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 MSSYFVNSLFSK 12 0 I3L3R1;P17481 I3L3R1 HOXB8 Homeobox protein Hox-B8 4 0 MS(0.996)S(0.988)Y(0.996)FVNS(0.203)LFS(0.816)K 40.552 0.022143 3949700 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 MS(ph)SPEDDSDTKR ddPTM_HeLa_SAHA_4h_R1 1 MSSPEDDSDTKR 12 1 Q15424-2;Q15424;Q15424-4;Q15424-3 Q15424-2 SAFB Scaffold attachment factor B1 1 0 MS(0.5)S(0.5)PEDDS(0.001)DTKR 63.292 0.021277 5943900 1657.9 1947.5 1623.4 1734.9 1896.5 2361.8 1913.1 2082.1 2106.9 1622.3 TRUE FALSE FALSE 1832.285529 2010.600278 1844.628498 1768.481498 1751.19058 2160.561353 1697.832953 2028.842897 2092.237911 1692.245292 1.0827541 1.188125792 1.090047942 1.045050328 1.034832591 1.276742422 1.003301921 1.198905919 1.23636799 1 10.72472299 -8.689981141 0.505024253 0.98888564 1.118418193 0 0.10894941 1.208262186 0.575979152 0.073058537 0.022327613 2.04E-09 8.689981141 0.129532552 MS(ph)VS(ph)RS(ph)S(ph)S(ph)LK ddPTM_HeLa_SAHA_4h_R1 1 MSVSRSSSLK 10 1 A0A087WXK8;Q9H4H8-2;Q9H4H8 A0A087WXK8 FAM83D Protein FAM83D 5 0 MS(1)VS(1)RS(1)S(1)S(1)LK 48.796 0.0085324 0 0 0 0 60.936 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 62.11550439 0 0 0 0 0 0 0 MSCFS(ph)RPS(ph)MSPTPLDR ddPTM_HeLa_SAHA_4h_R1 1 MSCFSRPSMSPTPLDR 16 1 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 MS(0.229)CFS(0.772)RPS(0.997)MS(0.002)PTPLDR 96.756 0.0061171 6126500 1668.3 1641.7 1356.9 1375.1 1759.7 1786.9 1738.1 2006.9 1651.1 1610.2 TRUE FALSE FALSE 1843.779448 1694.892157 1541.811266 1401.717049 1624.872166 1634.646067 1542.524414 1955.566404 1639.609861 1679.623602 1.09773371 1.009090462 0.917950464 0.834542362 0.967402556 0.973221658 0.918375052 1.164288476 0.976176959 1 10.71392225 -6.976364841 7.114140841 1.046555958 0.95591118 0.084505327 0.084367611 0.208342239 41.39827792 0.013508944 0.017640253 1.06E-07 6.976364841 -0.090644778 MSCFSRPSMS(ph)PTPLDR ddPTM_HeLa_SAHA_4h_R1 1 MSCFSRPSMSPTPLDR 16 1 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 MS(0.076)CFS(0.076)RPS(0.26)MS(0.566)PT(0.023)PLDR 64.04 0.018415 7257300 885.23 983.45 717.89 834.42 940.38 1066.6 846.87 974.08 1028.8 842.96 TRUE FALSE FALSE 978.342553 1015.314425 815.7203106 850.5714057 868.3282876 975.7196795 751.5779588 949.1644441 1021.640497 879.3041309 1.112632727 1.154679467 0.927688478 0.967323336 0.98751758 1.10964983 0.854741758 1.079449545 1.161873874 1 9.780218436 -6.744827897 24.99481009 1.062285702 0.986288383 0.272695111 0.083585567 329.070761 495141.7949 0.012626625 0.017828819 1.80E-07 6.744827897 -0.075997319 MSDEFSLADALPEHS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 1 MSDEFSLADALPEHSPAK 18 0 Q8NDC0 Q8NDC0 MAPK1IP1L MAPK-interacting and spindle-stabilizing protein-like 1 0 MSDEFSLADALPEHS(1)PAK 73.593 0.0084401 3146000 394.02 579.58 385.24 496.37 761.71 660.65 652.27 577.9 861.5 510.29 TRUE FALSE FALSE 435.4648314 598.3587723 437.738501 505.9779591 703.3479444 604.3589033 578.8748629 563.1181548 855.5047514 532.2910992 0.818095272 1.12411944 0.822366749 0.950566259 1.321359582 1.135391714 1.087515579 1.057913904 1.607212205 1 9.056071632 -5.913609698 9.930011232 0.923105228 1.144678318 0 0.240334338 0.229091578 24.502176 0.016447889 0.029843752 1.22E-06 5.913609698 0.22157309 MSDTGS(ph)PGMQR ddPTM_HeLa_SAHA_4h_R1 6 MSDTGSPGMQR 11 0 A0A087WWA3;Q4R9M9;O60333-2;O60333;O60333-4;A0A0U1RQL3 A0A087WWA3 KIF1B;KIF1Bbeta Kinesin-like protein;Kinesin-like protein KIF1B 1 0 MSDT(0.418)GS(0.581)PGMQR;MSDT(0.033)GS(0.967)PGMQR;MSDT(0.269)GS(0.731)PGMQR;MSDT(0.022)GS(0.978)PGMQR;MSDT(0.225)GS(0.775)PGMQR;MSDT(0.227)GS(0.773)PGMQR ;;;;; 157.03 0.00025882 93582600 14050.1 14119.8 13300.8 16374.1 15396.9 13755.8 16493.9 14922.8 15741.7 13106.1 TRUE FALSE FALSE 15527.95398 14577.29078 15113.36376 16691.04438 14217.19285 12583.72845 14637.96296 14541.09638 15632.15223 13671.16811 1.135817646 1.066279828 1.105491764 1.2208938 1.039939874 0.920457444 1.070717794 1.063632329 1.143439398 1 13.7388489 -5.532510659 24.99938188 1.081106377 1.016294792 0.216662487 0.06942584 323.7006807 840155.1711 0.011415138 0.022850833 2.93E-06 5.532510659 -0.064811584 MSDYS(ph)PNSTGSVQNTSR ddPTM_HeLa_SAHA_4h_R1 1 MSDYSPNSTGSVQNTSR 17 0 H7C1W4;Q93075 H7C1W4 TATDN2 Putative deoxyribonuclease TATDN2 1 0 MSDYS(0.442)PNS(0.217)T(0.337)GS(0.004)VQNTSR 129.05 0.00018504 4582000 468.91 358.16 437.54 533.42 635.37 469.7 633.58 814.59 597.6 698.17 TRUE FALSE FALSE 518.2321052 369.764619 497.1656726 543.7451154 586.6880879 429.6789175 562.2879109 793.7539673 593.4412529 728.2715255 0.711591882 0.507729063 0.682665263 0.746624159 0.805589766 0.589998239 0.772085536 1.089914873 0.814862633 1 9.508332628 -9.10421618 0.972982913 0.993112316 0.729899837 0.119788952 0.154519647 0.490439556 0.868145516 0.084167131 0.027449715 7.87E-10 9.10421618 -0.263212479 MSEHQKEQTLDT(ph)PS(ph)LR ddPTM_HeLa_SAHA_4h_R1 1 MSEHQKEQTLDTPSLR 16 1 Q92556-3 Q92556-3 2 0 MSEHQKEQT(0.01)LDT(0.999)PS(0.991)LR 63.462 0.0072195 0 992.08 1355 1018.5 1136 1582.6 1621.1 1423.5 1246.6 1206.8 1246 TRUE FALSE FALSE 1096.431526 1398.902889 1157.295876 1157.988923 1461.34153 1482.97316 1263.324034 1214.713777 1198.401781 1299.721158 0.843589811 1.076310007 0.890418586 0.890951814 1.124350036 1.140993321 0.971996205 0.934595678 0.922045297 1 10.34398643 -5.773798436 24.99519462 0.931758049 1.044913957 0.276265134 0.083560035 237.4156805 480154.277 0.013862033 0.025257693 1.68E-06 5.773798436 0.113155908 MSES(ph)PTPCSGSSFEETEALVNTAAK ddPTM_HeLa_SAHA_4h_R1 1 MSESPTPCSGSSFEETEALVNTAAK 25 0 D6RAA5;Q4VXL8;E7EMZ9;E9PBC6;O95359-6;O95359-1;O95359-5;O95359-3;O95359;H0Y911;Q4VXL4;O95359-2 D6RAA5 TACC2 Transforming acidic coiled-coil-containing protein 2 1 0 MS(0.162)ES(0.676)PT(0.162)PCSGSSFEETEALVNTAAK 104.83 1.78E-06 3917500 1209.6 1357.5 963.31 1122.2 1348.1 1318.8 1494.5 1231.5 1335 1298.5 TRUE FALSE FALSE 1336.831278 1401.483891 1094.58487 1143.921804 1244.808869 1206.430821 1326.334927 1200.000013 1325.709626 1354.48469 0.986966695 1.034698953 0.808119042 0.844543916 0.919027641 0.890693582 0.979217363 0.885945793 0.978755712 1 10.40352837 -6.77756822 24.99974243 0.996737437 0.89164201 0.606437241 0.044178772 130.149884 201732.1473 0.007229648 0.00951761 1.67E-07 6.77756822 -0.105095427 MSESPT(ph)PCSGSSFEETEALVNTAAK ddPTM_HeLa_SAHA_4h_R1 1 MSESPTPCSGSSFEETEALVNTAAK 25 0 D6RAA5;Q4VXL8;E7EMZ9;E9PBC6;O95359-6;O95359-1;O95359-5;O95359-3;O95359;H0Y911;Q4VXL4;O95359-2 D6RAA5 TACC2 Transforming acidic coiled-coil-containing protein 2 1 0 MS(0.014)ES(0.438)PT(0.543)PCS(0.004)GSSFEETEALVNTAAK 152.88 1.51E-09 12768000 2438.5 2349.9 2511.5 2915.7 3079.1 2922.9 3099.7 2776.1 2738.7 2574.4 TRUE FALSE FALSE 2694.992618 2426.038302 2853.754141 2972.13759 2843.180023 2673.852476 2750.913598 2705.091382 2719.641164 2685.394983 1.003574013 0.903419541 1.062694374 1.106778559 1.058756735 0.995701747 1.02439813 1.007334638 1.012752754 1 11.39091859 MSGGS(ph)TMSSGGGNTNNSNSK ddPTM_HeLa_SAHA_4h_R1 2 MSGGSTMSSGGGNTNNSNSK 20 0 A0A6E1WJ75;Q86U70-3;Q86U70-2;Q86U70 A0A6E1WJ75 LDB1 LIM domain-binding protein 1 1 0 MS(0.169)GGS(0.364)T(0.364)MS(0.098)S(0.004)GGGNTNNSNSK;MS(0.206)GGS(0.735)T(0.044)MS(0.013)S(0.002)GGGNTNNSNSK ; 197.41 2.02E-15 6074780 516.12 728.02 618.41 581.38 845.18 1307.63 983.59 986.338 848.19 812.24 TRUE FALSE FALSE 570.4078696 751.6083257 702.6836943 592.6334506 780.422491 1196.212567 872.9138645 961.1089022 842.2873767 847.2596414 0.67323857 0.887105073 0.829360517 0.699470884 0.921113733 1.411860673 1.030279057 1.13437352 0.994131357 1 9.726660339 -5.475722221 9.905622008 0.834054247 1.174842026 0.570713573 0.133675471 0.364984435 75.02199636 0.021310862 0.047504116 3.34E-06 5.475722221 0.340787778 MSGGST(ph)MSSGGGNTNNSNSK ddPTM_HeLa_SAHA_4h_R1 1 MSGGSTMSSGGGNTNNSNSK 20 0 A0A6E1WJ75;Q86U70-3;Q86U70-2;Q86U70 A0A6E1WJ75 LDB1 LIM domain-binding protein 1 1 0 MS(0.227)GGS(0.089)T(0.677)MS(0.005)S(0.001)GGGNTNNSNSK 115.06 0.0104 1626900 134.39 183.47 223.18 266.81 250.1 249.45 307.35 206.25 155.52 190.11 TRUE FALSE FALSE 148.5257568 189.4145484 253.5938081 271.9744934 230.937392 228.1954566 272.7661691 200.9744236 154.4377237 198.3065725 0.74897042 0.955160215 1.278796789 1.371485019 1.164547343 1.150720593 1.3754772 1.013453166 0.778782678 1 7.631588683 -6.848332901 4.843496907 0.880432446 1.23272257 0.679274059 0.120206255 0.102599973 4.215432985 0.021264178 0.028312561 1.42E-07 6.848332901 0.352290124 MSGGSTMS(ph)SGGGNTNNSNSK ddPTM_HeLa_SAHA_4h_R1 2 MSGGSTMSSGGGNTNNSNSK 20 0 A0A6E1WJ75;Q86U70-3;Q86U70-2;Q86U70 A0A6E1WJ75 LDB1 LIM domain-binding protein 1 1 0 MS(0.164)GGS(0.189)T(0.189)MS(0.401)S(0.056)GGGNT(0.002)NNSNSK;MS(0.274)GGS(0.195)T(0.195)MS(0.326)S(0.009)GGGNT(0.001)NNSNSK ; 58.831 0.018161 778040 0 0 0 0 69.063 61.086 71.317 0 134.04 0 TRUE FALSE FALSE 0 0 0 0 63.77140786 55.88112914 63.29222346 0 133.1072047 0 0 MSHRRQVLQK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 MSHRRQVLQKR 11 3 A0A1B0GTK2 A0A1B0GTK2 0 1 MSHRRQVLQK(1)R 76.465 0.023802 22975000 109.14 283.67 1195.8 857.24 4114.8 3362.4 2221.8 1982.6 210.71 115.47 FALSE TRUE FALSE 120.619846 292.8610941 1358.757397 873.8331198 3799.524913 3075.904604 1971.797217 1931.887963 209.243652 120.4484768 1.001422759 2.431422148 11.28081843 7.254829144 31.54481496 25.5370984 16.37046203 16.03912323 1.737204633 1 6.912272339 -6.261096016 1.515007683 1.128683144 21.67946324 0.720609903 5.439909453 0.142342433 0.639638532 0.88309607 1.633398438 5.48E-07 6.261096016 20.5507801 MSPAS(ph)PIDDIER ddPTM_HeLa_SAHA_4h_R1 1 MSPASPIDDIER 12 0 B4DWJ3;Q96CJ1-2;Q96CJ1 B4DWJ3 EAF2 ELL-associated factor 2 1 0 MS(0.037)PAS(0.963)PIDDIER 96.756 0.008465 1749800 334.02 518.11 300.77 503.94 530.75 507.74 298.51 463.54 822.01 289.04 TRUE FALSE FALSE 369.1537561 534.8971039 341.7573693 513.6944874 490.0840497 464.4776955 264.9208692 451.683318 816.2895655 301.5019289 1.224382734 1.774108397 1.133516361 1.703785078 1.625475669 1.540546348 0.878670561 1.498110873 2.707410756 1 8.236023422 -7.79986917 1.598141557 1.066593274 1.436136769 0 0.579615307 0.315827264 1.680671162 0.055028234 0.052271252 1.59E-08 7.79986917 0.369543495 MSPNETLFLES(ph)TNK ddPTM_HeLa_SAHA_4h_R1 4 MSPNETLFLESTNK 14 0 Q9HB90;Q9NQL2 Q9HB90 RRAGC;RRAGD Ras-related GTP-binding protein C;Ras-related GTP-binding protein D 1 0 MSPNETLFLES(0.918)T(0.082)NK;MSPNETLFLES(0.796)T(0.204)NK;MSPNET(0.023)LFLES(0.9)T(0.076)NK;MSPNETLFLES(0.775)T(0.225)NK ;;; 254.72 1.84E-43 84013000 5266.5 5752.54 5717.44 6589.62 6795.68 6370.25 6458.75 5274.62 6068.25 5390.32 TRUE FALSE FALSE 5820.454634 5938.92607 6496.582948 6717.171624 6274.996467 5827.468862 5731.994452 5139.702858 6026.020554 5622.723075 1.035166512 1.05623663 1.155415777 1.194647422 1.116006672 1.036413991 1.019433889 0.914094966 1.071726364 1 12.45705328 -2.613800826 10.27940382 1.041998432 0.728628943 0 0.07838309 0 0 0.011293119 0 0.00243332 2.613800826 -0.313369489 MSQPGS(ph)PSPK ddPTM_HeLa_SAHA_4h_R1 3 MSQPGSPSPK 10 0 Q14839-2;A0A2R8YD40;A0A2R8Y5J0;A0A2R8Y425;A0A2R8YFD8;A0A2R8YE38;F5GWX5;A0A2R8YDJ9;A0A2R8Y212;A0A2U3TZM0;A0A2R8Y4X2;A0A2R8YDW2;A0A2R8Y521;A0A0C4DGG9;A0A2R8Y5M9;Q14839;A0A2R8YFK9;A0A2R8Y8C1;A0A2R8Y445;A0A2R8YER1;A0A2R8Y7I0;A0A2R8Y7M9 Q14839-2 CHD4 Chromodomain-helicase-DNA-binding protein 4 1 0 MSQPGS(0.886)PS(0.114)PK;MSQPGS(0.77)PS(0.23)PK;MS(0.005)QPGS(0.647)PS(0.348)PK ;; 120.55 0.0029894 172943000 28689.2 23483 20917.4 24874 26324.8 27163.9 26888.4 26941.2 25456.8 23333 TRUE FALSE FALSE 31706.86169 24243.86461 23767.91434 25355.47224 24307.79951 24849.3829 23862.84647 26252.08311 25279.64406 24338.99982 1.30271835 0.996091244 0.976536198 1.041763114 0.998718094 1.020969764 0.98043661 1.078601558 1.038647613 1 14.57098226 MSQPGSPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 5 MSQPGSPSPK 10 0 Q14839-2;A0A2R8YD40;A0A2R8Y5J0;A0A2R8Y425;A0A2R8YFD8;A0A2R8YE38;F5GWX5;A0A2R8YDJ9;A0A2R8Y212;A0A2U3TZM0;A0A2R8Y4X2;A0A2R8YDW2;A0A2R8Y521;A0A0C4DGG9;A0A2R8Y5M9;Q14839;A0A2R8YFK9;A0A2R8Y8C1;A0A2R8Y445;A0A2R8YER1;A0A2R8Y7I0;A0A2R8Y7M9 Q14839-2 CHD4 Chromodomain-helicase-DNA-binding protein 4 1 0 MSQPGS(0.276)PS(0.724)PK;MS(0.001)QPGS(0.299)PS(0.7)PK;MSQPGS(0.108)PS(0.892)PK;MSQPGS(0.243)PS(0.757)PK;MS(0.001)QPGS(0.466)PS(0.533)PK ;;;; 173.76 6.74E-05 705303000 43270.1 37441.6 33286.7 38691.8 39712.3 41932.2 41906.2 42754.1 36501.6 36859.6 TRUE FALSE FALSE 47821.44765 38654.73241 37822.83813 39440.73574 36669.55215 38359.34066 37190.80408 41660.51203 36247.58239 38448.79774 1.243769648 1.005356076 0.983719657 1.025798934 0.953724285 0.997673345 0.967281327 1.083532242 0.942749436 1 15.23065087 -7.048828362 24.96384975 1.115610808 0.99869756 0 0.084165296 381.5764928 195082.9565 0.015534541 0.019026074 8.94E-08 7.048828362 -0.116913248 MSS(ph)APT(ph)T(ph)PPS(ph)VDK ddPTM_HeLa_SAHA_4h_R1 1 MSSAPTTPPSVDK 13 0 Q16537-2;Q16537 Q16537-2 PPP2R5E Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform 4 0 MS(0.457)S(0.552)APT(0.996)T(0.996)PPS(1)VDK 44.968 0.019814 4180500 152.61 125.35 121.12 196.83 250.49 131.02 116.11 147.24 150.8 0 TRUE FALSE FALSE 168.66222 129.4114222 137.6256028 200.6399293 231.2975103 119.8563589 103.0449972 143.473814 149.7505705 0 0 MSS(ph)PEDDSDTKR ddPTM_HeLa_SAHA_4h_R1 3 MSSPEDDSDTKR 12 1 Q15424-2;Q15424;Q15424-4;Q15424-3 Q15424-2 SAFB Scaffold attachment factor B1 1 0 MS(0.151)S(0.848)PEDDS(0.001)DTKR;MS(0.041)S(0.959)PEDDSDTKR;MS(0.103)S(0.897)PEDDSDTKR ;; 111.72 0.0014534 24465300 7686.5 7813.3 7179.7 8449.9 8804.4 10298.5 9359.3 8733.2 9181 8396.9 TRUE FALSE FALSE 8495.001337 8066.456046 8158.112126 8613.460033 8129.808774 9421.009862 8306.166932 8509.81739 9117.108673 8758.931452 0.969867316 0.920940652 0.931404952 0.983391648 0.928173581 1.075588948 0.948308247 0.971558852 1.040892799 1 13.09653916 -8.780721063 1.089346782 0.997030714 0.96672334 0.155116529 0.043968109 0.905971386 2.144560164 0.015956444 0.007809782 1.66E-09 8.780721063 -0.030307374 MSS(ph)PLADAK ddPTM_HeLa_SAHA_4h_R1 3 MSSPLADAK 9 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 MS(0.078)S(0.922)PLADAK;MS(0.023)S(0.977)PLADAK;MS(0.07)S(0.93)PLADAK ;; 147.62 0.00053947 34737200 15799.5 14904.7 14473.9 15788.5 18806.6 18554.7 17924.1 16888.8 18960.1 15052.8 TRUE FALSE FALSE 17461.3639 15387.62206 16446.32772 16094.10925 17365.64237 16973.73517 15907.23309 16456.80895 18828.15512 15701.79987 1.112061295 0.979990968 1.04741672 1.024984994 1.105965081 1.081005701 1.013083419 1.048084238 1.199108081 1 13.93864232 -9.724320891 1.64014085 1.000001518 1.060423088 0 0.073476783 0.479999575 2.33245578 0.030827705 0.006731899 1.89E-10 9.724320891 0.06042157 MSS(ph)QSS(ph)S(ph)LSEACSR ddPTM_HeLa_SAHA_4h_R1 1 MSSQSSSLSEACSR 14 0 O00141-5 O00141-5 3 0 MS(0.322)S(0.628)QS(0.134)S(0.73)S(0.72)LS(0.465)EACSR 98 0.0038691 35006000 110.45 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 122.0676378 0 0 0 0 0 0 0 0 0 0 MSSEGPPRMS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 MSSEGPPRMSPK 12 1 Q99700;H0YH87;A0A5F9ZHW5;A0A5F9ZHX3;A0A2R8Y5A6;A0A2R8Y7E6;A0A5F9ZI57;V9GY86;F8VQP2;A0A2R8YDM9;A0A2R8Y7P6;Q99700-5;Q99700-2;Q99700-4;F8W0B5;F8WB06 Q99700;F8WB06 ATXN2 Ataxin-2 1 0 MSSEGPPRMS(1)PK;MSSEGPPRMS(1)PK ; 132.06 0.0043091 65071000 2776.4 2377 2431.3 2554.2 3104.5 2609.7 2601.4 3071.2 2849.7 2428.17 TRUE FALSE FALSE 3068.434491 2454.01636 2762.624902 2603.640234 2866.633881 2387.338878 2308.683625 2992.643151 2829.868706 2532.860292 1.211450351 0.968871583 1.090713495 1.027944669 1.131777339 0.942546609 0.911492684 1.18152713 1.117262059 1 11.30655179 -5.921458322 1.068697864 1.091855918 1.016203788 0.031469893 0.096342667 1.117786652 2.508070943 0.018601335 0.048730437 1.20E-06 5.921458322 -0.075652129 MSSYAFFVQTCR ddPTM_HeLa_SAHA_4h_R1 2 MSSYAFFVQTCR 12 0 P09429;Q5T7C4;B2RPK0;D6R9A6;P26583 P09429;D6R9A6 HMGB1;HMGB1P1;HMGB2 High mobility group protein B1;Putative high mobility group protein B1-like 1;High mobility group protein B2 0 0 ; ; 275.11 4.19E-99 5133400 787.28 793.11 1536.07 1543.48 1258.66 298.737 1295.86 253.66 100.62 620.8 FALSE FALSE TRUE 870.0897226 818.8072844 1745.39762 1573.356287 1162.221743 273.282927 1150.046422 247.1717445 99.91977723 647.5657261 1.343631523 1.264438885 2.695321185 2.429647253 1.794754873 0.422015737 1.775953198 0.381693679 0.154300596 1 9.33888282 -2.832348172 14.28760705 1.341546453 1.007678568 0 0.819132906 0 0 0.098276823 0 0.001471133 2.832348172 -0.333867884 MSVQPTVSLGGFEITPPVVLR ddPTM_HeLa_SAHA_4h_R1 3 MSVQPTVSLGGFEITPPVVLR 21 0 P06748;P06748-3;P06748-2;E5RI98 P06748 NPM1 Nucleophosmin 0 0 ;; ;; 185.86 6.08E-14 19184800 1465.61 1752.49 1660.79 1812.43 1698.45 1628.11 1979.29 2020.97 1594.66 1624.39 FALSE FALSE TRUE 1619.769584 1809.271826 1887.113812 1847.512203 1568.315128 1489.385869 1756.57508 1969.276514 1583.562631 1694.425402 0.955940333 1.067778979 1.113719028 1.090347324 0.925573428 0.878991702 1.03667891 1.162209036 0.934572055 1 10.72658041 -7.998818829 0.007424686 3.99E-05 1.997505581 0.077355249 0.084287848 7789.49342 34.11255902 4636.800769 4538.324428 1.00E-08 7.998818829 1.997465723 MSYTS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 2 MSYTSPGR 8 0 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 MSYT(0.023)S(0.977)PGR;MSYT(0.093)S(0.907)PGR ; 114.89 0.0047944 8952800 5472.8 5180.7 4452.5 5909.1 6021 7849.1 5480.5 5832.8 5263.4 5203.7 TRUE FALSE FALSE 6048.454214 5348.558079 5059.263512 6023.479175 5559.672281 7180.312522 4863.819716 5683.605422 5226.771571 5428.056973 1.114294534 0.985354079 0.932057924 1.109693433 1.024247223 1.322814509 0.896051707 1.047079176 0.962917596 1 12.40622015 MT(ph)GSPTLVK ddPTM_HeLa_SAHA_4h_R1 1 MTGSPTLVK 9 0 B7ZBM3;Q8IVH2-3;Q8IVH2-2;Q8IVH2 B7ZBM3 FOXP4 Forkhead box protein P4 1 0 MT(0.998)GS(0.002)PTLVK 112.71 0.0058003 0 3721.4 3685.7 3852.8 4044.4 4670.4 4433.6 4535 4303.6 3546.2 3668.7 TRUE FALSE FALSE 4112.833926 3805.119098 4377.839519 4122.68521 4312.554961 4055.832337 4024.709865 4193.520144 3521.521705 3826.875611 1.074723703 0.994314811 1.143972254 1.077297939 1.126912761 1.05982863 1.051696024 1.0958078 0.92020804 1 11.90195129 -9.333987677 0.392579856 0.972631885 1.085157565 0.480479889 0.045896637 2.033517782 0.394476782 0.09711242 0.013406024 4.63E-10 9.333987677 0.112525679 MT(ph)ISQQEFGR ddPTM_HeLa_SAHA_4h_R1 1 MTISQQEFGR 10 0 Q5VWC4;P55036;H0Y3Y9 Q5VWC4 PSMD4 26S proteasome non-ATPase regulatory subunit 4 1 0 MT(0.608)IS(0.392)QQEFGR 108.68 0.01061 8045000 1100.9 1140.7 898.96 1013.9 1082.1 1275.5 1248.8 1203.9 878.18 894.87 TRUE FALSE FALSE 1216.697713 1177.659428 1021.465587 1033.525501 999.1897318 1166.820224 1108.281737 1173.105981 872.0686739 933.4522251 1.303438655 1.261617249 1.09428802 1.10720771 1.070424072 1.250005295 1.187293476 1.256739177 0.934240286 1 9.866432376 -9.543436046 1.326494362 1.000660247 1.200040609 0.547274173 0.079323681 0.337079209 1.068023862 0.059629837 0.014364873 2.86E-10 9.543436046 0.199380363 MT(ph)LMAAVYT(ph)IALR ddPTM_HeLa_SAHA_4h_R1 1 MTLMAAVYTIALR 13 0 A0A087WVM1 A0A087WVM1 SLC35A1 2 0 MT(1)LMAAVY(0.409)T(0.591)IALR 88.496 0.010941 10451000 69.36 192.39 0 198 125.95 213.75 198.79 208.13 200.18 162.16 TRUE FALSE FALSE 76.65560304 198.6235622 0 201.8325763 116.2997382 195.5372975 176.421626 202.806336 198.7869311 169.1515112 0.453177169 1.17423463 0 1.193205871 0.687547734 1.155989066 1.042979899 1.198962602 1.175200444 1 7.402172256 -5.323687194 1.424859906 0.733525887 1.152341182 0.105778516 0.363347972 0.565782173 2.140612665 0.051494666 0.188972564 4.75E-06 5.323687194 0.418815295 MT(ph)NT(ph)LDT(ph)ES(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 MTNTLDTESPSR 12 0 H0YM60 H0YM60 NOP10 4 0 MT(0.998)NT(0.991)LDT(0.799)ES(0.846)PS(0.366)R 53.683 0.0087135 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 MT(ph)PSKIHMQEMELK ddPTM_HeLa_SAHA_4h_R1 1 MTPSKIHMQEMELK 14 1 E9PMG1;H0YDT0;Q96D71-4;Q96D71-3;Q96D71;Q96D71-2;H0YE73 E9PMG1 REPS1 RalBP1-associated Eps domain-containing protein 1 1 0 MT(0.765)PS(0.235)KIHMQEMELK 53.034 0.0081081 0 178.1 0 0 132.93 0 200.36 151.91 188.52 203.03 166.47 TRUE FALSE FALSE 196.8333752 0 0 135.5030524 0 183.2882008 134.816687 183.6979314 201.6170977 173.6473364 1.133523723 0 0 0.780334759 0 1.055519794 0.776382119 1.05787935 1.161072216 1 7.440016471 -7.304099829 24.94321392 1.063052945 0.523945358 0.308887173 0.392329302 432.6173719 252946.813 0.067548302 0.077244736 4.96E-08 7.304099829 -0.539107586 MT(ph)RGVLSRTSSIQPSFRHR ddPTM_HeLa_SAHA_4h_R1 1 MTRGVLSRTSSIQPSFRHR 19 3 F5GYU8;Q6UXY8-2;Q6UXY8 F5GYU8 TMC5 Transmembrane channel-like protein;Transmembrane channel-like protein 5 1 0 MT(0.999)RGVLSRTSSIQPSFRHR 46.892 0.0087191 0 717.87 891.63 823.67 710.71 831.79 1024.9 853.71 623.58 921.79 830.1 TRUE FALSE FALSE 793.3788603 920.519397 935.9154581 724.4668198 768.0584299 937.5727541 757.648304 607.6297265 915.3751883 865.8896734 0.9162586 1.063090859 1.080871486 0.836673357 0.887016503 1.082785467 0.87499404 0.701740355 1.057149908 1 9.758039407 -4.382183902 3.427386284 0.968365065 0.696602625 0.512832384 0.084549111 0.161067016 3.031700245 0.011152554 0.091741589 4.15E-05 4.382183902 -0.271762439 MT(ph)T(ph)DINALK ddPTM_HeLa_SAHA_4h_R1 1 MTTDINALK 9 0 F8VZ81;Q9Y2I9-3;Q9Y2I9-2;Q9Y2I9 F8VZ81 TBC1D30 TBC1 domain family member 30 2 0 MT(1)T(1)DINALK 86.472 0.019758 2425500 493.33 448.31 336.18 501.85 395.44 605.94 528.53 366.04 533.4 437.54 TRUE FALSE FALSE 545.2207129 462.8355381 381.9928596 511.5640324 365.1414726 554.3105031 469.0584134 356.6772268 529.688026 456.4044907 1.194599799 1.014090675 0.836961221 1.120856703 0.800039176 1.214515883 1.027725237 0.781493684 1.160567078 1 8.834169176 -7.011716988 24.23304942 1.092549665 0.973290197 0.191146319 0.138536034 574.3818383 1187937.006 0.02279402 0.02879005 9.73E-08 7.011716988 -0.119259467 MT(ph)T(ph)LQNK ddPTM_HeLa_SAHA_4h_R1 1 MTTLQNK 7 0 Q9H0M4-2;Q9H0M4-5;Q9H0M4 Q9H0M4-2 ZCWPW1 Zinc finger CW-type PWWP domain protein 1 2 0 MT(1)T(1)LQNK 44.692 0.0087964 0 286.43 254.13 315.3 219.14 369.14 376.87 350.32 291.63 352.27 363.55 TRUE FALSE FALSE 316.5580216 262.3639787 358.267442 223.3817716 340.8565729 344.7585558 310.9010716 284.1705269 349.8185244 379.2244197 0.834751153 0.691843576 0.944737267 0.589049017 0.898825485 0.909114862 0.819833997 0.749346593 0.922457801 1 8.566908058 -8.774957477 0.751091394 0.997119524 0.805296375 0.255639073 0.103899495 0.545365574 0.594917806 0.056406418 0.02093415 1.68E-09 8.774957477 -0.191823149 MTDQEAIQDLWQWR ddPTM_HeLa_SAHA_4h_R1 6 MTDQEAIQDLWQWR 14 0 P06748;P06748-2 P06748 NPM1 Nucleophosmin 0 0 ;;;;; ;;;;; 265.22 1.05E-54 715985000 5134.11 4978.46 4898.32 5538.61 5916.29 6356.34 6143.79 4687.23 6032.54 5158.78 FALSE FALSE TRUE 5674.139246 5139.76537 5565.83754 5645.817806 5462.985138 5814.744072 5452.47458 4567.337444 5990.559063 5381.200252 1.054437482 0.955133637 1.034311544 1.049174448 1.015198261 1.080566379 1.013245061 0.848758126 1.113238457 1 12.39371228 -4.266718255 4.984384351 1.026295463 0.840551509 0.633188387 0.042167565 0.065066417 4.973266375 0.004573642 0.041301883 5.41E-05 4.266718255 -0.185743954 MTEEEVEMLVAGHEDS(ph)NGCINYEELVR ddPTM_HeLa_SAHA_4h_R1 4 MTEEEVEMLVAGHEDSNGCINYEELVR 27 0 P60660-2;G8JLA2;F8VZU9;F8W180;F8VXL3 P60660-2 MYL6 Myosin light polypeptide 6 1 0 MTEEEVEMLVAGHEDS(1)NGCINYEELVR;MTEEEVEMLVAGHEDS(1)NGCINYEELVR;MTEEEVEMLVAGHEDS(1)NGCINYEELVR;MTEEEVEMLVAGHEDS(1)NGCINYEELVR ;;; 139.25 8.84E-10 42247400 3275.41 3340.72 4285.51 3846.99 5667.12 5407.88 5645.93 3716.49 4352.04 3900.34 TRUE FALSE FALSE 3619.932652 3448.96152 4869.516985 3921.454054 5232.90649 4947.0982 5010.635097 3621.427567 4321.753799 4068.502745 0.889745658 0.84772255 1.196881824 0.963856804 1.286199572 1.215950562 1.231567338 0.890113094 1.062246745 1 11.99028225 -6.75563601 24.99998352 0.938964735 1.13869464 0.324248653 0.127188757 109.2677271 470705.931 0.01893681 0.026367602 1.76E-07 6.75563601 0.199729905 MTEEEVEMLVAGHEDSNGCINYEELVR ddPTM_HeLa_SAHA_4h_R1 2 MTEEEVEMLVAGHEDSNGCINYEELVR 27 0 P60660-2;G8JLA2;F8VZU9;F8W180;F8VXL3 P60660-2 MYL6 Myosin light polypeptide 6 0 0 ; ; 131.26 5.05E-09 9459300 1492.54 1826.91 1520.7 1742.17 2270.5 2229.55 2325.2 2005.3 2109.44 2285.02 FALSE FALSE TRUE 1649.532205 1886.103083 1727.933077 1775.89222 2096.534781 2039.579797 2063.562376 1954.00733 2094.760235 2383.538395 0.692051871 0.791303839 0.724944511 0.745065497 0.879589263 0.855694123 0.865755878 0.81979268 0.878844763 1 11.21888915 -9.499854035 1.254899014 0.999673039 0.787608909 0.36040739 0.068956819 0.269547772 0.761516873 0.048628678 0.011872182 3.16E-10 9.499854035 -0.21206413 MTGSAPPPS(ph)PTPNK ddPTM_HeLa_SAHA_4h_R1 1 MTGSAPPPSPTPNK 14 0 Q9UBW7 Q9UBW7 ZMYM2 Zinc finger MYM-type protein 2 1 0 MTGS(0.004)APPPS(0.993)PT(0.003)PNK 156.2 1.30E-11 0 1454.1 1496.5 1355 1519.5 1647.6 2013.7 1556.2 1561.3 1878.4 1554.1 TRUE FALSE FALSE 1607.04891 1544.987582 1539.652343 1548.91212 1521.361244 1842.121431 1381.09228 1521.364207 1865.328061 1621.104857 0.991329403 0.953046051 0.949754939 0.955466954 0.938471832 1.136337001 0.851945064 0.938473659 1.150652318 1 10.6627617 MTGSPT(ph)LVK ddPTM_HeLa_SAHA_4h_R1 2 MTGSPTLVK 9 0 B7ZBM3;Q8IVH2-3;Q8IVH2-2;Q8IVH2 B7ZBM3 FOXP4 Forkhead box protein P4 1 0 MTGS(0.047)PT(0.953)LVK;MTGS(0.028)PT(0.972)LVK ; 150.04 0.00075543 32026000 9048 8485.1 8579.6 9205.2 10052.6 11000.8 10125 9999.4 9359.1 8157.8 TRUE FALSE FALSE 9999.710154 8760.022807 9748.783207 9383.379957 9282.37196 10063.46995 8985.708352 9743.629827 9293.969261 8509.522681 1.175119984 1.029437624 1.145632202 1.102691691 1.090821696 1.182612742 1.055959152 1.1450266 1.092184557 1 13.05486249 -9.51510067 1.229457411 0.999100202 1.12008126 0.129917189 0.054077897 0.31801323 0.850114067 0.03277278 0.007647975 3.05E-10 9.51510067 0.120981057 MTIS(ph)QQEFGR ddPTM_HeLa_SAHA_4h_R1 1 MTISQQEFGR 10 0 Q5VWC4;P55036;H0Y3Y9 Q5VWC4 PSMD4 26S proteasome non-ATPase regulatory subunit 4 1 0 MT(0.059)IS(0.941)QQEFGR 103.14 0.007989 8613800 305.35 674.95 686.03 570.41 759.97 679.7 787.79 760.06 726.28 617.92 TRUE FALSE FALSE 337.468114 696.8188229 779.5185957 581.4511104 701.7412628 621.7857361 699.1457959 740.6187658 721.2257583 644.5615552 0.523562275 1.08107413 1.209378048 0.902087792 1.088711012 0.964664633 1.084684295 1.14902721 1.11894008 1 9.332174331 -7.221454913 24.58586802 0.77501549 1.064938805 0.119151728 0.172584814 360.2167797 221492.2148 0.031441535 0.038507566 6.01E-08 7.221454913 0.289923315 MTK(ac)PETPEETQRESTEK ddPTM_HeLa_SAHA_4h_R1 1 MTKPETPEETQRESTEK 17 2 Q9P1V8-2;Q9P1V8 Q9P1V8-2 SAMD15 Sterile alpha motif domain-containing protein 15 0 1 MTK(1)PETPEETQRESTEK 51.727 0.022326 1728800 351.85 203.03 624.83 806.4 648.49 1149.4 597.83 314.37 383.5 887.35 FALSE TRUE FALSE 388.8591973 209.6083052 709.9785784 822.0090381 598.8028363 1051.464654 530.560595 306.3288706 380.8311923 925.6080011 0.420112182 0.226454725 0.767040235 0.888074689 0.646929192 1.135971872 0.573202257 0.330948814 0.411438959 1 9.854257525 -9.528923063 1.330512689 0.996985844 0.613791391 0 0.310693424 0.53780583 1.725884701 0.181506512 0.044892203 2.96E-10 9.528923063 -0.383194453 MTLIPSPNS(ph)PFQK ddPTM_HeLa_SAHA_4h_R1 1 MTLIPSPNSPFQK 13 0 Q96AY4;A0A087WW06 Q96AY4 TTC28 Tetratricopeptide repeat protein 28 1 0 MT(0.008)LIPS(0.441)PNS(0.551)PFQK 76.262 0.022827 2110600 666.01 746.4 602.36 880.66 812.87 981.23 764.48 690.71 776.08 991.45 TRUE FALSE FALSE 736.0639876 770.5838497 684.4464838 897.7064478 750.5880762 897.6236838 678.4586984 673.0426383 770.6791961 1034.196262 0.711725632 0.745104076 0.661814889 0.868023296 0.725769473 0.867943269 0.656025093 0.650788118 0.74519627 1 10.01429428 -9.248177437 0.791995579 1.015294827 0.737306973 0.011222852 0.107620988 0.368843775 0.380189185 0.065379864 0.01460239 5.65E-10 9.248177437 -0.277987854 MTMRMKIMSPR ddPTM_HeLa_SAHA_4h_R1 1 MTMRMKIMSPR 11 2 E9PKP7 E9PKP7 UBTF 0 0 93.561 0.0018675 0 1425.7 1529.3 1963 2101.7 1473.4 1291 1446.9 1605.9 1413.7 1573.7 FALSE FALSE TRUE 1575.661667 1578.850323 2230.507417 2142.381443 1360.50841 1180.999537 1284.091004 1564.823403 1403.861947 1641.549909 0.959862176 0.961804643 1.35878136 1.305096745 0.828795033 0.719441749 0.782243048 0.953259718 0.855205157 1 10.6808429 -5.562441614 24.99955282 1.032180968 0.807942178 0.360160097 0.159153914 145.3222638 91827.89526 0.023975309 0.047950668 2.74E-06 5.562441614 -0.22423879 MTNNEDS(ph)LSPTSSTLSNLELDAAEKDR ddPTM_HeLa_SAHA_4h_R1 2 MTNNEDSLSPTSSTLSNLELDAAEKDR 27 1 Q9ULH7-4;Q9ULH7;Q9ULH7-5 Q9ULH7-4 MKL2 MKL/myocardin-like protein 2 1 0 MT(0.139)NNEDS(0.823)LS(0.032)PT(0.007)SSTLSNLELDAAEKDR;MT(0.058)NNEDS(0.884)LS(0.046)PT(0.011)S(0.001)STLSNLELDAAEKDR ; 124.66 1.22E-07 14282600 1470.14 1585.56 1380.74 1707.58 1840.47 1815.21 1792.97 1797.64 1604.8 1632.77 TRUE FALSE FALSE 1624.77607 1636.933184 1568.900057 1740.63268 1699.453586 1660.543896 1591.220297 1751.658972 1593.632066 1703.166705 0.953973598 0.961111545 0.921166467 1.021997832 0.997819873 0.974974376 0.934271608 1.028471826 0.935687658 1 10.73400394 MTNNEDSLSPT(ph)SSTLSNLELDAAEKDR ddPTM_HeLa_SAHA_4h_R1 2 MTNNEDSLSPTSSTLSNLELDAAEKDR 27 1 Q9ULH7-4;Q9ULH7;Q9ULH7-5 Q9ULH7-4 MKL2 MKL/myocardin-like protein 2 1 0 MTNNEDS(0.015)LS(0.37)PT(0.613)S(0.002)STLSNLELDAAEKDR;MTNNEDS(0.004)LS(0.054)PT(0.871)S(0.054)S(0.018)TLSNLELDAAEKDR ; 161.95 6.98E-11 63541000 2322.6 1945.6 1994.28 2175.9 2555.1 2770.5 2385.9 2397.3 2565.7 2090.47 TRUE FALSE FALSE 2566.901724 2008.638717 2266.050093 2218.017691 2359.32879 2534.437814 2117.432253 2335.980537 2547.845085 2180.600392 1.177153656 0.921140216 1.039186318 1.017159173 1.08196293 1.162266054 0.971031767 1.071255671 1.168414485 1 11.0905097 -7.286330681 24.98931548 1.083655881 1.040908144 0.137213242 0.0774935 1992.528556 2000368.099 0.014930878 0.017077138 5.17E-08 7.286330681 -0.042747738 MTVDESGQLISCSMDDTVR ddPTM_HeLa_SAHA_4h_R1 1 MTVDESGQLISCSMDDTVR 19 0 O75083;O75083-3 O75083 WDR1 WD repeat-containing protein 1 0 0 84.169 0.016081 2839900 340.14 472.24 477.25 496.22 440.31 495.03 392.82 416.8 538.58 402.39 FALSE FALSE TRUE 375.9174858 487.5408858 542.2871446 505.8250556 406.5735429 452.850659 348.6188598 406.1388595 534.8319779 419.7390021 0.895598179 1.161533437 1.291962724 1.205094244 0.968634177 1.0788863 0.830561034 0.967598573 1.27420129 1 8.713348714 -2.325976354 14.9932431 1.002660166 1.022551716 0 0.165207684 0 0 0.020814229 0 0.004720887 2.325976354 0.01989155 HGLQSLGK(ac)VAAAR ddPTM_HeLa_SAHA_4h_R1 1 HGLQSLGKVAAAR 13 1 Q5JSZ5;Q5JSZ5-5;A0A1W2PQP5 Q5JSZ5 PRRC2B Protein PRRC2B 0 1 HGLQSLGK(1)VAAAR 156 1.58E-06 1436800 598.62 964.27 671.92 885.75 1532.9 1358.3 1664.1 1434.5 700.09 597.1 FALSE TRUE FALSE 661.5855982 995.5129807 763.4857584 902.8949721 1415.449533 1242.565198 1476.851088 1397.807567 695.2180167 622.8439031 1.062201291 1.598334632 1.225805944 1.449632833 2.272559025 1.994986532 2.371141599 2.244234165 1.116199441 1 9.282726831 -5.961620422 0.67591243 1.017377696 2.398679588 0.852795842 0.197609406 0.185912666 0.155157158 0.038067114 0.129405209 1.09E-06 5.961620422 1.381301892 up MVEPENAVTITPLRPEDDYS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 MVEPENAVTITPLRPEDDYSPR 22 1 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;A0A0G2JPP5;Q14160-3;A0A669KAX5;H0YDF9 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 MVEPENAVTITPLRPEDDY(0.014)S(0.986)PR;MVEPENAVTIT(0.001)PLRPEDDY(0.441)S(0.558)PR ; 107.95 6.55E-05 23591000 806.97 1478.8 812.63 942.06 1142.12 1183.56 1596.69 1218.72 1232.75 835.78 TRUE FALSE FALSE 891.8508071 1526.71409 923.3709844 960.2949335 1054.611012 1082.714029 1417.026239 1187.546907 1224.171192 871.814566 1.022982228 1.751191308 1.059136909 1.101489894 1.20967354 1.241908626 1.625375733 1.362155386 1.404164647 1 9.767877498 -1.000000009 0.124580498 0.850151527 2.905774034 0 0.257031261 74.80173721 0.635312483 0.873635188 26.93525602 0.099999998 1.000000009 2.055622507 MVEPQY(ph)QELK ddPTM_HeLa_SAHA_4h_R1 1 MVEPQYQELK 10 0 O00625 O00625 PIR Pirin 1 0 MVEPQY(1)QELK 94.309 0.0041158 0 313.17 277.12 152.43 354.87 331.92 348.68 358.05 313.2 317.13 301.08 TRUE FALSE FALSE 346.1106575 286.0988698 173.2023666 361.739022 306.4883613 318.9705024 317.7612717 305.1887975 314.9230665 314.0610322 1.102049035 0.910965833 0.5514927 1.151811224 0.9758879 1.015632217 1.011781912 0.971749966 1.002744799 1 8.294901139 -7.253423816 24.21999401 1.048189822 0.94132966 0.076057497 0.14733964 710.0292341 2145439.095 0.024777187 0.030048673 5.58E-08 7.253423816 -0.106860162 MVGFIIGR ddPTM_HeLa_SAHA_4h_R1 2 MVGFIIGR 8 0 Q96I24;Q96I24-2 Q96I24 FUBP3 Far upstream element-binding protein 3 0 0 ; ; 150.82 3.22E-05 2720000 2318.1 2587.4 2876 3089.6 2988.4 2646 3510.2 1630.45 1395.02 2714 FALSE FALSE TRUE 2561.928394 2671.233458 3267.926302 3149.403676 2759.429438 2420.545914 3115.223058 1588.74545 1385.311942 2831.013822 0.90495086 0.943560726 1.154330748 1.112464959 0.974714223 0.855010278 1.100391327 0.56119311 0.489334221 1 11.46710308 -4.250997914 24.83654274 0.979176886 0.561192854 0.279395422 0.180480542 701.6394965 1668916.378 0.013443529 0.255561376 5.61E-05 4.250997914 -0.417984032 MVILLCNLKPAK ddPTM_HeLa_SAHA_4h_R1 2 MVILLCNLKPAK 12 1 A0A5F9ZHC5;Q12904;Q12904-2 A0A5F9ZHC5 AIMP1 Aminoacyl tRNA synthase complex-interacting multifunctional protein 1;Endothelial monocyte-activating polypeptide 2 0 0 ; ; 108.47 0.0036946 2825700 1086.35 1014.86 2000.71 2042.36 1828.4 756.62 1707.09 442.05 769.11 1136.52 FALSE FALSE TRUE 1200.617277 1047.74213 2273.35634 2081.892831 1688.308387 692.1517194 1515.00374 430.7430011 763.7577009 1185.520939 1.012733928 0.883782053 1.91760117 1.756099586 1.424106763 0.583837616 1.27792238 0.363336477 0.644238052 1 10.21130543 -3.04538168 10.90999197 1.088947163 0.695038304 0 0.481147472 0 0 0.060312976 0 0.000900779 3.04538168 -0.393908859 MVIQEIENS(ph)EDEEGKSGR ddPTM_HeLa_SAHA_4h_R1 2 MVIQEIENSEDEEGKSGR 18 1 Q07617;Q07617-2 Q07617 SPAG1 Sperm-associated antigen 1 1 0 MVIQEIENS(1)EDEEGKSGR;MVIQEIENS(1)EDEEGKSGR ; 98.727 0.00096583 6657100 883.79 1395.65 1286.2 1184.78 1166.08 1228.49 1264.3 1250.04 1415.43 1137.91 TRUE FALSE FALSE 976.7510872 1440.869976 1461.476638 1207.71313 1076.735202 1123.815741 1122.037637 1218.065787 1405.579907 1186.970869 0.8228939 1.213905087 1.231265801 1.017474954 0.907128583 0.946793026 0.945295008 1.026196867 1.184173887 1 10.21306881 -7.292897047 24.99975341 0.916366572 1.035082202 0 0.138034753 925.1667786 735238.0892 0.02202706 0.02518997 5.09E-08 7.292897047 0.11871563 MVIQGPS(ph)SPQGEAMVTDVLEDQK ddPTM_HeLa_SAHA_4h_R1 3 MVIQGPSSPQGEAMVTDVLEDQK 23 0 Q12888;Q12888-3;Q12888-2;A6NNK5 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 MVIQGPS(0.441)S(0.441)PQGEAMVT(0.117)DVLEDQK;MVIQGPS(0.592)S(0.408)PQGEAMVTDVLEDQK;MVIQGPS(0.592)S(0.408)PQGEAMVTDVLEDQK ;; 144.7 1.67E-06 18275700 4237.22 5748.38 3915.35 5117.19 5784.69 6643.3 5783.84 4974.38 8082.2 5679.3 TRUE FALSE FALSE 4682.910241 5934.631284 4448.913508 5216.240612 5341.468302 6077.253466 5133.027101 4847.142562 8025.955312 5924.162417 0.790476343 1.001767147 0.750977639 0.880502634 0.901641097 1.025841805 0.866456174 0.818198797 1.354783132 1 12.53239548 -9.61113228 1.420599439 0.999895517 0.871098964 0.273624264 0.14008554 0.478251511 1.7348091 0.058132751 0.013416413 2.45E-10 9.61113228 -0.128796553 MVIQGPS(ph)SPQGEAMVTDVLEDQKEGR ddPTM_HeLa_SAHA_4h_R1 10 MVIQGPSSPQGEAMVTDVLEDQKEGR 26 1 Q12888;Q12888-3;Q12888-2;A6NNK5 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 MVIQGPS(0.5)S(0.5)PQGEAMVTDVLEDQKEGR;MVIQGPS(0.5)S(0.5)PQGEAMVTDVLEDQKEGR;MVIQGPS(0.5)S(0.5)PQGEAMVTDVLEDQKEGR;MVIQGPS(0.5)S(0.5)PQGEAMVTDVLEDQKEGR;MVIQGPS(0.5)S(0.5)PQGEAMVTDVLEDQKEGR;MVIQGPS(0.47)S(0.47)PQGEAMVT(0.061)DVLEDQKEGR;MVIQGPS(0.6)S(0.4)PQGEAMVTDVLEDQKEGR;MVIQGPS(0.5)S(0.5)PQGEAMVTDVLEDQKEGR;MVIQGPS(0.499)S(0.499)PQGEAMVT(0.001)DVLEDQKEGR;MVIQGPS(0.5)S(0.5)PQGEAMVT(0.001)DVLEDQKEGR ;;;;;;;;; 177.29 4.51E-13 372094000 12335.37 12193.15 13386.98 13314.02 13959.75 15112.05 15536.43 15837.14 11876.83 13120.14 TRUE FALSE FALSE 13632.86081 12588.21606 15211.28792 13571.73211 12890.15697 13824.41832 13788.23001 15432.04889 11794.17817 13685.81344 0.996130838 0.919800355 1.111463924 0.991664264 0.941862683 1.010127632 1.007483411 1.127594567 0.861781305 1 13.74039357 -4.245609062 3.491573119 0.996989393 1.145934699 0.297085833 0.063718912 0.235371139 4.788794778 0.006020757 0.093886303 5.68E-05 4.245609062 0.148945305 MVIQGPSS(ph)PQGEAMVTDVLEDQK ddPTM_HeLa_SAHA_4h_R1 1 MVIQGPSSPQGEAMVTDVLEDQK 23 0 Q12888;Q12888-3;Q12888-2;A6NNK5 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 MVIQGPS(0.173)S(0.823)PQGEAMVT(0.004)DVLEDQK 77.681 0.000685 0 417.1 614.93 431.8 524.04 506.03 788.15 640.99 399.12 689.19 627.77 TRUE FALSE FALSE 460.9724917 634.8541355 490.6434553 534.183552 467.2580907 720.995186 568.8641182 388.9110883 684.3938707 654.8362369 0.703950798 0.969485346 0.749261308 0.815751362 0.713549532 1.101031289 0.868712032 0.593905875 1.045137444 1 9.354990349 -9.571463042 1.343781338 1.000233173 0.809548475 0.263130023 0.136998597 0.551484819 1.781584651 0.095216883 0.022195006 2.68E-10 9.571463042 -0.190684698 MVIQGPSS(ph)PQGEAMVTDVLEDQKEGR ddPTM_HeLa_SAHA_4h_R1 7 MVIQGPSSPQGEAMVTDVLEDQKEGR 26 1 Q12888;Q12888-3;Q12888-2;A6NNK5 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 MVIQGPS(0.237)S(0.762)PQGEAMVTDVLEDQKEGR;MVIQGPS(0.218)S(0.782)PQGEAMVTDVLEDQKEGR;MVIQGPS(0.23)S(0.77)PQGEAMVTDVLEDQKEGR;MVIQGPS(0.221)S(0.779)PQGEAMVTDVLEDQKEGR;MVIQGPS(0.237)S(0.763)PQGEAMVTDVLEDQKEGR;MVIQGPS(0.232)S(0.768)PQGEAMVTDVLEDQKEGR;MVIQGPS(0.164)S(0.836)PQGEAMVTDVLEDQKEGR ;;;;;; 174.7 9.30E-14 705219000 14234.8 13468.27 14470.52 15138.9 16588.6 16014.3 17156.5 16201.2 14369.3 14650.3 TRUE FALSE FALSE 15732.08158 13904.65078 16442.48711 15431.9353 15317.58505 14649.79155 15226.00547 15786.79676 14269.30287 15281.94613 1.029455374 0.909874349 1.075941962 1.009814795 1.002332093 0.958633895 0.996339428 1.033035755 0.933735975 1 13.89954066 -5.52082973 23.02172806 1.010301071 0.993444408 0 0.04849467 90.3468962 1015090.989 0.005824767 0.011819136 3.01E-06 5.52082973 -0.016856663 MVIQGPSSPQGEAMVT(ph)DVLEDQK ddPTM_HeLa_SAHA_4h_R1 1 MVIQGPSSPQGEAMVTDVLEDQK 23 0 Q12888;Q12888-3;Q12888-2;A6NNK5 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 MVIQGPS(0.307)S(0.307)PQGEAMVT(0.386)DVLEDQK 63.69 0.0046646 2072900 265.86 366.05 246.79 419.29 469.16 539.26 502.47 366.72 764.39 477.83 TRUE FALSE FALSE 293.8243746 377.9102602 280.421256 427.4059643 433.2130622 493.3120142 445.9307532 357.3398334 759.0705478 498.4315897 0.589497898 0.758198854 0.56260731 0.857501758 0.8691525 0.989728629 0.894667919 0.716928543 1.522918217 1 8.961251697 -4.163421406 17.79007024 0.807395265 0.716829729 0 0.265721088 34395.68367 6221853.816 0.024889444 419.9528515 6.86E-05 4.163421406 -0.090565536 MVNHFIAEFK ddPTM_HeLa_SAHA_4h_R1 3 MVNHFIAEFK 10 0 P11142;E9PKE3;P11142-2;E9PN89;A8K7Q2 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ;; ;; 113.93 0.0020938 7853700 11650.1 12585.6 15224.5 15962.2 16295.5 11378.5 16560 6929.2 10110 12656.3 FALSE FALSE TRUE 12875.51097 12993.3817 17299.21557 16271.17146 15046.94231 10408.98779 14696.62522 6751.961097 10039.64369 13201.97503 0.975271574 0.984199839 1.310350575 1.232480097 1.139749339 0.788441711 1.113214135 0.511435682 0.760465284 1 13.68846615 -4.25558845 24.51201583 1.028590285 0.511435383 0.470883526 0.166033318 306.4755076 1283904.934 0.020489162 0.243580152 5.55E-05 4.25558845 -0.517154902 MVQEAEK(ac)YKAEDEKQR ddPTM_HeLa_SAHA_4h_R1 1 MVQEAEKYKAEDEKQR 16 3 P11142;E9PKE3;E9PNE6;A8K7Q2;E9PS65;E9PM13 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 1 MVQEAEK(0.87)YK(0.127)AEDEK(0.003)QR 48.131 0.022985 2081700 990.12 969.21 1333.5 1059.9 1144.1 983.85 1371.9 1493.8 580.7 606.03 FALSE TRUE FALSE 1094.265364 1000.61304 1515.222435 1080.415897 1056.439305 900.020445 1217.530201 1455.590759 576.6588614 632.1589191 1.730997272 1.582850466 2.396901142 1.709089067 1.671160958 1.423724981 1.92598754 2.302570944 0.912205529 1 9.304143474 -8.990419757 0.509313819 0.880040205 1.868651088 0.606470243 0.286823731 0.760728208 0.315785716 0.364764182 0.079776799 1.02E-09 8.990419757 0.988610883 MVRTKT(ph)WT(ph)LK ddPTM_HeLa_SAHA_4h_R1 1 MVRTKTWTLK 10 2 F6XGT7;Q5JVP2;F2Z3J9;Q14914-2;Q14914 F6XGT7 PTGR1 Prostaglandin reductase 1 2 0 MVRT(0.079)KT(0.921)WT(1)LK 67.214 0.006068 0 1450.1 1494.2 1367 1525.1 1737.3 1861.4 1560 1775.8 1506.4 1771.2 TRUE FALSE FALSE 1602.628171 1542.61306 1553.287641 1554.620516 1604.188449 1702.798248 1384.464694 1730.377607 1495.91684 1847.5651 0.867427173 0.834943819 0.840721467 0.841442889 0.868271678 0.921644519 0.749345554 0.936571928 0.809669353 1 10.85140948 -8.941864098 0.673671418 1.005763954 0.853008319 0 0.075878873 0.422745591 0.340716979 0.035303504 0.009965451 1.14E-09 8.941864098 -0.152755635 MVS(ph)VFYTILT(ph)PMLNPLIY(ph)S(ph)LRNK ddPTM_HeLa_SAHA_4h_R1 1 MVSVFYTILTPMLNPLIYSLRNK 23 1 Q8NG83;Q96R28 Q8NG83 OR2M3;OR2M2 Olfactory receptor 2M3;Olfactory receptor 2M2 4 0 MVS(0.712)VFY(0.16)T(0.174)ILT(0.955)PMLNPLIY(0.999)S(0.999)LRNK 46.833 0.01117 3438600 273.88 402.52 260.96 387.5 563.63 1063.1 427.99 722.42 367.87 350.17 TRUE FALSE FALSE 302.687955 415.5619121 296.5222698 395.0006228 520.4447912 972.5178992 379.8314388 703.9415425 365.3099627 365.2675424 0.828674656 1.137691867 0.81179474 1.081400828 1.424831749 2.662481021 1.03987186 1.927194346 1.000116135 1 8.512809752 -5.653125144 3.442472328 0.934282207 1.822753072 0.52427119 0.380715882 0.128568449 2.974898329 0.050969035 0.106914909 2.22E-06 5.653125144 0.888470865 MVSQSQPGS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 MVSQSQPGSR 10 0 E3W994;J3KR49;O75122;E7ERI8;E7EW49;O75122-3 E3W994;E7ERI8 CLASP2 CLIP-associating protein 2 1 0 MVSQSQPGS(1)R 91.202 0.017267 11972000 1170.3 1050.5 726.61 1555.3 1534.5 1649.9 1907.8 1724.6 1591.2 1377.4 TRUE FALSE FALSE 1293.397524 1084.536889 825.6286268 1585.405081 1416.926942 1509.319238 1693.129323 1680.487229 1580.12671 1436.786455 0.90020164 0.754835129 0.574635586 1.103438215 0.986177825 1.050482647 1.178414034 1.169615167 1.099764481 1 10.48862994 -5.204534394 1.307623825 0.913516893 1.181502852 0.347652208 0.147092121 0.45790348 1.396068781 0.022602643 0.101599279 6.24E-06 5.204534394 0.267985959 MVSSYVGENAEFER ddPTM_HeLa_SAHA_4h_R1 1 MVSSYVGENAEFER 14 0 P55809 P55809 OXCT1 "Succinyl-CoA:3-ketoacid coenzyme A transferase 1, mitochondrial" 0 0 107.39 0.0043521 0 608.26 592.7 582.37 762.37 629.38 887.21 939.97 658.25 782.94 807.64 FALSE FALSE TRUE 672.2395776 611.9038689 661.7323507 777.1267738 581.1570404 811.6147167 834.2021017 641.4129181 777.4914568 842.4613129 0.797947119 0.726328746 0.785475061 0.922448024 0.689832318 0.963385148 0.990196332 0.761355932 0.922880903 1 9.718466627 -9.279187627 1.044241317 0.998515619 0.831814526 0.212935796 0.097544884 0.514845331 1.019406894 0.061703297 0.017289459 5.26E-10 9.279187627 -0.166701093 MVVESAYEVIK ddPTM_HeLa_SAHA_4h_R1 2 MVVESAYEVIK 11 0 A0A5F9ZHM4;P07195;A0A3B3IS95 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain 0 0 ; ; 185.14 1.90E-16 2579100 866.04 953.14 1135.53 1174.16 1344.65 1353.33 1733.25 548.45 1279.76 945.22 FALSE FALSE TRUE 957.1340607 984.0223614 1290.274115 1196.887565 1241.623207 1238.01867 1538.220148 534.4214431 1270.854046 985.97306 0.970750723 0.99802155 1.308630192 1.213915079 1.259287153 1.255631336 1.560103628 0.542024387 1.288933844 1 9.945404418 -6.782908354 20.4421886 0.986688966 1.213986696 0.014806714 0.259997251 35.8615702 34146.00005 0.03506191 0.046137684 1.65E-07 6.782908354 0.22729773 MVVS(ph)IAEDLLR ddPTM_HeLa_SAHA_4h_R1 4 MVVSIAEDLLR 11 0 Q9P2D3;Q9P2D3-2;Q9P2D3-3 Q9P2D3 HEATR5B HEAT repeat-containing protein 5B 1 0 MVVS(1)IAEDLLR;MVVS(1)IAEDLLR;MVVS(1)IAEDLLR;MVVS(1)IAEDLLR ;;; 73.887 0.013286 117622300 5740.64 5133.81 5051.98 4991.43 6031.91 5807.05 6220.38 4421.55 5477.63 5387.88 TRUE FALSE FALSE 6344.466854 5300.148812 5740.437525 5088.046345 5569.746359 5312.25667 5520.446471 4308.453153 5439.510727 5620.177874 1.128872964 0.943057129 1.021397837 0.905317671 0.991026705 0.945211484 0.98225476 0.766604412 0.967853838 1 12.45640008 -6.667248934 1.366471114 1.058260676 0.925667388 0.208600782 0.077573935 0.330326634 1.243946065 0.013706152 0.021311912 2.15E-07 6.667248934 -0.132593288 MWT(ph)S(ph)GRMSNAK ddPTM_HeLa_SAHA_4h_R1 1 MWTSGRMSNAK 11 1 Q9HBT6 Q9HBT6 CDH20 Cadherin-20 2 0 MWT(1)S(1)GRMSNAK 64.374 0.013688 3285100 122.74 60.386 137.56 206.74 112.05 312.5 273 162.16 170.46 221.29 TRUE FALSE FALSE 135.6503564 62.34254602 156.3059604 210.7417517 103.4647532 285.8732419 242.2813215 158.012182 169.273755 230.8308949 0.587661181 0.270078865 0.677144888 0.912970301 0.448227493 1.23845312 1.04960526 0.68453654 0.733323653 1 7.85069252 -3.951199267 14.61468811 0.784650963 0.167515201 0.005225505 0.27747801 3694361.612 32503940.07 0.041143772 62392867.4 0.000111892 3.951199267 -0.617135762 MY(ph)HHTIPVIS(ph)LY(ph)S(ph)LR ddPTM_HeLa_SAHA_4h_R1 1 MYHHTIPVISLYSLR 15 0 P21549 P21549 AGXT Serine--pyruvate aminotransferase 4 0 MY(0.683)HHT(0.323)IPVIS(0.996)LY(0.999)S(0.999)LR 55.186 0.0077693 0 0 415.04 0 0 124.96 439.46 175.83 227.48 607.49 428.54 TRUE FALSE FALSE 0 428.4875683 0 0 115.3855918 402.0155357 156.0451456 221.661391 603.2624276 447.0164566 0 0.958549874 0 0 0.258123812 0.899330505 0.349081434 0.495868525 1.349530691 1 8.804184134 -9.538628359 1.27694206 1.003028908 0.332298386 0.433671328 0.350003061 0.411522362 1.192989854 0.241226262 0.05633252 2.89E-10 9.538628359 -0.670730522 MY(ph)ISELK ddPTM_HeLa_SAHA_4h_R1 1 MYISELK 7 0 H3BPE1;H3BQK9;H0Y390;A0A590UJG2;Q9UPN3-4;Q9UPN3-3;Q9UPN3-2;Q9UPN3;E9PNZ4;A0A669KBB0;E9PLY5;A0A5F9ZGX0 H3BPE1 MACF1 "Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5" 1 0 MY(0.977)IS(0.023)ELK 45.312 0.020306 4891700 2824.6 1564.3 2845.2 2128.8 2218.7 2014.5 2851.7 1764.3 977.87 2217.5 TRUE FALSE FALSE 3121.704388 1614.984346 3232.929039 2170.006002 2048.703685 1842.853267 2530.819211 1719.171761 971.0649231 2313.107277 1.349571816 0.698188261 1.397656335 0.938134614 0.885693329 0.796700302 1.094120984 0.743230449 0.419809722 1 11.17561646 -6.027553208 23.59735278 1.14377841 0.892117708 0 0.303690121 375.907147 321937.6349 0.031131106 0.051732383 9.39E-07 6.027553208 -0.251660702 MY(ph)STVS(ph)GS(ph)EKNS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 MYSTVSGSEKNSK 13 1 Q01638-4 Q01638-4 4 0 MY(0.87)S(0.1)T(0.04)VS(0.99)GS(1)EKNS(1)K 57.106 0.0077131 0 416.19 331.61 416.44 419.64 388.77 220.74 320.25 371.82 658.91 413.79 TRUE FALSE FALSE 459.9667737 342.3543816 473.1902745 427.762739 358.9825266 201.9317102 284.2146271 362.3093828 654.3245917 431.6305119 1.065649348 0.793165386 1.096285507 0.991039158 0.831689412 0.467834652 0.658467414 0.83939706 1.515936834 1 8.753653042 -5.579727802 3.562831919 1.014607185 0.653317095 0.471051863 0.195390195 0.099051623 2.570541951 0.016264309 0.034982493 2.63E-06 5.579727802 -0.36129009 MYASVLLITAMS(ph)LDR ddPTM_HeLa_SAHA_4h_R1 2 MYASVLLITAMSLDR 15 0 G3V4Q5 G3V4Q5 LTB4R 1 0 MYASVLLIT(0.005)AMS(0.995)LDR;MYASVLLIT(0.167)AMS(0.833)LDR ; 98.04 0.0090921 28486000 1142.13 1326.59 1146.86 1341.17 1215.39 1502.48 1405.41 1387.25 1161.14 1014.28 TRUE FALSE FALSE 1262.264474 1369.572386 1303.148108 1367.130285 1122.267081 1374.460251 1247.269568 1351.766154 1153.059532 1058.010575 1.193054686 1.29447892 1.231696676 1.292170719 1.060733331 1.299098784 1.178881949 1.277649001 1.089837436 1 10.04713833 -8.784429319 0.692596664 0.998503005 1.230142982 0.48459931 0.073782077 0.353718496 0.322508365 0.0433679 0.014900085 1.64E-09 8.784429319 0.231639977 MYEEHLK ddPTM_HeLa_SAHA_4h_R1 1 MYEEHLK 7 0 P84090;G3V279 P84090 ERH Enhancer of rudimentary homolog 0 0 92.47 0.020118 4667300 7990.5 7102.8 6906.3 7521.9 7473 8673.8 8282 7160.2 9508 6777.4 FALSE FALSE TRUE 8830.977452 7332.93538 7847.454598 7667.497251 6900.420354 7934.743443 7350.087563 6977.052452 9441.833054 7069.606882 1.24914689 1.037247969 1.110027011 1.08457194 0.976068467 1.122374069 1.039674155 0.986908122 1.33555277 1 12.78741428 -5.990191334 23.81080018 1.112137307 1.037360172 0.189949965 0.10020406 209.7153437 509081.8353 0.01467575 0.026574133 1.02E-06 5.990191334 -0.074777135 MYPESTTGS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 4 MYPESTTGSPAR 12 0 A0A590UJ15;A0A590UJK5;A0A5F9UN28;A0A590UJJ4;K7EKU4;K7EIR5;A0A590UJU4;Q5TG84;A0A590UJU1;A0A590UJY1;A0A590UK89;Q5TG78;A0A590UJX9;A0A590UJV4;A0A590UJ72;A0A590UJI8;Q13303-2;Q13303;Q13303-5 A0A590UJ15 KCNAB2 Voltage-gated potassium channel subunit beta-2 1 0 MYPEST(0.001)T(0.211)GS(0.788)PAR;MYPESTTGS(1)PAR;MYPESTTGS(1)PAR;MYPESTT(0.014)GS(0.985)PAR ;;; 228.61 1.51E-22 89957200 4646.4 5103.6 4407.57 4557.25 4796.9 5821.4 5160.8 5123.1 5055.8 4769 TRUE FALSE FALSE 5135.12967 5268.959989 5008.210686 4645.462164 4429.362558 5325.38397 4580.093202 4992.05852 5020.616276 4974.614929 1.032266767 1.059169416 1.006753439 0.933833519 0.89039305 1.070511798 0.920693012 1.003506521 1.009247218 1 12.28036914 -6.432464939 6.594350128 1.019588761 0.963517031 0.266121144 0.048306245 0.269886707 16.65047099 0.007139814 0.010916015 3.69E-07 6.432464939 -0.05607173 NAASFPLRS(ph)PQPVCSPAGSEGTPK ddPTM_HeLa_SAHA_4h_R1 2 NAASFPLRSPQPVCSPAGSEGTPK 24 1 A0A590UJS4;Q6KC79-2;Q6KC79-3;Q6KC79 A0A590UJS4;Q6KC79 NIPBL Nipped-B-like protein 1 0 NAAS(0.009)FPLRS(0.991)PQPVCSPAGSEGTPK;NAAS(0.008)FPLRS(0.977)PQPVCS(0.015)PAGSEGTPK ; 95.674 3.54E-05 11873900 1729.09 1420.14 1812.49 1713.28 1808.81 2454.9 1755.4 2079.94 1905.06 1872.46 TRUE FALSE FALSE 1910.96362 1466.153468 2059.486698 1746.443012 1670.219369 2245.728709 1557.877772 2026.738147 1891.802532 1953.190914 0.978380355 0.750645243 1.054421605 0.894148646 0.855123458 1.149774296 0.797606502 1.037654912 0.968570209 1 10.93161726 -7.498982484 24.41058383 0.990462003 0.932079448 0.034823172 0.115081435 403.4932475 412183.9424 0.018247968 0.019630819 3.17E-08 7.498982484 -0.058382555 NADSELMPPPPERGDPPRLS(ph)PDPVAGSAVSQELR ddPTM_HeLa_SAHA_4h_R1 1 NADSELMPPPPERGDPPRLSPDPVAGSAVSQELR 34 2 E9PMR3;E9PMG4;Q9BUR4 E9PMR3 WRAP53 Telomerase Cajal body protein 1 1 0 NADS(0.001)ELMPPPPERGDPPRLS(0.936)PDPVAGS(0.055)AVS(0.008)QELR 58.111 0.00093416 52333000 4819 4009.8 4476.3 4915.2 5096.1 4953.3 5906.7 6004.4 4671.7 4504.8 TRUE FALSE FALSE 5325.88453 4139.720151 5086.306852 5010.340803 4705.637919 4531.250973 5242.06257 5850.816142 4639.189259 4699.023974 1.133402289 0.880974469 1.082417728 1.066251381 1.001407515 0.964296202 1.115564126 1.245113065 0.987266565 1 12.19814541 -4.390502607 3.413817957 1.043067042 1.247883079 0.474245064 0.070782965 0.201464173 3.777533122 0.010525905 0.085366191 4.07E-05 4.390502607 0.204816037 NAEAVLQS(ph)PGLSGK ddPTM_HeLa_SAHA_4h_R1 4 NAEAVLQSPGLSGK 14 0 Q13045-3;Q13045;Q13045-2 Q13045-3 FLII Protein flightless-1 homolog 1 0 NAEAVLQS(0.85)PGLS(0.15)GK;NAEAVLQS(0.996)PGLS(0.004)GK;NAEAVLQS(0.823)PGLS(0.177)GK;NAEAVLQS(1)PGLSGK ;;; 173.34 1.58E-06 111439700 9815.77 8585.5 8502.85 9488.21 10068.07 10423.5 10473.93 9905.85 9344.43 8623.63 TRUE FALSE FALSE 10848.23772 8863.675833 9661.574117 9671.868025 9296.656652 9535.359159 9295.375831 9652.4727 9279.401351 8995.436892 1.205971189 0.985352456 1.074052793 1.075197141 1.03348584 1.060021795 1.033343454 1.073041011 1.031567612 1 13.13497764 NAEEES(ph)ESEAEEGD ddPTM_HeLa_SAHA_4h_R1 2 NAEEESESEAEEGD 14 0 Q7L1Q6-2;Q7L1Q6;Q7L1Q6-4;Q7L1Q6-3;H0Y503 Q7L1Q6-2 BZW1 Basic leucine zipper and W2 domain-containing protein 1 1 0 NAEEES(0.959)ES(0.041)EAEEGD;NAEEES(0.98)ES(0.02)EAEEGD ; 211.77 3.89E-17 52866000 5188.64 5194.37 4819.29 4373.58 5425.76 6817.64 6628.17 5609.99 6043.04 4949.21 TRUE FALSE FALSE 5734.404962 5362.670996 5476.037743 4458.236965 5010.039441 6236.738717 5882.350867 5466.494579 6000.985993 5162.594664 1.110760254 1.038754995 1.060714253 0.863565175 0.970449893 1.208062829 1.139417531 1.058865732 1.16239728 1 12.33388062 -5.2644699 24.98893864 1.033791769 1.13584558 0.254917949 0.082763606 287.3949766 2369804.034 0.011702303 0.027306098 5.44E-06 5.2644699 0.102053811 NAEEESES(ph)EAEEGD ddPTM_HeLa_SAHA_4h_R1 1 NAEEESESEAEEGD 14 0 Q7L1Q6-2;Q7L1Q6;Q7L1Q6-4;Q7L1Q6-3;H0Y503 Q7L1Q6-2 BZW1 Basic leucine zipper and W2 domain-containing protein 1 1 0 NAEEES(0.249)ES(0.751)EAEEGD 182.72 2.58E-07 56756000 3148.1 2837 2973 3050 3409.9 4236.5 3824.1 3247.9 3664.5 3214.8 TRUE FALSE FALSE 3479.231602 2928.920661 3378.144957 3109.03716 3148.634199 3875.526366 3393.802204 3164.823421 3638.998446 3353.405761 1.037521806 0.87341672 1.007377335 0.927128234 0.938936241 1.155698607 1.012046393 0.943763936 1.085164965 1 11.71141134 -3.007182546 13.43762881 1.002579664 0.996850033 0 0.078416673 0 0 0.009539343 0 0.000983598 3.007182546 -0.00572963 NAEIAYSLDSSVMGIFAIDPDSGDILVNTVLDREQTDR ddPTM_HeLa_SAHA_4h_R1 1 NAEIAYSLDSSVMGIFAIDPDSGDILVNTVLDREQTDR 38 1 H0YAH0;O60245;O60245-2 H0YAH0 PCDH7 Protocadherin-7 0 0 12.589 0.023418 501550 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 NAEK(ac)YAEEDRR ddPTM_HeLa_SAHA_4h_R1 2 NAEKYAEEDRR 11 2 P38646;H0Y8S0 P38646 HSPA9 "Stress-70 protein, mitochondrial" 0 1 ; NAEK(1)YAEEDRR;NAEK(1)YAEEDRR 112.84 0.0025073 6028600 1703.74 1870.68 1551.3 1247.4 1803.38 1409.02 1974.43 1917.31 1189.02 1441.64 FALSE TRUE FALSE 1882.94719 1931.291259 1762.703085 1271.545231 1665.205414 1288.963569 1752.26194 1868.267986 1180.745513 1503.796156 1.252129275 1.284277295 1.1721689 0.84555691 1.107334533 0.857139822 1.165225708 1.242367843 0.785176574 1 10.5543933 NAFACFDEEASGFIHEDHLR ddPTM_HeLa_SAHA_4h_R1 1 NAFACFDEEASGFIHEDHLR 20 0 P24844 P24844 MYL9 Myosin regulatory light polypeptide 9 0 0 129.43 2.11E-05 1448100 212.7 201.25 196.83 330.53 446.75 207.03 280.4 237.34 378.61 249.21 FALSE FALSE TRUE 235.0727619 207.770632 223.6529674 336.9278861 412.5201115 189.3898793 248.848654 231.2691865 375.9752222 259.9546627 0.904283691 0.799257185 0.860353744 1.296102492 1.586892527 0.728549653 0.957277132 0.889652003 1.446310746 1 8.022116222 -6.302938057 24.98123263 0.933072646 1.091563668 0 0.277431666 916.8466187 551918.4553 0.035961321 0.054932121 4.98E-07 6.302938057 0.158491021 NAFACFDEEATGTIQEDYLR ddPTM_HeLa_SAHA_4h_R1 2 NAFACFDEEATGTIQEDYLR 20 0 J3QRS3;P19105;O14950 J3QRS3 MYL12A;MYL12B Myosin regulatory light chain 12A;Myosin regulatory light chain 12B 0 0 ; ; 224.67 5.21E-27 9328600 6111.7 4835.4 5632.2 5811 5858.2 6080 6074.3 5658.8 6743.1 5792.9 FALSE FALSE TRUE 6754.556647 4992.070133 6399.726885 5923.480308 5409.345982 5561.949795 5390.803777 5514.05609 6696.174218 6042.660269 1.11781175 0.826137812 1.059090963 0.980276905 0.895192803 0.920447212 0.892124253 0.912521281 1.10815004 1 12.56096812 -6.376239912 0.806566411 1.048816086 0.900974282 0.36453165 0.074771611 0.496255629 0.640695348 0.015742876 0.033841394 4.20E-07 6.376239912 -0.147841804 NAGAVIGK ddPTM_HeLa_SAHA_4h_R1 1 NAGAVIGK 8 0 P61978;P61978-2;P61978-3;Q5T6W2;S4R457 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 99.375 0.01622 1588800 1668.4 1025.3 1177.8 1666.6 1340.6 1862 1910.8 1713 1378.8 1683.8 FALSE FALSE TRUE 1843.889967 1058.520393 1338.30445 1698.859453 1237.883518 1703.347125 1695.791755 1669.18394 1369.204819 1756.396858 1.049813975 0.602665843 0.761960171 0.967241227 0.704785773 0.969796272 0.965494641 0.950345551 0.779553215 1 10.77840314 NAGVEGSLIVEK ddPTM_HeLa_SAHA_4h_R1 4 NAGVEGSLIVEK 12 0 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ;;; ;;; 184.55 4.44E-16 21107200 5146.09 6728.36 6524.62 5093.04 6263.75 6255.8 6470.3 5681.56 6954.2 5671.88 FALSE FALSE TRUE 5687.379357 6946.363279 7413.761235 5191.623154 5783.822828 5722.770646 5742.244815 5536.233922 6905.805156 5916.422504 0.961286885 1.174081681 1.253081779 0.877493646 0.977587862 0.967268758 0.970560302 0.935740123 1.167226504 1 12.53050937 NAIS(ph)LPQLNQAAYDSLVVGK ddPTM_HeLa_SAHA_4h_R1 1 NAISLPQLNQAAYDSLVVGK 20 0 Q00587-2;Q00587 Q00587-2 CDC42EP1 Cdc42 effector protein 1 1 0 NAIS(1)LPQLNQAAYDSLVVGK 125 9.39E-05 9945200 2254.1 2180.7 2060.1 2113.1 2304.1 2053.2 2471 1760.1 1870.7 2336 TRUE FALSE FALSE 2491.19658 2251.356111 2340.839699 2154.002106 2127.560356 1878.255809 2192.956577 1715.079191 1857.681646 2436.716392 1.022358034 0.923930301 0.960653323 0.883977353 0.873125967 0.770814287 0.899963814 0.703848505 0.762370891 1 11.25072263 -5.921379963 0.623647632 1.01297343 0.769951672 0.142435967 0.0927665 0.295369848 0.203215453 0.009566836 0.035542374 1.20E-06 5.921379963 -0.243021757 NAK(ac)K(ac)K(ac)NNK ddPTM_HeLa_SAHA_4h_R1 2 NAKKKNNK 8 3 Q92793;Q92793-2;A0A669KB12;Q09472 Q92793;A0A669KB12 CREBBP;EP300 CREB-binding protein;Histone acetyltransferase p300 0 3 ; NAK(1)K(1)K(1)NNK;NAK(1)K(1)K(1)NNK 147.19 8.02E-07 1184270 849.53 749.15 753.03 524.31 412.08 359.89 359.72 234.553 867.25 1106.05 FALSE TRUE FALSE 938.8874632 773.4229515 855.6490068 534.4587782 380.5065194 329.2253473 319.2433589 228.5534739 861.2147366 1153.737228 0.813779291 0.670363175 0.741632484 0.463241339 0.329803451 0.285355572 0.276703699 0.198098378 0.746456572 1 10.17209896 -6.23186145 0.45461472 0.973203197 0.119253664 0.891891478 0.086142485 0.155146371 0.060116756 0.018127901 0.055478619 5.86E-07 6.23186145 -0.853949533 down NALESYAFNMK ddPTM_HeLa_SAHA_4h_R1 2 NALESYAFNMK 11 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 0 0 ; ; 173.71 6.16E-11 2415200 886.83 775.2 1050.11 963.94 921.24 995.45 991.3 902.4 830.86 919.96 FALSE FALSE TRUE 980.1108483 800.3169886 1193.213522 982.5984526 850.6547902 910.6320598 879.756315 879.3179147 825.0779776 959.6239778 1.021348852 0.833990195 1.243417786 1.023941122 0.886445952 0.948946755 0.916771918 0.916315072 0.859792999 1 9.906325396 -5.7706551 24.8944177 1.015952811 0.919368411 0.105721384 0.105621426 217.3465886 587119.2122 0.013084802 0.023957531 1.70E-06 5.7706551 -0.0965844 NALFPEVFS(ph)PTPDENSDQNSR ddPTM_HeLa_SAHA_4h_R1 5 NALFPEVFSPTPDENSDQNSR 21 0 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 NALFPEVFS(0.997)PT(0.003)PDENSDQNSR;NALFPEVFS(0.997)PT(0.003)PDENSDQNSR;NALFPEVFS(0.976)PT(0.024)PDENSDQNSR;NALFPEVFS(0.945)PT(0.055)PDENSDQNSR;NALFPEVFS(0.982)PT(0.017)PDENS(0.001)DQNSR ;;;; 143.47 4.14E-06 14301700 4678.64 5734.82 5103.1 3776.32 5213.98 5061.11 5285.93 4521.05 5006.31 5471.52 TRUE FALSE FALSE 5170.760822 5920.631931 5798.523892 3849.416134 4814.485979 4629.874955 4691.143245 4405.408087 4971.470681 5707.424004 0.905971033 1.037356245 1.015961647 0.674457712 0.843547978 0.811202208 0.821937049 0.77187328 0.871053329 1 12.47862403 -6.275499936 24.99744862 0.966017923 0.791430103 0.675333211 0.062821275 348.3668107 619340.27 0.009263198 0.014191748 5.30E-07 6.275499936 -0.17458782 NALGPGLSPELGPLPALR ddPTM_HeLa_SAHA_4h_R1 1 NALGPGLSPELGPLPALR 18 0 Q8N1G4 Q8N1G4 LRRC47 Leucine-rich repeat-containing protein 47 0 0 151.56 7.27E-07 257330 0 0 0 0 0 0 0 76.149 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 74.20121884 0 0 0 NALPPVLTTVNGQS(ph)PPEHSAPAK ddPTM_HeLa_SAHA_4h_R1 5 NALPPVLTTVNGQSPPEHSAPAK 23 0 Q6PKG0;A0A0B4J210;H0YBM7 Q6PKG0 LARP1 La-related protein 1 1 0 NALPPVLTTVNGQS(1)PPEHSAPAK;NALPPVLTTVNGQS(1)PPEHSAPAK;NALPPVLTTVNGQS(1)PPEHSAPAK;NALPPVLTTVNGQS(0.995)PPEHS(0.004)APAK;NALPPVLTTVNGQS(1)PPEHSAPAK ;;;; 140.59 1.59E-06 364625000 35212.4 34115.9 30448.7 35708.4 38230.1 37884.3 38968 38306.1 37639.6 34534.5 TRUE FALSE FALSE 38916.20179 35221.27754 34598.09027 36399.58772 35300.918 34656.34451 34583.21808 37326.28543 37377.66296 36023.4513 1.08030187 0.977731902 0.960432413 1.010441432 0.979942696 0.962049533 0.960019566 1.036166277 1.037592502 1 15.13664879 -7.231597712 24.2022381 1.037920329 0.982047572 0.435360309 0.02888724 390.7906707 316939.8587 0.005990204 0.007335924 5.87E-08 7.231597712 -0.055872757 NALTTLAGPLT(ph)PPVK ddPTM_HeLa_SAHA_4h_R1 1 NALTTLAGPLTPPVK 15 0 H0Y3X6;A0A0C4DFX9;Q9H3P2;H7C0W2;C9JEM7;H7C2C7;C9JHL4 H0Y3X6 NELFA Negative elongation factor A 1 0 NALT(0.001)T(0.002)LAGPLT(0.997)PPVK 105.63 0.0050239 2954300 1410.3 1628.5 1959.9 2155.1 2217.3 2601.8 2431.6 2039.2 2442.2 1782.5 TRUE FALSE FALSE 1558.641825 1681.264468 2226.984965 2196.815077 2047.410953 2380.112003 2157.989968 1987.040217 2425.204531 1859.352298 0.838271384 0.904220502 1.197720823 1.181494803 1.101142024 1.280075866 1.160613817 1.068673332 1.304327606 1 10.86058443 -6.763413277 24.99812914 0.920038647 1.167840402 0.107232244 0.137484192 21.36938398 270630.2514 0.012595368 0.017023537 1.72E-07 6.763413277 0.247801755 NAMS(ph)LPQLNEK ddPTM_HeLa_SAHA_4h_R1 6 NAMSLPQLNEK 11 0 Q9H3Q1;J3KRZ9 Q9H3Q1 CDC42EP4 Cdc42 effector protein 4 1 0 NAMS(1)LPQLNEK;NAMS(1)LPQLNEK;NAMS(1)LPQLNEK;NAMS(1)LPQLNEK;NAMS(1)LPQLNEK;NAMS(1)LPQLNEK ;;;;; 173.72 6.96E-05 92792900 13332.1 15425.4 13329.3 14788.3 14287.7 15627.4 14932 15494.8 15523.1 13997 TRUE FALSE FALSE 14734.43145 15925.19308 15145.74759 15074.54893 13192.97951 14295.8576 13251.81206 15098.46545 15415.07348 14600.47917 1.009174512 1.090730852 1.037345926 1.032469466 0.903599078 0.979136194 0.907628572 1.03410753 1.0557923 1 13.8337281 -5.783213739 24.99993011 1.016142853 0.954298471 0.398057932 0.044604532 205.2306264 235632.3835 0.006233427 0.01130617 1.65E-06 5.783213739 -0.061844382 NAPAAVDEGSIS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 NAPAAVDEGSISPR 14 0 A0A1W2PS85;R4GMW8;P28715;A0A494C0S2;A0A090HNM7 A0A1W2PS85 BIVM-ERCC5;ERCC5;ERCC5-201 DNA repair protein complementing XP-G cells 1 0 NAPAAVDEGSIS(1)PR;NAPAAVDEGS(0.001)IS(0.999)PR;NAPAAVDEGS(0.001)IS(0.999)PR;NAPAAVDEGSIS(1)PR ;;; 268.13 1.36E-55 344398100 3553.41 3135.38 2705.82 3415.63 3262.97 3629.76 3558.35 3377.71 3571.31 3183.2 TRUE FALSE FALSE 3927.173967 3236.968369 3074.555058 3481.744458 3012.961944 3320.484028 3157.955093 3291.313069 3546.456963 3320.44333 1.182725792 0.974860296 0.925947156 1.04857819 0.90739749 1.000012257 0.951064294 0.991226996 1.068067306 1 11.69716016 -7.141910442 10.04233504 1.086258339 0.970066669 0.462006402 0.055519984 0.327764324 25.9599847 0.012274332 0.015038703 7.21E-08 7.141910442 -0.11619167 NAS(ph)ASFQELEDK ddPTM_HeLa_SAHA_4h_R1 2 NASASFQELEDK 12 0 F2Z3H0;F2Z3N9;H7C3L7;Q99543-2;Q99543 F2Z3H0 DNAJC2 "DnaJ homolog subfamily C member 2;DnaJ homolog subfamily C member 2, N-terminally processed" 1 0 NAS(0.998)AS(0.002)FQELEDK;NAS(0.798)AS(0.202)FQELEDK ; 159.18 0.00017145 15542900 1447.76 1918.98 1405.89 1852.3 1703.27 2211.77 1592.81 1446.38 2965.4 1836.77 TRUE FALSE FALSE 1600.042039 1981.156211 1597.477368 1888.153945 1572.765821 2023.314753 1413.582827 1409.383694 2944.76354 1915.962144 0.83511151 1.034026804 0.833772929 0.98548604 0.820875207 1.056030653 0.737792671 0.735601013 1.536963321 1 10.90385334 -1.000000052 0.024366285 1.536088984 2.33E-06 0.1472375 0.206571754 2532.814525 4.795758613 105.5136391 215.1974822 0.099999988 1.000000052 -1.53608665 NAS(ph)VPNLR ddPTM_HeLa_SAHA_4h_R1 5 NASVPNLR 8 0 E9PPF9;E9PLD2;Q9H019-3;Q9H019;E9PNJ0;E9PPQ0;E9PRW1;E9PSD6;C9JF50;E9PLU1;E9PRK5;Q9H019-2 E9PPF9 MTFR1L Mitochondrial fission regulator 1-like 1 0 NAS(1)VPNLR;NAS(1)VPNLR;NAS(1)VPNLR;NAS(1)VPNLR;NAS(1)VPNLR ;;;; 99.788 0.0074702 374786300 9838.5 9528.2 9354.2 10346.3 10378.3 10904.5 10771.4 10748.4 8655.6 9578.4 TRUE FALSE FALSE 10873.35857 9836.919932 10628.94166 10546.5676 9583.116896 9975.375253 9559.373723 10473.47149 8595.364975 9991.3717 1.088274853 0.984541485 1.063812055 1.055567535 0.959139264 0.998398974 0.956762896 1.048251612 0.860278772 1 13.28646704 -5.771556978 24.98192318 1.040605504 0.988772863 0 0.067733051 212.7208941 525242.2376 0.006193129 0.011321075 1.69E-06 5.771556978 -0.051832641 NASAS(ph)FQELEDK ddPTM_HeLa_SAHA_4h_R1 2 NASASFQELEDK 12 0 F2Z3H0;F2Z3N9;H7C3L7;Q99543-2;Q99543 F2Z3H0 DNAJC2 "DnaJ homolog subfamily C member 2;DnaJ homolog subfamily C member 2, N-terminally processed" 1 0 NAS(0.274)AS(0.726)FQELEDK;NAS(0.096)AS(0.904)FQELEDK ; 184 2.96E-06 16968500 2024.95 2434.8 1913.16 2229.45 2525.3 2808.1 2421.65 2055.87 3642.2 2326.31 TRUE FALSE FALSE 2237.943532 2513.689118 2173.875481 2272.604229 2331.81206 2568.834082 2149.159569 2003.283822 3616.853634 2426.608609 0.922251542 1.035885684 0.895849241 0.936535138 0.960934553 1.058610801 0.885663869 0.825548799 1.490497322 1 11.24472572 -4.280597478 0.009735848 1.843329326 1.72E-06 0.057933985 0.171235788 9748.489225 15.10777733 1333.859496 1531.957399 5.24E-05 4.280597478 -1.843327601 NASCYFDIEWR ddPTM_HeLa_SAHA_4h_R1 1 NASCYFDIEWR 11 0 Q16658;C9JPH9;C9JFC0;A0A0A0MSB2 Q16658 FSCN1 Fascin 0 0 130.1 0.0080387 30558000 872 667.36 735.04 1120.7 819.22 1270.2 938.44 1121.9 987.12 996.23 FALSE FALSE TRUE 963.7209609 688.9829019 835.2074233 1142.392769 756.4515406 1161.971814 832.8442614 1093.203422 980.2505515 1039.182351 0.92738388 0.663004815 0.803715943 1.099318871 0.72792955 1.118159689 0.801441884 1.051984208 0.943290223 1 10.02123312 -8.234419949 1.568462638 0.98302287 0.895420904 0.035043508 0.14765846 0.73244936 3.631864122 0.033968659 0.026642053 5.83E-09 8.234419949 -0.087601966 NASLSQS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 NASLSQSPR 9 0 C9J1X0;A4D1P6-3;A4D1P6-2;A4D1P6 C9J1X0 WDR91 WD repeat-containing protein 91 1 0 NASLSQS(1)PR 127.83 0.0023959 22687000 1209.6 1422.5 1110.4 1420.4 1359.2 1751.2 1516.2 1524.4 1519.4 1483.4 TRUE FALSE FALSE 1336.831278 1468.589933 1261.719529 1447.893896 1255.05839 1601.987908 1345.593186 1485.408055 1508.826372 1547.356634 0.863945162 0.949095962 0.815403186 0.93572087 0.811098335 1.035306195 0.869607663 0.9599649 0.975099301 1 10.59559003 -9.450084087 1.144969597 1.000805364 0.900678289 0.196588548 0.065793919 0.533869141 1.235601003 0.042965201 0.010329082 3.55E-10 9.450084087 -0.100127075 NASTFEDVTQVSSAY(ph)QK ddPTM_HeLa_SAHA_4h_R1 1 NASTFEDVTQVSSAYQK 17 0 Q14247;Q14247-3;Q14247-2 Q14247 CTTN Src substrate cortactin 1 0 NASTFEDVTQVSS(0.001)AY(0.999)QK 180.3 5.94E-09 4754300 853.19 1069.6 750.08 936.38 2197.8 973.45 1631.2 2172.3 1507.4 978.34 TRUE FALSE FALSE 942.9324388 1104.255742 852.2969962 954.5049889 2029.405039 890.5065835 1447.653083 2116.735711 1496.909881 1020.521025 0.923971594 1.082050947 0.835158684 0.935311439 1.98859699 0.872599938 1.418543124 2.074171584 1.466809447 1 9.99509019 -1 0.456381856 0.963890168 25.11722107 0.357645149 0.350253289 46.47691391 0.494815753 0.062650877 1058.90692 0.1 1 24.1533309 PDPAK(ac)SAPAPK(ac)K(ac)GSK ddPTM_HeLa_SAHA_4h_R1 2 PDPAKSAPAPKKGSK 15 3 Q5QNW6;Q5QNW6-2;Q93079 Q5QNW6;Q93079 HIST2H2BF;HIST1H2BH Histone H2B type 2-F;Histone H2B type 1-H 0 3 ; PDPAK(1)SAPAPK(1)K(1)GSK;PDPAK(1)SAPAPK(1)K(1)GSK 166.79 2.01E-10 18608600 496.15 758.84 1411.84 4548.3 5545.5 7243.9 8048.8 8067.7 492.9 522.6 FALSE TRUE FALSE 548.3373334 783.4269139 1604.238203 4636.338923 5120.604988 6626.678967 7143.127841 7861.339916 489.4698688 545.1318435 1.00588021 1.437132912 2.942844418 8.504986415 9.393333097 12.15610324 13.10348666 14.42098826 0.897892637 1 9.090461387 -5.952898659 0.970640996 0.88657578 13.76577659 0.983268105 0.685484124 0.044462463 0.081635283 0.117658292 0.318784797 1.11E-06 5.952898659 12.87920081 up NASVYS(ph)PSGPVNR ddPTM_HeLa_SAHA_4h_R1 2 NASVYSPSGPVNR 13 0 Q9NS56-2;Q9NS56 Q9NS56-2 TOPORS E3 ubiquitin-protein ligase Topors 1 0 NAS(0.222)VYS(0.389)PS(0.389)GPVNR;NAS(0.175)VYS(0.742)PS(0.083)GPVNR ; 168.93 2.98E-05 21198100 1683.26 1695.54 1416.13 1581.29 1800.48 2069.58 1462.8 1791.92 1947.91 1651.93 TRUE FALSE FALSE 1860.31301 1750.476608 1609.112822 1611.898155 1662.527611 1893.240141 1298.201894 1746.085281 1934.354336 1723.152787 1.079598411 1.015856877 0.933819005 0.935435422 0.964817296 1.098707065 0.753387572 1.013308451 1.122566931 1 10.75083491 -6.867019454 4.77441614 1.038004436 0.947906821 0.251734846 0.087128729 0.249503383 9.538837868 0.013052632 0.017346231 1.36E-07 6.867019454 -0.090097615 NASVYS(ph)PSGPVNRR ddPTM_HeLa_SAHA_4h_R1 2 NASVYSPSGPVNRR 14 1 Q9NS56-2;Q9NS56 Q9NS56-2 TOPORS E3 ubiquitin-protein ligase Topors 1 0 NASVYS(0.916)PS(0.084)GPVNRR;NASVYS(0.933)PS(0.067)GPVNRR ; 156.96 5.13E-05 6243900 2646.8 2197.8 2361.6 2588.2 2558.4 2729.2 2845.6 3098.3 2170.9 2527.5 TRUE FALSE FALSE 2925.202568 2269.010162 2683.426549 2638.298354 2362.375945 2496.656806 2525.405599 3019.049972 2155.79253 2636.472894 1.109513614 0.86062336 1.017809269 1.000692387 0.8960365 0.946968509 0.957872772 1.14510943 0.817680521 1 11.36439345 -7.29094621 24.99649902 1.051714757 0.97287366 0 0.10613463 886.8785853 751310.6999 0.013448757 0.015380528 5.12E-08 7.29094621 -0.078841097 NATDLQNS(ph)SMSEEELTK ddPTM_HeLa_SAHA_4h_R1 5 NATDLQNSSMSEEELTK 17 0 Q5QNY5;P40855;H0YJ60;P40855-5 Q5QNY5 PEX19 Peroxisomal biogenesis factor 19 1 0 NATDLQNS(0.434)S(0.434)MS(0.132)EEELTK;NATDLQNS(0.959)S(0.031)MS(0.009)EEELTK;NATDLQNS(0.436)S(0.436)MS(0.127)EEELT(0.001)K;NATDLQNS(0.436)S(0.436)MS(0.128)EEELTK;NATDLQNS(0.611)S(0.056)MS(0.333)EEELTK ;;;; 341.3 7.10E-139 110405800 8934.64 8666.04 7861.45 8518.58 8979.62 9275.71 8946.85 7794.67 8115.68 8827.22 TRUE FALSE FALSE 9874.426429 8946.825382 8932.767465 8683.469434 8291.603456 8485.367324 7940.126891 7595.293628 8059.202322 9207.804654 1.072397472 0.971656732 0.970129993 0.943055349 0.900497325 0.921540763 0.862325732 0.824875626 0.875257743 1 13.16864151 -5.903753535 0.712158128 1.033189737 0.846194214 0.319852955 0.057190318 0.257329608 0.237975617 0.007197568 0.025069861 1.25E-06 5.903753535 -0.186995523 NATDLQNSS(ph)MSEEELTK ddPTM_HeLa_SAHA_4h_R1 4 NATDLQNSSMSEEELTK 17 0 Q5QNY5;P40855;H0YJ60;P40855-5 Q5QNY5 PEX19 Peroxisomal biogenesis factor 19 1 0 NATDLQNS(0.174)S(0.652)MS(0.174)EEELTK;NATDLQNS(0.025)S(0.721)MS(0.253)EEELTK;NATDLQNS(0.156)S(0.566)MS(0.278)EEELTK;NATDLQNS(0.026)S(0.963)MS(0.011)EEELTK ;;; 210.91 7.27E-17 67658500 10105.7 9712.3 9778.9 9202.9 10172.5 11051 10127.7 9119.5 9585.9 10021.6 TRUE FALSE FALSE 11168.66389 10026.98489 11111.51757 9381.035437 9393.085248 10109.39263 8988.104541 8886.236395 9519.190941 10453.68022 1.068395403 0.959182286 1.06292878 0.897390703 0.898543389 0.967065418 0.859802897 0.850058181 0.910606671 1 13.35172331 -6.251841479 24.55189808 1.028559835 0.896888516 0.43650099 0.055503304 234.4471138 599726.564 0.00665637 0.010942758 5.60E-07 6.251841479 -0.131671319 NATDLQNSSMS(ph)EEELTK ddPTM_HeLa_SAHA_4h_R1 1 NATDLQNSSMSEEELTK 17 0 Q5QNY5;P40855;H0YJ60;P40855-5 Q5QNY5 PEX19 Peroxisomal biogenesis factor 19 1 0 NATDLQNS(0.021)S(0.423)MS(0.55)EEELT(0.006)K 94.639 0.0069758 6957100 1368 1573.2 1098.5 1429 1330 1293.4 1301.1 1073 1192.7 1029.7 TRUE FALSE FALSE 1511.892517 1624.172712 1248.197859 1456.660361 1228.095687 1183.195044 1154.696804 1045.554214 1184.399904 1074.095406 1.407596111 1.512130769 1.162092168 1.356174091 1.143376724 1.101573507 1.07504119 0.973427693 1.102695251 1 10.06890643 -5.065911682 1.539214565 1.230631296 1.008754798 0.289106523 0.144300756 0.622151758 2.67210253 0.028147077 0.130272134 8.59E-06 5.065911682 -0.221876498 NAVALS(ph)ASPQLK ddPTM_HeLa_SAHA_4h_R1 2 NAVALSASPQLK 12 0 A0A2R8YD63;Q92547 A0A2R8YD63 TOPBP1 DNA topoisomerase 2-binding protein 1 1 0 NAVALS(0.796)AS(0.204)PQLK;NAVALS(0.613)AS(0.387)PQLK ; 121.31 0.0014727 9072500 3880.1 3809.2 3691.4 4053.5 4205 4512.7 4051.8 4660 4700.6 4189.9 TRUE FALSE FALSE 4288.226721 3932.620579 4194.444768 4131.961354 3882.813808 4128.192572 3595.8808 4540.803948 4667.888142 4370.547094 0.981164744 0.899800527 0.959707029 0.945410555 0.888404524 0.944548242 0.822753015 1.038955501 1.068032912 1 12.09359817 -7.387169772 5.06448375 0.991844147 0.925482767 0.302213764 0.057710152 0.212770568 7.858162477 0.008155306 0.009264003 4.10E-08 7.387169772 -0.06636138 NAVALSAS(ph)PQLK ddPTM_HeLa_SAHA_4h_R1 2 NAVALSASPQLK 12 0 A0A2R8YD63;Q92547 A0A2R8YD63 TOPBP1 DNA topoisomerase 2-binding protein 1 1 0 NAVALS(0.011)AS(0.989)PQLK;NAVALS(0.043)AS(0.957)PQLK ; 148.85 0.00040292 42679000 5691.5 5284.1 5045.1 5532.8 5766.7 6143.1 6484.9 5697.1 5859.3 5372.3 TRUE FALSE FALSE 6290.158084 5455.308307 5732.619954 5639.895345 5324.856692 5619.67332 5755.201985 5551.376431 5818.524654 5603.926144 1.122455564 0.973479694 1.022964937 1.006418571 0.950201083 1.002810026 1.026994617 0.990622697 1.038294314 1 12.45222223 -7.23297448 24.9735744 1.057826248 0.997302465 0.356074526 0.035194647 741.6521042 650686.7062 0.008148598 0.0099789 5.85E-08 7.23297448 -0.060523783 NAVEEYVYDFR ddPTM_HeLa_SAHA_4h_R1 2 NAVEEYVYDFR 11 0 O95757;E9PDE8 O95757 HSPA4L Heat shock 70 kDa protein 4L 0 0 ; ; 208.56 4.81E-40 9935000 1685.32 1954.74 1971.2 2221 2283.55 2738.7 2413.6 1875.77 2593.3 2259.62 FALSE FALSE TRUE 1862.58969 2018.074859 2239.82487 2263.990667 2108.584892 2505.347352 2142.015376 1827.790519 2575.253014 2357.043277 0.79022295 0.856189141 0.950268878 0.960521467 0.89458896 1.062919539 0.908772188 0.775459041 1.092577739 1 11.20276253 -6.740563935 24.91972183 0.894814503 0.93110874 0 0.103571886 842.6871281 1005941.146 0.016165531 0.022847236 1.82E-07 6.740563935 0.036294237 NAVEEYVYEFR ddPTM_HeLa_SAHA_4h_R1 2 NAVEEYVYEFR 11 0 Q92598-2;Q92598-3;Q92598;A0A0A0MSM0;Q92598-4 Q92598-2 HSPH1 Heat shock protein 105 kDa 0 0 ; ; 167.11 0.00078818 61099000 4413.7 4970.9 4399.2 4872.7 4571.1 4488 5562.2 5011.6 4747.2 4666.5 FALSE FALSE TRUE 4877.953217 5131.960422 4998.700066 4967.018155 4220.863306 4105.597151 4936.326617 4883.410529 4714.163849 4867.695652 1.002107273 1.054289501 1.026913025 1.020404419 0.86711734 0.84343752 1.014099272 1.003228402 0.968459038 1 12.24902325 -5.790452589 24.99956246 1.008832393 0.931513132 0.352445541 0.053054792 184.7971474 159232.098 0.007967561 0.014444161 1.62E-06 5.790452589 -0.077319262 NAVEEYVYEMR ddPTM_HeLa_SAHA_4h_R1 1 NAVEEYVYEMR 11 0 A0A087WYC1;P34932 A0A087WYC1 HSPA4 Heat shock 70 kDa protein 4 0 0 139.32 0.0056578 10143000 1101.6 997.73 801.72 833.67 980.68 1100.6 890.24 822.08 1148.5 875.3 FALSE FALSE TRUE 1217.471342 1030.057107 910.9742264 849.8068884 905.5405103 1006.822688 790.0678522 801.052384 1140.507495 913.0384666 1.333428313 1.128163976 0.997739153 0.930745987 0.991787907 1.102716616 0.865317159 0.877347903 1.249134113 1 9.834531832 -6.744624866 3.792216706 1.160711724 0.960110535 0.527159066 0.100962123 0.203462947 6.337560382 0.022332816 0.03113905 1.80E-07 6.744624866 -0.200601188 NAVITVPAYFNDSQR ddPTM_HeLa_SAHA_4h_R1 2 NAVITVPAYFNDSQR 15 0 P38646 P38646 HSPA9 "Stress-70 protein, mitochondrial" 0 0 ; ; 225.79 2.34E-43 3453300 602.01 756.22 590.53 501.55 733.64 565.16 439.69 603.07 699.54 769.08 FALSE FALSE TRUE 665.3321739 780.7220242 671.0043531 511.2582255 677.4286617 517.0051885 390.214924 587.6443426 694.6718442 802.2388026 0.829344295 0.973179085 0.836414732 0.637289326 0.844422707 0.644452982 0.486407442 0.732505509 0.865916535 1 9.647887938 -4.949069687 0.206588512 1.020851305 0.32389771 0.528378833 0.104107258 4.81588593 0.246084133 0.132021912 0.888656865 1.12E-05 4.949069687 -0.696953595 NAVIVALSSK ddPTM_HeLa_SAHA_4h_R1 1 NAVIVALSSK 10 0 P61086;P61086-2 P61086 UBE2K Ubiquitin-conjugating enzyme E2 K 0 0 100.48 0.014881 1126900 1134.8 1425.7 1735.3 1705 1764.2 1250.8 1781.9 981.04 793.5 1016.7 FALSE FALSE TRUE 1254.163471 1471.893615 1971.777647 1738.00274 1629.027377 1144.224803 1581.395922 955.9464173 787.9779689 1060.534913 1.182576317 1.387878511 1.85922936 1.638798233 1.53604314 1.078912905 1.49113047 0.901381375 0.743000499 1 10.0505764 -7.463228702 2.234004581 1.06986825 1.433481938 0.334835338 0.276097177 0.287909575 2.798096767 0.049250516 0.054295369 3.44E-08 7.463228702 0.363613688 NCES(ph)DTEEDIAR ddPTM_HeLa_SAHA_4h_R1 3 NCESDTEEDIAR 12 0 Q9UIK4 Q9UIK4 DAPK2 Death-associated protein kinase 2 1 0 NCES(0.996)DT(0.004)EEDIAR;NCES(0.981)DT(0.019)EEDIAR;NCES(0.902)DT(0.098)EEDIAR ;; 209.56 4.12E-11 15647400 2307.76 2602.02 2022.77 2826.9 2761.4 2913.4 2783.64 2548.97 3415.62 2010.3 TRUE FALSE FALSE 2550.500785 2686.327155 2298.422561 2881.618737 2549.822129 2665.16193 2470.417501 2483.771038 3391.850422 2096.973871 1.216276855 1.281049417 1.096066381 1.37417961 1.215953219 1.270956194 1.178086926 1.184454929 1.617497704 1 11.03409317 -9.046413072 0.634360315 0.981764232 1.232647145 0 0.205037312 0.46186285 0.308437897 0.063244459 0.015003088 8.99E-10 9.046413072 0.250882912 NCIVLIDSTPYR ddPTM_HeLa_SAHA_4h_R1 4 NCIVLIDSTPYR 12 0 P62241;Q5JR95 P62241 RPS8 40S ribosomal protein S8 0 0 ;;; ;;; 166.69 5.24E-08 22061600 3795.98 3648.03 4304.95 3957.57 4137.25 4430.48 4397.23 3272.97 3770.97 4136.96 FALSE FALSE TRUE 4195.258593 3766.228566 4891.606167 4034.17449 3820.254799 4052.978179 3902.442108 3189.252167 3744.727513 4315.324591 0.972176833 0.872756727 1.133543043 0.934848446 0.885276349 0.939205868 0.904321801 0.739052671 0.867774239 1 12.07525337 -3.150138204 0.626847806 0.984646771 2.82E-15 0.38096542 0.076373385 6.293382695 0.604796799 0.011011752 6.163125016 0.000707721 3.150138204 -0.984646771 NCNDFQYESK ddPTM_HeLa_SAHA_4h_R1 1 NCNDFQYESK 10 0 Q04917;A2IDB2 Q04917 YWHAH 14-3-3 protein eta 0 0 150.04 2.36E-06 0 1088.3 957.2 750.66 1092.8 1200 1182 1035.6 981.05 1284.7 1033.2 FALSE FALSE TRUE 1202.772387 988.213908 852.9560355 1113.952724 1108.056259 1081.28695 919.0715625 955.9561615 1275.759668 1077.746308 1.116006966 0.916926275 0.791425616 1.033594563 1.028123456 1.003285228 0.85277171 0.886995533 1.1837291 1 10.07380191 -7.247707787 24.76285414 1.054781067 0.932637215 0.415082449 0.087365633 639.0520659 1152435.117 0.014427891 0.01761783 5.65E-08 7.247707787 -0.122143853 NCPAVTLT(ph)SPAK ddPTM_HeLa_SAHA_4h_R1 1 NCPAVTLTSPAK 12 0 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 1 0 NCPAVT(0.022)LT(0.885)S(0.093)PAK 126.83 0.0021089 7016200 2227.6 2011.9 1618 2084 1749 2181.9 2398 2039 2216.1 2215.7 TRUE FALSE FALSE 2461.909189 2077.08688 1838.492614 2124.338834 1614.991998 1995.989845 2128.170729 1986.845332 2200.67798 2311.22967 1.065194524 0.898693413 0.795460805 0.919137921 0.698758768 0.863605149 0.920795867 0.859648592 0.952167588 1 11.17444491 -7.11301938 4.231857993 1.030473858 0.844360023 0.53468939 0.066528448 0.103301491 3.128463552 0.010468845 0.01296671 7.71E-08 7.11301938 -0.186113834 NCPAVTLTS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 1 NCPAVTLTSPAK 12 0 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 1 0 NCPAVT(0.001)LT(0.024)S(0.976)PAK 164.13 0.00012826 8642600 2141.7 2338.7 1955.9 2229 2337.5 2517 2466.9 2296.2 2324.3 2027.6 TRUE FALSE FALSE 2366.973832 2414.475414 2222.439866 2272.145518 2158.401255 2302.53744 2189.317919 2237.466529 2308.125007 2115.019759 1.119126109 1.141585276 1.050789174 1.074290445 1.020511154 1.088660014 1.035128826 1.057893913 1.091301865 1 11.04645543 NCPHVVVGT(ph)PGR ddPTM_HeLa_SAHA_4h_R1 2 NCPHVVVGTPGR 12 0 O00148;O00148-2;O00148-3;K7EQN7;A0A0D9SEM9;K7EPJ3 O00148 DDX39A ATP-dependent RNA helicase DDX39A 1 0 NCPHVVVGT(1)PGR;NCPHVVVGT(1)PGR ; 95.662 0.010319 29202000 3229 3625.5 3284.5 3815.4 3562.4 4362 3752.5 3720.1 3674.1 3245.6 TRUE FALSE FALSE 3568.641035 3742.968579 3732.094555 3889.252584 3289.449682 3990.33306 3330.258824 3624.945229 3648.531639 3385.5337 1.05408522 1.105577115 1.102365206 1.148785666 0.97161924 1.178642251 0.983673217 1.070716038 1.07768286 1 11.72516756 -8.304204507 0.942260988 1.007877669 1.07832221 0.012407974 0.064910253 0.566188806 1.052350823 0.018876553 0.01211191 4.96E-09 8.304204507 0.070444541 NCPPS(ph)PLPLISK ddPTM_HeLa_SAHA_4h_R1 1 NCPPSPLPLISK 12 0 A0A0A0MRP0;Q8IWC1-2;Q8IWC1-4;Q8IWC1;Q8IWC1-3 A0A0A0MRP0 MAP7D3 MAP7 domain-containing protein 3 1 0 NCPPS(0.957)PLPLIS(0.043)K 141.82 0.00060613 13529000 4289.5 6341.7 4831.8 2895.1 5646.5 5755.8 5557.9 3683.8 4006.6 5613 TRUE FALSE FALSE 4740.689291 6547.175241 5490.252541 2951.138847 5213.86639 5265.373459 4932.510464 3589.57373 3978.717744 5855.003899 0.809681662 1.118218767 0.937702628 0.504037042 0.890497509 0.899294612 0.842443583 0.61307794 0.679541434 1 12.51545442 NCPS(ph)PVLIDCPHPNCNKK ddPTM_HeLa_SAHA_4h_R1 1 NCPSPVLIDCPHPNCNKK 18 1 O15014 O15014 ZNF609 Zinc finger protein 609 1 0 NCPS(1)PVLIDCPHPNCNKK 56.684 0.020585 6625500 2440.2 2093.2 2426.5 2332.4 2728.7 2573.7 3070.7 2419.8 2149.8 2191.7 TRUE FALSE FALSE 2696.871432 2161.021053 2757.170783 2377.546975 2519.627596 2354.406281 2725.176754 2357.90502 2134.839367 2286.194913 1.179633205 0.945247949 1.206008625 1.039958125 1.102105328 1.0298362 1.19201418 1.031366576 0.93379587 1 11.15873269 -9.665815336 1.519348606 1.000053534 1.103910795 0.226908231 0.083087891 0.516664672 2.148211986 0.053539917 0.012030739 2.16E-10 9.665815336 0.103857261 NCS(ph)SPEFSK ddPTM_HeLa_SAHA_4h_R1 3 NCSSPEFSK 9 0 Q5JX53;Q5JX54;F2Z2V0;A6PVH9;E7ENH5;Q5JX45;Q5JX52;Q5JX44;Q5JX60;Q5JX61;Q5JX59;Q5JX58;Q5JX56;Q5JX55;E7EV27;Q5JX57;B0QZ18;Q99829 Q5JX53 CPNE1 Copine-1 1 0 NCS(0.5)S(0.5)PEFS(0.001)K;NCS(0.515)S(0.485)PEFSK;NCS(0.498)S(0.498)PEFS(0.004)K ;; 134.75 0.0015684 28539000 8793.3 9394.3 8447.2 7897.5 9451.4 11126.3 9693.1 9442.6 10207.3 8668.8 TRUE FALSE FALSE 9718.219639 9698.681484 9598.340425 8050.367532 8727.235774 10178.27665 8602.406877 9201.071965 10136.26657 9042.554392 1.074720617 1.072559928 1.061463388 0.890275821 0.965129475 1.125597503 0.95132487 1.017530176 1.120951683 1 13.14251466 NCSAS(ph)T(ph)SQAS(ph)PS(ph)PCITERS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 NCSASTSQASPSPCITERSK 20 1 F5H7X4;Q66PJ3-7 F5H7X4 ARL6IP4 ADP-ribosylation factor-like protein 6-interacting protein 4 5 0 NCS(0.275)AS(0.725)T(0.728)S(0.405)QAS(0.769)PS(0.804)PCIT(0.478)ERS(0.816)K 45.608 0.0085542 0 696.58 850.26 735.64 630.59 674.53 962.62 821.95 713.36 814.41 919.66 TRUE FALSE FALSE 769.8494804 877.8089819 835.8891882 642.7959813 622.8476571 880.5993604 729.4620227 695.1132841 808.7424545 959.3110433 0.802502469 0.915041047 0.871343235 0.670060025 0.649265597 0.917949779 0.760401986 0.724596354 0.843045079 1 9.905854855 -13.00407555 0.167810591 1.725305473 0.724194284 0.200847984 0.097345133 32.08130552 0.41328275 7.721139313 0.151726561 9.91E-14 13.00407555 -1.001111189 NCSASTS(ph)QER ddPTM_HeLa_SAHA_4h_R1 1 NCSASTSQER 10 0 H7BZV4;A0A0C4DG62;Q66PJ3-4;Q66PJ3-3;F8WEP2 H7BZV4 ARL6IP4 ADP-ribosylation factor-like protein 6-interacting protein 4 1 0 NCS(0.001)AS(0.044)T(0.184)S(0.771)QER 106.26 0.0068079 3692800 1771.2 900.17 2122 1356.7 1708.3 2919.5 2491.8 1970.3 1682.3 2967.6 TRUE FALSE FALSE 1957.502943 929.3360986 2411.175109 1382.96089 1577.410423 2670.742175 2211.416106 1919.902579 1670.592737 3095.547759 0.632360763 0.300217012 0.778917108 0.446758053 0.509573925 0.862768848 0.71438604 0.620214168 0.539675969 1 11.595979 -8.92401332 0.872974131 0.988672138 0.611228195 0 0.20732305 0.388296697 0.56454976 0.08638262 0.031244968 1.19E-09 8.92401332 -0.377443943 NCSETQYESK ddPTM_HeLa_SAHA_4h_R1 5 NCSETQYESK 10 0 P61981 P61981 YWHAG "14-3-3 protein gamma;14-3-3 protein gamma, N-terminally processed" 0 0 ;;;; ;;;; 235.01 6.41E-22 22736790 5136.11 4537.38 4146.31 5542.17 5004.28 5108.3 5023.14 4764.34 3962.88 4597.44 FALSE FALSE TRUE 5676.349615 4684.394089 4711.347534 5649.446714 4620.853148 4673.044101 4457.923067 4642.475081 3935.301995 4795.658138 1.183643507 0.976799003 0.982419388 1.178033661 0.963549322 0.974432282 0.929574824 0.96805797 0.820596857 1 12.2275131 -5.638126264 10.85871724 1.076573816 0.957006607 0 0.106370589 0.3292036 29.84911628 0.01241468 0.024837057 2.30E-06 5.638126264 -0.119567209 NCVAIAADRR ddPTM_HeLa_SAHA_4h_R1 2 NCVAIAADRR 10 1 A0A087WUL2;P49720;A0A087WXQ8;A0A087WY10 A0A087WUL2 PSMB3 Proteasome subunit beta type-3 0 0 ; ; 158.47 2.82E-09 2594100 2501.7 2917.7 2827.8 3146.4 3183.5 2407.2 3357.1 1759.03 1753.16 2459.9 FALSE FALSE TRUE 2764.840284 3012.235394 3213.157857 3207.303122 2939.580918 2202.093017 2979.350273 1714.03656 1740.959617 2565.958327 1.077507867 1.17392218 1.252225269 1.249943574 1.145607427 0.85819516 1.161106258 0.667990801 0.6784832 1 11.32528203 -4.254050146 24.65415518 1.076633914 0.667990565 0.325207718 0.171563256 496.1241778 1655267.314 0.017405165 0.240859407 5.57E-05 4.254050146 -0.40864335 NDAPTPGTSTT(ph)PGLR ddPTM_HeLa_SAHA_4h_R1 3 NDAPTPGTSTTPGLR 15 0 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726;A0A0D9SES8 H0YKH0 TLE3 Transducin-like enhancer protein 3 1 0 NDAPTPGTS(0.001)T(0.233)T(0.765)PGLR;NDAPTPGTST(0.011)T(0.988)PGLR;NDAPTPGT(0.002)S(0.015)T(0.113)T(0.87)PGLR ;; 154.81 4.94E-05 113900000 6421.3 7192.5 7128.7 6994.1 7035.6 6151.3 6372 7578.8 7401.5 7602.8 TRUE FALSE FALSE 7096.721796 7425.541719 8100.162111 7129.480919 6496.533848 5627.174634 5655.00579 7384.94527 7349.992359 7930.593915 0.894853762 0.936315968 1.021381526 0.898984489 0.819173686 0.709552739 0.71306208 0.931197001 0.92678965 1 12.9532132 -5.790177068 2.928631026 0.952755054 0.776748156 0.567933614 0.066810364 0.141138827 2.480672894 0.010435791 0.021074204 1.62E-06 5.790177068 -0.176006898 NDDDEEEAAR ddPTM_HeLa_SAHA_4h_R1 2 NDDDEEEAAR 10 0 E7EX44;Q05682-3;Q05682-6;Q05682-2;C9JE79;F8WE61;C9JEK3;Q05682;Q05682-5;Q05682-4;E9PGZ1;C9J813 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 0 0 ; ; 181.53 0.00011465 11313100 1998.58 1992.57 1881.38 2614.5 2759.9 2914.8 3306.2 2427 2477.6 3455.5 FALSE FALSE TRUE 2208.799814 2057.130575 2137.764669 2665.107428 2548.437058 2666.442642 2934.177675 2364.920854 2460.35818 3604.483516 0.612792319 0.57071438 0.593084879 0.739386771 0.707018647 0.739757202 0.814035537 0.656105332 0.682582725 1 11.81557684 -9.296877763 1.014825983 1.000612595 0.679071026 0.004812447 0.119224716 0.24123859 0.443813233 0.055678201 0.01481965 5.05E-10 9.296877763 -0.321541569 NDDDEEEAARER ddPTM_HeLa_SAHA_4h_R1 2 NDDDEEEAARER 12 1 E7EX44;Q05682-3;Q05682-6;Q05682-2;C9JE79;F8WE61;C9JEK3;Q05682;Q05682-5;Q05682-4;E9PGZ1;C9J813 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 0 0 ; ; 145.81 0.000727 17034500 5487.8 3051.8 4899.9 4613.5 4728 2829.1 4897.8 5157.4 2352.27 3924.6 FALSE FALSE TRUE 6065.031983 3150.680322 5567.632854 4702.800964 4365.741661 2588.044764 4346.686654 5025.481176 2335.900362 4093.808713 1.481513282 0.769620797 1.360012948 1.148759332 1.066425417 0.632185074 1.061770825 1.227580849 0.570593432 1 11.99922798 -5.687886641 3.701192141 1.201417086 0.966181094 0 0.303707701 0.345712987 9.35549499 0.037946778 0.078022994 2.05E-06 5.687886641 -0.235235992 NDEELNK(ac)LLGK ddPTM_HeLa_SAHA_4h_R1 2 NDEELNKLLGK 11 1 A0A0U1RR32;A0A0U1RRH7;Q99878;Q96KK5;Q16777;Q6FI13;P20671;P0C0S8;Q9BTM1;H0YFX9;Q9BTM1-2 A0A0U1RR32 HIST1H2AJ;HIST1H2AH;HIST2H2AC;HIST2H2AA3;HIST1H2AD;HIST1H2AG;H2AFJ Histone H2A type 1-J;Histone H2A type 1-H;Histone H2A type 2-C;Histone H2A type 2-A;Histone H2A type 1-D;Histone H2A type 1;Histone H2A.J;Histone H2A 0 1 ; NDEELNK(1)LLGK;NDEELNK(1)LLGK 181.4 1.61E-16 11470500 1205.24 3146.5 1746.79 1812.76 3400.8 2262.74 3716.5 3253.7 2053.53 991.74 FALSE TRUE FALSE 1332.012673 3248.448664 1984.833444 1847.848591 3140.231439 2069.941822 3298.309639 3170.475065 2039.239318 1034.498765 1.287592328 3.140118456 1.918642643 1.786226 3.03551009 2.000912802 3.188316652 3.064745143 1.971234173 1 10.01471621 -6.769674658 0.361869286 0.857485042 3.145889269 0.325131536 0.631319836 0.644262017 0.207280918 0.308818577 0.566771396 1.70E-07 6.769674658 2.288404228 NDEELNKLLGK ddPTM_HeLa_SAHA_4h_R1 2 NDEELNKLLGK 11 1 A0A0U1RR32;A0A0U1RRH7;Q99878;Q96KK5;Q16777;Q6FI13;P20671;P0C0S8;Q9BTM1;H0YFX9;Q9BTM1-2 A0A0U1RR32 HIST1H2AJ;HIST1H2AH;HIST2H2AC;HIST2H2AA3;HIST1H2AD;HIST1H2AG;H2AFJ Histone H2A type 1-J;Histone H2A type 1-H;Histone H2A type 2-C;Histone H2A type 2-A;Histone H2A type 1-D;Histone H2A type 1;Histone H2A.J;Histone H2A 0 0 ; ; 107.34 0.0041249 19524700 10187.2 7792.7 7915.7 9929.3 10754 9862.6 13073.3 11748.6 6745.5 9858.9 FALSE FALSE TRUE 11258.73644 8045.188593 8994.410373 10121.49596 9930.030843 9022.250995 11602.25788 11448.08782 6698.557516 10283.96543 1.09478552 0.782304127 0.874605271 0.984201671 0.965583842 0.877312459 1.128189117 1.113197813 0.651359397 1 13.32810904 -1.857742408 1.124523437 0.998299185 38.64624386 0 0.148348243 679.1188862 4.282706188 0.016983422 65192.18406 0.013875786 1.857742408 37.64794467 NDEELNKLLGR ddPTM_HeLa_SAHA_4h_R1 1 NDEELNKLLGR 11 1 Q93077;Q7L7L0;P04908 Q93077 HIST1H2AC;HIST3H2A;HIST1H2AB Histone H2A type 1-C;Histone H2A type 3;Histone H2A type 1-B/E 0 0 82.029 0.022883 1726000 2026.1 1170.9 1601.8 1878.9 1797.2 1918.3 2056.9 2254.2 1162.2 2052.6 FALSE FALSE TRUE 2239.214494 1208.837928 1820.084962 1915.268826 1659.498924 1754.850048 1825.452199 2196.540828 1154.112156 2141.097631 1.045825497 0.564587953 0.85007098 0.89452662 0.775069245 0.819603003 0.852577749 1.025894754 0.539028272 1 11.06413487 NDFMGSLS(ph)FGIS(ph)ELQK ddPTM_HeLa_SAHA_4h_R1 1 NDFMGSLSFGISELQK 16 0 I3L1Z0;P05771;P05771-2 I3L1Z0 PRKCB Protein kinase C beta type 2 0 NDFMGSLS(1)FGIS(1)ELQK 90.913 0.0087585 9045700 1479.2 1076.7 1020.8 1316.8 1432.4 1633.8 1204.3 1130.3 1185.6 1216 TRUE FALSE FALSE 1634.789043 1111.585786 1159.909308 1342.288568 1322.649821 1494.591048 1068.788994 1101.388563 1177.349313 1268.427711 1.288831069 0.876349339 0.914446521 1.058230246 1.042747498 1.17830211 0.842609307 0.868310076 0.928195831 1 10.30882559 -7.249577346 24.98651084 1.136392452 0.976127733 0.051807859 0.134332387 876.6000264 1846495.819 0.024191298 0.029502892 5.63E-08 7.249577346 -0.160264719 NDHQEDFWK ddPTM_HeLa_SAHA_4h_R1 2 NDHQEDFWK 9 0 A6NKB8;Q9H4A4 A6NKB8 RNPEP Aminopeptidase B 0 0 ; ; 125.74 0.0029769 11608600 10191 8874.5 9723.9 10947.7 11687.1 2152.27 10706 9519.6 10116.3 10367.5 FALSE FALSE TRUE 11262.93614 9162.039623 11049.02245 11159.60856 10791.63692 1968.884488 9501.332703 9276.102416 10045.89984 10814.49366 1.041466803 0.847200055 1.021686525 1.031912257 0.997886472 0.182059794 0.878573977 0.85774727 0.928929283 1 13.4006785 -5.459624967 24.9999149 1.006950725 0.651138186 0.408527877 0.186584138 143.0869494 56552.18072 0.024550276 0.054896052 3.47E-06 5.459624967 -0.355812539 NDK(ac)SEEEQSSSSVK ddPTM_HeLa_SAHA_4h_R1 2 NDKSEEEQSSSSVK 14 1 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 0 1 ; NDK(1)SEEEQSSSSVK;NDK(1)SEEEQSSSSVK 369.35 6.98E-260 7727500 193.792 933.85 363.89 751.48 955.99 874.5 1176.27 627.94 825.29 342.22 FALSE TRUE FALSE 214.1759317 964.1073527 413.4790341 766.0259821 882.7422527 799.9876802 1043.913004 611.878204 819.5467397 356.974779 0.599974968 2.700771622 1.158286407 2.145882643 2.472842074 2.241020171 2.924332657 1.714065643 2.295811323 1 8.479678338 -7.269024274 24.98712913 0.811099267 2.192844912 0.17867422 0.667844057 251.8293468 829606.9788 0.079573188 0.091917462 5.38E-08 7.269024274 1.381745645 NDKS(ph)EEEQSSSSVK ddPTM_HeLa_SAHA_4h_R1 6 NDKSEEEQSSSSVK 14 1 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 1 0 NDKS(0.996)EEEQS(0.004)S(0.001)SSVK;NDKS(1)EEEQSSSSVK;NDKS(1)EEEQSSSSVK;NDKS(1)EEEQSSSSVK;NDKS(0.974)EEEQS(0.013)S(0.004)S(0.007)S(0.002)VK;NDKS(0.753)EEEQS(0.182)S(0.065)SSVK ;;;;; 195.5 2.02E-08 1351107000 10241.18 15361.1 9990.83 16195.6 15718.4 14737.7 16535.6 15467.29 19067.1 15574.4 TRUE FALSE FALSE 11318.3943 15858.80972 11352.32828 16509.08926 14514.05959 13481.96505 14674.97077 15071.65912 18934.4105 16245.8886 0.696692842 0.976173733 0.698781615 1.016201062 0.893398936 0.829869352 0.903303668 0.927721437 1.165489372 1 13.98778704 -6.21867109 24.99412029 0.853215955 0.907669672 0 0.14176921 1473.532515 861143.4087 0.019432334 0.032224753 6.04E-07 6.21867109 0.054453717 NDKS(ph)EEEQSSSSVKK ddPTM_HeLa_SAHA_4h_R1 1 NDKSEEEQSSSSVKK 15 2 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 1 0 NDKS(0.999)EEEQS(0.001)SSSVKK 102.79 0.0024972 29985000 1879.5 2537.4 2018.6 3046.6 3020.4 2491.5 3006.8 2405.5 2714.6 2759.4 TRUE FALSE FALSE 2077.194433 2619.613425 2293.684296 3105.571348 2788.977605 2279.210183 2668.466951 2343.970793 2695.708878 2878.371238 0.721656194 0.910102696 0.796868821 1.078933567 0.96894298 0.791840244 0.927075325 0.814339291 0.93653968 1 11.49103696 -9.748798911 1.698424383 0.999984526 0.854553451 0.077599484 0.100789378 0.502100171 2.6214162 0.07983087 0.017249899 1.78E-10 9.748798911 -0.145431075 NDKSEEEQS(ph)SSSVKKDETNVK ddPTM_HeLa_SAHA_4h_R1 1 NDKSEEEQSSSSVKKDETNVK 21 3 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 1 0 NDKSEEEQS(0.295)S(0.295)S(0.236)S(0.169)VKKDET(0.005)NVK 57.496 0.0076844 128730000 3219.4 3111.8 3150.7 3797.2 3333.4 2586.6 3862.9 3724.9 3213.2 3258.3 TRUE FALSE FALSE 3558.031263 3212.624362 3580.060988 3870.700297 3077.995612 2366.207128 3428.236325 3629.622452 3190.83908 3398.781259 1.046855032 0.945228338 1.053336686 1.138849488 0.905617449 0.696192826 1.008666361 1.067918814 0.938818605 1 11.7308018 -5.703074668 24.99847801 1.026129311 0.910002774 0.179557337 0.104466473 90.27024627 38663.32761 0.01458243 0.029164852 1.98E-06 5.703074668 -0.116126536 NDKSEEEQSSS(ph)SVK ddPTM_HeLa_SAHA_4h_R1 1 NDKSEEEQSSSSVK 14 1 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 1 0 NDKSEEEQS(0.007)S(0.001)S(0.608)S(0.384)VK 86.367 0.007074 3524400 971.58 1393 1051.6 1595.9 1799.9 1837.7 1832.8 1869.9 1908 2051.9 TRUE FALSE FALSE 1073.775242 1438.134114 1194.906572 1626.790952 1661.992051 1681.117621 1626.56852 1822.070666 1894.722073 2140.367451 0.501677991 0.671909916 0.558271698 0.760052182 0.77649847 0.785434118 0.75994826 0.851288719 0.885232146 1 11.06364278 -9.575817527 1.379470204 0.998797381 0.682516953 0.400734066 0.108783761 0.29517384 1.01313843 0.085456521 0.020315048 2.66E-10 9.575817527 -0.316280428 NDKSEEEQSSSS(ph)VK ddPTM_HeLa_SAHA_4h_R1 1 NDKSEEEQSSSSVK 14 1 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 1 0 NDKSEEEQS(0.001)S(0.001)S(0.185)S(0.813)VK 132.51 0.00024963 3407900 1096.4 1596.2 1475.3 1734.7 1590.7 1865.1 2103.8 1560.3 1831.4 2385.4 TRUE FALSE FALSE 1211.724382 1647.917927 1676.346201 1768.277627 1468.82091 1706.182987 1867.074887 1520.389785 1818.655138 2488.246268 0.486979283 0.66228088 0.673705904 0.710652177 0.590303672 0.685696994 0.750357756 0.611028661 0.730898369 1 11.28091356 -9.474807735 1.198783759 1.001137188 0.635815327 0.301227931 0.105832141 0.19336552 0.494687151 0.058411624 0.014159553 3.35E-10 9.474807735 -0.365321861 NDKSEEEQSSSSVK ddPTM_HeLa_SAHA_4h_R1 4 NDKSEEEQSSSSVK 14 1 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 0 0 ;;; ;;; 206.67 8.41E-25 10892490 3078.7 3045.84 3586.59 5072.64 3655.4 2988.48 4020.17 3616.85 3276.03 3662.99 FALSE FALSE TRUE 3402.531792 3144.527214 4075.351807 5170.828282 3375.324042 2733.844691 3567.809891 3524.336214 3253.23184 3820.919425 0.890500797 0.822976584 1.066589308 1.353294249 0.883380063 0.715493939 0.933756904 0.922379098 0.851426444 1 11.89970412 -5.543115086 24.99440243 0.97767667 0.853959795 0.153012295 0.150726506 383.0276115 473085.521 0.022473091 0.044949834 2.86E-06 5.543115086 -0.123716875 NDKSEEEQSSSSVKKDET(ph)NVK ddPTM_HeLa_SAHA_4h_R1 1 NDKSEEEQSSSSVKKDETNVK 21 3 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 1 0 NDKSEEEQS(0.009)S(0.009)S(0.047)S(0.047)VKKDET(0.887)NVK 54.658 0.018606 127720000 2819.3 2802.4 2290.5 3196.2 3075 2341.5 2997.8 2511.4 2732.7 2730.6 TRUE FALSE FALSE 3115.846909 2893.199599 2602.637412 3258.067073 2839.394164 2141.991027 2660.479654 2447.162024 2713.682918 2848.329529 1.093920797 1.015753117 0.913741681 1.143851875 0.996862946 0.752016579 0.934049107 0.85915692 0.952727867 1 11.47590035 -5.445489028 7.072840674 1.039579471 0.858312377 0.503892761 0.075108412 0.141497095 11.15936694 0.009996746 0.022412685 3.59E-06 5.445489028 -0.181267094 NDKYAGEEGMIEDMK ddPTM_HeLa_SAHA_4h_R1 1 NDKYAGEEGMIEDMK 15 1 Q86U86-8;Q86U86;H0Y5B5;E7EVG2;Q86U86-6;Q86U86-5;Q86U86-4;Q86U86-7;Q86U86-3;Q86U86-9;Q86U86-2 Q86U86-8 PBRM1 Protein polybromo-1 0 0 43.813 0.022829 7988100 1000.9 1597.7 1078.5 1713 2022.5 2145.4 1968.7 1400.7 2635.4 1760.3 FALSE FALSE TRUE 1106.179254 1649.466528 1225.472363 1746.157592 1867.536487 1962.59985 1747.176695 1364.872122 2617.060037 1836.195148 0.602430115 0.898306768 0.66739767 0.950965149 1.017068632 1.06884056 0.951520157 0.743315395 1.425262473 1 10.84250368 -6.11598741 11.36498528 0.805453357 0.958145248 0 0.235124119 0.760262209 70.30348163 0.025676717 0.042596685 7.66E-07 6.11598741 0.15269189 NDLAVVDVR ddPTM_HeLa_SAHA_4h_R1 3 NDLAVVDVR 9 0 P19338 P19338 NCL Nucleolin 0 0 ;; ;; 136.52 0.0084195 64097000 18134.9 18764.2 17162.5 20061 18698.2 18093 19526.3 18735.5 18597.7 16840.3 FALSE FALSE TRUE 20042.41199 19372.17239 19501.31612 20449.30966 17265.54796 16551.37461 17329.14933 18256.27304 18468.27709 17566.36775 1.140953684 1.102798978 1.110150738 1.164117133 0.982875242 0.942219521 0.986495876 1.039274214 1.051342962 1 14.10052829 -5.717969405 24.90916635 1.080860768 0.984379099 0.52234121 0.049080938 119.4559413 68449.95713 0.009472685 0.018945274 1.91E-06 5.717969405 -0.09648167 NDLQDTEIS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 NDLQDTEISPR 11 0 Q9NS91 Q9NS91 RAD18 E3 ubiquitin-protein ligase RAD18 1 0 NDLQDTEIS(1)PR;NDLQDTEIS(1)PR ; 194.98 3.04E-07 39360000 2962.1 3702.2 2530 3716.7 3704.8 3586.9 3624 3180.7 5071.4 3182.4 TRUE FALSE FALSE 3273.667269 3822.153709 2874.775224 3788.642103 3420.939024 3281.275941 3216.217982 3099.3423 5036.107714 3319.608838 0.986160547 1.151386773 0.865998184 1.141291727 1.030524737 0.988452586 0.968854506 0.933646839 1.517078656 1 11.69679754 -4.62347883 2.132164053 1.008935458 0.935714194 0 0.178253588 0.690724188 5.451271747 0.010073524 0.072517318 2.38E-05 4.62347883 -0.073221265 NDQCYDDIR ddPTM_HeLa_SAHA_4h_R1 1 NDQCYDDIR 9 0 F8W1H8;F8VUX3;F8VSA4;F8VRE9;F8VTT6;F8VVB7;Q9ULV4;Q9ULV4-2;Q9ULV4-3 F8W1H8 CORO1C Coronin;Coronin-1C 0 0 163.38 0.00041264 8982100 1764.4 2096.2 2199.5 2124.3 2361.4 2138.2 2602.9 1957.3 2352.2 2013.9 FALSE FALSE TRUE 1949.987687 2164.118255 2499.236405 2165.418898 2180.470042 1956.013331 2310.014842 1907.2351 2335.830849 2100.729085 0.928243295 1.030174843 1.18969953 1.030793982 1.037958706 0.931111653 1.099625296 0.907891986 1.111914366 1 11.03667441 -7.168312377 7.682990443 0.966173345 1.037638544 0 0.088906612 0.397912974 29.31965872 0.012587167 0.01543218 6.79E-08 7.168312377 0.071465199 NDQDTWDYTNPNLSGQGDPGSNPNKR ddPTM_HeLa_SAHA_4h_R1 1 NDQDTWDYTNPNLSGQGDPGSNPNKR 26 1 P14866;M0QXS5;A0A3B3ITJ4;P14866-2 P14866 HNRNPL Heterogeneous nuclear ribonucleoprotein L 0 0 162.2 2.25E-10 7502800 834.99 737.33 626.28 595.7 1020.2 725.6 801.69 773.67 1054.8 794.03 FALSE FALSE TRUE 922.8180793 761.2199758 711.6261769 607.2306349 942.0324964 663.7747979 711.4817313 753.8806417 1047.459561 828.2645192 1.114158651 0.919054189 0.859177425 0.733136119 1.137357058 0.801404361 0.85900303 0.91019309 1.264643766 1 9.693947778 -7.12543111 5.173118502 1.053596351 0.883761761 0.41387072 0.121236943 0.178463523 6.847712102 0.016804365 0.020699056 7.49E-08 7.12543111 -0.16983459 NDQEPPPEALDFS(ph)DDEKEK ddPTM_HeLa_SAHA_4h_R1 2 NDQEPPPEALDFSDDEKEK 19 1 Q96HR8-2;Q96HR8 Q96HR8-2 NAF1 H/ACA ribonucleoprotein complex non-core subunit NAF1 1 0 NDQEPPPEALDFS(1)DDEKEK;NDQEPPPEALDFS(1)DDEKEK ; 94.73 0.0010525 78541000 4006.5 5642.9 3405.7 4371 5122.6 5177.9 4846.8 3766.2 7440.2 4168.7 TRUE FALSE FALSE 4427.922052 5825.733662 3869.81106 4455.607026 4730.107495 4736.71379 4301.425308 3669.866057 7388.423042 4348.433058 1.018279917 1.339731711 0.889932306 1.024646572 1.087772867 1.089292103 0.989189727 0.843951375 1.6991001 1 12.08627991 -4.312430542 3.345753102 1.035192312 0.828514305 0 0.237108431 0.318811124 5.887483048 0.01469123 0.155220781 4.87E-05 4.312430542 -0.206678007 NDQEPPPEALDFS(ph)DDEKEKEAK ddPTM_HeLa_SAHA_4h_R1 1 NDQEPPPEALDFSDDEKEKEAK 22 2 Q96HR8-2;Q96HR8 Q96HR8-2 NAF1 H/ACA ribonucleoprotein complex non-core subunit NAF1 1 0 NDQEPPPEALDFS(1)DDEKEKEAK 78.991 0.00077952 16597000 1698.6 1676.8 1928 1965.9 2072.3 1861.4 2129.4 2445.8 1579.9 1734.2 TRUE FALSE FALSE 1877.266541 1731.12942 2190.737799 2003.952837 1913.520822 1702.798248 1889.794308 2383.239977 1568.905347 1808.969849 1.037754467 0.956969748 1.211041633 1.107786754 1.057795863 0.941308253 1.044679826 1.317456993 0.867292149 1 10.82095265 -4.264036523 5.761035578 1.031560242 1.326002359 0.488242191 0.08969857 0.074935641 10.74987237 0.010194723 0.086443877 5.44E-05 4.264036523 0.294442117 NDQWHWDNIR ddPTM_HeLa_SAHA_4h_R1 1 NDQWHWDNIR 10 0 E9PF63;O75116;D6REE7;C9JFJ0 E9PF63 ROCK2 Rho-associated protein kinase 2 0 0 92.611 0.01763 4252500 1995.4 2027.6 2315.1 2263.5 2428.9 1014.6 2791.9 1306.6 1352.1 1459.8 FALSE FALSE TRUE 2205.285327 2093.29557 2630.589771 2307.313316 2242.798207 928.150372 2477.748064 1273.179064 1342.690626 1522.739122 1.448235811 1.374690871 1.727538049 1.515238745 1.472870943 0.609526844 1.627165171 0.836111088 0.881760117 1 10.57245308 NDS(ph)GEENVPLDLTR ddPTM_HeLa_SAHA_4h_R1 2 NDSGEENVPLDLTR 14 0 Q6R327-3;Q6R327;Q6R327-4 Q6R327-3 RICTOR Rapamycin-insensitive companion of mTOR 1 0 NDS(1)GEENVPLDLTR;NDS(1)GEENVPLDLTR ; 201.9 4.85E-12 59048000 2113.11 2431.85 2114.3 2712.3 3197.3 2320.78 3051.1 2759.1 3269.4 2047.72 TRUE FALSE FALSE 2335.376605 2510.643536 2402.425793 2764.800489 2952.323565 2123.036488 2707.782198 2688.526217 3246.647979 2136.00723 1.093337406 1.175390935 1.124727369 1.29437787 1.382169275 0.993927575 1.267684004 1.258669062 1.519961137 1 11.06070082 -7.414902421 0.730973595 1.018945568 1.231621776 0 0.185588676 0.39715127 0.450514426 0.026675319 0.028684479 3.85E-08 7.414902421 0.212676208 NDS(ph)GEENVPLDLTREPSDNLR ddPTM_HeLa_SAHA_4h_R1 3 NDSGEENVPLDLTREPSDNLR 21 1 Q6R327-3;Q6R327;Q6R327-4 Q6R327-3 RICTOR Rapamycin-insensitive companion of mTOR 1 0 NDS(0.982)GEENVPLDLT(0.017)REPSDNLR;NDS(0.822)GEENVPLDLT(0.171)REPS(0.007)DNLR;NDS(0.719)GEENVPLDLT(0.249)REPS(0.032)DNLR ;; 97.395 0.00020372 43820000 1713.76 1494.38 1550.27 1803.32 1789.27 1474.89 2339.86 1980.42 1146.37 1555.05 TRUE FALSE FALSE 1894.02114 1542.798892 1761.532722 1838.225866 1652.176519 1349.221074 2076.572795 1929.763724 1138.392318 1622.095816 1.167638262 0.951114526 1.085960956 1.133241235 1.018544344 0.831776435 1.280178874 1.189673079 0.701803375 1 10.66364333 NDS(ph)LPVLR ddPTM_HeLa_SAHA_4h_R1 2 NDSLPVLR 8 0 Q9GZY8-5 Q9GZY8-5 MFF Mitochondrial fission factor 1 0 NDS(1)LPVLR;NDS(1)LPVLR ; 111.5 0.0059371 8485900 2323.4 4209.5 3173.7 2389.6 3898.1 4575.8 4617.5 3164.8 2450.9 3869.7 TRUE FALSE FALSE 2567.785872 4345.890562 3606.195308 2435.854163 3599.42842 4185.916097 4097.926747 3083.848999 2433.843987 4036.541705 0.636135103 1.076637102 0.893387353 0.603450761 0.891710945 1.037005537 1.015207335 0.76398294 0.602952766 1 11.97890408 -5.52327319 24.99997357 0.832720879 0.949375957 0.105254682 0.167793109 27.76898901 1760007.895 0.025917964 0.052230336 3.00E-06 5.52327319 0.116655078 NDS(ph)PTQIPVSSDVCR ddPTM_HeLa_SAHA_4h_R1 3 NDSPTQIPVSSDVCR 15 0 Q8TC07-2;Q8TC07-3;Q8TC07 Q8TC07-2 TBC1D15 TBC1 domain family member 15 1 0 NDS(0.916)PT(0.084)QIPVSSDVCR;NDS(0.999)PT(0.001)QIPVSSDVCR;NDS(0.531)PT(0.469)QIPVSSDVCR ;; 284.15 1.91E-69 131168000 3603.67 3805.03 3684.28 3939.26 4350.4 3831.75 3730.9 4585.58 3988.7 3659.92 TRUE FALSE FALSE 3982.720545 3928.315469 4186.354491 4015.510074 4017.073292 3505.263343 3311.089313 4468.287503 3960.942312 3817.717062 1.043220459 1.028969775 1.096559652 1.051809238 1.052218702 0.918156921 0.867295627 1.170408239 1.037515941 1 11.89849447 -5.285524441 24.85169024 1.031614982 0.973487781 0.088633902 0.077033819 1159.268938 1196166.87 0.010395127 0.023254875 5.18E-06 5.285524441 -0.058127201 NDS(ph)WGSFDLR ddPTM_HeLa_SAHA_4h_R1 5 NDSWGSFDLR 10 0 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 NDS(0.919)WGS(0.081)FDLR;NDS(0.99)WGS(0.01)FDLR;NDS(0.714)WGS(0.286)FDLR;NDS(0.994)WGS(0.006)FDLR;NDS(0.984)WGS(0.016)FDLR ;;;; 153 0.00048536 110328900 9042.45 8100.15 8059.3 8748.49 9755.41 7129.72 11274.48 9712.27 8818.62 8391.75 TRUE FALSE FALSE 9993.576379 8362.600175 9157.579433 8917.829674 9007.952593 6522.227745 10005.84584 9463.844197 8757.250505 8753.559411 1.1416586 0.955337113 1.046154941 1.018766111 1.029061685 0.74509436 1.143060253 1.081142396 1.000421668 1 13.09565406 -7.245010967 24.8149607 1.066894343 1.001461078 0.026484042 0.105732078 1594.40936 2408340.235 0.018057815 0.022079892 5.69E-08 7.245010967 -0.065433265 NDSPT(ph)QIPVSSDVCR ddPTM_HeLa_SAHA_4h_R1 1 NDSPTQIPVSSDVCR 15 0 Q8TC07-2;Q8TC07-3;Q8TC07 Q8TC07-2 TBC1D15 TBC1 domain family member 15 1 0 NDS(0.459)PT(0.541)QIPVSSDVCR 232.73 1.09E-24 25390000 962.33 628.05 577.85 1001.6 803.83 764.12 796.23 743.69 611.51 937.64 TRUE FALSE FALSE 1063.552285 648.3992321 656.5963887 1020.987416 742.2407191 699.0126772 706.6361048 724.6674867 607.2544521 978.0662491 1.087403114 0.662939993 0.671320976 1.043883701 0.758885934 0.714688476 0.722482864 0.740918611 0.620872515 1 9.933788379 -7.268399717 24.89416048 1.041273697 0.763716292 0 0.16804825 254.0176245 908511.2732 0.018060891 0.02088921 5.39E-08 7.268399717 -0.277557405 NDSVIVADQT(ph)PTPTR ddPTM_HeLa_SAHA_4h_R1 1 NDSVIVADQTPTPTR 15 0 E9PEK8;H7C2N6;B8ZZU6;E9PBF9;P15336-3;P15336-7;P15336-5;P15336 E9PEK8 ATF2 Cyclic AMP-dependent transcription factor ATF-2 1 0 NDSVIVADQT(0.988)PT(0.011)PT(0.001)R 115.31 0.0022169 1906300 338.1 627.5 308.83 273.42 412.6 404.26 452.56 298.95 268.39 457.64 TRUE FALSE FALSE 373.6629093 647.8314117 350.9157441 278.7124395 380.9866771 369.8147737 401.6367577 291.3032919 266.5222521 477.3711 0.782751426 1.357081339 0.73510052 0.583848581 0.798093301 0.774690327 0.841351221 0.610223978 0.5583125 1 8.898967418 -6.580285274 24.99999958 0.934594056 0.727876325 0.193059627 0.200499885 82.75401771 36038.16388 0.026422684 0.037367321 2.63E-07 6.580285274 -0.20671773 NDSVIVADQTPT(ph)PTR ddPTM_HeLa_SAHA_4h_R1 4 NDSVIVADQTPTPTR 15 0 E9PEK8;H7C2N6;B8ZZU6;E9PBF9;P15336-3;P15336-7;P15336-5;P15336 E9PEK8 ATF2 Cyclic AMP-dependent transcription factor ATF-2 1 0 NDSVIVADQT(0.053)PT(0.945)PT(0.001)R;NDSVIVADQTPT(0.961)PT(0.038)R;NDSVIVADQT(0.088)PT(0.908)PT(0.004)R;NDSVIVADQTPT(0.955)PT(0.045)R ;;; 185.99 1.50E-08 22564500 6490.22 7197.5 6447.68 4355.83 6375.7 7087.91 6044.63 5522.92 6952.84 7985.5 TRUE FALSE FALSE 7172.891118 7430.703722 7326.336252 4440.143388 5887.195243 6483.980193 5364.472324 5381.651703 6904.45462 8329.793985 0.861112667 0.892063325 0.879533907 0.533043602 0.706763607 0.77840823 0.644010204 0.646072606 0.828886601 1 13.0240651 -6.894158837 0.425413002 0.98663852 0.633385788 0.508880657 0.094679759 0.463227629 0.200634047 0.037771017 0.061983359 1.28E-07 6.894158837 -0.353252731 NDSWGS(ph)FDLR ddPTM_HeLa_SAHA_4h_R1 1 NDSWGSFDLR 10 0 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 NDS(0.081)WGS(0.919)FDLR 136.01 0.0013179 4406400 1382.5 1293 1218.7 1245.4 1610.2 1155.9 1802.8 1529.5 1333.6 1298.3 TRUE FALSE FALSE 1527.917693 1334.894048 1384.778089 1269.506518 1486.826824 1057.410817 1599.944199 1490.377605 1324.319369 1354.276067 1.128217304 0.985688281 1.022522751 0.937406005 1.097875729 0.78079414 1.181401812 1.100497632 0.977879918 1 10.40330614 -7.21788805 24.95806537 1.060547129 1.013021522 0 0.108980712 1304.021156 747298.8983 0.017693347 0.021669803 6.05E-08 7.21788805 -0.047525607 NDSWGSFDLR ddPTM_HeLa_SAHA_4h_R1 2 NDSWGSFDLR 10 0 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 0 0 ; ; 137.46 0.0075106 6934400 2618.9 2639.8 2914.6 3143.1 2933.1 2967.3 2730.1 2696.3 2704.9 2557.7 FALSE FALSE TRUE 2894.367918 2725.331252 3311.786509 3203.939245 2708.366512 2714.469346 2422.901963 2627.33255 2686.076381 2667.974964 1.084855727 1.021498061 1.24131094 1.200888048 1.015139403 1.017426844 0.908142691 0.984766568 1.006784703 1 11.38152941 -5.099335074 2.492514177 1.066309447 0.948583201 0.297141183 0.080579335 0.337936259 4.050487607 0.012824194 0.041837568 7.96E-06 5.099335074 -0.117726246 NEAIQAAHDAVAQEGQCR ddPTM_HeLa_SAHA_4h_R1 2 NEAIQAAHDAVAQEGQCR 18 0 D6R974;D6R956;P09936 D6R974 UCHL1 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase isozyme L1 0 0 ; ; 135.79 0.0001255 20325500 6015.7 4106.8 4278 5516.7 4570.7 6704.5 5442.3 5566.2 5933.3 5542.8 FALSE FALSE TRUE 6648.458927 4239.863015 4860.983561 5623.483706 4220.493953 6133.238882 4829.918081 5423.824664 5892.009682 5781.777234 1.149898839 0.733314834 0.840742105 0.972621995 0.729964816 1.060787822 0.835369106 0.938089526 1.019065496 1 12.49729731 -7.273171309 24.99696014 1.070785563 0.875852169 0.397715818 0.10288595 505.0958835 1076194.309 0.017614153 0.020228214 5.33E-08 7.273171309 -0.194933394 NEALAALLRDGETLEELMK ddPTM_HeLa_SAHA_4h_R1 1 NEALAALLRDGETLEELMK 19 1 P13797-3;P13797;A0A0A0MSQ0;P13797-2 P13797-3 PLS3 Plastin-3 0 0 61.226 0.018162 2207200 599 798.48 1496.5 2418.8 1390.8 2070.1 1322.1 823.72 1342 1589.3 FALSE FALSE TRUE 662.0055683 824.3512759 1700.435227 2465.619372 1284.237204 1893.715834 1173.333828 802.6504351 1332.660913 1657.822501 0.399322345 0.497249419 1.025704034 1.487263788 0.774653019 1.142291067 0.707756004 0.484159453 0.803862242 1 10.69507383 -6.743773849 24.99114363 0.691988744 0.953520297 0.156898717 0.294853183 412.3753964 583379.5653 0.054447812 0.076903144 1.80E-07 6.743773849 0.261531553 NEDS(ph)GSETAYLENR ddPTM_HeLa_SAHA_4h_R1 1 NEDSGSETAYLENR 14 0 J3QT39;Q49A88-5;Q49A88 J3QT39 CCDC14 Coiled-coil domain-containing protein 14 1 0 NEDS(0.839)GS(0.16)ET(0.001)AYLENR 234.82 1.03E-24 6670200 410.17 294.89 365.03 382.14 196.48 400.68 283.61 383.15 367.74 232.45 TRUE FALSE FALSE 453.3135625 304.4446295 414.7743874 389.5368723 181.4257448 366.5398098 251.6974564 373.3495778 365.1808674 242.4720571 1.869549704 1.25558645 1.710606956 1.606522735 0.748233619 1.511678559 1.038047268 1.539763312 1.506074027 1 7.921674688 NEDSGS(ph)ETAYLENR ddPTM_HeLa_SAHA_4h_R1 1 NEDSGSETAYLENR 14 0 J3QT39;Q49A88-5;Q49A88 J3QT39 CCDC14 Coiled-coil domain-containing protein 14 1 0 NEDS(0.344)GS(0.648)ET(0.008)AYLENR 101.3 0.0043225 6612800 1129.5 617.11 501.18 824.21 922.55 780.64 722.57 1070.9 602.97 758.67 TRUE FALSE FALSE 1248.305992 637.1047689 569.4782004 840.1637764 851.8644183 714.1250802 641.2645219 1043.507929 598.7738827 791.3799765 1.577378793 0.805055457 0.719601477 1.061643965 1.076429078 0.902379516 0.810311786 1.318592787 0.756619956 1 9.628226753 -7.242443226 24.99886162 1.272651111 0.948169539 0 0.263410832 851.5012788 1120573.342 0.043351377 0.053049316 5.72E-08 7.242443226 -0.324481572 NEEDAAELVALAQAVNAR ddPTM_HeLa_SAHA_4h_R1 3 NEEDAAELVALAQAVNAR 18 0 P22314-2;P22314 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 ;; ;; 207.08 5.64E-16 10811160 2167.52 2016.26 2114.75 2275 2394.48 3076.14 2761.11 2363.4 2633.35 2290.67 FALSE FALSE TRUE 2395.509699 2081.588147 2402.937117 2319.035915 2211.01546 2814.035566 2450.422636 2302.94765 2615.024303 2389.431994 1.002543577 0.871164424 1.005652022 0.970538572 0.925330985 1.177700631 1.025525163 0.96380548 1.094412525 1 11.22245199 NEEDEGHSNS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 2 NEEDEGHSNSSPR 13 0 Q14103-3;Q14103;D6RAF8;D6RD83 Q14103-3 HNRNPD Heterogeneous nuclear ribonucleoprotein D0 1 0 NEEDEGHS(0.018)NS(0.491)S(0.491)PR;NEEDEGHS(0.019)NS(0.49)S(0.49)PR ; 116.78 0.00064904 17133000 3949.83 5373.8 4322.9 6764.6 8750.7 14731 9633.7 6534.5 10490.5 13047.4 TRUE FALSE FALSE 4365.291242 5547.914646 4912.002299 6895.538615 8080.223256 13475.83593 8549.690721 6367.356952 10417.49576 13609.93727 0.320742936 0.407637048 0.360912927 0.506654695 0.593700257 0.990146807 0.628194719 0.467846165 0.765433047 1 13.7323728 -9.474434324 1.231434316 0.998326478 0.520835036 0.324169293 0.190784147 0.349290343 0.952829095 0.139113413 0.034666633 3.35E-10 9.474434324 -0.477491442 NEEDEGHSNSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 NEEDEGHSNSSPR 13 0 Q14103-3;Q14103;D6RAF8;D6RD83 Q14103-3 HNRNPD Heterogeneous nuclear ribonucleoprotein D0 1 0 NEEDEGHSNS(0.044)S(0.956)PR 138.98 0.00033562 16657000 3210.6 4025.1 4099 6230.5 6925.9 12077 8845.1 5598.5 8619.3 10550 TRUE FALSE FALSE 3548.305639 4155.515881 4657.590373 6351.100337 6395.239038 11047.97166 7849.826069 5455.298477 8559.31759 11004.86213 0.322430722 0.377607264 0.423230234 0.577117665 0.581128501 1.003917316 0.713305262 0.495717112 0.777775995 1 13.42585345 -4.242172578 21.3914244 0.646594535 0.495716168 0.035891853 0.225981125 2250.79558 2498694.976 0.040993 1.514270449 5.73E-05 4.242172578 -0.150878367 NEEPS(ph)EEEIDAPKPK ddPTM_HeLa_SAHA_4h_R1 7 NEEPSEEEIDAPKPK 15 1 Q9NR30;Q9NR30-2 Q9NR30 DDX21 Nucleolar RNA helicase 2 1 0 NEEPS(1)EEEIDAPKPK;NEEPS(1)EEEIDAPKPK;NEEPS(1)EEEIDAPKPK;NEEPS(1)EEEIDAPKPK;NEEPS(1)EEEIDAPKPK;NEEPS(1)EEEIDAPKPK;NEEPS(1)EEEIDAPKPK ;;;;;; 186.94 3.50E-08 1760987400 28480 22825.95 18451.17 23040.25 25415.9 29164.26 28553.08 28161.24 27386.28 22926.9 TRUE FALSE FALSE 31475.65707 23565.52576 20965.59936 23486.22736 23468.53923 26679.30097 25340.21229 27440.91626 27195.69665 23915.39086 1.316125555 0.985370714 0.87665719 0.982054924 0.981315312 1.115570351 1.059577593 1.147416591 1.137162959 1 14.54565175 NEEPVRS(ph)PER ddPTM_HeLa_SAHA_4h_R1 2 NEEPVRSPER 10 1 Q92922 Q92922 SMARCC1 SWI/SNF complex subunit SMARCC1 1 0 NEEPVRS(1)PER;NEEPVRS(1)PER ; 79.201 0.016114 33878000 3116.4 3423.6 2517.05 3655.1 3996 4548.6 3683.3 3423.4 5064.3 3869.2 TRUE FALSE FALSE 3444.197251 3534.526886 2860.060466 3725.849746 3689.827343 4161.03369 3268.84539 3335.834385 5029.057124 4036.020147 0.853364732 0.8757456 0.708633843 0.923149442 0.914224213 1.03097446 0.809918006 0.826515791 1.246043612 1 11.97871766 -9.209142118 0.925879406 1.000759992 0.869447785 0.356755156 0.112564406 0.634550177 0.969383178 0.055851338 0.015285906 6.18E-10 9.209142118 -0.131312207 NEGMSGLFGLK ddPTM_HeLa_SAHA_4h_R1 1 NEGMSGLFGLK 11 0 H0YA77;H0Y9I8;A0A494BZW6;Q9H799-5;Q9H799 H0YA77 C5orf42 Uncharacterized protein C5orf42 0 0 112.41 0.021453 5081300 798.1 862.75 980.24 838.41 1006.5 891.27 1189 624.04 651.5 861.92 FALSE FALSE TRUE 882.0478198 890.7036661 1113.822002 854.6386379 929.3821874 815.3287819 1055.210591 608.0779604 646.9661585 899.0815893 0.981054256 0.990681687 1.238844189 0.9505685 1.033701722 0.906846266 1.173653874 0.676332346 0.719585593 1 9.812308232 -4.242458693 24.28052001 1.011041792 0.676331903 0.340359949 0.134069482 1706.533868 2182987.098 0.012302178 0.574446816 5.72E-05 4.242458693 -0.334709889 NEGS(ph)ESAPEGQAQQR ddPTM_HeLa_SAHA_4h_R1 1 NEGSESAPEGQAQQR 15 0 H0Y449;P67809;C9J5V9 H0Y449 YBX1 Nuclease-sensitive element-binding protein 1 1 0 NEGS(0.701)ES(0.299)APEGQAQQR 163.34 5.34E-06 17809000 1433.6 2252.5 1220.4 1572.5 1712.6 1970.9 1505.7 1096.9 2483.4 1748 TRUE FALSE FALSE 1584.392626 2325.482478 1386.709756 1602.938011 1581.380958 1802.968232 1336.274673 1068.842886 2466.117817 1823.364835 0.868938896 1.27537969 0.760522376 0.879109864 0.867287187 0.988813757 0.732861931 0.586192552 1.352509257 1 10.83238754 -4.572142409 3.23295664 0.941767244 0.601481927 0.332694216 0.18306083 0.162257472 3.269426055 0.017510934 0.095279288 2.68E-05 4.572142409 -0.340285317 NEGSES(ph)APEGQAQQR ddPTM_HeLa_SAHA_4h_R1 1 NEGSESAPEGQAQQR 15 0 H0Y449;P67809;C9J5V9 H0Y449 YBX1 Nuclease-sensitive element-binding protein 1 1 0 NEGS(0.235)ES(0.765)APEGQAQQR 156.06 1.91E-05 19533000 1289.4 2041.6 1390.7 1471.4 1775 2181.1 1503.3 1233.4 2634.5 1610 TRUE FALSE FALSE 1425.025008 2107.74918 1580.217354 1499.881075 1638.999883 1995.258009 1334.144728 1201.851414 2616.1663 1679.414979 0.84852465 1.255049649 0.940933226 0.893097354 0.975935015 1.188067294 0.794410401 0.71563695 1.557784307 1 10.71374305 -4.541532692 24.94463392 0.966899748 0.735330179 0.118289325 0.224229528 172.6687867 230898.0062 0.017830567 0.066736759 2.87E-05 4.541532692 -0.231569569 NEIIQSPISQVPS(ph)VEK ddPTM_HeLa_SAHA_4h_R1 1 NEIIQSPISQVPSVEK 16 0 Q7Z3T8 Q7Z3T8 ZFYVE16 Zinc finger FYVE domain-containing protein 16 1 0 NEIIQS(0.222)PIS(0.094)QVPS(0.684)VEK 142.4 0.00010709 6764300 2139 2453 2296.7 2115.3 2983.8 3186 2643.4 2163.6 2354.1 2863.5 TRUE FALSE FALSE 2363.989834 2532.478809 2609.682315 2156.24469 2755.181889 2914.534876 2345.957675 2108.258245 2337.717626 2986.959499 0.791436856 0.847845045 0.873691899 0.721886149 0.922403498 0.975753062 0.785399894 0.705820834 0.78264122 1 11.54446196 -9.355368403 0.95430486 1.005404914 0.830377554 0 0.103474553 0.512686028 0.793910349 0.064486744 0.01486807 4.41E-10 9.355368403 -0.17502736 NEKPTQSVS(ph)SPEATSGSTGSVEK ddPTM_HeLa_SAHA_4h_R1 1 NEKPTQSVSSPEATSGSTGSVEK 23 1 H0YE68;Q9BZ95-3;Q9BZ95-4;Q9BZ95-2;Q9BZ95-5;Q9BZ95 H0YE68 WHSC1L1 Histone-lysine N-methyltransferase NSD3 1 0 NEKPTQSVS(0.627)S(0.062)PEAT(0.259)S(0.052)GSTGSVEK 123.21 4.99E-06 6729100 1285.4 1185.4 815.75 792.28 1021.8 1396.7 1293.1 1408.6 1092.9 1132.6 TRUE FALSE FALSE 1420.60427 1223.807738 926.9161618 807.6157251 943.5099047 1277.693302 1147.596985 1372.570052 1085.29442 1181.431929 1.20244276 1.035868177 0.784570096 0.68359057 0.798615546 1.081478561 0.971361072 1.161785134 0.918626282 1 10.20632079 -6.982925059 18.76755417 1.096837843 0.90831918 0.109856401 0.151110701 14.65487447 16105.78271 0.025652077 0.033692696 1.04E-07 6.982925059 -0.188518663 NELESYAYSLK ddPTM_HeLa_SAHA_4h_R1 4 NELESYAYSLK 11 0 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 ;;; ;;; 227.36 1.49E-43 43269860 5015.99 4935.91 4632.28 5042.45 5542.06 6294.5 5087.37 6297.93 6070.52 5390.95 FALSE FALSE TRUE 5543.594842 5095.836723 5263.542995 5140.053911 5117.42856 5758.173188 4514.925738 6136.83807 6028.274757 5623.380237 0.985811844 0.906187472 0.936010508 0.91405057 0.910027127 1.023970094 0.802884662 1.091307685 1.072001982 1 12.45722189 -7.392262233 6.026212193 0.993799614 0.936260173 0.159381971 0.07601098 0.335493238 15.08196028 0.01080232 0.012290991 4.05E-08 7.392262233 -0.057539441 NELMYQLEQDHDLQAILQER ddPTM_HeLa_SAHA_4h_R1 2 NELMYQLEQDHDLQAILQER 20 0 Q08211 Q08211 DHX9 ATP-dependent RNA helicase A 0 0 ; ; 146.15 0.00023024 3675100 1320.44 1374.52 1424.36 2023.33 2057.65 1155.59 1699.54 964.47 1697.89 1456.58 FALSE FALSE TRUE 1459.329938 1419.05535 1618.464363 2062.494478 1899.993302 1057.127231 1508.303286 939.8002539 1686.074245 1519.380292 0.960477074 0.933969828 1.065213476 1.357457701 1.250505427 0.695762105 0.992709524 0.618541822 1.109711804 1 10.5692673 -3.812300501 1.159521968 1.017957712 3.68E-07 0.35994736 0.169870967 3.749828797 2.025848851 0.025779549 5.949645077 0.000154063 3.812300501 -1.017957344 NELQEPCDS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 NELQEPCDSPK 11 0 O94913 O94913 PCF11 Pre-mRNA cleavage complex 2 protein Pcf11 1 0 NELQEPCDS(1)PK;NELQEPCDS(1)PK ; 185.66 1.46E-22 10787000 5247.8 5606.7 4728.3 5424.7 5119.4 5948.2 4343.8 4075.3 6605.4 5570.8 TRUE FALSE FALSE 5799.787682 5788.360759 5372.6481 5529.702913 4727.152678 5441.379896 3855.024192 3971.059727 6559.432484 5810.984451 0.998073172 0.996106737 0.924567626 0.951594856 0.813485687 0.936395535 0.663402944 0.683371253 1.128798836 1 12.50456688 -4.163932248 0.477643259 1.003132174 0.359853302 0.772577653 0.066639421 1.204929586 0.172416272 0.010318443 0.443974394 6.86E-05 4.163932248 -0.643278872 NENLAANFLLQQNFDED ddPTM_HeLa_SAHA_4h_R1 1 NENLAANFLLQQNFDED 17 0 P54727;P54727-2 P54727 RAD23B UV excision repair protein RAD23 homolog B 0 0 97.551 0.020394 5360500 848.9 1290.7 985.7 916.24 1134.9 1066.4 868.65 668.96 1060.5 904.75 FALSE FALSE TRUE 938.1911969 1332.519527 1120.026063 933.9751501 1047.944207 975.5367206 770.9072158 651.8489718 1053.119894 943.7582002 0.99410124 1.411928952 1.186772271 0.989633944 1.11039481 1.033672312 0.81684823 0.690694896 1.115878934 1 9.882273465 -4.638987642 2.777836605 1.050815399 0.70327391 0.521013632 0.129187119 0.201918472 2.928422903 0.019968931 0.108528642 2.30E-05 4.638987642 -0.347541488 NENLAANFLLSQNFDDE ddPTM_HeLa_SAHA_4h_R1 1 NENLAANFLLSQNFDDE 17 0 P54725-2;P54725-3;P54725;K7EQ16 P54725-2 RAD23A UV excision repair protein RAD23 homolog A 0 0 113.25 0.0010374 0 325.41 611.19 524.07 471.05 508.65 610.79 574.24 380.97 715.7 632.05 FALSE FALSE TRUE 359.6381168 630.992957 595.4875304 480.1678539 469.6773469 558.7472558 509.6250039 371.225339 710.7193854 659.3007687 0.545484146 0.957063888 0.903210733 0.728298641 0.712387076 0.847484611 0.772978022 0.563059163 1.077989621 1 9.364792953 -9.652095402 1.496562349 0.999710041 0.733016293 0.420976566 0.129169998 0.380230102 1.534225858 0.099811564 0.022629156 2.23E-10 9.652095402 -0.266693748 NENQLIIFADDTYPR ddPTM_HeLa_SAHA_4h_R1 1 NENQLIIFADDTYPR 15 0 Q15393;Q15393-3 Q15393 SF3B3 Splicing factor 3B subunit 3 0 0 175.15 2.97E-06 2877400 1268.7 1025.7 1060.6 1261.8 1416.4 1280.8 1346.4 1333.5 1173.9 1139.1 FALSE FALSE TRUE 1402.147687 1058.933353 1205.133045 1286.223964 1307.875738 1171.668634 1194.899528 1299.391001 1165.730734 1188.212176 1.18004824 0.891198874 1.014240612 1.082486773 1.100708918 0.986076947 1.00562808 1.093568159 0.981079607 1 10.21457676 -7.292458755 24.99962958 1.085022766 1.027340944 0 0.07794442 1284.547806 1035259.845 0.014844162 0.016976431 5.10E-08 7.292458755 -0.057681822 NENTEGS(ph)PQEDGVELEGLK ddPTM_HeLa_SAHA_4h_R1 1 NENTEGSPQEDGVELEGLK 19 0 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 1 0 NENT(0.126)EGS(0.874)PQEDGVELEGLK 107.58 0.00076376 3258500 1107.2 1487.6 884.96 985.23 1440.2 1785 1268.6 1559.3 1536 1498.8 TRUE FALSE FALSE 1223.660376 1535.799216 1005.55774 1004.300551 1329.852187 1632.907958 1125.853789 1519.415364 1525.310851 1563.420603 0.782681496 0.982332722 0.643178002 0.642373875 0.850604236 1.04444572 0.720122139 0.971853231 0.975624121 1 10.61049024 -9.365425271 0.92163826 1.007708927 0.823016431 0.184016087 0.132283951 0.844954428 1.19528322 0.110926256 0.024334859 4.31E-10 9.365425271 -0.184692496 NEPT(ph)LPREFT(ph)RRGR ddPTM_HeLa_SAHA_4h_R1 1 NEPTLPREFTRRGR 14 3 X6RIA0;Q6ZRI8-3;Q6ZRI8-5;Q6ZRI8-2;Q6ZRI8-4;Q6ZRI8 X6RIA0 ARHGAP36 Rho GTPase-activating protein 36 2 0 NEPT(1)LPREFT(1)RRGR 55.782 0.0087314 0 502.34 426.5 600.09 601.9 721.58 809.27 433.93 550.04 590.95 672.34 TRUE FALSE FALSE 555.178426 440.3188798 681.8671401 613.5506449 666.2926963 740.3156432 385.1030544 535.9707732 586.8375308 701.3278678 0.791610389 0.627835995 0.972251598 0.874841387 0.950044518 1.055591368 0.549105593 0.764222838 0.83675205 1 9.453945245 -9.271366263 1.040023849 0.998396486 0.825314552 0.01563209 0.153886671 0.770646383 1.515357959 0.095434908 0.026915459 5.35E-10 9.271366263 -0.173081934 NES(ph)LTATDGLR ddPTM_HeLa_SAHA_4h_R1 1 NESLTATDGLR 11 0 H0Y507;Q5TCZ1-2;Q5TCZ1-3;Q5TCZ1 H0Y507 SH3PXD2A SH3 and PX domain-containing protein 2A 1 0 NES(0.938)LT(0.05)AT(0.012)DGLR 84.297 0.020168 7256200 3210.5 4692.1 3570.3 4112.1 4818.1 5693.7 4196 3567.3 6401.5 4183.8 TRUE FALSE FALSE 3548.19512 4844.127119 4056.841891 4191.695642 4448.938219 5208.564728 3723.855037 3476.053631 6356.95144 4364.184093 0.813025996 1.109973139 0.929576252 0.960476358 1.019420383 1.19347961 0.853276342 0.796495647 1.456618535 1 12.09149624 -7.276649605 24.68361366 0.911706729 0.982473939 0 0.207646084 1575.35292 2556524.363 0.021743106 0.024915117 5.29E-08 7.276649605 0.070767209 NESSDSALGDS(ph)ESEDTGHDMTR ddPTM_HeLa_SAHA_4h_R1 1 NESSDSALGDSESEDTGHDMTR 22 0 A0A087WX11;J3KNG8;Q8TF40-3;Q8TF40 A0A087WX11 FNIP1 Folliculin-interacting protein 1 1 0 NESSDSALGDS(0.998)ES(0.002)EDTGHDMTR 120.4 1.50E-05 4886000 1426.6 1587.4 1483 1363.3 1592.1 2069.9 1842.9 1669.3 1095 1742.2 TRUE FALSE FALSE 1576.656333 1638.832802 1685.095517 1389.688643 1470.113642 1893.532875 1635.532042 1626.601723 1087.379806 1817.314768 0.86757471 0.901788083 0.927244716 0.764693419 0.808948272 1.041939959 0.899971799 0.895057781 0.59834423 1 10.82759261 -9.308516779 0.895555809 1.004209767 0.887508309 0 0.143270095 0.718920317 0.973290125 0.057663333 0.013349847 4.91E-10 9.308516779 -0.116701457 KDESFLGK(ac)LGGTLAR ddPTM_HeLa_SAHA_4h_R1 2 KDESFLGKLGGTLAR 15 2 Q9HBI1 Q9HBI1 PARVB Beta-parvin 0 1 ; KDESFLGK(1)LGGTLAR;KDESFLGK(1)LGGTLAR 142.19 4.63E-05 6799600 1290.87 1395.95 1706.29 4093.06 5326.7 7655.7 8116.7 6452.7 1232.96 789.17 FALSE TRUE FALSE 1426.649629 1441.179696 1938.814315 4172.287095 4918.569397 7003.39129 7203.387554 6287.649277 1224.379731 823.1949808 1.733064052 1.750714873 2.355230973 5.068406869 5.974974959 8.507572876 8.750524143 7.638104488 1.487350822 1 9.685090376 -5.936067343 1.074212255 1.321114495 8.511670374 0.97502384 0.467646086 0.050634404 0.114909585 0.080875756 0.208856979 1.16E-06 5.936067343 7.190555879 up NEVNGTSEDIKSEGDTQS(ph)N ddPTM_HeLa_SAHA_4h_R1 2 NEVNGTSEDIKSEGDTQSN 19 1 O95232 O95232 LUC7L3 Luc7-like protein 3 1 0 NEVNGTSEDIKS(0.003)EGDT(0.009)QS(0.988)N;NEVNGTSEDIKS(0.046)EGDT(0.024)QS(0.93)N ; 138.28 0.00034461 11199400 2648.63 3668.5 2363.01 2539.56 2905.27 4012 2770.86 2559.1 4480 3009.33 TRUE FALSE FALSE 2927.225056 3787.361807 2685.028697 2588.716856 2682.66884 3670.155029 2459.07554 2493.641928 4448.823315 3139.076944 0.932511406 1.206520858 0.855356127 0.824674547 0.854604359 1.169182882 0.783375363 0.794387004 1.417239333 1 11.61612468 NFATSLYSMIK ddPTM_HeLa_SAHA_4h_R1 1 NFATSLYSMIK 11 0 P08758;D6RBL5;D6RBE9 P08758 ANXA5 Annexin A5;Annexin 0 0 117.25 0.007153 208240 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 NFDFEGSLS(ph)PVIAPK ddPTM_HeLa_SAHA_4h_R1 2 NFDFEGSLSPVIAPK 15 0 H0Y564;Q9H1A4 H0Y564 ANAPC1 Anaphase-promoting complex subunit 1 1 0 NFDFEGS(0.289)LS(0.711)PVIAPK;NFDFEGS(0.015)LS(0.985)PVIAPK ; 174.4 5.34E-07 63149000 5465.6 5856.3 5632.8 5708.3 6590.7 3571.6 7542 6193.7 5745.8 6707.2 TRUE FALSE FALSE 6040.496885 6046.047962 6400.40865 5818.792401 6085.72199 3267.279587 6693.354311 6035.274122 5705.81451 6996.380216 0.863374588 0.864168009 0.914817156 0.831686132 0.86983866 0.466995716 0.956688188 0.862628093 0.815538083 1 12.77239298 -8.611402955 0.278818081 1.056919019 0.779682194 0.009294083 0.136088099 3.222042244 0.504735534 0.321028284 0.105552668 2.45E-09 8.611402955 -0.277236825 NFEDVAFDEK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 NFEDVAFDEKK 11 1 P07237;H7BZ94;H0Y3Z3 P07237 P4HB Protein disulfide-isomerase 0 1 ; NFEDVAFDEK(1)K;NFEDVAFDEK(1)K 167.3 3.41E-11 2282110 422.08 1792.8 864.21 686.92 1374.65 1164.45 1373.71 1201.51 926.54 363.65 FALSE TRUE FALSE 466.476311 1850.887896 981.9800382 700.2163299 1269.324614 1065.232309 1219.136535 1170.777114 920.0921327 379.3287312 1.229741574 4.879377026 2.588730981 1.845935392 3.346239053 2.808203601 3.213931441 3.0864446 2.425579865 1 8.567304838 -7.462729809 19.11486926 1.101350865 3.043545952 0.391575229 0.833854817 9.540268357 3031.760413 0.118176221 0.135057037 3.45E-08 7.462729809 1.942195087 NFEHLNSDFDR ddPTM_HeLa_SAHA_4h_R1 3 NFEHLNSDFDR 11 0 P48163 P48163 ME1 NADP-dependent malic enzyme 0 0 ;; ;; 167.11 0.00014319 14010700 10356 11647.6 8967.5 11619.8 15743.9 13763.1 14503.6 7514.8 11686.9 10975.8 FALSE FALSE TRUE 11445.2916 12024.98988 10189.5442 11844.71803 14537.60578 12590.40645 12871.61676 7322.582297 11605.56991 11449.02045 0.999674308 1.050307311 0.889992663 1.034561697 1.269768522 1.099692895 1.124254849 0.639581554 1.013673612 1 13.48293655 -6.008924536 24.91551081 0.995432589 1.05801069 0.008415998 0.155096879 1301.224317 3632768.873 0.021865854 0.038179421 9.80E-07 6.008924536 0.062578101 NFELVDSSPCK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 NFELVDSSPCKK 12 1 A0A087WUU7;Q96GX5-2;Q96GX5-3;Q96GX5 A0A087WUU7 MASTL Serine/threonine-protein kinase greatwall 0 1 NFELVDSSPCK(1)K 127.37 0.00037088 693620 136.92 206.74 129.05 304.53 296.17 287.94 221.03 209.72 140.12 138.19 FALSE TRUE FALSE 151.3218738 213.4385116 146.6362619 310.4246185 273.4775186 263.4058921 196.1591227 204.3556661 139.1448935 144.1480472 1.049767075 1.480689581 1.017261522 2.153512479 1.897198914 1.827328897 1.360817066 1.417679046 0.965291561 1 7.171407482 -6.678298782 1.575822186 1.032266374 1.704447348 0.510007308 0.281847241 0.214129742 1.079116457 0.048580965 0.073739284 2.10E-07 6.678298782 0.672180974 NFGEDMDDER ddPTM_HeLa_SAHA_4h_R1 3 NFGEDMDDER 10 0 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YAR2;Q9H361;H0YBN4 P11940 PABPC1;PABPC3 Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 3 0 0 ;; ;; 185.33 8.27E-06 29226500 5419.4 5856 3908.4 4983.2 6587.1 7209.4 5841.5 5100.9 8153.2 5464.8 FALSE FALSE TRUE 5989.437357 6045.738242 4441.016398 5079.657042 6082.397821 6595.118561 5184.199046 4970.426364 8096.461217 5700.414272 1.050702119 1.06057875 0.779069062 0.891103137 1.067009787 1.156954257 0.909442507 0.871941253 1.420328564 1 12.47685105 NFGEDMDDERLK ddPTM_HeLa_SAHA_4h_R1 2 NFGEDMDDERLK 12 1 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YAR2;Q9H361;H0YBN4 P11940 PABPC1;PABPC3 Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 3 0 0 ; ; 153.81 0.00042169 21890800 3848.4 3650.8 3120.09 4153.5 4513.5 4521.2 4086.8 3588.19 4403.1 3618.61 FALSE FALSE TRUE 4253.192369 3769.088315 3545.279616 4233.896999 4167.676605 4135.968324 3626.942508 3496.409295 4372.458469 3774.625986 1.126785113 0.998532922 0.939239975 1.12167325 1.104129686 1.095729309 0.960874672 0.926292912 1.158381912 1 11.88211798 -4.640984793 5.313587646 1.057438409 0.934986107 0.357166778 0.066114061 0.175767688 7.262500984 0.00939575 0.037056878 2.29E-05 4.640984793 -0.122452302 NFGIGQDIQPK ddPTM_HeLa_SAHA_4h_R1 1 NFGIGQDIQPK 11 0 P62424;Q5T8U3 P62424 RPL7A 60S ribosomal protein L7a 0 0 164.33 1.85E-07 1384400 1278.1 1160.4 1106.3 1094.5 1249.4 1340.1 1416.5 1299.7 1320.6 1026.2 FALSE FALSE TRUE 1412.536422 1197.997721 1257.060803 1115.68563 1153.671242 1225.915941 1257.111692 1266.455556 1311.409837 1070.444504 1.319579312 1.119159113 1.174335332 1.042263869 1.077749699 1.145240072 1.174382873 1.18311183 1.225107731 1 10.06399429 -9.702764318 1.603503649 1.000292762 1.176669461 0 0.0998264 0.354578558 1.64882607 0.065033648 0.014446148 1.98E-10 9.702764318 0.176376699 NFILDQTNVSAAAQR ddPTM_HeLa_SAHA_4h_R1 2 NFILDQTNVSAAAQR 15 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;Q5RI18;A0A1W2PP34;A0A1W2PPH7;A0A1W2PPL4;A0A1W2PQL0;A0A1W2PQ74;A0A1W2PQD4;A0A1W2PRZ7 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 0 ; ; 260.5 2.10E-70 2867800 833.63 1046.39 1091.62 922.76 1001.76 968.69 812.24 1009.1 971.28 1267.89 FALSE FALSE TRUE 921.3150282 1080.293723 1240.380289 940.6213541 925.0053652 886.1521623 720.8446175 983.2886832 964.5207834 1322.554943 0.696617583 0.816823322 0.937866737 0.711215333 0.699407892 0.67003051 0.545039449 0.743476623 0.729285984 1 10.36911194 -13.52287875 0.16733266 2.109713871 0.637285601 0.07962797 0.120513628 33.38387578 0.366772222 12.18179446 0.165180787 3.00E-14 13.52287875 -1.47242827 NFINNPLAQADWAAK ddPTM_HeLa_SAHA_4h_R1 1 NFINNPLAQADWAAK 15 0 P35579;Q5BKV1;B1AH99 P35579 MYH9 Myosin-9 0 0 196.7 1.95E-23 564650 80.083 268.75 164.42 169.97 320.82 258.83 162.24 238.93 392.17 195.44 FALSE FALSE TRUE 88.50649737 277.4576763 186.8263013 173.2600151 296.2388409 236.7762279 143.9843282 232.8185166 389.440857 203.8663749 0.434139752 1.360978124 0.916415478 0.849870486 1.453103 1.161428549 0.706268154 1.142015287 1.910275087 1 7.671480031 -7.260504923 24.99921848 0.73278822 1.071435489 0 0.446779946 94.23698394 2521105.16 0.048972521 0.058168221 5.49E-08 7.260504923 0.338647269 NFITAEELR ddPTM_HeLa_SAHA_4h_R1 2 NFITAEELR 9 0 O43707;O43707-2;F5GXS2;O43707-3;H7C144 O43707 ACTN4 Alpha-actinin-4 0 0 ; ; 131.12 0.011461 8399400 3057.7 2260.4 2287.8 2801.6 2697.7 3610.8 2946.9 1861.39 3287.1 2806.6 FALSE FALSE TRUE 3379.322915 2333.638443 2599.56947 2855.829019 2491.002809 3303.139526 2615.307056 1813.778339 3264.224803 2927.606261 1.154295562 0.797114856 0.887950509 0.975482618 0.850866745 1.128273146 0.893326091 0.619543127 1.114980811 1 11.51550582 -7.264041735 24.98985959 1.072861793 0.892060399 0.361139039 0.127069189 216.1742805 2075870.72 0.022130452 0.025932278 5.44E-08 7.264041735 -0.180801394 NFLNALTS(ph)PIEYQR ddPTM_HeLa_SAHA_4h_R1 1 NFLNALTSPIEYQR 14 0 E7EPJ7;O75962-5;O75962-4;O75962;E7EWP2;O75962-2 E7EPJ7 TRIO Triple functional domain protein 1 0 NFLNALT(0.091)S(0.909)PIEYQR 101.72 0.0041557 14423000 738.14 742.96 929.01 641.18 1178.8 1325.3 1077.1 763.64 1038 909.33 TRUE FALSE FALSE 815.7809519 767.0323915 1055.610645 653.5909661 1088.480599 1212.376984 955.9018732 744.1071945 1030.776473 948.5356665 0.860042464 0.808648972 1.112884504 0.689052599 1.14753787 1.278156454 1.007765872 0.784479931 1.086702915 1 9.889558212 NFLYAWCGK ddPTM_HeLa_SAHA_4h_R1 1 NFLYAWCGK 9 0 Q08211 Q08211 DHX9 ATP-dependent RNA helicase A 0 0 155.75 1.19E-06 317020 306.87 323.01 285.06 266.97 282.16 357.69 217.61 54.077 214.92 274.98 FALSE FALSE TRUE 339.1479946 333.4757359 323.9064923 272.1375904 260.5409618 327.2127997 193.1239501 52.69378864 213.4243542 286.8357335 1.182377071 1.162601785 1.129240378 0.948757629 0.908328117 1.140767211 0.673291112 0.183707197 0.744064736 1 8.164080954 -4.408979361 2.06788065 1.078679686 0.066983873 0.76969169 0.140728779 0.124894809 0.728746992 0.015196447 0.209262313 3.90E-05 4.408979361 -1.011695813 down NFPNAIEHTLQWAR ddPTM_HeLa_SAHA_4h_R1 1 NFPNAIEHTLQWAR 14 0 P22314-2;P22314 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 88.224 0.010067 680900 281.71 254.28 305 305.52 302.43 227.57 203.99 221.82 248.14 204.88 FALSE FALSE TRUE 311.3415503 262.5188388 346.5638116 311.4337814 279.2578787 208.1797557 181.0365083 216.1461656 246.4131735 213.7133795 1.456818245 1.22836876 1.62162899 1.457249809 1.306693476 0.974107266 0.847099554 1.011383406 1.153007707 1 7.73953342 -5.214902493 5.270655042 1.276478454 0.928621184 0.48918741 0.171400509 0.189491145 12.67572416 0.03181293 0.082039963 6.10E-06 5.214902493 -0.34785727 NFRNPLAK ddPTM_HeLa_SAHA_4h_R1 1 NFRNPLAK 8 1 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 84.916 0.016131 2794300 2359.2 1662.7 2833.8 2067.9 1718.1 1590.1 2288.9 1522.5 816.6 1645.4 FALSE FALSE TRUE 2607.35148 1716.572571 3219.975506 2107.927195 1586.459549 1454.614534 2031.346948 1483.556655 810.9172141 1716.341246 1.519133497 1.000134778 1.876069525 1.228151569 0.924326414 0.847508931 1.183533258 0.864371615 0.472468523 1 10.74512071 -5.816387885 6.001052582 1.283136042 0.963703226 0.04772686 0.360475186 0.230934392 17.46299787 0.04206709 0.077660085 1.53E-06 5.816387885 -0.319432816 NFS(ph)CGSVEFDEADLESLR ddPTM_HeLa_SAHA_4h_R1 1 NFSCGSVEFDEADLESLR 18 0 E9PFQ4;Q86SQ0-2;Q86SQ0-3;Q86SQ0;E9PDY7;G5E9V3;A0A1W2PQ63 E9PFQ4 PHLDB2 Pleckstrin homology-like domain family B member 2 1 0 NFS(1)CGSVEFDEADLESLR 173.21 7.25E-09 2506800 428.61 262.72 368.56 250.41 183.77 472.81 289.54 258.43 271.66 345.37 TRUE FALSE FALSE 473.6931663 271.2323004 418.7854374 255.2570476 169.6895823 432.523928 256.9601972 251.8197348 269.7694959 360.2605909 1.31486257 0.752878076 1.162451425 0.708534472 0.471018997 1.200586295 0.713262021 0.698993288 0.748817669 1 8.492897033 -6.662558907 1.453873791 1.138437129 0.776088628 0.030561117 0.256105594 0.347333734 1.484216937 0.040607518 0.062728576 2.17E-07 6.662558907 -0.362348501 NFS(ph)DNQLQEGK ddPTM_HeLa_SAHA_4h_R1 2 NFSDNQLQEGK 11 0 P37802;P37802-2;X6RJP6 P37802 TAGLN2 Transgelin-2 1 0 NFS(1)DNQLQEGK;NFS(1)DNQLQEGK ; 141.06 0.00087156 23764000 2626.2 2743.9 3137 3164.9 3285.9 3215.4 3733.9 3550.5 3399.1 2994 TRUE FALSE FALSE 2902.435765 2832.80416 3564.494023 3226.161216 3034.135052 2941.429831 3313.751745 3459.683351 3375.445386 3123.085992 0.929348655 0.907052885 1.141337136 1.033004286 0.971518255 0.941834403 1.061050433 1.107777166 1.080804497 1 11.60875658 -6.791549788 24.99999213 0.961235874 1.035317087 0.138981277 0.070512076 224.7090959 186569.973 0.010435579 0.013716037 1.62E-07 6.791549788 0.074081212 NFS(ph)IQVR ddPTM_HeLa_SAHA_4h_R1 2 NFSIQVR 7 0 I3L4X8;H3BM21;P05106-2;P05106-3;P05106 I3L4X8 ITGB3 Integrin beta;Integrin beta-3 1 0 NFS(1)IQVR;NFS(1)IQVR ; 81.784 0.021035 7145300 1385.97 1696.73 1761.61 1675.56 1746.98 493.86 1504.3 1206.25 722.58 1198.58 TRUE FALSE FALSE 1531.752684 1751.705165 2001.673037 1707.992887 1613.12677 451.7803496 1335.032205 1175.395872 717.5515069 1250.25665 1.225150599 1.401076464 1.601009711 1.366113819 1.290236505 0.361350087 1.067806522 0.940123671 0.573923368 1 10.28800856 -5.32760513 24.99988751 1.199927414 0.817554034 0.276396255 0.309089376 170.3921854 64380.16001 0.0381554 0.085318081 4.70E-06 5.32760513 -0.382373379 NFS(ph)MT(ph)RVILMNL ddPTM_HeLa_SAHA_4h_R1 1 NFSMTRVILMNL 12 1 S4R2Y3 S4R2Y3 VPS26A 2 0 NFS(1)MT(1)RVILMNL 78.149 0.0039136 0 174.74 129.59 137.34 338.42 214.55 252.36 309.99 390.84 375.19 345.89 TRUE FALSE FALSE 193.1199549 133.788801 156.05598 344.9706085 198.1112254 230.8575083 275.1091094 380.8428787 372.5790222 360.8030106 0.535250398 0.370808439 0.432524052 0.956118985 0.54908418 0.639843631 0.762491169 1.055542408 1.032638341 1 8.495067567 -2.141943622 22.89595697 0.728822128 86.43308169 0 0.24880607 0 0 0.034962348 0 0.007212011 2.141943622 85.70425956 NFSCGS(ph)VEFDEADLESLR ddPTM_HeLa_SAHA_4h_R1 2 NFSCGSVEFDEADLESLR 18 0 E9PFQ4;Q86SQ0-2;Q86SQ0-3;Q86SQ0;E9PDY7;G5E9V3;A0A1W2PQ63 E9PFQ4 PHLDB2 Pleckstrin homology-like domain family B member 2 1 0 NFS(0.005)CGS(0.995)VEFDEADLESLR;NFS(0.023)CGS(0.846)VEFDEADLES(0.132)LR ; 172.57 7.67E-09 9114400 804.78 1037.65 987.4 778.43 776.57 1126.88 1030.53 1096.68 1237.02 920.02 TRUE FALSE FALSE 889.4304529 1071.270541 1121.95773 793.4976383 717.0693744 1030.863484 914.5720522 1068.628514 1228.411477 959.6865647 0.926792648 1.116271271 1.16908767 0.826829996 0.747191219 1.07416684 0.952990368 1.11351826 1.280013207 1 9.906419486 -3.77987313 1.921292909 0.970508568 1.494215016 0 0.155391619 9.484753739 9.974618773 0.017341089 14.14411838 0.000166007 3.77987313 0.523706449 NFSDNQLQEGK ddPTM_HeLa_SAHA_4h_R1 3 NFSDNQLQEGK 11 0 P37802;P37802-2;X6RJP6 P37802 TAGLN2 Transgelin-2 0 0 ;; ;; 257.09 1.10E-69 26958000 3836.7 3484.1 3524 4000.6 3847.88 4025.5 3685.3 4145.2 3668.3 3220.41 FALSE FALSE TRUE 4240.261709 3596.987126 4004.232368 4078.037398 3553.056266 3682.504753 3270.620345 4039.171786 3642.772002 3359.257635 1.262261538 1.07076846 1.191999186 1.213969823 1.05769091 1.09622576 0.973614024 1.202400121 1.084397923 1 11.71392673 NFTPPS(ph)PFANK ddPTM_HeLa_SAHA_4h_R1 2 NFTPPSPFANK 11 0 K7EJT1;Q9NPG3-2;Q9NPG3 K7EJT1 UBN1 Ubinuclein-1 1 0 NFT(0.085)PPS(0.915)PFANK;NFTPPS(1)PFANK ; 100.02 0.0037108 2514000 1945.94 1580.09 1437.59 1771.86 2016.08 1712.2 1980.93 2518.2 2017.98 1536.73 TRUE FALSE FALSE 2150.622897 1631.285953 1633.497279 1806.156912 1861.608386 1566.310927 1758.030543 2453.78809 2003.936713 1602.985951 1.341635525 1.017654554 1.019034058 1.126745316 1.16133793 0.977120808 1.096722365 1.530760821 1.250127434 1 10.64654607 -4.258679549 24.02472861 1.127452949 1.530761077 0.554748266 0.112102912 112.9373374 983036.1705 0.019608146 0.180216465 5.51E-05 4.258679549 0.403308128 NFVVVMVTK ddPTM_HeLa_SAHA_4h_R1 1 NFVVVMVTK 9 0 P54725-2;P54725-3;P54725;A0A494C0B4;K7ENJ0;K7ELW1;Q5W0S4;P54727;Q5W0S5 P54725-2;P54727 RAD23A;RAD23B UV excision repair protein RAD23 homolog A;UV excision repair protein RAD23 homolog B 0 0 123.88 0.0036936 317880 307.24 529.64 303.92 372.94 305.98 371.43 446.32 254.72 505.22 375.74 FALSE FALSE TRUE 339.5569129 546.8006835 345.3366349 380.158793 282.5358785 339.7820744 396.098899 248.2046312 501.7041329 391.9399902 0.866349241 1.395113275 0.881095687 0.969941324 0.720865147 0.86692372 1.010611085 0.633272025 1.28005344 1 8.614488971 -5.797903875 22.62629216 0.971019875 0.82661087 0.215636097 0.194752035 92.1069952 57152.18515 0.024759778 0.044883054 1.59E-06 5.797903875 -0.144409005 NFYES(ph)DDDQKEK ddPTM_HeLa_SAHA_4h_R1 4 NFYESDDDQKEK 12 1 O00203-3;O00203 O00203-3 AP3B1 AP-3 complex subunit beta-1 1 0 NFY(0.003)ES(0.997)DDDQKEK;NFYES(1)DDDQKEK;NFYES(1)DDDQKEK;NFY(0.006)ES(0.994)DDDQKEK ;;; 171.26 0.00029972 36277600 3802.27 5397.92 3630.6 4662.17 5452.21 5805.42 4863.72 4171.43 6351.07 4795.83 TRUE FALSE FALSE 4202.210204 5572.81615 4125.359261 4752.413042 5034.462848 5310.765556 4316.441425 4064.730861 6306.872387 5002.601702 0.840004952 1.113983579 0.824642757 0.949988291 1.006368915 1.061600717 0.862839315 0.812523383 1.260718475 1 12.28846288 -4.536521995 24.76027205 0.944987343 0.825102297 0.084736447 0.132032574 214.2687188 388863.4013 0.012849141 0.048127677 2.91E-05 4.536521995 -0.119885046 NFYQEHPDLAR ddPTM_HeLa_SAHA_4h_R1 1 NFYQEHPDLAR 11 0 P17844-2;P17844;J3KTA4;J3QRQ7;X6RLV5;J3QR02;J3KRX8;J3KTQ4 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 0 0 185.99 1.37E-06 19893000 3988 3888.7 3504.6 3391.1 3844.1 4261.7 4114.6 3120.2 3388 3058.2 FALSE FALSE TRUE 4407.476138 4014.696431 3982.188637 3456.739644 3549.565888 3898.579184 3651.614379 3040.389802 3364.422632 3190.053968 1.381630587 1.258504236 1.248313877 1.083599111 1.112697755 1.222104461 1.144687336 0.953084127 1.054660098 1 11.63936512 -6.251527196 24.30139099 1.196552481 1.112667107 0.11174632 0.117835057 1177.741534 2887427.377 0.023820707 0.039194217 5.60E-07 6.251527196 -0.083885374 NGAAGPHS(ph)PDPLLDEQAFGDLTDLPVVPK ddPTM_HeLa_SAHA_4h_R1 1 NGAAGPHSPDPLLDEQAFGDLTDLPVVPK 29 0 Q9H3Q1;Q9H3Q1-2 Q9H3Q1 CDC42EP4 Cdc42 effector protein 4 1 0 NGAAGPHS(1)PDPLLDEQAFGDLTDLPVVPK 60.797 0.002392 48850000 1651.5 1621.8 1735.6 1705.7 1691.1 1778.5 2100.6 1875.6 1773.2 1650.3 TRUE FALSE FALSE 1825.212347 1674.347384 1972.118529 1738.71629 1561.528283 1626.961794 1864.23496 1827.624868 1760.860157 1721.452509 1.060274586 0.972636407 1.14561309 1.010028613 0.907099252 0.945109892 1.082943009 1.061676031 1.022892091 1 10.74941067 -6.009375644 24.9139382 1.034086285 0.995979086 0.082475833 0.063681583 1014.945983 2697030.585 0.009836758 0.01715683 9.79E-07 6.009375644 -0.038107199 PEPVK(ac)SAPVPK ddPTM_HeLa_SAHA_4h_R1 2 PEPVKSAPVPK 11 1 Q99879 Q99879 HIST1H2BM Histone H2B type 1-M 0 1 ; PEPVK(1)SAPVPK;PEPVK(1)SAPVPK 169.99 5.66E-11 73215000 3813.7 4772.6 6457.7 13667.9 15603.1 18404.7 22092.9 22021.3 3071.73 3556.5 FALSE TRUE FALSE 4214.842464 4927.235371 7337.721726 13932.46197 14407.59385 16836.51602 19606.94875 21458.02703 3050.353581 3709.83812 1.136125709 1.328153739 1.97790887 3.755544452 3.883617932 4.538342503 5.285122453 5.784087159 0.822233608 1 11.85714052 -5.903414999 0.753354873 0.99342011 5.658396577 0.976525761 0.277157228 0.072361204 0.075940197 0.05335998 0.179023698 1.25E-06 5.903414999 4.664976468 up NGDECAYHHPIS(ph)PCK ddPTM_HeLa_SAHA_4h_R1 2 NGDECAYHHPISPCK 15 0 Q6PJT7;Q6PJT7-5;H0YJA2;Q6PJT7-2;Q6PJT7-9;Q6PJT7-3;Q6PJT7-11;Q6PJT7-4;Q6PJT7-10;G3V256;G3V5I6;G3V411;Q6PJT7-6;Q6PJT7-8;H0YJ51 Q6PJT7 ZC3H14 Zinc finger CCCH domain-containing protein 14 1 0 NGDECAYHHPIS(1)PCK;NGDECAYHHPIS(1)PCK ; 90.581 0.0060507 69367000 11624.2 10932.2 11009.8 12256.6 12218.9 2561.33 12035.4 12162.7 12154.4 10835 TRUE FALSE FALSE 12846.88669 11286.41045 12510.15821 12493.84422 11282.69052 2343.090274 10681.14512 11851.59575 12069.81654 11302.14988 1.13667637 0.998607396 1.106883057 1.105439616 0.998278261 0.207313679 0.94505428 1.048614279 1.067922181 1 13.46430961 -5.498881141 24.93716656 1.066043493 0.72946607 0.34094267 0.209308099 605.7802262 629497.4319 0.028715767 0.063866793 3.17E-06 5.498881141 -0.336577424 NGFSGIK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 NGFSGIKK 8 1 Q5T427;Q7Z4V0-3;Q7Z4V0-2;Q7Z4V0 Q5T427 ZNF438 Zinc finger protein 438 0 1 ; NGFSGIK(1)K;NGFSGIK(1)K 86.833 0.012815 12047000 7182.5 6357.2 17761.6 8982.4 9376.6 2166.13 12612.3 2346.9 619.61 2512.1 FALSE TRUE FALSE 7937.988304 6563.177451 20182.05835 9156.267341 8658.166934 1981.563538 11193.13081 2286.869696 615.2980836 2620.408925 3.029293722 2.504638642 7.701873611 3.494213156 3.304128165 0.756203934 4.271520641 0.872714817 0.234809948 1 11.35557625 -5.376049254 20.47532541 2.658480714 2.169283748 0.028570002 2.084105008 31.74428435 5576.193148 0.308250143 0.689268669 4.21E-06 5.376049254 -0.489196966 NGFVVLK ddPTM_HeLa_SAHA_4h_R1 2 NGFVVLK 7 0 I3L397;I3L504;P63241;P63241-2;F8WCJ1;C9J7B5;C9J4W5;Q9GZV4;Q6IS14 I3L397 EIF5A;EIF5A2;EIF5AL1 Eukaryotic translation initiation factor 5A;Eukaryotic translation initiation factor 5A-1;Eukaryotic translation initiation factor 5A-2;Eukaryotic translation initiation factor 5A-1-like 0 0 ; ; 107.66 0.01468 7536900 4824.2 5184.2 4688.2 4749.7 5514 5431.7 5104.1 3738.2 4586.3 4738.6 FALSE FALSE TRUE 5331.63149 5352.171481 5327.083481 4841.637312 5091.518511 4968.888602 4529.773235 3642.582257 4554.383565 4942.904236 1.078643493 1.082798943 1.077723384 0.979512667 1.030066185 1.005256903 0.91641938 0.736931586 0.921398301 1 12.27114324 -3.84201282 0.998358533 1.0416892 0.292328355 0.757953408 0.049166005 1.03034622 0.449878154 0.005963824 1.009610043 0.000143876 3.84201282 -0.749360845 NGFVVLK(ac)GRPCK ddPTM_HeLa_SAHA_4h_R1 1 NGFVVLKGRPCK 12 2 I3L397;I3L504;P63241;P63241-2;F8WCJ1;C9J7B5;C9J4W5;Q9GZV4 I3L397 EIF5A;EIF5A2 Eukaryotic translation initiation factor 5A;Eukaryotic translation initiation factor 5A-1;Eukaryotic translation initiation factor 5A-2 0 1 NGFVVLK(1)GRPCK 102.4 0.0046168 3329000 725.49 760.78 840.99 807.31 943.72 1270.9 1106.7 769.78 1029.5 787.65 FALSE TRUE FALSE 801.8003669 785.4297712 955.5957375 822.9366524 871.4123775 1162.61217 982.1712033 750.0901422 1022.335626 821.6094462 0.975889908 0.955964875 1.163077837 1.001615374 1.060616308 1.415042361 1.195423456 0.912952189 1.24430851 1 9.682308958 -6.160981666 1.117615414 0.988313761 1.164902118 0 0.151531573 0.498622306 1.2293904 0.021636567 0.046801679 6.90E-07 6.160981666 0.176588357 NGGHFVISIK ddPTM_HeLa_SAHA_4h_R1 2 NGGHFVISIK 10 0 M0R0P1;M0R299;M0QXL5;M0R2Q4;P22087 M0R0P1 FBL rRNA 2-O-methyltransferase fibrillarin 0 0 ; ; 80.916 0.015968 10046000 9209.1 10555.4 10085 12446.4 12620.4 13387.5 13178.2 9228 13273 12433.5 FALSE FALSE TRUE 10177.75539 10897.40189 11459.33128 12687.31807 11653.42768 12246.80968 11695.35425 8991.961122 13180.63211 12969.56903 0.784741217 0.840228527 0.883555286 0.978237445 0.89852081 0.944272678 0.901753499 0.693312253 1.016273716 1 13.66284292 -9.571954019 1.37167338 0.999518657 0.862249993 0.350566462 0.076919494 0.447617039 1.518212423 0.05601559 0.013324589 2.68E-10 9.571954019 -0.137268664 NGGK(ac)LSNDHQQNQSK ddPTM_HeLa_SAHA_4h_R1 1 NGGKLSNDHQQNQSK 15 1 C9JP58;F8WFA4;B7WNX0;B5MCB3;Q4FZB7-4;Q4FZB7-2;Q4FZB7 C9JP58 SUV420H1 Histone-lysine N-methyltransferase SUV420H1 0 1 NGGK(1)LSNDHQQNQSK 124.81 0.0018766 0 0 0 0 0 0 0 0 0 75.899 169.95 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 75.37081268 177.2773762 0 0 0 0 0 0 0 0 0.425157537 1 7.469864624 -9.157829429 0.677150941 1.083625666 2.50E-23 0.689114303 0.174338142 0.066591669 0.049088893 0.041658111 0.0090835 6.95E-10 9.157829429 -1.083625666 NGHVGISFVPK ddPTM_HeLa_SAHA_4h_R1 2 NGHVGISFVPK 11 0 P21333-2;P21333;Q60FE5 P21333-2 FLNA Filamin-A 0 0 ; ; 101.93 0.0034847 12785400 12369.1 19709.5 9627.9 16480 23371 151.95 20658.6 20140.6 19665.6 17721.7 FALSE FALSE TRUE 13670.13869 20348.10073 10939.94007 16798.99423 21580.31903 139.0030052 18334.03996 19625.43262 19528.74549 18485.76921 0.739495259 1.100744064 0.591803346 0.908752784 1.167401734 0.00751946 0.991792105 1.061650851 1.056420496 1 14.17412746 -9.488831238 1.00775235 1.010259377 0.807786937 0.059730931 0.319279605 1.734957954 2.878325344 0.272880132 0.054091348 3.24E-10 9.488831238 -0.202472439 NGIDILVGT(ph)PGR ddPTM_HeLa_SAHA_4h_R1 2 NGIDILVGTPGR 12 0 Q9NR30;Q9NR30-2;A0A087WVC1;Q9BQ39 Q9NR30 DDX21;DDX50 Nucleolar RNA helicase 2;ATP-dependent RNA helicase DDX50 1 0 NGIDILVGT(1)PGR;NGIDILVGT(1)PGR ; 134.37 0.001545 5895100 2831.6 2974.6 2676.7 3489.7 3465.5 3916.4 3289.7 3637.3 3697.1 3160.2 TRUE FALSE FALSE 3129.44068 3070.978992 3041.466736 3557.24819 3199.974139 3582.700687 2919.534298 3544.263133 3671.37158 3296.451688 0.949336128 0.931601395 0.922648661 1.07911431 0.97073291 1.086835491 0.885659665 1.075175209 1.113734381 1 11.68669822 -6.278831804 24.88594357 0.967781863 1.013098943 0.030447648 0.075967524 1237.155647 1770181.862 0.00879651 0.013459348 5.26E-07 6.278831804 0.04531708 NGIGPGSHSEFAASIGS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 NGIGPGSHSEFAASIGSPK 19 0 Q9H694;Q9H694-2;A6NGY7 Q9H694 BICC1 Protein bicaudal C homolog 1 1 0 NGIGPGSHSEFAAS(0.319)IGS(0.681)PK;NGIGPGSHSEFAAS(0.034)IGS(0.966)PK ; 114.66 0.00045716 7155500 3649.2 4118.5 3261 3487.5 4490.3 4440.2 3572.8 3862.8 3990.7 3689.4 TRUE FALSE FALSE 4033.039599 4251.942102 3705.392097 3555.005606 4146.254184 4061.86998 3170.779141 3763.995169 3962.928394 3848.468089 1.047959735 1.104840161 0.962822612 0.923745637 1.077377826 1.055451126 0.823906829 0.978050248 1.029741783 1 11.91006857 -4.774823289 24.9997131 1.023299532 0.900978517 0.398489371 0.061031236 146.4884166 273626.2757 0.008287485 0.025067241 1.68E-05 4.774823289 -0.122321014 NGPSS(ph)SPFSSPASSR ddPTM_HeLa_SAHA_4h_R1 1 NGPSSSPFSSPASSR 15 0 A8CG34-2;A8CG34;C9JFL1;A6NF01;Q96HA1;Q96HA1-2;Q96HA1-3 A8CG34-2;Q96HA1 POM121C;POM121B;POM121 Nuclear envelope pore membrane protein POM 121C;Putative nuclear envelope pore membrane protein POM 121B;Nuclear envelope pore membrane protein POM 121 1 0 NGPS(0.005)S(0.497)S(0.497)PFS(0.001)SPASSR 203.92 1.41E-12 9113100 1853.4 1632.9 1383.8 1377.4 1646.6 2265.3 2062.1 2083.9 1683.3 1347.5 TRUE FALSE FALSE 2048.349116 1685.807031 1572.377057 1404.061569 1520.437864 2072.283696 1830.067081 2030.596855 1671.585778 1405.59732 1.457280181 1.199352765 1.118653995 0.998907403 1.081702307 1.47430823 1.301985324 1.444650489 1.189235178 1 10.45696763 -9.622505095 1.447747279 1.000547215 1.277501443 0.090928473 0.16672592 0.470493203 1.776744856 0.124580523 0.028749334 2.39E-10 9.622505095 0.276954228 NGPSSS(ph)PFSSPASSR ddPTM_HeLa_SAHA_4h_R1 1 NGPSSSPFSSPASSR 15 0 A8CG34-2;A8CG34;C9JFL1;A6NF01;Q96HA1;Q96HA1-2;Q96HA1-3 A8CG34-2;Q96HA1 POM121C;POM121B;POM121 Nuclear envelope pore membrane protein POM 121C;Putative nuclear envelope pore membrane protein POM 121B;Nuclear envelope pore membrane protein POM 121 1 0 NGPSS(0.026)S(0.974)PFSSPASSR 207.21 7.83E-13 11219000 1297.1 1334.9 1119.7 1320.6 1254.6 1617.6 1750.7 1452.1 1201.8 1316 TRUE FALSE FALSE 1433.534929 1378.151636 1272.286885 1346.162123 1158.472819 1479.77138 1553.706628 1414.957385 1193.436576 1372.7392 1.044287895 1.0039428 0.926823452 0.980639383 0.843913264 1.077969784 1.131829431 1.030754701 0.869383329 1 10.42284185 -5.037501996 24.998353 0.99808199 1.087194156 0.270258525 0.072845108 523.01622 348635.5872 0.009088626 0.023178521 9.17E-06 5.037501996 0.089112167 NGS(ph)EADIDEGLYSR ddPTM_HeLa_SAHA_4h_R1 3 NGSEADIDEGLYSR 14 0 P22314-2;P22314;Q5JRR9;Q5JRS0;Q5JRS2;Q5JRS1;Q5JRS3 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 1 0 NGS(1)EADIDEGLYSR;NGS(0.998)EADIDEGLYS(0.002)R;NGS(0.953)EADIDEGLY(0.036)S(0.011)R ;; 178.23 8.90E-07 44488000 2881.59 2948.76 2831.26 2959.21 3114.2 3425.61 3093.94 3499.76 3112.56 3140.07 TRUE FALSE FALSE 3184.688857 3044.301759 3217.089368 3016.489789 2875.590669 3133.728756 2745.801728 3410.241207 3090.899442 3275.453785 0.972289358 0.929429007 0.982181273 0.920937979 0.877921307 0.956731177 0.838296587 1.041150763 0.943655336 1 11.67747908 -7.30407365 0.698762657 0.994417081 0.923588501 0.051968831 0.054409977 0.616680638 0.639263584 0.013047227 0.01508319 4.97E-08 7.30407365 -0.07082858 NGS(ph)LTNHFSFEK ddPTM_HeLa_SAHA_4h_R1 1 NGSLTNHFSFEK 12 0 P22102;A0A140TA71 P22102 GART Trifunctional purine biosynthetic protein adenosine-3;Phosphoribosylamine--glycine ligase;Phosphoribosylformylglycinamidine cyclo-ligase;Phosphoribosylglycinamide formyltransferase 1 0 NGS(0.999)LT(0.001)NHFSFEK 111.06 0.0029019 9556300 968.72 1416.7 1534.4 3337.9 799.65 1070.4 1347.3 2671 1903 1385.6 TRUE FALSE FALSE 1070.614414 1462.60201 1743.500041 3402.509881 738.3809898 979.1958981 1195.698258 2602.679688 1889.756868 1445.339997 0.74073534 1.011943219 1.206290592 2.354124212 0.510870101 0.677484813 0.827278191 1.800738714 1.30748258 1 10.49719319 -6.931416247 4.194911751 0.877364073 1.202590938 0.016607431 0.529022568 0.456091074 16.00255757 0.084527223 0.111591759 1.17E-07 6.931416247 0.325226865 NGS(ph)PGGTGMR ddPTM_HeLa_SAHA_4h_R1 1 NGSPGGTGMR 10 0 H3BRG5;Q9Y3M8-5;Q9Y3M8-3;Q9Y3M8-4;Q9Y3M8-2;Q9Y3M8 H3BRG5 STARD13 StAR-related lipid transfer protein 13 1 0 NGS(1)PGGTGMR 117.95 0.0033597 2451600 1131.7 1416.9 989.96 1968.1 1596.6 2497.6 1457.6 1457.4 1969.9 1918.3 TRUE FALSE FALSE 1250.737398 1462.80849 1124.866593 2006.195421 1474.268853 2284.790429 1293.587012 1420.121818 1956.191306 2001.007301 0.625053891 0.731036058 0.562150169 1.002592754 0.736763355 1.141820136 0.646467912 0.709703467 0.977603282 1 10.96651072 -9.558461504 1.355289528 0.998940184 0.756888334 0.212768351 0.167246397 0.528549651 1.751752925 0.115278408 0.027697039 2.76E-10 9.558461504 -0.24205185 NGS(ph)PNKQPSSEPEWTPEPR ddPTM_HeLa_SAHA_4h_R1 1 NGSPNKQPSSEPEWTPEPR 19 1 Q5JSZ5;A0A494C0D3 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 NGS(1)PNKQPSSEPEWTPEPR 134.08 4.49E-05 42527000 460.39 595.22 433.94 487.27 689.26 650.42 574.33 593.23 615.08 574.08 TRUE FALSE FALSE 508.8159325 614.5055185 493.0750833 496.7018155 636.4490477 595.0005568 509.7048768 578.0560356 610.7996082 598.8313983 0.849681453 1.026174513 0.823395508 0.829451857 1.062818432 0.993602805 0.851165918 0.965306825 1.019985943 1 9.226006057 -3.877554411 19.51109599 0.929129176 9.828355817 0 0.088447994 2413.290712 381172.576 0.012012946 8431.412235 0.00013257 3.877554411 8.899226641 NGS(ph)PPPGAPSSR ddPTM_HeLa_SAHA_4h_R1 3 NGSPPPGAPSSR 12 0 Q9Y3Q8 Q9Y3Q8 TSC22D4 TSC22 domain family protein 4 1 0 NGS(1)PPPGAPSSR;NGS(0.998)PPPGAPS(0.001)S(0.001)R;NGS(1)PPPGAPSSR ;; 108.36 0.0034526 28368500 6941.36 6644.6 6497.36 6921.24 7669.59 6945.78 7375.58 7342.68 7360.61 6730.42 TRUE FALSE FALSE 7671.484093 6859.8894 7382.786384 7055.210608 7081.947671 6353.960468 6545.660327 7154.864878 7309.386916 7020.601344 1.092710399 0.977108522 1.051588891 1.004929672 1.008738045 0.905045046 0.932350379 1.019124221 1.041134022 1 12.77737889 -5.643588948 2.14165079 1.038615812 0.95133149 0.381252751 0.041193503 0.241884101 2.242417819 0.007120456 0.016544211 2.27E-06 5.643588948 -0.087284322 NGS(ph)PTPAGSLGGGAVATAGGPGSR ddPTM_HeLa_SAHA_4h_R1 1 NGSPTPAGSLGGGAVATAGGPGSR 24 0 Q6P1L5;Q6P1L5-2 Q6P1L5 FAM117B Protein FAM117B 1 0 NGS(0.607)PT(0.392)PAGS(0.001)LGGGAVATAGGPGSR 195.94 1.50E-16 20278000 1508.3 1586.6 1196.8 1420.2 1358.1 1531.2 1300.9 1046.3 1696.2 1396.5 TRUE FALSE FALSE 1666.949914 1638.006881 1359.893671 1447.690025 1254.042671 1400.733146 1154.519308 1019.537161 1684.396006 1456.709949 1.144325207 1.124456438 0.933537711 0.993808016 0.86087328 0.96157313 0.792552635 0.699890298 1.156301573 1 10.50849793 -4.675618255 0.562033996 1.06975228 0.57334296 0.75803424 0.070954841 1.054339253 0.297453028 0.015622659 0.310688493 2.11E-05 4.675618255 -0.49640932 NGSEADIDEGLY(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 NGSEADIDEGLYSR 14 0 P22314-2;P22314;Q5JRR9;Q5JRS0;Q5JRS2;Q5JRS1;Q5JRS3 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 1 0 NGS(0.008)EADIDEGLY(0.862)S(0.13)R 166.29 1.62E-05 19279000 2479.4 2303.4 2131.8 2288.1 2365.2 2734.2 2495.9 2997.3 2122.2 2515.2 TRUE FALSE FALSE 2740.194668 2378.031671 2422.310602 2332.389484 2183.978887 2501.230778 2215.054763 2920.633406 2107.431437 2623.642581 1.044423767 0.90638553 0.923262421 0.888989034 0.832422413 0.953342805 0.844266967 1.113197898 0.803246392 1 11.35735548 -7.256929492 24.77991972 1.020977891 0.916457106 0 0.100816552 290.3225188 1595201.114 0.011428289 0.013747215 5.53E-08 7.256929492 -0.104520784 NGSEADIDEGLYSR ddPTM_HeLa_SAHA_4h_R1 2 NGSEADIDEGLYSR 14 0 P22314-2;P22314;Q5JRR9;Q5JRS0;Q5JRS2;Q5JRS1;Q5JRS3 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 ; ; 222.81 3.48E-17 12795500 2170.11 2133.92 2100.83 1934.59 2082.92 2497.3 2186.04 1938.94 1959.15 1794.32 FALSE FALSE TRUE 2398.372127 2203.060408 2387.120172 1972.036787 1923.32712 2284.515991 1940.061026 1889.344722 1945.516116 1871.681916 1.281399422 1.177048509 1.275387741 1.053617481 1.027592938 1.220568501 1.03653351 1.009436863 1.039448049 1 10.87011956 KAK(ac)GK(ac)AQK ddPTM_HeLa_SAHA_4h_R1 1 KAKGKAQK 8 3 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 0 2 K(0.002)AK(0.998)GK(1)AQK 71.877 0.010594 0 1381.6 1229.7 2587.4 5166.4 4261.6 5427.3 8035.8 6476.3 937.35 1288.7 FALSE TRUE FALSE 1526.923027 1269.543087 2939.997397 5266.403143 3935.077129 4964.863507 7131.590635 6310.645624 930.826905 1344.262164 1.135881875 0.944416291 2.187071448 3.917690526 2.92731376 3.693374433 5.305208186 4.69450513 0.692444473 1 10.39259881 -5.900434658 0.672554071 0.97128556 5.058469859 0.888236775 0.538779862 0.18946251 0.153767618 0.109210194 0.396092914 1.26E-06 5.900434658 4.087184299 up NGSMGS(ph)PVNQQPK ddPTM_HeLa_SAHA_4h_R1 3 NGSMGSPVNQQPK 13 0 A0A0A0MRW1;A0A0A0MRV9;Q5T586;A0A0A0MRW2;Q5T593;A0A0A0MRW0;A0A0A0MRW3;Q8IW50-3;Q8IW50-7;Q8IW50-2;Q8IW50-5;Q8IW50-6;Q8IW50-4;Q8IW50 A0A0A0MRW1 FAM219A Protein FAM219A 1 0 NGS(0.34)MGS(0.66)PVNQQPK;NGS(0.002)MGS(0.998)PVNQQPK;NGS(0.086)MGS(0.914)PVNQQPK ;; 125.33 0.00093539 4157200 2367.62 2984.45 2275.95 2481.22 2861.51 2756.96 2757.3 2625.8 2565.85 2866.63 TRUE FALSE FALSE 2616.657135 3081.148138 2586.104613 2529.247601 2642.261722 2522.051498 2447.041347 2558.635838 2547.994041 2990.224448 0.875070477 1.030406978 0.86485301 0.845838714 0.883633241 0.843432171 0.818347047 0.855666818 0.852107955 1 11.54603806 -13.5228787 0.080946598 1.436530312 0.734616432 0.074339083 0.064169036 102.3414057 0.635087968 8.095363413 0.874674782 3.00E-14 13.5228787 -0.701913879 NGSPSLGRDS(ph)PDTMLASPQEEGEGPSSTTESSER ddPTM_HeLa_SAHA_4h_R1 1 NGSPSLGRDSPDTMLASPQEEGEGPSSTTESSER 34 1 Q5VVD7;Q8IWE5 Q5VVD7 PLEKHM2 Pleckstrin homology domain-containing family M member 2 1 0 NGS(0.055)PS(0.129)LGRDS(0.731)PDT(0.077)MLAS(0.008)PQEEGEGPSSTTESSER 62.647 0.00022465 3305500 272.79 385.32 211.9 322.64 290.58 523.6 327.46 414.82 417.94 289.39 TRUE FALSE FALSE 301.4833038 397.8046208 240.7766285 328.8851637 268.3158232 478.9863343 290.613339 404.2095051 415.0315215 301.8670191 0.99872886 1.317814122 0.797624826 1.089503466 0.888854383 1.586746163 0.962719743 1.339031691 1.374881969 1 8.237769332 -5.299889061 24.99997443 1.008912544 1.262821817 0.144464933 0.222684677 463.2938579 301232.8627 0.024066023 0.05381434 5.01E-06 5.299889061 0.253909273 NGSPSLGRDSPDT(ph)MLASPQEEGEGPSSTTESSER ddPTM_HeLa_SAHA_4h_R1 1 NGSPSLGRDSPDTMLASPQEEGEGPSSTTESSER 34 1 Q5VVD7;Q8IWE5 Q5VVD7 PLEKHM2 Pleckstrin homology domain-containing family M member 2 1 0 NGSPS(0.003)LGRDS(0.076)PDT(0.655)MLAS(0.265)PQEEGEGPSSTTESSER 90.742 8.61E-11 4988700 441.84 310.05 336.97 272.79 291.69 516.7 444.29 382.28 350.56 351.29 TRUE FALSE FALSE 488.3147584 320.0958234 382.8905167 278.0702449 269.3407752 472.6742531 394.2973199 372.5018311 348.1204244 366.4358311 1.332606468 0.873538547 1.044904685 0.758851131 0.735028489 1.289923673 1.076033746 1.016554058 0.950017424 1 8.517416771 -7.246090092 24.95034687 1.157064171 0.972663261 0.057760135 0.181341974 1090.956964 1773357.551 0.032771631 0.040053322 5.67E-08 7.246090092 -0.18440091 NGSPT(ph)PAGSLGGGAVATAGGPGSR ddPTM_HeLa_SAHA_4h_R1 1 NGSPTPAGSLGGGAVATAGGPGSR 24 0 Q6P1L5;Q6P1L5-2 Q6P1L5 FAM117B Protein FAM117B 1 0 NGS(0.113)PT(0.887)PAGSLGGGAVATAGGPGSR 263.95 2.21E-59 16128000 1622 1620.5 1492.3 1623.3 1532.2 1657.7 1685.5 1675.1 2015.1 1670.1 TRUE FALSE FALSE 1792.609402 1673.005263 1695.662872 1654.721319 1414.803167 1516.454634 1495.843104 1632.253368 2001.076755 1742.106184 1.028989747 0.96033484 0.973340711 0.94983953 0.812122234 0.870471988 0.858640603 0.936942525 1.148653723 1 10.76661685 -6.231072887 1.562346744 1.01042657 0.869965939 0.612470621 0.056560735 0.135318081 0.646098806 0.005808072 0.010815683 5.87E-07 6.231072887 -0.140460631 NGSTAVAESVAS(ph)PQK ddPTM_HeLa_SAHA_4h_R1 4 NGSTAVAESVASPQK 15 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 NGSTAVAESVAS(1)PQK;NGSTAVAES(0.001)VAS(0.999)PQK;NGSTAVAESVAS(1)PQK;NGSTAVAES(0.001)VAS(0.999)PQK ;;; 224.67 8.61E-20 76494000 8529.5 8973.3 7662 7858.1 8616.7 9809.3 8797.6 8663.9 9462.5 8540.5 TRUE FALSE FALSE 9426.671945 9264.040808 8706.137458 8010.204889 7956.490308 8973.492454 7807.670894 8442.289983 9396.649692 8908.722751 1.058139557 1.039884287 0.977259895 0.899141786 0.89311235 1.007270369 0.876407439 0.947643138 1.054769573 1 13.12100289 -6.532169391 3.813155821 1.028934232 0.925246351 0.669614109 0.037288216 0.110094274 3.553103626 0.006056806 0.008990512 2.94E-07 6.532169391 -0.103687881 NGTSGSDS(ph)PGQAVEAEEIVK ddPTM_HeLa_SAHA_4h_R1 3 NGTSGSDSPGQAVEAEEIVK 20 0 Q05D32 Q05D32 CTDSPL2 CTD small phosphatase-like protein 2 1 0 NGTS(0.001)GS(0.021)DS(0.977)PGQAVEAEEIVK;NGT(0.003)S(0.1)GS(0.001)DS(0.896)PGQAVEAEEIVK;NGTS(0.001)GS(0.004)DS(0.995)PGQAVEAEEIVK ;; 189.84 3.88E-14 23105700 2870.03 2460.93 2410.78 3163.91 3789.83 3610.32 3735.19 3796.21 3077.41 2438.56 TRUE FALSE FALSE 3171.912924 2540.665747 2739.308544 3225.152053 3499.454044 3302.700425 3314.896591 3699.108445 3055.994053 2543.698256 1.246969021 0.998807835 1.076899958 1.267898834 1.375734734 1.298385301 1.30317996 1.454224548 1.201398022 1 11.31271183 -6.095138078 3.599361027 1.106409095 1.348237439 0.673358888 0.083468841 0.142184892 3.431796777 0.015928749 0.02766884 8.03E-07 6.095138078 0.241828344 NGTSSTCQDS(ph)PEKTTLAAK ddPTM_HeLa_SAHA_4h_R1 1 NGTSSTCQDSPEKTTLAAK 19 1 Q9BX63;Q9BX63-2 Q9BX63 BRIP1 Fanconi anemia group J protein 1 0 NGT(0.002)S(0.004)S(0.013)T(0.043)CQDS(0.939)PEKTTLAAK 88.709 0.0014579 9058500 977.83 895.15 904.24 965.52 1055.1 1155.2 916.83 908.52 907.84 863.33 TRUE FALSE FALSE 1080.682646 924.1534473 1027.465118 984.2090358 974.2584659 1056.770461 813.6658754 885.2813739 901.5222675 900.5523813 1.200021973 1.026207322 1.140927657 1.092894823 1.081845416 1.173469176 0.903518654 0.983042622 1.00107699 1 9.814666384 -4.753275503 24.99988392 1.098005428 0.943280598 0.424972562 0.067489967 140.1793799 429254.8355 0.010831344 0.039155796 1.76E-05 4.753275503 -0.15472483 NGVAAEVS(ph)PAKEENPR ddPTM_HeLa_SAHA_4h_R1 4 NGVAAEVSPAKEENPR 16 1 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 1 0 NGVAAEVS(1)PAKEENPR;NGVAAEVS(1)PAKEENPR;NGVAAEVS(1)PAKEENPR;NGVAAEVS(1)PAKEENPR ;;; 157.83 2.36E-05 180952800 7951.7 8044.3 7443.9 7665.31 9016.3 9984 9565.9 9306.7 10113.7 9132.2 TRUE FALSE FALSE 8788.09629 8304.940598 8458.315926 7813.683159 8325.473042 9133.307032 8489.519756 9068.64809 10043.31794 9525.933834 0.922544335 0.8718243 0.887925118 0.820253772 0.873979726 0.958783379 0.89120079 0.951995704 1.054313216 1 13.21764481 -8.422467378 0.80883433 0.992620543 0.893385621 0.564603901 0.043325749 0.344259302 0.471321875 0.016534975 0.008924139 3.78E-09 8.422467378 -0.099234922 NGYGFVEFEDSRDADDAVYELNGK ddPTM_HeLa_SAHA_4h_R1 1 NGYGFVEFEDSRDADDAVYELNGK 24 1 Q13247;Q13247-3;A0A590UJK4;A0A590UK01;A0A590UJP7;A0A590UK80;Q13247-2 Q13247 SRSF6 Serine/arginine-rich splicing factor 6 0 0 158.33 6.09E-08 5646400 594.72 900.54 950.17 993.5 1215.6 1027.3 1144.5 856.04 831.96 913.97 FALSE FALSE TRUE 657.2753783 929.7180869 1079.654219 1012.730629 1122.460991 939.7682606 1015.717848 834.1437363 826.1703226 953.3757196 0.689419045 0.975185405 1.132454076 1.062257627 1.177354287 0.985727076 1.065390934 0.874937047 0.866573698 1 9.896901073 -7.008163762 23.74513789 0.852229683 1.053863882 0.422382425 0.103361591 174.4095996 507290.8978 0.021905062 0.028040169 9.81E-08 7.008163762 0.201634199 NHAGS(ph)PGCEESDAGK ddPTM_HeLa_SAHA_4h_R1 2 NHAGSPGCEESDAGK 15 0 P42575 P42575 CASP2 Caspase-2;Caspase-2 subunit p18;Caspase-2 subunit p13;Caspase-2 subunit p12 1 0 NHAGS(1)PGCEESDAGK;NHAGS(1)PGCEESDAGK ; 202.96 1.60E-12 6545900 1753.99 2633.4 2241.54 2763 2786.73 120.99 2689.56 2211.51 3711.5 3034 TRUE FALSE FALSE 1938.482716 2718.723888 2547.005398 2816.48186 2573.211349 110.6809713 2386.92363 2154.942776 3685.671369 3164.810588 0.612511448 0.859047899 0.804789205 0.889936943 0.813069622 0.034972384 0.754207421 0.680907345 1.164578817 1 11.62790344 -5.459311783 24.99980591 0.821068796 0.501042266 0.363131138 0.22663343 197.6177675 77719.21977 0.030898753 0.069091668 3.47E-06 5.459311783 -0.32002653 NHAGS(ph)PGCEESDAGKEK ddPTM_HeLa_SAHA_4h_R1 1 NHAGSPGCEESDAGKEK 17 1 P42575 P42575 CASP2 Caspase-2;Caspase-2 subunit p18;Caspase-2 subunit p13;Caspase-2 subunit p12 1 0 NHAGS(0.994)PGCEES(0.006)DAGKEK 78.378 0.0062436 8470400 1596.5 1877.4 1837.7 2279.2 2496.6 289.54 2695.6 1869.7 2511.7 2516.3 TRUE FALSE FALSE 1764.427195 1938.228992 2088.132186 2323.317212 2305.311047 264.8695631 2392.283994 1821.875781 2494.220875 2624.790007 0.672216516 0.738432022 0.795542569 0.885144033 0.878283993 0.100910763 0.911419194 0.694103443 0.950255399 1 11.35798629 -13.52287873 0.242803674 2.816647002 0.670042591 0.192790412 0.219059929 55.34336707 0.725521388 48.02651217 0.137456934 3.00E-14 13.52287873 -2.146604411 NHDEESLECLCR ddPTM_HeLa_SAHA_4h_R1 1 NHDEESLECLCR 12 0 A0A0A0MSA7;A0A0U1RQK7;O43432;O43432-3;O43432-4;Q04637-9;Q04637;E7EX73;E9PGM1;Q04637-3;Q04637-8;E7EUU4;Q04637-7;Q04637-4;Q04637-5;Q04637-6;C9JF13 A0A0A0MSA7;Q04637-9 EIF4G3;EIF4G1 Eukaryotic translation initiation factor 4 gamma 3;Eukaryotic translation initiation factor 4 gamma 1 0 0 129.74 0.00030188 0 212.67 151.87 221.89 247.02 236.24 122.73 371.5 194.29 299.45 260.95 FALSE FALSE TRUE 235.0396064 156.7906876 252.1280136 251.8014293 218.1393422 112.2727135 329.6978423 189.3203431 297.3661031 272.2008316 0.863478649 0.576011053 0.926257323 0.925057531 0.801391168 0.412462787 1.211230107 0.695517137 1.092451119 1 8.088527664 -8.372566723 0.959627543 0.981656616 0.804107286 0.167435719 0.207295872 0.761172739 1.45531432 0.065732638 0.040613162 4.24E-09 8.372566723 -0.17754933 NHLS(ph)PQQGGAT(ph)PQVPSPCCR ddPTM_HeLa_SAHA_4h_R1 1 NHLSPQQGGATPQVPSPCCR 20 0 Q9H4L4;A0A087X0R7 Q9H4L4 SENP3;SENP3-EIF4A1 Sentrin-specific protease 3 2 0 NHLS(1)PQQGGAT(0.708)PQVPS(0.293)PCCR 72.286 0.005241 5618300 680.4 733.91 818.65 571 1116 687.58 787.77 750.61 838.38 662.88 TRUE FALSE FALSE 751.9675938 757.6891655 930.2113587 582.0525307 1030.492321 628.9943158 699.1280463 731.4104831 832.5456453 691.4600009 1.087507004 1.095781628 1.345285855 0.841773248 1.490313713 0.909661173 1.011089644 1.057776997 1.204040211 1 9.433501987 -8.623200916 0.904735667 1.007921036 1.106322028 0 0.190548592 1.331731556 2.206508028 0.069309894 0.034183858 2.38E-09 8.623200916 0.098400991 NHLS(ph)PQQGGATPQVPSPCCR ddPTM_HeLa_SAHA_4h_R1 2 NHLSPQQGGATPQVPSPCCR 20 0 Q9H4L4;A0A087X0R7 Q9H4L4 SENP3;SENP3-EIF4A1 Sentrin-specific protease 3 1 0 NHLS(1)PQQGGATPQVPSPCCR;NHLS(1)PQQGGATPQVPSPCCR ; 250.38 2.12E-42 17388500 2560 2151.2 2407.6 2900.3 2468.7 258.85 2777.4 2706.2 2406.3 2796.4 TRUE FALSE FALSE 2829.272546 2220.900291 2735.69519 2956.4395 2279.548739 236.7945237 2464.879642 2636.979323 2389.554362 2916.966489 0.969936595 0.761373262 0.937856228 1.013532213 0.781479235 0.081178349 0.845014727 0.904014267 0.819191572 1 11.5102531 -5.522729579 20.22784887 0.961828062 0.599858152 0.266593319 0.220667065 0.361398369 48704.34841 0.030447068 0.061717165 3.00E-06 5.522729579 -0.36196991 NHSDSSTSESEVSS(ph)VSPLK ddPTM_HeLa_SAHA_4h_R1 1 NHSDSSTSESEVSSVSPLK 19 0 Q9NY27-2;Q9NY27-3;Q9NY27;H7C559;C9IZ04 Q9NY27-2 PPP4R2 Serine/threonine-protein phosphatase 4 regulatory subunit 2 1 0 NHSDSSTSESEVS(0.046)S(0.881)VS(0.073)PLK 173.81 3.81E-09 9234000 1284.1 3208 628.05 2044.4 3542.2 284.08 2415.9 2658.9 4239.3 2882.4 TRUE FALSE FALSE 1419.16753 3311.941305 713.6373833 2083.972318 3270.797401 259.8747858 2144.056574 2590.889188 4209.798366 3006.67437 0.47200573 1.101529763 0.237351071 0.693115403 1.087845572 0.086432634 0.713099029 0.8617126 1.40015108 1 11.55395291 -9.512318577 1.200615626 1.004614152 0.635094606 0.246764385 0.338149223 0.699463442 1.767727813 0.218014737 0.049872315 3.07E-10 9.512318577 -0.369519546 NHSDSSTSESEVSSVS(ph)PLK ddPTM_HeLa_SAHA_4h_R1 1 NHSDSSTSESEVSSVSPLK 19 0 Q9NY27-2;Q9NY27-3;Q9NY27;H7C559;C9IZ04 Q9NY27-2 PPP4R2 Serine/threonine-protein phosphatase 4 regulatory subunit 2 1 0 NHSDSSTSESEVS(0.003)S(0.389)VS(0.607)PLK 175.74 3.11E-09 11713000 1196.6 3549 652.87 2028.7 3657 343.3 2392.8 2626.7 4503.5 2790.5 TRUE FALSE FALSE 1322.463878 3663.989929 741.8397236 2067.968422 3376.80145 314.0489086 2123.555846 2559.512817 4472.159777 2910.812111 0.454328149 1.258751781 0.254856616 0.710443802 1.160089116 0.107890478 0.72954068 0.879312274 1.536395894 1 11.507206 -9.608010493 1.396951935 1.000770271 0.662074771 0.194160851 0.384699664 0.730659467 2.549719777 0.231866007 0.052871515 2.47E-10 9.608010493 -0.3386955 NHSVNEEEQEEQGEGS(ph)EDEWEQVGPR ddPTM_HeLa_SAHA_4h_R1 3 NHSVNEEEQEEQGEGSEDEWEQVGPR 26 0 Q14694;Q14694-3;Q14694-2;H3BNA1 Q14694 USP10 Ubiquitin carboxyl-terminal hydrolase 10 1 0 NHSVNEEEQEEQGEGS(1)EDEWEQVGPR;NHSVNEEEQEEQGEGS(1)EDEWEQVGPR;NHSVNEEEQEEQGEGS(1)EDEWEQVGPR ;; 168.14 2.75E-11 19165100 1524.932 1514.51 1382.61 1772.1 1560.41 439.19 1503.97 1399.67 1817.9 1433.35 TRUE FALSE FALSE 1685.331344 1563.581118 1571.02489 1806.401558 1440.851723 401.7685412 1334.739337 1363.868468 1805.249086 1495.148733 1.127199794 1.045769617 1.050748234 1.208175159 0.963684543 0.268714765 0.892713419 0.912195849 1.207404351 1 10.54607329 -5.506648981 24.90025532 1.069441069 0.695498712 0.516388414 0.177579485 413.6960745 634705.9481 0.023608511 0.051452821 3.11E-06 5.506648981 -0.373942357 NIDDASQMDLFHRDS(ph)DDDQTEEQLDESEAR ddPTM_HeLa_SAHA_4h_R1 3 NIDDASQMDLFHRDSDDDQTEEQLDESEAR 30 1 E7ESG2;Q9HAW4-2;Q9HAW4-3;Q9HAW4 E7ESG2 CLSPN Claspin 1 0 NIDDASQMDLFHRDS(0.98)DDDQT(0.02)EEQLDESEAR;NIDDAS(0.007)QMDLFHRDS(0.986)DDDQT(0.007)EEQLDESEAR;NIDDAS(0.003)QMDLFHRDS(0.981)DDDQT(0.017)EEQLDESEAR ;; 133.91 3.28E-14 16226900 1420.44 1344.31 1404.93 1560.8 1512.24 1796.73 1806.15 1664.33 1883.59 1593.66 TRUE FALSE FALSE 1569.848396 1387.866526 1596.386544 1591.011541 1396.372498 1643.638496 1602.917248 1621.758849 1870.481944 1662.370482 0.944343282 0.834871974 0.960307321 0.957073985 0.839988747 0.988731762 0.96423587 0.975570047 1.12518958 1 10.69902623 -8.641634672 1.034020808 0.993847948 0.932851526 0.282558224 0.065761443 0.566333918 1.221389015 0.018801554 0.009958191 2.28E-09 8.641634672 -0.060996423 NIDDGTSDRPYSHALVAGIDR ddPTM_HeLa_SAHA_4h_R1 3 NIDDGTSDRPYSHALVAGIDR 21 1 P61353;K7ELC7 P61353 RPL27 60S ribosomal protein L27 0 0 ;; ;; 91.067 0.00027593 31528000 6889.1 7931.2 5834.2 8145.5 9213.3 11441.6 9707.3 7325 12580 8537.2 FALSE FALSE TRUE 7613.727146 8188.176084 6629.254393 8303.167931 8507.378944 10466.71131 8615.009056 7137.637106 12492.45476 8905.280472 0.854967698 0.91947425 0.744418372 0.932387021 0.955318473 1.175337638 0.967404573 0.801506155 1.402814296 1 13.12044533 -5.674725244 4.308596781 0.91333434 0.991624028 0 0.187175975 0.429109493 14.68241793 0.016611928 0.033883977 2.11E-06 5.674725244 0.078289687 NIDDGTSDRPYSHALVAGIDRYPR ddPTM_HeLa_SAHA_4h_R1 2 NIDDGTSDRPYSHALVAGIDRYPR 24 2 P61353;K7ELC7 P61353 RPL27 60S ribosomal protein L27 0 0 ; ; 85.969 4.93E-05 20136000 3195.4 2778.9 3699.2 3856.3 3667.3 4223.4 4714.8 3343.8 3182.6 3767 FALSE FALSE TRUE 3531.506833 2868.938183 4203.307711 3930.944263 3386.312266 3863.54256 4184.278295 3258.270438 3160.452027 3929.413805 0.898736302 0.73011862 1.069703503 1.000389487 0.861785608 0.983236368 1.06486069 0.82920013 0.804306236 1 11.94009839 NIEDVIAQGIGK ddPTM_HeLa_SAHA_4h_R1 3 NIEDVIAQGIGK 12 0 P05387;H0YDD8 P05387 RPLP2 60S acidic ribosomal protein P2 0 0 ;; ;; 169.65 6.83E-05 38216600 4275.61 4418.45 4387.99 4821.1 5333.2 4681.86 4965.16 4807.05 4709.1 4241.76 FALSE FALSE TRUE 4725.338277 4561.610679 4985.962426 4914.419362 4924.571368 4282.939189 4406.467129 4684.092622 4676.32899 4424.643032 1.06795921 1.030955638 1.126862074 1.110692846 1.11298727 0.967973949 0.99589212 1.058637406 1.056882771 1 12.11134535 -3.918452178 19.26488597 1.0429574 1.642609177 0 0.052132824 243.6455574 482472.7551 0.007783898 46592.859 0.000120656 3.918452178 0.599651777 NIEDYIHR ddPTM_HeLa_SAHA_4h_R1 2 NIEDYIHR 8 0 Q9BUQ8 Q9BUQ8 DDX23 Probable ATP-dependent RNA helicase DDX23 0 0 ; ; 126.07 0.0028428 7909800 7722.7 6594.8 7743.4 7809.8 8094.2 8394.5 8314.1 7472.3 8043.3 8009.4 FALSE FALSE TRUE 8535.009019 6808.475847 8798.630226 7960.969972 7474.024145 7679.241374 7378.575586 7281.169386 7987.32602 8354.724431 1.021578759 0.814925244 1.053132308 0.952870443 0.894586555 0.919149571 0.883162054 0.871503237 0.956025071 1 13.02837653 -5.644763132 0.388711112 1.013162039 0.841536344 0.198200979 0.062954876 1.728003503 0.369502253 0.021229739 0.120556655 2.27E-06 5.644763132 -0.171625695 NIELICQENEGENDPVLQR ddPTM_HeLa_SAHA_4h_R1 3 NIELICQENEGENDPVLQR 19 0 Q15691 Q15691 MAPRE1 Microtubule-associated protein RP/EB family member 1 0 0 ;; ;; 151.22 1.79E-06 4846600 1825.59 2108.22 1792.76 1992.22 2115.35 2638.26 2004.17 2191.31 2424.77 1691.75 FALSE FALSE TRUE 2017.613932 2176.527711 2037.067997 2030.782299 1953.27234 2413.465406 1778.655517 2135.259463 2407.895828 1764.689622 1.143325097 1.233377068 1.154349168 1.15078724 1.106864525 1.367642998 1.00791408 1.209991512 1.364486875 1 10.78519875 -8.775767942 0.664156359 0.997077338 1.173753774 0 0.142587014 0.609539827 0.508526255 0.056172948 0.018823621 1.68E-09 8.775767942 0.176676436 NIGLGFK ddPTM_HeLa_SAHA_4h_R1 1 NIGLGFK 7 0 P62280;M0QZC5 P62280 RPS11 40S ribosomal protein S11 0 0 110.61 0.011127 5491300 4103.9 4160.7 4021.1 4187 4599.4 5085.6 4888.4 4159.2 4245.2 4291.8 FALSE FALSE TRUE 4535.567031 4295.50941 4569.074567 4268.04544 4246.994966 4652.278269 4338.344366 4052.813686 4215.657308 4476.840502 1.013117852 0.959495744 1.020602491 0.953361067 0.948658985 1.039187853 0.969063867 0.90528436 0.941659035 1 12.1282652 -4.354636339 3.435783826 0.998044351 0.901611792 0.256594895 0.034149614 0.164807452 3.134842256 0.003975895 0.034913402 4.42E-05 4.354636339 -0.096432559 NIGLGFK(ac)TPK ddPTM_HeLa_SAHA_4h_R1 2 NIGLGFKTPK 10 1 P62280;M0QZC5 P62280 RPS11 40S ribosomal protein S11 0 1 ; NIGLGFK(1)TPK;NIGLGFK(1)TPK 145.99 4.32E-05 28536000 7850.2 7371 7479 8106.6 8228.7 8351.4 8902.8 8066.2 7138 7013.1 FALSE TRUE FALSE 8675.920054 7609.825236 8498.199171 8263.514965 7598.218784 7639.813736 7901.033513 7859.878284 7088.326077 7315.469062 1.185969072 1.040237498 1.161675225 1.129594684 1.038650935 1.044336825 1.08004469 1.074418908 0.968950318 1 12.83673466 -5.746873093 24.96694391 1.094664133 1.059766835 0.00050397 0.065638851 656.5632029 1125356.789 0.010764612 0.021448625 1.79E-06 5.746873093 -0.034897298 NIGRDT(ph)PTSAGPNSFNK ddPTM_HeLa_SAHA_4h_R1 2 NIGRDTPTSAGPNSFNK 17 1 Q8WW12;Q8WW12-3 Q8WW12 PCNP PEST proteolytic signal-containing nuclear protein 1 0 NIGRDT(0.976)PT(0.008)S(0.016)AGPNSFNK;NIGRDT(0.92)PT(0.026)S(0.054)AGPNSFNK ; 137.84 0.0060583 46748000 4179.3 4630.5 4236.4 4174.5 4200.6 4524.2 4432.3 3794.9 3785.1 4597.9 TRUE FALSE FALSE 4618.897949 4780.531238 4813.71453 4255.303484 3878.750935 4138.712708 3933.565939 3697.831953 3758.759181 4796.137971 0.963045262 0.996745979 1.003664732 0.887235419 0.808723802 0.862926115 0.82015279 0.771001997 0.78370539 1 12.22765745 -6.049128779 3.087717067 0.984771176 0.819780107 0.416758934 0.068065262 0.055758285 1.061239804 0.00400588 0.007202277 8.93E-07 6.049128779 -0.164991069 NIGS(ph)DFIPR ddPTM_HeLa_SAHA_4h_R1 2 NIGSDFIPR 9 0 Q5T853;Q5T857;P41279-2;P41279 Q5T853 MAP3K8 Mitogen-activated protein kinase kinase kinase 8 1 0 NIGS(1)DFIPR;NIGS(1)DFIPR ; 105.25 0.0077338 6317400 3059.9 3102.9 3023.9 3113 3778.7 4002.8 4088.6 4071.4 3270.6 3139.3 TRUE FALSE FALSE 3381.754321 3203.435996 3435.981344 3173.256616 3489.176822 3661.738921 3628.539967 3967.259483 3247.839628 3274.650586 1.03270692 0.978252767 1.049266556 0.969036706 1.065511184 1.118207523 1.108069356 1.211506199 0.991812574 1 11.67712526 -4.595974189 0.814606954 1.011863756 1.254042933 0.822809206 0.03040631 0.479175225 0.309532091 0.004706249 0.093718781 2.54E-05 4.595974189 0.242179177 NIGVDNPAAK ddPTM_HeLa_SAHA_4h_R1 2 NIGVDNPAAK 10 0 P78371;F5GWF6;P78371-2;F8VQ14 P78371 CCT2 T-complex protein 1 subunit beta 0 0 ; ; 135.86 0.0079512 7402900 2298 1894.04 1737.03 2360.79 2210.02 2526.47 1885.25 2058.96 2168.12 1851.5 FALSE FALSE TRUE 2539.714184 1955.408139 1973.743402 2406.486504 2040.688745 2311.200542 1673.116708 2006.294785 2153.031876 1931.327226 1.315009776 1.012468582 1.02196219 1.246027329 1.056625059 1.196690292 0.866304107 1.038816601 1.114793934 1 10.91537691 -4.766291384 24.99913675 1.135867494 0.952560345 0.27100791 0.107792412 120.2669008 619670.5086 0.01865821 0.058717681 1.71E-05 4.766291384 -0.183307149 NIIEATHMYDNAAEACSTTEEVFNS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 NIIEATHMYDNAAEACSTTEEVFNSPR 27 0 Q9NRY4 Q9NRY4 ARHGAP35 Rho GTPase-activating protein 35 1 0 NIIEATHMYDNAAEACST(0.001)T(0.002)EEVFNS(0.998)PR;NIIEATHMYDNAAEACS(0.008)T(0.008)T(0.022)EEVFNS(0.963)PR;NIIEATHMYDNAAEACS(0.002)T(0.02)T(0.002)EEVFNS(0.976)PR;NIIEATHMYDNAAEACST(0.001)TEEVFNS(0.999)PR ;;; 169 1.08E-11 71628700 2924.55 4050.48 3815.35 4206.38 3627.22 4998.65 4098 3406.55 3893.44 3696.82 TRUE FALSE FALSE 3232.167587 4181.71821 4335.286029 4287.800567 3349.303187 4572.736898 3636.882255 3319.415384 3866.345234 3856.208002 0.838172522 1.084411994 1.124235525 1.111921495 0.868548373 1.185811786 0.943123984 0.860797805 1.002628808 1 11.91296716 -7.251095595 24.9568609 0.923581468 1.029622847 0.0827582 0.111549705 981.5630966 2368257.658 0.019230018 0.023415702 5.61E-08 7.251095595 0.106041379 NIIFFGK ddPTM_HeLa_SAHA_4h_R1 2 NIIFFGK 7 0 P36952 P36952 SERPINB5 Serpin B5 0 0 ; ; 122.78 0.0029219 2764400 4407.5 4143.6 5071.5 4953.9 5573.1 4621.5 5577.1 2812.9 3384 4526.5 FALSE FALSE TRUE 4871.101072 4277.855359 5762.617609 5049.789898 5146.090282 4227.7222 4949.55003 2740.950091 3360.450468 4721.659567 1.031650208 0.906006733 1.220464442 1.069494703 1.089890156 0.895389034 1.048264908 0.580505657 0.711709606 1 12.20507831 -4.259522822 24.8285317 1.023991316 0.580505492 0.461899606 0.131991339 62.19481006 805648.9442 0.011392931 0.098804447 5.50E-05 4.259522822 -0.443485823 NIIGS(ph)SPVADFSAIK ddPTM_HeLa_SAHA_4h_R1 1 NIIGSSPVADFSAIK 15 0 B1AUU8;P42566 B1AUU8 EPS15 Epidermal growth factor receptor substrate 15 1 0 NIIGS(0.498)S(0.498)PVADFS(0.003)AIK 112.5 0.0017323 6011000 1942.3 2190 1943.8 2074.2 2405.2 2959.6 2514.3 2164.8 2683.2 2117.5 TRUE FALSE FALSE 2146.600026 2260.957437 2208.690941 2114.34914 2220.914096 2707.42543 2231.384347 2109.427551 2664.527393 2208.795788 0.971841778 1.023615424 0.999952532 0.957240661 1.005486387 1.22574728 1.01022664 0.955012483 1.206325821 1 11.10904433 -5.500289108 24.93847125 0.988437449 1.067868287 0 0.09550526 829.3842633 915621.6125 0.009089901 0.020177624 3.16E-06 5.500289108 0.079430839 NIIGSS(ph)PVADFSAIK ddPTM_HeLa_SAHA_4h_R1 1 NIIGSSPVADFSAIK 15 0 B1AUU8;P42566 B1AUU8 EPS15 Epidermal growth factor receptor substrate 15 1 0 NIIGS(0.034)S(0.942)PVADFS(0.025)AIK 162.64 5.77E-06 4598300 2022.2 2599 1917.7 2377.9 3134.7 3231.1 2900 2583.9 3035.4 2469.7 TRUE FALSE FALSE 2234.904274 2683.209305 2179.034169 2423.927693 2894.519963 2955.792102 2573.684368 2517.807579 3014.276404 2576.180853 0.867526156 1.041545395 0.845838974 0.940899662 1.123570171 1.14735427 0.999030935 0.977341158 1.170056209 1 11.33101816 -5.781674412 23.88647157 0.937243867 1.063448172 0.064504357 0.102208804 113.3999273 133862.9617 0.011606408 0.021061428 1.65E-06 5.781674412 0.126204306 NIIHGS(ph)DSVESAEK ddPTM_HeLa_SAHA_4h_R1 2 NIIHGSDSVESAEK 14 0 P15531;P15531-2 P15531 NME1 Nucleoside diphosphate kinase A 1 0 NIIHGS(0.999)DS(0.001)VESAEK;NIIHGS(0.991)DS(0.009)VESAEK ; 183.76 1.12E-07 13884000 3553.2 4571 3233.4 4330.9 4953.1 5932.2 4070 3524.3 5527.9 4617.2 TRUE FALSE FALSE 3926.941879 4719.103399 3674.030913 4414.730832 4573.594548 5426.743186 3612.032888 3434.153509 5489.430894 4816.270088 0.815349182 0.979825324 0.762837392 0.916628584 0.949613386 1.126752256 0.74996477 0.713031754 1.139768076 1 12.23370058 -9.532097197 1.272217926 1.000453631 0.876004354 0.230145691 0.126875889 0.787963143 2.270308212 0.085286861 0.020053643 2.94E-10 9.532097197 -0.124449277 NIIHGS(ph)DSVK ddPTM_HeLa_SAHA_4h_R1 1 NIIHGSDSVK 10 0 Q32Q12;P22392-2;P22392;O60361 Q32Q12 NME1-NME2;NME2;NME2P1 Nucleoside diphosphate kinase;Nucleoside diphosphate kinase B;Putative nucleoside diphosphate kinase 1 0 NIIHGS(0.778)DS(0.222)VK 96.135 0.010516 21608000 6857.1 6644.5 5486.4 6680.7 7321 6923.1 6416.1 5119.8 6566 6524.3 TRUE FALSE FALSE 7578.36124 6859.78616 6234.05802 6810.014609 6760.066562 6333.212932 5694.143542 4988.842929 6520.306671 6805.594502 1.113548748 1.00796281 0.91601961 1.000649481 0.993310218 0.930589228 0.836685691 0.733050276 0.958080395 1 12.73250548 -3.229162063 0.474638572 1.047614283 7.00E-18 0.715484191 0.052949981 3.773843671 0.278259791 0.01232343 2.760316016 0.000589981 3.229162063 -1.047614283 NIK(ac)ALR ddPTM_HeLa_SAHA_4h_R1 1 NIKALR 6 1 P61978;P61978-2;P61978-3;Q5T6W2;S4R457 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 1 NIK(1)ALR 99.384 0.020031 6065400 1748.9 1595.2 2042.7 2391.5 1816.1 1936.2 1929.5 1704.3 1512.9 1584 FALSE TRUE FALSE 1932.857326 1646.885527 2321.068518 2437.790941 1676.95081 1771.224867 1712.387582 1660.706474 1502.371606 1652.293992 1.169802309 0.996726693 1.404755164 1.475397812 1.014922779 1.071979246 1.036369793 1.005091395 0.909264098 1 10.69025469 -2.714974006 12.31734614 1.110517576 0.820243084 0 0.177800345 0 0 0.023159352 0 0.00192764 2.714974006 -0.290274493 NILFVITKPDVYK ddPTM_HeLa_SAHA_4h_R1 2 NILFVITKPDVYK 13 1 F8VZJ2;F8W0W4;H0YHX9;Q13765;E9PAV3-2;E9PAV3;F8W1N5;F8VNW4;F8VZ58;Q9BZK3 F8VZJ2;Q9BZK3 NACA;NACAP1 "Nascent polypeptide-associated complex subunit alpha;Nascent polypeptide-associated complex subunit alpha, muscle-specific form;Putative nascent polypeptide-associated complex subunit alpha-like protein" 0 0 ; ; 179.93 4.81E-12 17467300 2600.6 3034.6 3376.7 4084.9 3855.2 3485.3 4174 2677.7 3965.1 3317.7 FALSE FALSE TRUE 2874.14304 3132.923031 3836.859091 4163.969146 3559.815409 3188.332832 3704.330535 2609.208311 3937.506546 3460.742283 0.83049901 0.905274873 1.108680964 1.203201165 1.02862771 0.921285832 1.070386129 0.753944702 1.137763585 1 11.75686579 -6.793027571 24.75627811 0.91662014 1.021903688 0 0.137157942 267.9052857 209961.6271 0.020414851 0.026831911 1.61E-07 6.793027571 0.105283549 NILLTIGSYK ddPTM_HeLa_SAHA_4h_R1 2 NILLTIGSYK 10 0 P27708;F8VPD4 P27708 CAD CAD protein;Glutamine-dependent carbamoyl-phosphate synthase;Aspartate carbamoyltransferase;Dihydroorotase 0 0 ; ; 142 0.00011041 692230 589 1027.26 716.26 841.41 764.55 1125.54 960.96 829.34 980.89 1233.84 FALSE FALSE TRUE 650.9537224 1060.543898 813.8681827 857.6967072 705.9703442 1029.63766 852.8302517 808.1266837 974.0639066 1287.036881 0.505777054 0.824019819 0.632358089 0.666411911 0.548523787 0.800006337 0.66263078 0.627897068 0.756826724 1 10.32983768 -9.478715625 1.171376777 1.003473557 0.648094258 0.282676158 0.117209442 0.240130997 0.580162688 0.070139934 0.016506564 3.32E-10 9.478715625 -0.355379298 NINDVDTALS(ph)FY(ph)HMAGAS(ph)LDK ddPTM_HeLa_SAHA_4h_R1 1 NINDVDTALSFYHMAGASLDK 21 0 E9PQV6;F6XEV2;A0A0U1RRK1;A0A286YF11;Q9BPX6-5;Q9BPX6-4;Q9BPX6-2;Q9BPX6;Q9BPX6-3 E9PQV6 MICU1 "Calcium uptake protein 1, mitochondrial" 3 0 NINDVDT(0.121)ALS(0.901)FY(0.98)HMAGAS(0.997)LDK 48.025 0.0079346 0 535.18 363.94 456.22 522.55 495.59 752 422.05 499.04 745.75 392.23 TRUE FALSE FALSE 591.4726879 375.7318948 518.3912857 532.6647109 457.6180013 687.9253694 374.5598232 486.2752794 740.560265 409.1409548 1.445645274 0.918343398 1.267023698 1.301910025 1.118484952 1.681389656 0.915478685 1.188527508 1.810036997 1 8.676454147 -9.663510644 1.514782582 1.000126479 1.258500619 0 0.333179865 0.587875107 2.429293608 0.151184175 0.034006771 2.17E-10 9.663510644 0.25837414 NINLIVQK ddPTM_HeLa_SAHA_4h_R1 2 NINLIVQK 8 0 C9J1E7;A0A087WYD1;A0A087WU93;A0A087WZQ6;A0A087X253;P63010-3;Q10567-4;P63010;Q10567-3;Q10567-2;Q10567;P63010-2 C9J1E7 AP1B1;AP2B1 AP-2 complex subunit beta;AP-1 complex subunit beta-1 0 0 ; ; 158.08 4.51E-07 1837610 981.84 1163.42 1413.92 1383.67 1450.33 917.84 984.9 531.43 459.961 752.55 FALSE FALSE TRUE 1085.114436 1201.115571 1606.601654 1410.452934 1339.206029 839.6348684 874.0764599 517.8367901 456.760094 784.9961134 1.382318227 1.530091106 2.046636444 1.796764225 1.706003388 1.069603854 1.11347871 0.659667967 0.581862873 1 9.616541701 -2.923377054 13.2881606 1.295475801 1.127436647 0 0.461691811 0 0 0.05899883 0 0.001192952 2.923377054 -0.168039154 NINMDNDLEVLTS(ph)SPTR ddPTM_HeLa_SAHA_4h_R1 3 NINMDNDLEVLTSSPTR 17 0 Q9Y5T5-4;Q9Y5T5-3;Q9Y5T5-2;Q9Y5T5 Q9Y5T5-4 USP16 Ubiquitin carboxyl-terminal hydrolase 16 1 0 NINMDNDLEVLT(0.09)S(0.445)S(0.445)PT(0.019)R;NINMDNDLEVLT(0.145)S(0.422)S(0.422)PT(0.011)R;NINMDNDLEVLTS(0.792)S(0.207)PT(0.001)R ;; 287.48 7.08E-73 67198700 4226.71 4442.78 3683.44 4516.53 5017.95 5068.72 5373.62 4520.8 5153.43 4290.87 TRUE FALSE FALSE 4671.294751 4586.728987 4185.400021 4603.953969 4633.475755 4636.83654 4768.966135 4405.164482 5117.566861 4475.870405 1.043661753 1.02476805 0.93510304 1.02861646 1.035212224 1.035963091 1.065483516 0.984202866 1.143367971 1 12.12795255 -6.020731974 24.95320617 1.014217663 1.032991289 0 0.052506335 1827.848072 2200018.525 0.005253549 0.008772673 9.53E-07 6.020731974 0.018773626 NINMDNDLEVLTSS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 4 NINMDNDLEVLTSSPTR 17 0 Q9Y5T5-4;Q9Y5T5-3;Q9Y5T5-2;Q9Y5T5 Q9Y5T5-4 USP16 Ubiquitin carboxyl-terminal hydrolase 16 1 0 NINMDNDLEVLT(0.003)S(0.203)S(0.678)PT(0.115)R;NINMDNDLEVLTS(0.025)S(0.975)PTR;NINMDNDLEVLT(0.073)S(0.073)S(0.832)PT(0.021)R;NINMDNDLEVLTS(0.087)S(0.912)PT(0.001)R ;;; 286.84 8.08E-73 116287000 7219.46 7173.48 6650.19 6530.96 7827.59 8681.87 8647.17 7888.77 8083.37 7418.86 TRUE FALSE FALSE 7978.835927 7405.905459 7556.44326 6657.376175 7227.841745 7942.125833 7674.167673 7686.986686 8027.11717 7738.723362 1.031027413 0.956993177 0.976445714 0.860268014 0.933983734 1.026283724 0.991658096 0.993314572 1.037266329 1 12.91787987 -7.253482274 24.37255367 1.014651834 0.961749243 0.286480189 0.042846039 473.8834339 1451501.749 0.007583095 0.009190694 5.58E-08 7.253482274 -0.052902591 NINPST(ph)ANSPK ddPTM_HeLa_SAHA_4h_R1 1 NINPSTANSPK 11 0 P46937-6;P46937-7;P46937;P46937-9;H0YCI3;P46937-4 P46937-6 YAP1 Transcriptional coactivator YAP1 1 0 NINPS(0.075)T(0.906)ANS(0.02)PK 120.27 0.0037877 14064000 3807.5 4000.5 3912.7 3851.4 4086.4 4489.1 4260.9 3686.3 3895.1 3494.9 TRUE FALSE FALSE 4207.990319 4130.118825 4445.90238 3925.949416 3773.300915 4106.603425 3781.452318 3592.009784 3867.993682 3645.582243 1.154271126 1.132910616 1.2195315 1.076906007 1.03503382 1.126460234 1.037269787 0.985304828 1.061008482 1 11.83193353 -4.522743144 4.289997959 1.089525032 0.99340977 0.262780299 0.060376102 0.271997652 11.89157651 0.01059098 0.053867144 3.00E-05 4.522743144 -0.096115262 NINPSTANS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 NINPSTANSPK 11 0 P46937-6;P46937-7;P46937;P46937-9;H0YCI3;P46937-4 P46937-6 YAP1 Transcriptional coactivator YAP1 1 0 NINPSTANS(1)PK;NINPS(0.104)T(0.055)ANS(0.841)PK ; 146.67 0.00065008 57634000 5813.4 5152.9 6473.5 5938.8 6539.3 6615.9 5497.6 5611.7 6286.9 5445.9 TRUE FALSE FALSE 6424.880085 5319.857341 7355.674867 6053.754062 6038.260247 6052.1881 4878.995579 5468.16084 6243.148951 5680.699401 1.131001595 0.93647929 1.29485374 1.065670551 1.062943103 1.065394888 0.858872339 0.962585846 1.099010617 1 12.47185285 -4.7752606 23.6702673 1.071321462 0.910729144 0.356324872 0.091148098 91.26789451 156307.8244 0.012697253 0.038425752 1.68E-05 4.7752606 -0.160592318 NINTFVET(ph)PVQK ddPTM_HeLa_SAHA_4h_R1 2 NINTFVETPVQK 12 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 NINTFVET(1)PVQK;NINT(0.002)FVET(0.998)PVQK ; 127.78 0.0020287 7921700 1976.17 2139.9 1522 2101.57 2150.98 2328.6 2282.59 2511.9 2717.8 2380.9 TRUE FALSE FALSE 2184.032628 2209.234164 1729.410234 2142.248926 1986.172377 2130.19018 2025.746966 2447.649235 2698.886609 2483.552251 0.879398703 0.889546078 0.696345419 0.862574534 0.799730457 0.857719091 0.815665128 0.985543684 1.086704179 1 11.27818938 -8.480306494 0.717447202 0.992892159 0.838793172 0.485795014 0.076204013 0.439719745 0.470592175 0.032950876 0.015629649 3.31E-09 8.480306494 -0.154098988 NIPEDNADMAR ddPTM_HeLa_SAHA_4h_R1 1 NIPEDNADMAR 11 0 P31939-2;P31939;C9JLK0 P31939-2 ATIC Bifunctional purine biosynthesis protein PURH;Phosphoribosylaminoimidazolecarboxamide formyltransferase;IMP cyclohydrolase 0 0 136.52 4.24E-05 0 1770.6 1501.2 1480.8 1690.9 1799.7 2023.3 2105 1513.5 1942.6 1812.6 FALSE FALSE TRUE 1956.839832 1549.839865 1682.595712 1723.629815 1661.807375 1850.903457 1868.13986 1474.786862 1929.081288 1890.750057 1.034954263 0.819695792 0.889909116 0.911611669 0.878914359 0.978925507 0.988041679 0.780000961 1.02027303 1 10.88474295 -7.28172612 24.98464306 1.016506184 0.899565366 0.477284996 0.060077189 516.528614 636142.3113 0.01002593 0.011472127 5.23E-08 7.28172612 -0.116940818 NIPGITLLNVSK ddPTM_HeLa_SAHA_4h_R1 2 NIPGITLLNVSK 12 0 P36578;H3BM89 P36578 RPL4 60S ribosomal protein L4 0 0 ; ; 176.32 8.16E-11 4517100 2043.3 2003.73 2977.5 2607.5 2519.5 992.59 2799.9 623.76 873.25 1657.95 FALSE FALSE TRUE 2258.223669 2068.652167 3383.258194 2657.971933 2326.456454 908.0157478 2484.847883 607.8051224 867.1729822 1729.432338 1.305760057 1.196145186 1.956282486 1.536904263 1.345213919 0.525036874 1.436799711 0.351447761 0.501420589 1 10.75608286 -4.25226737 24.5060199 1.217540184 0.351447162 0.268487433 0.419530851 848.1233143 2265974.678 0.050305653 0.823015089 5.59E-05 4.25226737 -0.866093022 NIPS(ph)PGQLDPDTR ddPTM_HeLa_SAHA_4h_R1 2 NIPSPGQLDPDTR 13 0 Q9P2D1 Q9P2D1 CHD7 Chromodomain-helicase-DNA-binding protein 7 1 0 NIPS(0.973)PGQLDPDT(0.027)R;NIPS(0.914)PGQLDPDT(0.086)R ; 127.29 0.00085441 13364900 2235.1 3315.4 2043.11 2089.52 2582.2 2537.2 2421.1 2407.3 3496.4 2246.6 TRUE FALSE FALSE 2470.198073 3422.821135 2321.534391 2129.965681 2384.352394 2321.016286 2148.671456 2345.724752 3472.068268 2343.461921 1.054080739 1.46058321 0.990643104 0.908897073 1.017448747 0.990422019 0.916879185 1.000965593 1.481597903 1 11.19442564 -6.542771276 24.99796466 1.066819699 0.966406225 0.134989136 0.184893075 420.1864347 528025.8675 0.021738206 0.030744452 2.87E-07 6.542771276 -0.100413474 NIPS(ph)PGQLDPDTRIPVINLEDGTR ddPTM_HeLa_SAHA_4h_R1 1 NIPSPGQLDPDTRIPVINLEDGTR 24 1 Q9P2D1 Q9P2D1 CHD7 Chromodomain-helicase-DNA-binding protein 7 1 0 NIPS(0.962)PGQLDPDT(0.038)RIPVINLEDGTR 92.225 4.49E-05 16724000 1740.1 1236.1 1514 1248.2 1777.5 1331.9 1621.9 1584.2 1062.8 1609.3 TRUE FALSE FALSE 1923.131702 1276.150451 1720.320035 1272.360716 1641.308334 1218.414627 1439.399543 1543.678458 1055.403888 1678.684799 1.145618107 0.760208499 1.024802296 0.757950937 0.977734674 0.725815012 0.857456709 0.919576122 0.62870879 1 10.71311565 -7.265669085 24.99228359 1.068764107 0.862092014 0 0.169485854 218.6736277 1292086.152 0.016358303 0.019066809 5.42E-08 7.265669085 -0.206672093 NIPSPGQLDPDT(ph)RIPVINLEDGTR ddPTM_HeLa_SAHA_4h_R1 1 NIPSPGQLDPDTRIPVINLEDGTR 24 1 Q9P2D1 Q9P2D1 CHD7 Chromodomain-helicase-DNA-binding protein 7 1 0 NIPS(0.293)PGQLDPDT(0.705)RIPVINLEDGT(0.002)R 73.383 0.0010888 18016000 810.63 541.72 388.3 392.63 618.41 688.24 485.11 419.2 449.9 555.06 TRUE FALSE FALSE 895.8957827 559.2720834 441.2155018 400.2299214 571.0275594 629.5980801 430.5241461 408.477471 446.7691093 578.991353 1.547338795 0.965942031 0.762041608 0.691253711 0.986245401 1.087404979 0.743576124 0.705498396 0.771633474 1 9.177397992 -7.041295308 8.800056876 1.258614361 0.840031194 0.139106872 0.229260079 0.280948745 57.36007997 0.038724145 0.047718033 9.09E-08 7.041295308 -0.418583168 NGSGTLTGSHDYPAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 NGSGTLTGSHDYPAKK 16 1 Q7Z7F0 Q7Z7F0 KIAA0907 UPF0469 protein KIAA0907 0 1 ; NGSGTLTGSHDYPAK(1)K;NGSGTLTGSHDYPAK(1)K 118.5 0.00021236 7922500 1897.26 2707.03 1932.72 3637.17 5175.8 6757.4 5809.8 6103.3 2289.31 1966.03 FALSE TRUE FALSE 2096.822512 2794.739548 2196.101016 3707.572685 4779.231322 6181.631504 5156.066013 5947.186423 2273.378505 2050.795175 1.022443654 1.362758984 1.070853415 1.807870786 2.330428402 3.0142608 2.514178928 2.899941689 1.108535135 1 11.00196769 -5.897035164 1.448645491 1.03082018 2.803822912 0.950481185 0.171210823 0.051155712 0.215153542 0.024961153 0.057059105 1.27E-06 5.897035164 1.773002732 up NISHYEEQLVK ddPTM_HeLa_SAHA_4h_R1 1 NISHYEEQLVK 11 0 P13861-2;P13861;H7C330 P13861-2 PRKAR2A cAMP-dependent protein kinase type II-alpha regulatory subunit 0 0 96.334 0.0030494 0 1075.8 1037.4 999.98 1065.5 1212 1362.9 1070.8 1186.2 1066.5 1060.5 FALSE FALSE TRUE 1188.95758 1071.012441 1136.252067 1086.124293 1119.136822 1246.773253 950.3107658 1155.858722 1059.07814 1106.223345 1.074789811 0.968170167 1.027145261 0.981830928 1.011673481 1.127053825 0.859058679 1.044869218 0.957381838 1 10.11142698 -7.255901273 24.5906068 1.03531741 1.002544882 0 0.070043316 899.3317728 3993268.955 0.010755068 0.012986502 5.55E-08 7.255901273 -0.032772529 NISSS(ph)PSVESLPGGR ddPTM_HeLa_SAHA_4h_R1 1 NISSSPSVESLPGGR 15 0 Q92609;Q92609-2;C9J3F6 Q92609 TBC1D5 TBC1 domain family member 5 1 0 NISS(0.095)S(0.586)PS(0.095)VES(0.224)LPGGR 151.56 5.20E-05 25816000 1489.3 1723.2 1449.9 1246.4 1524.9 1952.6 2151.7 1559.3 1857.8 1838.8 TRUE FALSE FALSE 1645.951407 1779.032811 1647.484821 1270.525874 1408.062491 1786.227495 1909.585053 1519.415364 1844.871419 1918.079667 0.858124631 0.927507257 0.858924084 0.662394736 0.734100108 0.93125824 0.995571292 0.792154461 0.96183253 1 10.90544693 -8.946109928 0.570205244 1.013215287 0.840290409 0.260252627 0.092636281 1.148160136 0.630210679 0.101214457 0.024962154 1.13E-09 8.946109928 -0.172924878 NISSSPS(ph)VESLPGGR ddPTM_HeLa_SAHA_4h_R1 1 NISSSPSVESLPGGR 15 0 Q92609;Q92609-2;C9J3F6 Q92609 TBC1D5 TBC1 domain family member 5 1 0 NISS(0.02)S(0.206)PS(0.707)VES(0.067)LPGGR 214.89 1.10E-17 22592000 3862 4276.4 3956.3 3032 4538.3 5117.4 4768 3946.4 3603.6 4215.3 TRUE FALSE FALSE 4268.222879 4414.958166 4495.44396 3090.688744 4190.576434 4681.36873 4231.492091 3845.456802 3578.522254 4397.042212 0.970703185 1.004074547 1.022379077 0.702901768 0.953044395 1.064663131 0.962349663 0.874555353 0.813847601 1 12.10231767 NITLNFGPQHPAAHGVLR ddPTM_HeLa_SAHA_4h_R1 2 NITLNFGPQHPAAHGVLR 18 0 O75306-2;O75306 O75306-2 NDUFS2 "NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial" 0 0 ; ; 73.208 0.003405 4010800 1000.47 1365.36 1270.1 1005.66 1281.29 850.5 1487.73 721.92 1300.71 1373.19 FALSE FALSE TRUE 1105.704025 1409.59856 1443.182614 1025.126004 1183.117837 778.0326152 1320.326705 703.4543317 1291.658253 1432.394941 0.771926787 0.984085129 1.007531214 0.715672734 0.825971806 0.543169061 0.921761636 0.491103614 0.901747288 1 10.48421361 -6.236818855 21.7293287 0.905763988 0.710218669 0.426705246 0.133189968 137.8747895 121683.1323 0.020656848 0.034234404 5.80E-07 6.236818855 -0.195545319 NITSFCPDT(ph)PSEKTAK ddPTM_HeLa_SAHA_4h_R1 1 NITSFCPDTPSEKTAK 16 1 A9QM74 A9QM74 KPNA7 Importin subunit alpha-8 1 0 NITSFCPDT(0.897)PS(0.103)EKTAK 107.99 0.0024117 38236000 3577.1 3095.3 3157.7 3661.2 3837.2 3860.3 3392.2 3720.4 3131.1 3269.2 TRUE FALSE FALSE 3953.35579 3195.589751 3588.014911 3732.06782 3543.194565 3531.380723 3010.500728 3625.237555 3109.31042 3410.151211 1.159290467 0.937081541 1.05215713 1.094399512 1.039013916 1.0355496 0.882805642 1.063072377 0.911780806 1 11.73562 -4.984338822 24.50995853 1.062840494 0.969498605 0 0.083567578 235.1638332 368028.1927 0.01083353 0.0324864 1.04E-05 4.984338822 -0.093341889 NITSSS(ph)PER ddPTM_HeLa_SAHA_4h_R1 2 NITSSSPER 9 0 A6NF31;O75665-3;O75665 A6NF31 OFD1 Oral-facial-digital syndrome 1 protein 1 0 NITSSS(0.999)PER;NIT(0.018)S(0.008)S(0.027)S(0.947)PER ; 127.51 0.0024465 122080000 8736.9 10104.1 8055.5 9219.6 10497.9 10863.1 10223.8 9782.1 10948.2 9011 TRUE FALSE FALSE 9655.887228 10431.47947 9153.261589 9398.05869 9693.55317 9937.502766 9073.391116 9531.888046 10872.01058 9399.508309 1.02727578 1.109789909 0.97380217 0.999845777 1.031283005 1.057236447 0.965304867 1.014083687 1.156657373 1 13.19836958 -4.745771844 24.99413674 1.020027804 0.989694302 0.000546048 0.056941635 449.2351461 716644.0125 0.005069224 0.01883922 1.80E-05 4.745771844 -0.030333502 NITVIFHPLLR ddPTM_HeLa_SAHA_4h_R1 2 NITVIFHPLLR 11 0 Q96A65 Q96A65 EXOC4 Exocyst complex component 4 0 0 ; ; 86.313 0.011264 1439360 556.74 695.85 1056.71 862.85 896.85 626.04 977.16 444.91 553.68 711.36 FALSE FALSE TRUE 615.3004676 718.3959966 1200.712936 879.5517095 828.1335468 572.69787 867.2073851 433.5298464 549.8268958 742.0302109 0.829212151 0.968149256 1.61814562 1.185331401 1.116037507 0.771798589 1.168695523 0.584248242 0.740976429 1 9.535334115 -2.408204617 14.66456235 0.984232967 0.743331157 0 0.279734397 0 0 0.035769716 0 0.003906568 2.408204617 -0.24090181 NIYS(ph)EELR ddPTM_HeLa_SAHA_4h_R1 2 NIYSEELR 8 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 NIYS(1)EELR;NIYS(1)EELR ; 119.34 0.003697 19310300 3630.9 3372.6 2951 3545.4 3760.9 3961.2 3943.1 3550.1 4268 4143.4 TRUE FALSE FALSE 4012.814721 3481.874453 3353.146912 3614.026344 3472.740655 3623.683475 3499.41201 3459.293582 4238.298641 4322.042251 0.928453376 0.805608611 0.775824649 0.836184871 0.803495304 0.838419262 0.809666312 0.800384027 0.980624065 1 12.07749746 -7.464954693 1.846147804 0.974494081 0.809384741 0.916340313 0.02224471 0.073143071 0.488005369 0.005246941 0.005762649 3.43E-08 7.464954693 -0.165109339 NIYSEELR ddPTM_HeLa_SAHA_4h_R1 2 NIYSEELR 8 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 163.15 7.41E-05 96502000 5152.5 4421.4 4263.2 5518.1 5010 5429.7 5600.4 5416.2 4506.2 4642.2 FALSE FALSE TRUE 5694.463591 4564.656261 4844.166694 5624.910805 4626.134882 4967.059013 4970.228253 5277.661447 4474.840987 4842.34796 1.175971582 0.942653502 1.000375589 1.161608139 0.955349537 1.025754253 1.026408737 1.089897192 0.924105625 1 12.24149104 -7.257708975 24.98981908 1.08309769 1.029832201 0 0.087078013 673.1765258 4509580.984 0.014276628 0.017118365 5.52E-08 7.257708975 -0.05326549 NIYVLQELDNPGAK ddPTM_HeLa_SAHA_4h_R1 2 NIYVLQELDNPGAK 14 0 P12956;B1AHC9 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 0 ; ; 218.06 5.41E-36 1023800 0 174.59 77.952 219.91 186.809 427.67 377.95 335.7 156.48 220.035 FALSE FALSE TRUE 0 180.2468306 88.5748926 224.166676 172.4957348 391.23011 335.4220713 327.1132801 155.3910429 229.5217857 0 0.785314693 0.385910611 0.976668404 0.75154406 1.704544555 1.461395354 1.425194907 0.677020887 1 7.842487287 -5.531569104 1.540785627 0.536894724 1.537783302 0.633872563 0.29708086 0.240026365 1.116176686 0.061580446 0.177697792 2.94E-06 5.531569104 1.000888578 NKDQGTYEDYVEGLR ddPTM_HeLa_SAHA_4h_R1 4 NKDQGTYEDYVEGLR 15 1 P60660-2;F8W1R7;G8JLA2;G3V1V0;P60660;J3KND3;B7Z6Z4;G3V1Y7;F8VPF3;F8VZU9;F8W180 P60660-2 MYL6 Myosin light polypeptide 6 0 0 ;;; ;;; 183.06 2.72E-06 91365500 5286.66 4444.28 5084.3 5509.8 6216.74 4854.58 6125.84 5297.35 5179.81 4879.17 FALSE FALSE TRUE 5842.735155 4588.277588 5777.161926 5616.450146 5740.414724 4440.942473 5436.544361 5161.851457 5143.76328 5089.534897 1.147989998 0.901512158 1.135106064 1.103529155 1.127885915 0.872563518 1.068180977 1.014208874 1.01065488 1 12.31331811 -5.301421876 24.99987182 1.069385903 0.993303775 0.136590818 0.084942888 767.9487306 480174.4099 0.012527113 0.028011794 5.00E-06 5.301421876 -0.076082128 NKDSGSDTASAIIPSTTPS(ph)VDSDDESVVK ddPTM_HeLa_SAHA_4h_R1 1 NKDSGSDTASAIIPSTTPSVDSDDESVVK 29 1 Q6WKZ4;E7EX40;Q6WKZ4-2;Q6WKZ4-3 Q6WKZ4 RAB11FIP1 Rab11 family-interacting protein 1 1 0 NKDSGSDTASAIIPS(0.039)T(0.081)T(0.013)PS(0.707)VDS(0.159)DDES(0.001)VVK 161.61 1.56E-15 46567000 4406.9 4827 3752.4 4401.6 5613.5 5228.1 6430.5 4989.5 3905.6 4465.9 TRUE FALSE FALSE 4870.437962 4983.397967 4263.75753 4486.799333 5183.394843 4782.636468 5706.923216 4861.875815 3878.420612 4658.446805 1.045506832 1.069755259 0.915274492 0.963153498 1.112687353 1.026659028 1.225069955 1.043668849 0.832556595 1 12.1856333 -5.333810658 1.836393645 1.014923715 1.122476559 0.25050417 0.088284308 0.322163821 2.078679398 0.009485383 0.029257265 4.64E-06 5.333810658 0.107552843 NKDSGSDTASAIIPSTTPSVDS(ph)DDESVVK ddPTM_HeLa_SAHA_4h_R1 1 NKDSGSDTASAIIPSTTPSVDSDDESVVK 29 1 Q6WKZ4;E7EX40;Q6WKZ4-2;Q6WKZ4-3 Q6WKZ4 RAB11FIP1 Rab11 family-interacting protein 1 1 0 NKDSGSDTASAIIPS(0.004)T(0.003)T(0.001)PS(0.031)VDS(0.888)DDES(0.075)VVK 129.59 1.88E-12 50626000 1720.5 1961.2 1968.3 1369.4 2109.7 1794.2 2557.9 1878.1 2012.9 1652.9 TRUE FALSE FALSE 1901.470084 2024.744167 2236.529674 1395.906717 1948.055242 1641.324066 2270.07836 1830.060921 1998.892065 1724.164608 1.102835585 1.174333447 1.29716714 0.809613369 1.129854558 0.951953229 1.316625077 1.061418911 1.15933946 1 10.7516818 -8.953506985 0.947615274 1.004519327 1.105403577 0 0.149351483 1.13444237 1.960213583 0.069590762 0.026172837 1.11E-09 8.953506985 0.10088425 NKELYEINPPEIS(ph)EEIIGSPIPEPR ddPTM_HeLa_SAHA_4h_R1 2 NKELYEINPPEISEEIIGSPIPEPR 25 1 Q86YS7;Q86YS7-5;Q86YS7-3;Q86YS7-2;Q86YS7-4 Q86YS7;Q86YS7-3 C2CD5 C2 domain-containing protein 5 1 0 NKELYEINPPEIS(0.999)EEIIGS(0.001)PIPEPR;NKELYEINPPEIS(1)EEIIGSPIPEPR ; 139.52 1.87E-09 29529000 6390.2 6651.4 6607.5 7013.5 7449.1 7752.1 7778 7157.4 6635.9 8270.9 TRUE FALSE FALSE 7062.350555 6866.909724 7507.93569 7149.256434 6878.351567 7091.577468 6902.798969 6974.324072 6589.720232 8627.498976 0.818586079 0.795932836 0.870233159 0.828659204 0.797259042 0.821973725 0.800092702 0.808383066 0.763804232 1 13.07472668 -9.247309153 0.572799463 1.030905746 0.813263543 0 0.076584476 0.259205191 0.121911627 0.030251026 0.00515885 5.66E-10 9.247309153 -0.217642203 NKHEAMITDLEER ddPTM_HeLa_SAHA_4h_R1 4 NKHEAMITDLEER 13 1 P35579 P35579 MYH9 Myosin-9 0 0 ;;; ;;; 102.33 0.0026909 38856000 20610.2 17520.1 20569 23124.7 23340 5552.31 23208.4 18047.4 25001.4 22292.4 FALSE FALSE TRUE 22778.0754 18087.76274 23372.0362 23572.31201 21551.69424 5079.221952 20596.92975 17585.77364 24827.41322 23253.53446 0.979553256 0.777850041 1.005096074 1.013708778 0.926813697 0.218427954 0.885754799 0.756262394 1.067683421 1 14.5051624 -5.49145031 24.94406101 0.974907868 0.634360928 0.457477917 0.173656618 415.2790628 329597.57 0.022688925 0.050683597 3.23E-06 5.49145031 -0.34054694 NKPGPNIES(ph)GNEDDDASFK ddPTM_HeLa_SAHA_4h_R1 8 NKPGPNIESGNEDDDASFK 19 1 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 1 0 NKPGPNIES(1)GNEDDDASFK;NKPGPNIES(0.996)GNEDDDAS(0.004)FK;NKPGPNIES(0.995)GNEDDDAS(0.005)FK;NKPGPNIES(0.997)GNEDDDAS(0.003)FK;NKPGPNIES(1)GNEDDDASFK;NKPGPNIES(1)GNEDDDASFK;NKPGPNIES(1)GNEDDDASFK;NKPGPNIES(0.95)GNEDDDAS(0.05)FK ;;;;;;; 153.83 1.90E-05 4330133100 19182.06 17822.35 17527.36 19116.95 19064.23 22031.21 20382.36 20572.67 19711.14 18535.88 TRUE FALSE FALSE 21199.71708 18399.80583 19915.89734 19486.98621 17603.53282 20154.02696 18088.88321 20046.45089 19573.96857 19335.0525 1.096439592 0.951629474 1.030041027 1.007857942 0.9104466 1.042356982 0.935548699 1.036793197 1.012356629 1 14.23893106 -7.252089843 24.84509058 1.045540919 0.987318194 0.166670269 0.048324966 696.1959132 1850045.927 0.008539228 0.010387367 5.60E-08 7.252089843 -0.058222725 NKPLEQS(ph)VEDLSK ddPTM_HeLa_SAHA_4h_R1 2 NKPLEQSVEDLSK 13 1 O95466;O95466-2;O95466-3 O95466 FMNL1 Formin-like protein 1 1 0 NKPLEQS(0.99)VEDLS(0.01)K;NKPLEQS(0.981)VEDLS(0.019)K ; 120.21 0.001813 30224800 3224.31 3157.2 2467.98 3549.1 3876.9 3636.97 3371.1 3909.3 4308 3173 TRUE FALSE FALSE 3563.457719 3259.495352 2804.303462 3617.797963 3579.85276 3327.079695 2991.774956 3809.305767 4278.020277 3309.803558 1.076637225 0.984800244 0.847271873 1.093055192 1.081590704 1.005219686 0.903913149 1.150915968 1.292529965 1 11.69252988 -7.234171091 24.61722104 1.036189809 1.005051966 0.029878738 0.117927437 2139.298208 1931313.656 0.014198532 0.017386409 5.83E-08 7.234171091 -0.031137844 NKQDDDLNCEPLS(ph)PHNITPEPVSK ddPTM_HeLa_SAHA_4h_R1 4 NKQDDDLNCEPLSPHNITPEPVSK 24 1 Q6VMQ6-2;Q6VMQ6-5;Q6VMQ6;Q6VMQ6-4;A8MV73;F8WE35;F5H8I0;F5H2W9;F5H2H9;F5GZ10;F5H502;F5H1K9 Q6VMQ6-2 ATF7IP Activating transcription factor 7-interacting protein 1 1 0 NKQDDDLNCEPLS(0.992)PHNIT(0.008)PEPVSK;NKQDDDLNCEPLS(1)PHNITPEPVSK;NKQDDDLNCEPLS(0.968)PHNIT(0.032)PEPVSK;NKQDDDLNCEPLS(1)PHNITPEPVSK ;;; 123.24 1.51E-06 90057200 7832.08 7721.7 6857.31 7493.5 7452.77 8119.64 8355.7 8413.4 9024.55 7651.12 TRUE FALSE FALSE 8655.894109 7971.888146 7791.788495 7638.547528 6881.740373 7427.800992 7415.494645 8198.19741 8961.747422 7980.997227 1.084562977 0.998858654 0.976292595 0.957091866 0.862265727 0.930685825 0.929143869 1.027214667 1.12288567 1 12.96235331 -6.690053069 1.992867062 1.03955485 0.936571986 0.52071749 0.050381629 0.208043322 1.689501373 0.008193872 0.012075797 2.04E-07 6.690053069 -0.102982864 NKS(ph)LILPDS(ph)S(ph)FDGTES(ph)DR ddPTM_HeLa_SAHA_4h_R1 1 NKSLILPDSSFDGTESDR 18 1 Q99698;Q99698-2 Q99698 LYST Lysosomal-trafficking regulator 4 0 NKS(1)LILPDS(0.993)S(0.996)FDGT(0.339)ES(0.672)DR 44.74 0.019071 2964000 737.46 799.32 666.01 571.24 809.51 984.29 925.05 711.61 900.37 990.6 TRUE FALSE FALSE 815.0294264 825.2184925 756.7703744 582.2971762 747.4855187 900.4229545 820.9609394 693.4080466 894.1042519 1033.309614 0.78875626 0.798616873 0.732375238 0.563526332 0.723389688 0.871397055 0.794496566 0.671055449 0.865282041 1 10.01305688 -8.71596749 0.561904004 1.013005646 0.732433426 0.419441168 0.086491416 0.50869461 0.30169025 0.069573418 0.021986266 1.92E-09 8.71596749 -0.280572221 NKS(ph)NEDQSMGNWQIK ddPTM_HeLa_SAHA_4h_R1 1 NKSNEDQSMGNWQIK 15 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 NKS(0.984)NEDQS(0.016)MGNWQIK 82.865 0.0078325 3286000 1479.7 1390.1 1246.2 1313.1 1742.6 1640 1582.7 1315.1 1799.1 1404 TRUE FALSE FALSE 1635.341635 1435.140152 1416.025646 1338.516949 1609.082364 1500.262774 1404.610431 1281.461646 1786.579917 1464.533311 1.116629866 0.979930017 0.966878415 0.913954595 1.098699738 1.024396483 0.959083976 0.874996585 1.219897085 1 10.51622529 -7.157815713 10.07954186 1.055058318 0.97741816 0.314570196 0.08116516 0.521354455 47.68817597 0.011782094 0.014435226 6.95E-08 7.157815713 -0.077640158 NKS(ph)TESLQANVQR ddPTM_HeLa_SAHA_4h_R1 2 NKSTESLQANVQR 13 1 P26373;J3QSB4 P26373 RPL13 60S ribosomal protein L13 1 0 NKS(0.865)T(0.076)ES(0.058)LQANVQR;NKS(0.988)T(0.011)ES(0.001)LQANVQR ; 167.92 0.00014821 21983100 1336 1896.34 1503.82 1582.26 1644.09 1779.28 1803.47 1403.97 1350.23 1715.15 TRUE FALSE FALSE 1476.52661 1957.78266 1708.752758 1612.88693 1518.120179 1627.675334 1600.538809 1368.05848 1340.833639 1789.09851 0.825290839 1.094284439 0.955091488 0.901508174 0.848539178 0.909774015 0.894606306 0.764663585 0.749446513 1 10.80501711 -5.969431763 4.276306549 0.933945464 0.861657941 0.104332236 0.094544003 0.349013461 14.64491539 0.013401866 0.024413374 1.07E-06 5.969431763 -0.072287523 NLAANDLS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 NLAANDLSPSR 11 0 Q96CB9-4;Q96CB9 Q96CB9-4 NSUN4 5-methylcytosine rRNA methyltransferase NSUN4 1 0 NLAANDLS(0.862)PS(0.138)R 89.747 0.015357 3754000 1190.4 1390.3 918.77 1111 1301.9 1129 1589.1 1393.4 899.7 1331.4 TRUE FALSE FALSE 1315.611734 1435.346632 1043.975191 1132.505012 1202.148703 1032.802848 1410.290286 1357.758846 893.4389144 1388.80317 0.947298914 1.033513361 0.751708531 0.815453936 0.865600489 0.743663948 1.015471678 0.977646707 0.643315722 1 10.43962643 -6.779034428 24.99999722 0.978798012 0.861310243 0 0.135003043 223.9752063 318235.2313 0.013843862 0.018216375 1.66E-07 6.779034428 -0.117487769 NLAANDLSPS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 NLAANDLSPSR 11 0 Q96CB9-4;Q96CB9 Q96CB9-4 NSUN4 5-methylcytosine rRNA methyltransferase NSUN4 1 0 NLAANDLS(0.329)PS(0.671)R 98.368 0.0093418 5184000 1213.3 1689.6 1346.3 885.53 1969.8 1381.6 1452.7 1477.6 1196.8 1459.8 TRUE FALSE FALSE 1340.920461 1744.344149 1529.766753 902.6707136 1818.87435 1263.879907 1289.238373 1439.805132 1188.471371 1522.739122 0.880597629 1.145530527 1.004615125 0.592794065 1.194475352 0.830004227 0.846657418 0.945536311 0.780482588 1 10.57245308 NLAMGVNLTSMSK ddPTM_HeLa_SAHA_4h_R1 3 NLAMGVNLTSMSK 13 0 P12004 P12004 PCNA Proliferating cell nuclear antigen 0 0 ;; ;; 171.26 2.35E-10 3375270 356.79 631.98 564.9 885.1 697.909 704.33 870.02 739.77 209.399 683.997 FALSE FALSE TRUE 394.3188092 652.4565667 641.8816301 902.2323904 644.4353632 644.3171215 772.1230598 720.8477546 207.9417753 713.4874581 0.552663967 0.914461157 0.899639682 1.264538543 0.903218909 0.903053185 1.082181685 1.010315944 0.291444191 1 9.47874426 -6.766979258 2.804663823 0.788568764 1.021950049 0.329130859 0.21300031 0.289905811 4.697462516 0.031391438 0.043975249 1.71E-07 6.766979258 0.233381285 NLANTVTEEILEK ddPTM_HeLa_SAHA_4h_R1 2 NLANTVTEEILEK 13 0 O60506-2;O60506;O60506-4;O60506-3;B7Z645;O60506-5 O60506-2 SYNCRIP Heterogeneous nuclear ribonucleoprotein Q 0 0 ; ; 211.38 2.87E-32 1092930 175.87 145.63 0 148.65 112.15 210.6 178.07 185.17 283.88 216.99 FALSE FALSE TRUE 194.3688135 150.3485076 0 151.5273357 103.5570912 192.6556952 158.0330949 180.4336195 281.904456 226.3455008 0.858726208 0.664243411 0 0.669451503 0.457517781 0.851157609 0.698194108 0.797160177 1.245460833 1 7.82238282 -7.307673388 3.18847733 0.939112686 0.578223233 0.398124364 0.244122849 0.215414327 4.289997565 0.040405622 0.046934667 4.92E-08 7.307673388 -0.360889453 NLAPHHAS(ph)PDPPAPPASASDPHR ddPTM_HeLa_SAHA_4h_R1 2 NLAPHHASPDPPAPPASASDPHR 23 0 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;Q9Y618-2 C9JE98;Q9Y618-2 NCOR2 Nuclear receptor corepressor 2 1 0 NLAPHHAS(1)PDPPAPPASASDPHR;NLAPHHAS(1)PDPPAPPASASDPHR ; 104.68 3.83E-05 16211100 2965.1 3426.1 2595.4 3429.2 3385.1 2271.74 3260 3318.4 4199 3284.1 TRUE FALSE FALSE 3276.982822 3537.107888 2949.087596 3495.577125 3125.734369 2078.174972 2893.17622 3233.520133 4169.778817 3425.693623 0.95658958 1.032523126 0.860873131 1.020399811 0.912438389 0.606643559 0.844551947 0.943902313 1.217207163 1 11.74218041 -5.512074777 24.5952235 0.97572471 0.795743938 0.382217928 0.117377215 267.1850526 608245.3406 0.012122332 0.025608575 3.08E-06 5.512074777 -0.179980772 NLATSADT(ph)PPSTVPGTGK ddPTM_HeLa_SAHA_4h_R1 2 NLATSADTPPSTVPGTGK 18 0 Q96Q15;J3KRA9;Q96Q15-4;Q96Q15-3;Q96Q15-2 Q96Q15 SMG1 Serine/threonine-protein kinase SMG1 1 0 NLATS(0.001)ADT(0.995)PPS(0.003)T(0.001)VPGTGK;NLAT(0.006)S(0.05)ADT(0.575)PPS(0.297)T(0.072)VPGTGK ; 175.8 9.75E-09 15411100 7732.2 7112.7 6881 8326 9003.3 9021.9 7958.6 8431.4 6799.6 8142.3 TRUE FALSE FALSE 8545.508273 7343.156147 7818.706845 8487.16177 8313.469099 8253.183364 7063.077382 8215.736997 6752.28103 8493.3544 1.006140551 0.86457668 0.920567596 0.999270885 0.978820464 0.971722476 0.831600455 0.967313574 0.795007568 1 13.05211873 -7.342999474 24.99941033 1.002899813 0.9347529 0 0.082180247 89.16148823 27328.45358 0.008415389 0.00962336 4.54E-08 7.342999474 -0.068146913 NLDDGIDDER ddPTM_HeLa_SAHA_4h_R1 2 NLDDGIDDER 10 0 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YAR2;Q9H361;H0YAP2 P11940 PABPC1;PABPC3 Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 3 0 0 ; ; 169.99 0.00057981 42023000 4290.8 4112.8 3498.1 4153.9 4223 5164 4708.1 3753.5 5178.6 3901.4 FALSE FALSE TRUE 4742.126031 4246.057419 3974.802851 4234.304741 3899.434652 4723.998148 4178.332197 3657.490905 5142.561701 4069.608447 1.165253634 1.043357727 0.976704001 1.040469813 0.958184234 1.16079918 1.026716022 0.898732876 1.263650243 1 11.99067428 -7.005019374 24.83183649 1.07941903 1.016293719 0.207270058 0.093784672 363.1541914 1796605.898 0.013934079 0.018043963 9.89E-08 7.005019374 -0.063125311 NLDDGIDDERLR ddPTM_HeLa_SAHA_4h_R1 3 NLDDGIDDERLR 12 1 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YAR2;Q9H361;H0YAP2 P11940 PABPC1;PABPC3 Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 3 0 0 ;; ;; 232.78 1.29E-22 134615000 9805.2 9005.8 9444.4 9621.2 10188.2 10394.1 10967 10042.9 9248.2 9354.2 FALSE FALSE TRUE 10836.55592 9297.593829 10731.43365 9807.432238 9407.582317 9508.464204 9732.964296 9786.01716 9183.841023 9757.50534 1.110586727 0.952865871 1.099813249 1.005116769 0.964138065 0.974476966 0.997484906 1.00292204 0.941207891 1 13.25229663 -6.014400199 22.64120126 1.0479651 0.984892647 0 0.055112773 204.7250067 321888.692 0.007668574 0.013061487 9.67E-07 6.014400199 -0.063072453 NLDDTIDDEK ddPTM_HeLa_SAHA_4h_R1 1 NLDDTIDDEK 10 0 B1ANR0;Q13310-2;Q13310;Q13310-3;H0Y5F5;H0YEU6;P0CB38 B1ANR0 PABPC4;PABPC4L Polyadenylate-binding protein;Polyadenylate-binding protein 4;Polyadenylate-binding protein 4-like 0 0 144.17 0.0056565 2992500 1225.1 973.5 908.16 1300.5 1237.3 1706.1 1305.7 1107.7 1177.7 1222.1 FALSE FALSE TRUE 1353.961639 1005.042039 1031.919315 1325.673058 1142.498341 1560.730682 1158.7792 1079.366638 1169.50429 1274.790712 1.062105039 0.788397679 0.809481357 1.039914274 0.896224243 1.224303462 0.90899564 0.846701053 0.917408857 1 10.3160447 NLDDTIDDEKLR ddPTM_HeLa_SAHA_4h_R1 2 NLDDTIDDEKLR 12 1 B1ANR0;Q13310-2;Q13310;Q13310-3;H0Y5F5;H0YEU6;P0CB38 B1ANR0 PABPC4;PABPC4L Polyadenylate-binding protein;Polyadenylate-binding protein 4;Polyadenylate-binding protein 4-like 0 0 ; ; 143.94 0.00079921 9474300 2601.2 2795.1 2877.7 3637.8 3140 3473.3 3110.3 3580.4 3541.5 2768.2 FALSE FALSE TRUE 2874.806151 2885.663074 3269.85797 3708.214879 2899.413878 3177.3553 2760.320858 3488.818552 3516.854413 2887.550649 0.995586398 0.999346306 1.132398481 1.284207735 1.004108406 1.100363486 0.955938508 1.208227656 1.217936875 1 11.49563054 -6.769458035 24.4529965 0.997964838 1.109106862 0 0.111350268 130.9334771 399283.1832 0.01347265 0.01788433 1.70E-07 6.769458035 0.111142024 NLDIERPTYTNLNR ddPTM_HeLa_SAHA_4h_R1 3 NLDIERPTYTNLNR 14 1 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;P0DPH7-2;Q6PEY2;F8VQQ4;F8VVB9;Q9NY65;C9J2C0;Q9NY65-2;C9JDS9;P68363;P68366-2;P68366 Q9BQE3;P68363;P68366-2 TUBA1C;TUBA3E;TUBA1A;TUBA1B;TUBA8;TUBA4A Tubulin alpha-1C chain;Tubulin alpha-3E chain;Tubulin alpha-8 chain;Tubulin alpha-1B chain;Tubulin alpha-4A chain 0 0 ;; ;; 98.337 0.008338 168909000 6301.2 6146.1 6503.8 7595 6425 6884.6 7147.6 5921.9 6442.6 6545.8 FALSE FALSE TRUE 6963.989127 6345.237673 7390.103994 7742.012208 5932.717888 6297.993348 6343.333237 5770.426373 6397.765422 6828.021472 1.019913185 0.929293749 1.08231997 1.133858796 0.868878036 0.922374567 0.929014834 0.845109582 0.936986717 1 12.73725188 -5.728112661 24.99999808 1.01680148 0.896251396 0.502652968 0.061184771 116.057865 87060.13997 0.00806151 0.016122256 1.87E-06 5.728112661 -0.120550085 NLDK(ac)SIDNK ddPTM_HeLa_SAHA_4h_R1 2 NLDKSIDNK 9 1 P11940;P11940-2;A0A087WTT1;E7EQV3;E5RH24;E5RJB9;E5RGH3;B1ANR1;H0YEQ8;B1ANR0;Q13310-2;Q13310;Q13310-3;H0Y5F5;P0CB38 P11940;B1ANR0 PABPC1;PABPC4;PABPC4L Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 4;Polyadenylate-binding protein 4-like 0 1 ; NLDK(1)SIDNK;NLDK(1)SIDNK 140.17 0.00021082 3369700 3056.9 3254.1 2900.7 2871.3 3366 3753.8 3557.9 3451.3 3172.6 2991.9 FALSE TRUE FALSE 3378.438768 3359.534975 3295.99229 2926.878163 3108.097807 3433.955122 3157.555728 3363.020743 3150.521618 3120.895451 1.082522251 1.076465081 1.056104679 0.937832814 0.995899368 1.100310848 1.011746717 1.077581994 1.009492842 1 11.60774431 -13.52269364 0.005580377 0.529429319 1.509224231 0.03026707 0.048130104 162420.177 73.33898059 6966.673623 5948.153438 3.00E-14 13.52269364 0.979794912 NLDNVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 NLDNVSPK 8 0 A0A0A0MSG8;P78563-6;P78563-2;P78563-3;P78563-4;P78563;P78563-5 A0A0A0MSG8 ADARB1 Double-stranded RNA-specific editase 1 1 0 NLDNVS(1)PK;NLDNVS(1)PK;NLDNVS(1)PK ;; 128.88 0.0021524 75889000 12179.8 12388.5 9472.1 10899.1 13117.8 15016.8 12796.9 11821.3 13810.9 12448.9 TRUE FALSE FALSE 13460.92725 12789.89553 10762.90846 11110.06784 12112.717 13737.28416 11356.95913 11518.92826 13714.78882 12985.633 1.036601546 0.984926613 0.828832022 0.855566135 0.932778325 1.05788329 0.874578785 0.887051733 1.056150965 1 13.66462872 -6.984608206 23.91974309 1.01694091 0.910193131 0.468741691 0.059950882 107.7257337 167410.9451 0.00992207 0.013037146 1.04E-07 6.984608206 -0.106747779 NLDSATSPQNGDQQNGYGDLFPGHK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 NLDSATSPQNGDQQNGYGDLFPGHKK 26 1 Q92585 Q92585 MAML1 Mastermind-like protein 1 0 1 NLDSATSPQNGDQQNGYGDLFPGHK(1)K 193.96 9.06E-35 3148200 747.45 660.63 761.44 1146.3 1224.8 1207.1 1583 1331.3 693.32 862.46 FALSE TRUE FALSE 826.0702204 682.0348455 865.2050778 1168.488294 1130.956089 1104.248289 1404.876674 1297.247274 688.4951297 899.6448714 0.918218118 0.758115638 0.961718457 1.29883283 1.257113917 1.227426871 1.561590266 1.441954837 0.765296565 1 9.81321181 -6.196471997 3.033915571 0.940471211 1.368921364 0.794712417 0.119696659 0.09697647 1.762121252 0.01796701 0.030688898 6.36E-07 6.196471997 0.428450154 NLEEEENLGKGEYQESLRS(ph)LEEEGQELPQSADVQR ddPTM_HeLa_SAHA_4h_R1 1 NLEEEENLGKGEYQESLRSLEEEGQELPQSADVQR 35 2 P48681 P48681 NES Nestin 1 0 NLEEEENLGKGEY(0.144)QES(0.179)LRS(0.677)LEEEGQELPQSADVQR 81.548 6.50E-08 10571000 797.46 556.03 818.05 731.42 640.36 802.39 738.39 615.24 601.56 708.08 TRUE FALSE FALSE 881.3405017 574.0457368 929.5295938 745.5776918 591.2957551 734.0218579 655.3044139 599.5030517 597.373695 738.6087941 1.193243986 0.777198622 1.258487038 1.009435168 0.800553365 0.993789762 0.887214476 0.811665196 0.808782267 1 9.52866663 -5.963570942 7.728869453 1.078890129 0.884878322 0.067774976 0.154885039 0.197976333 34.9401706 0.019312681 0.034983982 1.09E-06 5.963570942 -0.194011806 NLEELEEKST(ph)TPPPAEPVSLPQEPPKPR ddPTM_HeLa_SAHA_4h_R1 1 NLEELEEKSTTPPPAEPVSLPQEPPKPR 28 2 Q9UN86-2 Q9UN86-2 G3BP2 Ras GTPase-activating protein-binding protein 2 1 0 NLEELEEKS(0.2)T(0.4)T(0.4)PPPAEPVSLPQEPPKPR 74.525 0.00026424 211850000 4539.3 2674.1 4104.8 3684.7 4210.3 3425.6 4300 5156.5 2189.9 3169.8 TRUE FALSE FALSE 5016.764401 2760.742595 4664.180767 3756.022697 3887.707724 3133.719608 3816.152683 5024.604197 2174.660308 3306.465591 1.517258917 0.834952767 1.410624318 1.135963038 1.17578956 0.947755094 1.154148615 1.519629967 0.657699361 1 11.69107417 NLEELEEKSTT(ph)PPPAEPVSLPQEPPKPR ddPTM_HeLa_SAHA_4h_R1 1 NLEELEEKSTTPPPAEPVSLPQEPPKPR 28 2 Q9UN86-2 Q9UN86-2 G3BP2 Ras GTPase-activating protein-binding protein 2 1 0 NLEELEEKS(0.03)T(0.03)T(0.939)PPPAEPVSLPQEPPKPR 83.411 2.42E-05 291760000 4385.1 2999.7 5094.1 4071.7 4459.8 4028.4 5354.7 4952.4 2476.4 3920.5 TRUE FALSE FALSE 4846.344938 3096.892248 5788.297419 4150.513641 4118.091087 3685.157657 4752.175063 4825.724779 2459.166531 4089.531941 1.185061031 0.757273031 1.41539362 1.014911658 1.006983475 0.901119666 1.162033976 1.18001885 0.601332027 1 11.99772002 -4.556822938 24.9994138 1.066825135 1.175523597 0.004367293 0.220500838 346.8558621 255453.6793 0.021723933 0.08128426 2.77E-05 4.556822938 0.108698462 NLEPCSSAVDTLR ddPTM_HeLa_SAHA_4h_R1 1 NLEPCSSAVDTLR 13 0 E9PHY8;Q8NDA8-3;Q8NDA8 E9PHY8 MROH1 Maestro heat-like repeat-containing protein family member 1 0 0 104.05 0.022279 3426400 354.9 595.3 560.94 515.37 487.63 597.03 527.97 564.92 486.36 344.37 FALSE FALSE TRUE 392.2300103 614.5881106 637.381982 525.3457316 450.2678947 546.1596852 468.5614261 550.4701644 482.9753812 359.217476 1.091901248 1.710908159 1.774362398 1.462472643 1.253468789 1.520415129 1.304394851 1.532414766 1.344520836 1 8.488713729 -7.366412417 6.220910653 1.040619052 1.498920124 0.43549936 0.178013389 0.108738919 5.51946446 0.027572452 0.031414875 4.30E-08 7.366412417 0.458301073 NLEPEWAAAASEVK ddPTM_HeLa_SAHA_4h_R1 2 NLEPEWAAAASEVK 14 0 Q15084-3;Q15084;Q15084-4;Q15084-5;Q15084-2 Q15084-3 PDIA6 Protein disulfide-isomerase A6 0 0 ; ; 211.77 2.33E-16 8210900 3362.6 3706.4 3314.7 3785.3 3748.4 4495.5 4070.6 4190.5 4475.9 3791.7 FALSE FALSE TRUE 3716.293696 3826.489792 3766.410054 3858.569955 3461.198402 4112.458109 3612.565375 4083.313078 4444.751847 3955.178743 0.939601959 0.967463177 0.952273032 0.975574103 0.875105432 1.039765426 0.913376009 1.032396598 1.123780273 1 11.94952718 -9.496755029 1.232715798 1.000082315 0.958070223 0.169098245 0.061399967 0.81992665 2.222696331 0.02908472 0.007007792 3.19E-10 9.496755029 -0.042012092 NLEQILNGGES(ph)PK ddPTM_HeLa_SAHA_4h_R1 5 NLEQILNGGESPK 13 0 G3V3G7;G3V340;Q13033-2;Q13033 G3V3G7 STRN3 Striatin-3 1 0 NLEQILNGGES(1)PK;NLEQILNGGES(1)PK;NLEQILNGGES(1)PK;NLEQILNGGES(1)PK;NLEQILNGGES(1)PK ;;;; 170.35 2.47E-05 19677500 7768.52 9144.5 6734.05 8355.32 10234.1 10052 8686.55 8010.7 11246.4 8888.3 TRUE FALSE FALSE 8585.648577 9440.7878 7651.731265 8517.049301 9449.965469 9195.513049 7709.116532 7805.797893 11168.13539 9271.518111 0.926024031 1.018256955 0.825294323 0.918625105 1.019246833 0.991802307 0.831483738 0.841911519 1.204563832 1 13.17858987 NLETFCEETRR ddPTM_HeLa_SAHA_4h_R1 2 NLETFCEETRR 11 1 A0A6I8PL42;B4DER1;A0A6I8PIT3;A0A6I8PIV1;Q9P2J5;A0A6I8PLB3;A0A6I8PS05;A0A6I8PLB8;A0A6I8PRS0;Q9P2J5-2;A0A6I8PTV8;A0A6I8PIP7 A0A6I8PL42 LARS "Leucine--tRNA ligase, cytoplasmic" 0 0 ; ; 103.43 0.0022287 0 2661.5 2509.8 2437.7 2386.7 3013.4 3121.7 2842.5 2349.9 2537.4 2369.53 FALSE FALSE TRUE 2941.448781 2591.119167 2769.897061 2432.89803 2782.513943 2855.713598 2522.654419 2289.792961 2519.742027 2471.692034 1.190054724 1.048317966 1.120648132 0.984304677 1.125752684 1.155367885 1.02061842 0.926407064 1.019440121 1 11.27128328 -4.453234797 3.748725456 1.089439972 0.932969895 0.33555756 0.06547097 0.23287687 5.915207791 0.010861038 0.072140197 3.52E-05 4.453234797 -0.156470077 NLGIGK(ac)VSSFEEK ddPTM_HeLa_SAHA_4h_R1 1 NLGIGKVSSFEEK 13 1 P40926;P40926-2;G3XAL0 P40926 MDH2 "Malate dehydrogenase, mitochondrial;Malate dehydrogenase" 0 1 NLGIGK(1)VSSFEEK 148.96 7.17E-05 935720 147.8 306.69 208.57 138.03 263.74 229.07 242.57 220.38 331.99 433.28 FALSE TRUE FALSE 163.3462821 316.6269572 236.9928334 140.7017702 243.5322982 209.5519473 215.2753852 214.7429987 329.6796546 451.9608212 0.361416907 0.700562842 0.524365879 0.311314087 0.538834976 0.463650691 0.476314262 0.475136314 0.729442994 1 8.820053906 -9.386080685 0.865543083 1.035824508 0.474711254 0.557875355 0.127644541 0.24617631 0.294770319 0.096076556 0.019195957 4.11E-10 9.386080685 -0.561113254 NLGLEELGIELDPR ddPTM_HeLa_SAHA_4h_R1 1 NLGLEELGIELDPR 14 0 E9PEX6;P09622-2;P09622-3;P09622 E9PEX6 DLD "Dihydrolipoyl dehydrogenase;Dihydrolipoyl dehydrogenase, mitochondrial" 0 0 109.72 0.014042 1589700 303.83 399.86 445.94 336.07 480.27 494.8 237.91 350.44 367.77 455.83 FALSE FALSE TRUE 335.7882334 412.8157264 506.7103808 342.5751208 443.4718164 452.6402563 211.1397407 341.4762522 365.2106586 475.4830621 0.706204406 0.868202801 1.065674934 0.720478074 0.93267637 0.951958739 0.444053127 0.718167017 0.768083425 1 8.893250139 -4.768498286 24.99652038 0.873494369 0.581110054 0.461926291 0.127555848 104.8523465 371301.7873 0.019602223 0.060676624 1.70E-05 4.768498286 -0.292384314 NLGLFIVK ddPTM_HeLa_SAHA_4h_R1 1 NLGLFIVK 8 0 Q96Q11-2;Q96Q11 Q96Q11-2 TRNT1 "CCA tRNA nucleotidyltransferase 1, mitochondrial" 0 0 127.12 0.0012855 114140 0 0 61.617 60.381 46.782 0 131.35 0 0 134.07 FALSE FALSE TRUE 0 0 70.01384387 61.54976157 43.19757327 0 116.5701523 0 0 139.8504138 0 0 0.500633798 0.440111401 0.308884129 0 0.833534554 0 0 1 7.127740713 -9.419758634 1.140359593 1.001228473 0.25398364 0 0.402813555 0.309279729 0.717544099 0.182752179 0.045807666 3.80E-10 9.419758634 -0.747244834 NLGLYVK ddPTM_HeLa_SAHA_4h_R1 1 NLGLYVK 7 0 Q14697;Q14697-2;F5H6X6;E9PKU7 Q14697 GANAB Neutral alpha-glucosidase AB 0 0 104.11 0.018948 2973400 1539.9 2308.8 2854 2935.3 2799.4 1743.3 3056.1 1691 1004.1 1526.1 FALSE FALSE TRUE 1701.873747 2383.606635 3242.928257 2992.116976 2584.910577 1594.761032 2712.219585 1647.746669 997.1123863 1591.89764 1.069084912 1.497336622 2.037146219 1.879591314 1.623791953 1.001798729 1.703765065 1.035083304 0.626367149 1 10.63653186 -7.252078471 4.567544744 1.03061808 1.563867753 0.4228581 0.332871386 0.153789349 8.612641145 0.052887793 0.062974968 5.60E-08 7.252078471 0.533249673 NLGS(ph)INTELQDVQR ddPTM_HeLa_SAHA_4h_R1 2 NLGSINTELQDVQR 14 0 A0A087X1A9;O75396 A0A087X1A9 SEC22B Vesicle-trafficking protein SEC22b 1 0 NLGS(1)INTELQDVQR;NLGS(0.994)INT(0.006)ELQDVQR ; 138.91 0.00025665 5065900 578.59 1030.15 654.84 799.83 845.76 709.68 908.45 839.53 560.11 538.61 TRUE FALSE FALSE 639.4487509 1063.527536 744.0781849 815.3118662 780.9580515 649.2112714 806.2288151 818.0560382 556.2121489 561.832113 1.138149166 1.892963238 1.324378169 1.451166367 1.390020316 1.15552539 1.434999525 1.456050694 0.989997076 1 9.133995278 -7.491970946 18.77878493 1.060943654 1.43223311 0.522641927 0.176616808 12.61669578 7666.299356 0.030148486 0.033117545 3.22E-08 7.491970946 0.371289456 NLIDAGVDALR ddPTM_HeLa_SAHA_4h_R1 1 NLIDAGVDALR 11 0 P12268;H0Y4R1 P12268 IMPDH2 Inosine-5-monophosphate dehydrogenase 2 0 0 164.64 1.64E-07 722770 334.89 223.1 205.15 268.23 363.71 236.28 450.42 289.16 393.01 310.53 FALSE FALSE TRUE 370.1152667 230.3285864 233.1067736 273.4219795 335.8426184 216.1476147 399.7375562 281.7637059 390.2750114 323.918468 1.142618601 0.711069634 0.719646444 0.844107411 1.036812197 0.667290186 1.234068433 0.869859961 1.204855697 1 8.339486915 -7.278789181 24.96522425 1.067347674 0.875018741 0.301625616 0.167139716 865.2820001 1245081.101 0.027620058 0.031623069 5.26E-08 7.278789181 -0.192328933 NLIEGFNS(ph)PGQETPLNTFC ddPTM_HeLa_SAHA_4h_R1 1 NLIEGFNSPGQETPLNTFC 19 0 Q96T17-2;Q96T17;Q96T17-5;Q96T17-4 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 NLIEGFNS(1)PGQETPLNTFC 118.48 4.00E-05 0 367.58 306.91 286.64 369.82 442.63 434.34 383.09 392.98 627.58 191.48 TRUE FALSE FALSE 406.2437509 316.8540854 325.7018064 376.9784009 408.715785 397.3317885 339.983705 382.9281406 623.2126197 199.7356399 2.033907174 1.586367288 1.630664445 1.887386753 2.046283704 1.989288385 1.702168452 1.917174826 3.120187364 1 7.641947973 -9.385717701 0.843843478 0.934810477 1.858202364 0 0.680185979 0.260308912 0.292562172 0.165080472 0.032186794 4.11E-10 9.385717701 0.923391887 NLIEGFNSPGQETPLNT(ph)FC ddPTM_HeLa_SAHA_4h_R1 1 NLIEGFNSPGQETPLNTFC 19 0 Q96T17-2;Q96T17;Q96T17-5;Q96T17-4 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 NLIEGFNS(0.018)PGQET(0.444)PLNT(0.538)FC 97.953 0.0027291 2336500 688.89 809.64 623.78 662.16 770.03 799.04 731.75 610.32 1094.5 412.53 TRUE FALSE FALSE 761.3506109 835.8728672 708.7854899 674.9770643 711.0304678 730.9572967 649.4115641 594.7088981 1086.883285 430.3161872 1.76928183 1.94246206 1.647127185 1.568560711 1.652344227 1.698651639 1.509149745 1.382027718 2.525778295 1 8.749253301 -9.26569488 0.983451752 0.998040427 1.65458714 0 0.493198322 0.233429036 0.403108367 0.107371737 0.028913433 5.42E-10 9.26569488 0.656546713 NLILVVR ddPTM_HeLa_SAHA_4h_R1 2 NLILVVR 7 0 A0A087WVQ6;Q00610-2;Q00610 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 ; ; 138.07 0.00015322 10261400 2384.67 3205.6 3789.4 4632.8 3800.1 4117.6 3980.2 2153.73 4694.9 3481.8 FALSE FALSE TRUE 2635.500532 3309.463543 4305.799698 4722.474543 3508.937159 3766.757315 3532.337421 2098.640705 4662.227809 3631.917438 0.725649902 0.911216623 1.185544488 1.300270346 0.966139021 1.037126361 0.972581971 0.577832713 1.283682212 1 11.82651569 -6.983903208 24.83835696 0.867708274 1.020473498 0 0.227531256 385.8312342 595359.7364 0.032763393 0.043052936 1.04E-07 6.983903208 0.152765224 NLLDEELQR ddPTM_HeLa_SAHA_4h_R1 2 NLLDEELQR 9 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 169.65 0.00020476 16416900 3902.8 3699 3448.8 4262 3805.6 4996.8 3569.9 3823.6 3920.3 3452 FALSE FALSE TRUE 4313.314411 3818.850027 3918.784503 4344.497173 3514.01575 4571.044529 3168.205457 3725.797849 3893.018313 3600.832614 1.197865848 1.060546389 1.088299547 1.206525723 0.975889781 1.269440993 0.879853577 1.034704539 1.081143927 1 11.81411482 -4.735944551 24.99987417 1.101695655 0.957279099 0.292659904 0.094249823 240.6750873 235998.9153 0.013639315 0.050994923 1.84E-05 4.735944551 -0.144416557 NLLEDDS(ph)DEEEDFFLR ddPTM_HeLa_SAHA_4h_R1 2 NLLEDDSDEEEDFFLR 16 0 O75379 O75379 VAMP4 Vesicle-associated membrane protein 4 1 0 NLLEDDS(1)DEEEDFFLR;NLLEDDS(1)DEEEDFFLR ; 130.64 0.00013213 6545640 190.35 396.62 427.73 347.02 498.31 481.34 528.6 647.05 365.15 467.22 TRUE FALSE FALSE 210.3718864 409.4707482 486.0188169 353.7370739 460.1295955 440.3271241 469.1205368 630.4993979 362.6088914 487.3641407 0.43165237 0.840174141 0.997239592 0.725816785 0.944118693 0.903486915 0.962566791 1.293692632 0.744020458 1 8.928856294 -1.000017034 0.52282642 0.752205045 20.45822197 0.46188969 0.156550804 92.83352287 0.838601841 0.043117316 2041.944678 0.099996078 1.000017034 19.70601692 NLLEENFEEHSMS(ph)PEREMGNENIPSTVSTISR ddPTM_HeLa_SAHA_4h_R1 1 NLLEENFEEHSMSPEREMGNENIPSTVSTISR 32 1 P38398-8;P38398-4;P38398;P38398-7;Q5YLB2 P38398-8 BRCA1 Breast cancer type 1 susceptibility protein 1 0 NLLEENFEEHS(0.227)MS(0.772)PEREMGNENIPSTVSTISR 61.525 0.00050346 4205200 263.18 309.43 184.57 183.1 346.19 358.56 301.96 226.55 247.28 214.57 TRUE FALSE FALSE 290.8624799 319.455735 209.7222384 186.6441653 319.664997 328.0086708 267.9826661 220.755179 245.5591583 223.8211628 1.299530734 1.427281188 0.937008082 0.833898649 1.428216139 1.465494445 1.197307094 0.986301636 1.097122164 1 7.806202643 -9.47585633 1.243219479 1.001117571 1.210702551 0.064875297 0.210276636 0.838248709 2.3375991 0.147096729 0.036925937 3.34E-10 9.47585633 0.20958498 NLLS(ph)VAYK ddPTM_HeLa_SAHA_4h_R1 1 NLLSVAYK 8 0 P31947-2;P31947;E7EX29;P63104;E7ESK7;E5RIR4;E9PD24;E7EVZ2;E5RGE1;P27348;E9PG15;P31946-2;P31946;Q4VY20;Q4VY19;A0A0J9YWE8;A0A0J9YWZ2;P61981;P62258;P62258-2;B4DJF2;I3L3T1;K7EIT4;Q04917;A2IDB2 P31947-2;E7EX29;P27348;P31946-2;P61981;P62258;Q04917 SFN;YWHAZ;YWHAQ;YWHAB;YWHAG;YWHAE;YWHAH "14-3-3 protein sigma;14-3-3 protein zeta/delta;14-3-3 protein theta;14-3-3 protein beta/alpha;14-3-3 protein beta/alpha, N-terminally processed;14-3-3 protein gamma;14-3-3 protein gamma, N-terminally processed;14-3-3 protein epsilon;14-3-3 protein eta" 1 0 NLLS(1)VAYK 93.096 0.015778 5574800 2377.7 2028.5 2027.4 2045.8 2120.2 2623.3 2338.6 2612.5 2198.9 1940.3 TRUE FALSE FALSE 2627.797395 2094.224731 2303.683514 2085.399417 1957.750734 2399.780082 2075.454573 2545.676033 2183.597676 2023.955829 1.298347206 1.034718595 1.138208394 1.030358167 0.967289259 1.185687972 1.025444599 1.257772525 1.078876152 1 10.98296209 NLLSVAYK ddPTM_HeLa_SAHA_4h_R1 3 NLLSVAYK 8 0 P31947-2;P31947;E7EX29;P63104;E7ESK7;E5RIR4;E9PD24;E7EVZ2;E5RGE1;P27348;E9PG15;P31946-2;P31946;Q4VY20;Q4VY19;A0A0J9YWE8;A0A0J9YWZ2;P61981;P62258;P62258-2;B4DJF2;I3L3T1;K7EIT4;Q04917;A2IDB2 P31947-2;E7EX29;P27348;P31946-2;P61981;P62258;Q04917 SFN;YWHAZ;YWHAQ;YWHAB;YWHAG;YWHAE;YWHAH "14-3-3 protein sigma;14-3-3 protein zeta/delta;14-3-3 protein theta;14-3-3 protein beta/alpha;14-3-3 protein beta/alpha, N-terminally processed;14-3-3 protein gamma;14-3-3 protein gamma, N-terminally processed;14-3-3 protein epsilon;14-3-3 protein eta" 0 0 ;; ;; 143.73 0.00011197 144954000 20970 19206.1 32428.9 26768.7 25982.5 12142.9 28628.3 10115.6 7155.6 11782.4 FALSE FALSE TRUE 23175.72081 19828.39024 36848.14161 27286.8469 23991.72646 11108.25661 25406.96834 9856.857599 7105.803597 12290.39693 1.885677164 1.61332383 2.99812462 2.220176213 1.952070922 0.903815936 2.06722114 0.801996686 0.578159 1 13.58524389 -5.277898451 24.76124837 1.656248067 1.338632142 0.080836774 0.697241811 2073.89956 3120000.776 0.101556672 0.22772993 5.27E-06 5.277898451 -0.317615925 NLLSVAYK(ac)NVVGAR ddPTM_HeLa_SAHA_4h_R1 1 NLLSVAYKNVVGAR 14 1 E7EX29;P63104;E7ESK7;E5RIR4;E9PD24;E7EVZ2;P31946-2;P31946;Q4VY20;Q4VY19;A0A0J9YWE8;A0A0J9YWZ2;P61981;Q04917;A2IDB2 E7EX29;P31946-2;P61981;Q04917 YWHAZ;YWHAB;YWHAG;YWHAH "14-3-3 protein zeta/delta;14-3-3 protein beta/alpha;14-3-3 protein beta/alpha, N-terminally processed;14-3-3 protein gamma;14-3-3 protein gamma, N-terminally processed;14-3-3 protein eta" 0 1 NLLSVAYK(1)NVVGAR 131.13 0.00060934 255200 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 NLNDQVLFIDQGNRPLFEDMTDSDCRDNAPR ddPTM_HeLa_SAHA_4h_R1 1 NLNDQVLFIDQGNRPLFEDMTDSDCRDNAPR 31 2 Q14116-2;Q14116 Q14116-2 IL18 Interleukin-18 0 0 51.104 0.0037305 7403400 359.7 316.71 437.46 402.42 474.42 444.85 704.46 335.26 293.1 404.1 FALSE FALSE TRUE 397.5348964 326.9716118 497.0747706 410.209421 438.0700421 406.9462773 625.1923068 326.6845347 291.0602932 421.5227286 0.943092435 0.775691534 1.179235986 0.97316086 1.039256041 0.965419537 1.483175792 0.775010486 0.69049727 1 8.719466614 -5.657140426 1.08540827 0.966951311 1.11327625 0.08078336 0.206951372 0.960188093 2.164551798 0.027769315 0.090307116 2.20E-06 5.657140426 0.146324939 NLNNSNLFS(ph)PVNR ddPTM_HeLa_SAHA_4h_R1 4 NLNNSNLFSPVNR 13 0 P52948-6;P52948-2;P52948-5;P52948;A0A3B3ITD8;P52948-4;P52948-3;H0YEN4 P52948-6 NUP98 Nuclear pore complex protein Nup98-Nup96;Nuclear pore complex protein Nup98;Nuclear pore complex protein Nup96 1 0 NLNNS(0.004)NLFS(0.996)PVNR;NLNNSNLFS(1)PVNR;NLNNSNLFS(1)PVNR;NLNNSNLFS(1)PVNR ;;; 210.07 9.37E-12 56427500 2637.03 3458.16 2509.14 3329.83 3993.48 4106.62 3909.81 2975.1 4233.18 3210 TRUE FALSE FALSE 2914.404915 3570.206653 2851.072532 3394.283675 3687.500425 3756.712873 3469.867889 2899.00125 4203.720956 3348.398809 0.870387633 1.066242959 0.851473404 1.013703525 1.101272768 1.12194308 1.036276766 0.865787326 1.255442137 1 11.70925565 -6.017502441 24.2119446 0.942424917 1.040564752 0 0.130751886 580.1902538 802605.484 0.013395957 0.022550027 9.61E-07 6.017502441 0.098139835 NLNVILAK ddPTM_HeLa_SAHA_4h_R1 1 NLNVILAK 8 0 P30533;A0A3B3IRQ7 P30533 LRPAP1 Alpha-2-macroglobulin receptor-associated protein 0 0 104.45 0.012031 1116100 528.25 541.15 661.74 633.13 720.35 615.17 673.97 588.15 413.91 675.21 FALSE FALSE TRUE 583.8137587 558.6836151 751.918481 645.3851467 665.1569386 562.7540551 598.1331218 573.1059746 411.0295666 704.3216075 0.828902241 0.793222314 1.067578324 0.916321663 0.944393771 0.799001549 0.849232958 0.813699265 0.583582219 1 9.460090533 -9.446743282 1.171088001 1.000230227 0.875413137 0 0.151969165 0.565620363 1.383704829 0.057093813 0.014112965 3.57E-10 9.446743282 -0.12481709 NLNWTPAEVPQLAAAK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 NLNWTPAEVPQLAAAKR 17 1 Q6ZW49-2;Q6ZW49-1;Q6ZW49 Q6ZW49-2 PAXIP1 PAX-interacting protein 1 0 1 NLNWTPAEVPQLAAAK(1)R 135.81 6.85E-06 420000 186.1 0 52.422 240.25 210.58 155.38 279.15 176.91 0 0 FALSE TRUE FALSE 205.6748519 0 59.56579716 244.9003862 194.4454059 142.1407499 247.7393073 172.3848984 0 0 0 NLPFDFTWK ddPTM_HeLa_SAHA_4h_R1 2 NLPFDFTWK 9 0 A0A087X0X3;P52272-2;P52272;M0R2I7;M0QY96 A0A087X0X3 HNRNPM Heterogeneous nuclear ribonucleoprotein M 0 0 ; ; 137.13 0.00089896 920300 203.55 197.01 267.919 449.512 204.835 521.83 566.64 238.15 177.96 486.35 FALSE FALSE TRUE 224.9603229 203.3932533 304.4296061 458.2129548 189.1405866 477.3671483 502.8801759 232.0584678 176.7215619 507.3189286 0.443429784 0.400917927 0.600075394 0.903204925 0.372823831 0.940960649 0.991250567 0.457421268 0.348344112 1 8.98674918 -9.523515631 1.313877847 0.997646019 0.6267759 0 0.297794035 0.477193142 1.489597664 0.154788226 0.038128918 3.00E-10 9.523515631 -0.370870118 NLQDAMQVCR ddPTM_HeLa_SAHA_4h_R1 2 NLQDAMQVCR 10 0 B4DUR8;P49368-2;P49368 B4DUR8 CCT3 T-complex protein 1 subunit gamma 0 0 ; ; 137.05 0.0055747 26859000 1686.59 1804.14 1897.22 1835.62 2225.44 1399.33 2121.54 1407.27 1186.26 1370.08 FALSE FALSE TRUE 1863.993275 1862.59532 2155.763261 1871.151079 2054.927268 1280.099212 1882.818736 1371.274071 1178.00472 1429.150854 1.304266285 1.303288113 1.50842247 1.309274717 1.437865893 0.895706152 1.317438765 0.959502678 0.824268982 1 10.48094249 -3.089395579 14.01438013 1.19443122 1.188481678 0 0.230073045 0 0 0.02804156 0 0.000813963 3.089395579 -0.005949542 NLQDGQIS(ph)DTGDLGEDIASN ddPTM_HeLa_SAHA_4h_R1 1 NLQDGQISDTGDLGEDIASN 20 0 H0YHT2;A0A1B0GV47;Q7Z4S6-6;Q7Z4S6-3;Q7Z4S6-5;Q7Z4S6-2;Q7Z4S6;Q7Z4S6-4;H0YI78 H0YHT2 KIF21A Kinesin-like protein KIF21A 1 0 NLQDGQIS(0.981)DT(0.019)GDLGEDIASN 130.02 2.56E-07 0 1463.2 1093.1 945.4 1196.1 1227.6 1229.2 1225.8 1400.5 1080.9 1079.2 TRUE FALSE FALSE 1617.106089 1128.517157 1074.234189 1219.252245 1133.541553 1124.465245 1087.869758 1364.677238 1073.377929 1125.729593 1.436496028 1.002476229 0.954255973 1.083077368 1.006939464 0.998876863 0.966368624 1.21226025 0.953495347 1 10.13664461 NLQDGQISDTGDLGEDIAS(ph)N ddPTM_HeLa_SAHA_4h_R1 1 NLQDGQISDTGDLGEDIASN 20 0 H0YHT2;A0A1B0GV47;Q7Z4S6-6;Q7Z4S6-3;Q7Z4S6-5;Q7Z4S6-2;Q7Z4S6;Q7Z4S6-4;H0YI78 H0YHT2 KIF21A Kinesin-like protein KIF21A 1 0 NLQDGQISDTGDLGEDIAS(1)N 212.34 1.33E-25 4630700 2106.2 1900.9 1347.6 1815.5 1896.1 2148 1996.6 1831.3 2383 1775.8 TRUE FALSE FALSE 2327.73978 1962.490407 1531.24391 1850.641628 1750.821228 1964.978316 1771.937313 1784.457998 2366.416509 1852.363429 1.256632335 1.059452145 0.82664335 0.999070484 0.945182355 1.060795244 0.956581892 0.963341194 1.277512 1 10.85515146 -6.992711219 24.98430713 1.123127218 0.962607028 0.503561065 0.093067546 154.4757481 529504.8196 0.017258538 0.022655001 1.02E-07 6.992711219 -0.16052019 NLQEAEEWYK ddPTM_HeLa_SAHA_4h_R1 6 NLQEAEEWYK 10 0 P08670;B0YJC4;B0YJC5;P41219-2;H7C5W5;P41219;F8W835 P08670 VIM;PRPH Vimentin;Peripherin 0 0 ;;;;; ;;;;; 192.1 9.40E-18 181747200 8206.37 8295.59 8307.37 8529.56 9043.03 9368.05 9622.93 9153.85 8722.3 8420 FALSE FALSE TRUE 9069.553649 8564.372559 9439.455121 8694.661968 8350.154995 8569.839437 8540.13259 8919.707772 8661.600804 8783.027406 1.03262272 0.975104843 1.074738206 0.989939068 0.950714897 0.975727279 0.972344978 1.015561874 0.986174858 1 13.10050259 -6.012803206 24.84077704 1.016880874 0.976985828 0.238344561 0.029613732 509.7388297 988997.5368 0.004053353 0.006950509 9.71E-07 6.012803206 -0.039895046 NLQEEIDALESR ddPTM_HeLa_SAHA_4h_R1 4 NLQEEIDALESR 12 0 Q9NQP4;E9PQY2 Q9NQP4 PFDN4 Prefoldin subunit 4 0 0 ;;; ;;; 307.97 1.10E-95 16088300 4736.11 4750.95 4655.19 4904.15 5062.97 4990.88 4567.35 4077.1 5353 4071.26 FALSE FALSE TRUE 5234.27578 4904.883897 5289.57505 4999.076915 4675.046332 4565.628946 4053.419757 3972.813686 5315.748037 4246.791943 1.232524656 1.154962137 1.245546078 1.177141942 1.100841858 1.075077142 0.954466292 0.93548583 1.25170908 1 12.05215772 -4.849483341 2.001930706 1.13099068 0.92925073 0.541232867 0.076620978 0.296442249 2.238067832 0.014183057 0.071286158 1.41E-05 4.849483341 -0.201739949 NLQYYDISAK ddPTM_HeLa_SAHA_4h_R1 4 NLQYYDISAK 10 0 F5H018;B5MDF5;J3KQE5;P62826;B4DV51 F5H018 RAN GTP-binding nuclear protein Ran 0 0 ;;; ;;; 182.64 5.61E-17 6362700 6442.86 5899.44 5695.78 6328.15 6502.31 7038.96 7041.35 6313.2 6028.65 5996.06 FALSE FALSE TRUE 7120.549576 6090.585727 6471.971236 6450.640494 6004.104413 6439.201008 6249.038766 6151.717485 5986.696134 6254.579491 1.138453766 0.97378021 1.034757212 1.031346792 0.95995333 1.029517815 0.999114133 0.983554129 0.957170045 1 12.61069718 -7.231262643 24.99888919 1.065380959 1.003490775 0 0.051913119 784.9784006 650289.1373 0.009126799 0.011177504 5.87E-08 7.231262643 -0.061890184 NLRGY(ph)Y(ph)NQSEAVDVWLR ddPTM_HeLa_SAHA_4h_R1 1 NLRGYYNQSEAVDVWLR 17 1 A0A140T9Z4 A0A140T9Z4 2 0 NLRGY(0.998)Y(0.998)NQS(0.005)EAVDVWLR 48.423 0.020888 218020000 1660.5 3560 2007.9 6007.8 3681.8 3168.1 3399.8 6512.7 4452.4 3157.3 TRUE FALSE FALSE 1835.159009 3675.346336 2281.526155 6124.089656 3399.701279 2898.160057 3017.245556 6346.114564 4421.415386 3293.426654 0.557218727 1.115964229 0.69275147 1.859488702 1.032268709 0.879983179 0.916141719 1.926903262 1.342496995 1 11.68537371 -6.371940785 21.05412675 0.808449118 1.261446471 0.136981006 0.401347236 7.861278786 1484.316512 0.056623477 0.086493782 4.25E-07 6.371940785 0.452997352 NLS(ph)FEIK ddPTM_HeLa_SAHA_4h_R1 1 NLSFEIK 7 0 Q05209-2;Q05209-3;Q05209 Q05209-2 PTPN12 Tyrosine-protein phosphatase non-receptor type 12 1 0 NLS(1)FEIK 89.171 0.020724 40392000 2701.9 3369.6 2564.3 3577 3553 4058.2 3818.7 3500.9 3032.9 3366.6 TRUE FALSE FALSE 2986.098239 3478.777251 2913.74945 3646.238007 3280.769908 3712.418529 3389.009826 3411.352047 3011.793802 3511.750602 0.850316146 0.990610566 0.829714231 1.0382964 0.934226339 1.05714185 0.96504855 0.971410682 0.85763317 1 11.77797468 -6.226392842 24.99898478 0.926301685 0.99193267 0.297270883 0.063451676 840.2830448 599381.1041 0.010411438 0.017265091 5.94E-07 6.226392842 0.065630985 NLS(ph)FNELYPSGTLK ddPTM_HeLa_SAHA_4h_R1 2 NLSFNELYPSGTLK 14 0 Q8WYP5;Q8WYP5-3;Q8WYP5-2 Q8WYP5 AHCTF1 Protein ELYS 1 0 NLS(1)FNELYPSGTLK;NLS(0.999)FNELY(0.001)PSGTLK ; 209.66 8.39E-13 17706000 5215.3 3737 3220.7 3878.3 4090.3 4424 3952.4 4101.5 4021.4 4752.5 TRUE FALSE FALSE 5763.869183 3858.081252 3659.600223 3953.370105 3776.902098 4047.050311 3507.66555 3996.589569 3993.41475 4957.403533 1.16267904 0.778246359 0.738209064 0.797467884 0.761871022 0.816364914 0.70756103 0.806186049 0.80554563 1 12.27536898 -7.250277379 24.5172843 1.076820657 0.770738169 0.441834231 0.098030886 154.7915655 339999.0843 0.010798785 0.013158607 5.62E-08 7.250277379 -0.306082488 NLS(ph)GSTLYPVSNIPR ddPTM_HeLa_SAHA_4h_R1 4 NLSGSTLYPVSNIPR 15 0 H0YLX2;A0A669KBM4;Q2KHR2-2;Q2KHR2 H0YLX2 RFX7 DNA-binding protein RFX7 1 0 NLS(0.99)GS(0.009)TLYPVSNIPR;NLS(0.769)GS(0.213)T(0.017)LY(0.001)PVSNIPR;NLS(0.976)GS(0.015)T(0.009)LYPVSNIPR;NLS(0.995)GS(0.004)T(0.001)LYPVSNIPR ;;; 164.82 4.44E-06 55201900 3844.6 3782.04 3714.83 3951.53 3661.99 4727.45 4365.19 4168.02 3633.03 3887.87 TRUE FALSE FALSE 4248.992668 3904.580577 4221.067686 4028.017577 3381.409117 4324.644664 3874.007333 4061.408084 3607.747448 4055.495102 1.04771244 0.962787645 1.040826725 0.993224619 0.83378454 1.066366635 0.955248924 1.001458017 0.889594823 1 11.98566234 -5.997530942 24.9995048 1.018837091 0.963699956 0 0.071016071 105.7902515 1071111.789 0.008139341 0.014691808 1.01E-06 5.997530942 -0.055137135 NLS(ph)NEELTK ddPTM_HeLa_SAHA_4h_R1 4 NLSNEELTK 9 0 Q0JRZ9-3;Q0JRZ9 Q0JRZ9-3 FCHO2 F-BAR domain only protein 2 1 0 NLS(0.998)NEELT(0.002)K;NLS(1)NEELTK;NLS(0.963)NEELT(0.037)K;NLS(1)NEELTK ;;; 147.58 0.00054154 189957600 7575.1 8374.5 7160.5 7577.2 9220.2 9578.7 9669.3 9269.6 8715.4 8457.1 TRUE FALSE FALSE 8371.883774 8645.839295 8136.29565 7723.867663 8513.750268 8762.540872 8581.284916 9032.497054 8654.748822 8821.726969 0.949007355 0.980061991 0.922301912 0.875550523 0.965088842 0.993290872 0.972744333 1.023892157 0.981071943 1 13.10684539 -3.912190086 1.293095973 0.964481047 1.098606412 0.227812367 0.035261531 4.482332113 3.513858383 0.005972552 0.986330812 0.000122408 3.912190086 0.134125365 NLS(ph)PGAVESDVR ddPTM_HeLa_SAHA_4h_R1 4 NLSPGAVESDVR 12 0 A0A3B3IU78;A0A3B3ISK1;A0A3B3ITV3;A0A3B3ISC6;A0A3B3IT15;A0A3B3IS84;P53621;P53621-2 A0A3B3IU78 COPA Coatomer subunit alpha;Xenin;Proxenin 1 0 NLS(1)PGAVESDVR;NLS(0.999)PGAVES(0.001)DVR;NLS(1)PGAVESDVR;NLS(0.998)PGAVES(0.002)DVR ;;; 174.4 5.15E-05 155143000 6333 6353.9 5338 5831.1 6878.5 7741 6358.9 6808.7 5805.7 6116.3 TRUE FALSE FALSE 6999.133997 6559.770529 6065.434841 5943.969372 6351.470816 7081.42325 5643.379836 6634.543313 5765.297661 6380.003625 1.097042323 1.028176615 0.950694576 0.931656112 0.995527775 1.109940318 0.884541791 1.03989648 0.903651158 1 12.63934153 -6.95177022 8.091926489 1.046698101 0.984725426 0 0.076177506 0.344012433 51.10215369 0.010458147 0.013744664 1.12E-07 6.95177022 -0.061972674 NLS(ph)SDEATNPISR ddPTM_HeLa_SAHA_4h_R1 4 NLSSDEATNPISR 13 0 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 NLS(0.498)S(0.498)DEAT(0.004)NPISR;NLS(0.911)S(0.088)DEATNPISR;NLS(0.934)S(0.066)DEATNPISR;NLS(0.927)S(0.073)DEATNPISR ;;; 217.79 3.39E-16 167295000 5011.46 5457.25 4769.06 4899.71 5114.14 5467.4 5390.23 5358.74 5164.52 4854.95 TRUE FALSE FALSE 5538.588356 5634.068481 5418.962661 4994.550972 4722.295698 5001.546761 4783.707134 5221.67119 5128.579685 5064.270654 1.093659627 1.112513305 1.070038122 0.986233026 0.93247301 0.987614427 0.944599422 1.031080593 1.012698577 1 12.30613879 -6.174341307 5.215988265 1.053256566 0.971618106 0.506743724 0.040047749 0.176644808 8.015903219 0.007251223 0.012137661 6.69E-07 6.174341307 -0.08163846 NLSEGNNANYT(ph)EYVATR ddPTM_HeLa_SAHA_4h_R1 1 NLSEGNNANYTEYVATR 17 0 A0A096LNR9;A0A1B0GUM4;A0A669KBC2;O76039;O76039-1;A0A1B0GTX4 A0A096LNR9 CDKL5 Cyclin-dependent kinase-like 5 1 0 NLSEGNNANY(0.004)T(0.518)EY(0.479)VATR 161.21 8.70E-06 4048900 765.78 946.03 703.4 982.97 1182.8 1096.5 1197 1164.7 1045.6 938.72 TRUE FALSE FALSE 846.3282539 976.6819927 799.2556889 1001.996806 1092.17412 1003.072031 1062.31041 1134.90866 1038.323584 979.1928132 0.864312158 0.997435826 0.816239333 1.023288562 1.115382083 1.024386635 1.084883789 1.159024704 1.06038726 1 9.935449159 -6.015944548 9.41940827 0.931185033 1.087554325 0.469690759 0.073063774 0.158984371 88.25529037 0.010216726 0.017509034 9.64E-07 6.015944548 0.156369292 NLSES(ph)PVITK ddPTM_HeLa_SAHA_4h_R1 1 NLSESPVITK 10 0 E7ETD6;E9PE19;A0A2R8Y7Q1;Q12830-4;Q12830;F5GXF5;Q12830-2 E7ETD6 BPTF Nucleosome-remodeling factor subunit BPTF 1 0 NLS(0.192)ES(0.804)PVIT(0.004)K 89.44 0.018666 15780000 4087.7 3026.4 2729.3 3159.8 3334.9 3977.3 3536.5 3794.1 3574.6 2897.3 TRUE FALSE FALSE 4517.663041 3124.457346 3101.23479 3220.962498 3079.380682 3638.411664 3138.563712 3697.052416 3549.724068 3022.216782 1.494817668 1.033829659 1.026145712 1.065761569 1.01891456 1.20388838 1.038497215 1.223291604 1.174543166 1 11.56139143 NLSLSSSTPPLPS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 2 NLSLSSSTPPLPSPGR 16 0 E9PB87;O43516-2;O43516;O43516-3 E9PB87 WIPF1 WAS/WASL-interacting protein family member 1 1 0 NLSLSS(0.001)STPPLPS(0.999)PGR;NLS(0.055)LS(0.009)S(0.119)S(0.2)T(0.119)PPLPS(0.498)PGR ; 127.91 0.00027794 10328800 1908.69 2161.68 2364.32 2094.13 2517.3 2275.54 1988.28 2128.9 2527.4 2401.63 TRUE FALSE FALSE 2109.454772 2231.71985 2686.517217 2134.664914 2324.425018 2081.65119 1764.553502 2074.445821 2509.811618 2505.176023 0.842038544 0.89084353 1.072386608 0.852101767 0.92784898 0.83094009 0.704363081 0.828063897 1.001850407 1 11.29069626 -5.105229338 3.186716186 0.927154443 0.765256295 0.480398127 0.073714255 0.186131706 3.562805986 0.011393981 0.033668277 7.85E-06 5.105229338 -0.161898148 NLSLTDFVGDESPS(ph)PER ddPTM_HeLa_SAHA_4h_R1 4 NLSLTDFVGDESPSPER 17 0 E9PDC2;A0A088AWP5;Q8WUY3-4;Q8WUY3;Q8WUY3-2;Q8WUY3-3 E9PDC2 PRUNE2 Protein prune homolog 2 1 0 NLSLTDFVGDES(0.01)PS(0.99)PER;NLSLTDFVGDES(0.253)PS(0.747)PER;NLSLTDFVGDESPS(1)PER;NLSLTDFVGDES(0.002)PS(0.998)PER ;;; 245.04 1.08E-36 43572200 3809.76 5285.09 4693.67 5046.41 6072.86 6930.88 5378.18 4692.86 5875.28 4993.49 TRUE FALSE FALSE 4210.488037 5456.330384 5333.298904 5144.090563 5607.558779 6340.330032 4773.013032 4572.823436 5834.393448 5208.783791 0.808343791 1.047524835 1.023904834 0.987579974 1.076558176 1.21723809 0.91633925 0.877906171 1.120106666 1 12.34673084 -7.232191461 24.73680107 0.909495669 1.025491329 0 0.117377681 775.9590798 656278.0412 0.018670376 0.022864302 5.86E-08 7.232191461 0.11599566 NLTALGLNLVASGGTAK ddPTM_HeLa_SAHA_4h_R1 2 NLTALGLNLVASGGTAK 17 0 P31939-2;P31939;F8WEF0 P31939-2 ATIC Bifunctional purine biosynthesis protein PURH;Phosphoribosylaminoimidazolecarboxamide formyltransferase;IMP cyclohydrolase 0 0 ; ; 162.81 2.46E-08 857160 444.63 643.97 424.71 462.25 812.96 557.95 534.69 426.73 529.19 671.052 FALSE FALSE TRUE 491.3982234 664.8350505 482.587267 471.1975172 750.6711804 510.4095211 474.525274 415.8148645 525.5073237 699.9843358 0.702013171 0.949785612 0.689425809 0.673154374 1.072411398 0.729172776 0.677908418 0.594034528 0.750741548 1 9.451178828 -13.52287875 0.292746554 3.025843719 0.742010044 0 0.157581541 43.86681999 0.593542789 52.20959233 0.059364194 3.00E-14 13.52287875 -2.283833675 NLTANDPSQEYVAS(ph)EGEEDPEVEFLK ddPTM_HeLa_SAHA_4h_R1 2 NLTANDPSQEYVASEGEEDPEVEFLK 26 0 Q86X95 Q86X95 CIR1 Corepressor interacting with RBPJ 1 1 0 NLTANDPSQEY(0.001)VAS(0.999)EGEEDPEVEFLK;NLTANDPSQEY(0.009)VAS(0.991)EGEEDPEVEFLK ; 155.92 3.29E-10 48689000 5793.9 5131.3 5942.9 5520.9 6372.9 6823.4 6145 6499.4 5780.1 5279.4 TRUE FALSE FALSE 6403.328985 5297.557487 6752.767463 5627.765003 5884.609779 6242.007933 5453.548427 6333.154759 5739.875813 5507.020771 1.16275737 0.961964319 1.22621064 1.021925509 1.068565023 1.133463663 0.99029015 1.150014685 1.042283306 1 12.42705633 -9.642743026 1.475554302 1.000052887 1.096685273 0.093773353 0.079139919 0.550551592 2.156661582 0.05182391 0.011771992 2.28E-10 9.642743026 0.096632386 NLTNPNTVIILIGNK ddPTM_HeLa_SAHA_4h_R1 1 NLTNPNTVIILIGNK 15 0 X6RFL8;P61106 X6RFL8 RAB14 Ras-related protein Rab-14 0 0 214 1.08E-32 351530 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 NLVS(ph)PAYCTQESR ddPTM_HeLa_SAHA_4h_R1 4 NLVSPAYCTQESR 13 0 Q9NUQ3 Q9NUQ3 TXLNG Gamma-taxilin 1 0 NLVS(0.858)PAYCT(0.138)QES(0.004)R;NLVS(0.991)PAYCT(0.009)QESR;NLVS(0.997)PAYCT(0.002)QESR;NLVS(1)PAYCTQESR ;;; 118.52 0.0012173 51530600 4787.25 5076.63 4743 4965.6 5702.69 6493.14 5878.85 6223.46 4983.52 4913.75 TRUE FALSE FALSE 5290.79492 5241.116143 5389.35134 5061.716368 5265.751124 5939.887943 5217.346326 6064.272905 4948.839279 5125.60581 1.032228212 1.022535938 1.05145646 0.987535241 1.027342195 1.15886554 1.017898473 1.183132908 0.965513046 1 12.32350682 -1.00000002 0.40642432 1.013122615 3.428039019 0.521654844 0.046624937 37.74916314 0.441411104 0.009758328 74.15202957 0.099999995 1.00000002 2.414916404 NLVSPAYCTQES(ph)R ddPTM_HeLa_SAHA_4h_R1 1 NLVSPAYCTQESR 13 0 Q9NUQ3 Q9NUQ3 TXLNG Gamma-taxilin 1 0 NLVSPAYCT(0.028)QES(0.971)R 77.372 0.021598 4923700 781.12 1197.6 948.97 430.08 814.13 1654.3 1091.5 609.77 914.01 1044.5 TRUE FALSE FALSE 863.2817855 1236.403026 1078.29069 438.4048203 751.7515353 1513.344333 968.6815473 594.1729663 907.64933 1089.533507 0.792340741 1.134800369 0.989681073 0.402378465 0.6899756 1.388983748 0.889079171 0.545346208 0.833062338 1 10.08949485 -9.540942378 1.147164027 1.004664006 0.857553847 0 0.272174991 1.804359124 4.022814486 0.223207573 0.046430292 2.88E-10 9.540942378 -0.147110159 NLVSPAYCTQES(ph)REEIPGGEAR ddPTM_HeLa_SAHA_4h_R1 1 NLVSPAYCTQESREEIPGGEAR 22 1 Q9NUQ3 Q9NUQ3 TXLNG Gamma-taxilin 1 0 NLVS(0.012)PAY(0.024)CT(0.062)QES(0.902)REEIPGGEAR 59.539 0.007366 80452000 1863.1 2383.8 2168.7 1004.5 1650.8 3100.1 2509.4 956.21 886.88 1986.9 TRUE FALSE FALSE 2059.069406 2461.036684 2464.239142 1023.94355 1524.316061 2835.954039 2227.035708 931.7515328 880.7081299 2072.564983 0.993488466 1.187435233 1.1889804 0.494046536 0.735473229 1.368330577 1.074531185 0.449564448 0.424936317 1 11.01720162 NLVVIPK ddPTM_HeLa_SAHA_4h_R1 1 NLVVIPK 7 0 P15121 P15121 AKR1B1 Aldose reductase 0 0 107.66 0.013135 0 2118.6 2173.2 2157.6 2250.4 2413.8 2925.6 2199.5 2280.3 1980.2 2578.8 FALSE FALSE TRUE 2341.444068 2243.613106 2451.626492 2293.959746 2228.855165 2676.322421 1952.006471 2221.973228 1966.419627 2689.984688 0.870430259 0.834061664 0.911390501 0.852777994 0.82857541 0.994921061 0.725657094 0.826017054 0.731015175 1 11.39338225 -13.52287875 0.167257685 1.594897724 0.81512813 0 0.1066091 39.70280916 0.436073345 7.66800789 0.104147843 3.00E-14 13.52287875 -0.779769594 NLVYDQS(ph)PNR ddPTM_HeLa_SAHA_4h_R1 2 NLVYDQSPNR 10 0 I3L533;I3L2R9;Q9NXR1;Q9NXR1-1;I3L2T8 I3L533 NDE1 Nuclear distribution protein nudE homolog 1 1 0 NLVYDQS(1)PNR;NLVYDQS(1)PNR ; 158.08 3.84E-09 0 4616.4 4171.2 4155 5183.7 4872.3 5273.1 4776.6 4844.8 4529.7 4266.5 TRUE FALSE FALSE 5101.974133 4306.349617 4721.221762 5284.038009 4498.985427 4823.802214 4239.124397 4720.877031 4498.177449 4450.449695 1.146395192 0.967621232 1.060841507 1.187304289 1.010905804 1.083890965 0.952515967 1.060764047 1.010724254 1 12.1197354 -4.786718877 24.99340104 1.067740677 1.006639922 0.070253656 0.069096333 352.0675757 348083.3996 0.010319733 0.030976594 1.63E-05 4.786718877 -0.061100755 NLY(ph)KDVMLENYS(ph)S(ph)LVS(ph)LGYEVMK ddPTM_HeLa_SAHA_4h_R1 1 NLYKDVMLENYSSLVSLGYEVMK 23 1 F5H0T0;J3KQ53;F5H1R3;F5H6X5;F5H3F5;F5H1B1;F5H630;P51523 F5H0T0 ZNF84 Zinc finger protein 84 4 0 NLY(0.731)KDVMLENY(0.646)S(0.677)S(0.943)LVS(0.864)LGY(0.138)EVMK 43.534 0.0084477 0 301.66 509.07 264.18 143.98 453.59 491.56 439.11 368.03 326.73 330.7 TRUE FALSE FALSE 333.3899829 525.564202 300.1810746 146.7669411 418.8360322 449.6763226 389.7001871 358.6163255 324.4562593 344.9580954 0.966465166 1.523559554 0.870195768 0.425463101 1.21416496 1.303567965 1.129702976 1.039593882 0.940567169 1 8.430277308 NLYIISVK ddPTM_HeLa_SAHA_4h_R1 2 NLYIISVK 8 0 C9JD32;B9ZVP7;J3KT29;P62829 C9JD32 RPL23 60S ribosomal protein L23 0 0 ; ; 171.73 4.65E-11 13677000 5545.2 5695.9 5659.7 7707.6 7736.7 6980.7 8237.7 4981.2 6810.7 6865.2 FALSE FALSE TRUE 6128.469578 5880.450897 6430.974442 7856.791743 7143.915717 6385.905088 7310.772316 4853.788117 6763.303784 7161.192369 0.855788989 0.821155276 0.898031237 1.097134575 0.997587462 0.891737683 1.020887575 0.677790494 0.944438221 1 12.80598411 NLYPSS(ph)SPYTR ddPTM_HeLa_SAHA_4h_R1 1 NLYPSSSPYTR 11 0 Q9Y2Z0-2;Q9Y2Z0 Q9Y2Z0-2 SUGT1 Suppressor of G2 allele of SKP1 homolog 1 0 NLYPS(0.128)S(0.436)S(0.436)PYTR 120.03 0.0021842 63607000 3472.1 2854.3 2898.7 3623.2 4303.5 4495 4499.5 3463.8 3627.8 3099.3 TRUE FALSE FALSE 3837.311409 2946.781193 3293.71974 3693.332275 3973.76676 4112.000712 3993.204418 3375.201012 3602.553844 3232.925991 1.186946877 0.911490458 1.01880456 1.142411638 1.229154881 1.271913036 1.235167285 1.044008128 1.114332297 1 11.65862477 -6.012841494 4.915108727 1.069855882 1.202338967 0.36958937 0.089461307 0.197424538 13.34622534 0.015569157 0.027374877 9.71E-07 6.012841494 0.132483085 NLYPSSS(ph)PYTR ddPTM_HeLa_SAHA_4h_R1 1 NLYPSSSPYTR 11 0 Q9Y2Z0-2;Q9Y2Z0 Q9Y2Z0-2 SUGT1 Suppressor of G2 allele of SKP1 homolog 1 0 NLYPS(0.001)S(0.033)S(0.961)PYT(0.004)R 128.57 0.0014682 58915000 2317.1 2253.1 2049.9 2289.9 2446.2 2877.4 2487.5 2253.1 2257.6 2186.6 TRUE FALSE FALSE 2560.823209 2326.101918 2329.249697 2334.224326 2258.772684 2632.229332 2207.599953 2195.468964 2241.889178 2280.875027 1.122737186 1.019828746 1.021208821 1.023389839 0.990309709 1.154043646 0.967874139 0.962555571 0.982907503 1 11.15537169 NMAPGAVCS(ph)PGESK ddPTM_HeLa_SAHA_4h_R1 2 NMAPGAVCSPGESK 14 0 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 NMAPGAVCS(0.876)PGES(0.124)K;NMAPGAVCS(0.985)PGES(0.015)K ; 125.39 0.00069372 30108000 10142.1 11425.6 10028.7 11138 13438 14330.9 12392.3 10200.6 13652 11367 TRUE FALSE FALSE 11208.89261 11795.79694 11395.35901 11353.5921 12408.38334 13109.8267 10997.88579 9939.683422 13556.99462 11857.087 0.945332746 0.994830934 0.961058902 0.957536374 1.046495091 1.105653243 0.927536906 0.838290503 1.143366378 1 13.533462 -4.520617784 24.9870571 0.98630732 0.860602058 0.345751473 0.068143729 49.95888432 552106.3018 0.00702621 0.027229957 3.02E-05 4.520617784 -0.125705262 NMAPSQQS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 4 NMAPSQQSPVR 11 0 H7C3Q7;H0Y6B5;B7Z836;E7EW77;E7EP65;A0A0C4DG21;F8WAL6;Q9NYB9-3;Q9NYB9-2;Q9NYB9-4;Q9NYB9 H7C3Q7 ABI2 Abl interactor 2 1 0 NMAPSQQS(1)PVR;NMAPSQQS(1)PVR;NMAPSQQS(1)PVR;NMAPSQQS(1)PVR ;;; 228.17 2.51E-22 171863000 8230.8 9106.2 9998.3 8470.8 9174.8 8871.4 10908.2 8133.1 7032.7 7851.8 TRUE FALSE FALSE 9096.553308 9401.246855 11360.81626 8634.764583 8471.828806 8115.506811 9680.780627 7925.067079 6983.758868 8190.329524 1.110645583 1.147847205 1.387101242 1.054263392 1.034369714 0.990864505 1.18197694 0.967612726 0.852683503 1 12.99970578 -3.954848648 13.6607271 1.082984006 0.490497697 0.06415079 0.133737874 4261260.656 41919052.64 0.016431532 61879837.22 0.000110956 3.954848648 -0.592486309 NMAQFSVLLPR ddPTM_HeLa_SAHA_4h_R1 1 NMAQFSVLLPR 11 0 B4DUC8;Q13126 B4DUC8 MTAP S-methyl-5-thioadenosine phosphorylase 0 0 133.23 0.00092032 274150 0 0 0 106.63 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 108.6939778 0 0 0 0 0 0 0 NMDDDRLSR ddPTM_HeLa_SAHA_4h_R1 1 NMDDDRLSR 9 1 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 102.62 0.0082884 2138200 1028 609.12 709.96 989.46 854.05 917.32 1132.5 1086.6 607.29 757.28 FALSE FALSE TRUE 1136.129757 628.8558877 806.7096515 1008.612429 788.6128735 839.1591753 1005.068119 1058.806345 603.0638194 789.9300468 1.438266288 0.796090603 1.021241887 1.276837656 0.998332544 1.062320871 1.27235079 1.340379885 0.763439525 1 9.625581089 -4.580658989 6.24350295 1.150954538 1.324556137 0.045217298 0.21108744 0.345799312 26.92049317 0.029365406 0.114590208 2.63E-05 4.580658989 0.173601599 NMGGPYGGGNYGPGGS(ph)GGSGGYGGR ddPTM_HeLa_SAHA_4h_R1 3 NMGGPYGGGNYGPGGSGGSGGYGGR 25 0 P22626;P22626-2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 1 0 NMGGPYGGGNYGPGGS(0.855)GGS(0.145)GGYGGR;NMGGPYGGGNYGPGGS(0.808)GGS(0.192)GGYGGR;NMGGPYGGGNYGPGGS(0.994)GGS(0.006)GGYGGR ;; 180.03 1.80E-13 81729000 3684.01 3051.11 3642.12 3731.83 4055.56 4543.55 3761.17 3960.42 4302.77 3553.86 TRUE FALSE FALSE 4071.511075 3149.967966 4138.449146 3804.064966 3744.823869 4156.413979 3337.953253 3859.118191 4272.826673 3707.084297 1.098305501 0.849715764 1.116362298 1.026160902 1.010180392 1.12120838 0.900425506 1.041011718 1.152611144 1 11.85606921 -4.754854293 24.99872093 1.038264314 0.970718665 0.100734192 0.088029161 267.9718169 1017262.658 0.010619857 0.037969633 1.76E-05 4.754854293 -0.067545649 NMGGPYGGGNYGPGGSGGS(ph)GGYGGR ddPTM_HeLa_SAHA_4h_R1 1 NMGGPYGGGNYGPGGSGGSGGYGGR 25 0 P22626;P22626-2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 1 0 NMGGPYGGGNYGPGGS(0.022)GGS(0.978)GGYGGR 213.71 2.66E-32 58367000 2360.6 2478.8 2483.1 2440.1 2771.7 2947 2710.9 2679.7 2479.8 2518.8 TRUE FALSE FALSE 2608.898739 2559.114746 2821.483937 2487.331664 2559.332945 2695.899021 2405.862397 2611.157154 2462.54287 2627.397795 0.992959172 0.97401115 1.073870102 0.94669017 0.974094197 1.02607189 0.915682582 0.993818736 0.937255438 1 11.35941893 NMGGPYGGGNYGPGGSGGSGGYGGR ddPTM_HeLa_SAHA_4h_R1 4 NMGGPYGGGNYGPGGSGGSGGYGGR 25 0 P22626;P22626-2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 0 0 ;;; ;;; 321.68 3.65E-168 17743800 1288.17 1268.14 1247.06 1112.932 1451.97 1619.63 1325 1563.3 1379.052 1327.77 FALSE FALSE TRUE 1423.665631 1309.228568 1417.002842 1134.474408 1340.720372 1481.628412 1175.907513 1523.31305 1369.455065 1385.016663 1.027905057 0.945280012 1.023094437 0.819105242 0.968017504 1.069754937 0.849020481 1.099851786 0.988764324 1 10.43568762 -7.263929364 24.65476097 1.013177388 0.963514069 0.037877155 0.082901698 351.425471 3479661.746 0.012800202 0.014984703 5.45E-08 7.263929364 -0.049663319 NMPGLSAATLASLGGT(ph)SSR ddPTM_HeLa_SAHA_4h_R1 1 NMPGLSAATLASLGGTSSR 19 0 Q32MZ4-3;Q32MZ4-2;Q32MZ4;C9JTC6;Q32MZ4-4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 NMPGLSAATLAS(0.003)LGGT(0.332)S(0.332)S(0.332)R 103.73 0.0020799 7967400 989.37 1056.8 1041.3 910.34 1399.7 1348.5 1336 1197.2 1081.2 1077.3 TRUE FALSE FALSE 1093.436476 1091.041013 1183.202941 927.9609471 1292.455288 1233.600214 1185.669764 1166.577358 1073.675841 1123.747675 0.973026686 0.970895013 1.052908021 0.825773408 1.150129444 1.09775552 1.055103196 1.038113256 0.955442102 1 10.13410242 -5.715914484 24.99999989 0.980978874 1.084011568 0.472104232 0.061599038 93.0433557 51094.26762 0.008158734 0.016317417 1.92E-06 5.715914484 0.103032694 NMPGLSAATLASLGGTS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 NMPGLSAATLASLGGTSSR 19 0 Q32MZ4-3;Q32MZ4-2;Q32MZ4;C9JTC6;Q32MZ4-4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 NMPGLSAATLASLGGT(0.005)S(0.662)S(0.333)R 186.06 1.07E-13 6883400 682.94 660.83 821.44 704.64 922.02 1335.3 963.62 748.42 1063.6 858.04 TRUE FALSE FALSE 754.7747626 682.2413256 933.3815653 718.2793261 851.3750268 1221.524928 855.1909415 729.2765001 1056.198321 895.0343035 0.843291435 0.762251595 1.04284446 0.802515974 0.951220555 1.364780012 0.955483983 0.814802849 1.180064626 1 9.805799167 -5.50601458 24.89307144 0.911218282 1.056390411 0.057571367 0.173135244 998.9200963 1474497.74 0.021725087 0.047473302 3.12E-06 5.50601458 0.145172129 NMQNVEHVPLSLDR ddPTM_HeLa_SAHA_4h_R1 3 NMQNVEHVPLSLDR 14 0 P20618 P20618 PSMB1 Proteasome subunit beta type-1 0 0 ;; ;; 127.3 6.94E-05 18380900 8545.8 7950.7 7603.2 9503.2 9755.8 9768.2 9708.1 7575.1 9055.9 8273.3 FALSE FALSE TRUE 9444.686454 8208.307897 8639.3245 9687.148178 9008.312712 8935.894406 8615.719038 7381.339911 8992.879255 8630.002452 1.094401364 0.951136218 1.001080191 1.122496573 1.043836634 1.035445176 0.998344912 0.85531145 1.042048285 1 13.07514525 -4.226487034 2.130474641 1.040840578 0.793960014 0.5835416 0.045683648 0.451760156 2.095154202 0.007270257 0.219243613 5.94E-05 4.226487034 -0.246880564 NMS(ph)PDLR ddPTM_HeLa_SAHA_4h_R1 1 NMSPDLR 7 0 Q9UEY8-2;Q9UEY8 Q9UEY8-2 ADD3 Gamma-adducin 1 0 NMS(1)PDLR 97.597 0.015231 10744000 4025.3 5093.6 4554 5414.8 5585.8 6932.4 6047.8 5054 6114.3 4658.5 TRUE FALSE FALSE 4448.699523 5258.635982 5174.595404 5519.611284 5157.817211 6341.720519 5367.285627 4924.725998 6071.750088 4859.350733 0.915492576 1.082168436 1.064873825 1.135874232 1.061421061 1.305055113 1.104527317 1.013453498 1.249498219 1 12.24654785 -7.053737447 2.826536207 0.960284551 1.120920449 0 0.118659182 0.175221291 2.772429028 0.013273925 0.016907207 8.84E-08 7.053737447 0.160635898 NMSVIAHVDHGK ddPTM_HeLa_SAHA_4h_R1 4 NMSVIAHVDHGK 12 0 P13639 P13639 EEF2 Elongation factor 2 0 0 ;;; ;;; 89.805 0.0052046 10176500 8505.31 13411.1 7758.12 12136.2 17212.9 8414.33 15681.3 12627.2 13757.9 13940.4 FALSE FALSE TRUE 9399.93753 13845.62844 8815.356191 12371.1137 15894.05132 7697.381746 13916.79885 12304.21451 13662.15765 14541.43887 0.646424169 0.952149823 0.606223103 0.85074894 1.093017786 0.529341134 0.95704414 0.84614835 0.939532723 1 13.82788241 -9.638174615 1.476307032 0.99957342 0.789200158 0.11582842 0.16676673 0.552389869 2.170727629 0.112887857 0.025864919 2.30E-10 9.638174615 -0.210373262 NMTVEQLLTGS(ph)PTSPTVEPEKPTR ddPTM_HeLa_SAHA_4h_R1 3 NMTVEQLLTGSPTSPTVEPEKPTR 24 1 Q9C0C9;K7ES11 Q9C0C9 UBE2O E2/E3 hybrid ubiquitin-protein ligase UBE2O 1 0 NMTVEQLLTGS(0.999)PT(0.001)SPTVEPEKPTR;NMT(0.002)VEQLLT(0.262)GS(0.685)PT(0.046)S(0.005)PTVEPEKPTR;NMT(0.001)VEQLLT(0.041)GS(0.956)PT(0.002)SPTVEPEKPTR ;; 188.32 4.49E-16 27552900 3965.98 4338.5 3733.36 4242.9 4659.8 5640.8 4184.3 4428.01 4817.3 4569.8 TRUE FALSE FALSE 4383.139973 4479.070247 4242.122858 4325.027465 4302.767131 5160.172106 3713.471552 4314.747916 4783.776017 4766.826442 0.919509033 0.939633591 0.889926015 0.907318007 0.902648163 1.082517303 0.779023863 0.90516153 1.003555736 1 12.21881338 -13.52287875 0.193990321 1.396833438 0.898632259 0.202342395 0.069162249 65.51752435 0.783253753 9.782570197 0.074683139 3.00E-14 13.52287875 -0.49820118 NMTVEQLLTGSPT(ph)S(ph)PTVEPEKPTR ddPTM_HeLa_SAHA_4h_R1 1 NMTVEQLLTGSPTSPTVEPEKPTR 24 1 Q9C0C9;K7ES11 Q9C0C9 UBE2O E2/E3 hybrid ubiquitin-protein ligase UBE2O 2 0 NMTVEQLLT(0.001)GS(0.005)PT(0.956)S(0.957)PT(0.08)VEPEKPTR 90.475 0.00010158 0 262.43 476.43 428.93 489.5 320.24 447.36 442.22 401.83 417.21 407.28 TRUE FALSE FALSE 290.0335915 491.8666446 487.3823466 498.9749803 295.7032804 409.2424112 392.4602417 391.5517704 414.3066016 424.839834 0.682689259 1.1577696 1.147214333 1.174501401 0.696034733 0.963286346 0.923784001 0.921645616 0.97520658 1 8.730775233 -9.410931258 0.007913319 5.18E-07 1.792235774 0 0.17355003 41047.92186 76.6969373 9011.108292 8365.629133 3.88E-10 9.410931258 1.792235255 NNASTDYDLSDK ddPTM_HeLa_SAHA_4h_R1 6 NNASTDYDLSDK 12 0 G5E9G0;P39023;B5MCW2 G5E9G0 RPL3 60S ribosomal protein L3 0 0 ;;;;; ;;;;; 250.48 2.27E-31 54611800 6881.87 7254.95 6035.4 7853.01 7559.58 7735.34 7162.13 6971.69 8152.46 6691.05 FALSE FALSE TRUE 7605.736662 7490.01514 6857.872881 8005.016364 6980.366614 7076.245514 6356.228283 6793.364265 8095.726367 6979.533911 1.089719852 1.073139731 0.982568889 1.146927068 1.000119306 1.013856456 0.910695236 0.97332635 1.159923638 1 12.76891498 -5.047115578 2.262645558 1.047076958 0.942955153 0.369218282 0.060211718 0.240628407 2.384124833 0.007408898 0.026680083 8.97E-06 5.047115578 -0.104121805 NNAYLAQS(ph)PQLYK ddPTM_HeLa_SAHA_4h_R1 1 NNAYLAQSPQLYK 13 0 P14868-2;P14868 P14868-2 DARS "Aspartate--tRNA ligase, cytoplasmic" 1 0 NNAYLAQS(0.993)PQLY(0.007)K 86.803 0.013179 3411400 1215.4 1298.5 1054.8 1153.3 1072 1217.6 1438.2 1206.9 978.37 1175.4 TRUE FALSE FALSE 1343.241348 1340.572252 1198.542651 1175.623789 989.8635916 1113.85363 1276.369951 1176.029246 971.5614435 1226.077246 1.095560131 1.093383191 0.977542528 0.958849691 0.807341947 0.908469375 1.041019197 0.959180385 0.792414545 1 10.25983416 -6.522494998 3.447236541 1.049901576 0.933527704 0 0.101256601 0.189719824 4.778111798 0.010954811 0.016425403 3.00E-07 6.522494998 -0.116373872 NNCPDKTSAAAGSS(ph)SR ddPTM_HeLa_SAHA_4h_R1 2 NNCPDKTSAAAGSSSR 16 1 A0A087X2H1;Q9ULT8;H0YJP0 A0A087X2H1 HECTD1 E3 ubiquitin-protein ligase HECTD1 1 0 NNCPDKT(0.001)SAAAGS(0.102)S(0.515)S(0.382)R;NNCPDKTS(0.001)AAAGS(0.103)S(0.448)S(0.448)R ; 130.01 0.0007168 3727920 1482.23 1150.59 1269.47 1367.68 1515.08 1503.97 1851.68 1566.23 840.43 1010.49 TRUE FALSE FALSE 1638.137752 1187.869871 1442.46676 1394.153424 1398.994898 1375.823295 1643.324093 1526.168104 834.5813792 1054.057169 1.554126095 1.126950137 1.368490062 1.322654468 1.327247647 1.305264397 1.559046455 1.447898794 0.791779994 1 10.0417374 -9.496696322 1.187041477 0.995601881 1.388394453 0.633422861 0.139898946 0.288840705 0.715052337 0.094549085 0.021921617 3.19E-10 9.496696322 0.392792572 NNCPFS(ph)ADENYRPLAK ddPTM_HeLa_SAHA_4h_R1 1 NNCPFSADENYRPLAK 16 1 A0A5H1ZRS1;A0A4W8VX11;Q15154-5;Q15154-4;Q15154-2;Q15154 A0A5H1ZRS1 PCM1 Pericentriolar material 1 protein 1 0 NNCPFS(1)ADENYRPLAK 95.307 0.0030891 6490200 1481.6 1248.6 990.17 1375 1713.5 1892.3 1431.2 1399.3 1583.1 1490.3 TRUE FALSE FALSE 1637.441486 1289.055459 1125.105211 1401.615113 1582.212 1731.065394 1270.157609 1363.507932 1572.083078 1554.554126 1.053319057 0.829212336 0.723747853 0.901618728 1.017791515 1.113544627 0.817055893 0.877105473 1.011275871 1 10.60228513 -7.274367382 24.28240545 1.025178446 0.900537994 0.236308576 0.102274615 594.9881708 1117552.191 0.018822059 0.021600433 5.32E-08 7.274367382 -0.124640452 NNDQPQSANANEPQDSTVNLQS(ph)PLK ddPTM_HeLa_SAHA_4h_R1 1 NNDQPQSANANEPQDSTVNLQSPLK 25 0 P37275-3;P37275-4;P37275-5;P37275;P37275-2 P37275-3 ZEB1 Zinc finger E-box-binding homeobox 1 1 0 NNDQPQSANANEPQDS(0.002)T(0.001)VNLQS(0.997)PLK 101.59 5.24E-06 3683700 1404.3 1436.2 1185.5 1517.1 1530.8 892.45 1439.3 1581.8 1827.9 1434 TRUE FALSE FALSE 1552.010717 1482.733822 1347.053766 1546.465664 1413.510435 816.4082392 1277.346176 1541.339846 1815.179495 1495.826758 1.037560472 0.991247024 0.900541295 1.033853457 0.944969347 0.545790637 0.853939916 1.030426711 1.213495805 1 10.54672738 -5.508271141 24.88440686 1.006472509 0.802930968 0.345184108 0.132871114 478.7774853 815608.3026 0.015980436 0.034552429 3.10E-06 5.508271141 -0.20354154 NNFEGEVTK ddPTM_HeLa_SAHA_4h_R1 2 NNFEGEVTK 9 0 P07237;H7BZ94;I3L398;I3L312;I3L4M2;I3NI03 P07237 P4HB Protein disulfide-isomerase 0 0 ; ; 137.98 0.0075963 11529500 2512.71 1637.13 1714.42 1907.79 1971.1 2699.67 2175.49 2128.58 2556.91 2042.44 FALSE FALSE TRUE 2777.008367 1690.174086 1948.052229 1944.718034 1820.074744 2469.642928 1930.69814 2074.134006 2539.116255 2130.499584 1.303454076 0.79332289 0.914364051 0.912799068 0.854294813 1.159184891 0.906218501 0.973543493 1.191793828 1 11.05697605 -7.258219364 24.99412271 1.143297757 0.934155559 0.470004693 0.113386803 244.6861538 1899282.984 0.023496087 0.028141643 5.52E-08 7.258219364 -0.209142199 NNICS(ph)Y(ph)VDLMLVHSRK ddPTM_HeLa_SAHA_4h_R1 1 NNICSYVDLMLVHSRK 16 1 Q9NY97-2;Q9NY97 Q9NY97-2 B3GNT2 "N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase 2" 2 0 NNICS(1)Y(1)VDLMLVHSRK 66.533 0.011335 28701000 3029 2951.5 2771.5 3358.4 3504.3 3960.2 4023.9 3608.7 3574.6 3160.1 TRUE FALSE FALSE 3347.604118 3047.130537 3149.185587 3423.406688 3235.801291 3622.768681 3571.120182 3516.394679 3549.724068 3296.347376 1.015549557 0.924396063 0.955356104 1.038545486 0.981632371 1.099025153 1.08335675 1.066754889 1.076865895 1 11.68665257 -5.26125255 24.99999989 0.998038072 1.083076716 0.478452038 0.040249292 9.069014629 1213420.588 0.004757185 0.011325426 5.48E-06 5.26125255 0.085038644 NNK(ac)K(ac)TNK(ac)NK ddPTM_HeLa_SAHA_4h_R1 2 NNKKTNKNK 9 3 Q92793;Q92793-2 Q92793 CREBBP CREB-binding protein 0 3 ; NNK(1)K(1)TNK(1)NK;NNK(1)K(1)TNK(1)NK 171.85 4.40E-16 15536100 2401.7 2118.9 2090.97 1130.95 1452.23 958.49 701.22 742.28 2273.8 2344.25 FALSE TRUE FALSE 2654.321825 2187.55375 2375.916502 1152.841173 1340.960451 876.8212597 622.3168801 723.2935524 2257.976441 2445.32209 1.085469205 0.894587163 0.971616996 0.471447576 0.548377842 0.358570866 0.254492806 0.295786619 0.923386105 1 11.25580879 -6.09472431 1.069208441 1.041666144 0.293785295 0.916890389 0.088853344 0.077578439 0.174926794 0.013558447 0.031279141 8.04E-07 6.09472431 -0.747880849 down NNK(ac)K(ac)TSK(ac)NK ddPTM_HeLa_SAHA_4h_R1 2 NNKKTSKNK 9 3 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 0 3 ; NNK(1)K(1)TSK(1)NK;NNK(1)K(1)TSK(1)NK 188.91 2.93E-24 36504000 6981.7 7017.5 6328.3 5225.7 3738.9 2202.28 2631.68 1686.44 5306.7 4429.3 FALSE TRUE FALSE 7716.067239 7244.871604 7190.687768 5326.85098 3452.42629 2014.633354 2335.55644 1643.303307 5269.770243 4620.268799 1.670047258 1.568062794 1.556335373 1.152930968 0.747234942 0.436042456 0.505502286 0.355672663 1.140576549 1 12.17376107 -5.687204401 2.161001345 1.363855519 0.44064054 0.826093613 0.194001587 0.132533121 1.256742356 0.041969641 0.094868161 2.05E-06 5.687204401 -0.923214979 down NNLAGAEELFAR ddPTM_HeLa_SAHA_4h_R1 2 NNLAGAEELFAR 12 0 A0A087WVQ6;Q00610-2;Q00610 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 ; ; 166.29 0.00065658 12550800 1626.63 1582.21 1419.7 1823.89 1712.61 1675.86 1457.55 1938.9 1366.42 1332.49 FALSE FALSE TRUE 1797.726407 1633.474642 1613.169323 1859.194028 1581.390192 1533.0673 1293.542638 1889.305745 1356.910972 1389.940165 1.293384026 1.175212202 1.16060343 1.33760724 1.137739762 1.102973594 0.930646276 1.359271279 0.976236968 1 10.44080706 -3.881672161 14.20717339 1.145471447 11.61863869 0.224554476 0.125588908 347181.3598 387273.5355 0.018873215 115437532.5 0.000131319 3.881672161 10.47316725 NNPS(ph)PPPDSDLER ddPTM_HeLa_SAHA_4h_R1 2 NNPSPPPDSDLER 13 0 E9PLN6;F2Z2Y1;O95677-3;O95677-2;O95677-4;O95677;E7ESD5;O95677-5 E9PLN6 EYA4 Eyes absent homolog;Eyes absent homolog 4 1 0 NNPS(0.999)PPPDS(0.001)DLER;NNPS(1)PPPDSDLER ; 179.97 7.68E-06 67318000 3852.1 3943.3 3419.8 4254.6 4427.3 4704.7 3926.3 4526.7 4427 3640.6 TRUE FALSE FALSE 4257.281552 4071.065507 3885.832534 4336.953935 4088.08123 4303.833092 3484.502391 4410.913569 4396.192147 3797.564083 1.121055882 1.072020226 1.02324344 1.142035747 1.07650092 1.133314145 0.917562499 1.161511293 1.15763475 1 11.89085859 -9.520597521 1.269440702 0.999907474 1.082028033 0 0.082657055 0.617473375 1.778236262 0.043792678 0.010466733 3.02E-10 9.520597521 0.08212056 NNQESDCVSK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 NNQESDCVSKK 11 1 H3BV17;A6NDG6 H3BV17 PGP Phosphoglycolate phosphatase 0 1 NNQESDCVSK(1)K 227.81 3.00E-39 0 239.11 245.2 136.53 139.1 209.01 352.01 138.69 302.23 491.75 378 FALSE TRUE FALSE 264.2606869 253.1446409 155.1355974 141.7924816 192.995699 322.0167676 123.0842362 294.4993942 488.3278717 394.2974299 0.670206466 0.642014433 0.393448158 0.359607928 0.489467301 0.816684927 0.312160889 0.746896561 1.238475919 1 8.623140496 -8.350761812 0.633423493 0.986373913 0.520614049 0.599142872 0.178364459 0.37555724 0.323661244 0.080340051 0.039517591 4.46E-09 8.350761812 -0.465759864 NNQGQLIAEPFYHLPSK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 NNQGQLIAEPFYHLPSKK 18 1 Q86U86-8;Q86U86;H0Y5B5;E7EVG2;Q86U86-6;Q86U86-5;Q86U86-4;Q86U86-7;Q86U86-3;Q86U86-9;Q86U86-2 Q86U86-8 PBRM1 Protein polybromo-1 0 1 ; NNQGQLIAEPFYHLPSK(1)K;NNQGQLIAEPFYHLPSK(1)K 141.22 7.55E-07 4073800 2122.11 2213.91 1905.31 2165.74 2815.8 2739.55 2689.65 2304.52 2309.95 2004.55 FALSE TRUE FALSE 2345.323266 2285.642137 2164.955724 2207.661029 2600.054012 2506.124928 2387.003503 2245.573715 2293.87487 2090.975961 1.121640473 1.093098237 1.035380495 1.055804118 1.243464325 1.198543156 1.141573862 1.073935692 1.097035506 1 11.02996076 -5.791960703 24.94888436 1.05980947 1.165190588 0.456374599 0.05160559 146.8817517 120064.3945 0.009152033 0.016590842 1.61E-06 5.791960703 0.105381118 NNQITNNQR ddPTM_HeLa_SAHA_4h_R1 4 NNQITNNQR 9 0 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 0 0 ;;; ;;; 191.17 1.41E-06 3453730 537.52 468.52 1104.33 712.8 519.024 709.59 469.45 402.56 395.44 871.29 FALSE FALSE TRUE 594.0588198 483.7003554 1254.822341 726.5972747 479.2564932 649.12894 416.6262505 392.2630981 392.6881008 908.8555759 0.653633906 0.532208162 1.380661983 0.799463957 0.527318648 0.714226723 0.458407542 0.431601135 0.432068759 1 9.827907247 -5.802207399 5.535882458 0.85147551 0.539774216 0.189141074 0.258676081 0.191517932 14.16921836 0.035496356 0.066300032 1.58E-06 5.802207399 -0.311701293 NNQTVLEQSIET(ph)T(ph)NHVVS(ph)IT(ph) ddPTM_HeLa_SAHA_4h_R1 1 NNQTVLEQSIETTNHVVSIT 20 0 H0YKA3 H0YKA3 ZHX2 4 0 NNQT(0.03)VLEQS(0.151)IET(0.824)T(0.997)NHVVS(0.999)IT(0.999) 48.51 0.01368 14379000 839.04 791.73 738.63 853.04 907.84 1042.5 986.64 1346.4 1055.6 874.68 TRUE FALSE FALSE 927.2940769 817.3825715 839.2866498 869.5518227 838.2814953 953.6731351 875.6206705 1311.961038 1048.253994 912.3917354 1.016333271 0.895868013 0.919875331 0.95304658 0.918773661 1.045245258 0.959698161 1.437936126 1.148907813 1 9.833509568 -4.259486544 24.94763759 0.985072142 1.437936285 0.787707463 0.07066541 43.03760573 549765.1522 0.007319265 0.063894966 5.50E-05 4.259486544 0.452864142 NNS(ph)FTAPSTVGK ddPTM_HeLa_SAHA_4h_R1 3 NNSFTAPSTVGK 12 0 O95453;O95453-2;A0A494C0W0;A0A494C0Q6;O95453-3;A0A494C0K5;O95453-4 O95453 PARN Poly(A)-specific ribonuclease PARN 1 0 NNS(0.944)FT(0.056)APSTVGK;NNS(0.5)FT(0.5)APSTVGK;NNS(0.809)FT(0.19)APS(0.001)TVGK ;; 188.09 7.89E-07 28983700 7204.4 9963.5 6587.7 4023.36 7043.9 5241.45 9084.3 4626.7 5591 7503.4 TRUE FALSE FALSE 7962.191847 10286.32394 7485.437449 4101.237951 6504.197904 4794.848972 8062.110655 4508.355713 5552.091776 7826.908295 1.017284418 1.314225688 0.956372193 0.523992079 0.831004741 0.612610854 1.030050481 0.576007223 0.709359503 1 12.93422683 -6.504481132 24.18193445 1.036295099 0.73375128 0.353481417 0.191473132 322.7590549 424236.4891 0.023245078 0.035087634 3.13E-07 6.504481132 -0.30254382 NNS(ph)GEEFDCAFR ddPTM_HeLa_SAHA_4h_R1 2 NNSGEEFDCAFR 12 0 Q08J23-3;Q08J23-2;Q08J23 Q08J23-3 NSUN2 tRNA (cytosine(34)-C(5))-methyltransferase 1 0 NNS(1)GEEFDCAFR;NNS(1)GEEFDCAFR ; 196.18 1.34E-07 22652000 1307.15 1653.56 1498.38 1491.34 1711.44 1469.81 1624.18 1455.75 1790.17 1452.62 TRUE FALSE FALSE 1444.642034 1707.136429 1702.571423 1520.207042 1580.309837 1344.573919 1441.422992 1418.514023 1777.712061 1515.249557 0.95340205 1.126637141 1.123624432 1.003271728 1.042937006 0.887361367 0.95127762 0.936158678 1.173214044 1 10.56533971 -5.26282411 24.99953905 1.005849637 0.927567062 0.219424245 0.079303822 149.5717022 2700347.365 0.009885045 0.02325377 5.46E-06 5.26282411 -0.078282576 NNS(ph)NTCNIENELEDSRK ddPTM_HeLa_SAHA_4h_R1 2 NNSNTCNIENELEDSRK 17 1 Q6PL18;A0A0B4J211 Q6PL18 ATAD2 ATPase family AAA domain-containing protein 2 1 0 NNS(0.5)NT(0.5)CNIENELEDSRK;NNS(0.973)NT(0.027)CNIENELEDSRK ; 161.08 2.64E-06 27441000 1549.23 1579.92 1524.02 1610.72 1981.28 1286.15 1815.48 1918.25 1519.17 1372.27 TRUE FALSE FALSE 1712.18512 1631.110445 1731.705509 1641.897815 1829.474754 1176.562784 1611.197412 1869.183943 1508.597972 1431.435275 1.196131707 1.139492978 1.209768642 1.147029029 1.27807019 0.821946199 1.125581743 1.30581101 1.053905823 1 10.48324672 -9.395017848 1.088279045 0.99892736 1.150343641 0.134745882 0.125319899 0.746712837 1.564053829 0.086933793 0.021572124 4.03E-10 9.395017848 0.151416281 NNS(ph)PPTVGAFGHTR ddPTM_HeLa_SAHA_4h_R1 3 NNSPPTVGAFGHTR 14 0 Q86XL3;F5H1D4;Q86XL3-3 Q86XL3 ANKLE2 Ankyrin repeat and LEM domain-containing protein 2 1 0 NNS(0.999)PPT(0.001)VGAFGHTR;NNS(1)PPTVGAFGHTR;NNS(0.997)PPT(0.003)VGAFGHTR ;; 107.13 0.0024091 16266300 4631.4 5025.1 4199.58 4518.27 4483.63 4716.17 5215.01 4974.81 4814.8 4400.77 TRUE FALSE FALSE 5118.551902 5187.916537 4771.876892 4605.727649 4140.095238 4314.325784 4628.20335 4847.561564 4781.293415 4590.508732 1.115029336 1.130139782 1.039509381 1.003315301 0.901881574 0.939836091 1.008211425 1.055996589 1.041560684 1 12.16443833 -6.232769278 3.415726939 1.062076803 0.974583174 0.402193208 0.051503435 0.239957119 5.85983249 0.009796458 0.016345466 5.85E-07 6.232769278 -0.087493628 NNSFTAPSTVGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 NNSFTAPSTVGKR 13 1 O95453;O95453-2;A0A494C0W0;A0A494C0Q6;O95453-3;A0A494C0K5;O95453-4 O95453 PARN Poly(A)-specific ribonuclease PARN 0 1 ; NNSFTAPSTVGK(1)R;NNSFTAPSTVGK(1)R 195.72 1.06E-23 3811100 681.96 449.51 187.58 640.48 739.86 724.08 605.78 657.28 453.47 387.39 FALSE TRUE FALSE 753.6916817 464.0744189 213.1424255 652.8774165 683.1720866 662.3843104 537.6160401 640.4677293 450.3142653 404.0922787 1.865147446 1.148436739 0.527459783 1.615664171 1.690633854 1.639190713 1.330428886 1.584954138 1.114384731 1 8.658540975 -9.698097509 1.587720772 1.000395371 1.481437189 0.127159307 0.360192049 0.568581447 2.58790664 0.282662505 0.062683022 2.00E-10 9.698097509 0.481041819 NNSGEEFDCAFR ddPTM_HeLa_SAHA_4h_R1 2 NNSGEEFDCAFR 12 0 Q08J23-3;Q08J23-2;Q08J23 Q08J23-3 NSUN2 tRNA (cytosine(34)-C(5))-methyltransferase 0 0 ; ; 142.97 0.0033803 20252000 1473.5 1656.77 1622.39 1570.82 1624.92 1836.73 1816.82 1583.63 1341.59 1704.69 FALSE FALSE TRUE 1628.489491 1710.450435 1843.48086 1601.225493 1500.418981 1680.230271 1612.386632 1543.123038 1332.253766 1778.187528 0.915814257 0.961906665 1.036719036 0.900481792 0.843791196 0.94491174 0.906758486 0.867806692 0.74922006 1 10.79619176 -6.03759075 24.63514965 0.964774818 0.892859213 0 0.078245738 371.3843079 243386.8201 0.006728357 0.011159854 9.17E-07 6.03759075 -0.071915605 NNTAAET(ph)EDDES(ph)DGEDRGGGTSGVR ddPTM_HeLa_SAHA_4h_R1 1 NNTAAETEDDESDGEDRGGGTSGVR 25 1 A0A590UJS4;Q6KC79-2 A0A590UJS4 NIPBL Nipped-B-like protein 2 0 NNT(0.02)AAET(0.587)EDDES(0.974)DGEDRGGGT(0.21)S(0.209)GVR 69.197 0.0052533 11919000 1055.2 878.95 859.65 961.33 1104.2 1085.1 1031.3 1221.6 884.58 777.84 TRUE FALSE FALSE 1166.190777 907.4285567 976.7986251 979.9379323 1019.596435 992.6433754 915.2554098 1190.353241 878.4241358 811.3764891 1.437299199 1.118381625 1.203878395 1.207747507 1.25662556 1.223406629 1.128028014 1.467078794 1.082634446 1 9.664227689 -9.60805157 1.418194576 1.000345769 1.269817984 0.357641841 0.112069551 0.32652739 1.18120875 0.082840371 0.019186721 2.47E-10 9.60805157 0.269472215 NNTAAETEDDES(ph)DGEDRGGGTSGSLR ddPTM_HeLa_SAHA_4h_R1 1 NNTAAETEDDESDGEDRGGGTSGSLR 26 1 Q6KC79 Q6KC79 NIPBL Nipped-B-like protein 1 0 NNT(0.001)AAET(0.074)EDDES(0.893)DGEDRGGGT(0.011)S(0.013)GS(0.007)LR 63.848 0.00093905 3970100 209.72 146.64 206.17 200.45 156.02 275.58 235.87 217.75 270.13 193.54 TRUE FALSE FALSE 231.7793118 151.3912322 234.2657739 204.3299996 144.0657813 252.0990336 209.3292868 212.1802703 268.2501433 201.8844566 1.148079034 0.749890481 1.160395297 1.012113578 0.713605117 1.248729288 1.036876689 1.050998546 1.328731037 1 7.657386029 NNTAAETEDDES(ph)DGEDRGGGTSGVR ddPTM_HeLa_SAHA_4h_R1 2 NNTAAETEDDESDGEDRGGGTSGVR 25 1 A0A590UJS4;Q6KC79-2 A0A590UJS4 NIPBL Nipped-B-like protein 1 0 NNTAAETEDDES(1)DGEDRGGGTSGVR;NNTAAETEDDES(0.993)DGEDRGGGT(0.003)S(0.003)GVR ; 131.81 1.56E-09 29665000 1648.04 1164.37 1335.4 1330.12 1532.87 1856.05 1454.27 1802.96 1394.14 1566.11 TRUE FALSE FALSE 1821.388409 1202.096352 1517.381358 1355.866396 1415.421832 1697.904098 1290.631712 1756.842894 1384.438066 1633.632666 1.114931432 0.735842504 0.928838771 0.829970179 0.866426009 1.039342646 0.790037894 1.075421011 0.847459833 1 10.6738679 -7.286206534 24.94689222 1.054273178 0.894317386 0.030100905 0.120551382 582.3400507 586564.5601 0.016626704 0.019017497 5.17E-08 7.286206534 -0.159955792 NPDDITNEEYGEFYK ddPTM_HeLa_SAHA_4h_R1 5 NPDDITNEEYGEFYK 15 0 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 0 0 ;;;; ;;;; 304.08 4.28E-100 395766500 12077.25 11900.05 10178.5 12745.97 11317.58 12078.14 12484.14 12840.42 12190.38 11283.6 FALSE FALSE TRUE 13347.59057 12285.61943 11565.57297 12992.68668 10450.42947 11049.01452 11079.39171 12511.98065 12105.54615 11770.09122 1.134026094 1.043799848 0.982623903 1.103873066 0.887880074 0.938736525 0.941317404 1.063031749 1.028500623 1 13.52283788 -5.76906504 24.99999998 1.058953831 0.955210796 0.356670665 0.058936977 145.8687931 478218.3003 0.01004419 0.018459338 1.70E-06 5.76906504 -0.103743036 NPDDITNEEYGEFYKS(ph)LTNDWEDHLAVK ddPTM_HeLa_SAHA_4h_R1 1 NPDDITNEEYGEFYKSLTNDWEDHLAVK 28 1 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 1 0 NPDDIT(0.001)NEEY(0.047)GEFY(0.103)KS(0.425)LT(0.425)NDWEDHLAVK 53.751 0.0044162 6011800 154.08 224.52 120.67 231.06 247.56 184.57 228.01 210.68 255.4 179.57 TRUE FALSE FALSE 170.2868413 231.7945953 137.1142792 235.5325004 228.5920063 168.8435976 202.3537147 205.2911107 253.6226506 187.3121415 0.909107333 1.237477685 0.732009565 1.257433173 1.22038008 0.901402313 1.08030218 1.095984003 1.354010736 1 7.549300607 -6.238143359 24.96455661 0.966133414 1.103810518 0 0.190278964 1031.732276 1105628.447 0.02088937 0.034626596 5.78E-07 6.238143359 0.137677103 NPDDITQEEYGEFYK ddPTM_HeLa_SAHA_4h_R1 6 NPDDITQEEYGEFYK 15 0 P08238 P08238 HSP90AB1 Heat shock protein HSP 90-beta 0 0 ;;;;; ;;;;; 274.39 3.66E-84 248119700 10400.67 10827.67 10068.043 11198.69 10447.62 11343.57 11271.167 10824.15 10555.54 10512.33 FALSE FALSE TRUE 11494.66019 11178.49361 11440.06347 11415.45684 9647.125613 10377.03402 10002.90563 10547.28392 10482.08314 10965.56799 1.048250323 1.019417655 1.0432714 1.041027409 0.879765245 0.946328911 0.912210442 0.961854773 0.955908818 1 13.42069292 -5.772445952 24.9999994 1.025882178 0.925644103 0.656193806 0.03265649 71.83397607 163161.6785 0.003873553 0.007070498 1.69E-06 5.772445952 -0.100238075 NPDVDTSFLPDRDREEEENRLR ddPTM_HeLa_SAHA_4h_R1 1 NPDVDTSFLPDRDREEEENRLR 22 3 Q9Y247;B0S8I6;Q14320 Q9Y247 FAM50B;FAM50A Protein FAM50B;Protein FAM50A 0 0 30.268 0.023751 27655000 289.31 305.79 307.06 428.5 459.38 564.51 437.89 374.2 604.83 422.23 FALSE FALSE TRUE 319.7409532 315.6977966 348.9045377 436.7942371 424.1824036 516.4105722 388.6174647 364.6285058 600.6209388 440.4344016 0.725967254 0.716787325 0.792182755 0.991735059 0.963100071 1.172502807 0.882350387 0.827883799 1.363701238 1 8.78278335 -6.250145456 23.94105381 0.84797973 0.973926101 0 0.198462131 625.2618296 1325438.466 0.021629434 0.035641902 5.62E-07 6.250145456 0.12594637 NPEAALS(ph)PTFR ddPTM_HeLa_SAHA_4h_R1 1 NPEAALSPTFR 11 0 B4E349;F5H6D8;B4DTN4;Q86U44 B4E349 METTL3 N6-adenosine-methyltransferase 70 kDa subunit 1 0 NPEAALS(0.775)PT(0.225)FR 177.36 4.63E-05 20910000 1220.2 1274.3 1213 1073.7 1564.3 1719.7 1241.4 1290.2 1424.1 1260.9 TRUE FALSE FALSE 1348.546234 1315.588156 1378.301323 1094.483016 1444.443672 1573.171885 1101.714405 1257.198552 1414.189572 1315.26357 1.025304939 1.000246784 1.047927849 0.832139688 1.098216133 1.196088694 0.837637741 0.955852942 1.075213824 1 10.36113622 NPEAALSPT(ph)FR ddPTM_HeLa_SAHA_4h_R1 1 NPEAALSPTFR 11 0 B4E349;F5H6D8;B4DTN4;Q86U44 B4E349 METTL3 N6-adenosine-methyltransferase 70 kDa subunit 1 0 NPEAALS(0.183)PT(0.817)FR 121.56 0.0035988 19726000 1258.3 1420.3 1420.8 1228.8 1313 1684.6 1473.7 1315.5 1588.4 1367.6 TRUE FALSE FALSE 1390.653767 1466.318652 1614.419225 1252.585201 1212.398224 1541.062603 1307.875397 1281.851415 1577.346195 1426.563929 0.974827513 1.027867467 1.131683756 0.878043511 0.84987304 1.08026186 0.916801113 0.89855869 1.105696116 1 10.47832868 NPEDKSPQLSLSPRPAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 NPEDKSPQLSLSPRPASPK 19 2 M0QXA7;A0A669KBH9;A0A669KAV7;O95785-3;B9EGQ5;A0A669KBG4;A0A2R8YFV2;O95785-4;O95785 M0QXA7 WIZ Protein Wiz 1 0 NPEDKS(0.027)PQLS(0.063)LS(0.281)PRPAS(0.629)PK;NPEDKS(0.074)PQLS(0.053)LS(0.06)PRPAS(0.812)PK;NPEDKS(0.029)PQLS(0.104)LS(0.14)PRPAS(0.727)PK ;; 68.705 0.0083508 32626300 3520.1 2809.39 3147.84 3667.61 3621.92 3724.1 3466.13 3769.2 2312.9 3693.32 TRUE FALSE FALSE 3890.360269 2900.416079 3576.811242 3738.601895 3344.409272 3406.785729 3076.11193 3672.789322 2296.804341 3852.5571 1.009812488 0.752854793 0.928425238 0.970420891 0.868101156 0.884292079 0.798459789 0.953338063 0.596176586 1 11.91160062 -7.368356315 24.9917565 1.004634536 0.881411502 0 0.143452442 18.04435084 4208.025047 0.01008963 0.011537928 4.28E-08 7.368356315 -0.123223034 NPEFFEHR ddPTM_HeLa_SAHA_4h_R1 2 NPEFFEHR 8 0 O43252 O43252 PAPSS1 Bifunctional 3-phosphoadenosine 5-phosphosulfate synthase 1;Sulfate adenylyltransferase;Adenylyl-sulfate kinase 0 0 ; ; 150.08 7.67E-06 0 4307.2 3703.2 4192.5 4067.7 4840.5 4699 4416.3 3159.9 3783.3 3636.8 FALSE FALSE TRUE 4760.251058 3823.18611 4763.832066 4146.436215 4469.621936 4298.618764 3919.366301 3079.074333 3756.971707 3793.600246 1.254810931 1.007798888 1.255754892 1.09300821 1.17820056 1.13312381 1.033152163 0.811649656 0.99034465 1 11.88935195 -4.303694515 2.282245833 1.12721716 0.749765195 0.486996711 0.092770225 0.37120492 2.400955985 0.014467693 0.269038826 4.97E-05 4.303694515 -0.377451965 NPPGFAFVEFEDPRDAADAVR ddPTM_HeLa_SAHA_4h_R1 2 NPPGFAFVEFEDPRDAADAVR 21 1 P84103;P84103-2;A0A087X2D0 P84103 SRSF3 Serine/arginine-rich splicing factor 3 0 0 ; ; 107.18 0.00027911 31301000 180.78 134.34 232.207 238.33 115.33 82.132 164.33 56.982 131.89 207.22 FALSE FALSE TRUE 199.7952698 138.6927041 263.8509607 242.9432218 106.4934403 75.13389154 145.8391559 55.52448295 130.9721668 216.1542683 0.924317949 0.641637592 1.220660423 1.123934418 0.492673317 0.347593837 0.674699404 0.25687433 0.605919873 1 7.755917515 -5.716644097 8.393173977 0.967794841 0.450711491 0.553257822 0.207011032 0.115754852 19.45625107 0.024061645 0.048026349 1.92E-06 5.716644097 -0.51708335 NPPGFAFVEFEDPRDAEDAVR ddPTM_HeLa_SAHA_4h_R1 3 NPPGFAFVEFEDPRDAEDAVR 21 1 A0A0B4J1Z1;C9JAB2;Q16629-3;Q16629-2;Q16629-4;Q16629 A0A0B4J1Z1 SRSF7 Serine/arginine-rich splicing factor 7 0 0 ;; ;; 101.38 0.0004141 36374000 692.49 619.88 683.19 780.71 779.18 857 799.95 810.91 579.4 633.51 FALSE FALSE TRUE 765.3292755 639.9645187 776.2915753 795.821771 719.4793967 783.9787786 709.9375206 790.1680964 575.3679082 660.8237164 1.158144383 0.96843455 1.174733225 1.204287545 1.088761464 1.186365984 1.074322097 1.195732049 0.870682898 1 9.368121655 -13.52287873 0.26092715 0.085065294 1.146549561 0.478859804 0.077928504 37.08251326 0.494888823 17.5434576 0.035616875 3.00E-14 13.52287873 1.061484267 NPQAGVPPFSSLK(ac)GK ddPTM_HeLa_SAHA_4h_R1 2 NPQAGVPPFSSLKGK 15 1 Q86UU0-3;Q86UU0-4;Q86UU0-2;Q86UU0;A0A087WZX0 Q86UU0-3 BCL9L B-cell CLL/lymphoma 9-like protein 0 1 ; NPQAGVPPFSSLK(1)GK;NPQAGVPPFSSLK(1)GK 228.7 9.24E-44 2587700 990.64 1621.87 1047.33 1993.79 2594.83 2990.6 2131.81 2109.65 1868.51 862.5 FALSE TRUE FALSE 1094.84006 1674.419652 1190.054678 2032.382689 2396.014686 2735.784055 1891.933128 2055.688208 1855.506887 899.686596 1.216912718 1.86111437 1.32274359 2.258989628 2.663165925 3.040818956 2.102880199 2.28489367 2.062392499 1 9.813278719 -6.52350529 0.968514404 1.089478524 2.551980314 0.478008057 0.443819416 0.168346015 0.315274419 0.06197277 0.112448473 3.00E-07 6.52350529 1.46250179 NPQAGVPPFSSLK(ac)GK(ac)VK ddPTM_HeLa_SAHA_4h_R1 2 NPQAGVPPFSSLKGKVK 17 2 Q86UU0-3;Q86UU0-4;Q86UU0-2;Q86UU0;A0A087WZX0 Q86UU0-3 BCL9L B-cell CLL/lymphoma 9-like protein 0 2 ; NPQAGVPPFSSLK(1)GK(1)VK;NPQAGVPPFSSLK(1)GK(1)VK 185.27 1.69E-16 1290820 238.901 336.08 220.35 349.29 579.59 506.85 910.59 590.69 231.64 128.39 FALSE TRUE FALSE 264.0297033 346.9692125 250.3781505 356.051013 535.1819394 463.6635285 808.1280167 575.5810051 230.0279984 133.9255212 1.971466684 2.590762458 1.869532768 2.658574779 3.996116159 3.462099862 6.034159951 4.297769386 1.717581506 1 7.065287101 -5.005647899 0.333282549 1.124917662 7.142148997 0.781082969 0.667363817 1.183826192 0.134827185 0.252389619 2.69547026 9.87E-06 5.005647899 6.017231335 NPQAGVPPFSSLK(ac)GK(ac)VK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 NPQAGVPPFSSLKGKVKR 18 3 Q86UU0-3;Q86UU0-4;Q86UU0-2;Q86UU0;A0A087WZX0 Q86UU0-3 BCL9L B-cell CLL/lymphoma 9-like protein 0 3 NPQAGVPPFSSLK(1)GK(1)VK(1)R 120.7 0.0001661 631930 0 0 0 79.135 210.62 127.95 227.79 188.28 70.569 0 FALSE TRUE FALSE 0 0 0 80.66677236 194.4823411 117.0479402 202.1584697 183.4640702 70.07790458 0 0 NPQMPQYSSPQPGSALS(ph)PR ddPTM_HeLa_SAHA_4h_R1 6 NPQMPQYSSPQPGSALSPR 19 0 O14497;O14497-2;H0Y488;A0A1B0GTU5;O14497-3;A0A087WUV6 O14497 ARID1A AT-rich interactive domain-containing protein 1A 1 0 NPQMPQYS(0.003)S(0.002)PQPGS(0.09)ALS(0.905)PR;NPQMPQY(0.002)S(0.003)S(0.003)PQPGS(0.065)ALS(0.926)PR;NPQMPQYS(0.003)S(0.013)PQPGS(0.018)ALS(0.966)PR;NPQMPQYSSPQPGS(0.001)ALS(0.999)PR;NPQMPQYSSPQPGS(0.02)ALS(0.98)PR;NPQMPQYS(0.001)S(0.018)PQPGS(0.396)ALS(0.585)PR ;;;;; 241.13 3.46E-41 36612000 4708.36 4837.8 4857.8 4838.76 5093.97 5277.54 4995.18 4726.07 4487.11 4747.16 TRUE FALSE FALSE 5203.606908 4994.547894 5519.795686 4932.421197 4703.671119 4827.863901 4433.1092 4605.183973 4455.883836 4951.8333 1.050844524 1.008626016 1.114697396 0.996079815 0.949884787 0.974964949 0.89524605 0.92999576 0.899845283 1 12.27374703 -5.807951186 3.039949333 1.030179876 0.934716451 0.293130212 0.054253369 0.136559163 2.577477189 0.005603578 0.011164232 1.56E-06 5.807951186 -0.095463425 NPQNSSQSADGLR ddPTM_HeLa_SAHA_4h_R1 3 NPQNSSQSADGLR 13 0 P0DN76;Q01081 P0DN76 U2AF1 Splicing factor U2AF 35 kDa subunit 0 0 ;; ;; 176.32 8.26E-05 3911000 150.136 0 0 141.8 335.15 113.03 246.08 193.247 0 245.61 FALSE FALSE TRUE 165.9279933 0 0 144.544744 309.4708794 103.3992081 218.3904308 188.3040216 0 256.1994491 0.64765164 0 0 0.564188348 1.207929527 0.403588722 0.852423499 0.734989955 0 1 8.001123563 -8.512713998 1.165713021 0.946555804 0.552746856 0 0.457763501 0.563482931 1.549705781 0.117702962 0.072653139 3.07E-09 8.512713998 -0.393808948 NPS(ph)SSVPPPSAGSVK ddPTM_HeLa_SAHA_4h_R1 3 NPSSSVPPPSAGSVK 15 0 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 NPS(0.921)S(0.076)S(0.003)VPPPSAGSVK;NPS(0.869)S(0.066)S(0.066)VPPPSAGSVK;NPS(0.707)S(0.232)S(0.058)VPPPS(0.003)AGSVK ;; 159.54 7.67E-06 22678300 5513.91 6792.5 6268.5 2814.32 6204.9 8568.9 6574.5 2420.66 2422.46 5435.6 TRUE FALSE FALSE 6093.888353 7012.581457 7122.738535 2868.795233 5729.481903 7838.781513 5834.719957 2358.743022 2405.601904 5669.955317 1.07476832 1.2367966 1.256224809 0.505964346 1.010498599 1.382512044 1.029059248 0.416007339 0.424271757 1 12.46912165 NPYLLS(ph)EEEDDDVDGDVNVEK ddPTM_HeLa_SAHA_4h_R1 1 NPYLLSEEEDDDVDGDVNVEK 21 0 G3V5V3;O60524-4;O60524-5;O60524-3;O60524 G3V5V3 NEMF Nuclear export mediator factor NEMF 1 0 NPYLLS(1)EEEDDDVDGDVNVEK 128.49 8.40E-06 4001500 993.53 1156.9 602.09 810.35 840.98 1318.8 880.59 765.01 1375.6 1123 TRUE FALSE FALSE 1098.034044 1194.384319 684.1396897 826.035496 776.5442941 1206.430821 781.5036956 745.4421519 1366.027088 1171.418026 0.937354573 1.019605549 0.584026944 0.705158601 0.662909633 1.02988924 0.667143307 0.636358785 1.166131182 1 10.19404028 -6.775110896 24.97672034 0.973279992 0.72370728 0.572221376 0.13018063 133.6572851 244180.1758 0.018440682 0.024307981 1.68E-07 6.775110896 -0.249572712 NPYLLS(ph)EEEDDDVDGDVNVEKNETEPPKGK ddPTM_HeLa_SAHA_4h_R1 1 NPYLLSEEEDDDVDGDVNVEKNETEPPKGK 30 2 G3V5V3;O60524-4;O60524-5;O60524-3;O60524 G3V5V3 NEMF Nuclear export mediator factor NEMF 1 0 NPY(0.001)LLS(0.999)EEEDDDVDGDVNVEKNETEPPKGK 75.897 1.39E-05 26421000 1971.8 1684.1 1769 1559.1 1934.5 1591.9 1804.1 2217.3 1281.5 1536.2 TRUE FALSE FALSE 2179.202971 1738.665945 2010.070107 1589.278635 1786.279028 1456.261164 1601.09792 2160.584677 1272.581937 1602.4331 1.359933822 1.085016245 1.254386288 0.991790943 1.114729238 0.908781255 0.999166779 1.348315057 0.794156048 1 10.64604841 -6.257607406 24.97076651 1.172318924 1.061723729 0 0.184227219 651.4407231 4245060.348 0.025599664 0.041426145 5.53E-07 6.257607406 -0.110595195 NQATSATSEKDNDDDQS(ph)DKGTYTIELENPNSEEVEAR ddPTM_HeLa_SAHA_4h_R1 1 NQATSATSEKDNDDDQSDKGTYTIELENPNSEEVEAR 37 2 H0Y2V6;Q5SW79;H0YB66 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 NQATSAT(0.001)S(0.001)EKDNDDDQS(0.449)DKGT(0.449)Y(0.082)T(0.018)IELENPNSEEVEAR 85.239 1.45E-08 11981000 642.53 555.8 600.84 513.43 810.3 760.48 639.11 614.15 838.89 721.47 TRUE FALSE FALSE 710.1142534 573.8082847 682.7193462 523.3681801 748.2149891 695.6828257 567.1956608 598.4409323 833.0520962 752.5761025 0.943578 0.762458817 0.907176489 0.695435556 0.994205086 0.924401962 0.753672165 0.795189922 1.106934028 1 9.555693668 -7.444156782 4.937154219 0.975907207 0.837461546 0.426194921 0.094622474 0.176453751 7.397977946 0.014565218 0.0164014 3.60E-08 7.444156782 -0.138445662 NQESLGS(ph)PHICDLGK ddPTM_HeLa_SAHA_4h_R1 1 NQESLGSPHICDLGK 15 0 A0A087WUA7;A4D1E1 A0A087WUA7 ZNF804B Zinc finger protein 804B 1 0 NQES(0.001)LGS(0.999)PHICDLGK 87.863 0.0095319 16985000 3446.3 3010 2633.1 2644.2 3061.2 3650.6 3346.4 3655.3 3532.1 2979.6 TRUE FALSE FALSE 3808.797646 3107.525975 2991.925155 2695.382315 2826.651517 3339.548342 2969.854265 3561.802719 3507.519829 3108.065138 1.225456185 0.999826528 0.962632706 0.867221952 0.909456975 1.074478235 0.955531539 1.145987153 1.128521982 1 11.60180102 -7.030868248 23.56650061 1.106790491 0.979794718 0.302332276 0.090025646 366.8804735 280095.8694 0.018204778 0.022314817 9.31E-08 7.030868248 -0.126995774 NQGGYDRYS(ph)GGNYR ddPTM_HeLa_SAHA_4h_R1 1 NQGGYDRYSGGNYR 14 1 P98179 P98179 RBM3 RNA-binding protein 3 1 0 NQGGYDRY(0.003)S(0.997)GGNYR 137.73 0.0012747 8871900 2100.4 2557.6 2224.2 2842.9 2815.5 3260.9 3243.7 2050 3989.5 2846.7 TRUE FALSE FALSE 2321.329709 2640.467918 2527.302393 2897.92844 2599.776998 2983.052975 2878.710339 1997.563968 3961.736745 2969.435168 0.781741165 0.889215547 0.851105429 0.975919081 0.875512295 1.004585992 0.969447109 0.672708396 1.334171827 1 11.53597282 -9.647602253 1.500429079 0.999610231 0.871397481 0.266760183 0.142315702 0.528660356 2.150375872 0.066574376 0.015256068 2.25E-10 9.647602253 -0.128212749 NQGGYDRYS(ph)GGNYRDNYDN ddPTM_HeLa_SAHA_4h_R1 1 NQGGYDRYSGGNYRDNYDN 19 2 P98179 P98179 RBM3 RNA-binding protein 3 1 0 NQGGY(0.007)DRY(0.029)S(0.904)GGNY(0.059)RDNY(0.002)DN 63.869 0.010951 17126000 821 943.12 909.67 1223.4 1030.7 947.02 1368.8 1295 895.27 983.17 TRUE FALSE FALSE 907.3565469 973.6777068 1033.63509 1247.080676 951.7279887 866.3285682 1214.779022 1261.875775 889.0397432 1025.55927 0.884743157 0.949411443 1.007874552 1.216000588 0.928008762 0.844737689 1.184503965 1.23042696 0.86688285 1 10.00219516 -6.566684391 4.999696725 0.945077963 1.069132709 0.262111091 0.120089197 0.258071467 14.84222033 0.019688486 0.028328124 2.71E-07 6.566684391 0.124054746 NQGGYGGS(ph)SSSSSYGSGR ddPTM_HeLa_SAHA_4h_R1 1 NQGGYGGSSSSSSYGSGR 18 0 F8W6I7;P09651-2;P09651;P09651-3;A0A2R8Y4L2;H0YH80 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 NQGGYGGS(0.433)S(0.433)S(0.12)S(0.009)S(0.004)SYGSGR 169.58 8.21E-07 85852000 1770.5 2069.7 1364.5 1766.6 1773.8 2284.3 1987.1 1919.4 1777 1789.2 TRUE FALSE FALSE 1956.729313 2136.759638 1550.446954 1800.795098 1637.891827 2089.664789 1763.506278 1870.304527 1764.633712 1866.341168 1.048430666 1.144892303 0.830741442 0.96487991 0.87759508 1.119658519 0.944900272 1.002123598 0.94550436 1 10.86599702 -6.769926792 24.99991366 1.032660705 0.960305915 0.166846552 0.085167996 257.1582454 757466.1871 0.012675903 0.016808373 1.70E-07 6.769926792 -0.07235479 NQGGYGGSSS(ph)SSSYGSGR ddPTM_HeLa_SAHA_4h_R1 1 NQGGYGGSSSSSSYGSGR 18 0 F8W6I7;P09651-2;P09651;P09651-3;A0A2R8Y4L2;H0YH80 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 NQGGYGGS(0.144)S(0.144)S(0.346)S(0.346)S(0.019)SYGSGR 178.99 3.50E-09 81139000 1219.1 784.35 1097.1 1049.4 997.62 1187.6 1181.8 1250.1 905.55 825.25 TRUE FALSE FALSE 1347.330531 809.7634546 1246.607075 1069.712654 921.1825711 1086.409799 1048.820754 1218.124252 899.2482038 860.8305662 1.565151825 0.94067693 1.448144529 1.242651802 1.07010904 1.262048354 1.218382333 1.415056923 1.044628571 1 9.749585495 -9.714650019 1.622577154 1.000196778 1.308217527 0.221667824 0.174483377 0.415437007 1.976345627 0.134653718 0.029614051 1.93E-10 9.714650019 0.30802075 NQGGYGGSSSS(ph)SSYGSGR ddPTM_HeLa_SAHA_4h_R1 1 NQGGYGGSSSSSSYGSGR 18 0 F8W6I7;P09651-2;P09651;P09651-3;A0A2R8Y4L2;H0YH80 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 NQGGYGGS(0.001)S(0.001)S(0.004)S(0.892)S(0.102)SYGSGR 208.07 7.17E-17 3568700 978.65 918.31 925.26 773.42 1101.5 1121.3 1027.9 1069.4 743.43 816.9 TRUE FALSE FALSE 1081.588897 948.0638465 1051.349614 788.3906625 1017.103308 1025.758932 912.2379867 1042.046296 738.2564101 852.1205568 1.269290934 1.112593563 1.233803839 0.925210237 1.193614331 1.203772076 1.070550381 1.222885997 0.866375543 1 9.734913745 -9.612226581 1.433355443 1.000424222 1.165184473 0.37244738 0.105211687 0.430449135 1.594226674 0.067164447 0.015615374 2.44E-10 9.612226581 0.164760251 NQGGYGGSSSSSS(ph)YGSGR ddPTM_HeLa_SAHA_4h_R1 1 NQGGYGGSSSSSSYGSGR 18 0 F8W6I7;P09651-2;P09651;P09651-3;A0A2R8Y4L2;H0YH80 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 NQGGYGGSSSSSS(0.834)Y(0.165)GS(0.001)GR 233.97 4.70E-29 1345800 168.23 133.88 0 287.7 191.48 109.84 300.64 166.05 301.41 0 TRUE FALSE FALSE 185.9252033 138.2177998 0 293.2688495 176.8088438 100.4810141 266.811196 161.8026814 299.3124633 0 0 NQGGYGGSSSSSSY(ph)GSGR ddPTM_HeLa_SAHA_4h_R1 1 NQGGYGGSSSSSSYGSGR 18 0 F8W6I7;P09651-2;P09651;P09651-3;A0A2R8Y4L2;H0YH80 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 NQGGYGGSSSSSS(0.007)Y(0.941)GS(0.053)GR 148.85 0.00023143 1388500 241.21 253.47 237 239.19 166.91 235.48 242.5 265.61 329.72 204.17 TRUE FALSE FALSE 266.5815745 261.6825943 269.2971258 243.8198683 154.1213919 215.4157792 215.2132618 258.8160808 327.4254517 212.9727679 1.25171672 1.228713872 1.264467417 1.144840586 0.723667131 1.011471003 1.010520096 1.215254342 1.537405251 1 7.734525159 -5.912259733 19.80341693 1.144659188 0.985820316 0.223101416 0.18185098 5.742158313 1291.676538 0.022586549 0.040941784 1.22E-06 5.912259733 -0.158838872 NQGGYGGSSSSSSYGS(ph)GR ddPTM_HeLa_SAHA_4h_R1 5 NQGGYGGSSSSSSYGSGR 18 0 F8W6I7;P09651-2;P09651;P09651-3;A0A2R8Y4L2;H0YH80 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 NQGGYGGSSSSSSYGS(1)GR;NQGGYGGSSSSSSYGS(1)GR;NQGGYGGSSSSSSYGS(1)GR;NQGGYGGSSSSSS(0.002)YGS(0.998)GR;NQGGYGGSSSSS(0.001)S(0.025)YGS(0.974)GR ;;;; 294.93 1.68E-87 66216000 3783.19 3200.68 2627.08 3915.65 3853.01 4150.415 4525.1 5433.528 4839.41 3051.78 TRUE FALSE FALSE 4181.123282 3304.384132 2985.084781 3991.443068 3557.793206 3796.776292 4015.923839 5294.546221 4805.732152 3183.357171 1.313432033 1.038018656 0.937715946 1.253847072 1.117623005 1.192695663 1.261537309 1.663195783 1.509642775 1 11.63633332 -3.78989161 1.249550611 1.132371462 2.645622601 0.448047248 0.159959796 2.218756067 1.301524631 0.020054904 5.759734402 0.000162221 3.78989161 1.513251139 NQGGYGGSSSSSSYGSGR ddPTM_HeLa_SAHA_4h_R1 6 NQGGYGGSSSSSSYGSGR 18 0 F8W6I7;P09651-2;P09651;P09651-3;A0A2R8Y4L2;H0YH80 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 0 0 ;;;;; ;;;;; 408.77 1.54E-260 55157100 1811.91 1435.905 1128.72 1585.12 1694.501 1950.3 1666.68 1474.29 1802.31 1450.77 FALSE FALSE TRUE 2002.495007 1482.429264 1282.536083 1615.80229 1564.668699 1784.123468 1479.14078 1436.579797 1789.767578 1513.319795 1.323246424 0.979587573 0.847498386 1.067720316 1.033931298 1.178946759 0.977414546 0.949290297 1.182676381 1 10.56350117 -7.180146272 24.99999889 1.152649472 1.008025898 0.320241437 0.108498966 125.1952453 38500.12315 0.023801249 0.029150456 6.60E-08 7.180146272 -0.144623574 NQIHVKS(ph)PPREGSQGELTPANSQSR ddPTM_HeLa_SAHA_4h_R1 2 NQIHVKSPPREGSQGELTPANSQSR 25 2 C9JFE4;A0A096LP07;A0A096LPJ3;A8K070;Q13098-5;Q13098;Q13098-7 C9JFE4 GPS1 COP9 signalosome complex subunit 1 1 0 NQIHVKS(0.976)PPREGS(0.024)QGELTPANSQSR;NQIHVKS(0.954)PPREGS(0.041)QGELT(0.004)PANS(0.001)QSR ; 49.593 0.0078414 27903000 2168.09 1916.06 2212.67 2289.68 2247.86 2535.05 2568.12 2782.33 1956.58 2403.16 TRUE FALSE FALSE 2396.139654 1978.141601 2514.201145 2334.000067 2075.629452 2319.049478 2279.148379 2711.162027 1942.964 2506.771988 0.955866614 0.789119078 1.002963635 0.931077927 0.828008874 0.925113847 0.909196524 1.081535154 0.775086051 1 11.29161506 -7.79464051 2.468764608 0.984883328 0.921101243 0 0.101860746 0.400506459 5.044200108 0.01469876 0.014377561 1.60E-08 7.79464051 -0.063782085 NQIPRT(ph)PENLITEIR ddPTM_HeLa_SAHA_4h_R1 1 NQIPRTPENLITEIR 15 1 Q5VY60;Q7Z4H7-3;Q7Z4H7;Q5SYF9 Q5VY60 HAUS6 HAUS augmin-like complex subunit 6 1 0 NQIPRT(1)PENLITEIR 114.58 0.0015134 13699000 2562 2724.7 3211.2 2041.5 2636.6 3574.8 3515.5 2673.3 1802.9 2953.5 TRUE FALSE FALSE 2831.482915 2812.982068 3648.805613 2081.016185 2434.584278 3270.206929 3119.926688 2604.920857 1790.353472 3080.839839 0.919062029 0.913056898 1.184354203 0.675470421 0.790233964 1.061466061 1.012687076 0.845522972 0.581125137 1 11.58910797 -6.262189293 24.99999443 0.971554693 0.890029376 0 0.175247378 137.4553168 4582386.419 0.019279296 0.030550568 5.47E-07 6.262189293 -0.081525318 NQK(ac)LTATTQK ddPTM_HeLa_SAHA_4h_R1 2 NQKLTATTQK 10 1 P12270 P12270 TPR Nucleoprotein TPR 0 1 ; NQK(1)LTATTQK;NQK(1)LTATTQK 228.84 1.25E-44 27113000 8912.8 9057 7585.8 8894.8 10664.5 9529.3 9934.7 8397.8 8271.4 8119.4 FALSE TRUE FALSE 9850.289197 9350.452743 8619.553319 9066.971716 9847.388314 8717.35003 8816.821409 8182.996436 8213.838654 8469.467069 1.163035303 1.104019021 1.017720861 1.070548081 1.162692792 1.029267834 1.041012538 0.966176073 0.96981765 1 13.04805548 -4.374420949 1.537316586 1.080053623 0.941891439 0.162310643 0.062254829 1.109284599 2.841356306 0.009928103 0.215528707 4.22E-05 4.374420949 -0.138162184 NQKPSQVNGAPGS(ph)PTEPAGQK ddPTM_HeLa_SAHA_4h_R1 3 NQKPSQVNGAPGSPTEPAGQK 21 1 Q9BQG0;Q9BQG0-2;I3L1L3 Q9BQG0 MYBBP1A Myb-binding protein 1A 1 0 NQKPSQVNGAPGS(0.834)PT(0.166)EPAGQK;NQKPSQVNGAPGS(0.999)PT(0.001)EPAGQK;NQKPSQVNGAPGS(0.966)PT(0.034)EPAGQK ;; 146.34 3.85E-06 236187000 16911.1 16925.2 14508.3 15537 18761.4 18197.2 19394.9 18728.4 15728 16447.2 TRUE FALSE FALSE 18689.88709 17473.58759 16485.41557 15837.7411 17323.90559 16646.69619 17212.53481 18249.35465 15618.54757 17156.31928 1.089387926 1.018492795 0.960894659 0.923143294 1.009768197 0.970295313 1.003276666 1.063710365 0.910367038 1 14.06645245 -6.992734311 16.12059195 1.042828329 0.98662968 0 0.057672892 2.623896285 5815.900943 0.007658549 0.010015416 1.02E-07 6.992734311 -0.056198649 NQKPSQVNGAPGSPT(ph)EPAGQK ddPTM_HeLa_SAHA_4h_R1 1 NQKPSQVNGAPGSPTEPAGQK 21 1 Q9BQG0;Q9BQG0-2;I3L1L3 Q9BQG0 MYBBP1A Myb-binding protein 1A 1 0 NQKPSQVNGAPGS(0.224)PT(0.776)EPAGQK 134.63 6.17E-06 50713000 2912.2 2892.1 2668.9 2827.6 3568.2 3487.1 3376.3 3332.6 2869.3 3428.3 TRUE FALSE FALSE 3218.518558 2985.805938 3032.603793 2882.332287 3294.805287 3189.979462 2996.389838 3247.356918 2849.332308 3576.110791 0.90000527 0.83493105 0.848017293 0.805996362 0.921337587 0.892024786 0.837890662 0.908069438 0.796768466 1 11.80417572 -8.482259612 0.754791097 0.993297128 0.864277199 0 0.070419661 0.264801667 0.313346644 0.016740138 0.008209146 3.29E-09 8.482259612 -0.129019929 NQLTSNPENTVFDAK ddPTM_HeLa_SAHA_4h_R1 1 NQLTSNPENTVFDAK 15 0 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 132.97 4.87E-05 0 647.9 609.18 497.13 711.5 551.14 827.87 663.07 682.38 671.34 582.01 FALSE FALSE TRUE 716.0490947 628.9178317 564.8762875 725.2721113 508.9117723 757.3308185 588.4596185 664.9257077 666.6680903 607.1032994 1.179451825 1.035932159 0.930445096 1.194643666 0.838262241 1.247449683 0.96929076 1.095243113 1.098113107 1 9.245798204 NQLVT(ph)PEPTSR ddPTM_HeLa_SAHA_4h_R1 4 NQLVTPEPTSR 11 0 Q14676;Q14676-3;Q14676-2 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 1 0 NQLVT(0.807)PEPT(0.193)SR;NQLVT(0.359)PEPT(0.321)S(0.321)R;NQLVT(0.975)PEPT(0.025)SR;NQLVT(0.688)PEPT(0.302)S(0.01)R ;;; 135.81 0.001902 43377300 5366.9 4288.64 4657.11 4978.33 5538.8 6518.4 5920.1 5794.2 5490.9 5840.5 TRUE FALSE FALSE 5931.415166 4427.59475 5291.756698 5074.692776 5114.418341 5962.995648 5253.954767 5645.992754 5452.68838 6092.312538 0.973590099 0.726751085 0.868595737 0.832966586 0.839487191 0.97877376 0.862390879 0.926740498 0.89501127 1 12.57277424 -7.486748294 24.1068848 0.988348658 0.863916853 0.252131612 0.068102817 186.4050461 124374.1271 0.010404303 0.011593871 3.26E-08 7.486748294 -0.124431805 NQPEK(ac)TCVR ddPTM_HeLa_SAHA_4h_R1 2 NQPEKTCVR 9 1 J3QR07;Q96MU7-2;Q96MU7 J3QR07 YTHDC1 YTH domain-containing protein 1 0 1 ; NQPEK(1)TCVR;NQPEK(1)TCVR 134.26 0.00084218 1455210 72.137 251.46 462.47 255.11 212.503 347.97 266.05 295.093 63.505 0 FALSE TRUE FALSE 79.72470064 259.607469 525.4930032 260.0480229 196.221066 318.3209984 236.1133538 287.5449483 63.06306353 0 0 NQPTVYIAAS(ph)PPNTDELMSR ddPTM_HeLa_SAHA_4h_R1 2 NQPTVYIAASPPNTDELMSR 20 0 A0A1B0GV57;Q9NYJ8;Q9NYJ8-2 A0A1B0GV57 TAB2 TGF-beta-activated kinase 1 and MAP3K7-binding protein 2 1 0 NQPTVY(0.001)IAAS(0.564)PPNT(0.094)DELMS(0.34)R;NQPT(0.133)VY(0.087)IAAS(0.777)PPNT(0.002)DELMSR ; 73.722 0.005104 2426800 1071.46 1013.09 1326.87 1412.48 1471.1 1727.69 1621.79 1077.33 1335.5 1175.14 TRUE FALSE FALSE 1184.161079 1045.914781 1507.688934 1439.820593 1358.384636 1580.481092 1439.301921 1049.773459 1326.206147 1225.806036 0.96602647 0.853246557 1.229957178 1.174590882 1.108156262 1.289340275 1.174167754 0.856394427 1.081905381 1 10.259515 -6.753724481 24.99916443 0.973705402 1.147457975 0.310161552 0.119002918 142.4415327 461562.6164 0.017363944 0.024291786 1.76E-07 6.753724481 0.173752574 NQPTVYIAASPPNT(ph)DELMSR ddPTM_HeLa_SAHA_4h_R1 1 NQPTVYIAASPPNTDELMSR 20 0 A0A1B0GV57;Q9NYJ8;Q9NYJ8-2 A0A1B0GV57 TAB2 TGF-beta-activated kinase 1 and MAP3K7-binding protein 2 1 0 NQPTVYIAAS(0.493)PPNT(0.504)DELMS(0.002)R 75.703 0.0074509 4122000 1120 1132.8 1116.4 2179.7 836.92 1377.3 1164.2 2120 1792.1 1272.4 TRUE FALSE FALSE 1237.806739 1169.503463 1268.537178 2221.891245 772.7953704 1259.946292 1033.201152 2065.77347 1779.62863 1327.259391 0.932603489 0.8811416 0.955756792 1.674044471 0.582248938 0.949284142 0.778447046 1.556420308 1.340829564 1 10.37423463 NQPTVYIAASPPNTDELMS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 NQPTVYIAASPPNTDELMSR 20 0 A0A1B0GV57;Q9NYJ8;Q9NYJ8-2 A0A1B0GV57 TAB2 TGF-beta-activated kinase 1 and MAP3K7-binding protein 2 1 0 NQPTVY(0.001)IAAS(0.019)PPNT(0.354)DELMS(0.626)R 71.933 0.011459 7219600 1222.2 1134 1248.6 1167.9 1173.9 1393.6 1785.9 1469.6 1042.8 1162.7 TRUE FALSE FALSE 1350.756604 1170.742344 1418.752706 1190.506393 1083.956036 1274.85744 1584.945832 1432.00976 1035.54307 1212.829687 1.113723236 0.965298225 1.169787251 0.981594041 0.893741345 1.051143003 1.306816488 1.180717932 0.853823979 1 10.24416126 -4.775729682 23.18584166 1.040037994 1.243767117 0.457013087 0.098499378 52.16064887 84631.48512 0.011461001 0.034673649 1.68E-05 4.775729682 0.203729122 NQRPS(ph)SMVS(ph)ETSTAGTAS(ph)TLEAKPGPK ddPTM_HeLa_SAHA_4h_R1 1 NQRPSSMVSETSTAGTASTLEAKPGPK 27 2 A0A1B0GTN9;E9PKC0;Q6IQ23;Q6IQ23-2;E9PIK1 A0A1B0GTN9 PLEKHA7 Pleckstrin homology domain-containing family A member 7 3 0 NQRPS(0.517)S(0.517)MVS(0.51)ET(0.257)S(0.175)T(0.175)AGT(0.259)AS(0.294)T(0.294)LEAKPGPK 41.084 0.0082197 0 385.3 306.18 221.94 379.18 602.42 421.63 489.73 645.02 540.22 454.76 TRUE FALSE FALSE 425.8276218 316.1004329 252.1848274 386.5195772 556.2627097 385.704752 434.6242915 628.5213224 536.460565 474.3669291 0.897675609 0.666362711 0.531623964 0.814811391 1.172642264 0.81309368 0.916219628 1.324968677 1.130897902 1 8.889859625 -4.26313611 5.629487143 0.897828651 1.339004085 0.337631587 0.184947527 0.130574526 16.85499429 0.025419368 0.220724034 5.46E-05 4.26313611 0.441175434 NQS(ph)LVEENEK ddPTM_HeLa_SAHA_4h_R1 2 NQSLVEENEK 10 0 O95239;O95239-2;Q2VIQ3 O95239 KIF4A;KIF4B Chromosome-associated kinesin KIF4A;Chromosome-associated kinesin KIF4B 1 0 NQS(1)LVEENEK;NQS(1)LVEENEK ; 161.87 0.00019926 33282000 3531.3 3514 2714.5 4017.8 3980.1 3701.6 3361.1 3516.6 3789.2 3648.3 TRUE FALSE FALSE 3902.738336 3627.855906 3084.417923 4095.570329 3675.145598 3386.202855 2982.900182 3426.650464 3762.830649 3805.596067 1.025526164 0.953295053 0.810495352 1.076196805 0.965721409 0.889795658 0.783819441 0.900424113 0.988762491 1 11.89390672 -4.891569047 0.421969481 1.011502187 0.766174527 0.276274276 0.075098652 2.576055086 0.441101899 0.020635814 0.289536471 1.28E-05 4.891569047 -0.24532766 NQS(ph)LVEENEKLSR ddPTM_HeLa_SAHA_4h_R1 1 NQSLVEENEKLSR 13 1 O95239;O95239-2;Q2VIQ3 O95239 KIF4A;KIF4B Chromosome-associated kinesin KIF4A;Chromosome-associated kinesin KIF4B 1 0 NQS(0.995)LVEENEKLS(0.005)R 136.57 0.0022776 7752900 1827.3 1301.6 1296.5 1477.8 1720.5 1470.3 1509.5 1816.7 1030.8 1430 TRUE FALSE FALSE 2019.503798 1343.772694 1473.180268 1506.404956 1588.675662 1345.022168 1339.647087 1770.231445 1023.626579 1491.654298 1.353868521 0.900860672 0.987615073 1.009888791 1.065042794 0.901698316 0.898094879 1.186757177 0.686235799 1 10.5426975 -7.239579316 24.79429767 1.167104595 0.98893127 0 0.190532365 786.8013555 892413.1969 0.024941177 0.030532729 5.76E-08 7.239579316 -0.178173325 NQS(ph)PVLEPVGR ddPTM_HeLa_SAHA_4h_R1 1 NQSPVLEPVGR 11 0 B4DG22;B1AXG1;B7ZB17;P51812;A0A2R8Y603 B4DG22 RPS6KA3 Ribosomal protein S6 kinase alpha-3 1 0 NQS(1)PVLEPVGR 108.23 0.0045996 23054000 1886.3 1852.9 1895.9 1962.2 2149 2371.6 2761.4 2228.2 1706.4 1943.8 TRUE FALSE FALSE 2084.709689 1912.935176 2154.263379 2000.181218 1984.344084 2169.526338 2450.680004 2171.20587 1694.525023 2027.606731 1.028162738 0.943444874 1.062466082 0.986473949 0.978663196 1.069993656 1.208656475 1.070821988 0.835726671 1 10.98556214 -4.9942162 6.233507561 1.00839632 1.140611202 0.435411355 0.069506431 0.062446993 10.55997626 0.005395365 0.015671707 1.01E-05 4.9942162 0.132214881 NQS(ph)SEDILR ddPTM_HeLa_SAHA_4h_R1 2 NQSSEDILR 9 0 Q13625-2;Q13625;Q13625-3;H0Y847 Q13625-2 TP53BP2 Apoptosis-stimulating of p53 protein 2 1 0 NQS(0.5)S(0.5)EDILR;NQS(0.831)S(0.169)EDILR ; 111.94 0.0056868 11775000 2293.69 1730.34 1921.45 3114.3 2654.8 2624.4 2250.4 3727.8 2828.8 2127.9 TRUE FALSE FALSE 2534.950838 1786.404151 2183.2952 3174.58178 2451.389798 2400.786356 1997.179069 3632.448274 2809.11415 2219.644183 1.142052793 0.804815549 0.983623959 1.430221026 1.104406651 1.081608653 0.899774425 1.636500256 1.265569577 1 11.11611271 NQSFCPT(ph)VNLDK ddPTM_HeLa_SAHA_4h_R1 1 NQSFCPTVNLDK 12 0 E9PJD9;E9PLL6;P46776 E9PJD9 RPL27A 60S ribosomal protein L27a 1 0 NQS(0.001)FCPT(0.999)VNLDK 193.11 5.35E-31 0 731.64 1133.3 761.71 938.93 1215.9 1165 1553.6 1189.4 1466.8 969.77 TRUE FALSE FALSE 808.5972521 1170.019664 865.511872 957.1043479 1122.738005 1065.735446 1378.784839 1158.97687 1456.592419 1011.581531 0.799339675 1.156624185 0.855602683 0.946146523 1.109883851 1.053533911 1.362999222 1.14570782 1.439915988 1 9.982396886 -5.350874987 1.151905756 0.919449552 1.252225742 0 0.199496772 0.321986849 0.766992335 0.01873159 0.079512077 4.46E-06 5.350874987 0.33277619 NQSHSSPS(ph)VS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 NQSHSSPSVSPSR 13 0 A0A2R8Y880;Q7Z6E9-2;Q7Z6E9;Q7Z6E9-4 A0A2R8Y880 RBBP6 E3 ubiquitin-protein ligase RBBP6 2 0 NQSHS(0.05)S(0.067)PS(0.884)VS(0.929)PS(0.07)R 104.55 0.0050293 0 390.46 564.24 359.9 375.46 709.85 810.88 658.96 544.48 758.55 597.81 TRUE FALSE FALSE 431.5303743 582.5217462 408.9452977 382.7275712 655.4614464 741.7884621 584.8120865 530.55299 753.2711888 623.5845147 0.69201586 0.934150436 0.655797712 0.61375413 1.051118863 1.189555617 0.937823299 0.850811682 1.207969683 1 9.284441292 -5.702863745 24.99998686 0.826193228 1.015379619 0.13789526 0.185606566 92.47456762 39467.21457 0.024530801 0.04906159 1.98E-06 5.702863745 0.189186391 NQSHSSPS(ph)VSPS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 NQSHSSPSVSPSR 13 0 A0A2R8Y880;Q7Z6E9-2;Q7Z6E9;Q7Z6E9-4 A0A2R8Y880 RBBP6 E3 ubiquitin-protein ligase RBBP6 2 0 NQS(0.005)HS(0.035)S(0.026)PS(0.931)VS(0.44)PS(0.563)R 99.796 0.0069635 0 1302.1 1261.3 778.41 1281.6 1686.4 1628.8 1501.3 1300.7 1462.7 1173.4 TRUE FALSE FALSE 1439.060852 1302.166948 884.487661 1306.407221 1557.188396 1490.017077 1332.369773 1267.429977 1452.520952 1223.991016 1.17571194 1.063869694 0.722625942 1.067333995 1.27222208 1.217343148 1.088545385 1.035489608 1.186708834 1 10.25737725 -5.969917251 24.91052462 1.05165501 1.155390384 0.149498212 0.134550906 359.5368213 297718.7671 0.021224233 0.038471802 1.07E-06 5.969917251 0.103735375 NQSLGQS(ph)APSLTAGLK ddPTM_HeLa_SAHA_4h_R1 1 NQSLGQSAPSLTAGLK 16 0 Q6P0Q8-2;Q6P0Q8 Q6P0Q8-2 MAST2 Microtubule-associated serine/threonine-protein kinase 2 1 0 NQS(0.01)LGQS(0.427)APS(0.427)LT(0.136)AGLK 106.87 0.0023774 15951000 2474.5 2114.6 1988.4 2298.5 2341.6 2177.1 2583.7 2310 2204.2 2017.9 TRUE FALSE FALSE 2734.779263 2183.114427 2259.368797 2342.990791 2162.187114 1991.598832 2292.975276 2250.913545 2188.860793 2104.901544 1.299243317 1.037157502 1.07338455 1.113111821 1.02721532 0.946171966 1.08935037 1.069367615 1.039887494 1 11.03953704 NQSLGQSAPS(ph)LTAGLK ddPTM_HeLa_SAHA_4h_R1 1 NQSLGQSAPSLTAGLK 16 0 Q6P0Q8-2;Q6P0Q8 Q6P0Q8-2 MAST2 Microtubule-associated serine/threonine-protein kinase 2 1 0 NQS(0.015)LGQS(0.077)APS(0.894)LT(0.013)AGLK 109.72 0.0019595 16179000 1599.8 1374 1470.9 1220.4 1548.8 1636.4 1547.9 1645.4 1537.4 1638.1 TRUE FALSE FALSE 1768.074304 1418.518502 1671.346592 1244.022607 1430.131279 1496.969514 1373.726218 1603.313051 1526.701108 1708.726508 1.03473218 0.830161231 0.978124108 0.728040796 0.83695739 0.876073208 0.803947391 0.93830876 0.893473064 1 10.73870579 -7.262567034 24.99875201 1.016401309 0.853768519 0.304629886 0.076128029 49.82187514 1104487.731 0.010382583 0.012228994 5.46E-08 7.262567034 -0.162632791 NQSPT(ph)EAEKPASSSLPSSPPPQLLTR ddPTM_HeLa_SAHA_4h_R1 2 NQSPTEAEKPASSSLPSSPPPQLLTR 26 1 Q99567;I3L2W3 Q99567 NUP88 Nuclear pore complex protein Nup88 1 0 NQS(0.018)PT(0.973)EAEKPAS(0.005)S(0.002)S(0.001)LPSSPPPQLLTR;NQS(0.011)PT(0.551)EAEKPAS(0.181)S(0.181)S(0.068)LPS(0.007)S(0.002)PPPQLLTR ; 94.276 1.55E-05 37087000 1781.97 1513.43 1607.49 1323.22 1694.69 2105.06 1869.86 1885.88 1717.93 1580.6 TRUE FALSE FALSE 1969.405781 1562.466125 1826.550366 1348.832837 1564.843218 1925.697045 1659.458432 1837.64192 1705.974785 1648.747401 1.194486056 0.94766859 1.10784124 0.818095504 0.949110347 1.167975788 1.006496465 1.114568501 1.034709613 1 10.68715467 -7.244088142 24.95687535 1.091840643 1.014799569 0.058439356 0.105778717 1558.628981 2241832.147 0.019333534 0.023649888 5.70E-08 7.244088142 -0.077041075 NQSPTEAEKPASSSLPS(ph)SPPPQLLTR ddPTM_HeLa_SAHA_4h_R1 2 NQSPTEAEKPASSSLPSSPPPQLLTR 26 1 Q99567;I3L2W3 Q99567 NUP88 Nuclear pore complex protein Nup88 1 0 NQSPTEAEKPAS(0.013)S(0.074)S(0.074)LPS(0.419)S(0.419)PPPQLLT(0.002)R;NQSPT(0.001)EAEKPAS(0.005)S(0.065)S(0.094)LPS(0.417)S(0.417)PPPQLLT(0.001)R ; 85.937 3.02E-05 60059000 3496.5 3403.6 3146.6 3761.4 4391.2 4972.2 4414.3 4283.1 4201.2 3767.9 TRUE FALSE FALSE 3864.277913 3513.878873 3575.402261 3834.207336 4054.747205 4548.540587 3917.591346 4173.544504 4171.963507 3930.352609 0.983188609 0.894036547 0.909689948 0.975537749 1.031649729 1.157285628 0.996753151 1.061875338 1.061473085 1 11.94044303 -5.620003359 4.352598982 0.975952488 1.068635868 0.392030204 0.056825054 0.169688483 5.782150387 0.007797145 0.016077398 2.40E-06 5.620003359 0.092683381 NQSS(ph)EDILR ddPTM_HeLa_SAHA_4h_R1 1 NQSSEDILR 9 0 Q13625-2;Q13625;Q13625-3;H0Y847 Q13625-2 TP53BP2 Apoptosis-stimulating of p53 protein 2 1 0 NQS(0.289)S(0.711)EDILR 107.34 0.0070931 3017500 2128.3 1294 1180.4 2327.7 2169.9 1686.8 2068.5 2903.9 2036 1439.8 TRUE FALSE FALSE 2352.164359 1335.926449 1341.258765 2372.755999 2003.642731 1543.07515 1835.746936 2829.622443 2021.83131 1501.876824 1.566149981 0.88950467 0.893055105 1.579860586 1.334092582 1.027431228 1.222301927 1.884057599 1.346203149 1 10.55255078 -4.261072125 24.99912038 1.229223029 1.884057795 0.412064977 0.241428438 27.59744559 1877841.403 0.03836533 0.302398248 5.48E-05 4.261072125 0.654834766 NQTAEK(ac)EEFEHQQK ddPTM_HeLa_SAHA_4h_R1 1 NQTAEKEEFEHQQK 14 1 P11142;E9PKE3;E9PNE6;A8K7Q2;E9PS65;E9PM13 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 1 NQTAEK(1)EEFEHQQK 153.09 1.46E-05 3380000 263.6 1226.7 479.58 645.76 909.35 1072.5 1164.6 1043 1382.2 397.96 FALSE TRUE FALSE 291.3266574 1266.445885 544.9346649 658.2596186 839.6757995 981.1169663 1033.556143 1016.32157 1372.581158 415.1180032 0.701792394 3.050809349 1.312722312 1.585716865 2.022740023 2.363465229 2.489788771 2.448271485 3.306484294 1 8.697377691 -7.285017922 24.98558968 0.859179683 2.138268311 0 0.90206436 364.3143818 386053.7661 0.08003545 0.091552138 5.19E-08 7.285017922 1.279088628 NQTAEKEEFEHQQK ddPTM_HeLa_SAHA_4h_R1 2 NQTAEKEEFEHQQK 14 1 P11142;E9PKE3;E9PNE6;A8K7Q2;E9PS65;E9PM13 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ; ; 75.589 0.013136 64538000 7280.1 7517.9 6410.6 7589.9 7939.4 9882.4 8598.5 7415.5 11368.6 7430.2 FALSE FALSE TRUE 8045.85432 7761.484893 7284.203183 7736.81349 7331.084887 9040.363923 7630.97415 7225.822248 11289.48499 7750.552285 1.038100773 1.001410559 0.93983021 0.998227379 0.945879031 1.166415449 0.984571663 0.932297723 1.456603939 1 12.9200834 -4.51854859 24.99873037 1.015128204 0.945366168 0 0.151543752 214.4601851 1238094.158 0.007832607 0.030940854 3.03E-05 4.51854859 -0.069762037 NQTYSFS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 1 NQTYSFSPSK 10 0 Q86YS7;H0YFE9;Q86YS7-3 Q86YS7;Q86YS7-3 C2CD5 C2 domain-containing protein 5 1 0 NQT(0.008)YS(0.22)FS(0.744)PS(0.027)K 115.92 0.0038376 23516000 2392.3 2619.2 2152.2 2507.5 2858.9 2644.6 2420.6 2166.4 2827.1 2233 TRUE FALSE FALSE 2643.93309 2704.063799 2445.490608 2556.036288 2639.8517 2419.265202 2148.227717 2110.986625 2807.425981 2329.275558 1.135088153 1.16090335 1.049893217 1.097352471 1.133335938 1.038634177 0.922272897 0.906284625 1.205278599 1 11.18566561 -4.812627128 3.505377205 1.078391666 0.909035711 0.594128118 0.060510681 0.130898787 3.226115987 0.008666355 0.032231353 1.54E-05 4.812627128 -0.169355955 NQVALNPQNTVFDAK ddPTM_HeLa_SAHA_4h_R1 3 NQVALNPQNTVFDAK 15 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 0 0 ;; ;; 182.1 8.95E-25 2198660 973.18 978.96 1105.87 1231.46 1375.84 1460.32 1301.22 1237.96 1126.15 1027.752 FALSE FALSE TRUE 1075.543538 1010.678946 1256.572204 1255.296689 1270.423436 1335.89252 1154.803301 1206.294776 1118.31303 1072.063418 1.003246188 0.942741753 1.172106223 1.170916447 1.185026384 1.246094678 1.07717816 1.125208411 1.043140743 1 10.06617454 -6.751527375 24.99982142 0.997166416 1.16403669 0.753807033 0.046324141 69.86365081 176207.9523 0.00697513 0.009795885 1.77E-07 6.751527375 0.166870274 NQVALNPQNTVFDAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 NQVALNPQNTVFDAKR 16 1 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 0 1 ; NQVALNPQNTVFDAK(1)R;NQVALNPQNTVFDAK(1)R 247.73 4.98E-59 2850000 490.3 1150.96 688.84 632.92 1020.55 823.73 1441.09 1000.5 856.02 289.29 FALSE TRUE FALSE 541.8720036 1188.251859 782.7115279 645.1710818 942.3556795 753.5435698 1278.93476 974.9086587 850.0628871 301.7627077 1.795689096 3.937702801 2.593798067 2.138007996 3.122836771 2.497139477 4.238213431 3.230712855 2.816991184 1 8.237270716 -7.531959338 0.322983659 0.69473285 3.607733542 0.08155975 0.880142458 0.638800456 0.21133515 0.685202552 0.609432241 2.94E-08 7.531959338 2.913000692 NQVAMNPTNTVFDAK ddPTM_HeLa_SAHA_4h_R1 3 NQVAMNPTNTVFDAK 15 0 P11142;E9PKE3;P11142-2;E9PNE6;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;E9PN25 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ;; ;; 209.25 1.83E-32 4881700 1826.8 2021.83 1736.93 1993.99 2127.56 2114.19 2372.6 2059.37 2314.59 1863.02 FALSE FALSE TRUE 2018.951206 2087.338619 1973.629775 2032.58656 1964.546812 1934.049118 2105.628804 2006.694297 2298.48258 1943.34391 1.038905773 1.07409636 1.015584408 1.045922212 1.010910525 0.995217114 1.083508067 1.03259865 1.182746177 1 10.92432552 -9.101004367 0.937030334 1.000622385 1.036864684 0 0.062566606 0.651032618 1.058824316 0.015200155 0.004808826 7.92E-10 9.101004367 0.036242299 NQVAMNPTNTVFDAK(ac)R ddPTM_HeLa_SAHA_4h_R1 3 NQVAMNPTNTVFDAKR 16 1 P11142;E9PKE3;P11142-2;E9PNE6;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;E9PN25 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 1 ;; NQVAMNPTNTVFDAK(1)R;NQVAMNPTNTVFDAK(1)R;NQVAMNPTNTVFDAK(1)R 321.67 2.41E-159 6121700 706.36 2097.21 1143.77 1019.74 1727.61 1313.56 1850.39 1479.11 1210.36 359.02 FALSE TRUE FALSE 780.6581857 2165.16098 1299.637019 1039.478542 1595.240895 1201.637298 1642.179247 1441.276508 1201.937006 374.4991092 2.0845395 5.781484994 3.470334073 2.77565024 4.259665393 3.208651953 4.385001745 3.848544556 3.209452243 1 8.548818477 -7.464077703 6.61656413 1.470890564 3.904483222 0.415006814 0.953455945 0.101896882 9.03094643 0.139125351 0.156909237 3.43E-08 7.464077703 2.433592658 NQVAMNPTNTVFDAKR ddPTM_HeLa_SAHA_4h_R1 2 NQVAMNPTNTVFDAKR 16 1 P11142;E9PKE3;P11142-2;E9PNE6;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;E9PN25 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ; ; 190.11 5.02E-18 3721400 588.53 607.55 566.02 468.26 790.02 613.7 706.46 574.81 348.71 347.778 FALSE FALSE TRUE 650.4342857 627.2350186 643.1542579 477.3238494 729.4888383 561.4093074 626.9672615 560.1071925 346.2832987 362.7724116 1.792954108 1.729004187 1.772886354 1.315766674 2.010871872 1.547552376 1.728266102 1.543963032 0.954546949 1 8.502920934 -9.279666097 0.888925303 0.97750777 1.686848564 0.711596831 0.177774217 0.271264304 0.365327418 0.13044559 0.031215799 5.25E-10 9.279666097 0.709340794 NQVEEDAEDS(ph)GEADDEEKPEIHKPGQNSFSK ddPTM_HeLa_SAHA_4h_R1 1 NQVEEDAEDSGEADDEEKPEIHKPGQNSFSK 31 2 O75717-2;O75717 O75717-2 WDHD1 WD repeat and HMG-box DNA-binding protein 1 1 0 NQVEEDAEDS(0.999)GEADDEEKPEIHKPGQNS(0.001)FSK 58.137 0.0015803 11023000 1429.8 1735.9 949.81 1695.8 2353.9 3241.1 1913.2 2084.8 2187.1 2140.6 TRUE FALSE FALSE 1580.192924 1792.144299 1079.24516 1728.624661 2173.544691 2964.940046 1697.921701 2031.473835 2171.879793 2232.891742 0.707689 0.80261137 0.483339671 0.774164116 0.973421438 1.327847647 0.760413803 0.909795041 0.972675814 1 11.12469759 -5.695499043 6.507756958 0.816867178 1.002399045 0.209440842 0.188806096 0.315910792 24.21700229 0.030019643 0.060180839 2.02E-06 5.695499043 0.185531867 NQVGDENWR ddPTM_HeLa_SAHA_4h_R1 1 NQVGDENWR 9 0 Q92973-2;Q92973;Q92973-3;S4R398 Q92973-2 TNPO1 Transportin-1 0 0 123.21 0.01881 16313000 1089.9 1069.6 826.13 1356.4 1488.6 1614.2 1447.7 1447.4 1458 1161.8 FALSE FALSE TRUE 1204.540683 1104.255742 938.7106941 1382.655083 1374.54379 1476.661079 1284.800986 1410.377604 1447.853659 1211.890884 0.993934932 0.911184131 0.77458351 1.14090724 1.134214151 1.218476926 1.060162266 1.163782666 1.194706288 1 10.24304409 -6.078141198 24.9999978 0.973365203 1.142733883 0.400087412 0.103235541 66.62025482 21313.62065 0.011850417 0.019651699 8.35E-07 6.078141198 0.169368679 NQVIIPLVLS(ph)PDRDEDLMR ddPTM_HeLa_SAHA_4h_R1 1 NQVIIPLVLSPDRDEDLMR 19 1 Q96G25;Q96G25-2 Q96G25 MED8 Mediator of RNA polymerase II transcription subunit 8 1 0 NQVIIPLVLS(1)PDRDEDLMR 75.548 0.0038871 5852000 831.95 738.93 468.01 650.69 796.87 1156 1042.5 986.37 979.68 1005.3 TRUE FALSE FALSE 919.4583181 762.8718168 531.7879655 663.2850459 735.8139928 1057.502297 925.1951563 961.1400836 972.8623271 1048.643403 0.876807422 0.727484495 0.507119927 0.632517254 0.701681802 1.008447956 0.882278145 0.916555696 0.92773418 1 10.03430845 -7.739591976 1.706387691 0.960827232 0.766866429 0.234532481 0.138753236 0.351901975 2.134816735 0.032416454 0.031735036 1.82E-08 7.739591976 -0.193960803 NQVLVFVHSR ddPTM_HeLa_SAHA_4h_R1 1 NQVLVFVHSR 10 0 O75643;A0A494C1A5 O75643 SNRNP200 U5 small nuclear ribonucleoprotein 200 kDa helicase 0 0 100.88 0.0030931 790140 534.79 647.21 865.45 831.43 777.65 858.41 1010 413.42 684.53 684.63 FALSE FALSE TRUE 591.0416659 668.1800286 983.3890189 847.5235299 718.066625 785.2686387 896.3521418 402.845315 679.7663 714.1477498 0.827618187 0.935632758 1.377010596 1.186762165 1.005487485 1.09958848 1.255135428 0.564092396 0.951856671 1 9.480078774 -6.96284503 24.99993293 0.916651337 1.096826982 0.114316176 0.204920166 236.3157727 159005.9007 0.031882172 0.041901334 1.09E-07 6.96284503 0.180175645 NQVVSS(ph)TNGELNTDDPTAGR ddPTM_HeLa_SAHA_4h_R1 2 NQVVSSTNGELNTDDPTAGR 20 0 H0YBN6;Q9Y6M4-6;Q9Y6M4-5;Q9Y6M4-3;Q9Y6M4-4 H0YBN6 CSNK1G3 1 0 NQVVS(0.028)S(0.969)T(0.003)NGELNTDDPTAGR;NQVVS(0.006)S(0.931)T(0.063)NGELNTDDPTAGR ; 297.87 1.09E-91 12719500 1427.37 3713.1 2070.99 1361.77 2524.32 1957.17 2746.5 1697.06 1453.6 2183.63 TRUE FALSE FALSE 1577.507326 3833.406876 2353.213732 1388.129028 2330.907147 1790.408105 2437.456592 1653.651663 1443.484279 2277.776976 0.692564436 1.682959709 1.033118588 0.609422714 1.023325449 0.786033103 1.070103271 0.725993668 0.633725029 1 11.15341078 NQYDNDVTVWS(ph)PQGR ddPTM_HeLa_SAHA_4h_R1 2 NQYDNDVTVWSPQGR 15 0 P25786;P25786-2;B4DEV8 P25786 PSMA1 Proteasome subunit alpha type-1;Proteasome subunit alpha type 1 0 NQYDNDVTVWS(1)PQGR;NQYDNDVTVWS(1)PQGR ; 229.02 1.04E-24 12283100 1408.42 1331.67 1069.72 1090.09 1540.55 1459.15 1408.22 1285.14 1325.3 1153.25 TRUE FALSE FALSE 1556.564078 1374.816982 1215.495871 1111.190268 1422.513392 1334.822211 1249.763379 1252.26798 1316.077129 1202.972251 1.293931823 1.14285012 1.010410564 0.92370399 1.182498923 1.109603492 1.038896265 1.040978275 1.094021186 1 10.23238765 -6.780630567 23.66982738 1.142983109 1.053317155 0.155526438 0.091915078 231.2419339 285205.8736 0.020310113 0.026721505 1.66E-07 6.780630567 -0.089665953 NQYDNDVTVWSPQGR ddPTM_HeLa_SAHA_4h_R1 1 NQYDNDVTVWSPQGR 15 0 P25786;P25786-2;B4DEV8 P25786 PSMA1 Proteasome subunit alpha type-1;Proteasome subunit alpha type 0 0 194.86 1.29E-08 11500000 398.65 650.06 442.74 407.54 564.14 727.93 441.94 666.98 757.26 470.54 FALSE FALSE TRUE 440.5818361 671.1223705 503.0743015 415.428526 520.9157151 665.9062688 392.2117481 649.9196174 751.990166 490.8272822 0.897631106 1.367328987 1.02495179 0.846384342 1.061301468 1.356701824 0.799083022 1.324130995 1.532087138 1 8.939071632 -1 0.208378495 0.950656517 2.044059744 0 0.265392065 92.43187591 1.08069983 0.163390016 33.69923437 0.1 1 1.093403227 NRAEVSQPR ddPTM_HeLa_SAHA_4h_R1 2 NRAEVSQPR 9 1 P22314-2;P22314;Q5JRR9;Q5JRS0;Q5JRS2;Q5JRS1;Q5JRS3 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 ; ; 128.91 0.0033719 1421870 555.14 457.99 694.04 540.98 394.34 462.43 722.66 369.77 257.784 365.24 FALSE FALSE TRUE 613.5321723 472.8291765 788.6201568 551.4514502 364.1257544 423.0283624 641.3443949 360.3118188 255.9900602 380.9872838 1.61037441 1.241062882 2.069938264 1.447427443 0.95574254 1.110347721 1.683374806 0.945731876 0.671912347 1 8.573599036 NREEEWDPEYT(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 NREEEWDPEYTPK 13 1 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 NREEEWDPEYT(1)PK;NREEEWDPEYT(1)PK;NREEEWDPEY(0.016)T(0.984)PK;NREEEWDPEYT(1)PK ;;; 178.01 1.19E-05 166633200 11508.4 9356.7 9653.5 13005.9 14374 12148.4 12693.1 13822.3 12035 9925.9 TRUE FALSE FALSE 12718.90631 9659.863219 10969.02871 13257.648 13272.66723 11113.28797 11264.83898 13468.74558 11951.24746 10353.85413 1.228422398 0.932972698 1.059415033 1.280455359 1.281905952 1.073347938 1.087985097 1.300843668 1.154280069 1 13.33788028 -6.281430974 24.47851998 1.091403159 1.195380734 0.269464562 0.104631897 938.1336149 1148685.992 0.018837796 0.028803172 5.23E-07 6.281430974 0.103977574 NREEEWDPEYTPK ddPTM_HeLa_SAHA_4h_R1 2 NREEEWDPEYTPK 13 1 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 0 0 ; ; 128.57 0.001215 21207500 4521.5 4645 4941.3 4789.2 4875.9 5970.9 5240.3 4753 6166.5 4666.5 FALSE FALSE TRUE 4997.092115 4795.501048 5614.674631 4881.901891 4502.309595 5462.145729 4650.647652 4631.425142 6123.586824 4867.695652 1.026582694 0.985168628 1.153456385 1.002918473 0.924936544 1.122121455 0.955410524 0.951461528 1.258005278 1 12.24902325 -4.57646268 24.99998634 1.020488042 0.952444023 0.058423927 0.097759132 104.4435127 48728.54602 0.008033223 0.030057578 2.65E-05 4.57646268 -0.068044019 NREILDESLR ddPTM_HeLa_SAHA_4h_R1 2 NREILDESLR 10 1 Q8WUM4;Q8WUM4-2 Q8WUM4 PDCD6IP Programmed cell death 6-interacting protein 0 0 ; ; 176.48 7.65E-05 8892900 4399.3 3640 4720.9 4334.5 4922.5 4658.5 4854.2 4317.1 3104.39 4222.8 FALSE FALSE TRUE 4862.038559 3757.938388 5364.239667 4418.400515 4545.339113 4261.569592 4307.99264 4206.674833 3082.786297 4404.865574 1.103788181 0.853133501 1.217798722 1.003072725 1.031890539 0.967468705 0.978007744 0.955006404 0.699859336 1 12.10488228 -5.34892427 2.130276788 1.044876661 0.965058594 0 0.139000934 0.502255394 4.396424188 0.012321298 0.034932662 4.48E-06 5.34892427 -0.079818067 NRENSS(ph)PCQGNGEQAGR ddPTM_HeLa_SAHA_4h_R1 2 NRENSSPCQGNGEQAGR 17 1 Q5T5X7 Q5T5X7 BEND3 BEN domain-containing protein 3 1 0 NRENS(0.002)S(0.998)PCQGNGEQAGR;NRENS(0.033)S(0.967)PCQGNGEQAGR ; 122.83 4.53E-05 2632600 445.5 419.33 354.16 460.48 745.35 656.05 574.89 506.38 432.17 171.176 TRUE FALSE FALSE 492.359734 432.9165671 402.4230804 469.3932563 688.241444 600.1508492 510.2018642 493.4275328 429.1624938 178.5562351 2.757449124 2.424539064 2.253761008 2.628825905 3.85448004 3.361130732 2.857373555 2.763429306 2.403514465 1 7.480234703 -9.555312094 0.315607044 5.63E-17 3.136183259 0.317382413 0.584894504 1.652416556 0.186650501 1.898452362 0.225107597 2.78E-10 9.555312094 3.136183259 NREPVQLETLSIR ddPTM_HeLa_SAHA_4h_R1 1 NREPVQLETLSIR 13 1 J3QLI9;P62314 J3QLI9 SNRPD1 Small nuclear ribonucleoprotein Sm D1 0 0 151.16 0.00023813 5778400 1156 973.76 1079.6 1641.4 1224.2 1122.2 1345.1 1146.3 1346.8 1434.7 FALSE FALSE TRUE 1277.593384 1005.310463 1226.722266 1673.171671 1130.40206 1026.582247 1193.745808 1116.979306 1337.427509 1496.556938 0.853688457 0.671748891 0.819696354 1.118014041 0.755335151 0.685962706 0.79766147 0.74636606 0.893669646 1 10.54743145 -13.52287874 0.11961702 1.681475151 0.702276212 0.162226155 0.121359592 87.74345869 0.758520611 14.28950545 0.58450439 3.00E-14 13.52287874 -0.979198939 NRHS(ph)PDHPGMGSSQASSSSSLR ddPTM_HeLa_SAHA_4h_R1 4 NRHSPDHPGMGSSQASSSSSLR 22 1 J3KR33;A0JLT2 J3KR33 MED19 Mediator of RNA polymerase II transcription subunit 19 1 0 NRHS(1)PDHPGMGSSQASSSSSLR;NRHS(0.997)PDHPGMGS(0.003)SQASSSSSLR;NRHS(1)PDHPGMGSSQASSSSSLR;NRHS(1)PDHPGMGSSQASSSSSLR ;;; 97.776 8.61E-05 5528720 674.96 1322.49 259.897 521.307 2025.45 121.68 1379.47 1195.44 938.25 1079.92 TRUE FALSE FALSE 745.9553896 1365.339544 295.3144097 531.3976508 1870.260459 111.3121794 1224.248405 1164.862376 931.7206419 1126.480636 0.662199922 1.212039959 0.262156668 0.47173261 1.660268626 0.098814108 1.086790457 1.034072259 0.827107552 1 10.1376068 NRLENDGATALAEAFR ddPTM_HeLa_SAHA_4h_R1 1 NRLENDGATALAEAFR 16 1 P46060 P46060 RANGAP1 Ran GTPase-activating protein 1 0 0 99.747 0.0059718 3208600 737.69 627.93 883.98 757.96 836.16 793.23 845.56 685.97 691.47 755.76 FALSE FALSE TRUE 815.2836188 648.275344 1004.444191 772.6314118 772.0936014 725.6423414 750.4153634 668.4238807 686.658004 788.3445122 1.034171744 0.822324928 1.274118327 0.980068231 0.979386029 0.92046349 0.951887597 0.847882963 0.871012601 1 9.622682425 -5.277056867 1.63945021 1.018988665 0.898333396 0.097072948 0.115193521 0.500677215 2.533742514 0.014691729 0.05111588 5.28E-06 5.277056867 -0.120655269 NRPDYVS(ph)EEEEDDEDFETAVK ddPTM_HeLa_SAHA_4h_R1 2 NRPDYVSEEEEDDEDFETAVK 21 1 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 1 0 NRPDY(0.017)VS(0.983)EEEEDDEDFETAVK;NRPDYVS(1)EEEEDDEDFETAVK ; 106.06 0.00011916 64194000 3763.1 3320.8 3129.55 3529.4 3374.9 3949.1 3778.7 4055.4 4115.7 3662.6 TRUE FALSE FALSE 4158.920124 3428.396099 3556.028776 3597.716641 3116.315891 3612.614463 3353.510731 3951.66874 4087.058509 3820.51261 1.088576468 0.897365471 0.930772684 0.941684273 0.815680043 0.945583703 0.877764602 1.034329459 1.069767051 1 11.89955051 -7.253742253 24.93515722 1.041827777 0.916962536 0.529411289 0.056824579 342.1890032 1108536.016 0.009662383 0.011716594 5.58E-08 7.253742253 -0.124865241 NRPEDYQGGR ddPTM_HeLa_SAHA_4h_R1 4 NRPEDYQGGR 10 1 Q15084-3;Q15084;Q15084-4;Q15084-5;Q15084-2 Q15084-3 PDIA6 Protein disulfide-isomerase A6 0 0 ;;; ;;; 163.88 0.00026359 24992100 3989.64 4249.22 3323.97 4606.59 4456.88 5096.21 4775.66 4421.38 4956.79 5017.54 FALSE FALSE TRUE 4409.28864 4386.897516 3776.943321 4695.757211 4115.394817 4661.984238 4238.290168 4308.287502 4922.295295 5233.870705 0.842452726 0.838174606 0.721634816 0.897186323 0.786300436 0.890733551 0.809781213 0.823155126 0.94046941 1 12.35366257 -8.92178612 0.660762013 1.007124684 0.823311115 0.558254099 0.050351383 0.360217963 0.280152125 0.035754752 0.01016024 1.20E-09 8.92178612 -0.183813569 NRPLSDEELDAMFPEGYK ddPTM_HeLa_SAHA_4h_R1 1 NRPLSDEELDAMFPEGYK 18 1 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 0 0 170.16 7.03E-07 3004500 1023.1 939.92 1142.1 960.75 1440.1 1516.6 1080.6 1253.5 1095.6 1111.3 FALSE FALSE TRUE 1130.714352 970.3740247 1297.73944 979.3467055 1329.759849 1387.377148 959.008044 1221.437285 1087.97563 1159.213582 0.975415031 0.837096839 1.119499858 0.844837156 1.147122386 1.196826167 0.827291932 1.053677514 0.938546311 1 10.17893069 -5.742862937 24.99762836 0.977465988 1.049919365 0.135244506 0.118364454 499.0929669 671607.201 0.016130365 0.032214267 1.81E-06 5.742862937 0.072453377 NRPT(ph)SISWDGLDSGK ddPTM_HeLa_SAHA_4h_R1 1 NRPTSISWDGLDSGK 15 1 P30086 P30086 PEBP1 Phosphatidylethanolamine-binding protein 1;Hippocampal cholinergic neurostimulating peptide 1 0 NRPT(0.913)S(0.087)ISWDGLDSGK 169.37 8.39E-05 25787000 2285.2 2831.7 2607 2375.4 2945.7 2462 2672.3 2004.2 2200.8 2002.8 TRUE FALSE FALSE 2525.567821 2923.448938 2962.268383 2421.379302 2720.001102 2252.223749 2371.605771 1952.935466 2185.484454 2089.150509 1.208897018 1.399348168 1.417929618 1.159025781 1.301965124 1.0780572 1.135201011 0.934798837 1.046111538 1 11.02870072 -3.223868357 11.22040592 1.148916413 1.14055872 0 0.156846538 28452605.22 0 0.023248228 0 0.000597216 3.223868357 -0.008357693 NRPTS(ph)ISWDGLDSGK ddPTM_HeLa_SAHA_4h_R1 2 NRPTSISWDGLDSGK 15 1 P30086 P30086 PEBP1 Phosphatidylethanolamine-binding protein 1;Hippocampal cholinergic neurostimulating peptide 1 0 NRPT(0.002)S(0.995)IS(0.003)WDGLDSGK;NRPT(0.232)S(0.76)IS(0.008)WDGLDSGK ; 179.74 1.13E-06 67492000 6678.6 7459.8 6229.7 6640.2 8455 7597.6 8542.1 5357.3 6676.8 6078.3 TRUE FALSE FALSE 7381.085791 7701.502415 7078.651073 6768.730673 7807.179727 6950.241737 7580.920426 5220.268023 6630.335605 6340.365259 1.164142047 1.214678035 1.116442158 1.06756163 1.231345421 1.096189486 1.19565989 0.823338689 1.045734013 1 12.63035024 -1.076409283 12.0504887 1.09550124 0.00551543 0 0.115883304 0 0 0.0151022 0 0.083866924 1.076409283 -1.089985811 NRS(ph)AEEGELAESK ddPTM_HeLa_SAHA_4h_R1 3 NRSAEEGELAESK 13 1 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 NRS(1)AEEGELAESK;NRS(0.999)AEEGELAES(0.001)K;NRS(1)AEEGELAESK ;; 202.01 3.17E-10 149421900 8543.8 7836.8 7581.5 8500.4 9635.6 10333.5 9934 11092.9 8064.7 8026.5 TRUE FALSE FALSE 9442.476084 8090.717462 8614.667337 8664.937534 8897.32241 9453.027665 8816.200175 10809.15968 8008.577096 8372.561696 1.127788176 0.966337157 1.028916555 1.034920715 1.062676243 1.129048433 1.052987185 1.291021801 0.956526495 1 13.03145339 -1.576758993 1.20799868 1.0523785 200 0.623986091 0.057265353 652.6787395 1.464106208 0.008623904 359209.6651 0.026499703 1.576758993 198.9476215 NRVPS(ph)AGDVEK ddPTM_HeLa_SAHA_4h_R1 1 NRVPSAGDVEK 11 1 Q15785 Q15785 TOMM34 Mitochondrial import receptor subunit TOM34 1 0 NRVPS(1)AGDVEK 72.662 0.019291 19419000 2168.5 2258.7 1741.8 2130 2508.2 2703.6 2818.7 2954.1 2458.9 2316.1 TRUE FALSE FALSE 2396.592779 2331.883362 1979.163433 2171.22923 2316.022258 2473.23807 2501.532458 2878.538399 2441.788315 2415.958406 0.991984288 0.965200128 0.819204266 0.898703067 0.958634988 1.023708878 1.035420333 1.191468526 1.010691372 1 11.2383799 -4.118851072 1.373893681 0.971696429 1.339223903 0.603622846 0.05750408 1.111046249 1.432263595 0.009530287 0.617365303 7.61E-05 4.118851072 0.367527473 NRVS(ph)S(ph)YS(ph)AEALIGK ddPTM_HeLa_SAHA_4h_R1 1 NRVSSYSAEALIGK 14 1 Q68DE3 Q68DE3 KIAA2018 Basic helix-loop-helix domain-containing protein KIAA2018 3 0 NRVS(0.957)S(0.585)Y(0.461)S(0.997)AEALIGK 83 0.01948 5444700 941.58 935.65 494.85 997.3 931.8 1426.5 989.06 1204.6 2218 1504.1 TRUE FALSE FALSE 1040.619705 965.9656739 562.2855809 1016.604184 860.4056853 1304.954175 877.7683657 1173.788076 2202.564757 1568.949112 0.663259055 0.615676867 0.358383568 0.647952299 0.548396171 0.831737731 0.55946261 0.748136487 1.403847162 1 10.61558284 -8.811097914 0.75012783 0.995398908 0.614582568 0.571735995 0.18058599 0.347689725 0.374148244 0.072194418 0.025788864 1.54E-09 8.811097914 -0.38081634 NRYK(ac)NILPFDHSR ddPTM_HeLa_SAHA_4h_R1 1 NRYKNILPFDHSR 13 2 P29350-2;P29350;P29350-3;P29350-4 P29350-2 PTPN6 Tyrosine-protein phosphatase non-receptor type 6 0 1 NRYK(1)NILPFDHSR 85.533 0.011541 0 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 NS(ph)GIWESPELDR ddPTM_HeLa_SAHA_4h_R1 2 NSGIWESPELDR 12 0 O15085;O15085-2 O15085 ARHGEF11 Rho guanine nucleotide exchange factor 11 1 0 NS(1)GIWESPELDR;NS(0.921)GIWES(0.079)PELDR ; 118.52 0.0016083 5736900 1594.74 2182.72 1127.38 1442.22 1622.1 2765.12 2061.4 3310.26 4694.5 3240.1 TRUE FALSE FALSE 1762.48207 2253.44156 1281.013475 1470.136254 1497.815048 2529.51622 1829.445847 3225.588342 4661.830592 3379.796568 0.521475786 0.666738815 0.379020882 0.434977734 0.44316722 0.748422625 0.541288746 0.954373519 1.379322838 1 11.7227207 -9.239767779 0.856364628 1.014106059 0.573113338 0.538470061 0.205549994 0.438107092 0.548381449 0.1271337 0.030975924 5.76E-10 9.239767779 -0.440992721 NS(ph)LESISSIDR ddPTM_HeLa_SAHA_4h_R1 1 NSLESISSIDR 11 0 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;A0A0G2JPP5;Q14160-3;H0YCG0 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 NS(0.996)LES(0.004)ISSIDR 155.43 0.00031902 3891500 468.5 704.12 363.62 606.65 702.53 751.54 722.68 637.11 1163.3 717.92 TRUE FALSE FALSE 517.7789796 726.93395 413.1722399 618.392588 648.7023032 687.504564 641.3621444 620.8136487 1155.204501 748.8730446 0.691410892 0.970703853 0.551725346 0.82576425 0.86623802 0.918052224 0.856436413 0.828997189 1.542590575 1 9.548577351 -9.567254462 1.343960859 1.000004266 0.800856304 0.289655411 0.20754121 0.440845847 1.427122152 0.079302224 0.01861818 2.71E-10 9.567254462 -0.199147962 NS(ph)NPVIAELSQAINSGTLLSKPS(ph)PPLPPKR ddPTM_HeLa_SAHA_4h_R1 1 NSNPVIAELSQAINSGTLLSKPSPPLPPKR 30 2 Q8IZ21-3;Q8IZ21;Q8IZ21-2 Q8IZ21-3 PHACTR4 Phosphatase and actin regulator 4 2 0 NS(1)NPVIAELS(0.036)QAINS(0.225)GT(0.225)LLS(0.163)KPS(0.352)PPLPPKR 65.056 0.00023061 990160 174.47 0 65.614 0 0 157.46 0 125.03 128.01 0 TRUE FALSE FALSE 192.8215551 0 74.55553422 0 0 144.0435222 0 121.8319136 127.119168 0 0 NS(ph)NSPPS(ph)PSSMNQR ddPTM_HeLa_SAHA_4h_R1 1 NSNSPPSPSSMNQR 14 0 Q7Z5L9;Q7Z5L9-2;Q7Z5L9-3 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 2 0 NS(0.974)NS(0.026)PPS(0.942)PS(0.048)S(0.01)MNQR 174.4 1.61E-05 17281000 3291.7 3180.6 2655.8 3115.7 2845.7 3453.9 3120.5 2994.2 3628.1 3220.2 TRUE FALSE FALSE 3637.936109 3283.653527 3017.718593 3176.008879 2627.663081 3159.608289 2769.373127 2917.6127 3602.851757 3359.038581 1.083028974 0.97755755 0.898387595 0.945511283 0.782266419 0.940628758 0.824454099 0.868585647 1.072584214 1 11.71383265 -6.778277001 1.905573555 1.039294052 0.869162273 0.712529565 0.050334983 0.135751618 1.008219411 0.008767975 0.01253202 1.67E-07 6.778277001 -0.170131779 NS(ph)NSPPSPSSMNQR ddPTM_HeLa_SAHA_4h_R1 1 NSNSPPSPSSMNQR 14 0 Q7Z5L9;Q7Z5L9-2;Q7Z5L9-3 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 1 0 NS(0.608)NS(0.281)PPS(0.11)PS(0.001)SMNQR 173.33 1.58E-06 59149000 845.89 848.95 569.44 860.36 699.41 821.11 934.29 813.48 927.59 706.57 TRUE FALSE FALSE 934.8645913 876.456537 647.0403177 877.0135119 645.8213569 751.1468086 829.1612303 792.6723595 921.1348257 737.0336906 1.268415004 1.189167535 0.877897884 1.189923233 0.876244011 1.019148538 1.124997732 1.075489994 1.249786594 1 9.525586758 NS(ph)PEDLGLSLTGDSCK ddPTM_HeLa_SAHA_4h_R1 5 NSPEDLGLSLTGDSCK 16 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 NS(0.98)PEDLGLS(0.019)LT(0.001)GDSCK;NS(0.938)PEDLGLS(0.062)LTGDSCK;NS(0.865)PEDLGLS(0.135)LTGDSCK;NS(0.982)PEDLGLS(0.018)LTGDSCK;NS(0.982)PEDLGLS(0.007)LT(0.002)GDS(0.008)CK ;;;; 201.22 3.79E-15 294084800 10822.84 12616.92 9453.6 12010.89 13304.9 15361.9 12500.4 12299.63 15840.4 12079.26 TRUE FALSE FALSE 11961.23597 13025.71649 10741.88738 12243.37814 12285.48144 14052.9797 11093.82209 11985.02327 15730.16537 12600.05601 0.949300222 1.033782427 0.852526954 0.971692358 0.975033875 1.115310891 0.880458157 0.951188095 1.248420273 1 13.62114253 -9.517157289 1.20905111 1.000420818 0.965159146 0.070034798 0.104984165 1.651112519 4.235071953 0.049356087 0.01128339 3.04E-10 9.517157289 -0.035261671 NS(ph)PGLLVSPGNLNK ddPTM_HeLa_SAHA_4h_R1 2 NSPGLLVSPGNLNK 14 0 Q06413-5;A0A0D9SFD0;Q06413-6;A0A0D9SGI5;Q06413;Q06413-2;Q06413-3;Q06413-4;A0A1B0GV32;A0A0R4J2G5;A0A0D9SGF3;D8L7E9;D6RC63;A0A0D9SFV9;D6RJG6 Q06413-5 MEF2C Myocyte-specific enhancer factor 2C 1 0 NS(0.999)PGLLVS(0.001)PGNLNK;NS(1)PGLLVSPGNLNK ; 151.73 6.33E-05 49860000 2636 2640.1 2393.88 2705.3 2870.9 3215.5 2750.6 2927.1 2820.7 2490.1 TRUE FALSE FALSE 2913.266574 2725.640972 2720.1055 2757.664993 2650.932262 2941.52131 2441.095249 2852.22902 2801.070519 2597.460397 1.121582673 1.049348423 1.047217314 1.061677397 1.02058621 1.132460504 0.939800757 1.098083737 1.078388153 1 11.34288604 -4.766361768 24.99928292 1.058949761 1.018942262 0.099769391 0.052359754 238.784383 1212735.838 0.007959432 0.024977195 1.71E-05 4.766361768 -0.040007499 NS(ph)PGSQVASNPR ddPTM_HeLa_SAHA_4h_R1 4 NSPGSQVASNPR 12 0 Q9H0D6-2;Q9H0D6 Q9H0D6-2 XRN2 5-3 exoribonuclease 2 1 0 NS(0.997)PGS(0.003)QVASNPR;NS(0.999)PGS(0.001)QVASNPR;NS(0.99)PGS(0.01)QVASNPR;NS(0.98)PGS(0.019)QVAS(0.001)NPR ;;; 182.7 9.55E-06 288575400 5936.99 6554.31 5045.44 6498.77 6632.11 7211.76 6150.36 5747.77 8297.8 6018.92 TRUE FALSE FALSE 6561.469848 6766.673944 5733.006288 6624.563091 6123.959165 6597.277476 5458.305306 5600.750366 8240.054934 6278.425097 1.045082126 1.077766134 0.913128085 1.055131341 0.975397344 1.050785408 0.869374918 0.892062942 1.312439793 1 12.616187 -4.756189091 24.99998255 1.018741539 0.880718872 0.263610183 0.103164418 59.56651 283624.544 0.005853588 0.020660703 1.75E-05 4.756189091 -0.138022668 NS(ph)PQALRR ddPTM_HeLa_SAHA_4h_R1 1 NSPQALRR 8 1 Q7L7X3;Q7L7X3-3 Q7L7X3 TAOK1 Serine/threonine-protein kinase TAO1 1 0 NS(1)PQALRR 69.346 0.020603 20982000 794.95 658.45 742.01 840.44 986.92 1017.8 1077.2 854.98 684.42 996.75 TRUE FALSE FALSE 878.5664884 679.784212 843.1272586 856.7079315 911.3024028 931.077714 955.990621 833.1108496 679.6570655 1039.72477 0.844999093 0.653811693 0.81091389 0.823975686 0.876484267 0.895504022 0.919465082 0.801280178 0.653689404 1 10.02198596 -8.844754504 0.967278971 0.989762696 0.831822507 0 0.125899001 0.373771056 0.68779736 0.034468708 0.014672467 1.43E-09 8.844754504 -0.157940189 NS(ph)PSNLSSSSDTGSVGGTYR ddPTM_HeLa_SAHA_4h_R1 1 NSPSNLSSSSDTGSVGGTYR 20 0 O43166-3;O43166-2;O43166;F5GYF8 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 NS(0.69)PS(0.17)NLS(0.119)S(0.014)S(0.004)S(0.004)DTGSVGGTYR 229.51 8.62E-33 8927000 899.56 1605.3 1058.7 1205.1 1317.5 1552.5 1258.7 1316.1 1588.4 1350.5 TRUE FALSE FALSE 994.1798481 1657.312773 1202.974123 1228.426453 1216.553435 1420.218266 1117.067763 1282.436068 1577.346195 1408.726664 0.705729417 1.176461563 0.853944312 0.872011927 0.863583735 1.008157439 0.792962745 0.910351242 1.119696415 1 10.460176 NS(ph)PVTKTPPRDLPTIPGVT(ph)SPSSDEPPMEASQSHLR ddPTM_HeLa_SAHA_4h_R1 1 NSPVTKTPPRDLPTIPGVTSPSSDEPPMEASQSHLR 36 2 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 2 0 NS(0.329)PVT(0.301)KT(0.301)PPRDLPT(0.329)IPGVT(0.349)S(0.312)PS(0.061)S(0.02)DEPPMEASQSHLR 51.868 0.0022632 11361000 259.75 254.6 323.78 511.99 451.46 484.96 445.31 594.49 355.2 423.01 TRUE FALSE FALSE 287.0716968 262.849207 367.9030522 521.9003068 416.8692323 443.6386797 395.2025468 579.2838066 352.7281343 441.2480313 0.650590318 0.595694912 0.833778343 1.182782177 0.944750351 1.005417924 0.895647162 1.312830348 0.79938744 1 8.785446031 -6.369756602 7.250327811 0.808125267 1.047860303 0.472426184 0.152006268 0.26267814 15.6268126 0.028234278 0.043195989 4.27E-07 6.369756602 0.239735036 NS(ph)PVTKTPPRDLPTIPGVTS(ph)PSSDEPPMEASQSHLR ddPTM_HeLa_SAHA_4h_R1 1 NSPVTKTPPRDLPTIPGVTSPSSDEPPMEASQSHLR 36 2 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 2 0 NS(0.809)PVT(0.168)KT(0.24)PPRDLPT(0.217)IPGVT(0.243)S(0.274)PS(0.041)S(0.007)DEPPMEASQSHLR 60.48 0.00056541 16382000 311.71 306.91 296.03 373.57 415.92 711.97 493.65 571.83 461.81 400.07 TRUE FALSE FALSE 344.497088 316.8540854 336.3714267 380.8009875 384.0522995 651.3061506 438.1032028 557.2034166 458.5962266 417.3189756 0.825500656 0.75926115 0.806029552 0.912493823 0.920284775 1.560691434 1.049804175 1.335197892 1.098910554 1 8.705006712 -5.373629622 8.17252219 0.893934941 1.287892951 0.619293842 0.147548414 0.135207448 8.907101436 0.019267014 0.043187181 4.23E-06 5.373629622 0.39395801 NS(ph)SEASSGDFLDLK ddPTM_HeLa_SAHA_4h_R1 2 NSSEASSGDFLDLK 14 0 Q9UK76;J3KT51;Q9UK76-3;Q9UK76-2;J3KSH8 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 1 0 NS(0.773)S(0.227)EASSGDFLDLK;NS(0.488)S(0.488)EAS(0.015)S(0.008)GDFLDLK ; 232.73 1.67E-24 21839000 1646.14 1962.96 1760.88 2063.22 2391.5 2822.2 2487.4 1906.09 2765.8 1657.3 TRUE FALSE FALSE 1819.288558 2026.561192 2000.843556 2103.156607 2208.263787 2581.732683 2207.511206 1857.334978 2746.552573 1728.754314 1.052369642 1.172266745 1.157390348 1.216573454 1.277372828 1.493406358 1.276937497 1.074377639 1.58874662 1 10.75551714 -6.844122124 0.879788895 1.015082423 1.289717672 0 0.205882661 0.284249119 0.439331656 0.020848196 0.031668543 1.43E-07 6.844122124 0.27463525 NS(ph)SEKLPTELSK ddPTM_HeLa_SAHA_4h_R1 2 NSSEKLPTELSK 12 1 P38432 P38432 COIL Coilin 1 0 NS(0.96)S(0.04)EKLPTELSK;NS(0.479)S(0.479)EKLPT(0.042)ELSK ; 116.87 0.0076404 43360000 5596.3 5632.8 4938.7 5539.6 6173.7 7697.4 6913.6 6497.7 8087.1 6065.6 TRUE FALSE FALSE 6184.944511 5815.306416 5611.720316 5646.826968 5700.67244 7041.538216 6135.663532 6331.498243 8030.821213 6327.1177 0.977529549 0.919108304 0.886931551 0.892480152 0.900990421 1.112914055 0.969740698 1.000692344 1.269270084 1 12.62733272 -5.279961107 24.99558894 0.96331891 1.021978223 0.028187195 0.111039327 1120.840804 1512604.375 0.009000801 0.020166678 5.25E-06 5.279961107 0.058659313 NS(ph)TELAPPLPVR ddPTM_HeLa_SAHA_4h_R1 4 NSTELAPPLPVR 12 0 Q9H7D0 Q9H7D0 DOCK5 Dedicator of cytokinesis protein 5 1 0 NS(0.998)T(0.002)ELAPPLPVR;NS(0.977)T(0.023)ELAPPLPVR;NS(0.559)T(0.441)ELAPPLPVR;NS(0.767)T(0.233)ELAPPLPVR ;;; 161.49 0.00015125 12808800 1955.01 3410.22 1879.36 2898.11 3588.5 3907.5 3033.73 3037.76 4554.6 2315.19 TRUE FALSE FALSE 2160.646922 3520.713366 2135.469394 2954.20711 3313.549905 3574.559017 2692.366716 2960.058498 4522.904168 2415.009171 0.894674417 1.457846789 0.884248979 1.22326952 1.372065144 1.48014304 1.114847409 1.225692446 1.872831052 1 11.23781295 -6.891580034 0.946164268 0.951800944 1.280834327 0 0.341506695 0.39939918 0.710055634 0.036727071 0.053549388 1.28E-07 6.891580034 0.329033383 NS(ph)TELAPPLPVRR ddPTM_HeLa_SAHA_4h_R1 2 NSTELAPPLPVRR 13 1 Q9H7D0 Q9H7D0 DOCK5 Dedicator of cytokinesis protein 5 1 0 NS(0.778)T(0.222)ELAPPLPVRR;NS(0.5)T(0.5)ELAPPLPVRR ; 130.01 0.00038946 6617700 2752.08 3287.04 2876.03 3298.54 3449.22 4141.7 3499.11 3616.33 3642.2 3296.65 TRUE FALSE FALSE 3041.556401 3393.542253 3267.960391 3362.388011 3184.941509 3788.803859 3105.380934 3523.829515 3616.853634 3438.784715 0.884485844 0.986843474 0.950324217 0.977783807 0.926182292 1.10178571 0.903046044 1.024731063 1.051782514 1 11.74768308 NS(ph)TPSEPGSGR ddPTM_HeLa_SAHA_4h_R1 1 NSTPSEPGSGR 11 0 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 1 0 NS(0.485)T(0.485)PS(0.029)EPGSGR 115.37 0.0028485 171670000 6218.1 8504 5670.2 7994.6 9358.4 8166.1 7808.8 6939.8 10062 8822.2 TRUE FALSE FALSE 6872.148288 8779.53518 6442.905327 8149.347043 8641.361414 7470.302339 6930.133272 6762.289965 9991.977723 9202.568217 0.746764178 0.954030981 0.700120355 0.885551386 0.939016284 0.811762778 0.753065135 0.734826388 1.085781435 1 13.16782082 -9.455002681 1.093633949 1.003956406 0.813493516 0.501377993 0.087662147 0.420425917 0.868728514 0.063431057 0.014442572 3.51E-10 9.455002681 -0.190462891 NS(ph)WDSPAFSNDVIR ddPTM_HeLa_SAHA_4h_R1 3 NSWDSPAFSNDVIR 14 0 A0A2R8Y7T6;A0A3B3IRZ4;Q6DN90-2;Q6DN90;Q6DN90-3;A0A2R8Y695;A0A3B3IU98;A0A0C4DGT3 A0A2R8Y7T6 IQSEC1 IQ motif and SEC7 domain-containing protein 1 1 0 NS(0.853)WDS(0.143)PAFS(0.005)NDVIR;NS(0.973)WDS(0.027)PAFSNDVIR;NS(1)WDSPAFSNDVIR ;; 166.9 6.05E-06 30938000 2293.25 3556.9 2357 2570.18 3508.49 3215.31 3290.19 2935.38 3810.97 3026.51 TRUE FALSE FALSE 2534.464557 3672.145894 2678.199685 2619.92955 3239.670254 2941.347499 2919.969162 2860.29723 3784.449149 3156.997657 0.802808501 1.163176629 0.848337559 0.829880106 1.026187095 0.931691378 0.924919648 0.906018167 1.198749432 1 11.62433747 -5.755429187 24.99798034 0.916380211 0.944504241 0 0.134664296 769.0840895 3198785.144 0.016223999 0.031774191 1.76E-06 5.755429187 0.02812403 NSAPASVS(ph)PDGTR ddPTM_HeLa_SAHA_4h_R1 1 NSAPASVSPDGTR 13 0 C9J637;A0A590UJ51;H0Y599;Q8N1I0;Q8N1I0-3;A0A590UJM5;H0Y7H7;Q8N1I0-2 C9J637 DOCK4 Dedicator of cytokinesis protein 4 1 0 NSAPAS(0.012)VS(0.963)PDGT(0.025)R 115.04 0.0016571 8863100 1116.7 1137 939.01 703.47 1046.7 1219.4 1321.7 1167.5 946.8 992.09 TRUE FALSE FALSE 1234.15963 1173.839546 1066.973393 717.0866791 966.5020721 1115.50026 1172.978837 1137.637041 940.2111417 1034.863855 1.192581636 1.134293695 1.031027789 0.69292852 0.933941279 1.077919819 1.133461983 1.099310827 0.908536072 1 10.01522527 -6.528773789 24.03877753 1.09606364 0.984098352 0.030299777 0.136694386 158.9570679 648190.777 0.022467176 0.031834583 2.96E-07 6.528773789 -0.111965288 NSAS(ph)ATTPLSGNSSR ddPTM_HeLa_SAHA_4h_R1 2 NSASATTPLSGNSSR 15 0 C9JSU1;Q9Y608-4;Q9Y608;Q9Y608-2;Q9Y608-5 C9JSU1 LRRFIP2 Leucine-rich repeat flightless-interacting protein 2 1 0 NS(0.027)AS(0.869)AT(0.093)T(0.011)PLSGNSSR;NS(0.028)AS(0.324)AT(0.324)T(0.324)PLSGNSSR ; 206.13 9.90E-13 16625400 2531.6 2478.6 2814.4 2657.2 3057.2 3238.5 2986.9 2584.7 3041.3 2923.9 TRUE FALSE FALSE 2797.885303 2558.908266 3197.931775 2708.633948 2822.957996 2962.561581 2650.806151 2518.587117 3020.135346 3049.963638 0.91735038 0.838996319 1.048514722 0.888087292 0.925571033 0.971343246 0.869127132 0.825776113 0.990220115 1 11.57457633 -12.89115388 0.013691485 2.05074657 6.80E-07 0.288633305 0.0590428 5090.360256 6.27255 558.4046182 394.392246 1.28E-13 12.89115388 -2.050745891 NSASATT(ph)PLSGNSSR ddPTM_HeLa_SAHA_4h_R1 1 NSASATTPLSGNSSR 15 0 C9JSU1;Q9Y608-4;Q9Y608;Q9Y608-2;Q9Y608-5 C9JSU1 LRRFIP2 Leucine-rich repeat flightless-interacting protein 2 1 0 NS(0.003)AS(0.037)AT(0.219)T(0.739)PLS(0.001)GNS(0.001)SR 101.04 0.0071714 2110300 1030.5 834.75 885.64 975.16 1255.6 1392.1 1011.8 1073.6 1258.8 1089.6 TRUE FALSE FALSE 1138.892718 861.7964477 1006.330407 994.0356319 1159.396199 1273.485248 897.9496011 1046.138867 1250.039908 1136.577988 1.002036578 0.758237848 0.885403745 0.874586383 1.020076239 1.120455667 0.790046623 0.920428582 1.099827659 1 10.15048097 NSASATTPLS(ph)GNSSR ddPTM_HeLa_SAHA_4h_R1 6 NSASATTPLSGNSSR 15 0 C9JSU1;Q9Y608-4;Q9Y608;Q9Y608-2;Q9Y608-5 C9JSU1 LRRFIP2 Leucine-rich repeat flightless-interacting protein 2 1 0 NS(0.004)AS(0.022)AT(0.003)T(0.04)PLS(0.93)GNS(0.001)SR;NSAS(0.013)AT(0.093)T(0.191)PLS(0.696)GNS(0.006)S(0.001)R;NSASAT(0.025)T(0.092)PLS(0.883)GNSSR;NSASAT(0.006)T(0.189)PLS(0.801)GNS(0.003)SR;NSASATT(0.005)PLS(0.992)GNS(0.001)S(0.001)R;NSASAT(0.007)T(0.182)PLS(0.804)GNS(0.005)S(0.001)R ;;;;; 196.45 9.98E-10 85063300 6584.97 6616.51 6162.88 6541.6 7232.35 7866.01 7952.05 7536.85 6860.71 5844.62 TRUE FALSE FALSE 7277.607358 6830.889265 7002.725192 6668.222127 6678.208905 7195.781695 7057.264405 7344.06829 6812.965761 6096.610171 1.193713745 1.120440552 1.148626039 1.093758981 1.095397068 1.180292243 1.157571865 1.204615038 1.117500639 1 12.57379158 -9.402525275 1.032590566 0.996603348 1.149865234 0.229614967 0.050350207 0.257815666 0.474032171 0.029894009 0.006958084 3.96E-10 9.402525275 0.153261885 NSASATTPLSGNS(ph)SR ddPTM_HeLa_SAHA_4h_R1 3 NSASATTPLSGNSSR 15 0 C9JSU1;Q9Y608-4;Q9Y608;Q9Y608-2;Q9Y608-5 C9JSU1 LRRFIP2 Leucine-rich repeat flightless-interacting protein 2 1 0 NSASATTPLSGNS(0.687)S(0.312)R;NSASATTPLS(0.004)GNS(0.7)S(0.296)R;NSASAT(0.001)T(0.003)PLS(0.007)GNS(0.495)S(0.495)R ;; 168.55 2.16E-06 79710900 5226.26 5649.04 5513.34 5442.44 6061.59 6828.6 6016.5 6185.82 5054.35 5535.84 TRUE FALSE FALSE 5775.982006 5832.072602 6264.669263 5547.786296 5597.152284 6246.764863 5339.507585 6027.595681 5019.176367 5774.517154 1.000253675 1.009967145 1.084881921 0.960735963 0.9692849 1.081781333 0.924667369 1.043826786 0.869194122 1 12.4954846 NSASATTPLSGNSS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 NSASATTPLSGNSSR 15 0 C9JSU1;Q9Y608-4;Q9Y608;Q9Y608-2;Q9Y608-5 C9JSU1 LRRFIP2 Leucine-rich repeat flightless-interacting protein 2 1 0 NSASATTPLSGNS(0.099)S(0.901)R;NSASATTPLS(0.002)GNS(0.23)S(0.768)R ; 194.67 2.28E-09 71770000 6138.5 6487.4 6471.2 6161.9 6570.2 7315 6758.2 6716.2 5803.2 5798.3 TRUE FALSE FALSE 6784.175594 6697.596017 7353.061435 6281.172485 6066.792695 6691.720847 5997.749549 6544.409329 5762.815059 6048.293089 1.121667799 1.107353086 1.215725053 1.038503325 1.003058649 1.106381709 0.991643338 1.082025827 0.952800232 1 12.56231234 -3.24974421 12.83370556 1.066980602 1.060575459 0 0.075246646 0 0 0.009633935 0 0.000562673 3.24974421 -0.006405143 NSATCHSEDS(ph)DLEID ddPTM_HeLa_SAHA_4h_R1 1 NSATCHSEDSDLEID 15 0 Q13371-2;Q13371 Q13371-2 PDCL Phosducin-like protein 1 0 NSATCHS(0.007)EDS(0.993)DLEID 75.968 0.01865 17567000 1303 1646.9 877.96 1252 2003.4 2334.6 1575.1 1925.5 1782.5 1342.3 TRUE FALSE FALSE 1440.055518 1700.260641 997.6038166 1276.23427 1849.899925 2135.678946 1397.865603 1876.248498 1770.095437 1400.173122 1.028483904 1.214321725 0.71248605 0.911483195 1.321193712 1.525296345 0.998351976 1.340011795 1.264197555 1 10.4513895 -5.754491193 24.9975383 0.999049809 1.291300755 0.335741549 0.187386936 119.6163314 430340.3102 0.023546561 0.046280919 1.76E-06 5.754491193 0.292250946 NSATFKS(ph)FEDR ddPTM_HeLa_SAHA_4h_R1 3 NSATFKSFEDR 11 1 O43399-2;O43399-4;O43399;O43399-3;O43399-5;O43399-7;O43399-6 O43399-2 TPD52L2 Tumor protein D54 1 0 NSATFKS(1)FEDR;NSATFKS(1)FEDR;NSAT(0.016)FKS(0.984)FEDR ;; 133.48 0.0052591 338746000 8125.1 9090.2 7802.5 11171.3 13099 9498.7 18219.2 21257.5 17333.2 10504.5 TRUE FALSE FALSE 8979.735297 9384.728444 8865.784066 11387.53667 12095.35745 8689.357322 16169.12767 20713.76393 17212.57685 10957.4004 0.819513294 0.85647399 0.809113817 1.03925532 1.103852831 0.793012667 1.475635376 1.890390345 1.570863181 1 13.41961795 -4.561049385 3.113444561 0.917041495 1.855122252 0.587447945 0.232052052 0.057609255 1.067985869 0.016202658 0.093199327 2.75E-05 4.561049385 0.938080757 NSCNVLHPQS(ph)PNNSNR ddPTM_HeLa_SAHA_4h_R1 2 NSCNVLHPQSPNNSNR 16 0 Q7Z333-3;Q7Z333;Q7Z333-4 Q7Z333-3 SETX Probable helicase senataxin 1 0 NSCNVLHPQS(0.958)PNNS(0.042)NR;NSCNVLHPQS(0.994)PNNS(0.006)NR ; 111.45 0.0013357 6968500 2014.05 1690.25 1246.57 2145.62 2489.2 2608.05 2503.4 2867.6 2100.55 2323.2 TRUE FALSE FALSE 2225.89702 1745.015209 1416.446068 2187.151578 2298.478034 2385.829468 2221.710843 2794.250944 2085.932102 2423.364521 0.918515147 0.72007954 0.584495669 0.902526862 0.948465661 0.984511181 0.916787724 1.153046073 0.860758703 1 11.24279572 -1.606190515 1.190413347 0.910451517 171.0499189 0.262325766 0.126694773 1392.262619 3.649229526 0.021571072 645117.6238 0.024763355 1.606190515 170.1394674 NSDLLT(ph)SPDVGLLK ddPTM_HeLa_SAHA_4h_R1 1 NSDLLTSPDVGLLK 14 0 P05412 P05412 JUN Transcription factor AP-1 1 0 NSDLLT(0.783)S(0.217)PDVGLLK 110.57 0.0038352 5412600 2666.1 3530 3092.9 2286.2 2946.3 1691.9 2636.7 2105.1 2927 2782 TRUE FALSE FALSE 2946.532631 3644.374316 3514.384305 2330.452707 2720.555131 1547.740602 2340.011577 2051.25459 2906.630769 2901.945635 1.015364518 1.255838246 1.211044157 0.803065598 0.937493486 0.533345829 0.80635955 0.706854934 1.00161448 1 11.50280478 -5.751878647 1.878543255 1.04041537 0.705321496 0.612217176 0.130767434 0.189233924 1.357330366 0.020161122 0.045794395 1.77E-06 5.751878647 -0.335093874 NSESESNKVAAETQS(ph)PSLFGSTK ddPTM_HeLa_SAHA_4h_R1 2 NSESESNKVAAETQSPSLFGSTK 23 1 Q9UKX7-2;Q9UKX7 Q9UKX7-2 NUP50 Nuclear pore complex protein Nup50 1 0 NSESESNKVAAET(0.003)QS(0.883)PS(0.112)LFGS(0.002)TK;NSESESNKVAAET(0.182)QS(0.792)PS(0.025)LFGSTK ; 99.093 7.37E-05 48139000 4148.6 3426.4 4159.2 3762.5 5033.5 4595.2 4683 4442.4 4017.3 4267.9 TRUE FALSE FALSE 4584.968782 3537.417608 4725.994116 3835.328628 4647.834317 4203.663108 4156.056515 4328.769841 3989.343282 4451.910056 1.029888009 0.794584249 1.061565498 0.861501823 1.044009034 0.944238104 0.933544583 0.972339914 0.896097008 1 12.12020873 NSGAGSGGGGPGGAGGK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 NSGAGSGGGGPGGAGGKR 18 1 Q66K64;K7ENG0 Q66K64 DCAF15 DDB1- and CUL4-associated factor 15 0 1 NSGAGSGGGGPGGAGGK(1)R 85.163 0.0013117 0 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 NSGEPLPPKPGPGS(ph)PSHPGALDLDGVSR ddPTM_HeLa_SAHA_4h_R1 3 NSGEPLPPKPGPGSPSHPGALDLDGVSR 28 1 A1X283;G3V144;A0A1B0GUF2 A1X283 SH3PXD2B SH3 and PX domain-containing protein 2B 1 0 NS(0.001)GEPLPPKPGPGS(0.835)PS(0.163)HPGALDLDGVS(0.001)R;NSGEPLPPKPGPGS(0.775)PS(0.225)HPGALDLDGVSR;NSGEPLPPKPGPGS(0.637)PS(0.362)HPGALDLDGVS(0.001)R ;; 81.718 1.05E-05 76929000 2877.86 3088.4 2379.91 3153.09 3682.22 3391.94 3374.31 3588.21 3257.31 3350.71 TRUE FALSE FALSE 3180.566519 3188.466186 2704.231741 3214.122616 3400.089099 3102.927629 2994.623758 3496.428784 3234.642115 3495.175506 0.909987642 0.912247806 0.773704135 0.919588333 0.972794955 0.887774483 0.856787807 1.000358574 0.925459139 1 11.77114919 -8.860580217 0.803109563 0.99788776 0.900977815 0.079802765 0.062242687 0.609662704 0.750631602 0.033326717 0.011987138 1.38E-09 8.860580217 -0.096909945 NSGLSK(ac)EQK ddPTM_HeLa_SAHA_4h_R1 2 NSGLSKEQK 9 1 O95251-4;O95251;O95251-2;E7EUP3;O95251-3;O95251-5 O95251-4 KAT7 Histone acetyltransferase KAT7;Histone acetyltransferase 0 1 ; NSGLSK(1)EQK;NSGLSK(1)EQK 164.66 1.51E-07 39647000 5043.3 4727.4 3995.1 5845.8 6339.2 5573.4 6566.6 6707.7 4448.7 3775.2 FALSE TRUE FALSE 5573.777433 4880.570862 4539.531422 5958.953912 5853.491866 5098.514965 5827.708886 6536.126747 4417.741134 3937.967347 1.415394528 1.239362958 1.152760046 1.513205516 1.486424683 1.294707273 1.479877402 1.659771697 1.121832851 1 11.94323543 -12.3438572 0.149576858 4.49E-13 1.570610088 0.601675949 0.124517299 24.37488564 0.346380261 7.808281202 0.34152701 4.53E-13 12.3438572 1.570610088 NSGSDGSPS(ph)PLLAR ddPTM_HeLa_SAHA_4h_R1 2 NSGSDGSPSPLLAR 14 0 Q9HCH0;H7C1V4;Q9HCH0-2 Q9HCH0 NCKAP5L Nck-associated protein 5-like 1 0 NSGS(0.002)DGS(0.005)PS(0.992)PLLAR;NSGSDGSPS(1)PLLAR ; 187.56 2.00E-08 49572000 2202.7 2448.2 2265 1878 2160.8 2398.9 2430.2 2529.3 2292.43 2613.9 TRUE FALSE FALSE 2434.390092 2527.523286 2573.662404 1914.351406 1995.239971 2194.500224 2156.7475 2464.604168 2276.476793 2726.598021 0.89283058 0.926987868 0.943909731 0.702102543 0.731769023 0.804849196 0.791003105 0.903911816 0.834914709 1 11.41288631 -6.282480022 24.14481208 0.945696173 0.784918249 0.48915389 0.065304229 261.898299 300536.0893 0.00977941 0.014949083 5.22E-07 6.282480022 -0.160777925 NSILAQVLDQSAR ddPTM_HeLa_SAHA_4h_R1 1 NSILAQVLDQSAR 13 0 O14737;K7EQA1;O14737-2;K7ESJ4 O14737 PDCD5 Programmed cell death protein 5 0 0 101.38 0.020285 532910 426.69 1049.2 906.44 1943.5 702.42 624.03 1072.2 1588.6 1474 407.3 FALSE FALSE TRUE 471.5712119 1083.194768 1029.964923 1981.119253 648.6007314 570.8591333 951.5532341 1547.965912 1463.742314 424.8606963 1.109943132 2.549529241 2.424241479 4.662985468 1.526619753 1.34363837 2.239682895 3.643466967 3.445228817 1 8.730846076 -7.263544052 5.129774148 1.047564552 2.59635787 0 1.182761987 0.140593079 11.96971439 0.155533606 0.183717391 5.45E-08 7.263544052 1.548793318 NSITEIS(ph)DNEDDLLEYHR ddPTM_HeLa_SAHA_4h_R1 2 NSITEISDNEDDLLEYHR 18 0 Q86UU1-3;Q86UU1-2;Q86UU1 Q86UU1-3 PHLDB1 Pleckstrin homology-like domain family B member 1 1 0 NSIT(0.001)EIS(0.999)DNEDDLLEYHR;NSITEIS(1)DNEDDLLEYHR ; 149.41 7.02E-05 4558400 1303.23 1348.35 997.12 1870.6 1357.4 2011.72 1401.44 1453.54 2109.78 1272.53 TRUE FALSE FALSE 1440.309711 1392.037425 1133.002321 1906.808168 1253.396305 1840.310138 1243.746283 1416.360552 2095.097869 1327.394996 1.085064894 1.048698714 0.853553256 1.43650396 0.944252697 1.38640732 0.936982802 1.067022669 1.578352996 1 10.37438203 (ac)PEPSK(ac)SAPAPK ddPTM_HeLa_SAHA_4h_R1 2 PEPSKSAPAPK 11 1 P33778;U3KQK0;Q99877 P33778;U3KQK0 HIST1H2BB;HIST1H2BN Histone H2B type 1-B;Histone H2B;Histone H2B type 1-N 0 1 ; PEPSK(1)SAPAPK;PEPSK(1)SAPAPK 49.715 0.010664 11809700 1615.65 5828.16 5099.2 13501.9 14474.6 25504 23633.7 23871.3 0 2224.19 FALSE TRUE FALSE 1785.59148 6016.996208 5794.092421 13763.2488 13365.55928 23330.91572 20974.37388 23260.70671 0 2320.085716 0.769623065 2.59343703 2.497361361 5.932215653 5.760804088 10.05605765 9.040344386 10.02579627 0 1 11.17996239 -5.889680003 0.805499898 0.847519625 10.24800465 0.954526303 0.795052071 0.079675712 0.096808288 0.125348682 0.406919802 1.29E-06 5.889680003 9.400485024 up NSLDASRPAGLS(ph)PTLTPGER ddPTM_HeLa_SAHA_4h_R1 1 NSLDASRPAGLSPTLTPGER 20 1 A0A075B6E4;A0A0A6YYI5;G5E9M7;Q14135-2;Q14135;Q14135-4;F8W708;E7ERW0;E7EQU6;E7EWF5;G5E9M9;Q14135-5;Q14135-6 A0A075B6E4 VGLL4 Transcription cofactor vestigial-like protein 4 1 0 NSLDAS(0.003)RPAGLS(0.995)PT(0.002)LTPGER 135.36 0.00018444 6483000 482.58 568.1 456.73 438.03 289.85 780.28 628.74 414.96 345.23 652.22 TRUE FALSE FALSE 533.3399786 586.5068127 518.9707859 446.5087041 267.6417556 713.7957543 557.9925204 404.3459241 342.8275163 680.3403961 0.783931076 0.862078477 0.762810483 0.656301914 0.393393891 1.04917444 0.820166675 0.594328848 0.503905866 1 9.410112943 -8.811218027 0.4331513 1.040839252 0.719471438 0 0.223141935 1.586822839 0.511620357 0.224616602 0.056741049 1.54E-09 8.811218027 -0.321367814 NSLDCEIVSAK ddPTM_HeLa_SAHA_4h_R1 2 NSLDCEIVSAK 11 0 Q01518-2;Q01518 Q01518-2 CAP1 Adenylyl cyclase-associated protein 1 0 0 ; ; 191.33 4.15E-06 14396600 3758.4 4098 3254.6 4667.6 3826.2 4566.7 3647.7 4067.7 4135.2 3927.9 FALSE FALSE TRUE 4153.725756 4230.777889 3698.119939 4757.948147 3533.037383 4177.591468 3237.251196 3963.654124 4106.422807 4097.250992 1.013783575 1.032589387 0.902585647 1.161253767 0.862294595 1.019608385 0.790103219 0.967393536 1.002238529 1 12.00044056 NSLESIS(ph)SIDR ddPTM_HeLa_SAHA_4h_R1 1 NSLESISSIDR 11 0 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;A0A0G2JPP5;Q14160-3;H0YCG0 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 NS(0.067)LES(0.268)IS(0.551)S(0.114)IDR 120.84 0.0021166 3575700 354.67 769.12 526.71 613.61 479.71 702.62 785.64 447.49 1279.6 653.53 TRUE FALSE FALSE 391.9758179 794.0399926 598.4872958 625.4873088 442.9547234 642.7528232 697.2377195 436.0438538 1270.695159 681.7068766 0.574991732 1.164782137 0.877924686 0.917531171 0.649773002 0.94285806 1.022782289 0.639635404 1.863990526 1 9.413007726 NSLESISSIDRELS(ph)PEGPGK ddPTM_HeLa_SAHA_4h_R1 1 NSLESISSIDRELSPEGPGK 20 1 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;A0A0G2JPP5;Q14160-3;H0YCG0 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 NS(0.001)LES(0.002)IS(0.005)S(0.037)IDRELS(0.956)PEGPGK 60.388 0.010151 3758200 851.41 1050.3 785.89 793.29 1014.6 1261.6 1211.8 1009.7 1030.3 1128.8 TRUE FALSE FALSE 940.9652102 1084.330409 892.9869965 808.6452751 936.8615672 1154.104582 1075.445075 983.873336 1023.130058 1177.468092 0.799142853 0.920900037 0.758395919 0.68676619 0.795657711 0.98015784 0.9133539 0.835583862 0.868923808 1 10.20147225 -9.344388209 0.930702286 1.005873934 0.834747837 0.093609254 0.089955428 0.585984724 0.857641013 0.071007202 0.016223794 4.52E-10 9.344388209 -0.171126097 NSLESYAFNMK ddPTM_HeLa_SAHA_4h_R1 2 NSLESYAFNMK 11 0 P11142;E9PKE3;E9PNE6;A8K7Q2;E9PS65;E9PM13 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ; ; 165.63 9.75E-08 6146300 1408.02 1411.48 1306.91 1569.98 1314.05 1528.45 1985.08 1296.84 1172.68 1371.82 FALSE FALSE TRUE 1556.122004 1457.212878 1485.008889 1600.369233 1213.367773 1398.217461 1761.713574 1263.668711 1164.519224 1430.965874 1.087462694 1.01834216 1.037766809 1.118383927 0.847936205 0.97711447 1.23113598 0.883087943 0.813799438 1 10.48277355 NSLLAGGDDDTMSVIS(ph)GISSR ddPTM_HeLa_SAHA_4h_R1 2 NSLLAGGDDDTMSVISGISSR 21 0 Q8N3U4;Q8N3U4-2 Q8N3U4 STAG2 Cohesin subunit SA-2 1 0 NSLLAGGDDDTMS(0.004)VIS(0.996)GISSR;NSLLAGGDDDTMSVIS(0.994)GIS(0.006)S(0.001)R ; 251.02 4.74E-44 14452300 2439 2100.19 2126.14 3019.7 2907.7 3020.5 2903.7 3313.6 3127.4 2563.5 TRUE FALSE FALSE 2695.545211 2168.237534 2415.879287 3078.15066 2684.912654 2763.136407 2576.968034 3228.84291 3105.636169 2674.02503 1.00804786 0.810851622 0.903461732 1.151130085 1.004071624 1.03332481 0.963703782 1.207484176 1.161408788 1 11.38479725 -6.268051733 24.87253648 0.979514847 1.060013536 0.163916975 0.105696603 714.5571332 2687823.693 0.013897223 0.021543074 5.39E-07 6.268051733 0.080498688 NSLLAGGDDDTMSVISGIS(ph)SR ddPTM_HeLa_SAHA_4h_R1 2 NSLLAGGDDDTMSVISGISSR 21 0 Q8N3U4;Q8N3U4-2 Q8N3U4 STAG2 Cohesin subunit SA-2 1 0 NSLLAGGDDDT(0.003)MS(0.003)VIS(0.047)GIS(0.746)S(0.201)R;NSLLAGGDDDTMSVIS(0.009)GIS(0.849)S(0.142)R ; 162.44 3.04E-07 8786900 1507.97 1637.82 1206.59 2102.67 1636.41 2143.78 1907.94 2173.51 2283.57 1682.21 TRUE FALSE FALSE 1666.585203 1690.886443 1371.017802 2143.370218 1511.028619 1961.117883 1693.25357 2117.914761 2267.67845 1754.738306 0.949762821 0.963611746 0.78132323 1.22147571 0.861113372 1.117612739 0.964960738 1.206969013 1.292317175 1 10.77704017 -5.2320021 24.92800232 0.972013713 1.083358832 0.020556847 0.156622859 913.9781267 773971.2989 0.015007945 0.038256507 5.86E-06 5.2320021 0.111345119 NSNILEDLETLR ddPTM_HeLa_SAHA_4h_R1 4 NSNILEDLETLR 12 0 B0YIW6;P48444;Q6P1Q5 B0YIW6 ARCN1 Coatomer subunit delta 0 0 ;;; ;;; 186.76 5.38E-06 4498510 1254.56 1538.58 1518.001 1626.18 1365.798 1863.507 1649.43 1580.974 1654.81 1834.46 FALSE FALSE TRUE 1386.520377 1588.431001 1724.866271 1657.657065 1261.150852 1704.72572 1463.831795 1540.534974 1643.294042 1913.552548 0.724579201 0.830095313 0.901394776 0.866272038 0.659062566 0.890869562 0.764981237 0.805065414 0.858766091 1 10.9020378 -9.457945808 1.144004897 1.002090186 0.799866624 0.197240697 0.082617651 0.323530174 0.74481687 0.052774599 0.012523769 3.48E-10 9.457945808 -0.202223562 NSNLVGAAHEELQQSR ddPTM_HeLa_SAHA_4h_R1 2 NSNLVGAAHEELQQSR 16 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 212.35 2.69E-20 27244000 2564.9 2619.8 2544.9 2893.4 3108.5 4273.3 2968.3 3526.1 3285.8 2756 FALSE FALSE TRUE 2834.68795 2704.683239 2891.705719 2949.405941 2870.327402 3909.190799 2634.299072 3435.907468 3262.93385 2874.824648 0.986038558 0.94081677 1.005872035 1.025942902 0.998435645 1.359801476 0.916333827 1.195171146 1.135002739 1 11.48925824 -5.466960476 24.99993174 0.992752849 1.140707609 0.240710865 0.1120784 243.7980126 108996.7966 0.01290061 0.028846529 3.41E-06 5.466960476 0.14795476 DSGPPTK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 DSGPPTKK 8 1 Q9H1E3 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 0 1 ; DSGPPTK(1)K;DSGPPTK(1)K 110.87 0.0021491 100802000 2699.4 3783.6 3944.4 10217.6 13340.9 20577.6 19611.2 18020.6 3719.5 2819 FALSE TRUE FALSE 2983.335277 3906.191123 4481.92229 10415.37642 12318.72312 18824.27271 17404.49616 17559.65915 3693.615697 2940.540886 1.014553238 1.328392046 1.524182953 3.541993404 4.189271159 6.401636109 5.918807742 5.97157456 1.256100779 1 11.52186583 -5.87626431 1.152272771 1.000320226 6.191306224 0.976614688 0.328423015 0.039855337 0.104522306 0.04761374 0.123595905 1.33E-06 5.87626431 5.190985998 up NSNPALNDNLEK ddPTM_HeLa_SAHA_4h_R1 5 NSNPALNDNLEK 12 0 O00299 O00299 CLIC1 Chloride intracellular channel protein 1 0 0 ;;;; ;;;; 231.67 6.16E-22 30578000 6210.85 6454.95 5521.92 7781.97 6254.6 7458.92 7000.23 6932.02 7320.68 5848.2 FALSE FALSE TRUE 6864.135699 6664.094615 6274.418501 7932.601282 5775.373899 6823.378053 6212.545697 6754.708966 7269.734792 6100.344522 1.125204597 1.092412829 1.028535106 1.300352997 0.946729136 1.118523393 1.018392596 1.107266801 1.191692496 1 12.57467501 -9.42411252 1.116361095 0.999256695 1.093599181 0 0.105405876 0.77466544 1.705023016 0.057489123 0.014014638 3.77E-10 9.42411252 0.094342486 NSNS(ph)PPS(ph)PSSMNQR ddPTM_HeLa_SAHA_4h_R1 1 NSNSPPSPSSMNQR 14 0 Q7Z5L9;Q7Z5L9-2;Q7Z5L9-3 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 2 0 NSNS(1)PPS(0.991)PS(0.008)S(0.001)MNQR 234.63 1.23E-23 12894000 1860.1 2337.9 1806 1914.6 1972 2733.5 1963.5 2145.4 2330.4 2094.2 TRUE FALSE FALSE 2055.753852 2413.649494 2052.112275 1951.659852 1820.905786 2500.590422 1742.561812 2090.523775 2314.182557 2184.491211 0.941067578 1.10490236 0.939400564 0.893416207 0.833560592 1.144701526 0.797696875 0.956984292 1.059369131 1 11.09308159 -6.541536051 24.97779207 0.983291099 0.924392673 0.141993282 0.098741692 469.1898395 628134.0959 0.014247733 0.020151174 2.87E-07 6.541536051 -0.058898426 NSNS(ph)PPSPS(ph)SMNQR ddPTM_HeLa_SAHA_4h_R1 2 NSNSPPSPSSMNQR 14 0 Q7Z5L9;Q7Z5L9-2;Q7Z5L9-3 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 2 0 NS(0.205)NS(0.795)PPS(0.227)PS(0.453)S(0.32)MNQR;NSNS(0.998)PPS(0.069)PS(0.548)S(0.385)MNQR ; 124.16 0.0010193 8146500 1119.81 1302.13 1127.64 1366.69 1226.93 1388.91 1286.25 1373.23 1440.74 1227.29 TRUE FALSE FALSE 1237.596754 1344.319866 1281.308907 1393.144261 1132.922888 1270.567054 1141.517765 1338.104765 1430.713773 1280.204478 0.966718032 1.050082147 1.000862697 1.088220113 0.884954636 0.992471965 0.891668311 1.045227374 1.117566606 1 10.32215854 -5.741013702 24.99963393 0.997278449 0.951936278 0.138150695 0.067042683 370.442163 453393.2595 0.007551077 0.015088442 1.82E-06 5.741013702 -0.04534217 NSNS(ph)PPSPSSMNQR ddPTM_HeLa_SAHA_4h_R1 4 NSNSPPSPSSMNQR 14 0 Q7Z5L9;Q7Z5L9-2;Q7Z5L9-3 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 1 0 NSNS(0.998)PPS(0.001)PS(0.001)S(0.001)MNQR;NS(0.008)NS(0.936)PPS(0.011)PS(0.022)S(0.022)MNQR;NS(0.014)NS(0.986)PPSPSSMNQR;NSNS(1)PPSPSSMNQR ;;; 224.06 2.06E-18 35931300 7737.4 8019.74 6586.15 7811 8003.7 11817.8 8997.1 8540.6 11083.5 8799.39 TRUE FALSE FALSE 8551.255232 8279.584838 7483.676223 7962.1932 7390.458235 10810.85695 7984.722629 8322.143819 11006.36902 9178.774766 0.931633628 0.902035952 0.815324094 0.867457085 0.805168274 1.177810463 0.869911598 0.906672626 1.199110916 1 13.16408587 -8.437190408 0.93686373 0.99133554 0.908937354 0.19612888 0.118012459 0.854484093 1.550312217 0.034928027 0.02035159 3.65E-09 8.437190408 -0.082398186 NSNSGNSALNNATPNT(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 NSNSGNSALNNATPNTPR 18 0 Q9ULH7-4;Q9ULH7;Q9ULH7-5 Q9ULH7-4 MKL2 MKL/myocardin-like protein 2 1 0 NSNSGNSALNNAT(0.002)PNT(0.998)PR 119.66 0.00095798 2449000 274.52 257.86 241.89 270.71 383.5 599.5 361.55 440.1 408.53 675.89 TRUE FALSE FALSE 303.3952731 266.2148332 274.8535095 275.9499835 354.1163129 548.4192273 320.8674425 428.8428793 405.6870065 705.0309256 0.430329028 0.377593129 0.389846033 0.391401247 0.50227061 0.777865491 0.45511116 0.60826109 0.575417321 1 9.461542731 -9.206319395 0.906141642 1.005601502 0.488874991 0.183473651 0.172538285 0.259759493 0.377447008 0.089180446 0.023994003 6.22E-10 9.206319395 -0.51672651 NSNSPPS(ph)PSSMNQR ddPTM_HeLa_SAHA_4h_R1 4 NSNSPPSPSSMNQR 14 0 Q7Z5L9;Q7Z5L9-2;Q7Z5L9-3 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 1 0 NS(0.002)NS(0.03)PPS(0.942)PS(0.019)S(0.007)MNQR;NSNS(0.001)PPS(0.991)PS(0.007)S(0.002)MNQR;NSNSPPS(0.516)PS(0.385)S(0.1)MNQR;NSNS(0.002)PPS(0.435)PS(0.435)S(0.129)MNQR ;;; 239.87 6.13E-33 75879300 2794.19 3024.96 2363.02 2583.44 3165.99 3376.82 3274.18 2889.21 4341.5 3155.07 TRUE FALSE FALSE 3088.095724 3122.970689 2685.04006 2633.446217 2923.41253 3089.095939 2905.760649 2815.308192 4311.287148 3291.100508 0.938317051 0.9489138 0.815848696 0.800171921 0.888278107 0.938620966 0.882914588 0.855430633 1.309983435 1 11.68435437 -7.410571456 1.121233717 0.980508446 0.869189381 0.330240975 0.112383763 0.259572641 0.645804518 0.010142379 0.011231773 3.89E-08 7.410571456 -0.111319064 NSNSPPSPSS(ph)MNQR ddPTM_HeLa_SAHA_4h_R1 1 NSNSPPSPSSMNQR 14 0 Q7Z5L9;Q7Z5L9-2;Q7Z5L9-3 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 1 0 NSNS(0.001)PPS(0.264)PS(0.174)S(0.562)MNQR 115.09 0.0024807 4233300 481.33 654.63 526.17 625.12 413.9 684.16 571.72 433.21 685.81 674.77 TRUE FALSE FALSE 531.9584978 675.8404415 597.8737074 637.2201015 382.1870714 625.865719 507.3885609 422.1291155 681.0373924 703.8626369 0.755770331 0.960187977 0.849418162 0.905318834 0.542985309 0.889187302 0.720863041 0.599732239 0.96757145 1 9.459150095 -13.52287874 0.034791059 2.192013789 1.49E-10 0.438113623 0.112678781 684.7655884 1.908009161 97.46373529 36.5924287 3.00E-14 13.52287874 -2.192013789 NSPFQIPPPS(ph)PDSK ddPTM_HeLa_SAHA_4h_R1 3 NSPFQIPPPSPDSK 14 0 Q86W92-3;Q86W92-4;Q86W92;F5GZP6;Q86W92-2 Q86W92-3;Q86W92-2 PPFIBP1 Liprin-beta-1 1 0 NSPFQIPPPS(0.999)PDS(0.001)K;NSPFQIPPPS(0.994)PDS(0.006)K;NSPFQIPPPS(0.763)PDS(0.237)K ;; 121.45 0.00086582 60637000 15409.7 16872.8 15192.4 14885.1 16684.7 18385.6 18197.4 16455.5 17779.3 17299.8 TRUE FALSE FALSE 17030.56295 17419.48979 17262.74115 15173.22263 15406.32189 16819.04345 16149.78066 16034.59214 17655.5724 18045.67904 0.943747415 0.965299768 0.956613554 0.840823036 0.853740214 0.932026077 0.894938928 0.888555765 0.978382269 1 14.13936581 -6.402559612 5.802546502 0.971587232 0.884192677 0.732216743 0.026331867 0.111363043 4.889160634 0.004887502 0.007490206 3.96E-07 6.402559612 -0.087394555 NSPFQIPPPSPDS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 NSPFQIPPPSPDSK 14 0 Q86W92-3;Q86W92-4;Q86W92;F5GZP6;Q86W92-2 Q86W92-3;Q86W92-2 PPFIBP1 Liprin-beta-1 1 0 NSPFQIPPPS(0.266)PDS(0.734)K 82.663 0.014937 12219000 3189.1 3219.2 3229.2 2839.5 3033.4 3468.3 3805.6 3326.9 3587.5 3378.1 TRUE FALSE FALSE 3524.54417 3323.504192 3669.258559 2894.462628 2800.981547 3172.781328 3377.383872 3241.802715 3562.534295 3523.746423 1.000226392 0.943173484 1.041294724 0.821416266 0.794887376 0.900400014 0.958463938 0.919987515 1.011007566 1 11.78289439 -6.26588443 24.9998002 0.997742118 0.87995648 0.601251228 0.048897204 213.3185715 1199743.599 0.007853786 0.012256468 5.42E-07 6.26588443 -0.117785638 NSPGSQVASNPR ddPTM_HeLa_SAHA_4h_R1 1 NSPGSQVASNPR 12 0 Q9H0D6-2;Q9H0D6 Q9H0D6-2 XRN2 5-3 exoribonuclease 2 0 0 141.08 0.0038005 282900 0 0 0 60.293 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 61.4600582 0 0 0 0 0 0 0 NSPLDCGS(ph)ASPNK ddPTM_HeLa_SAHA_4h_R1 1 NSPLDCGSASPNK 13 0 O75179-4;O75179-6;O75179-2;O75179;H0YM23;O75179-7 O75179-4 ANKRD17 Ankyrin repeat domain-containing protein 17 1 0 NSPLDCGS(0.939)AS(0.061)PNK 144.15 0.00025397 9972800 1785.7 3036.1 1982.7 2386.8 2261.5 2888 2484.5 2154.6 4450.3 2601.3 TRUE FALSE FALSE 1973.528119 3134.471632 2252.892031 2432.999965 2088.224359 2641.926153 2204.937521 2099.488452 4419.33 2713.454773 0.727311963 1.155158974 0.830267028 0.896642903 0.769581413 0.97363928 0.812594167 0.773732613 1.628672806 1 11.40591515 NSPLDCGSAS(ph)PNK ddPTM_HeLa_SAHA_4h_R1 2 NSPLDCGSASPNK 13 0 O75179-4;O75179-6;O75179-2;O75179;H0YM23;O75179-7 O75179-4 ANKRD17 Ankyrin repeat domain-containing protein 17 1 0 NSPLDCGS(0.009)AS(0.991)PNK;NSPLDCGS(0.059)AS(0.941)PNK ; 184.48 3.52E-07 14788300 2996.5 3758.3 2694 3281.7 3173 4132.1 3733.2 3445.1 5952.5 3125 TRUE FALSE FALSE 3311.685618 3880.071386 3061.12429 3345.222049 2929.885425 3780.021833 3313.130511 3356.97933 5911.076068 3259.734043 1.015937366 1.190303054 0.939071792 1.026225454 0.898811187 1.159610503 1.016380621 1.029832276 1.813361455 1 11.67053855 -7.507219375 23.42958965 1.007031097 1.036680137 0 0.267961463 168.693529 252409.3005 0.013742066 0.014709785 3.11E-08 7.507219375 0.02964904 NSPNNISGISNPPGT(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 NSPNNISGISNPPGTPR 17 0 Q9NW25;Q9BWW4-2;Q9BWW4-3;Q9BWW4;A0A087WVT6 Q9NW25 SSBP3 Single-stranded DNA-binding protein 3 1 0 NSPNNISGISNPPGT(1)PR;NSPNNISGISNPPGT(1)PR;NSPNNISGISNPPGT(1)PR;NSPNNISGISNPPGT(1)PR ;;; 294.39 2.69E-86 99355000 4000.29 5172.65 4227.08 4296.91 5739.33 5902.8 5280.16 4504.46 6449.86 5484.11 TRUE FALSE FALSE 4421.058856 5340.247254 4803.124449 4380.082906 5299.583775 5399.848232 4686.0225 4389.242436 6404.974899 5720.556821 0.772837155 0.933518785 0.839625337 0.765674224 0.926410477 0.943937522 0.819154961 0.767275385 1.119641864 1 12.48193987 -9.502632177 1.216637162 1.00106199 0.842439241 0.520331107 0.076733516 0.368846788 0.966544313 0.049332944 0.011619711 3.14E-10 9.502632177 -0.158622749 NSPNNMSLSNQPGT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 NSPNNMSLSNQPGTPR 16 0 H0Y9V4;A0A087X159;P81877-4;P81877-5;P81877-3;P81877 H0Y9V4 SSBP2 Single-stranded DNA-binding protein 2 1 0 NSPNNMSLSNQPGT(1)PR;NSPNNMSLSNQPGT(1)PR ; 193.41 1.09E-11 10746000 1990.5 2680.11 2121.94 2384.41 2768.24 2876.24 2644.38 2705.77 2943.93 2760.75 TRUE FALSE FALSE 2199.869923 2766.947322 2411.106933 2430.563703 2556.138049 2631.168171 2346.827403 2636.560321 2923.442951 2879.779443 0.763902224 0.96081918 0.837254026 0.844010367 0.887615909 0.91367003 0.814933035 0.915542448 1.015162101 1 11.49174261 -9.607431305 1.415132232 0.999860857 0.854178897 0.493820318 0.055179554 0.301155577 1.084118368 0.041261528 0.009545436 2.47E-10 9.607431305 -0.14568196 NSPQS(ph)SPTSTPK ddPTM_HeLa_SAHA_4h_R1 2 NSPQSSPTSTPK 12 0 Q9Y6Y0 Q9Y6Y0 IVNS1ABP Influenza virus NS1A-binding protein 1 0 NSPQS(0.925)S(0.073)PT(0.001)STPK;NSPQS(0.755)S(0.19)PT(0.049)S(0.005)TPK ; 217.68 1.07E-15 22534100 9018.5 9060.6 7716.1 8101.7 9627.2 11814.3 9458.5 8506.4 9430.5 8929.7 TRUE FALSE FALSE 9967.107208 9354.169385 8767.609924 8258.520119 8889.566016 10807.65517 8394.204687 8288.818605 9364.872383 9314.703068 1.070040251 1.004236991 0.941265638 0.886611206 0.954358497 1.160279087 0.901177915 0.889863965 1.005386035 1 13.18529406 -6.951756947 5.156265324 1.033318564 0.959640817 0.147236176 0.075835007 0.275673938 16.44880875 0.012820829 0.016836306 1.12E-07 6.951756947 -0.073677747 NSPQSS(ph)PTSTPK ddPTM_HeLa_SAHA_4h_R1 2 NSPQSSPTSTPK 12 0 Q9Y6Y0 Q9Y6Y0 IVNS1ABP Influenza virus NS1A-binding protein 1 0 NSPQS(0.373)S(0.607)PT(0.015)S(0.004)TPK;NSPQS(0.117)S(0.564)PT(0.05)S(0.244)T(0.024)PK ; 178.67 2.99E-05 21623500 6378.54 6864.6 5698.57 5889.8 6659.8 8035.4 6971.8 6628.4 6825.5 7147.3 TRUE FALSE FALSE 7049.464103 7087.017544 6475.141443 6003.805596 6149.527563 7350.738714 6187.314715 6458.855126 6778.00079 7455.455081 0.94554444 0.950581483 0.868510557 0.805290292 0.824835975 0.985954396 0.829904365 0.866326073 0.909133073 1 12.8640807 -6.843474922 2.942206101 0.973664283 0.862340389 0.389661803 0.051670399 0.154508181 2.716941497 0.008224316 0.011215052 1.43E-07 6.843474922 -0.111323894 NSPRRLLTS(ph)MNT(ph)T(ph)K ddPTM_HeLa_SAHA_4h_R1 1 NSPRRLLTSMNTTK 14 2 A0A2R8Y5P4 A0A2R8Y5P4 3 0 NSPRRLLT(0.02)S(0.992)MNT(0.994)T(0.994)K 65.704 0.0064728 0 331.36 233.09 141.31 57.64 318.71 336.21 97.793 218.74 289.39 248.86 TRUE FALSE FALSE 366.2139651 240.6422689 160.5669909 58.75570555 294.2905087 307.5630165 86.78907426 213.1449475 287.3761114 259.5895725 1.410742202 0.927010537 0.618541759 0.226340777 1.133676156 1.184804973 0.334331897 0.821084397 1.107040274 1 8.020088622 -7.017678585 5.490516265 1.193705018 0.722363029 0.315202116 0.298807067 0.158905584 15.31071703 0.052799872 0.066862622 9.60E-08 7.017678585 -0.471341988 NSPS(ph)NLSSSSDTGSVGGTYR ddPTM_HeLa_SAHA_4h_R1 1 NSPSNLSSSSDTGSVGGTYR 20 0 O43166-3;O43166-2;O43166;F5GYF8 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 NSPS(0.566)NLS(0.433)S(0.001)SSDTGSVGGTYR 310.75 2.58E-107 7474000 198.48 528.71 239.62 172.54 272.77 344.11 151.87 154.73 289.9 402.35 TRUE FALSE FALSE 219.3570371 545.8405509 272.2741657 175.8797612 251.8704215 314.7898921 134.7811879 150.7722306 287.8825623 419.6972776 0.522655373 1.300557759 0.648739414 0.419063384 0.60012403 0.750040348 0.321139057 0.35924043 0.685929068 1 8.713205295 -6.525406149 24.99533222 0.815684922 0.504396364 0.386767871 0.224324892 84.72659443 837918.3286 0.040187667 0.057032973 2.98E-07 6.525406149 -0.311288558 NSQEDS(ph)EDSEDKDVK ddPTM_HeLa_SAHA_4h_R1 2 NSQEDSEDSEDKDVK 15 1 Q9H1E3 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 NSQEDS(0.851)EDS(0.149)EDKDVK;NSQEDS(1)EDSEDKDVK ; 184.22 1.17E-24 38565000 2032.75 2004.26 2248.19 2129.21 2175.24 2231.08 2190.84 2447.97 2475.71 2189.11 TRUE FALSE FALSE 2246.563972 2069.199339 2554.561625 2170.423938 2008.573581 2040.979432 1944.320917 2385.354472 2458.481333 2283.493245 0.983827728 0.906155227 1.118707765 0.950484063 0.879605659 0.893797009 0.851467777 1.044607632 1.076631752 1 11.15702681 -6.002213024 24.89384885 0.994757284 0.911486782 0.274107741 0.072606606 83.65139319 941003.0583 0.00921009 0.016504264 9.95E-07 6.002213024 -0.083270503 NSQEDSEDS(ph)EDKDVK ddPTM_HeLa_SAHA_4h_R1 2 NSQEDSEDSEDKDVK 15 1 Q9H1E3 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 NSQEDS(0.137)EDS(0.863)EDKDVK;NSQEDS(0.138)EDS(0.862)EDKDVK ; 101.38 0.0023692 169490000 5234.9 4906.4 5137.8 5381.1 5449.6 6380.5 6330.2 6111.8 6118 5324.2 TRUE FALSE FALSE 5785.530801 5065.370579 5837.952627 5485.258972 5032.052825 5836.845504 5617.909236 5955.469006 6075.42434 5553.752318 1.041733673 0.912062744 1.051172665 0.987667195 0.906063601 1.050973319 1.011551995 1.072332482 1.093931452 1 12.43924712 -4.026797912 1.628893608 1.005975728 1.131107132 0.111226972 0.056745992 3.174476572 4.947301268 0.007056817 0.748588208 9.40E-05 4.026797912 0.125131404 NSQEDSEDSEDKDVK ddPTM_HeLa_SAHA_4h_R1 3 NSQEDSEDSEDKDVK 15 1 Q9H1E3 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 0 0 ;; ;; 140.77 0.00021883 14455500 2320.93 2304.2 2364.4 2702.43 2258.49 2957.9 2658.74 3046.36 2724.19 2432.56 FALSE FALSE TRUE 2565.056066 2378.857592 2686.608119 2754.73944 2085.444984 2705.870279 2359.571578 2968.438522 2705.23214 2537.439566 1.010883609 0.937503152 1.058787037 1.085637458 0.821869814 1.066378217 0.929902572 1.169855851 1.066126727 1 11.30915775 -4.246560637 24.34324157 0.997771924 1.169856027 0.307714228 0.077575389 1572.672315 2573002.463 0.009113221 0.270021907 5.67E-05 4.246560637 0.172084104 NSQGEEVAQR ddPTM_HeLa_SAHA_4h_R1 1 NSQGEEVAQR 10 0 P20700 P20700 LMNB1 Lamin-B1 0 0 134.84 0.0082304 1128000 392.39 292.21 314.42 628.93 422.45 317.58 507.33 364.12 279.36 512.03 FALSE FALSE TRUE 433.6633805 301.6777957 357.2675202 641.1038496 390.0819723 290.5203973 450.2438932 354.8063376 277.415911 534.1061191 0.811942356 0.564827447 0.668907371 1.200330471 0.730345447 0.543937594 0.842985836 0.664299331 0.519402233 1 9.060982603 -8.59769047 0.786606541 0.989794467 0.754862722 0 0.228672341 0.707396662 0.88824988 0.085227397 0.038869324 2.53E-09 8.59769047 -0.234931745 NSQSFFSGLFGGSSK ddPTM_HeLa_SAHA_4h_R1 2 NSQSFFSGLFGGSSK 15 0 M0R0Y2;M0R2M1;P54920 M0R0Y2 NAPA Alpha-soluble NSF attachment protein 0 0 ; ; 230.69 1.01E-43 816050 227.2 403.87 408.1 490.14 445.58 526.06 537.2 245.64 477.15 210.03 FALSE FALSE TRUE 251.0979384 416.955653 463.7137427 499.6273685 411.4397567 481.2367285 476.7528422 239.3568845 473.8294743 219.0854212 1.146118884 1.90316476 2.116588773 2.280513992 1.877987839 2.196571209 2.176104825 1.092527669 2.162761318 1 7.775349674 -7.263590497 3.649588203 1.062106132 1.991715003 0.056985276 0.470353972 0.100463945 2.904927672 0.052039941 0.061540279 5.45E-08 7.263590497 0.929608871 NSS(ph)EASSGDFLDLK ddPTM_HeLa_SAHA_4h_R1 2 NSSEASSGDFLDLK 14 0 Q9UK76;J3KT51;Q9UK76-3;Q9UK76-2;J3KSH8 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 1 0 NS(0.035)S(0.964)EAS(0.001)SGDFLDLK;NS(0.144)S(0.525)EAS(0.321)S(0.01)GDFLDLK ; 242.67 4.67E-33 22763000 2015.78 2977.9 2440 2476.6 3225.9 4137.3 3258.4 2500.8 4358.7 2604.5 TRUE FALSE FALSE 2227.808989 3074.385914 2772.510493 2524.538174 2978.732239 3784.778764 2891.756256 2436.833157 4328.367452 2716.792741 0.820014334 1.13162328 1.02050865 0.929234732 1.096414973 1.393105446 1.064400759 0.896952175 1.593190156 1 11.40768879 -6.510127756 1.03032647 0.922396226 1.110162775 0 0.254188828 0.579307517 1.227372088 0.028184101 0.050639637 3.09E-07 6.510127756 0.187766549 NSS(ph)EKLPTELSK ddPTM_HeLa_SAHA_4h_R1 1 NSSEKLPTELSK 12 1 P38432 P38432 COIL Coilin 1 0 NS(0.024)S(0.971)EKLPT(0.005)ELSK 82.942 0.011274 28864000 7225.6 6995.7 6304.2 7507.6 8034.9 9370 7114.8 7248.1 8992.8 7247.9 TRUE FALSE FALSE 7985.62176 7222.36527 7163.303545 7652.920454 7419.267698 8571.623286 6314.223979 7062.704097 8930.218373 7560.392439 1.056244345 0.955289732 0.94747774 1.01223852 0.981333675 1.133753751 0.835171458 0.934171626 1.181184501 1 12.88424541 -4.742414041 24.99999854 1.017839621 0.884671518 0.369759084 0.075523983 153.5566572 201775.8544 0.007472369 0.02786348 1.81E-05 4.742414041 -0.133168103 NSS(ph)GPQSGWMK ddPTM_HeLa_SAHA_4h_R1 1 NSSGPQSGWMK 11 0 F8VXG7;Q99590-2;Q99590 F8VXG7 SCAF11 Protein SCAF11 1 0 NS(0.003)S(0.997)GPQSGWMK 137.95 0.00099926 7181300 1227.6 1220.7 1486.1 1380.6 1535.6 1422.3 1717 1686.7 1137.5 1131.1 TRUE FALSE FALSE 1356.7246 1260.251481 1688.617969 1407.323509 1417.94266 1301.112038 1523.798641 1643.556656 1129.584045 1179.867256 1.149895968 1.068129888 1.431193178 1.192781223 1.201781516 1.102761375 1.291500067 1.393001329 0.957382315 1 10.20440884 -13.52287874 0.059257329 0.03885583 1.638403992 0.531267198 0.102208812 194.6113937 0.906016013 27.39527275 5.259041496 3.00E-14 13.52287874 1.599548162 NSS(ph)LLSFDNEDENE ddPTM_HeLa_SAHA_4h_R1 2 NSSLLSFDNEDENE 14 0 Q96AT1 Q96AT1 KIAA1143 Uncharacterized protein KIAA1143 1 0 NS(0.086)S(0.914)LLSFDNEDENE;NS(0.206)S(0.794)LLSFDNEDENE ; 188.92 1.73E-08 4828000 1612.39 1516.35 1254.36 1631.1 2059.9 1667.25 1764.75 1656.42 1643.95 1376.04 TRUE FALSE FALSE 1781.988578 1565.480735 1425.297648 1662.672299 1902.070907 1525.19092 1566.175685 1614.051175 1632.509618 1435.367819 1.24148567 1.090647787 0.992984258 1.158359744 1.325145292 1.062578456 1.091131949 1.12448611 1.137345841 1 10.48720477 -9.612592382 1.42691113 1.000207486 1.14825082 0 0.097811542 0.477824012 1.750565986 0.066913079 0.015474849 2.44E-10 9.612592382 0.148043334 NSS(ph)PAPPQPAPGK ddPTM_HeLa_SAHA_4h_R1 4 NSSPAPPQPAPGK 13 0 Q9NYV4-2;J3QSD7;Q9NYV4-3;Q9NYV4 Q9NYV4-2 CDK12 Cyclin-dependent kinase 12 1 0 NS(0.003)S(0.997)PAPPQPAPGK;NS(0.277)S(0.723)PAPPQPAPGK;NS(0.09)S(0.91)PAPPQPAPGK;NS(0.261)S(0.739)PAPPQPAPGK ;;; 191.01 1.80E-07 72984000 14726.9 22393.3 11097.3 19399.7 18978.4 23141.5 17848.4 14996.2 35069.3 18925.2 TRUE FALSE FALSE 16275.94291 23118.85761 12609.58225 19775.20925 17524.27909 21169.71401 15840.05106 14612.61892 34825.24989 19741.15799 0.824467487 1.171099366 0.638745825 1.001724886 0.887702692 1.072364348 0.802387128 0.740210829 1.764093571 1 14.268919 -9.596346866 1.34919919 1.000809455 0.889336175 0.093355435 0.285316525 0.99586462 3.213362192 0.102117054 0.022912339 2.53E-10 9.596346866 -0.111473279 NSS(ph)PEKHILENK ddPTM_HeLa_SAHA_4h_R1 1 NSSPEKHILENK 12 1 E7EVA0;B5MEG9 E7EVA0 MAP4 Microtubule-associated protein 1 0 NS(0.242)S(0.758)PEKHILENK 67.749 0.014437 26510000 6430.9 7125.9 4582.6 7055.4 6956.6 6369.7 6915.4 7769.2 7756.8 6522 TRUE FALSE FALSE 7107.331568 7356.783835 5207.092863 7191.967469 6423.586811 5826.965725 6137.260992 7570.475114 7702.819797 6803.195338 1.044704909 1.081371836 0.765389292 1.057145519 0.944201437 0.856504251 0.902114475 1.112782264 1.132235577 1 12.7319968 NSS(ph)PGEASLLEK ddPTM_HeLa_SAHA_4h_R1 4 NSSPGEASLLEK 12 0 Q76FK4-2;Q76FK4-4;Q76FK4 Q76FK4-2 NOL8 Nucleolar protein 8 1 0 NS(0.23)S(0.77)PGEASLLEK;NS(0.073)S(0.927)PGEASLLEK;NSS(1)PGEASLLEK;NS(0.001)S(0.999)PGEASLLEK ;;; 141.59 0.00061469 60182000 8887.3 13699.5 8882.1 10920.5 13636.2 14471.1 13761.1 11464.6 16209.7 12170.9 TRUE FALSE FALSE 9822.10699 14143.37279 10092.50633 11131.88207 12591.3973 13238.08087 12212.66481 11171.35213 16096.89538 12695.64706 0.773659424 1.114033237 0.794958011 0.87682668 0.991788543 1.042725968 0.961956862 0.879935625 1.267906653 1 13.63204631 -5.759048455 24.9462831 0.899839888 0.973850279 0 0.152598287 124.6252078 1300278.549 0.016529102 0.031840887 1.74E-06 5.759048455 0.074010391 NSS(ph)PINCSR ddPTM_HeLa_SAHA_4h_R1 2 NSSPINCSR 9 0 Q15723-2;Q15723-3;Q15723-1;Q15723;Q15723-4 Q15723-2 ELF2 ETS-related transcription factor Elf-2 1 0 NS(0.029)S(0.971)PINCSR;NS(0.004)S(0.995)PINCS(0.001)R ; 134.3 0.0016106 6795300 4177.4 4278.4 3600.8 3584 4038.3 4451 4445.6 3928.4 4110 4364.4 TRUE FALSE FALSE 4616.798099 4417.022967 4091.498272 3653.373503 3728.886326 4071.749759 3945.369388 3827.917216 4081.398175 4552.570643 1.014107954 0.970226124 0.898722632 0.802485846 0.8190727 0.894384751 0.866624529 0.840825441 0.896504084 1 12.15246569 -6.728988933 2.486289899 1.006180996 0.847294563 0.628284682 0.042534245 0.061633469 0.781869861 0.004237938 0.006054315 1.87E-07 6.728988933 -0.158886433 NSS(ph)QDDLFPTSDTPR ddPTM_HeLa_SAHA_4h_R1 2 NSSQDDLFPTSDTPR 15 0 Q9H6T3-3;Q9H6T3-2;Q9H6T3 Q9H6T3-3 RPAP3 RNA polymerase II-associated protein 3 1 0 NS(0.006)S(0.994)QDDLFPTSDTPR;NS(0.212)S(0.782)QDDLFPT(0.003)S(0.003)DTPR ; 164.8 1.42E-12 2646600 976.78 994.32 824.53 981.97 1023.6 952.89 1014.3 1329.6 1143.49 805.25 TRUE FALSE FALSE 1079.522202 1026.53662 936.8926544 1000.977449 945.1719891 871.6984112 900.1682945 1295.590757 1135.53236 839.9682683 1.285194028 1.222113572 1.115390533 1.191684837 1.125247256 1.037775407 1.071669405 1.542428216 1.351875306 1 9.714191018 -9.504838606 1.258567607 1.000180646 1.195879446 0 0.172575156 0.548031289 1.556015168 0.091573348 0.022247388 3.13E-10 9.504838606 0.1956988 NSS(ph)SPVSPASVPGQR ddPTM_HeLa_SAHA_4h_R1 2 NSSSPVSPASVPGQR 15 0 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 NS(0.146)S(0.473)S(0.218)PVS(0.16)PAS(0.003)VPGQR;NS(0.002)S(0.671)S(0.32)PVS(0.006)PAS(0.002)VPGQR ; 128.74 0.00035672 12001100 2598.1 2309.74 2226.88 2399.54 2806.4 2657 2661.6 2615.3 2870 2416.2 TRUE FALSE FALSE 2871.380079 2384.577091 2530.347609 2445.986566 2591.374238 2430.608652 2362.109763 2548.404413 2850.027436 2520.374207 1.139267364 0.946120257 1.003957112 0.970485478 1.028170433 0.964384037 0.937205974 1.011121446 1.130795351 1 11.29942224 -7.244159098 24.99199929 1.065765147 0.980328355 0.527146265 0.045970423 698.9324359 1010847.963 0.009377228 0.01146983 5.70E-08 7.244159098 -0.085436792 NSSCGGGISSSSSS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 NSSCGGGISSSSSSR 15 0 Q9BXB4 Q9BXB4 OSBPL11 Oxysterol-binding protein-related protein 11 1 0 NSSCGGGISS(0.041)S(0.004)S(0.04)S(0.04)S(0.874)R 109.14 0.0022889 803730 423.3 481.71 276.26 391.36 590.1 550.66 315.72 353.47 381.27 309.7 TRUE FALSE FALSE 467.8246362 497.3177201 313.9072741 398.9353387 544.8866655 503.7406701 280.1943547 344.4287492 378.616711 323.0526826 1.448137289 1.539432256 0.971690659 1.234892512 1.686680516 1.559314307 0.867333317 1.06616898 1.171996802 1 8.335625645 -11.41869685 12.24704676 0.874813639 1.245354754 0 0.271391037 0 0 0 0.039066592 3.81E-12 11.41869685 0.370541115 NSSLGS(ph)PSNLCGS(ph)PPGSIR ddPTM_HeLa_SAHA_4h_R1 2 NSSLGSPSNLCGSPPGSIR 19 0 Q9C0B0 Q9C0B0 UNK RING finger protein unkempt homolog 2 0 NS(0.001)S(0.01)LGS(0.985)PS(0.144)NLCGS(0.826)PPGS(0.034)IR;NS(0.076)S(0.136)LGS(0.783)PS(0.013)NLCGS(0.636)PPGS(0.357)IR ; 121.47 0.0036596 21747000 2337.22 2242.8 2043.07 2129.33 2328.53 2996.3 2691 2709.17 2459.6 2526.5 TRUE FALSE FALSE 2583.059523 2315.468192 2321.48894 2170.546261 2150.118534 2740.998383 2388.201598 2639.873354 2442.483443 2635.429779 0.980128381 0.878592255 0.880876796 0.823602389 0.815851195 1.040057453 0.906190564 1.001686091 0.926787525 1 11.36382254 -7.350807347 5.366959904 0.991238539 0.904234326 0.12264721 0.069107131 0.227825305 10.55084525 0.011589262 0.013210981 4.46E-08 7.350807347 -0.087004212 NSSLGSPSNLCGS(ph)PPGSIR ddPTM_HeLa_SAHA_4h_R1 4 NSSLGSPSNLCGSPPGSIR 19 0 Q9C0B0 Q9C0B0 UNK RING finger protein unkempt homolog 1 0 NSSLGSPS(0.15)NLCGS(0.849)PPGSIR;NSSLGSPSNLCGS(1)PPGSIR;NSSLGSPS(0.001)NLCGS(0.995)PPGS(0.003)IR;NSSLGSPSNLCGS(0.998)PPGS(0.002)IR ;;; 258.37 8.10E-52 109090500 4529.91 4464.61 4303.74 4741.65 5215.13 5311.58 5217.42 4792.5 5133.92 5087.21 TRUE FALSE FALSE 5006.386718 4609.266293 4890.231274 4833.431492 4815.547866 4859.003502 4630.34217 4669.914789 5098.192633 5306.544519 0.943436298 0.868600325 0.921547206 0.910843483 0.907473375 0.91566244 0.872572001 0.880029325 0.960736806 1 12.37355701 -8.105721314 0.456878062 1.005602854 0.88994883 0.657157501 0.022920419 0.311182759 0.154411083 0.014990907 0.008019045 7.84E-09 8.105721314 -0.115654024 NSSLLS(ph)FDNEDENE ddPTM_HeLa_SAHA_4h_R1 2 NSSLLSFDNEDENE 14 0 Q96AT1 Q96AT1 KIAA1143 Uncharacterized protein KIAA1143 1 0 NSS(0.001)LLS(0.999)FDNEDENE;NS(0.002)S(0.008)LLS(0.99)FDNEDENE ; 157.09 1.88E-05 7851400 3160.6 3435.9 3092.9 3472.9 4526.7 3365.9 5031.7 6153.5 5548 3396 TRUE FALSE FALSE 3493.046409 3547.225414 3514.384305 3540.123001 4179.865224 3079.106384 4465.519873 5996.10238 5509.391016 3542.41818 0.986062693 1.001357049 0.992086232 0.999352087 1.179946865 0.869210304 1.260585184 1.692657974 1.555262743 1 11.79051882 -4.384701619 2.715882142 1.000962891 1.741129161 0.458194933 0.190478661 0.069283217 0.781407436 0.009282467 0.099402742 4.12E-05 4.384701619 0.74016627 NSSNKPAVTTK(ac)SPAVKPAAAPK ddPTM_HeLa_SAHA_4h_R1 2 NSSNKPAVTTKSPAVKPAAAPK 22 3 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 ; NSSNKPAVTTK(1)SPAVKPAAAPK;NSSNK(0.018)PAVTTK(0.982)SPAVKPAAAPK 164.5 5.04E-17 21755900 1980.76 2369.41 2192.92 2547.99 2519.11 2679.87 2932.47 2551.95 1677.84 1579.64 FALSE TRUE FALSE 2189.105425 2446.180439 2491.759717 2597.310031 2326.096336 2451.529999 2602.500758 2486.674814 1666.163775 1647.746011 1.328545425 1.48456159 1.512223183 1.576280576 1.411683791 1.487808184 1.579430774 1.509137208 1.01117755 1 10.68627816 -8.268380041 0.509593562 0.987236416 1.534737539 0.933829503 0.052596999 0.163564475 0.094482283 0.039106385 0.018542792 5.39E-09 8.268380041 0.547501123 NSSNTSVGS(ph)PSNTIGR ddPTM_HeLa_SAHA_4h_R1 6 NSSNTSVGSPSNTIGR 16 0 H0Y5T1;Q7Z460-2;Q7Z460-3;F8WA11;Q7Z460-5;Q7Z460;Q7Z460-4 H0Y5T1;Q7Z460-4 CLASP1 CLIP-associating protein 1 1 0 NS(0.009)S(0.026)NT(0.209)S(0.125)VGS(0.604)PS(0.011)NT(0.016)IGR;NSSNTSVGS(0.997)PS(0.002)NTIGR;NSSNT(0.008)S(0.027)VGS(0.943)PS(0.018)NT(0.005)IGR;NSS(0.001)NT(0.004)S(0.01)VGS(0.875)PS(0.078)NT(0.032)IGR;NSSNTSVGS(0.921)PS(0.079)NTIGR;NSSNT(0.006)S(0.028)VGS(0.442)PS(0.442)NT(0.082)IGR ;;;;; 292.45 3.50E-86 372432900 9272.6 8599.4 8204.84 9476.4 10335.1 11492.2 9583.8 9981.9 9839.8 10751.2 TRUE FALSE FALSE 10247.93461 8878.026202 9322.952866 9659.829425 9543.226871 10512.99991 8505.405601 9726.577452 9771.324031 11214.73685 0.913791804 0.79163928 0.831312673 0.861351413 0.850954151 0.937427249 0.758413302 0.867303226 0.871293207 1 13.45310815 -7.96868917 0.976010523 0.983189464 0.844066025 0.19363019 0.059478666 0.225858374 0.45760825 0.013259996 0.010659004 1.07E-08 7.96868917 -0.139123438 NSSQDDLFPTSDT(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 NSSQDDLFPTSDTPR 15 0 Q9H6T3-3;Q9H6T3-2;Q9H6T3 Q9H6T3-3 RPAP3 RNA polymerase II-associated protein 3 1 0 NSSQDDLFPTS(0.027)DT(0.973)PR 165.58 6.96E-06 3189800 729.67 954.84 881.26 741.95 992.54 1167.4 907.71 839.89 1220.5 935.57 TRUE FALSE FALSE 806.4200384 985.7774425 1001.353523 756.3115151 916.4917996 1067.930952 805.5720818 818.4068299 1212.006441 975.9070013 0.826328777 1.010114121 1.026074741 0.774983184 0.939117968 1.09429582 0.825459886 0.838611496 1.241928216 1 9.930599863 -4.500984318 0.008240497 1.793452959 2.03E-07 0.037862296 0.135672685 26164.99295 36.85844693 3797.059363 4233.73084 3.16E-05 4.500984318 -1.793452756 NSSQSGGKPGSS(ph)PITK ddPTM_HeLa_SAHA_4h_R1 1 NSSQSGGKPGSSPITK 16 1 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 1 0 NSSQSGGKPGS(0.269)S(0.708)PIT(0.023)K 68.134 0.015645 85023000 1418.5 1308.4 1278.7 1365.8 1361.2 1640.2 1468.4 1381.4 1428.5 1230.2 TRUE FALSE FALSE 1567.704338 1350.793018 1452.954577 1392.237034 1256.90515 1500.445732 1303.171767 1346.065788 1418.558952 1283.239942 1.2216767 1.052642591 1.132254794 1.08493898 0.979477889 1.169263583 1.015532422 1.048958767 1.105451058 1 10.32557524 -5.99301076 24.74781781 1.104667593 1.055556934 0.099022048 0.069625731 386.2908695 1367778.451 0.013528531 0.024485628 1.02E-06 5.99301076 -0.04911066 NSSQSGGKPGSSPIT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 NSSQSGGKPGSSPITK 16 1 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 1 0 NSSQSGGKPGS(0.029)S(0.119)PIT(0.852)K 82.859 0.012103 107370000 4042.3 3328.1 3420.1 3307.5 3347.7 3304.3 3763.2 3590 3561.5 3194 TRUE FALSE FALSE 4467.487661 3435.932624 3886.173417 3371.521445 3091.199949 3022.755051 3339.754832 3498.172998 3536.715232 3331.708971 1.34089973 1.03128234 1.166420432 1.011949565 0.927812116 0.907268635 1.002414935 1.049963556 1.061531863 1 11.70204667 -6.170877456 3.569425384 1.154013131 0.969145751 0.315173021 0.097976999 0.241586178 5.827424583 0.020647454 0.035163389 6.75E-07 6.170877456 -0.18486738 NSSQSLMVPQS(ph)GSPEPESIR ddPTM_HeLa_SAHA_4h_R1 1 NSSQSLMVPQSGSPEPESIR 20 0 F5H1U9;O75970-5;O75970-3;O75970-2;O75970;A0A075B6R8;B7ZB24;H0YGQ3 F5H1U9 MPDZ Multiple PDZ domain protein 1 0 NSSQSLMVPQS(0.615)GS(0.385)PEPESIR 229.62 8.52E-33 12029000 3560.5 3893.9 3444.7 3432.8 4411.3 4687.4 4093.2 4072.6 4114.3 3557.4 TRUE FALSE FALSE 3935.009726 4020.064915 3914.125777 3499.246808 4073.307147 4288.007149 3632.622363 3968.428789 4085.668251 3710.776923 1.060427454 1.083348581 1.054799536 0.942995734 1.097696582 1.155555087 0.978938491 1.069433402 1.101027719 1 11.85750556 -9.214857227 0.859793033 0.998484994 1.054894717 0 0.064096754 1.152526216 1.472107185 0.042475219 0.010740774 6.10E-10 9.214857227 0.056409723 NSSQSLMVPQSGS(ph)PEPESIR ddPTM_HeLa_SAHA_4h_R1 2 NSSQSLMVPQSGSPEPESIR 20 0 F5H1U9;O75970-5;O75970-3;O75970-2;O75970;A0A075B6R8;B7ZB24;H0YGQ3 F5H1U9 MPDZ Multiple PDZ domain protein 1 0 NSSQSLMVPQS(0.114)GS(0.877)PEPES(0.008)IR;NSSQSLMVPQS(0.048)GS(0.952)PEPESIR ; 288.69 4.95E-78 18207800 3255.96 3198.84 2477.22 2476.89 3201.65 3057.5 2940.91 2939.27 3222.05 2856.78 TRUE FALSE FALSE 3598.436812 3302.484515 2814.802641 2524.833788 2956.340269 2796.983799 2609.991067 2864.087729 3199.627492 2979.949767 1.207549487 1.108234962 0.944580567 0.847273943 0.992077216 0.938600989 0.875850693 0.961119466 1.0737186 1 11.5410723 -6.730038549 5.643540551 1.101676116 0.922969177 0.654578464 0.060828877 0.113409047 9.718248373 0.013508318 0.018895399 1.86E-07 6.730038549 -0.17870694 NSSS(ph)PVSPASVPGQR ddPTM_HeLa_SAHA_4h_R1 5 NSSSPVSPASVPGQR 15 0 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 NSS(0.005)S(0.995)PVSPASVPGQR;NSS(0.033)S(0.93)PVS(0.033)PAS(0.003)VPGQR;NS(0.002)S(0.112)S(0.88)PVS(0.006)PASVPGQR;NS(0.002)S(0.107)S(0.866)PVS(0.023)PAS(0.002)VPGQR;NS(0.014)S(0.21)S(0.759)PVS(0.016)PASVPGQR ;;;; 163.9 5.00E-06 170714900 11293.46 11635.4 12141.91 11995.36 12089.24 12980.21 12091.56 11829.76 13087.23 11141.08 TRUE FALSE FALSE 12481.35794 12012.39459 13796.54626 12227.54754 11162.96504 11874.22308 10730.98585 11527.17187 12996.1549 11621.42648 1.073995345 1.033642007 1.187164612 1.052155478 0.96055033 1.021752631 0.923379403 0.991889583 1.118292571 1 13.50449954 -5.766515479 24.79821408 1.049408528 0.974131987 0.391060726 0.05689195 113.9226768 556547.9177 0.008558284 0.015864663 1.71E-06 5.766515479 -0.075276541 NSSSPVS(ph)PASVPGQR ddPTM_HeLa_SAHA_4h_R1 1 NSSSPVSPASVPGQR 15 0 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 NS(0.001)S(0.007)S(0.003)PVS(0.988)PASVPGQR 171.25 7.00E-07 10443000 1050.3 1283.2 993.44 665.41 1082.9 1292.9 1138.2 1052 1223.5 1048.7 TRUE FALSE FALSE 1160.775373 1324.776522 1128.82083 678.2899727 999.9284359 1182.737646 1010.12674 1025.091363 1214.985564 1093.914589 1.061120662 1.211042009 1.031909475 0.620057525 0.914082732 1.081197434 0.923405493 0.937085375 1.110676808 1 10.09528438 -6.485220958 24.96888571 1.047053634 0.899906919 0.358123232 0.121107114 601.2654708 398667.4732 0.018923236 0.028901068 3.27E-07 6.485220958 -0.147146714 NSSSSGTSLLT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 NSSSSGTSLLTPK 13 0 Q9NXV6 Q9NXV6 CDKN2AIP CDKN2A-interacting protein 1 0 NSSSSGTS(0.001)LLT(0.999)PK 158.89 0.00011403 6435700 1407.3 1122.4 1186.9 1115.3 1499.3 1614.5 1409.7 1337.2 1304.7 1447.8 TRUE FALSE FALSE 1555.326271 1158.766496 1348.644551 1136.888244 1384.423958 1476.935517 1251.076846 1302.99636 1295.620486 1510.221743 1.029866162 0.767282355 0.893010948 0.752795574 0.916702441 0.977959378 0.828406061 0.862784797 0.85790083 1 10.56054468 -7.280688895 24.87677637 1.014103472 0.860219194 0.193361228 0.080106678 396.5628512 512489.9232 0.01060326 0.012134875 5.24E-08 7.280688895 -0.153884278 NSSSSTIGS(ph)PSSR ddPTM_HeLa_SAHA_4h_R1 2 NSSSSTIGSPSSR 13 0 Q5THJ4-2;Q5THJ4;H3BLS7;A0A2R8YD87 Q5THJ4-2 VPS13D Vacuolar protein sorting-associated protein 13D 1 0 NSSSSTIGS(0.431)PS(0.431)S(0.137)R;NSSSSTIGS(0.948)PS(0.045)S(0.007)R ; 113.43 0.0019572 2618200 858.76 1027.57 820.87 1490.66 1004.27 1367.8 1190.76 1029.46 1648.95 1249.72 TRUE FALSE FALSE 949.0883169 1060.863942 932.7338887 1519.51388 927.3230496 1251.255745 1056.772551 1003.127904 1637.474823 1303.601545 0.72805093 0.813794634 0.715505357 1.165627553 0.711354672 0.959845245 0.810656105 0.769504998 1.256116049 1 10.34828725 -9.567973112 1.368454598 0.999292838 0.825355367 0.291937092 0.155638886 0.550196889 1.85872966 0.086976424 0.020776266 2.70E-10 9.567973112 -0.173937471 NSSTDQGS(ph)DEEGSLQK ddPTM_HeLa_SAHA_4h_R1 2 NSSTDQGSDEEGSLQK 16 0 Q12789-3;Q12789 Q12789-3 GTF3C1 General transcription factor 3C polypeptide 1 1 0 NSSTDQGS(0.972)DEEGS(0.028)LQK;NSSTDQGS(1)DEEGSLQK ; 283.83 2.47E-72 20776600 3510.3 4205.8 2643.9 2981.74 3856.8 4275.3 3072.7 3363.44 4791.2 4177.9 TRUE FALSE FALSE 3879.52946 4342.07068 3004.196923 3039.455889 3561.292817 3911.020388 2726.951709 3277.408075 4757.857649 4358.029715 0.890202618 0.996338016 0.689347508 0.697438083 0.817179563 0.897428573 0.625730407 0.752038946 1.091745114 1 12.08946032 -7.142417805 0.467209025 0.989817054 0.727101321 0.556376263 0.097910593 0.548850237 0.291007844 0.039233448 0.051341565 7.20E-08 7.142417805 -0.262715732 NSSTPS(ph)T(ph)ANGNDS(ph)KK ddPTM_HeLa_SAHA_4h_R1 1 NSSTPSTANGNDSKK 15 1 O95758-1 O95758-1 PTBP3 Polypyrimidine tract-binding protein 3 3 0 NS(0.305)S(0.346)T(0.383)PS(0.483)T(0.483)ANGNDS(0.999)KK 62.377 0.0079567 0 347.6 398.16 398.05 304.92 513.83 570.8 441.26 467.89 433.7 474.03 TRUE FALSE FALSE 384.1621628 411.0606452 452.294181 310.8221675 474.4604564 522.1646288 391.6082635 455.9220513 430.6818464 494.4677531 0.776920558 0.831319419 0.914709156 0.62859947 0.959537712 1.056013512 0.791979378 0.922046076 0.871000876 1 8.949732628 -3.872513629 18.71133126 0.881213715 10.84129766 0.009439511 0.117119287 2112.557323 309392.9383 0.017266638 1951.50474 0.000134118 3.872513629 9.960083943 NSSYFVEWIPNNVK ddPTM_HeLa_SAHA_4h_R1 2 NSSYFVEWIPNNVK 14 0 P68371;A0A0B4J269;Q13509;Q13509-2;P04350;P07437;Q5JP53;Q5ST81;Q9BVA1;Q13885;K7ESM5;Q9BUF5 P68371;A0A0B4J269;P04350;P07437;Q9BVA1;K7ESM5 TUBB4B;TUBB3;TUBB4A;TUBB;TUBB2B;TUBB2A;TUBB6 Tubulin beta-4B chain;Tubulin beta-3 chain;Tubulin beta-4A chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain;Tubulin beta-6 chain 0 0 ; ; 252.37 4.46E-69 3228880 1380.81 1562.46 1729.54 1886.25 1909.34 1845.29 2379.68 1229.26 1971.79 1881.09 FALSE FALSE TRUE 1526.049931 1613.084729 1965.232704 1922.761096 1763.046782 1688.060911 2111.912143 1197.817309 1958.068153 1962.192996 0.777726724 0.822082605 1.001549138 0.979904169 0.898508345 0.860293006 1.076301948 0.610448265 0.99789784 1 10.93825123 -9.671943803 1.54802373 0.999618794 0.87267092 0.132071807 0.122799259 0.658032149 2.852681488 0.084166574 0.019073173 2.13E-10 9.671943803 -0.126947874 NST(ph)PSEPGSGR ddPTM_HeLa_SAHA_4h_R1 5 NSTPSEPGSGR 11 0 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 1 0 NS(0.089)T(0.835)PS(0.076)EPGSGR;NS(0.001)T(0.546)PS(0.403)EPGS(0.05)GR;NS(0.096)T(0.893)PS(0.011)EPGSGR;NS(0.003)T(0.992)PS(0.005)EPGSGR;NS(0.006)T(0.975)PS(0.019)EPGSGR ;;;; 132.14 0.0021656 264397750 11060.61 13734.97 10026.85 12858.95 14746.77 15027.88 14105.09 13051.22 16297.27 14846.94 TRUE FALSE FALSE 12224.01571 14179.99204 11393.2569 13107.85357 13616.87567 13747.42008 12517.94815 12717.38869 16183.85597 15487.06424 0.789304901 0.915602326 0.735662791 0.846374327 0.879241892 0.887671147 0.808284124 0.821162003 1.044991854 1 13.91877607 -9.386944055 0.98956643 1.004977142 0.833626109 0.665906064 0.052094481 0.305492144 0.509701369 0.038676909 0.008827133 4.10E-10 9.386944055 -0.171351033 NST(ph)PSSSSSLQK ddPTM_HeLa_SAHA_4h_R1 2 NSTPSSSSSLQK 12 0 Q9P0U3;Q9P0U3-2;F8VRZ8 Q9P0U3 SENP1 Sentrin-specific protease 1 1 0 NS(0.01)T(0.682)PS(0.202)S(0.08)S(0.024)S(0.002)SLQK;NS(0.03)T(0.922)PS(0.038)S(0.005)S(0.004)S(0.001)SLQK ; 145.61 0.00084793 8736700 2546.4 2121.4 2008.71 2511.5 2841.9 2427 2522.9 2895.9 2554.9 2592.2 TRUE FALSE FALSE 2814.242035 2190.134752 2282.446538 2560.113714 2624.154236 2220.205946 2239.016652 2821.827071 2537.120243 2703.962428 1.040784445 0.809972331 0.84411178 0.946800772 0.970484726 0.82109349 0.828050208 1.043589601 0.938297151 1 11.40085939 -7.279667051 24.9383983 1.019259325 0.892417294 0.239187368 0.075930947 563.4199822 770847.5358 0.011989216 0.013724206 5.25E-08 7.279667051 -0.126842031 NSTDLDSAPEDPTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 NSTDLDSAPEDPTSPK 16 0 I3L2J0;A0A0A0MQR4;Q96RK0;I3L373;I3L135;I3L1Q4 I3L2J0 CIC Protein capicua homolog 1 0 NSTDLDSAPEDPT(0.289)S(0.711)PK;NSTDLDSAPEDPT(0.091)S(0.909)PK ; 184.48 1.88E-11 12838500 3718.5 4058 2934.6 3291.8 3564.3 3340.9 2402.4 2723.5 5384.7 4487.2 TRUE FALSE FALSE 4109.628891 4189.481863 3334.512005 3355.517549 3291.204104 3056.236525 2132.075629 2653.836814 5347.227434 4680.665152 0.878001044 0.89506122 0.712401314 0.71688904 0.703148804 0.652949191 0.455506976 0.566978566 1.142407598 1 12.19249785 -5.399203961 0.28603838 1.009797048 0.301459154 0.866258292 0.071595462 0.839781905 0.088431748 0.031620679 0.200069329 3.99E-06 5.399203961 -0.708337894 NSTFSEIFK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 NSTFSEIFKK 10 1 P29401;P29401-2;A0A0B4J1R6 P29401 TKT Transketolase 0 1 ; NSTFSEIFK(1)K;NSTFSEIFK(1)K 185.18 1.24E-17 19108000 1337.32 4318.6 2555.06 2134.19 4115.6 3291.5 3718.2 2502.81 2606 1103.72 FALSE TRUE FALSE 1477.985453 4458.525474 2903.250271 2175.500334 3800.263617 3011.045683 3299.81835 2438.791744 2587.864634 1151.306771 1.283745993 3.872578176 2.521699989 1.889592235 3.300826256 2.615328737 2.86615039 2.118281423 2.24776289 1 10.16905658 -7.400340305 7.788202378 1.124718887 2.719713896 0.403362646 0.637867164 0.114150035 6.818252043 0.086488765 0.098640243 3.98E-08 7.400340305 1.59499501 NSTFSEIFKK ddPTM_HeLa_SAHA_4h_R1 1 NSTFSEIFKK 10 1 P29401;P29401-2;A0A0B4J1R6 P29401 TKT Transketolase 0 0 75.739 0.021992 5599900 2946 3420.6 4008.6 3471.9 4802.3 4217.8 4256.7 3047.8 2685.7 3823 FALSE FALSE TRUE 3255.873797 3531.429684 4554.871132 3539.103645 4434.348811 3858.419711 3777.724913 2969.841689 2667.009995 3987.828239 0.816452866 0.885552103 1.142193409 0.887476449 1.111970864 0.967549122 0.947313848 0.744726581 0.668787579 1 11.96138756 -4.260436438 23.51793081 0.941951018 0.744726462 0.161962316 0.13022052 44.06924505 1033003.264 0.015058743 0.122628076 5.49E-05 4.260436438 -0.197224556 NSTGGTSVGWDS(ph)PPAS(ph)PLQR ddPTM_HeLa_SAHA_4h_R1 2 NSTGGTSVGWDSPPASPLQR 20 0 Q13424-2;Q13424 Q13424-2 SNTA1 Alpha-1-syntrophin 2 0 NSTGGTSVGWDS(1)PPAS(1)PLQR;NST(0.001)GGT(0.002)S(0.006)VGWDS(0.992)PPAS(1)PLQR ; 214.42 1.24E-24 9102900 1017.64 985.23 792.64 854.79 1240.34 1454.71 1019.14 1096.31 1231.65 1003.09 TRUE FALSE FALSE 1124.680044 1017.152098 900.6568513 871.3356965 1145.305417 1330.760524 904.463685 1068.267978 1223.078847 1046.338119 1.074872476 0.972106511 0.860770371 0.832747733 1.094584434 1.271826477 0.864408616 1.020958673 1.16891359 1 10.03113341 NSTGGTSVGWDS(ph)PPASPLQR ddPTM_HeLa_SAHA_4h_R1 2 NSTGGTSVGWDSPPASPLQR 20 0 Q13424-2;Q13424 Q13424-2 SNTA1 Alpha-1-syntrophin 1 0 NST(0.004)GGT(0.001)SVGWDS(0.994)PPASPLQR;NSTGGTSVGWDS(1)PPASPLQR ; 212.55 1.30E-25 42739000 3319.9 3323.37 2854.97 2781 3905.8 3775.1 3216.1 3289.7 3164.2 3294.7 TRUE FALSE FALSE 3669.102314 3431.049369 3244.030444 2834.830276 3606.538448 3453.440242 2854.215964 3205.554237 3142.180075 3436.750641 1.067607952 0.998341086 0.943923718 0.824857714 1.049403586 1.004856215 0.830498416 0.9327282 0.91428806 1 11.74682946 -6.846631604 3.468646261 1.031879286 0.929879773 0.087980545 0.075600719 0.210676309 5.035570606 0.011143333 0.015066488 1.42E-07 6.846631604 -0.101999513 NSTLPMEET(ph)SPCSSR ddPTM_HeLa_SAHA_4h_R1 2 NSTLPMEETSPCSSR 15 0 Q9BYW2;C9JG86;H7C3H4;Q9BYW2-3;Q9BYW2-2;H7BZ93;H7BXT4 Q9BYW2 SETD2 Histone-lysine N-methyltransferase SETD2 1 0 NSTLPMEET(0.693)S(0.293)PCS(0.012)S(0.002)R;NSTLPMEET(0.69)S(0.305)PCS(0.004)S(0.001)R ; 154.47 5.38E-05 11435500 2870.5 2520 2268.2 2689.2 2912.8 3240.7 3090.7 2499.87 2587.9 2730.4 TRUE FALSE FALSE 3172.43236 2601.649653 2577.298484 2741.253355 2689.621893 2964.574128 2742.926302 2435.926945 2569.890593 2848.120906 1.11386857 0.913461801 0.904911894 0.962477874 0.944349619 1.040887738 0.96306526 0.855275118 0.902310919 1 11.47579468 -7.252048094 24.89233964 1.053771269 0.944960779 0.032084751 0.070653996 460.9690856 1221835.519 0.010237883 0.012444632 5.60E-08 7.252048094 -0.10881049 NSTLPMEETS(ph)PCSSR ddPTM_HeLa_SAHA_4h_R1 2 NSTLPMEETSPCSSR 15 0 Q9BYW2;C9JG86;H7C3H4;Q9BYW2-3;Q9BYW2-2;H7BZ93;H7BXT4 Q9BYW2 SETD2 Histone-lysine N-methyltransferase SETD2 1 0 NSTLPMEET(0.239)S(0.76)PCS(0.001)SR;NSTLPMEET(0.227)S(0.773)PCSSR ; 190.18 5.53E-09 12197300 3669.2 3614.3 3357.6 3534.2 3969.4 4047.2 4040.4 3591.1 4488.8 3713.8 TRUE FALSE FALSE 4055.143291 3731.405691 3815.156242 3602.609552 3665.26543 3702.355791 3585.763558 3499.244862 4457.562075 3873.920093 1.046780314 0.963211838 0.984830908 0.929964859 0.946138625 0.955712999 0.925616294 0.903282664 1.150659272 1 11.91957848 -6.704514532 1.391119109 1.021335237 0.933190255 0.548456119 0.046248264 0.159497125 0.623266568 0.004479076 0.006822781 1.97E-07 6.704514532 -0.088144982 NSTPSEPGS(ph)GRGPPQEEEEEEDEEEEATKEDAEAPGIR ddPTM_HeLa_SAHA_4h_R1 2 NSTPSEPGSGRGPPQEEEEEEDEEEEATKEDAEAPGIR 38 2 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 1 0 NS(0.007)T(0.023)PS(0.181)EPGS(0.752)GRGPPQEEEEEEDEEEEAT(0.037)KEDAEAPGIR;NST(0.004)PS(0.07)EPGS(0.91)GRGPPQEEEEEEDEEEEAT(0.015)KEDAEAPGIR ; 63.442 8.84E-06 32183000 1520.02 1423.87 1654.11 1725.11 2085.43 2059.38 1928.25 2189.62 1253.2 1650.16 TRUE FALSE FALSE 1679.902678 1470.004322 1879.523497 1758.501999 1925.644804 1883.909238 1711.278235 2133.612691 1244.478879 1721.306473 0.975946296 0.854004993 1.091916823 1.021608892 1.118711185 1.094464738 0.994174054 1.239530975 0.722985069 1 10.74928827 -6.642199128 19.8425321 0.977955487 1.086864326 0.367265241 0.108684376 1.653658409 274.9290816 0.010691881 0.015120599 2.28E-07 6.642199128 0.108908839 NSTPSEPGSGR ddPTM_HeLa_SAHA_4h_R1 2 NSTPSEPGSGR 11 0 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 0 0 ; ; 132.32 0.0010221 1322140 560.51 538.14 413.63 682.34 767.97 918.91 627.33 704.19 709.81 499.83 FALSE FALSE TRUE 619.4670135 555.5760891 469.9973423 695.5476774 709.1283045 840.6136984 556.7411774 686.1778395 704.8703744 521.3801174 1.188129338 1.06558741 0.901448534 1.33405102 1.360098479 1.612285682 1.067822034 1.316079798 1.351931826 1 9.026191757 -6.225189412 20.06456511 1.076205178 1.339512998 0.33284446 0.165600631 41.39152825 22909.86124 0.022143115 0.036716357 5.95E-07 6.225189412 0.26330782 NSTWSGESK ddPTM_HeLa_SAHA_4h_R1 4 NSTWSGESK 9 0 P19338 P19338 NCL Nucleolin 0 0 ;;; ;;; 177.78 8.13E-05 21621400 5482.43 4716.37 6054.58 5679.75 4905.49 4707.9 4951.48 4888.46 3994.1 4455.08 FALSE FALSE TRUE 6059.097142 4869.183483 6879.666632 5789.689774 4529.632416 4306.760434 4394.326439 4763.420272 3966.304733 4647.160301 1.303827875 1.047776097 1.480402264 1.245855404 0.974709741 0.926750995 0.945593901 1.025017422 0.853489976 1 12.1821337 -5.744090039 21.16446281 1.173316231 0.963467919 0.232919913 0.164398017 40.60612098 49532.89842 0.022889202 0.045622513 1.80E-06 5.744090039 -0.209848312 NSVEVALNK ddPTM_HeLa_SAHA_4h_R1 2 NSVEVALNK 9 0 P54577;A0A0C4DGZ5 P54577 YARS "Tyrosine--tRNA ligase, cytoplasmic;Tyrosine--tRNA ligase, cytoplasmic, N-terminally processed;Tyrosine--tRNA ligase" 0 0 ; ; 125.97 0.0030127 2979300 1855.96 1995.33 1778.45 1665.74 1935.86 2034.91 2248.51 1444.82 1895.71 1761.63 FALSE FALSE TRUE 2051.178388 2059.980001 2020.807904 1697.982806 1787.534825 1861.52422 1995.501737 1407.863596 1882.5176 1837.582491 1.116237447 1.121027226 1.099710035 0.924030793 0.972764398 1.013028928 1.085938589 0.766149876 1.024453383 1 10.8435933 -6.26347673 24.98677317 1.06535257 0.96430387 0.330316228 0.084226316 203.6301037 2497390.967 0.013172202 0.020752461 5.45E-07 6.26347673 -0.1010487 NSVLSDPGLDS(ph)PRT(ph)SPVIMAR ddPTM_HeLa_SAHA_4h_R1 1 NSVLSDPGLDSPRTSPVIMAR 21 1 O15085;O15085-2 O15085 ARHGEF11 Rho guanine nucleotide exchange factor 11 2 0 NSVLS(0.001)DPGLDS(0.998)PRT(0.554)S(0.447)PVIMAR 99.859 0.0012881 6197300 803.08 1045.9 901.17 1007.2 946.73 955.66 1003.3 1005.3 1128.2 737.34 TRUE FALSE FALSE 887.5516391 1079.787846 1023.976755 1026.695812 874.1917519 874.2323916 890.4060435 979.5858817 1120.348764 769.1303359 1.153967797 1.403907499 1.331343606 1.334878842 1.136597676 1.136650514 1.157679007 1.273627935 1.456643578 1 9.587084286 -8.119122798 1.19424866 1.032931366 1.243651753 0 0.161229778 0.268485924 0.793779792 0.026503219 0.020705972 7.60E-09 8.119122798 0.210720387 NSVLSDPGLDSPRT(ph)S(ph)PVIMAR ddPTM_HeLa_SAHA_4h_R1 1 NSVLSDPGLDSPRTSPVIMAR 21 1 O15085;O15085-2 O15085 ARHGEF11 Rho guanine nucleotide exchange factor 11 2 0 NSVLSDPGLDS(0.375)PRT(0.824)S(0.801)PVIMAR 102.59 0.0010853 6186700 799.95 767.72 800.17 730.27 759.84 1154.1 893.24 865.55 821.09 856.37 TRUE FALSE FALSE 884.0924113 792.5946317 909.2130005 744.4054318 701.6212234 1055.764187 792.7302843 843.4104843 815.3759678 893.2923017 0.989701142 0.88727355 1.017822496 0.833327938 0.785432968 1.181879868 0.887425407 0.94415958 0.912776217 1 9.802988519 -7.411975481 8.701110445 0.995472398 0.935327388 0.000341563 0.105833948 0.687012811 49.47958375 0.016834584 0.019213019 3.87E-08 7.411975481 -0.060145011 NSYATTENKT(ph)LPR ddPTM_HeLa_SAHA_4h_R1 1 NSYATTENKTLPR 13 1 B4DWA1;I3L4C2;Q9UQB8-3;Q9UQB8-5;Q9UQB8-4;Q9UQB8-2;Q9UQB8;I3L0Y9 B4DWA1 BAIAP2 Brain-specific angiogenesis inhibitor 1-associated protein 2 1 0 NSYATT(0.001)ENKT(0.999)LPR 152.34 0.0071275 10552000 1230.6 1105.2 891.98 1141.6 1320.4 1440.1 1343.2 1685.5 984.12 1126.3 TRUE FALSE FALSE 1360.040154 1141.009205 1013.534389 1163.697319 1219.231237 1317.395378 1192.059601 1642.387351 977.2714288 1174.860305 1.157618611 0.971187128 0.862685023 0.990498457 1.037766986 1.121320869 1.014639439 1.397942669 0.831819259 1 10.19827351 -4.258209254 24.79223402 1.046914784 1.397942815 0.526375272 0.104996264 162.6909102 1248635.753 0.013264536 0.126878413 5.52E-05 4.258209254 0.351028031 NSYLEVLLK ddPTM_HeLa_SAHA_4h_R1 2 NSYLEVLLK 9 0 Q15084-3;Q15084;Q15084-4;Q15084-5;Q15084-2 Q15084-3 PDIA6 Protein disulfide-isomerase A6 0 0 ; ; 116.52 0.0060981 894420 264.5 425.01 683.12 556.03 582.11 609.34 626.04 400.07 422.07 535.13 FALSE FALSE TRUE 292.3213236 438.7806029 776.2120361 566.7927647 537.5088576 557.4208039 555.5963316 389.8367887 419.1327805 558.2020732 0.523683694 0.786060504 1.390557422 1.015389931 0.962928809 0.998600383 0.995331903 0.698379328 0.750862099 1 9.124643672 -6.9552522 24.99970109 0.768745761 1.013851452 0.286993924 0.189329043 158.6004325 88606.4987 0.037412346 0.049169444 1.11E-07 6.9552522 0.245105691 NSYNNSQAPS(ph)PGLGSK ddPTM_HeLa_SAHA_4h_R1 4 NSYNNSQAPSPGLGSK 16 0 Q9UHB7 Q9UHB7 AFF4 AF4/FMR2 family member 4 1 0 NSYNNSQAPS(1)PGLGSK;NSYNNSQAPS(1)PGLGSK;NS(0.002)Y(0.143)NNS(0.007)QAPS(0.847)PGLGSK;NSYNNS(0.002)QAPS(0.989)PGLGS(0.009)K ;;; 265.93 9.22E-59 40982100 8457.5 7509.1 7118.1 8994.4 9530.1 10759.9 9547.7 10115 7194 8131.1 TRUE FALSE FALSE 9347.098654 7752.399767 8088.117599 9168.499618 8799.905797 9843.095986 8473.367668 9856.272946 7143.936368 8481.671514 1.102034975 0.914017921 0.953599486 1.080977918 1.037520232 1.1605137 0.999020966 1.16206728 0.842279303 1 13.05013289 -5.600359451 2.378002853 1.03166368 1.095838791 0.157559913 0.091083135 0.4818113 5.487232021 0.011020125 0.025486501 2.51E-06 5.600359451 0.064175111 NSYVAGQYDDAASYQR ddPTM_HeLa_SAHA_4h_R1 4 NSYVAGQYDDAASYQR 16 0 P11413-3;P11413;P11413-2;E7EM57;E7EUI8;E9PD92 P11413-3 G6PD Glucose-6-phosphate 1-dehydrogenase 0 0 ;;; ;;; 336.06 1.77E-137 61091830 2668.29 2824.3 3253.79 3037.55 3044.43 3664.06 3105.37 3291.95 3203.08 2697.82 FALSE FALSE TRUE 2948.952985 2915.809173 3697.199556 3096.346173 2811.166431 3351.861475 2755.945595 3207.746686 3180.789505 2814.136223 1.047906978 1.036129363 1.313795518 1.100282974 0.998944688 1.191080036 0.979322029 1.139869015 1.130289813 1 11.45847645 -6.967717735 24.99991106 1.023643413 1.116226538 0.073925069 0.095115075 231.1540305 179008.9964 0.013931744 0.018309853 1.08E-07 6.967717735 0.092583125 NT(ph)S(ph)VGPLY(ph)SGCRLT(ph)S(ph)LRSEK ddPTM_HeLa_SAHA_4h_R1 1 NTSVGPLYSGCRLTSLRSEK 20 2 Q8WXI7 Q8WXI7 MUC16 Mucin-16 5 0 NT(0.991)S(0.991)VGPLY(0.799)S(0.293)GCRLT(0.905)S(0.797)LRS(0.224)EK 42.321 0.0087675 0 200.69 214.23 372.81 207.49 115.76 45.358 176.3 254.72 279.81 168.89 TRUE FALSE FALSE 221.799495 221.1711926 423.6146053 211.506269 106.8904938 41.49324322 156.46226 248.2046312 277.8627794 176.1716744 1.25899635 1.255429928 2.404555708 1.200569102 0.606740523 0.235527325 0.888123817 1.408879333 1.577227329 1 7.460838171 -5.808712709 8.254968798 1.248615725 0.753342126 0.266203077 0.473872569 0.333326784 52.18903298 0.073033233 0.133223891 1.55E-06 5.808712709 -0.4952736 NTADHDES(ph)PPRT(ph)PTGNAPSSESDIDISSPNVSHDESIAK ddPTM_HeLa_SAHA_4h_R1 2 NTADHDESPPRTPTGNAPSSESDIDISSPNVSHDESIAK 39 1 O95251-4;O95251 O95251-4 KAT7 Histone acetyltransferase KAT7 2 0 NT(0.065)ADHDES(0.356)PPRT(0.356)PT(0.356)GNAPS(0.356)S(0.154)ES(0.154)DIDIS(0.174)S(0.026)PNVS(0.001)HDESIAK;NT(0.087)ADHDES(0.494)PPRT(0.45)PT(0.45)GNAPS(0.18)S(0.127)ES(0.127)DIDIS(0.039)S(0.044)PNVS(0.003)HDESIAK ; 63.331 9.46E-06 13559800 1340.96 1052.49 640.05 1040.93 1351.16 1538.99 1136.98 1481.42 1801.91 1420.57 TRUE FALSE FALSE 1482.008325 1086.591367 727.2726808 1061.078705 1247.634413 1407.859394 1009.044018 1443.527421 1789.370362 1481.817725 1.000128626 0.733282743 0.490797666 0.716065605 0.841962133 0.950089455 0.680950161 0.97415991 1.207550923 1 10.53315228 -7.266125481 23.43036862 1.000060753 0.763145689 0.449680364 0.145868801 119.7970756 598981.2127 0.022422112 0.026112767 5.42E-08 7.266125481 -0.236915065 NTAELQPESGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 NTAELQPESGKR 12 1 O15355 O15355 PPM1G Protein phosphatase 1G 0 1 ; NTAELQPESGK(1)R;NTAELQPESGK(1)R 186.76 9.71E-17 5004400 1946.16 1590.15 1393.4 1870.94 2081.91 2238.58 2319.5 2449.5 1597.74 1411.16 FALSE TRUE FALSE 2150.866038 1641.671903 1583.285295 1907.154749 1922.394506 2047.84039 2058.503755 2386.845337 1586.621197 1472.002014 1.461184168 1.115264713 1.075599952 1.29561966 1.305972742 1.391194014 1.398438138 1.621495973 1.077866187 1 10.52356393 -11.69457675 0.371247689 2.63E-16 1.355452196 0.385500534 0.149682563 11.86531003 0.528092392 8.92306942 0.051109502 2.02E-12 11.69457675 1.355452196 NTAS(ph)LNSR ddPTM_HeLa_SAHA_4h_R1 1 NTASLNSR 8 0 C9JXI9;C9JSG7;C9JJM9;C9JD81;C9J3W7;C9JBN7;C9JEW7;C9J718;C9JF32;A0A0C4DG23;A0A3B3ITR4;O00522-3;O00522 C9JXI9 KRIT1 Krev interaction trapped protein 1 1 0 NT(0.001)AS(0.814)LNS(0.185)R 92.611 0.016109 14871000 1148.2 1264.1 1307.3 1397.5 1489.1 1983 1888.2 1559.3 1464.7 1869.5 TRUE FALSE FALSE 1268.972944 1305.057669 1485.452036 1424.550633 1375.00548 1814.037244 1675.734767 1519.415364 1454.507033 1950.103294 0.650720886 0.669224894 0.761729925 0.730500091 0.705093665 0.930226234 0.859305644 0.779146094 0.745861534 1 10.92933483 -9.469287567 1.223722956 0.999192654 0.752331842 0 0.110661838 0.305964747 0.823900426 0.062701218 0.015650028 3.39E-10 9.469287567 -0.246860811 NTDEMVELR ddPTM_HeLa_SAHA_4h_R1 2 NTDEMVELR 9 0 P61978;P61978-2;P61978-3;Q5T6W2;S4R457 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 ; ; 126.39 0.015762 7393700 3199.6 3086.2 2890.4 3156.1 3984.2 3288.9 3500 3958 3550.1 3541.5 FALSE FALSE TRUE 3536.148608 3186.194905 3284.288659 3217.190879 3678.931457 3008.667217 3106.170789 3856.760091 3525.394565 3694.191397 0.957218571 0.862487771 0.889041283 0.870878234 0.995869207 0.814431873 0.840825625 1.044006571 0.954307502 1 11.8510429 -7.522241725 2.813290472 0.983367854 0.89872382 0.172413216 0.066914542 0.254962671 4.077909205 0.011646308 0.012614257 3.00E-08 7.522241725 -0.084644034 NTDQASMPDNTAAQK ddPTM_HeLa_SAHA_4h_R1 5 NTDQASMPDNTAAQK 15 0 P35579;P35579-2;A0A494C024;P35749-4;P35749-3;P35749;P35749-2 P35579;P35749-4 MYH9;MYH11 Myosin-9;Myosin-11 0 0 ;;;; ;;;; 255.85 3.65E-43 20931300 4392.61 4220.86 4330.93 4820.59 4610.57 4799.8 4980.49 4935.144 4984.58 4315.2 FALSE FALSE TRUE 4854.644874 4357.618633 4921.126586 4913.89949 4257.309123 4390.830037 4420.072157 4808.910162 4949.891902 4501.24939 1.078510532 0.968090913 1.093280145 1.09167457 0.945806098 0.975469177 0.981965622 1.068350084 1.099670663 1 12.13610978 -5.756968906 24.99985674 1.040285364 0.990871992 0.237147167 0.050618568 153.5651734 858757.5004 0.007346281 0.014298356 1.75E-06 5.756968906 -0.049413372 NTDSWAPPLEIVNHRS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 3 NTDSWAPPLEIVNHRSPSR 19 1 H0YB67;Q9NRR4 H0YB67 DROSHA Ribonuclease 3 1 0 NTDSWAPPLEIVNHRS(0.5)PS(0.5)R;NTDSWAPPLEIVNHRS(0.833)PS(0.167)R;NTDSWAPPLEIVNHRS(0.5)PS(0.5)R ;; 125.08 0.000132 24296600 5845 5264.8 5223.6 6680.2 7076.7 6031.8 7082.4 7005.3 4789.5 5770.8 TRUE FALSE FALSE 6459.803918 5435.382974 5935.445005 6809.504931 6534.484775 5517.856706 6285.469712 6826.11457 4756.16948 6019.60743 1.073127109 0.902946419 0.986018619 1.131220767 1.085533376 0.916647268 1.04416605 1.133980023 0.790112899 1 12.55545369 NTDVAQS(ph)PEAPKQEAPAK ddPTM_HeLa_SAHA_4h_R1 4 NTDVAQSPEAPKQEAPAK 18 1 A0A087WVV2;Q9P2E9-3;Q9P2E9;V9GY78 A0A087WVV2 RRBP1 Ribosome-binding protein 1 1 0 NT(0.012)DVAQS(0.988)PEAPKQEAPAK;NT(0.002)DVAQS(0.998)PEAPKQEAPAK;NT(0.001)DVAQS(0.999)PEAPKQEAPAK;NT(0.002)DVAQS(0.998)PEAPKQEAPAK ;;; 94.671 0.0015425 134822000 22692.1 18042.3 15787.4 18081.4 20682.6 21089.5 22488.8 22937.2 19971.3 19407.5 TRUE FALSE FALSE 25078.95919 18626.88236 17938.82465 18431.39164 19097.90366 19292.55595 19958.30104 22350.49964 19832.3181 20244.2523 1.238818743 0.920107203 0.886119398 0.910450599 0.943374118 0.952989306 0.985874941 1.104041745 0.979651795 1 14.30522474 -7.238135045 24.80505586 1.112775524 0.953372311 0.228390193 0.088123073 601.074407 639782.0819 0.017290226 0.021169052 5.78E-08 7.238135045 -0.159403213 NTEDLQCYVK(ac)PTK ddPTM_HeLa_SAHA_4h_R1 2 NTEDLQCYVKPTK 13 1 Q92613 Q92613 JADE3 Protein Jade-3 0 1 ; NTEDLQCYVK(1)PTK;NTEDLQCYVK(1)PTK 192.65 4.75E-17 2958100 709.84 711.89 981.07 909.75 850.99 792.81 840.65 1179.92 744.44 615.01 FALSE TRUE FALSE 784.5042281 734.9557031 1114.76511 927.3595268 785.78733 725.2581278 746.0578495 1149.739355 739.2593814 641.5260909 1.222871898 1.145636496 1.737676965 1.445552316 1.224871975 1.13052008 1.162942334 1.792194224 1.152344997 1 9.325364131 -7.999900204 0.736912604 1.031079799 1.371294699 0.222507424 0.22475454 0.571287722 0.684387933 0.079577806 0.056738994 1.00E-08 7.999900204 0.3402149 NTEDLTEEWLR ddPTM_HeLa_SAHA_4h_R1 2 NTEDLTEEWLR 11 0 G3V4P8;P60983 G3V4P8 GMFB Glia maturation factor beta 0 0 ; ; 211.37 1.77E-14 10118100 1846.65 1988.16 1656.03 2379.05 2134.41 2011.51 2260.2 2243.53 1951.53 1899.92 FALSE FALSE TRUE 2040.88912 2052.577688 1881.705144 2425.099953 1970.871967 1840.118032 2005.876347 2186.143751 1937.949144 1981.834849 1.029797776 1.035695628 0.949476262 1.223663997 0.994468317 0.928492115 1.012130929 1.103090781 0.977856023 1 10.95262103 -4.258664933 22.91506477 1.018332299 1.10309087 0.103225288 0.076150385 143.5247041 1185178.062 0.009746312 0.088827456 5.51E-05 4.258664933 0.084758571 NTEEEGLK(ac)YK ddPTM_HeLa_SAHA_4h_R1 1 NTEEEGLKYK 10 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 0 1 NTEEEGLK(1)YK 124.1 0.0021933 1301700 203.13 251.62 331.65 314.9 398.76 362.78 379.12 311.85 227.22 235.34 FALSE TRUE FALSE 224.4961454 259.7726531 376.8455348 320.9953449 368.2070949 331.8691031 336.4604198 303.8733286 225.6387575 245.4866591 0.914494279 1.058194584 1.535095782 1.307587736 1.499906741 1.351882437 1.370585355 1.237840499 0.919148757 1 7.939500814 -6.897033625 5.43965087 0.960947069 1.382370438 0.85258829 0.08447738 0.052766214 2.391447805 0.013127902 0.01734927 1.27E-07 6.897033625 0.421423369 NTEESSS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 2 NTEESSSPVR 10 0 Q5T200-2;Q5T200;Q5T9K0 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 NTEES(0.001)S(0.007)S(0.992)PVR;NTEES(0.013)S(0.102)S(0.885)PVR ; 112.84 0.0047829 8680100 2167.9 2994.6 1961.81 2898.7 2858.8 4287.9 3485.9 2386.5 3195.9 4131.3 TRUE FALSE FALSE 2395.929669 3091.627005 2229.15525 2954.80853 2639.759362 3922.546797 3093.657358 2325.456786 3173.659472 4309.420561 0.555974901 0.7174113 0.517274937 0.685662605 0.612555522 0.910226036 0.717882442 0.539621685 0.736446914 1 12.07327818 -9.389325596 1.058346483 1.004411076 0.65599893 0.196317642 0.134127346 0.307938832 0.604495451 0.081453317 0.019821328 4.08E-10 9.389325596 -0.348412146 NTEESSS(ph)PVRK ddPTM_HeLa_SAHA_4h_R1 4 NTEESSSPVRK 11 1 Q5T200-2;Q5T200 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 NTEES(0.184)S(0.184)S(0.632)PVRK;NTEES(0.156)S(0.156)S(0.688)PVRK;NT(0.001)EES(0.191)S(0.133)S(0.675)PVRK;NTEES(0.255)S(0.255)S(0.49)PVRK ;;; 168.76 0.00029061 81627700 8546.5 8434.1 7256.7 10372.5 9788.6 13025.8 12720.8 10531.3 9797.9 12273.9 TRUE FALSE FALSE 9445.460083 8707.370374 8245.605285 10573.27474 9038.599583 11915.92856 11289.4221 10261.9246 9729.715616 12803.0879 0.737748593 0.680099242 0.644032545 0.825837862 0.705970283 0.930707393 0.881773381 0.801519499 0.759950701 1 13.64420419 -9.245492486 1.009659341 0.998238556 0.775672216 0 0.111247721 0.380629131 0.70419433 0.059356095 0.01683599 5.68E-10 9.245492486 -0.222566341 NTENCDFLFS(ph)PPEVTGR ddPTM_HeLa_SAHA_4h_R1 4 NTENCDFLFSPPEVTGR 17 0 A0A494BZT8;Q9Y6A5;E7EMT0;C9JA91;Q8IX09;C9JWI7;F8WC55 A0A494BZT8 TACC3;ERIC-1s Transforming acidic coiled-coil-containing protein 3 1 0 NTENCDFLFS(1)PPEVTGR;NTENCDFLFS(1)PPEVTGR;NTENCDFLFS(1)PPEVTGR;NTENCDFLFS(0.992)PPEVT(0.008)GR ;;; 145.82 0.0001087 21849300 2339.72 2764.26 2504.23 2779.426 3115.53 3956.46 2719.91 2522.92 3620.02 2819.59 TRUE FALSE FALSE 2585.822485 2853.823838 2845.493423 2833.225809 2876.818764 3619.34735 2413.858568 2458.38736 3594.827986 2941.156324 0.879185667 0.970306751 0.967474391 0.963303374 0.97812508 1.230586528 0.820717535 0.835857428 1.222249888 1 11.52216775 -7.053501056 24.94944763 0.941990761 0.97161301 0 0.139373463 1512.638826 705393.9514 0.01871608 0.022922547 8.84E-08 7.053501056 0.02962225 NTETQPTS(ph)PQLGTK ddPTM_HeLa_SAHA_4h_R1 1 NTETQPTSPQLGTK 14 0 O95696-2 O95696-2 BRD1 Bromodomain-containing protein 1 1 0 NTETQPT(0.234)S(0.766)PQLGTK 123.68 0.00076843 7179000 2533.8 2275.5 2350.9 2707.5 2480.9 2976.6 2862.5 3053.5 2344.9 2664.3 TRUE FALSE FALSE 2800.316709 2349.227693 2671.268409 2759.907578 2290.813978 2722.976934 2540.403966 2975.395891 2328.58165 2779.171012 1.007608635 0.845297998 0.961174536 0.99306864 0.824279603 0.979780274 0.914086955 1.070605543 0.837869149 1 11.4404389 NTFTAWS(ph)DEESDYEIDDR ddPTM_HeLa_SAHA_4h_R1 2 NTFTAWSDEESDYEIDDR 18 0 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50 Q6PKG0 LARP1 La-related protein 1 1 0 NTFT(0.014)AWS(0.986)DEESDYEIDDR;NTFTAWS(0.999)DEESDYEIDDR ; 192.6 4.99E-13 7505400 796.19 1305.27 856.46 1075.59 1098.41 1444.02 1139.68 883.31 2162.17 1162.25 TRUE FALSE FALSE 879.9369173 1347.561604 973.1739085 1096.4096 1014.250063 1320.981372 1011.440207 860.7162092 2147.123283 1212.360285 0.725804802 1.111519093 0.802710152 0.904359548 0.836591297 1.089594725 0.834273622 0.709950845 1.771027399 1 10.24360278 -9.758106019 1.712249111 1.000163834 0.858247731 0.119170689 0.277128781 0.608373101 3.224047484 0.095272226 0.020384995 1.75E-10 9.758106019 -0.141916103 NTFTAWS(ph)DEESDYEIDDRDVNK ddPTM_HeLa_SAHA_4h_R1 3 NTFTAWSDEESDYEIDDRDVNK 22 1 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50 Q6PKG0 LARP1 La-related protein 1 1 0 NT(0.006)FT(0.16)AWS(0.828)DEES(0.004)DY(0.001)EIDDRDVNK;NTFT(0.008)AWS(0.991)DEES(0.001)DYEIDDRDVNK;NT(0.036)FT(0.084)AWS(0.439)DEES(0.439)DY(0.002)EIDDRDVNK ;; 121 1.08E-05 41196200 3073.58 3478.35 3216.06 3635.19 3373.6 3819.15 4000.42 4119.97 4016.62 3619.69 TRUE FALSE FALSE 3396.873246 3591.050822 3654.327908 3705.554359 3115.115497 3493.736934 3550.282213 4014.587133 3988.668014 3775.75255 0.899654625 0.951082142 0.967840943 0.981408159 0.825031687 0.925308766 0.940284663 1.063254829 1.056390206 1 11.8825485 NTGIICTIGPAS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 NTGIICTIGPASR 13 0 P14618;B4DNK4;H3BU13;P14618-2;H3BTN5;H3BQ34;H3BUW1;H3BTJ2;H3BT25 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 1 0 NTGIICTIGPAS(1)R;NTGIICTIGPAS(1)R ; 115.26 0.0016157 27135000 1588.56 1134.76 1082.91 1733.38 1817.94 2073.8 2051.89 1727.59 1767.08 1358.15 TRUE FALSE FALSE 1755.652029 1171.526969 1230.483335 1766.932076 1678.64983 1897.100573 1821.005937 1683.400749 1754.782746 1416.706493 1.239248947 0.826936966 0.868552055 1.247211109 1.184895981 1.339092171 1.28537982 1.188249477 1.238635352 1 10.46832518 -6.058909699 24.99890391 1.072514035 1.253089947 0.374299021 0.13411093 270.0323042 114590.4431 0.022466427 0.037256418 8.73E-07 6.058909699 0.180575912 NTGIICTIGPASR ddPTM_HeLa_SAHA_4h_R1 3 NTGIICTIGPASR 13 0 P14618;B4DNK4;H3BU13;P14618-2;H3BTN5;H3BQ34;H3BUW1;H3BTJ2;H3BT25 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;; ;; 168.76 1.84E-06 47037000 2471.06 1924.58 1930.97 2184.85 2107.55 2212.34 2276.32 2513.02 2092.44 2041.77 FALSE FALSE TRUE 2730.977428 1986.937655 2194.112536 2227.140931 1946.069974 2023.836186 2020.182483 2448.740587 2077.87854 2129.800697 1.282269009 0.932921873 1.030196177 1.045703917 0.913733373 0.950246748 0.948531234 1.14975105 0.975621119 1 11.05650272 -7.235357158 24.98353773 1.133293716 0.992371713 0.087130418 0.10357585 817.9284086 783475.0397 0.019888194 0.024354023 5.82E-08 7.235357158 -0.140922002 NTGNGTQSSMGSPLT(ph)RPTPR ddPTM_HeLa_SAHA_4h_R1 1 NTGNGTQSSMGSPLTRPTPR 20 1 E3W994;J3KR49;O75122;A0A0U1RQI6;H7C4I5;E7ERI8;E7EW49;O75122-3 E3W994;E7ERI8 CLASP2 CLIP-associating protein 2 1 0 NTGNGTQSS(0.003)MGS(0.336)PLT(0.499)RPT(0.162)PR 63.447 0.012507 8201900 117.2 301.07 309.1 732.42 454.18 263.38 266.48 435.78 471.63 346.19 TRUE FALSE FALSE 129.5276337 310.8248655 351.2225383 746.5970482 419.3808265 240.9385423 236.4949691 424.6333786 468.3478884 361.1159451 0.358687107 0.860734259 0.97260324 2.067471842 1.161346742 0.667205493 0.654900378 1.175892077 1.296946022 1 8.496318314 -6.799341117 3.56704806 0.695567617 1.124707833 0.013915922 0.437521052 0.323905214 8.596811555 0.073670493 0.10088345 1.59E-07 6.799341117 0.429140215 NTGVSPASRPS(ph)PGTPTS(ph)PSNLTSGLK ddPTM_HeLa_SAHA_4h_R1 1 NTGVSPASRPSPGTPTSPSNLTSGLK 26 1 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 2 0 NT(0.001)GVS(0.008)PAS(0.03)RPS(0.931)PGT(0.022)PT(0.033)S(0.808)PS(0.144)NLT(0.017)S(0.007)GLK 64.508 0.0079593 2880900 715.1 674.9 523.96 612.73 654.42 762.61 619.53 668.32 675.26 689.74 TRUE FALSE FALSE 790.317499 696.7672028 595.3625401 624.5902752 604.278481 697.6313377 549.8188539 651.2253421 670.5608107 719.4780669 1.098459474 0.968434251 0.827492272 0.868115797 0.839884506 0.969635309 0.764191265 0.905135781 0.93201008 1 9.490806897 -6.960325598 4.290846674 1.046253979 0.862737868 0.496930651 0.06550559 0.087175596 3.571285496 0.009458012 0.012385338 1.10E-07 6.960325598 -0.183516111 NTISLLVAGLKK ddPTM_HeLa_SAHA_4h_R1 2 NTISLLVAGLKK 12 1 Q14204 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 ; ; 85.672 0.01475 0 69.222 76.477 131.35 211.41 205.82 118.73 167.39 0 135.4 69.308 FALSE FALSE TRUE 76.50308756 78.95490498 149.249694 215.5021463 190.0501161 108.613536 148.5548367 0 134.4577404 72.29620707 1.058189505 1.092103005 2.064419421 2.9808223 2.628770219 1.502340724 2.054808166 0 1.859817352 1 6.175848055 -6.778295628 10.27635219 1.032804981 1.948261066 0.099920222 0.789799658 0.318641111 185.3525439 0.118401022 0.157628974 1.67E-07 6.778295628 0.915456084 NTLFNLSNFLDK ddPTM_HeLa_SAHA_4h_R1 1 NTLFNLSNFLDK 12 0 E5RFU0;E5RIJ5;E9PDG8;E5RHK9;E9PLJ8;E5RGY9;E5RK51;E5RFC6;E9PKP6;E9PI56;Q13492-4;O60641-3;Q13492-3;Q13492-2;Q13492-5;Q13492;O60641-4;O60641 E5RFU0 SNAP91;PICALM Phosphatidylinositol-binding clathrin assembly protein;Clathrin coat assembly protein AP180 0 0 162.64 5.98E-07 4721200 506.14 924.47 685.1 505 610.69 334.9 524.04 378.15 398.49 547.17 FALSE FALSE TRUE 559.3781275 954.4234346 778.4618602 514.7750052 563.8990641 306.3646359 465.07364 368.4774706 395.7168756 570.7611765 0.980056371 1.672194035 1.363901212 0.901909637 0.987977262 0.536765023 0.814830544 0.645589584 0.693314283 1 9.156743395 -5.480848137 2.662613477 1.073015566 0.681494835 0.35083787 0.260666993 0.26083089 3.652006319 0.037609929 0.09068553 3.30E-06 5.480848137 -0.39152073 VIKPGGPYVGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 VIKPGGPYVGKR 12 2 O00472 O00472 ELL2 RNA polymerase II elongation factor ELL2 0 1 ; VIKPGGPYVGK(1)R;VIKPGGPYVGK(1)R 106.16 0.0036433 14271600 2527.1 2880.3 2665.9 4305.1 5178.7 6101.9 6232.2 6121.5 2231.5 1724.75 FALSE TRUE FALSE 2792.911973 2973.62361 3029.194969 4388.431436 4781.909125 5581.983792 5530.936454 5964.920894 2215.97081 1799.112413 1.552383249 1.652828132 1.683716341 2.439220253 2.657926814 3.102632026 3.074258403 3.315479817 1.231702251 1 10.81306962 -5.873327928 0.439560326 1.104603026 3.691126637 0.971855331 0.134680355 0.195163706 0.060443867 0.048565127 0.21611566 1.34E-06 5.873327928 2.586523611 up NTLQPEEALSTSDPRVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 NTLQPEEALSTSDPRVSPR 19 1 Q9BXL7 Q9BXL7 CARD11 Caspase recruitment domain-containing protein 11 1 0 NTLQPEEALS(0.305)T(0.102)S(0.034)DPRVS(0.559)PR 118.02 0.0018846 3767000 610.84 855.79 665.59 502.98 763.91 901.05 682.87 695.59 623.24 615.2 TRUE FALSE FALSE 675.0909538 883.5181575 756.293139 512.7159052 705.3793808 824.2754708 606.0316704 677.797815 618.9028221 641.7242827 1.051995338 1.376787791 1.178532836 0.798966034 1.099193844 1.284469815 0.944380144 1.056213444 0.964437281 1 9.325809765 -7.507985234 17.62443227 1.022935423 1.105354528 0.081094373 0.15404574 9.639455386 11410.98266 0.027334734 0.029321007 3.10E-08 7.507985234 0.082419105 NTPSQHS(ph)HSIQHS(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 NTPSQHSHSIQHSPER 16 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 2 0 NT(0.006)PS(0.031)QHS(0.962)HS(0.13)IQHS(0.871)PER 73.383 0.0097051 811090 206.15 254.09 305.66 281.92 330.12 374.16 257.21 304.92 290.85 267.86 TRUE FALSE FALSE 227.8338029 262.3226827 347.313753 287.3769693 304.8262769 342.279463 228.2680539 297.1205879 288.8259512 279.4087555 0.815413971 0.938849186 1.24303103 1.028518125 1.090968951 1.225013377 0.816968149 1.063390399 1.033704011 1 8.126233419 -6.972690269 24.95076329 0.910955256 1.072792509 0.193965411 0.123329564 210.6155131 192422.4075 0.020127839 0.026452837 1.06E-07 6.972690269 0.161837253 NTPSQHSHS(ph)IQHSPER ddPTM_HeLa_SAHA_4h_R1 1 NTPSQHSHSIQHSPER 16 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 NTPSQHS(0.014)HS(0.805)IQHS(0.181)PER 87.496 0.0038388 19425000 604.71 499.41 289.33 675.04 849.08 1649.2 728.15 671.17 562.45 758.71 TRUE FALSE FALSE 668.3161723 515.5912117 328.7583856 688.1063753 784.0236738 1508.678882 646.2166456 654.0024432 558.5358647 791.4217011 0.844450148 0.651474695 0.415402288 0.869456036 0.990652231 1.906289504 0.816526315 0.826364051 0.705737363 1 9.628302815 -5.515063081 24.78345889 0.85872171 1.196750592 0.226668253 0.326859031 431.790207 1369203.704 0.047773799 0.099111574 3.05E-06 5.515063081 0.338028883 NTPSQHSHSIQHS(ph)PER ddPTM_HeLa_SAHA_4h_R1 7 NTPSQHSHSIQHSPER 16 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 NTPSQHSHS(0.002)IQHS(0.998)PER;NTPSQHSHSIQHS(1)PER;NTPSQHS(0.016)HS(0.005)IQHS(0.979)PER;NTPS(0.001)QHS(0.312)HS(0.197)IQHS(0.49)PER;NTPSQHSHSIQHS(0.999)PER;NTPSQHSHS(0.081)IQHS(0.918)PER;NTPSQHS(0.002)HS(0.002)IQHS(0.996)PER ;;;;;; 107.92 0.0010333 28940600 1541.24 1992.22 793.95 1879.24 2854.89 5008.79 2112.32 2548.82 1777.92 2506.733 TRUE FALSE FALSE 1703.354695 2056.769235 902.1453713 1915.615408 2636.148945 4582.012913 1874.636194 2483.624875 1765.54731 2614.810527 0.651425668 0.786584425 0.345013668 0.732601995 1.008160598 1.752330758 0.716930032 0.949829767 0.675210418 1 11.3524907 -5.606987644 5.496732047 0.781443568 1.140625213 0.300430842 0.293432232 0.236009218 11.77341606 0.04476131 0.090835416 2.47E-06 5.606987644 0.359181644 NTS(ph)PSLGESR ddPTM_HeLa_SAHA_4h_R1 2 NTSPSLGESR 10 0 C9J052;Q9NSU2-2;Q9NSU2;Q9NSU2-1 C9J052 TREX1 Three-prime repair exonuclease 1 1 0 NT(0.084)S(0.874)PS(0.043)LGESR;NT(0.008)S(0.99)PS(0.002)LGESR ; 140.63 0.0011062 32145000 4892.1 4818.6 3984.8 3830.5 5387.7 5640.4 5727.5 5230.1 4121 5049.6 TRUE FALSE FALSE 5406.673524 4974.725802 4527.827792 3904.644866 4974.89559 5159.806188 5083.026626 5096.321615 4092.321625 5267.312968 1.026457618 0.944452291 0.85960865 0.741297297 0.944484526 0.979589825 0.965013216 0.967537271 0.776927752 1 12.36285147 -7.101292414 4.274478658 1.012254312 0.908717405 0 0.099622946 0.212044776 6.673273638 0.012035529 0.014931116 7.92E-08 7.101292414 -0.103536907 NTSAEKELSSPIS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 NTSAEKELSSPISPK 15 1 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 NTSAEKELSS(0.002)PIS(0.998)PK;NTSAEKELS(0.002)S(0.01)PIS(0.989)PK;NTSAEKELS(0.001)S(0.007)PIS(0.992)PK ;; 95.429 0.0036007 18084700 5092 4024 5518.6 5271.9 4920.3 5143.5 6283.7 7342.9 3147.28 4641.6 TRUE FALSE FALSE 5627.599923 4154.38024 6270.646068 5373.945248 4543.307677 4705.244863 5576.641538 7155.07925 3125.377822 4841.722091 1.162313701 0.858037732 1.295127219 1.109924351 0.938366059 0.971812255 1.151788854 1.477796353 0.645509545 1 12.24130456 -4.297119663 3.347197983 1.064936847 1.517095589 0.361410129 0.176888004 0.169817657 3.163372441 0.016339049 0.186007957 5.05E-05 4.297119663 0.452158742 NTSLPPLWS(ph)PEAER ddPTM_HeLa_SAHA_4h_R1 4 NTSLPPLWSPEAER 14 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 NTSLPPLWS(1)PEAER;NTSLPPLWS(1)PEAER;NTSLPPLWS(1)PEAER;NTSLPPLWS(1)PEAER ;;; 179.66 6.90E-07 117134600 8861.89 8982.9 8616.14 9780.59 10441.36 11039.43 10101.57 10230.24 10813.85 10019.25 TRUE FALSE FALSE 9794.02425 9273.951854 9790.302688 9969.907462 9641.345253 10098.80846 8964.914758 9968.565274 10738.59554 10451.2289 0.937116998 0.887355156 0.936760909 0.953945948 0.922508285 0.966279521 0.857785706 0.953817524 1.027495966 1 13.35138497 -8.813165823 0.680851148 1.001296623 0.925111771 0.514779818 0.03267352 0.505238321 0.439056548 0.020429925 0.006712574 1.54E-09 8.813165823 -0.076184852 NTSNIPVILEPETEES(ph)ENEFYIK ddPTM_HeLa_SAHA_4h_R1 1 NTSNIPVILEPETEESENEFYIK 23 0 Q6P0N0 Q6P0N0 MIS18BP1 Mis18-binding protein 1 1 0 NTSNIPVILEPET(0.031)EES(0.969)ENEFYIK 112.99 5.95E-07 0 937.6 770.43 668.17 868.52 827.54 856.06 870.44 736.6 706.17 717.46 TRUE FALSE FALSE 1036.22107 795.3924375 759.2247279 885.3314605 764.134064 783.1188719 772.4958003 717.7588386 701.2557055 748.3932118 1.384594427 1.062800176 1.014473028 1.182976337 1.021032863 1.046400287 1.032205782 0.959066474 0.937015054 1 9.547652663 -5.95922104 0.938661592 1.172283197 1.005031895 0 0.129596322 0.816154019 1.396592309 0.027326253 0.075222082 1.10E-06 5.95922104 -0.167251302 NTSSDNSDVEVMPAQS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 NTSSDNSDVEVMPAQSPR 18 0 Q9HCK8-2;Q9HCK8;A0A2R8Y840;A0A2R8YFT4;A0A2R8Y4P3 Q9HCK8-2 CHD8 Chromodomain-helicase-DNA-binding protein 8 1 0 NTSSDNS(0.001)DVEVMPAQS(0.999)PR 52.172 0.019292 21643000 3485.9 3696.6 3075.4 4701.4 5112.7 6367.1 4819.1 4445.7 5437.1 5832.2 TRUE FALSE FALSE 3852.562956 3816.372265 3494.499496 4792.402395 4720.966031 5824.58726 4276.842185 4331.985431 5399.262778 6083.654684 0.633264568 0.627315728 0.57440793 0.787750562 0.776008218 0.957415824 0.703005415 0.712069579 0.887503164 1 12.57072255 -9.380418656 1.117709303 0.999185655 0.718004822 0.400914449 0.105891422 0.347209564 0.779373986 0.075230061 0.019579116 4.16E-10 9.380418656 -0.281180832 PEPSK(ac)SAPAPK(ac)K(ac)GSK ddPTM_HeLa_SAHA_4h_R1 2 PEPSKSAPAPKKGSK 15 3 P33778;U3KQK0;Q99877 P33778;U3KQK0 HIST1H2BB;HIST1H2BN Histone H2B type 1-B;Histone H2B;Histone H2B type 1-N 0 3 ; PEPSK(1)SAPAPK(1)K(1)GSK;PEPSK(1)SAPAPK(1)K(1)GSK 240.46 7.61E-69 22859400 748.26 947.54 1639.27 6521.9 9276.4 11699.9 13002 13489 544.45 698.34 FALSE TRUE FALSE 826.9654199 978.2409177 1862.661179 6648.140805 8565.644236 10703.0027 11538.98074 13143.97091 540.6611281 728.448855 1.135241567 1.342909541 2.557023964 9.12643456 11.75874487 14.69286776 15.84048168 18.04378004 0.742208769 1 9.508683873 -5.871548909 1.037682548 0.937342663 16.9361933 0.986513649 0.773705789 0.038330563 0.080575603 0.12889104 0.357906966 1.34E-06 5.871548909 15.99885064 up NVAEALGHS(ph)PKDPGGGGGPVR ddPTM_HeLa_SAHA_4h_R1 1 NVAEALGHSPKDPGGGGGPVR 21 1 Q8IU81 Q8IU81 IRF2BP1 Interferon regulatory factor 2-binding protein 1 1 0 NVAEALGHS(1)PKDPGGGGGPVR 47.729 0.015454 15683000 6881.6 5604.7 6247.8 6769.5 6917.3 7071.2 6624.3 6510.1 6564.2 6882.5 TRUE FALSE FALSE 7605.438262 5786.295957 7099.217647 6900.533461 6387.297968 6468.693979 5878.91633 6343.581069 6518.519198 7179.238257 1.05936563 0.80597631 0.988853886 0.961179057 0.889690207 0.901027901 0.818877452 0.883600856 0.907968083 1 12.80961506 -6.39248761 0.585386439 1.026873164 0.85512136 0.074277015 0.073405709 0.545468907 0.369193677 0.016668799 0.040542588 4.05E-07 6.39248761 -0.171751803 NVCSEAAQK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 NVCSEAAQKR 10 1 C9J6A7;Q96AT9-5;Q96AT9-3;Q96AT9-4;Q96AT9-2;Q96AT9 C9J6A7 RPE Ribulose-phosphate 3-epimerase 0 1 ; NVCSEAAQK(1)R;NVCSEAAQK(1)R 93.096 0.0028343 347940 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 NVDLLSDMVQEHDEPILK ddPTM_HeLa_SAHA_4h_R1 4 NVDLLSDMVQEHDEPILK 18 0 P55209;F8W118;P55209-2;F8W0J6;H0YIV4;B7Z9C2;H0YHC3;F8VV59;F5H4R6;F8VY35;F8W020;H0YH88;F8VXI6;F8VUX1;F8W543;P55209-3 P55209 NAP1L1 Nucleosome assembly protein 1-like 1 0 0 ;;; ;;; 169.58 8.96E-07 14843500 7886.6 7637.8 7870.94 8121.3 9110 8555.9 9101.7 8380.2 8383.9 8041.4 FALSE FALSE TRUE 8716.148773 7885.269731 8943.550713 8278.499505 8411.993768 7826.889186 8077.552762 8165.846618 8325.555757 8388.104108 1.039108321 0.94005387 1.066218373 0.986933328 1.002848041 0.933093949 0.962977171 0.973503251 0.992543208 1 13.03412905 -5.480113762 2.866568676 1.014325621 0.957426723 0.25636731 0.033660447 0.214352498 3.48980121 0.004691371 0.011128725 3.31E-06 5.480113762 -0.056898899 NVDNAEGS(ph)DTDY ddPTM_HeLa_SAHA_4h_R1 1 NVDNAEGSDTDY 12 0 Q15751 Q15751 HERC1 Probable E3 ubiquitin-protein ligase HERC1 1 0 NVDNAEGS(0.7)DT(0.299)DY(0.001) 100.02 0.0065365 4791700 2220.1 2474.7 2120.7 2429.1 2814 2889.7 2350.4 2035.2 1871.2 2385.1 TRUE FALSE FALSE 2453.620304 2554.881904 2409.697952 2476.118743 2598.391928 2643.481303 2085.926806 1983.142531 1858.178167 2487.933333 0.98620822 1.02690931 0.968554068 0.995251243 1.044397731 1.062520956 0.838417484 0.797104369 0.746876189 1 11.28073211 -4.669860183 5.926703125 1.001280548 0.809301223 0.342370752 0.085308374 0.049100433 2.533950306 0.004068993 0.015685891 2.14E-05 4.669860183 -0.191979326 NVFEVGPGDS(ph)PTFPR ddPTM_HeLa_SAHA_4h_R1 3 NVFEVGPGDSPTFPR 15 0 Q16584-2;Q16584 Q16584-2 MAP3K11 Mitogen-activated protein kinase kinase kinase 11 1 0 NVFEVGPGDS(0.873)PT(0.127)FPR;NVFEVGPGDS(0.881)PT(0.119)FPR;NVFEVGPGDS(0.762)PT(0.238)FPR ;; 147.49 8.18E-05 18526600 4219.7 4761.96 4861.59 5313.19 5273.7 5624.9 5090.6 5660.64 5342.28 4809.36 TRUE FALSE FALSE 4663.547407 4916.250628 5524.102167 5416.034475 4869.630245 5145.626875 4517.79229 5515.849025 5305.102639 5016.715046 0.929601814 0.979974063 1.101139315 1.07959779 0.970681053 1.025696462 0.900547918 1.099494186 1.057485344 1 12.29252728 -6.979662815 24.96245111 0.966126482 1.024546121 0.018797468 0.066045929 319.845788 392586.9134 0.009853965 0.012949993 1.05E-07 6.979662815 0.058419639 NVFEVGPGDSPT(ph)FPR ddPTM_HeLa_SAHA_4h_R1 1 NVFEVGPGDSPTFPR 15 0 Q16584-2;Q16584 Q16584-2 MAP3K11 Mitogen-activated protein kinase kinase kinase 11 1 0 NVFEVGPGDS(0.339)PT(0.661)FPR 109.1 0.0040171 4916700 2054.5 1733.5 1786.9 1973.8 1884 1998.2 1557.2 1793.4 1593.5 1896.1 TRUE FALSE FALSE 2270.601736 1789.666537 2030.409426 2012.005753 1739.648327 1827.942118 1381.979758 1747.527425 1582.410704 1977.85015 1.148015049 0.904854464 1.026573942 1.017269055 0.879565283 0.924206578 0.698728242 0.883548951 0.800066023 1 10.94971741 -5.588806401 0.846270125 1.060915311 0.786944291 0.109030729 0.113693437 0.377659427 0.475308088 0.014835405 0.063122718 2.58E-06 5.588806401 -0.27397102 APSK(ac)RPPISDSEELSAK ddPTM_HeLa_SAHA_4h_R1 2 APSKRPPISDSEELSAK 17 2 P42568-2;P42568 P42568-2 MLLT3 Protein AF-9 0 1 ; APSK(1)RPPISDSEELSAK;APSK(1)RPPISDSEELSAK 108.34 0.0015829 7680400 1404.42 1538.56 1983.83 2571.3 3512.8 4665.1 4353.2 4541.6 1460.52 1302.71 FALSE TRUE FALSE 1552.143339 1588.410353 2254.176021 2621.07123 3243.650023 4267.607235 3863.366479 4425.432448 1450.356122 1358.876203 1.142225712 1.168914688 1.658853114 1.928852108 2.387009217 3.140541592 2.843059927 3.256685515 1.067320274 1 10.40819831 -5.868985795 0.822178674 1.047196433 3.221551309 0.975637865 0.131906063 0.061236797 0.07755766 0.022451198 0.073271959 1.35E-06 5.868985795 2.174354876 up NVFIIGATNRPDIIDPAILRPGR ddPTM_HeLa_SAHA_4h_R1 1 NVFIIGATNRPDIIDPAILRPGR 23 2 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 60.669 0.007056 2840000 897.67 1129.1 1244.2 1357 1402.6 1122.5 1443.7 513.79 1183.4 1323 FALSE FALSE TRUE 992.0910493 1165.683581 1413.753096 1383.266697 1295.133091 1026.856685 1281.251076 500.6479958 1175.164623 1380.041005 0.718885197 0.844673149 1.024428326 1.002337389 0.938474355 0.744076938 0.928415223 0.362777623 0.851543265 1 10.43049542 -4.258336978 24.88572726 0.882352334 0.36277742 0.713124465 0.10094799 146.9217918 1178460.724 0.017570369 0.166736758 5.52E-05 4.258336978 -0.519574914 NVFLLGFIPAK ddPTM_HeLa_SAHA_4h_R1 1 NVFLLGFIPAK 11 0 Q92900-2;Q92900 Q92900-2 UPF1 Regulator of nonsense transcripts 1 0 0 128.36 0.00024482 0 0 219.56 77.571 260.72 238.54 0 209.84 162.59 69.058 198 FALSE FALSE TRUE 0 226.6738881 88.14197191 265.7666126 220.2631167 0 186.2282509 158.4311832 68.57741976 206.536749 0 1.097499061 0.426761689 1.286776392 1.066459687 0 0.901671261 0.767084715 0.332034953 1 7.690254692 NVFS(ph)SSGTS(ph)FSGRK ddPTM_HeLa_SAHA_4h_R1 1 NVFSSSGTSFSGRK 14 1 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 2 0 NVFS(0.999)S(0.001)S(0.083)GT(0.044)S(0.872)FS(0.001)GRK 87.083 0.021108 11165000 459.44 624.41 268.58 451.19 690.76 547.45 673.22 433.88 836.18 445.37 TRUE FALSE FALSE 507.7660072 644.6412937 305.1806837 459.9234349 637.834118 500.8041801 597.4675138 422.7819779 830.3609553 464.5720803 1.092975727 1.387602314 0.656907069 0.989993705 1.372949743 1.077990265 1.28605988 0.910046031 1.787367323 1 8.859758644 -13.52287858 0.180980642 0.549953093 1.126585971 0 0.325795573 175.4600882 2.020036489 27.70898943 0.278978438 3.00E-14 13.52287858 0.576632877 NVFSSSGTSFS(ph)GR ddPTM_HeLa_SAHA_4h_R1 1 NVFSSSGTSFSGR 13 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 NVFSS(0.002)S(0.002)GT(0.005)S(0.015)FS(0.976)GR 99.834 0.0055884 8725200 676.46 748.76 737.46 840.55 1141.3 1060.6 880.13 1088.2 1016.2 785.7 TRUE FALSE FALSE 747.6131665 773.0203153 837.9572083 856.8200607 1053.853841 970.2309132 781.095456 1060.36542 1009.128181 819.5753721 0.912195744 0.943196125 1.022428488 1.045443885 1.285853475 1.18382146 0.95304896 1.29379854 1.231281729 1 9.678732822 -6.148996105 2.447391128 0.958517517 1.162291794 0.171574172 0.127146565 0.181143623 2.118124797 0.014229094 0.025318679 7.10E-07 6.148996105 0.203774276 NVGESVAAALS(ph)PLGIEVDIDVEHGGKR ddPTM_HeLa_SAHA_4h_R1 1 NVGESVAAALSPLGIEVDIDVEHGGKR 27 1 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 1 0 NVGESVAAALS(1)PLGIEVDIDVEHGGKR 126.96 1.20E-08 15686000 4823 4156.7 4611 5556.3 7162.9 5667.1 6299.9 3964.9 5791.1 5007.6 TRUE FALSE FALSE 5330.305269 4291.379807 5239.363067 5663.850221 6614.080149 5184.231198 5591.018672 3863.483599 5750.799264 5223.502143 1.020446651 0.821552225 1.003036454 1.084301311 1.266215648 0.992481874 1.070358261 0.73963473 1.100947048 1 12.35080168 -4.255123842 24.48263658 1.02082441 0.73963456 0.405051845 0.106949678 433.6348554 1680953.645 0.014407199 0.179131478 5.56E-05 4.255123842 -0.28118985 NVGMPVAHMES(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 NVGMPVAHMESPER 14 0 Q9UPS8 Q9UPS8 ANKRD26 Ankyrin repeat domain-containing protein 26 1 0 NVGMPVAHMES(1)PER 89.049 0.0075619 3796500 2333.5 2640.4 2233.3 2637.3 2784.6 2641.7 2725.2 2351.7 2756.6 2586.7 TRUE FALSE FALSE 2578.948236 2725.950692 2537.642493 2688.348755 2571.24455 2416.612298 2418.553324 2291.546919 2737.416596 2698.225296 0.955794255 1.010275419 0.940485769 0.996339616 0.952939161 0.895630288 0.896349659 0.849279311 1.014524844 1 11.3977951 -5.118926062 1.277369925 0.979856876 0.859981869 0.792400753 0.024342044 0.176520209 0.498108987 0.003550699 0.018180157 7.60E-06 5.118926062 -0.119875007 NVHS(ph)EDFENR ddPTM_HeLa_SAHA_4h_R1 3 NVHSEDFENR 10 0 Q9H2P0;A0A669KBJ7 Q9H2P0 ADNP Activity-dependent neuroprotector homeobox protein 1 0 NVHS(1)EDFENR;NVHS(1)EDFENR;NVHS(1)EDFENR ;; 131.32 0.0012003 69087000 6074.2 6460.1 5876.8 6027 6521.4 1105.41 7110.3 6352.4 6597.5 6388.6 TRUE FALSE FALSE 6713.112225 6669.411479 6677.659699 6143.6613 6021.731741 1011.222849 6310.230331 6189.914806 6551.58746 6664.043811 1.007363159 1.000805467 1.002043187 0.921911901 0.903615269 0.151743127 0.94690709 0.928852658 0.983124908 1 12.70218217 -5.506769639 24.95724797 0.994703911 0.673731183 0.31499819 0.204424979 582.2166242 902006.061 0.027750599 0.060446397 3.11E-06 5.506769639 -0.320972728 NVIFQPVAELK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 NVIFQPVAELKK 12 1 Q01813;Q01813-2;B1APP6;H0Y757 Q01813 PFKP "ATP-dependent 6-phosphofructokinase, platelet type" 0 1 ; NVIFQPVAELK(1)K;NVIFQPVAELK(1)K 192.3 2.28E-17 1819450 926.9 1835.72 1357.99 1095.11 1793.13 1793 1972.65 1584.52 1272.87 658.03 FALSE TRUE FALSE 1024.395595 1895.198532 1543.049805 1116.307438 1655.740767 1640.226313 1750.68223 1543.990273 1264.011994 686.4008936 1.492415882 2.761066528 2.248030006 1.626319907 2.412206601 2.389603988 2.550524404 2.24940015 1.841506918 1 9.422907621 -7.461594384 3.668883828 1.202981094 2.304227439 0.544371294 0.3518772 0.090207886 2.297627129 0.056915617 0.063275218 3.45E-08 7.461594384 1.101246346 NVIGLQMGTNR ddPTM_HeLa_SAHA_4h_R1 3 NVIGLQMGTNR 11 0 P37802;P37802-2;X6RJP6 P37802 TAGLN2 Transgelin-2 0 0 ;; ;; 148.91 5.08E-05 14644400 3773.49 3865.17 5236.4 4953.18 5086 3178.03 5105.89 2353.41 1553.75 2556.72 FALSE FALSE TRUE 4170.402992 3990.404044 5949.989322 5049.055961 4696.311779 2907.243965 4531.361819 2293.21318 1542.937327 2666.952711 1.563733385 1.49624102 2.231006683 1.893192909 1.760928028 1.090099555 1.699078427 0.859862708 0.57853944 1 11.38097653 -8.91874698 0.832540536 1.012973884 1.596094194 0.353941596 0.394523104 0.63590936 0.833914231 0.215504997 0.075212908 1.21E-09 8.91874698 0.58312031 NVK(ac)LPDAYER ddPTM_HeLa_SAHA_4h_R1 1 NVKLPDAYER 10 1 P11413-3;P11413;P11413-2 P11413-3 G6PD Glucose-6-phosphate 1-dehydrogenase 0 1 NVK(1)LPDAYER 117.67 0.0045595 2878800 358.95 600.9 519.3 555.21 773.46 591.92 735 601.17 318.15 314.86 FALSE TRUE FALSE 396.7060079 620.3695543 590.0674996 565.9568924 714.1976619 541.4850859 652.2958656 585.7929419 315.9359682 328.4351555 1.207867067 1.888864648 1.796602738 1.723192183 2.174546939 1.648681869 1.986071998 1.783587817 0.961943212 1 8.35946475 -7.332651526 3.222425993 1.086231236 1.862849269 0.860259658 0.148140223 0.061718652 1.219871485 0.025062906 0.028848966 4.65E-08 7.332651526 0.776618033 NVMILTNPVAAK ddPTM_HeLa_SAHA_4h_R1 1 NVMILTNPVAAK 12 0 F8W7T0;Q9UGI8-2;Q9UGI8 F8W7T0 TES Testin 0 0 146.16 0.00013682 0 265.19 359.65 304.52 285.44 335.63 364.96 372.74 371.79 271.13 247.46 FALSE FALSE TRUE 293.0839009 371.302896 346.0183997 290.965104 309.9141019 333.8633548 330.7983142 362.2801501 269.2431843 258.1292116 1.135415473 1.438438113 1.340485246 1.127207192 1.200616156 1.293396252 1.281522196 1.403483735 1.04305585 1 8.011949606 -7.609078612 2.472472116 1.049863253 1.288099076 0.596356362 0.089964871 0.145532228 1.855228703 0.018575687 0.019429328 2.46E-08 7.609078612 0.238235823 QGVGK(ac)YINPAATK ddPTM_HeLa_SAHA_4h_R1 2 QGVGKYINPAATK 13 1 Q13356 Q13356 PPIL2 Peptidyl-prolyl cis-trans isomerase-like 2 0 1 ; QGVGK(1)YINPAATK;QGVGK(1)YINPAATK 205.02 4.59E-24 12251600 1949.39 2149.45 1888.68 3273 3850.5 4612 4745.7 4716.4 2885.1 1644.97 FALSE TRUE FALSE 2154.435784 2219.09359 2146.059475 3336.353648 3555.475522 4219.031654 4211.701346 4595.761317 2865.022354 1715.892707 1.255577214 1.293258944 1.250695609 1.944383605 2.07208499 2.458796891 2.454524883 2.67835005 1.669697844 1 10.74474363 -5.863836334 0.770407434 1.098249351 2.67364337 0.866807782 0.20773896 0.086835213 0.09496527 0.021537362 0.073965191 1.37E-06 5.863836334 1.57539402 NVNIFK ddPTM_HeLa_SAHA_4h_R1 1 NVNIFK 6 0 P00338-3;P00338;P00338-2;P00338-5;F5GXY2;F5GYU2 P00338-3 LDHA L-lactate dehydrogenase A chain 0 0 106.29 0.021628 5204700 3796.6 3322.5 3374.1 3769.5 4050.8 4638.4 3831 3568.2 4428.3 3685.5 FALSE FALSE TRUE 4195.943807 3430.15118 3833.904776 3842.464123 3740.428579 4243.182225 3399.925797 3476.930611 4397.4831 3844.399941 1.091443105 0.892246185 0.997270012 0.999496458 0.972955113 1.103730697 0.884384 0.904414386 1.143867227 1 11.90854272 -2.526193923 0.540766104 1.029348225 9.60E-17 0.240556068 0.075300958 20.46866008 0.928519621 0.013104913 20.15795611 0.002977187 2.526193923 -1.029348225 NVNLVLLCSEKPSK ddPTM_HeLa_SAHA_4h_R1 1 NVNLVLLCSEKPSK 14 1 Q96KR1;H0Y8W1 Q96KR1 ZFR Zinc finger RNA-binding protein 0 0 111.88 0.0018702 1053700 130.19 255.79 211.83 231.78 273.61 335.37 270.1 216.92 299.23 63.059 FALSE FALSE TRUE 143.8839815 264.0777638 240.6970892 236.2664371 252.6460609 306.7945893 239.7076371 211.3715005 297.1476341 65.77778209 2.187425251 4.014695471 3.659246049 3.591888166 3.840902701 4.664106625 3.644203704 3.213417871 4.517446843 1 6.039528459 -7.602936404 0.973410274 1.278252313 3.887416801 0 1.114829386 0.122132118 0.239392046 0.115771756 0.114795283 2.49E-08 7.602936404 2.609164487 NVPEK(ac)HTR ddPTM_HeLa_SAHA_4h_R1 2 NVPEKHTR 8 1 Q9UHB7;Q9UHB7-2 Q9UHB7 AFF4 AF4/FMR2 family member 4 0 1 ; NVPEK(1)HTR;NVPEK(1)HTR 109.44 0.0068224 1510460 1227.33 1223.54 1350.57 1798.58 2073.7 2198.8 2447 2219.8 894.18 1065.69 FALSE TRUE FALSE 1356.426201 1263.183499 1534.618646 1833.394117 1914.813554 2011.44987 2171.65712 2163.02073 887.9573286 1111.637111 1.220205935 1.136327211 1.380503251 1.649273939 1.722516759 1.80944829 1.953566589 1.945797516 0.798783452 1 10.11847019 -6.079190114 0.581192309 1.061666365 2.026654457 0.930301246 0.103057653 0.127998167 0.078965862 0.017518223 0.057532059 8.33E-07 6.079190114 0.964988092 NVPHEDICEDS(ph)DIDGDYR ddPTM_HeLa_SAHA_4h_R1 3 NVPHEDICEDSDIDGDYR 18 0 O00629 O00629 KPNA4 Importin subunit alpha-3 1 0 NVPHEDICEDS(1)DIDGDYR;NVPHEDICEDS(1)DIDGDYR;NVPHEDICEDS(1)DIDGDYR ;; 145.44 0.00010168 20226800 3950.5 5756.3 4403.5 4596.8 6448.1 6153.3 4920.6 4598.4 7165.4 4784.9 TRUE FALSE FALSE 4366.031716 5942.807897 5003.586048 4685.777711 5954.047971 5629.004222 4366.921138 4480.779586 7115.535398 4991.200456 0.874745816 1.190657027 1.002481486 0.938807758 1.192909005 1.127785644 0.874924014 0.897735851 1.425616034 1 12.28517113 NVPHEDICEDSDIDGDYR ddPTM_HeLa_SAHA_4h_R1 2 NVPHEDICEDSDIDGDYR 18 0 O00629 O00629 KPNA4 Importin subunit alpha-3 0 0 ; ; 180.1 3.03E-09 19301700 3394 3994.8 3292.4 4228.7 4108.9 4233.8 4224.2 4039.5 4865.3 4110.7 FALSE FALSE TRUE 3750.996492 4124.234141 3741.071126 4310.552603 3794.07697 3873.056421 3748.881899 3936.175439 4831.441981 4287.932394 0.874779765 0.9618235 0.872465044 1.005275318 0.884826677 0.903245682 0.874286615 0.917965835 1.126753301 1 12.06606644 -9.464181026 1.128587593 1.001408981 0.90908505 0.450187559 0.057998538 0.391966146 0.870854935 0.0291349 0.006753046 3.43E-10 9.464181026 -0.092323931 NVPNWHR ddPTM_HeLa_SAHA_4h_R1 8 NVPNWHR 7 0 F5H018;B5MDF5;J3KQE5;P62826;B4DV51 F5H018 RAN GTP-binding nuclear protein Ran 0 0 ;;;;;;; ;;;;;;; 122.79 0.002146 6908200 9341.34 9123.8 8944.14 9479.44 10080.78 11242.32 11266.21 7730.11 8851.85 10394.19 FALSE FALSE TRUE 10323.905 9419.417106 10163.00082 9662.928269 9308.392814 10284.41109 9998.5064 7532.384979 8790.249255 10842.3344 0.952184707 0.868762829 0.937344344 0.891222122 0.858522941 0.948542141 0.922172849 0.694719855 0.810734011 1 13.40438779 -1 0.164933769 1.012877967 0.192261733 0.035087325 0.081303624 36.7585907 0.379047587 0.092711708 7.421961013 0.1 1 -0.820616233 NVPQEES(ph)LEDSDVDADFK ddPTM_HeLa_SAHA_4h_R1 1 NVPQEESLEDSDVDADFK 18 0 O00505 O00505 KPNA3 Importin subunit alpha-4 1 0 NVPQEES(0.534)LEDS(0.466)DVDADFK 186.74 1.06E-12 13133000 7166 8764.1 6377.2 7300.5 9008.7 9986.4 8841 7969 10883 8355.6 TRUE FALSE FALSE 7919.752759 9048.06259 7246.251605 7441.811734 8318.455352 9135.502538 7846.187412 7765.164519 10807.26432 8715.850807 0.908660891 1.038115818 0.831387751 0.853825048 0.954405432 1.048148109 0.900220482 0.890924442 1.239955175 1 13.08942579 -9.448926613 0.873539597 1.006020916 0.927879708 0.219775472 0.101576958 1.243446361 1.471505796 0.069360169 0.012688238 3.56E-10 9.448926613 -0.078141208 NVPQEESLEDS(ph)DVDADFK ddPTM_HeLa_SAHA_4h_R1 2 NVPQEESLEDSDVDADFK 18 0 O00505 O00505 KPNA3 Importin subunit alpha-4 1 0 NVPQEESLEDS(1)DVDADFK;NVPQEES(0.007)LEDS(0.993)DVDADFK ; 231.39 7.56E-29 17153300 6970.8 9235.8 6941.2 7714.8 8681.4 10245.5 8801.6 7649.9 10724.2 7740.5 TRUE FALSE FALSE 7704.020727 9535.04598 7887.110588 7864.13111 8016.233008 9372.52576 7811.220803 7454.226635 10649.56942 8074.230836 0.954149179 1.180923134 0.976825006 0.973978979 0.992816922 1.160794873 0.967425995 0.92321198 1.31895776 1 12.97910912 NVQGIIEILK ddPTM_HeLa_SAHA_4h_R1 1 NVQGIIEILK 10 0 B8ZZ38;A0A0C4DG06;P42704 B8ZZ38 LRPPRC "Leucine-rich PPR motif-containing protein, mitochondrial" 0 0 129.85 6.20E-06 0 0 0 0 0 0 0 140.29 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 124.5042 0 0 0 0 NVQQTVSAK(ac)GPPEKR ddPTM_HeLa_SAHA_4h_R1 1 NVQQTVSAKGPPEKR 15 2 G3V4A5;A0A087WYL7;O75586;O75586-2 G3V4A5 MED6 Mediator of RNA polymerase II transcription subunit 6 0 1 NVQQTVSAK(1)GPPEKR 188.9 4.55E-17 7777500 1108.7 1103.2 998.09 1334.9 1478 1846.1 1632.9 1592.8 1131.4 1161.7 FALSE TRUE FALSE 1225.318153 1138.944404 1134.104507 1360.73892 1364.755959 1688.801894 1449.161794 1552.058482 1123.526495 1211.786572 1.011166637 0.939888616 0.935894598 1.122919622 1.126234595 1.393646318 1.195888639 1.280801849 0.927165328 1 10.24291991 -5.727121414 1.914507488 0.996135618 1.277891153 0.806864649 0.066535239 0.099023262 0.737359386 0.008930908 0.020457919 1.87E-06 5.727121414 0.281755535 NVS(ph)PEFVPCEGEGGFGLHK ddPTM_HeLa_SAHA_4h_R1 3 NVSPEFVPCEGEGGFGLHK 19 0 O94986-3;O94986 O94986-3 CEP152 Centrosomal protein of 152 kDa 1 0 NVS(1)PEFVPCEGEGGFGLHK;NVS(1)PEFVPCEGEGGFGLHK;NVS(1)PEFVPCEGEGGFGLHK ;; 133.78 5.45E-05 54245700 6781.83 6683.69 6673.03 7466.13 6985.5 7582.4 7721.54 7714.14 7555.09 6487.97 TRUE FALSE FALSE 7495.173996 6900.245941 7582.395777 7610.647742 6450.272499 6936.336863 6852.691997 7516.823469 7502.513514 6767.698138 1.107492362 1.01958536 1.120380316 1.124554847 0.953096957 1.024918181 1.012558754 1.110691304 1.108576854 1 12.72444951 -4.235187676 22.51492952 1.049044692 1.110691617 0.084446776 0.056695043 4368.204081 3746183.887 0.008203143 0.706844374 5.82E-05 4.235187676 0.061646925 NVS(ph)PSQR ddPTM_HeLa_SAHA_4h_R1 1 NVSPSQR 7 0 Q14094-2;D6REZ3 Q14094-2 CCNI Cyclin-I 1 0 NVS(1)PSQR 99.139 0.014262 35762000 586.59 438.48 536.88 538.79 591.63 492.68 370.6 517.34 557.2 644.53 TRUE FALSE FALSE 648.2902276 452.6870397 610.0432104 549.2190596 546.2994372 450.7008923 328.8991126 504.1071919 553.3223998 672.3188426 0.96426009 0.673321958 0.907371878 0.816902673 0.812560057 0.670367783 0.489201093 0.749803754 0.823005938 1 9.393001773 -5.913704311 0.366011824 1.012869761 0.535473525 0.370886353 0.115099845 0.946094174 0.205365456 0.041563399 0.176181924 1.22E-06 5.913704311 -0.477396236 NVS(ph)SYEK ddPTM_HeLa_SAHA_4h_R1 1 NVSSYEK 7 0 A0A0U1RR22;Q9UNF0 A0A0U1RR22 PACSIN2 Protein kinase C and casein kinase substrate in neurons protein 2 1 0 NVS(0.761)S(0.239)YEK 114.86 0.0056886 9320100 4616.9 4574 4266.7 5083.7 5188.7 6130.6 5393.9 5677.9 5838.4 4012.7 TRUE FALSE FALSE 5102.526725 4722.200601 4848.143656 5182.102365 4791.142927 5608.23839 4786.964176 5532.66754 5797.770099 4185.707135 1.219035771 1.128172719 1.158261555 1.238047049 1.14464361 1.339854464 1.143645272 1.321799964 1.385135155 1 12.03125566 -13.52287874 0.193707579 0.020813363 1.255860518 0 0.13816454 24.04172881 0.287199656 8.882008001 0.068212115 3.00E-14 13.52287874 1.235047155 NVSIGIVGK ddPTM_HeLa_SAHA_4h_R1 2 NVSIGIVGK 9 0 P25786;P25786-2;F5GX11 P25786 PSMA1 Proteasome subunit alpha type-1 0 0 ; ; 118.71 0.0053819 14818600 7837.9 8693.2 7966.8 9617.7 9987 9993.2 10316 7954 9206.1 9236.5 FALSE FALSE TRUE 8662.326284 8974.865384 9052.474015 9803.864491 9221.798218 9141.72314 9155.21653 7750.548197 9142.034001 9634.730717 0.899073003 0.931511803 0.939566894 1.017554593 0.957141252 0.948830165 0.95023066 0.804438487 0.94886243 1 13.23402863 NVSS(ph)FPDDATSPLQENR ddPTM_HeLa_SAHA_4h_R1 4 NVSSFPDDATSPLQENR 17 0 P52292;J3QLL0;J3KS65 P52292 KPNA2 Importin subunit alpha-1 1 0 NVS(0.027)S(0.943)FPDDAT(0.03)SPLQENR;NVS(0.006)S(0.994)FPDDATSPLQENR;NVS(0.004)S(0.996)FPDDATSPLQENR;NVS(0.003)S(0.997)FPDDATSPLQENR ;;; 273.77 1.81E-59 32956700 4163.74 3808.39 3832.34 4252.54 4827.43 5116.74 5138.32 4883.49 3652.9 3719.57 TRUE FALSE FALSE 4601.701277 3931.784335 4354.591337 4334.854061 4457.553356 4680.764966 4560.14271 4758.577397 3627.479171 3879.938866 1.186024171 1.013362445 1.122335039 1.117248032 1.14887206 1.206401732 1.175313031 1.226456798 0.934932043 1 11.92181821 -13.52287875 0.204166499 0.278728201 1.182980043 0.633705406 0.056324267 31.38973001 0.384853936 9.098584497 0.056203057 3.00E-14 13.52287875 0.904251842 NVSS(ph)YEK ddPTM_HeLa_SAHA_4h_R1 1 NVSSYEK 7 0 A0A0U1RR22;Q9UNF0 A0A0U1RR22 PACSIN2 Protein kinase C and casein kinase substrate in neurons protein 2 1 0 NVS(0.007)S(0.993)YEK 120.27 0.0037675 8522600 3603.1 4406.9 3245.2 3963.2 5108.7 5134.2 4462.5 4359.5 4132.7 4242.9 TRUE FALSE FALSE 3982.09059 4549.686451 3687.438956 4039.913467 4717.27251 4696.737276 3960.367755 4247.990302 4103.940204 4425.832183 0.899738269 1.027984402 0.83316285 0.912803129 1.065849837 1.061209978 0.894830077 0.959817301 0.927269728 1 12.11173303 -5.804803476 24.9998408 0.945380996 0.992940853 0.151775874 0.068243237 267.632864 154292.2284 0.010851681 0.019670427 1.57E-06 5.804803476 0.047559857 NVSSFPDDAT(ph)SPLQENR ddPTM_HeLa_SAHA_4h_R1 4 NVSSFPDDATSPLQENR 17 0 P52292;J3QLL0;J3KS65 P52292 KPNA2 Importin subunit alpha-1 1 0 NVSSFPDDAT(0.5)S(0.5)PLQENR;NVSSFPDDAT(0.5)S(0.5)PLQENR;NVSSFPDDAT(0.771)S(0.229)PLQENR;NVSSFPDDAT(0.968)S(0.032)PLQENR ;;; 263.47 1.62E-47 563806000 7243.98 7644.24 6048.7 7211.49 7883.53 9306.2 7805.21 6947.31 8389.43 7159.14 TRUE FALSE FALSE 8005.935053 7891.918392 6872.985336 7351.078817 7279.495635 8513.259405 6926.947229 6769.60787 8331.047274 7467.805561 1.072059923 1.056792163 0.920348726 0.984369338 0.974783767 1.139994786 0.927574663 0.906505641 1.115595098 1 12.86646865 -6.794142051 24.99918252 1.036686382 0.981247799 0.242953034 0.068305234 290.4110103 222000.4267 0.010773368 0.014159516 1.61E-07 6.794142051 -0.055438583 NVSSFPDDATS(ph)PLQENR ddPTM_HeLa_SAHA_4h_R1 3 NVSSFPDDATSPLQENR 17 0 P52292;J3QLL0;J3KS65 P52292 KPNA2 Importin subunit alpha-1 1 0 NVSSFPDDAT(0.02)S(0.98)PLQENR;NVSSFPDDAT(0.031)S(0.969)PLQENR;NVSSFPDDAT(0.002)S(0.998)PLQENR ;; 240.66 1.80E-36 33388400 2015.21 2214.68 2005.64 1630.02 2423.81 2654.49 2068.9 2148.56 2019.69 2254.45 TRUE FALSE FALSE 2227.179034 2286.437085 2278.958174 1661.571394 2238.098201 2428.312518 1836.101927 2093.602946 2005.634813 2351.650373 0.947070644 0.97226914 0.969088858 0.706555453 0.951713838 1.032599296 0.780771644 0.890269647 0.852862669 1 11.19945787 -6.471611341 24.99013874 0.973939176 0.876322926 0.115790357 0.091823222 379.5492466 185010.0827 0.01259854 0.01924444 3.38E-07 6.471611341 -0.09761625 NVSTGS(ph)AENEEK ddPTM_HeLa_SAHA_4h_R1 2 NVSTGSAENEEK 12 0 O60271-3;O60271;A0A087X2D8;O60271-5;O60271-9;O60271-4;O60271-2 O60271-3 SPAG9 C-Jun-amino-terminal kinase-interacting protein 4 1 0 NVSTGS(1)AENEEK;NVS(0.026)T(0.108)GS(0.866)AENEEK ; 186.05 9.54E-07 23159000 2681.15 3439.5 2218.62 3010.1 3205.7 4256 3120.3 2564.66 4026.7 3184.67 TRUE FALSE FALSE 2963.165659 3550.942057 2520.96198 3068.364838 2960.079959 3893.364856 2769.195632 2499.059711 3998.677867 3321.976709 0.891988692 1.068924429 0.758874068 0.923656337 0.891059817 1.172002454 0.83359875 0.752280925 1.203704366 1 11.69782624 NVT(ph)LILVGNKADLDHS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 NVTLILVGNKADLDHSR 17 1 Q96A58-2;Q96A58 Q96A58-2 RERG Ras-related and estrogen-regulated growth inhibitor 2 0 NVT(1)LILVGNKADLDHS(1)R 103.44 0.014042 4046400 709.56 856.87 635.14 750.99 711.48 387.05 465.29 460.15 403.13 670.23 TRUE FALSE FALSE 784.1947764 884.6331502 721.6935715 765.5264974 656.9665561 354.0711625 412.9343446 448.3800293 400.3245855 699.1268953 1.121677312 1.265339892 1.032278369 1.094975036 0.939695727 0.506447635 0.590642911 0.641342841 0.572606473 1 9.449410526 -5.404175745 3.656061503 1.075197192 0.581322015 0.535223632 0.176314591 0.06017904 1.44435103 0.012579707 0.029639755 3.94E-06 5.404175745 -0.493875177 NVT(ph)PNSYAEPLAAPGGGER ddPTM_HeLa_SAHA_4h_R1 2 NVTPNSYAEPLAAPGGGER 19 0 Q9NYD6 Q9NYD6 HOXC10 Homeobox protein Hox-C10 1 0 NVT(0.994)PNS(0.006)YAEPLAAPGGGER;NVT(0.951)PNS(0.049)YAEPLAAPGGGER ; 161.55 7.16E-06 17698300 3507.5 3878.4 3422.2 3489.9 3001.6 3102.5 3165.2 3334.6 3558.7 3902.6 TRUE FALSE FALSE 3876.434943 4004.062705 3888.559594 3557.452061 2771.618056 2838.149546 2809.043366 3249.30576 3533.934717 4070.860185 0.952239764 0.983591311 0.955218165 0.873882153 0.680843343 0.697186692 0.690036807 0.798186529 0.868105156 1 11.99111796 -5.971985036 2.769027043 0.975789952 0.712905141 0.835748256 0.048465659 0.050560822 0.787826187 0.005466881 0.010302657 1.07E-06 5.971985036 -0.262884811 NVTDSS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 NVTDSSR 7 0 Q9NU02 Q9NU02 ANKEF1 Ankyrin repeat and EF-hand domain-containing protein 1 1 0 NVTDSS(1)R;NVTDSS(1)R ; 128.57 0.0017248 11967400 1271.05 1465.23 1331.7 1152.2 1616.87 1926.88 1607.16 1739.41 1842.62 1397.12 TRUE FALSE FALSE 1404.744871 1512.704413 1513.177141 1174.502497 1492.98577 1762.698984 1426.318127 1694.918411 1829.797057 1457.356681 0.963899154 1.037978165 1.038302538 0.805912865 1.024447748 1.209517894 0.978702157 1.16300864 1.255558836 1 10.5091383 -5.513149296 24.93429927 0.978068138 1.105529502 0.071757987 0.120308062 364.7568214 934785.0625 0.010991458 0.023067396 3.07E-06 5.513149296 0.127461364 NVTELNEPLSNEER ddPTM_HeLa_SAHA_4h_R1 5 NVTELNEPLSNEER 14 0 P61981 P61981 YWHAG "14-3-3 protein gamma;14-3-3 protein gamma, N-terminally processed" 0 0 ;;;; ;;;; 341.72 1.45E-181 60190300 4208.91 3774.13 3554.93 4188.64 4085.2 4168.21 4292.51 4510.36 4852.58 3758.81 FALSE FALSE TRUE 4651.622465 3896.414288 4039.377347 4269.717184 3772.192859 3813.055058 3809.505478 4394.991522 4818.810501 3920.870694 1.186374871 0.993762506 1.030224576 1.088971689 0.962080403 0.972502119 0.971596815 1.120922332 1.229015409 1 11.93695835 NVTLPAVFK ddPTM_HeLa_SAHA_4h_R1 1 NVTLPAVFK 9 0 P36578;H3BTP7;H3BU31 P36578 RPL4 60S ribosomal protein L4 0 0 128.36 0.0024757 1076800 376.75 486.41 646.78 445.58 739.8 433.69 502.38 399.98 385.83 481.2 FALSE FALSE TRUE 416.3782936 502.1700031 734.9198101 454.2048452 683.1166838 396.7371721 445.8508802 389.7490908 383.1449776 501.9468869 0.829526598 1.000444502 1.464138596 0.904886268 1.360934198 0.790396718 0.888243142 0.776474764 0.763317768 1 8.971390905 -2.900562147 9.347971318 0.967141824 0.688969542 0 0.232903986 0 0 0.02929515 0 0.001257297 2.900562147 -0.278172282 NVVTIFSAPNYCYR ddPTM_HeLa_SAHA_4h_R1 1 NVVTIFSAPNYCYR 14 0 H0YC23;P67775-2;P67775;P62714 H0YC23 PPP2CB;PPP2CA Serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform;Serine/threonine-protein phosphatase 2A catalytic subunit beta isoform 0 0 144.57 0.00026774 505850 0 0 144.38 149.36 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 164.0553545 152.2510788 0 0 0 0 0 0 0 NVY(ph)MLAT(ph)T(ph)VS(ph)SKILK ddPTM_HeLa_SAHA_4h_R1 1 NVYMLATTVSSKILK 15 1 Q6PCE3 Q6PCE3 PGM2L1 "Glucose 1,6-bisphosphate synthase" 4 0 NVY(0.932)MLAT(0.73)T(0.73)VS(0.982)S(0.627)KILK 43.03 0.021426 1627800 351.04 325.59 409.86 414.91 522.24 557.67 352.59 529.59 297.48 383.51 TRUE FALSE FALSE 387.9639978 336.1393296 465.7135863 422.941183 482.226084 510.1533786 312.9156452 516.0438546 295.4098125 400.044993 0.969800909 0.84025381 1.164153019 1.057234037 1.20542962 1.275240005 0.782201129 1.289964538 0.738441469 1 8.644018458 -6.736321037 24.99899075 0.974429409 1.120126012 0.300685562 0.159573786 262.3237061 261076.6574 0.020580126 0.029097983 1.84E-07 6.736321037 0.145696602 NVYATTVGT(ph)PYK ddPTM_HeLa_SAHA_4h_R1 1 NVYATTVGTPYK 12 0 Q13439-3;Q13439-4;Q13439;Q13439-5;H0Y6I0 Q13439-3 GOLGA4 Golgin subfamily A member 4 1 0 NVYAT(0.006)T(0.003)VGT(0.988)PY(0.003)K 94.551 0.017094 1854200 808.31 962.82 708.85 1002.2 820.99 1098.1 1205.1 993.83 1295.6 1057.3 TRUE FALSE FALSE 893.3317545 994.0159997 805.4483865 1021.59903 758.0859236 1004.535702 1069.498976 968.4092676 1286.583814 1102.885377 0.809995103 0.90128677 0.730310151 0.92629665 0.687366012 0.910825116 0.969728132 0.878068825 1.166561676 1 10.10706714 -9.367050099 1.015446832 1.002707822 0.84921548 0.409436571 0.099984975 0.533782309 0.956819385 0.06064415 0.014628371 4.29E-10 9.367050099 -0.153492342 NVYSS(ph)SR ddPTM_HeLa_SAHA_4h_R1 2 NVYSSSR 7 0 O75494-2;O75494;Q5JRI1;O75494-5;O75494-4;O75494-6;O75494-3 O75494-2 SRSF10 Serine/arginine-rich splicing factor 10 1 0 NVYS(0.267)S(0.724)S(0.009)R;NVYS(0.249)S(0.743)S(0.008)R ; 90.601 0.019628 38249000 2787 3510.5 2492.1 3146.9 3582.7 5194.3 2935.5 2985.9 3605.6 3685.4 TRUE FALSE FALSE 3080.149447 3624.242503 2831.71041 3207.8128 3308.1943 4751.716418 2605.189814 2909.525002 3580.508336 3844.29563 0.801225958 0.942758532 0.736600585 0.834434474 0.860546279 1.236043446 0.677676762 0.756842158 0.931382152 1 11.90850357 -9.454458765 1.138206253 1.001550638 0.855108082 0.076158826 0.146722342 0.888978287 2.024583837 0.104641388 0.024837846 3.51E-10 9.454458765 -0.146442555 NVYSS(ph)SRYDDYDR ddPTM_HeLa_SAHA_4h_R1 1 NVYSSSRYDDYDR 13 1 O75494-2;O75494;Q5JRI1;O75494-5;O75494-4;O75494-6;O75494-3 O75494-2 SRSF10 Serine/arginine-rich splicing factor 10 1 0 NVYS(0.079)S(0.901)S(0.02)RYDDYDR 207.64 1.25E-10 8862400 940.42 793.39 826.93 915.51 914.31 779.36 1050.6 932.15 646.88 884.5 TRUE FALSE FALSE 1039.33769 819.0963566 939.6197139 933.2310199 844.2557653 712.9541434 932.383723 908.3069527 642.3783094 922.6351236 1.12648832 0.887779292 1.018408784 1.011484384 0.915048369 0.772736833 1.01056604 0.984470382 0.696243068 1 9.849616405 -7.258111661 24.95969848 1.059730595 0.943451026 0 0.13770662 271.9355662 2039666.029 0.014209783 0.017026147 5.52E-08 7.258111661 -0.116279569 NWTEDMEGGIS(ph)SPVK ddPTM_HeLa_SAHA_4h_R1 5 NWTEDMEGGISSPVK 15 0 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 1 0 NWTEDMEGGIS(0.851)S(0.149)PVK;NWTEDMEGGIS(0.888)S(0.112)PVK;NWTEDMEGGIS(0.818)S(0.182)PVK;NWTEDMEGGIS(0.782)S(0.218)PVK;NWTEDMEGGIS(0.5)S(0.5)PVK ;;;; 249.36 4.47E-34 60536000 8617.96 8566.89 6728.3 8230.8 8463.78 9630.89 9001.46 9038.85 10045.58 7991.24 TRUE FALSE FALSE 9524.436573 8844.462857 7645.197685 8390.119036 7815.287005 8810.28399 7988.59203 8807.649305 9975.671991 8335.781465 1.142596722 1.06102384 0.917154284 1.006518594 0.937559008 1.05692358 0.958349504 1.056607511 1.196729069 1 13.02510174 -6.952740887 20.04268839 1.069151692 0.989035122 0.367204876 0.066851261 17.44558434 7398.093343 0.010473295 0.01376465 1.11E-07 6.952740887 -0.08011657 NWTEDMEGGIS(ph)SPVKK ddPTM_HeLa_SAHA_4h_R1 2 NWTEDMEGGISSPVKK 16 1 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 1 0 NWTEDMEGGIS(0.579)S(0.42)PVKK;NWTEDMEGGIS(0.5)S(0.5)PVKK ; 103.6 0.013677 50695000 4089.5 4392.4 3549.8 4035.2 4651.5 4015.4 3923.3 4193 4326.9 4039 TRUE FALSE FALSE 4519.652373 4534.716642 4033.548257 4113.307131 4295.103075 3673.26533 3481.839958 4085.749131 4296.788751 4213.141056 1.072751259 1.076326803 0.957373182 0.976304158 1.019453899 0.871859091 0.82642378 0.969763195 1.019853998 1 12.0406805 -5.553219341 1.178360239 1.033833162 0.881574298 0.52964666 0.05192698 0.281386709 0.743632272 0.008693004 0.029355427 2.80E-06 5.553219341 -0.152258864 NWTEDMEGGISS(ph)PVK ddPTM_HeLa_SAHA_4h_R1 1 NWTEDMEGGISSPVK 15 0 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 1 0 NWTEDMEGGIS(0.213)S(0.787)PVK 145.7 0.00016787 6399200 1633.8 1700.7 1255.5 1722 1558.1 2153.4 1780.1 1687.8 1839 1720.9 TRUE FALSE FALSE 1805.65058 1755.803796 1426.593002 1755.3318 1438.718715 1969.918205 1579.798463 1644.62852 1826.202249 1795.096421 1.005879439 0.978111134 0.794716643 0.977848198 0.801471552 1.09738852 0.880063291 0.916178374 1.017328221 1 10.80984562 -6.982936163 24.95919711 1.002208987 0.91385829 0.228609816 0.081239149 256.6140542 375347.0293 0.011885238 0.015618203 1.04E-07 6.982936163 -0.088350698 NWTEDMEGGISS(ph)PVKK ddPTM_HeLa_SAHA_4h_R1 4 NWTEDMEGGISSPVKK 16 1 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 1 0 NWTEDMEGGIS(0.057)S(0.943)PVKK;NWTEDMEGGIS(0.03)S(0.97)PVKK;NWTEDMEGGIS(0.068)S(0.932)PVKK;NWTEDMEGGIS(0.134)S(0.866)PVKK ;;; 203.05 8.02E-15 179916600 11838.5 11910.4 10414.8 11809.9 12273.2 13611.5 13137 11672.4 13394.5 11858.5 TRUE FALSE FALSE 13083.72775 12296.30477 11834.07471 12038.49769 11332.83007 12451.72362 11658.79019 11373.83691 13301.28658 12369.77797 1.057717267 0.994060266 0.956692572 0.973218575 0.916170856 1.006624667 0.942522187 0.919485939 1.075305201 1 13.59453198 -6.923073801 3.345257943 1.027295073 0.953615043 0.617054384 0.031544856 0.136555516 3.087447963 0.00514984 0.006836083 1.19E-07 6.923073801 -0.07368003 NY(ph)FS(ph)VTIIANIY(ph)KGLTLSPR ddPTM_HeLa_SAHA_4h_R1 1 NYFSVTIIANIYKGLTLSPR 20 1 D6RF27 D6RF27 THAP6 3 0 NY(0.889)FS(0.556)VT(0.556)IIANIY(0.978)KGLT(0.019)LS(0.002)PR 46.494 0.008265 0 1019.8 1182.5 838.15 911.86 873.22 1180.5 993.49 1044.4 919.68 1114.2 TRUE FALSE FALSE 1127.067243 1220.813776 952.3687171 929.5103689 806.3140722 1079.914759 881.6998905 1017.68576 913.279872 1162.238615 0.969738252 1.050398567 0.819426153 0.799758636 0.693759493 0.929167853 0.758622093 0.875625493 0.785793778 1 10.18269058 -6.746504469 23.82317228 0.990162097 0.809562966 0.332091535 0.089876122 56.07116264 89440.44648 0.009083101 0.012810502 1.79E-07 6.746504469 -0.180599131 NY(ph)LRKTRGYLIK ddPTM_HeLa_SAHA_4h_R1 1 NYLRKTRGYLIK 12 3 J3KNE0;Q7Z3J3;A6NKT7 J3KNE0 RGPD3;RGPD4 RanBP2-like and GRIP domain-containing protein 4;RanBP2-like and GRIP domain-containing protein 3 1 0 NY(0.803)LRKT(0.197)RGYLIK 56.916 0.0084676 0 91.906 0 0 149.7 201.65 165.26 0 0 0 90.012 TRUE FALSE FALSE 101.5730948 0 0 152.59766 186.1996206 151.1789183 0 0 0 93.89285783 1.081797882 0 0 1.625231817 1.983107394 1.610121598 0 0 0 1 6.552943515 -4.739129737 24.73532223 1.031001463 1.54E-06 0.203090431 0.691912522 205.2443909 227555.983 0.089436272 0.334086852 1.82E-05 4.739129737 -1.030999919 NYADHVR ddPTM_HeLa_SAHA_4h_R1 1 NYADHVR 7 0 Q6P587;Q6P587-2;Q6P587-3 Q6P587 FAHD1 "Acylpyruvase FAHD1, mitochondrial" 0 0 133.81 0.0010852 857570 350.13 333.38 327.74 270.93 231.51 191.51 399.21 315.34 157.52 247.97 FALSE FALSE TRUE 386.9582799 344.1817307 372.4027004 276.1742419 213.7717538 175.1922706 354.2898401 307.2740594 156.4238055 258.6612002 1.496004347 1.330627595 1.439731587 1.067706489 0.826454658 0.677304019 1.369706163 1.187940283 0.604743987 1 8.014919853 -6.023390585 21.90252455 1.262548367 1.007836731 0.019672577 0.299617543 211.6532127 198189.2432 0.039970943 0.066680674 9.48E-07 6.023390585 -0.254711635 NYGS(ph)PLISGSTPK ddPTM_HeLa_SAHA_4h_R1 3 NYGSPLISGSTPK 13 0 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 1 0 NYGS(0.997)PLIS(0.003)GSTPK;NYGS(0.997)PLIS(0.003)GSTPK;NYGS(0.828)PLIS(0.171)GSTPK ;; 163.8 4.78E-05 27731600 9894.3 9732.7 7813.5 10756.1 10534 10784.9 9706.6 10907.2 10902.5 9650.5 TRUE FALSE FALSE 10935.02787 10048.04587 8878.283089 10964.29987 9726.887196 9865.965846 8614.387822 10628.20962 10826.62861 10066.58028 1.086270368 0.998158817 0.881956219 1.089178208 0.966255364 0.980071242 0.855741233 1.055791472 1.075502138 1 13.29728605 -7.006672484 24.98096034 1.040816461 0.969097598 0.215580144 0.068878228 379.5951437 1421162.081 0.011010768 0.014186448 9.85E-08 7.006672484 -0.071718864 NYGSPLIS(ph)GSTPK ddPTM_HeLa_SAHA_4h_R1 1 NYGSPLISGSTPK 13 0 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 1 0 NYGS(0.411)PLIS(0.538)GS(0.049)T(0.002)PK 122.1 0.0010693 6645600 1213.4 1101.2 855.06 1274.7 1115.6 1074 1603.6 1396.7 1225.9 1060 TRUE FALSE FALSE 1341.030979 1136.879603 971.5831238 1299.373662 1030.122969 982.4891578 1423.158708 1360.974436 1217.368862 1105.701788 1.212832424 1.028197309 0.87870268 1.175157422 0.931646291 0.88856613 1.287108987 1.230869346 1.100992036 1 10.11074662 -4.727613698 24.99983495 1.06341954 1.25898951 0.37631815 0.11185869 189.5283242 140073.7266 0.017688653 0.066177476 1.87E-05 4.727613698 0.19556997 NYGYNPS(ph)PVKPEGLR ddPTM_HeLa_SAHA_4h_R1 5 NYGYNPSPVKPEGLR 15 1 E9PRF4;Q15047-3;Q15047 E9PRF4 SETDB1 Histone-lysine N-methyltransferase SETDB1 1 0 NYGYNPS(1)PVKPEGLR;NYGYNPS(1)PVKPEGLR;NYGYNPS(1)PVKPEGLR;NYGYNPS(1)PVKPEGLR;NYGYNPS(1)PVKPEGLR ;;;; 190.44 2.38E-08 68831200 8906.66 7964.98 7629.21 8319.54 8862.46 9572.16 9383.3 9266 10749.78 9535.93 TRUE FALSE FALSE 9843.503364 8223.050578 8668.879008 8480.576727 8183.420229 8756.558116 8327.466389 9028.989137 10674.97141 9947.07061 0.989588166 0.826680628 0.871500701 0.852570275 0.822696505 0.880315267 0.83717777 0.907703332 1.073177403 1 13.280056 -7.270504289 24.65392495 0.995083306 0.856161306 0.819543722 0.03462748 110.6914583 301048.1458 0.00375617 0.004328233 5.36E-08 7.270504289 -0.138922 NYILDQTNVYGS(ph)AQR ddPTM_HeLa_SAHA_4h_R1 3 NYILDQTNVYGSAQR 15 0 M0R3F1;A0A0A0MRA5;B7Z4B8;Q9BUJ2-3;Q9BUJ2-4;Q9BUJ2-2;Q9BUJ2 M0R3F1 HNRNPUL1 Heterogeneous nuclear ribonucleoprotein U-like protein 1 1 0 NYILDQTNVYGS(1)AQR;NYILDQTNVYGS(1)AQR;NYILDQTNVYGS(1)AQR ;; 149.59 1.63E-08 7804700 2089.41 2685.32 2274.73 2657.71 2630.32 2673.46 2529.06 2688.82 2818.13 2448.87 TRUE FALSE FALSE 2309.18373 2772.32613 2584.718358 2709.15382 2428.78545 2445.666168 2244.483513 2620.043878 2798.518404 2554.45277 0.903983725 1.085291598 1.011848169 1.060561327 0.950804602 0.957412952 0.878655319 1.025677166 1.095545174 1 11.31879855 -3.901642241 20.08352754 0.968962575 6.385075354 0 0.073204631 1268.270023 263615.7449 0.00905642 5642.907317 0.000125417 3.901642241 5.416112779 NYISQYSEIAIQMMMHMQPK ddPTM_HeLa_SAHA_4h_R1 1 NYISQYSEIAIQMMMHMQPK 20 0 P07602 P07602 PSAP Prosaposin;Saposin-A;Saposin-B-Val;Saposin-B;Saposin-C;Saposin-D 0 0 87.668 0.0062543 1041100 0 67.897 167.82 123.77 0 52.853 61.576 0 143.79 0 FALSE FALSE TRUE 0 70.09690735 190.6896356 126.1657473 0 48.34962706 54.64730642 0 142.7893537 0 0 NYPS(ph)QEELIK ddPTM_HeLa_SAHA_4h_R1 3 NYPSQEELIK 10 0 P38398-8;P38398-4;P38398;P38398-7;K7EPC7;H0Y8B8;B7ZA85;E7EUM2;A0A2R8Y7V5;P38398-6;P38398-5;P38398-3 P38398-8 BRCA1 Breast cancer type 1 susceptibility protein 1 0 NYPS(1)QEELIK;NYPS(1)QEELIK;NYPS(1)QEELIK ;; 153.81 0.00044356 42000000 4780.94 4859 3993.05 4396.6 4938 6075.8 5529.9 5023.31 6189.4 5429.7 TRUE FALSE FALSE 5283.821205 5016.434788 4537.202059 4481.702551 4559.651507 5558.107658 4907.661098 4894.821004 6146.327461 5663.800939 0.932910825 0.885701112 0.80108784 0.791288853 0.805051511 0.981338807 0.866496042 0.864228997 1.085194824 1 12.46755485 -7.564348398 1.295648392 0.979415334 0.853800848 0.547792852 0.062071711 0.247055644 0.838188963 0.012198612 0.012671914 2.73E-08 7.564348398 -0.125614487 NYQQNYQNS(ph)ESGEK ddPTM_HeLa_SAHA_4h_R1 2 NYQQNYQNSESGEK 14 0 H0Y449;P67809;C9J5V9 H0Y449 YBX1 Nuclease-sensitive element-binding protein 1 1 0 NYQQNYQNS(0.934)ES(0.066)GEK;NYQQNYQNS(0.937)ES(0.063)GEK ; 275.19 4.43E-56 19031500 2384.5 3125.2 1739.73 2140.2 2656.6 3298.5 2585.2 2068.2 3743.2 2899.1 TRUE FALSE FALSE 2635.31265 3226.458531 1976.811344 2181.626666 2453.051882 3017.449243 2294.306492 2015.298439 3717.150766 3024.094389 0.871438623 1.06691727 0.653687051 0.721414872 0.811169086 0.9978026 0.758675556 0.666413868 1.229178157 1 11.56228745 -13.52286927 0.035617381 2.077174852 0.152040695 0.403875986 0.139533479 762.9830236 2.175373902 96.39950201 35.37077426 3.00E-14 13.52286927 -1.925134158 NYQQNYQNS(ph)ESGEKNEGSESAPEGQAQQR ddPTM_HeLa_SAHA_4h_R1 5 NYQQNYQNSESGEKNEGSESAPEGQAQQR 29 1 H0Y449;P67809;C9J5V9 H0Y449 YBX1 Nuclease-sensitive element-binding protein 1 1 0 NYQQNY(0.094)QNS(0.45)ES(0.45)GEKNEGS(0.004)ES(0.001)APEGQAQQR;NYQQNYQNS(0.885)ES(0.114)GEKNEGS(0.001)ESAPEGQAQQR;NYQQNY(0.048)QNS(0.935)ES(0.01)GEKNEGS(0.005)ES(0.002)APEGQAQQR;NYQQNY(0.011)QNS(0.529)ES(0.224)GEKNEGS(0.186)ES(0.05)APEGQAQQR;NYQQNY(0.141)QNS(0.693)ES(0.141)GEKNEGS(0.019)ES(0.005)APEGQAQQR ;;;; 122.51 1.56E-11 405430300 1803.512 1904.15 1526.94 1792.847 2148.74 2399.78 2246.93 2464.32 2208.81 1889.88 TRUE FALSE FALSE 1993.213667 1965.845709 1735.023431 1827.550146 1984.104005 2195.305243 1994.099523 2401.286263 2193.438711 1971.361976 1.011084566 0.997201799 0.88011408 0.927049506 1.006463567 1.113598248 1.011533928 1.218084904 1.112651425 1 10.94497699 -1.000004631 0.843670349 0.991934764 75.0355804 0.479463767 0.06668912 348.5232511 0.944167394 0.009014369 49530.42157 0.099998934 1.000004631 74.04364564 NYQQNYQNSESGEKNEGS(ph)ESAPEGQAQQR ddPTM_HeLa_SAHA_4h_R1 5 NYQQNYQNSESGEKNEGSESAPEGQAQQR 29 1 H0Y449;P67809;C9J5V9 H0Y449 YBX1 Nuclease-sensitive element-binding protein 1 1 0 NYQQNY(0.05)QNS(0.28)ES(0.209)GEKNEGS(0.346)ES(0.115)APEGQAQQR;NYQQNY(0.001)QNS(0.021)ES(0.059)GEKNEGS(0.687)ES(0.233)APEGQAQQR;NYQQNY(0.024)QNS(0.024)ES(0.062)GEKNEGS(0.652)ES(0.238)APEGQAQQR;NYQQNY(0.082)QNS(0.34)ES(0.048)GEKNEGS(0.483)ES(0.046)APEGQAQQR;NYQQNYQNS(0.028)ES(0.081)GEKNEGS(0.685)ES(0.205)APEGQAQQR ;;;; 82.479 3.13E-06 414207700 1974.52 1752.94 1811.67 2055.92 1940.896 2064.63 2294.1 2257.59 2264.36 1484.83 TRUE FALSE FALSE 2182.209073 1809.736406 2058.554953 2095.715305 1792.184968 1888.711909 2035.96183 2199.844117 2248.602134 1548.848288 1.408923708 1.168440073 1.329087535 1.353079783 1.157108144 1.219429897 1.314500488 1.420309616 1.451789792 1 10.59698012 -9.451239887 1.120850876 0.995843674 1.299982927 0 0.163321116 0.276884856 0.60840734 0.067207214 0.015783452 3.54E-10 9.451239887 0.304139253 NYQQNYQNSESGEKNEGSESAPEGQAQQR ddPTM_HeLa_SAHA_4h_R1 2 NYQQNYQNSESGEKNEGSESAPEGQAQQR 29 1 H0Y449;P67809;C9J5V9 H0Y449 YBX1 Nuclease-sensitive element-binding protein 1 0 0 ; ; 144.83 6.82E-14 7443300 599.8 523.12 691.07 827.42 834.53 567.8 768.49 772.13 789.81 732.72 FALSE FALSE TRUE 662.889716 540.0694312 785.2454207 843.4359106 770.5884917 519.4202456 682.0174826 752.3800326 784.3136479 764.311145 0.86730348 0.706609389 1.02738973 1.103524286 1.008213077 0.679592662 0.892329632 0.984389718 1.026170628 1 9.578016257 -9.433640703 1.247394734 0.998444258 0.903909313 0.091358795 0.128163757 1.088907578 3.106044921 0.084344534 0.022623674 3.68E-10 9.433640703 -0.094534945 NYSEVIEVDES(ph)DVEEDIFPTTSK ddPTM_HeLa_SAHA_4h_R1 2 NYSEVIEVDESDVEEDIFPTTSK 23 0 F8W7U8;P49959-2;P49959;P49959-3 F8W7U8 MRE11A Double-strand break repair protein MRE11A 1 0 NYSEVIEVDES(1)DVEEDIFPTTSK;NYSEVIEVDES(1)DVEEDIFPTTSK ; 144.43 1.71E-06 19157400 5876 8309.2 7946.4 9302.8 9622.2 10107.4 10368.1 9835.2 9061.9 8737 TRUE FALSE FALSE 6494.06464 8578.423532 9029.294009 9482.869146 8884.949115 9246.192657 9201.454101 9583.629825 8998.8375 9113.694828 0.712561125 0.941267367 0.990739122 1.040507645 0.974900881 1.014538322 1.009629385 1.051563609 0.987397282 1 13.15382035 -6.935134522 4.065565227 0.862717459 1.012247749 0.262302984 0.078663455 0.209037557 6.995564827 0.017619483 0.023247291 1.16E-07 6.935134522 0.149530289 NYTDEAIETDDLTIK ddPTM_HeLa_SAHA_4h_R1 1 NYTDEAIETDDLTIK 15 0 O14818;H0Y586;O14818-2 O14818 PSMA7 Proteasome subunit alpha type-7 0 0 116.98 0.0059416 5209800 1042.3 1137.4 1126.3 1213.7 1133.9 1422.9 1519.7 1633.5 1333.2 1297.9 FALSE FALSE TRUE 1151.933896 1174.252506 1279.786298 1237.192919 1047.020827 1301.660915 1348.699356 1591.717435 1323.922153 1353.858821 0.850852303 0.867337486 0.945287853 0.913827128 0.773360421 0.961445089 0.996189068 1.175689378 0.977887895 1 10.40286159 -4.296139021 1.877686666 0.913998637 1.244586149 0.62109052 0.063234163 0.452023344 1.718011814 0.010535846 0.254015149 5.06E-05 4.296139021 0.330587512 NYTEDIFPVT(ph)PPELEETIRDEK ddPTM_HeLa_SAHA_4h_R1 1 NYTEDIFPVTPPELEETIRDEK 22 1 Q5T3J3-2;Q5T3J3 Q5T3J3-2 LRIF1 Ligand-dependent nuclear receptor-interacting factor 1 1 0 NYTEDIFPVT(0.998)PPELEET(0.001)IRDEK 73.603 0.0025276 2697300 527.96 579.89 456.94 493.05 628.48 666.48 569.76 559.57 668.64 585.21 TRUE FALSE FALSE 583.4932552 598.6788165 519.2094036 502.5936957 580.3259982 609.6921545 505.6491053 545.2570096 663.9868798 610.441267 0.955854865 0.980731233 0.85054768 0.823328505 0.950666394 0.998772834 0.828333752 0.893217807 1.08771624 1 9.253708684 -6.778909273 24.95326735 0.978689545 0.89253193 0.430387337 0.061811782 188.1417984 268733.0956 0.008705198 0.011455268 1.66E-07 6.778909273 -0.086157614 NYTNS(ph)PEESSK ddPTM_HeLa_SAHA_4h_R1 2 NYTNSPEESSK 11 0 J3QQU0;A0A3B3ITH3;Q9P2X3-2;Q9P2X3 J3QQU0 IMPACT Protein IMPACT 1 0 NYT(0.018)NS(0.932)PEES(0.048)S(0.001)K;NYT(0.001)NS(0.997)PEES(0.002)SK ; 166.62 0.00013705 20170900 4054.6 3493.9 2989.2 3815.6 3639.2 4037 3839.5 4113.5 3588.5 3397.7 TRUE FALSE FALSE 4481.081431 3607.104652 3396.552609 3889.456455 3360.365282 3693.024888 3407.469355 4008.282626 3563.527336 3544.191475 1.264345186 1.017751066 0.958343428 1.097417135 0.948133109 1.041993615 0.961423608 1.130944153 1.005455648 1 11.79124083 -7.104486727 24.29805807 1.125683894 1.018258441 0.065523663 0.08985766 33.95654313 7881.86773 0.017928464 0.021957796 7.86E-08 7.104486727 -0.107425453 K(ac)DILAELTK(ac)SQK ddPTM_HeLa_SAHA_4h_R1 1 KDILAELTKSQK 12 2 C9J266;Q5XPI4;Q5XPI4-2 C9J266 RNF123 E3 ubiquitin-protein ligase RNF123 0 2 K(1)DILAELTK(1)SQK 139.38 0.0032252 336900000 625.36 745.37 1069.5 3610.9 5860.1 8057 8667 7649.4 573.3 375.31 FALSE TRUE FALSE 691.1382341 769.5204771 1215.24589 3680.794191 5411.100404 7370.498273 7691.76635 7453.739424 569.3103586 391.4914508 1.765398025 1.965612469 3.104144133 9.401978468 13.8217588 18.82671577 19.64734181 19.03934149 1.454208917 1 8.612836993 -5.855260124 1.190004839 1.317336533 19.74463984 0.995583477 0.511179356 0.019867124 0.055701652 0.085851798 0.222326646 1.40E-06 5.855260124 18.4273033 up NYYEQWGK ddPTM_HeLa_SAHA_4h_R1 4 NYYEQWGK 8 0 P22626;P22626-2;A0A087WUI2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 0 0 ;;; ;;; 131.06 0.00094272 28908700 8454.39 7747.47 7174.86 9010.3 7990.4 8864.6 8750.1 6866.71 8265.3 7837.54 FALSE FALSE TRUE 9343.66153 7998.493111 8152.612556 9184.707386 7378.177278 8109.286209 7765.515719 6691.069501 8207.781104 8175.454705 1.14289197 0.978354526 0.997206009 1.123449119 0.902479133 0.991906445 0.949857347 0.818433927 1.00395408 1 12.99708326 -2.976267573 0.479860298 1.061121976 0.130516723 0.456234661 0.066107595 8.265783187 0.507937276 0.01524556 5.752444599 0.001056167 2.976267573 -0.930605252 PAAS(ph)PAVGEK ddPTM_HeLa_SAHA_4h_R1 2 PAASPAVGEK 10 0 F5H0Q6;A0A0A0MQS2;Q8N2M8-3;Q8N2M8;Q8N2M8-4 F5H0Q6 CLASRP CLK4-associating serine/arginine rich protein 1 0 PAAS(1)PAVGEK;PAAS(1)PAVGEK ; 130.1 0.0016306 12774000 5029.9 6251.1 3870.7 5324.8 5182.2 5993.9 5722.7 5560.5 7683.1 5664.9 TRUE FALSE FALSE 5558.96796 6453.639741 4398.178838 5427.869204 4785.140956 5483.185999 5078.766735 5418.270462 7629.632682 5909.141562 0.94074036 1.092145056 0.744300808 0.918554607 0.809786143 0.92791583 0.859476234 0.916930218 1.29115754 1 12.52873285 -6.764345333 24.99999818 0.980244033 0.865755659 0.347224211 0.117615345 51.6871834 444667.2414 0.009724343 0.013095763 1.72E-07 6.764345333 -0.114488374 PAASS(ph)PETPSAGQQEAK ddPTM_HeLa_SAHA_4h_R1 1 PAASSPETPSAGQQEAK 17 0 Q9NQS7-2;Q9NQS7 Q9NQS7-2 INCENP Inner centromere protein 1 0 PAAS(0.071)S(0.831)PET(0.089)PS(0.01)AGQQEAK 87.363 0.004508 0 217.56 487.51 308.27 363.97 381.36 529.48 452.87 277.1 566.08 436.57 TRUE FALSE FALSE 240.443959 503.3056439 350.2794302 371.0151657 352.1402792 484.3653252 401.9118757 270.0121832 562.1406032 455.3926692 0.527992599 1.105212442 0.769181091 0.81471484 0.773267343 1.063621261 0.882561145 0.592921673 1.234408547 1 8.830967257 -7.260625594 24.99959854 0.777107623 0.857991722 0 0.226289479 255.1078537 7836983.476 0.036243567 0.043047797 5.49E-08 7.260625594 0.080884098 PANRTGPFRVRQT(ph)LVGT(ph)DLPVHS(ph)AR ddPTM_HeLa_SAHA_4h_R1 1 PANRTGPFRVRQTLVGTDLPVHSAR 25 3 F8WCT0 F8WCT0 RBM6 3 0 PANRT(0.027)GPFRVRQT(0.987)LVGT(0.993)DLPVHS(0.993)AR 41.16 0.022537 8095600 229.96 228.05 167.71 280.94 303.62 267.05 286.16 275.84 247.06 200.22 TRUE FALSE FALSE 254.1482479 235.4389696 190.5646454 286.3779999 280.3567012 244.2958376 253.9605237 268.7844122 245.3406893 208.8524641 1.216879337 1.127298022 0.912436663 1.371197612 1.342367218 1.169705317 1.2159805 1.286958301 1.174708139 1 7.706340354 -6.243990961 24.99961937 1.094325678 1.271482211 0.493188233 0.096537675 688.9955878 987174.1902 0.016898793 0.027982422 5.70E-07 6.243990961 0.177156533 PAPAVGEAEDKENQQATSGPNQPS(ph)VR ddPTM_HeLa_SAHA_4h_R1 1 PAPAVGEAEDKENQQATSGPNQPSVR 26 1 P16989-2;P16989-3;P16989 P16989-2 YBX3 Y-box-binding protein 3 1 0 PAPAVGEAEDKENQQATS(0.001)GPNQPS(0.999)VR 90.299 1.16E-05 7962000 334.53 490.59 365.72 509.34 567.18 564.76 799.58 558.75 572.9 661.68 TRUE FALSE FALSE 369.7174003 506.4854379 415.558417 519.1990122 523.7227909 516.6392707 709.609154 544.4579841 568.9131423 690.208263 0.535660641 0.733815379 0.60207685 0.752235289 0.758789512 0.748526638 1.028108749 0.788831449 0.824263013 1 9.430887935 -4.794674388 24.69770117 0.754913164 0.908470164 0.203152153 0.128624455 252.356494 187531.7727 0.025382657 0.076155464 1.60E-05 4.794674388 0.153557 PAPPQEES(ph)PSSEAK ddPTM_HeLa_SAHA_4h_R1 2 PAPPQEESPSSEAK 14 0 Q3KQU3-4;Q3KQU3;Q3KQU3-2;C9JIR3;E9PLH3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 PAPPQEES(0.523)PS(0.301)S(0.177)EAK;PAPPQEES(0.717)PS(0.217)S(0.066)EAK ; 186.42 2.22E-08 19487600 1778.81 2118.6 1632.86 2134.3 1909.8 2590.1 1935.4 2316.7 3292 2768.4 TRUE FALSE FALSE 1965.913397 2187.24403 1855.377657 2175.612463 1763.471537 2369.408908 1717.623698 2257.442169 3269.090704 2887.759272 0.680774681 0.7574191 0.642497342 0.753391214 0.61067124 0.82050084 0.594794627 0.781727961 1.132050976 1 11.49573477 -9.256851192 0.70112055 1.029432596 0.69913953 0.735949226 0.083942957 0.333461603 0.253866524 0.066279407 0.013068025 5.54E-10 9.256851192 -0.330293066 PAPPQEESPS(ph)SEAK ddPTM_HeLa_SAHA_4h_R1 2 PAPPQEESPSSEAK 14 0 Q3KQU3-4;Q3KQU3;Q3KQU3-2;C9JIR3;E9PLH3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 PAPPQEES(0.011)PS(0.783)S(0.206)EAK;PAPPQEES(0.134)PS(0.723)S(0.143)EAK ; 192.32 1.07E-08 19595300 1958.5 2375.3 1637.22 2033.43 1934.99 2136.43 2028.64 2082.03 3049.6 2246.3 TRUE FALSE FALSE 2164.504016 2452.261278 1860.331815 2072.789978 1786.731484 1954.394145 1800.372088 2028.774687 3028.377585 2343.148986 0.923758595 1.046566519 0.793945168 0.884617235 0.762534305 0.834088723 0.768355789 0.865832561 1.292439193 1 11.19423297 -6.748489773 24.99266729 0.969183858 0.817168951 0.464248364 0.112519294 92.83121347 179163.2898 0.007523646 0.010601468 1.78E-07 6.748489773 -0.152014907 PAS(ph)PVAGSPK ddPTM_HeLa_SAHA_4h_R1 2 PASPVAGSPK 10 0 Q13057-2;K7EN91;Q13057 Q13057-2 COASY Bifunctional coenzyme A synthase;Phosphopantetheine adenylyltransferase;Dephospho-CoA kinase 1 0 PAS(0.997)PVAGS(0.003)PK;PAS(0.999)PVAGS(0.001)PK ; 95.618 0.013833 9216900 4744.4 6204.8 3124.4 5337.2 4904.4 7048.8 5328.3 6177.9 8883.7 5933.9 TRUE FALSE FALSE 5243.43776 6405.839591 3550.176961 5440.509224 4528.625932 6448.202585 4728.745661 6019.878263 8821.877608 6189.739469 0.847117683 1.034912636 0.573558383 0.878956094 0.731634337 1.041756703 0.763965218 0.972557616 1.425242153 1 12.59566297 -9.157443585 0.649329287 1.013871963 0.848375723 0.227924692 0.192272456 1.418649559 0.945868825 0.132704934 0.027936604 6.96E-10 9.157443585 -0.16549624 PAT(ph)PGASSVEQLRK ddPTM_HeLa_SAHA_4h_R1 1 PATPGASSVEQLRK 14 1 Q9H3U1 Q9H3U1 UNC45A Protein unc-45 homolog A 1 0 PAT(0.999)PGAS(0.001)SVEQLRK 91.14 0.011319 39634000 2745.6 3869.5 2623.1 3921.7 3378.7 4131.2 3910.9 3677.8 4087.9 4224.6 TRUE FALSE FALSE 3034.394805 3994.874339 2980.562407 3997.610174 3119.824736 3779.198519 3470.835239 3583.727201 4059.451971 4406.743181 0.688579906 0.906536681 0.676363992 0.907157511 0.707966089 0.857594455 0.787619132 0.813237136 0.921190958 1 12.10549711 -9.501583347 1.221568966 1.001177899 0.784061914 0.384720094 0.082360846 0.29252267 0.774372358 0.053597169 0.012697591 3.15E-10 9.501583347 -0.217115986 PCIQAQYGTPAPS(ph)PGPR ddPTM_HeLa_SAHA_4h_R1 2 PCIQAQYGTPAPSPGPR 17 0 F8VVX9;P22736-3;P22736 F8VVX9 NR4A1 Nuclear receptor subfamily 4 group A member 1 1 0 PCIQAQYGTPAPS(1)PGPR;PCIQAQYGT(0.004)PAPS(0.996)PGPR ; 160.03 5.57E-06 9623100 1084.87 1016.27 983.89 1883.09 2200.02 2636.2 2378.35 2144.25 1234.88 1190.52 TRUE FALSE FALSE 1198.981604 1049.197815 1117.969405 1919.53993 2031.454943 2411.580929 2110.731799 2089.40319 1226.28637 1241.849143 0.96548088 0.844867366 0.900245743 1.545711039 1.635830691 1.941927441 1.699668442 1.682493563 0.987468064 1 10.27827421 -6.123859712 3.028239471 0.964210953 1.744782066 0.946005709 0.091590298 0.044005929 0.771948377 0.014688621 0.025736554 7.52E-07 6.123859712 0.780571113 PCS(ph)EETPAISPSKR ddPTM_HeLa_SAHA_4h_R1 1 PCSEETPAISPSKR 14 1 P33316-2;H0YNJ9 P33316-2 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 1 0 PCS(0.92)EET(0.019)PAIS(0.06)PS(0.002)KR 111.72 0.0051504 6824500 1205.3 2740 1222.7 2029 1113.5 1577.9 1235.9 1284.1 1558.2 1702.5 TRUE FALSE FALSE 1332.078984 2828.777798 1389.323188 2068.274229 1028.183871 1443.454043 1096.833279 1251.254581 1547.356359 1775.903107 0.750085395 1.592867194 0.782319251 1.164632361 0.578963946 0.812799999 0.617620001 0.704573677 0.871306747 1 10.79433716 -5.745708163 24.99855824 0.947837099 0.683735198 0.307779799 0.238869036 294.6338842 468201.5595 0.035061411 0.069933516 1.80E-06 5.745708163 -0.264101902 PCSEETPAIS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 6 PCSEETPAISPSK 13 0 P33316-2;H0YNJ9 P33316-2 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 1 0 PCSEETPAIS(1)PSK;PCSEET(0.024)PAIS(0.959)PS(0.017)K;PCSEETPAIS(0.997)PS(0.003)K;PCSEET(0.001)PAIS(0.998)PS(0.001)K;PCSEETPAIS(0.994)PS(0.006)K;PCSEET(0.087)PAIS(0.877)PS(0.036)K ;;;;; 220.37 2.13E-16 348472200 17412.5 17119.2 12142.23 16592.8 14617.3 17004.7 17079.5 16278 18364.5 18786.1 TRUE FALSE FALSE 19244.02664 17673.87331 13796.90987 16913.97764 13497.32563 15555.80389 15157.66971 15861.63233 18236.69995 19596.06071 0.982035468 0.9019095 0.704065479 0.863131519 0.688777496 0.79382301 0.773505958 0.809429638 0.930630917 1 14.25827605 -6.991819057 3.526861294 0.99075964 0.773653948 0.753196676 0.051380707 0.061955449 1.652884832 0.007168313 0.009288749 1.02E-07 6.991819057 -0.217105692 PCSEETPAIS(ph)PSKR ddPTM_HeLa_SAHA_4h_R1 4 PCSEETPAISPSKR 14 1 P33316-2;H0YNJ9 P33316-2 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 1 0 PCSEET(0.012)PAIS(0.622)PS(0.365)KR;PCSEETPAIS(0.73)PS(0.27)KR;PCSEETPAIS(0.849)PS(0.151)KR;PCS(0.136)EET(0.291)PAIS(0.401)PS(0.171)KR ;;; 181.75 1.80E-17 3247694900 8115.4 12857.84 6618.64 8789.67 6978.41 7681.28 9160.14 7663.79 7203.59 9816.75 TRUE FALSE FALSE 8969.015007 13274.44245 7520.593791 8959.806773 6443.725733 7026.79173 8129.416939 7467.761349 7153.459631 10239.99813 0.875880531 1.296332507 0.734433121 0.87498129 0.629270206 0.686210255 0.793888518 0.729273702 0.698580169 1 13.32192783 PCSEETPAISPS(ph)KR ddPTM_HeLa_SAHA_4h_R1 4 PCSEETPAISPSKR 14 1 P33316-2;H0YNJ9 P33316-2 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 1 0 PCSEETPAIS(0.008)PS(0.992)KR;PCSEETPAIS(0.096)PS(0.904)KR;PCSEETPAIS(0.023)PS(0.976)KR;PCSEETPAIS(0.275)PS(0.725)KR ;;; 132.25 0.0002234 3729380000 10087.9 9718.6 8571.1 10115.5 9972.1 10440.8 11842.2 12121.1 11091.9 11543 TRUE FALSE FALSE 11148.99161 10033.48902 9739.124872 10311.30013 9208.039852 9551.185102 10509.68449 11811.05981 11014.71056 12040.67522 0.925944052 0.833299531 0.808852053 0.85637225 0.764744475 0.793243313 0.872848432 0.980930022 0.914791767 1 13.55562868 -7.65298138 1.230515795 0.979209108 0.838733307 0.350875912 0.060469822 0.23675347 0.737446934 0.013309918 0.013205012 2.22E-08 7.65298138 -0.140475801 NASTVVVSDKYNLKPIPLK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 NASTVVVSDKYNLKPIPLKR 20 3 Q96QC0 Q96QC0 PPP1R10 Serine/threonine-protein phosphatase 1 regulatory subunit 10 0 1 ; NASTVVVSDKYNLK(0.009)PIPLK(0.99)R;NASTVVVSDKYNLK(0.001)PIPLK(0.999)R 81.01 0.0019138 9688900 1253.55 1137.37 1127.48 2070.91 2729.01 3112.01 3527.66 3078.11 1563.17 1180.48 FALSE TRUE FALSE 1385.40414 1174.221534 1281.127103 2110.995458 2519.913843 2846.84924 3130.718413 2999.376403 1552.291773 1231.37627 1.12508595 0.95358467 1.040402624 1.714338265 2.046420664 2.311924722 2.542454722 2.435791948 1.260615305 1 10.26605596 -5.85186512 1.401388244 1.042305484 2.459002233 0.966090994 0.112299971 0.041072302 0.1616662 0.015463249 0.036928954 1.41E-06 5.85186512 1.416696749 up RPATADSPKPSAK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 RPATADSPKPSAKK 14 3 Q03111 Q03111 MLLT1 Protein ENL 0 1 RPATADSPK(0.001)PSAK(0.999)K 79.639 0.0188 731310 453.95 509.9 701.06 755.21 1246.1 1666.2 1736.5 1398.7 322.42 410.31 FALSE TRUE FALSE 501.6985438 526.4210946 796.5968058 769.8281816 1150.624087 1524.230386 1541.10445 1362.923279 320.176253 428.0004721 1.172191566 1.229954472 1.861205437 1.798661992 2.68837107 3.561282021 3.600707359 3.184396673 0.748074532 1 8.741468578 -5.836961492 0.948398633 1.081824305 3.592608544 0.945804562 0.240927365 0.077479421 0.133689429 0.037033875 0.112534672 1.46E-06 5.836961492 2.510784239 up PEPTK(ac)SAPAPK(ac)K(ac)GSK ddPTM_HeLa_SAHA_4h_R1 2 PEPTKSAPAPKKGSK 15 3 P58876 P58876 HIST1H2BD Histone H2B type 1-D 0 3 ; PEPTK(1)SAPAPK(1)K(1)GSK;PEPTK(1)SAPAPK(1)K(1)GSK 161.49 4.19E-10 55139000 1843.17 1995.77 3832.1 13932.8 20315.7 27319 27901 31595 968.55 1455.94 FALSE TRUE FALSE 2037.043077 2060.434257 4354.318631 14202.48949 18759.11545 24991.26751 24761.50605 30786.84565 961.8097817 1518.712699 1.341295875 1.356697853 2.867111492 9.351663092 12.35198433 16.45555972 16.30427274 20.27167197 0.633305946 1 10.56863326 -5.82152192 0.997246181 1.018110749 18.61854154 0.981854536 0.980233746 0.044571423 0.085603395 0.155399563 0.46235213 1.51E-06 5.82152192 17.60043079 up PEPSK(ac)SAPAPK ddPTM_HeLa_SAHA_4h_R1 2 PEPSKSAPAPK 11 1 P33778;U3KQK0;Q99877 P33778;U3KQK0 HIST1H2BB;HIST1H2BN Histone H2B type 1-B;Histone H2B;Histone H2B type 1-N 0 1 ; PEPSK(1)SAPAPK;PEPSK(1)SAPAPK 196.88 7.60E-24 663710000 3420.3 3972.9 6387.4 16900.2 20856.3 26054 30842 31238 0 3025.2 FALSE TRUE FALSE 3780.062847 4101.624567 7257.841608 17227.32781 19258.2948 23834.05262 27371.57699 30438.97719 0 3155.631177 1.197878534 1.299779454 2.29996511 5.459233619 6.102834495 7.552863845 8.673883434 9.645923584 0 1 11.62371288 -5.819512264 0.819820658 0.991315406 9.414841474 0.975095219 0.53489851 0.058563898 0.072941271 0.080393576 0.275806562 1.52E-06 5.819512264 8.423526068 up PDS(ph)PT(ph)MAAPAES(ph)LRRR ddPTM_HeLa_SAHA_4h_R1 1 PDSPTMAAPAESLRRR 16 2 B4DFZ0;Q96S06 B4DFZ0 LMF1 Lipase maturation factor 1 3 0 PDS(1)PT(1)MAAPAES(1)LRRR 73.499 0.023793 6414400 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 SGK(ac)RVGKPSPK ddPTM_HeLa_SAHA_4h_R1 1 SGKRVGKPSPK 11 3 A0A1W2PQJ7;Q7Z5J4-3;Q7Z5J4-2;Q7Z5J4 A0A1W2PQJ7 RAI1 Retinoic acid-induced protein 1 0 1 SGK(0.99)RVGK(0.01)PSPK 50.149 0.022356 0 765.25 848.7 922.29 1630.2 2200.7 2542.5 2882.3 2801.1 588.84 508.25 FALSE TRUE FALSE 845.7425061 876.1984369 1047.974878 1661.754878 2032.082841 2325.864696 2557.976018 2729.451918 584.7422145 530.1631448 1.595249527 1.652695864 1.976702621 3.134421724 3.832938712 4.387073525 4.824884648 5.14832452 1.102947687 1 9.050292572 -5.819019745 0.663458801 1.195660403 5.354008368 0.991715433 0.137541996 0.069392626 0.053246246 0.037668281 0.150010395 1.52E-06 5.819019745 4.158347965 up PELAK(ac)SAPAPK ddPTM_HeLa_SAHA_4h_R1 2 PELAKSAPAPK 11 1 Q99880 Q99880 HIST1H2BL Histone H2B type 1-L 0 1 ; PELAK(1)SAPAPK;PELAK(1)SAPAPK 152.7 6.36E-06 191666000 1370.77 1889.72 2616.2 5797.8 8140.1 10700.6 11790.4 11822.6 961.94 989.69 FALSE TRUE FALSE 1514.953878 1950.948168 2972.722111 5910.024803 7516.407297 9788.84868 10463.71316 11520.19501 955.2457812 1032.360379 1.467466118 1.889793726 2.879539133 5.724769103 7.280797914 9.482007326 10.1357175 11.15908286 0.925302637 1 10.01173096 -5.810444281 0.817189138 1.128306086 11.17345734 0.995851362 0.248624976 0.027367758 0.033771696 0.044389767 0.154017079 1.55E-06 5.810444281 10.04515125 up LESSNGK(ac)MASR ddPTM_HeLa_SAHA_4h_R1 2 LESSNGKMASR 11 1 Q9NQ29-3;Q9NQ29;B8ZZ08 Q9NQ29-3 LUC7L Putative RNA-binding protein Luc7-like 1 0 1 ; LESSNGK(1)MASR;LESSNGK(1)MASR 130.01 0.00076252 5307600 180.27 127.81 204.665 336.21 442.32 765.4 573.54 489.128 215.278 216.13 FALSE TRUE FALSE 199.2316257 131.9511279 232.5556804 342.7178307 408.4295372 700.183614 509.0037697 476.616814 213.7798629 225.448422 0.883712664 0.585282996 1.031524986 1.520160699 1.811631829 3.10573748 2.257739332 2.114083611 0.948242888 1 7.816653602 -5.807379964 1.82684234 0.918607354 2.460923899 0.844868179 0.295031435 0.090913716 0.616288787 0.044289531 0.098287678 1.56E-06 5.807379964 1.542316545 up NSNNEVACK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 NSNNEVACKK 10 1 Q9H967;C9JE56;A0A0C4DFX7 Q9H967 WDR76 WD repeat-containing protein 76 0 1 ; NSNNEVACK(1)K;NSNNEVACK(1)K 166.86 2.26E-09 1776840 235.62 217.101 204.62 876.64 807.96 1285.25 1219.39 1342.22 461.14 390.87 FALSE TRUE FALSE 260.4035927 224.1352148 232.504548 893.6086348 746.0542794 1175.739469 1082.181028 1307.887956 457.9308892 407.7223186 0.638678779 0.549725155 0.570252197 2.191708901 1.829809764 2.883676992 2.654210914 3.207790931 1.123144033 1 8.671443121 -5.806607781 1.235969494 0.78038173 2.919095411 0.868853563 0.35073506 0.107582167 0.325993277 0.054695682 0.143881721 1.56E-06 5.806607781 2.138713681 up TEPLTPNPASKK(ac)PR ddPTM_HeLa_SAHA_4h_R1 1 TEPLTPNPASKKPR 14 2 H3BTW3;Q3L8U1-2;Q3L8U1-3;Q3L8U1 H3BTW3 CHD9 Chromodomain-helicase-DNA-binding protein 9 0 1 TEPLTPNPASK(0.144)K(0.856)PR 101.2 0.0054919 1998500 399.4 444.92 663.54 832.51 1389.1 1520.6 1633.6 1799 375.12 358.98 FALSE TRUE FALSE 441.4107245 459.3356999 753.9637756 848.6244349 1282.667458 1391.036325 1449.783029 1752.984185 372.5095094 374.4573846 1.17880096 1.22667016 2.013483527 2.266277739 3.425403025 3.714805429 3.871690313 4.681398357 0.994798139 1 8.548657731 -5.773849067 0.716317979 1.035842719 4.54722631 0.977479958 0.196276675 0.073189709 0.066126237 0.035113989 0.139240921 1.68E-06 5.773849067 3.511383592 up QVAPEKPVK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 QVAPEKPVKK 10 2 P53999;D6RC37;D6R970 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 0 1 ; QVAPEK(0.001)PVK(0.999)K;QVAPEK(0.002)PVK(0.998)K 97.813 0.0085904 0 5230.3 7686.4 7630.2 13635.2 18512.8 23221.8 26461.3 25105.1 5921.6 3959.9 FALSE TRUE FALSE 5780.446951 7935.444403 8670.00392 13899.12901 17094.35326 21243.172 23483.80488 24462.94789 5880.391103 4130.630668 1.399410263 1.921121746 2.098954038 3.364892707 4.13843663 5.142839848 5.685283137 5.922327571 1.423606121 1 12.01214636 -5.766733258 0.665342114 1.113299027 6.304724018 0.993314805 0.147070712 0.036801375 0.027930887 0.023963763 0.100749841 1.71E-06 5.766733258 5.191424992 up LDK(ac)VLSDMKR ddPTM_HeLa_SAHA_4h_R1 2 LDKVLSDMKR 10 2 H3BTX0;Q9BTK6 H3BTX0 PAGR1 PAXIP1-associated glutamate-rich protein 1 0 1 ; LDK(1)VLSDMKR;LDK(1)VLSDMKR 113.38 0.0026565 2995500 286.623 488.27 662.55 2061.84 2519.67 2511.6 4448.6 3318.9 327.66 422.36 FALSE TRUE FALSE 316.7713222 504.0902684 752.8388636 2101.749895 2326.613429 2297.59755 3948.03182 3234.007344 325.3797874 440.5700066 0.719003376 1.144177454 1.70878374 4.770524237 5.280916527 5.215056667 8.961190642 7.340507287 0.738542757 1 8.783227471 -5.763096754 0.801391594 0.787407241 8.15010773 0.921401798 0.804358223 0.12510937 0.145989861 0.141082261 0.520897303 1.73E-06 5.763096754 7.362700489 up LFGAGGGK(ac)AGK ddPTM_HeLa_SAHA_4h_R1 2 LFGAGGGKAGK 11 1 Q9H444 Q9H444 CHMP4B Charged multivesicular body protein 4b 0 1 ; LFGAGGGK(1)AGK;LFGAGGGK(1)AGK 140.5 8.33E-05 12436400 4534.6 4765.2 5181.3 6832.3 8301.8 9022.1 10527.1 9040.6 3534.9 3072.2 FALSE TRUE FALSE 5011.570033 4919.595607 5887.380581 6964.549046 7665.717878 8253.366323 9342.563002 8809.354543 3510.300343 3204.657577 1.563839478 1.535139243 1.837132498 2.173258415 2.392055218 2.575428458 2.915307729 2.748922258 1.095374547 1 11.6459545 -5.758202119 0.308783115 1.001821514 3.48354151 0.97298663 0.106033437 0.365055836 0.05304828 0.068904832 0.322240871 1.75E-06 5.758202119 2.481719996 up KAPSK(ac)RPPISDSEELSAK ddPTM_HeLa_SAHA_4h_R1 1 KAPSKRPPISDSEELSAK 18 3 P42568-2;P42568 P42568-2 MLLT3 Protein AF-9 0 1 K(0.277)APSK(0.723)RPPISDSEELSAK 74.147 0.0032552 12686000 2924.4 3601.7 3714.6 5619.8 7417.9 9333.8 9332.2 10025 2578.4 2640.4 FALSE TRUE FALSE 3232.00181 3718.397443 4220.806343 5728.579355 6849.542105 8538.507729 8282.116295 9768.575016 2560.456704 2754.240566 1.173463876 1.350062696 1.532475556 2.079912491 2.486907712 3.100131425 3.007041722 3.546739939 0.929641636 1 11.42743886 -5.744894665 0.688032833 1.048421583 3.53857554 0.985812554 0.108684257 0.058571977 0.047723021 0.018632476 0.078406682 1.80E-06 5.744894665 2.490153957 up TEGAEATPGAQK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 TEGAEATPGAQKR 13 1 H3BM18;X6RHM1;Q16666-3;Q16666-2;Q16666 H3BM18 IFI16 Gamma-interferon-inducible protein 16 0 1 ; TEGAEATPGAQK(1)R;TEGAEATPGAQK(1)R 134.38 0.00034312 1110000 172.41 201.283 223.134 590.51 948.02 1222.88 1184.75 1415.89 399.84 290.41 FALSE TRUE FALSE 190.5448748 207.8047013 253.5415395 601.9401749 875.3829124 1118.683744 1051.438812 1379.673584 397.0574809 302.9309963 0.629004219 0.685980318 0.836961363 1.987053759 2.889710604 3.692866553 3.470885531 4.554415364 1.310719225 1 8.242845394 -5.741201917 1.269324578 0.790387382 3.99852388 0.946602352 0.315728126 0.058798853 0.187665669 0.04473788 0.121967847 1.81E-06 5.741201917 3.208136497 up SAPAPK(ac)K(ac)GSK(ac)K ddPTM_HeLa_SAHA_4h_R1 5 SAPAPKKGSKK 11 3 O60814;P57053;P33778;P58876;P62807;Q16778;Q5QNW6;Q5QNW6-2;Q8N257;Q93079;U3KQK0;Q99877;Q99880 O60814;P33778;P58876;P62807;Q16778;Q5QNW6;Q8N257;Q93079;U3KQK0;Q99880 HIST1H2BK;H2BFS;HIST1H2BB;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST2H2BF;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-B;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 2-F;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-L 0 3 ;;;; SAPAPK(1)K(1)GSK(1)K;SAPAPK(1)K(1)GSK(1)K;SAPAPK(1)K(1)GSK(1)K;SAPAPK(1)K(1)GSK(1)K;SAPAPK(1)K(1)GSK(1)K 138.42 0.00017306 1885354800 1046.71 4243.78 3093.505 12952.9 17475.98 23693.6 29152.2 27076.54 572.97 1569.66 FALSE TRUE FALSE 1156.80776 4381.281256 3515.071751 13203.62211 16136.97419 21674.77198 25871.91773 26383.96131 568.9826551 1637.335724 0.706518366 2.675860052 2.146824075 8.064089675 9.855629452 13.23783001 15.80122961 16.11395936 0.347505186 1 10.67713445 -5.731383734 0.84743795 0.786085799 16.67635227 0.985163205 0.741758044 0.047964931 0.063086089 0.121381757 0.443546021 1.86E-06 5.731383734 15.89026647 up TPGPPGLTTTPAPPDK(ac)LGGK ddPTM_HeLa_SAHA_4h_R1 2 TPGPPGLTTTPAPPDKLGGK 20 1 A0A1W2PQJ7;Q7Z5J4-3;Q7Z5J4-2;Q7Z5J4 A0A1W2PQJ7 RAI1 Retinoic acid-induced protein 1 0 1 ; TPGPPGLTTTPAPPDK(1)LGGK;TPGPPGLTTTPAPPDK(1)LGGK 160.93 1.94E-11 2893800 243.243 356.69 658.7 1336.46 1442.9 1791.72 2328 2297.3 379.61 423.28 FALSE TRUE FALSE 268.8284148 368.24699 748.4642056 1362.329116 1332.345314 1639.055376 2066.047313 2238.538392 376.9682631 441.5296723 0.608856962 0.834025465 1.695161736 3.085475793 3.017566876 3.712220217 4.679294378 5.069961393 0.85377787 1 8.786366585 -5.716375407 0.729403438 0.763491563 5.079070947 0.958993817 0.322567568 0.122115474 0.113003106 0.070203444 0.292195635 1.92E-06 5.716375407 4.315579384 up TDPECTAPIK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 TDPECTAPIKK 11 1 Q5T7F5;Q8N1G2 Q5T7F5 CMTR1 Cap-specific mRNA (nucleoside-2-O-)-methyltransferase 1 0 1 TDPECTAPIK(1)K 120.68 0.0014698 2934700 180.81 397.86 295.17 609.77 1000 1751.6 1466.5 1518.5 344.55 263.47 FALSE TRUE FALSE 199.8284254 410.750925 335.3942304 621.5729801 923.380216 1602.353826 1301.48556 1479.658969 342.1522485 274.8294811 0.727099671 1.494566461 1.220372098 2.261667772 3.359829565 5.830356406 4.73561117 5.383916467 1.244961957 1 8.102392961 -5.710407561 1.372743118 0.921990095 5.36283833 0.951593924 0.407524292 0.0533546 0.200229061 0.059253608 0.158302417 1.95E-06 5.710407561 4.440848235 up PESSDS(ph)GLGEGDSK ddPTM_HeLa_SAHA_4h_R1 1 PESSDSGLGEGDSK 14 0 Q9UL17 Q9UL17 TBX21 T-box transcription factor TBX21 1 0 PESSDS(0.996)GLGEGDS(0.004)K 92.295 0.0078991 5060500 893.6 1023.7 909.37 769.77 915.85 1210.1 886.39 923.65 1103 822.23 TRUE FALSE FALSE 987.592948 1056.868552 1033.294208 784.6700115 845.6777709 1106.992672 786.6510643 900.0243704 1095.324133 857.6803592 1.151469702 1.23224059 1.204754425 0.914874642 0.986005756 1.290682083 0.917184422 1.049370387 1.277077318 1 9.744296273 -6.270064975 24.91919239 1.097038183 1.037123561 0.109156249 0.130790257 1640.429744 4739166.108 0.019682997 0.030319276 5.37E-07 6.270064975 -0.059914622 PFGSVS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 PFGSVSSPK 9 0 Q96HC4;A0A0D9SFR4 Q96HC4 PDLIM5 PDZ and LIM domain protein 5 1 0 PFGSVS(0.5)S(0.5)PK 108.43 0.0067601 6409300 3153.3 3460.8 2290.1 3732.2 3005.9 3960.7 3124.7 3012 4797 3737.4 TRUE FALSE FALSE 3484.978562 3572.932191 2602.182902 3804.442128 2775.588591 3623.226078 2773.100532 2934.957401 4763.617286 3898.537604 0.893919442 0.916480115 0.667476671 0.975863904 0.711956347 0.929380821 0.711318144 0.752835473 1.221898509 1 11.92871734 -10.09212879 0.033783807 1.971466717 1.11E-06 0.474414471 0.117445837 258.4145919 1.578326749 56.49227318 37.08577958 8.09E-11 10.09212879 -1.971465602 PFS(ph)GTTPSR ddPTM_HeLa_SAHA_4h_R1 1 PFSGTTPSR 9 0 A0A1B0GTR0 A0A1B0GTR0 1 0 PFS(0.333)GT(0.333)T(0.333)PSR 87.754 0.019828 59711000 2828 3030.4 2936.2 3285.4 3690.2 3680 3723.9 3008.2 3321.5 3622.3 TRUE FALSE FALSE 3125.462015 3128.586948 3336.330045 3348.993668 3407.457673 3366.443297 3304.876971 2931.2546 3298.385411 3778.47508 0.8271755 0.828002536 0.882983207 0.886334724 0.901807634 0.890952891 0.87465893 0.775777142 0.872940893 1 11.88358839 -9.339867274 1.007455083 1.001914846 0.86012209 0.098893473 0.05296111 0.273020207 0.485547941 0.028236516 0.007027733 4.57E-10 9.339867274 -0.141792756 PFSAPKPQTS(ph)PSPK ddPTM_HeLa_SAHA_4h_R1 1 PFSAPKPQTSPSPK 14 1 Q01518-2;Q01518 Q01518-2 CAP1 Adenylyl cyclase-associated protein 1 1 0 PFSAPKPQT(0.115)S(0.782)PS(0.103)PK 84.375 0.0080543 6680400 2579.4 3248.6 2276.1 3178.5 2815.3 3198.8 3377.8 2966.5 4708.1 3561.2 TRUE FALSE FALSE 2850.713127 3353.856771 2586.275055 3240.024464 2599.592322 2926.244244 2997.721054 2890.621225 4675.335949 3714.74076 0.767405671 0.902850828 0.696219527 0.872207423 0.699804506 0.787738481 0.80697988 0.778148843 1.258590101 1 11.85904582 -9.470740766 0.571288202 1.052100196 0.782726708 0.590614101 0.102405575 0.685274739 0.279483079 0.102486963 0.012853826 3.38E-10 9.470740766 -0.269373488 PGLSEAVLQQVLELLEDQSDIVSTMEHYYT(ph)AF ddPTM_HeLa_SAHA_4h_R1 1 PGLSEAVLQQVLELLEDQSDIVSTMEHYYTAF 32 0 Q9H668 Q9H668 OBFC1 CST complex subunit STN1 1 0 PGLSEAVLQQVLELLEDQS(0.002)DIVS(0.015)T(0.07)MEHY(0.297)Y(0.297)T(0.32)AF 44.264 0.01546 5680500 1042.3 1464 841.11 1193.9 1543.3 1506.4 1218.2 1175.5 2231.3 1785.5 TRUE FALSE FALSE 1151.933896 1511.434561 955.7320905 1217.009661 1425.052687 1378.046245 1081.12493 1145.432412 2215.772202 1862.481643 0.618494094 0.811516487 0.513149804 0.653434446 0.765136501 0.739897894 0.580475482 0.61500333 1.189688076 1 10.86301049 -9.33398319 0.733168432 1.03579163 0.65916663 0.712665177 0.105804777 0.395650479 0.32223808 0.093654498 0.017253227 4.63E-10 9.33398319 -0.376625 PGPTPSGTNVGSSGRS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 6 PGPTPSGTNVGSSGRSPSK 19 1 P60468 P60468 SEC61B Protein transport protein Sec61 subunit beta 1 0 PGPTPSGT(0.013)NVGS(0.011)S(0.377)GRS(0.505)PS(0.093)K;PGPTPSGTNVGS(0.005)S(0.049)GRS(0.871)PS(0.076)K;PGPTPSGTNVGSS(0.005)GRS(0.979)PS(0.017)K;PGPTPSGTNVGSS(0.017)GRS(0.98)PS(0.003)K;PGPTPSGTNVGS(0.026)S(0.087)GRS(0.887)PS(0.001)K;PGPTPSGTNVGSS(0.021)GRS(0.978)PS(0.001)K ;;;;; 147.87 4.05E-05 434210200 9236.34 19997.03 9387.14 8292.22 10258.19 9867.03 14096.75 10009.45 8157.7 11839.3 TRUE FALSE FALSE 10207.86062 20644.94689 10666.37055 8452.727909 9472.209698 9026.303534 12510.54659 9753.422763 8100.929902 12349.75016 0.82656414 1.671689437 0.863691201 0.684445256 0.766996058 0.730889566 1.013020217 0.789766808 0.655959011 1 13.59219424 -6.534466243 24.99998224 0.986395268 0.800719683 0.152227817 0.258702928 381.3605962 822781.6045 0.038856474 0.054976315 2.92E-07 6.534466243 -0.185675585 PGS(ph)LPLNAEACWPK ddPTM_HeLa_SAHA_4h_R1 1 PGSLPLNAEACWPK 14 0 Q01581;D6RIW1 Q01581 HMGCS1 "Hydroxymethylglutaryl-CoA synthase, cytoplasmic" 1 0 PGS(1)LPLNAEACWPK 110.57 0.0021913 6047500 1011.8 1011.7 929.11 965.12 928.85 1007.5 1154.3 1009.7 870.36 950.01 TRUE FALSE FALSE 1118.225766 1044.479744 1055.724272 983.8012932 857.6817137 921.655332 1024.415126 983.873336 864.3030939 990.9695803 1.128415835 1.053997786 1.065344783 0.99276639 0.865497519 0.930054111 1.033750325 0.99283909 0.872179238 1 9.952696962 -6.137801844 4.170564436 1.061824695 0.956454763 0.046617373 0.078000678 0.189528641 5.560333065 0.009639822 0.016375206 7.28E-07 6.137801844 -0.105369932 PGWLS(ph)SPTLGR ddPTM_HeLa_SAHA_4h_R1 1 PGWLSSPTLGR 11 0 C9J266;Q5XPI4;Q5XPI4-2;C9JS59 C9J266 RNF123 E3 ubiquitin-protein ligase RNF123 1 0 PGWLS(0.5)S(0.5)PT(0.001)LGR 107.03 0.0048955 6120900 3788.5 4291.6 3367.8 4612.4 3802.6 4714.4 4116.9 3825.6 4811.6 5161.8 TRUE FALSE FALSE 4186.991812 4430.650656 3826.746245 4701.679672 3511.24561 4312.706598 3653.655577 3727.746691 4778.115684 5384.350459 0.777622453 0.822875608 0.710716413 0.873212044 0.652120555 0.800970633 0.678569422 0.692329877 0.887408002 1 12.3945566 -13.52287875 0.155224648 1.979742744 0.667394643 0.557130367 0.069516233 21.74010768 0.227527716 6.438733896 0.114447905 3.00E-14 13.52287875 -1.312348101 PGWLSS(ph)PTLGR ddPTM_HeLa_SAHA_4h_R1 3 PGWLSSPTLGR 11 0 C9J266;Q5XPI4;Q5XPI4-2;C9JS59 C9J266 RNF123 E3 ubiquitin-protein ligase RNF123 1 0 PGWLS(0.317)S(0.654)PT(0.029)LGR;PGWLS(0.266)S(0.655)PT(0.079)LGR;PGWLS(0.005)S(0.995)PT(0.001)LGR ;; 144.7 0.00072468 18896500 6569.4 8814.5 5983.8 7932.4 7030.3 8368.4 7931.7 7017 9017.2 8481.2 TRUE FALSE FALSE 7260.399633 9100.095583 6799.241102 8085.943072 6491.639933 7655.365241 7039.204241 6837.5153 8954.448571 8846.866038 0.820674757 1.028623644 0.768547989 0.913989546 0.733778482 0.865319448 0.795672073 0.772874289 1.012160525 1 13.11095076 -13.52287875 0.153162492 1.616412361 0.775681789 0.480310965 0.075764051 46.0711227 0.477853709 8.598859881 0.160155883 3.00E-14 13.52287875 -0.840730572 PIPQT(ph)PESAGNK ddPTM_HeLa_SAHA_4h_R1 2 PIPQTPESAGNK 12 0 P52948-6;P52948-2;P52948-5;P52948;A0A3B3ITD8;P52948-4;P52948-3 P52948-6 NUP98 Nuclear pore complex protein Nup98-Nup96;Nuclear pore complex protein Nup98;Nuclear pore complex protein Nup96 1 0 PIPQT(0.86)PES(0.14)AGNK;PIPQT(0.969)PES(0.031)AGNK ; 138.75 0.00126 10963300 2945.2 4554.3 2545.9 3440.5 3119.5 4098.8 3421.9 2674.1 6503.1 3657.7 TRUE FALSE FALSE 3254.989649 4701.862308 2892.841994 3507.095853 2880.484584 3749.559181 3036.858806 2605.700394 6457.844398 3815.401347 0.853118546 1.232337539 0.75820123 0.919194479 0.754962407 0.982743056 0.795947406 0.682942673 1.692572762 1 11.89761911 PIS(ph)PSPSAILER ddPTM_HeLa_SAHA_4h_R1 1 PISPSPSAILER 12 0 Q5T5P2;Q5T5P2-9;Q5T5P2-2;Q5T5P2-7;Q5T5P2-10;Q5T5P2-3;Q5T5P2-4;Q5T5P2-8;Q5T5P2-6;Q5T5P0;Q5T5P1 Q5T5P2 KIAA1217 Sickle tail protein homolog 1 0 PIS(0.563)PS(0.34)PS(0.097)AILER 84.892 0.017151 4257100 644.36 886.68 600.38 771.73 667.26 1001.2 719.94 722.06 1080.6 788.56 TRUE FALSE FALSE 712.1367412 915.4090138 682.1966598 786.6679501 616.134683 915.8921274 638.9304564 703.5907507 1073.080017 822.5586807 0.865757979 1.11287989 0.829359261 0.956366966 0.749046478 1.11346722 0.776759727 0.855368458 1.304563482 1 9.683974793 PKFYLSS(ph)T(ph)TTASTKKMLS(ph)S(ph)K ddPTM_HeLa_SAHA_4h_R1 1 PKFYLSSTTTASTKKMLSSK 20 3 Q6UXX5 Q6UXX5 ITIH6 Inter-alpha-trypsin inhibitor heavy chain H6 4 0 PKFY(0.188)LS(0.455)S(0.489)T(0.691)T(0.141)T(0.083)AS(0.324)T(0.324)KKMLS(0.668)S(0.636)K 40.086 0.0088167 0 0 0 0 80.615 0 185.29 0 0 72.755 0 TRUE FALSE FALSE 0 0 0 82.1754199 0 169.5022496 0 0 72.24869203 0 0 PKPSSS(ph)PVIFAGGQDR ddPTM_HeLa_SAHA_4h_R1 1 PKPSSSPVIFAGGQDR 16 1 Q15366-2;Q15366;Q15366-3;Q15366-6;H3BSS4 Q15366-2 PCBP2 Poly(rC)-binding protein 2 1 0 PKPS(0.004)S(0.103)S(0.893)PVIFAGGQDR 82.189 0.006857 12202000 1514.9 1908.5 1158.9 1906.6 1725.6 1681 1598 1261.9 2329.9 1772.7 TRUE FALSE FALSE 1674.244133 1970.336652 1316.828857 1943.505 1593.384901 1537.769343 1418.188834 1229.622425 2313.686036 1849.129772 0.905422733 1.065548066 0.712134365 1.051037644 0.861694471 0.831617859 0.766949327 0.664973569 1.251229671 1 10.85263076 -3.081018883 0.404634541 0.963796901 2.13E-12 0.426932944 0.130409152 7.247010606 0.394335014 0.021656821 4.164470727 0.000829815 3.081018883 -0.963796901 PLDS(ph)S(ph)RQNGTEATSY(ph)Y(ph)WCK ddPTM_HeLa_SAHA_4h_R1 1 PLDSSRQNGTEATSYYWCK 19 1 Q9UHF7;Q9UHF7-3;Q9UHF7-2;E5RJ97 Q9UHF7 TRPS1 Zinc finger transcription factor Trps1 4 0 PLDS(0.609)S(0.625)RQNGT(0.596)EAT(0.538)S(0.434)Y(0.565)Y(0.633)WCK 40.186 0.0087424 0 168.41 144.99 166.1 71.606 163.48 288.04 211.98 313.67 303.79 188.85 TRUE FALSE FALSE 186.1241365 149.6877711 188.735243 72.99203767 150.9541977 263.4973715 188.1274525 305.6467756 301.6759007 196.9922477 0.944829752 0.759866304 0.958084621 0.370532539 0.766295118 1.337602746 0.954999269 1.551567532 1.531410013 1 7.621995046 -3.315234834 1.035916264 0.911538273 4.734806272 0.258472585 0.299895676 8.543310485 1.643852718 0.035194043 57.61247925 0.000483911 3.315234834 3.823267999 PLEGSSSEDSPPEGQAPPS(ph)HSPR ddPTM_HeLa_SAHA_4h_R1 1 PLEGSSSEDSPPEGQAPPSHSPR 23 0 Q12789-3;Q12789 Q12789-3 GTF3C1 General transcription factor 3C polypeptide 1 1 0 PLEGSSSEDSPPEGQAPPS(0.5)HS(0.5)PR 100.95 8.55E-05 7786500 1190.7 1329.7 672.67 1343.5 1236.9 1651.3 1415.9 1188.7 1817.5 1684.8 TRUE FALSE FALSE 1315.943289 1372.783152 764.3379645 1369.505385 1142.128989 1510.59995 1256.579206 1158.294775 1804.85187 1757.439973 0.748784203 0.781126624 0.434915545 0.779261543 0.649882219 0.859545688 0.715005477 0.659080704 1.026977818 1 10.7792597 -8.75204018 0.663098052 1.002885321 0.697690142 0.566779551 0.108041591 0.450623707 0.377935328 0.071263068 0.024455219 1.77E-09 8.75204018 -0.305195178 PLEGSSSEDSPPEGQAPPSHS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 PLEGSSSEDSPPEGQAPPSHSPR 23 0 Q12789-3;Q12789 Q12789-3 GTF3C1 General transcription factor 3C polypeptide 1 1 0 PLEGSSSEDSPPEGQAPPS(0.067)HS(0.933)PR 201.79 8.18E-22 7177900 735.5 952.48 565.89 1061.6 738.83 1182.9 942.57 764.12 1039.4 865.77 TRUE FALSE FALSE 812.8632646 983.3409769 643.0065422 1082.148803 682.221005 1082.110265 836.5095429 744.5749168 1032.166731 903.0975817 0.900083536 1.088853516 0.712001178 1.198263427 0.755423355 1.198220754 0.926267061 0.824467845 1.142918276 1 9.818738072 PLLSQEDS(ph)EEEENELEAINRK ddPTM_HeLa_SAHA_4h_R1 1 PLLSQEDSEEEENELEAINRK 21 1 Q9H1H9-3;Q9H1H9-4;Q9H1H9-2 Q9H1H9-3 KIF13A Kinesin-like protein KIF13A 1 0 PLLS(0.429)QEDS(0.571)EEEENELEAINRK 79.462 0.00079347 2719700 265.23 444.53 338.47 390.34 364.7 340.81 314.48 433.55 497.45 479.11 TRUE FALSE FALSE 293.1281083 458.9330637 384.5949289 397.8955951 336.7567648 311.7710707 279.0938827 422.4604188 493.9882049 499.7667768 0.586529801 0.918294462 0.769548811 0.796162557 0.673827834 0.623833126 0.558448252 0.845315132 0.988437463 1 8.965111188 -9.491445792 1.16018892 1.004607354 0.707384619 0.492818521 0.109781777 0.352466133 0.827379602 0.08635356 0.019720854 3.23E-10 9.491445792 -0.297222735 PLQTY(ph)T(ph)AVYYVLADLVMLT(ph)LYFYYK ddPTM_HeLa_SAHA_4h_R1 1 PLQTYTAVYYVLADLVMLTLYFYYK 25 0 A2A2E6 A2A2E6 PQLC2 3 0 PLQT(0.467)Y(0.487)T(0.508)AVY(0.451)Y(0.087)VLADLVMLT(0.254)LY(0.238)FY(0.254)Y(0.254)K 42.325 0.0083777 0 134.44 178.58 0 134.48 146.53 256.51 71.829 133.88 0 184.82 TRUE FALSE FALSE 148.581016 184.3661092 0 137.0830549 135.3029031 234.6539049 63.74661188 130.4555435 0 192.7884947 0.770694414 0.956312821 0 0.711054127 0.701820424 1.217157203 0.330655686 0.676677017 0 1 7.590875146 -8.123494788 0.79548622 0.966756928 0.651143804 0 0.433113759 0.780067407 1.0704264 0.106601038 0.071691844 7.52E-09 8.123494788 -0.315613124 PMEEDGEEKS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 2 PMEEDGEEKSPSK 13 1 Q12906;Q12906-7;Q12906-5;Q12906-4;Q12906-2;Q12906-6;Q12906-3 Q12906 ILF3 Interleukin enhancer-binding factor 3 1 0 PMEEDGEEKS(0.912)PS(0.088)K;PMEEDGEEKS(0.891)PS(0.109)K ; 193.45 5.14E-07 32549800 6964.6 6897.2 5391.76 7454.8 6311.85 7569.1 7615.1 6692.5 8678.4 7712.5 TRUE FALSE FALSE 7697.168583 7120.673805 6126.520974 7599.098434 5828.237417 6924.170097 6758.228906 6521.315541 8618.006308 8045.023619 0.956761465 0.885102909 0.761529271 0.944571302 0.724452493 0.860677411 0.840050847 0.810602411 1.071222002 1 12.97388094 -7.201355947 2.232960716 0.982257327 0.82640706 0.628659554 0.062670268 0.136722617 1.301659833 0.009188462 0.01113871 6.29E-08 7.201355947 -0.155850266 PMFIVNTNVPR ddPTM_HeLa_SAHA_4h_R1 2 PMFIVNTNVPR 11 0 P14174 P14174 MIF Macrophage migration inhibitory factor 0 0 ; ; 206.43 1.24E-24 10442700 890.3 846.78 1149.73 1097.22 1050.04 860.81 1360.61 638.34 813.23 1292.51 FALSE FALSE TRUE 983.9458388 874.2162276 1306.409217 1118.45828 969.5861621 787.4641452 1207.510582 622.0121871 807.5706662 1348.236431 0.729802144 0.648414631 0.96897635 0.829571323 0.719151433 0.584069772 0.895622276 0.461352455 0.598982973 1 10.3968578 -13.52287875 0.178924389 2.124895433 0.668799428 0 0.184810458 44.52686877 0.509280994 17.4973804 0.184157566 3.00E-14 13.52287875 -1.456096005 PMPVT(ph)KAMPVTK ddPTM_HeLa_SAHA_4h_R1 1 PMPVTKAMPVTK 12 1 Q96KM6 Q96KM6 ZNF512B Zinc finger protein 512B 1 0 PMPVT(0.574)KAMPVT(0.426)K 45.915 0.0088446 0 810 1155.3 747.49 955.98 1067.5 1116.8 1012.1 850.32 805.3 1093.4 TRUE FALSE FALSE 895.1995164 1192.732478 849.3540444 974.4843753 985.7083806 1021.642357 898.2158443 828.5700456 799.6958517 1140.541825 0.784889687 1.045759526 0.744693466 0.85440477 0.864245711 0.895751769 0.787534332 0.726470549 0.701154341 1 10.15550364 -13.52287875 0.307660051 2.5265165 0.82423485 0 0.12842369 40.43638901 0.546879017 38.37483407 0.033549942 3.00E-14 13.52287875 -1.702281649 PMY(ph)GVT(ph)AS(ph)ARTK ddPTM_HeLa_SAHA_4h_R1 1 PMYGVTASARTK 12 1 C9J052;Q9NSU2-2;Q9NSU2;Q9NSU2-1 C9J052 TREX1 Three-prime repair exonuclease 1 3 0 PMY(1)GVT(1)AS(0.998)ART(0.002)K 72.652 0.011319 5527800 2484.1 2080.7 2471.2 2011.2 2309.1 1925.5 2279.1 2090.4 1987.3 2166.9 TRUE FALSE FALSE 2745.389035 2148.116045 2807.962267 2050.129684 2132.177257 1761.436567 2022.64967 2036.930595 1973.470217 2260.325664 1.214598887 0.95035688 1.242282168 0.90700633 0.943305335 0.779284417 0.894848783 0.901166866 0.873091099 1 11.14231493 -6.12147577 6.937449374 1.099651735 0.879844084 0.326669209 0.114902521 0.154930887 8.20646495 0.015455884 0.025753049 7.56E-07 6.12147577 -0.219807651 PNNSGEAPSS(ph)PTPK ddPTM_HeLa_SAHA_4h_R1 2 PNNSGEAPSSPTPK 14 0 K7ENR9;K7ERZ5;P49916-4;P49916-3;P49916-2;P49916 K7ENR9 LIG3 DNA ligase 3 1 0 PNNSGEAPS(0.011)S(0.988)PTPK;PNNSGEAPS(0.213)S(0.684)PT(0.103)PK ; 162.41 4.28E-12 0 1983.64 2879 1391.57 2350.2 2351.4 2374 2464 1676.17 3054.5 2741.6 TRUE FALSE FALSE 2192.288356 2972.281489 1581.205913 2395.691519 2171.23624 2171.721844 2186.744235 1633.295998 3033.243486 2859.803793 0.766586981 1.039330564 0.552907132 0.837711848 0.759225596 0.7593954 0.764648344 0.571121698 1.06064741 1 11.48170045 -13.52287874 0.112173479 1.823283841 0.602541261 0.490449494 0.12040464 71.4528215 0.586694332 13.52643776 0.663425078 3.00E-14 13.52287874 -1.22074258 PPAPRR ddPTM_HeLa_SAHA_4h_R1 2 PPAPRR 6 1 H3BUH4 H3BUH4 NDRG4 0 0 ; ; 9.9185 0.023622 357160 124.16 349.76 315.93 498.73 398.62 527.26 368.34 290.328 682.05 612.36 FALSE FALSE TRUE 137.2197185 361.0924535 358.9832951 508.3836403 368.0778217 482.3344817 326.8934138 282.9018301 677.3035585 638.7618364 0.21482141 0.565300606 0.561998658 0.79588919 0.576236401 0.755108484 0.511761028 0.44289094 1.060338173 1 9.31913431 -9.610446048 1.432441125 0.99858182 0.517623912 0.585165837 0.157097598 0.289951678 1.073040731 0.131896528 0.030739014 2.45E-10 9.610446048 -0.480957909 PPDYES(ph)RT(ph)SGTRRAPSPVVSPTEMNK ddPTM_HeLa_SAHA_4h_R1 1 PPDYESRTSGTRRAPSPVVSPTEMNK 26 3 H7C1X5;E7EUA2;A6NHU9;A0A0A0MSQ6;A0A590UJ45;Q9UPX8-4;Q9UPX8;Q9UPX8-3 H7C1X5 SHANK2 SH3 and multiple ankyrin repeat domains protein 2 2 0 PPDY(0.11)ES(0.468)RT(0.468)S(0.468)GT(0.468)RRAPS(0.008)PVVS(0.009)PT(0.001)EMNK 43.523 0.021131 10063000 449.55 478.1 438.06 658.5 520.05 277.16 612.66 289.97 511.85 447.73 TRUE FALSE FALSE 496.8357316 493.5907537 497.7565355 671.2462197 480.2038814 253.5444087 543.7218844 282.5529873 508.2879942 467.0338314 1.063811009 1.056862952 1.065782609 1.437253951 1.028199349 0.542882317 1.164202351 0.604994688 1.088332279 1 8.867383251 -3.620699411 0.757171251 1.054788583 4.07E-11 0.275892882 0.208975115 6.915948694 1.430553384 0.032954825 7.778755036 0.000239497 3.620699411 -1.054788583 PPPNHEQVLRR ddPTM_HeLa_SAHA_4h_R1 1 PPPNHEQVLRR 11 1 G3V4R8;G3V2J9;Q6EMB2-2;Q6EMB2 G3V4R8 TTLL5 Tubulin polyglutamylase TTLL5 0 0 74.162 0.023687 2163700 323.32 424.74 869.25 1246.7 779.35 836.35 494.06 609.94 850.42 885.87 FALSE FALSE TRUE 357.328281 438.5018547 987.7068631 1270.831681 719.6363714 765.0882748 438.4670685 594.338618 844.501858 924.064191 0.386692055 0.47453614 1.068872566 1.375263422 0.77877314 0.827960094 0.474498496 0.64317893 0.91389956 1 9.851849263 -4.766110048 24.93137721 0.772037831 0.558838707 0.099399881 0.27901279 246.5666584 1316174.763 0.047641495 0.150120965 1.71E-05 4.766110048 -0.213199125 PPY(ph)S(ph)YIALIAMAIAHAPER ddPTM_HeLa_SAHA_4h_R1 1 PPYSYIALIAMAIAHAPER 19 0 O00358 O00358 FOXE1 Forkhead box protein E1 2 0 PPY(0.527)S(0.946)Y(0.527)IALIAMAIAHAPER 50.966 0.0084637 0 363.54 427.04 500.58 488.53 484.54 460.24 348.98 428.03 505.89 782.52 TRUE FALSE FALSE 401.7788052 440.8763762 568.7964355 497.9862046 447.4146499 421.0249628 309.7118519 417.0816124 502.3694703 816.2582668 0.492220197 0.540118727 0.696833905 0.610084118 0.548128782 0.515798712 0.379428748 0.510967704 0.615454067 1 9.672881888 -9.454159103 0.591073397 1.105776541 0.52594896 0.183367834 0.143012712 0.45668618 0.204073319 0.149943087 0.019641626 3.51E-10 9.454159103 -0.579827581 PQMLET(ph)KVFPRPVLPS(ph)LT(ph)HRK ddPTM_HeLa_SAHA_4h_R1 1 PQMLETKVFPRPVLPSLTHRK 21 3 Q6P387-2 Q6P387-2 3 0 PQMLET(1)KVFPRPVLPS(1)LT(1)HRK 46.404 0.018449 7072900 245.29 224.45 455.33 339.81 390.33 363.4 442.53 349.64 362.13 324.32 TRUE FALSE FALSE 271.0907276 231.7223273 517.3800011 346.3875139 360.4229997 332.4362756 392.7353597 340.6967151 359.6099078 338.3030224 0.801325172 0.684954943 1.529338986 1.02389719 1.065385101 0.982658308 1.16089817 1.007075588 1.062981659 1 8.402172256 PQSPVIQAAAVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 PQSPVIQAAAVSPK 14 0 Q9Y6D5 Q9Y6D5 ARFGEF2 Brefeldin A-inhibited guanine nucleotide-exchange protein 2 1 0 PQSPVIQAAAVS(1)PK 115.26 0.0013723 3475100 1186.2 1399.7 978.82 1091.6 1337.9 1482.7 1206.6 1293 1360.3 1223.5 TRUE FALSE FALSE 1310.969958 1445.051198 1112.208492 1112.729496 1235.390391 1356.365619 1070.830192 1259.926932 1350.833562 1276.251073 1.027203805 1.132262475 0.871465275 0.871873505 0.967983822 1.062773343 0.83904352 0.987209303 1.058438728 1 10.31769646 -6.740410857 24.99925998 1.022161428 0.93376004 0.376702875 0.071630445 242.8475117 288702.7234 0.010951572 0.015478581 1.82E-07 6.740410857 -0.088401388 PQT(ph)LRQRMAEESISRNEETSEESQEDEK ddPTM_HeLa_SAHA_4h_R1 1 PQTLRQRMAEESISRNEETSEESQEDEK 28 3 P16383;P16383-4 P16383 GCFC2 GC-rich sequence DNA-binding factor 2 1 0 PQT(0.952)LRQRMAEES(0.047)ISRNEETSEESQEDEK 41.423 0.016023 19853000 628.88 687.74 660.38 603.85 820.07 919.86 779.29 839.5 872.29 552.13 TRUE FALSE FALSE 695.0284838 710.0232272 750.3731473 615.5383899 757.2364138 841.482753 691.6022382 818.0268056 866.2196629 575.9350264 1.2067828 1.232818278 1.302878125 1.068763596 1.314794862 1.461072368 1.200833786 1.420345643 1.504023237 1 9.169762254 -13.52287873 0.082097775 2.28E-07 1.573380684 0 0.183987105 81.9600257 0.515078318 14.71563168 1.543101224 3.00E-14 13.52287873 1.573380456 PQYQTWEEFSR ddPTM_HeLa_SAHA_4h_R1 2 PQYQTWEEFSR 11 0 P49458;Q6P2S0;Q659G3;E9PE20;P49458-2 P49458 SRP9;DKFZp564M2223 Signal recognition particle 9 kDa protein 0 0 ; ; 180.88 0.00014255 27966000 1368.81 978.54 1074.41 1050.97 840.58 1093.34 1240.03 804.29 875.88 1228.45 FALSE FALSE TRUE 1512.787716 1010.245338 1220.825 1071.313044 776.174942 1000.181281 1100.498561 783.7174264 869.7846798 1281.414491 1.180560799 0.788382951 0.952716711 0.836039432 0.605717313 0.780529085 0.858815448 0.611603374 0.678769193 1 10.3235215 -6.725138338 1.233106713 1.081159821 0.738048369 0.028526458 0.168645411 0.211606728 0.645825518 0.021890002 0.033567366 1.88E-07 6.725138338 -0.343111452 PS(ph)S(ph)AVLS(ph)S(ph)MTLSNAATSPER ddPTM_HeLa_SAHA_4h_R1 2 PSSAVLSSMTLSNAATSPER 20 0 Q8WXI7 Q8WXI7 MUC16 Mucin-16 4 0 PS(0.999)S(0.999)AVLS(0.994)S(0.67)MT(0.29)LS(0.029)NAAT(0.009)S(0.009)PER;PS(0.956)S(0.967)AVLS(0.964)S(0.488)MT(0.127)LS(0.045)NAAT(0.144)S(0.31)PER ; 60.09 0.0055573 0 1754.34 2054.18 1570.95 1941.33 2161.82 2196.51 2448.87 2096.44 2413.76 1959.83 TRUE FALSE FALSE 1938.86953 2120.73678 1785.030885 1978.907249 1996.181819 2009.354991 2173.316703 2042.8161 2396.962448 2044.327862 0.948414179 1.037376058 0.873162724 0.967998962 0.976448962 0.982892729 1.063095965 0.999260509 1.172494144 1 10.99741087 -4.903506532 6.6433084 0.971738343 1.030719304 0 0.075997671 0.217226513 12.69338819 0.005720901 0.017473701 1.25E-05 4.903506532 0.058980961 PS(ph)SPLKMFS(ph)T(ph)LEK ddPTM_HeLa_SAHA_4h_R1 1 PSSPLKMFSTLEK 13 1 Q5TB80-2;Q5TB80 Q5TB80-2 CEP162 Centrosomal protein of 162 kDa 3 0 PS(0.719)S(0.281)PLKMFS(1)T(1)LEK 55.546 0.0087056 0 429.72 305.04 352.87 347.79 424.59 600.21 400.21 543.77 377.86 339.2 TRUE FALSE FALSE 474.9199212 314.9234961 400.9572859 354.5219784 392.0580059 549.0687313 355.1773175 529.8611508 375.2304415 353.824572 1.342246861 0.890055471 1.133209273 1.001971051 1.1080576 1.551810628 1.00382321 1.497525024 1.060498538 1 8.466890432 -1.000000007 0.662848718 1.134654943 29.31321468 0.239338255 0.187421247 313.4768794 1.789384026 0.033551913 13023.49875 0.099999998 1.000000007 28.17855974 PSANRENFS(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 PSANRENFSPER 12 1 A0A2R8Y880;Q7Z6E9-2;Q7Z6E9;H3BSK8 A0A2R8Y880 RBBP6 E3 ubiquitin-protein ligase RBBP6 1 0 PSANRENFS(1)PER 143.55 0.0024097 70559000 2033.4 1656.1 1309.8 1539.2 1460.7 1641.1 1818.2 1914.7 1085.2 1995 TRUE FALSE FALSE 2247.282342 1709.758727 1488.292723 1568.993442 1348.781482 1501.269047 1613.611351 1865.724746 1077.648005 2081.014213 1.079897642 0.821598774 0.715176626 0.753956139 0.648136602 0.721412203 0.775396603 0.896545893 0.517847499 1 11.0230711 -7.134702683 3.992860801 1.037535502 0.748102646 0 0.175715595 0.072705268 2.006829502 0.011274088 0.013932561 7.33E-08 7.134702683 -0.289432856 PSDSVSSTPAATST(ph)PSK ddPTM_HeLa_SAHA_4h_R1 1 PSDSVSSTPAATSTPSK 17 0 H0Y5D5;A0A494C0L7;Q9BTG3;Q5SYW2;F5H2X7;Q9ULV3-5;Q9ULV3-3;Q9ULV3-4;Q9ULV3-2;Q9ULV3 H0Y5D5 CIZ1 Cip1-interacting zinc finger protein 1 0 PSDSVSSTPAATS(0.021)T(0.979)PSK 190.41 9.51E-12 5829400 2080.4 2861.9 1516.5 2361.7 2366.2 1618.9 2330.3 1791.5 3838.9 2629.4 TRUE FALSE FALSE 2299.226017 2954.627438 1723.160722 2407.414119 2184.902267 1480.960612 2068.088511 1745.676024 3812.184782 2742.766302 0.838287249 1.077243597 0.628256487 0.877732134 0.796605334 0.539951439 0.754015575 0.636465463 1.389905068 1 11.42141599 -2.800584901 0.133136583 1.073737452 1.82E-11 0.464093123 0.174677474 29.39690316 0.419649215 0.424396692 5.659794526 0.00158276 2.800584901 -1.073737452 PSFDEALQR ddPTM_HeLa_SAHA_4h_R1 1 PSFDEALQR 9 0 O75751 O75751 SLC22A3 Solute carrier family 22 member 3 0 0 125.81 0.016311 36797000 1438.2 1509.4 1301.2 1501.3 1671.2 1726.6 1667.5 1244.5 1505.5 1486.9 FALSE FALSE TRUE 1589.476475 1558.30555 1478.52076 1530.359832 1543.153017 1579.483966 1479.868511 1212.667492 1495.023103 1551.007536 1.024802548 1.004705338 0.953264717 0.986687554 0.99493586 1.018359956 0.954133669 0.781857898 0.963904474 1 10.59898998 -4.27324944 2.58879792 1.004607647 0.738562338 0.877347075 0.023305464 0.101878786 0.885452978 0.003135829 0.058065248 5.33E-05 4.27324944 -0.266045309 PSKSARS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 PSKSARSPR 9 2 A0A494C050;Q8N5F7 A0A494C050 NKAP NF-kappa-B-activating protein 1 0 PSKSARS(1)PR 76.332 0.022223 11448000 2852.3 1834.4 3056.8 2901.6 2880.6 2196.3 2795.1 2078.4 1544.8 2457.5 TRUE FALSE FALSE 3152.318001 1893.835764 3473.364785 2957.764664 2659.88905 2009.162884 2480.587992 2025.237537 1534.049611 2563.454852 1.229714656 0.73878257 1.354954538 1.153819683 1.03761884 0.783771512 0.967673759 0.79004221 0.598430517 1 11.32387377 -5.421327842 4.723251978 1.103391688 0.860891225 0.019617312 0.22432713 0.206982315 7.450134341 0.022866733 0.052170488 3.79E-06 5.421327842 -0.242500463 PSMSPT(ph)PLDR ddPTM_HeLa_SAHA_4h_R1 2 PSMSPTPLDR 10 0 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 PSMS(0.317)PT(0.683)PLDR;PSMS(0.267)PT(0.733)PLDR ; 125.74 0.0039403 48792000 3392.2 4271.7 2296.9 4054.8 3485.5 3929.3 3540.3 3389.9 6009.3 3863.7 TRUE FALSE FALSE 3749.00716 4410.105883 2609.90957 4133.286517 3218.441743 3594.501534 3141.936126 3303.191267 5967.480792 4030.283015 0.930209404 1.094242232 0.647574763 1.025557387 0.798564699 0.891873231 0.779582008 0.819592881 1.480660482 1 11.97666544 -5.462513754 0.227604208 1.013677234 0.703038027 0.23629117 0.190407766 6.37764452 0.479186154 0.117766653 0.577576679 3.45E-06 5.462513754 -0.310639206 PSS(ph)SPVIFAGGQDR ddPTM_HeLa_SAHA_4h_R1 4 PSSSPVIFAGGQDR 14 0 Q15366-2;Q15366;Q15366-3;Q15366-6;H3BSS4 Q15366-2 PCBP2 Poly(rC)-binding protein 2 1 0 PS(0.012)S(0.604)S(0.385)PVIFAGGQDR;PS(0.022)S(0.571)S(0.406)PVIFAGGQDR;PS(0.021)S(0.912)S(0.067)PVIFAGGQDR;PS(0.006)S(0.61)S(0.385)PVIFAGGQDR ;;; 173.25 1.59E-06 76485000 5547.56 7235.8 5098.16 7074 5918.2 7228.3 7101.3 5852.35 9789.2 6731.5 TRUE FALSE FALSE 6131.077814 7470.244668 5792.910695 7210.927499 5464.748795 6612.408175 6302.243034 5702.655361 9721.07616 7021.727908 0.873157988 1.063875554 0.824997888 1.026944876 0.778262682 0.941706694 0.897534498 0.812144167 1.38442792 1 12.77761038 -13.52287875 0.182230865 1.407851918 0.874799956 0.206016852 0.149608329 72.67967469 0.840017105 10.7048189 0.104918335 3.00E-14 13.52287875 -0.533051963 PSSS(ph)DTALGGGGGLSWAEK ddPTM_HeLa_SAHA_4h_R1 1 PSSSDTALGGGGGLSWAEK 19 0 Q14004-2;Q14004 Q14004-2 CDK13 Cyclin-dependent kinase 13 1 0 PS(0.001)S(0.085)S(0.885)DT(0.029)ALGGGGGLSWAEK 110.77 0.00011847 0 398.29 498.45 311.2 425.23 553.31 426.01 515.55 303.89 318.45 402.63 TRUE FALSE FALSE 440.1839696 514.600107 353.6087153 433.4609415 510.9155073 389.7115513 457.5389571 296.1169338 316.2338805 419.9893497 1.048083648 1.22526942 0.841946863 1.032076032 1.216496341 0.927908176 1.089406094 0.705058197 0.752956904 1 8.714208934 -4.255519379 24.33997923 1.035141856 0.705057986 0.290684664 0.142072556 301.2000399 1238324.985 0.013940077 0.166433103 5.55E-05 4.255519379 -0.33008387 PSSTS(ph)PDQGDDLENCILR ddPTM_HeLa_SAHA_4h_R1 3 PSSTSPDQGDDLENCILR 18 0 Q5T7X0;Q5T7W7 Q5T7X0 TSTD2 Thiosulfate sulfurtransferase/rhodanese-like domain-containing protein 2 1 0 PSS(0.061)T(0.136)S(0.803)PDQGDDLENCILR;PS(0.016)S(0.071)T(0.331)S(0.581)PDQGDDLENCILR;PS(0.006)S(0.144)T(0.204)S(0.646)PDQGDDLENCILR ;; 108.66 0.0013168 6157900 931.78 787.9 767.48 873.3 971.44 979.1 846.35 1159.72 1163.57 837.36 TRUE FALSE FALSE 1029.788896 813.428477 872.0681775 890.2039843 897.0084771 895.6751717 751.1164705 1130.056042 1155.472622 873.4626875 1.178972966 0.931268718 0.998403469 1.019166585 1.026956835 1.025430376 0.859929658 1.293765673 1.322864317 1 9.770602265 -7.256110315 24.98499974 1.084515011 1.015178884 0.113632489 0.134970537 912.470077 4278064.985 0.01901436 0.022917107 5.54E-08 7.256110315 -0.069336127 PSSTTPTPLVSETGGNS(ph)PSDKVDNELK ddPTM_HeLa_SAHA_4h_R1 1 PSSTTPTPLVSETGGNSPSDKVDNELK 27 1 A0A3B3IRW6;Q2KHR3-2;Q2KHR3;H0YCQ7 A0A3B3IRW6 QSER1 Glutamine and serine-rich protein 1 1 0 PSSTTPTPLVS(0.002)ET(0.007)GGNS(0.937)PS(0.054)DKVDNELK 126.55 1.26E-08 5268400 1078.1 1626.5 975.05 1328.1 1291.7 1261.2 1278.5 1093.1 1852.3 1740.3 TRUE FALSE FALSE 1191.499504 1679.199667 1107.924736 1353.807296 1192.730225 1153.738665 1134.639815 1065.140085 1839.409693 1815.33285 0.656353189 0.925009244 0.610314927 0.745762572 0.657031147 0.635552133 0.62503128 0.586746439 1.013263046 1 10.82601838 -13.52287875 0.189835234 2.458831578 0.604546513 0.733783389 0.082318759 21.69605403 0.256446775 11.72117917 0.097679867 3.00E-14 13.52287875 -1.854285064 PST(ph)T(ph)HTFRQS(ph)DTPRK ddPTM_HeLa_SAHA_4h_R1 1 PSTTHTFRQSDTPRK 15 2 H0Y965;A5PLN7-2;A5PLN7-4;A5PLN7 H0Y965 FAM149A Protein FAM149A 3 0 PS(0.07)T(0.985)T(0.945)HT(0.006)FRQS(0.648)DT(0.347)PRK 103.14 0.0060613 10889000 250.87 432.9 461.86 2037.3 812.34 5599.1 1032.9 830.94 1076.6 659.06 TRUE FALSE FALSE 277.2576576 446.926244 524.7998755 2076.734887 750.0986847 5122.02518 916.6753736 809.685758 1069.107853 687.475302 0.403298354 0.650097891 0.763372697 3.020813812 1.091091829 7.450486098 1.333393899 1.177767049 1.555121835 1 9.425164074 -6.264811564 21.4785828 0.707951516 2.894201952 0.233661196 1.74101852 40.63221012 258804.7166 0.251102764 0.394146657 5.43E-07 6.264811564 2.186250436 PSTQPRPDS(ph)WGEDNWEGLETDSR ddPTM_HeLa_SAHA_4h_R1 1 PSTQPRPDSWGEDNWEGLETDSR 23 1 H0YDH0;E9PPN3;E9PS17;Q96KG9-3;Q96KG9-2;Q96KG9 H0YDH0 SCYL1 N-terminal kinase-like protein 1 0 PS(0.035)T(0.032)QPRPDS(0.923)WGEDNWEGLET(0.007)DS(0.002)R 50.827 0.014303 2164900 180.54 198.48 66.276 213.21 293.63 354.77 229.03 213.63 322.11 175.02 TRUE FALSE FALSE 199.5300255 204.9108822 75.30774813 217.3369879 271.1321328 324.5416001 203.2589416 208.1656539 319.8684103 182.5659687 1.092920148 1.12239364 0.412496089 1.190457287 1.485118693 1.77766756 1.113345182 1.140221561 1.752070293 1 7.512274054 -5.999873213 24.56591021 1.000056074 1.382228088 0.124786982 0.351022274 3.327674828 644349.6515 0.038420239 0.069118747 1.00E-06 5.999873213 0.382172015 PSTRILS(ph)IMY(ph)YAR ddPTM_HeLa_SAHA_4h_R1 1 PSTRILSIMYYAR 13 1 Q9UJA5-3;Q9UJA5-2;Q9UJA5 Q9UJA5-3 TRMT6 tRNA (adenine(58)-N(1))-methyltransferase non-catalytic subunit TRM6 2 0 PSTRILS(1)IMY(0.5)Y(0.5)AR 73.881 0.0092361 1563200 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 PSVS(ph)ENLY(ph)PPS(ph)RK ddPTM_HeLa_SAHA_4h_R1 1 PSVSENLYPPSRK 13 1 Q76M96;Q76M96-2 Q76M96 CCDC80 Coiled-coil domain-containing protein 80 3 0 PS(0.014)VS(0.987)ENLY(1)PPS(1)RK 65.956 0.015708 7422000 1708 1976.5 1902.2 1962.7 2547.8 3166.6 3427.7 2949.1 1540 1807.3 TRUE FALSE FALSE 1887.655277 2040.539897 2161.42191 2000.690897 2352.588114 2896.787865 3042.006175 2873.666292 1529.283015 1885.221548 1.001290951 1.082387319 1.146508172 1.06124975 1.247910686 1.536576891 1.613606729 1.524312246 0.811195383 1 10.88051836 -5.464057555 1.540954542 1.017140193 1.591532566 0.894672416 0.083273091 0.060218615 0.276409924 0.008623835 0.026323004 3.44E-06 5.464057555 0.574392373 PT(ph)NAAT(ph)ATSHSTASRSNSLVSTFTMEK ddPTM_HeLa_SAHA_4h_R1 1 PTNAATATSHSTASRSNSLVSTFTMEK 27 1 Q9HB21 Q9HB21 PLEKHA1 Pleckstrin homology domain-containing family A member 1 2 0 PT(0.897)NAAT(0.698)AT(0.168)S(0.168)HS(0.04)T(0.011)AS(0.014)RS(0.001)NS(0.001)LVS(0.001)TFTMEK 50.426 0.0057962 0 0 69.836 0 0 0 182.19 133.51 138.43 100.14 135.7 TRUE FALSE FALSE 0 72.09873222 0 0 0 166.666387 118.4871034 134.889161 99.44311759 141.5506911 0 0.509349207 0 0 0 1.177432521 0.837064818 0.952938908 0.702526542 1 7.145174983 -5.248597575 24.959817 0.404565319 0.973937365 0.433773363 0.341991363 860.9875733 1673444.482 0.06475298 0.163926443 5.64E-06 5.248597575 0.569372046 PT(ph)S(ph)IPT(ph)SSALPVK ddPTM_HeLa_SAHA_4h_R1 1 PTSIPTSSALPVK 13 0 Q5JVX7 Q5JVX7 C1orf141 Uncharacterized protein C1orf141 3 0 PT(0.991)S(0.992)IPT(0.534)S(0.442)S(0.041)ALPVK 72.089 0.0087688 0 2255.5 3327.3 1750.5 2372.4 2847.8 2821.6 2211.6 2292.3 4329.8 2923.1 TRUE FALSE FALSE 2492.743839 3435.106703 1989.049024 2418.321233 2629.602179 2581.183806 1962.744947 2233.666285 4299.668569 3049.129146 0.817526487 1.126586162 0.652333479 0.793118663 0.862410889 0.846531479 0.643706728 0.732558766 1.410130028 1 11.57418154 -2.842558171 0.05438834 1.352685456 6.22E-10 0.355761967 0.179082905 217.4495027 1.291295969 9.040404395 27.6415993 0.001436951 2.842558171 -1.352685456 PT(ph)SEFT(ph)RR ddPTM_HeLa_SAHA_4h_R1 1 PTSEFTRR 8 1 A1L4H1-2;A1L4H1 A1L4H1-2 SSC5D Soluble scavenger receptor cysteine-rich domain-containing protein SSC5D 2 0 PT(0.88)S(0.121)EFT(1)RR 64.757 0.020078 8980000 955.07 701.27 1030.3 1368.4 633.53 1106.9 969.45 1077.2 972.59 568.5 TRUE FALSE FALSE 1055.528645 723.9916081 1170.703918 1394.887361 584.9890683 1012.585893 860.3649345 1049.646784 965.821667 593.0108172 1.779948382 1.220874202 1.974169584 2.352212338 0.986472846 1.707533595 1.45084189 1.770029742 1.628674619 1 9.211914611 -9.349933343 0.841201399 0.956426069 1.65893276 0.008012693 0.408260951 0.691111484 0.785505071 0.329035572 0.067456734 4.47E-10 9.349933343 0.702506691 PT(ph)SLKT(ph)AQS(ph)S(ph)WVNLPRPLPKS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 PTSLKTAQSSWVNLPRPLPKSK 22 3 Q9ULD2 Q9ULD2 MTUS1 Microtubule-associated tumor suppressor 1 5 0 PT(0.845)S(0.497)LKT(0.865)AQS(0.897)S(0.897)WVNLPRPLPKS(1)K 44.468 0.015318 11044000 0 172.25 296.39 214.92 267.42 363.87 301.87 267.29 372.27 366.69 TRUE FALSE FALSE 0 177.831013 336.7804857 219.0800874 246.9303374 332.8662289 267.9027931 260.4531088 369.6793428 382.4998004 0 0.464917924 0.880472317 0.572758697 0.645569846 0.870238961 0.700399825 0.680923516 0.966482446 1 8.579315185 -6.783119475 24.7554316 0.509868825 0.720002626 0 0.280742838 486.1896311 555154.084 0.061471269 0.080830114 1.65E-07 6.783119475 0.210133801 PTEATVSLS(ph)SLVDYPHQAR ddPTM_HeLa_SAHA_4h_R1 1 PTEATVSLSSLVDYPHQAR 19 0 Q92619;K7ES92;F5H1R4;K7ES98;K7EM85;Q92619-2 Q92619 HMHA1 Minor histocompatibility protein HA-1;Minor histocompatibility antigen HA-1 1 0 PTEATVS(0.001)LS(0.964)S(0.036)LVDYPHQAR 129.85 6.65E-05 4482500 624.82 1114.7 669.74 817.16 994.29 800.88 805.49 630.2 703.41 814.8 TRUE FALSE FALSE 690.5414344 1150.817011 761.0086793 832.9773134 918.107715 732.6405184 714.8541453 614.0803965 698.5149125 849.9300155 0.812468582 1.354013849 0.895378049 0.980054002 1.080215663 0.862000994 0.841074126 0.722507013 0.821849917 1 9.731200242 -4.643901168 1.877896243 0.95680957 0.729213088 0.233008136 0.149542673 0.563288541 3.308117546 0.021816177 0.171873729 2.27E-05 4.643901168 -0.227596482 PTS(ph)SPAKGPPQK ddPTM_HeLa_SAHA_4h_R1 1 PTSSPAKGPPQK 12 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 PT(0.024)S(0.647)S(0.329)PAKGPPQK 126.76 0.005374 7186300 1190.5 1551.1 724.16 1149.5 1070.4 1794.4 1042 1576.9 1879.9 1505.5 TRUE FALSE FALSE 1315.722252 1601.356658 822.8447535 1171.750235 988.3861832 1641.507025 924.7514176 1536.565181 1866.817623 1570.409473 0.837821138 1.019706443 0.523968282 0.746143127 0.62938119 1.045273257 0.588860061 0.978448747 1.188745773 1 10.61692506 -8.28008284 0.590874123 0.992080568 0.771609326 0.267091083 0.182499617 0.893865999 0.684370821 0.087919599 0.044354745 5.25E-09 8.28008284 -0.220471243 PTSS(ph)PAKGPPQK ddPTM_HeLa_SAHA_4h_R1 1 PTSSPAKGPPQK 12 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 PTS(0.03)S(0.97)PAKGPPQK 151.16 0.0015334 6390100 704.57 991.14 488.93 962.41 694.13 1049.5 916.75 1074.3 1522 1000.5 TRUE FALSE FALSE 778.6799053 1023.253586 555.5588342 981.0388372 640.9459094 960.0766957 813.5948772 1046.820962 1511.408278 1043.636451 0.746121798 0.980469382 0.532329849 0.940019713 0.614146726 0.919934039 0.779576907 1.00305136 1.448213385 1 10.02740352 -9.413852562 1.026747931 1.005242694 0.804894324 0.272970788 0.206156004 0.683011291 1.232211022 0.103805314 0.023614741 3.86E-10 9.413852562 -0.200348371 PTTQQS(ph)PQDEQEKLLDEAIQAVK ddPTM_HeLa_SAHA_4h_R1 1 PTTQQSPQDEQEKLLDEAIQAVK 23 1 I3L4S0;A0A1W2PP10;A0A3B3ITD4;Q96QK1 I3L4S0 VPS35 Vacuolar protein sorting-associated protein 35 1 0 PT(0.031)T(0.117)QQS(0.852)PQDEQEKLLDEAIQAVK 86.189 0.00022228 13456000 1937.4 1533.8 1450 1373.8 1576.3 1892.9 1584.4 1423.4 1460.5 1823.3 TRUE FALSE FALSE 2141.184621 1583.496126 1647.598449 1400.391886 1455.524235 1731.614271 1406.119142 1386.991489 1450.336262 1901.911386 1.125806721 0.832581443 0.866285601 0.736307641 0.765295505 0.910460016 0.739318957 0.729261888 0.762567737 1 10.89323431 -7.168644784 4.948020503 1.059184089 0.795307359 0.194221472 0.112569759 0.080772591 3.276810687 0.011991527 0.014726713 6.78E-08 7.168644784 -0.26387673 PVS(ph)PSSLLDTAISEEAR ddPTM_HeLa_SAHA_4h_R1 1 PVSPSSLLDTAISEEAR 17 0 A0A0B4J2F2;P57059 A0A0B4J2F2 LOC102724428;SIK1 Serine/threonine-protein kinase SIK1 1 0 PVS(0.935)PS(0.064)SLLDTAISEEAR 193.31 3.31E-12 6420800 1201.7 963.93 660.96 844.14 693.64 799.89 817.76 567.14 1373.9 1073.2 TRUE FALSE FALSE 1328.10032 995.1619645 751.0321867 860.4795503 640.4934531 731.7348719 725.7434926 552.63338 1364.338918 1119.470904 1.186364304 0.888957418 0.670881381 0.768648428 0.572139437 0.653643493 0.648291519 0.493655867 1.218735487 1 10.12860132 -6.907208629 2.595274579 1.087770417 0.634258496 0.862292866 0.089320856 0.077459158 1.061052685 0.015826717 0.021257536 1.24E-07 6.907208629 -0.453511921 PVSPS(ph)SLLDTAISEEAR ddPTM_HeLa_SAHA_4h_R1 1 PVSPSSLLDTAISEEAR 17 0 A0A0B4J2F2;P57059 A0A0B4J2F2 LOC102724428;SIK1 Serine/threonine-protein kinase SIK1 1 0 PVS(0.295)PS(0.704)S(0.002)LLDTAISEEAR 199.05 2.38E-15 8808200 992.71 1265.7 677.72 746.83 789.88 744.04 764.57 495.74 1525 1048.8 TRUE FALSE FALSE 1097.127793 1306.70951 770.0761522 761.2859746 729.359565 680.6436061 678.5385714 483.0596886 1514.387401 1094.018901 1.002841717 1.194412189 0.70389657 0.695861812 0.666679126 0.622149769 0.620225639 0.441546017 1.384242448 1 10.09542195 -6.621447661 5.821032104 1.015345937 0.621886736 0.737354066 0.144711591 0.059589191 2.971732318 0.013530782 0.019205705 2.39E-07 6.621447661 -0.393459201 PVSSAAS(ph)VYAGAGGSGSR ddPTM_HeLa_SAHA_4h_R1 2 PVSSAASVYAGAGGSGSR 18 0 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 PVSS(0.001)AAS(0.999)VYAGAGGSGSR;PVS(0.015)S(0.002)AAS(0.983)VYAGAGGSGSR ; 197.1 6.98E-14 71526000 2486.36 2380.72 2077.84 2509.32 2455.8 2097.09 2672.81 3266.6 1860.37 2856.29 TRUE FALSE FALSE 2747.886753 2457.85689 2360.997214 2557.891517 2267.637135 1918.406134 2372.058384 3183.045102 1847.423534 2979.43864 0.922283384 0.82493959 0.792430219 0.858514581 0.761095431 0.643881739 0.79614272 1.068337189 0.620057587 1 11.54082482 -7.524308361 1.074617957 0.979077723 0.806354879 0 0.15197232 0.369429345 0.863721654 0.023104354 0.02413172 2.99E-08 7.524308361 -0.172722843 PVSSAASVYAGAGGS(ph)GSR ddPTM_HeLa_SAHA_4h_R1 2 PVSSAASVYAGAGGSGSR 18 0 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 PVSSAAS(0.251)VYAGAGGS(0.623)GS(0.126)R;PVSSAASVYAGAGGS(0.779)GS(0.221)R ; 183.71 4.29E-10 116468000 1858.75 1496.4 1264.62 1636.81 1541.44 1488.79 1631.72 1371.48 1933.09 1708.22 TRUE FALSE FALSE 2054.261853 1544.884342 1436.955828 1668.492824 1423.3352 1361.936716 1448.114571 1336.399527 1919.637469 1781.869724 1.152868712 0.867001847 0.806431474 0.936371948 0.798787465 0.764330129 0.812693853 0.749998448 1.077316396 1 10.79917615 -7.133754587 4.943983322 1.071775512 0.816191869 0.804740714 0.058489946 0.086594346 3.150026601 0.012268809 0.015113848 7.35E-08 7.133754587 -0.255583643 PVSSAASVYAGAGGSGSR ddPTM_HeLa_SAHA_4h_R1 1 PVSSAASVYAGAGGSGSR 18 0 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 148.52 3.40E-09 0 776.15 609.78 701.04 598.45 862.57 686.89 536.78 802.72 777.67 622.68 FALSE FALSE TRUE 857.7890181 629.5372721 796.5740803 610.0338651 796.4800729 628.3631077 476.3801017 782.1875847 772.2581312 649.5267821 1.320636872 0.969224502 1.226391432 0.9391974 1.2262467 0.967416779 0.733426419 1.204242236 1.188955025 1 9.343245204 -5.154359671 6.678947539 1.134248864 0.94122693 0.162700329 0.158293577 0.301948295 16.41834523 0.023601708 0.060903432 7.01E-06 5.154359671 -0.193021935 PVSVAGSPLS(ph)PGPVR ddPTM_HeLa_SAHA_4h_R1 2 PVSVAGSPLSPGPVR 15 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 PVS(0.001)VAGS(0.004)PLS(0.996)PGPVR;PVSVAGSPLS(1)PGPVR ; 175.27 4.88E-07 39647000 1727.37 2102.6 1458.25 1741.7 1586.27 2176.67 1939.61 1538.63 2369.87 1887.04 TRUE FALSE FALSE 1909.062702 2170.72562 1656.972716 1775.413122 1464.730335 1991.20547 1721.359978 1499.274073 2353.377882 1968.399529 0.969855293 1.102787106 0.841786787 0.901957705 0.744122478 1.011586033 0.874497251 0.761671627 1.195579376 1 10.94280736 -6.733144629 24.99992308 0.994143935 0.860864913 0.457572269 0.100711089 151.7783686 134103.9663 0.011600641 0.016404001 1.85E-07 6.733144629 -0.133279022 PVSYS(ph)S(ph)VT(ph)T(ph)RYYHR ddPTM_HeLa_SAHA_4h_R1 1 PVSYSSVTTRYYHR 14 1 Q8N4Q1-2 Q8N4Q1-2 4 0 PVS(0.006)Y(0.098)S(0.979)S(0.981)VT(0.93)T(0.701)RY(0.152)Y(0.152)HR 74.678 0.0076568 0 735.93 751.42 756.33 712.61 833.48 1082.7 1013.3 872.04 842.82 952.81 TRUE FALSE FALSE 813.338494 775.766501 859.3987136 726.403597 769.6189425 990.4478689 899.2808171 849.7344795 836.954747 993.890302 0.818338294 0.780535336 0.864681657 0.730868986 0.774349987 0.996536405 0.904808926 0.854958015 0.842099722 1 9.956942817 -9.224774432 0.951529202 1.000386047 0.840568062 0.000748926 0.085156785 0.469908644 0.761525349 0.051140708 0.014080426 5.96E-10 9.224774432 -0.159817986 PVTEKDLAEDAPWK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 PVTEKDLAEDAPWKK 15 2 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 1 PVTEKDLAEDAPWK(1)K 93.823 0.0080436 1329800 0 171.65 133.02 160.53 0 0 52.451 68.504 173.29 0 FALSE TRUE FALSE 0 177.2115726 151.1472729 163.6372903 0 0 46.54907544 66.75176687 172.0840608 0 0 PY(ph)GCIDCGKAFS(ph)QK ddPTM_HeLa_SAHA_4h_R1 1 PYGCIDCGKAFSQK 14 1 M0QX90;Q9BS31 M0QX90 ZNF649 Zinc finger protein 649 2 0 PY(1)GCIDCGKAFS(1)QK 74.89 0.019223 5274000 161.13 2531.9 570.93 2023.8 273.48 564.76 1819.6 875.68 382.55 248.09 TRUE FALSE FALSE 178.0783927 2613.935221 648.7333671 2062.973575 252.5260215 516.6392707 1614.853819 853.2813736 379.8878034 258.786374 0.688128938 10.10074518 2.506829695 7.971724104 0.975808802 1.996392865 6.240103735 3.297242279 1.467959064 1 8.015617846 -4.780787582 24.19239683 2.207069821 4.768673082 0 3.253187734 290.8607862 363685.2073 0.48311828 1.452906903 1.66E-05 4.780787582 2.561603261 PY(ph)KCGVCGKTFS(ph)S(ph)GS(ph)S(ph)R ddPTM_HeLa_SAHA_4h_R1 1 PYKCGVCGKTFSSGSSR 17 2 Q9BX82 Q9BX82 ZNF471 Zinc finger protein 471 5 0 PY(1)KCGVCGKT(0.062)FS(0.966)S(0.991)GS(0.991)S(0.991)R 40.801 0.02179 15232000 3143.8 2875.5 2744 3074.9 3176.6 4224.1 3694.7 3645.8 2962.8 2805.2 TRUE FALSE FALSE 3474.479308 2968.668087 3117.93803 3134.419136 2933.209594 3864.182916 3278.962632 3552.545715 2942.181634 2926.1459 1.187391001 1.014531807 1.065544281 1.071176641 1.002413992 1.320570828 1.120573869 1.214069919 1.005480155 1 11.51478599 -12.71937158 0.387755933 4.74E-11 1.133803005 0.224346407 0.091315616 37.63066556 0.870819433 29.46362407 0.027018507 1.91E-13 12.71937158 1.133803005 PYQYPALT(ph)PEQK ddPTM_HeLa_SAHA_4h_R1 1 PYQYPALTPEQK 12 0 P04075;H3BQN4;J3KPS3;H3BUH7;H3BR04;H3BMQ8 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 1 0 PY(0.008)QY(0.032)PALT(0.96)PEQK 100.55 0.010893 8556300 1588.9 1722.8 1561.9 1702.6 1861.4 2073.8 1978.9 1769.9 1870.6 1890.5 TRUE FALSE FALSE 1756.027792 1778.61985 1774.747598 1735.556285 1718.779934 1897.100573 1756.228964 1724.628521 1857.582342 1972.008707 0.890476693 0.901933062 0.899969453 0.88009565 0.87158841 0.962014299 0.890578707 0.874554212 0.941974716 1 10.94545021 -9.220331366 0.727922879 1.007939077 0.896210323 0.457951192 0.029779635 0.345211914 0.293611026 0.023436687 0.005021863 6.02E-10 9.220331366 -0.111728754 PYQYPALTPEQK ddPTM_HeLa_SAHA_4h_R1 7 PYQYPALTPEQK 12 0 P04075;H3BQN4;J3KPS3;H3BUH7;H3BR04;H3BMQ8 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 ;;;;;; ;;;;;; 179.57 1.87E-11 16164000 7723.93 6705.88 6048.63 7888.18 5896.54 7213.53 7048.2 6738.47 6987.66 8025.21 FALSE FALSE TRUE 8536.368396 6923.154912 6872.905796 8040.86713 5444.748379 6598.896662 6255.117986 6566.109695 6939.032305 8371.216078 1.019728593 0.827019019 0.821016413 0.96053752 0.650413074 0.788284116 0.747217361 0.784367484 0.828915685 1 13.0312215 -6.819839679 0.880348584 1.013928838 0.760962384 0.286280246 0.093820267 0.223384006 0.345838444 0.014973674 0.023087304 1.51E-07 6.819839679 -0.252966454 PYQYPALTPEQK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 PYQYPALTPEQKK 13 1 P04075;H3BQN4;J3KPS3;H3BUH7;H3BR04;H3BMQ8 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 1 PYQYPALTPEQK(1)K 218.75 1.86E-33 2160300 900.29 1068 851.28 972.85 1191.3 827.61 1385.4 1118.6 407.35 548.43 FALSE TRUE FALSE 994.9866329 1102.603901 967.2880051 991.6809185 1100.022851 757.092972 1229.511146 1089.987832 404.5152182 572.0755013 1.739257547 1.927374793 1.690839763 1.733479089 1.922863064 1.323414428 2.149211325 1.905321639 0.707101103 1 9.160061753 -9.094962599 0.561035304 0.892009587 1.818836482 0.728363851 0.226252963 0.498032241 0.243323268 0.238913667 0.048763386 8.04E-10 9.094962599 0.926826894 PYQYPALTPEQKK ddPTM_HeLa_SAHA_4h_R1 1 PYQYPALTPEQKK 13 1 P04075;H3BQN4;J3KPS3;H3BUH7;H3BR04;H3BMQ8 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 111.79 0.0015766 1147000 284.48 213.18 314.01 436.42 395.67 280.66 304.33 377.08 142.95 237.29 FALSE FALSE TRUE 314.4029116 220.0871719 356.8016475 444.8675402 365.3538501 256.746189 270.0859874 367.4348396 141.9551993 247.5207332 1.270208389 0.889166613 1.441502063 1.797294047 1.476053522 1.037271447 1.091165108 1.484460857 0.573508318 1 7.951405565 -8.614339263 0.473218628 0.978991356 1.339000174 0.306096094 0.281774238 1.626382925 0.701126308 0.264447658 0.085154262 2.43E-09 8.614339263 0.360008818 QADFEAHNILR ddPTM_HeLa_SAHA_4h_R1 1 QADFEAHNILR 11 0 P49915-2;P49915 P49915-2 GMPS GMP synthase [glutamine-hydrolyzing] 0 0 148.78 0.00062176 3024300 2099.7 1854.2 1759.6 2008 1888.8 1799.4 2060.6 1502.7 1856.8 1494.5 FALSE FALSE TRUE 2320.55608 1914.277297 1999.389124 2046.867744 1744.080552 1646.080997 1828.735865 1464.26311 1843.878378 1558.935209 1.488551972 1.227938971 1.2825351 1.3129909 1.118763976 1.05590084 1.173067267 0.939271306 1.182780636 1 10.60634525 -5.602327086 5.364802143 1.245074086 1.070564928 0.329704566 0.125567058 0.294175783 14.61069047 0.027220592 0.05536183 2.50E-06 5.602327086 -0.174509158 QADLYISEGLHPR ddPTM_HeLa_SAHA_4h_R1 1 QADLYISEGLHPR 13 0 P40227;Q92526-3;Q92526 P40227 CCT6A;CCT6B T-complex protein 1 subunit zeta;T-complex protein 1 subunit zeta-2 0 0 137.93 0.00050682 5004600 2813.6 3672.2 2513.7 3433 4082.7 4312.1 4024.6 3351 3650 3467.2 FALSE FALSE TRUE 3109.547357 3791.181689 2856.253945 3499.450679 3769.884408 3944.684821 3571.741416 3265.286272 3624.599353 3616.68796 0.859777617 1.04824683 0.789742985 0.967584353 1.042358215 1.090689842 0.987572457 0.902838815 1.002187469 1 11.82045342 -5.997757792 24.7567516 0.930337844 1.009911448 0.117877378 0.082586255 92.069611 1016529.147 0.01254133 0.022624219 1.01E-06 5.997757792 0.079573603 QADPQPQAWPPPDS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 1 QADPQPQAWPPPDSPVR 17 0 Q63ZY3-3;Q63ZY3;Q63ZY3-2;K7ERU2 Q63ZY3-3 KANK2 KN motif and ankyrin repeat domain-containing protein 2 1 0 QADPQPQAWPPPDS(1)PVR 95.365 0.0030161 0 626.73 773.85 570.88 686.38 719.39 868.33 770.56 862.81 954.9 719.13 TRUE FALSE FALSE 692.6523369 798.9232477 648.6765534 699.6658774 664.2704936 794.3433989 683.8545608 840.7405695 948.2547732 750.1352136 0.92336998 1.065038987 0.864746171 0.932719681 0.885534343 1.058933622 0.911641726 1.120785365 1.264111797 1 9.551006858 -4.250468171 24.37729483 0.959724601 1.120785498 0.052846725 0.115799486 933.1826485 2073413.138 0.008440731 0.163865382 5.62E-05 4.250468171 0.161060897 QADPQPQAWPPPDS(ph)PVRVDTVR ddPTM_HeLa_SAHA_4h_R1 2 QADPQPQAWPPPDSPVRVDTVR 22 1 Q63ZY3-3;Q63ZY3;Q63ZY3-2;K7ERU2 Q63ZY3-3 KANK2 KN motif and ankyrin repeat domain-containing protein 2 1 0 QADPQPQAWPPPDS(0.953)PVRVDT(0.047)VR;QADPQPQAWPPPDS(0.998)PVRVDT(0.002)VR ; 102.28 9.93E-05 107126000 4750.7 4414.1 4251.9 4756.5 4777.3 4939.6 5014 5422 4751.4 4437.5 TRUE FALSE FALSE 5250.400423 4557.119736 4831.326789 4848.568936 4411.264306 4518.718291 4449.811524 5283.313091 4718.334621 4628.822342 1.134284281 0.984509536 1.043748589 1.047473542 0.952999269 0.976213377 0.96132692 1.141394657 1.019338024 1 12.17642948 -7.218460081 24.99888536 1.063412084 1.011721516 0.053536864 0.061720981 817.4663705 475479.423 0.011532167 0.014123865 6.05E-08 7.218460081 -0.051690568 QADSEMTGY(ph)VVTR ddPTM_HeLa_SAHA_4h_R1 1 QADSEMTGYVVTR 13 0 B5MDL5;P53778-2;P53778 B5MDL5 MAPK12 Mitogen-activated protein kinase 12 1 0 QADS(0.002)EMT(0.324)GY(0.672)VVT(0.001)R 130.69 0.0017357 11546000 918.44 907.32 854.66 781.01 866.44 1159 1061 793.23 871.62 1015 TRUE FALSE FALSE 1015.045733 936.7177633 971.1286139 796.1275779 800.0535544 1060.24668 941.6134876 772.9403252 865.5543255 1058.761617 0.958710362 0.88472962 0.917230657 0.751942236 0.75565032 1.001402641 0.88935363 0.730041883 0.817515776 1 10.04816208 -7.126899003 1.224463763 0.985920592 0.83875608 0.061253881 0.094042391 0.318791836 0.924053855 0.015529726 0.019589976 7.47E-08 7.126899003 -0.147164512 QAEPELDLR ddPTM_HeLa_SAHA_4h_R1 1 QAEPELDLR 9 0 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;F8W7E0;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;P20810-2;E9PCH5;P20810-3;H0Y7F0;H0Y9H6;E7EQ12;D6RC54;D6RAA8 P20810-6 CAST Calpastatin 0 0 135.71 0.0088722 3582600 2078.3 2679.1 2339.8 2544.9 2317.7 2661.8 2740.6 2443.4 2134.4 2436.1 FALSE FALSE TRUE 2296.90513 2765.904598 2658.655759 2594.160219 2140.118327 2434.999665 2432.220475 2380.901366 2119.546537 2541.132193 0.903890453 1.088453645 1.046248505 1.020867874 0.842190868 0.958234157 0.957140475 0.936945104 0.834095346 1 11.31125571 -5.80817897 24.99998248 0.976488312 0.928491834 0.126985397 0.073956747 222.9495002 119250.1899 0.010276318 0.018627454 1.56E-06 5.80817897 -0.047996478 QAGAPGGSSGSGGS(ph)PELSALR ddPTM_HeLa_SAHA_4h_R1 2 QAGAPGGSSGSGGSPELSALR 21 0 Q9Y2J4;Q9Y2J4-2;Q9Y2J4-4 Q9Y2J4 AMOTL2 Angiomotin-like protein 2 1 0 QAGAPGGSSGS(0.001)GGS(0.654)PELS(0.345)ALR;QAGAPGGS(0.001)SGSGGS(0.952)PELS(0.047)ALR ; 246.61 3.71E-43 14117900 3926.03 3654.44 3297.23 3112.77 3796.06 3823.51 4143 3550.35 4450.9 3454.79 TRUE FALSE FALSE 4338.987849 3772.846254 3746.559333 3173.022164 3505.206703 3497.725438 3676.818736 3459.537188 4419.925825 3603.742904 1.204022585 1.046924366 1.039630027 0.880479615 0.972657261 0.97058129 1.02027776 0.959984461 1.226482006 1 11.81528038 -6.642740712 2.792913399 1.096190779 0.965407111 0.509930853 0.071492751 0.226565586 3.583855849 0.013412343 0.019560705 2.28E-07 6.642740712 -0.130783668 QAGAPGGSSGSGGSPELS(ph)ALR ddPTM_HeLa_SAHA_4h_R1 1 QAGAPGGSSGSGGSPELSALR 21 0 Q9Y2J4;Q9Y2J4-2;Q9Y2J4-4 Q9Y2J4 AMOTL2 Angiomotin-like protein 2 1 0 QAGAPGGS(0.033)S(0.019)GS(0.258)GGS(0.146)PELS(0.545)ALR 127.49 1.37E-05 9547900 2058.4 2124.5 1877 1803.8 1920.6 2144.9 2395.1 2014.6 2137.6 2128.5 TRUE FALSE FALSE 2274.911956 2193.335194 2132.787785 1838.715157 1773.444043 1962.142453 2125.597044 1963.069449 2122.724268 2220.270052 1.024610477 0.987868657 0.960598367 0.828149331 0.798751504 0.883740449 0.957359688 0.884157964 0.956065802 1 11.11651945 -6.501230459 3.270889064 1.00987801 0.872403735 0.631636841 0.043500518 0.105997779 2.336512786 0.006944589 0.010534464 3.15E-07 6.501230459 -0.137474276 QAGIGGEPAAAGAGCS(ph)PRPK ddPTM_HeLa_SAHA_4h_R1 2 QAGIGGEPAAAGAGCSPRPK 20 1 Q68DK7;J3QQY0;J3KSZ8 Q68DK7 MSL1 Male-specific lethal 1 homolog 1 0 QAGIGGEPAAAGAGCS(1)PRPK;QAGIGGEPAAAGAGCS(1)PRPK ; 75.297 0.002678 40163000 4458.7 4737.1 5218 4593.6 5440.2 5347.6 4839.5 5278.6 5505 4522.4 TRUE FALSE FALSE 4927.686523 4890.585148 5929.081866 4682.51577 5023.373051 4891.954395 4294.946723 5143.581055 5466.690257 4717.382796 1.044580594 1.036715772 1.256858331 0.99260882 1.064864411 1.037006028 0.910451178 1.090346338 1.158839656 1 12.20377096 -3.926426681 21.07540812 1.033658308 3.105814338 0 0.091978385 1802.288931 562705.9639 0.010929272 15853.08897 0.00011846 3.926426681 2.07215603 QAGPAPAAATAASK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 QAGPAPAAATAASKK 15 1 Q9BTC0;Q9BTC0-1 Q9BTC0 DIDO1 Death-inducer obliterator 1 0 1 ; QAGPAPAAATAASK(1)K;QAGPAPAAATAASK(1)K 226.23 6.35E-44 10119300 2120.9 1533.71 1203.08 2609.1 2485.6 3012.3 2639.53 2743.5 2276.2 1253.81 FALSE TRUE FALSE 2343.985993 1583.40321 1367.029477 2659.602903 2295.153865 2755.635093 2342.523138 2673.325243 2260.359739 1307.867885 1.792219245 1.210675198 1.045235144 2.033540951 1.754882042 2.106967473 1.791100741 2.044033096 1.728278341 1 10.3530011 -6.248744708 24.61283273 1.346326194 1.935806873 0.562531015 0.260373103 451.2438889 874885.4746 0.048576514 0.080191255 5.64E-07 6.248744708 0.589480679 QAGPASVPLRTEEEFK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 QAGPASVPLRTEEEFKK 17 2 P30101 P30101 PDIA3 Protein disulfide-isomerase A3 0 1 ; QAGPASVPLRTEEEFK(1)K;QAGPASVPLRTEEEFK(1)K 80.361 0.0085719 4271900 0 73.673 0 0 187.65 0 0 0 0 0 FALSE TRUE FALSE 0 76.06005354 0 0 173.2722975 0 0 0 0 0 0 QAHDLS(ph)PAAESSSTFSFSGR ddPTM_HeLa_SAHA_4h_R1 4 QAHDLSPAAESSSTFSFSGR 20 0 O95425-3;O95425-2;O95425-4;O95425;A0A6I8PIX7 O95425-3 SVIL Supervillin 1 0 QAHDLS(1)PAAESSSTFSFSGR;QAHDLS(1)PAAESSSTFSFSGR;QAHDLS(1)PAAESSSTFSFSGR;QAHDLS(1)PAAESSSTFSFSGR ;;; 119.2 0.00016402 116664600 7801.7 9932.8 6990 9206.6 10003.5 3029.19 10805.1 10686.4 8114.5 8438 TRUE FALSE FALSE 8622.318601 10254.62924 7942.560798 9384.807056 9237.033991 2771.08597 9589.281711 10413.05736 8058.030534 8801.803475 0.979608171 1.165060009 0.902378793 1.066236832 1.049447879 0.314831611 1.089467828 1.183059516 0.915497666 1 13.10358344 QAHLCVLASNCDEPMYVK ddPTM_HeLa_SAHA_4h_R1 4 QAHLCVLASNCDEPMYVK 18 0 P25398 P25398 RPS12 40S ribosomal protein S12 0 0 ;;; ;;; 231.06 3.06E-46 6338800 873.74 1130.04 1012.47 1071.27 1116.87 770.138 1436.34 1312.16 1386.29 1114.26 FALSE FALSE TRUE 965.6439821 1166.654037 1150.444139 1092.00598 1031.295662 704.5179097 1274.719243 1278.596847 1376.642695 1162.301202 0.830803565 1.003745015 0.989798632 0.93952065 0.887287788 0.606140567 1.096720232 1.100056376 1.184411315 1 10.18276827 -9.75133663 1.701417487 1.000029727 0.911835771 0.080968683 0.148681158 1.041886742 5.4559756 0.100698673 0.021690734 1.77E-10 9.75133663 -0.088193957 QALDS(ph)EEEEEDVAAK ddPTM_HeLa_SAHA_4h_R1 2 QALDSEEEEEDVAAK 15 0 H7C3D5;Q8NC44 H7C3D5 FAM134A Protein FAM134A 1 0 QALDS(1)EEEEEDVAAK;QALDS(1)EEEEEDVAAK ; 166.9 3.17E-06 25022000 2856.3 5733.8 3622.1 4116.6 4886.9 4750.3 5366.8 4723.7 4302.3 4667.6 TRUE FALSE FALSE 3156.738739 5919.578882 4115.700925 4196.282746 4512.466778 4345.547716 4762.913539 4602.874594 4272.359944 4868.843079 0.648354997 1.215808106 0.84531394 0.861864447 0.926804726 0.892521621 0.978243386 0.945373371 0.87748976 1 12.24936329 -7.30055113 24.99740678 0.83394546 0.942405645 0.134690663 0.125937165 981.5714715 627347.2702 0.02674277 0.030581804 5.01E-08 7.30055113 0.108460185 QALDYVELSPLTQAS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 2 QALDYVELSPLTQASPQR 18 0 F6WYE2;F6TR96;H0Y5J9;Q9H2D6-6;Q9H2D6-5;Q9H2D6-7;Q9H2D6-3;Q9H2D6-2;Q9H2D6 F6WYE2 TRIOBP TRIO and F-actin-binding protein 1 0 QALDYVELSPLTQAS(1)PQR;QALDYVELSPLTQAS(1)PQR ; 256.33 5.63E-48 65462000 2777.3 3102.02 2456.74 2628.6 2425.02 2588 2357.34 2142.33 2521.06 2957.9 TRUE FALSE FALSE 3069.429157 3202.527483 2791.531733 2679.480354 2239.215491 2367.48784 2092.085899 2087.532301 2503.515738 3085.429545 0.994814211 1.037951908 0.904746549 0.868430251 0.725738656 0.767312235 0.678053369 0.67657753 0.811399418 1 11.59125564 -5.998243546 1.148651464 1.001346245 0.692827409 0.722483144 0.067754739 0.066632465 0.173788346 0.004913705 0.011689922 1.00E-06 5.998243546 -0.308518836 QALPCVAES(ph)PTVHVEVHQR ddPTM_HeLa_SAHA_4h_R1 2 QALPCVAESPTVHVEVHQR 19 0 Q15645;Q15645-2 Q15645 TRIP13 Pachytene checkpoint protein 2 homolog 1 0 QALPCVAES(0.994)PT(0.006)VHVEVHQR;QALPCVAES(0.996)PT(0.004)VHVEVHQR ; 135.64 2.57E-07 4016700 1456.86 1532.22 1076.18 1648.34 1497.75 1364.73 1634.82 1968.94 1599.82 1529.99 TRUE FALSE FALSE 1610.099219 1581.864933 1222.836206 1680.246004 1382.992719 1248.447326 1450.865751 1918.577366 1588.686722 1595.955356 1.008862317 0.991171167 0.766209531 1.052815166 0.866561031 0.782257048 0.909089183 1.202149771 0.995445591 1 10.64020458 -6.970450811 24.99926255 1.003965676 0.921056185 0.071683692 0.119516503 364.5092383 308381.9465 0.018365647 0.024137019 1.07E-07 6.970450811 -0.082909491 QAPGK(ac)ASVSR ddPTM_HeLa_SAHA_4h_R1 1 QAPGKASVSR 10 1 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 0 1 QAPGK(1)ASVSR 106.2 0.0076614 453210 0 70.313 0 64.902 65.709 242.75 211.34 245.17 117.92 0 FALSE TRUE FALSE 0 72.59118733 0 66.15827206 60.67439062 222.0663343 187.559467 238.8989064 117.0993851 0 0 QAPGVGAVGGGS(ph)PER ddPTM_HeLa_SAHA_4h_R1 2 QAPGVGAVGGGSPER 15 0 A0A087WXV6;Q96G74-2;Q96G74-3;Q96G74-5;Q96G74;H7BZQ3 A0A087WXV6 OTUD5 OTU domain-containing protein 5 1 0 QAPGVGAVGGGS(1)PER;QAPGVGAVGGGS(1)PER ; 86.411 0.0076719 4641800 2148.18 2277.3 1802.57 2366.6 2601.4 3476.2 2562.4 2242.7 3234.3 2591 TRUE FALSE FALSE 2374.135429 2351.086014 2048.214852 2412.408965 2402.081294 3180.008203 2274.072008 2185.334981 3211.792243 2702.71069 0.878427513 0.869899254 0.757837256 0.892588679 0.888767452 1.176599558 0.841404156 0.808571554 1.188359618 1 11.40019137 -9.195312827 0.986288884 0.998659662 0.892448646 0.240866253 0.121376321 0.928840178 1.65315633 0.06713835 0.019860607 6.38E-10 9.195312827 -0.106211016 QAPGVGAVGGGS(ph)PEREEVGAGYNS(ph)EDEYEAAAAR ddPTM_HeLa_SAHA_4h_R1 2 QAPGVGAVGGGSPEREEVGAGYNSEDEYEAAAAR 34 1 A0A087WXV6;Q96G74-2;Q96G74-3;Q96G74-5;Q96G74;H7BZQ3 A0A087WXV6 OTUD5 OTU domain-containing protein 5 2 0 QAPGVGAVGGGS(0.999)PEREEVGAGY(0.008)NS(0.992)EDEYEAAAAR;QAPGVGAVGGGS(0.824)PEREEVGAGY(0.531)NS(0.576)EDEY(0.069)EAAAAR ; 92.451 3.63E-10 88388000 843.47 1282.35 1280.64 1135.24 1252.96 1360.83 1302.67 1383.15 1509 1136.67 TRUE FALSE FALSE 932.1900446 1323.898981 1455.15895 1157.214212 1156.958475 1244.879628 1156.090143 1347.771026 1498.498746 1185.677406 0.786208828 1.116576038 1.22728066 0.975994149 0.975778462 1.049931138 0.97504611 1.136709714 1.263833432 1 10.21149583 -7.24863371 24.94144621 0.899043056 1.060614591 0 0.146454608 661.6666257 1288720.994 0.018284852 0.022317058 5.64E-08 7.24863371 0.161571535 QAPGVGAVGGGSPEREEVGAGYNS(ph)EDEYEAAAAR ddPTM_HeLa_SAHA_4h_R1 1 QAPGVGAVGGGSPEREEVGAGYNSEDEYEAAAAR 34 1 A0A087WXV6;Q96G74-2;Q96G74-3;Q96G74-5;Q96G74;H7BZQ3 A0A087WXV6 OTUD5 OTU domain-containing protein 5 1 0 QAPGVGAVGGGS(0.001)PEREEVGAGY(0.066)NS(0.918)EDEY(0.015)EAAAAR 86.869 5.07E-08 5618200 158.35 0 192.05 61.572 112.76 49.556 0 139.18 273.09 0 TRUE FALSE FALSE 175.0059795 0 218.2215738 62.76381509 104.1203532 45.33355001 0 135.6199771 271.1895445 0 0 QAPLPS(ph)PESLDLGR ddPTM_HeLa_SAHA_4h_R1 1 QAPLPSPESLDLGR 14 0 H3BRS1;Q12968 H3BRS1 NFATC3 "Nuclear factor of activated T-cells, cytoplasmic 3" 1 0 QAPLPS(0.915)PES(0.085)LDLGR 93.181 0.0051817 0 862.94 888.78 794.96 882.24 1021 1038.3 872.99 840.35 722.56 896.44 TRUE FALSE FALSE 953.7079885 917.5770551 903.2930088 899.3170309 942.7712006 949.8309987 774.7588676 818.8550638 717.5316461 935.0899155 1.019910463 0.981271469 0.965995883 0.961743909 1.008214488 1.015764348 0.828539432 0.875696604 0.767339733 1 9.868961287 -4.763571664 24.99999994 1.001331869 0.852117987 0.14172917 0.077256129 13.02146203 152679.9676 0.003438763 0.011115654 1.72E-05 4.763571664 -0.149213882 QAPPHIELSNS(ph)SPDPMAEAER ddPTM_HeLa_SAHA_4h_R1 2 QAPPHIELSNSSPDPMAEAER 21 0 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 QAPPHIELS(0.001)NS(0.885)S(0.114)PDPMAEAER;QAPPHIELSNS(0.635)S(0.365)PDPMAEAER ; 220.66 1.54E-27 29875100 2631.7 2897.6 2253.09 2711.9 3342.3 3233 3124.3 3105.9 3251.3 2718.99 TRUE FALSE FALSE 2908.514281 2991.484141 2560.129372 2764.392746 3086.213696 2957.530212 2772.745541 3026.455575 3228.673939 2836.218965 1.025490033 1.05474372 0.902655755 0.974675362 1.088143664 1.042772172 0.977620408 1.067074021 1.138372593 1 11.4697532 -4.235610264 22.66154545 1.01072741 1.06707428 0.011868705 0.062975544 3781.623241 3317670.947 0.006542639 0.516788049 5.81E-05 4.235610264 0.05634687 QAPPHIELSNSS(ph)PDPMAEAER ddPTM_HeLa_SAHA_4h_R1 4 QAPPHIELSNSSPDPMAEAER 21 0 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 QAPPHIELS(0.002)NS(0.412)S(0.586)PDPMAEAER;QAPPHIELS(0.017)NS(0.258)S(0.725)PDPMAEAER;QAPPHIELSNS(0.004)S(0.996)PDPMAEAER;QAPPHIELSNS(0.232)S(0.768)PDPMAEAER ;;; 242.05 5.53E-43 43139600 5539.2 6992.4 5490.42 6557.2 7058.7 7644.7 6541.4 6655.5 7121.7 6500.2 TRUE FALSE FALSE 6121.838471 7218.958348 6238.625845 6684.124088 6517.863931 6993.328552 5805.344456 6485.261947 7072.13951 6780.455433 0.90286538 1.064671602 0.920089499 0.985792791 0.961272291 1.031395106 0.856187982 0.956464062 1.043018361 1 12.72716646 -4.752031709 24.99970609 0.965590482 0.906326059 0.167381108 0.057258736 276.6208398 735068.8259 0.007469975 0.027204349 1.77E-05 4.752031709 -0.059264423 QAQAQES(ph)EEEEESR ddPTM_HeLa_SAHA_4h_R1 4 QAQAQESEEEEESR 14 0 H0YLQ7;Q9NVM6 H0YLQ7 DNAJC17 DnaJ homolog subfamily C member 17 1 0 QAQAQES(0.927)EEEEES(0.073)R;QAQAQES(1)EEEEESR;QAQAQES(0.974)EEEEES(0.026)R;QAQAQES(1)EEEEESR ;;; 244 3.99E-33 136073000 6123.61 5957.97 4748.25 5899.88 6150.06 6725.07 5939.24 6677.19 6767.31 5741.83 TRUE FALSE FALSE 6767.719396 6151.012137 5395.316782 6014.080709 5678.843731 6152.056202 5270.941084 6506.397148 6720.215739 5989.388391 1.129951667 1.026985017 0.900812642 1.004122678 0.948150856 1.027159336 0.880046632 1.086320793 1.122020363 1 12.54819297 -6.992245815 24.88800815 1.062266186 0.971963155 0.34494757 0.065776557 172.2107606 552727.9157 0.010936963 0.014360083 1.02E-07 6.992245815 -0.090303031 QAQEYEALLNIK ddPTM_HeLa_SAHA_4h_R1 2 QAQEYEALLNIK 12 0 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 ; ; 190.53 1.63E-16 5454000 1026.46 1333.36 1318.68 1412.66 1346.29 1736.58 1271.26 1244.03 1302.73 1169.07 FALSE FALSE TRUE 1134.427772 1376.561739 1498.382843 1440.004077 1243.137551 1588.613614 1128.214479 1212.209514 1293.664196 1219.474329 0.930259658 1.128815676 1.228712083 1.180840009 1.019404445 1.302703613 0.925164599 0.994042667 1.06083758 1 10.25204367 -7.255892276 24.74079309 0.96706706 1.115225928 0.166188291 0.111238305 371.8322917 1658419.182 0.017934214 0.021635182 5.55E-08 7.255892276 0.148158868 QAQIEVVPSASALIIK ddPTM_HeLa_SAHA_4h_R1 2 QAQIEVVPSASALIIK 16 0 P30050 P30050 RPL12 60S ribosomal protein L12 0 0 ; ; 244 5.97E-57 3404100 1121.58 1519.03 1323.67 1400.24 1239.25 1580.37 1588.51 1273.24 1367.49 1267.02 FALSE FALSE TRUE 1239.55293 1568.247569 1504.052854 1427.34367 1144.298933 1445.713585 1409.766674 1240.672364 1357.973526 1321.647433 0.937884718 1.186585416 1.138013677 1.079973096 0.865812549 1.093872351 1.066673788 0.938731717 1.027485464 1 10.36812165 QAQQERDELADEIANS(ph)SGKGALALEEK ddPTM_HeLa_SAHA_4h_R1 1 QAQQERDELADEIANSSGKGALALEEK 27 2 P35579;P35579-2 P35579 MYH9 Myosin-9 1 0 QAQQERDELADEIANS(0.5)S(0.5)GKGALALEEK 43.099 0.017123 4193300 747.38 552.39 718.8 818.94 957.58 2033 604.97 980.62 822.19 859.67 TRUE FALSE FALSE 825.9928575 570.2877984 816.7543207 834.7917679 884.2104273 1859.776963 536.8971834 955.5371603 816.4683128 896.7345808 0.92111186 0.635960529 0.910809439 0.930924028 0.9860336 2.07394362 0.598724745 1.065574118 0.910490496 1 9.808537223 -5.496796574 24.98961198 0.929536386 1.239452373 0.16855528 0.350582291 1084.451788 1039024.27 0.04728006 0.105371149 3.19E-06 5.496796574 0.309915987 QAQQERDELADEIANSS(ph)GK ddPTM_HeLa_SAHA_4h_R1 2 QAQQERDELADEIANSSGK 19 1 P35579;P35579-2 P35579 MYH9 Myosin-9 1 0 QAQQERDELADEIANS(0.204)S(0.796)GK;QAQQERDELADEIANS(0.298)S(0.702)GK ; 111.38 0.00045595 9522000 1524.48 2092.1 1659.54 1788.11 1946.39 2625 1901.89 2180.01 2468.5 1769.12 TRUE FALSE FALSE 1684.831801 2159.885413 1885.693469 1822.721455 1797.258019 2401.335232 1687.884332 2124.248501 2451.321508 1845.395421 0.912992295 1.170418756 1.02183708 0.987713221 0.973914858 1.301257825 0.914646429 1.151107495 1.328344852 1 10.84971427 -7.281734055 24.73121594 0.958913028 1.067771409 0 0.159075333 854.6102798 1041430.822 0.017549238 0.02008022 5.23E-08 7.281734055 0.108858381 QAQTQTS(ph)PEHLVLQQK ddPTM_HeLa_SAHA_4h_R1 1 QAQTQTSPEHLVLQQK 16 0 H0Y5D5;A0A494C0L7;Q9BTG3;Q5SYW2;F5H2X7;Q9ULV3-5;Q9ULV3-3;Q9ULV3-4;Q9ULV3-2;Q9ULV3 H0Y5D5 CIZ1 Cip1-interacting zinc finger protein 1 0 QAQTQT(0.002)S(0.998)PEHLVLQQK 167.71 3.18E-18 0 557.16 727.38 627.17 728.42 686.83 734.82 749.7 528.79 552.06 556.55 TRUE FALSE FALSE 615.7646451 750.9475893 712.6374614 742.5196224 634.2052338 672.209202 665.3417829 515.2643175 548.2181695 580.5455942 1.060665435 1.293520435 1.227530565 1.279003113 1.092429673 1.157892177 1.146062927 0.887551852 0.944315442 1 9.181265566 -7.480897091 10.86895465 1.026700133 1.161064102 0.281694815 0.110963002 0.813056288 208.6663176 0.018650742 0.020967722 3.30E-08 7.480897091 0.134363969 QAS(ph)LDGLQQLR ddPTM_HeLa_SAHA_4h_R1 4 QASLDGLQQLR 11 0 Q3MII6 Q3MII6 TBC1D25 TBC1 domain family member 25 1 0 QAS(1)LDGLQQLR;QAS(1)LDGLQQLR;QAS(1)LDGLQQLR;QAS(1)LDGLQQLR ;;; 155.14 0.00032997 38881300 2139.39 1763.8 1739.45 1931.75 2320.73 2245.72 2000.65 1911.82 1800 1816.76 TRUE FALSE FALSE 2364.420856 1820.948277 1976.493187 1969.141815 2142.916169 2054.372022 1775.531597 1862.918413 1787.473653 1895.089415 1.247656621 0.960877235 1.042955109 1.03907594 1.130773119 1.08405018 0.93691178 0.983024019 0.94321336 1 10.8880502 -4.798033299 7.193687816 1.096709818 0.9599695 0.018951896 0.090948147 0.200595364 30.44860215 0.014504903 0.045093286 1.59E-05 4.798033299 -0.136740319 QAS(ph)PTEVVER ddPTM_HeLa_SAHA_4h_R1 1 QASPTEVVER 10 0 C9JW01;A0A0A0MR59;Q8TB72-2;Q8TB72-4;Q8TB72-3;Q8TB72;A0A0C4DG68 C9JW01 PUM2 Pumilio homolog 2 1 0 QAS(0.97)PT(0.03)EVVER 108.32 0.0061727 24343000 1559.4 1801.7 1601 1905.1 2070.5 2369 2074.1 2167.4 2237.5 1900.4 TRUE FALSE FALSE 1723.424847 1860.076262 1819.175942 1941.975965 1911.858737 2167.147872 1840.716809 2111.961046 2221.929055 1982.335544 0.869391084 0.938325637 0.917693247 0.97964039 0.964447589 1.093229589 0.928559655 1.065390293 1.120864256 1 10.95298547 -5.759537755 1.967952738 0.935879943 1.018393381 0 0.078113505 0.344077284 2.712321248 0.009320854 0.02077959 1.74E-06 5.759537755 0.082513438 QAS(ph)SDSDSILSLK ddPTM_HeLa_SAHA_4h_R1 1 QASSDSDSILSLK 13 0 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 QAS(0.443)S(0.443)DS(0.108)DS(0.007)ILSLK 136.39 0.00051796 5021700 1034 1222.6 1136.1 845.54 998.06 1320.8 1343.9 815.23 941.95 1091.6 TRUE FALSE FALSE 1142.760864 1262.213042 1290.921791 861.9066494 921.5888584 1208.260409 1192.680835 794.377597 935.3948933 1138.664218 1.003597765 1.108503299 1.133715955 0.756945406 0.809359637 1.061120908 1.047438583 0.697639905 0.821484401 1 10.15312666 -6.267027147 24.97961085 1.020452743 0.890857359 0.209401401 0.132773081 536.8201428 2399804.516 0.018096352 0.028124304 5.41E-07 6.267027147 -0.129595384 QAS(ph)TDAGTAGALTPQHVR ddPTM_HeLa_SAHA_4h_R1 5 QASTDAGTAGALTPQHVR 18 0 P46937-6;P46937-7;P46937;P46937-9;P46937-5;P46937-3;P46937-2;P46937-8 P46937-6 YAP1 Transcriptional coactivator YAP1 1 0 QAS(0.909)T(0.091)DAGTAGALTPQHVR;QAS(0.766)T(0.234)DAGTAGALTPQHVR;QAS(0.497)T(0.497)DAGT(0.007)AGALTPQHVR;QAS(0.711)T(0.285)DAGT(0.004)AGALTPQHVR;QAS(0.5)T(0.5)DAGTAGALTPQHVR ;;;; 264.01 7.18E-49 151546600 5271.83 4685.11 4681.77 4735.21 4602.62 4851.72 4918.3 5182.64 5121.7 4577.79 TRUE FALSE FALSE 5826.345267 4836.910638 5319.777234 4826.866837 4249.96825 4438.326161 4364.87994 5050.075573 5086.057673 4775.16093 1.220135898 1.01293144 1.114051927 1.010828097 0.890015711 0.929461064 0.914080175 1.057571807 1.065107071 1 12.22133364 -6.062323199 3.735958402 1.098783007 0.943962911 0.433814797 0.071055064 0.189825879 5.244847836 0.014058744 0.024608742 8.66E-07 6.062323199 -0.154820097 QASASYDS(ph)EEEEEGLPMSYDEKR ddPTM_HeLa_SAHA_4h_R1 5 QASASYDSEEEEEGLPMSYDEKR 23 1 Q15059 Q15059 BRD3 Bromodomain-containing protein 3 1 0 QAS(0.023)AS(0.011)YDS(0.966)EEEEEGLPMSYDEKR;QAS(0.197)AS(0.095)YDS(0.707)EEEEEGLPMSYDEKR;QAS(0.017)AS(0.032)Y(0.006)DS(0.945)EEEEEGLPMSYDEKR;QAS(0.008)AS(0.014)Y(0.001)DS(0.977)EEEEEGLPMSYDEKR;QAS(0.002)AS(0.019)Y(0.001)DS(0.978)EEEEEGLPMSYDEKR ;;;; 147.85 8.64E-07 112775500 4267.79 4937.59 4204.32 4391.93 5034.48 5795.58 5310.89 5325.58 4244.93 4148.77 TRUE FALSE FALSE 4716.695734 5097.571156 4777.262834 4476.942156 4648.73923 5301.763979 4713.29468 5189.359375 4215.389187 4327.643778 1.089899256 1.177909139 1.103894655 1.034498768 1.074196368 1.22509251 1.089113365 1.199118883 0.974061037 1 12.07936604 -13.52287875 0.10024176 0.570965771 1.215561911 0.516781444 0.054951761 80.19662296 0.599794174 7.131458796 0.470442872 3.00E-14 13.52287875 0.64459614 QASPT(ph)EVVER ddPTM_HeLa_SAHA_4h_R1 2 QASPTEVVER 10 0 C9JW01;A0A0A0MR59;Q8TB72-2;Q8TB72-4;Q8TB72-3;Q8TB72;A0A0C4DG68 C9JW01 PUM2 Pumilio homolog 2 1 0 QAS(0.028)PT(0.972)EVVER;QAS(0.018)PT(0.982)EVVER ; 136.01 0.0023066 88620000 2784.7 2841.37 2401.19 3030 3186.1 3707.9 3169.8 3154.3 2840.5 2555.69 TRUE FALSE FALSE 3077.607523 2933.432252 2728.411668 3088.650031 2941.981706 3391.96606 2813.125762 3073.617573 2820.732729 2665.878303 1.154444117 1.100362402 1.023456947 1.158586282 1.103569395 1.272363429 1.055234126 1.152947443 1.058087583 1 11.38039521 -9.473116495 0.733378528 0.980460672 1.129416154 0.243119194 0.06620869 0.85480065 0.640902065 0.082975029 0.012410644 3.36E-10 9.473116495 0.148955481 QASS(ph)DSDSILSLK ddPTM_HeLa_SAHA_4h_R1 1 QASSDSDSILSLK 13 0 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 QAS(0.212)S(0.787)DSDS(0.001)ILSLK 134.06 0.00059852 5769300 726.92 1009.6 1033.1 968.1 904.74 920.38 1430.1 992.62 1105.7 943.59 TRUE FALSE FALSE 803.3807808 1042.311702 1173.885488 986.8389754 835.4190167 841.9584461 1269.181384 967.2302177 1098.005344 984.2727827 0.816217613 1.058966295 1.192642435 1.002607197 0.848767772 0.855411692 1.289461018 0.98268512 1.115549838 1 9.942914391 -7.237103823 24.51075752 0.913213866 1.033865957 0 0.147902889 940.3769139 947147.691 0.024067864 0.029468483 5.79E-08 7.237103823 0.120652091 QAST(ph)DAGTAGALTPQHVR ddPTM_HeLa_SAHA_4h_R1 2 QASTDAGTAGALTPQHVR 18 0 P46937-6;P46937-7;P46937;P46937-9;P46937-5;P46937-3;P46937-2;P46937-8 P46937-6 YAP1 Transcriptional coactivator YAP1 1 0 QAS(0.246)T(0.492)DAGT(0.232)AGALT(0.031)PQHVR;QAS(0.05)T(0.789)DAGT(0.118)AGALT(0.043)PQHVR ; 237.39 1.59E-29 74269000 2026.27 2208.3 2247.46 2376.62 2443.38 2534.62 2509.07 2238.3 2527.79 2423.35 TRUE FALSE FALSE 2239.402375 2279.850369 2553.732145 2422.622917 2256.168752 2318.656117 2226.74284 2181.047527 2510.198904 2527.832478 0.885898253 0.90189931 1.0102458 0.958379536 0.892530962 0.917250703 0.880890193 0.862813318 0.993024231 1 11.30368514 -13.52283694 0.328272823 1.932463231 0.907987155 0.402842206 0.040407945 41.7747747 0.560961221 26.04719913 0.015964506 3.00E-14 13.52283694 -1.024476076 QATENAKEEVR ddPTM_HeLa_SAHA_4h_R1 1 QATENAKEEVR 11 1 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 0 0 91.123 0.021727 2708100 1553.6 1945.8 1931.1 1833.4 1850.2 1959.8 1957.1 1917.6 1656.9 1440.6 FALSE FALSE TRUE 1717.014776 2008.845197 2194.260251 1868.888108 1708.438076 1792.814014 1736.881957 1868.550569 1645.369498 1502.711316 1.142611197 1.336813781 1.46020079 1.243677404 1.136903714 1.193052847 1.155832087 1.243452783 1.094933857 1 10.55335217 -7.938388916 1.352815475 1.03698962 1.246078137 0.413951155 0.093922938 0.253300146 0.964599797 0.024429816 0.021402719 1.15E-08 7.938388916 0.209088517 QATINIGTIGHVAHGK ddPTM_HeLa_SAHA_4h_R1 2 QATINIGTIGHVAHGK 16 0 H7BZU1;Q2VIR3-2;Q2VIR3;P41091 H7BZU1 EIF2S3;EIF2S3L Putative eukaryotic translation initiation factor 2 subunit 3-like protein;Eukaryotic translation initiation factor 2 subunit 3 0 0 ; ; 84.759 0.005191 12734600 8958.7 9848 8568.3 9189.7 11176.4 6085.8 12730.2 8941.1 10209.7 10357.5 FALSE FALSE TRUE 9901.01717 10167.08166 9735.943302 9367.579932 10320.06665 5567.255602 11297.76439 8712.399609 10138.64987 10804.06251 0.916416131 0.941042469 0.901137261 0.867042367 0.955202419 0.515292798 1.045695948 0.806400333 0.938410885 1 13.39928627 -7.050205629 0.368052959 0.996192492 0.813311261 0.142793394 0.129045317 1.537969194 0.563331017 0.074375065 0.104973981 8.91E-08 7.050205629 -0.18288123 AAPGAEFAPNK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 AAPGAEFAPNKR 12 1 Q15233;Q15233-2 Q15233 NONO Non-POU domain-containing octamer-binding protein 0 1 ; AAPGAEFAPNK(1)R;AAPGAEFAPNK(1)R 141.91 6.28E-05 171115000 807.27 1035.57 927.28 1425.72 2171.98 2710.1 2588.04 2889.3 730.31 595.47 FALSE TRUE FALSE 892.1823625 1069.123147 1053.644889 1453.316872 2005.563362 2479.184233 2296.826928 2815.39589 725.2277132 621.1436259 1.436354372 1.721217288 1.69629832 2.339743679 3.228823863 3.991322023 3.697738868 4.532600469 1.167568471 1 9.278783088 -5.70393863 0.647384968 1.151348546 4.584633574 0.971568945 0.2048001 0.11059236 0.076929818 0.043799583 0.200916988 1.98E-06 5.70393863 3.433285028 up QATVSWDSGGSDEAPPKPS(ph)RPGYPSPR ddPTM_HeLa_SAHA_4h_R1 1 QATVSWDSGGSDEAPPKPSRPGYPSPR 27 2 Q05397-5;Q05397;Q05397-7;Q05397-2;E7ESA6;H0YBP1;H0YB16;H0YBZ1;E9PEI4;Q05397-6;B4DWJ1;E5RHK7;E5RG80;E5RJQ2 Q05397-5 PTK2 Focal adhesion kinase 1 1 0 QATVSWDS(0.001)GGS(0.001)DEAPPKPS(0.377)RPGY(0.331)PS(0.291)PR 64.27 0.00044405 11523000 1456.5 1266.9 1510.7 1337.4 1553.5 2048 1963.3 1499.7 1642.5 1346.6 TRUE FALSE FALSE 1609.701353 1307.948391 1716.570329 1363.287311 1434.471166 1873.498878 1742.384317 1461.339846 1631.069709 1404.658516 1.145973441 0.931150437 1.22205526 0.970547144 1.021224126 1.333775332 1.240432672 1.040352391 1.161185932 1 10.45600373 -13.52287869 0.056499692 0.550437786 1.339257381 0.002840491 0.12619833 526.2934572 2.342291209 35.35095164 7.311231064 3.00E-14 13.52287869 0.788819595 QAVEMKNDKS(ph)EEEQSSSSVK ddPTM_HeLa_SAHA_4h_R1 5 QAVEMKNDKSEEEQSSSSVK 20 2 P07910;P07910-2;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 1 0 QAVEMKNDKS(0.995)EEEQS(0.003)S(0.001)S(0.001)SVK;QAVEMKNDKS(0.487)EEEQS(0.046)S(0.173)S(0.232)S(0.061)VK;QAVEMKNDKS(0.998)EEEQS(0.001)S(0.001)SSVK;QAVEMKNDKS(0.898)EEEQS(0.094)S(0.004)S(0.002)S(0.002)VK;QAVEMKNDKS(0.999)EEEQS(0.001)SSSVK ;;;; 78.552 0.0023921 52328000 8235.09 5858.36 8198.46 8972.96 8226.78 7895.67 9943.06 9802.87 4648.67 7627.55 TRUE FALSE FALSE 9101.29455 6048.174708 9315.703433 9146.644616 7596.445894 7222.914496 8824.24072 9552.12678 4616.319527 7956.411009 1.14389447 0.760163684 1.170842409 1.149594284 0.954757853 0.907810631 1.109073012 1.200557232 0.580201239 1 12.95790209 -9.880233466 2.024537461 0.999549707 1.062860974 0.043515563 0.187775056 1.250023565 9.284738531 0.101279043 0.01997828 1.32E-10 9.880233466 0.063311267 QAVK(ac)TPPR ddPTM_HeLa_SAHA_4h_R1 2 QAVKTPPR 8 1 Q9H0E9-4;Q9H0E9-2;H7C179;B5MCW3;H7C127;Q9H0E9;H7C2P4;Q9H0E9-3 Q9H0E9-4;Q9H0E9-3 BRD8 Bromodomain-containing protein 8 0 1 ; QAVK(1)TPPR;QAVK(1)TPPR 104.01 0.0073411 3657300 1343.38 1637.24 1660.22 1770.42 2023.74 1782.23 1806.09 1616.94 1148.21 1513.14 FALSE TRUE FALSE 1484.682872 1690.28765 1886.466136 1804.689039 1868.681478 1630.373977 1602.864 1575.581016 1140.219513 1578.378871 0.940637828 1.070901088 1.195192213 1.143381398 1.18392454 1.032942095 1.015512834 0.998227387 0.722399124 1 10.62422783 -7.153940117 5.2944175 0.972158938 1.097335608 0.387908756 0.102079712 0.172006706 7.109426409 0.011964041 0.014706222 7.02E-08 7.153940117 0.12517667 QAYS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 QAYSPR 6 0 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 QAYS(1)PR 101.46 0.015669 21238000 5146 5136.6 4741.3 7045.4 7727.6 12419 8571.7 6575.3 7122.5 11116 TRUE FALSE FALSE 5687.279891 5303.02921 5387.419672 7181.773905 7135.512957 11360.83133 7607.189757 6407.113347 7072.933943 11595.26516 0.490482952 0.457344367 0.464622378 0.619371252 0.615381611 0.979781935 0.656060008 0.5525629 0.609984666 1 13.50124819 -9.362588672 1.097818866 0.9989473 0.602020306 0.007629292 0.18399798 0.350864625 0.759637308 0.105774497 0.027744541 4.34E-10 9.362588672 -0.396926994 QCEGITS(ph)PEGSK ddPTM_HeLa_SAHA_4h_R1 1 QCEGITSPEGSK 12 0 Q9Y570;Q9Y570-4;Q9Y570-2 Q9Y570 PPME1 Protein phosphatase methylesterase 1 1 0 QCEGIT(0.365)S(0.635)PEGSK 175.66 4.51E-05 27037000 4128.4 3482.8 3186.6 3272.4 4248.4 4285.7 4397.4 3421.2 4146.7 3580.7 TRUE FALSE FALSE 4562.644054 3595.645005 3620.853253 3335.742034 3922.88851 3920.534249 3902.592979 3333.690658 4117.842777 3735.081501 1.221564791 0.96266842 0.969417469 0.893084136 1.050281904 1.049651594 1.044848145 0.892534917 1.102477356 1 11.86692401 -7.223994839 24.96730781 1.104627844 0.984413178 0.385330266 0.0737247 578.0864789 385457.5684 0.016145257 0.019773543 5.97E-08 7.223994839 -0.120214666 QCEVLIR ddPTM_HeLa_SAHA_4h_R1 1 QCEVLIR 7 0 Q96AQ1-2;Q96LY2-2;Q96AQ1;Q96LY2 Q96AQ1-2 CCDC74A;CCDC74B Coiled-coil domain-containing protein 74A;Coiled-coil domain-containing protein 74B 0 0 95.352 0.0049819 0 383.06 509.13 490.49 322.92 465.48 511.61 422.98 444.44 347.52 391.23 FALSE FALSE TRUE 423.3520083 525.6261461 557.3314228 329.1705836 429.815023 468.0179498 375.3851772 433.0718683 345.10158 408.0978399 1.037378704 1.287990513 1.365680894 0.806597221 1.053215628 1.146827804 0.919841127 1.061196179 0.84563442 1 8.672771264 -3.92111847 13.8489038 1.04926857 1.207859808 0.000146395 0.169208389 6306413.304 24301622.68 0.02147931 28860039.45 0.000119917 3.92111847 0.158591238 QDALNS(ph)IENS(ph)IY(ph)R ddPTM_HeLa_SAHA_4h_R1 2 QDALNSIENSIYR 13 0 A2CJ06 A2CJ06 DYTN Dystrotelin 3 0 QDALNS(1)IENS(1)IY(1)R;QDALNS(1)IENS(1)IY(1)R ; 105 0.0031038 24918000 152.33 244.264 266.29 289.84 349.88 392.59 204.15 139.74 280.25 316.8 TRUE FALSE FALSE 168.3527683 252.1783139 302.5786144 295.4502723 323.07227 359.1391233 181.1785047 136.1656531 278.2997174 330.4587984 0.509451614 0.76311575 0.915631891 0.894060844 0.977647657 1.086789413 0.548263522 0.412050319 0.842161621 1 8.368326597 -9.725454153 1.650282069 0.999707582 0.736197027 0.052423705 0.212645893 0.59912571 2.952768624 0.168256643 0.03690325 1.88E-10 9.725454153 -0.263510554 QDDGSSSAS(ph)PSVQGAPR ddPTM_HeLa_SAHA_4h_R1 3 QDDGSSSASPSVQGAPR 17 0 Q9NQA3 Q9NQA3 WASH6P WAS protein family homolog 6 1 0 QDDGS(0.009)S(0.047)S(0.144)AS(0.75)PS(0.05)VQGAPR;QDDGSSS(0.001)AS(0.986)PS(0.013)VQGAPR;QDDGSS(0.02)S(0.048)AS(0.928)PS(0.003)VQGAPR ;; 191.89 4.35E-12 19810100 2616.46 1998.62 1931.5 2263.85 2377.61 2200.86 2597.15 2129.84 2204.68 1822.31 TRUE FALSE FALSE 2891.671268 2063.376599 2194.714761 2307.67009 2195.438035 2013.334346 2304.911847 2075.361777 2189.337452 1900.878702 1.521228716 1.085485674 1.154579068 1.21400176 1.154959563 1.059159821 1.212550724 1.091790746 1.151750214 1 10.89245076 QDDSPSGASYGQDYDLS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 2 QDDSPSGASYGQDYDLSPSR 20 0 Q9NYV4-2;J3QSD7;Q9NYV4-3;Q9NYV4 Q9NYV4-2 CDK12 Cyclin-dependent kinase 12 1 0 QDDSPSGASYGQDYDLS(0.947)PS(0.053)R;QDDSPSGAS(0.01)YGQDYDLS(0.989)PS(0.001)R ; 240.87 1.77E-41 18220300 2320.26 2442.68 1601.01 2255.69 2168.62 2668.14 2541.34 2072.45 3088.25 2532.23 TRUE FALSE FALSE 2564.315593 2521.824435 1819.187305 2299.352142 2002.460804 2440.799461 2255.381735 2019.43973 3066.758617 2641.406828 0.970814327 0.954727764 0.688719089 0.870502839 0.758103895 0.924052833 0.853856252 0.764531881 1.16103229 1 11.36709081 -6.932586065 9.705419756 0.984994891 0.817587123 0.595333964 0.083564657 0.165453449 22.54910042 0.009468875 0.012449959 1.17E-07 6.932586065 -0.167407768 QDEHGYISR ddPTM_HeLa_SAHA_4h_R1 8 QDEHGYISR 9 0 P04792 P04792 HSPB1 Heat shock protein beta-1 0 0 ;;;;;;; ;;;;;;; 161.67 8.53E-05 185998000 35251.3 39484.8 31411.3 37700.2 43270.5 46295.5 42156.4 38809.8 41236.2 37821.3 FALSE FALSE TRUE 38959.19347 40764.13343 35691.86838 38429.94189 39955.12364 42350.86295 37412.85092 37817.10151 40949.23393 39451.96134 0.987509674 1.033259996 0.904691863 0.974094585 1.012753797 1.073479277 0.948314093 0.958560747 1.037951791 1 15.2678094 QDENDDDDDWNPCK ddPTM_HeLa_SAHA_4h_R1 4 QDENDDDDDWNPCK 14 0 Q14974;Q14974-2 Q14974 KPNB1 Importin subunit beta-1 0 0 ;;; ;;; 231.06 1.31E-23 52026000 7229.1 8168.5 7189.4 7546.6 8701.3 9824.3 8548.5 8512 9157.2 8484.6 FALSE FALSE TRUE 7989.489906 8433.16476 8169.133991 7692.675356 8034.608274 8987.21437 7586.600282 8294.275365 9093.4743 8850.412629 0.902725132 0.952855546 0.923022952 0.869188328 0.907823015 1.015457103 0.857203003 0.937162561 1.027463315 1 13.111529 -9.365195525 0.870006628 1.004900397 0.91922641 0.418420726 0.04293352 0.61893838 0.75894494 0.036709221 0.007606137 4.31E-10 9.365195525 -0.085673987 QDGGTAPVASAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 QDGGTAPVASASPK 14 0 A0A494C001;A0A499FJY3;A0A087WWP4;Q96T37-4;Q96T37-2;Q96T37-3;Q96T37 A0A494C001 RBM15 Putative RNA-binding protein 15 1 0 QDGGTAPVAS(0.001)AS(0.999)PK 103.39 0.0034931 3887900 1754.9 1435.4 1498.1 1450.7 1772.8 2043.7 1784.2 1815.7 1683.5 1753.9 TRUE FALSE FALSE 1939.488434 1481.907902 1702.253266 1478.780396 1636.968447 1869.565262 1583.43712 1769.257023 1671.784386 1829.519212 1.060108263 0.809998546 0.930437491 0.808289077 0.894753352 1.021888838 0.865493573 0.967061188 0.913783455 1 10.83724885 -7.278733817 24.99773447 1.02838446 0.900562633 0.202966014 0.07277358 512.8353572 741261.1577 0.010682231 0.012230125 5.26E-08 7.278733817 -0.127821827 QDIMPEVDKQSGS(ph)PESR ddPTM_HeLa_SAHA_4h_R1 1 QDIMPEVDKQSGSPESR 17 1 Q8NI08-2;Q8NI08;Q8NI08-7 Q8NI08-2 NCOA7 Nuclear receptor coactivator 7 1 0 QDIMPEVDKQS(0.084)GS(0.588)PES(0.328)R 105.01 0.0093933 5176000 954.41 928.48 922.92 895.51 991 1312.3 1168.3 1054.7 1305.6 1100.5 TRUE FALSE FALSE 1054.799223 958.5633612 1048.690731 912.843891 915.0697941 1200.484657 1036.839809 1027.722301 1296.514223 1147.947941 0.918856322 0.835023373 0.913535095 0.795196244 0.797135272 1.045765766 0.903211524 0.895269084 1.129419007 1 10.1648415 -8.379598183 0.875281122 0.990372984 0.886048581 0.367843956 0.081390593 0.514812792 0.825181176 0.025847054 0.015121972 4.17E-09 8.379598183 -0.104324403 QDITLEPSPT(ph)AR ddPTM_HeLa_SAHA_4h_R1 2 QDITLEPSPTAR 12 0 Q96DN6;A0A0C4DGJ6 Q96DN6 MBD6 Methyl-CpG-binding domain protein 6 1 0 QDITLEPS(0.202)PT(0.798)AR;QDITLEPS(0.121)PT(0.879)AR ; 118.2 0.0028417 4774000 1759.5 1479.93 1706.95 1911.64 2023.44 2087.8 2062.9 2136.38 1914.8 1991.33 TRUE FALSE FALSE 1944.572283 1527.880703 1939.564257 1948.642556 1868.404464 1909.907694 1830.777063 2081.734493 1901.474751 2077.185982 0.936157041 0.735553155 0.933746075 0.938116555 0.899488289 0.919468796 0.881373685 1.002189747 0.915409004 1 11.02041468 -8.162291254 1.467639879 0.984932524 0.902859181 0.05535849 0.068546595 0.378097833 1.655555954 0.015729267 0.012601373 6.88E-09 8.162291254 -0.082073344 QDKPLS(ph)PAGSSQEAADTPDTR ddPTM_HeLa_SAHA_4h_R1 2 QDKPLSPAGSSQEAADTPDTR 21 1 P13994 P13994 CCDC130 Coiled-coil domain-containing protein 130 1 0 QDKPLS(0.898)PAGS(0.087)S(0.015)QEAADTPDTR;QDKPLS(0.894)PAGS(0.073)S(0.032)QEAADTPDTR ; 77.533 0.0010125 12717200 1421.9 1937.62 1303.01 1995.58 1995.51 2261.06 1916.27 1975.77 2440.66 1614.64 TRUE FALSE FALSE 1571.461966 2000.400159 1480.577417 2034.207337 1842.614455 2068.404968 1700.646256 1925.232664 2423.675248 1684.255032 0.933030887 1.187706209 0.879069612 1.20777869 1.094023423 1.228082997 1.009732032 1.143076688 1.439019152 1 10.71789489 -6.619437818 1.076596672 0.972580463 1.127557892 0 0.178885843 0.415276702 0.962958482 0.017623565 0.029357628 2.40E-07 6.619437818 0.154977429 QDKPMDTSVLS(ph)EEGGEPFQK ddPTM_HeLa_SAHA_4h_R1 2 QDKPMDTSVLSEEGGEPFQK 20 1 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 QDKPMDTS(0.004)VLS(0.996)EEGGEPFQK;QDKPMDTSVLS(1)EEGGEPFQK ; 126.29 5.95E-05 22860000 3946.2 4064.7 3667.8 4229.4 4324.6 4589.6 5120.9 4607.2 4912.4 4273 TRUE FALSE FALSE 4361.279422 4196.398947 4167.628683 4311.266153 3993.250082 4198.54026 4544.682855 4489.354495 4878.214208 4457.229942 0.97847306 0.941481369 0.935026628 0.967252354 0.895903988 0.941961782 1.019620463 1.007207291 1.094449753 1 12.12193167 -7.714415437 1.789031551 0.993015486 0.957427447 0.222901833 0.046616485 0.435215079 2.901609054 0.007443953 0.007384182 1.93E-08 7.714415437 -0.035588039 QDLPNAMNAAEITDK ddPTM_HeLa_SAHA_4h_R1 1 QDLPNAMNAAEITDK 15 0 P61204-2;P84077;P61204;H0YGG7 P61204-2 ARF3;ARF1 ADP-ribosylation factor 3;ADP-ribosylation factor 1 0 0 124.16 0.003598 4064300 1638.6 1104.2 1179.7 1855.8 1173.3 2055.2 1377.9 1426.4 1828.6 1464.1 FALSE FALSE TRUE 1810.955466 1139.976804 1340.463372 1891.721693 1083.402007 1880.085398 1222.855066 1389.914753 1815.874624 1527.224516 1.185782082 0.746436947 0.877712058 1.238666399 0.709392755 1.231047156 0.800704188 0.91009196 1.18900306 1 10.57669645 -7.287336536 24.83374368 1.087730421 0.93844907 0.191214411 0.177795739 1003.443688 962236.6813 0.02888411 0.033036173 5.16E-08 7.287336536 -0.149281351 QDPFQESGLHLS(ph)PTAAEAK ddPTM_HeLa_SAHA_4h_R1 1 QDPFQESGLHLSPTAAEAK 19 0 H3BN50;Q15599-3;H3BQS0;Q15599 H3BN50 SLC9A3R2 Na(+)/H(+) exchange regulatory cofactor NHE-RF2 1 0 QDPFQESGLHLS(0.704)PT(0.295)AAEAK 68.97 0.0089765 7359600 890.92 1367.9 577.73 1271.4 1405.4 1518.7 1055.7 1370.2 1508 1133.3 TRUE FALSE FALSE 984.6310533 1412.220858 656.4600357 1296.009785 1297.718556 1389.298216 936.9098575 1335.152268 1497.505705 1182.162109 0.832906964 1.194608461 0.555304582 1.096304623 1.097750085 1.175218022 0.792539238 1.129415549 1.266751568 1 10.20721217 QDPSVLHTEEMR ddPTM_HeLa_SAHA_4h_R1 2 QDPSVLHTEEMR 12 0 Q8NFI4;P50502;Q3KNR6;F8WAQ7 Q8NFI4 ST13P5;ST13 Putative protein FAM10A5;Hsc70-interacting protein 0 0 ; ; 184.31 1.49E-06 15451000 6512.9 6490.6 5074.2 6984.3 8127.1 9277.3 7871.7 8172.7 7829.1 6746 FALSE FALSE TRUE 7197.956704 6700.899699 5765.685551 7119.491226 7504.403354 8486.821847 6985.955599 7963.654168 7774.616656 7036.853074 1.022894272 0.952258009 0.819355682 1.011743623 1.066443092 1.206053581 0.992767012 1.131706756 1.104842829 1 12.78071468 -5.707844839 3.893818602 0.989984282 1.102841353 0.318018182 0.083136562 0.20754221 6.431289632 0.011328892 0.023027292 1.96E-06 5.707844839 0.112857072 QDPVVHLS(ph)PNK ddPTM_HeLa_SAHA_4h_R1 2 QDPVVHLSPNK 11 0 O43166-3;O43166-2;O43166;F5GYF8 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 QDPVVHLS(1)PNK;QDPVVHLS(1)PNK ; 106.42 0.0050432 20073600 4520.7 5835.2 4433.8 5298.4 4947.4 5163.1 4722.9 4355 7136.7 5177.9 TRUE FALSE FALSE 4996.207968 6024.264309 5038.015174 5400.958194 4568.331281 4723.174833 4191.466862 4243.605406 7087.035124 5401.144609 0.925027625 1.115368083 0.932768059 0.999965486 0.845807993 0.874476648 0.776033075 0.785686315 1.312135785 1 12.39904946 -5.392173701 1.331640999 0.976502084 0.785057201 0.391193781 0.120316236 0.221854321 0.736436193 0.008936104 0.03221383 4.05E-06 5.392173701 -0.191444883 QDS(ph)LEPVLR ddPTM_HeLa_SAHA_4h_R1 1 QDSLEPVLR 9 0 D6RD37;D6RAX8;D6RBL1;D6RDZ9;D6RCK9;Q99576-3;D6RDZ7;E7EWD5 D6RD37 TSC22D3 1 0 QDS(1)LEPVLR 118.76 0.0038456 1613900 465.29 785.33 515.73 460.79 792.72 1175.1 730.89 585.44 656.55 659.16 TRUE FALSE FALSE 514.231337 810.7752073 586.0109986 469.7092568 731.9819649 1074.974869 648.6483336 570.4652925 651.9810151 687.5796135 0.747886248 1.179172843 0.852280939 0.683134356 1.06457776 1.563418763 0.943379241 0.829671621 0.948226216 1 9.42538296 -5.540322886 24.11030418 0.887697616 1.131732063 0.164494814 0.218392247 187.0348179 258508.229 0.032346088 0.064704925 2.88E-06 5.540322886 0.244034447 QDS(ph)LEPVLRDPCYLINEGICNR ddPTM_HeLa_SAHA_4h_R1 2 QDSLEPVLRDPCYLINEGICNR 22 1 D6RD37;D6RAX8;D6RBL1;D6RDZ9;D6RCK9;Q99576-3;E7EWD5 D6RD37 TSC22D3 1 0 QDS(0.988)LEPVLRDPCY(0.012)LINEGICNR;QDS(0.998)LEPVLRDPCY(0.002)LINEGICNR ; 61.276 0.0087926 1989600 192.98 291.62 135.35 63.956 220.701 556.07 448.02 51.757 171.71 142.53 TRUE FALSE FALSE 213.2785218 301.0686793 153.7947931 65.19396086 203.7909371 508.6897076 397.6076105 50.43313088 170.5150561 148.6751658 1.43452688 2.025009878 1.034434986 0.438499332 1.370712694 3.421484044 2.674337764 0.339216914 1.146896694 1 7.216019875 -5.493945954 24.60230772 1.203679411 2.230971096 0.219726955 0.811132361 605.3607668 514753.401 0.111760398 0.249442742 3.21E-06 5.493945954 1.027291685 QDSLS(ph)SEVDTLK ddPTM_HeLa_SAHA_4h_R1 1 QDSLSSEVDTLK 12 0 Q08378-4;Q08378-2;Q08378 Q08378-4 GOLGA3 Golgin subfamily A member 3 1 0 QDS(0.295)LS(0.617)S(0.083)EVDT(0.005)LK 115.83 0.00063087 0 481.5 620.46 470.11 472.87 830.48 819.88 867.65 529.88 682.07 397.52 TRUE FALSE FALSE 532.1463792 640.5633111 534.1741426 482.0230826 766.8488018 750.0216115 770.0197385 516.3264369 677.3234193 414.6590326 1.28333483 1.544795267 1.288225025 1.162456488 1.849347877 1.808767089 1.856994972 1.245183141 1.633446678 1 8.695781709 -7.183045058 0.348086169 0.982223672 1.727265148 0 0.297737815 0.766074716 0.269870513 0.168861698 0.209433751 6.56E-08 7.183045058 0.745041476 QDSRGS(ph)PLLGPVVPGPS(ph)PIPSVTEK ddPTM_HeLa_SAHA_4h_R1 2 QDSRGSPLLGPVVPGPSPIPSVTEK 25 1 P49454 P49454 CENPF Centromere protein F 2 0 QDS(0.4)RGS(0.6)PLLGPVVPGPS(0.959)PIPS(0.018)VT(0.023)EK;QDS(0.38)RGS(0.62)PLLGPVVPGPS(0.99)PIPS(0.009)VT(0.001)EK ; 115.18 2.93E-06 7985600 2406.3 1880.94 2456.3 2146.11 2798.5 2900 2695.2 2267.42 2073.48 2586.7 TRUE FALSE FALSE 2659.405674 1941.88369 2791.031772 2187.651062 2584.079535 2652.903685 2391.929003 2209.42268 2059.050484 2698.225296 0.985612906 0.719689232 1.034395377 0.810774054 0.957695986 0.983203178 0.886482313 0.81884292 0.763112883 1 11.3977951 -7.480471131 24.99803998 0.993652866 0.893253647 0 0.113076959 452.8385776 266936.9396 0.013588189 0.01540444 3.31E-08 7.480471131 -0.100399218 QDVDNAS(ph)LAR ddPTM_HeLa_SAHA_4h_R1 1 QDVDNASLAR 10 0 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 1 0 QDVDNAS(1)LAR 87.831 0.019984 16968000 1203.6 1023.1 904.28 1438.9 1483.8 1507.3 1395.9 1318.6 1226.3 937.8 TRUE FALSE FALSE 1330.20017 1056.249111 1027.510569 1466.75199 1370.111565 1378.86956 1238.829658 1284.872121 1217.766078 978.2331475 1.359798708 1.079751912 1.050373903 1.499388969 1.400598179 1.40955105 1.266395093 1.313462056 1.244862824 1 9.934034541 -6.264198549 24.99482572 1.157875139 1.374707242 0.517210102 0.111281978 220.8780158 2000892.689 0.023066989 0.036228301 5.44E-07 6.264198549 0.216832103 QDVDNASLAR ddPTM_HeLa_SAHA_4h_R1 1 QDVDNASLAR 10 0 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 164.33 1.00E-07 4103700 1841.3 2303.8 1706.4 1584.2 2425.8 2477.5 2479.4 2136.4 2294.2 1899.3 FALSE FALSE TRUE 2034.976382 2378.444632 1938.939305 1614.864482 2239.935728 2266.403062 2200.411387 2081.753981 2278.234475 1981.188118 1.027149499 1.200514282 0.978675012 0.815099014 1.130602242 1.143961566 1.110652424 1.050760381 1.149933444 1 10.95215016 QDY(ph)QEILDS(ph)PIK ddPTM_HeLa_SAHA_4h_R1 1 QDYQEILDSPIK 12 0 Q8TBE7 Q8TBE7 SLC35G2 Solute carrier family 35 member G2 2 0 QDY(1)QEILDS(1)PIK 93.649 0.0026874 0 72.88 119.87 163.38 196.79 0 69.319 233.9 0 165.59 70.25 TRUE FALSE FALSE 80.54585279 123.7538666 185.6445756 200.599155 0 63.41263122 207.5809564 0 164.4376457 73.2788213 1.099169601 1.688808096 2.533400132 2.737477916 0 0.865360961 2.832755123 0 2.2439996 1 6.195324392 -1.167921885 17.96432324 1.27212909 0.108077848 0 1.039125281 0 0 0.126446922 0 0.067932581 1.167921885 -1.164051242 QDYK(ac)EGEMTLK ddPTM_HeLa_SAHA_4h_R1 1 QDYKEGEMTLK 11 1 H0YMI6;H0YMA1;H0YMZ1;H0YL69;P25789;H0YKS0;H0YKT8;H0YN18;P25789-2 H0YMI6 PSMA4 Proteasome subunit alpha type;Proteasome subunit alpha type-4;Proteasome subunit beta type 0 1 QDYK(1)EGEMTLK 119.27 0.0035558 812500 206.99 163.4 249.24 377.32 270.65 675.56 375.77 591.11 760.91 513.02 FALSE TRUE FALSE 228.7621579 168.6942672 283.2051292 384.6235742 249.9128555 617.9984874 333.4873706 575.9902621 755.6147654 535.1388029 0.427481911 0.315234601 0.529218079 0.718736096 0.467005671 1.154837743 0.623179199 1.076338062 1.411997712 1 9.063769332 -5.267262331 24.89001654 0.660547053 0.918624418 0.104167456 0.328559927 659.4345899 2818737.303 0.040967035 0.093964173 5.40E-06 5.267262331 0.258077366 QEAGDS(ph)PPPAPGTPK ddPTM_HeLa_SAHA_4h_R1 4 QEAGDSPPPAPGTPK 15 0 J3KR72;P49848-4;P49848-2;P49848;P49848-3 J3KR72 TAF6 Transcription initiation factor TFIID subunit 6 1 0 QEAGDS(0.999)PPPAPGT(0.001)PK;QEAGDS(0.989)PPPAPGT(0.011)PK;QEAGDS(1)PPPAPGTPK;QEAGDS(0.998)PPPAPGT(0.002)PK ;;; 147.96 5.14E-08 17457700 7789.5 8659.8 7285.7 10049.6 9365.8 10813.6 8153.9 8599.9 10642.7 7957.2 TRUE FALSE FALSE 8608.83535 8940.383202 8278.557254 10244.12454 8648.194427 9892.220444 7236.401712 8379.927011 10568.63658 8300.273834 1.03717486 1.077119066 0.997383631 1.234191154 1.041916761 1.191794469 0.871826865 1.009596452 1.273287701 1 13.01894322 -4.73062696 24.99911151 1.047267467 0.94071175 0.114945537 0.110520683 246.4758054 199970.3646 0.01157986 0.043318731 1.86E-05 4.73062696 -0.106555718 QEAGDSPPPAPGT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 QEAGDSPPPAPGTPK 15 0 J3KR72;P49848-4;P49848-2;P49848;P49848-3 J3KR72 TAF6 Transcription initiation factor TFIID subunit 6 1 0 QEAGDSPPPAPGT(1)PK 166.21 6.28E-06 4196800 1368.1 1941.6 1504.1 1455.2 1717 2016.1 1717.4 1531.8 2211.5 1980.4 TRUE FALSE FALSE 1512.003035 2004.509114 1709.070915 1483.3675 1585.443831 1844.316938 1524.153632 1492.618774 2196.109991 2065.784736 0.731926715 0.970337847 0.82732285 0.718064895 0.767477755 0.892792412 0.737808546 0.722543229 1.06308753 1 11.01247421 -9.458711632 0.937573532 1.013521722 0.793807917 0.567057178 0.080921872 0.462579501 0.65075986 0.075421125 0.014580837 3.48E-10 9.458711632 -0.219713805 QEAGKEGTAPS(ph)ENGETK ddPTM_HeLa_SAHA_4h_R1 1 QEAGKEGTAPSENGETK 17 1 A0A087WZE9;Q15651 A0A087WZE9 HMGN3 High mobility group nucleosome-binding domain-containing protein 3 1 0 QEAGKEGTAPS(0.99)ENGET(0.01)K 81.226 0.0054217 4066900 1490.9 1173.3 918.6 1316.2 1281.4 1175.8 1242.1 1393.9 978.46 1345.9 TRUE FALSE FALSE 1647.719702 1211.31569 1043.782024 1341.676954 1183.219409 1075.615225 1102.335639 1358.246056 971.6508172 1403.928336 1.173649438 0.862804503 0.743472439 0.955659146 0.842791885 0.766146817 0.785179422 0.967461103 0.692094313 1 10.45525358 -7.191960476 7.106661919 1.081861194 0.840031248 0 0.146564938 0.130934904 11.645653 0.015122922 0.018530203 6.43E-08 7.191960476 -0.241829946 QEAKPQQAAGMLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 QEAKPQQAAGMLSPK 15 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 QEAKPQQAAGMLS(1)PK;QEAKPQQAAGMLS(1)PK ; 110.61 0.0012179 17483000 5672.4 7083.8 4524.6 5489.9 6228.4 7022.8 5419.4 5080.6 9638.6 6037.7 TRUE FALSE FALSE 6269.049058 7313.319768 5141.188925 5596.164953 5751.181338 6424.417931 4809.594849 4950.645609 9571.524198 6298.014795 0.995400815 1.161210319 0.816318966 0.888560147 0.913173679 1.020070314 0.763668395 0.786064462 1.519768452 1 12.62068143 -6.731614051 24.99999743 1.010021222 0.870410916 0.268953104 0.181384916 158.1161086 132534.7449 0.013115404 0.018546561 1.86E-07 6.731614051 -0.139610306 QEASES(ph)PVK ddPTM_HeLa_SAHA_4h_R1 1 QEASESPVK 9 0 Q01167-2;Q01167;E9PPI7;Q01167-3 Q01167-2 FOXK2 Forkhead box protein K2 1 0 QEAS(0.426)ES(0.574)PVK 105.36 0.0077011 3836800 755.51 1275.3 704.07 897.85 1436.6 2787.4 1281.4 1046.4 1829.3 1320.2 TRUE FALSE FALSE 834.9780082 1316.620557 800.016993 915.2291851 1326.528018 2549.897839 1137.2135 1019.634603 1816.569752 1377.120283 0.606321771 0.956067943 0.580934725 0.664596402 0.963262276 1.851615919 0.825790974 0.740410708 1.319107543 1 10.42743886 -5.520486063 24.94280117 0.793668987 1.157843465 0.103279795 0.347545011 105.7156337 1102041.922 0.045717364 0.092703533 3.02E-06 5.520486063 0.364174478 QEEAEEQGAGS(ph)PGQPAHLAR ddPTM_HeLa_SAHA_4h_R1 2 QEEAEEQGAGSPGQPAHLAR 20 0 Q96S99 Q96S99 PLEKHF1 Pleckstrin homology domain-containing family F member 1 1 0 QEEAEEQGAGS(1)PGQPAHLAR;QEEAEEQGAGS(1)PGQPAHLAR ; 177.22 1.37E-09 9584500 2141.61 2536.47 1995.32 2578.8 2417.46 2853.9 2900.94 2518.28 3312.7 2302.06 TRUE FALSE FALSE 2366.874366 2618.653292 2267.231818 2628.716403 2232.234737 2610.731664 2574.518596 2453.866044 3289.646651 2401.313073 0.985658385 1.090508906 0.94416336 1.094699576 0.929589216 1.087210033 1.072129505 1.021885098 1.369936594 1 11.22960779 -5.577036534 0.438613399 0.993915243 1.064662441 0 0.131302163 2.971660865 0.7940878 0.014967389 0.092243267 2.65E-06 5.577036534 0.070747198 QEEEAAQQGPVVVS(ph)PASDYKDK ddPTM_HeLa_SAHA_4h_R1 2 QEEEAAQQGPVVVSPASDYKDK 22 1 I3L0X5;I3L4C3;O75391 I3L0X5 SPAG7 Sperm-associated antigen 7 1 0 QEEEAAQQGPVVVS(1)PASDYKDK;QEEEAAQQGPVVVS(0.998)PAS(0.002)DYKDK ; 132.16 1.52E-06 30669000 3004.4 3990 2785.03 3030.8 3923.8 5043.8 4029.7 3707.8 4785.1 4132.8 TRUE FALSE FALSE 3320.416577 4119.278618 3164.559385 3089.465517 3623.159292 4614.039864 3576.26755 3612.959845 4751.800099 4310.985233 0.770222211 0.955530672 0.734068714 0.716649524 0.840448087 1.07029823 0.829570819 0.838082167 1.102253857 1 12.07380191 -9.490851127 1.200039983 1.00112593 0.838775958 0.357044181 0.104941848 0.545895749 1.390871538 0.073919826 0.017492593 3.23E-10 9.490851127 -0.162349973 QEEGADAS(ph)EEDPTPAGEEDVKDAR ddPTM_HeLa_SAHA_4h_R1 1 QEEGADASEEDPTPAGEEDVKDAR 24 1 Q86X53;E5RHA3;H0YB25 Q86X53 ERICH1 Glutamate-rich protein 1 1 0 QEEGADAS(0.959)EEDPT(0.041)PAGEEDVKDAR 81.697 0.00015808 8241600 1115.8 1479.7 1260.2 862.21 1084.8 1368.7 1265.3 1121.8 1148.1 1244 TRUE FALSE FALSE 1233.164963 1527.643251 1431.933493 878.8993213 1001.682858 1252.07906 1122.925114 1093.10598 1140.110279 1297.634928 0.950317333 1.177251951 1.103494875 0.677308619 0.771929637 0.964893155 0.865362892 0.84238329 0.878606343 1 10.34166884 -6.272686501 24.9966168 1.002845553 0.831545466 0.475971345 0.102536009 562.460972 1250062.458 0.01577774 0.024235332 5.34E-07 6.272686501 -0.171300088 QEEMNS(ph)QQEEEEMETDAR ddPTM_HeLa_SAHA_4h_R1 1 QEEMNSQQEEEEMETDAR 18 0 E9PPJ0;Q13435;E9PJ04;H0YCG1 E9PPJ0 SF3B2 Splicing factor 3B subunit 2 1 0 QEEMNS(1)QQEEEEMETDAR 187.04 4.69E-28 0 359.54 393.99 275.62 290.46 259.01 390.1 282.36 247.41 400.25 288.95 TRUE FALSE FALSE 397.3580668 406.7555345 313.1800582 296.0822733 239.1647098 356.8612854 250.5881097 241.0816104 397.4646277 301.4080486 1.31833927 1.349517826 1.03905672 0.982330348 0.793491451 1.18398061 0.831391566 0.79985127 1.318692814 1 8.235574132 -6.399804839 3.13220858 1.169828881 0.919845156 0.492037884 0.148453914 0.236785293 4.412177034 0.026584357 0.04179323 3.98E-07 6.399804839 -0.249983725 QEEMNSQQEEEEMETDAR ddPTM_HeLa_SAHA_4h_R1 1 QEEMNSQQEEEEMETDAR 18 0 E9PPJ0;Q13435;E9PJ04;H0YCG1 E9PPJ0 SF3B2 Splicing factor 3B subunit 2 0 0 117.08 0.00026832 0 261.41 206.79 342.68 385.6 367.29 205.32 270.88 298.42 363.73 190.86 FALSE FALSE TRUE 288.9063032 213.4901317 389.3786458 393.0638456 339.1483195 187.8255809 240.3998695 290.7868485 361.1987733 199.0889086 1.451142131 1.072335637 1.955802804 1.974313126 1.703501827 0.943425639 1.207500062 1.460587888 1.814258643 1 7.63726904 -8.961535802 0.683973217 0.98448126 1.480497583 0 0.408982433 1.010027487 0.835885814 0.276860285 0.077399858 1.09E-09 8.961535802 0.496016323 QEES(ph)ESPVERPLKENPPNK ddPTM_HeLa_SAHA_4h_R1 1 QEESESPVERPLKENPPNK 19 2 H3BLV9;Q96SB4-4;Q96SB4;Q96SB4-3;D6RBF8 H3BLV9 SRPK1 SRSF protein kinase 1 1 0 QEES(0.819)ES(0.181)PVERPLKENPPNK 43.611 0.022055 5356000 815.67 982.82 706.41 874.41 1186.2 1237.6 1278.1 1116.7 1421.1 1039.8 TRUE FALSE FALSE 901.465913 1014.664013 802.675876 891.33547 1095.313612 1132.149517 1134.284824 1088.136431 1411.210449 1084.630867 0.831126921 0.935492474 0.740045209 0.82178693 1.009849199 1.043810897 1.045779591 1.003232034 1.301097445 1 10.08298842 -5.627449748 7.106673133 0.898626758 1.031409637 0.041882811 0.145061652 0.19845068 12.00217024 0.012950076 0.026002964 2.36E-06 5.627449748 0.132782879 QEGHLDSESPT(ph)NIPLTK ddPTM_HeLa_SAHA_4h_R1 2 QEGHLDSESPTNIPLTK 17 0 H7BXC7;Q9H7P9-3;Q9H7P9;E7ESZ3 H7BXC7 PLEKHG2 Pleckstrin homology domain-containing family G member 2 1 0 QEGHLDS(0.008)ES(0.14)PT(0.851)NIPLT(0.001)K;QEGHLDS(0.011)ES(0.374)PT(0.615)NIPLTK ; 126.91 0.00032691 11835100 4385.3 4419.4 3696.7 4549.6 5135.9 5682.7 4887.7 5299.7 4964.1 5140.1 TRUE FALSE FALSE 4846.565974 4562.59146 4200.467024 4637.664087 4742.388452 5198.50199 4337.723132 5164.141348 4929.554424 5361.714866 0.903920872 0.850957497 0.783418576 0.864959104 0.884490983 0.969559576 0.809017868 0.963151058 0.919398839 1 12.38847878 -8.518964812 0.854428226 0.991064039 0.874917314 0.192584932 0.060075782 0.390267462 0.586080706 0.022874817 0.011828687 3.03E-09 8.518964812 -0.116146725 QEK(ac)PAEKPAETPVATSPTATDSTSGDSSR ddPTM_HeLa_SAHA_4h_R1 1 QEKPAEKPAETPVATSPTATDSTSGDSSR 29 2 P54727;P54727-2;H0Y579 P54727 RAD23B UV excision repair protein RAD23 homolog B 0 1 QEK(0.927)PAEK(0.073)PAETPVATSPTATDSTSGDSSR 111.81 5.73E-10 3212200 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 QEKPAEKPAETPVAT(ph)SPTATDSTSGDSSR ddPTM_HeLa_SAHA_4h_R1 6 QEKPAEKPAETPVATSPTATDSTSGDSSR 29 2 P54727;P54727-2;H0Y579 P54727 RAD23B UV excision repair protein RAD23 homolog B 1 0 QEKPAEKPAETPVAT(0.541)S(0.37)PT(0.058)AT(0.028)DS(0.002)T(0.001)SGDSSR;QEKPAEKPAET(0.016)PVAT(0.423)S(0.423)PT(0.089)AT(0.042)DS(0.004)T(0.002)S(0.001)GDSSR;QEKPAEKPAET(0.001)PVAT(0.535)S(0.374)PT(0.071)AT(0.012)DS(0.005)T(0.002)SGDSSR;QEKPAEKPAET(0.005)PVAT(0.555)S(0.4)PT(0.034)AT(0.006)DS(0.001)TSGDSSR;QEKPAEKPAET(0.002)PVAT(0.553)S(0.426)PT(0.017)AT(0.002)DSTSGDSSR;QEKPAEKPAET(0.001)PVAT(0.538)S(0.418)PT(0.033)AT(0.007)DS(0.001)T(0.001)S(0.001)GDSSR ;;;;; 120.23 1.97E-10 1113909000 16690.9 16216.96 16307.6 17703.3 18606.3 20787.3 20645.6 20058.2 17403.9 16680.8 TRUE FALSE FALSE 18446.52544 16742.40014 18529.9148 18045.97297 17180.68931 19016.10509 18322.50275 19545.14029 17282.78484 17399.99092 1.060145693 0.962207407 1.064938188 1.037125424 0.987396453 1.092880173 1.053017949 1.123284511 0.993264015 1 14.08679893 -1.000000049 0.581470965 1.02458934 6.415942762 0.445313564 0.036084936 107.8290045 0.816796443 0.006394331 736.8909998 0.099999989 1.000000049 5.391353421 QELAVFCS(ph)PEPPAK ddPTM_HeLa_SAHA_4h_R1 2 QELAVFCSPEPPAK 14 0 Q9Y490 Q9Y490 TLN1 Talin-1 1 0 QELAVFCS(1)PEPPAK;QELAVFCS(1)PEPPAK ; 84.859 0.013122 9923400 4523.1 5473 4249 4819.4 5971.4 5877.1 5427.2 4718.7 6550.2 4526.9 TRUE FALSE FALSE 4998.860411 5650.328791 4828.031592 4912.686456 5513.872622 5376.338016 4816.517172 4598.002487 6504.616625 4722.076813 1.058614802 1.19657706 1.022438174 1.040365638 1.16767957 1.138553698 1.019999751 0.973724628 1.377490643 1 12.20520579 -8.421688195 1.077052237 1.008822628 1.079995475 0 0.134466699 0.608658452 1.445015287 0.021883035 0.013831025 3.79E-09 8.421688195 0.071172847 QELEEICHDLEAR ddPTM_HeLa_SAHA_4h_R1 1 QELEEICHDLEAR 13 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 119.32 0.00025641 0 241.96 290.27 258.86 254.01 156.4 216.02 335.76 305.45 201.84 413.29 FALSE FALSE TRUE 267.410463 299.6749385 294.1360927 258.9267309 144.4166658 197.6138807 297.9794011 297.6370313 200.435379 431.1089545 0.620285105 0.695125757 0.682277855 0.600606246 0.334988787 0.458385006 0.69119279 0.690398629 0.464929751 1 8.751908719 -9.317484416 0.40425307 1.137417255 0.559385203 0 0.19935831 1.165741757 0.242440279 0.291434471 0.040881271 4.81E-10 9.317484416 -0.578032052 QEMEK(ac)MTKK ddPTM_HeLa_SAHA_4h_R1 1 QEMEKMTKK 9 2 P40222;Q9NUQ3;Q9NUQ3-2 P40222;Q9NUQ3 TXLNA;TXLNG Alpha-taxilin;Gamma-taxilin 0 1 QEMEK(1)MTKK 148.69 1.96E-11 0 472.81 670.91 431.22 585.38 811.93 646.21 630.22 384.23 458.4 578.08 FALSE TRUE FALSE 522.5423251 692.6479242 489.9844159 596.7108764 749.7200988 591.1492725 559.305987 374.401953 455.2099571 603.0038579 0.866565476 1.148662509 0.812572605 0.989563945 1.243308959 0.98034078 0.927533016 0.620894789 0.754903889 1 9.236023422 -4.262532151 3.529746473 0.969641404 0.579736861 0.368943738 0.137772391 0.221119785 4.806628312 0.017130006 0.228086781 5.46E-05 4.262532151 -0.389904544 QEMEKMTK ddPTM_HeLa_SAHA_4h_R1 1 QEMEKMTK 8 1 P40222;Q9NUQ3;Q9NUQ3-2 P40222;Q9NUQ3 TXLNA;TXLNG Alpha-taxilin;Gamma-taxilin 0 0 85.064 0.012531 1875900 608.19 751.4 874.72 1245.4 804.93 898.02 828.15 877.33 1203.5 932.08 FALSE FALSE TRUE 672.1622147 775.745853 993.9222863 1269.506518 743.2564373 821.5036439 734.9643824 854.889169 1195.124746 972.2665303 0.691335342 0.797873658 1.022273477 1.305718626 0.764457496 0.844936669 0.755928914 0.879274502 1.229215147 1 9.925208048 QEMQEVQS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 QEMQEVQSSR 10 0 P22626;P22626-2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 1 0 QEMQEVQS(0.676)S(0.324)R 85.973 0.021506 4754900 1026.1 724.57 835.88 1200.6 1017.2 1676.8 1347.4 1307.8 1404.4 851.75 TRUE FALSE FALSE 1134.029906 748.0465434 949.7893733 1223.839349 939.2623558 1533.927207 1195.787006 1274.34837 1394.626666 888.4731109 1.276380672 0.841946182 1.069013076 1.377463577 1.057164639 1.726475667 1.345889922 1.434312816 1.569689222 1 9.795184304 -5.279726565 24.9218214 1.121154557 1.486592528 0.312496845 0.216909282 483.6113944 659066.3345 0.024911692 0.055803264 5.25E-06 5.279726565 0.365437972 QEMQEVQSSR ddPTM_HeLa_SAHA_4h_R1 12 QEMQEVQSSR 10 0 P22626;P22626-2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 0 0 ;;;;;;;;;;; ;;;;;;;;;;; 199.33 1.33E-24 482955800 13879.5 13753.48 13090.68 14377.48 15020.07 16940.53 15020.75 14761.78 14744.52 13728.31 FALSE FALSE TRUE 15339.40949 14199.10178 14874.6097 14655.77692 13869.23548 15497.10154 13330.57568 14384.19504 14641.91168 14320.20463 1.071172507 0.991543218 1.038714885 1.023433484 0.968508191 1.082184364 0.930892821 1.00446854 1.022465256 1 13.80576449 -4.753544506 0.746618595 1.030687225 0.963732816 0.083900927 0.041114711 2.309274863 1.356335486 0.007177485 0.11185988 1.76E-05 4.753544506 -0.066954408 QEMT(ph)GVGAS(ph)LEKR ddPTM_HeLa_SAHA_4h_R1 1 QEMTGVGASLEKR 13 1 Q16206;A0A0C4DGT9;Q16206-2 Q16206 ENOX2 Ecto-NOX disulfide-thiol exchanger 2;Hydroquinone [NADH] oxidase;Protein disulfide-thiol oxidoreductase 2 0 QEMT(1)GVGAS(1)LEKR 63.76 0.014918 10287000 2122.2 1981.7 2197.6 2362.8 2123.2 1818.8 2186.8 1775.3 2135.6 2228.8 TRUE FALSE FALSE 2345.422733 2045.90838 2497.077483 2408.535411 1960.520875 1663.828008 1940.735509 1729.890397 2120.738186 2324.894475 1.008829759 0.880000534 1.074060569 1.035976229 0.843273058 0.715657431 0.834762837 0.744072651 0.912186858 1 11.18294952 -5.621913484 4.256385565 1.001508815 0.772541333 0.724224906 0.061401324 0.06688411 2.197593872 0.007523421 0.015540946 2.39E-06 5.621913484 -0.228967482 QENCGAQQVPAGPGTST(ph)PPSS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 1 QENCGAQQVPAGPGTSTPPSSPVR 24 0 Q96G46-2;Q96G46 Q96G46-2 DUS3L tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like 2 0 QENCGAQQVPAGPGT(0.015)S(0.39)T(0.663)PPS(0.487)S(0.445)PVR 143.01 5.40E-07 6772300 673.25 926.15 639.94 933.01 925.92 802.33 683.14 799.81 891.44 808.74 TRUE FALSE FALSE 744.065524 956.1578677 727.1476905 951.0697577 854.9762096 733.9669702 606.2712893 779.3520183 885.2363965 843.6087393 0.882003101 1.133413896 0.861948978 1.127382533 1.013474813 0.87003244 0.718664069 0.923831134 1.049344744 1 9.72043023 -5.064735557 5.350809686 0.968934601 0.814765997 0.337933538 0.100920135 0.186670956 10.54402683 0.013777004 0.036830658 8.62E-06 5.064735557 -0.154168604 QEPCAQHNGSEPAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 QEPCAQHNGSEPASPK 16 0 Q8N6T7-2;Q8N6T7;M0QZ09 Q8N6T7-2 SIRT6 NAD-dependent protein deacetylase sirtuin-6 1 0 QEPCAQHNGS(0.004)EPAS(0.996)PK 107.78 0.0017564 1794200 550.36 793.24 378.09 370.49 554.62 899.56 587.05 615.47 775.22 725.26 TRUE FALSE FALSE 608.2493899 818.9414965 429.6141362 377.6613697 512.1251354 822.9124272 520.993589 599.7271686 769.8251809 756.5295079 0.803999558 1.082497758 0.567874923 0.499202431 0.676940067 1.087746636 0.688662615 0.792734668 1.01757456 1 9.563252545 -8.601438009 0.499954427 1.01159488 0.75263997 0.224322994 0.179890706 1.424786613 0.693485126 0.169695535 0.056748307 2.50E-09 8.601438009 -0.25895491 QEPCAQHNGSEPAS(ph)PKR ddPTM_HeLa_SAHA_4h_R1 2 QEPCAQHNGSEPASPKR 17 1 Q8N6T7-2;Q8N6T7;M0QZ09 Q8N6T7-2 SIRT6 NAD-dependent protein deacetylase sirtuin-6 1 0 QEPCAQHNGS(0.001)EPAS(0.999)PKR;QEPCAQHNGSEPAS(1)PKR ; 177.24 2.24E-09 8262030 572.17 329.5 311.96 718.13 878.35 920.49 737.79 540 761.81 585.05 TRUE FALSE FALSE 632.3534658 340.1760162 354.4722842 732.0304446 811.0510128 842.0590735 654.7719274 526.1875819 756.5085022 610.2743687 1.036178968 0.557414884 0.580840852 1.199510388 1.328994063 1.379804096 1.072914022 0.862214782 1.23962031 1 9.253314189 QEPES(ph)EEEEEEKQEK ddPTM_HeLa_SAHA_4h_R1 4 QEPESEEEEEEKQEK 15 1 P49756 P49756 RBM25 RNA-binding protein 25 1 0 QEPES(1)EEEEEEKQEK;QEPES(1)EEEEEEKQEK;QEPES(1)EEEEEEKQEK;QEPES(1)EEEEEEKQEK ;;; 149.24 4.11E-05 221298000 10301.5 12497.3 8996.13 10983 12324.5 16167.2 11381.2 12160.3 17269 13255.5 TRUE FALSE FALSE 11385.05903 12902.22072 10222.07575 11195.59185 11380.19947 14789.66361 10100.55742 11849.25713 17148.82362 13827.00948 0.823392727 0.933117226 0.739283195 0.809690039 0.823041272 1.069621282 0.73049472 0.856964563 1.240240968 1 13.75520154 -9.313589318 0.817754544 1.009934678 0.846522311 0.373891142 0.120503608 0.76130332 0.821894722 0.082197919 0.01728032 4.86E-10 9.313589318 -0.163412367 QEPES(ph)EEEEEEKQEKEEK ddPTM_HeLa_SAHA_4h_R1 1 QEPESEEEEEEKQEKEEK 18 2 P49756 P49756 RBM25 RNA-binding protein 25 1 0 QEPES(1)EEEEEEKQEKEEK 48.711 0.018627 10688000 1869.4 1780.5 1609.3 1845.8 2218.6 2023.1 2190.6 1815.2 1845.4 2026.4 TRUE FALSE FALSE 2066.032069 1838.189368 1828.607023 1881.528128 2048.611347 1850.720498 1944.107923 1768.769812 1832.557711 2113.768021 0.977416655 0.869626823 0.865093523 0.890129905 0.969175107 0.87555516 0.919735706 0.836785208 0.866962549 1 11.04560134 -7.342066271 5.128581494 0.990045564 0.89231853 0.069124218 0.051592857 0.099776764 4.585706343 0.005786437 0.006603895 4.55E-08 7.342066271 -0.097727034 QEPGGSHGS(ph)ETEDTGR ddPTM_HeLa_SAHA_4h_R1 2 QEPGGSHGSETEDTGR 16 0 Q9UKJ3-2;Q9UKJ3 Q9UKJ3-2 GPATCH8 G patch domain-containing protein 8 1 0 QEPGGS(0.002)HGS(0.975)ET(0.017)EDT(0.005)GR;QEPGGS(0.001)HGS(0.997)ET(0.001)EDTGR ; 158.58 5.01E-06 10886700 1176.21 1314.9 1033.44 1488.04 1346.53 1672.16 1293.32 1339.02 1738.39 1057.99 TRUE FALSE FALSE 1299.929164 1357.503623 1174.271821 1516.843166 1243.359162 1529.682561 1147.79223 1304.769807 1726.292402 1103.605127 1.177893372 1.23006281 1.06403259 1.374443748 1.126634094 1.386077795 1.040038871 1.182279582 1.564230141 1 10.10800835 -8.96389132 0.565047421 0.980279746 1.205126081 0 0.206668492 0.909937658 0.484763691 0.104152482 0.025002552 1.09E-09 8.96389132 0.224846335 QEPIES(ph)DEEEAEPPREVEPGQR ddPTM_HeLa_SAHA_4h_R1 2 QEPIESDEEEAEPPREVEPGQR 22 1 P56524-2;P56524 P56524-2 HDAC4 Histone deacetylase 4 1 0 QEPIES(1)DEEEAEPPREVEPGQR;QEPIES(1)DEEEAEPPREVEPGQR ; 110.27 5.26E-05 46968000 1411.51 1249.32 1118.14 1258.6 1362.7 1694.29 1660.35 1588.67 1594.62 1523.93 TRUE FALSE FALSE 1559.979098 1289.798788 1270.514296 1282.962023 1258.29022 1549.92696 1473.523048 1548.034122 1583.52291 1589.63408 0.981344775 0.811380936 0.799249533 0.807080094 0.791559665 0.97502122 0.926957384 0.973830482 0.996155612 1 10.63447899 -7.3432417 7.017965221 0.991598628 0.867626773 0.421412083 0.066169739 0.19637102 14.56228503 0.012277369 0.014008636 4.54E-08 7.3432417 -0.123971855 QEPLEEDS(ph)PSSSSAGLDK ddPTM_HeLa_SAHA_4h_R1 3 QEPLEEDSPSSSSAGLDK 18 0 P15408;P15408-3;P15408-2;C9JCN8 P15408 FOSL2 Fos-related antigen 2 1 0 QEPLEEDS(0.974)PS(0.025)SSSAGLDK;QEPLEEDS(0.994)PS(0.006)SSSAGLDK;QEPLEEDS(0.931)PS(0.067)S(0.002)SSAGLDK ;; 296.78 1.39E-87 77111000 5707.9 6182.7 5274.6 5647.1 6074.5 6681 6450.6 6008.9 6840.3 5801.6 TRUE FALSE FALSE 6308.283111 6383.023537 5993.395019 5756.407786 5609.073122 6111.741214 5724.761511 5855.201039 6792.697795 6051.735368 1.042392426 1.054742673 0.990359732 0.951199521 0.926853668 1.009915477 0.945970232 0.967524302 1.122438009 1 12.56313319 -6.524271126 5.590101095 1.023258925 0.961137044 0.505145653 0.039587279 0.095095997 10.32821402 0.004203754 0.006161573 2.99E-07 6.524271126 -0.062121881 QEPLEEDSPSSSSAGLDK(ac)AQR ddPTM_HeLa_SAHA_4h_R1 1 QEPLEEDSPSSSSAGLDKAQR 21 1 P15408;P15408-3;P15408-2 P15408 FOSL2 Fos-related antigen 2 0 1 QEPLEEDSPSSSSAGLDK(1)AQR 255.23 1.23E-74 2130800 0 0 179.16 213.65 137.37 530.44 383.44 360.59 0 0 FALSE TRUE FALSE 0 0 203.5749918 217.7855047 126.8447403 485.2435278 340.294322 351.3666299 0 0 0 QEPLGS(ph)DSEGVNCLAYDEAIMAQQDR ddPTM_HeLa_SAHA_4h_R1 1 QEPLGSDSEGVNCLAYDEAIMAQQDR 26 0 J3KR44;F5H6Q1;F5GYJ8;Q96FW1;F5H3F0 J3KR44 OTUB1 Ubiquitin thioesterase OTUB1 1 0 QEPLGS(0.797)DS(0.203)EGVNCLAYDEAIMAQQDR 70.616 0.00055114 4269200 301.13 270.07 222.09 234.78 403.48 308.13 166.67 253.23 335.15 352.06 TRUE FALSE FALSE 332.804235 278.8204452 252.3552686 239.3245064 372.5654496 281.8755905 147.9158529 246.7527433 332.8176639 367.2390295 0.906233293 0.759234239 0.687168978 0.651685924 1.01450396 0.767553467 0.402778139 0.671913178 0.90626986 1 8.520575584 -3.601409295 0.146494236 1.100545808 1.71E-14 0.377022982 0.140043012 20.28528974 0.406556367 0.433397873 4.362710094 0.000250375 3.601409295 -1.100545808 QEPLGSDS(ph)EGVNCLAYDEAIMAQQDR ddPTM_HeLa_SAHA_4h_R1 4 QEPLGSDSEGVNCLAYDEAIMAQQDR 26 0 J3KR44;F5H6Q1;F5GYJ8;Q96FW1;F5H3F0 J3KR44 OTUB1 Ubiquitin thioesterase OTUB1 1 0 QEPLGS(0.254)DS(0.746)EGVNCLAYDEAIMAQQDR;QEPLGS(0.42)DS(0.575)EGVNCLAY(0.005)DEAIMAQQDR;QEPLGS(0.102)DS(0.898)EGVNCLAYDEAIMAQQDR;QEPLGS(0.123)DS(0.877)EGVNCLAYDEAIMAQQDR ;;; 179.61 6.02E-14 20994400 2649.58 2817.5 2861.26 3026.6 3168.89 3124.08 2688.02 2664.86 3150.91 2680.92 TRUE FALSE FALSE 2928.274981 2908.788849 3251.177612 3085.18422 2926.090333 2857.890808 2385.556915 2596.69674 3128.982561 2796.507581 1.047118556 1.040150532 1.162584945 1.103227554 1.04633735 1.021949959 0.853048614 0.928549866 1.118889354 1 11.44941053 -4.834303171 5.948944473 1.042059072 0.891418372 0.607722684 0.053887697 0.104958063 6.346233391 0.00776653 0.024229178 1.46E-05 4.834303171 -0.1506407 QEPQTS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 QEPQTSR 7 0 A0A3B3ISW0;A0A3B3IRF8 A0A3B3ISW0 1 0 QEPQT(0.155)S(0.845)R;QEPQT(0.186)S(0.814)R ; 89.08 0.016285 3070660 1623.3 3201.6 2349.68 1625.11 3053.01 2423.63 2825.32 2193.41 1818.01 2427.49 TRUE FALSE FALSE 1794.046142 3305.333941 2669.882154 1656.566354 2819.089033 2217.123089 2507.407558 2137.305748 1805.35832 2532.150974 0.708506784 1.305346314 1.054392957 0.654213106 1.113317911 0.875588822 0.990228301 0.844067265 0.712974202 1 11.30614771 QEQALLEEIER ddPTM_HeLa_SAHA_4h_R1 2 QEQALLEEIER 11 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 149.23 0.0033222 3742300 1032.39 1110.99 753.96 962.5 1020.26 1309.2 1100.04 1160.79 1519.61 847.56 FALSE FALSE TRUE 1140.981517 1146.986805 856.7057423 981.1305793 942.0878992 1197.648795 976.2606041 1131.098673 1509.03491 884.1024595 1.290553493 1.297346018 0.96901183 1.109747596 1.065586787 1.354649319 1.104239213 1.2793751 1.706855234 1 9.788069764 -9.544807871 1.33255728 1.000765551 1.191144733 0 0.249209001 0.483132671 1.546601719 0.081790195 0.019750802 2.85E-10 9.544807871 0.190379182 QEQINTEPLEDTVLS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 3 QEQINTEPLEDTVLSPTK 18 0 O15446;O15446-2 O15446 CD3EAP DNA-directed RNA polymerase I subunit RPA34 1 0 QEQINTEPLEDT(0.01)VLS(0.986)PT(0.004)K;QEQINTEPLEDTVLS(0.991)PT(0.009)K;QEQINTEPLEDT(0.04)VLS(0.861)PT(0.1)K ;; 303.34 3.45E-88 63426800 16868.2 16679.7 14699.8 14972.1 16516.7 16191.8 17306.9 16017.7 17472.6 15459.9 TRUE FALSE FALSE 18642.47467 17220.13322 16703.01219 15261.90665 15251.19401 14812.16755 15359.48206 15607.99043 17351.00675 16126.45195 1.156018368 1.067819089 1.035752455 0.946389615 0.945725325 0.918501329 0.952440259 0.967850242 1.075934546 1 13.97714144 -6.388243473 2.668561755 1.075044144 0.94380954 0.734992518 0.036871789 0.171698701 2.376030297 0.00936632 0.014995608 4.09E-07 6.388243473 -0.131234603 QEQINTEPLEDTVLS(ph)PTKK ddPTM_HeLa_SAHA_4h_R1 3 QEQINTEPLEDTVLSPTKK 19 1 O15446;O15446-2 O15446 CD3EAP DNA-directed RNA polymerase I subunit RPA34 1 0 QEQINTEPLEDT(0.135)VLS(0.636)PT(0.23)KK;QEQINTEPLEDT(0.071)VLS(0.858)PT(0.071)KK;QEQINTEPLEDT(0.021)VLS(0.489)PT(0.489)KK ;; 112.55 0.00036788 51623400 4189.6 4090.5 3410 3960.39 4411.8 4144.2 4393.6 3917 4704.2 3943 TRUE FALSE FALSE 4630.281351 4223.034884 3874.697041 4037.049075 4073.768837 3791.090845 3899.220565 3816.808812 4671.463089 4113.002027 1.125766854 1.026752444 0.942060572 0.981533452 0.990461179 0.921733279 0.948023011 0.927986125 1.135779428 1 12.00597607 -6.886212943 4.439035167 1.060126661 0.95369077 0.663190959 0.04215905 0.135786251 4.685239807 0.00822293 0.010926114 1.30E-07 6.886212943 -0.106435891 QEQINTEPLEDTVLSPT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 QEQINTEPLEDTVLSPTK 18 0 O15446;O15446-2 O15446 CD3EAP DNA-directed RNA polymerase I subunit RPA34 1 0 QEQINTEPLEDT(0.003)VLS(0.35)PT(0.647)K 82.831 0.006445 5702300 1736.8 1590.9 1444.7 1690.3 1558.2 1788.1 1716.3 1678.8 1776.1 1525.9 TRUE FALSE FALSE 1919.484593 1642.446204 1641.576192 1723.018201 1438.811053 1635.74382 1523.177407 1635.858727 1763.739975 1591.689017 1.205941973 1.031888885 1.031342288 1.082509324 0.903952366 1.027678022 0.956956661 1.027750214 1.108093325 1 10.63634278 -6.313761512 1.422257245 1.094444298 0.985504201 0.310666769 0.06504246 0.451719854 1.795213943 0.014484556 0.026532817 4.86E-07 6.313761512 -0.108940097 QEQLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 QEQLSPK 7 0 Q9Y6Q9-2;Q9Y6Q9-3;Q9Y6Q9-5;Q9Y6Q9;Q9Y6Q9-4 Q9Y6Q9-2 NCOA3 Nuclear receptor coactivator 3 1 0 QEQLS(1)PK 94.409 0.017234 27365000 4191.3 4520.5 3004.4 4785 5094.9 5892.8 5248.2 4629.9 5541.9 5586.5 TRUE FALSE FALSE 4632.160164 4666.967166 3413.823986 4877.620594 4704.529863 5390.700288 4657.658723 4511.473862 5503.333467 5827.361355 0.794898391 0.800871421 0.58582672 0.837020445 0.807317339 0.925067103 0.799274052 0.774188108 0.944395436 1 12.50862706 -9.014993363 0.811213977 1.000323155 0.791391807 0.439653152 0.081056337 0.437426556 0.52523396 0.054525848 0.016703583 9.66E-10 9.014993363 -0.208931348 QERLS(ph)PEVAPPAHR ddPTM_HeLa_SAHA_4h_R1 4 QERLSPEVAPPAHR 14 1 Q8TAD8 Q8TAD8 SNIP1 Smad nuclear-interacting protein 1 1 0 QERLS(1)PEVAPPAHR;QERLS(1)PEVAPPAHR;QERLS(1)PEVAPPAHR;QERLS(1)PEVAPPAHR ;;; 92.096 0.0047522 158737900 4437.76 3968.23 4234.81 4772.35 5214.8 5996.6 5711.5 5956.7 4900.1 4957.88 TRUE FALSE FALSE 4904.543958 4096.803256 4811.907853 4864.725735 4815.243151 5485.655944 5068.826988 5804.336239 4865.999805 5171.63847 0.948353986 0.792167372 0.930441654 0.940654642 0.931086575 1.060719147 0.980120134 1.122339907 0.940900999 1 12.33640571 -3.614452836 0.881473312 0.954210558 1.462073861 0.437878306 0.062295264 5.251503158 1.357473804 0.010635722 3.386310329 0.000242967 3.614452836 0.507863302 QES(ph)DPEDDDVKKPALQSSVVATSK ddPTM_HeLa_SAHA_4h_R1 5 QESDPEDDDVKKPALQSSVVATSK 24 2 Q9H307 Q9H307 PNN Pinin 1 0 QES(0.941)DPEDDDVKKPALQS(0.029)S(0.029)VVAT(0.001)S(0.001)K;QES(0.989)DPEDDDVKKPALQS(0.008)S(0.003)VVATSK;QES(0.995)DPEDDDVKKPALQS(0.004)S(0.001)VVATSK;QES(0.845)DPEDDDVKKPALQS(0.07)S(0.07)VVAT(0.011)S(0.004)K;QES(0.96)DPEDDDVKKPALQS(0.03)S(0.01)VVATSK ;;;; 79.365 0.00022642 105570000 12350.12 13751.23 10875.4 12539.14 14265.38 15088.34 13076.89 13396.28 14575.26 14058.34 TRUE FALSE FALSE 13649.16229 14196.77887 12357.44288 12781.85319 13172.36967 13802.72855 11605.44392 13053.62256 14473.82958 14664.46384 0.930764496 0.968107599 0.842679488 0.871620901 0.898251025 0.941236495 0.79139913 0.890153414 0.987000257 1 13.8400367 -7.750771645 0.231685406 1.034579297 0.83585192 0.531893757 0.042929691 1.285033124 0.259658207 0.102190701 0.07573426 1.78E-08 7.750771645 -0.198727377 QESCLGNS(ph)PPFEK ddPTM_HeLa_SAHA_4h_R1 1 QESCLGNSPPFEK 13 0 Q86W56-3;Q86W56-2;Q86W56 Q86W56-3 PARG Poly(ADP-ribose) glycohydrolase 1 0 QES(0.001)CLGNS(0.999)PPFEK 97.2 0.0068407 4735400 2733.1 2555.3 2533.2 3119.8 3157.3 3657 3216.1 2716.7 3152.8 3035.6 TRUE FALSE FALSE 3020.579998 2638.093397 2878.411304 3180.18824 2915.388356 3345.403026 2854.215964 2647.210748 3130.859408 3166.479572 0.953923728 0.833131349 0.909025698 1.004329309 0.920703352 1.056505482 0.901384613 0.836010682 0.988750863 1 11.62866406 -8.170763087 1.37567585 0.989572265 0.929777574 0.146621691 0.064624334 0.555368491 2.144861412 0.016506417 0.012997697 6.75E-09 8.170763087 -0.059794691 QESDKNGESAS(ph)PERDR ddPTM_HeLa_SAHA_4h_R1 1 QESDKNGESASPERDR 16 2 Q14676;Q14676-3 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 1 0 QES(0.001)DKNGES(0.135)AS(0.864)PERDR 67.846 0.019078 8646500 3032.2 2698.4 1949.7 2372.3 2772.6 3062.2 2681 2743.8 3828.1 2847.7 TRUE FALSE FALSE 3351.140708 2785.82993 2215.394962 2418.219297 2560.163987 2801.283333 2379.326824 2673.617569 3801.45994 2970.478283 1.12814853 0.937838848 0.745804127 0.814084153 0.861869283 0.943041176 0.800991153 0.900062991 1.279746754 1 11.53647953 -7.027240648 5.724688746 1.059679862 0.845527693 0.649123427 0.09080874 0.077186768 7.84532085 0.011296734 0.014192912 9.39E-08 7.027240648 -0.214152169 QESDPEDDDVKKPALQS(ph)SVVATSK ddPTM_HeLa_SAHA_4h_R1 1 QESDPEDDDVKKPALQSSVVATSK 24 2 Q9H307 Q9H307 PNN Pinin 1 0 QES(0.122)DPEDDDVKKPALQS(0.407)S(0.407)VVAT(0.031)S(0.031)K 42.746 0.018587 19514000 947.3 1013.9 949.39 1243.8 1055.1 1446.1 1158.2 1117.5 1115.2 986.63 TRUE FALSE FALSE 1046.94136 1046.751025 1078.767925 1267.875548 974.2584659 1322.884144 1027.876288 1088.915968 1107.439232 1029.168448 1.017269197 1.017084256 1.048193741 1.23194172 0.946646264 1.285391276 0.998744462 1.05805417 1.076052453 1 10.00726342 -6.515644943 22.67327165 1.010175598 1.103662547 0.117693251 0.095793669 115.9062844 363290.8557 0.013078584 0.018966189 3.05E-07 6.515644943 0.09348695 QESRPGEWLVR ddPTM_HeLa_SAHA_4h_R1 1 QESRPGEWLVR 11 1 E9PI87;Q9BUP3;Q9BUP3-3 E9PI87 HTATIP2 Oxidoreductase HTATIP2 0 0 96.171 0.016456 3572000 1345.9 1266.9 1592.3 2038.8 1550.7 1418.4 1604.4 1723.7 1692.4 1482.2 FALSE FALSE TRUE 1487.467937 1307.948391 1809.290352 2078.263922 1431.885701 1297.54434 1423.868689 1679.61025 1680.622451 1546.104896 0.962074398 0.845963553 1.170224838 1.344193352 0.92612455 0.839234352 0.920939254 1.08634948 1.087004158 1 10.59442249 -4.217933018 20.50983034 0.993052007 1.086352565 0.010703191 0.148155248 7525.194125 3546730.795 0.020388146 6.752942703 6.05E-05 4.217933018 0.093300559 QESTEYRR ddPTM_HeLa_SAHA_4h_R1 1 QESTEYRR 8 1 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 112.11 0.0025755 0 143.22 0 233.47 252.04 53.635 247.37 302.98 378.46 236.61 239.37 FALSE FALSE TRUE 158.2845367 0 265.2860757 256.9185987 49.52549789 226.2926843 268.887893 368.7795412 234.9634117 249.6904121 0.633923167 0 1.062460002 1.028948595 0.198347616 0.906293047 1.076885134 1.476947144 0.941018959 1 7.963996614 -4.484616889 2.100820095 0.753797082 1.513375829 0.328163753 0.342536478 0.437913174 2.930076151 0.049670796 0.524493612 3.28E-05 4.484616889 0.759578748 QETVADFT(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 QETVADFTPK 10 0 O75400-2;O75400-3;O75400;F5H578 O75400-2 PRPF40A Pre-mRNA-processing factor 40 homolog A 1 0 QET(0.085)VADFT(0.915)PK;QET(0.011)VADFT(0.989)PK ; 126.32 0.0037952 50273000 6692.8 10778.3 6016.2 7695.7 9122.1 10314.2 8148 6113.6 16393.6 9038 TRUE FALSE FALSE 7396.779412 11127.52399 6836.056405 7844.661402 8423.166669 9435.372134 7231.165596 5957.222964 16279.5156 9427.672411 0.784581717 1.180304481 0.725105424 0.832088883 0.893451353 1.000816715 0.767014941 0.631886929 1.72677994 1 13.20268591 -12.78337319 0.021817498 2.032221138 2.97E-06 0.123757454 0.279424295 3095.526097 6.190036196 377.1559757 219.2403308 1.65E-13 12.78337319 -2.032218167 QEVVACMRRDT(ph)T(ph)LETALNS(ph)KAY(ph)K ddPTM_HeLa_SAHA_4h_R1 1 QEVVACMRRDTTLETALNSKAYK 23 3 A0A0U1RQZ9;F6VDE0;P51531-2;P51531 A0A0U1RQZ9 SMARCA2 Probable global transcription activator SNF2L2 4 0 QEVVACMRRDT(0.995)T(0.876)LET(0.37)ALNS(0.895)KAY(0.864)K 47.808 0.0092265 4239600 404.4 502.41 541.58 483.26 540.63 413.78 451.2 534.49 480.71 532.09 TRUE FALSE FALSE 446.9366475 518.6884136 615.383702 492.6141961 499.2070462 378.5236161 400.4297885 520.8185197 477.3647 555.0310039 0.805246273 0.934521513 1.108737526 0.887543565 0.899421911 0.681986436 0.721454812 0.938359328 0.860068531 1 9.116424552 -5.414832211 6.619149908 0.922407107 0.77513698 0.31839731 0.098976532 0.254424959 13.60856799 0.015851533 0.035647265 3.85E-06 5.414832211 -0.147270127 QEYDESGPS(ph)IVHR ddPTM_HeLa_SAHA_4h_R1 2 QEYDESGPSIVHR 13 0 P60709;Q6S8J3;A5A3E0;P0CG38;A0A2R8YFE2;P0CG39;Q9BYX7;P63261 P60709;P63261 ACTB;POTEE;POTEF;POTEI;POTEJ;POTEKP;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;POTE ankyrin domain family member E;POTE ankyrin domain family member F;POTE ankyrin domain family member I;POTE ankyrin domain family member J;Putative beta-actin-like protein 3;Putative beta-actin-like protein 3, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 QEYDESGPS(1)IVHR;QEYDESGPS(1)IVHR ; 200.71 6.37E-11 30275000 4018.3 4609 3559.94 3882.58 4310.8 4974.6 4392.8 4077.7 5176.8 4267.23 TRUE FALSE FALSE 4440.963231 4758.334624 4045.070084 3957.73295 3980.507435 4550.736094 3898.510583 3973.398338 5140.774227 4451.211169 0.997697719 1.068997728 0.908757174 0.889136192 0.894252662 1.022359066 0.875831416 0.892655547 1.154915827 1 12.11998223 -6.73403556 24.98798261 1.004138807 0.915025214 0.474039516 0.064573335 132.6736239 120977.2569 0.00668767 0.009456594 1.84E-07 6.73403556 -0.089113593 QEYDESGPS(ph)IVHRK ddPTM_HeLa_SAHA_4h_R1 1 QEYDESGPSIVHRK 14 1 P60709;Q6S8J3;A5A3E0;P0CG38;A0A2R8YFE2;P0CG39;Q9BYX7;P63261 P60709;P63261 ACTB;POTEE;POTEF;POTEI;POTEJ;POTEKP;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;POTE ankyrin domain family member E;POTE ankyrin domain family member F;POTE ankyrin domain family member I;POTE ankyrin domain family member J;Putative beta-actin-like protein 3;Putative beta-actin-like protein 3, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 QEYDES(0.003)GPS(0.997)IVHRK 82.877 0.0077497 12591000 915.8 959.49 832.67 822.92 1072 1378.5 1352.3 1278.8 1097.9 1070.1 TRUE FALSE FALSE 1012.128046 990.5781055 946.1419312 838.8488066 989.8635916 1261.044045 1200.135645 1246.090148 1090.259625 1116.237248 0.906732012 0.887426134 0.847617236 0.751496878 0.886786025 1.129727616 1.075161797 1.116330914 0.976727507 1 10.12442798 -5.259709169 24.968967 0.921686447 1.103882286 0.652838817 0.069192871 98.45719074 1420835.876 0.012094955 0.02912937 5.50E-06 5.259709169 0.182195839 QEYDESGPSIVHR ddPTM_HeLa_SAHA_4h_R1 5 QEYDESGPSIVHR 13 0 P60709;Q6S8J3;A5A3E0;P0CG38;A0A2R8YFE2;P0CG39;Q9BYX7;P63261 P60709;P63261 ACTB;POTEE;POTEF;POTEI;POTEJ;POTEKP;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;POTE ankyrin domain family member E;POTE ankyrin domain family member F;POTE ankyrin domain family member I;POTE ankyrin domain family member J;Putative beta-actin-like protein 3;Putative beta-actin-like protein 3, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;;;; ;;;; 211.82 6.87E-16 399336900 10804.7 17102.9 8789.33 11998.6 19709.9 25664.5 17635.7 17396.7 18095 14693.8 FALSE FALSE TRUE 11941.18792 17657.04518 9987.09412 12230.85025 18199.73172 23477.74022 15651.28462 16951.7176 17969.07542 15327.32163 0.779078577 1.151998086 0.651587692 0.797977008 1.187404568 1.531757523 1.021136308 1.10598042 1.172355866 1 13.90381799 -5.708093958 7.287476237 0.888264716 1.223233096 0.325416802 0.197366104 0.1610374 18.06695039 0.026085514 0.052151263 1.96E-06 5.708093958 0.33496838 QEYDESGPSIVHRK ddPTM_HeLa_SAHA_4h_R1 3 QEYDESGPSIVHRK 14 1 P60709;Q6S8J3;A5A3E0;P0CG38;A0A2R8YFE2;P0CG39;Q9BYX7;P63261 P60709;P63261 ACTB;POTEE;POTEF;POTEI;POTEJ;POTEKP;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;POTE ankyrin domain family member E;POTE ankyrin domain family member F;POTE ankyrin domain family member I;POTE ankyrin domain family member J;Putative beta-actin-like protein 3;Putative beta-actin-like protein 3, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;; ;; 86.699 0.0052963 43049000 10106.3 12704.2 8550.3 8780.5 16924.8 21887.1 16569.8 19080.4 9360.6 14560.7 FALSE FALSE TRUE 11169.327 13115.82442 9715.490356 8950.459274 15628.02548 20022.19595 14705.32249 18592.351 9295.458822 15188.48304 0.73538134 0.863537483 0.639661666 0.589292509 1.028939193 1.318248564 0.968189019 1.224108488 0.612007058 1 13.89069017 -5.530799251 24.73487857 0.832715378 1.153917937 0.573907898 0.158136382 109.1879404 340981.5972 0.023898256 0.047868329 2.95E-06 5.530799251 0.321202559 QFAIVFK ddPTM_HeLa_SAHA_4h_R1 1 QFAIVFK 7 0 D6RF93;A0A494C1E9;P19838-3;P19838;P19838-2 D6RF93 NFKB1 Nuclear factor NF-kappa-B p105 subunit;Nuclear factor NF-kappa-B p50 subunit 0 0 108.24 0.013983 368760 432.44 476.69 459.95 583.18 674.68 308.48 669.43 279.67 291.38 315.3 FALSE FALSE TRUE 477.9260233 492.1350688 522.6295907 594.4682922 622.9861642 282.1957685 594.1039746 272.5164464 289.3522629 328.894126 1.45313031 1.496332801 1.589051154 1.807476161 1.894184526 0.858014012 1.806368456 0.828584109 0.879773276 1 8.361479432 -8.911412613 0.774171661 1.00248212 1.488904639 0.254084171 0.351793541 0.753515361 0.842312402 0.208207373 0.068692453 1.23E-09 8.911412613 0.486422519 QFASQANVVGPWIQTK ddPTM_HeLa_SAHA_4h_R1 1 QFASQANVVGPWIQTK 16 0 O43707;O43707-2;F5GXS2;O43707-3;H7C144 O43707 ACTN4 Alpha-actinin-4 0 0 159.18 1.54E-07 873920 0 328.96 272.51 223.5 325.69 272.81 436.03 350.09 309.82 265.82 FALSE FALSE TRUE 0 339.6185198 309.6462436 227.8261657 300.7357026 249.5650532 386.9667568 341.1352047 307.6639374 277.2808011 0 1.224818013 1.116724427 0.821644213 1.084588985 0.900044476 1.395577174 1.230287865 1.109575334 1 8.115203917 -7.230818415 24.88052308 0.527777714 1.101524454 0.191675336 0.328287262 571.2055798 464123.5226 0.065628301 0.080373036 5.88E-08 7.230818415 0.57374674 QFCQEGQPHVLEALS(ph)PPQT(ph)SGLSPSR ddPTM_HeLa_SAHA_4h_R1 1 QFCQEGQPHVLEALSPPQTSGLSPSR 26 0 E9PR76;E9PSH4;Q9H063 E9PR76 MAF1 Repressor of RNA polymerase III transcription MAF1 homolog 2 0 QFCQEGQPHVLEALS(0.995)PPQT(0.325)S(0.325)GLS(0.325)PS(0.028)R 54.306 0.010641 11947000 514.79 614.14 464.37 506.32 748.54 700.21 700.29 563.19 590.98 635.23 TRUE FALSE FALSE 568.9379741 634.038539 527.6519253 516.1205558 691.1870269 640.5481687 621.4915261 548.7844153 586.8673221 662.617874 0.858621532 0.956869055 0.796314054 0.778911309 1.043115578 0.966693163 0.937933537 0.828206477 0.885679884 1 9.37203331 -9.43825759 1.126865065 1.000946231 0.89557824 0 0.085884547 0.697382408 1.560856439 0.058391305 0.014065204 3.65E-10 9.43825759 -0.105367991 QFCQEGQPHVLEALSPPQT(ph)SGLSPSR ddPTM_HeLa_SAHA_4h_R1 1 QFCQEGQPHVLEALSPPQTSGLSPSR 26 0 E9PR76;E9PSH4;Q9H063 E9PR76 MAF1 Repressor of RNA polymerase III transcription MAF1 homolog 1 0 QFCQEGQPHVLEALS(0.001)PPQT(0.416)S(0.416)GLS(0.148)PS(0.018)R 162.6 1.19E-10 28343000 1629 1807.2 1823 1460.1 1718.6 1901.9 2107.6 1735.4 1731.3 1790.1 TRUE FALSE FALSE 1800.345694 1865.754466 2071.428946 1488.362347 1586.921239 1739.84742 1870.447301 1691.010981 1719.251742 1867.279972 0.964154129 0.999183033 1.109329601 0.797075088 0.849857152 0.931754984 1.001696226 0.905601199 0.920725209 1 10.86672254 -6.257035492 24.99071118 0.9927158 0.902292357 0.364915725 0.066537462 354.7094247 2012866.805 0.009875164 0.016016945 5.53E-07 6.257035492 -0.090423443 QFCQEGQPHVLEALSPPQTSGLS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 QFCQEGQPHVLEALSPPQTSGLSPSR 26 0 E9PR76;E9PSH4;Q9H063 E9PR76 MAF1 Repressor of RNA polymerase III transcription MAF1 homolog 1 0 QFCQEGQPHVLEALS(0.001)PPQT(0.295)S(0.295)GLS(0.391)PS(0.019)R 145.29 1.69E-09 20016000 1384.1 1522.2 964.89 1369.4 1296.3 1323.9 1561.7 1383.7 1325.6 1257.4 TRUE FALSE FALSE 1529.685988 1571.520279 1096.380184 1395.906717 1196.977774 1211.096272 1385.973406 1348.306958 1316.375042 1311.612668 1.166263506 1.198158814 0.835902406 1.064267487 0.912600041 0.923364269 1.056694129 1.027976468 1.00363093 1 10.35712603 -6.770379188 24.99998232 1.089680476 0.973606371 0.317686352 0.087388348 200.0777031 559511.9513 0.015305442 0.020279672 1.70E-07 6.770379188 -0.116074105 QFFDER ddPTM_HeLa_SAHA_4h_R1 1 QFFDER 6 0 E7EQL5;Q13409-2;Q13409-3;Q13409-6;Q13409;Q13409-7;Q13409-5 E7EQL5 DYNC1I2 Cytoplasmic dynein 1 intermediate chain 2 0 0 143.02 0.00030158 8084400 3609.3 3609.8 3619.6 3824.2 4207.4 4262.4 4251.4 4066.6 4083.1 3719.8 FALSE FALSE TRUE 3988.942734 3726.759888 4112.860238 3898.222921 3885.029921 3899.21954 3773.021283 3962.58226 4054.685375 3880.178782 1.028030655 0.96046087 1.059966684 1.004650337 1.001250236 1.004907186 0.97238336 1.021237031 1.044973854 1 11.92190741 -6.00627689 24.60708237 1.012845919 0.998907779 0.076777859 0.027633274 565.807836 2218122.808 0.003662146 0.006473224 9.86E-07 6.00627689 -0.01393814 QFNYTHICAGASAFGK ddPTM_HeLa_SAHA_4h_R1 1 QFNYTHICAGASAFGK 16 0 H0YL12;H0YNX6;H0YKF0;H0YLU7;P13804-2;P13804 H0YL12 ETFA "Electron transfer flavoprotein subunit alpha, mitochondrial" 0 0 85.493 0.0081252 994760 378.85 418.32 208.6 480.84 586.65 452.98 669.47 352.78 356.86 417.63 FALSE FALSE TRUE 418.6991812 431.8738425 237.0269217 490.1473535 541.7010037 414.3835556 594.1394737 343.7563984 354.3765822 435.6360731 0.961121466 0.991363822 0.544093881 1.125130318 1.243471414 0.951214973 1.363843608 0.789090756 0.813469325 1 8.766979612 QFS(ph)APNLK ddPTM_HeLa_SAHA_4h_R1 2 QFSAPNLK 8 0 O60333-3 O60333-3 KIF1B Kinesin-like protein KIF1B 1 0 QFS(1)APNLK;QFS(1)APNLK ; 93.345 0.015607 39185000 7272.3 7139.1 6194.7 7780 7806.5 7208.1 9107.7 7546.9 6678.7 6669.4 TRUE FALSE FALSE 8037.233881 7370.411524 7038.881455 7930.59315 7208.367657 6593.929328 8082.877626 7353.861226 6632.222383 6956.950473 1.15528117 1.059431363 1.011776853 1.139952509 1.036138993 0.947818926 1.161842054 1.057052405 0.953323214 1 12.76423933 QFS(ph)TLVEST(ph)AT(ph)AGKK ddPTM_HeLa_SAHA_4h_R1 1 QFSTLVESTATAGKK 15 1 Q53T94-2;Q53T94;Q53T94-3 Q53T94-2 TAF1B TATA box-binding protein-associated factor RNA polymerase I subunit B 3 0 QFS(0.996)T(0.004)LVES(0.049)T(0.954)AT(0.997)AGKK 81.526 0.010209 7590400 1308.4 1263.8 1303.6 1159.2 1674.6 1486.5 1383.4 1319.8 1244.8 1578.9 TRUE FALSE FALSE 1446.023515 1304.747949 1481.247819 1181.637992 1546.29251 1359.841837 1227.736191 1286.041427 1236.137335 1646.974106 0.877988008 0.792209146 0.899375293 0.71745997 0.938868744 0.825660727 0.745449602 0.78085103 0.750550559 1 10.68560216 -13.18105568 0.108275144 1.592789796 0.700464886 0 0.100951708 47.5649999 0.409782105 6.30548251 0.401370138 6.59E-14 13.18105568 -0.89232491 QFSMFLGK ddPTM_HeLa_SAHA_4h_R1 1 QFSMFLGK 8 0 P21266;A0A0A0MTN3 P21266 GSTM3 Glutathione S-transferase Mu 3 0 0 130.56 0.00098615 1425000 1202.4 1265.2 1866.7 2089.7 1396.6 759.57 1562 547.64 516.54 824.11 FALSE FALSE TRUE 1328.873949 1306.19331 2121.084155 2130.149165 1289.59281 694.8503628 1386.239649 533.6321618 512.9453561 859.6414152 1.545846821 1.519462984 2.467405731 2.477950838 1.500152025 0.808302567 1.612578948 0.620761346 0.596696887 1 9.747591179 -2.950826831 14.44874644 1.409858425 1.105959592 0 0.644417685 0 0 0.08370873 0 0.001119884 2.950826831 -0.303898833 QFSSCS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 QFSSCSPR 8 0 Q6P0Q8-2;Q6P0Q8;A0A669KBJ4;E7ERL6;V9GXZ1;Q9Y2H9 Q6P0Q8-2 MAST2;MAST1 Microtubule-associated serine/threonine-protein kinase 2;Microtubule-associated serine/threonine-protein kinase 1 1 0 QFSSCS(1)PR 101.38 0.010112 5301700 3272.9 2965.8 2924.5 3100.9 3362.8 3218.2 3281.6 2996.7 2578.8 2856.7 TRUE FALSE FALSE 3617.158639 3061.893866 3323.03563 3160.922403 3105.14299 2943.991255 2912.345731 2920.048753 2560.853921 2979.866317 1.213866078 1.027527258 1.115162654 1.060759802 1.042041038 0.987960848 0.977341069 0.979926091 0.859385505 1 11.54103189 -5.55926478 1.324044796 1.09815057 0.975069529 0 0.092573535 0.452306874 1.538426619 0.012670242 0.039193353 2.76E-06 5.55926478 -0.123081041 QFVPIKVEQIEAGTPGR ddPTM_HeLa_SAHA_4h_R1 2 QFVPIKVEQIEAGTPGR 17 1 Q16881;A0A087WSY9;A0A087WSW9;E9PIR7;A0A182DWI3;Q16881-5;F8W809;Q16881-2;Q16881-4;Q16881-3;Q16881-6;E2QRB9;Q16881-7 Q16881 TXNRD1 "Thioredoxin reductase 1, cytoplasmic" 0 0 ; ; 160.8 1.13E-08 3428100 1401.53 1374.61 1383.75 1708.19 1547.01 1564.66 1678.67 1201.99 1279.49 1615.41 FALSE FALSE TRUE 1548.949356 1419.148266 1572.320244 1741.254488 1428.478428 1431.342165 1489.781634 1171.244836 1270.585925 1685.058231 0.919226011 0.842195385 0.933095495 1.033349742 0.847732382 0.849431871 0.884112849 0.695076772 0.754030871 1 10.71858273 -2.535563674 0.374163909 0.963311937 4.12E-40 0.167153962 0.089223643 10.83211994 0.383023864 0.017211863 6.217752205 0.002913643 2.535563674 -0.963311937 QFYINVER ddPTM_HeLa_SAHA_4h_R1 1 QFYINVER 8 0 P60842;P60842-2;J3KT12;J3QS69;J3QL43;J3KTB5;Q14240-2;Q14240;E7EQG2;J3KSZ0;J3KTN0 P60842 EIF4A1;EIF4A2 "Eukaryotic initiation factor 4A-I;Eukaryotic initiation factor 4A-II;Eukaryotic initiation factor 4A-II, N-terminally processed" 0 0 104.44 0.012039 3920900 1152 1768.5 1721.5 1493.3 1351.9 1846.7 1941.9 944.1 2161.1 1684.7 FALSE FALSE TRUE 1273.172646 1825.80056 1956.097055 1522.204981 1248.317714 1689.350771 1723.392301 919.951289 2146.060729 1757.335662 0.724490303 1.038959489 1.11310383 0.866200473 0.710346772 0.961313657 0.98068476 0.523492073 1.221201377 1 10.77917407 -4.253218087 24.55094548 0.89570961 0.523491835 0.341537053 0.161453725 688.2359605 2055192.987 0.020090859 0.299687896 5.58E-05 4.253218087 -0.372217776 QGANINEIR ddPTM_HeLa_SAHA_4h_R1 1 QGANINEIR 9 0 Q15365 Q15365 PCBP1 Poly(rC)-binding protein 1 0 0 141.52 0.0055996 4550900 880.86 1030.2 905.68 973.69 838.67 1201.4 1089.2 1178.9 1093.1 943.6 FALSE FALSE TRUE 973.5128963 1063.579156 1029.101354 992.5371779 774.4112858 1099.033961 966.6403494 1148.745445 1085.493028 984.2832139 0.989057705 1.08056212 1.045533785 1.008385761 0.78677689 1.116583058 0.982075419 1.167088323 1.102825907 1 9.942929681 -2.700532164 1.477906295 0.996847639 15.36614608 0.188024853 0.089587497 123.3841585 3.957503574 0.011193572 5800.439919 0.001992819 2.700532164 14.36929844 QGCDCECLGGGR ddPTM_HeLa_SAHA_4h_R1 1 QGCDCECLGGGR 12 0 Q9NRX4-2;Q9NRX4 Q9NRX4-2 PHPT1 14 kDa phosphohistidine phosphatase 0 0 134.75 0.0052124 909310 171.62 171.19 0 177.59 266.51 277.28 135.73 0 147.93 72.802 FALSE FALSE TRUE 189.671779 176.7366683 0 181.0275112 246.0900614 253.6541841 120.4573032 0 146.9005431 75.9408505 2.497625162 2.327293771 0 2.383796205 3.240549187 3.340154639 1.586199027 0 1.934407399 1 6.246804251 QGDDEQS(ph)DWFYEK ddPTM_HeLa_SAHA_4h_R1 1 QGDDEQSDWFYEK 13 0 Q9NW75-2;Q9NW75 Q9NW75-2 GPATCH2 G patch domain-containing protein 2 1 0 QGDDEQS(1)DWFYEK 88.561 0.0070538 0 260.74 423.92 317.63 292.79 285.79 403.29 172.13 294.79 288.87 279.59 TRUE FALSE FALSE 288.1658295 437.6552861 360.9149623 298.4573738 263.8928319 368.9274232 152.7614794 287.2496987 286.8597302 291.6444932 0.988072246 1.500646494 1.237516808 1.023360224 0.904844213 1.264990191 0.523793464 0.984930987 0.983593851 1 8.188067023 -4.764138505 24.99951886 1.057959671 0.754362258 0.303889913 0.203915065 66.10427727 612293.3047 0.028531452 0.091644892 1.72E-05 4.764138505 -0.303597413 QGDETPS(ph)TNNGSDDEKTGLK ddPTM_HeLa_SAHA_4h_R1 2 QGDETPSTNNGSDDEKTGLK 20 1 Q9Y3P9;C9JGR5;B5MCD9;Q9Y3P9-4;Q9Y3P9-3 Q9Y3P9 RABGAP1 Rab GTPase-activating protein 1 1 0 QGDET(0.029)PS(0.483)T(0.483)NNGS(0.005)DDEKTGLK;QGDET(0.026)PS(0.356)T(0.356)NNGS(0.262)DDEKT(0.001)GLK ; 84.707 0.0013273 30460000 6283.08 5553.7 5437.49 5509.7 6024.6 7067.1 5791.95 6380.4 6020.9 6011.64 TRUE FALSE FALSE 6943.963182 5733.643524 6178.48282 5616.348211 5562.99645 6464.943322 5140.224542 6217.198607 5979.000067 6270.831221 1.107343339 0.914335488 0.98527334 0.895630581 0.887122656 1.030954764 0.819703858 0.991447288 0.953462126 1 12.61444097 -7.249020052 24.5328614 1.05068991 0.930464961 0.221226786 0.069045999 408.7289875 807394.4651 0.010652 0.012994151 5.64E-08 7.249020052 -0.120224949 QGDETPSTNNGS(ph)DDEKTGLK ddPTM_HeLa_SAHA_4h_R1 1 QGDETPSTNNGSDDEKTGLK 20 1 Q9Y3P9;C9JGR5;B5MCD9;Q9Y3P9-4;Q9Y3P9-3 Q9Y3P9 RABGAP1 Rab GTPase-activating protein 1 1 0 QGDET(0.005)PS(0.077)T(0.077)NNGS(0.833)DDEKT(0.008)GLK 53.475 0.01805 35500000 1164.7 1356.2 916.42 1162.6 1552.7 1522.4 1373.6 1157.5 1711.3 1359.4 TRUE FALSE FALSE 1287.20849 1400.14177 1041.304945 1185.103804 1433.732461 1392.682955 1219.038913 1127.892826 1699.390924 1418.010387 0.907756743 0.987398811 0.734342255 0.835751145 1.011087419 0.982138755 0.85968264 0.795405193 1.19843334 1 10.46965238 -8.809770619 0.520927329 1.009995858 0.885807839 0.311979707 0.105002555 1.492999395 0.717255585 0.088981501 0.024230062 1.55E-09 8.809770619 -0.124188019 QGEEEDAEIIVK ddPTM_HeLa_SAHA_4h_R1 1 QGEEEDAEIIVK 12 0 Q9UHX1;A0A0J9YYL3;Q9UHX1-2;Q9UHX1-5;Q9UHX1-3;Q9UHX1-6;Q9UHX1-4;A0A0J9YXX5;A0A0J9YVP6;A0A0J9YXJ8 Q9UHX1 PUF60 Poly(U)-binding-splicing factor PUF60 0 0 127.56 0.0070192 2326000 504.3 545.91 600.67 612.03 784.7 757.23 531.38 499.4 692.04 724.09 FALSE FALSE TRUE 557.3445878 563.5978422 682.5261794 623.8767257 724.5764555 692.7097439 471.5877239 486.6260711 687.2240373 755.3090635 0.737902687 0.746181754 0.903638275 0.825988666 0.959311215 0.917120921 0.624363915 0.644274105 0.909858057 1 9.560923289 -9.388983232 1.061780861 1.002453246 0.796911444 0.242910703 0.109099573 0.531581267 1.051855923 0.08303668 0.020282587 4.08E-10 9.388983232 -0.205541802 QGEVPES(ph)PEAR ddPTM_HeLa_SAHA_4h_R1 1 QGEVPESPEAR 11 0 H7BYP4;U5Y3L1;Q9H930-3;Q9H930-1;Q9H930-2;Q9H930 H7BYP4 SP140L Nuclear body protein SP140-like protein 1 0 QGEVPES(1)PEAR 119.17 0.0022568 8689900 1501.3 1400.4 1365.2 1219.7 1407.8 1587.1 1546.7 1380.3 1269.5 1280 TRUE FALSE FALSE 1659.213622 1445.773879 1551.242346 1243.309057 1299.934668 1451.870151 1372.661245 1344.993925 1260.665446 1335.187064 1.242682517 1.08282496 1.161816488 0.931187165 0.97359741 1.087390816 1.028066615 1.007344934 0.944186384 1 10.38282617 -6.272924905 24.86832251 1.117841696 1.009545313 0.128122871 0.087537466 797.3730813 1726459.898 0.015021938 0.023076348 5.33E-07 6.272924905 -0.108296383 QGGLGPMNIPLVSDPK ddPTM_HeLa_SAHA_4h_R1 1 QGGLGPMNIPLVSDPK 16 0 Q06830;A0A0A0MSI0 Q06830 PRDX1 Peroxiredoxin-1 0 0 150.11 1.01E-05 624310 244.62 240.09 177.51 244.63 187.81 212.29 70.24 0 386.6 144.04 FALSE FALSE TRUE 270.350254 247.8690735 201.7001384 249.3651674 173.4200384 194.2016977 62.33641034 0 383.9096191 150.2502693 1.799332908 1.649708015 1.342427799 1.659665361 1.154207837 1.292521462 0.414883851 0 2.555134316 1 7.231223767 -4.673303621 2.138100017 1.412960954 1.13E-14 0.609294724 0.426747544 0.151619529 1.243076845 0.045965853 0.296584411 2.12E-05 4.673303621 -1.412960954 QGGLGPMNIPLVSDPKR ddPTM_HeLa_SAHA_4h_R1 2 QGGLGPMNIPLVSDPKR 17 1 Q06830;A0A0A0MSI0 Q06830 PRDX1 Peroxiredoxin-1 0 0 ; ; 169.94 1.55E-12 2197800 613.63 742.42 817.08 838.73 717.9 926.55 675.4 664.85 693.27 633.76 FALSE FALSE TRUE 678.1744188 766.4748951 928.4274072 854.964832 662.8946571 847.6027274 599.4022144 647.8440997 688.4454776 661.0844951 1.025851346 1.159420469 1.404400518 1.293276182 1.00273817 1.282139777 0.906695315 0.979971705 1.041388026 1 9.368690868 -7.288871523 5.87395975 1.011795085 1.152997868 0.13033056 0.146257054 0.259349779 29.75936697 0.025880694 0.029953866 5.14E-08 7.288871523 0.141202783 QGGSASQSQPS(ph)PCDSK ddPTM_HeLa_SAHA_4h_R1 1 QGGSASQSQPSPCDSK 16 0 O00512 O00512 BCL9 B-cell CLL/lymphoma 9 protein 1 0 QGGSASQSQPS(1)PCDSK 147.6 7.73E-05 957460 347.67 325.25 529.85 454.05 321.64 454.97 532.19 443.37 729.19 606.26 TRUE FALSE FALSE 384.2395258 335.7883134 602.0551987 462.8387943 296.9960127 416.2039964 472.3065806 432.0292374 724.1155074 632.3988356 0.607590502 0.53097554 0.952018196 0.731877999 0.469634028 0.658135298 0.746849226 0.683159445 1.145029792 1 9.304690901 -9.310297741 0.941501236 1.0081273 0.670753945 0.571493747 0.134057763 0.410560121 0.627458431 0.097243062 0.023597984 4.89E-10 9.310297741 -0.337373355 QGGSQPSSFS(ph)PGQSQVTPQDQEK ddPTM_HeLa_SAHA_4h_R1 1 QGGSQPSSFSPGQSQVTPQDQEK 23 0 Q9H0L4 Q9H0L4 CSTF2T Cleavage stimulation factor subunit 2 tau variant 1 0 QGGS(0.001)QPS(0.024)S(0.139)FS(0.836)PGQSQVTPQDQEK 100.41 8.88E-05 5030800 618.16 773.93 464.44 761.83 834.42 806.65 953.72 696.54 674.39 653.95 TRUE FALSE FALSE 683.180905 799.0058398 527.7314645 776.5763213 770.4869199 737.9188819 846.4049155 678.7235154 669.6968651 682.1449849 1.001518622 1.171313808 0.773635336 1.138432941 1.129506098 1.081762526 1.240799147 0.994984249 0.981751504 1 9.413934596 QGLAETAS(ph)PVAVSLR ddPTM_HeLa_SAHA_4h_R1 2 QGLAETASPVAVSLR 15 0 A0A5H1ZRS1;A0A4W8VX11;Q15154-5;Q15154-4;Q15154-2;Q15154 A0A5H1ZRS1 PCM1 Pericentriolar material 1 protein 1 0 QGLAET(0.028)AS(0.971)PVAVSLR;QGLAETAS(0.937)PVAVS(0.062)LR ; 194.67 2.28E-09 26126000 2067.03 2181.01 1978.03 1918.52 2349.62 2841.17 2665.5 2308.2 2887.4 2017.64 TRUE FALSE FALSE 2284.449699 2251.676155 2247.585627 1955.655729 2169.592623 2599.086332 2365.570925 2249.159586 2867.306348 2104.630334 1.085439881 1.069867766 1.067924181 0.929215785 1.030866365 1.234937219 1.123984049 1.068672037 1.362380035 1 11.03935114 -1.000003972 0.011155415 7.23E-08 2.306128446 0 0.130704289 12316.83479 10.72832941 941.0116051 1305.043209 0.099999085 1.000003972 2.306128374 QGMDLSANQDEETDQETFQLEIDRDTKK ddPTM_HeLa_SAHA_4h_R1 1 QGMDLSANQDEETDQETFQLEIDRDTKK 28 2 Q16658 Q16658 FSCN1 Fascin 0 0 65.817 0.00028224 11406000 773.39 830.45 1031.5 952.01 919.76 1153.1 1226.3 766.17 648.36 1157.4 FALSE FALSE TRUE 854.7387086 857.3571249 1172.067448 970.4375302 849.2881875 1054.849393 1088.313497 746.5724808 643.84801 1207.301178 0.707974716 0.710143534 0.970816122 0.803807325 0.703460083 0.873725142 0.901443249 0.618381307 0.533295272 1 10.23756991 -9.442675673 1.161624275 1.000591614 0.786403843 0 0.176216414 0.408788788 0.982402884 0.070469609 0.017384922 3.61E-10 9.442675673 -0.214187771 QGMS(ph)PTFSR ddPTM_HeLa_SAHA_4h_R1 2 QGMSPTFSR 9 0 A0A0C4DGA7;O94929-2;O94929-3;O94929 A0A0C4DGA7 ABLIM3 Actin-binding LIM protein 3 1 0 QGMS(0.997)PT(0.003)FSR;QGMS(0.991)PT(0.009)FSR ; 124.39 0.0029464 21027000 1888.74 1900.17 1941.3 2158.06 2115.5 2554.3 2547.7 2295 1930.46 2019.73 TRUE FALSE FALSE 2087.406339 1961.736755 2205.850254 2199.832372 1953.410847 2336.65927 2261.026091 2236.297223 1917.025772 2106.810445 0.990789819 0.931140606 1.047009359 1.044152965 0.927188705 1.109098009 1.073198634 1.061461048 0.909918487 1 11.0408448 -5.244729303 24.99296353 0.994326818 1.080447174 0.479252596 0.047075971 490.4426085 733544.5999 0.005152613 0.013095583 5.69E-06 5.244729303 0.086120357 QGPGPGGPK(ac)GGK ddPTM_HeLa_SAHA_4h_R1 2 QGPGPGGPKGGK 12 1 P23246;P23246-2 P23246 SFPQ "Splicing factor, proline- and glutamine-rich" 0 1 ; QGPGPGGPK(1)GGK;QGPGPGGPK(1)GGK 142.83 0.00012096 5154900 1617.5 1764.53 1500.72 1504.81 1679.39 2155.5 1989.47 2228.42 1445.54 1288.81 FALSE TRUE FALSE 1787.636071 1821.70193 1705.230306 1533.937774 1550.715501 1971.839273 1765.6096 2171.420243 1435.480369 1344.376906 1.329713463 1.355052977 1.268416839 1.14100277 1.153482698 1.466730992 1.313329314 1.615187105 1.067766311 1 10.39272195 -12.88416109 0.165198892 3.18E-15 1.426288594 0.503198673 0.125005652 31.92558239 0.421368242 10.664942 0.240693345 1.31E-13 12.88416109 1.426288594 QGPPS(ph)PCQQLVLTK ddPTM_HeLa_SAHA_4h_R1 2 QGPPSPCQQLVLTK 14 0 Q9C0H5;Q9C0H5-2 Q9C0H5 ARHGAP39 Rho GTPase-activating protein 39 1 0 QGPPS(1)PCQQLVLTK;QGPPS(1)PCQQLVLTK ; 146.88 0.00010359 11952400 1912.72 1996.17 1857.72 1922.98 1953.85 2261.33 2045.49 1820.74 1680.55 1737.46 TRUE FALSE FALSE 2113.908665 2060.847218 2110.880407 1960.202059 1804.146435 2068.651962 1815.326082 1774.168107 1668.854916 1812.370404 1.166377834 1.137100459 1.164706951 1.081568125 0.995462314 1.141406833 1.001630836 0.978921364 0.920813379 1 10.82366212 -4.635801224 6.663052716 1.08802216 0.984849556 0.148415083 0.078531832 0.231960902 12.37437448 0.010386233 0.039688043 2.31E-05 4.635801224 -0.103172603 QGPSPVS(ph)PNALDR ddPTM_HeLa_SAHA_4h_R1 1 QGPSPVSPNALDR 13 0 H0Y3A3;A0A3B3ITG3;Q5VWQ8-3;Q5VWQ8-4;Q5VWQ8-2;Q5VWQ8-5;Q5VWQ8 H0Y3A3 DAB2IP Disabled homolog 2-interacting protein 1 0 QGPS(0.026)PVS(0.974)PNALDR 123.63 0.00019204 0 725.37 689.03 740.67 699.08 735.44 702.31 821.89 487.31 693.28 582.2 TRUE FALSE FALSE 801.6677447 711.3550241 841.6046504 712.6117043 679.0907461 642.4692369 729.4087741 474.8453158 688.455408 607.3014912 1.320049031 1.171337522 1.385810281 1.173406808 1.11821024 1.057908216 1.201065343 0.781893874 1.13363036 1 9.246269101 -4.258219776 24.29505312 1.16651285 0.781893662 0.542830245 0.107640748 161.9044345 1221635.642 0.019052326 0.18252823 5.52E-05 4.258219776 -0.384619188 QGPVSQSATQQPVTADKQQGHEPVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 QGPVSQSATQQPVTADKQQGHEPVSPR 27 1 A0A0A0MRT2;Q9BTA9-5;Q9BTA9-2;Q9BTA9 A0A0A0MRT2 WAC WW domain-containing adapter protein with coiled-coil 1 0 QGPVSQSATQQPVTADKQQGHEPVS(1)PR;QGPVSQSATQQPVT(0.001)ADKQQGHEPVS(0.999)PR ; 171.99 6.73E-14 43117000 1396.89 1311.99 948.34 1389.32 1490.24 1528.8 1333.31 1438.56 1394.77 1377.57 TRUE FALSE FALSE 1543.821299 1354.499337 1077.574836 1416.212298 1376.058133 1398.537639 1183.28245 1401.763718 1385.063682 1436.963784 1.074363402 0.942612021 0.749897004 0.985558796 0.957615041 0.973258794 0.823460175 0.97550386 0.963882108 1 10.48880799 -7.118900476 5.684401707 1.034749691 0.910120724 0.249959334 0.075743861 0.17666254 7.617828691 0.012083137 0.014867047 7.61E-08 7.118900476 -0.124628967 QGQDVAPPPNPVPQRT(ph)SPTGPK ddPTM_HeLa_SAHA_4h_R1 1 QGQDVAPPPNPVPQRTSPTGPK 22 1 Q9UPY8-2 Q9UPY8-2 1 0 QGQDVAPPPNPVPQRT(0.464)S(0.464)PT(0.072)GPK 107.23 0.00012723 14162000 2117 2110.5 2247.4 2255.3 2324.1 2617.3 2368.8 2467.9 2034.1 2508.8 TRUE FALSE FALSE 2339.675773 2178.881585 2553.663968 2298.954593 2146.02796 2394.291315 2102.25639 2404.774691 2019.944532 2616.966646 0.894041113 0.832598149 0.975810667 0.878480663 0.820044063 0.914910902 0.803317991 0.918916829 0.771864837 1 11.35367982 -9.541163308 0.33424341 1.06414594 0.864917649 0 0.087159805 2.409971948 0.304327574 0.183384116 0.021241557 2.88E-10 9.541163308 -0.199228291 QGQDVAPPPNPVPQRTS(ph)PTGPK ddPTM_HeLa_SAHA_4h_R1 1 QGQDVAPPPNPVPQRTSPTGPK 22 1 Q9UPY8-2 Q9UPY8-2 1 0 QGQDVAPPPNPVPQRT(0.201)S(0.598)PT(0.201)GPK 79.408 0.00063129 10008000 2059.6 1902.9 2050.4 2291.4 2192.4 1877.5 2315.8 2482.6 1406.8 1810 TRUE FALSE FALSE 2276.238178 1964.555209 2329.817834 2335.75336 2024.418786 1717.526437 2055.220089 2419.098687 1397.009964 1888.037958 1.205610389 1.04052739 1.233988874 1.237132628 1.072234156 0.90968851 1.088548077 1.281276511 0.739926842 1 10.88267205 -4.259260935 22.91528974 1.099015287 1.281276719 0.116283214 0.150830229 81.82281198 860487.5672 0.015703976 0.137435165 5.50E-05 4.259260935 0.182261432 QGS(ph)FSEDVISHK ddPTM_HeLa_SAHA_4h_R1 4 QGSFSEDVISHK 12 0 H3BPE1;H3BQK9;H0Y390;A0A590UJG2;Q9UPN3-4;Q9UPN3-3;Q9UPN3-2;Q9UPN3;Q9UPN3-5;E9PNZ4 H3BPE1 MACF1 "Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5" 1 0 QGS(0.923)FS(0.077)EDVISHK;QGS(0.957)FS(0.043)EDVISHK;QGS(0.917)FS(0.083)EDVISHK;QGS(0.914)FS(0.086)EDVISHK ;;; 175.7 3.52E-05 57601000 10753.1 12075.9 9439.8 11911.8 13293.9 13496.8 14768 12710.5 13165.4 11649.3 TRUE FALSE FALSE 11884.16039 12467.16708 10726.20678 12142.37011 12275.32425 12346.79671 13106.26577 12385.38381 13073.78091 12151.55833 0.977994762 1.025972698 0.88270216 0.999243865 1.010185189 1.016066941 1.078566667 1.019242428 1.075893359 1 13.56885372 -5.282418262 1.876437548 0.984541096 1.047378136 0.136279445 0.048152904 0.319721478 2.146594825 0.005496309 0.017524712 5.22E-06 5.282418262 0.06283704 QGS(ph)FTIEKPSPNIPIELIPHINK ddPTM_HeLa_SAHA_4h_R1 1 QGSFTIEKPSPNIPIELIPHINK 23 1 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 QGS(0.477)FT(0.477)IEKPS(0.045)PNIPIELIPHINK 82.8 0.00020508 1158800 360.96 415.83 276.66 368.32 437.64 524.18 441.97 482.55 604.15 388.75 TRUE FALSE FALSE 398.9274289 429.3031648 314.361784 375.4493662 404.1081177 479.516915 392.2383724 470.2070697 599.945671 405.510915 0.98376496 1.05867228 0.775223976 0.925867473 0.996540667 1.182500636 0.96726958 1.159542326 1.479480943 1 8.663596937 -5.494496228 22.26105226 0.974867298 1.08952082 0 0.182516051 189.0220392 148252.9618 0.012300914 0.027422451 3.20E-06 5.494496228 0.114653522 QGS(ph)GRESPSLASR ddPTM_HeLa_SAHA_4h_R1 1 QGSGRESPSLASR 13 1 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6;Q8WWM7-7;H3BSK9 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 QGS(0.925)GRES(0.07)PS(0.005)LASR 112.44 0.0095337 22651000 1742.7 1446.1 1523.7 1692.8 1561.2 1380 1743 1843 1570.2 1629.4 TRUE FALSE FALSE 1926.005182 1492.954589 1731.341901 1725.566592 1441.581193 1262.416236 1546.873053 1795.858729 1559.27285 1699.651408 1.133176587 0.878388699 1.01864529 1.015247352 0.848162856 0.74275009 0.910111947 1.056604148 0.917407442 1 10.73102317 -6.43067619 1.094270677 1.056307292 0.890594979 0.031740616 0.106640701 0.438518497 1.044633007 0.019007876 0.035183257 3.71E-07 6.43067619 -0.165712313 QGS(ph)PDQVSPVSEMTSTSLYQDKQEGK ddPTM_HeLa_SAHA_4h_R1 1 QGSPDQVSPVSEMTSTSLYQDKQEGK 26 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 QGS(0.902)PDQVS(0.09)PVS(0.008)EMTSTSLYQDKQEGK 147.42 1.08E-09 41202000 822.6 628 798.36 989.8 760.31 880.19 781.74 792.63 661.16 710.13 TRUE FALSE FALSE 909.1248422 648.347612 907.1563431 1008.95901 702.0552121 805.1928602 693.7765578 772.3556723 656.5589337 740.7471796 1.227307869 0.875261668 1.224650418 1.362082824 0.947766298 1.087000913 0.936590212 1.042671094 0.886346856 1 9.532837418 QGS(ph)PGSVSK ddPTM_HeLa_SAHA_4h_R1 2 QGSPGSVSK 9 0 O00425 O00425 IGF2BP3 Insulin-like growth factor 2 mRNA-binding protein 3 1 0 QGS(0.787)PGS(0.213)VS(0.001)K;QGS(0.5)PGS(0.5)VS(0.001)K ; 108.9 0.0066156 29392000 15591.7 6949.9 18142.1 13333.9 11316.8 21589.9 22720.2 18270.8 14450.4 19880 TRUE FALSE FALSE 17231.70654 7175.08132 20614.41091 13591.99692 10449.70923 19750.31906 20163.6633 17803.45939 14349.83849 20737.12409 0.830959321 0.346001755 0.99408244 0.655442715 0.503913136 0.952413602 0.972346175 0.858530783 0.691987878 1 14.33992821 -8.347864437 1.230042874 0.968971537 0.763517228 0 0.218640594 0.54614045 1.680981044 0.056969924 0.039662669 4.49E-09 8.347864437 -0.205454309 QGS(ph)PVAAGAPAK ddPTM_HeLa_SAHA_4h_R1 6 QGSPVAAGAPAK 12 0 Q9NZI8 Q9NZI8 IGF2BP1 Insulin-like growth factor 2 mRNA-binding protein 1 1 0 QGS(1)PVAAGAPAK;QGS(1)PVAAGAPAK;QGS(1)PVAAGAPAK;QGS(1)PVAAGAPAK;QGS(1)PVAAGAPAK;QGS(1)PVAAGAPAK ;;;;; 130.27 0.0010382 1322069200 25885.6 24009.5 23116.6 24190 27040.2 25805.2 29029.9 25993.3 21934.8 21453.6 TRUE FALSE FALSE 28608.36618 24787.42355 26266.80986 24658.23243 24968.38572 23606.45178 25763.37925 25328.42902 21782.15394 22378.56969 1.278382246 1.1076411 1.173748378 1.101868116 1.115727505 1.054868658 1.151252274 1.131816259 0.9733488 1 14.44983021 QGS(ph)SLNLFEDVQITEPEAEPESK ddPTM_HeLa_SAHA_4h_R1 2 QGSSLNLFEDVQITEPEAEPESK 23 0 Q6WKZ4;E7EX40;Q6WKZ4-2;Q6WKZ4-3 Q6WKZ4 RAB11FIP1 Rab11 family-interacting protein 1 1 0 QGS(0.776)S(0.224)LNLFEDVQITEPEAEPESK;QGS(0.5)S(0.5)LNLFEDVQITEPEAEPESK ; 113.35 6.49E-07 2425400 1564.58 1574 1451.69 2216.31 2087.58 2375.59 2499.49 2665.52 1447.05 1533.41 TRUE FALSE FALSE 1729.149703 1624.998633 1649.518753 2259.209885 1927.630071 2173.176367 2218.240807 2597.339858 1436.979861 1599.522809 1.081040978 1.01592714 1.031256787 1.412427426 1.205128217 1.358640436 1.386814113 1.623821707 0.89838035 1 10.64342585 -1.726781742 0.269657819 0.996641351 4.01211569 0.820570671 0.093986389 9.126290645 0.164583631 0.04047444 12.00042928 0.01875937 1.726781742 3.015474338 QGS(ph)VVSSR ddPTM_HeLa_SAHA_4h_R1 1 QGSVVSSR 8 0 Q9BZ67-2;Q9BZ67-3;Q9BZ67 Q9BZ67-2 FRMD8 FERM domain-containing protein 8 1 0 QGS(0.885)VVS(0.113)S(0.002)R 86.463 0.021347 3874600 1308 1098.5 1260.5 2359 1945.4 2739.6 2203.3 1911.5 2126.5 2678.9 TRUE FALSE FALSE 1445.581441 1134.092121 1432.274376 2404.661856 1796.343872 2506.170667 1955.378885 1862.606598 2111.701513 2794.400489 0.517313623 0.405844518 0.512551576 0.860528713 0.642836945 0.896854505 0.699748978 0.666549625 0.755690361 1 11.44832309 -9.417353848 1.184305043 0.99712264 0.642563709 0.191029577 0.160105929 0.367714384 0.933975421 0.104254372 0.027224119 3.83E-10 9.417353848 -0.35455893 QGSAQSQQQIRGEIDS(ph)LR ddPTM_HeLa_SAHA_4h_R1 1 QGSAQSQQQIRGEIDSLR 18 1 Q2M1P5 Q2M1P5 KIF7 Kinesin-like protein KIF7 1 0 QGSAQS(0.001)QQQIRGEIDS(0.999)LR 53.059 0.023713 4912900 643.61 612.56 578.28 544.2 476.7 907.23 410.47 550.96 625.94 590.97 TRUE FALSE FALSE 711.3078528 632.4073459 657.0849868 554.7337779 440.175349 829.9289001 364.2828353 536.867241 621.5840326 616.4496088 1.153878342 1.025886523 1.06591841 0.899885035 0.714049198 1.346304529 0.590936923 0.870902071 1.008329024 1 9.267839157 -6.249566676 5.412948086 1.070075849 0.883318503 0.163185185 0.186126664 0.221834385 22.52347577 0.02692087 0.043701972 5.63E-07 6.249566676 -0.186757346 QGSIT(ph)SPQANEQSVTPQR ddPTM_HeLa_SAHA_4h_R1 2 QGSITSPQANEQSVTPQR 18 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 QGSIT(0.5)S(0.5)PQANEQSVTPQR;QGS(0.007)IT(0.471)S(0.471)PQANEQS(0.051)VTPQR ; 165.66 5.63E-06 6906100 1837.81 2469.8 1537.98 1560.06 2726.9 2908.5 2117.92 1798.34 3675.7 1909.37 TRUE FALSE FALSE 2031.119288 2549.82314 1747.567905 1590.257217 2517.965511 2660.679437 1879.606068 1752.341067 3650.120504 1991.692285 1.01979573 1.280229461 0.877428666 0.798445236 1.264234204 1.33588881 0.943723125 0.879825202 1.832672914 1 10.95977905 -5.740192471 24.99635662 1.007964335 1.110758864 0 0.311590013 537.3003709 632114.3408 0.025054482 0.050067634 1.82E-06 5.740192471 0.102794529 QGSITS(ph)PQANEQSVT(ph)PQRR ddPTM_HeLa_SAHA_4h_R1 2 QGSITSPQANEQSVTPQRR 19 1 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 QGS(0.021)IT(0.459)S(0.52)PQANEQS(0.225)VT(0.775)PQRR;QGS(0.013)IT(0.446)S(0.541)PQANEQS(0.061)VT(0.939)PQRR ; 78.484 0.0042978 86664000 2630.63 3520.7 2532 3113.99 3578.4 4175.7 3447.3 3414.1 5178.9 2915.05 TRUE FALSE FALSE 2907.331733 3634.77299 2877.047774 3174.265779 3304.223765 3819.906868 3059.400731 3326.772266 5142.859613 3040.732071 0.956128875 1.195361151 0.946169444 1.043914987 1.086654032 1.256245792 1.006139528 1.094069516 1.691322843 1 11.57020299 -6.642632714 0.739534099 0.981177347 1.107832377 0 0.241159946 0.664979802 0.733136112 0.019321614 0.035140157 2.28E-07 6.642632714 0.12665503 QGSITSPQANEQSVT(ph)PQRR ddPTM_HeLa_SAHA_4h_R1 3 QGSITSPQANEQSVTPQRR 19 1 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 QGSITSPQANEQS(0.029)VT(0.971)PQRR;QGSITSPQANEQS(0.039)VT(0.961)PQRR;QGSITSPQANEQS(0.155)VT(0.845)PQRR ;; 210.43 3.26E-19 77350500 3372.22 4226.4 2776.62 3401.16 4293.91 5217.8 4369.6 3796.89 5564.2 3671.95 TRUE FALSE FALSE 3726.925572 4363.338133 3155.003314 3466.99437 3964.911543 4773.214085 3877.921108 3699.771052 5525.478279 3830.265735 0.973020106 1.139173738 0.823703506 0.90515766 1.035153125 1.246183533 1.012441793 0.965930645 1.442583534 1 11.90322877 -5.526097175 24.99548646 0.980433089 1.080620529 0 0.177387489 124.801451 969251.2528 0.014239041 0.02859703 2.98E-06 5.526097175 0.10018744 QGSPDQVS(ph)PVS(ph)EMTSTSLYQDKQEGK ddPTM_HeLa_SAHA_4h_R1 1 QGSPDQVSPVSEMTSTSLYQDKQEGK 26 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 QGSPDQVS(0.968)PVS(0.509)EMT(0.511)S(0.008)T(0.003)S(0.001)LYQDKQEGK 122.65 4.79E-08 5411300 588.89 762.53 700.79 746.84 914.41 747.61 933.78 801.76 649.99 699.98 TRUE FALSE FALSE 650.8321521 787.2364723 796.2900116 761.2961681 844.3481033 683.9094221 828.7086168 781.2521401 645.4666667 730.1595634 0.891356061 1.07817046 1.090569858 1.042643562 1.156388474 0.936657487 1.134969202 1.069974536 0.884007687 1 9.512067964 -7.245567466 24.37485457 0.948695918 1.072667291 0.519784768 0.063838415 389.1839396 597678.8136 0.010556508 0.012904191 5.68E-08 7.245567466 0.123971372 QGSPDQVS(ph)PVSEMTSTSLYQDKQEGK ddPTM_HeLa_SAHA_4h_R1 1 QGSPDQVSPVSEMTSTSLYQDKQEGK 26 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 QGS(0.312)PDQVS(0.64)PVS(0.048)EMTSTSLYQDKQEGK 160.33 7.97E-11 46856000 1162.1 1064 1080.9 1346.6 1345.5 1020.6 1100.8 1339.8 963.34 1097 TRUE FALSE FALSE 1284.33501 1098.474298 1228.199423 1372.66539 1242.408081 933.6391383 976.9350869 1305.529856 956.6360385 1144.297039 1.122379038 0.959955554 1.073322207 1.199570867 1.085739138 0.815906279 0.853742563 1.140901193 0.836003246 1 10.16024588 -5.290433319 24.50237955 1.065219904 0.928539233 0.101778432 0.123716155 529.2657168 447274.3682 0.014585185 0.032619081 5.12E-06 5.290433319 -0.13668067 QGSPDQVSPVS(ph)EMT(ph)STSLYQDKQEGK ddPTM_HeLa_SAHA_4h_R1 1 QGSPDQVSPVSEMTSTSLYQDKQEGK 26 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 QGS(0.483)PDQVS(0.189)PVS(0.506)EMT(0.732)S(0.065)T(0.025)SLYQDKQEGK 77.543 0.00078875 0 591.18 301.85 588.08 424.8 788.83 716.49 488.68 504.64 598.05 704.2 TRUE FALSE FALSE 653.3630248 311.6301381 668.2204798 433.0226183 728.3900158 655.4410211 433.6924403 491.7320395 593.8881214 734.5615083 0.889459926 0.424239678 0.909686217 0.589498107 0.991598399 0.89228882 0.590409973 0.669422552 0.808493386 1 9.520739489 -7.495441839 14.71942609 0.951255142 0.73173615 0.173058078 0.169224902 2.679389446 1437.722523 0.027695311 0.0303023 3.20E-08 7.495441839 -0.219518992 QGSPDQVSPVS(ph)EMTSTSLYQDKQEGK ddPTM_HeLa_SAHA_4h_R1 4 QGSPDQVSPVSEMTSTSLYQDKQEGK 26 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 QGS(0.001)PDQVS(0.151)PVS(0.764)EMT(0.08)S(0.004)TSLYQDKQEGK;QGS(0.001)PDQVS(0.186)PVS(0.648)EMT(0.159)S(0.006)TSLYQDKQEGK;QGS(0.001)PDQVS(0.297)PVS(0.699)EMT(0.002)STSLYQDKQEGK;QGSPDQVS(0.028)PVS(0.972)EMTSTSLYQDKQEGK ;;; 150.95 7.35E-10 73193700 5343.75 5008.44 5225.88 5069.31 6262.77 5913.51 5993 6077.82 4313.52 5733.23 TRUE FALSE FALSE 5905.830143 5170.716742 5938.035711 5167.433825 5782.917916 5409.64568 5318.651867 5922.358165 4283.501863 5980.417603 0.987528052 0.864607973 0.992913222 0.864059029 0.966975603 0.904559855 0.889344561 0.990291742 0.716254641 1 12.54603051 -7.427022742 9.865096458 0.994512456 0.924466746 0 0.098562128 0.320498805 31.19979425 0.006678908 0.00762692 3.74E-08 7.427022742 -0.070045711 QGSPDQVSPVSEMT(ph)STSLYQDKQEGK ddPTM_HeLa_SAHA_4h_R1 1 QGSPDQVSPVSEMTSTSLYQDKQEGK 26 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 QGSPDQVS(0.094)PVS(0.094)EMT(0.623)S(0.152)T(0.037)SLYQDKQEGK 140.59 1.49E-09 8543000 895.95 658.88 771.1 833.36 734.97 722.4 763.45 749.14 411.38 680.59 TRUE FALSE FALSE 990.1901318 680.2281443 876.1814923 849.4908879 678.6567574 660.8474559 677.5445967 729.9780835 408.5171731 709.9335656 1.394764496 0.958157463 1.234173921 1.196578002 0.955944035 0.930858165 0.954377465 1.028234357 0.575430143 1 9.471540216 -5.759413735 24.94881807 1.176350433 0.963819799 0 0.222858062 51.56991313 635143.0524 0.023134299 0.04448606 1.74E-06 5.759413735 -0.212530634 QGSPS(ph)QSLVACECEASK ddPTM_HeLa_SAHA_4h_R1 1 QGSPSQSLVACECEASK 17 0 Q4AC94 Q4AC94 C2CD3 C2 domain-containing protein 3 1 0 QGS(0.375)PS(0.571)QS(0.025)LVACECEAS(0.029)K 99.092 0.0031108 5171200 386.35 532.46 413.63 479.14 558.26 763.19 421.13 603.74 465.06 573.8 TRUE FALSE FALSE 426.9880656 549.7120534 469.9973423 488.4144475 515.4862394 698.1619184 373.743344 588.297205 461.8236096 598.5393261 0.713383477 0.918422615 0.785240538 0.816010622 0.861240385 1.166442852 0.624425711 0.98288814 0.771584405 1 9.22530223 -3.935895974 21.37456314 0.863079377 3.794231046 0.063989093 0.14486305 1642.266609 582374.8221 0.020261659 14433.82806 0.000115905 3.935895974 2.931151669 QGTEIDGR ddPTM_HeLa_SAHA_4h_R1 1 QGTEIDGR 8 0 P19338;H7BY16 P19338 NCL Nucleolin 0 0 134.77 0.008659 27436000 3631.8 2860.4 2987.9 3804.8 3413.7 3635.1 3094.5 2875 3170.5 3420.6 FALSE FALSE TRUE 4013.809387 2953.078837 3395.075452 3878.447406 3152.143043 3325.369029 2746.298716 2801.461663 3148.436232 3568.078806 1.124921731 0.827638345 0.951513584 1.086984794 0.88342865 0.931977462 0.769685555 0.785145681 0.882389769 1 11.80093176 -4.600152393 0.482857033 1.04829153 0.613638198 0.229618105 0.099799345 1.98886326 0.382856378 0.020972477 0.460379677 2.51E-05 4.600152393 -0.434653332 AVGK(ac)LTPEHLIK ddPTM_HeLa_SAHA_4h_R1 2 AVGKLTPEHLIK 12 1 Q96L91-4;Q96L91-3;Q96L91-5;Q96L91-2;Q96L91;A0A0A0MR70 Q96L91-4 EP400 E1A-binding protein p400 0 1 ; AVGK(1)LTPEHLIK;AVGK(1)LTPEHLIK 99.5 0.0035165 1534500 1445.25 1687.24 1552.62 2408.5 2896.8 3423.4 3455.1 3758.9 1625.53 1422.53 FALSE TRUE FALSE 1597.268026 1741.907683 1764.202968 2455.12 2674.84781 3131.70706 3066.323055 3662.752781 1614.217804 1483.86223 1.076426095 1.173901221 1.188926392 1.654547134 1.802625443 2.110510664 2.06644727 2.468391409 1.087848839 1 10.53514144 -5.70081564 0.69713573 1.017576127 2.407001017 0.968168836 0.089377254 0.088765984 0.073461245 0.015412103 0.067432443 1.99E-06 5.70081564 1.38942489 up VVNGAAASQPPSK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 VVNGAAASQPPSKR 14 1 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 0 1 ; VVNGAAASQPPSK(1)R;VVNGAAASQPPSK(1)R 213.99 5.82E-33 3890500 185.83 454.08 235.413 722.25 1370.68 1738.11 1834.84 2006.88 267.96 214.8 FALSE TRUE FALSE 205.376452 468.7924899 267.4938577 736.2301931 1265.658795 1590.01325 1628.378974 1955.546916 266.0952445 224.0610792 0.916609224 2.092253111 1.193843476 3.285845966 5.64872221 7.096338442 7.267567308 8.727740322 1.18760137 1 7.807748255 -5.693554414 1.031688455 0.979179136 8.237321561 0.976687247 0.441268763 0.048587363 0.09860168 0.06755747 0.220416601 2.03E-06 5.693554414 7.258142425 up QHEVEIPS(ph)PTQK ddPTM_HeLa_SAHA_4h_R1 4 QHEVEIPSPTQK 12 0 Q08499-6;Q08499;A0A1B0GW84;Q08499-9;Q08499-2;Q08499-10;A0A087WSZ7;Q08499-11;D6RHE0;Q08499-3;Q08499-4;Q08499-8;Q08499-5 Q08499-6 PDE4D "cAMP-specific 3,5-cyclic phosphodiesterase 4D" 1 0 QHEVEIPS(0.767)PT(0.233)QK;QHEVEIPS(0.967)PT(0.033)QK;QHEVEIPS(0.912)PT(0.088)QK;QHEVEIPS(0.903)PT(0.097)QK ;;; 106.54 0.0016246 38297000 13190 16935.4 11905.1 13555.6 15655 7213.07 14968.1 12928 21394.2 15941 TRUE FALSE FALSE 14577.38472 17484.11807 13527.46503 13817.98824 14455.51728 6598.475856 13283.84999 12597.32048 21245.31602 16628.29452 0.876661446 1.051467909 0.813520894 0.830992512 0.869332526 0.396822166 0.798870261 0.757583435 1.277660556 1 14.02135259 -5.91370472 1.32866021 0.944987543 0.674968244 0.426077276 0.162886927 0.282391006 0.994273425 0.019812324 0.046519251 1.22E-06 5.91370472 -0.270019299 QHGEQLGGGGS(ph)GGGGYNNSK ddPTM_HeLa_SAHA_4h_R1 1 QHGEQLGGGGSGGGGYNNSK 20 0 Q5T1Z4;Q5T1Z8;Q14671-2;Q14671;Q14671-3;E9PR38;Q14671-4;H0YEH2;E9PMX1 Q5T1Z4 PUM1 Pumilio homolog 1 1 0 QHGEQLGGGGS(1)GGGGYNNSK 182.13 2.96E-30 0 0 0 151.48 0 65.788 0 128.91 0 0 186.3 TRUE FALSE FALSE 0 0 172.1229055 0 60.74733765 0 114.4047075 0 0 194.3323047 0 0 0.885714322 0 0.312595159 0 0.588706585 0 0 1 7.602381936 -9.383304891 1.051812664 1.010203678 0.220541831 0 0.419856516 0.338406654 0.656067456 0.201864845 0.049253591 4.14E-10 9.383304891 -0.789661847 QHHDEY(ph)EDEIRMMS(ph)TGSKK ddPTM_HeLa_SAHA_4h_R1 1 QHHDEYEDEIRMMSTGSKK 19 2 O75976-2;O75976 O75976-2 CPD Carboxypeptidase D 2 0 QHHDEY(0.999)EDEIRMMS(0.334)T(0.334)GS(0.334)KK 40.179 0.023093 2125300 200.37 234.09 153.52 213.19 222.79 220.8 161.08 66.347 186.72 302.6 TRUE FALSE FALSE 221.4458359 241.6746696 174.4409061 217.3166007 205.7198783 201.9865978 142.9548545 64.64993981 185.4206003 315.6465669 0.701562631 0.765649606 0.552646296 0.688480799 0.651741219 0.639913812 0.452895325 0.204817497 0.587431069 1 8.30216625 -5.883030605 0.139008907 1.186405174 1.10E-17 0.372497502 0.155240076 4.732783427 0.230218732 0.577889471 1.378340002 1.31E-06 5.883030605 -1.186405174 QIANS(ph)QDGYVWQVTDMNR ddPTM_HeLa_SAHA_4h_R1 1 QIANSQDGYVWQVTDMNR 18 0 D6RDN1;D6RE09;P10155-2;P10155-3;P10155-5;P10155-4;P10155 D6RDN1 TROVE2 60 kDa SS-A/Ro ribonucleoprotein 1 0 QIANS(0.846)QDGY(0.154)VWQVTDMNR 72.705 0.011601 6200500 365.37 519.21 553.29 341 423 575.32 607.87 494.67 345.51 519.86 TRUE FALSE FALSE 403.801293 536.0327447 628.6894798 347.6005481 390.5898314 526.2994993 539.4708678 482.0170577 343.1055678 542.2737087 0.744644792 0.988491118 1.159358216 0.641005718 0.720281705 0.970542165 0.994831317 0.888881482 0.632716583 1 9.082877415 -9.749925069 1.698803343 1.000029023 0.866715408 0 0.185983952 0.772604803 4.033728553 0.112705629 0.024305078 1.78E-10 9.749925069 -0.133313615 QIAS(ph)NSPGSSPK ddPTM_HeLa_SAHA_4h_R1 1 QIASNSPGSSPK 12 0 Q9C0D5;Q9C0D5-2 Q9C0D5 TANC1 Protein TANC1 1 0 QIAS(0.88)NS(0.119)PGSSPK 154.1 0.00027076 7926400 1897.8 1532.9 1394.1 1473.9 1577.9 1766.4 1711.3 1569.2 1643.6 1446.9 TRUE FALSE FALSE 2097.419311 1582.566966 1584.080688 1502.429466 1457.001643 1615.892783 1518.74002 1529.062136 1632.162054 1509.28294 1.389679334 1.048555525 1.049558466 0.995459119 0.965360175 1.070636088 1.006265943 1.013105029 1.081415559 1 10.55964757 -7.027072939 24.21413656 1.185862735 1.018207867 0.282342823 0.097059768 541.6135706 484420.4714 0.023935716 0.029366711 9.40E-08 7.027072939 -0.167654867 NTLPTKETIEQEK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 NTLPTKETIEQEKR 14 2 P63313 P63313 TMSB10 Thymosin beta-10 0 1 ; NTLPTKETIEQEK(1)R;NTLPTKETIEQEK(1)R 93.228 0.0096097 10646600 1521.88 2199.4 2102.9 3393.76 5191.3 4541.9 6418.4 6180.7 1886.04 1458.25 FALSE TRUE FALSE 1681.958321 2270.662003 2389.472261 3459.451132 4793.543716 4154.904568 5696.18474 6022.606644 1872.914894 1521.122294 1.105735106 1.492754404 1.570861376 2.274275478 3.1513204 2.731473061 3.744725038 3.959317845 1.23127174 1 10.57092043 -5.679741283 0.599441905 0.994144903 4.139917688 0.94807019 0.240513145 0.142729063 0.08197731 0.046620879 0.230413221 2.09E-06 5.679741283 3.145772786 up QIASNS(ph)PGSSPK ddPTM_HeLa_SAHA_4h_R1 1 QIASNSPGSSPK 12 0 Q9C0D5;Q9C0D5-2 Q9C0D5 TANC1 Protein TANC1 1 0 QIAS(0.079)NS(0.921)PGSSPK 168 9.45E-05 9276500 3317.8 3099.4 3156.3 3033.7 2948.1 3150.4 3222.8 3629.9 3162.3 3053.4 TRUE FALSE FALSE 3666.781427 3199.822594 3586.424127 3092.42165 2722.217215 2881.968196 2860.162062 3537.052414 3140.293297 3185.047017 1.151248759 1.004639045 1.12601921 0.970918682 0.854686666 0.904843219 0.89799681 1.110518116 0.985948804 1 11.63709895 -6.090526226 5.646162754 1.070584297 0.933494003 0.289494222 0.081115735 0.184610917 9.120685199 0.012693947 0.021327882 8.12E-07 6.090526226 -0.137090294 QIATLHAQVADMK ddPTM_HeLa_SAHA_4h_R1 2 QIATLHAQVADMK 13 0 P35579 P35579 MYH9 Myosin-9 0 0 ; ; 82.85 0.012193 1272200 1981.93 2696.16 1905.94 2551.89 2841 3431.42 3917.53 2684.99 2645.2 2709.41 FALSE FALSE TRUE 2190.398491 2783.517353 2165.671577 2601.285521 2623.323194 3139.043711 3476.719214 2616.311844 2626.791838 2826.225925 0.775025971 0.984888479 0.766276878 0.920409617 0.928207179 1.110683928 1.230163231 0.925726362 0.929434485 1 11.46466108 -5.333135686 3.872990857 0.891102707 1.103913016 0.425882352 0.100022649 0.169363091 4.932668276 0.015980537 0.038363596 4.64E-06 5.333135686 0.212810309 QICLVMLET(ph)LSQSPQGR ddPTM_HeLa_SAHA_4h_R1 1 QICLVMLETLSQSPQGR 17 0 Q15365 Q15365 PCBP1 Poly(rC)-binding protein 1 1 0 QICLVMLET(0.543)LS(0.128)QS(0.33)PQGR 84.94 0.012782 1459500 292.65 297.8 245.81 426.87 452.54 355.96 494.91 368.35 519.73 397.97 TRUE FALSE FALSE 323.4322697 307.4489154 279.3077067 435.1326861 417.866483 325.6302054 439.2214243 358.9281404 516.1131566 415.1284343 0.779113746 0.740611555 0.672822393 1.048188103 1.006595666 0.784408338 1.058037436 0.864619503 1.243261396 1 8.697413943 -6.166384688 18.94057206 0.863554143 0.951913291 0.027145965 0.167520204 13.82877434 2749.381374 0.020696352 0.034321254 6.82E-07 6.166384688 0.088359148 QICLVMLETLS(ph)QSPQGR ddPTM_HeLa_SAHA_4h_R1 1 QICLVMLETLSQSPQGR 17 0 Q15365 Q15365 PCBP1 Poly(rC)-binding protein 1 1 0 QICLVMLET(0.213)LS(0.646)QS(0.141)PQGR 75.018 0.023307 15461000 464.35 613.57 779.02 666.66 712.06 858.17 716.24 707.29 631.52 827.38 TRUE FALSE FALSE 513.1924635 633.4500706 885.1807886 679.5641683 657.5021166 785.0490881 635.6467902 689.1985459 627.1252009 863.0524009 0.594624918 0.733964786 1.02563968 0.787396185 0.761833367 0.909619262 0.736510077 0.798559329 0.726636297 1 9.753304346 -9.670675506 1.543683183 0.999362988 0.767378699 0 0.137503589 0.381896489 1.645493167 0.089111967 0.020181124 2.13E-10 9.670675506 -0.231984289 QICLVMLETLSQS(ph)PQGR ddPTM_HeLa_SAHA_4h_R1 4 QICLVMLETLSQSPQGR 17 0 Q15365 Q15365 PCBP1 Poly(rC)-binding protein 1 1 0 QICLVMLETLSQS(1)PQGR;QICLVMLET(0.001)LS(0.006)QS(0.993)PQGR;QICLVMLETLS(0.006)QS(0.993)PQGR;QICLVMLETLS(0.227)QS(0.773)PQGR ;;; 376.94 1.81E-206 863615300 3168.41 3479.84 3377.99 3652.26 3715.79 3784.77 4356 3029.68 4130.87 3490.09 TRUE FALSE FALSE 3501.677901 3592.589099 3838.324885 3722.954774 3431.086973 3462.286303 3865.851416 2952.185173 4102.122939 3640.56486 0.961850162 0.986821891 1.054321248 1.02263108 0.942460059 0.951029974 1.061882308 0.810914044 1.126781996 1 11.8299466 -4.246208328 24.89930279 0.988800114 0.810913908 0.479497787 0.058521106 1334.116995 2180941.705 0.005398135 0.175649895 5.67E-05 4.246208328 -0.177886206 QICVVMLETLSQS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 5 QICVVMLETLSQSPPK 16 0 Q15366-2;Q15366;Q15366-5;H3BRU6;F8VZX2;Q15366-8 Q15366-2 PCBP2 Poly(rC)-binding protein 2 1 0 QICVVMLET(0.004)LS(0.497)QS(0.498)PPK;QICVVMLETLS(0.001)QS(0.999)PPK;QICVVMLETLS(0.001)QS(0.999)PPK;QICVVMLETLS(0.007)QS(0.992)PPK;QICVVMLETLS(0.023)QS(0.977)PPK ;;;; 286.85 1.57E-72 426216400 4310.22 7200.76 5408.78 6769.98 6956.12 5316.76 7063.2 3148.43 7210.01 6745.36 TRUE FALSE FALSE 4763.588716 7434.069349 6145.860371 6901.022752 6423.143588 4863.742137 6268.430147 3067.897719 7159.834953 7036.185481 0.677012954 1.056548235 0.873464804 0.98079034 0.912872977 0.691247005 0.890884722 0.436017175 1.017573367 1 12.7805778 -3.995377085 2.078139967 0.867958484 3.07E-14 0.524315984 0.127715424 1.530673814 3.586068317 0.0203314 3.246843335 0.00010107 3.995377085 -0.867958484 QIDNPDYK ddPTM_HeLa_SAHA_4h_R1 1 QIDNPDYK 8 0 P27797;K7EJB9;K7EL50 P27797 CALR Calreticulin 0 0 117.81 0.023666 15047000 4445 4406.1 3168.8 4495.6 4791 5506.5 4421.1 4685.5 4791.4 4202.6 FALSE FALSE TRUE 4912.545494 4548.860531 3600.627562 4582.618839 4423.914615 5037.315221 3923.626192 4565.651695 4758.056257 4383.794653 1.120614874 1.037653652 0.821349503 1.045354357 1.00915188 1.149076455 0.89502965 1.041483933 1.08537389 1 12.09796451 -6.986588516 24.95235055 1.058124265 0.993414721 0.127966931 0.087634878 416.1234692 774203.8091 0.014607474 0.019193129 1.03E-07 6.986588516 -0.064709544 QIDS(ph)S(ph)EEDDDEEDYDNDKR ddPTM_HeLa_SAHA_4h_R1 1 QIDSSEEDDDEEDYDNDKR 19 1 O14646-2;O14646 O14646-2 CHD1 Chromodomain-helicase-DNA-binding protein 1 2 0 QIDS(1)S(1)EEDDDEEDYDNDKR 71.905 0.012079 6417300 841.84 840.17 828.41 902.56 819.63 1066.3 1004.7 775.74 824.75 832.18 TRUE FALSE FALSE 930.3885937 867.3920593 941.3014006 920.0303539 756.8301265 975.4452412 891.6485118 755.8976941 819.0104976 868.0593524 1.071802972 0.999231282 1.084374471 1.059870332 0.871864492 1.123708003 1.027174593 0.870790335 0.943495966 1 9.761649878 QIDS(ph)SPVGGETDETTVSQNYR ddPTM_HeLa_SAHA_4h_R1 1 QIDSSPVGGETDETTVSQNYR 21 0 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 QIDS(0.629)S(0.371)PVGGETDETTVSQNYR 177.3 2.17E-10 11409000 909.67 731.71 664.62 975.59 931.26 892.44 1042.5 993.53 559.05 778.84 TRUE FALSE FALSE 1005.353264 755.4178841 755.1909524 994.4739552 859.90706 816.3990913 925.1951563 968.1169412 555.1595255 812.419604 1.237480311 0.929837095 0.929557766 1.224089067 1.058451883 1.004898315 1.138814415 1.191646455 0.683340878 1 9.666081243 -4.528029097 23.86209388 1.086220627 1.178438512 0 0.163765448 141.9707148 657776.6169 0.01681667 0.063453887 2.96E-05 4.528029097 0.092217885 QIDSS(ph)PVGGETDETTVSQNYR ddPTM_HeLa_SAHA_4h_R1 1 QIDSSPVGGETDETTVSQNYR 21 0 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 QIDS(0.245)S(0.755)PVGGETDETTVSQNYR 178.2 1.90E-10 12131000 2002 2190.4 1708.8 1846 1945 2478.4 2173.6 2170.4 2387.5 2061.9 TRUE FALSE FALSE 2212.579546 2261.370397 1941.666365 1881.731999 1795.97452 2267.226377 1929.020807 2114.884311 2370.885193 2150.7986 1.028724654 1.051409647 0.90276531 0.874899212 0.835026822 1.054132348 0.896885839 0.983301882 1.102327849 1 11.07065672 -6.756005559 24.99778554 1.016781819 0.922817196 0.437763887 0.063969793 104.5175174 480821.302 0.00899043 0.012506395 1.75E-07 6.756005559 -0.093964623 QIESSDYDSSSSK(ac)GK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 QIESSDYDSSSSKGKK 16 2 Q9UNL4-8;Q9UNL4-3;Q9UNL4;Q9UNL4-6;Q9UNL4-2 Q9UNL4-8;Q9UNL4-2 ING4 Inhibitor of growth protein 4 0 2 ; QIESSDYDSSSSK(1)GK(1)K;QIESSDYDSSSSK(1)GK(1)K 472.63 0 60529000 5290.2 5638 6261 8046.8 8111.7 10576.6 9724.1 9065.8 5807.9 5149 FALSE TRUE FALSE 5846.647508 5820.674899 7114.216474 8202.55745 7490.183298 9675.414178 8629.918676 8833.909963 5767.482351 5370.998589 1.08855875 1.083723036 1.324561226 1.527194118 1.394560653 1.80141812 1.606762417 1.644742559 1.073819376 1 12.39097463 -6.331145927 0.865383663 1.028278367 1.671570648 0.894037543 0.087855942 0.111546488 0.165581591 0.015797268 0.03405788 4.67E-07 6.331145927 0.643292281 QIESSDYDSSSSK(ac)GK(ac)K(ac)K ddPTM_HeLa_SAHA_4h_R1 2 QIESSDYDSSSSKGKKK 17 3 Q9UNL4-8;Q9UNL4-3;Q9UNL4 Q9UNL4-8 ING4 Inhibitor of growth protein 4 0 3 ; QIESSDYDSSSSK(1)GK(1)K(1)K;QIESSDYDSSSSK(1)GK(1)K(1)K 278.2 1.91E-102 2585300 76.441 274.62 357.6 283.24 596.3 568.29 614.24 751.43 354.07 62.63 FALSE TRUE FALSE 84.4814151 283.5178682 406.3318657 288.7225198 550.6116228 519.8684949 545.1240986 732.2095087 351.605998 65.3302858 1.293143204 4.339761639 6.219655412 4.419428389 8.428122058 7.957542027 8.344125422 11.2078112 5.381975507 1 6.029680046 -6.156463589 0.505788024 0.754499337 10.56729572 0.657124557 1.804660362 0.224052336 0.10514749 0.29986539 0.963469308 6.97E-07 6.156463589 9.812796381 QIESSDYDSSSSK(ac)GK(ac)K(ac)SR ddPTM_HeLa_SAHA_4h_R1 1 QIESSDYDSSSSKGKKSR 18 3 Q9UNL4-2 Q9UNL4-2 ING4 Inhibitor of growth protein 4 0 3 QIESSDYDSSSSK(1)GK(1)K(1)SR 278.39 2.80E-102 1671100 0 47.691 0 0 198.44 118.25 119.8 0 0 0 FALSE TRUE FALSE 0 49.23621969 0 0 183.2355701 108.1744347 106.3197887 0 0 0 0 QIESSDYDSSSSK(ac)GR ddPTM_HeLa_SAHA_4h_R1 1 QIESSDYDSSSSKGR 15 1 Q9UNL4-4 Q9UNL4-4 ING4 Inhibitor of growth protein 4 0 1 QIESSDYDSSSSK(1)GR 205.26 2.37E-24 1212400 230.98 262.03 193.21 228.35 286.1 401.69 118.11 256.57 180.51 157.85 FALSE TRUE FALSE 255.2755362 270.5199439 219.5396526 232.7700444 264.1790798 367.4637522 104.819952 250.0073109 179.2538162 164.655686 1.550359677 1.642943226 1.333325668 1.413677536 1.604433386 2.231710068 0.636600864 1.518364273 1.088658525 1 7.363308523 -9.233390506 0.879318768 0.987699923 1.490705778 0.188665631 0.368476644 0.808572396 1.081798295 0.269896021 0.068056704 5.84E-10 9.233390506 0.503005855 QIFSLIIPGHINCIR ddPTM_HeLa_SAHA_4h_R1 1 QIFSLIIPGHINCIR 15 0 P24928 P24928 POLR2A DNA-directed RNA polymerase II subunit RPB1 0 0 72.891 0.01397 310690 192.22 141.28 218.21 146.81 183.31 192.1 316.7 0 185.67 166.97 FALSE FALSE TRUE 212.4385815 145.8575647 247.9465224 149.6517198 169.2648274 175.7319993 281.0640825 0 184.3779074 174.1688938 1.219727455 0.837448993 1.423598192 0.859233337 0.971843041 1.008974653 1.613744431 0 1.058615596 1 7.444343175 -4.244045745 24.99877696 1.103345334 8.79E-07 0.670208505 0.233620476 1571.194618 2258145.595 0.02950706 1.199632618 5.70E-05 4.244045745 -1.103344455 QIGVEHVVVYVNK ddPTM_HeLa_SAHA_4h_R1 1 QIGVEHVVVYVNK 13 0 P49411 P49411 TUFM "Elongation factor Tu, mitochondrial" 0 0 89.301 0.010128 1182100 648.5 1177.3 1025.9 798.01 1377.8 1162.9 1065.6 886.57 1198.9 1214.5 FALSE FALSE TRUE 716.7122054 1215.445292 1165.704309 813.4566375 1272.233262 1063.814378 945.6958835 863.8928231 1190.556757 1266.863039 0.565737719 0.959413335 0.920150224 0.642103063 1.004238993 0.839723273 0.746486285 0.681914932 0.939767537 1 10.30704485 -9.721238319 1.636800222 0.999867641 0.765085904 0.178267204 0.137572664 0.439225533 2.126977592 0.109305629 0.023959186 1.90E-10 9.721238319 -0.234781737 QILGVIDK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 QILGVIDKK 9 1 Q14444-2;Q14444;E9PLA9 Q14444-2 CAPRIN1 Caprin-1 0 1 QILGVIDK(1)K 103.26 0.0030891 1301600 1014.7 1996.4 1474.2 1205.3 1936.2 1385.5 2189.7 1548.8 1461.8 999.03 FALSE TRUE FALSE 1121.430802 2061.08467 1675.096299 1228.630324 1787.848774 1267.447605 1943.309193 1509.183939 1451.627215 1042.103072 1.076122728 1.977812679 1.607419019 1.178991174 1.715616067 1.216240158 1.86479557 1.448209854 1.392978538 1 10.02528226 -7.400992696 8.675461365 1.033511167 1.561650654 0.313446518 0.264571164 0.172251405 11.55313438 0.03822945 0.043635396 3.97E-08 7.400992696 0.528139488 QILIACS(ph)PVSSVR ddPTM_HeLa_SAHA_4h_R1 4 QILIACSPVSSVR 13 0 Q5QJE6;J3KP30;E9PRB3 Q5QJE6 DNTTIP2 Deoxynucleotidyltransferase terminal-interacting protein 2 1 0 QILIACS(0.998)PVS(0.001)SVR;QILIACS(0.995)PVS(0.005)SVR;QILIACS(0.894)PVS(0.104)S(0.002)VR;QILIACS(0.77)PVS(0.227)S(0.003)VR ;;; 173.33 1.87E-05 199423000 8842.8 9571 8945.4 9035.8 9806.8 10323.3 9779.6 9340.7 9880 8992.2 TRUE FALSE FALSE 9772.926276 9881.10668 10164.43253 9210.700975 9055.405103 9443.696763 8679.17367 9101.778419 9811.244276 9379.897749 1.041901153 1.05343437 1.083640014 0.981961768 0.965405524 1.006801675 0.925295126 0.970349428 1.045986272 1 13.19535648 -6.021489728 23.63203325 1.027923484 0.967688696 0.603794344 0.028975558 262.1131609 288243.7182 0.00481553 0.008045091 9.52E-07 6.021489728 -0.060234787 QINWTVLYR ddPTM_HeLa_SAHA_4h_R1 2 QINWTVLYR 9 0 C9JXB8;C9JNW5;P83731 C9JXB8 RPL24 60S ribosomal protein L24 0 0 ; ; 196.99 4.28E-24 4525900 1165.91 1382.78 2371.93 1769.79 2026.36 605.11 1786.4 55.594 234.565 902.18 FALSE FALSE TRUE 1288.545763 1427.582979 2695.164268 1804.046845 1871.100735 553.5512237 1585.38957 54.17198598 232.9326431 941.077395 1.369224009 1.516966603 2.863913513 1.917001571 1.98825383 0.588210095 1.684653758 0.057563795 0.247516989 1 9.878169566 -2.901499421 11.83094033 1.344595712 0.894049947 0 0.821408964 0 0 0.098281573 0 0.001254586 2.901499421 -0.450545765 QIPS(ph)AEDLETDGGGPGQVVDDGLEHR ddPTM_HeLa_SAHA_4h_R1 1 QIPSAEDLETDGGGPGQVVDDGLEHR 26 0 J3KPH8;Q8WUI4-8;Q8WUI4-5;Q8WUI4-6;Q8WUI4-7;Q8WUI4;Q8WUI4-4;Q8WUI4-3;Q8WUI4-10 J3KPH8 HDAC7 Histone deacetylase;Histone deacetylase 7 1 0 QIPS(0.995)AEDLET(0.005)DGGGPGQVVDDGLEHR 84.809 4.61E-05 2050000 260.2 384.21 272.74 264.07 460.63 344.47 272 447.62 367.77 447.49 TRUE FALSE FALSE 287.5690298 396.6586561 309.9075868 269.1814567 425.3366289 315.1192181 241.3938441 436.1705285 365.2106586 466.7834839 0.616065135 0.849770118 0.663921492 0.576673053 0.911207538 0.675086478 0.517143071 0.934417227 0.782398417 1 8.866609705 -9.416827262 1.032873767 1.007713943 0.705757508 0.112151758 0.148582544 0.428953967 0.784168218 0.098617893 0.022468597 3.83E-10 9.416827262 -0.301956435 QIS(ph)DGEREELNLTANR ddPTM_HeLa_SAHA_4h_R1 2 QISDGEREELNLTANR 16 1 O95816-2;O95816 O95816-2 BAG2 BAG family molecular chaperone regulator 2 1 0 QIS(1)DGEREELNLTANR;QIS(1)DGEREELNLTANR ; 79.88 0.0076999 11787300 1785.54 1837.09 1642.05 2003.19 2144.7 2306.4 1899.41 1858.56 2172.3 1725.56 TRUE FALSE FALSE 1973.35129 1896.612921 1865.820023 2041.964639 1980.373549 2109.881745 1685.683388 1811.020726 2157.182787 1799.957336 1.096332257 1.05369882 1.036591249 1.134451688 1.100233605 1.172184308 0.936512968 1.006146474 1.198463288 1 10.813747 -4.722950129 24.99989868 1.063400734 0.971329659 0.262357349 0.066949347 163.41455 106140.3372 0.008253001 0.030878883 1.89E-05 4.722950129 -0.092071075 QIS(ph)LPDLSQEEPQLK ddPTM_HeLa_SAHA_4h_R1 2 QISLPDLSQEEPQLK 15 0 H0YBZ4;Q15390-2;Q15390 H0YBZ4 MTFR1 Mitochondrial fission regulator 1 1 0 QIS(0.999)LPDLS(0.001)QEEPQLK;QIS(0.98)LPDLS(0.02)QEEPQLK ; 181.58 1.56E-07 11032500 1755.44 2596.8 2153.53 1250.37 2255.39 2660.2 2735.7 1806.57 1370.35 1806.92 TRUE FALSE FALSE 1940.085233 2680.938024 2447.001853 1274.572719 2082.582505 2433.535994 2427.871836 1760.360555 1360.813623 1884.825164 1.029318406 1.422380216 1.298264635 0.67622862 1.104920788 1.29112028 1.288115143 0.933964905 0.721984006 1 10.88021499 -7.488063534 24.74031907 1.012934449 1.1484047 0.142154369 0.222047814 763.9144308 542856.3282 0.035304887 0.039143998 3.25E-08 7.488063534 0.135470251 QIS(ph)QDVK ddPTM_HeLa_SAHA_4h_R1 1 QISQDVK 7 0 A0A5F9UK94;H0Y360;Q01433-2;Q01433;E9PJF6;Q01433-3;Q01433-5;Q01433-4;E9PIJ1;A0A590UK85;A0A590UJY6 A0A5F9UK94 AMPD2 AMP deaminase 2 1 0 QIS(1)QDVK 98.04 0.014952 47263000 6277.4 8043 5055.8 5309.4 7779.4 11412 8328 5017.9 7121.3 6382.9 TRUE FALSE FALSE 6937.685734 8303.598477 5744.778095 5412.171115 7183.344053 10439.6334 7390.911522 4889.549384 7071.742293 6658.098056 1.041992124 1.247142714 0.862825697 0.812870443 1.078888294 1.567960296 1.110063484 0.734376295 1.062126486 1 12.7008944 -5.518634107 24.9988662 1.010522038 1.166176014 0.066291255 0.217178274 327.7876648 1930508.374 0.030778337 0.062749091 3.03E-06 5.518634107 0.155653977 QIS(ph)QDVKLEPDILLR ddPTM_HeLa_SAHA_4h_R1 2 QISQDVKLEPDILLR 15 1 A0A5F9UK94;H0Y360;Q01433-2;Q01433;E9PJF6;Q01433-3;Q01433-5;Q01433-4;E9PIJ1;A0A590UK85;A0A590UJY6 A0A5F9UK94 AMPD2 AMP deaminase 2 1 0 QIS(1)QDVKLEPDILLR;QIS(1)QDVKLEPDILLR ; 114.9 0.0007947 68136000 6066.7 5177.5 5280 4621 6203.2 7685.2 7672.8 5357.2 3403 5658.6 TRUE FALSE FALSE 6704.823341 5345.254397 5999.530903 4710.446137 5727.912156 7030.377724 6809.43635 5220.170581 3379.318246 5902.569939 1.13591595 0.905580866 1.016426906 0.798033092 0.970409875 1.191070635 1.153639249 0.88438945 0.572516426 1 12.52712752 -7.271021649 24.94897539 1.064182529 0.995701152 0 0.193589295 1527.507611 3977101.487 0.021343162 0.02457213 5.36E-08 7.271021649 -0.068481378 QISGQYSGS(ph)PQLLK ddPTM_HeLa_SAHA_4h_R1 2 QISGQYSGSPQLLK 14 0 Q96N67-2;Q96N67-6;Q96N67;Q96N67-4;Q96N67-3;Q96N67-5;A0A1B0GUE9;Q96N67-7 Q96N67-2 DOCK7 Dedicator of cytokinesis protein 7 1 0 QISGQYS(0.003)GS(0.996)PQLLK;QISGQYSGS(1)PQLLK ; 200.81 5.41E-12 15684300 3641 3789.3 3350.2 3958 4144.5 4055.3 4129.9 4550.4 4578.8 3946.5 TRUE FALSE FALSE 4023.977086 3912.075806 3806.747809 4034.612813 3826.949305 3709.765626 3665.192783 4434.007357 4546.935758 4116.652929 0.977487574 0.950304987 0.924719153 0.980071161 0.929626415 0.901160649 0.890333202 1.077090402 1.104522494 1 12.00725611 -7.532933614 1.265873621 0.993288267 0.944923088 0.193468534 0.060678871 0.540226264 1.739102196 0.010048118 0.010574598 2.93E-08 7.532933614 -0.048365179 QISRPSAAGINLMIGSTR ddPTM_HeLa_SAHA_4h_R1 1 QISRPSAAGINLMIGSTR 18 1 Q08211;Q08211-2 Q08211 DHX9 ATP-dependent RNA helicase A 0 0 57.703 0.01547 0 0 0 0 0 0 89.22 81.709 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 81.61795406 72.51488827 0 0 0 0 QIT(ph)MEELVR ddPTM_HeLa_SAHA_4h_R1 2 QITMEELVR 9 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 QIT(1)MEELVR;QIT(1)MEELVR ; 108.68 0.011696 19220500 2294.62 2110.28 1575.61 3710.2 3206.6 3184.3 3518 4129.2 4152.9 2642.41 TRUE FALSE FALSE 2535.97866 2178.654457 1790.325925 3782.016286 2960.911001 2912.979726 3122.145381 4023.581043 4123.999631 2756.337227 0.920053844 0.790416512 0.649530801 1.372116681 1.074219429 1.056829947 1.132715312 1.459756449 1.496188344 1 11.42853669 -6.248088985 24.98969819 0.924346077 1.197259886 0.198933463 0.237636494 600.3338044 1123724.063 0.024012109 0.039672433 5.65E-07 6.248088985 0.272913809 QITQEEDDS(ph)DEEVAPENFFSLPEK ddPTM_HeLa_SAHA_4h_R1 3 QITQEEDDSDEEVAPENFFSLPEK 24 0 Q92733 Q92733 PRCC Proline-rich protein PRCC 1 0 QIT(0.003)QEEDDS(0.996)DEEVAPENFFS(0.001)LPEK;QITQEEDDS(1)DEEVAPENFFSLPEK;QIT(0.001)QEEDDS(0.999)DEEVAPENFFSLPEK ;; 141.72 4.86E-07 15888900 7881.2 11594.7 8898.8 10006.2 10801.2 12629.7 11604.8 9241.5 13608.5 9909.8 TRUE FALSE FALSE 8710.180776 11970.37589 10111.48212 10199.88447 9973.614389 11553.57851 10298.99736 9005.115812 13513.79734 10337.05998 0.842616837 1.158005847 0.978177755 0.986729737 0.964840527 1.117685158 0.996317849 0.871148647 1.307315366 1 13.3355383 -7.296758539 24.98156889 0.925680185 1.010095014 0 0.146502618 821.0182771 580711.7591 0.015623721 0.017866827 5.05E-08 7.296758539 0.084414829 QITT(ph)SPITVR ddPTM_HeLa_SAHA_4h_R1 4 QITTSPITVR 10 0 O95835;O95835-2 O95835 LATS1 Serine/threonine-protein kinase LATS1 1 0 QIT(0.008)T(0.496)S(0.496)PITVR;QIT(0.04)T(0.783)S(0.177)PITVR;QIT(0.349)T(0.499)S(0.151)PIT(0.001)VR;QIT(0.047)T(0.476)S(0.476)PITVR ;;; 156.01 0.00057648 88243000 11678.9 13839.9 10408.6 13319.2 12891.8 14501.7 13808.1 12621.7 13711.2 11513.9 TRUE FALSE FALSE 12907.34029 14288.32184 11827.0298 13577.01238 11904.03307 13266.07358 12254.37625 12298.85519 13615.78264 12010.32058 1.074687408 1.189670313 0.984738894 1.130445461 0.991150319 1.10455616 1.020320496 1.024023889 1.13367354 1 13.55198704 QITVNDLPVGR ddPTM_HeLa_SAHA_4h_R1 5 QITVNDLPVGR 11 0 Q06830;A0A0A0MSI0;A0A0A0MRQ5;P32119 Q06830;P32119 PRDX1;PRDX2 Peroxiredoxin-1;Peroxiredoxin-2 0 0 ;;;; ;;;; 208.84 5.11E-10 41050400 12352.8 11614.6 10936.6 11877.1 11508 12980.8 13531.5 11141.8 12181.2 11339.2 FALSE FALSE TRUE 13652.12418 11990.92066 12426.98289 12106.99845 10626.25953 11874.76281 12008.90001 10856.80889 12096.43004 11828.0884 1.15421222 1.013766574 1.050633244 1.023580314 0.89839196 1.003946065 1.015286629 0.917883644 1.022686813 1 13.52992931 -6.089997629 2.94865499 1.06812096 0.965716823 0.346361368 0.053576102 0.237750691 4.013331501 0.010296097 0.01831346 8.13E-07 6.089997629 -0.102404137 QIWTLEQPPDEAGSAAVCLR ddPTM_HeLa_SAHA_4h_R1 1 QIWTLEQPPDEAGSAAVCLR 20 0 Q16658 Q16658 FSCN1 Fascin 0 0 172.85 1.69E-08 3074100 876.94 714 640.96 882 774.35 750.4 900.27 1001.5 1049 751.35 FALSE FALSE TRUE 969.1805727 737.1340685 728.3066908 899.0723854 715.0194703 686.4616984 798.9692502 975.8830802 1041.699924 783.7443755 1.236602907 0.940528687 0.929265604 1.147150032 0.912312091 0.875874481 1.019425817 1.245154811 1.329132248 1 9.614239374 -7.238840318 24.97980922 1.111729162 1.00358318 0.206137755 0.137367811 1269.037089 1402728.489 0.022455951 0.027493571 5.77E-08 7.238840318 -0.108145982 QKDFQQQQVLELKPMEQK ddPTM_HeLa_SAHA_4h_R1 1 QKDFQQQQVLELKPMEQK 18 2 G3V5N1;A0A669KBH2;A0A0C4DGK3;G3V5X4;A0A0A0MRE3;Q8WXH0-7;Q8WXH0;Q8WXH0-2 G3V5N1 SYNE2 Nesprin-2 0 0 32.688 0.023018 3900600 867.52 712.13 814.01 929.64 1138.2 1032.3 1136.4 1158.4 798.38 1110.6 FALSE FALSE TRUE 958.7697339 735.2034792 924.9390436 947.6345265 1050.991362 944.3422324 1008.529281 1128.769805 792.8240086 1158.483401 0.827607658 0.634625821 0.79840509 0.817995774 0.907213138 0.815153874 0.870559975 0.974351298 0.684363719 1 10.17802166 -8.994677939 0.998612348 0.991779429 0.828916494 0 0.126694921 0.430684995 0.827357573 0.043917689 0.016529099 1.01E-09 8.994677939 -0.162862936 QKDRT(ph)MNLQDIRY(ph)ILK ddPTM_HeLa_SAHA_4h_R1 1 QKDRTMNLQDIRYILK 16 3 Q8IWB6-3;Q8IWB6-2;Q8IWB6 Q8IWB6-3 TEX14 Inactive serine/threonine-protein kinase TEX14 2 0 QKDRT(1)MNLQDIRY(1)ILK 64.275 0.006104 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 QKEDVEVVGGS(ph)DGEGAIGLSSDPK ddPTM_HeLa_SAHA_4h_R1 2 QKEDVEVVGGSDGEGAIGLSSDPK 24 1 Q8NHZ8 Q8NHZ8 CDC26 Anaphase-promoting complex subunit CDC26 1 0 QKEDVEVVGGS(0.999)DGEGAIGLSSDPK;QKEDVEVVGGS(0.865)DGEGAIGLS(0.063)S(0.072)DPK ; 107.13 1.31E-05 133115300 9624.8 10663.6 10480.6 11245.6 10929.3 11195.3 11974.1 11094.7 11811.6 10650.7 TRUE FALSE FALSE 10637.18062 11009.10764 11908.84159 11463.27485 10091.8994 10241.39746 10626.74275 10810.91364 11729.40211 11109.9038 0.957450291 0.990927359 1.071912215 1.03180685 0.908369647 0.921825935 0.95651078 0.973087961 1.055760907 1 13.4395587 -5.755246992 24.9999953 0.991268419 0.939837125 0.38906101 0.040279439 156.5017952 631824.5339 0.0059145 0.011594628 1.76E-06 5.755246992 -0.051431294 QKFNDS(ph)EGDDTEETEDYR ddPTM_HeLa_SAHA_4h_R1 4 QKFNDSEGDDTEETEDYR 18 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 QKFNDS(0.999)EGDDT(0.001)EETEDYR;QKFNDS(0.407)EGDDT(0.236)EET(0.357)EDYR;QKFNDS(0.967)EGDDT(0.027)EET(0.007)EDYR;QKFNDS(0.986)EGDDT(0.014)EETEDYR ;;; 98.376 0.0013263 164087000 7102.51 7619 7532.8 6887.72 6647.04 8225.3 8104.3 7605.51 8184.8 7030 TRUE FALSE FALSE 7849.584589 7865.860599 8559.330755 7021.04178 6137.745231 7524.458166 7192.382835 7410.972067 8127.84131 7333.097704 1.070432293 1.07265182 1.167218971 0.957445552 0.836992152 1.026095447 0.980810992 1.010619573 1.10837761 1 12.84020705 QKFNDS(ph)EGDDTEETEDYRQFR ddPTM_HeLa_SAHA_4h_R1 1 QKFNDSEGDDTEETEDYRQFR 21 2 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 QKFNDS(0.826)EGDDT(0.174)EETEDYRQFR 116.45 3.79E-05 18717000 1348 586.5 1286.8 1212.2 1000.8 843.92 1105.2 1202 585.93 996.4 TRUE FALSE FALSE 1489.788825 605.5029848 1462.158403 1235.663884 924.1189202 772.0132682 980.8399873 1171.25458 581.8524654 1039.35968 1.43337177 0.582573094 1.406787689 1.188870328 0.889123311 0.742777773 0.943696399 1.126900151 0.5598182 1 10.02147928 -5.762687428 24.91434936 1.173432219 0.913854766 0 0.308890749 41.70206355 832514.7147 0.037990444 0.071735591 1.73E-06 5.762687428 -0.259577453 QKGADFLVTEVENGGSLGSK ddPTM_HeLa_SAHA_4h_R1 1 QKGADFLVTEVENGGSLGSK 20 1 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BQ34 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 236.27 9.37E-61 3605700 2428.8 2129.5 2655.9 2200.5 2694.1 2836.2 2627.7 2530 1987.7 2716 FALSE FALSE TRUE 2684.272328 2198.497197 3017.832221 2243.093859 2487.67864 2594.539804 2332.02428 2465.286263 1973.867434 2833.100052 0.947468243 0.776004079 1.065204958 0.791745374 0.878076522 0.915795333 0.823135166 0.87017268 0.696716458 1 11.46816584 -7.627889775 0.387278063 1.009504961 0.853790135 0 0.122710611 0.923268267 0.388452608 0.052785922 0.043426739 2.36E-08 7.627889775 -0.155714826 QKS(ph)DAEEDGGTVSQEEEDRKPK ddPTM_HeLa_SAHA_4h_R1 1 QKSDAEEDGGTVSQEEEDRKPK 22 3 P27824;P27824-2;P27824-3 P27824 CANX Calnexin 1 0 QKS(0.947)DAEEDGGT(0.052)VS(0.001)QEEEDRKPK 51.611 0.010838 58594000 808.25 2591.3 1090.5 1129.9 1603.6 1407.5 1743.2 1428.3 1320.9 1418.5 TRUE FALSE FALSE 893.2654434 2675.25982 1239.107661 1151.770848 1480.732514 1287.573082 1547.050548 1391.766154 1311.707749 1479.658477 0.60369704 1.808025204 0.83742815 0.77840317 1.000725868 0.870182614 1.045545693 0.940599588 0.886493586 1 10.53104851 QKS(ph)NS(ph)QSDSHDEEVSPTPPNPVVK ddPTM_HeLa_SAHA_4h_R1 1 QKSNSQSDSHDEEVSPTPPNPVVK 24 1 C9J4C2;C9IZL8;C9JR00;C9JSK5;P31321 C9J4C2 PRKAR1B cAMP-dependent protein kinase type I-beta regulatory subunit 2 0 QKS(0.632)NS(0.673)QS(0.347)DS(0.347)HDEEVSPTPPNPVVK 62.377 0.021866 7872200 1512.9 2682.3 1870.5 2133.7 2594.1 1875.8 2387 1784.7 6052.4 2948 TRUE FALSE FALSE 1672.033763 2769.20828 2125.401999 2175.000849 2395.340618 1715.971287 2118.408478 1739.049958 6010.280856 3075.102707 0.543732656 0.90052546 0.691164557 0.707293725 0.778946541 0.558020805 0.688890317 0.565525813 1.954497598 1 11.58641888 -9.479069426 1.137604055 1.005709067 0.672694805 0.338164347 0.323403857 0.295931117 0.665913518 0.080153527 0.018295966 3.32E-10 9.479069426 -0.333014261 QKS(ph)PAQSDSTTQR ddPTM_HeLa_SAHA_4h_R1 2 QKSPAQSDSTTQR 13 1 Q9UHB7;Q9UHB7-2 Q9UHB7 AFF4 AF4/FMR2 family member 4 1 0 QKS(0.964)PAQS(0.035)DS(0.001)TTQR;QKS(0.987)PAQS(0.012)DSTT(0.001)QR ; 148.85 0.00084071 5033300 444.78 375.828 314.414 805.1 494.151 1167.17 1104.79 907.52 853.16 1019.78 TRUE FALSE FALSE 491.5640011 388.0050738 357.2607025 820.6838747 456.2892571 1067.72055 980.4761216 884.3069525 847.2227901 1063.747706 0.462105815 0.364752912 0.335850973 0.771502368 0.428944997 1.003734761 0.92171867 0.831312676 0.796450874 1 10.05494031 -5.237886588 24.74487267 0.663330076 0.919201712 0.294883566 0.212005708 1057.363173 1110877.576 0.039060799 0.099520509 5.78E-06 5.237886588 0.255871635 QKS(ph)PEIHR ddPTM_HeLa_SAHA_4h_R1 1 QKSPEIHR 8 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 QKS(1)PEIHR 76.927 0.018194 85388000 3775.3 2637.5 3983.1 5917.6 3234.1 4983.1 5779 5310.2 3352.8 4049.2 TRUE FALSE FALSE 4172.403376 2722.956731 4525.896125 6032.143705 2986.303957 4558.511846 5128.731711 5174.372773 3329.467592 4223.780828 0.987836146 0.644672828 1.071527219 1.428138426 0.707021524 1.079249145 1.214251383 1.225057119 0.78826713 1 12.04431926 -6.535871132 24.99791518 0.962649277 1.123067071 0.23040758 0.205023559 358.0138652 688832.1558 0.030481946 0.043122619 2.91E-07 6.535871132 0.160417794 QKS(ph)S(ph)S(ph)K ddPTM_HeLa_SAHA_4h_R1 1 QKSSSK 6 1 Q2TB10 Q2TB10 ZNF800 Zinc finger protein 800 3 0 QKS(1)S(1)S(1)K 54.525 0.0081411 0 484.58 573.37 425.63 450.82 749.04 781.64 601.06 728.7 700.62 535.04 TRUE FALSE FALSE 535.5503477 591.9475642 483.6326398 459.546273 691.648717 715.0398746 533.4271469 710.0609091 695.7443284 558.1081928 0.959581591 1.060632278 0.866557141 0.823399977 1.239273542 1.281185053 0.955777309 1.272263906 1.246611925 1 9.124401015 -5.747005485 24.99997272 0.96773804 1.177318725 0.311323722 0.138311348 155.9147007 270047.7346 0.01494106 0.029773973 1.79E-06 5.747005485 0.209580685 QKSDAEEDGGT(ph)VSQEEEDRKPK ddPTM_HeLa_SAHA_4h_R1 1 QKSDAEEDGGTVSQEEEDRKPK 22 3 P27824;P27824-2;P27824-3 P27824 CANX Calnexin 1 0 QKSDAEEDGGT(0.5)VS(0.5)QEEEDRKPK 79.88 0.00079507 9313500 1257.6 3877.3 2005 1569.4 2158 1871.5 2460.3 1832.9 2203.8 1921.7 TRUE FALSE FALSE 1389.880138 4002.927064 2278.230958 1599.778006 1992.654506 1712.037671 2183.460569 1786.017072 2188.463576 2004.553892 0.693361323 1.996916661 1.136527667 0.798071837 0.994063824 0.854074155 1.089250121 0.890979823 1.091745942 1 10.96906549 QKSDAEEDGGTVS(ph)QEEEDRKPK ddPTM_HeLa_SAHA_4h_R1 2 QKSDAEEDGGTVSQEEEDRKPK 22 3 P27824;P27824-2;P27824-3 P27824 CANX Calnexin 1 0 QKSDAEEDGGT(0.242)VS(0.758)QEEEDRKPK;QKSDAEEDGGT(0.299)VS(0.701)QEEEDRKPK ; 49.592 0.012408 19490400 1744.67 6049.4 3614.7 2431.7 3228 2905.7 4090.4 2726.5 2815.4 3118.9 TRUE FALSE FALSE 1928.182395 6245.404529 4107.292491 2478.76907 2980.671337 2658.118013 3630.137427 2656.760078 2795.807402 3253.371043 0.592672145 1.919671764 1.262472813 0.761907891 0.916179341 0.817035001 1.115807997 0.816617608 0.859357069 1 11.66771965 QKTEDEVLTSK(ac)GDAWAK ddPTM_HeLa_SAHA_4h_R1 2 QKTEDEVLTSKGDAWAK 17 2 Q9BQ61 Q9BQ61 C19orf43 Uncharacterized protein C19orf43 0 1 ; QKTEDEVLTSK(1)GDAWAK;QKTEDEVLTSK(1)GDAWAK 160.97 9.06E-09 5618900 3031.1 2895.6 2884.46 2857.87 3653.1 3659.7 4055.9 3540.3 3220.6 2893.36 FALSE TRUE FALSE 3349.925005 2989.41934 3277.539187 2913.188206 3373.200267 3347.872971 3599.519457 3449.744252 3198.187582 3018.106909 1.109942459 0.990494846 1.085958611 0.965236916 1.117654334 1.109262552 1.192641469 1.143015922 1.059666764 1 11.5594282 -5.318327136 2.128097642 1.045785834 1.161287029 0.532452268 0.047270655 0.222207555 1.93830939 0.007813751 0.022702649 4.80E-06 5.318327136 0.115501195 QKVDSLLENLEK ddPTM_HeLa_SAHA_4h_R1 1 QKVDSLLENLEK 12 1 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;G3V576;A0A0G2JPF8;B7ZW38;P0DMR1;B4DY08;A0A0G2JNQ3;B2RXH8;O60812 P07910;B4DY08;A0A0G2JNQ3 HNRNPC;HNRNPCL3;HNRNPCL4;HNRNPCL2;HNRNPCL1 Heterogeneous nuclear ribonucleoproteins C1/C2;Heterogeneous nuclear ribonucleoprotein C-like 3;Heterogeneous nuclear ribonucleoprotein C-like 4;Heterogeneous nuclear ribonucleoprotein C-like 2;Heterogeneous nuclear ribonucleoprotein C-like 1 0 0 171.99 5.17E-11 3151300 2340.5 2874.6 2784.4 3185.5 3057.9 3449 3231.6 3373.9 3199 3175.6 FALSE FALSE TRUE 2586.684529 2967.738926 3163.843531 3247.159959 2823.604363 3155.125796 2867.971863 3287.600523 3176.737899 3312.515657 0.780882204 0.895916951 0.955118061 0.980270071 0.852404835 0.952486304 0.865798734 0.992478486 0.959010682 1 11.69371156 -6.863837731 9.554588555 0.893502524 0.92935949 0.007852212 0.067863192 0.954339206 81.7716457 0.014486828 0.019052779 1.37E-07 6.863837731 0.035856966 QLAAEEERR ddPTM_HeLa_SAHA_4h_R1 1 QLAAEEERR 9 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 110.38 0.012603 2812500 911.48 742.31 784.3 756.58 883.01 798.55 1088.8 936.35 753.27 762.6 FALSE FALSE TRUE 1007.353648 766.361331 891.1803195 771.2246999 815.3539646 730.5090475 966.2853584 912.3995228 748.0279327 795.4794181 1.266347847 0.963395549 1.120305943 0.969509308 1.024984363 0.918325517 1.214720754 1.146980679 0.940348569 1 9.635680793 -7.230687186 24.99270346 1.125775421 1.050865871 0 0.1197407 1492.699678 1213138.007 0.021345854 0.026141874 5.88E-08 7.230687186 -0.07490955 QLAELETEDGMQES(ph)P ddPTM_HeLa_SAHA_4h_R1 1 QLAELETEDGMQESP 15 0 Q96QG7-2;Q96QG7 Q96QG7-2 MTMR9 Myotubularin-related protein 9 1 0 QLAELETEDGMQES(1)P 140.27 0.00015005 1855400 597.34 694.89 844.65 592.21 668.96 1078.6 801.48 853.3 942.17 793.29 TRUE FALSE FALSE 660.1709619 717.4048919 959.7545033 603.6730809 617.7044293 986.697212 711.295361 831.4738216 935.6133623 827.4926142 0.797796803 0.86696229 1.159834525 0.729520808 0.746477272 1.19239398 0.859579105 1.00481117 1.130660681 1 9.692602625 -5.274895582 24.99479733 0.896635482 1.00299321 0.062743385 0.158837567 1385.503483 2573561.606 0.020817956 0.046786911 5.31E-06 5.274895582 0.106357728 QLAQK(ac)YNCDK ddPTM_HeLa_SAHA_4h_R1 1 QLAQKYNCDK 10 1 P62987;M0R1M6;M0R2S1 P62987 UBA52 Ubiquitin-60S ribosomal protein L40;Ubiquitin;60S ribosomal protein L40 0 1 QLAQK(1)YNCDK 145.99 4.32E-05 1180200 387.44 406 357.46 407.06 518.05 520.45 483.2 688.14 299.08 402.54 FALSE TRUE FALSE 428.1927168 419.1546664 406.1727872 414.9392349 478.3571209 476.104732 428.8290643 670.5383752 296.9986779 419.8954694 1.019760269 0.998235744 0.967318813 0.988196504 1.13922906 1.133864894 1.021275759 1.596917386 0.707315748 1 8.713886412 -2.010944207 1.275088024 1.014982675 200 0.701436225 0.115730743 119.7758002 0.722174052 0.009086561 69145.94482 0.009751149 2.010944207 198.9850173 QLATK(ac)AAR ddPTM_HeLa_SAHA_4h_R1 2 QLATKAAR 8 1 K7EK07;P84243;Q6NXT2;Q71DI3;P68431;K7EMV3;K7EP01;A0A590UJJ6;B4DEB1;Q5TEC6;K7ES00 K7EK07 H3F3B;H3F3A;H3F3C;HIST2H3A;HIST1H3A;HIST2H3PS2 Histone H3;Histone H3.3;Histone H3.3C;Histone H3.2;Histone H3.1 0 1 ; QLATK(1)AAR;QLATK(1)AAR 150.36 2.22E-05 58160000 2019.12 5474.6 11788 6837.5 7250.5 1272.1 10305.6 1137.17 178.989 1077.34 FALSE TRUE FALSE 2231.500306 5651.980632 13394.40725 6969.8497 6694.968256 1163.709923 9145.986765 1108.082838 177.743401 1123.7894 1.985692609 5.029394861 11.91896565 6.202095963 5.957493689 1.035523136 8.13852379 0.986023572 0.158164333 1 10.13415598 -7.255212605 4.156139812 1.440619277 5.840079071 0.323041388 3.019546559 0.187786847 7.843913451 0.499233924 0.593041628 5.56E-08 7.255212605 4.399459793 QLEEAEEEAQR ddPTM_HeLa_SAHA_4h_R1 1 QLEEAEEEAQR 11 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 121.68 0.012278 11290000 1125.9 1226.6 1143.6 1160 1377.2 1241.6 1439.8 1070.2 972 1047.6 FALSE FALSE TRUE 1244.327328 1266.342645 1299.443852 1182.453477 1271.679234 1135.808695 1277.789915 1042.825834 965.2357729 1092.767163 1.138693923 1.158840316 1.189131497 1.082072666 1.163723872 1.039387651 1.169315805 0.954298289 0.883295002 1 10.09377032 -9.266436185 1.017501697 1.000629669 1.116953697 0.379924839 0.078373787 0.501234514 0.937793519 0.04133283 0.011490284 5.41E-10 9.266436185 0.116324028 QLEEAEEESQR ddPTM_HeLa_SAHA_4h_R1 1 QLEEAEEESQR 11 0 P35749-4;P35749-3;P35749;P35749-2 P35749-4 MYH11 Myosin-11 0 0 125.72 0.010243 73875000 537.48 385.9 560.25 527.93 680.76 590.68 562.95 746.87 760.84 545.87 FALSE FALSE TRUE 594.0146124 398.4034132 636.5979523 538.1488485 628.6003159 540.3507409 499.6053844 727.7661469 755.5452525 569.4051271 1.043219641 0.699683572 1.118005304 0.945107135 1.103959704 0.94897414 0.877416378 1.278116603 1.326902791 1 9.153311673 QLEELEEEFCR ddPTM_HeLa_SAHA_4h_R1 1 QLEELEEEFCR 11 0 M0QZR4;Q92888-2;Q92888;Q92888-3 M0QZR4 ARHGEF1 Rho guanine nucleotide exchange factor 1 0 0 126.71 0.0097452 1900800 291.66 320.32 268.43 362.18 279.51 391.54 546.04 373.63 517.2 400.75 FALSE FALSE TRUE 322.338137 330.6985782 305.0102425 369.1905176 258.0940042 358.1785893 484.5981421 364.0730856 513.6007631 418.0282937 0.771091674 0.791091376 0.729640187 0.883171123 0.617407979 0.85682858 1.159247231 0.870929291 1.228626796 1 8.707456782 -2.557832463 20.48436015 0.869405999 0.768122735 0 0.18146313 0 0 0.020439149 0 0.002768009 2.557832463 -0.101283264 QLEEPGAGTPS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 4 QLEEPGAGTPSPVR 14 0 Q63ZY6-4;Q63ZY6-5;Q63ZY6;Q96P11-5;Q96P11;Q96P11-2;Q96P11-4 Q63ZY6-4 NSUN5P2;NSUN5 Putative methyltransferase NSUN5C;Probable 28S rRNA (cytosine-C(5))-methyltransferase 1 0 QLEEPGAGTPS(1)PVR;QLEEPGAGTPS(1)PVR;QLEEPGAGT(0.001)PS(0.999)PVR;QLEEPGAGTPS(1)PVR ;;; 209.23 1.06E-12 71100000 6925.3 6689.5 4840.7 5987.9 6904.18 6855.6 7131.3 5964.4 7332.9 5745.3 TRUE FALSE FALSE 7653.734828 6906.244189 5500.365387 6103.804463 6375.18322 6271.464311 6328.867355 5811.839284 7281.869752 5993.008 1.277110731 1.152383609 0.917797104 1.018487621 1.063770184 1.046463531 1.056041867 0.969769986 1.21506091 1 12.54906458 -6.792579227 24.99718356 1.136128627 1.018261502 0.45086502 0.078511044 235.1446888 188759.043 0.017860328 0.023474337 1.61E-07 6.792579227 -0.117867125 QLEMILNKPGLK ddPTM_HeLa_SAHA_4h_R1 2 QLEMILNKPGLK 12 1 A0A0A0MSS8;P42330;S4R3Z2;P42330-2;P17516;A6NHU4;Q04828;H0Y804 A0A0A0MSS8;Q04828 AKR1C3;AKR1C4;AKR1C1 Aldo-keto reductase family 1 member C3;Aldo-keto reductase family 1 member C4;Aldo-keto reductase family 1 member C1 0 0 ; ; 140.63 7.63E-05 14508500 2162.39 2126.08 2109.54 2503.75 2075.28 2436.21 2472.01 1626.22 1921.29 2312.71 FALSE FALSE TRUE 2389.840102 2194.966387 2397.017125 2552.213702 1916.272495 2228.631202 2193.852929 1584.623647 1907.919586 2412.422246 0.990639224 0.909859951 0.993614252 1.057946512 0.794335443 0.923814728 0.909398399 0.656859988 0.790872986 1 11.23626673 -3.309306548 0.583548037 0.990599005 1.62E-19 0.359263622 0.092934384 4.216095173 0.435310324 0.011685158 3.644934724 0.000490561 3.309306548 -0.990599005 QLFDQVVK ddPTM_HeLa_SAHA_4h_R1 1 QLFDQVVK 8 0 E7EQR4;P15311;E9PQ82;E9PNV3;A0A2R8Y7M3;A0A2R8Y5S7;P35241;P35241-5;P26038;V9GZ54 E7EQR4;A0A2R8Y7M3;P26038 EZR;RDX;MSN Ezrin;Radixin;Moesin 0 0 156.51 5.29E-07 1247100 1016.1 958.06 857.19 584.73 752.1 679.59 856.81 496.69 389.49 759.6 FALSE FALSE TRUE 1122.97806 989.1017726 974.0033891 596.0482947 694.4742605 621.6851087 760.3994838 483.985389 386.7795074 792.3500734 1.417275139 1.248314105 1.229258912 0.752253726 0.876474028 0.784609139 0.95967617 0.610822672 0.488142199 1 9.629994168 -6.264680158 24.88147881 1.208908771 0.809570356 0.136595244 0.26056622 149.4188853 1147182.363 0.026371895 0.041340919 5.44E-07 6.264680158 -0.399338415 QLFHPEQLITGK ddPTM_HeLa_SAHA_4h_R1 2 QLFHPEQLITGK 12 0 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;A0A1W2PQM2;P0DPH7-2;Q6PEY2;F8VQQ4;F8VVB9;Q9NY65;C9J2C0;Q9NY65-2;F8VS66;F8VRZ4;F8VWV9;F8VX09;C9K0S6;P68363;P68363-2;P68366-2;P68366;C9JEV8;C9JQ00;C9JJQ8;C9JDL2 Q9BQE3;P68363;P68366-2 TUBA1C;TUBA3E;TUBA1A;TUBA1B;TUBA8;TUBA4A Tubulin alpha-1C chain;Tubulin alpha-3E chain;Tubulin alpha-8 chain;Tubulin alpha-1B chain;Tubulin alpha-4A chain 0 0 ; ; 164.81 6.41E-08 10156900 8247.8 10202.9 8449.5 10237.3 11206.8 12129.8 10933.8 7882 13195.4 9957.5 FALSE FALSE TRUE 9115.341446 10533.48065 9600.953857 10435.45774 10348.13741 11096.2728 9703.500048 7680.389853 13103.57214 10386.81656 0.877587603 1.014120217 0.92434037 1.004682974 0.99627613 1.068303531 0.934213096 0.739436363 1.261558059 1 13.34246593 -4.276380969 4.537657426 0.961142824 0.72756365 0.278320621 0.108466508 0.10899097 5.643644399 0.008757006 0.078644797 5.29E-05 4.276380969 -0.233579174 QLGKNGDEET(ph)PHK ddPTM_HeLa_SAHA_4h_R1 1 QLGKNGDEETPHK 13 1 Q6ZXV5-2;Q6ZXV5 Q6ZXV5-2 TMTC3 Transmembrane and TPR repeat-containing protein 3 1 0 QLGKNGDEET(1)PHK 80.17 0.020824 3798100 2472.9 3272.8 2056.7 2571.3 3941.8 4731.4 3494.5 3132.4 3371.3 3693.3 TRUE FALSE FALSE 2733.010968 3378.840867 2336.976365 2621.07123 3639.780136 4328.258102 3101.289663 3052.277744 3347.838849 3852.536238 0.709405649 0.877043241 0.606607238 0.680349533 0.944775055 1.123482775 0.804999479 0.792277491 0.86899607 1 11.91159281 -4.551125717 24.98806669 0.853505695 0.795456334 0.020375049 0.146693252 809.6785187 716263.1119 0.023570986 0.088197211 2.81E-05 4.551125717 -0.058049361 QLGQDLLNS(ph)YIENEGK ddPTM_HeLa_SAHA_4h_R1 1 QLGQDLLNSYIENEGK 16 0 O95757;E9PDE8 O95757 HSPA4L Heat shock 70 kDa protein 4L 1 0 QLGQDLLNS(1)YIENEGK 100.77 0.0025237 0 274.12 242.23 243.28 151.92 307 340.5 429.48 233.41 267.18 272.53 TRUE FALSE FALSE 302.9531993 250.0784109 276.4329315 154.8606313 283.4777263 311.4874844 381.1537801 227.4397102 265.3206726 284.280102 1.065685559 0.879690169 0.972396342 0.544746643 0.997177517 1.095706249 1.340768409 0.800054976 0.933307223 1 8.151169312 -7.283480716 24.04515754 1.031018178 0.955477527 0.006137203 0.195051132 1635.449168 1784125.486 0.033700677 0.038559084 5.21E-08 7.283480716 -0.075540651 QLHDDYFYHDEL ddPTM_HeLa_SAHA_4h_R1 4 QLHDDYFYHDEL 12 0 Q14257;Q14257-2;A8MXP8 Q14257 RCN2 Reticulocalbin-2 0 0 ;;; ;;; 160.72 0.00017223 36270100 8656.9 7987.3 8943.8 8583.7 9706.6 2472.33 10667.5 7532.9 9552.5 9272.1 FALSE FALSE TRUE 9567.472461 8246.093761 10162.61449 8749.849926 8962.882405 2261.673575 9467.164825 7340.219326 9486.023375 9671.865608 0.989206514 0.852585643 1.050739836 0.904670338 0.926696334 0.233840467 0.97883544 0.758924868 0.980785276 1 13.23957848 -5.49530711 24.89820926 0.979287972 0.671181189 0.370337701 0.179129352 503.8639533 455007.4594 0.023454703 0.052321965 3.20E-06 5.49530711 -0.308106783 QLHLEGASLELS(ph)DDDTESK ddPTM_HeLa_SAHA_4h_R1 3 QLHLEGASLELSDDDTESK 19 0 P35580;P35580-5;P35580-2;P35580-3;P35580-4 P35580 MYH10 Myosin-10 1 0 QLHLEGASLELS(0.985)DDDT(0.011)ES(0.004)K;QLHLEGASLELS(0.999)DDDT(0.001)ESK;QLHLEGASLELS(1)DDDTESK ;; 188.73 6.46E-14 20982000 3841.47 8370.59 4697.34 7555.36 8814.7 6332.35 7273.31 7954.96 11473.17 8135.42 TRUE FALSE FALSE 4245.53344 8641.802608 5337.469033 7701.604918 8139.31959 5792.798155 6454.898016 7751.483642 11393.32728 8486.17777 0.500288063 1.018338626 0.628960314 0.90754697 0.959126689 0.682615697 0.760636672 0.913424613 1.342574665 1 13.05089919 QLIVGVNK ddPTM_HeLa_SAHA_4h_R1 2 QLIVGVNK 8 0 Q5VTE0;P68104;A0A087WV01;A0A2U3TZH3;Q05639;A0A2R8Y488 Q5VTE0;A0A2U3TZH3 EEF1A1P5;EEF1A1;EEF1A2 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha;Elongation factor 1-alpha 2 0 0 ; ; 155.51 5.79E-07 269470000 23356.5 25162.3 24544.9 22617.9 24929.7 25487.3 28923 22232.8 22826.7 22393.8 FALSE FALSE TRUE 25813.24383 25977.57503 27889.75115 23055.70216 23019.59177 23315.63865 25668.50792 21664.11717 22667.84714 23359.30631 1.105051815 1.11208675 1.193946035 0.987002861 0.985456994 0.99813061 1.098855744 0.927429817 0.970398985 1 14.51170981 QLLDS(ph)DEEQEEDEGR ddPTM_HeLa_SAHA_4h_R1 1 QLLDSDEEQEEDEGR 15 0 Q9UNS1-2;Q9UNS1 Q9UNS1-2 TIMELESS Protein timeless homolog 1 0 QLLDS(1)DEEQEEDEGR 181.86 1.42E-07 28145000 1320.1 1467.3 1180.2 1474.2 1682 1456.5 1414.7 1043 1585.6 1378.6 TRUE FALSE FALSE 1458.954175 1514.841483 1341.03151 1502.735273 1553.125523 1332.398006 1255.514233 1016.32157 1574.565681 1438.038193 1.014544803 1.05340838 0.932542346 1.04498982 1.080030789 0.926538678 0.873074331 0.706741709 1.094940099 1 10.48988628 -4.43585233 1.483339763 1.011486079 0.649088109 0.807318795 0.04909646 0.219772956 0.558725907 0.005767369 0.105585367 3.67E-05 4.43585233 -0.362397971 QLLDS(ph)DEEQEEDEGRNR ddPTM_HeLa_SAHA_4h_R1 1 QLLDSDEEQEEDEGRNR 17 1 Q9UNS1-2;Q9UNS1 Q9UNS1-2 TIMELESS Protein timeless homolog 1 0 QLLDS(1)DEEQEEDEGRNR 95.227 0.0019446 0 300.93 406.35 343.15 418.12 567.89 285.69 288.93 476.66 299.7 450.12 TRUE FALSE FALSE 332.5831981 419.5160066 389.912695 426.2133172 524.3783909 261.3476048 256.418836 464.4677274 297.6143633 469.526876 0.708336871 0.893486674 0.830437436 0.907750629 1.11682295 0.556619052 0.546121743 0.989225007 0.633860123 1 8.875063931 -9.529655936 1.270428933 1.00065899 0.803707908 0 0.203930821 0.718589417 2.065564633 0.122867582 0.02896306 2.95E-10 9.529655936 -0.196951082 QLLHLCLQDGGS(ph)PPGPGDLAEER ddPTM_HeLa_SAHA_4h_R1 1 QLLHLCLQDGGSPPGPGDLAEER 23 0 Q96FS4;F6RY50 Q96FS4 SIPA1 Signal-induced proliferation-associated protein 1 1 0 QLLHLCLQDGGS(1)PPGPGDLAEER 162.81 6.85E-08 14315000 958.53 1115.6 972.23 924.28 1202.5 1307.8 1238.7 1064.3 1413.4 956.15 TRUE FALSE FALSE 1059.352583 1151.746172 1104.720441 942.1707759 1110.36471 1196.368083 1099.318216 1037.076747 1403.564034 997.3743058 1.062141442 1.154778267 1.107628736 0.944651141 1.113287863 1.199517649 1.102212288 1.039806962 1.407259066 1 9.961991227 -8.403412278 0.627510455 1.000394287 1.096108128 0 0.142793076 0.833973784 0.696348225 0.037192074 0.017319807 3.95E-09 8.403412278 0.095713841 QLLLQQQQQQQVSGLKS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 QLLLQQQQQQQVSGLKSPK 19 1 A0A3B3IRY1;A0A087WVT2;A0A3B3IU08;A0A3B3IU15;G5E965;C9J0F0;A0A3B3IST6;A0A3B3IUB6;A0A3B3IRS5;A0A3B3IST0;Q9H334-6;Q9H334-3;Q9H334-7;Q9H334;Q9H334-4;Q9H334-8 A0A3B3IRY1 FOXP1 Forkhead box protein P1 1 0 QLLLQQQQQQQVS(0.111)GLKS(0.889)PK 72.771 0.0046193 0 183.46 142.75 179.74 166.75 115.38 168.49 229.76 151.4 209.24 146.38 TRUE FALSE FALSE 202.7571645 147.3751937 204.2340312 169.9776874 106.5396093 154.1337041 203.9068001 147.5274072 207.7838818 152.6911582 1.327890671 0.965184857 1.337562919 1.113212379 0.697745767 1.009447475 1.335419828 0.966181729 1.360811486 1 7.254472713 -5.985369942 24.98707899 1.157092105 1.011388155 0.171506976 0.192396786 435.1663645 743228.2748 0.029436175 0.053342183 1.03E-06 5.985369942 -0.14570395 QLLLSFKPVMQK ddPTM_HeLa_SAHA_4h_R1 4 QLLLSFKPVMQK 12 1 H0Y3P2;D3DQV9;P78344-2;P78344;H0YE22 H0Y3P2 EIF4G2 Eukaryotic translation initiation factor 4 gamma 2 0 0 ;;; ;;; 118.77 0.0014677 7286300 4964.34 4999.5 5826.16 5573.34 5868.41 4990.64 5930.25 3714.12 3676.86 5482.56 FALSE FALSE TRUE 5486.512058 5161.48708 6620.118743 5681.220055 5418.773694 4565.409395 5262.962662 3619.118188 3651.272432 5718.939993 0.959358214 0.902525133 1.157577934 0.993404383 0.947513648 0.798296433 0.920268908 0.632830244 0.638452657 1 12.48153205 -3.573316773 0.739247764 0.987306253 2.70E-18 0.23994064 0.135384435 3.103823956 0.586174885 0.012465547 3.236554129 0.000267106 3.573316773 -0.987306253 QLLLTADDR ddPTM_HeLa_SAHA_4h_R1 2 QLLLTADDR 9 0 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7;H3BR04;H3BMQ8;H3BU78 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 ; ; 173.37 0.0001338 38830000 7965.1 5239.5 4842.4 6615 6105.2 7919.6 7497.7 5737.3 6948.1 6121.9 FALSE FALSE TRUE 8802.905763 5409.263238 5502.297054 6743.04289 5637.420895 7244.805526 6654.039063 5590.548174 6899.747606 6385.845069 1.378502871 0.847070854 0.86163961 1.055935873 0.88279951 1.134510068 1.041998199 0.875459413 1.080475259 1 12.64066184 -7.247247023 24.80817887 1.178737473 0.964427844 0.323356 0.127962613 712.7493839 1245883.342 0.02726767 0.033308028 5.66E-08 7.247247023 -0.214309629 QLLTLSSELSQAR ddPTM_HeLa_SAHA_4h_R1 2 QLLTLSSELSQAR 13 0 E7EQR4;P15311 E7EQR4 EZR Ezrin 0 0 ; ; 248.19 7.11E-69 3187600 545.86 439.25 528.08 496.14 420.36 645.15 528.69 499.64 490.93 426.25 FALSE FALSE TRUE 603.2760593 453.4819882 600.0439923 505.7435071 388.1521076 590.1795905 469.2004098 486.8599323 487.5135782 444.6277235 1.356811614 1.019913883 1.349542461 1.13745383 0.872982244 1.327356706 1.055265754 1.094983301 1.096453398 1 8.796454096 -5.995919195 24.99100899 1.174736707 1.090301436 0.052298813 0.151331383 327.8493437 2007730.66 0.025425841 0.045947603 1.01E-06 5.995919195 -0.08443527 QLPALDGSLMGPES(ph)PPAQEEEAPVSPHK ddPTM_HeLa_SAHA_4h_R1 1 QLPALDGSLMGPESPPAQEEEAPVSPHK 28 0 A0A494C108;Q8N9T8 A0A494C108 KRI1 Protein KRI1 homolog 1 0 QLPALDGS(0.001)LMGPES(0.999)PPAQEEEAPVSPHK 97.063 1.09E-06 3272400 203.16 548.09 248.31 451.04 491.36 726.94 451.83 531.24 655.46 414.85 TRUE FALSE FALSE 224.5293009 565.8484756 282.1483937 459.7705314 453.712103 665.0006223 400.9888992 517.65165 650.8986005 432.7362137 0.518859513 1.307606014 0.652010127 1.062472973 1.048472692 1.536734392 0.926635873 1.196229097 1.504146359 1 8.757344048 -5.974200045 2.080799577 0.806068464 1.193490208 0 0.3311561 0.308630885 2.680049254 0.041811692 0.082394238 1.06E-06 5.974200045 0.387421744 QLPLEPES(ph)PSGQVGPR ddPTM_HeLa_SAHA_4h_R1 1 QLPLEPESPSGQVGPR 16 0 Q3KQU3-4;Q3KQU3;Q3KQU3-2;C9JIR3;E9PLH3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 QLPLEPES(0.521)PS(0.479)GQVGPR 132.51 0.00012814 17609000 345.41 577.25 320.16 627.42 618.48 580.03 587.87 569.18 791.37 426.39 TRUE FALSE FALSE 381.7418086 595.9532787 363.7897375 639.5646214 571.092196 530.6081808 521.7213204 554.6211998 785.8627917 444.7737596 0.858283117 1.339902065 0.817920863 1.437954932 1.284006045 1.192984454 1.173003823 1.246973743 1.766882094 1 8.796927865 -6.815600274 1.215450015 0.938261623 1.240849197 0 0.309256685 0.318722668 0.939835876 0.029527937 0.04330652 1.53E-07 6.815600274 0.302587573 QLPLEPESPS(ph)GQVGPRPAPPQEESPSSEAK ddPTM_HeLa_SAHA_4h_R1 1 QLPLEPESPSGQVGPRPAPPQEESPSSEAK 30 1 Q3KQU3-4;Q3KQU3;Q3KQU3-2;C9JIR3;E9PLH3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 QLPLEPES(0.387)PS(0.613)GQVGPRPAPPQEESPSSEAK 115.06 3.61E-10 31058000 583.14 516.19 466.64 525.37 437.22 692.68 567.6 648.8 620.17 583.53 TRUE FALSE FALSE 644.4773407 532.9148947 530.231269 535.539296 403.7202981 633.6597671 503.7321542 632.2046355 615.8541865 608.688834 1.058796062 0.875512848 0.871103985 0.879824413 0.663262205 1.041024135 0.827569237 1.038633535 1.011771782 1 9.249561091 -7.254704987 23.60389684 1.027764808 0.879752876 0.279201398 0.101452066 205.9045188 721689.9587 0.015876093 0.019191858 5.56E-08 7.254704987 -0.148011933 QLPPPS(ph)PQLPK ddPTM_HeLa_SAHA_4h_R1 2 QLPPPSPQLPK 11 0 Q14678 Q14678 KANK1 KN motif and ankyrin repeat domain-containing protein 1 1 0 QLPPPS(1)PQLPK;QLPPPS(1)PQLPK ; 110.38 0.0040731 6031800 3879.3 4155.9 4357.7 2912.2 3953.7 3392.7 3863.7 2785.7 4461.2 4534 TRUE FALSE FALSE 4287.342573 4290.553887 4951.544662 2968.569842 3650.76836 3103.622873 3428.946307 2714.445828 4430.154146 4729.482929 0.906514018 0.907193017 1.046952645 0.627673233 0.771917018 0.656228793 0.725015051 0.573941352 0.936710041 1 12.20746675 -6.256483313 24.99999743 0.956520054 0.678749282 0.837485013 0.063495011 126.9117767 640183.1789 0.009686346 0.015742096 5.54E-07 6.256483313 -0.277770772 QLQDEMLR ddPTM_HeLa_SAHA_4h_R1 2 QLQDEMLR 8 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 136.27 0.0077167 12717700 3478.4 3243.2 3141.3 3942.1 3512 3975.7 3499.7 3843.4 3392.7 3493.2 FALSE FALSE TRUE 3844.274071 3348.281808 3569.380005 4018.405046 3242.911319 3636.947993 3105.904545 3745.091393 3369.089924 3643.808947 1.055015268 0.918896094 0.979573863 1.102803441 0.889978417 0.998117093 0.852378539 1.027795762 0.924606634 1 11.8312316 -5.745145911 24.99994274 1.018595113 0.939664661 0.079124636 0.070944366 251.1226393 385308.8383 0.008876903 0.017711578 1.80E-06 5.745145911 -0.078930451 QLS(ph)ALHR ddPTM_HeLa_SAHA_4h_R1 1 QLSALHR 7 0 P61313;E7EX53;A0A2R8Y738;A0A2R8YEM3;E7EQV9;E7ENU7;P61313-2 P61313 RPL15 60S ribosomal protein L15;Ribosomal protein L15 1 0 QLS(1)ALHR 93.178 0.014099 3207700 2460.4 2379.8 2213 2533 3012.7 2947.9 2808.8 2773 2571 2296.5 TRUE FALSE FALSE 2719.196161 2456.907081 2514.576115 2582.029878 2781.867577 2696.722336 2492.746432 2702.070675 2553.108202 2395.513354 1.135120435 1.025628631 1.049702399 1.077860774 1.161282433 1.125738803 1.040589662 1.127971452 1.065787505 1 11.22611914 -5.988048462 24.54472776 1.061116361 1.110763679 0.28556883 0.043151117 282.6656446 580502.0788 0.008495558 0.015390917 1.03E-06 5.988048462 0.049647318 QLS(ph)ESESSLEMDDER ddPTM_HeLa_SAHA_4h_R1 1 QLSESESSLEMDDER 15 0 Q16204 Q16204 CCDC6 Coiled-coil domain-containing protein 6 1 0 QLS(0.997)ES(0.002)ESSLEMDDER 171.71 6.76E-07 4828500 0 114.6 0 0 116.51 209.32 190.89 108.54 197.59 137.56 TRUE FALSE FALSE 0 118.3131152 0 0 107.583029 191.4847584 169.4105548 105.763704 196.2149551 143.4908848 0 0.824534014 0 0 0.749755144 1.334473327 1.180636352 0.737076115 1.367438464 1 7.164815283 -5.520271371 24.89734857 0.460957813 1.085118577 0.218597542 0.455449515 95.5624411 912505.9131 0.065892742 0.133702502 3.02E-06 5.520271371 0.624160764 QLS(ph)GQRFTARDDFAYCLNCFCDLYAK ddPTM_HeLa_SAHA_4h_R1 1 QLSGQRFTARDDFAYCLNCFCDLYAK 26 2 Q14192 Q14192 FHL2 Four and a half LIM domains protein 2 1 0 QLS(0.952)GQRFT(0.048)ARDDFAYCLNCFCDLYAK 43.888 0.016133 28279000 2108.6 1510.2 3241.3 6251.1 1317.4 1520.1 2830.5 4455.1 2310.2 2660.7 TRUE FALSE FALSE 2330.392223 1559.131471 3683.007484 6372.09908 1216.461097 1390.578928 2512.004691 4341.144993 2294.12313 2775.415798 0.83965517 0.561765005 1.327011069 2.295907908 0.438298686 0.50103445 0.905091299 1.564142207 0.826587184 1 11.43848821 -6.736901079 24.97593971 0.894977057 1.14703581 0.09760164 0.513248223 612.2072828 623124.4734 0.083130415 0.117532736 1.83E-07 6.736901079 0.252058753 QLS(ph)LEGSGLGVEDLK ddPTM_HeLa_SAHA_4h_R1 2 QLSLEGSGLGVEDLK 15 0 Q9UMZ2-6;Q9UMZ2-9;Q9UMZ2-4;Q9UMZ2-8;Q9UMZ2-3;Q9UMZ2-7;Q9UMZ2-5;Q9UMZ2 Q9UMZ2-6 SYNRG Synergin gamma 1 0 QLS(0.999)LEGS(0.001)GLGVEDLK;QLS(0.998)LEGS(0.002)GLGVEDLK ; 162.15 6.07E-06 7638200 870.35 1499.77 1016.07 1007.53 1401.76 1661.52 1195.12 895.32 1408.1 1006.57 TRUE FALSE FALSE 961.8974063 1548.363532 1154.534728 1027.0322 1294.357452 1519.949149 1060.641952 872.4190108 1398.300917 1049.968159 0.916120549 1.474676655 1.099590229 0.978155567 1.232758766 1.447614517 1.010165826 0.830900445 1.331755545 1 10.03612986 QLS(ph)LEGSGLGVEDLKDNTPSGK ddPTM_HeLa_SAHA_4h_R1 2 QLSLEGSGLGVEDLKDNTPSGK 22 1 Q9UMZ2-6;Q9UMZ2-9;Q9UMZ2-4;Q9UMZ2-8;Q9UMZ2-3;Q9UMZ2-7;Q9UMZ2-5;Q9UMZ2 Q9UMZ2-6 SYNRG Synergin gamma 1 0 QLS(0.877)LEGS(0.123)GLGVEDLKDNTPSGK;QLS(0.992)LEGS(0.008)GLGVEDLKDNTPSGK ; 99.722 0.00011762 7954200 2973.27 3135.52 2840.24 2569.86 3791.85 3791.36 3720.59 2577.61 2873.65 3412.73 TRUE FALSE FALSE 3286.01218 3237.112905 3227.293116 2619.603356 3501.319272 3468.314798 3301.939421 2511.678469 2853.652036 3559.869492 0.923070969 0.909334714 0.906576245 0.735870616 0.983552706 0.974281447 0.927545077 0.705553525 0.801617037 1 11.79760864 -13.52287874 0.064089163 1.445139886 0.710793755 0 0.104825816 290.8257515 1.457218621 19.89607236 3.354479101 3.00E-14 13.52287874 -0.734346132 QLS(ph)LPLTQSK ddPTM_HeLa_SAHA_4h_R1 1 QLSLPLTQSK 10 0 Q9C0I1-3;Q9C0I1-2;Q9C0I1 Q9C0I1-3 MTMR12 Myotubularin-related protein 12 1 0 QLS(0.923)LPLT(0.075)QS(0.002)K 135.94 0.0013214 40670000 3392.5 3288.2 3317.5 2915.3 3310.4 3273.5 2977.5 2523.2 2491.6 2903 TRUE FALSE FALSE 3749.338715 3394.739837 3769.591623 2971.729847 3056.757867 2994.579384 2642.463864 2458.660198 2474.260753 3028.162537 1.238156364 1.121056019 1.244844548 0.981364049 1.009443129 0.988909726 0.872629468 0.811931383 0.817083206 1 11.56422693 -5.046242895 0.904522092 1.121133413 0.792695218 0.293547061 0.123587002 0.551802782 0.641571236 0.016895968 0.136421934 8.99E-06 5.046242895 -0.328438195 QLS(ph)MSSADSADAKR ddPTM_HeLa_SAHA_4h_R1 2 QLSMSSADSADAKR 14 1 Q5JSZ5;Q5JSZ5-5 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 QLS(0.538)MS(0.405)S(0.055)ADS(0.002)ADAKR;QLS(0.988)MS(0.01)S(0.002)ADSADAKR ; 128.9 0.0013981 14209300 2234.78 2519.58 2252.31 1992.76 2903.4 2950.2 3056.5 2183.09 2156.66 2975 TRUE FALSE FALSE 2469.844414 2601.216045 2559.243077 2031.332751 2680.942119 2698.826363 2712.574576 2127.249719 2141.651627 3103.266809 0.795885293 0.838218627 0.824693213 0.654578828 0.863909642 0.86967268 0.874102919 0.685487214 0.6901281 1 11.59957203 -9.228079158 0.663673844 1.021351332 0.801503086 0 0.119847762 0.61212617 0.414156005 0.078134737 0.015273144 5.91E-10 9.228079158 -0.219848246 QLS(ph)SGVSEIR ddPTM_HeLa_SAHA_4h_R1 2 QLSSGVSEIR 10 0 P04792;F8WE04 P04792 HSPB1 Heat shock protein beta-1 1 0 QLS(0.489)S(0.489)GVS(0.022)EIR;QLS(0.919)S(0.079)GVS(0.002)EIR ; 127.52 0.0019975 4206520000 4449.3 6257.1 4629.8 2869.1 5140.8 6833 6484.1 3345.6 4100.1 4408.9 TRUE FALSE FALSE 4917.297788 6459.834145 5260.725033 2924.635579 4746.913015 6250.789959 5754.492003 3260.024396 4071.56707 4598.989256 1.069212715 1.404620404 1.14388722 0.635930074 1.032164406 1.359166028 1.251251456 0.708856711 0.885317804 1 12.16710111 -8.551854918 1.420049003 1.011945612 1.084836975 0.030174738 0.23896038 1.665343078 6.730241271 0.068613121 0.044509212 2.81E-09 8.551854918 0.072891364 QLS(ph)SSSSYSGDISR ddPTM_HeLa_SAHA_4h_R1 1 QLSSSSSYSGDISR 14 0 A0A0A0MS99;I3L4X2;P33527-8;P33527-6;P33527-7;P33527-5;P33527-4;P33527-2;P33527-3;P33527;P33527-9 A0A0A0MS99 ABCC1 Multidrug resistance-associated protein 1 1 0 QLS(0.446)S(0.446)S(0.032)S(0.019)S(0.019)Y(0.001)S(0.032)GDIS(0.007)R 91.969 0.0080288 4603400 255.51 705.99 721.54 436.82 834.81 536.28 834.35 335.97 400.42 513.7 TRUE FALSE FALSE 282.3857141 728.8645392 819.8677136 445.2752828 770.8470382 490.585927 740.4667421 327.3763739 397.6334446 535.848121 0.526988344 1.360207325 1.530037489 0.830972929 1.438555083 0.915531674 1.381859361 0.610949933 0.74206371 1 9.065680336 -7.25650295 24.99968154 0.776633385 1.165434534 0.269441218 0.29790702 423.3284804 2143874.491 0.050994095 0.061416119 5.54E-08 7.25650295 0.388801149 QLSES(ph)ESSLEMDDER ddPTM_HeLa_SAHA_4h_R1 1 QLSESESSLEMDDER 15 0 Q16204 Q16204 CCDC6 Coiled-coil domain-containing protein 6 1 0 QLSES(0.978)ES(0.011)S(0.011)LEMDDER 142.94 0.00011942 2503300 168.1 372.76 294.93 388.07 367.84 408.38 297.8 357.28 504.1 276.62 TRUE FALSE FALSE 185.7815293 384.8376686 335.1215245 395.581656 339.6561787 373.5837265 264.2907602 348.1412949 500.5919271 288.5464419 0.643853128 1.333711364 1.161412777 1.370946227 1.177128286 1.294709177 0.915938379 1.206534701 1.734874718 1 8.172659731 -7.255944538 24.90878218 0.831819532 1.203895294 0 0.318994915 259.0665463 1174380.762 0.028791831 0.034728067 5.55E-08 7.255944538 0.372075762 QLSES(ph)FK ddPTM_HeLa_SAHA_4h_R1 2 QLSESFK 7 0 Q08945 Q08945 SSRP1 FACT complex subunit SSRP1 1 0 QLS(0.001)ES(0.999)FK;QLS(0.003)ES(0.997)FK ; 101.97 0.01248 44123000 7659.5 8472.2 6783.5 9058.2 10614 11601.7 9732.4 8979.1 11947.3 8976.1 TRUE FALSE FALSE 8465.161353 8746.704839 7707.920053 9233.534559 9800.757613 10613.16989 8637.284738 8749.427624 11864.15777 9363.103599 0.904097799 0.93416726 0.823222767 0.986161742 1.046742409 1.133509822 0.922480954 0.93445806 1.267118071 1 13.19277111 -6.009413262 24.74851356 0.941075701 1.012529301 0 0.124535438 577.7952775 1519095.583 0.011480102 0.020007357 9.79E-07 6.009413262 0.0714536 QLSESES(ph)SLEMDDER ddPTM_HeLa_SAHA_4h_R1 1 QLSESESSLEMDDER 15 0 Q16204 Q16204 CCDC6 Coiled-coil domain-containing protein 6 1 0 QLS(0.043)ES(0.136)ES(0.628)S(0.193)LEMDDER 137.27 0.00018455 3964900 446 843.79 605.08 503.2 747.62 926.58 851.41 566.33 687.89 707.79 TRUE FALSE FALSE 492.9123263 871.1293496 687.5371513 512.9401636 690.3375171 847.6301712 755.607106 551.8440986 683.1029175 738.3062907 0.667625798 1.17990238 0.931235667 0.69475253 0.935028627 1.148073885 1.023433114 0.74744602 0.925229713 1 9.528075641 -5.527906152 24.92309591 0.863517107 0.988616239 0.007803054 0.16696658 260.1435838 1289646.072 0.02715495 0.054457355 2.97E-06 5.527906152 0.125099132 QLSLAAT(ph)AS(ph)PPQAPSPNR ddPTM_HeLa_SAHA_4h_R1 1 QLSLAATASPPQAPSPNR 18 0 Q8NEQ6 Q8NEQ6 C1orf64 Uncharacterized protein C1orf64 2 0 QLS(0.343)LAAT(0.873)AS(0.784)PPQAPSPNR 113.01 0.023283 16608000 506.78 702.7 749.34 856.79 790.5 772.87 852.92 749.09 706.03 626.86 TRUE FALSE FALSE 560.0854456 725.4679411 851.4561528 873.3744094 729.9320608 707.017128 756.9471968 729.9293625 701.1166797 653.8870024 0.856547758 1.109469891 1.302145707 1.335665652 1.116296941 1.081252763 1.157611627 1.116292815 1.072229112 1 9.352897536 -7.093538194 5.034094369 0.932968413 1.184432823 0.480401436 0.093585159 0.114331336 4.706264351 0.016182816 0.020002179 8.06E-08 7.093538194 0.25146441 QLSPEDSSS(ph)PVK ddPTM_HeLa_SAHA_4h_R1 2 QLSPEDSSSPVK 12 0 Q96AY2;Q96AY2-2 Q96AY2 EME1 Crossover junction endonuclease EME1 1 0 QLSPEDSS(0.027)S(0.973)PVK;QLSPEDSS(0.075)S(0.925)PVK ; 198.81 2.97E-10 23879000 5688.4 6766.1 4544.5 5420.8 5796.1 7352.6 5576 4950.7 8828.3 5949 TRUE FALSE FALSE 6286.732011 6985.326079 5163.800793 5525.727423 5352.00407 6726.117115 4948.573805 4824.068263 8766.863142 6205.490504 1.013091875 1.125668644 0.832134187 0.8904578 0.862462696 1.083897737 0.797450871 0.777387099 1.412759094 1 12.59932954 -6.744127922 24.99997466 1.015316504 0.880256369 0.31528537 0.152322971 196.8863963 284328.6254 0.013358851 0.018866975 1.80E-07 6.744127922 -0.135060135 QLSS(ph)GVSEIR ddPTM_HeLa_SAHA_4h_R1 3 QLSSGVSEIR 10 0 P04792;F8WE04 P04792 HSPB1 Heat shock protein beta-1 1 0 QLS(0.08)S(0.74)GVS(0.18)EIR;QLS(0.036)S(0.963)GVS(0.001)EIR;QLS(0.04)S(0.941)GVS(0.019)EIR ;; 148.13 0.00073766 908350000 5883.1 8305.9 7011.3 3483.1 7600.9 8744.5 9265.3 5459.3 4938.9 6424.1 TRUE FALSE FALSE 6501.911451 8575.01661 7966.763451 3550.520437 7018.520684 7999.419405 8222.744059 5319.659011 4904.529793 6701.07439 0.970278954 1.279648025 1.188878527 0.52984346 1.047372447 1.193751769 1.227078462 0.793851657 0.731902007 1 12.71017671 QLSS(ph)TSPLAPYPTSQMVSSDR ddPTM_HeLa_SAHA_4h_R1 1 QLSSTSPLAPYPTSQMVSSDR 21 0 Q6UUV7;Q6UUV7-3 Q6UUV7 CRTC3 CREB-regulated transcription coactivator 3 1 0 QLS(0.042)S(0.855)T(0.103)SPLAPYPTSQMVSSDR 229.37 3.92E-34 7362000 684.46 865.92 681.83 366.08 871.36 900.53 1079.6 411.84 455.37 1048.9 TRUE FALSE FALSE 756.4546432 893.9763762 774.7462416 373.1660078 804.596585 823.7997778 958.1205666 401.3057291 452.2010431 1094.123212 0.691379759 0.817071027 0.708097802 0.341063971 0.735380235 0.752931451 0.875697139 0.366782941 0.413299926 1 10.0955595 -9.329639736 0.406195441 1.112414406 0.64335567 0 0.246619337 1.971964995 0.411240617 0.401614968 0.055505147 4.68E-10 9.329639736 -0.469058736 QLSSGVSEIR ddPTM_HeLa_SAHA_4h_R1 1 QLSSGVSEIR 10 0 P04792;F8WE04 P04792 HSPB1 Heat shock protein beta-1 0 0 97.456 0.021107 1537300 599.62 644.56 739 691.17 768.48 846.97 959.99 538.56 451.87 521.48 FALSE FALSE TRUE 662.6907828 665.4441669 839.7070715 704.5485948 709.5992284 774.8033911 851.9693986 524.784415 448.7253999 543.9635549 1.218263203 1.22332491 1.543682594 1.295212866 1.304497741 1.424366365 1.566225147 0.964741866 0.824918133 1 9.087366185 -8.096550678 0.641209318 1.018143523 1.357021084 0.444870774 0.174119357 0.467799563 0.431312353 0.066894866 0.041465871 8.01E-09 8.096550678 0.338877561 QLSSSSSYS(ph)GDISR ddPTM_HeLa_SAHA_4h_R1 1 QLSSSSSYSGDISR 14 0 A0A0A0MS99;I3L4X2;P33527-8;P33527-6;P33527-7;P33527-5;P33527-4;P33527-2;P33527-3;P33527;P33527-9 A0A0A0MS99 ABCC1 Multidrug resistance-associated protein 1 1 0 QLS(0.033)S(0.067)S(0.14)S(0.033)S(0.067)YS(0.66)GDISR 130.47 0.0004719 5813600 336.02 787.86 686.95 298.44 580.34 491.01 545.46 340.41 268.29 487.46 TRUE FALSE FALSE 371.3641253 813.3871809 780.5639685 304.2167378 535.8744746 449.1731857 484.0834052 331.7028051 266.422948 508.4767862 0.730346272 1.599654504 1.535102466 0.598290317 1.053881886 0.883370093 0.952026559 0.652346015 0.523962854 1 8.990038101 -3.797035796 1.583808958 0.964655333 4.79E-09 0.077872383 0.335972678 9.420602638 8.075294967 0.047001539 20.26127726 0.000159575 3.797035796 -0.964655328 QLSST(ph)SPLAPYPTSQMVSSDR ddPTM_HeLa_SAHA_4h_R1 1 QLSSTSPLAPYPTSQMVSSDR 21 0 Q6UUV7;Q6UUV7-3 Q6UUV7 CRTC3 CREB-regulated transcription coactivator 3 1 0 QLS(0.008)S(0.074)T(0.666)S(0.252)PLAPYPTSQMVSSDR 221.9 2.40E-27 5593700 643.65 581.97 447.5 642.71 572.08 623 517.62 707.37 711.02 495.77 TRUE FALSE FALSE 711.3520602 600.8262098 508.4829695 655.1505814 528.247354 569.9168951 459.3760353 689.2764997 706.0719539 517.1450709 1.375536769 1.161813664 0.983250152 1.266860342 1.021468411 1.102044527 0.888292398 1.332849404 1.365326663 1 9.014425236 -6.978362004 24.75714857 1.182144108 1.092001037 0.109762498 0.158466541 534.2403626 611249.8574 0.028356978 0.037266883 1.05E-07 6.978362004 -0.090143071 QLSSTSPLAPY(ph)PTSQMVSSDR ddPTM_HeLa_SAHA_4h_R1 1 QLSSTSPLAPYPTSQMVSSDR 21 0 Q6UUV7;Q6UUV7-3 Q6UUV7 CRTC3 CREB-regulated transcription coactivator 3 1 0 QLSSTSPLAPY(0.841)PT(0.123)S(0.036)QMVSSDR 177.93 6.14E-10 7263500 658.01 948.64 756.61 512.55 765.33 1146.5 717.02 531.32 606.27 1029.5 TRUE FALSE FALSE 727.2225109 979.3765584 859.7168705 522.4711464 706.6905807 1048.81175 636.3390225 517.7296037 602.0509177 1073.886783 0.677187318 0.911992375 0.80056565 0.486523491 0.658068049 0.976650208 0.592556899 0.482108181 0.560627924 1 10.06862619 -13.52287874 0.185930206 2.325886444 0.628046066 0 0.202444807 44.39959915 0.518934354 21.37765547 0.193570611 3.00E-14 13.52287874 -1.697840377 QLT(ph)QPETHFGR ddPTM_HeLa_SAHA_4h_R1 2 QLTQPETHFGR 11 0 B4DDD6;Q9UJU6-4;Q9UJU6-2;Q9UJU6-3;Q9UJU6-6;H0Y5J4;Q9UJU6-5;Q9UJU6 B4DDD6;H0Y5J4 DBNL Drebrin-like protein 1 0 QLT(0.997)QPET(0.003)HFGR;QLT(0.985)QPET(0.015)HFGR ; 95.981 0.012442 11559600 2910.8 4513.4 2919.8 3064.2 4820.5 3801.6 6379.9 6700.4 9021.1 3344 TRUE FALSE FALSE 3216.971299 4659.637121 3317.695138 3123.512022 4451.154331 3477.682293 5662.016861 6529.01347 8958.321431 3488.176205 0.922250228 1.335837655 0.951126016 0.895457064 1.276069232 0.996991576 1.62320265 1.871755636 2.568196359 1 11.7682572 -4.652401872 2.60618171 1.003929769 1.865694574 0 0.51592173 0.088874185 1.129365691 0.020548993 0.114997686 2.23E-05 4.652401872 0.861764805 QLVAGNS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 QLVAGNSPK 9 0 Q96EU6-2;Q96EU6 Q96EU6-2 RRP36 Ribosomal RNA processing protein 36 homolog 1 0 QLVAGNS(1)PK;QLVAGNS(1)PK;QLVAGNS(1)PK;QLVAGNS(1)PK ;;; 109.16 0.0065374 121953000 18862.7 19028.9 16431.3 18644 18226.5 19040.2 19492.3 19080.5 19883.4 17037.8 TRUE FALSE FALSE 20846.76533 19645.44885 18670.47199 19004.88158 16829.98951 17417.86784 17298.9751 18592.44844 19745.0298 17772.38294 1.172986504 1.105391939 1.050532844 1.069349093 0.946974278 0.980052473 0.973362726 1.046142687 1.110995068 1 14.11734951 -5.86097825 6.158358374 1.082733906 0.985519579 0.505489103 0.047688456 0.198208408 10.46623269 0.010195843 0.018673639 1.38E-06 5.86097825 -0.097214327 QLVHELDEAEYR ddPTM_HeLa_SAHA_4h_R1 3 QLVHELDEAEYR 12 0 H0YKK6;Q06323-3;Q06323;Q06323-2 H0YKK6 PSME1 Proteasome activator complex subunit 1 0 0 ;; ;; 166.24 0.00011978 11446400 3196.13 3309.3 3207.81 3340.95 3064.98 3413.18 3330.47 2880.32 3328.87 3187 FALSE FALSE TRUE 3532.313618 3416.523491 3644.953641 3405.618918 2830.141895 3122.357862 2955.71675 2806.645585 3305.704123 3324.407167 1.062539406 1.027709098 1.096422146 1.024428943 0.851322282 0.939222455 0.88909589 0.844254462 0.994374021 1 11.69888138 -5.789536138 9.982939778 1.03538222 0.885731168 0.808276488 0.036538791 0.120300674 41.35135305 0.005587571 0.010211575 1.62E-06 5.789536138 -0.149651052 QLVYVEQAGSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 QLVYVEQAGSSPK 13 0 Q9C0H5;Q9C0H5-2 Q9C0H5 ARHGAP39 Rho GTPase-activating protein 39 1 0 QLVYVEQAGS(0.035)S(0.965)PK;QLVYVEQAGS(0.039)S(0.961)PK;QLVYVEQAGS(0.206)S(0.794)PK ;; 171.36 2.20E-05 27636900 6501.32 6721.3 7083.8 7061 7107.3 7669.2 7159.1 7383.4 7381.9 6868.7 TRUE FALSE FALSE 7185.158667 6939.07453 8049.143373 7197.675865 6562.740209 7015.741014 6353.539226 7194.543319 7330.528757 7164.843272 1.002835428 0.968489368 1.123422114 1.004582458 0.915964238 0.979189739 0.886765975 1.004145247 1.023124788 1 12.80671943 -5.817272868 9.265024167 1.009068838 0.944632465 0.339555058 0.048954682 0.309053354 48.39173667 0.006804867 0.012369237 1.52E-06 5.817272868 -0.064436373 QLWDS(ph)PETAPAAR ddPTM_HeLa_SAHA_4h_R1 1 QLWDSPETAPAAR 13 0 Q9Y613 Q9Y613 FHOD1 FH1/FH2 domain-containing protein 1 1 0 QLWDS(0.981)PET(0.019)APAAR 125.33 0.00011821 0 510.02 685.39 576.17 558.24 697 876.69 756.67 527.31 624.45 729.55 TRUE FALSE FALSE 563.6662437 707.5970857 654.687447 569.0455424 643.5960106 801.9910799 671.5275002 513.8221737 620.1044016 761.0044708 0.740687164 0.92981988 0.860293825 0.747755847 0.845719093 1.053858565 0.882422543 0.675189428 0.81484988 1 9.571761119 -9.585573106 1.377523992 0.999876347 0.835985366 0 0.115449738 0.490529861 1.671349039 0.073985098 0.017277728 2.60E-10 9.585573106 -0.163890981 QMADTGK(ac)LNTLLQR ddPTM_HeLa_SAHA_4h_R1 2 QMADTGKLNTLLQR 14 1 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;Q5RI18;A0A1W2PP34;A0A1W2PPH7;A0A1W2PPL4;A0A1W2PQL0;A0A1W2PQ74;A0A1W2PQD4;A0A1W2PRZ7;A0A1W2PPE9 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 1 ; QMADTGK(1)LNTLLQR;QMADTGK(1)LNTLLQR 161.87 6.34E-07 2045050 0 0 130.738 374.06 305.8 438.91 146.92 219.72 265.79 70.557 FALSE TRUE FALSE 0 0 148.5542938 381.3004722 282.3696701 401.5123988 130.3881749 214.0998806 263.9403457 73.59905757 0 0 2.018426576 5.180779276 3.836593557 5.45540136 1.771601149 2.909003018 3.586191922 1 6.201615388 -6.518181763 4.633250826 0.485842247 3.804734315 0.42141815 1.413032694 0.082826283 4.661717613 0.165970756 0.245974668 3.03E-07 6.518181763 3.318892069 QMDPLNRPKTEGR ddPTM_HeLa_SAHA_4h_R1 1 QMDPLNRPKTEGR 13 2 O95405-3;O95405-2;O95405 O95405-3 ZFYVE9 Zinc finger FYVE domain-containing protein 9 0 0 79.489 0.015501 50446000 403.41 489.57 584.26 844.78 973.59 1016.7 895 1010.2 405.19 213.47 FALSE FALSE TRUE 445.8425147 505.4323892 663.8799101 861.1319385 898.9937445 930.0714402 794.2922445 984.3605468 402.3702498 222.6737364 2.002223172 2.269833872 2.981401942 3.867236219 4.037268872 4.17683493 3.567067483 4.420640542 1.806994647 1 7.798787597 -6.878453535 0.597543985 1.205835207 4.238922778 0.915817985 0.324431802 0.118352447 0.089734769 0.085229134 0.13660479 1.32E-07 6.878453535 3.033087571 QMGPVT(ph)PT(ph)S(ph)RR ddPTM_HeLa_SAHA_4h_R1 1 QMGPVTPTSRR 11 1 M0R2L7 M0R2L7 ITPKC 3 0 QMGPVT(1)PT(1)S(1)RR 64.798 0.019798 17495000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 QMLDDFGPHR ddPTM_HeLa_SAHA_4h_R1 2 QMLDDFGPHR 10 0 A0A494BZY8;A0A1B0GVZ4;A0A494C0Q8;A0A494C085;P06132 A0A494BZY8 UROD Uroporphyrinogen decarboxylase 0 0 ; ; 121.36 0.014413 6635300 4190.86 3799.13 4431.7 4916.8 4683.2 4240.4 4783.7 3516.6 3239.24 4039.1 FALSE FALSE TRUE 4631.673883 3922.224305 5035.628997 5011.971774 4324.374228 3879.094064 4245.425486 3426.650464 3216.697865 4213.245368 1.099312639 0.930927103 1.195190063 1.189575099 1.026376071 0.920690282 1.007637846 0.813304274 0.763472711 1 12.04071622 -3.922663096 0.93639095 1.057320307 0.556723858 0.151464739 0.125707118 2.7903693 1.209311725 0.013757447 1.644829611 0.000119491 3.922663096 -0.500596449 QMNMS(ph)PPPGNAGPVIMSIEEK ddPTM_HeLa_SAHA_4h_R1 1 QMNMSPPPGNAGPVIMSIEEK 21 0 Q86U42-2;Q86U42;B4DEH8;G3V4T2;Q92843-2 Q86U42-2 PABPN1 Polyadenylate-binding protein 2 1 0 QMNMS(1)PPPGNAGPVIMSIEEK 64.295 0.0033267 2583300 1088 1151.8 964.16 1260.4 1043.8 1359.7 1022.8 1274.1 1267.1 1152.3 TRUE FALSE FALSE 1202.440832 1189.119076 1095.550704 1284.796865 963.8242695 1243.845911 907.7118521 1241.510367 1258.282148 1201.981292 1.000382319 0.989299154 0.911454039 1.068899219 0.801862954 1.034829675 0.755179684 1.032886597 1.046840043 1 10.23119873 -5.773258739 24.99966078 0.996178996 0.904591844 0.213746286 0.090228258 234.2365109 495444.533 0.011245368 0.02050263 1.69E-06 5.773258739 -0.091587152 QMPFT(ph)EMS(ph)EENITIK ddPTM_HeLa_SAHA_4h_R1 1 QMPFTEMSEENITIK 15 0 P43246-2;P43246 P43246-2 MSH2 DNA mismatch repair protein Msh2 2 0 QMPFT(1)EMS(0.962)EENIT(0.038)IK 92.269 0.003182 0 549.21 659.85 1873.5 2434.4 1416.7 2823 1098.8 1112.6 1751.7 2615.8 TRUE FALSE FALSE 606.9784277 681.2295729 2128.810823 2481.521332 1308.152752 2582.464518 975.1601321 1084.141303 1739.509777 2728.579939 0.222452133 0.24966451 0.780190015 0.909455243 0.479426215 0.946450013 0.357387415 0.397328034 0.637514684 1 11.4139346 -9.589627337 1.408243638 0.997658715 0.512332028 0.082450138 0.269126979 0.415863478 1.490664551 0.187482519 0.044480942 2.57E-10 9.589627337 -0.485326687 QMPSESLDPAFS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 QMPSESLDPAFSPR 14 0 Q15018 Q15018 FAM175B BRISC complex subunit Abro1 1 0 QMPSES(0.001)LDPAFS(0.999)PR 119.92 0.00093236 9422300 440.06 693.93 609.65 657.45 643.12 763 795.01 572.45 707.25 683.73 TRUE FALSE FALSE 486.3475299 716.4137873 692.7299271 670.1758954 593.8442845 697.9881075 705.5533824 557.8075579 702.3281897 713.2089464 0.681914511 1.004493551 0.971286087 0.939662772 0.832637178 0.978658654 0.989266029 0.782109592 0.984743942 1 9.47818099 QMQVS(ph)LT(ph)SKK ddPTM_HeLa_SAHA_4h_R1 2 QMQVSLTSKK 10 1 P55085 P55085 F2RL1 "Proteinase-activated receptor 2;Proteinase-activated receptor 2, alternate cleaved 1;Proteinase-activated receptor 2, alternate cleaved 2" 2 0 QMQVS(0.999)LT(0.632)S(0.369)KK;QMQVS(0.998)LT(0.569)S(0.433)KK ; 84.507 0.011178 12819700 1770.48 2197.65 1598.74 1841.99 2130.49 2377.6 2379.91 2287 2578.3 2107.16 TRUE FALSE FALSE 1956.70721 2268.855302 1816.607961 1877.64438 1967.252316 2175.015104 2112.116263 2228.501852 2560.3574 2198.00998 0.890217619 1.032231574 0.826478486 0.854247432 0.895015189 0.989538321 0.960922053 1.01387249 1.164852491 1 11.10198222 -5.230750386 23.11857775 0.933861395 0.985392102 0.005172197 0.09493065 514.219183 387367.822 0.009759941 0.024877839 5.88E-06 5.230750386 0.051530707 QMREEAERTRDELER ddPTM_HeLa_SAHA_4h_R1 1 QMREEAERTRDELER 15 3 A0A5K1VW66;P35240-4;P35240-6;P35240-5;P35240-3;P35240;P35240-2 A0A5K1VW66 NF2 Merlin 0 0 110.98 0.00074119 16527000 1240.7 1228 1254.4 1269.6 1655.6 1662.1 1499.7 2075.4 1462 1486.4 FALSE FALSE TRUE 1371.202519 1267.788006 1425.343099 1294.174944 1528.748286 1520.479729 1330.949809 2022.314273 1451.825823 1550.485978 0.884369506 0.817671378 0.919287965 0.834689873 0.985980078 0.980647197 0.858408156 1.30430994 0.936368238 1 10.59850476 -4.2549989 24.98957436 0.927449691 1.30431011 0.777279374 0.062404961 301.6242942 1170294.78 0.009760062 0.124023742 5.56E-05 4.2549989 0.376860418 QMVIDVLHPGK ddPTM_HeLa_SAHA_4h_R1 1 QMVIDVLHPGK 11 0 E7ETK0;A0A2R8Y849;A0A2R8YD14;P62847-2;P62847-3;P62847;P62847-4 E7ETK0 RPS24 40S ribosomal protein S24 0 0 82.171 0.015229 2045000 1101.1 1233.6 1210.5 994.75 1300.1 1023 1561.2 946.34 1207.3 1328.3 FALSE FALSE TRUE 1216.91875 1273.569449 1375.460636 1014.004825 1200.486619 935.8346448 1385.529667 922.1339931 1198.898301 1385.569514 0.878280547 0.919166766 0.992704171 0.731832517 0.866421069 0.675415153 0.999971242 0.665527052 0.86527474 1 10.43626338 -6.265195795 24.97774951 0.94235976 0.797739364 0.336706318 0.099420852 266.8943158 1774673.847 0.014088376 0.022036066 5.43E-07 6.265195795 -0.144620396 QMWTSNLSK ddPTM_HeLa_SAHA_4h_R1 1 QMWTSNLSK 9 0 Q8NEL0 Q8NEL0 CCDC54 Coiled-coil domain-containing protein 54 0 0 167.9 0.00026281 30659000 611.74 530.11 553.58 488.06 605.58 475.97 568.67 184.55 469.99 432.41 FALSE FALSE TRUE 676.08562 547.2859118 629.0189995 497.507107 559.1805912 435.4146783 504.6817549 179.8294782 466.7193013 451.0533113 1.498904017 1.213350835 1.394555774 1.10298959 1.23972173 0.965328637 1.11889602 0.398687857 1.034732014 1 8.81715415 -4.141926826 1.319469313 1.23599154 8.95E-33 0.648169026 0.168057362 0.987188162 1.207665016 0.029778124 1.755789517 7.21E-05 4.141926826 -1.23599154 QNAPPKGTDTQTPAVLS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 2 QNAPPKGTDTQTPAVLSPSK 20 1 P46087;P46087-4;P46087-2 P46087 NOP2 Probable 28S rRNA (cytosine(4447)-C(5))-methyltransferase 1 0 QNAPPKGTDTQT(0.001)PAVLS(0.963)PS(0.036)K;QNAPPKGTDTQT(0.002)PAVLS(0.861)PS(0.137)K ; 109.41 6.73E-05 8790600 3446.9 2268.27 2685.2 2364.95 2623.4 2784 3009.4 3241.4 2221.32 3315.1 TRUE FALSE FALSE 3809.460757 2341.763436 3051.125072 2410.727027 2422.395659 2546.787538 2670.774392 3158.489681 2205.861653 3458.030185 1.101627387 0.677195777 0.882330376 0.697138804 0.700513162 0.736485051 0.772339815 0.913378286 0.63789543 1 11.75573475 -7.265856006 24.99070462 1.047990714 0.766421191 0 0.150474512 134.6296848 761777.1018 0.013308852 0.015494094 5.42E-08 7.265856006 -0.281569523 QNDTPKGPQPPTVS(ph)PIR ddPTM_HeLa_SAHA_4h_R1 2 QNDTPKGPQPPTVSPIR 17 1 P46087;P46087-4;P46087-2 P46087 NOP2 Probable 28S rRNA (cytosine(4447)-C(5))-methyltransferase 1 0 QNDTPKGPQPPT(0.113)VS(0.887)PIR;QNDTPKGPQPPT(0.368)VS(0.632)PIR ; 84.975 0.00434 28231000 5659.9 2980.2 4667.1 4307.9 4000.1 1853.02 4862.5 5484.1 1856.38 4127.9 TRUE FALSE FALSE 6255.234251 3076.760435 5303.108083 4391.285634 3693.613202 1695.132271 4315.358703 5343.824663 1843.4613 4305.87397 1.452721165 0.71454958 1.231598537 1.019836081 0.857808015 0.393679026 1.002202743 1.241054592 0.428127092 1 12.07209038 -6.354381678 1.230211196 1.191906234 0.861640273 0 0.360927741 0.566991866 1.69692493 0.051264775 0.095674399 4.42E-07 6.354381678 -0.330265961 DGSASAAAK(ac)K(ac)K ddPTM_HeLa_SAHA_4h_R1 1 DGSASAAAKKK 11 2 A0A0R4J2E8;A8MXP9;P43243;D6REM6;B3KM87;P43243-2;Q68E03 A0A0R4J2E8 MATR3;DKFZp686L22104 Matrin-3 0 2 DGSASAAAK(1)K(1)K 113.69 0.00017387 0 425.5 697.82 495.56 627.85 950.05 954.6 1034.3 1047.4 469.37 366.6 FALSE TRUE FALSE 470.2560423 720.4298259 563.092336 640.0029446 877.2573742 873.2627096 917.9178419 1020.609025 466.103616 382.4059201 1.229730027 1.883940044 1.472499003 1.673621958 2.294047577 2.283601439 2.400375605 2.668915336 1.218871339 1 8.578961048 -5.660821629 0.354416686 0.974504977 3.058383271 0.888780667 0.183423598 0.490834008 0.087871316 0.072070998 0.393543176 2.18E-06 5.660821629 2.083878293 QNGDDPLLTYR ddPTM_HeLa_SAHA_4h_R1 1 QNGDDPLLTYR 11 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 189.57 5.27E-06 10878000 573.68 532.94 460.91 621.93 416.73 568.04 723.85 544.72 502.54 578.64 FALSE FALSE TRUE 634.0222945 550.2076057 523.7204145 633.9683545 384.8002374 519.6397963 642.4004929 530.7868511 499.0427832 603.5880022 1.050422295 0.911561535 0.867678636 1.050332929 0.637521349 0.860918034 1.064302953 0.87938602 0.826793742 1 9.237420319 -7.197101539 5.70744195 1.023760378 0.895169161 0 0.127069398 0.245734561 16.03290128 0.018198934 0.022274424 6.35E-08 7.197101539 -0.128591217 QNGSNDSDRYS(ph)DNEEDSKIELK ddPTM_HeLa_SAHA_4h_R1 2 QNGSNDSDRYSDNEEDSKIELK 22 2 P42167;G5E972;H0YJH7;P42167-2;P42167-3 P42167 TMPO "Lamina-associated polypeptide 2, isoforms beta/gamma;Thymopoietin;Thymopentin" 1 0 QNGSNDSDRY(0.106)S(0.894)DNEEDSKIELK;QNGS(0.015)NDS(0.06)DRY(0.412)S(0.512)DNEEDS(0.001)KIELK ; 136.61 2.19E-06 26367000 1638.93 3452.7 2204.24 1770.97 2433.4 2779.87 2648.1 2128.2 2531 2559 TRUE FALSE FALSE 1811.320177 3564.569745 2504.622348 1805.249685 2246.953418 2543.009437 2350.128819 2073.763726 2513.386565 2669.331013 0.67856709 1.335379437 0.938295901 0.676292927 0.841766497 0.952676691 0.880418654 0.776885188 0.941579202 1 11.3822625 QNGSNDSDRYS(ph)DNEEGK ddPTM_HeLa_SAHA_4h_R1 3 QNGSNDSDRYSDNEEGK 17 1 P42166 P42166 TMPO "Lamina-associated polypeptide 2, isoform alpha;Thymopoietin;Thymopentin" 1 0 QNGS(0.002)NDS(0.013)DRY(0.004)S(0.981)DNEEGK;QNGSNDS(0.004)DRYS(0.996)DNEEGK;QNGS(0.007)NDS(0.012)DRY(0.043)S(0.939)DNEEGK ;; 157.84 2.98E-05 30741200 3067.1 4212.44 3067.06 4045.3 4048.84 4963.9 4014.5 3471.5 5775.4 4372.47 TRUE FALSE FALSE 3389.71165 4348.92582 3485.022964 4123.602631 3738.618754 4540.947794 3562.777894 3382.704057 5735.208521 4560.98858 0.743196698 0.953505089 0.764093771 0.904102819 0.819694829 0.995606043 0.781141595 0.741660278 1.25744856 1 12.15513084 -9.553166768 1.312510907 1.000310716 0.831516001 0.408909656 0.118692752 0.39421688 1.213110417 0.059165316 0.013876793 2.80E-10 9.553166768 -0.168794715 QNLWFANPGGSNS(ph)MPSQSR ddPTM_HeLa_SAHA_4h_R1 1 QNLWFANPGGSNSMPSQSR 19 0 M0QZ22;Q5PRF9;M0QX45 M0QZ22 SAMD4B Protein Smaug homolog 2 1 0 QNLWFANPGGS(0.299)NS(0.603)MPS(0.029)QS(0.07)R 81.723 0.0034122 0 170.77 338.61 272.32 272.24 280.86 288.88 286.9 190.31 267.46 276.25 TRUE FALSE FALSE 188.7323721 349.5811862 309.4303514 277.5095989 259.3405675 264.2657988 254.6172569 185.4421458 265.5987241 288.1604894 0.654955759 1.213147531 1.073812555 0.963038338 0.89998656 0.917078533 0.88359531 0.643537725 0.921704168 1 8.170728727 -4.262252848 5.210870165 0.895530542 0.632724253 0.221634091 0.143938904 0.24339972 22.40667387 0.024837937 0.228378841 5.47E-05 4.262252848 -0.262806289 QNPEQS(ph)ADEDAEK ddPTM_HeLa_SAHA_4h_R1 2 QNPEQSADEDAEK 13 0 Q99613-2;Q99613;B5ME19;H3BPE3 Q99613-2 EIF3C;EIF3CL Eukaryotic translation initiation factor 3 subunit C;Eukaryotic translation initiation factor 3 subunit C-like protein 1 0 QNPEQS(1)ADEDAEK;QNPEQS(1)ADEDAEK ; 134.14 0.00059568 9317900 2210.1 3016.5 2313.6 3081.7 3011.8 3382.6 2644.8 2129.65 4243.1 2868.3 TRUE FALSE FALSE 2442.568458 3114.236579 2628.885359 3141.35076 2781.036535 3094.38345 2347.200143 2075.176637 4213.571922 2991.96645 0.816375618 1.040866143 0.878648007 1.049928471 0.929501243 1.034230665 0.784500823 0.693582856 1.408295177 1 11.54687828 -4.579851559 5.621488969 0.935392789 0.713885383 0.206164584 0.167287529 0.112334298 7.191009049 0.012177583 0.048654747 2.63E-05 4.579851559 -0.221507405 QNS(ph)LGCIGECGVDSGFEAPR ddPTM_HeLa_SAHA_4h_R1 1 QNSLGCIGECGVDSGFEAPR 20 0 A1L020 A1L020 MEX3A RNA-binding protein MEX3A 1 0 QNS(1)LGCIGECGVDSGFEAPR 112.57 4.09E-05 0 237.37 193.12 217.02 122.54 168.31 261.33 284.07 121.16 0 195.96 TRUE FALSE FALSE 262.3376657 199.3772147 246.5943554 124.9119389 155.4141242 239.0632138 252.105696 118.0609026 0 204.4087946 1.283397156 0.975384719 1.206378404 0.611088868 0.76031036 1.169534874 1.23334075 0.57757252 0 1 7.675313459 -6.319565157 24.99998022 1.127768727 0.901038409 0 0.416272569 335.9366956 144486.1572 0.034751783 0.053084236 4.79E-07 6.319565157 -0.226730318 QNS(ph)PVTQDGIQESPWQDR ddPTM_HeLa_SAHA_4h_R1 4 QNSPVTQDGIQESPWQDR 18 0 O75815 O75815 BCAR3 Breast cancer anti-estrogen resistance protein 3 1 0 QNS(0.997)PVT(0.003)QDGIQESPWQDR;QNS(0.916)PVT(0.084)QDGIQESPWQDR;QNS(0.981)PVT(0.019)QDGIQESPWQDR;QNS(0.999)PVT(0.001)QDGIQESPWQDR ;;; 227.57 1.18E-28 17452500 3449.21 3802.18 3453.55 3571.64 4188.62 4468.58 4133.55 3706.27 4027.13 3761.28 TRUE FALSE FALSE 3812.013733 3925.373127 3924.181809 3640.774257 3867.688841 4087.831844 3668.432075 3611.46898 3999.104874 3923.447188 0.971598075 1.000490879 1.000187239 0.927952915 0.985788429 1.041898017 0.935002282 0.920483648 1.019283473 1 11.93790607 -4.550671339 24.44633663 0.987052386 0.924113279 0.445038698 0.028834006 92.98314329 81787.75551 0.003694 0.013822256 2.81E-05 4.550671339 -0.062939107 QNS(ph)QLPAQVQNGPSQEELEIQR ddPTM_HeLa_SAHA_4h_R1 1 QNSQLPAQVQNGPSQEELEIQR 22 0 A0A0U1RRM6;Q8N8S7-3;Q8N8S7-2;Q8N8S7;A0A075B6E5;A0A0U1RQP7 A0A0U1RRM6 ENAH Protein enabled homolog 1 0 QNS(1)QLPAQVQNGPSQEELEIQR 124.57 9.56E-06 2422500 1015 1559 1094.7 622.81 1206.3 1737.1 1567.8 839.47 749.16 1268.2 TRUE FALSE FALSE 1121.762357 1609.512623 1243.880015 634.8653881 1113.873555 1589.089307 1391.387018 817.9975729 743.9465346 1322.878308 0.847970936 1.216674741 0.940283023 0.479912161 0.842007574 1.201236196 1.051787613 0.618346803 0.562369592 1 10.36946464 -9.593076657 1.270586089 1.002086214 0.902395723 0 0.257991938 1.949369721 5.444578805 0.174673735 0.03699554 2.55E-10 9.593076657 -0.099690491 QNS(ph)SSSDSGGSIVR ddPTM_HeLa_SAHA_4h_R1 3 QNSSSSDSGGSIVR 14 0 A0A2R8Y4W2;A0A2R8YE63;Q12929-2;Q12929 A0A2R8Y4W2 EPS8 Epidermal growth factor receptor kinase substrate 8 1 0 QNS(0.75)S(0.216)S(0.01)S(0.005)DS(0.019)GGSIVR;QNS(0.863)S(0.006)S(0.013)S(0.026)DS(0.055)GGS(0.037)IVR;QNS(0.327)S(0.327)S(0.327)S(0.017)DS(0.003)GGSIVR ;; 226.74 3.50E-24 39169200 2597.87 2859.78 2486.32 2034.67 2981.44 2853.77 3252.92 2651.32 2824.81 3055 TRUE FALSE FALSE 2871.125886 2952.438748 2825.142741 2074.05398 2753.002711 2610.612741 2886.89288 2583.503073 2805.151917 3186.716001 0.900966978 0.926483172 0.886537345 0.650843683 0.86389961 0.819217257 0.905914703 0.810710171 0.880264171 1 11.63785474 -7.734654055 0.581364694 0.987962715 0.821898887 0.234853742 0.076544601 0.474430448 0.37412445 0.028652515 0.023205383 1.84E-08 7.734654055 -0.166063828 QNS(ph)TGQAQIR ddPTM_HeLa_SAHA_4h_R1 1 QNSTGQAQIR 10 0 Q9UJF2-2;H0Y638;Q9UJF2 Q9UJF2-2 RASAL2 Ras GTPase-activating protein nGAP 1 0 QNS(0.892)T(0.108)GQAQIR 121.21 0.0028958 21267000 1185 1264 1077.4 1113.1 1163.8 1298.5 1703.8 1078.7 900.27 1203.8 TRUE FALSE FALSE 1309.643737 1304.954429 1224.222461 1134.64566 1074.629895 1187.860495 1512.08394 1051.108416 894.0049478 1255.701709 1.042957676 1.039223264 0.974930951 0.9035949 0.855800297 0.945973463 1.20417447 0.837068556 0.711956463 1 10.29427808 -6.624508864 5.363794111 1.02212555 0.956411182 0 0.136422776 0.389306461 17.39256762 0.014751089 0.020966506 2.37E-07 6.624508864 -0.065714369 QNS(ph)TSLTGKPGALPANLDDMK ddPTM_HeLa_SAHA_4h_R1 1 QNSTSLTGKPGALPANLDDMK 21 1 E7ER32;A0A087X287;A0A087WU73;A0A494BZX7;W0Z7M9;B0QY83;A0A499FIJ6;Q969V6 E7ER32 MKL1;mkl1 MKL/myocardin-like protein 1 1 0 QNS(0.869)T(0.046)S(0.05)LT(0.036)GKPGALPANLDDMK 66.587 0.0036747 4438000 665.67 1048.4 709.06 596.18 962.19 755.35 1029 737.96 605.24 637.82 TRUE FALSE FALSE 735.6882248 1082.368848 805.6870042 607.719926 888.4672101 690.9899305 913.2142118 719.0840518 601.0280856 665.3195416 1.105766746 1.626840608 1.210977513 0.913425637 1.33539924 1.038583549 1.372594903 1.080810057 0.903367552 1 9.377903599 -7.503689058 16.03212315 1.0466486 1.226407719 0.215199108 0.192606959 3.939750976 3292.676424 0.031981499 0.034470405 3.14E-08 7.503689058 0.179759119 QNS(ph)VNS(ph)GMLLPMS(ph)KDRMELQK ddPTM_HeLa_SAHA_4h_R1 1 QNSVNSGMLLPMSKDRMELQK 21 2 H3BMS5;Q6ZVD8-3;Q6ZVD8 H3BMS5 PHLPP2 PH domain leucine-rich repeat-containing protein phosphatase 2 3 0 QNS(1)VNS(1)GMLLPMS(1)KDRMELQK 47.68 0.011772 6927300 519.12 646.33 443.07 576.19 641.62 812.4 598.42 655.74 630.72 695.56 TRUE FALSE FALSE 573.7234234 667.2715161 503.4492722 587.3429906 592.4592142 743.1789496 531.0842066 638.9671203 626.3307682 725.5489956 0.790743874 0.919678092 0.693887353 0.809515269 0.81656679 1.024298778 0.731975662 0.880667087 0.863250824 1 9.502929231 -9.356627489 0.954921969 1.005388289 0.83017999 0.074287178 0.097801207 0.536094747 0.831000869 0.067552756 0.015556398 4.40E-10 9.356627489 -0.175208299 QNSSS(ph)SDSGGSIVR ddPTM_HeLa_SAHA_4h_R1 1 QNSSSSDSGGSIVR 14 0 A0A2R8Y4W2;A0A2R8YE63;Q12929-2;Q12929 A0A2R8Y4W2 EPS8 Epidermal growth factor receptor kinase substrate 8 1 0 QNS(0.045)S(0.07)S(0.704)S(0.178)DS(0.002)GGS(0.002)IVR 105.46 0.0030842 25568000 436.07 421.41 301.08 271.9 571.81 502.78 465.37 457.91 521.32 410.67 TRUE FALSE FALSE 481.9378434 435.0639605 342.1096144 277.1630177 527.9980413 459.9403154 413.0053428 446.1973252 517.6920917 428.3759935 1.125034667 1.015612376 0.79861995 0.647008754 1.232557495 1.073683685 0.964118786 1.041602079 1.208499308 1 8.742733822 -10.27493234 4.668794361 0.99866153 1.022394234 0 0.171907222 2.687861687 103.7401663 0.174103199 0.023571092 5.31E-11 10.27493234 0.023732704 QNTAWDTETS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 QNTAWDTETSPR 12 0 Q8NDV7-2;Q8NDV7-6;Q8NDV7-5;Q8NDV7 Q8NDV7-2 TNRC6A Trinucleotide repeat-containing gene 6A protein 1 0 QNTAWDTET(0.004)S(0.996)PR 160.46 0.00016023 9427500 1198.7 1712.7 1253.1 1343.4 1629.1 2039.9 1530.2 1384.7 2285.8 1446.1 TRUE FALSE FALSE 1324.784766 1768.192604 1423.865942 1369.40345 1504.27871 1866.089044 1358.017869 1349.281379 2269.892932 1508.448448 0.878243315 1.172192928 0.94392748 0.907822506 0.997235744 1.237091693 0.90027463 0.894482924 1.504786547 1 10.55884968 GLKK(ac)K(ac)NNTEK ddPTM_HeLa_SAHA_4h_R1 1 GLKKKNNTEK 10 3 Q53T94-2;Q53T94;F8WE32 Q53T94-2 TAF1B TATA box-binding protein-associated factor RNA polymerase I subunit B 0 2 GLK(0.005)K(0.998)K(0.998)NNTEK 84.615 0.0045816 0 166.19 200.89 358.59 1780 2632.8 3875.4 4478.1 4412 799.89 548.85 FALSE TRUE FALSE 183.6706267 207.3989678 407.4567777 1814.454474 2431.075433 3545.194118 3974.212402 4299.147428 794.3235004 572.5136095 0.320814429 0.362260328 0.711697977 3.169277453 4.246319026 6.192331604 6.941690706 7.509249312 1.387431647 1 9.161166178 -5.636456429 1.101213204 0.607758371 7.364962129 0.974054769 0.436025202 0.052188379 0.120970579 0.069931963 0.22943109 2.31E-06 5.636456429 6.757203759 up QNVQVFEFQLTAEDMK ddPTM_HeLa_SAHA_4h_R1 1 QNVQVFEFQLTAEDMK 16 0 A0A0A0MSS8;P42330;S4R3Z2;P42330-2 A0A0A0MSS8 AKR1C3 Aldo-keto reductase family 1 member C3 0 0 109.95 0.0025075 0 1225.1 698.47 987.96 1076 949.93 1189.4 1249.7 952.95 997.04 1185.1 FALSE FALSE TRUE 1353.961639 721.1008863 1122.594044 1096.827536 877.1465686 1088.056429 1109.080467 928.5749189 990.1015175 1236.195461 1.095265014 0.58332271 0.908104001 0.887260608 0.7095533 0.880165365 0.897172415 0.751155419 0.800926349 1 10.27169116 -7.297077208 24.96884047 1.044986273 0.812786749 0.186194372 0.125506527 309.1154761 216574.0599 0.016406626 0.018762073 5.05E-08 7.297077208 -0.232199524 QPAPGGGGGGGPS(ph)PCGPGGGGR ddPTM_HeLa_SAHA_4h_R1 2 QPAPGGGGGGGPSPCGPGGGGR 22 0 Q9H6S0;D6RF50;D6RA70 Q9H6S0 YTHDC2 Probable ATP-dependent RNA helicase YTHDC2 1 0 QPAPGGGGGGGPS(1)PCGPGGGGR;QPAPGGGGGGGPS(1)PCGPGGGGR ; 181.49 6.01E-11 4296300 367.86 299.67 222.53 119.21 388.748 475.12 277.152 326.633 258.55 159.57 TRUE FALSE FALSE 406.5532026 309.3795046 252.8552295 121.5174819 358.9622122 434.637103 245.9661275 318.2782008 256.7507295 166.4498436 2.442496753 1.858695075 1.519107642 0.730054648 2.156578849 2.611219654 1.477719187 1.912156803 1.542511089 1 7.378943705 -9.594184486 1.402188466 1.002291167 1.902357012 0.118658786 0.5303777 0.457678551 1.620871732 0.383205398 0.089822503 2.55E-10 9.594184486 0.900065845 QPAQELS(ph)PTPGGTAHQALK ddPTM_HeLa_SAHA_4h_R1 2 QPAQELSPTPGGTAHQALK 19 0 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 QPAQELS(0.814)PT(0.155)PGGT(0.032)AHQALK;QPAQELS(0.565)PT(0.375)PGGT(0.06)AHQALK ; 124.73 0.0002317 26964000 2332.51 2309.78 2068.3 2167.88 2513.06 2909.8 2924.2 2645.9 2706.9 2593.2 TRUE FALSE FALSE 2577.854104 2384.618388 2350.157153 2209.842452 2320.509886 2661.86867 2595.16132 2578.221709 2688.062463 2705.005543 0.952994019 0.881557671 0.86881787 0.816945628 0.857857719 0.984052945 0.959392237 0.953129917 0.993736397 1 11.40141583 -7.655056601 1.763639464 0.984430337 0.902564233 0.354259812 0.04939764 0.296760029 1.909035136 0.011313006 0.011491124 2.21E-08 7.655056601 -0.081866105 QPCPS(ph)ESDIITEEDK ddPTM_HeLa_SAHA_4h_R1 3 QPCPSESDIITEEDK 15 0 O75475;O75475-3;O75475-2 O75475 PSIP1 PC4 and SFRS1-interacting protein 1 0 QPCPS(0.959)ES(0.039)DIIT(0.002)EEDK;QPCPS(0.928)ES(0.072)DIITEEDK;QPCPS(0.886)ES(0.114)DIITEEDK ;; 155.2 2.54E-05 6606900 1247.81 1937.01 1104.44 1776.03 1829.22 2453.77 1760.08 2059.17 2162.14 1452.46 TRUE FALSE FALSE 1379.060381 1999.770395 1254.947332 1810.407629 1689.065559 2244.694991 1562.031166 2006.499413 2147.093492 1515.082659 0.910221217 1.319908444 0.828302881 1.194923339 1.114833933 1.481566024 1.030987423 1.324349798 1.417146107 1 10.56518079 -6.099496047 0.915705152 0.969462949 1.261296535 0 0.218962755 0.46205349 0.758983205 0.028122481 0.070177281 7.95E-07 6.099496047 0.291833586 QPCPS(ph)ESDIITEEDKSK ddPTM_HeLa_SAHA_4h_R1 4 QPCPSESDIITEEDKSK 17 1 O75475;O75475-3;O75475-2 O75475 PSIP1 PC4 and SFRS1-interacting protein 1 0 QPCPS(0.998)ES(0.002)DIITEEDKSK;QPCPS(0.939)ES(0.061)DIITEEDKSK;QPCPS(0.972)ES(0.028)DIITEEDKSK;QPCPS(0.997)ES(0.003)DIITEEDKSK ;;; 135.23 7.00E-05 60534000 4877.9 4283.96 4727.06 5607 5180.33 6702 6934.9 6406.6 4741.91 4936.7 TRUE FALSE FALSE 5390.979903 4422.763115 5371.239119 5715.531593 4783.414235 6130.951896 6154.5668 6242.728449 4708.910662 5149.545297 1.046884646 0.858864785 1.043051145 1.109909956 0.928900312 1.190581215 1.195167038 1.212287316 0.914432322 1 12.33022933 -5.239383409 21.50190939 1.013037094 1.198927674 0.63306444 0.072411398 65.22156371 63581.88915 0.008967546 0.022821358 5.76E-06 5.239383409 0.185890579 QPGQVIGATTPSTGS(ph)PTNK ddPTM_HeLa_SAHA_4h_R1 3 QPGQVIGATTPSTGSPTNK 19 0 Q9ULM3 Q9ULM3 YEATS2 YEATS domain-containing protein 2 1 0 QPGQVIGAT(0.001)T(0.038)PS(0.04)T(0.157)GS(0.748)PT(0.016)NK;QPGQVIGATTPSTGS(0.999)PTNK;QPGQVIGATTPST(0.001)GS(0.929)PT(0.07)NK ;; 301.72 1.08E-91 16749900 2113.73 2631.83 1723.39 2600.94 2431.28 2329.25 2456.56 1697.55 3355.33 1919.6 TRUE FALSE FALSE 2336.06182 2717.103019 1958.244614 2651.284955 2244.995852 2130.784796 2180.141403 1654.129129 3331.979985 2002.36335 1.166652306 1.356948038 0.977966668 1.324077847 1.121173063 1.064134936 1.088784113 0.826088396 1.664023657 1 10.96748808 -4.046916298 1.943534613 1.113302014 0.590135402 0.122327216 0.210692874 1.587965328 3.771348158 0.0178042 1.804064584 8.98E-05 4.046916298 -0.523166612 QPGVDS(ph)LSPVASLPK ddPTM_HeLa_SAHA_4h_R1 1 QPGVDSLSPVASLPK 15 0 Q9UBW7;A0A087X151;Q9UBW7-2 Q9UBW7 ZMYM2 Zinc finger MYM-type protein 2 1 0 QPGVDS(0.802)LS(0.198)PVASLPK 137.79 0.00017862 2128000 1055.4 921.17 651.37 752.36 983.28 1209.6 1048.8 967.67 1113.9 810.64 TRUE FALSE FALSE 1166.411814 951.0165124 740.1353114 766.9230157 907.9412988 1106.535275 930.7862637 942.9184026 1106.148279 845.5906576 1.379404803 1.124677176 0.875287948 0.906967229 1.073736199 1.30859449 1.100752776 1.115100308 1.308136826 1 9.723815627 -6.999256777 24.99936741 1.182999046 1.063805534 0.186566619 0.145559944 52.28643367 1758643.298 0.02977829 0.038942826 1.00E-07 6.999256777 -0.119193512 QPGVDSLS(ph)PVASLPK ddPTM_HeLa_SAHA_4h_R1 2 QPGVDSLSPVASLPK 15 0 Q9UBW7;A0A087X151;Q9UBW7-2 Q9UBW7 ZMYM2 Zinc finger MYM-type protein 2 1 0 QPGVDS(0.006)LS(0.993)PVAS(0.001)LPK;QPGVDS(0.044)LS(0.956)PVASLPK ; 144.73 0.00010196 7387500 2087.54 2710.44 1763.67 2360.48 2889.76 3479.62 2947.31 2369.97 2771.04 2452.76 TRUE FALSE FALSE 2307.117035 2798.260034 2004.013763 2406.170504 2668.347213 3183.1368 2615.670922 2309.349599 2751.756107 2558.510487 0.901742262 1.093706689 0.783273617 0.94045755 1.042929949 1.244136702 1.022341294 0.902614865 1.075530517 1 11.32108843 -5.70259395 5.542283539 0.949186206 1.066367571 0.111039399 0.113955926 0.244589678 15.11603226 0.015471604 0.031046176 1.98E-06 5.70259395 0.117181365 QPGYQPPNPHPGPSS(ph)PPAAPASK ddPTM_HeLa_SAHA_4h_R1 1 QPGYQPPNPHPGPSSPPAAPASK 23 0 Q9BUL9 Q9BUL9 RPP25 Ribonuclease P protein subunit p25 1 0 QPGYQPPNPHPGPS(0.191)S(0.809)PPAAPASK 76.31 0.0007063 15783000 1457.7 1771 1231.7 1622.7 1589.3 1948.4 1837.8 1256 1691.7 1469.2 TRUE FALSE FALSE 1611.027574 1828.381562 1399.549662 1654.109705 1467.528177 1782.385359 1631.005907 1223.873339 1679.927322 1532.544402 1.051211027 1.193036599 0.913219649 1.079322532 0.957576286 1.163023633 1.064247081 0.798589155 1.096168776 1 10.58171316 -4.257716206 24.60148535 1.038987577 0.798589039 0.454315468 0.082924968 197.8863792 1307495.672 0.010407645 0.102958244 5.52E-05 4.257716206 -0.240398538 QPLLLS(ph)EDEEDTK ddPTM_HeLa_SAHA_4h_R1 2 QPLLLSEDEEDTK 13 0 Q99613-2;Q99613;B5ME19;H3BPE4 Q99613-2 EIF3C;EIF3CL Eukaryotic translation initiation factor 3 subunit C;Eukaryotic translation initiation factor 3 subunit C-like protein 1 0 QPLLLS(0.988)EDEEDT(0.012)K;QPLLLS(1)EDEEDTK ; 161.82 5.48E-05 43400000 2373.13 2211.85 2058.97 2887.5 2068.01 2639.65 2149.83 2634.01 2536.24 2231.94 TRUE FALSE FALSE 2622.746702 2283.515391 2339.555709 2943.391738 1909.559521 2414.73697 1907.92547 2566.635838 2518.590099 2328.169856 1.126527214 0.980819928 1.004890473 1.264251287 0.820197683 1.037182473 0.819495822 1.102426368 1.08178967 1 11.1849806 -5.733997147 24.99968425 1.06277273 0.942470493 0.246267033 0.111201051 253.3310015 230781.5443 0.015217708 0.030429561 1.85E-06 5.733997147 -0.120302237 QPLLLS(ph)EDEEDTKR ddPTM_HeLa_SAHA_4h_R1 10 QPLLLSEDEEDTKR 14 1 Q99613-2;Q99613;B5ME19;H3BPE4 Q99613-2 EIF3C;EIF3CL Eukaryotic translation initiation factor 3 subunit C;Eukaryotic translation initiation factor 3 subunit C-like protein 1 0 QPLLLS(1)EDEEDTKR;QPLLLS(1)EDEEDTKR;QPLLLS(1)EDEEDTKR;QPLLLS(1)EDEEDTKR;QPLLLS(0.656)EDEEDT(0.344)KR;QPLLLS(1)EDEEDTKR;QPLLLS(1)EDEEDTKR;QPLLLS(1)EDEEDTKR;QPLLLS(0.994)EDEEDT(0.006)KR;QPLLLS(1)EDEEDTKR ;;;;;;;;; 160.09 6.86E-06 6202123600 15952.51 21042.64 15365.59 16077.27 17978.1 19446.62 18063.17 18012.55 16362.43 16630.26 TRUE FALSE FALSE 17630.46819 21724.43534 17459.53258 16388.46881 16600.62186 17789.65857 16030.65457 17551.81505 16248.56252 17347.2719 1.01632512 1.252325753 1.006471374 0.944728883 0.956958648 1.025501801 0.924102341 1.011791085 0.936663852 1 14.08242118 -6.517270587 24.99050131 1.031181573 0.972350557 0.153960627 0.081694382 450.3960229 2007013.241 0.012476198 0.017975272 3.04E-07 6.517270587 -0.058831016 QPLSEASNQQPLS(ph)GGEEK ddPTM_HeLa_SAHA_4h_R1 2 QPLSEASNQQPLSGGEEK 18 0 Q9NQW6;Q9NQW6-2;C9JJT6 Q9NQW6 ANLN Actin-binding protein anillin 1 0 QPLSEASNQQPLS(1)GGEEK;QPLSEASNQQPLS(1)GGEEK ; 200.73 2.36E-16 17511800 3153.3 2750.2 2344.6 2680.5 2649.4 3288.1 2701 2785.7 2881.4 2206.6 TRUE FALSE FALSE 3484.978562 2839.308284 2664.109878 2732.384954 2446.403544 3007.935382 2397.076371 2714.445828 2861.348103 2301.737325 1.514064409 1.23355009 1.157434365 1.187096774 1.062850881 1.306810881 1.041420472 1.179303041 1.243125387 1 11.16850749 -6.785520439 5.652222766 1.249168076 1.154420994 0.102497037 0.133589323 0.482503458 44.70185454 0.03215086 0.043324709 1.64E-07 6.785520439 -0.094747082 QPPGPVPT(ph)PPLPSER ddPTM_HeLa_SAHA_4h_R1 1 QPPGPVPTPPLPSER 15 0 J3QRU8;A0A0C4DGN6;Q9Y2X7;Q9Y2X7-3;J3QQI0 J3QRU8 GIT1 ARF GTPase-activating protein GIT1 1 0 QPPGPVPT(0.96)PPLPS(0.04)ER 97.823 0.0091254 3829500 139.87 150.73 125.3 293.49 177.83 236.94 278.46 265.66 259.16 190.75 TRUE FALSE FALSE 154.5821683 155.6137509 142.3752315 299.1709233 164.2047038 216.751379 247.1269479 258.8648019 257.3564845 198.974166 0.776895672 0.782080177 0.715546316 1.503566666 0.825256399 1.089344327 1.242005195 1.300997044 1.293416576 1 7.636437319 -6.285718577 24.99751449 0.869524588 1.168895337 0.268143725 0.222679415 605.5790988 623494.1297 0.028300918 0.043242207 5.18E-07 6.285718577 0.299370749 QPPGTQQSHS(ph)SPGEITSSPQGLDNPALLR ddPTM_HeLa_SAHA_4h_R1 2 QPPGTQQSHSSPGEITSSPQGLDNPALLR 29 0 Q5TDH0-2;Q5TDH0;Q5TDH0-3 Q5TDH0-2 DDI2 Protein DDI1 homolog 2 1 0 QPPGTQQS(0.002)HS(0.499)S(0.499)PGEITSSPQGLDNPALLR;QPPGTQQSHS(0.99)S(0.01)PGEITSSPQGLDNPALLR ; 181.02 1.19E-18 38323000 625.57 763.7 586.92 444.37 690.79 769.71 693.98 763.33 505.43 700.4 TRUE FALSE FALSE 691.3703228 788.4443811 666.9024011 452.9714239 637.8618194 704.1263777 615.8915439 743.8051239 501.9126715 730.5976717 0.946307865 1.079177243 0.912817583 0.620001187 0.873068508 0.963767618 0.842996861 1.0180776 0.686989147 1 9.512933346 -6.527145984 24.94559637 0.982454009 0.858319356 0 0.138621489 126.1773875 737609.6494 0.015941692 0.022598493 2.97E-07 6.527145984 -0.124134653 QPPGVPNGPS(ph)SPTNESAPELPQR ddPTM_HeLa_SAHA_4h_R1 1 QPPGVPNGPSSPTNESAPELPQR 23 0 Q8TF74-2;Q8TF74 Q8TF74-2 WIPF2 WAS/WASL-interacting protein family member 2 1 0 QPPGVPNGPS(0.58)S(0.419)PTNESAPELPQR 93.876 0.0001292 7307700 919.13 1247 737.02 811.78 1128.7 1608.4 1188.1 1655.5 1317.3 1132.5 TRUE FALSE FALSE 1015.808311 1287.403618 837.4572474 827.4931758 1042.21925 1471.355271 1054.411861 1613.154707 1308.132802 1181.327617 0.859887042 1.089793889 0.708911935 0.700477297 0.88224404 1.245509924 0.892565149 1.365543888 1.107341251 1 10.20619341 -5.274187155 24.65876057 0.906181367 1.140342203 0.326590482 0.170322013 556.7760896 1077004.214 0.022409903 0.050421687 5.32E-06 5.274187155 0.234160836 QPS(ph)EEEIIK ddPTM_HeLa_SAHA_4h_R1 5 QPSEEEIIK 9 0 B1AKZ5;Q15121;Q15121-2 B1AKZ5 PEA15 Astrocytic phosphoprotein PEA-15 1 0 QPS(1)EEEIIK;QPS(1)EEEIIK;QPS(1)EEEIIK;QPS(1)EEEIIK;QPS(1)EEEIIK ;;;; 128.21 0.0023348 253581000 9464.9 10568.4 8248.04 8649.58 12306.8 10456.5 12157.9 13281 12716.4 9271.12 TRUE FALSE FALSE 10460.46161 10910.82309 9372.039937 8817.005128 11363.85564 9565.547373 10789.86109 12941.29125 12627.90554 9670.843355 1.081649369 1.128218367 0.969102651 0.911710055 1.175063562 0.989112017 1.115710461 1.33817608 1.30577087 1 13.23942599 -4.302218577 2.776764202 1.038760065 1.379930665 0.308383478 0.111868389 0.197076027 2.172984387 0.010089773 0.145481401 4.99E-05 4.302218577 0.3411706 QPS(ph)GAGLCDISEGTVVPEDR ddPTM_HeLa_SAHA_4h_R1 2 QPSGAGLCDISEGTVVPEDR 20 0 H0Y332;Q5T5C0-3;Q5T5C0-2;Q5T5C0 H0Y332 STXBP5 Syntaxin-binding protein 5 1 0 QPS(1)GAGLCDISEGTVVPEDR;QPS(1)GAGLCDISEGTVVPEDR ; 205.63 2.26E-20 18928100 406.29 177.82 166.72 189.44 462.31 535.08 405.73 318.873 435.65 185.592 TRUE FALSE FALSE 449.0254463 183.5814847 189.4397334 193.1068851 426.8879077 489.4881737 360.0761926 310.7166904 432.6182762 193.5937794 2.31942084 0.94828194 0.978542461 0.99748497 2.205070375 2.528429246 1.859957452 1.604993153 2.234670337 1 7.596888786 -9.664278146 1.516604752 1.000414157 1.764611732 0 0.665535414 0.577153789 2.391021733 0.439388742 0.098821491 2.17E-10 9.664278146 0.764197575 QPS(ph)PIVPALQNK ddPTM_HeLa_SAHA_4h_R1 2 QPSPIVPALQNK 12 0 Q1MSJ5-2;Q1MSJ5-1;Q1MSJ5 Q1MSJ5-2 CSPP1 Centrosome and spindle pole-associated protein 1 1 0 QPS(1)PIVPALQNK;QPS(1)PIVPALQNK ; 134.04 0.00089502 6274900 1471.44 1546.51 1710.99 1797.75 2107.58 1884.3 1892.84 2025.94 1524.41 1136.79 TRUE FALSE FALSE 1626.21281 1596.617939 1944.154807 1832.548051 1946.097676 1723.747039 1679.852662 1974.119388 1513.801507 1185.80258 1.371402658 1.346444986 1.639526544 1.545407373 1.641164987 1.453654316 1.416637718 1.664795997 1.276605003 1 10.21164813 -8.414036563 0.455119019 0.962312843 1.563850056 0.601369663 0.122462312 0.327871218 0.143521966 0.0861726 0.033764937 3.85E-09 8.414036563 0.601537213 QPS(ph)SPYEDKDK ddPTM_HeLa_SAHA_4h_R1 1 QPSSPYEDKDK 11 1 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3;A0A087X1W1 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 QPS(0.819)S(0.181)PYEDKDK 112.5 0.0021166 11446000 2018.2 3876 1819.1 2838.6 3267.7 4168.6 2919.2 2231.3 5962.2 3149.9 TRUE FALSE FALSE 2230.483536 4001.584943 2066.997475 2893.545208 3017.329532 3813.411828 2590.723933 2174.226577 5920.708565 3285.707604 0.678844196 1.217876155 0.629087467 0.880645984 0.918319551 1.16060596 0.7884828 0.661722478 1.801958445 1 11.68198838 -6.006643188 24.26657142 0.858428187 0.895965439 0 0.355147707 1530.224688 5589734.471 0.030438774 0.053709567 9.85E-07 6.006643188 0.037537253 QPSDAS(ph)ETTGLVQR ddPTM_HeLa_SAHA_4h_R1 1 QPSDASETTGLVQR 14 0 O15085;O15085-2 O15085 ARHGEF11 Rho guanine nucleotide exchange factor 11 1 0 QPS(0.145)DAS(0.796)ET(0.057)T(0.002)GLVQR 100.18 0.0026461 0 179.92 254.29 175.64 259.72 201.64 240.01 298.19 147.94 186.4 206.57 TRUE FALSE FALSE 198.8448111 262.5291628 199.5753045 264.7472562 186.1903868 219.5597977 264.6368764 144.155909 185.1028272 215.4762436 0.92281547 1.218367085 0.926205605 1.228660996 0.86408777 1.018951296 1.228148737 0.669010683 0.859040533 1 7.75138501 -3.134223397 16.99884561 0.99305307 1.010547092 0 0.176426538 0 0 0.02001132 0 0.000734136 3.134223397 0.017494022 QPSPS(ph)PSPTER ddPTM_HeLa_SAHA_4h_R1 1 QPSPSPSPTER 11 0 P29590;P29590-4;P29590-5;P29590-9;P29590-3;P29590-8;P29590-14;P29590-10;P29590-11;H3BT57;P29590-12;P29590-13;P29590-2 P29590;P29590-11;P29590-2 PML Protein PML 1 0 QPS(0.031)PS(0.939)PS(0.019)PT(0.012)ER 118.76 0.0022908 16410000 189.2 329.17 295.84 378.04 385.79 450.87 310.26 329.36 280.28 388.61 TRUE FALSE FALSE 209.1009241 339.835324 336.1555345 385.3575109 356.2308535 412.4533395 275.3487282 320.9354481 278.3295087 405.3648789 0.515833845 0.838344271 0.82926655 0.950643558 0.878790621 1.017486617 0.679261432 0.791719917 0.686614759 1 8.663077288 -7.021313092 24.64526874 0.766404048 0.859804174 0.124928637 0.139770724 1740.831979 2012998.878 0.032573202 0.040121863 9.52E-08 7.021313092 0.093400126 QPSQEVK(ac)MEAK ddPTM_HeLa_SAHA_4h_R1 1 QPSQEVKMEAK 11 1 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 0 1 QPSQEVK(1)MEAK 121.68 0.0027222 1183400 186.31 163.11 193.58 259.82 130.99 393.91 285.08 142.72 245.59 296.12 FALSE TRUE FALSE 205.9069406 168.394871 219.9600743 264.8491918 120.9535745 360.3466519 253.0020481 139.0694291 243.8809192 308.8871824 0.666608886 0.545166263 0.712104894 0.857430178 0.391578484 1.166596325 0.819075904 0.450227258 0.789546906 1 8.270936196 -9.232284946 0.974835317 0.999468305 0.710049532 0.080849125 0.218952872 0.673598289 1.152716978 0.134268771 0.037468043 5.86E-10 9.232284946 -0.289418774 QPSS(ph)PGPTPR ddPTM_HeLa_SAHA_4h_R1 2 QPSSPGPTPR 10 0 Q13424-2;Q13424 Q13424-2 SNTA1 Alpha-1-syntrophin 1 0 QPS(0.229)S(0.77)PGPTPR;QPS(0.213)S(0.786)PGPT(0.001)PR ; 113.95 0.0044444 36598000 6352.7 5707.5 5570 6350.8 6321.4 6393.8 6376.3 6356.5 5781 5726.7 TRUE FALSE FALSE 7020.906133 5892.426745 6329.050593 6473.728917 5837.055698 5849.012269 5658.821942 6193.909934 5740.76955 5973.606063 1.175321248 0.986410333 1.059502506 1.083722102 0.97714105 0.979142616 0.947304172 1.036879545 0.961022453 1 12.54438639 -5.759914097 24.98571095 1.074804172 0.981989195 0.063972926 0.064047154 41.38740509 677947.3631 0.010519615 0.020177286 1.74E-06 5.759914097 -0.092814977 QPSS(ph)PSHNTNLR ddPTM_HeLa_SAHA_4h_R1 2 QPSSPSHNTNLR 12 0 J3KPG5;F8VU39;Q9UIF9-2;Q9UIF9-3;Q9UIF9 J3KPG5 BAZ2A Bromodomain adjacent to zinc finger domain protein 2A 1 0 QPS(0.331)S(0.668)PS(0.001)HNTNLR;QPS(0.041)S(0.958)PS(0.001)HNTNLR ; 117.48 0.0016586 5887100 721.2 1009.74 375.72 596.5 1273.13 1922.82 1149.67 1070.73 833.13 801 TRUE FALSE FALSE 797.059125 1042.456239 426.9211649 608.0461201 1175.583054 1758.984919 1020.306106 1043.342277 827.3321805 835.53503 0.953950578 1.247651147 0.510955435 0.727732648 1.406982367 2.105219836 1.221141028 1.248711591 0.990182519 1 9.706556505 -5.636752787 6.099756584 0.946550114 1.53507772 0.497836651 0.290040804 0.137456479 6.855391276 0.041544804 0.083716546 2.31E-06 5.636752787 0.588527606 QPSS(ph)PYEDKDK ddPTM_HeLa_SAHA_4h_R1 3 QPSSPYEDKDK 11 1 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3;A0A087X1W1 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 QPS(0.009)S(0.991)PYEDKDK;QPS(0.063)S(0.936)PYEDKDK;QPS(0.019)S(0.981)PYEDKDK ;; 179.5 0.00014489 61415400 5394.9 7825.4 4454.5 6171.7 7384.8 9735.3 7129.6 6254.1 13250 6442 TRUE FALSE FALSE 5962.360335 8078.948094 5061.536062 6291.162178 6818.978219 8905.797671 6327.358644 6094.129178 13157.79217 6719.746146 0.88728952 1.202269836 0.753233225 0.936220214 1.014767235 1.325317575 0.941606797 0.90689872 1.958078755 1 12.71419102 -5.526936684 21.40771302 0.951057353 1.06692993 0 0.350869793 31.68832127 167173.1398 0.020787615 0.041808971 2.97E-06 5.526936684 0.115872577 QPSSPY(ph)EDKDKDK ddPTM_HeLa_SAHA_4h_R1 1 QPSSPYEDKDKDK 13 2 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3;A0A087X1W1 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 QPS(0.022)S(0.135)PY(0.843)EDKDKDK 85.271 0.014798 11748000 2644.9 3854.4 2141.3 2841 3852.6 4161.5 3501.6 3047.9 5649.4 2996.8 TRUE FALSE FALSE 2923.102717 3979.285089 2433.105213 2895.991663 3557.41462 3806.916788 3107.590752 2969.939131 5610.085365 3126.006714 0.935091631 1.272961146 0.778342926 0.926418888 1.138006072 1.217821053 0.99410879 0.950074457 1.794649173 1 11.61010516 -5.764674132 24.99981997 0.975335882 1.079425783 0 0.291526631 137.3606414 1061604.8 0.01921791 0.0359237 1.72E-06 5.764674132 0.104089901 QPSVETLDS(ph)PTGSHVEWCK ddPTM_HeLa_SAHA_4h_R1 1 QPSVETLDSPTGSHVEWCK 19 0 E9PPP8;Q8NEC6;F8WA39;Q13613-2;Q13613 E9PPP8 MTMR1 Myotubularin-related protein 1 1 0 QPS(0.021)VET(0.12)LDS(0.854)PT(0.005)GSHVEWCK 87.05 0.0022646 7297400 612.91 917.56 964.2 666.39 963.22 1156.1 982.54 1121.2 780.44 946.57 TRUE FALSE FALSE 677.3786859 947.289546 1095.596155 679.2889421 889.4182917 1057.593776 871.9820133 1092.521327 775.0088545 987.3812651 0.686035587 0.959395909 1.109597876 0.687970256 0.90078506 1.071109827 0.883125945 1.106483753 0.784913469 1 9.947463461 -3.220822157 0.567063492 0.866229269 1.646402224 0.176339666 0.137653741 15.51088789 1.42313235 0.029290192 10.45290597 0.00060142 3.220822157 0.780172955 QPTVGGTSS(ph)TPR ddPTM_HeLa_SAHA_4h_R1 1 QPTVGGTSSTPR 12 0 A0A087WY37;F8VWP4;F8W108;F8WCU9;Q68CP9-3;Q68CP9 A0A087WY37 ARID2 AT-rich interactive domain-containing protein 2 1 0 QPTVGGT(0.023)S(0.084)S(0.574)T(0.318)PR 82.202 0.019601 2780700 612.41 872.23 699.24 887.14 952.98 1217.8 900.24 1147.8 1064.9 945.29 TRUE FALSE FALSE 676.8260936 900.4908243 794.5287857 904.3118775 879.9628783 1114.036589 798.9426259 1118.440938 1057.489274 986.046078 0.686404123 0.913234021 0.805772472 0.917109147 0.892415576 1.129801754 0.810248774 1.134268431 1.072454217 1 9.945511255 -5.47336916 9.566097245 0.855806121 1.004815684 0.107421076 0.132748712 0.677574827 127.289293 0.019587315 0.043682931 3.36E-06 5.47336916 0.149009564 SKLNTITPVVGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 SKLNTITPVVGKK 13 2 Q9HCK8-2;Q9HCK8;A0A2R8Y840;A0A2R8YFT4;A0A2R8Y4P3;A0A2R8Y808 Q9HCK8-2 CHD8 Chromodomain-helicase-DNA-binding protein 8 0 1 ; SKLNTITPVVGK(1)K;SKLNTITPVVGK(1)K 127.36 0.00034253 3426300 1406.66 1056.17 1519.72 3955.7 5545.2 7130.9 8059.5 8660.3 1142.46 1180.19 FALSE TRUE FALSE 1554.618953 1090.390601 1726.819527 4032.268294 5120.327974 6523.307203 7152.623849 8438.782066 1134.509528 1231.073767 1.262815434 0.885723204 1.40269379 3.275407537 4.159237336 5.298875973 5.81006926 6.854814305 0.921560965 1 10.2657015 -5.636195703 0.908364664 1.057523161 6.57870473 0.98061981 0.304185336 0.060124945 0.090456003 0.053533822 0.204212085 2.31E-06 5.636195703 5.521181569 up QPVSEPPADQVASDMPHS(ph)PTLR ddPTM_HeLa_SAHA_4h_R1 2 QPVSEPPADQVASDMPHSPTLR 22 0 Q6W2J9-4;Q6W2J9-2;Q6W2J9;H7BYY2;H7C231;H7C2V9 Q6W2J9-4 BCOR BCL-6 corepressor 1 0 QPVSEPPADQVAS(0.001)DMPHS(0.726)PT(0.273)LR;QPVSEPPADQVAS(0.056)DMPHS(0.711)PT(0.233)LR ; 103.42 0.00011972 12866400 2876.1 3906.3 2365.3 3601.7 4529.3 5299.3 3933.4 4518.9 4713.3 3899 TRUE FALSE FALSE 3178.621394 4032.866683 2687.630766 3671.416112 4182.266013 4847.769827 3490.80348 4403.313081 4680.499762 4067.104971 0.781543977 0.991581656 0.660821588 0.902709947 1.028315237 1.19194608 0.858301791 1.082665216 1.150818529 1 11.98978651 -5.773503618 5.476754286 0.882620056 1.039051479 0.130065937 0.146663901 0.188782923 17.17983454 0.019008413 0.03629718 1.68E-06 5.773503618 0.156431423 QQAAYYAQT(ph)SPQGMPQHPPAPQGQ ddPTM_HeLa_SAHA_4h_R1 6 QQAAYYAQTSPQGMPQHPPAPQGQ 24 0 Q96AE4 Q96AE4 FUBP1 Far upstream element-binding protein 1 1 0 QQAAYYAQT(0.5)S(0.5)PQGMPQHPPAPQGQ;QQAAY(0.004)Y(0.019)AQT(0.534)S(0.443)PQGMPQHPPAPQGQ;QQAAYYAQT(0.583)S(0.416)PQGMPQHPPAPQGQ;QQAAY(0.001)Y(0.003)AQT(0.549)S(0.447)PQGMPQHPPAPQGQ;QQAAY(0.001)Y(0.005)AQT(0.55)S(0.444)PQGMPQHPPAPQGQ;QQAAYYAQT(0.5)S(0.5)PQGMPQHPPAPQGQ ;;;;; 90.832 8.88E-05 58141500 8994.45 9905.7 8844.79 9091.52 10230.9 10853 9886.6 9432.1 10103.5 9745.1 TRUE FALSE FALSE 9940.527519 10226.65118 10050.11192 9267.499516 9447.010652 9928.263343 8774.133748 9190.84054 10033.18892 10165.25895 0.977892208 1.006039416 0.988672494 0.911683565 0.929342843 0.976685728 0.863149064 0.904142293 0.987007706 1 13.31135935 -4.992984749 0.423053772 0.995361724 0.847889538 0.606856893 0.028963224 1.451143327 0.264020695 0.007863612 0.097074681 1.02E-05 4.992984749 -0.147472186 QQAAYYAQTS(ph)PQGMPQHPPAPQGQ ddPTM_HeLa_SAHA_4h_R1 2 QQAAYYAQTSPQGMPQHPPAPQGQ 24 0 Q96AE4 Q96AE4 FUBP1 Far upstream element-binding protein 1 1 0 QQAAY(0.007)Y(0.007)AQT(0.231)S(0.754)PQGMPQHPPAPQGQ;QQAAYYAQT(0.138)S(0.862)PQGMPQHPPAPQGQ ; 93.546 5.31E-05 13873000 2575.28 2422.45 3154.1 2634.41 2996.8 3347.1 3032.3 2964.8 2907.3 2650.31 TRUE FALSE FALSE 2846.159766 2500.938969 3583.924322 2685.402815 2767.185831 3061.90825 2691.097623 2888.964709 2887.067863 2764.577834 1.029509725 0.904636845 1.296373094 0.971360901 1.000943362 1.107550025 0.97342082 1.044993081 1.044306956 1 11.43284347 QQADKES(ph)EVSPSR ddPTM_HeLa_SAHA_4h_R1 1 QQADKESEVSPSR 13 1 Q86SQ7-2;Q86SQ7-3;Q86SQ7-4;Q86SQ7 Q86SQ7-2 SDCCAG8 Serologically defined colon cancer antigen 8 1 0 QQADKES(0.613)EVS(0.362)PS(0.026)R 103.3 0.017535 1541600 383.26 590.21 665.87 375.95 518.08 602.92 607.38 749.15 628.56 559.5 TRUE FALSE FALSE 423.5730453 609.3331913 756.6112959 383.2270559 478.3848223 551.5478241 539.0360039 729.9878278 624.1857998 583.6227831 0.725765096 1.044053126 1.29640466 0.656634845 0.819681541 0.945041626 0.923603429 1.250787065 1.069502113 1 9.188892393 -7.22878014 24.9277839 0.870500136 0.978845569 0 0.197412153 1503.23649 1147375.044 0.033559398 0.041100253 5.90E-08 7.22878014 0.108345433 QQADKESEVSPS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 QQADKESEVSPSR 13 1 Q86SQ7-2;Q86SQ7-3;Q86SQ7-4;Q86SQ7 Q86SQ7-2 SDCCAG8 Serologically defined colon cancer antigen 8 1 0 QQADKESEVS(0.339)PS(0.661)R 135.72 0.0024081 1567900 217.79 246.86 191.73 315.58 254.99 242.88 281.43 199.66 263.2 268.53 TRUE FALSE FALSE 240.6981515 254.858426 217.8579659 321.6885072 235.4527213 222.1852576 249.7627557 194.5529863 261.3683698 280.1076425 0.859305906 0.90985888 0.777765162 1.14844602 0.840579426 0.793213836 0.891667052 0.694565077 0.933099745 1 8.129837536 -1 0.030398504 1.478864874 1.60E-09 0.198673115 0.107579542 1410.46463 3.320848154 51.5687459 125.2887308 0.1 1 -1.478864873 QQDLHLES(ph)PQRQPEYSPESPR ddPTM_HeLa_SAHA_4h_R1 1 QQDLHLESPQRQPEYSPESPR 21 1 Q9H6F5 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 1 0 QQDLHLES(0.99)PQRQPEY(0.002)S(0.007)PES(0.001)PR 70.986 0.0016595 11064000 2441.6 2929.7 2446.3 2932.1 3017.5 3129.6 3148 2818.9 3395.4 2680.9 TRUE FALSE FALSE 2698.41869 3024.624202 2779.669024 2988.855035 2786.299802 2862.940473 2793.778755 2746.79662 3371.771135 2796.486719 0.964931702 1.081580035 0.993986135 1.068789283 0.996357245 1.023763301 0.999031655 0.982231241 1.205716842 1 11.44939976 QQDLHLESPQRQPEYS(ph)PESPR ddPTM_HeLa_SAHA_4h_R1 2 QQDLHLESPQRQPEYSPESPR 21 1 Q9H6F5 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 1 0 QQDLHLESPQRQPEY(0.039)S(0.48)PES(0.48)PR;QQDLHLESPQRQPEYS(0.5)PES(0.5)PR ; 99.943 0.00017752 51327000 1222.41 1416.51 993.89 1247.71 1443.05 1367.1 1434.62 1622.5 1264.93 1406.67 TRUE FALSE FALSE 1350.988692 1462.405853 1129.332153 1271.861231 1332.483821 1250.615389 1273.192782 1580.998799 1256.127249 1467.318428 0.920719502 0.996652005 0.769657173 0.866792925 0.908108149 0.852313557 0.867700397 1.077474916 0.856069975 1 10.51896627 -8.473456256 0.647212104 0.996734468 0.89659333 0 0.089923359 0.895964419 0.78102316 0.04286217 0.019064554 3.36E-09 8.473456256 -0.100141138 QQEGFK(ac)GTFPDAR ddPTM_HeLa_SAHA_4h_R1 1 QQEGFKGTFPDAR 13 1 Q15233;Q15233-2 Q15233 NONO Non-POU domain-containing octamer-binding protein 0 1 QQEGFK(1)GTFPDAR 169.89 1.60E-10 1041900 162.38 240.05 130.63 194.77 327.12 201.68 139.23 371.44 156.15 146.9 FALSE TRUE FALSE 179.4598734 247.8277775 148.4315761 198.540055 302.0561363 184.4957294 123.563474 361.9391026 155.0633394 153.2335779 1.171152406 1.617320309 0.968662209 1.295669381 1.971213753 1.204016325 0.806373353 2.362009082 1.011940996 1 7.259588658 -1 0.130020292 0.872887008 3.480055519 0.220237461 0.415561973 99.88554001 0.875886728 1.360689497 47.93320012 0.1 1 2.60716851 QQELTHQEHR ddPTM_HeLa_SAHA_4h_R1 1 QQELTHQEHR 10 0 P18206;P18206-2;P18206-3 P18206 VCL Vinculin 0 0 65.278 0.018416 639160 249.49 279.2 428.66 490 407.68 219.33 582.59 512.93 313.4 353.82 FALSE FALSE TRUE 275.7325029 288.2462632 487.0755524 499.4846586 376.4436465 200.6418501 517.0354399 499.8099933 311.2190239 369.0749118 0.747090886 0.780996632 1.319720027 1.353342215 1.019965418 0.543634486 1.400895654 1.354223702 0.8432408 1 8.527769862 -6.771824338 24.99861333 0.869765638 1.149690113 0.290090043 0.244958818 248.1163462 597263.3192 0.042231905 0.055839525 1.69E-07 6.771824338 0.279924474 QQFILT(ph)SPDGAGTGK ddPTM_HeLa_SAHA_4h_R1 2 QQFILTSPDGAGTGK 15 0 C9JMI6;C9JKS0;P49116;P49116-2 C9JMI6 NR2C2 Nuclear receptor subfamily 2 group C member 2 1 0 QQFILT(0.677)S(0.323)PDGAGTGK;QQFILT(0.623)S(0.377)PDGAGTGK ; 170.11 2.11E-06 2692600 2328.1 2267.8 1694.49 2185.8 2716.4 2606.7 2006.67 2150.8 2445.63 2457.5 TRUE FALSE FALSE 2572.98024 2341.278208 1925.406273 2228.10932 2508.270019 2384.594495 1780.87421 2095.78565 2428.610662 2563.454852 1.00371584 0.913329215 0.75109818 0.869182197 0.978472477 0.930226836 0.694716433 0.817562926 0.947397478 1 11.32387377 -7.080659586 3.908276779 1.001379612 0.844323662 0.396235979 0.078252859 0.157573559 4.529728064 0.013365849 0.016705344 8.31E-08 7.080659586 -0.15705595 QQFILTS(ph)PDGAGTGK ddPTM_HeLa_SAHA_4h_R1 1 QQFILTSPDGAGTGK 15 0 C9JMI6;C9JKS0;P49116;P49116-2 C9JMI6 NR2C2 Nuclear receptor subfamily 2 group C member 2 1 0 QQFILT(0.297)S(0.698)PDGAGT(0.005)GK 123.68 0.00062538 2423300 1161.4 1263.4 926.85 854.97 1270.2 1372.9 1030.2 1060.8 1061.7 890.59 TRUE FALSE FALSE 1283.561381 1304.334989 1053.156291 871.5191807 1172.87755 1255.921196 914.2791847 1033.666272 1054.311543 928.9876933 1.381677486 1.40403904 1.133660111 0.938138564 1.262532926 1.351924471 0.984167165 1.112680264 1.134903671 1 9.859515675 QQFSPS(ph)MTER ddPTM_HeLa_SAHA_4h_R1 2 QQFSPSMTER 10 0 Q8TDB6 Q8TDB6 DTX3L E3 ubiquitin-protein ligase DTX3L 1 0 QQFS(0.119)PS(0.873)MT(0.008)ER;QQFS(0.108)PS(0.861)MT(0.031)ER ; 132.86 0.0014624 10825500 2104.96 2090.04 2184.41 2167.39 1989.14 2653.1 2379.4 2366.44 2397.11 1732.73 TRUE FALSE FALSE 2326.369351 2157.758667 2482.090019 2209.342968 1836.732523 2427.040954 2111.66365 2305.909891 2380.428316 1807.43647 1.287109887 1.193822689 1.373265429 1.222362724 1.016208621 1.342808444 1.168319708 1.275790286 1.31701908 1 10.81972922 -9.33317924 0.971677906 0.994971154 1.235304211 0 0.135536716 0.402424814 0.65756253 0.069384436 0.016818859 4.64E-10 9.33317924 0.240333056 QQGHEPVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 QQGHEPVSPR 10 0 A0A0A0MRT2;Q9BTA9-5;Q9BTA9-2;Q9BTA9 A0A0A0MRT2 WAC WW domain-containing adapter protein with coiled-coil 1 0 QQGHEPVS(1)PR;QQGHEPVS(1)PR ; 81.904 0.019447 17011200 3438.2 4302.4 2773.2 3357.6 4283.2 4625.7 4019.8 3823.1 4841.8 3934.8 TRUE FALSE FALSE 3799.845651 4441.800583 3151.117254 3422.591203 3955.022141 4231.564337 3567.481524 3725.310638 4808.10552 4104.448484 0.925787147 1.082191822 0.767732197 0.833873593 0.963594051 1.030970264 0.869174394 0.907627578 1.171437658 1 12.00297266 -9.053158926 0.427906959 1.016544925 0.915171793 0.211919915 0.10164403 3.410202553 0.932957797 0.152917779 0.029315708 8.85E-10 9.053158926 -0.101373132 QQIGSSAMPYK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 QQIGSSAMPYKR 12 1 A0A1B0GTG9;A0A1B0GWF8;A0A1B0GWJ0;A0A1B0GTJ7;A0A0A6YY92;P30566-2;P30566;A0A096LPA2;A0A096LNY6 A0A1B0GTG9 ADSL Adenylosuccinate lyase 0 1 QQIGSSAMPYK(1)R 102.05 0.0052134 1316100 394.24 383.1 302.29 362.83 334.31 235.75 491.11 336.06 296.97 344.8 FALSE TRUE FALSE 435.707972 395.5126914 343.4845069 369.8530993 308.69524 215.6627737 435.8490103 327.4640718 294.9033616 359.6660154 1.211423803 1.099666564 0.955009626 1.028323732 0.858283037 0.599619548 1.211815939 0.910467094 0.819936688 1 8.490514036 -6.473232137 1.769682932 1.101994757 0.909691047 0.024562979 0.174961229 0.400765902 2.492680353 0.026378545 0.043050487 3.36E-07 6.473232137 -0.192303711 QQLEEEEENFSRPQIDENPLDDNS(ph)EEEMEDAPK ddPTM_HeLa_SAHA_4h_R1 1 QQLEEEEENFSRPQIDENPLDDNSEEEMEDAPK 33 1 Q5F1R6;Q5F1R6-3;Q5F1R6-2;A0A2R8Y534;A0A2R8Y4Q0;A0A2R8Y4N5 Q5F1R6 DNAJC21 DnaJ homolog subfamily C member 21 1 0 QQLEEEEENFS(0.027)RPQIDENPLDDNS(0.973)EEEMEDAPK 41.884 0.018771 6599300 439.49 401.6 377.86 395.98 434.17 413.32 423.4 524.58 513.69 339.43 TRUE FALSE FALSE 485.7175747 414.6121035 429.352793 403.6447655 400.9039884 378.1028107 375.7579177 511.1620032 510.1151895 354.0644884 1.371833636 1.171007308 1.21264009 1.14003177 1.132290872 1.067892497 1.061269712 1.443697462 1.440740899 1 8.467868343 -6.237375623 23.07742363 1.182158078 1.155388902 0 0.154104569 2420.737714 2321509.557 0.024984165 0.041410441 5.79E-07 6.237375623 -0.026769175 QQLLTEEESYALSCEIEAAADAST(ph)TSPKPR ddPTM_HeLa_SAHA_4h_R1 1 QQLLTEEESYALSCEIEAAADASTTSPKPR 30 1 Q9NZL6;Q9NZL6-2 Q9NZL6 RGL1 Ral guanine nucleotide dissociation stimulator-like 1 1 0 QQLLTEEESYALSCEIEAAADAS(0.183)T(0.272)T(0.272)S(0.272)PKPR 108.3 2.76E-09 1621300 202.84 190.42 145.06 316.3 199.63 307.44 296.67 330.47 204.66 212.25 TRUE FALSE FALSE 224.1756419 196.5897329 164.8280214 322.4224439 184.3343925 281.2443824 263.2879108 322.0170559 203.2357544 221.4011362 1.012531578 0.887934616 0.744476854 1.456281794 0.832581059 1.270293311 1.18918952 1.454450783 0.917952626 1 7.790518816 -3.60833435 0.585837101 0.990745969 2.182431438 0.400354907 0.186123864 5.028412012 0.683998089 0.030545071 4.83104866 0.000246414 3.60833435 1.191685469 QQLS(ph)AEELDAQLDAYNAR ddPTM_HeLa_SAHA_4h_R1 1 QQLSAEELDAQLDAYNAR 18 0 E9PB61;Q86V81 E9PB61 ALYREF THO complex subunit 4 1 0 QQLS(1)AEELDAQLDAYNAR 175.16 5.99E-09 8360600 429.56 445.48 392.57 519.54 467.13 460.28 481.17 596.15 634.94 524.11 TRUE FALSE FALSE 474.7430917 459.9138443 446.0673952 529.596448 431.3386003 421.0615545 427.0274852 580.9013462 630.5214008 546.706947 0.8683685 0.841243827 0.815916823 0.968702613 0.78897589 0.770177802 0.781090285 1.062546122 1.153307827 1 9.094623898 -8.955127941 0.640488158 1.008285621 0.852935054 0.370858009 0.100297991 0.863956961 0.616353949 0.072134761 0.019224104 1.11E-09 8.955127941 -0.155350568 QQLS(ph)EEEK ddPTM_HeLa_SAHA_4h_R1 1 QQLSEEEK 8 0 Q8WVC0-2;Q8WVC0 Q8WVC0-2 LEO1 RNA polymerase-associated protein LEO1 1 0 QQLS(1)EEEK 87.568 0.020281 3290300 843.35 1623.8 914.2 1264.5 1322.3 1739 976.39 937.99 2394 1548 TRUE FALSE FALSE 932.0574224 1676.412185 1038.782415 1288.976226 1220.98566 1590.827417 866.5240275 913.997574 2377.339959 1614.741856 0.577217602 1.038192067 0.643311754 0.798255289 0.756149136 0.985189931 0.536633162 0.566033246 1.472272457 1 10.65708783 -9.568331802 1.324663724 1.001043534 0.726397744 0.353923636 0.222935242 0.471284997 1.473132599 0.116438764 0.026883773 2.70E-10 9.568331802 -0.27464579 QQLS(ph)PDRQPQSSGPDR ddPTM_HeLa_SAHA_4h_R1 1 QQLSPDRQPQSSGPDR 16 1 Q9H1H9-3;Q9H1H9-4;Q9H1H9-2;A0A1B0GUA8;Q9H1H9;H0Y307 Q9H1H9-3 KIF13A Kinesin-like protein KIF13A 1 0 QQLS(0.997)PDRQPQS(0.002)S(0.001)GPDR 145.69 0.00040594 2696700 663.97 684.59 463.65 795.53 864.64 797.23 717.6 729.72 633.21 722.02 TRUE FALSE FALSE 733.809411 706.7711652 526.8338074 810.9286335 798.39147 729.3015189 636.8537594 711.054819 628.8034401 753.1498157 0.974320641 0.938420418 0.699507318 1.076716234 1.060069927 0.968335255 0.845587088 0.94410807 0.834898219 1 9.556793062 -7.385123406 3.586626225 0.989032125 0.932892465 0 0.111464228 0.588224392 13.34420201 0.018019325 0.020424618 4.12E-08 7.385123406 -0.05613966 QQLS(ph)PSPGQEAGILPETEK ddPTM_HeLa_SAHA_4h_R1 1 QQLSPSPGQEAGILPETEK 19 0 E5RJM0;B7ZLQ8;Q17RY0-2;Q17RY0 E5RJM0 CPEB4 Cytoplasmic polyadenylation element-binding protein 4 1 0 QQLS(0.671)PS(0.329)PGQEAGILPETEK 148.52 1.85E-10 0 555.76 459.17 516.63 697.76 682.01 792.96 784.1 824.48 483.15 569.56 TRUE FALSE FALSE 614.2173867 474.0474093 587.0336459 711.2661538 629.7545411 725.3953469 695.8710044 803.3909954 479.7877198 594.116519 1.033833208 0.797903095 0.98807831 1.197182928 1.059984904 1.220964783 1.171270251 1.352244837 0.807565022 1 9.214602092 -5.103599512 0.750871339 0.998815063 1.337335694 0.589673302 0.10800893 0.619285139 0.464261032 0.015786983 0.138852252 7.88E-06 5.103599512 0.33852063 QQLSAEELDAQLDAYNAR ddPTM_HeLa_SAHA_4h_R1 1 QQLSAEELDAQLDAYNAR 18 0 E9PB61;Q86V81 E9PB61 ALYREF THO complex subunit 4 0 0 236.03 1.45E-28 4266000 431.16 480.28 470.71 473.9 470.85 449.75 689.54 781.05 399.53 601.29 FALSE FALSE TRUE 476.511387 495.8413871 534.8559074 483.0730198 434.7735747 411.4287698 611.9511444 761.0718719 396.7496382 627.2145545 0.759726291 0.790545091 0.852747921 0.770187835 0.693181578 0.655961771 0.975664771 1.213415515 0.632558086 1 9.292815227 -4.397256427 3.649100838 0.839921624 1.212038123 0.524412577 0.118550749 0.17587468 3.754562841 0.01807159 0.135684772 4.01E-05 4.397256427 0.372116499 QQLSPDRQPQS(ph)SGPDR ddPTM_HeLa_SAHA_4h_R1 1 QQLSPDRQPQSSGPDR 16 1 Q9H1H9-3;Q9H1H9-4;Q9H1H9-2;A0A1B0GUA8;Q9H1H9;H0Y307 Q9H1H9-3 KIF13A Kinesin-like protein KIF13A 1 0 QQLS(0.135)PDRQPQS(0.433)S(0.433)GPDR 128.82 0.0010115 3078000 942.15 884.1 641.31 728 1010.5 993.21 1207.1 851.27 790.19 730.42 TRUE FALSE FALSE 1041.24966 912.7454201 728.704387 742.0914927 933.0757083 908.5829204 1071.273931 829.495746 784.6910035 761.9119808 1.36662723 1.197967013 0.956415446 0.973985856 1.224650264 1.192503784 1.406033713 1.088702851 1.029897184 1 9.573480531 -9.695158107 1.589952766 1.00042346 1.204470336 0.150739969 0.140033326 0.527811851 2.41350322 0.111123279 0.024814986 2.02E-10 9.695158107 0.204046877 QQLSPS(ph)PGQEAGILPETEK ddPTM_HeLa_SAHA_4h_R1 3 QQLSPSPGQEAGILPETEK 19 0 E5RJM0;B7ZLQ8;Q17RY0-2;Q17RY0 E5RJM0 CPEB4 Cytoplasmic polyadenylation element-binding protein 4 1 0 QQLS(0.477)PS(0.523)PGQEAGILPETEK;QQLS(0.327)PS(0.673)PGQEAGILPETEK;QQLS(0.057)PS(0.943)PGQEAGILPETEK ;; 188.56 8.41E-14 11201600 4989.18 4792.2 4719.8 5415.8 5631.7 6495.3 6083.9 6952.3 5290.7 4736 TRUE FALSE FALSE 5513.964844 4947.470424 5362.989764 5520.63064 5200.200363 5941.863898 5399.32356 6774.470233 5253.881588 4940.192137 1.116143804 1.00147328 1.085583235 1.117493103 1.052631197 1.202759677 1.092937969 1.371296914 1.063497419 1 12.27035144 -1 0.597642251 1.054873245 18.60375584 0.71235639 0.055527524 66.69881155 0.479212892 0.010432012 1532.151077 0.1 1 17.54888259 QQPPEPEWIGDGES(ph)TSPSDKVVK ddPTM_HeLa_SAHA_4h_R1 1 QQPPEPEWIGDGESTSPSDKVVK 23 1 Q8NE71;Q5STZ8;Q8NE71-2;A0A0G2JIC2 Q8NE71 ABCF1 ATP-binding cassette sub-family F member 1 1 0 QQPPEPEWIGDGES(0.363)T(0.363)S(0.248)PS(0.026)DKVVK 91.541 0.00010928 92586000 3963.9 2901.6 2906.1 3030.8 3469.1 3866.5 4113.5 4038.7 2995.4 3343.8 TRUE FALSE FALSE 4380.841189 2995.613744 3302.128174 3089.465517 3203.298307 3537.052448 3650.638154 3935.395902 2974.554768 3487.967582 1.255986785 0.858842198 0.946719858 0.885749493 0.918385344 1.014072627 1.046637639 1.12827766 0.852804591 1 11.76817092 -7.255779871 24.98144261 1.120882648 0.969523827 0 0.126597493 480.4442943 2120714.493 0.020290937 0.024489798 5.55E-08 7.255779871 -0.151358821 QQPPEPEWIGDGEST(ph)SPSDKVVK ddPTM_HeLa_SAHA_4h_R1 3 QQPPEPEWIGDGESTSPSDKVVK 23 1 Q8NE71;Q5STZ8;Q8NE71-2;A0A0G2JIC2 Q8NE71 ABCF1 ATP-binding cassette sub-family F member 1 1 0 QQPPEPEWIGDGES(0.163)T(0.682)S(0.152)PS(0.002)DKVVK;QQPPEPEWIGDGES(0.114)T(0.44)S(0.44)PS(0.006)DKVVK;QQPPEPEWIGDGES(0.334)T(0.564)S(0.103)PSDKVVK ;; 119.2 1.33E-05 280814000 8455 6773.6 5904.5 6714.3 7383.9 7385.1 8067.9 8206 6768.7 6714.8 TRUE FALSE FALSE 9344.335693 6993.069084 6709.134511 6844.264986 6818.147177 6755.847933 7160.078658 7996.102402 6721.596066 7004.307889 1.334084087 0.998395444 0.957858309 0.97715079 0.973421969 0.964527551 1.022239281 1.141597789 0.959637436 1 12.77402679 -7.116754019 21.13402083 1.158214656 0.999989444 0.055216661 0.109639127 6.622239705 1178.524625 0.021775327 0.026669256 7.64E-08 7.116754019 -0.158225212 QQQEK(ac)EMK ddPTM_HeLa_SAHA_4h_R1 1 QQQEKEMK 8 1 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 0 1 QQQEK(1)EMK 133.13 0.00045388 1977200 588.25 578.61 484.61 730.77 684.7 690.26 613.19 588.58 732.79 524.46 FALSE TRUE FALSE 650.124834 597.3573436 550.6501271 744.9151101 632.2384339 631.4459647 544.1922474 573.5249759 727.6904547 547.0720372 1.18837153 1.091917157 1.006540436 1.361639893 1.15567675 1.154228185 0.994735995 1.048353666 1.330154724 1 9.095587006 -4.755818122 24.98083672 1.112794091 1.021544815 0.079733383 0.120134578 249.0045843 1106536.838 0.015514587 0.054919355 1.75E-05 4.755818122 -0.091249275 QQS(ph)LPPPK ddPTM_HeLa_SAHA_4h_R1 1 QQSLPPPK 8 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 QQS(1)LPPPK 84.17 0.023558 30931000 3099.9 4932.6 2983.9 1944.3 3779.9 5367.4 4047.8 2527.7 2789.3 3674.4 TRUE FALSE FALSE 3425.961705 5092.419476 3390.530353 1981.934738 3490.284879 4910.067324 3592.330891 2463.045094 2769.889034 3832.821366 0.89384852 1.328634703 0.884604324 0.517095515 0.91063072 1.281058222 0.937254974 0.642619329 0.722676266 1 11.90419105 -6.555817928 24.99962246 0.983057482 0.869830407 0.063017586 0.233844631 478.0641019 362831.3043 0.035620778 0.050375582 2.78E-07 6.555817928 -0.113227076 QQS(ph)PQEPK ddPTM_HeLa_SAHA_4h_R1 2 QQSPQEPK 8 0 Q9UHB6;F8VQE1;Q9UHB6-2;F8VS07;Q9UHB6-3;Q9UHB6-4;Q9UHB6-5 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 QQS(1)PQEPK;QQS(1)PQEPK ; 96.171 0.013674 24315000 4781.7 6123.3 4815.7 6254.3 7664.1 11565 8929.7 6327.9 8213.7 9694.5 TRUE FALSE FALSE 5284.661145 6321.698938 5471.958517 6375.36102 7076.878314 10579.59694 7924.906654 6166.041481 8156.540193 10112.47734 0.522588182 0.625138502 0.541109595 0.630445024 0.699816482 1.0461924 0.783676085 0.609745889 0.806581802 1 13.30384885 -9.500349424 1.265675827 0.99886971 0.671506859 0.216233399 0.152437638 0.391158663 1.127554969 0.109266437 0.026886278 3.16E-10 9.500349424 -0.32736285 QQSHFAMMHGGTGFAGIDSS(ph)SPEVK ddPTM_HeLa_SAHA_4h_R1 1 QQSHFAMMHGGTGFAGIDSSSPEVK 25 0 Q15365 Q15365 PCBP1 Poly(rC)-binding protein 1 1 0 QQSHFAMMHGGTGFAGIDS(0.055)S(0.472)S(0.472)PEVK 111.6 5.87E-07 2873000 694.16 945.09 667.55 566.87 677.32 632.19 678.25 454.36 945.52 981.26 TRUE FALSE FALSE 767.1749337 975.7115361 758.5202375 577.8425886 625.4238879 578.3238554 601.9315249 442.7381291 938.9400493 1023.566921 0.749511261 0.953246452 0.741055833 0.564538162 0.611023935 0.565008348 0.588072468 0.43254439 0.917321604 1 9.999389713 -4.932604339 0.139508038 1.136150203 1.49E-14 0.807482845 0.080013821 6.873348683 0.21047671 0.38093224 1.590154063 1.17E-05 4.932604339 -1.136150203 QQT(ph)EKPESEDEWER ddPTM_HeLa_SAHA_4h_R1 1 QQTEKPESEDEWER 14 1 A2AB15;A0A140T947;O60231 A2AB15 DHX16 Putative pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 1 0 QQT(0.994)EKPES(0.006)EDEWER 153 0.0026691 7117200 835.24 894.63 795.43 921.73 1326 1194.9 988.83 1231.1 1156.5 977.83 TRUE FALSE FALSE 923.0943754 923.616599 903.827058 939.571417 1224.402166 1093.087798 877.5642459 1199.610245 1148.451822 1019.989037 0.905004213 0.905516202 0.886114483 0.921158349 1.200407183 1.071666222 0.860366351 1.176101116 1.125945261 1 9.99433793 -5.845863882 24.99947735 0.942084417 1.061315186 0.215990569 0.107913116 24.51745522 7256.748597 0.013593271 0.024639903 1.43E-06 5.845863882 0.11923077 QQTEKPES(ph)EDEWER ddPTM_HeLa_SAHA_4h_R1 3 QQTEKPESEDEWER 14 1 A2AB15;A0A140T947;O60231 A2AB15 DHX16 Putative pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 1 0 QQT(0.048)EKPES(0.952)EDEWER;QQTEKPES(1)EDEWER;QQTEKPES(1)EDEWER ;; 211.49 1.77E-16 216875000 3994.8 4292.83 3348.36 4658.21 5357.94 5817.31 4940.57 4798.29 4974.23 4629.52 TRUE FALSE FALSE 4414.991393 4431.920509 3804.657063 4748.37639 4947.415795 5321.642461 4384.644061 4675.55669 4939.613928 4829.121264 0.914243224 0.917748855 0.787857015 0.983279593 1.024496078 1.101989818 0.907958989 0.968200307 1.022880491 1 12.23754498 -6.014999433 24.56118995 0.940480027 1.001603772 0.169678054 0.074375988 897.5783291 1469763.952 0.011572947 0.019644329 9.66E-07 6.014999433 0.061123745 QQTEKPES(ph)EDEWERTER ddPTM_HeLa_SAHA_4h_R1 1 QQTEKPESEDEWERTER 17 2 A2AB15;A0A140T947;O60231 A2AB15 DHX16 Putative pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 1 0 QQTEKPES(1)EDEWERTER 96.455 0.0025796 23764000 1224 800.99 836.4 1015.4 1098.5 816.94 1174 1215.8 479.3 734.83 TRUE FALSE FALSE 1352.745936 826.9426015 950.3802362 1035.054535 1014.333167 747.332116 1041.89843 1184.701596 475.9645123 766.5121175 1.764806981 1.078838263 1.239876337 1.350343343 1.323310022 0.974977563 1.359271963 1.545574518 0.620948451 1 9.582164789 QQTS(ph)TPVLTQPGR ddPTM_HeLa_SAHA_4h_R1 1 QQTSTPVLTQPGR 13 0 Q5T5U3;A0A087WW76;A0A452Q6Z5;E7ESW5;A0A1B0GV73;Q5T5U3-3 Q5T5U3 ARHGAP21 Rho GTPase-activating protein 21 1 0 QQTS(0.954)T(0.046)PVLTQPGR 137.09 0.00049392 5989500 1483.2 1313.1 1567.5 1696 1332.9 1652.8 1432.2 1690 1829.7 1661.6 TRUE FALSE FALSE 1639.209781 1355.645302 1781.110737 1728.828532 1230.77349 1511.972142 1271.045087 1646.772247 1816.966969 1733.239708 0.945749035 0.782145306 1.027619393 0.997454954 0.710099985 0.872338739 0.733334853 0.950112232 1.048306798 1 10.75925548 -6.690030598 0.351440317 1.001675256 0.806345167 0.275816405 0.100843685 1.483691235 0.440035256 0.056507273 0.111501212 2.04E-07 6.690030598 -0.195330089 QQTST(ph)PVLTQPGR ddPTM_HeLa_SAHA_4h_R1 1 QQTSTPVLTQPGR 13 0 Q5T5U3;A0A087WW76;A0A452Q6Z5;E7ESW5;A0A1B0GV73;Q5T5U3-3 Q5T5U3 ARHGAP21 Rho GTPase-activating protein 21 1 0 QQT(0.003)S(0.227)T(0.77)PVLTQPGR 153 0.00023049 4425900 1152.5 1552.7 1453.9 1432.5 1254.6 1699.8 1347.6 1392.9 1357.8 1062.5 TRUE FALSE FALSE 1273.725238 1603.008499 1652.02992 1460.228109 1158.472819 1554.967477 1195.964501 1357.271635 1348.350959 1108.309575 1.149250414 1.446354462 1.490585264 1.317527289 1.04526104 1.40300825 1.079088847 1.224632238 1.216583336 1 10.1141452 -7.756925971 1.946819787 1.048909492 1.281127845 0.159298197 0.150191179 0.254263263 2.010339509 0.029995456 0.029391186 1.75E-08 7.756925971 0.232218353 QQVAFYGQTLGQAQAHS(ph)QEQ ddPTM_HeLa_SAHA_4h_R1 1 QQVAFYGQTLGQAQAHSQEQ 20 0 Q96I24;Q96I24-2 Q96I24 FUBP3 Far upstream element-binding protein 3 1 0 QQVAFYGQTLGQAQAHS(1)QEQ 186.36 5.57E-14 4802400 629.41 623.73 443.61 493.48 796.61 574.22 940.71 609.28 637.13 641.05 TRUE FALSE FALSE 695.6142316 643.9392612 504.0628606 503.032019 735.5739139 525.2932255 834.858835 593.6954998 632.6961605 668.6888027 1.040266008 0.962987953 0.753807838 0.752266251 1.100024273 0.785557083 1.248501293 0.887850219 0.946174301 1 9.385191149 -7.006307116 24.65933262 1.018099377 0.924465244 0.041837556 0.14873637 481.8745385 1884024.247 0.02319526 0.02988916 9.86E-08 7.006307116 -0.093634133 QQVEQSSAS(ph)QTGIK ddPTM_HeLa_SAHA_4h_R1 2 QQVEQSSASQTGIK 14 0 F5GWT4;Q9H4A3-2;Q9H4A3;Q9H4A3-5;Q9H4A3-6;Q9H4A3-7;Q9H4A3-4 F5GWT4 WNK1 Serine/threonine-protein kinase WNK1 1 0 QQVEQS(0.109)S(0.031)AS(0.855)QT(0.005)GIK;QQVEQSS(0.003)AS(0.988)QT(0.009)GIK ; 191.89 1.16E-08 8892000 1759.46 2316.59 2115.44 1369.64 1673.53 2383.8 1948.89 1485.38 1201.1 2048.2 TRUE FALSE FALSE 1944.528075 2391.649036 2403.721146 1396.151363 1545.304493 2180.686829 1729.595768 1447.38613 1192.741447 2136.507926 0.91014316 1.119419688 1.125070082 0.653473524 0.723285168 1.02067809 0.809543343 0.677454136 0.558266802 1 11.06103895 -6.260243491 24.99744725 0.982624223 0.789267191 0.160138471 0.177171197 89.35214269 1867709.446 0.018651428 0.029834074 5.49E-07 6.260243491 -0.193357032 QQVSWEQEFLVGSS(ph)PGGSGR ddPTM_HeLa_SAHA_4h_R1 2 QQVSWEQEFLVGSSPGGSGR 20 0 Q9BUA3 Q9BUA3 C11orf84 Uncharacterized protein C11orf84 1 0 QQVSWEQEFLVGS(0.012)S(0.988)PGGSGR;QQVSWEQEFLVGS(0.027)S(0.973)PGGS(0.001)GR ; 265.42 4.55E-64 22343000 2083.96 3093.7 2701.6 2801 3433.3 3470.1 3297.4 2507.96 3524.9 3392.7 TRUE FALSE FALSE 2303.160474 3193.93791 3069.759979 2855.217405 3170.241296 3174.427958 2926.367874 2443.810015 3500.369934 3538.9759 0.650798575 0.902503436 0.867414773 0.806791989 0.89580754 0.896990555 0.826896807 0.690541581 0.989091204 1 11.78911622 -9.66938913 1.534997363 0.999638916 0.799103306 0.40826569 0.083081613 0.346129981 1.472359071 0.069638467 0.015714818 2.14E-10 9.66938913 -0.20053561 QQYESVAAK ddPTM_HeLa_SAHA_4h_R1 1 QQYESVAAK 9 0 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 153.05 2.57E-13 0 937.95 961.67 1127.3 1021.2 997.82 775.3 1174.5 838.91 677.83 703.83 FALSE FALSE TRUE 1036.607884 992.828739 1280.922573 1040.966803 921.3672472 709.2400783 1042.342169 817.4518969 673.1129258 734.1755558 1.41193462 1.35230427 1.744708828 1.417871781 1.25496857 0.966036083 1.419745129 1.113428376 0.916828299 1 9.519981271 -9.285350239 1.022425695 1.000923456 1.34281876 0.357454888 0.198023104 0.553026603 1.039795749 0.135375114 0.036865591 5.18E-10 9.285350239 0.341895304 QREFESR ddPTM_HeLa_SAHA_4h_R1 1 QREFESR 7 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 104.75 0.016479 20987000 489.92 364.03 403.24 846.45 438.18 613.46 839.79 508.38 365.74 522.7 FALSE FALSE TRUE 541.4520334 375.8248108 458.1914472 862.8342637 404.6067431 561.1897568 745.294619 495.3763757 363.1947856 545.236155 0.993059665 0.689288132 0.840354116 1.582496421 0.742076143 1.029259985 1.366920759 0.908553791 0.666123811 1 9.090737421 QRELEIEER ddPTM_HeLa_SAHA_4h_R1 1 QRELEIEER 9 1 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 106.62 0.01109 3551100 565 644.04 780.76 968.9 1122.1 750.59 953.94 648.21 782.9 602.95 FALSE FALSE TRUE 624.4292923 664.9073186 887.1579068 987.6544606 1036.12494 686.6355093 846.6001606 631.6297268 777.4517352 628.9461253 0.99281841 1.057176906 1.41054674 1.570332372 1.647398559 1.091723888 1.346061493 1.004266823 1.236118173 1 9.296792633 -6.833665934 5.123509432 0.998470941 1.357408003 0.292681118 0.196326544 0.136857373 6.621165085 0.029674432 0.039515303 1.47E-07 6.833665934 0.358937062 QRELEQLGR ddPTM_HeLa_SAHA_4h_R1 1 QRELEQLGR 9 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 120.31 0.0054548 4359500 1244.7 1580 1728.4 1937.8 2025.4 2029 2255.7 1898.6 1506.7 1567.3 FALSE FALSE TRUE 1375.623257 1631.193037 1963.937351 1975.308921 1870.21429 1856.117785 2001.882699 1850.036561 1496.214752 1634.873973 0.841424648 0.997748489 1.201277519 1.208233144 1.143950127 1.135327747 1.224487473 1.131608058 0.915186599 1 10.67496371 -6.882152309 4.231122493 0.924866298 1.17458491 0.861375608 0.046961379 0.075537808 2.435360734 0.010571604 0.014074654 1.31E-07 6.882152309 0.249718613 QREMEEQMR ddPTM_HeLa_SAHA_4h_R1 3 QREMEEQMR 9 1 P23246;P23246-2;H0Y9K7 P23246 SFPQ "Splicing factor, proline- and glutamine-rich" 0 0 ;; ;; 121.09 0.0032283 17411900 3010.2 3018.95 3370.16 3323.3 3879.2 3932.2 3325.79 2786.76 2467.28 3108.49 FALSE FALSE TRUE 3326.826647 3116.765961 3829.427854 3387.627277 3581.976534 3597.154438 2951.563356 2715.478714 2450.109998 3242.512216 1.026002811 0.961219497 1.181006454 1.044753898 1.104691762 1.109372671 0.910270543 0.837461367 0.755620899 1 11.66289629 -4.585083271 5.397639004 1.034858687 0.853557208 0.238190868 0.108164496 0.105077688 5.890595112 0.009099043 0.036605199 2.60E-05 4.585083271 -0.181301479 QRGAS(ph)ASSGQHEGR ddPTM_HeLa_SAHA_4h_R1 1 QRGASASSGQHEGR 14 1 C9JC47 C9JC47 FAM157A Putative protein FAM157A 1 0 QRGAS(0.73)AS(0.223)S(0.047)GQHEGR 66.977 0.020313 12629000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 QRGS(ph)LS(ph)PVT(ph)KPR ddPTM_HeLa_SAHA_4h_R1 1 QRGSLSPVTKPR 12 2 F5H4Q7;F5H4P8;H0YFK8;F5H4N6;Q9Y3R0-3;Q9Y3R0-2;Q9Y3R0 F5H4Q7 GRIP1 Glutamate receptor-interacting protein 1 3 0 QRGS(1)LS(1)PVT(1)KPR 86.738 0.0027875 0 570.37 485 394.85 336 562.85 603.83 440.75 450.19 585.59 531.37 TRUE FALSE FALSE 630.3641336 500.7143182 448.6581017 342.5037659 519.7245546 552.3802869 391.15565 438.6747917 581.5148315 554.2799612 1.137266684 0.90335995 0.809443121 0.617925579 0.937657125 0.996572717 0.705700508 0.791431808 1.049135585 1 9.114471041 -7.051321554 3.965125727 1.064374317 0.81240232 0.536622372 0.104647732 0.135004978 4.372129397 0.018883818 0.023797916 8.89E-08 7.051321554 -0.251971997 QRKDLAS(ph)S(ph)DS(ph)RK ddPTM_HeLa_SAHA_4h_R1 1 QRKDLASSDSRK 12 3 A0A1W2PS85;R4GMW8;P28715;A0A494C0S2;A0A494C113;P28715-3 A0A1W2PS85 BIVM-ERCC5;ERCC5 DNA repair protein complementing XP-G cells 3 0 QRKDLAS(1)S(1)DS(1)RK 63.419 0.0076683 0 853.94 749.03 731.97 946.67 962.29 1303.2 691.12 1160.8 1003.5 931 TRUE FALSE FALSE 943.7613272 773.2990635 831.7190597 964.9941668 888.5595481 1192.160028 613.3533587 1131.108417 996.5165618 971.1399662 0.971807731 0.796279723 0.856435827 0.993671562 0.914965483 1.227588267 0.631580802 1.164722343 1.026130729 1 9.92353543 -7.503496948 19.67647758 0.987562888 0.933859433 0.025001465 0.16169289 50.9867825 51768.81257 0.025637975 0.027544258 3.14E-08 7.503496948 -0.053703456 QRLEAEAGR ddPTM_HeLa_SAHA_4h_R1 1 QRLEAEAGR 9 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 96.665 0.019735 4923800 1141.5 1245.1 1096.9 1242.5 1299.7 1355.2 1084.4 1185.5 954.02 1081 FALSE FALSE TRUE 1261.568207 1285.442057 1246.37982 1266.550384 1200.117267 1239.729336 962.380458 1155.176627 947.3808971 1127.6072 1.118801128 1.139973261 1.105331555 1.12321949 1.064304366 1.099433682 0.853471366 1.024449495 0.840169251 1 10.13904888 -4.778127898 24.99801174 1.074429223 0.938960405 0.209556801 0.09239172 150.4039 225293.3528 0.009069061 0.027313149 1.67E-05 4.778127898 -0.135468818 QRNK(ac)QVAMGRK ddPTM_HeLa_SAHA_4h_R1 1 QRNKQVAMGRK 11 3 K7ENH6;K7EKA2;Q15438-3 K7ENH6 CYTH1 0 1 QRNK(1)QVAMGRK 98.582 0.0087594 5187600 640.29 903.2 940.67 1084.7 836.85 739.99 659.66 581.51 402.2 468.55 FALSE TRUE FALSE 707.63864 932.4642726 1068.859609 1105.695937 772.7307338 676.9386889 585.4333207 566.6358162 399.4010575 488.7514835 1.4478496 1.907849498 2.186918393 2.26228661 1.58102995 1.385036592 1.1978139 1.15935365 0.817186384 1 8.932957271 -4.798512148 3.725229241 1.447728689 1.169706752 0.058619683 0.451459528 0.648375306 18.56819521 0.073856076 0.272275799 1.59E-05 4.798512148 -0.278021937 QRNLSGS(ph)T(ph)LY(ph)PVS(ph)NIPR ddPTM_HeLa_SAHA_4h_R1 1 QRNLSGSTLYPVSNIPR 17 1 H0YLX2;A0A669KBM4;Q2KHR2-2;Q2KHR2 H0YLX2 RFX7 DNA-binding protein RFX7 4 0 QRNLS(0.564)GS(0.718)T(0.718)LY(1)PVS(1)NIPR 69.805 0.0047177 0 193.13 294.49 208.09 249.97 279.73 424.55 446.24 169.49 323.73 358.52 TRUE FALSE FALSE 213.4442995 304.0316692 236.4474215 254.8085308 258.2971478 388.3759515 396.0279008 165.1546912 321.4771366 373.9775518 0.57074094 0.812967698 0.632250306 0.681347128 0.690675541 1.038500706 1.058961691 0.44161659 0.859616132 1 8.546807864 -4.226397458 23.16988791 0.79788645 0.441614564 0.309413825 0.165846139 7996.470616 5287054.932 0.027913484 6.443285576 5.94E-05 4.226397458 -0.356271886 QRPDLGS(ph)AQK ddPTM_HeLa_SAHA_4h_R1 2 QRPDLGSAQK 10 1 A0A3B3ITP6;A0A3B3IT92;P33991;A0A3B3IS57;A0A3B3IU45;E5RFR3 A0A3B3ITP6 MCM4 DNA replication licensing factor MCM4 1 0 QRPDLGS(1)AQK;QRPDLGS(1)AQK ; 156 0.0014671 132966000 9625.5 10116.5 8784.7 9426.1 10905.5 10894.4 10755.3 9895.3 9852 10603 TRUE FALSE FALSE 10637.95425 10444.28124 9981.833167 9608.555796 10069.92295 9966.13583 9545.085338 9642.192554 9783.43913 11060.14722 0.961827546 0.944316656 0.902504548 0.868754783 0.91046916 0.901085278 0.86301612 0.871796041 0.884566809 1 13.43308297 -7.058320758 0.608374993 0.993672407 0.874980172 0.222515107 0.037521272 0.156499227 0.124968948 0.004850902 0.006736171 8.74E-08 7.058320758 -0.118692235 QRPVPQPSSAS(ph)LDEYTLMR ddPTM_HeLa_SAHA_4h_R1 2 QRPVPQPSSASLDEYTLMR 19 1 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 QRPVPQPS(0.044)S(0.24)AS(0.716)LDEYTLMR;QRPVPQPS(0.002)S(0.084)AS(0.911)LDEYT(0.002)LMR ; 176.68 1.57E-08 17989200 778.72 593.94 735.44 449.5 901.5 915.82 888.93 688.94 646.71 1004.03 TRUE FALSE FALSE 860.6293425 613.1840457 835.6619332 458.2007225 832.4272648 837.7869837 788.9052569 671.3179124 642.2094925 1047.318647 0.821745459 0.585479928 0.797906096 0.437498868 0.794817573 0.799935136 0.753261922 0.640987262 0.613193983 1 10.03248473 -8.036976265 0.908847464 0.969192573 0.692737304 0 0.158851962 0.283102037 0.500573287 0.033404584 0.02516506 9.18E-09 8.036976265 -0.276455269 QRQPS(ph)EGSSSREEEGPSTSCILESLFR ddPTM_HeLa_SAHA_4h_R1 2 QRQPSEGSSSREEEGPSTSCILESLFR 27 2 P43355 P43355 MAGEA1 Melanoma-associated antigen 1 1 0 QRQPS(0.425)EGS(0.075)S(0.075)S(0.425)REEEGPSTSCILESLFR;QRQPS(0.839)EGS(0.053)S(0.053)S(0.053)REEEGPS(0.001)T(0.001)S(0.001)CILESLFR ; 53.865 0.0051591 8257800 152.35 468.43 269.92 273.378 361.727 714.69 510.44 390.42 358.47 141.76 TRUE FALSE FALSE 168.374872 483.6074393 306.7032919 278.6696265 334.0115554 653.7943913 453.0039478 380.4336217 355.9753781 147.8719674 1.138653086 3.27044705 2.074113826 1.884533164 2.258788879 4.42135452 3.063487664 2.572723069 2.40732158 1 7.208204771 -6.804241303 0.551624163 0.932416536 3.229895274 0.205163726 0.857714238 0.432267481 0.282014548 0.222032152 0.383997633 1.57E-07 6.804241303 2.297478738 QRS(ph)APDLK ddPTM_HeLa_SAHA_4h_R1 1 QRSAPDLK 8 1 O43896 O43896 KIF1C Kinesin-like protein KIF1C 1 0 QRS(1)APDLK 72.531 0.021186 18277000 3640.9 3926.9 2907.2 3351.8 3950.5 3919.7 4088.8 3818.9 3988 3236.2 TRUE FALSE FALSE 4023.866567 4054.134137 3303.378076 3416.678936 3647.813543 3585.719508 3628.717463 3721.218068 3960.247183 3375.72842 1.191999494 1.200965727 0.978567487 1.012130868 1.080600419 1.062206156 1.074943542 1.102345214 1.173153373 1 11.72098313 -6.741479245 24.99992329 1.101472234 1.05283013 0.22472503 0.066708458 559.2589939 700465.8614 0.013675367 0.019326591 1.81E-07 6.741479245 -0.048642104 QRS(ph)DDESPSTSSGSSDADQRDPAAPEPEEQEER ddPTM_HeLa_SAHA_4h_R1 2 QRSDDESPSTSSGSSDADQRDPAAPEPEEQEER 33 2 R4GN77;R4GND1;A0A1B0GX65;Q969T4;R4GMM6;R4GNG6 R4GN77 UBE2E3 Ubiquitin-conjugating enzyme E2 E3 1 0 QRS(0.824)DDES(0.165)PS(0.008)T(0.002)S(0.001)S(0.001)GSSDADQRDPAAPEPEEQEER;QRS(0.823)DDES(0.174)PS(0.002)T(0.001)SSGSSDADQRDPAAPEPEEQEER ; 94.019 2.84E-11 36740000 601.47 733.36 513.21 730.14 890.71 875.01 804.21 742.72 784.34 690.12 TRUE FALSE FALSE 664.7353742 757.1213452 583.1475861 744.2729155 822.4639922 800.4542253 713.7181742 723.7222978 778.8817141 719.8744506 0.923404593 1.05174082 0.810068458 1.033892667 1.142510325 1.111935873 0.991448125 1.005345164 1.081968826 1 9.491601506 -6.015721233 24.72674628 0.958748096 1.0645941 0.205107078 0.081277589 539.5033088 848545.6332 0.010692287 0.018098893 9.64E-07 6.015721233 0.105846004 QRS(ph)PAPGS(ph)PDEEGGAEAPAAGIR ddPTM_HeLa_SAHA_4h_R1 1 QRSPAPGSPDEEGGAEAPAAGIR 23 1 O15061;H0YL34;A0A075B7B1;O15061-2 O15061 SYNM Synemin 2 0 QRS(1)PAPGS(1)PDEEGGAEAPAAGIR 99.093 0.0006563 12274000 600.15 671.1 710.63 804.91 838.97 890.53 657.75 664.17 552.96 729.78 TRUE FALSE FALSE 663.2765306 692.8440803 807.4709556 820.490197 774.6882999 814.651834 583.7382389 647.1814931 549.1119063 761.2443873 0.871305643 0.910146718 1.060725004 1.077827582 1.017660442 1.070158083 0.766821074 0.850162581 0.721334588 1 9.572215876 -4.747260912 24.99291756 0.967132411 0.808491775 0.262715581 0.105631579 201.0531454 354397.6354 0.012081957 0.04476851 1.79E-05 4.747260912 -0.158640636 QRS(ph)PAPGSPDEEGGAEAPAAGIR ddPTM_HeLa_SAHA_4h_R1 2 QRSPAPGSPDEEGGAEAPAAGIR 23 1 O15061;H0YL34;A0A075B7B1;O15061-2 O15061 SYNM Synemin 1 0 QRS(1)PAPGSPDEEGGAEAPAAGIR;QRS(1)PAPGSPDEEGGAEAPAAGIR ; 174.55 7.03E-11 25485000 771.72 703.22 798.2 780.63 845.58 854.49 657.07 836.95 963.91 581.29 TRUE FALSE FALSE 852.8930504 726.0047894 906.9745392 795.7402225 780.7918431 781.6826448 583.1347543 815.5420309 957.2020718 606.3522567 1.406596646 1.197331718 1.495788181 1.312339838 1.287686876 1.289155992 0.961709547 1.344997107 1.578623748 1 9.244012352 -9.458598236 1.173423276 0.998770987 1.293340312 0 0.222456415 0.399264175 0.976797837 0.095748479 0.023290197 3.48E-10 9.458598236 0.294569325 QRS(ph)PIALPVK ddPTM_HeLa_SAHA_4h_R1 2 QRSPIALPVK 10 1 Q8TF01;Q8TF01-2 Q8TF01 PNISR Arginine/serine-rich protein PNISR 1 0 QRS(1)PIALPVK;QRS(1)PIALPVK ; 84.734 0.013414 20755100 9812.6 12830.7 10215.4 11693.2 13108.2 12311.3 12413 8627.9 10175.1 9107.2 TRUE FALSE FALSE 10844.73429 13246.4231 11607.50151 11919.53879 12103.85255 11262.30798 11016.25657 8407.210811 10104.29065 9499.855962 1.141568286 1.394381468 1.22186079 1.254707318 1.27410906 1.185524078 1.159623537 0.884982977 1.063625669 1 13.21368992 -8.34171241 1.113834257 1.0240309 1.199064172 0.200552492 0.123965889 0.433719405 1.104323384 0.037561444 0.025317053 4.55E-09 8.34171241 0.175033272 QRT(ph)GKIMGIEMAS(ph)S(ph)FSKEEK ddPTM_HeLa_SAHA_4h_R1 1 QRTGKIMGIEMASSFSKEEK 20 3 Q92670 Q92670 ZNF75CP Putative zinc finger protein 75C 3 0 QRT(1)GKIMGIEMAS(0.945)S(0.945)FS(0.109)KEEK 50.188 0.0083663 0 519.64 681.4 392.7 634.68 726.21 760.12 744.96 700.65 865.66 989.86 TRUE FALSE FALSE 574.2981194 703.4778071 446.2151109 646.9651492 670.5679467 695.3534997 661.1351402 682.7283875 859.6358016 1032.537709 0.556200625 0.681309555 0.432153816 0.626577745 0.649436762 0.673441264 0.640301206 0.661213999 0.832546641 1 10.01197876 -9.272115676 0.869065682 1.014317967 0.612067783 0.646727901 0.085714021 0.217933838 0.278720555 0.058709671 0.01388511 5.34E-10 9.272115676 -0.402250184 QRT(ph)LSMIEEEIR ddPTM_HeLa_SAHA_4h_R1 1 QRTLSMIEEEIR 12 1 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 QRT(0.625)LS(0.375)MIEEEIR 88.768 0.014852 1723800 485.34 306.32 368.3 469.14 387.15 393.19 397.81 454.16 345.57 250.3 TRUE FALSE FALSE 536.390288 316.244969 418.490006 478.2208831 357.4866506 359.688 353.0473718 442.5432448 343.1651502 261.0916579 2.054413734 1.211241184 1.602847097 1.831620692 1.369199818 1.377631146 1.352197058 1.694972748 1.314347432 1 8.028412553 -9.650997306 1.499151275 1.001125761 1.619670354 0.229110978 0.26105603 0.328082613 1.329889969 0.19970879 0.045448688 2.23E-10 9.650997306 0.618544593 QRTLS(ph)MIEEEIR ddPTM_HeLa_SAHA_4h_R1 1 QRTLSMIEEEIR 12 1 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 QRT(0.077)LS(0.923)MIEEEIR 106.6 0.0022693 3008500 415.21 380.97 383.09 371.46 451.73 522.66 555.08 529.69 328.32 521.72 TRUE FALSE FALSE 458.8836929 393.313678 435.2955102 378.6501454 417.118545 478.1264276 492.6209375 516.1412968 326.0351944 544.2139024 0.843204649 0.722718909 0.799861062 0.695774481 0.766460657 0.87856342 0.905197268 0.948416228 0.599093836 1 9.088030002 -8.723128384 0.877735572 0.989603539 0.81670046 0 0.143507278 0.406808952 0.623941534 0.03844775 0.017003425 1.89E-09 8.723128384 -0.172903079 QRY(ph)T(ph)AK ddPTM_HeLa_SAHA_4h_R1 1 QRYTAK 6 1 A0A087WZ06;Q13188;Q13188-2 A0A087WZ06 STK3 Serine/threonine-protein kinase 3;Serine/threonine-protein kinase 3 36kDa subunit;Serine/threonine-protein kinase 3 20kDa subunit 2 0 QRY(1)T(1)AK 59.641 0.0068466 0 523.15 573.2 246.28 446.28 379.09 613.5 563.23 393.5 556.33 635.56 TRUE FALSE FALSE 578.1773173 591.7720561 279.8417558 454.9183947 350.0442061 561.2263485 499.8538781 383.4348398 552.4584542 662.962102 0.87211217 0.892618227 0.422108225 0.686190649 0.528000326 0.846543636 0.753970516 0.578366152 0.833318304 1 9.372782591 -6.922851581 9.614693861 0.936616372 0.648298398 0.534606423 0.118867617 0.178971187 20.83345439 0.018953436 0.024922668 1.19E-07 6.922851581 -0.288317974 QS(ph)GDGQESTEPVENK ddPTM_HeLa_SAHA_4h_R1 2 QSGDGQESTEPVENK 15 0 O15234;J3KSY7 O15234 CASC3 Protein CASC3 1 0 QS(1)GDGQESTEPVENK;QS(1)GDGQESTEPVENK ; 230.29 8.99E-25 9211200 1277.46 2366.06 1414.67 1770.84 1791.88 2310.27 1744.25 1690.18 2648.79 1556.17 TRUE FALSE FALSE 1411.829104 2442.721896 1607.45386 1805.117169 1654.586542 2113.421999 1547.982399 1646.947643 2630.356855 1623.264104 0.869747012 1.50482099 0.990260215 1.112029253 1.019295959 1.301958192 0.953623255 1.014590071 1.620412136 1 10.66468203 QS(ph)HSESPSLQSK ddPTM_HeLa_SAHA_4h_R1 1 QSHSESPSLQSK 12 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 QS(0.435)HS(0.435)ES(0.128)PS(0.003)LQSK 165.78 0.00011382 154470000 4805 5273.6 4190.5 5130.2 5402.9 174.3 6044.1 6177 5459.9 5203.8 TRUE FALSE FALSE 5310.411946 5444.4681 4761.559517 5229.502439 4988.930969 159.4486594 5364.001961 6019.001284 5421.904111 5428.161285 0.978307693 1.003004114 0.877195659 0.963402184 0.919083039 0.029374341 0.988180284 1.108847171 0.998847276 1 12.40624787 -5.499525118 24.98913097 0.978060632 0.692986964 0.160922549 0.266905375 938.4250119 1004144.191 0.036479804 0.081073066 3.17E-06 5.499525118 -0.285073668 QS(ph)LIISMAPSAEGGEEVLT(ph)IEVK ddPTM_HeLa_SAHA_4h_R1 1 QSLIISMAPSAEGGEEVLTIEVK 23 0 Q9NQW8-2;Q9NQW8 Q9NQW8-2 CNGB3 Cyclic nucleotide-gated cation channel beta-3 2 0 QS(0.865)LIIS(0.134)MAPS(0.003)AEGGEEVLT(0.999)IEVK 50.425 0.0075635 0 538.79 1052.8 631.4 770.67 856.07 1209.4 684.7 1036.8 565.59 818.51 TRUE FALSE FALSE 595.4624043 1086.911411 717.4439038 785.5874323 790.4781015 1106.352316 607.655754 1010.280157 561.6540131 853.7999718 0.697426123 1.273028164 0.840295066 0.920107119 0.92583524 1.295798024 0.711707395 1.183274995 0.657828568 1 9.737754305 -7.293459911 24.97974842 0.857117914 1.005534023 0.199828928 0.20007971 1083.147835 844978.8709 0.033108822 0.037863077 5.09E-08 7.293459911 0.148416109 QS(ph)PASPPPLGGGAPVR ddPTM_HeLa_SAHA_4h_R1 1 QSPASPPPLGGGAPVR 16 0 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;A0A0G2JPP5;Q14160-3;H0YCG0 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 QS(0.826)PAS(0.174)PPPLGGGAPVR 78.166 0.013977 4253600 1443.3 1706 1351.9 1388.9 1644.8 1495.2 1612.9 1580.8 1379.2 1366.1 TRUE FALSE FALSE 1595.112916 1761.275519 1536.129892 1415.784168 1518.775779 1367.800548 1431.412247 1540.365425 1369.602035 1424.999257 1.119378069 1.235983465 1.077986451 0.993533268 1.065808121 0.959860535 1.004500347 1.080958757 0.961124736 1 10.47674545 -6.278025925 22.84961183 1.075606789 1.019119563 0.127783789 0.075398087 471.8631754 650037.1166 0.012223016 0.018715777 5.27E-07 6.278025925 -0.056487225 QS(ph)PGPALAR ddPTM_HeLa_SAHA_4h_R1 2 QSPGPALAR 9 0 P85037 P85037 FOXK1 Forkhead box protein K1 1 0 QS(1)PGPALAR;QS(1)PGPALAR ; 113.67 0.0051556 58330900 3943.2 4208.7 3796.4 4281.5 4644.1 5984.3 4651.2 4284.3 4517.3 3994.6 TRUE FALSE FALSE 4357.963868 4345.064641 4313.753621 4364.374624 4288.270061 5474.403973 4127.834735 4174.71381 4485.863742 4166.826755 1.045871145 1.042775449 1.035261093 1.047409667 1.029145274 1.313806476 0.990642275 1.00189282 1.076565935 1 12.0247334 -5.460231153 24.99990554 1.02713115 1.104384789 0.090475629 0.08458874 315.0197291 125709.8465 0.011442561 0.025586315 3.47E-06 5.460231153 0.077253639 QS(ph)PLTYEDHGAPFAGHLPR ddPTM_HeLa_SAHA_4h_R1 2 QSPLTYEDHGAPFAGHLPR 19 0 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6 C9JE98 NCOR2 Nuclear receptor corepressor 2 1 0 QS(0.983)PLT(0.011)Y(0.006)EDHGAPFAGHLPR;QS(0.996)PLT(0.004)YEDHGAPFAGHLPR ; 151.89 3.60E-05 25903000 998.38 1561.82 1411.95 1700.03 1389.49 903.42 1530.64 1345.04 1918.9 1240.93 TRUE FALSE FALSE 1103.394189 1612.423993 1604.363193 1732.936539 1283.027576 826.4435335 1358.408359 1310.635824 1905.546219 1294.432565 0.852415351 1.245660868 1.239433583 1.338761543 0.991189198 0.638460091 1.049423813 1.012517654 1.472109301 1 10.33810409 -3.17205407 2.270443842 0.989203099 3.373122111 0 0.250836491 2067.627622 157.1285791 0.030696329 24743.13901 0.000672893 3.17205407 2.383919012 QS(ph)PS(ph)RS(ph)S(ph)S(ph)PQPK ddPTM_HeLa_SAHA_4h_R1 1 QSPSRSSSPQPK 12 1 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 5 0 QS(1)PS(1)RS(1)S(1)S(1)PQPK 58.37 0.02008 17984000 478.67 612.06 473.45 535.61 717.27 621.13 534.22 684.21 799.29 553.89 TRUE FALSE FALSE 529.0187068 631.8911456 537.9693004 545.9775061 662.3129276 568.2062296 474.1081596 666.7088989 793.7276758 577.7709086 0.915620186 1.093670755 0.931111782 0.944972303 1.146324465 0.983445551 0.820581571 1.153932967 1.373775772 1 9.174353754 QS(ph)PSFK ddPTM_HeLa_SAHA_4h_R1 1 QSPSFK 6 0 Q6IN85-4;Q6IN85-2;Q6IN85 Q6IN85-4 SMEK1 Serine/threonine-protein phosphatase 4 regulatory subunit 3A 1 0 QS(0.977)PS(0.023)FK 106.88 0.012673 3446500 2793.6 3385.2 2050.5 2667.5 3423.4 5084.7 3279.3 3175.2 4021.2 3610.9 TRUE FALSE FALSE 3087.443665 3494.882701 2329.931461 2719.13332 3161.099832 4651.454954 2910.304533 3093.982982 3993.216142 3766.58357 0.819693393 0.927865435 0.618579521 0.721909728 0.839248558 1.234926789 0.772664267 0.821429533 1.060169267 1 11.87904082 QS(ph)PSPSTRPIR ddPTM_HeLa_SAHA_4h_R1 2 QSPSPSTRPIR 11 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 QS(0.989)PS(0.011)PSTRPIR;QS(0.9)PS(0.088)PS(0.006)T(0.006)RPIR ; 77.744 0.015458 20071700 2690.8 2519.5 2263.1 2816.3 2811.7 3399.8 2937.5 3016.1 3193 2692.1 TRUE FALSE FALSE 2973.83069 2601.133453 2571.503482 2870.813559 2596.268153 3110.117913 2606.964769 2938.952529 3170.779653 2808.169606 1.058992549 0.92627363 0.915722283 1.022307753 0.924541078 1.107524954 0.928350184 1.046572302 1.129126833 1 11.45541436 -7.281236565 24.76660372 1.027857591 0.981243178 0.177115296 0.068723803 1181.410324 1477960.846 0.010042217 0.011492601 5.23E-08 7.281236565 -0.046614413 QS(ph)SGASSSSFSSSR ddPTM_HeLa_SAHA_4h_R1 1 QSSGASSSSFSSSR 14 0 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;F6S8Q4;A0A2R8YDT5;A0A2R8Y7T2;A0A0J9YVQ7;A0A087WVZ1 A0A2R8Y5G6 DDX3X ATP-dependent RNA helicase DDX3X 1 0 QS(0.758)S(0.242)GASSSSFSSSR 217.39 2.20E-17 3351600 974.35 739.97 983.79 1220.8 863.89 1013.3 1030 1228.2 953.25 764.2 TRUE FALSE FALSE 1076.836603 763.9455135 1117.855778 1244.430349 797.6989348 926.9611393 914.1016892 1196.784422 946.6162556 797.1484019 1.350860895 0.958347921 1.402318282 1.561102483 1.000690628 1.162846387 1.146714573 1.501332022 1.187503172 1 9.63870452 -9.463296126 1.05416841 0.991369551 1.259553443 0.072568403 0.197363064 0.721970597 1.357681592 0.151712487 0.032830913 3.44E-10 9.463296126 0.268183892 QS(ph)SPSGSEQLVR ddPTM_HeLa_SAHA_4h_R1 1 QSSPSGSEQLVR 12 0 H0Y704;O15231-2;O15231-3;H7BZT5;O15231-9;O15231-5;O15231-4;O15231-7;O15231;O15231-8;O15231-6 H0Y704 ZNF185 Zinc finger protein 185 1 0 QS(0.5)S(0.5)PS(0.001)GSEQLVR 157.33 0.00018937 23730000 1172.1 1446.8 916.57 1427.1 1263.6 1631.3 1275.6 1382.2 1612.1 1320.8 TRUE FALSE FALSE 1295.386856 1493.677269 1041.475386 1454.723584 1166.783241 1492.304063 1132.066131 1346.845325 1600.881265 1377.746152 0.940221719 1.084145484 0.755926906 1.055871999 0.846878243 1.083148779 0.821679762 0.977571466 1.161956622 1 10.42809438 -13.52287875 0.188541364 1.257120409 0.930348363 0.107389072 0.117551142 141.8097042 1.670059075 13.38132785 0.114616363 3.00E-14 13.52287875 -0.326772046 QS(ph)SRHSEAGSEYTVVSMSDAGGEGS(ph)VAGS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 QSSRHSEAGSEYTVVSMSDAGGEGSVAGSK 30 1 D6RIA3 D6RIA3 LOC285556 3 0 QS(0.37)S(0.37)RHS(0.11)EAGS(0.05)EY(0.048)T(0.05)VVS(0.009)MS(0.018)DAGGEGS(0.988)VAGS(0.987)K 45.901 0.016751 9979600 437.8 454.44 387.98 409.31 356.58 640.61 531.45 479.54 532.71 382.5 TRUE FALSE FALSE 483.8498127 469.1641542 440.8518939 417.2327869 329.2589174 586.026424 471.6498473 467.2740612 529.0028277 398.9914469 1.212682168 1.175875217 1.10491565 1.045718624 0.825228009 1.46876939 1.182105158 1.17113804 1.325850045 1 8.64021401 -9.46666274 1.189734237 0.999554742 1.152138075 0 0.181003646 0.843409385 2.125856383 0.105695172 0.025748696 3.41E-10 9.46666274 0.152583334 QS(ph)VNRRKMPNS(ph)T(ph)R ddPTM_HeLa_SAHA_4h_R1 1 QSVNRRKMPNSTR 13 3 Q8IYW5 Q8IYW5 RNF168 E3 ubiquitin-protein ligase RNF168 3 0 QS(1)VNRRKMPNS(1)T(1)R 59.502 0.017473 17297000 1908.8 2013.8 2430.6 1924.1 2837.5 2488.7 2228.2 2415.1 2017.2 2584.8 TRUE FALSE FALSE 2109.576342 2079.048441 2761.82951 1961.343738 2620.091363 2276.648759 1977.477072 2353.325239 2003.162141 2696.243378 0.782413175 0.771090792 1.024325004 0.727435718 0.971756253 0.844378062 0.733419352 0.872816326 0.742945595 1 11.39673501 -9.418579735 1.119360426 1.000975913 0.836784881 0 0.121193915 0.479339239 1.064204065 0.0618034 0.015232853 3.81E-10 9.418579735 -0.164191032 QSACNLEK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 QSACNLEKK 9 1 P35579;P35579-2 P35579 MYH9 Myosin-9 0 1 QSACNLEK(1)K 156.83 3.07E-07 9917100 3128.8 2976.3 3047.7 2779.6 3308.5 3416.8 3914.1 3312.6 2207.4 2730.2 FALSE TRUE FALSE 3457.901539 3072.734073 3463.024684 2833.403177 3055.003445 3125.669418 3473.675167 3227.868489 2192.038524 2847.912283 1.214188218 1.078942666 1.21598713 0.994905354 1.072716833 1.097530088 1.219726881 1.133415698 0.769700154 1 11.475689 -9.573545265 1.362139296 1.000193954 1.137123099 0.381494074 0.102288148 0.407426183 1.35830272 0.050795961 0.011965243 2.67E-10 9.573545265 0.136929145 QSAGPNS(ph)PTGGGGGGGSGGTR ddPTM_HeLa_SAHA_4h_R1 2 QSAGPNSPTGGGGGGGSGGTR 21 0 H7BZ52;S4R3H3;S4R393;S4R410;A7E2V4-5;A7E2V4;A7E2V4-3;A7E2V4-4;A7E2V4-2 H7BZ52 ZSWIM8 Zinc finger SWIM domain-containing protein 8 1 0 QSAGPNS(0.97)PT(0.03)GGGGGGGSGGTR;QSAGPNS(0.709)PT(0.291)GGGGGGGSGGTR ; 256.06 2.43E-53 9993300 870.52 618.03 647.76 655.78 920.71 894.09 860.41 955.94 743.51 710.97 TRUE FALSE FALSE 962.0852877 638.0545775 736.0333594 668.4735702 850.1653987 817.908502 763.5944023 931.488439 738.3358534 741.6233961 1.297269332 0.860348501 0.992462432 0.901365267 1.146357306 1.102862324 1.029625557 1.256012747 0.995567099 1 9.534542947 -7.269454714 24.99261425 1.140377177 1.039991356 0.00638202 0.134565148 1181.913049 3685318.966 0.025740474 0.029708737 5.38E-08 7.269454714 -0.100385821 QSELSAEES(ph)PEK ddPTM_HeLa_SAHA_4h_R1 2 QSELSAEESPEK 12 0 F8W9X7;Q567U6 F8W9X7 CCDC93 Coiled-coil domain-containing protein 93 1 0 QSELSAEES(1)PEK;QSELS(0.006)AEES(0.994)PEK ; 152.11 0.000321 11957100 3300.2 4032.5 2609.8 3164.8 4289.5 4808.3 3454.4 3491.5 6006.2 3973.6 TRUE FALSE FALSE 3647.330178 4163.155646 2965.449953 3226.05928 3960.839437 4398.605789 3065.701821 3402.192486 5964.402365 4144.921342 0.879951603 1.004399192 0.715441792 0.778316164 0.955588565 1.061203682 0.739628468 0.820809903 1.438966357 1 12.01712901 -9.225424592 0.42249101 1.036980537 0.860597343 0.24427996 0.175200907 2.963968741 0.713497904 0.231550344 0.036223645 5.95E-10 9.225424592 -0.176383194 QSELSAEES(ph)PEKLGTSQLHR ddPTM_HeLa_SAHA_4h_R1 2 QSELSAEESPEKLGTSQLHR 20 1 F8W9X7;Q567U6 F8W9X7 CCDC93 Coiled-coil domain-containing protein 93 1 0 QSELSAEES(0.967)PEKLGT(0.024)S(0.008)QLHR;QSELS(0.002)AEES(0.966)PEKLGT(0.016)S(0.016)QLHR ; 84.947 0.0013014 18816200 2074.39 2512.76 1393.44 2142.18 2783.21 4015.5 2389.96 2835.9 2490.21 2495.05 TRUE FALSE FALSE 2292.583858 2594.175073 1583.330746 2183.644992 2569.961051 3673.356809 2121.035411 2763.361784 2472.880426 2602.623816 0.880874079 0.996753759 0.608359432 0.839016756 0.987450063 1.411405208 0.814960425 1.06175997 0.950149004 1 11.34575108 -5.517451763 24.85466752 0.912394056 1.089849362 0.230866171 0.171692368 285.7360097 1308620.228 0.024663316 0.050563633 3.04E-06 5.517451763 0.177455305 QSFDDNDS(ph)EELEDKDSK ddPTM_HeLa_SAHA_4h_R1 6 QSFDDNDSEELEDKDSK 17 1 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 1 0 QS(0.007)FDDNDS(0.877)EELEDKDS(0.116)K;QSFDDNDS(1)EELEDKDSK;QSFDDNDS(0.812)EELEDKDS(0.188)K;QSFDDNDS(0.999)EELEDKDSK;QSFDDNDS(0.52)EELEDKDS(0.48)K;QSFDDNDS(0.967)EELEDKDS(0.033)K ;;;;; 143.72 7.42E-05 587480800 8880.04 8481.59 7145.35 7704.21 9014.78 9397.78 9531.04 9134.28 8344.28 8487.43 TRUE FALSE FALSE 9814.08335 8756.399081 8119.081087 7853.336125 8324.069504 8597.036274 8458.582295 8900.638344 8286.211476 8853.364644 1.10851453 0.989047603 0.917061639 0.887045371 0.940215369 0.97104735 0.955408778 1.005339631 0.935939251 1 13.11201013 -7.021674533 6.543030854 1.05125405 0.945132143 0.173407678 0.052727168 0.107689827 18.40458604 0.008256939 0.010378488 9.51E-08 7.021674533 -0.106121907 QSFTMVADT(ph)PENLR ddPTM_HeLa_SAHA_4h_R1 4 QSFTMVADTPENLR 14 0 C9J9W2;Q14847;Q14847-2;F6S2S5 C9J9W2 LASP1 LIM and SH3 domain protein 1 1 0 QSFTMVADT(1)PENLR;QSFTMVADT(1)PENLR;QSFTMVADT(1)PENLR;QS(0.001)FT(0.007)MVADT(0.993)PENLR ;;; 263.04 6.44E-44 146912000 5932.5 6330.6 6632.1 6190.77 8219.3 8233.9 7558.1 6331.09 7337.86 6459.17 TRUE FALSE FALSE 6556.507569 6535.715594 7535.88805 6310.601305 7589.53901 7532.325397 6707.642696 6169.149885 7286.795235 6737.656429 0.973113966 0.97002803 1.118473186 0.936616667 1.126436037 1.117944418 0.995545375 0.915622509 1.08150294 1 12.71803115 QSGEAFVELGSEDDVK ddPTM_HeLa_SAHA_4h_R1 1 QSGEAFVELGSEDDVK 16 0 P52597;A0A1B0GW42 P52597 HNRNPF "Heterogeneous nuclear ribonucleoprotein F;Heterogeneous nuclear ribonucleoprotein F, N-terminally processed" 0 0 174.59 3.20E-08 5967500 1027.9 1156.2 880.53 902.67 1099.2 1186.4 1012.9 1296.7 1289.1 1336.3 FALSE FALSE TRUE 1136.019238 1193.661639 1000.524043 920.1424831 1014.979533 1085.312045 898.9258262 1263.532292 1280.129048 1393.914433 0.814984917 0.856337814 0.717780101 0.660114037 0.72815053 0.778607366 0.644893119 0.906463311 0.918369893 1 10.44492629 -8.449660171 0.489123823 1.011957017 0.734548525 0.515004948 0.077763381 0.480945315 0.239427423 0.059707765 0.023170767 3.55E-09 8.449660171 -0.277408492 QSGLSSLVNGK(ac)SPIR ddPTM_HeLa_SAHA_4h_R1 2 QSGLSSLVNGKSPIR 15 1 H0Y612;Q9UPN9-2;Q9UPN9 H0Y612 TRIM33 E3 ubiquitin-protein ligase TRIM33 0 1 ; QSGLSSLVNGK(1)SPIR;QSGLSSLVNGK(1)SPIR 205.62 1.98E-24 2663200 149.08 155.4 141.3 78.088 70.714 415.91 369.78 642.59 556.41 104.04 FALSE TRUE FALSE 164.7609184 160.435062 160.5556281 79.59950616 65.2959086 380.4721282 328.1713812 626.1534783 552.5378975 108.5256736 1.518174576 1.478314363 1.479425309 0.733462448 0.601663242 3.505826001 3.0239055 5.769634573 5.091310465 1 6.761892566 -4.353074923 1.023860399 1.216773487 7.393699451 0.39595362 1.360697248 0.428136551 0.384430862 0.088618622 2.77859515 4.44E-05 4.353074923 6.176925965 QSHAASAAPQASS(ph)PPDYTMAWAEYYR ddPTM_HeLa_SAHA_4h_R1 1 QSHAASAAPQASSPPDYTMAWAEYYR 26 0 Q96I24 Q96I24 FUBP3 Far upstream element-binding protein 3 1 0 QSHAASAAPQAS(0.316)S(0.684)PPDYTMAWAEYYR 112.13 6.25E-07 6904100 434.66 659.41 506.63 635.35 778.71 236.9 622.37 575.03 542.52 545.87 TRUE FALSE FALSE 480.3795331 680.7753167 575.670898 647.648118 719.045408 216.7147872 552.3392896 560.3215652 538.7445591 569.4051271 0.843651576 1.195590423 1.011004065 1.137411813 1.262801077 0.380598588 0.970028655 0.984047278 0.946153334 1 9.153311673 -4.533988331 24.99310256 0.950092826 0.980543209 0 0.231306302 2164.33178 4869084.516 0.031427502 0.117804243 2.92E-05 4.533988331 0.030450383 QSHSES(ph)PSLQSK ddPTM_HeLa_SAHA_4h_R1 6 QSHSESPSLQSK 12 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 QSHS(0.009)ES(0.983)PS(0.008)LQSK;QSHS(0.001)ES(0.774)PS(0.225)LQSK;QSHS(0.002)ES(0.997)PSLQSK;QSHSES(0.936)PS(0.064)LQSK;QSHSES(1)PSLQSK;QSHSES(0.999)PS(0.001)LQSK ;;;;; 222.75 3.02E-16 664807000 23166.5 25086.8 20394.1 21843.2 25189.3 1666.01 27564.3 25316.4 25294 22379.2 TRUE FALSE FALSE 25603.25876 25899.62878 23173.30174 22266.00672 23259.30128 1524.056575 24462.69242 24668.84315 25117.97699 23344.07683 1.096777523 1.109473249 0.992684436 0.953818259 0.996368434 0.06528665 1.047918605 1.05674957 1.075989304 1 14.51076892 -5.490392195 24.99207078 1.039245454 0.718286544 0.231340599 0.258886328 681.5928329 524352.4209 0.035208514 0.078665962 3.23E-06 5.490392195 -0.320958909 QSHSGSIS(ph)PYPK ddPTM_HeLa_SAHA_4h_R1 4 QSHSGSISPYPK 12 0 Q9UQ35;Q9UQ35-2;I3L4D8 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 QSHSGSIS(1)PYPK;QSHSGSIS(1)PYPK;QSHSGSIS(1)PYPK;QSHSGSIS(1)PYPK ;;; 134.88 0.00067631 386137000 28037 42969 21444.9 33001 42626.9 3311.96 38647.6 35515.2 47749.1 35476.3 TRUE FALSE FALSE 30986.0603 44361.22379 24367.29929 33639.78208 39360.83613 3029.762375 34298.87033 34606.77261 47416.81013 37005.85691 0.837328544 1.198762237 0.658471424 0.909039403 1.063638013 0.08187251 0.92684978 0.935170146 1.28133258 1 15.175466 QSLGELIGTLNAAK ddPTM_HeLa_SAHA_4h_R1 1 QSLGELIGTLNAAK 14 0 P60174;P60174-3 P60174 TPI1 Triosephosphate isomerase 0 0 214.23 1.97E-32 601730 163.31 334.25 183.19 251.89 341.51 133.63 281.93 0 221.48 222.11 FALSE FALSE TRUE 180.4876951 345.0799193 208.1541792 256.7656952 315.3435776 122.2439722 250.2064944 0 219.9387026 231.6862491 0.779017727 1.48942771 0.898431305 1.108247452 1.361080249 0.527627223 1.079936748 0 0.949295452 1 7.85602861 -4.257215362 25 0.963356422 3.69E-05 0.565163457 0.264408037 247.8454849 1466826.66 0.03542259 0.368903955 5.53E-05 4.257215362 -0.963319536 QSLGES(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 QSLGESPR 8 0 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639;A0A494C1P1;A0A494C1G0;H0Y7N6;F6XFR5 J3QSX6 ABLIM1 Actin-binding LIM protein 1 1 0 QSLGES(1)PR;QS(0.042)LGES(0.958)PR;QS(0.014)LGES(0.986)PR ;; 93.561 0.015459 110484000 8033.5 8332.8 7740.4 7829.9 8972.3 9165.6 8412.8 7275.7 8607.3 7336.5 TRUE FALSE FALSE 8878.500389 8602.788187 8795.221402 7981.459037 8284.844312 8384.639316 7466.169603 7089.598129 8547.401098 7652.812419 1.160161768 1.124134203 1.149279627 1.042944554 1.082588186 1.09562849 0.975611212 0.926404273 1.116896721 1 12.90177432 -4.649015935 3.621974767 1.085209904 0.935335875 0.608397921 0.046599078 0.166667155 4.035110635 0.00911445 0.04090003 2.24E-05 4.649015935 -0.149874029 QSLPAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 QSLPASPR 8 0 Q3KQU3-4;Q3KQU3;Q3KQU3-2;H0YF21 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 QSLPAS(1)PR 104.07 0.0084344 62789000 1921.3 1844.6 1702.3 1607.7 1812.7 1901.7 1702.4 1908.5 1656.3 1689.9 TRUE FALSE FALSE 2123.391149 1904.36625 1934.280579 1638.819358 1673.811318 1739.664461 1510.841472 1859.683333 1644.773673 1762.759859 1.204583335 1.080332208 1.097302374 0.929689515 0.949540182 0.98689816 0.857088652 1.054983935 0.933067352 1 10.78362023 -6.267134907 23.35546248 1.097630371 0.951562682 0.246365969 0.083488544 142.1040519 582722.287 0.013085103 0.020350308 5.41E-07 6.267134907 -0.146067689 QSMAFSILNT(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 QSMAFSILNTPK 12 0 A0A087WY61;Q14980-5;Q14980-2;Q14980;H0YFY6 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 1 0 QSMAFSILNT(1)PK;QSMAFS(0.003)ILNT(0.997)PK;QSMAFSILNT(1)PK;QSMAFSILNT(1)PK ;;; 179.55 4.45E-05 29699400 7161.06 6775.44 6786.9 8002.9 8046.4 7723.1 8738.4 7543.9 7576.8 7828.6 TRUE FALSE FALSE 7914.293147 6994.968702 7711.783387 8157.807702 7429.88657 7065.048431 7755.132234 7350.937961 7524.072432 8166.129258 0.969160896 0.856583147 0.94436215 0.998980967 0.909841901 0.865164903 0.949670522 0.900174088 0.921375623 1 12.99543669 -7.479241597 9.808363203 0.986447171 0.920266761 0.134723827 0.044344054 0.409040353 89.80202939 0.006893619 0.007755151 3.32E-08 7.479241597 -0.06618041 QSMDMS(ph)PIK ddPTM_HeLa_SAHA_4h_R1 4 QSMDMSPIK 9 0 F5H658;Q14562 F5H658 DHX8 ATP-dependent RNA helicase DHX8 1 0 QS(0.001)MDMS(0.999)PIK;QSMDMS(1)PIK;QSMDMS(1)PIK;QS(0.008)MDMS(0.992)PIK ;;; 148.78 0.00048773 66272000 13348.3 13880.13 13541 15173.9 16348.9 11773.9 16660.5 9680.22 6029.74 8828.09 TRUE FALSE FALSE 14752.33544 14329.85532 15386.29696 15467.61278 15096.25081 10770.69748 14785.81669 9432.613989 5987.778548 9208.712164 1.601997671 1.556119364 1.670841339 1.679671652 1.639344411 1.169620387 1.605633495 1.02431413 0.650229744 1 13.16878369 -9.278849827 0.970244209 0.995377129 1.509446832 0.517579061 0.242253959 0.404353237 0.672872303 0.145736368 0.038049822 5.26E-10 9.278849827 0.514069702 QSNAS(ph)SDVEVEEK ddPTM_HeLa_SAHA_4h_R1 1 QSNASSDVEVEEK 13 0 O75475;O75475-3;O75475-2 O75475 PSIP1 PC4 and SFRS1-interacting protein 1 0 QSNAS(0.5)S(0.5)DVEVEEK 238.12 4.42E-25 5229900 959.08 1384.4 708.66 1075.9 1333 1235.3 1213.2 881.76 1578.5 1231.7 TRUE FALSE FALSE 1059.960435 1429.255468 805.2324943 1096.7256 1230.865828 1130.04549 1076.687543 859.205856 1567.51509 1284.804615 0.824997375 1.112430211 0.626735369 0.85361275 0.958017907 0.879546569 0.83801656 0.668744373 1.220041609 1 10.32733326 -13.52287875 0.164203172 1.593598848 0.798158804 0.306081679 0.14454178 78.76440913 0.85512703 15.16247983 0.220365153 3.00E-14 13.52287875 -0.795440044 QSNASS(ph)DVEVEEK ddPTM_HeLa_SAHA_4h_R1 4 QSNASSDVEVEEK 13 0 O75475;O75475-3;O75475-2 O75475 PSIP1 PC4 and SFRS1-interacting protein 1 0 QSNAS(0.082)S(0.918)DVEVEEK;QSNAS(0.002)S(0.998)DVEVEEK;QSNAS(0.08)S(0.92)DVEVEEK;QSNAS(0.412)S(0.588)DVEVEEK ;;; 253.79 5.09E-42 262457500 7129.9 9551.4 5573.35 8353.5 8724 11511 7934.6 10091.2 13938.2 7781.2 TRUE FALSE FALSE 7879.855595 9860.871627 6332.857113 8515.194072 8055.569005 10530.19804 7041.777925 9833.081716 13841.20293 8116.685612 0.970821832 1.214888946 0.780226981 1.049097437 0.992470251 1.297351967 0.867568151 1.211465145 1.705277695 1 12.98667502 -5.426207326 19.76779145 0.992814745 1.107215742 0 0.266509045 12.73756983 2599.43252 0.018048167 0.040356888 3.75E-06 5.426207326 0.114400998 QSNPKS(ph)SPGQPEAGPEGAQERPSQAAPAVEAEGPGSSQAPR ddPTM_HeLa_SAHA_4h_R1 1 QSNPKSSPGQPEAGPEGAQERPSQAAPAVEAEGPGSSQAPR 41 2 P40222 P40222 TXLNA Alpha-taxilin 1 0 QS(0.15)NPKS(0.424)S(0.424)PGQPEAGPEGAQERPS(0.001)QAAPAVEAEGPGSSQAPR 53.288 0.00075678 8075400 251.53 227.43 0 379.3 460.81 359.06 645.53 276.25 416.26 275.99 TRUE FALSE FALSE 277.9870795 234.7988812 0 386.6419 425.5028374 328.466068 572.8932655 269.183925 413.3632128 287.8892796 0.965604137 0.815587442 0 1.343022917 1.478008622 1.140945813 1.989977766 0.935025873 1.435840936 1 8.169370257 -6.032793667 24.99401753 0.89100537 1.411489703 0.285466391 0.418706821 578.8398689 441167.8366 0.055738972 0.092480382 9.27E-07 6.032793667 0.520484333 QSNPKSS(ph)PGQPEAGPEGAQERPSQAAPAVEAEGPGSSQAPR ddPTM_HeLa_SAHA_4h_R1 1 QSNPKSSPGQPEAGPEGAQERPSQAAPAVEAEGPGSSQAPR 41 2 P40222 P40222 TXLNA Alpha-taxilin 1 0 QS(0.034)NPKS(0.207)S(0.758)PGQPEAGPEGAQERPS(0.001)QAAPAVEAEGPGSSQAPR 77.321 2.05E-09 8735800 257.33 284.99 271.69 220.79 374.7 305.97 192.87 323.55 226.47 318.38 TRUE FALSE FALSE 284.3971501 294.223863 308.7144983 225.0637097 345.9905669 279.8996347 171.16776 315.2740595 224.8939768 332.1069199 0.856342139 0.885931142 0.929563583 0.677684493 1.041804751 0.842799767 0.515399559 0.949314936 0.677173414 1 8.375503974 -13.52287676 0.063982042 1.658723564 0.560959332 0 0.16930176 300.7866336 1.504778864 30.72261494 5.194712459 3.00E-14 13.52287676 -1.097764232 QSNVAAPGDAT(ph)PPAEKK ddPTM_HeLa_SAHA_4h_R1 1 QSNVAAPGDATPPAEKK 17 1 Q96QC0 Q96QC0 PPP1R10 Serine/threonine-protein phosphatase 1 regulatory subunit 10 1 0 QSNVAAPGDAT(1)PPAEKK 69.07 0.0053822 0 2539.5 2937 2611.6 2956.2 3091.9 3581.5 3627.5 3301.1 3007.4 2903.7 TRUE FALSE FALSE 2806.616262 3032.160727 2967.495247 3013.421526 2854.99929 3276.336051 3219.324153 3216.662642 2986.471259 3028.892717 0.926614616 1.001078945 0.979729401 0.99489213 0.942588449 1.081694321 1.062871634 1.061992927 0.9859944 1 11.56457476 -5.256684657 24.89728865 0.969415968 1.068254834 0.756035055 0.024018029 163.7038417 857203.9367 0.004366311 0.010746243 5.54E-06 5.256684657 0.098838866 QSPAS(ph)PPPLGGGAPVR ddPTM_HeLa_SAHA_4h_R1 2 QSPASPPPLGGGAPVR 16 0 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;A0A0G2JPP5;Q14160-3;H0YCG0 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 QS(0.375)PAS(0.625)PPPLGGGAPVR;QS(0.465)PAS(0.535)PPPLGGGAPVR ; 86.411 0.0089247 13319700 2098.6 2532.7 1985.76 1977.87 2547.1 2256.4 3064.5 2419.9 2532 2228.2 TRUE FALSE FALSE 2319.340377 2614.761142 2256.369031 2016.154534 2351.941748 2064.142026 2719.674395 2358.002462 2514.379606 2324.268607 0.997879664 1.124982343 0.970786692 0.867436117 1.011906172 0.888082393 1.170120522 1.014513751 1.081793902 1 11.18256109 -4.752393964 24.99999918 0.991545113 1.092317088 0.195383705 0.080698072 208.5981819 576516.9229 0.00984731 0.035792277 1.77E-05 4.752393964 0.100771975 QSPGSTS(ph)PKPPHTLSR ddPTM_HeLa_SAHA_4h_R1 1 QSPGSTSPKPPHTLSR 16 1 E9PPY3;O43159 E9PPY3 RRP8 Ribosomal RNA-processing protein 8 1 0 QSPGS(0.01)T(0.259)S(0.716)PKPPHT(0.004)LS(0.01)R 59.154 0.023738 5976300 1672.5 2134.9 1130 1910.1 2680.9 3227.6 2185.5 2172 2463.8 1909.5 TRUE FALSE FALSE 1848.421224 2204.072161 1283.990515 1947.072748 2475.490021 2952.590322 1939.581788 2116.443385 2446.654215 1991.82789 0.928002481 1.106557535 0.644629248 0.977530618 1.242823255 1.482352133 0.973769771 1.062563385 1.228346198 1 10.95987728 -5.804159905 7.228872491 0.950409532 1.195653197 0.222032619 0.187084137 0.179399944 24.1622342 0.02409254 0.04421434 1.57E-06 5.804159905 0.245243665 LNTITPVVGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 LNTITPVVGKK 11 1 Q9HCK8-2;Q9HCK8;A0A2R8Y840;A0A2R8YFT4;A0A2R8Y4P3;A0A2R8Y808 Q9HCK8-2 CHD8 Chromodomain-helicase-DNA-binding protein 8 0 1 ; LNTITPVVGK(1)K;LNTITPVVGK(1)K 121.08 7.58E-05 1096000 835.61 781.84 747.03 1854.3 2060.47 2977 3202.7 3220.6 675.46 444.46 FALSE TRUE FALSE 923.5032937 807.172129 848.831358 1890.192658 1902.597234 2723.342852 2842.323767 3138.221715 670.7594189 463.6228457 1.991927926 1.741010255 1.830866114 4.077004995 4.103760743 5.874048005 6.13068099 6.76891086 1.446778184 1 8.856807849 -5.622127071 0.673798548 1.363521117 7.161363494 0.965922277 0.380833251 0.129456071 0.095915414 0.08418806 0.41236262 2.39E-06 5.622127071 5.797842376 up QSPNS(ph)SSAAASVASR ddPTM_HeLa_SAHA_4h_R1 1 QSPNSSSAAASVASR 15 0 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 QS(0.268)PNS(0.581)S(0.056)S(0.084)AAAS(0.012)VASR 152.59 4.44E-05 11704000 570.25 550.39 587.4 632.04 648.09 958.38 584.44 538.81 835.61 626.51 TRUE FALSE FALSE 630.2315114 568.2229971 667.447813 644.2740481 598.4334842 876.7206323 518.677273 525.0280204 829.794922 653.5219122 0.964361714 0.86947811 1.021309004 0.985849191 0.915705309 1.341532114 0.793664701 0.803382428 1.269727773 1 9.352091799 -4.616397444 20.69068214 0.994616717 0.797819211 0.259108323 0.148232538 3.487005409 765.4816118 0.015217592 0.056939215 2.42E-05 4.616397444 -0.196797505 QSPSPSEVSQS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 1 QSPSPSEVSQSPGR 14 0 A0A5F9ZH11;P55201-3;P55201;P55201-2;A0A5F9ZHX4;A0A5F9ZHW9;P55201-4;C9JHC0 A0A5F9ZH11 BRPF1 Peregrin 1 0 QSPSPS(0.002)EVS(0.054)QS(0.944)PGR 102.72 0.0037607 1616400 618.15 424.79 515.92 569.77 598.5 324.85 531.7 631.1 782.72 462.45 TRUE FALSE FALSE 683.1698532 438.5534747 586.2268908 580.7987223 552.6430593 297.1709524 471.8717166 614.9573758 777.2729878 482.3884827 1.416223392 0.90912924 1.215258888 1.204006196 1.145639001 0.616040729 0.978198555 1.2748177 1.611300882 1 8.914051652 -5.491439108 24.73126333 1.179024784 0.945587409 0.188459808 0.238330306 754.9104957 593832.1172 0.031384532 0.070106938 3.23E-06 5.491439108 -0.233437375 QSQESLPGAVS(ph)PLSGR ddPTM_HeLa_SAHA_4h_R1 1 QSQESLPGAVSPLSGR 16 0 Q69YU3 Q69YU3 ANKRD34A Ankyrin repeat domain-containing protein 34A 1 0 QSQESLPGAVS(0.78)PLS(0.22)GR 155.24 2.16E-05 6832300 630.41 806.19 966.17 1143.6 1035.3 1042.7 831.91 918.7 829.75 603.22 TRUE FALSE FALSE 696.7194162 832.311085 1097.834616 1165.736032 955.9755377 953.8560939 738.3012973 895.2009843 823.9757022 629.2277663 1.10726108 1.322750091 1.744733266 1.852645567 1.519283777 1.515915452 1.17334507 1.42269784 1.309503087 1 9.297438525 -7.133784911 2.916744799 1.048009591 1.533827059 0.443714038 0.19205109 0.14147379 2.304585846 0.032869871 0.040779084 7.35E-08 7.133784911 0.485817468 QSRPANK(ac)QSPSPSEVSQSPGR ddPTM_HeLa_SAHA_4h_R1 1 QSRPANKQSPSPSEVSQSPGR 21 2 A0A5F9ZH11;P55201-3;P55201;P55201-2;A0A5F9ZHX4;A0A5F9ZHW9;P55201-4;C9JHC0 A0A5F9ZH11 BRPF1 Peregrin 0 1 QSRPANK(1)QSPSPSEVSQSPGR 131.54 3.87E-08 323100 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 QSS(ph)FEIPDDVPLPAGWEMAK ddPTM_HeLa_SAHA_4h_R1 2 QSSFEIPDDVPLPAGWEMAK 20 0 P46937-6;P46937-7;P46937;P46937-9;P46937-5;P46937-3;P46937-2;P46937-8 P46937-6 YAP1 Transcriptional coactivator YAP1 1 0 QS(0.159)S(0.841)FEIPDDVPLPAGWEMAK;QS(0.369)S(0.631)FEIPDDVPLPAGWEMAK ; 140.13 3.31E-05 8381500 2756.2 3063.1 3424.5 2746.46 2435.92 2560.76 2810.4 2692.4 3147.6 2879.9 TRUE FALSE FALSE 3046.109762 3162.34645 3891.173026 2799.621705 2249.280336 2342.568842 2494.166395 2623.532307 3125.695595 3004.066583 1.013995422 1.052688535 1.295301858 0.931943959 0.748745167 0.779799241 0.830263354 0.87332695 1.040488121 1 11.55270107 -5.995302076 15.04503195 1.034256536 0.811685106 0.661600475 0.089011389 0.56059472 1786.442226 0.013817946 0.024785933 1.01E-06 5.995302076 -0.22257143 QSS(ph)GASSSSFSSSR ddPTM_HeLa_SAHA_4h_R1 2 QSSGASSSSFSSSR 14 0 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;F6S8Q4;A0A2R8YDT5;A0A2R8Y7T2;A0A0J9YVQ7;A0A087WVZ1 A0A2R8Y5G6 DDX3X ATP-dependent RNA helicase DDX3X 1 0 QS(0.089)S(0.78)GAS(0.052)S(0.002)S(0.002)S(0.002)FSS(0.018)S(0.053)R;QS(0.032)S(0.955)GAS(0.009)S(0.003)S(0.001)SFSSSR ; 188 5.61E-25 2443600 1506.78 890.04 1100.06 1416.76 1090.99 1348.29 1538.14 1340.72 1167.07 925.31 TRUE FALSE FALSE 1665.270034 918.87788 1249.970448 1444.183438 1007.398582 1233.408107 1365.064439 1306.426324 1158.948265 965.2046425 1.725302553 0.952003171 1.295031533 1.496245848 1.043715019 1.277872124 1.41427463 1.353522628 1.200728026 1 9.914691044 -4.763198765 24.88272237 1.30423294 1.383898623 0.008997255 0.226274147 227.4416943 3216948.633 0.040985023 0.133038793 1.73E-05 4.763198765 0.079665683 QSS(ph)LTFQSSDPEQMR ddPTM_HeLa_SAHA_4h_R1 1 QSSLTFQSSDPEQMR 15 0 A0A0X1KG75;A0A590PXD8;A0A0D9SG04;Q53SF7;Q53SF7-3;Q53SF7-2 A0A0X1KG75 COBLL1 Cordon-bleu protein-like 1 1 0 QS(0.044)S(0.6)LT(0.322)FQS(0.022)S(0.012)DPEQMR 191.4 4.65E-09 12017000 463.94 646.97 679.83 350.31 712.29 923.4 901.87 447.03 333.62 797.86 TRUE FALSE FALSE 512.7393378 667.9322525 772.473692 357.0907566 657.7144941 844.7211251 800.389214 435.5956199 331.2983113 832.2596492 0.616080977 0.802552729 0.928164297 0.42906172 0.790275601 1.014973063 0.961706139 0.523389089 0.398070856 1 9.700889882 -9.561268076 1.341016139 0.999730964 0.750956888 0 0.259058499 0.571237015 1.844127945 0.127829709 0.030242512 2.75E-10 9.561268076 -0.248774076 QSS(ph)PSGSEQLVR ddPTM_HeLa_SAHA_4h_R1 1 QSSPSGSEQLVR 12 0 H0Y704;O15231-2;O15231-3;H7BZT5;O15231-9;O15231-5;O15231-4;O15231-7;O15231;O15231-8;O15231-6 H0Y704 ZNF185 Zinc finger protein 185 1 0 QS(0.077)S(0.919)PS(0.003)GS(0.002)EQLVR 194.59 2.62E-07 26489000 1905.5 2719.2 1837.3 1734.9 2310.8 2807.4 2877.3 2099.4 3036.4 2007 TRUE FALSE FALSE 2105.929233 2807.303864 2087.677676 1768.481498 2133.747003 2568.193726 2553.538631 2045.700388 3015.269445 2093.531592 1.005921879 1.340941725 0.997203808 0.844735998 1.019209364 1.226727954 1.219727775 0.977152863 1.440278932 1 11.03172297 -5.822835294 0.173563725 0.964394206 1.183761854 0 0.198699801 20.49424192 1.274094729 0.407300118 1.194743754 1.50E-06 5.822835294 0.219367648 QSS(ph)SSDTDLSLTPK ddPTM_HeLa_SAHA_4h_R1 2 QSSSSDTDLSLTPK 14 0 Q86YS7;H0YFE9;Q86YS7-3 Q86YS7;Q86YS7-3 C2CD5 C2 domain-containing protein 5 1 0 QS(0.075)S(0.914)S(0.009)SDTDLSLTPK;QS(0.382)S(0.607)S(0.006)S(0.006)DTDLSLTPK ; 180.02 6.38E-07 8634100 2531.7 3603.7 2663.58 2024.67 2987.6 3341.4 2956.4 1768.26 2729.7 3172.5 TRUE FALSE FALSE 2797.995822 3720.462244 3026.558811 2063.860416 2758.690733 3056.693922 2623.738091 1723.03047 2710.703795 3309.282001 0.845499362 1.124250591 0.914566607 0.623658067 0.833622137 0.923672845 0.7928421 0.520665954 0.819121427 1 11.69230252 -6.433067641 8.578311989 0.943516559 0.757946819 0.372581799 0.130267638 0.316881246 27.93780418 0.019937738 0.030461919 3.69E-07 6.433067641 -0.185569739 QSSCGK(ac)FQTK ddPTM_HeLa_SAHA_4h_R1 1 QSSCGKFQTK 10 1 Q9GZR7-2;Q9GZR7 Q9GZR7-2 DDX24 ATP-dependent RNA helicase DDX24 0 1 QSSCGK(1)FQTK 193.3 2.06E-18 9771600 941.04 387.2 614.91 1089.6 950.58 959.11 951.11 1398.6 967.8 494.25 FALSE TRUE FALSE 1040.022905 399.7455341 698.7067325 1110.690784 877.7467658 877.3884322 844.0885996 1362.825837 961.065001 515.5595363 2.017270231 0.775362506 1.355239663 2.154340489 1.702512909 1.701817871 1.637228177 2.643391774 1.864120307 1 9.009995228 -10.8294979 0.362661959 1.88E-59 1.809138537 0 0.528668663 8.843870187 0.634135011 7.488072656 0.160285827 1.48E-11 10.8294979 1.809138537 QSSGAS(ph)SSSFSSSR ddPTM_HeLa_SAHA_4h_R1 1 QSSGASSSSFSSSR 14 0 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;F6S8Q4;A0A2R8YDT5;A0A2R8Y7T2;A0A0J9YVQ7;A0A087WVZ1 A0A2R8Y5G6 DDX3X ATP-dependent RNA helicase DDX3X 1 0 QS(0.07)S(0.035)GAS(0.547)S(0.176)S(0.164)S(0.008)FSSSR 107.63 0.0027044 3707500 323.83 332.88 362.04 356.71 337.1 366.8 305.8 268.38 503.18 365.49 TRUE FALSE FALSE 357.8919252 343.6655304 411.3769258 363.6146379 311.2714708 335.5465764 271.3905792 261.5152282 499.6783294 381.2480626 0.938737689 0.901422366 1.079026928 0.953748159 0.816453909 0.88012664 0.71184776 0.685945068 1.310638344 1 8.574586196 -4.909353806 0.873135909 0.973010871 0.632946615 0.508146457 0.120647121 0.36864194 0.359823731 0.00925685 0.09655865 1.23E-05 4.909353806 -0.340064256 QSSGASSSS(ph)FSSSR ddPTM_HeLa_SAHA_4h_R1 4 QSSGASSSSFSSSR 14 0 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;F6S8Q4;A0A2R8YDT5;A0A2R8Y7T2;A0A0J9YVQ7;A0A087WVZ1 A0A2R8Y5G6 DDX3X ATP-dependent RNA helicase DDX3X 1 0 QSSGASS(0.001)S(0.003)S(0.996)FSSSR;QSSGAS(0.002)S(0.004)S(0.004)S(0.99)FSSSR;QSSGAS(0.003)S(0.003)S(0.011)S(0.983)FS(0.001)SSR;QSSGAS(0.002)S(0.005)S(0.021)S(0.972)FSSSR ;;; 245.39 1.10E-44 48235000 6263.6 6114.6 4487.86 6188.3 7181.5 5999.75 6867.7 8010.4 5873.7 5096.64 TRUE FALSE FALSE 6922.434186 6312.717052 5099.442189 6308.083495 6631.255021 5488.537546 6094.928321 7805.505567 5832.824443 5316.381093 1.302095178 1.187408679 0.959194253 1.186537117 1.247324995 1.032382264 1.146443081 1.468199031 1.097141898 1 12.37622881 -9.568686771 1.353209593 1.000231454 1.1944398 0.139530407 0.134594196 0.530333386 1.744068517 0.093315925 0.022010566 2.70E-10 9.568686771 0.194208346 QSSGASSSSFSSSR ddPTM_HeLa_SAHA_4h_R1 5 QSSGASSSSFSSSR 14 0 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;F6S8Q4;A0A2R8YDT5;A0A2R8Y7T2;A0A0J9YVQ7;A0A087WVZ1 A0A2R8Y5G6 DDX3X ATP-dependent RNA helicase DDX3X 0 0 ;;;; ;;;; 203.85 2.31E-11 4643000 0 0 0 0 111.57 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 103.0215307 0 0 0 0 0 0 QSSGASSSSFSSSRAS(ph)SSR ddPTM_HeLa_SAHA_4h_R1 1 QSSGASSSSFSSSRASSSR 19 1 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;F6S8Q4;A0A2R8YDT5;A0A2R8Y7T2;A0A0J9YVQ7;A0A087WVZ1 A0A2R8Y5G6 DDX3X ATP-dependent RNA helicase DDX3X 1 0 QSSGASSSSFS(0.003)S(0.023)S(0.023)RAS(0.415)S(0.12)S(0.415)R 61.111 0.011818 1943200 266.54 0 199.85 206.74 123.03 190.25 203.56 210.74 0 167.78 TRUE FALSE FALSE 294.5759001 0 227.0845172 210.7417517 113.603468 174.0396297 180.6548931 205.3495759 0 175.0138169 1.683157966 0 1.297523368 1.204143509 0.649111424 0.994433655 1.032232176 1.173333509 0 1 7.451325013 QSSGASSSSFSSSRASS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 QSSGASSSSFSSSRASSSR 19 1 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;F6S8Q4;A0A2R8YDT5;A0A2R8Y7T2;A0A0J9YVQ7;A0A087WVZ1 A0A2R8Y5G6 DDX3X ATP-dependent RNA helicase DDX3X 1 0 QSSGASSSSFS(0.005)S(0.02)S(0.02)RAS(0.152)S(0.402)S(0.402)R 87.457 0.0016579 1838100 203.63 66.383 135.89 240.61 326.41 167.3 232.37 304.93 0 141.45 TRUE FALSE FALSE 225.0487377 68.53385276 154.4083815 245.2673545 301.4005363 153.0450988 206.223116 297.1303321 0 147.5486017 1.525251578 0.464483241 1.046491662 1.662281795 2.042720383 1.037252112 1.397662286 2.013779383 0 1 7.205046439 -6.255913644 24.69169962 1.169362188 1.607706832 0.273024887 0.525485272 469.4081278 2097542.565 0.061216252 0.099635483 5.55E-07 6.255913644 0.438344644 QSSGSAT(ph)NVASTPDNR ddPTM_HeLa_SAHA_4h_R1 2 QSSGSATNVASTPDNR 16 0 H0Y5T1;Q7Z460-2;Q7Z460-3;F8WA11;Q7Z460-5;Q7Z460;Q7Z460-4 H0Y5T1;Q7Z460-4 CLASP1 CLIP-associating protein 1 1 0 QS(0.027)S(0.012)GS(0.292)AT(0.667)NVAS(0.001)TPDNR;QSSGS(0.003)AT(0.699)NVAS(0.297)T(0.001)PDNR ; 178.99 5.16E-09 7035200 1045.67 1092.87 828.93 974.77 848.08 1200.39 1025.53 1063.92 1079.72 1057.02 TRUE FALSE FALSE 1155.658368 1128.279705 941.8922635 993.6380829 783.1002936 1098.110019 910.1346654 1036.706467 1072.206141 1102.593305 1.048127504 1.02329635 0.854251753 0.901182765 0.710234943 0.995933871 0.825449113 0.940243753 0.972440278 1 10.10668503 -6.764782957 24.79326046 1.023404615 0.868849503 0.46440574 0.07301004 42.69113338 316563.8075 0.010555791 0.014195446 1.72E-07 6.764782957 -0.154555112 QSSGSATNVAST(ph)PDNR ddPTM_HeLa_SAHA_4h_R1 2 QSSGSATNVASTPDNR 16 0 H0Y5T1;Q7Z460-2;Q7Z460-3;F8WA11;Q7Z460-5;Q7Z460;Q7Z460-4 H0Y5T1;Q7Z460-4 CLASP1 CLIP-associating protein 1 1 0 QSSGSATNVAS(0.042)T(0.958)PDNR;QSSGSATNVAS(0.007)T(0.993)PDNR ; 145.79 2.94E-08 1079400 462.4 429 445.63 442.16 492.91 396.85 546.32 619.59 797.07 561.86 TRUE FALSE FALSE 511.0373536 442.8998815 506.3581357 450.7186462 455.1433423 363.0361474 484.8466358 603.741785 791.523125 586.0845343 0.871951611 0.755692832 0.863967749 0.769033509 0.776583096 0.619426254 0.827263999 1.030127481 1.350527234 1 9.194964957 -8.201069382 0.69016485 0.989351559 0.796067194 0.371352265 0.151971171 0.499029671 0.520996637 0.042475592 0.025030512 6.29E-09 8.201069382 -0.193284365 QSSLAEPVS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 1 QSSLAEPVSPSK 12 0 E7EMD6;O43572 E7EMD6 AKAP10 "A-kinase anchor protein 10, mitochondrial" 1 0 QSSLAEPVS(0.5)PS(0.5)K 134.02 0.00089574 7322300 2308.6 3005.9 2608.5 2623.8 2840.2 3471.2 2960.7 3192.6 3842.9 3154.2 TRUE FALSE FALSE 2551.42914 3103.293132 2963.972796 2674.587443 2622.58449 3175.434232 2627.554244 3110.937915 3816.156946 3290.192998 0.775464887 0.943194862 0.900850739 0.812896825 0.797091384 0.965120962 0.798601859 0.945518368 1.159858084 1 11.6839565 -9.571700041 1.347669302 1.000087835 0.855677138 0.435483267 0.085237229 0.362263481 1.178284888 0.047419214 0.011081955 2.68E-10 9.571700041 -0.144410696 QSSLT(ph)FQSSDPEQMR ddPTM_HeLa_SAHA_4h_R1 1 QSSLTFQSSDPEQMR 15 0 A0A0X1KG75;A0A590PXD8;A0A0D9SG04;Q53SF7;Q53SF7-3;Q53SF7-2 A0A0X1KG75 COBLL1 Cordon-bleu protein-like 1 1 0 QS(0.016)S(0.202)LT(0.782)FQSSDPEQMR 283.22 3.74E-69 14448000 781.74 1015.6 1149.2 421.86 897.55 996.11 1215.2 492.66 686.24 977.64 TRUE FALSE FALSE 863.967 1048.506106 1305.806991 430.0257103 828.7799129 911.235824 1078.462498 480.0584706 681.4644 1019.790845 0.847200192 1.028157991 1.280465497 0.421680301 0.812695973 0.893551681 1.057533026 0.470742087 0.668239378 1 9.994057576 -6.264982062 24.99323977 0.959173444 0.762910558 0.203057631 0.226932494 416.296167 2936924.753 0.031457629 0.04924227 5.43E-07 6.264982062 -0.196262886 QSSRSPS(ph)HTS(ph)LSARNR ddPTM_HeLa_SAHA_4h_R1 1 QSSRSPSHTSLSARNR 16 2 H7C5I6 H7C5I6 CCDC39 2 0 QSSRS(0.057)PS(0.617)HT(0.394)S(0.547)LS(0.385)ARNR 85.006 0.0039077 0 1533.2 1265.6 1420.3 1573 1437.9 1855.9 1534.1 1993.2 1744 1660.6 TRUE FALSE FALSE 1694.469011 1306.60627 1613.851087 1603.44769 1327.728413 1697.766879 1361.47903 1942.21683 1731.863362 1732.196593 0.978219803 0.754305993 0.931678941 0.925673042 0.766499841 0.980123668 0.785984129 1.121245035 0.999807625 1 10.75838696 -7.487906638 24.60065461 0.99039116 0.889964898 0.154416261 0.1045343 441.8466156 310813.8909 0.016126004 0.017891035 3.25E-08 7.487906638 -0.100426262 QSSSSTTSQGGVK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 QSSSSTTSQGGVKR 14 1 P18615;P18615-3;A0A0A0MT02;E9PD43;A0A0A0MSN9;P18615-4;A0A0G2JI50;A2ABK4 P18615 NELFE Negative elongation factor E 0 1 ; QSSSSTTSQGGVK(1)R;QSSSSTTSQGGVK(1)R 181.76 2.28E-16 796140 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 QSSTPGSLFLS(ph)PPAPAPK ddPTM_HeLa_SAHA_4h_R1 1 QSSTPGSLFLSPPAPAPK 18 0 F5GWT4;Q9H4A3-2;Q9H4A3;Q9H4A3-5;Q9H4A3-6;Q9H4A3-7;F6UYG0 F5GWT4 WNK1 Serine/threonine-protein kinase WNK1 1 0 QSSTPGS(0.003)LFLS(0.997)PPAPAPK 103.71 0.0017065 3059500 871.36 843.9 740.28 831.48 856.71 1132.2 792.28 949.04 926.18 824.55 TRUE FALSE FALSE 963.0136427 871.2429137 841.1615032 847.5744977 791.0690649 1035.73019 703.1305692 924.764931 919.734638 860.1003857 1.119652611 1.012954916 0.977980614 0.985436714 0.919740391 1.204196868 0.817498261 1.075182556 1.069334061 1 9.748361242 -7.016112505 22.84910444 1.057018476 0.994079735 0.083647823 0.097516117 448.43007 635919.3326 0.015532493 0.019342433 9.64E-08 7.016112505 -0.062938741 QSSVTQVTEQS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 QSSVTQVTEQSPK 13 0 Q14966-3;Q14966;C9JWN0;Q14966-2;Q14966-6;Q14966-4 Q14966-3 ZNF638 Zinc finger protein 638 1 0 QSSVTQVTEQS(1)PK;QSSVTQVTEQS(1)PK ; 202.01 2.16E-33 3519900 3240.9 3361.2 2736.7 3626.5 3592.1 3887.8 3289.5 3593.3 4148.6 3214.8 TRUE FALSE FALSE 3581.792732 3470.105085 3109.643224 3696.696152 3316.874074 3556.537568 2919.356803 3501.388589 4119.729555 3353.405761 1.068105976 1.03480024 0.927308965 1.102370669 0.989106094 1.060574777 0.870564736 1.044129115 1.228521047 1 11.71141134 -4.79691364 24.99965497 1.028963854 0.957346279 0.118155182 0.086948635 176.726555 124543.7396 0.007747405 0.02324354 1.60E-05 4.79691364 -0.071617575 QSVDKVT(ph)SPTKV ddPTM_HeLa_SAHA_4h_R1 1 QSVDKVTSPTKV 12 2 E7EX44;Q05682-3;Q05682-6;Q05682-2;Q05682;Q05682-5;Q05682-4 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 1 0 QSVDKVT(0.498)S(0.498)PT(0.004)KV 157.09 0.00045104 92948000 2877.1 2431.3 2426.1 2361 2494 1925.2 2552.8 1957.4 1888.5 2101.8 TRUE FALSE FALSE 3179.726579 2510.075715 2756.716273 2406.700569 2302.910259 1761.162129 2265.552225 1907.332542 1875.357775 2192.418884 1.450328038 1.14488875 1.257385755 1.097737566 1.050397018 0.803296369 1.033357376 0.869967211 0.855382969 1 11.09830775 -5.754466027 1.906300577 1.214410972 0.916090996 0.214194811 0.165387207 0.279172537 2.063058438 0.026751756 0.060391836 1.76E-06 5.754466027 -0.298319977 QSVDKVTS(ph)PTKV ddPTM_HeLa_SAHA_4h_R1 3 QSVDKVTSPTKV 12 2 E7EX44;Q05682-3;Q05682-6;Q05682-2;Q05682;Q05682-5;Q05682-4 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 1 0 QSVDKVT(0.101)S(0.898)PT(0.001)KV;QSVDKVT(0.026)S(0.968)PT(0.006)KV;QSVDKVT(0.086)S(0.91)PT(0.005)KV ;; 156.08 0.0010499 171236000 7901.2 7081.4 7449.5 6685.8 7710.9 7584.7 7734 6873.1 6048.5 6337.8 TRUE FALSE FALSE 8732.284468 7310.842006 8464.679065 6815.213327 7120.092508 6938.44089 6863.749965 6697.296054 6006.407996 6611.053574 1.320861247 1.105851272 1.280382766 1.030881576 1.076998156 1.049521201 1.038223316 1.013045194 0.908540209 1 12.69066449 -6.205093319 24.97629332 1.160001391 1.043930539 0.067562657 0.115937256 397.0412451 175994.5161 0.018644863 0.030918996 6.24E-07 6.205093319 -0.116070852 QSVENDIHGLR ddPTM_HeLa_SAHA_4h_R1 2 QSVENDIHGLR 11 0 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 ; ; 155.47 0.00034617 13934400 7016.8 8030.1 6970.8 5803.7 7670.4 8088.3 7814.7 6921.4 6557.8 7472.5 FALSE FALSE TRUE 7754.859218 8290.280509 7920.744322 5916.039006 7082.695609 7399.131336 6935.369389 6744.36061 6512.163736 7794.676045 0.994891792 1.063582433 1.016173639 0.758984591 0.908658111 0.949254503 0.889757233 0.865252202 0.835463039 1 12.92827335 -6.312283183 24.99693379 1.004793272 0.881299305 0.330104589 0.072825672 176.7181376 86881.66583 0.00749742 0.011452505 4.87E-07 6.312283183 -0.123493968 QSVFPFESGK(ac)PFK ddPTM_HeLa_SAHA_4h_R1 1 QSVFPFESGKPFK 13 1 P17931;G3V3R6 P17931 LGALS3 Galectin-3;Galectin 0 1 QSVFPFESGK(1)PFK 123.95 0.0013171 347310 0 235.22 0 0 198 0 133.27 190.24 0 0 FALSE TRUE FALSE 0 242.8412823 0 0 182.8292828 0 118.2741089 185.3739363 0 0 0 QT(ph)EAVLNALLPT(ph)LRK ddPTM_HeLa_SAHA_4h_R1 1 QTEAVLNALLPTLRK 15 1 Q8NI77 Q8NI77 KIF18A Kinesin-like protein KIF18A 2 0 QT(1)EAVLNALLPT(1)LRK 53.909 0.021762 8896400 201.82 269.5 242.04 281.42 551.34 672.92 750.62 391.26 449.74 554.86 TRUE FALSE FALSE 223.0483536 278.2319768 275.0239507 286.867291 509.0964483 615.5834303 666.1582621 381.2521357 446.6102227 578.78273 0.385374929 0.48071921 0.475176498 0.495638996 0.879598547 1.063582927 1.150964304 0.658713738 0.771637092 1 9.176878064 -5.584585611 6.250489852 0.651424929 0.976515735 0.376971736 0.207484054 0.230778717 17.44961715 0.04064054 0.082182927 2.60E-06 5.584585611 0.325090806 QT(ph)EIAYGT(ph)LEAGS(ph)T(ph)KEFFR ddPTM_HeLa_SAHA_4h_R1 1 QTEIAYGTLEAGSTKEFFR 19 1 P42261-3;P42261-4;P42261-2;P42261;P42261-6;P42261-5 P42261-3 GRIA1 Glutamate receptor 1 4 0 QT(0.794)EIAY(0.356)GT(0.85)LEAGS(1)T(1)KEFFR 45.577 0.021373 5729500 287.77 212.81 289.11 288.94 320.73 312.64 393.05 267.46 321.31 300.71 TRUE FALSE FALSE 318.0389689 219.7051836 328.5084052 294.5328515 296.1557367 286.0013131 348.8229795 260.6187605 319.0739775 313.6750797 1.013912132 0.700422819 1.047288823 0.938974342 0.94414812 0.911775693 1.112051936 0.830855804 1.017211752 1 8.293127107 QTAEETGLTPLETS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 QTAEETGLTPLETSR 15 0 Q5T8C6;Q13042-4;Q13042-3;Q13042-2;Q13042 Q5T8C6 CDC16 Cell division cycle protein 16 homolog 1 0 QTAEET(0.004)GLT(0.009)PLET(0.204)S(0.783)R 74.428 0.020856 2392200 605.96 632.44 438.87 434.61 633.99 676.05 533.72 583.92 726.1 525.82 TRUE FALSE FALSE 669.697653 652.931471 498.6769181 443.022505 585.4138232 618.4467366 473.6644209 568.9841719 721.047011 548.4906735 1.220982754 1.190414901 0.909180305 0.807712011 1.067317735 1.127542849 0.863577894 1.03736344 1.314602136 1 9.099323279 -6.757236476 24.99999676 1.113723358 0.968374234 0.374245367 0.122822644 118.7730821 706490.6238 0.019795367 0.02742799 1.75E-07 6.757236476 -0.145349124 QTAGQGSPCEEQEEPRAPVAPT(ph)PPTLIK ddPTM_HeLa_SAHA_4h_R1 1 QTAGQGSPCEEQEEPRAPVAPTPPTLIK 28 1 O14686;O14686-3 O14686 KMT2D Histone-lysine N-methyltransferase 2D 1 0 QT(0.001)AGQGS(0.201)PCEEQEEPRAPVAPT(0.782)PPT(0.016)LIK 48.84 0.021434 7674600 417.55 326.14 434.83 418.31 226.38 450.69 525.37 424.46 404.46 343.68 TRUE FALSE FALSE 461.4698248 336.70715 494.0863679 426.4069949 209.0348133 412.2886765 466.2539849 413.6029278 401.6453299 358.4977267 1.28723222 0.939216974 1.378213392 1.189427333 0.583085464 1.150045442 1.300577243 1.153711438 1.1203567 1 8.48582016 QTDFEHR ddPTM_HeLa_SAHA_4h_R1 2 QTDFEHR 7 0 Q01813;Q01813-2;B1APP6 Q01813 PFKP "ATP-dependent 6-phosphofructokinase, platelet type" 0 0 ; ; 150.4 0.00013388 2494500 1930.63 1949.93 2121.16 2739.3 2411.8 2365.56 2770.5 2560.1 2448.7 2458.9 FALSE FALSE TRUE 2133.702521 2013.109011 2410.220638 2792.323113 2227.008405 2164.00098 2458.756048 2494.616349 2431.659297 2564.915213 0.831880333 0.784863765 0.939688231 1.088660981 0.868258098 0.843692988 0.958611044 0.97259213 0.948046659 1 11.32469542 -6.555896395 24.99643949 0.906023575 0.944718073 0.082446333 0.08277449 609.0275 461070.1057 0.0155605 0.02200595 2.78E-07 6.555896395 0.038694498 QTESTSFLEK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 QTESTSFLEKK 11 1 G3V5Z7;P60900;G3V295;P60900-2;P60900-3 G3V5Z7 PSMA6 Proteasome subunit alpha type;Proteasome subunit alpha type-6 0 1 QTESTSFLEK(1)K 132.86 0.00027408 1142000 202.17 381.67 198.26 420.02 398.14 376.37 357.41 437.95 283.95 188.25 FALSE TRUE FALSE 223.4351682 394.0363584 225.2778403 428.1500945 367.6345992 344.3011586 317.1932861 426.7478731 281.9739688 196.3663788 1.137848391 2.006638615 1.147232239 2.180363549 1.87218709 1.753361043 1.61531362 2.173222707 1.43595849 1 7.617404127 -7.244593739 1.039857237 1.027008566 1.854104762 0.396987849 0.322400717 0.218883502 0.464062815 0.058432137 0.070049189 5.69E-08 7.244593739 0.827096196 QTETEMLYGSAPRT(ph)PSK ddPTM_HeLa_SAHA_4h_R1 2 QTETEMLYGSAPRTPSK 17 1 O43663-3;O43663-2;O43663-4;O43663;G3V3N7;H0YL53 O43663-3 PRC1 Protein regulator of cytokinesis 1 1 0 QTET(0.005)EMLYGS(0.008)APRT(0.978)PS(0.009)K;QTETEMLYGS(0.005)APRT(0.993)PS(0.001)K ; 219.72 2.61E-19 23252000 4728 3443 3811.5 4146 4109.2 4006.5 3888 4498 2476.9 3937.6 TRUE FALSE FALSE 5225.312733 3554.555459 4330.911371 4226.251825 3794.353984 3665.12366 3450.512007 4382.947673 2459.663051 4107.369206 1.272179946 0.865409288 1.054424658 1.028943738 0.923791798 0.892328757 0.840078365 1.067093668 0.598841479 1 12.00399892 -7.249781633 24.93197338 1.128529421 0.952145314 0 0.19281102 643.9726958 1377240.751 0.02033473 0.024792528 5.63E-08 7.249781633 -0.176384107 QTGIET(ph)PNK ddPTM_HeLa_SAHA_4h_R1 2 QTGIETPNK 9 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 QTGIET(1)PNK;QT(0.001)GIET(0.999)PNK ; 165.35 0.0001013 24548000 5040.4 6309 3393.5 4530.6 4860.2 4696.1 3735.5 3817.5 8529.4 5634.7 TRUE FALSE FALSE 5570.572398 6513.415739 3855.948507 4618.296314 4487.812526 4295.96586 3315.171709 3719.853878 8470.043211 5877.639493 0.947756732 1.108168636 0.65603692 0.785739976 0.763539943 0.730899856 0.564031141 0.632882279 1.441062049 1 12.52102116 -6.117766307 0.642662751 0.991113388 0.605187632 0.539819772 0.17143987 0.331358505 0.257032131 0.020232584 0.060819299 7.62E-07 6.117766307 -0.385925756 QTGIET(ph)PNKSGK ddPTM_HeLa_SAHA_4h_R1 1 QTGIETPNKSGK 12 1 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 QTGIET(0.976)PNKS(0.024)GK 104.9 0.0024474 0 980.08 850.34 844.42 760.98 803.92 693.62 711.36 689.72 719.3 774.84 TRUE FALSE FALSE 1083.169311 877.8915739 959.49316 775.7098683 742.3238233 634.5196738 631.3159006 672.0779611 714.2943327 808.2471444 1.340146165 1.086167245 1.187128426 0.959743407 0.918436679 0.785056499 0.781092646 0.831525315 0.883757323 1 9.658652695 -5.909399318 1.552612067 1.161299835 0.800873319 0.492929559 0.122777237 0.19702067 0.953599723 0.020543979 0.045379027 1.23E-06 5.909399318 -0.360426516 QTGYGWICQECDS(ph)SSSKEDENEAERK ddPTM_HeLa_SAHA_4h_R1 1 QTGYGWICQECDSSSSKEDENEAERK 26 2 A0A0U1RRH6;O94880-2 A0A0U1RRH6 PHF14 PHD finger protein 14 1 0 QTGYGWICQECDS(0.282)S(0.218)S(0.218)S(0.282)KEDENEAERK 61.437 0.0014847 16156000 486.41 484.31 296.36 308.97 453.72 575.15 504.14 406.04 638.35 544.59 TRUE FALSE FALSE 537.5728355 500.0019618 336.7463974 314.9505611 418.9560716 526.1439843 447.4128404 395.6540847 633.9076704 568.0699401 0.946314525 0.880176764 0.592790383 0.554422156 0.737507905 0.926195785 0.787601682 0.696488332 1.115897226 1 9.149924753 -6.969481648 5.173574786 0.972186611 0.722085785 0.614167509 0.10685567 0.105539351 7.387293091 0.017491088 0.022839508 1.07E-07 6.969481648 -0.250100826 QTLMWSATWPK ddPTM_HeLa_SAHA_4h_R1 2 QTLMWSATWPK 11 0 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2;P17844-2;P17844;J3KTA4;J3QSF1;J3KRZ1 A0A1X7SBZ2;P17844-2 DDX17;DDX5 Probable ATP-dependent RNA helicase DDX17;Probable ATP-dependent RNA helicase DDX5 0 0 ; ; 188.96 1.08E-16 1195350 406.282 445.85 454.99 443.93 559.41 505.71 759.51 346.53 494.57 410.66 FALSE FALSE TRUE 449.0166048 460.2958325 516.9936677 452.5229071 516.5481267 462.620663 674.0479359 337.6662644 491.1282471 428.3655623 1.048208923 1.074539769 1.206898297 1.056394227 1.205858202 1.079966981 1.573534371 0.788266598 1.146516644 1 8.742698692 -7.021126667 0.740297993 1.010905687 1.179688662 0.011232439 0.188299842 0.884106494 0.991686694 0.039995797 0.055790742 9.53E-08 7.021126667 0.168782975 QTLSIYQALK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 QTLSIYQALKK 11 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 1 ; QTLSIYQALK(1)K;QTLSIYQALK(1)K 139.32 6.76E-05 1054810 215.2 529.282 342.93 315.27 640.23 493.45 979.87 321.76 0 201.48 FALSE TRUE FALSE 237.8357234 546.4310841 389.6627145 321.3725067 591.1757157 451.4052839 869.6124487 313.5298451 0 210.1667888 1.131652269 2.599987787 1.854064178 1.529130785 2.812888369 2.147843084 4.137725345 1.491814415 0 1 7.715390898 -6.687841849 0.543150596 0.962098993 2.800466318 0.453583216 0.799571275 0.525283456 0.32653056 0.200361501 0.384135464 2.05E-07 6.687841849 1.838367324 QTNGCLNGYT(ph)PSR ddPTM_HeLa_SAHA_4h_R1 3 QTNGCLNGYTPSR 13 0 A0A2R8Y653;Q9BZX2-2;Q9BZX2 A0A2R8Y653 UCK2 Uridine-cytidine kinase 2 1 0 QTNGCLNGYT(0.992)PS(0.008)R;QTNGCLNGYT(0.965)PS(0.035)R;QTNGCLNGYT(0.628)PS(0.372)R ;; 151.49 0.000267 17065800 2088.73 1765.42 1882.12 1828.8 2155.67 2424.43 2620.72 2453.06 2105.4 2317.01 TRUE FALSE FALSE 2308.432205 1822.620766 2138.605512 1864.199068 1990.50303 2217.854925 2325.829688 2390.314277 2090.74835 2416.90764 0.955118088 0.754112708 0.88485198 0.771315808 0.823574305 0.917641571 0.962316329 0.988996947 0.865050991 1 11.23894663 -7.486049834 14.23377 0.980209832 0.870617019 0.079741701 0.080085421 2.76190878 1067.394561 0.01306266 0.014590949 3.27E-08 7.486049834 -0.109592814 QTNGCLNGYTPS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 QTNGCLNGYTPSR 13 0 A0A2R8Y653;Q9BZX2-2;Q9BZX2 A0A2R8Y653 UCK2 Uridine-cytidine kinase 2 1 0 QTNGCLNGY(0.005)T(0.475)PS(0.52)R 83.226 0.016372 3581400 190.82 356.88 306.65 272.17 536.02 534.92 402.13 381.35 329.17 488.22 TRUE FALSE FALSE 210.8913231 368.4431462 348.438665 277.4382439 494.9502634 489.3418066 356.8812741 371.5956192 326.8792792 509.2695535 0.4141055 0.723473735 0.684193003 0.544776812 0.97188269 0.960869943 0.700770882 0.729663921 0.641859064 1 8.992285659 QTNLENLDQAFSVAER ddPTM_HeLa_SAHA_4h_R1 1 QTNLENLDQAFSVAER 16 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;E9PMV1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 131.35 0.00078381 5852800 1128.3 1000.2 798.52 1013.5 1058.8 1062.3 1307.2 1043.6 1329.7 1043 FALSE FALSE TRUE 1246.979771 1032.607136 907.3381471 1033.117758 977.6749727 971.7860637 1160.110416 1016.906223 1320.446509 1087.968834 1.146153944 0.949114629 0.833974392 0.949583964 0.898624062 0.893211306 1.0663085 0.934683229 1.213680455 1 10.08742151 -7.135760766 6.861080176 1.06882603 0.93026878 0.515991666 0.078939027 0.180733612 9.403446157 0.012731208 0.015624937 7.32E-08 7.135760766 -0.13855725 QTNPSAMEVEEDDPVPEIR ddPTM_HeLa_SAHA_4h_R1 2 QTNPSAMEVEEDDPVPEIR 19 0 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 ; ; 177.21 1.45E-08 5017400 587.58 547.32 430.21 518.07 576.84 517.57 572.47 428.52 604.09 554.62 FALSE FALSE TRUE 649.3843603 565.0535271 488.8367784 528.097994 532.6426438 473.4701242 508.0541689 417.5590789 599.8860885 578.5323824 1.122468474 0.976701641 0.844960098 0.912823569 0.920679049 0.818398656 0.878177582 0.721755759 1.036910131 1 9.176253904 -6.923687593 3.612397146 1.057800045 0.855508295 0.704107853 0.059890959 0.103859847 2.717051869 0.011158689 0.014788329 1.19E-07 6.923687593 -0.20229175 QTNPSAMEVEEDDPVPEIRR ddPTM_HeLa_SAHA_4h_R1 2 QTNPSAMEVEEDDPVPEIRR 20 1 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 ; ; 126.14 0.00011786 11232000 955.31 846.76 1253.03 1110.35 1026.61 1247.21 1234.75 1154.99 1038.37 1152.3 FALSE FALSE TRUE 1055.793889 874.1955796 1423.786403 1131.84243 947.9513636 1140.940691 1095.81268 1125.447028 1031.143899 1201.981292 0.878377971 0.727295496 1.184532914 0.941647293 0.788657336 0.94921668 0.911671993 0.936326576 0.857870173 1 10.23119873 -9.436746757 1.231815364 0.998891362 0.911865317 0 0.121032713 1.001623868 2.771604888 0.071271831 0.018799964 3.66E-10 9.436746757 -0.087026045 QTPMASS(ph)PRPK ddPTM_HeLa_SAHA_4h_R1 1 QTPMASSPRPK 11 1 Q5SSJ5;B0QZK4;Q5SWC8;Q5SSJ5-2 Q5SSJ5 HP1BP3 Heterochromatin protein 1-binding protein 3 1 0 QTPMAS(0.327)S(0.673)PRPK 79.885 0.014333 14603000 1884.8 1606.2 1623.6 1894.4 2160.9 2601.2 2559.1 1978.5 2395 2313.3 TRUE FALSE FALSE 2083.051912 1658.241934 1844.855753 1931.068851 1995.332309 2379.563126 2271.143333 1927.892835 2378.333 2413.037684 0.863248811 0.68720101 0.764536652 0.800264689 0.826896456 0.986127627 0.941196794 0.798948499 0.985617844 1 11.23663473 -8.658506289 0.997909766 0.986021529 0.836780497 0.377532298 0.080830989 0.429035397 0.860832358 0.034871148 0.017830773 2.20E-09 8.658506289 -0.149241032 QTPS(ph)PDVVLR ddPTM_HeLa_SAHA_4h_R1 3 QTPSPDVVLR 10 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46;D6RJ93;D6R8Y0;Q9UPQ0-7;Q6NVB9 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 QT(0.024)PS(0.976)PDVVLR;QTPS(1)PDVVLR;QT(0.052)PS(0.948)PDVVLR ;; 151.16 0.00058052 254667000 4267.2 4568.3 4026.4 4957.4 4696 6085.3 4998.5 4934.3 5913.9 4633.4 TRUE FALSE FALSE 4716.043675 4716.315917 4575.096823 5053.357646 4336.193495 5566.798205 4436.055625 4808.087751 5872.744688 4833.168549 0.975766441 0.975822769 0.946604029 1.045557918 0.897174069 1.151790621 0.917835904 0.994810692 1.215092052 1 12.23875359 QTPSKPK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 QTPSKPKK 8 2 F5GZ90;Q9NZJ0;Q9NZJ0-2 F5GZ90 DTL Denticleless protein homolog 0 1 QTPSK(0.01)PK(0.99)K 77.677 0.016741 0 60.688 584.31 395.74 874.16 251.76 320.76 615.39 690.83 938 258.46 FALSE TRUE FALSE 67.07144229 603.2420274 449.6693863 891.0806309 232.4702032 293.4294435 546.1446976 673.1595689 931.4723816 269.6034755 0.248778107 2.237515768 1.667891653 3.305152611 0.862267086 1.088374113 2.02573315 2.496850487 3.454971714 1 8.074695284 -7.259204643 24.9969406 0.645256321 1.923106678 0 1.114156684 141.3416385 1580997.069 0.117090717 0.139752819 5.51E-08 7.259204643 1.277850357 QTQIFTTYSDNQPGVLIQVYEGER ddPTM_HeLa_SAHA_4h_R1 1 QTQIFTTYSDNQPGVLIQVYEGER 24 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 0 0 116.7 5.46E-06 15648000 1360.3 1134.8 1090.1 1239.9 1057.1 1548.1 1215.6 1330.5 1591.2 1160.6 FALSE FALSE TRUE 1503.382595 1171.568265 1238.653151 1263.900057 976.1052264 1416.193171 1078.817489 1296.467737 1580.12671 1210.639146 1.241809007 0.967727063 1.023139847 1.043994044 0.806272645 1.169789673 0.891113997 1.070895271 1.30520041 1 10.24155319 -7.218673628 24.99527492 1.114187645 0.994350285 0.278488777 0.123484052 611.7669328 357559.4721 0.019995955 0.02448982 6.04E-08 7.218673628 -0.11983736 QTQS(ph)ASSTLQK ddPTM_HeLa_SAHA_4h_R1 2 QTQSASSTLQK 11 0 O95819-3;E7EX83;G5E948;C9J840;H7C360;E7ENQ1;H7C0P6;G3XAA2;A0A0D9SG62;A0A0D9SEY1;O95819-4;O95819-2;O95819;O95819-5 O95819-3 MAP4K4 Mitogen-activated protein kinase kinase kinase kinase 4 1 0 QTQS(0.46)AS(0.46)S(0.04)T(0.04)LQK;QT(0.018)QS(0.866)AS(0.036)S(0.077)T(0.003)LQK ; 187.62 1.09E-06 15289300 2828.7 3410.5 3438.9 2525 2769.5 3624.6 3103.7 2381.5 2232.67 2394.9 TRUE FALSE FALSE 3126.235645 3521.002438 3907.535383 2573.875026 2557.301508 3315.763689 2754.463508 2320.584678 2217.132668 2498.155859 1.251417374 1.409440658 1.564167971 1.030310025 1.023675724 1.327284555 1.102598742 0.928919094 0.887507743 1 11.28664777 -4.34089683 3.779975053 1.172759494 0.921029928 0.130763589 0.198501709 0.386483462 9.202447996 0.02768855 0.22583653 4.56E-05 4.34089683 -0.251729566 QTQSESS(ph)NYDSELEKEIK ddPTM_HeLa_SAHA_4h_R1 1 QTQSESSNYDSELEKEIK 18 1 P46100-5;P46100-3;P46100-4;P46100;P46100-2;A0A096LNW1;A0A096LNL9;P46100-6 P46100-5 ATRX Transcriptional regulator ATRX 1 0 QTQS(0.002)ES(0.054)S(0.744)NY(0.005)DS(0.195)ELEKEIK 90.758 0.0017707 17846000 1423.5 1227.2 1143.2 1338.7 1195.1 1251.6 1299.4 1449.7 945.44 1124 TRUE FALSE FALSE 1573.230261 1266.962085 1298.989342 1364.612474 1103.531696 1144.956639 1153.188092 1412.618773 938.8606061 1172.461141 1.341818681 1.080600492 1.107916755 1.163887166 0.941209613 0.976541225 0.983561887 1.204832061 0.800760531 1 10.19532439 -5.781354258 24.75069825 1.154134742 1.019895533 0 0.153325586 288.3160512 358325.9303 0.020995475 0.038094839 1.65E-06 5.781354258 -0.134239209 QTQSESSNYDS(ph)ELEK ddPTM_HeLa_SAHA_4h_R1 2 QTQSESSNYDSELEK 15 0 P46100-5;P46100-3;P46100-4;P46100;P46100-2;A0A096LNW1;A0A096LNL9;P46100-6 P46100-5 ATRX Transcriptional regulator ATRX 1 0 QTQSES(0.004)S(0.34)NYDS(0.656)ELEK;QTQSES(0.004)SNYDS(0.996)ELEK ; 145.43 9.69E-05 9279700 1398.6 1960.45 1264.3 1508.36 1688.55 1857.96 1669.73 1688.58 2451.8 1613.28 TRUE FALSE FALSE 1545.711165 2023.969866 1436.59222 1537.556489 1559.173664 1699.651355 1481.847586 1645.388569 2434.737724 1682.836396 0.918515412 1.20271339 0.853673134 0.913669619 0.926515297 1.009992035 0.880565449 0.977747197 1.446805958 1 10.71667921 QTQTFTTYSDNQPGVLIQVYEGER ddPTM_HeLa_SAHA_4h_R1 2 QTQTFTTYSDNQPGVLIQVYEGER 24 0 P11142;E9PKE3;P11142-2;E9PNE6;A8K7Q2;E9PS65 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ; ; 141.19 5.76E-07 19791800 1774.33 1837.14 1654.57 2451.3 1785.85 2047.6 1885.09 1901.11 2241.61 1826.04 FALSE FALSE TRUE 1960.96217 1896.664541 1880.046183 2498.748456 1649.018559 1873.132961 1672.974712 1852.482359 2226.010453 1904.769521 1.029501023 0.995744903 0.9870203 1.311837694 0.865731282 0.983390872 0.878308212 0.97254935 1.168650815 1 10.89540073 QTS(ph)IETDR ddPTM_HeLa_SAHA_4h_R1 1 QTSIETDR 8 0 E9PFK9;Q9UJ41;Q9UJ41-4;Q9UJ41-3 E9PFK9 RABGEF1 Rab5 GDP/GTP exchange factor 1 0 QT(0.001)S(0.998)IET(0.001)DR 112.94 0.0054525 22217000 3445.3 4861.5 3006.2 2652 4600.3 5784.5 5425.4 3935.4 3827.8 4074 TRUE FALSE FALSE 3807.692462 5019.01579 3415.86928 2703.333295 4247.826008 5291.628057 4814.919713 3834.738166 3801.162028 4249.650078 0.89600141 1.181042132 0.803800129 0.636130798 0.999570772 1.245191477 1.133015572 0.902365629 0.894464711 1 12.05312834 -5.515655512 24.99613628 0.932229774 1.101624672 0.226550851 0.153202104 412.2221981 1426500.251 0.0224211 0.046332961 3.05E-06 5.515655512 0.169394898 QTS(ph)IETDRVSK ddPTM_HeLa_SAHA_4h_R1 2 QTSIETDRVSK 11 1 E9PFK9;Q9UJ41;Q9UJ41-4;Q9UJ41-3 E9PFK9 RABGEF1 Rab5 GDP/GTP exchange factor 1 0 QT(0.005)S(0.995)IETDRVSK;QT(0.001)S(0.997)IET(0.001)DRVSK ; 131.79 0.0055671 20568800 4513.9 3296.7 4874.7 3413.2 4156.9 4025.7 5288.2 5206.5 1454.81 3437.2 TRUE FALSE FALSE 4988.692713 3403.515243 5538.99873 3479.267422 3838.39922 3682.687712 4693.157818 5073.325269 1444.685859 3585.394513 1.391392968 0.949272174 1.544878453 0.970400163 1.070565375 1.027135981 1.308965527 1.414997778 0.402936372 1 11.80791616 -9.661980177 1.517185637 1.000306698 1.227214029 0.226745884 0.273399167 0.606100426 2.515744612 0.136817027 0.030911725 2.18E-10 9.661980177 0.226907331 QTS(ph)PDPCPQLPLVPR ddPTM_HeLa_SAHA_4h_R1 1 QTSPDPCPQLPLVPR 15 0 A0A1W2PQC8;Q5D1E8 A0A1W2PQC8 ZC3H12A Ribonuclease ZC3H12A 1 0 QT(0.069)S(0.931)PDPCPQLPLVPR 85.006 0.0116 3301400 501.97 428.45 612.59 520.15 806.43 892.96 720.22 639.25 566.85 538.53 TRUE FALSE FALSE 554.7695077 442.3320611 696.070575 530.2182554 744.6415076 816.8747843 639.1789501 622.8989106 562.9052447 561.7486638 0.987576017 0.787419872 1.239113895 0.943870969 1.32557771 1.454164179 1.137837954 1.108856951 1.002058894 1 9.133780978 -5.763146731 24.99835306 0.994044081 1.262236627 0.472908003 0.136110383 29.06632628 425588.0349 0.019285841 0.036321493 1.73E-06 5.763146731 0.268192547 QTVAVGVIK ddPTM_HeLa_SAHA_4h_R1 3 QTVAVGVIK 9 0 Q5VTE0;P68104;A0A087WVQ9;A0A2U3TZH3;Q05639 Q5VTE0;A0A2U3TZH3 EEF1A1P5;EEF1A1;EEF1A2 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha 2 0 0 ;; ;; 147.2 0.00016981 87893000 15321.8 16156 18681.5 17633.1 18124.9 14800.4 19770 12758.5 11090.3 12731.8 FALSE FALSE TRUE 16933.41722 16679.465 21227.31753 17974.41415 16736.17408 13539.32266 17545.42757 12432.15604 11013.1217 13280.73021 1.27503661 1.255914753 1.598354699 1.353420623 1.26018478 1.019471252 1.321119193 0.936104857 0.829255736 1 13.69704685 -9.094484847 0.919769568 1.003964388 1.260795672 0.329677733 0.180617518 0.64361589 1.005093772 0.105627089 0.033105429 8.04E-10 9.094484847 0.256831284 QTVAVGVIK(ac)AVDKK ddPTM_HeLa_SAHA_4h_R1 2 QTVAVGVIKAVDKK 14 2 Q5VTE0;P68104;A0A087WVQ9 Q5VTE0 EEF1A1P5;EEF1A1 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1 0 1 ; QTVAVGVIK(0.999)AVDK(0.001)K;QTVAVGVIK(1)AVDKK 135.55 0.00018463 5381600 2005.4 2375.1 2722.54 2546.5 2666.5 2359.5 3093 3211.9 2283.8 2083.71 FALSE TRUE FALSE 2216.337173 2452.054798 3093.553573 2595.79119 2462.193346 2158.457326 2744.9675 3129.744249 2267.90685 2173.548936 1.019685886 1.128134158 1.423273027 1.194263974 1.132798671 0.993056697 1.262896572 1.439923527 1.043411912 1 11.08583686 -7.09513649 4.030464699 1.009822429 1.22694185 0.383544547 0.123594579 0.179952117 5.251306515 0.021149864 0.026317587 8.03E-08 7.09513649 0.217119421 QTVDK(ac)VMGIPK ddPTM_HeLa_SAHA_4h_R1 1 QTVDKVMGIPK 11 1 Q14676;Q14676-3 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 0 1 QTVDK(1)VMGIPK 97.911 0.013634 528100 349.68 475.4 347.42 535.01 331.62 451.64 491.42 696.68 467.49 198.89 FALSE TRUE FALSE 386.4609468 490.8032719 394.7645883 545.3658922 306.2113472 413.1577311 436.1241283 678.8599344 464.236699 207.4651212 1.862775509 2.365714627 1.902799786 2.628711221 1.475965432 1.991456341 2.10215638 3.272164161 2.237661426 1 7.696725003 -9.505710392 0.191408623 9.80E-15 2.612770805 0.019168936 0.581444469 5.861612079 0.310735632 3.963383931 0.809568759 3.12E-10 9.505710392 2.612770805 HALK(ac)WIRPQTSE ddPTM_HeLa_SAHA_4h_R1 1 HALKWIRPQTSE 12 2 Q6PJT7;Q6PJT7-5;H0YJA2;Q6PJT7-2;Q6PJT7-9;Q6PJT7-3;Q6PJT7-11;Q6PJT7-4;Q6PJT7-10;G3V256;G3V5I6;G3V411;Q6PJT7-6;Q6PJT7-8;H0YJ51 Q6PJT7 ZC3H14 Zinc finger CCCH domain-containing protein 14 0 1 HALK(1)WIRPQTSE 105.03 0.0039349 2996100 1029 785.35 673.9 2185.9 2442 2191.2 3456.5 3122.9 1319.7 811.08 FALSE TRUE FALSE 1137.234941 810.7958553 765.7355825 2228.211255 2254.894488 2004.497433 3067.565523 3043.02074 1310.5161 846.0496281 1.344170488 0.958331318 0.905071709 2.633664954 2.665203568 2.369243323 3.625751281 3.596740237 1.548982538 1 9.724598482 -5.616762849 0.772703029 1.103292727 3.65860341 0.827312746 0.41656521 0.217294782 0.222731699 0.072966534 0.324178773 2.42E-06 5.616762849 2.555310683 QVAEQGGDLS(ph)PAANR ddPTM_HeLa_SAHA_4h_R1 2 QVAEQGGDLSPAANR 15 0 O94804 O94804 STK10 Serine/threonine-protein kinase 10 1 0 QVAEQGGDLS(1)PAANR;QVAEQGGDLS(1)PAANR ; 206.13 9.90E-13 217860000 4936.7 4992.4 3962.3 4751.9 4685.9 5096 5400.9 4733.5 4613 4574.35 TRUE FALSE FALSE 5455.964756 5154.157036 4502.261609 4843.879896 4326.867354 4661.792131 4793.176518 4612.423924 4580.897757 4771.572615 1.143431149 1.080179943 0.943559278 1.015153763 0.906801112 0.976992809 1.004527627 0.966646491 0.96003941 1 12.22024911 -6.767391051 24.99892996 1.070557519 0.970205386 0.278038064 0.055301903 108.8892376 457369.8471 0.009569626 0.012761397 1.71E-07 6.767391051 -0.100352133 QVAGDAPVEQATAETAS(ph)PVHR ddPTM_HeLa_SAHA_4h_R1 2 QVAGDAPVEQATAETASPVHR 21 0 A0A087X055;Q92766;Q92766-2;Q92766-4 A0A087X055 RREB1 Ras-responsive element-binding protein 1 1 0 QVAGDAPVEQATAET(0.106)AS(0.894)PVHR;QVAGDAPVEQAT(0.001)AET(0.094)AS(0.905)PVHR ; 141 3.94E-06 11080100 1692.95 1279.32 1087.87 1030.45 1495.69 1601.98 1381.46 1248.8 1912.84 1492.37 TRUE FALSE FALSE 1871.022249 1320.770807 1236.119258 1050.39585 1381.090555 1465.482292 1226.014485 1216.857504 1899.528391 1556.713374 1.201905424 0.848435447 0.794057068 0.674752249 0.887183587 0.941395067 0.787565974 0.781683722 1.220217172 1 10.60428762 -7.16962233 6.117262362 1.095051241 0.814497331 0.729513638 0.089318258 0.110655353 6.09536826 0.016694556 0.020485888 6.77E-08 7.16962233 -0.280553909 QVAPEK(ac)PVK ddPTM_HeLa_SAHA_4h_R1 1 QVAPEKPVK 9 1 P53999;D6RC37;D6R970 P53999 SUB1 Activated RNA polymerase II transcriptional coactivator p15 0 1 QVAPEK(1)PVK 106.88 0.0056556 7627900 3047.1 4344.5 3422.8 3911.6 4951.9 4692.7 5190.9 4137.6 3787.6 2628.4 FALSE TRUE FALSE 3367.607959 4485.264651 3889.241359 3987.314674 4572.486492 4292.85556 4606.80627 4031.766183 3761.241783 2741.723187 1.228281533 1.635929065 1.418539033 1.454309718 1.667741847 1.565750904 1.680259441 1.4705227 1.37185322 1 11.4208672 -7.580864864 0.682994462 1.029982543 1.592590899 0.474766479 0.146314654 0.163855184 0.168238685 0.031208856 0.029618001 2.63E-08 7.580864864 0.562608356 SSLVTSK(ac)LAGGQVE ddPTM_HeLa_SAHA_4h_R1 2 SSLVTSKLAGGQVE 14 1 O43768;O43768-3;A0A1W2PRU0;O43768-5;O43768-7 O43768 ENSA Alpha-endosulfine 0 1 ; SSLVTSK(1)LAGGQVE;SSLVTSK(1)LAGGQVE 122.64 0.0012766 2298600 419.46 778 593.1 885.92 949.24 1650.17 1708.36 1464.99 579.24 383.87 FALSE TRUE FALSE 463.5807274 803.2077105 673.9245793 903.0682627 876.5094363 1509.566232 1516.130837 1427.517677 575.2090217 400.4205143 1.157734708 2.005910491 1.68304209 2.255299692 2.188972355 3.769952284 3.786346559 3.56504631 1.436512369 1 8.645372078 -5.614487383 0.545775942 1.02605971 4.271377051 0.885771725 0.341170303 0.244857971 0.109558265 0.070357403 0.393199988 2.43E-06 5.614487383 3.245317342 up QVDLESNPQNRS(ph)PESRPSVVYPSTK ddPTM_HeLa_SAHA_4h_R1 1 QVDLESNPQNRSPESRPSVVYPSTK 25 2 J3QS41;P42694 J3QS41 HELZ Probable helicase with zinc finger domain 1 0 QVDLES(0.049)NPQNRS(0.705)PES(0.163)RPS(0.058)VVY(0.014)PS(0.008)T(0.003)K 61.612 0.001605 17715000 797.41 1204.9 772.33 985.77 995.8 1160.6 1252.2 1021.3 1225.1 783.62 TRUE FALSE FALSE 881.2852424 1243.939551 877.5791103 1004.851004 919.5020191 1061.710351 1111.29916 995.1766248 1216.574429 817.4056931 1.078149137 1.521814151 1.073615119 1.229317354 1.124902881 1.298878096 1.359544189 1.217481886 1.488336134 1 9.674908481 -7.491142754 19.19140751 1.034475457 1.255817503 0 0.185217157 17.10828516 10346.53094 0.019479998 0.021441848 3.23E-08 7.491142754 0.221342046 QVEDEKNSFR ddPTM_HeLa_SAHA_4h_R1 1 QVEDEKNSFR 10 1 P35579 P35579 MYH9 Myosin-9 0 0 99.013 0.01697 6839900 1696.8 1892.4 1750.4 2260.4 2141.4 2598.1 2336.8 2379.4 2559.2 2275.2 FALSE FALSE TRUE 1875.277209 1953.715002 1988.935396 2304.153311 1977.326395 2376.727263 2073.857114 2318.538393 2541.390319 2373.295007 0.790157652 0.823207817 0.838048111 0.970866792 0.833156598 1.001446199 0.873830311 0.976928021 1.07082782 1 11.21267573 -5.262814663 24.9830257 0.889438432 0.943044386 0.03592098 0.090087619 285.8712395 5193114.065 0.013007222 0.030627582 5.46E-06 5.262814663 0.053605953 QVEEEILALK ddPTM_HeLa_SAHA_4h_R1 2 QVEEEILALK 10 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 162.36 0.0011585 7677800 3839.1 2806.4 2811.4 3352.2 3098.5 3943.7 3361.5 3844.1 4005.9 3226.6 FALSE FALSE TRUE 4242.914152 2897.329201 3194.522951 3417.086678 2861.093599 3607.674573 2983.255173 3745.773488 3978.022616 3365.714517 1.260628057 0.860836291 0.949136635 1.015263375 0.850070196 1.071889655 0.886366077 1.112920739 1.181925144 1 11.7166971 -7.253447213 24.97990058 1.123074361 0.962006728 0.399415447 0.101916493 572.982795 1790886.206 0.019844206 0.024076118 5.58E-08 7.253447213 -0.161067633 QVELALWDTAGQEDYDR ddPTM_HeLa_SAHA_4h_R1 2 QVELALWDTAGQEDYDR 17 0 Q5JR06;Q5JR07;E9PN11;C9JNR4;E9PQH6;C9JX21;Q5JR08;Q5JR05;U3KQA9;U3KQV3;P61586;P08134;P62745 Q5JR06 RHOC;RHOA;RHOB Transforming protein RhoA;Rho-related GTP-binding protein RhoC;Rho-related GTP-binding protein RhoB 0 0 ; ; 163.64 2.24E-05 9825700 980.66 1518.9 1225.36 1500.51 1763.27 1407.05 1831.66 1298.47 1751.32 1694.72 FALSE FALSE TRUE 1083.810318 1568.113357 1392.345679 1529.554541 1628.168634 1287.161424 1625.556796 1265.257018 1739.132422 1767.787673 0.613088514 0.887048473 0.787620426 0.865236569 0.92102047 0.728119923 0.919543009 0.715729065 0.983790332 1 10.78772929 -9.684655525 1.566276487 0.999598252 0.781413834 0.35871193 0.096151742 0.34924722 1.548213443 0.077710197 0.017417647 2.07E-10 9.684655525 -0.218184418 QVETEEAGVVTT(ph)ATASVNLKVSPK ddPTM_HeLa_SAHA_4h_R1 1 QVETEEAGVVTTATASVNLKVSPK 24 1 O75475;O75475-3;O75475-2 O75475 PSIP1 PC4 and SFRS1-interacting protein 1 0 QVETEEAGVVT(0.24)T(0.746)AT(0.002)AS(0.01)VNLKVS(0.003)PK 89.631 0.00010064 13161000 1070.7 1332.3 1091.5 1073 1492.1 1417.3 1649 1650 1719.5 1173.4 TRUE FALSE FALSE 1183.321139 1375.467394 1240.243936 1093.769467 1377.77562 1296.538066 1463.45018 1607.795389 1707.533859 1223.991016 0.966772732 1.123756119 1.013278626 0.893609064 1.125641938 1.059270901 1.195638007 1.313567965 1.395054242 1 10.25737725 -4.040681943 0.726856892 0.99204546 1.620809574 0.084727809 0.142484887 1.341741308 0.402327794 0.01028024 0.740952203 9.11E-05 4.040681943 0.628764114 QVETEEAGVVTTAT(ph)ASVNLKVSPKR ddPTM_HeLa_SAHA_4h_R1 1 QVETEEAGVVTTATASVNLKVSPKR 25 2 O75475;O75475-3;O75475-2 O75475 PSIP1 PC4 and SFRS1-interacting protein 1 0 QVETEEAGVVT(0.031)T(0.083)AT(0.493)AS(0.044)VNLKVS(0.349)PKR 76.796 0.00027328 4397500 1568 1552.2 1789.8 1700.1 1669.9 1594 2004.1 2474.9 1721 1855.2 TRUE FALSE FALSE 1732.929434 1602.492298 2033.704623 1733.007894 1541.952623 1458.182232 1778.593393 2411.595642 1709.023421 1935.186751 0.895484342 0.828081475 1.050908716 0.895524886 0.79679784 0.753509826 0.91908101 1.246182385 0.883131005 1 10.91825708 -9.287297264 1.011441378 1.000080766 0.912694666 0 0.137695501 1.435186194 2.628538025 0.089544436 0.024067833 5.16E-10 9.287297264 -0.0873861 QVETEEAGVVTTATAS(ph)VNLKVSPK ddPTM_HeLa_SAHA_4h_R1 1 QVETEEAGVVTTATASVNLKVSPK 24 1 O75475;O75475-3;O75475-2 O75475 PSIP1 PC4 and SFRS1-interacting protein 1 0 QVETEEAGVVT(0.137)T(0.406)AT(0.038)AS(0.407)VNLKVS(0.012)PK 103.85 1.66E-05 99425000 673.07 960.05 722.79 661.83 819.04 1012.5 842.57 885.93 936.17 798.63 TRUE FALSE FALSE 743.8665908 991.1562499 821.2880571 674.6406767 756.2853321 926.2293038 747.7618061 863.2691934 929.6551167 833.0628477 0.892929739 1.18977368 0.985865663 0.809831669 0.907837067 1.111836047 0.897605515 1.036259384 1.115948358 1 9.702281529 QVETEEAGVVTTATASVNLKVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 8 QVETEEAGVVTTATASVNLKVSPK 24 1 O75475;O75475-3;O75475-2 O75475 PSIP1 PC4 and SFRS1-interacting protein 1 0 QVETEEAGVVT(0.003)T(0.003)AT(0.014)AS(0.077)VNLKVS(0.902)PK;QVETEEAGVVT(0.002)T(0.025)ATAS(0.008)VNLKVS(0.965)PK;QVETEEAGVVT(0.004)T(0.001)AT(0.001)AS(0.116)VNLKVS(0.879)PK;QVETEEAGVVTTATAS(0.023)VNLKVS(0.977)PK;QVETEEAGVVT(0.009)T(0.009)AT(0.016)AS(0.098)VNLKVS(0.867)PK;QVETEEAGVVT(0.027)T(0.04)AT(0.033)AS(0.1)VNLKVS(0.799)PK;QVETEEAGVVTTATAS(0.025)VNLKVS(0.975)PK;QVETEEAGVVTTATAS(0.001)VNLKVS(0.999)PK ;;;;;;; 126.36 9.68E-07 172133100 7681.32 10708.47 7835 9472.55 11500.25 11802.35 11281.36 10455.77 12040.85 9003.26 TRUE FALSE FALSE 8489.276481 11055.43145 8902.712997 9655.904903 10619.10333 10796.72338 10011.95168 10188.32654 11957.05674 9391.434599 0.903938199 1.177182393 0.947960921 1.028160799 1.130722172 1.149635156 1.066072662 1.084853058 1.273187458 1 13.19712984 -6.560585761 0.884307347 0.959771642 1.103450655 0 0.1230023 0.439368688 0.686769495 0.015334796 0.027928364 2.75E-07 6.560585761 0.143679013 QVHPDTGISS(ph)K ddPTM_HeLa_SAHA_4h_R1 2 QVHPDTGISSK 11 0 O60814;P57053;P33778;P58876;P62807;Q16778;Q5QNW6;Q5QNW6-2;Q8N257;Q93079;U3KQK0;Q99877;Q99879;Q99880 O60814;P33778;P58876;P62807;Q16778;Q5QNW6;Q8N257;Q93079;U3KQK0;Q99879;Q99880 HIST1H2BK;H2BFS;HIST1H2BB;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST2H2BF;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BM;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-B;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 2-F;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-M;Histone H2B type 1-L 1 0 QVHPDTGIS(0.353)S(0.647)K;QVHPDTGIS(0.239)S(0.761)K ; 177.36 4.63E-05 18658300 7667.7 6739.5 4960.2 8302.4 7643.8 7664.6 8404.7 8864.3 9582.1 6326.9 TRUE FALSE FALSE 8474.223867 6957.864222 5636.150224 8463.104957 7058.133695 7011.53296 7458.981036 8637.564041 9515.417386 6599.683622 1.284034865 1.054272389 0.854003093 1.282350101 1.069465462 1.062404406 1.130202819 1.308784562 1.441799021 1 12.68818115 -4.268111767 4.591677598 1.112727306 1.320132219 0.092087967 0.159342696 0.278111879 15.32622137 0.019222847 0.183464133 5.39E-05 4.268111767 0.207404913 QVHPDTGISSK ddPTM_HeLa_SAHA_4h_R1 6 QVHPDTGISSK 11 0 O60814;P57053;P33778;P58876;P62807;Q16778;Q5QNW6;Q5QNW6-2;Q8N257;Q93079;U3KQK0;Q99877;Q99879;Q99880 O60814;P33778;P58876;P62807;Q16778;Q5QNW6;Q8N257;Q93079;U3KQK0;Q99879;Q99880 HIST1H2BK;H2BFS;HIST1H2BB;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST2H2BF;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BM;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-B;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 2-F;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-M;Histone H2B type 1-L 0 0 ;;;;; ;;;;; 136.53 0.00011545 170929200 55781.7 58725.7 37016.6 58853.6 66788.5 67149.9 69605.9 68089.9 64474.7 53066.3 FALSE FALSE TRUE 61649.07514 60628.45121 42061.02947 59992.79653 61671.17956 61428.35074 61773.66094 66348.25895 64026.01531 55354.24789 1.113718955 1.095280914 0.759851883 1.083797519 1.114118282 1.109731467 1.115969655 1.198611877 1.156659475 1 15.75640641 -6.002407861 24.81962419 1.033723265 1.127431957 0.196262579 0.10350521 129.4596708 1334467.764 0.01512172 0.027068041 9.94E-07 6.002407861 0.093708692 QVLEPSFR ddPTM_HeLa_SAHA_4h_R1 1 QVLEPSFR 8 0 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 0 0 144.12 0.00015064 0 2284.3 1770.7 1773.5 2153.5 1870.6 2374.8 2449.2 2608 2794.2 2080.2 FALSE FALSE TRUE 2524.573155 1828.071842 2015.183344 2195.184107 1727.275032 2172.45368 2173.60957 2541.291136 2774.754935 2169.887602 1.16345803 0.842473057 0.928704022 1.011657979 0.796020508 1.001182585 1.001715281 1.171162568 1.278755145 1 11.0834046 -7.271571272 24.91606641 1.077188511 0.961462628 0.27403473 0.120964436 822.84236 2023507.279 0.01893421 0.021788121 5.35E-08 7.271571272 -0.115725883 QVLLSAAEAAEVILR ddPTM_HeLa_SAHA_4h_R1 1 QVLLSAAEAAEVILR 15 0 P78371;P78371-2 P78371 CCT2 T-complex protein 1 subunit beta 0 0 153 0.00024887 2097000 442.74 489.67 665.32 640.09 635.46 711.7 672.71 518.42 593.83 441.79 FALSE FALSE TRUE 489.3094246 505.5356293 755.9863448 652.4798675 586.7711921 651.0591561 597.0149003 505.1595671 589.6974887 460.837729 1.061782475 1.09699271 1.64046105 1.415856009 1.273270731 1.41277312 1.295499181 1.09617667 1.279620681 1 8.848115025 -6.975805164 24.74642062 1.031817806 1.355706916 0.353737089 0.15134482 105.1278779 107524.1921 0.0208318 0.027377658 1.06E-07 6.975805164 0.32388911 QVLQSTQS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 QVLQSTQSPR 10 0 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 QVLQSTQS(1)PR;QVLQSTQS(1)PR;QVLQS(0.003)T(0.001)QS(0.996)PR ;; 154.36 0.00041513 110567000 5210.6 5214.5 5423.6 4830.8 5969.3 5526.1 5743.5 5492.7 4620.51 4382.3 TRUE FALSE FALSE 5758.674815 5383.453221 6162.699963 4924.307119 5511.933524 5055.245191 5097.226264 5352.204687 4588.355495 4571.242399 1.25976142 1.177678353 1.34814552 1.077236053 1.205784564 1.105879923 1.115063656 1.170842458 1.003743642 1 12.15837061 -9.450932152 1.184384888 1.000002335 1.187968984 0.479608111 0.07491462 0.34470698 0.864886693 0.052709393 0.013093985 3.54E-10 9.450932152 0.187966648 QVLTAPGSAGQPRS(ph)EDEDSLEEAGSPAPGPCPR ddPTM_HeLa_SAHA_4h_R1 1 QVLTAPGSAGQPRSEDEDSLEEAGSPAPGPCPR 33 1 Q8TBB5-2;Q8TBB5-3;Q8TBB5 Q8TBB5-2 KLHDC4 Kelch domain-containing protein 4 1 0 QVLTAPGS(0.222)AGQPRS(0.603)EDEDS(0.173)LEEAGS(0.001)PAPGPCPR 73.87 1.76E-05 2884300 126.88 213.72 188.18 134.82 168.21 128.83 190.01 131.1 134.9 145.1 TRUE FALSE FALSE 140.2258205 220.6446682 213.8241904 137.4296361 155.3217861 117.8529592 168.6295747 127.7466518 133.9612199 151.3559711 0.92646375 1.457786347 1.412723851 0.907989523 1.026201907 0.778647571 1.114125683 0.844014616 0.885073902 1 7.241801781 -4.239458966 22.4002208 1.022535351 0.844013832 0.062794059 0.212444812 3375.75788 3440005.019 0.030045121 1.607189311 5.76E-05 4.239458966 -0.178521519 QVPGGGGGGGS(ph)GGGGGSGGGGSGGGR ddPTM_HeLa_SAHA_4h_R1 2 QVPGGGGGGGSGGGGGSGGGGSGGGR 26 0 K7EN53;K7EQC2;Q9UHB9-4;Q9UHB9-2;Q9UHB9 K7EN53 SRP68 Signal recognition particle subunit SRP68 1 0 QVPGGGGGGGS(0.497)GGGGGS(0.477)GGGGS(0.026)GGGR;QVPGGGGGGGS(0.985)GGGGGS(0.014)GGGGS(0.001)GGGR ; 241.36 9.76E-54 2973980 272.36 69.062 61.129 198.338 248.36 70.381 170.74 69.972 324.759 337.18 TRUE FALSE FALSE 301.0080744 71.29965411 69.45934177 202.1771188 229.3307105 64.38414285 151.5278858 68.18221756 322.4989757 351.7174799 0.855823471 0.20271854 0.197486181 0.57482818 0.652031029 0.18305642 0.430822733 0.193855072 0.91692621 1 8.458273227 -7.35652548 5.035906593 0.936886201 0.360101269 0.733743223 0.159351293 0.084967634 3.453610902 0.028676331 0.03266987 4.40E-08 7.35652548 -0.576784932 QVPGGGGGGGSGGGGGS(ph)GGGGSGGGR ddPTM_HeLa_SAHA_4h_R1 1 QVPGGGGGGGSGGGGGSGGGGSGGGR 26 0 K7EN53;K7EQC2;Q9UHB9-4;Q9UHB9-2;Q9UHB9 K7EN53 SRP68 Signal recognition particle subunit SRP68 1 0 QVPGGGGGGGS(0.058)GGGGGS(0.942)GGGGSGGGR 201.97 2.09E-24 1566700 361.63 253.46 265.78 290.91 432.79 455.5 527.32 266.79 293.29 384.06 TRUE FALSE FALSE 399.6679026 261.6722703 301.9991143 296.5409837 399.6297237 416.6888374 467.9845658 259.9658981 291.248971 400.6187061 0.997626662 0.653170374 0.753831785 0.740207532 0.997531362 1.040113282 1.168154553 0.648911032 0.726997932 1 8.646085976 -7.444912496 24.99990589 0.998958855 0.869871187 0 0.182832364 188.2753217 60369.79956 0.028389361 0.032464319 3.59E-08 7.444912496 -0.129087668 QVQS(ph)LTCEVDALK ddPTM_HeLa_SAHA_4h_R1 1 QVQSLTCEVDALK 13 0 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 1 0 QVQS(0.983)LT(0.017)CEVDALK 151.49 0.00015255 3557900 394.08 764.9 403.26 431.12 600.5 925.08 527.84 639.42 706.58 637.12 TRUE FALSE FALSE 435.5311425 789.6832619 458.2141727 439.464951 554.4898197 846.2579796 468.446054 623.0645623 701.6628523 664.5893612 0.655338722 1.18822736 0.689469618 0.661257878 0.834334481 1.273354689 0.704865412 0.937518111 1.055784057 1 9.376319388 QVQS(ph)LTCEVDALKGTNESLER ddPTM_HeLa_SAHA_4h_R1 3 QVQSLTCEVDALKGTNESLER 21 1 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 1 0 QVQS(0.991)LT(0.009)CEVDALKGTNESLER;QVQS(0.983)LT(0.017)CEVDALKGTNESLER;QVQS(0.897)LT(0.103)CEVDALKGTNESLER ;; 89.71 0.00030365 30131200 1666.63 1910.06 1789.78 2064.02 2192.11 2251.06 2411.92 2242.76 2041.48 1893.67 TRUE FALSE FALSE 1841.93379 1971.947197 2033.681898 2103.972092 2024.151005 2059.257024 2140.524414 2185.393447 2027.273174 1975.315381 0.9324758 0.998294863 1.029547948 1.065132238 1.02472295 1.042495312 1.083636787 1.106351658 1.026303543 1 10.9478673 -6.704827174 2.114705769 0.968154715 1.062033428 0.527319773 0.031913518 0.149681818 1.371006367 0.005560331 0.008107083 1.97E-07 6.704827174 0.093878713 QVQSLT(ph)CEVDALKGTNESLER ddPTM_HeLa_SAHA_4h_R1 1 QVQSLTCEVDALKGTNESLER 21 1 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 1 0 QVQS(0.157)LT(0.843)CEVDALKGTNESLER 127.17 1.59E-05 15244000 955.2 911.79 1019.2 1170.7 1074 1221.2 1100.5 1317.1 806.58 1108.4 TRUE FALSE FALSE 1055.672319 941.3325942 1158.091268 1193.360591 991.710352 1117.14689 976.6688436 1283.410489 800.9669441 1156.188548 0.913062424 0.814168758 1.001645683 1.032150503 0.857741026 0.966232447 0.844731463 1.110035635 0.692764987 1 10.17516097 -9.410907756 1.226108734 0.998873382 0.935824583 0 0.129130617 0.997849722 2.754699674 0.050671294 0.013812739 3.88E-10 9.410907756 -0.063048799 QVQSLTCEVDALK ddPTM_HeLa_SAHA_4h_R1 2 QVQSLTCEVDALK 13 0 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 ; ; 219.42 4.52E-33 2651550 607.67 895.08 616.79 588.08 718.12 947.619 992.89 699.71 1207.05 764.03 FALSE FALSE TRUE 671.5875187 924.0811793 700.8429291 599.4631388 663.0978007 866.87653 881.1674041 681.8124314 1198.650041 796.9710724 0.8426749 1.159491494 0.879383146 0.752176785 0.832022421 1.087713921 1.105645405 0.855504616 1.504006961 1 9.638383549 -5.252932796 24.94836312 0.91977733 1.025223718 0 0.220854572 1032.946506 3029447.77 0.017856934 0.044700427 5.59E-06 5.252932796 0.105446388 QVQSLTCEVDALKGTNES(ph)LER ddPTM_HeLa_SAHA_4h_R1 1 QVQSLTCEVDALKGTNESLER 21 1 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 1 0 QVQSLTCEVDALKGT(0.001)NES(0.999)LER 103.04 0.00014566 18854000 1110 1033.7 1353.1 988.96 1060.3 1563.9 1379 1163 949.91 1310.3 TRUE FALSE FALSE 1226.754893 1067.192558 1537.493421 1008.102751 979.0600431 1430.646922 1223.831291 1133.252144 943.299499 1366.793445 0.897542271 0.780800173 1.124890836 0.737567739 0.716318948 1.046717722 0.895403248 0.829131971 0.690155123 1 10.41657952 -8.934356858 0.525409277 1.014707445 0.87507584 0 0.155504618 1.976103784 0.906853582 0.135055623 0.032069763 1.16E-09 8.934356858 -0.139631605 QVQSLTCEVDALKGTNESLER ddPTM_HeLa_SAHA_4h_R1 1 QVQSLTCEVDALKGTNESLER 21 1 P08670;B0YJC4;B0YJC5 P08670 VIM Vimentin 0 0 222.93 1.48E-48 4733000 1013.7 907.9 873.76 1092.2 1052.6 1064 1316.1 922.04 882.97 810.19 FALSE FALSE TRUE 1120.325617 937.3165557 992.8314625 1113.34111 971.9500154 973.3412141 1168.008964 898.4555519 876.8253399 845.1212559 1.325638906 1.109091209 1.174779898 1.317374404 1.150071672 1.151717824 1.382060806 1.063108454 1.037514243 1 9.72301454 -9.512649619 1.236430134 0.998786612 1.223365418 0.366777977 0.098506944 0.35450466 0.961640737 0.067860978 0.015991338 3.07E-10 9.512649619 0.224578806 QVRGPS(ph)QPRK ddPTM_HeLa_SAHA_4h_R1 1 QVRGPSQPRK 10 2 A0A087WXV6;Q96G74-2;Q96G74-3;Q96G74-5;Q96G74;H7BZQ3;Q96G74-4 A0A087WXV6 OTUD5 OTU domain-containing protein 5 1 0 QVRGPS(1)QPRK 77.677 0.020261 48995000 2761.5 2673.4 2471 3004.1 3415.1 3241.7 3315.5 2533.4 2480.4 3080.2 TRUE FALSE FALSE 3051.96724 2760.019914 2807.735012 3062.2487 3153.435776 2965.488923 2942.431214 2468.599296 2463.138694 3213.002496 0.949880134 0.859015801 0.873866427 0.953080087 0.98146073 0.922965023 0.915788649 0.768315399 0.766615867 1 11.64970639 -1.000000007 0.062422005 1.131807865 0.468848535 0 0.09033139 234.6367007 1.102489186 2.334916206 14.08824979 0.099999998 1.000000007 -0.662959331 QVS(ph)ASELHTSGILGPETLR ddPTM_HeLa_SAHA_4h_R1 4 QVSASELHTSGILGPETLR 19 0 A0A075B730;P58107 A0A075B730;P58107 EPPK1 Epiplakin 1 0 QVS(0.982)AS(0.018)ELHTSGILGPETLR;QVS(0.764)AS(0.236)ELHTSGILGPETLR;QVS(0.988)AS(0.012)ELHTSGILGPETLR;QVS(0.967)AS(0.033)ELHTSGILGPETLR ;;; 229.62 1.71E-32 192468000 5472.65 4819.07 3751.74 6278.28 6824.55 8913.6 6418.88 6270.56 6121.88 5386.24 TRUE FALSE FALSE 6048.288436 4975.21103 4263.007589 6399.805188 6301.654453 8154.111133 5696.610729 6110.168155 6079.277339 5618.467166 1.076501519 0.885510386 0.758749222 1.139066048 1.121596739 1.451305292 1.013908342 1.087515149 1.082017062 1 12.45596087 -6.02508255 24.78966161 1.002024602 1.171803369 0.323040298 0.140493968 726.1802713 717700.3094 0.02152923 0.035810787 9.44E-07 6.02508255 0.169778767 QVS(ph)LPVTK ddPTM_HeLa_SAHA_4h_R1 1 QVSLPVTK 8 0 P98082;P98082-3;P98082-2 P98082 DAB2 Disabled homolog 2 1 0 QVS(0.992)LPVT(0.008)K 103.08 0.0089478 8073800 1577.3 3099.4 2425.9 723.42 2706.7 3086.5 2776.5 1184.7 1255.1 2340.1 TRUE FALSE FALSE 1743.207651 3199.822594 2756.489018 737.4228402 2499.313231 2823.512836 2464.080913 1154.397089 1246.365657 2440.993163 0.714138686 1.310869134 1.129248971 0.302099511 1.023891942 1.156706573 1.009458343 0.472921066 0.510597766 1 11.25325254 -4.252925668 23.75683492 0.909568932 0.472920615 0.162945535 0.29461733 715.1154536 1995379.157 0.03707066 0.551633249 5.59E-05 4.252925668 -0.436648317 QVSAS(ph)ELHTSGILGPETLR ddPTM_HeLa_SAHA_4h_R1 1 QVSASELHTSGILGPETLR 19 0 A0A075B730;P58107 A0A075B730;P58107 EPPK1 Epiplakin 1 0 QVS(0.382)AS(0.618)ELHTSGILGPETLR 149.12 5.16E-05 60840000 1214.1 1005.8 694.03 1236.5 1146.4 1590.8 1357.4 1443.1 1270.5 1059.6 TRUE FALSE FALSE 1341.804608 1038.38858 788.608794 1260.434246 1058.56308 1455.25489 1204.66178 1406.187592 1261.658487 1105.284542 1.213990206 0.939476253 0.713489391 1.140370826 0.957729019 1.316633713 1.089911 1.27224035 1.141478452 1 10.11020211 -5.26276868 24.99475191 1.055737628 1.212626616 0.277306226 0.145722851 163.9883794 3083502.19 0.022771859 0.05364941 5.46E-06 5.26276868 0.156888988 QVSDLISVLR ddPTM_HeLa_SAHA_4h_R1 1 QVSDLISVLR 10 0 P17844-2;P17844;J3KTA4 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 0 0 115.23 0.0091704 510190 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 QVSS(ph)PSFTNR ddPTM_HeLa_SAHA_4h_R1 2 QVSSPSFTNR 10 0 Q86V48-2;Q86V48-3;Q86V48 Q86V48-2 LUZP1 Leucine zipper protein 1 1 0 QVS(0.031)S(0.96)PS(0.009)FTNR;QVS(0.029)S(0.967)PS(0.003)FTNR ; 127.52 0.0019975 21768900 4981.6 5077.7 5403 5933.2 6098.9 6663.9 6523 5837.3 6108.4 5180.1 TRUE FALSE FALSE 5505.587544 5242.220812 6139.292702 6048.045666 5631.6036 6096.09823 5789.014872 5687.990318 6065.891147 5403.439462 1.018904271 0.970163698 1.136182379 1.119295535 1.042225723 1.128188494 1.071357404 1.052661061 1.122598151 1 12.39966231 -6.764992911 24.9999981 1.006269199 1.091399953 0.25104168 0.048469095 42.32615869 297775.2063 0.004922271 0.006615234 1.72E-07 6.764992911 0.085130754 QVVES(ph)AYEVIK ddPTM_HeLa_SAHA_4h_R1 1 QVVESAYEVIK 11 0 P00338-3;P00338;P00338-4 P00338-3 LDHA L-lactate dehydrogenase A chain 1 0 QVVES(0.987)AY(0.013)EVIK 144.88 0.00071794 3283500 799.1 609.62 414.72 493.31 689.83 855.56 659.63 632.85 719.07 692.45 TRUE FALSE FALSE 883.1530044 629.372088 471.2358818 502.8587284 636.9753744 782.6614748 585.4066963 616.6626134 714.0659333 722.3049083 1.222687253 0.871338518 0.652405759 0.696186226 0.88186494 1.083561064 0.810470329 0.853742798 0.988593494 1 9.496464164 -7.153009908 6.268546583 1.104777891 0.831254536 0.420082667 0.125003228 0.161868276 8.15279522 0.023502078 0.028852926 7.03E-08 7.153009908 -0.273523355 QVVESAYEVIK ddPTM_HeLa_SAHA_4h_R1 4 QVVESAYEVIK 11 0 P00338-3;P00338;P00338-4 P00338-3 LDHA L-lactate dehydrogenase A chain 0 0 ;;; ;;; 193.3 9.67E-11 74331900 5325.5 4714.16 5168.71 5707.3 5182.14 5939.2 5254.1 5473.91 5449.3 5000.3 FALSE FALSE TRUE 5885.660524 4866.901877 5873.074881 5817.773044 4785.085553 5433.146747 4662.89484 5333.895308 5411.377878 5215.887404 1.128410195 0.933091821 1.125997252 1.115394677 0.917405838 1.041653381 0.893979198 1.022624703 1.037479811 1 12.34869701 -5.760014502 24.99988134 1.060290079 0.968758713 0.274248994 0.069837805 40.29019813 706874.9339 0.010726882 0.020555859 1.74E-06 5.760014502 -0.091531367 QVVNIPSFIVR ddPTM_HeLa_SAHA_4h_R1 1 QVVNIPSFIVR 11 0 P46781 P46781 RPS9 40S ribosomal protein S9 0 0 120.09 0.0054995 350420 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 QVVQTPNT(ph)VLSTPFR ddPTM_HeLa_SAHA_4h_R1 1 QVVQTPNTVLSTPFR 15 0 Q99459 Q99459 CDC5L Cell division cycle 5-like protein 1 0 QVVQT(0.242)PNT(0.743)VLS(0.014)T(0.001)PFR 94.339 0.0078287 0 405.34 240.74 341.56 177.87 453.13 357.79 348.2 302.25 356.06 264.07 TRUE FALSE FALSE 447.975521 248.540134 388.106018 181.3129311 418.4112773 327.3042791 309.0196196 294.5188827 353.5821495 275.45535 1.626309022 0.90228828 1.408961627 0.65822984 1.518980398 1.188229886 1.121850128 1.069207342 1.283627816 1 8.105674674 -7.236816158 24.98333469 1.295757099 1.134595974 0.085949774 0.266104911 1866.3121 1893609.283 0.050630356 0.061993682 5.80E-08 7.236816158 -0.161161125 QVVSVVQDEEVGLPFEASPES(ph)PPPASPDGVTEIR ddPTM_HeLa_SAHA_4h_R1 1 QVVSVVQDEEVGLPFEASPESPPPASPDGVTEIR 34 0 Q96TA1-2;Q96TA1 Q96TA1-2 FAM129B Niban-like protein 1 1 0 QVVSVVQDEEVGLPFEAS(0.029)PES(0.971)PPPASPDGVTEIR 168.6 2.54E-22 9677500 2807.7 3893.8 3154.9 3614 4313.3 5292.3 5059.6 4087.4 4103.3 3788.3 TRUE FALSE FALSE 3103.026768 4019.961675 3584.833342 3683.954196 3982.815886 4841.366266 4490.280492 3982.850226 4074.744801 3951.632152 0.785251928 1.017291468 0.907177896 0.932261419 1.007891355 1.225156108 1.136310344 1.007900046 1.031154886 1 11.94823294 -5.564244414 3.294328769 0.908934769 1.124844671 0.416859471 0.086979931 0.153019638 3.41773604 0.014285747 0.031404023 2.73E-06 5.564244414 0.215909902 QWTSLS(ph)LR ddPTM_HeLa_SAHA_4h_R1 1 QWTSLSLR 8 0 Q9UHB6;F8VRN8;F8VVQ7;F8VTU2;Q9UHB6-4 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 QWTSLS(1)LR 86.189 0.021611 11676000 1337.5 1044.7 1033.7 1181.6 1370.7 1549.7 1425 1687.3 1000.2 891.33 TRUE FALSE FALSE 1478.184387 1078.548965 1174.567253 1204.471577 1265.677262 1417.656842 1264.65525 1644.141309 993.2395268 929.7595984 1.589856549 1.160029934 1.2633021 1.295465601 1.361295182 1.524756339 1.36019596 1.768350993 1.068275637 1 9.860713926 -9.48910523 1.159004171 0.993568786 1.418242632 0.453651491 0.167021177 0.367932461 0.862445404 0.128598611 0.029447628 3.24E-10 9.48910523 0.424673846 QWYESHYALPLGR ddPTM_HeLa_SAHA_4h_R1 1 QWYESHYALPLGR 13 0 P62241;Q5JR95 P62241 RPS8 40S ribosomal protein S8 0 0 78.287 0.017206 971990 618.9 546.89 740.58 437.19 710.32 523.4 742.29 370.64 826.94 929.73 FALSE FALSE TRUE 683.9987416 564.6095948 841.5023856 445.6524446 655.8954351 478.8033754 658.7655756 361.1595655 821.1852572 969.8152103 0.705287703 0.582182656 0.867693532 0.459523051 0.676309701 0.493705781 0.679269173 0.372400393 0.846744048 1 9.92156607 -13.52287875 0.095817033 2.392750859 0.279485569 0.552953672 0.125482754 50.79484494 0.36554834 14.1577923 1.044228346 3.00E-14 13.52287875 -2.113265289 QY(ph)SGLLLEIQRLRT(ph)R ddPTM_HeLa_SAHA_4h_R1 2 QYSGLLLEIQRLRTR 15 2 H0YMG0 H0YMG0 ZFAND6 2 0 QY(0.964)S(0.036)GLLLEIQRLRT(1)R;QY(1)SGLLLEIQRLRT(1)R ; 127.87 0.00057332 13521500 3225.8 3149.8 3238.3 3477 3941.1 4528.4 3860.5 4155.9 4446.5 3723.9 TRUE FALSE FALSE 3565.104445 3251.855587 3679.59866 3544.302363 3639.133769 4142.554844 3426.10638 4049.598096 4415.556444 3884.455553 0.917787421 0.837145783 0.947262392 0.912432209 0.936845259 1.066444135 0.882004269 1.042513691 1.136724667 1 11.92349669 -4.226772828 22.98441489 0.949445094 1.042514263 0.068840754 0.084269387 8295.055274 5499452.944 0.008597658 1.891271922 5.93E-05 4.226772828 0.093069169 QYAENYTRPSS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 QYAENYTRPSSR 12 1 C9JSU1;Q9Y608-4;Q9Y608;Q9Y608-2;Q9Y608-5 C9JSU1 LRRFIP2 Leucine-rich repeat flightless-interacting protein 2 1 0 QYAENYTRPS(0.192)S(0.808)R 123.28 0.006127 4895400 1337.3 1556.7 1365.1 1934.9 1803.9 2450.3 1852.5 1772.8 1869.9 1258 TRUE FALSE FALSE 1477.96335 1607.138101 1551.128719 1972.352787 1665.685572 2241.520655 1644.051824 1727.454343 1856.887214 1312.238537 1.126291683 1.224730151 1.182047833 1.503044403 1.269346636 1.708165545 1.252860497 1.316417934 1.415053104 1 10.35781428 -6.931952265 0.78704646 1.036668792 1.417409577 0.124233146 0.17860446 0.288277642 0.360593615 0.028970203 0.042469639 1.17E-07 6.931952265 0.380740785 QYDPPAESQQSES(ph)PPRR ddPTM_HeLa_SAHA_4h_R1 2 QYDPPAESQQSESPPRR 17 1 Q6P597;Q6P597-3;K7ENJ3;K7EL76 Q6P597 KLC3 Kinesin light chain 3 1 0 QYDPPAESQQS(0.17)ES(0.83)PPRR;QYDPPAESQQS(0.025)ES(0.975)PPRR ; 131.09 6.00E-05 9452800 3289 3669.7 3420.5 3165.6 3535.8 4009.5 3555.2 3243.1 3936.4 3290.6 TRUE FALSE FALSE 3634.95211 3788.600688 3886.627927 3226.874766 3264.887768 3667.868043 3155.159539 3160.146198 3909.006272 3432.47387 1.058989012 1.10375223 1.132311002 0.940101771 0.951176292 1.068578577 0.919208611 0.9206614 1.138830599 1 11.74503302 -6.219104281 24.99985234 1.042585133 0.963230179 0.440131848 0.062182339 476.9428946 281645.7093 0.00901748 0.014953671 6.04E-07 6.219104281 -0.079354953 QYIISEELISEGK ddPTM_HeLa_SAHA_4h_R1 1 QYIISEELISEGK 13 0 A6NFX8;Q9UKK9;C9JYY9;A6NCQ0;A6NJU6 A6NFX8 NUDT5 ADP-sugar pyrophosphatase 0 0 205.8 3.87E-35 0 670.9 573.43 667.27 901.98 724.69 582.02 832.34 658.53 861.74 547.23 FALSE FALSE TRUE 741.4683402 592.0095082 758.2020806 919.4391272 669.1644088 532.4286216 738.6829126 641.6857561 855.7430812 570.8237634 1.298944416 1.037114336 1.32825949 1.610723285 1.172278471 0.93273731 1.294064753 1.124139879 1.4991371 1 9.156901585 -9.41093643 0.996661127 0.992084227 1.232009003 0 0.233206612 0.809862884 1.359887986 0.145433739 0.03224306 3.88E-10 9.41093643 0.239924777 QYPDS(ph)PHPVPHR ddPTM_HeLa_SAHA_4h_R1 1 QYPDSPHPVPHR 12 0 Q5VT52-2;Q5VT52-3;Q5VT52 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 QY(0.031)PDS(0.969)PHPVPHR 95.755 0.00709 3963800 1786.2 2139.2 1995.5 1760.5 2079.6 1611.4 1898.6 1691.8 2179.1 2222.4 TRUE FALSE FALSE 1974.080711 2208.511484 2267.436348 1794.577023 1920.261497 1474.099655 1684.964531 1648.526206 2163.935466 2318.21854 0.851550739 0.952676137 0.978094303 0.774119002 0.828334975 0.635876053 0.726835931 0.711117687 0.933447571 1 11.17880086 -5.859053464 1.482161914 0.933345905 0.699676841 0.769985715 0.057107466 0.168831627 0.745496232 0.010935124 0.025367044 1.38E-06 5.859053464 -0.233669065 QYQDFLEDLEEDEAIRK ddPTM_HeLa_SAHA_4h_R1 2 QYQDFLEDLEEDEAIRK 17 1 C9JA08;Q96D46 C9JA08 NMD3 60S ribosomal export protein NMD3 0 0 ; ; 192.24 8.37E-12 5997800 1294.61 1144.78 1012.42 1001.01 1400.58 1609.87 1353.28 1238.69 1519.92 1356.63 FALSE FALSE TRUE 1430.78302 1181.871623 1150.387325 1020.385996 1293.267863 1472.700019 1201.005373 1207.006103 1509.342753 1415.120958 1.011067648 0.83517357 0.812925085 0.721059207 0.913892099 1.040688437 0.848694499 0.852934935 1.066582149 1 10.46670966 -7.266632673 24.75472653 1.005226393 0.862052415 0.4756114 0.078549833 277.3939992 1322243.607 0.013720215 0.015949659 5.41E-08 7.266632673 -0.143173978 RAAEDDEDDDVDTK ddPTM_HeLa_SAHA_4h_R1 4 RAAEDDEDDDVDTK 14 1 B8ZZQ6;P06454-2;P06454;B8ZZA1;B8ZZW7;H7C2N1 B8ZZQ6 PTMA "Prothymosin alpha;Prothymosin alpha, N-terminally processed;Thymosin alpha-1" 0 0 ;;; ;;; 272.09 1.73E-55 111274000 17290 16180.3 16465.2 16348.3 17052.2 19196 19329.9 19005.3 17443.7 17637.6 FALSE FALSE TRUE 19108.64153 16704.55234 18708.99171 16664.74499 15745.66412 17560.39281 17154.84878 18519.17195 17322.30787 18398.04325 1.038623579 0.907952661 1.01690117 0.905788988 0.855833629 0.954470677 0.932427897 1.006583781 0.941529903 1 14.16726471 -7.265978784 24.97514175 1.018238913 0.938665337 0.134391314 0.05151714 285.4974271 1570763.492 0.007770841 0.00904599 5.42E-08 7.265978784 -0.079573576 RAAEDDEDDDVDTKK ddPTM_HeLa_SAHA_4h_R1 5 RAAEDDEDDDVDTKK 15 2 B8ZZQ6;P06454-2;P06454;B8ZZA1;B8ZZW7;H7C2N1 B8ZZQ6 PTMA "Prothymosin alpha;Prothymosin alpha, N-terminally processed;Thymosin alpha-1" 0 0 ;;;; ;;;; 175.29 8.33E-07 111123300 13542.3 12321.16 13359.6 12970.34 13601.3 14373 14606.63 15756.9 13246.1 13019.7 FALSE FALSE TRUE 14966.74125 12720.37367 15180.17671 13221.39969 12559.17133 13148.33954 12963.05355 15353.86131 13153.91931 13581.04298 1.1020318 0.936627156 1.117747491 0.973518728 0.924757498 0.96813916 0.954496173 1.130536243 0.96855001 1 13.72930666 RAAEEAEEAR ddPTM_HeLa_SAHA_4h_R1 1 RAAEEAEEAR 10 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 111.86 0.001116 0 258.45 174.24 222.41 373.17 309.14 420.18 568.26 298.32 305.62 422.65 FALSE FALSE TRUE 285.6349568 179.8854903 252.7188765 380.393245 285.45376 384.3783001 504.3178892 290.6894064 303.4931655 440.8725099 0.647885614 0.408021562 0.573224392 0.862819152 0.647474618 0.871858171 1.143908676 0.659350265 0.688392129 1 8.784217712 -3.964838334 16.29018717 0.795976109 0.148509842 0 0.207025061 24726934.33 315822577.4 0.032090431 460749076.2 0.000108433 3.964838334 -0.647466267 RAAEEEDEADPKR ddPTM_HeLa_SAHA_4h_R1 1 RAAEEEDEADPKR 13 2 P20962 P20962 PTMS Parathymosin 0 0 77.597 0.011267 2909300 1199.4 1200.6 1463.6 1524 1560.5 1590.5 1570.2 1669 1224 1291.5 FALSE FALSE TRUE 1325.558395 1239.500228 1663.051786 1553.499224 1440.934827 1454.980452 1393.516963 1626.309397 1215.482084 1347.182885 0.983948363 0.920068271 1.234466236 1.153146496 1.069591102 1.080017025 1.03439331 1.207192738 0.90223985 1 10.39573 -6.773862366 24.99999528 0.986781886 1.12152586 0.612236111 0.066998027 129.3683211 260339.9758 0.009821968 0.012959725 1.68E-07 6.773862366 0.134743974 RADDDRFPR ddPTM_HeLa_SAHA_4h_R1 2 RADDDRFPR 9 2 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 ; ; 101.25 0.016862 8144300 2842.81 2372.84 2559 2549.59 3071.3 3126.5 2740.8 1825.89 2472.19 3052.5 FALSE FALSE TRUE 3141.829799 2449.721573 2907.727193 2598.941001 2835.977658 2860.104611 2432.397971 1779.186378 2454.985829 3184.108214 0.986722055 0.769358768 0.913199866 0.816222574 0.89066623 0.898243533 0.763918123 0.558770701 0.771012059 1 11.63667365 -2.9481569 0.273225718 1.006240559 1.57E-19 0.286049092 0.104698402 7.753028899 0.247531759 0.039058634 2.995811529 0.00112679 2.9481569 -1.006240559 RADLEETDK ddPTM_HeLa_SAHA_4h_R1 2 RADLEETDK 9 1 Q7Z6E1;K7EPW3;P10072-2;P10072 Q7Z6E1 HKR1 Krueppel-related zinc finger protein 1 0 0 ; ; 159.2 0.0011427 77928000 4417.4 4669.8 3923 4131.3 4919.7 4919.4 4608.3 4115.2 4754.9 4231.9 FALSE FALSE TRUE 4882.0424 4821.104584 4457.60601 4211.267285 4542.753649 4500.239444 4089.761956 4009.939143 4721.810264 4414.357919 1.105946208 1.09214175 1.009797142 0.953993166 1.029085935 1.019455043 0.926468137 0.908385594 1.069648259 1 12.10798789 -4.265635734 0.595900136 1.049857519 0.801181329 0.576437304 0.041408598 2.3472897 0.564217803 0.009782301 0.399735666 5.42E-05 4.265635734 -0.24867619 RADLNQGIGEPQS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 2 RADLNQGIGEPQSPSR 16 1 Q96C19 Q96C19 EFHD2 EF-hand domain-containing protein D2 1 0 RADLNQGIGEPQS(0.652)PS(0.348)R;RADLNQGIGEPQS(0.993)PS(0.007)R ; 159.4 1.21E-05 75375000 3256.3 3418.7 3188.7 2865 3090.2 2930.9 3352.7 3263.3 4410.5 3558.5 TRUE FALSE FALSE 3598.812574 3529.468123 3623.23943 2920.456218 2853.429544 2681.170831 2975.445372 3179.829511 4379.806971 3711.92435 0.969527457 0.95084592 0.976108101 0.786776869 0.768719746 0.722312897 0.801591059 0.856652564 1.179928942 1 11.85795159 -6.2629752 5.962745464 0.98169931 0.782787122 0.711605123 0.070990138 0.037133992 5.852270868 0.005402522 0.008637775 5.46E-07 6.2629752 -0.198912188 RADLNQGIGEPQS(ph)PSRR ddPTM_HeLa_SAHA_4h_R1 1 RADLNQGIGEPQSPSRR 17 2 Q96C19 Q96C19 EFHD2 EF-hand domain-containing protein D2 1 0 RADLNQGIGEPQS(0.6)PS(0.4)RR 66.264 0.0088233 12296000 883.13 807.8 802.59 928.83 950.39 688.79 677.22 935 905.99 753.77 TRUE FALSE FALSE 976.0216653 833.97325 911.9627855 946.8088478 877.5713235 630.101217 601.0174233 911.0840539 899.6851418 786.2687136 1.241333463 1.060672052 1.159861469 1.204179731 1.116121382 0.80138152 0.764391884 1.158743872 1.144246396 1 9.618878639 -5.279099438 22.79823182 1.122908094 0.893794402 0.432286906 0.117029778 188.7886418 243716.6983 0.018436377 0.041343302 5.26E-06 5.279099438 -0.229113692 RADNCS(ph)PVAEEETTGSAESTLPK ddPTM_HeLa_SAHA_4h_R1 2 RADNCSPVAEEETTGSAESTLPK 23 1 Q9C0D5;Q9C0D5-2 Q9C0D5 TANC1 Protein TANC1 1 0 RADNCS(0.999)PVAEEET(0.001)TGSAESTLPK;RADNCS(1)PVAEEETTGSAESTLPK ; 112.35 2.11E-05 45108000 5939.3 6051.6 5702 7055 7303.6 7871.2 7494.4 6558.6 6705.2 6182.1 TRUE FALSE FALSE 6564.022824 6247.675811 6479.038865 7191.559727 6743.999746 7200.529478 6651.110388 6390.840509 6658.537967 6448.640585 1.01789249 0.968836102 1.004713905 1.115205543 1.045801771 1.116596495 1.031397284 0.991036859 1.03254909 1 12.65477935 -6.337212775 24.16626755 1.004807894 1.060772768 0.347747812 0.037798463 74.17667453 23656.51324 0.005539155 0.0084612 4.60E-07 6.337212775 0.055964874 RAEDGS(ph)VIDYELIDQDAR ddPTM_HeLa_SAHA_4h_R1 3 RAEDGSVIDYELIDQDAR 18 1 P07355;P07355-2;H0YN42;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YNA0 P07355 ANXA2 Annexin A2;Annexin 1 0 RAEDGS(1)VIDYELIDQDAR;RAEDGS(1)VIDYELIDQDAR;RAEDGS(1)VIDYELIDQDAR ;; 204.94 3.66E-16 32434100 2659.27 3498.02 2590.7 2852.58 3983.1 3387.25 3542.54 3249.53 2980.28 3044 TRUE FALSE FALSE 2938.98422 3611.358143 2943.747104 2907.795811 3677.915739 3098.637244 3143.924076 3166.411728 2959.539989 3175.241737 0.925593849 1.137349041 0.927093856 0.915771476 1.158310467 0.975874437 0.990136921 0.997219106 0.932067614 1 11.63265072 RAEDGSVIDYELIDQDAR ddPTM_HeLa_SAHA_4h_R1 9 RAEDGSVIDYELIDQDAR 18 1 P07355;P07355-2;H0YN42;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YNA0 P07355 ANXA2 Annexin A2;Annexin 0 0 ;;;;;;;; ;;;;;;;; 241.11 8.94E-47 772409900 10432.75 12091.84 11221.05 11971.99 14049.65 13622.33 14684.23 11173.06 13382.68 13205.88 FALSE FALSE TRUE 11530.11451 12483.62355 12750.19626 12203.72518 12973.16885 12461.63085 13031.92179 10887.2693 13289.54884 13775.25011 0.837016709 0.906235709 0.925587278 0.885916777 0.941773742 0.904639171 0.946038851 0.790350027 0.96474102 1 13.74979089 -9.526468215 1.281411502 1.000047398 0.890282729 0.3732183 0.046104261 0.334448945 0.982642728 0.031905475 0.007626579 2.98E-10 9.526468215 -0.109764669 RAEFTVETR ddPTM_HeLa_SAHA_4h_R1 4 RAEFTVETR 9 1 P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98 P21333-2 FLNA Filamin-A 0 0 ;;; ;;; 192.64 4.27E-18 24761300 7304.9 7378.7 7614.7 7214.8 10239.8 9659.2 9639.4 7021.4 7930.9 7602 FALSE FALSE TRUE 8073.262898 7617.774721 8652.39166 7354.452887 9455.228736 8836.181819 8554.749342 6841.802755 7875.708221 7929.759423 1.018096826 0.960656473 1.09112915 0.927449686 1.19237271 1.114306418 1.078815748 0.862800798 0.993183753 1 12.95306138 -5.79648027 24.99948409 1.006567421 1.067001333 0.108710374 0.086986534 306.3649202 218571.3391 0.012096766 0.021927861 1.60E-06 5.79648027 0.060433912 RAELPGSSS(ph)PLLAQPR ddPTM_HeLa_SAHA_4h_R1 1 RAELPGSSSPLLAQPR 16 1 Q9C0H5;Q9C0H5-2 Q9C0H5 ARHGAP39 Rho GTPase-activating protein 39 1 0 RAELPGSS(0.004)S(0.996)PLLAQPR 160.45 2.23E-06 20771000 926.47 856.36 863.3 577.22 1096.8 1146.9 1092.9 883.46 1285.5 1093.6 TRUE FALSE FALSE 1023.920365 884.1066259 980.9460281 588.3929278 1012.763421 1049.177668 969.9240156 860.8623724 1276.554101 1140.750448 0.89758489 0.775021941 0.859912902 0.515794606 0.887804535 0.919725843 0.85025083 0.754645658 1.119047644 1 10.1557675 -7.760055188 1.088915378 0.974578424 0.795990355 0.406596052 0.116650768 0.368826976 0.915431279 0.026407928 0.024441698 1.74E-08 7.760055188 -0.178588068 RAETFAGYDCTNS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 2 RAETFAGYDCTNSPTK 16 1 M0QZS0;A0A590UK10;A0A3B3IPE9;A0A087WZG4;Q6ZSZ5-2;Q6ZSZ5-1;Q6ZSZ5-6;Q6ZSZ5-5;Q6ZSZ5 M0QZS0 ARHGEF18 Rho guanine nucleotide exchange factor 18 1 0 RAETFAGYDCT(0.1)NS(0.9)PTK;RAETFAGYDCT(0.009)NS(0.962)PT(0.029)K ; 221.34 1.76E-20 12887600 1254.19 1518.55 1289.13 1641.05 1774.87 1920.07 1871.75 1789.82 1899.11 1294.85 TRUE FALSE FALSE 1386.111459 1567.752016 1464.805923 1672.814896 1638.879844 1756.469234 1661.135764 1744.038996 1885.893939 1350.67732 1.026234348 1.160715437 1.084497312 1.238500766 1.213376296 1.300435868 1.229853895 1.291232902 1.396257944 1 10.39946734 -6.586502382 0.706620051 1.003453991 1.278250894 0 0.129718524 0.128034101 0.128817761 0.007701992 0.014834536 2.59E-07 6.586502382 0.274796903 RAETFGGFDSHQMNASK ddPTM_HeLa_SAHA_4h_R1 1 RAETFGGFDSHQMNASK 17 1 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7 Q12802-2 AKAP13 A-kinase anchor protein 13 0 0 78.692 0.0064657 1197100 0 288.34 162.49 370.3 245.46 260.68 189.4 268.13 78.881 149.05 FALSE FALSE TRUE 0 297.6824052 184.633291 377.467692 226.6529078 238.4685975 168.0882135 261.2716228 78.3320607 155.4762749 0 1.914648427 1.187533539 2.427815383 1.45779739 1.533794127 1.081118091 1.680459755 0.503820025 1 7.280550637 -7.254495786 24.96628882 0.527777775 1.597598423 0.59546776 0.419199842 321.807767 1157088.101 0.082449046 0.099813727 5.57E-08 7.254495786 1.069820648 RAGAES(ph)PTMSVDGR ddPTM_HeLa_SAHA_4h_R1 2 RAGAESPTMSVDGR 14 1 O75362 O75362 ZNF217 Zinc finger protein 217 1 0 RAGAES(0.887)PT(0.111)MS(0.002)VDGR;RAGAES(0.918)PT(0.081)MSVDGR ; 162.64 2.70E-05 7318700 1348.82 1136.18 1174.35 1496.81 1455.43 1354.38 1495.09 1518.21 1251.4 1190.16 TRUE FALSE FALSE 1490.695076 1172.992977 1334.384302 1525.782922 1343.915268 1238.979204 1326.858538 1479.376387 1242.691406 1241.473622 1.200746476 0.944839227 1.074839029 1.229009537 1.082516168 0.997990761 1.068777068 1.191629335 1.000980918 1 10.27783789 -4.255389733 22.97396147 1.08560911 1.19162948 0.124329142 0.08730015 420.4612659 1596575.415 0.013304701 0.156253901 5.55E-05 4.255389733 0.106020369 RAGDLLEDS(ph)PK ddPTM_HeLa_SAHA_4h_R1 8 RAGDLLEDSPK 11 1 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 1 0 RAGDLLEDS(1)PK;RAGDLLEDS(1)PK;RAGDLLEDS(1)PK;RAGDLLEDS(1)PK;RAGDLLEDS(1)PK;RAGDLLEDS(1)PK;RAGDLLEDS(1)PK;RAGDLLEDS(1)PK ;;;;;;; 147.52 0.0007585 1661720400 26372.5 31090.3 27699.1 31637.1 32192.9 37433.5 29997.5 29198.4 42800.1 32976.7 TRUE FALSE FALSE 29146.48055 32097.64612 31473.7891 32249.48182 29726.28696 34243.9552 26622.10235 28451.54721 42502.25062 34398.48692 0.847318681 0.933112151 0.914975975 0.937526174 0.864174259 0.995507601 0.773932365 0.827116241 1.235584888 1 15.07005749 -9.444462562 1.068755403 1.002800036 0.886025504 0.371373785 0.096745522 0.512598147 1.006040537 0.046766705 0.010572858 3.59E-10 9.444462562 -0.116774532 RAGDLLEDS(ph)PKRPK ddPTM_HeLa_SAHA_4h_R1 1 RAGDLLEDSPKRPK 14 3 P51858-2;P51858;P51858-3 P51858-2 HDGF Hepatoma-derived growth factor 1 0 RAGDLLEDS(1)PKRPK 61.495 0.017621 33631000 1508.6 1322.7 1504.1 1358.1 1348.9 1699 1915.1 1821.8 1417.8 1416.1 TRUE FALSE FALSE 1667.28147 1365.556348 1709.070915 1384.387989 1245.547573 1554.235642 1699.607908 1775.200994 1407.933414 1477.155001 1.128711251 0.924450276 1.157001746 0.937198864 0.843207092 1.052181823 1.150595507 1.20177029 0.953138576 1 10.5286055 -4.702354977 3.680563903 1.033984944 1.188397885 0.316638658 0.094843469 0.237064913 6.316283869 0.013871694 0.058535636 1.98E-05 4.702354977 0.154412941 RAGGGGGLGAGS(ph)PALSGGQGR ddPTM_HeLa_SAHA_4h_R1 1 RAGGGGGLGAGSPALSGGQGR 21 1 A0A3B3ITT1;Q6IQ22 A0A3B3ITT1 RAB12 Ras-related protein Rab-12 1 0 RAGGGGGLGAGS(0.599)PALS(0.401)GGQGR 149.24 1.27E-05 3320600 751.93 572.09 669.67 565.42 759.74 760.52 855.71 636.59 594.64 721.24 TRUE FALSE FALSE 831.0214474 590.6260914 760.9291401 576.3645217 701.5288853 695.7194174 759.4232587 620.3069496 590.5018518 752.3361861 1.104587899 0.785056072 1.011421694 0.766099694 0.932467291 0.924745387 1.009420087 0.824507662 0.784890934 1 9.555233673 -7.276283997 24.91693242 1.049388731 0.900204143 0 0.117626096 532.4455835 893716.8049 0.01383089 0.015851409 5.29E-08 7.276283997 -0.149184588 RAGPS(ph)EGS(ph)LDSTMK ddPTM_HeLa_SAHA_4h_R1 1 RAGPSEGSLDSTMK 14 1 H0Y9Z4 H0Y9Z4 EME1 2 0 RAGPS(0.998)EGS(0.998)LDS(0.002)T(0.002)MK 60.064 0.0075889 0 512.61 805.6 558.01 514.34 875.02 709.94 529 786.72 575.26 613.35 TRUE FALSE FALSE 566.5286717 831.7019686 634.0526968 524.2957944 807.9761566 649.449118 469.4755277 766.5968416 571.2567188 639.7945202 0.885485346 1.299951691 0.99102552 0.819475281 1.262868204 1.015090154 0.733791105 1.198192259 0.892875292 1 9.321464826 RAIS(ph)PTSSSR ddPTM_HeLa_SAHA_4h_R1 2 RAISPTSSSR 10 1 A0A0U1RRL2;B1AM27;O14795;O14795-2 A0A0U1RRL2 UNC13B Protein unc-13 homolog B 1 0 RAIS(0.999)PT(0.001)SSSR;RAIS(0.987)PT(0.012)S(0.001)SSR ; 81.431 0.013244 4895300 372.17 374.88 266.89 194.307 341.36 476.5 436.56 255.395 155.42 418.01 TRUE FALSE FALSE 411.3165482 387.026358 303.2603793 198.068093 315.2050705 435.8995193 387.4371198 248.8623657 154.3384196 436.0324568 0.943316356 0.887609057 0.695499554 0.454250801 0.722893596 0.99969512 0.888551102 0.570742755 0.353960851 1 8.768291718 -6.951894576 3.318025896 0.972137124 0.730655054 0 0.241899668 0.203523926 4.631600758 0.025189452 0.033149832 1.12E-07 6.951894576 -0.24148207 RALASNTSFFSGCS(ph)PIEEEAH ddPTM_HeLa_SAHA_4h_R1 1 RALASNTSFFSGCSPIEEEAH 21 1 O95239;Q2VIQ3 O95239 KIF4A;KIF4B Chromosome-associated kinesin KIF4A;Chromosome-associated kinesin KIF4B 1 0 RALASNTSFFS(0.001)GCS(0.999)PIEEEAH 112.82 5.48E-05 3490900 426.05 501.79 314.83 471.14 506.98 533.17 445.54 617.01 398.29 544.38 TRUE FALSE FALSE 470.8638938 518.0483252 357.7333928 480.259596 468.1353019 487.7409165 395.4066666 601.2277776 395.5182675 567.8508859 0.829203415 0.912296411 0.629977696 0.845749488 0.824398295 0.858924285 0.696321299 1.058777564 0.696517831 1 9.149368327 -9.032404911 0.696141371 1.007918836 0.82236397 0 0.143664705 0.791092578 0.661321519 0.083198333 0.021727054 9.28E-10 9.032404911 -0.185554865 RALLETAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 RALLETASPR 10 1 Q96BT3;H3BMP6;H3BQS6;H3BN05;H3BTS2;H3BQJ0;I3L4F8;H3BUW2;H3BTR4;Q96BT3-3;Q96BT3-2 Q96BT3 CENPT Centromere protein T 1 0 RALLET(0.002)AS(0.998)PR;RALLET(0.051)AS(0.949)PR;RALLET(0.01)AS(0.99)PR ;; 79.089 0.014252 19140600 5743.2 5171.6 5376.7 5635.8 5918.3 4839.8 7574.8 5253.25 4891.42 5701.1 TRUE FALSE FALSE 6347.296127 5339.163233 6109.408675 5744.889059 5464.841133 4427.421812 6722.463568 5118.879472 4857.38021 5946.902322 1.067328129 0.897805773 1.027326219 0.966030506 0.918939111 0.744492102 1.130414324 0.860764007 0.816791658 1 12.53792266 -6.587038232 1.056631653 1.028536949 0.922938141 0 0.118963282 0.621547316 1.387479607 0.017634661 0.030064997 2.59E-07 6.587038232 -0.105598808 RALS(ph)SDSILSPAPDAR ddPTM_HeLa_SAHA_4h_R1 4 RALSSDSILSPAPDAR 16 1 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 RALS(0.722)S(0.231)DS(0.047)ILSPAPDAR;RALS(0.737)S(0.241)DS(0.021)ILSPAPDAR;RALS(0.994)S(0.002)DS(0.004)ILSPAPDAR;RALS(0.585)S(0.217)DS(0.198)ILSPAPDAR ;;; 243.83 6.43E-36 304513000 6369.11 5712.2 5771.25 6489.11 6293 6714.33 7358 7074.2 4938.31 5978.12 TRUE FALSE FALSE 7039.042212 5897.279028 6557.725895 6614.716107 5810.8317 6142.23131 6530.058475 6893.252207 4903.943899 6235.866009 1.128799465 0.945703294 1.051614304 1.060753406 0.931840372 0.984984491 1.047177483 1.105420193 0.78640944 1 12.60637421 -7.264642924 24.98497306 1.060821967 1.017648105 0 0.104314964 589.513582 4597683.655 0.011572816 0.013504179 5.44E-08 7.264642924 -0.043173862 RALS(ph)TTSSSTTNGNR ddPTM_HeLa_SAHA_4h_R1 1 RALSTTSSSTTNGNR 15 1 A0A0A0MT72;Q9BSQ5-4;Q9BSQ5;Q9BSQ5-2;C9JUH3;Q9BSQ5-3 A0A0A0MT72 CCM2 Cerebral cavernous malformations 2 protein 1 0 RALS(0.952)T(0.031)T(0.005)S(0.005)S(0.005)S(0.001)T(0.001)TNGNR 87.824 0.0044796 0 126.2 0 134.28 0 133.3 0 177.74 0 0 69.156 TRUE FALSE FALSE 139.474295 0 152.5789791 0 123.0865828 0 157.7402274 0 0 72.1376536 1.933446516 0 2.115108705 0 1.706273723 0 2.186655922 0 0 1 6.172680593 -7.303367332 24.99823719 1.440794092 0.924312214 0 0.977408775 952.318452 567788.0419 0.135484904 0.154933556 4.97E-08 7.303367332 -0.516481878 RALVEFESNPEET(ph)REPGSPPSVQR ddPTM_HeLa_SAHA_4h_R1 2 RALVEFESNPEETREPGSPPSVQR 24 2 Q9H6F5;H0YG79 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 1 0 RALVEFESNPEET(0.893)REPGS(0.106)PPSVQR;RALVEFES(0.001)NPEET(0.727)REPGS(0.264)PPS(0.009)VQR ; 109.12 0.00010908 56506300 945.48 516.78 921.54 1025.71 766.9 901.47 865.88 891.64 743.61 811.85 TRUE FALSE FALSE 1044.929924 533.5240111 1047.122672 1045.5641 708.1402877 824.6596845 768.4489035 868.8331399 738.4351575 846.8528266 1.2338979 0.630007947 1.23648719 1.234646762 0.836202307 0.97379339 0.907417298 1.025955293 0.871975784 1 9.725967457 -5.751504484 24.99786684 1.091251734 0.936522563 0.011355012 0.187471795 316.3463234 795974.7106 0.026064736 0.051636751 1.77E-06 5.751504484 -0.154729171 RALVEFESNPEETREPGS(ph)PPSVQR ddPTM_HeLa_SAHA_4h_R1 1 RALVEFESNPEETREPGSPPSVQR 24 2 Q9H6F5;H0YG79 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 1 0 RALVEFESNPEET(0.158)REPGS(0.835)PPS(0.006)VQR 121 2.29E-06 47609000 407.81 270.34 647.72 500.65 368.53 500.59 770.59 535.81 334.43 490.79 TRUE FALSE FALSE 450.7053269 279.0991934 735.9879084 510.3408047 340.293311 457.9369158 683.8811851 522.104756 332.1026744 511.9503588 0.880369198 0.545168469 1.437615768 0.996856035 0.664699819 0.894494765 1.335834956 1.01983473 0.648700931 1 8.999860116 -6.769003088 24.99938937 0.912053837 1.04272245 0.158955832 0.249410126 401.8437469 1328163.569 0.038534708 0.051199809 1.70E-07 6.769003088 0.130668613 RALVILAK ddPTM_HeLa_SAHA_4h_R1 2 RALVILAK 8 1 Q99497;K7ELW0 Q99497 PARK7 Protein deglycase DJ-1 0 0 ; ; 84.568 0.0099911 0 1002.8 888.04 1571.57 1659.12 1670.1 1051.99 1651.9 853.18 1048.17 1517.66 FALSE FALSE TRUE 1108.279105 916.8130787 1785.735375 1691.234667 1542.137299 962.3545337 1466.023864 831.356891 1040.8757 1583.09375 0.700071683 0.57912747 1.128003553 1.068309863 0.974128853 0.607894848 0.926049935 0.525146973 0.657494668 1 10.62853098 -9.578807119 1.399174542 0.998810026 0.809981778 0 0.225053524 0.797426731 2.82713196 0.1386849 0.033283284 2.64E-10 9.578807119 -0.188828248 RAMNT(ph)QENATRARAVDS(ph)LLNFET(ph)VK ddPTM_HeLa_SAHA_4h_R1 1 RAMNTQENATRARAVDSLLNFETVK 25 3 Q9NP58-4;Q9NP58 Q9NP58-4 ABCB6 "ATP-binding cassette sub-family B member 6, mitochondrial" 3 0 RAMNT(0.937)QENAT(0.072)RARAVDS(0.992)LLNFET(0.999)VK 41.904 0.0084482 0 966.59 917.21 1004.3 952.02 1044.2 1190.4 1546.9 1128.7 1167.9 1104.6 TRUE FALSE FALSE 1068.260371 946.9282058 1141.160774 970.4477237 964.1936216 1088.971223 1372.838741 1099.829488 1159.772489 1152.224712 0.927128502 0.821825982 0.99039776 0.842238249 0.8368104 0.945103166 1.191467885 0.954526905 1.006550612 1 10.17020639 -4.894302681 11.46594157 0.937016882 1.072814157 0.326228732 0.084920431 0.356874336 36.39972219 0.011760722 0.035323891 1.28E-05 4.894302681 0.135797274 RAPFDLFENK ddPTM_HeLa_SAHA_4h_R1 1 RAPFDLFENK 10 1 P08238;Q58FF7 P08238 HSP90AB1;HSP90AB3P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 0 125.23 0.00064944 1172500 1257.5 1500.6 2319.8 1552 1327.5 1123.3 1766.5 914.1 810.26 1157.9 FALSE FALSE TRUE 1389.76962 1549.220425 2635.930263 1582.041204 1225.787237 1027.58852 1567.728771 890.7186456 804.6213347 1207.822736 1.150640387 1.282655458 2.182381723 1.309828965 1.014873458 0.850777594 1.297979186 0.737458088 0.66617502 1 10.23819302 -4.249861407 23.0044548 1.169458884 0.737457306 0.109613014 0.385080114 1035.329392 2056988.868 0.051251701 0.995401799 5.63E-05 4.249861407 -0.432001578 RAPFDLFENK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 RAPFDLFENKK 11 2 P08238;Q58FF7 P08238 HSP90AB1;HSP90AB3P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 1 ; RAPFDLFENK(1)K;RAPFDLFENK(1)K 171.67 2.06E-11 6416900 2497.3 6612.6 4786.1 3260.2 6400.3 6098.8 6625.5 3288.2 5104 2309.42 FALSE TRUE FALSE 2759.977472 6826.852579 5438.324783 3323.305885 5909.910397 5579.147929 5879.981303 3204.092605 5068.480848 2408.990398 1.145698826 2.833906098 2.257512021 1.379543018 2.453272708 2.315969351 2.440848792 1.330056196 2.103985492 1 11.23421293 -7.369474955 7.636331537 1.064725051 2.148207262 0.197109494 0.550985031 0.140495694 8.910030807 0.072523142 0.082734995 4.27E-08 7.369474955 1.083482212 RAPS(ph)PDGFSPYSPEETNR ddPTM_HeLa_SAHA_4h_R1 2 RAPSPDGFSPYSPEETNR 18 1 Q13233 Q13233 MAP3K1 Mitogen-activated protein kinase kinase kinase 1 1 0 RAPS(0.998)PDGFS(0.002)PYSPEETNR;RAPS(0.967)PDGFS(0.033)PYSPEETNR ; 76.668 0.0041685 8509300 700.99 861.26 948.34 931.84 966.12 1066.5 911.65 779.66 854.65 1001.99 TRUE FALSE FALSE 774.7233445 889.1653891 1077.574836 949.8771107 892.0960943 975.6282 809.0687427 759.7174261 848.7024211 1045.190693 0.741226792 0.85072073 1.030983957 0.908807472 0.853524721 0.933445167 0.774087206 0.726869682 0.812007251 1 10.02955047 -9.622307258 1.449874545 0.999625875 0.842998084 0 0.104491312 0.457334077 1.733230693 0.068506969 0.015838804 2.39E-10 9.622307258 -0.156627792 RAPS(ph)PGAYK ddPTM_HeLa_SAHA_4h_R1 1 RAPSPGAYK 9 1 P54259 P54259 ATN1 Atrophin-1 1 0 RAPS(1)PGAYK 84.188 0.012226 73621000 4736.2 4512.7 4897.9 4776.1 5276.2 5739.6 6098.1 5836.5 5094.6 5243.7 TRUE FALSE FALSE 5234.375246 4658.914441 5565.360305 4868.548322 4871.938696 5250.55379 5411.925739 5687.210781 5059.146264 5469.781569 0.956962391 0.851755117 1.017473958 0.89008094 0.890700777 0.959920195 0.989422643 1.039750986 0.924926562 1 12.41726751 -8.61542827 1.084572704 0.994709935 0.947564428 0 0.060024261 0.76566341 1.818052791 0.019613173 0.010887608 2.42E-09 8.61542827 -0.047145507 RAPS(ph)T(ph)SPSFEGTQETYTVAHEENVR ddPTM_HeLa_SAHA_4h_R1 1 RAPSTSPSFEGTQETYTVAHEENVR 25 1 Q9BUT9 Q9BUT9 FAM195A Protein FAM195A 2 0 RAPS(0.496)T(0.496)S(0.496)PS(0.496)FEGT(0.018)QETYTVAHEENVR 88.222 4.01E-05 8285700 72.112 65.342 328.7 272.8 0 257.87 180.41 0 148.37 165.05 TRUE FALSE FALSE 79.69707102 67.45912367 373.4935242 278.0804385 0 235.8980253 160.109792 0 147.3374811 172.1661132 0.462907999 0.391825792 2.169378847 1.615186829 0 1.370176865 0.92997274 0 0.855786765 1 7.427657401 -4.259122283 24.99863722 0.871808931 0.000119115 0.171751353 0.605175702 320.9671935 3462617.772 0.084602698 0.757243538 5.51E-05 4.259122283 -0.871689816 RAPS(ph)VANVGSHCDLSLK ddPTM_HeLa_SAHA_4h_R1 1 RAPSVANVGSHCDLSLK 17 1 P21333-2;P21333;Q60FE5 P21333-2 FLNA Filamin-A 1 0 RAPS(0.987)VANVGS(0.013)HCDLSLK 77.66 0.0067808 6606500 1901.2 3465 1434.8 1930.2 3005.3 4051.9 2502.6 2551.1 3874.9 2796.2 TRUE FALSE FALSE 2101.176939 3577.268273 1630.327072 1967.561812 2775.034563 3706.655325 2221.000862 2485.846556 3847.934255 2916.757866 0.720380997 1.22645363 0.558951804 0.674571529 0.951410673 1.270813518 0.7614622 0.852263599 1.319250494 1 11.51014991 -5.55173897 24.9251135 0.855163525 0.969775577 0 0.257013465 491.2805318 424292.5905 0.03168687 0.063374411 2.81E-06 5.55173897 0.114612053 RAPSTSPS(ph)FEGTQETYTVAHEENVR ddPTM_HeLa_SAHA_4h_R1 1 RAPSTSPSFEGTQETYTVAHEENVR 25 1 Q9BUT9 Q9BUT9 FAM195A Protein FAM195A 1 0 RAPS(0.008)T(0.008)S(0.043)PS(0.851)FEGT(0.069)QET(0.02)YTVAHEENVR 119.16 7.92E-08 12908000 436.18 511.85 430.77 442.52 426.81 576.24 460.14 426.22 437.23 588 TRUE FALSE FALSE 482.0594137 528.4342758 489.4730922 451.0856145 394.10791 527.1411102 408.3638362 415.3179096 434.1872808 613.3515576 0.785943082 0.861552024 0.798030242 0.735443823 0.642548152 0.859443664 0.66579082 0.677128646 0.707893011 1 9.260570417 -13.52287874 0.123373345 1.882483968 0.620083093 0 0.109940579 32.13367917 0.284603691 6.983244377 0.260895413 3.00E-14 13.52287874 -1.262400875 RAQS(ph)TDSLGTSGSLQSK ddPTM_HeLa_SAHA_4h_R1 2 RAQSTDSLGTSGSLQSK 17 1 I3L456;Q15276-2;Q15276 I3L456 RABEP1 Rab GTPase-binding effector protein 1 1 0 RAQS(0.927)T(0.046)DS(0.023)LGT(0.003)SGSLQSK;RAQS(0.793)T(0.204)DS(0.004)LGTSGSLQSK ; 170.5 5.67E-07 46529000 6631.5 6721 7092.6 5694.31 6771.9 7752.9 7677.1 7383.2 5864.71 6832.3 TRUE FALSE FALSE 7329.031596 6938.76481 8059.142591 5804.531604 6253.038485 7092.309303 6813.252503 7194.348435 5823.897006 7126.873889 1.028365551 0.973605667 1.130810327 0.814456899 0.877388681 0.995150106 0.955994537 1.009467622 0.817174135 1 12.79905368 -6.263637433 24.99999363 1.018123488 0.932550384 0.055529463 0.091031684 192.2763789 2186894.092 0.009786326 0.015417854 5.45E-07 6.263637433 -0.085573104 RAS(ph)FAEK ddPTM_HeLa_SAHA_4h_R1 1 RASFAEK 7 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 RAS(1)FAEK 70.552 0.019249 27956000 3810.6 3378.1 3753.8 6336.8 4827.8 7373.9 8952.7 8346.6 3899.2 6809.9 TRUE FALSE FALSE 4211.416392 3487.552656 4265.348315 6459.457927 4457.895007 6745.602236 7945.318634 8133.106058 3872.06515 7103.508116 0.592864304 0.490962015 0.600456598 0.909333504 0.627562457 0.949615616 1.118506308 1.144942179 0.545091958 1 12.79431597 -4.964419624 3.310913818 0.7607186 1.131006557 0.519818472 0.165100996 0.198003751 4.477538635 0.028340464 0.094130008 1.09E-05 4.964419624 0.370287957 RAS(ph)GLSTEGATGPSADTSGSELDGR ddPTM_HeLa_SAHA_4h_R1 2 RASGLSTEGATGPSADTSGSELDGR 25 1 Q7Z628 Q7Z628 NET1 Neuroepithelial cell-transforming gene 1 protein 1 0 RAS(0.804)GLS(0.142)T(0.054)EGATGPSADTSGSELDGR;RAS(0.59)GLS(0.333)T(0.078)EGATGPSADTSGSELDGR ; 126.8 2.69E-08 14157400 0 0 0 0 74.76 337.86 113.09 264.83 104.86 190.64 TRUE FALSE FALSE 0 0 0 0 69.03190495 309.0724273 100.3648156 258.0560321 104.1302707 198.8594234 0 0 0 0 0.347139219 1.554225704 0.504702336 1.297680682 0.523637598 1 7.635605119 -5.291688639 23.92631826 0.385411813 1.057452913 0.468753707 0.400310488 397.3657286 314304.6297 0.073361684 0.164066761 5.11E-06 5.291688639 0.6720411 RAS(ph)GQAFELILS(ph)PR ddPTM_HeLa_SAHA_4h_R1 5 RASGQAFELILSPR 14 1 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 2 0 RAS(1)GQAFELILS(1)PR;RAS(1)GQAFELILS(1)PR;RAS(1)GQAFELILS(1)PR;RAS(1)GQAFELILS(1)PR;RAS(1)GQAFELILS(1)PR ;;;; 152.09 7.86E-05 99444700 8662.78 11394.6 10970.12 11908.1 13824 14977.2 14126.9 11068.4 12639.7 12424.9 TRUE FALSE FALSE 9573.970947 11763.79252 12465.07082 12138.59849 12764.80811 13701.0583 12537.30403 10785.28635 12551.7393 12960.59824 0.738698227 0.907658142 0.961766624 0.936577021 0.984893434 1.057131626 0.967339917 0.832159608 0.968453698 1 13.66184469 -6.881671744 4.621807894 0.874250487 0.961860851 0.053574653 0.083896366 0.353189144 12.82477762 0.01779231 0.023628272 1.31E-07 6.881671744 0.087610365 RAS(ph)GQAFELILSPR ddPTM_HeLa_SAHA_4h_R1 7 RASGQAFELILSPR 14 1 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 1 0 RAS(1)GQAFELILSPR;RAS(1)GQAFELILSPR;RAS(1)GQAFELILSPR;RAS(1)GQAFELILSPR;RAS(1)GQAFELILSPR;RAS(1)GQAFELILSPR;RAS(1)GQAFELILSPR ;;;;;; 172.6 8.84E-07 116791800 2207.66 2551.6 2948.03 3845.8 3848.81 3423.72 4418.03 4152.87 3373.24 2983.59 TRUE FALSE FALSE 2439.871808 2634.273514 3349.772176 3920.24102 3553.915009 3131.999795 3920.901637 4046.645599 3349.765348 3112.227166 0.783963277 0.846427132 1.076326372 1.259625603 1.141920181 1.006353209 1.259837868 1.300241076 1.076324179 1 11.60373165 -6.593203052 4.153047503 0.891743319 1.183343586 0.56183866 0.108918849 0.112366958 3.840452969 0.018035148 0.026015963 2.55E-07 6.593203052 0.291600267 RAS(ph)ISEPSDTDPEPR ddPTM_HeLa_SAHA_4h_R1 4 RASISEPSDTDPEPR 15 1 Q8N1F8 Q8N1F8 STK11IP Serine/threonine-protein kinase 11-interacting protein 1 0 RAS(0.997)IS(0.003)EPSDTDPEPR;RAS(0.985)IS(0.013)EPS(0.001)DT(0.001)DPEPR;RAS(0.99)IS(0.01)EPSDTDPEPR;RAS(0.998)IS(0.002)EPSDTDPEPR ;;; 171.15 1.82E-06 54854300 2247.62 2305.87 2220.08 2427.45 2477.85 2798.17 2713.17 2260.35 2517.24 2563.57 TRUE FALSE FALSE 2484.034984 2380.581701 2522.620941 2474.436805 2287.997668 2559.750174 2407.876971 2202.53352 2499.722322 2674.098049 0.928924422 0.890237253 0.943353944 0.925335107 0.855614726 0.957238713 0.900444534 0.823654735 0.934790825 1 11.38483665 -13.52287875 0.082620301 1.342832142 0.803419434 0.320985043 0.039683266 86.34737429 0.545733661 5.345335401 0.552968837 3.00E-14 13.52287875 -0.539412708 RAS(ph)LSDLTDLEDIEGLTVR ddPTM_HeLa_SAHA_4h_R1 2 RASLSDLTDLEDIEGLTVR 19 1 J3KSI3;J3KSU7;K7EN88;Q8WZ73-3;Q8WZ73-2;Q8WZ73 J3KSI3 RFFL;hCG_2039718 E3 ubiquitin-protein ligase rififylin 1 0 RAS(0.97)LS(0.03)DLTDLEDIEGLTVR;RAS(0.945)LS(0.055)DLTDLEDIEGLTVR ; 149.8 3.20E-05 7083200 1324.07 1598.18 1677.87 1591.23 1756.18 2034.55 1906.04 1509.86 2100.43 2060.74 TRUE FALSE FALSE 1463.341758 1649.962081 1906.521386 1622.030558 1621.621868 1861.194894 1691.567363 1471.239967 2085.812937 2149.588586 0.680754339 0.767571102 0.88692385 0.75457721 0.754387085 0.865837726 0.7869261 0.684428628 0.97033123 1 11.06984485 -9.458141663 1.165142739 1.001361533 0.769127093 0.644658632 0.062957078 0.255792518 0.615367014 0.048232313 0.011656751 3.48E-10 9.458141663 -0.23223444 RAS(ph)LSEIGFGK ddPTM_HeLa_SAHA_4h_R1 1 RASLSEIGFGK 11 1 F5H6Z0;Q00537-2;Q00537 F5H6Z0 CDK17 Cyclin-dependent kinase 17 1 0 RAS(0.915)LS(0.085)EIGFGK 74.649 0.015579 3343900 3177.7 3167.7 2890.1 3461.7 4351.3 4354.9 4625.4 4606.8 3443.9 3667.9 TRUE FALSE FALSE 3511.945066 3270.335558 3283.947777 3528.706209 4017.904334 3983.83802 4104.937819 4488.964727 3419.933619 3826.041119 0.91790573 0.854757034 0.858314815 0.922286536 1.050146668 1.041242866 1.072894329 1.1732662 0.893856995 1 11.90163666 -5.002889376 1.114624396 0.942278628 1.154789923 0.704773688 0.054369813 0.381653279 0.737296318 0.009977615 0.069487923 9.93E-06 5.002889376 0.212511295 RAS(ph)LTLEEK ddPTM_HeLa_SAHA_4h_R1 2 RASLTLEEK 9 1 Q6P3W7;A0A0U1RQQ9 Q6P3W7 SCYL2 SCY1-like protein 2 1 0 RAS(0.96)LT(0.04)LEEK;RAS(0.999)LT(0.001)LEEK ; 88.803 0.0098764 24178000 4906.6 4645.4 4090.3 5228.7 6756.2 6386.9 7046.2 7002.7 4363.4 4627.1 TRUE FALSE FALSE 5422.6987 4795.914008 4647.704783 5329.909049 6238.541416 5842.700188 6253.343031 6823.581074 4333.034744 4826.596925 1.123503533 0.99364295 0.962936175 1.10427888 1.292534163 1.210521674 1.29560084 1.413745788 0.897741164 1 12.23679064 -5.822057833 3.621936248 1.046857617 1.298686301 0.762182449 0.078464879 0.090855963 2.408769726 0.010850359 0.020993192 1.51E-06 5.822057833 0.251828683 RAS(ph)MQPIQIAEGTGITTR ddPTM_HeLa_SAHA_4h_R1 2 RASMQPIQIAEGTGITTR 18 1 A0A087WY61;Q14980-5;Q14980-2;Q14980;H0YFY6 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 1 0 RAS(1)MQPIQIAEGTGITTR;RAS(1)MQPIQIAEGTGITTR ; 121.92 0.0002381 17250400 907.31 952.98 785.62 1096.66 924.99 1409.76 901.36 962.62 960.37 1179.55 TRUE FALSE FALSE 1002.745029 983.8571773 892.6802023 1117.88744 854.117466 1289.640517 799.9366006 937.9975743 953.686707 1230.406173 0.814970739 0.799619832 0.72551668 0.908551554 0.694175212 1.048142106 0.650140269 0.76234791 0.775099092 1 10.26491893 -9.047575685 0.60436438 1.019246262 0.797201811 0 0.127433029 0.866186843 0.516167812 0.102600279 0.023395215 8.96E-10 9.047575685 -0.222044451 RAS(ph)PAPSDSSPGEPFVGGPVSSPR ddPTM_HeLa_SAHA_4h_R1 1 RASPAPSDSSPGEPFVGGPVSSPR 24 1 O60346 O60346 PHLPP1 PH domain leucine-rich repeat-containing protein phosphatase 1 1 0 RAS(0.885)PAPS(0.091)DS(0.012)S(0.012)PGEPFVGGPVSSPR 46.968 0.017106 5340000 157.68 374.59 230.92 297.15 263.57 389.71 430.71 288.67 357.85 159.11 TRUE FALSE FALSE 174.2655059 386.7269618 262.388575 302.9017679 243.3753235 356.5045156 382.2453772 281.2862394 355.3596927 165.9700108 1.049981892 2.330101444 1.580939676 1.825039153 1.46638132 2.148005618 2.303099069 1.694801598 2.141107849 1 7.374778773 -7.283314272 23.04541483 1.0236024 1.898791037 0.059865352 0.44684804 114.6713888 120807.0376 0.04540956 0.05196141 5.21E-08 7.283314272 0.875188637 RAS(ph)PNLFSEAQYQEAPVEK ddPTM_HeLa_SAHA_4h_R1 1 RASPNLFSEAQYQEAPVEK 19 1 F6VUX8;Q9HC77-2;Q9HC77 F6VUX8 CENPJ Centromere protein J 1 0 RAS(0.914)PNLFS(0.086)EAQYQEAPVEK 99.454 0.00076786 5396400 3005.7 2946.3 2978.3 3634.4 3942.1 4010.4 3926.6 3727.7 3309.7 3103.2 TRUE FALSE FALSE 3321.853317 3041.762053 3384.167214 3704.749067 3640.05715 3668.691358 3484.768634 3632.350832 3286.667528 3236.994139 1.026215425 0.939687229 1.045465969 1.144502866 1.124517683 1.133363609 1.076544623 1.122136981 1.01534553 1 11.66043904 -6.441932024 4.88794141 1.00663706 1.117989747 0.814563842 0.027962278 0.075225286 3.179341321 0.004378381 0.006700708 3.61E-07 6.441932024 0.111352687 RAS(ph)PNSDDTVLSPQELQK ddPTM_HeLa_SAHA_4h_R1 4 RASPNSDDTVLSPQELQK 18 1 Q9UH62 Q9UH62 ARMCX3 Armadillo repeat-containing X-linked protein 3 1 0 RAS(0.754)PNS(0.244)DDT(0.002)VLSPQELQK;RAS(1)PNSDDTVLSPQELQK;RAS(0.639)PNS(0.359)DDT(0.002)VLSPQELQK;RAS(0.913)PNS(0.063)DDT(0.007)VLS(0.017)PQELQK ;;; 212.37 3.78E-21 28894500 7043.21 7533.89 6515.13 7405.49 8119.42 9030.2 8192.46 8440.98 7865.1 7868.98 TRUE FALSE FALSE 7784.047143 7777.992979 7402.977987 7548.833967 7497.311794 8260.776157 7270.622839 8225.071954 7810.366129 8208.250238 0.948319912 0.947582341 0.901894773 0.91966421 0.913387333 1.006399162 0.885770125 1.002049367 0.951526318 1 13.002859 -8.701436032 0.722161957 0.998787846 0.937582903 0.06480678 0.039927207 0.623328983 0.638755522 0.019917948 0.007707365 1.99E-09 8.701436032 -0.061204943 RAS(ph)PPDPSPSPSAASASER ddPTM_HeLa_SAHA_4h_R1 3 RASPPDPSPSPSAASASER 19 1 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 RAS(1)PPDPSPSPSAASASER;RAS(1)PPDPSPSPSAASASER;RAS(1)PPDPSPSPSAASASER ;; 144.25 5.30E-05 57882000 5168.09 4799.74 5056.94 5746.36 6261.49 6580.82 6409.01 7352.56 4869.69 4824.23 TRUE FALSE FALSE 5711.693418 4955.254725 5746.073448 5857.589107 5781.735989 6020.097113 5687.851327 7164.492162 4835.801431 5032.226165 1.135023195 0.984704297 1.141855167 1.164015471 1.148941999 1.196308933 1.130285313 1.423722211 0.960966632 1 12.29698105 -1 0.276025575 1.04211623 3.188958105 0.675444085 0.071816844 23.27530411 0.296112069 0.030854531 24.30258499 0.1 1 2.146841875 RAS(ph)PSKPASAPASR ddPTM_HeLa_SAHA_4h_R1 1 RASPSKPASAPASR 14 2 E7EVA0;P27816;P27816-6;P27816-2;P27816-4;B5MEG9;P27816-5;H0Y2V1;H7C4C5;F8W9U4 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 RAS(0.958)PS(0.039)KPAS(0.002)APAS(0.002)R 120.54 0.0043036 2164700 2790.7 2665.7 1912.4 1992.8 2602.4 2489.4 2442.3 2360 2180.6 2037.6 TRUE FALSE FALSE 3084.23863 2752.070429 2173.011913 2031.373526 2403.004674 2277.289115 2167.485976 2299.634617 2165.425027 2125.450908 1.451098503 1.294817217 1.022376901 0.955737683 1.130585828 1.071438115 1.019777012 1.081951415 1.018807359 1 11.05355322 -6.752310505 24.83240263 1.225105619 1.046506317 0.21273575 0.129478562 227.117511 617803.9157 0.027680043 0.0388244 1.77E-07 6.752310505 -0.178599301 RAS(ph)QEANLLTLAQK ddPTM_HeLa_SAHA_4h_R1 2 RASQEANLLTLAQK 14 1 A0A0A0MSU2;A0A1C7CYX1;Q6PJG2;H7C1L3 A0A0A0MSU2 ELMSAN1 ELM2 and SANT domain-containing protein 1 1 0 RAS(1)QEANLLTLAQK;RAS(1)QEANLLTLAQK ; 75.55 0.01131 20198900 3504 4032 3393.63 3464 4026.1 4270.2 4426.7 4279.9 3221.7 3328.9 TRUE FALSE FALSE 3872.566797 4162.639445 3856.096223 3531.050729 3717.621088 3906.354937 3928.596066 4170.426355 3199.279927 3472.42517 1.115234053 1.198770093 1.110490805 1.016883174 1.070612297 1.124964469 1.131369539 1.201012592 0.921338768 1 11.76172789 -9.027499346 0.798640913 0.998781966 1.11816871 0.521219072 0.058059158 0.528640571 0.609688329 0.037617895 0.011195614 9.39E-10 9.027499346 0.119386744 RAS(ph)SASVPAVGASAEGTR ddPTM_HeLa_SAHA_4h_R1 1 RASSASVPAVGASAEGTR 18 1 A0A2R8YFI4;V9GYZ0;Q9BZ23-3;Q9BZ23-4;Q9BZ23 A0A2R8YFI4 PANK2 "Pantothenate kinase 2, mitochondrial" 1 0 RAS(0.933)S(0.064)AS(0.003)VPAVGASAEGTR 92.096 0.00735 4097700 1145.1 1532.1 1216.9 1207.1 1755.2 1642.8 1671.8 1676.3 1309.1 1606.1 TRUE FALSE FALSE 1265.546872 1581.741045 1382.732795 1230.465166 1620.716955 1502.824198 1483.684664 1633.422673 1299.989867 1675.346831 0.755393957 0.944127518 0.825341218 0.734453991 0.967391901 0.897022736 0.885598514 0.974975834 0.775952682 1 10.71024408 -1.369716343 1.007314822 0.876665343 44.00894287 0.114811294 0.087177778 1726.17519 5.063056307 0.015712612 171052.3925 0.042685823 1.369716343 43.13227753 RAS(ph)SGLPR ddPTM_HeLa_SAHA_4h_R1 1 RASSGLPR 8 1 Q9UJZ1;Q9UJZ1-2 Q9UJZ1 STOML2 "Stomatin-like protein 2, mitochondrial" 1 0 RAS(0.851)S(0.149)GLPR 82.417 0.006833 0 566.12 555.5 451.29 451.13 627.84 512.4 566.75 563.3 588.46 673.05 TRUE FALSE FALSE 625.6670991 573.4985645 512.789451 459.8622735 579.7350348 468.7406373 502.9777984 548.8916016 584.3648589 702.0684793 0.891176741 0.816869837 0.730398054 0.655010568 0.825752832 0.667656576 0.716422704 0.781820603 0.832347379 1 9.455467947 -7.409802267 0.861343956 0.973686143 0.7220093 0.54619041 0.067474028 0.154219365 0.234368409 0.012614389 0.013781204 3.89E-08 7.409802267 -0.251676844 RAS(ph)SLNFLNK ddPTM_HeLa_SAHA_4h_R1 3 RASSLNFLNK 10 1 Q9H0B6;Q9H0B6-2;A8MZ87 Q9H0B6 KLC2 Kinesin light chain 2 1 0 RAS(0.71)S(0.29)LNFLNK;RAS(0.667)S(0.333)LNFLNK;RAS(0.658)S(0.342)LNFLNK ;; 115.92 0.0020149 15549500 9847.6 8688.5 9812.6 10120.3 11040.5 9403.7 10952.1 9269.5 6915.7 7448.4 TRUE FALSE FALSE 10883.41575 8970.013101 11149.81003 10316.19304 10194.57928 8602.451856 9719.740884 9032.399612 6867.573081 7769.536976 1.400780482 1.154510639 1.435067503 1.327774496 1.312121856 1.107202641 1.251006452 1.16254027 0.883910213 1 12.92361291 -9.484939448 1.205313287 0.998767549 1.282083239 0.570140161 0.109501883 0.317081163 0.818440227 0.07481109 0.017949025 3.27E-10 9.484939448 0.28331569 RAS(ph)SLNVLNVGGK ddPTM_HeLa_SAHA_4h_R1 2 RASSLNVLNVGGK 13 1 Q07866-6;Q07866-4;G3V5R9;Q07866-7;H0YG16;Q07866-9;H0YJK1 Q07866-6 KLC1 Kinesin light chain 1 1 0 RAS(0.5)S(0.5)LNVLNVGGK;RAS(0.825)S(0.175)LNVLNVGGK ; 135.57 0.0002869 11497900 13944.8 12445.4 13807.4 13663 14350.6 15083.8 15103.9 14862 13068.1 13216.6 TRUE FALSE FALSE 15411.57805 12848.63913 15689.00057 13927.46712 13251.06013 13798.57538 13404.36942 14481.85156 12977.15803 13786.43231 1.11788008 0.931977095 1.138002945 1.010229972 0.961166735 1.000880799 0.972287037 1.050442293 0.941299224 1 13.75096154 -6.016338409 24.88486833 1.052434599 0.993680939 0 0.06782631 939.0251653 1430221.338 0.009351729 0.015802305 9.63E-07 6.016338409 -0.058753661 RAS(ph)WASENGETDAEGTQMTPAK ddPTM_HeLa_SAHA_4h_R1 2 RASWASENGETDAEGTQMTPAK 22 1 Q12789-3;Q12789 Q12789-3 GTF3C1 General transcription factor 3C polypeptide 1 1 0 RAS(0.745)WAS(0.255)ENGETDAEGTQMTPAK;RAS(0.681)WAS(0.319)ENGETDAEGTQMTPAK ; 143.37 2.01E-06 19567100 4808.6 5298.8 4680.6 6489.1 6246.8 8006.8 7983 7644.8 5337.1 5427.5 TRUE FALSE FALSE 5314.390611 5470.484597 5318.447792 6614.705914 5768.171534 7324.575595 7084.73183 7449.257086 5299.958687 5661.506087 0.938688492 0.966259598 0.939405118 1.168365063 1.018840472 1.29375037 1.251386419 1.315773042 0.93613936 1 12.46697018 -5.441974987 0.95718609 0.968255143 1.320467416 0.82394308 0.062501809 0.184125346 0.294567769 0.009654333 0.043571998 3.61E-06 5.441974987 0.352212273 RASEDTTSGS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 2 RASEDTTSGSPPK 13 1 H0YER7;G3V1C3;Q9BZZ5-1;Q9BZZ5-5;Q9BZZ5-2;Q9BZZ5-6;Q9BZZ5 H0YER7 API5 Apoptosis inhibitor 5 1 0 RASEDTTS(0.002)GS(0.997)PPK;RAS(0.001)EDT(0.004)T(0.004)S(0.004)GS(0.988)PPK ; 101.61 0.0015273 2725600 1424.71 1247.44 1247.88 1510.41 1722.91 1847.08 1946.44 1984.64 1453.57 1546.01 TRUE FALSE FALSE 1574.567535 1287.857874 1417.934588 1539.64617 1590.901008 1689.698393 1727.421448 1933.875783 1443.454488 1612.666057 0.976375442 0.79858931 0.879248733 0.954721012 0.986503685 1.047767072 1.071158806 1.199179318 0.895073398 1 10.65523201 -4.423265222 1.089124232 0.962481666 1.265899836 0.625748495 0.064829954 0.827917979 0.938525662 0.010834553 0.268782062 3.77E-05 4.423265222 0.30341817 RASGQAFELILS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 RASGQAFELILSPR 14 1 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 1 0 RASGQAFELILS(1)PR;RASGQAFELILS(1)PR ; 147.37 5.23E-05 12207400 1482.02 1963.22 1904.27 2207.75 2449.7 2254 2375.8 2044.08 2580.2 2456.1 TRUE FALSE FALSE 1637.905663 2026.829616 2163.773999 2250.484194 2262.004515 2061.946519 2108.468731 1991.795393 2562.244178 2561.994491 0.639308816 0.791113963 0.844566218 0.87841102 0.882907642 0.804820825 0.822979417 0.777439374 1.000097458 1 11.32305166 -9.640226242 1.486990606 0.999338137 0.785684404 0.560329861 0.067132336 0.294133915 1.174797593 0.061262755 0.01409101 2.29E-10 9.640226242 -0.213653734 RASPNS(ph)DDTVLSPQELQK ddPTM_HeLa_SAHA_4h_R1 1 RASPNSDDTVLSPQELQK 18 1 Q9UH62 Q9UH62 ARMCX3 Armadillo repeat-containing X-linked protein 3 1 0 RAS(0.38)PNS(0.61)DDT(0.01)VLSPQELQK 83.065 0.002943 13338000 1019.4 861.78 753.08 994 1166.4 1029.5 891.29 1083.1 1010.3 1004.9 TRUE FALSE FALSE 1126.625169 889.7022374 855.7058205 1013.240307 1077.030684 941.7808082 790.9997035 1055.39587 1003.26924 1048.226157 1.074792078 0.848769353 0.816337023 0.966623758 1.027479306 0.898451925 0.754607866 1.006839854 0.957111434 1 10.0337343 -7.264692768 24.99692132 1.035318482 0.900801043 0.239471656 0.084714569 229.9154916 1766516.117 0.014140715 0.016525802 5.44E-08 7.264692768 -0.134517439 RASS(ph)LNVLNVGGK ddPTM_HeLa_SAHA_4h_R1 1 RASSLNVLNVGGK 13 1 Q07866-6;Q07866-4;G3V5R9;Q07866-7;H0YG16;Q07866-9;H0YJK1 Q07866-6 KLC1 Kinesin light chain 1 1 0 RAS(0.22)S(0.78)LNVLNVGGK 128.45 0.00042328 7535100 4602.7 4075.5 4329.9 4663.7 4447.5 4391.2 4701.9 5052.8 4112.2 3694.2 TRUE FALSE FALSE 5086.833104 4207.548874 4919.956223 4753.972657 4106.733511 4017.045056 4172.829837 4923.556692 4083.582865 3853.475041 1.320063851 1.091884294 1.276758295 1.233684559 1.065722099 1.042447405 1.082874495 1.277692638 1.059714367 1 11.91194433 -2.357003326 12.58943438 1.152623827 1.273746297 0 0.11217388 0 0 0.017875864 0 0.004395382 2.357003326 0.12112247 RASVFVK ddPTM_HeLa_SAHA_4h_R1 2 RASVFVK 7 1 Q8NFI4;P50502;H7C3I1;Q3KNR6;F6VDH7;Q8IZP2 Q8NFI4 ST13P5;ST13;ST13P4 Putative protein FAM10A5;Hsc70-interacting protein;Putative protein FAM10A4 0 0 ; ; 113.5 0.0016997 4274400 4055.1 3002.6 4744.3 4469.7 4466.2 3250.3 5117.8 2700 1971.27 3002 FALSE FALSE TRUE 4481.634023 3099.88621 5390.828497 4556.217507 4124.000721 2973.356154 4541.931675 2630.93791 1957.551772 3131.430911 1.431177679 0.989926426 1.721522412 1.454995379 1.316970049 0.94951996 1.450433301 0.84017115 0.625130117 1 11.61260633 -2.820226057 12.68972528 1.231490015 0.705505163 0 0.331278591 0 0 0.036222354 0 0.001512774 2.820226057 -0.525984852 RAT(ph)ISSPLELEGTVSR ddPTM_HeLa_SAHA_4h_R1 2 RATISSPLELEGTVSR 16 1 Q96GS4 Q96GS4 C17orf59 Uncharacterized protein C17orf59 1 0 RAT(0.941)IS(0.056)S(0.002)PLELEGTVSR;RAT(0.752)IS(0.201)S(0.047)PLELEGTVSR ; 142.23 0.00014551 9384500 1085.95 1095.65 1008.24 1804.13 1460.4 1282.91 1127.59 1703.7 1367.62 996.58 TRUE FALSE FALSE 1200.175204 1131.149779 1145.637697 1839.051545 1348.504468 1173.598851 1000.710606 1660.121821 1358.102621 1039.547441 1.15451701 1.088117516 1.10205427 1.769088617 1.297203393 1.1289517 0.962640632 1.596965906 1.306436405 1 10.02173988 -6.484777553 24.9960762 1.077043454 1.32622447 0.172161296 0.224958476 616.9454489 404743.9364 0.032893551 0.050238748 3.28E-07 6.484777553 0.249181016 RAT(ph)PEPGDEGEPGR ddPTM_HeLa_SAHA_4h_R1 2 RATPEPGDEGEPGR 14 1 M0QZR4;M0QZH8;M0QYS3;M0QYC1 M0QZR4 ARHGEF1 1 0 RAT(1)PEPGDEGEPGR;RAT(1)PEPGDEGEPGR ; 137.73 0.00038809 14942800 3290.7 3305.6 2761.6 2722.9 3487.5 3871 3486.6 3487.5 3166.2 3399.3 TRUE FALSE FALSE 3636.830924 3412.703609 3137.936466 2775.605667 3220.288503 3541.169022 3094.278592 3398.2948 3144.166156 3545.860459 1.025655399 0.962447239 0.884957686 0.782773518 0.908182525 0.998676926 0.872645336 0.958383681 0.886714577 1 11.79192005 -6.971560128 3.697320452 1.011756736 0.899446536 0.118450148 0.066344589 0.147488513 4.350653604 0.009051222 0.011813863 1.07E-07 6.971560128 -0.1123102 RAVPLALALISVSNPR ddPTM_HeLa_SAHA_4h_R1 1 RAVPLALALISVSNPR 16 1 Q13200;Q13200-2;Q13200-3;H7C1H2 Q13200 PSMD2 26S proteasome non-ATPase regulatory subunit 2 0 0 122.93 0.0022673 0 180.98 150.35 284.89 399.72 194.29 144.11 206.36 0 124.64 163.27 FALSE FALSE TRUE 200.0163068 155.2214386 323.7133256 407.4571586 179.4035422 131.8310173 183.1398297 0 123.7726201 170.3093687 1.174429265 0.91140869 1.900737041 2.392452991 1.053397963 0.774067911 1.075336202 0 0.726751681 1 7.41201399 -4.360080888 1.774628378 1.213814949 8.93E-34 0.341288542 0.501693393 0.762558688 2.775671728 0.073397015 1.446815897 4.36E-05 4.360080888 -1.213814949 RAVS(ph)PSNPK ddPTM_HeLa_SAHA_4h_R1 1 RAVSPSNPK 9 1 A0A087WZ40;Q14244-5;Q14244-3;Q14244-6;Q14244;Q14244-7;Q14244-2;Q14244-4 A0A087WZ40 MAP7 Ensconsin 1 0 RAVS(0.999)PS(0.001)NPK 81.676 0.013506 31816000 2099.7 2159.9 1591.6 2136.3 2719.3 2400.9 2988.3 2237.4 2554.3 2673.3 TRUE FALSE FALSE 2320.55608 2229.882177 1808.494959 2177.651176 2510.947821 2196.329813 2652.048619 2180.170548 2536.524418 2788.559046 0.832170322 0.799653922 0.648541031 0.780923459 0.900446352 0.787621771 0.951046248 0.781826926 0.909618329 1 11.4453041 -8.814336058 0.812614241 0.994302614 0.811133241 0.326003595 0.079760529 0.423274421 0.541246689 0.043153603 0.016438787 1.53E-09 8.814336058 -0.183169373 RAVSEGCAS(ph)EDEVEGEA ddPTM_HeLa_SAHA_4h_R1 1 RAVSEGCASEDEVEGEA 17 1 Q9BYX2-6;Q9BYX2-5;Q9BYX2-4;Q9BYX2-2;Q9BYX2 Q9BYX2-6 TBC1D2 TBC1 domain family member 2A 1 0 RAVS(0.086)EGCAS(0.914)EDEVEGEA 84.046 0.020009 32034000 1860.3 1815.7 1752.2 1936.6 2418.1 2412.8 2044.2 2372 2543.7 1918.6 TRUE FALSE FALSE 2055.974889 1874.529871 1990.980691 1974.085693 2232.8257 2207.215866 1814.181236 2311.327675 2525.998185 2001.320235 1.0273093 0.936646639 0.994833638 0.986391712 1.115676372 1.102879902 0.906492226 1.154901466 1.262165914 1 10.96673632 -5.789158589 24.96215094 1.003680488 1.060658773 0 0.104745343 290.4631528 261571.9974 0.009131079 0.016554487 1.62E-06 5.789158589 0.056978285 PEPAK(ac)SAPAPK ddPTM_HeLa_SAHA_4h_R1 1 PEPAKSAPAPK 11 1 O60814;P57053;P62807;Q16778 O60814;P62807;Q16778 HIST1H2BK;H2BFS;HIST1H2BC;HIST2H2BE Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E 0 1 PEPAK(1)SAPAPK 164.64 9.76E-08 5574600000 3279.8 3737.2 4968.8 12486 15604 19198 23958 24617 2643.9 2976.1 FALSE TRUE FALSE 3624.784412 3858.287732 5645.922188 12727.68459 14408.42489 17562.22239 21262.18279 23987.33278 2625.500885 3104.414236 1.167622661 1.242839209 1.818675524 4.099866712 4.641270075 5.65717751 6.849016005 7.726846665 0.845731492 1 11.60010536 -5.607473878 0.71428521 0.988179044 7.876831874 0.981740802 0.336610107 0.079418217 0.067270056 0.064895677 0.309761457 2.47E-06 5.607473878 6.88865283 up RCDELTR ddPTM_HeLa_SAHA_4h_R1 1 RCDELTR 7 1 P17844-2;P17844;J3KTA4;J3QSF1 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 0 0 133.86 0.002028 1470700 440.92 209.74 295.91 738.49 347.58 350.05 584.18 387.3 328.09 553.61 FALSE FALSE TRUE 487.2979886 216.5357136 336.2350738 752.7845418 320.9484955 320.2237707 518.4465289 377.3934268 325.806795 577.4788364 0.843836965 0.374967358 0.582246574 1.303570788 0.555775338 0.554520357 0.897775808 0.653519061 0.564188286 1 9.173624265 -7.76809351 2.376579423 0.946332337 0.715005896 0 0.269405566 0.367006015 4.309520684 0.047614102 0.046927734 1.71E-08 7.76809351 -0.231326441 RCERTVER ddPTM_HeLa_SAHA_4h_R1 1 RCERTVER 8 2 H8YS97;O96014 H8YS97 WNT11 Protein Wnt;Protein Wnt-11 0 0 98.629 0.0071555 0 1000.5 981.08 1249.3 1079.2 1407.4 1184.4 1039.2 1053.2 976.77 1079.5 FALSE FALSE TRUE 1105.73718 1012.867636 1419.548098 1100.089477 1299.565316 1083.482457 922.266481 1026.260669 969.972578 1126.042528 0.981967513 0.899493235 1.260652296 0.976951979 1.154099675 0.962203851 0.819033436 0.911387131 0.861399595 1 10.1370456 -4.951440705 6.46298969 1.014797536 0.869009602 0.230842481 0.11124553 0.19277901 18.60098921 0.013389483 0.040669959 1.12E-05 4.951440705 -0.145787934 RCLYASVLTAQPR ddPTM_HeLa_SAHA_4h_R1 2 RCLYASVLTAQPR 13 1 P13639 P13639 EEF2 Elongation factor 2 0 0 ; ; 102.5 0.0040985 6722500 1364.58 1210.84 2142.63 1895.91 1862.37 1508.51 2203.91 1201.83 1043.01 1292.96 FALSE FALSE TRUE 1508.112785 1250.07201 2434.616458 1932.60808 1719.675613 1379.976461 1955.920246 1171.088929 1035.751608 1348.705833 1.118192528 0.926867801 1.805150091 1.432935212 1.27505611 1.023185655 1.450220054 0.868305675 0.767959612 1 10.39736 RCPT(ph)PEIQK ddPTM_HeLa_SAHA_4h_R1 2 RCPTPEIQK 9 1 P40818-2;P40818 P40818-2 USP8 Ubiquitin carboxyl-terminal hydrolase 8 1 0 RCPT(1)PEIQK;RCPT(1)PEIQK ; 96.334 0.017939 46801000 7594.3 9194.6 7189.4 8422.3 9492.1 11616.5 9635.8 9066.1 11357.7 8922.2 TRUE FALSE FALSE 8393.103318 9492.511073 8169.133991 8585.325795 8764.817349 10626.70885 8551.554424 8834.20229 11278.66084 9306.879706 0.901817106 1.019945607 0.877752184 0.92247091 0.941756811 1.141812206 0.918842264 0.949212042 1.211862751 1 13.18408184 RCS(ph)DPSLNEK ddPTM_HeLa_SAHA_4h_R1 3 RCSDPSLNEK 10 1 G5E953;Q13615-3;Q13615-2;Q13615 G5E953 MTMR3 Myotubularin-related protein 3 1 0 RCS(1)DPSLNEK;RCS(1)DPSLNEK;RCS(0.999)DPS(0.001)LNEK ;; 92.65 0.0084746 21628100 8603.3 8342.2 8254 9695.9 10971.6 12223.1 11303.4 11064.6 9808.2 9344.6 TRUE FALSE FALSE 9508.234567 8612.492754 9378.812135 9883.578165 10130.95838 11181.62311 10031.51168 10781.58355 9739.943938 9747.491437 0.975454519 0.88355992 0.962177007 1.013961205 1.039340064 1.147128283 1.029137778 1.106088025 0.999225698 1 13.25081527 -5.726997099 2.384243398 0.977396435 1.087737417 0.623107605 0.042819924 0.161974979 1.876632944 0.006575235 0.014201052 1.88E-06 5.726997099 0.110340982 RCSDNT(ph)EVEVSNLENKQPVESTSAK ddPTM_HeLa_SAHA_4h_R1 1 RCSDNTEVEVSNLENKQPVESTSAK 25 2 Q9NQW6;Q9NQW6-2;C9JJT6 Q9NQW6 ANLN Actin-binding protein anillin 1 0 RCS(0.424)DNT(0.576)EVEVSNLENKQPVESTSAK 71.556 0.0014614 9395300 1634.6 1649.1 1489.2 1660.6 1730.5 1983.8 1819.1 1629.7 1921.7 1622.1 TRUE FALSE FALSE 1806.534728 1702.531922 1692.140421 1692.743314 1597.909464 1814.769079 1614.41008 1588.014634 1908.326733 1692.036669 1.067668781 1.006202734 1.000061317 1.00041763 0.944370469 1.072535313 0.954122396 0.938522588 1.127828237 1 10.72454512 -6.776513662 2.218405816 1.031839969 0.984574095 0.279924284 0.049443233 0.366115865 3.697055168 0.007105067 0.010056524 1.67E-07 6.776513662 -0.047265874 RDAT(ph)RSSTSRY(ph)K ddPTM_HeLa_SAHA_4h_R1 1 RDATRSSTSRYK 12 3 Q86VF2-4;Q86VF2-3;Q86VF2-2;Q86VF2;Q86VF2-5 Q86VF2-4 IGFN1 Immunoglobulin-like and fibronectin type III domain-containing protein 1 2 0 RDAT(0.984)RS(0.009)S(0.012)T(0.049)S(0.04)RY(0.905)K 53.6 0.0081412 0 1249.5 1185 1171.1 1234 1459.4 1402.5 1269.3 1172.7 987.19 1331.2 TRUE FALSE FALSE 1380.928143 1223.394778 1330.691409 1257.885854 1347.581087 1282.99911 1126.475023 1142.704032 980.3200644 1388.594547 0.994479019 0.881030953 0.958300904 0.905869793 0.97046405 0.923955169 0.811233939 0.822921302 0.705980062 1 10.4394097 -1.387280036 0.238954603 1.008273222 2.46E-15 0 0.101102358 15.88595434 0.230876381 0.024065397 6.176636246 0.040993969 1.387280036 -1.008273222 RDATKRT(ph)WS(ph)VVS(ph)HK ddPTM_HeLa_SAHA_4h_R1 1 RDATKRTWSVVSHK 14 3 A0A0A0MRA3;A0A0A0MTS7;Q8WZ42-3;Q8WZ42-10;Q8WZ42-9;Q8WZ42-5;Q8WZ42-11;Q8WZ42-4;Q8WZ42-7;Q8WZ42-2;Q8WZ42;Q8WZ42-8;Q8WZ42-13;Q8WZ42-12 A0A0A0MRA3 TTN Titin 3 0 RDAT(0.095)KRT(0.953)WS(0.953)VVS(1)HK 56.205 0.022438 5843400 482.28 470.68 554.22 604.4 562.05 442.81 554.57 399.41 544.34 489.92 TRUE FALSE FALSE 533.0084232 485.9303408 629.7462153 616.099036 518.9858504 405.0800968 492.1683241 389.1936705 540.5518936 511.0428488 1.042981864 0.950860269 1.232276739 1.20557217 1.015542731 0.79265388 0.963066649 0.76156759 1.0577428 1 8.99730045 -5.352093766 5.834109361 1.046472752 0.85222262 0.533558542 0.097835161 0.162784483 8.394790637 0.01461014 0.033135483 4.45E-06 5.352093766 -0.194250132 RDDDYRGGGDRYEDR ddPTM_HeLa_SAHA_4h_R1 1 RDDDYRGGGDRYEDR 15 3 E7EX17;P23588-2;P23588;F8VP89;F8VX11 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 0 0 52.891 0.01606 2265700 246.74 270.9 310.3 304.66 190.7 319.56 172.89 279.65 181.99 269.84 FALSE FALSE TRUE 272.6932453 279.6773377 352.586068 310.5571348 176.0886072 292.3316902 153.4359622 272.4969579 180.7235168 281.474123 0.968803961 0.993616517 1.252641146 1.103323928 0.625594301 1.038573945 0.545115695 0.968106606 0.642060858 1 8.136858485 -5.774658957 24.99773842 1.015280705 0.793990063 0.192580368 0.196642092 195.348195 369396.411 0.021747718 0.039588021 1.68E-06 5.774658957 -0.221290641 RDDGSWEVIEGYR ddPTM_HeLa_SAHA_4h_R1 1 RDDGSWEVIEGYR 13 1 P00367;P49448 P00367 GLUD1;GLUD2 "Glutamate dehydrogenase 1, mitochondrial;Glutamate dehydrogenase 2, mitochondrial" 0 0 171.21 4.55E-05 4265100 289.5 469.23 558.78 320.35 528.36 650.02 611.45 654.14 502.71 734.27 FALSE FALSE TRUE 319.9509383 484.4333599 634.9276284 326.5508375 487.8771709 594.6346391 542.6480368 637.408046 499.2116002 765.9279731 0.417729799 0.632479002 0.828965191 0.426346666 0.636975261 0.77635843 0.708484421 0.832203638 0.651773558 1 9.581064919 -9.573492064 1.368821741 0.999037814 0.627650235 0 0.174609913 0.317125883 1.06965138 0.107399337 0.025427967 2.67E-10 9.573492064 -0.371387579 RDDIEDGDSMISSATSDTGS(ph)AK ddPTM_HeLa_SAHA_4h_R1 1 RDDIEDGDSMISSATSDTGSAK 22 1 Q86U86-8;Q86U86;H0Y5B5;E7EVG2;Q86U86-6;Q86U86-5;Q86U86-4;Q86U86-7;Q86U86-3;Q86U86-9;Q86U86-2 Q86U86-8 PBRM1 Protein polybromo-1 1 0 RDDIEDGDSMIS(0.006)S(0.037)AT(0.078)S(0.078)DT(0.281)GS(0.52)AK 82.541 0.00044201 3576600 651.67 521.48 607.13 573.65 765.12 1180.8 870.83 659.15 881.51 678.77 TRUE FALSE FALSE 720.2156406 538.3762942 689.8665146 584.7538253 706.4966709 1080.189197 772.8419165 642.2898974 875.3755001 708.0350965 1.017203305 0.760380801 0.974339433 0.825882542 0.99782719 1.525615329 1.091530519 0.907144152 1.236344786 1 9.467677065 -5.489365009 24.98514364 0.970997913 1.182320267 0.201365756 0.184561751 658.6417956 491029.8967 0.023128172 0.051683981 3.24E-06 5.489365009 0.211322353 RDDPGEFR ddPTM_HeLa_SAHA_4h_R1 1 RDDPGEFR 8 1 A0A087X2H1;Q9ULT8;H0YJD4 A0A087X2H1 HECTD1 E3 ubiquitin-protein ligase HECTD1 0 0 109.48 0.01353 1791900 500.38 482.07 559.87 385.1 632.69 506.65 362.19 363.72 547.3 452.32 FALSE FALSE TRUE 553.0122642 497.6893843 636.1661679 392.5541674 584.2134289 463.4805697 321.435428 354.4165691 543.4912947 471.8217288 1.172078839 1.054825062 1.348318929 0.831996798 1.238207978 0.982321376 0.681264572 0.751166272 1.151899672 1 8.88209805 -4.878487987 4.168730882 1.092005544 0.716827841 0.57608406 0.133641301 0.110095404 3.399552274 0.017731757 0.058618891 1.32E-05 4.878487987 -0.375177702 RDEDMLYS(ph)PELAQR ddPTM_HeLa_SAHA_4h_R1 2 RDEDMLYSPELAQR 14 1 Q9Y2W2 Q9Y2W2 WBP11 WW domain-binding protein 11 1 0 RDEDMLY(0.002)S(0.998)PELAQR;RDEDMLYS(1)PELAQR ; 131.48 0.00023366 6160000 1073.7 1257.99 893.52 1056.82 1270.32 1333.82 1195.84 1090.35 1588.02 1091.52 TRUE FALSE FALSE 1186.636692 1298.749701 1015.284252 1077.276279 1172.988356 1220.171032 1061.280936 1062.460426 1576.96884 1138.580769 1.042206864 1.140674194 0.891710347 0.946157101 1.030219716 1.071659618 0.932108608 0.933144538 1.385030278 1 10.15302092 -6.740849291 24.99999887 1.029543691 0.972506624 0.120355425 0.127796616 345.9846641 420085.6154 0.010037263 0.014185616 1.82E-07 6.740849291 -0.057037068 RDEFEFLEK ddPTM_HeLa_SAHA_4h_R1 2 RDEFEFLEK 9 1 A0A3B3IUA7;Q14258 A0A3B3IUA7 TRIM25 E3 ubiquitin/ISG15 ligase TRIM25 0 0 ; ; 158.79 0.00019251 10914800 6495.6 5968.4 5712.2 7564 8158.8 8762.1 7640.7 6405.7 8231.7 6696.2 FALSE FALSE TRUE 7178.837011 6161.780076 6490.628868 7710.412158 7533.674507 8015.519786 6780.948327 6241.851469 8174.414929 6984.905952 1.027764305 0.882156484 0.929236401 1.103867713 1.078564917 1.147548706 0.970800233 0.893619973 1.170297064 1 12.77002498 -6.256980646 24.9609397 0.995820288 1.043339911 0.032876962 0.096059808 870.6350585 4874013.339 0.01263828 0.020506199 5.53E-07 6.256980646 0.047519624 RDEFLGR ddPTM_HeLa_SAHA_4h_R1 1 RDEFLGR 7 1 A0A2R8Y602;A0A2U3TZY2;H0YGM0;Q9H078-5;Q9H078-3;Q9H078-4;Q9H078-2;Q9H078 A0A2R8Y602 CLPB Caseinolytic peptidase B protein homolog 0 0 117.16 0.0092725 3322400 804.28 1030.6 948.32 744.28 1021.3 1120.3 1264.1 715.99 959.33 1032.2 FALSE FALSE TRUE 888.8778606 1063.992116 1077.552111 758.6866156 943.0482146 1024.844137 1121.860141 697.6760125 952.6539444 1076.703193 0.825555145 0.988194446 1.000788442 0.704638586 0.87586646 0.951835328 1.041940015 0.647974313 0.884787888 1 10.07240489 RDHRPPCAQEAPR ddPTM_HeLa_SAHA_4h_R1 1 RDHRPPCAQEAPR 13 2 E7EMC7;Q13501;Q13501-2;E9PFW8;E3W990;C9JRJ8 E7EMC7 SQSTM1 Sequestosome-1 0 0 68.676 0.017834 1058100 55.265 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 61.07802626 0 0 0 0 0 0 0 0 0 0 RDLFAFQES(ph)PPR ddPTM_HeLa_SAHA_4h_R1 2 RDLFAFQESPPR 12 1 E7EX48;P51957-3;P51957-2;P51957 E7EX48 NEK4 Serine/threonine-protein kinase Nek4 1 0 RDLFAFQES(1)PPR;RDLFAFQES(1)PPR ; 113.67 0.0012441 2727500 1833.42 1702.52 1700.66 1920.39 1867.47 2136.4 1950.61 1653.01 2311.8 1688.53 TRUE FALSE FALSE 2026.267528 1757.682765 1932.417088 1957.561925 1724.384852 1954.366701 1731.122229 1610.728398 2295.711996 1761.330792 1.1504185 0.997928824 1.097134676 1.111410721 0.97902385 1.109596624 0.982849012 0.914495111 1.303396276 1 10.78245017 -4.550893268 4.036789834 1.067385976 0.925125134 0.262264723 0.092035917 0.159141771 5.613154365 0.008981725 0.043700678 2.81E-05 4.550893268 -0.142260841 RDLNES(ph)PVK ddPTM_HeLa_SAHA_4h_R1 1 RDLNESPVK 9 1 Q96RL1-2;Q96RL1;Q96RL1-3;Q96RL1-4 Q96RL1-2 UIMC1 BRCA1-A complex subunit RAP80 1 0 RDLNES(1)PVK 76.326 0.016302 14464000 3801.2 3814.6 2907.4 3890 3900.1 4332.8 4245.7 3690.7 4480.3 3733.2 TRUE FALSE FALSE 4201.027657 3938.195543 3303.605331 3965.296575 3601.275181 3963.621064 3767.962662 3596.297238 4449.121228 3894.156522 1.078802979 1.011309001 0.848349395 1.018268411 0.92478953 1.017838149 0.967594045 0.923511219 1.142512172 1 11.92709516 -6.986392407 24.99574548 1.037625339 0.953716694 0.43218078 0.059527302 185.4151086 340587.0269 0.008220672 0.010801606 1.03E-07 6.986392407 -0.083908645 RDNYVPEVSALDQEIIEVDPDTK ddPTM_HeLa_SAHA_4h_R1 2 RDNYVPEVSALDQEIIEVDPDTK 23 1 H0YN88;A0A075B716;H3BNC9;P08708 H0YN88 RPS17 40S ribosomal protein S17 0 0 ; ; 172.77 2.85E-10 10213600 3521.9 3869.7 3887.3 4181.5 4018.9 5019.5 4226.1 4217.8 4354 4087.6 FALSE FALSE TRUE 3892.349601 3995.080819 4417.041 4262.438979 3710.97275 4591.810361 3750.568106 4109.914783 4323.700159 4263.83644 0.912874979 0.93696859 1.035931153 0.999672253 0.870336562 1.076919911 0.879622884 0.963900666 1.014039872 1 12.05793638 RDPSSNDINGGMEPT(ph)PSTVSTPSPSADLLGLR ddPTM_HeLa_SAHA_4h_R1 1 RDPSSNDINGGMEPTPSTVSTPSPSADLLGLR 32 1 O95782-2;O95782 O95782-2 AP2A1 AP-2 complex subunit alpha-1 1 0 RDPS(0.006)S(0.006)NDINGGMEPT(0.589)PS(0.034)T(0.034)VS(0.027)T(0.022)PS(0.196)PS(0.088)ADLLGLR 77.505 2.60E-06 9178100 555.38 361.28 282.56 477.06 483.68 547.58 453.52 502.84 593.56 468.66 TRUE FALSE FALSE 613.7974166 372.985709 321.0658053 486.2941861 446.6205429 500.9231034 402.488736 489.9780809 589.4293676 488.8662262 1.255552918 0.762960681 0.656755955 0.994738765 0.913584369 1.024662938 0.82331058 1.002274354 1.20570687 1 8.933295928 -7.259214237 24.99595152 1.120677766 0.882612136 0.490658952 0.125242848 155.0575886 1741826.447 0.024029533 0.028680898 5.51E-08 7.259214237 -0.23806563 RDPSSNDINGGMEPTPSTVST(ph)PSPSADLLGLR ddPTM_HeLa_SAHA_4h_R1 1 RDPSSNDINGGMEPTPSTVSTPSPSADLLGLR 32 1 O95782-2;O95782 O95782-2 AP2A1 AP-2 complex subunit alpha-1 1 0 RDPSSNDINGGMEPT(0.006)PS(0.016)T(0.074)VS(0.157)T(0.502)PS(0.224)PS(0.023)ADLLGLR 151.69 6.80E-15 22401000 476.9 456.82 422.54 506.43 385.62 500.26 393.92 518.73 481.16 428.99 TRUE FALSE FALSE 527.0625301 471.6212677 480.1215507 516.232685 356.0738789 457.6350336 349.5950849 505.4616377 477.8115684 447.4858583 1.177830585 1.05393558 1.072931226 1.153629049 0.795720965 1.022680438 0.781242755 1.129558909 1.067769091 1 8.80569828 -5.77666077 24.99994825 1.086860519 0.927966567 0.343590595 0.10514178 201.2062304 330465.3756 0.015568039 0.028295247 1.67E-06 5.77666077 -0.158893952 RDPSSNDINGGMEPTPSTVSTPS(ph)PSADLLGLR ddPTM_HeLa_SAHA_4h_R1 2 RDPSSNDINGGMEPTPSTVSTPSPSADLLGLR 32 1 O95782-2;O95782 O95782-2 AP2A1 AP-2 complex subunit alpha-1 1 0 RDPSSNDINGGMEPT(0.022)PS(0.199)T(0.199)VS(0.074)T(0.173)PS(0.293)PS(0.04)ADLLGLR;RDPSSNDINGGMEPTPS(0.014)T(0.015)VS(0.123)T(0.356)PS(0.439)PS(0.053)ADLLGLR ; 150.75 2.99E-15 34734000 975.2 867.15 726.88 838.56 975.49 1218 825.56 956.98 1166.16 828.18 TRUE FALSE FALSE 1077.77601 895.246229 825.935421 854.7915414 900.7481669 1114.219548 732.665816 932.5018373 1158.044598 863.8868928 1.247589261 1.03630028 0.956068934 0.989471595 1.042669098 1.289774804 0.848103869 1.079425843 1.340504882 1 9.754698625 -7.053167473 24.97946385 1.118234405 1.032455179 0.161264276 0.137952176 639.9947613 300685.0657 0.022362682 0.027388693 8.85E-08 7.053167473 -0.085779226 RDQALTEEHAR ddPTM_HeLa_SAHA_4h_R1 7 RDQALTEEHAR 11 1 P12814-4;P12814-3;P12814;P12814-2;H9KV75;H0YJ11 P12814-4 ACTN1 Alpha-actinin-1 0 0 ;;;;;; ;;;;;; 164.48 7.38E-05 35524850 7730.97 7639.01 7612.01 6768.65 8929.8 7918.05 9399.68 6209.34 7180.24 7726.06 FALSE FALSE TRUE 8544.148896 7886.518936 8649.335081 6899.667008 8245.600653 7243.387594 8342.003268 6050.514074 7130.272125 8059.168257 1.060177505 0.978577278 1.073229247 0.856126437 1.023132957 0.898776073 1.035094814 0.750761602 0.884740447 1 12.97641524 -2.918856106 0.565170601 1.021384885 1.53E-33 0.255635139 0.085520157 9.525387852 0.654635697 0.012574768 9.033351901 0.001205435 2.918856106 -1.021384885 RDS(ph)DGVDGFEAEGK ddPTM_HeLa_SAHA_4h_R1 4 RDSDGVDGFEAEGK 14 1 Q96KR1 Q96KR1 ZFR Zinc finger RNA-binding protein 1 0 RDS(1)DGVDGFEAEGK;RDS(1)DGVDGFEAEGK;RDS(1)DGVDGFEAEGK;RDS(1)DGVDGFEAEGK ;;; 178.99 2.03E-06 45605300 7181.89 7178.9 5963.82 7480.1 8301.1 9542.2 9437.4 9644 9372.2 6747.84 TRUE FALSE FALSE 7937.314142 7411.50107 6776.538331 7624.888152 7665.071511 8729.150877 8375.478914 9397.320444 9306.978097 7038.772406 1.127656029 1.052953646 0.962744345 1.083269598 1.088978457 1.240152455 1.189906198 1.335079457 1.3222445 1 12.78110812 -5.140103243 1.338607581 1.053369525 1.287342297 0.329177049 0.099761311 0.224289177 0.710026223 0.009507549 0.045313304 7.24E-06 5.140103243 0.233972772 RDS(ph)DGVDGFEAEGKK ddPTM_HeLa_SAHA_4h_R1 1 RDSDGVDGFEAEGKK 15 2 Q96KR1 Q96KR1 ZFR Zinc finger RNA-binding protein 1 0 RDS(1)DGVDGFEAEGKK 74.783 0.014567 14386000 1966.5 1779.4 1472.4 1998.3 1979.4 2119.5 2435.9 2562.2 2082.6 1605.8 TRUE FALSE FALSE 2173.345493 1837.053728 1673.051004 2036.979986 1827.7388 1938.906676 2161.806121 2496.662634 2068.107017 1675.033897 1.29749344 1.0967263 0.998816208 1.216082845 1.091165261 1.1575328 1.290604402 1.490514693 1.234665771 1 10.70997458 -4.392120475 1.781706027 1.13148147 1.55713703 0.596568232 0.091332008 0.45005327 1.736761971 0.01685511 0.293776816 4.05E-05 4.392120475 0.42565556 RDS(ph)FDDR ddPTM_HeLa_SAHA_4h_R1 1 RDSFDDR 7 1 A0A0R4J2E8;A8MXP9;P43243;D6REM6;D6R991 A0A0R4J2E8 MATR3 Matrin-3 1 0 RDS(1)FDDR 114.89 0.0036042 0 1316.8 1430.5 1050.6 2077.5 1683.6 2506 2357.1 1956.2 2537.3 1763.2 TRUE FALSE FALSE 1455.307066 1476.849139 1193.770297 2117.713017 1554.602932 2292.474702 2091.872904 1906.163237 2519.642723 1839.220181 0.791263102 0.802975714 0.649063287 1.151418976 0.845251128 1.246438423 1.137369482 1.036397521 1.369951651 1 10.84487849 -5.270451162 24.90638 0.888313865 1.139798578 0.12461064 0.202864362 459.7929168 1270756.453 0.02041859 0.046282027 5.36E-06 5.270451162 0.251484714 RDS(ph)FDDRGPSLNPVLDYDHGSR ddPTM_HeLa_SAHA_4h_R1 1 RDSFDDRGPSLNPVLDYDHGSR 22 2 A0A0R4J2E8;A8MXP9;P43243;D6REM6;D6R991 A0A0R4J2E8 MATR3 Matrin-3 1 0 RDS(0.766)FDDRGPS(0.234)LNPVLDYDHGSR 82.8 0.0003162 27857000 1263.2 1272.9 1120.9 1319.8 1552.8 2976.9 1699.6 1402.6 1240.7 1105.6 TRUE FALSE FALSE 1396.069172 1314.142795 1273.650415 1345.346637 1433.824799 2723.251372 1508.356535 1366.723523 1232.065868 1153.267827 1.210533355 1.13949489 1.104383895 1.166551781 1.243271308 2.36133473 1.307897871 1.185087706 1.068325882 1 10.17151188 -5.504211441 24.97475979 1.113491846 1.622955412 0.370134218 0.293956678 576.4406844 771212.3351 0.040765394 0.089683906 3.13E-06 5.504211441 0.509463566 RDS(ph)FDNCSLGESSK ddPTM_HeLa_SAHA_4h_R1 3 RDSFDNCSLGESSK 14 1 Q5UIP0;Q5UIP0-2 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 RDS(0.637)FDNCS(0.362)LGESSK;RDS(1)FDNCSLGESSK;RDS(0.875)FDNCS(0.123)LGES(0.001)SK ;; 138.98 0.00045307 35560000 7039.3 6223.3 4933.05 6324.6 7185.8 7485.6 8230.1 8799.7 7497 7140.8 TRUE FALSE FALSE 7779.725871 6424.939003 5605.300364 6447.021779 6635.225556 6847.784767 7304.027488 8574.616416 7444.827767 7448.674834 1.044444286 0.862561348 0.752523165 0.865526006 0.890792752 0.919329266 0.980580795 1.151159986 0.999483523 1 12.86276807 -7.269443116 24.60613052 1.020987582 0.910621997 0.170814263 0.096960617 583.5350599 1793976.584 0.017316635 0.019995682 5.38E-08 7.269443116 -0.110365584 RDS(ph)FIGTPYWMAPEVVMCETSK ddPTM_HeLa_SAHA_4h_R1 4 RDSFIGTPYWMAPEVVMCETSK 22 1 Q9H2G2-2;Q9H2G2 Q9H2G2-2 SLK STE20-like serine/threonine-protein kinase 1 0 RDS(0.952)FIGT(0.045)PY(0.003)WMAPEVVMCETSK;RDS(0.946)FIGT(0.029)PY(0.025)WMAPEVVMCETSK;RDS(0.948)FIGT(0.052)PYWMAPEVVMCETSK;RDS(0.991)FIGT(0.006)PY(0.003)WMAPEVVMCETSK ;;; 128.03 3.41E-06 207330000 5761.26 6278.8 5558.77 6242.16 6943.7 5519.2 7159.5 4215.34 5925.6 5666.28 TRUE FALSE FALSE 6367.25576 6482.23724 6316.290227 6362.986033 6411.675206 5048.93311 6353.894217 4107.517707 5884.363267 5910.581061 1.077263926 1.096717425 1.068641164 1.076541539 1.084779168 0.854219417 1.075003312 0.694943131 0.995564261 1 12.52908425 -3.794132936 1.583338559 1.042640041 6.59E-32 0.652552098 0.072906412 1.887428756 1.605402439 0.010013606 4.396723199 0.000160645 3.794132936 -1.042640041 RDS(ph)GDNSAPSGQER ddPTM_HeLa_SAHA_4h_R1 2 RDSGDNSAPSGQER 14 1 Q8IXQ3 Q8IXQ3 C9orf40 Uncharacterized protein C9orf40 1 0 RDS(1)GDNSAPSGQER;RDS(1)GDNSAPSGQER ; 154.31 2.20E-05 8330800 725.71 1322.05 877.02 1551.88 1804.38 1886.98 1598.8 1344.07 2225.88 1687.66 TRUE FALSE FALSE 802.0435075 1364.885287 996.5357183 1581.918881 1666.128794 1726.198688 1418.898816 1309.690636 2210.38992 1760.423282 0.455596967 0.77531654 0.566077334 0.898601432 0.946436469 0.980558884 0.805998666 0.743963483 1.25560139 1 10.78170664 -6.20271276 24.9933491 0.727278059 0.881092935 0 0.222378116 477.6837497 203296.0229 0.032472671 0.053849825 6.27E-07 6.20271276 0.153814875 RDS(ph)IVAELDR ddPTM_HeLa_SAHA_4h_R1 3 RDSIVAELDR 10 1 M0QXB4;O14579-3;O14579 M0QXB4 COPE Coatomer subunit epsilon 1 0 RDS(1)IVAELDR;RDS(1)IVAELDR;RDS(1)IVAELDR ;; 109.6 0.003035 9907500 1400.06 1848.39 1263.4 1668.18 1771.41 2160.21 1908.89 1534.68 1810.79 1629.18 TRUE FALSE FALSE 1547.324735 1908.279049 1435.569572 1700.470036 1635.684948 1976.147955 1694.096673 1495.425108 1798.188565 1699.421923 0.910500632 1.122898924 0.84473994 1.000616747 0.962494909 1.16283539 0.996866435 0.879961055 1.058117787 1 10.73082837 -6.028720646 24.77947692 0.962177908 1.008080487 0 0.097722005 1598.535918 1379176.891 0.013711205 0.022773363 9.36E-07 6.028720646 0.045902579 RDS(ph)LEEGELR ddPTM_HeLa_SAHA_4h_R1 2 RDSLEEGELR 10 1 P21127;A0A0D9SEN2;A0A0D9SER5;A0A0D9SEI3;P21127-6;P21127-9;P21127-2;P21127-8;P21127-3;Q9UQ88-3;Q5QPR3;Q5QPR4;Q9UQ88;Q9UQ88-2;Q9UQ88-4;E7ESP2;A0A087X1I0;A0A087WYI9;J3KS35;E9PFJ2 P21127 CDK11B;CDK11A Cyclin-dependent kinase 11B;Cyclin-dependent kinase 11A 1 0 RDS(1)LEEGELR;RDS(1)LEEGELR ; 127.79 0.0010284 30331000 1537.76 1996.48 1364.3 1747.28 1989.53 2879.9 1762.66 1685.12 3378.8 1756.47 TRUE FALSE FALSE 1699.508652 2061.167262 1550.219699 1781.101131 1837.092641 2634.516318 1564.320858 1642.01707 3355.286656 1832.200018 0.927578122 1.124968476 0.846097415 0.97211064 1.002670354 1.437897769 0.853793714 0.89619968 1.831288409 1 10.83936129 -5.510196867 24.93256369 0.969435642 1.071502914 0 0.315794248 1212.240765 2383261.782 0.022078075 0.047200621 3.09E-06 5.510196867 0.102067272 RDS(ph)LGAYASQDANEQGQDLGK ddPTM_HeLa_SAHA_4h_R1 1 RDSLGAYASQDANEQGQDLGK 21 1 Q9C0C2;Q9C0C2-2;A0A2R8Y5C4 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 RDS(0.999)LGAY(0.001)ASQDANEQGQDLGK 114.9 3.93E-05 8307600 675.59 914.69 612.1 756.77 1103.8 758.83 917.15 832.41 1504.1 891.8 TRUE FALSE FALSE 746.6516559 944.3265561 695.5138003 771.4183777 1019.227082 694.1734149 813.9498682 811.1181575 1493.632846 930.2498624 0.802635599 1.015132164 0.747663427 0.82925933 1.095648732 0.74622254 0.874979832 0.8719358 1.605625441 1 9.861474462 -9.529638746 1.251239632 1.00094141 0.86668115 0.177368799 0.219837752 0.62004265 1.718336037 0.071898962 0.016685983 2.95E-10 9.529638746 -0.134260261 RDS(ph)LGAYASQDANEQGQDLGKR ddPTM_HeLa_SAHA_4h_R1 2 RDSLGAYASQDANEQGQDLGKR 22 2 Q9C0C2;Q9C0C2-2;A0A2R8Y5C4 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 RDS(1)LGAYASQDANEQGQDLGKR;RDS(0.986)LGAY(0.014)ASQDANEQGQDLGKR ; 110.25 3.39E-05 44199000 1897.88 1991.23 1804.55 1996.23 2634.84 2326.82 2326.82 2389.97 2724.4 2037.61 TRUE FALSE FALSE 2097.507726 2055.747158 2050.464676 2034.869918 2432.959128 2128.561846 2065.00009 2328.838028 2705.440679 2125.461339 0.986848214 0.967200448 0.964715113 0.957377996 1.144673433 1.001458745 0.971553823 1.095685904 1.272872213 1 11.0535603 RDS(ph)LGTYSSR ddPTM_HeLa_SAHA_4h_R1 1 RDSLGTYSSR 10 1 Q9C0C2;Q9C0C2-2;A0A2R8Y5C4 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 RDS(0.999)LGT(0.001)YSSR 89.663 0.0097043 15445000 414.82 734.78 452.19 505.97 577.32 617.68 733.32 489.82 884.49 631.12 TRUE FALSE FALSE 458.4526709 758.5873541 513.8120983 515.763781 533.0858663 565.050189 650.8049036 477.2911137 878.3347621 658.3306718 0.696386619 1.152289247 0.780477229 0.783441822 0.809753957 0.858307555 0.988568407 0.725002091 1.334184779 1 9.362668605 RDS(ph)LTGSSDLYK ddPTM_HeLa_SAHA_4h_R1 4 RDSLTGSSDLYK 12 1 Q5T1Z4;Q5T1Z8;Q14671-2;Q14671;Q14671-3;E9PR38;Q14671-4;H0YDK8 Q5T1Z4 PUM1 Pumilio homolog 1 1 0 RDS(0.986)LT(0.012)GS(0.001)S(0.001)DLYK;RDS(0.992)LT(0.006)GS(0.001)S(0.001)DLYK;RDS(0.989)LT(0.01)GSSDLYK;RDS(1)LTGSSDLYK ;;; 161.49 0.0003912 62250100 6282.14 7849.3 5807.46 8538.2 9185.2 9417.4 8861 7521.3 7855.5 6883.7 TRUE FALSE FALSE 6942.924309 8103.62247 6598.870405 8703.469207 8481.43196 8614.984539 7863.936959 7328.916037 7800.832936 7180.489995 0.966915115 1.128561209 0.919000014 1.212099622 1.181177324 1.199776693 1.095181104 1.02067074 1.086392842 1 12.80986658 -6.260036377 24.99831566 0.992629931 1.144602865 0.355238899 0.077553259 76.64992167 1365720.523 0.01078456 0.017275884 5.49E-07 6.260036377 0.151972935 RDS(ph)LTGSSDLYKR ddPTM_HeLa_SAHA_4h_R1 2 RDSLTGSSDLYKR 13 2 Q5T1Z4;Q5T1Z8;Q14671-2;Q14671;Q14671-3;E9PR38;Q14671-4;H0YDK8 Q5T1Z4 PUM1 Pumilio homolog 1 1 0 RDS(0.862)LT(0.112)GS(0.024)S(0.002)DLYKR;RDS(0.989)LT(0.011)GSSDLYKR ; 73.597 0.01912 87665000 3695.5 3226.7 3264.6 3970.8 3502 3916.8 3899.8 4343.4 3026.7 3395.3 TRUE FALSE FALSE 4084.209646 3331.247197 3709.482687 4047.660576 3233.677517 3583.066605 3460.98424 4232.302117 3005.636948 3541.687999 1.15318166 0.940581778 1.047377038 1.142861985 0.913032858 1.011683301 0.977213194 1.194995753 0.848645321 1 11.79022141 -7.268418888 24.90055139 1.072335779 1.029823311 0 0.112638672 1492.517019 5324802.056 0.015970603 0.018472396 5.39E-08 7.268418888 -0.042512468 RDS(ph)PLQGSGQQNSQAGQR ddPTM_HeLa_SAHA_4h_R1 3 RDSPLQGSGQQNSQAGQR 18 1 O95819-3;E7EX83;G5E948;C9J840;H7C360;E7ENQ1;H7C0P6;G3XAA2;A0A0D9SG62;A0A0D9SEY1;O95819-4;O95819-2;O95819;O95819-5;O95819-6;E7EN19 O95819-3 MAP4K4 Mitogen-activated protein kinase kinase kinase kinase 4 1 0 RDS(1)PLQGSGQQNSQAGQR;RDS(1)PLQGSGQQNSQAGQR;RDS(0.999)PLQGS(0.001)GQQNSQAGQR ;; 176.28 1.36E-08 5114700 1952.22 2508.94 1745.01 2656.2 3313.2 5060.71 3396.96 2755.32 3213.87 4696.32 TRUE FALSE FALSE 2157.563457 2590.231302 1982.810875 2707.614592 3059.343332 4629.509037 3014.72512 2684.842904 3191.504417 4898.801338 0.440426812 0.528747978 0.404754294 0.552709613 0.624508552 0.94502894 0.615400567 0.548061193 0.651486802 1 12.25821307 -9.402896683 1.122748832 1.000562093 0.576430138 0.135014849 0.173110779 0.322019293 0.724529433 0.106553543 0.026960794 3.95E-10 9.402896683 -0.424131955 RDS(ph)PPPPAR ddPTM_HeLa_SAHA_4h_R1 2 RDSPPPPAR 9 1 O96013-2;O96013-4;O96013;M0R2X4 O96013-2 PAK4 Serine/threonine-protein kinase PAK 4 1 0 RDS(1)PPPPAR;RDS(1)PPPPAR ; 80.737 0.013984 47268000 1923.95 1721.64 1427.13 1991.02 1931.21 2339.3 2307.39 1621.63 1884.04 2064.07 TRUE FALSE FALSE 2126.319888 1777.422266 1621.611844 2029.559071 1783.241107 2139.978479 2047.756404 1580.151053 1870.928812 2153.062159 0.987579425 0.825532258 0.753165364 0.942638401 0.828234847 0.993923223 0.95109024 0.733908701 0.86896182 1 11.07217426 -7.278302648 20.78434695 0.994134796 0.867481988 0.130767905 0.088646542 71.09105645 87620.79699 0.013230089 0.015167919 5.27E-08 7.278302648 -0.126652808 RDS(ph)PTYDPYK ddPTM_HeLa_SAHA_4h_R1 2 RDSPTYDPYK 10 1 F5H0Q6;A0A0A0MQS2;Q8N2M8-3;Q8N2M8;Q8N2M8-4 F5H0Q6 CLASRP CLK4-associating serine/arginine rich protein 1 0 RDS(0.997)PT(0.003)YDPYK;RDS(0.994)PT(0.006)YDPYK ; 121.18 0.0015223 25437000 11478.2 11602.7 11451.4 11274 12462.2 13571.6 13309.3 11281.9 12480.8 11383.7 TRUE FALSE FALSE 12685.52974 11978.63509 13011.93716 11492.22457 11507.34893 12415.22333 11811.70254 10993.32533 12393.9451 11874.50702 1.068299486 1.008769044 1.095787567 0.967806458 0.96908014 1.045535896 0.994710982 0.925792146 1.04374397 1 13.53558 -6.216002101 24.99279927 1.035268896 0.984339097 0.393481685 0.038154992 459.4329543 252711.3808 0.006214773 0.010306021 6.08E-07 6.216002101 -0.050929798 RDS(ph)QDGSSYR ddPTM_HeLa_SAHA_4h_R1 1 RDSQDGSSYR 10 1 C9J9W2;Q14847;Q14847-2;Q14847-3;J3KSN1 C9J9W2 LASP1 LIM and SH3 domain protein 1 1 0 RDS(1)QDGSSYR 95.183 0.0074404 3009400 156.48 272.18 243.84 280.32 200.55 550.18 359.42 346.55 312.57 393.08 TRUE FALSE FALSE 172.9392844 280.9988106 277.0692453 285.7459989 185.1839023 503.3015688 318.9771157 337.6857528 310.3947999 410.0276025 0.421774737 0.685316815 0.675733155 0.696894544 0.451637649 1.227482164 0.777940592 0.823568342 0.757009523 1 8.679577223 -5.270191665 24.97923243 0.695743012 0.926491397 0.29889828 0.188345 879.9374335 2511363.435 0.035178221 0.079792836 5.37E-06 5.270191665 0.230748384 RDS(ph)SDDWEIPDGQITVGQR ddPTM_HeLa_SAHA_4h_R1 3 RDSSDDWEIPDGQITVGQR 19 1 H7C560;A0A2U3TZI2;A0A2R8Y8E0;P15056;A0A2R8Y679;A0A2R8Y492;A0A2R8YDP5 H7C560 BRAF Serine/threonine-protein kinase B-raf 1 0 RDS(0.993)S(0.007)DDWEIPDGQITVGQR;RDS(0.5)S(0.5)DDWEIPDGQITVGQR;RDS(0.972)S(0.028)DDWEIPDGQITVGQR ;; 199.97 2.26E-19 29747900 1678.35 1552.79 1727.77 1572.56 1466.97 2079.2 2229.46 1727.63 1652.92 1839.72 TRUE FALSE FALSE 1854.886554 1603.101415 1963.221498 1602.999173 1354.571076 1902.040463 1978.595293 1683.439726 1641.417195 1919.039333 0.966570368 0.835366627 1.023023064 0.83531335 0.705858943 0.99114199 1.031034257 0.877230444 0.855332753 1 10.90616857 -7.461882471 7.96328188 0.985373816 0.902918972 0 0.102165269 0.468643784 55.64613529 0.016332708 0.018513664 3.45E-08 7.461882471 -0.082454843 RDS(ph)SESQLASTESDKPTTGR ddPTM_HeLa_SAHA_4h_R1 3 RDSSESQLASTESDKPTTGR 20 2 A0A087WVF1;Q96B23-2;Q96B23;K7EQH1 A0A087WVF1 C18orf25 Uncharacterized protein C18orf25 1 0 RDS(0.952)S(0.044)ES(0.004)QLASTESDKPTTGR;RDS(0.792)S(0.194)ES(0.014)QLASTESDKPTTGR;RDS(0.822)S(0.168)ES(0.01)QLASTESDKPTTGR ;; 169.51 2.33E-07 61746000 2630.84 2393.96 2462.85 2625.01 3265.86 3788.5 4425.76 4092.22 3102.16 2936.57 TRUE FALSE FALSE 2907.563822 2471.525875 2798.474372 2675.820864 3015.630512 3465.698486 3927.761837 3987.546938 3080.571816 3063.179904 0.949197864 0.806849729 0.913584726 0.87354349 0.984477114 1.131405466 1.282249806 1.301767138 1.005677731 1 11.58081439 -5.021869058 2.071964718 0.949143049 1.302245856 0.862717325 0.058045668 0.100944826 0.832218641 0.009679312 0.037764651 9.51E-06 5.021869058 0.353102807 RDS(ph)VLAASR ddPTM_HeLa_SAHA_4h_R1 1 RDSVLAASR 9 1 A0A3B3ISR4;A0A3B3ITU8;A0A3B3IS59;A0A3B3IRP0;A0A3B3IU13;A0A3B3IU05;A0A3B3ITQ1;A0A3F2YNW8;A0A3B3ISE3;A0A3B3IU04;Q14643-6;Q14643-2;Q14643-3;Q14643-5;Q14643-7;Q14643-8;Q14643-4;Q14643;A0A3B3IRZ9 A0A3B3ISR4 ITPR1 "Inositol 1,4,5-trisphosphate receptor type 1" 1 0 RDS(0.989)VLAAS(0.011)R 81.239 0.007558 0 712.65 1346 1050.5 1098.4 1270.6 832.72 1386.6 766.78 538.19 689.41 TRUE FALSE FALSE 787.6097968 1389.611283 1193.656669 1119.66112 1173.246902 761.7675712 1230.576119 747.1668779 534.444692 719.133839 1.095220047 1.932340279 1.659853291 1.556957912 1.63147225 1.059284837 1.711192065 1.038981671 0.743178339 1 9.490116487 -7.443544661 11.21231612 1.04193866 1.515176903 0.456282315 0.278257005 0.5139882 71.38342138 0.042463031 0.048500685 3.60E-08 7.443544661 0.473238243 RDSFDDRGPS(ph)LNPVLDYDHGSR ddPTM_HeLa_SAHA_4h_R1 1 RDSFDDRGPSLNPVLDYDHGSR 22 2 A0A0R4J2E8;A8MXP9;P43243;D6REM6;D6R991 A0A0R4J2E8 MATR3 Matrin-3 1 0 RDS(0.393)FDDRGPS(0.607)LNPVLDYDHGSR 81.226 0.00035823 25124000 1484.1 1413.5 1235.1 1447.9 2177.3 3128.6 2071.1 1981.6 2051.3 1637 TRUE FALSE FALSE 1640.204447 1459.298327 1403.412996 1475.926198 2010.475744 2862.025679 1838.054377 1930.913541 2037.024836 1707.579081 0.960543769 0.854600729 0.821872914 0.864338416 1.177383681 1.676072113 1.076409519 1.130790112 1.192931477 1 10.73773668 -5.595782222 5.653154559 0.950798954 1.2965417 0.441302551 0.177597458 0.125720068 7.121705284 0.023334276 0.047353327 2.54E-06 5.595782222 0.345742746 RDSS(ph)DDWEIPDGQITVGQR ddPTM_HeLa_SAHA_4h_R1 2 RDSSDDWEIPDGQITVGQR 19 1 H7C560;A0A2U3TZI2;A0A2R8Y8E0;P15056;A0A2R8Y679;A0A2R8Y492;A0A2R8YDP5 H7C560 BRAF Serine/threonine-protein kinase B-raf 1 0 RDS(0.396)S(0.604)DDWEIPDGQITVGQR;RDS(0.233)S(0.767)DDWEIPDGQITVGQR ; 158.75 2.79E-06 13960800 1263.08 1235.77 1501.97 1208.38 1552.92 1499.13 1807.16 1455.8 1435.49 1381.83 TRUE FALSE FALSE 1395.93655 1275.809759 1706.65065 1231.769942 1433.935605 1371.39569 1603.813601 1418.562744 1425.500308 1441.407454 0.968453816 0.88511389 1.184016806 0.854560547 0.994816283 0.951428194 1.112671921 0.984151109 0.988964158 1 10.4932625 -4.781059485 24.99574427 0.981437204 1.048411591 0.092348508 0.087362761 361.3796299 460394.1298 0.010808747 0.032494443 1.66E-05 4.781059485 0.066974387 RDSS(ph)ES(ph)EIPDIQAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 RDSSESEIPDIQASPK 16 1 A0A494BZI8;Q96MI9 A0A494BZI8 AGBL1 Cytosolic carboxypeptidase 4 3 0 RDS(0.584)S(0.708)ES(0.708)EIPDIQAS(1)PK 45.885 0.020065 5009700 743.61 672.48 783.6 697.66 761.69 1049.4 805.96 1080.8 833.8 883.49 TRUE FALSE FALSE 821.8263116 694.2687932 890.3849272 711.1642181 703.3294768 959.9852162 715.2712596 1053.154701 827.9975179 921.5815776 0.891756445 0.753344913 0.966148791 0.771677989 0.76317658 1.041671448 0.776134503 1.14276883 0.898452766 1 9.847968067 -8.83830874 0.942433906 0.993294749 0.881747383 0.010874688 0.127940928 0.832419682 1.451813022 0.05380175 0.022584135 1.45E-09 8.83830874 -0.111547365 RDSS(ph)ESQLASTESDKPTTGR ddPTM_HeLa_SAHA_4h_R1 1 RDSSESQLASTESDKPTTGR 20 2 A0A087WVF1;Q96B23-2;Q96B23;K7EQH1 A0A087WVF1 C18orf25 Uncharacterized protein C18orf25 1 0 RDS(0.039)S(0.961)ESQLASTESDKPTTGR 153.68 1.25E-05 40624000 703.02 776.47 796.88 906.3 760.8 1114 1287.2 1163.9 975.41 735.75 TRUE FALSE FALSE 776.9668692 801.6281375 905.4746564 923.842747 702.5076684 1019.080933 1142.360868 1134.129123 968.6220424 767.4717832 1.012371902 1.044505029 1.179814915 1.20374816 0.91535309 1.327841564 1.488472793 1.477746998 1.262094664 1 9.583969899 -5.070856593 3.792878936 1.03267032 1.474382829 0.663583405 0.11014351 0.068023479 1.881956598 0.012669524 0.036365481 8.49E-06 5.070856593 0.441712509 RDT(ph)Y(ph)RR ddPTM_HeLa_SAHA_4h_R1 1 RDTYRR 6 2 H0Y8E4;E9PH70;A0A1W2PPB7;Q9ULH0-3;Q9ULH0-2;Q9ULH0-4;Q9ULH0 REV__Q6DJT9-2 KIDINS220 Kinase D-interacting substrate of 220 kDa 2 0 RDT(1)Y(1)RR 41.429 0.0086608 0 0 0 0 147.57 0 0 64.898 0 0 0 TRUE FALSE FALSE 0 0 0 150.4264307 0 0 57.59550624 0 0 0 0 RDTVSLY(ph)QRT(ph)LEQR ddPTM_HeLa_SAHA_4h_R1 1 RDTVSLYQRTLEQR 14 2 Q96JK9 Q96JK9 MAML3 Mastermind-like protein 3 2 0 RDTVSLY(1)QRT(1)LEQR 112.83 0.0025551 45328000 1529.6 1941.7 1469.7 1380.5 1973.6 1765.3 2087.8 1914.6 1557.2 1488.7 TRUE FALSE FALSE 1690.490346 2004.612354 1669.983062 1407.221574 1822.383194 1614.886509 1852.875249 1865.627304 1546.363318 1552.885143 1.088612609 1.290895443 1.075406684 0.906198105 1.173546674 1.039926563 1.193182418 1.201394265 0.995800189 1 10.60073541 -13.52287875 0.133655989 0.575017273 1.168202479 0.191376342 0.099912775 105.4850779 0.993003446 11.80394392 0.345243776 3.00E-14 13.52287875 0.593185205 RDVYLS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 RDVYLSPR 8 1 P38159;P38159-2;H3BUY5;H0Y6E7;H3BT71;Q96E39 P38159;Q96E39 RBMX;RBMXL1 "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed;RNA binding motif protein, X-linked-like-1" 1 0 RDVYLS(1)PR;RDVYLS(1)PR;RDVYLS(1)PR ;; 110.66 0.0032646 43179000 7471.6 7314.7 7044.6 7982.7 8080.8 7896 8409.1 5991.4 5604 6243.8 TRUE FALSE FALSE 8257.497169 7551.701079 8004.601401 8137.216702 7461.65085 7223.216378 7462.885936 5838.148663 5565.001308 6513.000774 1.267848332 1.159481066 1.229018954 1.249380583 1.145654838 1.109045834 1.145844472 0.896383843 0.854445055 1 12.66910668 -4.261240433 8.18160773 1.14721316 0.894554164 0.24516894 0.118607735 0.084894764 74.94770443 0.014740164 0.116984549 5.48E-05 4.261240433 -0.252658996 RDYDDMS(ph)PR ddPTM_HeLa_SAHA_4h_R1 5 RDYDDMSPR 9 1 P61978;P61978-2;P61978-3;Q5T6W2 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 1 0 RDYDDMS(1)PR;RDYDDMS(1)PR;RDYDDMS(1)PR;RDYDDMS(1)PR;RDYDDMS(1)PR ;;;; 177.44 3.68E-05 539174000 9390.1 9563.7 8158 8679.9 10026.4 11289.6 9858.6 9571.54 9929.6 9959.1 TRUE FALSE FALSE 10377.7938 9873.570155 9269.729755 8847.912016 9258.179398 10327.66257 8749.284382 9326.713866 9860.499105 10388.48554 0.998970809 0.950434028 0.892308096 0.851703743 0.891196254 0.994145155 0.842209805 0.897793411 0.949175803 1 13.34269773 -6.995928527 2.694502912 0.999551385 0.894846299 0.468327333 0.041411556 0.131762749 1.933183166 0.006362504 0.00828045 1.01E-07 6.995928527 -0.104705087 RDYDDMSPR ddPTM_HeLa_SAHA_4h_R1 3 RDYDDMSPR 9 1 P61978;P61978-2;P61978-3;Q5T6W2 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 ;; ;; 166.55 0.00010484 15806000 4441.52 3970.7 4349.82 4749.33 5088.3 4877.2 5485.2 4411.16 3482.62 4258.08 FALSE FALSE TRUE 4908.699452 4099.353285 4942.590817 4841.26015 4698.435553 4461.635122 4867.99086 4298.328914 3458.384164 4441.666667 1.105148094 0.922931321 1.11277842 1.089964762 1.05780913 1.004495712 1.095982933 0.967728836 0.778623076 1 12.11688541 -4.236659669 23.24836199 1.04887553 0.967728578 0 0.102222376 4446.070125 4171142.568 0.008003815 0.643735735 5.80E-05 4.236659669 -0.081146951 RDYS(ph)YER ddPTM_HeLa_SAHA_4h_R1 2 RDYSYER 7 1 P48634;P48634-2;P48634-3 P48634 PRRC2A Protein PRRC2A 1 0 RDYS(1)YER;RDYS(1)YER ; 102.06 0.0065237 11396000 1978.46 2017.91 1806.93 2268.8 2051.75 2192.37 2203.9 2052.5 2239.2 2005.39 TRUE FALSE FALSE 2186.5635 2083.291608 2053.16901 2312.715905 1894.545358 2005.567742 1955.911372 2000.000022 2223.617225 2091.852177 1.045276298 0.995907661 0.981507696 1.105582856 0.905678412 0.958752136 0.935014144 0.956090513 1.062989655 1 11.03056519 -5.736998328 24.99998638 1.021695508 0.94002656 0.592154324 0.03723273 128.7737626 131717.9528 0.004968945 0.009934215 1.83E-06 5.736998328 -0.081668948 RECPSDECGAGVFMASHFDR ddPTM_HeLa_SAHA_4h_R1 1 RECPSDECGAGVFMASHFDR 20 1 P62979 P62979 RPS27A Ubiquitin-40S ribosomal protein S27a;Ubiquitin;40S ribosomal protein S27a 0 0 107.18 0.00026502 6162500 1202.6 1139.1 1227.6 1399.3 1482 1507.6 1350.3 1220.4 1389.2 1465.7 FALSE FALSE TRUE 1329.094986 1176.007587 1394.890935 1426.385475 1368.44948 1379.143998 1198.36069 1189.183935 1379.532444 1528.8935 0.869318226 0.769188689 0.912353238 0.932952802 0.895058734 0.902053674 0.783809134 0.777806914 0.902307744 1 10.5782722 -13.52287875 0.182526146 1.626708444 0.825250401 0.195219994 0.064220178 37.14641237 0.429722635 8.243312836 0.080282254 3.00E-14 13.52287875 -0.801458043 REDFQDISVPVQEDELS(ph)KVEESSEISPEPK ddPTM_HeLa_SAHA_4h_R1 1 REDFQDISVPVQEDELSKVEESSEISPEPK 30 2 O94782 O94782 USP1 Ubiquitin carboxyl-terminal hydrolase 1 1 0 REDFQDIS(0.002)VPVQEDELS(0.725)KVEES(0.12)S(0.12)EIS(0.034)PEPK 56.452 0.002437 16582000 2638.4 2704.6 2495 2543.7 2586.3 2595.4 3191.8 2981 2565.6 2786.8 TRUE FALSE FALSE 2915.919017 2792.230815 2835.005607 2592.936992 2388.138253 2374.257319 2832.650264 2904.750336 2547.745781 2906.952586 1.003084478 0.960535383 0.975250033 0.891977738 0.821526386 0.816751305 0.974439789 0.99924242 0.876431832 1 11.50529183 -6.436124422 2.460233492 0.998552186 0.895898695 0.074622945 0.067241809 0.226230203 2.691005117 0.009357274 0.014851899 3.66E-07 6.436124422 -0.102653491 REDIFYTSK ddPTM_HeLa_SAHA_4h_R1 2 REDIFYTSK 9 1 A0A0A0MSS8;P42330;S4R3Z2;P17516;A6NHU4;S4R3D5;B4DK69;P52895;S4R3P0;P52895-2;Q04828;H0Y804 A0A0A0MSS8;B4DK69;Q04828 AKR1C3;AKR1C4;AKR1C1;AKR1C2 Aldo-keto reductase family 1 member C3;Aldo-keto reductase family 1 member C4;Aldo-keto reductase family 1 member C2;Aldo-keto reductase family 1 member C1 0 0 ; ; 155.11 2.73E-07 5955800 5818.7 5319.2 7594.5 7399.1 7058.5 5665.3 7677 3430.3 4252 5755.2 FALSE FALSE TRUE 6430.737563 5491.54557 8629.43891 7542.32028 6517.679255 5182.584568 6813.163755 3342.557893 4222.409986 6003.334837 1.071194217 0.914749172 1.43744088 1.25635509 1.08567645 0.863284276 1.13489651 0.556783518 0.703344075 1 12.55154842 -4.25658071 24.63325054 1.065270151 0.55678326 0.366199963 0.194686775 279.3627671 1416297.477 0.021962754 0.238693204 5.54E-05 4.25658071 -0.508486891 REDLVEEIK ddPTM_HeLa_SAHA_4h_R1 2 REDLVEEIK 9 1 B3KWE1;P12081-3;P12081-2;P12081-4;P12081;B4E1C5;B4DDD8 B3KWE1 HARS "Histidine--tRNA ligase, cytoplasmic" 0 0 ; ; 182.28 9.43E-06 7976500 4987.5 4731.7 4729.2 6493.8 5698.4 5713.4 5964.1 5804.9 6409.2 5182.5 FALSE FALSE TRUE 5512.108133 4885.010185 5373.670747 6619.496889 5261.789823 5226.586177 5293.003771 5656.419063 6364.597855 5405.942938 1.019638608 0.903637023 0.994030238 1.224485157 0.973334326 0.966822299 0.979108332 1.046333476 1.177333525 1 12.40033057 REDLVVAPAGITLK ddPTM_HeLa_SAHA_4h_R1 1 REDLVVAPAGITLK 14 1 P12268;H0Y4R1;E7ETK5 P12268 IMPDH2 Inosine-5-monophosphate dehydrogenase 2 0 0 122.63 0.0032205 0 713.09 783.53 692.23 858.17 843.17 794.87 1048.9 702.46 877.92 633.19 FALSE FALSE TRUE 788.096078 808.9168861 786.5634994 874.7811213 778.5664968 727.1426042 930.8750114 684.4920903 871.8104832 660.4899197 1.193199252 1.224722531 1.190878886 1.324442804 1.178771202 1.100914007 1.409370505 1.03633995 1.319945176 1 9.367392733 -8.943222469 0.629259414 0.987244206 1.217518125 0 0.139482648 0.64008257 0.44086718 0.078432959 0.02089276 1.14E-09 8.943222469 0.230273919 REDPSFER ddPTM_HeLa_SAHA_4h_R1 1 REDPSFER 8 1 Q9NWH9;H7C3F4;Q9NWH9-3;H0YMM0 Q9NWH9 SLTM SAFB-like transcription modulator 0 0 101.46 0.020569 1464300 388.44 305.97 374.17 425.42 401.77 408.19 338.04 286.09 428.48 428.17 FALSE FALSE TRUE 429.2979014 315.8836288 425.159939 433.6546193 370.9864694 373.4099156 300.0028495 278.7722321 425.4981728 446.6305041 0.961192524 0.707259414 0.951927679 0.970947159 0.830633971 0.836060037 0.671702552 0.624167471 0.95268498 1 8.802937978 -3.20322237 0.316304038 0.989132712 6.88E-15 0.611208038 0.082286285 6.004578682 0.257574425 0.030997494 2.610171996 0.000626293 3.20322237 -0.989132712 REDRVTTEIQLPS(ph)QSPVEEQSPASLSSLR ddPTM_HeLa_SAHA_4h_R1 1 REDRVTTEIQLPSQSPVEEQSPASLSSLR 29 2 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 REDRVT(0.23)T(0.23)EIQLPS(0.39)QS(0.148)PVEEQS(0.002)PASLSSLR 42.275 0.017712 2896900 303.63 343.59 336.65 419.41 444.12 603.73 496.24 501.11 326.34 421.06 TRUE FALSE FALSE 335.5671965 354.7225414 382.5269088 427.528287 410.0916215 552.2888075 440.4017692 488.2923318 324.0689734 439.2139572 0.764017607 0.807630394 0.87093523 0.973394128 0.933694421 1.257448217 1.002704404 1.111741382 0.737838514 1 8.77878009 -5.440192595 5.995384902 0.885550244 1.111958946 0.583338592 0.0984738 0.155507066 8.971496425 0.01567034 0.035265135 3.63E-06 5.440192595 0.226408702 REDS(ph)FESLDSLGSR ddPTM_HeLa_SAHA_4h_R1 4 REDSFESLDSLGSR 14 1 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 REDS(1)FESLDSLGSR;REDS(0.613)FES(0.387)LDSLGSR;REDS(0.986)FES(0.012)LDS(0.002)LGSR;REDS(0.995)FES(0.005)LDSLGSR ;;; 237.59 4.90E-25 49370100 4770.6 5106.05 4906.37 5040.87 5519.99 5532.49 5660.12 6515.8 6259.76 4869.51 TRUE FALSE FALSE 5272.393596 5271.48937 5574.984552 5138.443328 5097.049559 5061.090727 5023.228401 6349.135271 6216.19782 5079.458407 1.037983418 1.037805401 1.097554917 1.011612443 1.003463194 0.996383929 0.988929921 1.24996304 1.22379146 1 12.31045896 -4.256602572 24.98231316 1.020629513 1.249963134 0.397649365 0.070839781 154.6061558 798519.5222 0.004438843 0.049357464 5.54E-05 4.256602572 0.229333622 REDS(ph)ITPER ddPTM_HeLa_SAHA_4h_R1 1 REDSITPER 9 1 Q8IWB6-3;Q8IWB6-2;Q8IWB6 Q8IWB6-3 TEX14 Inactive serine/threonine-protein kinase TEX14 1 0 REDS(0.5)IT(0.5)PER 79.713 0.014506 6784800 147.11 0 0 0 0 0 67.585 0 128.54 0 TRUE FALSE FALSE 162.5837048 0 0 0 0 0 59.98015793 0 127.6454797 0 0 REDS(ph)PGPEVQPMDK ddPTM_HeLa_SAHA_4h_R1 6 REDSPGPEVQPMDK 14 1 O75382-3;O75382-2;O75382;E9PMW5;E9PMK8 O75382-3 TRIM3 Tripartite motif-containing protein 3 1 0 REDS(1)PGPEVQPMDK;REDS(1)PGPEVQPMDK;REDS(1)PGPEVQPMDK;REDS(1)PGPEVQPMDK;REDS(1)PGPEVQPMDK;REDS(1)PGPEVQPMDK ;;;;; 276.14 8.27E-56 53272200 10682.9 11502.6 9527.82 10884.4 12177.8 13822 12883.2 11673.1 12137.8 11320.4 TRUE FALSE FALSE 11806.57644 11875.29179 10826.22169 11095.0833 11244.73959 12644.28784 11433.54843 11374.519 12053.33206 11808.47784 0.999838979 1.005658133 0.916817716 0.93958624 0.952259871 1.070780502 0.968249133 0.96325023 1.02073546 1 13.52753539 REEAAVDAQQQK ddPTM_HeLa_SAHA_4h_R1 1 REEAAVDAQQQK 12 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 100.38 0.01294 1410100 957.17 1175.6 1084.4 978.27 1129.3 1151.4 1228.8 1144.3 751.35 1067 FALSE FALSE TRUE 1057.849532 1213.690211 1232.176385 997.2058305 1042.773278 1053.294242 1090.53219 1115.030463 746.1212942 1113.003592 0.950445749 1.090463877 1.107073143 0.89595922 0.936900191 0.946352959 0.979810126 1.001821082 0.670367373 1 10.12024253 REEDEENDNDNES(ph)DHDEADS ddPTM_HeLa_SAHA_4h_R1 2 REEDEENDNDNESDHDEADS 20 1 H0YBP8;Q9NRG0 H0YBP8 CHRAC1 Chromatin accessibility complex protein 1 1 0 REEDEENDNDNES(0.568)DHDEADS(0.432);REEDEENDNDNES(0.543)DHDEADS(0.457) ; 75.054 0.0024356 10173900 1422.91 1470.94 1119.78 1885.83 1684.19 1940.73 1401.22 1433.01 2223.94 1663.35 TRUE FALSE FALSE 1572.578202 1518.599421 1272.377787 1922.332967 1555.147726 1775.368886 1243.551038 1396.355679 2208.46342 1735.065159 0.906351093 0.875240571 0.733331414 1.107931283 0.896305086 1.023228941 0.716717197 0.804785729 1.272841777 1 10.76077413 -2.543839716 0.024045518 1.623529109 4.97E-07 0.234930303 0.14297694 1982.246165 4.896269992 126.2385753 215.100066 0.002858645 2.543839716 -1.623528612 REEDEPEERS(ph)GDETPGSEVPGDK ddPTM_HeLa_SAHA_4h_R1 3 REEDEPEERSGDETPGSEVPGDK 23 2 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 1 0 REEDEPEERS(0.821)GDET(0.077)PGS(0.101)EVPGDK;REEDEPEERS(0.998)GDET(0.001)PGS(0.001)EVPGDK;REEDEPEERS(0.541)GDET(0.197)PGS(0.261)EVPGDK ;; 82.146 0.00039791 59703800 2942.43 3938.14 2672 3523.5 3646.79 4564.17 4047.34 3355.89 5243.4 3304.79 TRUE FALSE FALSE 3251.928288 4065.73832 3036.126245 3591.702438 3367.373738 4175.277039 3591.922651 3270.051193 5206.910752 3447.27567 0.943332822 1.179406206 0.880732072 1.041895915 0.976821717 1.211181651 1.041959795 0.94858999 1.510442231 1 11.75124096 REEDEPEERSGDETPGS(ph)EVPGDK ddPTM_HeLa_SAHA_4h_R1 1 REEDEPEERSGDETPGSEVPGDK 23 2 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 1 0 REEDEPEERS(0.03)GDET(0.037)PGS(0.933)EVPGDK 43.956 0.017745 8244200 2264.6 3039.9 2077.7 2546.9 2968.2 3402 2639 2219.6 3807.7 2585 TRUE FALSE FALSE 2502.801018 3138.394755 2360.838136 2596.198932 2740.777157 3112.130461 2342.052775 2162.825846 3781.201906 2696.452001 0.928183041 1.163897875 0.875535012 0.962820377 1.016438326 1.15415756 0.868568316 0.802100629 1.40228786 1 11.39684664 -4.537967246 24.99476716 0.987366556 0.818717462 0.135823272 0.157808309 160.2332355 265433.6985 0.011865675 0.04443037 2.90E-05 4.537967246 -0.168649094 REEEFDLFMR ddPTM_HeLa_SAHA_4h_R1 1 REEEFDLFMR 10 1 A0A0U1RQZ9;F6VDE0;P51531-2;P51531;A0A0U1RRG6 A0A0U1RQZ9 SMARCA2 Probable global transcription activator SNF2L2 0 0 138.22 0.0024883 1565200 209.35 218.14 234.89 248.74 292.44 249.16 296.82 329.59 379.08 241.49 FALSE FALSE TRUE 231.3703935 225.2078791 266.8995859 253.5547224 270.0333104 227.9301663 263.4210324 321.159565 376.4419514 251.9018157 0.918494346 0.894030392 1.059538158 1.00656171 1.07197842 0.90483733 1.045728994 1.274939461 1.494399516 1 7.976717711 -4.307519788 3.057266571 0.970932738 1.307633697 0.016276964 0.175431096 0.13739362 1.984323785 0.008549449 0.104868042 4.93E-05 4.307519788 0.336700959 REEGPPPPSPDGASS(ph)DAEPEPPSGR ddPTM_HeLa_SAHA_4h_R1 2 REEGPPPPSPDGASSDAEPEPPSGR 25 1 C9JWF0;C9IYK2;C9JJ64;C9JR83;Q9NTJ3-2;Q9NTJ3;F8WCB7;E9PD53 C9JWF0 SMC4 Structural maintenance of chromosomes protein 4;Structural maintenance of chromosomes protein 1 0 REEGPPPPSPDGAS(0.047)S(0.945)DAEPEPPS(0.008)GR;REEGPPPPSPDGAS(0.252)S(0.744)DAEPEPPS(0.004)GR ; 109.77 8.54E-07 13350400 3539.22 4818.43 3089.83 3801.21 4204.2 5383.38 4192.5 3312.67 5979.2 4207.46 TRUE FALSE FALSE 3911.491398 4974.550293 3510.895941 3874.787916 3882.075104 4924.685738 3720.748866 3227.936698 5937.59026 4388.864191 0.891230903 1.133448217 0.799955476 0.882868038 0.884528419 1.122086609 0.847770335 0.735483386 1.35287628 1 12.09963191 REELITNWEQIR ddPTM_HeLa_SAHA_4h_R1 2 REELITNWEQIR 12 1 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 ; ; 194.06 6.25E-07 10938200 1954.18 2730.2 2016.8 2791.1 2457.6 4078.6 2740.9 2640.4 3427.6 2634.7 FALSE FALSE TRUE 2159.729618 2818.660271 2291.639001 2845.125776 2269.299219 3731.080334 2432.486718 2572.862391 3403.747053 2748.294811 0.785843502 1.025603316 0.833840311 1.035233107 0.825711714 1.35759829 0.885089441 0.936166812 1.238494152 1 11.42432106 REEMHLEDS(ph)ANFIK ddPTM_HeLa_SAHA_4h_R1 1 REEMHLEDSANFIK 14 1 H7C5W9;P16615-5;P16615-2;P16615-3;P16615-4;P16615 H7C5W9 ATP2A2 Sarcoplasmic/endoplasmic reticulum calcium ATPase 2 1 0 REEMHLEDS(1)ANFIK 53.924 0.0085727 0 791.5 818.21 936.41 821.57 990.4 994.79 1081.6 902.11 1540.5 1289.3 TRUE FALSE FALSE 874.7536015 844.7205408 1064.019078 837.4726754 914.515766 910.0282955 959.8955214 879.0353324 1529.779535 1344.888033 0.650428571 0.628097299 0.791158113 0.622708103 0.67999398 0.676657293 0.713736384 0.653612279 1.137477246 1 10.39327035 -9.232786551 0.770440971 1.02032647 0.676037435 0.838816464 0.066686961 0.194534788 0.188852474 0.041966804 0.009323185 5.85E-10 9.232786551 -0.344289036 REEPEALY(ph)AAVNK ddPTM_HeLa_SAHA_4h_R1 1 REEPEALYAAVNK 13 1 A0A087WVF7;Q9NZM3-4;Q9NZM3-3;Q9NZM3-2;Q9NZM3 A0A087WVF7 ITSN2 Intersectin-2 1 0 REEPEALY(1)AAVNK 191.06 1.39E-07 3242200 1382.4 1548.1 837.06 1984.9 2630.8 2047.7 1773.6 2260.1 2880 1469.2 TRUE FALSE FALSE 1527.807175 1598.259456 951.1301776 2023.32061 2429.228672 1873.22444 1574.02986 2202.289915 2859.957846 1532.544402 0.996908913 1.042879706 0.620621612 1.320236208 1.585095133 1.22229701 1.027069661 1.437015405 1.866150071 1 10.58171316 -6.133570504 20.39172629 0.976456935 1.31171099 0.02665292 0.332128994 2.682231804 420.8802271 0.0258585 0.042881593 7.35E-07 6.133570504 0.335254055 REEQTDTS(ph)DGESVTHHIR ddPTM_HeLa_SAHA_4h_R1 1 REEQTDTSDGESVTHHIR 18 1 A2AB27;P36915 A2AB27 GNL1 Guanine nucleotide-binding protein-like 1 1 0 REEQT(0.003)DT(0.224)S(0.768)DGES(0.005)VTHHIR 72.916 0.007142 5128600 625.24 895.69 670.54 814.8 922.8 1150.2 1022.9 1043 815.57 1069.1 TRUE FALSE FALSE 691.0056119 924.7109437 761.9176992 830.5716322 852.0952634 1052.196489 907.8005999 1016.32157 809.894382 1115.194133 0.619628091 0.829192798 0.683215304 0.74477762 0.764077965 0.943509706 0.814029211 0.911340492 0.726236229 1 10.12307916 -5.273665471 24.40379941 0.797582355 0.882066748 0.191604574 0.102460784 1262.450537 2519906.244 0.021281103 0.047943659 5.33E-06 5.273665471 0.084484393 REESPMDVDQPS(ph)PSAQDTQSIASDGTPQGEK ddPTM_HeLa_SAHA_4h_R1 2 REESPMDVDQPSPSAQDTQSIASDGTPQGEK 31 1 Q7Z6Z7-2;Q7Z6Z7-3;Q7Z6Z7;H0Y659 Q7Z6Z7-2 HUWE1 E3 ubiquitin-protein ligase HUWE1 1 0 REES(0.002)PMDVDQPS(0.468)PS(0.468)AQDT(0.047)QS(0.013)IAS(0.001)DGTPQGEK;REESPMDVDQPS(0.874)PS(0.126)AQDTQSIASDGTPQGEK ; 112.75 4.02E-10 8414600 600.1 648 486.32 962.36 913.37 969.88 709.13 601.47 1133.61 746.59 TRUE FALSE FALSE 663.2212714 668.9956252 552.593157 980.9878694 843.3877879 887.2407676 629.3368261 586.0852683 1125.721116 778.7791486 0.851616627 0.85903125 0.70956337 1.25964835 1.08296144 1.139271344 0.808106929 0.752569287 1.445494679 1 9.605070447 -6.281789062 24.97961888 0.906679889 1.008778489 0 0.231206997 1675.314424 2056475.713 0.025763745 0.039382412 5.23E-07 6.281789062 0.102098601 REESPMDVDQPS(ph)PSAQDTQSIASDGTPQGEKEK ddPTM_HeLa_SAHA_4h_R1 1 REESPMDVDQPSPSAQDTQSIASDGTPQGEKEK 33 2 Q7Z6Z7-2;Q7Z6Z7-3;Q7Z6Z7;H0Y659 Q7Z6Z7-2 HUWE1 E3 ubiquitin-protein ligase HUWE1 1 0 REES(0.027)PMDVDQPS(0.431)PS(0.431)AQDT(0.103)QS(0.008)IASDGTPQGEKEK 52.268 0.0021486 9215500 1015.2 990.32 1003.8 1236.5 1354.8 1421.2 1154.8 1177.8 1445.2 1384.9 TRUE FALSE FALSE 1121.983394 1022.407018 1140.592636 1260.434246 1250.995517 1300.105765 1024.858865 1147.673581 1435.142736 1444.609817 0.776668815 0.707739215 0.789550662 0.872508432 0.865974675 0.899970185 0.709436453 0.794452293 0.993446617 1 10.49646416 -9.220818611 0.942390254 1.000847719 0.802862929 0.614339336 0.06136271 0.336482834 0.533746552 0.045141183 0.012377374 6.01E-10 9.220818611 -0.19798479 REESPMDVDQPSPS(ph)AQDTQSIASDGTPQGEK ddPTM_HeLa_SAHA_4h_R1 2 REESPMDVDQPSPSAQDTQSIASDGTPQGEK 31 1 Q7Z6Z7-2;Q7Z6Z7-3;Q7Z6Z7;H0Y659 Q7Z6Z7-2 HUWE1 E3 ubiquitin-protein ligase HUWE1 1 0 REESPMDVDQPS(0.049)PS(0.949)AQDT(0.002)QSIASDGTPQGEK;REESPMDVDQPS(0.071)PS(0.928)AQDT(0.001)QSIASDGTPQGEK ; 140.69 1.73E-14 34715000 2891.4 3046.4 2414.1 3365.9 3287.4 3612.4 3187.2 2932.7 4260.2 3158.7 TRUE FALSE FALSE 3195.530718 3145.105359 2743.080976 3431.051862 3035.520122 3304.603197 2828.567868 2857.68578 4230.552921 3294.887015 0.96984531 0.954541186 0.832526567 1.041326105 0.921282007 1.002948866 0.858471885 0.867309188 1.283975111 1 11.68601328 -1 0.192497938 0.999862696 0.43981662 0.204335108 0.109263642 51.75037972 0.582480521 0.059122997 8.704353824 0.1 1 -0.560046077 REFMRLK ddPTM_HeLa_SAHA_4h_R1 2 REFMRLK 7 2 Q8WXX0 Q8WXX0 DNAH7 "Dynein heavy chain 7, axonemal" 0 0 ; ; 88.591 0.0087485 21539000 4877.4 3651.2 8813.4 12450.1 9191.3 11442.1 6675.7 5392.6 4928.6 9878.3 FALSE FALSE TRUE 5390.42731 3769.501276 10014.44425 12691.08969 8487.06458 10467.16871 5924.532667 5254.6651 4894.301471 10304.20186 0.523129048 0.365821762 0.971879666 1.231642185 0.823650846 1.015815573 0.574962792 0.509953626 0.474981133 1 13.33094514 -9.676157322 1.565783008 0.998822598 0.728563392 0 0.301834343 0.716126456 3.183824462 0.196222045 0.044655535 2.11E-10 9.676157322 -0.270259206 REGPGS(ph)EPDSQVDGGLSGASLGEK ddPTM_HeLa_SAHA_4h_R1 2 REGPGSEPDSQVDGGLSGASLGEK 24 1 Q5JSZ5;A0A494C0D3;H0Y412;A0A494C065 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 REGPGS(0.995)EPDS(0.005)QVDGGLSGASLGEK;REGPGS(0.779)EPDS(0.221)QVDGGLSGASLGEK ; 90.384 4.21E-05 41128000 2767.6 2587 2265.3 2741.3 3069.5 3103.9 3050.8 2966.4 3011.1 2341.5 TRUE FALSE FALSE 3058.708866 2670.820497 2574.003287 2794.361825 2834.315573 2839.430258 2707.515955 2890.523783 2990.14551 2442.453524 1.252309956 1.093499005 1.053859679 1.144079835 1.160437873 1.16253195 1.108523019 1.183450884 1.224238447 1 11.25411539 -9.606936376 1.417172019 1.000222637 1.155846268 0 0.085897199 0.295125667 1.066281153 0.043201222 0.010017588 2.47E-10 9.606936376 0.15562363 REGPVGGES(ph)DSEEMFEK ddPTM_HeLa_SAHA_4h_R1 2 REGPVGGESDSEEMFEK 17 1 Q9Y4B5;Q9Y4B5-2;Q9Y4B5-3;J3QL92 Q9Y4B5 MTCL1 Microtubule cross-linking factor 1 1 0 REGPVGGES(0.621)DS(0.379)EEMFEK;REGPVGGES(0.834)DS(0.166)EEMFEK ; 127.9 0.00012639 25713500 5276.6 5280.6 4877.5 5638.7 5856.2 6362.1 5701.7 5841.4 4986.2 4631.7 TRUE FALSE FALSE 5831.616998 5451.694905 5542.180299 5747.845192 5407.499221 5820.013288 5060.12971 5691.985446 4951.500628 4831.395254 1.207025443 1.128389341 1.147117966 1.189686393 1.119241738 1.204623713 1.047343354 1.178124568 1.024859356 1 12.23822417 -9.425914192 1.103281751 0.998236406 1.155048565 0.597999359 0.045848647 0.263262199 0.562789932 0.03236457 0.007775483 3.75E-10 9.425914192 0.156812159 REGPVGGESDS(ph)EEMFEK ddPTM_HeLa_SAHA_4h_R1 1 REGPVGGESDSEEMFEK 17 1 Q9Y4B5;Q9Y4B5-2;Q9Y4B5-3;J3QL92 Q9Y4B5 MTCL1 Microtubule cross-linking factor 1 1 0 REGPVGGES(0.327)DS(0.673)EEMFEK 171.59 4.02E-09 25578000 3125.4 3049.7 2816.4 2542 3416.9 3522.4 3769.4 2798.6 3160.9 2822.9 TRUE FALSE FALSE 3454.143912 3148.512281 3200.204325 2591.204086 3155.09786 3222.271704 3345.257191 2727.015864 3138.90304 2944.609034 1.173039909 1.069246289 1.086801096 0.879982387 1.071482775 1.094295258 1.13606158 0.926104564 1.065982955 1 11.52386038 REILT(ph)T(ph)PNRYTTPSK ddPTM_HeLa_SAHA_4h_R1 1 REILTTPNRYTTPSK 15 2 Q14680-3;Q14680-4;Q14680-5;Q14680-2;Q14680-8;Q14680-7;Q14680-6;Q14680 Q14680-3 MELK Maternal embryonic leucine zipper kinase 2 0 REILT(1)T(1)PNRYTTPSK 75.387 0.0083829 0 854.82 978.18 953.02 794.25 1052.3 1133.7 1257.6 1038.1 986.84 997.35 TRUE FALSE FALSE 944.7338897 1009.873674 1082.892602 809.6238573 971.6730013 1037.102382 1116.091538 1011.546905 979.9725001 1040.350639 0.908091805 0.970705102 1.040891947 0.778222098 0.933986066 0.996877728 1.072803241 0.972313436 0.941963664 1 10.02285414 -5.075266731 4.842814842 0.948436868 1.025396655 0.194732794 0.069049929 0.283336357 12.14323916 0.010102454 0.027310803 8.41E-06 5.075266731 0.076959787 REPEDEGEDDD ddPTM_HeLa_SAHA_4h_R1 1 REPEDEGEDDD 11 1 P39687 P39687 ANP32A Acidic leucine-rich nuclear phosphoprotein 32 family member A 0 0 147.2 0.007837 3708000 1049.3 1340.9 949.02 1074.8 1191.8 1596.9 1426.9 1198.9 1191.4 1211.7 FALSE FALSE TRUE 1159.670188 1384.34604 1078.347503 1095.604308 1100.484541 1460.835136 1266.341457 1168.233874 1183.10895 1263.942317 0.917502463 1.095260457 0.853161959 0.866815118 0.870676238 1.155776744 1.00189814 0.92427784 0.936046633 1 10.30371491 -5.291036797 24.99814202 0.949769683 1.024775763 0.17990319 0.086703475 1053.154639 889498.9013 0.012610451 0.028200723 5.12E-06 5.291036797 0.075006081 REPES(ph)PPASAPIPLFGADTIGQR ddPTM_HeLa_SAHA_4h_R1 1 REPESPPASAPIPLFGADTIGQR 23 1 Q96AY4 Q96AY4 TTC28 Tetratricopeptide repeat protein 28 1 0 REPES(0.998)PPAS(0.002)APIPLFGADTIGQR 98.225 6.86E-05 3488600 594.62 762.64 477.35 668.35 691.16 757.79 759.64 683.25 510.28 726.84 TRUE FALSE FALSE 657.1648598 787.3500364 542.4007721 681.2868807 638.2034701 693.2220288 674.1633079 665.7734543 506.7289199 758.1776295 0.866768992 1.038477008 0.715400654 0.898584783 0.841759827 0.914326672 0.889189132 0.878123316 0.668351189 1 9.566392079 -9.560972421 0.512817789 1.039195223 0.874792903 0 0.128254484 1.938475923 0.581711129 0.166512359 0.017553213 2.75E-10 9.560972421 -0.164402319 REPLPSR ddPTM_HeLa_SAHA_4h_R1 2 REPLPSR 7 1 P38159;P38159-2;H3BUY5;H0Y6E7;H3BT71;Q8IZ40;Q96E39 P38159;Q96E39 RBMX;RCOR2;RBMXL1 "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed;REST corepressor 2;RNA binding motif protein, X-linked-like-1" 0 0 ; ; 128.61 0.0035065 7658300 3539.4 4151.1 3131.3 4287.2 3820.6 3866 4161.4 3717.7 4331.4 3388.1 FALSE FALSE TRUE 3911.690331 4285.598364 3558.017257 4370.184955 3527.866453 3536.59505 3693.14832 3622.606617 4301.257435 3534.177572 1.106817711 1.21261546 1.006745469 1.236549343 0.998214261 1.000684029 1.044980974 1.02502111 1.217046214 1 11.78715881 RES(ph)CGSSVLTDFEGKDVATK ddPTM_HeLa_SAHA_4h_R1 2 RESCGSSVLTDFEGKDVATK 20 2 H0Y704;O15231-2;O15231-3;H7BZT5;O15231-9;O15231-5;O15231-4;O15231-7;O15231;O15231-8;O15231-6 H0Y704 ZNF185 Zinc finger protein 185 1 0 RES(0.985)CGS(0.003)S(0.011)VLTDFEGKDVATK;RES(0.894)CGS(0.095)S(0.01)VLTDFEGKDVATK ; 112.88 0.00027614 34443000 4495.1 3991.8 4263.8 4284.7 4978.3 4413.8 5983.9 5093.7 3904.44 4129.9 TRUE FALSE FALSE 4967.915242 4121.136939 4844.848459 4367.636564 4596.86373 4037.719409 5310.575823 4963.41053 3877.268684 4307.9602 1.153194322 0.956633011 1.124627024 1.01385258 1.06706272 0.937269432 1.232735582 1.15214865 0.900024258 1 12.07278921 RES(ph)EDDPES(ph)EPDDHEK ddPTM_HeLa_SAHA_4h_R1 2 RESEDDPESEPDDHEK 16 1 P16383;P16383-4;P16383-3 P16383 GCFC2 GC-rich sequence DNA-binding factor 2 2 0 RES(1)EDDPES(1)EPDDHEK;RES(1)EDDPES(1)EPDDHEK ; 91.774 0.0080578 30332000 2936.1 3461.7 2847.4 2812.9 3350.6 3474.5 3038.4 2963.4 3567.2 3077.1 TRUE FALSE FALSE 3244.932469 3573.861351 3235.428843 2867.347747 3093.877752 3178.453053 2696.511235 2887.600519 3542.375565 3209.76884 1.010955191 1.113432627 1.007994346 0.89331908 0.963894257 0.990243601 0.84009515 0.899628809 1.103623264 1 11.64825369 -6.298565831 8.955725413 1.015389004 0.919782212 0.535736806 0.056633959 0.280287125 65.20722839 0.007849504 0.012043939 5.03E-07 6.298565831 -0.095606792 RES(ph)FLYR ddPTM_HeLa_SAHA_4h_R1 1 RESFLYR 7 1 Q08499-6;Q08499;A0A1B0GW84;Q08499-9;Q08499-2;Q08499-10;A0A087WSZ7;Q08499-12;Q08499-7;Q08499-11;A0A1W2PQN6;E9PMG3;Q07343-3;Q07343;Q08493-3;B7Z6T1;V9GYP2;Q08493-2;Q08493;P27815-6;P27815-2;P27815-7;P27815 Q08499-6;P27815-6 PDE4D;PDE4B;PDE4C;PDE4A "cAMP-specific 3,5-cyclic phosphodiesterase 4D;cAMP-specific 3,5-cyclic phosphodiesterase 4B;cAMP-specific 3,5-cyclic phosphodiesterase 4C;cAMP-specific 3,5-cyclic phosphodiesterase 4A" 1 0 RES(1)FLYR 85.731 0.012383 3547800 1002.2 815.97 596.57 1332.9 1271.6 1240.7 1203.7 1174.2 1233.1 998.21 TRUE FALSE FALSE 1107.615994 842.4079634 677.8674528 1358.700207 1174.170283 1134.98538 1068.256508 1144.165664 1224.518757 1041.247718 1.06373918 0.809037032 0.651014587 1.304877008 1.127657004 1.090024362 1.025938871 1.098840981 1.176010987 1 10.02409762 RES(ph)LGLESK ddPTM_HeLa_SAHA_4h_R1 2 RESLGLESK 9 1 Q96BH1 Q96BH1 RNF25 E3 ubiquitin-protein ligase RNF25 1 0 RES(0.997)LGLES(0.003)K;RES(0.981)LGLES(0.019)K ; 120.03 0.0094191 23676000 4002.4 4497.3 4013.3 5052.2 5326 5464.4 5243.1 4924.7 4339.8 4014.8 TRUE FALSE FALSE 4423.390796 4643.015471 4560.211624 5149.992637 4917.923031 4998.802378 4653.132589 4798.733305 4309.598978 4187.897676 1.056231823 1.108674526 1.088902351 1.229732203 1.174317859 1.193630496 1.111090325 1.145857343 1.029060238 1 12.03201048 -7.170551871 0.905084092 1.016282719 1.167091761 0.737097009 0.035745825 0.18367003 0.299393812 0.008333269 0.010427844 6.75E-08 7.170551871 0.150809043 RES(ph)PSPAPKPR ddPTM_HeLa_SAHA_4h_R1 5 RESPSPAPKPR 11 2 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 RES(1)PSPAPKPR;RES(0.996)PS(0.004)PAPKPR;RES(0.999)PS(0.001)PAPKPR;RES(0.964)PS(0.036)PAPKPR;RES(0.992)PS(0.008)PAPKPR ;;;; 148.13 0.0028287 2309837000 11003.88 10488.88 9625.23 11858.75 11563.29 12999.21 12934.48 12224.85 11856.15 11696.07 TRUE FALSE FALSE 12161.31859 10828.72659 10936.90622 12088.29325 10677.31322 11891.60418 11479.05827 11912.15604 11773.64209 12200.34482 0.996801219 0.887575454 0.896442386 0.990815705 0.875164873 0.974694105 0.940879823 0.976378637 0.965025355 1 13.5746343 -7.348381047 10.32109322 0.998546768 0.934778625 0.268221592 0.038575488 0.379262471 43.41008906 0.005961619 0.006811597 4.48E-08 7.348381047 -0.063768143 RES(ph)VNLGK ddPTM_HeLa_SAHA_4h_R1 1 RESVNLGK 8 1 P46013 P46013 MKI67 Antigen KI-67 1 0 RES(1)VNLGK 77.288 0.015854 6653000 2136 1663 1517.5 2036.7 2517.6 2850.1 3158 3582.9 3007.5 2763.1 TRUE FALSE FALSE 2360.67428 1716.882291 1724.296997 2076.123274 2324.702032 2607.255446 2802.653529 3491.254606 2986.570563 2882.230763 0.819044162 0.59567829 0.598250848 0.720318199 0.806563465 0.904596356 0.972390401 1.211302943 1.036201057 1 11.49297013 -2.299898315 14.62304481 0.871373343 1.143693436 0 0.187332143 0 0 0.026095399 0 0.005013046 2.299898315 0.272320093 RESGEEFR ddPTM_HeLa_SAHA_4h_R1 1 RESGEEFR 8 1 P30533;A0A3B3IRQ7;D6REW6 P30533 LRPAP1 Alpha-2-macroglobulin receptor-associated protein 0 0 118.33 0.0078918 2562600 970.83 658.25 799.19 1198.5 989.08 1047.6 1120.3 1006.5 803.17 1048.3 FALSE FALSE TRUE 1072.946354 679.5777319 908.0994512 1221.698701 913.2969041 958.3385864 994.2408955 980.7551874 797.5806746 1093.497343 0.981206182 0.621471772 0.830454191 1.117239752 0.835207246 0.876397727 0.90923028 0.896897641 0.729385105 1 10.094734 -7.482296196 24.9997701 0.991708768 0.87256797 0 0.140326815 561.2489087 345744.5709 0.019436451 0.021952537 3.29E-08 7.482296196 -0.119140798 REVS(ph)PPGAR ddPTM_HeLa_SAHA_4h_R1 1 REVSPPGAR 9 1 H0Y9Y2;Q8NFC6 H0Y9Y2;Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 REVS(1)PPGAR 68.44 0.021883 4045200 923.09 1051.9 928.12 1374.9 1497.3 1297.2 1203.9 1389.3 1305.2 1176.6 TRUE FALSE FALSE 1020.184841 1085.98225 1054.59936 1401.513178 1382.577197 1186.671262 1068.434004 1353.763718 1296.117007 1227.328984 0.83122362 0.884833866 0.859263795 1.141921356 1.126492746 0.966873004 0.87053595 1.103016172 1.056046931 1 10.2613063 -6.279261269 24.959855 0.910889818 1.032801086 0.250575373 0.097464913 852.3011141 1193659.995 0.015604108 0.023866442 5.26E-07 6.279261269 0.121911267 RFDAQTGADR ddPTM_HeLa_SAHA_4h_R1 2 RFDAQTGADR 10 1 P43686;P43686-2 P43686 PSMC4 26S protease regulatory subunit 6B 0 0 ; ; 123.62 0.0052205 5568600 2390.6 2304.4 2491.7 2658 3163.8 2266.5 3051.2 2104.02 2057.25 2265.1 FALSE FALSE TRUE 2642.054276 2379.064072 2831.2559 2709.449434 2921.390328 2073.381449 2707.870946 2050.202215 2042.93343 2362.759546 1.118207005 1.006900628 1.198283551 1.146730922 1.236431499 0.877525372 1.146062853 0.867715133 0.864638737 1 11.2062571 -4.248330485 24.25138313 1.073823375 0.86771493 0.192127536 0.121101349 1523.620162 2818614.061 0.013841621 0.340126812 5.65E-05 4.248330485 -0.206108445 RFDDAVVQSDMK ddPTM_HeLa_SAHA_4h_R1 6 RFDDAVVQSDMK 12 1 P11142;E9PKE3;P11142-2;E9PNE6;E9PN89;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;E9PN25 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ;;;;; ;;;;; 154.36 1.15E-07 153000500 21923.1 22749.1 20907.5 24042.5 25722.8 20288.6 25689.7 20747.9 23364.1 20082.8 FALSE FALSE TRUE 24229.07224 23486.18577 23756.66522 24507.87735 23751.92462 18559.89714 22799.02734 20217.19876 23201.50733 20948.66779 1.156592509 1.121130279 1.134041814 1.169901475 1.133815518 0.885970283 1.088328269 0.96508279 1.107540945 1 14.35457088 -5.287221204 24.96663353 1.094623193 0.99064719 0.451209646 0.066009335 742.9208783 719429.4639 0.01159371 0.025933073 5.16E-06 5.287221204 -0.103976003 RFDEILEASDGIMVAR ddPTM_HeLa_SAHA_4h_R1 3 RFDEILEASDGIMVAR 16 1 P14618;P14618-3;B4DNK4;P14618-2;H3BTN5;H3BR70 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;; ;; 205.12 4.75E-15 17473500 2058.19 2370.02 2242.52 2999.33 2689.36 2494.02 2998.37 2004.04 2812.03 2395.13 FALSE FALSE TRUE 2274.679868 2446.810203 2548.118947 3057.386369 2483.301818 2281.515465 2660.985516 1952.779559 2792.460854 2498.395776 0.910456177 0.979352522 1.019902039 1.223739809 0.99395854 0.913192172 1.065077656 0.781613377 1.117701559 1 11.28678632 -4.246551373 24.24980649 0.985067074 0.781613156 0.294983116 0.096560473 1774.625876 2890465.461 0.012886992 0.378377961 5.67E-05 4.246551373 -0.203453918 RFDGVQDPR ddPTM_HeLa_SAHA_4h_R1 1 RFDGVQDPR 9 1 O00264-2;O00264 O00264-2 PGRMC1 Membrane-associated progesterone receptor component 1 0 0 84.213 0.0078311 0 583.11 879.62 672.44 580.57 863.99 662.28 804.35 580.44 597.43 604.08 FALSE FALSE TRUE 644.4441852 908.1202651 764.0766213 591.8077719 797.7912729 605.8500181 713.8424211 565.5931853 593.272436 630.1248451 1.022724608 1.441175145 1.212579741 0.939191299 1.266084458 0.961476163 1.132858713 0.897589088 0.941515702 1 9.299493884 -7.486467001 24.99885755 1.010025407 1.12603405 0.127899834 0.156663799 767.93146 527235.5261 0.026008978 0.029011347 3.26E-08 7.486467001 0.116008644 RFEK(ac)PLEEK ddPTM_HeLa_SAHA_4h_R1 2 RFEKPLEEK 9 2 Q8NC51-2;Q8NC51;Q8NC51-4;Q8NC51-3 Q8NC51-2 SERBP1 Plasminogen activator inhibitor 1 RNA-binding protein 0 1 ; RFEK(1)PLEEK;RFEK(1)PLEEK 113.69 0.0018083 5390600 2739.1 8304.1 3735.7 4585.4 8223.5 7421 7466.5 4065.5 6815.4 2735 FALSE TRUE FALSE 3027.211105 8573.158289 4244.781741 4674.157048 7593.417207 6788.689051 6626.349769 3961.510397 6767.971076 2852.919235 1.061092466 3.005047666 1.487873084 1.638376927 2.661630625 2.379558793 2.322655927 1.388581334 2.372296767 1 11.47822319 -7.368025459 10.18158456 1.027242316 2.120518494 0.061888464 0.645126325 0.239510462 21.46388661 0.079073947 0.090339591 4.29E-08 7.368025459 1.093276178 RFIGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 RFIGSPR 7 1 K7ERJ3;P23443-4;P23443-3;P23443-5;P23443-2;P23443 K7ERJ3 RPS6KB1 Ribosomal protein S6 kinase beta-1 1 0 RFIGS(1)PR;RFIGS(1)PR;RFIGS(1)PR;RFIGS(1)PR ;;; 91.265 0.010086 24638500 5866.7 5633.66 5536.63 6209.5 6668.8 6724.2 7584.2 5620.51 4413.73 5407.1 TRUE FALSE FALSE 6483.786423 5816.19428 6291.133103 6329.693852 6157.837985 6151.260331 6730.805855 5476.745493 4383.014494 5640.226543 1.149561347 1.0311987 1.115404329 1.122241067 1.091771392 1.090605188 1.19335736 0.971015162 0.777099016 1 12.4615374 -9.504298676 1.21078765 0.99913089 1.103739056 0.323443639 0.09260043 0.44164892 1.143153369 0.038924167 0.00909865 3.13E-10 9.504298676 0.104608166 RFPEAEALS(ph)PEQAAHYLR ddPTM_HeLa_SAHA_4h_R1 3 RFPEAEALSPEQAAHYLR 18 1 Q2NKX8 Q2NKX8 ERCC6L DNA excision repair protein ERCC-6-like 1 0 RFPEAEALS(1)PEQAAHYLR;RFPEAEALS(1)PEQAAHYLR;RFPEAEALS(1)PEQAAHYLR ;; 132.48 5.42E-05 14181500 1734.67 1626.61 1343.56 1987.1 1840 2102.58 1569.41 1757.46 2066.7 1617.77 TRUE FALSE FALSE 1917.13055 1679.313231 1526.65336 2025.563194 1699.019598 1923.428355 1392.815856 1712.506718 2052.317666 1687.519982 1.13606391 0.995136798 0.90467276 1.200319531 1.006814506 1.139795899 0.825362586 1.014806779 1.216173846 1 10.72068887 -4.76490295 24.99928241 1.058862721 0.920084689 0.249366979 0.104508852 80.65722728 582187.8577 0.012733193 0.040558878 1.72E-05 4.76490295 -0.138778031 RFPTDYASTS(ph)EDEFGSNR ddPTM_HeLa_SAHA_4h_R1 3 RFPTDYASTSEDEFGSNR 18 1 H0Y2V6;Q5SW79;Q5SW79-3 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 RFPTDYAST(0.042)S(0.957)EDEFGSNR;RFPTDYAS(0.005)T(0.016)S(0.979)EDEFGSNR;RFPTDYAST(0.189)S(0.808)EDEFGS(0.003)NR ;; 128.29 9.92E-05 14536300 2500.5 2668.19 2472.6 3018.65 2888.07 2902.83 3131.95 3215.18 3128.79 2607.98 TRUE FALSE FALSE 2763.514063 2754.641107 2809.553051 3077.080336 2666.786701 2655.492553 2779.534743 3132.940351 3107.016496 2720.422781 1.015839921 1.012578312 1.032763389 1.131103723 0.980283917 0.976132303 1.021728962 1.151637302 1.142107954 1 11.40961516 -6.703701155 4.380819357 1.007975791 1.045632245 0 0.068119471 0.392830929 15.34006461 0.008453384 0.011925571 1.98E-07 6.703701155 0.037656453 RFS(ph)EGVLQSPSQDQEK ddPTM_HeLa_SAHA_4h_R1 2 RFSEGVLQSPSQDQEK 16 1 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 RFS(1)EGVLQSPSQDQEK;RFS(1)EGVLQSPSQDQEK ; 304.62 6.15E-87 26970000 1993.42 3248.1 2623.1 1710.81 2628.8 3250.9 3203.6 1740.87 1629.86 3051.2 TRUE FALSE FALSE 2203.097062 3353.340571 2980.562407 1743.925201 2427.381912 2973.905031 2843.122497 1696.341066 1618.517672 3182.752164 0.692198748 1.053597766 0.936473295 0.54792994 0.762667587 0.934381591 0.893290571 0.532979314 0.508527711 1 11.63605911 RFS(ph)FCCSPEPEAEAEAAAGPGPCER ddPTM_HeLa_SAHA_4h_R1 4 RFSFCCSPEPEAEAEAAAGPGPCER 25 1 E7EMC7;Q13501;E3W990;D6RBF1;C9J6J8 E7EMC7 SQSTM1 Sequestosome-1 1 0 RFS(0.628)FCCS(0.372)PEPEAEAEAAAGPGPCER;RFS(0.655)FCCS(0.345)PEPEAEAEAAAGPGPCER;RFS(0.776)FCCS(0.224)PEPEAEAEAAAGPGPCER;RFS(0.781)FCCS(0.219)PEPEAEAEAAAGPGPCER ;;; 139.64 1.65E-09 104043000 1581.1 1545.92 1186.78 1313.71 1797.22 1861.05 1824.23 1824.58 1439.16 1520.28 TRUE FALSE FALSE 1747.407352 1596.008822 1348.508198 1339.138757 1659.517392 1702.47807 1618.962839 1777.909886 1429.144768 1585.826711 1.101890478 1.006420696 0.850350286 0.844442049 1.046468306 1.073558705 1.020895176 1.121124946 0.901198573 1 10.63101942 -3.346970632 1.195801095 1.017844278 1.736101275 0.070179632 0.091144226 23.79492631 5.349296344 0.014522419 35.76413295 0.00044981 3.346970632 0.718256997 RFS(ph)FSQR ddPTM_HeLa_SAHA_4h_R1 4 RFSFSQR 7 1 Q92614;A0A0D9SFK2;Q92614-3;Q92614-4 Q92614 MYO18A Unconventional myosin-XVIIIa 1 0 RFS(0.963)FS(0.037)QR;RFS(0.945)FS(0.055)QR;RFS(0.998)FS(0.002)QR;RFS(0.994)FS(0.006)QR ;;; 95.775 0.0085981 47937100 6724.7 5874.55 6036.67 6152.31 7052 7448 7681.9 6568.3 7576.5 6604.61 TRUE FALSE FALSE 7432.0348 6064.889274 6859.31595 6271.396856 6511.677284 6813.388499 6817.512394 6400.292397 7523.77452 6889.367059 1.078768882 0.880326048 0.995638045 0.910300874 0.94517787 0.98897162 0.989570208 0.929010218 1.092085014 1 12.75015573 -7.274138923 24.99866422 1.037196416 0.95179397 0.562711459 0.042718082 495.8028181 975970.9938 0.007372618 0.008458954 5.32E-08 7.274138923 -0.085402446 RFS(ph)LDER ddPTM_HeLa_SAHA_4h_R1 1 RFSLDER 7 1 Q7LBC6;Q7LBC6-2 Q7LBC6 KDM3B Lysine-specific demethylase 3B 1 0 RFS(1)LDER 80.706 0.014577 5617500 1847.6 1731.6 1818.4 1924.9 2045.6 2053.4 1834.8 1830.6 1915.3 1797.6 TRUE FALSE FALSE 2041.939045 1787.704976 2066.202082 1962.159223 1888.86657 1878.438768 1628.343475 1783.775903 1901.971271 1875.103333 1.088974143 0.953390112 1.101913716 1.046427249 1.007339988 1.0017788 0.868401995 0.951294721 1.014328777 1 10.87275439 -4.937979361 3.771427129 1.038354484 0.910286284 0.51283333 0.045485578 0.127047699 3.656597313 0.006747902 0.022130139 1.15E-05 4.937979361 -0.1280682 RFS(ph)SGGEEDDFDR ddPTM_HeLa_SAHA_4h_R1 2 RFSSGGEEDDFDR 13 1 A0A0C4DGA7;O94929-2;O94929-3;O94929 A0A0C4DGA7 ABLIM3 Actin-binding LIM protein 3 1 0 RFS(0.982)S(0.018)GGEEDDFDR;RFS(0.958)S(0.042)GGEEDDFDR ; 112.03 0.0057398 17297300 1848.01 2783.8 1853.24 1940.84 2157.12 2809.25 2231.25 2189.56 2171.65 2604.84 TRUE FALSE FALSE 2042.392171 2873.996947 2105.789896 1978.407765 1991.841932 2569.886096 1980.183878 2133.554226 2156.537311 2717.1474 0.751667786 1.057725814 0.775000243 0.728119411 0.733063628 0.945802975 0.728773079 0.785218434 0.793676968 1 11.40787712 RFS(ph)SSDFSDLSNGEELQETCSSSLR ddPTM_HeLa_SAHA_4h_R1 2 RFSSSDFSDLSNGEELQETCSSSLR 25 1 P23497;P23497-2;P23497-3;P23497-4;E9PHV6;P23497-7;P23497-6;H7C4B4;H7C1G8 P23497 SP100 Nuclear autoantigen Sp-100 1 0 RFS(0.717)S(0.247)S(0.023)DFS(0.012)DLSNGEELQETCSSSLR;RFS(0.386)S(0.161)S(0.386)DFS(0.068)DLSNGEELQETCSSSLR ; 168.14 2.68E-11 15351000 765.49 909.04 1035.25 1145.24 1135.75 858.99 911.79 724.12 1067.96 784.95 TRUE FALSE FALSE 846.0077504 938.4934924 1176.328479 1167.407776 1048.72908 785.7992195 809.1929895 705.5980589 1060.527979 818.793036 1.033237599 1.146191347 1.436661558 1.425766616 1.280823156 0.959704327 0.988275369 0.86175386 1.295233268 1 9.677355022 -3.192989062 14.11300057 1.080200924 1.10424675 0 0.204119905 0 0 0.028311034 0 0.000641226 3.192989062 0.024045826 RFS(ph)SSDFSDLSNGEELQETCSSSLRR ddPTM_HeLa_SAHA_4h_R1 2 RFSSSDFSDLSNGEELQETCSSSLRR 26 2 P23497;P23497-2;P23497-3;P23497-4;E9PHV6;P23497-7;P23497-6;H7C4B4;H7C1G8 P23497 SP100 Nuclear autoantigen Sp-100 1 0 RFS(0.825)S(0.102)S(0.043)DFS(0.017)DLS(0.012)NGEELQETCSSSLRR;RFS(0.367)S(0.367)S(0.256)DFS(0.008)DLS(0.001)NGEELQETCSSSLRR ; 68.45 0.00075446 17300200 575.13 377.58 481.45 407.17 703.44 665.55 497.56 408.52 549.76 637.41 TRUE FALSE FALSE 635.6248122 389.8138397 547.0594987 415.0513641 649.5425792 608.8413957 441.5732393 398.0706499 545.9341754 664.8918645 0.955982237 0.58628156 0.822779655 0.624238897 0.976914614 0.915699873 0.664127902 0.598699836 0.821087164 1 9.376975915 -7.406483869 7.784567837 0.980673306 0.752865351 0.252562245 0.135436657 0.200539576 12.29187141 0.021568236 0.024595614 3.92E-08 7.406483869 -0.227807955 RFS(ph)T(ph)S(ph)R ddPTM_HeLa_SAHA_4h_R1 1 RFSTSR 6 1 M0R2U6;M0QZF2;M0QYJ9;M0R0S1;M0R2P6;Q8TBC3-2;Q8TBC3 M0R2U6 SHKBP1 SH3KBP1-binding protein 1 3 0 RFS(1)T(1)S(1)R 78.264 0.020717 2561000 739.03 623.68 735.22 971.15 1093.8 1222.5 1212.8 1269.2 857.5 1044.8 TRUE FALSE FALSE 816.7645662 643.8876412 835.4119527 989.9480126 1009.99328 1118.336122 1076.332552 1236.735702 851.5325877 1089.846441 0.74943087 0.590805839 0.766540974 0.908337152 0.926729897 1.026141005 0.98760019 1.134779777 0.781332631 1 10.08990916 -5.355702346 1.457135171 0.845950721 1.064976006 0.491937942 0.109965405 0.438938064 1.75335448 0.021702946 0.075885083 4.41E-06 5.355702346 0.219025284 RFS(ph)TLTRHK ddPTM_HeLa_SAHA_4h_R1 1 RFSTLTRHK 9 2 A0A087WU35;Q96N38-3;Q96N38-2;Q96N38 A0A087WU35 ZNF714 Zinc finger protein 714 1 0 RFS(0.469)T(0.469)LT(0.063)RHK 67.993 0.016229 3517100 2024 1361.5 2024.1 3018.5 1502.2 1888.7 3327.6 2262 1242.9 1847.1 TRUE FALSE FALSE 2236.893606 1405.613493 2299.933807 3076.927432 1387.101761 1727.772134 2953.16969 2204.141315 1234.250558 1926.73752 1.160974748 0.729530348 1.193693372 1.59696243 0.719922535 0.896734566 1.53273067 1.143975914 0.640590918 1 10.91194433 -4.764957723 24.99854808 1.063360431 1.338353277 0.154621113 0.287526793 111.2102718 790199.8597 0.034231145 0.10899222 1.72E-05 4.764957723 0.274992846 RFSEGTSADR ddPTM_HeLa_SAHA_4h_R1 2 RFSEGTSADR 10 1 A0A087X2I1;P62333;H0YJX2 A0A087X2I1 PSMC6 26S protease regulatory subunit 10B 0 0 ; ; 145.23 0.001816 2725800 1053.02 839.55 878.2 1166.58 871.5 1089.76 946.54 1219.71 921 1012.39 FALSE FALSE TRUE 1163.781475 866.7519708 997.8765225 1189.160843 804.7258583 996.9063172 840.032828 1188.511584 914.590686 1056.039087 1.102025 0.820757471 0.944923852 1.126057602 0.762022796 0.944005131 0.795456189 1.125442797 0.866057608 1 10.04444752 -7.278050339 24.98664965 1.048178472 0.928017806 0 0.13181735 975.392508 1467208.211 0.019345128 0.022153685 5.27E-08 7.278050339 -0.120160666 RFTDEESR ddPTM_HeLa_SAHA_4h_R1 1 RFTDEESR 8 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;H0YF00;Q9NYF8-2;Q9NYF8 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 0 0 140.11 0.0018082 4165500 736.16 733.48 734.62 780.35 656.1 960.15 945.08 969.01 926.67 774.38 FALSE FALSE TRUE 813.5926864 757.2452333 834.7301879 795.4548027 605.8297597 878.3398183 838.7371111 944.2241273 920.221228 807.7673115 1.007211699 0.937454664 1.033379509 0.984757357 0.750005294 1.087367372 1.038340001 1.168930847 1.139215731 1 9.657795954 -4.379802071 1.746758895 0.985513636 1.197561577 0.239085357 0.096616695 0.668683278 2.406080413 0.011616516 0.21647126 4.17E-05 4.379802071 0.212047941 RFVNVVPTFGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 RFVNVVPTFGKK 12 2 E9PR30;P62861 E9PR30 FAU 40S ribosomal protein S30 0 1 ; RFVNVVPTFGK(1)K;RFVNVVPTFGK(1)K 138.89 9.18E-05 26298000 8174.2 7905.3 10494.4 10007 10961.8 10039.6 13257.5 7467.1 4978.7 7684.6 FALSE TRUE FALSE 9033.999861 8161.436907 11924.52218 10200.69996 10121.90925 9184.169599 11765.73121 7276.102394 4944.052821 8015.920714 1.127007138 1.018153397 1.487604806 1.272554996 1.26272572 1.145741073 1.467795357 0.907706383 0.616779157 1 12.96865252 -6.81311736 24.99994345 1.058514588 1.262783426 0.297357019 0.209122789 90.18210704 43626.45119 0.023291471 0.030611009 1.54E-07 6.81311736 0.204268838 RGAAGDWGER ddPTM_HeLa_SAHA_4h_R1 3 RGAAGDWGER 10 1 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 0 ;; ;; 131.09 0.0031572 16190500 4693.4 3601.1 4087.4 4583.6 4835.1 5068.3 4807.3 3717.1 3789.6 4561.8 FALSE FALSE TRUE 5187.073346 3717.778003 4644.409586 4672.322206 4464.635683 4636.452327 4266.369952 3622.021964 3763.227865 4758.481523 1.090069032 0.781295038 0.97602766 0.981893527 0.938247981 0.974355433 0.896582225 0.761171804 0.790846375 1 12.21628555 -2.216008599 0.315274594 1.032980423 1.05E-16 0 0.109837699 18.00718627 0.460554844 0.030836704 9.348069092 0.00608123 2.216008599 -1.032980423 RGADDDRPSWR ddPTM_HeLa_SAHA_4h_R1 2 RGADDDRPSWR 11 2 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 ; ; 82.831 0.011301 4026300 727.85 619.12 808.95 894.08 937.68 986.71 992.7 719.42 826.26 832.99 FALSE FALSE TRUE 804.4086025 639.1798942 919.1894932 911.3862113 865.835161 902.6367569 880.9987834 701.0182781 820.5099894 868.9042755 0.925773558 0.735616008 1.057871988 1.048891388 0.996467834 1.038821862 1.013919264 0.806784243 0.944304238 1 9.763053438 RGAPS(ph)SPATGVLPSPQGK ddPTM_HeLa_SAHA_4h_R1 1 RGAPSSPATGVLPSPQGK 18 1 Q5SRE5-2;Q5SRE5 Q5SRE5-2 NUP188 Nucleoporin NUP188 homolog 1 0 RGAPS(0.424)S(0.424)PAT(0.145)GVLPS(0.007)PQGK 89.043 0.0018027 8111100 2195.7 1923.4 1971.3 2105.8 2308.5 2624.1 2599.9 3044.2 1601.8 2013.5 TRUE FALSE FALSE 2426.6538 1985.719422 2239.938498 2146.560804 2131.623229 2400.511917 2307.352409 2966.333772 1590.652943 2100.311839 1.155377861 0.945440284 1.066479013 1.022020047 1.014907972 1.142931194 1.09857611 1.412330168 0.757341321 1 11.03638783 -3.384192656 1.264034948 1.059015242 3.54690987 0.500138461 0.112549817 4.863248319 1.225324031 0.010531979 26.72822503 0.000412864 3.384192656 2.487894628 RGAPSSPATGVLPS(ph)PQGK ddPTM_HeLa_SAHA_4h_R1 1 RGAPSSPATGVLPSPQGK 18 1 Q5SRE5-2;Q5SRE5 Q5SRE5-2 NUP188 Nucleoporin NUP188 homolog 1 0 RGAPS(0.06)S(0.06)PAT(0.111)GVLPS(0.768)PQGK 57.499 0.016442 7517200 1797 1847.9 1563.2 1421.9 1975.4 2230 2362.4 2363.1 1291.8 1843.2 TRUE FALSE FALSE 1986.016705 1907.773172 1776.224755 1449.422931 1824.045279 2039.991454 2096.576535 2302.655324 1282.810259 1922.669372 1.032947595 0.992252334 0.923832657 0.753859687 0.9487046 1.061020414 1.090450893 1.197634579 0.667202732 1 10.90889498 -4.635225227 1.824935042 0.984301942 1.19397943 0.255910044 0.128192999 0.391915976 2.128062729 0.01317953 0.109347912 2.32E-05 4.635225227 0.209677488 RGAYGGGYGGYDDYNGYNDGYGFGSDR ddPTM_HeLa_SAHA_4h_R1 1 RGAYGGGYGGYDDYNGYNDGYGFGSDR 27 1 P31943;G8JLB6;E9PCY7;H0YB39;H0YBD7 P31943 HNRNPH1 "Heterogeneous nuclear ribonucleoprotein H;Heterogeneous nuclear ribonucleoprotein H, N-terminally processed" 0 0 104.53 2.13E-06 14766000 549.98 404.81 558.54 302 758.65 719 630.38 382.54 556.67 455.31 FALSE FALSE TRUE 607.8294198 417.9261096 634.6549224 307.8456467 700.5224009 657.737155 559.4479833 372.7551807 552.7960881 474.9406423 1.279800812 0.879954403 1.336282613 0.648177097 1.474968319 1.38488286 1.177932427 0.784845826 1.163926687 1 8.891603408 RGDDSFGDKYR ddPTM_HeLa_SAHA_4h_R1 2 RGDDSFGDKYR 11 2 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 0 0 ; ; 92.239 0.0071419 39850000 9712.9 7842.8 14057 11676.4 11297 7194.4 11449.6 5063.3 3798.7 6267.5 FALSE FALSE TRUE 10734.54739 8096.911866 15972.61475 11902.41361 10431.4263 6581.396645 10161.26087 4933.788118 3772.264537 6537.722597 1.641939869 1.238491194 2.443146603 1.820574891 1.595574934 1.006680315 1.554250845 0.754664647 0.576999786 1 12.67457245 -2.892226603 14.20322307 1.397703312 1.236010423 0 0.530900392 0 0 0.064761947 0 0.001281662 2.892226603 -0.161692889 RGDDWNDREWDR ddPTM_HeLa_SAHA_4h_R1 1 RGDDWNDREWDR 12 2 Q9BXP5-5;Q9BXP5-4;Q9BXP5-2;Q9BXP5-3;Q9BXP5;C9JUL9 Q9BXP5-5;C9JUL9 SRRT Serrate RNA effector molecule homolog 0 0 67.214 0.019899 11413000 2755.2 2798.1 2946.3 3451.9 3912.9 4127.8 3583.1 3390.5 3818 3254.9 FALSE FALSE TRUE 3045.004577 2888.760276 3347.80642 3518.716516 3613.094447 3776.088218 3179.920158 3303.775919 3791.430227 3395.234668 0.896846573 0.850827869 0.986030937 1.036369164 1.064166339 1.112172968 0.93658332 0.973062613 1.116691657 1 11.72929558 -6.525240302 24.99360829 0.941251921 1.025119304 0.075561268 0.080097985 78.64703535 832357.3071 0.010682721 0.015162908 2.98E-07 6.525240302 0.083867383 RGDLPFVVPR ddPTM_HeLa_SAHA_4h_R1 2 RGDLPFVVPR 10 1 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ; ; 166.86 1.72E-09 2429600 894.92 984.26 1152.43 756.9 1014.34 996.81 1091.36 866.37 888.42 987.89 FALSE FALSE TRUE 989.0517916 1016.15067 1309.477159 771.550894 936.6214883 911.8761801 968.5573005 844.2095099 882.2374129 1030.482773 0.959794591 0.986091856 1.270741437 0.748727601 0.908915232 0.884901916 0.939906349 0.819236898 0.856139895 1 10.00910467 RGDS(ph)ESEEDEQDS(ph)EEVR ddPTM_HeLa_SAHA_4h_R1 2 RGDSESEEDEQDSEEVR 17 1 Q9NZ63 Q9NZ63 C9orf78 Uncharacterized protein C9orf78 2 0 RGDS(0.94)ES(0.076)EEDEQDS(0.984)EEVR;RGDS(0.859)ES(0.308)EEDEQDS(0.832)EEVR ; 153.17 8.30E-05 35116000 1295.3 1428.14 961.5 1288.06 1292.89 1773.03 1634.42 1611.02 1466.47 1444.47 TRUE FALSE FALSE 1431.545597 1474.412673 1092.528213 1312.992264 1193.829048 1621.957869 1450.51076 1569.812441 1456.264716 1506.748171 0.950089487 0.978539547 0.725090121 0.871407903 0.792321551 1.076462478 0.962676304 1.041854552 0.966495095 1 10.5572226 RGDS(ph)ESEEDEQDSEEVR ddPTM_HeLa_SAHA_4h_R1 1 RGDSESEEDEQDSEEVR 17 1 Q9NZ63 Q9NZ63 C9orf78 Uncharacterized protein C9orf78 1 0 RGDS(0.821)ES(0.179)EEDEQDSEEVR 64.422 0.013154 1526200 0 72.117 163.97 0 0 140.45 155.45 0 167.94 0 TRUE FALSE FALSE 0 74.45363812 186.3149777 0 0 128.4828698 137.9583569 0 166.7712919 0 0 RGEAHLAVNDFELAR ddPTM_HeLa_SAHA_4h_R1 4 RGEAHLAVNDFELAR 15 1 Q02790 Q02790 FKBP4 "Peptidyl-prolyl cis-trans isomerase FKBP4;Peptidyl-prolyl cis-trans isomerase FKBP4, N-terminally processed" 0 0 ;;; ;;; 158.31 3.85E-06 28110400 3777.09 3540.7 4262.37 4480.18 4536.21 4605.53 4832.34 3368.3 4383.35 4843.82 FALSE FALSE TRUE 4174.381656 3655.421003 4843.223586 4566.900362 4188.64657 4213.112934 4288.592385 3282.143763 4352.84591 5052.660785 0.826174927 0.723464558 0.958549127 0.903860472 0.828998175 0.833840448 0.848779003 0.649587198 0.861495773 1 12.30282761 -13.52287875 0.198937528 1.826858638 0.792910069 0.118502331 0.091191454 38.23803024 0.462979741 12.24712141 0.084307748 3.00E-14 13.52287875 -1.033948569 KAAVTPGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 KAAVTPGKK 9 2 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 1 ; KAAVTPGK(1)K;KAAVTPGK(1)K 87.568 0.022157 0 8657.3 8642.3 16598 32557 27526 35528 50302 47246 5890.4 7593.8 FALSE TRUE FALSE 9567.914535 8922.31619 18859.889 33187.18781 25416.96383 32500.81452 44641.88657 46037.51573 5849.408227 7921.205881 1.207886107 1.126383574 2.3809366 4.189663583 3.208724051 4.103013482 5.635743754 5.811932731 0.73844921 1 12.95150436 -5.556632695 0.524488301 0.952922283 6.507480371 0.920093187 0.519034742 0.27980369 0.110993223 0.12487226 0.758928532 2.78E-06 5.556632695 5.554558088 up RGEEGHDPKEPEQLR ddPTM_HeLa_SAHA_4h_R1 2 RGEEGHDPKEPEQLR 15 2 P51991 P51991 HNRNPA3 Heterogeneous nuclear ribonucleoprotein A3 0 0 ; ; 97.631 0.0015123 25086100 3660.3 3212 3953.8 4421.7 4438.6 4817.8 4727.5 3454.8 4307.9 4295.5 FALSE FALSE TRUE 4045.307148 3316.070907 4492.603273 4507.288397 4098.515427 4407.296336 4195.549258 3366.431218 4277.920973 4480.700027 0.902829273 0.740078757 1.00265656 1.005933977 0.914704266 0.983617807 0.936360219 0.751318142 0.95474389 1 12.12950843 -9.12202609 1.047450091 0.996614132 0.910908915 0.085207143 0.089355418 0.829536181 1.725504805 0.047633216 0.016243926 7.55E-10 9.12202609 -0.085705217 RGEGDAPFSEPGTTS(ph)TQRPSSPETATK ddPTM_HeLa_SAHA_4h_R1 1 RGEGDAPFSEPGTTSTQRPSSPETATK 27 2 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3;A0A087X1W1 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 RGEGDAPFSEPGT(0.093)T(0.093)S(0.359)T(0.262)QRPS(0.093)S(0.093)PET(0.006)AT(0.001)K 66.075 0.00071531 15168000 1369.2 1920.5 1360.1 1761.5 1941 2380.4 2023.8 1768.8 2400.9 1862.9 TRUE FALSE FALSE 1513.218738 1982.72546 1545.447345 1795.59638 1792.280999 2177.576528 1796.076698 1723.556657 2384.191941 1943.218736 0.778717656 1.02033056 0.795302822 0.924032044 0.922325915 1.120602888 0.92427922 0.886959674 1.226929268 1 10.92423259 -5.507504199 24.44725369 0.897958099 0.980227776 0 0.138050784 919.198035 1461625.38 0.015143629 0.032875636 3.11E-06 5.507504199 0.082269677 RGEGDAPFSEPGTTSTQRPS(ph)SPETATK ddPTM_HeLa_SAHA_4h_R1 4 RGEGDAPFSEPGTTSTQRPSSPETATK 27 2 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3;A0A087X1W1 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 RGEGDAPFSEPGT(0.004)T(0.031)S(0.017)T(0.075)QRPS(0.338)S(0.338)PET(0.178)AT(0.021)K;RGEGDAPFSEPGTT(0.03)S(0.129)T(0.129)QRPS(0.352)S(0.352)PET(0.006)AT(0.003)K;RGEGDAPFSEPGTT(0.003)S(0.009)T(0.009)QRPS(0.484)S(0.484)PET(0.009)AT(0.001)K;RGEGDAPFS(0.001)EPGT(0.041)T(0.166)S(0.166)T(0.166)QRPS(0.213)S(0.213)PET(0.013)AT(0.02)K ;;; 121.56 1.79E-08 646757000 9615.4 12304.7 8968.3 10752.3 12699.1 15504.1 12809.6 11122.68 15920.8 11026.1 TRUE FALSE FALSE 10626.79189 12703.38035 10190.45322 10960.42631 11726.0977 14183.06346 11368.23009 10838.17795 15810.00586 11501.48913 0.923949218 1.104498749 0.886011638 0.952957151 1.019528651 1.233150186 0.988413758 0.942328235 1.374605121 1 13.48953304 -5.527685231 18.63997095 0.968489428 1.061063754 0 0.155704515 7.055065016 27360.72901 0.012596176 0.025374237 2.97E-06 5.527685231 0.092574326 RGEK(ac)GEVVETVEDVIVR ddPTM_HeLa_SAHA_4h_R1 1 RGEKGEVVETVEDVIVR 17 2 Q9H0E9-4;Q9H0E9-2;H7C179;B5MCW3;H7C127;Q9H0E9;H7C128 Q9H0E9-4 BRD8 Bromodomain-containing protein 8 0 1 RGEK(1)GEVVETVEDVIVR 207.05 9.96E-27 2505200 703.36 962.43 1223.4 914.81 1191.4 1392.9 1235.8 856.52 1101.9 1035.7 FALSE TRUE FALSE 777.3426319 993.6133635 1390.118581 932.5174704 1100.115189 1274.217084 1096.744532 834.6114586 1094.231788 1080.354096 0.719525788 0.919710831 1.28672496 0.863159101 1.018291312 1.179443933 1.015171355 0.772535099 1.012845504 1 10.07728853 -6.988018854 24.99702714 0.865030904 1.028686611 0.083946829 0.156157865 295.6835995 616901.1348 0.026447003 0.034744322 1.03E-07 6.988018854 0.163655707 RGEK(ac)GEVVETVEDVIVRK ddPTM_HeLa_SAHA_4h_R1 1 RGEKGEVVETVEDVIVRK 18 3 Q9H0E9-4;Q9H0E9-2;H7C179;B5MCW3;H7C127;Q9H0E9;H7C128 Q9H0E9-4 BRD8 Bromodomain-containing protein 8 0 1 RGEK(1)GEVVETVEDVIVRK 102.15 0.0012515 1157700 640.79 704.77 806.5 986.74 956.67 665.24 876.37 762.79 796.56 572.09 FALSE TRUE FALSE 708.1912322 727.6050104 916.4056199 1005.83978 883.3701513 608.5578095 777.7585411 743.2789363 791.0166741 596.7555996 1.186735797 1.219268007 1.535646453 1.685513768 1.480287997 1.019777292 1.303311677 1.245533241 1.3255287 1 9.220996389 -7.617126139 1.167087872 1.054169118 1.36803216 0.116478828 0.194495049 0.358240089 0.999280157 0.043494186 0.04369192 2.41E-08 7.617126139 0.313863042 RGES(ph)LDNLDS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 RGESLDNLDSPR 12 1 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 2 0 RGES(1)LDNLDS(1)PR;RGES(1)LDNLDS(1)PR ; 105.53 0.0075367 13246800 3097.3 3985.9 3644.8 2897.1 4394.4 4691.9 3658 2837 4295.5 3870.8 TRUE FALSE FALSE 3423.088225 4115.045775 4141.494363 2953.17756 4057.702021 4292.123724 3246.392213 2764.433648 4265.607266 4037.689131 0.847783996 1.019158643 1.02570907 0.731402905 1.004956521 1.063014904 0.804022327 0.684657377 1.056447668 1 11.97931412 -4.545080691 6.384039691 0.938923741 0.711803446 0.435185579 0.101716239 0.101685263 15.05523135 0.013737523 0.055784942 2.85E-05 4.545080691 -0.227120296 RGES(ph)LDNLDSPR ddPTM_HeLa_SAHA_4h_R1 3 RGESLDNLDSPR 12 1 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 RGES(1)LDNLDSPR;RGES(1)LDNLDSPR;RGES(1)LDNLDSPR ;; 142.57 0.00062106 467281000 3586.29 3871.25 3217.17 3760.89 3837.2 4572.5 3936.89 3990.02 4003.18 3808.49 TRUE FALSE FALSE 3963.512437 3996.68104 3655.589173 3833.687464 3543.194565 4182.897276 3493.900776 3887.961066 3975.321544 3972.692642 0.997689173 1.006038322 0.920179209 0.965009833 0.891887413 1.052912383 0.879479258 0.9786715 1.000661743 1 11.95590146 -6.776600309 24.91498989 0.999413007 0.947895803 0.244066876 0.045720085 227.2426431 373442.33 0.006515202 0.008581023 1.67E-07 6.776600309 -0.051517204 RGESLDNLDS(ph)PR ddPTM_HeLa_SAHA_4h_R1 5 RGESLDNLDSPR 12 1 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 RGES(0.245)LDNLDS(0.755)PR;RGESLDNLDS(1)PR;RGESLDNLDS(1)PR;RGES(0.366)LDNLDS(0.634)PR;RGES(0.442)LDNLDS(0.558)PR ;;;; 157.09 0.00050593 96430900 7390.6 8186.4 7522.3 7155 8272.6 9615.2 9409 8641.4 8488.1 7867 TRUE FALSE FALSE 8167.977217 8451.644731 8547.39987 7293.495371 7638.755175 8795.930866 8350.274557 8420.365501 8429.030621 8206.18487 0.995344042 1.029911569 1.041580223 0.88878029 0.930853411 1.071866038 1.017558669 1.026099903 1.027155829 1 13.00249594 -5.239555831 24.85856273 0.991343098 1.036413242 0.200028839 0.046132086 1079.186375 1225895.85 0.006498723 0.016552298 5.76E-06 5.239555831 0.045070144 RGFCFITYTDEEPVKK ddPTM_HeLa_SAHA_4h_R1 2 RGFCFITYTDEEPVKK 16 2 O14979-3;O14979-2;A0A087WUK2;O14979 O14979-3 HNRNPDL Heterogeneous nuclear ribonucleoprotein D-like 0 0 ; ; 134.04 1.60E-05 3823500 1800.44 1799.6 1811.87 2060.51 2337.42 2248.51 2499 1414.09 2296.22 2313.3 FALSE FALSE TRUE 1989.81854 1857.908221 2058.782208 2100.394151 2158.327385 2056.924298 2217.805943 1377.919625 2280.240418 2413.037684 0.824611465 0.769945796 0.853191072 0.870435702 0.894444127 0.852421125 0.919092958 0.571031126 0.944966767 1 11.23663473 -13.52287873 0.231988676 2.006790843 0.805179051 0.290632133 0.09362826 38.81964632 0.501563167 17.73292335 0.062614922 3.00E-14 13.52287873 -1.201611792 RGFS(ph)DSGGGPPAK ddPTM_HeLa_SAHA_4h_R1 1 RGFSDSGGGPPAK 13 1 Q9H307;G3V5F0;G3V579 Q9H307 PNN Pinin 1 0 RGFS(0.989)DS(0.011)GGGPPAK 121.99 0.0027776 44751000 1389.1 2248.4 1840.1 754.57 1330 3013.8 2155.5 1117.6 1241.8 1818.7 TRUE FALSE FALSE 1535.211911 2321.249635 2090.859245 769.1757935 1228.095687 2757.007285 1912.957467 1089.01341 1233.158213 1897.113058 0.809235857 1.223569479 1.102126854 0.405445416 0.647349763 1.453264619 1.008351853 0.57403717 0.650018304 1 10.88958994 -5.531932049 0.010227526 1.789483692 1.75E-06 0 0.311658382 25432.14943 67.5965191 5659.934687 6171.675295 2.94E-06 5.531932049 -1.78948194 RGGADVNIR ddPTM_HeLa_SAHA_4h_R1 1 RGGADVNIR 9 1 P08621-2;P08621;P08621-4 P08621-2 SNRNP70 U1 small nuclear ribonucleoprotein 70 kDa 0 0 114.97 0.0097308 2315800 2495.4 1956.4 2219.2 2511.9 1959.5 2339.7 2456.3 2402 2082.8 2243.6 FALSE FALSE TRUE 2757.877621 2019.788644 2521.621019 2560.521457 1809.363533 2140.344397 2179.910659 2340.560318 2068.305625 2340.332576 1.178412696 0.86303488 1.077462684 1.09408444 0.773122398 0.914547111 0.931453368 1.000097312 0.883765686 1 11.19249785 -5.789821151 24.99922035 1.067826526 0.907404277 0.101798587 0.109855878 174.5595939 153755.0937 0.015404603 0.027926976 1.62E-06 5.789821151 -0.16042225 RGGDGYDGGYGGFDDYGGYNNYGYGNDGFDDR ddPTM_HeLa_SAHA_4h_R1 2 RGGDGYDGGYGGFDDYGGYNNYGYGNDGFDDR 32 1 P31942-4;P31942-3;P31942;P31942-5 P31942-4 HNRNPH3 Heterogeneous nuclear ribonucleoprotein H3 0 0 ; ; 258.01 9.75E-72 65636000 1193.77 1334.75 1141.74 1124.6 1068.22 1371.03 1528.38 1082.72 1212.01 900.9 FALSE FALSE TRUE 1319.336206 1377.996776 1297.330381 1146.368259 986.3732144 1254.210531 1356.40266 1055.02559 1203.575524 939.7422079 1.40393418 1.46635616 1.380517306 1.219875248 1.049621062 1.334632541 1.443377395 1.122675539 1.280750735 1 9.876121238 -9.373783216 1.115158838 1.001192922 1.312166245 0.040417047 0.154496243 0.383626448 0.858520307 0.091565106 0.024003846 4.23E-10 9.373783216 0.310973323 RGGGSGGGEES(ph)EGEEVDED ddPTM_HeLa_SAHA_4h_R1 2 RGGGSGGGEESEGEEVDED 19 1 Q96QR8 Q96QR8 PURB Transcriptional activator protein Pur-beta 1 0 RGGGSGGGEES(1)EGEEVDED;RGGGSGGGEES(1)EGEEVDED ; 114.58 0.0015224 139093000 3829.4 3932.8 3642.9 4054 4454.1 4882.3 4922.4 4808.9 4138 4302.5 TRUE FALSE FALSE 4232.193862 4060.2253 4139.335441 4132.471032 4112.82782 4466.300573 4368.518597 4685.895301 4109.203321 4488.001831 0.943001813 0.904684413 0.922311442 0.92078194 0.916405112 0.995164606 0.973377187 1.044093893 0.915597514 1 12.13185755 -4.034920761 1.400371437 0.95703559 1.119728746 0.399667228 0.034520026 2.152540695 2.48567614 0.00595071 0.570310358 9.23E-05 4.034920761 0.162693156 RGGIPAS(ph)PIDPFQSR ddPTM_HeLa_SAHA_4h_R1 2 RGGIPASPIDPFQSR 15 1 Q96LD4-2;Q96LD4 Q96LD4-2 TRIM47 Tripartite motif-containing protein 47 1 0 RGGIPAS(0.998)PIDPFQS(0.002)R;RGGIPAS(0.998)PIDPFQS(0.002)R ; 73.688 0.011507 21685000 3814.6 4605.5 4048.4 3952.6 5064 6888.2 6221.9 6420.2 3692.4 4124.9 TRUE FALSE FALSE 4215.83713 4754.721222 4600.094869 4029.108289 4675.997414 6301.286608 5521.795437 6255.98058 3666.704288 4302.744626 0.979801847 1.105043788 1.069107109 0.936404235 1.086747604 1.464480734 1.28331935 1.453951169 0.852177995 1 12.0710415 -5.375113332 4.413125871 1.003303877 1.38774662 0.836732955 0.080830644 0.051518505 1.638675268 0.008956775 0.020737401 4.22E-06 5.375113332 0.384442742 RGGPNYQEGLR ddPTM_HeLa_SAHA_4h_R1 2 RGGPNYQEGLR 11 1 P53396;P53396-2;P53396-3;K7EIE7 P53396 ACLY ATP-citrate synthase 0 0 ; ; 103.44 0.0078843 2742400 1627.01 2238.6 1429.41 2231.2 1413.83 1877.97 1930.8 1498.93 1427.11 1971.05 FALSE FALSE TRUE 1798.146377 2311.132109 1624.202551 2274.388102 1305.502651 1717.956391 1713.541302 1460.589541 1417.178625 2056.031612 0.874571367 1.12407421 0.789969639 1.106202886 0.634962344 0.835569055 0.833421672 0.710392551 0.689278617 1 11.00564673 -5.757041692 24.99999445 0.952438929 0.765144848 0.278087735 0.136617629 80.97729756 460334.0322 0.014948205 0.029088735 1.75E-06 5.757041692 -0.187294081 RGILTLK ddPTM_HeLa_SAHA_4h_R1 2 RGILTLK 7 1 P60709;A0A2R8Y793;Q6S8J3;A0A2R8YGF8;E7EVS6;G5E9R0;C9JUM1;C9JZR7;C9JTX5;A5A3E0;P0CG38;P0CG39;P63267;P68133;P68032;P62736;A6NL76;F8WB63;B8ZZJ2;C9JFL5;F6UVQ4;F6QUT6;P63261;I3L3I0;I3L1U9;I3L4N8;K7EM38;I3L3R2;J3KT65 P60709;P63267;P63261 ACTB;POTEE;POTEF;POTEI;POTEJ;ACTG2;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;POTE ankyrin domain family member E;POTE ankyrin domain family member F;POTE ankyrin domain family member I;POTE ankyrin domain family member J;Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ; ; 106.04 0.0036095 39096000 12518.9 9921.4 16050.6 13395.8 14184.6 5354.3 16567.9 3037.9 2553.09 6266.7 FALSE FALSE TRUE 13835.69534 10242.85987 18237.89218 13655.09508 13097.77901 4898.083518 14703.63629 2960.194917 2535.322839 6536.888105 2.116556857 1.56693211 2.789996079 2.088928992 2.0036719 0.749298969 2.249332718 0.452844667 0.387848591 1 12.67438829 -2.243705687 10.84558778 1.628893758 1.318419452 0 0.801207067 0 0 0.094781681 0 0.005705508 2.243705687 -0.310474306 RGLAPNT(ph)PGK ddPTM_HeLa_SAHA_4h_R1 2 RGLAPNTPGK 10 1 O43663-3;O43663-2;O43663-4;O43663;G3V3N7;H0YL53 O43663-3 PRC1 Protein regulator of cytokinesis 1 1 0 RGLAPNT(1)PGK;RGLAPNT(1)PGK ; 110.92 0.0072778 61677000 10461.6 10041.4 8760.7 10446.2 11345.3 12497.3 11787.1 12334.8 10796.1 9548.2 TRUE FALSE FALSE 11561.99909 10366.74795 9954.562572 10648.40131 10476.02557 11432.45973 10460.78449 12019.29368 10720.96906 9959.86963 1.160858477 1.040851772 0.999467156 1.069130591 1.051823563 1.147852347 1.050293315 1.206772189 1.076416606 1 13.28191114 -9.637423911 1.469619664 1.000109974 1.096081977 0.045267487 0.064398152 0.476458208 1.852829617 0.044336736 0.010123975 2.30E-10 9.637423911 0.095972003 RGLDDDRGPR ddPTM_HeLa_SAHA_4h_R1 3 RGLDDDRGPR 10 2 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 ;; ;; 117.53 0.0058494 2205730 891.76 645.37 736.24 929.21 840.894 1096.64 957.67 675.13 823.02 735.08 FALSE FALSE TRUE 985.5594083 666.2804114 836.570953 947.1962032 776.4648834 1003.200102 849.9104512 657.8611522 817.2925368 766.7728962 1.285334176 0.868941006 1.091028331 1.235302145 1.012639971 1.308340589 1.108425266 0.857960884 1.065886054 1 9.582655531 -4.267388972 5.754409844 1.125766227 0.850366322 0.24076491 0.130474147 0.148469746 21.09781631 0.019565099 0.159413211 5.40E-05 4.267388972 -0.275399905 RGLDDDRGPWR ddPTM_HeLa_SAHA_4h_R1 1 RGLDDDRGPWR 11 2 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 69.346 0.019441 4783200 1030.2 704.54 1165.2 966.27 985.08 994.98 1057.8 772.78 689.95 918.51 FALSE FALSE TRUE 1138.561163 727.3675583 1323.987388 984.9735531 909.6033832 910.2021064 938.77356 753.0134066 685.1485818 958.1114612 1.188338945 0.759167996 1.381871986 1.0280365 0.949371154 0.949996053 0.979816648 0.785935079 0.71510321 1 9.90404969 -4.109857583 0.646944678 1.081666077 0.59503294 0.002686001 0.190965786 4.045085115 1.018401759 0.026185934 1.51609064 7.77E-05 4.109857583 -0.486633138 RGLKPSCTIIPLMK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 RGLKPSCTIIPLMKK 15 3 A0A0U1RQF0;P49327 A0A0U1RQF0 FASN Fatty acid synthase;[Acyl-carrier-protein] S-acetyltransferase;[Acyl-carrier-protein] S-malonyltransferase;3-oxoacyl-[acyl-carrier-protein] synthase;3-oxoacyl-[acyl-carrier-protein] reductase;3-hydroxyacyl-[acyl-carrier-protein] dehydratase;Enoyl-[acyl-carrier-protein] reductase;Oleoyl-[acyl-carrier-protein] hydrolase 0 1 ; RGLKPSCTIIPLMK(1)K;RGLKPSCTIIPLMK(1)K 62.162 0.014536 2672000 4757.1 3596.4 4661.7 3718.1 4569.8 3989.1 4631.6 2660.69 2769 4024.5 FALSE TRUE FALSE 5257.473604 3712.92572 5296.972199 3790.069202 4219.662911 3649.206238 4110.440178 2592.633402 2749.730304 4198.01589 1.252371059 0.884447753 1.261779931 0.902823929 1.005156489 0.869269277 0.979138785 0.617585419 0.655007121 1 12.03549191 -3.561032838 0.51023799 1.108644411 1.80E-13 0.088166374 0.192184634 4.855837816 0.510708144 0.027437468 3.776980255 0.000274769 3.561032838 -1.108644411 RGLLYDS(ph)DEEDEERPAR ddPTM_HeLa_SAHA_4h_R1 2 RGLLYDSDEEDEERPAR 17 2 P49736 P49736 MCM2 DNA replication licensing factor MCM2 1 0 RGLLYDS(1)DEEDEERPAR;RGLLYDS(1)DEEDEERPAR ; 114.9 0.00072073 104044000 1223.65 985.41 1107.7 1357.48 1398.59 1912.99 1696.83 1322.42 1340.22 1403.01 TRUE FALSE FALSE 1352.359121 1017.337931 1258.651587 1383.755988 1291.430336 1749.99249 1505.898223 1288.594411 1330.8933 1463.500627 0.924057767 0.695140071 0.860028048 0.945511032 0.882425543 1.195757936 1.028969988 0.880487775 0.909390317 1 10.51520765 -3.931926898 11.44613707 0.950726033 0.458170584 0.009901954 0.12216914 440569.2361 2649300.373 0.017384323 4728541.1 0.00011697 3.931926898 -0.492555449 RGLVIVTELCT(ph)EELLER ddPTM_HeLa_SAHA_4h_R1 1 RGLVIVTELCTEELLER 17 1 Q15772-1;Q15772 Q15772-1 SPEG Striated muscle preferentially expressed protein kinase 1 0 RGLVIVT(0.1)ELCT(0.9)EELLER 75.819 0.0057664 0 316.29 400.68 346.36 360.12 459.98 387.32 455.26 512.59 483.38 294.2 TRUE FALSE FALSE 349.5588334 413.6622949 393.560137 367.0906433 424.7364318 354.318157 404.0329466 499.47869 480.0161192 306.8844018 1.139057024 1.347941741 1.282437735 1.196185408 1.384027436 1.154565546 1.316563971 1.627579268 1.564159392 1 8.261551509 -1.000000004 0.083396046 0.72985637 2.685832191 0 0.208602613 78.25522004 0.477783227 1.652481519 17.67184527 0.099999999 1.000000004 1.955975821 RGMDDDRGPR ddPTM_HeLa_SAHA_4h_R1 1 RGMDDDRGPR 10 2 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 125.71 0.0038564 1827800 677.42 468.3 591.58 746.3 677.25 716.12 793.02 485.68 534.73 667.94 FALSE FALSE TRUE 748.6741437 483.4732273 672.1974416 760.7457157 625.3592513 655.1025472 703.7873025 473.2570089 531.0087704 696.7381622 1.074541606 0.693909496 0.9647777 1.091867443 0.897552747 0.940242092 1.010117345 0.679246573 0.762135332 1 9.444472776 -4.259781278 24.34438231 0.995424984 0.679246429 0.144185359 0.132172774 77.62128292 1139489.145 0.015691538 0.132828964 5.50E-05 4.259781278 -0.316178555 RGMDDDRGPRR ddPTM_HeLa_SAHA_4h_R1 1 RGMDDDRGPRR 11 3 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 0 0 56.404 0.018125 86429 0 0 119.97 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 136.3188868 0 0 0 0 0 0 0 0 RGMDEK ddPTM_HeLa_SAHA_4h_R1 1 RGMDEK 6 1 Q9HCK8-2;Q9HCK8;H0YJG4;H0YJA4 Q9HCK8-2 CHD8 Chromodomain-helicase-DNA-binding protein 8 0 0 71.378 0.020211 4691000 5075.4 5538.3 5754.9 4519.7 5909.2 5745.1 6834.2 5168.4 4277.2 5148.3 FALSE FALSE TRUE 5609.253859 5717.744554 6539.147802 4607.185329 5456.438373 5255.585159 6065.197829 5036.199812 4247.434617 5370.268408 1.044501584 1.064703683 1.217657537 0.85790597 1.016045746 0.978644783 1.129403108 0.937792942 0.790916635 1 12.39077848 RGNDPLTS(ph)SPGR ddPTM_HeLa_SAHA_4h_R1 3 RGNDPLTSSPGR 12 1 P49736;F8WDM3;C9J013;C9JZ21 P49736 MCM2 DNA replication licensing factor MCM2 1 0 RGNDPLT(0.001)S(0.921)S(0.078)PGR;RGNDPLT(0.075)S(0.463)S(0.463)PGR;RGNDPLT(0.129)S(0.435)S(0.435)PGR ;; 164.48 0.00032385 373026000 8398.34 9148.2 8216 9283.01 9266.3 11137 10280.8 9813.5 9457.2 9284.8 TRUE FALSE FALSE 9281.715934 9444.607682 9335.633693 9462.696082 8556.318096 10188.06494 9123.977326 9562.48488 9391.386575 9685.113167 0.958348733 0.975167509 0.963915809 0.977035159 0.883450503 1.051930398 0.942062025 0.987338477 0.969672364 1 13.24155319 -9.362397183 0.967587124 1.000999362 0.966413401 0.005701136 0.040412905 1.130837963 1.805700541 0.028346976 0.006559056 4.34E-10 9.362397183 -0.034585961 RGNDPLTSS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 2 RGNDPLTSSPGR 12 1 P49736;F8WDM3;C9J013;C9JZ21 P49736 MCM2 DNA replication licensing factor MCM2 1 0 RGNDPLT(0.002)S(0.2)S(0.798)PGR;RGNDPLT(0.169)S(0.169)S(0.663)PGR ; 148.13 0.0010893 322553000 3923 3954.21 3566.72 4600.31 4536.38 5383.09 4574.48 4905.08 4208.82 5064.1 TRUE FALSE FALSE 4335.639139 4082.328998 4052.774027 4689.355652 4188.803544 4924.420448 4059.747471 4779.615156 4179.530479 5282.438134 0.820764774 0.772811511 0.767216563 0.887725617 0.792967838 0.932224916 0.768536681 0.90481233 0.791212386 1 12.36698825 -9.115092558 0.873115807 1.000376179 0.829349012 0 0.085025181 0.332465042 0.457351813 0.036024659 0.010493858 7.67E-10 9.115092558 -0.171027167 RGPEVTSQGVQTS(ph)SPACK ddPTM_HeLa_SAHA_4h_R1 1 RGPEVTSQGVQTSSPACK 18 1 Q99700;H0YH87;A0A5F9ZHW5;A0A5F9ZHX3;A0A2R8Y5A6;A0A2R8Y7E6;A0A5F9ZI57;V9GY86;F8VQP2;A0A2R8YDM9;A0A2R8Y7P6;Q99700-5;Q99700-2;Q99700-4;A0A5F9ZHH4;F8W0B5;F8WB05;F8WB06 Q99700;F8WB06 ATXN2 Ataxin-2 1 0 RGPEVTSQGVQT(0.023)S(0.492)S(0.485)PACK 100.53 0.0010581 18786000 1654.7 2453.9 1821.5 2610 2385.8 3220.1 2308.1 1999.8 3210.5 2558.8 TRUE FALSE FALSE 1828.748938 2533.40797 2069.724534 2660.520324 2203.000519 2945.729364 2048.386513 1948.648012 3188.157869 2669.12239 0.6851499 0.949153916 0.775432607 0.996777193 0.825365119 1.103632181 0.767438211 0.730070685 1.194459228 1 11.38214975 -9.735034561 1.667878022 0.999926653 0.832598529 0.260916371 0.139572269 0.523369205 2.633733994 0.094275159 0.020527321 1.84E-10 9.735034561 -0.167328124 RGPGLYYVDSEGNR ddPTM_HeLa_SAHA_4h_R1 2 RGPGLYYVDSEGNR 14 1 P28074;P28074-3 P28074 PSMB5 Proteasome subunit beta type-5 0 0 ; ; 168.67 8.64E-06 23623000 3457.4 3031 3183.4 3085 3524.9 3893.9 4325.4 2554.6 3381.6 3145.4 FALSE FALSE TRUE 3821.065195 3129.206389 3617.217174 3144.714636 3254.822924 3562.117814 3838.694608 2489.257031 3358.06717 3281.013587 1.164599016 0.953731615 1.102469428 0.958458279 0.992017508 1.085676032 1.169972177 0.758685377 1.023484689 1 11.67992585 -7.246011551 24.84506608 1.077727318 1.014293263 0.044734338 0.112362724 1726.84951 2780933.395 0.018770673 0.022942491 5.68E-08 7.246011551 -0.063434055 RGPNYTSGYGTNSELSNPS(ph)ETESER ddPTM_HeLa_SAHA_4h_R1 2 RGPNYTSGYGTNSELSNPSETESER 25 1 B4DXZ6;P51114;P51114-3;P51114-2;E7EU85;E9PFF5 B4DXZ6 FXR1 Fragile X mental retardation syndrome-related protein 1 1 0 RGPNYTSGYGTNSELS(0.334)NPS(0.607)ET(0.043)ES(0.015)ER;RGPNYTSGYGTNSELS(0.001)NPS(0.951)ET(0.047)ES(0.001)ER ; 136.8 1.55E-09 31919000 942.55 1248.37 1001.4 1241.88 1219.41 1575.37 1424.63 1255.93 1648.4 1196.1 TRUE FALSE FALSE 1041.691734 1288.818007 1137.865577 1265.918383 1125.979069 1441.139613 1264.326883 1223.805129 1636.92865 1247.669725 0.834909843 1.032980108 0.911992617 1.014626193 0.90246565 1.155064986 1.013350615 0.980872666 1.311988756 1 10.28502037 -5.75946036 1.272951577 0.929130036 1.037704495 0 0.142770952 0.527923952 1.697468167 0.013721498 0.036813994 1.74E-06 5.75946036 0.108574459 RGQS(ph)PLPR ddPTM_HeLa_SAHA_4h_R1 4 RGQSPLPR 8 1 H3BTS1;H3BN52;Q9BQ65-3;Q9BQ65-2;Q9BQ65 H3BTS1 USB1 U6 snRNA phosphodiesterase 1 0 RGQS(1)PLPR;RGQS(1)PLPR;RGQS(1)PLPR;RGQS(1)PLPR ;;; 96.113 0.0072003 45127100 5013.2 4591.15 3855.65 4984.1 5135.6 5967.4 4879.19 5502.9 5194.77 4903.4 TRUE FALSE FALSE 5540.511377 4739.906272 4381.077903 5080.574463 4742.111437 5458.943948 4330.1707 5362.143786 5158.619173 5114.809571 1.083229258 0.926702394 0.856547608 0.99330667 0.927133527 1.067281953 0.846594705 1.048356486 1.008565246 1 12.32046481 -7.252948984 24.47109632 1.039302706 0.949562863 0.200587635 0.070873465 469.578112 1353423.296 0.011388855 0.013830096 5.59E-08 7.252948984 -0.089739842 RGQS(ph)SPPPAPPICLR ddPTM_HeLa_SAHA_4h_R1 1 RGQSSPPPAPPICLR 15 1 O43379;O43379-4;H7C3R4;O43379-3;O43379-2 O43379 WDR62 WD repeat-containing protein 62 1 0 RGQS(0.769)S(0.231)PPPAPPICLR 161.94 1.60E-05 7692900 983.09 783.08 773.23 820.75 884.15 1010.4 949.19 1162.8 867.53 766.06 TRUE FALSE FALSE 1086.495917 808.4523058 878.6017576 836.6368031 816.406618 924.3082356 842.3846431 1133.05726 861.4927881 799.0885956 1.359668906 1.011717988 1.099504814 1.046988792 1.021672218 1.156703075 1.054181786 1.417936967 1.07809421 1 9.642211655 -9.807832647 1.830914457 0.999485043 1.174134811 0.051453713 0.135992276 0.541876214 3.288374568 0.110676044 0.022977285 1.56E-10 9.807832647 0.174649767 RGQSS(ph)PPPAPPICLR ddPTM_HeLa_SAHA_4h_R1 1 RGQSSPPPAPPICLR 15 1 O43379;O43379-4;H7C3R4;O43379-3;O43379-2 O43379 WDR62 WD repeat-containing protein 62 1 0 RGQS(0.308)S(0.692)PPPAPPICLR 174.59 1.36E-06 6384400 925.15 964.81 1085.5 822.36 1277.3 1212.5 1259.9 1249.5 895.79 948.73 TRUE FALSE FALSE 1022.461522 996.070477 1233.426287 838.277967 1179.43355 1109.188179 1118.132736 1217.539599 889.5561245 989.6343933 1.033170966 1.006503496 1.246345413 0.84705824 1.191787147 1.120806013 1.129844257 1.230292326 0.898873494 1 9.95075183 -1 0.250577593 1.002090409 2.363567979 0.330983236 0.1057192 41.02234665 0.512183183 0.049278668 23.84078159 0.1 1 1.36147757 RGRS(ph)PQPPAEEDEDDFDDTLVAIDTYNCDLHFK ddPTM_HeLa_SAHA_4h_R1 1 RGRSPQPPAEEDEDDFDDTLVAIDTYNCDLHFK 33 2 M0R3F1;A0A0A0MRA5;B7Z4B8;Q9BUJ2-3;Q9BUJ2-4;Q9BUJ2-2;Q9BUJ2;M0QYI8;M0QYZ0;M0R0K8 M0R3F1 HNRNPUL1 Heterogeneous nuclear ribonucleoprotein U-like protein 1 1 0 RGRS(1)PQPPAEEDEDDFDDTLVAIDTYNCDLHFK 105.55 1.79E-13 27522000 934.24 1203.9 1138.9 1232.7 1551.9 1375.5 1733.4 1317.8 1000.1 1288 TRUE FALSE FALSE 1032.50765 1242.90715 1294.103361 1256.560691 1432.993757 1258.299662 1538.35327 1284.092584 993.1402227 1343.531983 0.768502471 0.925104252 0.96320994 0.935266675 1.066587007 0.936561003 1.14500681 0.955758851 0.739201028 1 10.39181495 -6.180145122 1.382515448 0.891637885 1.029006553 0.363348302 0.091777396 0.426957097 1.603609322 0.01654997 0.03270579 6.60E-07 6.180145122 0.137368668 RGRS(ph)RSY(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 RGRSRSYSR 9 3 A0A087X0H9;Q5T8P6-3;Q5T8P6-2;Q5T8P6 A0A087X0H9 RBM26 RNA-binding protein 26 2 0 RGRS(0.985)RS(0.298)Y(0.584)S(0.133)R 72.006 0.0050273 0 1794.2 1867.9 1628.1 2069.6 2127.9 2542.5 2357.3 2430.6 2642.8 1853.1 TRUE FALSE FALSE 1982.922188 1928.421186 1849.968989 2109.660101 1964.860762 2325.864696 2092.0504 2368.428771 2624.40854 1932.99621 1.025828286 0.997633195 0.957047396 1.091393811 1.016484539 1.203243278 1.082283757 1.225263019 1.357689439 1 10.91662309 -5.397666098 1.389363686 1.008983211 1.170700352 0 0.121014409 0.191269914 0.696370314 0.006808145 0.023651679 4.00E-06 5.397666098 0.161717142 RGS(ph)ASGSEPAGDSDR ddPTM_HeLa_SAHA_4h_R1 3 RGSASGSEPAGDSDR 15 1 A0A0C4DG27;P50747 A0A0C4DG27 HLCS Biotin--protein ligase;Biotin--[methylmalonyl-CoA-carboxytransferase] ligase;Biotin--[propionyl-CoA-carboxylase [ATP-hydrolyzing]] ligase;Biotin--[methylcrotonoyl-CoA-carboxylase] ligase;Biotin--[acetyl-CoA-carboxylase] ligase 1 0 RGS(1)ASGSEPAGDSDR;RGS(1)ASGSEPAGDSDR;RGS(0.982)AS(0.017)GS(0.001)EPAGDSDR ;; 193.31 8.46E-09 11003900 1080.38 1374.77 1225.31 1762.16 1878.57 2547.48 2404.65 2031.51 1662.07 2314.09 TRUE FALSE FALSE 1194.019325 1419.31345 1392.288866 1796.269155 1734.634372 2330.420372 2134.072453 1979.546916 1650.50352 2413.861745 0.494651083 0.587984566 0.576788985 0.744147488 0.718613805 0.965432414 0.88409059 0.820074687 0.683760585 1 11.23712733 -5.278458421 23.15437783 0.724908546 0.889288359 0.295833207 0.134944353 502.9494352 684262.305 0.029357381 0.065846777 5.27E-06 5.278458421 0.164379814 RGS(ph)DASDFDISEIQSVCSDVETVPQTHRPTPR ddPTM_HeLa_SAHA_4h_R1 1 RGSDASDFDISEIQSVCSDVETVPQTHRPTPR 32 2 Q03001;F8W9J4;Q03001-14;F6QMI7;E9PHM6;Q03001-8;A0A494C073;A0A0U1RQJ2;H0YC65;A0A494C1U5 Q03001 DST Dystonin 1 0 RGS(0.548)DAS(0.448)DFDIS(0.002)EIQS(0.001)VCSDVETVPQTHRPTPR 40.453 0.018415 3490900 327.03 488.72 400.04 566.27 710.59 700.47 759.73 733.11 538.92 473.06 TRUE FALSE FALSE 361.4285159 504.5548487 454.5553679 577.2309747 656.1447477 640.7860153 674.2431809 714.3581077 535.1696118 493.4559317 0.73244335 1.022492215 0.921167097 1.169772086 1.329692695 1.298567864 1.366369594 1.447663432 1.08453375 1 8.94677744 -6.070105613 1.363376836 0.878494952 1.3781914 0.766598487 0.103426848 0.131791374 0.484233681 0.018039699 0.038053994 8.51E-07 6.070105613 0.499696448 RGS(ph)DASDFDLLETQSACSDTSESSAAGGQGNSR ddPTM_HeLa_SAHA_4h_R1 1 RGSDASDFDLLETQSACSDTSESSAAGGQGNSR 33 1 H3BPE1;H3BQK9;H0Y390;A0A590UJG2;Q9UPN3-4;Q9UPN3-3;Q9UPN3-2;Q9UPN3;Q9UPN3-5;H0Y6T5;H0Y4F5;H0Y314 H3BPE1 MACF1 "Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5" 1 0 RGS(0.661)DAS(0.279)DFDLLET(0.031)QS(0.017)ACS(0.007)DT(0.001)S(0.001)ES(0.001)S(0.001)AAGGQGNSR 45.227 0.013905 6081600 0 81.512 0 0 0 66.832 66.304 141.84 183.11 0 TRUE FALSE FALSE 0 84.15304228 0 0 0 61.13753761 58.84329942 138.2119382 181.8357226 0 0 RGS(ph)FDATGSGFSMTFSSSSYSSSGYGR ddPTM_HeLa_SAHA_4h_R1 3 RGSFDATGSGFSMTFSSSSYSSSGYGR 27 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 RGS(0.925)FDAT(0.047)GS(0.018)GFS(0.008)MT(0.001)FSSSSYSSSGYGR;RGS(0.973)FDAT(0.022)GS(0.005)GFSMTFSSSSYSSSGYGR;RGS(0.725)FDAT(0.042)GS(0.042)GFS(0.176)MT(0.014)FS(0.001)SSSYSSSGYGR ;; 98.267 2.68E-06 28861100 577.97 761.03 883.14 630.547 1341.93 988.12 1235.38 788.58 839.14 912.38 TRUE FALSE FALSE 638.7635364 785.6878713 1003.48972 642.752149 1239.111613 903.926617 1096.371791 768.4092655 833.3003564 951.7171669 0.671169501 0.825547651 1.054399096 0.675360466 1.301974637 0.949784924 1.151993291 0.807392461 0.875575628 1 9.894389084 -5.77535794 24.99999237 0.846394174 1.05251537 0.266208508 0.16458066 256.4012763 460538.2157 0.02620933 0.047681599 1.68E-06 5.77535794 0.206121196 RGS(ph)FSSENYWR ddPTM_HeLa_SAHA_4h_R1 3 RGSFSSENYWR 11 1 Q6P6C2-3;Q6P6C2;K7ER58;Q6P6C2-1 Q6P6C2-3 ALKBH5 RNA demethylase ALKBH5 1 0 RGS(0.861)FS(0.069)S(0.069)ENYWR;RGS(0.992)FS(0.004)S(0.004)ENYWR;RGS(0.979)FS(0.021)S(0.001)ENYWR ;; 109.95 0.0021933 65377000 2558.59 2604.53 2580.16 3191.92 3241.45 3021.72 3400.36 2722.44 3027.68 2760.97 TRUE FALSE FALSE 2827.714235 2688.918481 2931.770768 3253.704227 2993.090801 2764.252456 3017.742544 2652.803927 3006.610128 2880.008929 0.981842177 0.933649356 1.017972805 1.12975491 1.039264417 0.959806905 1.047824024 0.921109619 1.043958614 1 11.49185757 -6.550607681 24.97660934 0.986326887 1.024395162 0.054770918 0.057457492 379.984607 342266.5377 0.008470579 0.011979286 2.81E-07 6.550607681 0.038068275 RGS(ph)GDTSISIDTEASIR ddPTM_HeLa_SAHA_4h_R1 8 RGSGDTSISIDTEASIR 17 1 Q32MZ4-3;Q32MZ4-2;Q32MZ4;Q32MZ4-4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 RGS(0.891)GDT(0.079)S(0.03)ISIDTEASIR;RGS(0.981)GDT(0.015)S(0.003)ISIDTEASIR;RGS(0.993)GDT(0.006)S(0.001)ISIDTEASIR;RGS(0.998)GDT(0.002)SISIDTEASIR;RGS(0.981)GDT(0.015)S(0.004)ISIDTEASIR;RGS(0.971)GDT(0.025)S(0.004)ISIDTEASIR;RGS(0.998)GDT(0.002)SISIDTEASIR;RGS(0.996)GDT(0.003)S(0.001)ISIDTEASIR ;;;;;;; 116.27 0.00044821 23147460 2471.44 3595.425 2677.4 3484.55 3826.61 3959.8 4023.2 4322.73 3655.01 3433.16 TRUE FALSE FALSE 2731.397399 3711.919129 3042.262129 3551.998504 3533.415968 3622.402763 3570.498948 4212.160826 3629.574488 3581.180329 0.762708701 1.036507181 0.849513805 0.991851339 0.986662397 1.011510851 0.997017357 1.176193444 1.013513466 1 11.80621945 -3.197490772 0.496411334 0.897298643 1.778058549 0.322650078 0.085866966 8.318290454 0.633902826 0.020370806 5.431796926 0.000634613 3.197490772 0.880759905 RGS(ph)GDTSSLIDPDTSLSELR ddPTM_HeLa_SAHA_4h_R1 6 RGSGDTSSLIDPDTSLSELR 20 1 C9JSU1;Q9Y608-4;Q9Y608;Q9Y608-2;Q9Y608-5 C9JSU1 LRRFIP2 Leucine-rich repeat flightless-interacting protein 2 1 0 RGS(0.93)GDT(0.065)S(0.004)SLIDPDTSLSELR;RGS(0.911)GDT(0.064)S(0.013)S(0.013)LIDPDTSLSELR;RGS(0.998)GDT(0.002)SSLIDPDTSLSELR;RGS(0.969)GDT(0.027)S(0.001)S(0.003)LIDPDTSLSELR;RGS(0.988)GDT(0.009)S(0.002)S(0.001)LIDPDTSLSELR;RGS(0.553)GDT(0.121)S(0.163)S(0.163)LIDPDTSLSELR ;;;;; 200.73 2.67E-20 437429700 5606.13 7345.69 5916.45 7539.36 7731.4 8908.01 8307.97 7122.66 9348.54 7418.51 TRUE FALSE FALSE 6195.808475 7583.695176 6722.712994 7685.295215 7139.021802 8148.997433 7373.13535 6940.472671 9283.482749 7738.358271 0.800661879 0.980013449 0.868751841 0.993142853 0.92254992 1.053065411 0.952803565 0.896892135 1.199670838 1 12.91781181 -6.254380904 24.81796774 0.90768689 0.965765585 0 0.112750918 958.0287102 3368474.101 0.012721139 0.020799309 5.57E-07 6.254380904 0.058078696 RGS(ph)GDTSSLIDPDTSLSELRDIYDLK ddPTM_HeLa_SAHA_4h_R1 2 RGSGDTSSLIDPDTSLSELRDIYDLK 26 2 C9JSU1;Q9Y608-4;Q9Y608 C9JSU1 LRRFIP2 Leucine-rich repeat flightless-interacting protein 2 1 0 RGS(0.578)GDT(0.141)S(0.141)S(0.141)LIDPDTSLSELRDIYDLK;RGS(0.87)GDT(0.086)S(0.034)S(0.01)LIDPDTSLSELRDIYDLK ; 75.225 0.00010914 21648000 4295.4 4656.8 5349.3 6111.5 6118.5 6283 6864.7 4950.2 5571.7 5685.9 TRUE FALSE FALSE 4747.20988 4807.683375 6078.274746 6229.79692 5649.701852 5747.653053 6092.265889 4823.581052 5532.926086 5931.046975 0.80039998 0.810596071 1.024823235 1.050370524 0.952564004 0.969078997 1.027182201 0.813276488 0.932875108 1 12.53407108 -6.743754584 24.96268348 0.895974683 0.97777645 0.209632443 0.081426499 372.7759311 526184.4049 0.015587946 0.02201672 1.80E-07 6.743754584 0.081801768 RGS(ph)IGENQGEEK ddPTM_HeLa_SAHA_4h_R1 3 RGSIGENQGEEK 12 1 E7EX44;Q05682-3;Q05682-6;Q05682-2 E7EX44 CALD1 Caldesmon 1 0 RGS(1)IGENQGEEK;RGS(1)IGENQGEEK;RGS(1)IGENQGEEK ;; 130.02 0.00055156 141942000 10359.7 12237.8 9869 12906.7 12727 11528.7 13083.4 11597.3 14100.9 10709.3 TRUE FALSE FALSE 11449.38078 12634.31275 11213.89592 13156.52784 11751.86001 10546.3899 11611.2214 11300.65786 14002.77069 11171.03033 1.024917168 1.130989029 1.00383721 1.177736292 1.05199428 0.944083902 1.039404697 1.011603901 1.253489631 1 13.44747464 -2.937607483 9.754056786 1.029304725 0.638781967 0 0.096098827 0 0 0.008530933 0 0.001154496 2.937607483 -0.390522758 RGS(ph)IGENQGEEKGTK ddPTM_HeLa_SAHA_4h_R1 1 RGSIGENQGEEKGTK 15 2 E7EX44;Q05682-3;Q05682-6;Q05682-2 E7EX44 CALD1 Caldesmon 1 0 RGS(1)IGENQGEEKGTK 54.871 0.019684 14444000 3753.8 1966.5 3313.5 2828.3 3322.2 2219.4 3578.1 3579.2 1231 2894.6 TRUE FALSE FALSE 4148.641907 2030.21589 3765.046524 2883.045836 3067.653754 2030.294634 3175.482771 3487.649247 1222.433371 3019.400372 1.373995296 0.672390422 1.246951732 0.954840525 1.015981114 0.672416501 1.051693177 1.155080088 0.404859648 1 11.56004636 -7.280221032 24.99859144 1.176608878 0.971151653 0 0.310307595 1068.83568 1422628.665 0.035954722 0.041152122 5.25E-08 7.280221032 -0.205457225 RGS(ph)IGENQIKDEK ddPTM_HeLa_SAHA_4h_R1 1 RGSIGENQIKDEK 13 2 Q05682-5;Q05682-4;E9PGZ1;C9J813 Q05682-5 CALD1 Caldesmon 1 0 RGS(1)IGENQIKDEK 74.993 0.017665 595430000 4845.1 4361.1 4434.9 4163.1 5541.6 4662.3 5318.9 4718.6 4259 3907 TRUE FALSE FALSE 5354.729848 4502.402501 5039.265076 4243.68282 5117.003805 4265.045811 4720.403373 4597.905044 4229.361272 4075.44989 1.313899077 1.104762081 1.236492955 1.041279597 1.255567837 1.04652147 1.158253322 1.128195701 1.037765495 1 11.99274361 -4.232525646 18.07722274 1.14772397 1.128194663 0 0.102257802 2233.635117 1395478.812 0.016823109 1.031040709 5.85E-05 4.232525646 -0.019529307 RGS(ph)IGENQVEVMVEEK ddPTM_HeLa_SAHA_4h_R1 2 RGSIGENQVEVMVEEK 16 1 Q05682 Q05682 CALD1 Caldesmon 1 0 RGS(1)IGENQVEVMVEEK;RGS(1)IGENQVEVMVEEK ; 163.68 1.54E-06 30031000 9344.5 11622 11675.7 11599.2 13535.2 13483 14140.1 12984.1 13911.4 11438.8 TRUE FALSE FALSE 10327.39738 11998.56043 13266.80359 11823.71929 12498.1359 12334.17255 12549.01873 12651.98552 13814.58943 11931.98265 0.865522327 1.005579775 1.111869166 0.990926624 1.04744838 1.033706879 1.051712788 1.060342266 1.157778204 1 13.54254616 -7.009027081 24.58391416 0.936446882 1.047052585 0 0.081107802 227.8614539 620548.48 0.008976554 0.011457385 9.79E-08 7.009027081 0.110605703 RGS(ph)LCATCGLPVTGR ddPTM_HeLa_SAHA_4h_R1 1 RGSLCATCGLPVTGR 15 1 O43294;O43294-2 O43294 TGFB1I1 Transforming growth factor beta-1-induced transcript 1 protein 1 0 RGS(0.983)LCAT(0.017)CGLPVTGR 91.889 0.0038194 12668000 960.44 723.37 736.67 790.18 996.63 881.74 1069.5 832.85 617.23 600.91 TRUE FALSE FALSE 1061.463486 746.8076626 837.0595512 805.4750765 920.2684247 806.6107915 949.1570452 811.546903 612.9346462 626.8181709 1.693415308 1.191426314 1.335410475 1.285021899 1.468158499 1.286833772 1.514246219 1.294708642 0.977850794 1 9.291903193 -9.619680157 1.440652692 1.000696991 1.422239963 0.539414357 0.141706193 0.282703586 1.056445765 0.113562108 0.026201848 2.40E-10 9.619680157 0.421542972 RGS(ph)LEMSSDGEPLSR ddPTM_HeLa_SAHA_4h_R1 4 RGSLEMSSDGEPLSR 15 1 Q6ZN18-2;Q6ZN18 Q6ZN18-2 AEBP2 Zinc finger protein AEBP2 1 0 RGS(0.997)LEMS(0.002)S(0.002)DGEPLSR;RGS(0.361)LEMS(0.318)S(0.318)DGEPLS(0.002)R;RGS(0.782)LEMS(0.161)S(0.05)DGEPLS(0.008)R;RGS(0.84)LEMS(0.079)S(0.079)DGEPLS(0.003)R ;;; 144.18 0.00027407 45914000 2926.54 3024.07 2932.96 3464.47 3658.76 4361.41 4351.07 4415.65 3366.32 3199.05 TRUE FALSE FALSE 3234.366905 3122.051852 3332.648515 3531.529827 3378.426599 3989.793331 3861.476152 4302.704067 3342.893505 3336.976701 0.96925067 0.935592943 0.998702962 1.058302213 1.012421393 1.195631162 1.157178038 1.28940189 1.001773103 1 11.7043259 -4.985555227 0.852142523 0.981285079 1.299675411 0.875746694 0.038154013 0.236429636 0.227626355 0.005924025 0.055755503 1.03E-05 4.985555227 0.318390332 RGS(ph)LGEEGSEPPPPPPLPLAR ddPTM_HeLa_SAHA_4h_R1 3 RGSLGEEGSEPPPPPPLPLAR 21 1 Q14934-2;Q14934-9;Q14934-3;Q14934-4;Q14934-5;Q14934-6;Q14934-7;Q14934;Q14934-8;Q14934-10;Q14934-18;Q14934-11;Q14934-12;Q14934-13;Q14934-14;Q14934-15;Q14934-16;Q14934-17 Q14934-2 NFATC4 "Nuclear factor of activated T-cells, cytoplasmic 4" 1 0 RGS(0.96)LGEEGS(0.04)EPPPPPPLPLAR;RGS(0.915)LGEEGS(0.085)EPPPPPPLPLAR;RGS(0.972)LGEEGS(0.028)EPPPPPPLPLAR ;; 204.21 8.02E-21 21977200 1608.01 1241.13 1368.2 1640.95 1488.5 1689.02 1912.39 1744.68 1683.4 1546.7 TRUE FALSE FALSE 1777.14787 1281.343426 1554.651171 1672.71296 1374.451452 1545.105994 1697.202844 1700.053612 1671.685082 1613.385806 1.10150211 0.794195301 0.963595418 1.036771833 0.85190501 0.957679179 1.05195102 1.053717967 1.03613474 1 10.65587575 RGS(ph)LPDQK ddPTM_HeLa_SAHA_4h_R1 4 RGSLPDQK 8 1 X6RKU3;Q6P3S6 X6RKU3 FBXO42 F-box only protein 42 1 0 RGS(1)LPDQK;RGS(1)LPDQK;RGS(1)LPDQK;RGS(1)LPDQK ;;; 117.25 0.0021182 18093800 10312.8 11828.9 11916.5 18138.8 17113.1 21037.9 22808.9 17086.2 9598.5 14456.9 TRUE FALSE FALSE 11397.54762 12212.16412 13540.41856 18489.9027 15801.89798 19245.35256 20242.38254 16649.15974 9531.703257 15080.20771 0.755795135 0.809814053 0.897893373 1.226103981 1.047856786 1.276199435 1.342314571 1.104040479 0.632067107 1 13.88036868 -6.282036824 6.572152124 0.875402812 1.203445091 0.693155262 0.123673162 0.083724655 15.68645343 0.018466211 0.028866327 5.22E-07 6.282036824 0.328042279 RGS(ph)LSNAGDPEIVK ddPTM_HeLa_SAHA_4h_R1 4 RGSLSNAGDPEIVK 14 1 O43847;O43847-2;F5H7V1 O43847 NRD1 Nardilysin 1 0 RGS(0.971)LS(0.029)NAGDPEIVK;RGS(0.756)LS(0.244)NAGDPEIVK;RGS(0.831)LS(0.169)NAGDPEIVK;RGS(0.99)LS(0.01)NAGDPEIVK ;;; 148.41 0.00023512 154039000 17793.9 22737.3 16688.3 22216.7 24308.7 26648 24345.2 21081.3 24342.4 19432.9 TRUE FALSE FALSE 19665.54404 23474.00344 18962.49462 22646.73635 22446.17266 24377.44048 21605.81402 20542.07087 24172.99926 20270.74742 0.970144003 1.158023577 0.935461047 1.117212695 1.107318452 1.202592089 1.065861735 1.013384975 1.192506559 1 14.30711166 -7.284059789 24.68890655 0.98590133 1.085692685 0 0.095750938 594.297547 648640.5308 0.011701804 0.013387346 5.20E-08 7.284059789 0.099791355 RGS(ph)PSAAFTFPDTDDFGK ddPTM_HeLa_SAHA_4h_R1 3 RGSPSAAFTFPDTDDFGK 18 1 Q9ULT0;Q9ULT0-4;H7C055;Q9ULT0-3 Q9ULT0 TTC7A Tetratricopeptide repeat protein 7A 1 0 RGS(0.641)PS(0.204)AAFT(0.155)FPDT(0.001)DDFGK;RGS(0.948)PS(0.052)AAFT(0.001)FPDTDDFGK;RGS(0.786)PS(0.143)AAFT(0.07)FPDTDDFGK ;; 114.92 0.00043252 28567800 4622.2 5734.7 4889.4 6021.2 6378.1 6919.9 6592.1 5983.5 6351.7 5964.8 TRUE FALSE FALSE 5108.384203 5920.508043 5555.701969 6137.749033 5889.411356 6330.28559 5850.339559 5830.450734 6307.498003 6221.971719 0.821023372 0.95154853 0.892916622 0.986463666 0.946550647 1.017408287 0.940270998 0.937074451 1.013745849 1 12.60315612 -6.260298264 24.98841175 0.91507647 0.965974116 0.001481258 0.057055514 184.4664003 4039476.337 0.010572886 0.016913336 5.49E-07 6.260298264 0.050897646 RGS(ph)PTTGFIEQK ddPTM_HeLa_SAHA_4h_R1 3 RGSPTTGFIEQK 12 1 J3KPS2;A0A494C1T9;Q6ZRV2 J3KPS2 FAM83H Protein FAM83H 1 0 RGS(0.99)PT(0.005)T(0.005)GFIEQK;RGS(1)PTTGFIEQK;RGS(0.519)PT(0.418)T(0.063)GFIEQK ;; 136.33 0.0020949 35655700 3935.1 4418.9 4076.9 5221.3 4678.7 5752 5274.6 5355.8 4619 4053.7 TRUE FALSE FALSE 4349.011873 4562.075259 4632.4787 5322.365812 4320.219017 5261.89724 4681.088126 5218.806391 4586.856003 4228.474845 1.028506029 1.078893792 1.095543634 1.25869634 1.021696752 1.244396013 1.107039369 1.234205377 1.084754237 1 12.04592168 -6.882427141 1.282770151 1.010571527 1.166878374 0.383208991 0.071839055 0.226014814 0.739024045 0.011266654 0.015887907 1.31E-07 6.882427141 0.156306847 RGS(ph)PVPPVPER ddPTM_HeLa_SAHA_4h_R1 3 RGSPVPPVPER 11 1 J3KPS2;A0A494C1T9;Q6ZRV2 J3KPS2 FAM83H Protein FAM83H 1 0 RGS(1)PVPPVPER;RGS(1)PVPPVPER;RGS(1)PVPPVPER ;; 120.53 0.0055418 43043900 3873.21 4494.1 4126.87 4796.9 4711.3 5633.5 5217 4848.5 5178.5 4448.4 TRUE FALSE FALSE 4280.611999 4639.711789 4689.258352 4889.750936 4350.321212 5153.494107 4629.96943 4724.482391 5142.462397 4640.192294 0.922507458 0.999896447 1.010574143 1.053781961 0.937530373 1.110620806 0.997796888 1.018165216 1.108243381 1 12.17996888 -7.018686171 4.870194263 0.963189369 1.021159515 0 0.063884945 0.204474069 13.0937221 0.007709453 0.009787545 9.58E-08 7.018686171 0.057970147 RGS(ph)SAAASPGS(ph)PPPGR ddPTM_HeLa_SAHA_4h_R1 1 RGSSAAASPGSPPPGR 16 1 Q86UX6 Q86UX6 STK32C Serine/threonine-protein kinase 32C 2 0 RGS(0.909)S(0.087)AAAS(0.007)PGS(0.997)PPPGR 87.356 0.0023828 0 172.02 335.18 223.3 221.77 271 216.5 258.5 199.09 124.8 216.84 TRUE FALSE FALSE 190.1138529 346.0400519 253.7301611 226.062679 250.2360385 198.052982 229.4128997 193.9975661 123.9315066 226.1890336 0.84050871 1.529871039 1.121761551 0.999441376 1.106313753 0.875608242 1.014252973 0.85767892 0.547911208 1 7.821385174 RGS(ph)SGSVDETLFALPAASEPVIR ddPTM_HeLa_SAHA_4h_R1 3 RGSSGSVDETLFALPAASEPVIR 23 1 Q9NQC3-5;Q9NQC3 Q9NQC3-5 RTN4 Reticulon-4 1 0 RGS(0.33)S(0.33)GS(0.33)VDET(0.011)LFALPAASEPVIR;RGS(0.592)S(0.203)GS(0.203)VDET(0.001)LFALPAASEPVIR;RGS(0.59)S(0.205)GS(0.205)VDETLFALPAASEPVIR ;; 135.78 8.97E-07 12166300 784.57 2160.86 1107 1056.75 1641.83 1714.89 2018.81 1437.79 1691.02 1528.68 TRUE FALSE FALSE 867.0946723 2230.873282 1257.856195 1077.204924 1516.03334 1568.771724 1791.648186 1401.013414 1679.252054 1594.588876 0.543773185 1.399027245 0.7888279 0.675537714 0.950736182 0.983809525 1.12358001 0.878604783 1.053094048 1 10.63896879 -5.53998309 23.33804618 0.82384446 1.001342443 0 0.233751217 202.3647888 276115.9416 0.036597774 0.073215862 2.88E-06 5.53998309 0.177497983 RGS(ph)SPDVHALLEITEESDAVLVDKSDSD ddPTM_HeLa_SAHA_4h_R1 1 RGSSPDVHALLEITEESDAVLVDKSDSD 28 2 Q6NZI2-3;Q6NZI2-2;Q6NZI2 Q6NZI2-3 PTRF Polymerase I and transcript release factor 1 0 RGS(0.5)S(0.5)PDVHALLEITEESDAVLVDKSDSD 61.522 0.0010535 4114100 814.1 1410.4 685.41 1424.8 2066.5 1328.8 1906.4 1310.3 1656.9 1282.7 TRUE FALSE FALSE 899.7307732 1456.097885 778.8141053 1452.379064 1908.165216 1215.578764 1691.886855 1276.784423 1645.369498 1338.003474 0.672442778 1.088261662 0.582071811 1.085482282 1.426128746 0.908501949 1.264486144 0.95424597 1.229719899 1 10.38586615 -6.024684345 24.11596953 0.845017067 1.146542962 0.150712415 0.227118134 398.2998258 389128.6589 0.029285249 0.048740128 9.45E-07 6.024684345 0.301525895 RGS(ph)SPGSLEIPK ddPTM_HeLa_SAHA_4h_R1 2 RGSSPGSLEIPK 12 1 A0A1B0GUI1;Q6GYQ0-3;Q6GYQ0-4;Q6GYQ0;Q6GYQ0-7;Q6GYQ0-5;Q6GYQ0-6;Q6GYQ0-2 A0A1B0GUI1 RALGAPA1 Ral GTPase-activating protein subunit alpha-1 1 0 RGS(0.573)S(0.427)PGSLEIPK;RGS(0.5)S(0.5)PGSLEIPK ; 107.63 0.00189 38114000 6535.8 7884.9 6529 7263.7 7838.8 9810.9 8365.1 8074 8432.3 7753.5 TRUE FALSE FALSE 7223.265431 8140.375933 7418.738118 7404.299417 7238.192837 8974.956125 7423.836932 7867.478771 8373.618938 8087.79133 0.893107294 1.006501726 0.917276153 0.915490907 0.894952966 1.10969185 0.917906587 0.972759861 1.035340626 1 12.98153006 RGSDASDFDLLET(ph)QSACSDTSESSAAGGQGNSR ddPTM_HeLa_SAHA_4h_R1 2 RGSDASDFDLLETQSACSDTSESSAAGGQGNSR 33 1 H3BPE1;H3BQK9;H0Y390;A0A590UJG2;Q9UPN3-4;Q9UPN3-3;Q9UPN3-2;Q9UPN3;Q9UPN3-5;H0Y6T5;H0Y4F5;H0Y314 H3BPE1 MACF1 "Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5" 1 0 RGS(0.006)DAS(0.001)DFDLLET(0.762)QS(0.232)ACSDTSESSAAGGQGNSR;RGS(0.06)DAS(0.075)DFDLLET(0.641)QS(0.22)ACS(0.003)DTSESSAAGGQGNSR ; 135.92 6.52E-19 15299100 608.79 761.07 444.95 662.53 600.58 904.77 851.72 878.1 876.04 800.56 TRUE FALSE FALSE 672.8253254 785.7291674 505.5854688 675.3542262 554.5636901 827.6785059 755.882224 855.6394735 869.9435663 835.0760594 0.805705442 0.940907308 0.605436431 0.80873379 0.664087641 0.991141461 0.905165722 1.0246246 1.04175369 1 9.705763795 RGSFDATGS(ph)GFSMTFSSSSYSSSGYGR ddPTM_HeLa_SAHA_4h_R1 1 RGSFDATGSGFSMTFSSSSYSSSGYGR 27 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 RGS(0.146)FDAT(0.189)GS(0.603)GFS(0.06)MT(0.002)FSSSSYSSSGYGR 71.418 0.00027936 3486100 0 189.81 73.448 54.53 0 75.054 76.267 135.93 166.67 0 TRUE FALSE FALSE 0 195.9599685 83.45711094 55.585507 0 68.65897696 67.68523644 132.4531074 165.5101299 0 0 RGSFDATGSGFS(ph)MTFSSSSYSSSGYGR ddPTM_HeLa_SAHA_4h_R1 1 RGSFDATGSGFSMTFSSSSYSSSGYGR 27 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 RGS(0.187)FDAT(0.209)GS(0.163)GFS(0.419)MT(0.023)FSSSSYSSSGYGR 65.056 0.00053541 15102000 311.15 311.53 199.72 400.75 304.06 243.67 359.39 262.05 285.61 215.65 TRUE FALSE FALSE 343.8781846 321.6237764 226.9368015 408.5070957 280.7629885 222.9079451 318.9504913 255.3471404 283.6224168 224.9477269 1.528702643 1.429771178 1.008842386 1.816008997 1.248125475 0.990932197 1.41788715 1.135139901 1.260836998 1 7.813445978 -3.066147254 10.92540272 1.274505263 1.278017118 0 0.25478569 0 0 0.036456611 0 0.000858722 3.066147254 0.003511856 RGSGDT(ph)SISIDTEASIR ddPTM_HeLa_SAHA_4h_R1 1 RGSGDTSISIDTEASIR 17 1 Q32MZ4-3;Q32MZ4-2;Q32MZ4;Q32MZ4-4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 RGS(0.062)GDT(0.693)S(0.205)IS(0.034)IDT(0.005)EAS(0.001)IR 120.82 7.27E-05 0 389.59 443.64 648.41 636.73 512.29 772.29 570.02 446.45 347.5 583.07 TRUE FALSE FALSE 430.5688637 458.0142271 736.771938 649.0548299 473.0384509 706.4865472 505.8798494 435.0304555 345.0817192 608.2090012 0.707929121 0.75305401 1.211379537 1.067157554 0.777756413 1.161585156 0.831753309 0.715264744 0.567373581 1 9.248423357 -4.519684452 24.98890258 0.90445186 0.744386804 0.080386342 0.196974316 211.8805922 1657503.148 0.025725923 0.100459101 3.02E-05 4.519684452 -0.160065056 RGSHRIFSSPLNHIY(ph)LHKQS(ph)S(ph)S(ph)QQR ddPTM_HeLa_SAHA_4h_R1 1 RGSHRIFSSPLNHIYLHKQSSSQQR 25 3 Q6UB28 Q6UB28 METAP1D "Methionine aminopeptidase 1D, mitochondrial" 4 0 RGS(0.005)HRIFS(0.021)S(0.023)PLNHIY(0.974)LHKQS(0.992)S(0.992)S(0.992)QQR 40.544 0.02362 21689000 1581.3 1375 2854 6037.3 1612.7 1219.9 2331.3 4036.4 1828.3 2473.8 TRUE FALSE FALSE 1747.628389 1419.550902 3242.928257 6154.160672 1489.135274 1115.957657 2068.975988 3933.154733 1815.576711 2580.457624 0.677255217 0.550115952 1.256726027 2.384910573 0.577081856 0.43246502 0.801786462 1.524208224 0.703587106 1 11.33341122 -6.742948679 24.98644841 0.821023509 1.14217176 0.128510408 0.527468589 534.8764772 722775.8753 0.086839466 0.122681598 1.81E-07 6.742948679 0.321148251 RGSLGEEGS(ph)EPPPPPPLPLAR ddPTM_HeLa_SAHA_4h_R1 1 RGSLGEEGSEPPPPPPLPLAR 21 1 Q14934-2;Q14934-9;Q14934-3;Q14934-4;Q14934-5;Q14934-6;Q14934-7;Q14934;Q14934-8;Q14934-10;Q14934-18;Q14934-11;Q14934-12;Q14934-13;Q14934-14;Q14934-15;Q14934-16;Q14934-17 Q14934-2 NFATC4 "Nuclear factor of activated T-cells, cytoplasmic 4" 1 0 RGS(0.152)LGEEGS(0.848)EPPPPPPLPLAR 131.31 1.27E-05 7694200 234.13 343.28 369.83 342.58 431.41 431.69 395.6 496.04 391.03 346.85 TRUE FALSE FALSE 258.7568676 354.4024972 420.2285064 349.2111313 398.355459 394.9075834 351.0860468 483.3520151 388.3087904 361.8044009 0.715184412 0.979541698 1.161479809 0.965193155 1.10102436 1.091494693 0.97037528 1.335948412 1.073256128 1 8.499066147 -7.001199668 8.357107262 0.864498781 1.089640204 0.221227044 0.134132564 0.090397853 66.28344589 0.022190929 0.028467366 9.97E-08 7.001199668 0.225141424 RGSS(ph)GSVDETLFALPAASEPVIR ddPTM_HeLa_SAHA_4h_R1 1 RGSSGSVDETLFALPAASEPVIR 23 1 Q9NQC3-5;Q9NQC3 Q9NQC3-5 RTN4 Reticulon-4 1 0 RGS(0.256)S(0.372)GS(0.372)VDETLFALPAASEPVIR 115.06 1.33E-05 6316300 304.04 967.84 709.49 590.02 870.49 585.69 873.36 527.54 671.29 846.3 TRUE FALSE FALSE 336.0203222 999.198651 806.1756023 601.4406903 803.7932443 535.785917 775.0872342 514.0462907 666.6184382 882.7881347 0.380635295 1.131866879 0.913215267 0.681296754 0.910516592 0.606924692 0.877999153 0.582298595 0.755128453 1 9.785923429 -4.227103126 21.26040297 0.757678544 0.58229599 0.052349161 0.207724295 5836.757574 3613540.824 0.035981322 5.668498598 5.93E-05 4.227103126 -0.175382555 RGSS(ph)S(ph)SSPEHSASSDSTK ddPTM_HeLa_SAHA_4h_R1 1 RGSSSSSPEHSASSDSTK 18 1 A0A075B784;Q9P275 A0A075B784 USP36 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 36 2 0 RGS(0.153)S(0.486)S(0.486)S(0.486)S(0.388)PEHSASSDSTK 68.82 0.019812 818840 186.6 363.08 198.11 276.62 396.14 722.63 422.2 542.08 265.23 601.04 TRUE FALSE FALSE 206.2274442 374.8440302 225.1073991 281.9743801 365.7878388 661.0578586 374.6929448 528.2143785 263.3842428 626.9537758 0.328935644 0.597881446 0.359049435 0.449753062 0.583436695 1.054396487 0.597640463 0.842509287 0.420101534 1 9.292215269 RGSSAAASPGS(ph)PPPGR ddPTM_HeLa_SAHA_4h_R1 7 RGSSAAASPGSPPPGR 16 1 Q86UX6 Q86UX6 STK32C Serine/threonine-protein kinase 32C 1 0 RGSSAAAS(0.008)PGS(0.992)PPPGR;RGSSAAAS(0.003)PGS(0.997)PPPGR;RGSSAAASPGS(1)PPPGR;RGSSAAAS(0.007)PGS(0.993)PPPGR;RGSSAAAS(0.008)PGS(0.992)PPPGR;RGSSAAAS(0.034)PGS(0.966)PPPGR;RGSSAAAS(0.003)PGS(0.997)PPPGR ;;;;;; 133.98 6.56E-05 44275400 3488.115 3098.2 3202.69 3330.86 3641.15 3782.87 3595.74 3542.47 3282.42 3472.063 TRUE FALSE FALSE 3855.01094 3198.583713 3639.135914 3395.333612 3362.165874 3460.548194 3191.137872 3451.858747 3259.577372 3621.760628 1.064402465 0.883157128 1.00479747 0.937481507 0.928323603 0.955487828 0.881101265 0.953088595 0.899998014 1 11.82247548 -7.268517153 24.93304458 1.030412276 0.93605784 0.019524469 0.055101168 282.3077548 994490.735 0.006591816 0.007625219 5.39E-08 7.268517153 -0.094354435 RGT(ph)GQSDDSDIWDDTALIK ddPTM_HeLa_SAHA_4h_R1 3 RGTGQSDDSDIWDDTALIK 19 1 B4DP61;A0A1W2PRV5;E7EQZ4;Q16637-4;Q16637-2;Q16637-3;Q16637 B4DP61 SMN2;SMN1 Survival motor neuron protein 1 0 RGT(0.468)GQS(0.341)DDS(0.191)DIWDDTALIK;RGT(0.836)GQS(0.112)DDS(0.052)DIWDDTALIK;RGT(0.492)GQS(0.492)DDS(0.016)DIWDDTALIK ;; 126.04 0.00026291 18999700 4798.43 4888 5138.73 5454.04 6096.8 6376.1 6875.24 5828.14 5540.73 5611.6 TRUE FALSE FALSE 5303.150883 5046.374407 5839.009363 5559.610831 5629.664501 5832.820409 6101.619901 5679.064618 5502.171609 5853.543539 0.905972741 0.862105898 0.99751703 0.949785509 0.961753246 0.996459729 1.042380544 0.970192599 0.939972783 1 12.51509453 -5.277664919 2.93346865 0.950060925 1.008853803 0.288566589 0.041466972 0.325607178 5.615109008 0.007177883 0.019187934 5.28E-06 5.277664919 0.058792878 RGT(ph)SLMEDDEEPIVEDVMMSSEGR ddPTM_HeLa_SAHA_4h_R1 1 RGTSLMEDDEEPIVEDVMMSSEGR 24 1 Q8N3U4;Q8N3U4-2 Q8N3U4 STAG2 Cohesin subunit SA-2 1 0 RGT(0.5)S(0.5)LMEDDEEPIVEDVMMSSEGR 123.88 3.19E-06 1408000 220.01 0 132.66 0 0 226.91 0 0 67.429 0 TRUE FALSE FALSE 243.1516612 0 150.7382139 0 0 207.5759914 0 0 66.9597561 0 0 RGTGQSDDS(ph)DIWDDTALIK ddPTM_HeLa_SAHA_4h_R1 1 RGTGQSDDSDIWDDTALIK 19 1 B4DP61;A0A1W2PRV5;E7EQZ4;Q16637-4;Q16637-2;Q16637-3;Q16637 B4DP61 SMN2;SMN1 Survival motor neuron protein 1 0 RGT(0.044)GQS(0.044)DDS(0.909)DIWDDT(0.002)ALIK 54.974 0.016609 17901000 929.16 825.39 540.55 932.82 968.22 1145.4 1167 970.45 1104.5 655.8 TRUE FALSE FALSE 1026.893312 852.1331776 614.2133389 950.87608 894.0351928 1047.805476 1035.686089 945.6272942 1096.813695 684.0747474 1.501141967 1.245672612 0.897874598 1.390017807 1.306926175 1.531711966 1.513995499 1.382344982 1.603353579 1 9.418010164 -9.485294021 1.153326179 0.994419777 1.356786712 0 0.254720601 0.477107222 1.106966405 0.141765991 0.032496203 3.27E-10 9.485294021 0.362366935 RGVS(ph)GDRDENSFSLNSSISSSAR ddPTM_HeLa_SAHA_4h_R1 1 RGVSGDRDENSFSLNSSISSSAR 23 2 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 RGVS(1)GDRDENSFSLNSSISSSAR 62.064 0.0044548 12584000 377.37 402.56 294.65 427.86 440.65 520.1 550.6 511.77 463.39 407.71 TRUE FALSE FALSE 417.063508 415.6032081 334.8033675 436.141849 406.8874922 475.784554 488.6450389 498.6796644 460.1652313 425.2883734 0.980660498 0.977226828 0.787238468 1.025520274 0.956733167 1.118733979 1.148973425 1.172568299 1.082007551 1 8.732297605 -5.159931001 3.480558302 0.974454021 1.156858844 0.558023204 0.071369553 0.12549832 2.830178772 0.009075088 0.02535266 6.92E-06 5.159931001 0.182404823 RGVS(ph)SPVETR ddPTM_HeLa_SAHA_4h_R1 1 RGVSSPVETR 10 1 A8MVZ6;Q96G01-4;Q96G01-3;Q96G01 A8MVZ6 BICD1 Protein bicaudal D homolog 1 1 0 RGVS(0.863)S(0.137)PVETR 82.774 0.0069418 0 624.85 724.27 659.84 510.69 720.77 660.66 711.66 624.2 493.87 813.22 TRUE FALSE FALSE 690.5745899 747.7368232 749.7595589 520.5751434 665.5447583 604.3680512 631.5821438 608.2338678 490.4331185 848.281894 0.814086207 0.881472101 0.88385661 0.613681781 0.784579705 0.712461336 0.744542761 0.717018567 0.578148752 1 9.728399959 -11.0843605 0.125894167 1.44935702 0.613763631 0 0.147241346 17.24720311 0.298870211 2.491961858 0.336783517 8.23E-12 11.0843605 -0.835593389 RGWDS(ph)SHEDDLPVYLAR ddPTM_HeLa_SAHA_4h_R1 2 RGWDSSHEDDLPVYLAR 17 1 Q14195-2 Q14195-2 DPYSL3 Dihydropyrimidinase-related protein 3 1 0 RGWDS(0.816)S(0.184)HEDDLPVYLAR;RGWDS(0.849)S(0.151)HEDDLPVYLAR ; 115.74 0.00047941 14687700 2250.41 2672.45 1969.51 2732.35 2680.01 3120.94 2492.84 2759.01 3393.73 2261.86 TRUE FALSE FALSE 2487.118449 2759.039133 2237.904566 2785.238585 2474.668213 2855.018354 2212.339082 2688.438519 3370.112757 2359.379854 1.05414075 1.169391664 0.948513891 1.180496045 1.04886384 1.210071515 0.937678212 1.139468286 1.428389223 1 11.20419199 -8.250987263 0.713651655 1.00403667 1.08791814 0 0.159907692 0.892847169 0.986240425 0.033667185 0.019388036 5.61E-09 8.250987263 0.08388147 RGYFDEEMNR ddPTM_HeLa_SAHA_4h_R1 1 RGYFDEEMNR 10 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;A0A075B730;P58107;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;A0A075B730;P58107;Q15149-3;Q15149-4 PLEC;EPPK1 Plectin;Epiplakin 0 0 131.83 0.0030879 2816900 1055.4 1016.8 1219 1263.3 1380.9 1506.1 1267.4 1226.9 834.71 1152.4 FALSE FALSE TRUE 1166.411814 1049.744987 1385.118972 1287.752998 1275.09574 1377.771807 1124.788816 1195.517675 828.9011851 1202.085604 0.97032342 0.873269744 1.152263173 1.071265636 1.060736221 1.146151158 0.935697768 0.994536222 0.689552543 1 10.23132392 -6.756949369 24.99999603 0.977140772 1.058900043 0.234547252 0.113961594 124.1309747 691147.7354 0.010985314 0.015234123 1.75E-07 6.756949369 0.081759271 RHAS(ph)APSHVQPSDSEK ddPTM_HeLa_SAHA_4h_R1 2 RHASAPSHVQPSDSEK 16 1 A0A3B3IRT3;O60343-2;O60343-3;O60343 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 1 0 RHAS(0.841)APS(0.159)HVQPSDSEK;RHAS(0.669)APS(0.331)HVQPSDSEK ; 96.718 0.0025149 1091420 608.46 785.73 496.73 886.09 997.6 0 1007.67 1104.37 998.64 924.33 TRUE FALSE FALSE 672.4606145 811.1881675 564.4217775 903.2415533 921.1641035 0 894.2843196 1076.121815 991.6903829 964.1823899 0.697441295 0.841322322 0.585389013 0.936795323 0.955383663 0 0.927505344 1.116097769 1.028529865 1 9.91316227 -9.33795853 0.855297587 1.014960486 0.743575506 0.107979432 0.290914583 1.387252731 1.653274291 0.256141373 0.054318901 4.59E-10 9.33795853 -0.27138498 RHET(ph)T(ph)HTGEKPYK ddPTM_HeLa_SAHA_4h_R1 1 RHETTHTGEKPYK 13 2 D3YTF2;Q9H7R0-2;Q9H7R0;Q96GE5;Q96GE5-2;Q8N8Z8-2;Q9Y2A4;Q8N8Z8 D3YTF2 ZNF799;ZNF442;ZNF441;ZNF443 Zinc finger protein 442;Zinc finger protein 799;Zinc finger protein 441;Zinc finger protein 443 2 0 RHET(1)T(1)HTGEKPYK 71.085 0.014511 4982600 108.37 0 0 123.6 216.15 258.92 140.82 132.71 0 113.81 TRUE FALSE FALSE 119.7688538 0 0 125.9924567 199.5886337 236.8585594 124.974563 129.3154704 0 118.7169061 1.008860977 0 0 1.061284874 1.68121492 1.995154416 1.052710748 1.089275948 0 1 6.891381589 -5.968801993 8.415938974 0.8310632 1.45469016 0.362352487 0.526388662 0.270390197 64.21091112 0.076487977 0.138376182 1.07E-06 5.968801993 0.62362696 RHGAPAAPS(ph)PPPR ddPTM_HeLa_SAHA_4h_R1 4 RHGAPAAPSPPPR 13 1 Q4KMP7 Q4KMP7 TBC1D10B TBC1 domain family member 10B 1 0 RHGAPAAPS(1)PPPR;RHGAPAAPS(1)PPPR;RHGAPAAPS(1)PPPR;RHGAPAAPS(1)PPPR ;;; 127.88 0.0004357 35670600 1355.48 1610.26 1256.14 1730.13 2109.42 529.32 2254.73 2403.39 2039.65 1250.13 TRUE FALSE FALSE 1498.055606 1662.433481 1427.320218 1763.619168 1947.796695 484.2189581 2001.021846 2341.914764 2025.45591 1304.029222 1.148789904 1.274843732 1.09454619 1.352438379 1.493675649 0.371325236 1.534491568 1.795906659 1.553228927 1 10.34876048 -4.5368673 24.99894804 1.095862504 1.730553335 0.285618382 0.317257431 128.9397422 230428.5189 0.03631053 0.135986864 2.90E-05 4.5368673 0.634690831 RHHGY(ph)KRK ddPTM_HeLa_SAHA_4h_R1 1 RHHGYKRK 8 3 P15516 P15516 HTN3 Histatin-3;Histatin-3;His3-(20-44)-peptide;His3-(20-43)-peptide;His3-(20-32)-peptide;His3-(20-31)-peptide;His3-(20-30)-peptide;His3-(24-32)-peptide;His3-(24-31)-peptide;His3-(24-30)-peptide;His3-(25-32)-peptide;His3-(25-30)-peptide;His3-(26-32)-peptide;His3-(26-31)-peptide;His3-(26-30)-peptide;His3-(31-51)-peptide;His3-(31-44)-peptide;His3-(31-43)-peptide;His3-(32-44)-peptide;His3-(32-43)-peptide;His3-(33-44)-peptide;His3-(33-43)-peptide;His3-(34-44)-peptide;His3-(34-43)-peptide;His3-(45-51)-peptide;His3-(47-51)-peptide;His3-(48-51)-peptide 1 0 RHHGY(1)KRK 43.704 0.0086558 0 404.3 581.04 757.3 664.21 639.89 653.69 823.16 569.28 686.29 744.39 TRUE FALSE FALSE 446.826129 599.8660772 860.5009002 677.066745 590.8617664 597.9919344 730.5358704 554.7186419 681.514052 776.4842959 0.575447735 0.772541158 1.108201292 0.871964505 0.760944902 0.770127532 0.940825042 0.71439776 0.877691997 1 9.600812937 RHS(ph)MQTEQIR ddPTM_HeLa_SAHA_4h_R1 2 RHSMQTEQIR 10 1 Q69YU3 Q69YU3 ANKRD34A Ankyrin repeat domain-containing protein 34A 1 0 RHS(1)MQTEQIR;RHS(0.999)MQT(0.001)EQIR ; 106.58 0.0035228 3580900 428.99 481.05 310.33 316.16 494.43 306.17 590.61 470.74 294.3 293.33 TRUE FALSE FALSE 474.1131365 496.6363356 352.6201563 322.279734 456.5468802 280.0825935 524.1530084 458.6991524 292.2519423 305.9768918 1.549506349 1.623117134 1.152440481 1.053281286 1.492095947 0.915371719 1.713047692 1.499130048 0.955143837 1 8.257278891 -9.48310147 1.245984386 1.001562692 1.384280597 0.290132112 0.246088351 0.522656486 1.46121587 0.168252655 0.041861691 3.29E-10 9.48310147 0.382717905 RHS(ph)PPIEK ddPTM_HeLa_SAHA_4h_R1 2 RHSPPIEK 8 1 F5GZK9;Q8IZD4-2;Q8IZD4 F5GZK9 DCP1B mRNA-decapping enzyme 1B 1 0 RHS(1)PPIEK;RHS(1)PPIEK ; 89.9 0.0094672 48295000 11632 10658.8 10111.4 14433.5 10225.2 624.12 15104.7 13479.7 11188.6 13048.4 TRUE FALSE FALSE 12855.50713 11004.15211 11489.32893 14712.88126 9441.747385 570.9414648 13405.0794 13134.90879 11110.73762 13610.98038 0.94449531 0.808476084 0.84412207 1.080956761 0.693686062 0.041947123 0.984872436 0.965022976 0.816306931 1 13.73248337 -5.663891563 6.842442825 0.954960263 0.643964106 0.168835987 0.255632347 0.235354446 14.2484222 0.036074816 0.07242167 2.17E-06 5.663891563 -0.310996157 RHS(ph)SETFSSTPSATR ddPTM_HeLa_SAHA_4h_R1 1 RHSSETFSSTPSATR 15 1 P35568 P35568 IRS1 Insulin receptor substrate 1 1 0 RHS(0.5)S(0.5)ET(0.001)FSSTPSATR 69.456 0.01469 1954700 127.9 249.57 237.33 200.03 205.43 309.08 256.33 267.2 294 302.41 TRUE FALSE FALSE 141.3531088 257.6562317 269.6720964 203.9018699 189.6899978 282.7446452 227.4870738 260.3654109 291.9540301 315.4483751 0.448102194 0.816793657 0.854885039 0.646387447 0.601334522 0.896326206 0.721154686 0.825382001 0.925520792 1 8.301260109 -9.680027489 1.556790189 0.999418332 0.68648782 0.296932511 0.133925365 0.347364305 1.520879123 0.110305952 0.024776418 2.09E-10 9.680027489 -0.312930512 RHS(ph)VTLPSSK ddPTM_HeLa_SAHA_4h_R1 1 RHSVTLPSSK 10 1 G3V2D5;G3V515;G3V2P5;Q07352 G3V2D5 ZFP36L1 "Zinc finger protein 36, C3H1 type-like 1" 1 0 RHS(0.95)VT(0.05)LPSSK 77.633 0.014878 5853700 4084.7 6352.9 5376.4 4932.4 6622.7 692.1 7627 5393.5 4119.4 6287.9 TRUE FALSE FALSE 4514.347487 6558.738128 6109.067793 5027.873734 6115.270157 633.1291864 6768.789887 5255.54208 4090.73276 6559.002141 0.688267421 0.999959748 0.931402012 0.76656077 0.932347638 0.096528279 1.031984705 0.801271591 0.623682181 1 12.67926063 RHTLEKMTDSVTCLYCNSFSKQSK ddPTM_HeLa_SAHA_4h_R1 1 RHTLEKMTDSVTCLYCNSFSKQSK 24 3 A0A1B0GUQ3;Q5S007 A0A1B0GUQ3 LRRK2 Leucine-rich repeat serine/threonine-protein kinase 2 0 0 49.089 0.008878 0 511.12 775.03 695.77 652.48 552.04 669.25 798.51 739.38 831.86 674.71 FALSE FALSE TRUE 564.8819467 800.1414805 790.5859122 665.1096939 509.7428145 612.2261349 708.6595532 720.4677302 826.0710185 703.8000501 0.802617088 1.136887502 1.123310395 0.945026494 0.724272205 0.869886461 1.006904664 1.023682408 1.173729696 1 9.459021806 -9.946385845 2.23932763 1.000920724 0.922292161 0.020494413 0.138529796 1.021923184 9.300478334 0.112605359 0.021123201 1.13E-10 9.946385845 -0.078628563 RIALK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 RIALKK 6 2 P62753;A2A3R5 P62753 RPS6 40S ribosomal protein S6 0 1 RIALK(1)K 77.748 0.021699 1868700 1285.3 937.83 1619.6 1911.4 1718.4 1039 1741.1 1302.2 453.86 868.87 FALSE TRUE FALSE 1420.493751 968.2163073 1840.310653 1948.397911 1586.736563 950.4713547 1545.186846 1268.89161 450.7015513 906.3312378 1.567300885 1.068280852 2.0305056 2.149763607 1.750724787 1.04870197 1.704880932 1.400030758 0.497281273 1 9.8238946 -9.007306248 0.572813191 0.941641513 1.620209832 0.412269113 0.376140468 1.075299408 0.57786199 0.376513938 0.086667461 9.83E-10 9.007306248 0.67856832 RIDFIPVS(ph)PAPS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 1 RIDFIPVSPAPSPTR 15 1 Q96E09 Q96E09 FAM122A Protein FAM122A 2 0 RIDFIPVS(1)PAPS(0.5)PT(0.5)R 108.96 0.0043359 4358900 822.1 924.72 925.95 758.01 764.23 830.79 930.77 711.58 943.75 885.74 TRUE FALSE FALSE 908.5722499 954.6815347 1052.133644 772.6823797 705.6748625 760.0020181 826.0373099 693.378814 937.1823669 923.9285861 0.983379304 1.033284984 1.138760787 0.836300977 0.763776414 0.822576582 0.894048872 0.750467974 1.014345027 1 9.851637534 -6.118305824 7.622858637 1.005546054 0.813204698 0.785846475 0.056712773 0.10490454 6.214178392 0.008507768 0.014154097 7.62E-07 6.118305824 -0.192341356 RIDFIPVSPAPS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 2 RIDFIPVSPAPSPTR 15 1 Q96E09 Q96E09 FAM122A Protein FAM122A 1 0 RIDFIPVS(0.002)PAPS(0.941)PT(0.057)R;RIDFIPVSPAPS(0.857)PT(0.143)R ; 112.44 0.00091476 34848000 1501.66 1485.03 1590.34 1343.83 1417.38 1979.08 1834.64 1749.46 1696.6 1390.73 TRUE FALSE FALSE 1659.611489 1533.145946 1807.063253 1369.841773 1308.780651 1810.45125 1628.201479 1704.711346 1684.793222 1450.691176 1.144014326 1.056838265 1.245656748 0.944268356 0.902177301 1.247992184 1.122362571 1.175102857 1.161372765 1 10.50252472 -9.449543042 1.143314676 0.999118452 1.105228471 0 0.118644838 0.91274948 2.105617563 0.077785903 0.018688336 3.55E-10 9.449543042 0.106110019 RIDFTPVS(ph)PAPSPTR ddPTM_HeLa_SAHA_4h_R1 1 RIDFTPVSPAPSPTR 15 1 Q7Z309;Q7Z309-2;G1UD79;Q7Z309-4;Q7Z309-3;Q7Z309-5 Q7Z309 FAM122B;SPACIA2 Protein FAM122B 1 0 RIDFT(0.009)PVS(0.813)PAPS(0.075)PT(0.103)R 81.639 0.0073702 18310000 1413.3 1104.2 1394.3 1308.7 1437.8 1740.7 1632.1 1567.3 1262.8 1427.6 TRUE FALSE FALSE 1561.957378 1139.976804 1584.307943 1334.031781 1327.636075 1592.382567 1448.451813 1527.210735 1254.012072 1489.150823 1.048891324 0.765521388 1.063900257 0.895833895 0.891539027 1.069322558 0.972669652 1.025558132 0.842098767 1 10.54027416 RIDFTPVSPAPS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 2 RIDFTPVSPAPSPTR 15 1 Q7Z309;Q7Z309-2;G1UD79;Q7Z309-4;Q7Z309-3;Q7Z309-5 Q7Z309 FAM122B;SPACIA2 Protein FAM122B 1 0 RIDFTPVSPAPS(0.908)PT(0.092)R;RIDFTPVSPAPS(0.752)PT(0.248)R ; 112.44 0.00038346 3111600 1968.22 1919.77 1527.84 2027.38 2317.1 2249.6 2016.9 1879.88 2242.27 2148.87 TRUE FALSE FALSE 2175.24641 1981.971808 1736.046079 2066.622872 2139.564299 2057.921424 1789.953104 1831.795392 2226.665861 2241.518302 0.970434374 0.884209514 0.774495607 0.92197457 0.95451565 0.918092626 0.798544943 0.817211883 0.993373937 1 11.13026056 -7.276129852 3.606584274 0.987149348 0.86737732 0.515431337 0.054145356 0.150658979 4.185631559 0.010003996 0.011758458 5.30E-08 7.276129852 -0.119772028 RIDIS(ph)PSTFR ddPTM_HeLa_SAHA_4h_R1 4 RIDISPSTFR 10 1 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 RIDIS(0.962)PS(0.037)T(0.002)FR;RIDIS(0.713)PS(0.271)T(0.016)FR;RIDIS(0.97)PS(0.029)T(0.001)FR;RIDIS(0.979)PS(0.003)T(0.018)FR ;;; 99.669 0.0056095 722208000 4064.39 4405.21 4457.7 4709.18 4707.27 5381.05 4692.46 4656.48 5242.51 4586.47 TRUE FALSE FALSE 4491.901188 4547.941694 5065.172141 4800.332988 4346.59999 4922.554267 4164.452051 4537.373984 5206.026946 4784.215167 0.938900328 0.950613953 1.058725823 1.003368958 0.90852937 1.028915735 0.87045668 0.948405083 1.088167393 1 12.22406656 -5.767784384 24.99997262 0.978076496 0.940592358 0.144442408 0.059868809 262.0962667 1032689.778 0.007435946 0.013724687 1.71E-06 5.767784384 -0.037484138 RIDIS(ph)PSTLR ddPTM_HeLa_SAHA_4h_R1 3 RIDISPSTLR 10 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 RIDIS(0.906)PS(0.092)T(0.002)LR;RIDIS(1)PSTLR;RIDIS(0.994)PS(0.006)TLR ;; 148.13 0.0019079 1550050000 4764.98 4209.47 4023 4689.9 4282.4 4519.2 5154.2 5054.1 4667.3 4358.6 TRUE FALSE FALSE 5266.182459 4345.85959 4571.233489 4780.679796 3954.283437 4134.138736 4574.235851 4924.82344 4634.819879 4546.520576 1.158288491 0.955864934 1.005435566 1.05150295 0.869738379 0.909297267 1.006095931 1.083207116 1.019421292 1 12.15054717 -7.23538245 24.50265222 1.074747351 0.9802114 0.184603625 0.071028159 668.4877918 628613.5481 0.013821644 0.016924918 5.82E-08 7.23538245 -0.094535952 RIDT(ph)PSLEEPSDLEELEQFAK ddPTM_HeLa_SAHA_4h_R1 4 RIDTPSLEEPSDLEELEQFAK 21 1 A0A0C4DG88;P14859-4;P14859-5;P14859-3;P14859;P14859-2;P14859-6 A0A0C4DG88 POU2F1 "POU domain protein;POU domain, class 2, transcription factor 1" 1 0 RIDT(0.722)PS(0.157)LEEPS(0.121)DLEELEQFAK;RIDT(0.753)PS(0.186)LEEPS(0.061)DLEELEQFAK;RIDT(0.841)PS(0.159)LEEPSDLEELEQFAK;RIDT(0.754)PS(0.246)LEEPSDLEELEQFAK ;;; 144.26 1.03E-05 15208600 6335.5 6751.38 7067.2 6722.08 6257.92 7133.98 6874.79 5973.65 6443.01 7038.5 TRUE FALSE FALSE 7001.896958 6970.129142 8030.281212 6852.195579 5778.439522 6526.124769 6101.220536 5820.852683 6398.172569 7341.964181 0.953681711 0.949354828 1.093751075 0.933291884 0.787042729 0.888879952 0.831006579 0.792819543 0.871452436 1 12.84195036 -5.927233064 5.458655366 0.984080119 0.831160426 0.589838633 0.058306416 0.082423532 4.443375655 0.006812301 0.012472948 1.18E-06 5.927233064 -0.152919692 RIEQHYFEDR ddPTM_HeLa_SAHA_4h_R1 2 RIEQHYFEDR 10 1 C9JNK6;O75431-2;O75431 C9JNK6 MTX2 Metaxin-2 0 0 ; ; 150.04 0.00029152 16848300 3228.7 3121.9 3802.7 3587 4045.2 4174.2 4046.9 2755.8 3209.3 3382.4 FALSE FALSE TRUE 3568.30948 3223.051608 4320.912152 3656.431572 3735.25765 3818.534677 3591.532161 2685.310626 3186.96622 3528.231817 1.011359135 0.913503357 1.224667872 1.036335411 1.058676936 1.082279985 1.017941096 0.761092458 0.903275744 1 11.78472964 -4.26246751 6.337991193 1.025540887 0.755372733 0.468754757 0.085113771 0.072967853 16.42499643 0.010206186 0.084635791 5.46E-05 4.26246751 -0.270168154 RIEYIEAR ddPTM_HeLa_SAHA_4h_R1 1 RIEYIEAR 8 1 Q8WUW1;Q8WUW1-2 Q8WUW1 BRK1 Protein BRICK1 0 0 120.31 0.0072393 4560700 1319.7 1189.8 1314.9 1243.8 1436.4 1279.7 1224.6 1029.9 959.53 1133.4 FALSE FALSE TRUE 1458.512101 1228.350301 1494.087724 1267.875548 1326.343342 1170.662361 1086.804785 1003.556649 952.8525526 1182.266421 1.233657723 1.038979268 1.263748761 1.072411028 1.12186502 0.990184903 0.919255395 0.848841371 0.805954171 1 10.20733946 -4.907744275 1.588611872 1.117977336 0.853833567 0.238216718 0.124720759 0.291295291 1.302059647 0.01438608 0.081240974 1.24E-05 4.907744275 -0.264143769 RIHLELR ddPTM_HeLa_SAHA_4h_R1 2 RIHLELR 7 1 P39687;H0YN26;H7BZ09;Q92688-2;Q92688 P39687;Q92688-2 ANP32A;ANP32B Acidic leucine-rich nuclear phosphoprotein 32 family member A;Acidic leucine-rich nuclear phosphoprotein 32 family member B 0 0 ; ; 96.253 0.0066063 21235000 6519.7 6559 11212.6 8735.5 8870.8 3272.1 11551.3 2515.8 1186 5151.9 FALSE FALSE TRUE 7205.471959 6771.515904 12740.59474 8904.588234 8191.12122 2993.298672 10251.51732 2451.449479 1177.746529 5374.023622 1.340796481 1.260045802 2.370773862 1.65696857 1.524206404 0.556993955 1.907605557 0.456166487 0.219155443 1 12.39178695 -3.077436694 14.42498326 1.275143949 1.133717632 0 0.647306138 0 0 0.070438221 0 0.000836688 3.077436694 -0.141426316 RILDGMFAICGVS(ph)DSK ddPTM_HeLa_SAHA_4h_R1 1 RILDGMFAICGVSDSK 16 1 B3KWE1;P12081-3;P12081-2;P12081-4;P12081;B4E1C5;B4DDD8;E7ETE2 B3KWE1 HARS "Histidine--tRNA ligase, cytoplasmic" 1 0 RILDGMFAICGVS(0.936)DS(0.064)K 58.123 0.020486 10026000 1219.9 1299.4 1495.5 1482 1214.5 1468.8 1790.2 1496.2 1827.3 1503.4 TRUE FALSE FALSE 1348.214679 1341.501413 1699.298952 1510.686253 1121.445272 1343.649977 1588.761984 1457.92937 1814.583671 1568.218931 0.859710753 0.855429931 1.083585281 0.963313363 0.715107597 0.856799998 1.013099608 0.929672089 1.157098434 1 10.61491127 RILVATNLFGR ddPTM_HeLa_SAHA_4h_R1 2 RILVATNLFGR 11 1 O00148;Q13838;Q13838-2;H0Y400;A0A0G2JJZ9;Q5STU3;A0A140T9X3 O00148;Q13838 DDX39A;DDX39B ATP-dependent RNA helicase DDX39A;Spliceosome RNA helicase DDX39B 0 0 ; ; 164.48 3.79E-08 23160000 1817.38 2252.42 3864.8 3412.6 2972.1 1113.76 3508.6 919.03 785.96 1661.29 FALSE FALSE TRUE 2008.540367 2325.399886 4391.474817 3478.655808 2744.37834 1018.861382 3113.803094 895.5225433 780.4904404 1732.916342 1.159052124 1.341899681 2.53415281 2.007399736 1.583676184 0.587946087 1.796857135 0.516771942 0.450391298 1 10.75898629 -7.203269786 3.990418753 1.073174708 1.53022535 0.154517274 0.603291187 0.380885084 12.39377776 0.097221332 0.118295544 6.26E-08 7.203269786 0.457050643 RINPPSSGGTSSS(ph)PIK ddPTM_HeLa_SAHA_4h_R1 2 RINPPSSGGTSSSPIK 16 1 A0A0C4DG88;P14859-4;P14859-5;P14859-3;P14859;P14859-2;P14859-6;A0A0A0MT46 A0A0C4DG88 POU2F1 "POU domain protein;POU domain, class 2, transcription factor 1" 1 0 RINPPSSGGTS(0.008)S(0.164)S(0.828)PIK;RINPPSSGGT(0.002)S(0.089)S(0.242)S(0.666)PIK ; 97.776 0.0023589 20502000 2838 3027.4 2461 2668.2 3340.5 3285.2 3031.3 2837.6 2985.5 2937.4 TRUE FALSE FALSE 3136.513861 3125.489746 2796.372264 2719.846869 3084.551612 3005.282478 2690.210146 2765.018301 2964.723662 3064.045689 1.023651139 1.020053244 0.912640524 0.887665246 1.006692434 0.980821692 0.87799283 0.90240766 0.967584678 1 11.58122209 -6.765408727 24.99759679 1.012147011 0.929901513 0.443954747 0.040435364 62.94028881 396376.5948 0.006394452 0.008578314 1.72E-07 6.765408727 -0.082245498 RIPIK(ac)LISK ddPTM_HeLa_SAHA_4h_R1 1 RIPIKLISK 9 2 F8WEM5;C9K074;Q75N03-2;Q75N03 F8WEM5 CBLL1 E3 ubiquitin-protein ligase Hakai 0 1 RIPIK(1)LISK 148.56 1.41E-10 0 2311.2 2059.8 5672.1 5968.3 6400.9 1902.3 8836.2 1133.5 308.41 831.74 FALSE TRUE FALSE 2554.30262 2126.538871 6445.064249 6083.825077 5910.464425 1740.213338 7841.92752 1104.506711 306.2637497 867.6003818 2.944100387 2.451058017 7.428609281 7.012243429 6.812427183 2.005777515 9.038640006 1.273059273 0.353000939 1 9.760886878 -6.865811009 6.585392423 1.960591344 5.700724455 0.399099626 2.342836626 0.160889245 9.009979463 0.346806856 0.457517588 1.36E-07 6.865811009 3.740133112 RIQDPTEDAEAEDT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 RIQDPTEDAEAEDTPR 16 1 O96028-5;O96028-3;O96028;H0Y9L4 O96028-5 WHSC1 Histone-lysine N-methyltransferase NSD2 1 0 RIQDPTEDAEAEDT(1)PR;RIQDPTEDAEAEDT(1)PR ; 124.82 0.00060954 10117400 2080.65 1839.33 2136.16 2627.5 2146.23 1900.33 1930.18 2303.56 2237.61 2210.35 TRUE FALSE FALSE 2299.502313 1898.925499 2427.26476 2678.359062 1981.786321 1738.411193 1712.991066 2244.638271 2222.03829 2305.649006 0.997334073 0.823596954 1.052746864 1.161650822 0.859535131 0.753979113 0.742953963 0.973538585 0.963736581 1 11.17095719 -5.542458371 24.86583554 0.999270563 0.813990242 0.415686688 0.097702809 146.3042687 185803.776 0.013578786 0.027160342 2.87E-06 5.542458371 -0.18528032 RIQPQPPDEDGDHS(ph)DKEDEQPQVVVLK ddPTM_HeLa_SAHA_4h_R1 1 RIQPQPPDEDGDHSDKEDEQPQVVVLK 27 2 Q96AT1 Q96AT1 KIAA1143 Uncharacterized protein KIAA1143 1 0 RIQPQPPDEDGDHS(1)DKEDEQPQVVVLK 64.954 0.00041486 21109000 5364.2 4771.8 5399.1 5007.6 5877.3 6059 6452.9 5840.3 6173.9 5621.6 TRUE FALSE FALSE 5928.431168 4926.409451 6134.861231 5104.529339 5426.982544 5542.739113 5726.802709 5690.913583 6130.935327 5863.974687 1.010991944 0.840114379 1.04619504 0.870489661 0.925478508 0.945218799 0.976607679 0.970487406 1.045525544 1 12.51766316 RIS(ph)AT(ph)SIFFES(ph)MPYKLNPK ddPTM_HeLa_SAHA_4h_R1 1 RISATSIFFESMPYKLNPK 19 2 G3V2Y4;P34897-3;P34897;G3V5L0 G3V2Y4 SHMT2 "Serine hydroxymethyltransferase;Serine hydroxymethyltransferase, mitochondrial" 3 0 RIS(0.667)AT(0.667)S(0.667)IFFES(0.989)MPY(0.01)KLNPK 51.193 0.0081207 0 0 138.05 60.412 0 72.346 123.1 0 0 216.65 138.38 TRUE FALSE FALSE 0 142.5229106 68.64463275 0 66.80286511 112.6111875 0 0 215.142315 144.346239 0 0.987368369 0.475555395 0 0.462796021 0.780146322 0 0 1.490460136 1 7.173389708 -9.524895812 1.225957915 1.00740604 0.318576444 0.455479736 0.372274751 0.432575452 1.143548649 0.254881665 0.058369574 2.99E-10 9.524895812 -0.688829596 RIS(ph)EMEEELK ddPTM_HeLa_SAHA_4h_R1 2 RISEMEEELK 10 1 O14974-5;O14974-4;O14974-3;O14974-2;O14974 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 RIS(1)EMEEELK;RIS(1)EMEEELK ; 152.4 0.00027121 10049700 4164.6 5948.1 4872.6 4328.2 6861.6 6804.2 7172 6463 5986.9 5613.5 TRUE FALSE FALSE 4602.651736 6140.822343 5536.612553 4411.97857 6335.86569 6224.443881 6364.987684 6297.685818 5945.236675 5855.525457 0.786035646 1.048722679 0.945536416 0.753472699 1.082031961 1.06300347 1.087005382 1.075511645 1.01532078 1 12.51558292 -5.719084585 24.9975283 0.903876977 1.076619303 0.394189314 0.090114917 110.1532982 65011.20138 0.014523406 0.029046629 1.91E-06 5.719084585 0.172742326 RIS(ph)FSASHR ddPTM_HeLa_SAHA_4h_R1 2 RISFSASHR 9 1 E9PKY8;E9PJM0;Q03393 E9PKY8 PTS 6-pyruvoyl tetrahydrobiopterin synthase 1 0 RIS(1)FSASHR;RIS(0.999)FS(0.001)ASHR ; 108.98 0.0034604 17687800 1419.41 1554.9 1160.29 1359.22 2113.34 2208.82 1913.95 1422.94 1012.56 1376.3 TRUE FALSE FALSE 1568.710056 1605.27978 1318.408279 1385.529669 1951.416346 2020.61611 1698.587309 1386.543255 1005.513513 1435.639028 1.092691147 1.118163931 0.918342461 0.965096129 1.359266715 1.407468082 1.183157657 0.965802146 0.700394384 1 10.48747733 -5.770247366 24.99937463 1.035619884 1.238407832 0.34177919 0.162172106 152.7603981 433575.034 0.018779827 0.034414735 1.70E-06 5.770247366 0.202787948 RIS(ph)GLIYEETR ddPTM_HeLa_SAHA_4h_R1 4 RISGLIYEETR 11 1 P62805 P62805 HIST1H4A Histone H4 1 0 RIS(1)GLIYEETR;RIS(1)GLIYEETR;RIS(1)GLIYEETR;RIS(1)GLIYEETR ;;; 97.2 0.005327 57811500 4694.41 4319.45 4524.8 4841.23 5745 5946.1 8557.1 4888 4285.63 5049 TRUE FALSE FALSE 5188.189583 4459.403014 5141.41618 4934.939007 5304.819341 5439.458828 7594.232587 4762.972038 4255.805952 5266.687099 0.985095466 0.846718806 0.976214475 0.9370101 1.007240271 1.032804631 1.441937302 0.904358271 0.808061286 1 12.36268003 -4.981641029 24.97622469 0.978393642 1.189203657 0.280734951 0.13943593 186.7457673 254052.6771 0.015530541 0.046580607 1.04E-05 4.981641029 0.210810015 RIS(ph)MEDLNK ddPTM_HeLa_SAHA_4h_R1 1 RISMEDLNK 9 1 F5H6Z0;Q00537-2;Q00537;F8VZY6;F8VQZ9 F5H6Z0 CDK17 Cyclin-dependent kinase 17 1 0 RIS(1)MEDLNK 75.89 0.016611 5132000 2375.1 2428 2306.7 2962.9 2889.9 3339.2 3459.9 3221.1 2645.2 2767 TRUE FALSE FALSE 2624.923915 2506.668793 2621.045063 3020.251214 2668.476486 3054.681374 3070.582946 3138.708926 2626.791838 2886.298911 0.909442853 0.868471655 0.908098968 1.046409712 0.924532271 1.058338539 1.063847869 1.0874511 0.910090021 1 11.495005 -5.199845431 5.629648251 0.950699659 1.071240783 0.589510756 0.049636129 0.143495828 9.359868159 0.007847383 0.020309544 6.31E-06 5.199845431 0.120541124 RIS(ph)QSQPVR ddPTM_HeLa_SAHA_4h_R1 3 RISQSQPVR 9 1 E7EMW7;O95071-2;O95071 E7EMW7 UBR5 E3 ubiquitin-protein ligase UBR5 1 0 RIS(0.5)QS(0.5)QPVR;RIS(0.5)QS(0.5)QPVR;RIS(0.5)QS(0.5)QPVR ;; 120.55 0.0092054 141232300 6607.9 5698 5529.6 6391.6 7354.3 8156.3 9023.9 8593.9 5730.7 5805.7 TRUE FALSE FALSE 7302.94924 5882.618939 6283.145091 6515.31866 6790.815123 7461.337354 8008.507022 8374.080482 5690.819592 6056.012139 1.205900694 0.971368419 1.037505366 1.075843065 1.121334463 1.232054557 1.322406039 1.382771416 0.939697521 1 12.56415238 -4.98095373 1.524171242 1.082467792 1.379797161 0.722544912 0.075769958 0.225725247 0.932220863 0.012685945 0.066603599 1.04E-05 4.98095373 0.29732937 RIS(ph)QVSSGETEYNPTEAR ddPTM_HeLa_SAHA_4h_R1 3 RISQVSSGETEYNPTEAR 18 1 H0Y764;A0A494C1V1;Q6ZNJ1-2;Q6ZNJ1-3;Q6ZNJ1;H7C3Y7 H0Y764 NBEAL2 Neurobeachin-like protein 2 1 0 RIS(0.999)QVS(0.001)SGETEYNPTEAR;RIS(0.999)QVS(0.001)SGETEYNPTEAR;RIS(1)QVSSGETEYNPTEAR ;; 180.68 1.26E-09 21972600 2307.82 2600.73 2141.86 1659.02 2843.92 3903.9 3058.64 1790.82 1882.89 3025.6 TRUE FALSE FALSE 2550.567096 2684.995358 2433.741526 1691.132731 2626.019464 3571.265757 2714.473777 1745.013417 1869.786815 3156.048423 0.80815208 0.850745932 0.771135674 0.535838652 0.832059307 1.131562409 0.860086226 0.55291085 0.592445541 1 11.62390363 -9.024040142 0.677481039 1.010402844 0.797612334 0 0.202023226 1.177696867 0.927343594 0.140132366 0.036095696 9.46E-10 9.024040142 -0.21279051 RIS(ph)SSSVQPCSEEVSTPQDSLAQCK ddPTM_HeLa_SAHA_4h_R1 1 RISSSSVQPCSEEVSTPQDSLAQCK 25 1 J3QS41;P42694 J3QS41 HELZ Probable helicase with zinc finger domain 1 0 RIS(0.255)S(0.186)S(0.186)S(0.186)VQPCS(0.186)EEVS(0.001)T(0.001)PQDSLAQCK 64.767 0.00096861 28545000 2226.2 2175.5 2438.6 1897.9 2806 3235.3 2680.8 2054.8 1529.5 2557.2 TRUE FALSE FALSE 2460.36193 2245.987627 2770.919708 1934.636599 2591.004886 2959.634239 2379.149329 2002.241191 1518.856085 2667.453407 0.922363601 0.841996948 1.038788419 0.725274749 0.97134026 1.109535496 0.891917858 0.750618994 0.569403042 1 11.38124736 -8.856979644 0.721592357 1.000738544 0.910957715 0 0.17508498 1.484632956 1.444740467 0.072903923 0.023997893 1.39E-09 8.856979644 -0.08978083 RISSSSVQPCS(ph)EEVSTPQDSLAQCK ddPTM_HeLa_SAHA_4h_R1 2 RISSSSVQPCSEEVSTPQDSLAQCK 25 1 J3QS41;P42694 J3QS41 HELZ Probable helicase with zinc finger domain 1 0 RIS(0.206)S(0.055)S(0.055)S(0.073)VQPCS(0.61)EEVSTPQDSLAQCK;RIS(0.177)S(0.105)S(0.105)S(0.105)VQPCS(0.505)EEVS(0.003)T(0.001)PQDSLAQCK ; 94.384 1.07E-05 36810700 2859.6 2718.4 2375.74 1936.97 2896.3 3757.7 3452.1 2057.95 1868.79 2883 TRUE FALSE FALSE 3160.385848 2806.477944 2699.493475 1974.462855 2674.38612 3437.52282 3063.660623 2005.310619 1855.784938 3007.300239 1.050904664 0.933221734 0.897646813 0.656556612 0.889298011 1.143059404 1.018741189 0.666814239 0.617093336 1 11.55425319 -7.073064534 3.586936006 1.023842352 0.888542432 0 0.18754196 0.333204278 8.3071655 0.023628 0.029688817 8.45E-08 7.073064534 -0.135299919 RKAS(ph)PEPEGEAAGK ddPTM_HeLa_SAHA_4h_R1 4 RKASPEPEGEAAGK 14 2 Q8IU81 Q8IU81 IRF2BP1 Interferon regulatory factor 2-binding protein 1 1 0 RKAS(1)PEPEGEAAGK;RKAS(1)PEPEGEAAGK;RKAS(1)PEPEGEAAGK;RKAS(1)PEPEGEAAGK ;;; 96.805 0.0043732 78676600 19475.9 17461.5 17367.9 19568.9 19125.6 21582.7 21163.6 21480 18993.8 18343.2 TRUE FALSE FALSE 21524.46452 18027.26406 19734.70696 19947.68436 17660.20066 19743.73254 18782.21603 20930.5727 18861.6206 19134.06512 1.124928988 0.942155467 1.03139123 1.042522027 0.922971702 1.031862932 0.981611378 1.093890533 0.985761284 1 14.22385579 -7.259913142 24.99992715 1.058994243 1.00575289 0.012746508 0.059270755 205.6540127 3368639.709 0.010501778 0.012483894 5.50E-08 7.259913142 -0.053241354 RKAS(ph)PEPPDSAEGALK ddPTM_HeLa_SAHA_4h_R1 2 RKASPEPPDSAEGALK 16 2 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 RKAS(0.999)PEPPDS(0.001)AEGALK;RKAS(1)PEPPDSAEGALK ; 84.159 0.0073773 50195000 8054.1 8275.5 7096.6 8227 7813.4 9624.5 8209.2 8499.9 8699.4 8573.6 TRUE FALSE FALSE 8901.267192 8543.63163 8063.68769 8386.245481 7214.73898 8804.438454 7285.479211 8282.484866 8638.860167 8943.249854 0.995305659 0.955316218 0.901650722 0.937717901 0.806724524 0.98447864 0.814634426 0.926115786 0.965964309 1 13.12658347 -6.87365952 1.432045609 0.999070525 0.888780388 0.39792446 0.051139295 0.215884358 0.885125564 0.007980309 0.011190607 1.34E-07 6.87365952 -0.110290138 RKDSEEEAAS(ph)PEGK ddPTM_HeLa_SAHA_4h_R1 2 RKDSEEEAASPEGK 14 2 Q9HB96;A0A3B3ITU7 Q9HB96 FANCE Fanconi anemia group E protein 1 0 RKDSEEEAAS(1)PEGK;RKDSEEEAAS(1)PEGK ; 105.06 0.002258 8937800 4023.7 3880.4 3265.8 4129.1 4446.1 4665.3 4693.9 4697.7 3809.5 4141.2 TRUE FALSE FALSE 4446.931227 4006.127506 3710.846216 4209.024701 4105.440779 4267.790194 4165.730018 4577.539636 3782.989379 4319.747399 1.029442423 0.927398557 0.85904241 0.974368247 0.950389085 0.987972166 0.964345744 1.059677619 0.875743193 1 12.07673124 -7.271007993 24.88069702 1.013903367 0.957911505 0 0.064697708 717.062585 1864532.623 0.008329751 0.009591415 5.36E-08 7.271007993 -0.055991862 RKEDEVEEWQHR ddPTM_HeLa_SAHA_4h_R1 3 RKEDEVEEWQHR 12 2 E7EQR4;P15311 E7EQR4 EZR Ezrin 0 0 ;; ;; 102.4 0.0014698 98941000 11159.1 9498.6 11236.8 10687 12504 12769.8 13280.9 9002.6 13723.8 12672.3 FALSE FALSE TRUE 12332.86534 9806.360872 12768.09259 10893.86234 11545.94622 11681.7412 11786.49818 8772.326528 13628.29496 13218.66487 0.932988729 0.741857137 0.965913934 0.824127281 0.873457822 0.883730794 0.891655723 0.663631813 1.030988764 1 13.69028885 -1 0.063353825 1.217803407 0.134631442 0.477449881 0.07805478 183.6879122 0.875024181 2.94315064 18.22345964 0.1 1 -1.083171966 RKEEAKES(ph)PSAAGPEDK ddPTM_HeLa_SAHA_4h_R1 1 RKEEAKESPSAAGPEDK 17 3 Q3KQU3-4;Q3KQU3;Q3KQU3-2;Q3KQU3-3;H0YF21 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 RKEEAKES(0.864)PS(0.136)AAGPEDK 50.077 0.020822 9135200 3757.9 3920.2 3291 3761.9 3975.7 4396.9 3773.2 3517 4236.6 3639.5 TRUE FALSE FALSE 4153.173164 4047.217052 3739.480341 3834.717014 3671.082725 4022.259384 3348.629605 3427.040233 4207.117156 3796.416656 1.093971906 1.0660624 0.985002617 1.010088555 0.966986255 1.059488393 0.882050077 0.902703929 1.108181092 1 11.89042262 -4.233059995 0.634094862 1.04279794 0.770694288 0.543701758 0.049026835 2.014364722 0.538577115 0.009018236 0.400194538 5.85E-05 4.233059995 -0.272103652 RKELEEVS(ph)PETPVVPATTQR ddPTM_HeLa_SAHA_4h_R1 2 RKELEEVSPETPVVPATTQR 20 2 Q15149 Q15149 PLEC Plectin 1 0 RKELEEVS(0.96)PET(0.04)PVVPATTQR;RKELEEVS(0.998)PET(0.002)PVVPATTQR ; 75.764 0.00162 32387900 3848.5 2796.8 3112.5 3733 3752.6 4554.6 3471.3 3653.8 3297.2 3883 TRUE FALSE FALSE 4253.302888 2887.418155 3536.655291 3805.257613 3465.076599 4166.522457 3080.700188 3560.341087 3274.254517 4050.415133 1.050090607 0.712869684 0.873158719 0.939473483 0.85548678 1.028665537 0.760588751 0.879006465 0.808375045 1 11.98385406 -7.304307821 24.99963801 1.023653917 0.869427672 0.010853658 0.107015363 309.5592245 180525.2962 0.013587042 0.015537422 4.96E-08 7.304307821 -0.154226245 AVVPSK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 AVVPSKR 7 1 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;G3V576;G3V575;G3V555;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 0 1 ; AVVPSK(1)R;AVVPSK(1)R 104.45 0.0052874 112190000 1822.45 2053.1 2384.9 5021.9 6265.2 8119.3 11691 9236.7 1451.56 1849.72 FALSE TRUE FALSE 2014.143653 2119.621787 2709.901752 5119.106136 5785.16173 7427.489962 10375.49791 9000.438589 1441.458476 1929.470482 1.04388415 1.098551031 1.404479508 2.653114513 2.998315748 3.84949655 5.377381002 4.664719505 0.747074645 1 10.91398926 -5.54290831 0.823075086 0.99200126 5.287863889 0.962772015 0.309091447 0.084630753 0.098181398 0.048563373 0.222691969 2.86E-06 5.54290831 4.295862629 up RKGLVY(ph)IQQTDDS(ph)LIHFCWK ddPTM_HeLa_SAHA_4h_R1 1 RKGLVYIQQTDDSLIHFCWK 20 2 Q16186;A0A087WX59;A0A087WUX6 Q16186 ADRM1 Proteasomal ubiquitin receptor ADRM1 2 0 RKGLVY(0.999)IQQT(0.009)DDS(0.993)LIHFCWK 53.342 0.0073932 0 381.07 242.79 223.55 337.38 430.5 335.11 279.34 171.31 302.43 369.45 TRUE FALSE FALSE 421.152691 250.6565553 254.0142298 343.9104778 397.515183 306.5567427 247.907928 166.9281383 300.325365 385.3787975 1.092827871 0.65041605 0.65912871 0.892395949 1.031492094 0.795468626 0.643283776 0.433153405 0.779299139 1 8.590133391 -3.834744194 0.309709243 1.042674027 1.77E-13 0.225714892 0.173690403 6.442645109 0.365583573 0.071620982 2.658236403 0.000146304 3.834744194 -1.042674027 RKGS(ph)GS(ph)EQEGEDEEGGER ddPTM_HeLa_SAHA_4h_R1 2 RKGSGSEQEGEDEEGGER 18 2 Q6PD62 Q6PD62 CTR9 RNA polymerase-associated protein CTR9 homolog 2 0 RKGS(1)GS(1)EQEGEDEEGGER;RKGS(1)GS(1)EQEGEDEEGGER ; 66.045 0.014176 29517000 5163 4928.3 4394 4629.2 5538.8 5828 6243.5 5954.7 4940.9 5119 TRUE FALSE FALSE 5706.068029 5087.980154 4992.791437 4718.80486 5114.418341 5331.421613 5540.964948 5802.387396 4906.515875 5339.705142 1.068611071 0.952857886 0.935031299 0.883720118 0.957809131 0.998448692 1.037691183 1.086649401 0.918873935 1 12.38254436 -12.33668776 12.71043707 0.669644878 1.008705886 0 0.067463781 0 0 0 0.009340887 4.61E-13 12.33668776 0.339061008 RKHS(ph)PS(ph)PPPPTPTESR ddPTM_HeLa_SAHA_4h_R1 1 RKHSPSPPPPTPTESR 16 2 Q92922 Q92922 SMARCC1 SWI/SNF complex subunit SMARCC1 2 0 RKHS(1)PS(1)PPPPTPTESR 61.649 0.018637 4015200 1965 1799.5 1950.4 2151.7 2293.8 592.69 2064.2 2072.6 2201.6 1713.7 TRUE FALSE FALSE 2171.687716 1857.804981 2216.190355 2193.349265 2118.04954 542.1894776 1831.930783 2019.585893 2186.278886 1787.585994 1.214871745 1.03928146 1.239767129 1.226989511 1.184865817 0.303308193 1.024807081 1.12978391 1.223034245 1 10.80379693 RKLS(ph)GDQPAAR ddPTM_HeLa_SAHA_4h_R1 1 RKLSGDQPAAR 11 2 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 RKLS(1)GDQPAAR 61.532 0.01834 2012400 1101.1 712.42 854.36 936.08 972.21 1208.6 1158.3 1402.4 775.63 858.85 TRUE FALSE FALSE 1216.91875 735.5028754 970.7877315 954.199182 897.7194798 1105.620481 1027.965036 1366.528639 770.2323277 895.8792266 1.358351342 0.820984407 1.083614513 1.065098011 1.002054131 1.234117778 1.147437071 1.525349174 0.859750181 1 9.807160446 -3.858628293 1.656403591 1.124578486 2.218558015 0.372813635 0.162999349 3.16389871 3.396210312 0.02456298 7.693668182 0.000138475 3.858628293 1.093979529 RKPNAGGS(ph)PAPVR ddPTM_HeLa_SAHA_4h_R1 1 RKPNAGGSPAPVR 13 2 Q3KQU3-4;Q3KQU3;Q3KQU3-2 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 RKPNAGGS(1)PAPVR 79.471 0.0075703 45891000 4679.1 3781.9 3381.1 3661.2 4481 4065.9 3853.6 3922.3 3992.5 4098.3 TRUE FALSE FALSE 5171.269206 3904.436041 3841.8587 3732.06782 4137.666748 3719.462446 3419.982786 3821.973245 3964.715867 4274.99777 1.209654247 0.913318849 0.898680867 0.872998776 0.967875768 0.870050149 0.799996391 0.894029296 0.9274194 1 12.06170795 -7.137447013 6.285311021 1.098728206 0.884814868 0.400171917 0.08143266 0.125652097 5.981131918 0.014283404 0.01754215 7.29E-08 7.137447013 -0.213913338 RKPS(ph)PEPEGEVGPPK ddPTM_HeLa_SAHA_4h_R1 5 RKPSPEPEGEVGPPK 15 2 Q7Z5L9;Q7Z5L9-2 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 1 0 RKPS(1)PEPEGEVGPPK;RKPS(1)PEPEGEVGPPK;RKPS(1)PEPEGEVGPPK;RKPS(1)PEPEGEVGPPK;RKPS(1)PEPEGEVGPPK ;;;; 68.625 0.011195 297190700 26529.6 31080.1 24895.7 29787 32385.8 35340.9 31041 29959.2 38596 28531.1 TRUE FALSE FALSE 29320.10505 32087.11563 28288.35634 30363.57046 29904.407 32329.6565 27548.18498 29192.88704 38327.40729 29761.21535 0.985178351 1.07815206 0.950510791 1.0202396 1.004811351 1.086301622 0.925640457 0.980903727 1.287830717 1 14.86114582 RKREPEDEGEDDD ddPTM_HeLa_SAHA_4h_R1 1 RKREPEDEGEDDD 13 3 P39687 P39687 ANP32A Acidic leucine-rich nuclear phosphoprotein 32 family member A 0 0 53.569 0.019216 3998600 3690.4 2234.9 4070.6 4778.3 3113.8 3667.6 4617.3 4678 2584.5 4072.8 FALSE FALSE TRUE 4078.573204 2307.312226 4625.320169 4870.790906 2875.221317 3355.099847 4097.749252 4558.343534 2566.514254 4248.39834 0.96002608 0.543101668 1.088720925 1.14650052 0.676777714 0.789732878 0.964539792 1.072955775 0.604113374 1 12.05270333 -7.503044213 23.9046939 0.98236463 0.893442451 0 0.215238217 247.3791836 298149.8209 0.03132486 0.033583746 3.14E-08 7.503044213 -0.088922178 RKS(ph)EPAVGPPR ddPTM_HeLa_SAHA_4h_R1 1 RKSEPAVGPPR 11 2 O94875-11;O94875-9;O94875-12;O94875-8;O94875-7;H7BZX1;H7BZK1;H7C1R7;O94875-4;O94875;O94875-10;O94875-2;O94875-5;O94875-3;H7BXR3 O94875-11 SORBS2 Sorbin and SH3 domain-containing protein 2 1 0 RKS(1)EPAVGPPR 66.393 0.01572 6237500 1277.7 1322 1372 1448.6 1681 1867.8 2033.1 1800.1 1418.9 1403.9 TRUE FALSE FALSE 1412.094348 1364.833667 1558.969015 1476.639748 1552.202143 1708.652932 1804.330237 1754.056049 1409.025759 1464.429 0.96426276 0.931990331 1.064557596 1.008338232 1.05993677 1.166770757 1.232104962 1.197774729 0.962167343 1 10.51612253 -5.347984779 1.202290677 0.983063366 1.229057057 0.892228876 0.033057577 0.114066089 0.29901984 0.005147903 0.021121341 4.49E-06 5.347984779 0.245993691 RKS(ph)GGNEVSIEER ddPTM_HeLa_SAHA_4h_R1 1 RKSGGNEVSIEER 13 2 Q15061 Q15061 WDR43 WD repeat-containing protein 43 1 0 RKS(0.995)GGNEVS(0.005)IEER 75.445 0.017194 22817000 2328.8 2149.6 2246.1 2285.1 3234.6 2909.3 2822.3 2864.1 2883.5 2828.4 TRUE FALSE FALSE 2573.753869 2219.24845 2552.186811 2329.331415 2986.765647 2661.411273 2504.727376 2790.840469 2863.433489 2950.346166 0.872356572 0.752199344 0.865046563 0.789511225 1.012344138 0.90206746 0.848960507 0.945936616 0.970541532 1 11.52666852 -8.999824478 0.967917172 0.994812537 0.873051181 0.28631023 0.069759899 0.484556414 0.868640837 0.036756081 0.013403979 1.00E-09 8.999824478 -0.121761356 RKS(ph)HEAEVLK ddPTM_HeLa_SAHA_4h_R1 6 RKSHEAEVLK 10 2 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 1 0 RKS(1)HEAEVLK;RKS(1)HEAEVLK;RKS(1)HEAEVLK;RKS(1)HEAEVLK;RKS(1)HEAEVLK;RKS(1)HEAEVLK ;;;;; 98.902 0.0043295 120329400 28406 21601.5 37295.9 47810.7 27272.9 29063.2 52023.4 37170.8 23603.4 29834.6 TRUE FALSE FALSE 31393.87341 22301.40277 42378.39102 48736.14523 25183.25629 26586.85185 46169.59011 36220.02476 23439.14202 31120.91561 1.008770879 0.716604969 1.361733426 1.566025429 0.809206792 0.85430815 1.483555005 1.163848301 0.753163638 1 14.92559689 -6.743117908 24.99999082 0.982692217 1.201323899 0.257122896 0.252673447 350.566282 478353.059 0.038498315 0.054385775 1.81E-07 6.743117908 0.218631682 RKSLSDS(ph)ESDDSK ddPTM_HeLa_SAHA_4h_R1 1 RKSLSDSESDDSK 13 2 Q13185;S4R2Y4 Q13185 CBX3 Chromobox protein homolog 3 1 0 RKS(0.103)LS(0.16)DS(0.729)ES(0.007)DDSK 115.24 0.007697 5211300 1061 897.04 882.71 1443.4 1213.9 1636.1 1758.2 1600.8 1337.9 1644.1 TRUE FALSE FALSE 1172.600848 926.1046846 1003.001122 1471.339094 1120.891244 1496.695076 1560.362709 1559.853854 1328.589445 1714.985197 0.683738175 0.540007393 0.584845352 0.857931075 0.653586542 0.872716032 0.909840336 0.909543626 0.77469441 1 10.74398041 -5.01745266 22.9736941 0.791212675 0.905088642 0.152111874 0.135846258 540.412761 711377.9925 0.025265872 0.066233294 9.61E-06 5.01745266 0.113875967 RLAAAEETAVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 6 RLAAAEETAVSPR 13 1 Q9BUH6 Q9BUH6 C9orf142 Protein PAXX 1 0 RLAAAEETAVS(1)PR;RLAAAEETAVS(1)PR;RLAAAEETAVS(1)PR;RLAAAEETAVS(1)PR;RLAAAEETAVS(1)PR;RLAAAEETAVS(1)PR ;;;;; 196.18 1.13E-07 105066300 7427.13 7503.87 6433.65 7351.21 7814.05 9249.75 8155.09 6964.21 8444.32 8250.11 TRUE FALSE FALSE 8208.34961 7747.000311 7310.394317 7493.5033 7215.339177 8461.619262 7237.45781 6786.075592 8385.55529 8605.812617 0.953814587 0.900205554 0.849471705 0.870749066 0.838426247 0.983244656 0.840996444 0.788545591 0.974405981 1 13.07109571 -7.349913925 1.218264914 0.985588225 0.864299101 0.539386852 0.047248133 0.230523715 0.666344936 0.009880717 0.011280849 4.47E-08 7.349913925 -0.121289124 RLAAQESS(ph)ETEDMSVPR ddPTM_HeLa_SAHA_4h_R1 1 RLAAQESSETEDMSVPR 17 1 E7ESD2;Q641Q2-2;Q641Q2;F8W7U3;A0A087WYF6 E7ESD2 FAM21A WASH complex subunit FAM21A 1 0 RLAAQES(0.031)S(0.928)ET(0.031)EDMS(0.01)VPR 106.86 0.00099986 3124500 278.17 327.69 407.48 246.3 305.35 395.72 264.6 438.11 293.6 381.94 TRUE FALSE FALSE 307.4291969 338.307371 463.0092523 251.0674927 281.954149 362.0024297 234.8265116 426.9037806 291.5568137 398.4073026 0.771645487 0.849149523 1.162150516 0.630177939 0.707703265 0.908623982 0.589413171 1.071525993 0.731805898 1 8.638100281 -6.213553226 24.99940383 0.903924755 0.773781946 0.111379673 0.170835723 648.6054531 338610.2277 0.024458414 0.040559649 6.12E-07 6.213553226 -0.130142809 RLAEDEAFQR ddPTM_HeLa_SAHA_4h_R1 2 RLAEDEAFQR 10 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 160.77 0.00043585 13896000 2450.9 2379 2781.9 2957 2734.4 2997.8 2989.1 2445.7 2447.3 2486.8 FALSE FALSE TRUE 2708.696907 2456.081161 3161.002844 3014.237011 2524.890863 2742.370575 2652.758601 2383.142535 2430.26904 2594.018118 1.044208939 0.946824983 1.218573927 1.161995358 0.973351283 1.057190216 1.022644592 0.918706974 0.936874351 1 11.34097284 -4.270199516 3.647463288 1.038821976 0.906433087 0.157068707 0.085154839 0.378553433 9.217926755 0.011126062 0.134054695 5.37E-05 4.270199516 -0.132388889 RLAS(ph)TSDIEEK ddPTM_HeLa_SAHA_4h_R1 2 RLASTSDIEEK 11 1 O14974-5;O14974-4;O14974-3;O14974-2;O14974;H0YIS4;H0YHI8;A0A3B3ISH4;F8VZN8 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 RLAS(0.79)T(0.136)S(0.074)DIEEK;RLAS(0.858)T(0.123)S(0.019)DIEEK ; 116.79 0.0013136 19541200 4509.5 7778.5 6338 5426.7 8761.8 10517.7 9962.4 6629.2 5836.9 7279.4 TRUE FALSE FALSE 4983.8299 8030.528504 7201.709633 5531.741626 8090.472777 9621.532789 8841.404532 6459.634663 5796.280538 7593.250559 0.656349986 1.057587714 0.948435664 0.728507717 1.06548213 1.267116463 1.164376766 0.850707429 0.763346408 1 12.8905019 -5.634111029 6.683051426 0.854988706 1.111278856 0.350299245 0.151638696 0.196606504 10.86419558 0.025347034 0.050952989 2.32E-06 5.634111029 0.25629015 RLAS(ph)TSDIEEKENR ddPTM_HeLa_SAHA_4h_R1 1 RLASTSDIEEKENR 14 2 O14974-5;O14974-4;O14974-3;O14974-2;O14974;H0YIS4;H0YHI8;A0A3B3ISH4;F8VZN8 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 RLAS(0.425)T(0.425)S(0.149)DIEEKENR 71.286 0.019895 29343000 1947.8 2210.1 2575.9 1908 2714.9 2689.5 4144 2685.9 1297.5 2338.6 TRUE FALSE FALSE 2152.678541 2281.70869 2926.930237 1944.932099 2506.884949 2460.339469 3677.706214 2617.198567 1288.470592 2439.428491 0.882451996 0.935345594 1.199842606 0.797290065 1.027652566 1.008572081 1.507609765 1.072873657 0.528185432 1 11.25232748 -4.90319722 7.708426426 0.958000296 1.288558453 0.35661876 0.194052738 0.130303475 9.09174756 0.017633383 0.053413203 1.25E-05 4.90319722 0.330558156 RLAVPTEVSTEVPEMDTS(ph)T ddPTM_HeLa_SAHA_4h_R1 1 RLAVPTEVSTEVPEMDTST 19 1 O00488 O00488 ZNF593 Zinc finger protein 593 1 0 RLAVPTEVSTEVPEMDT(0.1)S(0.518)T(0.382) 117.2 0.0011571 12871000 709.15 602.86 654.99 547.93 560.69 670.49 758.33 741.37 587.24 545.95 TRUE FALSE FALSE 783.7416507 622.3930596 744.2486262 558.5359775 517.7300533 613.3604799 673.0007126 722.4068289 583.153349 569.4885763 1.376220144 1.092898234 1.306871915 0.980767658 0.909114028 1.077037373 1.181763323 1.26851856 1.023994814 1 9.153523092 -6.252750159 24.91538561 1.183276621 1.078862095 0.054686274 0.143049213 1342.334318 3848997.871 0.026195093 0.043004962 5.59E-07 6.252750159 -0.104414526 RLDDQES(ph)PVYAAQQR ddPTM_HeLa_SAHA_4h_R1 1 RLDDQESPVYAAQQR 15 1 Q96ST3;H3BMA2;H3BT34;H3BQ76;H3BQ88;H3BNA0;H3BNZ3;H3BQL7;H3BP90 Q96ST3 SIN3A Paired amphipathic helix protein Sin3a 1 0 RLDDQES(1)PVYAAQQR 110.22 0.0054589 3003400 1707.8 1689 1981.4 2315.9 1705.9 2323.8 2189.2 2120.6 2051.8 2149 TRUE FALSE FALSE 1887.43424 1743.724708 2251.414873 2360.727593 1575.194311 2125.799167 1942.865454 2066.358123 2037.521357 2241.653907 0.841982892 0.777874186 1.004354359 1.053118675 0.702692912 0.948317294 0.866710712 0.921800692 0.908936634 1 11.13034784 -9.445833376 1.202618619 0.999448065 0.885607759 0.032407279 0.101024295 0.693360519 1.807444597 0.064363856 0.016359871 3.58E-10 9.445833376 -0.113840306 RLDQLER ddPTM_HeLa_SAHA_4h_R1 3 RLDQLER 7 1 M0R2F5;Q96CT7 M0R2F5 CCDC124 Coiled-coil domain-containing protein 124 0 0 ;; ;; 141.39 0.00026954 2620300 1882.22 1794.9 2019.14 1962.14 1824.96 2556.19 2592.81 2046.69 2300.3 2036.02 FALSE FALSE TRUE 2080.200536 1853.055938 2294.297884 2000.120057 1685.131959 2338.388231 2301.060195 1994.338633 2284.292025 2123.802786 0.979469727 0.872517896 1.080278215 0.941763553 0.793450301 1.10103831 1.083462273 0.939041349 1.075566922 1 11.05243409 RLEEPEEPK ddPTM_HeLa_SAHA_4h_R1 1 RLEEPEEPK 9 1 O75822-2;O75822 O75822-2 EIF3J Eukaryotic translation initiation factor 3 subunit J 0 0 105.4 0.015725 6242300 2585.8 2784 2516.3 3173.7 2737.9 3504.7 2636.8 3265.2 2911.2 2552 FALSE FALSE TRUE 2857.786308 2874.203427 2859.20826 3235.131553 2528.122693 3206.079843 2340.100324 3181.680912 2890.940722 2662.029209 1.073536796 1.07970394 1.074070957 1.215287774 0.949697578 1.204374404 0.879066359 1.195208866 1.08599136 1 11.37831069 -8.901330643 0.71923356 0.999011027 1.08109442 0 0.105430052 1.387038009 1.31862891 0.06301544 0.019703976 1.26E-09 8.901330643 0.082083393 RLFDDEAS(ph)VDEPR ddPTM_HeLa_SAHA_4h_R1 3 RLFDDEASVDEPR 13 1 A0A2R8Y549;Q8NI35-4;Q8NI35-3;Q8NI35-2;Q8NI35;A0A0U1RR46;A0A0X1KG69;A0A087WUZ6;Q8NI35-5 A0A2R8Y549;Q8NI35-5 INADL InaD-like protein 1 0 RLFDDEAS(1)VDEPR;RLFDDEAS(1)VDEPR;RLFDDEAS(1)VDEPR ;; 125.96 0.00047741 13577700 2859.65 2824.88 2915.3 2732.72 2993.45 3714.75 3173.31 3477.55 2365.3 3264.45 TRUE FALSE FALSE 3160.441108 2916.407965 3312.581902 2785.615747 2764.092508 3398.232401 2816.240807 3388.599306 2348.839685 3405.196415 0.928122999 0.856458075 0.972802005 0.818048479 0.811727774 0.997954886 0.827042104 0.995125947 0.68978097 1 11.7335223 -8.333912521 0.703768339 0.994976275 0.893527587 0 0.117423312 0.616272392 0.654067588 0.028891916 0.015388048 4.64E-09 8.333912521 -0.101448688 RLFT(ph)PT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 RLFTPTR 7 1 A8MYV0 A8MYV0 DCDC2C Doublecortin domain-containing protein 2C 2 0 RLFT(1)PT(1)R 61.78 0.020488 2210100 1954.7 2233.1 1782.2 1912.7 2129.2 2882.7 2315.4 2049.5 2320.1 2421.4 TRUE FALSE FALSE 2160.304314 2305.453905 2025.068935 1949.723074 1966.061156 2637.077742 2054.865098 1997.076758 2303.954235 2525.798404 0.855295621 0.912762436 0.801753985 0.771923472 0.778391954 1.044057094 0.813550715 0.790671478 0.912168695 1 11.30252378 -9.094592143 0.551988217 1.020871058 0.84213524 0.201226981 0.081487069 1.058459302 0.498132997 0.097059833 0.019613437 8.04E-10 9.094592143 -0.178735818 RLGDS(ph)SLSR ddPTM_HeLa_SAHA_4h_R1 1 RLGDSSLSR 9 1 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 1 0 RLGDS(0.499)S(0.499)LS(0.001)R 75.088 0.017178 15264000 984.33 1020.5 1030.6 999.06 1170.1 1415.3 1029.1 1244.5 742.83 1218.6 TRUE FALSE FALSE 1087.866346 1053.56487 1171.044801 1018.398251 1080.447191 1294.708478 913.3029596 1212.667492 737.6605855 1271.13981 0.855819586 0.828834768 0.921255704 0.801169347 0.84998297 1.018541366 0.718491351 0.954000089 0.580314282 1 10.311907 -9.188123806 0.816446116 1.004743684 0.865619803 0 0.15278744 0.644249596 0.734856715 0.056818369 0.014156906 6.48E-10 9.188123806 -0.139123881 RLGDSS(ph)LSR ddPTM_HeLa_SAHA_4h_R1 1 RLGDSSLSR 9 1 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 1 0 RLGDS(0.002)S(0.998)LSR 166.86 0.00012811 72883000 6784.3 5633.4 6094 6660.1 6913.8 7072.2 6315.2 6531.4 4460.3 5991.1 TRUE FALSE FALSE 7497.903801 5815.925856 6924.458584 6789.015866 6384.066138 6469.608773 5604.597075 6364.336245 4429.260409 6249.405641 1.199778704 0.930636638 1.108018743 1.086345847 1.021547729 1.035235852 0.896820817 1.018390646 0.708749066 1 12.60950327 -5.293570276 1.469410606 1.083676945 0.96043728 0 0.139954329 0.505042228 2.029767767 0.01373765 0.050802684 5.09E-06 5.293570276 -0.123239665 RLGGLRPES(ph)PESLTSVSR ddPTM_HeLa_SAHA_4h_R1 2 RLGGLRPESPESLTSVSR 18 2 Q9H6F5;H0YG79 Q9H6F5 CCDC86 Coiled-coil domain-containing protein 86 1 0 RLGGLRPES(0.822)PES(0.036)LT(0.102)S(0.036)VS(0.003)R;RLGGLRPES(0.996)PES(0.002)LT(0.001)S(0.001)VSR ; 98.727 0.0015695 304660000 3063.1 2442.85 3078.75 2791.61 2619.34 2921.2 3706.8 3042.5 2129.51 2457.69 TRUE FALSE FALSE 3385.290912 2521.999943 3498.306017 2845.645648 2418.646735 2672.297326 3289.701108 2964.677255 2114.690567 2563.653044 1.320494956 0.983752442 1.364578575 1.1099964 0.943437624 1.0423787 1.283208395 1.156426866 0.824873932 1 11.32398531 -6.034688497 24.98470405 1.158091937 1.103460837 0 0.17317219 2292.024394 1650848.487 0.024439611 0.040543762 9.23E-07 6.034688497 -0.054631101 RLGS(ph)VQR ddPTM_HeLa_SAHA_4h_R1 2 RLGSVQR 7 1 G3V1X7;Q8N999-2;Q8N999 G3V1X7 C12orf29 Uncharacterized protein C12orf29 1 0 RLGS(1)VQR;RLGS(1)VQR ; 91.265 0.010086 3231800 940.98 743.73 663.58 966.62 1086.15 1097.47 1692.99 1731.16 1268.6 974.39 TRUE FALSE FALSE 1039.956594 767.82734 754.0092266 985.3303279 1002.929422 1003.959382 1502.490309 1686.879434 1259.771709 1016.400721 1.023175773 0.755437618 0.741842475 0.969430961 0.986746074 0.987759415 1.478246008 1.659659816 1.239443935 1 9.989253589 -4.689863179 3.204884656 0.965670307 1.63145649 0.773027298 0.132936763 0.072946849 1.448806317 0.01643605 0.075104878 2.04E-05 4.689863179 0.665786184 RLGSGPDRELRK ddPTM_HeLa_SAHA_4h_R1 1 RLGSGPDRELRK 12 3 Q6NUJ5-2;Q6NUJ5 Q6NUJ5-2 PWWP2B PWWP domain-containing protein 2B 0 0 120.09 0.012859 1100400 274.19 295 323.41 656.63 446.38 720.66 337.12 339.05 366.78 494.93 FALSE FALSE TRUE 303.0305622 304.5581936 367.4826306 669.3400232 412.1784608 659.2557137 299.1863703 330.3775919 364.2275481 516.2688544 0.586962703 0.589921687 0.711804765 1.296495067 0.798379483 1.276962009 0.579516598 0.639933223 0.705499751 1 9.011978755 RLIFSTITSK ddPTM_HeLa_SAHA_4h_R1 1 RLIFSTITSK 10 1 P43686;P43686-2 P43686 PSMC4 26S protease regulatory subunit 6B 0 0 117.25 0.00018616 0 1230.4 1221.5 1153.8 1605.9 1528.7 1013.4 1660.5 990.34 994.67 1175.5 FALSE FALSE TRUE 1359.819117 1261.077401 1311.033855 1636.984517 1411.571336 927.0526188 1473.65617 965.0085368 987.7480105 1226.181558 1.108986764 1.028458953 1.069200435 1.335026209 1.151192764 0.756048411 1.201825423 0.787002977 0.805547926 1 10.2599569 -4.241728613 23.60943103 1.065449082 0.78700242 0.183660683 0.164152725 2236.167333 2678377.854 0.018947213 0.88714054 5.73E-05 4.241728613 -0.278446662 RLLEDGEDFNLGDALDSS(ph)NSMQTIQK ddPTM_HeLa_SAHA_4h_R1 1 RLLEDGEDFNLGDALDSSNSMQTIQK 26 1 P05783 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 RLLEDGEDFNLGDALDS(0.045)S(0.465)NS(0.465)MQT(0.026)IQK 108.52 6.79E-07 11513000 993.46 692.69 1084.4 580.6 855.98 996.64 1022 1126.2 555.96 852.66 TRUE FALSE FALSE 1097.956681 715.1336105 1232.176385 591.8383526 790.3949973 911.7206651 907.0018702 1097.393435 552.0910291 889.4223454 1.234460419 0.804042775 1.385367021 0.665418803 0.888661052 1.025070564 1.019765104 1.233827147 0.620729884 1 9.79672484 -7.29038764 24.98027547 1.110717404 1.001951456 0 0.251900959 1631.260522 1407656.343 0.033844057 0.038704709 5.12E-08 7.29038764 -0.108765947 RLNHS(ph)PPQSSSR ddPTM_HeLa_SAHA_4h_R1 4 RLNHSPPQSSSR 12 1 A0A087X0H9;Q5T8P6-3;Q5T8P6-2;Q5T8P6 A0A087X0H9 RBM26 RNA-binding protein 26 1 0 RLNHS(0.995)PPQS(0.003)S(0.002)SR;RLNHS(0.997)PPQS(0.001)S(0.002)SR;RLNHS(0.992)PPQS(0.005)S(0.003)S(0.001)R;RLNHS(0.922)PPQS(0.052)S(0.025)S(0.001)R ;;; 130.66 0.00053598 201443000 7048.3 7634.3 5171.5 7053.1 8348.4 9624.8 8155.2 7697.1 6778.6 6954.2 TRUE FALSE FALSE 7789.672533 7881.656329 5876.245088 7189.622949 7708.747396 8804.712892 7237.555433 7500.219327 6731.427171 7254.029595 1.073840743 1.086521116 0.810066324 0.99112126 1.062684856 1.213768537 0.997728964 1.033938341 0.927956949 1 12.82456692 -5.551218003 11.23096383 1.018837826 1.084181652 0.136360899 0.093469589 1.095643709 429.6070171 0.013426054 0.026917796 2.81E-06 5.551218003 0.065343826 RLNVALTR ddPTM_HeLa_SAHA_4h_R1 1 RLNVALTR 8 1 Q92900-2;Q92900 Q92900-2 UPF1 Regulator of nonsense transcripts 1 0 0 121.05 0.00025151 0 405.84 482.32 664.78 329.69 535.32 357.94 432.25 323.71 233.56 408.64 FALSE FALSE TRUE 448.5281133 497.9474845 755.3727564 336.0716267 494.3038973 327.4414983 383.6120924 315.4299669 231.9346369 426.2584702 1.052244459 1.168182029 1.772100284 0.788422167 1.159634193 0.768175933 0.899951835 0.739996948 0.544117368 1 8.735584692 -5.257277196 24.78359971 1.083348477 0.812432585 0.142460875 0.297980981 395.4551581 2354711.679 0.03454242 0.084704437 5.53E-06 5.257277196 -0.270915892 RLPDAHSDYAR ddPTM_HeLa_SAHA_4h_R1 2 RLPDAHSDYAR 11 1 Q96PK6 Q96PK6 RBM14 RNA-binding protein 14 0 0 ; ; 139.15 0.00043362 9020800 1759.59 1313.9 1574.94 1936.8 1855.43 1933.17 1897.19 1268.54 1482.05 1374.37 FALSE FALSE TRUE 1944.671749 1356.471222 1789.564621 1974.289565 1713.267354 1768.45304 1683.713188 1236.092584 1471.736293 1433.625817 1.356470933 0.946182195 1.248278735 1.377130309 1.195058944 1.23355273 1.174443965 0.862214233 1.02658328 1 10.48545281 -4.262129641 6.434467129 1.182576135 0.85563787 0.313612482 0.137373389 0.125305681 30.34627256 0.021516068 0.178293973 5.47E-05 4.262129641 -0.326938264 RLPNNHIGISFIPR ddPTM_HeLa_SAHA_4h_R1 2 RLPNNHIGISFIPR 14 1 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 ; ; 90.731 0.0050903 15276900 2051.02 4778.4 1996.76 2323.5 4257.4 4732.4 5915.7 2822.2 3677.6 3032.5 FALSE FALSE TRUE 2266.755694 4933.223295 2268.868054 2368.474702 3931.198932 4329.172896 5250.049867 2750.01221 3652.007282 3163.245916 0.716591677 1.559544666 0.717259459 0.748748205 1.242773732 1.368585627 1.659703357 0.869364028 1.154512605 1 11.62719 -5.638746831 5.590211581 0.901625043 1.330097956 0.161876186 0.303615924 0.188992478 8.549931803 0.041805907 0.084505862 2.30E-06 5.638746831 0.428472913 RLPQFDDDADTGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 RLPQFDDDADTGKK 14 2 O43257 O43257 ZNHIT1 Zinc finger HIT domain-containing protein 1 0 1 ; RLPQFDDDADTGK(1)K;RLPQFDDDADTGK(1)K 193.06 1.58E-17 4140800 1728.67 2182.4 2494.4 2721.6 3689.9 4099.1 4004.2 3775.8 1506.16 1966.33 FALSE TRUE FALSE 1910.499442 2253.111192 2834.323842 2774.280503 3407.180659 3749.833619 3553.636878 3679.220503 1495.67851 2051.108109 0.931447462 1.098484854 1.381850049 1.35257644 1.661141431 1.828198915 1.732544892 1.793772101 0.729205108 1 11.00218782 -6.218641338 0.908903661 0.962414159 1.803132901 0.926124332 0.102281725 0.075460893 0.122961122 0.01380574 0.031600379 6.04E-07 6.218641338 0.840718742 RLPSS(ph)PASPSPK ddPTM_HeLa_SAHA_4h_R1 3 RLPSSPASPSPK 12 1 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0;Q9H4G0-4;H7C2K6;X6RC15 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 RLPS(0.014)S(0.986)PASPSPK;RLPS(0.203)S(0.797)PASPSPK;RLPS(0.032)S(0.967)PAS(0.001)PSPK ;; 99.669 0.005967 75591000 12648.8 13917.6 13845.3 12325.1 14519.1 14935.1 16741.8 14181.8 13740 15194.4 TRUE FALSE FALSE 13979.25882 14368.53937 15732.06538 12563.67013 13406.64969 13662.54546 14857.9686 13819.05009 13644.38222 15849.50494 0.881999713 0.906560768 0.992590332 0.792685335 0.845871826 0.862017174 0.937440548 0.871891592 0.860871192 1 13.95215016 -9.889691395 0.382449826 1.070937132 0.87794081 0 0.066707553 2.970509094 0.39690421 0.248853447 0.017557904 1.29E-10 9.889691395 -0.192996322 RLPSSPASPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 RLPSSPASPSPK 12 1 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0;Q9H4G0-4;H7C2K6;X6RC15 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 RLPSSPAS(0.016)PS(0.984)PK;RLPSSPAS(0.035)PS(0.965)PK ; 140.49 0.0003442 315860000 3766.7 4257.8 3605.4 4281.1 4323.1 4534.6 4951.9 4717.6 5458.8 4369.1 TRUE FALSE FALSE 4162.898788 4395.755514 4096.725136 4363.966881 3991.865012 4148.226569 4394.699179 4596.930623 5420.811766 4557.473283 0.913422533 0.964515915 0.898902721 0.957540859 0.875894331 0.910203157 0.964284134 1.008657723 1.189433581 1 12.15401848 -9.404712373 1.03909128 1.00143048 0.933264505 0.290741403 0.071173233 0.544235179 1.015111912 0.028162687 0.006575188 3.94E-10 9.404712373 -0.068165975 RLPTEEEWEFAAR ddPTM_HeLa_SAHA_4h_R1 2 RLPTEEEWEFAAR 13 1 C9JL30;A8MXB9;H7C3B2;A0A494C1B1;J3KQJ1;C9J660;F8WA42;Q8NBJ7-2;Q8NBJ7;Q8NBJ7-3 C9JL30 SUMF2 Sulfatase-modifying factor 2 0 0 ; ; 153.39 0.00025826 9137200 2487.2 2749.7 3013.6 4572.1 3145.9 3039 3432.5 3416.3 4317.3 2645.1 FALSE FALSE TRUE 2748.815108 2838.792084 3424.277714 4660.599607 2904.861822 2780.060103 3046.266066 3328.915993 4287.255558 2759.143206 0.996256773 1.028867251 1.241065598 1.689147413 1.052812995 1.007580939 1.104062326 1.206503521 1.553835824 1 11.43000462 -6.811352421 5.789596968 0.999500566 1.216218518 0 0.247972773 0.21166802 15.76505537 0.029406022 0.039155608 1.54E-07 6.811352421 0.216717952 RLQSIGTENTEENRR ddPTM_HeLa_SAHA_4h_R1 2 RLQSIGTENTEENRR 15 2 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7;H3BR04;H3BMQ8 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 ; ; 115.34 0.0006643 23833400 1322.35 1305.68 1599.68 1792.93 1314.63 1505.24 1467 1652.88 1010.95 1209.64 FALSE FALSE TRUE 1461.44084 1347.984889 1817.67606 1827.634753 1213.903333 1376.985084 1301.929299 1610.601723 1003.914717 1261.7935 1.15822505 1.068308632 1.440549551 1.448442041 0.962045955 1.091291946 1.031808532 1.276438437 0.795625208 1 10.30126011 -8.730946181 0.776858176 1.006437536 1.183742494 0.268242409 0.169338868 0.920669867 1.092442202 0.087416234 0.034850568 1.86E-09 8.730946181 0.177304958 RLS(ph)APLPSSCGDPEK ddPTM_HeLa_SAHA_4h_R1 2 RLSAPLPSSCGDPEK 15 1 H0YKX0;Q96EP0-3;Q96EP0 H0YKX0 RNF31 E3 ubiquitin-protein ligase RNF31 1 0 RLS(1)APLPSSCGDPEK;RLS(1)APLPSSCGDPEK ; 114.9 0.0007005 14197700 3838.2 4186.8 3683.4 4314.8 4827.6 5593 4784.2 4865.6 5041.6 4071 TRUE FALSE FALSE 4241.919486 4322.455067 4185.35457 4398.319193 4457.710331 5116.444935 4245.869225 4741.144997 5006.515095 4246.520733 0.998916467 1.017881541 0.98559617 1.035746549 1.049732384 1.204855753 0.999846578 1.116477534 1.178968716 1 12.05206558 -5.737837151 2.599078675 1.00085835 1.098754107 0.040148848 0.074139162 0.171033431 2.358528172 0.00650251 0.0137266 1.83E-06 5.737837151 0.097895757 RLS(ph)AQFENLMAESR ddPTM_HeLa_SAHA_4h_R1 2 RLSAQFENLMAESR 14 1 Q9H7C4-2;Q9H7C4 Q9H7C4-2 SYNC Syncoilin 1 0 RLS(1)AQFENLMAESR;RLS(1)AQFENLMAESR ; 91.622 0.0042877 20496300 762.33 765.96 768.21 933.45 1149.11 1161.42 1272.66 1064.45 1006.43 984.91 TRUE FALSE FALSE 842.5153671 790.7776066 872.8976581 951.5182745 1061.06544 1062.460482 1129.456947 1037.22291 999.4261717 1027.37429 0.820066625 0.769707413 0.849639383 0.926165161 1.032793452 1.034151324 1.099362675 1.009586205 0.972796557 1 10.00474616 -5.786184471 3.334775762 0.894909652 1.05033391 0.563897323 0.066963939 0.184650458 4.265615482 0.013018442 0.025872468 1.64E-06 5.786184471 0.155424257 RLS(ph)ASSTGSTR ddPTM_HeLa_SAHA_4h_R1 3 RLSASSTGSTR 11 1 A0A2R8Y5E4;A0A2R8YFK2;A0A2R8Y6M6;A0A2R8Y4C2;A0A2R8YFS8;A0A2R8Y8C4;A0A2R8Y5C9;A0A2R8Y596;P56945-4;P56945-5;P56945-8;P56945;P56945-7;P56945-3;P56945-2;P56945-6 A0A2R8Y5E4 BCAR1 Breast cancer anti-estrogen resistance protein 1 1 0 RLS(0.936)AS(0.058)S(0.004)T(0.001)GSTR;RLS(0.849)AS(0.072)S(0.072)T(0.006)GSTR;RLS(0.898)AS(0.051)S(0.051)TGSTR ;; 143.55 0.0019905 26999900 2257.27 1814.66 1657.55 2161.69 2481.6 2297.15 2905.36 2302.04 1863.65 1783.14 TRUE FALSE FALSE 2494.700015 1873.456175 1883.432282 2203.532636 2291.460344 2101.419897 2578.441246 2243.15715 1850.680708 1860.019892 1.341222224 1.007223731 1.012587172 1.184682296 1.231954752 1.129783561 1.386243909 1.20598557 0.994978987 1 10.86110233 -9.63172883 1.452888614 1.000031503 1.205322424 0.289218902 0.116098858 0.457074135 1.733877696 0.090331138 0.020587557 2.33E-10 9.63172883 0.205290922 RLS(ph)DCESTDVK ddPTM_HeLa_SAHA_4h_R1 2 RLSDCESTDVK 11 1 Q7Z333-3;Q7Z333;Q7Z333-4 Q7Z333-3 SETX Probable helicase senataxin 1 0 RLS(0.992)DCES(0.004)T(0.004)DVK;RLS(1)DCESTDVK ; 111.64 0.0019758 6564200 1694.55 1807.78 1538.64 1945 2309.3 2916.5 2466.9 2414.21 2040.45 1942.09 TRUE FALSE FALSE 1872.790544 1866.353258 1748.317846 1982.648288 2132.361933 2667.997792 2189.317919 2352.458004 2026.250342 2025.823004 0.924459116 0.921281501 0.863016089 0.978687814 1.052590443 1.316994519 1.080705429 1.161235705 1.000210945 1 10.98429242 -5.553924813 3.754171072 0.952846382 1.17805718 0.714106078 0.067195197 0.092804163 2.808504921 0.009821104 0.021259055 2.79E-06 5.553924813 0.225210797 RLS(ph)DEHEPEQR ddPTM_HeLa_SAHA_4h_R1 2 RLSDEHEPEQR 11 1 Q9UK59-2;Q9UK59 Q9UK59-2 DBR1 Lariat debranching enzyme 1 0 RLS(1)DEHEPEQR;RLS(1)DEHEPEQR ; 116.58 0.0013407 28708400 2625.2 2679.6 2229.25 2533 3168.8 3389.3 3033.3 2724.5 2945.7 3233.3 TRUE FALSE FALSE 2901.330581 2766.420798 2533.040581 2582.029878 2926.007229 3100.512572 2691.985101 2654.811235 2925.200634 3372.703386 0.860238879 0.820238391 0.75104161 0.765566841 0.867555457 0.919295953 0.798168351 0.787146372 0.867316303 1 11.71968973 -8.578252363 0.684385321 0.996448843 0.817202674 0.281370458 0.061163483 0.332121546 0.315121774 0.029615368 0.012399715 2.64E-09 8.578252363 -0.179246169 RLS(ph)ESSALK ddPTM_HeLa_SAHA_4h_R1 2 RLSESSALK 9 1 Q96S55-2;Q96S55 Q96S55-2 WRNIP1 ATPase WRNIP1 1 0 RLS(0.986)ES(0.013)S(0.002)ALK;RLS(0.982)ES(0.016)S(0.002)ALK ; 116.74 0.0022139 21813000 4595.8 7290.4 4792.9 6791.5 8059.3 9687.1 9650.8 7655.5 9147.4 6033.6 TRUE FALSE FALSE 5079.20733 7526.613743 5446.051452 6922.959303 7441.798175 8861.704582 8564.866584 7459.683395 9083.742499 6293.738024 0.80702554 1.195889266 0.865312701 1.099975766 1.182413082 1.408019296 1.360855274 1.185254831 1.443298476 1 12.61970141 -5.843175553 1.615910085 0.927362989 1.322081854 0.06372429 0.199456829 0.16596718 0.87516714 0.019208775 0.043511698 1.43E-06 5.843175553 0.394718864 RLS(ph)IIGPTSR ddPTM_HeLa_SAHA_4h_R1 2 RLSIIGPTSR 10 1 Q9Y2U5 Q9Y2U5 MAP3K2 Mitogen-activated protein kinase kinase kinase 2 1 0 RLS(1)IIGPTSR;RLS(1)IIGPTSR ; 98.942 0.0059061 8379400 1151.49 1208.48 930.33 1257.92 1331.29 1710.15 1456.24 1198.61 1155.28 993.85 TRUE FALSE FALSE 1272.609001 1247.635545 1057.110527 1282.268861 1229.286848 1564.435599 1292.380043 1167.951292 1147.240312 1036.699737 1.227557947 1.203468565 1.019688237 1.236875842 1.185769422 1.509053724 1.246629083 1.126605178 1.106627378 1 10.01778239 -13.52287875 0.176996612 0.035615465 1.284475842 0.236923 0.118732125 46.43100696 0.527725638 15.43297962 0.16935493 3.00E-14 13.52287875 1.248860377 RLS(ph)LESEGAGEGAAASPELSALEEAFR ddPTM_HeLa_SAHA_4h_R1 1 RLSLESEGAGEGAAASPELSALEEAFR 27 1 O94811 O94811 TPPP Tubulin polymerization-promoting protein 1 0 RLS(0.82)LES(0.18)EGAGEGAAASPELSALEEAFR 130.58 5.19E-10 2925000 228.66 368.96 261.97 330.2 239.12 445.56 246.28 319.33 245.56 296.66 TRUE FALSE FALSE 252.7115079 380.9145461 297.6699073 336.5914985 220.7986773 407.5957813 218.5679262 311.162001 243.851128 309.4504644 0.816646077 1.23093868 0.961930718 1.087707201 0.713518649 1.317160025 0.706309899 1.00553089 0.78801345 1 8.273564677 RLS(ph)LGAQK ddPTM_HeLa_SAHA_4h_R1 2 RLSLGAQK 8 1 Q9H788-2;Q9H788 Q9H788-2 SH2D4A SH2 domain-containing protein 4A 1 0 RLS(1)LGAQK;RLS(1)LGAQK ; 97.813 0.00659 18218800 5430.3 6852.8 6190.7 5347.2 8920.9 7884 9164.9 7859 5178.9 7402.8 TRUE FALSE FALSE 6001.483869 7074.835216 7034.336356 5450.702788 8237.382569 7212.238846 8133.641331 7657.97816 5142.859613 7721.970936 0.777195863 0.916195525 0.910950898 0.705869374 1.066746124 0.93398938 1.05331157 0.991712896 0.666003493 1 12.91475341 -5.695677641 25 0.883655742 1.008898689 0.346054842 0.108111207 62.34095258 23698.69604 0.014745835 0.029491666 2.02E-06 5.695677641 0.125242947 RLS(ph)LPADIR ddPTM_HeLa_SAHA_4h_R1 3 RLSLPADIR 9 1 F5H6Z0;Q00537-2;Q00537;F8VZY6;F8VQZ9;E5RJM2;E5RGN0;A0A087WZU2;Q00536;Q00536-3;Q00536-2;E5RIY8;H0YBX5;E5RIU4 F5H6Z0;E5RJM2 CDK17;CDK16 Cyclin-dependent kinase 17;Cyclin-dependent kinase 16 1 0 RLS(1)LPADIR;RLS(1)LPADIR;RLS(1)LPADIR ;; 96.23 0.0069925 88136500 9901.8 10521.7 8721.7 11916.3 13921.2 14524 12886.5 12225.5 14690.3 10242 TRUE FALSE FALSE 10943.31676 10862.60998 9910.247855 12146.95722 12854.56066 13286.47349 11436.4771 11912.78941 14588.06901 10683.58274 1.024311508 1.016757229 0.927614649 1.136974132 1.203206918 1.243634632 1.070472086 1.115055661 1.365466001 1 13.38310792 -6.13427785 6.366347451 1.006706181 1.159202339 0.007212597 0.124258777 0.107399583 5.146355059 0.00775981 0.012949698 7.34E-07 6.13427785 0.152496158 RLS(ph)MEIEK ddPTM_HeLa_SAHA_4h_R1 3 RLSMEIEK 8 1 A0A5K1VW66;P35240-4;P35240-6;P35240-5;P35240-3;P35240;P35240-2;P35240-8 A0A5K1VW66 NF2 Merlin 1 0 RLS(1)MEIEK;RLS(1)MEIEK;RLS(1)MEIEK ;; 98.156 0.0048854 39985000 7234.6 8798.9 6598.6 7371.3 9464.5 9363.2 10343.4 8592.3 9068.5 7915.6 TRUE FALSE FALSE 7995.568422 9083.990133 7497.822844 7513.982171 8739.332055 8565.402684 9179.53341 8372.521408 9005.39157 8256.880254 0.968352232 1.100172202 0.908069708 0.910026782 1.058430277 1.037365496 1.111743555 1.014005429 1.090653042 1 13.01138107 -5.687148054 24.95160824 0.983195512 1.058125366 0.149107973 0.064794659 37.43646572 12572.28033 0.007788999 0.015577996 2.06E-06 5.687148054 0.074929854 RLS(ph)PISGSR ddPTM_HeLa_SAHA_4h_R1 1 RLSPISGSR 9 1 E9PQ01 E9PQ01 PCF11 1 0 RLS(1)PISGSR 93.345 0.0080355 10769000 1106.7 1128.9 1074.1 1363.9 1171.2 1481.1 1346.3 1249.4 1145.3 1124.7 TRUE FALSE FALSE 1223.107784 1165.477101 1220.472754 1390.300257 1081.462909 1354.901948 1194.810781 1217.442157 1137.329764 1173.191321 1.042547589 0.993424584 1.040301554 1.185058423 0.921812913 1.154885757 1.018427906 1.037718346 0.969432473 1 10.19622259 -8.515644673 0.392968695 0.993921155 1.057985269 0.114603351 0.071228897 3.120694046 0.971700769 0.083747626 0.028600387 3.05E-09 8.515644673 0.064064114 RLS(ph)PPACTLR ddPTM_HeLa_SAHA_4h_R1 1 RLSPPACTLR 10 1 P28360 P28360 MSX1 Homeobox protein MSX-1 1 0 RLS(1)PPACTLR 76.282 0.015577 4174200 1792.6 1831 1769.4 2139 2306.9 2579 1997.8 1903.1 1971.7 2104.5 TRUE FALSE FALSE 1981.153893 1890.325601 2010.524617 2180.403438 2130.14582 2359.254691 1773.002286 1854.421458 1957.978779 2195.235294 0.902479064 0.861103867 0.91585837 0.993243614 0.97034966 1.07471609 0.807659339 0.84474838 0.891922057 1 11.10015987 -9.346840026 1.105763439 0.999400497 0.923140712 0 0.080487101 0.8679801 1.922046286 0.050014783 0.013506729 4.50E-10 9.346840026 -0.076259785 RLS(ph)QPESAEK ddPTM_HeLa_SAHA_4h_R1 7 RLSQPESAEK 10 1 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 RLS(1)QPESAEK;RLS(1)QPESAEK;RLS(1)QPESAEK;RLS(1)QPESAEK;RLS(0.999)QPES(0.001)AEK;RLS(0.995)QPES(0.005)AEK;RLS(0.975)QPES(0.025)AEK ;;;;;; 151.66 0.0014345 423125400 18385.4 18772 16658.2 21308.5 25131 29867.8 31670.5 32579.1 20050 19327.7 TRUE FALSE FALSE 20319.26073 19380.22512 18928.29274 21720.95683 23205.46821 27322.89541 28106.85199 31745.7738 19910.47042 20161.01173 1.007849259 0.961272449 0.938856293 1.077374346 1.151007128 1.355234339 1.394119122 1.574612138 0.987572979 1 14.29928042 -5.13237381 1.039517607 0.994498449 1.559743162 0.965687962 0.0386917 0.085868218 0.148038308 0.00616262 0.03804374 7.37E-06 5.13237381 0.565244713 RLS(ph)QRPTPEELEQR ddPTM_HeLa_SAHA_4h_R1 1 RLSQRPTPEELEQR 14 2 Q8IZ21-3;Q8IZ21;Q8IZ21-2 Q8IZ21-3 PHACTR4 Phosphatase and actin regulator 4 1 0 RLS(0.931)QRPT(0.069)PEELEQR 70.889 0.010889 7461500 754.87 884.5 861.15 655.71 887.42 832.6 978.91 719.78 684 851.6 TRUE FALSE FALSE 834.2706901 913.1583803 978.5030373 668.4022152 819.4260713 761.6577959 868.7604705 701.3690698 679.2399883 888.3166436 0.939159134 1.027964957 1.101525052 0.752436893 0.92244818 0.857417005 0.977985133 0.789548496 0.764637242 1 9.794930212 -6.261580572 24.99999985 0.984574985 0.869853195 0.206858198 0.100539547 10.38946518 1839620.553 0.010849071 0.017243251 5.48E-07 6.261580572 -0.11472179 RLS(ph)QSDEDVIR ddPTM_HeLa_SAHA_4h_R1 2 RLSQSDEDVIR 11 1 H0Y917;A0A499FIZ0;Q9H7D7-3;Q9H7D7-4;Q9H7D7-2;Q9H7D7 H0Y917 WDR26 WD repeat-containing protein 26 1 0 RLS(0.989)QS(0.011)DEDVIR;RLS(0.987)QS(0.013)DEDVIR ; 148.41 0.0011392 58794000 2191.6 2372.9 2021.12 2387 2128.3 2360.6 2632.3 2319.7 2099.98 1873.75 TRUE FALSE FALSE 2422.122543 2449.783517 2296.547708 2433.203837 1965.230114 2159.4636 2336.106676 2260.365433 2085.366068 1954.536532 1.239231144 1.253383335 1.174983261 1.244900669 1.00547116 1.104846885 1.195222825 1.156471315 1.066936347 1 10.93261084 -9.427877328 1.17568903 1.000674606 1.176186405 0.353783824 0.072949986 0.364262651 0.90593863 0.05127773 0.013090007 3.73E-10 9.427877328 0.1755118 RLS(ph)TPQR ddPTM_HeLa_SAHA_4h_R1 2 RLSTPQR 7 1 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 RLS(0.827)T(0.173)PQR;RLS(0.808)T(0.192)PQR ; 70.908 0.01908 31484700 1498.63 1868.98 1635.2 1750.79 2458.83 2538.46 2428.88 2643.13 1653.47 1418.06 TRUE FALSE FALSE 1656.262779 1929.536178 1858.03654 1784.679072 2270.434977 2322.168927 2155.57603 2575.522562 1641.963368 1479.199506 1.11970209 1.304446202 1.256109492 1.206516812 1.534907879 1.569882167 1.457258484 1.741159695 1.110035097 1 10.53060093 -4.946134751 0.269973669 0.973635217 2.058578295 0.844230877 0.088924655 1.417115011 0.108477343 0.053370853 0.49663151 1.13E-05 4.946134751 1.084943078 RLS(ph)YNTASNK ddPTM_HeLa_SAHA_4h_R1 1 RLSYNTASNK 10 1 P49207 P49207 RPL34 60S ribosomal protein L34 1 0 RLS(0.92)YNT(0.034)AS(0.045)NK 68.262 0.021367 3590800 1833.9 7359.9 2275.3 3547 3408 2537.4 4422.2 2639.2 1829.8 2933.7 TRUE FALSE FALSE 2026.798016 7598.365589 2585.366035 3615.657314 3146.879776 2321.199245 3924.602417 2571.693086 1817.066273 3060.186164 0.662311999 2.48297495 0.844839463 1.181515477 1.028329522 0.758515698 1.282471787 0.84037145 0.593776383 1 11.57940371 RLSQPES(ph)AEK ddPTM_HeLa_SAHA_4h_R1 1 RLSQPESAEK 10 1 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 RLS(0.004)QPES(0.996)AEK 78.903 0.008719 0 574.78 631.67 273.99 625.77 445.16 747.1 667.63 466.14 699.07 509.53 TRUE FALSE FALSE 635.2379976 652.1365225 311.3279303 637.8826832 411.051937 683.4428769 592.5065153 454.2168138 694.205115 531.4983319 1.195183427 1.226977553 0.585755235 1.200159333 0.773383306 1.285879627 1.114785277 0.854596876 1.306128492 1 9.053921354 RLSSSSATLLNS(ph)PDR ddPTM_HeLa_SAHA_4h_R1 3 RLSSSSATLLNSPDR 15 1 A0A087WZ40;Q14244-5;Q14244-3;Q14244-6;Q14244;Q14244-7 A0A087WZ40 MAP7 Ensconsin 1 0 RLSSSSATLLNS(1)PDR;RLSSSSATLLNS(1)PDR;RLSSSSATLLNS(1)PDR ;; 165.58 1.03E-05 48426000 3445.24 3639.81 2676.61 3726.81 4051.9 4363.5 4171.9 3752.15 4516.5 3647 TRUE FALSE FALSE 3807.626151 3757.742232 3041.364472 3798.947797 3741.444297 3991.705252 3702.466832 3656.175436 4485.069309 3804.240018 1.000890094 0.987777379 0.799467031 0.998608862 0.983493229 1.049277972 0.973247433 0.961079064 1.178965914 1 11.89339256 -6.987162557 24.99887371 1.000099994 0.961974721 0.115994521 0.082436182 479.8506207 934429.8469 0.009781996 0.012852821 1.03E-07 6.987162557 -0.038125273 RLSSST(ph)VAISYSPDR ddPTM_HeLa_SAHA_4h_R1 1 RLSSSTVAISYSPDR 15 1 Q96T17-2;Q96T17;Q96T17-5 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 RLS(0.132)S(0.245)S(0.151)T(0.468)VAIS(0.003)YSPDR 95.755 0.0021989 0 728.81 601.6 860.79 798.86 746.79 827.43 923.98 755.82 555.85 560.54 TRUE FALSE FALSE 805.4695797 621.0922347 978.0939784 814.3230905 689.5711115 756.928309 820.0113386 736.4872188 551.9817946 584.7076226 1.377559567 1.062227019 1.672791564 1.392701342 1.179343461 1.294541545 1.402429705 1.259582038 0.944030441 1 9.191571589 -9.334611101 0.723339955 0.963314795 1.3375462 0.463405067 0.15301577 0.710199261 0.559195413 0.165845161 0.030155956 4.63E-10 9.334611101 0.374231405 RLSSSTVAISYS(ph)PDR ddPTM_HeLa_SAHA_4h_R1 1 RLSSSTVAISYSPDR 15 1 Q96T17-2;Q96T17;Q96T17-5 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 RLSSSTVAIS(0.001)YS(0.999)PDR 106.6 0.007007 6355400 573.78 742.92 485.49 681.2 909.42 658.12 823.29 685.84 778.92 742.5 TRUE FALSE FALSE 634.132813 766.9910954 551.6500489 694.385611 839.7404361 602.0444735 730.6512424 668.2972059 773.4994323 774.5128087 0.818750582 0.990288459 0.712254262 0.896545032 1.084217623 0.777320229 0.94336883 0.862861399 0.998691595 1 9.597145288 -9.544616775 1.299940306 1.000216936 0.880053315 0.167601563 0.100479602 0.640197672 1.932119906 0.067856938 0.015981989 2.85E-10 9.544616775 -0.120163621 RLT(ph)VNEAVK ddPTM_HeLa_SAHA_4h_R1 2 RLTVNEAVK 9 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 RLT(1)VNEAVK;RLT(1)VNEAVK ; 138.89 0.0015976 18795600 5745.3 5251.6 5920.8 6138.2 6109.7 5273.4 6263.2 5346.8 3205.1 5086.4 TRUE FALSE FALSE 6349.617014 5421.755286 6727.65579 6257.013737 5641.576106 4824.076653 5558.448252 5210.036598 3182.795448 5305.699596 1.196753962 1.021873777 1.26800541 1.179300415 1.063304849 0.909225365 1.047637197 0.981969767 0.599882332 1 12.37332728 -5.513616798 23.77042664 1.109631895 0.986388678 0 0.18078066 250.3244759 642445.9229 0.014241646 0.029824064 3.06E-06 5.513616798 -0.123243218 RLTDLDK(ac)AQLLEIAK ddPTM_HeLa_SAHA_4h_R1 1 RLTDLDKAQLLEIAK 15 2 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;H7C1M2;H7C2G8 P18583-10 SON Protein SON 0 1 RLTDLDK(1)AQLLEIAK 124.25 0.00028742 4233500 2142.3 1481.7 2919.5 2425.3 2075.9 1816.6 2308.6 2060.4 1592.3 1907.4 FALSE TRUE FALSE 2367.636943 1529.708052 3317.354256 2472.245189 1916.84499 1661.81546 2048.830252 2007.697951 1581.219055 1989.637349 1.189984167 0.768837624 1.667316035 1.242560706 0.963414258 0.835235356 1.029750599 1.009077334 0.794727268 1 10.95828978 -5.666641477 9.674886425 1.12269691 0.954563123 0.084262874 0.242122531 0.551462396 51.70086394 0.032115936 0.064269908 2.15E-06 5.666641477 -0.168133787 RLTLEDLEDSWDR ddPTM_HeLa_SAHA_4h_R1 3 RLTLEDLEDSWDR 13 1 Q6P2Q9;I3L3Z8 Q6P2Q9 PRPF8 Pre-mRNA-processing-splicing factor 8 0 0 ;; ;; 209.22 3.26E-11 14617800 2851.81 2625.18 2847.09 3359.29 3883.4 3596.27 3408.56 2834.27 3100.99 2895.69 FALSE FALSE TRUE 3151.77646 2710.237554 3235.076598 3424.313916 3585.854731 3289.847564 3025.019858 2761.773477 3079.409958 3020.537367 1.043448922 0.897269997 1.071026842 1.133677058 1.187157878 1.089159697 1.001484004 0.914331836 1.019490767 1 11.56058952 -6.582094516 24.99999954 1.010528258 1.072999462 0.162861164 0.078337296 125.0939642 52812.05492 0.012984456 0.018362796 2.62E-07 6.582094516 0.062471204 RLTVSSLQESGLK ddPTM_HeLa_SAHA_4h_R1 2 RLTVSSLQESGLK 13 1 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 152 9.41E-06 5117100 2788.1 4243.7 3109.2 4102.8 4391 4952.7 4329.1 3546.9 5619.5 3740.9 FALSE FALSE TRUE 3081.36515 4381.198664 3532.905584 4182.215627 4054.562529 4530.702097 3841.978274 3456.175434 5580.393442 3902.188507 0.789650512 1.122754233 0.905365176 1.071761556 1.03904835 1.161066947 0.984570138 0.885701813 1.430067623 1 11.93006776 -7.25749723 24.97786535 0.900668298 1.025869874 0 0.191904684 381.3378177 2416197.327 0.018254771 0.021919594 5.53E-08 7.25749723 0.125201576 RMEDEGGFPVPQENGQPES(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 RMEDEGGFPVPQENGQPESPR 21 1 J3KPS2;A0A494C1T9;Q6ZRV2 J3KPS2 FAM83H Protein FAM83H 1 0 RMEDEGGFPVPQENGQPES(1)PR;RMEDEGGFPVPQENGQPES(1)PR;RMEDEGGFPVPQENGQPES(1)PR;RMEDEGGFPVPQENGQPES(1)PR ;;; 145.16 3.72E-06 25591000 3648.2 3227.36 3710.39 3688.94 3495.91 3889.04 4131.07 4026.17 3735.5 3627.29 TRUE FALSE FALSE 4031.934415 3331.928582 4216.022626 3760.344768 3228.054131 3557.671913 3666.231131 3923.186401 3709.504351 3783.680223 1.065611832 0.880605227 1.114265048 0.993832604 0.853151942 0.940267597 0.968959033 1.036870499 0.98039584 1 11.88557445 -5.993012578 24.95802598 1.025094061 0.947122397 0.109811776 0.071068147 200.7658356 717097.6408 0.010074873 0.01823386 1.02E-06 5.993012578 -0.077971664 RMEELHNQEVQK ddPTM_HeLa_SAHA_4h_R1 1 RMEELHNQEVQK 12 1 Q15233;Q15233-2;C9JYS8;H7C367 Q15233 NONO Non-POU domain-containing octamer-binding protein 0 0 61.344 0.013376 10559000 1649.1 1945 1689.2 1904.1 1719.2 2092.3 2106.5 1834.6 1686.9 1737.2 FALSE FALSE TRUE 1822.559904 2008.019276 1919.395379 1940.956609 1587.475267 1914.024269 1869.471076 1787.673588 1675.160726 1812.099194 1.005772703 1.108117747 1.059210989 1.071109471 0.876042147 1.056246962 1.031660454 0.986520823 0.924431031 1 10.82344621 -4.232484621 20.85742388 1.01469665 0.986520484 0.01617256 0.066010769 4108.184903 2958850.444 0.007984228 0.711003824 5.85E-05 4.232484621 -0.028176167 RMEELHNQEVQK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 RMEELHNQEVQKR 13 2 Q15233;Q15233-2;C9JYS8;H7C367 Q15233 NONO Non-POU domain-containing octamer-binding protein 0 1 RMEELHNQEVQK(1)R 72.089 0.013862 786990 447.26 488.2 506.95 481.69 565.79 668.69 534.95 297.93 350.82 432.59 FALSE TRUE FALSE 494.3048589 504.0180003 576.0345059 491.0138065 522.4392924 611.7138501 474.7560181 290.309382 348.3786151 451.2410719 1.095434103 1.116959496 1.276556018 1.088140768 1.157783112 1.355625381 1.052111715 0.64335762 0.772045447 1 8.817754578 -1.770200198 14.15512923 1.075572997 0.095721397 0 0.203235845 0 0 0.023113657 0 0.01697461 1.770200198 -0.979851599 RMELK(ac)ADQLYK ddPTM_HeLa_SAHA_4h_R1 1 RMELKADQLYK 11 2 P08559-3;P08559;P08559-2;P08559-4;P29803;Q5JPU2;Q5JPU0;Q5JPT9;Q5JPU1 P08559-3 PDHA1;PDHA2 "Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial;Pyruvate dehydrogenase E1 component subunit alpha, testis-specific form, mitochondrial" 0 1 RMELK(1)ADQLYK 88.187 0.012541 1363500 548.38 645.66 709.08 806.16 936.8 652.59 817.36 418.72 556.4 799.99 FALSE TRUE FALSE 606.0611245 666.5798076 805.7097297 821.7643925 865.0225864 596.9856606 725.3885016 408.0097487 552.5279671 834.481484 0.726272705 0.798795205 0.965521399 0.984760487 1.036598898 0.715397132 0.86926854 0.488938049 0.662121303 1 9.704736228 -13.52287872 0.022237949 2.023811356 2.06E-09 0 0.169713327 3822.669673 6.849972829 425.6439206 227.0492561 3.00E-14 13.52287872 -2.023811354 RMGESDDSILR ddPTM_HeLa_SAHA_4h_R1 2 RMGESDDSILR 11 1 Q8WVC2;P63220 Q8WVC2 RPS21 40S ribosomal protein S21 0 0 ; ; 193.28 9.90E-07 25421300 4009.9 2792.1 3857.1 3779.7 3724.2 3341.4 4252.7 3270.6 2443.45 3047.9 FALSE FALSE TRUE 4431.67968 2882.565872 4382.725501 3852.861559 3438.852601 3056.693922 3774.175004 3186.942788 2426.445833 3179.309885 1.393912465 0.906664017 1.378514728 1.211854679 1.081634922 0.961433151 1.187105108 1.002400805 0.763198908 1 11.63449793 -5.67669145 5.681205838 1.184615561 1.057948284 0 0.20008531 0.394563938 20.5089591 0.025933496 0.052235002 2.11E-06 5.67669145 -0.126667277 RMLEELQMFT(ph)WEK ddPTM_HeLa_SAHA_4h_R1 1 RMLEELQMFTWEK 13 1 Q70Z53-3 Q70Z53-3 1 0 RMLEELQMFT(1)WEK 93.561 0.0019615 0 678.53 690.82 695.16 869.14 970.61 1162.4 1076 907.92 920.97 945.46 TRUE FALSE FALSE 749.9008986 713.2030213 789.8927846 885.9634615 896.2420715 1063.356981 954.9256481 884.6967211 914.5608948 986.2234076 0.760376293 0.723165781 0.800926827 0.898339519 0.908761711 1.078211055 0.968265041 0.897055083 0.927336431 1 9.945770685 -5.574571038 3.405277236 0.864169383 0.981594364 0.298117064 0.086941813 0.326433593 7.75892472 0.016944296 0.036821648 2.66E-06 5.574571038 0.117424981 RMLS(ph)ES(ph)S(ph)LDPPK ddPTM_HeLa_SAHA_4h_R1 1 RMLSESSLDPPK 12 1 E9PPL8;P10242-8;P10242-7;P10242-4 E9PPL8 MYB 3 0 RMLS(1)ES(1)S(1)LDPPK 53.981 0.018809 11772000 210.55 153.64 259.58 177.79 238.09 195.49 250.58 145.18 301.63 205.31 TRUE FALSE FALSE 232.696615 158.6180368 294.9542106 181.2313825 219.8475956 178.8331522 222.3840789 141.4665058 299.5309323 214.1619189 1.086545247 0.740645385 1.377248636 0.846235332 1.026548496 0.835037121 1.03839226 0.66055864 1.398619016 1 7.74255816 -3.496092189 0.760228175 1.030030163 3.57E-21 0.226392959 0.205184824 7.312726182 1.313831314 0.024441261 8.450312548 0.000319086 3.496092189 -1.030030163 RMNS(ph)TGGQTPR ddPTM_HeLa_SAHA_4h_R1 6 RMNSTGGQTPR 11 1 Q96ST2-3;Q96ST2;Q96ST2-2;A0A1B0GW95 Q96ST2-3 IWS1 Protein IWS1 homolog 1 0 RMNS(0.843)T(0.157)GGQTPR;RMNS(0.778)T(0.221)GGQTPR;RMNS(0.922)T(0.049)GGQT(0.029)PR;RMNS(0.769)T(0.231)GGQTPR;RMNS(0.843)T(0.154)GGQT(0.003)PR;RMNS(0.989)T(0.011)GGQTPR ;;;;; 120.6 0.0022086 19751430 2851.37 2905.4 2423.87 3291.19 3340.89 3799.537 4659.96 3964.9 2379.49 2389.55 TRUE FALSE FALSE 3151.290179 2999.536866 2754.182381 3354.895742 3084.91173 3475.795072 4135.609036 3863.483599 2362.930935 2492.575195 1.264270858 1.203388717 1.104954581 1.34595568 1.237640388 1.394459465 1.659171224 1.549996809 0.947987824 1 11.28342131 -1 0.185243688 1.020230631 3.708137455 0.800811055 0.095769238 19.46287754 0.214682812 0.118782847 14.94275579 0.1 1 2.687906824 RMRSGSYIKAMGDEDS(ph)GDS(ph)DT(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 RMRSGSYIKAMGDEDSGDSDTSPK 24 3 Q6IS01;A8MYR7;A8MXQ8;A0A0A0MTP4;O14490-3;O14490-5;O14490-2;O14490-4;O14490-6;O14490-7;O14490 Q6IS01 DLGAP1 Disks large-associated protein 1 3 0 RMRS(0.027)GS(0.027)Y(0.025)IKAMGDEDS(0.908)GDS(0.671)DT(0.671)S(0.671)PK 40.81 0.0088132 0 157.67 66.095 208.52 0 135.42 235.84 260.43 263.45 0 131.02 TRUE FALSE FALSE 174.254454 68.23652137 236.9360197 0 125.0441489 215.7451052 231.125731 256.7113305 0 136.6689134 1.27501163 0.499283412 1.733649692 0 0.914942146 1.57859677 1.691136084 1.87834471 0 1 7.094541316 -5.125214831 4.001331503 1.032153664 1.75597984 0.320765408 0.548120594 0.19832136 5.424372782 0.060266965 0.165775752 7.50E-06 5.125214831 0.723826176 RMS(ph)ADMSEIEAR ddPTM_HeLa_SAHA_4h_R1 5 RMSADMSEIEAR 12 1 Q9UG54;O43318-4;O43318-3;O43318-2;O43318 Q9UG54 DKFZp586F0420;MAP3K7 Mitogen-activated protein kinase kinase kinase 7 1 0 RMS(1)ADMSEIEAR;RMS(1)ADMSEIEAR;RMS(1)ADMSEIEAR;RMS(1)ADMSEIEAR;RMS(0.996)ADMS(0.004)EIEAR ;;;; 228.17 4.08E-22 63673200 5601.09 5546.9 5807.23 6094.39 6798.27 6858.69 7232.94 6295.01 5254.73 5387.69 TRUE FALSE FALSE 6190.238345 5726.623199 6598.609062 6212.355731 6277.388021 6274.291026 6419.070555 6133.992759 5218.161906 5619.979683 1.10146988 1.018975783 1.174133971 1.105405372 1.116976996 1.116425927 1.142187502 1.091461732 0.928501917 1 12.4563492 -9.807119325 0.289784159 0.922054252 1.126670572 0.640807314 0.042265944 2.903188256 0.248042633 0.205190491 0.020073763 1.56E-10 9.807119325 0.204616319 RMS(ph)DEFVDSFK ddPTM_HeLa_SAHA_4h_R1 2 RMSDEFVDSFK 11 1 Q92934;F5H1R6;F5H3B1 Q92934 BAD Bcl2-associated agonist of cell death 1 0 RMS(0.999)DEFVDS(0.001)FK;RMS(1)DEFVDSFK ; 134.02 0.00060913 8584500 4339.3 4069.7 4218.1 5133.9 5445.5 5818.8 5916.8 4907.3 5467.1 4600.8 TRUE FALSE FALSE 4795.727483 4201.56095 4792.920701 5233.274058 5028.266966 5323.005504 5251.026092 4781.778372 5429.054006 4799.163004 0.999284142 0.875477859 0.998699293 1.090455576 1.047738317 1.109152888 1.094154561 0.99637757 1.131250179 1 12.2285671 -6.321027488 6.561787824 0.988096097 1.07019249 0.19671754 0.064786336 0.176340656 15.88318839 0.007216227 0.011088981 4.77E-07 6.321027488 0.082096393 RMS(ph)GEPIQTVESIR ddPTM_HeLa_SAHA_4h_R1 2 RMSGEPIQTVESIR 14 1 Q5VT52-2;Q5VT52-3;Q5VT52 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 RMS(1)GEPIQTVESIR;RMS(1)GEPIQTVESIR ; 111.63 0.0010537 9245800 1091.65 1026.38 892.08 1153.24 1073.94 1855.05 1228.15 1433.53 1575.17 1328.78 TRUE FALSE FALSE 1206.474756 1059.635385 1013.648017 1175.562628 991.6549492 1696.989304 1089.95533 1396.862378 1564.208264 1386.070209 0.870428315 0.764488969 0.73131073 0.848126322 0.71544352 1.224316989 0.786363723 1.007786164 1.128520225 1 10.43678462 -3.893080129 16.94623005 0.90251112 7.837199508 0.039217543 0.162780349 291.2834743 46292.19077 0.019862057 210.3603738 0.000127915 3.893080129 6.934688388 RMS(ph)PKPELTEEQKQEIR ddPTM_HeLa_SAHA_4h_R1 1 RMSPKPELTEEQKQEIR 17 3 P41208 P41208 CETN2 Centrin-2 1 0 RMS(1)PKPELTEEQKQEIR 59.513 0.010596 13683000 1744.8 2048.7 1717.5 2299.4 2318 2540.8 2537.9 2126.4 2658 1871.8 TRUE FALSE FALSE 1928.326069 2115.079224 1951.551956 2343.908212 2140.395341 2324.309546 2252.328813 2072.009767 2639.502762 1952.502458 0.987617742 1.083265844 0.999513187 1.200463642 1.096231829 1.190425925 1.153560039 1.061207251 1.351856306 1 10.93110865 -6.5585692 1.468062947 0.996188455 1.140978339 0 0.123533872 0.174561641 0.755049802 0.007995388 0.012948723 2.76E-07 6.5585692 0.144789884 RNALFPEVFS(ph)PTPDENSDQNSR ddPTM_HeLa_SAHA_4h_R1 3 RNALFPEVFSPTPDENSDQNSR 22 1 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 RNALFPEVFS(0.973)PT(0.027)PDENSDQNSR;RNALFPEVFS(0.996)PT(0.004)PDENSDQNSR;RNALFPEVFS(0.857)PT(0.139)PDENS(0.004)DQNSR ;; 123.71 7.16E-06 18341100 2312.19 2928.11 2589.45 1892.7 2798.46 2997.19 3020.68 2180.34 2385.36 2787.52 TRUE FALSE FALSE 2555.396753 3022.982685 2942.326761 1929.335945 2584.042599 2741.81255 2680.785136 2124.57006 2368.760086 2907.703629 0.878836731 1.039646082 1.01190738 0.663525652 0.888688439 0.942947735 0.921959552 0.730669398 0.814649768 1 11.50566451 RNDDIS(ph)ELEDLSELEDLKDAK ddPTM_HeLa_SAHA_4h_R1 1 RNDDISELEDLSELEDLKDAK 21 2 D6RAY8;Q9H4L7;Q9H4L7-2 D6RAY8 SMARCAD1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A containing DEAD/H box 1 1 0 RNDDIS(0.987)ELEDLS(0.013)ELEDLKDAK 66.886 0.0043237 10209000 772.78 617.31 446.19 675.06 708.45 626.3 791.23 697.44 615.93 662.16 TRUE FALSE FALSE 854.064546 637.311249 506.9944495 688.1267625 654.1687141 572.9357165 702.198718 679.6004947 611.643693 690.7089581 1.236504227 0.922691448 0.734020377 0.996261529 0.947097481 0.829489338 1.016634734 0.983917302 0.885530274 1 9.431934125 -7.193857093 10.63215323 1.111657225 0.915778909 0.102062583 0.119157646 0.545230469 84.3823569 0.019237979 0.023565187 6.40E-08 7.193857093 -0.195878316 RNDDISELEDLS(ph)ELEDLKDAK ddPTM_HeLa_SAHA_4h_R1 4 RNDDISELEDLSELEDLKDAK 21 2 D6RAY8;Q9H4L7;Q9H4L7-2 D6RAY8 SMARCAD1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A containing DEAD/H box 1 1 0 RNDDIS(0.004)ELEDLS(0.996)ELEDLKDAK;RNDDISELEDLS(1)ELEDLKDAK;RNDDISELEDLS(1)ELEDLKDAK;RNDDISELEDLS(1)ELEDLKDAK ;;; 104.81 8.36E-05 29930100 6141.7 5760.35 5870.26 6572.23 7142.66 7183.42 6879.41 6350.82 6184.46 6328.15 TRUE FALSE FALSE 6787.712185 5946.98912 6670.228462 6699.445015 6595.390934 6571.352203 6105.320681 6188.37522 6141.421839 6600.987516 1.028287384 0.900924158 1.010489483 1.014915571 0.99915216 0.995510473 0.9249102 0.937492338 0.930379254 1 12.68846615 -4.801519653 5.443606503 1.003762062 0.930848898 0.097561504 0.041089871 0.126006228 8.973887214 0.004886316 0.015882864 1.58E-05 4.801519653 -0.072913164 RNEIDAEPPAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 RNEIDAEPPAKR 12 2 Q8TDN6 Q8TDN6 BRIX1 Ribosome biogenesis protein BRX1 homolog 0 1 ; RNEIDAEPPAK(1)R;RNEIDAEPPAK(1)R 179.59 4.74E-12 8279900 1749.98 2390.1 1600.34 2304.35 2693.9 2634.43 2697.8 2783.2 2296.06 1800.34 FALSE TRUE FALSE 1934.050926 2467.540808 1818.426001 2348.954026 2487.493964 2409.961743 2394.236444 2712.009774 2280.081532 1877.961468 1.029867204 1.313946452 0.968297823 1.250799905 1.324571354 1.283286044 1.274912443 1.444124291 1.214125833 1 10.87495175 -5.906567221 0.388508316 0.988342702 1.448627633 0.371430729 0.118917724 0.814978683 0.198445263 0.035024996 0.150766115 1.24E-06 5.906567221 0.460284931 RNES(ph)LTATDGLR ddPTM_HeLa_SAHA_4h_R1 1 RNESLTATDGLR 12 1 H0Y507;Q5TCZ1-2;Q5TCZ1-3;Q5TCZ1 H0Y507 SH3PXD2A SH3 and PX domain-containing protein 2A 1 0 RNES(0.969)LT(0.03)AT(0.001)DGLR 72.898 0.015693 3355100 1788.4 1925.9 1458.5 1384.3 1704.2 1616.2 1915.8 1841.6 1628.4 1731.2 TRUE FALSE FALSE 1976.512117 1988.300424 1657.256784 1411.095128 1573.624564 1478.490668 1700.229142 1794.494539 1617.067832 1805.840504 1.094510901 1.101038779 0.917720463 0.78140629 0.871408389 0.81872716 0.941516783 0.993717072 0.895465479 1 10.81845476 -6.639622196 5.500376527 1.049812041 0.877953505 0.404763748 0.078419707 0.109909232 4.910757101 0.01084938 0.015398723 2.29E-07 6.639622196 -0.171858536 (ac)SAEQEKDPISLK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 SAEQEKDPISLKR 13 2 Q9Y3Y4-2 Q9Y3Y4-2 PYGO1 Pygopus homolog 1 0 1 ; SAEQEKDPISLK(1)R;SAEQEKDPISLK(1)R 95.483 7.73E-05 7397200 2684 3403.2 3250.2 3600.4 4863.2 5084.8 5642.3 5411.2 2575.3 2440.3 FALSE TRUE FALSE 2966.315435 3513.465913 3693.12033 3670.090948 4490.582667 4651.546434 5007.413554 5272.789339 2557.378278 2545.513276 1.16531132 1.380258334 1.450835227 1.441788178 1.764116774 1.82735108 1.967152795 2.071405162 1.004661143 1 11.31374087 -5.526609892 0.358189138 0.994043444 2.384891569 0.979674178 0.052356712 0.244302614 0.041683535 0.020911939 0.132032758 2.97E-06 5.526609892 1.390848125 up RNEVLDR ddPTM_HeLa_SAHA_4h_R1 2 RNEVLDR 7 1 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 ; ; 141.52 2.27E-05 1696600 1757.22 1677.04 1430.52 1764.69 1759 1954.81 1931.43 1779.87 1408.78 1619.16 FALSE FALSE TRUE 1942.052462 1731.377196 1625.463816 1798.848127 1624.2258 1788.249191 1714.100413 1734.343503 1398.976185 1688.969912 1.149844322 1.025108372 0.96239951 1.065056348 0.96166651 1.058780964 1.014879188 1.026864653 0.828301425 1 10.72192791 -7.026493504 24.81438802 1.071639637 1.01486801 0 0.089797648 935.3789573 876094.7389 0.010201067 0.012515734 9.41E-08 7.026493504 -0.056771627 RNGS(ph)PTPAGSLGGGAVATAGGPGSR ddPTM_HeLa_SAHA_4h_R1 1 RNGSPTPAGSLGGGAVATAGGPGSR 25 1 Q6P1L5;Q6P1L5-2 Q6P1L5 FAM117B Protein FAM117B 1 0 RNGS(1)PTPAGSLGGGAVATAGGPGSR 181.13 1.96E-13 6500300 1362.9 1104.9 1199.3 1098.5 1163.4 1390.8 1356.7 1496 1171.9 1408.7 TRUE FALSE FALSE 1506.256075 1140.699485 1362.734358 1119.763056 1074.260543 1272.296016 1204.040545 1457.734486 1163.744652 1469.435951 1.025057318 0.77628391 0.92738602 0.762035974 0.731070002 0.865839722 0.819389606 0.992036764 0.791966912 1 10.52104676 -7.270772241 24.98148893 1.011832627 0.835686435 0.046003694 0.101283038 338.212295 905298.9767 0.012067159 0.01389534 5.36E-08 7.270772241 -0.176146192 RNLEVLR ddPTM_HeLa_SAHA_4h_R1 2 RNLEVLR 7 1 Q8N201 Q8N201 INTS1 Integrator complex subunit 1 0 0 ; ; 171.38 7.00E-09 21307400 11226.6 11171.1 11433.7 12529.1 11816.2 13099.6 13057.7 9906.1 10191.3 10692.1 FALSE FALSE TRUE 12407.4653 11533.05097 12991.82509 12771.61885 10910.84531 11983.44038 11588.41323 9652.716306 10120.37791 11153.08876 1.112468982 1.034067891 1.164863418 1.145119449 0.978280147 1.074450374 1.039031741 0.865474714 0.907405844 1 13.44515569 -4.259812325 3.441757647 1.063123601 0.840218805 0.349270526 0.074783786 0.212668533 4.244861883 0.00882037 0.1237552 5.50E-05 4.259812325 -0.222904795 RNNQTVLEQSIET(ph)T(ph)NHVVS(ph)IT(ph) ddPTM_HeLa_SAHA_4h_R1 1 RNNQTVLEQSIETTNHVVSIT 21 1 H0YKA3 H0YKA3 ZHX2 4 0 RNNQTVLEQS(0.001)IET(0.999)T(0.999)NHVVS(1)IT(1) 71.427 0.0013078 11055000 796.56 1028 970.18 878.64 1183.7 1366 1088.8 1171.9 909.42 1015.8 TRUE FALSE FALSE 880.3458355 1061.307874 1102.391078 895.6473477 1093.005162 1249.609115 966.2853584 1141.924495 903.0912722 1059.596109 0.83083151 1.001615488 1.040388001 0.845272401 1.031529988 1.179325881 0.911937435 1.077697894 0.852297648 1 10.04929874 -5.60411379 8.765127745 0.930506685 1.052356953 0.305325965 0.090424287 0.288321862 28.02183249 0.013914906 0.027871662 2.49E-06 5.60411379 0.121850268 RNPGVVIYVNSRPCCVPR ddPTM_HeLa_SAHA_4h_R1 2 RNPGVVIYVNSRPCCVPR 18 2 H0YBU8;H0Y6Y8;B1AL05;Q8N983-4;Q8N983-3;Q8N983-2;Q8N983;Q8N983-6;Q8N983-7 H0YBU8 MRPL43 "39S ribosomal protein L43, mitochondrial" 0 0 ; ; 117.48 9.92E-05 4236700 167.35 243.88 202.42 234.209 409.05 285.85 438.19 190.3 394.08 344.66 FALSE FALSE TRUE 184.9526408 251.781872 230.0047434 238.7424539 377.7086774 261.4939719 388.8837079 185.4324016 391.3375652 359.5199793 0.51444329 0.7003279 0.639755109 0.664058933 1.05059162 0.727341975 1.081674817 0.515777738 1.088500188 1 8.489928136 -3.99952384 22.14819117 0.777915481 0.247196785 0.132603108 0.205536643 7007.295305 31558.39933 0.029505774 95989.07818 0.00010011 3.99952384 -0.530718696 RNPNPSSSS(ph)IFGR ddPTM_HeLa_SAHA_4h_R1 1 RNPNPSSSSIFGR 13 1 Q9ULJ8-3 Q9ULJ8-3 PPP1R9A Neurabin-1 1 0 RNPNPS(0.029)S(0.007)S(0.029)S(0.934)IFGR 66.059 0.019783 37956000 533.19 630.25 427.56 716.97 652.07 1090.9 454.63 549.89 619.01 805.14 TRUE FALSE FALSE 589.2733706 650.6705135 485.8256502 730.8479911 602.1085375 997.9491828 403.4738359 535.82461 614.702259 839.8535257 0.701638265 0.774742849 0.578464739 0.870208874 0.71692089 1.18824194 0.480409766 0.637997691 0.731916031 1 9.713993927 -9.29253723 0.92077017 1.006622045 0.746012331 0 0.197896859 0.745699164 1.087889593 0.134295894 0.032682379 5.10E-10 9.29253723 -0.260609714 RNPNTQLSTS(ph)FDETYIK ddPTM_HeLa_SAHA_4h_R1 1 RNPNTQLSTSFDETYIK 17 1 Q9P242 Q9P242 NYAP2 Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter 2 1 0 RNPNTQLST(0.019)S(0.976)FDET(0.005)YIK 85.945 0.0035788 4642900 1098.8 958.86 740.78 978.95 1135.7 1180.8 977.13 1203.2 1391 945.12 TRUE FALSE FALSE 1214.376825 989.9276931 841.7296406 997.8989928 1048.682911 1080.189197 867.1807607 1172.423886 1381.319918 985.8687485 1.231783467 1.004117125 0.85379483 1.012202684 1.063714529 1.09567242 0.879610762 1.189229183 1.40111949 1 9.945251779 RNPS(ph)PDHSYK ddPTM_HeLa_SAHA_4h_R1 1 RNPSPDHSYK 10 1 Q15696 Q15696 ZRSR2 U2 small nuclear ribonucleoprotein auxiliary factor 35 kDa subunit-related protein 2 1 0 RNPS(1)PDHSYK 86.189 0.011198 5039900 2484.3 2941.3 1886 2582.7 2997.4 3024.9 2802.9 2644 3595.4 2685.2 TRUE FALSE FALSE 2745.610072 3036.60005 2143.014258 2632.691893 2767.73986 2767.161502 2487.510315 2576.370308 3570.379319 2800.972113 0.980234705 1.084123628 0.765096606 0.93992078 0.988135457 0.987928973 0.888088212 0.919812909 1.274692919 1 11.4517119 RNPS(ph)PDHSYKR ddPTM_HeLa_SAHA_4h_R1 1 RNPSPDHSYKR 11 2 Q15696 Q15696 ZRSR2 U2 small nuclear ribonucleoprotein auxiliary factor 35 kDa subunit-related protein 2 1 0 RNPS(1)PDHSYKR 54.343 0.022407 2790800 850.07 680.01 686.5 874.07 786.66 764.03 776.03 873.03 759.11 773.7 TRUE FALSE FALSE 939.4842629 702.0427702 780.0526449 890.9888888 726.3862807 698.9303457 688.709062 850.6991567 753.8272917 807.0579934 1.164085197 0.869878963 0.966538528 1.103996114 0.900042236 0.866022456 0.853357587 1.054074383 0.934043523 1 9.656528536 -7.258068875 24.99639213 1.077484676 0.943526452 0.097737794 0.096970067 280.3977257 2079489.024 0.01635876 0.019622414 5.52E-08 7.258068875 -0.133958224 RNS(ph)EGSELSCTEGSLTSSLDSR ddPTM_HeLa_SAHA_4h_R1 3 RNSEGSELSCTEGSLTSSLDSR 22 1 Q5T5U3;A0A087WW76;A0A452Q6Z5 Q5T5U3 ARHGAP21 Rho GTPase-activating protein 21 1 0 RNS(0.966)EGS(0.034)ELSCTEGSLTSSLDSR;RNS(0.978)EGS(0.022)ELSCTEGSLTSSLDSR;RNS(0.995)EGS(0.005)ELSCTEGSLTSSLDSR ;; 158.47 1.22E-07 40604600 481.241 704.432 851.63 677.48 929.9 935.82 1088.95 648.236 554.48 701.39 TRUE FALSE FALSE 531.8601364 727.256059 967.6857013 690.5936051 858.6512629 856.0828712 966.41848 631.6550618 550.6213285 731.6303554 0.726951981 0.994021166 1.322642909 0.943910542 1.173613501 1.170102997 1.320910857 0.863352726 0.752594974 1 9.514971124 -6.997349145 24.96138541 0.870504122 1.137866796 0.437767497 0.153042579 63.06528309 593836.3595 0.025350203 0.033209732 1.01E-07 6.997349145 0.267362674 RNS(ph)FSENEK ddPTM_HeLa_SAHA_4h_R1 4 RNSFSENEK 9 1 Q9HCG8 Q9HCG8 CWC22 Pre-mRNA-splicing factor CWC22 homolog 1 0 RNS(1)FSENEK;RNS(0.999)FS(0.001)ENEK;RNS(0.999)FS(0.001)ENEK;RNS(0.942)FS(0.058)ENEK ;;; 150.09 0.0011105 147066000 11789.4 11077.6 8609.2 12531.6 12958.2 14729.3 15034.8 14326.3 12180.9 11996.7 TRUE FALSE FALSE 13029.46318 11436.52151 9782.416941 12774.16724 11965.34552 13474.28078 13343.04473 13959.85399 12096.13213 12513.93645 1.041196209 0.913902796 0.781721801 1.020795278 0.956161602 1.076741985 1.066254794 1.115544581 0.966612878 1 13.61124806 -5.19073898 6.596329017 0.989956823 1.085324362 0.331082952 0.074727336 0.305464672 23.60222367 0.011735993 0.030221942 6.45E-06 5.19073898 0.095367539 RNS(ph)FTPLSSSNTIR ddPTM_HeLa_SAHA_4h_R1 2 RNSFTPLSSSNTIR 14 1 O60825 O60825 PFKFB2 "6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 2;6-phosphofructo-2-kinase;Fructose-2,6-bisphosphatase" 1 0 RNS(0.989)FT(0.011)PLSSSNTIR;RNS(0.998)FT(0.002)PLSSSNTIR ; 233.28 3.90E-24 60851000 2168.54 2016.09 1706.33 2568.83 2041.55 2242.18 2191 1892.15 1874.27 1849.01 TRUE FALSE FALSE 2396.636987 2081.412639 1938.859766 2618.553419 1885.12688 2051.13365 1944.462914 1843.751543 1861.226802 1928.72987 1.242598574 1.07916234 1.005252107 1.357656902 0.9773929 1.063463413 1.008157204 0.955940783 0.965001285 1 10.91343538 RNS(ph)NLS(ph)QT(ph)SRS(ph)S(ph)R ddPTM_HeLa_SAHA_4h_R1 1 RNSNLSQTSRSSR 13 2 A0A1B0GUX7;A0A1B0GVX7;A0A286YEQ8;A0A286YF26;A0A1W2PPJ3;P35498-3;P35498-2;P35498 A0A1B0GUX7 SCN1A Sodium channel protein type 1 subunit alpha 5 0 RNS(1)NLS(0.994)QT(0.572)S(0.572)RS(0.894)S(0.968)R 50.305 0.008335 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 RNS(ph)NSPPSPS(ph)SMNQR ddPTM_HeLa_SAHA_4h_R1 1 RNSNSPPSPSSMNQR 15 1 Q7Z5L9;Q7Z5L9-2;Q7Z5L9-3 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 2 0 RNS(0.981)NS(0.127)PPS(0.22)PS(0.661)S(0.011)MNQR 90.259 0.014666 1980600 692.89 597.97 405.53 525.79 510.96 554.05 422.3 489.09 504.57 538.23 TRUE FALSE FALSE 765.7713493 617.3446203 460.7935165 535.9674258 471.8103552 506.841823 374.7816926 476.579786 501.0586563 561.4357293 1.363951935 1.099581997 0.820741347 0.954637188 0.840363964 0.902760185 0.667541578 0.848859025 0.892459511 1 9.132977069 -6.83509296 4.468575935 1.17436934 0.83901152 0.391426857 0.139407547 0.125241388 4.768279632 0.024392234 0.032668689 1.46E-07 6.83509296 -0.33535782 RNS(ph)SEASSGDFLDLK ddPTM_HeLa_SAHA_4h_R1 6 RNSSEASSGDFLDLK 15 1 Q9UK76;J3KT51;Q9UK76-3;Q9UK76-2;J3KSH8 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 1 0 RNS(0.68)S(0.32)EASSGDFLDLK;RNS(0.5)S(0.5)EASSGDFLDLK;RNS(0.995)S(0.005)EASSGDFLDLK;RNS(0.722)S(0.278)EASSGDFLDLK;RNS(0.878)S(0.122)EASSGDFLDLK;RNS(0.979)S(0.021)EASSGDFLDLK ;;;;; 207.05 2.10E-12 1632483000 18657.54 26783.18 20196.11 22926.17 27653.89 32438.05 28076.68 23753.45 33674.1 22630.49 TRUE FALSE FALSE 20620.02566 27650.97261 22948.33069 23369.93917 25535.05492 29674.14565 24917.41807 23145.87114 33439.7592 23606.20117 0.873500378 1.171343597 0.972131455 0.989991528 1.081709621 1.257048749 1.055545443 0.980499614 1.41656673 1 14.52687827 -7.270094364 24.98641761 0.940264068 1.072355263 0 0.174481092 590.1131553 1703619.162 0.016336715 0.018840789 5.37E-08 7.270094364 0.132091195 RNS(ph)SSPVS(ph)PASVPGQR ddPTM_HeLa_SAHA_4h_R1 1 RNSSSPVSPASVPGQR 16 1 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 2 0 RNS(0.608)S(0.275)S(0.132)PVS(0.879)PAS(0.106)VPGQR 116.04 0.0019315 5374400 1407.4 1070.7 1370.6 1323.3 1144.8 1143.7 1312 1214.4 1215.6 1323.2 TRUE FALSE FALSE 1555.436789 1105.391383 1557.37823 1348.914385 1057.085671 1046.250326 1164.370307 1183.337406 1207.140541 1380.249628 1.126924259 0.80086338 1.128330846 0.977297409 0.765865573 0.758015293 0.843594002 0.857335791 0.87458132 1 10.4307135 -5.8864636 4.582977089 1.04294321 0.806246498 0.348610015 0.105684827 0.116003677 4.159813295 0.01409805 0.026166343 1.30E-06 5.8864636 -0.236696712 RNS(ph)SSPVSPAS(ph)VPGQR ddPTM_HeLa_SAHA_4h_R1 1 RNSSSPVSPASVPGQR 16 1 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 2 0 RNS(0.657)S(0.279)S(0.162)PVS(0.384)PAS(0.517)VPGQR 122.46 0.0010879 4480200 1551.5 1379 1363.6 1438.8 1327.9 1846.8 1761.5 1866.3 1723.4 1418 TRUE FALSE FALSE 1714.693889 1423.680505 1549.424307 1466.650055 1226.156589 1689.44225 1563.291384 1818.562748 1711.406719 1479.13692 1.159252985 0.962507585 1.047519189 0.991558006 0.828967604 1.142181111 1.056894303 1.229475598 1.157030628 1 10.53053989 -2.526085334 0.003473169 0.166173377 1.985438009 0 0.112331168 613759.0315 216.8769735 54623.46781 59056.94997 0.002977931 2.526085334 1.819264632 RNS(ph)SSPVSPASVPGQR ddPTM_HeLa_SAHA_4h_R1 3 RNSSSPVSPASVPGQR 16 1 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 RNS(0.333)S(0.333)S(0.333)PVSPASVPGQR;RNS(0.454)S(0.454)S(0.092)PVSPASVPGQR;RNS(0.333)S(0.333)S(0.333)PVSPASVPGQR ;; 98.188 0.0022981 41708000 2939.88 2865.76 3220.39 3160.64 2931.69 3148.78 3426.29 3844.82 2946.11 3270.06 TRUE FALSE FALSE 3249.110067 2958.612504 3659.247978 3221.818758 2707.064546 2880.486229 3040.754832 3746.475072 2925.607781 3411.04829 0.95252538 0.867361659 1.072763464 0.944524523 0.7936166 0.844457769 0.891442915 1.098335395 0.857685829 1 11.73599946 -5.992409655 24.9790388 0.975010478 0.89734999 0.008973311 0.094882703 267.5664496 880525.114 0.012594479 0.022797457 1.02E-06 5.992409655 -0.077660488 RNS(ph)TIVLR ddPTM_HeLa_SAHA_4h_R1 2 RNSTIVLR 8 1 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-6;Q8NEY1-5;H0Y6F6 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 RNS(0.837)T(0.163)IVLR;RNS(0.767)T(0.233)IVLR ; 122.69 0.001656 17556800 1816.13 2184.64 2343.56 2572.8 2855.7 2732.2 2971.4 2688.5 1715.39 2405.8 TRUE FALSE FALSE 2007.158886 2255.423769 2662.928152 2622.600264 2636.896883 2499.401189 2637.050252 2619.732063 1703.452461 2509.525812 0.799815996 0.898744998 1.061128019 1.045058095 1.050755035 0.995965524 1.05081615 1.043915169 0.678794557 1 11.29319907 -6.765821537 24.99224585 0.902323063 1.040250405 0.522791356 0.085253643 77.57855204 442445.2157 0.012170423 0.016306704 1.71E-07 6.765821537 0.137927342 RNS(ph)TTIMSR ddPTM_HeLa_SAHA_4h_R1 1 RNSTTIMSR 9 1 Q7Z309;Q7Z309-2;G1UD79;Q7Z309-4;Q7Z309-3 Q7Z309 FAM122B;SPACIA2 Protein FAM122B 1 0 RNS(0.854)T(0.073)T(0.073)IMSR 111.5 0.015057 8278300 1806.6 1767.8 1892.8 2195 2250.8 2500.7 2464.2 2219 1809 1927.1 TRUE FALSE FALSE 1996.626477 1825.07788 2150.740927 2237.487399 2078.34419 2287.626291 2186.921731 2162.241193 1796.411022 2010.186712 0.993254241 0.907914608 1.069920975 1.113074415 1.033906044 1.138016821 1.087919703 1.075641969 0.893653814 1 10.97311379 -6.547927856 24.4514827 0.99000368 1.089425744 0.636025705 0.047251937 77.05457871 75215.82335 0.005393389 0.007627603 2.83E-07 6.547927856 0.099422064 RNS(ph)VERPAEPVAGAATPSLVEQQK ddPTM_HeLa_SAHA_4h_R1 3 RNSVERPAEPVAGAATPSLVEQQK 24 2 Q9BTC0 Q9BTC0 DIDO1 Death-inducer obliterator 1 1 0 RNS(0.999)VERPAEPVAGAAT(0.001)PSLVEQQK;RNS(1)VERPAEPVAGAATPSLVEQQK;RNS(1)VERPAEPVAGAATPSLVEQQK ;; 83.436 0.00013676 124814000 2695.59 2334.86 2303.52 2525.33 3285.89 3909 4151.5 4330.9 3127.42 2847.86 TRUE FALSE FALSE 2979.124524 2410.510996 2617.431709 2574.211414 3034.125818 3575.931209 3684.362294 4220.121849 3105.65603 2970.645182 1.002854377 0.811443592 0.881098734 0.866549607 1.02136931 1.203755747 1.2402566 1.420607845 1.045448325 1 11.53656058 -4.96179073 1.536460298 0.966536109 1.377014236 0.80700311 0.078812289 0.166671566 0.69826735 0.012855875 0.068921156 1.09E-05 4.96179073 0.410478127 RNSEGS(ph)ELSCTEGSLTSSLDSR ddPTM_HeLa_SAHA_4h_R1 1 RNSEGSELSCTEGSLTSSLDSR 22 1 Q5T5U3;A0A087WW76;A0A452Q6Z5 Q5T5U3 ARHGAP21 Rho GTPase-activating protein 21 1 0 RNS(0.217)EGS(0.775)ELS(0.007)CTEGSLTSSLDSR 77.668 0.00061999 3105300 196.77 281.96 236.93 185.98 279.88 327.66 299.11 369.28 200.61 346.98 TRUE FALSE FALSE 217.4671714 291.095689 269.2175865 189.5799118 258.4356549 299.7415246 265.4533556 359.8343523 199.2139387 361.9400059 0.600837619 0.804265028 0.743818263 0.523788221 0.714028985 0.828152511 0.733418111 0.994182313 0.550405966 1 8.49960677 -9.500895903 1.235246103 1.0007008 0.723852595 0 0.183471399 0.372581427 1.013273596 0.087343994 0.020951365 3.16E-10 9.500895903 -0.276848205 RNSNS(ph)PPS(ph)PSSMNQR ddPTM_HeLa_SAHA_4h_R1 1 RNSNSPPSPSSMNQR 15 1 Q7Z5L9;Q7Z5L9-2;Q7Z5L9-3 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 2 0 RNSNS(1)PPS(0.834)PS(0.117)S(0.049)MNQR 106.3 0.0051616 2652900 688.21 608.31 825.76 872.51 554.83 891.52 680.12 953.95 663.74 586.17 TRUE FALSE FALSE 760.5990854 628.0196431 938.2902724 889.3986927 512.3190453 815.5574804 603.5911076 929.5493403 659.1209793 611.4426573 1.243941809 1.027111268 1.534551542 1.45459052 0.837885678 1.333824964 0.987158976 1.520255954 1.077976768 1 9.256073395 -9.200581241 0.666608637 0.977040378 1.237635708 0.114850657 0.222703793 1.493194419 1.036430108 0.225063404 0.04579655 6.30E-10 9.200581241 0.26059533 RNSNSPPS(ph)PSSMNQR ddPTM_HeLa_SAHA_4h_R1 3 RNSNSPPSPSSMNQR 15 1 Q7Z5L9;Q7Z5L9-2;Q7Z5L9-3 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 1 0 RNS(0.001)NS(0.001)PPS(0.948)PS(0.038)S(0.013)MNQR;RNSNSPPS(0.948)PS(0.026)S(0.026)MNQR;RNS(0.019)NS(0.277)PPS(0.695)PS(0.009)SMNQR ;; 86.453 0.0055404 7238120 1105.34 698.08 853.16 807.41 1076.8 1093.27 943.05 909.03 647.121 1029.01 TRUE FALSE FALSE 1221.604733 720.69825 969.4242017 823.0385881 994.2958166 1000.117245 836.935532 885.7783289 642.6176323 1073.375657 1.138096178 0.671431521 0.903154637 0.766775903 0.926326035 0.931749513 0.779722855 0.825226772 0.598688472 1 10.06793936 -7.276031096 24.96745473 1.065212086 0.835418867 0 0.16856764 380.9927813 651904.2003 0.014805975 0.016970493 5.30E-08 7.276031096 -0.229793219 RNSS(ph)EASSGDFLDLK ddPTM_HeLa_SAHA_4h_R1 2 RNSSEASSGDFLDLK 15 1 Q9UK76;J3KT51;Q9UK76-3;Q9UK76-2;J3KSH8 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 1 0 RNS(0.275)S(0.725)EASSGDFLDLK;RNS(0.382)S(0.587)EAS(0.008)S(0.023)GDFLDLK ; 151.38 2.80E-05 18945800 4075 6561.5 4284.4 5227.8 6294.3 7112.4 6674.6 5343.8 7731.5 5549 TRUE FALSE FALSE 4503.627197 6774.096905 4868.25572 5328.991629 5812.032094 6506.383507 5923.556441 5207.113334 7677.695862 5788.244546 0.778064431 1.170319749 0.841059095 0.920657651 1.004109631 1.124068525 1.023377018 0.899601475 1.326429075 1 12.49891016 -5.736507677 4.726297027 0.912523214 1.023199056 0 0.171512955 0.294905893 15.92577663 0.018144642 0.035996505 1.83E-06 5.736507677 0.110675843 RNSS(ph)SPVSPASVPGQR ddPTM_HeLa_SAHA_4h_R1 1 RNSSSPVSPASVPGQR 16 1 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 RNSS(0.997)S(0.003)PVSPASVPGQR 231.41 3.29E-27 6397000 1678.2 1215.2 983.52 1334.8 1247.6 1282.8 1188 1386.2 1272.7 1450.2 TRUE FALSE FALSE 1854.720776 1254.573277 1117.548984 1360.636984 1152.009158 1173.498223 1054.323113 1350.743011 1263.843177 1512.725219 1.2260791 0.829346441 0.738765355 0.899460766 0.761545549 0.77575108 0.69696935 0.89292027 0.835474388 1 10.56293424 -7.17322387 6.266690077 1.106451229 0.792412811 0.375962653 0.115978133 0.098440912 5.796026895 0.01643326 0.020159985 6.71E-08 7.17322387 -0.314038417 RNSSS(ph)PVSPASVPGQR ddPTM_HeLa_SAHA_4h_R1 1 RNSSSPVSPASVPGQR 16 1 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 RNS(0.002)S(0.229)S(0.769)PVSPASVPGQR 133.92 6.57E-05 17747000 1226.6 1059 1232.3 1330.3 1163.9 1429.1 1338.8 1672 1046.7 1408.5 TRUE FALSE FALSE 1355.619416 1093.312295 1400.231426 1356.04988 1074.722233 1307.33264 1188.1547 1629.232661 1039.415929 1469.227328 0.922675062 0.744141001 0.953039329 0.922968049 0.73148805 0.88980964 0.808693575 1.108904408 0.707457525 1 10.52084192 -8.151288405 1.132062118 0.984722068 0.876429993 0 0.135762206 0.531424606 1.41546148 0.026843003 0.020304946 7.06E-09 8.151288405 -0.108292075 RNSSSPVS(ph)PASVPGQR ddPTM_HeLa_SAHA_4h_R1 2 RNSSSPVSPASVPGQR 16 1 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 RNSSSPVS(0.955)PAS(0.045)VPGQR;RNSSSPVS(0.863)PAS(0.136)VPGQR ; 83.229 0.0057095 7931900 1091.34 764.6 1253.4 1449.32 1221.77 1358.62 1570.43 1503.62 1142.04 1397.38 TRUE FALSE FALSE 1206.132148 789.3735417 1424.206825 1477.373684 1128.158247 1242.857933 1393.721083 1465.159578 1134.092451 1457.62789 0.827462315 0.541546678 0.977071607 1.013546526 0.77396862 0.852657898 0.956156981 1.005167085 0.778039758 1 10.50940675 -4.571045983 4.669626572 0.887213706 0.995500734 0.080806728 0.136353717 0.403286876 18.70288371 0.019828487 0.085521572 2.69E-05 4.571045983 0.108287028 RNT(ph)LQLHR ddPTM_HeLa_SAHA_4h_R1 2 RNTLQLHR 8 1 P61313;E7ERA2 P61313 RPL15 60S ribosomal protein L15;Ribosomal protein L15 1 0 RNT(1)LQLHR;RNT(1)LQLHR ; 105.17 0.010924 8672800 1049.63 1136.7 1019.9 1505.56 1705.4 2177.7 2510.4 2179.9 2134.2 1158.39 TRUE FALSE FALSE 1160.034899 1173.529826 1158.886661 1534.702291 1574.73262 1992.147709 2227.923185 2124.141314 2119.347928 1208.333862 0.960028462 0.971196672 0.959078196 1.270097892 1.303226426 1.648673245 1.843797691 1.757909284 1.753942346 1 10.23880341 -5.471487425 1.084610583 0.976457886 1.843052105 0.484607172 0.253001467 0.060059771 0.129351489 0.009198565 0.036036442 3.38E-06 5.471487425 0.866594219 RNTWKQFT(ph)ISMRS(ph)GS(ph)SK ddPTM_HeLa_SAHA_4h_R1 1 RNTWKQFTISMRSGSSK 17 3 J3QRP0 J3QRP0 TK2 3 0 RNT(0.009)WKQFT(0.98)IS(0.436)MRS(0.533)GS(0.533)S(0.51)K 43.233 0.023124 15752000 1882.9 2448.8 1423.2 1888.5 3021.6 1297.7 2680.6 2404.1 1817.2 2126.7 TRUE FALSE FALSE 2080.952061 2528.142727 1617.146284 1925.054648 2790.085661 1187.128659 2378.971833 2342.606603 1804.553957 2218.392445 0.938045054 1.139628262 0.728972138 0.867770107 1.257706078 0.53513014 1.072385474 1.055992869 0.813451182 1 11.11529889 -9.517588432 0.444530814 1.019208846 0.941034135 0 0.204688389 13.68921853 3.084455056 0.502160205 0.054833728 3.04E-10 9.517588432 -0.078174711 RNVPQEESLEDS(ph)DVDADFK ddPTM_HeLa_SAHA_4h_R1 2 RNVPQEESLEDSDVDADFK 19 1 O00505 O00505 KPNA3 Importin subunit alpha-4 1 0 RNVPQEESLEDS(1)DVDADFK;RNVPQEESLEDS(1)DVDADFK ; 129.26 5.35E-05 8185400 2194.06 2288 2215.86 2361.28 2417.9 3306.2 2348.6 2271.52 3172.8 2352.69 TRUE FALSE FALSE 2424.841298 2362.132701 2517.825861 2406.985989 2232.641024 3024.49316 2084.329347 2213.417808 3150.720226 2454.12598 0.988067164 0.962514851 1.025956239 0.980791536 0.909749965 1.232411533 0.849316361 0.901916946 1.283846165 1 11.26099359 RNVSSFPDDAT(ph)SPLQENR ddPTM_HeLa_SAHA_4h_R1 1 RNVSSFPDDATSPLQENR 18 1 P52292;J3QLL0;J3KS65 P52292 KPNA2 Importin subunit alpha-1 1 0 RNVSSFPDDAT(0.5)S(0.5)PLQENR 137.12 0.00016239 15711000 908.28 636.68 798.29 846.25 906.59 1296 1085.5 1058.3 918.67 867.69 TRUE FALSE FALSE 1003.817058 657.3088497 907.0768039 862.6303924 837.1272701 1185.573509 963.3566831 1031.230218 912.2769007 905.1003623 1.109067126 0.726227584 1.002183671 0.95307706 0.924899939 1.309880714 1.064364487 1.139354553 1.007928997 1 9.821933964 -5.277465775 24.99414954 1.008920412 1.160516394 0.36639693 0.11500052 844.2110118 1316598.424 0.017552776 0.039365234 5.28E-06 5.277465775 0.151595982 RNVSSFPDDATS(ph)PLQENR ddPTM_HeLa_SAHA_4h_R1 3 RNVSSFPDDATSPLQENR 18 1 P52292;J3QLL0;J3KS65 P52292 KPNA2 Importin subunit alpha-1 1 0 RNVS(0.002)S(0.001)FPDDAT(0.119)S(0.877)PLQENR;RNVS(0.001)SFPDDAT(0.265)S(0.734)PLQENR;RNVS(0.002)S(0.002)FPDDAT(0.269)S(0.727)PLQENR ;; 137.73 0.00031576 22430500 3975.25 3894.35 3659.75 3885.4 4813.07 5771.82 4377.56 4440.3 4483.88 4443.51 TRUE FALSE FALSE 4393.385034 4020.529495 4158.481671 3960.607535 4444.293616 5280.028465 3884.985428 4326.723555 4452.676314 4635.091462 0.947852932 0.867411038 0.897173595 0.854483146 0.958836229 1.139142239 0.838168019 0.93347102 0.960644758 1 12.17838209 -8.416458854 1.101524649 0.991798659 0.929872056 0.054970086 0.080708917 0.811061576 2.011103886 0.025439383 0.016294709 3.83E-09 8.416458854 -0.061926602 RPAAAAAAGSAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 7 RPAAAAAAGSASPR 14 1 Q96S55-2;Q96S55 Q96S55-2 WRNIP1 ATPase WRNIP1 1 0 RPAAAAAAGSAS(1)PR;RPAAAAAAGS(0.004)AS(0.996)PR;RPAAAAAAGSAS(1)PR;RPAAAAAAGSAS(1)PR;RPAAAAAAGS(0.08)AS(0.92)PR;RPAAAAAAGS(0.033)AS(0.967)PR;RPAAAAAAGS(0.024)AS(0.976)PR ;;;;;; 188.19 4.85E-08 479340000 4804.77 5143.64 4536.75 5317.12 5729.84 6612.36 5611.8 5499.7 6290.33 5105.71 TRUE FALSE FALSE 5310.157754 5310.297311 5154.994664 5420.040546 5290.820897 6048.949728 4980.345495 5359.025637 6246.555081 5325.842145 0.99705504 0.997081244 0.967921039 1.017687043 0.99342428 1.135773379 0.935128259 1.006230656 1.172876498 1 12.37879395 -6.060369874 24.95507626 0.99618884 1.018355315 0 0.073154615 604.7893946 250000.9154 0.006677961 0.011074148 8.70E-07 6.060369874 0.022166475 RPAAAAAAGSASPR ddPTM_HeLa_SAHA_4h_R1 1 RPAAAAAAGSASPR 14 1 Q96S55-2;Q96S55 Q96S55-2 WRNIP1 ATPase WRNIP1 0 0 108.36 0.00098509 0 162.9 0 140.22 161.82 164.74 209.77 177.14 67.994 160.96 0 FALSE FALSE TRUE 180.0345694 0 159.3284514 164.9522601 152.1176568 191.8964159 157.207741 66.25481193 159.8398663 0 0 RPAEATS(ph)SPTSPERPR ddPTM_HeLa_SAHA_4h_R1 1 RPAEATSSPTSPERPR 16 2 Q9BU76 Q9BU76 MMTAG2 Multiple myeloma tumor-associated protein 2 1 0 RPAEAT(0.039)S(0.328)S(0.328)PT(0.303)S(0.003)PERPR 74.657 0.012588 98775000 410.97 418.66 435.65 713.3 657.51 707.1 683.85 574.93 485.51 590.31 TRUE FALSE FALSE 454.1977102 432.2248587 495.0181132 727.1069529 607.1317258 646.851102 606.9013982 560.2241231 482.1312964 615.761153 0.737619949 0.701935899 0.803912541 1.180826282 0.985985756 1.050490273 0.985611702 0.909807513 0.782984269 1 9.266227044 -6.28977721 24.87983957 0.852196366 1.020014055 0.502384352 0.102931943 671.9474422 589950.0437 0.020163966 0.030804296 5.13E-07 6.28977721 0.167817689 RPAEATSSPTS(ph)PERPR ddPTM_HeLa_SAHA_4h_R1 1 RPAEATSSPTSPERPR 16 2 Q9BU76 Q9BU76 MMTAG2 Multiple myeloma tumor-associated protein 2 1 0 RPAEATSSPT(0.249)S(0.751)PERPR 128.4 0.00017953 5928800 182.65 350.7 230.65 430.11 358.22 371.63 269.67 343.67 244.25 424.07 TRUE FALSE FALSE 201.861965 362.0629101 262.0817808 438.435401 330.773261 339.9650333 239.3260219 334.879419 242.5502444 442.353733 0.456336072 0.818491816 0.59247105 0.991142084 0.747757363 0.768536598 0.541028602 0.757039885 0.54831739 1 8.789056688 -9.64050443 1.482516754 0.999249574 0.676820738 0 0.200797177 0.357192152 1.416325411 0.112190019 0.025711482 2.29E-10 9.64050443 -0.322428836 RPAEDMEEEQAFK ddPTM_HeLa_SAHA_4h_R1 2 RPAEDMEEEQAFK 13 1 P61978;P61978-2;P61978-3;Q5T6W2;S4R457 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 ; ; 160.18 0.00012392 15598200 4066.2 5137.3 3456.2 4226.9 4780.4 6368.9 4421.2 4243.7 6526 4460 FALSE FALSE TRUE 4493.901572 5303.751891 3927.192937 4308.717762 4414.126785 5826.23389 3923.71494 4135.152299 6480.585035 4652.292427 0.965954235 1.140029775 0.844141463 0.926149383 0.94880682 1.252336129 0.843393876 0.88884187 1.392987465 1 12.18372607 RPAEDMEEEQAFK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 RPAEDMEEEQAFKR 14 2 P61978;P61978-2;P61978-3;Q5T6W2;S4R457 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 1 ; RPAEDMEEEQAFK(1)R;RPAEDMEEEQAFK(1)R 255.39 7.60E-70 10521600 394.34 1055.2 635.64 951.13 1096.81 1056.4 1088.39 856.02 1012 773.17 FALSE TRUE FALSE 435.8184905 1089.389172 722.2617089 969.5404965 1012.772655 966.3887769 965.9214927 834.1242479 1004.95741 806.5051425 0.54037906 1.350752915 0.895545076 1.202150421 1.255754739 1.198242548 1.197663154 1.034245418 1.246064478 1 9.655539922 -7.256655983 24.99399371 0.782956778 1.159708412 0.09940638 0.213633669 276.9973919 1447355.359 0.033247562 0.040016985 5.54E-08 7.256655983 0.376751633 RPAGGRPSPSAMGK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 RPAGGRPSPSAMGKR 15 3 Q92615;A0A087X183;H0Y4V9 Q92615 LARP4B La-related protein 4B 0 1 RPAGGRPSPSAMGK(1)R 63.16 0.013968 1194600 200.67 258.2 509.86 363.78 396.21 467.83 448.41 163.26 0 104.45 FALSE TRUE FALSE 221.7773913 266.5658494 579.3410656 370.8214879 365.8524754 427.9682521 397.9537266 159.0840456 0 108.9533507 2.035526122 2.446605339 5.317331335 3.403488609 3.35788182 3.927995325 3.652514808 1.460111549 0 1 6.767566754 -7.332390233 1.760589108 1.396101904 3.523211183 0.531657649 1.024262195 0.204426863 1.204987761 0.175949698 0.203143911 4.65E-08 7.332390233 2.127109279 RPAS(ph)GDDLSAK ddPTM_HeLa_SAHA_4h_R1 1 RPASGDDLSAK 11 1 D6RB33;D6RAL8;D6RDV8;Q92564-2;Q92564;Q92564-3 D6RB33 DCUN1D4 DCN1-like protein;DCN1-like protein 4 1 0 RPAS(0.999)GDDLS(0.001)AK 121.56 0.0053182 7303400 1776.4 1741.5 1577.2 2018.5 1989.5 2502.2 2226.7 2375.9 2253.8 1571.1 TRUE FALSE FALSE 1963.249902 1797.925743 1792.132602 2057.570986 1837.06494 2288.998483 1976.145856 2315.127918 2238.115622 1638.83781 1.197952531 1.097073629 1.093538721 1.255506173 1.120955917 1.396720572 1.205821494 1.412664453 1.365672435 1 10.67845737 -1 0.086622898 0.857873074 2.182315989 0.015000429 0.133353038 79.67326405 0.502825498 1.082944957 12.62293913 0.1 1 1.324442916 RPAS(ph)PSHNGSSGGGYGASK ddPTM_HeLa_SAHA_4h_R1 2 RPASPSHNGSSGGGYGASK 19 1 K7ELX9;K7EQ79;K7ENM4;K7ENP7;Q6PI98;Q6PI98-3;Q6PI98-4 K7ELX9 INO80C INO80 complex subunit C 1 0 RPAS(0.784)PS(0.215)HNGS(0.001)SGGGYGASK;RPAS(0.995)PS(0.005)HNGSSGGGYGASK ; 118.37 0.00021729 1408150 0 319.48 0 255.27 389.44 419.662 397.65 345.225 157.95 293.92 TRUE FALSE FALSE 0 329.8313616 0 260.21112 359.6011913 383.9044366 352.9053754 336.3946444 156.8508131 306.5923296 0 1.075797826 0 0.848720254 1.172896895 1.252165823 1.151057418 1.097205024 0.511594055 1 8.260177794 -5.971098873 4.821916854 0.525192891 1.163676307 0.460803905 0.331290178 0.171253747 9.967491143 0.062575203 0.113436866 1.07E-06 5.971098873 0.638483416 RPAS(ph)PSSPEHLPATPAESPAQR ddPTM_HeLa_SAHA_4h_R1 2 RPASPSSPEHLPATPAESPAQR 22 1 Q9H7L9 Q9H7L9 SUDS3 Sin3 histone deacetylase corepressor complex component SDS3 1 0 RPAS(0.813)PS(0.077)S(0.109)PEHLPATPAESPAQR;RPAS(0.622)PS(0.189)S(0.189)PEHLPATPAESPAQR ; 83.755 0.0003977 13161400 1588.74 2023.64 977.08 2277.1 3527.3 4204.4 2638.2 2888.9 2449 2311.75 TRUE FALSE FALSE 1755.850963 2089.207264 1110.231374 2321.176563 3257.039036 3846.161467 2341.342793 2815.006121 2431.95721 2411.420856 0.728139577 0.866380192 0.460405479 0.962576299 1.350672168 1.594977275 0.970939099 1.167364093 1.008516288 1 11.23566775 -5.889796554 5.072644702 0.835017901 1.270174449 0.522546199 0.206024853 0.139499504 5.700204814 0.031847236 0.058721915 1.29E-06 5.889796554 0.435156548 RPAS(ph)VSSSAAVEHEQR ddPTM_HeLa_SAHA_4h_R1 4 RPASVSSSAAVEHEQR 16 1 Q7Z5L9;Q7Z5L9-2 Q7Z5L9 IRF2BP2 Interferon regulatory factor 2-binding protein 2 1 0 RPAS(0.91)VS(0.077)S(0.013)SAAVEHEQR;RPAS(0.985)VS(0.012)S(0.003)SAAVEHEQR;RPAS(1)VSSSAAVEHEQR;RPAS(0.731)VS(0.187)S(0.074)S(0.008)AAVEHEQR ;;; 152.9 4.18E-05 151195700 2736.5 3214.45 2449.34 2101.67 2615.73 2617.37 2753.78 2533.58 3041.68 2875.8 TRUE FALSE FALSE 3024.337626 3318.600289 2783.1233 2142.350862 2415.313333 2394.355351 2443.917427 2468.774692 3020.512701 2999.789812 1.008183178 1.106277605 0.927772769 0.71416699 0.805160856 0.798174373 0.814696222 0.822982558 1.006908114 1 11.5506457 -6.48214664 5.693604851 1.01207076 0.794920759 0.881559745 0.041234765 0.049522605 4.196776352 0.006253737 0.009457593 3.29E-07 6.48214664 -0.217150002 RPATADS(ph)PKPSAK ddPTM_HeLa_SAHA_4h_R1 2 RPATADSPKPSAK 13 2 Q03111 Q03111 MLLT1 Protein ENL 1 0 RPAT(0.365)ADS(0.63)PKPS(0.005)AK;RPAT(0.001)ADS(0.941)PKPS(0.058)AK ; 78.249 0.014902 199518000 13317 12086.2 10230 14655.2 13032.3 14701.4 15770.9 14517.2 13096 13796.3 TRUE FALSE FALSE 14717.74316 12477.80081 11624.09112 14938.87259 12033.76799 13448.75801 13996.31683 14145.87104 13004.86387 14391.12601 1.022695733 0.867048263 0.807726311 1.038061412 0.836193636 0.934517424 0.972565789 0.982957903 0.903672434 1 13.81289186 -7.278285686 24.55666264 1.010717433 0.919472184 0.047729647 0.074180074 578.9851835 843978.0648 0.010940175 0.0125284 5.27E-08 7.278285686 -0.091245249 QSPLPPQK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 QSPLPPQKK 9 1 Q01105;B2REB7 Q01105 SET Protein SET 0 1 ; QSPLPPQK(1)K;QSPLPPQK(1)K 101.46 0.0020422 0 678.15 987.15 1207.79 2165.1 3815.9 6833.4 7145.1 7217 851.33 439.01 FALSE TRUE FALSE 749.4809285 1019.134308 1372.381331 2207.008641 3523.526566 6251.155876 6341.114543 7032.39959 845.4055252 457.9378696 1.636643262 2.225485978 2.996872333 4.819449947 7.694333229 13.65066375 13.8471067 15.35666748 1.846114029 1 8.839008065 -5.520243739 0.975787381 1.336013964 15.75872176 0.988606276 0.578679053 0.039349845 0.067533373 0.091704354 0.37287407 3.02E-06 5.520243739 14.4227078 up RPDDVPLSLS(ph)PSKR ddPTM_HeLa_SAHA_4h_R1 1 RPDDVPLSLSPSKR 14 2 F8WDB4;Q9UFC0 F8WDB4 LRWD1 Leucine-rich repeat and WD repeat-containing protein 1 1 0 RPDDVPLS(0.13)LS(0.848)PS(0.021)KR 70.335 0.020892 5498000 1155.2 1188.4 996.35 1012 1139 1725 1324.8 1392.4 1652.1 1065.1 TRUE FALSE FALSE 1276.709236 1226.90494 1132.127389 1031.588723 1051.730066 1578.020295 1175.730017 1356.784424 1640.602902 1111.021673 1.149130811 1.104303335 1.018996673 0.92850459 0.946633258 1.420332594 1.058242198 1.221204281 1.476661474 1 10.11767125 -5.285769966 24.99899698 1.052528326 1.215758029 0.103230407 0.170021341 673.5512635 692053.9719 0.015805904 0.035356279 5.18E-06 5.285769966 0.163229703 RPDDVPLSLSPS(ph)KR ddPTM_HeLa_SAHA_4h_R1 1 RPDDVPLSLSPSKR 14 2 F8WDB4;Q9UFC0 F8WDB4 LRWD1 Leucine-rich repeat and WD repeat-containing protein 1 1 0 RPDDVPLS(0.006)LS(0.245)PS(0.749)KR 51.009 0.02347 19843000 6050.7 5381.7 5455.3 5812.3 5895.1 2740.7 5702.5 6316.1 6269.1 6231.6 TRUE FALSE FALSE 6687.140388 5556.070611 6198.719874 5924.805471 5443.418712 2507.176941 5060.839692 6154.543308 6225.472823 6500.274773 1.028747341 0.854743962 0.9536089 0.911470004 0.837413633 0.385703225 0.77855781 0.946812792 0.957724564 1 12.66628499 -5.730970101 2.695904152 0.992648052 0.702131438 0.360549002 0.140430737 0.18032795 2.675297973 0.020765644 0.043690225 1.86E-06 5.730970101 -0.290516614 RPDFAQQQAMQQLTFDGK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 RPDFAQQQAMQQLTFDGKR 19 2 Q9C0J8;B9A053;Q9C0J8-3;Q9C0J8-2 Q9C0J8 WDR33 pre-mRNA 3 end processing protein WDR33 0 1 RPDFAQQQAMQQLTFDGK(1)R 101.92 0.0011348 1945400 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 RPDHSGGS(ph)PS(ph)PPTSEPAR ddPTM_HeLa_SAHA_4h_R1 1 RPDHSGGSPSPPTSEPAR 18 1 Q8TAD8 Q8TAD8 SNIP1 Smad nuclear-interacting protein 1 2 0 RPDHS(0.232)GGS(0.88)PS(0.878)PPT(0.007)S(0.002)EPAR 92.096 0.0053158 2235400 516.48 585.77 535.5 650.36 710.77 842.1 772.71 816.88 747.22 777.65 TRUE FALSE FALSE 570.8057361 604.7493323 608.4751512 662.9486582 656.3109562 770.3483425 685.7626371 795.9853924 742.0200352 811.1782972 0.703674812 0.745519616 0.750112711 0.817266266 0.809083476 0.949665869 0.84539076 0.981270573 0.914743451 1 9.663875244 -3.691824355 0.929145214 0.836422543 1.231643708 0.203134493 0.088775251 9.905867322 3.090844301 0.01916183 5.095332219 0.000203318 3.691824355 0.395221165 RPDHSGGS(ph)PSPPT(ph)SEPAR ddPTM_HeLa_SAHA_4h_R1 1 RPDHSGGSPSPPTSEPAR 18 1 Q8TAD8 Q8TAD8 SNIP1 Smad nuclear-interacting protein 1 2 0 RPDHS(0.003)GGS(0.995)PS(0.264)PPT(0.407)S(0.331)EPAR 80.314 0.0054698 18504000 1859.7 1838.2 1499.7 1790 2008.8 2210 1782.1 2134.8 1970.2 1714.9 TRUE FALSE FALSE 2055.311779 1897.758886 1704.071306 1824.648038 1854.886178 2021.695567 1581.573418 2080.194907 1956.489218 1788.837732 1.148964907 1.060889343 0.952613686 1.020018756 1.036922548 1.130172699 0.884134648 1.162875129 1.093720902 1 10.80480681 -6.980795248 24.96887387 1.072164686 1.026873505 0.066721143 0.081715803 585.1214362 760737.849 0.013888236 0.018251245 1.05E-07 6.980795248 -0.045291182 RPDHSGGS(ph)PSPPTSEPAR ddPTM_HeLa_SAHA_4h_R1 5 RPDHSGGSPSPPTSEPAR 18 1 Q8TAD8 Q8TAD8 SNIP1 Smad nuclear-interacting protein 1 1 0 RPDHS(0.002)GGS(0.755)PS(0.242)PPTSEPAR;RPDHS(0.028)GGS(0.967)PS(0.004)PPTSEPAR;RPDHS(0.045)GGS(0.882)PS(0.073)PPTSEPAR;RPDHS(0.012)GGS(0.983)PS(0.005)PPTSEPAR;RPDHS(0.039)GGS(0.945)PS(0.016)PPTSEPAR ;;;; 93.729 0.001408 28270200 1115.784 1386.004 800.31 1532.91 1429.32 1660.212 1386.78 2019.55 1521.34 1228.15 TRUE FALSE FALSE 1233.147281 1430.911439 909.372079 1562.58169 1319.80581 1518.752598 1230.735865 1967.892835 1510.752871 1281.101557 0.962567935 1.116938334 0.709836058 1.219717267 1.030211698 1.185505231 0.960685636 1.536094328 1.179260819 1 10.32316913 -2.039876991 1.314344446 0.998095808 199.9999999 0.460014234 0.151098238 294.6854608 1.717051693 0.018414945 175535.6604 0.009122692 2.039876991 199.0019041 RPDPDS(ph)DEDEDYER ddPTM_HeLa_SAHA_4h_R1 3 RPDPDSDEDEDYER 14 1 H0Y6J6;Q5W012;Q96I25;Q5W011;Q5W010 H0Y6J6 RBM17 Splicing factor 45 1 0 RPDPDS(1)DEDEDYER;RPDPDS(1)DEDEDYER;RPDPDS(1)DEDEDYER ;; 158.29 3.86E-05 143221300 2870.68 3426.32 2816.56 3435.37 3611.43 4279.33 3305.15 3417.82 4144.45 3547.86 TRUE FALSE FALSE 3172.631294 3537.335016 3200.386129 3501.866554 3334.723014 3914.707009 2933.245823 3330.397113 4115.608435 3700.825607 0.857276627 0.955823211 0.86477626 0.946239279 0.901075427 1.057792889 0.792592285 0.899906525 1.112078458 1 11.85363144 -9.537690583 1.292107029 1.000137012 0.904905821 0.316727345 0.076080451 0.539666114 1.609965365 0.045067813 0.010669068 2.90E-10 9.537690583 -0.095231191 RPDPDS(ph)DEDEDYERER ddPTM_HeLa_SAHA_4h_R1 2 RPDPDSDEDEDYERER 16 2 H0Y6J6;Q5W012;Q96I25;Q5W011;Q5W010 H0Y6J6 RBM17 Splicing factor 45 1 0 RPDPDS(1)DEDEDYERER;RPDPDS(1)DEDEDYERER ; 159.01 3.46E-06 182494000 4188.4 4356.5 4486 4751.5 5239.4 4667.1 4665.9 4600.7 4541.8 4431.8 TRUE FALSE FALSE 4628.955129 4497.653458 5097.328718 4843.472153 4837.958304 4269.436824 4140.880652 4483.020756 4510.193244 4622.876587 1.001314883 0.972912293 1.102631364 1.047718247 1.046525516 0.92354549 0.895736794 0.969747012 0.975624843 1 12.17457513 -5.247923149 24.29246734 1.012621001 0.926282452 0.506444482 0.040676174 359.9809792 646984.6478 0.005770272 0.014620961 5.65E-06 5.247923149 -0.086338548 RPDQQLQGEGK ddPTM_HeLa_SAHA_4h_R1 4 RPDQQLQGEGK 11 1 Q8NC51-2;Q8NC51;Q8NC51-4;Q8NC51-3 Q8NC51-2 SERBP1 Plasminogen activator inhibitor 1 RNA-binding protein 0 0 ;;; ;;; 147.58 1.41E-05 14742570 8334.73 7711.22 7392.19 8061.16 7775.92 8567.26 9144.84 8507.07 7303.88 7520.21 FALSE FALSE TRUE 9211.415143 7961.068588 8399.559156 8217.195408 7180.13069 7837.28125 8115.838535 8289.471467 7253.051704 7844.443056 1.174259929 1.01486728 1.070765521 1.047518014 0.915314273 0.999087022 1.034597164 1.056731677 0.924610154 1 12.93745531 -5.991748953 24.76146487 1.076668003 1.000856675 0 0.073456787 224.9047383 674933.2911 0.011001527 0.019915723 1.02E-06 5.991748953 -0.075811328 RPDS(ph)PTRPTLR ddPTM_HeLa_SAHA_4h_R1 2 RPDSPTRPTLR 11 2 Q7RTP6 Q7RTP6 MICAL3 Protein-methionine sulfoxide oxidase MICAL3 1 0 RPDS(0.992)PT(0.004)RPT(0.004)LR;RPDS(0.987)PT(0.005)RPT(0.008)LR ; 81.278 0.016347 63950000 3384.7 2979.5 3160 3875.5 3240.4 5077.3 4595.2 3988.8 3837.4 4187.8 TRUE FALSE FALSE 3740.718276 3076.037755 3590.628343 3950.515907 2992.121252 4644.685476 4078.136002 3886.772272 3810.695221 4368.356553 0.856321646 0.704163618 0.821963203 0.904348319 0.684953533 1.063256953 0.933562989 0.889756187 0.872340702 1 12.0928749 -9.007179661 1.000471488 0.993388606 0.858517882 0.030665997 0.109638376 0.623737718 1.200257113 0.052979309 0.01970999 9.84E-10 9.007179661 -0.134870724 RPDTTESLNSS(ph)LSNGTSDADLFDSHDDRDDDAEAGSVEEHK ddPTM_HeLa_SAHA_4h_R1 1 RPDTTESLNSSLSNGTSDADLFDSHDDRDDDAEAGSVEEHK 41 2 Q96SU4-7;Q96SU4-2;Q96SU4;Q96SU4-6;Q96SU4-5;Q96SU4-4;Q96SU4-3 Q96SU4-7 OSBPL9 Oxysterol-binding protein-related protein 9 1 0 RPDTTESLNS(0.066)S(0.233)LS(0.233)NGT(0.233)S(0.233)DADLFDSHDDRDDDAEAGSVEEHK 63.727 4.04E-06 5396400 219.47 299.55 212.8 241.46 408.89 416.49 300.6 311.74 364.97 256.07 TRUE FALSE FALSE 242.5548616 309.2556165 241.7992758 246.1338075 377.5609365 381.0027089 266.7756969 303.7661422 362.4301441 267.1104309 0.908069598 1.157781879 0.905240859 0.921468348 1.413501282 1.426386486 0.998746833 1.13723055 1.356855076 1 8.061292505 -5.779327907 24.99996698 0.965869743 1.23948065 0.160702298 0.182613749 155.1129525 216776.6161 0.020370116 0.036978957 1.66E-06 5.779327907 0.273610906 RPDTTESLNSSLSNGT(ph)SDADLFDSHDDRDDDAEAGSVEEHK ddPTM_HeLa_SAHA_4h_R1 1 RPDTTESLNSSLSNGTSDADLFDSHDDRDDDAEAGSVEEHK 41 2 Q96SU4-7;Q96SU4-2;Q96SU4;Q96SU4-6;Q96SU4-5;Q96SU4-4;Q96SU4-3 Q96SU4-7 OSBPL9 Oxysterol-binding protein-related protein 9 1 0 RPDTTESLNS(0.047)S(0.151)LS(0.151)NGT(0.5)S(0.151)DADLFDSHDDRDDDAEAGSVEEHK 77.123 2.07E-09 4958600 214.1 147.64 143.9 266.37 336.32 262.62 290.82 355.41 485.33 132.71 TRUE FALSE FALSE 236.6200203 152.4236329 163.5099426 271.5259765 310.5512343 240.2432985 258.0961682 346.3191268 481.952549 138.4317776 1.709289763 1.101074013 1.181159019 1.961442534 2.243352211 1.73546351 1.864428621 2.501731415 3.481516726 1 7.113031347 -6.208067173 5.898233854 1.311801353 2.04787309 0 0.735161632 0.128847387 10.27722115 0.049569944 0.082340024 6.19E-07 6.208067173 0.736071738 RPDYAPMES(ph)S(ph)DEEDEEFQFIKK ddPTM_HeLa_SAHA_4h_R1 1 RPDYAPMESSDEEDEEFQFIKK 22 2 P55081 P55081 MFAP1 Microfibrillar-associated protein 1 2 0 RPDY(0.326)APMES(0.837)S(0.837)DEEDEEFQFIKK 54.225 0.006541 0 348.12 309 313.21 605.37 421.89 583.62 343.68 431.21 336.23 437.52 TRUE FALSE FALSE 384.7368588 319.0118027 355.8926277 617.0878117 389.5648793 533.8922926 305.0082219 420.1802726 333.8901481 456.3836284 0.843011964 0.698999225 0.779810242 1.352125215 0.853590828 1.169832263 0.668315432 0.920673413 0.731599749 1 8.834103229 -5.972493989 0.005693184 1.825263093 1.19E-05 0 0.21007757 74044.33482 139.6525994 21976.27441 22796.47254 1.07E-06 5.972493989 -1.825251182 RPEAS(ph)PVQK ddPTM_HeLa_SAHA_4h_R1 1 RPEASPVQK 9 1 Q3KQU3-4;Q3KQU3;Q3KQU3-2 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 RPEAS(1)PVQK 112.94 0.013915 1587200 1024.3 1195.4 795.56 1159.8 1120.1 1155.4 1023 1315.9 1446.7 1061.8 TRUE FALSE FALSE 1132.040574 1234.131744 903.9747737 1182.249606 1034.27818 1056.95342 907.8893476 1282.241183 1436.632297 1107.579394 1.02208526 1.114260297 0.816171534 1.06741748 0.933818546 0.954291336 0.819705885 1.157696857 1.297091932 1 10.1131944 -6.791122493 24.99999597 1.018507846 0.955569646 0.108605445 0.133740019 374.6128669 315508.6352 0.014611431 0.019204718 1.62E-07 6.791122493 -0.0629382 RPEGPGAQAPSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 6 RPEGPGAQAPSSPR 14 1 P40222 P40222 TXLNA Alpha-taxilin 1 0 RPEGPGAQAPS(0.002)S(0.998)PR;RPEGPGAQAPS(0.038)S(0.962)PR;RPEGPGAQAPS(0.002)S(0.998)PR;RPEGPGAQAPS(0.002)S(0.998)PR;RPEGPGAQAPS(0.119)S(0.881)PR;RPEGPGAQAPS(0.044)S(0.956)PR ;;;;; 168.55 2.28E-06 988333000 9161.46 10840.91 8813.79 10266.52 11213.55 12633.7 12051.2 10490.1 10440.37 9928.9 TRUE FALSE FALSE 10125.1044 11192.1626 10014.8874 10465.24334 10354.37022 11557.23768 10695.16726 10221.77843 10367.71462 10356.98347 0.977611331 1.080639226 0.966969526 1.010452838 0.999747682 1.115888397 1.03265273 0.98694552 1.001036127 1 13.33831625 -5.476214719 24.99565674 0.99657993 1.04622908 0.142490919 0.041325343 455.7717718 244134.2833 0.005695553 0.012735151 3.34E-06 5.476214719 0.049649151 RPELEDSTLR ddPTM_HeLa_SAHA_4h_R1 2 RPELEDSTLR 10 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;E9PMV1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 157.78 0.00051312 33079000 3304.6 3402.2 3384.7 3351.9 3531.1 3525.8 3158 3357.1 2991.4 3291 FALSE FALSE TRUE 3652.19299 3512.433512 3845.949289 3416.780871 3260.547881 3225.382004 2802.653529 3271.230243 2970.582604 3432.891116 1.06388256 1.023170673 1.120323704 0.995307091 0.949796475 0.939552667 0.816412008 0.952908243 0.86532969 1 11.74520838 -5.566027278 1.765696285 1.036587404 0.891064135 0.297816174 0.071044342 0.169832139 1.051668189 0.007128773 0.018705743 2.72E-06 5.566027278 -0.145523268 RPES(ph)PSEISPIK ddPTM_HeLa_SAHA_4h_R1 3 RPESPSEISPIK 12 1 Q7Z5K2;Q7Z5K2-2;Q7Z5K2-3 Q7Z5K2 WAPAL Wings apart-like protein homolog 1 0 RPES(0.997)PS(0.002)EIS(0.001)PIK;RPES(0.956)PS(0.041)EIS(0.003)PIK;RPES(0.922)PS(0.077)EIS(0.002)PIK ;; 121.45 0.0037919 73653000 6862.08 6949.2 6294 7812.7 8579.1 9148.3 8239.6 7952.4 7298.62 7299.46 TRUE FALSE FALSE 7583.865059 7174.35864 7151.713542 7963.926106 7921.771211 8368.813373 7312.458523 7748.989123 7247.828309 7614.175443 0.996019216 0.942237107 0.939263036 1.045934148 1.040397778 1.099109606 0.960374315 1.017705618 0.951886171 1 12.8944721 -6.219615406 24.99894046 0.988979148 1.032802566 0.342573365 0.040378142 585.2043071 349787.1109 0.00603125 0.010001626 6.03E-07 6.219615406 0.043823419 RPGAPSLS(ph)PAPR ddPTM_HeLa_SAHA_4h_R1 4 RPGAPSLSPAPR 12 1 Q5QP82;Q5QP82-2 Q5QP82 DCAF10 DDB1- and CUL4-associated factor 10 1 0 RPGAPS(0.007)LS(0.993)PAPR;RPGAPS(0.045)LS(0.955)PAPR;RPGAPS(0.027)LS(0.973)PAPR;RPGAPS(0.019)LS(0.981)PAPR ;;; 85.493 0.0087179 45123400 6259.8 5651.1 6052.1 6159.4 6572 7275.5 7205.5 6510.7 5496.7 6639.3 TRUE FALSE FALSE 6918.234485 5834.199348 6876.84867 6278.624094 6068.45478 6655.586469 6394.718176 6344.165721 5458.448017 6925.552715 0.9989433 0.842416423 0.992967486 0.90658816 0.876241223 0.961018816 0.923351311 0.9160519 0.788160634 1 12.7577135 -7.387436309 15.74646637 0.999533418 0.919849851 0 0.077343364 0.744521559 90.57929768 0.006038431 0.006904506 4.10E-08 7.387436309 -0.079683567 RPGFS(ph)PTSHR ddPTM_HeLa_SAHA_4h_R1 1 RPGFSPTSHR 10 1 Q8WUA4;H0Y4Q6 Q8WUA4 GTF3C2 General transcription factor 3C polypeptide 2 1 0 RPGFS(0.984)PT(0.013)S(0.002)HR 68.171 0.021432 14274000 1109.5 1122.8 876.16 1232.3 1282 1555.1 1077.7 972.45 1463.6 1074.2 TRUE FALSE FALSE 1226.202301 1159.179457 995.558522 1256.152948 1183.773437 1422.596731 956.4343596 947.5761371 1453.414688 1120.514019 1.094321249 1.034506875 0.888483772 1.121050631 1.056455713 1.269592979 0.853567509 0.84566201 1.297096389 1 10.12994498 -4.583834715 24.99994932 1.052271092 0.847632722 0.362921071 0.119817605 39.95015916 16384.56442 0.012413475 0.046446986 2.61E-05 4.583834715 -0.204638371 RPGHDDGQRPS(ph)GGAAAAPR ddPTM_HeLa_SAHA_4h_R1 1 RPGHDDGQRPSGGAAAAPR 19 2 Q8N726;Q8N726-2 Q8N726 CDKN2A Tumor suppressor ARF 1 0 RPGHDDGQRPS(1)GGAAAAPR 65.905 0.0052839 987920 0 103.38 0 113.08 0 68.023 146.98 0 0 78.03 TRUE FALSE FALSE 0 106.7295798 0 115.2688269 0 62.22705771 130.4414236 0 0 81.39425517 0 1.311266742 0 1.416178902 0 0.764514124 1.602587594 0 0 1 6.346855067 -5.006887923 24.9087696 0.56804253 0.896857933 0.026900765 0.636506289 801.8030792 2899601.423 0.083966292 0.238960873 9.84E-06 5.006887923 0.328815403 RPGHDDGQRPSGGAAAAPR ddPTM_HeLa_SAHA_4h_R1 2 RPGHDDGQRPSGGAAAAPR 19 2 Q8N726;Q8N726-2 Q8N726 CDKN2A Tumor suppressor ARF 0 0 ; ; 61.962 0.0052139 1442820 149.44 273.78 196.497 321.7 375.3 506.06 271.68 347.454 406.55 316.79 FALSE FALSE TRUE 165.1587849 282.6506516 223.2745878 327.9269687 346.5445951 462.940841 241.1098514 338.5666298 403.7207854 330.4483672 0.499802091 0.855354965 0.675671633 0.992369765 1.048710266 1.400947582 0.729644554 1.024567416 1.22173636 1 8.368281057 -6.13737621 4.712968799 0.760409461 1.049444108 0.079798062 0.241153298 0.249579752 8.574631122 0.035617572 0.060083181 7.29E-07 6.13737621 0.289034647 RPGS(ph)VSSTDQER ddPTM_HeLa_SAHA_4h_R1 1 RPGSVSSTDQER 12 1 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 RPGS(0.993)VS(0.002)S(0.001)T(0.004)DQER 104.09 0.011178 1255200 205.67 252.51 123.1 220.38 48.65 190.94 139.8 138.77 194.41 370.16 TRUE FALSE FALSE 227.3033142 260.6914897 139.8754269 224.6457736 44.92244751 174.6708378 124.0693361 135.2204643 193.057085 386.1194091 0.58868658 0.675157694 0.362259507 0.581803888 0.116343407 0.452375182 0.321323749 0.350203748 0.499993216 1 8.592903266 -8.464717409 0.253728267 1.212056009 0.240369627 0.262813939 0.195368775 0.937478897 0.137994836 0.322475542 0.126123622 3.43E-09 8.464717409 -0.971686382 RPGSVS(ph)STDQER ddPTM_HeLa_SAHA_4h_R1 1 RPGSVSSTDQER 12 1 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 RPGS(0.002)VS(0.491)S(0.491)T(0.015)DQER 108.36 0.0089301 1656700 518.13 729.68 542.17 754.06 711.79 803.99 699.98 814.86 709.44 634.92 TRUE FALSE FALSE 572.6292907 753.3221108 616.0541041 768.6559217 657.252804 735.4855289 621.2164082 794.0170611 704.5029493 662.2945084 0.864614282 1.137442786 0.930181507 1.160595342 0.992387519 1.11051129 0.937976082 1.198888185 1.063730622 1 9.371329086 -7.26339873 24.99547862 0.936067856 1.059061533 0.107710881 0.099929576 164.318162 2096207.118 0.015062107 0.017697404 5.45E-08 7.26339873 0.122993677 RPGSVSS(ph)TDQER ddPTM_HeLa_SAHA_4h_R1 1 RPGSVSSTDQER 12 1 Q9H1B7 Q9H1B7 IRF2BPL Interferon regulatory factor 2-binding protein-like 1 0 RPGS(0.004)VS(0.1)S(0.699)T(0.197)DQER 103.13 0.0024669 2599500 271.89 154.42 283.47 393.76 293.62 360.19 399.36 292.2 413.3 455.04 TRUE FALSE FALSE 300.4886377 159.4233093 322.0998154 401.3817942 271.122899 329.4997856 354.4229617 284.7259471 410.4238116 474.6590013 0.633062128 0.335869137 0.67859203 0.845621368 0.571195107 0.694182107 0.746689646 0.599853677 0.86467087 1 8.890747632 -9.060093113 0.919063277 0.993028394 0.643079881 0.431040836 0.131644156 0.351659078 0.553581243 0.077544607 0.025278235 8.71E-10 9.060093113 -0.349948514 RPHTPT(ph)PGIYMGR ddPTM_HeLa_SAHA_4h_R1 1 RPHTPTPGIYMGR 13 1 P62995;P62995-3;H7C2L4;H7BXF3 P62995 TRA2B Transformer-2 protein homolog beta 1 0 RPHT(0.421)PT(0.579)PGIYMGR 65.092 0.020797 10659000 839.68 1150.3 867.35 1137.6 1102.6 1604.6 1252 1126.7 1801.6 892.08 TRUE FALSE FALSE 928.001395 1187.570475 985.547941 1159.619893 1018.119026 1467.879053 1111.121665 1097.880645 1789.062519 930.5419345 0.997269828 1.276213818 1.059111798 1.246176932 1.094114073 1.577445356 1.19405867 1.179829307 1.922602789 1 9.861927356 -6.784194372 0.741683917 0.991058401 1.281653676 0 0.323609452 0.414433511 0.462061432 0.029350312 0.048151921 1.64E-07 6.784194372 0.290595274 RPILQLS(ph)PPGPR ddPTM_HeLa_SAHA_4h_R1 3 RPILQLSPPGPR 12 1 Q8N3X1-2;Q8N3X1;F5GXL1 Q8N3X1-2 FNBP4 Formin-binding protein 4 1 0 RPILQLS(1)PPGPR;RPILQLS(1)PPGPR;RPILQLS(1)PPGPR ;; 67.326 0.019761 60852100 2132.2 2009.5 2047.31 2243.21 2311.83 1910.73 2245.41 2054.73 2102.63 1908.01 TRUE FALSE FALSE 2356.474579 2074.609118 2326.306745 2286.630573 2134.698085 1747.925055 1992.750557 2002.172982 2087.997627 1990.273649 1.183995266 1.042373806 1.168837635 1.148902602 1.072565115 0.878233531 1.001244507 1.005978742 1.049100775 1 10.95875109 -5.434787175 7.601695233 1.096485705 0.966324363 0.481569861 0.063787194 0.243854625 18.69868723 0.011460967 0.025690749 3.67E-06 5.434787175 -0.130161342 RPIS(ph)DDDCPSASK ddPTM_HeLa_SAHA_4h_R1 2 RPISDDDCPSASK 13 1 Q96PU4 Q96PU4 UHRF2 E3 ubiquitin-protein ligase UHRF2 1 0 RPIS(0.984)DDDCPS(0.015)AS(0.001)K;RPIS(0.998)DDDCPS(0.002)ASK ; 144.4 0.00055537 12619000 2647.55 2646.33 2241.71 2618.4 2774.17 3161.2 2864.72 2944.56 2642.68 2745.2 TRUE FALSE FALSE 2926.031456 2732.072828 2547.198564 2669.082918 2561.613694 2891.847976 2542.374166 2869.242419 2624.289375 2863.559007 1.021816365 0.954082951 0.889521941 0.932085881 0.894555931 1.009878954 0.887837184 1.001984737 0.916443268 1 11.48359362 -7.144879876 4.578819841 1.010204912 0.934245478 0.032381292 0.050156152 0.147573392 4.953931877 0.006187197 0.007621744 7.16E-08 7.144879876 -0.075959434 RPISDDDCPS(ph)ASK ddPTM_HeLa_SAHA_4h_R1 1 RPISDDDCPSASK 13 1 Q96PU4 Q96PU4 UHRF2 E3 ubiquitin-protein ligase UHRF2 1 0 RPIS(0.42)DDDCPS(0.521)AS(0.059)K 166.52 9.89E-05 9187600 1641.7 1437.4 1181.1 1572.7 1596.8 1780.2 1645.4 1673 1641.7 1359.9 TRUE FALSE FALSE 1814.381538 1483.972703 1342.054157 1603.141883 1474.453529 1628.516945 1460.255262 1630.207082 1630.275276 1418.531944 1.27905582 1.046132735 0.946086666 1.130141545 1.039422154 1.1480298 1.029413026 1.14922127 1.149269343 1 10.47018292 RPLAPSGRS(ph)PVEGLGR ddPTM_HeLa_SAHA_4h_R1 1 RPLAPSGRSPVEGLGR 16 2 Q9Y5U2-2;Q9Y5U2;A6NCC9;E9PME3;C9JHT9;C9JJV1 Q9Y5U2-2 TSSC4 Protein TSSC4 1 0 RPLAPS(0.029)GRS(0.971)PVEGLGR 60.968 0.014089 10395000 1534 1627.1 1480.1 1784.7 1843.2 1745.4 1966.3 1619.3 2020.2 1428.5 TRUE FALSE FALSE 1695.353158 1679.819108 1681.80032 1819.245449 1701.974414 1596.682101 1745.046749 1577.880651 2006.141264 1490.089626 1.137752474 1.127327564 1.128657156 1.220896661 1.142196003 1.071534271 1.171101871 1.058916607 1.346322549 1 10.54118339 -9.135113249 0.728008705 0.992484551 1.135695257 0 0.116286479 0.433629174 0.384598814 0.036877402 0.008832236 7.33E-10 9.135113249 0.143210706 RPLEDGDQPDAK ddPTM_HeLa_SAHA_4h_R1 1 RPLEDGDQPDAK 12 1 Q96AE4;E9PEB5;Q96AE4-2 Q96AE4 FUBP1 Far upstream element-binding protein 1 0 0 143.42 0.0011173 5285200 2226.7 2213.8 1935.3 2414.7 2267 2573 2538.4 2371.9 2068.8 1935.4 FALSE FALSE TRUE 2460.914522 2285.528573 2199.032605 2461.44001 2093.30295 2353.765925 2252.772551 2311.230232 2054.403052 2018.844566 1.218971765 1.132097345 1.089253052 1.219232056 1.036881682 1.165897546 1.115872212 1.144828221 1.017613286 1 10.97931412 -9.526964976 1.285022621 1.000016921 1.147251608 0.496497395 0.052582457 0.291409688 0.861782171 0.037334082 0.008942678 2.97E-10 9.526964976 0.147234687 RPLEEDFRRS(ph)PTEDFR ddPTM_HeLa_SAHA_4h_R1 2 RPLEEDFRRSPTEDFR 16 3 Q8IXT5 Q8IXT5 RBM12B RNA-binding protein 12B 1 0 RPLEEDFRRS(0.568)PT(0.432)EDFR;RPLEEDFRRS(0.908)PT(0.092)EDFR ; 55.186 0.019305 35004000 3368.7 2575.1 3617.8 3259.8 3252.4 3695.3 3706.8 2801.4 2918.4 2910.3 TRUE FALSE FALSE 3723.035322 2658.53493 4110.814943 3322.898143 3003.201815 3380.439651 3289.701108 2729.744244 2898.090617 3035.777276 1.226386188 0.875734512 1.354122707 1.094579029 0.989269483 1.113533485 1.083643762 0.899191211 0.954645336 1 11.56785023 -4.261537217 4.060511374 1.101241527 0.881675662 0.117883463 0.132265676 0.313569182 10.96504717 0.01755565 0.201112725 5.48E-05 4.261537217 -0.219565866 RPLIVFDGS(ph)S(ph)T(ph)S(ph)TSIK ddPTM_HeLa_SAHA_4h_R1 2 RPLIVFDGSSTSTSIK 16 1 C9J4K0;Q9BVC5-2;Q9BVC5 C9J4K0 C2orf49 Ashwin 4 0 RPLIVFDGS(0.997)S(0.997)T(0.529)S(0.529)T(0.499)S(0.448)IK;RPLIVFDGS(0.998)S(0.998)T(0.545)S(0.545)T(0.495)S(0.418)IK ; 60.968 0.013668 8105800 127.18 662.35 1484.54 205.47 2737.04 3387.4 1415.02 1258.53 3672.58 137.77 TRUE FALSE FALSE 140.5573759 683.8105746 1686.84538 209.447169 2527.328587 3098.774463 1255.798225 1226.338625 3647.022217 143.7099389 0.978063013 4.758269189 11.73784773 1.457429949 17.58631731 21.56270113 8.738422929 8.533429449 25.37766173 1 7.167016031 -6.58084129 0.965992435 0.843142932 13.36471285 0 9.224319643 0.299835631 0.559116159 0.961362631 1.68377603 2.63E-07 6.58084129 12.52156992 RPLS(ph)PETR ddPTM_HeLa_SAHA_4h_R1 2 RPLSPETR 8 1 Q9P227 Q9P227 ARHGAP23 Rho GTPase-activating protein 23 1 0 RPLS(1)PETR;RPLS(1)PETR ; 95.483 0.0074267 13007400 2576.5 2770.6 1949.64 2490.92 2875.8 2866.3 2838.7 2330.7 2843.5 2472 TRUE FALSE FALSE 2847.508091 2860.369258 2215.326786 2539.135359 2655.456825 2622.075115 2519.282005 2271.084069 2823.711852 2578.580018 1.104293088 1.109280782 0.85912664 0.984702953 1.029813621 1.016867848 0.977003617 0.880749891 1.095064661 1 11.3323611 -6.78511455 24.99999979 1.055127942 0.966053648 0.469769944 0.059840664 218.2112946 230421.2861 0.010725842 0.014100808 1.64E-07 6.78511455 -0.089074294 RPLS(ph)SSHEASEGQAK ddPTM_HeLa_SAHA_4h_R1 2 RPLSSSHEASEGQAK 15 1 Q8IZ21-3;Q8IZ21;Q8IZ21-2;A0A0J9YVR0 Q8IZ21-3 PHACTR4 Phosphatase and actin regulator 4 1 0 RPLS(0.818)S(0.176)S(0.006)HEASEGQAK;RPLS(0.463)S(0.463)S(0.072)HEAS(0.003)EGQAK ; 109.65 0.0011574 27250000 3821 6718.4 2707.6 6499.9 10135.2 13405.8 8305.5 8159.9 7286.7 6526.3 TRUE FALSE FALSE 4222.910311 6936.080568 3076.577627 6625.714964 9358.643166 12263.55042 7370.943281 7951.181573 7235.991261 6807.680732 0.620315564 1.018861025 0.451927426 0.97327052 1.374718283 1.801428549 1.082739272 1.167972161 1.062915778 1 12.73294766 -5.859365774 4.227829379 0.805873842 1.369066454 0.496666361 0.249486596 0.131917068 4.295516369 0.037374642 0.070193337 1.38E-06 5.859365774 0.563192611 RPLSS(ph)SHEASEGQAK ddPTM_HeLa_SAHA_4h_R1 1 RPLSSSHEASEGQAK 15 1 Q8IZ21-3;Q8IZ21;Q8IZ21-2;A0A0J9YVR0 Q8IZ21-3 PHACTR4 Phosphatase and actin regulator 4 1 0 RPLS(0.35)S(0.508)S(0.142)HEASEGQAK 74.505 0.010892 1166400 561.57 598.71 319.83 671.3 949.67 1114.8 725.95 779.98 699.98 596.07 TRUE FALSE FALSE 620.6385092 618.1085968 363.4147668 684.2939822 876.9064898 1019.812768 644.2641954 760.029241 695.1087822 621.7694948 0.998181021 0.99411213 0.584484716 1.10055895 1.410340162 1.640178196 1.036178521 1.222364956 1.117952534 1 9.280236027 -5.943355893 5.823588266 0.965184534 1.324369839 0.470291213 0.193071512 0.139645791 9.869830119 0.027901294 0.050880493 1.14E-06 5.943355893 0.359185305 RPMDGTYGPPAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 RPMDGTYGPPAKR 13 2 O14497;H0Y488;A0A1B0GTU5;O14497-3;A0A087WUV6 O14497 ARID1A AT-rich interactive domain-containing protein 1A 0 1 ; RPMDGTYGPPAK(1)R;RPMDGTYGPPAK(1)R 127.71 0.0003354 2526800 141.363 132.87 0 131.019 218.291 178.72 216.18 313.75 139.53 0 FALSE TRUE FALSE 156.2322089 137.1750752 0 133.5550622 201.5655907 163.4920505 191.8548574 305.7247293 138.5589994 0 0 RPMEEDGEEKS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 2 RPMEEDGEEKSPSK 14 2 Q12906;Q12906-7;Q12906-5;Q12906-4;Q12906-2;Q12906-6;Q12906-3 Q12906 ILF3 Interleukin enhancer-binding factor 3 1 0 RPMEEDGEEKS(0.955)PS(0.045)K;RPMEEDGEEKS(1)PSK ; 174.39 6.80E-06 94334000 7798.8 7913.3 6400.01 7219.22 8203.56 9100.7 8341.7 7781.21 8556.5 7754.73 TRUE FALSE FALSE 8619.113566 8169.696112 7272.170033 7358.958442 7575.005005 8325.269161 7403.069962 7582.177915 8496.95462 8089.074361 1.065525322 1.009966746 0.899011396 0.909740486 0.936448927 1.029199237 0.915193708 0.937335667 1.050423601 1 12.98175891 -6.907743193 6.141557914 1.03127188 0.939907238 0.60947752 0.037066975 0.125110306 6.912705179 0.006708468 0.008846612 1.24E-07 6.907743193 -0.091364642 RPMS(ph)DPSWNR ddPTM_HeLa_SAHA_4h_R1 2 RPMSDPSWNR 10 1 Q14C86-4;Q14C86-5;Q14C86-2;Q14C86;Q14C86-6;F8W9S7;Q14C86-3;H0Y4E7;H0Y7I9;C9IZ08 Q14C86-4 GAPVD1 GTPase-activating protein and VPS9 domain-containing protein 1 1 0 RPMS(0.999)DPS(0.001)WNR;RPMS(0.988)DPS(0.012)WNR ; 81.239 0.013327 18179100 2006.93 2515.5 2208.9 2510 2434.4 2802.2 2754.9 3090.1 2654.4 2760.8 TRUE FALSE FALSE 2218.028106 2597.00385 2509.917389 2558.58468 2247.876798 2563.436795 2444.911402 3011.059716 2635.927814 2879.831599 0.770193683 0.901790178 0.871550055 0.888449408 0.780558418 0.890134269 0.848977212 1.045567983 0.915306234 1 11.49176874 -9.605761581 1.42055532 0.999669452 0.858006198 0.096134092 0.076897695 0.387482205 1.408611237 0.051633694 0.012026662 2.48E-10 9.605761581 -0.141663254 RPMS(ph)SPEMK ddPTM_HeLa_SAHA_4h_R1 1 RPMSSPEMK 9 1 P51610-2;P51610;A6NEM2;P51610-4;H7C1C4 P51610-2 HCFC1 Host cell factor 1;HCF N-terminal chain 1;HCF N-terminal chain 2;HCF N-terminal chain 3;HCF N-terminal chain 4;HCF N-terminal chain 5;HCF N-terminal chain 6;HCF C-terminal chain 1;HCF C-terminal chain 2;HCF C-terminal chain 3;HCF C-terminal chain 4;HCF C-terminal chain 5;HCF C-terminal chain 6 1 0 RPMS(0.983)S(0.017)PEMK 73.632 0.018209 28458000 4721.6 5085.8 3843 4676.4 4756.4 5851.8 5335.8 4509.6 6012 4943 TRUE FALSE FALSE 5218.239551 5250.583257 4366.704027 4766.918484 4391.96566 5353.193719 4735.401741 4394.250962 5970.162003 5156.11692 1.012048336 1.018321217 0.84689779 0.924517143 0.851797143 1.038221941 0.918404647 0.852240364 1.157879485 1 12.33206926 -6.7824063 24.99733043 1.006795856 0.910417174 0.451519151 0.071052875 158.8001521 189325.22 0.008165562 0.010737822 1.65E-07 6.7824063 -0.096378681 RPMSS(ph)PEMK ddPTM_HeLa_SAHA_4h_R1 2 RPMSSPEMK 9 1 P51610-2;P51610;A6NEM2;P51610-4;H7C1C4 P51610-2 HCFC1 Host cell factor 1;HCF N-terminal chain 1;HCF N-terminal chain 2;HCF N-terminal chain 3;HCF N-terminal chain 4;HCF N-terminal chain 5;HCF N-terminal chain 6;HCF C-terminal chain 1;HCF C-terminal chain 2;HCF C-terminal chain 3;HCF C-terminal chain 4;HCF C-terminal chain 5;HCF C-terminal chain 6 1 0 RPMS(0.09)S(0.91)PEMK;RPMS(0.03)S(0.97)PEMK ; 104.43 0.015276 23328100 6789 6664.3 5957.5 6493.6 7389 8161.5 7185.7 6282.9 8105 7593.6 TRUE FALSE FALSE 7503.098169 6880.227693 6769.357075 6619.293018 6822.856416 7466.094285 6377.146124 6122.192516 8048.596645 7920.997258 0.947241607 0.868606246 0.854609193 0.835664097 0.86136331 0.942569987 0.805093843 0.772906784 1.016109005 1 12.95146636 -7.406221233 0.907959174 0.987708722 0.843074869 0.694434186 0.042976467 0.220810753 0.369441156 0.010500775 0.011533471 3.92E-08 7.406221233 -0.144633853 RPNEDS(ph)DEDEEK ddPTM_HeLa_SAHA_4h_R1 2 RPNEDSDEDEEK 12 1 Q12996;E9PLP8;H0YE74 Q12996 CSTF3 Cleavage stimulation factor subunit 3 1 0 RPNEDS(1)DEDEEK;RPNEDS(1)DEDEEK ; 140.49 0.0016956 9851400 747.07 899.3 718.65 1190.99 1344.37 1682.26 1123.15 1088.22 1592.16 1166.77 TRUE FALSE FALSE 825.6502503 928.4379101 816.5838794 1214.043334 1241.364661 1538.921984 996.770206 1060.384908 1581.080029 1217.075165 0.678388874 0.762843526 0.670939563 0.99750892 1.019957269 1.264442845 0.818988206 0.871256714 1.299081663 1 10.24920255 -6.150592986 11.29596195 0.824452454 1.001489757 0.033072103 0.206044356 0.694979189 67.18779225 0.025950714 0.043051014 7.07E-07 6.150592986 0.177037303 RPNEDS(ph)DEDEEKGAVVPPVHDIYR ddPTM_HeLa_SAHA_4h_R1 2 RPNEDSDEDEEKGAVVPPVHDIYR 24 2 Q12996;E9PLP8;H0YE74 Q12996 CSTF3 Cleavage stimulation factor subunit 3 1 0 RPNEDS(1)DEDEEKGAVVPPVHDIYR;RPNEDS(1)DEDEEKGAVVPPVHDIYR ; 61.537 0.0020424 381090000 6531.1 5962.8 5844.5 6865.1 6788.7 7703.1 7107.7 7315.4 6384.2 6584.2 TRUE FALSE FALSE 7218.071064 6155.998632 6640.958023 6997.983938 6268.551273 7046.752544 6307.92289 7128.282661 6339.771832 6868.077084 1.05095953 0.89632055 0.966931201 1.018914589 0.912708346 1.026015354 0.918440899 1.037886234 0.923078142 1 12.74569052 -7.300314363 24.98947627 1.024064222 0.968256174 0 0.057441272 550.8285109 354080.2978 0.007713004 0.008820233 5.01E-08 7.300314363 -0.055808048 RPNGFVDNSFLDIK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 RPNGFVDNSFLDIKR 15 2 A0A087X0G5;Q8IZL2 A0A087X0G5 MAML2 Mastermind-like protein 2 0 1 RPNGFVDNSFLDIK(1)R 83.292 0.012815 1197700 155.92 216.42 362.86 400.88 367.43 406.69 490.83 193.27 123.71 281.17 FALSE TRUE FALSE 172.320381 223.43215 412.3086711 408.6396121 339.2775928 372.037724 435.6005166 188.3264333 122.849092 293.2926147 0.587537402 0.76180626 1.405792885 1.393282993 1.156788735 1.268486506 1.485207928 0.642111065 0.418861867 1 8.196196933 -6.77163272 24.99362462 0.796527263 1.243580752 0.474223873 0.265695489 147.6328143 361988.6855 0.040634881 0.053742397 1.69E-07 6.77163272 0.447053489 RPPEDDFR ddPTM_HeLa_SAHA_4h_R1 1 RPPEDDFR 8 1 Q8IXT5;B9ZVT1 Q8IXT5 RBM12B RNA-binding protein 12B 0 0 120.15 0.0072894 1356500 356.45 338.29 254.73 471.83 420.94 416.42 551.39 451.86 457.27 473.09 FALSE FALSE TRUE 393.9430465 349.250818 289.4432778 480.9629519 388.6876681 380.9386733 489.346146 440.3020755 454.0878208 493.4872251 0.798284183 0.707720079 0.586526384 0.974620877 0.787634711 0.771932188 0.991608538 0.892225884 0.920161248 1 8.946868928 -9.116478294 0.991196323 0.994804295 0.813305508 0.192349597 0.116007879 0.562590106 1.035259866 0.067267301 0.021990065 7.65E-10 9.116478294 -0.181498786 RPPEEDFRHS(ph)PEEDFR ddPTM_HeLa_SAHA_4h_R1 2 RPPEEDFRHSPEEDFR 16 2 Q8IXT5 Q8IXT5 RBM12B RNA-binding protein 12B 1 0 RPPEEDFRHS(1)PEEDFR;RPPEEDFRHS(1)PEEDFR ; 69.111 0.0095818 61559000 3233.1 3579.6 3728.6 4254.7 4208.2 4457.5 4450.1 3040.3 4726 4120.8 TRUE FALSE FALSE 3573.172292 3695.581389 4236.71419 4337.055871 3885.768625 4077.695923 3949.363036 2962.533528 4693.111381 4298.467855 0.831266491 0.85974387 0.985633564 1.008977156 0.903989225 0.94863939 0.918783895 0.689206859 1.091810277 1 12.0696068 RPPEEDWR ddPTM_HeLa_SAHA_4h_R1 1 RPPEEDWR 8 1 Q8IXT5 Q8IXT5 RBM12B RNA-binding protein 12B 0 0 99.136 0.0032791 0 899.19 575.01 907.98 1956 846.96 1129.4 1233.1 1561.3 1194 1202.9 FALSE FALSE TRUE 993.7709298 593.6407013 1031.714786 1993.861208 782.0661078 1033.168766 1094.348343 1521.364207 1185.690857 1254.762906 0.791998971 0.473109859 0.822238832 1.58903423 0.623277995 0.823397601 0.872155479 1.212471455 0.944952111 1 10.29319907 RPPES(ph)PPIVEEWNSR ddPTM_HeLa_SAHA_4h_R1 3 RPPESPPIVEEWNSR 15 1 A0A3B3IU46;Q9BTL3 A0A3B3IU46 FAM103A1 RNMT-activating mini protein 1 0 RPPES(1)PPIVEEWNSR;RPPES(1)PPIVEEWNSR;RPPES(1)PPIVEEWNSR ;; 133.95 0.00011694 66572100 1061.52 1168.41 1124.32 1074.63 1249.45 1584.97 1384.65 1165.24 1355.75 1477.46 TRUE FALSE FALSE 1173.175544 1206.267251 1277.536474 1095.431018 1153.717411 1449.921639 1228.845538 1135.434848 1346.315225 1541.160531 0.761228646 0.782700586 0.828944454 0.710783202 0.748603009 0.94079858 0.797350771 0.736740155 0.873572349 1 10.58980143 -9.266951688 0.850894576 1.008815909 0.789248947 0.363230478 0.071025223 0.350731992 0.42702073 0.051017523 0.01190333 5.41E-10 9.266951688 -0.219566962 RPPGPTTS(ph)PASTSLSSPGQR ddPTM_HeLa_SAHA_4h_R1 1 RPPGPTTSPASTSLSSPGQR 20 1 Q01970-2;Q01970 Q01970-2 PLCB3 "1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-3" 1 0 RPPGPT(0.041)T(0.427)S(0.51)PAS(0.014)T(0.006)S(0.001)LSSPGQR 51.688 0.01771 9931800 541.17 449 501.33 729.18 638.09 962.31 712.62 520.35 868.17 507.5 TRUE FALSE FALSE 598.0927436 463.5478946 569.6486416 743.2943333 589.1996821 880.3157742 632.4341221 507.0402005 862.1283343 529.3808086 1.1297968 0.875641669 1.07606591 1.404082508 1.112997813 1.66291592 1.194667641 0.957798606 1.628559857 1 9.048162084 -6.384625405 6.90113353 1.045858762 1.275409385 0 0.260450039 0.257658431 13.52327883 0.027661996 0.042328834 4.12E-07 6.384625405 0.229550623 RPPRAS(ph)PT(ph)RT(ph)PPR ddPTM_HeLa_SAHA_4h_R1 1 RPPRASPTRTPPR 13 3 Q9UF83 Q9UF83 Uncharacterized protein DKFZp434B061 3 0 RPPRAS(1)PT(1)RT(1)PPR 50.088 0.0085929 0 68.188 159.91 0 132.53 0 0 0 0 84.948 0 TRUE FALSE FALSE 75.3603267 165.0911889 0 135.0953098 0 0 0 0 84.35683995 0 0 RPPS(ph)PDVIVLS(ph)DNEQPS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 2 RPPSPDVIVLSDNEQPSSPR 20 1 Q86YP4-2;Q86YP4;Q86YP4-3;C9JMI3;C9JGN4;C9JHD7;C9JJK9 Q86YP4-2 GATAD2A Transcriptional repressor p66-alpha 3 0 RPPS(1)PDVIVLS(0.936)DNEQPS(0.575)S(0.489)PR;RPPS(1)PDVIVLS(0.996)DNEQPS(0.546)S(0.458)PR ; 77.802 0.0011156 38417300 967.37 1415.51 1110.83 1458.42 1398.47 1828.56 1496.54 1283.74 1592.29 1438.68 TRUE FALSE FALSE 1069.122415 1461.373453 1262.208127 1486.649828 1291.319531 1672.756401 1328.145381 1250.90379 1581.209124 1500.708536 0.712411764 0.973788992 0.841074797 0.990631953 0.860473237 1.114644424 0.885012212 0.83354213 1.053641721 1 10.55142809 -6.273679723 23.98899854 0.869131639 0.939613432 0 0.118830255 1034.668002 2027771.353 0.019837201 0.030446348 5.33E-07 6.273679723 0.070481793 RPPS(ph)PDVIVLS(ph)DNEQPSSPR ddPTM_HeLa_SAHA_4h_R1 2 RPPSPDVIVLSDNEQPSSPR 20 1 Q86YP4-2;Q86YP4;Q86YP4-3;C9JMI3;C9JGN4;C9JHD7;C9JJK9 Q86YP4-2 GATAD2A Transcriptional repressor p66-alpha 2 0 RPPS(1)PDVIVLS(0.917)DNEQPS(0.038)S(0.045)PR;RPPS(1)PDVIVLS(0.995)DNEQPS(0.003)S(0.002)PR ; 125.98 0.00013657 27910000 1587.61 1843.08 1971.09 2329.96 3299.61 3845.3 3311.3 3382.41 1947.18 1820.36 TRUE FALSE FALSE 1754.602104 1902.797001 2239.69988 2375.059745 3046.794595 3517.658807 2938.703809 3295.89285 1933.629416 1898.844628 0.924036689 1.002081462 1.179506657 1.250792039 1.604551815 1.852525875 1.547627313 1.735735932 1.018318923 1 10.89090615 -6.008623673 1.338231784 0.967138662 1.71411802 0.926706157 0.088320675 0.070298283 0.249851623 0.014027872 0.030909435 9.80E-07 6.008623673 0.746979357 RPPS(ph)PDVIVLSDNEQPS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 3 RPPSPDVIVLSDNEQPSSPR 20 1 Q86YP4-2;Q86YP4;Q86YP4-3;C9JMI3;C9JGN4;C9JHD7;C9JJK9 Q86YP4-2 GATAD2A Transcriptional repressor p66-alpha 2 0 RPPS(1)PDVIVLS(0.008)DNEQPS(0.551)S(0.44)PR;RPPS(1)PDVIVLS(0.001)DNEQPS(0.574)S(0.425)PR;RPPS(1)PDVIVLSDNEQPS(0.567)S(0.433)PR ;; 165.79 1.55E-06 37564700 2107.87 2384.81 2621.37 2711.06 2854.95 3039.92 3005.51 2874.94 2867.42 2060.51 TRUE FALSE FALSE 2329.585438 2462.079409 2978.596652 2763.536487 2636.204348 2780.901714 2667.322105 2801.403198 2847.465391 2149.34867 1.083856459 1.145500236 1.385813616 1.28575532 1.226513122 1.293834617 1.240990883 1.303373081 1.324803849 1 11.06968382 -7.097287317 2.442705617 1.037267573 1.283929462 0.175190192 0.102490702 0.081672106 0.947777996 0.00889563 0.011192084 7.99E-08 7.097287317 0.246661889 RPPS(ph)PDVIVLSDNEQPSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 RPPSPDVIVLSDNEQPSSPR 20 1 Q86YP4-2;Q86YP4;Q86YP4-3;C9JMI3;C9JGN4;C9JHD7;C9JJK9 Q86YP4-2 GATAD2A Transcriptional repressor p66-alpha 2 0 RPPS(1)PDVIVLSDNEQPS(0.312)S(0.688)PR;RPPS(1)PDVIVLSDNEQPS(0.266)S(0.734)PR ; 180.68 1.40E-30 6324800 1245.67 1182.26 1160.62 1483.05 1487.77 1496.91 1749.36 1453.03 1438.77 1347.99 TRUE FALSE FALSE 1376.695286 1220.566 1318.783249 1511.756577 1373.777384 1369.364847 1552.517409 1415.863597 1428.757482 1406.108446 0.97908187 0.868045422 0.937895831 1.075135123 0.977006708 0.973868588 1.104123521 1.006937694 1.016107603 1 10.45749215 -6.269765838 24.9943178 0.975212338 1.025900763 0.258099487 0.054018045 878.9554397 2638439.834 0.008541464 0.013196802 5.37E-07 6.269765838 0.050688425 RPPS(ph)PDVIVLSDNEQPSSPR ddPTM_HeLa_SAHA_4h_R1 2 RPPSPDVIVLSDNEQPSSPR 20 1 Q86YP4-2;Q86YP4;Q86YP4-3;C9JMI3;C9JGN4;C9JHD7;C9JJK9 Q86YP4-2 GATAD2A Transcriptional repressor p66-alpha 1 0 RPPS(1)PDVIVLSDNEQPSSPR;RPPS(1)PDVIVLSDNEQPSSPR ; 153.14 1.02E-05 62235000 375.05 547.65 576.57 928.46 992.56 1115.68 994.69 825.09 631.96 498.02 TRUE FALSE FALSE 414.4994798 565.3942193 655.141957 946.4316859 916.5102672 1020.617787 882.7648633 803.9853925 627.5621389 519.4920795 0.797893743 1.088359653 1.261120203 1.821840454 1.764243005 1.964645522 1.699284548 1.547637441 1.208030235 1 9.020957943 -6.524652815 2.018832094 0.908953547 1.772968003 0.834085411 0.153181929 0.067871069 0.553954717 0.021768345 0.034168448 2.99E-07 6.524652815 0.864014456 RPPS(ph)PEPSTK ddPTM_HeLa_SAHA_4h_R1 2 RPPSPEPSTK 10 1 A0A087WUZ3;Q01082;Q01082-2;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 RPPS(1)PEPSTK;RPPS(1)PEPSTK ; 115.37 0.010361 1164839000 5482.9 5554.6 4685.3 5743.4 5880.7 6574 6739.5 6454.7 6182.2 5655.5 TRUE FALSE FALSE 6059.616578 5734.572685 5323.788284 5854.571812 5430.122036 6013.858216 5981.153723 6289.59812 6139.177567 5899.336282 1.027169208 0.972070825 0.902438517 0.992411948 0.920463214 1.019412681 1.013868923 1.066153516 1.040655639 1 12.52633693 -4.287056815 1.884242224 0.994595321 1.085061831 0.234180545 0.042703971 1.034093165 3.903664083 0.006415505 0.160511419 5.16E-05 4.287056815 0.09046651 RPPSAFFLFCSEHRPK ddPTM_HeLa_SAHA_4h_R1 2 RPPSAFFLFCSEHRPK 16 2 D6R9A6;P26583 D6R9A6 HMGB2 High mobility group protein B2 0 0 ; ; 64.104 0.0094345 7041600 1877.44 5627.9 3779.3 5046.2 5173.2 4668.9 10888.1 7269.6 3964.9 3956.9 FALSE FALSE TRUE 2074.917753 5810.247653 4294.323322 5143.876498 4776.830534 4271.083453 9662.942332 7083.654158 3937.307938 4127.501324 0.502705533 1.407691288 1.040417188 1.246244663 1.157317747 1.034786695 2.341111868 1.716208816 0.953920454 1 12.01105296 -4.72313926 0.536390475 0.801461303 2.499879174 0.492979136 0.336945891 1.404172209 0.367426451 0.073015767 1.351903854 1.89E-05 4.72313926 1.69841787 RPPSAFFLFCSEYRPK ddPTM_HeLa_SAHA_4h_R1 2 RPPSAFFLFCSEYRPK 16 2 P09429;Q5T7C4 P09429 HMGB1 High mobility group protein B1 0 0 ; ; 73.386 0.0085522 81611000 1742.35 1827.04 2329.2 2460.4 2500.8 1613.09 2337.83 1493.26 1892.44 2175.17 FALSE FALSE TRUE 1925.618367 1886.237295 2646.611246 2508.0246 2309.189244 1475.645657 2074.771216 1455.064571 1879.270356 2268.952224 0.84868176 0.831325259 1.166446441 1.105366862 1.017733745 0.650364358 0.914418203 0.641293614 0.828254706 1 11.14781052 -5.268704456 24.90108607 0.956577447 0.753264671 0.409631137 0.128336154 454.7970826 1558821.134 0.018877446 0.043036074 5.39E-06 5.268704456 -0.203312776 RPPSGFFLFCSEFRPK ddPTM_HeLa_SAHA_4h_R1 2 RPPSGFFLFCSEFRPK 16 2 O15347;E7ES08;E7EQU1;E9PES6 O15347 HMGB3 High mobility group protein B3 0 0 ; ; 113.37 0.00033674 8080100 1531.56 1785.58 2576.79 2390.4 2303.48 1039.75 3302.5 687.45 1267.81 1928.48 FALSE FALSE TRUE 1692.656508 1843.433964 2927.941522 2436.669649 2126.98786 951.1574505 2930.894008 669.8660244 1258.987207 2011.626211 0.841436893 0.916389911 1.45550973 1.211293448 1.057347458 0.472830114 1.456977441 0.332997264 0.62585544 1 10.97414654 -4.227183089 23.52808026 0.982837971 0.332994324 0.304147086 0.303021311 6777.144467 4654535.142 0.037173735 8.226508779 5.93E-05 4.227183089 -0.649843647 RPQS(ph)PGASPS(ph)QAER ddPTM_HeLa_SAHA_4h_R1 1 RPQSPGASPSQAER 14 1 Q96T58;A0A669KB49 Q96T58 SPEN Msx2-interacting protein 2 0 RPQS(1)PGAS(0.394)PS(0.606)QAER 113.67 0.0030855 3111200 674.14 896.21 621.07 618.54 734.46 843.44 688.06 798.11 1204 632.02 TRUE FALSE FALSE 745.0491383 925.247792 705.7061852 630.5127361 678.1858335 771.5741669 610.6376779 777.6955018 1195.621266 659.2694752 1.130113203 1.403444004 1.070436615 0.956380903 1.028692908 1.170347174 0.92623381 1.179632201 1.813554716 1 9.364724475 -6.524144129 24.99999499 1.095863082 1.046797604 0 0.259999658 152.830501 3019430.449 0.021472657 0.030494135 2.99E-07 6.524144129 -0.049065479 RPQS(ph)PGASPSQAER ddPTM_HeLa_SAHA_4h_R1 3 RPQSPGASPSQAER 14 1 Q96T58;A0A669KB49 Q96T58 SPEN Msx2-interacting protein 1 0 RPQS(1)PGASPSQAER;RPQS(0.999)PGAS(0.001)PSQAER;RPQS(0.999)PGAS(0.001)PSQAER ;; 121.18 0.0022692 2884190 366.14 370.79 600.42 525.16 556.46 853.76 504.62 706.32 854.28 598.45 TRUE FALSE FALSE 404.6522851 382.8038393 682.2421107 535.3252312 513.824155 781.0148449 447.8388295 688.2533571 848.3349959 624.2521082 0.648219333 0.613219938 1.092895165 0.857546533 0.823103596 1.251120877 0.717400588 1.102524682 1.358962164 1 9.285984978 -6.744056825 24.99995819 0.812690159 0.962861138 0 0.247127475 412.3475049 593045.5435 0.031118667 0.043948825 1.80E-07 6.744056825 0.150170979 RPQYS(ph)NPPVQGEVMEGADNQGAGEQGRPVR ddPTM_HeLa_SAHA_4h_R1 1 RPQYSNPPVQGEVMEGADNQGAGEQGRPVR 30 2 H0Y449;P67809;C9J5V9 H0Y449 YBX1 Nuclease-sensitive element-binding protein 1 1 0 RPQY(0.187)S(0.813)NPPVQGEVMEGADNQGAGEQGRPVR 80.022 1.97E-06 8558200 503.38 470.07 602.86 612.62 794.99 762.1 624.75 631.46 533.76 595.61 TRUE FALSE FALSE 556.327818 485.3005764 685.0146212 624.478146 734.0780379 697.1647925 554.4514857 615.3081675 530.0455207 621.2896619 0.895440327 0.781118062 1.102568839 1.005132041 1.181539116 1.12212521 0.892420267 0.990372455 0.853137519 1 9.279122238 -6.709296853 24.99999938 0.936530839 1.049258662 0.372506916 0.096170297 113.872903 54596.51699 0.015750996 0.022275259 1.95E-07 6.709296853 0.112727823 RPQYSNPPVQGEVMEGADNQGAGEQGR ddPTM_HeLa_SAHA_4h_R1 1 RPQYSNPPVQGEVMEGADNQGAGEQGR 27 1 H0Y449;P67809;C9J5V9 H0Y449 YBX1 Nuclease-sensitive element-binding protein 1 0 0 53.747 0.014251 3824300 351.23 350.65 293.77 413.02 460.08 403.99 447.03 376.51 335.07 320.64 FALSE FALSE TRUE 388.1739829 362.0112901 333.8034457 421.0145993 424.8287698 369.5677792 396.7290079 366.8794194 332.7382206 334.4643596 1.160583996 1.082361333 0.998023963 1.258772683 1.270176501 1.104954141 1.186162282 1.096916335 0.994839094 1 8.385708676 -6.261357112 24.99999999 1.073046117 1.184013262 0.454417804 0.071891566 7.326619634 2226547.329 0.012443612 0.019790997 5.48E-07 6.261357112 0.110967145 RPRPTPGDGEK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 RPRPTPGDGEKR 12 3 I3L4Q4;Q9BUL5-4;Q9BUL5;I3L410;I3L1N0;Q9BUL5-3 I3L4Q4 PHF23 PHD finger protein 23 0 1 RPRPTPGDGEK(1)R 95.477 0.0041671 294820 63.172 0 0 0 0 61.537 59.813 0 0 0 FALSE TRUE FALSE 69.8167208 0 0 0 0 56.2937014 53.08268382 0 0 0 0 RPS(ph)ASSPNNNTAAK ddPTM_HeLa_SAHA_4h_R1 1 RPSASSPNNNTAAK 14 1 O75151;E7ET14;A0A087WW48 O75151 PHF2 Lysine-specific demethylase PHF2 1 0 RPS(0.528)AS(0.236)S(0.236)PNNNTAAK 107.65 0.0014181 10762000 1076.8 1257.4 881.32 858.99 1236.3 959.53 718.87 1091.7 1112 962.82 TRUE FALSE FALSE 1190.062765 1298.140585 1001.4217 875.6169936 1141.574961 877.7726458 637.9808556 1063.775895 1104.261501 1004.331882 1.184929788 1.292541448 0.99710237 0.871840284 1.136651122 0.873986639 0.635229118 1.059187619 1.099498603 1 9.972020372 -5.575057149 1.06590053 1.098219669 0.836537361 0.312053503 0.147196154 0.515429568 1.09694847 0.024963309 0.089130604 2.66E-06 5.575057149 -0.261682308 RPS(ph)PHDEEEFEVEEAAEAQAEPK ddPTM_HeLa_SAHA_4h_R1 1 RPSPHDEEEFEVEEAAEAQAEPK 23 1 A0A669KB77;P11137-3;P11137 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 RPS(1)PHDEEEFEVEEAAEAQAEPK 94.275 8.50E-05 8213100 1810.1 2563.1 2109.6 2651.6 2530.1 2924.8 2812.7 2630.2 3604.8 2750.9 TRUE FALSE FALSE 2000.494623 2646.146122 2397.085302 2702.925552 2336.244285 2675.590586 2496.207593 2562.923292 3579.713903 2869.504762 0.697156753 0.922161258 0.835365508 0.941948446 0.814162888 0.932422424 0.869908852 0.893158752 1.24750234 1 11.48658605 -5.25020868 24.14277225 0.861330981 0.895637875 0 0.14506218 2160.564818 4644574.953 0.016080559 0.040513273 5.62E-06 5.25020868 0.034306894 RPS(ph)PPEPWDEEDGASCSTFFGSEER ddPTM_HeLa_SAHA_4h_R1 3 RPSPPEPWDEEDGASCSTFFGSEER 25 1 A0A0J9YX88;E9PJ24;B7ZM65;F8WEF5;A0A0J9YYB5;A0A0J9YWD5;Q9P1Y6-2;Q9P1Y6-3;Q9P1Y6 A0A0J9YX88 PHRF1 PHD and RING finger domain-containing protein 1 1 0 RPS(0.994)PPEPWDEEDGAS(0.005)CSTFFGSEER;RPS(0.995)PPEPWDEEDGAS(0.005)CSTFFGSEER;RPS(1)PPEPWDEEDGASCSTFFGSEER ;; 72.676 0.0003841 14515500 921.34 1433.95 1247.23 1367.77 1395.03 1588.99 1515.33 1270.55 1935.84 1431.2 TRUE FALSE FALSE 1018.250768 1480.410921 1417.196009 1394.245166 1288.143103 1453.599113 1344.82108 1238.051171 1922.368332 1492.906036 0.682059516 0.99163034 0.94928681 0.933913543 0.862842719 0.973670866 0.900807584 0.829289413 1.287668671 1 10.54390765 RPS(ph)PQPSPR ddPTM_HeLa_SAHA_4h_R1 2 RPSPQPSPR 9 1 Q9UQ35;Q9UQ35-2;I3L4U6 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 RPS(0.993)PQPS(0.007)PR;RPS(0.934)PQPS(0.066)PR ; 84.188 0.012226 27285000 309.5 415.8 236.91 291.908 199.72 445.11 416.92 419.2 678.27 409.59 TRUE FALSE FALSE 342.05463 429.2721928 269.194861 297.5583014 184.4174967 407.1841239 370.0070643 408.477471 673.5498638 427.2494294 0.800597044 1.004734385 0.630064881 0.696451021 0.431638954 0.953036086 0.866021202 0.956063234 1.576479259 1 8.738934755 -8.909704446 0.572107328 1.01548889 0.776851819 0.261951966 0.247283205 1.356000476 0.76381096 0.164219106 0.042341688 1.23E-09 8.909704446 -0.238637071 RPS(ph)PTSGDSRPAAGR ddPTM_HeLa_SAHA_4h_R1 1 RPSPTSGDSRPAAGR 15 2 Q8N1G1 Q8N1G1 REXO1 RNA exonuclease 1 homolog 1 0 RPS(0.809)PT(0.095)S(0.095)GDSRPAAGR 80.545 0.010617 7502100 184.87 210.05 234.55 286.88 294.22 170.55 347.57 250.17 241.59 253.57 TRUE FALSE FALSE 204.3154748 216.8557578 266.5132525 292.4329772 271.6769272 156.0181805 308.4605088 243.7710136 239.9087555 264.5026436 0.772451542 0.819862346 1.00760147 1.105595669 1.027123674 0.5898549 1.166190646 0.92162033 0.907018366 1 8.047138332 -6.750214599 24.88436829 0.884092867 0.970123859 0.081627315 0.154581638 505.1265655 1119818.428 0.025862052 0.036378861 1.78E-07 6.750214599 0.086030992 RPS(ph)QEQSASASSGQPQAPLNR ddPTM_HeLa_SAHA_4h_R1 4 RPSQEQSASASSGQPQAPLNR 21 1 Q5T1M5;Q5T1M5-2 Q5T1M5 FKBP15 FK506-binding protein 15 1 0 RPS(1)QEQSASASSGQPQAPLNR;RPS(0.994)QEQS(0.005)ASASSGQPQAPLNR;RPS(1)QEQSASASSGQPQAPLNR;RPS(1)QEQSASASSGQPQAPLNR ;;; 287.91 8.20E-147 56158000 1464.19 1713.48 1311.46 1403.55 1525.73 1869.61 1946.61 1387.37 1498.38 1246.26 TRUE FALSE FALSE 1618.200222 1768.997876 1490.178939 1430.71774 1408.828897 1710.30871 1727.57232 1351.883084 1487.952652 1299.992368 1.24477671 1.360775586 1.146298222 1.100558569 1.083720899 1.315629809 1.328909586 1.03991617 1.144585683 1 10.34428744 -9.265141579 1.002006907 1.000326591 1.207612595 0.1284179 0.113313648 0.48801669 0.881037822 0.071307892 0.019566495 5.43E-10 9.265141579 0.207286004 RPS(ph)QGPPAR ddPTM_HeLa_SAHA_4h_R1 1 RPSQGPPAR 9 1 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 RPS(1)QGPPAR 79.23 0.014752 14206000 0 120.73 0 150.29 66.445 186.19 144.88 129.24 157.26 131.5 TRUE FALSE FALSE 0 124.6417312 0 153.1990803 61.35399845 170.3255645 128.5777211 125.9342279 156.1656149 137.1696085 0 0.90866871 0 1.11685877 0.447285657 1.24171503 0.937363039 0.918091327 1.138485533 1 7.099817062 -6.224718308 24.99873908 0.514424257 0.922794731 0.113704368 0.409346338 812.8365196 553357.8829 0.065957705 0.109376506 5.96E-07 6.224718308 0.408370473 RPS(ph)RHDNSAIGR ddPTM_HeLa_SAHA_4h_R1 1 RPSRHDNSAIGR 12 2 E9PMR6;Q9NZN5-2;Q9NZN5 E9PMR6 ARHGEF12 Rho guanine nucleotide exchange factor 12 1 0 RPS(1)RHDNSAIGR 66.498 0.014887 711440 0 0 0 0 175.41 0 62.611 148.26 0 0 TRUE FALSE FALSE 0 0 0 0 161.9701237 0 55.5658455 144.4677239 0 0 0 RPS(ph)SPVISK ddPTM_HeLa_SAHA_4h_R1 1 RPSSPVISK 9 1 Q96T17-2;Q96T17;Q96T17-5;Q96T17-4 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 RPS(0.5)S(0.5)PVISK 73.36 0.018401 63657000 4896.5 4488.5 4484.9 5273.9 5320.2 5135.3 5157.2 5323.4 5167.8 4700.8 TRUE FALSE FALSE 5411.536336 4633.930345 5096.078816 5375.983961 4912.567425 4697.74355 4576.898283 5187.235136 5131.836859 4903.474493 1.103612621 0.945029968 1.039279153 1.096362175 1.001854386 0.958043843 0.933399019 1.057869301 1.046571542 1 12.25958866 -5.533217215 24.47547936 1.04379134 0.978436138 0.187759152 0.051764537 186.9773809 442652.787 0.008310974 0.016637108 2.93E-06 5.533217215 -0.065355202 RPS(ph)VDAPVTDVGFLR ddPTM_HeLa_SAHA_4h_R1 1 RPSVDAPVTDVGFLR 15 1 A0A1B0GTT1;A0A1B0GVM0;Q9BUH8;G3V536;G3V3S3 A0A1B0GTT1 BEGAIN Brain-enriched guanylate kinase-associated protein 1 0 RPS(1)VDAPVTDVGFLR 116.85 0.00053142 6909500 812.13 611.24 574.64 745.07 816.57 927.76 890.88 874.87 585.74 876.77 TRUE FALSE FALSE 897.5535596 631.044577 652.9489466 759.4919072 754.004583 848.7096286 790.6358377 852.4920922 581.6637876 914.5718455 0.981392073 0.68998907 0.713939479 0.830434384 0.824434501 0.927985738 0.864487401 0.932121513 0.635995729 1 9.836952697 -7.399992517 9.545314003 0.991799261 0.827421302 0 0.134500281 0.223130569 16.46970043 0.013442336 0.015351789 3.98E-08 7.399992517 -0.164377959 RPS(ph)VGSQSNQAGQGK ddPTM_HeLa_SAHA_4h_R1 2 RPSVGSQSNQAGQGK 15 1 H0Y3N9;Q9UPP1-4;Q9UPP1-3;Q9UPP1-2;Q9UPP1 H0Y3N9 PHF8 Histone lysine demethylase PHF8 1 0 RPS(0.997)VGS(0.003)QSNQAGQGK;RPS(0.991)VGS(0.009)QSNQAGQGK ; 125.23 0.00028508 2760700 1788.96 1832.32 2096.67 1748.34 2286.9 2025.8 2713.1 2801.7 1606.88 1755.97 TRUE FALSE FALSE 1977.131021 1891.68837 2382.393269 1782.181649 2111.678216 1853.190443 2407.814848 2730.036571 1595.697591 1831.67846 1.07940944 1.032762251 1.30066129 0.972977347 1.152865124 1.01174441 1.314540133 1.490456229 0.87116687 1 10.83895055 -4.574789485 3.071765997 1.058739446 1.47504664 0.63551843 0.109279301 0.100694003 1.806476289 0.012571387 0.07095022 2.66E-05 4.574789485 0.416307194 RPS(ph)VNGEPGSVPPPR ddPTM_HeLa_SAHA_4h_R1 2 RPSVNGEPGSVPPPR 15 1 Q8N3D4 Q8N3D4 EHBP1L1 EH domain-binding protein 1-like protein 1 1 0 RPS(1)VNGEPGSVPPPR;RPS(0.999)VNGEPGS(0.001)VPPPR ; 119.96 0.0021272 10964600 1471.39 1774.02 1396.79 1797.53 1999.72 2085.71 1956.33 2016.66 1791.08 1773.76 TRUE FALSE FALSE 1626.157551 1831.499412 1587.137267 1832.323792 1846.501886 1907.995774 1736.1986 1965.076757 1778.615728 1850.235474 0.878892213 0.989873688 0.857802852 0.990319242 0.997982101 1.03121781 0.938366291 1.062068469 0.961291551 1 10.85349317 -6.024599939 24.73262109 0.939154025 1.002924356 0.304553972 0.050502477 758.4142013 762504.4069 0.008615254 0.014336249 9.45E-07 6.024599939 0.063770331 RPSAS(ph)SPNNNTAAK ddPTM_HeLa_SAHA_4h_R1 1 RPSASSPNNNTAAK 14 1 O75151;E7ET14;A0A087WW48 O75151 PHF2 Lysine-specific demethylase PHF2 1 0 RPSAS(0.951)S(0.049)PNNNTAAK 155.06 9.21E-05 6078000 974.36 973.23 757.63 877.62 1027.2 885.37 968.55 943.23 1016.4 901.74 TRUE FALSE FALSE 1076.847655 1004.763291 860.8758708 894.6076042 948.4961579 809.931495 859.5662049 919.1035424 1009.32679 940.6184244 1.144829431 1.068194354 0.915223271 0.9510845 1.008375058 0.861062758 0.913830925 0.977126876 1.073045949 1 9.877465781 -6.767790922 24.78403922 1.070287833 0.93702106 0.639521769 0.049182377 83.68200067 326531.313 0.010377227 0.013825586 1.71E-07 6.767790922 -0.133266773 RPSASS(ph)PNNNTAAK ddPTM_HeLa_SAHA_4h_R1 1 RPSASSPNNNTAAK 14 1 O75151;E7ET14;A0A087WW48 O75151 PHF2 Lysine-specific demethylase PHF2 1 0 RPSAS(0.006)S(0.994)PNNNTAAK 154.52 2.11E-05 10211000 2117.8 1808.3 1717 2022 2124.7 1964.7 1838.3 2049.2 2287.8 2439.9 TRUE FALSE FALSE 2340.559921 1866.890106 1950.983818 2061.138734 1961.905945 1797.296507 1631.449646 1996.784431 2271.879014 2545.09603 0.91963521 0.733524427 0.766565896 0.809847137 0.770857336 0.706180233 0.641016931 0.784561529 0.892649624 1 11.31350438 -7.37507228 0.728734167 0.988303249 0.723084777 0.666328891 0.058804498 0.174646225 0.196180741 0.01436546 0.015859953 4.22E-08 7.37507228 -0.265218472 RPSS(ph)PVISK ddPTM_HeLa_SAHA_4h_R1 1 RPSSPVISK 9 1 Q96T17-2;Q96T17;Q96T17-5;Q96T17-4 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 RPS(0.237)S(0.763)PVISK 89.44 0.0095516 95683000 7091.4 6405.2 6630.6 8242.7 8056.4 7657.5 7403.1 8009.5 7668 7233 TRUE FALSE FALSE 7837.305989 6612.732683 7534.183637 8402.249378 7439.120373 7005.03792 6570.083704 7804.628588 7614.637764 7544.850027 1.038762329 0.876456478 0.998586269 1.113640344 0.985986513 0.928452904 0.870803751 1.034431242 1.009249718 1 12.88127651 -5.417415736 5.08024295 1.012533094 0.938287954 0.139270729 0.066187875 0.275266628 10.76684476 0.009331238 0.021202522 3.82E-06 5.417415736 -0.07424514 RPSTSQTVST(ph)PAPVPVIESTEAIEAK ddPTM_HeLa_SAHA_4h_R1 3 RPSTSQTVSTPAPVPVIESTEAIEAK 26 1 P12270;P12270-2 P12270 TPR Nucleoprotein TPR 1 0 RPS(0.042)T(0.042)S(0.042)QT(0.134)VS(0.134)T(0.606)PAPVPVIESTEAIEAK;RPS(0.001)T(0.001)S(0.001)QT(0.001)VS(0.056)T(0.941)PAPVPVIESTEAIEAK;RPS(0.001)T(0.001)S(0.001)QT(0.005)VS(0.235)T(0.758)PAPVPVIESTEAIEAK ;; 115.79 4.02E-07 34949200 1874.15 2332.23 2056.81 2188.33 2638.08 2841.69 2076.83 2230.99 2730.49 2591.41 TRUE FALSE FALSE 2071.281696 2407.795782 2337.101355 2230.688292 2435.95088 2599.562025 1843.139622 2173.924506 2711.488298 2703.138367 0.766250711 0.890740856 0.864588133 0.825221646 0.901156563 0.96168293 0.681851749 0.80422243 1.003088976 1 11.40041965 -9.4737384 1.167428159 1.001576517 0.832835222 0.442874903 0.073491439 0.399935079 0.960439332 0.055262373 0.013062233 3.36E-10 9.4737384 -0.168741295 RPTETNPVTSNS(ph)DEECNETVK ddPTM_HeLa_SAHA_4h_R1 3 RPTETNPVTSNSDEECNETVK 21 1 P46100-5;P46100-3;P46100-4;P46100;P46100-2;A0A096LNW1;A0A096LNL9;P46100-6 P46100-5 ATRX Transcriptional regulator ATRX 1 0 RPTETNPVTSNS(1)DEECNETVK;RPTETNPVTSNS(1)DEECNETVK;RPTETNPVTSNS(1)DEECNETVK ;; 203.79 1.72E-21 77817000 4995 6680.6 4660.1 5599.6 6135.4 6832 5898.8 5351.9 7928.8 6149 TRUE FALSE FALSE 5520.397018 6897.055823 5295.154159 5707.988355 5665.306977 6249.875164 5235.051499 5215.006147 7873.622835 6414.113482 0.86066407 1.075293701 0.825547314 0.889910721 0.88325643 0.974394229 0.816176938 0.813051743 1.227546544 1 12.64703416 -13.52287875 0.198230478 1.497580201 0.866096848 0.327274839 0.104466365 57.78408431 0.698406346 11.25062301 0.078597179 3.00E-14 13.52287875 -0.631483353 RPTETNPVTSNS(ph)DEECNETVKEK ddPTM_HeLa_SAHA_4h_R1 4 RPTETNPVTSNSDEECNETVKEK 23 2 P46100-5;P46100-3;P46100-4;P46100;P46100-2;A0A096LNW1;A0A096LNL9;P46100-6 P46100-5 ATRX Transcriptional regulator ATRX 1 0 RPTETNPVT(0.029)S(0.185)NS(0.786)DEECNETVKEK;RPTETNPVT(0.032)S(0.208)NS(0.76)DEECNETVKEK;RPTETNPVT(0.001)S(0.04)NS(0.959)DEECNETVKEK;RPTETNPVT(0.009)S(0.114)NS(0.876)DEECNET(0.001)VKEK ;;; 136.96 1.28E-06 73265800 2952.71 2087.54 2439.19 2785.02 2805.38 2963.78 3147.08 3031.01 2258.47 2766.25 TRUE FALSE FALSE 3263.289585 2155.177666 2771.59011 2838.928089 2590.43239 2711.24927 2792.962276 2953.481153 2242.753123 2885.516575 1.130920409 0.746894918 0.960517827 0.983854369 0.897736098 0.939606202 0.96792453 1.023553695 0.777244928 1 11.4946139 RPTPNDDTLDEGVGLVHSNIATEHIPS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 3 RPTPNDDTLDEGVGLVHSNIATEHIPSPAK 30 1 Q01581 Q01581 HMGCS1 "Hydroxymethylglutaryl-CoA synthase, cytoplasmic" 1 0 RPTPNDDTLDEGVGLVHS(0.002)NIAT(0.223)EHIPS(0.775)PAK;RPTPNDDTLDEGVGLVHS(0.003)NIAT(0.387)EHIPS(0.61)PAK;RPTPNDDTLDEGVGLVHS(0.001)NIAT(0.38)EHIPS(0.619)PAK ;; 118.52 1.96E-10 282039800 9926.7 9030.6 8703.5 9944.3 10801.8 7281.1 9839.9 9776.3 10236.3 10362 TRUE FALSE FALSE 10970.83585 9323.197365 9889.567654 10136.78631 9974.168418 6660.709318 8732.688555 9526.236402 10165.06475 10808.75653 1.014995187 0.862559661 0.914958869 0.937830941 0.922785927 0.616232709 0.807927214 0.881344341 0.940447194 1 13.39991294 -6.205967521 0.680580448 1.007581202 0.77861067 0.381854446 0.084958101 0.44122662 0.393792822 0.017689484 0.047545643 6.22E-07 6.205967521 -0.228970532 RPVGASFSFGGK ddPTM_HeLa_SAHA_4h_R1 2 RPVGASFSFGGK 12 1 D6REX3;O94979-3;O94979-9;O94979-2;O94979;O94979-8;D6RHZ5;H7BXG7;O94979-7;O94979-6;O94979-10;O94979-4;H0YAB3;O94979-5 D6REX3 SEC31A Protein transport protein Sec31A 0 0 ; ; 145.83 3.19E-05 3188900 7029.8 6299.5 7330.9 7445.7 7481.6 6638.4 7501.8 4693.6 5892.2 6540.6 FALSE FALSE TRUE 7769.226618 6503.607933 8329.916874 7589.82229 6908.361424 6072.770973 6657.67772 4573.544508 5851.1957 6822.597275 1.138749116 0.953245175 1.220930467 1.112453511 1.012570601 0.890096649 0.975827453 0.670352407 0.857619974 1 12.73610534 -3.660219259 0.798729194 1.070735585 3.77E-16 0.485834957 0.106796733 2.704538222 0.637551457 0.014069304 3.228037816 0.000218666 3.660219259 -1.070735585 RPVLLLHPLGGWTK ddPTM_HeLa_SAHA_4h_R1 1 RPVLLLHPLGGWTK 14 1 O43252 O43252 PAPSS1 Bifunctional 3-phosphoadenosine 5-phosphosulfate synthase 1;Sulfate adenylyltransferase;Adenylyl-sulfate kinase 0 0 60.345 0.016721 611620 304.95 428.63 378.7 367.43 356.61 183.16 477.37 143.17 347.14 421.74 FALSE FALSE TRUE 337.0260402 442.5178932 430.3072638 374.542139 329.2866188 167.5537376 423.6550712 139.5079187 344.7242245 439.9232753 0.766101862 1.005897887 0.978141617 0.851380593 0.7485092 0.380870363 0.963020361 0.317118749 0.783600786 1 8.781108123 -5.609210103 3.223430143 0.902212103 0.590373217 0.418072411 0.179233738 0.186591543 3.874604623 0.024963181 0.053834178 2.46E-06 5.609210103 -0.311838886 RPWRPEEAVEDPDEEDEDNTS(ph)EAENGFSLEEVLR ddPTM_HeLa_SAHA_4h_R1 1 RPWRPEEAVEDPDEEDEDNTSEAENGFSLEEVLR 34 2 Q03701 Q03701 CEBPZ CCAAT/enhancer-binding protein zeta 1 0 RPWRPEEAVEDPDEEDEDNT(0.414)S(0.586)EAENGFSLEEVLR 81.001 9.11E-08 3217400 232.11 365.17 385.82 310.46 362.91 688.13 518.66 308.68 214.53 461.7 TRUE FALSE FALSE 256.5243948 377.0017476 438.3975403 316.4694022 335.1039142 629.4974527 460.2990118 300.7844126 213.0370683 481.6061465 0.532643523 0.782800947 0.910282278 0.657112465 0.695804895 1.307079358 0.955758175 0.624544381 0.442347071 1 8.911709994 RPYTVILIER ddPTM_HeLa_SAHA_4h_R1 1 RPYTVILIER 10 1 Q9Y3A5;A0A087X020 Q9Y3A5 SBDS Ribosome maturation protein SBDS 0 0 75.416 0.022333 1270000 1237.8 1466.1 1398.9 1272.5 1510.4 2026.3 1819.1 1400.7 1362.6 1406.3 FALSE FALSE TRUE 1367.997483 1513.602602 1589.534807 1297.131078 1394.673478 1853.64784 1614.41008 1364.872122 1353.117556 1466.932475 0.932556547 1.031814775 1.083577352 0.884247298 0.950741429 1.26362179 1.100534692 0.930426005 0.92241298 1 10.51858675 RQAPGVGAVGGGS(ph)PEREEVGAGYNS(ph)EDEYEAAAAR ddPTM_HeLa_SAHA_4h_R1 1 RQAPGVGAVGGGSPEREEVGAGYNSEDEYEAAAAR 35 2 A0A087WXV6;Q96G74-2;Q96G74-3;Q96G74-5;Q96G74;H7BZQ3 A0A087WXV6 OTUD5 OTU domain-containing protein 5 2 0 RQAPGVGAVGGGS(0.852)PEREEVGAGY(0.542)NS(0.592)EDEY(0.014)EAAAAR 57.997 0.0011725 3650000 215.69 293.79 313.84 290.38 452.4 381.13 217.23 430.94 272.07 319.27 TRUE FALSE FALSE 238.3772638 303.3089888 356.6084808 296.0007248 417.7372097 348.6555798 192.7867087 419.9171788 270.1766427 333.0352922 0.71577178 0.910741281 1.070782854 0.888796869 1.254333158 1.0469028 0.578877714 1.260878918 0.811255291 1 8.379531259 -6.967873757 9.240349532 0.863035511 1.002344371 0.139517777 0.192964913 0.577984803 155.9792379 0.032194122 0.04224582 1.08E-07 6.967873757 0.13930886 RQDEDYDEQVEESLQDEDDNDVYILTK ddPTM_HeLa_SAHA_4h_R1 1 RQDEDYDEQVEESLQDEDDNDVYILTK 27 1 H0Y8C6;O00410-2;O00410;O00410-3 H0Y8C6 IPO5 Importin-5 0 0 197.28 2.94E-19 4395300 929.31 896.29 1050.4 1036.8 951.37 1007.8 976.7 580.68 979.11 979.32 FALSE FALSE TRUE 1027.05909 925.3303841 1193.543042 1056.868763 878.4762361 921.9297703 866.7991455 565.8270464 972.2962938 1021.543278 1.005399489 0.905816135 1.168372469 1.034580508 0.859950092 0.902487237 0.848519259 0.553894347 0.951791583 1 9.99653461 -3.837829974 0.829943775 1.005712296 2.14E-18 0.749590012 0.076332288 1.47791432 0.460246577 0.011481187 1.606614974 0.000145268 3.837829974 -1.005712296 RQDPQVVS(ph)PFSR ddPTM_HeLa_SAHA_4h_R1 2 RQDPQVVSPFSR 12 1 Q12986-3;Q12986-2;Q12986 Q12986-3 NFX1 Transcriptional repressor NF-X1 1 0 RQDPQVVS(1)PFSR;RQDPQVVS(0.997)PFS(0.003)R ; 116.87 0.00090187 19404000 1762.87 1338.02 1170.43 1559.99 1921.35 1570.55 2185.1 1766.54 1818.2 1723.84 TRUE FALSE FALSE 1948.296755 1381.372726 1329.930105 1590.185862 1774.136578 1436.730304 1939.226797 1721.354465 1805.546998 1798.163179 1.083492743 0.76821322 0.739604793 0.884339019 0.986638253 0.798998846 1.07844873 0.957284903 1.004106312 1 10.81230823 -7.281418407 24.7996671 1.039427131 0.889562029 0.294738365 0.099936929 656.1846331 814509.9777 0.017941378 0.020531112 5.23E-08 7.281418407 -0.149865103 RQDS(ph)MEALQMDR ddPTM_HeLa_SAHA_4h_R1 2 RQDSMEALQMDR 12 1 Q8TDR0-2;Q8TDR0 Q8TDR0-2 TRAF3IP1 TRAF3-interacting protein 1 1 0 RQDS(1)MEALQMDR;RQDS(1)MEALQMDR ; 225.21 5.28E-22 20146400 2034.41 1878.02 1953.04 2356.7 2442.9 2747.5 2541 2417.1 2127.91 2143 TRUE FALSE FALSE 2248.398578 1938.86908 2219.19012 2402.317336 2255.72553 2513.397543 2255.079992 2355.274082 2113.101701 2235.395218 1.00581703 0.86734957 0.992750679 1.074672307 1.009094728 1.124363837 1.008805948 1.053627593 0.945292217 1 11.12631421 -6.278510822 20.9149908 0.989826266 1.05299764 0.392194236 0.051764156 98.38350653 120534.0447 0.007697993 0.011793292 5.27E-07 6.278510822 0.063171373 RQDSDLVQCGVTS(ph)PSSAEATGK ddPTM_HeLa_SAHA_4h_R1 1 RQDSDLVQCGVTSPSSAEATGK 22 1 Q9HC52 Q9HC52 CBX8 Chromobox protein homolog 8 1 0 RQDSDLVQCGVT(0.378)S(0.396)PS(0.176)S(0.05)AEATGK 112.74 3.42E-05 13785000 1376.1 1186 947.19 1400.8 1758.3 2072.7 1746.1 1747 1444.4 1364 TRUE FALSE FALSE 1520.844512 1224.427178 1076.26812 1427.91451 1623.579434 1896.094299 1549.624233 1702.31427 1434.348303 1422.808715 1.068903005 0.860570479 0.756439083 1.003588532 1.141108721 1.332641752 1.089130405 1.196446333 1.008110428 1 10.474526 -5.682054899 4.17540951 0.993991887 1.199565059 0.538876665 0.105157332 0.170781188 5.656650732 0.017228084 0.035149348 2.08E-06 5.682054899 0.205573172 RQEELENGTAWSLSSESSDDS(ph)SSPQLSGTAR ddPTM_HeLa_SAHA_4h_R1 1 RQEELENGTAWSLSSESSDDSSSPQLSGTAR 31 1 H3BMG9;H3BSV5;A0A0A0MTL6;Q6ZS17-2;Q6ZS17;Q6ZS17-3;Q6ZS17-4 H3BMG9 FAM65A Protein FAM65A 1 0 RQEELENGTAWSLS(0.004)S(0.01)ES(0.013)S(0.102)DDS(0.415)S(0.415)S(0.038)PQLS(0.001)GT(0.001)AR 92.251 2.49E-08 3757100 61.293 292.67 198.48 166.8 258.19 301.89 124.96 182.33 144.78 139.05 TRUE FALSE FALSE 67.74007896 302.1527 225.5278208 170.0286552 238.407538 276.1672736 110.8991719 177.6662626 143.7724642 145.045126 0.467027613 2.083163415 1.554880381 1.172246596 1.643678382 1.904009333 0.764583926 1.224903363 0.991225753 1 7.180358007 -7.279195702 24.99441366 0.748318592 1.464684447 0.381601581 0.380831299 586.3243559 825328.5625 0.068585143 0.078517589 5.26E-08 7.279195702 0.716365855 RQEELENGTAWSLSSESSDDSS(ph)SPQLSGTAR ddPTM_HeLa_SAHA_4h_R1 1 RQEELENGTAWSLSSESSDDSSSPQLSGTAR 31 1 H3BMG9;H3BSV5;A0A0A0MTL6;Q6ZS17-2;Q6ZS17;Q6ZS17-3;Q6ZS17-4 H3BMG9 FAM65A Protein FAM65A 1 0 RQEELENGTAWSLS(0.003)S(0.012)ES(0.023)S(0.03)DDS(0.291)S(0.313)S(0.313)PQLS(0.008)GT(0.007)AR 64.254 0.00018363 6805400 0 74.111 207.34 0 120.41 0 178.54 171.25 0 0 TRUE FALSE FALSE 0 76.51224503 235.5952154 0 111.1842118 0 158.4502093 166.869673 0 0 0 RQEMESGITT(ph)PPK ddPTM_HeLa_SAHA_4h_R1 3 RQEMESGITTPPK 13 1 H0Y465;P21359-2;P21359-6;P21359;J3QSG6 H0Y465 NF1 Neurofibromin;Neurofibromin truncated 1 0 RQEMESGIT(0.344)T(0.656)PPK;RQEMESGIT(0.357)T(0.643)PPK;RQEMESGIT(0.414)T(0.586)PPK ;; 109.1 0.0037473 17724300 5316.9 5306.8 5040.8 5869.2 6355.6 7395.8 5816.7 6001.2 6935.6 6153.6 TRUE FALSE FALSE 5876.155937 5478.743802 5727.733973 5982.806853 5868.635301 6765.636232 5162.189607 5847.697994 6887.334595 6418.911811 0.915444254 0.853531559 0.892321649 0.932059363 0.914272617 1.054016075 0.804215693 0.911010801 1.07297542 1 12.64811302 -8.924003412 0.85848108 0.997734312 0.910263857 0.341259944 0.065125907 0.645839098 0.905050106 0.033157104 0.011820318 1.19E-09 8.924003412 -0.087470455 RQENLLK ddPTM_HeLa_SAHA_4h_R1 1 RQENLLK 7 1 Q13439-3;Q13439-4;Q13439;Q13439-5;E7EVX2;H0Y6I0;A0A087WTW2 Q13439-3 GOLGA4 Golgin subfamily A member 4 0 0 70.912 0.022563 2015000 717.68 526.85 1349.7 3777 1037 1050.3 1096.4 794.81 1193.8 1446.4 FALSE FALSE TRUE 793.1688752 543.9202857 1533.630087 3850.109297 957.545284 960.8085312 973.0301864 774.4799111 1185.492249 1508.761383 0.525708627 0.360507826 1.016482861 2.551834466 0.634656544 0.636819408 0.644919865 0.513321669 0.785738727 1 10.55914894 -5.562783173 24.99999198 0.89625374 0.608452395 0.092042472 0.566911918 412.9964031 258739.6681 0.088394653 0.176789496 2.74E-06 5.562783173 -0.287801345 RQEQPSIES(ph)TSPISR ddPTM_HeLa_SAHA_4h_R1 1 RQEQPSIESTSPISR 15 1 Q5T5P2;Q5T5P2-3 Q5T5P2 KIAA1217 Sickle tail protein homolog 1 0 RQEQPSIES(0.573)T(0.174)S(0.252)PISR 142.57 0.00031988 5719300 691.95 604.23 593.29 834.45 888.83 950.48 990.12 1099.7 853.95 795.36 TRUE FALSE FALSE 764.7324758 623.8074484 674.1404715 850.6019864 820.7280374 869.4937567 878.7090917 1071.571266 848.0072924 829.651862 0.921751051 0.751890615 0.812558258 1.025251705 0.989243893 1.048022426 1.059129898 1.291591468 1.022124256 1 9.69636227 -3.407931763 0.764869245 0.938456404 2.261610563 0.625324639 0.085316265 4.460175125 0.725260301 0.014958085 6.88608124 0.000390902 3.407931763 1.323154158 RQEQPSIESTS(ph)PISR ddPTM_HeLa_SAHA_4h_R1 1 RQEQPSIESTSPISR 15 1 Q5T5P2;Q5T5P2-3 Q5T5P2 KIAA1217 Sickle tail protein homolog 1 0 RQEQPSIES(0.211)T(0.211)S(0.548)PIS(0.03)R 136.81 9.97E-05 9046900 814.4 725.88 899.46 738.61 703.97 888.94 937.41 967.3 838.36 908.33 TRUE FALSE FALSE 900.0623286 749.3989883 1022.033725 752.9068646 650.0319707 813.197311 831.9301597 942.5578666 832.5257845 947.4925516 0.949941324 0.790928633 1.078672041 0.794630906 0.686054966 0.858262484 0.878033456 0.994791848 0.878662089 1 9.887970792 -7.461471031 5.44249885 0.978522672 0.866663391 0.067752971 0.107536082 0.262286637 15.05175029 0.018008097 0.020227055 3.46E-08 7.461471031 -0.111859281 RQFS(ph)APNLK ddPTM_HeLa_SAHA_4h_R1 2 RQFSAPNLK 9 1 O60333-3 O60333-3 KIF1B Kinesin-like protein KIF1B 1 0 RQFS(1)APNLK;RQFS(1)APNLK ; 82.505 0.013084 17929400 4665 4749.2 3898.3 4566.8 4851.6 4821.8 5296.2 4806.6 4217.3 4037.3 TRUE FALSE FALSE 5155.686104 4903.077196 4429.540023 4655.197018 4479.871456 4410.955513 4700.257637 4683.654132 4187.951466 4211.367761 1.224230795 1.164248167 1.051805559 1.105388387 1.063756886 1.04739262 1.116088146 1.112145602 0.994439741 1 12.04007315 -6.734014357 24.99545143 1.113222509 1.082834458 0 0.068492081 812.8261563 740816.0372 0.013948346 0.019723283 1.84E-07 6.734014357 -0.03038805 RQGLAETAS(ph)PVAVSLR ddPTM_HeLa_SAHA_4h_R1 2 RQGLAETASPVAVSLR 16 1 A0A5H1ZRS1;A0A4W8VX11;Q15154-5;Q15154-4;Q15154-2;Q15154 A0A5H1ZRS1 PCM1 Pericentriolar material 1 protein 1 0 RQGLAET(0.004)AS(0.977)PVAVS(0.019)LR;RQGLAET(0.003)AS(0.997)PVAVSLR ; 124.2 0.00025443 27900000 2071.45 2351.2 2239.26 2406.34 2347.7 2589.7 2705.1 3100.3 2287.3 2130.08 TRUE FALSE FALSE 2289.334615 2427.380423 2544.414691 2452.91819 2167.819733 2369.042991 2400.715029 3020.998815 2271.382493 2221.918173 1.03034155 1.092470664 1.145143292 1.103964232 0.975652371 1.066215228 1.080469595 1.359635495 1.02226199 1 11.11758997 -4.187841248 2.340146919 1.035877071 1.478947518 0.755490764 0.050877951 0.301876048 1.637541084 0.008136513 0.291457795 6.49E-05 4.187841248 0.443070448 RQGS(ph)FSEDVISHK ddPTM_HeLa_SAHA_4h_R1 2 RQGSFSEDVISHK 13 1 H3BPE1;H3BQK9;H0Y390;A0A590UJG2;Q9UPN3-4;Q9UPN3-3;Q9UPN3-2;Q9UPN3;Q9UPN3-5;E9PNZ4 H3BPE1 MACF1 "Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5" 1 0 RQGS(0.821)FS(0.179)EDVISHK;RQGS(0.846)FS(0.154)EDVISHK ; 145.69 0.00012221 45473000 5154.7 5983.5 4685 5158.9 6247.6 7426.2 6588 6047.8 6023.1 6079.2 TRUE FALSE FALSE 5696.894997 6177.369326 5323.447402 5258.757969 5768.910238 6793.445981 5846.700901 5893.106033 5981.184757 6341.304063 0.898379094 0.974148103 0.839487801 0.829286519 0.909735629 1.071301094 0.922002926 0.929320842 0.943210529 1 12.63056384 RQIT(ph)ET(ph)K ddPTM_HeLa_SAHA_4h_R1 1 RQITETK 7 1 C9K0J5;Q70E73;C9J164;Q70E73-5;Q70E73-2;Q70E73-8;Q70E73-7;Q70E73-4;Q70E73-3;Q70E73-9;Q70E73-6;C9JLG4 C9K0J5 RAPH1 Ras-associated and pleckstrin homology domains-containing protein 1 2 0 RQIT(1)ET(1)K 54.157 0.023323 3160700 931.36 2933.7 1141.5 2535.5 953.37 556.01 1471.6 1452.8 1597.8 1420.3 TRUE FALSE FALSE 1029.324718 3028.753805 1297.057675 2584.578269 880.3229966 508.63482 1306.011695 1415.63948 1586.68078 1481.536084 0.694768578 2.044333471 0.875481664 1.744526034 0.594196123 0.34331585 0.881525404 0.955521432 1.070970054 1 10.53287805 RQLAELETEDGMQES(ph)P ddPTM_HeLa_SAHA_4h_R1 4 RQLAELETEDGMQESP 16 1 Q96QG7-2;Q96QG7 Q96QG7-2 MTMR9 Myotubularin-related protein 9 1 0 RQLAELETEDGMQES(1)P;RQLAELETEDGMQES(1)P;RQLAELETEDGMQES(1)P;RQLAELETEDGMQES(1)P ;;; 143.64 0.00027017 18318600 2253.46 2091.62 1865.73 2330.21 2476.67 2961.63 2541.97 2591.12 2337.53 2244.33 TRUE FALSE FALSE 2490.489262 2159.38986 2119.981968 2375.314584 2286.90808 2709.282462 2255.940846 2524.842902 2321.262938 2341.09405 1.063814272 0.922384925 0.905551816 1.014617326 0.976854424 1.157271944 0.963626748 1.078488454 0.991529127 1 11.19296718 -4.212994572 21.35963199 1.015770989 1.078490009 0.062809312 0.069477439 13627.47054 6007453.794 0.009629789 6.40003469 6.12E-05 4.212994572 0.06271902 RQLEEAEEEAQR ddPTM_HeLa_SAHA_4h_R1 1 RQLEEAEEEAQR 12 1 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 195.72 3.49E-07 3675000 919.21 698.29 861.71 879.13 852.75 1125.4 1161.2 809.62 906.15 869.74 FALSE FALSE TRUE 1015.896725 720.9150542 979.1393512 896.1468324 787.4124792 1029.509589 1030.53872 788.9110927 899.8440284 907.2387478 1.119767787 0.794625512 1.07925213 0.987773984 0.867922012 1.134772507 1.135906863 0.869573852 0.991849202 1 9.825338448 RQLEEAEEESQR ddPTM_HeLa_SAHA_4h_R1 3 RQLEEAEEESQR 12 1 P35749-4;P35749-3;P35749;P35749-2 P35749-4 MYH11 Myosin-11 0 0 ;; ;; 210.44 4.12E-11 20241900 5115.57 5007.2 5162.91 5030.9 5567.91 6104.3 5674.34 5789.7 5319.02 5187.32 FALSE FALSE TRUE 5653.649124 5169.436565 5866.484488 5128.280344 5141.297939 5584.179298 5035.848329 5641.607857 5282.004507 5410.970751 1.044849323 0.955362134 1.084183367 0.947756064 0.950161842 1.032010623 0.930673729 1.042623979 0.976165784 1 12.40167173 -6.223081562 24.9992124 1.020029271 0.979029169 0.088112214 0.047159006 736.999994 480330.808 0.00630828 0.010460855 5.98E-07 6.223081562 -0.041000102 RQLS(ph)MTLR ddPTM_HeLa_SAHA_4h_R1 1 RQLSMTLR 8 1 E5RJM2;E5RGN0;A0A087WZU2;Q00536;Q00536-3;Q00536-2;E5RIY8;E5RIU4;E5RJQ8;E5RGV7 E5RJM2 CDK16 Cyclin-dependent kinase 16 1 0 RQLS(0.991)MT(0.009)LR 80.834 0.0072257 0 877.82 684.28 595.18 849.57 979.32 1185 1012.8 783.99 618.9 906.79 TRUE FALSE FALSE 970.1531352 706.451121 676.2880308 866.0146558 904.2847132 1084.031333 898.8370785 763.936671 614.5930245 945.8861546 1.025655287 0.746866964 0.714978253 0.915559078 0.956018553 1.14604842 0.950259261 0.807641244 0.649753696 1 9.885522743 RQQDPS(ph)PGSNLGGGDDLK ddPTM_HeLa_SAHA_4h_R1 2 RQQDPSPGSNLGGGDDLK 18 1 J3KTD8;Q13951-2 J3KTD8 CBFB Core-binding factor subunit beta 1 0 RQQDPS(0.999)PGS(0.001)NLGGGDDLK;RQQDPS(1)PGSNLGGGDDLK ; 193.8 9.96E-13 9249000 2385.06 2735.95 2648.91 2814.4 2914.5 3755.7 3231.5 3238.9 3348.5 3013 TRUE FALSE FALSE 2635.931554 2824.596575 3009.88966 2868.876782 2691.19164 3435.693231 2867.883115 3156.053628 3325.197516 3142.905175 0.838692677 0.898721539 0.957677528 0.91281048 0.856275162 1.093158412 0.912494318 1.004183535 1.058001222 1 11.61788303 -5.279965692 24.9986537 0.918117922 0.994200333 0.143447641 0.074123214 1008.33466 1360604.624 0.010409796 0.023313198 5.25E-06 5.279965692 0.076082411 RQQVLDR ddPTM_HeLa_SAHA_4h_R1 1 RQQVLDR 7 1 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2;A0A0D9SFF6 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 117.4 0.0091523 549560 227.71 196.99 186.16 362.79 337.21 162.11 375.07 158.45 110.16 0 FALSE FALSE TRUE 251.6615826 203.3726052 211.5289153 369.8123251 311.3730427 148.297316 332.8661365 154.3970784 109.3933876 0 0 RQS(ph)FAVLR ddPTM_HeLa_SAHA_4h_R1 2 RQSFAVLR 8 1 C9JUG3;Q8TE77-4;Q8TE77-2;Q8TE77;A0A087WWG1 C9JUG3 SSH3 Protein phosphatase Slingshot homolog 3 1 0 RQS(1)FAVLR;RQS(1)FAVLR ; 97.813 0.00659 29188000 2646.3 1840.8 2264.98 2838.9 2623.75 3201.5 2767.2 2848.7 2486.2 2402.84 TRUE FALSE FALSE 2924.649976 1900.443128 2573.639679 2893.851015 2422.718842 2928.714189 2455.827373 2775.834379 2468.898332 2506.438192 1.166855016 0.758224613 1.026811548 1.154567076 0.966598279 1.168476525 0.979807673 1.10748168 0.985022627 1 11.29142294 -9.956730372 2.276322869 0.99917781 1.064568965 0 0.119817544 1.044641899 9.82564759 0.097174432 0.018072902 1.10E-10 9.956730372 0.065391154 RQS(ph)LELQK ddPTM_HeLa_SAHA_4h_R1 2 RQSLELQK 8 1 Q9UIG0-2;Q9UIG0 Q9UIG0-2 BAZ1B Tyrosine-protein kinase BAZ1B 1 0 RQS(1)LELQK;RQS(1)LELQK ; 110.93 0.0032169 13356500 4628.7 4760.5 3190.5 3767.2 4851.8 4975.2 4776.6 4751.9 4638.4 4598.3 TRUE FALSE FALSE 5115.567903 4914.743323 3625.284725 3840.119603 4480.056132 4551.28497 4239.124397 4630.353279 4606.120997 4796.555217 1.066508707 1.024640206 0.755810068 0.800599478 0.934015336 0.948865335 0.883785176 0.965349729 0.960297711 1 12.22778295 -6.883644411 11.12447993 1.032138275 0.883351832 0.475868474 0.066390169 0.211760269 19.70605457 0.010836947 0.014246509 1.31E-07 6.883644411 -0.148786443 RQS(ph)PEPSPVTLGR ddPTM_HeLa_SAHA_4h_R1 2 RQSPEPSPVTLGR 13 1 Q9NRL2;Q9NRL2-2 Q9NRL2 BAZ1A Bromodomain adjacent to zinc finger domain protein 1A 1 0 RQS(0.981)PEPS(0.001)PVT(0.018)LGR;RQS(1)PEPSPVTLGR ; 164.92 0.00011353 69536000 2926.7 2875.1 2178.5 2738.7 2642 3250.5 2931.7 3421.4 3111.5 3083.8 TRUE FALSE FALSE 3234.543734 2968.255126 2475.374635 2791.711499 2439.570531 2973.539113 2601.8174 3333.885542 3089.846818 3216.75771 1.005529178 0.922747497 0.769524738 0.867865021 0.758394244 0.924390141 0.808832257 1.036411767 0.960546953 1 11.65139156 -7.066946978 4.03548393 1.002129972 0.856189312 0.351867194 0.076650162 0.143489511 4.572415423 0.011556415 0.014479349 8.57E-08 7.066946978 -0.14594066 RQS(ph)PLPPQK ddPTM_HeLa_SAHA_4h_R1 5 RQSPLPPQK 9 1 Q01105;B2REB7 Q01105 SET Protein SET 1 0 RQS(1)PLPPQK;RQS(1)PLPPQK;RQS(1)PLPPQK;RQS(1)PLPPQK;RQS(1)PLPPQK ;;;; 151.79 0.00091517 469413000 38753.3 38426.3 34909.2 40441.2 40121.3 47125 43633.4 44219.1 42063.1 39052.2 TRUE FALSE FALSE 42829.5499 39671.33733 39666.44398 41223.9979 37047.21466 43109.68488 38723.655 43088.03945 41770.37946 40735.93146 1.051394883 0.973865968 0.973745844 1.011981227 0.90944808 1.058271735 0.950601928 1.057740376 1.025393994 1 15.31401428 -7.248919061 24.72788911 1.024269807 0.988885165 0.113302694 0.044323419 1024.361405 2023135.632 0.007009932 0.008555119 5.64E-08 7.248919061 -0.035384641 RQS(ph)SGSATNVASTPDNR ddPTM_HeLa_SAHA_4h_R1 4 RQSSGSATNVASTPDNR 17 1 H0Y5T1;Q7Z460-2;Q7Z460-3;F8WA11;Q7Z460-5;Q7Z460;Q7Z460-4 H0Y5T1;Q7Z460-4 CLASP1 CLIP-associating protein 1 1 0 RQS(0.861)S(0.064)GS(0.017)AT(0.057)NVASTPDNR;RQS(0.944)S(0.053)GS(0.002)ATNVASTPDNR;RQS(0.99)S(0.007)GS(0.002)ATNVASTPDNR;RQS(0.924)S(0.07)GS(0.005)AT(0.001)NVASTPDNR ;;; 137.32 0.00019911 43607230 1773.64 1409.56 1391.56 2186.27 1728.01 2339.18 1848.29 1533.65 1235.985 1725.18 TRUE FALSE FALSE 1960.199593 1455.230669 1581.19455 2228.588417 1595.610247 2139.868704 1640.315545 1494.421454 1227.38368 1799.560953 1.089265462 0.808658727 0.878655734 1.238406742 0.886666409 1.189105988 0.911508745 0.830436697 0.682046184 1 10.81342925 -4.533955457 24.90791984 1.026280378 0.850704638 0 0.168439842 193.9096948 436040.9291 0.016844893 0.063143378 2.92E-05 4.533955457 -0.175575741 RQS(ph)SSYDDPWK ddPTM_HeLa_SAHA_4h_R1 2 RQSSSYDDPWK 11 1 E9PMG1;H0YDT0;Q96D71-4;Q96D71-3;Q96D71;Q96D71-2;H0YCF0;H7C1V2 E9PMG1 REPS1 RalBP1-associated Eps domain-containing protein 1 1 0 RQS(0.865)S(0.089)S(0.046)YDDPWK;RQS(0.913)S(0.009)S(0.078)YDDPWK ; 143.55 0.0019905 10063000 2132.32 3112.2 2143.31 1820.7 3102.4 3082 2829.2 2425.3 2556.6 2521.5 TRUE FALSE FALSE 2356.607201 3213.037322 2435.389125 1855.942281 2864.694782 2819.396261 2510.85097 2363.264338 2538.808412 2630.214205 0.895975391 1.2215877 0.925928056 0.705624005 1.089148852 1.071926483 0.954618436 0.898506416 0.965247776 1 11.36096458 -4.344235849 0.00207382 1.455334712 0.465066869 0 0.1311152 3571493.609 1198.734491 282091.4573 290362.1502 4.53E-05 4.344235849 -0.990267843 RQS(ph)STPSAPELGQQPDVNISEWK ddPTM_HeLa_SAHA_4h_R1 2 RQSSTPSAPELGQQPDVNISEWK 23 1 Q93100-4;Q93100-2;Q93100-3;Q93100;I3L213 Q93100-4 PHKB Phosphorylase b kinase regulatory subunit beta 1 0 RQS(0.504)S(0.36)T(0.124)PS(0.011)APELGQQPDVNISEWK;RQS(0.402)S(0.402)T(0.17)PS(0.025)APELGQQPDVNISEWK ; 85.399 0.00021466 25210000 3200.8 3472.3 3343.2 3202.4 3521.3 3492.5 3850.9 3836.7 2672.7 3570.8 TRUE FALSE FALSE 3537.47483 3584.804798 3798.793885 3264.387083 3251.498755 3194.919352 3417.586597 3738.562769 2654.100463 3724.754663 0.949720223 0.962427092 1.01987761 0.876403247 0.872943066 0.857752964 0.917533343 1.003707118 0.712557122 1 11.86292969 -6.2534435 24.97314958 0.977370573 0.901847143 0 0.0935316 457.9763672 1430375.423 0.006656452 0.010905098 5.58E-07 6.2534435 -0.07552343 RQS(ph)VSGLHR ddPTM_HeLa_SAHA_4h_R1 2 RQSVSGLHR 9 1 Q8N1G4;J3KRP5 Q8N1G4 LRRC47 Leucine-rich repeat-containing protein 47 1 0 RQS(0.993)VS(0.007)GLHR;RQS(0.985)VS(0.015)GLHR ; 80.834 0.013935 29729000 951.69 1337.7 1133.46 1643.37 1687.45 1947.06 1888.94 1563 1409.48 1556.35 TRUE FALSE FALSE 1051.793121 1381.042358 1287.922026 1675.179803 1558.157946 1781.159534 1676.3915 1523.020723 1399.671314 1623.451865 0.647874534 0.850682664 0.793323198 1.031862933 0.95978081 1.097143422 1.032609304 0.938137284 0.862157569 1 10.66484889 -6.258032402 24.65098832 0.828282769 1.014896384 0.502189978 0.090111734 234.1573047 1694228.433 0.020530517 0.033158912 5.52E-07 6.258032402 0.186613615 RTLPSTSSSGSK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 RTLPSTSSSGSKR 13 2 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 0 1 ; RTLPSTSSSGSK(1)R;RTLPSTSSSGSK(1)R 139.64 9.88E-05 3636700 283.28 163.33 312.74 417.65 787.48 964.83 1088.51 1167 185.677 275.74 FALSE TRUE FALSE 313.0766901 168.6219992 355.3585785 425.7342197 727.1434525 882.621056 966.02799 1137.14983 184.3848586 287.6285008 1.088475896 0.586249272 1.23547763 1.480153109 2.528064675 3.068614735 3.3585962 3.953536685 0.641052114 1 8.168062828 -5.500170543 1.115793231 0.998271054 3.744027518 0.961689277 0.227432705 0.061799971 0.142957432 0.031525796 0.11708513 3.16E-06 5.500170543 2.745756464 up RQSS(ph)SYDDPWK ddPTM_HeLa_SAHA_4h_R1 1 RQSSSYDDPWK 11 1 E9PMG1;H0YDT0;Q96D71-4;Q96D71-3;Q96D71;Q96D71-2;H0YCF0;H7C1V2 E9PMG1 REPS1 RalBP1-associated Eps domain-containing protein 1 1 0 RQS(0.189)S(0.621)S(0.189)YDDPWK 106.54 0.012968 5943300 1277.3 2572.2 1662.2 601.84 1909.8 2373.5 2052.8 856.96 803.78 2407.8 TRUE FALSE FALSE 1411.652274 2655.540968 1888.71596 613.4894835 1763.471537 2171.264447 1821.813541 835.0402041 798.1864295 2511.612041 0.562050289 1.057305397 0.751993512 0.244261245 0.702127362 0.86449038 0.72535627 0.332471811 0.317798456 1 11.29439792 -6.506023189 24.88577144 0.811860013 0.5947175 0.056074475 0.263650331 1019.525262 1505241.799 0.037604725 0.056570244 3.12E-07 6.506023189 -0.217142513 RQSSGS(ph)ATNVASTPDNR ddPTM_HeLa_SAHA_4h_R1 3 RQSSGSATNVASTPDNR 17 1 H0Y5T1;Q7Z460-2;Q7Z460-3;F8WA11;Q7Z460-5;Q7Z460;Q7Z460-4 H0Y5T1;Q7Z460-4 CLASP1 CLIP-associating protein 1 1 0 RQS(0.039)S(0.142)GS(0.54)AT(0.19)NVAS(0.039)T(0.05)PDNR;RQS(0.103)S(0.301)GS(0.573)AT(0.024)NVASTPDNR;RQS(0.184)S(0.13)GS(0.603)AT(0.082)NVASTPDNR ;; 88.684 0.0028822 4407400 1253.78 1440.08 1337.06 1443.05 1398.6 1497.03 1771.48 1745.17 1421.61 1527.22 TRUE FALSE FALSE 1385.658333 1486.739537 1519.267574 1470.982319 1291.43957 1369.474622 1572.148408 1700.531078 1411.7169 1593.065928 0.869806019 0.933256754 0.953675267 0.923365627 0.810662978 0.859647173 0.986869646 1.067458068 0.886163514 1 10.63759026 -4.48460979 4.3041877 0.923411923 1.0566152 0.460564658 0.053151727 0.192672082 7.695975081 0.009146941 0.052482761 3.28E-05 4.48460979 0.133203278 RQSSGSAT(ph)NVASTPDNR ddPTM_HeLa_SAHA_4h_R1 1 RQSSGSATNVASTPDNR 17 1 H0Y5T1;Q7Z460-2;Q7Z460-3;F8WA11;Q7Z460-5;Q7Z460;Q7Z460-4 H0Y5T1;Q7Z460-4 CLASP1 CLIP-associating protein 1 1 0 RQS(0.006)S(0.016)GS(0.415)AT(0.563)NVASTPDNR 78.419 0.014169 1159000 344.77 419.69 618.75 601.77 738.72 615.19 663.83 676.22 640.58 688.13 TRUE FALSE FALSE 381.0344905 433.2882314 703.0700277 613.4181285 682.1194332 562.772351 589.1341013 658.9232716 636.1221516 717.7986519 0.530837568 0.60363478 0.979480842 0.854582447 0.950293556 0.784025366 0.820751195 0.917977862 0.886212519 1 9.487435403 -6.744257666 24.99497369 0.759149487 0.878681168 0.181233184 0.134236625 499.8747695 727187.5647 0.030143442 0.042568922 1.80E-07 6.744257666 0.119531682 TLPSTSSSGSK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 TLPSTSSSGSKR 12 1 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 0 1 ; TLPSTSSSGSK(1)R;TLPSTSSSGSK(1)R 242.97 2.87E-56 33922000 534.85 340.69 799.56 1905.04 2716.3 3644.5 4383.6 4692.3 615.95 544.72 FALSE TRUE FALSE 591.107977 351.7285795 908.5198729 1941.914804 2508.177681 3333.968097 3890.345791 4572.27776 611.6635538 568.205545 1.040306597 0.61901645 1.598928206 3.417627338 4.414208384 5.867538826 6.846722679 8.046872827 1.076482902 1 9.1502691 -5.489469127 0.814814814 0.933871527 8.068141716 0.984330178 0.327134829 0.067072017 0.074444168 0.060303147 0.296763825 3.24E-06 5.489469127 7.134270189 up RQVDQLTNDK ddPTM_HeLa_SAHA_4h_R1 3 RQVDQLTNDK 10 1 P08670;B0YJC4 P08670 VIM Vimentin 0 0 ;; ;; 136.53 0.0026467 36866600 6899.09 6859.63 6697.28 7569.08 8492.66 8680.6 8663.28 8045.48 7531.51 7230.21 FALSE FALSE TRUE 7624.76794 7081.886513 7609.95044 7715.590488 7841.954226 7940.964044 7688.464934 7839.688271 7479.097609 7541.939737 1.010982348 0.939000676 1.009017667 1.02302468 1.039779486 1.052907385 1.019428052 1.039479039 0.991667644 1 12.88071991 -6.144650292 2.924787938 0.999504796 1.037130665 0.513786392 0.021230593 0.212104918 3.495630938 0.003360267 0.005866974 7.17E-07 6.144650292 0.037625869 RQVS(ph)ASELHTSGILGPETLR ddPTM_HeLa_SAHA_4h_R1 1 RQVSASELHTSGILGPETLR 20 1 A0A075B730;P58107 A0A075B730;P58107 EPPK1 Epiplakin 1 0 RQVS(0.459)AS(0.459)ELHT(0.078)S(0.004)GILGPETLR 50.098 0.02303 23049000 1079.5 1084.2 1087.3 1257 1418.7 1761.5 1507.2 1856.3 954.47 1278.1 TRUE FALSE FALSE 1193.046763 1119.328791 1235.471582 1281.331053 1309.999512 1611.41029 1337.605889 1808.818534 947.8277656 1333.205146 0.894871106 0.839577311 0.926692779 0.961090689 0.982594102 1.20867392 1.003300875 1.356744339 0.710939174 1 10.38068308 -1.000004453 0.559589156 0.938801378 19.61535864 0.610225784 0.10759724 55.71646271 0.452092289 0.015214718 1260.448317 0.099998975 1.000004453 18.67655726 RQVSAS(ph)ELHTSGILGPETLR ddPTM_HeLa_SAHA_4h_R1 1 RQVSASELHTSGILGPETLR 20 1 A0A075B730;P58107 A0A075B730;P58107 EPPK1 Epiplakin 1 0 RQVS(0.482)AS(0.513)ELHT(0.006)SGILGPETLR 77.939 0.0021615 21372000 1148.2 912.17 841.07 1275.7 1812.7 2113.7 1777 1457 908.27 1328.5 TRUE FALSE FALSE 1268.972944 941.7249065 955.6866395 1300.393018 1673.811318 1933.600869 1577.047283 1419.73205 901.9492751 1385.778137 0.915711477 0.67956398 0.689638994 0.938384712 1.207849419 1.395317777 1.138022921 1.024501695 0.650861239 1 10.43648058 -5.779713854 6.31717562 0.91142169 1.202924142 0.53128782 0.158791758 0.112684699 16.19876017 0.022750494 0.042779139 1.66E-06 5.779713854 0.291502452 RRAEPT(ph)Y(ph)RK ddPTM_HeLa_SAHA_4h_R1 1 RRAEPTYRK 9 3 H0YCW6 H0YCW6 ALG9 2 0 RRAEPT(1)Y(1)RK 45.718 0.008409 0 463.3 709.12 561.5 734.55 655.7 518.88 638.06 902.74 1281.5 882.81 TRUE FALSE FALSE 512.0320197 732.0959533 638.0182958 748.7682774 605.4604077 474.6685049 566.2638095 879.649218 1272.581937 920.8722595 0.556029367 0.795002722 0.692841259 0.813107648 0.657485771 0.51545532 0.614921129 0.955234788 1.381931016 1 9.846857234 -9.47197644 1.166216638 1.00293339 0.682038082 0.488702661 0.176523499 0.347289514 0.83254516 0.091144465 0.021580223 3.37E-10 9.47197644 -0.320895308 RRAS(ph)SASVPAVGASAEGTR ddPTM_HeLa_SAHA_4h_R1 2 RRASSASVPAVGASAEGTR 19 2 A0A2R8YFI4;V9GYZ0;Q9BZ23-3;Q9BZ23-4;Q9BZ23 A0A2R8YFI4 PANK2 "Pantothenate kinase 2, mitochondrial" 1 0 RRAS(0.952)S(0.041)AS(0.006)VPAVGASAEGTR;RRAS(0.882)S(0.104)AS(0.013)VPAVGAS(0.001)AEGT(0.001)R ; 63.536 0.011129 3724200 658.25 752.21 562.59 577.51 568.29 922.09 531.004 611.68 619.78 730.55 TRUE FALSE FALSE 727.4877552 776.5820975 639.2568354 588.6885411 524.747743 843.5227445 471.2540324 596.0341113 615.4669005 762.0475857 0.954648724 1.019072971 0.838867345 0.772508899 0.68860233 1.106916104 0.618404994 0.782148153 0.807648908 1 9.573737279 -6.64868101 4.717378544 0.98085382 0.796511438 0.210062901 0.131667827 0.171849554 6.409502082 0.017843802 0.025379957 2.25E-07 6.64868101 -0.184342382 RRDEDMLYS(ph)PELAQR ddPTM_HeLa_SAHA_4h_R1 1 RRDEDMLYSPELAQR 15 2 Q9Y2W2 Q9Y2W2 WBP11 WW domain-binding protein 11 1 0 RRDEDMLY(0.001)S(0.999)PELAQR 74.618 0.014737 75104000 1747.8 1751.1 1175.4 1663.7 1803.3 1992.8 1942.4 1378.7 2011.2 2243.5 TRUE FALSE FALSE 1931.641623 1807.836789 1335.577391 1695.903319 1665.131544 1823.002229 1723.83604 1343.43485 1997.203895 2340.228264 0.825407356 0.772504467 0.570703897 0.724674317 0.711525268 0.778984792 0.736610213 0.574061458 0.853422688 1 11.19243354 -7.99330058 0.62552119 0.985883427 0.688021509 0.559410984 0.080039109 0.25375257 0.225770005 0.030633889 0.020493371 1.02E-08 7.99330058 -0.297861918 RRDS(ph)DGVDGFEAEGKK ddPTM_HeLa_SAHA_4h_R1 3 RRDSDGVDGFEAEGKK 16 3 Q96KR1 Q96KR1 ZFR Zinc finger RNA-binding protein 1 0 RRDS(1)DGVDGFEAEGKK;RRDS(1)DGVDGFEAEGKK;RRDS(1)DGVDGFEAEGKK ;; 67.655 0.011114 72267000 11312.5 8336 8877.1 10142.8 11991.6 13079.7 13844.4 12818.9 10876.8 10982.4 TRUE FALSE FALSE 12502.40065 8606.091869 10086.82496 10339.12856 11072.8062 11965.23598 12286.59168 12491.0111 10801.10746 11455.90501 1.091349888 0.751236315 0.880491323 0.902515214 0.966558835 1.044460125 1.072511658 1.09035568 0.942841919 1 13.48380381 -5.002376625 3.453318701 0.993965417 1.08013912 0.129223267 0.096597497 0.469355407 11.83258419 0.016317009 0.05146874 9.95E-06 5.002376625 0.086173703 RREDS(ph)YHVR ddPTM_HeLa_SAHA_4h_R1 2 RREDSYHVR 9 2 B1AVT0;P49760-2;P49760-3;P49760 B1AVT0 CLK2 Dual specificity protein kinase CLK2 1 0 RREDS(1)YHVR;RREDS(0.993)Y(0.007)HVR ; 62.799 0.018879 3666900 830.27 605.85 712.91 685.7 799.86 841.46 763.44 601.31 637.79 828.24 TRUE FALSE FALSE 917.601608 625.4799375 810.0616621 698.972715 738.5748996 769.7628741 677.5357219 585.9293609 633.3515675 863.9494797 1.062101002 0.723977446 0.937626194 0.809043505 0.854882047 0.89098135 0.784230719 0.678198639 0.733088661 1 9.754803142 -7.272220713 24.99047174 1.029325477 0.819753211 0.009804749 0.118523941 316.3121192 733190.8101 0.012270791 0.014105697 5.34E-08 7.272220713 -0.209572266 RREEEGLQLR ddPTM_HeLa_SAHA_4h_R1 2 RREEEGLQLR 10 2 C9J352;C9JWD9;F2Z3G4;C9J4U1;C9JYI4;P52294 C9J352 KPNA1 "Importin subunit alpha-5;Importin subunit alpha-5, N-terminally processed" 0 0 ; ; 128.27 0.00099561 8040500 2971.8 2697.9 3009.5 3012.5 3700 3747.1 2963.7 2287.5 3371.7 3422.2 FALSE FALSE TRUE 3284.387559 2785.31373 3419.618987 3070.811294 3416.506799 3427.825999 2630.216676 2228.989062 3348.236065 3569.74779 0.920061515 0.780255047 0.957944143 0.860232004 0.95707232 0.960243188 0.736807425 0.624410797 0.937947514 1 11.80160643 -4.62099886 3.320291182 0.940630126 0.640607461 0.713123829 0.061900228 0.095808241 1.98848011 0.009679357 0.047362538 2.39E-05 4.62099886 -0.300022665 RREEEMMIR ddPTM_HeLa_SAHA_4h_R1 1 RREEEMMIR 9 2 P23246;P23246-2;H0Y9K7 P23246 SFPQ "Splicing factor, proline- and glutamine-rich" 0 0 87.806 0.010414 5893100 3336.2 2649.8 3409.4 3438.6 3691.3 3060.4 3755.9 2455.9 2620.3 2722.5 FALSE FALSE TRUE 3687.116823 2735.655259 3874.015277 3505.159075 3408.473391 2799.636703 3333.276247 2393.081634 2602.065119 2839.880299 1.298335294 0.963299495 1.364147383 1.234262964 1.200217274 0.985829122 1.173738291 0.842669895 0.916258731 1 11.47161441 -4.258390883 24.03653855 1.148037922 0.842669698 0.23951234 0.147033111 169.859847 1339173.432 0.019777597 0.185288299 5.52E-05 4.258390883 -0.305368224 RREEGPPPPS(ph)PDGAS(ph)SDAEPEPPSGR ddPTM_HeLa_SAHA_4h_R1 1 RREEGPPPPSPDGASSDAEPEPPSGR 26 2 C9JWF0;C9IYK2;C9JJ64;C9JR83;Q9NTJ3-2;Q9NTJ3;F8WCB7;E9PD53 C9JWF0 SMC4 Structural maintenance of chromosomes protein 4;Structural maintenance of chromosomes protein 2 0 RREEGPPPPS(0.999)PDGAS(0.533)S(0.462)DAEPEPPS(0.006)GR 57.326 0.0071652 10491000 645.9 462.58 627.9 565.51 696.83 491.22 501.04 561.32 605.28 456.52 TRUE FALSE FALSE 713.8387255 477.5678955 713.466942 576.4562638 643.4390359 449.3652925 444.6616605 546.9622472 601.0678072 476.2028114 1.499022493 1.002866602 1.498241768 1.210526797 1.351186975 0.94364267 0.933765299 1.148590966 1.262209699 1 8.895432328 -5.254848361 24.82813298 1.247740509 1.0011762 0.313363861 0.170033223 573.2908753 2159558.702 0.029790545 0.07402354 5.56E-06 5.254848361 -0.246564309 RREEGPPPPS(ph)PDGASSDAEPEPPSGR ddPTM_HeLa_SAHA_4h_R1 1 RREEGPPPPSPDGASSDAEPEPPSGR 26 2 C9JWF0;C9IYK2;C9JJ64;C9JR83;Q9NTJ3-2;Q9NTJ3;F8WCB7;E9PD53 C9JWF0 SMC4 Structural maintenance of chromosomes protein 4;Structural maintenance of chromosomes protein 1 0 RREEGPPPPS(0.996)PDGAS(0.002)S(0.002)DAEPEPPSGR 79.236 7.15E-05 4961100 617.02 534.45 484.36 538.21 679.63 735.35 780.35 695.17 581.8 289.47 TRUE FALSE FALSE 681.9209946 551.7665307 550.3660584 548.6278328 627.5568962 672.694043 692.5429642 677.388558 577.7512064 301.9504683 2.258386941 1.827341198 1.822703112 1.816946454 2.078343841 2.22782911 2.293564796 2.243376411 1.913397285 1 8.2381681 -9.411066467 0.739315884 0.862557848 2.082860094 0.16538428 0.335124451 0.32037391 0.254703827 0.25190125 0.041739419 3.88E-10 9.411066467 1.220302246 RREEGPPPPSPDGAS(ph)SDAEPEPPSGR ddPTM_HeLa_SAHA_4h_R1 3 RREEGPPPPSPDGASSDAEPEPPSGR 26 2 C9JWF0;C9IYK2;C9JJ64;C9JR83;Q9NTJ3-2;Q9NTJ3;F8WCB7;E9PD53 C9JWF0 SMC4 Structural maintenance of chromosomes protein 4;Structural maintenance of chromosomes protein 1 0 RREEGPPPPSPDGAS(0.5)S(0.5)DAEPEPPSGR;RREEGPPPPSPDGAS(0.5)S(0.5)DAEPEPPSGR;RREEGPPPPS(0.001)PDGAS(0.5)S(0.5)DAEPEPPSGR ;; 82.146 3.01E-05 98883000 2443.38 2123.09 1887.59 2097.22 2571.32 2506.27 2441.17 1852.42 2598.23 2180.06 TRUE FALSE FALSE 2700.385919 2191.879509 2144.820935 2137.814726 2374.306017 2292.721696 2166.483127 1805.037779 2580.148706 2274.053056 1.187477096 0.963864719 0.943171018 0.940090083 1.044085586 1.008209413 0.952696825 0.793753591 1.134603566 1 11.1510502 -7.137820876 8.410244285 1.088456555 0.954153685 0.474117534 0.075388359 0.265914777 17.16634821 0.015144638 0.018565226 7.28E-08 7.137820876 -0.13430287 RREPES(ph)PPASAPIPLFGADTIGQR ddPTM_HeLa_SAHA_4h_R1 1 RREPESPPASAPIPLFGADTIGQR 24 2 Q96AY4 Q96AY4 TTC28 Tetratricopeptide repeat protein 28 1 0 RREPES(0.954)PPAS(0.046)APIPLFGADTIGQR 75.797 0.00020821 6792900 799.44 900.43 1038.9 957.84 1168 1004.1 1045.4 1088.9 868.2 972.24 TRUE FALSE FALSE 883.5287672 929.6045228 1180.475882 976.3803783 1078.508092 918.5450311 927.7688407 1061.047515 862.1581255 1014.158024 0.871194376 0.916626897 1.163995998 0.962749744 1.063451717 0.9057218 0.914816841 1.046234896 0.850122076 1 9.986066753 RRGDS(ph)ES(ph)EEDEQDSEEVR ddPTM_HeLa_SAHA_4h_R1 3 RRGDSESEEDEQDSEEVR 18 2 Q9NZ63 Q9NZ63 C9orf78 Uncharacterized protein C9orf78 2 0 RRGDS(1)ES(1)EEDEQDSEEVR;RRGDS(1)ES(1)EEDEQDSEEVR;RRGDS(1)ES(1)EEDEQDSEEVR ;; 104.95 0.0012842 48507500 3216.78 3193.58 3248.84 3305.86 3606.54 4217.14 3915.13 4005.33 3939.23 3455 TRUE FALSE FALSE 3555.13568 3297.054087 3691.574996 3369.849701 3330.207684 3857.815947 3474.589268 3902.879458 3911.816578 3603.961958 0.986452055 0.914841534 1.0243102 0.935040308 0.924040743 1.070437477 0.964102648 1.082941358 1.085421162 1 11.81536807 -1.714710101 1.378276411 0.9842882 135.715966 0.185557324 0.055943181 1762.043099 3.059599455 0.00707899 750844.6581 0.01928812 1.714710101 134.7316778 RRGEEGHDPKEPEQLR ddPTM_HeLa_SAHA_4h_R1 3 RRGEEGHDPKEPEQLR 16 3 P51991 P51991 HNRNPA3 Heterogeneous nuclear ribonucleoprotein A3 0 0 ;; ;; 52.966 0.013056 18353600 3490.48 2144.96 3239.18 3537.61 3391.59 3888.28 3700.35 3255.9 3539.59 3273.69 FALSE FALSE TRUE 3857.624701 2214.458111 3680.598581 3606.085557 3131.727107 3556.976669 3283.976879 3172.618792 3514.957705 3414.834797 1.129666567 0.648481769 1.077826249 1.05600586 0.917094762 1.041624817 0.961679576 0.929069481 1.029319986 1 11.73760007 RRGNDPLT(ph)SSPGR ddPTM_HeLa_SAHA_4h_R1 1 RRGNDPLTSSPGR 13 2 P49736;F8WDM3;C9J013;C9JZ21 P49736 MCM2 DNA replication licensing factor MCM2 1 0 RRGNDPLT(0.48)S(0.48)S(0.04)PGR 108.06 0.0068288 918300 363.26 330.68 693.56 362.22 332.95 445.37 530.25 159.36 150.11 362.94 TRUE FALSE FALSE 401.4693535 341.394249 788.0747449 369.2312919 307.4394429 407.4219704 470.5848745 155.283802 149.0653723 378.5881196 1.060438331 0.901756371 2.081615096 0.975284941 0.812068385 1.076161531 1.242999582 0.410165544 0.393740227 1 8.564485329 -4.252944389 24.04852249 1.086740568 0.410164954 0.187255347 0.403094991 661.0411914 1871272.393 0.044902949 0.674331982 5.59E-05 4.252944389 -0.676575614 RRGNDPLTS(ph)SPGR ddPTM_HeLa_SAHA_4h_R1 1 RRGNDPLTSSPGR 13 2 P49736;F8WDM3;C9J013;C9JZ21 P49736 MCM2 DNA replication licensing factor MCM2 1 0 RRGNDPLT(0.003)S(0.958)S(0.039)PGR 122.1 0.0050835 6241700 2456.4 1678.9 2321 2283.6 2523.9 2516.2 2596.4 2427.8 1785.2 2339.7 TRUE FALSE FALSE 2714.775422 1733.297462 2637.293793 2327.80238 2330.519327 2301.805604 2304.246239 2365.700391 1772.776648 2440.575917 1.112350328 0.710200182 1.080603055 0.953792244 0.954905484 0.943140342 0.944140366 0.96932055 0.726376359 1 11.25300591 RRGNDPLTSS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 1 RRGNDPLTSSPGR 13 2 P49736;F8WDM3;C9J013;C9JZ21 P49736 MCM2 DNA replication licensing factor MCM2 1 0 RRGNDPLT(0.026)S(0.247)S(0.726)PGR 72.523 0.01085 10927000 401.49 291.33 565.67 610.03 614.75 602.55 599.02 626.21 350.31 597.86 TRUE FALSE FALSE 443.7205603 300.7692831 642.7565617 621.8380128 567.6479878 551.2093501 531.6166931 610.1924549 347.8721642 623.6366705 0.711504922 0.48228287 1.030658703 0.997115856 0.910222273 0.883862955 0.852446173 0.978442231 0.557812234 1 9.284561952 RRGS(ph)SGSVDETLFALPAASEPVIR ddPTM_HeLa_SAHA_4h_R1 2 RRGSSGSVDETLFALPAASEPVIR 24 2 Q9NQC3-5;Q9NQC3 Q9NQC3-5 RTN4 Reticulon-4 1 0 RRGS(0.47)S(0.47)GS(0.057)VDET(0.004)LFALPAASEPVIR;RRGS(0.43)S(0.43)GS(0.139)VDETLFALPAASEPVIR ; 110.91 1.10E-05 12187800 751.99 1221.27 1217.84 929.79 1546.64 1155.64 1784.67 1284.49 1028.54 1320.46 TRUE FALSE FALSE 831.0877585 1260.839949 1383.800893 947.7874299 1428.136777 1057.172971 1583.854235 1251.634606 1021.382306 1377.391493 0.603378025 0.915382414 1.004653289 0.688103154 1.036841584 0.76751815 1.149894016 0.908699242 0.74153377 1 10.42772296 -5.184753075 0.955894991 0.824910577 1.017671125 0.123449694 0.15514522 1.299136603 1.864966802 0.029604932 0.184856889 6.54E-06 5.184753075 0.192760548 RRGWVRS(ph)T(ph)LIMSVPQT(ph)ST(ph)SK ddPTM_HeLa_SAHA_4h_R1 1 RRGWVRSTLIMSVPQTSTSK 20 3 O00237 O00237 RNF103 E3 ubiquitin-protein ligase RNF103 4 0 RRGWVRS(0.984)T(0.988)LIMS(0.033)VPQT(0.501)S(0.501)T(0.515)S(0.477)K 47.38 0.0080254 0 740.03 780.52 597.29 583.86 739.43 1072.5 812.79 656.28 797.27 838.55 TRUE FALSE FALSE 817.8697508 805.8093601 678.6855706 595.1614546 682.7750331 981.1169663 721.3327301 639.4933079 791.7217332 874.7039943 0.935024598 0.92123663 0.775903134 0.680414699 0.780578387 1.12165598 0.824659239 0.731096819 0.905131037 1 9.772651072 -6.971935048 3.573941141 0.968437537 0.82532734 0.206997063 0.113483656 0.253894615 6.921251391 0.019471593 0.025421217 1.07E-07 6.971935048 -0.143110197 RRHNS(ph)YSGLVVPS(ph)IS(ph)Y(ph)ELHK ddPTM_HeLa_SAHA_4h_R1 1 RRHNSYSGLVVPSISYELHK 20 2 H3BTD6 H3BTD6 EDC3 4 0 RRHNS(0.933)Y(0.322)S(0.325)GLVVPS(0.807)IS(0.811)Y(0.803)ELHK 40.349 0.0087459 0 167.39 187 137.85 94.61 278.66 431.4 212.35 293.42 445.19 221.63 TRUE FALSE FALSE 184.9968482 193.0589227 156.6354801 96.44131336 257.309131 394.642293 188.4558191 285.9147413 442.0918865 231.1855539 0.800209378 0.835082121 0.677531435 0.417159774 1.112998311 1.707036994 0.815171259 1.23673273 1.912281624 1 7.852907441 -5.535516678 24.98371782 0.84471719 1.242669183 0.075243865 0.421315078 189.1022125 373832.351 0.037153942 0.074344419 2.91E-06 5.535516678 0.397951993 RRKEDEVEEWQHR ddPTM_HeLa_SAHA_4h_R1 2 RRKEDEVEEWQHR 13 3 E7EQR4;P15311 E7EQR4 EZR Ezrin 0 0 ; ; 62.799 0.010983 18695600 3677.7 2586.7 4256.6 3577.2 4064.2 3295.9 4307.7 2966.4 2897.8 3302.2 FALSE FALSE TRUE 4064.53736 2670.510777 4836.667281 3646.441879 3752.801874 3015.070778 3822.986259 2890.523783 2877.633974 3444.574003 1.179982592 0.775280419 1.404140912 1.058604598 1.089482145 0.875310205 1.109857491 0.839152761 0.835410699 1 11.75010986 -5.288961524 22.96233122 1.085773804 0.958281894 0.041629433 0.179298919 409.9343614 342016.8318 0.02191896 0.049029976 5.14E-06 5.288961524 -0.12749191 RRPESAPAES(ph)SPSK ddPTM_HeLa_SAHA_4h_R1 4 RRPESAPAESSPSK 14 2 G5E9C8;Q07889 G5E9C8 SOS1 Son of sevenless homolog 1 1 0 RRPESAPAES(0.904)S(0.095)PS(0.001)K;RRPES(0.003)APAES(0.745)S(0.247)PS(0.005)K;RRPES(0.022)APAES(0.792)S(0.147)PS(0.039)K;RRPES(0.062)APAES(0.71)S(0.223)PS(0.005)K ;;; 118.05 0.00072614 12751800 2929.66 2925.76 3039.33 3393.04 3799.18 5540.71 3259.89 3193.59 3344.68 4198.27 TRUE FALSE FALSE 3237.815081 3020.556544 3453.514064 3458.717196 3508.087649 5068.610337 2893.078598 3111.902592 3321.4041 4379.277966 0.739349068 0.689738484 0.78860353 0.789791656 0.801065307 1.157407768 0.660629131 0.710597184 0.758436465 1 12.09647731 -9.344509838 1.079360972 0.999465573 0.793196581 0 0.1497967 0.575434998 1.204560348 0.088884574 0.023522606 4.52E-10 9.344509838 -0.206268992 RRS(ph)IQDLTVTGTEPGQVSSR ddPTM_HeLa_SAHA_4h_R1 2 RRSIQDLTVTGTEPGQVSSR 20 2 Q9UG54;O43318-4;O43318-3;O43318-2;O43318 Q9UG54 DKFZp586F0420;MAP3K7 Mitogen-activated protein kinase kinase kinase 7 1 0 RRS(0.992)IQDLT(0.007)VT(0.001)GTEPGQVSSR;RRS(0.974)IQDLT(0.024)VT(0.002)GTEPGQVSSR ; 73.315 0.0040542 22139000 2037.61 1755.74 1794.94 2281.59 2478.93 2684.5 2860.9 2737.63 1771.04 1901.22 TRUE FALSE FALSE 2251.935169 1812.627128 2039.545076 2325.753474 2288.994919 2455.765497 2538.984003 2667.605389 1758.715188 1983.190899 1.135511045 0.913995284 1.028415911 1.172733031 1.154197975 1.23829002 1.280251944 1.34510772 0.886810841 1 10.95360784 -5.314155062 0.910309734 1.050768621 1.341412274 0.699515583 0.080178446 0.334327008 0.451300175 0.012135602 0.066963916 4.85E-06 5.314155062 0.290643653 RRS(ph)PPADAIPK ddPTM_HeLa_SAHA_4h_R1 3 RRSPPADAIPK 11 2 P18754-2;C9JRH2;C9J3R0;C9JMJ4;C9JQZ4;C9JW69;P18754;M0R1Q8 P18754-2 RCC1 Regulator of chromosome condensation 1 0 RRS(1)PPADAIPK;RRS(1)PPADAIPK;RRS(1)PPADAIPK ;; 104.7 0.003914 921224000 14320 14508.9 13113.4 15157.2 14965.5 17873.3 16671.3 16272.3 14735.4 14284.7 TRUE FALSE FALSE 15826.2433 14978.99788 14900.42586 15450.58952 13818.84662 16350.39429 14795.40145 15856.07813 14632.85515 14900.58332 1.062122399 1.005262516 0.999989432 1.036911723 0.927403063 1.09729894 0.99294109 1.064124658 0.98203237 1 13.86308119 RRS(ph)PPPGPDGHAK ddPTM_HeLa_SAHA_4h_R1 3 RRSPPPGPDGHAK 13 2 P57081-3;P57081-2;P57081 P57081-3 WDR4 tRNA (guanine-N(7)-)-methyltransferase non-catalytic subunit WDR4 1 0 RRS(1)PPPGPDGHAK;RRS(1)PPPGPDGHAK;RRS(1)PPPGPDGHAK ;; 66.004 0.014492 51578000 2394.76 2818.62 2054.2 2570.62 2801.39 2860.12 3456.11 2986.2 2637.72 2804.81 TRUE FALSE FALSE 2646.651844 2909.945137 2334.135678 2620.378067 2586.748103 2616.421685 3067.219407 2909.817328 2619.363892 2925.739086 0.904609662 0.994601724 0.797793518 0.895629443 0.884134924 0.894277175 1.048357122 0.994558039 0.895282804 1 11.5145854 -4.756715338 24.99996043 0.933115069 1.021457595 0.304334629 0.059640385 133.7986108 708045.3303 0.00929952 0.032636048 1.75E-05 4.756715338 0.088342527 RRS(ph)PSLSSK ddPTM_HeLa_SAHA_4h_R1 1 RRSPSLSSK 9 2 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 RRS(0.986)PS(0.013)LSSK 75.819 0.022718 16601000 1626 1205.5 2417.6 2902.1 1518.5 2452.4 3631 2747.9 1442.5 2375.1 TRUE FALSE FALSE 1797.03014 1244.558991 2747.057938 2958.274342 1402.152858 2243.441723 3222.430324 2677.612697 1432.461525 2477.502184 0.725339478 0.502344256 1.108801419 1.19405519 0.565954237 0.905525629 1.300677087 1.080771074 0.578187795 1 11.27467061 RRS(ph)QS(ph)IEQESQEK ddPTM_HeLa_SAHA_4h_R1 1 RRSQSIEQESQEK 13 2 A0A0A0MRN0;Q5VTL8 A0A0A0MRN0 PRPF38B Pre-mRNA-splicing factor 38B 2 0 RRS(1)QS(1)IEQESQEK 116.04 0.0011732 30314000 2876 2487.9 2858.1 3080 3305.7 3583.7 3424.5 3519.6 2762.8 2871.8 TRUE FALSE FALSE 3178.510876 2568.509592 3247.586984 3139.617854 3052.41798 3278.348599 3039.166247 3429.573728 2743.57345 2995.617352 1.0610537 0.857422458 1.084112756 1.048070392 1.018961243 1.094381629 1.014537536 1.144863754 0.915862451 1 11.54863764 -1.000000002 0.650951072 1.020879715 10.5498588 0.229126492 0.070927684 244.789758 1.459956178 0.010355603 3369.16577 0.099999999 1.000000002 9.528979085 RRS(ph)QSIEQESQEK ddPTM_HeLa_SAHA_4h_R1 1 RRSQSIEQESQEK 13 2 A0A0A0MRN0;Q5VTL8 A0A0A0MRN0 PRPF38B Pre-mRNA-splicing factor 38B 1 0 RRS(0.5)QS(0.5)IEQESQEK 58.781 0.019025 2690100 764.48 674.94 695.13 750.31 784.06 1170.4 1078.6 931.09 811.66 682.33 TRUE FALSE FALSE 844.891514 696.8084988 789.8586963 764.833335 723.9854922 1070.675336 957.2330893 907.274066 806.011592 711.7485855 1.187064549 0.97900932 1.109743963 1.074583569 1.017192738 1.504288673 1.344903395 1.274711442 1.132438628 1 9.475223911 -5.270083818 24.99717132 1.078309372 1.371661396 0.753046523 0.079494082 256.0069187 740297.0426 0.012913549 0.029297634 5.37E-06 5.270083818 0.293352023 RRT(ph)AS(ph)PPPPPKR ddPTM_HeLa_SAHA_4h_R1 1 RRTASPPPPPKR 12 3 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 2 0 RRT(1)AS(1)PPPPPKR 57.885 0.023107 11542000 1614.7 1417.6 1415.8 1791 1954.9 2067 1842.4 1733.9 2042.7 1461.2 TRUE FALSE FALSE 1784.541555 1463.53117 1608.737851 1825.667395 1805.115984 1890.879971 1635.088303 1689.549349 2028.484684 1524.199483 1.170805773 0.960196606 1.05546411 1.197787701 1.184304289 1.240572505 1.07275217 1.108483087 1.330852495 1 10.57383602 -6.27003895 24.25765118 1.070038241 1.161629346 0.022463808 0.106835574 497.9683185 1404667.176 0.012932422 0.019954562 5.37E-07 6.27003895 0.091591106 RRT(ph)CETGEPMEAESGDTSSEGPAQVYLPGR ddPTM_HeLa_SAHA_4h_R1 2 RRTCETGEPMEAESGDTSSEGPAQVYLPGR 30 2 Q9BQ67 Q9BQ67 GRWD1 Glutamate-rich WD repeat-containing protein 1 1 0 RRT(0.49)CET(0.49)GEPMEAES(0.005)GDT(0.009)S(0.003)S(0.002)EGPAQVYLPGR;RRT(0.493)CET(0.493)GEPMEAES(0.004)GDT(0.007)S(0.002)S(0.001)EGPAQVYLPGR ; 73.212 0.00080133 17938500 389.13 627.01 448.78 482.08 488.95 638.17 628.24 133.06 570.8 438.447 TRUE FALSE FALSE 430.0604788 647.3255354 509.9374013 491.4113555 451.4867566 583.7943258 557.5487818 129.6565179 566.8277563 457.3505959 0.940329985 1.415381419 1.114981386 1.074474069 0.987178678 1.276470023 1.219083974 0.283494805 1.239372511 1 8.837156721 -4.253613926 24.7168932 1.050952233 0.283494368 0.684825245 0.164618022 400.6284513 1265360.128 0.023527526 0.339480442 5.58E-05 4.253613926 -0.767457866 RRVNDAEPGS(ph)PEAPQGK ddPTM_HeLa_SAHA_4h_R1 2 RRVNDAEPGSPEAPQGK 17 2 Q8N8A6 Q8N8A6 DDX51 ATP-dependent RNA helicase DDX51 1 0 RRVNDAEPGS(1)PEAPQGK;RRVNDAEPGS(1)PEAPQGK ; 167.97 1.08E-06 27221000 6255.9 4453.9 5774.9 5092 5790.2 5119.6 6600.7 6162.4 3748 5320.7 TRUE FALSE FALSE 6913.924265 4598.209282 6561.873298 5190.563023 5346.556127 4683.381278 5857.971864 6004.774731 3721.917363 5550.101416 1.245729356 0.828491038 1.182297909 0.935219491 0.963325843 0.843837063 1.055471139 1.081921623 0.670603487 1 12.43829842 -7.269206353 24.96842691 1.116038858 0.986609375 0 0.181489969 744.5818859 2393596.949 0.022041838 0.025459316 5.38E-08 7.269206353 -0.129429483 RRVS(ph)EVEEEKEPVPQPLPSDDTR ddPTM_HeLa_SAHA_4h_R1 3 RRVSEVEEEKEPVPQPLPSDDTR 23 3 O43290 O43290 SART1 U4/U6.U5 tri-snRNP-associated protein 1 1 0 RRVS(1)EVEEEKEPVPQPLPSDDTR;RRVS(1)EVEEEKEPVPQPLPSDDTR;RRVS(1)EVEEEKEPVPQPLPSDDTR ;; 50.858 0.0099006 97062000 5399.5 6067.6 5395.4 6455.9 7077 8431.2 8001.1 6770 8029.2 6720.4 TRUE FALSE FALSE 5967.444184 6264.194221 6130.657014 6580.86328 6534.761789 7712.814327 7100.79517 6596.833203 7973.324143 7010.149333 0.851257784 0.893589269 0.874540145 0.93876221 0.932185818 1.100235382 1.012930657 0.941040324 1.137397189 1 12.77522946 -5.436447025 10.46522423 0.921643236 1.017562458 0.079185909 0.085822365 0.548754604 64.18606307 0.009646489 0.021578813 3.66E-06 5.436447025 0.095919222 RRYEDDGIS(ph)DDEIEGK ddPTM_HeLa_SAHA_4h_R1 2 RRYEDDGISDDEIEGK 16 2 I3VM54;Q9Y2K7-3;Q9Y2K7 I3VM54 KDM2A Lysine-specific demethylase 2A 1 0 RRYEDDGIS(1)DDEIEGK;RRY(0.018)EDDGIS(0.982)DDEIEGK ; 129.51 0.00013549 17265500 4122.8 3291.4 3387.7 4082 3990.4 4810.1 3867.1 4309.1 4093.4 4216.1 TRUE FALSE FALSE 4556.45502 3398.04352 3849.358114 4161.013013 3684.656414 4400.252419 3431.96373 4198.879462 4064.913696 4397.876704 1.036057927 0.772655476 0.875276497 0.946141352 0.83782622 1.000540196 0.780368337 0.954751519 0.924290054 1 12.10259144 -7.289876239 24.9873817 1.017027362 0.882416583 0.266474811 0.07549789 427.8221952 375924.8483 0.010853057 0.012412116 5.13E-08 7.289876239 -0.134610779 RS(ph)AAGSPPAVAAAGSGNGAGGGGGVGCAPAAGAGR ddPTM_HeLa_SAHA_4h_R1 2 RSAAGSPPAVAAAGSGNGAGGGGGVGCAPAAGAGR 35 1 Q86VQ1 Q86VQ1 GLCCI1 Glucocorticoid-induced transcript 1 protein 1 0 RS(0.948)AAGS(0.052)PPAVAAAGSGNGAGGGGGVGCAPAAGAGR;RS(0.898)AAGS(0.102)PPAVAAAGSGNGAGGGGGVGCAPAAGAGR ; 122.55 1.59E-16 12250000 3790.9 3448.2 3834.5 3687.7 4021.8 4641.4 4124.3 4562 3956.6 4097.8 TRUE FALSE FALSE 4189.644255 3559.923942 4357.045691 3759.080766 3713.650553 4245.926608 3660.222909 4445.310646 3929.065698 4274.476212 0.980153836 0.832832788 1.019316865 0.879424888 0.868796636 0.993320912 0.85629741 1.039966168 0.919192318 1 12.06153193 -7.49302579 23.33220583 0.991244432 0.925000364 0.028697326 0.071063031 192.8758451 150748.861 0.010466003 0.011413274 3.21E-08 7.49302579 -0.066244068 RS(ph)ASPDDDLGSSNWEAADLGNEER ddPTM_HeLa_SAHA_4h_R1 4 RSASPDDDLGSSNWEAADLGNEER 24 1 O00193;E9PM92;E9PQA1 O00193 SMAP;C11orf58 Small acidic protein 1 0 RS(0.673)AS(0.327)PDDDLGSSNWEAADLGNEER;RS(0.491)AS(0.491)PDDDLGS(0.013)S(0.005)NWEAADLGNEER;RS(0.561)AS(0.439)PDDDLGSSNWEAADLGNEER;RS(0.576)AS(0.424)PDDDLGSSNWEAADLGNEER ;;; 103.85 1.47E-05 248827600 2526.01 2738.3 2802.16 2929.02 2818.35 3591.24 3398.47 3116.79 3161.49 2916.02 TRUE FALSE FALSE 2791.707322 2827.022717 3184.023772 2985.715418 2602.408632 3285.246148 3016.065211 3037.067025 3139.488934 3041.743893 0.917798283 0.929408529 1.046775759 0.981580147 0.855564677 1.080053504 0.991557908 0.998462439 1.03213454 1 11.57068297 -5.228460753 24.9980647 0.959963834 1.020177919 0.164666674 0.057707532 831.5169212 630295.1797 0.007840084 0.019986921 5.91E-06 5.228460753 0.060214085 RS(ph)ASPHDVDLCLVSPCEFEHR ddPTM_HeLa_SAHA_4h_R1 2 RSASPHDVDLCLVSPCEFEHR 21 1 Q66K74-2;Q66K74 Q66K74-2 MAP1S Microtubule-associated protein 1S;MAP1S heavy chain;MAP1S light chain 1 0 RS(0.616)AS(0.384)PHDVDLCLVSPCEFEHR;RS(0.607)AS(0.393)PHDVDLCLVSPCEFEHR ; 94.958 0.0002405 8822600 2297.8 2907.25 1884.64 3027.97 3468.7 4304.3 3622.6 2877.12 3475.4 3003.4 TRUE FALSE FALSE 2539.493147 3001.446808 2141.468924 3086.580738 3202.928955 3937.549425 3214.975514 2803.527436 3451.214408 3132.891272 0.810590897 0.95804372 0.683543966 0.985217957 1.022355606 1.256842029 1.026200795 0.89486905 1.101606825 1 11.61327899 -5.90784458 3.86131461 0.895144682 1.062662866 0.18199035 0.134068119 0.232167248 6.656055406 0.018858883 0.035284801 1.24E-06 5.90784458 0.167518184 RS(ph)ASPHDVDLCLVSPCEFEHRK ddPTM_HeLa_SAHA_4h_R1 1 RSASPHDVDLCLVSPCEFEHRK 22 2 Q66K74-2;Q66K74 Q66K74-2 MAP1S Microtubule-associated protein 1S;MAP1S heavy chain;MAP1S light chain 1 0 RS(0.579)AS(0.421)PHDVDLCLVSPCEFEHRK 51.611 0.0099199 4840300 943.76 854.73 975.42 1432.3 1291.8 1526.7 1484.9 1239.4 1125.4 1194.6 TRUE FALSE FALSE 1043.029007 882.4238128 1108.345158 1460.024238 1192.822563 1396.616571 1317.815144 1207.697943 1117.56825 1246.105052 0.83703136 0.708145602 0.889447608 1.171670266 0.957240773 1.120785578 1.057547389 0.969178273 0.896849144 1 10.28320998 -6.292455626 24.36445854 0.899261115 1.053602263 0.495024095 0.092482593 435.3635853 341993.9551 0.01647662 0.025170434 5.10E-07 6.292455626 0.154341148 RS(ph)DSAISVR ddPTM_HeLa_SAHA_4h_R1 2 RSDSAISVR 9 1 H3BR17;Q6Q0C0;Q6Q0C0-2 H3BR17 TRAF7 E3 ubiquitin-protein ligase TRAF7 1 0 RS(0.797)DS(0.195)AIS(0.008)VR;RS(0.648)DS(0.352)AISVR ; 115.29 0.0024471 7381800 1144.24 1296.56 1349.26 1403.8 1617.37 1672.77 1639.47 1406 1427.9 1531.7 TRUE FALSE FALSE 1264.596413 1338.569395 1533.130126 1430.972579 1493.44746 1530.240585 1454.992521 1370.036556 1417.963128 1597.739083 0.791491193 0.83778973 0.959562261 0.895623443 0.934725498 0.957753742 0.910657151 0.857484536 0.88748103 1 10.64181611 -6.734826017 24.98733178 0.894005222 0.920280866 0.083349327 0.057224691 915.7160333 859766.0036 0.013370149 0.018904986 1.84E-07 6.734826017 0.026275644 RS(ph)GS(ph)QALEVTRER ddPTM_HeLa_SAHA_4h_R1 1 RSGSQALEVTRER 13 2 A0A0J9YYF7;Q86T65-4;Q86T65 A0A0J9YYF7 DAAM2 Disheveled-associated activator of morphogenesis 2 2 0 RS(1)GS(0.999)QALEVT(0.001)RER 68.536 0.017873 2214700 720.43 466.86 727.31 595.05 826.91 917.38 733.73 625.29 590.58 653.26 TRUE FALSE FALSE 796.2081329 481.9865703 826.4240191 606.5680532 763.5523344 839.214063 651.1687693 609.2959872 586.4701057 681.4252356 1.168445328 0.707321281 1.212787516 0.890146155 1.120522538 1.231557065 0.95559826 0.894149432 0.860652167 1 9.412411566 RS(ph)HSPSIDGTPK ddPTM_HeLa_SAHA_4h_R1 1 RSHSPSIDGTPK 12 1 A0A0C4DH56;Q9BWT3-2;Q9BWT3 A0A0C4DH56 PAPOLG Poly(A) polymerase gamma 1 0 RS(0.916)HS(0.083)PSIDGTPK 92.773 0.0056794 4969000 2945.1 3308.6 2557.1 3470.6 3250.9 1104.8 3559.8 3638.3 3204.5 3244.8 TRUE FALSE FALSE 3254.879131 3415.800811 2905.568271 3537.778482 3001.816744 1010.664825 3159.241935 3545.237554 3182.199624 3384.699208 0.961645018 1.009188882 0.858442093 1.045226847 0.886878437 0.298598121 0.933389274 1.04743061 0.940172059 1 11.72481191 -5.515151181 24.96091678 0.976958414 0.746426672 0.199739927 0.18654033 370.1442904 1195606.834 0.025769745 0.05343312 3.05E-06 5.515151181 -0.230531742 RS(ph)LATVHPDS(ph)S(ph)NLIPK ddPTM_HeLa_SAHA_4h_R1 1 RSLATVHPDSSNLIPK 16 1 Q6P4A7 Q6P4A7 SFXN4 Sideroflexin-4 3 0 RS(0.935)LAT(0.199)VHPDS(0.866)S(0.999)NLIPK 54.471 0.0088062 0 265.69 302.12 218.21 423.82 179.33 689.33 281.72 1471.2 1646.7 593.28 TRUE FALSE FALSE 293.6364932 311.9088862 247.9465224 432.023649 165.5897741 630.5952059 250.0201242 1433.568834 1635.240481 618.8592042 0.474480288 0.504006217 0.400650941 0.69809683 0.267572613 1.018963928 0.404001625 2.316470086 2.642346546 1 9.273467411 -4.255724599 24.97379718 0.671830198 2.316470803 0.286260685 0.669897638 230.4963638 1007247.102 0.03865424 0.459117767 5.55E-05 4.255724599 1.644640605 RS(ph)LTVSDDAESSEPER ddPTM_HeLa_SAHA_4h_R1 1 RSLTVSDDAESSEPER 16 1 H0Y9Y2;Q8NFC6 H0Y9Y2;Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 RS(0.966)LT(0.034)VSDDAESSEPER 94.958 0.0027744 2492300 301.8 379.83 319.67 457.86 537.65 428.13 479.97 457.81 445.53 287.69 TRUE FALSE FALSE 333.5447087 392.1367412 363.2329628 466.7225424 496.4553732 391.6509154 425.9625124 446.0998831 442.4295205 300.0937238 1.111468459 1.306714237 1.210398399 1.555255926 1.654334409 1.305095323 1.419431593 1.486535198 1.474304477 1 8.229269336 -6.982859712 0.998179479 1.035670976 1.474403558 0.194911926 0.1740754 0.1725645 0.339062431 0.022222483 0.03056572 1.04E-07 6.982859712 0.438732582 RS(ph)NSTTQVSQPR ddPTM_HeLa_SAHA_4h_R1 1 RSNSTTQVSQPR 12 1 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 RS(0.997)NS(0.002)TTQVSQPR 103.88 0.002292 920880 213.55 150.25 163.81 204.89 197.38 178.52 60.691 185.46 129.8 258.8 TRUE FALSE FALSE 236.0121688 155.1181986 186.1331737 208.8559422 182.256787 163.3090917 53.86188895 180.7162017 128.8967112 269.9581345 0.874254703 0.574600943 0.689489035 0.773660488 0.675129821 0.604942288 0.199519415 0.669423065 0.477469262 1 8.076591879 -6.180175951 0.265623313 1.04893766 0.300305103 0 0.217279677 1.467500193 0.208993713 0.128813906 0.3768697 6.60E-07 6.180175951 -0.748632557 RS(ph)PASIDR ddPTM_HeLa_SAHA_4h_R1 2 RSPASIDR 8 1 O43166-3;O43166-2;O43166;F5GYF8 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 RS(1)PASIDR;RS(1)PASIDR ; 95.483 0.0074267 47281000 3188.7 3305.1 2648.59 3804.6 3152.4 4317.1 3833.7 4033.2 3206.1 3534.9 TRUE FALSE FALSE 3524.102096 3412.187409 3009.526052 3878.243535 2910.863793 3949.258793 3402.321986 3930.036584 3183.788489 3687.306838 0.955738768 0.925387433 0.816185412 1.051782156 0.789428144 1.071041539 0.922711924 1.065828464 0.863445498 1 11.84835176 -3.111998075 13.5407714 0.964170776 0.954757357 0 0.098279933 0 0 0.010973771 0 0.000772684 3.111998075 -0.009413419 RS(ph)PILLPK ddPTM_HeLa_SAHA_4h_R1 1 RSPILLPK 8 1 Q8TD16;Q8TD16-2 Q8TD16 BICD2 Protein bicaudal D homolog 2 1 0 RS(1)PILLPK 74.944 0.0086874 0 805.05 1221.2 939 1057 1024.2 1292.4 1199.4 1026.4 850.58 1010.2 TRUE FALSE FALSE 889.7288527 1260.767681 1066.96203 1077.459763 945.7260173 1182.280249 1064.440355 1000.146174 844.6607445 1053.754666 0.844341555 1.196452763 1.012533623 1.022495841 0.897482164 1.121969171 1.010140586 0.949126212 0.801572484 1 10.0413233 -7.308239233 24.99959981 0.92649464 1.026739726 0.310485015 0.094263289 485.3434295 259260.1728 0.015882642 0.018162543 4.92E-08 7.308239233 0.100245086 RS(ph)PLTY(ph)GVGVLNR ddPTM_HeLa_SAHA_4h_R1 1 RSPLTYGVGVLNR 13 1 A0A6I8PIW1;O43301;A0A6I8PL32;A0A6I8PIT5;Q5JX83;A0A6I8PLB1;A0A1B0GTF3;Q96MM6 A0A6I8PIW1 HSPA12A;HSPA12B Heat shock 70 kDa protein 12A;Heat shock 70 kDa protein 12B 2 0 RS(0.997)PLT(0.403)Y(0.6)GVGVLNR 60.549 0.018552 13547000 200.07 191.38 190.56 127.67 252.74 164.07 242.23 146.16 197.79 170.44 TRUE FALSE FALSE 221.1142806 197.5808376 216.5285244 130.1412375 233.3751158 150.090313 214.9736429 142.4214388 196.4135633 177.7885025 1.2436928 1.111325169 1.217899478 0.732000302 1.312655838 0.844207082 1.209153797 0.801072267 1.104759647 1 7.474018219 RS(ph)PPADAIPK ddPTM_HeLa_SAHA_4h_R1 2 RSPPADAIPK 10 1 P18754-2;C9JRH2;C9J3R0;C9JMJ4;C9JQZ4;C9JW69;P18754;M0R1Q8 P18754-2 RCC1 Regulator of chromosome condensation 1 0 RS(1)PPADAIPK;RS(1)PPADAIPK ; 88.803 0.0055643 5763500 2952.2 4965.9 3661.4 2922.9 3545.2 6249.5 3721.4 7734.5 9583.3 4332.2 TRUE FALSE FALSE 3262.725941 5126.798418 4160.356524 2979.476956 3273.567542 5717.007441 3302.658278 7536.662689 9516.609035 4518.982343 0.722004578 1.134502866 0.920640137 0.659324762 0.724403703 1.265109489 0.730841156 1.667778742 2.105918614 1 12.1417822 -4.254553082 24.8507294 0.883408827 1.667779135 0.087047235 0.429310848 387.8251052 1399513.749 0.025976835 0.341931091 5.56E-05 4.254553082 0.784370309 RS(ph)PPAPGLQPMR ddPTM_HeLa_SAHA_4h_R1 2 RSPPAPGLQPMR 12 1 P15408;P15408-3;P15408-2;C9JCN8 P15408 FOSL2 Fos-related antigen 2 1 0 RS(1)PPAPGLQPMR;RS(1)PPAPGLQPMR ; 98.898 0.0037803 18559800 2380.57 2784.5 2450.9 2663.4 2976.6 2406.81 3051.3 2296.04 2609.4 2398.91 TRUE FALSE FALSE 2630.969275 2874.719627 2784.895888 2714.953958 2748.533551 2201.736248 2707.959693 2237.310621 2591.240973 2502.33875 1.051404121 1.148813136 1.112917221 1.084966597 1.09838588 0.879871379 1.082171506 0.894087829 1.035527653 1 11.28906139 -4.251226632 24.33463319 1.041193426 0.89408771 0.295525816 0.0717291 1098.686955 2617842.576 0.010130437 0.186646273 5.61E-05 4.251226632 -0.147105716 RS(ph)PTDSDVSLDSEDSGAK ddPTM_HeLa_SAHA_4h_R1 1 RSPTDSDVSLDSEDSGAK 18 1 Q8N3V7-2 Q8N3V7-2 SYNPO Synaptopodin 1 0 RS(0.743)PT(0.256)DS(0.001)DVSLDSEDSGAK 114.78 0.00043826 7584400 2364.5 2466.5 2093.2 2511.3 2549.8 3109 2669 2047.7 2788.6 2687.1 TRUE FALSE FALSE 2613.208959 2546.416218 2378.450395 2559.909843 2354.434875 2844.095709 2368.677096 1995.322799 2769.193906 2802.954031 0.932305321 0.908475911 0.848551339 0.913289984 0.839983406 1.014677971 0.845064553 0.711864261 0.987955519 1 11.45273237 -1 0.118975043 1.041215671 0.306396491 0.459527688 0.064444007 64.96458799 0.532667913 0.295766911 7.936086803 0.1 1 -0.734819179 RS(ph)PTEDFR ddPTM_HeLa_SAHA_4h_R1 1 RSPTEDFR 8 1 Q8IXT5 Q8IXT5 RBM12B RNA-binding protein 12B 1 0 RS(0.997)PT(0.003)EDFR 72.243 0.018849 21864000 907.36 1094.1 902.5 1264.2 1151.9 1570.3 1453.6 1202.9 1761.7 1258.2 TRUE FALSE FALSE 1002.800288 1129.549558 1025.488 1288.670419 1063.641671 1436.501606 1290.037102 1172.13156 1749.440186 1312.447159 0.764069076 0.860643836 0.781355647 0.981883659 0.810426281 1.094521479 0.982924983 0.893088572 1.332960473 1 10.35804362 -5.273539158 24.90449338 0.878462593 0.989453016 0 0.167291895 888.391828 1828541.979 0.015208365 0.034246512 5.33E-06 5.273539158 0.110990423 RS(ph)PTVEPSTLPR ddPTM_HeLa_SAHA_4h_R1 3 RSPTVEPSTLPR 12 1 Q9BY89 Q9BY89 KIAA1671 Uncharacterized protein KIAA1671 1 0 RS(0.999)PT(0.001)VEPSTLPR;RS(0.999)PT(0.001)VEPSTLPR;RS(0.98)PT(0.013)VEPS(0.004)T(0.004)LPR ;; 123.01 0.00073004 37766600 2271.73 3183.42 2739.76 2524.74 2922.22 3399.8 2989.88 2770.65 3211.75 3204.75 TRUE FALSE FALSE 2510.680984 3286.564897 3113.120225 2573.609994 2698.320135 3110.117913 2653.450833 2699.780785 3189.39917 3342.922456 0.75104374 0.98314123 0.931257086 0.76986829 0.807174013 0.930358976 0.793751835 0.807610951 0.954075128 1 11.70689417 -9.565193903 1.319319004 1.000634539 0.838335353 0.318391671 0.074722322 0.386822543 1.199071469 0.05630011 0.013012736 2.72E-10 9.565193903 -0.162299186 RS(ph)PVPAQIAITVPK ddPTM_HeLa_SAHA_4h_R1 6 RSPVPAQIAITVPK 14 1 A0A0A0MSA7;A0A0U1RQK7;O43432;O43432-3 A0A0A0MSA7 EIF4G3 Eukaryotic translation initiation factor 4 gamma 3 1 0 RS(1)PVPAQIAITVPK;RS(1)PVPAQIAITVPK;RS(0.998)PVPAQIAIT(0.002)VPK;RS(1)PVPAQIAITVPK;RS(1)PVPAQIAITVPK;RS(0.998)PVPAQIAIT(0.002)VPK ;;;;; 188.9 9.11E-09 87913500 31218.5 33838.8 30689.7 36139.5 37426.4 40222.2 38410.3 36348.8 36884.3 32472.1 TRUE FALSE FALSE 34502.20507 34935.19932 34871.93249 36839.03228 34558.79732 36795.04228 34088.27195 35419.05033 36627.61915 33872.13115 1.018601543 1.031384744 1.029516931 1.087591215 1.020272305 1.086292507 1.006381081 1.045669379 1.081349709 1 15.04781114 -7.332910886 0.979756554 1.005408592 1.047062124 0 0.034117297 0.373553061 0.713542735 0.005081929 0.005823939 4.65E-08 7.332910886 0.041653532 RS(ph)RSESETSTMAAK ddPTM_HeLa_SAHA_4h_R1 1 RSRSESETSTMAAK 14 2 A0A087WVF1;Q96B23-2;Q96B23 A0A087WVF1 C18orf25 Uncharacterized protein C18orf25 1 0 RS(0.972)RS(0.028)ESETSTMAAK 98.942 0.0037656 8085100 560.87 438.56 667.15 797.19 772.8 831.54 1070.7 889.96 475.56 773.5 TRUE FALSE FALSE 619.86488 452.7696317 758.0657276 812.6207652 713.588231 760.6881139 950.2220181 867.1961118 472.2505392 806.8493704 0.768253534 0.56115757 0.939538104 1.007153002 0.884413197 0.94278826 1.177694441 1.07479307 0.585301986 1 9.656155554 -4.899235527 4.131865102 0.876226801 1.125106054 0.345125747 0.154318376 0.190660985 5.915286415 0.020272918 0.066515415 1.26E-05 4.899235527 0.248879253 RS(ph)RSPLELEPEAK ddPTM_HeLa_SAHA_4h_R1 1 RSRSPLELEPEAK 13 2 A0A087WTQ7;A0A087WV56;A0A087WW71;A0A087X0X5;Q92466-3;Q92466-2;Q92466-5;Q92466-4;Q92466 A0A087WTQ7 DDB2 DNA damage-binding protein 2 1 0 RS(0.543)RS(0.457)PLELEPEAK 105.53 0.0011493 0 1515.3 1688.5 998.83 1496.6 1581.8 1750.1 2015.5 1910 1318.6 1789.3 TRUE FALSE FALSE 1674.686206 1743.208508 1134.945351 1525.568857 1460.602826 1600.981634 1788.710635 1861.144966 1309.423755 1866.44548 0.897259644 0.93397237 0.608078491 0.817365883 0.782558527 0.857770372 0.958351398 0.997160102 0.701560142 1 10.86607765 -8.147440031 0.923235673 0.982260623 0.846265192 0 0.135748823 0.558940916 1.012450759 0.033893924 0.023916758 7.12E-09 8.147440031 -0.135995432 RS(ph)SDGS(ph)LSHEEDLAK ddPTM_HeLa_SAHA_4h_R1 1 RSSDGSLSHEEDLAK 15 1 A0A2R8Y7R9;Q13136-2;Q13136;H0YEF9;E9PJZ7 A0A2R8Y7R9 PPFIA1 Liprin-alpha-1 2 0 RS(0.838)S(0.517)DGS(0.635)LS(0.011)HEEDLAK 77.631 0.022091 21166000 3963 4070.9 2964.5 4070.4 4513.6 5139.2 4963.1 4998.4 4255.3 4147.7 TRUE FALSE FALSE 4379.846523 4202.799831 3368.486622 4149.188478 4167.768943 4701.311248 4404.638926 4870.548166 4225.687021 4326.527645 1.012323711 0.971402514 0.778565838 0.959011202 0.963305746 1.086624571 1.018054035 1.125740678 0.976692481 1 12.07899391 -5.261148359 24.99987629 0.979762735 1.070931192 0.358538945 0.069840598 30.14536547 2589481.145 0.010851623 0.02586741 5.48E-06 5.261148359 0.091168457 RS(ph)SDGSLSHEEDLAK ddPTM_HeLa_SAHA_4h_R1 1 RSSDGSLSHEEDLAK 15 1 A0A2R8Y7R9;Q13136-2;Q13136;H0YEF9;E9PJZ7 A0A2R8Y7R9 PPFIA1 Liprin-alpha-1 1 0 RS(0.621)S(0.379)DGSLSHEEDLAK 90.707 0.0040348 10115000 2588 2867.6 1645.4 3054.2 4212.1 4046.5 3507.1 4194.4 3249.1 3052.9 TRUE FALSE FALSE 2860.217714 2960.512122 1869.626543 3113.318457 3889.369808 3701.715435 3112.471878 4087.113321 3226.489249 3184.52546 0.898161359 0.929655661 0.587097377 0.977639682 1.221334185 1.162407235 0.97737384 1.283429313 1.013177407 1 11.63686269 -5.896920637 6.030464574 0.918084654 1.146443614 0.475801273 0.133979671 0.166526401 8.47988901 0.019989724 0.036569791 1.27E-06 5.896920637 0.22835896 RS(ph)SDPALIGLSTSVSDSNFSSEEPSR ddPTM_HeLa_SAHA_4h_R1 4 RSSDPALIGLSTSVSDSNFSSEEPSR 26 1 Q5VWV2;Q8TEW0-4;Q8TEW0-11;Q8TEW0-2;Q8TEW0;Q8TEW0-8;Q8TEW0-3;Q8TEW0-7;Q8TEW0-6;Q5VWU8;Q8TEW0-9;Q8TEW0-10;Q8TEW0-5 Q5VWV2 PARD3 Partitioning defective 3 homolog 1 0 RS(0.5)S(0.5)DPALIGLSTSVSDSNFSSEEPSR;RS(0.5)S(0.5)DPALIGLSTSVSDSNFSSEEPSR;RS(0.5)S(0.5)DPALIGLSTSVSDSNFSSEEPSR;RS(0.59)S(0.41)DPALIGLSTSVSDSNFSSEEPSR ;;; 208.53 3.25E-25 200441000 5727.3 6916.2 6918.9 7309.5 8413.6 8257.5 9171.6 8027 7694.4 7819.5 TRUE FALSE FALSE 6329.723692 7140.289418 7861.77166 7450.985942 7768.951786 7553.914545 8139.58743 7821.680963 7640.854044 8156.636913 0.776021265 0.875396256 0.963849653 0.91348751 0.952469979 0.92610651 0.997909741 0.958934552 0.936765253 1 12.99375872 -6.760362864 24.99873784 0.889864287 0.951283984 0.181189051 0.056527348 52.06210637 1208959.402 0.01368224 0.018729632 1.74E-07 6.760362864 0.061419698 RS(ph)SDPLGDTASNLGSAVDELMR ddPTM_HeLa_SAHA_4h_R1 1 RSSDPLGDTASNLGSAVDELMR 22 1 Q7Z6Z7-2;Q7Z6Z7-3;Q7Z6Z7 Q7Z6Z7-2 HUWE1 E3 ubiquitin-protein ligase HUWE1 1 0 RS(0.5)S(0.5)DPLGDTASNLGSAVDELMR 132.77 1.38E-06 3768000 411.49 467.64 459.12 595.09 655.57 655.39 570.07 496.45 544.34 555.59 TRUE FALSE FALSE 454.7724062 482.7918428 521.6864826 606.6088275 605.3403682 599.5470849 505.9242233 483.7515279 540.5518936 579.5442039 0.784707022 0.833054389 0.900166854 1.046699843 1.044511125 1.03451485 0.872969171 0.83471032 0.932719006 1 9.178774895 -6.486816348 22.56643523 0.889455013 0.969953947 0.170506573 0.084592458 323.490174 202426.7853 0.016706054 0.025508834 3.26E-07 6.486816348 0.080498934 RS(ph)SGFISELPSEEGK ddPTM_HeLa_SAHA_4h_R1 1 RSSGFISELPSEEGK 15 1 Q5VZK9;Q5VZK9-2;A0A0U1RQQ1 Q5VZK9 LRRC16A Leucine-rich repeat-containing protein 16A 1 0 RS(0.5)S(0.5)GFISELPSEEGK 99.796 0.0023776 46388000 4418.3 5067.4 4659.2 4950.9 6113.6 5727.5 6018.6 6375.1 4696.7 4526.9 TRUE FALSE FALSE 4883.037066 5231.587085 5294.131512 5046.731829 5645.177289 5239.484778 5341.371288 6212.034173 4664.015282 4722.076813 1.03408675 1.107899615 1.121144725 1.068752591 1.19548612 1.109572119 1.131148751 1.315530098 0.987704238 1 12.20520579 -1 0.181853101 0.979317581 2.149459224 0.737918926 0.047077409 19.97937266 0.218163669 0.055817756 6.51942707 0.1 1 1.170141643 RS(ph)SIGLR ddPTM_HeLa_SAHA_4h_R1 2 RSSIGLR 7 1 Q96GN5-5;Q96GN5-2;Q96GN5;C9IZR6;Q96GN5-4;C9J8L0 Q96GN5-5 CDCA7L Cell division cycle-associated 7-like protein 1 0 RS(1)SIGLR;RS(0.998)S(0.002)IGLR ; 119.21 0.0021154 12019000 2915.5 2930.8 2902.1 3540.5 4148.5 4391.2 4727.2 4819.3 3257.2 3020.6 TRUE FALSE FALSE 3222.165667 3025.759843 3297.583075 3609.031497 3830.642826 4017.045056 4195.283015 4696.029284 3234.53288 3150.832848 1.022639353 0.960304779 1.046575059 1.14542144 1.215755646 1.274915316 1.331483838 1.490408889 1.026564415 1 11.62151751 -4.988887565 0.597073738 1.001266495 1.569331258 0.957148431 0.033975607 0.24753727 0.098224347 0.006779828 0.082072891 1.03E-05 4.988887565 0.568064763 RS(ph)SITEPEGPNGPNIQK ddPTM_HeLa_SAHA_4h_R1 1 RSSITEPEGPNGPNIQK 17 1 Q13625-2;Q13625;Q13625-3 Q13625-2 TP53BP2 Apoptosis-stimulating of p53 protein 2 1 0 RS(0.481)S(0.481)IT(0.039)EPEGPNGPNIQK 170.98 4.21E-09 11988000 1967.8 1742.9 1823 2046 2381.6 2255.2 2375.9 1813.9 1983.3 2215.3 TRUE FALSE FALSE 2174.782233 1799.371104 2071.428946 2085.603289 2199.122323 2063.044273 2108.557479 1767.503064 1969.498054 2310.812424 0.941133174 0.778674671 0.896407222 0.902541144 0.951666305 0.892778769 0.912474529 0.764883833 0.852296808 1 11.17418444 -13.52287873 0.094220887 1.427170839 0.786815246 0 0.076177324 100.6209005 0.713727753 8.359907986 0.642073463 3.00E-14 13.52287873 -0.640355593 RS(ph)SLLNAK ddPTM_HeLa_SAHA_4h_R1 3 RSSLLNAK 8 1 E9PCH4;Q8TEU7;Q8TEU7-4;A0A5F9ZHG7;B7Z7Y1;Q8TEU7-2;Q8TEU7-5;Q8TEU7-3;D6RE77 E9PCH4 RAPGEF6 Rap guanine nucleotide exchange factor 6 1 0 RS(0.694)S(0.306)LLNAK;RS(0.682)S(0.318)LLNAK;RS(0.933)S(0.067)LLNAK ;; 96.171 0.0071795 57940100 8956.7 8149.4 7380.1 8534.6 9923.2 10787.2 11047.4 10092.7 8568.8 9669.8 TRUE FALSE FALSE 9898.806801 8413.445907 8385.821594 8699.799524 9162.88656 9868.069873 9804.317477 9834.543348 8509.169023 10086.7124 0.981370977 0.834111807 0.831373123 0.862500999 0.908411601 0.978323708 0.972003274 0.974999877 0.843601828 1 13.30016841 -7.462045349 13.79243573 0.991786048 0.909035648 0 0.069967128 2.192940047 496.5521784 0.009989983 0.01140213 3.45E-08 7.462045349 -0.0827504 RS(ph)SPDDGNDVSPYSLSPVSNK ddPTM_HeLa_SAHA_4h_R1 1 RSSPDDGNDVSPYSLSPVSNK 21 1 K7EQT1;Q9UM11-2;Q9UM11 K7EQT1 FZR1 Fizzy-related protein homolog 1 0 RS(0.875)S(0.124)PDDGNDVS(0.001)PYSLSPVSNK 78.429 0.0016609 0 1557.6 1455.5 1371.5 1255.4 1563.3 1188.6 1467.1 1453.2 1496.8 1349.8 TRUE FALSE FALSE 1721.435515 1502.659155 1558.400878 1279.700082 1443.520292 1087.324593 1302.018047 1416.029248 1486.383647 1407.996484 1.222613504 1.067232179 1.106821569 0.908880169 1.02523004 0.772249509 0.924731036 1.005705103 1.05567284 1 10.45942802 -6.263972866 24.35250805 1.10446447 0.924033226 0.487537227 0.082960192 114.8319145 1103796.518 0.015530479 0.02442555 5.45E-07 6.263972866 -0.180431244 RS(ph)SPETGTTGDVAWQISPK ddPTM_HeLa_SAHA_4h_R1 3 RSSPETGTTGDVAWQISPK 19 1 E9PDC2;A0A088AWP5;Q8WUY3-4;Q8WUY3;Q8WUY3-2;Q8WUY3-3;H7BZH9 E9PDC2 PRUNE2 Protein prune homolog 2 1 0 RS(0.637)S(0.36)PETGTT(0.002)GDVAWQISPK;RS(0.416)S(0.29)PET(0.108)GT(0.108)T(0.077)GDVAWQISPK;RS(0.344)S(0.222)PET(0.145)GT(0.145)T(0.145)GDVAWQISPK ;; 124.25 0.00063462 23923400 5884.9 5837.54 5595.68 5729.86 6459.88 6851.6 7112.2 6730.7 6448.65 6248.01 TRUE FALSE FALSE 6503.900783 6026.680126 6358.230129 5840.769726 5964.92539 6267.805134 6311.916538 6558.53844 6403.77332 6517.392288 0.997929923 0.924707285 0.975578859 0.896182011 0.91523191 0.961704445 0.968472705 1.006313285 0.982566805 1 12.67007912 -7.282624076 22.16185168 0.999022478 0.948528521 0.295768316 0.030547319 146.1903302 152932.8248 0.005214486 0.005967433 5.22E-08 7.282624076 -0.050493957 RS(ph)SPPGHYYQK ddPTM_HeLa_SAHA_4h_R1 2 RSSPPGHYYQK 11 1 D6RI08;D6RDK1;D6RIV2;D6R9T5;D6RG39;D6RIT9;D6RDK6;D6RBN5;Q9NX40-3;Q9NX40-2;Q9NX40-4;Q9NX40 D6RI08 OCIAD1 OCIA domain-containing protein 1 1 0 RS(0.555)S(0.443)PPGHY(0.001)Y(0.001)QK;RS(0.884)S(0.116)PPGHYYQK ; 83.633 0.010897 25722000 8110.4 13081.6 7520.1 9007.5 14300.9 13593.6 13994.2 10269.9 8509.8 10360.1 TRUE FALSE FALSE 8963.489084 13505.45242 8544.900065 9181.853188 13205.16813 12435.3488 12419.53579 10007.21083 8450.579609 10806.77461 0.829432408 1.24972093 0.790698462 0.849638631 1.221934259 1.150699376 1.149236126 0.926012727 0.781970561 1 13.39964838 -5.765945611 24.99658027 0.93000785 1.117398785 0.295772634 0.146523391 110.1211144 610858.328 0.020650309 0.038360734 1.71E-06 5.765945611 0.187390935 RS(ph)SPPPPPSGSSSR ddPTM_HeLa_SAHA_4h_R1 2 RSSPPPPPSGSSSR 14 1 Q5VUA4;Q5VUA4-2 Q5VUA4 ZNF318 Zinc finger protein 318 1 0 RS(0.76)S(0.24)PPPPPSGSSSR;RS(0.905)S(0.095)PPPPPSGSSSR ; 91.932 0.0042231 6837200 127.69 70.586 0 211.47 60.7 151.03 246.209 366.31 248.533 113.81 TRUE FALSE FALSE 141.1210201 72.87303271 0 215.5633076 56.04917911 138.1613943 218.5049153 356.9403206 246.8034386 118.7169061 1.188718816 0.613838712 0 1.81577599 0.472124662 1.163788705 1.840554328 3.006651137 2.078924113 1 6.891381589 -4.391114348 1.872946189 0.985573514 3.344403778 0.529093988 0.575836497 0.279618723 1.228012474 0.063216075 1.044241357 4.06E-05 4.391114348 2.358830264 RS(ph)SPSARPPDVPGQQPQAAK ddPTM_HeLa_SAHA_4h_R1 1 RSSPSARPPDVPGQQPQAAK 20 2 A0A0A6YYC7;Q96JP5-2;Q96JP5 A0A0A6YYC7 ZFP91-CNTF;ZFP91 E3 ubiquitin-protein ligase ZFP91 1 0 RS(0.458)S(0.458)PS(0.084)ARPPDVPGQQPQAAK 61.477 0.0057394 21329000 4439.3 3751.4 4016.8 3934.1 4233.9 4465.6 4300.3 4144.3 4405.8 4228.2 TRUE FALSE FALSE 4906.245942 3872.947821 4564.188585 4010.250194 3909.499497 4085.105757 3816.418926 4038.294807 4375.139679 4410.498394 1.112401707 0.87812022 1.034846445 0.909251027 0.886407645 0.926223159 0.865303325 0.915609631 0.991983057 1 12.10672598 -6.679710271 1.157282347 1.049400801 0.898273198 0.37381482 0.060050582 0.269027945 0.722069318 0.011739705 0.018635127 2.09E-07 6.679710271 -0.151127602 RS(ph)STVAPAQPDGAESEWTDVETR ddPTM_HeLa_SAHA_4h_R1 2 RSSTVAPAQPDGAESEWTDVETR 23 1 Q02241-2;H7BYN4;Q02241-3;Q02241;A0A2U3TZL8 Q02241-2 KIF23 Kinesin-like protein KIF23;Kinesin-like protein 1 0 RS(0.933)S(0.051)T(0.016)VAPAQPDGAESEWTDVETR;RS(0.79)S(0.105)T(0.105)VAPAQPDGAESEWTDVETR ; 182.56 1.15E-11 20277000 1143.32 1051.59 871.86 970.04 1252.29 1355.02 1429.12 1743.45 1018.63 1204.86 TRUE FALSE FALSE 1263.579643 1085.662206 990.6725403 988.8165269 1156.339811 1239.564673 1268.311656 1698.855073 1011.541271 1256.807411 1.005388441 0.863825433 0.788245304 0.786768536 0.92006126 0.986280525 1.009153547 1.351722673 0.804849862 1 10.29554788 -4.204631536 2.473845033 0.955202028 1.477014966 0.62978849 0.09695913 0.382429491 2.516120675 0.014595812 0.44455996 6.24E-05 4.204631536 0.521812938 RS(ph)TQGVTLTDLQEAEK ddPTM_HeLa_SAHA_4h_R1 1 RSTQGVTLTDLQEAEK 16 1 O14974-5;O14974-4;O14974-3;O14974-2;O14974;H0YIS4;H0YHI8;A0A3B3ISH4;F8VZN8 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 RS(0.774)T(0.225)QGVTLTDLQEAEK 160.52 2.22E-06 10661000 2806.9 3614.7 3497.4 2249.3 3465.8 3738.8 3792.8 2672.3 1633.8 3151 TRUE FALSE FALSE 3102.142621 3731.818652 3974.007458 2292.838454 3200.251153 3420.233206 3366.024162 2603.946435 1622.430253 3286.855031 0.94380269 1.13537671 1.209060765 0.697578212 0.973651446 1.040579269 1.024086591 0.792230388 0.493611747 1 11.68249211 -6.270496147 24.99769892 1.003571299 0.923483052 0 0.204414314 1362.557042 3760808.276 0.019851742 0.03059685 5.36E-07 6.270496147 -0.080088247 RS(ph)WGDGS(ph)IMASMQT(ph)TGR ddPTM_HeLa_SAHA_4h_R1 1 RSWGDGSIMASMQTTGR 17 1 X6REH9 X6REH9 UBE2W 3 0 RS(0.997)WGDGS(0.997)IMAS(0.023)MQT(0.522)T(0.461)GR 52.898 0.014689 1456700 347.03 357.91 458.8 401.79 328.05 400.48 415.84 407.28 419.5 442.62 TRUE FALSE FALSE 383.5322076 369.5065188 521.3228747 409.5672264 302.9148799 366.356851 369.0485888 396.8623673 416.5806653 461.7035143 0.830689383 0.800311255 1.129129102 0.887078425 0.656080949 0.793489414 0.799319428 0.859561071 0.902268777 1 8.850822904 -5.981704324 24.79901932 0.925157583 0.778832494 0.363157252 0.097190584 213.9900639 290052.7811 0.015696045 0.028447982 1.04E-06 5.981704324 -0.146325089 RS(ph)YDVPPPPMEPDHPFYSNISK ddPTM_HeLa_SAHA_4h_R1 3 RSYDVPPPPMEPDHPFYSNISK 22 1 P18669;Q8N0Y7 P18669 PGAM1;PGAM4 Phosphoglycerate mutase 1;Probable phosphoglycerate mutase 4 1 0 RS(0.578)Y(0.422)DVPPPPMEPDHPFYSNISK;RS(0.564)Y(0.436)DVPPPPMEPDHPFYSNISK;RS(0.559)Y(0.441)DVPPPPMEPDHPFYSNISK ;; 125.23 3.77E-06 33251800 4614.15 5382.9 3714.27 5048.8 5668.6 5845.8 5701.1 5120.1 5180.5 5239.3 TRUE FALSE FALSE 5099.487467 5557.309492 4220.431373 5146.526825 5234.273093 5347.704952 5059.597224 4989.135256 5144.448479 5465.191864 0.933084802 1.016855333 0.772238464 0.941691884 0.957747362 0.978502692 0.925785837 0.912892974 0.941311597 1 12.41605643 -9.003475759 0.628075089 1.004699353 0.928449016 0.034170644 0.062463879 1.336403434 0.890573864 0.054871335 0.013597001 9.92E-10 9.003475759 -0.076250337 RS(ph)YSSPDITQAIQEEEKR ddPTM_HeLa_SAHA_4h_R1 1 RSYSSPDITQAIQEEEKR 18 2 P40818-2;P40818 P40818-2 USP8 Ubiquitin carboxyl-terminal hydrolase 8 1 0 RS(0.743)YS(0.242)S(0.014)PDITQAIQEEEKR 140.84 9.54E-05 9212600 786.94 1126.5 844.48 1140.2 713.54 1302.2 1077.8 1087.9 946.33 960.23 TRUE FALSE FALSE 869.7139598 1162.999339 959.5613365 1162.27022 658.8687194 1191.245234 956.5231074 1060.073093 939.7444125 1001.630215 0.868298447 1.161106486 0.957999592 1.160378554 0.65779637 1.189306409 0.954966307 1.058347759 0.938214921 1 9.968134272 RSAS(ph)PDDDLGSSNWEAADLGNEER ddPTM_HeLa_SAHA_4h_R1 2 RSASPDDDLGSSNWEAADLGNEER 24 1 O00193;E9PM92;E9PQA1 O00193 SMAP;C11orf58 Small acidic protein 1 0 RS(0.278)AS(0.721)PDDDLGSSNWEAADLGNEER;RS(0.289)AS(0.706)PDDDLGS(0.005)SNWEAADLGNEER ; 118.01 2.14E-06 265891000 1319.01 1330.34 948.95 1344.74 1241.5 1605.03 1156.76 1538.84 1465.3 1138.24 TRUE FALSE FALSE 1457.749524 1373.443889 1078.267964 1370.769387 1146.376538 1468.272414 1026.59832 1499.478701 1455.102858 1187.315097 1.22776972 1.156764445 0.908156535 1.154511882 0.965520056 1.236632481 0.86463848 1.262915552 1.225540602 1 10.21348714 RSASPDDDLGS(ph)SNWEAADLGNEERK ddPTM_HeLa_SAHA_4h_R1 2 RSASPDDDLGSSNWEAADLGNEERK 25 2 O00193;E9PM92;E9PQA1 O00193 SMAP;C11orf58 Small acidic protein 1 0 RS(0.001)AS(0.002)PDDDLGS(0.887)S(0.109)NWEAADLGNEERK;RSAS(0.007)PDDDLGS(0.784)S(0.208)NWEAADLGNEERK ; 154.42 6.92E-10 21616400 1462.63 1327.61 1357.35 1466.86 1396.88 1787.05 1600.76 1781.26 1134.13 1645.67 TRUE FALSE FALSE 1616.476134 1370.625435 1542.322589 1495.253196 1289.851356 1634.783286 1420.638272 1735.697948 1126.237497 1716.622887 0.941660598 0.798442946 0.898463256 0.871043493 0.751388884 0.95232523 0.82757738 1.011111969 0.656077409 1 10.74535742 -7.558929844 2.964217149 0.977368559 0.870284437 0 0.123752159 0.201449401 3.682438373 0.012272866 0.013121685 2.76E-08 7.558929844 -0.107084122 RSASPDDDLGSS(ph)NWEAADLGNEERK ddPTM_HeLa_SAHA_4h_R1 1 RSASPDDDLGSSNWEAADLGNEERK 25 2 O00193;E9PM92;E9PQA1 O00193 SMAP;C11orf58 Small acidic protein 1 0 RSAS(0.001)PDDDLGS(0.252)S(0.746)NWEAADLGNEERK 70.391 0.00075404 11056000 1061.1 1063 1072.7 1150.6 1126 1136.4 1214.6 1050.1 1051.6 1051.8 TRUE FALSE FALSE 1172.711367 1097.441897 1218.88197 1172.871527 1039.726123 1039.572327 1077.930011 1023.239963 1044.28183 1097.148245 1.068872298 1.00026765 1.110954672 1.069018277 0.947662385 0.947522207 0.982483466 0.932636011 0.951814702 1 10.09954276 -5.751838448 24.99549015 1.039409281 0.954351257 0.449417644 0.043561255 122.4262037 318727.4656 0.005660249 0.011205858 1.77E-06 5.751838448 -0.085058024 RSCFES(ph)SPDPELK ddPTM_HeLa_SAHA_4h_R1 1 RSCFESSPDPELK 13 1 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 RS(0.133)CFES(0.519)S(0.348)PDPELK 84.842 0.0078385 4630000 3993.7 3501.3 3413 3841.8 4296.1 4742.3 4059.8 4575.7 4665 4488.7 TRUE FALSE FALSE 4413.77569 3614.744417 3878.105866 3916.163594 3966.933746 4338.229361 3602.980619 4458.66022 4632.535885 4682.229824 0.942665323 0.772013454 0.828260468 0.836388589 0.847231745 0.926530633 0.769501019 0.952251467 0.989386694 1 12.19298003 -7.457911388 4.823217908 0.975620635 0.846276818 0.54342405 0.055221615 0.117123127 5.093173918 0.009240383 0.010357029 3.48E-08 7.457911388 -0.129343817 RSDLDLGYEPEGSAS(ph)PTPPYLK ddPTM_HeLa_SAHA_4h_R1 1 RSDLDLGYEPEGSASPTPPYLK 22 1 O15169-2;O15169 O15169-2 AXIN1 Axin-1 1 0 RSDLDLGYEPEGS(0.181)AS(0.679)PT(0.137)PPY(0.004)LK 70.897 0.00171 6705700 2199.2 2169.8 1820.7 2158 2286.2 2552.7 2772.9 2036.9 2241.7 2251.5 TRUE FALSE FALSE 2430.521946 2240.102944 2068.815514 2199.771211 2111.03185 2335.195599 2460.885994 1984.799047 2226.099827 2348.573184 1.034892999 0.953814409 0.88088186 0.936641543 0.898857172 0.994303952 1.047821721 0.845108452 0.947852016 1 11.19756883 -7.165155423 5.353787671 1.016383895 0.938823011 0.140835266 0.058380784 0.206485643 9.17306659 0.008942557 0.010982786 6.84E-08 7.165155423 -0.077560885 RSDS(ph)LLSFR ddPTM_HeLa_SAHA_4h_R1 3 RSDSLLSFR 9 1 Q00587-2;Q00587 Q00587-2 CDC42EP1 Cdc42 effector protein 1 1 0 RS(0.068)DS(0.932)LLSFR;RS(0.424)DS(0.576)LLSFR;RS(0.001)DS(0.994)LLS(0.005)FR ;; 114.76 0.005726 97370000 4305.1 4441.8 4029.4 3860.8 4669.7 4417.3 4423.9 3513.19 5060.3 4007.2 TRUE FALSE FALSE 4757.930171 4585.717234 4578.505648 3935.531367 4311.908595 4040.921189 3926.111129 3423.327687 5025.08496 4179.970003 1.138268975 1.097069412 1.09534414 0.941521438 1.031564483 0.966734495 0.939267776 0.818983793 1.202182063 1 12.02927687 -4.080990254 0.615638722 1.067837131 0.62397673 0.635224302 0.064811452 2.085753462 0.463545853 0.011452483 0.686299462 8.30E-05 4.080990254 -0.443860401 RSDS(ph)PEIPFQAAAGPSDGLDASSPGNSFVGLR ddPTM_HeLa_SAHA_4h_R1 4 RSDSPEIPFQAAAGPSDGLDASSPGNSFVGLR 32 1 Q12888;Q12888-3;Q12888-2;A6NNK5 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 RS(0.184)DS(0.816)PEIPFQAAAGPSDGLDASSPGNSFVGLR;RS(0.299)DS(0.701)PEIPFQAAAGPSDGLDASSPGNSFVGLR;RS(0.235)DS(0.765)PEIPFQAAAGPSDGLDASSPGNSFVGLR;RS(0.155)DS(0.845)PEIPFQAAAGPSDGLDASSPGNSFVGLR ;;; 126.39 1.58E-12 463386000 4112.68 3515.5 3644.38 3460.71 4526.27 4386.87 4254.16 4081.38 3562.98 3737.3 TRUE FALSE FALSE 4545.270552 3629.404507 4141.017127 3527.697046 4179.46817 4013.083996 3775.47072 3976.984209 3538.184932 3898.433293 1.165922362 0.930990537 1.062225981 0.904901221 1.072089185 1.029409431 0.968458464 1.020149355 0.907591503 1 11.92867873 -7.253073525 24.99853746 1.078352227 1.000067572 0 0.082528324 773.7760932 2312169.691 0.012532925 0.01520915 5.58E-08 7.253073525 -0.078284655 RSDS(ph)PENKYSDSTGHSK ddPTM_HeLa_SAHA_4h_R1 1 RSDSPENKYSDSTGHSK 17 2 A0A0A0MRT2;Q9BTA9-5;Q9BTA9-2;Q9BTA9;E9PMZ7;C9JMU2;A0A494C0B7;A0A494C0C1;A0A494C0S5;C9JVK6;C9JD58;J3QTA0;Q9BTA9-3 A0A0A0MRT2 WAC WW domain-containing adapter protein with coiled-coil 1 0 RS(0.242)DS(0.749)PENKY(0.004)S(0.005)DSTGHSK 49.223 0.019976 13848000 1399.2 1598.4 758.82 1734.9 2882.9 3866.7 2181.2 2751.4 1564.5 1897.2 TRUE FALSE FALSE 1546.374276 1650.189209 862.2280378 1768.481498 2662.012825 3537.235407 1935.765635 2681.023172 1553.612517 1978.997577 0.781392708 0.833851051 0.435689284 0.893624893 1.345131927 1.787387437 0.978154626 1.354737976 0.785050237 1 10.95055413 -5.767994445 5.775428685 0.849443175 1.371460683 0.595279774 0.230517854 0.098597443 11.14206363 0.034902067 0.066791589 1.71E-06 5.767994445 0.522017508 RSDS(ph)VSASER ddPTM_HeLa_SAHA_4h_R1 2 RSDSVSASER 10 1 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 RS(0.177)DS(0.793)VS(0.03)ASER;RS(0.019)DS(0.845)VS(0.135)ASER ; 129.76 0.0041947 111729000 3438.6 4307.5 3405.7 2689.6 4668.1 5517.5 5607.2 3031.6 2771.2 5800.7 TRUE FALSE FALSE 3800.287725 4447.065826 3869.81106 2741.661097 4310.431186 5047.377959 4976.263099 2954.056062 2751.914994 6050.796565 0.628064038 0.734955436 0.639553986 0.453107466 0.712374171 0.834167519 0.822414544 0.48820945 0.454802102 1 12.56290937 -9.265896973 0.814903634 1.017828126 0.66785136 0 0.205851284 0.466921201 0.511697298 0.106161159 0.023784405 5.42E-10 9.265896973 -0.349976766 RSDSAIS(ph)VR ddPTM_HeLa_SAHA_4h_R1 1 RSDSAISVR 9 1 H3BR17;Q6Q0C0;Q6Q0C0-2 H3BR17 TRAF7 E3 ubiquitin-protein ligase TRAF7 1 0 RS(0.037)DS(0.12)AIS(0.843)VR 89.356 0.0095944 1883700 251.4 325.09 317.84 145.86 216.17 508.56 307.37 257.35 290.96 333.85 TRUE FALSE FALSE 277.8434055 335.6231293 361.15358 148.6833312 199.6071013 465.2278269 272.7839186 250.7673596 288.9351857 348.2439073 0.797841397 0.963758797 1.037070778 0.426951709 0.573181891 1.335925244 0.783312824 0.720091161 0.829692005 1 8.443954302 -9.64782877 0.584570115 1.052792236 0.826863664 0 0.242599793 4.193801861 1.608265801 0.551521581 0.053779702 2.25E-10 9.64782877 -0.225928572 RSEACPCQPDSGS(ph)PLPAEEEK ddPTM_HeLa_SAHA_4h_R1 3 RSEACPCQPDSGSPLPAEEEK 21 1 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;A0A0G2JPP5;Q14160-3 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 RSEACPCQPDS(0.049)GS(0.951)PLPAEEEK;RSEACPCQPDS(0.016)GS(0.984)PLPAEEEK;RSEACPCQPDS(0.053)GS(0.947)PLPAEEEK ;; 137.28 3.28E-06 25323700 2178.16 3040.45 2473.49 2227.18 2352.81 2642.82 3262.98 2174.2 2644.86 2165.72 TRUE FALSE FALSE 2407.268863 3138.962575 2810.564336 2270.290289 2172.538206 2417.636868 2895.820903 2118.587112 2626.454204 2259.094788 1.065590021 1.38947803 1.24411085 1.004955747 0.961685281 1.070179472 1.28185011 0.93780355 1.162613547 1 11.14152909 -7.506205857 15.14492306 1.028924102 1.131712657 5.44E-05 0.143767452 2.97902787 2706.512679 0.024748226 0.026636424 3.12E-08 7.506205857 0.102788554 RSEIVANSS(ph)GEFILKT(ph)YVR ddPTM_HeLa_SAHA_4h_R1 1 RSEIVANSSGEFILKTYVR 19 2 Q9GZR1;Q9GZR1-2;F8W6D9 Q9GZR1 SENP6 Sentrin-specific protease 6 2 0 RSEIVANS(0.001)S(0.999)GEFILKT(0.851)Y(0.149)VR 63.691 0.015472 18802000 754.43 896.27 713.86 804.16 797.36 981.24 1007.5 926.37 831.78 798.19 TRUE FALSE FALSE 833.7844088 925.3097361 811.1411232 819.7256796 736.2664491 897.6328317 894.1334484 902.6747968 825.9915753 832.6038771 1.001417879 1.111344496 0.974222131 0.984532624 0.884293803 1.078103113 1.073900174 1.084158772 0.992058286 1 9.701486466 -5.091745115 24.99997442 0.998540591 1.07831896 0.365157699 0.051643735 49.33728004 13441.41381 0.007109125 0.018124787 8.10E-06 5.091745115 0.079778369 RSEPQPEEGS(ph)PAGGQK ddPTM_HeLa_SAHA_4h_R1 4 RSEPQPEEGSPAGGQK 16 1 F8WE91;Q9Y6K1-3;Q9Y6K1 F8WE91 DNMT3A DNA (cytosine-5)-methyltransferase 3A 1 0 RSEPQPEEGS(1)PAGGQK;RSEPQPEEGS(1)PAGGQK;RSEPQPEEGS(1)PAGGQK;RSEPQPEEGS(1)PAGGQK ;;; 157.88 8.39E-13 8917100 4349.87 4377.74 3561.55 4686.89 4974.86 5343.35 4797.58 5450.9 4978.49 4556.27 TRUE FALSE FALSE 4807.409285 4519.581648 4046.899486 4777.611533 4593.687302 4888.066519 4257.743672 5311.473871 4943.844283 4752.713098 1.011508413 0.950947713 0.851492485 1.005238784 0.966539997 1.02847919 0.895855396 1.117566695 1.040215174 1 12.2145356 -7.274061058 23.70209827 1.00543453 0.96907564 0.066658442 0.069053836 851.4782256 1598977.344 0.010776269 0.012376154 5.32E-08 7.274061058 -0.03635889 RSESLS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 RSESLSPR 8 1 F8VXG7;Q99590-2;Q99590;A0A0A0MTP7 F8VXG7 SCAF11 Protein SCAF11 1 0 RSES(0.005)LS(0.995)PR 93.442 0.0040101 0 461.28 560.49 471.25 472.41 617.11 662.44 553.84 592.61 433.11 422.76 TRUE FALSE FALSE 509.7995468 578.6502438 535.4694958 481.5541787 569.8271651 605.9963852 491.5204656 577.4518943 430.0959522 440.9872525 1.156041459 1.312170001 1.214251643 1.091991154 1.292162442 1.374181185 1.114591097 1.309452577 0.97530246 1 8.784593143 -8.397751861 0.481588089 0.984497872 1.252293442 0.571551131 0.085950645 0.587436861 0.289711787 0.069592459 0.028302548 4.00E-09 8.397751861 0.26779557 RSGGQLPS(ph)LQEET(ph)T(ph)R ddPTM_HeLa_SAHA_4h_R1 2 RSGGQLPSLQEETTR 15 1 Q5VUB5 Q5VUB5 FAM171A1 Protein FAM171A1 3 0 RSGGQLPS(1)LQEET(1)T(1)R;RS(0.003)GGQLPS(0.997)LQEET(1)T(1)R ; 88.951 0.0063228 9283600 2728.3 3222.2 4012.8 3619.2 2209.72 2843 2145.47 2595.2 4027.4 3631.3 TRUE FALSE FALSE 3015.275112 3326.601394 4559.643486 3689.254849 2040.411731 2600.760406 1904.056069 2528.818542 3999.372995 3787.863114 0.796035923 0.878226402 1.203750861 0.97396731 0.538670926 0.686603588 0.502672882 0.667610858 1.05583884 1 11.88716848 -5.76295045 24.99912045 0.928717879 0.598282202 0.700904328 0.120161256 20.78047212 343800.6687 0.019147483 0.036102101 1.73E-06 5.76295045 -0.330435677 RSHS(ph)PSIDGTPK ddPTM_HeLa_SAHA_4h_R1 1 RSHSPSIDGTPK 12 1 A0A0C4DH56;Q9BWT3-2;Q9BWT3 A0A0C4DH56 PAPOLG Poly(A) polymerase gamma 1 0 RS(0.464)HS(0.534)PS(0.002)IDGTPK 76.051 0.013391 5911600 3400.5 3070.9 2540.3 3561.2 3674 1228.7 4167.2 3797.3 3776 3630.6 TRUE FALSE FALSE 3758.180192 3170.399175 2886.478855 3630.132176 3392.498914 1124.007848 3698.295689 3700.170564 3749.722509 3787.132934 0.992354971 0.837150222 0.762180495 0.958543637 0.8957961 0.296796513 0.976542348 0.977037413 0.990121703 1 11.88689035 -7.219376006 3.859335856 0.997104972 0.805494332 0.161735243 0.187381204 0.294149931 9.328169696 0.031524169 0.038101063 6.03E-08 7.219376006 -0.19161064 RSLPSTSSTSSTK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 RSLPSTSSTSSTKR 14 2 A0A590UJA3;S4R3W2;A0A590UJU2;A0A590UK38;A0A590UK73;B1AKN7;B1AKN5;A0A590UK09;B1AKN8;Q12857-2;Q12857-3;Q12857;Q12857-4 A0A590UJA3 NFIA Nuclear factor 1;Nuclear factor 1 A-type 0 1 ; RSLPSTSSTSSTK(1)R;RSLPSTSSTSSTK(1)R 155.06 6.33E-07 2217980 123.29 0 0 136.096 340.82 0 121.58 344.03 116.16 53.046 FALSE TRUE FALSE 136.2582079 0 0 138.7303349 314.7064452 0 107.8994984 335.2302107 115.3516331 55.33307266 2.462509333 0 0 2.507186538 5.687492671 0 1.950000122 6.058405844 2.084677889 1 5.790070134 -4.265625715 5.480501307 1.693124801 6.209425151 0.388278575 1.626422746 0.113190885 12.96479038 0.22288763 1.90755537 5.42E-05 4.265625715 4.51630035 RSLS(ph)PTY(ph)IELMR ddPTM_HeLa_SAHA_4h_R1 1 RSLSPTYIELMR 12 1 A0A0A0MRA3;A0A0A0MTS7;Q8WZ42-3;Q8WZ42-10;Q8WZ42-9;Q8WZ42-5;Q8WZ42-11;Q8WZ42-4;Q8WZ42-7;Q8WZ42-2;Q8WZ42;Q8WZ42-8;Q8WZ42-13;Q8WZ42-12 A0A0A0MRA3 TTN Titin 2 0 RS(0.235)LS(0.527)PT(0.505)Y(0.733)IELMR 54.95 0.02081 3194800 0 0 211.19 68.37 151.55 245.61 110.24 120.75 319.03 234.71 TRUE FALSE FALSE 0 0 239.9698734 69.69340021 139.9382717 224.6826462 97.83550506 117.6613898 316.8098443 244.8294967 0 0 0.980150989 0.284660963 0.571574396 0.917710689 0.399606691 0.480585025 1.294001942 1 7.935633572 -9.629215331 1.475783307 0.997284036 0.399279764 0.386326063 0.328759671 0.412252489 1.624731795 0.238094333 0.055395165 2.35E-10 9.629215331 -0.598004273 RSNS(ph)TTQVSQPR ddPTM_HeLa_SAHA_4h_R1 5 RSNSTTQVSQPR 12 1 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 RS(0.021)NS(0.953)T(0.019)T(0.008)QVSQPR;RS(0.133)NS(0.646)T(0.189)T(0.03)QVS(0.001)QPR;RS(0.004)NS(0.869)T(0.112)T(0.015)QVSQPR;RSNS(0.987)T(0.013)TQVSQPR;RS(0.001)NS(0.858)T(0.134)T(0.007)QVSQPR ;;;; 188 4.18E-07 33482600 837.31 1156.92 1231.08 1201.72 1540.43 1584.53 1497 1147.83 1019.46 1492.41 TRUE FALSE FALSE 925.3821075 1194.404967 1398.845171 1224.981028 1422.402586 1449.51913 1328.55362 1118.470171 1012.365495 1556.755099 0.594430112 0.767240119 0.898564695 0.786881012 0.913697079 0.93111571 0.853412088 0.718462507 0.650304917 1 10.60432629 -5.788300237 24.91699566 0.806741755 0.859613629 0.056266617 0.120533575 818.6015916 759359.0764 0.023893827 0.043319524 1.63E-06 5.788300237 0.052871875 RSNVSS(ph)PATPTASSSSSTTPTR ddPTM_HeLa_SAHA_4h_R1 2 RSNVSSPATPTASSSSSTTPTR 22 1 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 RS(0.009)NVS(0.02)S(0.91)PAT(0.061)PTASSSSSTTPTR;RS(0.205)NVS(0.07)S(0.716)PAT(0.009)PTASSSSSTTPTR ; 117 1.32E-05 3871300 582.35 414.73 439.94 415.11 406.62 401.38 417.85 384.8 313.08 403.57 TRUE FALSE FALSE 643.6042449 428.1675241 499.8927321 423.1450543 375.4648634 367.1801659 370.8324183 374.9573732 310.9012508 420.9698777 1.528860565 1.017097771 1.187478626 1.00516706 0.891904346 0.872224321 0.880900126 0.89069882 0.738535623 1 8.717573195 -6.21431391 1.428286163 1.240495342 0.876596772 0.000159472 0.209184334 0.320017082 1.280618024 0.033710588 0.064813498 6.11E-07 6.21431391 -0.36389857 RSNVSSPATPTASSSS(ph)STTPTR ddPTM_HeLa_SAHA_4h_R1 1 RSNVSSPATPTASSSSSTTPTR 22 1 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 RSNVSSPATPTAS(0.002)S(0.021)S(0.057)S(0.257)S(0.092)T(0.257)T(0.257)PT(0.057)R 117 1.32E-05 2812900 163.75 72.067 211 296.96 240.07 275.8 178.94 195.96 201.6 150.61 TRUE FALSE FALSE 180.9739763 74.40201808 239.7539812 302.7080902 221.6758885 252.3002884 158.8052003 190.9476269 200.1970492 157.1035342 1.151940835 0.473585897 1.526089037 1.926806369 1.411017834 1.605949158 1.010831495 1.215425407 1.274300099 1 7.295571825 RSNVSSPATPTASSSSST(ph)TPTR ddPTM_HeLa_SAHA_4h_R1 1 RSNVSSPATPTASSSSSTTPTR 22 1 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 RSNVSSPATPTASSSS(0.001)S(0.003)T(0.45)T(0.45)PT(0.096)R 123.71 1.85E-05 3329900 497.4 266.97 251.52 270.39 377.42 330.91 477.73 197.67 259.57 337.69 TRUE FALSE FALSE 549.7188142 275.6200032 285.7958357 275.6237894 348.5021611 302.7146064 423.9745631 192.6138876 257.7636312 352.2494685 1.560595156 0.782456832 0.811344974 0.782467581 0.98936178 0.859375623 1.203620164 0.54681101 0.731764429 1 8.46045372 -7.240588759 24.58101907 1.264725502 0.868172444 0.054032614 0.262707155 530.2175989 625079.6639 0.041412694 0.050688822 5.75E-08 7.240588759 -0.396553058 RSPQQTVPYVVPLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 RSPQQTVPYVVPLSPK 16 1 H0Y6S1;B4DRC2;Q9UQR0 H0Y6S1 SCML2 Sex comb on midleg-like protein 2 1 0 RSPQQTVPY(0.001)VVPLS(0.999)PK;RSPQQTVPY(0.001)VVPLS(0.999)PK ; 83.063 0.0057629 5345300 1320.32 1676.77 1234.09 1630.54 1533.97 1906.41 1631.58 1645.86 1617.24 1455.46 TRUE FALSE FALSE 1459.197315 1731.098448 1402.265358 1662.10146 1416.43755 1743.973143 1447.990324 1603.761284 1605.985495 1518.212003 0.961128823 1.140221816 0.923629477 1.094775602 0.932964268 1.148701986 0.953747119 1.056348705 1.057813725 1 10.56815755 RSPS(ph)PLGTSVR ddPTM_HeLa_SAHA_4h_R1 1 RSPSPLGTSVR 11 1 E9PFQ4;Q86SQ0-2;Q86SQ0-3;Q86SQ0;E9PDY7;G5E9V3 E9PFQ4 PHLDB2 Pleckstrin homology-like domain family B member 2 1 0 RS(0.138)PS(0.86)PLGTS(0.002)VR 79.885 0.012634 6212900 248.92 327.84 296.92 169.04 263.13 321.64 366.77 315.31 335.36 268.21 TRUE FALSE FALSE 275.1025477 338.4622311 337.3827113 172.3120136 242.9690362 294.2344625 325.5000743 307.2448268 333.0262025 279.7738457 0.983303307 1.209770807 1.205912263 0.615897505 0.868447998 1.051686807 1.163439969 1.098189954 1.190340726 1 8.12811729 -4.989077041 7.992288891 0.987986191 1.125726311 0.061197631 0.171090758 0.24877154 105.6725022 0.022544124 0.065887785 1.03E-05 4.989077041 0.137740121 RSPS(ph)PSPTPEAK ddPTM_HeLa_SAHA_4h_R1 1 RSPSPSPTPEAK 12 1 F8VXC8;Q8TAQ2-2;Q8TAQ2-3;Q8TAQ2 F8VXC8 SMARCC2 SWI/SNF complex subunit SMARCC2 1 0 RS(0.104)PS(0.857)PS(0.04)PTPEAK 70.134 0.017711 3079600 2109.3 2139.1 1859.5 2304.4 2015.9 2538.4 2647.1 2536.7 2048 2496 TRUE FALSE FALSE 2331.165852 2208.408244 2112.902976 2349.004994 1861.442178 2322.114039 2349.241341 2471.814887 2033.747801 2603.614775 0.895357437 0.848208523 0.811526727 0.90220912 0.714945312 0.891880804 0.902299896 0.949378115 0.781124697 1 11.34630029 -8.469266818 0.744916934 0.9929218 0.858080935 0 0.089719405 0.43529601 0.503134973 0.028583723 0.014049568 3.39E-09 8.469266818 -0.134840865 RSPSAPAATSSASSSTSSYK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 RSPSAPAATSSASSSTSSYKR 21 2 A0A087X0S7;A0A0C4DH00;A0A087WTU1;A0A0B4J2G4;Q15345-3;Q15345 A0A087X0S7 LRRC41 Leucine-rich repeat-containing protein 41 0 1 RSPSAPAATSSASSSTSSYK(1)R 89.659 0.0013572 652280 0 142.54 0 349.04 438.29 691.5 659.27 540.79 41.569 0 FALSE TRUE FALSE 0 147.1583895 0 355.7961739 404.7083149 632.5803097 585.0872045 526.9573749 41.27971794 0 0 RSPSPGNS(ph)PS(ph)GRT(ph)VK ddPTM_HeLa_SAHA_4h_R1 1 RSPSPGNSPSGRTVK 15 2 Q13233 Q13233 MAP3K1 Mitogen-activated protein kinase kinase kinase 1 3 0 RSPSPGNS(1)PS(1)GRT(1)VK 82.515 0.0078917 5735800 2184.4 2710.2 1323.9 2476.6 2975.9 3804.2 2893.2 3095.5 2598.3 3051.4 TRUE FALSE FALSE 2414.165214 2798.012258 1504.314197 2524.538174 2747.887185 3480.060758 2567.649522 3016.321592 2580.218219 3182.960787 0.75846527 0.879059607 0.472614744 0.793141463 0.863311668 1.093340757 0.806685879 0.947646482 0.810634623 1 11.63615367 -5.499786852 24.52341633 0.841898987 0.942196474 0.139920036 0.14639025 1382.994424 1468727.488 0.023954989 0.053207013 3.16E-06 5.499786852 0.100297487 RSPT(ph)DSDVSLDSEDSGAK ddPTM_HeLa_SAHA_4h_R1 2 RSPTDSDVSLDSEDSGAK 18 1 Q8N3V7-2 Q8N3V7-2 SYNPO Synaptopodin 1 0 RS(0.322)PT(0.579)DS(0.098)DVSLDSEDSGAK;RS(0.095)PT(0.905)DS(0.001)DVSLDSEDSGAK ; 165.88 4.17E-06 15976600 5420.9 6129.8 5068.4 5655.7 6709.1 6739.5 6761.4 5989.3 6404.5 6432.1 TRUE FALSE FALSE 5991.095134 6328.409542 5759.095157 5765.174252 6195.050207 6165.256685 6000.589477 5836.102378 6359.930563 6709.419309 0.892937952 0.943212706 0.858359702 0.859265756 0.923336271 0.91889572 0.894353028 0.869837181 0.947910731 1 12.71197219 -9.305916896 0.55917895 1.020346571 0.892515802 0.487501215 0.030608303 0.606642451 0.260404462 0.041358855 0.006430865 4.94E-10 9.305916896 -0.127830769 RSPTDS(ph)DVSLDSEDSGAK ddPTM_HeLa_SAHA_4h_R1 1 RSPTDSDVSLDSEDSGAK 18 1 Q8N3V7-2 Q8N3V7-2 SYNPO Synaptopodin 1 0 RS(0.045)PT(0.045)DS(0.909)DVSLDSEDSGAK 127.96 0.00010651 9588300 1793.3 2185 1550.3 1974.6 1671.1 2297.5 1961.9 1480.6 2037.9 1672.8 TRUE FALSE FALSE 1981.927522 2255.795434 1761.56681 2012.821238 1543.060679 2101.740075 1741.141849 1442.728396 2023.718088 1744.922594 1.135825468 1.292776792 1.009538656 1.153530389 0.884314688 1.204489002 0.997833287 0.826815127 1.159775278 1 10.76894732 -5.779952298 24.99360052 1.085723144 0.995905548 0.211863333 0.123762046 428.9693212 579134.6265 0.018529154 0.033630686 1.66E-06 5.779952298 -0.089817597 RSPTS(ph)SPTPQR ddPTM_HeLa_SAHA_4h_R1 1 RSPTSSPTPQR 11 1 A0A0D9SFB1;A0A0U1RQP1;A0A0D9SFE4;Q05193-5;Q05193-3;Q05193-2;Q05193 A0A0D9SFB1 DNM1 Dynamin-1 1 0 RS(0.008)PT(0.092)S(0.449)S(0.449)PT(0.003)PQR 71.933 0.017527 962380 393.07 439.29 359.22 623.63 574.63 412.76 536.04 875.05 481 558.19 TRUE FALSE FALSE 434.4149061 453.5232842 408.1726309 635.7012604 530.6019735 377.5905259 475.7233684 852.6674881 477.6526818 582.2563026 0.7460888 0.778906612 0.701018828 1.091789402 0.911285925 0.648495386 0.817034296 1.464419508 0.820347809 1 9.185510541 -4.259140573 24.74894157 0.856778094 1.464419753 0.677648573 0.129452464 94.34243645 1015612.668 0.020086017 0.179403068 5.51E-05 4.259140573 0.607641659 RSPVPR ddPTM_HeLa_SAHA_4h_R1 2 RSPVPR 6 1 I3L195;I3L2N6;I3L4Z3;A0A0C4DGC9;Q9HB40-2;Q9HB40;Q8TDR2 I3L195 SCPEP1;STK35 Retinoid-inducible serine carboxypeptidase;Serine/threonine-protein kinase 35 0 0 ; ; 5.8075 0.023737 1754300 1205.7 1110.68 649.69 1318.92 1303.74 1125.67 1434.55 1354.89 1117.15 900.98 FALSE FALSE TRUE 1332.521058 1146.666761 738.2263698 1344.449604 1203.847723 1029.756583 1273.130658 1320.233876 1109.375662 939.8256571 1.417838562 1.220084547 0.785492888 1.430530858 1.280926642 1.095688945 1.354645565 1.404764666 1.180405806 1 9.876249343 -9.591608745 1.387953269 1.000223244 1.262564494 0.067746504 0.191548762 0.545960198 1.889174402 0.132603906 0.030891609 2.56E-10 9.591608745 0.262341249 RSQS(ph)IEQESQEK ddPTM_HeLa_SAHA_4h_R1 4 RSQSIEQESQEK 12 1 A0A0A0MRN0;Q5VTL8 A0A0A0MRN0 PRPF38B Pre-mRNA-splicing factor 38B 1 0 RS(0.016)QS(0.984)IEQESQEK;RS(0.001)QS(0.999)IEQESQEK;RS(0.022)QS(0.978)IEQESQEK;RS(0.026)QS(0.974)IEQESQEK ;;; 147.83 0.00022508 38978300 8055.5 7593.5 7131.3 9191.3 8374.8 9805.3 8510.5 9625.2 9537.2 8482.4 TRUE FALSE FALSE 8902.81445 7839.534382 8103.116426 9369.210902 7733.124633 8969.833277 7552.876142 9379.001321 9470.829849 8848.117776 1.00618173 0.886011532 0.915801149 1.058893105 0.873985273 1.01375609 0.85361388 1.059999602 1.070377914 1 13.11115487 RSQS(ph)YIPTSGCR ddPTM_HeLa_SAHA_4h_R1 2 RSQSYIPTSGCR 12 1 A0A087WZ32;A0A087X038;A8K727;Q9HB19;E5RHB5 A0A087WZ32 PLEKHA2 Pleckstrin homology domain-containing family A member 2 1 0 RS(0.004)QS(0.996)YIPTSGCR;RS(0.138)QS(0.862)YIPTSGCR ; 110.57 0.0015758 30697000 3942.5 3801.8 3943.6 3263.4 3949.1 6723.1 4317.9 3158.1 2339.77 3823 TRUE FALSE FALSE 4357.190239 3924.980814 4481.013271 3326.567826 3646.520811 6150.254057 3832.038528 3077.320375 2323.48735 3987.828239 1.092622344 0.984240188 1.123672586 0.834180317 0.914412706 1.542256509 0.960933696 0.771678265 0.582644791 1 11.96138756 -4.361075386 4.690478751 1.05423428 0.776230064 0.054295312 0.233614216 0.244130715 8.05063898 0.023594607 0.152912766 4.35E-05 4.361075386 -0.278004216 RSRS(ph)ESETSTMAAK ddPTM_HeLa_SAHA_4h_R1 3 RSRSESETSTMAAK 14 2 A0A087WVF1;Q96B23-2;Q96B23 A0A087WVF1 C18orf25 Uncharacterized protein C18orf25 1 0 RS(0.011)RS(0.98)ES(0.006)ET(0.002)S(0.001)TMAAK;RS(0.017)RS(0.951)ES(0.032)ETSTMAAK;RS(0.231)RS(0.75)ES(0.019)ETSTMAAK ;; 101.3 0.0030945 15915600 3028.87 2601.7 2787.12 3177.78 3293.89 2782.38 3486.93 3491.24 2099.72 2550.49 TRUE FALSE FALSE 3347.460444 2685.996787 3166.934199 3239.290527 3041.51286 2545.305571 3094.571459 3401.939136 2085.107878 2660.454106 1.258228975 1.009600873 1.19037355 1.217570534 1.143230719 0.956718466 1.163174156 1.278706191 0.783741344 1 11.3774568 -9.602978175 1.402841534 1.000026265 1.160393302 0.362217842 0.1194035 0.47062938 1.662478578 0.07059414 0.016308668 2.49E-10 9.602978175 0.160367037 RSRS(ph)PLELEPEAK ddPTM_HeLa_SAHA_4h_R1 1 RSRSPLELEPEAK 13 2 A0A087WTQ7;A0A087WV56;A0A087WW71;A0A087X0X5;Q92466-3;Q92466-2;Q92466-5;Q92466-4;Q92466 A0A087WTQ7 DDB2 DNA damage-binding protein 2 1 0 RS(0.027)RS(0.973)PLELEPEAK 89.484 0.0077213 11841000 704.36 817.92 597.99 849.29 765.22 1064.6 931.08 825.98 582.82 629.47 TRUE FALSE FALSE 778.4478165 844.4211447 679.480963 865.729236 706.5890089 973.8900907 826.3124279 804.8526276 578.7641082 656.6095323 1.185556679 1.286032418 1.034832621 1.318484112 1.076117501 1.483210406 1.258453293 1.22577055 0.881443354 1 9.358891884 -13.52287875 0.113375937 0.161148435 1.382603746 0.492807517 0.119973021 66.67745639 0.5522372 12.77535105 0.608372737 3.00E-14 13.52287875 1.22145531 RSS(ph)DGSLSHEEDLAK ddPTM_HeLa_SAHA_4h_R1 1 RSSDGSLSHEEDLAK 15 1 A0A2R8Y7R9;Q13136-2;Q13136;H0YEF9;E9PJZ7 A0A2R8Y7R9 PPFIA1 Liprin-alpha-1 1 0 RS(0.138)S(0.856)DGS(0.004)LS(0.001)HEEDLAK 111.62 0.00098598 10973000 2444.4 3199.4 1645.9 2982.8 4210.1 4393.6 3672.2 4430.8 2900.4 3443.3 TRUE FALSE FALSE 2701.513207 3303.062659 1870.194681 3040.536407 3887.523048 4019.240562 3258.994391 4317.466552 2880.21588 3591.757514 0.752142425 0.919622955 0.520690685 0.846531648 1.082345629 1.119017792 0.907353678 1.20204845 0.801895971 1 11.81047424 -5.762995097 24.5856035 0.850821094 1.068476324 0.457452729 0.139525089 31.40184138 496271.8928 0.022819043 0.043023459 1.73E-06 5.762995097 0.217655229 RSS(ph)DSWEVWGSASTNR ddPTM_HeLa_SAHA_4h_R1 3 RSSDSWEVWGSASTNR 16 1 F8VWH9;Q8N6T3-5;Q8N6T3;Q8N6T3-2;Q8N6T3-4;E5RHH7 F8VWH9 ARFGAP1 ADP-ribosylation factor GTPase-activating protein 1 1 0 RS(0.012)S(0.985)DS(0.002)WEVWGSASTNR;RS(0.241)S(0.758)DS(0.001)WEVWGSASTNR;RSS(0.99)DS(0.01)WEVWGSASTNR ;; 202.79 8.27E-15 30118800 3495.7 3909.3 4371.9 4861.1 5245.1 5479.7 5859.9 4379.6 5043.6 4953.5 TRUE FALSE FALSE 3863.393765 4035.963885 4967.679764 4955.19362 4843.221571 5012.798732 5200.52863 4267.576174 5008.501177 5167.069627 0.747695317 0.781093381 0.961411423 0.958994939 0.937324619 0.970143446 1.006475431 0.82591807 0.969311726 1 12.33513061 -6.690164961 24.999989 0.870042213 0.947897676 0.139645071 0.082974135 80.33181451 28175.43474 0.016887737 0.023882864 2.04E-07 6.690164961 0.077855463 RSS(ph)FLNAK ddPTM_HeLa_SAHA_4h_R1 1 RSSFLNAK 8 1 A0A2R8Y661;A0A2R8YGD3;Q9Y4G8;H0Y8T6 A0A2R8Y661 RAPGEF2 Rap guanine nucleotide exchange factor 2 1 0 RS(0.005)S(0.995)FLNAK 95.483 0.0074267 8525900 1845.7 2044.9 1581.9 2061.9 2328.5 2054.6 3037.8 2185.5 1817.9 1960.2 TRUE FALSE FALSE 2039.839194 2111.156102 1797.473094 2101.811056 2150.090833 1879.536521 2695.978749 2129.598075 1805.249086 2044.713815 0.997615989 1.032494663 0.87908297 1.027924319 1.051536316 0.919217402 1.318511534 1.041514005 0.882885944 1 10.99768322 -4.773804323 24.99999565 0.994265947 1.180012816 0.461089908 0.086940859 108.684805 219745.2713 0.009564262 0.028987767 1.68E-05 4.773804323 0.18574687 RSS(ph)FSMEEGDVL ddPTM_HeLa_SAHA_4h_R1 2 RSSFSMEEGDVL 12 1 B1AKB5;B0QYS6;B0QYS7;P19484-2;P19484 B1AKB5 TFEB Transcription factor EB 1 0 RS(0.029)S(0.667)FS(0.304)MEEGDVL;RS(0.069)S(0.626)FS(0.305)MEEGDVL ; 146.67 0.0011841 33114000 4229 4218.3 3665.1 4339.3 4975.2 5695.5 5053.9 4663.4 4892.8 4276 TRUE FALSE FALSE 4673.825623 4354.975688 4164.560741 4423.293426 4594.001251 5210.211358 4485.221871 4544.116981 4858.750606 4460.359286 1.047858552 0.976373294 0.933682799 0.991689938 1.029962152 1.168114724 1.005574122 1.018778239 1.089318213 1 12.12294421 -5.513022822 24.82631046 1.009968001 1.065087683 0.173449805 0.05604876 576.9729792 1453348.411 0.007680455 0.016143727 3.07E-06 5.513022822 0.055119682 RSS(ph)GFISELPSEEGK ddPTM_HeLa_SAHA_4h_R1 1 RSSGFISELPSEEGK 15 1 Q5VZK9;Q5VZK9-2;A0A0U1RQQ1 Q5VZK9 LRRC16A Leucine-rich repeat-containing protein 16A 1 0 RS(0.033)S(0.967)GFISELPSEEGK 172.56 1.63E-06 38060000 1894.1 2144.3 1993.6 1974.7 2197.8 2496.7 2627.6 2217.8 1986.5 1926.3 TRUE FALSE FALSE 2093.330128 2213.776727 2265.277426 2012.923174 2029.405039 2283.967114 2331.935533 2161.071887 1972.675785 2009.35222 1.041793523 1.101736522 1.127367021 1.001777167 1.009979743 1.136668371 1.160540949 1.075506756 0.981747135 1 10.97251476 -1 0.052246975 0.834391556 1.517917955 0.384256526 0.048572686 326.5363848 1.298414582 3.929654154 17.83291131 0.1 1 0.683526398 RSS(ph)ITEPEGPNGPNIQK ddPTM_HeLa_SAHA_4h_R1 1 RSSITEPEGPNGPNIQK 17 1 Q13625-2;Q13625;Q13625-3 Q13625-2 TP53BP2 Apoptosis-stimulating of p53 protein 2 1 0 RS(0.053)S(0.93)IT(0.017)EPEGPNGPNIQK 97.352 0.0088862 7301400 723.97 851.27 636.21 728.19 871.1 733.6 765.45 770.95 749.4 722.46 TRUE FALSE FALSE 800.1204863 878.8517065 722.9093856 742.2851704 804.3565062 671.0931529 679.3195514 751.2302153 744.1848644 753.6087862 1.061718628 1.166190897 0.959263478 0.984974146 1.067339608 0.890506009 0.901422016 0.996843759 0.987494942 1 9.557671975 -5.262307431 24.99702482 1.03374362 0.926773735 0.371407994 0.061257463 60.47550015 1741527.095 0.0086655 0.020492112 5.47E-06 5.262307431 -0.106969885 RSS(ph)PPPPPSGSSSR ddPTM_HeLa_SAHA_4h_R1 2 RSSPPPPPSGSSSR 14 1 Q5VUA4;Q5VUA4-2 Q5VUA4 ZNF318 Zinc finger protein 318 1 0 RS(0.27)S(0.73)PPPPPSGSSSR;RS(0.09)S(0.91)PPPPPSGSSSR ; 118.71 0.00051735 37485000 173.62 0 112.756 220.598 367.29 318.66 54.642 0 291.21 121.07 TRUE FALSE FALSE 191.8821482 0 128.1218005 224.8679933 339.1483195 291.5083753 48.49353835 0 289.1834459 126.2899202 1.519378173 0 1.014505356 1.780569605 2.685474177 2.308247363 0.383985818 0 2.289837902 1 6.980595685 -9.704418573 1.574918658 0.999119492 1.287965864 0 0.955498199 2.248469889 10.00945298 0.672446227 0.146092579 1.98E-10 9.704418573 0.288846373 RSS(ph)PPPPPSGSSSRT(ph)PAR ddPTM_HeLa_SAHA_4h_R1 1 RSSPPPPPSGSSSRTPAR 18 2 Q5VUA4;Q5VUA4-2 Q5VUA4 ZNF318 Zinc finger protein 318 2 0 RS(0.455)S(0.545)PPPPPS(0.164)GS(0.079)S(0.258)S(0.215)RT(0.284)PAR 71.071 0.013147 700060 166.06 72.28 171.43 195.27 199.04 0 179.4 168.79 231.42 239.06 TRUE FALSE FALSE 183.5269527 74.62191942 194.7915876 199.0497332 183.7895982 0 159.2134398 164.4725962 229.8095294 249.3670465 0.735971153 0.299245311 0.781144062 0.798219877 0.737024401 0 0.638470247 0.659560269 0.921571365 1 7.962127018 -8.406919667 0.346903723 1.087868581 0.503005191 0.294804623 0.236870034 1.519713115 0.396914245 0.356601982 0.135951123 3.92E-09 8.406919667 -0.58486339 RSS(ph)PSARPPDVPGQQPQAAK ddPTM_HeLa_SAHA_4h_R1 2 RSSPSARPPDVPGQQPQAAK 20 2 A0A0A6YYC7;Q96JP5-2;Q96JP5 A0A0A6YYC7 ZFP91-CNTF;ZFP91 E3 ubiquitin-protein ligase ZFP91 1 0 RS(0.215)S(0.741)PS(0.044)ARPPDVPGQQPQAAK;RS(0.393)S(0.592)PS(0.015)ARPPDVPGQQPQAAK ; 90.378 0.0008845 31741000 3236.7 3930.7 3393.2 4090.1 3543.4 3896.5 3659.9 4001 4252.4 3883.6 TRUE FALSE FALSE 3577.150957 4058.057259 3855.607625 4169.2698 3271.905458 3564.496279 3248.07842 3898.660213 4222.807202 4051.041002 0.88302018 1.001731964 0.951757245 1.029184794 0.807670289 0.879896372 0.801788582 0.962384782 1.042400509 1 11.98407697 -5.752792864 24.99916953 0.95408072 0.859778937 0.428576359 0.063155457 166.1670022 480425.1813 0.009041425 0.017858975 1.77E-06 5.752792864 -0.094301782 RSS(ph)TSSEPTPTVK ddPTM_HeLa_SAHA_4h_R1 3 RSSTSSEPTPTVK 13 1 F8WAN1;Q69YQ0-2;Q69YQ0;A0A494C1J1 F8WAN1 SPECC1L-ADORA2A;SPECC1L Cytospin-A 1 0 RS(0.107)S(0.87)T(0.023)SSEPTPTVK;RS(0.146)S(0.748)T(0.088)S(0.018)SEPTPTVK;RS(0.001)S(0.611)T(0.138)S(0.248)S(0.002)EPTPTVK ;; 153.79 0.00031224 28417000 7455.5 9035.6 9061.7 10800.9 10705.9 11326.7 12117 12462.2 7961.9 8635.1 TRUE FALSE FALSE 8239.703697 9328.359368 10296.58128 11009.96704 9885.616255 10361.60144 10753.56327 12143.43497 7906.49249 9007.40142 0.914770344 1.035632691 1.143124504 1.222324456 1.097499245 1.15034303 1.193858558 1.348161851 0.877777299 1 13.13689524 -6.808008295 2.450877943 0.959951651 1.192778929 0.748390987 0.068697424 0.111466487 1.373010446 0.011266848 0.015681065 1.56E-07 6.808008295 0.232827278 RSSAWAEGGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 RSSAWAEGGSPR 12 1 Q8N9B5-2;Q8N9B5 Q8N9B5-2 JMY Junction-mediating and -regulatory protein 1 0 RS(0.011)S(0.001)AWAEGGS(0.988)PR;RS(0.001)SAWAEGGS(0.999)PR ; 111.31 0.0073727 7118800 3193.7 2356.6 3124.4 2990.6 3050.3 2960.6 3713.7 3250.9 2359.4 3020.1 TRUE FALSE FALSE 3529.628019 2432.955386 3550.176961 3048.487387 2816.586673 2708.340224 3295.824702 3167.746685 2342.980743 3150.311291 1.12040611 0.77229047 1.126928939 0.967678145 0.894066145 0.859705589 1.046190169 1.005534499 0.743729913 1 11.62127868 RSSPS(ph)ARPPDVPGQQPQAAK ddPTM_HeLa_SAHA_4h_R1 1 RSSPSARPPDVPGQQPQAAK 20 2 A0A0A6YYC7;Q96JP5-2;Q96JP5 A0A0A6YYC7 ZFP91-CNTF;ZFP91 E3 ubiquitin-protein ligase ZFP91 1 0 RS(0.035)S(0.189)PS(0.776)ARPPDVPGQQPQAAK 66.893 0.0067608 19096000 1150.4 978.94 1126.5 1067.1 896.06 1038 1128 1023.2 1459.8 1172.9 TRUE FALSE FALSE 1271.40435 1010.658298 1280.013553 1087.755264 827.4040764 949.5565604 1001.074471 997.0280256 1449.641133 1223.469459 1.039179475 0.826059278 1.046216188 0.889074309 0.676276854 0.776117911 0.818225959 0.814918606 1.184860907 1 10.25676237 -6.009621134 4.962730176 1.002528411 0.774712583 0.624974871 0.090066327 0.076552642 5.391623193 0.01050574 0.018511034 9.78E-07 6.009621134 -0.227815829 RSSQPS(ph)PT(ph)AVPASDSPPTKQEVK ddPTM_HeLa_SAHA_4h_R1 1 RSSQPSPTAVPASDSPPTKQEVK 23 2 Q3KQU3-4;Q3KQU3;Q3KQU3-2;C9JIR3;E9PLH3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 2 0 RS(0.189)S(0.102)QPS(0.758)PT(0.61)AVPAS(0.027)DS(0.155)PPT(0.16)KQEVK 64.538 0.0040473 7548400 2058.7 1667.3 1445.2 1784.4 1900.8 2006.9 1963.9 2144.2 1458.8 1860.6 TRUE FALSE FALSE 2275.243512 1721.321614 1642.14433 1818.939642 1755.161115 1835.900829 1742.916803 2089.354469 1448.648092 1940.819572 1.17231068 0.886904501 0.846108703 0.937201824 0.904340177 0.945941012 0.898031341 1.076532048 0.746410492 1 10.92245029 -7.2488909 24.76994925 1.081368933 0.923723145 0 0.126305077 459.1297802 906295.5204 0.013760568 0.016790535 5.64E-08 7.2488909 -0.157645788 RSSRNPVFQDSWDT(ph)ETVPVMRNS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 RSSRNPVFQDSWDTETVPVMRNSK 24 3 Q969W3-2;J3KT52 Q969W3-2 FAM104A Protein FAM104A 2 0 RS(0.001)S(0.002)RNPVFQDS(0.012)WDT(0.839)ET(0.148)VPVMRNS(0.998)K 61.181 0.0028312 8814800 191.65 112.41 0 148.49 317.35 214.87 194.93 67.167 55.129 133.57 TRUE FALSE FALSE 211.8086263 116.0521578 0 151.3642387 293.0347116 196.5618672 172.9959634 65.4489654 54.7453528 139.3288564 1.520206451 0.832936986 0 1.086381117 2.103187518 1.410776434 1.241637719 0.46974451 0.392921856 1 7.122350275 -4.259140772 23.20306882 1.197029305 0.469743785 0.048000163 0.568888276 121.4760512 1225984.341 0.074525361 0.657869397 5.51E-05 4.259140772 -0.72728552 RSSSSGDQSSDSLNS(ph)PTLLAL ddPTM_HeLa_SAHA_4h_R1 1 RSSSSGDQSSDSLNSPTLLAL 21 1 P15408;P15408-3;P15408-2 P15408 FOSL2 Fos-related antigen 2 1 0 RSSSSGDQSSDSLNS(0.823)PT(0.177)LLAL 64.104 0.018747 3079800 615.83 574.2 442.78 529.92 433.09 613.59 572.04 636.84 526.27 433.62 TRUE FALSE FALSE 680.6058249 592.8044567 503.1197525 540.1773679 399.9067378 561.30868 507.6725537 620.5505549 522.6076442 452.3154803 1.504714861 1.310599532 1.112320437 1.194249128 0.884132326 1.240967211 1.12238598 1.37194189 1.15540517 1 8.821185562 -6.752494469 24.93547328 1.250416653 1.146351158 0.062286752 0.165122375 502.2028112 1399972.584 0.034428695 0.04827898 1.77E-07 6.752494469 -0.104065495 RST(ph)GVVNIPAAECLDEYEDDEAGQKER ddPTM_HeLa_SAHA_4h_R1 1 RSTGVVNIPAAECLDEYEDDEAGQKER 27 2 Q96IZ0;H0YI16 Q96IZ0 PAWR PRKC apoptosis WT1 regulator protein 1 0 RS(0.269)T(0.731)GVVNIPAAECLDEYEDDEAGQKER 92.392 5.60E-05 4934200 161.05 460.66 272.65 339.47 358.89 411.07 672.14 585.84 393.68 354.99 TRUE FALSE FALSE 177.9899779 475.5856863 309.8053221 346.0409327 331.3919257 376.0445234 596.5090382 570.8550611 390.9403488 370.2953562 0.480670295 1.284341481 0.836643822 0.93449979 0.894939459 1.015525896 1.610900672 1.541620902 1.055752772 1 8.532532647 -4.87099597 2.723721672 0.819220364 1.598762729 0.558549903 0.212154132 0.139558198 2.040725027 0.035323197 0.139619926 1.35E-05 4.87099597 0.779542364 RST(ph)QGVTLTDLQEAEK ddPTM_HeLa_SAHA_4h_R1 3 RSTQGVTLTDLQEAEK 16 1 O14974-5;O14974-4;O14974-3;O14974-2;O14974;H0YIS4;H0YHI8;A0A3B3ISH4;F8VZN8 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 RS(0.037)T(0.963)QGVTLTDLQEAEK;RS(0.013)T(0.987)QGVTLTDLQEAEK;RS(0.04)T(0.96)QGVTLTDLQEAEK ;; 221.51 8.74E-21 42418000 7812.4 9953.4 10043 5557.7 10202.5 12450.4 10618.5 8522.5 4043.44 8706.9 TRUE FALSE FALSE 8634.144077 10275.89669 11411.60774 5665.27732 9420.786654 11389.55588 9423.678434 8304.50679 4015.301372 9082.29707 0.950656427 1.131420456 1.256467131 0.623771418 1.03726916 1.254039126 1.037587558 0.914361942 0.442101964 1 13.14884151 RSTAPSAAASASASAAAS(ph)SPAGGGAEALELLEHCGVCR ddPTM_HeLa_SAHA_4h_R1 2 RSTAPSAAASASASAAASSPAGGGAEALELLEHCGVCR 38 1 Q13263;Q13263-2 Q13263 TRIM28 Transcription intermediary factor 1-beta 1 0 RSTAPSAAASASAS(0.001)AAAS(0.499)S(0.499)PAGGGAEALELLEHCGVCR;RSTAPSAAASASAS(0.002)AAAS(0.499)S(0.499)PAGGGAEALELLEHCGVCR ; 121.88 1.24E-17 35387000 1424.16 1126.74 1236.87 1299.51 1433.93 1301.92 1599.54 1572.21 1051.32 1559.4 TRUE FALSE FALSE 1573.959683 1163.247115 1405.424202 1324.663895 1324.062593 1190.989092 1419.555549 1531.995145 1044.003779 1626.633366 0.967617975 0.715125572 0.864007976 0.81435923 0.81398957 0.732180414 0.872695458 0.941819575 0.641818741 1 10.6676734 -7.394850886 7.092498504 0.985779109 0.821719505 0 0.125248016 0.12378651 6.629609623 0.01045181 0.01191157 4.03E-08 7.394850886 -0.164059603 RSTVNEK(ac)PK ddPTM_HeLa_SAHA_4h_R1 1 RSTVNEKPK 9 2 A0A590UJS4;Q6KC79-2;Q6KC79-3;Q6KC79 A0A590UJS4;Q6KC79 NIPBL Nipped-B-like protein 0 1 RSTVNEK(1)PK 79.201 0.020907 1170300 292.94 299.68 126.42 309.11 301.4 274.22 154.19 154.58 68.717 158.02 FALSE TRUE FALSE 323.7527733 309.3898286 143.6478592 315.093271 278.3067971 250.8549133 136.8401354 150.6260674 68.2387928 164.8330155 1.964125768 1.876989435 0.871475043 1.91159077 1.688416585 1.521872984 0.830174313 0.913810058 0.413987408 1 7.364861428 -4.762847604 24.87315084 1.505603064 0.87199202 0.135806337 0.489852786 33.79373234 596955.2356 0.060360102 0.196786023 1.73E-05 4.762847604 -0.633611044 RSVSDNDIR ddPTM_HeLa_SAHA_4h_R1 1 RSVSDNDIR 9 1 P55072 P55072 VCP Transitional endoplasmic reticulum ATPase 0 0 120.27 0.0073694 5405100 2699.8 2644.1 2585.2 2809.8 2765.5 2969.7 3622.4 2853.8 2502.2 2826.1 FALSE FALSE TRUE 2983.777351 2729.770575 2937.497593 2864.187742 2553.607987 2716.664853 3214.798018 2780.803928 2484.786986 2947.947002 1.01215434 0.925990384 0.996455361 0.971587257 0.866232665 0.921544672 1.090520968 0.943301873 0.842887265 1 11.52549487 -7.289029343 24.37002392 1.005739552 0.961278475 0 0.075381135 849.4298123 750293.1872 0.009443015 0.010800103 5.14E-08 7.289029343 -0.044461077 RSYS(ph)SPDITQAIQEEEK ddPTM_HeLa_SAHA_4h_R1 2 RSYSSPDITQAIQEEEK 17 1 P40818-2;P40818 P40818-2 USP8 Ubiquitin carboxyl-terminal hydrolase 8 1 0 RS(0.123)Y(0.002)S(0.656)S(0.22)PDITQAIQEEEK;RS(0.035)Y(0.014)S(0.913)S(0.035)PDIT(0.004)QAIQEEEK ; 125.75 0.00018108 7321700 2249.72 1927.32 1851.61 2070.41 2536.56 2941.05 2457.23 2611.82 2078.36 2278.17 TRUE FALSE FALSE 2486.355872 1989.766433 2103.937768 2110.485779 2342.209321 2690.455994 2180.736013 2545.013426 2063.896524 2376.393058 1.046272991 0.837305271 0.885349232 0.888104673 0.985615285 1.132159508 0.917666379 1.07095643 0.868499644 1 11.21455776 -3.845094435 7.443790978 0.991721133 2.197521802 0 0.094535457 6079.442243 10825.11514 0.012691317 113044.4499 0.000142858 3.845094435 1.205800668 RSYS(ph)SPDITQAIQEEEKR ddPTM_HeLa_SAHA_4h_R1 2 RSYSSPDITQAIQEEEKR 18 2 P40818-2;P40818 P40818-2 USP8 Ubiquitin carboxyl-terminal hydrolase 8 1 0 RS(0.136)Y(0.005)S(0.52)S(0.339)PDITQAIQEEEKR;RS(0.224)Y(0.006)S(0.701)S(0.068)PDIT(0.001)QAIQEEEKR ; 100.53 0.00077347 27795700 1373.68 1487.97 1421.54 1716.89 1639.69 5443.7 1711.97 1697.5 1597.83 1612.57 TRUE FALSE FALSE 1518.169965 1536.181204 1615.260068 1750.122889 1514.057306 4979.866135 1519.33463 1654.080408 1586.710571 1682.095784 0.90254668 0.913254298 0.960266403 1.040441873 0.900101719 2.96051282 0.903239069 0.983344958 0.943293828 1 10.71604414 RSYSS(ph)PDITQAIQEEEK ddPTM_HeLa_SAHA_4h_R1 1 RSYSSPDITQAIQEEEK 17 1 P40818-2;P40818 P40818-2 USP8 Ubiquitin carboxyl-terminal hydrolase 8 1 0 RS(0.037)Y(0.003)S(0.138)S(0.823)PDITQAIQEEEK 110.4 0.00079228 8539500 2533.9 2615.2 2498.7 2726.4 3004.2 3510.4 2939.1 3372.5 2662.3 3216.6 TRUE FALSE FALSE 2800.427228 2699.934196 2839.209823 2779.173414 2774.018845 3211.294171 2608.384733 3286.236333 2643.772838 3355.283368 0.834632107 0.804681423 0.846190772 0.828297676 0.826761421 0.957085831 0.777396257 0.9794214 0.787943237 1 11.7122189 -9.215121107 0.929495584 1.000933775 0.853220724 0 0.088722419 0.387767249 0.596580717 0.038537132 0.010504976 6.09E-10 9.215121107 -0.147713051 RT(ph)ASFHEAR ddPTM_HeLa_SAHA_4h_R1 1 RTASFHEAR 9 1 Q9NS62-2;Q9NS62 Q9NS62-2 THSD1 Thrombospondin type-1 domain-containing protein 1 1 0 RT(0.5)AS(0.5)FHEAR 84.743 0.0056075 0 454.45 476.68 362.3 625.7 823.97 830.75 762.95 609.72 520.05 513.9 TRUE FALSE FALSE 502.2511361 492.1247448 411.6723572 637.8113283 760.8375966 759.9654263 677.100858 594.1242453 516.4309297 536.056744 0.936936512 0.918045991 0.767964142 1.189820547 1.419322871 1.417695859 1.263114149 1.108323423 0.963388551 1 9.066241914 -6.049744007 6.343093726 0.951420726 1.307760326 0.761697693 0.101957525 0.085240883 8.290716841 0.015902167 0.026815369 8.92E-07 6.049744007 0.3563396 RT(ph)ESVPSDINNPVDR ddPTM_HeLa_SAHA_4h_R1 1 RTESVPSDINNPVDR 15 1 A0A2R8Y4X0;A0A0A0MQW1;A0A2R8Y5H9;Q8IVT5-4;Q8IVT5-3;Q8IVT5-2;Q8IVT5;A8MY87 A0A2R8Y4X0 KSR1 Kinase suppressor of Ras 1 1 0 RT(0.699)ES(0.301)VPSDINNPVDR 187.04 1.06E-08 14749000 979.13 978.53 911.07 986.3 1026.4 1104.9 1178.6 1011.6 996.13 781.56 TRUE FALSE FALSE 1082.119386 1010.235014 1035.225875 1005.391263 947.7574537 1010.756304 1045.980826 985.7247368 989.1978502 815.2568765 1.32733549 1.239161598 1.26981557 1.233220218 1.162526169 1.239801016 1.283007671 1.209097114 1.21335726 1 9.671110895 -9.400719603 1.077881684 0.997238545 1.250665731 0.174225456 0.076419793 0.17785593 0.363191096 0.034628951 0.008439379 3.97E-10 9.400719603 0.253427187 RT(ph)GSNISGASSDISLDEQYK ddPTM_HeLa_SAHA_4h_R1 2 RTGSNISGASSDISLDEQYK 20 1 P22059 P22059 OSBP Oxysterol-binding protein 1 1 0 RT(0.494)GS(0.494)NIS(0.009)GAS(0.002)S(0.001)DISLDEQYK;RT(0.483)GS(0.483)NIS(0.027)GAS(0.003)S(0.003)DISLDEQYK ; 112.61 0.00053475 12237500 3182.4 4561.6 4041.1 3439.53 4020.4 4929.3 3783.31 4173.6 4667.3 4222.4 TRUE FALSE FALSE 3517.139433 4709.398833 4591.800063 3506.107077 3712.357821 4509.295909 3357.602002 4066.845355 4634.819879 4404.448328 0.798542558 1.069236936 1.042536936 0.796037736 0.842865563 1.023804929 0.76232067 0.923349544 1.052304292 1 12.10474561 -6.228986559 24.99103417 0.926780146 0.870784829 0.122358645 0.107501262 1759.821627 1355191.826 0.017351471 0.028772613 5.90E-07 6.228986559 -0.055995317 RT(ph)GTPSDPR ddPTM_HeLa_SAHA_4h_R1 1 RTGTPSDPR 9 1 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-8;O60716-9;O60716-17;O60716-7;O60716-4;O60716-6;A0A669KB62;O60716-11;O60716-13;O60716-19;O60716-21;O60716-20;O60716-22;O60716-23;O60716-14;O60716-24;O60716-16;O60716-15;O60716-12 O60716 CTNND1 Catenin delta-1 1 0 RT(0.864)GT(0.109)PS(0.028)DPR 76.927 0.0078499 0 292.77 180.6 99.246 286.57 484.31 309.3 394.95 248.23 398.85 335.42 TRUE FALSE FALSE 323.5648919 186.4515585 112.770728 292.1169767 447.2022724 282.9458999 350.5091865 241.880636 396.0743704 349.8815977 0.924783967 0.532899014 0.322311115 0.834902375 1.278153168 0.808690431 1.001793718 0.6913214 1.132024013 1 8.450722977 -4.238776211 21.91319916 0.895988604 0.691320269 0.032136082 0.2639881 2860.704279 2765797.141 0.037138725 2.006426202 5.77E-05 4.238776211 -0.204668335 RT(ph)MT(ph)NALRK ddPTM_HeLa_SAHA_4h_R1 1 RTMTNALRK 9 2 O43242-2;O43242 O43242-2 PSMD3 26S proteasome non-ATPase regulatory subunit 3 2 0 RT(1)MT(1)NALRK 50.703 0.0083491 0 391.16 450.54 333.8 568.65 370.06 316.95 400.16 489.2 533.63 381.35 TRUE FALSE FALSE 432.3040035 465.1377916 379.2885256 579.657043 341.7060827 289.9440769 355.1329436 476.6869724 529.9164254 397.7918648 1.086759287 1.169299407 0.953484873 1.457186771 0.859007217 0.728883878 0.8927607 1.198332632 1.332144954 1 8.635869962 RT(ph)PQS(ph)IPYQDLPHLVNADGQYLFCR ddPTM_HeLa_SAHA_4h_R1 1 RTPQSIPYQDLPHLVNADGQYLFCR 25 1 C9JAM4;A0A3B3ITT3;A0A0C4DFN3;Q99685-2;Q99685 C9JAM4 MGLL Monoglyceride lipase 2 0 RT(0.877)PQS(0.877)IPY(0.245)QDLPHLVNADGQY(0.001)LFCR 44.541 0.014616 11723000 502.66 585.64 445.41 659.18 764.36 853.6 790.76 527.02 709.45 643.49 TRUE FALSE FALSE 555.5320851 604.6151203 506.1081552 671.9393821 705.7949019 780.8684778 701.7816036 513.5395915 704.5128797 671.2340031 0.827628044 0.900751627 0.753996599 1.001050869 1.0514886 1.163332719 1.045509614 0.765067904 1.049578651 1 9.390671991 -6.027974395 24.71292228 0.902551052 1.021098676 0.138719139 0.120871938 805.4878548 711577.0625 0.018189065 0.030214415 9.38E-07 6.027974395 0.118547624 RT(ph)PSDDEEDNLFAPPK ddPTM_HeLa_SAHA_4h_R1 1 RTPSDDEEDNLFAPPK 16 1 A0A0A0MR88;A0A096LPC5;Q9Y4E1-6;Q9Y4E1;J3KP36;Q9Y4E1-3;Q9Y4E1-2;Q9Y4E1-1;E7ESD2;Q641Q2-2;Q641Q2;F8W7U3 A0A0A0MR88;E7ESD2 FAM21C;FAM21A WASH complex subunit FAM21C;WASH complex subunit FAM21A 1 0 RT(0.5)PS(0.5)DDEEDNLFAPPK 107.41 0.003112 48157000 4886.4 5552 5034.7 4943.4 5521.9 6468.1 6418 5230.7 6681.7 5027.5 TRUE FALSE FALSE 5400.373972 5731.888443 5720.802696 5039.086655 5098.813215 5916.981491 5695.829749 5096.906268 6635.201506 5244.260129 1.029768516 1.092983243 1.090869361 0.960876564 0.972265504 1.128277649 1.086107403 0.971901878 1.265231194 1 12.35652353 -8.245901068 1.254445958 1.006020306 1.043814689 0 0.099062991 0.821452294 2.642782286 0.015342861 0.011364187 5.68E-09 8.245901068 0.037794383 RT(ph)PSLALTPPQAEQEVDVLDVNVR ddPTM_HeLa_SAHA_4h_R1 2 RTPSLALTPPQAEQEVDVLDVNVR 24 1 Q04721 Q04721 NOTCH2 Neurogenic locus notch homolog protein 2;Notch 2 extracellular truncation;Notch 2 intracellular domain 1 0 RT(0.369)PS(0.281)LALT(0.35)PPQAEQEVDVLDVNVR;RT(0.572)PS(0.149)LALT(0.28)PPQAEQEVDVLDVNVR ; 94.006 8.93E-05 6595200 395.44 965.8 599.78 573.65 543.31 476.18 904.03 460.18 790.37 674.85 TRUE FALSE FALSE 437.0341935 997.0925537 681.5148949 584.7538253 501.6817052 435.6067851 802.3061651 448.4092619 784.8697508 703.9460861 0.620834752 1.416433124 0.968135072 0.830679844 0.712670636 0.618807028 1.139726722 0.636993757 1.114957191 1 9.45932113 -6.003778783 22.92858714 0.881390831 0.789154918 0.060723223 0.247230161 205.7485584 1248475.926 0.038645232 0.068820828 9.91E-07 6.003778783 -0.092235914 RT(ph)PTMPQEEAAEK ddPTM_HeLa_SAHA_4h_R1 3 RTPTMPQEEAAEK 13 1 Q9NYV4-2 Q9NYV4-2 CDK12 Cyclin-dependent kinase 12 1 0 RT(0.979)PT(0.021)MPQEEAAEK;RT(0.986)PT(0.014)MPQEEAAEK;RT(0.952)PT(0.048)MPQEEAAEK ;; 159.18 0.0031552 24497100 4208.5 4835.2 3511.36 4883.3 5379.9 5617.3 5029.6 4556.1 6902.1 4496.3 TRUE FALSE FALSE 4651.169339 4991.863652 3989.869854 4977.823333 4967.693224 5138.674438 4463.656171 4439.561559 6854.067724 4690.157497 0.991687239 1.06432751 0.850689952 1.061333939 1.059174074 1.095629399 0.951707096 0.946569825 1.461372614 1 12.19542065 RT(ph)PVSYQNTMSR ddPTM_HeLa_SAHA_4h_R1 1 RTPVSYQNTMSR 12 1 A0A088AWL3;O75376;O75376-2;E7EVK1 A0A088AWL3 NCOR1 Nuclear receptor corepressor 1 1 0 RT(0.999)PVS(0.001)YQNTMSR 79.744 0.0070714 0 593.53 723.81 615.47 561.14 655.93 650.95 622.8 583.76 790.61 633.67 TRUE FALSE FALSE 655.9602086 747.2619189 699.3430464 572.0016761 605.6727851 595.4853979 552.7209049 568.8282645 785.1080806 660.9906148 0.992389595 1.130518198 1.058022657 0.865370345 0.916310718 0.900898416 0.836200836 0.860569351 1.187774929 1 9.368485977 -6.252686859 24.98008515 1.012708034 0.87730327 0.606826474 0.071655806 313.8989424 895881.1159 0.007679602 0.012610348 5.59E-07 6.252686859 -0.135404764 RT(ph)QSSLTVSEVLTR ddPTM_HeLa_SAHA_4h_R1 1 RTQSSLTVSEVLTR 14 1 Q86V48-2;Q86V48-3;Q86V48 Q86V48-2 LUZP1 Leucine zipper protein 1 1 0 RT(0.631)QS(0.181)S(0.181)LT(0.007)VSEVLTR 111.73 0.0026945 12317000 280.15 163.42 364.76 233.22 417.2 352.1 296.96 373.25 353.84 335.57 TRUE FALSE FALSE 309.6174624 168.7149152 414.4675932 237.7343103 385.2342261 322.0990991 263.5452792 363.7028055 351.3775986 350.0380649 0.884525123 0.481990195 1.184064348 0.679167023 1.100549525 0.920183064 0.752904628 1.03903787 1.003826823 1 8.451368006 -8.865185731 1.163529408 0.989037671 0.878628705 0.056049722 0.195909196 1.04305094 2.805573853 0.070252302 0.033387343 1.36E-09 8.865185731 -0.110408966 RT(ph)SFSFQK ddPTM_HeLa_SAHA_4h_R1 1 RTSFSFQK 8 1 H0Y7F8;Q9BPZ7-4;Q9BPZ7-3;Q9BPZ7-2;Q9BPZ7 H0Y7F8 MAPKAP1 Target of rapamycin complex 2 subunit MAPKAP1 1 0 RT(0.996)S(0.003)FSFQK 130.01 0.00032759 0 681.58 751.23 607.37 706.11 958.84 762.15 831.72 899.27 675.23 870.94 TRUE FALSE FALSE 753.2717116 775.5703449 690.1392206 719.7777801 885.3738863 697.2105323 738.1326766 876.2679755 670.5310195 908.4904857 0.829146506 0.853691213 0.759654869 0.792278831 0.974554935 0.767438452 0.812482561 0.964531813 0.738071592 1 9.827327595 -9.173093212 0.820432791 1.00479284 0.840158637 0 0.106748523 0.502749795 0.583919309 0.052311549 0.013352969 6.71E-10 9.173093212 -0.164634204 RT(ph)SFYLPK ddPTM_HeLa_SAHA_4h_R1 1 RTSFYLPK 8 1 Q9NS23-3;Q9NS23-4;Q9NS23-2;Q9NS23-5;Q9NS23 Q9NS23-3 RASSF1 Ras association domain-containing protein 1 1 0 RT(0.5)S(0.5)FYLPK 97.456 0.017329 3896900 707.62 745.21 1108.4 971.31 1093.4 944.77 1032.8 758.76 597.05 750.93 TRUE FALSE FALSE 782.0507183 769.355293 1259.44698 990.1111096 1009.623928 864.2702809 916.5866258 739.3520179 592.8950804 783.3062673 0.998397116 0.98218963 1.60786021 1.264015304 1.288926146 1.103361887 1.170151018 0.943886253 0.75691349 1 9.613432691 RT(ph)SMGGTQQQFVEGVR ddPTM_HeLa_SAHA_4h_R1 2 RTSMGGTQQQFVEGVR 16 1 A0A2R8Y6G0;A0A2R8Y804;A0A2R8Y543;A0A2R8Y5C3;A0A2R8Y750;A0A2R8Y5Z1;B4DGU4;A0A2R8YCH5;A0A2R8Y5A3;P35222 A0A2R8Y6G0 CTNNB1 Catenin beta-1 1 0 RT(0.729)S(0.271)MGGTQQQFVEGVR;RT(0.793)S(0.205)MGGT(0.002)QQQFVEGVR ; 104.16 0.0037571 13906900 959.89 1288.43 1134.94 1132.86 1494.36 1620.51 1224.04 1229.47 1394.83 1402.8 TRUE FALSE FALSE 1060.855634 1330.175977 1289.603713 1154.788143 1379.86246 1482.433431 1086.307798 1198.021938 1385.123264 1463.281573 0.724983936 0.909036239 0.881309337 0.789176987 0.942991756 1.013088293 0.742377829 0.818722766 0.946586966 1 10.51499169 -9.64755904 1.494846386 0.999647987 0.83779843 0.215717139 0.086875262 0.417381943 1.682816531 0.066273283 0.01512943 2.25E-10 9.64755904 -0.161849557 RT(ph)SPQVLGSILK ddPTM_HeLa_SAHA_4h_R1 1 RTSPQVLGSILK 12 1 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 RT(0.5)S(0.5)PQVLGSILK 112.03 0.0036621 3717500 2784.1 2970.3 3143.4 2980.1 2790.2 2188 3255.9 2152.4 1842 2519.6 TRUE FALSE FALSE 3076.944412 3066.539669 3571.766182 3037.784145 2576.415479 2001.570091 2889.537563 2097.344725 1829.181372 2628.232287 1.170727727 1.16676889 1.358999431 1.155827877 0.98028454 0.761565141 1.099422444 0.798005844 0.695974013 1 11.35987707 -5.596679198 4.899459747 1.117058081 0.901995533 0.198102004 0.180649479 0.174674148 7.792880348 0.01972155 0.040439861 2.53E-06 5.596679198 -0.215062549 RT(ph)SSLDTITGPYLTGQWPR ddPTM_HeLa_SAHA_4h_R1 1 RTSSLDTITGPYLTGQWPR 19 1 Q86VQ1;H7C2L5;H7C0Q2 Q86VQ1 GLCCI1 Glucocorticoid-induced transcript 1 protein 1 0 RT(0.388)S(0.388)S(0.221)LDT(0.003)ITGPYLTGQWPR 126.3 0.00025267 29373000 475.9 540.96 505.06 507.27 403.31 530.26 590.57 486.22 473.08 414.24 TRUE FALSE FALSE 525.9573455 558.4874589 573.8869466 517.0889444 372.4084749 485.0788648 524.1175093 473.7831964 469.7877978 432.0999136 1.217212337 1.292496113 1.328134833 1.196688377 0.861857323 1.122608104 1.212954441 1.09646677 1.0872203 1 8.755221132 -9.349011206 1.139462139 1.002460874 1.169715431 0.121936651 0.123984777 0.646698832 1.535256353 0.082583006 0.022886709 4.48E-10 9.349011206 0.167254558 RT(ph)STPVIMEGVQEETDTR ddPTM_HeLa_SAHA_4h_R1 1 RTSTPVIMEGVQEETDTR 18 1 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 RT(0.593)S(0.204)T(0.204)PVIMEGVQEETDTR 121.56 0.00063448 3864100 571.02 630.67 552.13 643.9 690.3 596.54 692.2 639.99 671.8 546.12 TRUE FALSE FALSE 631.0825035 651.1041218 627.371401 656.3636156 637.4093631 545.711436 614.3118342 623.6199825 667.1248891 569.6659058 1.107811609 1.142957855 1.101297084 1.152190449 1.118917872 0.957949967 1.078372126 1.094711788 1.171080948 1 9.153972254 -2.958946929 2.428988881 1.068070514 10.80012922 0 0.067400544 3215.230592 63.26833583 0.00971299 173048.0621 0.00109914 2.958946929 9.732058704 RT(ph)VSVPSEGQFPEYPPEGATK ddPTM_HeLa_SAHA_4h_R1 1 RTVSVPSEGQFPEYPPEGATK 21 1 Q9UJF2-2 Q9UJF2-2 RASAL2 Ras GTPase-activating protein nGAP 1 0 RT(0.333)VS(0.333)VPS(0.333)EGQFPEYPPEGATK 68.309 0.0027203 0 517.66 581.24 481.2 374.31 713.8 714.7 594.66 611.93 660.48 513.69 TRUE FALSE FALSE 572.1098539 600.0725574 546.77543 381.5553113 659.1087982 653.8035392 527.7472917 596.2777167 655.8836659 535.8376898 1.067692446 1.119877472 1.020412413 0.712072552 1.230053075 1.220152206 0.984901402 1.1127954 1.224034215 1 9.065652251 RT(ph)WNLGAT(ph)PSLR ddPTM_HeLa_SAHA_4h_R1 1 RTWNLGATPSLR 12 1 Q9BVG8-2;Q9BVG8;Q9BVG8-6;H3BNZ0;H3BPE2;H3BRQ1;H3BTE9;H3BSN2;Q9BVG8-4 Q9BVG8-2 KIFC3 Kinesin-like protein KIFC3 2 0 RT(1)WNLGAT(0.85)PS(0.15)LR 55.755 0.022891 8723300 932.36 949.07 1052.3 1133.4 1101.8 1074.6 986.39 1045.4 1132.5 1114.7 TRUE FALSE FALSE 1030.429903 979.8204907 1195.701964 1155.338596 1017.380322 983.0380345 875.3988012 1018.660182 1124.61884 1162.760172 0.886192981 0.842667744 1.028330685 0.993617277 0.874970047 0.845434904 0.752862733 0.876070755 0.967197593 1 10.18333785 -1 0.116374398 1.020091242 0.393339501 0.34400017 0.06708244 90.62505736 0.730401451 0.366379003 9.212034452 0.1 1 -0.626751741 RT(ph)YSDEANQMR ddPTM_HeLa_SAHA_4h_R1 2 RTYSDEANQMR 11 1 A0A1B0GTL5;Q9BXF6 A0A1B0GTL5 RAB11FIP5 Rab11 family-interacting protein 5 1 0 RT(0.998)YS(0.002)DEANQMR;RT(0.935)YS(0.065)DEANQMR ; 214.61 1.10E-13 21406200 2647.6 2279.6 2786.5 2473.77 3020.07 2587.98 2631.42 2533.77 2296.15 2564.01 TRUE FALSE FALSE 2926.086716 2353.460536 3166.229709 2521.653395 2788.672889 2367.469544 2335.325696 2468.959832 2280.170905 2674.557019 1.094045367 0.87994405 1.183833317 0.9428303 1.042667204 0.88518193 0.873163548 0.923128509 0.85254152 1 11.38508425 -5.261302442 24.99460406 1.035524018 0.891758543 0.131314503 0.097152625 8.710754121 1589699.572 0.010528463 0.025083884 5.48E-06 5.261302442 -0.143765475 RTADSSSS(ph)EDEEEYVVEK ddPTM_HeLa_SAHA_4h_R1 2 RTADSSSSEDEEEYVVEK 18 1 P45973;F8VNY3 P45973 CBX5 Chromobox protein homolog 5 1 0 RT(0.223)ADS(0.066)S(0.066)S(0.066)S(0.578)EDEEEYVVEK;RT(0.433)ADS(0.008)S(0.005)S(0.114)S(0.44)EDEEEYVVEK ; 151.2 3.75E-05 21640900 4015.4 3436.1 3670.2 4201.3 4216.4 4611 4956.4 4650.4 4481.5 3778.4 TRUE FALSE FALSE 4437.758195 3547.431895 4170.355742 4282.622237 3893.340343 4218.116859 4398.692827 4531.449502 4450.312877 3941.305315 1.125961538 0.900065235 1.058115373 1.08659997 0.987830181 1.070233469 1.116049754 1.149733182 1.12914695 1 11.9444578 -4.726513272 2.739420333 1.045921514 1.143097092 0.240138935 0.064924369 0.323242383 4.713461173 0.009472015 0.045222809 1.88E-05 4.726513272 0.097175579 RTAFYNEDDS(ph)EEEQR ddPTM_HeLa_SAHA_4h_R1 2 RTAFYNEDDSEEEQR 15 1 Q8WWQ0 Q8WWQ0 PHIP PH-interacting protein 1 0 RTAFYNEDDS(1)EEEQR;RTAFYNEDDS(1)EEEQR ; 176.46 2.23E-07 12512200 3472.5 3662.4 3058.9 2870.5 3781.6 4102.3 3314.3 3371.7 3979.8 3907.7 TRUE FALSE FALSE 3837.753482 3781.064163 3475.750962 2926.062678 3491.854625 3752.760961 2941.366241 3285.456796 3952.104248 4076.180071 0.941507347 0.927599885 0.85269809 0.717844312 0.856648765 0.920656324 0.7215987 0.806013655 0.96956076 1 11.99300207 -6.851196891 1.878690505 0.973320575 0.80746162 0.624334245 0.057344703 0.161632701 1.15969785 0.010216764 0.014202115 1.41E-07 6.851196891 -0.165858954 RTAS(ph)PPPPPKR ddPTM_HeLa_SAHA_4h_R1 1 RTASPPPPPKR 11 2 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 RT(0.438)AS(0.562)PPPPPKR 59.116 0.019707 7285300 1715.9 1601.8 1530 1810.7 1901.4 2059.8 1984.9 1805.3 1974.3 1927.4 TRUE FALSE FALSE 1896.386235 1653.699371 1738.500432 1845.748717 1755.715143 1884.293452 1761.553828 1759.12304 1960.560686 2010.499646 0.943241267 0.82253154 0.864710638 0.918054733 0.873273042 0.937226453 0.876177139 0.874968092 0.97516092 1 10.97333837 -7.67139924 2.067645143 0.980470351 0.883813545 0.636514276 0.031706664 0.136189826 1.214619807 0.00665621 0.006761846 2.13E-08 7.67139924 -0.096656806 RTCYAR ddPTM_HeLa_SAHA_4h_R1 1 RTCYAR 6 1 A0A087WWS9;Q7Z7B1 A0A087WWS9 PIGW Phosphatidylinositol-glycan biosynthesis class W protein 0 0 16.107 0.023449 149880 0 0 60.421 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 68.65485922 0 0 0 0 0 0 0 0 RTDALTS(ph)SPGR ddPTM_HeLa_SAHA_4h_R1 1 RTDALTSSPGR 11 1 P49736;F8WDM3;C9J013;C9JZ21 P49736 MCM2 DNA replication licensing factor MCM2 1 0 RTDALT(0.028)S(0.486)S(0.486)PGR 78.287 0.013374 10411000 943.76 1041.2 888.24 959.72 869.21 1610.2 1022.5 1008.8 1442.8 1145.8 TRUE FALSE FALSE 1043.029007 1074.935563 1009.284721 978.2967684 802.6113176 1473.001901 907.4456089 982.9963567 1432.759437 1195.201045 0.872680802 0.899376358 0.844447656 0.818520677 0.671528293 1.232430232 0.759240977 0.822452725 1.198760194 1 10.2230376 -9.038137503 0.627981881 1.010561168 0.863489221 0.223047283 0.151864937 1.599117302 1.047241141 0.127542349 0.030312758 9.16E-10 9.038137503 -0.147071948 RTDALTSS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 4 RTDALTSSPGR 11 1 P49736;F8WDM3;C9J013;C9JZ21 P49736 MCM2 DNA replication licensing factor MCM2 1 0 RTDALT(0.012)S(0.101)S(0.887)PGR;RTDALT(0.007)S(0.135)S(0.858)PGR;RTDALTS(0.001)S(0.999)PGR;RTDALTS(0.017)S(0.983)PGR ;;; 140.01 0.00052767 618062400 5379.9 6719.5 5231.86 6631.3 7063.3 7611.7 6555.2 5743.1 8894.4 6374.6 TRUE FALSE FALSE 5945.782566 6937.216209 5944.830634 6759.658401 6522.11148 6963.140338 5817.591644 5596.199818 8832.503146 6649.440203 0.894177913 1.043278231 0.894034754 1.01657556 0.980851212 1.047176924 0.87489946 0.841604654 1.328307779 1 12.69901717 -4.5812524 9.410889872 0.963832712 0.84985137 0.084502184 0.126599041 0.233555992 35.41359551 0.007918175 0.029776981 2.62E-05 4.5812524 -0.113981341 RTDEAAFQK ddPTM_HeLa_SAHA_4h_R1 2 RTDEAAFQK 9 1 P26447 P26447 S100A4 Protein S100-A4 0 0 ; ; 161.51 0.00016176 15180400 4438.6 3771 3917.4 4566.8 4073.7 4272.9 4722.9 3692 3031.5 3654.2 FALSE FALSE TRUE 4905.472313 3893.182874 4451.242871 4655.197018 3761.573986 3908.824881 4191.466862 3597.563986 3010.403545 3811.750445 1.28693428 1.021363526 1.167768702 1.221275392 0.986836374 1.025467154 1.099617334 0.943808898 0.789769317 1 11.89623795 -5.745439761 24.98281133 1.137191091 1.020876683 0 0.140245097 321.9480902 502707.032 0.016948024 0.033809257 1.80E-06 5.745439761 -0.116314408 RTDGGTS(ph)K ddPTM_HeLa_SAHA_4h_R1 2 RTDGGTSK 8 1 F8W031 F8W031 1 0 RTDGGT(0.047)S(0.953)K;RTDGGT(0.016)S(0.984)K ; 71.03 0.019583 1346130 710.51 832.66 680.87 1029.04 862.68 1073.52 1138.01 868.39 572.65 737.98 TRUE FALSE FALSE 785.2447017 859.6387303 773.6554178 1048.958557 796.5816448 982.0500565 1009.95812 846.1778412 568.664882 769.7979294 1.020066009 1.116706992 1.00501104 1.362641438 1.034793177 1.275724471 1.311978223 1.099220729 0.738719683 1 9.58833598 -6.290524789 24.70366501 1.019160197 1.215309452 0.444531824 0.130190116 347.3825183 295048.2531 0.013502633 0.020627987 5.12E-07 6.290524789 0.196149256 RTDIFGVEETAIGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 RTDIFGVEETAIGKK 15 2 Q15459;Q15459-2 Q15459 SF3A1 Splicing factor 3A subunit 1 0 1 ; RTDIFGVEETAIGK(1)K;RTDIFGVEETAIGK(1)K 236.03 2.85E-56 16389300 5855.6 6012.4 7143.7 10024.7 8621 9298.9 10354.6 10181.5 8728.5 6680.9 FALSE TRUE FALSE 6471.518874 6207.205705 8117.206233 10218.74256 7960.460842 8506.581406 9189.473156 9921.071973 8667.757658 6968.946295 0.928622291 0.890695012 1.164768085 1.466325343 1.142276107 1.220640976 1.318631651 1.423611483 1.243768755 1 12.76672482 -6.574745349 4.778758351 0.96061082 1.301739059 0.531366603 0.127559261 0.070818737 3.474745204 0.014381282 0.02068827 2.66E-07 6.574745349 0.341128239 SATDGNTSTTPPTSAK(ac)KR ddPTM_HeLa_SAHA_4h_R1 2 SATDGNTSTTPPTSAKKR 18 2 A0A669KAU9;A0A669KAX4;K4DI93;Q13620-1;Q13620 A0A669KAU9 CUL4B Cullin-4B 0 1 ; SATDGNTSTTPPTSAK(0.764)K(0.236)R;SATDGNTSTTPPTSAK(0.96)K(0.04)R 163 2.46E-09 5706100 982.24 1077.05 1521.21 2540.3 2695.8 3315.4 3227.5 4222.2 717.7 564.56 FALSE TRUE FALSE 1085.55651 1111.947127 1728.512577 2589.47118 2489.248386 3032.909268 2864.333206 4114.202238 712.7054673 588.9009445 1.84336011 1.888173448 2.935149948 4.397125194 4.226939029 5.150117853 4.863862475 6.986238138 1.210229792 1 9.201881177 -5.477395116 0.37491812 1.011294885 7.751676559 0.939257069 0.462400176 0.419362894 0.076462137 0.167653017 1.132917244 3.33E-06 5.477395116 6.740381674 up RTES(ph)VPSDINNPVDR ddPTM_HeLa_SAHA_4h_R1 3 RTESVPSDINNPVDR 15 1 A0A2R8Y4X0;A0A0A0MQW1;A0A2R8Y5H9;Q8IVT5-4;Q8IVT5-3;Q8IVT5-2;Q8IVT5;A8MY87 A0A2R8Y4X0 KSR1 Kinase suppressor of Ras 1 1 0 RT(0.002)ES(0.998)VPSDINNPVDR;RT(0.01)ES(0.99)VPSDINNPVDR;RT(0.151)ES(0.849)VPSDINNPVDR ;; 149.72 3.44E-05 83303000 2874.76 3517.66 2952.12 3012.74 3568.8 3882.9 3224.62 3572.3 3173.4 3263.5 TRUE FALSE FALSE 3177.140447 3631.634492 3354.41954 3071.055939 3295.359315 3552.055075 2861.777271 3480.925739 3151.316051 3404.205456 0.933298676 1.066808258 0.985375173 0.902135896 0.968025978 1.043431462 0.840659387 1.022536913 0.925712649 1 11.7331024 RTET(ph)KS(ph)S(ph)VTS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 RTETKSSVTSK 11 2 Q5VYV7 Q5VYV7 SLX4IP Protein SLX4IP 4 0 RT(0.006)ET(0.616)KS(0.988)S(0.782)VT(0.615)S(0.994)K 76.357 0.0074288 0 207.12 268.63 195.39 434.46 199.03 521.63 305.53 222.54 351.59 380.13 TRUE FALSE FALSE 228.9058319 277.3337883 222.0167317 442.8696015 183.7803644 477.1841894 271.1509603 216.847749 349.1432566 396.5192646 0.577288047 0.699420717 0.559914111 1.116893027 0.463484075 1.203432549 0.683827961 0.546878219 0.880520287 1 8.63124715 -9.545707675 1.332304297 0.998960057 0.722117497 0.106109015 0.233631363 0.610676861 1.953322583 0.150403654 0.036259708 2.85E-10 9.545707675 -0.276842561 RTFS(ph)LTEVR ddPTM_HeLa_SAHA_4h_R1 1 RTFSLTEVR 9 1 O95239;O95239-2 O95239 KIF4A Chromosome-associated kinesin KIF4A 1 0 RT(0.053)FS(0.798)LT(0.148)EVR 123.01 0.0081901 10299000 1714.1 1635.7 1720.3 2148.6 1838.7 2530 2779.3 2360.9 1609.4 1673.9 TRUE FALSE FALSE 1894.396903 1688.697753 1954.733525 2190.18926 1697.819203 2314.429767 2466.565849 2300.511597 1598.200054 1746.070021 1.084948988 0.967142058 1.11950466 1.254353625 0.972366047 1.325507992 1.412638565 1.317536851 0.915312694 1 10.7698957 -5.131013634 0.702787833 1.036535889 1.446656155 0.635148829 0.101929439 0.569784691 0.367645902 0.016554466 0.147521048 7.40E-06 5.131013634 0.410120266 RTIQEVLEEQS(ph)EDEDR ddPTM_HeLa_SAHA_4h_R1 2 RTIQEVLEEQSEDEDR 16 1 M0R0Q7;P18858-2;P18858-3;P18858 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 RTIQEVLEEQS(1)EDEDR;RTIQEVLEEQS(1)EDEDR ; 197.05 5.78E-13 7762800 1446.58 1711.71 1393.48 1689.53 1680.82 2442.4 1867.17 1401.86 2135.98 1588.47 TRUE FALSE FALSE 1598.737922 1767.170527 1583.376197 1722.233296 1552.035935 2234.293779 1657.071117 1366.002451 2121.115541 1656.956715 0.964864022 1.066515806 0.955592975 1.039395465 0.936678623 1.348432194 1.000069043 0.824404427 1.280127309 1 10.6943202 RTIQEVLEEQS(ph)EDEDREAK ddPTM_HeLa_SAHA_4h_R1 2 RTIQEVLEEQSEDEDREAK 19 2 M0R0Q7;P18858-2;P18858-3;P18858 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 RTIQEVLEEQS(1)EDEDREAK;RTIQEVLEEQS(1)EDEDREAK ; 50.392 0.01552 34388000 2381.6 2533.1 2215.81 2305.99 2689.2 2732.7 2791.7 2121.54 1953.61 2571.5 TRUE FALSE FALSE 2632.107615 2615.174102 2517.769047 2350.625771 2483.154077 2499.858586 2477.570569 2067.274079 1940.014669 2682.36995 0.981261968 0.974949075 0.938636018 0.876324226 0.925731396 0.931958914 0.923649838 0.770689397 0.723246497 1 11.38929251 -1.047154957 0.232219202 1.004394557 1.99E-14 0 0.093749626 19.14585912 0.238297654 0.023016539 7.377303227 0.089710865 1.047154957 -1.004394557 RTLEGELHDLR ddPTM_HeLa_SAHA_4h_R1 2 RTLEGELHDLR 11 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 105.03 0.0024582 22974000 3993.4 2820.82 3652.4 4233 4157.2 4131.9 4331.8 3087.84 3347.8 3879.4 FALSE FALSE TRUE 4413.444134 2912.216419 4150.130051 4314.935836 3838.676234 3779.838875 3844.374463 3008.857524 3324.502387 4046.659919 1.090638755 0.719659294 1.025569268 1.066295642 0.948603616 0.934063882 0.950011748 0.74354099 0.821542322 1 11.98251589 -3.112230658 0.58347712 1.020019799 5.72E-34 0.042507121 0.119823674 10.1059876 0.864988592 0.019006496 9.484934217 0.00077227 3.112230658 -1.020019799 GGLTSPIFCSTK(ac)PK ddPTM_HeLa_SAHA_4h_R1 2 GGLTSPIFCSTKPK 14 1 Q9ULL5;Q9ULL5-2;A0A3Q5ADB5 Q9ULL5 PRR12 Proline-rich protein 12 0 1 ; GGLTSPIFCSTK(1)PK;GGLTSPIFCSTK(1)PK 199.43 1.62E-23 2084760 141.46 146.82 232.361 408.28 463.93 580.2 623.6 754.2 167.27 238.203 FALSE TRUE FALSE 156.3394118 151.5770643 264.025947 416.1828498 428.3837836 530.7636959 553.4308868 734.9086561 166.1059545 248.4730971 0.62920056 0.610034109 1.062593698 1.674961413 1.724065054 2.136101261 2.227327197 2.957699102 0.668506798 1 7.956945845 -5.475562795 0.762836646 0.796434293 2.790721938 0.920752258 0.214627687 0.193954311 0.182525397 0.044208814 0.233871421 3.35E-06 5.475562795 1.994287645 up RTPAPPEPGS(ph)PAPGEGPSGR ddPTM_HeLa_SAHA_4h_R1 4 RTPAPPEPGSPAPGEGPSGR 20 1 P0C1Z6-2;P0C1Z6 P0C1Z6-2 TFPT TCF3 fusion partner 1 0 RTPAPPEPGS(1)PAPGEGPSGR;RTPAPPEPGS(0.999)PAPGEGPS(0.001)GR;RTPAPPEPGS(1)PAPGEGPSGR;RTPAPPEPGS(1)PAPGEGPSGR ;;; 207.1 4.32E-20 126288000 4838.36 4766.03 4831.41 4678.14 5104.5 5941.99 5641.72 4991.13 4903.76 4596.65 TRUE FALSE FALSE 5347.280904 4920.452499 5489.809394 4768.692164 4713.394313 5435.699023 5006.898817 4863.464122 4869.634335 4794.834077 1.11521709 1.026198701 1.144942516 0.9945479 0.983015103 1.133657377 1.044227754 1.01431333 1.015600177 1 12.22726518 RTPHVQAVQGPLGS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 1 RTPHVQAVQGPLGSPPK 17 1 Q15149 Q15149 PLEC Plectin 1 0 RTPHVQAVQGPLGS(1)PPK 61.165 0.018882 5623100 2777.3 2323.9 2231.3 2495.1 2440.9 2875 2567.6 2879.7 2516.8 2782.8 TRUE FALSE FALSE 3069.429157 2399.195885 2535.369944 2543.396268 2253.878769 2630.033826 2278.68689 2806.041444 2499.285384 2902.780127 1.057410146 0.826516574 0.873428173 0.876193221 0.776455216 0.906039628 0.785001547 0.966673782 0.860997139 1 11.50321958 -7.261211867 24.99999653 1.027110348 0.855693928 0.244896458 0.075471915 7.902621637 868391.8239 0.008540676 0.01011293 5.48E-08 7.261211867 -0.17141642 RTPS(ph)DDEEDNLFAPPK ddPTM_HeLa_SAHA_4h_R1 2 RTPSDDEEDNLFAPPK 16 1 A0A0A0MR88;A0A096LPC5;Q9Y4E1-6;Q9Y4E1;J3KP36;Q9Y4E1-3;Q9Y4E1-2;Q9Y4E1-1;E7ESD2;Q641Q2-2;Q641Q2;F8W7U3 A0A0A0MR88;E7ESD2 FAM21C;FAM21A WASH complex subunit FAM21C;WASH complex subunit FAM21A 1 0 RT(0.091)PS(0.909)DDEEDNLFAPPK;RT(0.001)PS(0.999)DDEEDNLFAPPK ; 224.36 2.00E-21 132547000 4690.7 5625.4 4354.8 4800.5 5325.3 5582.1 5395.5 5324.2 6327.3 5018.82 TRUE FALSE FALSE 5184.089348 5807.666651 4948.249465 4893.420619 4917.276664 5106.473676 4788.38414 5188.014673 6283.267804 5235.205892 0.990236001 1.10934828 0.945187175 0.934714072 0.939270922 0.975410286 0.914650587 0.990985795 1.200194975 1 12.35403056 RTQAPTKAS(ph)E ddPTM_HeLa_SAHA_4h_R1 2 RTQAPTKASE 10 2 A0A3B3ITT5;P47914 A0A3B3ITT5 RPL29 60S ribosomal protein L29 1 0 RTQAPT(0.005)KAS(0.995)E;RTQAPT(0.021)KAS(0.979)E ; 89.46 0.013351 18843500 1835.58 1562.73 2040.34 2915.7 2431.4 3077.9 3718.5 2812.3 2297.39 3247.1 TRUE FALSE FALSE 2028.654726 1613.363477 2318.38691 2972.13759 2245.106657 2815.645604 3300.084593 2740.365438 2281.402276 3387.098372 0.598935875 0.476326135 0.684475812 0.877487827 0.6628407 0.831285453 0.97431023 0.809059891 0.673556545 1 11.72583417 -1.698530974 12.7812622 0.784920782 0.857392599 0 0.161444803 0 0 0.02595387 0 0.020020228 1.698530974 0.072471816 RTQS(ph)LSALPK ddPTM_HeLa_SAHA_4h_R1 1 RTQSLSALPK 10 1 I3L2J0;A0A0A0MQR4;Q96RK0 I3L2J0 CIC Protein capicua homolog 1 0 RT(0.038)QS(0.961)LS(0.002)ALPK 112.02 0.0026438 12740000 5514.5 4846 5262.3 5773.8 5672.7 6769.4 6539.5 6994.3 4487.9 4747.1 TRUE FALSE FALSE 6094.540411 5003.01358 5979.418839 5885.560248 5238.058952 6192.609036 5803.658249 6815.395934 4456.668338 4951.770713 1.230780011 1.010348392 1.207531444 1.188576893 1.057815326 1.25058477 1.172036951 1.376355314 0.900015085 1 12.2737288 -13.52287874 0.225074229 1.16E-13 1.216640291 0.48750358 0.097380182 38.87802164 0.496859666 17.2651573 0.069871033 3.00E-14 13.52287874 1.216640291 RTQS(ph)SLTVSEVLTR ddPTM_HeLa_SAHA_4h_R1 3 RTQSSLTVSEVLTR 14 1 Q86V48-2;Q86V48-3;Q86V48 Q86V48-2 LUZP1 Leucine zipper protein 1 1 0 RT(0.027)QS(0.918)S(0.04)LT(0.013)VS(0.003)EVLTR;RT(0.001)QS(0.888)S(0.108)LT(0.003)VSEVLTR;RT(0.001)QS(0.932)S(0.06)LT(0.007)VSEVLTR ;; 142.4 0.00043448 47700000 1906.63 1947.46 1995.14 2278.76 2628.82 2049.09 2066.62 3681.13 2101 1779.52 TRUE FALSE FALSE 2107.178091 2010.558982 2267.027289 2322.868695 2427.40038 1874.496004 1834.078479 3586.972025 2086.37897 1856.243816 1.135183898 1.083133026 1.221298231 1.251381244 1.307694797 1.009832861 0.988059038 1.932381939 1.123978947 1 10.8581705 -4.256822327 24.98019887 1.098180795 1.932382279 0.835579123 0.106937961 148.4819352 803321.044 0.016679047 0.179249107 5.54E-05 4.256822327 0.834201484 RTS(ph)FLEGTLR ddPTM_HeLa_SAHA_4h_R1 1 RTSFLEGTLR 10 1 E9PEW5;A0A0A0MQX1;Q9HD67-3;Q9HD67 E9PEW5 MYO10 Unconventional myosin-X 1 0 RT(0.031)S(0.969)FLEGTLR 105.17 0.0022245 0 427.96 449.02 343.49 417.98 940.17 1029.5 563.17 742.26 448.63 610.6 TRUE FALSE FALSE 472.9747964 463.5685426 390.2990284 426.0706073 868.1343777 941.7808082 499.8006294 723.274064 445.5079473 636.9259542 0.742589925 0.727821719 0.612785561 0.668948415 1.363006755 1.478634686 0.784707588 1.135570091 0.69946584 1 9.314981852 -5.763604313 24.99999934 0.827831103 1.182078548 0.513283568 0.203868471 47.30098356 546226.9079 0.032884454 0.061778853 1.72E-06 5.763604313 0.354247445 RTS(ph)FSFQK ddPTM_HeLa_SAHA_4h_R1 3 RTSFSFQK 8 1 H0Y7F8;Q9BPZ7-4;Q9BPZ7-3;Q9BPZ7-2;Q9BPZ7 H0Y7F8 MAPKAP1 Target of rapamycin complex 2 subunit MAPKAP1 1 0 RT(0.429)S(0.564)FS(0.006)FQK;RT(0.334)S(0.664)FS(0.002)FQK;RT(0.438)S(0.561)FS(0.001)FQK ;; 107.34 0.0034833 11826500 5111.4 5329.1 4301.2 5257.7 6228 7041.6 7306.5 6562.9 5624.5 5488.1 TRUE FALSE FALSE 5649.040504 5501.766337 4887.345136 5359.470386 5750.811985 6441.616065 6484.35339 6395.030521 5585.358647 5724.718849 0.986780426 0.961054417 0.853726666 0.936198009 1.004557977 1.125228371 1.132693773 1.117090758 0.975656411 1 12.48298913 -5.316147813 3.885289452 0.975529616 1.12722554 0.761977712 0.041942197 0.103904733 3.222375761 0.007080675 0.017166587 4.83E-06 5.316147813 0.151695924 RTS(ph)FSTSDVSK ddPTM_HeLa_SAHA_4h_R1 1 RTSFSTSDVSK 11 1 M0R300;M0R0P8;Q13459-2;Q13459 M0R300 MYO9B Unconventional myosin-IXb 1 0 RT(0.134)S(0.376)FS(0.376)T(0.083)S(0.031)DVSK 63.31 0.023717 10196000 1709.2 2255 1945.9 2779.1 2538.8 2561.2 2960.7 2137.8 1442.1 2109.9 TRUE FALSE FALSE 1888.981498 2328.06348 2211.077118 2832.893499 2344.277692 2342.971351 2627.554244 2083.118171 1432.064309 2200.868115 0.858289275 1.05779327 1.004638626 1.287170949 1.06516046 1.064566902 1.193871739 0.94649841 0.650681565 1 11.10385698 -6.895084 2.292850678 0.934241098 1.108134807 0.376207245 0.131008202 0.224005157 2.395044002 0.016479492 0.022324354 1.27E-07 6.895084 0.173893709 RTS(ph)LPCIPR ddPTM_HeLa_SAHA_4h_R1 1 RTSLPCIPR 9 1 Q14432 Q14432 PDE3A "cGMP-inhibited 3,5-cyclic phosphodiesterase A" 1 0 RT(0.24)S(0.76)LPCIPR 76.165 0.016416 60055000 789.31 995.51 801.09 1351.3 986.64 1125.3 1450.1 940.32 920.51 618.6 TRUE FALSE FALSE 872.3332473 1027.765177 910.2583733 1377.456366 911.0438564 1029.418109 1286.930932 916.267976 914.104096 645.2708734 1.35188691 1.592765488 1.410660873 2.134694781 1.411878165 1.595327097 1.994404187 1.419974175 1.41662073 1 9.333761095 -7.76677151 0.574560687 1.028803875 1.712358014 0.301794996 0.258253585 0.358624178 0.277346778 0.090495885 0.071098361 1.71E-08 7.76677151 0.683554139 RTS(ph)NERPGSGQGQGR ddPTM_HeLa_SAHA_4h_R1 1 RTSNERPGSGQGQGR 15 2 Q8TAD8 Q8TAD8 SNIP1 Smad nuclear-interacting protein 1 1 0 RT(0.066)S(0.934)NERPGSGQGQGR 90.872 0.0054606 13662000 296.58 326.39 275.15 596.75 649.95 850.74 971.5 660.22 286.87 653.74 TRUE FALSE FALSE 327.7756452 336.9652502 312.6460091 608.3009592 600.1509714 778.2521659 862.1842632 643.3325284 284.8736483 681.9259307 0.480661653 0.494137611 0.458475026 0.89203377 0.880082344 1.141256155 1.264337114 0.943405287 0.417748667 1 9.413471235 -5.586795389 1.96183707 0.707335193 1.129114571 0.528758363 0.201980985 0.280299837 2.158481378 0.036989962 0.0916672 2.59E-06 5.586795389 0.421779378 RTS(ph)QEGPGDSVK ddPTM_HeLa_SAHA_4h_R1 1 RTSQEGPGDSVK 12 1 Q9NSK0-5;Q9NSK0;Q9NSK0-3 Q9NSK0-5 KLC4 Kinesin light chain 4 1 0 RT(0.009)S(0.859)QEGPGDS(0.132)VK 132.65 4.48E-05 0 544.61 855.14 360.65 705.46 587.25 763.43 643.46 619.5 765.73 737.9 TRUE FALSE FALSE 601.8945786 882.8470971 409.7975038 719.1151984 542.2550319 698.3814691 571.0561873 603.654087 760.4012226 769.7144802 0.78197123 1.146979977 0.532401968 0.934262271 0.704488542 0.907325362 0.741906515 0.784257153 0.987900374 1 9.588179578 -13.52287875 0.230283562 2.065295126 0.785175492 0.193907606 0.150965747 56.96306563 0.73409164 27.44714496 0.100215138 3.00E-14 13.52287875 -1.280119633 RTS(ph)TPVIMEGVQEETDTR ddPTM_HeLa_SAHA_4h_R1 1 RTSTPVIMEGVQEETDTR 18 1 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 RT(0.138)S(0.431)T(0.431)PVIMEGVQEETDTR 120.99 0.00025834 4381100 537.15 718.47 348.81 372.17 479.5 629.46 725.27 553.38 548.37 703.72 TRUE FALSE FALSE 593.6499015 741.7488994 396.3440103 379.3738885 442.7608136 575.8264668 643.6607108 539.2253409 544.5538485 734.0608131 0.808720328 1.010473364 0.539933481 0.51681534 0.603166394 0.784439731 0.876849301 0.734578568 0.741837514 1 9.519755778 -7.933766907 0.639937502 0.974593501 0.702411824 0.102612635 0.15567957 0.558369586 0.51909959 0.060152014 0.042674048 1.16E-08 7.933766907 -0.272181677 RTSEEDTPK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 RTSEEDTPKK 10 2 A0A1B0GW41;Q8WYH8-2;Q8WYH8 A0A1B0GW41 ING5 Inhibitor of growth protein 5 0 1 RTSEEDTPK(1)K 110.93 0.0028873 942930 338.88 264.87 367.78 502.91 570.85 673.32 536.02 717.29 298.47 339.04 FALSE TRUE FALSE 374.5249532 273.4519618 417.8991431 512.6445503 527.1115963 615.949348 475.7056189 698.9427604 296.392923 353.6576736 1.059004176 0.773210882 1.181648736 1.449550196 1.490457116 1.74165413 1.345101929 1.976325731 0.838078586 1 8.466209755 -6.163255391 1.784655009 1.0084458 1.632840281 0.762587871 0.179953525 0.123021349 0.766556324 0.025041502 0.046687281 6.87E-07 6.163255391 0.624394482 RTSS(ph)EDNLYLAVLR ddPTM_HeLa_SAHA_4h_R1 4 RTSSEDNLYLAVLR 14 1 Q15149-4 Q15149-4 PLEC Plectin 1 0 RT(0.008)S(0.215)S(0.777)EDNLYLAVLR;RT(0.024)S(0.013)S(0.963)EDNLYLAVLR;RT(0.002)S(0.006)S(0.992)EDNLYLAVLR;RT(0.008)S(0.228)S(0.764)EDNLYLAVLR ;;; 246.49 1.41E-33 211477000 3894.85 4124.35 4772.22 4781.15 4899.28 5078.5 5889.7 3976.69 3751.83 4607.59 TRUE FALSE FALSE 4304.528193 4257.981646 5422.553289 4873.696072 4523.898225 4645.783229 5226.975455 3874.972028 3725.72071 4806.245754 0.895611339 0.885926743 1.12823055 1.014033889 0.941254038 0.966613749 1.087538117 0.806236765 0.775183147 1 12.2306947 -4.227055203 23.48418636 0.968797569 0.806236008 0.197675383 0.096442662 8018.241676 5476195.749 0.010915553 2.49347019 5.93E-05 4.227055203 -0.162561561 RTSS(ph)LDTITGPYLTGQWPR ddPTM_HeLa_SAHA_4h_R1 1 RTSSLDTITGPYLTGQWPR 19 1 Q86VQ1;H7C2L5;H7C0Q2 Q86VQ1 GLCCI1 Glucocorticoid-induced transcript 1 protein 1 0 RT(0.056)S(0.056)S(0.83)LDT(0.058)ITGPYLTGQWPR 130.98 3.51E-05 11243000 434.78 447.98 463.68 625.41 475.23 602.62 618.16 555.9 576.02 659.39 TRUE FALSE FALSE 480.5121552 462.4948459 526.8678957 637.5157149 438.8179801 551.2733858 548.6030099 541.6808829 572.0114299 687.8195299 0.698602081 0.672407261 0.76599729 0.926864806 0.637984182 0.801479693 0.797597315 0.787533444 0.831630108 1 9.42588627 -9.342048072 1.041672983 1.001367819 0.758426757 0.247608968 0.091216515 0.30145238 0.580380025 0.054118491 0.013879079 4.55E-10 9.342048072 -0.242941062 RTSS(ph)TLDSEGTFNSYR ddPTM_HeLa_SAHA_4h_R1 1 RTSSTLDSEGTFNSYR 16 1 Q92609;Q92609-2;C9JNM0;C9JED7;F2Z3C3;C9K0P2;C9J397;C9JWX0;C9JW04;C9JDR8 Q92609 TBC1D5 TBC1 domain family member 5 1 0 RT(0.197)S(0.117)S(0.569)T(0.117)LDSEGTFNSYR 101.05 0.0018756 7416600 176.55 184.56 268.97 226.24 309.18 429.37 318.92 433.11 424.92 458.2 TRUE FALSE FALSE 195.120339 190.5398651 305.6238309 230.6192023 285.4906952 392.7852604 283.0342822 422.0316733 421.9629471 477.9552444 0.40823977 0.398656291 0.639440271 0.482512129 0.597316796 0.821803433 0.592177376 0.882994126 0.882850334 1 8.900731721 -9.468905307 1.227972042 0.998248001 0.580614278 0.426973417 0.15368535 0.314380705 0.8536743 0.109094068 0.027339968 3.40E-10 9.468905307 -0.417633722 RTST(ph)PVIMEGVQEETDTR ddPTM_HeLa_SAHA_4h_R1 2 RTSTPVIMEGVQEETDTR 18 1 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 RT(0.056)S(0.056)T(0.887)PVIMEGVQEETDTR;RT(0.063)S(0.374)T(0.563)PVIMEGVQEETDTR ; 143.58 0.00019383 9149000 1013.43 946.88 994.74 1198.6 1265.1 1420.65 1052.35 1139.47 1211.49 1295.61 TRUE FALSE FALSE 1120.027217 977.5595333 1130.297987 1221.800636 1168.168311 1299.602628 933.9368084 1110.324007 1203.059142 1351.470088 0.828747323 0.723330499 0.836347025 0.904053036 0.864368603 0.961621452 0.691052519 0.821567578 0.890185549 1 10.40031387 -9.057195114 0.849031344 0.999873192 0.830159616 0.20374078 0.081007527 0.474296285 0.623514605 0.049466532 0.01504558 8.77E-10 9.057195114 -0.169713576 RTSVLFSK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 RTSVLFSKK 9 2 A0A5F9ZH11;P55201-3;P55201;P55201-2 A0A5F9ZH11 BRPF1 Peregrin 0 1 ; RTSVLFSK(1)K;RTSVLFSK(1)K 129.82 0.00057003 4182500 1461.16 2002.96 5968.5 6519.8 6674.7 2317.17 13223.1 2633.1 449.34 652.58 FALSE TRUE FALSE 1614.851513 2067.857218 6781.856097 6646.000157 6163.285928 2119.73408 11735.20199 2565.749115 446.2130064 680.7159174 2.372284049 3.037768275 9.962828727 9.763250699 9.054123416 3.113977543 17.23949989 3.769192183 0.655505468 1 9.410909035 -6.845047356 4.526872047 1.700202817 8.995568225 0.473205623 3.660282181 0.126582232 4.751110734 0.534668452 0.714247494 1.43E-07 6.845047356 7.295365408 RTSVPS(ph)PEQPQPYR ddPTM_HeLa_SAHA_4h_R1 1 RTSVPSPEQPQPYR 14 1 Q8TEH3 Q8TEH3 DENND1A DENN domain-containing protein 1A 1 0 RT(0.001)S(0.001)VPS(0.997)PEQPQPYR 109.55 0.0061283 7748300 602.19 603 468.56 330.54 523.9 514.77 519.39 623.69 556.3 466.28 TRUE FALSE FALSE 665.5311071 622.5375956 532.4129166 336.9380797 483.7588952 470.9087 460.9468702 607.7369129 552.428663 486.3836127 1.368325515 1.279931271 1.094635803 0.692741431 0.994603606 0.968183729 0.947702304 1.249501211 1.135787984 1 8.925950812 -6.516570962 24.66770539 1.186767159 0.962803185 0.323910783 0.153466999 261.4684865 1022520.517 0.028878225 0.041694298 3.04E-07 6.516570962 -0.223963973 RVAAPQDGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 RVAAPQDGSPR 11 1 Q9HD15 Q9HD15 SRA1 Steroid receptor RNA activator 1 1 0 RVAAPQDGS(1)PR;RVAAPQDGS(1)PR ; 83.292 0.011055 5307100 1339.69 1622.99 1451.26 1532.13 1824.15 1902.04 1768.75 1344.87 1944.31 1624.75 TRUE FALSE FALSE 1480.604741 1675.575941 1649.030155 1561.786592 1684.384021 1739.975491 1569.725595 1310.470173 1930.779388 1694.800924 0.873615727 0.988656495 0.972993425 0.92151625 0.993853613 1.026654793 0.926200578 0.77322956 1.139236686 1 10.7269001 -4.281865958 4.15822541 0.952662647 0.761734604 0.37519359 0.072981896 0.133342094 4.988206517 0.007692527 0.072749846 5.23E-05 4.281865958 -0.190928043 RVAIFIEK ddPTM_HeLa_SAHA_4h_R1 2 RVAIFIEK 8 1 Q9P258 Q9P258 RCC2 Protein RCC2 0 0 ; ; 111.46 0.0015477 6610800 5341.2 5108.3 7495.7 7210.4 7481.6 7467.6 7967.3 4772.8 5316.3 7354.9 FALSE FALSE TRUE 5903.011922 5273.812272 8517.17496 7349.967718 6908.361424 6831.318468 7070.798435 4650.718687 5279.303435 7672.005733 0.769422251 0.687409845 1.110162747 0.958024273 0.900463538 0.89042145 0.921636229 0.606193328 0.688125585 1 12.90538808 -9.577287496 1.395682572 0.999108131 0.853658611 0 0.165390752 0.694058981 2.447633138 0.092822044 0.022276072 2.65E-10 9.577287496 -0.14544952 RVAMAAVDSDVESLPR ddPTM_HeLa_SAHA_4h_R1 1 RVAMAAVDSDVESLPR 16 1 F5H0R1 F5H0R1 TUT1 0 0 61.409 0.01641 3185900 848.75 736.57 925.87 790.32 962.49 1238.2 1000.1 885.99 649.58 859.81 FALSE FALSE TRUE 938.0254192 760.4353513 1052.042742 805.6177864 888.7442241 1132.698394 887.5661159 863.3276587 645.0595199 896.8806169 1.04587545 0.847866859 1.173001983 0.898244171 0.990928121 1.262931067 0.989614559 0.96258927 0.719225622 1 9.808772152 RVAS(ph)S(ph)SVS(ph)HGRS(ph)RIAR ddPTM_HeLa_SAHA_4h_R1 1 RVASSSVSHGRSRIAR 16 3 A0A494BYR6;Q86Y91-6;Q86Y91 A0A494BYR6 KIF18B Kinesin-like protein KIF18B 4 0 RVAS(0.74)S(0.659)S(0.659)VS(0.943)HGRS(1)RIAR 42.568 0.02042 7437700 2208.5 2108.2 2777.9 5250.6 2437.1 2292.3 2436 4460.8 3321.7 2535.5 TRUE FALSE FALSE 2440.800163 2176.507063 3156.457745 5352.232955 2250.369925 2096.983144 2161.894869 4346.699195 3298.584019 2644.817813 0.92286136 0.8229327 1.193449972 2.023667917 0.850860091 0.792864875 0.81740786 1.643477737 1.247187614 1 11.36895263 -6.734949133 20.31917351 0.952007785 1.202273313 0.070779909 0.376244675 52.16525224 40011.23776 0.057772762 0.081661011 1.84E-07 6.734949133 0.250265528 RVASS(ph)PAPPEGPSHPR ddPTM_HeLa_SAHA_4h_R1 1 RVASSPAPPEGPSHPR 16 1 H7BYJ3;O14578;O14578-4;O14578-3 H7BYJ3 CIT Citron Rho-interacting kinase 1 0 RVAS(0.256)S(0.744)PAPPEGPSHPR 70.907 0.011853 892950 132.55 67.724 228.81 60.928 0 189.82 145.64 0 0 243.01 TRUE FALSE FALSE 146.4922172 69.91830204 259.9910352 62.10734954 0 173.6462681 129.2522039 0 0 253.4873504 0.577907406 0.275825606 1.025656842 0.245011633 0 0.685029323 0.509896071 0 0 1 7.985769945 -12.6654388 0.107406143 2.709572582 5.72E-17 0 0.422691358 61.36309751 0.591860798 24.42577389 2.028692438 2.16E-13 12.6654388 -2.709572582 RVEHNQSYSQAGITETEWT(ph)S(ph)GS(ph)S(ph)K ddPTM_HeLa_SAHA_4h_R1 1 RVEHNQSYSQAGITETEWTSGSSK 24 1 P42167 P42167 TMPO "Lamina-associated polypeptide 2, isoforms beta/gamma;Thymopoietin;Thymopentin" 4 0 RVEHNQS(0.006)Y(0.063)S(0.074)QAGIT(0.275)ET(0.278)EWT(0.827)S(0.827)GS(0.825)S(0.825)K 46.971 0.012361 6037700 51.158 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 56.53903316 0 0 0 0 0 0 0 0 0 0 RVFGWEEDEDF ddPTM_HeLa_SAHA_4h_R1 2 RVFGWEEDEDF 11 1 Q9BWD3;Q17RB0;A6ZKI3 Q9BWD3 FAM127B;FAM127C;FAM127A Protein FAM127B;Protein FAM127C;Protein FAM127A 0 0 ; ; 128.12 0.018722 6951900 2309.61 1875.19 2089.41 2183.78 2431.72 2308.5 2626.5 1552.59 2101.7 2175.46 FALSE FALSE TRUE 2552.545377 1935.947386 2374.143914 2226.05022 2245.402139 2111.802813 2330.959307 1512.876996 2087.074099 2269.254727 1.124838629 0.85312035 1.046221865 0.980960927 0.989488801 0.930615143 1.027191562 0.666684519 0.919717859 1 11.14800285 -3.828271298 1.603827237 1.029257743 4.44E-24 0.50965337 0.083326202 1.927533781 1.821208217 0.012120559 4.369412213 0.000148501 3.828271298 -1.029257743 RVGDPPQPLPEEPMEVQGAERAS(ph)PEPQR ddPTM_HeLa_SAHA_4h_R1 2 RVGDPPQPLPEEPMEVQGAERASPEPQR 28 2 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6;P46379-5;A0A0G2JL47;H0Y710 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 1 0 RVGDPPQPLPEEPMEVQGAERAS(1)PEPQR;RVGDPPQPLPEEPMEVQGAERAS(1)PEPQR ; 85.387 4.32E-06 47399000 3805.3 5131.6 3663.9 3712.1 4742.3 6225.5 4404.7 4254.9 6060.3 3995.7 TRUE FALSE FALSE 4205.558913 5297.867207 4163.197211 3783.953063 4378.945999 5695.052376 3909.071563 4146.065819 6018.125879 4167.974181 1.009017506 1.271089257 0.998853887 0.907863844 1.050617352 1.366383794 0.937882864 0.994743642 1.443897111 1 12.02513063 -7.477979282 24.99524701 1.003978097 1.075857568 0 0.194028472 1013.592344 564264.2045 0.022992159 0.026156441 3.33E-08 7.477979282 0.071879471 RVGDPPQPLPEEPMEVQGAERAS(ph)PEPQRENASPAPGTTAEEAMSR ddPTM_HeLa_SAHA_4h_R1 1 RVGDPPQPLPEEPMEVQGAERASPEPQRENASPAPGTTAEEAMSR 45 3 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6;P46379-5;A0A0G2JL47;H0Y710 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 1 0 RVGDPPQPLPEEPMEVQGAERAS(0.972)PEPQRENAS(0.012)PAPGT(0.008)T(0.005)AEEAMS(0.003)R 45.634 0.0073341 10879000 529.54 435.65 488.77 539.22 497.93 569.72 702.23 626.38 341.91 565.48 TRUE FALSE FALSE 585.2394468 449.7653458 555.3770302 549.6573828 459.778711 521.1766508 623.2132322 610.3581066 339.5306205 589.8606102 0.992165669 0.762494288 0.941539443 0.931842834 0.779470104 0.883559 1.056543226 1.034749729 0.575611618 1 9.204230262 -7.472245154 24.99724465 0.996543893 0.911364653 0 0.159736723 482.2594899 238087.4398 0.015508992 0.017708996 3.37E-08 7.472245154 -0.085179239 RVIISAPSADAPMFVMGVNHEK ddPTM_HeLa_SAHA_4h_R1 6 RVIISAPSADAPMFVMGVNHEK 22 1 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ;;;;; ;;;;; 226.23 3.52E-53 125041000 11006.3 10857.8 10687.1 13607.3 14220.1 13864.6 14964.3 7583.65 14044.1 13732.4 FALSE FALSE TRUE 12163.99313 11209.59984 12143.48233 13870.68897 13130.55901 12683.25808 13280.47758 7389.671214 13946.36596 14324.47097 0.849175733 0.782548959 0.847743861 0.968321204 0.916652283 0.885425934 0.927118189 0.515877426 0.973604261 1 13.80619424 -13.52287875 0.023525147 2.123176623 3.56E-15 0.276590263 0.113106701 2145.362392 4.064822976 254.9740825 131.177535 3.00E-14 13.52287875 -2.123176623 RVIISAPSADAPMFVMGVNHEKYDNSLK ddPTM_HeLa_SAHA_4h_R1 4 RVIISAPSADAPMFVMGVNHEKYDNSLK 28 2 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ;;; ;;; 124.66 8.14E-12 29096800 7851.44 5083.89 8391.41 8238.5 8487.58 6999.51 9576.96 6187.73 3202.21 8725.2 FALSE FALSE TRUE 8677.290483 5248.611372 9534.947654 8397.968081 7837.263454 6403.11237 8499.335256 6029.456826 3179.92556 9101.386072 0.953403187 0.576682643 1.047636874 0.922713092 0.861106582 0.703531563 0.933850645 0.662476768 0.349389152 1 13.15187056 -1.00000075 0.087244836 1.144498859 0.073756558 0 0.247575281 156.4979942 0.993821971 1.703004635 20.18151386 0.099999827 1.00000075 -1.070742302 RVLGLVLLR ddPTM_HeLa_SAHA_4h_R1 2 RVLGLVLLR 9 1 J3QLE5;P14678-2;P63162;P14678;P63162-2;P14678-3 J3QLE5 SNRPN;SNRPB Small nuclear ribonucleoprotein-associated proteins B and B;Small nuclear ribonucleoprotein-associated protein N 0 0 ; ; 182.53 2.94E-17 1170500 901.19 876.57 4094.5 3080.9 1853.49 133.291 2554.6 265.38 473.27 457.8 FALSE FALSE TRUE 995.981299 904.9714431 4652.477137 3140.535275 1711.475997 121.9338569 2267.149685 258.5919639 469.9764755 477.5379984 2.085658738 1.895077347 9.742632319 6.576513879 3.583957721 0.255338543 4.747579653 0.541510759 0.98416561 1 8.899471725 -4.074043627 14.29374033 2.649957422 0.357279275 0.02386347 2.882983879 65175.87216 4429842.229 0.429845595 534606.3492 8.43E-05 4.074043627 -2.292678147 RVNDAEPGS(ph)PEAPQGK ddPTM_HeLa_SAHA_4h_R1 2 RVNDAEPGSPEAPQGK 16 1 Q8N8A6 Q8N8A6 DDX51 ATP-dependent RNA helicase DDX51 1 0 RVNDAEPGS(1)PEAPQGK;RVNDAEPGS(1)PEAPQGK ; 155.08 1.19E-05 40289000 8078.7 7626.6 6777 8396.2 8725.4 9023 8905.4 9439.6 8406.6 7864.2 TRUE FALSE FALSE 8928.454732 7873.706844 7700.534267 8558.720592 8056.861737 8254.189638 7903.340954 9198.1487 8348.097786 8203.264148 1.088402686 0.959826077 0.938715873 1.043331098 0.982153152 1.006207954 0.963438555 1.121279107 1.017655611 1 13.00198237 -7.255390274 24.87861346 1.041745713 0.999180851 0.070378021 0.053083696 773.2877915 3180370.927 0.009274925 0.011194987 5.55E-08 7.255390274 -0.042564862 RVNNGNTAPEDS(ph)SPAKK ddPTM_HeLa_SAHA_4h_R1 2 RVNNGNTAPEDSSPAKK 17 2 E9PJ27;G3V167;Q9UGN5-2;Q9UGN5 E9PJ27 PARP2 Poly [ADP-ribose] polymerase 2 1 0 RVNNGNTAPEDS(0.5)S(0.5)PAKK;RVNNGNTAPEDS(0.747)S(0.253)PAKK ; 100.27 0.0011098 15361000 8997.5 7297.2 6783.7 7098.2 8818.8 8819.7 8585.3 8856.5 7976.9 8944.2 TRUE FALSE FALSE 9943.898332 7533.634068 7708.147308 7235.595925 8143.105449 8068.211942 7619.259449 8629.963554 7921.388103 9329.828234 1.065817942 0.807478324 0.826183196 0.775533669 0.872803362 0.864776043 0.816655919 0.924986327 0.849039007 1 13.18763481 -7.260907033 24.99972145 1.031080697 0.839277024 0.333244058 0.070844693 14.33416482 673154.9572 0.007404884 0.008778756 5.48E-08 7.260907033 -0.191803673 RVNNGNTAPEDSS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 2 RVNNGNTAPEDSSPAK 16 1 E9PJ27;G3V167;Q9UGN5-2;Q9UGN5 E9PJ27 PARP2 Poly [ADP-ribose] polymerase 2 1 0 RVNNGNTAPEDS(0.075)S(0.925)PAK;RVNNGNTAPEDS(0.04)S(0.96)PAK ; 152.13 2.32E-05 14062200 2977.9 2697.8 2518.88 2171.23 3019.8 2716.6 2756.6 2908.2 2262.56 2668.1 TRUE FALSE FALSE 3291.129185 2785.21049 2862.139849 2213.257296 2788.423576 2485.130397 2446.420113 2833.812455 2246.814661 2783.134848 1.182525952 1.000745793 1.028387054 0.795238972 1.001900277 0.892924897 0.879016018 1.018208822 0.80729637 1 11.4424951 -6.670971974 2.377699417 1.084522949 0.919435542 0 0.116720348 0.211211408 2.440025486 0.014583969 0.02132215 2.13E-07 6.670971974 -0.165087407 RVNNGNTAPEDSS(ph)PAKK ddPTM_HeLa_SAHA_4h_R1 1 RVNNGNTAPEDSSPAKK 17 2 E9PJ27;G3V167;Q9UGN5-2;Q9UGN5 E9PJ27 PARP2 Poly [ADP-ribose] polymerase 2 1 0 RVNNGNTAPEDS(0.42)S(0.58)PAKK 83.063 0.0031519 6891600 6438.5 5030.3 4683.9 5077.2 5794.2 6753.1 5492.8 5877.8 5173.9 5880.9 TRUE FALSE FALSE 7115.730971 5193.285021 5322.197499 5175.476548 5350.249648 6177.697888 4874.735688 5727.454387 5137.894409 6134.454379 1.159961511 0.846576517 0.867591015 0.843673492 0.872163899 1.007049284 0.794648617 0.933653432 0.837547089 1 12.58271932 -7.252167988 24.99558053 1.075537381 0.880045959 0.108193135 0.099211615 335.3990585 904233.4924 0.012766278 0.015521596 5.60E-08 7.252167988 -0.195491421 RVNS(ph)GDTEVGSSLLR ddPTM_HeLa_SAHA_4h_R1 4 RVNSGDTEVGSSLLR 15 1 A0A499FJI4;O75592-2;O75592 A0A499FJI4 MYCBP2 E3 ubiquitin-protein ligase MYCBP2 1 0 RVNS(0.918)GDT(0.082)EVGSSLLR;RVNS(1)GDTEVGSSLLR;RVNS(0.996)GDT(0.004)EVGSSLLR;RVNS(0.992)GDT(0.007)EVGSSLLR ;;; 139.38 8.42E-05 49028400 3230.93 3704.14 3773.75 4231.37 4876.5 5187.6 4904.4 4672.44 3033.23 3737.88 TRUE FALSE FALSE 3570.774041 3824.156566 4288.016997 4313.274285 4502.863624 4745.587295 4352.544004 4552.92575 3012.121505 3899.0383 0.915808917 0.98079482 1.099762728 1.106240553 1.154865194 1.217117384 1.116312195 1.167704803 0.772529345 1 11.92890261 -6.606952515 1.88723011 0.959136891 1.156841679 0.720269946 0.067938964 0.096051176 0.693283288 0.006932894 0.010617042 2.47E-07 6.606952515 0.197704788 RVPPPALS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 RVPPPALSR 9 1 Q14152-2;Q14152 Q14152-2 EIF3A Eukaryotic translation initiation factor 3 subunit A 1 0 RVPPPALS(1)R 67.519 0.022535 3738500 944.45 1143.8 973.43 1217 1276.6 1212.1 1276.4 902.65 1290.7 1275 TRUE FALSE FALSE 1043.791584 1180.85987 1106.083971 1240.556795 1178.787184 1108.822261 1132.776113 879.56152 1281.717914 1329.97149 0.784822526 0.887883597 0.831659911 0.932769465 0.886325153 0.83371882 0.851729621 0.661338628 0.963718338 1 10.3771796 -9.422387458 1.048229869 1.003903005 0.836252451 0.414291761 0.070012082 0.41556286 0.785648463 0.053486344 0.012265712 3.78E-10 9.422387458 -0.167650554 RVPS(ph)INQK ddPTM_HeLa_SAHA_4h_R1 1 RVPSINQK 8 1 A0A2R8YFT6;Q92834-4;Q92834-2;Q92834 A0A2R8YFT6 RPGR X-linked retinitis pigmentosa GTPase regulator 1 0 RVPS(1)INQK 68.786 0.020942 5079900 2043.7 2395.8 1561.7 2196.4 2284.5 2868.8 3119.5 2446.4 2922.3 2532.1 TRUE FALSE FALSE 2258.665743 2473.425492 1774.520343 2238.914498 2109.462104 2624.362101 2768.48565 2383.82463 2901.963476 2641.271223 0.855143434 0.936452671 0.671843288 0.847665502 0.798654105 0.993598112 1.048164091 0.902529286 1.09869954 1 11.36701674 -5.153061899 24.07031715 0.896374009 0.988107188 0.123038833 0.11325932 34.4871325 7636.441749 0.015254163 0.038890647 7.03E-06 5.153061899 0.091733179 RVPS(ph)PTPAPK ddPTM_HeLa_SAHA_4h_R1 4 RVPSPTPAPK 10 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 RVPS(0.999)PT(0.001)PAPK;RVPS(0.994)PT(0.006)PAPK;RVPS(0.988)PT(0.012)PAPK;RVPS(0.997)PT(0.003)PAPK ;;; 132.56 0.0038178 2142870000 31627 28995.3 29661.5 29411.7 31883.7 36069.4 33946.2 31391.8 31927.6 29067.8 TRUE FALSE FALSE 34953.67297 29934.76674 33703.61475 29981.00598 29440.77779 32996.0842 30126.48423 30588.84321 31705.41323 30321.05511 1.15278551 0.987260062 1.111558111 0.98878505 0.970968117 1.088223483 0.993582978 1.008831754 1.045656661 1 14.88803234 -6.248674079 24.72300059 1.068951222 1.011330484 0.16184202 0.054023198 1017.494435 1970616.768 0.010081275 0.016645137 5.64E-07 6.248674079 -0.057620738 RVPSPTPAPK ddPTM_HeLa_SAHA_4h_R1 1 RVPSPTPAPK 10 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 0 0 91.701 0.0057697 0 2814.5 2590.8 2699.1 2876.9 2998 3136.6 2741 3064.5 2975.5 3035.6 FALSE FALSE TRUE 3110.542023 2674.74362 3066.919292 2932.58656 2768.293888 2869.344034 2432.575466 2986.114527 2954.793253 3166.479572 0.982334467 0.844705787 0.968558054 0.926134685 0.874249723 0.906162181 0.768227115 0.943039252 0.933147739 1 11.62866406 -6.761072815 0.466856386 1.003639453 0.855411999 0.216178737 0.058785285 0.600491971 0.291361563 0.018735776 0.034545491 1.73E-07 6.761072815 -0.148227454 RVQS(ph)SPNLLAAGR ddPTM_HeLa_SAHA_4h_R1 2 RVQSSPNLLAAGR 13 1 O94875-11;O94875-9;O94875-12;C9J4Z9;C9IZT7;C9JWC3;C9JN77;C9JI79;C9J372;C9JZ60;C9JDX2;C9JBB0;C9JEA9;C9JG84;C9J9D3 O94875-11 SORBS2 Sorbin and SH3 domain-containing protein 2 1 0 RVQS(0.742)S(0.258)PNLLAAGR;RVQS(0.852)S(0.148)PNLLAAGR ; 93.181 0.0045949 12339900 477.44 443.88 256.497 773.39 542.62 477.6 798.23 696.88 590.29 523.73 TRUE FALSE FALSE 527.6593298 458.2620032 291.4510754 788.3600818 501.0445728 436.9057931 708.4110596 679.0548187 586.1821238 546.3105634 0.96585965 0.838830574 0.533489731 1.443062124 0.917142385 0.799738871 1.296718583 1.242983139 1.072983323 1 9.093577509 -4.745596555 24.99855674 0.959192671 1.269851092 0.259833767 0.217516724 243.4436126 384125.6997 0.027893221 0.10366149 1.80E-05 4.745596555 0.310658421 RVS(ph)EVEEEKEPVPQPLPSDDTR ddPTM_HeLa_SAHA_4h_R1 2 RVSEVEEEKEPVPQPLPSDDTR 22 2 O43290 O43290 SART1 U4/U6.U5 tri-snRNP-associated protein 1 1 0 RVS(1)EVEEEKEPVPQPLPSDDTR;RVS(0.603)EVEEEKEPVPQPLPS(0.395)DDT(0.001)R ; 64.377 0.0021182 40527000 3154.7 4229.1 3649.9 4379.5 4892.7 5217.4 5264.2 4459.3 5635.1 4304.8 TRUE FALSE FALSE 3486.52582 4366.125615 4147.289364 4464.271555 4517.822383 4772.848168 4671.858361 4345.237563 5595.88488 4490.400995 0.776439749 0.972324213 0.92358998 0.994181045 1.006106668 1.062900212 1.040410058 0.967672501 1.246188233 1 12.13262857 -6.307917502 1.558545659 0.896989685 1.024428104 0 0.125351425 0.366288793 1.742704946 0.014436219 0.025946063 4.92E-07 6.307917502 0.127438419 RVS(ph)GDAAQDLDR ddPTM_HeLa_SAHA_4h_R1 3 RVSGDAAQDLDR 12 1 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 RVS(1)GDAAQDLDR;RVS(1)GDAAQDLDR;RVS(1)GDAAQDLDR ;; 144.4 0.00027036 34978000 4302.26 4111.79 4490.46 5105.1 5703.8 5941.5 5821.1 5520.2 4647.08 4673.52 TRUE FALSE FALSE 4754.791446 4245.014694 5102.396503 5203.916593 5266.776076 5435.250774 5166.094508 5379.001277 4614.740592 4875.018319 0.97533817 0.870768973 1.046641504 1.067466059 1.080360264 1.114919046 1.059707712 1.103380731 0.946609898 1 12.25119192 -6.534181917 24.99985847 0.978233434 1.082329812 0.715967123 0.039080166 106.4783644 235503.5028 0.00614359 0.008692658 2.92E-07 6.534181917 0.104096378 RVS(ph)LSEIGFGK ddPTM_HeLa_SAHA_4h_R1 1 RVSLSEIGFGK 11 1 E5RJM2;E5RGN0;A0A087WZU2;Q00536;Q00536-3;Q00536-2;H0YBX5 E5RJM2 CDK16 Cyclin-dependent kinase 16 1 0 RVS(0.959)LS(0.041)EIGFGK 109.55 0.002245 17814000 7674.4 9301.3 8466.7 11111 11321 11042 11261 9519.2 10420 9468.7 TRUE FALSE FALSE 8481.628603 9602.668223 9620.497783 11326.06947 10453.58743 10101.15948 9993.882643 9275.712648 10347.48637 9876.941996 0.858730223 0.972230902 0.974036072 1.146718233 1.058382992 1.022701104 1.011839762 0.939127986 1.047640694 1 13.26984872 -6.635595608 3.165721681 0.933898564 1.036249428 0.090887908 0.069328176 0.235382201 4.718883893 0.011609859 0.016830295 2.31E-07 6.635595608 0.102350864 RVS(ph)LTQR ddPTM_HeLa_SAHA_4h_R1 1 RVSLTQR 7 1 Q96I34 Q96I34 PPP1R16A Protein phosphatase 1 regulatory subunit 16A 1 0 RVS(0.827)LT(0.173)QR 63.216 0.022739 1728100 480.28 687.67 527.85 501.82 522.59 384.42 677.36 698.26 467.29 460.66 TRUE FALSE FALSE 530.798054 709.9509592 599.7826491 511.5334517 482.5492671 351.6652533 601.1416701 680.3995203 464.0380908 480.521307 1.104629589 1.477459894 1.248191579 1.064538542 1.004220333 0.731841124 1.251019801 1.415961187 0.965697221 1 8.908456593 -8.211286827 1.576073739 1.024890888 1.152550696 0.103434878 0.201787946 0.769616102 3.857268249 0.051774176 0.041081669 6.15E-09 8.211286827 0.127659809 RVS(ph)LVGADDLR ddPTM_HeLa_SAHA_4h_R1 2 RVSLVGADDLR 11 1 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;A0A0G2JPP5;Q14160-3;H0YCG0 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 RVS(1)LVGADDLR;RVS(1)LVGADDLR ; 97.223 0.0053189 15267800 2908 3031.4 2602.8 3479.3 4073.3 3068.7 4304.7 3919.4 3130.1 2559.3 TRUE FALSE FALSE 3213.876782 3129.619349 2957.496029 3546.646883 3761.204634 2807.229496 3820.323827 3819.147423 3108.317379 2669.643948 1.203859708 1.172298408 1.107824147 1.328509326 1.408878752 1.05153704 1.431023725 1.430583066 1.164319078 1 11.38243163 -1.000000004 0.035683042 0.11814436 2.974591059 0.392499523 0.118294871 467.9238924 1.288804868 30.45723963 86.18805577 0.099999999 1.000000004 2.856446699 RVS(ph)PLNLSSVT(ph)P ddPTM_HeLa_SAHA_4h_R1 3 RVSPLNLSSVTP 12 1 Q9UJX2-3;Q9UJX2 Q9UJX2-3 CDC23 Cell division cycle protein 23 homolog 2 0 RVS(1)PLNLSSVT(1)P;RVS(0.999)PLNLS(0.001)SVT(1)P;RVS(0.998)PLNLS(0.002)SVT(1)P ;; 112.96 0.0036723 14085000 3600.5 3507.8 3631.1 3749.6 4475.8 4600.6 3711.6 4077.6 4540.5 3927.2 TRUE FALSE FALSE 3979.21711 3621.455022 4125.927398 3822.17893 4132.865171 4208.602998 3293.961 3973.300896 4508.902291 4096.520811 0.971365042 0.884031887 1.00717843 0.933030517 1.008872007 1.027360336 0.804087456 0.969920838 1.100666272 1 12.00018343 -5.317290516 0.00956617 1.891865104 2.50E-08 0.183681219 0.070240657 6339.987798 14.23588362 1344.801341 1472.069056 4.82E-06 5.317290516 -1.891865079 RVS(ph)PLNLSSVTP ddPTM_HeLa_SAHA_4h_R1 1 RVSPLNLSSVTP 12 1 Q9UJX2-3;Q9UJX2 Q9UJX2-3 CDC23 Cell division cycle protein 23 homolog 1 0 RVS(0.998)PLNLS(0.002)SVTP 115.92 0.0049455 41427000 2570.1 2769.1 2993.4 3293.7 3529.3 2960.9 2833.2 2353.6 1922.4 2185.8 TRUE FALSE FALSE 2840.43491 2858.820657 3401.324963 3357.454326 3258.885796 2708.614662 2514.400879 2293.39832 1909.021862 2280.040535 1.245782637 1.253846418 1.491782673 1.472541507 1.429310465 1.187967767 1.102787797 1.005858573 0.837275405 1 11.15484376 -8.749779723 0.816171962 1.011665171 1.283392345 0.411628707 0.160124365 0.577423589 0.756955522 0.085435347 0.034807097 1.78E-09 8.749779723 0.271727174 RVS(ph)QDLEVEKPDASPTSLQLR ddPTM_HeLa_SAHA_4h_R1 1 RVSQDLEVEKPDASPTSLQLR 21 2 O94885 O94885 SASH1 SAM and SH3 domain-containing protein 1 1 0 RVS(1)QDLEVEKPDASPTSLQLR 56.553 0.014609 10598000 640.08 517.58 503.42 740.97 551.88 834.85 644.1 775.77 782.42 639.65 TRUE FALSE FALSE 707.4065512 534.3499316 572.0234559 755.3125458 509.5950736 763.7160833 571.6241728 755.9269267 776.9750755 667.2284419 1.060216422 0.800850051 0.857312758 1.132014912 0.763749028 1.144609605 0.856714338 1.132935707 1.164481348 1 9.382036977 RVS(ph)VCAETYNPDEEEEDTDPR ddPTM_HeLa_SAHA_4h_R1 6 RVSVCAETYNPDEEEEDTDPR 21 1 P13861-2;P13861 P13861-2 PRKAR2A cAMP-dependent protein kinase type II-alpha regulatory subunit 1 0 RVS(0.953)VCAET(0.047)YNPDEEEEDTDPR;RVS(0.945)VCAET(0.051)Y(0.004)NPDEEEEDTDPR;RVS(0.999)VCAET(0.001)YNPDEEEEDTDPR;RVS(0.999)VCAET(0.001)YNPDEEEEDTDPR;RVS(0.972)VCAET(0.025)Y(0.002)NPDEEEEDT(0.001)DPR;RVS(0.993)VCAET(0.006)Y(0.001)NPDEEEEDTDPR ;;;;; 149.9 2.39E-06 952753000 9015.27 9416.13 8594.89 9568.56 9869.39 10692.1 10963.36 10562.27 9918.18 9465.68 TRUE FALSE FALSE 9963.537462 9721.21879 9766.156849 9753.773315 9113.19947 9781.072928 9729.733879 10292.10243 9849.158578 9873.791789 1.009089282 0.984547679 0.989098926 0.987844743 0.922968568 0.990609599 0.985410072 1.042365754 0.997505192 1 13.26938851 -7.250648721 21.65600924 1.004292161 0.984017991 0.063905474 0.027027984 203.796603 409002.3947 0.004437547 0.005396816 5.62E-08 7.250648721 -0.02027417 RVSLEPHQGPGT(ph)PESK ddPTM_HeLa_SAHA_4h_R1 1 RVSLEPHQGPGTPESK 16 1 A0A087WY61;Q14980-5;Q14980-2;Q14980;H0YFY6 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 1 0 RVSLEPHQGPGT(0.998)PES(0.002)K 92.897 0.0015823 0 1033 1510.9 927.15 1235.8 1933.8 2652.2 1607.9 1796 2002.3 1744.2 TRUE FALSE FALSE 1141.65568 1559.854151 1053.497174 1259.720696 1785.632662 2426.217639 1426.97486 1750.060921 1988.365831 1819.400998 0.627489861 0.857344892 0.579035174 0.692382107 0.981439861 1.333525508 0.784310255 0.961888513 1.092868386 1 10.82924783 -5.637442957 6.618522877 0.794475027 1.026897732 0.214458063 0.194259089 0.247893211 13.47512159 0.029038459 0.058380878 2.30E-06 5.637442957 0.232422705 RVSS(ph)VPSR ddPTM_HeLa_SAHA_4h_R1 1 RVSSVPSR 8 1 A0A0D9SF60;Q99569-2;Q99569 A0A0D9SF60 PKP4 Plakophilin-4 1 0 RVS(0.081)S(0.919)VPSR 91.469 0.0088678 3356700 649.27 979.16 844.55 825.66 876.3 1166.9 1268.8 526.06 893.79 1001.5 TRUE FALSE FALSE 717.5631976 1010.885426 959.6408758 841.6418432 809.1580833 1067.473555 1126.031285 512.6041469 887.5700426 1044.679566 0.686873967 0.967651191 0.918598302 0.805645932 0.77455146 1.02181912 1.077872413 0.490680744 0.849609843 1 10.02884478 -9.719451389 1.634533468 0.999860926 0.830285737 0.001372239 0.168705034 0.649740543 3.138596884 0.1165902 0.025605902 1.91E-10 9.719451389 -0.169575189 RVTFGEDLS(ph)PEVFDESLPANTPLR ddPTM_HeLa_SAHA_4h_R1 1 RVTFGEDLSPEVFDESLPANTPLR 24 1 E9PEI0;Q69YH5 E9PEI0 CDCA2 Cell division cycle-associated protein 2 1 0 RVT(0.01)FGEDLS(0.99)PEVFDESLPANTPLR 69.272 0.0026825 0 151.66 246.28 250.02 168.05 124.87 291.88 274.56 209.93 244.08 66.757 TRUE FALSE FALSE 167.6122946 254.2596336 284.0914236 171.3028508 115.3024876 267.0101819 243.6657862 204.5602946 242.3814274 69.63522097 2.407004563 3.651307916 4.079708797 2.460002975 1.655807018 3.83441279 3.499174452 2.937598125 3.480730355 1 6.12174529 -8.288536629 0.778801009 1.141574208 3.138134608 0 1.010355857 0.320580345 0.415923235 0.294041197 0.172600094 5.15E-09 8.288536629 1.9965604 RVTIMPK ddPTM_HeLa_SAHA_4h_R1 1 RVTIMPK 7 1 K7EK07;P84243;Q6NXT2;Q71DI3;P68431;Q5TEC6;Q16695;A0A590UJL8 K7EK07 H3F3B;H3F3A;H3F3C;HIST2H3A;HIST1H3A;HIST2H3PS2;HIST3H3 Histone H3;Histone H3.3;Histone H3.3C;Histone H3.2;Histone H3.1;Histone H3.1t 0 0 82.241 0.01356 1943200 1400.7 2332.3 2207.1 1963.6 2403.9 2053.3 2741.4 1336.1 935.53 2265.9 FALSE FALSE TRUE 1548.032053 2407.86805 2507.872094 2001.608317 2219.713701 1878.347288 2432.930457 1301.924497 929.0195706 2363.594038 0.654948366 1.018731648 1.061041809 0.846849453 0.93912646 0.794699622 1.029335164 0.550824074 0.39305378 1 11.20676655 -4.242055485 23.12331676 0.875314529 0.550823239 0.177902878 0.196684928 1573.314853 1876745.45 0.021370842 0.934532228 5.73E-05 4.242055485 -0.32449129 RVTQGAAS(ph)PGHGIQEK ddPTM_HeLa_SAHA_4h_R1 1 RVTQGAASPGHGIQEK 16 1 G5E9C0;Q9HB58-2;Q9HB58-5;Q9HB58-3;Q9HB58-7;Q9HB58;Q9HB58-6;Q9HB58-4 G5E9C0 SP110 Sp110 nuclear body protein 1 0 RVT(0.14)QGAAS(0.86)PGHGIQEK 58.796 0.02125 3661000 1434.3 1131 1144.1 1902.8 1554.3 2034.3 2302.5 1789.9 1426.4 1752.6 TRUE FALSE FALSE 1585.166255 1167.645142 1300.01199 1939.631445 1435.20987 1860.966195 2043.41664 1744.11695 1416.473566 1828.163163 0.867081389 0.638698539 0.711102825 1.06097283 0.785055677 1.017943164 1.117743034 0.954026963 0.774806973 1 10.83617912 -5.073478329 9.275498864 0.896357465 1.043825602 0.228893217 0.134200335 0.555640379 67.17644119 0.01986776 0.050853255 8.44E-06 5.073478329 0.147468137 RVTQHES(ph)DNENEIQIQNK ddPTM_HeLa_SAHA_4h_R1 2 RVTQHESDNENEIQIQNK 18 1 Q5VZL5-2;Q5VZL5-4;Q5VZL5 Q5VZL5-2 ZMYM4 Zinc finger MYM-type protein 4 1 0 RVT(0.351)QHES(0.649)DNENEIQIQNK;RVT(0.106)QHES(0.894)DNENEIQIQNK ; 110.34 0.00062199 20607600 3632.3 3118 2893 3406.2 3897.5 3761.2 3831.3 4154.6 2970 3330.7 TRUE FALSE FALSE 4014.36198 3219.025246 3287.242974 3472.131926 3598.874392 3440.7246 3400.192041 4048.331348 2949.331528 3474.302777 1.155443908 0.926524098 0.946159038 0.999375169 1.035855141 0.990335276 0.978668889 1.165221228 0.84889882 1 11.76250777 -7.258666506 24.99547203 1.073404067 1.002954235 0 0.099881649 367.8566148 3315966.09 0.013667819 0.016339148 5.51E-08 7.258666506 -0.070449832 RVVLGDGVQLPPGDY(ph)STTPGGTLFS(ph)TTPGGTR ddPTM_HeLa_SAHA_4h_R1 2 RVVLGDGVQLPPGDYSTTPGGTLFSTTPGGTR 32 1 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 2 0 RVVLGDGVQLPPGDY(0.278)S(0.266)T(0.266)T(0.266)PGGT(0.173)LFS(0.247)T(0.247)T(0.238)PGGT(0.02)R;RVVLGDGVQLPPGDY(0.363)S(0.286)T(0.286)T(0.088)PGGT(0.207)LFS(0.241)T(0.241)T(0.241)PGGT(0.047)R ; 54.683 0.0021858 3106100 238.94 465.74 309.17 150.12 409.55 287.09 386.96 349.42 322.16 388.52 TRUE FALSE FALSE 264.0728055 480.8302816 351.3020775 153.0257897 378.1703675 262.6283169 343.4182424 340.4823424 319.9180623 405.2709986 0.651595615 1.186441377 0.866832511 0.377588799 0.933129607 0.648031361 0.847379269 0.84013498 0.789392933 1 8.662743129 RVVLGDGVQLPPGDY(ph)STTPGGTLFSTT(ph)PGGTR ddPTM_HeLa_SAHA_4h_R1 1 RVVLGDGVQLPPGDYSTTPGGTLFSTTPGGTR 32 1 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 2 0 RVVLGDGVQLPPGDY(0.412)S(0.077)T(0.387)T(0.143)PGGT(0.03)LFS(0.255)T(0.24)T(0.436)PGGT(0.019)R 62.372 0.00052949 34943000 1256.4 1803 1182.2 1418.7 1292.7 1814.6 1506.9 1352.8 1991.5 1183.1 TRUE FALSE FALSE 1388.553917 1861.418383 1343.304059 1446.16099 1193.653605 1659.985871 1337.339646 1318.197335 1977.640989 1234.109231 1.12514669 1.508309262 1.088480684 1.171825762 0.967218764 1.345088287 1.083647713 1.068136678 1.602484561 1 10.26925438 -8.384999016 1.276941875 1.022992569 1.170476633 0 0.234405777 0.527414097 1.741290509 0.040370817 0.027862944 4.12E-09 8.384999016 0.147484064 RVVLGDGVQLPPGDYS(ph)TTPGGTLFS(ph)TTPGGTR ddPTM_HeLa_SAHA_4h_R1 1 RVVLGDGVQLPPGDYSTTPGGTLFSTTPGGTR 32 1 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 2 0 RVVLGDGVQLPPGDY(0.058)S(0.506)T(0.331)T(0.272)PGGT(0.106)LFS(0.376)T(0.115)T(0.215)PGGT(0.022)R 71.817 0.00012128 99973000 1763.8 2168 1874.4 1916.4 2012.8 2647.5 2243 2067.7 2641.5 2083.1 TRUE FALSE FALSE 1949.324577 2238.244622 2129.833471 1953.494693 1858.579699 2421.918106 1990.611737 2014.811228 2623.117586 2172.912635 0.897102141 1.03006655 0.980174461 0.899021277 0.855340279 1.114595252 0.916102978 0.927239869 1.207189624 1 11.08541446 RVVLGDGVQLPPGDYST(ph)TPGGTLFS(ph)TTPGGTR ddPTM_HeLa_SAHA_4h_R1 2 RVVLGDGVQLPPGDYSTTPGGTLFSTTPGGTR 32 1 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 2 0 RVVLGDGVQLPPGDY(0.065)S(0.084)T(0.402)T(0.402)PGGT(0.132)LFS(0.301)T(0.301)T(0.301)PGGT(0.012)R;RVVLGDGVQLPPGDY(0.139)S(0.165)T(0.549)T(0.199)PGGT(0.067)LFS(0.456)T(0.107)T(0.302)PGGT(0.016)R ; 81.335 1.29E-06 147398000 2431.9 2820.2 2503.7 2470.9 2921.2 3140.5 2889.1 2700.7 2933.8 2402.2 TRUE FALSE FALSE 2687.6984 2911.57633 2844.891197 2518.727842 2697.378287 2872.911732 2564.010864 2631.620005 2913.383447 2505.770598 1.072603534 1.161948477 1.135335852 1.005170962 1.076466572 1.146518254 1.023242457 1.050223834 1.162669659 1 11.29103863 -8.731101061 0.962495922 1.00604859 1.083909137 0 0.069420927 0.494097728 0.91425167 0.02143245 0.010070189 1.86E-09 8.731101061 0.077860546 RVVLGDGVQLPPGDYSTT(ph)PGGTLFS(ph)TTPGGTR ddPTM_HeLa_SAHA_4h_R1 1 RVVLGDGVQLPPGDYSTTPGGTLFSTTPGGTR 32 1 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 2 0 RVVLGDGVQLPPGDY(0.055)S(0.231)T(0.261)T(0.389)PGGT(0.11)LFS(0.634)T(0.165)T(0.146)PGGT(0.01)R 81.956 1.21E-06 40152000 2911.2 2898.3 2427.8 3052 2963.7 3981.2 2848.3 3111.9 3382.5 2919.2 TRUE FALSE FALSE 3217.413373 2992.206822 2758.647941 3111.075873 2736.621946 3641.979362 2527.801788 3032.302104 3358.960907 3045.060998 1.056600631 0.982642654 0.905941767 1.021679328 0.898708416 1.196028377 0.830131741 0.995809971 1.103084933 1 11.57225541 -7.122529617 7.078201996 1.026634027 0.974303349 0.103917815 0.095133496 0.543018826 29.36922413 0.014163911 0.017382476 7.54E-08 7.122529617 -0.052330678 RVVLGDGVQLPPGDYSTT(ph)PGGTLFSTT(ph)PGGTR ddPTM_HeLa_SAHA_4h_R1 1 RVVLGDGVQLPPGDYSTTPGGTLFSTTPGGTR 32 1 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 2 0 RVVLGDGVQLPPGDY(0.005)S(0.077)T(0.295)T(0.61)PGGT(0.019)LFS(0.275)T(0.249)T(0.463)PGGT(0.008)R 95.37 6.80E-09 48384000 2730.9 2909.5 2390.4 2887.2 2909.1 3601.6 3092.8 2420.2 3226.7 2952.9 TRUE FALSE FALSE 3018.148592 3003.769709 2716.151263 2943.085931 2686.205386 3294.723418 2744.790004 2358.294788 3204.245132 3080.21397 0.979850303 0.975182159 0.881806033 0.955481002 0.872084022 1.069641087 0.89110368 0.765626937 1.04026706 1 11.58881486 -4.42799085 3.623552172 0.97497222 0.769921047 0.537339913 0.058601289 0.130775352 2.895738724 0.007509561 0.05366808 3.73E-05 4.42799085 -0.205051172 RVVLGDGVQLPPGDYSTTPGGT(ph)LFSTTPGGTR ddPTM_HeLa_SAHA_4h_R1 1 RVVLGDGVQLPPGDYSTTPGGTLFSTTPGGTR 32 1 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 1 0 RVVLGDGVQLPPGDY(0.062)S(0.029)T(0.07)T(0.175)PGGT(0.449)LFS(0.138)T(0.056)T(0.018)PGGT(0.003)R 52.402 0.0093056 17951000 241.5 308.2 286.05 131.32 463.95 192.36 260.24 272.04 445.33 315.02 TRUE FALSE FALSE 266.902078 318.1858822 325.0314043 133.8618885 428.4022512 175.9698458 230.9571103 265.0816107 442.2309123 328.6020539 0.812234966 0.968301563 0.989133819 0.407367778 1.303711423 0.535510487 0.702847434 0.80669493 1.34579473 1 8.360197687 -13.52287753 0.038562289 1.977798227 0.213041324 0.181118359 0.258099821 1178.870371 3.632299863 141.8042096 47.94732314 3.00E-14 13.52287753 -1.764756903 RVVLGDGVQLPPGDYSTTPGGTLFSTT(ph)PGGTR ddPTM_HeLa_SAHA_4h_R1 1 RVVLGDGVQLPPGDYSTTPGGTLFSTTPGGTR 32 1 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 1 0 RVVLGDGVQLPPGDY(0.031)S(0.021)T(0.021)T(0.021)PGGT(0.041)LFS(0.197)T(0.197)T(0.439)PGGT(0.031)R 72.092 0.00011902 48482000 527.81 354.36 265.71 255.77 396.58 470.14 421.41 365.46 286.28 295.46 TRUE FALSE FALSE 583.3274775 365.8414965 301.919575 260.7207982 366.1941261 430.0814271 373.9918377 356.1120624 284.2877542 308.1987265 1.892699182 1.187031175 0.97962629 0.845950277 1.188175338 1.395467891 1.213476259 1.155462472 0.922417031 1 8.267717091 -7.025505191 24.82500651 1.427779382 1.13100839 0 0.289709722 1052.499465 1024429.141 0.059345326 0.072847101 9.43E-08 7.025505191 -0.296770992 RWDQTADQTPGAT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 RWDQTADQTPGATPK 15 1 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 RWDQTADQT(0.004)PGAT(0.996)PK 165.24 0.00020566 21619000 2374.8 2492.1 2245.7 2347.7 2745.2 2019.2 2550.1 2687.6 2668.8 2323.4 TRUE FALSE FALSE 2624.59236 2572.845675 2551.732301 2393.143128 2534.863369 1847.1528 2263.156037 2618.855084 2650.227604 2423.573144 1.082943325 1.061591923 1.052880251 0.987444152 1.045919895 0.762160946 0.933809669 1.080576045 1.093520783 1 11.24291991 RWS(ph)GNEPTDEFSDLPLR ddPTM_HeLa_SAHA_4h_R1 2 RWSGNEPTDEFSDLPLR 17 1 E9PD99;Q96II8-3;Q96II8-4;Q96II8;Q96II8-2 E9PD99 LRCH3 Leucine-rich repeat and calponin homology domain-containing protein 3 1 0 RWS(1)GNEPTDEFSDLPLR;RWS(1)GNEPTDEFSDLPLR ; 85.855 0.0031157 0 648.08 650.87 667 770.89 757.21 1345.6 737.49 947.03 1228.41 651.25 TRUE FALSE FALSE 716.2480279 671.9586151 757.8952864 785.8116907 699.1927334 1230.94731 654.5056842 922.8063439 1219.861395 679.3285746 1.054346975 0.989151112 1.115653477 1.156747589 1.02924087 1.812005789 0.96345967 1.358409433 1.79568686 1 9.407965729 -5.408703511 23.22026727 1.040594295 1.350538313 0 0.309315826 9.810971896 1978.835598 0.025321384 0.056620326 3.90E-06 5.408703511 0.309944018 RWY(ph)T(ph)ERLR ddPTM_HeLa_SAHA_4h_R1 1 RWYTERLR 8 2 Q9Y2L6 Q9Y2L6 FRMD4B FERM domain-containing protein 4B 2 0 RWY(1)T(1)ERLR 69.812 0.014814 12313000 0 0 140.73 160.86 144.49 0 0 172.66 0 157.28 TRUE FALSE FALSE 0 0 159.9079515 163.9736779 133.4192074 0 0 168.2436072 0 164.0611105 0 0 0.974685293 0.999467073 0.813228723 0 0 1.025493529 0 1 7.358089489 -9.635610249 1.485433984 0.997534698 0.403311028 0 0.532010499 0.565117976 2.255872864 0.326290204 0.075579163 2.31E-10 9.635610249 -0.59422367 RY(ph)FLLRAS(ph)GIY(ph)YVPK ddPTM_HeLa_SAHA_4h_R1 1 RYFLLRASGIYYVPK 15 2 C9K0J5;Q70E73;C9J164;Q70E73-5;Q70E73-2;Q70E73-8;Q70E73-7;Q70E73-4;Q70E73-3;Q70E73-9;Q70E73-6;Q7Z5R6 C9K0J5 RAPH1;APBB1IP Ras-associated and pleckstrin homology domains-containing protein 1;Amyloid beta A4 precursor protein-binding family B member 1-interacting protein 3 0 RY(0.999)FLLRAS(1)GIY(0.5)Y(0.5)VPK 51.546 0.008377 0 918.33 1231.2 973.6 945.52 735.91 955.49 1043.8 972.9 1001.9 1209.2 TRUE FALSE FALSE 1014.924163 1271.091688 1106.277138 963.8219068 679.5247348 874.0768766 926.3488769 948.0146267 994.9276963 1261.33453 0.804643129 1.007735583 0.87706878 0.764128694 0.538734744 0.692977839 0.73441966 0.751596507 0.788789709 1 10.30073524 -6.182333574 3.300312036 0.913216761 0.682172986 0.58026598 0.086126446 0.139011524 2.946501324 0.014406532 0.024576253 6.57E-07 6.182333574 -0.231043775 RY(ph)NFPVEVEVPMER ddPTM_HeLa_SAHA_4h_R1 1 RYNFPVEVEVPMER 14 1 P78527-2;P78527 P78527-2 PRKDC DNA-dependent protein kinase catalytic subunit 1 0 RY(1)NFPVEVEVPMER 45.357 0.020542 11823000 3787 3537.3 3931.5 4205.3 4674.3 4776.1 4560.9 3699.8 4212.8 3988.3 TRUE FALSE FALSE 4185.334035 3651.910841 4467.264346 4286.699662 4316.156144 4369.14941 4047.695528 3605.164473 4183.482782 4160.255131 1.006028213 0.877809347 1.073795766 1.030393456 1.037473907 1.050211891 0.972944062 0.866572929 1.005583227 1 12.02245629 -4.312157543 3.42437006 1.006142449 0.855983519 0.427271741 0.04974172 0.189243752 3.722009696 0.006610429 0.067741209 4.87E-05 4.312157543 -0.15015893 RYASGSSAS(ph)LGGPESAVA ddPTM_HeLa_SAHA_4h_R1 1 RYASGSSASLGGPESAVA 18 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 RYAS(0.016)GS(0.022)S(0.022)AS(0.94)LGGPESAVA 89.502 0.0084492 6821100 746.19 735.95 762.22 871.56 1062.5 1021 907.59 785.21 641.29 832.02 TRUE FALSE FALSE 824.6776878 759.7952629 866.0913721 888.4303041 981.0914795 934.005056 805.4655846 765.1254652 636.8272107 867.892454 0.950207234 0.875448633 0.997924764 1.02366405 1.130429784 1.07617603 0.928070731 0.88159018 0.733762816 1 9.76137247 -6.534601498 24.99475268 0.966748801 1.013802898 0.076476656 0.103158685 478.2445459 1019689.414 0.012307157 0.017411721 2.92E-07 6.534601498 0.047054097 RYDDPEVQK ddPTM_HeLa_SAHA_4h_R1 2 RYDDPEVQK 9 1 P38646;D6RJI2;A0A3B3ITI4 P38646 HSPA9 "Stress-70 protein, mitochondrial" 0 0 ; ; 128.35 0.0047309 16692900 5099.6 6998.1 5241.2 4694.6 6067.4 5367.4 7003.2 5150.6 6711.1 5964.3 FALSE FALSE TRUE 5635.999326 7224.843032 5955.443441 4785.470772 5602.517123 4910.067324 6215.181505 5018.85511 6664.396909 6221.450162 0.905898011 1.16127958 0.957243615 0.769188959 0.900516275 0.78921589 0.998992412 0.806701811 1.071196704 1 12.60303518 -6.490028032 23.17537657 0.974012508 0.860450098 0.403839193 0.093230744 269.547757 190159.0422 0.013627236 0.020801886 3.24E-07 6.490028032 -0.11356241 RYDDPEVQK(ac)DIK ddPTM_HeLa_SAHA_4h_R1 2 RYDDPEVQKDIK 12 2 P38646;D6RJI2;A0A3B3ITI4 P38646 HSPA9 "Stress-70 protein, mitochondrial" 0 1 ; RYDDPEVQK(1)DIK;RYDDPEVQK(1)DIK 128.21 0.00031721 6054700 3165.5 4822.2 4043.3 2368.5 4438.5 3001.4 4720.7 4278.5 3387.9 3577.9 FALSE TRUE FALSE 3498.461814 4978.442444 4594.299867 2414.345742 4098.423089 2745.663835 4189.514412 4169.062165 3364.323328 3732.160779 0.937382396 1.333930326 1.231002666 0.64690293 1.098136798 0.735676729 1.122543926 1.117063924 0.901441156 1 11.86579542 -5.824217767 0.006718131 0.359362403 1.655083886 0.003970718 0.202048407 69409.68077 141.4837959 13318.25308 13970.83086 1.50E-06 5.824217767 1.295721484 RYEDDGIS(ph)DDEIEGK ddPTM_HeLa_SAHA_4h_R1 2 RYEDDGISDDEIEGK 15 1 I3VM54;Q9Y2K7-3;Q9Y2K7 I3VM54 KDM2A Lysine-specific demethylase 2A 1 0 RYEDDGIS(1)DDEIEGK;RYEDDGIS(1)DDEIEGK ; 195.17 4.98E-09 41477000 5817.91 6693.5 5325.96 6667.1 7511.1 8560.2 6927.6 7398.7 7827.6 6018.5 TRUE FALSE FALSE 6429.864467 6910.373792 6051.754092 6796.151361 6935.601141 7830.822802 6148.088216 7209.451967 7773.127094 6277.986989 1.024192066 1.100730824 0.963964102 1.082536707 1.104749206 1.247346134 0.97930885 1.148370008 1.238155974 1 12.61608632 -6.036101788 4.404832356 1.016544956 1.117176164 0 0.098224325 0.18067384 7.998836921 0.009706366 0.016929705 9.20E-07 6.036101788 0.100631208 RYEEDMYWR ddPTM_HeLa_SAHA_4h_R1 3 RYEEDMYWR 9 1 Q96KR1 Q96KR1 ZFR Zinc finger RNA-binding protein 0 0 ;; ;; 152.97 2.04E-08 10966800 3259.68 3058.14 2797.51 3675.4 3564.4 3619.8 4194.7 2888.43 2956.37 2875.5 FALSE FALSE TRUE 3602.548098 3157.225743 3178.740094 3746.542682 3291.296442 3311.372676 3722.701316 2814.548143 2935.79638 2999.476877 1.2010588 1.052592126 1.059764827 1.249065365 1.097290153 1.103983398 1.241116857 0.938346338 0.978769466 1 11.55049519 -9.557723633 1.319749406 0.999767199 1.131284715 0.22907003 0.090593016 0.511399253 1.591504044 0.060065303 0.014061436 2.77E-10 9.557723633 0.131517516 RYETLVGTIGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 RYETLVGTIGKK 12 2 H3BSB3;H3BNT4;Q99547 H3BSB3 MPHOSPH6 M-phase phosphoprotein 6 0 1 ; RYETLVGTIGK(1)K;RYETLVGTIGK(1)K 148.89 2.32E-05 5551000 1487.08 1810.69 2479.3 2809.5 3194.2 3744.7 3729.8 3346.5 2061.98 1725.27 FALSE TRUE FALSE 1643.497897 1869.357544 2817.166092 2863.881935 2949.461086 3425.630493 3310.113088 3260.901376 2047.630513 1799.654833 0.913229508 1.038731155 1.565392452 1.591350676 1.638903768 1.903493064 1.839304419 1.811959336 1.13779069 1 10.81350451 -6.589731512 1.433652524 0.951899326 1.795144102 0.913726509 0.106475867 0.061682146 0.255040361 0.016373668 0.02623323 2.57E-07 6.589731512 0.843244776 RYFGGTEDR ddPTM_HeLa_SAHA_4h_R1 1 RYFGGTEDR 9 1 Q16658 Q16658 FSCN1 Fascin 0 0 99.788 0.022224 9519600 1666.9 1291.8 1432.5 1954.9 1888.5 1498 1879.9 981.68 1336.4 1689.8 FALSE FALSE TRUE 1842.23219 1333.655168 1627.71364 1992.739916 1743.803538 1370.361972 1668.368704 956.5700471 1327.099884 1762.655548 1.045145884 0.756617009 0.923443972 1.130532803 0.989304768 0.777441727 0.94650864 0.542686884 0.752898027 1 10.78353486 -3.818938118 0.923361773 0.998154949 3.10E-17 0.328070266 0.136663109 2.407920787 0.886243122 0.017435776 2.928002438 0.000151727 3.818938118 -0.998154949 RYKCNLCGKSYDR ddPTM_HeLa_SAHA_4h_R1 1 RYKCNLCGKSYDR 13 3 P59923 P59923 ZNF445 Zinc finger protein 445 0 0 22.885 0.02297 8521700 1107.7 831.31 1242.3 1205 1302.7 1240.2 1219.6 833.24 1218.5 1197.7 FALSE FALSE TRUE 1224.212968 858.2449894 1411.594174 1228.324517 1202.887407 1134.527983 1082.367398 811.9269273 1210.020359 1249.338708 0.979888768 0.686959416 1.12987308 0.983179749 0.962819289 0.908102803 0.866352248 0.649885353 0.968528671 1 10.28694894 -3.691339923 0.974013748 0.97605324 2.64E-08 0.432361341 0.104420625 3.281395666 1.101142109 0.01521217 4.395960967 0.000203545 3.691339923 -0.976053214 RYPS(ph)SISSSPQKDLTQAK ddPTM_HeLa_SAHA_4h_R1 1 RYPSSISSSPQKDLTQAK 18 2 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 RYPS(0.525)S(0.18)IS(0.052)S(0.198)S(0.045)PQKDLTQAK 73.722 0.007633 46719000 3585.2 3208.6 3512.2 3536.5 3582.7 3472.8 4112.9 3659.3 3164.5 3413 TRUE FALSE FALSE 3962.307785 3312.560745 3990.824325 3604.954071 3308.1943 3176.897903 3650.105667 3565.700405 3142.477987 3560.151133 1.112960556 0.930455091 1.12097048 1.012584561 0.929228613 0.892349168 1.025267055 1.001558718 0.882681063 1 11.79772277 -5.982590012 8.669831899 1.048946258 0.962625901 0 0.080535986 0.203861253 83.8386605 0.009795636 0.017610684 1.04E-06 5.982590012 -0.086320357 RYPSSISS(ph)SPQK ddPTM_HeLa_SAHA_4h_R1 1 RYPSSISSSPQK 12 1 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 RYPSSISS(0.704)S(0.295)PQK 140.78 0.0016672 25933000 2383.8 3367.7 3071.4 2904.5 3184.5 3110.8 3388.7 2256 2060.5 2570.1 TRUE FALSE FALSE 2634.539021 3476.81569 3489.954397 2960.720797 2940.504298 2845.742339 3007.394557 2198.294787 2046.160813 2680.909589 0.98270342 1.296879128 1.301779967 1.104371744 1.096830833 1.06148389 1.121781417 0.819980948 0.7632338 1 11.38850685 RYPSSISS(ph)SPQKDLTQAK ddPTM_HeLa_SAHA_4h_R1 2 RYPSSISSSPQKDLTQAK 18 2 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 RYPS(0.001)S(0.001)IS(0.033)S(0.482)S(0.482)PQKDLTQAK;RYPS(0.154)S(0.123)IS(0.123)S(0.261)S(0.261)PQKDLT(0.079)QAK ; 79.471 0.0026526 86425000 4486.3 3616.5 4124.55 4015.6 4756.2 4910.6 4849.9 4611 4303.2 4585.1 TRUE FALSE FALSE 4958.189618 3733.676973 4686.622194 4093.327745 4391.780984 4492.189254 4304.176488 4493.057297 4273.253681 4782.7861 1.036673921 0.780648955 0.979893747 0.855845873 0.918247417 0.939241095 0.899930793 0.939422588 0.893465355 1 12.22363556 -7.320833759 24.9998814 1.017318276 0.905109225 0.138060814 0.064858253 134.6601309 56679.91826 0.008017756 0.009168651 4.78E-08 7.320833759 -0.112209051 RYPSSISSS(ph)PQK ddPTM_HeLa_SAHA_4h_R1 3 RYPSSISSSPQK 12 1 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 RYPSSISS(0.229)S(0.771)PQK;RYPSSISS(0.027)S(0.972)PQK;RYPSSISS(0.005)S(0.995)PQK ;; 134.18 0.00065792 168100000 4067.8 5286.4 3960 4983.8 5385.3 4219.8 5611.2 3610.8 3423.37 4018.5 TRUE FALSE FALSE 4495.669868 5457.682829 4499.648177 5080.268656 4972.679477 3860.2493 4979.813008 3518.440964 3399.546489 4191.757201 1.07250245 1.302003567 1.073451529 1.211966345 1.186299501 0.920914336 1.188001301 0.839371365 0.811007491 1 12.03333944 -2.783069933 11.22234972 1.068026633 0.681411817 0 0.157641182 0 0 0.017120412 0 0.001647897 2.783069933 -0.386614816 RYPSSISSS(ph)PQKDLTQAK ddPTM_HeLa_SAHA_4h_R1 1 RYPSSISSSPQKDLTQAK 18 2 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 RYPSSIS(0.001)S(0.076)S(0.919)PQKDLT(0.004)QAK 73.833 0.0044187 85486000 5694.1 5864.4 5597.7 6113.8 6330.2 6929.2 6782.5 6540 5583.9 6720 TRUE FALSE FALSE 6293.031563 6054.410408 6360.525404 6232.14144 5845.181444 6338.793177 6019.315249 6372.71627 5545.041185 7009.732087 0.89775636 0.863714951 0.907384951 0.889069848 0.833866597 0.904284657 0.858708318 0.909124085 0.791048947 1 12.77514359 -8.925244805 0.538194703 1.012976002 0.877233551 0 0.068969085 0.351738611 0.171206697 0.023614173 0.005747356 1.19E-09 8.925244805 -0.135742451 RYS(ph)DFEWLR ddPTM_HeLa_SAHA_4h_R1 2 RYSDFEWLR 9 1 O60493-4;O60493;O60493-3 O60493-4 SNX3 Sorting nexin-3 1 0 RYS(1)DFEWLR;RY(0.006)S(0.994)DFEWLR ; 111.12 0.0031166 20477200 1772.68 2099.94 2747.1 2670.8 2756.2 2525.9 2894.6 1984.07 2468.54 2298.7 TRUE FALSE FALSE 1959.138616 2167.979434 3121.460482 2722.497196 2545.020551 2310.67911 2568.89199 1933.320362 2451.361229 2397.808207 0.817053929 0.904150477 1.301797397 1.135410742 1.061394545 0.963663025 1.07135007 0.80628649 1.022334156 1 11.22750055 RYS(ph)GDSDSSASSAQSGPLGTR ddPTM_HeLa_SAHA_4h_R1 2 RYSGDSDSSASSAQSGPLGTR 21 1 A0A5E8;Q99501 A0A5E8 GAS2L1 GAS2-like protein 1 1 0 RY(0.001)S(0.993)GDS(0.006)DSSASSAQSGPLGTR;RYS(1)GDSDSSASSAQSGPLGTR ; 138.99 3.47E-06 13371700 1053.39 1053.78 811.53 941.02 1054.97 1380.61 1241.65 887.97 1409.75 1112.07 TRUE FALSE FALSE 1164.190393 1087.923163 922.1210821 959.2348028 974.1384265 1262.974261 1101.936274 865.2570132 1399.939435 1160.01678 1.00359789 0.93785123 0.794920468 0.826914592 0.839762358 1.088755165 0.949931323 0.745900428 1.206826883 1 10.17992996 -7.058855459 4.412423316 1.001113168 0.88252969 0.337812178 0.109970063 0.221865676 8.797808574 0.015132144 0.018934451 8.73E-08 7.058855459 -0.118583478 RYS(ph)GNMEYVISR ddPTM_HeLa_SAHA_4h_R1 2 RYSGNMEYVISR 12 1 O95835;O95835-2 O95835 LATS1 Serine/threonine-protein kinase LATS1 1 0 RYS(1)GNMEYVISR;RY(0.001)S(0.999)GNMEYVISR ; 105.53 0.0021154 20473100 2260.6 2181.04 3254.3 3044.9 3216.1 3676 3683.8 3702.2 3230.6 3302.7 TRUE FALSE FALSE 2498.38028 2251.707127 3697.779056 3103.838442 2969.683113 3362.784119 3269.289129 3607.503085 3208.117992 3445.09556 0.725199123 0.653597872 1.07334586 0.900944078 0.862003117 0.976107647 0.94896907 1.04714166 0.931213064 1 11.75032829 -6.726826059 24.99980267 0.850359125 0.959707094 0.276995871 0.108282957 288.8322211 208611.2354 0.021291647 0.030110162 1.88E-07 6.726826059 0.109347969 RYS(ph)PDELR ddPTM_HeLa_SAHA_4h_R1 4 RYSPDELR 8 1 S5FZ81;Q8WUB8-3;Q8WUB8-2;Q8WUB8 S5FZ81 PHF10 PHD finger protein 10 1 0 RY(0.372)S(0.628)PDELR;RY(0.009)S(0.991)PDELR;RY(0.382)S(0.618)PDELR;RY(0.498)S(0.502)PDELR ;;; 109.48 0.0034735 27337100 2872.87 2530.06 2884.08 3072.27 2691.59 3429.14 3006.5 3071.64 3050.22 3163.65 TRUE FALSE FALSE 3175.051648 2612.035604 3277.107403 3131.738228 2485.360956 3136.95798 2668.200707 2993.071896 3028.993271 3300.050434 0.962122159 0.791513844 0.993047673 0.948997081 0.753128173 0.9505788 0.808533312 0.906977622 0.917862721 1 11.68827236 -7.429614966 0.517378558 1.001354765 0.864405086 0.10397326 0.078881493 0.669902626 0.430893903 0.029065515 0.029772539 3.72E-08 7.429614966 -0.136949679 RYS(ph)PPIQR ddPTM_HeLa_SAHA_4h_R1 1 RYSPPIQR 8 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 RY(0.001)S(0.999)PPIQR 72.006 0.018993 1015400000 1292 1746.5 1698.7 1612.2 1850.7 2197.7 1956 1722.3 2139.8 1705 TRUE FALSE FALSE 1427.898488 1803.087746 1930.18999 1643.406462 1708.899766 2010.443596 1735.905732 1678.24606 2124.908958 1778.510894 0.802861817 1.013818781 1.085284322 0.924035083 0.960859881 1.130408367 0.976044475 0.943624279 1.194768592 1 10.7964541 -7.188070683 24.99854765 0.906906442 1.006879273 0 0.117364479 165.9741575 56551.13265 0.015323442 0.018767306 6.49E-08 7.188070683 0.099972831 RYS(ph)SSGTPSSASPALSR ddPTM_HeLa_SAHA_4h_R1 2 RYSSSGTPSSASPALSR 17 1 Q14934-2;Q14934-9;Q14934-3;Q14934-4;Q14934-5;Q14934-6;Q14934-7;Q14934;Q14934-8;Q14934-10;Q14934-18;Q14934-11;Q14934-12;Q14934-13;Q14934-14;Q14934-15;Q14934-16;Q14934-17 Q14934-2 NFATC4 "Nuclear factor of activated T-cells, cytoplasmic 4" 1 0 RYS(0.998)S(0.002)SGTPSSASPALSR;RYS(0.999)S(0.001)SGTPSSASPALSR ; 245.67 2.54E-36 6204600 1286.98 1189.34 992.26 1543.62 1443.52 1784.09 1504.24 1695.07 1343.77 1147.26 TRUE FALSE FALSE 1422.350461 1227.875396 1127.480025 1573.498997 1332.917809 1632.075495 1334.978956 1651.712564 1334.418595 1196.723993 1.188536763 1.026030566 0.942138732 1.314838681 1.113805537 1.363786056 1.115527861 1.380195077 1.115059615 1 10.22487474 -6.247340413 24.99020755 1.075550002 1.247643284 0.474814473 0.10546419 665.3738244 1179364.869 0.016634926 0.027497656 5.66E-07 6.247340413 0.172093282 RYSPPIQR ddPTM_HeLa_SAHA_4h_R1 1 RYSPPIQR 8 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 0 0 86.67 0.0068546 0 2196.6 2122.5 2355 2095.3 2229.8 2688.9 2065.4 2454.4 2744.5 2254.5 FALSE FALSE TRUE 2427.648466 2191.270393 2675.927136 2135.857561 2058.953206 2459.790593 1832.995756 2391.620002 2725.400801 2351.702528 1.032294024 0.93178043 1.137868035 0.908217572 0.875516006 1.045961623 0.77943351 1.016973862 1.158905418 1 11.19948987 RYSSVSNIY(ph)S(ph)DHRY(ph)GPR ddPTM_HeLa_SAHA_4h_R1 1 RYSSVSNIYSDHRYGPR 17 2 Q9UPA5 Q9UPA5 BSN Protein bassoon 3 0 RY(0.004)S(0.01)S(0.021)VS(0.026)NIY(0.979)S(0.961)DHRY(0.999)GPR 50.077 0.01659 19569000 875.32 849.28 794.12 904.93 872.84 1092.3 1037.9 934.01 1075.5 980.84 TRUE FALSE FALSE 967.3901737 876.7972292 902.338538 922.4462287 805.9631878 999.2298949 921.1127604 910.1193766 1068.015508 1023.128813 0.945521387 0.856976383 0.881940306 0.901593443 0.787743613 0.97664134 0.900290119 0.889545251 1.043871988 1 9.998772077 -7.719645456 1.320255667 0.984661095 0.885961709 0.51658203 0.049235482 0.238786549 0.863541342 0.009957097 0.009634945 1.91E-08 7.719645456 -0.098699386 RYWEEETVPTTAGAS(ph)PGPPR ddPTM_HeLa_SAHA_4h_R1 2 RYWEEETVPTTAGASPGPPR 20 1 O15213 O15213 WDR46 WD repeat-containing protein 46 1 0 RYWEEETVPTTAGAS(1)PGPPR;RYWEEETVPTTAGAS(1)PGPPR ; 208.62 2.75E-20 14563500 543.6 501.41 486.31 528.32 700.97 571.26 478.13 615.04 594.81 458.14 TRUE FALSE FALSE 600.7783421 517.656013 552.5817942 538.5463976 647.26183 522.5854342 424.329554 599.3081674 590.6706688 477.8926575 1.257140767 1.083205621 1.156288521 1.126919171 1.354408401 1.093520534 0.887918128 1.254064397 1.235990258 1 8.900542791 -2.750222179 15.05326032 1.128121044 1.083034433 0 0.131708556 0 0 0.018193808 0 0.00177737 2.750222179 -0.045086611 S(ph)AASPVVSSMPER ddPTM_HeLa_SAHA_4h_R1 2 SAASPVVSSMPER 13 0 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;H7C1M2 P18583-10 SON Protein SON 1 0 S(0.714)AAS(0.273)PVVS(0.011)S(0.001)MPER;S(0.642)AAS(0.358)PVVSSMPER ; 193.11 1.25E-07 99580000 2471.34 2245.2 2362.25 2785.74 2750.07 2907.8 2881.9 2797.8 2546.82 2500.23 TRUE FALSE FALSE 2731.28688 2317.945953 2684.165128 2839.662026 2539.360231 2660.039081 2557.621027 2726.236327 2529.096472 2608.027151 1.047261674 0.888773705 1.029193706 1.088816129 0.973670933 1.019943017 0.9806727 1.045325132 0.969735484 1 11.34874317 S(ph)ADSVMAEQVALSR ddPTM_HeLa_SAHA_4h_R1 1 SADSVMAEQVALSR 14 0 P11413-3 P11413-3 G6PD Glucose-6-phosphate 1-dehydrogenase 1 0 S(0.948)ADS(0.052)VMAEQVALSR 135.55 0.00034182 2395300 0 72.765 149.48 173.43 166.53 217.15 225.92 55.921 151.93 171.89 TRUE FALSE FALSE 0 75.12263374 169.8503559 176.7869884 153.7705074 198.6475983 200.498887 54.49062179 150.8727068 179.3010191 0 0.41897494 0.947291637 0.985978715 0.857610894 1.107899996 1.118225027 0.303905812 0.841449243 1 7.486239878 -6.757030954 24.85731889 0.506423113 0.910565994 0.176363481 0.32862014 140.3330519 791276.512 0.067070799 0.092983514 1.75E-07 6.757030954 0.404142881 S(ph)AEALGPGALVSPR ddPTM_HeLa_SAHA_4h_R1 1 SAEALGPGALVSPR 14 0 Q9P227;Q9P227-2 Q9P227 ARHGAP23 Rho GTPase-activating protein 23 1 0 S(1)AEALGPGALVSPR 130.66 3.86E-05 0 351.94 533.97 600.04 698.67 566.82 809.58 551.02 927.87 810.01 519.16 TRUE FALSE FALSE 388.958664 551.2709784 681.8103263 712.1937681 523.3903741 740.5992294 489.0177794 904.1364289 804.3730745 541.5435283 0.718240813 1.017962453 1.259012971 1.315118233 0.966478864 1.367571009 0.903007337 1.669554489 1.48533411 1 9.080933494 -6.941607699 4.115130228 0.866582211 1.225681963 0 0.286630466 0.163352041 5.711900563 0.033402801 0.043994878 1.14E-07 6.941607699 0.359099753 S(ph)AEDELAMR ddPTM_HeLa_SAHA_4h_R1 2 SAEDELAMR 9 0 A3KFL1;A3KFL5;A3KFL2;Q13868-3;Q13868-2;Q13868 A3KFL1 EXOSC2 Exosome complex component RRP4 1 0 S(1)AEDELAMR;S(1)AEDELAMR ; 136.49 0.0014055 30912000 1257.92 1129.98 1298.12 1169.5 1628.72 1430.25 1417.25 1526.03 1408.73 1193.97 TRUE FALSE FALSE 1390.233797 1166.592093 1475.021033 1192.137364 1503.927825 1308.384654 1257.7773 1486.996362 1398.926533 1245.44789 1.11625208 0.936684789 1.184329786 0.957195699 1.207539744 1.050533438 1.009899579 1.193945065 1.123231686 1 10.28244894 -9.515586233 1.124743339 0.997502053 1.081596115 0 0.098602345 0.957003239 2.058277018 0.066322571 0.014100676 3.05E-10 9.515586233 0.084094062 S(ph)AEEGELAESK ddPTM_HeLa_SAHA_4h_R1 4 SAEEGELAESK 11 0 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 S(1)AEEGELAESK;S(1)AEEGELAESK;S(1)AEEGELAESK;S(1)AEEGELAESK ;;; 190.85 7.43E-07 50347300 3868.65 4255.93 3547.7 4078.94 4555.73 6023.55 4696.75 4159.08 5534.58 4784.76 TRUE FALSE FALSE 4275.572357 4393.824924 4031.16208 4157.893782 4206.670952 5510.309652 4168.259329 4052.696756 5496.064407 4991.05442 0.856647113 0.880340015 0.807677445 0.833069214 0.842842133 1.104037181 0.835146039 0.811992099 1.101183026 1 12.28512892 -9.234458449 0.901735632 1.002293687 0.873348761 0.366313617 0.087948102 0.698793647 0.992804132 0.060405155 0.015587487 5.83E-10 9.234458449 -0.128944926 S(ph)AEVDDGAAEKETLPEFGEGK ddPTM_HeLa_SAHA_4h_R1 2 SAEVDDGAAEKETLPEFGEGK 21 1 H7C5W6;F5H619;Q86XA9-2;Q86XA9 H7C5W6 HEATR5A HEAT repeat-containing protein 5A 1 0 S(1)AEVDDGAAEKETLPEFGEGK;S(1)AEVDDGAAEKETLPEFGEGK ; 102.16 0.0001547 11134700 1446.09 2202 1618.82 2128.24 1765.71 2329.13 2162.2 2169.56 2485.4 2180.37 TRUE FALSE FALSE 1598.196381 2273.346245 1839.424359 2169.435163 1630.421681 2130.675021 1918.903565 2114.065797 2468.103899 2274.376421 0.702696513 0.999547051 0.808759861 0.953859327 0.716865364 0.936817231 0.843705355 0.929514471 1.085178283 1 11.15125533 S(ph)AGEEEDGPVLTDEQK ddPTM_HeLa_SAHA_4h_R1 4 SAGEEEDGPVLTDEQK 16 0 H7BZV4;A0A0C4DG62;Q66PJ3-4;Q66PJ3-3;F5GYV5;F8WCT1;Q66PJ3-2;F5H7X4;Q66PJ3-7;Q66PJ3 H7BZV4;F5H7X4;Q66PJ3 ARL6IP4 ADP-ribosylation factor-like protein 6-interacting protein 4 1 0 S(1)AGEEEDGPVLTDEQK;S(1)AGEEEDGPVLTDEQK;S(1)AGEEEDGPVLTDEQK;S(1)AGEEEDGPVLTDEQK ;;; 367.23 3.73E-182 343147000 10252.5 10139.8 10319.4 9373.4 9606.1 11707 10932 10247.3 9942.5 9684.9 TRUE FALSE FALSE 11330.90499 10468.33617 11725.67409 9554.835711 8870.082693 10709.49774 9701.902589 9985.188904 9873.309333 10102.46344 1.121598218 1.03621619 1.160674737 0.945792655 0.878011858 1.060087751 0.960350181 0.988391492 0.977317007 1 13.30241951 -6.225171661 24.99727598 1.063992219 0.966463964 0.333815713 0.065253169 523.7883766 361017.541 0.010020947 0.016617535 5.95E-07 6.225171661 -0.097528255 S(ph)AGEEVPVHPRS(ph)EAGS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 SAGEEVPVHPRSEAGSR 17 1 Q9NRF2-3;F5GXU7 Q9NRF2-3 SH2B1 SH2B adapter protein 1 3 0 S(1)AGEEVPVHPRS(1)EAGS(1)R;S(1)AGEEVPVHPRS(1)EAGS(1)R ; 95.954 0.0049128 66603000 2539.5 3060.2 3703.3 7327.5 2588.3 2484.5 3145.5 6138 4672.7 2816.1 TRUE FALSE FALSE 2806.616262 3159.352488 4207.966438 7469.334358 2389.985013 2272.806623 2791.560061 5980.998848 4640.1823 2937.515853 0.955438678 1.075518447 1.432491482 2.5427384 0.813607529 0.773717228 0.95031319 2.036073726 1.579628003 1 11.52038092 -6.854716636 4.650111271 0.981223347 1.395950559 0.020349138 0.548797808 0.351730507 13.3387409 0.084611567 0.112728213 1.40E-07 6.854716636 0.414727212 S(ph)AGTATQMR ddPTM_HeLa_SAHA_4h_R1 1 SAGTATQMR 9 0 Q92934;F5H1R6 Q92934 BAD Bcl2-associated agonist of cell death 1 0 S(1)AGTATQMR 89.171 0.018453 8869600 632.5 552.33 743.46 1202.1 603.33 773.21 699.46 905.86 720.69 760.04 TRUE FALSE FALSE 699.029252 570.2258544 844.774857 1225.368384 557.1029857 707.328158 620.7549199 882.6894129 715.6746596 792.8090439 0.881712005 0.719247414 1.065546443 1.545603438 0.702695044 0.892179729 0.782981633 1.113369505 0.902707487 1 9.63082961 -3.908946413 12.69817191 0.948661814 3.473617048 0.046841976 0.228692323 1171261.545 3626305.849 0.030558391 79034456.82 0.000123326 3.908946413 2.524955234 S(ph)AMPFTASPASSTTAR ddPTM_HeLa_SAHA_4h_R1 2 SAMPFTASPASSTTAR 16 0 O00151 O00151 PDLIM1 PDZ and LIM domain protein 1 1 0 S(0.597)AMPFT(0.021)AS(0.316)PAS(0.004)S(0.047)T(0.015)T(0.001)AR;S(0.617)AMPFT(0.008)AS(0.274)PAS(0.011)S(0.053)T(0.018)T(0.018)AR ; 121.29 0.001145 29150000 3153.7 3537.9 3384.6 3547.5 4197.6 3973.8 4162.5 3355.3 4678.1 3665.7 TRUE FALSE FALSE 3485.420636 3652.530281 3845.835662 3616.166992 3875.980795 3635.209884 3694.124545 3269.476284 4645.544721 3823.746267 0.911519853 0.955222974 1.005776899 0.945713115 1.013660563 0.950693281 0.966100857 0.855045303 1.214919714 1 11.90077108 -3.109022741 0.005474055 1.863700644 2.86E-06 0.067197711 0.086651987 54771.47203 34.86211879 5623.312191 6261.066597 0.000777996 3.109022741 -1.863697779 S(ph)APAS(ph)PTHPGLMS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SAPASPTHPGLMSPR 15 0 P85037;P85037-2 P85037 FOXK1 Forkhead box protein K1 3 0 S(1)APAS(0.995)PT(0.005)HPGLMS(1)PR 86.439 0.0024414 0 640.62 646.65 749.4 678.21 511.88 725.52 476.19 616.92 781.4 614.75 TRUE FALSE FALSE 708.0033509 667.6018843 851.5243293 691.3377353 472.659865 663.7016143 422.6078479 601.1400797 775.9621738 641.254881 1.104090389 1.041086632 1.327903076 1.078101322 0.737085797 1.035004386 0.659032563 0.937443281 1.210068253 1 9.324754092 -5.778064959 24.75831847 1.074664401 0.842838231 0.496279465 0.13449537 147.7158442 219973.8753 0.018477983 0.033563458 1.67E-06 5.778064959 -0.23182617 S(ph)APAS(ph)PTHPGLMSPR ddPTM_HeLa_SAHA_4h_R1 2 SAPASPTHPGLMSPR 15 0 P85037;P85037-2 P85037 FOXK1 Forkhead box protein K1 2 0 S(0.999)APAS(0.959)PT(0.042)HPGLMSPR;S(1)APAS(0.997)PT(0.003)HPGLMSPR ; 94.973 0.010483 46514000 1627.81 1929.48 1340.79 1766.52 2090.69 2279.7 2065.41 2072.58 1986.27 1859.24 TRUE FALSE FALSE 1799.030524 1991.996418 1523.505879 1800.713549 1930.501784 2085.456735 1833.004631 2019.566405 1972.447385 1939.400935 0.927621768 1.027119448 0.785554885 0.928489574 0.995411392 1.07530975 0.945139603 1.041335171 1.017039514 1 10.92139537 -5.578201605 6.552199924 0.952962253 1.016645895 0.178403892 0.070893311 0.293966502 26.44606539 0.010141278 0.020486357 2.64E-06 5.578201605 0.063683642 S(ph)APASPT(ph)HPGLMSPR ddPTM_HeLa_SAHA_4h_R1 2 SAPASPTHPGLMSPR 15 0 P85037;P85037-2 P85037 FOXK1 Forkhead box protein K1 2 0 S(1)APAS(0.059)PT(0.931)HPGLMS(0.01)PR;S(1)APAS(0.236)PT(0.763)HPGLMS(0.001)PR ; 128.74 0.0085281 42480600 2072.43 2201.57 1858.34 1994.21 2271.13 3246.97 2917.92 1928.35 2232.97 2280.23 TRUE FALSE FALSE 2290.417696 2272.902313 2111.584897 2032.810818 2097.11651 2970.309889 2589.587962 1879.025599 2217.43058 2378.541874 0.962950336 0.955586419 0.887764441 0.854645798 0.88168156 1.248794449 1.088729187 0.789990548 0.93226468 1 11.21586171 S(ph)APASQASLR ddPTM_HeLa_SAHA_4h_R1 1 SAPASQASLR 10 0 A0A087WY61;Q14980-5;Q14980-2;Q14980;H0YFY6 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 1 0 S(1)APASQASLR 108.68 0.0060618 8921500 176.61 313.83 418.41 418.53 452.55 486.37 475.14 458.61 380.65 329.46 TRUE FALSE FALSE 195.1866501 323.9982979 475.4287358 426.6312534 417.8757168 444.9285398 421.6759967 446.8794203 378.0010257 343.6646329 0.567956756 0.942774632 1.38340897 1.241417395 1.215940416 1.294659087 1.226998522 1.300335785 1.0999125 1 8.424857579 -6.912296615 4.937073392 0.794006726 1.269444528 0.596547856 0.144596584 0.095044997 4.029356671 0.026635204 0.035207797 1.22E-07 6.912296615 0.475437802 S(ph)APPNLWAAQR ddPTM_HeLa_SAHA_4h_R1 2 SAPPNLWAAQR 11 0 Q92934;F5H1R6;F5H3B1 Q92934 BAD Bcl2-associated agonist of cell death 1 0 S(1)APPNLWAAQR;S(1)APPNLWAAQR ; 103.43 0.0058554 14305600 635.17 649.28 613.36 685.4 724.44 709.59 853.26 481.45 657.75 605.66 TRUE FALSE FALSE 701.9800949 670.317098 696.9455066 698.6669081 668.9335637 649.12894 757.2489391 469.1352061 653.1726642 631.7729666 1.111127148 1.061009466 1.103158165 1.10588288 1.058819543 1.027471852 1.198609278 0.742569295 1.033872449 1 9.303262396 -4.246333931 24.74186311 1.067024734 0.742569026 0.773338861 0.054161274 969.8342386 1588504.059 0.00808841 0.253058417 5.67E-05 4.246333931 -0.324455708 S(ph)APT(ph)SPTATNISSK ddPTM_HeLa_SAHA_4h_R1 1 SAPTSPTATNISSK 14 0 Q9H792;H0YN99;H3BUZ5 Q9H792 PEAK1 Pseudopodium-enriched atypical kinase 1 2 0 S(1)APT(0.812)S(0.185)PT(0.003)ATNISSK 186.69 5.18E-07 4878900 1795.8 1885.6 1835.7 1497.3 1871.2 2050.9 1839.9 1477.2 1703.5 1368.6 TRUE FALSE FALSE 1984.690483 1946.694677 2085.859636 1526.282407 1727.82906 1876.151782 1632.86961 1439.415363 1691.645205 1427.607044 1.390221835 1.363606803 1.461088081 1.069119414 1.210297377 1.314193419 1.143780858 1.008271407 1.184951568 1 10.47938321 -4.394898152 3.491078237 1.221353957 1.006869076 0.209483615 0.137574751 0.441237106 8.664042616 0.024869083 0.195449812 4.03E-05 4.394898152 -0.21448488 S(ph)APTS(ph)PTATNISSK ddPTM_HeLa_SAHA_4h_R1 1 SAPTSPTATNISSK 14 0 Q9H792;H0YN99;H3BUZ5 Q9H792 PEAK1 Pseudopodium-enriched atypical kinase 1 2 0 S(1)APT(0.352)S(0.64)PT(0.007)AT(0.002)NISSK 115.56 0.014876 6079800 1362.5 1379.5 1233.1 1223.6 1458.4 1523.8 1358.6 1434.5 1399.5 1130.3 TRUE FALSE FALSE 1505.814001 1424.196705 1401.140446 1247.284547 1346.657707 1393.963667 1205.726752 1397.807567 1389.760766 1179.032765 1.277160437 1.207936495 1.188381263 1.057887944 1.142171573 1.182294258 1.022640582 1.185554472 1.178729555 1 10.2033881 S(ph)AQWLDQEEAPK ddPTM_HeLa_SAHA_4h_R1 2 SAQWLDQEEAPK 12 0 Q53H47-3;Q53H47 Q53H47-3 SETMAR Histone-lysine N-methyltransferase SETMAR;Histone-lysine N-methyltransferase;Transposon Hsmar1 transposase 1 0 S(1)AQWLDQEEAPK;S(1)AQWLDQEEAPK ; 206.43 1.15E-10 9727200 2709.6 2753.29 2427.82 2634.05 2727.95 2836.16 2775.02 2580.22 3222.6 2760.06 TRUE FALSE FALSE 2994.60816 2842.498402 2758.670666 2685.035847 2518.93506 2594.503212 2462.767446 2514.221709 3200.173664 2879.059694 1.040134099 0.987300961 0.958184602 0.932608606 0.874915885 0.901163396 0.855406872 0.87327877 1.111534322 1 11.49138199 -6.286447528 1.121453528 1.018834857 0.872039616 0.817024971 0.033467821 0.092690655 0.230530049 0.003467961 0.006933894 5.17E-07 6.286447528 -0.146795241 S(ph)AS(ph)LKNVDAAVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SASLKNVDAAVSPR 14 1 Q96T58 Q96T58 SPEN Msx2-interacting protein 3 0 S(1)AS(1)LKNVDAAVS(1)PR 82.831 0.019666 2132500 407.86 345.53 236.94 314.37 493.39 788.12 346.84 739.67 849.16 690.38 TRUE FALSE FALSE 450.7605861 356.7253987 269.2289493 320.4550859 455.5865648 720.9677422 307.8126504 720.7503124 843.2506264 720.1456604 0.62592974 0.49535173 0.373853463 0.444986485 0.632631133 1.001141549 0.427431098 1.000839625 1.170944536 1 9.492144933 -8.965122977 0.889611992 0.989083105 0.616436486 0.394252925 0.218421124 0.518526167 0.777956062 0.116253756 0.040913543 1.08E-09 8.965122977 -0.372646619 S(ph)AS(ph)PPPATSSSSSSR ddPTM_HeLa_SAHA_4h_R1 1 SASPPPATSSSSSSR 15 0 Q9H7N4 Q9H7N4 SCAF1 "Splicing factor, arginine/serine-rich 19" 2 0 S(0.998)AS(0.99)PPPAT(0.011)S(0.001)SSSSSR 110.22 0.023774 16689000 1251.9 1638 1181.1 1533.2 1749 2145.4 1539.8 1635.4 1625.4 1422.6 TRUE FALSE FALSE 1383.580586 1691.072275 1342.054157 1562.877303 1614.991998 1962.59985 1366.537651 1593.568836 1614.088709 1483.935248 0.932372614 1.139586297 0.904388624 1.053197776 1.088317027 1.322564346 0.920887655 1.073880305 1.087708316 1 10.53521243 -6.007058109 4.269349427 0.978267413 1.10231584 0.080556959 0.113433057 0.235550199 10.37031687 0.015727018 0.028015194 9.84E-07 6.007058109 0.124048427 S(ph)ASAPTLAETEKETAEHLDLAGASSRPK ddPTM_HeLa_SAHA_4h_R1 1 SASAPTLAETEKETAEHLDLAGASSRPK 28 2 Q86W92-2 Q86W92-2 PPFIBP1 Liprin-beta-1 1 0 S(0.722)AS(0.255)APT(0.022)LAET(0.001)EKETAEHLDLAGASSRPK 81.105 7.08E-06 39906000 2765.1 2605 2255.4 3536.3 3703.8 4009.7 3875.4 4101.9 3185.6 3078 TRUE FALSE FALSE 3055.945905 2689.403709 2562.754166 3604.7502 3420.015644 3668.051002 3439.329793 3996.979337 3163.43115 3210.707643 0.951798246 0.837635814 0.798189823 1.122727635 1.065190613 1.142443165 1.071206156 1.244890467 0.985275367 1 11.64867559 -6.188042691 17.33723603 0.95176143 1.123244476 0.638243135 0.078296791 4.683905009 1105.781892 0.012592153 0.020882021 6.49E-07 6.188042691 0.171483046 S(ph)ASDSGCDPASK ddPTM_HeLa_SAHA_4h_R1 1 SASDSGCDPASK 12 0 Q7LBC6;H0Y9V5 Q7LBC6 KDM3B Lysine-specific demethylase 3B 1 0 S(0.952)AS(0.048)DSGCDPASK 116.98 0.001696 2626900 995.11 1125.4 1185.8 1293.1 1579.9 2781.6 1671 1404.1 1557.5 2385.7 TRUE FALSE FALSE 1099.780236 1161.863698 1347.394649 1318.12982 1458.848403 2544.592031 1482.974682 1368.185155 1546.661231 2488.559202 0.441934528 0.466882081 0.541435642 0.529675894 0.586222101 1.022516173 0.595916979 0.549790077 0.621508714 1 11.28109499 -9.419406948 1.153463692 0.999470359 0.584807627 0.050283157 0.190002976 0.345050757 0.822733452 0.113557304 0.028804088 3.81E-10 9.419406948 -0.414662732 S(ph)ASPDDDLGSSNWEAADLGNEER ddPTM_HeLa_SAHA_4h_R1 1 SASPDDDLGSSNWEAADLGNEER 23 0 O00193;E9PM92;E9PQA1 O00193 SMAP;C11orf58 Small acidic protein 1 0 S(0.5)AS(0.5)PDDDLGSSNWEAADLGNEER 109.69 4.29E-05 6717600 423.78 602.93 593.57 611.56 648.83 678.33 756.78 594.51 648.21 560.6 TRUE FALSE FALSE 468.3551248 622.4653276 674.4586284 623.3976281 599.1167856 620.5324678 671.6251227 579.303295 643.6990538 584.7702095 0.800921656 1.06446142 1.153373782 1.066055722 1.024533699 1.061156088 1.14852828 0.990651175 1.100772651 1 9.191726006 -7.162691573 7.967228392 0.906100562 1.07682224 0.1323531 0.089087355 0.192092123 13.96120707 0.01404712 0.017220937 6.88E-08 7.162691573 0.170721678 S(ph)ASPDYNR ddPTM_HeLa_SAHA_4h_R1 1 SASPDYNR 8 0 Q14669;Q14669-2;Q14669-3;G5E9G6;F8W9P3;C9JLJ5;C9JSX9;C9JLD7 Q14669 TRIP12 E3 ubiquitin-protein ligase TRIP12 1 0 S(0.612)AS(0.386)PDY(0.001)NR 87.806 0.020051 5010200 1914 1838.1 1139.3 2019.9 2487.4 3584.3 2563.1 2386.4 2541 3126.7 TRUE FALSE FALSE 2115.323302 1897.655646 1294.557871 2058.998085 2296.815949 3278.897475 2274.693242 2325.359343 2523.316974 3261.507339 0.648572296 0.581833934 0.396920116 0.631302607 0.704219157 1.005331932 0.697436187 0.712970753 0.773665889 1 11.67132316 -9.127427386 0.939255217 0.995532107 0.673476204 0.181015918 0.156671831 0.459138481 0.745057564 0.096359746 0.029605425 7.46E-10 9.127427386 -0.322055902 S(ph)ASPEHPQKPR ddPTM_HeLa_SAHA_4h_R1 1 SASPEHPQKPR 11 1 Q96PX6 Q96PX6 CCDC85A Coiled-coil domain-containing protein 85A 1 0 S(0.646)AS(0.354)PEHPQKPR 70.563 0.021 2040400 1478 1693.7 1416.5 1408.7 1662.4 2084 1775.6 1376.7 1533.6 1594.6 TRUE FALSE FALSE 1633.462821 1748.576991 1609.533243 1435.967426 1535.027271 1906.431476 1575.804815 1341.486007 1522.927553 1663.35101 0.98203134 1.051237521 0.967644973 0.863297895 0.92285228 1.146139008 0.947367576 0.806496043 0.915577977 1 10.69987693 -6.527265508 24.94456467 0.996408553 0.945288006 0.060691499 0.087517883 259.7169737 1476829.126 0.013218794 0.018735545 2.97E-07 6.527265508 -0.051120547 S(ph)ASPHDVDLCLVSPCEFEHRK ddPTM_HeLa_SAHA_4h_R1 1 SASPHDVDLCLVSPCEFEHRK 21 1 Q66K74-2;Q66K74 Q66K74-2 MAP1S Microtubule-associated protein 1S;MAP1S heavy chain;MAP1S light chain 1 0 S(0.563)AS(0.437)PHDVDLCLVSPCEFEHRK 111.22 7.95E-05 13172000 1670.7 1926.4 1310.2 1830.7 2553.8 3290 2191.4 1901.6 1529.2 1883.8 TRUE FALSE FALSE 1846.431891 1988.816624 1488.747233 1866.135846 2358.128396 3009.673491 1944.817905 1852.959825 1518.558173 1965.019837 0.93965051 1.012110202 0.757624531 0.949677866 1.200053227 1.531624991 0.989719222 0.94297258 0.77279534 1 10.94032816 -5.763785338 24.91923556 0.955035024 1.1796039 0.334231519 0.171497703 56.06443424 595538.3693 0.023879626 0.044828317 1.72E-06 5.763785338 0.224568876 S(ph)ASPPPATSSSSSSR ddPTM_HeLa_SAHA_4h_R1 1 SASPPPATSSSSSSR 15 0 Q9H7N4 Q9H7N4 SCAF1 "Splicing factor, arginine/serine-rich 19" 1 0 S(0.87)AS(0.13)PPPATSSSSSSR 85.45 0.011279 1276400 240.18 362.66 286.88 367.82 384.13 397.29 408.62 324.01 434.1 295.34 TRUE FALSE FALSE 265.4432344 374.4104219 325.9745124 374.939688 354.6980424 363.4386569 362.6410022 315.7222934 431.0790628 308.0735528 0.861622921 1.215328023 1.058106123 1.217046009 1.151342071 1.179713915 1.177124745 1.024827644 1.399273189 1 8.267131026 -7.260474775 24.99780852 0.934655267 1.148223019 0 0.161213325 38.73388924 1003792.863 0.012314982 0.014622522 5.49E-08 7.260474775 0.213567752 S(ph)ASPSSQGWQGR ddPTM_HeLa_SAHA_4h_R1 1 SASPSSQGWQGR 12 0 X6R7H2;Q5VV67-2;Q5VV67 X6R7H2 PPRC1 Peroxisome proliferator-activated receptor gamma coactivator-related protein 1 1 0 S(0.562)AS(0.399)PS(0.032)S(0.007)QGWQGR 97.631 0.0079485 3139600 1175.1 1179.7 854.32 1174.8 1349.2 1498.1 1409 1345.4 2104.1 1599.3 TRUE FALSE FALSE 1298.70241 1217.923054 970.7422805 1197.539953 1245.824587 1370.453452 1250.455612 1310.986616 2089.457397 1668.25365 0.778480185 0.730058678 0.581891297 0.717840451 0.746783673 0.821489857 0.749559644 0.785843697 1.252481838 1 10.70412294 -8.720609272 0.741944624 0.99425874 0.734312266 0.644256513 0.104632893 0.276165775 0.298076198 0.037933979 0.01471896 1.90E-09 8.720609272 -0.259946474 S(ph)ASTSGVPPPSVTPLR ddPTM_HeLa_SAHA_4h_R1 1 SASTSGVPPPSVTPLR 16 0 Q9P242;Q9P242-3 Q9P242 NYAP2 Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter 2 1 0 S(0.492)AS(0.326)T(0.152)S(0.03)GVPPPSVTPLR 151.38 4.98E-05 7996100 1882.2 1880.5 1695.2 1563.7 2186.9 2029.4 2209.9 1835.3 1892.3 2001.1 TRUE FALSE FALSE 2080.178432 1941.429434 1926.213028 1593.967675 2019.340194 1856.483703 1961.236236 1788.355683 1879.13133 2087.377214 0.996551279 0.930080783 0.922791058 0.763622245 0.967405499 0.889385824 0.93956963 0.856747727 0.900235625 1 11.02747562 -7.052693721 2.14309394 0.998974286 0.889663286 0.190439877 0.06013539 0.186618264 1.682069318 0.008460369 0.010838632 8.86E-08 7.052693721 -0.109311 S(ph)ASWGSTDQLK ddPTM_HeLa_SAHA_4h_R1 1 SASWGSTDQLK 11 0 Q6P1L5;Q6P1L5-2 Q6P1L5 FAM117B Protein FAM117B 1 0 S(0.493)AS(0.493)WGS(0.014)T(0.001)DQLK 171.49 8.38E-05 23771000 1357.5 1287.6 1350.5 1382.5 1492.5 1486.8 1471.1 955.64 1465.4 1362.9 TRUE FALSE FALSE 1500.288078 1329.319085 1534.539107 1409.260287 1378.144972 1360.116275 1305.567956 931.1961126 1455.202162 1421.661289 1.055306275 0.93504627 1.079398531 0.991277105 0.969390517 0.956709088 0.918339668 0.655005605 1.023592732 1 10.47336207 -3.719328093 0.988339603 1.019144019 4.81E-16 0.872558828 0.039978798 1.157200348 0.414360778 0.006100171 1.622760117 0.000190841 3.719328093 -1.019144019 S(ph)ATFPNAGPR ddPTM_HeLa_SAHA_4h_R1 2 SATFPNAGPR 10 0 Q86X27-3;Q86X27 Q86X27-3 RALGPS2 Ras-specific guanine nucleotide-releasing factor RalGPS2 1 0 S(0.63)AT(0.37)FPNAGPR;S(0.649)AT(0.351)FPNAGPR ; 155.33 0.00036451 69590000 1979.03 2041.9 1827.12 1948.6 2174.8 2040.6 1793.14 1740.76 1768.15 1630.79 TRUE FALSE FALSE 2187.193456 2108.0589 2076.110398 1986.317971 2008.167294 1866.7294 1591.371168 1696.23388 1755.8453 1701.101338 1.285751417 1.239231816 1.220450747 1.167665868 1.18051009 1.097365194 0.935494631 0.997138643 1.032181482 1 10.73225337 -4.910236022 4.001079638 1.157191464 0.967272536 0.454334561 0.083990168 0.200312008 6.030905746 0.016054054 0.052806944 1.23E-05 4.910236022 -0.189918928 S(ph)ATPVNCEQPDILVSSTPINEGQTVLDK ddPTM_HeLa_SAHA_4h_R1 1 SATPVNCEQPDILVSSTPINEGQTVLDK 28 0 F8WF45;A0A2R8Y7M0;P82094;P82094-2 F8WF45 TMF1 TATA element modulatory factor 1 0 S(0.5)AT(0.5)PVNCEQPDILVSSTPINEGQTVLDK 80.85 1.50E-05 8981900 692.88 1140.9 754.73 753.32 792.87 1191 992.34 1088.7 1086.1 567.74 TRUE FALSE FALSE 765.7602974 1177.865909 857.5806739 767.9015979 732.1204719 1089.5201 880.6792915 1060.85263 1078.541742 592.2180499 1.293037755 1.98890579 1.448082635 1.296653484 1.236234647 1.839727951 1.487086204 1.791321002 1.821190256 1 9.209984652 -7.808659991 1.657459844 1.088087453 1.559168153 0 0.330463608 0.226678159 1.296795173 0.05130894 0.048706385 1.55E-08 7.808659991 0.4710807 S(ph)AVDLSCSR ddPTM_HeLa_SAHA_4h_R1 1 SAVDLSCSR 9 0 Q9Y446;Q9Y446-2;E9PK71;E9PQ15 Q9Y446 PKP3 Plakophilin-3 1 0 S(0.998)AVDLSCS(0.002)R 107.11 0.0071636 13094000 412.51 540.8 460.23 443.48 457.19 359.26 346.92 505.44 322.85 645.66 TRUE FALSE FALSE 455.8996945 558.3222748 522.9477476 452.0641967 422.160201 328.6490269 307.8836486 492.5115767 320.6032606 673.4975624 0.676913652 0.828989303 0.776465687 0.671218757 0.626817712 0.487973595 0.457141445 0.731274475 0.476027351 1 9.395528914 -13.52287875 0.111807028 2.215911787 0.420763157 0 0.186846287 43.3343018 0.354869676 12.02127406 0.594934407 3.00E-14 13.52287875 -1.79514863 S(ph)AVEAQNEVTENPK ddPTM_HeLa_SAHA_4h_R1 1 SAVEAQNEVTENPK 14 0 Q32MZ4-3;Q32MZ4-2;Q32MZ4 Q32MZ4-3 LRRFIP1 Leucine-rich repeat flightless-interacting protein 1 1 0 S(1)AVEAQNEVTENPK 263.04 3.68E-44 3030300 430.6 547.19 431.1 739.02 663.57 950.06 668.98 600.61 755.53 524.25 TRUE FALSE FALSE 475.8924837 564.919315 489.8480629 753.3248007 612.72741 869.1095431 593.7046097 585.2472659 750.2722052 546.8529831 0.870238434 1.033036908 0.895758235 1.377563667 1.120460944 1.589292863 1.085674995 1.070209515 1.371981553 1 9.095009218 -6.270565107 24.96047099 0.942811681 1.251390821 0.151227518 0.202634453 391.1529328 1069870.752 0.022449873 0.034595254 5.36E-07 6.270565107 0.30857914 S(ph)AVFPGEGK ddPTM_HeLa_SAHA_4h_R1 3 SAVFPGEGK 9 0 Q5VTI5;A0A1B0GUN5;Q9Y2H5 Q5VTI5 PLEKHA6 Pleckstrin homology domain-containing family A member 6 1 0 S(1)AVFPGEGK;S(1)AVFPGEGK;S(1)AVFPGEGK ;; 97.813 0.012227 23435500 5483.2 5301.9 4205 5904.8 6596 7073.2 6446.9 6416.9 6878.1 5570.2 TRUE FALSE FALSE 6059.948134 5473.685039 4778.035501 6019.095942 6090.615905 6470.523567 5721.477845 6252.76499 6830.234742 5810.358582 1.042955964 0.942056323 0.822330573 1.035925039 1.048234084 1.113618631 0.984703055 1.076140982 1.175527232 1 12.50441149 -6.014138862 24.94134146 0.997101742 1.053160712 0.093580136 0.087416017 1096.535458 1934321.8 0.010945151 0.018668714 9.68E-07 6.014138862 0.05605897 S(ph)AVLLVDETATTPIFANR ddPTM_HeLa_SAHA_4h_R1 2 SAVLLVDETATTPIFANR 18 0 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7;A0A087WY36;A0A087WX73 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 S(1)AVLLVDETATTPIFANR;S(1)AVLLVDETATTPIFANR ; 252.37 8.17E-48 74504000 2927.3 3775.5 3296.9 4619.7 5600.3 5589.9 4383.3 4722.8 5886.9 3875.3 TRUE FALSE FALSE 3235.206845 3897.828677 3746.184362 4709.120974 5171.206224 5113.609072 3890.079548 4601.997615 5845.932584 4042.383148 0.800321673 0.964240285 0.926726692 1.164936821 1.279246928 1.264998612 0.962323314 1.13843677 1.446159943 1 11.98099036 -6.27616468 5.52647037 0.90950478 1.163829651 0 0.193914476 0.101546069 10.95153718 0.01715849 0.027163207 5.29E-07 6.27616468 0.254324871 S(ph)AVLLVDETATTPIFANRR ddPTM_HeLa_SAHA_4h_R1 2 SAVLLVDETATTPIFANRR 19 1 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7;A0A087WY36;A0A087WX73 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 S(1)AVLLVDETATTPIFANRR;S(1)AVLLVDETATTPIFANRR ; 218.88 6.61E-26 15383100 474.61 463.73 525.44 882.84 928.36 962 876.72 632.86 487.06 664.13 TRUE FALSE FALSE 524.5316574 478.7551563 597.0442268 899.9286448 857.2292574 880.0321879 778.0691582 616.6723576 483.6705098 692.7638945 0.757157903 0.691079833 0.861829307 1.299040917 1.23740464 1.270320516 1.123137572 0.890162381 0.698175112 1 9.436219931 -6.277184045 23.91918872 0.863151106 1.171725593 0.608707064 0.140951081 291.6091705 443010.0901 0.023640364 0.036197635 5.28E-07 6.277184045 0.308574487 S(ph)AVMS(ph)FT(ph)VT(ph)DEPVYIDLTLSENKEEPVK ddPTM_HeLa_SAHA_4h_R1 1 SAVMSFTVTDEPVYIDLTLSENKEEPVK 28 1 Q15061;C9IZK7 Q15061 WDR43 WD repeat-containing protein 43 4 0 S(0.99)AVMS(0.991)FT(0.99)VT(0.849)DEPVY(0.16)IDLT(0.01)LS(0.009)ENKEEPVK 40.404 0.017826 5785100 616.62 655.01 553.67 722.94 840.16 779.77 805.74 743.76 977.41 762.37 TRUE FALSE FALSE 681.4789208 676.2327538 629.1212642 736.9335491 775.7871223 713.3292091 715.0760146 724.7356962 970.6081242 795.2395016 0.856948026 0.850351061 0.791109173 0.926681267 0.975538967 0.896999216 0.899195793 0.911342677 1.220523028 1 9.635245611 -9.345651519 1.090237943 0.999453308 0.886885528 0.412738459 0.08556285 0.401059097 0.859339499 0.033937997 0.009055163 4.51E-10 9.345651519 -0.11256778 S(ph)AVS(ph)KVLENASS(ph)VIVT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SAVSKVLENASSVIVTR 17 1 E7ENN3;A0A0C4DG40;Q8NF91-10;Q8NF91-7;Q8NF91-4;Q8NF91 E7ENN3 SYNE1 Nesprin-1 4 0 S(1)AVS(1)KVLENAS(0.067)S(0.933)VIVT(1)R 79.676 0.0073058 4852600 1399.4 1552.2 1573.7 1417.9 1811.7 1912.8 1650 1806 1949.2 1877.3 TRUE FALSE FALSE 1546.595313 1602.492298 1788.155641 1445.345505 1672.887937 1749.818679 1464.337657 1759.805135 1935.635358 1958.23959 0.789788604 0.818333112 0.913144464 0.7380841 0.854281542 0.893567206 0.747782684 0.898666917 0.988456861 1 10.93534157 -9.344696741 0.958841449 1.004799628 0.828152657 0.55516734 0.057961962 0.334109118 0.525920728 0.04231516 0.009955895 4.52E-10 9.344696741 -0.176646971 S(ph)CETSSQDLGFSYYPAENLIEYK ddPTM_HeLa_SAHA_4h_R1 1 SCETSSQDLGFSYYPAENLIEYK 23 0 S5FZ81;Q8WUB8-3;Q8WUB8-2;Q8WUB8 S5FZ81 PHF10 PHD finger protein 10 1 0 S(0.998)CET(0.002)SSQDLGFSYYPAENLIEYK 196.81 2.12E-16 4323100 806.74 1173.6 885.04 930.6 1105.4 1211.8 1187.8 553.96 1444.7 1104.5 TRUE FALSE FALSE 891.5966147 1211.62541 1005.648642 948.6131087 1020.704491 1108.547823 1054.145618 539.7905053 1434.646215 1152.1204 0.773874514 1.051648256 0.872867664 0.823362826 0.885935611 0.962180535 0.914961334 0.46851918 1.245222474 1 10.17007578 -1.000000322 0.031919263 1.425091334 2.46E-10 0.2480031 0.165709522 1731.433013 4.276497442 59.58989531 151.284061 0.099999926 1.000000322 -1.425091334 S(ph)CHDLDLLGQSPGWGQTQAVETNIVCK ddPTM_HeLa_SAHA_4h_R1 2 SCHDLDLLGQSPGWGQTQAVETNIVCK 27 0 Q9P0V3-2;Q9P0V3 Q9P0V3-2 SH3BP4 SH3 domain-binding protein 4 1 0 S(0.998)CHDLDLLGQS(0.001)PGWGQT(0.001)QAVETNIVCK;S(0.998)CHDLDLLGQS(0.002)PGWGQTQAVETNIVCK ; 91.407 8.02E-06 12440400 1604.54 2081.18 1576.25 1817.63 2456.41 816.96 2155.99 2382.37 2084.95 1853.94 TRUE FALSE FALSE 1773.312879 2148.611598 1791.053141 1852.812857 2268.200396 747.3504119 1913.392331 2321.432425 2070.440663 1933.872426 0.916975109 1.111041022 0.926148549 0.958084324 1.172880054 0.386452799 0.9894098 1.200406187 1.070619052 1 10.91727691 S(ph)CLWLR ddPTM_HeLa_SAHA_4h_R1 1 SCLWLR 6 0 Q99956 Q99956 DUSP9 Dual specificity protein phosphatase 9 1 0 S(1)CLWLR 132.09 0.00042674 10399000 2035.8 2461.4 1905.5 2406.1 2265.1 5393.6 2501.4 4650.8 3632.7 2882.4 TRUE FALSE FALSE 2249.934785 2541.150975 2165.171617 2452.673545 2091.548527 4934.034936 2219.935889 4531.83927 3607.419745 3006.67437 0.748313421 0.845169999 0.720121752 0.815742991 0.6956352 1.641027371 0.738335987 1.507259754 1.199803936 1 11.55395291 -5.287510574 24.99877233 0.8477055 1.239820682 0.361977385 0.26104679 544.3803636 521986.7578 0.031583665 0.070643696 5.16E-06 5.287510574 0.392115182 S(ph)CPELTSGPR ddPTM_HeLa_SAHA_4h_R1 4 SCPELTSGPR 10 0 Q13111;Q13111-3;Q13111-2 Q13111 CHAF1A Chromatin assembly factor 1 subunit A 1 0 S(1)CPELTSGPR;S(1)CPELTSGPR;S(1)CPELTSGPR;S(1)CPELTSGPR ;;; 197.73 1.10E-08 87804000 1566.73 1512.96 1413.01 1412.31 1636.36 1728.52 1953.9 1513 1799.44 1852.64 TRUE FALSE FALSE 1731.52585 1561.980897 1605.567644 1439.647302 1510.98245 1581.240372 1734.04203 1474.299651 1786.917551 1932.516377 0.895995434 0.808262696 0.830817096 0.744959949 0.781873038 0.818228705 0.897297456 0.762891155 0.924658426 1 10.91626492 -7.877687395 0.756014714 0.984192245 0.803418464 0.645833456 0.045590129 0.202724874 0.254505087 0.014289454 0.01125145 1.33E-08 7.877687395 -0.180773781 S(ph)CSPSSSVSR ddPTM_HeLa_SAHA_4h_R1 1 SCSPSSSVSR 10 0 Q96S65 Q96S65 CSRNP1 Cysteine/serine-rich nuclear protein 1 1 0 S(0.922)CS(0.06)PS(0.001)S(0.005)S(0.012)VS(0.001)R 110.08 0.0019281 0 1088.6 962.67 1091.8 1535.5 1523.9 1474.4 1789.6 1625.7 1277.2 1173.2 TRUE FALSE FALSE 1203.103943 993.8611396 1240.584818 1565.221823 1407.139111 1348.772825 1588.229498 1584.116948 1268.311861 1223.782394 0.983102837 0.812122437 1.013729912 1.279003384 1.149827877 1.102134524 1.297803847 1.294443323 1.036386753 1 10.25713133 -6.343507995 5.647259856 0.975796513 1.217353929 0.713220341 0.081108084 0.099972134 5.328883269 0.012556273 0.019320773 4.53E-07 6.343507995 0.241557416 S(ph)CTPSPDQISHR ddPTM_HeLa_SAHA_4h_R1 1 SCTPSPDQISHR 12 0 C9J6P4;Q7Z2W4;Q7Z2W4-3;Q7Z2W4-2 C9J6P4 ZC3HAV1 Zinc finger CCCH-type antiviral protein 1 1 0 S(0.511)CT(0.383)PS(0.105)PDQISHR 96.489 0.0067507 13465000 1234.3 948.36 889.55 900.77 1060.6 854.2 1078.1 1053.6 1072.2 1167.4 TRUE FALSE FALSE 1364.129337 979.0874862 1010.773241 918.2057059 979.3370571 781.4173544 956.7893506 1026.650438 1064.738473 1217.732327 1.12022101 0.804025207 0.830045503 0.754029178 0.804230154 0.641698785 0.785714011 0.843083833 0.874361671 1 10.24998133 -7.204615501 6.093485783 1.056682615 0.77570816 0.568297835 0.082410411 0.07070731 5.759683318 0.011339624 0.01386687 6.24E-08 7.204615501 -0.280974455 S(ph)DEEDEDSDFGEEQR ddPTM_HeLa_SAHA_4h_R1 1 SDEEDEDSDFGEEQR 15 0 Q5VW52;Q9HCL2 Q5VW52 GPAM "Glycerol-3-phosphate acyltransferase 1, mitochondrial" 1 0 S(0.933)DEEDEDS(0.067)DFGEEQR 214.48 2.08E-45 0 722.83 812.3 460.24 562.16 928.87 914.87 800.74 601.07 906.28 813.17 TRUE FALSE FALSE 798.8605759 838.619053 522.9591104 573.0414197 857.7001813 836.9179291 710.6386278 585.6954997 899.9731237 848.2297383 0.941797416 0.988669714 0.616530035 0.675573366 1.01116495 0.986664215 0.837790277 0.690491589 1.061001617 1 9.728311253 S(ph)DLEERR ddPTM_HeLa_SAHA_4h_R1 1 SDLEERR 7 1 C9J6B1;C9JQB3;P11234;P11234-3;P11234-2 C9J6B1 RALB Ras-related protein Ral-B 1 0 S(1)DLEERR 93.162 0.0058108 0 1696.7 2573.8 1611.2 2564.5 2405.2 2310.9 2152 1652 2901.9 2248.9 TRUE FALSE FALSE 1875.166691 2657.192809 1830.765945 2614.139606 2220.914096 2113.998319 1909.851296 1609.744232 2881.705442 2345.861085 0.799351122 1.132715328 0.780423852 1.114362493 0.94673726 0.901160914 0.81413657 0.68620612 1.22842118 1 11.19590187 -4.464948523 1.902779619 0.929333623 0.661712281 0.254772801 0.14480759 0.510910965 2.585909689 0.016455404 0.207585093 3.43E-05 4.464948523 -0.267621341 S(ph)DNT(ph)VS(ph)KR ddPTM_HeLa_SAHA_4h_R1 1 SDNTVSKR 8 1 Q9Y6L7 Q9Y6L7 TLL2 Tolloid-like protein 2 3 0 S(1)DNT(1)VS(1)KR 58.132 0.021954 6045500 252.75 69.059 119.75 54.608 0 0 180.56 164.52 131.14 0 TRUE FALSE FALSE 279.3354047 71.29655691 136.0689064 55.6650168 0 0 160.2429136 160.3118166 130.2273861 0 0 S(ph)DS(ph)DY(ph)DMSPKTMSR ddPTM_HeLa_SAHA_4h_R1 1 SDSDYDMSPKTMSR 14 1 P27815-6;P27815-2;P27815-7;P27815 P27815-6 PDE4A "cAMP-specific 3,5-cyclic phosphodiesterase 4A" 3 0 S(0.984)DS(0.902)DY(0.884)DMS(0.228)PKT(0.002)MS(0.001)R 50.284 0.0085356 0 0 70.6 0 168.46 75.893 213.79 0 123.1 0 144.26 TRUE FALSE FALSE 0 72.88748632 0 171.7207869 70.07809474 195.5738893 0 119.9512802 0 150.4797546 0 0.484367392 0 1.141155416 0.465697827 1.299669114 0 0.797125704 0 1 7.233425591 -2.947101555 19.42650433 0.546170876 0.573627203 0 0.489306804 0 0 0.065337069 0 0.001129532 2.947101555 0.027456327 S(ph)DSDLLTCSPTEDATMGSR ddPTM_HeLa_SAHA_4h_R1 4 SDSDLLTCSPTEDATMGSR 19 0 A0A3B3ISP1;Q92625 A0A3B3ISP1 ANKS1A Ankyrin repeat and SAM domain-containing protein 1A 1 0 S(0.969)DS(0.029)DLLT(0.001)CSPTEDAT(0.001)MGS(0.001)R;S(0.85)DS(0.105)DLLT(0.002)CS(0.002)PT(0.04)EDAT(0.001)MGSR;S(0.996)DS(0.004)DLLTCSPTEDATMGSR;S(0.999)DS(0.001)DLLTCSPTEDATMGSR ;;; 222.51 4.79E-26 14352200 1403.88 1926.74 1646.68 1400.84 1765.7 2167.7 1308.7 1671.98 2894.29 2058.54 TRUE FALSE FALSE 1551.54654 1989.16764 1871.080975 1427.955284 1630.412447 1982.999765 1161.441632 1629.213173 2874.1484 2147.293734 0.722559059 0.926360287 0.871367035 0.665002306 0.759287107 0.923487893 0.540886239 0.758728602 1.338498015 1 11.06830384 -13.52287875 0.234800046 2.361268835 0.732329764 0.465319714 0.152576094 36.22378069 0.469932844 22.79870424 0.07619587 3.00E-14 13.52287875 -1.628939071 S(ph)DSDYDLSPK ddPTM_HeLa_SAHA_4h_R1 2 SDSDYDLSPK 10 0 Q08499-6;Q08499;A0A1B0GW84;Q08499-9;Q08499-2;Q08499-10;A0A087WSZ7;Q08499-12;Q08499-7;Q08499-11;A0A1W2PQN6;E9PMG3;Q07343-3;Q07343 Q08499-6 PDE4D;PDE4B "cAMP-specific 3,5-cyclic phosphodiesterase 4D;cAMP-specific 3,5-cyclic phosphodiesterase 4B" 1 0 S(0.801)DS(0.199)DYDLSPK;S(0.804)DS(0.196)DYDLSPK ; 208.17 1.32E-10 80284000 5961.9 5837.9 4618.6 5980 5880 7653.6 6642.4 6315.3 6079.2 5582.8 TRUE FALSE FALSE 6588.999996 6027.05179 5247.998755 6095.751547 5429.47567 7001.470222 5894.97967 6153.76377 6036.894352 5823.50183 1.131449803 1.034953189 0.901175772 1.046750173 0.932338622 1.202278359 1.012274031 1.056711915 1.036643334 1 12.50767123 -5.271332723 24.98075106 1.040281329 1.082606701 0.104666819 0.078075775 1854.58908 4682850.829 0.012411163 0.028044682 5.35E-06 5.271332723 0.042325372 S(ph)DSEATISR ddPTM_HeLa_SAHA_4h_R1 1 SDSEATISR 9 0 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2;H0Y4T4 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 S(0.992)DS(0.008)EATISR 149.94 0.00043603 101100000 706.84 752.18 643.43 677.35 913.65 613.78 625.45 833.16 972.18 837.55 TRUE FALSE FALSE 781.1886743 776.5511255 731.1132896 690.4610887 843.6463344 561.482491 555.0727199 811.8489736 965.4145202 873.6608794 0.894155493 0.888847313 0.836838763 0.790307893 0.965645085 0.642677845 0.635341164 0.929249544 1.105022032 1 9.770929581 -6.995710684 0.293795749 1.014488668 0.71961672 0.453270204 0.104544824 1.194621414 0.314853167 0.093542825 0.135281876 1.01E-07 6.995710684 -0.294871948 S(ph)DSLLSFR ddPTM_HeLa_SAHA_4h_R1 4 SDSLLSFR 8 0 Q00587-2;Q00587 Q00587-2 CDC42EP1 Cdc42 effector protein 1 1 0 S(0.984)DS(0.016)LLSFR;S(1)DSLLSFR;S(0.997)DS(0.003)LLSFR;S(0.999)DS(0.001)LLSFR ;;; 187.5 1.76E-08 17748400 2075.46 2017.33 1855.82 2245.34 2849.03 2912.55 2504.03 2076.13 2374.36 2023.9 TRUE FALSE FALSE 2293.766405 2082.692816 2108.721485 2288.801803 2630.737937 2664.384354 2222.269954 2023.025601 2357.836635 2111.160234 1.086495648 0.986515747 0.99884483 1.084144048 1.246110027 1.262047433 1.052629696 0.958252987 1.116843998 1 11.04382037 -5.998739853 24.99881095 1.034402345 1.13762823 0.186452415 0.089944422 51.45638601 1020740.017 0.013591623 0.024500669 1.00E-06 5.998739853 0.103225885 S(ph)DSPES(ph)DAEREK ddPTM_HeLa_SAHA_4h_R1 2 SDSPESDAEREK 12 1 O75400-2;O75400-3;O75400 O75400-2 PRPF40A Pre-mRNA-processing factor 40 homolog A 2 0 S(0.914)DS(0.086)PES(1)DAEREK;S(0.999)DS(0.001)PES(1)DAEREK ; 118.52 0.022231 42010000 6365.2 7917.3 6189.8 6922.9 8296.4 8428.5 7795.5 7400.9 8906.4 7002.7 TRUE FALSE FALSE 7034.720941 8173.825715 7033.313709 7056.90274 7660.731624 7710.344383 6918.329823 7211.595694 8844.419637 7304.620667 0.963050822 1.118993865 0.962858173 0.966087503 1.048751465 1.055543434 0.947116919 0.987264914 1.210797937 1 12.83459364 S(ph)DSRAQAVSEDAGGNEGR ddPTM_HeLa_SAHA_4h_R1 1 SDSRAQAVSEDAGGNEGR 18 1 P55884;P55884-2;C9JZG1 P55884 EIF3B Eukaryotic translation initiation factor 3 subunit B 1 0 S(0.545)DS(0.455)RAQAVSEDAGGNEGR 62.658 0.012773 25376000 768.67 344.86 441.7 451.88 494.42 474.13 665.05 636.72 274.14 401.93 TRUE FALSE FALSE 849.5222374 356.0336903 501.8925757 460.6267908 456.5376464 433.7314566 590.2168237 620.4336244 272.2322374 419.2591693 2.026246054 0.849197147 1.197093856 1.098668376 1.088915115 1.034518714 1.407761277 1.479833167 0.649317313 1 8.711698526 -7.230831703 24.96911582 1.484616361 1.165189293 0 0.388840464 1110.728271 906110.4899 0.067998155 0.08327492 5.88E-08 7.230831703 -0.319427068 S(ph)DVPLR ddPTM_HeLa_SAHA_4h_R1 1 SDVPLR 6 0 Q96RD9-4;Q96RD9-3;Q96RD9 Q96RD9-4 FCRL5 Fc receptor-like protein 5 1 0 S(1)DVPLR 120.62 0.004976 31762000 3412.2 3966.7 3583.7 3550.6 3882.6 4798.6 3915.5 3910.2 3715.2 3706.6 TRUE FALSE FALSE 3771.110852 4095.223683 4072.067973 3619.326997 3585.116027 4389.732284 3474.917635 3810.182746 3689.345621 3866.409666 0.975352117 1.059179972 1.053191029 0.936095062 0.92724681 1.135351053 0.898745331 0.985457589 0.954204531 1 11.91677879 -6.238118515 24.90569002 0.998923442 0.978335052 0.044305241 0.066757677 3081.216043 3290612.231 0.009581161 0.015884344 5.78E-07 6.238118515 -0.02058839 S(ph)EAEDEDDEDYVPYVPLR ddPTM_HeLa_SAHA_4h_R1 2 SEAEDEDDEDYVPYVPLR 18 0 D6RD33;D6RGI7;A0A499FJW5;Q9UJV9 D6RD33 DDX41 Probable ATP-dependent RNA helicase DDX41 1 0 S(1)EAEDEDDEDYVPYVPLR;S(1)EAEDEDDEDYVPYVPLR ; 223.68 1.26E-22 16173100 185.93 743.32 253.93 528.47 543.56 707.85 314.224 497.71 682.47 486.9 TRUE FALSE FALSE 205.4869705 767.4040557 288.534258 538.699301 501.9125502 647.5371977 278.8666885 484.9792989 677.7206357 507.8926418 0.404587414 1.510957223 0.568100882 1.060655849 0.988225678 1.274948964 0.549066211 0.95488546 1.33437774 1 8.988379763 S(ph)EALSSVLDQEEAMEIK ddPTM_HeLa_SAHA_4h_R1 2 SEALSSVLDQEEAMEIK 17 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 S(1)EALSSVLDQEEAMEIK;S(0.997)EALS(0.001)S(0.001)VLDQEEAMEIK ; 155.63 2.28E-05 3741900 523.39 779.53 597.8 630.17 685.28 880.27 756.01 642.41 1307.12 954.5 TRUE FALSE FALSE 578.4425616 804.7872835 679.2650708 642.3678516 632.7739944 805.2660437 670.9417651 625.9780824 1298.023645 995.6531662 0.580967933 0.808300833 0.682230614 0.645172308 0.635536566 0.808781683 0.67387097 0.628710985 1.303690572 1 9.95949946 -9.416536397 1.035154206 1.008215404 0.67894339 0.663636908 0.122556829 0.227182848 0.417616471 0.056997702 0.013020975 3.83E-10 9.416536397 -0.329272014 S(ph)EDEDS(ph)LEEAGSPAPGPCPR ddPTM_HeLa_SAHA_4h_R1 2 SEDEDSLEEAGSPAPGPCPR 20 0 Q8TBB5-2;Q8TBB5-3;Q8TBB5 Q8TBB5-2 KLHDC4 Kelch domain-containing protein 4 2 0 S(1)EDEDS(1)LEEAGSPAPGPCPR;S(1)EDEDS(1)LEEAGSPAPGPCPR ; 253.34 7.95E-51 15587900 972.71 935.05 709.23 1149.9 1112.5 1007.96 1055.33 997.54 1690.22 1025.34 TRUE FALSE FALSE 1075.024101 965.3462335 805.8801709 1172.157977 1027.26049 922.0761374 936.5814909 972.0243712 1678.457621 1069.547425 1.005120554 0.902574501 0.753477734 1.095938291 0.960462777 0.862118047 0.875680188 0.908818392 1.569315751 1 10.06278474 -7.262738056 24.03025105 1.002418042 0.908649492 0.136313045 0.196599907 74.62343779 1380802.555 0.013442957 0.015826994 5.46E-08 7.262738056 -0.09376855 S(ph)EDEDSLEEAGSPAPGPCPR ddPTM_HeLa_SAHA_4h_R1 2 SEDEDSLEEAGSPAPGPCPR 20 0 Q8TBB5-2;Q8TBB5-3;Q8TBB5 Q8TBB5-2 KLHDC4 Kelch domain-containing protein 4 1 0 S(1)EDEDSLEEAGSPAPGPCPR;S(1)EDEDSLEEAGSPAPGPCPR ; 276.3 7.90E-65 14986000 675.79 500.89 419.73 581.57 542.26 820.77 554.548 426.02 935.97 734.91 TRUE FALSE FALSE 746.8726928 517.1191646 476.9286185 592.8271283 500.7121559 750.8357785 492.1487995 415.1230253 929.4565086 766.5955667 0.974272126 0.674565817 0.622138503 0.773324494 0.653163386 0.979441848 0.641992755 0.541515035 1.212447018 1 9.582321845 -7.267644826 21.89765468 0.987850772 0.704941785 0.603451627 0.13112319 44.72853997 157836.9171 0.018341057 0.021293834 5.40E-08 7.267644826 -0.282908987 S(ph)EEGHPFKPRLIT(ph)MLAS(ph)PEIR ddPTM_HeLa_SAHA_4h_R1 1 SEEGHPFKPRLITMLASPEIR 21 2 O95197-6 O95197-6 3 0 S(1)EEGHPFKPRLIT(1)MLAS(1)PEIR 43.955 0.019094 6051400 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 S(ph)EESPVYSNSSVR ddPTM_HeLa_SAHA_4h_R1 1 SEESPVYSNSSVR 13 0 H0Y8J2;Q03188 H0Y8J2 CENPC Centromere protein C 1 0 S(0.998)EES(0.002)PVYSNSSVR 225.33 6.50E-23 16390000 1463.8 1591.9 1313.6 1739.5 1469.7 1776.8 1969.3 1526.5 1974 1454 TRUE FALSE FALSE 1617.7692 1643.478604 1492.610567 1773.170538 1357.091904 1625.406644 1747.709181 1487.45434 1960.262773 1516.689056 1.066645265 1.083596271 0.984124308 1.169106173 0.894772662 1.071680868 1.152318713 0.980724648 1.29246187 1 10.56670963 -9.350652194 1.048723081 0.999679524 1.053060048 0 0.119934184 1.258273757 2.453846202 0.049945309 0.012738002 4.46E-10 9.350652194 0.053380523 S(ph)EGFSMDR ddPTM_HeLa_SAHA_4h_R1 1 SEGFSMDR 8 0 K7ERA4;Q7Z4V5-2;Q7Z4V5;Q7Z4V5-4;Q7Z4V5-3 K7ERA4 HDGFRP2 Hepatoma-derived growth factor-related protein 2 1 0 S(1)EGFSMDR 85.807 0.021979 11623000 421.32 497.13 425.95 623.66 720.82 755.98 677.27 638.92 745.39 456.72 TRUE FALSE FALSE 465.6363707 513.2373382 483.9962477 635.7318411 665.5909273 691.566251 601.0617971 622.5773515 740.2027703 476.4114343 0.977382861 1.077298531 1.015920721 1.33441768 1.397092679 1.45161556 1.261644356 1.306806064 1.55370488 1 8.896064229 -6.260381815 4.378327203 0.997656512 1.356510526 0.12153164 0.183883248 0.043006735 2.134666898 0.008626375 0.013984555 5.49E-07 6.260381815 0.358854014 S(ph)EGSEYEEIPK ddPTM_HeLa_SAHA_4h_R1 2 SEGSEYEEIPK 11 0 P48634 P48634 PRRC2A Protein PRRC2A 1 0 S(0.996)EGS(0.003)EYEEIPK;S(0.997)EGS(0.003)EYEEIPK ; 162.93 0.00017969 16323300 4128 5491.7 3902.4 3927.6 4013.3 6272.7 4184.8 3464.8 7274.1 5348 TRUE FALSE FALSE 4562.20198 5669.634683 4434.198749 4003.624377 3705.801821 5738.230671 3713.91529 3376.175433 7223.478946 5578.578452 0.817807264 1.016322479 0.794861771 0.717678242 0.664291423 1.0286188 0.665745821 0.605203541 1.294860153 1 12.44568182 -3.104232351 0.061992583 1.319996865 7.16E-10 0.434503284 0.155720373 151.8988502 1.093282534 6.274834943 20.73179268 0.000786625 3.104232351 -1.319996864 S(ph)EHSLFQAK ddPTM_HeLa_SAHA_4h_R1 1 SEHSLFQAK 9 0 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-6 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 S(0.759)EHS(0.241)LFQAK 113.69 0.0040326 3615800 3085.5 3595.8 2557.5 3333.3 3442.6 763.12 3150.6 2788.5 4009.7 3423 TRUE FALSE FALSE 3410.047047 3712.306279 2906.022781 3397.820842 3178.828732 698.0978828 2796.086196 2717.174208 3981.796171 3570.582282 0.95503948 1.039692125 0.813879236 0.951615331 0.890283007 0.195513736 0.783089697 0.760989103 1.115167179 1 11.80194365 -5.498474833 24.47163493 0.966034831 0.590638602 0.537782148 0.165674382 315.7053253 316580.9549 0.02121899 0.047204532 3.17E-06 5.498474833 -0.375396228 S(ph)EPAVGPPR ddPTM_HeLa_SAHA_4h_R1 1 SEPAVGPPR 9 0 O94875-11;O94875-9;O94875-12;O94875-8;O94875-7;H7BZX1;H7BZK1;H7C1R7;O94875-4;O94875;O94875-10;O94875-2;O94875-5;O94875-3;H7BXR3 O94875-11 SORBS2 Sorbin and SH3 domain-containing protein 2 1 0 S(1)EPAVGPPR 110.53 0.0029123 0 603.57 708 565.62 617.99 621.17 1122.4 794.87 557.66 513.38 710.3 TRUE FALSE FALSE 667.0562619 730.9396645 642.699748 629.9520901 573.5760888 1026.765206 705.4291356 543.3958647 509.8073468 740.9245091 0.9003026 0.986523803 0.867429462 0.850224392 0.774135667 1.385789231 0.952093131 0.733402469 0.688069217 1 9.533182747 -4.263868995 8.139096278 0.958696584 0.731818 0.088403988 0.177685065 0.121870875 108.955125 0.020710576 0.156772552 5.45E-05 4.263868995 -0.226878585 S(ph)ESDLEDVGPTAEWNGDGSGSLRR ddPTM_HeLa_SAHA_4h_R1 1 SESDLEDVGPTAEWNGDGSGSLRR 24 1 Q9H0B6;Q9H0B6-2;A8MZ87 Q9H0B6 KLC2 Kinesin light chain 2 1 0 S(0.549)ES(0.451)DLEDVGPTAEWNGDGSGSLRR 123.65 1.27E-06 5492200 307.43 438.47 310.39 313.51 502.97 524.99 488.11 632.65 370.31 465.41 TRUE FALSE FALSE 339.7668979 452.6767157 352.6883328 319.5784394 464.4325473 480.2578985 433.1865782 616.4677291 367.7329826 485.4761028 0.699863281 0.93243872 0.726479287 0.658278415 0.956653777 0.989251367 0.892292279 1.269820956 0.757468762 1 8.923256471 -1.085658045 0.920046478 0.844476708 199.9999993 0.550127577 0.117440873 614.0537537 1.391711471 0.021611785 256780.7292 0.082099773 1.085658045 199.1555226 S(ph)ESELIDELSEDFDR ddPTM_HeLa_SAHA_4h_R1 3 SESELIDELSEDFDR 15 0 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;P20810-2;E9PCH5;P20810-3;H0Y7F0;H0Y9H6;E7EQ12;E7EQA0;H0YD33;A0A0A0MR45;D6RC54 P20810-6 CAST Calpastatin 1 0 S(0.922)ES(0.078)ELIDELSEDFDR;S(0.795)ES(0.204)ELIDELSEDFDR;S(0.578)ES(0.421)ELIDELS(0.001)EDFDR ;; 250.46 2.34E-34 142525000 605.3 1155.06 789.82 923.13 1461.88 1774.42 1357.32 1043.71 1852.29 1646.97 TRUE FALSE FALSE 668.9682312 1192.484702 897.4525564 940.998516 1349.87107 1623.229433 1204.590781 1017.013409 1839.399763 1717.978937 0.389392569 0.694120677 0.522388568 0.54773577 0.785732026 0.944848274 0.701167375 0.591982467 1.070676551 1 10.74649663 -9.599075622 1.413287483 0.998859606 0.620223594 0.507621055 0.149093741 0.339233586 1.221646561 0.120136567 0.028154409 2.52E-10 9.599075622 -0.378636012 S(ph)ESELIDELSEDFDRSECK ddPTM_HeLa_SAHA_4h_R1 1 SESELIDELSEDFDRSECK 19 1 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;P20810-2;E9PCH5;P20810-3;H0Y7F0;H0Y9H6;E7EQ12;E7EQA0;H0YD33;A0A0A0MR45;D6RC54 P20810-6 CAST Calpastatin 1 0 S(0.941)ES(0.059)ELIDELSEDFDRSECK 204.47 3.14E-20 8660100 974.16 1004.7 1162.6 990.52 1449 1213.4 1423.8 1192.8 1349.7 1017.9 TRUE FALSE FALSE 1076.626618 1037.252939 1321.033073 1009.692947 1337.977933 1110.011494 1263.590277 1162.289903 1340.307328 1061.78665 1.013976412 0.976893935 1.24416056 0.950937692 1.260119377 1.045418581 1.190060429 1.094654847 1.262313222 1 10.05227819 -6.793368136 24.99940005 1.004556409 1.127390574 0 0.118920001 149.6984683 117209.548 0.012086371 0.015885323 1.61E-07 6.793368136 0.122834165 S(ph)ESLDPDSSMDTTLILK ddPTM_HeLa_SAHA_4h_R1 1 SESLDPDSSMDTTLILK 17 0 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 S(0.5)ES(0.5)LDPDSSMDTTLILK 224.06 7.06E-22 7984200 1675.5 3019.8 2695.7 1482 2488.4 3357.9 2933.6 1864.8 2389.4 2886.8 TRUE FALSE FALSE 1851.736777 3117.643501 3063.055957 1510.686253 2297.73933 3071.788029 2603.503607 1817.101116 2372.771971 3011.264076 0.614936695 1.035327166 1.017199382 0.501678436 0.763048099 1.020099185 0.864588273 0.603434661 0.787965423 1 11.55615352 S(ph)ESLSSR ddPTM_HeLa_SAHA_4h_R1 1 SESLSSR 7 0 Q9BZJ8 Q9BZJ8 GPR61 Probable G-protein coupled receptor 61 1 0 S(0.999)ES(0.001)LSSR 116.25 0.0049753 14888000 638.57 484.43 691.23 855.72 914.44 1870.3 1340.4 1068.8 916.24 1209.1 TRUE FALSE FALSE 705.7377225 500.1258498 785.4272246 872.283698 844.3758048 1710.939918 1189.574664 1041.461644 909.8638112 1261.230218 0.559562967 0.396538112 0.622746913 0.691613383 0.669485866 1.356564324 0.943185984 0.825750627 0.721409778 1 10.30061593 -9.618887885 1.472911461 0.998127305 0.733047806 0 0.25947076 0.73400566 2.891558114 0.186572919 0.044101239 2.40E-10 9.618887885 -0.265079499 S(ph)ESPFRETEPLVSPHQDK ddPTM_HeLa_SAHA_4h_R1 1 SESPFRETEPLVSPHQDK 18 1 Q9BYW2;C9JG86;H7C3H4;Q9BYW2-3;Q9BYW2-2;H7BZ93;H7BXT4 Q9BYW2 SETD2 Histone-lysine N-methyltransferase SETD2 1 0 S(0.64)ES(0.356)PFRET(0.004)EPLVSPHQDK 85.945 0.0021451 0 766.68 737.11 633.73 767.95 1114.6 1321.7 988.68 1025.8 1254.3 878.51 TRUE FALSE FALSE 847.3229201 760.9928476 720.0914241 782.8147827 1029.199589 1209.083724 877.4311243 999.5615213 1245.571224 916.3868654 0.92463451 0.830427493 0.785794135 0.854240509 1.123106002 1.319403158 0.957489852 1.090763693 1.359219857 1 9.83981297 -5.746480729 24.78540106 0.930646446 1.124941593 0.168849381 0.171000591 169.5298548 280896.8013 0.016582451 0.033055924 1.79E-06 5.746480729 0.194295147 S(ph)ESPKEPEQLR ddPTM_HeLa_SAHA_4h_R1 1 SESPKEPEQLR 11 1 F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8W646 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 S(0.734)ES(0.266)PKEPEQLR 154.23 0.0016207 7044300 1174.1 1572.5 1297.7 1221.9 1286.3 1449.3 1672.4 1434.4 1576.5 1609.5 TRUE FALSE FALSE 1297.597225 1623.450032 1474.543798 1245.551641 1187.743972 1325.811486 1484.21715 1397.710125 1565.529008 1678.893422 0.772888385 0.96697623 0.878283147 0.741888452 0.707456445 0.789693657 0.88404489 0.832518674 0.932476706 1 10.71329493 -6.393655988 6.243724342 0.896492977 0.791929894 0.400161728 0.072171869 0.294589224 13.81424502 0.015133601 0.023177478 4.04E-07 6.393655988 -0.104563083 S(ph)ESPSLTQER ddPTM_HeLa_SAHA_4h_R1 1 SESPSLTQER 10 0 H7BZJ7;Q9BXW9-3;Q9BXW9;Q9BXW9-1 H7BZJ7 FANCD2 Fanconi anemia group D2 protein 1 0 S(0.588)ES(0.385)PS(0.011)LT(0.016)QER 97.452 0.012408 18242000 1135 1212.7 1059.5 1152.2 1224.3 1564.5 1534.8 1338.2 1517.4 1201.5 TRUE FALSE FALSE 1254.384508 1251.992276 1203.883142 1174.502497 1130.494398 1431.195798 1362.100265 1303.970782 1506.84029 1253.302545 1.000863289 0.998954547 0.960568657 0.937126077 0.90201237 1.141939593 1.086808824 1.040427778 1.202295723 1 10.29151901 -5.250179223 24.99946495 0.986695642 1.089433739 0.198957218 0.079049206 432.5354318 960300.043 0.006039049 0.015242231 5.62E-06 5.250179223 0.102738097 S(ph)ESSDFEVVPK ddPTM_HeLa_SAHA_4h_R1 1 SESSDFEVVPK 11 0 E7EPN9;Q9Y520-2;Q9Y520-6;Q9Y520-4;Q9Y520-5;Q9Y520;Q9Y520-7;Q9Y520-3 E7EPN9 PRRC2C Protein PRRC2C 1 0 S(0.936)ES(0.038)S(0.026)DFEVVPK 103.08 0.0060942 6314700 1118.4 1560.2 1297.6 1549.9 1240.9 2190.7 1199.3 1497 2431.8 1555.6 TRUE FALSE FALSE 1236.038443 1610.751504 1474.43017 1579.900556 1145.82251 2004.040035 1064.351608 1458.708908 2414.876906 1622.669529 0.761731469 0.992655297 0.908644764 0.973642832 0.706134237 1.235026603 0.655926292 0.898956246 1.488212395 1 10.6641535 -9.72952191 1.653246568 0.99996974 0.872407956 0.126434557 0.221185686 0.774264698 3.825173569 0.105624856 0.023029061 1.86E-10 9.72952191 -0.127561784 S(ph)ESTENQSYAK ddPTM_HeLa_SAHA_4h_R1 1 SESTENQSYAK 11 0 Q96RT1-7;Q96RT1-6;Q96RT1-4;Q96RT1-5;Q96RT1-3;Q96RT1-9;Q96RT1-2;Q96RT1;Q96RT1-8 Q96RT1-7 ERBB2IP Protein LAP2 1 0 S(0.821)ES(0.076)T(0.076)ENQS(0.028)YAK 151.7 0.00046012 4346100 708.76 1625.2 892.6 530.07 856.22 1336.8 1675 746.82 853.5 1213.2 TRUE FALSE FALSE 783.3106287 1677.857546 1014.23888 540.3302713 790.6166086 1222.897119 1486.524592 727.7174258 847.560424 1265.506989 0.618969816 1.32583823 0.801448659 0.426967434 0.624742981 0.966329803 1.174647477 0.575040227 0.669739821 1 10.30549976 -9.718508936 1.622321816 1.000129517 0.792916476 0 0.283317997 0.898924718 4.267343371 0.196532695 0.042898068 1.91E-10 9.718508936 -0.207213041 S(ph)ESVEGFLSPSR ddPTM_HeLa_SAHA_4h_R1 2 SESVEGFLSPSR 12 0 Q08AD1-2;Q08AD1-3;Q08AD1 Q08AD1-2 CAMSAP2 Calmodulin-regulated spectrin-associated protein 2 1 0 S(0.994)ES(0.006)VEGFLSPSR;S(0.629)ES(0.371)VEGFLSPSR ; 171.99 6.37E-05 12618600 1530.94 1836.94 1613.54 1814.21 1928.37 2033.99 2282.9 2180.06 1984.63 1631.23 TRUE FALSE FALSE 1691.971293 1896.458061 1833.424828 1849.326658 1780.618707 1860.682609 2026.022084 2124.297222 1970.818798 1701.560308 0.994364575 1.114540608 1.077496236 1.086841676 1.046462296 1.093515522 1.190684852 1.248440747 1.158242108 1 10.73264257 -1 0.275165964 0.991613332 2.884128559 0.33578675 0.062386884 14.72564592 0.1872648 0.017415268 13.49719195 0.1 1 1.892515227 S(ph)ET(ph)PPHWR ddPTM_HeLa_SAHA_4h_R1 1 SETPPHWR 8 0 Q13427;E9PG73;C9JM79 Q13427 PPIG Peptidyl-prolyl cis-trans isomerase G 2 0 S(1)ET(1)PPHWR 80.916 0.022321 6575700 1814.8 2567.3 1761.3 2026.2 2526.7 2821.5 1901.2 2319.8 3005.5 2590.2 TRUE FALSE FALSE 2005.688991 2650.482204 2001.320792 2065.420031 2333.104792 2581.092327 1687.271972 2260.462875 2984.584481 2701.876198 0.742331937 0.980978405 0.740715209 0.764439182 0.863512841 0.955296297 0.6244816 0.83662711 1.104634062 1 11.39974586 -9.455053541 1.049867618 1.006166493 0.808103153 0.426067995 0.106164411 0.508466048 0.950375528 0.078491179 0.017136732 3.51E-10 9.455053541 -0.198063341 S(ph)ET(ph)VICS(ph)S(ph)RATVMLYDDGNK ddPTM_HeLa_SAHA_4h_R1 1 SETVICSSRATVMLYDDGNK 20 1 P50552;K7EIG8;K7ENR7;K7ENL7 P50552 VASP Vasodilator-stimulated phosphoprotein 4 0 S(1)ET(0.999)VICS(0.988)S(0.86)RAT(0.067)VMLY(0.086)DDGNK 41.166 0.020253 3860500 370.46 544.36 444.47 419.96 371.33 341.24 312.75 278.59 446.61 354.87 TRUE FALSE FALSE 409.4266825 561.9976212 505.0400569 428.0889331 342.8787756 312.1644322 277.5585469 271.4640712 443.5020046 370.1701824 1.106049871 1.518214183 1.364345593 1.156465197 0.926273352 0.843299777 0.749813356 0.733349373 1.198102996 1 8.532044879 -5.449910846 2.269079259 1.122381883 0.763009092 0.593263078 0.156795631 0.235568367 2.369929756 0.027952227 0.071983466 3.55E-06 5.449910846 -0.359372791 S(ph)EVLAEESIVCLQK ddPTM_HeLa_SAHA_4h_R1 3 SEVLAEESIVCLQK 14 0 O43663-3;O43663-2;O43663-4;O43663;H0YLA0;H0YM42 O43663-3 PRC1 Protein regulator of cytokinesis 1 1 0 S(1)EVLAEESIVCLQK;S(1)EVLAEESIVCLQK;S(1)EVLAEESIVCLQK ;; 244.23 3.87E-33 13687300 2554.02 3698.95 2875.03 3383.63 4302.03 4204.24 4115.79 3871.72 5131.39 4503.64 TRUE FALSE FALSE 2822.663542 3818.798407 3266.824116 3449.125051 3972.409391 3846.0151 3652.670477 3772.687009 5095.680239 4697.813961 0.600846173 0.812888386 0.695392398 0.73419788 0.845586782 0.818681866 0.77752557 0.803072885 1.084691791 1 12.19777387 -9.569329882 1.358539752 0.999497091 0.743478038 0.669839892 0.076251082 0.25054391 0.831469539 0.058210444 0.013770905 2.70E-10 9.569329882 -0.256019052 S(ph)EVNLPFS(ph)RRPTINWS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SEVNLPFSRRPTINWSR 17 2 A0A590UJH0 A0A590UJH0 3 0 S(1)EVNLPFS(0.998)RRPT(0.003)INWS(1)R 66.264 0.0059711 0 1457.9 1371.2 1248.3 1192.9 1145.9 1430.2 1314 1298.5 1024.7 1243.1 TRUE FALSE FALSE 1611.248611 1415.62778 1418.411823 1215.990304 1058.10139 1308.338914 1166.145262 1265.28625 1017.569029 1296.696125 1.242579954 1.091718987 1.093866016 0.937760422 0.815997958 1.008978811 0.899320388 0.975776997 0.784739778 1 10.34062471 -6.275754254 4.143747458 1.114910191 0.922887051 0.043988619 0.127000082 0.148871039 6.157521731 0.015343868 0.0247032 5.30E-07 6.275754254 -0.192023141 S(ph)FADIGK ddPTM_HeLa_SAHA_4h_R1 1 SFADIGK 7 0 Q9Y6M7-7;Q9Y6M7-2;C9JRP1;Q9Y6M7;Q9Y6M7-13;Q9Y6M7-9;Q9Y6M7-11;Q9Y6M7-6;Q9Y6M7-14;Q6U841-2;Q6U841-3;Q9Y6M7-3;Q6U841;F8WDX9;Q9Y6M7-4;Q6U841-4;E7EW28;C9J240 Q9Y6M7-7 SLC4A7;SLC4A10 Sodium bicarbonate cotransporter 3;Anion exchange protein;Sodium-driven chloride bicarbonate exchanger 1 0 S(1)FADIGK 102.62 0.012073 7138700 1659.9 3684.5 2420.8 2250.1 2967.6 2206.7 3365.5 2294.6 1946.7 2303.1 TRUE FALSE FALSE 1834.495898 3803.880217 2750.694017 2293.653939 2740.223129 2018.676745 2986.805082 2235.907455 1933.152756 2402.397912 0.763610345 1.5833681 1.144978525 0.954735237 1.140620009 0.840275766 1.243259939 0.930698218 0.804676339 1 11.23025941 S(ph)FAGNLNTYK ddPTM_HeLa_SAHA_4h_R1 1 SFAGNLNTYK 10 0 Q01813;Q01813-2;B1APP6 Q01813 PFKP "ATP-dependent 6-phosphofructokinase, platelet type" 1 0 S(1)FAGNLNTYK 153.74 0.00044714 22237000 1037.3 1188.1 1054.9 1242 1418.3 1053.4 1296.1 694.76 777.91 911.11 TRUE FALSE FALSE 1146.407973 1226.59522 1198.656278 1266.040706 1309.63016 963.6443937 1150.259417 676.9890452 772.496461 950.392411 1.206246978 1.290619754 1.261222485 1.332124175 1.377988866 1.013943696 1.210299455 0.712325811 0.812818423 1 9.892379506 -4.257196307 24.41766705 1.157449 0.712325566 0.40096373 0.166427539 229.5590537 1320974.915 0.020999647 0.217342486 5.53E-05 4.257196307 -0.445123435 S(ph)FDASDTLALPR ddPTM_HeLa_SAHA_4h_R1 2 SFDASDTLALPR 12 0 Q5JXC2 Q5JXC2 MIIP Migration and invasion-inhibitory protein 1 0 S(0.991)FDAS(0.004)DT(0.005)LALPR;S(0.999)FDAS(0.001)DTLALPR ; 118.76 0.0015963 3202400 823.7 1046.4 1119.61 805.57 1151.63 1211.26 885.13 885.39 1281.87 799.62 TRUE FALSE FALSE 910.3405453 1080.304047 1272.18462 821.1629722 1063.392358 1108.053834 785.5328429 862.7430058 1272.949362 834.0955314 1.091410409 1.295180235 1.525226514 0.98449511 1.274904754 1.32844955 0.941778026 1.034345556 1.526143366 1 9.704068819 -7.541364721 3.322238457 1.036429143 1.200182213 0 0.228092444 0.319401486 7.380567668 0.03111873 0.033531496 2.87E-08 7.541364721 0.16375307 S(ph)FDDPIVQTER ddPTM_HeLa_SAHA_4h_R1 1 SFDDPIVQTER 11 0 O95757;E9PDE8;D6RJ96 O95757 HSPA4L Heat shock 70 kDa protein 4L 1 0 S(1)FDDPIVQTER 117.7 0.00052214 0 729.28 1057.2 671.47 1009 1085 1119.2 1263.6 974.83 1415.3 740.39 TRUE FALSE FALSE 805.9890165 1091.453974 762.9744347 1028.530654 1001.867534 1023.837864 1121.416402 949.8952601 1405.450812 772.3118363 1.043605677 1.413229634 0.987909804 1.331755653 1.297231879 1.325679364 1.452025399 1.229937462 1.819797064 1 9.593039672 -6.882615883 0.57064004 0.997165423 1.356386217 0 0.286639187 0.396489665 0.277678939 0.033547013 0.054022481 1.31E-07 6.882615883 0.359220794 S(ph)FDHLISDTK ddPTM_HeLa_SAHA_4h_R1 2 SFDHLISDTK 10 0 H0Y465;P21359-2;P21359-6;P21359;J3QSG6 H0Y465 NF1 Neurofibromin;Neurofibromin truncated 1 0 S(1)FDHLISDTK;S(1)FDHLISDTK ; 93.623 0.012045 8377300 10909.4 13505.5 9765.7 13375.5 15283.9 7362.3 13927.3 15638.1 10759.7 14044.8 TRUE FALSE FALSE 12056.90075 13943.08706 11096.51874 13634.40214 14112.85088 6734.990621 12360.16355 15238.10005 10684.82237 14650.34006 0.822977535 0.951724465 0.75742397 0.930654312 0.963312171 0.459715651 0.843677587 1.040119204 0.729322482 1 13.83864653 -10.17460647 0.377546151 1.130949911 0.827307235 0 0.173806141 7.670555531 0.850749136 1.032815512 0.050898027 6.69E-11 10.17460647 -0.303642676 S(ph)FDYNYR ddPTM_HeLa_SAHA_4h_R1 3 SFDYNYR 7 0 O75494-2;O75494;Q5JRI1;O75494-5;O75494-4;O75494-6;O75494-3 O75494-2 SRSF10 Serine/arginine-rich splicing factor 10 1 0 S(0.895)FDY(0.083)NY(0.022)R;S(0.992)FDY(0.007)NY(0.001)R;S(0.967)FDY(0.011)NY(0.022)R ;; 125.71 0.0024276 417590000 7866.2 11579.3 7743.6 9785.7 10738.7 4793.59 10141.1 8977.4 14437 9980.7 TRUE FALSE FALSE 8693.603007 11954.47692 8798.857481 9975.116374 9915.903126 4385.149164 8999.996738 8747.771107 14336.53174 10411.01682 0.835038801 1.148252579 0.845148714 0.958130848 0.952443291 0.421202774 0.864468562 0.840241761 1.377053941 1 13.34582336 S(ph)FEERVETTVTSLK ddPTM_HeLa_SAHA_4h_R1 1 SFEERVETTVTSLK 14 1 E9PNK6;E9PPQ1;J3KNE7;Q16890-5;Q16890 E9PNK6 TPD52L1 Tumor protein D53 1 0 S(0.996)FEERVET(0.001)T(0.003)VTSLK 108.96 0.0014731 7148700 882.2 1120.4 1250 1420.6 1386.7 1149.4 1733.9 2295.5 2261.3 1533.6 TRUE FALSE FALSE 974.9938437 1156.701695 1420.34349 1448.097767 1280.451346 1051.464654 1538.797009 2236.784434 2245.563429 1599.721001 0.609477429 0.723064643 0.887869503 0.905218951 0.800421664 0.657280021 0.961915864 1.398234087 1.403721916 1 10.6436046 -4.320471859 3.169780818 0.807208357 1.448985882 0.302125649 0.219194319 0.16363271 2.609523349 0.021615323 0.237623502 4.78E-05 4.320471859 0.641777524 S(ph)FELPPYTPPPILS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 2 SFELPPYTPPPILSPVR 17 0 A0A0A0MSU2;A0A1C7CYX1;Q6PJG2 A0A0A0MSU2 ELMSAN1 ELM2 and SANT domain-containing protein 1 2 0 S(0.676)FELPPY(0.096)T(0.227)PPPILS(1)PVR;S(0.961)FELPPY(0.009)T(0.03)PPPILS(1)PVR ; 154.46 0.00037273 141137000 2163.07 4518.4 2833.71 2935.58 5354.8 8060.5 7524.7 6126.6 2614.05 3246.19 TRUE FALSE FALSE 2390.591627 4664.799125 3219.873241 2992.402396 4944.516381 7373.700053 6678.000952 5969.890443 2595.858613 3386.149137 0.70599124 1.377611834 0.950895283 0.883718429 1.460218136 2.177606406 1.972152047 1.763032342 0.766610834 1 11.7254298 -5.553948533 3.154163174 0.909736718 1.966434304 0.843165073 0.197625612 0.070261779 1.434896056 0.03115885 0.06945032 2.79E-06 5.553948533 1.056697586 S(ph)FEVEEVETPNST(ph)PPRR ddPTM_HeLa_SAHA_4h_R1 1 SFEVEEVETPNSTPPRR 17 1 Q9UHD8;Q9UHD8-5;Q9UHD8-2;Q9UHD8-7;K7ENL0;K7EJV0;K7EPY1 Q9UHD8 9-Sep Septin-9 2 0 S(0.99)FEVEEVET(0.013)PNS(0.196)T(0.802)PPRR 77.681 0.0089599 2835500 674.48 568.19 509.96 584.24 768.88 826.23 638.5 620.67 592.78 457.28 TRUE FALSE FALSE 745.424901 586.5997288 579.454693 595.54881 709.9685805 755.8305558 566.6542996 604.7941601 588.6547957 476.9955787 1.562750127 1.229780222 1.214800973 1.248541573 1.488417529 1.584565119 1.187965518 1.267924038 1.234088579 1 8.897832084 -9.548143691 1.308444952 0.999546466 1.370895614 0.199445201 0.157087737 0.336691968 1.03058859 0.110742221 0.026106112 2.83E-10 9.548143691 0.371349148 S(ph)FEVEEVETPNSTPPR ddPTM_HeLa_SAHA_4h_R1 5 SFEVEEVETPNSTPPR 16 0 Q9UHD8;Q9UHD8-5;Q9UHD8-2;Q9UHD8-7;K7ENL0;K7EJV0;K7EPY1 Q9UHD8 9-Sep Septin-9 1 0 S(1)FEVEEVETPNSTPPR;S(1)FEVEEVETPNSTPPR;S(1)FEVEEVETPNSTPPR;S(0.999)FEVEEVET(0.001)PNSTPPR;S(1)FEVEEVETPNSTPPR ;;;; 306.37 8.94E-102 102343300 1611.17 1681.48 1926.56 1278.1 1599.83 1703.87 1697.57 2105.6 2100.72 1745.33 TRUE FALSE FALSE 1780.640253 1735.961055 2189.101564 1302.839474 1477.251371 1558.69069 1506.554956 2051.741801 2086.100918 1820.579718 0.978062227 0.953521034 1.202420055 0.715617922 0.81141812 0.85615075 0.827513863 1.12697169 1.145844314 1 10.8301822 -6.246643099 24.99961273 1.00060147 0.861561113 0.314083715 0.126489605 848.3025201 1433281.206 0.016761194 0.027723236 5.67E-07 6.246643099 -0.139040357 S(ph)FGNPFEPQAR ddPTM_HeLa_SAHA_4h_R1 1 SFGNPFEPQAR 11 0 J3KPJ3;Q8N5S9;Q8N5S9-2 J3KPJ3 CAMKK1 Calcium/calmodulin-dependent protein kinase kinase 1 1 0 S(1)FGNPFEPQAR 102.9 0.006218 4602200 810.02 908.94 526.98 1004.4 850.65 860.78 828.46 776.91 862.85 697.6 TRUE FALSE FALSE 895.2216201 938.3902524 598.79409 1023.841614 785.4733808 787.4367014 735.2395004 757.0377672 856.8453566 727.67695 1.230245949 1.289569846 0.822884509 1.4070002 1.079425947 1.082124013 1.010392731 1.040348698 1.177507899 1 9.507154302 -5.053256976 2.696149121 1.124045081 1.027043447 0.080466704 0.151720555 0.671808398 9.550285749 0.022085038 0.0725403 8.85E-06 5.053256976 -0.097001634 S(ph)FLNYYADLETSAR ddPTM_HeLa_SAHA_4h_R1 2 SFLNYYADLETSAR 14 0 H0YAJ5;G5E9Y1;Q92870-2;Q92870;Q92870-4 H0YAJ5 APBB2 Amyloid beta A4 precursor protein-binding family B member 2 1 0 S(0.999)FLNYY(0.001)ADLETSAR;S(0.944)FLNY(0.001)Y(0.055)ADLETSAR ; 149.31 8.35E-05 14644900 775.35 881.11 868.02 704.77 1083.59 923.15 1181.68 1015.88 947.66 951.72 TRUE FALSE FALSE 856.9048704 909.6585421 986.3092451 718.4118425 1000.565568 844.4924265 1048.714256 989.8952606 941.0651569 992.7533068 0.863159926 0.916298678 0.993508899 0.723655955 1.007869288 0.850656876 1.056369442 0.997121091 0.947934548 1 9.955291451 -4.746550865 24.9654826 0.922396079 1.026745299 0.22492677 0.08305585 292.984842 491276.6317 0.011612628 0.043088282 1.79E-05 4.746550865 0.10434922 S(ph)FNDFR ddPTM_HeLa_SAHA_4h_R1 1 SFNDFR 6 0 P42356 P42356 PI4KA Phosphatidylinositol 4-kinase alpha 1 0 S(1)FNDFR 91.265 0.023603 8169500 4642.7 5593 4431.4 4163.9 6501.9 5482.2 6553.3 5066.4 5277.4 5652.3 TRUE FALSE FALSE 5131.040487 5774.21687 5035.288114 4244.498306 6003.725827 5015.085718 5815.905437 4936.808824 5240.674144 5895.998315 0.870258133 0.979345068 0.854017903 0.719894762 1.018271293 0.850591444 0.986415722 0.837315169 0.888852721 1 12.5255204 -9.374898407 0.78745079 1.010322131 0.889564583 0 0.089647772 1.045483839 0.994125794 0.083389095 0.0154598 4.22E-10 9.374898407 -0.120757548 S(ph)FQDYTGQK ddPTM_HeLa_SAHA_4h_R1 1 SFQDYTGQK 9 0 A0A087WXU5;A0A087WYV3;A0A0D9SEW3;A0A087WXF8;Q9NP64-2;Q9NP64-3;Q9NP64 A0A087WXU5 ZCCHC17 Nucleolar protein of 40 kDa 1 0 S(1)FQDYTGQK 110.64 0.0060846 7017300 1247.8 1046.6 887.5 1105.1 1339.6 1382 1379.4 1488.7 1494.9 1168.2 TRUE FALSE FALSE 1379.049329 1080.510527 1008.443878 1126.490809 1236.960137 1264.245825 1224.186282 1450.62121 1484.496869 1218.566819 1.131697751 0.886706014 0.827565516 0.924439096 1.015094222 1.037485844 1.004611534 1.190432225 1.218231816 1 10.25096965 -4.258322334 23.71299492 1.01915928 1.190432353 0.200123131 0.107911927 195.2062815 1484871.852 0.014813906 0.139362514 5.52E-05 4.258322334 0.171273073 S(ph)FQGDDSDLLLK ddPTM_HeLa_SAHA_4h_R1 2 SFQGDDSDLLLK 12 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 S(1)FQGDDSDLLLK;S(1)FQGDDSDLLLK ; 179.79 2.42E-05 17132600 1893.48 1764.21 1758.73 1817.35 2275.31 2335.7 2330.5 1931.19 1760.78 1771.98 TRUE FALSE FALSE 2092.644914 1821.371562 1998.400565 1852.527437 2100.976239 2136.68522 2068.266006 1881.792956 1748.526589 1848.37873 1.132151588 0.985388726 1.081164013 1.002244512 1.136658957 1.155978039 1.118962241 1.018077587 0.945978527 1 10.85204468 -5.742487196 24.97708742 1.055243182 1.111712196 0.20918258 0.063771225 361.2929592 476145.4042 0.009216257 0.01841027 1.81E-06 5.742487196 0.056469014 S(ph)FRDLRNMS(ph)PRLT(ph)S(ph)R ddPTM_HeLa_SAHA_4h_R1 2 SFRDLRNMSPRLTSR 15 3 I3L257;I3L2E1 I3L257 CLUAP1 4 0 S(1)FRDLRNMS(1)PRLT(1)S(1)R;S(1)FRDLRNMS(1)PRLT(1)S(1)R ; 84.159 0.0036584 362050000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 S(ph)FS(ph)FNPHPGY(ph)LTPSMK ddPTM_HeLa_SAHA_4h_R1 1 SFSFNPHPGYLTPSMK 16 0 Q9ULE4 Q9ULE4 FAM184B Protein FAM184B 3 0 S(1)FS(1)FNPHPGY(1)LTPSMK 69.431 0.021551 18020000 205.72 404.67 351.95 312.73 471.26 452.75 402.66 413.39 319.61 443.5 TRUE FALSE FALSE 227.3585735 417.7815735 399.9119131 318.7833414 435.1521606 414.1731529 357.3516371 402.8160824 317.385808 462.6214554 0.491457045 0.903074357 0.864447397 0.689080322 0.940622523 0.895274415 0.772449338 0.870725034 0.686059421 1 8.853688367 -5.759434682 24.99950019 0.770490727 0.864638394 0.108579498 0.136361626 146.8027447 1830647.299 0.028797677 0.055366359 1.74E-06 5.759434682 0.094147667 S(ph)FSEDTLMDGPAR ddPTM_HeLa_SAHA_4h_R1 1 SFSEDTLMDGPAR 13 0 Q9BRG2;M0QZQ6 Q9BRG2 SH2D3A SH2 domain-containing protein 3A 1 0 S(0.911)FS(0.012)EDT(0.077)LMDGPAR 214.61 4.94E-16 7900900 943.39 1243.5 825.34 822.43 1204.8 1222.8 1093.3 852.45 896.91 944.02 TRUE FALSE FALSE 1042.620089 1283.790216 937.813037 838.3493219 1112.488484 1118.610561 970.2790066 830.6455633 890.6683303 984.7213221 1.058797109 1.303709168 0.952363898 0.85135693 1.129749564 1.135966629 0.985333601 0.843533642 0.904487707 1 9.943571687 S(ph)FSEDVISHK ddPTM_HeLa_SAHA_4h_R1 1 SFSEDVISHK 10 0 Q03001;F8W9J4;Q03001-14;F6QMI7;E9PHM6;Q03001-8;A0A494C1D7;H0YC82;Q03001-10 Q03001 DST Dystonin 1 0 S(0.989)FS(0.011)EDVIS(0.001)HK 92.247 0.016454 10529000 1604.1 2217.5 1398.8 1955.9 2109.3 2141.4 2030.6 1815.3 2457.1 1694.2 TRUE FALSE FALSE 1772.826598 2289.348455 1589.421179 1993.759273 1947.68589 1958.940673 1802.111544 1768.867255 2440.000841 1767.245253 1.003158217 1.295433359 0.899377818 1.128173506 1.10210277 1.108471317 1.019729175 1.000917813 1.380680376 1 10.78728655 -7.457892855 24.999957 1.001391195 1.079252209 0 0.153752975 292.6063251 112565.4496 0.015134429 0.017305893 3.48E-08 7.457892855 0.077861015 S(ph)FSGNPR ddPTM_HeLa_SAHA_4h_R1 1 SFSGNPR 7 0 Q9NQS3-3 Q9NQS3-3 PVRL3 Nectin-3 1 0 S(0.636)FS(0.364)GNPR 90.601 0.019628 192340000 2673 2934.2 2652.6 3033.3 3483.5 3548.3 3313.4 2722.9 2849.5 2813.5 TRUE FALSE FALSE 2954.158404 3029.270005 3014.082514 3092.013908 3216.594983 3245.964878 2940.567512 2653.252161 2829.670097 2934.803754 1.00659487 1.032188269 1.027013309 1.053567518 1.09601706 1.106024508 1.001963933 0.904064593 0.964176938 1 11.51904832 -7.22929057 1.974249624 1.002421489 1.037530598 0.091624546 0.053879807 0.687973987 5.085175151 0.009947588 0.011938471 5.90E-08 7.22929057 0.035109109 S(ph)FSLDPLMER ddPTM_HeLa_SAHA_4h_R1 1 SFSLDPLMER 10 0 Q63HR2-6;Q63HR2;Q63HR2-4;F8VV64;Q63HR2-2 Q63HR2-6 TNS2 Tensin-2 1 0 S(0.983)FS(0.017)LDPLMER 152.67 0.00050241 2797200 1792.6 2356.6 2211.3 1740.4 2298 2741.2 3001.8 2098.3 1948.8 1936.2 TRUE FALSE FALSE 1981.153893 2432.955386 2512.644448 1774.087959 2121.927736 2507.634338 2664.029564 2044.628524 1935.238142 2019.679058 0.980925106 1.204624753 1.244081053 0.878400928 1.050626201 1.241600406 1.319036088 1.012353184 0.958190924 1 10.97991034 -6.649268603 0.439758942 0.980376798 1.182207822 0.165510338 0.129844295 1.337841054 0.566543039 0.051718084 0.10639664 2.24E-07 6.649268603 0.201831024 S(ph)FSPLQPGQAPTGR ddPTM_HeLa_SAHA_4h_R1 1 SFSPLQPGQAPTGR 14 0 Q7Z3C6;H7C152;Q7Z3C6-2;H7C1G6 Q7Z3C6 ATG9A Autophagy-related protein 9A 1 0 S(0.5)FS(0.5)PLQPGQAPTGR 135.61 0.00034018 20161000 821.22 1074.9 1079.2 1029.9 1020.8 1004.9 983.25 1379.4 944.81 877.5 TRUE FALSE FALSE 907.5996875 1109.727465 1226.267756 1049.835204 942.5865245 919.2768666 872.6121222 1344.116945 938.2349903 915.3333194 0.991551021 1.212375254 1.339695311 1.146943066 1.029774077 1.004308318 0.953327169 1.468445338 1.025020034 1 9.838153387 -7.275795609 23.00673704 0.996010187 1.151486672 0.193409486 0.14704875 332.8675519 533439.3098 0.024857774 0.028511747 5.30E-08 7.275795609 0.155476485 S(ph)FTGGLGQLVVPSK ddPTM_HeLa_SAHA_4h_R1 1 SFTGGLGQLVVPSK 14 0 Q9Y3Q8 Q9Y3Q8 TSC22D4 TSC22 domain family protein 4 1 0 S(0.683)FT(0.314)GGLGQLVVPS(0.003)K 149.31 8.35E-05 22354000 1519.6 1861.3 1808.6 958.48 1621 1769.5 1553.3 1320.4 1255.9 1779.4 TRUE FALSE FALSE 1679.4385 1921.607341 2055.066589 977.0327664 1496.79933 1618.728645 1378.518596 1286.62608 1247.16009 1856.118642 0.904812043 1.035282604 1.10718493 0.526384868 0.806413608 0.872104082 0.742688837 0.693180948 0.671918304 1 10.85807321 -6.273916249 24.99990267 0.971575043 0.741306856 0.373265258 0.136881139 431.9237647 865444.5272 0.015623543 0.023966887 5.32E-07 6.273916249 -0.230268187 S(ph)FTLDDESLK ddPTM_HeLa_SAHA_4h_R1 2 SFTLDDESLK 10 0 Q86WR7-2;Q86WR7;X6RHS9 Q86WR7-2 PROSER2 Proline and serine-rich protein 2 1 0 S(0.897)FT(0.103)LDDESLK;S(0.999)FT(0.001)LDDESLK ; 182.92 1.05E-05 17464800 2794.1 3055.9 2327.61 3046 3808 3197.6 3266 3426.5 3443.6 2977.6 TRUE FALSE FALSE 3087.996258 3154.913165 2644.804569 3104.959735 3516.231863 2925.146491 2898.501084 3338.855092 3419.635707 3105.978908 0.994210312 1.015754858 0.851520454 0.999671867 1.132084913 0.941779251 0.933200505 1.074976743 1.100984845 1 11.60083232 -3.314720477 14.54421051 0.994012053 0.998501487 0 0.080208115 0 0 0.008955222 0 0.000484484 3.314720477 0.004489434 S(ph)FTPDHVVYAR ddPTM_HeLa_SAHA_4h_R1 3 SFTPDHVVYAR 11 0 Q6NZI2-3;Q6NZI2-2;Q6NZI2 Q6NZI2-3 PTRF Polymerase I and transcript release factor 1 0 S(0.659)FT(0.341)PDHVVYAR;S(0.984)FT(0.016)PDHVVYAR;S(1)FTPDHVVYAR ;; 164.11 0.00012998 48833000 10955.08 10857.76 8438.06 11675.58 13134.94 13470.62 13342.91 13155.78 12655.25 10553.45 TRUE FALSE FALSE 12107.38558 11209.55855 9587.954873 11901.57773 12128.54373 12322.84739 11841.53065 12819.2742 12567.18108 11008.46088 1.099825463 1.018267556 0.870962343 1.081130039 1.101747453 1.119397846 1.075675408 1.16449287 1.141592928 1 13.42632516 -6.009649544 24.4762589 1.031193654 1.110118242 0.268873196 0.069290415 406.0401111 1029935.03 0.010143863 0.017646864 9.78E-07 6.009649544 0.078924588 S(ph)FVDAEVDVTR ddPTM_HeLa_SAHA_4h_R1 4 SFVDAEVDVTR 11 0 A0A2R8YHB3;A0A1B0GUB2;A0A3B3IRP5;Q6P1J9 A0A2R8YHB3 CDC73 Parafibromin 1 0 S(1)FVDAEVDVTR;S(1)FVDAEVDVTR;S(1)FVDAEVDVTR;S(1)FVDAEVDVTR ;;; 182.25 1.50E-05 17375800 1789.79 2024.73 1515.56 1934.25 2058.31 2120.2 2171.3 2078.6 2267.38 2136.07 TRUE FALSE FALSE 1978.048324 2090.33258 1722.092624 1971.690206 1900.602732 1939.547032 1926.979609 2025.432422 2251.601118 2228.166431 0.887747116 0.938140235 0.772874324 0.884893596 0.852989573 0.870467755 0.864827502 0.909013076 1.010517476 1 11.12164128 -8.854812539 0.536452201 1.011684656 0.864774548 0.637067697 0.040233368 0.54173404 0.271461479 0.038922919 0.010248082 1.40E-09 8.854812539 -0.146910108 S(ph)GASEANLIVAK ddPTM_HeLa_SAHA_4h_R1 1 SGASEANLIVAK 12 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 S(0.989)GAS(0.011)EANLIVAK 119.62 0.001555 7132000 1346.4 1047.7 771.83 1198.8 1375.7 1375.3 969.22 1396.6 1456.4 1169.9 TRUE FALSE FALSE 1488.02053 1081.646167 877.0109729 1222.004507 1270.294163 1258.116703 860.1608148 1360.876994 1446.264794 1220.340114 1.219349026 0.886348121 0.718661103 1.001363876 1.04093453 1.030955787 0.704853348 1.115162059 1.185132552 1 10.25306757 -7.244674698 24.39418992 1.103581487 0.922754035 0.31246862 0.13788273 615.705077 895909.007 0.024063129 0.029425082 5.69E-08 7.244674698 -0.180827452 S(ph)GCSDLEEAVDSGADKK ddPTM_HeLa_SAHA_4h_R1 1 SGCSDLEEAVDSGADKK 17 1 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 1 0 S(0.619)GCS(0.381)DLEEAVDSGADKK 103.73 0.0011838 9308600 2712.5 3305.2 2869.3 2742.7 3568.6 3799.9 3564.9 3275.3 3076 3020.1 TRUE FALSE FALSE 2997.813195 3412.290649 3260.313261 2795.788925 3295.174639 3476.127142 3163.76807 3191.522569 3054.593866 3150.311291 0.95159269 1.083159832 1.03491781 0.887464338 1.04598382 1.103423383 1.004271571 1.013081652 0.969616518 1 11.62127868 S(ph)GDEEFKGEDELCDSGR ddPTM_HeLa_SAHA_4h_R1 2 SGDEEFKGEDELCDSGR 17 1 M0QYL4;O43823 M0QYL4 AKAP8 A-kinase anchor protein 8 1 0 S(1)GDEEFKGEDELCDSGR;S(0.999)GDEEFKGEDELCDS(0.001)GR ; 66.738 0.013377 42634000 1807.93 2947.8 1971.84 2557.3 2202.66 2883.8 2462.28 2213.08 4665.2 2691.2 TRUE FALSE FALSE 1998.096372 3043.310654 2240.552086 2606.800239 2033.892667 2638.084016 2185.217774 2156.472618 4632.734493 2807.230802 0.711767757 1.084097058 0.798136044 0.928602036 0.724519218 0.939746035 0.778424692 0.768185009 1.650286285 1 11.45493197 -9.639682025 1.462660716 1.000109396 0.827960537 0.213488156 0.235183598 0.463391629 1.780019767 0.077343831 0.017503475 2.29E-10 9.639682025 -0.172148859 S(ph)GDEMIFDPTMSK ddPTM_HeLa_SAHA_4h_R1 2 SGDEMIFDPTMSK 13 0 P20042 P20042 EIF2S2 Eukaryotic translation initiation factor 2 subunit 2 1 0 S(1)GDEMIFDPTMSK;S(1)GDEMIFDPTMSK ; 157.09 7.52E-05 10799100 2491.7 2336.4 2101.55 2184.21 2800.1 3152.9 2555.7 2646.2 2837.9 2279.8 TRUE FALSE FALSE 2753.788438 2412.100893 2387.93829 2226.488543 2585.556943 2884.255182 2268.12591 2578.514036 2818.150823 2378.093335 1.157981648 1.014300346 1.004139852 0.936249436 1.087239472 1.212843558 0.953758154 1.084277895 1.185046348 1 11.21558962 S(ph)GDETPGSEVPGDK ddPTM_HeLa_SAHA_4h_R1 2 SGDETPGSEVPGDK 14 0 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 1 0 S(0.999)GDET(0.001)PGSEVPGDK;S(0.995)GDET(0.005)PGSEVPGDK ; 186.69 2.17E-08 18001000 2881.1 4317.4 2574.2 2878.7 3410.5 4514.3 3263.5 3140.2 6510.1 4033.4 TRUE FALSE FALSE 3184.147317 4457.286593 2924.99857 2934.421401 3149.188227 4129.656243 2896.282391 3059.878231 6464.795684 4207.299613 0.756814967 1.059417442 0.695219937 0.697459575 0.748505815 0.981545557 0.688394613 0.727278424 1.53656651 1 12.03867884 -13.52287873 0.245561113 2.305435496 0.765865559 0.347344769 0.205510067 42.87411565 0.563872873 27.0951432 0.073551573 3.00E-14 13.52287873 -1.539569937 S(ph)GECSPVPMGSFPR ddPTM_HeLa_SAHA_4h_R1 1 SGECSPVPMGSFPR 14 0 P25054-2;P25054-3;P25054;A0A2Q2SV78;E9PFT7;E7EMH9 P25054-2 APC Adenomatous polyposis coli protein 1 0 S(0.991)GECS(0.008)PVPMGS(0.001)FPR 108.66 0.0025251 8254900 899.54 647.3 754.37 681.83 792.76 826.57 894.63 726.47 826.3 562.38 TRUE FALSE FALSE 994.1577444 668.2729447 857.171615 695.0278056 732.0189001 756.1415858 793.9638779 707.8879493 820.549711 586.626954 1.694701782 1.139178724 1.461186891 1.184786687 1.247843958 1.288964956 1.353439136 1.206708871 1.398758965 1 9.196299551 -6.219265702 24.9486416 1.32829351 1.263082207 0.048376279 0.178548805 2505.933415 1482433.778 0.039670818 0.065786272 6.04E-07 6.219265702 -0.065211304 S(ph)GEGEVSGLMR ddPTM_HeLa_SAHA_4h_R1 1 SGEGEVSGLMR 11 0 Q13263;Q13263-2;M0R0K9 Q13263 TRIM28 Transcription intermediary factor 1-beta 1 0 S(1)GEGEVSGLMR 150.51 0.00050502 38839000 1367.1 1628.2 1834 1675.5 2247.5 2217.5 2305.1 2180.8 1968.2 2077.8 TRUE FALSE FALSE 1510.89785 1680.954748 2083.927969 1707.931725 2075.297036 2028.556525 2045.724081 2125.018294 1954.503136 2167.384127 0.697106633 0.77556845 0.961494524 0.788015241 0.957512335 0.935946932 0.943867797 0.980453011 0.901779759 1 11.08173915 -5.738316193 24.57630498 0.851254521 0.952368276 0.252579499 0.084544176 308.1208414 327481.5959 0.017504099 0.034989145 1.83E-06 5.738316193 0.101113755 S(ph)GEQITSSPVSPK ddPTM_HeLa_SAHA_4h_R1 4 SGEQITSSPVSPK 13 0 A0A087WWN8;A0A087WZV0;O43314-2;O43314 A0A087WWN8 PPIP5K2 Inositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 1 0 S(0.676)GEQIT(0.292)S(0.028)S(0.004)PVSPK;S(1)GEQITSSPVSPK;S(0.997)GEQIT(0.003)SSPVSPK;S(1)GEQITSSPVSPK ;;; 193.32 1.19E-07 46551100 10213.6 10385.6 9272 9517.9 11394.2 12337.4 11607.4 10122.4 10443.6 10177.4 TRUE FALSE FALSE 11287.91331 10722.10025 10535.53987 9702.132718 10521.17886 11286.18411 10301.3048 9863.483665 10370.92214 10616.19752 1.063272729 1.009975581 0.992402398 0.91389904 0.991049652 1.063109846 0.970338465 0.929097603 0.976896117 1 13.3739795 -6.817491024 3.312890727 1.029997103 0.977550094 0.106741028 0.043587017 0.275204699 6.16844589 0.007337407 0.010026799 1.52E-07 6.817491024 -0.052447009 S(ph)GGDGGDEVEGSGVGAGEGETVQHFPLAR ddPTM_HeLa_SAHA_4h_R1 1 SGGDGGDEVEGSGVGAGEGETVQHFPLAR 29 0 Q96DT7-3;Q96DT7-2;Q96DT7 Q96DT7-3 ZBTB10 Zinc finger and BTB domain-containing protein 10 1 0 S(1)GGDGGDEVEGSGVGAGEGETVQHFPLAR 96.219 2.51E-06 0 0 132.79 0 69.156 74.155 139.36 0 154.2 144.49 139.6 TRUE FALSE FALSE 0 137.0924831 0 70.49461438 68.47325992 127.485744 0 150.2557873 143.4844823 145.6188392 0 0.941447438 0 0.484103669 0.470222536 0.875475623 0 1.031843051 0.985342852 1 7.186053204 -9.635938189 1.470152341 0.9989863 0.402092977 0.214077781 0.375413658 0.43739601 1.703470793 0.252932285 0.057928683 2.31E-10 9.635938189 -0.596893323 S(ph)GGGAGSNGSVLDPAER ddPTM_HeLa_SAHA_4h_R1 2 SGGGAGSNGSVLDPAER 17 0 Q15149-3;Q15149-2;H0YDN1;E9PMV1 Q15149-3 PLEC Plectin 1 0 S(1)GGGAGSNGSVLDPAER;S(0.97)GGGAGS(0.001)NGS(0.029)VLDPAER ; 178.52 3.51E-09 38613000 920.17 702.52 584.55 803.62 840.89 964.42 922 957.13 826.9 793.52 TRUE FALSE FALSE 1016.957702 725.2821089 664.2094298 819.1752272 776.4611899 882.2459903 818.2541334 932.6480005 821.1455356 827.7325306 1.228606663 0.876227624 0.802444516 0.989661753 0.938058082 1.065858786 0.988548961 1.126750449 0.992042121 1 9.693020847 -7.254000195 24.99552559 1.107953147 0.967200872 0.145466386 0.105861377 635.7422923 2136084.206 0.020135095 0.024398486 5.57E-08 7.254000195 -0.140752275 S(ph)GGGDLTLGLEPSEEEAPR ddPTM_HeLa_SAHA_4h_R1 2 SGGGDLTLGLEPSEEEAPR 19 0 B4DTR1;P04626-3;P04626-2;P04626-5;P04626-4;P04626 B4DTR1 ERBB2 Receptor protein-tyrosine kinase;Receptor tyrosine-protein kinase erbB-2 1 0 S(0.998)GGGDLT(0.002)LGLEPSEEEAPR;S(0.997)GGGDLT(0.002)LGLEPS(0.001)EEEAPR ; 214.46 2.21E-25 8300100 380.21 908.25 579.99 442.76 500.28 390.93 575.33 366.99 621.52 521.22 TRUE FALSE FALSE 420.2022323 937.6778959 659.0280167 451.33026 461.9486545 357.6205647 510.5923542 357.6029272 617.1947917 543.692345 0.772867663 1.724647964 1.212134073 0.830120682 0.849650834 0.657762737 0.939119999 0.657730296 1.135191248 1 9.086646705 -6.02434769 23.17571563 0.988888421 0.786840247 0.221419537 0.268298035 561.4597594 534434.6036 0.044369166 0.07389456 9.45E-07 6.02434769 -0.202048174 S(ph)GGLQTPECLSR ddPTM_HeLa_SAHA_4h_R1 1 SGGLQTPECLSR 12 0 P85037;P85037-2 P85037 FOXK1 Forkhead box protein K1 1 0 S(0.727)GGLQT(0.265)PECLS(0.007)R 135.04 0.00085789 12493000 2176.1 2865.6 2577.8 2767.2 3113.4 3261.3 3107.5 2624.4 3091.5 2639.5 TRUE FALSE FALSE 2404.992182 2958.44732 2929.089159 2820.763157 2874.851965 2983.418892 2757.835922 2557.271648 3069.986 2753.301762 0.873493859 1.074508926 1.063846034 1.024501998 1.044147069 1.083578608 1.001646808 0.928801806 1.115019807 1 11.42694702 -7.251473044 24.99437666 0.940260989 1.033877472 0 0.074739252 593.9063173 1489447.01 0.010342278 0.012587468 5.60E-08 7.251473044 0.093616483 S(ph)GGNEVSIEER ddPTM_HeLa_SAHA_4h_R1 2 SGGNEVSIEER 11 0 Q15061 Q15061 WDR43 WD repeat-containing protein 43 1 0 S(0.999)GGNEVS(0.001)IEER;S(1)GGNEVSIEER ; 176.56 5.14E-05 23113000 1168.62 1182 1105.46 1151.85 1034 1148.02 1473.61 1062.17 1765.42 1435.9 TRUE FALSE FALSE 1291.540813 1220.297576 1256.106332 1174.145722 954.7751434 1050.202237 1307.795524 1035.001229 1753.134298 1497.808676 0.862286909 0.81472193 0.83862936 0.783909014 0.637447999 0.701159136 0.873139237 0.691010305 1.170466113 1 10.54863764 -7.777596219 0.407947427 1.007704238 0.725794967 0.676704603 0.084835888 0.429979669 0.191495221 0.046510347 0.033380853 1.67E-08 7.777596219 -0.281909271 S(ph)GGSGGCSGAGGASNCGTGSGR ddPTM_HeLa_SAHA_4h_R1 1 SGGSGGCSGAGGASNCGTGSGR 22 0 E9PL01;A0A087WUC6;E9PI68;Q15005 E9PL01 SPCS2 Signal peptidase complex subunit 2 1 0 S(0.48)GGS(0.48)GGCS(0.039)GAGGASNCGTGSGR 101.49 0.00017614 777230 0 190.77 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 196.9510732 0 0 0 0 0 0 0 0 0 S(ph)GMT(ph)AVPQHLGPSLQR ddPTM_HeLa_SAHA_4h_R1 1 SGMTAVPQHLGPSLQR 16 0 A0A0D9SF60;Q99569-2;Q99569 A0A0D9SF60 PKP4 Plakophilin-4 2 0 S(1)GMT(1)AVPQHLGPSLQR 88.706 0.010975 17542000 67.166 155.57 0 0 0 0 104.6 0 162.32 0 TRUE FALSE FALSE 74.23082805 160.6105701 0 0 0 0 92.83013271 0 161.1904019 0 0 S(ph)GNSDSIER ddPTM_HeLa_SAHA_4h_R1 2 SGNSDSIER 9 0 A0A5F9ZI51;A0A5F9ZGW5;C9J8U3;A0A0A0MRW7;Q7Z2E3-13;Q7Z2E3-4;Q7Z2E3-5;Q7Z2E3-9;Q7Z2E3-10;Q7Z2E3-11;Q7Z2E3-8;Q7Z2E3-7;Q7Z2E3 A0A5F9ZI51 APTX Aprataxin 1 0 S(0.98)GNS(0.02)DSIER;S(0.997)GNS(0.003)DSIER ; 125.36 0.0027909 62286000 2093.21 3132.7 1944.2 3018.5 3884.7 4963.6 3989.9 2839.7 3078.8 4874.6 TRUE FALSE FALSE 2313.383432 3234.201535 2209.145451 3076.927432 3587.055125 4540.673356 3540.945951 2767.064586 3057.37438 5084.767862 0.454963431 0.636056871 0.434463384 0.605126432 0.705451109 0.892995212 0.69638301 0.544187003 0.601281015 1 12.3119662 -9.468069126 1.203604609 1.0001536 0.611707244 0 0.17346567 0.306290843 0.793255796 0.098170184 0.02414406 3.40E-10 9.468069126 -0.388446355 S(ph)GNWESSEGWGAQPEGAGAQR ddPTM_HeLa_SAHA_4h_R1 1 SGNWESSEGWGAQPEGAGAQR 21 0 Q9Y5X1 Q9Y5X1 SNX9 Sorting nexin-9 1 0 S(0.994)GNWES(0.006)SEGWGAQPEGAGAQR 153.56 7.36E-16 0 62.316 0 121.9 139.23 0 197.65 121.25 0 0 0 TRUE FALSE FALSE 68.8706828 0 138.5118972 141.924998 0 180.8091081 107.6066309 0 0 0 0 S(ph)GPFVDQLK ddPTM_HeLa_SAHA_4h_R1 1 SGPFVDQLK 9 0 Q9BY89 Q9BY89 KIAA1671 Uncharacterized protein KIAA1671 1 0 S(1)GPFVDQLK 93.345 0.015305 4062800 1594.7 1263.4 1453 1535.8 1771.7 1646.1 1473.2 1488.5 1468.3 1186.5 TRUE FALSE FALSE 1762.437863 1304.334989 1651.007273 1565.52763 1635.952729 1505.843019 1307.431659 1450.426325 1458.081981 1237.655822 1.424012906 1.053875372 1.333979321 1.264913559 1.321815565 1.216689643 1.056377416 1.171914114 1.178099723 1 10.27339446 -1.001403363 13.70452867 1.205290384 0.14974507 0 0.130676086 0 0 0.022273059 0 0.099677385 1.001403363 -1.055545315 S(ph)GPGPPELDSEQPSR ddPTM_HeLa_SAHA_4h_R1 1 SGPGPPELDSEQPSR 15 0 J3KQR7;Q9Y4F5-3;Q9Y4F5-2;Q9Y4F5 J3KQR7 CEP170B Centrosomal protein of 170 kDa protein B 1 0 S(1)GPGPPELDSEQPSR 121.13 0.0007607 2860000 545.12 621.69 286.71 447.1 383.29 840.95 477.77 885.15 769.21 588.73 TRUE FALSE FALSE 602.4582227 641.8331639 325.7813457 455.754267 353.922403 769.2963289 424.0100622 862.5091447 763.857005 614.1130315 0.98102172 1.045138486 0.530490853 0.742134173 0.576314758 1.252695008 0.69044303 1.40447947 1.243837805 1 9.262360407 S(ph)GPLEESER ddPTM_HeLa_SAHA_4h_R1 1 SGPLEESER 9 0 Q9Y3X0;A0A2R8Y4Z8 Q9Y3X0 CCDC9 Coiled-coil domain-containing protein 9 1 0 S(1)GPLEESER 83.862 0.023604 7581600 457.06 580.62 502.87 492.69 438.81 597.01 687.81 633.87 633.77 487.17 TRUE FALSE FALSE 505.1356679 599.432469 571.3985048 502.2267274 405.1884726 546.1413893 610.4158086 617.6565232 629.359543 508.1742829 0.994020526 1.179580489 1.124414446 0.988296229 0.797341554 1.074712766 1.201193821 1.215442308 1.238471848 1 8.989179557 -4.853789979 4.119967461 1.006615224 1.209746958 0.170323082 0.119508418 0.156474203 4.853037587 0.013689545 0.046049438 1.40E-05 4.853789979 0.203131735 S(ph)GQIEGVR ddPTM_HeLa_SAHA_4h_R1 1 SGQIEGVR 8 0 Q8WWQ0 Q8WWQ0 PHIP PH-interacting protein 1 0 S(1)GQIEGVR 91.123 0.017126 7711900 390.39 511.68 253.82 438.51 556.94 493.37 492.71 375.57 496.56 445.1 TRUE FALSE FALSE 431.4530114 528.2587677 288.4092678 446.9979951 514.2673775 451.3321004 437.2689741 365.9634632 493.1043985 464.2904393 0.929273952 1.137776536 0.62118287 0.962755115 1.107641541 0.972090016 0.941800513 0.788220976 1.062060204 1 8.858883763 -13.52196576 0.009686832 2.043224147 5.18E-10 0.069480328 0.13997408 37091.558 29.05630562 3513.051314 2670.345251 3.01E-14 13.52196576 -2.043224146 S(ph)GRSPTGNTPPVIDSVSEK ddPTM_HeLa_SAHA_4h_R1 1 SGRSPTGNTPPVIDSVSEK 19 1 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 S(0.493)GRS(0.493)PT(0.013)GNTPPVIDSVSEK 105.51 0.0006492 33022000 1712.9 1182.9 1201.2 1366.2 1374.7 1725.4 1446.6 1678.6 1632.8 1367.6 TRUE FALSE FALSE 1893.070681 1221.226736 1364.89328 1392.644777 1269.370783 1578.386213 1283.824761 1635.663843 1621.437212 1426.563929 1.327014263 0.856061696 0.956769797 0.976223181 0.889809953 1.106425153 0.899941976 1.146575915 1.13660326 1 10.47832868 -7.250564596 24.9698967 1.154423405 0.974022815 0.34327274 0.113160879 724.5877139 1663747.09 0.023621532 0.028778976 5.62E-08 7.250564596 -0.18040059 S(ph)GSESEEAELSLSLAR ddPTM_HeLa_SAHA_4h_R1 1 SGSESEEAELSLSLAR 16 0 Q8IV50 Q8IV50 LYSMD2 LysM and putative peptidoglycan-binding domain-containing protein 2 1 0 S(0.85)GS(0.15)ESEEAELSLSLAR 273.99 3.35E-59 3794000 457.78 373.83 434.34 555.6 557.41 709.54 435.44 477.27 570.26 489.58 TRUE FALSE FALSE 505.9314008 385.9423373 493.5295933 566.3544414 514.7013662 649.0832002 386.4431452 465.0621245 566.2915142 510.6881897 0.990685532 0.755729905 0.966401031 1.109002426 1.007858369 1.270997084 0.756710558 0.910657685 1.108879206 1 8.996298885 -5.572234927 0.003363691 1.954377177 9.19E-05 0.014513282 0.148502572 300500.4285 268.2062062 76832.77812 78999.14437 2.68E-06 5.572234927 -1.954285313 S(ph)GSGGGSAKEPQEER ddPTM_HeLa_SAHA_4h_R1 2 SGSGGGSAKEPQEER 15 1 F5GWT4;Q9H4A3-2;Q9H4A3;Q9H4A3-5;Q9H4A3-6;Q9H4A3-7;F6UYG0 F5GWT4 WNK1 Serine/threonine-protein kinase WNK1 1 0 S(0.933)GS(0.067)GGGSAKEPQEER;S(0.666)GS(0.334)GGGSAKEPQEER ; 191.89 1.91E-08 49192000 1009.59 1420.67 1125.51 1019.94 1209.29 1491.78 1327.15 908.34 757.24 1197.98 TRUE FALSE FALSE 1115.783308 1466.70064 1278.888641 1039.682414 1116.634461 1364.671951 1177.815589 885.1059781 751.9703052 1249.630781 0.892890385 1.173707197 1.023413204 0.831991681 0.893571508 1.092060129 0.942530872 0.708293995 0.601753988 1 10.28728618 -6.275843622 24.59803713 0.973570346 0.907417053 0 0.163966761 1500.34224 2562123.214 0.018527227 0.028385916 5.30E-07 6.275843622 -0.066153293 S(ph)GSLDDSFSDFQELPASSK ddPTM_HeLa_SAHA_4h_R1 1 SGSLDDSFSDFQELPASSK 19 0 Q9UMZ2-6;Q9UMZ2-9;Q9UMZ2-4;Q9UMZ2-8;Q9UMZ2-3;Q9UMZ2-7;Q9UMZ2-5;Q9UMZ2 Q9UMZ2-6 SYNRG Synergin gamma 1 0 S(0.373)GS(0.306)LDDS(0.307)FS(0.014)DFQELPASSK 99.891 0.00061057 0 484.38 489.36 351.42 384.13 568.74 642.45 501.49 532.48 412.84 528.55 TRUE FALSE FALSE 535.3293108 505.2155851 399.3096875 391.5653916 525.1632641 587.7096457 445.0610254 518.8599326 409.9670128 551.3383772 0.970963265 0.916343948 0.724255202 0.710208844 0.952524413 1.065969049 0.807237522 0.941091631 0.743585119 1 9.106794217 -7.166666747 3.710268541 0.986623066 0.867217784 0 0.126921198 0.28435785 7.276293197 0.017955189 0.022057263 6.81E-08 7.166666747 -0.119405282 S(ph)GSLLQVEETEREEGLGAGR ddPTM_HeLa_SAHA_4h_R1 1 SGSLLQVEETEREEGLGAGR 20 1 Q8WYL5-2;Q8WYL5-5;Q8WYL5-4;Q8WYL5 Q8WYL5-2 SSH1 Protein phosphatase Slingshot homolog 1 1 0 S(0.536)GS(0.464)LLQVEETEREEGLGAGR 52.019 0.019714 3917300 574.39 630.14 655.38 611.73 682.74 794.27 787.42 951.75 704.35 625.13 TRUE FALSE FALSE 634.8069756 650.5569494 744.6917733 623.5709187 630.4286087 726.5937276 698.8174292 927.4056131 699.448371 652.0824136 0.973507278 0.997660627 1.142020944 0.95627624 0.96679284 1.114266713 1.071670413 1.422221477 1.072637992 1 9.348910501 -1.163544051 0.94242272 0.996924224 199.9999997 0.772890031 0.062901631 226.9639182 0.552874821 0.00860661 97127.2186 0.068620827 1.163544051 199.0030755 S(ph)GSMDPSGAHPSVR ddPTM_HeLa_SAHA_4h_R1 2 SGSMDPSGAHPSVR 14 0 Q07666-3;Q07666-2;Q07666 Q07666-3 KHDRBS1 "KH domain-containing, RNA-binding, signal transduction-associated protein 1" 1 0 S(0.5)GS(0.5)MDPSGAHPSVR;S(0.946)GS(0.054)MDPSGAHPSVR ; 177.36 1.01E-06 22727000 5825.1 7137.9 4099.2 6899.5 8639.3 14569 7303.7 7779.7 6831.5 7340.4 TRUE FALSE FALSE 6437.810745 7369.172643 4657.817628 7033.049799 7977.3587 13327.63924 6481.868454 7580.706539 6783.959035 7656.880567 0.840787666 0.962424917 0.608317916 0.918526773 1.041854921 1.740609524 0.846541669 0.990051559 0.885995149 1 12.90254104 -5.520850714 22.81063828 0.902662128 1.196717674 0.266926808 0.237738334 26.81280481 301575.8329 0.033780092 0.068585916 3.01E-06 5.520850714 0.294055546 S(ph)GSPVATFK ddPTM_HeLa_SAHA_4h_R1 1 SGSPVATFK 9 0 Q9BQ67 Q9BQ67 GRWD1 Glutamate-rich WD repeat-containing protein 1 1 0 S(0.591)GS(0.409)PVATFK 94.465 0.014533 18117000 4566.5 4507.9 4390.8 4405.7 5476.9 5023 5435.2 4405.1 4734.8 4315.1 TRUE FALSE FALSE 5046.825422 4653.958918 4989.155358 4490.978694 5057.261105 4595.012141 4823.616991 4292.423921 4701.850141 4501.145079 1.12123145 1.033949992 1.10841914 0.997741378 1.123549901 1.020854041 1.071642195 0.95362932 1.044589779 1 12.13607635 -4.256970836 23.60152613 1.058919176 0.953629224 0.326964829 0.044904356 218.3027256 1152912.49 0.007055495 0.07352617 5.53E-05 4.256970836 -0.105289952 S(ph)GSSQELDVKPSASPQER ddPTM_HeLa_SAHA_4h_R1 1 SGSSQELDVKPSASPQER 18 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.471)GS(0.398)S(0.131)QELDVKPSASPQER 55.744 0.020653 5457500 1259.4 1096.1 946.47 860.01 1210.4 1138.4 983.81 998.15 1119.6 1057.5 TRUE FALSE FALSE 1391.86947 1131.614359 1075.450003 876.6567371 1117.659413 1041.401916 873.1091096 972.6187683 1111.808612 1103.094 1.26178682 1.025854876 0.974939581 0.794725324 1.013204145 0.944073592 0.791509254 0.881718845 1.007900154 1 10.10734002 -6.778321566 2.628444868 1.123526707 0.891422579 0.448778166 0.094943007 0.18204946 2.585045166 0.01896612 0.026560912 1.67E-07 6.778321566 -0.232104128 S(ph)GSSSSSSGTPASQLYPQSR ddPTM_HeLa_SAHA_4h_R1 1 SGSSSSSSGTPASQLYPQSR 20 0 O15066-2;O15066 O15066-2 KIF3B "Kinesin-like protein KIF3B;Kinesin-like protein KIF3B, N-terminally processed" 1 0 S(0.942)GS(0.055)S(0.002)SSSSGTPASQLYPQSR 198.77 3.62E-40 0 134.02 131.31 169.21 123.56 276.67 165.8 54.868 194.91 213.56 177.88 TRUE FALSE FALSE 148.1168385 135.5645302 192.2690576 125.9516825 255.4716044 151.6729072 48.69410824 189.9244844 212.0738186 185.5492773 0.798261468 0.730612008 1.03621561 0.67880449 1.376839663 0.817426559 0.262432217 1.023579758 1.142951466 1 7.535658572 -13.06631721 0.024579211 2.068691682 1.03E-06 0.072398215 0.277429638 4220.411005 9.02708028 522.152286 274.5882565 8.58E-14 13.06631721 -2.068690655 S(ph)GSVYEPLK ddPTM_HeLa_SAHA_4h_R1 1 SGSVYEPLK 9 0 Q93100-4;Q93100-2;I3L3F2;H3BV13;H3BQ89;Q93100-3;Q93100 Q93100-4 PHKB Phosphorylase b kinase regulatory subunit beta 1 0 S(0.5)GS(0.5)VYEPLK 88.134 0.01946 7324100 2517.9 3829.4 2808.1 2682.8 3201.5 3298 3155.6 4166.1 2877.6 3100.1 TRUE FALSE FALSE 2782.744275 3953.475073 3190.773244 2734.729473 2956.201762 3016.991846 2800.523583 4059.537194 2857.574547 3233.760483 0.860528876 1.222562739 0.986706734 0.845680899 0.914168436 0.932967009 0.866026905 1.255361124 0.883669203 1 11.65899711 -4.252142177 24.27885473 0.944932396 1.255361372 0.439661891 0.104833114 616.6973516 1610400.948 0.014726316 0.240934095 5.60E-05 4.252142177 0.310428976 S(ph)GSYSYLEER ddPTM_HeLa_SAHA_4h_R1 3 SGSYSYLEER 10 0 O14974-5;O14974-4;O14974-3;O14974-2;O14974;A0A0U1RQZ1;H0YIM2;H0YIS3 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 S(0.998)GS(0.001)YS(0.001)YLEER;S(0.446)GS(0.446)YS(0.108)YLEER;S(0.998)GS(0.002)YSYLEER ;; 199.8 4.87E-10 32063300 1669.03 1789.84 1706.69 1358.37 1881.83 2505.38 2257.84 1204.42 1226.83 1680.29 TRUE FALSE FALSE 1844.586233 1847.83199 1939.268825 1384.663216 1737.644592 2291.907529 2003.781901 1173.61268 1218.29239 1752.735525 1.052404203 1.054256027 1.1064241 0.790001227 0.991390068 1.307617434 1.143231179 0.669589144 0.69508056 1 10.77539261 -4.251304756 24.68590699 1.039528743 0.669588902 0.273690552 0.165006606 874.9952342 2131262.706 0.017186855 0.310580302 5.61E-05 4.251304756 -0.369939841 S(ph)GTNSPPPPFSDWGR ddPTM_HeLa_SAHA_4h_R1 1 SGTNSPPPPFSDWGR 15 0 D6RAU6;D6REP2;D6RAJ6;Q9UKT5-2;Q9UKT5 D6RAU6 FBXO4 F-box only protein 4 1 0 S(0.454)GT(0.273)NS(0.273)PPPPFSDWGR 196.97 6.20E-10 39950000 2346.7 2232.2 2662 2908 2974.8 3730.9 3189.9 3166.9 3074.5 2569.6 TRUE FALSE FALSE 2593.536673 2304.524745 3024.763497 2964.288545 2746.871467 3413.006331 2830.964057 3085.895284 3053.104304 2680.388031 0.967597468 0.859772808 1.128479706 1.105917692 1.024803661 1.273325463 1.05617695 1.151286772 1.139053103 1 11.38822615 -6.728540806 24.99598935 0.974901812 1.12182711 0.339776058 0.088726607 113.5867304 86301.77121 0.010741693 0.015190474 1.87E-07 6.728540806 0.146925298 S(ph)GVGTGPPSPIALPPLR ddPTM_HeLa_SAHA_4h_R1 1 SGVGTGPPSPIALPPLR 17 0 Q92630 Q92630 DYRK2 Dual specificity tyrosine-phosphorylation-regulated kinase 2 1 0 S(0.948)GVGT(0.05)GPPS(0.003)PIALPPLR 120.86 0.00058187 4200700 756.97 683.59 697.88 675.65 515.62 820.12 895.81 833.78 726.19 965.99 TRUE FALSE FALSE 836.5915777 705.7387645 792.983452 688.7281828 476.113307 750.2411621 795.0111012 812.4531149 721.1363847 1007.638556 0.830249669 0.700388805 0.786972121 0.683507175 0.472504058 0.744553846 0.788984399 0.806294191 0.715669701 1 9.976762516 -7.982204691 0.680703182 0.980955164 0.699799619 0.051411164 0.123198888 0.328643796 0.340819505 0.037377265 0.02614422 1.04E-08 7.982204691 -0.281155545 S(ph)GVSITIDDPVR ddPTM_HeLa_SAHA_4h_R1 2 SGVSITIDDPVR 12 0 S4R3H4;E7EQT4;Q9UKV3;G3V3B0;Q9UKV3-3;Q9UKV3-2;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 S(0.997)GVS(0.003)ITIDDPVR;S(0.964)GVS(0.035)IT(0.001)IDDPVR ; 158.42 0.00017807 4884800 2141.96 2466.27 2506.94 2739.11 2874.61 3151.58 3516.05 3015.5 3006.67 2598.45 TRUE FALSE FALSE 2367.26118 2546.178766 2848.572728 2792.129435 2654.358003 2883.047654 3120.4148 2938.367876 2985.746339 2710.481896 0.873372806 0.939382318 1.050946967 1.030122887 0.979293758 1.06366608 1.151239861 1.084075817 1.101555536 1 11.40433366 -5.542340668 0.727905259 0.942216957 1.128402152 0.193516101 0.069828981 0.543560493 0.469496236 0.011588087 0.058796663 2.87E-06 5.542340668 0.186185195 S(ph)HEAEVLK ddPTM_HeLa_SAHA_4h_R1 4 SHEAEVLK 8 0 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 1 0 S(1)HEAEVLK;S(1)HEAEVLK;S(1)HEAEVLK;S(1)HEAEVLK ;;; 128.81 0.0016939 67552400 23061.5 26874.8 26766.1 23692.9 30511.8 1330.18 29436.2 21781.7 23971.6 25767.2 TRUE FALSE FALSE 25487.21438 27745.56115 30413.64472 24151.51034 28173.99248 1216.841181 26123.9613 21224.55565 23804.77968 26878.15009 0.948250318 1.032271978 1.13153787 0.898555528 1.04821174 0.045272505 0.97194045 0.78965835 0.885655434 1 14.71414623 S(ph)HLSSFT(ph)MKLMDKFHS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SHLSSFTMKLMDKFHSPK 18 2 Q13905-2;Q13905;Q13905-4;Q13905-3;Q5JUE9 Q13905-2 RAPGEF1 Rap guanine nucleotide exchange factor 1 3 0 S(0.872)HLS(0.123)S(0.123)FT(0.882)MKLMDKFHS(0.999)PK 55.173 0.0078042 0 462.82 625.27 572.42 459.42 477.33 737.59 725.89 474.98 569.34 577.82 TRUE FALSE FALSE 511.5015311 645.5291583 650.4264166 468.3127384 440.7570785 674.7431824 644.2109468 462.8306994 565.3779166 602.732648 0.848637506 1.071004135 1.079129227 0.776982531 0.731264649 1.119473426 1.068817077 0.767887223 0.938024377 1 9.235374403 -5.765577039 0.004828732 1.85514133 3.01E-07 0.011649281 0.139551776 99339.26045 140.8098367 26566.87899 27532.41782 1.72E-06 5.765577039 -1.855141029 S(ph)HPLGS(ph)PGS(ph)AS(ph)DLETS(ph)GLQEQRNHLQGK ddPTM_HeLa_SAHA_4h_R1 1 SHPLGSPGSASDLETSGLQEQRNHLQGK 28 1 P16860 P16860 NPPB Natriuretic peptides B;Brain natriuretic peptide 32;BNP(1-30);BNP(1-29);BNP(1-28);BNP(2-31);BNP(3-32);BNP(3-30);BNP(3-29);BNP(4-32);BNP(4-31);BNP(4-30);BNP(4-29);BNP(4-27);BNP(5-32);BNP(5-31);BNP(5-29) 5 0 S(0.987)HPLGS(0.94)PGS(0.94)AS(0.572)DLET(0.572)S(0.989)GLQEQRNHLQGK 40.142 0.007989 0 604.96 897.83 747.5 775.51 711.07 725.09 619.64 757.27 910.61 755.36 TRUE FALSE FALSE 668.5924685 926.9202811 849.3654072 790.5211175 656.5879702 663.3082528 549.9164764 737.9001299 904.2729909 787.9272662 0.848545922 1.176403357 1.077974381 1.003291993 0.833310381 0.841839445 0.697927969 0.936507926 1.147660488 1 9.62191865 -5.702792201 6.703822862 0.964553621 0.817763437 0.352083725 0.116915806 0.225414185 20.03941877 0.016925472 0.033883601 1.98E-06 5.702792201 -0.146790184 S(ph)HS(ph)AKTPGFS(ph)VQS(ph)IS(ph)DFEK ddPTM_HeLa_SAHA_4h_R1 1 SHSAKTPGFSVQSISDFEK 19 1 Q9NY61 Q9NY61 AATF Protein AATF 5 0 S(0.951)HS(0.956)AKT(0.218)PGFS(0.883)VQS(0.994)IS(0.998)DFEK 40.428 0.023067 2546500 350.75 223.52 216.91 380.65 325.04 293.81 329.65 425.45 309.97 427.65 TRUE FALSE FALSE 387.6434943 230.7621947 246.4693652 388.0180312 300.1355054 268.7757351 292.5569144 414.567605 307.8128935 446.0880844 0.868984194 0.517301858 0.552512775 0.869823797 0.672816683 0.602517181 0.655827682 0.929340235 0.690027159 1 8.801184802 -7.485429862 4.318780113 0.945204305 0.682327507 0.146633267 0.147375917 0.135262699 5.241378803 0.02235486 0.02471697 3.27E-08 7.485429862 -0.262876798 S(ph)HSDTSIASR ddPTM_HeLa_SAHA_4h_R1 1 SHSDTSIASR 10 0 H7C3H3;E9PEM3;H7C357;H0Y6E6;Q92622-3;Q92622-2;Q92622 H7C3H3 KIAA0226 Run domain Beclin-1 interacting and cysteine-rich containing protein 1 0 S(0.998)HS(0.002)DTSIASR 129 0.00011767 0 540.94 597.93 437.72 701.57 674.51 238.01 622.93 608.8 718.03 670.43 TRUE FALSE FALSE 597.8385511 617.3033243 497.3702021 715.1499018 622.8291895 217.730209 552.8362769 593.2277775 713.0331708 699.3355183 0.854866563 0.882699803 0.711203977 1.022613443 0.890601397 0.311338697 0.790516515 0.848273485 1.019586668 1 9.449840969 -7.024780599 0.222590186 1.045487841 0.634984304 0.250877244 0.171784351 2.886559104 0.542882868 0.346569828 0.464966318 9.45E-08 7.024780599 -0.410503537 S(ph)HSLSRPGPTEGDAEGEAEGPVGSTLGSYATLTR ddPTM_HeLa_SAHA_4h_R1 1 SHSLSRPGPTEGDAEGEAEGPVGSTLGSYATLTR 34 1 Q8WXE0-2;Q8WXE0 Q8WXE0-2 CASKIN2 Caskin-2 1 0 S(0.312)HS(0.312)LS(0.312)RPGPT(0.063)EGDAEGEAEGPVGSTLGSYATLTR 74.769 6.50E-06 9395700 510.59 687.82 306.59 695.02 678.52 251.47 834.3 634.68 577.49 940.29 TRUE FALSE FALSE 564.2961989 710.1058193 348.3704885 708.4731171 626.5319442 230.0433413 740.4223682 618.4458046 573.4712001 980.8305036 0.575324887 0.723984232 0.355179093 0.722319621 0.638776977 0.234539342 0.754893293 0.630532801 0.584679206 1 9.937860037 -9.233241358 0.576111449 1.068104329 0.565815397 0 0.203092918 0.759044412 0.36486912 0.204674143 0.03568667 5.84E-10 9.233241358 -0.502288933 S(ph)HSPSASQSGSQLR ddPTM_HeLa_SAHA_4h_R1 1 SHSPSASQSGSQLR 14 0 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 S(0.857)HS(0.136)PS(0.007)ASQSGSQLR 70.451 0.022714 723120 137.39 265.94 196.47 173.57 111.6 0 201.36 318.32 290.47 183.45 TRUE FALSE FALSE 151.8413106 274.5566305 223.2439084 176.9296983 103.0492321 0 178.7024428 310.1778353 288.4485956 191.3594273 0.793487484 1.434769295 1.166620906 0.924593582 0.538511395 0 0.933857534 1.620917452 1.507365483 1 7.580141167 -5.96248944 16.90185641 0.969846032 0.729789204 0.067791016 0.44505569 13.55583971 6105.296413 0.06276126 0.113760673 1.09E-06 5.96248944 -0.240056828 S(ph)HSPSIDGTPK ddPTM_HeLa_SAHA_4h_R1 2 SHSPSIDGTPK 11 0 A0A0C4DH56;Q9BWT3-2;Q9BWT3 A0A0C4DH56 PAPOLG Poly(A) polymerase gamma 1 0 S(0.893)HS(0.107)PSIDGTPK;S(0.71)HS(0.29)PSIDGTPK ; 135.94 0.00084686 19063500 11549.2 13045.2 9726.3 12267 13077.9 3578.5 13148 14024.2 15125.5 12633.1 TRUE FALSE FALSE 12763.99785 13467.87304 11051.74951 12504.44552 12075.87413 3273.591668 11668.55244 13665.48127 15020.24041 13177.77477 0.968600395 1.022014208 0.838665838 0.948904177 0.916381889 0.248417637 0.885472141 1.037009777 1.139816144 1 13.68581915 -5.500287586 24.94258784 0.971790545 0.71358087 0.254586668 0.200084143 736.7653388 813451.8102 0.026393611 0.058600244 3.16E-06 5.500287586 -0.258209675 S(ph)HSSSEAYEPR ddPTM_HeLa_SAHA_4h_R1 1 SHSSSEAYEPR 11 0 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 S(0.963)HS(0.036)SSEAYEPR 119.25 0.0017613 1901100 615.39 857.11 719.04 577.9 674.82 253.83 699.56 655.98 668.41 640.35 TRUE FALSE FALSE 680.1195437 884.8809264 817.0270266 589.0860902 623.1154374 232.202256 620.8436677 639.2009814 663.7584804 667.9586223 1.0182061 1.324754104 1.223170118 0.881920033 0.932865325 0.347629701 0.929464262 0.956946973 0.993711973 1 9.383614925 -5.798945951 2.594324409 1.050504653 0.758152335 0.358694484 0.194713963 0.258322224 3.549442037 0.029571911 0.060658348 1.59E-06 5.798945951 -0.292352318 S(ph)HTSEGAHLDITPNSGAAGNSAGPK ddPTM_HeLa_SAHA_4h_R1 2 SHTSEGAHLDITPNSGAAGNSAGPK 25 0 E5RJY1;E7ESM1;Q92597-3;Q92597-2;Q92597 E5RJY1 NDRG1 Protein NDRG1 1 0 S(0.89)HT(0.047)S(0.062)EGAHLDITPNSGAAGNSAGPK;S(0.417)HT(0.417)S(0.165)EGAHLDITPNSGAAGNSAGPK ; 161.48 8.05E-11 31958000 4775.9 5295.3 3093.3 5227.1 8586.2 1721.61 6867.1 7252.9 6249.7 5528.3 TRUE FALSE FALSE 5278.251075 5466.871194 3514.838815 5328.278079 7928.327211 1574.919142 6094.395835 7067.38132 6206.207829 5766.652068 0.915305972 0.948014746 0.609511164 0.923981197 1.37485791 0.273108057 1.056834323 1.225560557 1.076223735 1 12.49351826 -8.803199999 0.915700836 0.994565698 0.906603278 0.021899487 0.290256348 2.604100494 4.300995166 0.130151022 0.055223823 1.57E-09 8.803199999 -0.087962419 S(ph)HVT(ph)HRT(ph)PKVKK ddPTM_HeLa_SAHA_4h_R1 1 SHVTHRTPKVKK 12 3 A0A0G2JRB3;A0A0G2JNP1;A6NM11;A0A0G2JMZ2;A0A0G2JQV0;A0A0J9YVT7;A0A0G2JRA3;A0A0J9YWT4;A0A0G2JNC9;A0A0G2JQI7;A0A0G2JRT3;A0A0G2JS48;A0A0J9YVP4;A0A0G2JP19 A0A0G2JRB3 LRRC37A2 Leucine-rich repeat-containing protein 37A2 3 0 S(1)HVT(1)HRT(1)PKVKK 48.568 0.0087606 0 261.21 242.5 290.72 225.45 320.16 279.66 215.62 444.34 176.09 286.94 TRUE FALSE FALSE 288.6852663 250.3571591 330.3378076 229.8139108 295.62941 255.8313947 191.3578701 432.9744262 174.8645754 299.3113877 0.964498105 0.836443816 1.103659337 0.767808778 0.987698505 0.854733248 0.639327062 1.446568504 0.584222928 1 8.225503359 -7.705540851 2.704344462 0.987169559 0.931823004 0 0.242513034 1.105349684 16.94655956 0.035845664 0.036291576 1.97E-08 7.705540851 -0.055346554 S(ph)IDDLEEK ddPTM_HeLa_SAHA_4h_R1 2 SIDDLEEK 8 0 P09493-3;P09493-9;Q6ZN40;P09493-2;H7BYY1;P09493-8;P09493-7 P09493-3 TPM1 Tropomyosin alpha-1 chain 1 0 S(1)IDDLEEK;S(1)IDDLEEK ; 150.1 0.0002708 27901000 4486.3 3977.5 3787.3 3545.5 4813.2 4399.4 3717.9 4042.7 4533 3910.7 TRUE FALSE FALSE 4958.189618 4106.37361 4303.413521 3614.128279 4444.413656 4024.54637 3299.552107 3939.293588 4501.454484 4079.309416 1.215448281 1.006634504 1.054936775 0.885965714 1.089501483 0.986575413 0.808850659 0.965676586 1.103484444 1 11.99410922 -6.623522473 1.892365975 1.099918458 0.949696987 0.346747255 0.087696574 0.322872831 2.347974567 0.01779888 0.027068131 2.38E-07 6.623522473 -0.150221471 S(ph)IDQDYER ddPTM_HeLa_SAHA_4h_R1 2 SIDQDYER 8 0 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 S(1)IDQDYER;S(1)IDQDYER ; 126.03 0.0026143 117084000 3393.6 3726.5 2929.6 3148.8 3568.3 4102.6 3878.3 2955.6 3598 3182.3 TRUE FALSE FALSE 3750.554418 3847.241045 3328.830631 3209.749577 3294.897625 3753.035399 3441.903477 2880.000032 3572.961225 3319.504527 1.129853684 1.158980509 1.002809487 0.966936346 0.992587176 1.130601079 1.036872656 0.867599369 1.076353774 1 11.6967522 -6.628730938 18.97499044 1.070865954 1.005366704 0.254709823 0.073213623 3.331249399 581.5812499 0.01311235 0.018543656 2.35E-07 6.628730938 -0.06549925 S(ph)IDST(ph)KSRS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SIDSTKSRSR 10 2 Q8N2Y8 Q8N2Y8 RUSC2 Iporin 3 0 S(0.638)IDS(0.436)T(0.926)KS(0.004)RS(0.997)R 100.02 0.012951 58247000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 S(ph)IEDLHR ddPTM_HeLa_SAHA_4h_R1 2 SIEDLHR 7 0 Q96PY5;Q96PY5-3 Q96PY5 FMNL2 Formin-like protein 2 1 0 S(1)IEDLHR;S(1)IEDLHR ; 154.49 4.16E-05 52277000 6146.6 8083.5 6873.7 5341.7 6874 6392.3 8201.1 6604.2 6308 6827.2 TRUE FALSE FALSE 6793.12759 8345.410704 7810.412039 5445.096328 6347.315605 5847.640078 7278.290644 6435.274127 6264.102114 7121.554004 0.95388276 1.171852478 1.096728612 0.764593841 0.89128238 0.821118547 1.022008769 0.90363341 0.879597643 1 12.79797637 -6.269779106 24.99951688 1.003351939 0.885684473 0.338113977 0.096257325 636.6748953 1908522.347 0.014380806 0.02219124 5.37E-07 6.269779106 -0.117667466 S(ph)IELEHFEER ddPTM_HeLa_SAHA_4h_R1 2 SIELEHFEER 10 0 G5E9L9;Q8N568-2;Q8N568;A0A0U1RR70;Q8N568-3 G5E9L9 DCLK2 Serine/threonine-protein kinase DCLK2 1 0 S(1)IELEHFEER;S(1)IELEHFEER ; 116.51 0.0028624 4132000 1515.22 1579.26 1437.23 1451.95 1779.89 1207.28 1355.83 1588.5 1511.24 1726.66 TRUE FALSE FALSE 1674.597792 1630.42906 1633.08822 1480.054592 1643.515213 1104.412952 1203.26844 1547.86847 1500.723158 1801.104763 0.929761459 0.905238326 0.906714731 0.821748197 0.912503951 0.613186404 0.668072433 0.859399465 0.833223691 1 10.81466638 -6.064845118 0.611835808 0.975435967 0.706937143 0.378280677 0.089600994 0.435779967 0.299647887 0.017120058 0.055594642 8.61E-07 6.064845118 -0.268498824 S(ph)IEVENDFLPVEK ddPTM_HeLa_SAHA_4h_R1 5 SIEVENDFLPVEK 13 0 Q5JPT2;Q96B97-2;Q96B97;Q5JPT1;Q5VSN0 Q5JPT2 SH3KBP1 SH3 domain-containing kinase-binding protein 1 1 0 S(1)IEVENDFLPVEK;S(1)IEVENDFLPVEK;S(1)IEVENDFLPVEK;S(1)IEVENDFLPVEK;S(1)IEVENDFLPVEK ;;;; 197.29 1.44E-08 101003700 13911.37 13952.93 14447.35 14361.17 15995.58 16403.4 17718.6 17914.36 14847.52 13129.02 TRUE FALSE FALSE 15374.63172 14405.01409 16416.15962 14639.15121 14770.00212 15005.73804 15724.8565 17456.13661 14744.1949 13695.0763 1.122639362 1.051838907 1.198690628 1.068935352 1.078489947 1.095703135 1.148212405 1.274628649 1.076605531 1 13.74136968 -13.52287816 0.02246133 8.91E-07 1.888176281 0.378594167 0.059014283 1407.753922 2.547729715 146.6839905 77.7552184 3.00E-14 13.52287816 1.88817539 S(ph)IFASPESVTGK ddPTM_HeLa_SAHA_4h_R1 1 SIFASPESVTGK 12 0 O75940 O75940 SMNDC1 Survival of motor neuron-related-splicing factor 30 1 0 S(0.777)IFAS(0.196)PES(0.027)VTGK 123.26 0.0013784 12780000 1625.1 1731.2 1638 1648.1 1992.2 1940.9 1967.2 2101.1 1967.7 1760.8 TRUE FALSE FALSE 1796.035474 1787.292016 1861.21811 1680.001359 1839.558066 1775.524401 1745.845479 2047.356904 1954.006615 1836.716705 0.977851113 0.973090739 1.013339784 0.914676365 1.001546978 0.966683864 0.950525181 1.114683009 1.063858465 1 10.84291341 -4.252939527 24.88443747 0.982170775 1.11468308 0.515904495 0.037730089 451.3729372 1321423.025 0.003636215 0.056664315 5.59E-05 4.252939527 0.132512306 S(ph)IGSAVDQGNESIVAK ddPTM_HeLa_SAHA_4h_R1 4 SIGSAVDQGNESIVAK 16 0 F8VRD2;Q9H0H5;F8W1E5 F8VRD2 RACGAP1 Rac GTPase-activating protein 1 1 0 S(0.998)IGS(0.002)AVDQGNESIVAK;S(1)IGSAVDQGNESIVAK;S(0.998)IGS(0.002)AVDQGNESIVAK;S(1)IGSAVDQGNESIVAK ;;; 265.08 5.26E-49 70184800 4099.07 3341.96 3203.97 3793.49 4175.89 3964.45 3956.91 4339.88 4077.22 3762.28 TRUE FALSE FALSE 4530.22899 3450.241697 3640.590346 3866.918484 3855.93421 3626.656557 3511.668073 4228.872154 4048.846294 3924.490303 1.154348371 0.879156637 0.927659407 0.985330116 0.982531211 0.924108936 0.894808702 1.077559588 1.03168717 1 11.93828958 -7.258711324 24.99985549 1.072886731 0.951073161 0.372267776 0.064358995 192.4286242 1763410.222 0.012546476 0.015000362 5.51E-08 7.258711324 -0.12181357 S(ph)IHEVDISNLEAALR ddPTM_HeLa_SAHA_4h_R1 5 SIHEVDISNLEAALR 15 0 Q5VTI5;A0A1B0GUN5;Q9Y2H5 Q5VTI5 PLEKHA6 Pleckstrin homology domain-containing family A member 6 1 0 S(1)IHEVDISNLEAALR;S(1)IHEVDISNLEAALR;S(1)IHEVDISNLEAALR;S(1)IHEVDISNLEAALR;S(1)IHEVDISNLEAALR ;;;; 200 2.17E-12 30209800 1977.81 2738.53 2377.31 2631.11 3129.9 2028.94 3256.82 2418.86 3172.17 3289.6 TRUE FALSE FALSE 2185.84513 2827.260169 2701.277426 2682.038939 2890.087738 1856.062897 2890.354042 2356.989064 3150.094611 3431.430755 0.637006918 0.823930416 0.787216068 0.781609518 0.842239854 0.540900583 0.842317461 0.686882304 0.918012 1 11.74459453 -9.463060087 1.143877808 1.003095746 0.737155026 0.445573578 0.095097224 0.31149249 0.715355145 0.066985926 0.015768676 3.44E-10 9.463060087 -0.265940719 S(ph)IPAGAEPGEK ddPTM_HeLa_SAHA_4h_R1 1 SIPAGAEPGEK 11 0 H3BU16;A6NGP5;Q9H910-2;Q9H910;Q9H910-3 H3BU16 HN1L Hematological and neurological expressed 1-like protein 1 0 S(1)IPAGAEPGEK 113.24 0.0033716 12417000 2518.2 2491.6 2459.5 2540.4 2923.9 3376.7 2772.8 2692.9 2519.6 2468.3 TRUE FALSE FALSE 2783.07583 2572.329475 2794.667851 2589.573115 2699.871414 3088.986163 2460.797246 2624.019517 2502.065898 2574.720493 1.080923478 0.999071349 1.085425723 1.005768635 1.048607576 1.199736504 0.95575316 1.019147331 0.971781561 1 11.33020011 -9.55292991 1.2993312 0.999775534 1.053233512 0.125429496 0.063321737 0.914016595 2.745779663 0.043294312 0.010053329 2.80E-10 9.55292991 0.053457978 S(ph)IPQLDLGWPDTIAYR ddPTM_HeLa_SAHA_4h_R1 2 SIPQLDLGWPDTIAYR 16 0 A6ND36 A6ND36 FAM83G Protein FAM83G 1 0 S(1)IPQLDLGWPDTIAYR;S(1)IPQLDLGWPDTIAYR ; 182.47 1.05E-09 175123000 686.21 814.02 861.43 708.3 996.03 994.29 1312.57 964.54 890.53 1011.1 TRUE FALSE FALSE 758.3887162 840.3947821 978.8211943 722.0101707 919.7143966 909.5708983 1164.876169 939.8684634 884.3327292 1054.693469 0.719060787 0.796814247 0.92806225 0.684568732 0.872020567 0.862403082 1.104468932 0.8911295 0.838473694 1 10.04260805 -4.878170184 8.966979947 0.850604146 0.997290116 0.285799021 0.099733645 0.314840247 23.17812934 0.017271849 0.052072799 1.32E-05 4.878170184 0.14668597 S(ph)IQDLTVTGTEPGQVSSR ddPTM_HeLa_SAHA_4h_R1 3 SIQDLTVTGTEPGQVSSR 18 0 Q9UG54;O43318-4;O43318-3;O43318-2;O43318 Q9UG54 DKFZp586F0420;MAP3K7 Mitogen-activated protein kinase kinase kinase 7 1 0 S(1)IQDLTVTGTEPGQVSSR;S(0.999)IQDLT(0.001)VTGTEPGQVSSR;S(1)IQDLTVTGTEPGQVSSR ;; 261.94 2.04E-48 95968600 1343.42 1687.07 1662.99 1565.06 1618.83 2448.66 1957.64 1910.79 1689.07 1440.2 TRUE FALSE FALSE 1484.727079 1741.732175 1889.613617 1595.353999 1494.795595 2240.020392 1737.361195 1861.914759 1677.315624 1502.29407 0.988306557 1.159381648 1.257818728 1.061945215 0.99500865 1.491066521 1.156472111 1.239381021 1.116502859 1 10.55295153 -6.525131121 0.525090992 0.983257082 1.260449112 0.194847061 0.132332143 0.71338069 0.402219536 0.036428642 0.08141067 2.98E-07 6.525131121 0.27719203 S(ph)ISADDDLQESSR ddPTM_HeLa_SAHA_4h_R1 2 SISADDDLQESSR 13 0 P18615;P18615-3;A0A0A0MT02;E9PD43;A0A0A0MSN9;P18615-4;A0A0G2JI50;A2ABK4 P18615 NELFE Negative elongation factor E 1 0 S(0.943)IS(0.057)ADDDLQESSR;S(0.61)IS(0.39)ADDDLQESSR ; 171.11 2.24E-05 186315000 2708.18 3676.83 2988.1 1805.43 2671.94 4015.6 3430.3 1950.69 1824.5 2639.07 TRUE FALSE FALSE 2993.038798 3795.961704 3395.302707 1840.376708 2467.216534 3673.448289 3044.313616 1900.794174 1811.803156 2752.853223 1.087249684 1.378919033 1.233375858 0.668534266 0.896239768 1.334414875 1.105875748 0.690481482 0.658154652 1 11.42671197 S(ph)ISESFLTVK ddPTM_HeLa_SAHA_4h_R1 1 SISESFLTVK 10 0 F5H527;Q76I76;J3KSQ9;K7EP00;Q76I76-3;Q76I76-4 F5H527 SSH2 Protein phosphatase Slingshot homolog 2 1 0 S(0.998)IS(0.002)ESFLTVK 113.38 0.0046188 5059700 678.82 1131 815.23 763.34 889.45 915.53 946.48 663.03 1041.8 819.05 TRUE FALSE FALSE 750.2214021 1167.645142 926.3252989 778.1155495 821.3005332 837.5216934 839.9795794 646.0706527 1034.550029 854.3632538 0.878105886 1.366684647 1.084228862 0.910754935 0.961301331 0.980287588 0.983164451 0.756201358 1.210901832 1 9.738705788 -4.261376622 21.665263 0.982807139 0.756201564 0.156794757 0.150530375 1.055125794 357749.0454 0.019245081 0.148301111 5.48E-05 4.261376622 -0.226605575 S(ph)ISLGDSEGPIVATLAQPLR ddPTM_HeLa_SAHA_4h_R1 2 SISLGDSEGPIVATLAQPLR 20 0 O43379;O43379-4 O43379 WDR62 WD repeat-containing protein 62 1 0 S(0.991)IS(0.009)LGDSEGPIVATLAQPLR;S(0.91)IS(0.078)LGDS(0.012)EGPIVATLAQPLR ; 379.06 1.06E-211 179970000 557.01 610.88 570.32 490.98 588.17 544.28 644.81 666.31 513.95 600.02 TRUE FALSE FALSE 615.5988675 630.6729128 648.0402395 500.4836279 543.1045417 497.904282 572.2542818 649.266755 510.3733801 625.8897986 0.983557918 1.007642103 1.035390321 0.799635381 0.867731896 0.795514295 0.914305175 1.037349956 0.815436489 1 9.289764852 -6.273932942 24.8743273 0.996381408 0.878953413 0.161267622 0.08618914 499.0698909 993632.5831 0.009839174 0.015094707 5.32E-07 6.273932942 -0.117427995 S(ph)ISLSQSAENVPASK ddPTM_HeLa_SAHA_4h_R1 1 SISLSQSAENVPASK 15 0 Q4ADV7-2;Q4ADV7-3;Q4ADV7;H0YFN7 Q4ADV7-2 RIC1 RAB6A-GEF complex partner protein 1 1 0 S(0.969)IS(0.028)LS(0.003)QSAENVPASK 257.46 5.02E-44 13835000 1595.5 1587.8 1279.8 868.07 2054.5 2156.2 1720 1162.7 745.89 1821.5 TRUE FALSE FALSE 1763.32201 1639.245762 1454.204479 884.8727501 1897.084654 1972.47963 1526.461073 1132.959818 740.6992908 1900.033779 0.928047717 0.862745589 0.765357172 0.46571422 0.998447856 1.038128717 0.803386282 0.59628404 0.389834801 1 10.89180935 -7.238834978 1.969634283 0.970918638 0.788668853 0 0.242562131 0.400028558 2.940769277 0.030064363 0.035952523 5.77E-08 7.238834978 -0.182249785 S(ph)ISPEVSASR ddPTM_HeLa_SAHA_4h_R1 2 SISPEVSASR 10 0 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 S(0.985)IS(0.015)PEVSASR;S(0.658)IS(0.342)PEVSASR ; 155.53 0.0003542 42868000 3235 3904 3183.1 4195.6 3895.9 4212.9 3842.5 4902.1 4761.1 3790.9 TRUE FALSE FALSE 3575.272143 4030.492162 3616.876291 4276.811905 3597.396984 3853.937219 3410.131787 4776.71138 4727.967117 3954.344251 0.904137808 1.019256773 0.914658932 1.081547694 0.90973288 0.974608424 0.862376053 1.207965487 1.195638725 1 11.94922276 S(ph)ISTSGPLDKEDTGR ddPTM_HeLa_SAHA_4h_R1 1 SISTSGPLDKEDTGR 15 1 A0A0U1RR27;Q7Z401;Q7Z401-2 A0A0U1RR27 DENND4A C-myc promoter-binding protein 1 0 S(0.884)IS(0.092)T(0.024)SGPLDKEDTGR 189.8 2.58E-08 10709000 934.15 1068.7 1165.6 1490 1384.1 1800.8 1333.9 1535.5 972.85 1204 TRUE FALSE FALSE 1032.408183 1103.326581 1324.441898 1518.841105 1278.050557 1647.361709 1183.806061 1496.224133 966.0798576 1255.910332 0.822039724 0.878507448 1.054567244 1.209354733 1.017628826 1.311687361 0.942588042 1.191346305 0.769226777 1 10.29451775 -6.610922926 4.372059275 0.911165756 1.127813236 0.541169567 0.113342502 0.141927402 5.010782682 0.017108511 0.024520236 2.45E-07 6.610922926 0.216647481 S(ph)ISVGENLGLVAEPQAHAPIR ddPTM_HeLa_SAHA_4h_R1 1 SISVGENLGLVAEPQAHAPIR 21 0 O60336-3;O60336-6;O60336;O60336-4 O60336-3 MAPKBP1 Mitogen-activated protein kinase-binding protein 1 1 0 S(0.56)IS(0.44)VGENLGLVAEPQAHAPIR 133.58 4.25E-06 10371000 723.23 938.35 694.1 835.64 836.78 1091.3 852.54 840.37 980.49 693.74 TRUE FALSE FALSE 799.3026497 968.7531557 788.6883333 851.8150206 772.6660972 998.3151005 756.6099554 818.8745522 973.6666903 723.6505265 1.104542345 1.338703034 1.089874607 1.177108272 1.067733759 1.379554169 1.045546058 1.131588415 1.345492962 1 9.499149333 -8.113982713 1.151353316 1.021499327 1.170628366 0 0.146735581 0.386602233 1.066293905 0.026688183 0.020703032 7.69E-09 8.113982713 0.149129039 S(ph)ITSPPSTSTTK ddPTM_HeLa_SAHA_4h_R1 1 SITSPPSTSTTK 12 0 C9JWJ8;K7EN08;Q14938-6;Q14938-5;Q14938-3;Q14938-2;Q14938-4;Q14938 C9JWJ8 NFIX Nuclear factor 1;Nuclear factor 1 X-type 1 0 S(0.999)IT(0.001)SPPSTSTTK 124.12 0.0013366 6346800 780.49 809.53 722.59 916.71 1009.6 1137 1140.6 998.05 834.76 863.05 TRUE FALSE FALSE 862.5855192 835.7593032 821.0608021 934.4542476 932.2446661 1040.121203 1012.256686 972.5213262 828.9508372 900.2603092 0.958151226 0.928352938 0.912025993 1.037982279 1.035527899 1.15535606 1.124404437 1.080266803 0.920790163 1 9.814198405 -5.669433743 1.977482442 0.971259314 1.118642989 0.771666444 0.039206777 0.123800635 0.979794556 0.005880362 0.013795789 2.14E-06 5.669433743 0.147383676 S(ph)ITSTPLSGK ddPTM_HeLa_SAHA_4h_R1 2 SITSTPLSGK 10 0 Q9P0K7-3;Q9P0K7;Q9P0K7-2;Q9P0K7-4 Q9P0K7-3 RAI14 Ankycorbin 1 0 S(0.999)ITSTPLSGK;S(1)ITSTPLSGK ; 117.25 0.003459 25534000 3152.5 2838 2424.9 3401.9 3413.1 3674.2 3617.9 3637 2928.9 2931.4 TRUE FALSE FALSE 3484.094414 2929.953062 2755.352744 3467.748694 3151.589015 3361.13749 3210.80437 3543.970806 2908.517546 3057.787 1.139416975 0.958193969 0.901093746 1.134071371 1.030676439 1.099205893 1.050041867 1.158998585 0.951183829 1 11.5782722 -1.061833766 1.051815364 1.050431759 129.7841027 0.152514177 0.078120098 3234.791332 3.736156269 0.012595166 1004652.995 0.086729379 1.061833766 128.7336709 S(ph)IVVIHPDTGR ddPTM_HeLa_SAHA_4h_R1 3 SIVVIHPDTGR 11 0 K7EQ71;K7EKI8;O60437 K7EQ71 PPL Periplakin 1 0 S(1)IVVIHPDTGR;S(1)IVVIHPDTGR;S(1)IVVIHPDTGR ;; 90.707 0.011445 16471500 4310.2 4010.08 3614.46 4714.4 6124.8 6197.7 5364.9 5736.1 4909.3 4770.8 TRUE FALSE FALSE 4763.566612 4140.009223 4107.019786 4805.654029 5655.519147 5669.621093 4761.227332 5589.378868 4875.135782 4976.492536 0.957213656 0.831913078 0.825284024 0.965670901 1.136446826 1.139280538 0.95674359 1.123156285 0.979632893 1 12.28091356 -5.83231909 7.666044388 0.952944446 1.082831993 0.505968582 0.075878316 0.201308899 18.74928766 0.012423217 0.022638337 1.47E-06 5.83231909 0.129887547 S(ph)IY(ph)T(ph)T(ph)EK ddPTM_HeLa_SAHA_4h_R1 1 SIYTTEK 7 0 A0A0A0MR41;A6NNF4-3;A6NNF4 A0A0A0MR41 ZNF726 Zinc finger protein 726 4 0 S(1)IY(1)T(1)T(1)EK 41.302 0.0087529 0 300.91 282.17 314.48 527.19 223.21 447.05 401.78 545.48 380.15 495.27 TRUE FALSE FALSE 332.5610944 291.3124931 357.3356967 537.3945248 206.107698 408.958825 356.570657 531.5274114 377.5045052 516.6235135 0.643720399 0.563877728 0.691675248 1.040205315 0.398951447 0.791599326 0.690194402 1.028848664 0.730714912 1 9.012969497 -9.35196627 1.087523807 0.999242329 0.719110498 0 0.200934444 0.556322061 1.182367305 0.117404867 0.030973861 4.45E-10 9.35196627 -0.280131831 S(ph)IYQVENLK ddPTM_HeLa_SAHA_4h_R1 2 SIYQVENLK 9 0 Q9NY30 Q9NY30 BTG4 Protein BTG4 1 0 S(0.591)IY(0.409)QVENLK;S(0.604)IY(0.396)QVENLK ; 101.99 0.0093517 18291100 6141.1 7868.2 6594.1 7336.9 7928.7 7122.3 7288.7 7122.7 7237.6 6084.6 TRUE FALSE FALSE 6787.049074 8123.134843 7492.709607 7478.916309 7321.204719 6515.439971 6468.556293 6940.511648 7187.232952 6346.936883 1.069342456 1.279851209 1.180523731 1.178350509 1.153502052 1.026548726 1.019161906 1.093521454 1.132393954 1 12.63184478 -7.703219501 2.732110055 1.02521044 1.130455614 0.057925286 0.08121757 0.255101013 3.993102228 0.015799514 0.016014114 1.98E-08 7.703219501 0.105245174 S(ph)KFDSDEEEEDTENVEAASSGK ddPTM_HeLa_SAHA_4h_R1 4 SKFDSDEEEEDTENVEAASSGK 22 1 Q8TF01;Q8TF01-2 Q8TF01 PNISR Arginine/serine-rich protein PNISR 1 0 S(0.428)KFDS(0.428)DEEEEDT(0.144)ENVEAASSGK;S(0.812)KFDS(0.176)DEEEEDT(0.011)ENVEAASSGK;S(0.5)KFDS(0.5)DEEEEDT(0.001)ENVEAASSGK;S(0.528)KFDS(0.355)DEEEEDT(0.116)ENVEAASSGK ;;; 115.92 2.11E-05 102924800 5209.95 5977.94 5319.8 5922.5 6493.03 6954.72 7610.94 7471.02 5905.69 5156.94 TRUE FALSE FALSE 5757.956445 6171.629178 6044.75464 6037.138552 5995.535444 6362.13873 6754.537 7279.922126 5864.591822 5379.280921 1.070395194 1.147296315 1.123710535 1.122294716 1.114560762 1.182711746 1.255657977 1.353326259 1.090218546 1 12.39319762 -1 0.216123483 1.001995832 2.727162831 0.83478023 0.038249312 10.59290989 0.125809502 0.026401086 6.396546677 0.1 1 1.725166999 S(ph)KGPSAAGEQEPDKESGASVDEVAR ddPTM_HeLa_SAHA_4h_R1 1 SKGPSAAGEQEPDKESGASVDEVAR 25 2 G3V1U3;P50579-3;P50579;F8VSC4 G3V1U3 METAP2 Methionine aminopeptidase 2 1 0 S(0.906)KGPS(0.094)AAGEQEPDKESGASVDEVAR 96.913 1.12E-05 8111000 632.99 767.65 735.08 831.43 817.23 1008.1 936.33 504.79 826.76 796.15 TRUE FALSE FALSE 699.5707925 792.5223637 835.2528743 847.5235299 754.614014 922.2042086 830.9716841 491.8782027 821.0065098 830.4759228 0.842373359 0.954299025 1.005752065 1.020527515 0.908652489 1.110452673 1.000596961 0.592284724 0.988597607 1 9.697794532 -4.256758684 24.79537168 0.952720775 0.592284559 0.7115663 0.072266929 226.8485185 1201652.483 0.011980991 0.129372671 5.54E-05 4.256758684 -0.360436216 S(ph)KPIPIMPASPQK ddPTM_HeLa_SAHA_4h_R1 1 SKPIPIMPASPQK 13 1 O00429-4;O00429-5;O00429-3;O00429-9;O00429-2;O00429;O00429-8;O00429-6;O00429-7 O00429-4 DNM1L Dynamin-1-like protein 1 0 S(0.865)KPIPIMPAS(0.135)PQK 103.44 0.0023077 18709000 5870.4 6876.8 4367.5 6153.4 6193.3 7692.4 6713 5688.9 9665.6 5920.9 TRUE FALSE FALSE 6487.875606 7099.612832 4962.680155 6272.507955 5718.770692 7036.964244 5957.635572 5543.386175 9598.336303 6176.178975 1.050467552 1.149515398 0.803519486 1.015596857 0.925939924 1.139371814 0.964615112 0.897542995 1.554089728 1 12.59249884 S(ph)KSATTTPSGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SKSATTTPSGSPR 13 1 Q2M2I8-2;Q2M2I8;A0A096LP60;A0A096LNZ0;A0A096LP25 Q2M2I8-2;A0A096LNZ0 AAK1 AP2-associated protein kinase 1 2 0 S(0.593)KS(0.403)AT(0.002)T(0.002)TPSGS(1)PR 123.76 0.01383 2155100 781.37 766.14 466.1 683.86 934.46 1001.8 1013 991.22 919.63 1068.9 TRUE FALSE FALSE 863.5580817 790.9634387 529.6176807 697.0970992 862.8618767 916.441004 899.0145739 965.8660277 913.23022 1114.98551 0.774501618 0.709393469 0.474999608 0.625207317 0.773877211 0.821930864 0.806301576 0.866258816 0.8190512 1 10.12280925 -8.647168459 0.851357696 0.983539695 0.726472209 0.224790912 0.118192935 0.399521457 0.583441688 0.054290366 0.025119469 2.25E-09 8.647168459 -0.257067487 S(ph)KSDGEAKPEPSPSPR ddPTM_HeLa_SAHA_4h_R1 1 SKSDGEAKPEPSPSPR 16 2 P26358;K7ERQ1;K7ENQ6;K7EJL0 P26358 DNMT1 DNA (cytosine-5)-methyltransferase 1 1 0 S(0.77)KS(0.23)DGEAKPEPSPSPR 101.72 0.0024228 6501200 868.32 678.56 475.97 718.6 1018.1 1358.1 1154.6 1521.6 1335.5 1013.7 TRUE FALSE FALSE 959.6538816 700.5457892 540.8327129 732.5095421 940.0933979 1242.38224 1024.681369 1482.679675 1326.206147 1057.405568 0.907555162 0.662513808 0.511471406 0.692742278 0.889056599 1.17493446 0.969052368 1.40218637 1.254207645 1 10.04631311 -5.273513277 7.674644938 0.874273191 1.16111392 0.331305419 0.21588804 0.153115428 63.51236803 0.029689787 0.069317762 5.33E-06 5.273513277 0.28684073 S(ph)KSEEAHAEDSVMDHHFR ddPTM_HeLa_SAHA_4h_R1 2 SKSEEAHAEDSVMDHHFR 18 1 Q8NC51-2;Q8NC51;Q8NC51-4;Q8NC51-3 Q8NC51-2 SERBP1 Plasminogen activator inhibitor 1 RNA-binding protein 1 0 S(0.5)KS(0.5)EEAHAEDSVMDHHFR;S(0.5)KS(0.5)EEAHAEDSVMDHHFR ; 114.01 0.00030605 51091000 3573.3 3878.2 3470.2 4480.5 6951.4 2938.8 7142.9 6323.1 6185.2 5115.9 TRUE FALSE FALSE 3949.156089 4003.856225 3943.100784 4567.226556 6418.785234 2688.397707 6339.162093 6161.364258 6142.15669 5336.471486 0.74003133 0.750281574 0.738896628 0.855851393 1.202814491 0.503778145 1.187893931 1.154576441 1.15097714 1 12.38167042 S(ph)KSEQYDLDSLCAGMEQSLR ddPTM_HeLa_SAHA_4h_R1 1 SKSEQYDLDSLCAGMEQSLR 20 1 Q9NRM7 Q9NRM7 LATS2 Serine/threonine-protein kinase LATS2 1 0 S(0.436)KS(0.436)EQY(0.129)DLDSLCAGMEQSLR 63.639 0.0067658 4368700 818.39 887.55 930.55 1031.6 1296.1 1171.3 1067.3 808.83 934.59 1052.8 TRUE FALSE FALSE 904.4720151 916.3072023 1057.360508 1051.56811 1196.793098 1071.49865 947.204595 788.1412998 928.0861121 1098.19136 0.823601467 0.834378448 0.962819911 0.957545422 1.08978557 0.975693936 0.862513246 0.7176721 0.845104183 1 10.10091375 S(ph)KSISSSNPDLAVAPGSVDDEVSR ddPTM_HeLa_SAHA_4h_R1 1 SKSISSSNPDLAVAPGSVDDEVSR 24 1 K7EKT0;K7EP20;K7ESB7;Q96HP0 K7EKT0 DOCK6 Dedicator of cytokinesis protein 6 1 0 S(0.389)KS(0.389)IS(0.158)S(0.046)S(0.019)NPDLAVAPGSVDDEVSR 81.406 0.00016187 5877600 982.01 1103.6 1253.9 648.43 1142.2 1406.7 1213.1 1097.2 852.9 1172.7 TRUE FALSE FALSE 1085.302317 1139.357364 1424.774962 660.9813003 1054.684883 1286.841246 1076.598795 1069.135213 846.9645995 1223.260836 0.887220685 0.931409991 1.164735206 0.540343712 0.862191326 1.051976167 0.880105668 0.874004285 0.692382666 1 10.25651635 S(ph)KSLCHDEIENLLDSDHR ddPTM_HeLa_SAHA_4h_R1 1 SKSLCHDEIENLLDSDHR 18 1 G8JLH2;B4DIG0;P30305-3;P30305-2;P30305;P30305-4 G8JLH2 CDC25B M-phase inducer phosphatase 2 1 0 S(0.5)KS(0.5)LCHDEIENLLDSDHR 56.339 0.013068 4739700 1214 1974.7 1115.1 1759 2544.8 4547 2443.3 2684.3 2702.2 2610.3 TRUE FALSE FALSE 1341.69409 2038.681576 1267.060021 1793.047989 2349.817974 4159.570019 2168.373454 2615.639493 2683.39517 2722.842807 0.492754883 0.748732747 0.465344535 0.658520567 0.863001701 1.527657053 0.796363803 0.960628166 0.985512334 1 11.41089798 -5.514300734 24.26718169 0.724459594 1.086747471 0.326308719 0.237584909 270.0976951 764104.0083 0.037798967 0.078798857 3.06E-06 5.514300734 0.362287877 S(ph)KSPASVNGTPSSQLSTPK ddPTM_HeLa_SAHA_4h_R1 1 SKSPASVNGTPSSQLSTPK 19 1 G5E9L9;Q8N568-2;Q8N568 G5E9L9 DCLK2 Serine/threonine-protein kinase DCLK2 1 0 S(0.492)KS(0.492)PAS(0.016)VNGTPSSQLSTPK 92.39 0.0011423 4548900 1950.4 1719.7 1653.1 2049.4 2115.1 2271.8 2287.6 2293 2071.6 1902.5 TRUE FALSE FALSE 2155.552021 1775.419408 1878.375859 2089.0691 1953.041495 2078.229859 2030.193227 2234.34838 2057.183567 1984.526086 1.086179737 0.894631429 0.946511045 1.052679083 0.984134958 1.047217204 1.023011611 1.125885115 1.036612006 1 10.95457881 -4.260484783 6.770761861 1.02195721 1.127681429 0.265511605 0.054532773 0.146794564 45.31317009 0.008379737 0.070070513 5.49E-05 4.260484783 0.105724219 S(ph)KSPPKVPIVIQDDS(ph)LPAGPPPQIR ddPTM_HeLa_SAHA_4h_R1 1 SKSPPKVPIVIQDDSLPAGPPPQIR 25 2 Q7Z422-2;Q7Z422-4;Q7Z422-3;Q7Z422-5;Q7Z422 Q7Z422-2 SZRD1 SUZ domain-containing protein 1 2 0 S(0.518)KS(0.518)PPKVPIVIQDDS(0.965)LPAGPPPQIR 49.577 0.010749 1376700 209.54 189.34 151.55 0 245.56 303.39 216.49 292.3 194.58 228.29 TRUE FALSE FALSE 231.5803786 195.4747402 172.2024448 0 226.7452459 277.5394652 192.1299754 284.8233892 193.2259019 238.1326991 0.972484583 0.820864757 0.723136492 0 0.95218022 1.165482381 0.806818955 1.19607005 0.811421122 1 7.895621927 -7.245421285 3.849259204 0.9881036 0.792065077 0.017477891 0.314979169 0.488793757 16.22807857 0.054726377 0.065331664 5.68E-08 7.245421285 -0.196038523 S(ph)KSPRDPDANWDSPSR ddPTM_HeLa_SAHA_4h_R1 1 SKSPRDPDANWDSPSR 16 2 Q9UHB7;Q9UHB7-2;Q9UHB7-3 Q9UHB7 AFF4 AF4/FMR2 family member 4 1 0 S(0.5)KS(0.5)PRDPDANWDSPSR 74.649 0.012597 18181000 1616.3 1634.8 1622.3 2105.8 2063.6 2019.8 1952.2 2188.8 1876.8 1480.8 TRUE FALSE FALSE 1786.30985 1687.768593 1843.378595 2146.560804 1905.487414 1847.701677 1732.533318 2132.813665 1863.739196 1544.644535 1.156453676 1.092658249 1.193399875 1.389679474 1.233609009 1.19619863 1.121638849 1.380779602 1.20658129 1 10.59305916 -8.233743543 0.341944798 0.966154902 1.265777633 0.146338595 0.105087682 0.968719691 0.271478195 0.116781642 0.052959315 5.84E-09 8.233743543 0.299622731 S(ph)KSVPGLNVDMEEEEEEEDIDHLVK ddPTM_HeLa_SAHA_4h_R1 1 SKSVPGLNVDMEEEEEEEDIDHLVK 25 1 Q96C24-2;Q96C24 Q96C24-2 SYTL4 Synaptotagmin-like protein 4 1 0 S(0.607)KS(0.393)VPGLNVDMEEEEEEEDIDHLVK 147.23 1.04E-09 6472300 3176.5 3548.8 2841.1 3542.2 3317.2 3631.1 3622.1 4311.5 3478.6 3609.4 TRUE FALSE FALSE 3510.618844 3663.783448 3228.270312 3610.764403 3063.036853 3321.709852 3214.531775 4201.218073 3454.392139 3765.018898 0.932430604 0.973111569 0.85743801 0.959029556 0.813551521 0.882255824 0.853789015 1.115855773 0.917496627 1 11.87844139 -8.525870918 0.566125994 1.000760574 0.911384831 0 0.083700696 1.269330648 0.827027695 0.053433925 0.0206978 2.98E-09 8.525870918 -0.089375743 S(ph)KTFNPGAGLPTDK ddPTM_HeLa_SAHA_4h_R1 1 SKTFNPGAGLPTDK 14 1 H0YMA0;P09661;H0YLR3 H0YMA0 SNRPA1 U2 small nuclear ribonucleoprotein A 1 0 S(0.5)KT(0.5)FNPGAGLPTDK 77.39 0.011493 4111200 1934.7 1700.1 1642.8 2102.1 2448 2795 2078.7 2505.7 2028.2 2052.2 TRUE FALSE FALSE 2138.200623 1755.184355 1866.672229 2142.789185 2260.434769 2556.850276 1844.799205 2441.607822 2014.085591 2140.680385 0.998841601 0.819918923 0.871999501 1.000985107 1.055942206 1.194410101 0.861781711 1.140575603 0.940862356 1 11.06385369 -5.857973377 4.538277264 0.973108413 1.058031265 0.233799935 0.100104944 0.339920658 12.30007195 0.014889122 0.027795007 1.39E-06 5.857973377 0.084922852 S(ph)KTMIFYAK ddPTM_HeLa_SAHA_4h_R1 1 SKTMIFYAK 9 1 J3KSU3;F8W7A7;Q5BJE1-3;Q5BJE1-2;Q5BJE1-4;Q5BJE1 J3KSU3 CCDC178 Coiled-coil domain-containing protein 178 1 0 S(0.668)KT(0.332)MIFYAK 95.099 0.0047775 0 972.12 1238.9 931.33 1264.7 1420.6 1816.4 2087 2402.4 1623.3 2079.2 TRUE FALSE FALSE 1074.372042 1279.041173 1058.246802 1289.180097 1311.753935 1661.632501 1852.165267 2340.950087 1612.003323 2168.844487 0.495366103 0.589733925 0.487931158 0.59440873 0.604816962 0.766137227 0.853987125 1.079353591 0.743254453 1 11.0827109 -4.388760855 1.784412326 0.700852876 1.146178278 0.434811153 0.146253748 0.802995467 3.095837153 0.03123729 0.550151409 4.09E-05 4.388760855 0.445325402 S(ph)KTPPPPPQTAQTK ddPTM_HeLa_SAHA_4h_R1 1 SKTPPPPPQTAQTK 14 1 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 S(0.673)KT(0.327)PPPPPQTAQTK 149.99 4.63E-05 17497000 3007.2 3160.4 2783.7 2907 3220.6 3699.2 3683.6 3298.3 3701.9 2425.9 TRUE FALSE FALSE 3323.511094 3262.799034 3163.048139 2963.269189 2973.838324 3384.007349 3269.111633 3213.934262 3676.138176 2530.492421 1.313385121 1.289392929 1.24997337 1.171024724 1.175201435 1.337292031 1.291887542 1.270082548 1.452736292 1 11.30520244 -9.313711542 0.926153573 0.992151837 1.263404482 0 0.148876148 0.238287942 0.349384878 0.045139172 0.010724986 4.86E-10 9.313711542 0.271252646 S(ph)KTPPPPPQTAQTKR ddPTM_HeLa_SAHA_4h_R1 1 SKTPPPPPQTAQTKR 15 2 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 S(0.5)KT(0.5)PPPPPQTAQTKR 54.598 0.019864 8019300 1952.3 1088.5 1926.6 1524.5 1210.4 1335.7 1601 1514.5 680.36 1095.5 TRUE FALSE FALSE 2157.651871 1123.768114 2189.147015 1554.008902 1117.659413 1221.890846 1420.851266 1475.761283 675.6253194 1142.732366 1.888151535 0.983404468 1.915712794 1.359906263 0.978058771 1.069271232 1.24338061 1.291432121 0.591236705 1 10.15827184 -5.954430186 10.29295944 1.433504031 1.149398695 0 0.400493386 0.826856956 181.3289122 0.056014058 0.101560785 1.11E-06 5.954430186 -0.284105336 S(ph)KVGSTENIK ddPTM_HeLa_SAHA_4h_R1 1 SKVGSTENIK 10 1 E7EVA0;P27816;P27816-6;P27816-2;P27816-5;H0Y2V1;H7C4C5;F8W9U4 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 S(0.871)KVGS(0.119)T(0.011)ENIK 134.49 0.0061728 106740000 1672 1481.9 1051.7 1724.8 1589 1611.1 1904.2 1901 1637.2 1234 TRUE FALSE FALSE 1847.868631 1529.914532 1195.020199 1758.185998 1467.251163 1473.825216 1689.934404 1852.375173 1625.806592 1287.203779 1.43556806 1.188556588 0.928384626 1.365895616 1.13987481 1.144982046 1.31287247 1.439069091 1.263052998 1 10.33002475 -9.631296827 1.462986013 1.000496781 1.261751831 0 0.168204045 0.444539456 1.71466875 0.112014345 0.025733603 2.34E-10 9.631296827 0.26125505 S(ph)LAS(ph)SHSRSRSPSSRS(ph)HS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SLASSHSRSRSPSSRSHSR 19 3 A0A087WYW3;P30414 A0A087WYW3 NKTR NK-tumor recognition protein;Putative peptidyl-prolyl cis-trans isomerase 4 0 S(0.871)LAS(0.563)S(0.563)HS(0.003)RS(0.001)RS(0.012)PS(0.268)S(0.268)RS(0.585)HS(0.866)R 66.939 0.011456 6482000 1846 1829.2 1643.4 2118 1758.1 2290.5 2078.5 2196.9 2291.2 1969.2 TRUE FALSE FALSE 2040.17075 1888.46728 1867.353994 2158.996953 1623.394758 2095.336514 1844.62171 2140.706479 2275.255353 2054.101849 0.993217912 0.919363994 0.909085396 1.051066165 0.790318532 1.020074304 0.898018621 1.042161799 1.107664332 1 11.004292 -7.338367785 7.580366572 0.99692326 0.944611011 0.148351534 0.081672022 0.471996124 41.63242317 0.011241722 0.012832265 4.59E-08 7.338367785 -0.052312248 S(ph)LASIEAK ddPTM_HeLa_SAHA_4h_R1 1 SLASIEAK 8 0 E9PHV5;P28290-3;P28290;P28290-2;E7EUL7 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 S(0.992)LAS(0.008)IEAK 118.71 0.0037979 33822000 4000.7 5764.2 5100.4 2924.7 4798.5 5547 6829.8 5311.5 4132.5 4649.7 TRUE FALSE FALSE 4421.511982 5950.963862 5795.45595 2981.311798 4430.839967 5074.364393 6061.292929 5175.639521 4103.741596 4850.171322 0.911619753 1.226959517 1.194897162 0.61468175 0.913542981 1.046223743 1.249706975 1.067104475 0.8461024 1 12.24381999 -4.977594052 6.535219192 0.967584364 1.157592296 0.18343377 0.167947725 0.210576087 33.13961666 0.022963102 0.068399617 1.05E-05 4.977594052 0.190007932 S(ph)LDAPS(ph)WPGVY(ph)RLSMSLMEQLLK ddPTM_HeLa_SAHA_4h_R1 1 SLDAPSWPGVYRLSMSLMEQLLK 23 1 Q5SRE5-2;Q5SRE5 Q5SRE5-2 NUP188 Nucleoporin NUP188 homolog 3 0 S(0.981)LDAPS(0.981)WPGVY(0.88)RLS(0.133)MS(0.024)LMEQLLK 46.027 0.0081309 0 843.52 1155.4 900.94 977.64 1194.2 1246.9 1047.4 789.27 1052 1070.9 TRUE FALSE FALSE 932.2453038 1192.835718 1023.715411 996.5636359 1102.700654 1140.657105 929.5437954 769.0816162 1044.679046 1117.07174 0.834543808 1.067823736 0.916427634 0.892121428 0.987135038 1.021113564 0.832125424 0.688480058 0.935194231 1 10.12550613 -4.449633074 3.498470633 0.938180522 0.694912272 0.606735955 0.066534699 0.161671631 3.504618945 0.010969094 0.07694329 3.55E-05 4.449633074 -0.24326825 S(ph)LDFFR ddPTM_HeLa_SAHA_4h_R1 1 SLDFFR 6 0 Q6P3S1 Q6P3S1 DENND1B DENN domain-containing protein 1B 1 0 S(1)LDFFR 93.429 0.022862 1157800 600.43 380.25 439.7 702.17 564.31 514.2 407.5 670.61 640.67 718.31 TRUE FALSE FALSE 663.5859823 392.5703495 499.6200261 715.7615157 521.0726897 470.3872672 361.6470275 653.4567672 636.2115253 749.2798594 0.885631682 0.523930204 0.666800288 0.955265922 0.695431331 0.627785815 0.48265948 0.872113082 0.849097326 1 9.549360862 -7.456264702 5.296794409 0.950983302 0.688210037 0.349150103 0.138524848 0.149175754 7.754656 0.023817882 0.026781308 3.50E-08 7.456264702 -0.262773265 S(ph)LDGAAAVDSADR ddPTM_HeLa_SAHA_4h_R1 1 SLDGAAAVDSADR 13 0 P11171;P11171-2;P11171-4;P11171-7;P11171-3;A0A2R8Y5Z6;A0A2R8Y420;A0A2R8Y5G2;A0A2R8YD30;Q4VB86;A0A2R8YCW8;A0A2R8Y6G5;A0A2U3TZH6;A0A3B3IU06;A0A2R8Y570;A0A3B3IUD6;A0A2R8Y4N6;A0A2R8YFR9;A0A2R8Y7Y3;A0A2R8Y7N0;A0A3B3ITP0;P11171-5;P11171-6 P11171 EPB41 Protein 4.1 1 0 S(1)LDGAAAVDSADR 177.36 1.20E-05 5021900 875.46 852.7 659.02 762.15 920.6 956.35 1002 995.51 1063.4 772.1 TRUE FALSE FALSE 967.5448996 880.3280395 748.8278136 776.9025153 850.0638269 874.8635997 889.2523229 970.0462957 1055.999713 805.3890096 1.201338593 1.093046998 0.929771582 0.964630143 1.055469862 1.086262153 1.10412771 1.204444416 1.311167275 1 9.653541975 -9.812541945 1.84524508 0.999725033 1.096815707 0 0.128059039 0.6392748 3.942908189 0.073025691 0.015137203 1.54E-10 9.812541945 0.097090674 S(ph)LDGLSEACGGAGSSGSAESGAGGGRR ddPTM_HeLa_SAHA_4h_R1 1 SLDGLSEACGGAGSSGSAESGAGGGRR 27 1 Q96GS4 Q96GS4 C17orf59 Uncharacterized protein C17orf59 1 0 S(0.999)LDGLS(0.001)EACGGAGSSGSAESGAGGGRR 106.36 4.72E-07 3591500 73.81 196.28 225.93 232.73 305.06 327.32 232.97 162.47 290.82 212.65 TRUE FALSE FALSE 81.57367445 202.6396008 256.7185638 237.2348257 281.6863687 299.4304945 206.7556025 158.3142527 288.7961599 221.8183822 0.36774984 0.913538359 1.157336742 1.069500297 1.269896417 1.349890354 0.932094087 0.71371115 1.301948725 1 7.793235117 -7.007543614 10.706377 0.698221086 1.09051916 0 0.289172905 0.234423286 311.7226934 0.046859605 0.059664954 9.83E-08 7.007543614 0.392298074 S(ph)LDGSGSEPAVCEMCGIVGTR ddPTM_HeLa_SAHA_4h_R1 1 SLDGSGSEPAVCEMCGIVGTR 21 0 H7C228;Q969R5-2;Q969R5-3;Q969R5 H7C228 L3MBTL2 Lethal(3)malignant brain tumor-like protein 2 1 0 S(1)LDGSGSEPAVCEMCGIVGTR 148.69 5.19E-06 3566600 71.441 0 0 54.894 116.16 114.45 0 114.69 0 0 TRUE FALSE FALSE 78.95549216 0 0 55.95655275 107.2598459 104.6982161 0 111.7563959 0 0 0 S(ph)LDNNYSTPNER ddPTM_HeLa_SAHA_4h_R1 2 SLDNNYSTPNER 12 0 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-9;O60716-17;O60716-11;O60716-13;O60716-19;O60716-21;O60716-25;O60716-26;O60716-27;O60716-29;H0YC95 O60716 CTNND1 Catenin delta-1 1 0 S(1)LDNNYSTPNER;S(1)LDNNYSTPNER ; 142.95 0.00056398 8578400 875.06 842.97 797.48 1079.45 1157.74 1342.21 1083.14 1255.37 1210.96 1037.19 TRUE FALSE FALSE 967.1028257 870.2827811 906.1564213 1100.344316 1069.034211 1227.846157 961.2622365 1223.259453 1202.532831 1081.908337 0.893886102 0.804396039 0.837553784 1.017040241 0.98810054 1.134889265 0.888487688 1.130649808 1.111492342 1 10.07936256 -6.068391402 13.0453932 0.927699792 1.028437795 0.19780822 0.10318569 1.892723395 359.7700755 0.013708175 0.022738134 8.54E-07 6.068391402 0.100738002 S(ph)LDYLNLDK ddPTM_HeLa_SAHA_4h_R1 2 SLDYLNLDK 9 0 Q96GV9 Q96GV9 C5orf30 UNC119-binding protein C5orf30 1 0 S(1)LDYLNLDK;S(0.999)LDY(0.001)LNLDK ; 136.38 0.001416 22463000 2784.4 2902.4 2423.45 2778.6 2540.5 2690.3 2438.1 2370.7 2843.4 2975.3 TRUE FALSE FALSE 3077.275967 2996.439664 2753.705145 2832.383821 2345.847439 2461.071305 2163.758571 2310.060927 2823.612548 3103.579744 0.991524698 0.965478548 0.887267405 0.912618349 0.755852155 0.792978273 0.697181561 0.744321434 0.909792169 1 11.5997175 -5.961158986 0.771846204 0.998842607 0.712996219 0.841350003 0.041569586 0.10634531 0.119209978 0.005103209 0.01593936 1.09E-06 5.961158986 -0.285846388 S(ph)LEDVTAEYIHK ddPTM_HeLa_SAHA_4h_R1 1 SLEDVTAEYIHK 12 0 Q9P0K7-3;Q9P0K7;Q9P0K7-2;Q9P0K7-4 Q9P0K7-3 RAI14 Ankycorbin 1 0 S(1)LEDVTAEYIHK 95.631 0.0091291 4222600 634.79 709.47 620.25 539.59 581.58 652.4 733.05 524.49 653.51 709.86 TRUE FALSE FALSE 701.5601247 732.4572935 704.7744399 550.0345447 537.019466 596.8118497 650.5652847 511.0743053 648.9621707 740.4655386 0.947458171 0.989184851 0.951799109 0.742822611 0.725245725 0.805995443 0.878589551 0.69020674 0.876424542 1 9.532288784 -6.313878107 5.63696296 0.974918842 0.774367639 0.708609145 0.058291484 0.068638231 5.033682764 0.007681656 0.011887598 4.85E-07 6.313878107 -0.200551203 S(ph)LEEDLETLK ddPTM_HeLa_SAHA_4h_R1 4 SLEEDLETLK 10 0 P48681 P48681 NES Nestin 1 0 S(1)LEEDLETLK;S(1)LEEDLETLK;S(1)LEEDLETLK;S(1)LEEDLETLK ;;; 224.66 2.44E-17 25046300 2860.79 3916.7 3132.94 3816.57 4132.48 5303.52 4181.25 3608.41 5534.88 4278.29 TRUE FALSE FALSE 3161.701018 4043.60365 3559.880748 3890.445231 3815.850275 4851.630259 3710.764746 3516.112097 5496.362319 4462.748019 0.708465054 0.906079311 0.797688046 0.871760004 0.855044976 1.087139636 0.831497707 0.78788049 1.23160938 1 12.12371663 -4.527161836 24.99599748 0.873357174 0.798784702 0 0.149842833 277.1504464 1617459.482 0.017276887 0.065193289 2.97E-05 4.527161836 -0.074572472 S(ph)LEEEGQELPQSADVQR ddPTM_HeLa_SAHA_4h_R1 2 SLEEEGQELPQSADVQR 17 0 P48681 P48681 NES Nestin 1 0 S(1)LEEEGQELPQSADVQR;S(1)LEEEGQELPQSADVQR ; 214.81 1.02E-20 7701900 264.88 210.74 170.32 440.04 262.329 104.69 346.35 203.01 417.32 386.04 TRUE FALSE FALSE 292.7412937 217.5681143 193.5303226 448.5576105 242.2294087 95.76982303 307.3777865 197.8172982 414.4158361 402.6840736 0.726975098 0.540294808 0.480600886 1.113919422 0.601537097 0.237828683 0.763322432 0.491246888 1.029133912 1 8.653504604 -12.77849413 0.12981887 2.13889016 0.432816455 0.369638523 0.212282582 56.26224069 0.62554591 17.07410767 0.837489158 1.67E-13 12.77849413 -1.706073705 S(ph)LEEMSLR ddPTM_HeLa_SAHA_4h_R1 2 SLEEMSLR 8 0 Q92614;A0A0D9SFK2;Q92614-3;Q92614-4 Q92614 MYO18A Unconventional myosin-XVIIIa 1 0 S(1)LEEMSLR;S(1)LEEMSLR ; 120.45 0.0035162 4988700 858.81 581.48 470.72 842.58 841.81 891.75 764.57 821.71 849.51 756.85 TRUE FALSE FALSE 949.1435762 600.3203335 534.8672702 858.8893543 777.3106997 815.7678832 678.5385714 800.691848 843.5981907 789.4815074 1.202236616 0.760398221 0.677491829 1.087915735 0.984583796 1.033295746 0.859473674 1.014199624 1.06854712 1 9.624761663 -7.271978703 24.97390156 1.095500622 0.919032176 0.278781358 0.127759472 721.9679066 1710766.059 0.024245965 0.027880046 5.35E-08 7.271978703 -0.176468446 S(ph)LEGGGCPAR ddPTM_HeLa_SAHA_4h_R1 2 SLEGGGCPAR 10 0 Q9Y613 Q9Y613 FHOD1 FH1/FH2 domain-containing protein 1 1 0 S(1)LEGGGCPAR;S(1)LEGGGCPAR ; 96.229 0.013358 75268000 776.76 857.29 754.11 997.99 1265.88 1083.28 907.55 894.96 1071.45 890.86 TRUE FALSE FALSE 858.4631807 885.0667585 856.8761836 1017.30754 1168.888548 990.9784496 805.4300855 872.0682191 1063.993692 929.2693344 0.923804487 0.952432977 0.922096697 1.09473917 1.257857657 1.06640606 0.866734816 0.938445063 1.144978805 1 9.85995299 -6.26526144 24.8373847 0.959193245 1.047974823 0.0261433 0.114139308 473.0016578 3073762.215 0.016491581 0.025819785 5.43E-07 6.26526144 0.088781578 S(ph)LELNGAVEPSEGAPR ddPTM_HeLa_SAHA_4h_R1 2 SLELNGAVEPSEGAPR 16 0 M0R2A7;M0QYS2;M0R0P4;R4GN16;F5GYK2;Q9NRL3-2;Q9NRL3;Q9NRL3-3 M0R2A7 STRN4 Striatin-4 1 0 S(1)LELNGAVEPSEGAPR;S(1)LELNGAVEPSEGAPR ; 181.72 1.46E-09 14592600 709.25 618.53 711.56 620.31 860.38 889.97 797.61 800.93 877.25 886.77 TRUE FALSE FALSE 783.8521692 638.5707778 808.5276912 632.316997 794.4578703 814.1395492 707.8608236 780.4433703 871.1451458 925.0029944 0.847405007 0.690344552 0.874081161 0.68358373 0.858870593 0.880148015 0.765252467 0.843719831 0.941775487 1 9.853314226 -8.573822575 0.789515644 0.990407126 0.802184341 0.468010792 0.0698011 0.321507532 0.408710257 0.030795688 0.01438606 2.67E-09 8.573822575 -0.188222785 S(ph)LELSSLAGPGEDPLSADSLGKPTR ddPTM_HeLa_SAHA_4h_R1 2 SLELSSLAGPGEDPLSADSLGKPTR 25 1 G5E953;Q13615-3;Q13615-2;Q13615 G5E953 MTMR3 Myotubularin-related protein 3 1 0 S(0.995)LELS(0.002)S(0.003)LAGPGEDPLSADSLGKPTR;S(1)LELSSLAGPGEDPLSADSLGKPTR ; 218.04 9.63E-33 15529600 1610.22 1221.07 1241.32 1685.17 1941.85 1891.13 1602.57 1570.6 1918.92 1245.23 TRUE FALSE FALSE 1779.590328 1260.633469 1410.480625 1717.788902 1793.065873 1729.995085 1422.244606 1530.426326 1905.566079 1298.917959 1.370055988 0.97052586 1.085888924 1.322476828 1.380430426 1.331874021 1.094945678 1.178231708 1.467041137 1 10.3430946 -6.258519954 24.89102289 1.154563136 1.262840338 0.051221384 0.16249681 506.1183299 4315159.415 0.025866238 0.04166485 5.51E-07 6.258519954 0.108277202 S(ph)LEQEEPFDLSQKR ddPTM_HeLa_SAHA_4h_R1 1 SLEQEEPFDLSQKR 14 1 Q8N895 Q8N895 ZNF366 Zinc finger protein 366 1 0 S(1)LEQEEPFDLSQKR 88.021 0.0055176 13918000 1737 1481 1517.4 1343.1 1511.3 1647.8 1648.6 1706.8 1098.1 1400.6 TRUE FALSE FALSE 1919.70563 1528.985372 1724.18337 1369.097643 1395.504521 1507.39817 1463.095189 1663.142527 1090.458233 1460.98672 1.313978836 1.046542963 1.180149926 0.937104782 0.955179469 1.031767195 1.001443181 1.138369367 0.746384767 1 10.51272735 -6.271523617 24.71827892 1.144960017 1.009998989 0 0.156432736 725.9859704 1779520.72 0.019613964 0.030178441 5.35E-07 6.271523617 -0.134961027 S(ph)LES(ph)PRS(ph)ALDVASQS(ph)MLLR ddPTM_HeLa_SAHA_4h_R1 1 SLESPRSALDVASQSMLLR 19 1 A0A3B3ISZ2 A0A3B3ISZ2 4 0 S(0.999)LES(0.999)PRS(0.998)ALDVAS(0.012)QS(0.991)MLLR 50.992 0.012996 3989100 786.61 1056.6 1882 1855.5 2323 1174.7 1448.1 2469.1 3168.5 729.32 TRUE FALSE FALSE 869.3492489 1090.834533 2138.469159 1891.415886 2145.012242 1074.608951 1285.155977 2405.943997 3146.450151 760.7645544 1.142731012 1.433866138 2.810947417 2.48620401 2.819548084 1.412538143 1.689295288 3.1625343 4.135905297 1 9.571306219 -6.923797578 5.000469995 1.076808806 2.340079526 0 1.086894803 0.106831467 4.897238828 0.080603092 0.106386008 1.19E-07 6.923797578 1.26327072 S(ph)LESCLLDLR ddPTM_HeLa_SAHA_4h_R1 4 SLESCLLDLR 10 0 J3KPS2;A0A494C1T9;Q6ZRV2 J3KPS2 FAM83H Protein FAM83H 1 0 S(0.991)LES(0.009)CLLDLR;S(1)LESCLLDLR;S(0.997)LES(0.003)CLLDLR;S(0.994)LES(0.006)CLLDLR ;;; 196.67 1.29E-07 15836600 2582.38 2146.5 2495.04 2424.55 2651.71 3236.54 2781.84 2645.56 2569.22 2285.74 TRUE FALSE FALSE 2854.006577 2216.048008 2835.051058 2471.480671 2448.536553 2960.768584 2468.820042 2577.890406 2551.340589 2384.289438 1.197005083 0.929437498 1.189054908 1.036569064 1.026946022 1.241782368 1.035453164 1.081198602 1.070063285 1 11.21934367 S(ph)LESINSR ddPTM_HeLa_SAHA_4h_R1 5 SLESINSR 8 0 E5RI99;P62888;E5RJH3;A0A0C4DH44 E5RI99 RPL30 60S ribosomal protein L30 1 0 S(1)LESINSR;S(1)LESINSR;S(1)LESINSR;S(1)LESINSR;S(0.999)LES(0.001)INSR ;;;; 140.78 0.00081448 224127700 8858.77 8139.43 8153.56 8979.01 9506.57 9470.22 10196.59 8781.63 9048.83 8132.47 TRUE FALSE FALSE 9790.576074 8403.152872 9264.684695 9152.811722 8778.17866 8663.303978 9049.242857 8557.00862 8985.858455 8483.100581 1.154127077 0.99057565 1.09213425 1.078946505 1.034784225 1.021242634 1.066737659 1.008712385 1.059265816 1 13.05037595 -5.75074565 22.87015246 1.069624301 1.034457896 0.079356688 0.045626107 175.9776491 376346.3885 0.008949273 0.017721568 1.78E-06 5.75074565 -0.035166406 S(ph)LESLR ddPTM_HeLa_SAHA_4h_R1 1 SLESLR 6 0 Q5VT97-2;Q5VT97 Q5VT97-2 SYDE2 Rho GTPase-activating protein SYDE2 1 0 S(1)LESLR 126.28 0.0024088 2416900 934.15 915.47 920.13 1150.4 1056.4 845.74 1090.1 936.93 708.48 776.98 TRUE FALSE FALSE 1032.408183 945.1318287 1045.520525 1172.667656 975.4588602 773.678194 967.439079 912.9646873 703.54963 810.4794102 1.273824072 1.166139222 1.290002573 1.446881489 1.203557855 0.954593274 1.193662747 1.126450192 0.868066013 1 9.662631725 -3.224782421 14.0340239 1.161367696 1.173316392 0 0.164194259 0 0 0.020932182 0 0.000595961 3.224782421 0.011948696 S(ph)LEVIPEKANDETGE ddPTM_HeLa_SAHA_4h_R1 2 SLEVIPEKANDETGE 15 1 Q9UPR0;Q9UPR0-3 Q9UPR0 PLCL2 Inactive phospholipase C-like protein 2 1 0 S(1)LEVIPEKANDETGE;S(1)LEVIPEKANDETGE ; 110.35 0.0092915 14981400 2359.3 2493.3 2323.52 2475.1 2643.5 2951.4 2753.1 2671.49 2640.1 2155.47 TRUE FALSE FALSE 2607.461999 2574.084556 2640.157205 2523.00914 2440.955601 2699.924116 2443.313942 2603.157154 2621.727329 2248.40286 1.159695197 1.144850241 1.174236722 1.122133931 1.085639786 1.200818663 1.086688683 1.157780574 1.166039848 1 11.13468484 -9.253251808 0.86674276 0.995281159 1.141285449 0 0.061291866 0.269154696 0.344857568 0.026112842 0.00632102 5.58E-10 9.253251808 0.14600429 S(ph)LGEEIQESLK ddPTM_HeLa_SAHA_4h_R1 2 SLGEEIQESLK 11 0 P48681 P48681 NES Nestin 1 0 S(1)LGEEIQESLK;S(1)LGEEIQESLK ; 133.04 0.0012005 5883900 1559.02 1702.12 1363.66 1930.32 2046.89 2111.11 2055.53 1337.99 2155 1517.67 TRUE FALSE FALSE 1723.004877 1757.269805 1549.492483 1967.684135 1890.05773 1931.231551 1824.236355 1303.766153 2140.00318 1583.104181 1.088371124 1.110015264 0.978768486 1.242927761 1.193893461 1.219901744 1.152316049 0.823550445 1.351776595 1 10.62854048 -8.508589745 0.55726989 0.998596816 1.118149448 0 0.160422745 1.487102547 0.943931192 0.083115255 0.032456987 3.10E-09 8.508589745 0.119552632 S(ph)LGEQDQMTLRPPEK ddPTM_HeLa_SAHA_4h_R1 1 SLGEQDQMTLRPPEK 15 1 P48681 P48681 NES Nestin 1 0 S(1)LGEQDQMTLRPPEK 102.39 0.016137 8294100 364.44 387.19 321.91 415.61 496.52 615.36 627.08 501.45 705.26 480.36 TRUE FALSE FALSE 402.7734713 399.73521 365.7782184 423.6547325 458.4767449 562.9278661 556.519308 488.6236351 700.3520382 501.0706704 0.803825678 0.797762139 0.729993272 0.845498964 0.914994175 1.123450043 1.110660314 0.975159122 1.397711101 1 8.968870284 -5.371802456 4.906177007 0.877629598 1.072947802 0.073736963 0.182760723 0.168666632 6.205142011 0.015186909 0.034798134 4.25E-06 5.371802456 0.195318204 S(ph)LGLDINMDSR ddPTM_HeLa_SAHA_4h_R1 1 SLGLDINMDSR 11 0 Q96H22-5;Q96H22-4;Q96H22;Q96H22-3 Q96H22-5 CENPN Centromere protein N 1 0 S(1)LGLDINMDSR 94.023 0.012334 1802000 354.88 379.23 396.76 299.59 388.44 554.71 497.51 308.06 454.37 391.56 TRUE FALSE FALSE 392.2079066 391.5173008 450.8283866 305.3889977 358.6778111 507.4455873 441.5288654 300.1802713 451.2080022 408.4420678 0.960253455 0.958562625 1.103775595 0.747692321 0.878160795 1.242393052 1.081007321 0.734939652 1.104705019 1 8.673987655 -3.268090287 0.003481017 1.920948678 4.40E-05 0.020436426 0.151901088 619866.2079 260.6483708 69586.34475 74313.66126 0.000539398 3.268090287 -1.920904652 S(ph)LGPGAGPR ddPTM_HeLa_SAHA_4h_R1 2 SLGPGAGPR 9 0 H3BUV2;P78549-3;P78549-2;P78549 H3BUV2 NTHL1 Endonuclease III-like protein 1 1 0 S(1)LGPGAGPR;S(1)LGPGAGPR ; 99.973 0.01074 18525500 2134.1 2622.2 1747.37 1839.83 2308.9 2661.8 2616.4 1995.38 2974.1 2246.81 TRUE FALSE FALSE 2358.57443 2707.161 1985.492484 1875.44257 2131.992581 2434.999665 2321.995786 1944.341069 2953.402996 2343.680975 1.006354728 1.155089378 0.847168409 0.800212397 0.909676959 1.038963789 0.99074738 0.829609955 1.260155724 1 11.19456049 -6.727825825 24.99993691 1.014491482 0.908578981 0.341590295 0.112204604 190.3491424 141571.0038 0.013216112 0.01868983 1.87E-07 6.727825825 -0.105912501 S(ph)LGSAGPSGTLPR ddPTM_HeLa_SAHA_4h_R1 2 SLGSAGPSGTLPR 13 0 Q8WUF5 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 S(1)LGSAGPSGTLPR;S(1)LGSAGPSGTLPR ; 151.99 0.00014561 18278600 648.87 657.38 636.7 681.24 926.26 747.96 703.05 914.83 775.53 717.17 TRUE FALSE FALSE 717.1211237 678.6795433 723.4661602 694.4263853 855.2901589 684.2296001 623.9409637 891.4299733 770.1330236 748.0907084 0.958601832 0.907215576 0.967083473 0.928264952 1.143297396 0.914634539 0.83404453 1.191606797 1.029464763 1 9.547069402 S(ph)LHGPCPVTTFGPK ddPTM_HeLa_SAHA_4h_R1 1 SLHGPCPVTTFGPK 14 0 O95544;O95544-2 O95544 NADK NAD kinase 1 0 S(1)LHGPCPVTTFGPK 111.83 0.0019714 2283700 681.21 899.63 633.78 648.92 792.15 430.86 912.68 620.06 748.87 702.71 TRUE FALSE FALSE 752.8627933 928.7786023 720.1482378 661.480785 731.4556381 394.148304 809.9828444 604.199763 743.6585527 733.0072671 1.027087762 1.267079665 0.98245716 0.902420501 0.997883201 0.537714047 1.105013389 0.82427527 1.014530941 1 9.517683691 -6.031949085 1.944483943 1.033773758 0.857300744 0.262221659 0.155100184 0.386083519 2.898139654 0.023012682 0.044758657 9.29E-07 6.031949085 -0.176473013 S(ph)LIAQDHR ddPTM_HeLa_SAHA_4h_R1 2 SLIAQDHR 8 0 O15013-7;O15013-4;O15013-5;O15013-6;O15013;E9PB39;H0YAN8 O15013-7 ARHGEF10 Rho guanine nucleotide exchange factor 10 1 0 S(1)LIAQDHR;S(1)LIAQDHR ; 111.5 0.0046483 15015000 2046.09 2955.2 2311.7 1623.85 3083 3254.2 2610.6 1796.79 1895.91 2863.8 TRUE FALSE FALSE 2261.307134 3050.950419 2626.726437 1655.281965 2846.781206 2976.923852 2316.848417 1750.830714 1882.716208 2987.272433 0.756980552 1.021316431 0.879305954 0.554111485 0.952970065 0.996535776 0.775573192 0.586096766 0.630245902 1 11.5446131 -13.52287873 0.31273804 2.768003135 0.803661709 0 0.190504022 65.38309534 0.883313797 73.20833895 0.058592921 3.00E-14 13.52287873 -1.964341426 S(ph)LIVEGK ddPTM_HeLa_SAHA_4h_R1 2 SLIVEGK 7 0 H0Y8X0;B4DFG0;H0Y993;P35659;A0A494C028;D6R9L5;A0A494C198 H0Y8X0 DEK Protein DEK 1 0 S(1)LIVEGK;S(1)LIVEGK ; 113.66 0.0063036 17823200 5788.7 8042.5 4245 7908.9 8540.5 9719.1 7052.2 5610.5 12069.3 7958.3 TRUE FALSE FALSE 6397.582026 8303.082277 4823.486493 8061.988196 7886.128735 8890.978002 6258.667896 5466.991534 11985.30876 8301.42126 0.77066105 1.000200088 0.581043455 0.971157582 0.949973322 1.071018772 0.753927273 0.658560909 1.443765879 1 13.01914264 -9.518405275 1.246979252 1.000764108 0.84368058 0.224012241 0.205951932 0.779588758 2.153108993 0.105007005 0.024730856 3.03E-10 9.518405275 -0.157083528 S(ph)LIYTDTLVR ddPTM_HeLa_SAHA_4h_R1 1 SLIYTDTLVR 10 0 Q5SYE7-2 Q5SYE7-2 NHSL1 NHS-like protein 1 1 0 S(0.998)LIYT(0.002)DTLVR 163.46 0.00017909 4354200 340.88 280.13 308.17 460.73 438.79 398 478.19 303.84 265.59 397.35 TRUE FALSE FALSE 376.7353224 289.2063958 350.1658027 469.6480954 405.170005 364.0881609 424.3828027 296.0682128 263.7417376 414.4817031 0.908931129 0.697754313 0.844828131 1.133097292 0.977534115 0.878417933 1.023887905 0.714309487 0.636316961 1 8.695164606 -7.996398123 0.012362442 1.877333362 2.47E-06 0 0.16510434 2543.43889 18.58769919 1435.504424 1385.312055 1.01E-08 7.996398123 -1.877330888 S(ph)LLDASEEAIK ddPTM_HeLa_SAHA_4h_R1 2 SLLDASEEAIK 11 0 P18206;P18206-2 P18206 VCL Vinculin 1 0 S(1)LLDASEEAIK;S(1)LLDASEEAIK ; 163.99 0.0001674 4077200 1456.73 2386.9 1434.33 1536.31 2368 2827.9 1927.97 1670.45 3048 1998.54 TRUE FALSE FALSE 1609.955545 2464.237126 1629.793023 1566.047502 2186.564352 2586.947011 1711.029741 1627.722308 3026.78872 2084.70684 0.772269517 1.182054512 0.781785233 0.751207542 1.048859393 1.24091645 0.820753167 0.780791945 1.451901371 1 11.0256288 S(ph)LLDASEEAIKK ddPTM_HeLa_SAHA_4h_R1 3 SLLDASEEAIKK 12 1 P18206;P18206-2 P18206 VCL Vinculin 1 0 S(1)LLDASEEAIKK;S(0.999)LLDAS(0.001)EEAIKK;S(1)LLDASEEAIKK ;; 171.99 0.00016464 59215000 3040.61 4209 2990.16 2716.5 4540.35 4538.04 3844.19 2963.91 5282.86 3813.6 TRUE FALSE FALSE 3360.435311 4345.374362 3397.643433 2769.081786 4192.469364 4151.373462 3411.631624 2888.097474 5246.096147 3978.022959 0.844750105 1.092345219 0.854103525 0.696094973 1.053907785 1.043577049 0.857619893 0.726013274 1.318769701 1 11.95783589 -9.54838706 1.234789058 1.001618825 0.896194441 0.177677757 0.162656256 1.054220487 2.805801608 0.096504813 0.021415897 2.83E-10 9.54838706 -0.105424385 S(ph)LLGIDTEDAIQGR ddPTM_HeLa_SAHA_4h_R1 3 SLLGIDTEDAIQGR 14 0 P49454 P49454 CENPF Centromere protein F 1 0 S(1)LLGIDTEDAIQGR;S(1)LLGIDTEDAIQGR;S(1)LLGIDTEDAIQGR ;; 233.28 1.51E-24 32227000 1392.43 1155.46 1235.74 1270.82 1421.74 1198.72 1190.36 1189.46 1449.43 1654.83 TRUE FALSE FALSE 1538.892176 1192.897662 1404.140212 1295.418559 1312.806588 1096.582312 1056.41756 1159.035336 1439.343299 1726.17782 0.891502694 0.691063023 0.813438914 0.750454874 0.760528014 0.635266135 0.611998108 0.671446083 0.833832576 1 10.75336537 -6.91298265 0.317326479 1.026336614 0.58644115 0.605987104 0.072388812 0.382987396 0.108067455 0.040825247 0.064469506 1.22E-07 6.91298265 -0.439895464 S(ph)LNDDGSSDPR ddPTM_HeLa_SAHA_4h_R1 2 SLNDDGSSDPR 11 0 P54259 P54259 ATN1 Atrophin-1 1 0 S(0.83)LNDDGS(0.132)S(0.038)DPR;S(0.977)LNDDGS(0.02)S(0.003)DPR ; 115.8 0.0027425 10886500 3670 4639.8 3418.9 3909.5 4439.8 4570.9 3476.7 3474.9 5425.1 4754.3 TRUE FALSE FALSE 4056.027439 4790.132564 3884.809887 3985.174026 4099.623483 4181.433605 3085.492566 3386.01709 5387.346287 4959.28114 0.817866002 0.965892521 0.783341331 0.803578969 0.826656801 0.843153168 0.622165285 0.68276369 1.086315967 1 12.2759153 -1.848940838 0.083561273 1.157520437 2.24E-14 0.697687882 0.073646245 65.40691012 0.474936283 1.134587391 8.868631905 0.014159867 1.848940838 -1.157520437 S(ph)LNLEDYK ddPTM_HeLa_SAHA_4h_R1 2 SLNLEDYK 8 0 Q92541 Q92541 RTF1 RNA polymerase-associated protein RTF1 homolog 1 0 S(1)LNLEDYK;S(1)LNLEDYK ; 130.1 0.0019553 14895000 4080.9 3305.8 3494.9 4170.1 4804.3 4640.7 4172.9 4275 4407.9 4515.4 TRUE FALSE FALSE 4510.147786 3412.910089 3971.166771 4250.818316 4436.195572 4245.286252 3703.35431 4165.65169 4377.225065 4710.080992 0.957552066 0.724596901 0.843120698 0.902493677 0.941851229 0.901319162 0.78626128 0.884411902 0.929331167 1 12.20153615 -7.486930233 17.3704676 0.981275457 0.857476429 0.385215987 0.061462864 8.104487095 3916.54907 0.010615822 0.011833067 3.26E-08 7.486930233 -0.123799028 S(ph)LPAS(ph)PSTSDFCQTR ddPTM_HeLa_SAHA_4h_R1 2 SLPASPSTSDFCQTR 15 0 Q9Y2D8-2;Q9Y2D8-3;Q9Y2D8;S4R2Y6 Q9Y2D8-2 SSX2IP Afadin- and alpha-actinin-binding protein 2 0 S(1)LPAS(0.988)PS(0.003)T(0.002)S(0.003)DFCQT(0.003)R;S(1)LPAS(1)PSTSDFCQTR ; 162.79 6.40E-05 6257100 1035.23 1178.57 1154.9 931.09 1176.96 1432.87 848.29 1127.24 1094.61 1309.31 TRUE FALSE FALSE 1144.120241 1216.756441 1312.283758 949.1125933 1086.781579 1310.781415 752.8381766 1098.406833 1086.99252 1365.760762 0.837716439 0.890900131 0.96084453 0.694933271 0.795733491 0.959744526 0.551222584 0.804245417 0.795887941 1 10.41548908 -6.78441559 0.039897302 1.685304638 1.56E-11 0.092201769 0.122600668 64.25786176 1.577741702 31.32072065 34.8557203 1.64E-07 6.78441559 -1.685304638 S(ph)LPEEDVAEIQHAEEFLIKPESK ddPTM_HeLa_SAHA_4h_R1 5 SLPEEDVAEIQHAEEFLIKPESK 23 1 O60832;H7C2Q9;H7C0M1;C9IYT0;O60832-2 O60832 DKC1 H/ACA ribonucleoprotein complex subunit 4 1 0 S(1)LPEEDVAEIQHAEEFLIKPESK;S(1)LPEEDVAEIQHAEEFLIKPESK;S(1)LPEEDVAEIQHAEEFLIKPESK;S(1)LPEEDVAEIQHAEEFLIKPESK;S(1)LPEEDVAEIQHAEEFLIKPESK ;;;; 197.47 3.76E-17 557176600 12101.25 13033 12390.47 15061.3 16072.1 16129.3 16783.9 13834.03 17001.7 14733.2 TRUE FALSE FALSE 13374.115 13455.27775 14078.97872 15352.83324 14840.65917 14754.9929 14895.3314 13480.17554 16883.38379 15368.42035 0.87023355 0.875514688 0.916097972 0.99898577 0.965659373 0.960085198 0.969216813 0.87713475 1.098576392 1 13.90768126 S(ph)LPGPAPCLK ddPTM_HeLa_SAHA_4h_R1 1 SLPGPAPCLK 10 0 A0A5F9UK94;H0Y360;Q01433-2;Q01433;E9PJF6 A0A5F9UK94 AMPD2 AMP deaminase 2 1 0 S(1)LPGPAPCLK 111.86 0.0050871 20203000 2925.5 3458.8 3165.5 1681.5 2963.7 4416.2 3642.7 1902.1 1719.2 2935.6 TRUE FALSE FALSE 3233.217513 3570.867389 3596.877855 1714.047864 2736.621946 4039.914915 3232.813809 1853.447036 1707.235947 3062.168082 1.055858929 1.166123901 1.174618035 0.559749765 0.893687699 1.319298878 1.055727093 0.605272796 0.557525224 1 11.58033776 S(ph)LPNLSR ddPTM_HeLa_SAHA_4h_R1 1 SLPNLSR 7 0 Q9P270;D6RIF6 Q9P270 SLAIN2 SLAIN motif-containing protein 2 1 0 S(1)LPNLSR 104.42 0.011036 15322000 519.18 632.3 659.04 658.42 685.61 608.1 674.09 598.4 565.84 679.72 TRUE FALSE FALSE 573.7897345 652.7869349 748.8505391 671.1646712 633.0787099 556.2864589 598.2396191 583.0937945 561.9022734 709.0260557 0.809264667 0.920681165 1.05616787 0.946600856 0.892884972 0.784578302 0.843748427 0.822386977 0.792498765 1 9.469694835 -5.436974165 4.879942286 0.923141962 0.820397549 0.277296218 0.074895972 0.259134798 10.54853765 0.012289026 0.027896204 3.66E-06 5.436974165 -0.102744412 S(ph)LPPGLLR ddPTM_HeLa_SAHA_4h_R1 2 SLPPGLLR 8 0 Q14432 Q14432 PDE3A "cGMP-inhibited 3,5-cyclic phosphodiesterase A" 1 0 S(1)LPPGLLR;S(1)LPPGLLR ; 105.1 0.0080876 28148000 3318.2 3561.2 3100.6 3821.2 3538.5 4349 3591.3 3362.3 3681.3 3634.3 TRUE FALSE FALSE 3667.2235 3676.585217 3523.133621 3895.164852 3267.380894 3978.440733 3187.197472 3276.297235 3655.681534 3790.992459 0.967351832 0.969821295 0.929343347 1.027478924 0.861880083 1.0494457 0.840729046 0.864232063 0.964307255 1 11.88835987 -2.197814318 0.444873562 0.984103215 1.16E-16 0.300583262 0.057160294 18.68502604 0.579658145 0.011045745 14.47826208 0.006341408 2.197814318 -0.984103215 S(ph)LPS(ph)SPLLTHQSISVR ddPTM_HeLa_SAHA_4h_R1 2 SLPSSPLLTHQSISVR 16 0 J3QQY7;J3KTM5 J3QQY7 TANC2 2 0 S(0.973)LPS(0.56)S(0.467)PLLTHQSISVR;S(0.994)LPS(0.567)S(0.438)PLLTHQSISVR ; 96.562 0.0033836 2334500 822.03 949.68 837.01 1045.74 943.52 1126.61 1060.04 941.25 1016.94 959.58 TRUE FALSE FALSE 908.494887 980.4502551 951.0733638 1065.98181 871.2277014 1030.61649 940.7615093 917.1741879 1009.863032 1000.95219 0.90763065 0.979517568 0.950168623 1.064967758 0.870398916 1.029636081 0.939866578 0.916301695 1.008902365 1 9.967157351 -4.527581931 24.9922633 0.963034035 0.922192887 0.07730706 0.055153817 234.1378145 1244198.624 0.007434087 0.028037836 2.97E-05 4.527581931 -0.040841147 S(ph)LPSS(ph)PLLTHQSISVR ddPTM_HeLa_SAHA_4h_R1 1 SLPSSPLLTHQSISVR 16 0 J3QQY7;J3KTM5 J3QQY7 TANC2 2 0 S(0.926)LPS(0.143)S(0.931)PLLTHQSISVR 101.38 0.0012888 0 515.21 560.57 409.56 519.79 758.32 943.73 672.93 531.34 746.11 577.4 TRUE FALSE FALSE 569.4021517 578.7328358 465.3727039 529.8512871 700.2176854 863.3188947 597.2101453 517.7490922 740.9177598 602.2945397 0.945388201 0.960880097 0.772666317 0.87972122 1.162583486 1.433383233 0.991558292 0.859627737 1.23015852 1 9.23432537 -5.754723486 24.99287116 0.949798685 1.126171434 0.141079282 0.173902844 183.6129915 683299.7289 0.022482253 0.044158253 1.76E-06 5.754723486 0.176372749 S(ph)LPSTSSTSSTK ddPTM_HeLa_SAHA_4h_R1 2 SLPSTSSTSSTK 12 0 A0A590UJA3;S4R3W2;A0A590UJU2;A0A590UK38;A0A590UK73;B1AKN7;B1AKN5;A0A590UK09;B1AKN8;Q12857-2;Q12857-3;Q12857;Q12857-4 A0A590UJA3 NFIA Nuclear factor 1;Nuclear factor 1 A-type 1 0 S(0.997)LPS(0.002)T(0.001)SSTSSTK;S(0.995)LPS(0.004)T(0.001)SSTSSTK ; 108.17 0.0013754 2044600 1590.57 1400.64 1084.84 1832.98 1788.57 1938.74 1872.63 1838.84 1983.28 1820.35 TRUE FALSE FALSE 1757.87345 1446.021655 1232.676346 1868.459978 1651.530153 1773.548445 1661.916744 1791.805135 1969.478193 1898.834197 0.925764584 0.76153129 0.649175345 0.984003754 0.869760064 0.934019646 0.875230047 0.94363433 1.037203878 1 10.89089822 -7.719991679 2.334573193 0.974036369 0.860491758 0.278895901 0.094248298 0.303047065 3.456545182 0.018832841 0.018871132 1.91E-08 7.719991679 -0.113544611 S(ph)LPSTSSTSSTKR ddPTM_HeLa_SAHA_4h_R1 2 SLPSTSSTSSTKR 13 1 A0A590UJA3;S4R3W2;A0A590UJU2;A0A590UK38;A0A590UK73;B1AKN7;B1AKN5;A0A590UK09;B1AKN8;Q12857-2;Q12857-3;Q12857;Q12857-4 A0A590UJA3 NFIA Nuclear factor 1;Nuclear factor 1 A-type 1 0 S(0.999)LPS(0.001)TSSTSSTKR;S(0.995)LPS(0.004)T(0.001)SSTSSTKR ; 87.216 0.0067257 11255100 4062.9 3199.4 3233.6 4135.2 4133.9 4330.8 4317 4317.5 3844.2 4154.1 TRUE FALSE FALSE 4490.254463 3303.062659 3674.258168 4215.242776 3817.161475 3961.791476 3831.239798 4207.064602 3817.447899 4333.203581 1.036243597 0.762268054 0.847931121 0.972777461 0.880909794 0.914286948 0.884158735 0.970890133 0.880975894 1 12.0812183 -7.310588656 24.99986948 1.017115055 0.892297218 0.135863468 0.071695208 218.9430785 111365.2904 0.009728776 0.011125291 4.89E-08 7.310588656 -0.124817837 S(ph)LPTTVPES(ph)PNYR ddPTM_HeLa_SAHA_4h_R1 6 SLPTTVPESPNYR 13 0 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50;H0YC33 Q6PKG0 LARP1 La-related protein 1 2 0 S(0.999)LPT(0.001)TVPES(0.998)PNY(0.002)R;S(1)LPTTVPES(1)PNYR;S(1)LPTTVPES(1)PNYR;S(1)LPTTVPES(1)PNYR;S(1)LPTTVPES(1)PNYR;S(1)LPTTVPES(1)PNYR ;;;;; 236.03 1.24E-22 1080661800 14017.24 12713.03 12457.12 12958.87 13778.79 14804.4 13640.76 14745.47 15913.5 14302.42 TRUE FALSE FALSE 15491.63762 13124.94051 14154.71144 13209.70767 12723.06209 13542.98183 12105.86578 14368.30223 15802.75666 14919.06732 1.038378424 0.879742696 0.94876651 0.885424496 0.852805461 0.907763303 0.811435831 0.963083142 1.059232211 1 13.86486973 -7.258849416 24.9800861 1.018123146 0.890509994 0.677797507 0.04382145 92.79261751 894982.2217 0.006717375 0.008027034 5.51E-08 7.258849416 -0.127613152 S(ph)LPTTVPESPNYR ddPTM_HeLa_SAHA_4h_R1 2 SLPTTVPESPNYR 13 0 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50;H0YC33 Q6PKG0 LARP1 La-related protein 1 1 0 S(0.956)LPT(0.022)T(0.022)VPESPNYR;S(0.999)LPT(0.001)TVPESPNYR ; 218.11 3.23E-16 555250000 1196.1 793.35 731.09 1168.45 942.23 1281.08 1067.57 1082.15 847.49 995.78 TRUE FALSE FALSE 1321.911286 819.0550605 830.7191378 1191.067039 870.036541 1171.924777 947.4442139 1054.47017 841.5922481 1038.712949 1.272643503 0.788528786 0.799758142 1.146675836 0.837610181 1.128247008 0.912132861 1.015169948 0.81022601 1 10.0205813 -7.264939798 24.99966949 1.128748318 0.950338167 0 0.166182281 330.8704699 2363043.067 0.025151138 0.029367255 5.43E-08 7.264939798 -0.178410151 S(ph)LPVSICR ddPTM_HeLa_SAHA_4h_R1 2 SLPVSICR 8 0 O94885;A0A087WW74 O94885 SASH1 SAM and SH3 domain-containing protein 1 1 0 S(1)LPVSICR;S(1)LPVSICR ; 174.02 9.95E-07 39348000 1946.17 1694.27 1860.98 2250.98 2263.3 2072.13 2188.8 1810.16 1608.9 1694.72 TRUE FALSE FALSE 2150.87709 1749.16546 2114.584663 2294.550973 2089.886443 1895.572867 1942.510463 1763.858728 1597.703534 1767.787673 1.21670556 0.989465809 1.196175703 1.297978829 1.182204444 1.072285374 1.098836977 0.997777479 0.903787009 1 10.78772929 -1.662165273 14.53236949 1.113149662 0.175618023 0 0.119860868 0 0 0.015091804 0 0.021768812 1.662165273 -0.937531639 S(ph)LPVSVPVWGFK ddPTM_HeLa_SAHA_4h_R1 5 SLPVSVPVWGFK 12 0 Q96B36;Q96B36-2;Q96B36-3 Q96B36;Q96B36-3 AKT1S1 Proline-rich AKT1 substrate 1 1 0 S(0.986)LPVS(0.014)VPVWGFK;S(1)LPVSVPVWGFK;S(1)LPVSVPVWGFK;S(1)LPVSVPVWGFK;S(1)LPVSVPVWGFK ;;;; 189.24 6.96E-07 471180490 5387.7 4588.914 4688.78 5193.25 5553.07 5028.52 5891.75 4584.92 4750.63 4822.26 TRUE FALSE FALSE 5954.403006 4737.597824 5327.74252 5293.772863 5127.594976 4600.061806 5228.794784 4467.644385 4717.569979 5030.171228 1.183737637 0.941836293 1.059157289 1.052404108 1.019367879 0.914494079 1.03948644 0.888169444 0.93785475 1 12.2963918 -5.604008167 0.816998893 1.078257936 0.939819328 0.007716263 0.082666366 0.785892079 0.915035344 0.015131727 0.06517962 2.49E-06 5.604008167 -0.138438608 S(ph)LQEEHVAVAQLR ddPTM_HeLa_SAHA_4h_R1 2 SLQEEHVAVAQLR 13 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 S(1)LQEEHVAVAQLR;S(1)LQEEHVAVAQLR ; 169.15 2.27E-05 27883000 3811.1 4672 3857.3 3458.4 5139.5 5146.4 5283.6 4324.5 5412.2 4427.5 TRUE FALSE FALSE 4211.968984 4823.375865 4382.952756 3525.342333 4745.71262 4707.897767 4689.075422 4213.885552 5374.53606 4618.391193 0.911999181 1.044384433 0.949021547 0.763326922 1.027568351 1.019380466 1.015304946 0.912414167 1.163724733 1 12.17317466 S(ph)LQHQEQLEDSK ddPTM_HeLa_SAHA_4h_R1 1 SLQHQEQLEDSK 12 0 I3L156;Q9BSJ6;I3L419;Q9BSJ6-2;I3L427 I3L156 FAM64A Protein FAM64A 1 0 S(0.99)LQHQEQLEDS(0.01)K 93.823 0.010197 3615500 349.32 348.67 390.91 465.75 497.3 591.27 406.39 372.27 421.73 386.29 TRUE FALSE FALSE 386.0630803 359.9671368 444.181179 474.7652647 459.1969814 540.8904696 360.6619276 362.7478724 418.7951466 402.9448524 0.958104014 0.893340949 1.102337395 1.178238813 1.13960255 1.342343664 0.895065232 0.900241982 1.039336138 1 8.654438593 -6.735603888 24.08333469 0.973147385 1.101306412 0.17640679 0.126548383 190.8988626 177951.3248 0.020148567 0.028487486 1.84E-07 6.735603888 0.128159027 S(ph)LQLMDNR ddPTM_HeLa_SAHA_4h_R1 4 SLQLMDNR 8 0 Q9H7D0 Q9H7D0 DOCK5 Dedicator of cytokinesis protein 5 1 0 S(1)LQLMDNR;S(1)LQLMDNR;S(1)LQLMDNR;S(1)LQLMDNR ;;; 112.84 0.0054837 67924100 5825.5 5263.81 5517.83 6139.07 7436.8 6007.5 7386.8 7038 4565.11 4712.44 TRUE FALSE FALSE 6438.252818 5434.360898 6269.771137 6257.900577 6866.993991 5495.627203 6555.617823 6857.978151 4533.341028 4915.616351 1.309754944 1.105529909 1.275480162 1.273065295 1.396975171 1.117993515 1.333630893 1.395141049 0.922232474 1 12.26315661 -12.45106705 0.259077952 6.40E-13 1.308471011 0.652387013 0.093023691 14.37849579 0.313751209 7.393982713 0.052023629 3.54E-13 12.45106705 1.308471011 S(ph)LQLPASPAPDPSPR ddPTM_HeLa_SAHA_4h_R1 1 SLQLPASPAPDPSPR 15 0 Q5VTI5;A0A1B0GUN5;Q9Y2H5 Q5VTI5 PLEKHA6 Pleckstrin homology domain-containing family A member 6 1 0 S(1)LQLPASPAPDPSPR 111.34 0.0019238 4362600 598.2 559.32 473.39 669.56 633.15 801.74 657.5 715.22 889.97 602.58 TRUE FALSE FALSE 661.1214206 577.442335 537.9011239 682.520302 584.6381838 733.4272415 583.5163696 696.925708 883.7766263 628.5601728 1.051802913 0.918674711 0.855767112 1.085847197 0.930122857 1.166836961 0.928338121 1.108765299 1.406033447 1 9.295907052 -4.216593556 21.85058824 1.00910771 1.108767104 0 0.153191756 10416.72752 5074828.755 0.011333546 5.635610587 6.07E-05 4.216593556 0.099659394 S(ph)LQQLAEER ddPTM_HeLa_SAHA_4h_R1 2 SLQQLAEER 9 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 1 0 S(1)LQQLAEER;S(1)LQQLAEER ; 129.37 0.0021503 13787000 891.97 848.43 706.55 552.17 700.92 891.03 882.5 679.19 738.42 728.59 TRUE FALSE FALSE 985.7914971 875.9196887 802.8349544 562.8580488 647.215661 815.1092312 783.1987774 661.8173033 733.2812751 760.0030805 1.297088818 1.152521235 1.0563575 0.740599694 0.851596102 1.072507799 1.03052053 0.870808711 0.964839872 1 9.569861456 -6.504748444 10.00390765 1.143243225 0.922433336 0.337461221 0.122904025 0.335344802 178.6581723 0.022026022 0.032839848 3.13E-07 6.504748444 -0.220809889 S(ph)LSARQLARMSESSPESR ddPTM_HeLa_SAHA_4h_R1 1 SLSARQLARMSESSPESR 18 2 K7ESJ9;Q8NCQ7-2;Q8NCQ7-3;Q8NCQ7 K7ESJ9 PROCA1 Protein PROCA1 1 0 S(0.5)LS(0.5)ARQLARMSESSPESR 85.924 0.02171 20330000 1253.4 1834.7 1140.6 890.59 1403.7 1396.9 1363.5 1142 1307.4 1370.3 TRUE FALSE FALSE 1385.238363 1894.145484 1296.035028 907.8286573 1296.148809 1277.876261 1210.075391 1112.789294 1298.301697 1429.380339 0.969118103 1.325151488 0.906711106 0.635120431 0.906790708 0.894007163 0.846573413 0.778511683 0.908296876 1 10.48117413 -6.526544515 24.99990824 1.01551054 0.818610633 0.432349983 0.126207758 87.29077973 595304.9916 0.019107934 0.027095629 2.97E-07 6.526544515 -0.196899908 S(ph)LSASPALGSTK ddPTM_HeLa_SAHA_4h_R1 1 SLSASPALGSTK 12 0 O95544;O95544-2 O95544 NADK NAD kinase 1 0 S(0.595)LS(0.371)AS(0.034)PALGSTK 153.75 0.00027954 41526000 3083.6 2728.7 2985 3490.4 3061.6 3455.2 3051.7 2760.7 2219.4 2666.1 TRUE FALSE FALSE 3407.947196 2817.11167 3391.780255 3557.961739 2827.020869 3160.797522 2708.314684 2690.085291 2203.955015 2781.048619 1.225418058 1.012967429 1.219604804 1.279359777 1.016530546 1.136548818 0.973846579 0.967291716 0.792490645 1 11.44141325 -4.755913598 24.0403361 1.117518247 0.970569012 0.063425311 0.137558437 92.04609862 400430.9903 0.014950816 0.052810604 1.75E-05 4.755913598 -0.146949235 S(ph)LSDSESDDSK ddPTM_HeLa_SAHA_4h_R1 4 SLSDSESDDSK 11 0 Q13185;S4R2Y4 Q13185 CBX3 Chromobox protein homolog 3 1 0 S(0.996)LS(0.003)DS(0.001)ESDDSK;S(0.873)LS(0.113)DS(0.015)ESDDSK;S(0.575)LS(0.368)DS(0.055)ES(0.001)DDSK;S(0.841)LS(0.11)DS(0.049)ESDDSK ;;; 264.3 2.66E-42 184681600 5114.97 6251.69 4327.28 6296.5 6956.51 7831.4 6438.21 6176.72 7540.2 7516.03 TRUE FALSE FALSE 5652.986013 6454.248858 4916.979183 6418.377862 6423.503707 7164.120662 5713.765666 6018.728446 7487.727134 7840.082836 0.721036516 0.82323733 0.627159086 0.818661996 0.819315796 0.913781246 0.728788941 0.767686844 0.955057146 1 12.93665318 -9.35151403 1.003089313 1.003905687 0.775751788 0.539652847 0.07352194 0.32722671 0.573133365 0.054637986 0.013315969 4.45E-10 9.35151403 -0.228153899 S(ph)LSDSESDDSKSK ddPTM_HeLa_SAHA_4h_R1 1 SLSDSESDDSKSK 13 1 Q13185;S4R2Y4 Q13185 CBX3 Chromobox protein homolog 3 1 0 S(0.519)LS(0.301)DS(0.177)ES(0.003)DDSKSK 189.99 9.20E-07 12402000 3813.7 2051.5 3146 3039.2 3019.2 2631.9 3837.7 3507.8 1331.3 3309.9 TRUE FALSE FALSE 4214.842464 2117.969946 3574.720496 3098.028111 2787.869548 2407.647313 3405.871896 3418.075555 1322.035375 3452.605987 1.220771348 0.613440964 1.035368794 0.897301378 0.807468202 0.697342043 0.986464111 0.989998734 0.382909425 1 11.75346999 -7.283875669 24.98085628 1.104253135 0.865619096 0 0.264568908 603.7127595 672179.8062 0.02445702 0.027978258 5.20E-08 7.283875669 -0.238634039 S(ph)LSEQPVMDTATATEQAK ddPTM_HeLa_SAHA_4h_R1 2 SLSEQPVMDTATATEQAK 18 0 P18615;P18615-3;A0A0A0MT02;E9PD43;A0A0A0MSN9;P18615-4;A0A0G2JI50;A2ABK4 P18615 NELFE Negative elongation factor E 1 0 S(0.335)LS(0.335)EQPVMDT(0.32)AT(0.008)AT(0.001)EQAK;S(0.414)LS(0.222)EQPVMDT(0.363)AT(0.001)ATEQAK ; 180.31 2.64E-09 90293000 1951.4 2830.81 2137.59 1179.76 1911.23 2881 2630.37 1130.67 1298.52 1887.66 TRUE FALSE FALSE 2156.657205 2922.530101 2428.889633 1202.595961 1764.79197 2635.522592 2334.393845 1101.749099 1289.483494 1969.046261 1.09528011 1.484236384 1.233536094 0.610750486 0.896267399 1.338476726 1.185545455 0.55953439 0.654877196 1 10.94328129 S(ph)LSGSS(ph)PCPK ddPTM_HeLa_SAHA_4h_R1 1 SLSGSSPCPK 10 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 S(0.928)LS(0.073)GS(0.007)S(0.992)PCPK 130.44 0.017826 33048000 3650.3 3589 3368.8 3834.8 4203.2 4479.1 4004.8 4082.4 4359.2 3782.3 TRUE FALSE FALSE 4034.255302 3705.285955 3827.88252 3909.028099 3881.151724 4097.455481 3554.169364 3977.978119 4328.863972 3945.373463 1.022528118 0.939147077 0.970220578 0.990787852 0.983722266 1.038546926 0.90084485 1.008264023 1.097200053 1 11.94594615 -7.293420513 24.9860755 1.010638279 0.976104728 0.231327087 0.044742478 814.0195625 635971.4267 0.005712758 0.006533141 5.09E-08 7.293420513 -0.034533551 S(ph)LSGSSPCPK ddPTM_HeLa_SAHA_4h_R1 1 SLSGSSPCPK 10 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.996)LS(0.003)GS(0.001)SPCPK 98.898 0.011283 35417000 1978.7 1910.6 1823.6 2044 2302 2668.9 2826.9 2737.5 2183.4 2247.9 TRUE FALSE FALSE 2186.828745 1972.504694 2072.110711 2083.564576 2125.621257 2441.494705 2508.809772 2667.478714 2168.205542 2344.81797 0.932621966 0.841218687 0.883697898 0.888582654 0.906518666 1.041229953 1.069937967 1.137605882 0.924679685 1 11.19526021 -4.954595937 2.358301234 0.94176818 1.111229504 0.705555643 0.049031774 0.177854337 1.939189537 0.008949647 0.034854965 1.11E-05 4.954595937 0.169461324 S(ph)LSIEIGHEVK ddPTM_HeLa_SAHA_4h_R1 1 SLSIEIGHEVK 11 0 A0A3B3IU16;C9JTT8;Q68DU7;H7C1N3;O15155-2;O15155 A0A3B3IU16 BET1;DKFZp781C0425 BET1 homolog 1 0 S(0.752)LS(0.248)IEIGHEVK 91.307 0.011122 3821900 2615.5 6540.6 4600 3223.5 5367.5 5839.3 6206.9 3986.5 3225.5 4504.3 TRUE FALSE FALSE 2890.61029 6752.519731 5226.864044 3285.895504 4956.24331 5341.758789 5508.483276 3884.531102 3203.053483 4698.502417 0.615219496 1.437164256 1.112453199 0.69934954 1.054855967 1.136906681 1.172391283 0.826759414 0.68171796 1 12.19798528 -7.294319772 24.99387044 0.818298117 1.057523182 0.286322946 0.210023641 785.8062685 597324.7936 0.039324826 0.044971243 5.08E-08 7.294319772 0.239225064 S(ph)LSLESTDR ddPTM_HeLa_SAHA_4h_R1 1 SLSLESTDR 9 0 H0Y7V8;A0A0A0MRJ1;H0Y5V1;A0A0A0MRJ0;Q5VT25-3;Q5VT25-4;Q5VT25-5;Q5VT25;Q5VT25-2;Q5VT25-6 H0Y7V8 CDC42BPA Non-specific serine/threonine protein kinase;Serine/threonine-protein kinase MRCK alpha 1 0 S(0.645)LS(0.344)LES(0.011)TDR 136.49 8.08E-05 0 298.86 406.69 251.94 146.28 349.95 239.2 126.18 348.09 262.31 292.91 TRUE FALSE FALSE 330.295466 419.8670228 286.2730712 149.1114609 323.1369066 218.8188143 111.9818943 339.1863618 260.4845634 305.5387836 1.081026317 1.374185686 0.936945116 0.488027933 1.057597019 0.716173612 0.366506317 1.110125392 0.852541731 1 8.25521171 -6.515745333 24.698894 1.068860991 0.739027022 0.292066301 0.242157462 245.8299568 851168.1336 0.034061596 0.049316269 3.05E-07 6.515745333 -0.329833969 S(ph)LSMVDLQDAR ddPTM_HeLa_SAHA_4h_R1 1 SLSMVDLQDAR 11 0 H0Y3A3;A0A3B3ITG3;Q5VWQ8-3;Q5VWQ8-4;Q5VWQ8-2;Q5VWQ8-5;Q5VWQ8 H0Y3A3 DAB2IP Disabled homolog 2-interacting protein 1 0 S(0.744)LS(0.256)MVDLQDAR 164.22 0.00016476 5456300 1087.9 1219.6 1099.2 1325.6 1327.4 1096.6 1300.6 1476.8 1092.6 1065.7 TRUE FALSE FALSE 1202.330313 1259.11584 1248.993252 1351.258905 1225.694899 1003.163511 1154.253065 1439.025594 1084.996508 1111.647542 1.08157511 1.132657423 1.123551489 1.215546163 1.10259309 0.902411486 1.038326467 1.294498067 0.976025643 1 10.11848373 -8.521251546 0.822690096 1.006825801 1.10671887 0.194609199 0.098144469 0.857432007 1.194657297 0.04303756 0.02165534 3.01E-09 8.521251546 0.099893069 S(ph)LSPGGAALGYR ddPTM_HeLa_SAHA_4h_R1 4 SLSPGGAALGYR 12 0 A0A494C001;A0A499FJY3;A0A087WWP4;Q96T37-4;Q96T37-2;Q96T37-3;Q96T37 A0A494C001 RBM15 Putative RNA-binding protein 15 1 0 S(0.497)LS(0.497)PGGAALGY(0.006)R;S(0.923)LS(0.077)PGGAALGYR;S(0.879)LS(0.121)PGGAALGYR;S(0.993)LS(0.007)PGGAALGYR ;;; 230.81 1.16E-22 841706600 9065.5 9023 7878.3 8304.7 9408.7 9229.3 9275.2 8658.9 7346.2 7060.3 TRUE FALSE FALSE 10019.05088 9315.35112 8951.913696 8465.449477 8687.807439 8442.911717 8231.530085 8437.417876 7295.077196 7364.704085 1.360414589 1.264864279 1.215515734 1.14946227 1.179654653 1.14640203 1.117700045 1.145656061 0.990545867 1 12.84641184 -5.268848508 1.703629946 1.184669292 1.130457241 0 0.105684491 1.521634573 8.340661687 0.020695801 0.070781019 5.38E-06 5.268848508 -0.05421205 S(ph)LSPILPGR ddPTM_HeLa_SAHA_4h_R1 2 SLSPILPGR 9 0 M0QZS0;A0A590UK10;A0A3B3IPE9;A0A087WZG4;Q6ZSZ5-2;Q6ZSZ5-1;Q6ZSZ5-6;Q6ZSZ5-5;Q6ZSZ5 M0QZS0 ARHGEF18 Rho guanine nucleotide exchange factor 18 1 0 S(0.633)LS(0.367)PILPGR;S(0.5)LS(0.5)PILPGR ; 104.42 0.0079874 56005000 4618.3 5177.7 4494.7 4987.1 5721.4 5597.9 6064.1 5401 4839.3 4390.6 TRUE FALSE FALSE 5104.073984 5345.460877 5107.214309 5083.632532 5283.027568 5120.927427 5381.751508 5262.850241 4805.622917 4579.900253 1.114450905 1.167156615 1.115136581 1.109987609 1.153524591 1.118130777 1.175080506 1.149118965 1.049285498 1 12.16110046 -9.043066285 0.422715988 0.966860672 1.147967824 0.742563006 0.026146951 0.477089996 0.127940199 0.037930492 0.007344326 9.06E-10 9.043066285 0.181107152 S(ph)LSPQEDALTGSR ddPTM_HeLa_SAHA_4h_R1 3 SLSPQEDALTGSR 13 0 Q96EN8 Q96EN8 MOCOS Molybdenum cofactor sulfurase 1 0 S(0.992)LS(0.008)PQEDALTGSR;S(0.9)LS(0.1)PQEDALTGSR;S(0.849)LS(0.151)PQEDALTGSR ;; 190.18 2.02E-07 38288700 2621.41 2848.29 2465.4 2851.99 3019.94 2927.84 3073.36 3015.23 3246.37 2915.48 TRUE FALSE FALSE 2897.141931 2940.576465 2801.371873 2907.19439 2788.55285 2678.37156 2727.537444 2938.104783 3223.778247 3041.180611 0.952637249 0.966919378 0.92114617 0.955942695 0.916931023 0.880701248 0.896867958 0.96610664 1.060041694 1 11.57041578 -7.743173503 0.319165965 1.007611334 0.907439643 0.585779178 0.03199841 0.737087164 0.230353966 0.028905114 0.021073302 1.81E-08 7.743173503 -0.100171691 S(ph)LSPSHLTEDR ddPTM_HeLa_SAHA_4h_R1 1 SLSPSHLTEDR 11 0 Q5T200-2;Q5T200 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 S(0.789)LS(0.206)PS(0.001)HLT(0.005)EDR 193.62 4.48E-07 63810000 894.49 1298.6 670.89 975.84 1685 1879.2 1392.1 1539.9 1276.7 1100.9 TRUE FALSE FALSE 988.5765623 1340.675492 762.3153954 994.7287943 1555.895664 1719.081588 1235.457244 1500.511588 1267.815341 1148.365187 0.860855566 1.167464416 0.663826633 0.866212948 1.354878816 1.496981629 1.075840036 1.306650189 1.104017568 1 10.16536578 -5.760549795 24.99996298 0.925400056 1.305419595 0.545946742 0.162482272 12.46586905 350307.6645 0.022075667 0.042185691 1.74E-06 5.760549795 0.380019539 S(ph)LSVPVDLSR ddPTM_HeLa_SAHA_4h_R1 2 SLSVPVDLSR 10 0 Q9NYF3;D6RHW3 Q9NYF3 FAM53C Protein FAM53C 1 0 S(0.51)LS(0.487)VPVDLS(0.002)R;S(0.61)LS(0.39)VPVDLSR ; 137.01 0.0012724 48048300 6093.5 7230.2 7782.6 7903 9285 9544.6 11168.2 7097.2 4913.54 5267.6 TRUE FALSE FALSE 6734.442288 7464.463224 8843.172198 8055.973993 8573.585306 8731.346384 9911.524743 6915.663901 4879.346275 5494.712015 1.225622429 1.358481246 1.609396848 1.46613216 1.560333878 1.589045315 1.803829703 1.258603523 0.888007645 1 12.42382815 -7.399642014 0.711242498 1.042728045 1.581931341 0.71851704 0.144443862 0.214280854 0.231388042 0.036112346 0.03914279 3.98E-08 7.399642014 0.539203296 S(ph)LTFTGGAK ddPTM_HeLa_SAHA_4h_R1 2 SLTFTGGAK 9 0 F5H8C5;F5H0S5;F5H7J1;Q8NHQ8-2;Q8NHQ8 F5H8C5 RASSF8 Ras association domain-containing protein 8 1 0 S(0.998)LT(0.001)FT(0.001)GGAK;S(0.999)LT(0.001)FTGGAK ; 140.17 0.0010599 23484400 3623.7 4056.6 3617.9 3345 4916.5 5630.6 5216.8 4327.9 4015.9 3852.1 TRUE FALSE FALSE 4004.857392 4188.036502 4110.928571 3409.747312 4539.798832 5150.841203 4629.791934 4217.198585 3987.953025 4018.182883 0.996683702 1.042271251 1.0230815 0.848579423 1.12981389 1.281883218 1.152210357 1.049528781 0.992476734 1 11.97232751 -5.545119131 24.75419279 0.994516956 1.167897891 0.571329778 0.071890952 105.7027818 117649.9183 0.009898249 0.019797665 2.85E-06 5.545119131 0.173380935 S(ph)LTLDAAPDHNPPCR ddPTM_HeLa_SAHA_4h_R1 1 SLTLDAAPDHNPPCR 15 0 B7Z5R6;Q14596-2;Q14596 B7Z5R6 NBR1 Next to BRCA1 gene 1 protein 1 0 S(0.733)LT(0.267)LDAAPDHNPPCR 117.53 0.00074491 5225300 593.7 752.79 729.77 573.99 574.59 807.17 728.41 711.62 811.19 475.28 TRUE FALSE FALSE 656.14809 777.1808899 829.2192551 585.1004065 530.5650383 738.394575 646.4473897 693.4177908 805.5448627 495.7716468 1.323488534 1.567618671 1.672583054 1.180181259 1.070180277 1.489384437 1.303921662 1.39866367 1.62483044 1 8.953531956 -8.758565437 0.881813682 1.019655819 1.372449781 0 0.252396673 0.432225493 0.66507244 0.084551789 0.036323094 1.74E-09 8.758565437 0.352793962 S(ph)LTNLSFLTDSEK ddPTM_HeLa_SAHA_4h_R1 1 SLTNLSFLTDSEK 13 0 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-6 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 S(0.997)LT(0.003)NLSFLTDSEK 200.97 7.94E-11 13947000 921.88 1311.7 1279.8 1398 1187.8 1757.9 1486.2 1426.3 1244.9 1254.4 TRUE FALSE FALSE 1018.847568 1354.199941 1454.204479 1425.060312 1096.791021 1608.11703 1318.968865 1389.817311 1236.23664 1308.483323 0.778647729 1.034938632 1.11136646 1.089093217 0.838215514 1.228993142 1.008013508 1.06215898 0.944785935 1 10.35367982 -7.10713129 8.081297152 0.895604918 1.055121455 0.2856638 0.105299412 0.280812962 19.16108339 0.019391349 0.023780221 7.81E-08 7.10713129 0.159516538 S(ph)LTNSHLEK ddPTM_HeLa_SAHA_4h_R1 3 SLTNSHLEK 9 0 F8VX12;F8VX04;Q9H2H9 F8VX12 SLC38A1 Sodium-coupled neutral amino acid transporter 1 1 0 S(0.905)LT(0.095)NSHLEK;S(0.976)LT(0.015)NS(0.009)HLEK;S(0.997)LT(0.003)NSHLEK ;; 123.02 0.0024777 29362000 7174.6 15004.4 11905.7 8815 11290.7 10778.3 14382.3 8719.6 8003.2 10505.2 TRUE FALSE FALSE 7929.257346 15490.5524 13528.14679 8985.627072 10425.60901 9859.928203 12763.96575 8496.565258 7947.50508 10958.13058 0.723595807 1.413612686 1.234530533 0.819996349 0.951403976 0.899781959 1.164794091 0.775366308 0.725261031 1 13.41971408 S(ph)LTPPPSSTESK ddPTM_HeLa_SAHA_4h_R1 1 SLTPPPSSTESK 12 0 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 1 0 S(0.498)LT(0.498)PPPS(0.003)S(0.001)T(0.001)ESK 113.95 0.0023142 56059000 1666.6 1735.1 1792.4 1606.6 2018.6 2171.9 1970.8 2080.9 2204.8 1692.9 TRUE FALSE FALSE 1841.900635 1791.318378 2036.658938 1637.698066 1863.935304 1986.841901 1749.040397 2027.673591 2189.456617 1765.889204 1.043044281 1.01440021 1.153333365 0.927407032 1.055522226 1.125122628 0.990458741 1.148245081 1.239860696 1 10.78617911 S(ph)LVGTPYWMAPELISR ddPTM_HeLa_SAHA_4h_R1 2 SLVGTPYWMAPELISR 16 0 O96013-2;O96013-4;O96013;M0R1R1;O96013-3 O96013-2 PAK4 Serine/threonine-protein kinase PAK 4 1 0 S(1)LVGTPYWMAPELISR;S(0.999)LVGT(0.001)PYWMAPELISR ; 240.5 3.54E-36 409910000 306.97 265.85 251.28 286.14 343.97 398.51 401.9 153.12 194.82 556.15 TRUE FALSE FALSE 339.258513 274.4637144 285.5231298 291.6786535 317.6150929 364.554706 356.6771543 149.2034121 193.4642318 580.1283482 0.584799061 0.473108607 0.492172345 0.502782969 0.547491075 0.628403537 0.614824556 0.257190349 0.333485223 1 9.180228309 -8.900130796 0.568581361 1.041308225 0.504412725 0 0.227905498 0.349816157 0.195234556 0.094902213 0.024634726 1.26E-09 8.900130796 -0.5368955 S(ph)LYASS(ph)PGGVYATR ddPTM_HeLa_SAHA_4h_R1 1 SLYASSPGGVYATR 14 0 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 2 0 S(1)LYAS(0.189)S(0.811)PGGVYATR 161.04 0.00013617 9426600 1154.2 1367.3 1256.8 1243.5 1775.5 2100.6 1622.1 1730.5 1329.8 1397.9 TRUE FALSE FALSE 1275.604052 1411.601417 1428.070159 1267.569741 1639.461574 1921.617062 1439.577039 1686.236316 1320.545814 1458.17031 0.874797712 0.968063475 0.979357589 0.869287855 1.124327907 1.317827588 0.987248903 1.156405602 0.905618366 1 10.50994352 -5.688303986 6.878903967 0.9406268 1.149616729 0.604845376 0.084539908 0.121476938 9.328561916 0.012478048 0.025017955 2.05E-06 5.688303986 0.208989929 S(ph)LYASSPGGVYAT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SLYASSPGGVYATR 14 0 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 2 0 S(0.999)LY(0.001)AS(0.002)S(0.026)PGGVYAT(0.972)R 149.73 0.0019103 9936300 1604.2 1600.6 1666.9 1505 1975.7 2214.9 1835.7 1543 1385.8 1545.9 TRUE FALSE FALSE 1772.937116 1652.46049 1894.056451 1534.131451 1824.322293 2026.178059 1629.142205 1503.532294 1376.156105 1612.551314 1.099460898 1.024749089 1.174571274 0.951369074 1.13132666 1.256504547 1.010288597 0.932393457 0.853402985 1 10.65512936 -9.394492697 0.985605298 0.997424916 1.078247027 0.164944356 0.105667922 1.252596868 2.062209112 0.074910725 0.016835744 4.03E-10 9.394492697 0.080822111 S(ph)LYASSPGGVYATR ddPTM_HeLa_SAHA_4h_R1 1 SLYASSPGGVYATR 14 0 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 S(0.999)LYAS(0.001)SPGGVYATR 206.67 2.39E-12 168080000 165.44 170.78 251.95 172.39 130.29 207.21 124.71 230.34 137.26 158.32 TRUE FALSE FALSE 182.8417383 176.3133841 286.2844339 175.7268577 120.3072083 189.5545423 110.6773026 224.4482363 136.3047965 165.14595 1.10715242 1.067621604 1.733523795 1.064070041 0.728490213 1.147800126 0.670178727 1.359090164 0.825359608 1 7.36759778 S(ph)LYESFVSSSDR ddPTM_HeLa_SAHA_4h_R1 4 SLYESFVSSSDR 12 0 P18615;P18615-3;A0A0A0MT02;A2ABK4 P18615 NELFE Negative elongation factor E 1 0 S(1)LYESFVSSSDR;S(1)LYESFVSSSDR;S(1)LYESFVSSSDR;S(0.974)LYES(0.026)FVSSSDR ;;; 194.06 3.06E-07 30581300 848.84 1035.82 622.522 1059.5 1313.76 1275.94 1179.825 1066.91 1204.25 706.52 TRUE FALSE FALSE 938.1248858 1069.381248 707.3560562 1080.008155 1213.099993 1167.222734 1047.067986 1039.619987 1195.869526 736.9815348 1.272928617 1.45102855 0.9598016 1.465448052 1.646038517 1.583788302 1.420751995 1.410645909 1.622658737 1 9.525484663 -6.136490175 6.40862164 1.150318003 1.518001755 0.171144407 0.207298378 0.144016046 6.970671943 0.024999057 0.041709748 7.30E-07 6.136490175 0.367683751 S(ph)LYYYIQQDTK ddPTM_HeLa_SAHA_4h_R1 1 SLYYYIQQDTK 11 0 P07355;P07355-2;A6NMY6 P07355 ANXA2;ANXA2P2 Annexin A2;Putative annexin A2-like protein 1 0 S(1)LYYYIQQDTK 126.32 0.0016567 2033500 734.3 1060.7 1029.8 837.79 1259.4 1435.8 1249.1 1124.3 1056.9 1021.3 TRUE FALSE FALSE 811.5370431 1095.067376 1170.135781 854.0066369 1162.905044 1313.461762 1108.547981 1095.542034 1049.544947 1065.333241 0.761768254 1.027910642 1.098375359 0.801633333 1.091588058 1.232911648 1.040564527 1.028356191 0.985179948 1 10.05708907 -6.026105213 0.983132595 0.898367117 1.100532159 0.152176992 0.120547264 0.553697712 1.049141917 0.023960942 0.060786028 9.42E-07 6.026105213 0.202165042 S(ph)MAEALASNRT(ph)LSMLHLQK ddPTM_HeLa_SAHA_4h_R1 1 SMAEALASNRTLSMLHLQK 19 1 A0A087WZ24;H3BLT9;Q7RTR2-4;Q7RTR2;Q7RTR2-2 A0A087WZ24 NLRC3 Protein NLRC3 2 0 S(0.943)MAEALAS(0.058)NRT(0.545)LS(0.455)MLHLQK 50.426 0.0087624 0 649.65 470.01 446.35 540.05 459.52 701.42 506.27 669.14 741.64 638.83 TRUE FALSE FALSE 717.9831677 485.2386324 507.1762535 550.5034487 424.3116769 641.6550699 449.3031672 652.0243677 736.4788669 666.3730877 1.077449226 0.728178616 0.761099545 0.82611897 0.636747919 0.962906639 0.67425167 0.978467438 1.105204998 1 9.380186327 -7.264543271 24.99914522 1.036573249 0.790939887 0.557607535 0.107664395 136.8374059 1102103.693 0.016186361 0.018922982 5.44E-08 7.264543271 -0.245633362 S(ph)MDEFTASTPADLGEAGR ddPTM_HeLa_SAHA_4h_R1 4 SMDEFTASTPADLGEAGR 18 0 Q7Z5K2;Q7Z5K2-2;Q7Z5K2-3 Q7Z5K2 WAPAL Wings apart-like protein homolog 1 0 S(0.946)MDEFT(0.05)AS(0.003)T(0.001)PADLGEAGR;S(1)MDEFTASTPADLGEAGR;S(1)MDEFTASTPADLGEAGR;S(1)MDEFTASTPADLGEAGR ;;; 214.54 1.21E-21 18567800 1819.82 1944.72 1639.06 1977.69 2443.2 2526.6 2437.41 2258.47 2524 2064.97 TRUE FALSE FALSE 2011.237017 2007.730204 1862.422561 2015.97105 2256.002544 2311.319466 2163.146212 2200.701608 2506.435278 2154.000962 0.933721504 0.932093457 0.864634043 0.935919289 1.047354473 1.073035484 1.004245704 1.021680884 1.163618458 1 11.07280318 -5.758150909 24.99799771 0.954201143 1.036873642 0.125098065 0.076112245 64.03644093 486778.3501 0.006840092 0.013242757 1.75E-06 5.758150909 0.082672499 S(ph)MDELNHDFQALALEGR ddPTM_HeLa_SAHA_4h_R1 5 SMDELNHDFQALALEGR 17 0 Q5T1Z4;Q5T1Z8;Q14671-2;Q14671;Q14671-3;E9PR38;Q14671-4;H0YEH2 Q5T1Z4 PUM1 Pumilio homolog 1 1 0 S(1)MDELNHDFQALALEGR;S(1)MDELNHDFQALALEGR;S(1)MDELNHDFQALALEGR;S(1)MDELNHDFQALALEGR;S(1)MDELNHDFQALALEGR ;;;; 134.87 9.18E-05 15473300 2189.74 2222.18 2379.65 2306.06 2807.46 2949.04 3247.4 2384.69 2585.47 2618.56 TRUE FALSE FALSE 2420.0669 2294.18009 2703.936309 2350.697126 2592.353021 2697.765201 2881.994005 2323.693083 2567.477504 2731.458937 0.885997907 0.839910152 0.989923836 0.860601305 0.949072668 0.987664565 1.055111599 0.850714998 0.939965624 1 11.41545602 -3.96310549 15.70975379 0.943997261 0.496430234 0.165069242 0.063791643 3540615.118 43118341.11 0.009546666 44078299.52 0.000108867 3.96310549 -0.447567027 S(ph)MDLGIADETK ddPTM_HeLa_SAHA_4h_R1 1 SMDLGIADETK 11 0 Q5VWV2;Q8TEW0-4;Q8TEW0-11;Q8TEW0-2;Q8TEW0;Q8TEW0-8 Q5VWV2 PARD3 Partitioning defective 3 homolog 1 0 S(1)MDLGIADETK 128.36 0.002628 9487100 3965.5 5264.1 3568.4 4012.4 4341.8 4026.5 4303.7 4432.4 5756.4 4402 TRUE FALSE FALSE 4382.609484 5434.660294 4054.682969 4090.065804 4009.132222 3683.419548 3819.436349 4319.025626 5716.340744 4591.791763 0.954444302 1.183559833 0.883028495 0.890734165 0.873108457 0.80217478 0.831796507 0.940597015 1.244904177 1 12.1648415 -6.554440921 24.99998842 0.995172998 0.864803601 0.42400832 0.105373257 132.1354026 104662.2481 0.010935078 0.015464607 2.79E-07 6.554440921 -0.130369397 S(ph)MDLGIADETKLNTVDDQK ddPTM_HeLa_SAHA_4h_R1 2 SMDLGIADETKLNTVDDQK 19 1 Q5VWV2;Q8TEW0-4;Q8TEW0-11;Q8TEW0-2;Q8TEW0;Q8TEW0-8 Q5VWV2 PARD3 Partitioning defective 3 homolog 1 0 S(1)MDLGIADETKLNTVDDQK;S(0.999)MDLGIADET(0.001)KLNTVDDQK ; 91.774 0.0011659 12522000 1951.25 1612.89 1962.78 1852.66 2278.53 1618.42 2209.75 1986.82 1319.05 1936.95 TRUE FALSE FALSE 2156.491428 1665.148694 2230.257437 1888.520913 2103.949524 1480.521511 1961.103114 1936.000021 1309.870624 2020.461394 1.067326223 0.824142792 1.10383571 0.934697846 1.041321319 0.732764068 0.970621424 0.958196988 0.648302723 1 10.98046907 S(ph)MEVNFLS(ph)Y(ph)VVLTVAALPMLK ddPTM_HeLa_SAHA_4h_R1 1 SMEVNFLSYVVLTVAALPMLK 21 0 A0A087WU76;A0A0A0MQV1;P28845 A0A087WU76 HSD11B1 Corticosteroid 11-beta-dehydrogenase isozyme 1 3 0 S(0.998)MEVNFLS(0.952)Y(0.916)VVLT(0.134)VAALPMLK 42.679 0.0088792 0 513.2 562 410.68 603.27 598.56 467.23 515.89 378.6 825.78 535.52 TRUE FALSE FALSE 567.1807306 580.2091687 466.6453317 614.9471632 552.6984621 427.4193754 457.8406995 368.9159602 820.0333297 558.608888 1.015344981 1.038667986 0.835370403 1.100854599 0.989419384 0.765149615 0.819608691 0.660419066 1.467991912 1 9.125694718 -5.260873337 4.865435007 1.003274353 0.752643908 0.40652013 0.163731549 0.068910913 4.894854646 0.009421929 0.023259423 5.48E-06 5.260873337 -0.250630445 S(ph)MGETESGDAFLDLK ddPTM_HeLa_SAHA_4h_R1 3 SMGETESGDAFLDLK 15 0 B1AKL4;Q9NRA8;Q9NRA8-3;Q9NRA8-2;B1AKL5;B1AKL6 B1AKL4 EIF4ENIF1 Eukaryotic translation initiation factor 4E transporter 1 0 S(0.993)MGET(0.007)ESGDAFLDLK;S(0.995)MGET(0.003)ES(0.002)GDAFLDLK;S(0.999)MGET(0.001)ESGDAFLDLK ;; 102.5 0.0022655 2106900 1298.82 1488.25 1448.07 1420.32 1375.46 2143.48 1473.54 1729.84 1825.65 1474.4 TRUE FALSE FALSE 1435.435847 1536.470276 1645.405438 1447.812347 1270.072552 1960.843445 1307.733401 1685.593198 1812.945153 1537.9686 0.93333235 0.999025778 1.069856328 0.941379654 0.825811757 1.274956749 0.850299155 1.095986744 1.178792047 1 10.58681033 S(ph)MGGAAIAPPTSLVEK ddPTM_HeLa_SAHA_4h_R1 1 SMGGAAIAPPTSLVEK 16 0 H0Y6J6;Q5W012;Q96I25;Q5W011;Q5W010 H0Y6J6 RBM17 Splicing factor 45 1 0 S(1)MGGAAIAPPTSLVEK 115.58 0.0010996 3478700 809.51 1031.6 900.84 797.91 883.41 1085.5 881.43 890.81 1063.5 875.03 TRUE FALSE FALSE 894.657976 1065.024517 1023.601784 813.3547018 815.7233167 993.0092931 782.2491766 868.0243701 1056.099017 912.7568256 0.980171225 1.16682175 1.121439747 0.891096817 0.893691829 1.087923163 0.857018162 0.950991924 1.157043133 1 9.834086742 -6.226306513 24.98781676 1.01533386 0.937822164 0.258798388 0.094405454 892.2762776 634620.8324 0.013146206 0.021799712 5.94E-07 6.226306513 -0.077511696 S(ph)MGYDDLDYGMMSDYGTAR ddPTM_HeLa_SAHA_4h_R1 6 SMGYDDLDYGMMSDYGTAR 19 0 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-8;O60716-9;O60716-17;O60716-7;O60716-4;O60716-6;A0A669KB62;O60716-11;O60716-13;O60716-19;O60716-21;O60716-20;O60716-22;O60716-23;O60716-14;O60716-24;O60716-16;O60716-15;O60716-12 O60716 CTNND1 Catenin delta-1 1 0 S(0.96)MGY(0.04)DDLDYGMMSDYGTAR;S(0.997)MGYDDLDY(0.002)GMMSDYGTAR;S(0.979)MGY(0.02)DDLDYGMMSDYGTAR;S(1)MGYDDLDYGMMSDYGTAR;S(1)MGYDDLDYGMMSDYGTAR;S(0.99)MGY(0.002)DDLDY(0.007)GMMS(0.001)DYGTAR ;;;;; 254.59 1.26E-51 69985200 2270.19 2878.58 2541.09 2537.93 3172.64 3507.68 2793.78 3086.05 3687.918 3104.43 TRUE FALSE FALSE 2508.979 2971.847881 2887.376512 2587.055305 2929.553009 3208.80593 2479.416522 3007.11331 3662.253478 3238.27717 0.774788219 0.917724989 0.891639708 0.798898664 0.904664071 0.990899099 0.765659143 0.928615171 1.130926504 1 11.66101076 -9.596492495 1.40101229 0.999763169 0.859344967 0.418414322 0.082024311 0.379652827 1.340585487 0.049647741 0.011581792 2.53E-10 9.596492495 -0.140418202 S(ph)MLSCFR ddPTM_HeLa_SAHA_4h_R1 1 SMLSCFR 7 0 A0A0C4DFQ2;Q8NCN2 A0A0C4DFQ2 ZBTB34 Zinc finger and BTB domain-containing protein 34 1 0 S(0.99)MLS(0.01)CFR 45.081 0.023075 2281100 117.61 0 106.4 0 104.24 60.406 110.35 0 0 115.54 TRUE FALSE FALSE 129.9807594 0 120.8996379 0 96.25315372 55.25906897 97.93312757 0 0 120.5214948 1.078486121 0 1.003137557 0 0.798638897 0.458499698 0.812578102 0 0 1 6.913146662 -7.296751177 24.75810165 1.037062956 0.472746759 0 0.474580463 361.5589041 253498.2965 0.051187153 0.058536023 5.05E-08 7.296751177 -0.564316197 S(ph)MPVLGSVSSVTK ddPTM_HeLa_SAHA_4h_R1 2 SMPVLGSVSSVTK 13 0 A0MZ66-7;A0MZ66-8;A0MZ66-4;A0MZ66-5;A0MZ66-6;A0MZ66;A0MZ66-3 A0MZ66-7 KIAA1598 Shootin-1 1 0 S(0.963)MPVLGS(0.037)VSSVTK;S(1)MPVLGSVSSVTK ; 146.96 0.00021518 41436000 2473.38 2682.46 2265.16 2572.88 2688.87 2926.92 2962.6 2694.91 1920.58 2426.81 TRUE FALSE FALSE 2733.541457 2769.373464 2573.844208 2622.681813 2482.849362 2677.52995 2629.240451 2625.978104 1907.214527 2531.441656 1.079835852 1.093990635 1.016750358 1.036042765 0.980804498 1.057709524 1.038633636 1.037344905 0.753410423 1 11.30574352 S(ph)MQLDYTTWT(ph)ALLS(ph)RS(ph)RQLT(ph)EK ddPTM_HeLa_SAHA_4h_R1 1 SMQLDYTTWTALLSRSRQLTEK 22 2 Q96R06;J3QS12;J3KTQ0 Q96R06 SPAG5 Sperm-associated antigen 5 5 0 S(0.858)MQLDY(0.128)T(0.137)T(0.26)WT(0.639)ALLS(0.99)RS(0.99)RQLT(0.996)EK 42.029 0.018363 4755500 247.47 311.34 260.32 269.17 352.1 561.1 361.12 347.7 371 381.96 TRUE FALSE FALSE 273.50003 321.4276203 295.7950539 274.3801746 325.1221741 513.2911233 320.4858272 338.8063375 368.4181808 398.4281649 0.686447531 0.806739203 0.74240498 0.688656573 0.816012026 1.288290258 0.804375432 0.850357398 0.92467906 1 8.638175825 S(ph)MSAPVIFDR ddPTM_HeLa_SAHA_4h_R1 1 SMSAPVIFDR 10 0 O60749;D6RC15 O60749 SNX2 Sorting nexin-2 1 0 S(0.728)MS(0.272)APVIFDR 147.28 0.0007816 3235700 986.88 910.45 883.55 800.97 1012.5 1195.2 1031.2 1062.1 968.35 928 TRUE FALSE FALSE 1090.684566 939.9491774 1003.955593 816.4739326 934.9224687 1093.362236 915.166662 1034.93302 961.6111735 968.0106215 1.126727891 0.971011223 1.037132827 0.843455551 0.965818399 1.129494049 0.945409732 1.06913395 0.993389073 1 9.918879067 -7.232835857 24.83556982 1.059843737 0.992526066 0.046454235 0.080441224 1054.60344 915681.1389 0.013908371 0.017032256 5.85E-08 7.232835857 -0.067317671 S(ph)MSDVSAEDVQNLR ddPTM_HeLa_SAHA_4h_R1 3 SMSDVSAEDVQNLR 14 0 E9PMS6;Q8WWI1-3;E9PMP7;E9PK58;E9PJ10;E9PLU6;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 S(1)MSDVSAEDVQNLR;S(0.968)MS(0.032)DVSAEDVQNLR;S(0.94)MS(0.06)DVSAEDVQNLR ;; 288.29 2.45E-69 74602000 788.63 866.94 704.32 694.87 901.85 747.95 979.48 697.36 847.67 872.02 TRUE FALSE FALSE 871.5817218 895.0294248 800.3010617 708.3202136 832.7504478 684.2204521 869.2663325 679.522541 841.7709955 909.6170498 0.95818534 0.983962894 0.879821967 0.778701558 0.915495645 0.752207154 0.955639885 0.747042441 0.925412508 1 9.829115486 -6.655553086 3.79740497 0.980147513 0.836531496 0.486288876 0.065574277 0.118741918 3.260348318 0.008958226 0.012807472 2.21E-07 6.655553086 -0.143616017 S(ph)MSENAVR ddPTM_HeLa_SAHA_4h_R1 1 SMSENAVR 8 0 Q9GZY8-5;C9JHF5;H7C433;A0A0A0MS29;Q9GZY8-4;Q9GZY8-3;Q9GZY8-2;Q9GZY8 Q9GZY8-5 MFF Mitochondrial fission factor 1 0 S(0.914)MS(0.086)ENAVR 128.51 0.0022117 289070000 916.13 1933.7 1459 817.48 1698.5 1495 1758.7 1470.5 1231.4 1488 TRUE FALSE FALSE 1012.492757 1996.353149 1657.824922 833.3035075 1568.361297 1367.617589 1560.806447 1432.886739 1222.830587 1552.154962 0.652314222 1.286181598 1.068079517 0.536868758 1.010441184 0.881108925 1.005573854 0.923159591 0.787827644 1 10.60005688 S(ph)MSGGHGLR ddPTM_HeLa_SAHA_4h_R1 2 SMSGGHGLR 9 0 H3BMQ0;P49815;A0A2R8Y5F1;A0A2R8YGD6;A0A2R8Y7C8;A0A2R8YDR3;A0A2R8Y7X5;A0A2R8YDZ2;X5D2U8;A0A2R8YGU4;A0A2R8Y6C9;P49815-5;P49815-3;P49815-2;P49815-6;P49815-7;P49815-4 H3BMQ0 TSC2 Tuberin 1 0 S(0.534)MS(0.466)GGHGLR;S(0.628)MS(0.372)GGHGLR ; 102.06 0.0093014 34744300 4382.9 4783.4 3011.1 4994.2 5563.5 6966.9 5508.3 5650 3755.6 4433.1 TRUE FALSE FALSE 4843.913531 4938.385299 3421.437027 5090.869963 5137.225832 6373.280925 4888.491587 5505.481181 3729.464474 4624.232636 1.047506454 1.067936172 0.739892928 1.1009113 1.110935854 1.378235359 1.057146552 1.190571845 0.806504509 1 12.17499826 -5.77247742 3.049528094 1.005989507 1.195760577 0.395019255 0.132943128 0.204795392 3.924819296 0.016689751 0.033783896 1.69E-06 5.77247742 0.189771069 S(ph)MSIDDTPR ddPTM_HeLa_SAHA_4h_R1 3 SMSIDDTPR 9 0 Q96N67-2;Q96N67-6;Q96N67;Q96N67-4;Q96N67-3;Q96N67-5;A0A1B0GUE9;Q96N67-7;A0A0C4DGY6;A0A1B0GVW2 Q96N67-2 DOCK7 Dedicator of cytokinesis protein 7 1 0 S(0.878)MS(0.122)IDDTPR;S(1)MSIDDTPR;S(0.996)MS(0.004)IDDTPR ;; 211.86 1.13E-15 72162000 4312.46 4006.31 3581.65 4230.8 4567.84 4548.46 5134.59 4976.8 4183.3 4232.6 TRUE FALSE FALSE 4766.064329 4136.117073 4069.73861 4312.693252 4217.853086 4160.905619 4556.83242 4849.500662 4154.188075 4415.0881 1.079494728 0.936814165 0.921779706 0.976807972 0.955327049 0.942428673 1.032104528 1.098392728 0.940907176 1 12.10822651 -7.260800944 24.9999926 1.037539177 0.977669708 0 0.060480689 73.77857551 2889029.907 0.009843318 0.01167156 5.49E-08 7.260800944 -0.059869469 S(ph)MSPNLLNR ddPTM_HeLa_SAHA_4h_R1 2 SMSPNLLNR 9 0 F8VVB8;Q9Y4F3-3;Q9Y4F3-4;Q9Y4F3-5;Q9Y4F3 F8VVB8 KIAA0430 Meiosis arrest female protein 1 1 0 S(0.677)MS(0.323)PNLLNR;S(0.789)MS(0.211)PNLLNR ; 117.25 0.0040863 8358200 2560.62 2164.22 1853.92 2392.71 2203.1 2198.05 2476.62 2340.7 2537 2282.15 TRUE FALSE FALSE 2829.95776 2234.342148 2106.562563 2439.024362 2034.298954 2010.763774 2197.944199 2280.828283 2519.34481 2380.544655 1.188785833 0.93858443 0.884907812 1.024565684 0.854551898 0.84466543 0.923294673 0.958111951 1.05830605 1 11.21707598 -7.127999205 6.644491574 1.088922541 0.914316146 0.572531897 0.065076731 0.153575542 7.704332525 0.01389779 0.017063463 7.45E-08 7.127999205 -0.174606396 S(ph)NDRNSMDIQCEVDALLER ddPTM_HeLa_SAHA_4h_R1 2 SNDRNSMDIQCEVDALLER 19 1 Q02241-2;H7BYN4;Q02241;A0A2U3TZL8;A0A2R8Y531;H0YME6 Q02241-2 KIF23 Kinesin-like protein KIF23;Kinesin-like protein 1 0 S(0.841)NDRNS(0.159)MDIQCEVDALLER;S(0.957)NDRNS(0.043)MDIQCEVDALLER ; 144.17 6.05E-05 46798000 2338.8 2167.14 2263.42 2230.88 2522.44 2342.9 2801.2 2188.4 2293.4 2487.45 TRUE FALSE FALSE 2584.805715 2237.356758 2571.86709 2274.061908 2329.171192 2143.271739 2486.001604 2132.423897 2277.440043 2594.696143 0.996188213 0.862280836 0.991201647 0.876427059 0.897666264 0.82602032 0.958108953 0.821839545 0.877728997 1 11.34134988 -6.89595991 0.735514392 1.002778528 0.875058901 0.061561937 0.064151348 0.336487779 0.370909605 0.010928173 0.016613053 1.27E-07 6.89595991 -0.127719628 S(ph)NFSNSADDIK ddPTM_HeLa_SAHA_4h_R1 3 SNFSNSADDIK 11 0 P45973 P45973 CBX5 Chromobox protein homolog 5 1 0 S(1)NFSNSADDIK;S(1)NFSNSADDIK;S(1)NFSNSADDIK ;; 164.93 0.00015653 78079100 4651.3 4106.6 4533.7 4648.07 5252.5 5469.9 5031.2 4867.8 5313.2 5030 TRUE FALSE FALSE 5140.545075 4239.656534 5151.529026 4738.040116 4850.054585 5003.833747 4465.076135 4743.288724 5276.225009 5246.867916 0.979735941 0.80803569 0.981829371 0.903022564 0.924371389 0.953680143 0.850998387 0.904022895 1.005595165 1 12.35724076 -7.489090268 24.00818593 0.99106004 0.906412658 0.452026854 0.046153632 175.2242722 124505.9427 0.007391285 0.008165519 3.24E-08 7.489090268 -0.084647382 S(ph)NGDLSPK ddPTM_HeLa_SAHA_4h_R1 1 SNGDLSPK 8 0 P49006 P49006 MARCKSL1 MARCKS-related protein 1 0 S(1)NGDLSPK 103.21 0.0088589 5710100 1555.6 2894.6 2003.1 2502.7 2985.6 4846.5 3757 3043.1 3697 4388.4 TRUE FALSE FALSE 1719.225145 2988.386939 2276.072036 2551.143377 2756.843973 4433.550934 3334.252472 2965.261908 3671.272276 4577.6054 0.375573033 0.652827555 0.497218925 0.557309588 0.602245876 0.968530606 0.72838355 0.64777578 0.802007153 1 12.16037739 -9.57584203 1.374691166 0.998815965 0.601861501 0.284601025 0.158628795 0.329290298 1.120957568 0.119522608 0.028311507 2.66E-10 9.57584203 -0.396954465 S(ph)NMSPHGLPAR ddPTM_HeLa_SAHA_4h_R1 1 SNMSPHGLPAR 11 0 H0Y4T7;E7ESY4;Q13330-3;Q13330 H0Y4T7 MTA1 Metastasis-associated protein MTA1 1 0 S(0.835)NMS(0.165)PHGLPAR 110.15 0.0041293 10673000 2553.6 2544.1 2189.1 2271.6 2870.1 2918.4 2802.6 3025.4 3613.2 3134.6 TRUE FALSE FALSE 2822.199364 2626.530509 2487.419148 2315.570103 2650.193558 2669.735902 2487.244072 2948.014649 3588.055447 3269.747946 0.86312444 0.803282257 0.760737277 0.708180001 0.810519221 0.816495933 0.760683732 0.901603028 1.097349247 1 11.67496371 -8.223404419 0.712544108 0.987304934 0.789072308 0.70431374 0.061373935 0.240132124 0.265466898 0.02118493 0.012469643 5.98E-09 8.223404419 -0.198232626 S(ph)NSAPLIHGLSDTSPVFQAEAPSAR ddPTM_HeLa_SAHA_4h_R1 2 SNSAPLIHGLSDTSPVFQAEAPSAR 25 0 Q96E09 Q96E09 FAM122A Protein FAM122A 1 0 S(0.5)NS(0.5)APLIHGLSDTSPVFQAEAPSAR;S(0.513)NS(0.487)APLIHGLSDTSPVFQAEAPSAR ; 62.105 0.0027667 156934000 1726.21 1654.39 1456.6 1846.2 2175.7 2337.2 2216 2359.7 1939.74 1776.82 TRUE FALSE FALSE 1907.780688 1707.993321 1655.097862 1881.935871 2008.998336 2138.057411 1966.649848 2299.342291 1926.241191 1853.427406 1.029325822 0.921532355 0.892993088 1.015381484 1.083936889 1.153569546 1.061088145 1.240589345 1.03928602 1 10.85597989 -5.610588412 2.659923795 0.996138417 1.142121571 0.616206933 0.059850366 0.161646458 2.306533248 0.009039621 0.020227499 2.45E-06 5.610588412 0.145983154 S(ph)NSDESNFSEK ddPTM_HeLa_SAHA_4h_R1 2 SNSDESNFSEK 11 0 A0A087WWW9;O95999 A0A087WWW9 BCL10 B-cell lymphoma/leukemia 10 1 0 S(0.483)NS(0.483)DES(0.004)NFS(0.03)EK;S(0.952)NS(0.048)DESNFSEK ; 168 0.00012112 21734800 1480.69 1593.39 1616.61 1252.5 1670.52 1837.88 1867.1 1780.67 1398.1 1140.05 TRUE FALSE FALSE 1636.435768 1645.016881 1836.913192 1276.743949 1542.525118 1681.282284 1657.008994 1735.12304 1388.370508 1189.203135 1.376077577 1.383293428 1.544658888 1.073613003 1.297108184 1.413788978 1.393377587 1.459063628 1.167479691 1 10.21577946 -9.162255334 0.732953378 0.977654727 1.366831323 0.422661953 0.126505437 0.450743196 0.401152871 0.105270201 0.024502328 6.88E-10 9.162255334 0.389176597 S(ph)NSFNNPLGNR ddPTM_HeLa_SAHA_4h_R1 1 SNSFNNPLGNR 11 0 O95835;O95835-2 O95835 LATS1 Serine/threonine-protein kinase LATS1 1 0 S(0.883)NS(0.117)FNNPLGNR 151.16 0.00048038 14718000 1405.1 1308.7 1248.8 1082 1457.1 1340.9 1313.8 1172 1196.9 1263.2 TRUE FALSE FALSE 1552.894865 1351.102739 1418.979961 1102.943675 1345.457313 1226.647776 1165.967766 1142.021937 1188.570675 1317.662734 1.178522261 1.025378273 1.076891623 0.83704551 1.021093849 0.93092697 0.884875724 0.866702767 0.902029514 1 10.36376543 -6.281040771 23.60797286 1.080581576 0.914379509 0.30392822 0.084742842 244.2788661 294209.6574 0.012318787 0.01883808 5.24E-07 6.281040771 -0.166202067 S(ph)NSFSDEREFSGPSTPTGTLEFEGGEVSLEGGK ddPTM_HeLa_SAHA_4h_R1 1 SNSFSDEREFSGPSTPTGTLEFEGGEVSLEGGK 33 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 S(0.497)NS(0.391)FS(0.079)DEREFS(0.028)GPS(0.002)T(0.001)PT(0.001)GT(0.001)LEFEGGEVSLEGGK 59.532 0.0007712 39440000 4083.9 4363.7 4892.5 4728.3 5277.3 4888.3 5606.2 4841.9 4690.2 4277.8 TRUE FALSE FALSE 4513.46334 4505.086743 5559.224421 4819.823084 4872.954414 4471.789339 4975.375621 4718.051209 4657.560516 4462.236893 1.011479993 1.009602773 1.24583803 1.080136084 1.092042967 1.00214073 1.114995851 1.057328717 1.04377258 1 12.12355139 -6.946172403 24.99998347 1.005689725 1.096758538 0.313075441 0.059058684 73.26620876 34027.85315 0.009003492 0.011832907 1.13E-07 6.946172403 0.091068813 S(ph)NSFSDEREFSGPSTPTGTLEFEGGEVSLEGGKVK ddPTM_HeLa_SAHA_4h_R1 1 SNSFSDEREFSGPSTPTGTLEFEGGEVSLEGGKVK 35 2 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 S(0.312)NS(0.257)FS(0.038)DEREFS(0.023)GPS(0.038)T(0.111)PT(0.111)GT(0.111)LEFEGGEVSLEGGKVK 54.53 0.0014036 9888000 796.04 273.34 1623.3 530.85 708.05 408.76 880.07 1300.4 351.45 535.83 TRUE FALSE FALSE 879.7711396 282.1963953 1844.51487 541.1253694 653.799362 373.9313484 781.0422074 1267.137651 349.0042308 558.9322536 1.574021062 0.504884793 3.300068762 0.968141248 1.169729172 0.669010146 1.397382603 2.267068402 0.624412402 1 9.126529619 -4.273530818 5.006712196 1.297482072 2.306962053 0.137684516 0.760179399 0.233777503 17.86389313 0.09446931 0.795704617 5.33E-05 4.273530818 1.009479981 S(ph)NSLPHSAVSNAGSK ddPTM_HeLa_SAHA_4h_R1 1 SNSLPHSAVSNAGSK 15 0 A0A088AWN2;Q8TBZ3-4;Q8TBZ3-5;Q8TBZ3-6;Q8TBZ3;Q8TBZ3-2;Q8TBZ3-7 A0A088AWN2 WDR20 WD repeat-containing protein 20 1 0 S(0.756)NS(0.222)LPHS(0.022)AVSNAGSK 95.227 0.0047876 6692900 2461.9 3644.4 1966.9 1978.1 4406.9 5993.2 4020.6 3137.6 2712.7 3427.4 TRUE FALSE FALSE 2720.853938 3762.480951 2234.938889 2016.388986 4069.244274 5482.545643 3568.191506 3057.344735 2693.8221 3575.171987 0.761041412 1.052391595 0.625127657 0.563997758 1.13819539 1.533505426 0.998047512 0.855160184 0.753480423 1 11.80379693 -5.575157015 24.77438118 0.8560599 1.152491039 0.344319793 0.217916578 87.73471357 41576.65685 0.032851853 0.065703716 2.66E-06 5.575157015 0.29643114 S(ph)NSPLPVPPSK ddPTM_HeLa_SAHA_4h_R1 1 SNSPLPVPPSK 11 0 Q13247;Q13247-3 Q13247 SRSF6 Serine/arginine-rich splicing factor 6 1 0 S(0.5)NS(0.5)PLPVPPSK 141.34 0.00086001 39337000 3541.5 3612.6 3832.6 3688.8 3882.9 4690.7 3819 3935.3 4316.9 3434.6 TRUE FALSE FALSE 3914.011219 3729.65061 4354.886769 3760.202058 3585.393041 4291.025971 3389.276069 3834.640724 4286.858341 3582.682415 1.092480652 1.041021832 1.215538042 1.049549366 1.000756591 1.197713186 0.94601633 1.070326722 1.196549916 1 11.80682445 -9.298614168 0.973890381 0.999051545 1.077193423 0 0.098132014 0.947194617 1.578329099 0.052392017 0.013362095 5.03E-10 9.298614168 0.078141878 S(ph)NSSSEAVLGQEELSAQAK ddPTM_HeLa_SAHA_4h_R1 1 SNSSSEAVLGQEELSAQAK 19 0 A0A1B0GTL5;Q9BXF6 A0A1B0GTL5 RAB11FIP5 Rab11 family-interacting protein 5 1 0 S(0.415)NS(0.415)S(0.13)S(0.041)EAVLGQEELSAQAK 166.34 1.01E-20 0 220.59 249.95 282.18 235.11 311.5 350.17 306.82 392.82 448.83 254.45 TRUE FALSE FALSE 243.7926683 258.048544 320.6340209 239.660894 287.6329373 320.333546 272.2958061 382.7722332 445.7065555 265.4205847 0.918514548 0.97222506 1.208022434 0.902947653 1.083687377 1.206890363 1.02590312 1.442134692 1.679246378 1 8.052136453 -1 0.467984206 0.970299739 11.29514208 0 0.247245876 41.9266366 0.435062301 0.020778849 421.4224593 0.1 1 10.32484234 S(ph)NSTTQVSQPR ddPTM_HeLa_SAHA_4h_R1 2 SNSTTQVSQPR 11 0 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 S(0.759)NS(0.087)T(0.087)T(0.066)QVS(0.001)QPR;S(0.681)NS(0.315)T(0.004)TQVSQPR ; 155.08 0.00033224 236950000 2501.7 2851.5 2209.92 2128.94 2985.1 2996.1 2888 2182.12 2135.8 2941.7 TRUE FALSE FALSE 2764.840284 2943.890471 2511.076389 2170.148712 2756.382283 2740.815424 2563.034639 2126.30453 2120.936794 3068.531083 0.901030561 0.959381017 0.818331743 0.707227222 0.898274193 0.893201128 0.835264356 0.692938892 0.691189607 1 11.58333248 -3.069422138 0.04118449 1.492179328 1.46E-07 0 0.119418338 255.2334816 1.210601429 14.50404442 32.5667279 0.000852271 3.069422138 -1.492179182 S(ph)NTLDIMDGR ddPTM_HeLa_SAHA_4h_R1 1 SNTLDIMDGR 10 0 H0Y9X0;A0A286YEZ9;A0A2C9F2R7;O94915 H0Y9X0 FRYL Protein furry homolog-like 1 0 S(0.5)NT(0.5)LDIMDGR 157.33 0.00026091 22231000 2127.9 2371.4 2031.6 2504.4 2692.3 2542.8 2419.4 3023.7 2528.6 2095.4 TRUE FALSE FALSE 2351.722285 2448.234916 2308.455868 2552.876283 2486.016556 2326.139135 2147.162744 2946.358132 2511.003267 2185.742949 1.075937263 1.120092789 1.056142429 1.167967297 1.13737828 1.064232707 0.982349158 1.347989311 1.148809959 1 11.09390803 -1.000000004 0.016439382 5.07E-08 2.444124683 0.015775286 0.097661785 3977.810238 5.098149938 297.4459345 481.4757634 0.099999999 1.000000004 2.444124632 S(ph)NTPESIAETPPAR ddPTM_HeLa_SAHA_4h_R1 1 SNTPESIAETPPAR 14 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 S(0.949)NT(0.051)PESIAETPPAR 153.2 5.11E-05 23372000 902.2 753.21 728.36 906.52 884.34 1043.9 1057.4 832.16 1012.6 840.28 TRUE FALSE FALSE 997.0975354 777.6144982 827.6171077 924.0670054 816.5820603 954.9538472 938.4185691 810.8745522 1005.553234 876.508583 1.137578747 0.887172714 0.944220198 1.054258935 0.931630421 1.089497428 1.070632493 0.925118781 1.14722577 1 9.775624408 -7.2781237 24.96932625 1.064967737 0.992224314 0.276995596 0.075652337 1138.612112 1704014.216 0.013711668 0.015703196 5.27E-08 7.2781237 -0.072743423 S(ph)PACSSLTPSLCK ddPTM_HeLa_SAHA_4h_R1 2 SPACSSLTPSLCK 13 0 Q96R06;J3KSV2;J3QRV8;F5GZT2 Q96R06 SPAG5 Sperm-associated antigen 5 1 0 S(1)PACSSLTPSLCK;S(1)PACSSLTPSLCK ; 115.78 0.0015181 6434800 1304.94 1196.39 1342.35 1295.79 1725.19 1217.67 1473.27 1419.85 1250.8 1133.03 TRUE FALSE FALSE 1442.199576 1235.153821 1525.278467 1320.871889 1593.006315 1113.917666 1307.493782 1383.532293 1242.095581 1181.880468 1.220258406 1.045075077 1.290552224 1.117601927 1.347857383 0.942496044 1.106282587 1.170619475 1.050948564 1 10.20686842 -9.464642843 1.146382427 0.998160701 1.159171424 0.174312214 0.111015901 0.589315837 1.359644711 0.076848345 0.018086017 3.43E-10 9.464642843 0.161010724 S(ph)PAFALK ddPTM_HeLa_SAHA_4h_R1 1 SPAFALK 7 0 Q9ULW0;Q9ULW0-2 Q9ULW0 TPX2 Targeting protein for Xklp2 1 0 S(1)PAFALK 86.67 0.022804 49846000 1939.8 2768.8 1997.7 2528.4 3560.8 3797.6 3502.3 3112.7 3918.7 3203.6 TRUE FALSE FALSE 2143.837064 2858.510937 2269.936152 2577.340838 3287.972273 3474.023115 3108.211986 3033.081641 3891.429448 3341.722874 0.64153646 0.855400356 0.679271214 0.771261094 0.983915303 1.039590429 0.930122605 0.907640087 1.164497953 1 11.70637638 -5.755701909 24.96937227 0.81250262 0.968108478 0.088757037 0.148336102 169.2781945 736687.6913 0.020921328 0.04094336 1.76E-06 5.755701909 0.155605858 S(ph)PAGGESATVAAK ddPTM_HeLa_SAHA_4h_R1 2 SPAGGESATVAAK 13 0 Q147X3 Q147X3 NAA30 N-alpha-acetyltransferase 30 1 0 S(1)PAGGESATVAAK;S(1)PAGGESATVAAK ; 149.82 0.00017557 27151000 1942.03 2557.47 1414.35 1840.17 2198.54 2714.7 2192.07 2004.32 3752.3 2278.4 TRUE FALSE FALSE 2146.301626 2640.333706 1607.090252 1875.789151 2030.08834 2483.392288 1945.412514 1953.052397 3726.187439 2376.632974 0.903085015 1.110955598 0.676204643 0.789263286 0.854186726 1.044920404 0.818558244 0.821772826 1.567843028 1 11.21470341 -8.03898062 0.458462136 0.998435505 0.856626438 0.169981285 0.216419611 1.395283935 0.710055835 0.081177057 0.046391853 9.14E-09 8.03898062 -0.141809068 S(ph)PALPPVWDVSASAK ddPTM_HeLa_SAHA_4h_R1 2 SPALPPVWDVSASAK 15 0 G3V471;P56179;P56179-2;P56179-3 G3V471 DLX6 Homeobox protein DLX-6 1 0 S(1)PALPPVWDVSASAK;S(1)PALPPVWDVSASAK ; 174.62 5.23E-07 16199500 2705.2 3121.4 2073.76 2078.7 2749.5 3227.1 2729.6 2438.4 2365.92 3071.1 TRUE FALSE FALSE 2989.745348 3222.535408 2356.361213 2118.936244 2538.833904 2952.132925 2422.458224 2376.029259 2349.45537 3203.510151 0.933271695 1.005938878 0.735556031 0.661442026 0.792516266 0.921530692 0.756188715 0.741695561 0.73340032 1 11.64543785 -6.761397959 25 0.970417686 0.770839331 0.30695939 0.098563894 0.498329656 300502.329 0.011051861 0.015065485 1.73E-07 6.761397959 -0.199578354 S(ph)PART(ph)PPSEEDSAEAER ddPTM_HeLa_SAHA_4h_R1 1 SPARTPPSEEDSAEAER 17 1 O43765;K7EMD6 O43765 SGTA Small glutamine-rich tetratricopeptide repeat-containing protein alpha 2 0 S(1)PART(1)PPSEEDSAEAER 80.382 0.0052946 0 785.23 1076.4 872.85 935.3 1057.3 1097.5 1044.8 806 1255.7 1139.9 TRUE FALSE FALSE 867.8240942 1111.276066 991.7974524 953.404084 976.2899024 1003.986826 927.2363542 785.3836871 1246.961481 1189.046668 0.729848641 0.934594156 0.83411146 0.801822258 0.821069458 0.844362844 0.779814939 0.660515444 1.048706931 1 10.21558962 -9.458827558 1.068232435 1.005702051 0.800206728 0.609073747 0.070639974 0.347022064 0.675709696 0.056066887 0.012386992 3.48E-10 9.458827558 -0.205495323 S(ph)PARTPPSEEDSAEAER ddPTM_HeLa_SAHA_4h_R1 2 SPARTPPSEEDSAEAER 17 1 O43765;K7EMD6 O43765 SGTA Small glutamine-rich tetratricopeptide repeat-containing protein alpha 1 0 S(0.893)PART(0.107)PPSEEDSAEAER;S(0.975)PART(0.025)PPSEEDSAEAER ; 86.548 0.0038861 17867400 872.002 839.72 1026.96 1121.91 967.87 1178.87 1224.82 1390.14 1012.22 1153.33 TRUE FALSE FALSE 963.7231712 866.927479 1166.908761 1143.62619 893.7120097 1078.423644 1087.00003 1354.582232 1005.175879 1203.055701 0.801062803 0.720604606 0.96995406 0.950601198 0.742868355 0.896403752 0.903532588 1.125951385 0.835518986 1 10.23248772 -4.257550806 4.127601618 0.886809897 1.14673083 0.408801618 0.090673035 0.219936305 8.11582116 0.014497523 0.169761759 5.53E-05 4.257550806 0.259920932 S(ph)PASPLNNQGIPTPAQLTK ddPTM_HeLa_SAHA_4h_R1 1 SPASPLNNQGIPTPAQLTK 19 0 A0A2U3U043;J3QLL6;J3KSG1;J3QRK1;Q719H9 A0A2U3U043 KCTD1 BTB/POZ domain-containing protein KCTD1 1 0 S(0.999)PAS(0.001)PLNNQGIPTPAQLTK 154.72 1.19E-14 0 120.19 183.13 197.16 206.68 232.89 169.6 112.32 334.45 238.93 154.1 TRUE FALSE FALSE 132.8321357 189.0635322 224.027938 210.6805903 215.0460185 155.1491259 99.68145799 325.8952533 237.2672667 160.7440051 0.826358255 1.176177811 1.393693891 1.310659082 1.337816725 0.965193854 0.620125509 2.027417775 1.476056706 1 7.328621124 -7.149437522 5.277917609 0.918503139 1.239443441 0 0.38016246 0.299211773 12.11151427 0.053288971 0.065523633 7.09E-08 7.149437522 0.320940302 S(ph)PAVKPAAAPK ddPTM_HeLa_SAHA_4h_R1 1 SPAVKPAAAPK 11 1 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 1 0 S(1)PAVKPAAAPK 109.16 0.019449 6466700 1439.1 2050.6 1193.2 1426 1533.4 2022.3 1878.9 1376.2 2364.7 1700.5 TRUE FALSE FALSE 1590.471141 2117.040785 1355.803082 1453.602292 1415.911223 1849.988663 1667.481227 1340.998797 2348.24386 1773.816877 0.896637732 1.193494556 0.764342193 0.81947709 0.798228522 1.042942305 0.940052634 0.755996188 1.323836688 1 10.79264136 S(ph)PCGLTEQYLHK ddPTM_HeLa_SAHA_4h_R1 1 SPCGLTEQYLHK 12 0 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 S(0.999)PCGLT(0.001)EQYLHK 139.58 0.00053954 7069200 1906.9 2122.8 1995.8 2437.9 2622.1 2882.7 2770.3 2596 2552.6 2323.6 TRUE FALSE FALSE 2107.476491 2191.580113 2267.77723 2485.08908 2421.195264 2637.077742 2458.578553 2529.598079 2534.836249 2423.781767 0.869499276 0.904198613 0.935635898 1.025294073 0.998932865 1.088001312 1.014356402 1.043657524 1.04581868 1 11.24304409 -6.230276166 3.823095516 0.933227958 1.03564436 0.371004534 0.051637001 0.162563344 5.211486325 0.008280442 0.013748491 5.88E-07 6.230276166 0.102416402 S(ph)PCGSPTGSPK ddPTM_HeLa_SAHA_4h_R1 1 SPCGSPTGSPK 11 0 A0A2R8Y8D8;A0A2R8Y5E1;A0A2R8YFD4;Q13191-3;Q13191-2;Q13191 A0A2R8Y8D8 CBLB E3 ubiquitin-protein ligase CBL-B 1 0 S(0.639)PCGS(0.166)PT(0.08)GS(0.115)PK 100.25 0.0036561 0 280.05 278.95 327.76 424.16 425.67 541.69 533.5 469.04 443.89 702.71 TRUE FALSE FALSE 309.5069439 287.988163 372.4254259 432.3702301 393.0552566 495.5349645 473.4691759 457.042636 440.8009333 733.0072671 0.422242668 0.392885823 0.508078764 0.58985804 0.536222865 0.676030084 0.645926988 0.623517196 0.601359568 1 9.517683691 -9.352915218 1.067962041 1.000878474 0.542908308 0.145790184 0.147749584 0.208642775 0.424574535 0.071576564 0.018525359 4.44E-10 9.352915218 -0.457970166 S(ph)PCLEPHILK ddPTM_HeLa_SAHA_4h_R1 2 SPCLEPHILK 10 0 E9PP00;Q9C0D7;Q9C0D7-2 E9PP00 ZC3H12C Probable ribonuclease ZC3H12C 1 0 S(1)PCLEPHILK;S(1)PCLEPHILK ; 140.91 0.00085613 9629900 9809.8 10891.8 9069.9 9752.5 9959.2 10769.5 10631.8 8300.6 12453.3 11066.3 TRUE FALSE FALSE 10841.63977 11244.70147 10305.89874 9941.27374 9196.128248 9851.878012 9435.481883 8088.282671 12366.63647 11543.42235 0.939204981 0.974121983 0.892794045 0.861206793 0.79665527 0.853462493 0.817390337 0.700683249 1.071314563 1 13.49478339 -1.77918667 0.189773197 1.016088362 1.49E-11 0.849939635 0.039970401 9.636222058 0.139741721 0.037193301 2.714989247 0.016626978 1.77918667 -1.016088362 S(ph)PDASSAFSPASPATPNGTK ddPTM_HeLa_SAHA_4h_R1 1 SPDASSAFSPASPATPNGTK 20 0 Q53GS7-2;Q53GS7 Q53GS7-2 GLE1 Nucleoporin GLE1 1 0 S(0.848)PDAS(0.075)S(0.075)AFS(0.002)PASPATPNGTK 102.47 0.00074874 4555200 730.88 677.56 513.22 744.3 748.08 815.65 934.01 774.07 766.01 771.44 TRUE FALSE FALSE 807.7573118 699.5133886 583.1589489 758.7070028 690.762272 746.1520313 828.9127366 754.2704102 760.679274 804.7005537 1.003798628 0.86928409 0.724690627 0.942843893 0.858409092 0.927241851 1.030088438 0.937330547 0.945294831 1 9.652308215 -7.271319945 23.35940306 1.001793804 0.898189982 0.195039437 0.075819944 269.878842 638039.9073 0.013129367 0.015122823 5.35E-08 7.271319945 -0.103603822 S(ph)PDEEDYDYESYEK ddPTM_HeLa_SAHA_4h_R1 1 SPDEEDYDYESYEK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 S(1)PDEEDYDYESYEK 131.17 0.00045294 7368000 375.98 412.14 206.59 472.39 421.78 536.13 352.92 216.03 579.98 421.34 TRUE FALSE FALSE 415.5273015 425.4936064 234.7430093 481.5337915 389.4633075 490.4487078 313.2085128 210.5042654 575.943872 439.5060294 0.945441641 0.968117791 0.53410646 1.095624996 0.886138714 1.115908941 0.712637579 0.478956491 1.310434518 1 8.779739147 -4.526955985 4.369051073 0.951716075 0.517022257 0.414503711 0.189954465 0.109982191 5.077811502 0.01996682 0.099230049 2.97E-05 4.526955985 -0.434693818 S(ph)PDEVTLTSIVPTR ddPTM_HeLa_SAHA_4h_R1 2 SPDEVTLTSIVPTR 14 0 A0A0C4DGG1;Q9UKS6;H0YDM6 A0A0C4DGG1 PACSIN3 Protein kinase C and casein kinase substrate in neurons protein 3 1 0 S(1)PDEVTLTSIVPTR;S(1)PDEVTLTSIVPTR ; 149.32 8.33E-05 7542700 119.91 141.36 132.84 0 102.56 258.36 127.17 317.94 374.1 108.52 TRUE FALSE FALSE 132.522684 145.9401567 150.9427434 0 94.70187496 236.3462745 112.8604969 309.8075552 371.4966076 113.1988283 1.170707206 1.289237344 1.333430263 0 0.836597661 2.087886227 0.997011176 2.736844187 3.281806122 1 6.822715215 -2.009082961 1.048029585 1.053544238 200 0.123367331 0.858979908 127.0191471 1.442635071 0.071225161 59249.7573 0.009793029 2.009082961 198.9464558 S(ph)PDGPVLSK ddPTM_HeLa_SAHA_4h_R1 1 SPDGPVLSK 9 0 Q96AY4 Q96AY4 TTC28 Tetratricopeptide repeat protein 28 1 0 S(1)PDGPVLSK 93.442 0.015238 12455000 2949.4 3577.1 3253.3 3444.7 4029.6 4260.5 3214.5 3123.2 4242.6 3905 TRUE FALSE FALSE 3259.631424 3693.000387 3696.642782 3511.37715 3720.852919 3897.481431 2852.796 3043.313066 4213.075401 4073.363661 0.800230889 0.906621823 0.907516021 0.862033799 0.913459546 0.956821378 0.700353869 0.747125305 1.034298863 1 11.99200491 -13.52287873 0.323628499 2.576053041 0.838842697 0.442520302 0.075860212 43.50430601 0.585484284 45.12069016 0.029934946 3.00E-14 13.52287873 -1.737210343 S(ph)PDLEASLDTLENNCHVGSDIDFRPK ddPTM_HeLa_SAHA_4h_R1 2 SPDLEASLDTLENNCHVGSDIDFRPK 26 1 Q13111;Q13111-3;Q13111-2;K7EJF1 Q13111 CHAF1A Chromatin assembly factor 1 subunit A 1 0 S(1)PDLEASLDTLENNCHVGSDIDFRPK;S(1)PDLEASLDTLENNCHVGSDIDFRPK ; 165.17 2.83E-11 23098000 2096.5 2683.6 1144.7 2353.71 2935.9 3497.6 2634.7 2510.4 3420.8 2501.2 TRUE FALSE FALSE 2317.019489 2770.550401 1300.693755 2399.269461 2710.951976 3199.584803 2338.236622 2446.187603 3396.994374 2609.038973 0.888073928 1.061904567 0.498533663 0.919598935 1.039061511 1.226346113 0.896206092 0.937581856 1.302009824 1 11.34930278 S(ph)PDNSIKMPEEEDEAPVLDVR ddPTM_HeLa_SAHA_4h_R1 1 SPDNSIKMPEEEDEAPVLDVR 21 1 Q9UKL0 Q9UKL0 RCOR1 REST corepressor 1 1 0 S(0.988)PDNS(0.012)IKMPEEEDEAPVLDVR 105.71 0.00012212 2911300 205.54 312.88 173.08 231.75 282.37 184.79 237.15 310.31 147.12 303.23 TRUE FALSE FALSE 227.1596403 323.0175173 196.666441 236.2358564 260.7348716 169.0448524 210.4652579 302.3727195 146.0961799 316.3037293 0.718169339 1.021225763 0.621764535 0.746863962 0.824318045 0.534438379 0.665389745 0.955956859 0.461885733 1 8.305166755 -10.69488566 0.336293603 1.316609011 0.730483025 0 0.220028432 7.247994021 0.498955221 1.805740029 0.052354641 2.02E-11 10.69488566 -0.586125985 S(ph)PDPGIVPQEAPVGNSLSELSEENFDGK ddPTM_HeLa_SAHA_4h_R1 3 SPDPGIVPQEAPVGNSLSELSEENFDGK 28 0 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;X6RGP5;A0A0C4DH09;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 S(1)PDPGIVPQEAPVGNSLSELSEENFDGK;S(1)PDPGIVPQEAPVGNSLSELSEENFDGK;S(0.998)PDPGIVPQEAPVGNS(0.002)LSELSEENFDGK ;; 111.33 1.05E-07 39770700 5238.1 8388.6 6684.4 5295.2 7307.8 9842.5 8018 5517.41 6942.3 6730.5 TRUE FALSE FALSE 5789.067391 8660.396144 7595.315221 5397.696253 6747.877943 9003.863628 7115.793538 5376.282641 6893.987969 7020.684793 0.824573038 1.233554333 1.081848202 0.768827602 0.961142416 1.282476552 1.013546933 0.765777527 0.98195378 1 12.77739604 S(ph)PDPYR ddPTM_HeLa_SAHA_4h_R1 1 SPDPYR 6 0 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6 P18583-10 SON Protein SON 1 0 S(1)PDPYR 96.19 0.021916 49904000 2095.8 3141.3 2094.1 3254.1 3492.1 4775.7 3307.1 2470 3835.4 4037.8 TRUE FALSE FALSE 2316.24586 3243.080181 2379.473042 3317.087811 3224.536052 4368.783493 2934.976404 2406.820977 3808.709139 4211.889319 0.549930372 0.76998229 0.564941968 0.787553414 0.765579484 1.037250308 0.696831323 0.571435001 0.904275695 1 12.04025181 -9.553135391 1.334021628 0.999395425 0.705878403 0.30338348 0.13907864 0.388510858 1.24281796 0.101925592 0.024308523 2.80E-10 9.553135391 -0.293517022 S(ph)PDSTANVR ddPTM_HeLa_SAHA_4h_R1 1 SPDSTANVR 9 0 B7ZM87;O75044;E9PDX4;A0A087WW56;A0A286YEY3;A0A075B7B5;P0DMP2 B7ZM87 SRGAP2;SRGAP2B SLIT-ROBO Rho GTPase-activating protein 2;SLIT-ROBO Rho GTPase-activating protein 2B 1 0 S(1)PDSTANVR 147.3 0.00055372 12165000 329.12 502.65 327.83 392.24 536.06 535.17 428.37 393.7 513.09 556.92 TRUE FALSE FALSE 363.7383517 518.9361898 372.5049651 399.8323724 494.9871986 489.5705052 380.1686802 383.6297241 509.5193649 580.9315467 0.626129453 0.893282854 0.641220067 0.688260733 0.852057702 0.842733551 0.65441218 0.660369929 0.877072984 1 9.182224365 -9.458903438 1.122988785 1.00418791 0.727278265 0.390514995 0.098998871 0.321373762 0.707078547 0.071333849 0.016586557 3.48E-10 9.458903438 -0.276909644 S(ph)PDVSPR ddPTM_HeLa_SAHA_4h_R1 1 SPDVSPR 7 0 Q8IY50-2 Q8IY50-2 1 0 S(1)PDVSPR 86.794 0.017687 10793000 68.236 67.173 132.48 0 0 67.209 99.938 0 0 73.555 TRUE FALSE FALSE 75.41337556 69.34944927 150.5336845 0 0 61.48241509 88.69271322 0 0 76.72631602 0.982888003 0.903854803 1.96195637 0 0 0.801321089 1.155962098 0 0 1 6.261649581 -6.225474058 24.99955613 1.049847452 0.434951901 0.199692887 0.564272751 564.7147043 392534.249 0.067424192 0.111807945 5.95E-07 6.225474058 -0.614895551 S(ph)PEAVGPELEAEEK ddPTM_HeLa_SAHA_4h_R1 4 SPEAVGPELEAEEK 14 0 Q96N64-3;Q96N64-2;Q96N64 Q96N64-3 PWWP2A PWWP domain-containing protein 2A 1 0 S(1)PEAVGPELEAEEK;S(1)PEAVGPELEAEEK;S(1)PEAVGPELEAEEK;S(1)PEAVGPELEAEEK ;;; 250.31 7.08E-34 119402000 3630.59 3799.86 3048.96 3893.94 3334.93 4166.12 4662.82 4470.99 4562.23 4030.1 TRUE FALSE FALSE 4012.472114 3922.977957 3464.45639 3969.312839 3079.408384 3811.143138 4138.147222 4356.62855 4530.48107 4203.857334 0.954473902 0.933185321 0.824113693 0.944207313 0.732519717 0.906582416 0.984369091 1.036340723 1.077696199 1 12.03749799 -7.537159646 1.434582469 0.985081344 0.90247057 0.224012923 0.084343356 0.503755707 2.078794057 0.016825418 0.017794379 2.90E-08 7.537159646 -0.082610773 S(ph)PEAVGPELEAEEKLSVR ddPTM_HeLa_SAHA_4h_R1 1 SPEAVGPELEAEEKLSVR 18 1 Q96N64-3;Q96N64-2;Q96N64 Q96N64-3 PWWP2A PWWP domain-containing protein 2A 1 0 S(1)PEAVGPELEAEEKLSVR 77.13 0.0046236 2627100 640.53 412.64 312.63 366.22 441.95 320.72 481.71 755.33 556.49 442.22 TRUE FALSE FALSE 707.9038843 426.0098067 355.2335883 373.3087177 408.0878865 293.3928517 427.506723 736.0097523 552.6173408 461.2862684 1.5346303 0.92352588 0.770093568 0.809277759 0.884673823 0.636032052 0.926770971 1.59555964 1.197992177 1 8.849518536 -7.143385929 9.954654558 1.252374153 0.909213821 0.213326962 0.268757475 0.451826859 35.78856542 0.050478297 0.061847788 7.19E-08 7.143385929 -0.343160332 S(ph)PEDQLGK ddPTM_HeLa_SAHA_4h_R1 2 SPEDQLGK 8 0 Q9UK61-3;Q9UK61;Q9UK61-2 Q9UK61-3 FAM208A Protein FAM208A 1 0 S(1)PEDQLGK;S(1)PEDQLGK ; 135.8 0.0013353 41505000 5531 6869.9 5128.1 6081.2 7095.8 8414.9 7101.1 6130.2 9019.6 6702.2 TRUE FALSE FALSE 6112.775957 7092.489268 5826.930762 6198.91042 6552.121337 7697.903179 6302.065539 5973.39836 8956.831869 6991.164642 0.874357317 1.01449324 0.833470682 0.886677791 0.937200262 1.101090244 0.90143286 0.854421068 1.281164488 1 12.7713171 -9.600884342 1.398171536 1.000001439 0.921770144 0.189031918 0.117667281 0.74309832 2.606486927 0.054248925 0.012534304 2.51E-10 9.600884342 -0.078231294 S(ph)PEPDGPAPAFLR ddPTM_HeLa_SAHA_4h_R1 2 SPEPDGPAPAFLR 13 0 J3KQR7;Q9Y4F5-3;Q9Y4F5-2;Q9Y4F5 J3KQR7 CEP170B Centrosomal protein of 170 kDa protein B 1 0 S(1)PEPDGPAPAFLR;S(1)PEPDGPAPAFLR ; 134.56 0.00058114 5408400 252.6 841.4 300.21 519.11 655.76 1065.75 573.1 622.43 674.84 501.14 TRUE FALSE FALSE 279.169627 868.6619121 341.1210554 529.1581247 605.5158105 974.9421043 508.6132797 606.5091419 670.1437335 522.7465979 0.534043891 1.661726572 0.652555285 1.012265076 1.158335249 1.865037684 0.972963347 1.160235465 1.281966705 1 9.029967957 -6.217407554 0.940871273 0.816138771 1.304621682 0 0.391873491 0.633207121 1.10664958 0.068902653 0.155231579 6.06E-07 6.217407554 0.488482911 S(ph)PEPEATLTFPFLDK ddPTM_HeLa_SAHA_4h_R1 5 SPEPEATLTFPFLDK 15 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 S(1)PEPEATLTFPFLDK;S(1)PEPEATLTFPFLDK;S(1)PEPEATLTFPFLDK;S(1)PEPEATLTFPFLDK;S(1)PEPEATLTFPFLDK ;;;; 209.6 3.23E-13 586500700 4241.97 7376.89 4120.83 5503.57 7006.61 7833.17 6187.6 4581.69 10930.9 5982.08 TRUE FALSE FALSE 4688.159867 7615.906076 4682.395252 5610.099556 6469.765056 7165.739848 5491.354963 4464.497004 10854.83098 6239.996744 0.751308063 1.220498405 0.750384246 0.899054885 1.036821864 1.148356344 0.880025293 0.715464637 1.739557154 1 12.60732956 -5.931721104 24.99985219 0.897957974 0.956641672 0 0.311967642 200.1445175 73278.37639 0.025488715 0.046202218 1.17E-06 5.931721104 0.058683698 S(ph)PEPEVLSTQEDLFDQSNK ddPTM_HeLa_SAHA_4h_R1 2 SPEPEVLSTQEDLFDQSNK 19 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 S(1)PEPEVLSTQEDLFDQSNK;S(1)PEPEVLSTQEDLFDQSNK ; 275.65 1.60E-64 19885200 4534.4 7511.4 4845.7 5830.2 6964.2 8644.7 6677.2 5193.5 10900.5 7107.7 TRUE FALSE FALSE 5011.348997 7754.774288 5506.046761 5943.051952 6430.604501 7908.122926 5925.863883 5060.65779 10824.64253 7414.147731 0.675917068 1.04594278 0.742640552 0.801582618 0.867342375 1.066626025 0.799264339 0.682567703 1.459998226 1 12.85606515 -9.690010263 1.570358351 0.99985684 0.81787702 0.258817178 0.195146151 0.509628078 2.267850052 0.094999333 0.021140562 2.04E-10 9.690010263 -0.18197982 S(ph)PEPGQTWTR ddPTM_HeLa_SAHA_4h_R1 2 SPEPGQTWTR 10 0 Q09666;E9PJZ0;E9PKR9;E9PJC6;E9PLK4;Q09666-2 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 S(1)PEPGQTWTR;S(1)PEPGQTWTR ; 132.56 0.0014761 92726000 1293.38 1555.78 1369.08 1540.94 1682.04 2081.24 1782.95 1797.03 2022.67 1657.25 TRUE FALSE FALSE 1429.423643 1606.188293 1555.651093 1570.767122 1553.162459 1903.906643 1582.327774 1751.064575 2008.594075 1728.702158 0.826876762 0.92912957 0.899895384 0.908639533 0.898455787 1.101350302 0.915327008 1.012935957 1.161908699 1 10.75547361 -5.347018541 24.99999994 0.914034666 1.000434528 0.008887407 0.097319749 87.3220498 25507.44901 0.010442423 0.023349976 4.50E-06 5.347018541 0.086399861 S(ph)PEQLCAPAEAAPCPAEPER ddPTM_HeLa_SAHA_4h_R1 2 SPEQLCAPAEAAPCPAEPER 20 0 Q86UD0 Q86UD0 SAPCD2 Suppressor APC domain-containing protein 2 1 0 S(1)PEQLCAPAEAAPCPAEPER;S(1)PEQLCAPAEAAPCPAEPER ; 168.4 5.83E-07 8044900 133.084 352.771 603.58 356.8 544.38 512.86 584.58 417.87 689.76 384.78 TRUE FALSE FALSE 147.0823857 364.2010119 685.8327391 363.7063799 502.669722 469.1614427 518.8015199 407.1814905 684.959904 401.3697489 0.366451099 0.907395271 1.708730518 0.906162911 1.25238567 1.168900855 1.292577533 1.01447977 1.706555878 1 8.648788075 -6.993090496 24.9063707 0.697460907 1.219411062 0 0.400988374 120.2614449 433498.0825 0.046853151 0.061499965 1.02E-07 6.993090496 0.521950155 S(ph)PERPTGDLR ddPTM_HeLa_SAHA_4h_R1 1 SPERPTGDLR 10 1 Q5T200-2;Q5T200;Q5T9K0 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 S(1)PERPTGDLR 77.387 0.016999 6839600 1273 1165.5 938.62 1268.9 1407.3 1348.1 1340.4 1205.5 1164.4 1431.1 TRUE FALSE FALSE 1406.899981 1203.262965 1066.530245 1293.461394 1299.472978 1233.234296 1189.574664 1174.665056 1156.296846 1492.801725 0.942456026 0.806043391 0.714448696 0.866465635 0.870492683 0.826120626 0.796873854 0.786886186 0.774581665 1 10.54380684 -7.364382019 3.207655054 0.976035361 0.810320249 0.083999678 0.076430032 0.095624371 1.812793678 0.008289967 0.009449986 4.32E-08 7.364382019 -0.165715113 S(ph)PESQVIGENTKQP ddPTM_HeLa_SAHA_4h_R1 1 SPESQVIGENTKQP 14 1 O95218-2 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 S(0.998)PES(0.002)QVIGENTKQP 110.55 0.0045228 0 494.3 522.99 461.8 586.64 368.05 651.39 697.98 485.97 621.89 774.75 TRUE FALSE FALSE 546.2927419 539.9352191 524.731699 597.9952655 339.8500885 595.8879074 619.4414534 473.5395911 617.5622169 808.153264 0.675976657 0.668109928 0.649297259 0.739952794 0.420526778 0.737345172 0.766490072 0.585952705 0.764164725 1 9.658485112 -9.096396307 0.574173707 1.042999558 0.647750969 0.299128349 0.117444186 0.512766214 0.264165065 0.106226142 0.02198234 8.01E-10 9.096396307 -0.395248589 S(ph)PFEGAVTESQSLFSDNFR ddPTM_HeLa_SAHA_4h_R1 4 SPFEGAVTESQSLFSDNFR 19 0 O95628-5;O95628-3;O95628-2;O95628;O95628-8;O95628-4;O95628-7;O95628-9;O95628-10;O95628-6 O95628-5 CNOT4 CCR4-NOT transcription complex subunit 4 1 0 S(0.998)PFEGAVT(0.002)ESQSLFSDNFR;S(1)PFEGAVTESQSLFSDNFR;S(1)PFEGAVTESQSLFSDNFR;S(1)PFEGAVTESQSLFSDNFR ;;; 248.46 1.06E-41 53035200 969.943 1657.29 1088.12 1304.13 1111.75 1346.263 1554 963.35 1579.913 1008.652 TRUE FALSE FALSE 1071.966055 1710.987283 1236.403327 1329.373322 1026.567955 1231.553819 1379.13983 938.7089019 1568.918257 1052.139924 1.018843626 1.626197471 1.175132032 1.263494799 0.975695278 1.170522846 1.310795075 0.892190174 1.491168828 1 10.03911087 -7.472861485 24.99997556 1.008312708 1.206527276 0 0.240381464 412.714352 206286.8521 0.030220037 0.034499495 3.37E-08 7.472861485 0.198214568 S(ph)PGALETPSAAGSQGNTASQGK ddPTM_HeLa_SAHA_4h_R1 4 SPGALETPSAAGSQGNTASQGK 22 0 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 S(1)PGALETPSAAGSQGNTASQGK;S(1)PGALETPSAAGSQGNTASQGK;S(1)PGALETPSAAGSQGNTASQGK;S(0.998)PGALET(0.002)PSAAGSQGNTASQGK ;;; 304.29 2.23E-98 79138000 4438.98 4793.47 4123.34 4720.12 4984.17 5693.14 4626.03 4644.88 5867.27 4715.24 TRUE FALSE FALSE 4905.892283 4948.781573 4685.247302 4811.484748 4602.283971 5208.052443 4105.496929 4526.070695 5826.43919 4918.537072 0.997429157 1.006149085 0.952569277 0.978234926 0.935701796 1.05886209 0.834698787 0.920206685 1.184587837 1 12.26401356 -4.754482761 24.99999784 0.993230919 0.877452725 0.345565032 0.070709916 70.04966088 251730.5358 0.004572697 0.016384175 1.76E-05 4.754482761 -0.115778194 S(ph)PGAPCQECSR ddPTM_HeLa_SAHA_4h_R1 1 SPGAPCQECSR 11 0 Q9NWF9-3;Q9NWF9;Q9NWF9-1 Q9NWF9-3 RNF216 E3 ubiquitin-protein ligase RNF216 1 0 S(1)PGAPCQECSR 104.81 0.0054402 3466700 123.67 267.66 124.32 108.72 262.5 341.29 212.34 216.1 113.95 259.54 TRUE FALSE FALSE 136.678178 276.3323596 141.2616822 110.8244328 242.3873067 312.210172 188.4469444 210.5724749 113.1570127 270.7300396 0.504850434 1.020693382 0.521780599 0.40935403 0.895309982 1.153215847 0.696069578 0.777795014 0.417969919 1 8.080711164 -3.404261003 17.51849208 0.76884979 0.756913505 0 0.25866093 0 0 0.03451996 0 0.00039422 3.404261003 -0.011936284 S(ph)PGAPGPLTLK ddPTM_HeLa_SAHA_4h_R1 2 SPGAPGPLTLK 11 0 Q15942;Q15942-2;H0Y2Y8;C9JJK5 Q15942 ZYX Zyxin 1 0 S(1)PGAPGPLTLK;S(1)PGAPGPLTLK ; 124.12 0.0018413 844140000 10435.5 10436.4 9752.2 9602.6 12449.3 11070.4 11552.5 10482.6 10535 9178.6 TRUE FALSE FALSE 11533.15377 10774.54621 11081.17903 9788.472209 11495.43732 10127.13964 10252.5823 10214.47027 10461.68608 9574.334365 1.204590662 1.12535721 1.157383752 1.02236582 1.200651334 1.057738246 1.070840218 1.066859573 1.092680251 1 13.22495647 S(ph)PGASNFSTLPK ddPTM_HeLa_SAHA_4h_R1 5 SPGASNFSTLPK 12 0 Q9Y4E8 Q9Y4E8 USP15 Ubiquitin carboxyl-terminal hydrolase 15 1 0 S(1)PGASNFSTLPK;S(0.89)PGAS(0.11)NFSTLPK;S(0.998)PGAS(0.002)NFSTLPK;S(1)PGASNFSTLPK;S(0.999)PGAS(0.001)NFSTLPK ;;;; 193.51 3.50E-07 89303000 6343.28 7509.54 6059.44 6142.83 7369.38 8523.61 7284.2 6023.68 7805.99 7279.4 TRUE FALSE FALSE 7010.495294 7752.854023 6885.188927 6261.733357 6804.739696 7797.350475 6464.562645 5869.602988 7751.66748 7593.250559 0.923253518 1.021019123 0.906751183 0.824644638 0.896156349 1.026879123 0.851356424 0.773002674 1.02086286 1 12.8905019 -1 0.17477312 0.995125104 0.316045973 0.414200314 0.065918259 52.17727944 0.557054938 0.093992183 9.387073363 0.1 1 -0.679079131 S(ph)PGEPGGAAPER ddPTM_HeLa_SAHA_4h_R1 2 SPGEPGGAAPER 12 0 Q96EB6;Q96EB6-2 Q96EB6 SIRT1 NAD-dependent protein deacetylase sirtuin-1;SirtT1 75 kDa fragment 1 0 S(1)PGEPGGAAPER;S(1)PGEPGGAAPER ; 128.35 0.0011311 147286000 1110.34 912.21 932.17 842.15 953.24 1212.81 1251.82 1106.39 1030.12 933.78 TRUE FALSE FALSE 1227.130656 941.7662025 1059.201273 858.451031 880.2029571 1109.471765 1110.961919 1078.090146 1022.951311 974.0398256 1.259836224 0.966866218 1.087431176 0.881330525 0.903662185 1.13904148 1.14057135 1.106823476 1.050215078 1 9.927836951 -7.223829355 24.99478971 1.12270052 1.031892932 0.076592517 0.106980053 1042.989645 693148.6283 0.021856855 0.026768847 5.97E-08 7.223829355 -0.090807588 S(ph)PGEYINIDFGEPGAR ddPTM_HeLa_SAHA_4h_R1 3 SPGEYINIDFGEPGAR 16 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 S(1)PGEYINIDFGEPGAR;S(1)PGEYINIDFGEPGAR;S(1)PGEYINIDFGEPGAR ;; 154.31 2.84E-05 44566700 629.13 620.32 726.72 777.98 703.26 920.35 699.86 608.67 997.15 886.18 TRUE FALSE FALSE 695.30478 640.418775 825.753617 793.0389279 649.3763707 841.9310023 621.1099109 593.1011027 990.210752 924.3875567 0.752178861 0.692803327 0.893298066 0.857907403 0.702493631 0.910798719 0.671915049 0.641615195 1.071207358 1 9.852354029 -13.52287875 0.244047715 2.450443435 0.741364116 0.584687109 0.090885987 29.41760344 0.386219748 20.46605872 0.057192216 3.00E-14 13.52287875 -1.709079319 S(ph)PGGPGSHVR ddPTM_HeLa_SAHA_4h_R1 2 SPGGPGSHVR 10 0 O75382-3;O75382-2;O75382;A0A1W2PPI7;O75382-4 O75382-3 TRIM3 Tripartite motif-containing protein 3 1 0 S(1)PGGPGSHVR;S(1)PGGPGSHVR ; 86.803 0.016305 2507100 639.04 601.12 552.02 593.48 586.95 759.72 963.09 576.03 584.64 717.92 TRUE FALSE FALSE 706.2571592 620.5966824 627.2464108 604.9676636 541.9780178 694.9875819 854.7205785 561.2959867 580.5714426 748.8730446 0.943093311 0.828707465 0.837587112 0.807837414 0.723724831 0.928044596 1.141342427 0.749520884 0.775260168 1 9.548577351 -7.526021616 2.501425106 0.978399575 0.865204611 0 0.127131189 0.361730427 4.556698853 0.020978799 0.022646262 2.98E-08 7.526021616 -0.113194964 S(ph)PGHMVILDQTK ddPTM_HeLa_SAHA_4h_R1 6 SPGHMVILDQTK 12 0 Q9NWH9;H7C3F4;Q9NWH9-3 Q9NWH9 SLTM SAFB-like transcription modulator 1 0 S(1)PGHMVILDQTK;S(1)PGHMVILDQTK;S(1)PGHMVILDQTK;S(1)PGHMVILDQTK;S(0.998)PGHMVILDQT(0.002)K;S(1)PGHMVILDQTK ;;;;; 189.99 6.35E-07 117112000 13212.1 14312.9 10535.2 12724.4 14483.9 14475.2 15826.6 12567 12861.5 12259.76 TRUE FALSE FALSE 14601.8093 14776.64735 11970.88219 12970.69916 13374.14671 13241.83152 14045.74931 12245.55434 12771.99577 12788.33825 1.141806622 1.155478301 0.936078008 1.014259938 1.04580802 1.03546147 1.098324821 0.957556337 0.99872208 1 13.64254119 -6.764404236 24.99929632 1.075473844 1.020741826 0.169175457 0.063603766 132.3382665 1115861.879 0.011593044 0.015603201 1.72E-07 6.764404236 -0.054732018 S(ph)PGKAEAESDALPDDTVIESEALPSDIAAEAR ddPTM_HeLa_SAHA_4h_R1 3 SPGKAEAESDALPDDTVIESEALPSDIAAEAR 32 1 Q9GZR7-2;Q9GZR7;G3V529;A0A1W2PRR2;F5GYL3 Q9GZR7-2 DDX24 ATP-dependent RNA helicase DDX24 1 0 S(0.959)PGKAEAES(0.004)DALPDDT(0.037)VIESEALPSDIAAEAR;S(0.925)PGKAEAES(0.071)DALPDDT(0.004)VIESEALPSDIAAEAR;S(0.993)PGKAEAES(0.007)DALPDDTVIESEALPSDIAAEAR ;; 104.54 6.52E-10 170661000 5575.6 5319.7 4351.9 6681.6 5887.7 6171.2 6365.8 6820.6 6407.1 5779.3 TRUE FALSE FALSE 6162.06719 5492.06177 4944.954268 6810.93203 5436.585698 5645.379042 5649.50343 6646.138928 6362.512469 6028.473906 1.022160382 0.911020244 0.820266347 1.129793732 0.901817903 0.936452431 0.937136582 1.102457941 1.055410137 1 12.55757712 -7.293705852 24.1900566 1.010464628 0.959319313 0.088811934 0.088207995 900.508933 675105.7627 0.014084617 0.01610723 5.09E-08 7.293705852 -0.051145315 S(ph)PGLCSDSLEK ddPTM_HeLa_SAHA_4h_R1 2 SPGLCSDSLEK 11 0 Q5VUA4;Q5VUA4-2 Q5VUA4 ZNF318 Zinc finger protein 318 1 0 S(1)PGLCSDSLEK;S(1)PGLCSDSLEK ; 177.83 4.32E-05 29425000 2391.5 2549.5 2068.2 2311.77 2533.8 3148.1 2664.5 2890.1 3091.1 2435.3 TRUE FALSE FALSE 2643.048943 2632.105473 2350.043525 2356.517651 2339.660791 2879.864169 2364.683447 2816.175427 3069.588783 2540.297701 1.040448504 1.036140556 0.925105559 0.927654129 0.921018348 1.133671919 0.930868633 1.108600549 1.208357895 1 11.31078186 -4.227350666 22.82094977 1.004917353 1.10860122 0.08013419 0.092243759 6296.061788 4214709.803 0.008922636 1.706344769 5.92E-05 4.227350666 0.103683867 S(ph)PGLLDTTPIR ddPTM_HeLa_SAHA_4h_R1 4 SPGLLDTTPIR 11 0 Q8IY92-2;Q8IY92 Q8IY92-2 SLX4 Structure-specific endonuclease subunit SLX4 1 0 S(1)PGLLDTTPIR;S(1)PGLLDTTPIR;S(1)PGLLDTTPIR;S(1)PGLLDTTPIR ;;; 116.74 0.002514 15796000 1671.24 1469.95 1384.03 1908.63 1846.18 1860.9 1912.64 1802.48 2694.17 1815.02 TRUE FALSE FALSE 1847.028691 1517.577344 1572.638401 1945.574294 1704.726087 1702.340851 1697.424713 1756.375172 2675.421052 1893.274395 0.975573692 0.801562282 0.830644731 1.027624046 0.900411526 0.899151679 0.896555047 0.927691821 1.413118489 1 10.8866678 -7.488043538 21.43231288 0.989223938 0.899373028 0.203544265 0.145379703 66.90089977 41161.85802 0.009828982 0.01091063 3.25E-08 7.488043538 -0.089850911 S(ph)PGLVPPS(ph)PEFAPR ddPTM_HeLa_SAHA_4h_R1 1 SPGLVPPSPEFAPR 14 0 H3BS42;Q9H5H4 H3BS42 ZNF768 Zinc finger protein 768 2 0 S(1)PGLVPPS(1)PEFAPR 139 5.48E-07 0 458.92 482.47 470.8 554.28 599.81 670.04 642.42 562.38 871.45 605.9 TRUE FALSE FALSE 507.1913112 498.1023446 534.9581722 565.0088909 553.8526874 612.9488225 570.1332108 547.9951339 865.3855085 632.0233142 0.802488294 0.788107548 0.84642158 0.893968432 0.876316862 0.969819956 0.902076234 0.867048923 1.369230358 1 9.303833968 -9.490579231 1.266749286 0.999162235 0.863161849 0.342603924 0.12863018 0.332470886 0.96387624 0.038388201 0.009598752 3.23E-10 9.490579231 -0.136000385 S(ph)PGLVQT(ph)S(ph)GLPK ddPTM_HeLa_SAHA_4h_R1 1 SPGLVQTSGLPK 12 0 A0A1B0GUW6 A0A1B0GUW6 3 0 S(1)PGLVQT(1)S(1)GLPK 80.522 0.0069149 0 1006.1 1037.2 663.43 762.35 920.91 1021 887 898.26 1109.8 1008.2 TRUE FALSE FALSE 1111.926214 1070.805961 753.8387854 777.1063866 850.3500748 934.005056 787.1924255 875.2838099 1102.076811 1051.668436 1.057297315 1.018197299 0.71680271 0.738927175 0.808572403 0.888117418 0.748517687 0.832281145 1.047931814 1 10.03846422 -6.774062711 24.94049221 1.02714862 0.790172293 0.856123625 0.048587343 60.16826568 118876.9672 0.008213283 0.010834789 1.68E-07 6.774062711 -0.236976327 S(ph)PGMLEPLGSSR ddPTM_HeLa_SAHA_4h_R1 4 SPGMLEPLGSSR 12 0 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(1)PGMLEPLGSSR;S(1)PGMLEPLGSSR;S(1)PGMLEPLGSSR;S(1)PGMLEPLGSSR ;;; 194.86 2.40E-07 249041000 1497.34 1620.44 1179.75 1451.32 1930.14 1857.57 1545.84 1536.69 1749.6 1382.96 TRUE FALSE FALSE 1654.837091 1672.943319 1340.520186 1479.412397 1782.25309 1699.294586 1371.898015 1497.383695 1737.424391 1442.586174 1.147132228 1.159683456 0.929247909 1.025527919 1.235456933 1.17795014 0.950999004 1.037985614 1.204381702 1 10.49444179 S(ph)PGNTSQPPAFFSK ddPTM_HeLa_SAHA_4h_R1 3 SPGNTSQPPAFFSK 14 0 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;H7C184;Q9Y618-2 C9JE98;Q9Y618-2 NCOR2 Nuclear receptor corepressor 2 1 0 S(1)PGNTSQPPAFFSK;S(1)PGNTSQPPAFFSK;S(0.999)PGNT(0.001)SQPPAFFSK ;; 165.89 7.09E-06 177300000 5605.37 6067.6 4957.6 5703.4 6697.1 7220.2 6451.6 5992.4 7345.1 6043.1 TRUE FALSE FALSE 6194.968535 6264.194221 5633.19591 5813.797554 6183.969645 6604.99834 5725.648988 5839.123085 7293.984851 6303.647615 0.982759334 0.99374118 0.893640675 0.922291015 0.981014489 1.04780577 0.908307275 0.926308614 1.157105425 1 12.62197117 -6.89135026 19.01326748 0.991788397 0.949362338 0.200950483 0.066506955 2.517825069 428.2854992 0.00687488 0.009035399 1.28E-07 6.89135026 -0.042426059 S(ph)PGPAADGPIDLSK ddPTM_HeLa_SAHA_4h_R1 1 SPGPAADGPIDLSK 14 0 Q8IX07 Q8IX07 ZFPM1 Zinc finger protein ZFPM1 1 0 S(1)PGPAADGPIDLSK 123.72 0.00076655 5261400 521.17 682.83 670.96 669.72 500.23 688.64 561.89 630.77 623.69 515.23 TRUE FALSE FALSE 575.9890518 704.95414 762.3949346 682.683399 461.9024855 629.9639978 498.6646584 614.6358167 619.3496905 537.4440868 1.071719023 1.311679033 1.418556745 1.270240786 0.859442865 1.172147975 0.92784472 1.143627462 1.152398372 1 9.069970861 -3.131317891 14.39566057 1.08689802 1.070804581 0 0.171385569 0 0 0.023761942 0 0.000739064 3.131317891 -0.016093439 S(ph)PGPPALKHPATK ddPTM_HeLa_SAHA_4h_R1 1 SPGPPALKHPATK 13 1 Q8IU81 Q8IU81 IRF2BP1 Interferon regulatory factor 2-binding protein 1 1 0 S(1)PGPPALKHPATK 62.732 0.016625 18493000 5676.4 5041.9 5161.7 4280.4 3792 4161.6 4736.2 4046.9 3988.7 5067.4 TRUE FALSE FALSE 6273.469796 5205.260868 5865.109595 4363.253332 3501.457779 3807.008267 4203.270311 3943.386158 3960.942312 5285.880413 1.186835362 0.984748133 1.109580455 0.825454416 0.662417139 0.720222171 0.79518831 0.746022583 0.749343913 1 12.36792807 -6.151818601 3.656884625 1.08280714 0.735204769 0.483685835 0.122416763 0.076449537 1.869867925 0.012331019 0.021072249 7.05E-07 6.151818601 -0.347602371 S(ph)PGRPTQGALGEQQDLSNTTSK ddPTM_HeLa_SAHA_4h_R1 1 SPGRPTQGALGEQQDLSNTTSK 22 1 A0A2R8YGX0;P10071 A0A2R8YGX0 GLI3 Transcriptional activator GLI3;Transcriptional repressor GLI3R 1 0 S(0.996)PGRPT(0.002)QGALGEQQDLS(0.002)NTTSK 114.68 2.80E-05 9660200 926.04 904.65 732.08 844.48 736.91 1270.4 988.19 932 1168.5 702.88 TRUE FALSE FALSE 1023.445136 933.9612536 831.8440499 860.8261315 680.448115 1162.154773 876.9962604 908.1607895 1160.368313 733.1845966 1.395890122 1.273841892 1.134562911 1.174091948 0.928072027 1.585077998 1.196146597 1.238652304 1.582641423 1 9.518032667 -9.561744969 1.349348064 1.000624029 1.25632537 0 0.242078315 0.489815747 1.604434866 0.112915114 0.026862621 2.74E-10 9.561744969 0.255701341 S(ph)PGSNSKVPEIEVTVEGPNNNNPQTSAVR ddPTM_HeLa_SAHA_4h_R1 2 SPGSNSKVPEIEVTVEGPNNNNPQTSAVR 29 1 P78347-2;P78347-4;P78347-3;P78347;A0A494C1K3 P78347-2 GTF2I General transcription factor II-I 1 0 S(0.499)PGS(0.111)NS(0.39)KVPEIEVTVEGPNNNNPQTSAVR;S(0.764)PGS(0.146)NS(0.09)KVPEIEVTVEGPNNNNPQTSAVR ; 120.85 1.88E-11 268040000 966.82 895.36 1004.39 904.94 872.68 985.44 809.87 1070.85 449.48 1039.29 TRUE FALSE FALSE 1068.514564 924.3702515 1141.263039 922.4564223 805.8154469 901.4749681 718.7412961 1043.459208 446.3520321 1084.098878 0.985624637 0.852662308 1.052729656 0.850896944 0.743304382 0.831543124 0.662985001 0.962512948 0.411726311 1 10.08228063 -6.08064249 4.917457142 0.983987133 0.792666551 0 0.199886781 0.117854579 5.039025913 0.011560429 0.019616048 8.31E-07 6.08064249 -0.191320582 S(ph)PGSPVCR ddPTM_HeLa_SAHA_4h_R1 1 SPGSPVCR 8 0 Q86VQ1;H7C2L5;H7C0Q2 Q86VQ1 GLCCI1 Glucocorticoid-induced transcript 1 protein 1 0 S(0.999)PGS(0.001)PVCR 120.31 0.0035399 6098100 666.95 642.67 599.49 800.02 892.95 611.87 663.69 756.8 751.39 814.43 TRUE FALSE FALSE 737.1028611 663.4929297 681.1853752 815.5055439 824.5323639 559.7352337 589.0098545 737.4421518 746.1610158 849.544063 0.867645238 0.780998842 0.801824655 0.959933192 0.970558679 0.658865453 0.693324667 0.868044618 0.87830761 1 9.730544967 -13.52287874 0.093624244 1.626327242 0.669204871 0.144241037 0.100776681 110.7373958 0.781187683 13.66709743 1.065725067 3.00E-14 13.52287874 -0.957122371 S(ph)PGSQAPDEGAGGALR ddPTM_HeLa_SAHA_4h_R1 2 SPGSQAPDEGAGGALR 16 0 P10075 P10075 GLI4 Zinc finger protein GLI4 1 0 S(1)PGSQAPDEGAGGALR;S(1)PGSQAPDEGAGGALR ; 204.07 2.72E-15 19271800 460.16 355.97 487.67 379.7 490.23 586.49 451.16 631.91 597.01 225.86 TRUE FALSE FALSE 508.5617401 367.5036616 554.1271279 387.0496426 452.6686833 536.5177525 400.3942894 615.7466572 592.8553588 235.5979299 2.158600206 1.559876446 2.352003382 1.642839743 1.921361038 2.277260045 1.699481356 2.613548673 2.516386112 1 7.880183053 -9.430869629 0.664418312 0.824367001 2.030303352 0 0.571416517 0.569384715 0.342968975 0.417051744 0.0613361 3.71E-10 9.430869629 1.205936351 S(ph)PGSSWQEYGPSDTCGSR ddPTM_HeLa_SAHA_4h_R1 4 SPGSSWQEYGPSDTCGSR 18 0 Q5JSZ5;A0A494C0D3 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 S(1)PGSSWQEYGPSDTCGSR;S(1)PGSSWQEYGPSDTCGSR;S(1)PGSSWQEYGPSDTCGSR;S(0.921)PGS(0.036)S(0.043)WQEYGPSDTCGSR ;;; 245.74 1.11E-37 27904000 304.562 364.658 517.15 547.752 590.753 947.03 527.536 722.431 646.705 676.31 TRUE FALSE FALSE 336.5972285 376.4731585 587.6245088 558.354532 545.4896328 866.3377162 468.1762609 703.9522611 642.2045273 705.4690339 0.477125448 0.533649445 0.832955779 0.791465685 0.773229733 1.22803082 0.663638287 0.99784998 0.910322773 1 9.462438948 -5.494091506 24.67749814 0.739875402 0.944454698 0.180563984 0.19538005 957.6110551 820899.0455 0.033834187 0.0755099 3.21E-06 5.494091506 0.204579296 S(ph)PGSTPTTPT(ph)SSQAPQK ddPTM_HeLa_SAHA_4h_R1 1 SPGSTPTTPTSSQAPQK 17 0 A0A494C1F2;P35658-2;P35658-4;P35658;P35658-3;P35658-5 A0A494C1F2 NUP214 Nuclear pore complex protein Nup214 2 0 S(0.904)PGS(0.087)T(0.009)PT(0.003)T(0.055)PT(0.839)S(0.084)S(0.019)QAPQK 144.08 0.0029623 15838000 1057.2 1392.9 1097.4 1506.2 1602.6 1843.3 1207.7 1312.9 1644.5 1161.1 TRUE FALSE FALSE 1168.401147 1438.030874 1246.947957 1535.354679 1479.809134 1686.24047 1071.806418 1279.317919 1633.055791 1211.160703 0.96469539 1.187316324 1.029547899 1.267672139 1.221810723 1.392251635 0.88494154 1.056274296 1.348339478 1 10.24217459 -7.265277886 24.55357889 0.983328375 1.150602602 0 0.175072596 263.70053 1686797.913 0.02239028 0.026129032 5.43E-08 7.265277886 0.167274227 S(ph)PGSTPTTPTSSQAPQK ddPTM_HeLa_SAHA_4h_R1 4 SPGSTPTTPTSSQAPQK 17 0 A0A494C1F2;P35658-2;P35658-4;P35658;P35658-3;P35658-5 A0A494C1F2 NUP214 Nuclear pore complex protein Nup214 1 0 S(0.993)PGS(0.003)T(0.005)PTTPTSSQAPQK;S(0.915)PGS(0.084)T(0.001)PTTPTSSQAPQK;S(0.999)PGS(0.001)TPTTPTSSQAPQK;S(0.959)PGS(0.041)TPTTPTSSQAPQK ;;; 279.29 1.98E-72 63909500 6738.9 8148.5 5484.16 7373.3 8193.2 8408.5 8466.2 6866 10322.2 7460.5 TRUE FALSE FALSE 7447.728421 8412.516746 6231.512765 7516.020883 7565.438786 7692.048495 7513.560894 6690.377662 10250.36697 7782.158666 0.957026031 1.081000415 0.800743474 0.965801548 0.972151701 0.988420929 0.965485441 0.859707178 1.317162424 1 12.92595468 -6.821700041 0.009033297 1.919089986 3.33E-08 0.118244344 0.122720703 3028.310974 17.28405431 1814.326466 1856.237045 1.51E-07 6.821700041 -1.919089953 S(ph)PGVAAAVAEDGGLKK ddPTM_HeLa_SAHA_4h_R1 2 SPGVAAAVAEDGGLKK 16 1 E9PLH8;E9PM78;H0YD80;E9PLS2;E9PQV9;E9PM04;Q9BTE7 E9PLH8 DCUN1D5 DCN1-like protein;DCN1-like protein 5 1 0 S(1)PGVAAAVAEDGGLKK;S(1)PGVAAAVAEDGGLKK ; 159.22 2.50E-06 20473900 3861.4 3875.4 3332.5 4393.6 4420 4841.4 4555.9 4711.1 4901.7 4426.3 TRUE FALSE FALSE 4267.559769 4000.965503 3786.635745 4478.644481 4081.340555 4428.885483 4043.258142 4590.596884 4867.588671 4617.139455 0.924286522 0.866546385 0.82012592 0.970004161 0.883954361 0.959227142 0.875706307 0.994251295 1.054243373 1 12.17278359 -8.675957773 0.91639516 0.993724876 0.909692773 0.388716573 0.05410285 0.456354021 0.770079727 0.020737174 0.009868899 2.11E-09 8.675957773 -0.084032103 S(ph)PGYEPR ddPTM_HeLa_SAHA_4h_R1 1 SPGYEPR 7 0 H3BS42;Q9H5H4 H3BS42 ZNF768 Zinc finger protein 768 1 0 S(1)PGYEPR 89.029 0.020842 26626000 1826.9 1798.2 1262.1 2021.4 1851 3575 1787.8 2117.1 2290.9 2077.2 TRUE FALSE FALSE 2019.061724 1856.46286 1434.092415 2060.52712 1709.17678 3270.389888 1586.632039 2062.947648 2274.95744 2166.758258 0.931835251 0.856792793 0.661860828 0.950972317 0.788817476 1.509346913 0.732260756 0.952089436 1.049935973 1 11.08132249 S(ph)PGYESESSR ddPTM_HeLa_SAHA_4h_R1 2 SPGYESESSR 10 0 H3BS42;Q9H5H4 H3BS42 ZNF768 Zinc finger protein 768 1 0 S(0.999)PGYESESSR;S(0.997)PGYES(0.001)ES(0.002)SR ; 95.094 0.014241 21317000 63.14 223.748 183.98 244.53 309.9 371.13 388.84 397.5 540.86 380.49 TRUE FALSE FALSE 69.7813549 230.997582 209.0518363 249.2632317 286.155529 339.5076361 345.0866998 387.3325256 537.0961112 396.894786 0.175818271 0.582012136 0.526718525 0.628033526 0.720985861 0.855409665 0.869466448 0.975907317 1.353245571 1 8.632612799 -5.34514904 1.511658666 0.592102523 0.928374537 0 0.304744477 0.593151906 2.556148383 0.046391428 0.159691078 4.52E-06 5.34514904 0.336272014 S(ph)PGYESESSRYESQNTELK ddPTM_HeLa_SAHA_4h_R1 2 SPGYESESSRYESQNTELK 19 1 H3BS42;Q9H5H4 H3BS42 ZNF768 Zinc finger protein 768 1 0 S(0.846)PGY(0.139)ES(0.003)ES(0.003)S(0.003)RY(0.001)ES(0.003)QNT(0.001)ELK;S(0.958)PGY(0.041)ESESSRYESQNTELK ; 60.949 0.012004 23522000 1468.25 1416.57 1304.01 1237.39 1518.78 1620.39 1585.56 1655.54 1413.39 1301.15 TRUE FALSE FALSE 1622.687272 1462.467797 1481.713692 1261.341473 1402.411405 1482.323656 1407.148616 1613.193684 1403.554104 1357.248944 1.195570848 1.077523621 1.091703698 0.929336861 1.033275001 1.09215311 1.036765305 1.18857612 1.034116924 1 10.40646965 -6.46765426 24.99914506 1.093383033 1.051177688 0.006285136 0.076718614 853.7766292 386489.4359 0.014211476 0.021708337 3.41E-07 6.46765426 -0.042205345 S(ph)PHEAGFCVYLK ddPTM_HeLa_SAHA_4h_R1 1 SPHEAGFCVYLK 12 0 Q9NTZ6 Q9NTZ6 RBM12 RNA-binding protein 12 1 0 S(1)PHEAGFCVYLK 122.97 0.0010902 3587900 2003.7 2883 1865.2 2724.4 2536.8 2522.5 2718.9 2182.4 3201.3 2634.4 TRUE FALSE FALSE 2214.458359 2976.411092 2119.379742 2777.134702 2342.430932 2307.568809 2412.962216 2126.577368 3179.021893 2747.981876 0.805848968 1.083126172 0.771249534 1.010608813 0.852418625 0.839732179 0.8780852 0.773868775 1.156856936 1 11.42415677 -9.562016326 1.287639351 1.001140649 0.872857481 0.304119873 0.107646713 0.574183354 1.681095652 0.065396298 0.014817551 2.74E-10 9.562016326 -0.128283168 S(ph)PHQLLSPSSFSPSATPSQK ddPTM_HeLa_SAHA_4h_R1 2 SPHQLLSPSSFSPSATPSQK 20 0 E9PIQ6;A0A3B3ITS5;Q14181 E9PIQ6 POLA2 DNA polymerase alpha subunit B 1 0 S(0.996)PHQLLS(0.004)PSSFSPSATPSQK;S(0.998)PHQLLS(0.002)PSSFSPSATPSQK ; 65.387 0.0080874 11058000 1998.54 2502 2280.76 2879.7 3226.2 4212.8 3033.2 3233.8 3124 2891.2 TRUE FALSE FALSE 2208.755607 2583.066442 2591.570095 2935.440758 2979.009253 3853.845739 2691.896353 3151.084078 3102.25983 3015.853781 0.73238153 0.856495914 0.859315565 0.973336564 0.987783052 1.277862264 0.892581852 1.044839806 1.028650609 1 11.55835077 -5.955060505 2.22682796 0.868040676 1.05835883 0.263652925 0.119032474 0.28945957 2.891529183 0.020007796 0.039265898 1.11E-06 5.955060505 0.190318154 S(ph)PIALPVK ddPTM_HeLa_SAHA_4h_R1 2 SPIALPVK 8 0 Q8TF01;Q8TF01-2 Q8TF01 PNISR Arginine/serine-rich protein PNISR 1 0 S(1)PIALPVK;S(1)PIALPVK ; 89.886 0.018045 17568600 5448.6 7596.7 5434.8 6149.3 7947.2 7719.7 7586.2 4921.6 7630.6 6559.9 TRUE FALSE FALSE 6021.708747 7842.838064 6175.426241 6268.328594 7338.287253 7061.93813 6732.58081 4795.712598 7577.498033 6842.729392 0.88001562 1.146156397 0.902479974 0.916056771 1.072421081 1.032035278 0.983902829 0.700847911 1.107379468 1 12.74035618 -4.259308842 24.60080899 0.967809796 0.700847796 0.462670759 0.09072211 104.7001604 1208837.85 0.011602491 0.102170612 5.50E-05 4.259308842 -0.266962 S(ph)PIINESR ddPTM_HeLa_SAHA_4h_R1 2 SPIINESR 8 0 Q13523 Q13523 PRPF4B Serine/threonine-protein kinase PRP4 homolog 1 0 S(1)PIINESR;S(1)PIINESR ; 131.12 0.0018243 33554000 878.13 946.08 610.92 714.38 1046.82 1042.73 694.8 754.37 704.59 728.06 TRUE FALSE FALSE 970.4957424 976.7336127 694.1729961 728.2078579 966.6128778 953.8835378 616.6192754 735.0743077 699.6867008 759.4502296 1.277892487 1.286106152 0.914046726 0.958861858 1.272779756 1.256018499 0.811928486 0.9679032 0.921306853 1 9.568811611 -4.755081651 24.99954845 1.133880327 0.889915805 0.241261855 0.152432559 147.4323242 579709.017 0.021805971 0.077746826 1.76E-05 4.755081651 -0.243964522 S(ph)PILEEK ddPTM_HeLa_SAHA_4h_R1 2 SPILEEK 7 0 E7ETD6;E9PE19;A0A2R8Y7Q1;Q12830-4;Q12830;F5GXF5;Q12830-2;A0A0A0MR81 E7ETD6 BPTF Nucleosome-remodeling factor subunit BPTF 1 0 S(1)PILEEK;S(1)PILEEK ; 106.2 0.010126 76612000 6162.9 7862.3 3969.1 6510.1 7002.8 8258.6 6517.3 6168.5 9812.5 7584 TRUE FALSE FALSE 6811.142098 8117.043679 4509.988278 6636.112399 6466.246977 7554.920818 5783.956251 6010.718702 9744.214014 7910.983355 0.860972877 1.026047372 0.570091994 0.838847979 0.817375879 0.954991368 0.731129872 0.759794128 1.231732337 1 12.94964132 -8.615357617 0.33965271 1.041636326 0.787763778 0.387434245 0.136393543 2.007886133 0.44648734 0.200372419 0.061981179 2.42E-09 8.615357617 -0.253872549 S(ph)PISDNSGCDAPGNSNPSLSVPSSAESEK ddPTM_HeLa_SAHA_4h_R1 2 SPISDNSGCDAPGNSNPSLSVPSSAESEK 29 0 F8VXG7;Q99590-2;Q99590;A0A0A0MTP7 F8VXG7 SCAF11 Protein SCAF11 1 0 S(0.873)PIS(0.118)DNS(0.003)GCDAPGNS(0.005)NPS(0.001)LSVPSSAESEK;S(0.948)PIS(0.048)DNS(0.003)GCDAPGNSNPSLSVPSSAESEK ; 105.42 3.59E-09 24457000 3445.3 4624.6 2851.3 3793.6 4090.7 5457.5 4282.4 3267.7 5630 4223.2 TRUE FALSE FALSE 3807.692462 4774.440074 3239.860315 3867.030614 3777.27145 4992.490297 3800.533081 3184.116966 5590.820372 4405.28282 0.86434688 1.083798764 0.73544888 0.877816651 0.857441305 1.133296204 0.8627217 0.722795129 1.26911724 1 12.10501893 -9.52414191 0.818751204 1.013709194 0.894661043 0.201536282 0.149883134 1.784605736 1.71063972 0.149914084 0.02279916 2.99E-10 9.52414191 -0.119048152 S(ph)PISVPGGSALISNLGK ddPTM_HeLa_SAHA_4h_R1 2 SPISVPGGSALISNLGK 17 0 P51610-2;P51610;A6NEM2;P51610-4 P51610-2 HCFC1 Host cell factor 1;HCF N-terminal chain 1;HCF N-terminal chain 2;HCF N-terminal chain 3;HCF N-terminal chain 4;HCF N-terminal chain 5;HCF N-terminal chain 6;HCF C-terminal chain 1;HCF C-terminal chain 2;HCF C-terminal chain 3;HCF C-terminal chain 4;HCF C-terminal chain 5;HCF C-terminal chain 6 1 0 S(0.999)PIS(0.001)VPGGSALISNLGK;S(0.85)PIS(0.15)VPGGSALISNLGK ; 159.34 5.92E-06 8849500 1343.47 1910.51 1528.91 1402.68 1808.08 2520.7 1920.4 1515.03 2188.74 1641.84 TRUE FALSE FALSE 1484.782339 1972.411778 1737.261893 1429.8309 1669.545301 2305.922179 1704.311538 1476.277726 2173.50838 1712.627757 0.866961505 1.151687382 1.014383823 0.834875468 0.974844238 1.346423453 0.995144176 0.861995679 1.269107295 1 10.7419959 -5.497038107 24.97985813 0.951678742 1.077258468 0 0.171283929 1130.626716 1092963.621 0.020035233 0.044641492 3.18E-06 5.497038107 0.125579726 S(ph)PLACDDCSLR ddPTM_HeLa_SAHA_4h_R1 1 SPLACDDCSLR 11 0 Q9NRR6-2;Q9NRR6 Q9NRR6-2 INPP5E 72 kDa inositol polyphosphate 5-phosphatase 1 0 S(1)PLACDDCSLR 103.44 0.0028752 0 147.55 195.61 128.71 182.59 212.66 262.43 245.32 199.81 230.58 165.43 TRUE FALSE FALSE 163.069986 201.9478923 146.2499285 186.1242935 196.3660367 240.0694876 217.715948 194.6991495 228.975375 172.5624969 0.944990881 1.170288423 0.847518616 1.078590637 1.137941559 1.39120314 1.261664335 1.128281944 1.326912737 1 7.430975147 -5.715260291 2.505298436 0.982788957 1.259376133 0.17025019 0.146759801 0.132391579 1.692363787 0.013849751 0.029773459 1.93E-06 5.715260291 0.276587176 S(ph)PLAQMEEER ddPTM_HeLa_SAHA_4h_R1 1 SPLAQMEEER 10 0 G3V1Q4;E7ES33;E7EPK1;Q16181-2;Q16181;A0A0U1RRM2 G3V1Q4 7-Sep Septin-7 1 0 S(1)PLAQMEEER 140.33 0.0011201 5939600 199.52 301.24 251.16 246.24 260.11 310.93 309.54 135.81 403.51 229.78 TRUE FALSE FALSE 220.506429 311.0003737 285.3867768 251.0063313 240.180428 284.4370148 274.7097445 132.3361769 400.7019411 239.6869403 0.91997682 1.297527405 1.190664691 1.047225731 1.002058884 1.186702181 1.146118951 0.552120932 1.671772106 1 7.905007494 -3.267475257 14.06650299 1.010892667 1.026349347 0 0.28647656 0 0 0.025068412 0 0.000540163 3.267475257 0.01545668 S(ph)PLAQMEEERR ddPTM_HeLa_SAHA_4h_R1 5 SPLAQMEEERR 11 1 G3V1Q4;E7ES33;E7EPK1;Q16181-2;Q16181;A0A0U1RRM2 G3V1Q4 7-Sep Septin-7 1 0 S(1)PLAQMEEERR;S(1)PLAQMEEERR;S(1)PLAQMEEERR;S(1)PLAQMEEERR;S(1)PLAQMEEERR ;;;; 137.93 0.00052492 150727100 3626.15 4337.4 3587.49 4069.54 4752.39 5247.95 3717.93 3792.68 4828.8 3846.8 TRUE FALSE FALSE 4007.565094 4477.934606 4076.374454 4148.311831 4388.262905 4800.795136 3299.578731 3695.668737 4795.195988 4012.654374 0.998731693 1.115953229 1.015879783 1.033807411 1.093606001 1.196413817 0.822293281 0.921003504 1.195018444 1 11.97034118 -4.72728772 24.99992088 1.028632191 0.871648259 0.392747974 0.086288383 131.5148738 96270.59718 0.009938981 0.037184485 1.87E-05 4.72728772 -0.156983932 S(ph)PLELEPEAK ddPTM_HeLa_SAHA_4h_R1 4 SPLELEPEAK 10 0 A0A087WTQ7;A0A087WV56;A0A087WW71;A0A087X0X5;Q92466-3;Q92466-2;Q92466-5;Q92466-4;Q92466 A0A087WTQ7 DDB2 DNA damage-binding protein 2 1 0 S(1)PLELEPEAK;S(1)PLELEPEAK;S(1)PLELEPEAK;S(1)PLELEPEAK ;;; 164.04 0.00017184 54042300 7169.5 8016.4 5595.6 7090.6 8126.3 9651.5 7388.3 7136.3 9410.7 7715.5 TRUE FALSE FALSE 7923.620905 8276.13662 6358.139227 7227.848816 7503.66465 8829.137902 6556.949039 6953.763779 9345.210172 8048.152964 0.984526629 1.028327451 0.790012225 0.898075478 0.932346177 1.097039028 0.814714764 0.864019833 1.161162097 1 12.97444201 -6.818317062 24.9999998 0.995161573 0.905943087 0.310013653 0.094651806 91.57199948 40249.05828 0.012658116 0.016636029 1.52E-07 6.818317062 -0.089218486 S(ph)PLGEAPPGTPPCR ddPTM_HeLa_SAHA_4h_R1 1 SPLGEAPPGTPPCR 14 0 M0QXZ5;Q96B54 M0QXZ5 ZNF428 Zinc finger protein 428 1 0 S(1)PLGEAPPGTPPCR 187.63 6.08E-25 0 191.48 398.33 250.31 197.79 351.7 393.88 214.08 222.55 511.8 345.55 TRUE FALSE FALSE 211.6207449 411.2361534 284.4209432 201.6185115 324.752822 360.3192081 189.991155 216.8574932 508.2383421 360.4483516 0.587104211 1.140901745 0.789075444 0.559354788 0.900969086 0.999641714 0.527096751 0.60163264 1.410017108 1 8.493648741 -9.619007718 1.417750665 1.000491646 0.747449115 0.280875608 0.235155129 0.594486021 2.138895126 0.142566576 0.032388139 2.40E-10 9.619007718 -0.253042531 S(ph)PLGGGGGSGASSQAACLK ddPTM_HeLa_SAHA_4h_R1 1 SPLGGGGGSGASSQAACLK 19 0 Q68DK7;J3QQY0;J3KSZ8;Q68DK7-2 Q68DK7 MSL1 Male-specific lethal 1 homolog 1 0 S(1)PLGGGGGSGASSQAACLK 130.77 6.62E-05 5407100 581.46 458.46 585.86 378.81 729.25 413.65 739.6 644.78 498.79 563.15 TRUE FALSE FALSE 642.6206306 473.3144048 665.6979498 386.1424153 673.3750225 378.4046929 656.3782615 628.2874612 495.3188798 587.4301525 1.093952409 0.805737334 1.133237623 0.657341837 1.146306535 0.644169679 1.117372438 1.069552624 0.843196213 1 9.19827351 -7.299472604 24.94980367 1.044366415 0.939214617 0 0.189334833 1056.306082 692934.5346 0.027619693 0.031584653 5.02E-08 7.299472604 -0.105151799 S(ph)PLGSVR ddPTM_HeLa_SAHA_4h_R1 4 SPLGSVR 7 0 Q92620;J3KSA8;H3BMS7;Q92620-2 Q92620 DHX38 Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16 1 0 S(1)PLGSVR;S(1)PLGSVR;S(1)PLGSVR;S(1)PLGSVR ;;; 113.66 0.0063036 44977500 4090.98 4469.61 4769.38 5232.94 5407.38 5892.17 5992.7 5917.73 6283.23 5536.28 TRUE FALSE FALSE 4521.288046 4614.428297 5419.326269 5334.231121 4993.067713 5390.123968 5318.385624 5766.363035 6239.504491 5774.976125 0.782910258 0.799038506 0.938415355 0.923680203 0.864604044 0.933358658 0.920936383 0.99850855 1.080438145 1 12.49559927 -3.433936067 0.873504448 0.890963754 1.327705875 0.029242737 0.085414742 13.7304305 2.719150919 0.013713065 8.130712766 0.000368183 3.433936067 0.436742121 S(ph)PLPAGPSSCTSPR ddPTM_HeLa_SAHA_4h_R1 2 SPLPAGPSSCTSPR 14 0 Q8N3V7-2 Q8N3V7-2 SYNPO Synaptopodin 1 0 S(1)PLPAGPSSCTSPR;S(1)PLPAGPSSCTSPR ; 148.85 8.72E-05 25304000 852.88 1025.8 770.04 1006.93 929.42 952.98 943.25 1182.66 953.35 900.29 TRUE FALSE FALSE 942.5898316 1059.036593 874.977041 1026.420586 858.2080404 871.7807427 837.1130275 1152.40927 946.7155597 939.1059078 1.003709831 1.127707306 0.931712849 1.092976391 0.913856503 0.928309294 0.891393634 1.227134512 1.008103082 1 9.875144057 -5.743376674 24.99956488 1.012153908 0.978698962 0.013496579 0.101329747 901.7542866 1248061.169 0.013486151 0.02693465 1.81E-06 5.743376674 -0.033454946 S(ph)PLSALAR ddPTM_HeLa_SAHA_4h_R1 1 SPLSALAR 8 0 Q9BQG0;Q9BQG0-2;I3L1L3;I3L2H8 Q9BQG0 MYBBP1A Myb-binding protein 1A 1 0 S(1)PLSALAR 89.029 0.018872 3033000 493.64 508.01 407.89 690.63 616.19 557.63 598.09 792.72 725.72 599.23 TRUE FALSE FALSE 545.5633201 524.4698573 463.475125 703.9981423 568.9776553 510.1167869 530.7913391 772.4433702 720.6696554 625.0657379 0.87280951 0.839063519 0.74148221 1.126278565 0.910268506 0.816101021 0.849176826 1.235779412 1.152950181 1 9.287864115 -6.251504879 24.92728377 0.915710722 0.966019939 0.034363564 0.154643899 2438.928642 6119673.086 0.020998486 0.034547431 5.60E-07 6.251504879 0.050309217 S(ph)PLSPTETFSWPDVR ddPTM_HeLa_SAHA_4h_R1 4 SPLSPTETFSWPDVR 15 0 A1L390-3;A1L390;G3V311;A1L390-2 A1L390-3 PLEKHG3 Pleckstrin homology domain-containing family G member 3 1 0 S(1)PLSPTETFSWPDVR;S(1)PLSPTETFSWPDVR;S(1)PLSPTETFSWPDVR;S(1)PLSPTETFSWPDVR ;;; 213.99 1.20E-17 51366600 1101.36 1072.47 873.71 1100.64 1397.33 1532.33 1138.29 1331.53 1381.07 1346.57 TRUE FALSE FALSE 1217.206098 1107.218732 992.7746487 1121.944479 1290.266877 1401.766863 1010.206613 1297.471391 1371.459021 1404.627223 0.86656878 0.788265181 0.7067887 0.798748921 0.918583135 0.997963617 0.719199085 0.923712263 0.976386474 1 10.45597159 -8.642638832 0.877781805 0.98941385 0.837448413 0.31207762 0.087377787 0.485975708 0.755551266 0.039163027 0.018600205 2.28E-09 8.642638832 -0.151965437 S(ph)PLTGYVR ddPTM_HeLa_SAHA_4h_R1 1 SPLTGYVR 8 0 H0YNS8;H0YKM5;Q9NP66 H0YNS8 HMG20A High mobility group protein 20A 1 0 S(0.998)PLT(0.002)GYVR 88.496 0.019386 19415000 290.34 352.85 383.82 390.65 412.27 559.97 348.82 455.74 583.66 345.79 TRUE FALSE FALSE 320.8792933 364.2825715 436.1249908 398.2115956 380.6819617 512.2574057 309.5698556 444.0828307 579.5982625 360.6986992 0.889604798 1.009935917 1.209111626 1.104000643 1.055401538 1.420180907 0.858250546 1.231173918 1.606876498 1 8.49465041 -6.936316748 5.438013318 0.947862608 1.138948198 0 0.249017642 0.176134901 10.20524156 0.020696842 0.027257726 1.16E-07 6.936316748 0.19108559 S(ph)PMVERR ddPTM_HeLa_SAHA_4h_R1 1 SPMVERR 7 1 Q8N3V7-2;Q8N3V7-3;Q8N3V7 Q8N3V7-2 SYNPO Synaptopodin 1 0 S(1)PMVERR 78.113 0.01571 1076700 279.76 214.98 262.77 266.82 314.73 286.56 260.8 403.27 57.02 239.37 TRUE FALSE FALSE 309.1864404 221.9454931 298.5789272 271.9846869 290.6154554 262.1434759 231.4540976 392.9549373 56.62319318 249.6904121 1.238279186 0.888882721 1.195796525 1.089287669 1.163903143 1.049874016 0.926964298 1.573768628 0.226773598 1 7.963996614 -4.248775907 24.85234001 1.093681577 1.573768955 0.184521011 0.29466054 1019.43916 2000634.36 0.016294092 0.389471398 5.64E-05 4.248775907 0.480087378 S(ph)PNELVDDLFK ddPTM_HeLa_SAHA_4h_R1 4 SPNELVDDLFK 11 0 F2Z2K0;Q9UNZ2-4;Q9UNZ2;Q9UNZ2-5 F2Z2K0 NSFL1C NSFL1 cofactor p47 1 0 S(1)PNELVDDLFK;S(1)PNELVDDLFK;S(1)PNELVDDLFK;S(1)PNELVDDLFK ;;; 179.79 3.07E-05 135301200 4661.2 6638.33 4573.08 4292.19 6372.42 7022.07 6428.94 5542.27 6223.43 5813.12 TRUE FALSE FALSE 5151.486402 6853.416248 5196.275527 4375.271544 5884.166556 6423.750131 5705.538751 5400.506759 6180.120644 6063.752052 0.849554262 1.130226993 0.856940634 0.721545259 0.970383767 1.059368865 0.94092547 0.890621304 1.019190856 1 12.56599505 -4.255300126 20.93359108 0.93447692 0.890621113 0.00823253 0.111928694 376.7162059 1284103.52 0.015490049 0.174711171 5.56E-05 4.255300126 -0.043855807 S(ph)PPADAIPK ddPTM_HeLa_SAHA_4h_R1 2 SPPADAIPK 9 0 P18754-2;C9JRH2;C9J3R0;C9JMJ4;C9JQZ4;C9JW69;P18754;M0R1Q8 P18754-2 RCC1 Regulator of chromosome condensation 1 0 S(1)PPADAIPK;S(1)PPADAIPK ; 89.698 0.017942 102488000 6671 7367.5 5941 5155 7047.5 8419.6 7051.9 6375.9 6954.2 6537.4 TRUE FALSE FALSE 7372.686388 7606.211834 6750.608541 5254.782479 6507.522073 7702.202713 6258.401652 6212.81371 6905.805156 6819.259307 1.08115648 1.115401467 0.989932812 0.770579654 0.954285763 1.129477905 0.917753875 0.9110687 1.012691386 1 12.73539933 -6.524950831 24.96370232 1.045532275 0.940576386 0.280900416 0.086870415 74.03664707 891960.9628 0.014279724 0.020271804 2.99E-07 6.524950831 -0.104955889 S(ph)PPAPGLQPMR ddPTM_HeLa_SAHA_4h_R1 3 SPPAPGLQPMR 11 0 P15408;P15408-3;P15408-2;C9JCN8 P15408 FOSL2 Fos-related antigen 2 1 0 S(1)PPAPGLQPMR;S(1)PPAPGLQPMR;S(1)PPAPGLQPMR ;; 121.68 0.002046 179642000 251.985 436.4 371.178 317.72 532.12 476.35 631.99 199.777 267.823 366.48 TRUE FALSE FALSE 278.4899384 450.5396463 421.7602048 323.86993 491.3490806 435.7623001 560.8768219 194.6669936 265.9591979 382.2807463 0.728495853 1.178556992 1.103273468 0.847204399 1.285309515 1.139901249 1.467185641 0.509225211 0.695716958 1 8.57848873 -7.251824691 24.34616326 0.871789707 1.093647835 0.171857519 0.25611777 666.7991031 1688458.481 0.040193724 0.048875486 5.60E-08 7.251824691 0.221858128 S(ph)PPASPESWK ddPTM_HeLa_SAHA_4h_R1 1 SPPASPESWK 10 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 S(0.924)PPAS(0.064)PES(0.013)WK 87.789 0.020018 15672000 1479 1659.7 1714.9 1234 1183 1925.7 2100.8 1731.3 1415.7 1257.2 TRUE FALSE FALSE 1634.568006 1713.475369 1948.597641 1257.885854 1092.358796 1761.619526 1864.412455 1687.015853 1405.848028 1311.404045 1.24642593 1.306596069 1.485886557 0.959190159 0.832968908 1.343307986 1.42169186 1.28641959 1.072017457 1 10.35689653 -9.127879705 0.89003186 0.999967617 1.232282148 0.145680307 0.189711408 0.894487177 1.281201665 0.13314383 0.038878872 7.45E-10 9.127879705 0.232314531 S(ph)PPEEPPDFCCPK ddPTM_HeLa_SAHA_4h_R1 2 SPPEEPPDFCCPK 13 0 A0A087X0G7;A0A087WUW6;A0A087X1B1;Q9Y6K9-3;Q9Y6K9;Q9Y6K9-2 A0A087X0G7 IKBKG NF-kappa-B essential modulator 1 0 S(1)PPEEPPDFCCPK;S(1)PPEEPPDFCCPK ; 102.73 0.0042111 17523200 1356.5 1357.16 1116.78 1331.76 1425.73 1949.18 1423.26 2379.8 1736.51 1413.56 TRUE FALSE FALSE 1499.182894 1401.132874 1268.968962 1357.538141 1316.490875 1783.098898 1263.111039 2318.928162 1724.425486 1474.505489 1.016736055 0.950239171 0.860606469 0.920673507 0.89283552 1.209286036 0.856633663 1.572681946 1.16949411 1 10.52601548 -4.253590111 24.99297654 0.986761879 1.57268223 0.702032974 0.114609807 337.8651997 1075776.64 0.012845374 0.18716995 5.58E-05 4.253590111 0.585920351 S(ph)PPEGDTTLFLSR ddPTM_HeLa_SAHA_4h_R1 2 SPPEGDTTLFLSR 13 0 Q9BTC0;Q9BTC0-1 Q9BTC0 DIDO1 Death-inducer obliterator 1 1 0 S(1)PPEGDTTLFLSR;S(1)PPEGDTTLFLSR ; 143.58 0.00027035 27966000 0 0 0 298.17 0 60.781 176.49 262.12 131.91 0 TRUE FALSE FALSE 0 0 0 303.9415115 0 55.60211686 156.6308807 255.4153499 130.9920276 0 0 S(ph)PPEHYVQETPLMFSR ddPTM_HeLa_SAHA_4h_R1 1 SPPEHYVQETPLMFSR 16 0 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 S(1)PPEHYVQETPLMFSR 114.69 0.00096327 3880500 562.13 674.14 938.07 939 900.09 688.19 669.38 1010.5 1113 706.75 TRUE FALSE FALSE 621.2574125 695.9825783 1065.905294 957.1757028 831.1252987 629.5523403 594.0596007 984.6528732 1105.254542 737.2214513 0.842701215 0.944061757 1.445841399 1.29835574 1.12737536 0.853952824 0.805808892 1.335626997 1.499216471 1 9.52595424 -6.961482246 24.99948871 0.924017665 1.128178368 0 0.263679122 207.1151995 134425.1728 0.033036091 0.04341789 1.09E-07 6.961482246 0.204160703 S(ph)PPGSGASTPVGPWDQAVQR ddPTM_HeLa_SAHA_4h_R1 1 SPPGSGASTPVGPWDQAVQR 20 0 C9JUG3;Q8TE77-4;Q8TE77-2;Q8TE77 C9JUG3 SSH3 Protein phosphatase Slingshot homolog 3 1 0 S(1)PPGSGASTPVGPWDQAVQR 178.52 1.43E-09 10927000 172.83 0 130.97 136.04 135.58 110.96 161.32 0 70.172 0 TRUE FALSE FALSE 191.0090524 0 148.8179095 138.6732509 125.1918897 101.5055838 143.167849 0 69.68366734 0 0 S(ph)PPKEYIDEEGVR ddPTM_HeLa_SAHA_4h_R1 1 SPPKEYIDEEGVR 13 1 H7BXF5;A0A2R8YDB8;Q9H0E3;Q9H0E3-3;Q9H0E3-2 H7BXF5 SAP130 Histone deacetylase complex subunit SAP130 1 0 S(1)PPKEYIDEEGVR 68.283 0.020514 3946900 776.3 1009.5 948.45 799.42 1194.4 1289.4 872.56 924.49 1268 1001.4 TRUE FALSE FALSE 857.9547958 1042.208462 1077.699827 814.8939301 1102.88533 1179.535866 774.3772523 900.8428844 1259.175885 1044.575255 0.821343213 0.997734206 1.031711044 0.780119887 1.055821804 1.129201425 0.741332182 0.862401134 1.205442958 1 10.02870072 -4.703224872 24.99999986 0.939882795 0.801866505 0.15332015 0.134945942 101.112857 43420.61073 0.015744987 0.058912319 1.98E-05 4.703224872 -0.13801629 S(ph)PPKVPIVIQDDSLPAGPPPQIR ddPTM_HeLa_SAHA_4h_R1 1 SPPKVPIVIQDDSLPAGPPPQIR 23 1 Q7Z422-2;Q7Z422-4;Q7Z422-3;Q7Z422-5;Q7Z422 Q7Z422-2 SZRD1 SUZ domain-containing protein 1 1 0 S(1)PPKVPIVIQDDSLPAGPPPQIR 88.856 0.00015054 13846000 3030.4 3169.6 3250.4 3384.3 3797.9 4323.4 3881.1 3752.8 3900.4 3321 TRUE FALSE FALSE 3349.151376 3272.29712 3693.347585 3449.80802 3506.905722 3955.021997 3444.388414 3656.80881 3873.256799 3464.184563 0.966793574 0.944608193 1.066152082 0.995849949 1.012332241 1.14168917 0.994285481 1.055604499 1.118086155 1 11.75830008 -6.20016418 1.159883689 0.982602751 1.052832064 0 0.062131259 0.418867024 1.111966444 0.007483023 0.015557603 6.31E-07 6.20016418 0.070229313 S(ph)PPLIGSESAYESFLSADDK ddPTM_HeLa_SAHA_4h_R1 2 SPPLIGSESAYESFLSADDK 20 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 S(1)PPLIGSESAYESFLSADDK;S(0.926)PPLIGS(0.074)ESAYESFLSADDK ; 150.64 2.26E-05 6012200 1559.55 2794.2 1286.76 2171.07 2389.7 3349.5 2977.2 2041.12 4491.5 2514.9 TRUE FALSE FALSE 1723.590624 2884.733913 1462.112952 2213.094199 2206.601702 3064.103756 2642.19762 1988.911106 4460.243286 2623.329647 0.657024033 1.099645985 0.557350066 0.843620321 0.841145414 1.168020862 1.007192376 0.758162859 1.700222193 1 11.35718339 -5.472037639 24.93846345 0.833400786 0.984707348 0 0.322935006 578.9855601 284001.9017 0.026442693 0.059126998 3.37E-06 5.472037639 0.151306562 S(ph)PPLIGSESAYESFLSADDKASGR ddPTM_HeLa_SAHA_4h_R1 2 SPPLIGSESAYESFLSADDKASGR 24 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 S(0.997)PPLIGS(0.003)ESAYESFLSADDKASGR;S(1)PPLIGSESAYESFLSADDKASGR ; 185.09 6.02E-16 60156000 1942.51 2426.2 1761.26 1859.88 2430.3 2595.4 2257.6 2037.29 2498.9 2020.44 TRUE FALSE FALSE 2146.832114 2504.810472 2001.275341 1895.880667 2244.090939 2374.257319 2003.568906 1985.179072 2481.509951 2107.551056 1.018638247 1.188493377 0.949573836 0.899565712 1.064786038 1.126547948 0.950662097 0.941936408 1.177437645 1 11.04135187 S(ph)PPLPAVIR ddPTM_HeLa_SAHA_4h_R1 3 SPPLPAVIR 9 0 Q9Y6X9-2;Q9Y6X9 Q9Y6X9-2 MORC2 MORC family CW-type zinc finger protein 2 1 0 S(1)PPLPAVIR;S(1)PPLPAVIR;S(1)PPLPAVIR ;; 107.21 0.0071356 68441200 927.48 958.34 720.54 918.83 1219.85 1152.01 863.88 1112.16 740.76 784.63 TRUE FALSE FALSE 1025.036602 989.3908448 818.7314388 936.6152833 1126.385357 1053.852267 766.6739488 1083.712558 735.6049908 818.4592392 1.252397863 1.208845594 1.000332576 1.144363993 1.376226576 1.287605071 0.936728321 1.324088612 0.898768021 1 9.676766759 -5.980253387 24.97596791 1.120092116 1.219929356 0.165339179 0.149395987 470.898148 595599.6553 0.02184832 0.039600246 1.05E-06 5.980253387 0.099837241 S(ph)PPLSPVGTTPVK ddPTM_HeLa_SAHA_4h_R1 1 SPPLSPVGTTPVK 13 0 C9J4K0;Q9BVC5-2;Q9BVC5 C9J4K0 C2orf49 Ashwin 1 0 S(0.988)PPLS(0.012)PVGTTPVK 141.34 0.0003474 10949000 2898.6 3213.4 2929.7 3088.2 3981.6 4242.6 4671.6 3258.7 2997.2 3202.2 TRUE FALSE FALSE 3203.488047 3317.516268 3328.944259 3147.976577 3676.530668 3881.106612 4145.939273 3175.347173 2976.342241 3340.262513 0.959052779 0.993190282 0.996611567 0.942433885 1.100671176 1.161916645 1.241201629 0.95062803 0.891050398 1 11.70574577 -5.659295943 5.265462334 0.980331192 1.130051233 0.478608839 0.075137554 0.12086295 5.233782966 0.009302797 0.018819861 2.19E-06 5.659295943 0.149720041 S(ph)PPPGPDGHAK ddPTM_HeLa_SAHA_4h_R1 2 SPPPGPDGHAK 11 0 P57081-3;P57081-2;P57081 P57081-3 WDR4 tRNA (guanine-N(7)-)-methyltransferase non-catalytic subunit WDR4 1 0 S(1)PPPGPDGHAK;S(1)PPPGPDGHAK ; 139.74 0.00072462 11883000 2891.9 3566.1 2545.3 3703.6 3640.9 4978.3 3865.1 3762.7 4402.8 4192 TRUE FALSE FALSE 3196.083311 3681.64398 2892.160229 3775.288533 3361.935029 4554.120833 3430.188776 3666.455582 4372.160556 4372.737635 0.730911291 0.841954008 0.661407217 0.863369552 0.768839869 1.041480467 0.784448797 0.838480579 0.999868028 1 12.09432107 -9.4744291 1.211745483 1.000070104 0.809459038 0.373391875 0.094507539 0.412813637 1.083755552 0.065287137 0.01600834 3.35E-10 9.4744291 -0.190611066 S(ph)PPPGRDESYPR ddPTM_HeLa_SAHA_4h_R1 1 SPPPGRDESYPR 12 1 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 S(1)PPPGRDESYPR 128.21 0.0050615 3633200 247.24 176.34 62.889 305.11 278.26 422.53 203.06 329.15 264.88 248.66 TRUE FALSE FALSE 273.2458376 182.0535317 71.45918541 311.0158452 256.9397789 386.5280669 180.2111544 320.7308196 263.0366785 259.3809495 1.053453764 0.701877035 0.275498974 1.199069731 0.990588474 1.49019451 0.694774056 1.236524194 1.014094054 1 8.018928713 -3.941570428 17.74088211 0.977527271 4.054615407 0.063492168 0.311201302 12258538.44 67932355.37 0.041669741 1385414218 0.000114401 3.941570428 3.077088136 S(ph)PPPTVDESADNAFHLGPLR ddPTM_HeLa_SAHA_4h_R1 1 SPPPTVDESADNAFHLGPLR 20 0 Q96JK2-2;Q96JK2-3;Q96JK2 Q96JK2-2 DCAF5 DDB1- and CUL4-associated factor 5 1 0 S(0.987)PPPT(0.013)VDESADNAFHLGPLR 90.581 0.00096086 1621100 0 0 0 167.17 0 590.47 0 51.884 139.25 57.119 TRUE FALSE FALSE 0 0 0 170.4058171 0 540.1586341 0 50.55688241 138.2809479 59.58167962 0 0 0 2.860037148 0 9.065851072 0 0.848530668 2.32086354 1 5.896796889 -6.042550883 1.944758155 0.438779672 2.824002394 0.106987915 2.528100789 0.453851392 3.402241252 0.365980546 0.708281287 9.07E-07 6.042550883 2.385222722 S(ph)PPRASYVAPLTAQPATYR ddPTM_HeLa_SAHA_4h_R1 3 SPPRASYVAPLTAQPATYR 19 1 Q96PK6 Q96PK6 RBM14 RNA-binding protein 14 1 0 S(0.998)PPRAS(0.002)YVAPLTAQPATYR;S(0.994)PPRAS(0.005)YVAPLTAQPATYR;S(0.998)PPRAS(0.001)Y(0.001)VAPLTAQPATYR ;; 85.467 0.0019759 58658000 1213.53 1027.31 1156.29 1058.92 1275.86 1347.88 1189.04 1562.57 1169.1 1131.27 TRUE FALSE FALSE 1341.174653 1060.595518 1313.86318 1079.416928 1178.103882 1233.033041 1055.24609 1522.601722 1160.964138 1180.044586 1.136545745 0.898775801 1.113401303 0.914725546 0.998355398 1.044903774 0.894242559 1.290291689 0.98383074 1 10.20462566 S(ph)PPREGSQGELTPANSQSR ddPTM_HeLa_SAHA_4h_R1 1 SPPREGSQGELTPANSQSR 19 1 C9JFE4;A0A096LP07;A0A096LPJ3;A8K070;Q13098-5;Q13098;Q13098-7;J3QQX0 C9JFE4 GPS1 COP9 signalosome complex subunit 1 1 0 S(0.995)PPREGS(0.004)QGELTPANSQSR 75.945 0.0037095 43216000 69.423 0 60.598 0 117.39 186.98 129.26 0 0 182.49 TRUE FALSE FALSE 76.72522966 0 68.85597986 0 108.3956036 171.0482521 114.7153246 0 0 190.358037 0.403057475 0 0.36171827 0 0.56943014 0.898560706 0.602629269 0 0 1 7.572571672 -8.927490037 0.872555273 0.981785602 0.371095936 0 0.414023689 0.456872445 0.662983283 0.164645245 0.059310266 1.18E-09 8.927490037 -0.610689666 S(ph)PPSSSEIFTPAHEENVR ddPTM_HeLa_SAHA_4h_R1 4 SPPSSSEIFTPAHEENVR 18 0 I3L3A7;I3L2L5;I3L317;I3L4Q0;C9JLW8 I3L3A7 FAM195B Protein FAM195B 1 0 S(0.907)PPS(0.09)S(0.002)SEIFTPAHEENVR;S(0.995)PPS(0.005)SSEIFTPAHEENVR;S(0.926)PPS(0.073)S(0.001)SEIFTPAHEENVR;S(0.986)PPS(0.011)S(0.003)SEIFTPAHEENVR ;;; 201.48 1.71E-16 51550800 1718.31 2066.2 1265.71 2092.3 2308.91 2368.7 1795.23 2500.62 3330.85 2157.46 TRUE FALSE FALSE 1899.04973 2133.146236 1438.194367 2132.799492 2132.001815 2166.873434 1593.225996 2436.657761 3307.670344 2250.478659 0.843842585 0.947863348 0.639061544 0.947709272 0.947354824 0.962850025 0.707949835 1.082728668 1.469763035 1 11.13601617 -9.368267808 1.044987601 1.001319169 0.877128135 0.173788713 0.194260978 0.882562887 1.694699155 0.082044897 0.020329773 4.28E-10 9.368267808 -0.124191034 S(ph)PPSTGSTYGSSQK ddPTM_HeLa_SAHA_4h_R1 2 SPPSTGSTYGSSQK 14 0 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 S(0.978)PPS(0.006)T(0.015)GSTYGSSQK;S(0.999)PPST(0.001)GSTYGSSQK ; 128.85 0.00054267 15101800 619.41 1007.33 716.97 849.31 925.44 1172.72 766.16 740.88 1285.25 828.01 TRUE FALSE FALSE 684.5623858 1039.968153 814.6749378 865.7496232 854.5329871 1072.797658 679.9496604 721.9293624 1276.305841 863.7095633 0.792584006 1.204071597 0.943227877 1.002361974 0.989375391 1.242081487 0.787243408 0.835847365 1.477702569 1 9.754402453 -7.339844519 24.99999592 0.902053726 0.999130892 0 0.229948582 218.7774363 69757.07429 0.0255124 0.029174537 4.57E-08 7.339844519 0.097077166 S(ph)PPSTGSTYGSSQKEESAASGGAAYTK ddPTM_HeLa_SAHA_4h_R1 3 SPPSTGSTYGSSQKEESAASGGAAYTK 27 1 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 S(0.799)PPS(0.158)T(0.033)GS(0.007)T(0.002)YGSSQKEESAASGGAAYTK;S(0.982)PPS(0.009)T(0.008)GSTYGSSQKEESAASGGAAYTK;S(0.431)PPS(0.104)T(0.335)GS(0.093)T(0.009)Y(0.008)GS(0.009)S(0.009)QKEES(0.001)AASGGAAYTK ;; 78.098 3.89E-05 42435300 838.82 1682.79 938.98 1166.52 1581.59 1777.25 1306.21 1181.05 1796.47 1495.82 TRUE FALSE FALSE 927.0509362 1737.3135 1066.939304 1189.099681 1460.408916 1625.818301 1159.231813 1150.840451 1783.968219 1560.312121 0.594144546 1.113439726 0.683798639 0.762090908 0.935972295 1.041982742 0.742948669 0.737570667 1.143340615 1 10.60761894 S(ph)PPSTGSTYGSSQKEESAASGGAAYTKR ddPTM_HeLa_SAHA_4h_R1 1 SPPSTGSTYGSSQKEESAASGGAAYTKR 28 2 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 S(0.624)PPS(0.176)T(0.176)GS(0.016)T(0.005)Y(0.002)GSSQKEESAASGGAAYTKR 62.707 0.00055115 14498000 2000.8 1918.8 1667 1872.3 2026.3 2152 1865 1766.7 1964.9 2185.4 TRUE FALSE FALSE 2211.253324 1980.970379 1894.170079 1908.541074 1871.045332 1968.637493 1655.145292 1721.510372 1951.226101 2279.623289 0.970008218 0.868990236 0.830913637 0.837217747 0.820769528 0.863580181 0.72606088 0.755173182 0.855942344 1 11.15457972 -6.756803446 0.535286411 1.002796088 0.764614547 0.473831648 0.057636638 0.2195012 0.134711785 0.011276013 0.020427989 1.75E-07 6.756803446 -0.23818154 S(ph)PPSYSVLYPSSDPK ddPTM_HeLa_SAHA_4h_R1 2 SPPSYSVLYPSSDPK 15 0 Q8N3V7-2;Q8N3V7-3;Q8N3V7 Q8N3V7-2 SYNPO Synaptopodin 1 0 S(0.908)PPS(0.09)YS(0.002)VLYPSSDPK;S(0.958)PPS(0.039)YS(0.003)VLYPSSDPK ; 110.22 0.0021106 6114900 2536.82 2263.2 2011.09 2550.4 2598.43 2825.39 2750.88 2519.12 2763.08 2645.6 TRUE FALSE FALSE 2803.654367 2336.529165 2285.150872 2599.76668 2399.338855 2584.650877 2441.343742 2454.684558 2743.851501 2759.664763 1.015940198 0.846671377 0.828053792 0.942058874 0.869431275 0.936581469 0.884652286 0.889486502 0.994269861 1 11.43027731 -7.270711953 24.98848278 1.007527319 0.886599401 0.722941763 0.033475165 233.1998002 628444.7553 0.005598656 0.006448738 5.36E-08 7.270711953 -0.120927918 S(ph)PPTQVAISSDSAR ddPTM_HeLa_SAHA_4h_R1 2 SPPTQVAISSDSAR 14 0 H0YM82;Q6ZUT6-3;Q6ZUT6-4;Q6ZUT6 H0YM82 C15orf52 Uncharacterized protein C15orf52 1 0 S(1)PPTQVAISSDSAR;S(1)PPTQVAISSDSAR ; 114.54 0.0014985 14405700 0 0 0 0 72.698 79.663 0 0 170.71 0 TRUE FALSE FALSE 0 0 0 0 67.12789495 72.87526423 0 0 169.5220152 0 0 S(ph)PQFINLK ddPTM_HeLa_SAHA_4h_R1 1 SPQFINLK 8 0 Q92576-2;Q92576 Q92576-2 PHF3 PHD finger protein 3 1 0 S(1)PQFINLK 105.2 0.0080532 8210300 1582.6 1912.9 1495.7 2068.9 2192.5 1634.9 1718.8 1263.7 1558.1 1462.9 TRUE FALSE FALSE 1749.065129 1974.879215 1699.526207 2108.946551 2024.511124 1495.597322 1525.3961 1231.376384 1547.257055 1525.972778 1.146196809 1.294177225 1.113732978 1.382034189 1.326701991 0.980094366 0.999622092 0.806945184 1.013948006 1 10.57551351 -4.557391431 1.811079162 1.128197224 0.805216086 0.404528671 0.133277822 0.492572044 2.440385722 0.021734914 0.22147291 2.77E-05 4.557391431 -0.322981138 S(ph)PQLSDFGLER ddPTM_HeLa_SAHA_4h_R1 2 SPQLSDFGLER 11 0 Q8IX90;Q8IX90-3 Q8IX90 SKA3 Spindle and kinetochore-associated protein 3 1 0 S(1)PQLSDFGLER;S(1)PQLSDFGLER ; 163.33 0.00017499 34390000 1050.13 1154.79 1081.62 1061.35 1267.56 1211.81 1315.71 1283.41 1354.41 1077.02 TRUE FALSE FALSE 1160.587492 1192.205954 1229.017541 1081.893964 1170.439827 1108.556971 1167.662848 1250.582231 1344.984551 1123.455603 1.033051496 1.061195432 1.093961824 0.963005535 1.041821166 0.986738566 1.039349348 1.113156788 1.197185315 1 10.1337274 -9.865304515 0.005863089 7.23E-05 2.021323388 0 0.07340173 21446.59604 24.5796332 4381.04689 4095.814126 1.36E-10 9.865304515 2.021251079 S(ph)PQNQYPAELMR ddPTM_HeLa_SAHA_4h_R1 1 SPQNQYPAELMR 12 0 P33993;P33993-2;C9J8M6 P33993 MCM7 DNA replication licensing factor MCM7 1 0 S(1)PQNQYPAELMR 91.712 0.011444 5031300 328.72 446.74 269.97 387.49 433.78 370.38 260.4 474.04 497.86 327.73 TRUE FALSE FALSE 363.2962778 461.2146691 306.7601057 394.9904293 400.5438701 338.8215403 231.0991067 461.9147432 494.3953517 341.8600442 1.062704706 1.349133006 0.897326584 1.155415604 1.171660382 0.991111848 0.676005022 1.351180845 1.446192265 1 8.417262003 -3.943697054 20.9841756 1.039394732 6.087075508 0.095218217 0.211905417 471.9836599 182121.3458 0.021416355 3814.051917 0.000113842 3.943697054 5.047680776 S(ph)PQPPSR ddPTM_HeLa_SAHA_4h_R1 2 SPQPPSR 7 0 E7ERS3;Q86VM9 E7ERS3 ZC3H18 Zinc finger CCCH domain-containing protein 18 1 0 S(1)PQPPSR;S(1)PQPPSR ; 102.06 0.012425 220400000 1802.52 2297.5 1520.91 2300.6 2765.2 3334.7 2115.3 2238 2949.2 3168.3 TRUE FALSE FALSE 1992.117324 2371.940507 1728.171694 2345.13144 2553.330973 3050.564799 1877.280877 2180.755201 2928.676277 3304.900918 0.602776716 0.717703969 0.522911802 0.709592057 0.772589266 0.92304274 0.568029397 0.659854941 0.886161597 1 11.6903913 -9.354471529 1.018000925 1.004550897 0.682414918 0.452641208 0.111410437 0.3419985 0.620009118 0.081179913 0.019992387 4.42E-10 9.354471529 -0.322135979 S(ph)PQPPVEEEDEHFDDTVVCLDTYNCDLHFK ddPTM_HeLa_SAHA_4h_R1 2 SPQPPVEEEDEHFDDTVVCLDTYNCDLHFK 30 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1W2PP35;Q5RI18;A0A1W2PRI6 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 1 0 S(0.998)PQPPVEEEDEHFDDT(0.002)VVCLDTYNCDLHFK;S(0.818)PQPPVEEEDEHFDDT(0.182)VVCLDTYNCDLHFK ; 114.85 3.08E-10 70429000 1456.01 2519.92 2261.72 2158.8 2455.09 2260.75 2900.27 1569.99 3282.8 2675.46 TRUE FALSE FALSE 1609.159812 2601.567061 2569.935423 2200.586696 2266.981535 2068.121381 2573.923987 1529.831929 3259.954728 2790.812174 0.576591942 0.93218995 0.920855745 0.788511214 0.812301722 0.741046424 0.922284921 0.548167284 1.168102518 1 11.44646932 -9.680809492 1.555227047 0.999665851 0.759587612 0.390176942 0.14030548 0.404514994 1.766279634 0.098571273 0.022085525 2.09E-10 9.680809492 -0.240078239 S(ph)PQQSAALPR ddPTM_HeLa_SAHA_4h_R1 2 SPQQSAALPR 10 0 A0A0A6YYG7;Q6IBW4-2;Q6IBW4;Q6IBW4-4;E5RJN3 A0A0A6YYG7 NCAPH2 Condensin-2 complex subunit H2 1 0 S(1)PQQSAALPR;S(1)PQQSAALPR ; 139.19 0.0011721 83220000 815.29 940.01 780.94 904.4 1184.1 1522.71 906.66 1013.44 1270.44 1133.04 TRUE FALSE FALSE 901.0459429 970.4669408 887.3624362 921.9059698 1093.374514 1392.966541 804.6402306 987.5176722 1261.598905 1181.890899 0.762376581 0.821113811 0.750798942 0.780026287 0.925106128 1.178591478 0.680807536 0.835540466 1.067441086 1 10.20688115 -9.494961075 1.258308417 0.999431923 0.835653126 0.242885432 0.130915268 0.648532981 1.84757179 0.090200283 0.022251505 3.20E-10 9.494961075 -0.163778797 S(ph)PQTLAPVGEDAMK ddPTM_HeLa_SAHA_4h_R1 2 SPQTLAPVGEDAMK 14 0 Q92797 Q92797 SYMPK Symplekin 1 0 S(0.996)PQT(0.004)LAPVGEDAMK;S(0.998)PQT(0.002)LAPVGEDAMK ; 112.24 0.0019008 10145800 1029.95 1356.66 786.66 1203.06 1572.11 1669.59 1214.58 1473.84 1922.09 1708.67 TRUE FALSE FALSE 1138.284867 1400.616674 893.8619281 1226.346966 1451.655271 1527.331539 1077.912262 1436.141307 1908.714019 1782.339126 0.638646625 0.785830628 0.50151058 0.688054786 0.814466366 0.856925328 0.604773944 0.805762094 1.070903955 1 10.79955615 -9.342312841 0.984901765 1.00584727 0.706589627 0.583088038 0.107543991 0.361186645 0.607509552 0.078245917 0.018974242 4.55E-10 9.342312841 -0.299257643 S(ph)PQVKPASTMGMGPLGK ddPTM_HeLa_SAHA_4h_R1 3 SPQVKPASTMGMGPLGK 17 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 S(1)PQVKPASTMGMGPLGK;S(0.991)PQVKPAS(0.007)T(0.003)MGMGPLGK;S(1)PQVKPASTMGMGPLGK ;; 76.85 0.0066843 17127300 3887.55 4380.8 3732.9 4427 4956.3 5053.3 4392.95 3870.7 5278.6 4150.14 TRUE FALSE FALSE 4296.460346 4522.740794 4241.600172 4512.690987 4576.549365 4622.730411 3898.643704 3771.693099 5241.865793 4329.072846 0.992466632 1.044736588 0.979794132 1.042415119 1.057166171 1.067833824 0.900572442 0.871247316 1.210851834 1 12.07984236 -4.645640473 6.289947287 1.00995194 0.879155349 0.381087072 0.070481819 0.08162645 4.089987799 0.004641744 0.017826869 2.26E-05 4.645640473 -0.130796591 S(ph)PQVPAAQQMLNFPEK ddPTM_HeLa_SAHA_4h_R1 1 SPQVPAAQQMLNFPEK 16 0 Q92922 Q92922 SMARCC1 SWI/SNF complex subunit SMARCC1 1 0 S(1)PQVPAAQQMLNFPEK 134.4 5.80E-06 0 293.31 376.82 265.95 464.32 358.53 434.29 476.22 249.53 374.3 227.87 TRUE FALSE FALSE 324.1616916 389.0292152 302.192281 473.307585 331.0595089 397.2860488 422.6344723 243.1473839 371.6952158 237.6945909 1.363773952 1.63667677 1.271346899 1.991242557 1.392793617 1.671413924 1.778056752 1.022940333 1.563751259 1 7.892965263 -8.249131077 0.633909627 1.01881519 1.567177351 0 0.307312974 0.479711904 0.423081045 0.117010975 0.063130864 5.63E-09 8.249131077 0.548362161 S(ph)PRPDHPGTPPHK ddPTM_HeLa_SAHA_4h_R1 1 SPRPDHPGTPPHK 13 1 P30291 P30291 WEE1 Wee1-like protein kinase 1 0 S(1)PRPDHPGTPPHK 79.652 0.0076236 5647500 523.5 606.88 655.22 545.5 589.41 308.87 552.7 645.43 620.88 678.11 TRUE FALSE FALSE 578.5641319 626.5433102 744.5099694 556.0589413 544.2495331 282.5525383 490.5087414 628.9208352 616.5592455 707.3466407 0.817935788 0.885765584 1.052539062 0.786119435 0.769424073 0.399454132 0.693448888 0.889126772 0.871650772 1 9.466273582 -5.839033988 2.632074094 0.918215658 0.660495441 0.419924721 0.130749519 0.201429413 2.838090369 0.020578457 0.041346631 1.45E-06 5.839033988 -0.257720216 S(ph)PRPPPR ddPTM_HeLa_SAHA_4h_R1 1 SPRPPPR 7 1 Q9HB15 REV__H3BV60 KCNK12 Potassium channel subfamily K member 12 1 0 S(1)PRPPPR 76.847 0.01845 122920000 292.64 143.86 225.36 170.46 233.23 284.97 329.52 269.36 293.63 199.44 TRUE FALSE FALSE 323.4212179 148.5211584 256.0708872 173.7594998 215.3599678 260.6889528 292.4415424 262.4701612 291.5866049 208.0388344 1.554619448 0.713910741 1.230880224 0.83522627 1.035191186 1.253078318 1.405706503 1.261640222 1.401596994 1 7.70070905 -9.906444144 2.101695942 0.997831808 1.232946017 0 0.27483237 0.692722529 5.544807599 0.215749691 0.041672156 1.24E-10 9.906444144 0.235114209 S(ph)PRSPQLSDFGLER ddPTM_HeLa_SAHA_4h_R1 2 SPRSPQLSDFGLER 14 1 Q8IX90;Q8IX90-3 Q8IX90 SKA3 Spindle and kinetochore-associated protein 3 1 0 S(0.5)PRS(0.5)PQLS(0.001)DFGLER;S(0.777)PRS(0.223)PQLSDFGLER ; 92.039 0.0047658 14292700 605.69 480.62 626.82 522.75 711.77 829.55 721.74 691.18 440.48 613.98 TRUE FALSE FALSE 669.3992532 496.1924033 712.2397653 532.8685822 657.2343364 758.8676731 640.5279157 673.5006164 437.4146638 640.4516825 1.04519868 0.774753845 1.112089771 0.832019958 1.026204403 1.184894495 1.00011903 1.05160254 0.682978397 1 9.322945924 -5.514880025 24.99738224 0.994304702 1.076755516 0.07626785 0.143582312 620.4765117 1939092.826 0.014423747 0.029951435 3.06E-06 5.514880025 0.082450814 S(ph)PS(ph)ATEVGRIQAS(ph)PLPR ddPTM_HeLa_SAHA_4h_R1 1 SPSATEVGRIQASPLPR 17 1 Q7Z3Z4 Q7Z3Z4 PIWIL4 Piwi-like protein 4 3 0 S(0.998)PS(0.998)AT(0.004)EVGRIQAS(1)PLPR 75.91 0.016175 12876000 1686.5 1409.5 1359.1 1398.1 1516.2 1943.2 1769.2 1550.2 1785.3 1652.3 TRUE FALSE FALSE 1863.893808 1455.168725 1544.31107 1425.162247 1400.029084 1777.628428 1570.12496 1510.548129 1772.875952 1723.538739 1.081434241 0.844291278 0.896011813 0.826881471 0.812299168 1.031382926 0.910989074 0.876422499 1.028625532 1 10.75115801 -7.26146916 25 1.038455059 0.887399965 0.570905258 0.060054819 1.512247383 1269227.354 0.010939701 0.012948943 5.48E-08 7.26146916 -0.151055094 S(ph)PS(ph)DLSPES(ph)PMLS(ph)SPPK ddPTM_HeLa_SAHA_4h_R1 1 SPSDLSPESPMLSSPPK 17 0 A0A0J9YXY4;A0A0J9YW36;Q9NZ72-2;Q9NZ72 A0A0J9YXY4 STMN3 Stathmin-3 4 0 S(0.992)PS(0.998)DLS(0.048)PES(0.945)PMLS(0.559)S(0.459)PPK 51.286 0.008794 0 450.29 422.4 176.11 565.62 360.05 520.28 797.11 457.81 326.66 393.52 TRUE FALSE FALSE 497.6535682 436.0860371 200.1093537 576.568393 332.4630468 475.949217 707.4170849 446.0998831 324.3867465 410.486573 1.212350418 1.062363706 0.487493055 1.404597448 0.809924291 1.159475725 1.723362301 1.08675877 0.790249347 1 8.681191222 -4.98412695 24.71705449 1.056283274 1.414150383 0.237137871 0.284019521 219.4877915 341774.8186 0.035116359 0.105302486 1.04E-05 4.98412695 0.357867109 S(ph)PS(ph)PAPPPR ddPTM_HeLa_SAHA_4h_R1 1 SPSPAPPPR 9 0 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 2 0 S(1)PS(1)PAPPPR 131.09 0.021543 84684000 1851.6 2651.1 1624.6 1888 2543.6 2996.1 2046.9 2881.8 2612.9 2690 TRUE FALSE FALSE 2046.359783 2736.997379 1845.992027 1924.54497 2348.709918 2740.815424 1816.577425 2808.087729 2594.716616 2805.979065 0.729285478 0.97541618 0.657878047 0.68587289 0.837037577 0.976776862 0.647395217 1.00075149 0.924709899 1 11.45428853 -9.45997159 1.116257723 1.003384284 0.802409657 0.161048537 0.130123725 0.567640372 1.230211444 0.0912874 0.021061003 3.47E-10 9.45997159 -0.200974627 S(ph)PS(ph)PS(ph)PT(ph)SPGS(ph)LRKQR ddPTM_HeLa_SAHA_4h_R1 1 SPSPSPTSPGSLRKQR 16 2 Q5VZY9;O15075-2;O15075;O15075-3;O15075-4 Q5VZY9 DCLK1 Serine/threonine-protein kinase DCLK1 5 0 S(1)PS(1)PS(1)PT(0.997)S(0.124)PGS(0.879)LRKQR 68.845 0.0047572 0 454.64 306.38 405.09 363.39 473.65 504.58 557.66 428.6 714.95 474.27 TRUE FALSE FALSE 502.4611212 316.306913 460.2935556 370.4239389 437.3590393 461.5869453 494.9106291 417.6370326 709.9746047 494.7181007 1.015651379 0.639367981 0.930415837 0.748757602 0.88405708 0.933030234 1.000389168 0.844191939 1.435109416 1 8.950462875 S(ph)PSAGILR ddPTM_HeLa_SAHA_4h_R1 2 SPSAGILR 8 0 F5GX58;F8WDL1;Q99618;J3KMY0 F5GX58 CDCA3 Cell division cycle-associated protein 3 1 0 S(0.998)PS(0.002)AGILR;S(1)PSAGILR ; 89.886 0.018045 16485100 1884.78 2027.45 2510.3 2406.5 2482 2366.1 2212.8 1748.01 1913.28 1941.02 TRUE FALSE FALSE 2083.029808 2093.14071 2852.390611 2453.081287 2291.829696 2164.494969 1963.80992 1703.298435 1899.965329 2024.706871 1.02880562 1.033799381 1.408791886 1.211573548 1.131931604 1.069041153 0.969923078 0.841256806 0.93839032 1 10.98349734 -2.787589804 10.57110037 1.05223875 0.750713286 0 0.150671733 0 0 0.020428227 0 0.001630836 2.787589804 -0.301525464 S(ph)PSAIPEQNHSLNDQAK ddPTM_HeLa_SAHA_4h_R1 2 SPSAIPEQNHSLNDQAK 17 0 Q13129 Q13129 RLF Zinc finger protein Rlf 1 0 S(0.998)PS(0.002)AIPEQNHSLNDQAK;S(0.5)PS(0.5)AIPEQNHSLNDQAK ; 218.36 6.56E-21 22454900 3087.45 2905.26 2790.31 2889.84 3536.92 4243.67 3725.65 3671.88 2606.94 2943.62 TRUE FALSE FALSE 3412.202157 2999.39233 3170.558915 2945.777032 3265.921954 3882.085442 3306.430057 3577.958626 2588.798092 3070.533864 1.111273253 0.976830891 1.032575785 0.959369661 1.063633263 1.264303087 1.076825791 1.165256201 0.843110093 1 11.5842738 -5.498644957 24.38492243 1.038833143 1.16032648 0.406136422 0.085480276 407.5031967 410043.9729 0.009228273 0.020523982 3.17E-06 5.498644957 0.121493336 S(ph)PSAPAATSSASSSTSSYK ddPTM_HeLa_SAHA_4h_R1 1 SPSAPAATSSASSSTSSYK 19 0 A0A087X0S7;A0A0C4DH00;A0A087WTU1;A0A0B4J2G4;Q15345-3;Q15345 A0A087X0S7 LRRC41 Leucine-rich repeat-containing protein 41 1 0 S(0.978)PS(0.022)APAATSSASSSTSSYK 235.75 4.89E-33 10116000 592.78 783.47 404.37 589.34 845.96 1212.4 664.25 644.32 645.05 602.36 TRUE FALSE FALSE 655.1313202 808.8549421 459.4754377 600.7475279 781.1427276 1109.096699 589.5068418 627.8392274 640.5610445 628.3306875 1.042653706 1.287307716 0.731263723 0.956100887 1.24320321 1.765148068 0.938211126 0.999217832 1.019464841 1 9.295380232 -5.750477122 23.42109036 1.014799069 1.252907319 0.176952373 0.241866124 132.5162501 283118.7058 0.034430414 0.068250092 1.78E-06 5.750477122 0.23810825 S(ph)PSAPAATSSASSSTSSYKR ddPTM_HeLa_SAHA_4h_R1 2 SPSAPAATSSASSSTSSYKR 20 1 A0A087X0S7;A0A0C4DH00;A0A087WTU1;A0A0B4J2G4;Q15345-3;Q15345 A0A087X0S7 LRRC41 Leucine-rich repeat-containing protein 41 1 0 S(0.894)PS(0.106)APAATSSASSSTSSYKR;S(0.838)PS(0.162)APAATSSASSSTSSYKR ; 159.1 1.44E-06 15024200 1843.3 1979.19 1693.97 2026.19 2220.55 2712 2323.36 2133.7 2101.5 2208.71 TRUE FALSE FALSE 2037.186751 2043.317055 1924.81541 2065.409837 2050.411939 2480.922343 2061.929418 2079.123044 2086.87549 2303.938297 0.884219319 0.886880112 0.835445729 0.89646925 0.889959571 1.076818049 0.894958611 0.902421322 0.905786189 1 11.16988636 -9.339592456 1.079896501 0.99963624 0.907920742 0 0.065953097 0.599403964 1.258397732 0.04108032 0.010951811 4.58E-10 9.339592456 -0.091715498 S(ph)PSASITDEDSNV ddPTM_HeLa_SAHA_4h_R1 1 SPSASITDEDSNV 13 0 Q86W92-3;Q86W92-4;Q86W92;H0YFE4;Q86W92-2 Q86W92-3;Q86W92-2 PPFIBP1 Liprin-beta-1 1 0 S(0.887)PS(0.1)AS(0.013)ITDEDSNV 197.07 2.00E-08 7376600 913.83 1256.5 860.89 874.64 1059.2 1207.9 1019.9 943.37 1192.9 1094.9 TRUE FALSE FALSE 1009.950832 1297.211424 978.2076059 891.569922 978.0443248 1104.980125 905.1381678 919.2399614 1184.598512 1142.106497 0.884287792 1.135806011 0.856494213 0.780636415 0.856351248 0.967493073 0.792516433 0.804863613 1.037204949 1 10.15748147 -6.558196957 24.99854328 0.95992617 0.842953455 0.464211675 0.082341098 158.8329683 112422.8284 0.013088175 0.018509509 2.77E-07 6.558196957 -0.116972715 S(ph)PSDSGYSYETIGK ddPTM_HeLa_SAHA_4h_R1 3 SPSDSGYSYETIGK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 S(0.999)PS(0.001)DSGYSYETIGK;S(0.989)PS(0.011)DSGYSYETIGK;S(0.922)PS(0.078)DSGYSYETIGK ;; 146.59 0.00010605 64394000 3101.88 4008.1 2585.2 3387.53 4070.63 4721.7 3702.18 3491.9 5273.7 4188.7 TRUE FALSE FALSE 3428.14997 4137.96507 2937.497593 3453.100542 3758.739209 4319.384596 3285.600963 3402.582254 5236.999892 4369.295356 0.784600191 0.947055471 0.672304652 0.790310625 0.860262102 0.988576932 0.75197502 0.778748511 1.198591412 1 12.09318492 -9.361021623 0.8727042 1.010446114 0.821073587 0.459574257 0.108895622 0.600120106 0.74314705 0.078675316 0.016453094 4.35E-10 9.361021623 -0.189372527 S(ph)PSDSSTASTPVAEQIER ddPTM_HeLa_SAHA_4h_R1 4 SPSDSSTASTPVAEQIER 18 0 Q16643;Q16643-2;Q16643-3;D6R9Q9 Q16643 DBN1 Drebrin 1 0 S(0.926)PS(0.064)DS(0.009)S(0.001)TASTPVAEQIER;S(1)PSDSSTASTPVAEQIER;S(0.946)PS(0.042)DS(0.005)S(0.004)T(0.001)AS(0.001)TPVAEQIER;S(0.964)PS(0.036)DSSTASTPVAEQIER ;;; 193.8 3.85E-13 111431300 1307.79 1038.98 1079.37 1294.1 1450.77 1582.28 1408.51 1177.03 1911.81 1216.59 TRUE FALSE FALSE 1445.349353 1072.643634 1226.460922 1319.149177 1339.612316 1447.460842 1250.020748 1146.923277 1898.505559 1269.043149 1.138928455 0.845238111 0.966445407 1.039483313 1.05560817 1.140592299 0.985010438 0.903770118 1.496013402 1 10.30952541 S(ph)PSEARQDVDLCLVSSCEYK ddPTM_HeLa_SAHA_4h_R1 1 SPSEARQDVDLCLVSSCEYK 20 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 S(0.466)PS(0.466)EARQDVDLCLVS(0.052)S(0.016)CEYK 91.637 0.00070571 6566100 674.1 900.02 848.98 920.84 1001.9 1101.9 844.64 873.97 1119.1 867.63 TRUE FALSE FALSE 745.0049309 929.1812385 964.6745731 938.6641898 925.1346384 1008.011921 749.5988842 851.6151129 1111.312092 905.0377754 0.823175508 1.026676746 1.065894264 1.037154708 1.022205552 1.113778837 0.828251488 0.940971898 1.227917908 1 9.8218342 -7.221926926 24.96648029 0.916499515 1.006618677 0 0.128593197 729.8212216 461147.9902 0.016302918 0.01996678 6.00E-08 7.221926926 0.090119161 S(ph)PSFASEWDEIEK ddPTM_HeLa_SAHA_4h_R1 2 SPSFASEWDEIEK 13 0 A0A3B3ISP1;Q92625 A0A3B3ISP1 ANKS1A Ankyrin repeat and SAM domain-containing protein 1A 1 0 S(0.843)PS(0.153)FAS(0.004)EWDEIEK;S(0.893)PS(0.107)FASEWDEIEK ; 184.21 6.20E-07 115639000 2292.1 2962.3 2472.2 2792.3 2785.9 3324.2 3113.5 2811.9 3186.9 2555.2 TRUE FALSE FALSE 2533.193595 3058.280464 2809.098541 2846.349004 2572.444944 3040.959459 2763.160786 2739.97567 3164.722103 2665.367177 0.950410741 1.147414319 1.05392554 1.067901274 0.965137174 1.140915775 1.036690483 1.027991825 1.187349394 1 11.38011857 -7.292613002 24.99041428 0.976582848 1.060942305 0 0.083951905 504.1789458 404175.3411 0.008517175 0.009740351 5.10E-08 7.292613002 0.084359457 S(ph)PSFGAGEGLLR ddPTM_HeLa_SAHA_4h_R1 1 SPSFGAGEGLLR 12 0 Q96PE2 Q96PE2 ARHGEF17 Rho guanine nucleotide exchange factor 17 1 0 S(0.696)PS(0.304)FGAGEGLLR 120.59 0.0015078 31041000 441.83 461.27 427.37 348.66 448.71 575.76 392.58 339.3 467.8 405.11 TRUE FALSE FALSE 488.3037066 476.2154507 485.609758 355.4088185 414.3299367 526.7020089 348.4058652 330.6211973 464.5445417 422.5762747 1.155539806 1.126933714 1.149164747 0.841052467 0.980485563 1.246406958 0.824480422 0.782394131 1.099315247 1 8.72306796 -6.273005362 24.93113226 1.085339673 0.948657306 0.301605499 0.127483329 919.8798995 1982850.496 0.020999852 0.032248494 5.33E-07 6.273005362 -0.136682366 S(ph)PSFGDPQLS(ph)PEARPR ddPTM_HeLa_SAHA_4h_R1 1 SPSFGDPQLSPEARPR 16 1 O95425-3;O95425-2 O95425-3 SVIL Supervillin 2 0 S(0.918)PS(0.082)FGDPQLS(1)PEARPR 113.78 0.007231 14131000 903.08 1473.1 999.47 1033.7 1224.9 1090.2 1205.1 1260.6 1936.9 1505.5 TRUE FALSE FALSE 998.0700979 1520.829407 1135.672567 1053.708758 1131.048427 997.3088267 1069.498976 1228.355677 1923.420955 1570.409473 0.635547681 0.968428574 0.723169712 0.670977077 0.720225168 0.635062921 0.681031919 0.782188148 1.224789451 1 10.61692506 -9.457989121 0.93248395 1.018813004 0.719085945 0.599490116 0.117765428 0.40197812 0.558031926 0.089149293 0.017159942 3.48E-10 9.457989121 -0.29972706 S(ph)PSGGAAGPLLTPSQSLDGSR ddPTM_HeLa_SAHA_4h_R1 4 SPSGGAAGPLLTPSQSLDGSR 21 0 Q96CX2 Q96CX2 KCTD12 BTB/POZ domain-containing protein KCTD12 1 0 S(0.986)PS(0.014)GGAAGPLLTPSQSLDGSR;S(1)PSGGAAGPLLTPSQSLDGSR;S(0.999)PS(0.001)GGAAGPLLTPSQSLDGSR;S(0.998)PS(0.002)GGAAGPLLTPSQSLDGSR ;;; 243.99 5.63E-43 117289000 331.26 893.06 313.51 553.398 746.25 680.49 729.42 309.35 815.71 376.83 TRUE FALSE FALSE 366.1034467 921.99573 356.2335101 564.1098185 689.0724862 622.5084237 647.3437419 301.4372749 810.0334077 393.0769855 0.931378484 2.345585634 0.90626906 1.435112813 1.753021702 1.58368067 1.646862487 0.766865744 2.060750025 1 8.618668087 S(ph)PSGGAAGPLLTPSQSLDGSRR ddPTM_HeLa_SAHA_4h_R1 3 SPSGGAAGPLLTPSQSLDGSRR 22 1 Q96CX2 Q96CX2 KCTD12 BTB/POZ domain-containing protein KCTD12 1 0 S(0.959)PS(0.041)GGAAGPLLTPSQSLDGSRR;S(0.756)PS(0.244)GGAAGPLLTPSQSLDGSRR;S(0.943)PS(0.057)GGAAGPLLTPSQSLDGSRR ;; 145.72 1.80E-06 109286000 1463.84 1701.67 1513.02 1662.88 1671.35 1709.53 2051.04 1569.34 1605.41 1588.39 TRUE FALSE FALSE 1617.813408 1756.805225 1719.206486 1695.067447 1543.291524 1563.868426 1820.251581 1529.198555 1594.237821 1656.873266 0.97642556 1.06031358 1.037620994 1.023051963 0.931448141 0.943867258 1.098606404 0.92294238 0.962196599 1 10.69424754 S(ph)PSGLRPR ddPTM_HeLa_SAHA_4h_R1 4 SPSGLRPR 8 1 H3BMQ0;P49815;A0A2R8Y5F1;A0A2R8YGD6;A0A2R8Y7C8;A0A2R8YDR3;A0A2R8Y7X5;A0A2R8YDZ2;X5D2U8;A0A2R8YGU4;A0A2R8Y6C9;P49815-5;P49815-3;P49815-2;P49815-6;P49815-7;P49815-4;H3BQK4 H3BMQ0 TSC2 Tuberin 1 0 S(1)PSGLRPR;S(1)PSGLRPR;S(1)PSGLRPR;S(1)PSGLRPR ;;; 82.241 0.015141 25001300 2043.82 2725.24 2174.81 2033 2146.15 3070.71 2250.82 2196.02 2242.23 2203.44 TRUE FALSE FALSE 2258.798365 2813.539564 2471.181781 2072.351655 1981.712451 2809.068233 1997.55181 2139.848988 2226.626139 2298.441082 0.982752346 1.22410776 1.075155592 0.901633577 0.862198499 1.222162384 0.869089848 0.931000148 0.968754934 1 11.16643997 -6.26354329 24.88709398 1.018441817 0.961761342 0.104898183 0.118519462 479.6766417 5674077.02 0.018186583 0.028648079 5.45E-07 6.26354329 -0.056680476 S(ph)PSHSGNAGDLK ddPTM_HeLa_SAHA_4h_R1 3 SPSHSGNAGDLK 12 0 Q9H694;Q9H694-2;A6NGY7 Q9H694 BICC1 Protein bicaudal C homolog 1 1 0 S(0.993)PS(0.006)HSGNAGDLK;S(0.975)PS(0.025)HSGNAGDLK;S(0.818)PS(0.182)HSGNAGDLK ;; 128.36 0.00088524 44577000 10526.91 11498.05 8681.99 11031.11 11792.41 13049.16 12974.38 12048.05 12374.38 13008.78 TRUE FALSE FALSE 11634.17869 11870.59436 9865.126383 11244.63309 10888.87809 11937.29816 11514.46862 11739.87833 12288.26568 13569.65217 0.857367495 0.874789878 0.726999208 0.828660377 0.80244342 0.879705538 0.848545598 0.865156909 0.905569688 1 13.72809612 -8.778822848 0.652610372 1.002932076 0.83025443 0.432960353 0.050188076 0.344039909 0.275852402 0.030845492 0.010159442 1.66E-09 8.778822848 -0.172677647 S(ph)PSKPLPEVTDEYK ddPTM_HeLa_SAHA_4h_R1 1 SPSKPLPEVTDEYK 14 1 P05455;E9PGX9;E9PFL9;E7ERC4 P05455 SSB Lupus La protein 1 0 S(0.774)PS(0.226)KPLPEVTDEYK 83.877 0.0082996 7059300 1111.7 1491.1 999.01 1469.2 1546.6 1946.9 1460 1397.8 2131.7 1208.8 TRUE FALSE FALSE 1228.633707 1539.412618 1135.14988 1497.63849 1428.099842 1781.013167 1295.716957 1362.0463 2116.865326 1260.917284 0.974396753 1.220867251 0.900257213 1.1877373 1.132588046 1.412474228 1.027598697 1.080202736 1.678829653 1 10.30025792 -6.55285527 0.955279779 0.991033581 1.171773912 0 0.251771744 0.513256693 0.935653529 0.02340317 0.04185118 2.80E-07 6.55285527 0.180740331 S(ph)PSLGSDLTFATR ddPTM_HeLa_SAHA_4h_R1 3 SPSLGSDLTFATR 13 0 Q13425 Q13425 SNTB2 Beta-2-syntrophin 1 0 S(0.721)PS(0.279)LGSDLTFATR;S(0.97)PS(0.029)LGSDLTFATR;S(0.978)PS(0.022)LGSDLTFATR ;; 145.61 0.00023376 17027200 806.77 1331.3 959.4 1221.44 1390.61 1731.63 1100.98 1276.03 1383.57 1172.6 TRUE FALSE FALSE 891.6297702 1374.434993 1090.142036 1245.082737 1284.061762 1584.085382 977.0948328 1243.391 1373.941624 1223.156525 0.72895803 1.123678749 0.891253093 1.017925926 1.049793494 1.295079861 0.798830577 1.016542834 1.123275391 1 10.25639332 -7.25118194 24.98930961 0.872007957 1.024315249 0 0.15889192 901.9954344 2197454.429 0.025583577 0.031149564 5.61E-08 7.25118194 0.152307292 S(ph)PSPAHLPDDPK ddPTM_HeLa_SAHA_4h_R1 2 SPSPAHLPDDPK 12 0 Q92615;A0A087X183;H0Y4V9;H0Y641 Q92615 LARP4B La-related protein 4B 1 0 S(0.719)PS(0.281)PAHLPDDPK;S(0.5)PS(0.5)PAHLPDDPK ; 109.22 0.0032767 132338200 12677.8 15999.3 10676.2 15080.3 17939.9 21058.8 16611.5 15801.7 18046.6 14195.7 TRUE FALSE FALSE 14011.30917 16517.68782 12131.09694 15372.20101 16565.34874 19264.47177 14742.3303 15397.51539 17921.01224 14807.7461 0.946214844 1.115476164 0.819239934 1.038118895 1.118694812 1.300972588 0.995582326 1.039828431 1.210245781 1 13.85406444 -5.9345136 4.748114943 0.974380143 1.117013481 0.064284692 0.124888819 0.18836647 8.398174896 0.014330026 0.026329296 1.16E-06 5.9345136 0.142633337 S(ph)PSPAPPPR ddPTM_HeLa_SAHA_4h_R1 1 SPSPAPPPR 9 0 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 S(0.999)PS(0.001)PAPPPR 86.882 0.020674 2122000 830.42 820.48 575.09 1050.4 777.38 2080.4 795.93 857.55 1190 845.69 TRUE FALSE FALSE 917.7673857 847.0640903 653.4602703 1070.732011 717.8173123 1903.138216 706.3698616 835.6151127 1181.718693 882.1518346 1.040373493 0.960224824 0.74075714 1.213772923 0.813711749 2.15738169 0.800735014 0.947246358 1.339586505 1 9.784883181 S(ph)PSPAVPLR ddPTM_HeLa_SAHA_4h_R1 2 SPSPAVPLR 9 0 Q6P4R8-3;Q6P4R8;Q6P4R8-2;E9PQ59 Q6P4R8-3 NFRKB Nuclear factor related to kappa-B-binding protein 1 0 S(0.933)PS(0.067)PAVPLR;S(0.719)PS(0.281)PAVPLR ; 126.31 0.0026384 50531000 3322.7 3871.3 2979.9 4009.9 4012.1 4392.4 4317.4 3999.5 4218.8 3508.1 TRUE FALSE FALSE 3672.196831 3996.73266 3385.985253 4087.517413 3704.693765 4018.142809 3831.594789 3897.198581 4189.441027 3659.351359 1.003510314 1.092197023 0.925296568 1.117005997 1.012390831 1.098047827 1.047069388 1.064997099 1.144858915 1 11.83737223 -6.349902495 0.61800877 1.00049814 1.069630627 0 0.067803054 0.859708634 0.644032612 0.01063299 0.02628857 4.47E-07 6.349902495 0.069132488 S(ph)PSPGLFR ddPTM_HeLa_SAHA_4h_R1 4 SPSPGLFR 8 0 E7ESG2;Q9HAW4-2;Q9HAW4-3;Q9HAW4 E7ESG2 CLSPN Claspin 1 0 S(0.664)PS(0.336)PGLFR;S(0.956)PS(0.044)PGLFR;S(0.586)PS(0.414)PGLFR;S(0.592)PS(0.408)PGLFR ;;; 117.81 0.0039436 112562000 15717.6 15647.6 14341 14651.8 15163.7 16400.5 17059.7 16323.3 16564.1 14181.9 TRUE FALSE FALSE 17370.84928 16154.59251 16295.3168 14935.40678 14001.86058 15003.08513 15140.09766 15905.77362 16448.82908 14793.35111 1.174233556 1.092017108 1.10152978 1.00960267 0.946496874 1.014177587 1.023439351 1.075197465 1.111906893 1 13.85266128 -6.254385921 22.89426012 1.086565041 1.010603079 0.400389294 0.049533567 213.9307071 694376.4794 0.010739672 0.017539971 5.57E-07 6.254385921 -0.075961962 S(ph)PSPISISSSETSSIMQK ddPTM_HeLa_SAHA_4h_R1 1 SPSPISISSSETSSIMQK 18 0 Q5VT06 Q5VT06 CEP350 Centrosome-associated protein 350 1 0 S(0.621)PS(0.368)PIS(0.01)ISSSETSSIMQK 95.954 0.0016945 0 224.74 312.12 331.24 258.03 256.29 392.02 344.32 245.8 169.5 266.99 TRUE FALSE FALSE 248.3791843 322.2328928 376.3796622 263.0245438 236.6531156 358.6176906 305.5762074 239.5127919 168.3204357 278.5012455 0.891842275 1.157024961 1.351446962 0.944428608 0.849738087 1.28766997 1.097216664 0.860006179 0.604379472 1 8.121539969 -7.265689854 24.95197558 0.948925519 1.083580561 0.189719976 0.191727692 542.3688823 3183918.078 0.027119491 0.031612998 5.42E-08 7.265689854 0.134655042 S(ph)PSPLGTSVR ddPTM_HeLa_SAHA_4h_R1 1 SPSPLGTSVR 10 0 E9PFQ4;Q86SQ0-2;Q86SQ0-3;Q86SQ0;E9PDY7;G5E9V3 E9PFQ4 PHLDB2 Pleckstrin homology-like domain family B member 2 1 0 S(0.632)PS(0.368)PLGTSVR 139.15 0.0011739 10207000 1152.9 1295.2 1248.7 1363.8 1353.1 1488.6 1353 1336.8 1108.8 1142.6 TRUE FALSE FALSE 1274.167312 1337.16533 1418.866333 1390.198321 1249.42577 1361.762905 1200.756879 1302.606592 1101.083771 1191.863078 1.069055108 1.121911866 1.19046085 1.166407742 1.048296397 1.142549787 1.0074621 1.092916306 0.923834114 1 10.21900279 -8.1292099 1.037860001 1.013195418 1.10800369 0.444508427 0.05894129 0.361855106 0.818495875 0.015552735 0.011589626 7.43E-09 8.1292099 0.094808273 S(ph)PSPPDGSPAATPEIR ddPTM_HeLa_SAHA_4h_R1 3 SPSPPDGSPAATPEIR 16 0 O00499-6;O00499-2;O00499;O00499-9;O00499-7;O00499-4;O00499-11;O00499-3;O00499-5;O00499-10;O00499-8 O00499-6 BIN1 Myc box-dependent-interacting protein 1 1 0 S(0.597)PS(0.025)PPDGS(0.377)PAAT(0.002)PEIR;S(0.96)PS(0.04)PPDGSPAATPEIR;S(0.503)PS(0.238)PPDGS(0.258)PAATPEIR ;; 130.66 0.00013209 126715500 2141.19 1980.42 1574.89 1838.87 2065.05 2919.67 2246.24 2298.42 2949 2415.04 TRUE FALSE FALSE 2366.410188 2044.586907 1789.507808 1874.463988 1906.826315 2670.89769 1993.487163 2239.629744 2928.477669 2519.164193 0.93936322 0.811613198 0.71035775 0.744081705 0.756928159 1.060231682 0.791328794 0.889036828 1.162479872 1 11.29872944 -7.397936371 3.080103062 0.975093628 0.821295459 0.408122729 0.110096815 0.215264201 3.750568001 0.0171918 0.019414125 4.00E-08 7.397936371 -0.153798169 S(ph)PSPPLPT(ph)HIPPEPPRTPPFPAK ddPTM_HeLa_SAHA_4h_R1 1 SPSPPLPTHIPPEPPRTPPFPAK 23 1 Q8IZ21-3;Q8IZ21;Q8IZ21-2 Q8IZ21-3 PHACTR4 Phosphatase and actin regulator 4 2 0 S(0.438)PS(0.438)PPLPT(0.927)HIPPEPPRT(0.197)PPFPAK 64.5 0.017406 2805100 488.22 509.75 540.84 582.85 539.66 534.53 545.66 633.91 596.63 517.25 TRUE FALSE FALSE 539.5732196 526.2662345 614.5428586 594.1319046 498.3113674 488.9850368 484.2609007 617.6955001 592.4780033 539.5511789 1.00004085 0.975377786 1.138989002 1.101159497 0.923566451 0.906281102 0.897525424 1.144832083 1.098094169 1 9.075616002 -4.23029682 23.29572432 0.997913452 1.144832719 0.210016997 0.080694915 5609.391826 4195847.968 0.010528276 1.600823216 5.88E-05 4.23029682 0.146919267 S(ph)PSPVLR ddPTM_HeLa_SAHA_4h_R1 3 SPSPVLR 7 0 A0A0A0MSA7;A0A0U1RQK7;O43432;O43432-3;O43432-2 A0A0A0MSA7 EIF4G3 Eukaryotic translation initiation factor 4 gamma 3 1 0 S(0.567)PS(0.433)PVLR;S(0.956)PS(0.044)PVLR;S(0.991)PS(0.009)PVLR ;; 107.01 0.0097116 275461000 2988.1 3476.82 2528.08 3642 3054.16 4410.28 3578.47 3367.36 3761.26 3401.78 TRUE FALSE FALSE 3302.402068 3589.471249 2872.593577 3712.496176 2820.150921 4034.499332 3175.811138 3281.227807 3735.085085 3548.447384 0.930661135 1.011561075 0.809535345 1.046231147 0.794756302 1.136975949 0.894986115 0.924693944 1.052597004 1 11.7929722 -9.372568747 0.909798521 1.002770077 0.943564664 0.086195539 0.099282479 1.806370978 2.466149802 0.07578365 0.016238133 4.24E-10 9.372568747 -0.059205412 S(ph)PSSDSWTCADTSTER ddPTM_HeLa_SAHA_4h_R1 2 SPSSDSWTCADTSTER 16 0 F8VWH9;Q8N6T3-5;Q8N6T3;Q8N6T3-2;Q8N6T3-4;E5RHH7;H0YIQ0 F8VWH9 ARFGAP1 ADP-ribosylation factor GTPase-activating protein 1 1 0 S(0.998)PS(0.001)S(0.001)DSWTCADTSTER;S(0.979)PS(0.02)S(0.002)DSWTCADTSTER ; 258.96 6.67E-47 34592000 821.46 881.94 953.34 887.09 1106.11 1226.36 800.35 911.28 1448.74 744.74 TRUE FALSE FALSE 907.8649318 910.5154347 1083.25621 904.2609097 1021.360091 1121.867229 710.2925116 887.9707771 1438.6581 776.8493861 1.168649867 1.172061729 1.394422432 1.164010587 1.314746602 1.444124497 0.91432461 1.1430411 1.851913802 1 9.601491109 -8.499914866 0.732250566 1.010318871 1.22291054 0 0.298868823 0.659215779 0.731707414 0.068788235 0.032519518 3.16E-09 8.499914866 0.212591669 S(ph)PSSDSWTCADTSTERR ddPTM_HeLa_SAHA_4h_R1 1 SPSSDSWTCADTSTERR 17 1 F8VWH9;Q8N6T3-5;Q8N6T3;Q8N6T3-2;Q8N6T3-4;E5RHH7;H0YIQ0 F8VWH9 ARFGAP1 ADP-ribosylation factor GTPase-activating protein 1 1 0 S(0.968)PS(0.031)S(0.001)DSWTCADTSTERR 112.01 0.00069809 8118700 336.09 281.45 230.55 379.9 245.94 426.48 368.61 351.72 169.18 326.43 TRUE FALSE FALSE 371.4414882 290.5691647 261.9681533 387.2535138 227.0961303 390.1415047 327.1330327 342.7235117 168.0026626 340.5039948 1.090857946 0.853350237 0.769354126 1.137295068 0.666941163 1.145776586 0.960731849 1.006518328 0.493394102 1 8.411527914 -7.272530945 24.89570344 1.042905141 0.934615416 0 0.224318461 1086.668724 2439090.872 0.022691897 0.026076353 5.34E-08 7.272530945 -0.108289724 S(ph)PSSEWLVR ddPTM_HeLa_SAHA_4h_R1 1 SPSSEWLVR 9 0 Q9NWQ4-4;Q9NWQ4 Q9NWQ4-4 GPATCH2L G patch domain-containing protein 2-like 1 0 S(0.995)PS(0.003)S(0.002)EWLVR 83.869 0.023597 1913300 336.68 482.92 374.2 865.5 445.84 977.41 542.31 764.44 732.7 475.51 TRUE FALSE FALSE 372.0935471 498.5669249 425.1940273 882.253004 411.6798355 894.1291692 481.2878515 744.8867317 727.601081 496.0115632 0.750171114 1.005151819 0.857226038 1.778694429 0.829980319 1.802637752 0.970315789 1.501752755 1.466903466 1 8.954229943 -6.308274606 24.8533632 0.88853095 1.347393392 0.165799465 0.347514425 280.903491 149062.3839 0.040725483 0.062209319 4.92E-07 6.308274606 0.458862442 S(ph)PSSQTPNSR ddPTM_HeLa_SAHA_4h_R1 2 SPSSQTPNSR 10 0 F5GZ90;Q9NZJ0 F5GZ90 DTL Denticleless protein homolog 1 0 S(0.999)PS(0.001)SQTPNSR;S(1)PSSQTPNSR ; 121.21 0.0028958 7247700 126.91 70.456 129.068 192.27 323.4 544.56 471.67 0 160.17 503.78 TRUE FALSE FALSE 140.2589761 72.73882063 146.6567149 195.9916639 298.6211619 498.1604244 418.5964502 0 159.0553639 525.5004212 0.266905545 0.138418197 0.279080109 0.372961954 0.568260557 0.947973406 0.796567297 0 0.302674094 1 9.03754811 -9.362386068 1.111791141 0.996719719 0.428976909 0 0.345218544 0.449185793 1.002108877 0.19447631 0.051660045 4.34E-10 9.362386068 -0.56774281 S(ph)PSSVTGNALWK ddPTM_HeLa_SAHA_4h_R1 2 SPSSVTGNALWK 12 0 Q9NYB0;A0A590UJT3 Q9NYB0 TERF2IP Telomeric repeat-binding factor 2-interacting protein 1 1 0 S(0.955)PS(0.037)S(0.007)VT(0.001)GNALWK;S(0.973)PS(0.015)S(0.009)VT(0.003)GNALWK ; 91.712 0.011444 18996000 858.04 884.63 653.87 1170.11 890.44 1234.47 1025.79 1284.34 1157.88 977.5 TRUE FALSE FALSE 948.292584 913.2925924 742.9759984 1192.759171 822.2146796 1129.286211 910.3654095 1251.488443 1149.822219 1019.644809 0.93002247 0.8956968 0.728661581 1.169779085 0.806373624 1.107529015 0.892826013 1.227376859 1.12766937 1 9.993850964 -4.253267273 24.28528644 0.954184048 1.227377063 0.255818382 0.135155399 602.7184977 1791053.945 0.01517369 0.223120743 5.58E-05 4.253267273 0.273193015 S(ph)PSTTYLHTPTPSEDAAIPSK ddPTM_HeLa_SAHA_4h_R1 3 SPSTTYLHTPTPSEDAAIPSK 21 0 Q13111 Q13111 CHAF1A Chromatin assembly factor 1 subunit A 1 0 S(0.784)PS(0.072)T(0.072)T(0.072)YLHTPTPSEDAAIPSK;S(0.832)PS(0.051)T(0.051)T(0.051)Y(0.001)LHT(0.014)PTPSEDAAIPSK;S(0.579)PS(0.14)T(0.14)T(0.14)YLHTPTPSEDAAIPSK ;; 143.84 6.02E-06 117081000 5809.2 6704.7 5698.3 6515.8 7781.2 9530.3 8308.4 7214.7 7745 7216.3 TRUE FALSE FALSE 6420.23831 6921.936679 6474.834649 6641.922731 7185.006137 8718.264824 7373.516965 7030.158421 7691.101914 7527.430009 0.852912389 0.919561746 0.860165374 0.882362602 0.954509856 1.158199387 0.979553042 0.93393873 1.021743398 1 12.87794167 -5.510588672 24.63718587 0.91910583 1.025611316 0.272360232 0.073748887 487.7171796 977696.5795 0.01122947 0.023934052 3.09E-06 5.510588672 0.106505486 S(ph)PSVSPSKQPVSTSSK ddPTM_HeLa_SAHA_4h_R1 1 SPSVSPSKQPVSTSSK 16 1 H0Y7Q2;Q96JG6-3;Q96JG6 H0Y7Q2 CCDC132 Coiled-coil domain-containing protein 132 1 0 S(0.92)PS(0.072)VS(0.007)PS(0.001)KQPVSTSSK 60.669 0.022174 10065000 1790.7 2041.3 1247.9 1754.7 1893.8 2203.9 1897.5 1939.1 1902.8 1926.6 TRUE FALSE FALSE 1979.054042 2107.439459 1417.957313 1788.664756 1748.697453 2016.115321 1683.988306 1889.50063 1889.55826 2009.665155 0.984768053 1.048652038 0.70556894 0.890031233 0.87014369 1.003209573 0.83794472 0.940206693 0.94023537 1 10.97273943 S(ph)PSVSSPEPAEK ddPTM_HeLa_SAHA_4h_R1 1 SPSVSSPEPAEK 12 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.999)PS(0.001)VSSPEPAEK 102.66 0.0049781 2570700 367.77 512.18 559.65 450.2 481.27 587.03 486.67 448.7 483.09 492.89 TRUE FALSE FALSE 406.453736 528.7749681 635.9161875 458.914272 444.3951966 537.0117415 431.9086108 437.2229037 479.7281374 514.1409 0.790549314 1.028463147 1.236851975 0.892584644 0.864345156 1.044483606 0.840058845 0.850395103 0.933067448 1 9.006019973 -3.24035577 11.48411043 0.928253476 0.881337008 0 0.127324148 45931605.3 0 0.018669559 0 0.000574969 3.24035577 -0.046916467 S(ph)PSWQRPNQGVPSTGR ddPTM_HeLa_SAHA_4h_R1 2 SPSWQRPNQGVPSTGR 16 1 Q96HC4;H0Y8Y3;Q96HC4-7;Q96HC4-4;Q96HC4-6;A0A0A0MSP3 Q96HC4 PDLIM5 PDZ and LIM domain protein 5 1 0 S(0.618)PS(0.381)WQRPNQGVPST(0.001)GR;S(0.571)PS(0.429)WQRPNQGVPSTGR ; 99.813 0.017438 32425000 1279.23 1671 1159.45 1169.8 1229.36 1631.01 1291.72 1075.66 1523.52 1402.32 TRUE FALSE FALSE 1413.785281 1725.141496 1317.453808 1192.443171 1135.166702 1492.038772 1146.372266 1048.146175 1512.9177 1462.780878 0.96650517 1.17935743 0.900650144 0.815189198 0.776033321 1.020001556 0.783693773 0.716543531 1.034275005 1 10.51449796 -6.529242469 24.97467985 1.000361264 0.831497592 0.53539972 0.094186926 114.1467036 447971.4893 0.014509663 0.0205496 2.96E-07 6.529242469 -0.168863672 S(ph)PSWTAPPVIALQNGLSEDEALQR ddPTM_HeLa_SAHA_4h_R1 1 SPSWTAPPVIALQNGLSEDEALQR 24 0 A0A087X0D9;E9PFU9;Q8WV99 A0A087X0D9 ZFAND2B AN1-type zinc finger protein 2B 1 0 S(0.816)PS(0.173)WT(0.011)APPVIALQNGLSEDEALQR 120.61 2.59E-06 3013500 311.81 237.16 326.91 382.92 395.21 532.91 602.97 428.14 280.33 430.43 TRUE FALSE FALSE 344.6076064 244.8441396 371.4595923 390.3319703 364.9290952 487.5030699 535.1222287 417.1887987 278.3791607 448.9879438 0.767520846 0.54532453 0.827326429 0.86935958 0.812781502 1.085782094 1.191840975 0.929175949 0.620014779 1 8.810532896 -5.256214629 23.98260789 0.850418497 1.081223835 0.397669518 0.145979073 224.8766432 1032217.722 0.021296525 0.052487567 5.54E-06 5.256214629 0.230805338 S(ph)PTDDEVTPSAVVR ddPTM_HeLa_SAHA_4h_R1 1 SPTDDEVTPSAVVR 14 0 Q5VTI5;A0A1B0GUN5;Q9Y2H5 Q5VTI5 PLEKHA6 Pleckstrin homology domain-containing family A member 6 1 0 S(0.995)PT(0.005)DDEVTPSAVVR 110.44 0.0022147 1929400 302.1 259.02 199.39 216.79 403.5 298.69 235.31 318.64 295.43 205.18 TRUE FALSE FALSE 333.8762641 267.4124179 226.5618308 220.9862839 372.5839172 273.2399316 208.8322995 310.4896502 293.3740786 214.0263139 1.55997764 1.249437104 1.05856998 1.032519226 1.740832285 1.276665129 0.975731889 1.450707833 1.37073836 1 7.741644373 -9.666333551 1.531192069 1.000698452 1.323178499 0 0.256117464 0.53144767 2.250339132 0.171464324 0.03880727 2.16E-10 9.666333551 0.322480048 S(ph)PTEDFR ddPTM_HeLa_SAHA_4h_R1 1 SPTEDFR 7 0 Q8IXT5 Q8IXT5 RBM12B RNA-binding protein 12B 1 0 S(0.958)PT(0.042)EDFR 101.25 0.012934 44419000 1953.6 2372.4 1512.3 2451.5 2176.9 2711.3 2298.5 1835.9 3108.9 2437.8 TRUE FALSE FALSE 2159.088611 2449.267317 1718.388368 2498.952327 2010.106392 2480.281987 2039.866731 1788.940336 3087.264912 2542.905488 0.849063648 0.9631767 0.675757859 0.982715378 0.790476249 0.975373248 0.80217953 0.703502487 1.214069861 1 11.31226213 -13.52287874 0.166660219 1.625871007 0.800392583 0.389309286 0.120563398 57.19144281 0.6267562 11.6405581 0.160206381 3.00E-14 13.52287874 -0.825478424 S(ph)PTFSEELPVLGDGQQLR ddPTM_HeLa_SAHA_4h_R1 4 SPTFSEELPVLGDGQQLR 18 0 Q8N0Z3 Q8N0Z3 SPICE1 Spindle and centriole-associated protein 1 1 0 S(0.927)PT(0.073)FSEELPVLGDGQQLR;S(1)PTFSEELPVLGDGQQLR;S(0.998)PT(0.002)FSEELPVLGDGQQLR;S(0.993)PT(0.007)FSEELPVLGDGQQLR ;;; 181.51 1.86E-09 16617000 145.277 261.99 242.14 203.09 453.865 398.361 436.3 570.8 535.37 225.905 TRUE FALSE FALSE 160.5579014 270.4786479 275.1375782 207.0211006 419.0899618 364.4184017 387.2063757 556.1997625 531.6443166 235.6448701 0.681355386 1.147823196 1.167594177 0.878530055 1.778481159 1.546472883 1.643177615 2.360330451 2.256125144 1 7.880470465 -4.549432565 0.489913834 0.849861183 2.894508764 0.159074993 0.49585747 1.111051032 0.213793728 0.051916658 1.235556025 2.82E-05 4.549432565 2.04464758 S(ph)PTGPSNSFLANMGGTVAHK ddPTM_HeLa_SAHA_4h_R1 6 SPTGPSNSFLANMGGTVAHK 20 0 H0Y6J6;Q5W012;Q96I25 H0Y6J6 RBM17 Splicing factor 45 1 0 S(0.803)PT(0.186)GPS(0.011)NS(0.001)FLANMGGTVAHK;S(0.809)PT(0.191)GPSNSFLANMGGTVAHK;S(0.958)PT(0.03)GPS(0.011)NS(0.001)FLANMGGTVAHK;S(0.491)PT(0.421)GPS(0.07)NS(0.017)FLANMGGTVAHK;S(0.774)PT(0.204)GPS(0.019)NS(0.002)FLANMGGT(0.001)VAHK;S(0.922)PT(0.067)GPS(0.009)NS(0.003)FLANMGGTVAHK ;;;;; 166.43 7.09E-07 175581000 6659.95 8347.99 5275.99 7637.17 8517.91 10779 8039.31 7823.27 11193.22 7647.22 TRUE FALSE FALSE 7360.474098 8618.470353 5994.974441 7784.998469 7865.269576 9860.568559 7134.70568 7623.162081 11115.32547 7976.929079 0.922720263 1.080424593 0.751539143 0.975939286 0.986002194 1.236135919 0.89441759 0.955651229 1.39343416 1 12.96161774 -5.515140977 24.07832358 0.956531568 1.031264134 0 0.178348355 437.9034264 1362660.671 0.015698165 0.03254544 3.05E-06 5.515140977 0.074732566 S(ph)PTGS(ph)TTSRAST(ph)VS(ph)T(ph)K ddPTM_HeLa_SAHA_4h_R1 1 SPTGSTTSRASTVSTK 16 1 H0Y5T1;Q7Z460-2;Q7Z460-3;F8WA11;Q7Z460-5;Q7Z460;Q7Z460-4 H0Y5T1;Q7Z460-4 CLASP1 CLIP-associating protein 1 5 0 S(0.754)PT(0.287)GS(0.48)T(0.479)T(0.302)S(0.302)RAS(0.377)T(0.578)VS(0.849)T(0.592)K 61.962 0.0064126 0 687.94 493.82 361.98 700.95 708.28 760.73 672.42 405.42 603.44 637.1 TRUE FALSE FALSE 760.3006856 509.820092 411.3087493 714.5179008 654.0117394 695.9115242 596.7575319 395.0499434 599.2406119 664.5684989 1.144051647 0.767144535 0.618910993 1.075160652 0.984114866 1.047162972 0.897962412 0.594445786 0.901698791 1 9.376274099 -7.265855045 24.97600353 1.068024389 0.868385328 0.138989292 0.165706763 398.989711 2256771.408 0.028015563 0.03262768 5.42E-08 7.265855045 -0.199639061 S(ph)PTMEQAVQTASAHLPAPAAVGR ddPTM_HeLa_SAHA_4h_R1 2 SPTMEQAVQTASAHLPAPAAVGR 23 0 Q8ND56;Q8ND56-2;Q8ND56-3 Q8ND56 LSM14A Protein LSM14 homolog A 1 0 S(0.926)PT(0.074)MEQAVQTASAHLPAPAAVGR;S(0.772)PT(0.228)MEQAVQTASAHLPAPAAVGR ; 122.67 6.96E-06 14918700 531.42 890.91 350.71 510.42 809.57 1045.87 827.68 850.48 1089.44 629.81 TRUE FALSE FALSE 587.3171938 919.7760685 398.5029324 520.2999172 747.5409215 956.7559921 734.5472681 828.7259531 1081.858498 656.9641913 0.893986615 1.400039881 0.606582425 0.791976068 1.13787164 1.456328982 1.118093311 1.261447677 1.646754135 1 9.359670927 -5.541988593 8.771734972 0.948311434 1.268415755 0.030330546 0.299448269 0.166723533 66.29468007 0.028215456 0.057118444 2.87E-06 5.541988593 0.32010432 S(ph)PTNSLLK ddPTM_HeLa_SAHA_4h_R1 1 SPTNSLLK 8 0 Q14106-2;Q14106 Q14106-2 TOB2 Protein Tob2 1 0 S(0.999)PT(0.001)NSLLK 97.813 0.012551 11785000 2484.6 3360.7 3120.4 3609.5 3828 2736.3 3915.1 2496.4 2158.7 2520 TRUE FALSE FALSE 2745.941628 3469.588885 3545.631862 3679.367092 3534.699467 2503.151846 3474.562644 2432.545703 2143.677431 2628.649533 1.044620667 1.319913074 1.348841608 1.399717629 1.344682668 0.952257733 1.321805209 0.925397499 0.815505226 1 11.36010609 -7.352982956 5.929880941 1.019796615 1.238351866 0.341099152 0.16893896 0.212185189 11.17229597 0.026314916 0.029995796 4.44E-08 7.352982956 0.218555251 S(ph)PTPESSTIASYVTLR ddPTM_HeLa_SAHA_4h_R1 2 SPTPESSTIASYVTLR 16 0 B4DJX4;Q9HAU0-8;Q9HAU0;Q9HAU0-2;Q9HAU0-4;Q9HAU0-6;A0JP02;Q9HAU0-5;H0YGJ6 B4DJX4 PLEKHA5 Pleckstrin homology domain-containing family A member 5 1 0 S(0.999)PT(0.001)PESSTIASYVTLR;S(0.999)PT(0.001)PESSTIASYVTLR ; 169.15 7.22E-07 19502800 209.139 195.755 250.608 127.43 0 236.81 50.857 144.54 300.21 116.75 TRUE FALSE FALSE 231.1371996 202.0975904 284.7595531 129.8965919 0 216.6324557 45.13443651 140.8428761 298.1208142 121.7836639 1.897932713 1.659480295 2.338240977 1.06661754 0 1.778830172 0.370611584 1.156500565 2.447954058 1 6.928176812 -6.011041724 24.64985735 1.526528087 0.820867904 0.334236548 0.620294205 485.9346561 1084818.232 0.086672675 0.149806941 9.75E-07 6.011041724 -0.705660183 S(ph)PTSAPTQR ddPTM_HeLa_SAHA_4h_R1 2 SPTSAPTQR 9 0 Q63HR2-6;Q63HR2;Q63HR2-4;F8VV64;Q63HR2-5;Q63HR2-2;H0YID7 Q63HR2-6 TNS2 Tensin-2 1 0 S(0.988)PT(0.011)S(0.001)APTQR;S(1)PTSAPTQR ; 139.15 0.0011554 10014500 707.08 856.19 581.6 907.36 783.68 1484.07 985.63 1093.29 1155.72 1210.52 TRUE FALSE FALSE 781.4539186 883.9311178 660.8574192 924.9232649 723.6346077 1357.618887 874.7243184 1065.325225 1147.67725 1262.711441 0.618869754 0.70002622 0.523363769 0.732489811 0.573079948 1.075161626 0.692734927 0.843680662 0.908899067 1 10.30230927 -9.401049615 1.121833376 1.00030177 0.711140891 0.278352709 0.148447355 0.444623847 0.999141343 0.10018649 0.025397941 3.97E-10 9.401049615 -0.289160879 S(ph)PTSSPTPQR ddPTM_HeLa_SAHA_4h_R1 2 SPTSSPTPQR 10 0 A0A0D9SFB1;A0A0U1RQP1;A0A0D9SFE4;Q05193-5;Q05193-3;Q05193-2;Q05193 A0A0D9SFB1 DNM1 Dynamin-1 1 0 S(0.997)PT(0.002)SSPTPQR;S(0.996)PT(0.004)SSPTPQR ; 102.05 0.0088346 22784000 575.55 562.293 432.83 893.47 834.63 849.34 709.7 797.59 620.24 710.05 TRUE FALSE FALSE 636.0889897 580.5116621 491.8138183 910.7644038 770.6808297 776.9714537 629.8426882 777.1888027 615.9236993 740.6637304 0.858809421 0.783772228 0.664017689 1.229659785 1.040527297 1.049020523 0.850376037 1.049313974 0.831583449 1 9.532674881 -6.250941885 24.99969815 0.89967526 1.033145353 0.363726994 0.125670239 957.943854 2281334.394 0.020581851 0.033901127 5.61E-07 6.250941885 0.133470094 S(ph)PTVEPSTLPR ddPTM_HeLa_SAHA_4h_R1 2 SPTVEPSTLPR 11 0 Q9BY89 Q9BY89 KIAA1671 Uncharacterized protein KIAA1671 1 0 S(1)PTVEPSTLPR;S(1)PTVEPSTLPR ; 156.01 0.00029712 79324000 778.27 967.38 769.84 940.8 926.84 1085.54 899.32 837.01 812.98 924.67 TRUE FALSE FALSE 860.1320094 998.7237467 874.749786 959.0105444 855.8257194 993.0458849 798.1261467 815.6004962 807.322406 964.5370489 0.89175632 1.035443634 0.906911546 0.994270304 0.887291702 1.029557015 0.8274707 0.845587525 0.837005076 1 9.913692845 -4.739287461 24.99957969 0.954213457 0.836528985 0.324706826 0.063635498 169.05138 190780.1425 0.007432681 0.02776545 1.82E-05 4.739287461 -0.117684473 S(ph)PVPAQIAITVPK ddPTM_HeLa_SAHA_4h_R1 3 SPVPAQIAITVPK 13 0 A0A0A0MSA7;A0A0U1RQK7;O43432;O43432-3 A0A0A0MSA7 EIF4G3 Eukaryotic translation initiation factor 4 gamma 3 1 0 S(1)PVPAQIAITVPK;S(1)PVPAQIAITVPK;S(1)PVPAQIAITVPK ;; 142.19 0.00031814 144847000 3344.77 4222.27 3525.71 3977.26 3646.05 4825.38 4149.45 3711.8 4019.1 3814.37 TRUE FALSE FALSE 3696.588255 4359.074318 4006.175398 4054.245619 3366.690437 4414.230477 3682.542965 3616.857531 3991.130756 3978.826158 0.929065033 1.095567925 1.006873696 1.018955204 0.84615168 1.109430345 0.925535024 0.909026277 1.00309252 1 11.95812715 S(ph)PVPSAFSDQSR ddPTM_HeLa_SAHA_4h_R1 4 SPVPSAFSDQSR 12 0 Q9UQ35;Q9UQ35-2;I3L3Q8 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.988)PVPS(0.012)AFSDQSR;S(1)PVPSAFSDQSR;S(1)PVPSAFSDQSR;S(1)PVPSAFSDQSR ;;; 187.74 8.17E-07 429518000 1284.56 1950.55 1506.28 1716.31 2034.78 2197.49 1773.3 1369.92 3166.8 2127.36 TRUE FALSE FALSE 1419.675915 2013.7491 1711.547994 1749.531662 1878.875596 2010.251489 1573.763617 1334.87943 3144.761981 2219.080901 0.639758521 0.90746989 0.771286884 0.788403731 0.846690896 0.905893737 0.709196144 0.601546086 1.417146162 1 11.11574655 -9.552650226 1.311636701 1.000439915 0.763520257 0.429301576 0.166468331 0.349940812 1.075379091 0.073679528 0.017283891 2.80E-10 9.552650226 -0.236919658 S(ph)PVREPIDNLTPEER ddPTM_HeLa_SAHA_4h_R1 3 SPVREPIDNLTPEER 15 1 Q14498-2;Q14498;G3XAC6;Q14498-3;Q5QP22;Q5QP23;H0Y4X3 Q14498-2 RBM39 RNA-binding protein 39 1 0 S(1)PVREPIDNLTPEER;S(1)PVREPIDNLTPEER;S(0.985)PVREPIDNLT(0.015)PEER ;; 126.77 0.0020518 26165200 949.07 967.54 777.8 1093.71 1018.3 1537.28 1012.71 1054.7 1084.6 1037.67 TRUE FALSE FALSE 1048.897537 998.8889308 883.7945334 1114.880339 940.278074 1406.295095 898.7572055 1027.722301 1077.05218 1082.409032 0.969039897 0.922838688 0.816506983 1.029999109 0.868690159 1.299227052 0.830330475 0.949476834 0.995050991 1 10.08003007 S(ph)PVSPLAAQGIPLPAQLTK ddPTM_HeLa_SAHA_4h_R1 2 SPVSPLAAQGIPLPAQLTK 19 0 K7EIF1;K7EPF0;K7EQS3;K7EM48;K7EN63;Q96SI1-2;Q96SI1 K7EIF1 KCTD15 BTB/POZ domain-containing protein KCTD15 1 0 S(0.899)PVS(0.101)PLAAQGIPLPAQLTK;S(0.987)PVS(0.013)PLAAQGIPLPAQLTK ; 186.89 9.93E-14 36801000 3608.3 4450.7 3462.7 3707 4124.4 4322.6 4051 3512.8 5163.9 4354.9 TRUE FALSE FALSE 3987.837549 4594.9056 3934.578723 3778.754345 3808.389363 3954.290162 3595.170818 3422.947662 5127.963999 4542.661051 0.877863768 1.011500869 0.866139621 0.831837177 0.83836089 0.870478805 0.791423964 0.75351157 1.128845833 1 12.14932195 -1 0.095021627 1.079755758 0.204936257 0.658783119 0.06369883 58.78769004 0.401640167 0.462696439 6.731728134 0.1 1 -0.8748195 S(ph)PVSSLQIR ddPTM_HeLa_SAHA_4h_R1 1 SPVSSLQIR 9 0 Q5JT35;P55197-1;P55197 Q5JT35 MLLT10 Protein AF-10 1 0 S(0.959)PVS(0.04)S(0.001)LQIR 123.01 0.0031666 7838200 239.5 174.02 190 207.62 225.03 240.75 453.79 315.44 324.07 249.06 TRUE FALSE FALSE 264.6917089 179.6583622 215.8922105 211.6387853 207.78825 220.2367456 402.7283549 307.3715016 321.8147705 259.7981955 1.018835825 0.691530447 0.830999654 0.814627619 0.799806364 0.847722384 1.5501584 1.183116384 1.238710569 1 8.0212476 -4.769236051 24.99992978 0.936251206 1.366637419 0.541433617 0.167910374 84.12490328 269749.1859 0.021616844 0.066620997 1.70E-05 4.769236051 0.430386213 S(ph)PVSTRPLPSASQK ddPTM_HeLa_SAHA_4h_R1 3 SPVSTRPLPSASQK 14 1 Q8ND56;Q8ND56-2;Q8ND56-3 Q8ND56 LSM14A Protein LSM14 homolog A 1 0 S(0.998)PVS(0.002)TRPLPSASQK;S(0.978)PVS(0.017)T(0.005)RPLPSASQK;S(0.99)PVS(0.005)T(0.005)RPLPSASQK ;; 158.89 6.36E-05 608948000 5419.53 5372.33 4331.44 5826.89 5764.38 6167.92 6507.38 5687.27 4953.12 5101.6 TRUE FALSE FALSE 5989.581031 5546.397017 4921.706086 5939.677882 5322.71445 5642.378516 5775.152476 5541.797868 4918.650835 5321.554943 1.125532123 1.042251199 0.924862402 1.116154572 1.000217889 1.060287562 1.085237781 1.04138695 0.924288274 1 12.37763214 -9.79237912 1.795371056 0.999877264 1.062028723 0.170826427 0.060929459 0.606796314 3.54119289 0.043319561 0.009095335 1.61E-10 9.79237912 0.062151459 S(ph)PVT(ph)LTAY(ph)IVT(ph)S(ph)LLGYR ddPTM_HeLa_SAHA_4h_R1 1 SPVTLTAYIVTSLLGYR 17 0 Q6YHK3-2;Q6YHK3-4;Q6YHK3 Q6YHK3-2 CD109 CD109 antigen 5 0 S(0.984)PVT(0.956)LT(0.422)AY(0.984)IVT(0.806)S(0.806)LLGY(0.042)R 42.475 0.0088739 0 395.13 306.89 173 291.3 473.83 354.11 577.04 329.1 348.77 307.51 TRUE FALSE FALSE 436.6915863 316.8334374 196.5755391 296.9385327 437.5252478 323.9378358 512.1099405 320.6820985 346.3428812 320.768261 1.361392754 0.987733127 0.612827274 0.925710455 1.363991707 1.009881198 1.596510636 0.999731387 1.079729273 1 8.325387589 -5.747349182 24.99766124 1.097592539 1.251195434 0.120593541 0.246875734 565.9159087 1003994.928 0.040055861 0.079803836 1.79E-06 5.747349182 0.153602896 S(ph)PYQEFTDHLVK ddPTM_HeLa_SAHA_4h_R1 2 SPYQEFTDHLVK 12 0 H0YEN5;P15880;E9PQD7 H0YEN5 RPS2 40S ribosomal protein S2 1 0 S(0.999)PY(0.001)QEFTDHLVK;S(0.999)PY(0.001)QEFTDHLVK ; 158.91 0.00013604 14286500 4736.1 5824.3 3857 4566 5745.1 5947.4 5065.1 4842.9 7794.4 5570.4 TRUE FALSE FALSE 5234.264728 6013.011141 4382.611874 4654.381533 5304.911679 5440.648061 4495.161617 4719.02563 7740.158136 5810.567205 0.900818206 1.03484065 0.754248547 0.80102017 0.912976564 0.936336827 0.773618385 0.812145435 1.332083059 1 12.50446329 -13.52287875 0.043630583 1.693134518 0.482492413 0.365098944 0.129573008 430.0570091 1.493977982 37.8445418 11.12408715 3.00E-14 13.52287875 -1.210642106 S(ph)PYSGPK ddPTM_HeLa_SAHA_4h_R1 2 SPYSGPK 7 0 Q14498-2;Q14498;G3XAC6;Q5QP22;Q5QP23 Q14498-2 RBM39 RNA-binding protein 39 1 0 S(1)PYSGPK;S(1)PYSGPK ; 88.37 0.021391 58467000 6381.7 7867 5370.5 8312.6 9922.9 11685.6 9315 8299.9 11944.4 10937.3 TRUE FALSE FALSE 7052.956486 8121.895962 6102.363772 8473.502393 9162.609546 10689.92114 8266.851684 8087.600576 11861.27795 11408.86053 0.618199904 0.711893702 0.534879338 0.742712418 0.803113468 0.93698412 0.724599241 0.708887672 1.039654917 1 13.47786709 -9.425797364 1.151264969 1.000197666 0.717072055 0.572909799 0.101532405 0.338405231 0.801284804 0.076235184 0.019118264 3.75E-10 9.425797364 -0.283125611 S(ph)QCRNSPSNLSSSSDTGSVGGTYR ddPTM_HeLa_SAHA_4h_R1 1 SQCRNSPSNLSSSSDTGSVGGTYR 24 1 O43166-3;O43166-2;O43166;F5GYF8 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 S(0.743)QCRNS(0.255)PS(0.003)NLSSSSDTGSVGGTYR 74.561 0.00046229 8911300 259.27 269.97 307.47 170.99 372.55 351.8 380.34 302.31 244.91 487.8 TRUE FALSE FALSE 286.5412082 278.7172051 349.3704104 174.2997587 344.0052995 321.8246608 337.5431422 294.5773479 243.2056514 508.8314452 0.56313581 0.547759396 0.686613246 0.34254911 0.676069262 0.632477933 0.663369266 0.578929134 0.477968989 1 8.99104402 -9.182281865 0.7663051 1.021511484 0.584715895 0 0.186026238 0.294899154 0.289454394 0.079319617 0.018749204 6.57E-10 9.182281865 -0.436795588 S(ph)QDDAMVDYFFQR ddPTM_HeLa_SAHA_4h_R1 2 SQDDAMVDYFFQR 13 0 Q5T1Z4;Q5T1Z8;Q14671-2;Q14671;Q14671-3;E9PR38;Q14671-4;H0YEH2;E9PMX1;E9PM68;E9PL65 Q5T1Z4 PUM1 Pumilio homolog 1 1 0 S(1)QDDAMVDYFFQR;S(1)QDDAMVDYFFQR ; 167.92 3.33E-05 7140000 361.97 387.73 324.24 525.35 785.69 521.62 377.075 519.65 621.68 480.68 TRUE FALSE FALSE 400.0436654 400.2927064 368.4257386 535.5189089 725.4906019 477.1750414 334.6455286 506.3581054 617.3536783 501.4044672 0.797846233 0.79834292 0.734787507 1.06803777 1.446916909 0.951676885 0.667416329 1.009879526 1.231248859 1 8.969831039 -6.22913156 24.41608993 0.880885572 1.027655147 0.056117847 0.220288001 922.0721438 696840.2097 0.03151477 0.052258186 5.90E-07 6.22913156 0.146769574 S(ph)QDKSLLDGEGPQAVGGQDVAFSR ddPTM_HeLa_SAHA_4h_R1 1 SQDKSLLDGEGPQAVGGQDVAFSR 24 1 A1X283 A1X283 SH3PXD2B SH3 and PX domain-containing protein 2B 1 0 S(0.995)QDKS(0.005)LLDGEGPQAVGGQDVAFSR 98.151 2.96E-05 5353100 1292.6 1304 759.18 1168.1 1417.1 1012.5 1524.4 1775.5 1680.5 1490.3 TRUE FALSE FALSE 1428.561599 1346.250456 862.6370968 1190.710265 1308.522104 926.2293038 1352.8705 1730.085281 1668.805264 1554.554126 0.918952627 0.866004234 0.554909657 0.765949699 0.84173467 0.595816696 0.870262718 1.112914148 1.073494474 1 10.60228513 -7.24249439 2.758622834 0.964712895 0.783198424 0.264671583 0.149712587 0.296331852 4.391531157 0.025714636 0.030689678 5.72E-08 7.24249439 -0.181514471 S(ph)QDPT(ph)PPS(ph)APQEAT(ph)EGSK ddPTM_HeLa_SAHA_4h_R1 1 SQDPTPPSAPQEATEGSK 18 0 Q9UPN7 Q9UPN7 PPP6R1 Serine/threonine-protein phosphatase 6 regulatory subunit 1 4 0 S(1)QDPT(1)PPS(1)APQEAT(0.601)EGS(0.4)K 47.648 0.020579 3217600 65.877 0 157.63 258.58 123.75 156.44 155.63 0 213.09 126.34 TRUE FALSE FALSE 72.80624511 0 179.1109955 263.5851898 114.2683017 143.1104319 138.1181028 0 211.6070893 131.7871357 0.552453354 0 1.359093166 2.000082849 0.867067192 1.085921104 1.048039341 0 1.605673332 1 7.042065739 S(ph)QEADVQDWEFR ddPTM_HeLa_SAHA_4h_R1 5 SQEADVQDWEFR 12 0 Q9C0C2;Q9C0C2-2;A0A2R8Y5C4 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 S(1)QEADVQDWEFR;S(1)QEADVQDWEFR;S(1)QEADVQDWEFR;S(1)QEADVQDWEFR;S(1)QEADVQDWEFR ;;;; 225.37 2.01E-22 137021000 2254.64 3250.86 2908.22 1790 2779.03 4221.36 3756.89 2784.3 2173.61 2457.89 TRUE FALSE FALSE 2491.79338 3356.189997 3304.537076 1824.648038 2566.101322 3861.676379 3334.15485 2713.081638 2158.483671 2563.861667 0.971890727 1.309037083 1.288890551 0.711679597 1.000873548 1.506195295 1.300442568 1.058201257 0.841887727 1 11.32410271 -5.713729802 0.383628864 0.981797716 1.299832373 0.146740055 0.214640565 3.351840583 0.722388547 0.081461413 0.428726294 1.93E-06 5.713729802 0.318034657 S(ph)QEDLNEPIKR ddPTM_HeLa_SAHA_4h_R1 2 SQEDLNEPIKR 11 1 H0Y5T1;Q7Z460-2;Q7Z460-3;F8WA11;Q7Z460-5;Q7Z460;Q7Z460-4 H0Y5T1;Q7Z460-4 CLASP1 CLIP-associating protein 1 1 0 S(1)QEDLNEPIKR;S(1)QEDLNEPIKR ; 132.79 0.0031316 36984000 2696.7 3656.9 2365.4 2683.15 3541.4 4207.1 3454.6 3059.8 3652.7 3361.1 TRUE FALSE FALSE 2980.351279 3775.385959 2687.744394 2735.086248 3270.058697 3848.631412 3065.879316 2981.534747 3627.280563 3506.01347 0.850068405 1.076831562 0.766609831 0.780112875 0.932699981 1.097722939 0.874463074 0.850405959 1.034588314 1 11.77561582 -9.546345125 1.259702808 1.00099556 0.900130858 0.150403878 0.105245235 0.885929573 2.47724252 0.078060194 0.017747362 2.84E-10 9.546345125 -0.100864703 S(ph)QEGLRPR ddPTM_HeLa_SAHA_4h_R1 2 SQEGLRPR 8 1 Q27J81-2 Q27J81-2 INF2 Inverted formin-2 1 0 S(1)QEGLRPR;S(1)QEGLRPR ; 88.155 0.011743 32026000 1642.35 2360.9 1491.97 2406.85 2503.1 3015.8 2127.49 1992.96 3326.2 2240.6 TRUE FALSE FALSE 1815.099908 2437.394709 1695.287902 2453.438062 2311.313019 2758.836874 1888.099226 1941.982969 3303.052703 2337.203231 0.776611928 1.042868107 0.725348947 1.049732445 0.988922567 1.180400932 0.807845548 0.830900344 1.413250101 1 11.19056747 S(ph)QEIEELER ddPTM_HeLa_SAHA_4h_R1 2 SQEIEELER 9 0 K7EQS5;K7EQS9;K7EPK6;K7EK08;O43310;O43310-2 K7EQS5 CTIF CBP80/20-dependent translation initiation factor 1 0 S(1)QEIEELER;S(1)QEIEELER ; 95.273 0.013977 13551000 985.91 1161.2 950.98 1200.71 1260.56 1131.49 1312.13 937.48 1298.59 1339.75 TRUE FALSE FALSE 1089.612537 1198.823642 1080.574602 1223.951478 1163.976165 1035.080686 1164.485679 913.5006191 1289.553006 1397.513179 0.779679615 0.857826359 0.773212459 0.875806752 0.832891011 0.74065898 0.833255598 0.653661542 0.922748369 1 10.44864617 -13.52287875 0.225237313 2.135495276 0.765468514 0.528376621 0.063365802 21.30737087 0.272381827 10.66559485 0.043023586 3.00E-14 13.52287875 -1.370026762 S(ph)QEMVHLVNK ddPTM_HeLa_SAHA_4h_R1 1 SQEMVHLVNK 10 0 H0YE40;H0Y2P0;H0YD13;P16070-8;P16070-5;P16070-7;P16070-3;P16070-6;P16070-4;P16070-17;P16070-16;P16070-10;P16070-11;P16070-13;P16070-14;P16070-12;P16070-18;P16070 H0YE40 CD44 CD44 antigen 1 0 S(1)QEMVHLVNK 99.844 0.010548 10678000 498.98 1816.6 895.14 566.67 744.57 884.55 1284.2 568.04 1122.1 1224.2 TRUE FALSE FALSE 551.4650058 1875.459032 1017.125018 577.6387173 687.5212075 809.1813637 1139.698436 553.5103593 1114.291215 1276.981253 0.43185051 1.468666065 0.7965074 0.452347061 0.538395694 0.633667379 0.892494258 0.43345222 0.872597943 1 10.31852163 -6.308389444 20.84592671 0.796306976 0.606423827 0.198696294 0.278041659 135.1699498 60015.10878 0.049418293 0.075488148 4.92E-07 6.308389444 -0.189883149 S(ph)QEQEVLER ddPTM_HeLa_SAHA_4h_R1 2 SQEQEVLER 9 0 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 S(1)QEQEVLER;S(1)QEQEVLER ; 118.76 0.0014334 7205100 1105.12 837.95 841.63 1279.04 909.19 1233.76 947.79 1070.91 1345.29 976.85 TRUE FALSE FALSE 1221.361592 865.1001298 956.3229534 1303.797669 839.5280586 1128.636707 841.1421748 1043.517673 1335.928017 1018.966784 1.198627483 0.84899738 0.938522205 1.279529116 0.823901301 1.107628555 0.825485372 1.024093905 1.311061399 1 9.992891308 -5.582701109 0.672757924 1.077693379 0.932856245 0.100599306 0.164741818 1.86858982 1.357265798 0.029222042 0.149991744 2.61E-06 5.582701109 -0.144837134 S(ph)QESGYYDR ddPTM_HeLa_SAHA_4h_R1 2 SQESGYYDR 9 0 A0A0R4J2E8;A8MXP9;P43243;D6REM6;D6R991 A0A0R4J2E8 MATR3 Matrin-3 1 0 S(0.771)QES(0.229)GYYDR;S(0.996)QES(0.004)GYYDR ; 143.55 0.00074281 53716000 1878.34 2110.93 1509.32 2126.16 2083.26 2636.2 2269.32 1917.36 3306.1 2387.1 TRUE FALSE FALSE 2075.912419 2179.325517 1715.002269 2167.314901 1923.641069 2411.580929 2013.970141 1868.316708 3283.092581 2490.019563 0.833693217 0.875224255 0.68875052 0.870400752 0.772540544 0.968498788 0.808816995 0.7503221 1.318500718 1 11.28194136 -9.017422783 0.629612676 1.013161316 0.819546904 0.448125355 0.125639214 0.627543761 0.417723388 0.065688105 0.016039829 9.61E-10 9.017422783 -0.193614412 S(ph)QGGEEEGPLSDK ddPTM_HeLa_SAHA_4h_R1 2 SQGGEEEGPLSDK 13 0 E9PR76;E9PSH4;Q9H063 E9PR76 MAF1 Repressor of RNA polymerase III transcription MAF1 homolog 1 0 S(1)QGGEEEGPLSDK;S(1)QGGEEEGPLSDK ; 205.98 4.08E-11 56866700 2723.98 2781.71 2593.41 2752.6 3404.2 3542.5 3513.6 2785.39 3146.7 2756.8 TRUE FALSE FALSE 3010.500714 2871.839229 2946.826409 2805.880553 3143.370931 3240.65907 3118.240481 2714.143757 3124.801858 2875.659139 1.046890667 0.99867164 1.024748159 0.975734751 1.093095801 1.126927398 1.084356779 0.943833614 1.086638474 1 11.48967696 -5.748838651 24.99872998 1.01801907 1.068280351 0.113606105 0.052796949 292.8265563 580938.2484 0.006994383 0.01391064 1.78E-06 5.748838651 0.050261281 S(ph)QPGSSASSSSGVK ddPTM_HeLa_SAHA_4h_R1 2 SQPGSSASSSSGVK 14 0 Q08AD1-2;Q08AD1-3;Q08AD1 Q08AD1-2 CAMSAP2 Calmodulin-regulated spectrin-associated protein 2 1 0 S(0.907)QPGS(0.088)S(0.001)AS(0.002)S(0.002)SSGVK;S(0.958)QPGS(0.021)S(0.021)ASSSSGVK ; 184.48 2.60E-08 6097900 1255.14 1331.5 759.67 1491.04 1468.66 1419.09 1305.28 1228.36 1351.29 1075.9 TRUE FALSE FALSE 1387.161384 1374.641474 863.1938714 1519.901235 1356.131588 1298.175548 1158.406459 1196.94033 1341.886263 1122.287314 1.236012709 1.224857001 0.769138045 1.354288885 1.208364 1.156722999 1.03218351 1.066518631 1.195670882 1 10.13222635 -9.611022481 1.436316409 1.000494099 1.144836837 0 0.160724549 0.747346829 2.782874339 0.102149207 0.023849081 2.45E-10 9.611022481 0.144342738 S(ph)QPKAPPVDDAEVDELVLQTK ddPTM_HeLa_SAHA_4h_R1 2 SQPKAPPVDDAEVDELVLQTK 21 1 Q9UIG0-2;Q9UIG0 Q9UIG0-2 BAZ1B Tyrosine-protein kinase BAZ1B 1 0 S(1)QPKAPPVDDAEVDELVLQTK;S(1)QPKAPPVDDAEVDELVLQTK ; 89.668 0.00030606 6359900 1325.05 1677.3 1232.09 1333.8 1347.28 1653.02 1711.85 1180.25 1589.54 1443.53 TRUE FALSE FALSE 1464.424839 1731.645621 1399.992809 1359.617628 1244.051697 1512.173396 1519.228133 1150.060914 1578.478262 1505.767643 0.972543703 1.150008521 0.929753548 0.902939862 0.826191015 1.004254145 1.008939288 0.763770506 1.048288074 1 10.55628345 -6.54470679 24.9995713 1.000847007 0.909518061 0.345394809 0.08508239 266.7480024 305504.3139 0.012774497 0.018066579 2.85E-07 6.54470679 -0.091328946 S(ph)QRYSGAYGASVSDEELK ddPTM_HeLa_SAHA_4h_R1 2 SQRYSGAYGASVSDEELK 18 1 A0A286YEX5;C9JRZ6;F8WAR4;Q9NX63 A0A286YEX5 CHCHD3 MICOS complex subunit MIC19 1 0 S(0.863)QRYS(0.137)GAYGASVSDEELK;S(0.585)QRYS(0.409)GAYGAS(0.005)VSDEELK ; 145.99 0.00055298 39340300 3307.9 3412.3 2510.9 2121.76 3284.9 2973 3277.8 2856.4 1777.96 2582.86 TRUE FALSE FALSE 3655.840099 3522.860759 2853.072376 2162.829733 3033.211672 2719.683674 2908.973317 2783.337424 1765.587032 2694.219735 1.356919798 1.307562525 1.058960536 0.802766643 1.125821934 1.009451322 1.079709008 1.033077365 0.655324066 1 11.3956518 -6.541125184 22.97073834 1.183661191 1.011459424 0 0.204939618 110.8262421 139520.0424 0.025048748 0.035430395 2.88E-07 6.541125184 -0.172201767 S(ph)QSAAVTPSSTTSSTR ddPTM_HeLa_SAHA_4h_R1 2 SQSAAVTPSSTTSSTR 16 0 Q16186;A0A087WX59 Q16186 ADRM1 Proteasomal ubiquitin receptor ADRM1 1 0 S(0.997)QS(0.003)AAVTPSSTTSSTR;S(0.999)QS(0.001)AAVTPSSTTSSTR ; 128.59 0.00024032 4701500 531.3 466.7 534.49 643.96 363.83 711.09 624.07 474.14 585.54 596.44 TRUE FALSE FALSE 587.1845717 481.8213862 607.3275137 656.424777 335.953424 650.5011315 553.8480011 462.0121853 581.4651795 622.1554473 0.943790775 0.77443891 0.976166835 1.05508162 0.539983095 1.045560453 0.890208393 0.742599277 0.934597908 1 9.281131277 -1 0.050893992 1.268869848 0.194929669 0.083048669 0.146308917 603.461606 2.340561645 11.65457467 50.90587164 0.1 1 -1.073940179 S(ph)QSIEQESQEK ddPTM_HeLa_SAHA_4h_R1 2 SQSIEQESQEK 11 0 A0A0A0MRN0;Q5VTL8 A0A0A0MRN0 PRPF38B Pre-mRNA-splicing factor 38B 1 0 S(0.916)QS(0.084)IEQESQEK;S(0.984)QS(0.016)IEQESQEK ; 195.94 2.01E-07 21172900 2072.8 2059.59 2121.2 2033.07 2176.3 2839.2 1948.64 2365.8 2249 1976.87 TRUE FALSE FALSE 2290.826614 2126.322067 2410.266089 2072.42301 2009.552364 2597.284187 1729.373899 2305.286262 2233.349026 2062.10254 1.110917896 1.031142742 1.168839106 1.005004828 0.974516216 1.259532024 0.838645928 1.117929985 1.083044602 1 11.00990036 S(ph)QSSDTEQQSPTSGGGK ddPTM_HeLa_SAHA_4h_R1 1 SQSSDTEQQSPTSGGGK 17 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 S(0.42)QS(0.326)S(0.215)DT(0.04)EQQSPTSGGGK 116.94 0.00060999 10211000 2815.4 2849.5 2521.7 2612.7 2634 3341.1 3349.8 3142.2 3047.9 2782.2 TRUE FALSE FALSE 3111.53669 2941.82567 2865.344144 2663.272587 2432.183489 3056.419483 2972.871688 3061.827074 3026.689416 2902.154258 1.072147244 1.013669643 0.987316279 0.917688155 0.83806141 1.053155419 1.02436722 1.055018721 1.042911281 1 11.50290849 -6.824230724 3.509798905 1.034305398 0.974998378 0.14956513 0.063113212 0.364456547 9.096854053 0.011310966 0.015379981 1.50E-07 6.824230724 -0.05930702 S(ph)QSSSQFR ddPTM_HeLa_SAHA_4h_R1 1 SQSSSQFR 8 0 Q16537-2;Q16537 Q16537-2 PPP2R5E Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform 1 0 S(0.467)QS(0.467)S(0.033)S(0.033)QFR 91.701 0.016731 8498400 1445.6 1658.3 1116.6 1672.3 1898.9 2159.4 1977.6 1855.2 1555.5 1620.9 TRUE FALSE FALSE 1597.654841 1712.030008 1268.764433 1704.669785 1753.406692 1975.406972 1755.075243 1807.74667 1544.675149 1690.784931 0.94491902 1.012565215 0.750399657 1.008212075 1.037037094 1.168337223 1.038023944 1.069176 0.913584643 1 10.72347744 -5.731666685 3.231942466 0.959266876 1.086765814 0.430357294 0.078665486 0.202921962 4.370233358 0.011404662 0.023355767 1.85E-06 5.731666685 0.127498938 S(ph)QSYIPTSGCR ddPTM_HeLa_SAHA_4h_R1 2 SQSYIPTSGCR 11 0 A0A087WZ32;A0A087X038;A8K727;Q9HB19;E5RHB5 A0A087WZ32 PLEKHA2 Pleckstrin homology domain-containing family A member 2 1 0 S(0.723)QS(0.016)Y(0.106)IPT(0.149)S(0.005)GCR;S(0.956)QS(0.044)YIPTSGCR ; 201.09 3.55E-10 208578000 5138.9 6239.8 4810.2 3584.6 5497.1 5652.1 5193.3 3333.5 2830.9 4903.4 TRUE FALSE FALSE 5679.43308 6441.973614 5465.709006 3653.985116 5075.913386 5170.509282 4608.936216 3248.233897 2811.199536 5114.809571 1.110389938 1.259474771 1.068604594 0.714393188 0.99239538 1.01088989 0.901096346 0.635064483 0.549619589 1 12.32046481 -6.348154579 10.94084626 1.07354056 0.870380766 0.051014396 0.207635855 0.528153036 64.79177315 0.020052515 0.030634649 4.49E-07 6.348154579 -0.203159794 S(ph)QTLPIIR ddPTM_HeLa_SAHA_4h_R1 2 SQTLPIIR 8 0 H7C0I3;A0A2R8YD85;Q96BY6-3;Q96BY6 H7C0I3 DOCK10 Dedicator of cytokinesis protein 10 1 0 S(0.83)QT(0.17)LPIIR;S(0.938)QT(0.062)LPIIR ; 97.813 0.012551 42054000 3782.5 4275.6 3734.7 3294.9 4121.6 4186.6 3727.8 3955.8 2775.2 3830.7 TRUE FALSE FALSE 4180.360705 4414.132245 4243.645467 3358.677554 3805.803898 3829.878127 3308.338133 3854.616364 2755.887157 3995.860224 1.046172907 1.104676339 1.062010488 0.8405393 0.952436693 0.958461486 0.827941406 0.964652452 0.689685575 1 11.9642904 -6.273024958 24.98328817 1.032632937 0.90949631 0 0.11983504 398.7801859 859933.6511 0.008015164 0.012306241 5.33E-07 6.273024958 -0.123136627 S(ph)QTPPGVATPPIPK ddPTM_HeLa_SAHA_4h_R1 1 SQTPPGVATPPIPK 14 0 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 1 0 S(0.5)QT(0.5)PPGVATPPIPK 140.77 0.0002093 26776000 5764.1 5374.2 4610.6 5137.7 5737.7 5425.1 5341.4 5498.8 5279.9 5126.9 TRUE FALSE FALSE 6370.394485 5548.327606 5238.908557 5237.147613 5298.078666 4962.850959 4740.371614 5358.148658 5243.156746 5347.945749 1.191185323 1.03746894 0.979611388 0.979282113 0.990675469 0.927992016 0.886391118 1.001907818 0.980405747 1 12.38476912 -6.835646601 3.12659021 1.091040272 0.956613867 0.288030314 0.063874105 0.191625872 3.796875466 0.012700941 0.017310957 1.46E-07 6.835646601 -0.134426404 S(ph)QVMTHLR ddPTM_HeLa_SAHA_4h_R1 1 SQVMTHLR 8 0 H7C0V9;A0A0A0MRG2;E9PG40;P05067-10;P05067-3;P05067-4;P05067-5;P05067-6;P05067-7;P05067-11;P05067-8;P05067-9;P05067 H7C0V9 APP Amyloid beta A4 protein;N-APP;Soluble APP-alpha;Soluble APP-beta;C99;Beta-amyloid protein 42;Beta-amyloid protein 40;C83;P3(42);P3(40);C80;Gamma-secretase C-terminal fragment 59;Gamma-secretase C-terminal fragment 57;Gamma-secretase C-terminal fragment 50;C31 1 0 S(0.993)QVMT(0.007)HLR 97.635 0.012673 38617000 116.48 171.08 66.398 0 146.75 227.02 250.95 137.61 206.24 162.61 TRUE FALSE FALSE 128.7319008 176.6231042 75.44637365 0 135.5060467 207.6766188 222.7124455 134.0901355 204.804759 169.6209129 0.758938852 1.041281415 0.444794055 0 0.798875825 1.224357394 1.313001102 0.790528321 1.207426346 1 7.406170243 -11.52180727 11.14803956 0.847441035 0.848776929 0 0.379828765 0 0 0 0.050297537 3.01E-12 11.52180727 0.001335894 S(ph)QVNGEAGSYEMTNQHVK ddPTM_HeLa_SAHA_4h_R1 1 SQVNGEAGSYEMTNQHVK 18 0 Q05D32;H0YMH7;Q05D32-2 Q05D32 CTDSPL2 CTD small phosphatase-like protein 2 1 0 S(1)QVNGEAGSYEMTNQHVK 210.4 1.55E-17 13745000 1227.2 1416.1 959.84 1442.3 1775.4 2085.3 1710 1602.2 1328.4 1476.7 TRUE FALSE FALSE 1356.282527 1461.982569 1090.641997 1470.217802 1639.369236 1907.620708 1517.5863 1561.218044 1319.155556 1540.367764 0.880492671 0.949112675 0.708040003 0.954458952 1.064271321 1.238419002 0.985210373 1.01353591 0.856390005 1 10.58905912 -5.783393634 4.738799667 0.923064783 1.081860362 0.436358696 0.09901262 0.168639656 9.295774414 0.015278579 0.029281847 1.65E-06 5.783393634 0.158795579 S(ph)RADLTAEMISAPLGDFR ddPTM_HeLa_SAHA_4h_R1 2 SRADLTAEMISAPLGDFR 18 1 Q9H3Q1;Q9H3Q1-2;J3KRZ9;J3QQS6;J3QR93 Q9H3Q1 CDC42EP4 Cdc42 effector protein 4 1 0 S(0.999)RADLT(0.001)AEMISAPLGDFR;S(0.973)RADLT(0.027)AEMISAPLGDFR ; 116.74 0.00040549 12973500 1876.64 1484.42 1605.96 2873.05 2768.29 2180.95 2632.89 2961.3 2281.37 2129.58 TRUE FALSE FALSE 2074.033606 1532.516182 1824.811865 2928.662037 2556.184218 1995.12079 2336.630288 2885.554234 2265.49376 2221.396616 0.933661999 0.689888591 0.821470535 1.318387728 1.150710414 0.898138035 1.051874425 1.298982007 1.01985109 1 11.11725128 -6.27734049 24.83915451 0.93249732 1.125277832 0.414469857 0.144383715 748.7838547 1169674.889 0.023350356 0.035737828 5.28E-07 6.27734049 0.192780512 S(ph)RALELHT(ph)ELEYS(ph)VLSQET(ph)EGYS(ph)GSDIK ddPTM_HeLa_SAHA_4h_R1 1 SRALELHTELEYSVLSQETEGYSGSDIK 28 1 Q8IYT4-2;Q8IYT4 Q8IYT4-2 KATNAL2 Katanin p60 ATPase-containing subunit A-like 2 5 0 S(0.723)RALELHT(0.678)ELEY(0.652)S(0.906)VLS(0.193)QET(0.814)EGY(0.056)S(0.527)GS(0.452)DIK 43.523 0.012402 7078600 288.22 196.61 382.56 319.38 390.9 389.89 386.83 302.98 350.69 214.95 TRUE FALSE FALSE 318.536302 202.980293 434.6932845 325.5620617 360.9493264 356.6691785 343.3028703 295.2302103 348.2495197 224.2175464 1.420657335 0.905282821 1.938712163 1.451991902 1.609817484 1.59072822 1.531115097 1.316713232 1.553176927 1 7.808755372 -8.891885623 0.360542925 0.87905429 1.549380862 0 0.29262185 1.716929446 0.363669341 0.46071916 0.105762993 1.28E-09 8.891885623 0.670326572 S(ph)RDRHDDYYR ddPTM_HeLa_SAHA_4h_R1 2 SRDRHDDYYR 10 2 F8WJN3;Q16630-3;Q16630;Q16630-2 F8WJN3 CPSF6 Cleavage and polyadenylation specificity factor subunit 6 1 0 S(1)RDRHDDYYR;S(1)RDRHDDYYR ; 72.243 0.013518 7219500 364.06 125.56 341.79 270.3 247.78 143.58 358.89 300.81 261.7 331.3 TRUE FALSE FALSE 402.3535012 129.6282264 388.3673612 275.5320474 228.7951499 131.3461762 318.5067527 293.1157158 259.8788084 345.5839643 1.164271328 0.375099078 1.123800295 0.797294076 0.662053722 0.380070228 0.921647951 0.848175107 0.751999037 1 8.432892465 -7.301402625 24.99426153 1.077572596 0.738818565 0.132856478 0.241543646 418.4589529 261716.3259 0.036643154 0.041903323 5.00E-08 7.301402625 -0.338754031 S(ph)RECDITK ddPTM_HeLa_SAHA_4h_R1 1 SRECDITK 8 1 Q13427;E9PG73 Q13427 PPIG Peptidyl-prolyl cis-trans isomerase G 1 0 S(1)RECDITK 77.062 0.018116 8731400 1871.8 2143.6 1446.3 2817.8 3291.9 4350.6 3677.2 3030.5 3369.6 3949.7 TRUE FALSE FALSE 2068.684512 2213.054046 1643.394232 2872.342594 3039.675333 3979.904404 3263.431778 2952.984198 3346.150679 4119.990896 0.502109001 0.537150227 0.398882977 0.697172073 0.737786905 0.965998349 0.792096842 0.716745321 0.81217429 1 12.00842543 -3.918713667 12.7822187 0.730178154 0.57005065 0 0.184160634 12204889.12 48653848.32 0.032818826 51366912.73 0.000120583 3.918713667 -0.160127504 S(ph)REDLSAQPVQTK ddPTM_HeLa_SAHA_4h_R1 5 SREDLSAQPVQTK 13 1 G3V1L9;Q07157;A0A087X0K9;G5E9E7;Q07157-2 G3V1L9 TJP1 Tight junction protein ZO-1 1 0 S(0.918)REDLS(0.082)AQPVQTK;S(1)REDLSAQPVQTK;S(0.975)REDLS(0.025)AQPVQTK;S(0.993)REDLS(0.007)AQPVQTK;S(0.999)REDLS(0.001)AQPVQTK ;;;; 159.41 7.05E-07 296243400 13799.64 13510.88 10976.79 14861.1 15994.94 14718.49 16881.7 15575.09 17812.3 13753.53 TRUE FALSE FALSE 15251.14945 13948.64138 12472.64978 15148.75808 14769.41115 13464.39185 14982.12669 15176.70175 17688.34275 14346.51199 1.063056265 0.972267084 0.86938552 1.055919243 1.02947749 0.938513268 1.044304476 1.057867011 1.232936812 1 13.8084124 -7.249662536 24.87723623 1.02977657 0.993877011 0.099088826 0.086053945 1497.842583 3164020.094 0.009991656 0.01218543 5.63E-08 7.249662536 -0.035899559 S(ph)REDLSAQPVQTKFPAYER ddPTM_HeLa_SAHA_4h_R1 2 SREDLSAQPVQTKFPAYER 19 2 G3V1L9;Q07157;A0A087X0K9;G5E9E7;Q07157-2 G3V1L9 TJP1 Tight junction protein ZO-1 1 0 S(0.992)REDLS(0.008)AQPVQTKFPAYER;S(0.975)REDLS(0.025)AQPVQTKFPAYER ; 91.091 0.0014329 24026000 2637.9 1191.58 2115.44 1757.02 1943.11 1340.9 2723.1 2649.78 726.65 1963.34 TRUE FALSE FALSE 2915.366425 1230.187974 2403.721146 1791.029663 1794.229332 1226.647776 2416.689621 2582.002464 721.5931835 2047.989196 1.423526272 0.60068089 1.173698158 0.874530816 0.876093163 0.598952269 1.180030454 1.260750042 0.35234228 1 10.99999239 -7.277711259 24.96440078 1.199998506 0.938365833 0 0.355441332 1008.957943 1547945.263 0.043919321 0.05030455 5.28E-08 7.277711259 -0.261632673 S(ph)REDLTAVVSVSTK ddPTM_HeLa_SAHA_4h_R1 2 SREDLTAVVSVSTK 14 1 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1;A0A3B3IT83;A0A3B3IS03 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 S(0.999)REDLT(0.001)AVVSVSTK;S(0.963)REDLT(0.037)AVVSVSTK ; 113.88 0.0071751 20778000 1209.9 1471.8 1195.8 1531.8 1665.19 1380.38 1670.34 1969.68 1824.06 1171.39 TRUE FALSE FALSE 1337.162833 1519.487286 1358.757397 1561.450204 1537.603502 1262.763858 1482.388947 1919.298438 1811.366218 1221.894356 1.094335879 1.243550458 1.112008899 1.277892968 1.258376794 1.033447656 1.213189128 1.570756448 1.482424573 1 10.25490384 -1 0.157814687 0.967942428 2.522658229 0 0.187062993 40.45813446 0.40575177 0.21519659 14.6404832 0.1 1 1.554715802 S(ph)RESLNVDVVK ddPTM_HeLa_SAHA_4h_R1 3 SRESLNVDVVK 11 1 Q07866-6;Q07866-4;G3V5R9;Q07866-7;H0YG16;Q07866-9;G3V3H3;H0YJT3;F8W6L3;E7EVH7;G5E9S8;H0YJU9;H0YJL0;G3V2E7;Q07866-8;Q07866-2;Q07866-3;Q07866-5;Q07866-10;Q07866;H0YGB8 Q07866-6 KLC1 Kinesin light chain 1 1 0 S(0.897)RES(0.103)LNVDVVK;S(0.853)RES(0.147)LNVDVVK;S(0.627)RES(0.373)LNVDVVK ;; 111.72 0.0080664 22481900 4276.86 5766.8 4562.6 5691 6331.7 5989.97 5916.4 6185.6 7255.8 5614.9 TRUE FALSE FALSE 4726.719758 5953.648104 5184.367367 5801.157534 5846.566514 5479.590857 5250.671101 6027.381309 7205.306297 5856.985818 0.807022572 1.01650376 0.885159624 0.990468086 0.998221047 0.935564986 0.896480078 1.029092693 1.23020723 1 12.51594269 -7.212575712 24.99871773 0.908871513 0.960014 0 0.119382561 783.5464046 400863.939 0.013545802 0.016590139 6.13E-08 7.212575712 0.051142487 S(ph)RFSGGFGAR ddPTM_HeLa_SAHA_4h_R1 1 SRFSGGFGAR 10 1 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A2R8YDT5;A0A0J9YVQ7 A0A2R8Y5G6 1 0 S(0.998)RFS(0.002)GGFGAR 87.641 0.011996 22164000 1106.2 1165 983.77 1419.3 1274.8 1128.3 1721.8 1448.7 1370.9 1207.3 TRUE FALSE FALSE 1222.555191 1202.746764 1117.833052 1446.772604 1177.125099 1032.162492 1528.058532 1411.644352 1361.359795 1259.352611 0.970780686 0.95505163 0.887625151 1.148822491 0.934706522 0.819597691 1.213368296 1.120928594 1.0809997 1 10.29846657 -4.738750005 24.999919 0.975672636 1.167148565 0.424957177 0.089542308 149.7454647 164992.0187 0.01077677 0.040264894 1.82E-05 4.738750005 0.191475928 S(ph)RFTPELQPK ddPTM_HeLa_SAHA_4h_R1 2 SRFTPELQPK 10 1 Q14676;Q14676-3;Q14676-2;Q14676-4 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 1 0 S(0.957)RFT(0.043)PELQPK;S(0.77)RFT(0.23)PELQPK ; 90.697 0.010519 31915000 6245.3 5697 4903.1 5285.9 6662.3 7324.9 6805 6350.3 6741.1 5962.8 TRUE FALSE FALSE 6902.209308 5881.586538 5571.268934 5388.216238 6151.836013 6700.777311 6039.28349 6187.868521 6694.188136 6219.885489 1.109700383 0.9456101 0.895718891 0.866288656 0.989059368 1.077315221 0.970963774 0.994852483 1.076255849 1 12.6026723 -7.243739229 24.44395622 1.05180296 0.962260434 0.363251248 0.059701739 626.9491532 865819.3599 0.01177835 0.014407756 5.71E-08 7.243739229 -0.089542526 S(ph)RGQGYVGGQR ddPTM_HeLa_SAHA_4h_R1 1 SRGQGYVGGQR 11 1 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 1 0 S(1)RGQGYVGGQR 101.38 0.0043288 8189600 586.93 578.01 485.94 527.43 574.25 776.08 548.83 448.84 555.42 568.51 TRUE FALSE FALSE 648.6659903 596.7379032 552.1613725 537.6391703 530.2510891 709.9536179 487.074204 437.3593227 551.554787 593.0212483 1.093832628 1.006267322 0.9310988 0.906610297 0.894151922 1.197180742 0.821343595 0.737510374 0.930075927 1 9.211939988 -6.843908854 3.42207422 1.044523336 0.921153033 0.105752132 0.117686383 0.295777165 6.911913967 0.018805913 0.025461588 1.43E-07 6.843908854 -0.123370303 S(ph)RLGDLYEEEMR ddPTM_HeLa_SAHA_4h_R1 1 SRLGDLYEEEMR 12 1 P08670;B0YJC4 P08670 VIM Vimentin 1 0 S(1)RLGDLYEEEMR 72.937 0.017771 3442000 330.01 421.23 475.14 264.82 358.03 406.89 438.16 352.04 402.28 278.96 TRUE FALSE FALSE 364.7219659 434.8781284 539.8896048 269.945974 330.5978187 372.2206829 388.8570836 343.0353265 399.4805007 290.9873308 1.253394658 1.494491623 1.855371515 0.927689784 1.136124442 1.279164567 1.336336818 1.178866879 1.372844995 1 8.184812531 -8.615166402 1.012244452 1.028404982 1.308263986 0 0.25487891 0.591997706 1.226955624 0.088927241 0.047459908 2.43E-09 8.615166402 0.279859005 S(ph)RLSSSSSNDSGNK ddPTM_HeLa_SAHA_4h_R1 1 SRLSSSSSNDSGNK 14 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 S(0.644)RLS(0.333)S(0.018)S(0.004)SSNDSGNK 77.506 0.011436 2420200 75.475 166.75 159.48 302.87 116.17 340.08 213.22 185.86 265.43 292.96 TRUE FALSE FALSE 83.41380679 172.1528094 181.2131039 308.7324868 107.2690797 311.1032708 189.2279244 181.1059703 263.582851 305.5909393 0.272959031 0.563343958 0.592992398 1.010280238 0.351021794 1.018038269 0.619219683 0.59264182 0.862534902 1 8.255457958 -9.669606331 1.542338937 0.998814346 0.582296094 0.190109158 0.232037479 0.413131056 1.777214845 0.172913778 0.039200006 2.14E-10 9.669606331 -0.416518252 S(ph)RLTPVSPESSSTEEK ddPTM_HeLa_SAHA_4h_R1 1 SRLTPVSPESSSTEEK 16 1 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 1 0 S(0.53)RLT(0.392)PVS(0.078)PESSSTEEK 68.919 0.015022 290610000 1094.4 1039.1 1405 1400.1 1303.1 1653.8 1550.4 1675.8 1143.4 1422.8 TRUE FALSE FALSE 1209.514013 1072.767522 1596.466083 1427.20096 1203.25676 1512.886936 1375.944912 1632.935463 1135.442986 1484.143871 0.814957389 0.72281909 1.075681485 0.961632486 0.810741319 1.019366765 0.927096718 1.100254156 0.765049136 1 10.53541524 -6.707871655 24.99991328 0.895939604 0.972870442 0.240842256 0.110433734 182.6653586 85248.74992 0.018217973 0.025764094 1.96E-07 6.707871655 0.076930838 S(ph)RNSPLLER ddPTM_HeLa_SAHA_4h_R1 2 SRNSPLLER 9 1 Q7KZI7;Q7KZI7-12;E9PC69;E7ETY4;Q7KZI7-9;Q7KZI7-8;Q7KZI7-11;Q7KZI7-6;Q7KZI7-3;Q7KZI7-14;Q7KZI7-16;Q7KZI7-4;Q7KZI7-5;Q7KZI7-15;Q7KZI7-2;Q7KZI7-7;Q7KZI7-13;Q7KZI7-10 Q7KZI7 MARK2 Serine/threonine-protein kinase MARK2 1 0 S(0.928)RNS(0.072)PLLER;S(0.845)RNS(0.155)PLLER ; 78.548 0.01713 245910000 2373.9 2294.5 1768.53 2320 2545.3 2364 2477.4 2426.6 1857.51 2368.5 TRUE FALSE FALSE 2623.597694 2368.843305 2009.536058 2364.906955 2350.279664 2162.5739 2198.636432 2364.531086 1844.583437 2470.617626 1.061919767 0.958806122 0.813373966 0.957212856 0.951292357 0.875317118 0.889913683 0.957060721 0.746608223 1 11.27065603 -7.005242363 24.96742341 1.028246371 0.907434506 0 0.099147289 112.9115266 537758.2664 0.007359396 0.009518104 9.88E-08 7.005242363 -0.120811865 S(ph)RNTDEMVELR ddPTM_HeLa_SAHA_4h_R1 1 SRNTDEMVELR 11 1 P61978;P61978-2;P61978-3;Q5T6W2;S4R457 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 1 0 S(1)RNTDEMVELR 125.97 0.001004 5502500 2350.2 2838.3 2306.3 2137 3063.1 494.68 2705.9 3256 2583.6 2902.3 TRUE FALSE FALSE 2597.404819 2930.262782 2620.590553 2178.364725 2828.40594 452.530481 2401.42501 3172.716235 2565.620517 3027.432357 0.857956352 0.967903635 0.865614899 0.719541998 0.934259005 0.149476661 0.79322169 1.047989141 0.847457586 1 11.56387901 -6.230623007 1.503597595 0.934945378 0.693544277 0.132982892 0.225013373 0.500221833 2.214523415 0.036106607 0.067902827 5.88E-07 6.230623007 -0.241401101 S(ph)RPALSPLGDIDFCPPNPGPDGPR ddPTM_HeLa_SAHA_4h_R1 2 SRPALSPLGDIDFCPPNPGPDGPR 24 1 Q9ULL5;Q9ULL5-2;A0A3Q5ADB5 Q9ULL5 PRR12 Proline-rich protein 12 1 0 S(0.824)RPALS(0.176)PLGDIDFCPPNPGPDGPR;S(0.713)RPALS(0.287)PLGDIDFCPPNPGPDGPR ; 115.34 4.43E-06 28373000 2138.14 1939.42 1856.48 2115.15 2162.8 2543.03 2441.62 1979.93 2467.76 2217.88 TRUE FALSE FALSE 2363.039375 2002.25848 2109.471426 2156.091787 1997.086731 2326.349537 2166.882492 1929.286258 2450.586657 2313.503661 1.021411557 0.865465879 0.911808121 0.931959531 0.863230418 1.005552564 0.936623757 0.833924013 1.059253417 1 11.17586367 -7.274194489 24.88970512 1.010111016 0.911341048 0.559704784 0.047956063 414.2129005 808273.4977 0.007491529 0.008596264 5.32E-08 7.274194489 -0.098769968 S(ph)RPTSFADELAAR ddPTM_HeLa_SAHA_4h_R1 1 SRPTSFADELAAR 13 1 A0A0A0MR88;A0A096LPC5;Q9Y4E1-6;Q9Y4E1;J3KP36;Q9Y4E1-3;Q9Y4E1-2;Q9Y4E1-1;Q9Y4E1-5;A0A0A0MT65;E7ESD2;Q641Q2-2;Q641Q2;F8W7U3;A0A087WYF6 A0A0A0MR88;E7ESD2 FAM21C;FAM21A WASH complex subunit FAM21C;WASH complex subunit FAM21A 1 0 S(0.871)RPT(0.105)S(0.024)FADELAAR 85.563 0.0085092 3628200 498.89 384.02 431.26 543.38 516.72 731.2 642.17 704.17 680.39 660.97 TRUE FALSE FALSE 551.3655392 396.4625 490.0298669 553.8979056 477.1290252 668.8976464 569.9113415 686.158351 675.6551106 689.4676514 0.799697474 0.575026978 0.71073656 0.803370404 0.692025252 0.970165381 0.826596201 0.995200209 0.979966369 1 9.429339054 -8.927700085 0.999307692 0.988162874 0.793778349 0.29594027 0.118057392 0.491192286 0.95594091 0.058097123 0.023416965 1.18E-09 8.927700085 -0.194384525 S(ph)RQPSPLLLLPPPAGLTSDPGPSVR ddPTM_HeLa_SAHA_4h_R1 1 SRQPSPLLLLPPPAGLTSDPGPSVR 25 1 I3L2J0 I3L2J0 CIC 1 0 S(0.575)RQPS(0.425)PLLLLPPPAGLTSDPGPSVR 46.878 0.018495 15467000 764.06 652.93 664.18 938.98 868.95 928.13 1033.2 1007.8 735.61 1107.4 TRUE FALSE FALSE 844.4273364 674.0853604 754.6909915 957.1553157 802.3712387 849.0481025 916.9416168 982.0219353 730.4908301 1155.145433 0.731013872 0.58355021 0.653329849 0.828601566 0.694606251 0.735014032 0.793788895 0.850128397 0.632379966 1 10.17385878 -9.027254732 0.889139627 0.995257403 0.732324742 0 0.134847769 0.300020984 0.442236029 0.048610744 0.015965594 9.39E-10 9.027254732 -0.262932661 S(ph)RRPSPLAPRPPPS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SRRPSPLAPRPPPSR 15 3 A0A669KBI7;Q9UMN6 A0A669KBI7 KMT2B Histone-lysine N-methyltransferase 2B 2 0 S(0.962)RRPS(0.042)PLAPRPPPS(0.996)R 41.115 0.021986 364290 251.61 227.32 349.44 243.35 284.8 1200.5 254.42 292.71 313.36 311.93 TRUE FALSE FALSE 278.0754942 234.6853172 397.0598634 248.0603911 262.9786855 1098.210646 225.791992 285.222902 311.1793022 325.3788288 0.854620736 0.721267939 1.220300241 0.762374098 0.808223099 3.375175484 0.69393572 0.876587155 0.956360017 1 8.345976573 S(ph)RS(ph)PLGFYVHLK ddPTM_HeLa_SAHA_4h_R1 1 SRSPLGFYVHLK 12 1 Q8IXT5;B9ZVT1 Q8IXT5 RBM12B RNA-binding protein 12B 2 0 S(1)RS(0.998)PLGFY(0.002)VHLK 81.619 0.005775 0 748.53 647.78 605.15 610.16 784.37 780.53 708.19 740.75 584.97 562.7 TRUE FALSE FALSE 827.2638198 668.768497 687.6166905 621.9705291 724.2717401 714.0244529 628.5025973 721.8026876 580.8991461 586.9607508 1.409402279 1.139375156 1.171486662 1.059645859 1.233935555 1.21647734 1.070774488 1.229729052 0.989672896 1 9.197120225 S(ph)RS(ph)RDSGDENEPIQER ddPTM_HeLa_SAHA_4h_R1 2 SRSRDSGDENEPIQER 16 2 Q8WX93-3;Q8WX93;Q8WX93-8;Q8WX93-2;Q8WX93-9;Q8WX93-5;Q8WX93-4;Q8WX93-7 Q8WX93-3 PALLD Palladin 2 0 S(1)RS(0.996)RDS(0.004)GDENEPIQER;S(0.996)RS(0.992)RDS(0.012)GDENEPIQER ; 89.507 0.0056106 15550200 2826.8 2319.08 2508.7 3283.7 3194.9 2866.1 2600.3 2904.9 2928.5 2889.9 TRUE FALSE FALSE 3124.135794 2394.219714 2850.572571 3347.260762 2950.107452 2621.892156 2307.7074 2830.596864 2908.12033 3014.497732 1.036370259 0.794235036 0.94562107 1.110387554 0.978639798 0.869760865 0.765536287 0.938994524 0.964711401 1 11.55770193 -5.255652954 4.184621356 1.000323925 0.845837771 0.249293953 0.086934004 0.168531876 7.273518144 0.01246487 0.031551613 5.55E-06 5.255652954 -0.154486153 S(ph)RSAVTLPR ddPTM_HeLa_SAHA_4h_R1 1 SRSAVTLPR 9 1 Q3KQU3-4;Q3KQU3;Q3KQU3-2 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 S(0.962)RS(0.037)AVTLPR 97.163 0.00755 3392900 1090.7 827.55 708.25 1082.3 1015.5 821.92 930.48 1099 594.94 742.49 TRUE FALSE FALSE 1205.42483 854.363163 804.7666216 1103.249482 937.6926094 751.887792 825.7799415 1070.889171 590.7997641 774.5023776 1.556386223 1.103112383 1.039075728 1.424462356 1.210703332 0.970801141 1.06620711 1.382680289 0.762812073 1 9.597125858 -5.508891964 24.11856651 1.24984514 1.125564761 0 0.241582318 1091.131731 1881524.601 0.034586874 0.074470745 3.10E-06 5.508891964 -0.124280379 S(ph)RSDIDVNAAAGAK ddPTM_HeLa_SAHA_4h_R1 2 SRSDIDVNAAAGAK 14 1 E3W994;J3KR49;O75122;A0A0U1RQI6;B3KR06;E7ENG2;O75122-2;E7ERI8;E7EW49;O75122-3 E3W994;E7ERI8 CLASP2 CLIP-associating protein 2 1 0 S(0.5)RS(0.5)DIDVNAAAGAK;S(0.562)RS(0.438)DIDVNAAAGAK ; 141.13 0.00011926 22057000 8845.8 7988.4 7594.8 8427.3 9583.4 9790.7 9229.4 9274.2 8090.5 8565.3 TRUE FALSE FALSE 9776.24183 8247.229401 8629.779792 8590.422578 8849.121962 8956.477279 8190.883622 9036.979393 8034.197552 8934.592001 1.094201261 0.923067265 0.965884037 0.961478999 0.990433806 1.002449499 0.91676079 1.011459661 0.899223776 1 13.12518613 -7.258992471 24.96743986 1.044483928 0.967369589 0 0.058153671 155.9244627 1590997.231 0.007262566 0.00867964 5.51E-08 7.258992471 -0.077114339 S(ph)RSESDLSQPES(ph)DEEGYALSGR ddPTM_HeLa_SAHA_4h_R1 1 SRSESDLSQPESDEEGYALSGR 22 1 Q15751;H0YNB1 Q15751 HERC1 Probable E3 ubiquitin-protein ligase HERC1 2 0 S(0.415)RS(0.415)ES(0.169)DLS(0.002)QPES(1)DEEGYALSGR 113.43 0.00031114 6450800 277.6 225.18 168.35 353.36 301.93 330.65 249.44 339.5 237.09 330.31 TRUE FALSE FALSE 306.7992417 232.4759797 191.2918613 360.1997938 278.7961886 302.4767598 221.3723547 330.8160816 235.4400714 344.5512806 0.890431291 0.674720986 0.555191265 1.04541708 0.809157314 0.877886041 0.642494651 0.96013598 0.683323745 1 8.428574909 -7.754694362 2.002186279 0.963738274 0.794657033 0 0.166276853 0.321553974 2.689520024 0.027966439 0.027468498 1.76E-08 7.754694362 -0.169081242 S(ph)RSESDLSQPESDEEGYALSGR ddPTM_HeLa_SAHA_4h_R1 1 SRSESDLSQPESDEEGYALSGR 22 1 Q15751;H0YNB1 Q15751 HERC1 Probable E3 ubiquitin-protein ligase HERC1 1 0 S(0.314)RS(0.314)ES(0.314)DLS(0.059)QPES(0.001)DEEGYALSGR 89.08 0.00023051 7358000 143.68 210.91 271.66 199.57 307.72 273.65 240.44 201.09 318.61 152.02 TRUE FALSE FALSE 158.7929216 217.7436224 308.6804101 203.4329659 284.1425601 250.3334805 213.3850584 195.946409 316.3927671 158.5743262 1.001378505 1.373132888 1.946597646 1.282887154 1.791857276 1.57865076 1.34564695 1.235675495 1.995233243 1 7.309015401 -7.168029994 4.016675756 1.000109443 1.532803763 0 0.377144179 0.116112792 3.40643671 0.033576475 0.041241757 6.79E-08 7.168029994 0.53269432 S(ph)RSFDYNYR ddPTM_HeLa_SAHA_4h_R1 2 SRSFDYNYR 9 1 O75494-2;O75494;Q5JRI1;O75494-5;O75494-4;O75494-6;O75494-3 O75494-2 SRSF10 Serine/arginine-rich splicing factor 10 1 0 S(0.72)RS(0.28)FDYNYR;S(0.992)RS(0.008)FDYNYR ; 106.16 0.0044414 38733000 1568.64 1707.09 1399.58 1937.73 1775.84 1809.93 1956.02 1842.4 2125.6 1621.96 TRUE FALSE FALSE 1733.636752 1762.400836 1590.307474 1975.237566 1639.775523 1655.713782 1735.923482 1795.274076 2110.807777 1691.890633 1.024674242 1.04167539 0.939958791 1.167473551 0.969197116 0.9786175 1.026025824 1.061105275 1.247602969 1 10.7244206 -9.176731891 0.602455994 0.996764785 1.025517394 0 0.097660185 4.243523058 2.341772445 0.066535204 0.012880678 6.66E-10 9.176731891 0.028752609 S(ph)RSLGPGAGPR ddPTM_HeLa_SAHA_4h_R1 2 SRSLGPGAGPR 11 1 H3BUV2;P78549-3;P78549-2;P78549 H3BUV2 NTHL1 Endonuclease III-like protein 1 1 0 S(0.995)RS(0.005)LGPGAGPR;S(0.995)RS(0.005)LGPGAGPR ; 107.93 0.0027844 42297000 2630.7 2578.9 1985.52 2169.47 2787.5 2787.8 3109.2 2625.31 2321.4 2583.6 TRUE FALSE FALSE 2907.409096 2662.458052 2256.096325 2211.463229 2573.922352 2550.263756 2759.344633 2558.158372 2305.245188 2694.99164 1.078819338 0.98792813 0.837144091 0.820582593 0.955076192 0.946297465 1.023878736 0.94922683 0.855381202 1 11.39606508 -6.995291707 24.86805261 1.037017798 0.923646862 0 0.081496091 94.97661094 501638.7832 0.010676633 0.014002677 1.01E-07 6.995291707 -0.113370936 S(ph)RSPGSPVGEGTGSPPK ddPTM_HeLa_SAHA_4h_R1 2 SRSPGSPVGEGTGSPPK 17 1 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;H0Y9H2;A0A0A0MSR2 E7EV99 ADD1 Alpha-adducin 1 0 S(0.88)RS(0.106)PGS(0.014)PVGEGTGSPPK;S(0.921)RS(0.025)PGS(0.04)PVGEGT(0.001)GS(0.014)PPK ; 121.72 0.00083591 27226500 3194.47 3581.93 2741.91 2976.65 3842.12 4052.4 3577.67 3430.08 3926.7 3046.46 TRUE FALSE FALSE 3530.479011 3697.986882 3115.563216 3034.267365 3547.737596 3707.112722 3175.101156 3342.34352 3899.373775 3177.8078 1.110979403 1.163691172 0.980412729 0.95483036 1.116410374 1.166562912 0.999148267 1.051776486 1.227064071 1 11.63381615 -9.547381934 1.35635868 1.000539305 1.072571999 0 0.099290134 0.761564473 2.539624586 0.049122752 0.012026419 2.84E-10 9.547381934 0.072032694 S(ph)RSPLELEPEAKK ddPTM_HeLa_SAHA_4h_R1 1 SRSPLELEPEAKK 13 2 A0A087WTQ7;A0A087WV56;A0A087WW71;A0A087X0X5;Q92466-3;Q92466-2;Q92466-5;Q92466-4;Q92466 A0A087WTQ7 DDB2 DNA damage-binding protein 2 1 0 S(0.5)RS(0.5)PLELEPEAKK 70.134 0.012185 60227000 2882.3 1762.2 1878.3 2366.1 2902.9 2786.9 3174.2 2986.7 1946.4 2403.7 TRUE FALSE FALSE 3185.473538 1819.296436 2134.264942 2411.899287 2680.480429 2549.440441 2817.030662 2910.304539 1932.854844 2507.33527 1.270461743 0.725589616 0.851208439 0.961937287 1.069055447 1.016792796 1.123515748 1.160716149 0.770880092 1 11.2919392 -12.0987154 11.69818694 0.76066557 1.067857195 0 0.179855797 0 0 0 0.023760681 7.97E-13 12.0987154 0.307191625 S(ph)RSPLHPMSEIPR ddPTM_HeLa_SAHA_4h_R1 2 SRSPLHPMSEIPR 13 1 Q9NVW2-2;Q9NVW2 Q9NVW2-2 RLIM E3 ubiquitin-protein ligase RLIM 1 0 S(0.795)RS(0.204)PLHPMS(0.001)EIPR;S(0.959)RS(0.041)PLHPMSEIPR ; 103.14 0.0023939 33135000 2525.61 3299.4 2093.55 2995.2 3237.7 3753.8 3197.8 2870.3 3714.8 2974.9 TRUE FALSE FALSE 2791.265248 3406.302725 2378.848091 3053.176427 2989.628125 3433.955122 2837.975128 2796.881882 3688.948404 3103.162498 0.89949052 1.097687513 0.766588309 0.983891894 0.963413333 1.10659855 0.914542867 0.901300491 1.188770619 1 11.59952353 -4.549932057 24.99944727 0.961691208 0.904610476 0.01201455 0.116175133 437.7940088 404556.4167 0.012147348 0.045453415 2.82E-05 4.549932057 -0.057080732 S(ph)RSPPPVSKR ddPTM_HeLa_SAHA_4h_R1 1 SRSPPPVSKR 10 2 Q01130-2;Q01130 Q01130-2 SRSF2 Serine/arginine-rich splicing factor 2 1 0 S(0.5)RS(0.5)PPPVSKR 53.756 0.022725 1435400 682.24 582.91 454.33 592.34 411.75 459.06 700.75 650.58 402.1 457.45 TRUE FALSE FALSE 754.0011334 601.7966665 516.2437264 603.8055972 380.201804 419.9455054 621.8997657 633.9391056 399.3017534 477.1729082 1.580142377 1.261171068 1.081879791 1.265381137 0.796779946 0.880069883 1.303300659 1.328531219 0.836807259 1 8.898368325 -6.771192083 19.19639103 1.280652376 1.100607179 0 0.250463716 22.98073114 45233.51018 0.043701401 0.058064608 1.69E-07 6.771192083 -0.180045197 S(ph)RSPQAFR ddPTM_HeLa_SAHA_4h_R1 2 SRSPQAFR 8 1 A0A2R8Y880;Q7Z6E9-2;Q7Z6E9;H3BSK8 A0A2R8Y880 RBBP6 E3 ubiquitin-protein ligase RBBP6 1 0 S(0.922)RS(0.078)PQAFR;S(0.956)RS(0.044)PQAFR ; 89.029 0.011241 56719000 2150.2 1795.16 1600.07 1517.85 2226.5 1962.06 2720.9 2266.38 2036.92 1897.89 TRUE FALSE FALSE 2376.367901 1853.324362 1818.119207 1547.230182 2055.906051 1794.88145 2414.737171 2208.409281 2022.744908 1979.717326 1.200357177 0.936156055 0.918373135 0.781540961 1.038484648 0.906635218 1.219738363 1.115517479 1.021734205 1 10.95107873 -7.241329848 24.7991883 1.094613118 0.985158074 0.083968412 0.124417523 1206.030628 1487285.006 0.023136173 0.028317286 5.74E-08 7.241329848 -0.109455044 S(ph)RSQPCDLDAR ddPTM_HeLa_SAHA_4h_R1 1 SRSQPCDLDAR 11 1 Q9NYF3 Q9NYF3 FAM53C Protein FAM53C 1 0 S(0.693)RS(0.307)QPCDLDAR 91.701 0.0082996 24142000 2296 2668.6 2570.8 3122.8 3349.7 4116 4124.7 3149.8 2144.9 2625.3 TRUE FALSE FALSE 2537.503814 2755.064391 2921.135236 3183.24631 3093.04671 3765.293644 3660.5779 3069.232677 2129.973466 2738.489531 0.92660709 1.006052556 1.066695784 1.162409523 1.129471804 1.374952725 1.336714221 1.120775757 0.777791349 1 11.41916465 -6.138292073 1.122327151 0.965628248 1.272900591 0.6927211 0.09434578 0.168204212 0.418204572 0.012655579 0.027724436 7.27E-07 6.138292073 0.307272342 S(ph)RSSDIVSSVR ddPTM_HeLa_SAHA_4h_R1 1 SRSSDIVSSVR 11 1 Q14C86-4;Q14C86-5;Q14C86-2;Q14C86;Q14C86-6;F8W9S7;Q14C86-3;H0Y4E7;H0Y7I9;C9IZ08 Q14C86-4 GAPVD1 GTPase-activating protein and VPS9 domain-containing protein 1 1 0 S(0.63)RS(0.317)S(0.053)DIVSSVR 100.18 0.0048198 61623000 1230.6 1633.3 1594.5 944.46 1294 1592.7 1480.2 1105.1 699.01 1208.4 TRUE FALSE FALSE 1360.040154 1686.219992 1811.790156 962.741389 1194.854 1456.993 1313.644 1076.833142 694.1455325 1260.500038 1.078968753 1.337738946 1.437358272 0.763777358 0.947920638 1.155884931 1.042161016 0.854290448 0.550690608 1 10.29978045 S(ph)RSSS(ph)VGSSSSYPISPAVSR ddPTM_HeLa_SAHA_4h_R1 1 SRSSSVGSSSSYPISPAVSR 20 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 2 0 S(0.664)RS(0.323)S(0.184)S(0.785)VGS(0.028)S(0.007)S(0.005)S(0.004)YPISPAVSR 121.77 2.28E-05 0 592.35 568.69 727.01 551.62 687.68 640.34 720.68 633.52 489.83 632.17 TRUE FALSE FALSE 654.6560908 587.1159291 826.0831367 562.2974028 634.990107 585.7794295 639.5871897 617.3154757 486.4212331 659.4259425 0.992766661 0.890343997 1.252730722 0.852707433 0.962943776 0.888317234 0.969915116 0.936140719 0.737643459 1 9.365066835 S(ph)RSWEDSPER ddPTM_HeLa_SAHA_4h_R1 1 SRSWEDSPER 10 1 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1;B1AN86;A0A3B3IU26 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 S(0.775)RS(0.225)WEDSPER 88.134 0.011756 14248000 951.4 1021.1 977.11 992.14 842.49 1087.1 1166.5 974.54 835.65 762.9 TRUE FALSE FALSE 1051.472617 1054.18431 1110.265462 1011.344304 777.9385982 994.4729641 1035.24235 949.6126779 829.8346436 795.7923525 1.321290176 1.324697714 1.395169806 1.270864568 0.977564808 1.249663887 1.300895072 1.193292038 1.042777857 1 9.636248225 -9.333626972 1.057679159 1.000039113 1.257800088 0.43015615 0.106670854 0.402577996 0.806273809 0.076794087 0.020229409 4.64E-10 9.333626972 0.257760975 S(ph)RT(ph)PPSAPSQSR ddPTM_HeLa_SAHA_4h_R1 1 SRTPPSAPSQSR 12 1 Q9UQ35;I3L3Q8 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 S(1)RT(1)PPSAPSQSR 105.17 0.017642 67157000 546.03 653.35 432.99 671.37 452.95 580.59 650.96 660.79 843.03 488.38 TRUE FALSE FALSE 603.4639407 674.5189687 491.9956223 684.3653372 418.2450689 531.1204657 577.7122676 643.8879486 837.1632856 509.4364519 1.184571576 1.324049283 0.965764465 1.343377245 0.820995567 1.042564708 1.134022243 1.263922019 1.643312493 1 8.992758383 -9.434633221 1.228242452 1.001673017 1.133981251 0 0.252675023 0.880225448 2.420911705 0.095033241 0.025074397 3.68E-10 9.434633221 0.132308234 S(ph)RTASGS(ph)SVTSLDGTR ddPTM_HeLa_SAHA_4h_R1 1 SRTASGSSVTSLDGTR 16 1 E5RJY1;E7ESM1;Q92597-3;Q92597-2;Q92597 E5RJY1 NDRG1 Protein NDRG1 2 0 S(0.824)RT(0.176)AS(0.14)GS(0.378)S(0.291)VT(0.15)S(0.041)LDGTR 113.47 0.019475 5005800 1107.4 1460.2 920.81 1354.2 1685.5 1836.8 1883.3 1730.2 1483.6 1270.5 TRUE FALSE FALSE 1223.881413 1507.511438 1046.293191 1380.412499 1556.357354 1680.294306 1671.386127 1685.943989 1473.275507 1325.277473 0.923490694 1.137506273 0.789489909 1.041602629 1.174363397 1.267881135 1.261159389 1.272144154 1.111673244 1 10.37207873 -5.712463652 2.550867812 0.965396534 1.262751398 0.624457866 0.093301437 0.101259669 1.341550144 0.011505803 0.02467856 1.94E-06 5.712463652 0.297354863 S(ph)RTGS(ph)ESSQTGTSTTSSR ddPTM_HeLa_SAHA_4h_R1 1 SRTGSESSQTGTSTTSSR 18 1 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 2 0 S(0.955)RT(0.32)GS(0.507)ES(0.206)S(0.011)QTGTSTTSSR 117.35 0.0034108 12063000 1138 847.27 892.52 1209.1 992.24 1283.3 1157.6 1295.3 958.82 796.11 TRUE FALSE FALSE 1257.700061 874.7221039 1014.147978 1232.503879 916.2147856 1173.95562 1027.343801 1262.168102 952.1474936 830.4341982 1.514508993 1.053331024 1.221226173 1.484168019 1.103296068 1.413664831 1.237116443 1.51988936 1.146565852 1 9.697722046 -9.568768094 1.331919484 0.999129284 1.332412414 0.247462586 0.163462402 0.375282178 1.188278021 0.112746544 0.02615957 2.70E-10 9.568768094 0.333283131 S(ph)RTGSES(ph)SQTGTSTTSSR ddPTM_HeLa_SAHA_4h_R1 1 SRTGSESSQTGTSTTSSR 18 1 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 2 0 S(0.494)RT(0.493)GS(0.011)ES(0.521)S(0.414)QT(0.055)GT(0.008)S(0.002)T(0.001)TSSR 114.55 0.011793 2065500 730.62 645.28 672.57 873.44 754.4 754.81 806.5 950.39 610.6 622.92 TRUE FALSE FALSE 807.4699638 666.1874954 764.224337 890.3466942 696.598035 690.4959416 715.7504974 926.0803999 606.3507849 649.7771297 1.242687572 1.025255376 1.176133019 1.370233967 1.072056869 1.062665813 1.101532302 1.425227755 0.933167323 1 9.343801156 -9.454740544 1.043177804 0.993879621 1.181104737 0.310010255 0.127019137 0.686815329 1.263819037 0.099943188 0.021688145 3.51E-10 9.454740544 0.187225115 S(ph)RTGSESSQTGTSTTSSR ddPTM_HeLa_SAHA_4h_R1 2 SRTGSESSQTGTSTTSSR 18 1 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 S(0.954)RT(0.045)GSESSQTGTSTTSSR;S(0.869)RT(0.13)GS(0.001)ESSQTGTSTTSSR ; 183.27 4.28E-10 306358000 755.01 616.56 718.24 507.38 797.68 668.46 758.77 712.91 727.44 698.82 TRUE FALSE FALSE 834.4254159 636.5369485 816.1180068 517.2010736 736.5619307 611.5034473 673.3912026 694.6747945 722.3776858 728.9495501 1.1446957 0.873224969 1.119580918 0.709515595 1.010442946 0.838883085 0.923783 0.95298062 0.990984473 1 9.50967516 -7.254096262 24.74597175 1.068328526 0.91874765 0.213486675 0.108926968 446.894697 1506014.885 0.017439574 0.021119031 5.57E-08 7.254096262 -0.149580876 S(ph)RTPLLPR ddPTM_HeLa_SAHA_4h_R1 2 SRTPLLPR 8 1 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.974)RT(0.026)PLLPR;S(0.999)RT(0.001)PLLPR ; 93.096 0.0064505 7432600 1749 2098.4 1703.98 1867.57 2238.47 2310.4 2472.35 2162.66 2331.73 2218.96 TRUE FALSE FALSE 1932.967845 2166.389537 1936.18952 1903.719518 2066.958912 2113.540922 2194.154671 2107.342289 2315.503301 2314.630225 0.835108703 0.935954916 0.836500578 0.822472418 0.89299746 0.913122493 0.94795041 0.91044447 1.000377199 1 11.17656602 -9.472950553 1.180598262 1.00075033 0.88237223 0.54327758 0.041302225 0.331641935 0.818512879 0.032262336 0.007722779 3.37E-10 9.472950553 -0.118378101 S(ph)RTPPSAPSQSR ddPTM_HeLa_SAHA_4h_R1 3 SRTPPSAPSQSR 12 1 Q9UQ35;I3L3Q8 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.499)RT(0.499)PPSAPSQS(0.002)R;S(0.953)RT(0.047)PPSAPSQSR;S(0.957)RT(0.043)PPSAPSQSR ;; 117.08 0.00099947 497140000 3801.21 4446.19 3593.08 4007.25 4548.07 4659.97 5026.35 3705.82 4106.16 3927.16 TRUE FALSE FALSE 4201.038708 4590.249473 4082.72623 4084.816118 4199.597859 4262.91434 4460.771869 3611.03049 4077.584898 4096.479087 1.025524266 1.120535312 0.996642762 0.997152929 1.025172537 1.040628855 1.088928266 0.881496137 0.995387701 1 12.00016873 S(ph)RTPVQDHR ddPTM_HeLa_SAHA_4h_R1 1 SRTPVQDHR 9 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 S(0.637)RT(0.363)PVQDHR 76.326 0.018494 8639600 1360 1428.1 2185 2811.4 1905.6 3198 4368.6 3299.9 1854.4 3332.1 TRUE FALSE FALSE 1503.05104 1474.371377 2482.760421 2865.818712 1759.59334 2925.512409 3877.03363 3215.493336 1841.495079 3475.763138 0.432437707 0.424186378 0.714306563 0.824514962 0.50624662 0.841689233 1.11544817 0.92511866 0.529810291 1 11.76311406 -4.985924835 6.492964092 0.694385116 1.01319445 0.397933316 0.182530447 0.169329353 30.32140069 0.033847867 0.099646182 1.03E-05 4.985924835 0.318809334 S(ph)RTS(ph)VQTEDDQLIAGQSAR ddPTM_HeLa_SAHA_4h_R1 3 SRTSVQTEDDQLIAGQSAR 19 1 G3XAM7;P35221-3;P35221;P35221-2;A0A0A0MTJ6;A0A0A0MRI5;P26232-4;P26232-6;P26232-3;P26232-2;P26232-5;P26232 G3XAM7 CTNNA1;CTNNA2 Catenin alpha-1;Catenin alpha-2 2 0 S(0.888)RT(0.208)S(0.708)VQT(0.195)EDDQLIAGQSAR;S(0.571)RT(0.571)S(0.858)VQTEDDQLIAGQSAR;S(0.727)RT(0.546)S(0.726)VQT(0.001)EDDQLIAGQSAR ;; 104.16 0.0036611 16448000 1441.93 1880.19 1197.31 1635.33 1844.06 2364.32 1416.84 2009.07 2728.36 2302.95 TRUE FALSE FALSE 1593.598813 1941.10939 1360.473171 1666.984177 1702.768521 2162.866635 1257.413434 1957.680898 2709.373121 2402.241445 0.663379952 0.808040921 0.566334901 0.693928656 0.708824887 0.900353559 0.523433411 0.814939274 1.127852126 1 11.23016545 -9.295695105 0.81717311 1.017884174 0.704299388 0.583100465 0.116121787 0.437797543 0.47608295 0.090161227 0.019428934 5.06E-10 9.295695105 -0.313584787 S(ph)RTSPITR ddPTM_HeLa_SAHA_4h_R1 1 SRTSPITR 8 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.881)RT(0.113)S(0.006)PITR 69.628 0.02318 126830000 313 279.98 276.29 340.09 277.9 349.17 428.02 344.27 378.16 320.19 TRUE FALSE FALSE 345.9227761 289.0515357 313.9413623 346.6729337 256.607362 319.4187516 379.8580631 335.4640719 375.5283538 333.9949579 1.03571257 0.865436824 0.939958388 1.037958585 0.768297113 0.956358005 1.137316759 1.004398611 1.124353362 1 8.383682513 S(ph)RTSVQTEDDQLIAGQSAR ddPTM_HeLa_SAHA_4h_R1 1 SRTSVQTEDDQLIAGQSAR 19 1 G3XAM7;P35221-3;P35221;P35221-2;A0A0A0MTJ6;A0A0A0MRI5;P26232-4;P26232-6;P26232-3;P26232-2;P26232-5;P26232 G3XAM7 CTNNA1;CTNNA2 Catenin alpha-1;Catenin alpha-2 1 0 S(0.732)RT(0.134)S(0.134)VQTEDDQLIAGQSAR 140.88 5.61E-05 30788000 761.63 958.52 796.48 666.31 1185.7 825.27 1022.1 1118.2 767.14 928.79 TRUE FALSE FALSE 841.7417379 989.5766769 905.0201465 679.2073936 1094.851922 754.9523532 907.090618 1089.598063 761.8014103 968.8346823 0.86881875 1.02140922 0.934132689 0.701056027 1.130070942 0.779237539 0.936269763 1.124648078 0.786306915 1 9.920106701 -4.264562528 6.617736008 0.928384755 1.128090622 0.202189255 0.123356158 0.130135542 36.58589266 0.014805141 0.117242775 5.44E-05 4.264562528 0.199705867 S(ph)RVFDLQFSTDSPR ddPTM_HeLa_SAHA_4h_R1 2 SRVFDLQFSTDSPR 14 1 C9J470;E9PHA2;Q15003;C9JZP1 C9J470 NCAPH Condensin complex subunit 2 1 0 S(1)RVFDLQFSTDSPR;S(1)RVFDLQFSTDSPR ; 98.077 0.0033377 9542600 1624.09 1428.94 1447.68 2034.84 1859.86 2881.9 2422.9 2526.9 2820.6 1971.79 TRUE FALSE FALSE 1794.919238 1475.238594 1644.962291 2074.227271 1717.357929 2636.345907 2150.268915 2462.265557 2800.971215 2056.803517 0.872674139 0.717248187 0.799766374 1.008471278 0.834964504 1.281768475 1.045442065 1.197132121 1.36180787 1 11.00618827 -5.267711499 24.9930787 0.909903294 1.161847007 0.256164253 0.175349682 293.2735088 1168635.25 0.015875452 0.036334163 5.40E-06 5.267711499 0.251943713 S(ph)RVSVSPGR ddPTM_HeLa_SAHA_4h_R1 1 SRVSVSPGR 9 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 S(0.859)RVS(0.001)VS(0.14)PGR 72.096 0.021891 23276000 2604 1999.8 2196.2 1930.4 2085.4 2277.2 2454.3 2358.2 1663.6 2302.9 TRUE FALSE FALSE 2877.900668 2064.594832 2495.486699 1967.765683 1925.617103 2083.169749 2178.135705 2297.880659 1652.022872 2402.189289 1.198032428 0.859463841 1.038838492 0.819155132 0.801609228 0.867196336 0.906729422 0.956577681 0.687715527 1 11.23013412 -7.248372456 24.92988917 1.093515314 0.89162457 0 0.150148945 462.762701 882888.1378 0.016026321 0.019561889 5.64E-08 7.248372456 -0.201890744 S(ph)S(ph)KASLGSLEGEAEAEASSPK ddPTM_HeLa_SAHA_4h_R1 1 SSKASLGSLEGEAEAEASSPK 21 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 2 0 S(0.5)S(0.5)KAS(0.5)LGS(0.5)LEGEAEAEASSPK 71.535 0.021309 12635000 1493.3 1294.2 1093 1174.9 1323.6 1221.7 1536.9 1370.6 1199.4 1204.7 TRUE FALSE FALSE 1650.372146 1336.132929 1241.948348 1197.641888 1222.186054 1117.604287 1363.963967 1335.542037 1191.053278 1256.640513 1.313320818 1.063257881 0.988308379 0.953050516 0.972582088 0.889358791 1.085405057 1.062787665 0.94780748 1 10.29535628 -7.007035527 11.51669485 1.150080881 0.991897985 0.061285561 0.107826063 0.339707738 540.1383639 0.020598505 0.026262057 9.84E-08 7.007035527 -0.158182896 S(ph)S(ph)KMRRLSSR ddPTM_HeLa_SAHA_4h_R1 1 SSKMRRLSSR 10 3 Q6NV74 Q6NV74 KIAA1211L Uncharacterized protein KIAA1211-like 2 0 S(1)S(1)KMRRLSSR 60.641 0.021367 2516000 282.65 310.66 412.51 321.63 384.54 457.43 329.54 318.03 366.87 522.8 TRUE FALSE FALSE 312.3804238 320.7255878 468.7247145 327.8556137 355.0766283 418.4543906 292.4592919 309.8952531 364.3169218 545.3404665 0.572817245 0.588119913 0.859508405 0.601194362 0.651109995 0.767326865 0.53628753 0.568260146 0.668054077 1 9.091013403 -9.331115783 0.913860092 1.013531148 0.643033842 0.055716836 0.138277945 0.303600069 0.427471015 0.078636814 0.017984771 4.67E-10 9.331115783 -0.370497306 S(ph)S(ph)PS(ph)PQKR ddPTM_HeLa_SAHA_4h_R1 1 SSPSPQKR 8 1 A0A2R8Y611;O14617-3;O14617-4;O14617-2;O14617;O14617-5 A0A2R8Y611 AP3D1 AP-3 complex subunit delta-1 3 0 S(1)S(1)PS(1)PQKR 47.971 0.020977 18950000 332.7 247.35 254.58 302.99 392.63 450.08 335.28 361.43 629.53 428.06 TRUE FALSE FALSE 367.6949125 255.3643023 289.2728366 308.8548096 362.5467742 411.7306519 297.553412 352.1851439 625.1490495 446.5157615 0.823475774 0.571904341 0.647844626 0.691699681 0.811946197 0.92209657 0.666389493 0.788740677 1.400060431 1 8.802567291 -8.24305102 1.052298373 0.969227564 0.736081364 0.452489086 0.167110531 0.281010431 0.647068903 0.030970551 0.021673437 5.71E-09 8.24305102 -0.2331462 S(ph)S(ph)RDS(ph)SAGSDTS(ph)LEGAAPMGPT ddPTM_HeLa_SAHA_4h_R1 1 SSRDSSAGSDTSLEGAAPMGPT 22 1 J3KSG7;Q6SZW1-2;Q6SZW1 J3KSG7 SARM1 Sterile alpha and TIR motif-containing protein 1 4 0 S(0.945)S(0.684)RDS(0.683)S(0.683)AGS(0.032)DT(0.146)S(0.792)LEGAAPMGPT(0.034) 43.534 0.0087195 0 0 189.99 267 258.81 315.24 260.9 237.75 223.56 349.78 348.24 TRUE FALSE FALSE 0 196.1458007 303.3853695 263.8196418 291.0863793 238.6698522 210.9977443 217.8416589 347.3458525 363.2543306 0 0.539968237 0.835187206 0.726267024 0.801329412 0.657032366 0.580854037 0.599694596 0.956205675 1 8.504836187 -6.915651487 9.84788664 0.514297015 0.698048935 0 0.274055433 0.909456998 98.89127461 0.06100059 0.080209717 1.21E-07 6.915651487 0.18375192 S(ph)S(ph)S(ph)GPGPGPAS(ph)RPWK ddPTM_HeLa_SAHA_4h_R1 1 SSSGPGPGPASRPWK 15 1 H0YBV4 H0YBV4 WDYHV1 4 0 S(1)S(1)S(1)GPGPGPAS(1)RPWK 49.298 0.020099 5709200 146.74 133.34 136.95 211.82 0 154.45 196.57 194.1 155.56 222.5 TRUE FALSE FALSE 162.1747865 137.6603035 155.6128328 215.9200824 0 141.2899911 174.4514263 189.1352031 154.4774453 232.0930639 0.698748958 0.593125452 0.670476016 0.930316825 0 0.608764384 0.75164429 0.814911053 0.665584067 1 7.858559598 -8.698721048 0.532112026 1.025180109 0.605966123 0.029618087 0.253765174 1.044313567 0.554730132 0.208673441 0.064978064 2.00E-09 8.698721048 -0.419213985 S(ph)S(ph)S(ph)NT(ph)KAVT(ph)TFTITVR ddPTM_HeLa_SAHA_4h_R1 1 SSSNTKAVTTFTITVR 16 1 A0A1W2PPD9;P04198 A0A1W2PPD9 MYCN N-myc proto-oncogene protein 5 0 S(1)S(1)S(1)NT(0.998)KAVT(0.359)T(0.296)FT(0.204)IT(0.143)VR 61.962 0.0064126 0 576.67 781.52 780.06 825.61 623.47 873.1 708.49 927.53 1077.7 849.58 TRUE FALSE FALSE 637.3267965 806.8417608 886.3625144 841.5908754 575.6998633 798.7069681 628.7688406 903.8051256 1070.200198 886.2095515 0.719160378 0.910441283 1.000172604 0.949652228 0.649620468 0.901261972 0.70950357 1.019854868 1.207615283 1 9.791504066 S(ph)S(ph)S(ph)VHSIPS(ph) ddPTM_HeLa_SAHA_4h_R1 1 SSSVHSIPS 9 0 A0A1W2PRA7;A0A1W2PNY7;A0A1W2PQ93 A0A1W2PRA7 4 0 S(0.998)S(0.978)S(0.514)VHS(0.514)IPS(0.995) 49.189 0.022213 1698400 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 S(ph)S(ph)SPVTELASR ddPTM_HeLa_SAHA_4h_R1 1 SSSPVTELASR 11 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 S(0.998)S(0.749)S(0.252)PVTELASR 153.54 0.0044013 10122000 1923.8 2129.1 1790.9 2032.7 2530.7 2647.1 2175.7 1647.2 3524.3 2352.8 TRUE FALSE FALSE 2126.154111 2198.084237 2034.954525 2072.045848 2336.798313 2421.552188 1930.88451 1605.067009 3499.774109 2454.240722 0.866318488 0.895626992 0.829158488 0.844271643 0.952147151 0.986680795 0.786754328 0.653997383 1.426010936 1 11.26106105 -13.52090207 0.022671937 2.13067821 2.49E-06 0.304466054 0.161227899 1797.137258 3.283718765 211.9513046 111.7122896 3.01E-14 13.52090207 -2.130675716 S(ph)S(ph)T(ph)SLT(ph)S(ph)EEKQEK ddPTM_HeLa_SAHA_4h_R1 1 SSTSLTSEEKQEK 13 1 Q9H2B2-2;Q9H2B2 Q9H2B2-2 SYT4 Synaptotagmin-4 5 0 S(0.971)S(0.971)T(0.865)S(0.345)LT(0.975)S(0.874)EEKQEK 44.299 0.021195 4188300 1648.3 1775.2 1339.6 1844.7 1655.7 2069.8 1627.9 1709.9 1446.5 1575.7 TRUE FALSE FALSE 1821.675757 1832.717645 1522.153712 1880.406836 1528.840624 1893.441396 1444.724408 1666.163234 1436.433689 1643.636138 1.108320579 1.115038543 0.926089221 1.144052988 0.930157587 1.151983308 0.878980678 1.013705646 0.873936545 1 10.68267524 -4.74996517 24.99996835 1.051197749 0.946343199 0.07713908 0.099769508 248.801698 542078.0325 0.010664814 0.039206949 1.78E-05 4.74996517 -0.10485455 S(ph)S(ph)YFVNS(ph)LFS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 SSYFVNSLFSK 11 0 I3L3R1;P17481 I3L3R1 HOXB8 Homeobox protein Hox-B8 4 0 S(0.923)S(0.934)Y(0.144)FVNS(0.999)LFS(1)K 50.102 0.019983 5375900 493.64 635.99 673.26 1316.6 595.04 635.24 642.05 862 850.13 477.08 TRUE FALSE FALSE 545.5633201 656.5964933 765.0083666 1342.084697 549.4481638 581.1139782 569.8048442 839.9512882 844.2138761 497.6492536 1.096280797 1.319396118 1.537244075 2.696848608 1.104087186 1.167717974 1.144992864 1.687837934 1.696403381 1 8.958985469 -7.084377568 2.615082619 1.043138573 1.547166378 0.017506798 0.47705072 0.330918409 4.417252507 0.075874664 0.095795032 8.23E-08 7.084377568 0.504027805 S(ph)SATLWNSPSR ddPTM_HeLa_SAHA_4h_R1 2 SSATLWNSPSR 11 0 Q3KQU3-4;Q3KQU3;C9JIR3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 S(0.995)S(0.005)ATLWNSPSR;S(0.982)S(0.018)ATLWNSPSR ; 151.16 0.00048038 19400800 298.07 426.1 322.13 496.1 522.86 368.386 569.64 356.44 483.68 549.14 TRUE FALSE FALSE 329.4223702 439.9059196 366.0281988 505.7027329 482.7985798 336.9974403 505.542608 347.3227809 480.3140315 572.8161128 0.575092709 0.767970575 0.638997735 0.882836082 0.842850906 0.588316971 0.882556542 0.606342547 0.838513479 1 9.161928265 -9.523988532 1.281966998 0.999901381 0.713489293 0.255576665 0.122828194 0.322154509 0.948449517 0.080092964 0.01923011 2.99E-10 9.523988532 -0.286412088 S(ph)SDEDAAGEPK ddPTM_HeLa_SAHA_4h_R1 2 SSDEDAAGEPK 11 0 E9PHH9;Q9BUI4 E9PHH9 POLR3C DNA-directed RNA polymerase III subunit RPC3 1 0 S(0.988)S(0.012)DEDAAGEPK;S(0.887)S(0.113)DEDAAGEPK ; 186.76 1.18E-06 38362000 4486.3 4591.8 3890.4 4481 5723.4 4798.7 7159.9 6722.7 4876.9 5431.4 TRUE FALSE FALSE 4958.189618 4740.577333 4420.563452 4567.736235 5284.874328 4389.823763 6354.249208 6550.743068 4842.961256 5665.574235 0.87514335 0.836733778 0.780249851 0.806226526 0.93280471 0.774824154 1.121554311 1.156236384 0.854805013 1 12.46800647 -4.668585439 7.545043858 0.901950002 1.145272316 0.656101849 0.076317908 0.135358017 9.461025922 0.012787327 0.048348845 2.14E-05 4.668585439 0.243322314 S(ph)SDEENGPPSS(ph)PDLDR ddPTM_HeLa_SAHA_4h_R1 1 SSDEENGPPSSPDLDR 16 0 Q96B36;Q96B36-2;Q96B36-3 Q96B36;Q96B36-3 AKT1S1 Proline-rich AKT1 substrate 1 2 0 S(0.991)S(0.009)DEENGPPS(0.014)S(0.986)PDLDR 280.01 4.08E-71 36347000 1791.2 2169.8 1534.1 1796 2218 2070.3 2397.3 1728.4 2312.4 1834.7 TRUE FALSE FALSE 1979.606634 2240.102944 1743.159159 1830.764177 2048.057319 1893.898793 2127.549495 1684.190031 2296.30782 1913.802896 1.03438376 1.170498252 0.91083526 0.956610621 1.070150601 0.989599711 1.111686841 0.88002272 1.199866415 1 10.90222654 S(ph)SDELDAWTDFR ddPTM_HeLa_SAHA_4h_R1 3 SSDELDAWTDFR 12 0 O43524;O43524-2 O43524 FOXO3 Forkhead box protein O3 1 0 S(0.98)S(0.02)DELDAWTDFR;S(0.998)S(0.002)DELDAWTDFR;S(0.991)S(0.009)DELDAWTDFR ;; 215.34 1.42E-15 6977000 822.53 1041.15 854.311 1054.98 1107.23 1011.54 1229.58 1301.07 1325.3 962.54 TRUE FALSE FALSE 909.0474793 1074.883943 970.732054 1075.400663 1022.394277 925.3511012 1091.224422 1267.790513 1316.077129 1004.03981 0.905389876 1.070559088 0.96682626 1.071073729 1.018280616 0.9216279 1.08683382 1.262689488 1.31078182 1 9.971600758 -4.398033194 2.735263742 0.974525101 1.279472866 0.117994425 0.119527807 0.149814065 1.743489478 0.008601033 0.087524949 4.00E-05 4.398033194 0.304947764 S(ph)SDGGSEEPPDRR ddPTM_HeLa_SAHA_4h_R1 1 SSDGGSEEPPDRR 13 1 Q9HCD6;Q9HCD6-2;Q9HCD6-3;Q9HCD6-4 Q9HCD6 TANC2 Protein TANC2 1 0 S(0.498)S(0.498)DGGS(0.003)EEPPDRR 132.31 0.00034589 2879300 231.19 155.25 247.9 303.5 340.13 315.43 298.03 424.81 388.18 258.91 TRUE FALSE FALSE 255.5076249 160.2802019 281.682521 309.3746814 314.0693129 288.5535894 264.49488 413.9439753 385.4786238 270.0728772 0.946069178 0.59347019 1.042987078 1.145522959 1.162905791 1.068428613 0.979346326 1.532712132 1.427313353 1 8.07720495 -6.521820848 24.99971781 0.939193177 1.153296936 0.107403077 0.233045176 41.30905468 976205.2444 0.026814592 0.038200616 3.01E-07 6.521820848 0.214103759 S(ph)SDIVSSVR ddPTM_HeLa_SAHA_4h_R1 2 SSDIVSSVR 9 0 Q14C86-4;Q14C86-5;Q14C86-2;Q14C86;Q14C86-6;F8W9S7;Q14C86-3;H0Y4E7;H0Y7I9;C9IZ08 Q14C86-4 GAPVD1 GTPase-activating protein and VPS9 domain-containing protein 1 1 0 S(0.961)S(0.039)DIVSSVR;S(0.968)S(0.032)DIVSSVR ; 183.85 1.50E-06 64262000 2014.81 2771.9 2397.7 1540.65 2384.1 2137.6 2851.9 2042.4 1600.28 2373.7 TRUE FALSE FALSE 2226.73696 2861.711379 2724.446069 1570.471509 2201.430773 1955.464454 2530.996706 1990.158365 1589.143521 2476.041824 0.899313145 1.155760517 1.100323122 0.634266955 0.889092725 0.78975421 1.02219465 0.803766054 0.641808028 1 11.27381997 -6.285983544 24.99898285 0.979810176 0.839903574 0.14022533 0.157598127 838.4851695 854020.9978 0.018410765 0.028130757 5.18E-07 6.285983544 -0.139906602 S(ph)SEDIIK ddPTM_HeLa_SAHA_4h_R1 1 SSEDIIK 7 0 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639 J3QSX6 ABLIM1 Actin-binding LIM protein 1 1 0 S(0.986)S(0.014)EDIIK 102.62 0.012073 7184100 2170.4 2629.5 1855 2257.3 2128.7 2424.5 2274.5 2277.1 2910.8 2269.7 TRUE FALSE FALSE 2398.69263 2714.697525 2107.78974 2300.993306 1965.599466 2217.91896 2018.567274 2218.855079 2890.543506 2367.557875 1.013150578 1.146623512 0.890280133 0.971884713 0.830222351 0.93679609 0.852594691 0.937191485 1.220896662 1 11.20918398 S(ph)SEDLAGPLPSSVSSSSTTSSKPK ddPTM_HeLa_SAHA_4h_R1 3 SSEDLAGPLPSSVSSSSTTSSKPK 24 1 Q9NRF2-3;Q9NRF2-2;Q9NRF2 Q9NRF2-3 SH2B1 SH2B adapter protein 1 1 0 S(0.5)S(0.5)EDLAGPLPSSVSSSSTTSSKPK;S(0.822)S(0.178)EDLAGPLPSSVSSSSTTSSKPK;S(0.763)S(0.237)EDLAGPLPSSVSSSSTTSSKPK ;; 194.26 1.69E-16 92760900 3490.79 4092.98 2908.73 3405.59 4159.97 3933.07 3838.22 3788.72 4413.76 3627.3 TRUE FALSE FALSE 3857.967309 4225.595238 3305.116576 3471.510119 3841.233997 3597.950309 3406.333384 3691.810028 4383.044285 3783.690655 1.019630742 1.116791943 0.873516595 0.917493113 1.015208258 0.950910272 0.90026741 0.975716665 1.158404501 1 11.88557843 -6.74586314 24.99999043 1.017593243 0.9401462 0.416202771 0.06598509 194.4548719 312100.9951 0.007641187 0.010785355 1.80E-07 6.74586314 -0.077447043 S(ph)SELLVR ddPTM_HeLa_SAHA_4h_R1 2 SSELLVR 7 0 Q9NSK0-5;Q9NSK0;Q9NSK0-3 Q9NSK0-5 KLC4 Kinesin light chain 4 1 0 S(0.986)S(0.014)ELLVR;S(0.999)S(0.001)ELLVR ; 141.52 0.00041707 15109800 2566.6 2658.6 2478.6 2423.2 3001.1 3052.5 2814 2546.3 2751.3 2398.7 TRUE FALSE FALSE 2836.566764 2744.740384 2816.3707 2470.10454 2771.156366 2792.409827 2497.361314 2481.169333 2732.153479 2502.119696 1.133665495 1.09696606 1.125593913 0.987204786 1.107523501 1.116017684 0.99809826 0.991626954 1.091935563 1 11.28893509 -4.696468491 9.9801878 1.071828951 0.994357541 0.327670967 0.048287956 0.482392642 70.1889614 0.008292733 0.031077874 2.01E-05 4.696468491 -0.077471411 S(ph)SENLSLDDCNK ddPTM_HeLa_SAHA_4h_R1 2 SSENLSLDDCNK 12 0 Q96T17-2;Q96T17;Q96T17-5;Q96T17-4 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 S(0.979)S(0.019)ENLS(0.001)LDDCNK;S(0.984)S(0.016)ENLSLDDCNK ; 176.43 4.12E-05 9953500 3575.7 4053.7 3675.2 3320.9 4386.1 4581.2 3837.3 3750 4801.7 4428.4 TRUE FALSE FALSE 3951.808532 4185.04254 4176.037116 3385.180822 4050.037966 4190.855987 3405.516905 3654.08043 4768.284579 4619.329996 0.855493878 0.905984752 0.904035243 0.732829398 0.876758744 0.907243256 0.737231786 0.791041219 1.032245928 1 12.1734679 -13.52287875 0.116183195 1.562692654 0.741332099 0.628482126 0.057764658 51.31028112 0.433409695 6.788464605 0.301836871 3.00E-14 13.52287875 -0.821360555 S(ph)SGCDVNLPGVNVK ddPTM_HeLa_SAHA_4h_R1 1 SSGCDVNLPGVNVK 14 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 S(0.5)S(0.5)GCDVNLPGVNVK 85.837 0.0084283 0 657.73 680.32 517.24 517.15 717.65 818.63 571 747.16 760.08 671.85 TRUE FALSE FALSE 726.9130592 702.3628144 587.7267735 527.1601861 662.663812 748.8781185 506.7495772 728.0487291 754.7905414 700.8167415 1.037237007 1.002206102 0.838631184 0.752208323 0.945559335 1.068579094 0.723084292 1.038857502 1.077015569 1 9.452893429 -6.849241046 6.804445877 1.01752254 0.890689545 0.279413152 0.105319482 0.219354575 14.25408439 0.015886058 0.020959085 1.42E-07 6.849241046 -0.126832994 S(ph)SGDPEQIKEDSLSEESADAR ddPTM_HeLa_SAHA_4h_R1 2 SSGDPEQIKEDSLSEESADAR 21 1 Q9BVS4-2;Q9BVS4 Q9BVS4-2 RIOK2 Serine/threonine-protein kinase RIO2 1 0 S(0.933)S(0.067)GDPEQIKEDSLSEESADAR;S(0.781)S(0.219)GDPEQIKEDSLSEESADAR ; 87.748 0.00041783 12124800 1356.95 1776.97 1217.89 1231.23 1435.53 1833.09 1945 1946.89 1766.56 1485.53 TRUE FALSE FALSE 1499.680227 1834.544994 1383.857707 1255.062237 1325.540002 1676.900419 1726.143481 1897.091373 1754.266365 1549.578468 0.967798829 1.183899384 0.893054295 0.80993784 0.855419734 1.08216554 1.113943899 1.224262864 1.132092631 1 10.5976601 -4.801144988 2.331453004 0.972279111 1.193358581 0.325243055 0.111395456 0.244728247 2.563158438 0.014631996 0.070081493 1.58E-05 4.801144988 0.22107947 S(ph)SGFISELPSEEGK ddPTM_HeLa_SAHA_4h_R1 1 SSGFISELPSEEGK 14 0 Q5VZK9;Q5VZK9-2;A0A0U1RQQ1 Q5VZK9 LRRC16A Leucine-rich repeat-containing protein 16A 1 0 S(1)SGFISELPSEEGK 370.66 5.98E-179 17300000 1656.1 1820.7 1862.1 1628.3 2133.8 2155.6 2100.6 2297.4 1659 1866 TRUE FALSE FALSE 1830.296196 1879.691875 2115.857291 1659.818101 1970.308705 1971.930753 1864.23496 2238.635835 1647.454884 1946.452392 0.940324153 0.965701438 1.087032644 0.852740148 1.012256304 1.01308964 0.957760368 1.150110757 0.846388481 1 10.92663134 -4.257860861 24.54669846 0.975373275 1.150110843 0.379106759 0.070117997 178.2549861 1222661.095 0.007352673 0.072055895 5.52E-05 4.257860861 0.174737568 S(ph)SGGGYGGGPAGGHGGNR ddPTM_HeLa_SAHA_4h_R1 1 SSGGGYGGGPAGGHGGNR 18 0 Q9H2U1-3;Q9H2U1-2;Q9H2U1 Q9H2U1-3 DHX36 ATP-dependent RNA helicase DHX36 1 0 S(0.869)S(0.131)GGGYGGGPAGGHGGNR 116.87 0.00014191 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 S(ph)SGGREDLESSGLQR ddPTM_HeLa_SAHA_4h_R1 1 SSGGREDLESSGLQR 15 1 Q9UK76;J3KT51;Q9UK76-3;Q9UK76-2;J3KSH8 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 1 0 S(0.867)S(0.132)GGREDLES(0.001)SGLQR 68.243 0.017701 46552000 786.04 772.22 918.9 804.16 839.68 830.67 876.55 829.75 706.88 785.03 TRUE FALSE FALSE 868.7192937 797.2404347 1044.122907 819.7256796 775.3438998 759.8922428 777.918287 808.5261965 701.9607645 818.8764851 1.06086731 0.973578371 1.275067639 1.001037024 0.946838643 0.927969305 0.949982447 0.987360379 0.85722423 1 9.67750205 -5.998956901 24.73683915 1.045461573 0.953892451 0.122482634 0.098732307 36.53005612 866243.3177 0.011725021 0.021128572 1.00E-06 5.998956901 -0.091569122 S(ph)SGKTPETLVPTAPK ddPTM_HeLa_SAHA_4h_R1 1 SSGKTPETLVPTAPK 15 1 Q14676;Q14676-2 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 1 0 S(0.424)S(0.424)GKT(0.145)PET(0.006)LVPTAPK 73.76 0.012993 2323000 1811.1 1298.2 1203.6 1223.8 1443.2 1639.7 1388.4 1275.2 1589.1 1730.8 TRUE FALSE FALSE 2001.599808 1340.262532 1367.62034 1247.488419 1332.622328 1499.988335 1232.173578 1242.58223 1578.041324 1805.423258 1.108659589 0.742353642 0.757506769 0.690967291 0.738121835 0.830823647 0.682484604 0.688249819 0.874056162 1 10.81812138 -7.254130426 24.87884291 1.051311474 0.73428564 0.712322169 0.073456698 122.8427853 418143.0435 0.009426471 0.011421118 5.57E-08 7.254130426 -0.317025834 S(ph)SGNSPTPVSR ddPTM_HeLa_SAHA_4h_R1 1 SSGNSPTPVSR 11 0 H0YBT1;O95429-2;O95429 H0YBT1 BAG4 BAG family molecular chaperone regulator 4 1 0 S(0.954)S(0.015)GNS(0.031)PTPVSR 126.5 0.0016416 109640000 3497.5 3627.3 3375 4017 4186.6 4366.3 4216.4 4211.2 4323.5 3787.7 TRUE FALSE FALSE 3865.383097 3744.8269 3834.927424 4094.754844 3865.823612 3994.266676 3741.959575 4103.483602 4293.412411 3951.006284 0.978328765 0.947815982 0.970620431 1.036382772 0.978440259 1.010949209 0.947090262 1.038592021 1.086663018 1 11.94800443 S(ph)SGPTSLFAVTVAPPGAR ddPTM_HeLa_SAHA_4h_R1 1 SSGPTSLFAVTVAPPGAR 18 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;A0A1W2PP22 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 1 0 S(0.978)S(0.004)GPT(0.018)S(0.001)LFAVTVAPPGAR 163.34 4.63E-06 3180200 225.9 259.36 205.85 284.93 211.75 337.43 259.59 149.38 485.28 290.61 TRUE FALSE FALSE 249.6611985 267.7634342 233.902166 290.4452322 195.5257607 308.6790657 230.38025 145.5590759 481.902897 303.1396193 0.823584852 0.883300688 0.771598798 0.958123629 0.64500233 1.018273581 0.759980667 0.480171732 1.589706084 1 8.24383861 -1.548412205 0.131631951 1.022877309 3.01E-35 0.284059114 0.237227943 62.08127308 0.629919152 0.434942269 11.60078904 0.028287059 1.548412205 -1.022877309 S(ph)SGPYGGGGQYFAK ddPTM_HeLa_SAHA_4h_R1 2 SSGPYGGGGQYFAK 14 0 F8W6I7;P09651-2;P09651;P09651-3;Q32P51;H0YH80 F8W6I7 HNRNPA1;HNRNPA1L2 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed;Heterogeneous nuclear ribonucleoprotein A1-like 2" 1 0 S(0.909)S(0.091)GPYGGGGQYFAK;S(0.914)S(0.086)GPYGGGGQYFAK ; 108.23 0.0025999 4864400 997.93 1324.35 1119.01 1324.87 1900.5 1868.49 1339.1 1289.89 2102.04 1411.53 TRUE FALSE FALSE 1102.896856 1367.259809 1271.502855 1350.514775 1754.884101 1709.28414 1188.420944 1256.896482 2087.411732 1472.387966 0.749053158 0.928600233 0.863565096 0.917227528 1.191862567 1.160892495 0.807138452 0.853644902 1.417704967 1 10.52394215 -5.983709529 24.99227088 0.881931413 1.007358522 0 0.210355841 377.7067168 579461.0839 0.021723146 0.039369022 1.04E-06 5.983709529 0.12542711 S(ph)SGPYGGGGQYFAKPR ddPTM_HeLa_SAHA_4h_R1 3 SSGPYGGGGQYFAKPR 16 1 F8W6I7;P09651-2;P09651;P09651-3;H0YH80 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 S(0.498)S(0.498)GPY(0.004)GGGGQYFAKPR;S(0.877)S(0.123)GPYGGGGQYFAKPR;S(0.93)S(0.062)GPY(0.008)GGGGQYFAKPR ;; 159.44 2.78E-06 24873500 2793.5 3354.98 2951.63 3779.93 3502.7 3686.34 3938.3 3516.62 3469.6 3509.74 TRUE FALSE FALSE 3087.333147 3463.683553 3353.862765 3853.096011 3234.323883 3372.243093 3495.152119 3426.669952 3445.454771 3661.062068 0.843288939 0.946087089 0.916090113 1.05245307 0.883438692 0.921110604 0.954682563 0.935977017 0.941107992 1 11.83804652 S(ph)SGREEDDEELLR ddPTM_HeLa_SAHA_4h_R1 1 SSGREEDDEELLR 13 1 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639;A0A494C1P1;A0A494C1G0 J3QSX6 ABLIM1 Actin-binding LIM protein 1 1 0 S(0.5)S(0.5)GREEDDEELLR 158.52 0.00029566 20802000 947.11 925.43 780.67 972.22 1146.1 1343.8 879.14 960.72 1019 739.12 TRUE FALSE FALSE 1046.731375 955.4145392 887.055642 991.038724 1058.286066 1229.30068 780.2168534 936.1461735 1011.908696 770.9870804 1.357650993 1.239209532 1.150545404 1.285415475 1.372637872 1.594450428 1.011971372 1.214217718 1.312484634 1 9.590562874 -9.387273303 0.971436623 0.98998545 1.284050741 0 0.173069539 0.554109054 0.883293869 0.119490495 0.026753327 4.10E-10 9.387273303 0.294065291 S(ph)SGRIS(ph)DVFLCRHEK ddPTM_HeLa_SAHA_4h_R1 1 SSGRISDVFLCRHEK 15 2 F5GWN5;O00750 F5GWN5 PIK3C2B Phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit beta 2 0 S(0.546)S(0.546)GRIS(0.908)DVFLCRHEK 75.462 0.015469 10651000 1888.2 3523.8 2742.8 903.6 2326.5 2013.1 2639.7 1068.7 1769 3249.4 TRUE FALSE FALSE 2086.809539 3637.973432 3116.5745 921.0904846 2148.244073 1841.572555 2342.674009 1041.364201 1756.689385 3389.497536 0.615669289 1.07330759 0.919479795 0.271748386 0.633794257 0.543317272 0.691156723 0.307232618 0.518274277 1 11.72685571 -6.280322097 24.94444973 0.843948119 0.511667543 0.417097577 0.197059781 595.0848619 786117.6952 0.030061357 0.045966301 5.24E-07 6.280322097 -0.332280575 S(ph)SGRNSPSAASTSSNDSK ddPTM_HeLa_SAHA_4h_R1 1 SSGRNSPSAASTSSNDSK 18 1 A0A590UJ84;B1AKN3;Q9P2R6-2;Q9P2R6;D6RA28 A0A590UJ84 RERE Arginine-glutamic acid dipeptide repeats protein 1 0 S(0.667)S(0.155)GRNS(0.157)PS(0.021)AASTSSNDSK 61.52 0.014071 265110 0 0 0 0 0 0 53.706 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 47.66285953 0 0 0 0 S(ph)SGSETEQVVDFSDR ddPTM_HeLa_SAHA_4h_R1 1 SSGSETEQVVDFSDR 15 0 O95251-4;O95251;O95251-2 O95251-4 KAT7 Histone acetyltransferase KAT7 1 0 S(0.974)S(0.01)GS(0.016)ETEQVVDFSDR 242.1 1.85E-33 6019800 426.9 341.34 504.49 419.46 750.79 765.33 656.52 492.57 506.44 539.99 TRUE FALSE FALSE 471.8033007 352.39964 573.2392699 427.5792548 693.2646324 700.1195784 582.6466417 479.9707726 502.9156428 563.2716115 0.837612425 0.625630038 1.017696007 0.7590996 1.230782127 1.242952004 1.034397313 0.852112485 0.892847487 1 9.137686952 -5.761190878 24.99999964 0.894325558 1.097005783 0.354973279 0.149391545 6.812358705 685206.9963 0.023038114 0.043873204 1.73E-06 5.761190878 0.202680225 S(ph)SGSPYGGGYGSGGGSGGYGSR ddPTM_HeLa_SAHA_4h_R1 4 SSGSPYGGGYGSGGGSGGYGSR 22 0 P51991;P51991-2;H7C1J8 P51991 HNRNPA3 Heterogeneous nuclear ribonucleoprotein A3 1 0 S(0.333)S(0.333)GS(0.333)PYGGGYGSGGGSGGYGSR;S(0.475)S(0.05)GS(0.475)PYGGGYGSGGGSGGYGSR;S(0.333)S(0.333)GS(0.333)PYGGGYGSGGGSGGYGSR;S(0.624)S(0.007)GS(0.369)PYGGGYGSGGGSGGYGSR ;;; 285.76 6.66E-112 421517600 6004.77 5881.91 5250.31 6129.5 6334 7056.08 6627.82 6729.68 6834.54 6329.71 TRUE FALSE FALSE 6636.379259 6072.487743 5965.794904 6248.145336 5848.690288 6454.862288 5882.04025 6557.54453 6786.97788 6602.614775 1.005113805 0.919709532 0.903550352 0.946313779 0.885814255 0.977622125 0.890865278 0.993173879 1.027922741 1 12.68882176 -7.264656829 24.50756219 1.002414854 0.929050514 0.534332326 0.033908399 110.6580487 842889.8588 0.00488551 0.00571561 5.44E-08 7.264656829 -0.07336434 S(ph)SIEDAQCPGLPDLIEENHVVNK ddPTM_HeLa_SAHA_4h_R1 2 SSIEDAQCPGLPDLIEENHVVNK 23 0 Q15398-1;Q15398;Q15398-3 Q15398-1 DLGAP5 Disks large-associated protein 5 1 0 S(0.5)S(0.5)IEDAQCPGLPDLIEENHVVNK;S(0.5)S(0.5)IEDAQCPGLPDLIEENHVVNK ; 169.44 1.26E-08 19676100 3466.5 3981.4 2576.9 3478.2 4250.2 5037.1 4357 4367.1 5974 4474.9 TRUE FALSE FALSE 3831.122375 4110.399972 2928.066512 3545.525591 3924.550594 4607.910742 3866.738893 4255.395905 5932.426448 4667.834839 0.820749343 0.880579565 0.6272858 0.759565347 0.840764665 0.987162336 0.828379544 0.911642347 1.2709161 1 12.1885378 -9.119318006 0.854425507 1.00124433 0.829765442 0.39824765 0.126081383 0.602080422 0.78622418 0.065027901 0.018463856 7.60E-10 9.119318006 -0.171478888 S(ph)SITEPEGPNGPNIQK ddPTM_HeLa_SAHA_4h_R1 1 SSITEPEGPNGPNIQK 16 0 Q13625-2;Q13625;Q13625-3 Q13625-2 TP53BP2 Apoptosis-stimulating of p53 protein 2 1 0 S(0.942)S(0.056)IT(0.003)EPEGPNGPNIQK 288.12 1.18E-72 9837900 753.66 809.84 661 693.54 940.05 1113.1 903.01 587.41 1077.2 666.24 TRUE FALSE FALSE 832.9334167 836.0793474 751.0776377 706.9644696 868.0235721 1018.257618 801.4009382 572.3849028 1069.703677 694.9648669 1.198525935 1.203052682 1.080741881 1.017266488 1.249017919 1.465192942 1.153153168 0.823617035 1.539219791 1 9.440796236 -9.349235078 0.987812746 0.996602112 1.160639012 0 0.229706454 1.009552157 1.705252244 0.120366923 0.028984141 4.47E-10 9.349235078 0.1640369 S(ph)SLETLEDIEENAPLRR ddPTM_HeLa_SAHA_4h_R1 4 SSLETLEDIEENAPLRR 17 1 V9GYB4;Q8TDN4-2;Q8TDN4 V9GYB4 CABLES1 CDK5 and ABL1 enzyme substrate 1 1 0 S(0.499)S(0.499)LET(0.003)LEDIEENAPLRR;S(0.808)S(0.168)LET(0.024)LEDIEENAPLRR;S(0.476)S(0.476)LET(0.049)LEDIEENAPLRR;S(0.491)S(0.098)LET(0.411)LEDIEENAPLRR ;;; 166.21 1.27E-06 13822400 950.86 1082.72 868.91 566.58 1218.27 886.43 1118.63 815.35 932.68 1443.11 TRUE FALSE FALSE 1050.875818 1117.800838 987.3205297 577.5469752 1124.926416 810.9011771 992.7588083 794.4945276 926.1894039 1505.329535 0.698103501 0.742562218 0.655883318 0.383668135 0.747295785 0.538686818 0.659496001 0.527787776 0.615273522 1 10.55586363 -8.845429155 0.349044469 1.103771705 0.564138799 0.029608128 0.153232216 0.883091731 0.180494139 0.187680392 0.045514616 1.43E-09 8.845429155 -0.539632906 S(ph)SLGSHQLPR ddPTM_HeLa_SAHA_4h_R1 1 SSLGSHQLPR 10 0 O95817;C9JFK9 O95817 BAG3 BAG family molecular chaperone regulator 3 1 0 S(0.785)S(0.215)LGS(0.001)HQLPR 107.34 0.006474 14442000 781.97 932.59 665.63 927.58 1614.2 1586.1 1152 1187.2 1105.5 1024.3 TRUE FALSE FALSE 864.2211924 962.8065279 756.3385899 945.5346522 1490.520345 1450.955357 1022.373928 1156.833143 1097.806735 1068.462586 0.808845536 0.901113938 0.707875596 0.884948771 1.395014074 1.357984244 0.95686451 1.082708144 1.0274639 1 10.06132067 -5.78914508 24.60011283 0.888542088 1.192325805 0.526647212 0.143829196 114.2447556 101438.5557 0.022475097 0.04074678 1.63E-06 5.78914508 0.303783717 S(ph)SLGSLQT(ph)PEAVTTR ddPTM_HeLa_SAHA_4h_R1 2 SSLGSLQTPEAVTTR 15 0 C9J6P4;Q7Z2W4;Q7Z2W4-3;Q7Z2W4-2 C9J6P4 ZC3HAV1 Zinc finger CCCH-type antiviral protein 1 2 0 S(0.941)S(0.059)LGS(0.013)LQT(0.987)PEAVT(0.001)TR;S(0.809)S(0.189)LGS(0.006)LQT(0.996)PEAVTTR ; 149.31 0.0016375 15751100 2271.56 2028.55 1768.3 2206.64 2203.76 3123.55 2463.54 2224.39 2031.46 2065.76 TRUE FALSE FALSE 2510.493103 2094.276351 2009.274715 2249.352708 2034.908385 2857.405967 2186.335996 2167.493325 2017.322904 2154.825023 1.165056594 0.971900887 0.932453769 1.043867917 0.94434971 1.326050114 1.014623448 1.00587904 0.936188731 1 11.07335501 -4.558787986 24.99991031 1.066553947 1.008061605 0 0.118684837 450.1134203 313366.647 0.01604713 0.060043432 2.76E-05 4.558787986 -0.058492342 S(ph)SLGSLQTPEAVTTR ddPTM_HeLa_SAHA_4h_R1 1 SSLGSLQTPEAVTTR 15 0 C9J6P4;Q7Z2W4;Q7Z2W4-3;Q7Z2W4-2 C9J6P4 ZC3HAV1 Zinc finger CCCH-type antiviral protein 1 1 0 S(0.978)S(0.02)LGS(0.002)LQTPEAVTTR 190.18 5.53E-09 17240000 1396.7 1410.2 1152 1684.8 1538.5 1331.8 1375.5 1850.1 1351.9 1533.7 TRUE FALSE FALSE 1543.611314 1455.891405 1308.988561 1717.41174 1420.620462 1218.323147 1220.72512 1802.777121 1342.492018 1599.825313 0.964862415 0.910031485 0.818207182 1.073499542 0.887984739 0.761535111 0.763036508 1.12685873 0.839149129 1 10.64369867 -7.460870924 0.76485795 0.994334811 0.891587135 0 0.123417328 0.904270063 1.116788323 0.030146557 0.031591811 3.46E-08 7.460870924 -0.102747676 S(ph)SLS(ph)GDEEDELFK ddPTM_HeLa_SAHA_4h_R1 1 SSLSGDEEDELFK 13 0 Q5T1M5;Q5T1M5-2 Q5T1M5 FKBP15 FK506-binding protein 15 2 0 S(0.944)S(0.056)LS(1)GDEEDELFK 134.4 0.0066091 5558700 2952.9 3344.2 2815.8 3190.8 3761.5 4077.7 3740.7 3608.5 3857 3636.9 TRUE FALSE FALSE 3263.49957 3452.554274 3199.52256 3252.562548 3473.294683 3730.257019 3319.786591 3516.199795 3830.158823 3793.704558 0.860240833 0.910074631 0.84337684 0.857357893 0.91554169 0.983275572 0.875077788 0.926851246 1.009609147 1 11.88939161 -9.403910595 1.097403139 1.000764705 0.893707366 0.543530182 0.039365641 0.35183136 0.749208811 0.029168214 0.007203417 3.95E-10 9.403910595 -0.107057339 S(ph)SLSGDEEDELFK ddPTM_HeLa_SAHA_4h_R1 2 SSLSGDEEDELFK 13 0 Q5T1M5;Q5T1M5-2 Q5T1M5 FKBP15 FK506-binding protein 15 1 0 S(0.909)S(0.091)LS(0.001)GDEEDELFK;S(0.498)S(0.498)LS(0.004)GDEEDELFK ; 277.82 2.49E-55 78840000 3754 4179.9 3093.3 3955.3 5108 4924.3 5165.8 4709 4838.2 4032 TRUE FALSE FALSE 4148.862944 4315.331503 3514.838815 4031.860551 4716.626144 4504.721937 4584.530588 4588.550599 4804.530572 4205.839252 0.986453047 1.026033389 0.835704506 0.958634011 1.121447079 1.071063744 1.090039422 1.090995239 1.142347647 1 12.038178 -5.763864054 24.99924681 0.980812673 1.091552837 0.320071225 0.071695735 39.40141319 406248.8966 0.00767453 0.014398432 1.72E-06 5.763864054 0.110740164 S(ph)SLYGIAK ddPTM_HeLa_SAHA_4h_R1 1 SSLYGIAK 8 0 Q5VZ89-3;Q5VZ89;Q5VZ89-7;X6RAE7;Q5VZ89-5 Q5VZ89-3 DENND4C DENN domain-containing protein 4C 1 0 S(0.5)S(0.5)LYGIAK 109.66 0.0065534 9617600 2972.3 2809.1 2718.6 2925.9 3401.3 3241.5 4282.5 3986.3 2551.8 3002.6 TRUE FALSE FALSE 3284.940151 2900.116683 3089.07665 2982.535025 3140.693129 2965.305964 3800.621829 3884.336218 2534.041816 3132.05678 1.048812452 0.925946394 0.986277346 0.952260842 1.002757405 0.946759964 1.213458789 1.240187037 0.809066372 1 11.61289465 -4.749895684 24.37432628 1.00335486 1.226823173 0.654481809 0.072305267 49.33220081 104161.2125 0.006085695 0.022358738 1.78E-05 4.749895684 0.223468314 S(ph)SMEMEGIFNHK ddPTM_HeLa_SAHA_4h_R1 6 SSMEMEGIFNHK 12 0 E7EPJ7;O75962-5;O75962-4;O75962;E7EWP2;O75962-2 E7EPJ7 TRIO Triple functional domain protein 1 0 S(0.5)S(0.5)MEMEGIFNHK;S(0.524)S(0.476)MEMEGIFNHK;S(0.697)S(0.303)MEMEGIFNHK;S(0.5)S(0.5)MEMEGIFNHK;S(0.912)S(0.088)MEMEGIFNHK;S(0.665)S(0.335)MEMEGIFNHK ;;;;; 150.14 0.00037045 79544900 10333.3 12539.4 9697.9 12075.1 13661.7 14020.5 13582.3 11783.6 12969.9 10935.6 TRUE FALSE FALSE 11420.2039 12945.68479 11019.47931 12308.83102 12614.9435 12825.87452 12053.98386 11482.19257 12879.64141 11407.08723 1.00114987 1.134880844 0.966020429 1.079051187 1.105886476 1.124377701 1.056710062 1.006584095 1.129091165 1 13.47764283 -7.442370375 24.99415772 1.000507187 1.067450461 0 0.063278503 91.14198513 28294.86918 0.008008803 0.009158383 3.61E-08 7.442370375 0.066943273 S(ph)SPAAFINPPIGTVTPALK ddPTM_HeLa_SAHA_4h_R1 2 SSPAAFINPPIGTVTPALK 19 0 F6VRR5;Q9BY77-2;Q9BY77;Q6R954;F8WEE2;Q8WUT1;F8WCX5 F6VRR5 POLDIP3;PDIP46 Polymerase delta-interacting protein 3 1 0 S(0.5)S(0.5)PAAFINPPIGTVTPALK;S(0.5)S(0.5)PAAFINPPIGTVTPALK ; 225.01 2.62E-32 16359000 1021.83 1051.44 716.96 1122.24 1058.05 1174.02 1239.66 1345.44 1099.12 764.45 TRUE FALSE FALSE 1129.310768 1085.507346 814.663575 1143.962578 976.9824376 1073.986891 1100.170194 1311.025593 1091.471134 797.4091806 1.416224938 1.361292762 1.021638068 1.434599207 1.225195873 1.346845405 1.379680873 1.64410647 1.368771718 1 9.639176405 -11.88261589 0.300809784 1.43E-14 1.380450055 0 0.18877581 12.86480947 0.417845548 7.837620606 0.065243092 1.31E-12 11.88261589 1.380450055 S(ph)SPAFGDRR ddPTM_HeLa_SAHA_4h_R1 1 SSPAFGDRR 9 1 P13716;P13716-2 P13716 ALAD Delta-aminolevulinic acid dehydratase 1 0 S(0.5)S(0.5)PAFGDRR 152.04 0.00017985 6319300 262.41 292.36 464.99 304.69 387.1 519.87 455.96 330.41 310.26 357.89 TRUE FALSE FALSE 290.0114878 301.8326558 528.3564156 310.5877155 357.4404816 475.5741513 404.6541808 321.9585906 308.1008754 373.3203894 0.776843419 0.80850836 1.415289469 0.831960226 0.957463058 1.273903502 1.083932708 0.862418983 0.825298816 1 8.544270495 S(ph)SPAPHSGPCPSR ddPTM_HeLa_SAHA_4h_R1 3 SSPAPHSGPCPSR 13 0 P85299-2;P85299-4;P85299-3;P85299;P85299-5 P85299-2 PRR5 Proline-rich protein 5 1 0 S(0.5)S(0.5)PAPHSGPCPSR;S(0.5)S(0.5)PAPHSGPCPSR;S(0.5)S(0.5)PAPHSGPCPSR ;; 111.81 0.0017702 4686000 1180.63 1369.65 873.89 1434.64 1762 2044.39 1645.61 1760.59 1506.75 1576.18 TRUE FALSE FALSE 1304.81408 1414.027559 992.9791782 1462.409532 1626.995941 1870.196471 1460.441632 1715.556657 1496.264404 1644.136833 0.793616476 0.860042504 0.603951665 0.889469478 0.989574534 1.137494418 0.888272559 1.0434391 0.910060753 1 10.68311466 -5.743107501 4.746739382 0.870690126 1.016628351 0.343991486 0.112976673 0.23418201 13.13259126 0.019267961 0.038052642 1.81E-06 5.743107501 0.145938225 S(ph)SPATSLFVELDEEEVK ddPTM_HeLa_SAHA_4h_R1 1 SSPATSLFVELDEEEVK 17 0 A0A087WTL4;A0A087WX97;Q9BXK5-4;Q9BXK5 A0A087WTL4 BCL2L13 Bcl-2-like protein 13 1 0 S(0.498)S(0.498)PAT(0.003)S(0.001)LFVELDEEEVK 131.61 0.00011463 1255700 123.62 384.08 211.93 0 298.41 265.6 231.56 261.65 255.95 139.43 TRUE FALSE FALSE 136.6229188 396.524444 240.8107167 0 275.5458903 242.9693858 205.5042594 254.9573719 254.1688231 145.4415097 0.939366754 2.726349891 1.655722065 0 1.894547787 1.670564245 1.412968415 1.752989036 1.747567278 1 7.184295269 S(ph)SPELLPSGVTDENEVTTAVTEK ddPTM_HeLa_SAHA_4h_R1 2 SSPELLPSGVTDENEVTTAVTEK 23 0 B1AUU8;P42566;P42566-2 B1AUU8 EPS15 Epidermal growth factor receptor substrate 15 1 0 S(0.5)S(0.5)PELLPSGVTDENEVTTAVTEK;S(0.5)S(0.5)PELLPSGVTDENEVTTAVTEK ; 161.04 8.34E-08 18973600 5393.9 7981.3 6656.4 6767.8 7116.1 8982 7954.8 6717.5 9007.1 6962.1 TRUE FALSE FALSE 5961.25515 8239.899357 7563.499527 6898.800555 6570.865955 8216.683069 7059.704968 6545.676077 8944.418858 7262.270203 0.820852844 1.134617568 1.041478672 0.949950961 0.904795026 1.131420732 0.972107175 0.90132643 1.231628486 1 12.82620489 -7.276393627 24.97772865 0.915402738 1.004109325 0 0.132331818 1139.440562 1903177.242 0.016997493 0.019479542 5.29E-08 7.276393627 0.088706588 S(ph)SPELTR ddPTM_HeLa_SAHA_4h_R1 1 SSPELTR 7 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.942)S(0.058)PELTR 141.52 0.00041707 147950000 1178.1 1563.8 1208 1493.9 1474.8 1866.4 1373.3 1142.5 1918.8 1740.9 TRUE FALSE FALSE 1302.017963 1614.468146 1372.619949 1522.816595 1361.801143 1707.37222 1218.77267 1113.276504 1905.446915 1815.958719 0.716986543 0.889044519 0.755865172 0.838574456 0.749907544 0.940204313 0.671145581 0.613051659 1.049278761 1 10.82651569 -9.410793303 0.903528508 1.014167341 0.773431635 0.528754118 0.094398309 0.494075694 0.650112976 0.085194779 0.017108138 3.88E-10 9.410793303 -0.240735706 S(ph)SPEQPRPSTSK ddPTM_HeLa_SAHA_4h_R1 2 SSPEQPRPSTSK 12 1 P29590;P29590-4;P29590-5;P29590-9;P29590-3;P29590-8;H3BVD2;H3BRN3;P29590-11;H3BT57;P29590-12;P29590-13;H3BUJ5;P29590-2 P29590;P29590-11;P29590-2 PML Protein PML 1 0 S(0.859)S(0.141)PEQPRPSTSK;S(0.988)S(0.012)PEQPRPSTSK ; 215.02 6.55E-15 439640000 8907.9 9252.9 8800.7 9155.7 9490.2 10577.3 9867.7 9744.3 9477.9 8849.3 TRUE FALSE FALSE 9844.873793 9552.700031 10000.01356 9332.921813 8763.062926 9676.054534 8757.360426 9495.054916 9411.942522 9230.83663 1.066520207 1.03486828 1.083326893 1.011059147 0.949324885 1.048231587 0.948707119 1.028623439 1.019619662 1 13.1722457 -6.005630458 24.98954147 1.036547904 0.992623989 0.27570583 0.035921328 295.2476812 1310404.848 0.005606594 0.009949045 9.87E-07 6.005630458 -0.043923916 S(ph)SPGAGPSDHHSASR ddPTM_HeLa_SAHA_4h_R1 2 SSPGAGPSDHHSASR 15 0 I3VM54;Q9Y2K7-3;Q9Y2K7;Q9Y2K7-4;Q9Y2K7-5;Q9Y2K7-2 I3VM54 KDM2A Lysine-specific demethylase 2A 1 0 S(0.5)S(0.5)PGAGPSDHHSASR;S(0.5)S(0.5)PGAGPSDHHSASR ; 93.812 0.0051723 350050 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 S(ph)SPGAVAGLSNAPGTPR ddPTM_HeLa_SAHA_4h_R1 2 SSPGAVAGLSNAPGTPR 17 0 V9GYB2;U3KPY3;Q9BWG4-2;Q9BWG4 V9GYB2 SSBP4 Single-stranded DNA-binding protein 4 1 0 S(0.555)S(0.445)PGAVAGLSNAPGTPR;S(0.541)S(0.459)PGAVAGLSNAPGTPR ; 195.28 1.15E-27 23318000 919.95 906.66 766.29 1011.85 1192.06 1386.73 1024.31 1171.4 1179.05 863.02 TRUE FALSE FALSE 1016.714562 936.0363789 870.7160105 1031.43582 1100.72462 1268.572802 909.051943 1141.437284 1170.844895 900.2290157 1.129395458 1.039775838 0.967216114 1.145748251 1.222716221 1.409166757 1.009800759 1.267941006 1.300607817 1 9.814148255 -5.990185907 4.280881797 1.054108974 1.222799597 0.190964713 0.126309775 0.166358103 7.357939767 0.015134488 0.027250807 1.02E-06 5.990185907 0.168690623 S(ph)SPGGQDEGGFMAQGK ddPTM_HeLa_SAHA_4h_R1 3 SSPGGQDEGGFMAQGK 16 0 A0A1B0GTU4;F5GZ78;P49023;A0A1B0GV30 A0A1B0GTU4 PXN Paxillin 1 0 S(0.5)S(0.5)PGGQDEGGFMAQGK;S(0.5)S(0.5)PGGQDEGGFMAQGK;S(0.5)S(0.5)PGGQDEGGFMAQGK ;; 120.86 0.00067113 17026600 3609.82 4525.06 3505.29 4070.14 4328.65 5270.75 4191.8 4304.73 5322.58 3968.42 TRUE FALSE FALSE 3989.51743 4671.674913 3982.972666 4148.923445 3996.989772 4821.652448 3720.127632 4194.62124 5285.539732 4139.518007 0.963763758 1.128555282 0.962182713 1.002272109 0.965568882 1.164785958 0.898686182 1.013311509 1.276849074 1 12.01524708 S(ph)SPGQPEAGPEGAQERPSQAAPAVEAEGPGSSQAPR ddPTM_HeLa_SAHA_4h_R1 4 SSPGQPEAGPEGAQERPSQAAPAVEAEGPGSSQAPR 36 1 P40222 P40222 TXLNA Alpha-taxilin 1 0 S(0.552)S(0.448)PGQPEAGPEGAQERPSQAAPAVEAEGPGSSQAPR;S(0.764)S(0.236)PGQPEAGPEGAQERPSQAAPAVEAEGPGSSQAPR;S(0.5)S(0.5)PGQPEAGPEGAQERPSQAAPAVEAEGPGSSQAPR;S(0.733)S(0.266)PGQPEAGPEGAQERPS(0.001)QAAPAVEAEGPGSSQAPR ;;; 144.37 4.75E-21 115731800 162.3 462.81 419.736 208.511 340.72 1041.04 416.94 609.67 352.25 624.83 TRUE FALSE FALSE 179.3714587 477.8053477 476.9354362 212.5470319 314.6141072 952.3375353 370.0248139 594.0755242 349.7986636 651.7694791 0.275206901 0.733089479 0.731754787 0.326107679 0.48270764 1.461156998 0.567723445 0.911481042 0.53669077 1 9.348217985 S(ph)SPGQTPEEGAQALAEFAALHGPALR ddPTM_HeLa_SAHA_4h_R1 3 SSPGQTPEEGAQALAEFAALHGPALR 26 0 Q14166 Q14166 TTLL12 Tubulin--tyrosine ligase-like protein 12 1 0 S(0.432)S(0.432)PGQT(0.137)PEEGAQALAEFAALHGPALR;S(0.5)S(0.5)PGQT(0.001)PEEGAQALAEFAALHGPALR;S(0.5)S(0.5)PGQTPEEGAQALAEFAALHGPALR ;; 246.97 3.48E-54 910374800 3746.23 4723.94 3863.47 4657.03 4163.67 4807.83 5181.14 4173.32 4403.19 4427.37 TRUE FALSE FALSE 4140.27566 4876.998755 4389.963572 4747.17355 3844.650504 4398.175836 4598.144491 4066.572517 4372.547842 4618.255588 0.896502063 1.056026169 0.950567479 1.027914861 0.832489764 0.952345697 0.995645305 0.880542976 0.946796417 1 12.1731323 -5.789656621 24.99876958 0.963482399 0.923647058 0.187257635 0.059292506 432.8500297 383477.8701 0.009451998 0.017135437 1.62E-06 5.789656621 -0.039835341 S(ph)SPGSVAAS(ph)PSGGGGR ddPTM_HeLa_SAHA_4h_R1 1 SSPGSVAASPSGGGGR 16 0 Q9BXB5-2;Q9BXB5 Q9BXB5-2 OSBPL10 Oxysterol-binding protein-related protein 10 2 0 S(0.995)S(0.005)PGS(0.012)VAAS(0.97)PS(0.018)GGGGR 108.77 0.023641 3537400 973.86 758.41 828.85 1139.3 949 999.74 671.99 903.42 940.26 786.76 TRUE FALSE FALSE 1076.295063 782.9829816 941.8013615 1161.352799 876.287825 914.5565276 596.3759166 880.3118245 933.7166541 820.6810739 1.31146568 0.954064869 1.147585087 1.415108543 1.067756834 1.114387253 0.726684135 1.072660078 1.13773387 1 9.680677873 -4.902992607 8.105809586 1.149257039 0.900669356 0.299962829 0.149688745 0.234003184 17.31409972 0.02279313 0.068907172 1.25E-05 4.902992607 -0.248587683 S(ph)SPGSVAASPS(ph)GGGGR ddPTM_HeLa_SAHA_4h_R1 1 SSPGSVAASPSGGGGR 16 0 Q9BXB5-2;Q9BXB5 Q9BXB5-2 OSBPL10 Oxysterol-binding protein-related protein 10 2 0 S(0.938)S(0.062)PGS(0.048)VAAS(0.223)PS(0.729)GGGGR 145.82 0.0010175 2726500 756.18 1000.5 670.18 911.65 1214.2 995.36 853.91 861.56 1019 1004.1 TRUE FALSE FALSE 835.7184819 1032.916856 761.5086403 929.296304 1121.168258 910.5497283 757.8257994 839.5225427 1011.908696 1047.391665 0.797904461 0.986180138 0.727052416 0.887248138 1.0704384 0.869349794 0.723536214 0.801536398 0.96612254 1 10.03258531 -9.477931085 1.144522862 1.002246614 0.855181105 0.189949887 0.102700987 0.655169094 1.496949117 0.078500213 0.018063066 3.33E-10 9.477931085 -0.147065508 S(ph)SPGSVAASPSGGGGR ddPTM_HeLa_SAHA_4h_R1 3 SSPGSVAASPSGGGGR 16 0 Q9BXB5-2;Q9BXB5 Q9BXB5-2 OSBPL10 Oxysterol-binding protein-related protein 10 1 0 S(0.969)S(0.031)PGSVAASPSGGGGR;S(0.975)S(0.025)PGSVAASPSGGGGR;S(0.849)S(0.151)PGSVAASPSGGGGR ;; 181.75 1.44E-09 17649800 1826.47 2218.81 1671.52 2179.49 1994.87 2513.73 2393.46 2159.34 1976.16 2087.33 TRUE FALSE FALSE 2018.586495 2290.7009 1899.306041 2221.677181 1842.023492 2299.546062 2124.141582 2104.107209 1962.407742 2177.325011 0.927094708 1.052071183 0.872311681 1.020370027 0.846003 1.056133581 0.975573959 0.966372589 0.901292977 1 11.08834106 -3.719366511 0.002122924 1.915535407 3.69E-07 0 0.070437969 1016534.331 291.1051023 129002.1886 133700.576 0.000190824 3.719366511 -1.915535038 S(ph)SPIMR ddPTM_HeLa_SAHA_4h_R1 3 SSPIMR 6 0 A0A087WWN8;A0A087WZV0;O43314-2;O43314;K7ENU7;H0Y9S9 A0A087WWN8 PPIP5K2 Inositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 1 0 S(0.639)S(0.361)PIMR;S(0.5)S(0.5)PIMR;S(0.935)S(0.065)PIMR ;; 111.65 0.011736 41847800 9341.5 10853.1 6614.74 10343.7 11483 14622.3 11380.6 9750.8 12220 12841.6 TRUE FALSE FALSE 10324.08183 11204.74756 7516.162319 10543.91727 10603.17502 13376.39778 10100.02494 9501.388655 12134.96003 13395.26422 0.770726255 0.836470814 0.56110594 0.787137685 0.791561469 0.998591559 0.75399968 0.709309536 0.905914197 1 13.70943542 -9.120299234 0.789470037 1.006409914 0.777754791 0.293503122 0.106044912 0.574240314 0.622004626 0.08032501 0.021138417 7.58E-10 9.120299234 -0.228655122 S(ph)SPKEELHPAAPSQLAPSFSSSSSSSSGPR ddPTM_HeLa_SAHA_4h_R1 1 SSPKEELHPAAPSQLAPSFSSSSSSSSGPR 30 1 O43166-3;O43166-2;O43166;F5GYF8 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 S(0.497)S(0.497)PKEELHPAAPS(0.006)QLAPSFSSSSSSSSGPR 79.122 3.33E-06 7265600 404.19 451.99 261.49 472.26 603.55 734.03 426.58 442.93 461.67 392.41 TRUE FALSE FALSE 446.7045587 466.6347726 297.1244954 481.4012752 557.3061294 671.4865145 378.5800957 431.600492 458.4572009 409.3287155 1.091310093 1.14000009 0.725882363 1.176075015 1.361512418 1.640457874 0.924880375 1.054410491 1.120022084 1 8.677116069 -6.011561338 24.66288474 1.027895359 1.25291935 0.21903381 0.206412241 564.4028426 1203999.429 0.030575854 0.05272699 9.74E-07 6.011561338 0.225023991 S(ph)SPKSEIEVISEPPEEK ddPTM_HeLa_SAHA_4h_R1 1 SSPKSEIEVISEPPEEK 17 1 B7ZM87;O75044;Q5VZB4;A0A075B7E6;A0A075B7E9 B7ZM87 SRGAP2 SLIT-ROBO Rho GTPase-activating protein 2 1 0 S(0.499)S(0.499)PKS(0.003)EIEVISEPPEEK 100.39 0.0017087 9382700 1475.6 1579.6 1212.1 1774.1 1726.8 2060.5 2001.1 1504 1971.6 1548.6 TRUE FALSE FALSE 1630.810378 1630.780076 1377.278676 1808.440271 1594.492957 1884.933808 1775.930961 1465.529858 1957.879475 1615.367725 1.009559838 1.009541079 0.85261 1.11952235 0.98707739 1.166875987 1.099397329 0.907242255 1.212033301 1 10.6576469 S(ph)SPLLR ddPTM_HeLa_SAHA_4h_R1 1 SSPLLR 6 0 P56524-2;P56524;Q9UKV0-10;Q9UKV0-3;Q9UKV0-4;Q9UKV0-2;Q9UKV0;Q9UQL6-2;Q9UKV0-5;Q9UKV0-7;Q9UQL6;Q9UQL6-3 P56524-2 HDAC4;HDAC9;HDAC5 Histone deacetylase 4;Histone deacetylase 9;Histone deacetylase 5 1 0 S(0.999)S(0.001)PLLR 92.47 0.02319 4582400 1434.5 1300.7 953.64 1002.5 1053.6 1546.6 1368 1165 1204.1 1257.9 TRUE FALSE FALSE 1585.387292 1342.843533 1083.597093 1021.904837 972.8733956 1414.820979 1214.06904 1135.200987 1195.72057 1312.134225 1.208250849 1.023404091 0.825827931 0.778811205 0.741443503 1.078259337 0.92526284 0.865156144 0.911279157 1 10.35769959 -6.916842069 4.784515999 1.099202808 0.872193871 0.298768177 0.114370274 0.143106342 5.910928132 0.019094406 0.025236848 1.21E-07 6.916842069 -0.227008937 S(ph)SPLSWR ddPTM_HeLa_SAHA_4h_R1 2 SSPLSWR 7 0 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-6 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 S(0.921)S(0.079)PLSWR;S(0.704)S(0.296)PLSWR ; 115.49 0.0053628 28684000 4126.8 4766.3 3827.7 4432 5244.7 5704.7 5007.6 5422.6 5979.6 4562.6 TRUE FALSE FALSE 4560.875758 4920.731247 4349.319022 4517.787769 4842.852219 5218.627466 4444.131669 5283.897744 5937.987477 4759.316015 0.958304879 1.033915637 0.913853799 0.94925148 1.017552145 1.09650787 0.933775285 1.110222084 1.247655642 1 12.21653854 -5.562714354 7.651162984 0.977014976 1.039063196 0 0.100784129 0.227704414 36.67557338 0.007169079 0.014445456 2.74E-06 5.562714354 0.06204822 S(ph)SPNPFITGLTR ddPTM_HeLa_SAHA_4h_R1 3 SSPNPFITGLTR 12 0 A0A0D9SGJ6;J3KQV8;O43426 A0A0D9SGJ6 SYNJ1 Synaptojanin-1 1 0 S(0.881)S(0.119)PNPFITGLTR;S(0.87)S(0.13)PNPFITGLTR;S(0.83)S(0.17)PNPFITGLTR ;; 115.12 0.002076 20797900 2449.79 2744.06 2338.16 2376.33 2789.97 3068.19 2493.65 1839.2 2410.02 2606.94 TRUE FALSE FALSE 2707.470152 2832.969344 2656.792268 2422.327303 2576.203101 2806.762951 2213.057939 1792.155927 2393.248475 2719.337941 0.99563578 1.041786422 0.976999669 0.890778327 0.947364085 1.032149373 0.81382233 0.659041269 0.880084979 1 11.40903974 -4.525147972 2.894010618 0.990157259 0.66448134 0.759030282 0.054928083 0.073487794 1.130632396 0.006206346 0.041629077 2.98E-05 4.525147972 -0.325675919 S(ph)SPNPFVGSPPK ddPTM_HeLa_SAHA_4h_R1 3 SSPNPFVGSPPK 12 0 P98082;P98082-3 P98082 DAB2 Disabled homolog 2 1 0 S(0.5)S(0.5)PNPFVGSPPK;S(0.911)S(0.089)PNPFVGSPPK;S(0.503)S(0.054)PNPFVGS(0.443)PPK ;; 190.34 6.07E-07 151053600 5473.3 7612.9 5154.1 5281.1 6315.4 6952.2 6413.7 5845.4 8063.8 6259.8 TRUE FALSE FALSE 6049.006806 7859.562955 5856.473907 5383.323327 5831.515416 6359.833448 5692.013596 5695.883132 8007.683359 6529.690613 0.926384903 1.203665445 0.896899142 0.824437733 0.893076834 0.973986951 0.871712602 0.872305209 1.226349583 1 12.67279892 -6.563423427 24.99988633 0.985392578 0.888332809 0.305541785 0.110169614 159.8978309 98592.60043 0.012854922 0.01817962 2.73E-07 6.563423427 -0.097059769 S(ph)SPNVANQPPSPGGK ddPTM_HeLa_SAHA_4h_R1 1 SSPNVANQPPSPGGK 15 0 A8MQ02;J3KN01;P55196-6;P55196-3;P55196;P55196-5;Q5TIG5;P55196-2;P55196-1 A8MQ02 MLLT4 Afadin 1 0 S(0.976)S(0.024)PNVANQPPSPGGK 101.67 0.0038783 3002100 1246 1236.3 1056.7 1243.9 1116.3 1207.5 1202.6 1329.7 1287 1348.9 TRUE FALSE FALSE 1377.059997 1276.356931 1200.701573 1267.977483 1030.769335 1104.614207 1067.280283 1295.688199 1278.043662 1407.05768 0.978680559 0.907110596 0.853342112 0.901155298 0.732570775 0.785052541 0.758519212 0.920849385 0.908309361 1 10.45846576 -6.798754578 0.99174887 0.99446137 0.802223062 0.511038838 0.060035672 0.188941137 0.370031048 0.010075218 0.015380105 1.59E-07 6.798754578 -0.192238307 S(ph)SPPLPPPAEER ddPTM_HeLa_SAHA_4h_R1 4 SSPPLPPPAEER 12 0 I3L2J0;A0A0A0MQR4;Q96RK0 I3L2J0 CIC Protein capicua homolog 1 0 S(0.923)S(0.077)PPLPPPAEER;S(0.863)S(0.137)PPLPPPAEER;S(0.984)S(0.016)PPLPPPAEER;S(0.866)S(0.134)PPLPPPAEER ;;; 179.6 2.52E-05 117690000 3595.13 3854.03 3589.51 3486.18 3829.65 4308.34 4205.3 3958.69 3788.33 3510.06 TRUE FALSE FALSE 3973.282268 3978.903101 4078.669729 3553.660055 3536.223044 3941.245194 3732.108576 3857.432442 3761.966703 3661.395864 1.085182377 1.086717538 1.113965788 0.970575209 0.965812814 1.076432415 1.019313047 1.053541487 1.027467895 1 11.83817805 -6.24243199 24.98911625 1.050501148 1.017699074 0.187283276 0.043900805 1695.855889 2229548.646 0.00781783 0.012954548 5.72E-07 6.24243199 -0.032802074 S(ph)SPPLR ddPTM_HeLa_SAHA_4h_R1 1 SSPPLR 6 0 A0A0A6YYC0;E9PJN1;O75676-2;O75676 A0A0A6YYC0 RPS6KA4 Ribosomal protein S6 kinase;Ribosomal protein S6 kinase alpha-4 1 0 S(0.99)S(0.01)PPLR 104.75 0.018293 12164000 1028.1 1450.2 909.41 1650 1612.1 2060.3 1594.2 1627.1 1842.3 1501 TRUE FALSE FALSE 1136.240275 1497.187432 1033.339659 1681.938136 1488.581246 1884.750849 1414.81642 1585.481138 1829.479284 1565.715456 0.725700363 0.956232134 0.659979216 1.074229759 0.950735487 1.203763329 0.903622951 1.012624058 1.168462173 1 10.61260633 -6.20573166 24.99943053 0.860624001 1.02739164 0.118087283 0.153787995 312.3816045 140184.4034 0.020341236 0.033732114 6.23E-07 6.20573166 0.166767639 S(ph)SPPLRTPDVLESSGPAVR ddPTM_HeLa_SAHA_4h_R1 4 SSPPLRTPDVLESSGPAVR 19 1 A0A0A6YYC0;E9PJN1;O75676-2;O75676 A0A0A6YYC0 RPS6KA4 Ribosomal protein S6 kinase;Ribosomal protein S6 kinase alpha-4 1 0 S(0.815)S(0.18)PPLRT(0.005)PDVLESSGPAVR;S(0.371)S(0.371)PPLRT(0.257)PDVLESSGPAVR;S(0.474)S(0.474)PPLRT(0.051)PDVLESSGPAVR;S(0.448)S(0.448)PPLRT(0.105)PDVLESSGPAVR ;;; 96.881 0.00096991 99890400 1633.78 1708.52 2006.36 1936.59 2723 2947.1 2680.62 2905.98 2150.33 1963.57 TRUE FALSE FALSE 1805.628476 1763.877169 2279.776292 1974.0755 2514.364328 2695.9905 2378.989583 2831.649239 2135.365678 2048.229112 0.881555909 0.861171809 1.1130475 0.963796232 1.227579626 1.31625436 1.16148607 1.38248657 1.042542392 1 11.00016139 -5.788380798 1.458198126 0.942658305 1.288123945 0.710495827 0.090539116 0.14620561 0.624782719 0.013579497 0.033251355 1.63E-06 5.788380798 0.345465641 S(ph)SPPPGYVPER ddPTM_HeLa_SAHA_4h_R1 1 SSPPPGYVPER 11 0 J3KRN4;J3QRB6;Q99759;Q99759-2 J3KRN4 MAP3K3 Mitogen-activated protein kinase kinase kinase 3 1 0 S(0.922)S(0.078)PPPGYVPER 144.17 0.00074458 8571200 682.71 713.01 456.82 720.72 611.5 832.72 543.45 648.57 662.54 725.53 TRUE FALSE FALSE 754.5205702 736.1119918 519.0730506 734.6705778 564.6470021 761.7675712 482.2995757 631.9805185 657.9293302 756.811149 0.996973381 0.972649508 0.685868663 0.970744919 0.746087056 1.006549087 0.637278635 0.835057094 0.86934413 1 9.563789532 -6.909711867 8.76698426 0.997845616 0.818603708 0.259488895 0.11447034 0.189868795 16.6222981 0.015432258 0.020299762 1.23E-07 6.909711867 -0.179241908 S(ph)SPPSAGNSPSSLK ddPTM_HeLa_SAHA_4h_R1 1 SSPPSAGNSPSSLK 14 0 P57682-2;P57682 P57682-2 KLF3 Krueppel-like factor 3 1 0 S(0.621)S(0.378)PPSAGNSPSSLK 85.845 0.0084249 0 683.63 450.19 402.5 614.28 577.55 694.48 766.51 645.03 487.5 463.65 TRUE FALSE FALSE 755.53734 464.7764514 457.3506039 626.1702777 533.2982438 635.306397 680.2602775 628.5310666 484.1074478 483.6402205 1.562188809 0.960996277 0.945642204 1.294702655 1.102675545 1.313592977 1.406541988 1.299583947 1.000966064 1 8.917790417 -9.772312792 1.74669264 0.999617114 1.285254309 0.165236761 0.18618307 0.496472279 2.740228954 0.159101447 0.033795967 1.69E-10 9.772312792 0.285637195 S(ph)SPQHSLSNPLPR ddPTM_HeLa_SAHA_4h_R1 1 SSPQHSLSNPLPR 13 0 Q86UE8-2;Q86UE8 Q86UE8-2 TLK2 Serine/threonine-protein kinase tousled-like 2 1 0 S(0.639)S(0.358)PQHS(0.001)LS(0.001)NPLPR 123.11 0.0010273 7919900 653.09 554.89 671.4 1017.6 1221.9 936.59 874.63 1081.6 933.21 844.67 TRUE FALSE FALSE 721.7850027 572.8688001 762.8948955 1037.297119 1128.278286 856.7872629 776.2143305 1053.934238 926.7157156 881.0878574 0.819197537 0.650183515 0.865855645 1.177291357 1.280551396 0.972419783 0.880972679 1.196173831 1.051785821 1 9.783142074 -6.273437894 23.94284438 0.885087643 1.0920095 0.368986914 0.146080103 407.9767352 814110.5006 0.023745246 0.03646044 5.33E-07 6.273437894 0.206921856 S(ph)SPQLDPLR ddPTM_HeLa_SAHA_4h_R1 4 SSPQLDPLR 9 0 Q8ND56;Q8ND56-2;Q8ND56-3 Q8ND56 LSM14A Protein LSM14 homolog A 1 0 S(0.972)S(0.028)PQLDPLR;S(0.5)S(0.5)PQLDPLR;S(0.5)S(0.5)PQLDPLR;S(0.708)S(0.292)PQLDPLR ;;; 161.93 7.68E-05 61937800 13044.4 14984.5 13483.6 17360.9 16130.5 15102.8 16274.3 14054.1 16453.1 12253.2 TRUE FALSE FALSE 14416.46984 15470.00763 15321.07479 17696.94532 14894.58457 13815.95647 14443.07293 13694.61647 16338.60154 12781.49542 1.127917303 1.210344105 1.198691881 1.384575493 1.165324095 1.080934274 1.129998679 1.071440862 1.278301248 1 13.64176902 -8.382782875 0.86992045 1.015203649 1.177399694 0 0.117380067 0.429554233 0.680219883 0.033542112 0.019508895 4.14E-09 8.382782875 0.162196045 S(ph)SPSARPPDVPGQQPQAAK ddPTM_HeLa_SAHA_4h_R1 2 SSPSARPPDVPGQQPQAAK 19 1 A0A0A6YYC7;Q96JP5-2;Q96JP5 A0A0A6YYC7 ZFP91-CNTF;ZFP91 E3 ubiquitin-protein ligase ZFP91 1 0 S(0.5)S(0.5)PSARPPDVPGQQPQAAK;S(0.5)S(0.5)PS(0.001)ARPPDVPGQQPQAAK ; 218.05 6.39E-25 11580200 4277.2 3926.2 3731.2 4338.1 3874.5 4726.5 4890.6 4846.9 4835.9 4570.8 TRUE FALSE FALSE 4727.09552 4053.411456 4239.668505 4422.070198 3577.636647 4323.775609 4340.296817 4722.923316 4802.246578 4767.869557 0.991448164 0.8501515 0.889216547 0.927472983 0.750363785 0.906856943 0.910322056 0.990573098 1.007210143 1 12.21912905 -7.276753652 22.56727914 0.995961652 0.886888585 0.431775989 0.057881516 148.9411611 219480.6273 0.009651593 0.011067134 5.29E-08 7.276753652 -0.109073068 S(ph)SPSIICMPK ddPTM_HeLa_SAHA_4h_R1 1 SSPSIICMPK 10 0 F8VQD8;A0A087X050;F8VVY1;F8VX63;F8VUB4;F8VV52;F8VP97;Q9NZN8-4;Q9NZN8-5;Q9NZN8 F8VQD8 CNOT2 CCR4-NOT transcription complex subunit 2 1 0 S(0.913)S(0.086)PS(0.001)IICMPK 97.813 0.012126 5084300 1836 2161.2 1873.1 2230.4 2409 1943.2 2257 1946.6 2302.9 1857 TRUE FALSE FALSE 2029.118904 2231.224298 2128.356313 2273.572617 2224.42294 1777.628428 2003.03642 1896.808791 2286.873931 1937.064358 1.047522709 1.15185863 1.098753536 1.173720743 1.148347463 0.917691981 1.034057754 0.97921826 1.180587481 1 10.91965617 -5.249020403 24.98583371 1.057649671 0.982696184 0.22774417 0.07594659 1118.417179 2250146.571 0.011095676 0.028086054 5.64E-06 5.249020403 -0.074953486 S(ph)SPSILAVQR ddPTM_HeLa_SAHA_4h_R1 1 SSPSILAVQR 10 0 O14646-2;O14646 O14646-2 CHD1 Chromodomain-helicase-DNA-binding protein 1 1 0 S(0.945)S(0.055)PSILAVQR 202.96 3.53E-10 10606000 919.5 1002 1105.9 1169 1273.8 1164.5 1147.3 1066.4 987.18 1172.8 TRUE FALSE FALSE 1016.217229 1034.465457 1256.606293 1191.627685 1176.201719 1065.278049 1018.202784 1039.123032 980.310134 1223.365148 0.83067368 0.8455901 1.027171892 0.974057245 0.961447791 0.870776849 0.832296708 0.849397283 0.801322594 1 10.25663937 -9.584495476 1.392759722 0.99961217 0.893084898 0 0.088807371 0.512804841 1.794320068 0.050414789 0.011928789 2.60E-10 9.584495476 -0.106527272 S(ph)SPSVLIHSLGK ddPTM_HeLa_SAHA_4h_R1 1 SSPSVLIHSLGK 12 0 Q9P0K7-3;Q9P0K7;Q9P0K7-2;Q9P0K7-4 Q9P0K7-3 RAI14 Ankycorbin 1 0 S(0.499)S(0.499)PS(0.002)VLIHSLGK 104.9 0.0032536 10221000 940.46 1364 850.37 1344.4 1555.5 2006.2 1580.3 1197.8 1955.1 1375.1 TRUE FALSE FALSE 1039.381898 1408.194495 966.2539951 1370.422806 1436.317926 1835.260473 1402.480485 1167.16201 1941.4943 1434.387291 0.724617336 0.981739384 0.673635357 0.955406406 1.001345965 1.279473463 0.977755794 0.813700747 1.353535626 1 10.4862189 -5.958029276 4.44840816 0.861623768 1.031157619 0 0.210515097 0.259424044 11.45968935 0.023586042 0.04312011 1.10E-06 5.958029276 0.169533851 S(ph)SPVEFECINEK ddPTM_HeLa_SAHA_4h_R1 2 SSPVEFECINEK 12 0 H0YB26;O75131 H0YB26 CPNE3 Copine-3 1 0 S(0.991)S(0.009)PVEFECINEK;S(0.931)S(0.069)PVEFECINEK ; 212.68 1.83E-15 30909000 3199.5 4192.9 3059.8 4290.9 3751.4 5131.9 4070.1 3749.8 5007.8 4338.5 TRUE FALSE FALSE 3536.03809 4328.752711 3476.773609 4373.956574 3463.968542 4694.633249 3612.121636 3653.885546 4972.950312 4525.553967 0.781349226 0.956513334 0.768253707 0.966501915 0.765424204 1.037361013 0.798161211 0.807389675 1.098860018 1 12.14387869 -9.539167791 1.287950682 1.000377547 0.854371467 0.350510963 0.096870917 0.467649846 1.383566015 0.059861714 0.0140906 2.89E-10 9.539167791 -0.14600608 S(ph)SPVGGGPR ddPTM_HeLa_SAHA_4h_R1 2 SSPVGGGPR 9 0 Q00587-2;Q00587 Q00587-2 CDC42EP1 Cdc42 effector protein 1 1 0 S(0.5)S(0.5)PVGGGPR;S(0.654)S(0.346)PVGGGPR ; 131.12 0.0019099 63863000 3392 4316.6 2556.5 3885.4 4832 6552.8 4834.1 3840.6 6413.4 6933 TRUE FALSE FALSE 3748.786123 4456.460672 2904.886506 3960.607535 4461.773204 5994.464575 4290.154345 3742.363013 6368.768627 7231.915559 0.518366965 0.616221337 0.401675944 0.547656773 0.616955932 0.828890289 0.593225171 0.517478804 0.880647537 1 12.82016212 -9.265513687 0.897325342 1.011137985 0.58104274 0.632434185 0.108476933 0.292228569 0.405112715 0.08508567 0.020954407 5.43E-10 9.265513687 -0.430095244 S(ph)SPVLQHK ddPTM_HeLa_SAHA_4h_R1 2 SSPVLQHK 8 0 Q3V6T2;A0A2R8Y820;Q3V6T2-3;Q3V6T2-2;Q3V6T2-4;A0A2R8Y7B1;H0Y7K3;A0A2R8Y5D7;H7C2C6;H0Y470;A0A2R8Y885;A0A2R8YCU9;A0A2U3TZV9;A0A2R8Y4Z5;A0A2R8Y7D4;A0A2R8YDS8;H0Y7U8;Q3V6T2-5;A0A2R8Y4C6 Q3V6T2 CCDC88A Girdin 1 0 S(0.5)S(0.5)PVLQHK;S(0.5)S(0.5)PVLQHK ; 110.53 0.0049017 8916800 6043.9 4963.5 7308.8 9992.5 7166.5 11800.8 13117.6 10080.5 7073.9 10109.6 TRUE FALSE FALSE 6679.625132 5124.320657 8304.805201 10185.91929 6617.404318 10795.30545 11641.57312 9822.655406 7024.672154 10545.47433 0.63341154 0.485926047 0.787523154 0.965904327 0.627511301 1.023690838 1.103940208 0.931456955 0.666131454 1 13.36433637 -5.207285157 14.69205171 0.793105293 1.02816424 0.366195122 0.158497714 4.420073939 1197.612006 0.026741545 0.068180693 6.20E-06 5.207285157 0.235058948 S(ph)SPVVNDGVVR ddPTM_HeLa_SAHA_4h_R1 3 SSPVVNDGVVR 11 0 H0YAM1;H0Y8R1;F5H5I6;H0YAK1;Q12849-5;Q12849 H0YAM1 GRSF1 G-rich sequence factor 1 1 0 S(0.903)S(0.097)PVVNDGVVR;S(0.877)S(0.123)PVVNDGVVR;S(0.888)S(0.112)PVVNDGVVR ;; 132.14 0.0012373 19891000 3144.3 3611.7 2987.91 2721.79 3433 3213.07 3819.67 3313.82 3301.1 3357.95 TRUE FALSE FALSE 3475.031901 3728.72145 3395.086814 2774.474181 3169.964282 2939.29836 3389.870679 3229.057283 3278.127376 3502.727658 0.992093089 1.064519373 0.969269423 0.792089609 0.904998787 0.839145559 0.967780259 0.921869354 0.935878463 1 11.77426311 -6.506924799 24.88813079 1.002024347 0.887546709 0.513452882 0.052686246 361.6813914 564222.7387 0.007214757 0.01082366 3.11E-07 6.506924799 -0.114477638 S(ph)SRGQEEISGALPVASPASSR ddPTM_HeLa_SAHA_4h_R1 3 SSRGQEEISGALPVASPASSR 21 1 H0Y8S9;Q9UBK8;Q9UBK8-1;H0Y9D5 H0Y8S9 MTRR Methionine synthase reductase 1 0 S(0.5)S(0.5)RGQEEISGALPVASPASSR;S(0.5)S(0.5)RGQEEISGALPVASPASSR;S(0.5)S(0.5)RGQEEISGALPVASPASSR ;; 181.51 5.00E-10 297813000 6296 5415.8 5746.8 6644.2 7653.6 7356.4 7741.2 8241.5 6768.3 5634.4 TRUE FALSE FALSE 6958.242167 5591.275473 6529.943976 6772.808099 7067.182821 6729.593334 6870.139802 8030.694364 6721.198849 5877.326558 1.183912804 0.951329728 1.111039843 1.152362053 1.202448554 1.14500926 1.168922593 1.366385598 1.143580977 1 12.52094434 -1 0.24358529 1.054346231 2.526477639 0.496351976 0.075799365 34.10195049 0.422505971 0.048910869 20.62809313 0.1 1 1.472131408 S(ph)SS(ph)PLLSIHDKS(ph)S(ph)SSMEDNVLEK ddPTM_HeLa_SAHA_4h_R1 1 SSSPLLSIHDKSSSSMEDNVLEK 23 1 Q53TS8-4 Q53TS8-4 4 0 S(0.499)S(0.499)S(0.501)PLLS(0.501)IHDKS(0.9)S(0.367)S(0.367)S(0.366)MEDNVLEK 46.702 0.0079184 0 71.057 74.469 128.16 160.36 168.19 207.24 202.46 0 301.34 311.44 TRUE FALSE FALSE 78.53110128 76.88184446 145.6249774 163.4639997 155.3033185 189.5819861 179.678668 0 299.2429504 324.8677026 0.24173256 0.236655857 0.448259326 0.503170978 0.478050964 0.58356674 0.553082583 0 0.9211225 1 8.343708512 -9.340245256 1.020105803 1.006449931 0.388421176 0.646754631 0.170841569 0.277145785 0.507837413 0.125528735 0.031614587 4.57E-10 9.340245256 -0.618028755 S(ph)SSAPLIHGLSDLSQVFQPYTLR ddPTM_HeLa_SAHA_4h_R1 1 SSSAPLIHGLSDLSQVFQPYTLR 23 0 Q7Z309;Q7Z309-2;G1UD79;Q7Z309-4;Q7Z309-3 Q7Z309 FAM122B;SPACIA2 Protein FAM122B 1 0 S(0.726)S(0.178)S(0.096)APLIHGLSDLSQVFQPYTLR 113.68 2.57E-05 846380 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 S(ph)SSDMDLQKK ddPTM_HeLa_SAHA_4h_R1 1 SSSDMDLQKK 10 1 A0A0U1RQE4;A0A494C1M0;Q5HYK7-3;Q5HYK7-2;Q5HYK7 A0A0U1RQE4 SH3D19 SH3 domain-containing protein 19 1 0 S(0.439)S(0.238)S(0.322)DMDLQKK 75.739 0.015969 11278000 2007.8 1922.8 1396.4 3138.8 2747.1 2633.1 2388 3593.9 2285.6 2180.3 TRUE FALSE FALSE 2218.989616 1985.099982 1586.69412 3199.556013 2536.617791 2408.745067 2119.295955 3501.973242 2269.694324 2274.303403 0.9756788 0.872838681 0.697661586 1.406829013 1.115338344 1.059113337 0.931843989 1.539800379 0.99797341 1 11.15120901 -6.25598893 24.99876169 0.957876317 1.181392811 0.383674067 0.184257923 470.9268076 2159928.863 0.026799734 0.043603653 5.55E-07 6.25598893 0.223516495 S(ph)SSDPPAVHPPLPPLR ddPTM_HeLa_SAHA_4h_R1 3 SSSDPPAVHPPLPPLR 16 0 O43150 O43150 ASAP2 "Arf-GAP with SH3 domain, ANK repeat and PH domain-containing protein 2" 1 0 S(0.463)S(0.074)S(0.463)DPPAVHPPLPPLR;S(0.47)S(0.059)S(0.47)DPPAVHPPLPPLR;S(0.812)S(0.101)S(0.087)DPPAVHPPLPPLR ;; 151.73 3.70E-05 11462500 3456.7 3694.16 2782.49 4397.3 4418.44 4973.7 4842.35 4593.79 4983.6 3833.57 TRUE FALSE FALSE 3820.291566 3813.853208 3161.673247 4482.4161 4079.900082 4549.912779 4297.476034 4476.287504 4948.918722 3998.853964 0.955346607 0.953736556 0.790644839 1.12092518 1.020267336 1.137804186 1.074676913 1.119392592 1.23758426 1 11.96537088 S(ph)SSESLIFSGNQGR ddPTM_HeLa_SAHA_4h_R1 2 SSSESLIFSGNQGR 14 0 Q8IZW8 Q8IZW8 TNS4 Tensin-4 1 0 S(0.499)S(0.499)S(0.001)ESLIFSGNQGR;S(0.499)S(0.499)S(0.001)ESLIFSGNQGR ; 227.92 2.25E-44 10660000 1357.91 1935.09 1515.07 1466.56 2316.7 2282.98 2124.81 1524.8 2595.2 1880.64 TRUE FALSE FALSE 1500.741204 1997.788186 1721.535849 1494.947389 2139.194946 2088.45726 1885.720787 1485.797824 2577.139792 1961.723594 0.765011548 1.018384135 0.877562902 0.762058118 1.090467053 1.064603223 0.961257127 0.757394073 1.313711983 1 10.93790607 -5.757158322 24.99994683 0.888336886 0.974787449 0 0.176206724 217.0367443 1267405.932 0.018880129 0.036727946 1.75E-06 5.757158322 0.086450563 S(ph)SSKDSRPSQAAGDNQGDEAK ddPTM_HeLa_SAHA_4h_R1 1 SSSKDSRPSQAAGDNQGDEAK 21 2 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 S(0.345)S(0.345)S(0.306)KDS(0.003)RPSQAAGDNQGDEAK 57.738 0.012984 1931500 189.8 162.43 204.27 137.63 104.91 141.54 264.7 70.981 267.38 206.65 TRUE FALSE FALSE 209.7640348 167.6928386 232.1068518 140.2940277 96.87181846 129.4799957 234.9152593 69.1654088 265.5192808 215.5596928 0.973113443 0.777941536 1.076763697 0.65083609 0.449396718 0.600668864 1.089792142 0.320864295 1.231766836 1 7.751943626 -6.247782784 22.87274308 0.974047704 0.637473911 0.447720148 0.213972285 183.8285464 307883.8731 0.027811153 0.045911019 5.65E-07 6.247782784 -0.336573793 S(ph)SSKDSRPSQAAGDNQGDEAKEQTFSGGTSQDTK ddPTM_HeLa_SAHA_4h_R1 1 SSSKDSRPSQAAGDNQGDEAKEQTFSGGTSQDTK 34 3 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 S(0.311)S(0.311)S(0.311)KDS(0.033)RPS(0.033)QAAGDNQGDEAKEQTFSGGTSQDTK 65.893 3.82E-05 13492000 615.6 506.85 635.97 652.27 784.87 699.82 833.82 869.96 500.01 610.06 TRUE FALSE FALSE 680.3516325 523.2722726 722.6366796 664.895629 724.7334302 640.1913989 739.9963791 847.7076829 496.5303897 636.3626722 1.069125614 0.822286246 1.135573646 1.044837572 1.138868544 1.00601658 1.162853215 1.332114091 0.780263223 1 9.313705402 -1.000000297 0.698537296 1.025682555 39.64808501 0.450574832 0.114105622 143.9837577 0.717084286 0.013213398 8695.975623 0.099999932 1.000000297 38.62240245 S(ph)SSLIQLTSQNSSPNQQR ddPTM_HeLa_SAHA_4h_R1 1 SSSLIQLTSQNSSPNQQR 18 0 H7C419;O95639 H7C419 CPSF4 Cleavage and polyadenylation specificity factor subunit 4 1 0 S(0.333)S(0.333)S(0.333)LIQLTSQNSSPNQQR 216.71 9.49E-22 16582000 1330.6 1464.7 1212 769.71 1187.3 1625.4 1563.9 1139.9 1084.3 1362.5 TRUE FALSE FALSE 1470.558613 1512.157241 1377.165048 784.6088501 1096.329331 1486.906776 1387.925856 1110.743009 1076.754268 1421.244043 1.034698172 1.063967338 0.968985626 0.552057793 0.771387107 1.046200885 0.976557026 0.7815287 0.757613918 1 10.47293859 -6.505895095 24.59506723 1.020224349 0.834919149 0.13768745 0.149363607 543.869356 787610.9729 0.019917208 0.029962665 3.12E-07 6.505895095 -0.185305201 S(ph)SSPAPADIAQTVQEDLR ddPTM_HeLa_SAHA_4h_R1 1 SSSPAPADIAQTVQEDLR 18 0 Q13283 Q13283 G3BP1 Ras GTPase-activating protein-binding protein 1 1 0 S(0.333)S(0.333)S(0.333)PAPADIAQTVQEDLR 245.04 1.25E-37 1604400000 958.55 915.78 984.47 1090.8 1075.2 1126.5 1090.8 879.05 913.9 979.63 TRUE FALSE FALSE 1059.374687 945.4518729 1118.628445 1111.914011 992.8184083 1030.515862 968.0603132 856.5651738 907.5400955 1021.866643 1.036705419 0.925220408 1.094691222 1.088120469 0.97157336 1.008464137 0.947345057 0.838235771 0.888119894 1 9.996991217 -4.18481262 1.336893712 1.01939216 0.735356668 0.365167448 0.062710322 0.829020046 1.120684488 0.006767815 0.333699444 6.53E-05 4.18481262 -0.284035492 S(ph)SSPELVTHLK ddPTM_HeLa_SAHA_4h_R1 3 SSSPELVTHLK 11 0 E9PNR6;Q07960;H0YE29 E9PNR6 ARHGAP1 Rho GTPase-activating protein 1 1 0 S(0.492)S(0.492)S(0.017)PELVTHLK;S(0.974)S(0.026)SPELVTHLK;S(0.705)S(0.183)S(0.112)PELVTHLK ;; 210.44 2.95E-11 249814000 14328 15911.6 12388.6 15310.7 17539.1 21873.7 19484.1 16067 18074.1 14980.6 TRUE FALSE FALSE 15835.08478 16427.14628 14076.85389 15607.06074 16195.25795 20009.9377 17291.69779 15656.0294 17948.32087 15626.48698 1.013348989 1.051237319 0.90083292 0.998756839 1.036397878 1.280514151 1.106563351 1.001890535 1.148583229 1 13.93170586 -5.504938107 24.59855346 1.001599753 1.132531635 0.238025949 0.086029614 441.5203501 605371.5756 0.009897218 0.021709161 3.13E-06 5.504938107 0.130931882 S(ph)SSPELVTHLKWDDPYYDIAR ddPTM_HeLa_SAHA_4h_R1 2 SSSPELVTHLKWDDPYYDIAR 21 1 E9PNR6;Q07960;H0YE29 E9PNR6 ARHGAP1 Rho GTPase-activating protein 1 1 0 S(0.354)S(0.354)S(0.291)PELVTHLKWDDPYYDIAR;S(0.333)S(0.333)S(0.333)PELVTHLKWDDPYYDIAR ; 104.03 8.92E-05 28457000 6244.2 3354.9 5987.2 5081.2 5599.3 5248.6 6670.2 5113.3 2334.88 4962.1 TRUE FALSE FALSE 6900.993605 3463.600961 6803.104436 5179.553974 5170.282844 4801.389752 5919.651541 4982.50919 2318.63138 5176.040415 1.333257288 0.669160339 1.314345309 1.000678812 0.998887649 0.927618289 1.143664088 0.962610179 0.447954651 1 12.33763317 S(ph)SSPTQYGLTK ddPTM_HeLa_SAHA_4h_R1 1 SSSPTQYGLTK 11 0 Q9NYL2 Q9NYL2 ZAK Mitogen-activated protein kinase kinase kinase MLT 1 0 S(0.333)S(0.333)S(0.333)PT(0.001)QYGLTK 193.15 4.98E-07 112080000 5365.5 5043 4512.8 5371.5 5345.5 5945.4 6016.8 5467.2 4569.6 5005.6 TRUE FALSE FALSE 5929.867908 5206.396509 5127.780882 5475.47315 4935.928945 5438.818472 5339.773829 5327.35694 4537.799782 5221.415913 1.13568197 0.9971235 0.982067119 1.048656771 0.945323841 1.041636706 1.022667782 1.020289712 0.869074569 1 12.35022537 S(ph)SSPTSSLTQPIEMPT(ph)LSSSPTEERPTVGPGQQDNPLLK ddPTM_HeLa_SAHA_4h_R1 1 SSSPTSSLTQPIEMPTLSSSPTEERPTVGPGQQDNPLLK 39 1 Q7LBC6;Q7LBC6-2 Q7LBC6 KDM3B Lysine-specific demethylase 3B 2 0 S(0.252)S(0.252)S(0.253)PT(0.081)S(0.067)S(0.064)LT(0.065)QPIEMPT(0.226)LS(0.226)S(0.226)S(0.226)PT(0.056)EERPT(0.006)VGPGQQDNPLLK 45.47 0.012559 9570700 429.36 313.65 343.33 624 578.13 513.08 548.2 418.91 535.41 635.54 TRUE FALSE FALSE 474.5220548 323.8124658 390.1172244 636.0784223 533.8338043 469.3626975 486.5150932 408.1948888 531.6840382 662.9412397 0.715782978 0.488448216 0.588464258 0.959479339 0.80525056 0.708000452 0.733873629 0.615733136 0.80200779 1 9.372737191 -8.96778698 0.898545322 0.991528651 0.707846275 0.212719591 0.133735368 0.420313342 0.644279721 0.071994865 0.025486256 1.08E-09 8.96778698 -0.283682376 S(ph)SSPTSSLTQPIEMPTLSSS(ph)PTEERPTVGPGQQDNPLLK ddPTM_HeLa_SAHA_4h_R1 1 SSSPTSSLTQPIEMPTLSSSPTEERPTVGPGQQDNPLLK 39 1 Q7LBC6;Q7LBC6-2 Q7LBC6 KDM3B Lysine-specific demethylase 3B 2 0 S(0.291)S(0.292)S(0.293)PT(0.111)S(0.026)S(0.012)LT(0.012)QPIEMPT(0.128)LS(0.128)S(0.128)S(0.442)PT(0.128)EERPT(0.011)VGPGQQDNPLLK 72.024 2.49E-06 12348000 526.15 593.34 510.42 633.27 373.33 573.83 536.99 688.81 613.57 543.57 TRUE FALSE FALSE 581.4928711 612.5646053 579.9773794 645.5278566 344.7255361 524.9364557 476.5664719 671.1912376 609.3001164 567.0059629 1.025549834 1.080349494 1.022877037 1.138485129 0.607975151 0.925804119 0.840496402 1.183746348 1.074592079 1 9.147220097 S(ph)SSTSESGDSDNMR ddPTM_HeLa_SAHA_4h_R1 1 SSSTSESGDSDNMR 14 0 O75179-4;O75179-6;O75179-2;O75179;H0YM23;O75179-7 O75179-4 ANKRD17 Ankyrin repeat domain-containing protein 17 1 0 S(0.328)S(0.036)S(0.014)T(0.31)S(0.31)ES(0.002)GDSDNMR 157.33 1.67E-05 3293900 421.97 416.17 378.68 679.52 632.61 563.15 629.44 612.8 656.35 455.86 TRUE FALSE FALSE 466.3547407 429.6541811 430.2845383 692.6730922 584.1395585 515.1664518 558.6137546 597.1254633 651.7824069 475.5143555 0.980737459 0.903556698 0.904882331 1.456681768 1.228437274 1.083387801 1.174756867 1.255746449 1.370689232 1 8.893345086 -6.287279285 24.99545647 0.976866996 1.226867393 0.274417539 0.155934386 365.5945334 353646.1047 0.014657229 0.022393752 5.16E-07 6.287279285 0.250000398 S(ph)SSVGS(ph)SSSYPISPAVSR ddPTM_HeLa_SAHA_4h_R1 1 SSSVGSSSSYPISPAVSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 2 0 S(0.908)S(0.023)S(0.069)VGS(0.571)S(0.387)S(0.035)S(0.007)YPISPAVSR 159.54 7.84E-05 32586000 5454.8 4922.6 4997.3 5279.2 6540.1 6432 6280.5 6474.5 5779.7 5393.2 TRUE FALSE FALSE 6028.560892 5082.09547 5678.306019 5381.38655 6038.998951 5883.957415 5573.801611 6308.891665 5739.478597 5625.727246 1.071605613 0.903366844 1.009346129 0.956567269 1.073461028 1.045901651 0.990769969 1.121435752 1.020219848 1 12.45782389 -4.250574206 23.99587265 1.020263044 1.121435854 0.28829261 0.050244314 1009.088513 2228507.046 0.007278842 0.137130666 5.62E-05 4.250574206 0.10117281 S(ph)SSVGSS(ph)SSYPISPAVSR ddPTM_HeLa_SAHA_4h_R1 1 SSSVGSSSSYPISPAVSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 2 0 S(0.886)S(0.034)S(0.081)VGS(0.072)S(0.782)S(0.129)S(0.017)YPISPAVSR 141.6 0.001532 15190000 885.26 800.06 724.81 1149.7 847.24 1113.3 946.14 952.51 901.53 801.59 TRUE FALSE FALSE 978.3757085 825.9824689 823.5833322 1171.954106 782.3246542 1018.440577 839.6778371 928.1461734 895.2561793 836.1504678 1.170095271 0.987839511 0.984970246 1.40160671 0.935626642 1.218011131 1.004218582 1.110022908 1.070687889 1 9.707618773 -9.582096867 1.345820645 0.999582217 1.108499076 0.026427981 0.132894527 0.880835721 2.842973681 0.087448447 0.020053494 2.62E-10 9.582096867 0.108916859 S(ph)SSVSPSASFR ddPTM_HeLa_SAHA_4h_R1 1 SSSVSPSASFR 11 0 Q04727-4;Q04727;Q04727-3;H7C4W5;H7C4P7;Q5JSY7;Q04727-2 Q04727-4 TLE4 Transducin-like enhancer protein 4 1 0 S(0.435)S(0.04)S(0.244)VS(0.279)PS(0.001)ASFR 144.7 0.00072468 32440000 3318 2801.6 2654.8 2775.2 2958.1 2692 3077.8 2709.5 2591.5 2082.4 TRUE FALSE FALSE 3667.002464 2892.373678 3016.582318 2828.918009 2731.451017 2462.626455 2731.477844 2640.194913 2573.465541 2172.182455 1.688165032 1.331551901 1.388733396 1.302339038 1.257468502 1.133710683 1.257480852 1.21545725 1.184737283 1 11.08492957 -5.714231509 2.806322239 1.338063786 1.20685234 0.079496225 0.164918962 0.718885879 11.53135764 0.038150591 0.080350623 1.93E-06 5.714231509 -0.131211447 S(ph)STETCYSAIPK ddPTM_HeLa_SAHA_4h_R1 1 SSTETCYSAIPK 12 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;A0A0A0MT44 O75369-8 FLNB Filamin-B 1 0 S(0.987)S(0.013)TETCYSAIPK 165.35 0.00011759 5926000 873.44 1215.6 1092.9 1153.6 1634.8 1547.3 1341.9 1131.1 1600.9 887.28 TRUE FALSE FALSE 965.3124267 1254.986238 1241.83472 1175.929596 1509.541977 1415.461335 1190.90588 1102.1681 1589.759207 925.534983 1.042977785 1.355957647 1.341748009 1.270540409 1.630993971 1.529343959 1.286721628 1.190844344 1.717665173 1 9.854143711 -7.259163515 3.616118339 1.017761253 1.383266226 0 0.251761813 0.107504657 3.036070041 0.021746112 0.025773315 5.51E-08 7.259163515 0.365504973 S(ph)STGPEPPAPTPLLAER ddPTM_HeLa_SAHA_4h_R1 1 SSTGPEPPAPTPLLAER 17 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.362)S(0.362)T(0.275)GPEPPAPTPLLAER 110.56 0.0014918 2473300 357.04 401.72 320.95 428.41 398.29 406.91 378.76 429.91 592.51 379.35 TRUE FALSE FALSE 394.5951054 414.7359916 364.6873946 436.702495 367.7731062 372.2389788 336.140928 418.9135247 588.3866747 395.705635 0.997193546 1.048092205 0.921612841 1.103604438 0.929410839 0.940696684 0.849472179 1.058649379 1.48693024 1 8.6282838 S(ph)STPLHS(ph)PSPIR ddPTM_HeLa_SAHA_4h_R1 1 SSTPLHSPSPIR 12 0 O95817;C9JFK9 O95817 BAG3 BAG family molecular chaperone regulator 3 2 0 S(0.865)S(0.032)T(0.104)PLHS(0.828)PS(0.172)PIR 168.89 0.00097749 29931000 3096 3645 2805.2 3193.1 3459.8 4216.1 3405.5 3650.3 3268.5 3995.1 TRUE FALSE FALSE 3421.651485 3763.100392 3187.478047 3254.907068 3194.710871 3856.864561 3022.304177 3556.930612 3245.754242 4167.348313 0.821062035 0.902996368 0.764869602 0.78104992 0.766605196 0.925496088 0.725234358 0.853523715 0.778853602 1 12.02491397 -9.315169625 0.466383479 1.050122118 0.806079273 0 0.090897219 0.963313366 0.272062992 0.111784246 0.015904204 4.84E-10 9.315169625 -0.244042845 S(ph)STPPLHVHVDENTPVHVHIK ddPTM_HeLa_SAHA_4h_R1 1 SSTPPLHVHVDENTPVHVHIK 21 0 Q5BJF6-4;Q5BJF6-9;Q5BJF6-3 Q5BJF6-4 ODF2 Outer dense fiber protein 2 1 0 S(0.333)S(0.333)T(0.333)PPLHVHVDENTPVHVHIK 74.732 0.0010675 22242000 3004.1 2807.1 3063.9 3367.6 3782.2 459.01 3498.3 3094.5 3020.8 3006.6 TRUE FALSE FALSE 3320.085021 2898.051882 3481.432336 3432.784768 3492.408653 419.8997657 3104.662077 3015.347171 2999.778007 3136.22924 1.058623196 0.924056139 1.110069472 1.094557988 1.113569317 0.133886822 0.989934676 0.961456239 0.956491945 1 11.6148153 S(ph)STPSHGQTTATEPTPAQK ddPTM_HeLa_SAHA_4h_R1 2 SSTPSHGQTTATEPTPAQK 19 0 O00512 O00512 BCL9 B-cell CLL/lymphoma 9 protein 1 0 S(0.383)S(0.383)T(0.195)PS(0.04)HGQTTATEPTPAQK;S(0.25)S(0.25)T(0.25)PS(0.25)HGQTTATEPTPAQK ; 113.7 8.33E-05 0 1438.12 2181.5 1186.42 2172.9 2734.4 3356.2 2450 2548 2048.9 1870.61 TRUE FALSE FALSE 1589.38806 2252.182031 1348.099139 2214.959622 2524.890863 3070.232879 2174.319552 2482.825849 2034.641538 1951.261152 0.814543998 1.15421866 0.690886065 1.135142582 1.293978953 1.573460772 1.114314991 1.272421094 1.042731536 1 10.93019116 -5.983353408 4.061282613 0.916304323 1.313601455 0.54714277 0.158849588 0.110595781 4.190587192 0.022787557 0.041310172 1.04E-06 5.983353408 0.397297132 S(ph)STVAPAQPDGAESEWTDVETR ddPTM_HeLa_SAHA_4h_R1 1 SSTVAPAQPDGAESEWTDVETR 22 0 Q02241-2;H7BYN4;Q02241-3;Q02241;A0A2U3TZL8 Q02241-2 KIF23 Kinesin-like protein KIF23;Kinesin-like protein 1 0 S(0.462)S(0.077)T(0.462)VAPAQPDGAESEWTDVETR 120.32 1.51E-05 3107600 987.5 1004.6 592.14 863.58 823.14 1073.7 834.23 814.59 918.84 1089.8 TRUE FALSE FALSE 1091.369781 1037.149699 672.8337555 880.2958397 760.071191 982.2147195 740.3602448 793.7539673 912.4457176 1136.786611 0.96004806 0.912352141 0.591873399 0.774372104 0.668613778 0.864027347 0.651274599 0.698243592 0.802653469 1 10.15074575 -6.919568373 5.730334049 0.979016446 0.714402351 0.546424485 0.089212225 0.067123416 3.67767034 0.010633149 0.014022844 1.20E-07 6.919568373 -0.264614096 S(ph)SVDLEESSTK ddPTM_HeLa_SAHA_4h_R1 3 SSVDLEESSTK 11 0 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 S(0.5)S(0.5)VDLEESSTK;S(0.894)S(0.106)VDLEESSTK;S(0.879)S(0.121)VDLEESSTK ;; 312.95 2.90E-96 51896500 5790.4 6970.3 6157.9 7898.3 9005.5 10870.8 9363.2 9233.2 7833.1 6445.9 TRUE FALSE FALSE 6399.460839 7196.142293 6997.066543 8051.183018 8315.500536 9944.546683 8309.628093 8997.028114 7778.588819 6723.814294 0.951760498 1.070247032 1.04063947 1.197413055 1.236723706 1.479003769 1.235850327 1.338083968 1.156871454 1 12.71506416 -6.111299855 1.23510988 0.980490624 1.341554186 0.690656477 0.085561789 0.111125829 0.334606244 0.010399118 0.022244981 7.74E-07 6.111299855 0.361063562 S(ph)SVTVEER ddPTM_HeLa_SAHA_4h_R1 1 SSVTVEER 8 0 V9GZ26;Q9BQ89 V9GZ26 FAM110A Protein FAM110A 1 0 S(0.954)S(0.039)VT(0.007)VEER 101.66 0.0040649 0 659.65 684.31 648.49 682.07 776.49 722.63 1398.3 1425.5 708.62 839.61 TRUE FALSE FALSE 729.0350136 706.482093 736.86284 695.2724511 716.995504 661.0578586 1240.959604 1389.037774 703.6886557 875.8096961 0.832412586 0.806661648 0.841350402 0.793862473 0.818665867 0.754796232 1.416928369 1.586004106 0.8034721 1 9.774473612 -4.670884351 4.969758553 0.880462637 1.540689597 0.918022129 0.079451349 0.049201574 2.004474957 0.013877414 0.055000978 2.13E-05 4.670884351 0.66022696 S(ph)T(ph)AKMPT(ph)TPVKAK ddPTM_HeLa_SAHA_4h_R1 1 STAKMPTTPVKAK 13 2 F8WDP1;A0A0A0MRY0;Q8WUA7;B0QYI1;Q8WUA7-2 F8WDP1 TBC1D22A TBC1 domain family member 22A 3 0 S(1)T(1)AKMPT(0.783)T(0.217)PVKAK 50.966 0.0087481 0 2132.7 2643.4 1805.5 2316.8 2772.2 2733.6 2373.1 2447.5 2590 2361.3 TRUE FALSE FALSE 2357.027171 2729.047894 2051.544137 2361.645014 2559.794635 2500.681901 2106.072542 2384.896494 2571.975979 2463.107199 0.956932436 1.107969599 0.832908993 0.95880724 1.039254254 1.015255001 0.855047049 0.968247137 1.044199773 1 11.2662637 -5.433257107 0.006242749 1.919240629 8.57E-08 0.071320953 0.077079028 26065.7352 40.30457937 6024.179827 6369.073658 3.69E-06 5.433257107 -1.919240544 S(ph)T(ph)HGSLS(ph)GLGLMGIK ddPTM_HeLa_SAHA_4h_R1 1 STHGSLSGLGLMGIK 15 0 Q96IC2-2;Q96IC2 Q96IC2-2 44M2.3 Putative RNA exonuclease NEF-sp 3 0 S(0.999)T(0.953)HGS(0.105)LS(0.943)GLGLMGIK 53.491 0.0087901 0 148.21 148.98 185.27 0 299.51 290.73 194.75 284.49 215.65 233.9 TRUE FALSE FALSE 163.7994078 153.8070497 210.5176308 0 276.5616085 265.9581684 172.8362174 277.2131577 214.1492741 243.9845737 0.671351493 0.630396617 0.862831726 0 1.133520879 1.09006141 0.70838994 1.136191332 0.877716451 1 7.930646124 -2.528586081 13.05823153 0.815524555 0.956608864 0 0.324202509 0 0 0.041631396 0 0.002960833 2.528586081 0.141084309 S(ph)T(ph)MDSFT(ph)LIMQTYNRTDLLLK ddPTM_HeLa_SAHA_4h_R1 1 STMDSFTLIMQTYNRTDLLLK 21 1 C9IYF5;F5GZK1;C9JEG3;Q9UBQ6 C9IYF5 EXTL2 Exostosin-like 2;Processed exostosin-like 2 3 0 S(0.855)T(0.863)MDS(0.298)FT(0.938)LIMQT(0.013)Y(0.016)NRT(0.017)DLLLK 43.162 0.0083746 0 514.75 443.25 515.28 374.4 380.81 416.7 484.61 567.88 424.86 481.52 TRUE FALSE FALSE 568.8937668 457.6115908 585.4996749 381.6470534 351.6324201 381.1948157 430.0804074 553.3544519 421.9033647 502.2806837 1.132621232 0.911067468 1.165682245 0.759828251 0.700071557 0.758927883 0.856255121 1.10168372 0.839975293 1 8.972349984 -6.254886715 24.94944594 1.057465882 0.824753004 0.251545176 0.138265234 354.362892 1349245.357 0.018609208 0.030381842 5.56E-07 6.254886715 -0.232712878 S(ph)T(ph)RES(ph)FNPES(ph)YELDK ddPTM_HeLa_SAHA_4h_R1 1 STRESFNPESYELDK 15 1 Q5T5U6;P49903-2;P49903-4;P49903 Q5T5U6 SEPHS1 "Selenide, water dikinase 1" 4 0 S(1)T(1)RES(0.997)FNPES(0.731)Y(0.273)ELDK 61.641 0.0078148 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 S(ph)T(ph)RRS(ph)TRS(ph)ES(ph)IK ddPTM_HeLa_SAHA_4h_R1 1 STRRSTRSESIK 12 3 A0A087WYF0 A0A087WYF0 ZCCHC17 5 0 S(0.963)T(0.968)RRS(0.803)T(0.31)RS(0.957)ES(1)IK 51.591 0.018955 2741600 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 S(ph)TAALEEDAQILK ddPTM_HeLa_SAHA_4h_R1 3 STAALEEDAQILK 13 0 E9PDQ5;B1ALK7;A0A2R8YG42;Q14155-6;Q14155-1;Q14155-5;Q14155-2;Q14155-3;Q14155;Q15052-2;Q15052 E9PDQ5 ARHGEF7;ARHGEF6 Rho guanine nucleotide exchange factor 7;Rho guanine nucleotide exchange factor 6 1 0 S(0.987)T(0.013)AALEEDAQILK;S(0.977)T(0.023)AALEEDAQILK;S(0.988)T(0.012)AALEEDAQILK ;; 244.57 7.21E-32 47265900 3241.13 2782.16 2280.26 3553.55 4650.65 3850.99 3993.55 4479.54 3077.52 2850.26 TRUE FALSE FALSE 3582.046924 2872.303809 2591.001958 3622.334099 4294.318202 3522.863987 3544.185244 4364.959853 3056.103288 2973.148657 1.204799133 0.966081465 0.871467342 1.218349473 1.444367133 1.184893321 1.192064593 1.468127011 1.027901272 1 11.53777588 -6.008971756 24.80974665 1.070759324 1.306751934 0.571798357 0.121847314 295.3692432 816793.0918 0.019961958 0.034862524 9.80E-07 6.008971756 0.23599261 S(ph)TDEY(ph)SEADEEEEEEEGKPSR ddPTM_HeLa_SAHA_4h_R1 1 STDEYSEADEEEEEEEGKPSR 21 1 Q96T23-3;Q96T23-2;Q96T23 Q96T23-3 RSF1 Remodeling and spacing factor 1 2 0 S(0.809)T(0.172)DEY(0.707)S(0.312)EADEEEEEEEGKPSR 105.32 0.00017976 6271700 1109.6 1068.5 777.49 960.67 1213.3 918.54 1110.8 1075.9 730.04 800.24 TRUE FALSE FALSE 1226.312819 1103.120101 883.4422882 979.265157 1120.337216 840.2752244 985.8098605 1048.380036 724.9595922 834.7422627 1.469091567 1.321509825 1.058341392 1.173134752 1.34213549 1.006628347 1.18097514 1.255932619 0.868483153 1 9.705187006 -6.77627878 24.99238355 1.235204423 1.17065074 0 0.181181396 910.6742153 1533747.44 0.031662949 0.041712783 1.67E-07 6.77627878 -0.064553684 S(ph)TDSSSVSGSLQQETK ddPTM_HeLa_SAHA_4h_R1 4 STDSSSVSGSLQQETK 16 0 Q9H8G2;A0A3B3ISJ3 Q9H8G2 CAAP1 Caspase activity and apoptosis inhibitor 1 1 0 S(0.882)T(0.118)DSSSVSGSLQQETK;S(0.989)T(0.011)DSSSVSGSLQQETK;S(0.855)T(0.145)DSSSVSGSLQQETK;S(0.975)T(0.024)DSSSVSGSLQQETK ;;; 291.06 2.97E-73 49431000 3592 4507.63 3564.28 4289.91 4625.86 4656.82 4920.69 5014.92 4290.25 3712.8 TRUE FALSE FALSE 3969.823041 4653.68017 4050.001516 4372.947411 4271.427606 4260.032737 4367.001011 4886.645608 4260.393801 3872.876978 1.025032053 1.201608054 1.045734615 1.129121177 1.102908156 1.099965933 1.127585781 1.261761124 1.100059161 1 11.91918996 -1 0.133361172 0.952057809 1.799705479 0.278502063 0.063446955 40.45857533 0.361435303 0.170226061 6.503288691 0.1 1 0.84764767 S(ph)TEFPR ddPTM_HeLa_SAHA_4h_R1 1 STEFPR 6 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 S(0.988)T(0.012)EFPR 95.741 0.02207 9743300 1802.9 1482.8 1080.5 1511.4 1711.6 2087.1 1645.5 1800.7 2082.1 1730.4 TRUE FALSE FALSE 1992.537294 1530.843693 1227.744913 1540.655333 1580.457578 1909.267338 1460.344009 1754.640701 2067.610497 1805.006012 1.103895101 0.848110024 0.680188822 0.853545818 0.87559685 1.057762315 0.809052158 0.972096874 1.145486764 1 10.81778793 -7.254604211 24.89865599 1.049061576 0.867892477 0.474117962 0.100484857 370.4599357 1349485.353 0.016845649 0.020386255 5.56E-08 7.254604211 -0.181169098 S(ph)TELLLGVK ddPTM_HeLa_SAHA_4h_R1 2 STELLLGVK 9 0 Q6R327-3;Q6R327 Q6R327-3 RICTOR Rapamycin-insensitive companion of mTOR 1 0 S(0.954)T(0.046)ELLLGVK;S(0.961)T(0.039)ELLLGVK ; 126.03 0.00039614 2420000 1386.02 1829.31 1381.01 1405.6 1823.36 2102.8 2017.88 1625.77 2461.04 1931.56 TRUE FALSE FALSE 1531.807943 1888.580844 1569.206851 1432.807421 1683.654551 1923.62961 1790.822832 1584.185157 2443.913422 2014.839004 0.760263197 0.937335857 0.778824932 0.711127498 0.835627336 0.954731175 0.888816837 0.786258929 1.212957173 1 10.97644885 -9.471157032 1.156182032 1.001917561 0.827870391 0.477841745 0.10158273 0.403071088 0.946643819 0.057175248 0.013435846 3.38E-10 9.471157032 -0.174047171 S(ph)TELVLSPDMPR ddPTM_HeLa_SAHA_4h_R1 5 STELVLSPDMPR 12 0 Q8TDY2-2;Q8TDY2 Q8TDY2-2 RB1CC1 RB1-inducible coiled-coil protein 1 1 0 S(0.633)T(0.367)ELVLSPDMPR;S(0.986)T(0.014)ELVLSPDMPR;S(0.992)T(0.008)ELVLSPDMPR;S(0.993)T(0.007)ELVLSPDMPR;S(0.995)T(0.005)ELVLSPDMPR ;;;; 281.26 6.53E-67 70627700 4250.3 3701.27 3346.87 4093.01 4181.08 4628.51 4698.26 4081.13 3795.85 3722.81 TRUE FALSE FALSE 4697.366055 3821.193576 3802.964014 4172.236127 3860.726554 4234.134909 4169.59942 3976.740604 3769.434371 3883.318558 1.209626762 0.98400209 0.979307764 1.074399657 0.994182294 1.090339318 1.073720674 1.024057271 0.970673488 1 11.92307434 -7.203006434 24.99905233 1.098991092 1.033537597 0 0.072145084 437.0267768 186970.7973 0.014040394 0.017195897 6.27E-08 7.203006434 -0.065453495 S(ph)TEPELIQVK ddPTM_HeLa_SAHA_4h_R1 1 STEPELIQVK 10 0 M0QXM4;Q15758-3;Q15758-2;Q15758 M0QXM4 SLC1A5 Amino acid transporter;Neutral amino acid transporter B(0) 1 0 S(0.977)T(0.023)EPELIQVK 99.5 0.0051393 0 529.2 989.45 663.49 836.87 755.2 853.78 951.46 727.91 606.52 683.43 TRUE FALSE FALSE 584.8636841 1021.508829 753.9069619 853.068829 697.3367392 781.0331408 844.3992167 709.2911162 602.2991779 712.8960119 0.820405325 1.432900188 1.057527254 1.196624493 0.978174555 1.095577935 1.184463376 0.994943308 0.8448626 1 9.47754784 S(ph)TEPSVTPDLLNFK ddPTM_HeLa_SAHA_4h_R1 2 STEPSVTPDLLNFK 14 0 A0A494BZV2;Q6WCQ1;Q6WCQ1-2 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 S(0.986)T(0.014)EPSVTPDLLNFK;S(0.99)T(0.01)EPSVTPDLLNFK ; 240.18 5.97E-33 9179100 2121.67 2424.56 2524.6 2543.8 3240.9 3059.4 2886.5 2600.3 3274.7 2727.2 TRUE FALSE FALSE 2344.836985 2503.117335 2868.63934 2593.038927 2992.582942 2798.721908 2561.703423 2533.788091 3251.911096 2844.782939 0.824258664 0.879897479 1.008386018 0.911506777 1.051954756 0.983808596 0.9004917 0.890678883 1.143113962 1 11.47410286 -6.775424212 24.98987077 0.911908714 0.958556464 0 0.095895596 517.4960599 924725.8093 0.013132555 0.017306603 1.68E-07 6.775424212 0.046647751 S(ph)TFSTNYR ddPTM_HeLa_SAHA_4h_R1 5 STFSTNYR 8 0 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 S(0.971)T(0.018)FS(0.005)T(0.005)NYR;S(0.639)T(0.013)FS(0.089)T(0.258)NYR;S(0.983)T(0.014)FS(0.001)T(0.002)NYR;S(0.977)T(0.021)FS(0.001)TNYR;S(0.966)T(0.021)FS(0.006)T(0.006)NYR ;;;; 123.96 0.0029491 256918000 4741.93 4579.75 4207.84 4091.72 4964 3896.33 4356.5 5696.07 3520.06 4612.32 TRUE FALSE FALSE 5240.707954 4728.136905 4781.262522 4170.921157 4583.659392 3564.340764 3866.295154 5550.372777 3495.563616 4811.179687 1.08927712 0.982739621 0.99378174 0.866922757 0.952710082 0.740845488 0.803606476 1.153640716 0.726550211 1 12.23217497 -6.527268485 1.835192078 1.040657199 0.89052675 0 0.144797106 0.322617793 2.175827909 0.017107221 0.027156281 2.97E-07 6.527268485 -0.150130449 S(ph)TGDIAGTVVPETNKEPR ddPTM_HeLa_SAHA_4h_R1 1 STGDIAGTVVPETNKEPR 18 1 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1;A0A3B3IT83;A0A3B3IS03 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 S(0.85)T(0.15)GDIAGTVVPETNKEPR 143.04 8.41E-05 3127800 807.17 848.72 794.12 760.25 1190.6 1016.2 953.64 996.87 1192.9 967.06 TRUE FALSE FALSE 892.071844 876.2190849 902.338538 774.9657381 1099.376485 929.614043 846.3339174 971.3715089 1184.598512 1008.754689 0.884329811 0.868614634 0.894507404 0.768240035 1.089835316 0.921546192 0.838988831 0.962941257 1.174317725 1 9.978359665 -9.263546116 0.993792088 0.999980452 0.901750326 0.278334216 0.097523693 0.747050923 1.323446612 0.051549451 0.01406286 5.45E-10 9.263546116 -0.098230126 S(ph)TGGAPTFNVTVTK ddPTM_HeLa_SAHA_4h_R1 1 STGGAPTFNVTVTK 14 0 P07737;K7EJ44 P07737 PFN1 Profilin-1 1 0 S(0.912)T(0.075)GGAPT(0.012)FNVT(0.001)VTK 91.592 0.0081783 3228100 751.46 857.49 658.56 668.8 488.74 934.78 794.88 842.39 991.17 666.63 TRUE FALSE FALSE 830.5020106 885.2732386 748.3051272 681.7455911 451.2928468 855.1314851 705.4380104 820.8428836 984.2723673 695.3716817 1.194328202 1.273093601 1.076122521 0.980404594 0.648995147 1.229747353 1.014476184 1.180437606 1.415462253 1 9.441640506 -6.510152814 23.92801246 1.111104861 1.005596401 0.126922737 0.186235125 723.6884928 1360719.838 0.026113677 0.038710008 3.09E-07 6.510152814 -0.10550846 S(ph)TGVVNIPAAECLDEYEDDEAGQKER ddPTM_HeLa_SAHA_4h_R1 2 STGVVNIPAAECLDEYEDDEAGQKER 26 1 Q96IZ0;H0YI16 Q96IZ0 PAWR PRKC apoptosis WT1 regulator protein 1 0 S(0.818)T(0.182)GVVNIPAAECLDEYEDDEAGQKER;S(0.5)T(0.5)GVVNIPAAECLDEYEDDEAGQKER ; 107.71 8.36E-07 9884300 307.53 707.55 467.25 456.42 725.14 447.1 940.38 715.39 813.41 367.28 TRUE FALSE FALSE 339.8774164 730.4750842 530.9243967 465.2546691 669.5799299 409.0045647 834.5659675 697.0913597 807.7494136 383.1152382 0.887141472 1.906671965 1.385808612 1.214398757 1.747724609 1.06757582 2.17836798 1.819534412 2.108371928 1 8.581634599 -5.097646647 0.278875382 0.87290869 2.401375051 0 0.506999877 3.557624923 0.308980337 0.216251428 1.795673466 7.99E-06 5.097646647 1.528466361 S(ph)TPEHTWSSR ddPTM_HeLa_SAHA_4h_R1 2 STPEHTWSSR 10 0 O14646-2;O14646 O14646-2 CHD1 Chromodomain-helicase-DNA-binding protein 1 1 0 S(0.914)T(0.084)PEHT(0.002)WSSR;S(0.5)T(0.5)PEHTWSSR ; 127.51 0.0019983 7389000 1753.97 2653 1201.79 2043.51 2745.2 3619.9 2496 2215.9 3318 2357.8 TRUE FALSE FALSE 1938.460612 2738.958941 1365.563683 2083.065091 2534.863369 3311.464155 2215.143511 2159.220487 3294.909768 2459.456297 0.788166317 1.113644078 0.555229904 0.846961621 1.030660058 1.346421223 0.900663904 0.877925942 1.33969031 1 11.2641237 -5.709820231 7.014254973 0.883453388 1.052354287 0.005648291 0.230885902 0.314233837 33.81215534 0.026812652 0.053590012 1.95E-06 5.709820231 0.168900899 S(ph)TPLEENVVDREQIDFLAAR ddPTM_HeLa_SAHA_4h_R1 1 STPLEENVVDREQIDFLAAR 20 1 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 S(0.674)T(0.326)PLEENVVDREQIDFLAAR 91.337 0.00071292 3362600 489.98 670.63 621.28 501.06 509.39 635.18 688.23 473.54 662.51 681.66 TRUE FALSE FALSE 541.5183445 692.358852 705.9448029 510.7587408 470.3606482 581.0590906 610.7885491 461.4275325 657.899539 711.0496986 0.761575943 0.973713727 0.99282062 0.718316514 0.66150179 0.817184919 0.858995581 0.648938511 0.925251133 1 9.47380659 -6.245729718 24.86669851 0.899583722 0.747360784 0.517359291 0.089003819 735.9333749 1164903.167 0.016904194 0.027967684 5.68E-07 6.245729718 -0.152222939 S(ph)TPLSQPSANGVQTEGLDYDR ddPTM_HeLa_SAHA_4h_R1 3 STPLSQPSANGVQTEGLDYDR 21 0 A0A0U1RRM6;Q8N8S7-3;Q8N8S7-2;Q8N8S7 A0A0U1RRM6 ENAH Protein enabled homolog 1 0 S(0.846)T(0.154)PLSQPSANGVQTEGLDYDR;S(0.845)T(0.154)PLS(0.001)QPSANGVQTEGLDYDR;S(0.791)T(0.159)PLS(0.05)QPSANGVQTEGLDYDR ;; 251.38 2.16E-44 36602100 1377.94 1795.068 1496.68 1661.3 2000.21 2452.93 1940.67 1877.44 1559.87 1803.38 TRUE FALSE FALSE 1522.878051 1853.229381 1700.639756 1693.456864 1846.954342 2243.926564 1722.300704 1829.417803 1549.014738 1881.132537 0.809553831 0.985166831 0.904051002 0.900232615 0.981831054 1.192859365 0.915565847 0.972508724 0.823447953 1 10.87738578 -5.594177582 5.39654698 0.913540576 1.026744 0.291751394 0.086534931 0.228187256 12.14755381 0.013873186 0.028246438 2.55E-06 5.594177582 0.113203424 S(ph)TPPPNNLVNPVQELETER ddPTM_HeLa_SAHA_4h_R1 1 STPPPNNLVNPVQELETER 19 0 Q8NDI1-3;Q8NDI1-2;Q8NDI1 Q8NDI1-3 EHBP1 EH domain-binding protein 1 1 0 S(0.5)T(0.5)PPPNNLVNPVQELETER 91.812 0.001955 4290300 376.12 560.16 536.03 329.88 632.06 484.99 617.39 371.75 512.61 348.58 TRUE FALSE FALSE 415.6820273 578.3095515 609.0773769 336.2653044 583.6316993 443.6661235 547.9196523 362.2411733 509.0427053 363.6089897 1.143211634 1.590470995 1.675088884 0.924799204 1.605108003 1.220173692 1.50689248 0.996238222 1.399972827 1 8.506244058 -7.468727962 5.846606826 1.061701479 1.366035486 0.041659912 0.26351228 0.208523511 15.01580388 0.039288246 0.044078208 3.40E-08 7.468727962 0.304334007 S(ph)TPPPNNLVNPVQELETERR ddPTM_HeLa_SAHA_4h_R1 2 STPPPNNLVNPVQELETERR 20 1 Q8NDI1-3;Q8NDI1-2;Q8NDI1 Q8NDI1-3 EHBP1 EH domain-binding protein 1 1 0 S(0.5)T(0.5)PPPNNLVNPVQELETERR;S(0.5)T(0.5)PPPNNLVNPVQELETERR ; 139.46 2.49E-05 15135400 1394.06 1247.52 1147.89 1334.02 1266.34 1548.3 1753.31 1286.88 1423.44 1279.87 TRUE FALSE FALSE 1540.693627 1287.940467 1304.318471 1359.841886 1169.313303 1416.37613 1556.022944 1253.963473 1413.534165 1335.051459 1.15403314 0.964712227 0.976979923 1.018568892 0.875856353 1.060915008 1.165515332 0.939262277 1.058786278 1 10.38267964 -7.2367058 24.96729605 1.072737881 1.003971753 0.138648153 0.080322508 1303.741653 1316062.11 0.015155285 0.018557715 5.80E-08 7.2367058 -0.068766128 S(ph)TPPYLFPEYPEASK ddPTM_HeLa_SAHA_4h_R1 1 STPPYLFPEYPEASK 15 0 Q8TE76-2;Q8TE76-3;Q8TE76 Q8TE76-2 MORC4 MORC family CW-type zinc finger protein 4 1 0 S(0.477)T(0.477)PPY(0.045)LFPEYPEASK 104.09 0.0031252 2664500 404.75 640.82 611 601.4 947.12 874.06 772.68 609.16 753.48 927.14 TRUE FALSE FALSE 447.3234621 661.5829885 694.263898 613.0409666 874.5518702 799.5851707 685.7360128 593.5785693 748.2364713 967.1135427 0.462534586 0.684079955 0.717872171 0.633887273 0.904290791 0.826774867 0.709054297 0.613763062 0.773680068 1 9.917541467 -9.610473608 1.43451573 0.998916719 0.669939855 0.170278919 0.132459925 0.31071112 1.153809026 0.096721788 0.022574 2.45E-10 9.610473608 -0.328976864 S(ph)TPSSSTPSSR ddPTM_HeLa_SAHA_4h_R1 1 STPSSSTPSSR 11 0 H3BUV9;Q96S82 H3BUV9 UBL7 Ubiquitin-like protein 7 1 0 S(0.499)T(0.499)PS(0.001)SSTPSSR 123.01 0.0019346 1741100 365.58 743.03 444.41 616.5 805.25 1171.2 872.18 707.68 1287.1 1002.9 TRUE FALSE FALSE 404.0333817 767.1046595 504.9718804 628.433249 743.551919 1071.407171 774.0400109 689.5785703 1278.142966 1046.139927 0.386213518 0.733271563 0.482700132 0.600716245 0.710757614 1.024152834 0.739901031 0.659164757 1.221770562 1 10.03086012 -4.219921977 18.66146054 0.706298972 0.659161433 0 0.248692117 6687.503168 3004209.777 0.034586377 6.712190144 6.03E-05 4.219921977 -0.047137539 S(ph)TQGVTLTDLQEAEK ddPTM_HeLa_SAHA_4h_R1 2 STQGVTLTDLQEAEK 15 0 O14974-5;O14974-4;O14974-3;O14974-2;O14974;H0YIS4;H0YHI8;A0A3B3ISH4;F8VZN8 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 S(0.959)T(0.041)QGVTLTDLQEAEK;S(0.495)T(0.495)QGVTLT(0.01)DLQEAEK ; 165.9 3.78E-06 5096700 1718.01 2290.53 2305.24 1806.43 2459.86 2465.11 2557.55 2826.9 2249.26 1988.93 TRUE FALSE FALSE 1898.718174 2364.744675 2619.386102 1841.396065 2271.386058 2255.06876 2269.767743 2754.591991 2233.607217 2074.682506 0.915184935 1.139810389 1.262547929 0.887555594 1.0948114 1.086946438 1.094031369 1.327717366 1.076601943 1 11.01867486 -1 0.318432659 0.970897839 3.81535924 0.222763774 0.114478276 39.6927188 0.506286936 0.038946914 66.5557448 0.1 1 2.844461401 S(ph)TSATDTHHVEMAR ddPTM_HeLa_SAHA_4h_R1 3 STSATDTHHVEMAR 14 0 H3BQP2;H3BNP3;H3BTL2;H3BS02;O14874-2;O14874-3;O14874 H3BQP2 BCKDK "[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial" 1 0 S(0.75)T(0.174)S(0.057)AT(0.019)DTHHVEMAR;S(0.684)T(0.15)S(0.15)AT(0.015)DTHHVEMAR;S(0.777)T(0.196)S(0.026)ATDTHHVEMAR ;; 180.56 4.40E-07 52194700 2174.39 3138.31 1845.91 1810.94 3357.28 1987.48 3444.2 2815.03 3077.73 3368.33 TRUE FALSE FALSE 2403.102317 3239.993303 2097.461002 1845.993362 3100.045932 1818.135523 3056.649551 2743.025609 3056.311826 3513.555191 0.683951777 0.922141002 0.596962589 0.525391879 0.882310299 0.517463203 0.869959168 0.780698028 0.869863048 1 11.77871585 -9.367217291 0.677072956 1.040140487 0.714900523 0.242485395 0.142862805 0.857808005 0.56278607 0.168991839 0.027695289 4.29E-10 9.367217291 -0.325239963 S(ph)TSFRGGMGSGGLATGIAGGLAGMGGIQNEK ddPTM_HeLa_SAHA_4h_R1 4 STSFRGGMGSGGLATGIAGGLAGMGGIQNEK 31 1 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 S(0.34)T(0.34)S(0.306)FRGGMGS(0.009)GGLAT(0.005)GIAGGLAGMGGIQNEK;S(0.425)T(0.146)S(0.425)FRGGMGS(0.002)GGLAT(0.002)GIAGGLAGMGGIQNEK;S(0.471)T(0.145)S(0.252)FRGGMGS(0.123)GGLAT(0.009)GIAGGLAGMGGIQNEK;S(0.325)T(0.325)S(0.325)FRGGMGS(0.019)GGLAT(0.005)GIAGGLAGMGGIQNEK ;;; 98.39 1.38E-08 267367300 2048.91 1894.16 1736.21 3248.23 3102.53 3039.12 3521.03 2711.6 3286.51 2219.61 TRUE FALSE FALSE 2264.423755 1955.532027 1972.811657 3311.104189 2864.814822 2780.169878 3124.834438 2642.241198 3263.638909 2315.30825 0.978022583 0.844609795 0.852073005 1.430092166 1.237336248 1.200777425 1.349640782 1.141204934 1.409591535 1 11.17698856 -6.266642719 24.99006887 0.966796924 1.27027273 0.348933075 0.16727262 168.2618655 808110.2201 0.014045535 0.021856153 5.41E-07 6.266642719 0.303475806 S(ph)TSPIIGSPPVR ddPTM_HeLa_SAHA_4h_R1 1 STSPIIGSPPVR 12 0 Q86TB9-2;Q86TB9-4;Q86TB9 Q86TB9-2 PATL1 Protein PAT1 homolog 1 1 0 S(0.384)T(0.384)S(0.232)PIIGSPPVR 134.75 0.0008686 19451000 1385 1711.9 1753.5 2034.2 1856.8 2236.3 1544.2 2413.1 2650.2 1583.6 TRUE FALSE FALSE 1530.680655 1767.366683 1992.457848 2073.574883 1714.532385 2045.754659 1370.442552 2351.376396 2631.757042 1651.876746 0.926631275 1.069914379 1.206178278 1.255284262 1.037929972 1.238442677 0.829627607 1.423457532 1.593192137 1 10.68989033 -7.034830005 4.382873353 0.965954809 1.151271589 0 0.246616769 0.200521225 8.804878931 0.022077703 0.027892204 9.23E-08 7.034830005 0.18531678 S(ph)TSPPPSPEVWADSR ddPTM_HeLa_SAHA_4h_R1 3 STSPPPSPEVWADSR 15 0 E5RJ61;E5RGQ7;E5RJC0;E5RGQ0;E5RFK4;Q08495-3;Q08495-2;Q08495 E5RJ61 DMTN Dematin 1 0 S(0.585)T(0.158)S(0.236)PPPS(0.02)PEVWADSR;S(0.462)T(0.462)S(0.076)PPPS(0.001)PEVWADSR;S(0.448)T(0.448)S(0.096)PPPS(0.007)PEVWADSR ;; 93.839 0.0065971 8520600 1615.31 1645.18 1475.17 1595.9 1809.74 1836.9 1472.17 1600.76 1688.58 1370.96 TRUE FALSE FALSE 1785.215717 1698.484911 1676.198485 1626.790952 1671.078112 1680.385786 1306.517557 1559.814877 1676.829034 1430.068795 1.248342544 1.187694548 1.172110385 1.137561324 1.168529876 1.175038426 0.913604689 1.090727161 1.172551307 1 10.48186884 -4.775080201 24.99988069 1.136765461 1.002165898 0.392714764 0.073782485 229.4681276 420554.4972 0.014171113 0.0428447 1.68E-05 4.775080201 -0.134599563 S(ph)TTELDDYSTNK ddPTM_HeLa_SAHA_4h_R1 3 STTELDDYSTNK 12 0 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 S(0.983)T(0.008)T(0.008)ELDDYSTNK;S(0.923)T(0.077)TELDDYSTNK;S(0.996)T(0.004)TELDDYSTNK ;; 270.27 8.47E-54 51145000 3694.69 4363.5 3195.61 3705.55 3550.73 4334.9 3982 3827.8 5717 4295.1 TRUE FALSE FALSE 4083.314446 4504.880263 3631.091089 3777.276279 3278.673834 3965.542133 3533.93488 3729.890419 5677.214932 4480.282781 0.911396589 1.005490163 0.810460247 0.84308881 0.731800646 0.885109786 0.788774962 0.832512277 1.267155492 1 12.12937408 -6.75146261 24.95200039 0.960540227 0.814727901 0.464380354 0.106606065 84.62448121 211646.0126 0.007527571 0.010573198 1.77E-07 6.75146261 -0.145812326 S(ph)TTPPPAEPVSLPQEPPKPR ddPTM_HeLa_SAHA_4h_R1 3 STTPPPAEPVSLPQEPPKPR 20 1 Q9UN86-2 Q9UN86-2 G3BP2 Ras GTPase-activating protein-binding protein 2 1 0 S(0.703)T(0.149)T(0.149)PPPAEPVSLPQEPPKPR;S(0.333)T(0.333)T(0.333)PPPAEPVSLPQEPPKPR;S(0.333)T(0.333)T(0.333)PPPAEPVSLPQEPPKPR ;; 191.66 1.79E-14 1560476200 8408.4 12083.4 8572 9490.1 10451 12149.1 10889.8 10113.7 12291.5 10127.2 TRUE FALSE FALSE 9292.834091 12474.91009 9740.147519 9673.794608 9650.246638 11113.92833 9664.451044 9855.006198 12205.96245 10563.83315 0.879683914 1.180907527 0.922027769 0.91574663 0.913517518 1.052073444 0.914862144 0.932900592 1.155448242 1 13.3668458 S(ph)TVLGLPQHVQK ddPTM_HeLa_SAHA_4h_R1 1 STVLGLPQHVQK 12 0 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 S(0.5)T(0.5)VLGLPQHVQK 90.853 0.0093564 2717300 1562.8 2042.4 1696.3 1611.2 1616.3 1436.5 1552.6 1424.7 1912 1705.9 TRUE FALSE FALSE 1727.182474 2108.5751 1927.46293 1642.387106 1492.459443 1314.102118 1377.897362 1388.258237 1898.694236 1779.449697 0.970627311 1.184959093 1.083179217 0.922974731 0.838719659 0.738487927 0.774339035 0.780161552 1.067012031 1 10.79721544 -5.780943617 2.403334743 1.010046027 0.768560053 0.783815738 0.066598473 0.120614507 1.422216621 0.010870552 0.022817466 1.66E-06 5.780943617 -0.241485974 S(ph)VAS(ph)SQPAKPTK ddPTM_HeLa_SAHA_4h_R1 1 SVASSQPAKPTK 12 1 G3V1L9;Q07157;A0A087X0K9;G5E9E7;Q07157-2;H0YKB1 G3V1L9 TJP1 Tight junction protein ZO-1 2 0 S(0.999)VAS(0.962)S(0.039)QPAKPTK 120.6 0.020833 6513500 2332 3032 2197.3 2243.1 2854.6 2977.1 2780.2 2379.8 2934.2 2449.9 TRUE FALSE FALSE 2577.29046 3130.238789 2496.736601 2286.518444 2635.881165 2723.434331 2467.364579 2318.928162 2913.780663 2555.527179 1.008516161 1.224889649 0.976994736 0.894734544 1.031443213 1.065703528 0.965501208 0.907416748 1.140187703 1 11.31940522 S(ph)VAVSDEEEVEEEAER ddPTM_HeLa_SAHA_4h_R1 2 SVAVSDEEEVEEEAER 16 0 Q9Y6X9-2;Q9Y6X9 Q9Y6X9-2 MORC2 MORC family CW-type zinc finger protein 2 1 0 S(0.849)VAVS(0.151)DEEEVEEEAER;S(0.977)VAVS(0.023)DEEEVEEEAER ; 261.61 3.80E-47 44553000 3124.4 2822.7 2375.8 2734.6 3466.3 3754.3 2964.7 3102.6 3330.2 3077.9 TRUE FALSE FALSE 3453.038727 2914.157332 2699.561651 2787.532137 3200.712843 3434.412519 2631.104153 3023.239985 3307.024867 3210.603332 1.075510853 0.907666576 0.840826901 0.868226887 0.99691943 1.069709386 0.819504586 0.941642325 1.030032217 1 11.64862872 -7.252961704 24.61303986 1.035657903 0.920333668 0.351225832 0.071335363 432.5578908 1255835.475 0.012644703 0.015349526 5.59E-08 7.252961704 -0.115324235 S(ph)VDEVNYWDK ddPTM_HeLa_SAHA_4h_R1 2 SVDEVNYWDK 10 0 F5H5P2;P12694;P12694-2;F5GXU9 F5H5P2 BCKDHA "2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial" 1 0 S(1)VDEVNYWDK;S(1)VDEVNYWDK ; 198.74 5.32E-10 9474700 1025.09 2466.51 1094.5 1295.3 1873.67 2464.6 1492.08 1301.43 3269 2079.27 TRUE FALSE FALSE 1132.913669 2546.426542 1243.65276 1320.372405 1730.109809 2254.602215 1324.187231 1268.141305 3246.250763 2168.917505 0.522340599 1.174054124 0.573397908 0.608770228 0.797683547 1.039505748 0.61052909 0.584688584 1.496714723 1 11.08275947 -9.644518616 1.473250124 1.000091927 0.71657558 0.287442325 0.260636517 0.535996088 2.090229439 0.148125477 0.033486304 2.27E-10 9.644518616 -0.283516347 S(ph)VDEVNYWDKQDHPISR ddPTM_HeLa_SAHA_4h_R1 1 SVDEVNYWDKQDHPISR 17 1 F5H5P2;P12694;P12694-2 F5H5P2 BCKDHA "2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial" 1 0 S(0.997)VDEVNY(0.003)WDKQDHPISR 67.214 0.013059 9855300 801.89 985.9 882.03 1010.4 1064.9 1159.4 1306.9 1355.4 1341 1627.4 TRUE FALSE FALSE 886.2364694 1017.843807 1002.228455 1029.957753 983.3075921 1060.612597 1159.844172 1320.730831 1331.667872 1697.565178 0.522063294 0.599590413 0.590391737 0.606726485 0.579245854 0.62478461 0.683239847 0.778014799 0.78445758 1 10.72925125 -9.345948219 1.008190441 1.005713492 0.614866937 0.543162341 0.090892064 0.187407716 0.333056495 0.053580761 0.013229864 4.51E-10 9.345948219 -0.390846555 S(ph)VDFDSLTVR ddPTM_HeLa_SAHA_4h_R1 4 SVDFDSLTVR 10 0 Q9Y5K6 Q9Y5K6 CD2AP CD2-associated protein 1 0 S(1)VDFDSLTVR;S(1)VDFDSLTVR;S(0.997)VDFDS(0.003)LTVR;S(1)VDFDSLTVR ;;; 220.5 1.14E-15 60658200 3633.75 3280.28 3095.11 5136.6 4973.98 4367.46 4843.3 5858.1 4952.98 3870.37 TRUE FALSE FALSE 4015.964497 3386.563224 3516.895472 5236.026321 4592.874727 3995.327837 4298.319137 5708.258284 4918.511809 4037.240592 0.99473004 0.838831164 0.871113671 1.296931952 1.137627204 0.989618465 1.064667572 1.413900944 1.218285534 1 11.97915385 -6.26755508 24.99233612 0.974404692 1.161119537 0.307060959 0.145329381 420.8258569 1719739.994 0.019024124 0.029521591 5.40E-07 6.26755508 0.186714845 S(ph)VEDDEEGHLICQSGDVLSAR ddPTM_HeLa_SAHA_4h_R1 2 SVEDDEEGHLICQSGDVLSAR 21 0 F8WBF5;P49759;P49759-3 F8WBF5 CLK1 Dual specificity protein kinase CLK1 1 0 S(1)VEDDEEGHLICQSGDVLSAR;S(1)VEDDEEGHLICQSGDVLSAR ; 189.07 5.81E-15 10835000 1072.44 1393.4 1120.66 1359.09 1366.51 1532.59 1474.27 1563.35 1333.56 1378.97 TRUE FALSE FALSE 1185.24416 1438.547074 1273.377709 1385.397152 1261.808299 1402.00471 1308.38126 1523.361771 1324.279647 1438.424145 0.823987948 1.000085461 0.885258853 0.963135357 0.877215739 0.974681018 0.909593505 1.059049082 0.920646147 1 10.49027343 S(ph)VEEPTQPGGTGLSDSR ddPTM_HeLa_SAHA_4h_R1 2 SVEEPTQPGGTGLSDSR 17 0 Q9H0B6;Q9H0B6-2 Q9H0B6 KLC2 Kinesin light chain 2 1 0 S(1)VEEPTQPGGTGLSDSR;S(1)VEEPTQPGGTGLSDSR ; 193.41 3.23E-12 17376900 990.18 1387.03 1154.48 793.63 1195 1351.97 1141.44 1086.93 1693.02 1144.12 TRUE FALSE FALSE 1094.331676 1431.970682 1311.806522 808.9918563 1103.439358 1236.77455 1013.002167 1059.127904 1681.238136 1193.448612 0.916949137 1.199859522 1.099173026 0.677860653 0.924580536 1.036303145 0.848802501 0.88745162 1.408722687 1 10.22092073 -6.32115028 24.99977372 0.990955444 0.885256682 0.178061996 0.174398569 360.7592903 151042.04 0.018555835 0.028344509 4.77E-07 6.32115028 -0.105698762 S(ph)VELDLNQAHMEETPK ddPTM_HeLa_SAHA_4h_R1 4 SVELDLNQAHMEETPK 16 0 Q14680-3;Q14680-4;Q14680-5;Q14680-2;Q14680-8;Q14680-7;Q14680-6;Q14680 Q14680-3 MELK Maternal embryonic leucine zipper kinase 1 0 S(1)VELDLNQAHMEETPK;S(1)VELDLNQAHMEETPK;S(1)VELDLNQAHMEETPK;S(1)VELDLNQAHMEETPK ;;; 190.46 1.04E-11 42381400 5844.32 5739.9 5124.27 5901.93 6662.99 6615.83 6738.6 6296.7 6709.62 6284.9 TRUE FALSE FALSE 6459.052392 5925.876526 5822.57883 6016.170389 6152.473146 6052.124064 5980.354993 6135.639532 6662.927208 6555.872797 0.9852315 0.903903524 0.888147011 0.917676498 0.938467438 0.923160692 0.912213397 0.935899723 1.016329544 1 12.67857215 -7.315405828 5.587855787 0.993370958 0.916858733 0.852857479 0.015812495 0.05562383 3.911136833 0.00264357 0.003029653 4.84E-08 7.315405828 -0.076512225 S(ph)VENLPECGITHEQR ddPTM_HeLa_SAHA_4h_R1 4 SVENLPECGITHEQR 15 0 Q9UBF8-2;A0A0B4J1S8;Q9UBF8;F8W860;Q9UBF8-3 Q9UBF8-2 PI4KB Phosphatidylinositol 4-kinase beta 1 0 S(1)VENLPECGITHEQR;S(1)VENLPECGITHEQR;S(1)VENLPECGITHEQR;S(1)VENLPECGITHEQR ;;; 221.86 2.51E-18 246518000 8822.96 9201.5 8687.42 8497.8 9030.78 9609 10269.8 9319.7 8207.7 8688.7 TRUE FALSE FALSE 9750.999414 9499.634637 9871.296355 8662.287207 8338.843587 8790.259141 9114.215075 9081.315569 8150.581947 9063.312378 1.075875906 1.048141589 1.089148861 0.955752913 0.920065782 0.969872688 1.005616346 1.001986381 0.899293945 1 13.14582269 -6.243736057 24.97180433 1.041494983 0.969746504 0.138862147 0.055163534 596.2150385 841004.2175 0.006071768 0.010051859 5.71E-07 6.243736057 -0.071748479 S(ph)VEPQDAGPLER ddPTM_HeLa_SAHA_4h_R1 3 SVEPQDAGPLER 12 0 Q9NZT2-2;Q9NZT2;A0A0A0MRN5 Q9NZT2-2 OGFR Opioid growth factor receptor 1 0 S(1)VEPQDAGPLER;S(1)VEPQDAGPLER;S(1)VEPQDAGPLER ;; 172.09 6.32E-05 33757000 2889.81 2695.57 2209.91 2509.63 2716 3448.99 2842.38 2547.47 2467.42 2744.77 TRUE FALSE FALSE 3193.773475 2782.908237 2511.065026 2558.207518 2507.900667 3155.116649 2522.547922 2482.309406 2450.249023 2863.110467 1.115490831 0.971987727 0.877040916 0.893506397 0.875935698 1.101989142 0.881051552 0.866997426 0.855799681 1 11.48336762 -7.034719819 6.018095383 1.054287716 0.92022252 0 0.0938432 0.144977046 15.54462649 0.012651894 0.015795765 9.23E-08 7.034719819 -0.134065196 S(ph)VGDGETVEFDVVEGEK ddPTM_HeLa_SAHA_4h_R1 2 SVGDGETVEFDVVEGEK 17 0 H0Y449;P67809;Q9Y2T7;P16989-2;P16989-3;P16989;A0A0D9SEI8 H0Y449;P16989-2 YBX1;YBX2;YBX3 Nuclease-sensitive element-binding protein 1;Y-box-binding protein 2;Y-box-binding protein 3 1 0 S(0.99)VGDGET(0.01)VEFDVVEGEK;S(1)VGDGETVEFDVVEGEK ; 274.81 1.42E-59 10107700 1683.11 2240.35 1990.43 2548.4 3080 3160.9 3746.8 3110.8 2653.74 2327.14 TRUE FALSE FALSE 1860.147232 2312.93881 2261.675435 2597.727967 2844.011065 2891.573537 3325.200203 3031.23024 2635.272407 2427.474394 0.766289126 0.952816975 0.931698987 1.070136094 1.171592612 1.19118601 1.369818858 1.248717699 1.085602556 1 11.24524036 -5.819740584 1.115771195 0.890442529 1.296905129 0.700306433 0.090998973 0.175460545 0.42869716 0.015627285 0.043246826 1.51E-06 5.819740584 0.4064626 S(ph)VLLSWEPGSDGLSPVR ddPTM_HeLa_SAHA_4h_R1 1 SVLLSWEPGSDGLSPVR 17 0 H7C2P2;Q58EX2-2;Q58EX2-3;Q58EX2;Q58EX2-4 H7C2P2 SDK2 Protein sidekick-2 1 0 S(0.81)VLLS(0.19)WEPGSDGLSPVR 85.909 0.0068335 9740600 929.91 919.44 772.47 638.51 864.27 993.89 972.88 922.05 655.58 874.22 TRUE FALSE FALSE 1027.7222 949.2304593 877.7381887 650.8692844 798.0498193 909.2049805 863.4089819 898.4652961 651.0177654 911.9119025 1.126997243 1.040923423 0.962525203 0.713741407 0.875139163 0.997031597 0.946811835 0.98525449 0.713904231 1 9.832750646 -6.676862716 3.955501863 1.060527891 0.904140961 0 0.135418538 0.171193789 5.145287213 0.014395047 0.020464707 2.10E-07 6.676862716 -0.15638693 S(ph)VPEDDGHALLAER ddPTM_HeLa_SAHA_4h_R1 2 SVPEDDGHALLAER 14 0 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 S(1)VPEDDGHALLAER;S(1)VPEDDGHALLAER ; 163.02 7.87E-06 7138000 866.02 944.96 763.12 936.55 996.98 898.8 802.49 901.54 1051.76 1025.52 TRUE FALSE FALSE 957.111957 975.577324 867.1140194 954.6782795 920.5916078 822.2171835 712.1917132 878.4799122 1044.440717 1069.735186 0.89471859 0.911980214 0.810587546 0.892443562 0.860578973 0.768617499 0.665764502 0.821212505 0.976354457 1 10.06303798 -1 0.092652915 1.122722398 0.00813399 0.701681285 0.051272355 50.53775468 0.33795726 0.525929954 7.190649911 0.1 1 -1.114588407 S(ph)VPGLNVDMEEEEEEEDIDHLVK ddPTM_HeLa_SAHA_4h_R1 3 SVPGLNVDMEEEEEEEDIDHLVK 23 0 Q96C24-2;Q96C24 Q96C24-2 SYTL4 Synaptotagmin-like protein 4 1 0 S(1)VPGLNVDMEEEEEEEDIDHLVK;S(1)VPGLNVDMEEEEEEEDIDHLVK;S(1)VPGLNVDMEEEEEEEDIDHLVK ;; 171.02 1.26E-10 9340100 1272.75 1257.67 1354.49 1640.35 1348.6 1412.815 1375.34 1395.27 1501.991 1332.211 TRUE FALSE FALSE 1406.623685 1298.419333 1539.072843 1672.101346 1245.270559 1292.435214 1220.583124 1359.581014 1491.538522 1389.649136 1.012214989 0.934350477 1.107526212 1.203254335 0.896104295 0.930044268 0.878339066 0.978362796 1.073320224 1 10.44050496 S(ph)VPGPLK ddPTM_HeLa_SAHA_4h_R1 1 SVPGPLK 7 0 F5H5B4;Q13043-2;Q13043 F5H5B4 STK4 Serine/threonine-protein kinase 4;Serine/threonine-protein kinase 4 37kDa subunit;Serine/threonine-protein kinase 4 18kDa subunit 1 0 S(1)VPGPLK 87.181 0.022379 8191000 3681.5 4357.4 4325.5 5588.4 5921.3 5015.4 5404 4995.5 4945.9 4446.9 TRUE FALSE FALSE 4068.737061 4498.582619 4914.956614 5696.571563 5467.611273 4588.059704 4795.927697 4867.722343 4911.481079 4638.627622 0.877142421 0.969808958 1.059571282 1.228072617 1.178713128 0.989098518 1.033910908 1.04938847 1.058822022 1 12.17948232 -6.750164472 3.781201067 0.941465807 1.095115376 0.300370631 0.079754849 0.159276266 4.94670271 0.013395053 0.018638683 1.78E-07 6.750164472 0.153649569 S(ph)VPSETVVEDSR ddPTM_HeLa_SAHA_4h_R1 3 SVPSETVVEDSR 12 0 A0A669KB77;P11137-3;P11137 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 S(0.999)VPS(0.001)ETVVEDSR;S(1)VPSETVVEDSR;S(0.999)VPS(0.001)ETVVEDSR ;; 161.87 0.00014799 20127400 553.4 662.13 981.576 925.75 822.7 932.04 998.4 1035.74 1006.55 938.79 TRUE FALSE FALSE 611.6091511 683.5834464 1115.340065 943.6692299 759.6649037 852.6249485 886.0574044 1009.247271 999.5453366 979.2658312 0.62455886 0.69805708 1.138955358 0.963649706 0.775749423 0.870677727 0.904818055 1.030616242 1.020708887 1 9.935556736 -6.794493 24.99846739 0.808405809 0.934922948 0.110048291 0.144823792 324.2135353 245201.6976 0.027794125 0.036529937 1.61E-07 6.794493 0.126517139 S(ph)VQEGENPDDGVR ddPTM_HeLa_SAHA_4h_R1 2 SVQEGENPDDGVR 13 0 H7C5M1;Q5TCT4;A2A2V2;P42696-2;P42696 H7C5M1 RBM34 RNA-binding protein 34 1 0 S(1)VQEGENPDDGVR;S(1)VQEGENPDDGVR ; 140.8 0.00036625 36259000 480.73 572.59 539.79 354.17 546.62 850.99 707.56 587.03 545.62 523.52 TRUE FALSE FALSE 531.2953871 591.1422917 613.3497701 361.0254725 504.7380937 778.4808645 627.9434866 572.0146226 541.822986 546.0915092 0.972905416 1.082496764 1.123162986 0.661108013 0.924273835 1.425550208 1.149886925 1.047470274 0.992183502 1 9.092998915 -5.296197088 24.97530057 0.976003645 1.201861073 0.366023873 0.145689332 488.9993499 351371.7604 0.020438713 0.04570407 5.06E-06 5.296197088 0.225857427 S(ph)VRLVERALGS(ph)PT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 SVRLVERALGSPTK 14 2 Q5TBR0;Q5TBR1;Q9NR45 Q5TBR0 NANS Sialic acid synthase 3 0 S(1)VRLVERALGS(1)PT(1)K 71.548 0.016136 3667800 0 130.14 0 0 63.56 0 56.853 110.19 144.48 0 TRUE FALSE FALSE 0 134.3566214 0 0 58.69004653 0 50.45575081 107.3714994 143.4745519 0 0 S(ph)VS(ph)PPPKR ddPTM_HeLa_SAHA_4h_R1 1 SVSPPPKR 8 1 Q13247 Q13247 SRSF6 Serine/arginine-rich splicing factor 6 2 0 S(1)VS(1)PPPKR 63.076 0.0081611 0 621.22 571.45 395.92 626.8 646.19 615.31 507.82 702.88 551.62 719.21 TRUE FALSE FALSE 686.5627699 589.9653549 449.8739157 638.9326204 596.6790618 562.8821264 450.6787571 684.9013474 547.7812315 750.2186628 0.915150214 0.786391201 0.599657057 0.851661858 0.795340201 0.750290754 0.600729866 0.91293563 0.730162096 1 9.551167342 -7.350649556 2.380863883 0.966098351 0.74757535 0.090788419 0.119000411 0.161969445 1.734640801 0.016312612 0.018712605 4.46E-08 7.350649556 -0.218523001 S(ph)VSEINS(ph)DDELSGK ddPTM_HeLa_SAHA_4h_R1 2 SVSEINSDDELSGK 14 0 F8WF45;A0A2R8Y7M0;P82094;P82094-2 F8WF45 TMF1 TATA element modulatory factor 2 0 S(1)VSEINS(0.999)DDELS(0.001)GK;S(1)VSEINS(1)DDELSGK ; 224.06 2.32E-17 8750300 3232.57 3672.5 3128.75 3784.6 4184.1 4174.2 3781.2 3196.25 3260.4 3112.96 TRUE FALSE FALSE 3572.586544 3791.49141 3555.119756 3857.856406 3863.515162 3818.534677 3355.729424 3114.494553 3237.710611 3247.17494 1.100213758 1.167627701 1.094834686 1.188065465 1.189808136 1.175955945 1.033430439 0.959139748 0.997085365 1 11.6649694 -8.713017616 0.815940778 1.005144318 1.118926338 0.292874964 0.070443005 0.608758405 0.804145304 0.037223787 0.015702238 1.94E-09 8.713017616 0.11378202 S(ph)VSEINSDDELSGK ddPTM_HeLa_SAHA_4h_R1 3 SVSEINSDDELSGK 14 0 F8WF45;A0A2R8Y7M0;P82094;P82094-2 F8WF45 TMF1 TATA element modulatory factor 1 0 S(0.996)VS(0.004)EINSDDELSGK;S(0.712)VS(0.26)EINS(0.01)DDELS(0.018)GK;S(0.49)VS(0.065)EINS(0.445)DDELSGK ;; 285.75 4.10E-69 56296600 4768.61 5539.92 4524.53 5417.68 5978.69 6716.07 5975.85 6370.02 6440.7 4934.43 TRUE FALSE FALSE 5270.194279 5719.417043 5141.109386 5522.54703 5520.604064 6143.823052 5303.43163 6207.084112 6395.878644 5147.177426 1.023899866 1.111175421 0.998821094 1.072927271 1.072549789 1.193629546 1.03035726 1.205919983 1.242599218 1 12.3295658 -1 0.178915124 0.985454688 1.744726655 0 0.092976526 32.72950855 0.35414724 0.061978661 6.785345254 0.1 1 0.759271967 S(ph)VSGSPEPAAK ddPTM_HeLa_SAHA_4h_R1 1 SVSGSPEPAAK 11 0 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 S(0.993)VS(0.007)GSPEPAAK 156.69 0.00027161 8249100 2618.6 3005.1 2762.3 3033.7 2905.9 3186 2773 3270.3 3045.6 3042.2 TRUE FALSE FALSE 2894.036363 3102.467212 3138.731859 3092.42165 2683.25057 2914.534876 2460.974742 3186.650461 3024.405422 3173.36413 0.911977398 0.977658751 0.989086575 0.974493164 0.845553948 0.918436951 0.775509724 1.004186828 0.953059686 1 11.63179736 -5.771390212 24.99795621 0.962626129 0.880357787 0.316253087 0.058402623 182.9062983 459487.9668 0.008516386 0.015571065 1.69E-06 5.771390212 -0.082268342 S(ph)VSKESVASMGADSGDDFASDGSSSR ddPTM_HeLa_SAHA_4h_R1 1 SVSKESVASMGADSGDDFASDGSSSR 26 1 Q5T165;Q92805 Q5T165 GOLGA1 Golgin subfamily A member 1 1 0 S(0.329)VS(0.317)KES(0.308)VAS(0.046)MGADSGDDFASDGSSSR 53.259 0.0083553 7717600 1073.2 1258.8 951.45 1015.7 1465.7 1441.1 1313.1 1380.4 1255.6 1384.7 TRUE FALSE FALSE 1186.0841 1299.585946 1081.108651 1035.360342 1353.398383 1318.310173 1165.346532 1345.091367 1246.862177 1444.401194 0.821159734 0.899740288 0.748482247 0.716809393 0.936996167 0.912703602 0.806802526 0.931244984 0.863238125 1 10.4962558 -9.265400269 0.870171269 1.005418717 0.843388021 0.050000591 0.082768445 0.538456625 0.692846817 0.058321691 0.013938868 5.43E-10 9.265400269 -0.162030696 S(ph)VSPCSNVESR ddPTM_HeLa_SAHA_4h_R1 2 SVSPCSNVESR 11 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.99)VS(0.006)PCS(0.003)NVESR;S(0.852)VS(0.147)PCS(0.001)NVESR ; 128.21 0.0014977 46859000 1825.53 1701.03 2093.1 2206.2 2298.7 2473.83 2054.52 2687.3 2396.89 2048.43 TRUE FALSE FALSE 2017.547621 1756.144488 2378.336768 2248.904191 2122.574103 2263.045767 1823.340002 2618.562757 2380.209847 2136.747842 0.944214185 0.821877272 1.113063844 1.052489277 0.993366677 1.059107547 0.853324836 1.225489833 1.113940447 1 11.06120095 -6.718337964 24.99987233 0.961536605 1.038582379 0.103993664 0.11044125 216.0269144 125300.3275 0.014675153 0.020753724 1.91E-07 6.718337964 0.077045773 S(ph)VSPLVWCR ddPTM_HeLa_SAHA_4h_R1 1 SVSPLVWCR 9 0 Q9P270 Q9P270 SLAIN2 SLAIN motif-containing protein 2 1 0 S(0.628)VS(0.372)PLVWCR 102.06 0.0093014 7649900 1662.9 993.79 1384.1 1567.7 1490.5 1871.2 1748.1 1629.5 1631.5 1215.5 TRUE FALSE FALSE 1837.811452 1025.989448 1572.71794 1598.0451 1376.298212 1711.763233 1551.399187 1587.819749 1620.146259 1267.906154 1.449485395 0.809199833 1.240405637 1.260381217 1.085489023 1.350070925 1.223591496 1.252316463 1.277812442 1 10.30823225 -9.724132822 1.637776276 0.999945206 1.242471693 0 0.184050392 0.482564695 2.337086176 0.124330448 0.027118436 1.89E-10 9.724132822 0.242526487 S(ph)VSQDLIK ddPTM_HeLa_SAHA_4h_R1 2 SVSQDLIK 8 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 S(0.983)VS(0.017)QDLIK;S(0.997)VS(0.003)QDLIK ; 131.42 0.0017928 33029000 4185.3 5992.9 4359.6 6598.4 8159.6 7010.4 8639.1 6401.3 5927.8 5468.8 TRUE FALSE FALSE 4625.529057 6187.073892 4953.703584 6726.121573 7534.413211 6413.074481 7667.005731 6237.564015 5886.547957 5704.586732 0.810843848 1.084578811 0.868372034 1.179072541 1.320764074 1.124196157 1.344007216 1.093429605 1.031897355 1 12.47790666 -6.190165626 5.102723689 0.921371832 1.224624079 0.578521245 0.105735347 0.101914098 5.03656576 0.015902036 0.02657164 6.45E-07 6.190165626 0.303252246 S(ph)VSSFPVPQDNVDTHPGSGK ddPTM_HeLa_SAHA_4h_R1 1 SVSSFPVPQDNVDTHPGSGK 20 0 C9JAY7;E7EVC7;Q676U5-4;Q676U5-5;Q676U5-3;Q676U5-2;Q676U5 C9JAY7 ATG16L1 Autophagy-related protein 16-1 1 0 S(0.803)VS(0.163)S(0.034)FPVPQDNVDTHPGSGK 136.24 3.35E-05 5911100 1375.9 1432.3 1063.4 1583.6 2173.9 2050.2 1775.5 1789.6 1361.6 1637.7 TRUE FALSE FALSE 1520.623475 1478.70746 1208.314614 1614.252868 2007.336252 1875.511426 1575.716067 1743.824623 1352.124515 1708.309262 0.890133601 0.865597051 0.707316082 0.944941823 1.175042656 1.097875817 0.922383378 1.020789773 0.791498674 1 10.73835346 -5.975736904 24.68820126 0.918673887 1.049282476 0.392627371 0.10304535 218.2498401 222072.3066 0.015922631 0.028861186 1.06E-06 5.975736904 0.130608589 S(ph)VSSSSYR ddPTM_HeLa_SAHA_4h_R1 1 SVSSSSYR 8 0 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 S(1)VSSSSYR 113.62 0.0052223 85479000 687.92 857.41 761.78 687.02 1013.8 1053.2 818.57 963.25 573.22 727.71 TRUE FALSE FALSE 760.2785819 885.1906466 865.5914112 700.3182655 936.122863 963.4614349 726.4623492 938.6114598 569.2309153 759.0851394 1.001572212 1.166128278 1.14030873 0.922581973 1.233225121 1.26924028 0.957023543 1.236503537 0.749890738 1 9.568117898 -7.274036305 22.73789896 1.000742417 1.126823614 0.297969539 0.133729092 237.8079062 429250.606 0.017401938 0.019989609 5.32E-08 7.274036305 0.126081197 S(ph)VSSSSYRR ddPTM_HeLa_SAHA_4h_R1 1 SVSSSSYRR 9 1 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 S(1)VSSSSYRR 77.288 0.015741 858850 195.99 190.17 183.87 348.76 236.86 128.12 295.4 223.48 0 262.44 TRUE FALSE FALSE 216.6051274 196.3316328 208.926846 355.5107541 218.711838 117.2034552 262.1608145 217.7637052 0 273.7550728 0.791236945 0.717179889 0.763188948 1.298645357 0.798932549 0.428132542 0.95764733 0.795469114 0 1 8.096741888 -9.259895827 0.944728663 1.002235084 0.819659377 0 0.37421238 1.171138265 1.841844658 0.147318679 0.038448584 5.50E-10 9.259895827 -0.182575707 S(ph)VSVATGLNMMK ddPTM_HeLa_SAHA_4h_R1 1 SVSVATGLNMMK 12 0 Q9UHR4 Q9UHR4 BAIAP2L1 Brain-specific angiogenesis inhibitor 1-associated protein 2-like protein 1 1 0 S(0.605)VS(0.393)VAT(0.001)GLNMMK 89.959 0.012538 2973900 457.28 430.16 612.24 482.98 821.6 471.83 487.12 556.69 333.23 639.1 TRUE FALSE FALSE 505.3788085 444.0974662 695.6728788 492.3287763 758.6491855 431.6274296 432.3079756 542.4506759 330.9110253 666.6547287 0.758081788 0.666158128 1.043528005 0.738506389 1.137994156 0.647452738 0.648473576 0.813690585 0.496375427 1 9.380795949 -9.341327544 1.027556329 1.001786402 0.80517018 0 0.22082545 0.747328203 1.392939961 0.108020765 0.027359779 4.56E-10 9.341327544 -0.196616221 S(ph)VSVDESRPELIFR ddPTM_HeLa_SAHA_4h_R1 1 SVSVDESRPELIFR 14 1 Q96BY7 Q96BY7 ATG2B Autophagy-related protein 2 homolog B 1 0 S(0.537)VS(0.463)VDESRPELIFR 67.605 0.019765 10049000 1201.4 1934 1716.3 1335.1 2061 2685.6 2327.2 1560.9 1267.8 2144.9 TRUE FALSE FALSE 1327.768764 1996.662869 1950.188426 1360.942791 1903.086625 2456.771771 2065.337331 1520.974438 1258.977277 2237.377136 0.593448795 0.892412297 0.871640456 0.608275989 0.850588215 1.098058853 0.923106479 0.679802441 0.562702307 1 11.12759274 -5.518647687 24.98022245 0.800439633 0.914554743 0.100931221 0.166883046 386.2569647 2280461.802 0.026832176 0.054726434 3.03E-06 5.518647687 0.11411511 S(ph)VSVVTGSEQKR ddPTM_HeLa_SAHA_4h_R1 1 SVSVVTGSEQKR 12 1 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 S(0.489)VS(0.489)VVT(0.015)GS(0.007)EQKR 115.12 0.0053695 6952000 1428.8 1491.5 1508.3 981.19 1516.8 1962.1 1465.5 1029.8 853.89 1373.2 TRUE FALSE FALSE 1579.08774 1539.825579 1713.843269 1000.182351 1400.583112 1794.918042 1300.598083 1003.459207 847.94771 1432.405372 1.102402832 1.074992881 1.196479225 0.6982537 0.97778404 1.253079663 0.907981852 0.70054136 0.591974679 1 10.48422412 -6.294911894 24.99315517 1.062105898 0.930653541 0 0.214098548 954.3770625 712609.4988 0.024108342 0.03682748 5.07E-07 6.294911894 -0.131452357 S(ph)VT(ph)T(ph)LAMK ddPTM_HeLa_SAHA_4h_R1 1 SVTTLAMK 8 0 Q9UM07 Q9UM07 PADI4 Protein-arginine deiminase type-4 3 0 S(1)VT(1)T(1)LAMK 46.406 0.008635 0 977.14 799.84 944.71 1083.3 929.54 1229.8 881.43 828.06 1028.8 757.92 TRUE FALSE FALSE 1079.920068 825.7553408 1073.450159 1104.268838 858.318846 1125.014121 782.2491766 806.8794242 1021.640497 790.5976404 1.365954075 1.044469777 1.357770507 1.396752003 1.085658244 1.422992005 0.989440313 1.020594273 1.292238232 1 9.626799839 -4.6570077 21.62516354 1.203608334 1.0049475 0.259008005 0.149865874 5.611695356 1147.909536 0.023830428 0.089165291 2.20E-05 4.6570077 -0.198660834 S(ph)VT(ph)VSS(ph)NS(ph)EPS(ph)TALTK ddPTM_HeLa_SAHA_4h_R1 1 SVTVSSNSEPSTALTK 16 0 F8VY01;Q6ZV73-2;Q6ZV73 F8VY01 FGD6 "FYVE, RhoGEF and PH domain-containing protein 6" 5 0 S(0.982)VT(0.511)VS(0.511)S(0.991)NS(0.664)EPS(0.664)T(0.664)ALT(0.014)K 53.567 0.016252 4216500 1046.1 945.15 919.39 1071.7 904.25 1031 1249.4 1229.8 978.77 1062.3 TRUE FALSE FALSE 1156.133598 975.7734801 1044.679681 1092.444303 834.9665604 943.1529998 1108.814224 1198.343497 971.9586599 1108.100952 1.043346814 0.880581754 0.942765801 0.985870738 0.753511274 0.85114357 1.000643689 1.08143892 0.877139089 1 10.11387361 -7.268991672 24.74080546 1.02046933 0.923915473 0 0.096224598 591.4192434 1937447.053 0.014984488 0.017313651 5.38E-08 7.268991672 -0.096553857 S(ph)VTLEEAIAEQNESER ddPTM_HeLa_SAHA_4h_R1 2 SVTLEEAIAEQNESER 16 0 Q6W2J9-4;Q6W2J9-2;Q6W2J9;H7BYY2;H7C231 Q6W2J9-4 BCOR BCL-6 corepressor 1 0 S(0.997)VT(0.003)LEEAIAEQNESER;S(0.963)VT(0.037)LEEAIAEQNESER ; 107.63 0.0019659 1500100 329.58 339.79 0 0 155.86 336.72 83.892 218.83 324.023 140.08 TRUE FALSE FALSE 364.2467366 350.7994189 0 0 143.9180405 308.0295617 74.45225137 213.2326455 321.7680976 146.1195343 2.492799736 2.400770168 0 0 0.98493361 2.108065585 0.509529761 1.459302799 2.202088167 1 7.191005251 -13.22130935 10.86213091 1.616477651 1.441590323 0 0.920682723 0 0 0 0.134502536 6.01E-14 13.22130935 -0.174887328 S(ph)VTPPEEQQEAEEPK ddPTM_HeLa_SAHA_4h_R1 2 SVTPPEEQQEAEEPK 15 0 G8JLH2;B4DIG0;P30305-3;P30305-2;P30305;P30305-4 G8JLH2 CDC25B M-phase inducer phosphatase 2 1 0 S(0.998)VT(0.002)PPEEQQEAEEPK;S(0.852)VT(0.148)PPEEQQEAEEPK ; 199.58 2.25E-12 10782100 1827.8 1837.17 1421.28 1796.53 1974.99 2094.5 2009.31 1990.56 1894.75 1698.72 TRUE FALSE FALSE 2020.05639 1896.695513 1614.964637 1831.304436 1823.666693 1916.036817 1783.217151 1939.644357 1881.56428 1771.960133 1.140012325 1.070394011 0.911400097 1.033490767 1.029180431 1.081309213 1.006352862 1.094632053 1.061854748 1 10.79113043 S(ph)VVGTPAYLAPEVLR ddPTM_HeLa_SAHA_4h_R1 1 SVVGTPAYLAPEVLR 15 0 O94806;F8WBA3;Q15139;H0Y5M6 O94806 PRKD3;PRKD1 Serine/threonine-protein kinase D3;Serine/threonine-protein kinase;Serine/threonine-protein kinase D1 1 0 S(1)VVGTPAYLAPEVLR 207.4 7.47E-13 9655400 0 62.839 71.962 54.816 0 59.278 185.52 161.14 158.98 219.26 TRUE FALSE FALSE 0 64.87502483 81.7686066 55.87704295 0 54.22718091 164.6448013 157.0182721 157.8736452 228.7133716 0 0.283652085 0.357515636 0.244310346 0 0.237096679 0.719873963 0.686528606 0.690268541 1 7.837396905 -9.463589954 1.188149616 1.001745626 0.283057304 0.404637432 0.245215729 0.30568851 0.768992979 0.180073534 0.044017109 3.44E-10 9.463589954 -0.718688322 S(ph)VVSDLEADDVK ddPTM_HeLa_SAHA_4h_R1 4 SVVSDLEADDVK 12 0 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 1 0 S(0.99)VVS(0.01)DLEADDVK;S(0.994)VVS(0.006)DLEADDVK;S(1)VVSDLEADDVK;S(0.967)VVS(0.033)DLEADDVK ;;; 203.74 1.80E-10 19207600 4183.97 6181.58 3060.02 1933.32 5257.18 7005.7 5948.9 3419.63 3866.62 5143.35 TRUE FALSE FALSE 4624.059161 6381.867248 3477.02359 1970.742204 4854.376004 6408.774947 5279.514115 3332.160816 3839.711877 5365.104989 0.861876733 1.189513954 0.648081183 0.367325935 0.904805407 1.19452927 0.984046748 0.621080263 0.715682523 1 12.38939069 -8.689659802 0.53917771 1.004622649 0.841069504 0 0.255297366 2.837185977 1.557122373 0.221932429 0.070325618 2.04E-09 8.689659802 -0.163553145 S(ph)VVSFDK ddPTM_HeLa_SAHA_4h_R1 2 SVVSFDK 7 0 Q15424-2;Q15424;Q15424-4;Q15424-3 Q15424-2 SAFB Scaffold attachment factor B1 1 0 S(0.988)VVS(0.012)FDK;S(0.996)VVS(0.004)FDK ; 109.44 0.0084657 45116000 3452 3825.4 3330 5614.1 5398.7 6167.5 4583.2 5796.2 4230.6 4570.4 TRUE FALSE FALSE 3815.097198 3949.34547 3783.795058 5722.769024 4985.052772 5641.994303 4067.486274 5647.941597 4201.15891 4767.452311 0.800238146 0.828397478 0.793672346 1.200383066 1.045642924 1.183440113 0.853178177 1.184687592 0.881216767 1 12.21900279 -6.265578757 24.99873981 0.888611218 1.082458713 0.518932922 0.110177199 287.8090497 1738150.559 0.018413039 0.028749608 5.43E-07 6.265578757 0.193847495 S(ph)WASPVYTEADGTFSR ddPTM_HeLa_SAHA_4h_R1 4 SWASPVYTEADGTFSR 16 0 E9PMS6;Q8WWI1-3;E9PMP7;E9PK58;E9PJ10;E9PLU6 E9PMS6 LMO7 LIM domain only protein 7 1 0 S(0.997)WAS(0.003)PVYTEADGTFSR;S(1)WASPVYTEADGTFSR;S(1)WASPVYTEADGTFSR;S(0.999)WAS(0.001)PVYTEADGTFSR ;;; 217.79 1.39E-20 259260000 2739.96 2629.38 2427.43 2965.04 3686.44 3475.46 2856.67 3184.72 3135.38 2524.62 TRUE FALSE FALSE 3028.161564 2714.573637 2758.227519 3022.432637 3403.985764 3179.331256 2535.229973 3103.259474 3113.560635 2633.468723 1.149875652 1.030797751 1.047374322 1.147700221 1.292586365 1.207278912 0.962696063 1.178392379 1.182304011 1 11.36274861 -6.21679081 7.291468188 1.067355833 1.157450533 0.134166946 0.092457834 0.367913569 51.87420379 0.01450693 0.024026495 6.07E-07 6.21679081 0.0900947 S(ph)WDQQIK ddPTM_HeLa_SAHA_4h_R1 2 SWDQQIK 7 0 E7EUV9;F8W8D3;Q14493;H0YAE8;Q14493-2 E7EUV9 SLBP Histone RNA hairpin-binding protein 1 0 S(1)WDQQIK;S(1)WDQQIK ; 101.38 0.012853 15405200 4120.6 3953.6 4021.3 4392.8 5393.3 3386.7 6487.7 5478.8 4161.2 3622.2 TRUE FALSE FALSE 4554.023614 4081.699234 4569.301822 4477.828996 4980.066519 3098.134107 5757.686921 5338.660229 4132.24187 3778.370769 1.205287647 1.080280228 1.209331244 1.185121649 1.318046011 0.819965614 1.5238544 1.412952978 1.093657061 1 11.88354856 -1 0.453506613 1.098656529 9.677063683 0.290099252 0.162566247 68.58336865 0.734668403 0.034084119 550.5620508 0.1 1 8.578407154 S(ph)WGQQAQEYQEQK ddPTM_HeLa_SAHA_4h_R1 4 SWGQQAQEYQEQK 13 0 Q5VZK9;Q5VZK9-2 Q5VZK9 LRRC16A Leucine-rich repeat-containing protein 16A 1 0 S(1)WGQQAQEYQEQK;S(1)WGQQAQEYQEQK;S(1)WGQQAQEYQEQK;S(1)WGQQAQEYQEQK ;;; 262.42 1.22E-42 33126000 2896.73 2788.29 2816.3 3310.1 3730.67 3565.89 3936.62 3833.18 2538.74 3075.33 TRUE FALSE FALSE 3201.421352 2878.632425 3200.090697 3374.171772 3444.826871 3262.056111 3493.661157 3735.132806 2521.072702 3207.922527 0.9979734 0.897350981 0.997558598 1.051824582 1.073849771 1.016874966 1.089072796 1.164346325 0.785889522 1 11.64742358 -6.107655406 2.657827007 0.989599877 1.081133797 0.38115686 0.078351121 0.193519116 2.664122219 0.007107246 0.012717347 7.80E-07 6.107655406 0.09153392 S(ph)WSPPPEVSR ddPTM_HeLa_SAHA_4h_R1 1 SWSPPPEVSR 10 0 Q9NR19;Q9NR19-2;F8WCJ4;C9JXD9;C9IYL0;B4DEH9;C9JY31 Q9NR19 ACSS2 "Acetyl-coenzyme A synthetase, cytoplasmic" 1 0 S(1)WSPPPEVSR 100.82 0.0097895 70821000 4509.3 4383.7 4304.2 4545.7 5258.2 5766.3 4824.9 5672.4 5113.5 4733.2 TRUE FALSE FALSE 4983.608863 4525.734756 4890.753961 4633.688597 4855.317852 5274.9788 4281.989554 5527.308222 5077.914737 4937.271416 1.009385234 0.916646944 0.990578307 0.938512025 0.983401041 1.068399599 0.867278542 1.119506658 1.028486042 1 12.26949824 S(ph)Y(ph)PT(ph)NSLTR ddPTM_HeLa_SAHA_4h_R1 1 SYPTNSLTR 9 0 E9PDV9;B3KU01;H0Y8V9;A0A0A0MQU6;Q9H2E6;Q9H2E6-2 E9PDV9 SEMA6A Semaphorin-6A 3 0 S(1)Y(1)PT(1)NSLTR 94.309 0.012289 4553100 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 S(ph)YDNLTTACDNTVPLASR ddPTM_HeLa_SAHA_4h_R1 2 SYDNLTTACDNTVPLASR 18 0 G5E953;Q13615-3;Q13615-2;Q13615 G5E953 MTMR3 Myotubularin-related protein 3 1 0 S(1)YDNLTTACDNTVPLASR;S(0.803)YDNLT(0.002)T(0.002)ACDNT(0.192)VPLASR ; 211.11 3.98E-18 36825000 1195.37 1242.41 1233.28 1132.73 1273.74 808.5 1373.69 1432.9 1481.13 1308.04 TRUE FALSE FALSE 1321.104501 1282.664899 1401.344976 1154.655627 1176.146316 739.6112515 1219.118786 1396.248493 1470.822696 1364.436006 0.968242186 0.940069665 1.027050715 0.846251215 0.862001817 0.542063716 0.893496493 1.023315485 1.077971183 1 10.41408902 -6.146707166 4.391308805 0.983297373 0.81826625 0.331179825 0.118094677 0.212210986 6.75020633 0.017123794 0.028958741 7.13E-07 6.146707166 -0.165031123 S(ph)YDSSMESR ddPTM_HeLa_SAHA_4h_R1 1 SYDSSMESR 9 0 Q9HCG8;B7WP74 Q9HCG8 CWC22 Pre-mRNA-splicing factor CWC22 homolog 1 0 S(0.974)YDS(0.012)S(0.012)MES(0.002)R 84.31 0.023168 32882000 881.51 1030 953.88 1055.9 1015.1 844.67 1246.1 831.36 772.06 918.72 TRUE FALSE FALSE 974.2312663 1063.372676 1083.869799 1076.338471 937.3232573 772.699364 1105.885548 810.095015 766.6871716 958.3305153 1.016592137 1.109609533 1.130997898 1.123139099 0.978079318 0.806297359 1.153970922 0.845319023 0.800023749 1 9.904379498 -4.225392268 22.98272046 1.022551062 0.845317855 0.144460037 0.120637845 7383.03988 4706987 0.013204477 3.317733777 5.95E-05 4.225392268 -0.177233208 S(ph)YDVPPPPMEPDHPFYSNISK ddPTM_HeLa_SAHA_4h_R1 12 SYDVPPPPMEPDHPFYSNISK 21 0 P18669;Q8N0Y7 P18669 PGAM1;PGAM4 Phosphoglycerate mutase 1;Probable phosphoglycerate mutase 4 1 0 S(0.996)Y(0.004)DVPPPPMEPDHPFYSNISK;S(0.974)Y(0.026)DVPPPPMEPDHPFYSNISK;S(1)YDVPPPPMEPDHPFYSNISK;S(0.998)Y(0.002)DVPPPPMEPDHPFYSNISK;S(0.981)Y(0.019)DVPPPPMEPDHPFYSNISK;S(0.945)Y(0.055)DVPPPPMEPDHPFYSNISK;S(0.994)Y(0.006)DVPPPPMEPDHPFYSNISK;S(0.995)Y(0.005)DVPPPPMEPDHPFYSNISK;S(0.79)Y(0.21)DVPPPPMEPDHPFYSNISK;S(0.959)Y(0.041)DVPPPPMEPDHPFYSNISK;S(0.787)Y(0.212)DVPPPPMEPDHPFY(0.001)SNISK;S(0.555)Y(0.445)DVPPPPMEPDHPFYSNISK ;;;;;;;;;;; 157.9 3.65E-07 635549400 28411.56 31978.89 23727.65 27987.03 33550.45 20722.25 33868.73 30157.33 29297.38 28077.77 TRUE FALSE FALSE 31400.01824 33015.02702 26961.13057 28528.75944 30979.82177 18956.59772 30057.73136 29385.94917 29093.49715 29288.34007 1.072099619 1.127241316 0.920541434 0.974065425 1.057752733 0.647240426 1.026269542 1.003332695 0.993347423 1 14.83803881 -6.211467984 1.372585319 1.039312711 0.92134962 0.144480246 0.11467908 0.553863998 2.049518383 0.018467794 0.035979708 6.15E-07 6.211467984 -0.117963091 S(ph)YEDLTESEDGAASGDSHK ddPTM_HeLa_SAHA_4h_R1 2 SYEDLTESEDGAASGDSHK 19 0 A0A0A0MSQ9;Q86VX9-5;Q86VX9 A0A0A0MSQ9 MON1A Vacuolar fusion protein MON1 homolog A 1 0 S(0.996)YEDLT(0.004)ESEDGAASGDSHK;S(0.999)YEDLT(0.001)ESEDGAASGDSHK ; 302.61 6.47E-92 29610000 4615.2 5556.2 3551.4 4870 6501.1 7828.2 6762.4 6537 7065.3 5603.6 TRUE FALSE FALSE 5100.647911 5736.224526 4035.366297 4964.265892 6002.987122 7161.19332 6001.476954 6369.793005 7016.132002 5845.198619 0.872621829 0.981356648 0.690372827 0.849289514 1.026994549 1.225141143 1.026736189 1.089747915 1.200323968 1 12.51303633 -5.548177736 6.429780472 0.915980566 1.108818166 0.277194332 0.130422086 0.12070781 17.17779022 0.015028673 0.030761168 2.83E-06 5.548177736 0.1928376 S(ph)YFNPSNIK ddPTM_HeLa_SAHA_4h_R1 1 SYFNPSNIK 9 0 H0YFH9;H0YGY7;H0YH40;Q8N7S5;H0YGH7;A0A3B3ISW9;Q86YW0-2;Q86YW0-3;Q86YW0 H0YFH9 PLCZ1 "Phosphoinositide phospholipase C;1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase zeta-1" 1 0 S(0.759)Y(0.241)FNPSNIK 85.676 0.021844 11850000 174.76 943.48 354.83 237.1 253.98 5332.2 281.15 9013.9 2385.5 1410.8 TRUE FALSE FALSE 193.1420586 974.049371 403.1843845 241.6894134 234.5201073 4877.866562 249.5142621 8783.33749 2368.899111 1471.626492 0.13124394 0.661886271 0.273971953 0.16423285 0.159361162 3.314609099 0.169549993 5.968455675 1.609714913 1 10.52319584 -2.689237764 1.200954809 0.589034735 200 0.678629565 1.025334779 22.92762831 1.052758917 0.133391998 11728.96311 0.002045325 2.689237764 199.4109653 S(ph)YGSRSPFEHSVEHK ddPTM_HeLa_SAHA_4h_R1 1 SYGSRSPFEHSVEHK 15 1 O14646-2 O14646-2 CHD1 Chromodomain-helicase-DNA-binding protein 1 1 0 S(0.279)Y(0.22)GS(0.279)RS(0.22)PFEHS(0.001)VEHK 55.98 0.019241 4779600 2009.9 2344.7 1588.3 2218.8 3431 2530.1 3065.9 3086.3 2405.3 2475.8 TRUE FALSE FALSE 2221.310504 2420.669818 1804.745252 2261.748082 3168.117521 2314.521246 2720.916863 3007.356915 2388.561321 2582.543854 0.860124989 0.937319928 0.69882463 0.87578303 1.226742971 0.896217597 1.05358012 1.164494036 0.924887032 1 11.33457713 -4.247409838 0.720698915 0.919346031 1.297545426 0.299878841 0.122482952 3.079315855 1.09980369 0.021530026 0.948374281 5.66E-05 4.247409838 0.378199394 S(ph)YQTETLPMILT(ph)S(ph)TSPR ddPTM_HeLa_SAHA_4h_R1 1 SYQTETLPMILTSTSPR 17 0 A0PJX4 A0PJX4 SHISA3 Protein shisa-3 homolog 3 0 S(0.354)Y(0.283)QT(0.354)ET(0.01)LPMILT(0.628)S(0.628)T(0.372)S(0.372)PR 60.631 0.017528 24140000 1788.5 2488.9 1564.8 2164.3 2126 2254.4 2026.8 2023.1 2780.1 1956.9 TRUE FALSE FALSE 1976.622636 2569.541993 1778.042795 2206.193156 1963.106339 2062.312437 1798.73913 1971.352031 2760.753058 2041.271536 0.968329103 1.258794799 0.87104668 1.080793573 0.961707595 1.010307742 0.881185623 0.965747083 1.352467327 1 10.99525239 -4.777874588 24.79029962 1.002682465 0.923466352 0.009463822 0.147604899 322.4248689 486336.7521 0.012557235 0.03783325 1.67E-05 4.777874588 -0.079216113 S(ph)YS(ph)S(ph)YKSSY(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SYSSYKSSYR 10 1 Q5JSG7;A0A669KA35;Q92824 Q5JSG7 PCSK5 Proprotein convertase subtilisin/kexin type 5 4 0 S(0.891)Y(0.254)S(0.765)S(0.857)Y(0.111)KS(0.121)S(0.125)Y(0.876)R 49.483 0.019843 8104600 921.5 1154.4 1209.2 3534 905.8 1163.9 1499.5 2162.5 2696.5 1473.2 TRUE FALSE FALSE 1018.427598 1191.803317 1373.983479 3602.40568 836.3977997 1064.729172 1330.772314 2107.186381 2677.734837 1536.716862 0.6627295 0.775551663 0.89410321 2.344222134 0.5442758 0.692859692 0.865984064 1.371226173 1.742503713 1 10.58563566 -6.499104908 24.99701343 0.831558006 1.139857334 0 0.549853753 1522.351788 1600678.729 0.072505115 0.110343771 3.17E-07 6.499104908 0.308299327 S(ph)YSPDGK ddPTM_HeLa_SAHA_4h_R1 1 SYSPDGK 7 0 A0A0R4J2E8;A8MXP9;P43243;D6REM6;B3KM87;P43243-2 A0A0R4J2E8 MATR3 Matrin-3 1 0 S(0.577)YS(0.423)PDGK 88.819 0.021017 84980000 3186.8 3243.6 2949.7 4774.2 4774.8 11205 6196.1 4510.9 6511.7 8755.6 TRUE FALSE FALSE 3522.002246 3348.694768 3351.669755 4866.611545 4408.955856 10250.27096 5498.898521 4395.51771 6466.38455 9133.096765 0.385630672 0.36665491 0.366980646 0.532854482 0.482744897 1.122321511 0.602084776 0.481273529 0.708016647 1 13.1568884 -9.40147052 1.145824158 0.998166854 0.536744474 0.196585385 0.225212059 0.417273289 0.985880211 0.151126979 0.039097706 3.97E-10 9.40147052 -0.46142238 S(ph)YSSPDITQAIQEEEK ddPTM_HeLa_SAHA_4h_R1 1 SYSSPDITQAIQEEEK 16 0 P40818-2;P40818 P40818-2 USP8 Ubiquitin carboxyl-terminal hydrolase 8 1 0 S(0.839)YS(0.12)S(0.041)PDITQAIQEEEK 156.08 1.21E-05 2698700 701.68 730.93 865.28 864.97 1009.4 940.11 845.87 1046.1 1018 1096 TRUE FALSE FALSE 775.4859218 754.6126116 983.1958522 881.7127451 932.0599901 860.0073391 750.6904814 1019.342277 1010.915655 1143.253924 0.678314682 0.660056874 0.859997794 0.771230894 0.815269443 0.752245255 0.656626202 0.891614938 0.884244203 1 10.15893016 -9.389762737 1.096728604 1.001000144 0.752921944 0.406390408 0.083440025 0.2818082 0.602550861 0.053766182 0.013548891 4.08E-10 9.389762737 -0.2480782 S(ph)YSSPDITQAIQEEEKR ddPTM_HeLa_SAHA_4h_R1 1 SYSSPDITQAIQEEEKR 17 1 P40818-2;P40818 P40818-2 USP8 Ubiquitin carboxyl-terminal hydrolase 8 1 0 S(0.577)YS(0.42)S(0.003)PDITQAIQEEEKR 145.88 5.68E-05 111750000 1443.2 1703.9 1507.9 1535 1849.5 1730.5 1994.1 1916.8 1759.6 1576.8 TRUE FALSE FALSE 1595.002398 1759.107478 1713.388759 1564.712145 1707.79171 1583.051664 1769.71862 1867.771031 1747.3548 1644.783565 0.96973391 1.069506965 1.041710773 0.95131796 1.038307864 0.962468071 1.075958356 1.135572529 1.06236154 1 10.68368204 -4.564795912 3.950179996 0.995558247 1.126148277 0.428871405 0.042314548 0.101246678 3.264298936 0.005169852 0.024719505 2.72E-05 4.564795912 0.13059003 S(ph)YTLVVAK ddPTM_HeLa_SAHA_4h_R1 4 SYTLVVAK 8 0 O43491;O43491-4;E9PHY5;E9PK52;A0A2R8Y5B3;E9PII3;E9PJP4;E9PQD2;E9PIG0;E9PRG1;E9PQN0;O43491-2;O43491-3 O43491 EPB41L2 Band 4.1-like protein 2 1 0 S(0.999)YT(0.001)LVVAK;S(0.999)YT(0.001)LVVAK;S(1)YTLVVAK;S(0.999)YT(0.001)LVVAK ;;; 179.81 4.52E-07 60011100 8590.5 8584.4 8326.3 14693.6 10505.1 9044.6 12893.7 10190.2 7562.5 7358 TRUE FALSE FALSE 9494.088205 8862.540192 9460.964802 14978.01588 9700.201508 8273.949196 11442.86694 9929.549439 7509.871947 7675.239389 1.236976168 1.154692348 1.232660549 1.951472145 1.263830483 1.078005359 1.490880787 1.293712018 0.978454425 1 12.90599603 -7.999561593 0.565671227 1.017558056 1.382463998 0.296489544 0.225732263 0.756136093 0.56173128 0.112017236 0.071493702 1.00E-08 7.999561593 0.364905943 S(ph)YTSDLQK ddPTM_HeLa_SAHA_4h_R1 1 SYTSDLQK 8 0 E9PMS6;Q8WWI1-3;E9PMP7;E9PK58;E9PJ10;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 S(0.999)YT(0.001)SDLQK 107.55 0.0072627 8064300 1729.9 1890.8 1560.5 2032.8 2330.8 1886.9 2602.1 2113 1662.1 1643.9 TRUE FALSE FALSE 1911.858819 1952.063161 1773.156813 2072.147783 2152.214608 1726.125505 2309.30486 2058.95252 1650.533311 1714.776574 1.114931734 1.138377553 1.034045391 1.208406865 1.255099142 1.006618314 1.346708892 1.200711831 0.96253549 1 10.7438049 -1.000000007 0.052574173 0.688629111 2.014999763 0.465187932 0.087551465 263.9645222 1.055843522 6.132806599 28.08864759 0.099999998 1.000000007 1.326370652 S(ph)YVTTSTR ddPTM_HeLa_SAHA_4h_R1 3 SYVTTSTR 8 0 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 S(0.98)YVT(0.016)T(0.004)STR;S(0.995)YVT(0.003)T(0.003)STR;S(1)YVTTSTR ;; 133.99 0.0011871 159580200 5293.6 4469.14 4271.3 4298.69 5691.6 5285.4 5751.8 5499.3 3872.76 4458.34 TRUE FALSE FALSE 5850.405136 4613.943068 4853.37052 4381.897361 5255.510838 4835.054185 5104.592326 5358.635869 3845.809148 4650.560856 1.257999909 0.992126157 1.043609722 0.942229872 1.130081081 1.0396712 1.097629401 1.152255832 0.826955988 1 12.183189 SAAQAAAQT(ph)NSNAAGK ddPTM_HeLa_SAHA_4h_R1 1 SAAQAAAQTNSNAAGK 16 0 Q8NC51-2;Q8NC51;Q8NC51-4;Q8NC51-3 Q8NC51-2 SERBP1 Plasminogen activator inhibitor 1 RNA-binding protein 1 0 SAAQAAAQT(0.5)NS(0.5)NAAGK 213.64 3.87E-20 3648200 768.59 1162.1 690.73 763.62 981.63 1135 1256.9 1104.7 770.07 1054.3 TRUE FALSE FALSE 849.4338226 1199.752802 784.8590872 778.4009693 906.4177215 1038.291615 1115.470304 1076.443374 764.7110202 1099.756033 0.772383872 1.090926321 0.713666544 0.707794225 0.824198908 0.944110861 1.01428887 0.978801972 0.695346056 1 10.1029678 -5.025674144 4.953956342 0.873662515 0.994022877 0.178506536 0.12707424 0.291816202 19.24025888 0.018433897 0.051967517 9.43E-06 5.025674144 0.120360362 SAAQAAAQTNS(ph)NAAGK ddPTM_HeLa_SAHA_4h_R1 2 SAAQAAAQTNSNAAGK 16 0 Q8NC51-2;Q8NC51;Q8NC51-4;Q8NC51-3 Q8NC51-2 SERBP1 Plasminogen activator inhibitor 1 RNA-binding protein 1 0 SAAQAAAQT(0.009)NS(0.991)NAAGK;SAAQAAAQT(0.005)NS(0.995)NAAGK ; 231.86 2.11E-58 4369800 1064.08 1185.54 1136.35 917.72 1311.97 1308.71 1361.54 862.99 938.71 1268.65 TRUE FALSE FALSE 1176.004817 1223.952274 1291.20586 935.4837976 1211.447142 1197.200545 1208.335936 840.9159654 932.1774407 1323.34771 0.888658973 0.924890915 0.975711712 0.706907029 0.915441295 0.904675722 0.913090284 0.635445967 0.704408549 1 10.36997646 -1 0.092527114 1.07777653 0.263623787 0 0.125606104 122.3226561 0.817055186 0.931684787 12.69607047 0.1 1 -0.814152742 SAAQAAAQTNSNAAGK ddPTM_HeLa_SAHA_4h_R1 3 SAAQAAAQTNSNAAGK 16 0 Q8NC51-2;Q8NC51;Q8NC51-4;Q8NC51-3 Q8NC51-2 SERBP1 Plasminogen activator inhibitor 1 RNA-binding protein 0 0 ;; ;; 275.19 3.03E-100 5313110 1566.68 1246.58 898.56 1282 1377.84 1546.04 1493.79 1395.66 1425.29 1235.45 FALSE FALSE TRUE 1731.470591 1286.97001 1021.011077 1306.814964 1272.270197 1414.308694 1325.704818 1359.961038 1415.371291 1288.716296 1.343562269 0.998644942 0.792269859 1.014043951 0.987238387 1.097455428 1.028701835 1.055283496 1.098279967 1 10.33171898 -7.060060914 24.9917704 1.162704437 0.993472015 0.281918548 0.10961365 270.7412379 112656.7677 0.024409045 0.02989488 8.71E-08 7.060060914 -0.169232422 SAAS(ph)PVVSSMPER ddPTM_HeLa_SAHA_4h_R1 2 SAASPVVSSMPER 13 0 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;H7C1M2 P18583-10 SON Protein SON 1 0 S(0.355)AAS(0.644)PVVSSMPER;S(0.313)AAS(0.687)PVVSSMPER ; 211.83 6.30E-16 103721000 3215.4 3198.1 2647.3 3284.2 3264.7 3522.4 3648.2 3414.7 3012.8 3210.9 TRUE FALSE FALSE 3553.610525 3301.720538 3008.060257 3347.77044 3014.559391 3222.271704 3237.694934 3327.356918 2991.833679 3349.337613 1.060989048 0.985783137 0.898106015 0.999532095 0.900046439 0.962062377 0.966667237 0.993437301 0.893261303 1 11.70966009 -7.004627058 24.84499947 1.028515423 0.952989651 0 0.054816186 117.3216655 629963.1282 0.005884722 0.007623298 9.89E-08 7.004627058 -0.075525772 SAAS(ph)REDLVGPEVGASPQSGR ddPTM_HeLa_SAHA_4h_R1 1 SAASREDLVGPEVGASPQSGR 21 1 Q86X27-3;Q86X27;H7C2H2 Q86X27-3 RALGPS2 Ras-specific guanine nucleotide-releasing factor RalGPS2 1 0 S(0.049)AAS(0.951)REDLVGPEVGASPQS(0.001)GR 124.73 9.68E-05 2650700 266.8 339.15 187.75 370.96 215.14 383.39 416.46 431.77 462.61 243.17 TRUE FALSE FALSE 294.8632481 350.1386825 213.3355922 378.1404672 198.6560197 350.7230151 369.5988247 420.7259486 459.3906593 253.6542487 1.162461301 1.380377755 0.841048763 1.490771273 0.783176393 1.382681413 1.457096921 1.658659181 1.811089945 1 7.986719516 -5.03672988 6.132171873 1.097470989 1.528125138 0.100863902 0.307373958 0.117639646 13.08074434 0.026883084 0.072174705 9.19E-06 5.03672988 0.430654149 SAASK(ac)TMNIYFPK ddPTM_HeLa_SAHA_4h_R1 2 SAASKTMNIYFPK 13 1 H0YBW4;E5RIM3;Q9Y263;H0YC16 H0YBW4 PLAA Phospholipase A-2-activating protein 0 1 ; SAASK(1)TMNIYFPK;SAASK(1)TMNIYFPK 184.1 3.47E-16 1899860 201.19 406.8 578.76 689.83 625.59 625.61 782.81 580.38 127.7 294.24 FALSE TRUE FALSE 222.3520873 419.9805869 657.6303987 703.1826572 577.6574294 572.3045084 694.7261586 565.53472 126.8113253 306.9261264 0.724448224 1.368344207 2.142634146 2.291048551 1.882073176 1.864632754 2.263496323 1.842576019 0.413165627 1 8.261747647 -6.952898025 3.349731622 0.87263821 2.051693386 0.879810277 0.219404302 0.049222092 1.143762713 0.029899783 0.03932992 1.11E-07 6.952898025 1.179055176 up SAATWDER ddPTM_HeLa_SAHA_4h_R1 2 SAATWDER 8 0 A0A087WUZ3;Q01082;Q01082-2;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 0 0 ; ; 133.6 0.0093901 15061500 5639.9 4995.1 5284.8 5486.7 5869.7 6695.6 6284.8 6029.3 4429.8 5717 FALSE FALSE TRUE 6233.130559 5156.944517 6004.985022 5592.903012 5419.964854 6125.097212 5577.617763 5875.079236 4398.972661 5963.487848 1.045215605 0.864753086 1.006958541 0.937857703 0.908858204 1.027099806 0.935294563 0.985175016 0.737650981 1 12.54194065 SAAVETASLS(ph)PSLVPAR ddPTM_HeLa_SAHA_4h_R1 2 SAAVETASLSPSLVPAR 17 0 Q2KHT3-3;Q2KHT3 Q2KHT3-3 CLEC16A Protein CLEC16A 1 0 SAAVET(0.016)AS(0.016)LS(0.946)PS(0.022)LVPAR;SAAVET(0.04)AS(0.261)LS(0.565)PS(0.134)LVPAR ; 188.9 6.54E-12 17519800 1903.54 2050.55 1491.01 2035.06 2351.5 2374.88 2219.32 2127.02 2039.37 1948.66 TRUE FALSE FALSE 2103.763071 2116.989165 1694.197078 2074.451529 2171.328578 2172.526863 1969.596273 2072.613908 2025.177858 2032.676269 1.034972023 1.041478763 0.833481014 1.020551851 1.068211702 1.068801214 0.968967023 1.019647811 0.996311065 1 10.98916475 -3.13468131 12.89856496 1.010849381 1.010375322 0 0.064717234 0 0 0.008300668 0 0.000733362 3.13468131 -0.000474059 SAAVETASLSPS(ph)LVPAR ddPTM_HeLa_SAHA_4h_R1 1 SAAVETASLSPSLVPAR 17 0 Q2KHT3-3;Q2KHT3 Q2KHT3-3 CLEC16A Protein CLEC16A 1 0 SAAVETAS(0.008)LS(0.279)PS(0.713)LVPAR 178.47 5.82E-21 0 466.07 626.31 647.82 419.61 370.05 541.46 646.06 615.36 713.52 529.63 TRUE FALSE FALSE 515.093381 646.6028549 736.1015359 427.7321583 341.6968489 495.3245618 573.3636285 599.6199822 708.5545562 552.4649412 0.932354875 1.170396177 1.332395019 0.77422498 0.618495082 0.896571936 1.037828079 1.085353907 1.282533068 1 9.109739106 SACGVCPGR ddPTM_HeLa_SAHA_4h_R1 2 SACGVCPGR 9 0 P49207 P49207 RPL34 60S ribosomal protein L34 0 0 ; ; 104.75 0.010286 1306740 389.59 487.15 510.41 579.47 465.09 555.96 436.97 489.71 573.06 318.65 FALSE FALSE TRUE 430.5688637 502.9339796 579.9660167 590.6864798 429.4549047 508.5890803 387.8009856 477.1839273 569.0720288 332.3885609 1.295378104 1.513090517 1.74484349 1.777096294 1.292026728 1.530104041 1.166709782 1.435620787 1.712068632 1 8.376726923 -8.033049166 1.01208838 1.059123793 1.48883373 0 0.272822994 0.289180673 0.626818252 0.054149436 0.042352356 9.27E-09 8.033049166 0.429709937 SADAGSQKDS(ph)DDSAATPQDETVEER ddPTM_HeLa_SAHA_4h_R1 1 SADAGSQKDSDDSAATPQDETVEER 25 1 E7EPJ7;O75962-5;O75962-4;O75962;E7EWP2;O75962-2;A0A1W2PRD7 E7EPJ7 TRIO Triple functional domain protein 1 0 S(0.09)ADAGS(0.282)QKDS(0.531)DDS(0.056)AAT(0.041)PQDETVEER 66.77 0.00093088 3830800 262.03 223.66 146.21 178.73 340.39 291.6 247.82 238.5 142.69 123.26 TRUE FALSE FALSE 289.5915176 230.9067307 166.1347374 182.1895776 314.3093917 266.7540395 219.9346414 232.3995153 141.6970087 128.5743418 2.252327436 1.795900547 1.292129791 1.416997941 2.444573212 2.074706631 1.710564007 1.80751083 1.102062874 1 7.006458958 -9.486663004 1.201475815 0.99499866 1.881335847 0.477348511 0.332369722 0.353236777 0.904170584 0.26067734 0.062171996 3.26E-10 9.486663004 0.886337187 SADEADELPPDLPKPPS(ph)PAPSSEDPGLAQPR ddPTM_HeLa_SAHA_4h_R1 1 SADEADELPPDLPKPPSPAPSSEDPGLAQPR 31 1 Q8TBE0-3;Q8TBE0-2;Q8TBE0 Q8TBE0-3 BAHD1 Bromo adjacent homology domain-containing 1 protein 1 0 SADEADELPPDLPKPPS(0.92)PAPS(0.04)S(0.04)EDPGLAQPR 84.89 1.08E-06 8830400 968.66 981.91 738.96 991.52 1066.5 1312.5 1153.8 1104.7 812.56 962.56 TRUE FALSE FALSE 1070.548103 1013.724528 839.6616205 1010.712303 984.7850004 1200.667616 1023.971387 1076.443374 806.9053288 1004.060672 1.066218539 1.009624773 0.836265819 1.00662473 0.980802284 1.195811816 1.019830191 1.072089968 0.803642002 1 9.971630734 -5.35291533 24.95583649 1.010469228 1.088370089 0.178974569 0.096821635 75.42939386 20574.43121 0.010846863 0.024254323 4.44E-06 5.35291533 0.077900861 SADFVVEAIGDDVGTLGFSVEGPSQAK ddPTM_HeLa_SAHA_4h_R1 1 SADFVVEAIGDDVGTLGFSVEGPSQAK 27 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 76.198 0.00012452 4097100 478.89 638.2 471.16 353.96 584.03 410.9 654.19 442.47 496.22 455.83 FALSE FALSE TRUE 529.2618474 658.8780987 535.3672311 360.8114076 539.2817476 375.8890083 580.5788195 431.1522581 492.7667646 475.4830621 1.113103472 1.385702565 1.125943853 0.758831253 1.134176568 0.790541322 1.221029445 0.906766807 1.036349775 1 8.893250139 SADGS(ph)APAGEGEGVTLQR ddPTM_HeLa_SAHA_4h_R1 2 SADGSAPAGEGEGVTLQR 18 0 Q01650 Q01650 SLC7A5 Large neutral amino acids transporter small subunit 1 1 0 S(0.007)ADGS(0.993)APAGEGEGVTLQR;SADGS(1)APAGEGEGVTLQR ; 188.96 8.47E-13 8100200 705.14 1360.48 1042.85 782.84 1195.63 709.17 1380.59 588.81 703.13 777.05 TRUE FALSE FALSE 779.3098605 1404.560445 1184.964167 797.9930002 1104.021088 648.7447263 1225.24238 573.7490928 698.2368611 810.5524283 0.961455217 1.732843423 1.461921679 0.984505101 1.362060058 0.800373552 1.511613977 0.707849453 0.86143331 1 9.662761695 -7.410307464 20.16943858 0.981736855 1.232082578 0.147066435 0.306003406 7.968968481 1410.146696 0.048457659 0.055412571 3.89E-08 7.410307464 0.250345723 SADS(ph)ENALSVQER ddPTM_HeLa_SAHA_4h_R1 1 SADSENALSVQER 13 0 J3KRN4;J3QRB6;Q99759;Q99759-2 J3KRN4 MAP3K3 Mitogen-activated protein kinase kinase kinase 3 1 0 S(0.325)ADS(0.675)ENALSVQER 175.27 1.55E-05 4607300 364.48 300.16 138.76 376.12 384.55 412.56 456.51 297.74 335.63 491.43 TRUE FALSE FALSE 402.8176787 309.8853809 157.6694902 383.4003465 355.0858621 377.407567 405.1422933 290.1242419 333.2943235 512.6179523 0.785804861 0.604515272 0.307576997 0.747926101 0.692691039 0.736235564 0.790339651 0.565965824 0.650180748 1 9.001740194 -8.035351673 1.077826693 0.954966107 0.645310486 0.071197858 0.164497505 0.278036995 0.679361823 0.038138719 0.030331963 9.22E-09 8.035351673 -0.309655621 SADTLWDIQK ddPTM_HeLa_SAHA_4h_R1 2 SADTLWDIQK 10 0 A0A5F9ZHM4;P07195 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain 0 0 ; ; 175.73 0.00033073 90024000 4360.6 4254.1 4303.3 4549.9 4524.1 3936 4569.4 4307.4 4050.5 3786.8 FALSE FALSE TRUE 4819.267915 4391.935631 4889.731313 4637.969894 4177.464435 3600.630657 4055.239086 4197.222945 4022.312241 3950.06748 1.220046984 1.111863444 1.237885514 1.174149535 1.057567866 0.911536493 1.026625268 1.062569935 1.0182895 1 11.94766158 -5.526382072 14.2241662 1.122282809 0.999825535 0.338265485 0.079961414 0.54459135 2196.777709 0.014304325 0.029050771 2.98E-06 5.526382072 -0.122457274 SADTLWGIQK ddPTM_HeLa_SAHA_4h_R1 3 SADTLWGIQK 10 0 P00338-3;P00338;P00338-4 P00338-3 LDHA L-lactate dehydrogenase A chain 0 0 ;; ;; 205.12 1.57E-09 47458400 4638.98 4186.02 4809.49 5129.47 4790.13 3975.57 5527.57 3995.39 3782.36 3855.38 FALSE FALSE TRUE 5126.929201 4321.649795 5464.90225 5228.758309 4423.111274 3636.82907 4905.593276 3893.193709 3756.038249 4021.6043 1.274846757 1.074608408 1.358886117 1.300167276 1.099837514 0.904322952 1.219810034 0.96806981 0.933965146 1 11.97355542 -4.243286399 22.71515405 1.142632676 0.968069288 0.089944952 0.149049016 1958.374682 2450408.302 0.020849489 0.77511701 5.71E-05 4.243286399 -0.174563388 SADVS(ph)PTTEGVK ddPTM_HeLa_SAHA_4h_R1 3 SADVSPTTEGVK 12 0 A0A0J9YX34;Q9C040;Q9C040-2 A0A0J9YX34 TRIM2 Tripartite motif-containing protein 2 1 0 SADVS(0.874)PT(0.097)T(0.029)EGVK;S(0.02)ADVS(0.764)PT(0.192)T(0.025)EGVK;SADVS(0.538)PT(0.363)T(0.099)EGVK ;; 141.34 0.00062371 36086000 6221.6 5966.3 5949.7 5874.6 7019.6 6906.9 6781.4 7277.2 6389.9 6134.7 TRUE FALSE FALSE 6876.016434 6159.612035 6760.494131 5988.311378 6481.759765 6318.393263 6018.339024 7091.059761 6345.432166 6399.196939 1.074512396 0.962560161 1.056459771 0.935791074 1.01290206 0.987372841 0.940483483 1.108117132 0.9915982 1 12.64367515 -7.257666381 24.99008089 1.035186409 0.997848801 0.013695502 0.053853947 585.2179139 3876132.576 0.008646308 0.010375262 5.53E-08 7.257666381 -0.037337608 SADVSPT(ph)TEGVKR ddPTM_HeLa_SAHA_4h_R1 1 SADVSPTTEGVKR 13 1 A0A0J9YX34;Q9C040;Q9C040-2 A0A0J9YX34 TRIM2 Tripartite motif-containing protein 2 1 0 SADVS(0.325)PT(0.644)T(0.031)EGVKR 95.236 0.010529 11159000 2579 2158.3 2164 2769.5 3056.8 3155.9 3121.9 2979.7 2722.6 2766.3 TRUE FALSE FALSE 2850.271053 2228.230336 2458.89865 2823.107677 2822.588644 2886.999565 2770.615596 2903.483589 2703.653205 2885.568731 0.987767514 0.772197977 0.852136573 0.978353989 0.978174117 1.000495859 0.960162746 1.006208432 0.936956786 1 11.49463998 -3.126741636 13.83700753 0.968195713 42.14401482 0 0.075505516 0 0 0.010719567 0 0.000746893 3.126741636 41.17581911 SAEPAEALVLACK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 SAEPAEALVLACKR 14 1 Q96CW6 Q96CW6 SLC7A6OS Probable RNA polymerase II nuclear localization protein SLC7A6OS 0 1 SAEPAEALVLACK(1)R 160.15 4.04E-07 1295100 70.18 194.42 147.74 54.473 182.88 193.13 310.3 215.05 174.36 57.952 FALSE TRUE FALSE 77.5618544 200.7193356 167.8732378 55.52740368 168.8677739 176.6742375 275.3842273 209.5493324 173.1466146 60.45059433 1.2830619 3.320386471 2.777032048 0.918558441 2.793484097 2.92262201 4.555525556 3.466456115 2.864266538 1 5.917684619 -2.647356967 0.189764967 0.640099764 10.2512272 0.195483684 1.00109563 14.48434542 0.280627878 1.003507387 36.25520412 0.002252387 2.647356967 9.611127437 SAEPPRS(ph)PLLK ddPTM_HeLa_SAHA_4h_R1 1 SAEPPRSPLLK 11 1 Q6P0Q8-2;Q6P0Q8;A0A669KBJ4;Q9Y2H9;O15021;H7C1I9;O15021-2;O15021-3;O15021-6 Q6P0Q8-2;O15021 MAST2;MAST1;MAST4 Microtubule-associated serine/threonine-protein kinase 2;Microtubule-associated serine/threonine-protein kinase 1;Microtubule-associated serine/threonine-protein kinase 4 1 0 SAEPPRS(1)PLLK 83.243 0.012567 10135000 4555.7 5092.6 4449.2 4440.3 5195.3 5219.3 5096.5 4622.7 5581.6 5647.7 TRUE FALSE FALSE 5034.889428 5257.603581 5055.513806 4526.248427 4797.237236 4774.586277 4523.028407 4504.458028 5542.757191 5891.199986 0.854645818 0.892450366 0.858146696 0.768306701 0.814305616 0.810460736 0.76776012 0.764607896 0.940853681 1 12.52434581 -13.52287875 0.093107903 1.657721669 0.651303972 0.841187911 0.029856478 26.79785252 0.188140759 3.459155502 0.273303022 3.00E-14 13.52287875 -1.006417697 SAEPRPELGPGQETGTNS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 SAEPRPELGPGQETGTNSR 19 1 Q9Y4B5;Q9Y4B5-2;Q9Y4B5-3;Q9Y4B5-4 Q9Y4B5 MTCL1 Microtubule cross-linking factor 1 1 0 SAEPRPELGPGQETGT(0.001)NS(0.999)R;SAEPRPELGPGQET(0.066)GT(0.177)NS(0.757)R ; 196.98 4.60E-15 22926000 1446.51 1595.56 1617.1 1463.45 1561.6 1944.01 1875.77 1374.08 1910.77 1579.92 TRUE FALSE FALSE 1598.660559 1647.257191 1837.469967 1491.777191 1441.950545 1778.369411 1664.703423 1338.933023 1897.472796 1648.038083 0.970038602 0.999526169 1.114943875 0.905183689 0.874949772 1.079082716 1.01011223 0.812440584 1.151352518 1 10.68653387 SAEPSANTTLVSET(ph)EEEGSVPAFGAAAK ddPTM_HeLa_SAHA_4h_R1 1 SAEPSANTTLVSETEEEGSVPAFGAAAK 28 0 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;A0A2R8Y857;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 SAEPSANT(0.006)T(0.025)LVS(0.412)ET(0.552)EEEGS(0.006)VPAFGAAAK 94.72 2.35E-06 4985100 709.7 1199.3 787.52 907.14 1226.2 1292.2 982.58 890.06 1742.4 975.86 TRUE FALSE FALSE 784.3495022 1238.158107 894.8391244 924.6990064 1132.248821 1182.09729 872.0175124 867.293554 1730.274497 1017.9341 0.770530727 1.21634407 0.879073728 0.908407535 1.112300708 1.161270941 0.85665419 0.852013459 1.699790287 1 9.991428451 SAEPSPTVMSTS(ph)LGSNLSELDR ddPTM_HeLa_SAHA_4h_R1 3 SAEPSPTVMSTSLGSNLSELDR 22 0 A0A1B0GTU4;F5GZ78;P49023;P49023-2;P49023-3;A0A1B0GU60;F5H836 A0A1B0GTU4 PXN Paxillin 1 0 SAEPSPTVMS(0.002)T(0.004)S(0.993)LGSNLSELDR;SAEPSPTVMST(0.167)S(0.787)LGS(0.045)NLS(0.001)ELDR;SAEPSPTVMS(0.002)T(0.038)S(0.961)LGSNLSELDR ;; 324.43 2.32E-192 4077200 5013.9 6757.2 4784.83 6127.6 7734 7619.6 6966.6 6294.9 6571.2 5978.5 TRUE FALSE FALSE 5541.285007 6976.137714 5436.881714 6246.208559 7141.422591 6970.367213 6182.699833 6133.885573 6525.470484 6236.262393 0.888558668 1.118640826 0.871817344 1.001594892 1.145144662 1.117715512 0.991411112 0.983583625 1.046375228 1 12.60646592 -5.995675895 24.99418361 0.955597468 1.060589445 0.105522405 0.083328953 130.093766 751955.2028 0.012056253 0.021791518 1.01E-06 5.995675895 0.104991976 SAES(ph)PSWTPAEHVAK ddPTM_HeLa_SAHA_4h_R1 2 SAESPSWTPAEHVAK 15 0 Q13415 Q13415 ORC1 Origin recognition complex subunit 1 1 0 S(0.037)AES(0.836)PS(0.127)WTPAEHVAK;SAES(0.936)PS(0.064)WTPAEHVAK ; 218.28 7.20E-18 21426900 5651.7 4907.1 4524.2 4549.9 5597.5 6138.2 5964.5 5055.3 6348.1 6526.3 TRUE FALSE FALSE 6246.171737 5066.09326 5140.734415 4637.969894 5168.620759 5615.190827 5293.358762 4925.992746 6303.923055 6807.680732 0.917518312 0.744173157 0.755137413 0.681284872 0.759233719 0.824831694 0.777556847 0.723593385 0.926001571 1 12.73294766 -7.409440768 2.153333372 0.968912528 0.75199815 0.828823205 0.040608136 0.084550576 0.750170819 0.008288983 0.009312203 3.90E-08 7.409440768 -0.216914377 SAES(ph)PTSPVTSETGSTFK ddPTM_HeLa_SAHA_4h_R1 3 SAESPTSPVTSETGSTFK 18 0 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 S(0.041)AES(0.948)PT(0.009)S(0.002)PVTSETGSTFK;S(0.001)AES(0.776)PT(0.092)S(0.131)PVTSETGSTFK;S(0.002)AES(0.8)PT(0.197)SPVTSETGSTFK ;; 233.49 5.23E-29 23297400 2478.72 3161.38 3092.93 3202.08 2843.37 3537.5 3393.82 2582.69 4260.19 2638.21 TRUE FALSE FALSE 2739.443142 3263.810786 3514.418393 3264.060889 2625.511605 3236.085099 3011.938442 2516.628529 4230.542991 2751.956144 0.995453052 1.185996657 1.277061918 1.186087538 0.954052851 1.175921755 1.094471817 0.914487149 1.537285759 1 11.42624176 -7.285167722 22.84584281 0.997852806 1.117378262 0 0.199428846 292.9996326 282101.4803 0.017800249 0.020364808 5.19E-08 7.285167722 0.119525456 SAESPT(ph)SPVTSETGSTFK ddPTM_HeLa_SAHA_4h_R1 1 SAESPTSPVTSETGSTFK 18 0 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 SAES(0.001)PT(0.483)S(0.483)PVT(0.003)S(0.029)ETGSTFK 158.14 1.37E-05 3562200 1056.3 1733.6 1272.3 1160.6 1626.8 2046.7 1462.9 1454.2 1620.2 1618.5 TRUE FALSE FALSE 1167.40648 1789.769777 1445.682418 1183.065091 1502.154935 1872.309646 1298.290642 1417.00367 1608.924896 1688.281456 0.691476221 1.06011339 0.856304151 0.700751102 0.889753856 1.109003264 0.769001305 0.839317203 0.952995658 1 10.72133972 -3.270651386 20.41236292 0.867253623 0.844576253 0 0.137946357 0 0 0.020033576 0 0.000536227 3.270651386 -0.02267737 SAESPTS(ph)PVTSETGSTFK ddPTM_HeLa_SAHA_4h_R1 1 SAESPTSPVTSETGSTFK 18 0 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 S(0.002)AES(0.004)PT(0.029)S(0.96)PVT(0.002)S(0.002)ETGSTFK 132.59 0.00010361 4624700 808.39 734.73 579.51 622.33 817.92 1325.5 952.1 713.92 818.23 685.44 TRUE FALSE FALSE 893.4201692 758.5357341 658.4826048 634.3760971 755.2511463 1212.559943 844.9672022 695.6589601 812.5358708 714.9926729 1.249551503 1.06090001 0.92096413 0.887248389 1.056306134 1.695905411 1.181784421 0.972959565 1.136425451 1 9.481784647 SAESPTS(ph)PVTSETGSTFKK ddPTM_HeLa_SAHA_4h_R1 2 SAESPTSPVTSETGSTFKK 19 1 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 SAES(0.006)PT(0.011)S(0.983)PVTSETGSTFKK;SAES(0.001)PT(0.173)S(0.826)PVTSETGSTFKK ; 134.58 4.03E-05 43063000 6031.9 6484.9 6318 5353.8 6406.7 8378.1 7135.7 6173.8 5347.2 6142 TRUE FALSE FALSE 6666.362917 6695.015015 7178.984137 5457.430541 5915.82003 7664.238746 6332.772256 6015.883136 5309.9884 6406.811678 1.040511763 1.044983894 1.12052367 0.851816912 0.92336412 1.196264091 0.98844364 0.938982358 0.828803571 1 12.64539087 GATPGK(ac)ALVATPGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 GATPGKALVATPGKK 15 2 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 2 ; GATPGK(1)ALVATPGK(1)K;GATPGK(1)ALVATPGK(1)K 192.18 2.60E-19 1801200 760.67 895.55 1063.24 1751.74 1412.39 2265.7 2491.91 2396.27 843.45 583.82 FALSE TRUE FALSE 840.6807607 924.5664076 1208.13281 1785.647461 1304.172983 2072.649614 2211.513728 2334.976883 837.5803628 608.9913373 1.380447814 1.518193036 1.983825936 2.932139345 2.141529614 3.403413951 3.631437088 3.834170931 1.375356777 1 9.250277896 -5.4746095 0.415303561 1.024475615 4.589201749 0.908736616 0.30007273 0.379372038 0.085515492 0.083686764 0.57863176 3.35E-06 5.4746095 3.564726134 up SAGAGSPARPPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SAGAGSPARPPSPR 14 1 P83369 P83369 LSM11 U7 snRNA-associated Sm-like protein LSm11 1 0 SAGAGSPARPPS(1)PR 125.33 0.0030966 1510300 503.33 400.33 576.49 570.56 529.67 755.86 556.59 645.3 664.79 682.28 TRUE FALSE FALSE 556.2725588 413.3009547 655.051055 581.6040138 489.086799 691.4564756 493.9610283 628.7941604 660.1636723 711.6964298 0.781614935 0.580726469 0.920407954 0.817207997 0.687212663 0.971560973 0.694061411 0.883514563 0.927591659 1 9.475118189 -9.087323268 0.930786357 0.996294597 0.79123146 0.26118742 0.113015985 0.477885626 0.768424839 0.06265842 0.02002105 8.18E-10 9.087323268 -0.205063137 SAGEALGSSGT(ph)PPVR ddPTM_HeLa_SAHA_4h_R1 2 SAGEALGSSGTPPVR 15 0 E7ER32;A0A087X287;A0A087WU73;A0A494BZX7;W0Z7M9;B0QY83;A0A499FIJ6;Q969V6 E7ER32 MKL1;mkl1 MKL/myocardin-like protein 1 1 0 SAGEALGS(0.001)S(0.028)GT(0.971)PPVR;SAGEALGSS(0.001)GT(0.999)PPVR ; 132.24 0.0004241 9897000 2326 2405.1 1889.85 2263.1 2508.6 2905.3 1994.47 2108.97 1811.82 2556.5 TRUE FALSE FALSE 2570.659352 2483.026818 2147.388916 2306.905573 2316.39161 2657.752095 1770.046986 2055.025601 1799.211397 2666.723226 0.963976811 0.931115308 0.805253764 0.865071242 0.86862843 0.996635897 0.663753542 0.770618256 0.674689964 1 11.38085238 -1.563902858 0.177291598 1.026969 1.44E-16 0 0.128098056 26.41219959 0.339544313 0.102882657 7.027674513 0.027295883 1.563902858 -1.026969 SAGGGAGPGGAAGGGVGGGDEPGS(ph)PAQGKR ddPTM_HeLa_SAHA_4h_R1 1 SAGGGAGPGGAAGGGVGGGDEPGSPAQGKR 30 1 Q15672 Q15672 TWIST1 Twist-related protein 1 1 0 SAGGGAGPGGAAGGGVGGGDEPGS(1)PAQGKR 181.81 4.48E-19 6897200 421 624.2 633.82 553.73 751.39 865.75 774.98 915.11 388.45 627.01 TRUE FALSE FALSE 465.2827116 644.4244896 720.1936888 564.4482449 693.8186605 791.9832294 687.7772108 891.7028113 385.7467448 654.0434696 0.711394171 0.985293057 1.101140402 0.863013349 1.060814293 1.210903046 1.051577216 1.363369337 0.589787625 1 9.353242714 -5.111468258 0.619271315 0.874360434 1.3418335 0.530725902 0.147443723 1.005901494 0.469311135 0.027568765 0.274693486 7.74E-06 5.111468258 0.467473066 SAGGRPGS(ph)GPQLGTGR ddPTM_HeLa_SAHA_4h_R1 4 SAGGRPGSGPQLGTGR 16 1 K7EM11;K7ESN1;O14908-2;O14908 K7EM11 GIPC1 PDZ domain-containing protein GIPC1 1 0 SAGGRPGS(1)GPQLGTGR;S(0.001)AGGRPGS(0.967)GPQLGT(0.032)GR;SAGGRPGS(0.974)GPQLGT(0.026)GR;SAGGRPGS(1)GPQLGTGR ;;; 149.19 0.00029229 22269100 5866.3 5646.18 5231.96 5565.5 6471 6060.4 7199.3 6342.3 5730.84 4659.4 TRUE FALSE FALSE 6483.34435 5829.119937 5944.944262 5673.2283 5975.193378 5544.019825 6389.215816 6180.07315 5690.958618 4860.289537 1.333942001 1.199335943 1.223166689 1.167261386 1.229390417 1.140676864 1.314575144 1.271544237 1.170909382 1 12.24682655 -9.462681737 1.16584061 0.998338457 1.240708828 0.294836332 0.076396364 0.229979191 0.553033436 0.045370204 0.010895093 3.45E-10 9.462681737 0.242370371 SAGLAFSLYQAMAK ddPTM_HeLa_SAHA_4h_R1 2 SAGLAFSLYQAMAK 14 0 P50454;E9PPV6;E9PR70;E9PJH8;E9PIG2;E9PRS3;E9PNX1;E9PK86;E9PMI5;E9PLA6 P50454 SERPINH1 Serpin H1 0 0 ; ; 149.41 0.00016264 2629700 398.5 365.478 467.71 471.81 657.45 0 383.33 0 180.9 322.19 FALSE FALSE TRUE 440.4160584 377.319727 531.4470831 480.9425648 607.076323 0 340.1966995 0 179.6411022 336.0811877 1.310445436 1.122704099 1.581305656 1.431030901 1.806338306 0 1.012245588 0 0.534516982 1 8.392665979 -5.254703735 24.99988483 1.24129222 0.404898241 0.501372447 0.417641223 312.5283034 1159970.04 0.04944354 0.122979359 5.56E-06 5.254703735 -0.836393979 SAGQGEVLVYVEDPAGHQEEAK ddPTM_HeLa_SAHA_4h_R1 2 SAGQGEVLVYVEDPAGHQEEAK 22 0 P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98 P21333-2 FLNA Filamin-A 0 0 ; ; 260.97 2.86E-58 48550000 6268.9 6771.8 6205.3 6935.5 7338.1 7436.3 6302.4 6453.8 8311.8 7229.6 FALSE FALSE TRUE 6928.291665 6991.210763 7050.925968 7069.746631 6775.856363 6802.685405 5593.237365 6288.721141 8253.957507 7541.303437 0.918712756 0.927056022 0.934974441 0.937470119 0.898499367 0.90205698 0.741680455 0.83390374 1.094500119 1 12.88059818 -1 0.202541754 0.989957251 0.001068696 0.64256986 0.052602172 20.8270369 0.240354842 0.036256701 6.613802684 0.1 1 -0.988888555 SAGSMCITQFMK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 SAGSMCITQFMKK 13 1 Q13111 Q13111 CHAF1A Chromatin assembly factor 1 subunit A 0 1 ; SAGSMCITQFMK(1)K;SAGSMCITQFMK(1)K 81.676 0.012712 43328000 7349.1 6901.9 13438.7 23038 16447.3 5065.2 10563 9936.8 14685.2 18830.4 FALSE TRUE FALSE 8122.112057 7125.526089 15270.05605 23483.9338 15187.11143 4633.616464 9374.42344 9682.631044 14583.0045 19642.2707 0.413501686 0.362764886 0.777407881 1.195581415 0.77318512 0.235900245 0.477257624 0.492948661 0.742429667 1 14.2616741 -9.464914562 1.209988324 0.999336197 0.581627713 0.122619602 0.268951946 0.56722733 1.489497002 0.195519667 0.048576714 3.43E-10 9.464914562 -0.417708485 SAIDLT(ph)PIVVEDKEEK ddPTM_HeLa_SAHA_4h_R1 2 SAIDLTPIVVEDKEEK 16 1 Q14839-2;A0A2R8YD40;A0A2R8Y5J0;A0A2R8Y425;A0A2R8YFD8;A0A2R8YE38;F5GWX5;A0A2R8YDJ9;A0A2R8Y212;A0A2U3TZM0;A0A2R8Y4X2;A0A2R8YDW2;A0A2R8Y521;A0A0C4DGG9;A0A2R8Y5M9;Q14839;A0A2R8YFK9;A0A2R8Y7I0;A0A2R8Y7M9;A0A2R8Y7X1 Q14839-2 CHD4 Chromodomain-helicase-DNA-binding protein 4 1 0 S(0.009)AIDLT(0.991)PIVVEDKEEK;S(0.001)AIDLT(0.999)PIVVEDKEEK ; 112.74 0.0016528 9448300 1705.55 1840.73 1636.7 1925.72 2317.1 2711.6 2066.29 2029.92 2574.4 2071.94 TRUE FALSE FALSE 1884.947574 1900.37086 1859.740952 1962.995095 2139.564299 2480.556425 1833.785611 1977.997586 2556.484541 2161.271473 0.872147529 0.879283738 0.860484662 0.908259383 0.989956294 1.147730147 0.848475369 0.915200895 1.182861372 1 11.07766458 -5.758176964 24.80242003 0.924635567 0.978592408 0 0.114560599 170.4819074 1296060.529 0.013178143 0.025509925 1.75E-06 5.758176964 0.05395684 SAILVPS(ph)EK ddPTM_HeLa_SAHA_4h_R1 1 SAILVPSEK 9 0 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 SAILVPS(1)EK 98.156 0.011991 8800700 4022.8 3788.5 4181.9 3744 5206.1 4722.7 3606.5 4128.4 3638.3 4091.9 TRUE FALSE FALSE 4445.936561 3911.249886 4751.787554 3816.470534 4807.209743 4320.299391 3200.687128 4022.801506 3612.980774 4268.321834 1.041612309 0.916343715 1.113268338 0.894138418 1.126252876 1.012177516 0.749870149 0.942478487 0.846464 1 12.05945325 -4.787425249 22.82728389 1.017599513 0.846174553 0.241561183 0.097573339 44.60224614 39181.08372 0.009804977 0.029438122 1.63E-05 4.787425249 -0.171424959 SAKPSEK(ac)PR ddPTM_HeLa_SAHA_4h_R1 1 SAKPSEKPR 9 2 J3KPH8;Q8WUI4-8;Q8WUI4-5;Q8WUI4-6;Q8WUI4-7;Q8WUI4;Q8WUI4-4;Q8WUI4-3;Q8WUI4-10 J3KPH8 HDAC7 Histone deacetylase;Histone deacetylase 7 0 1 SAKPSEK(1)PR 87.806 0.01206 1831400 1232.3 1027 1163.2 1145 1239.2 1353.4 1233.9 1420.1 513.07 684.67 FALSE TRUE FALSE 1361.918968 1060.275474 1321.714838 1167.163131 1144.252764 1238.082706 1095.058325 1383.775898 509.4995041 714.1894744 1.906943489 1.48458569 1.850650123 1.634248575 1.602169739 1.73354936 1.533288243 1.937547315 0.713395426 1 9.480163062 -9.389765162 1.001556334 0.980411443 1.71285386 0.778084643 0.17735316 0.205159752 0.352104089 0.111703205 0.025697098 4.08E-10 9.389765162 0.732442417 SALAPNLLT(ph)SGK ddPTM_HeLa_SAHA_4h_R1 1 SALAPNLLTSGK 12 0 O15446;O15446-2 O15446 CD3EAP DNA-directed RNA polymerase I subunit RPA34 1 0 SALAPNLLT(0.573)S(0.427)GK 121.24 0.0025838 7209300 1835.8 1936.9 1759.3 1569.5 2215.3 2412 2271.5 2357.4 1786.3 1905.9 TRUE FALSE FALSE 2028.897867 1999.656831 1999.048242 1599.879942 2045.564193 2206.48403 2015.904842 2297.101121 1773.868993 1988.072676 1.02053506 1.005826827 1.005520706 0.804739163 1.028918217 1.10986085 1.013999571 1.155441221 0.892255607 1 10.95715478 -5.515786568 24.99923914 0.993257927 1.082556979 0.340608575 0.075892276 341.7928387 1204783.338 0.00993051 0.020511023 3.05E-06 5.515786568 0.089299052 SALAPNLLTS(ph)GK ddPTM_HeLa_SAHA_4h_R1 1 SALAPNLLTSGK 12 0 O15446;O15446-2 O15446 CD3EAP DNA-directed RNA polymerase I subunit RPA34 1 0 SALAPNLLT(0.135)S(0.865)GK 146.84 0.0004535 6596200 2996.9 2483.1 2595.8 2619.9 3221.5 3717.9 3193.5 3252.1 2844 3137.8 TRUE FALSE FALSE 3312.127692 2563.554069 2949.542106 2670.611953 2974.669366 3401.114004 2834.158975 3168.915991 2824.208372 3273.085914 1.011928125 0.783222359 0.901150224 0.815930905 0.908827157 1.039115408 0.865898131 0.968173789 0.862858002 1 11.67643576 -7.379161511 22.49714878 1.00563577 0.899020113 0.01498157 0.081472249 7.056681459 1327.520248 0.011338808 0.012966351 4.18E-08 7.379161511 -0.106615656 SALAPNLLTSGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 SALAPNLLTSGKK 13 1 O15446;O15446-2 O15446 CD3EAP DNA-directed RNA polymerase I subunit RPA34 0 1 ; SALAPNLLTSGK(1)K;SALAPNLLTSGK(1)K 136.38 0.00018103 3505700 2174.2 2298 1850.6 2304.1 2639.9 3117.5 3472.6 2729.9 1549.03 1914.52 FALSE TRUE FALSE 2402.892332 2372.456708 2102.79013 2348.699187 2437.631432 2851.871461 3081.853909 2660.073111 1538.250174 1997.064327 1.203212285 1.187972103 1.05294061 1.176075881 1.220607368 1.428031848 1.543192108 1.331991702 0.770255697 1 10.96366509 -1.000000001 0.163928124 0.990198901 2.933366715 0.634807444 0.125883351 27.8871993 0.286480675 0.16908748 13.23042124 0.1 1.000000001 1.943167815 SALSSS(ph)LRDLSEAGK ddPTM_HeLa_SAHA_4h_R1 2 SALSSSLRDLSEAGK 15 1 A0A2R8Y7T6;A0A3B3IRZ4;Q6DN90-2;Q6DN90;Q6DN90-3 A0A2R8Y7T6 IQSEC1 IQ motif and SEC7 domain-containing protein 1 1 0 SALS(0.02)S(0.13)S(0.85)LRDLSEAGK;SALS(0.003)S(0.165)S(0.831)LRDLSEAGK ; 126.63 0.0020851 14288100 4496.4 3728.2 3782.4 3875.2 4935.8 5028.7 5129.4 4816.4 3988 4153.1 TRUE FALSE FALSE 4969.351982 3848.996126 4297.845774 3950.2101 4557.62007 4600.226469 4552.226412 4693.203462 3960.247183 4332.160466 1.147084006 0.88847035 0.992079081 0.911833745 1.052043226 1.061878133 1.050798198 1.083340172 0.914150622 1 12.08087097 -10.040084 2.631354528 0.99900831 1.048906614 0 0.081489382 0.928361506 11.6948236 0.075142869 0.013013494 9.12E-11 10.040084 0.049898305 SAMDSPVPASMFAPEPS(ph)SPGAAR ddPTM_HeLa_SAHA_4h_R1 3 SAMDSPVPASMFAPEPSSPGAAR 23 0 O00178;F8WAZ4 O00178 GTPBP1 GTP-binding protein 1 1 0 SAMDSPVPASMFAPEPS(0.875)S(0.125)PGAAR;SAMDSPVPASMFAPEPS(0.5)S(0.5)PGAAR;SAMDSPVPASMFAPEPS(0.5)S(0.5)PGAAR ;; 160.41 8.88E-08 12724500 3793.5 3150.93 2941.39 3373.38 4280.85 3998.31 3980.7 3965.96 3552.65 3378.76 TRUE FALSE FALSE 4192.517735 3253.022199 3342.227311 3438.676648 3952.852198 3657.631494 3532.781159 3864.516486 3527.926819 3524.434879 1.189557441 0.922991149 0.948301622 0.975667523 1.121556316 1.037792333 1.002368119 1.096492521 1.00099078 1 11.78317623 -7.257860085 24.99859458 1.089513235 1.015430568 0.046997758 0.076807895 501.1608358 3500222.575 0.015213464 0.018234836 5.52E-08 7.257860085 -0.074082667 SAMDSPVPASMFAPEPSS(ph)PGAAR ddPTM_HeLa_SAHA_4h_R1 2 SAMDSPVPASMFAPEPSSPGAAR 23 0 O00178;F8WAZ4 O00178 GTPBP1 GTP-binding protein 1 1 0 SAMDSPVPASMFAPEPS(0.014)S(0.986)PGAAR;SAMDSPVPASMFAPEPS(0.028)S(0.972)PGAAR ; 327.02 3.59E-131 21889000 6898.8 5825.2 5270.4 6067.1 6758.5 6728.9 7147.1 6638.9 6578.2 5737.1 TRUE FALSE FALSE 7624.447437 6013.940302 5988.622665 6184.537494 6240.66519 6155.559864 6342.889498 6469.086551 6532.421771 5984.454458 1.274042186 1.004927073 1.000696506 1.033433797 1.042812713 1.028591647 1.059894355 1.080981833 1.091565124 1 12.54700402 SAMPFTAS(ph)PASSTTAR ddPTM_HeLa_SAHA_4h_R1 7 SAMPFTASPASSTTAR 16 0 O00151 O00151 PDLIM1 PDZ and LIM domain protein 1 1 0 S(0.001)AMPFT(0.15)AS(0.669)PAS(0.008)S(0.108)T(0.032)T(0.032)AR;SAMPFT(0.157)AS(0.705)PAS(0.009)S(0.114)T(0.008)T(0.008)AR;S(0.037)AMPFT(0.025)AS(0.932)PAS(0.002)S(0.003)T(0.001)TAR;SAMPFT(0.299)AS(0.638)PAS(0.005)S(0.057)T(0.001)TAR;SAMPFT(0.014)AS(0.986)PASSTTAR;SAMPFT(0.002)AS(0.996)PAS(0.001)STTAR;SAMPFT(0.002)AS(0.762)PAS(0.232)S(0.002)T(0.002)TAR ;;;;;; 236.31 3.55E-28 180804000 9371 9640.72 8997.17 9081.28 11787.1 11658.8 10703.29 9756.85 10187 9592.6 TRUE FALSE FALSE 10356.68478 9953.085654 10223.25747 9257.061306 10883.97494 10665.40465 9498.92764 9507.283905 10116.10784 10006.18393 1.035028423 0.994693454 1.021693939 0.925134034 1.087724853 1.065881331 0.94930572 0.95014083 1.010985597 1 13.28860426 -4.728511598 24.13512042 1.01687751 0.949723034 0.302569793 0.041233831 122.3743826 89694.37271 0.005563889 0.020814499 1.87E-05 4.728511598 -0.067154476 SAMPFTASPAS(ph)STTAR ddPTM_HeLa_SAHA_4h_R1 1 SAMPFTASPASSTTAR 16 0 O00151 O00151 PDLIM1 PDZ and LIM domain protein 1 1 0 SAMPFT(0.017)AS(0.054)PAS(0.86)S(0.036)T(0.017)T(0.017)AR 149.31 6.49E-05 42115000 1350 1718 1596.3 1733.6 1654.5 1830.7 1810 1761 1712.1 1652.5 TRUE FALSE FALSE 1491.999194 1773.664327 1813.835451 1767.156335 1527.732567 1674.714061 1606.334036 1715.95617 1700.185357 1723.747362 0.865555607 1.0289584 1.052262931 1.025182909 0.886285659 0.971554241 0.931884841 0.995480085 0.98633094 1 10.75133263 -9.958399013 2.280202763 1.000680091 0.948103536 0 0.060961604 0.762247612 7.191411931 0.05713479 0.010599581 1.10E-10 9.958399013 -0.052576554 SANGGSES(ph)DGEENIGWSTVNLDEEK ddPTM_HeLa_SAHA_4h_R1 3 SANGGSESDGEENIGWSTVNLDEEK 25 0 O43290 O43290 SART1 U4/U6.U5 tri-snRNP-associated protein 1 1 0 S(0.002)ANGGS(0.065)ES(0.934)DGEENIGWSTVNLDEEK;S(0.019)ANGGS(0.114)ES(0.867)DGEENIGWSTVNLDEEK;S(0.005)ANGGS(0.048)ES(0.947)DGEENIGWSTVNLDEEK ;; 131.9 2.06E-09 11061000 1556.74 2095.38 1479.53 2109.38 2091.89 2648.79 2515.3 2040.58 2891.67 2136.01 TRUE FALSE FALSE 1720.485056 2163.271687 1681.152643 2150.2101 1931.60984 2423.09819 2232.271824 1988.384918 2871.546633 2228.103844 0.772174538 0.970902542 0.754521674 0.965040344 0.866929899 1.087515825 1.00187064 0.892411242 1.288784919 1 11.12160076 -5.289697338 24.74257777 0.889649797 0.994726411 0 0.153452701 800.4565654 700876.0438 0.014769606 0.033032356 5.13E-06 5.289697338 0.105076614 SAPAPK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 SAPAPKK 7 1 O60814;P57053;P33778;P58876;P62807;Q16778;Q5QNW6;Q5QNW6-2;Q8N257;Q93079;U3KQK0;Q99877;Q99880 O60814;P33778;P58876;P62807;Q16778;Q5QNW6;Q8N257;Q93079;U3KQK0;Q99880 HIST1H2BK;H2BFS;HIST1H2BB;HIST1H2BD;HIST1H2BC;HIST2H2BE;HIST2H2BF;HIST3H2BB;HIST1H2BH;HIST1H2BN;HIST1H2BL Histone H2B type 1-K;Histone H2B type F-S;Histone H2B type 1-B;Histone H2B type 1-D;Histone H2B type 1-C/E/F/G/I;Histone H2B type 2-E;Histone H2B type 2-F;Histone H2B type 3-B;Histone H2B type 1-H;Histone H2B;Histone H2B type 1-N;Histone H2B type 1-L 0 1 SAPAPK(1)K 91.041 0.011318 1037700 309.49 371.61 1001.4 1811.7 941.05 2095.7 2408.3 1386.2 443.16 705.57 FALSE TRUE FALSE 342.0435782 383.6504078 1137.865577 1846.768073 868.9469523 1917.13457 2137.311746 1350.743011 440.0760135 735.9905757 0.464739073 0.521270816 1.546032809 2.509227882 1.180649564 2.604835759 2.903993361 1.835272157 0.597937023 1 9.523543483 -6.553240477 3.686419713 0.725192947 2.205573323 0.713905212 0.4637619 0.098334162 2.866927969 0.075908738 0.111870432 2.80E-07 6.553240477 1.480380377 GEAAAQADKPNSK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 GEAAAQADKPNSKR 14 2 A0A0C4DFW2;Q9UK53-3;Q9UK53-4;Q9UK53-5;Q9UK53-2;Q9UK53 A0A0C4DFW2 ING1 Inhibitor of growth protein;Inhibitor of growth protein 1 0 1 ; GEAAAQADK(0.008)PNSK(0.992)R;GEAAAQADKPNSK(1)R 128.95 0.00030263 1601720 63.301 180.751 231.3 748.99 917.92 1681.02 1592.69 2010.53 283.88 312.76 FALSE TRUE FALSE 69.95928962 186.607451 262.8203594 763.4877845 847.5891679 1537.787639 1413.476329 1959.103554 281.904456 326.2446142 0.214438144 0.571986304 0.805592945 2.340231076 2.59801735 4.713603143 4.332566019 6.005014239 0.864089225 1 8.349810275 -5.46672621 0.916934239 0.591153151 5.633849796 0.946359008 0.445954148 0.108561221 0.158336571 0.078722099 0.358762745 3.41E-06 5.46672621 5.042696645 up RQSPLPPQK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 RQSPLPPQKK 10 2 Q01105;B2REB7 Q01105 SET Protein SET 0 1 RQSPLPPQK(1)K 99.343 0.0041831 1790800 317.51 452.36 615.58 978.89 1786 3196.5 3045.3 3593 424.21 467.65 FALSE TRUE FALSE 350.9071586 467.0167608 699.4680366 997.8378314 1649.157066 2924.140217 2702.634829 3501.096263 421.2578881 487.8126801 0.71934817 0.957369047 1.433886541 2.045534838 3.380717913 5.994391569 5.540312787 7.177132545 0.863564858 1 8.93018345 -5.466469974 1.066964499 0.865927038 6.80285337 0.975081782 0.367622454 0.05294855 0.10971765 0.054336477 0.217003947 3.42E-06 5.466469974 5.936926332 up SAPAS(ph)PTHPGLMSPR ddPTM_HeLa_SAHA_4h_R1 7 SAPASPTHPGLMSPR 15 0 P85037;P85037-2 P85037 FOXK1 Forkhead box protein K1 1 0 SAPAS(0.832)PT(0.167)HPGLMS(0.001)PR;SAPAS(0.468)PT(0.468)HPGLMS(0.064)PR;SAPAS(0.999)PT(0.001)HPGLMSPR;S(0.006)APAS(0.989)PT(0.005)HPGLMSPR;S(0.02)APAS(0.978)PT(0.001)HPGLMSPR;S(0.03)APAS(0.94)PT(0.03)HPGLMSPR;S(0.101)APAS(0.885)PT(0.015)HPGLMSPR ;;;;;; 184.51 9.62E-09 104169400 5691.76 7447.89 4479.37 7076.39 9745.82 11475.26 11179.17 10448.58 7807.21 7079.55 TRUE FALSE FALSE 6290.445432 7689.206523 5089.795216 7213.363761 8999.097377 10497.50329 9921.26037 10181.32045 7752.87899 7384.784047 0.851811697 1.041222935 0.68922736 0.976787366 1.218599937 1.421504437 1.343473324 1.378688989 1.049845052 1 12.85034002 -5.655000907 2.844347659 0.918827014 1.373622904 0.803965965 0.10055348 0.078022986 1.270643819 0.014279907 0.030835284 2.21E-06 5.655000907 0.45479589 SAPASPTHPGLMS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 SAPASPTHPGLMSPR 15 0 P85037;P85037-2 P85037 FOXK1 Forkhead box protein K1 1 0 SAPAS(0.029)PT(0.029)HPGLMS(0.943)PR;S(0.001)APAS(0.06)PT(0.066)HPGLMS(0.873)PR ; 101.38 0.0070394 16225300 2203.46 3301.7 1813.41 3093.9 4405 4256.4 4078.5 3422.4 3291.1 2749.01 TRUE FALSE FALSE 2435.230033 3408.677246 2060.532071 3153.786908 4067.489852 3893.730774 3619.576446 3334.859964 3268.196967 2867.533274 0.849242118 1.188714104 0.718573029 1.099825741 1.418463 1.357867687 1.262261358 1.162971671 1.139724165 1 11.48559451 -5.983817244 6.551676858 0.934991037 1.298340676 0.520362158 0.14228953 0.072204607 12.82224418 0.018450597 0.033066182 1.04E-06 5.983817244 0.363349638 QPVGGGQK(ac)LLTR ddPTM_HeLa_SAHA_4h_R1 2 QPVGGGQKLLTR 12 1 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 ; QPVGGGQK(1)LLTR;QPVGGGQK(1)LLTR 118.77 0.0027948 43261000 334.98 630.17 524.2 1154.93 1671.39 1893.41 2380.78 2565.57 583.63 462.89 FALSE TRUE FALSE 370.2147333 650.5879215 595.6352461 1177.28534 1543.328459 1732.080816 2112.888369 2499.946434 579.5684713 482.8474532 0.76673229 1.347398474 1.233588874 2.438213834 3.196306512 3.587221605 4.375892126 5.177507757 1.200313821 1 8.915423658 -5.4543364 0.684184328 0.856492932 5.331485696 0.97329296 0.243432142 0.10176887 0.072764998 0.044349504 0.26236931 3.51E-06 5.4543364 4.474992764 up SAPGGGSKVPQK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 SAPGGGSKVPQKK 13 2 P06748;P06748-3;P06748-2;E5RI98 P06748 NPM1 Nucleophosmin 0 1 ; SAPGGGSKVPQK(1)K;SAPGGGSKVPQK(1)K 157.5 4.41E-07 578470000 33256 17205.3 38779 31887 31434 26659 40238 45056 8046 19433.5 FALSE TRUE FALSE 36754.01866 17762.76301 44063.60017 32504.21899 29025.53371 24387.50322 35710.31434 43903.53276 7990.007231 20271.37329 1.813099593 0.876248627 2.173685992 1.603454217 1.431848415 1.203051361 1.761612981 2.165789763 0.394152242 1 14.30715621 -9.456395193 0.940114094 0.960041661 1.625262242 0.393657753 0.426201346 0.696631475 0.987983636 0.344035551 0.066941383 3.50E-10 9.456395193 0.665220582 SAPGST(ph)PVRR ddPTM_HeLa_SAHA_4h_R1 1 SAPGSTPVRR 10 1 A0A087WW42;A0A087WX51;F5H1D6;Q07864 A0A087WW42 POLE DNA polymerase;DNA polymerase epsilon catalytic subunit A 1 0 SAPGS(0.028)T(0.972)PVRR 95.477 0.018883 1192900 319.38 169.21 140.35 185.32 266.08 247.21 239.85 358.53 223.45 192.04 TRUE FALSE FALSE 352.9738538 174.692515 159.4761671 188.9071366 245.6930079 226.1463172 212.8614467 349.3593217 221.8949933 200.3197842 1.762051887 0.872068207 0.796107922 0.943027856 1.226503956 1.128926522 1.062608207 1.744008077 1.107703835 1 7.646161103 -7.232758788 24.91161243 1.359857936 1.095266443 0.050880792 0.309454038 1227.077163 1065825.531 0.061180852 0.074924177 5.85E-08 7.232758788 -0.264591492 SAPS(ph)SPAPR ddPTM_HeLa_SAHA_4h_R1 1 SAPSSPAPR 9 0 E9PAK5;O75064 E9PAK5 DENND4B DENN domain-containing protein 4B 1 0 SAPS(0.5)S(0.5)PAPR 112.11 0.0056344 6793500 2338.1 2566.8 1816.9 3137.4 3234.2 4536.6 3377.4 2868.9 2813.1 4293.1 TRUE FALSE FALSE 2584.032086 2649.966004 2064.49767 3198.128914 2986.396295 4150.056158 2997.366063 2795.517692 2793.523408 4478.196551 0.577025161 0.59174848 0.461010955 0.714155548 0.66687477 0.926724879 0.669324365 0.62425078 0.623805449 1 12.12870214 -9.312133561 1.023137599 1.001114763 0.653411121 0 0.160063032 0.331590325 0.618527853 0.083549351 0.021951076 4.87E-10 9.312133561 -0.347703642 SAPSS(ph)PAPR ddPTM_HeLa_SAHA_4h_R1 1 SAPSSPAPR 9 0 E9PAK5;O75064 E9PAK5 DENND4B DENN domain-containing protein 4B 1 0 SAPS(0.159)S(0.84)PAPR 88.134 0.01946 6933500 1694.3 1843 1444.8 2059.7 2477.8 3018.7 2429.5 2248 1986.3 2799.6 TRUE FALSE FALSE 1872.514248 1902.714409 1641.68982 2099.568472 2287.951499 2761.489777 2156.126266 2190.499415 1972.477177 2920.304457 0.641205147 0.65154659 0.562163926 0.718955336 0.783463345 0.945617081 0.738322424 0.750092823 0.675435457 1 11.51190307 -9.364914975 1.09588332 0.999523096 0.720080026 0 0.137391561 0.34452775 0.742178242 0.073159661 0.01909335 4.32E-10 9.364914975 -0.27944307 SAPTAPT(ph)PPPPPPPATPR ddPTM_HeLa_SAHA_4h_R1 1 SAPTAPTPPPPPPPATPR 18 0 A6NHN7;A6NHB5;Q14202-2;Q14202 A6NHN7 ZMYM3 Zinc finger MYM-type protein 3 1 0 S(0.001)APT(0.012)APT(0.987)PPPPPPPATPR 156.29 3.50E-05 3980400 1065.3 938.67 818.68 1116.9 1287.2 1447.2 1312.4 1125 1137.3 1064.6 TRUE FALSE FALSE 1177.353142 969.0835239 930.2454469 1138.519215 1188.575014 1323.890418 1164.725298 1096.224129 1129.385437 1110.500116 1.060200827 0.872655041 0.83768154 1.025231063 1.070306069 1.192156938 1.048829515 0.987144542 1.01700614 1 10.11699383 -5.812677026 4.54671614 0.99944665 1.081620591 0.238219353 0.082936249 0.312230029 13.52284137 0.013794489 0.026109215 1.54E-06 5.812677026 0.082173941 SAPTS(ph)PTATNISSK ddPTM_HeLa_SAHA_4h_R1 3 SAPTSPTATNISSK 14 0 Q9H792;H0YN99;H3BUZ5 Q9H792 PEAK1 Pseudopodium-enriched atypical kinase 1 1 0 SAPT(0.016)S(0.758)PT(0.118)AT(0.098)NIS(0.003)S(0.007)K;SAPT(0.014)S(0.977)PT(0.009)AT(0.001)NISSK;SAPT(0.068)S(0.928)PT(0.002)ATNISSK ;; 187.63 1.98E-08 26171600 4494.05 5187.65 4160.09 3550.75 5113.31 5986.8 5620.15 5654.37 4819.57 4326.95 TRUE FALSE FALSE 4966.754798 5355.733264 4727.0054 3619.479901 4721.529292 5476.690959 4987.755931 5509.739403 4786.03022 4513.50599 1.100420562 1.186601563 1.047302343 0.801922033 1.046089072 1.213400618 1.105073515 1.220722741 1.06037972 1 12.14003281 -5.276269184 21.81615817 1.040175766 1.172266391 0.321400554 0.096175759 150.1019726 220816.4162 0.01462328 0.032891656 5.29E-06 5.276269184 0.132090625 SAQGSS(ph)SPVPSMVQK ddPTM_HeLa_SAHA_4h_R1 2 SAQGSSSPVPSMVQK 15 0 A0A494C1F2;P35658-2;P35658-4;P35658;P35658-3;P35658-5;A0A0A0MSW3;A0A494BZU9 A0A494C1F2 NUP214 Nuclear pore complex protein Nup214 1 0 SAQGS(0.07)S(0.591)S(0.336)PVPS(0.003)MVQK;SAQGS(0.043)S(0.477)S(0.477)PVPS(0.002)MVQK ; 252.1 8.53E-44 32178100 4485.1 4591 4302 4327.5 4549.9 5664.3 4891.8 4155 5337.4 4590.6 TRUE FALSE FALSE 4956.863396 4739.751412 4888.254156 4411.26502 4201.287645 5181.669774 4341.361789 4048.721116 5300.256599 4788.523232 1.035154923 0.989814852 1.020827073 0.921216168 0.877366036 1.082101834 0.906618091 0.845505163 1.106866636 1 12.22536509 -6.263238533 24.25832541 1.014875666 0.931361544 0.371334458 0.06594162 96.46737403 1300689.888 0.008880531 0.014009648 5.45E-07 6.263238533 -0.083514122 SAQGSSS(ph)PVPSMVQK ddPTM_HeLa_SAHA_4h_R1 2 SAQGSSSPVPSMVQK 15 0 A0A494C1F2;P35658-2;P35658-4;P35658;P35658-3;P35658-5;A0A0A0MSW3;A0A494BZU9 A0A494C1F2 NUP214 Nuclear pore complex protein Nup214 1 0 SAQGS(0.001)S(0.029)S(0.966)PVPS(0.004)MVQK;SAQGS(0.001)S(0.011)S(0.985)PVPS(0.003)MVQK ; 182.37 1.15E-07 32977500 5364.1 5678.9 4774.5 5326 5874.7 6088.9 5316.2 5028.1 6370.8 5079.8 TRUE FALSE FALSE 5928.320649 5862.900086 5425.143995 5429.092432 5424.581755 5570.091465 4718.007185 4899.488483 6326.465084 5298.815038 1.118801205 1.106454942 1.023840983 1.024586137 1.023734876 1.051195678 0.890389106 0.924638518 1.193939596 1 12.37145405 -4.766177188 24.75151427 1.053687089 0.907513787 0.546415593 0.057275541 49.07509226 256388.3727 0.00702376 0.022129933 1.71E-05 4.766177188 -0.146173302 SAQGSSSPVPSMVQKS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 SAQGSSSPVPSMVQKSPR 18 1 A0A494C1F2;P35658-2;P35658-4;P35658;P35658-3;P35658-5;A0A0A0MSW3;A0A494BZU9 A0A494C1F2 NUP214 Nuclear pore complex protein Nup214 1 0 SAQGSSSPVPSMVQKS(1)PR;SAQGSSSPVPS(0.013)MVQKS(0.987)PR ; 160.98 3.62E-06 54329000 7797.6 7897 7303.9 7962.4 8992.3 9130.1 8566.5 8625.7 7837.7 8164.8 TRUE FALSE FALSE 8617.787345 8152.867981 8299.237455 8116.523766 8303.311917 8352.164115 7602.574874 8405.067084 7783.156808 8516.824486 1.011854519 0.957266173 0.974452094 0.95299883 0.974930496 0.98066646 0.892653698 0.986878043 0.913856663 1 13.0560999 -7.258062056 24.8005199 1.005597968 0.959047651 0 0.038296649 172.1851401 1264401.419 0.003959495 0.004743453 5.52E-08 7.258062056 -0.046550317 SAQQEASADVAT(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 SAQQEASADVATPK 14 0 Q8WYP5;Q8WYP5-3;Q8WYP5-2 Q8WYP5 AHCTF1 Protein ELYS 1 0 SAQQEASADVAT(1)PK;SAQQEASADVAT(1)PK ; 178.47 3.06E-07 3389100 1552.07 1533.78 1044.44 1528.5 1702.54 1967.68 1560.98 1536.73 1717.6 1577.28 TRUE FALSE FALSE 1715.323844 1583.475478 1186.770844 1558.086328 1572.091753 1800.022594 1385.334422 1497.422672 1705.647082 1645.28426 1.042569898 0.962432764 0.721316597 0.947001297 0.955513762 1.094049605 0.842003085 0.910130066 1.036688385 1 10.68412115 -7.002696978 24.99931978 1.019176083 0.913848358 0.250232349 0.088754343 121.6388438 1127529.017 0.014486245 0.018849992 9.94E-08 7.002696978 -0.105327725 SAS(ph)ADNLTLPR ddPTM_HeLa_SAHA_4h_R1 2 SASADNLTLPR 11 0 Q8ND76-3;Q8ND76-2;Q8ND76 Q8ND76-3 CCNY Cyclin-Y 1 0 S(0.21)AS(0.79)ADNLT(0.001)LPR;S(0.407)AS(0.593)ADNLTLPR ; 117.48 0.0023985 26431000 1843.05 2930.5 1920.27 1881.79 2217.3 2099 2579.71 1970.35 1981.61 2356.72 TRUE FALSE FALSE 2036.910455 3025.450123 2181.954395 1918.214767 2047.410953 1920.153391 2289.434241 1919.9513 1967.819815 2458.329733 0.828574958 1.230693378 0.887575969 0.780291895 0.832846353 0.78108049 0.931296649 0.780998283 0.80047025 1 11.26346272 -6.522092988 24.99935992 0.945826148 0.826631602 0.245130697 0.11672977 36.99469428 1177020.001 0.018263212 0.026009891 3.01E-07 6.522092988 -0.119194546 SAS(ph)APTLAETEK ddPTM_HeLa_SAHA_4h_R1 1 SASAPTLAETEK 12 0 Q86W92-2 Q86W92-2 PPFIBP1 Liprin-beta-1 1 0 S(0.001)AS(0.981)APT(0.014)LAET(0.003)EK 135.58 0.00083778 8983600 936.67 1070.4 739.83 944.38 1316.3 1398.9 901.75 833.13 1407.9 1011 TRUE FALSE FALSE 1035.193248 1105.081662 840.6501795 962.6598405 1215.445378 1279.70585 800.2827167 811.819741 1398.102309 1054.589158 0.981608089 1.047878839 0.797135238 0.91282926 1.15252975 1.213463879 0.758857334 0.769797162 1.325731731 1 10.04246535 -4.712079761 24.98618631 0.999122013 0.764325855 0.326590702 0.150711647 81.11441168 41059.43904 0.01530727 0.057274382 1.94E-05 4.712079761 -0.234796157 SAS(ph)ASHQADIK ddPTM_HeLa_SAHA_4h_R1 3 SASASHQADIK 11 0 C9JXK0;A0A494C1L1;Q14739 C9JXK0 LBR Lamin-B receptor 1 0 S(0.042)AS(0.956)AS(0.002)HQADIK;S(0.001)AS(0.897)AS(0.102)HQADIK;S(0.002)AS(0.537)AS(0.461)HQADIK ;; 163.33 0.00017499 16923300 2538.17 6306.03 2355.53 3393.1 4124.66 4849.77 4576.9 3646.55 3576.83 4067.73 TRUE FALSE FALSE 2805.146366 6510.34951 2676.529361 3458.778357 3808.629442 4436.542312 4061.895166 3553.276531 3551.938549 4243.109747 0.661106248 1.534334462 0.630794281 0.815151755 0.897603331 1.045587453 0.957292035 0.837422726 0.837107395 1 12.05090628 -5.506829156 22.89029597 0.874372752 0.951782455 0 0.241443254 1032.028495 1471894.604 0.035531161 0.077246246 3.11E-06 5.506829156 0.077409703 SAS(ph)EPSLHR ddPTM_HeLa_SAHA_4h_R1 4 SASEPSLHR 9 0 Q96II5;P10398;H7C155;P04049;P04049-2 Q96II5;H7C155 ARAF;RAF1 Serine/threonine-protein kinase A-Raf;RAF proto-oncogene serine/threonine-protein kinase 1 0 S(0.014)AS(0.986)EPSLHR;S(0.076)AS(0.924)EPSLHR;S(0.019)AS(0.981)EPSLHR;S(0.028)AS(0.963)EPS(0.009)LHR ;;; 133.75 0.0013015 35142200 5117.87 6037.69 4233.8 5157.48 7413.2 8922.4 7006.9 7268 5946.04 6477.6 TRUE FALSE FALSE 5656.191048 6233.315117 4810.760215 5257.310483 6845.202218 8162.161324 6218.465171 7082.095084 5904.661024 6756.881037 0.837100878 0.922513669 0.711979416 0.77806764 1.013071294 1.207977657 0.920315918 1.048130794 0.873873758 1 12.72214174 -5.542762241 22.22548395 0.894622509 1.05588648 0.438790285 0.10204723 61.35888393 68585.66092 0.016778756 0.033564397 2.87E-06 5.542762241 0.16126397 SAS(ph)EPSLNR ddPTM_HeLa_SAHA_4h_R1 1 SASEPSLNR 9 0 H7C560;A0A2U3TZI2;A0A2R8Y8E0;P15056 H7C560 BRAF Serine/threonine-protein kinase B-raf 1 0 SAS(0.644)EPS(0.356)LNR 125.68 0.0027392 48241000 1277.3 1403.8 1324.5 1442.3 1526.6 1393.9 1607.8 1621.6 1786.4 1566.3 TRUE FALSE FALSE 1411.652274 1449.284041 1504.995962 1470.217802 1409.632238 1275.131878 1426.886113 1580.12182 1773.968297 1633.830858 0.864013718 0.887046559 0.921145512 0.899859245 0.862777337 0.780455254 0.873337717 0.967126929 1.085772305 1 10.67404292 -9.352560203 0.704855845 1.015242034 0.877459152 0.567313407 0.053159571 0.657387654 0.480475516 0.055959952 0.009691913 4.44E-10 9.352560203 -0.137782882 SAS(ph)FSQGTR ddPTM_HeLa_SAHA_4h_R1 1 SASFSQGTR 9 0 Q9UQC2-2;Q9UQC2 Q9UQC2-2 GAB2 GRB2-associated-binding protein 2 1 0 S(0.002)AS(0.771)FS(0.227)QGTR 92.866 0.015635 11617000 700.13 745.01 754.46 538.11 729.89 803.12 912.49 727.2 720.88 740.38 TRUE FALSE FALSE 773.7728857 769.1488128 857.2738797 548.5258972 673.9659859 734.6896578 809.8142237 708.599277 715.8633374 772.3014051 1.001905319 0.995917925 1.110025016 0.710248478 0.872672225 0.951299134 1.04857277 0.917516493 0.926922226 1 9.593020186 SAS(ph)LSHPGGEGEPAR ddPTM_HeLa_SAHA_4h_R1 1 SASLSHPGGEGEPAR 15 0 C9JXU1;A6NN40;Q2M3G4-2;Q2M3G4 C9JXU1 SHROOM1 Protein Shroom1 1 0 S(0.001)AS(0.994)LS(0.006)HPGGEGEPAR 124.16 0.00059957 3569500 1015.9 1149.2 910.67 1110 1027.9 1824.1 1223.4 1401.5 1064.4 1030.7 TRUE FALSE FALSE 1122.757023 1186.434834 1034.771365 1131.485655 949.1425241 1668.676418 1085.739812 1365.651659 1056.992754 1075.138521 1.044290574 1.103518115 0.962453995 1.052409185 0.882809522 1.55205714 1.009860396 1.270209961 0.983122391 1 10.07030683 -5.292622558 24.99584998 1.017676621 1.250624553 0.458406562 0.134625865 438.4293347 351436.1334 0.016985602 0.037984579 5.10E-06 5.292622558 0.232947932 SAS(ph)LSNLHSLDR ddPTM_HeLa_SAHA_4h_R1 1 SASLSNLHSLDR 12 0 B0QY53;B0QY54;A0A087WUW0;Q9Y3M2 B0QY53 CBY1 Protein chibby homolog 1 1 0 S(0.01)AS(0.988)LS(0.002)NLHSLDR 88.282 0.007175 0 554.52 610.75 679.55 704.68 755.85 700.87 943.93 655.33 814.96 530.92 TRUE FALSE FALSE 612.8469578 630.5387007 772.1555351 718.3201004 697.9369363 641.151933 837.7165121 638.5676075 809.288627 553.8105595 1.106600348 1.138545826 1.394259322 1.297050206 1.260244906 1.157709838 1.512640916 1.153043395 1.461309491 1 9.113248751 -7.159382945 1.661294532 1.042537247 1.296991369 0 0.168493483 0.192052827 1.012481992 0.018448645 0.022774951 6.93E-08 7.159382945 0.254454122 SAS(ph)NGHVPGTPVYR ddPTM_HeLa_SAHA_4h_R1 1 SASNGHVPGTPVYR 14 0 A0A087WX19;A0A087WX45;Q6IPM2-2;Q6IPM2-3;Q6IPM2-4;Q6IPM2;C9JP75 A0A087WX19 IQCE IQ domain-containing protein E 1 0 S(0.287)AS(0.713)NGHVPGTPVYR 90.498 0.0086129 5134200 629.5 891.64 521.94 575.72 727.9 740.2 637.71 612.98 534.77 835.31 TRUE FALSE FALSE 695.7136982 920.529721 593.0672651 586.8638931 672.1284593 677.1307957 565.9531924 597.3008592 531.048492 871.324302 0.79845552 1.056471992 0.680650435 0.673530959 0.771387252 0.777128325 0.649532202 0.685509239 0.609472834 1 9.767065972 -13.52287176 0.047421534 2.14724568 0.153660791 0 0.152380932 262.0767008 0.986676402 39.81980196 10.54668127 3.00E-14 13.52287176 -1.993584889 SAS(ph)PCIADK ddPTM_HeLa_SAHA_4h_R1 2 SASPCIADK 9 0 Q05209-2;Q05209-3;Q05209 Q05209-2 PTPN12 Tyrosine-protein phosphatase non-receptor type 12 1 0 S(0.089)AS(0.911)PCIADK;S(0.298)AS(0.702)PCIADK ; 126.03 0.0026843 25662000 5647.2 6433.6 5506.6 5835.9 6808.6 8277.9 6188.3 5950.3 8026.5 6510.1 TRUE FALSE FALSE 6241.198406 6642.052861 6257.010771 5948.862283 6286.926539 7572.57635 5491.976197 5798.099942 7970.642933 6790.782271 0.919069138 0.978098339 0.921397642 0.876020177 0.925802991 1.115125776 0.808739844 0.853819149 1.17374444 1 12.72936206 -12.09334732 0.011417431 2.012910992 9.02E-08 0.205382078 0.09647892 10015.46251 12.01642942 1198.345587 935.0042146 8.07E-13 12.09334732 -2.012910901 SAS(ph)PDDDLGSSNWEAADLGNEER ddPTM_HeLa_SAHA_4h_R1 7 SASPDDDLGSSNWEAADLGNEER 23 0 O00193;E9PM92;E9PQA1 O00193 SMAP;C11orf58 Small acidic protein 1 0 S(0.118)AS(0.882)PDDDLGSSNWEAADLGNEER;S(0.132)AS(0.868)PDDDLGSSNWEAADLGNEER;S(0.125)AS(0.875)PDDDLGSSNWEAADLGNEER;S(0.414)AS(0.586)PDDDLGSSNWEAADLGNEER;S(0.109)AS(0.891)PDDDLGSSNWEAADLGNEER;S(0.403)AS(0.597)PDDDLGSSNWEAADLGNEER;S(0.196)AS(0.804)PDDDLGSSNWEAADLGNEER ;;;;;; 240.79 9.34E-48 356726800 5138.34 5807.63 5510.43 5720.14 5952.31 7489.2 7358.57 6444.72 7012.64 5350.58 TRUE FALSE FALSE 5678.814177 5995.801023 6261.362703 5830.861581 5496.245294 6851.078027 6530.564337 6279.873394 6963.838467 5581.269689 1.017477114 1.074271869 1.121852742 1.044719554 0.98476612 1.227512449 1.170085787 1.125169315 1.247715817 1 12.44637764 -5.223990631 0.333568157 0.996619193 1.235421979 0 0.096752908 2.363358536 0.300934171 0.025072316 0.211372098 5.97E-06 5.223990631 0.238802786 SAS(ph)PDDDLGSSNWEAADLGNEERK ddPTM_HeLa_SAHA_4h_R1 4 SASPDDDLGSSNWEAADLGNEERK 24 1 O00193;E9PM92;E9PQA1 O00193 SMAP;C11orf58 Small acidic protein 1 0 S(0.031)AS(0.789)PDDDLGS(0.146)S(0.034)NWEAADLGNEERK;S(0.057)AS(0.536)PDDDLGS(0.203)S(0.203)NWEAADLGNEERK;S(0.039)AS(0.746)PDDDLGS(0.185)S(0.031)NWEAADLGNEERK;S(0.092)AS(0.804)PDDDLGS(0.101)S(0.004)NWEAADLGNEERK ;;; 204.89 1.10E-22 779841100 3905.44 3473.56 4190.55 4216.75 4384.21 4272.07 4405.95 4765.75 3846.41 4318.59 TRUE FALSE FALSE 4316.232098 3586.105623 4761.616331 4298.371294 4048.292777 3908.065602 3910.18091 4643.849016 3819.64252 4504.78555 0.958143745 0.79606578 1.057012876 0.954178894 0.898664927 0.867536436 0.868006005 1.030870163 0.847907737 1 12.13724271 -7.758216594 2.62450645 0.985255332 0.923516875 0 0.085502581 0.384285377 5.495397047 0.013922268 0.013827445 1.74E-08 7.758216594 -0.061738456 SAS(ph)PDYNR ddPTM_HeLa_SAHA_4h_R1 3 SASPDYNR 8 0 Q14669;Q14669-2;Q14669-3;G5E9G6;F8W9P3;C9JLJ5;C9JSX9;C9JLD7 Q14669 TRIP12 E3 ubiquitin-protein ligase TRIP12 1 0 S(0.045)AS(0.953)PDY(0.002)NR;S(0.437)AS(0.562)PDY(0.001)NR;S(0.261)AS(0.738)PDY(0.001)NR ;; 112.3 0.0056685 46125500 6018.2 6509 3496.08 6992.8 7811.8 10407.3 7841.8 8356.8 8019.1 9965.1 TRUE FALSE FALSE 6651.221888 6719.895871 3972.507576 7128.155756 7213.261572 9520.53949 6959.420026 8143.045157 7963.29443 10394.74423 0.639863929 0.646470536 0.382165014 0.685746142 0.693933531 0.915899351 0.669513349 0.783381003 0.76608854 1 13.34356664 -9.183423489 0.929006578 0.99989654 0.674991785 0.183874486 0.143765497 0.411063203 0.638726986 0.088713235 0.025174317 6.56E-10 9.183423489 -0.324904755 SAS(ph)PEHPQKPR ddPTM_HeLa_SAHA_4h_R1 1 SASPEHPQKPR 11 1 Q96PX6 Q96PX6 CCDC85A Coiled-coil domain-containing protein 85A 1 0 S(0.208)AS(0.792)PEHPQKPR 76.357 0.016282 927800 706.96 798.34 479.9 861.93 682.71 601.07 730.99 655.91 806.17 638.2 TRUE FALSE FALSE 781.3212964 824.2067398 545.2982728 878.6139015 630.4009073 549.8554545 648.7370813 639.1327719 800.5597973 665.7159253 1.173655709 1.238075744 0.81911556 1.319803039 0.94695182 0.825961095 0.974495362 0.960068323 1.202554674 1 9.378762871 -5.551496418 24.99104149 1.091614658 0.91908168 0.318984765 0.137342724 201.8296248 176251.7693 0.018939315 0.037879114 2.81E-06 5.551496418 -0.172532978 SAS(ph)PHDVDLCLVSPCEFEHR ddPTM_HeLa_SAHA_4h_R1 2 SASPHDVDLCLVSPCEFEHR 20 0 Q66K74-2;Q66K74 Q66K74-2 MAP1S Microtubule-associated protein 1S;MAP1S heavy chain;MAP1S light chain 1 0 S(0.379)AS(0.621)PHDVDLCLVSPCEFEHR;S(0.194)AS(0.806)PHDVDLCLVSPCEFEHR ; 184.91 4.91E-14 32726000 2129.85 3127.4 1766.84 3131.13 4019.5 5362.4 3750 3853.9 3856 3434.55 TRUE FALSE FALSE 2353.877395 3228.729812 2007.615754 3191.737549 3711.526778 4905.493352 3328.040131 3755.322818 3829.165782 3582.630259 0.65702493 0.901217703 0.560374811 0.890892255 1.035978181 1.369243544 0.928937649 1.04820273 1.068814113 1 11.80680344 -5.760765558 3.705031903 0.817878946 1.109546139 0.332171946 0.173975515 0.188160682 5.567097173 0.026503864 0.05272136 1.73E-06 5.760765558 0.291667193 SAS(ph)PHDVDLCLVSPCEFEHRK ddPTM_HeLa_SAHA_4h_R1 1 SASPHDVDLCLVSPCEFEHRK 21 1 Q66K74-2;Q66K74 Q66K74-2 MAP1S Microtubule-associated protein 1S;MAP1S heavy chain;MAP1S light chain 1 0 S(0.162)AS(0.838)PHDVDLCLVSPCEFEHRK 82.121 0.00078357 12240000 3326.4 4180.3 2815.9 3547.6 5118.1 5732.2 3967.2 3971.9 3951.4 3977.9 TRUE FALSE FALSE 3676.286014 4315.744463 3199.636187 3616.268928 4725.952284 5243.784312 3520.800215 3870.304549 3923.901886 4149.406736 0.885978707 1.040087111 0.771106905 0.871514691 1.138946501 1.263743143 0.848506892 0.932736845 0.945653713 1 12.01868937 -5.770663677 24.98894728 0.933477854 1.047432163 0.193127235 0.125016216 284.5572196 770876.8473 0.019214827 0.035179534 1.70E-06 5.770663677 0.11395431 SAS(ph)PSNIK ddPTM_HeLa_SAHA_4h_R1 1 SASPSNIK 8 0 E7EUC4;Q9NRH2 E7EUC4 SNRK SNF-related serine/threonine-protein kinase 1 0 S(0.018)AS(0.895)PS(0.087)NIK 92.538 0.016159 6160900 2975.2 3161.3 2664.8 3589.8 4020 5537.4 4314.2 3845.2 4128.9 4878.9 TRUE FALSE FALSE 3288.145187 3263.728194 3027.945066 3659.28577 3711.988468 5065.582367 3828.754862 3746.845352 4100.166649 5089.253256 0.646095806 0.641298051 0.594968439 0.719022141 0.729377825 0.995348848 0.752321543 0.73622694 0.805651918 1 12.31323827 -9.36322258 1.096989033 0.999358458 0.723646262 0.204367669 0.11717696 0.363125517 0.784595474 0.076043992 0.019913571 4.33E-10 9.36322258 -0.275712196 SAS(ph)PSVPGPTKPKPK ddPTM_HeLa_SAHA_4h_R1 3 SASPSVPGPTKPKPK 15 2 A0A3B3ITZ6;Q03164-2;Q03164;Q03164-3 A0A3B3ITZ6 KMT2A Histone-lysine N-methyltransferase 2A;MLL cleavage product N320;MLL cleavage product C180 1 0 S(0.099)AS(0.888)PS(0.014)VPGPTKPKPK;S(0.143)AS(0.813)PS(0.044)VPGPTKPKPK;S(0.084)AS(0.786)PS(0.13)VPGPTKPKPK ;; 98.796 0.0034906 17310700 5572.3 5062.4 4208.46 3574.17 5805.5 5751.5 5323.77 4887.7 4023.75 5707.81 TRUE FALSE FALSE 6158.420081 5226.425082 4781.967012 3643.353229 5360.683844 5261.439843 4724.725388 4762.679711 3995.748396 5953.901622 1.034350325 0.877815156 0.803165271 0.611927012 0.900364867 0.883696133 0.793551135 0.799925832 0.671114279 1 12.53961967 -7.076798699 3.086034422 1.016251893 0.7995362 0 0.131387393 0.119182058 2.212105562 0.012661124 0.0159678 8.38E-08 7.076798699 -0.216715694 SAS(ph)PTVPR ddPTM_HeLa_SAHA_4h_R1 4 SASPTVPR 8 0 K7EQ87;K7EKI0;Q92817 K7EQ87 EVPL Envoplakin 1 0 S(0.057)AS(0.785)PT(0.158)VPR;S(0.024)AS(0.973)PT(0.002)VPR;S(0.003)AS(0.775)PT(0.222)VPR;S(0.001)AS(0.714)PT(0.285)VPR ;;; 123.75 0.0023239 123174000 15210.1 14680.3 13577.7 14313.4 15914.7 17617.9 15725.3 16125 15856 15534.9 TRUE FALSE FALSE 16809.9681 15155.95135 15427.99825 14590.45655 14695.31912 16116.7558 13955.84786 15712.54585 15745.65681 16204.68556 1.037352316 0.935282039 0.952070201 0.900385046 0.906856172 0.994573806 0.861222996 0.969629789 0.971673084 1 13.98412341 -7.249150883 20.84888064 1.01763859 0.929814116 0.398939075 0.039006147 42.08634297 71403.84209 0.00573545 0.006982593 5.63E-08 7.249150883 -0.087824474 SAS(ph)QSSLDKLDQELK ddPTM_HeLa_SAHA_4h_R1 1 SASQSSLDKLDQELK 15 1 O60271-3;O60271;A0A087X2D8;O60271-5;O60271-9;O60271-4;O60271-2 O60271-3 SPAG9 C-Jun-amino-terminal kinase-interacting protein 4 1 0 S(0.005)AS(0.605)QS(0.378)S(0.012)LDKLDQELK 132.51 0.0010641 3882700 779.26 1011.3 565.1 1144.6 1003 1129 965.81 1315.5 1253.4 1156.2 TRUE FALSE FALSE 861.2261422 1044.066784 642.1088851 1166.755388 926.1503567 1032.802848 857.1345169 1281.851415 1244.677487 1206.04944 0.714088588 0.865691529 0.532406768 0.967419203 0.767920722 0.856351998 0.710696003 1.062851465 1.032028577 1 10.23607333 -9.464769291 1.192478988 1.000373875 0.795395113 0.249341073 0.139833979 0.529942921 1.344141146 0.089199709 0.021844338 3.43E-10 9.464769291 -0.204978762 SAS(ph)SDTSEELNSQDSPPK ddPTM_HeLa_SAHA_4h_R1 1 SASSDTSEELNSQDSPPK 18 0 O14745;O14745-2;J3QRP6 O14745 SLC9A3R1 Na(+)/H(+) exchange regulatory cofactor NHE-RF1 1 0 SAS(0.761)S(0.229)DT(0.009)S(0.001)EELNSQDSPPK 408.27 2.86E-261 35784000 1069.1 2425.2 1527 1619.8 2199.3 2484 2285.7 1716.9 2510.1 1634.6 TRUE FALSE FALSE 1181.552843 2503.778071 1735.091608 1651.153571 2030.790109 2272.349225 2028.50702 1672.984184 2492.63201 1705.075606 0.692962142 1.468426422 1.017603913 0.968375576 1.191026429 1.332697048 1.189687433 0.981178887 1.461889433 1 10.73562 -7.279729473 24.99003747 0.855009904 1.159476079 0 0.251273843 619.9011619 846978.6732 0.030931276 0.03540324 5.25E-08 7.279729473 0.304466176 SAS(ph)SSWLEGTSTQAK ddPTM_HeLa_SAHA_4h_R1 2 SASSSWLEGTSTQAK 15 0 K7EL81;Q9BZL4-5;Q9BZL4-2;Q9BZL4-3;Q9BZL4-4;Q9BZL4 K7EL81 PPP1R12C Protein phosphatase 1 regulatory subunit 12C 1 0 S(0.001)AS(0.497)S(0.497)S(0.005)WLEGTSTQAK;S(0.001)AS(0.497)S(0.497)S(0.004)WLEGTSTQAK ; 311.33 6.36E-99 19830700 2499.55 2249.52 2002.29 2797.19 2702.37 2652.72 2631.98 2821.46 2329.48 2029.35 TRUE FALSE FALSE 2762.464137 2322.405924 2275.151654 2851.333657 2495.314994 2426.693332 2335.822683 2749.291139 2313.268959 2116.84521 1.30499109 1.097107107 1.074784138 1.346973148 1.178789542 1.146372593 1.103445199 1.298768151 1.092790795 1 11.04770006 -9.547537759 1.300787071 0.999500241 1.201397263 0.263220763 0.094073783 0.371352099 1.121122277 0.066256418 0.015540775 2.83E-10 9.547537759 0.201897022 SAS(ph)TDLGTADVVLGR ddPTM_HeLa_SAHA_4h_R1 2 SASTDLGTADVVLGR 15 0 A0A0U1RRA6;B5MCU0;B5MCG9;Q9Y2K5;H7C0E9;Q9Y2K5-3;Q9Y2K5-2 A0A0U1RRA6 R3HDM2 R3H domain-containing protein 2 1 0 S(0.001)AS(0.945)T(0.052)DLGT(0.002)ADVVLGR;SAS(0.982)T(0.018)DLGTADVVLGR ; 186.29 1.75E-25 2951500 1862.91 2001.11 1862.15 1766.62 2044.14 2303.53 2125.19 2306.26 2238.7 2125.47 TRUE FALSE FALSE 2058.859421 2065.947277 2115.914104 1800.815485 1887.518435 2107.256285 1886.058028 2247.269209 2223.120704 2217.109413 0.928623282 0.931820173 0.954357097 0.812235731 0.851342033 0.950452094 0.850683334 1.013603206 1.002711319 1 11.11446425 -8.437688694 0.536215597 1.001434956 0.900559443 0.295335564 0.056021788 0.839902408 0.505952705 0.038694006 0.015887175 3.65E-09 8.437688694 -0.100875513 SAS(ph)TEKLEQGTSALIR ddPTM_HeLa_SAHA_4h_R1 2 SASTEKLEQGTSALIR 16 1 A0A0A0MRP0;Q8IWC1-2;Q8IWC1-4;Q8IWC1 A0A0A0MRP0 MAP7D3 MAP7 domain-containing protein 3 1 0 S(0.01)AS(0.598)T(0.384)EKLEQGT(0.007)S(0.001)ALIR;SAS(0.713)T(0.093)EKLEQGT(0.182)S(0.011)ALIR ; 146.88 0.00036731 54650000 3254.2 3029.8 2415.9 3024.2 3287.4 3298.8 3560.5 3673.4 2729.3 2816.1 TRUE FALSE FALSE 3596.491687 3127.967508 2745.126271 3082.737764 3035.520122 3017.723681 3159.863169 3579.439747 2710.306579 2937.515853 1.224330988 1.064834256 0.934506028 1.04943698 1.033362976 1.027304645 1.075692295 1.218526104 0.92265258 1 11.52038092 -7.018732003 24.85236195 1.107968211 1.050067676 0 0.10135397 1648.737576 2187430.113 0.017333738 0.021430407 9.58E-08 7.018732003 -0.057900535 SAS(ph)VNKEPVSLPGIMR ddPTM_HeLa_SAHA_4h_R1 2 SASVNKEPVSLPGIMR 16 1 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 S(0.228)AS(0.771)VNKEPVS(0.001)LPGIMR;S(0.038)AS(0.959)VNKEPVS(0.003)LPGIMR ; 108.96 0.0092106 45659000 2040.09 1915.84 2002.45 2544.83 2057.12 2356.15 2708.49 2279.37 2395.68 2388.36 TRUE FALSE FALSE 2254.676026 1977.914473 2275.333458 2594.088865 1899.50391 2155.392765 2403.723577 2221.067016 2379.008268 2491.333888 0.905007569 0.793917862 0.913299285 1.041244964 0.762444536 0.865156122 0.964833974 0.891517202 0.954913462 1 11.28270267 -8.829078689 0.836233928 0.996652927 0.892859213 0.159221889 0.07560133 0.677902331 0.918602527 0.039627003 0.015234634 1.48E-09 8.829078689 -0.103793714 SAS(ph)WGSADQLK ddPTM_HeLa_SAHA_4h_R1 2 SASWGSADQLK 11 0 Q86VQ1;H7C0Q2 Q86VQ1 GLCCI1 Glucocorticoid-induced transcript 1 protein 1 0 S(0.202)AS(0.775)WGS(0.024)ADQLK;S(0.006)AS(0.994)WGSADQLK ; 166.7 0.00013608 66852000 3879.6 4637 4120.6 4458.7 4921 5050.4 4794.6 4137.6 4960.2 3708.1 TRUE FALSE FALSE 4287.674128 4787.241842 4682.133909 4545.004586 4543.954043 4620.077507 4255.098989 4031.766183 4925.681564 3867.974338 1.108506353 1.237661221 1.210487325 1.175034834 1.174763234 1.194443681 1.100084597 1.042345639 1.273452493 1 11.91736251 -8.256690708 0.982874744 1.017368952 1.161526569 0 0.097762035 0.277644522 0.561250506 0.018758635 0.012660839 5.54E-09 8.256690708 0.144157617 SAS(ph)WGSTDQLK ddPTM_HeLa_SAHA_4h_R1 1 SASWGSTDQLK 11 0 Q6P1L5;Q6P1L5-2 Q6P1L5 FAM117B Protein FAM117B 1 0 S(0.006)AS(0.993)WGS(0.001)TDQLK 120.55 0.0021408 16713000 1134.8 1499.8 1211.2 1115.1 1007.3 1337.1 1355.4 1174.2 1371.1 1234.9 TRUE FALSE FALSE 1254.163471 1548.394504 1376.256028 1136.684373 930.1208916 1223.171558 1202.886825 1144.165664 1361.558403 1288.142582 0.973621622 1.20203658 1.068403488 0.882421238 0.722063616 0.949562241 0.933814968 0.888229052 1.056993552 1 10.33107658 -6.21975649 10.68885597 1.012231741 0.874016268 0.495218342 0.086873133 0.726311717 184.3686898 0.013817994 0.022893646 6.03E-07 6.21975649 -0.138215473 SAS(ph)WGSTDQLKEIAK ddPTM_HeLa_SAHA_4h_R1 1 SASWGSTDQLKEIAK 15 1 Q6P1L5 Q6P1L5 FAM117B Protein FAM117B 1 0 S(0.009)AS(0.991)WGSTDQLKEIAK 90.379 0.0046453 5172100 1786.9 1581.7 1926.9 1710.5 1801 1746 1906.3 2191 1334.2 1893.9 TRUE FALSE FALSE 1974.854341 1632.948118 2189.487897 1743.609201 1663.007769 1597.230977 1691.798107 2134.957393 1324.915194 1975.555298 0.999645185 0.826576771 1.108289856 0.882591949 0.841792569 0.808497226 0.856365858 1.080687235 0.670654573 1 10.94804251 SASAPT(ph)LAETEKETAEHLDLAGASSRPK ddPTM_HeLa_SAHA_4h_R1 1 SASAPTLAETEKETAEHLDLAGASSRPK 28 2 Q86W92-2 Q86W92-2 PPFIBP1 Liprin-beta-1 1 0 S(0.005)AS(0.036)APT(0.753)LAET(0.144)EKET(0.062)AEHLDLAGASSRPK 59.359 0.0084407 35714000 909.99 1080.9 989 1297.8 1427.6 1640.6 1786.7 1856 1508.6 1190.3 TRUE FALSE FALSE 1005.706923 1115.921869 1123.77577 1322.920796 1318.217596 1500.81165 1585.655814 1808.526207 1498.10153 1241.619658 0.809995973 0.898763049 0.905088577 1.065479905 1.06169195 1.208753132 1.277086589 1.456586319 1.206570402 1 10.27800759 -4.949062333 0.75487368 0.906206788 1.517814867 0.660743612 0.109857135 0.356155023 0.246027806 0.01358296 0.150756623 1.12E-05 4.949062333 0.61160808 PEK(ac)DQLKNK(ac)FMK ddPTM_HeLa_SAHA_4h_R1 2 PEKDQLKNKFMK 12 3 Q9Y6R1-3;Q9Y6R1-4;Q9Y6R1-2;Q9Y6R1;Q9Y6R1-5 Q9Y6R1-3 SLC4A4 Electrogenic sodium bicarbonate cotransporter 1 0 2 ; PEK(1)DQLKNK(1)FMK;PEK(0.998)DQLK(0.003)NK(0.999)FMK 139.38 0.00016688 29961000 521.69 337.86 1058.1 3963.7 6155.6 8858 10979.5 11729.6 192.23 287.88 FALSE TRUE FALSE 576.5637478 348.8068857 1202.292358 4040.423145 5683.959258 8103.248566 9744.057764 11429.57382 190.8922558 300.2919157 1.920010889 1.161559361 4.003745339 13.45498475 18.92811282 26.98457116 32.44861835 38.06154352 0.635688961 1 8.230221825 -5.448296217 0.790357559 1.072200329 39.20248847 0.991898572 1.231029918 0.051104976 0.051816724 0.227458126 1.207064751 3.56E-06 5.448296217 38.13028814 up SASNGSKT(ph)DTEEEEEQQQQQK ddPTM_HeLa_SAHA_4h_R1 1 SASNGSKTDTEEEEEQQQQQK 21 1 Q9UGU0-2;Q9UGU0;A9JX13 Q9UGU0-2 TCF20 Transcription factor 20 1 0 S(0.008)AS(0.041)NGS(0.148)KT(0.733)DT(0.07)EEEEEQQQQQK 98.7 0.00015813 0 445.31 545.14 357.42 323.39 467.41 584.25 494.35 513.85 582.62 411.54 TRUE FALSE FALSE 492.149749 562.8028937 406.1273362 329.6496811 431.5971468 534.4686131 438.7244369 500.706461 578.5655 429.2835034 1.146444587 1.311028468 0.946058567 0.767906706 1.005389546 1.245024812 1.021992304 1.166377131 1.347746874 1 8.745786924 -9.677628606 1.577828795 1.000471568 1.083091922 0 0.183060419 1.282882278 5.804200828 0.107811722 0.024665898 2.10E-10 9.677628606 0.082620354 SASPDDDLGS(ph)SNWEAADLGNEERK ddPTM_HeLa_SAHA_4h_R1 2 SASPDDDLGSSNWEAADLGNEERK 24 1 O00193;E9PM92;E9PQA1 O00193 SMAP;C11orf58 Small acidic protein 1 0 S(0.008)AS(0.25)PDDDLGS(0.371)S(0.371)NWEAADLGNEERK;S(0.015)AS(0.268)PDDDLGS(0.358)S(0.358)NWEAADLGNEERK ; 157 3.33E-08 82243000 2121.46 1806.15 1869.76 1934.28 2013.8 2287.3 2212.78 2535.88 1980.75 1867.98 TRUE FALSE FALSE 2344.604896 1864.670445 2124.561156 1971.720786 1859.503079 2092.409172 1963.792171 2471.015862 1966.965799 1948.517759 1.203276124 0.956968668 1.09034734 1.01190804 0.954316721 1.0738466 1.00783899 1.268151573 1.00946773 1 10.92816137 -7.248692288 24.81217977 1.095991507 1.047245837 0 0.099580551 2012.617384 3917562.497 0.017879986 0.021819765 5.64E-08 7.248692288 -0.04874567 SASPS(ph)SQGWQGR ddPTM_HeLa_SAHA_4h_R1 1 SASPSSQGWQGR 12 0 X6R7H2;Q5VV67-2;Q5VV67 X6R7H2 PPRC1 Peroxisome proliferator-activated receptor gamma coactivator-related protein 1 1 0 S(0.23)AS(0.026)PS(0.736)S(0.008)QGWQGR 99.834 0.0066473 3005200 1339.7 1398.3 1031.7 1152.7 1149 1525.7 1464.8 1263.7 1905 1853.6 TRUE FALSE FALSE 1480.615793 1443.605837 1172.294703 1175.012175 1060.963868 1395.701777 1299.976849 1231.376384 1891.74295 1933.517767 0.765762704 0.746621449 0.60630149 0.607706945 0.548722068 0.72184585 0.672337679 0.636858065 0.978394397 1 10.91701231 -8.230630843 0.518405452 1.003032625 0.628037096 0.870448307 0.052322485 0.227237548 0.137205432 0.036969372 0.018324937 5.88E-09 8.230630843 -0.374995529 SASQS(ph)S(ph)LDKLDQELKEQQK ddPTM_HeLa_SAHA_4h_R1 1 SASQSSLDKLDQELKEQQK 19 2 O60271-3;O60271;A0A087X2D8;O60271-5;O60271-9;O60271-4;O60271-2 O60271-3 SPAG9 C-Jun-amino-terminal kinase-interacting protein 4 2 0 SAS(0.001)QS(0.999)S(0.999)LDKLDQELKEQQK 90.706 0.0016178 23726000 4449.2 3239.9 3412.3 3759.6 3730.6 3775.4 4498.2 4810.2 3332.5 3720.7 TRUE FALSE FALSE 4917.18727 3344.874886 3877.310474 3832.372494 3444.762234 3453.71468 3992.050697 4687.162049 3309.308861 3881.117586 1.266951377 0.861832916 0.999019068 0.98744045 0.887569665 0.889876332 1.028582775 1.207683598 0.852669054 1 11.92225643 -7.255178477 24.89668067 1.126060372 0.976096262 0 0.139947473 548.1365426 2179681.489 0.022300851 0.026943028 5.56E-08 7.255178477 -0.14996411 SASQS(ph)SLDKLDQELK ddPTM_HeLa_SAHA_4h_R1 1 SASQSSLDKLDQELK 15 1 O60271-3;O60271;A0A087X2D8;O60271-5;O60271-9;O60271-4;O60271-2 O60271-3 SPAG9 C-Jun-amino-terminal kinase-interacting protein 4 1 0 S(0.125)AS(0.125)QS(0.699)S(0.051)LDKLDQELK 125.67 0.00018521 0 171.88 346.91 390.05 401.3 435.59 421.55 492.37 604.81 514.29 267.38 TRUE FALSE FALSE 189.959127 358.1501116 443.2039827 409.0677418 402.2151883 385.6315684 436.9672318 589.339836 510.711014 278.9080603 0.681081525 1.284115315 1.589068391 1.466675941 1.442106721 1.382647629 1.566707076 2.113025473 1.831108837 1 8.123645818 -7.037898736 3.591562428 0.850536409 1.566761154 0.045464574 0.370988514 0.097409859 2.606880319 0.037169422 0.047257729 9.16E-08 7.037898736 0.716224744 SASQSS(ph)LDKLDQELK ddPTM_HeLa_SAHA_4h_R1 2 SASQSSLDKLDQELK 15 1 O60271-3;O60271;A0A087X2D8;O60271-5;O60271-9;O60271-4;O60271-2 O60271-3 SPAG9 C-Jun-amino-terminal kinase-interacting protein 4 1 0 SAS(0.001)QS(0.09)S(0.909)LDKLDQELK;SAS(0.001)QS(0.425)S(0.574)LDKLDQELK ; 97.713 0.0031283 149894000 4457.9 6077.8 4160.1 5573.8 6484.6 6687.5 5815.3 5758.7 7840.7 5244.5 TRUE FALSE FALSE 4926.802376 6274.724708 4727.016763 5681.688959 5987.751349 6117.687377 5160.947139 5611.400792 7786.13593 5470.616061 0.900593703 1.146986854 0.864073938 1.038583022 1.094529626 1.118281252 0.943394141 1.025734713 1.42326492 1 12.41748759 -6.039759387 24.95452421 0.962902446 1.046287994 0 0.167142522 645.238125 404975.6854 0.012465964 0.020675095 9.13E-07 6.039759387 0.083385548 SASQSS(ph)LDKLDQELKEQQK ddPTM_HeLa_SAHA_4h_R1 2 SASQSSLDKLDQELKEQQK 19 2 O60271-3;O60271;A0A087X2D8;O60271-5;O60271-9;O60271-4;O60271-2 O60271-3 SPAG9 C-Jun-amino-terminal kinase-interacting protein 4 1 0 SASQS(0.243)S(0.757)LDKLDQELKEQQK;SAS(0.001)QS(0.161)S(0.837)LDKLDQELKEQQK ; 116.04 0.00036352 28477000 4029.7 3546 3655.6 4165.2 3737.6 4456.8 4112 4055.6 3838.5 4148.9 TRUE FALSE FALSE 4453.562335 3660.892727 4153.76613 4245.823469 3451.225895 4077.055567 3649.306938 3951.863624 3811.787566 4327.779383 1.029064086 0.845905579 0.959791561 0.981062825 0.797458833 0.942066405 0.843228505 0.913138881 0.880772153 1 12.07941124 -7.273451461 24.6281382 1.01372471 0.89890638 0.10084754 0.068427192 352.3864111 722489.3258 0.008779376 0.010081036 5.33E-08 7.273451461 -0.11481833 SASS(ph)DTSEELNSQDSPPK ddPTM_HeLa_SAHA_4h_R1 2 SASSDTSEELNSQDSPPK 18 0 O14745;O14745-2;J3QRP6 O14745 SLC9A3R1 Na(+)/H(+) exchange regulatory cofactor NHE-RF1 1 0 S(0.001)AS(0.074)S(0.892)DT(0.034)SEELNSQDSPPK;S(0.002)AS(0.082)S(0.704)DT(0.171)S(0.042)EELNSQDSPPK ; 280.69 2.02E-73 34561000 3098.96 5317.12 3342.67 4242.5 5038.97 6003.18 5889.32 4047.06 5808.74 4687.71 TRUE FALSE FALSE 3424.922831 5489.398177 3798.19166 4324.619722 4652.885207 5491.675291 5226.638214 3943.542065 5768.316505 4889.820119 0.700418982 1.12261761 0.776754884 0.884412845 0.95154527 1.123083295 1.06888149 0.806479987 1.179658222 1 12.25556568 -5.62936419 3.854618042 0.872067681 1.010362433 0 0.164494948 0.340618068 9.535293898 0.022161487 0.046193334 2.35E-06 5.62936419 0.138294753 SASS(ph)GAEGDVSSEREP ddPTM_HeLa_SAHA_4h_R1 2 SASSGAEGDVSSEREP 16 1 Q8TEA8 Q8TEA8 DTD1 D-tyrosyl-tRNA(Tyr) deacylase 1 1 0 S(0.001)AS(0.08)S(0.92)GAEGDVSSEREP;S(0.001)AS(0.035)S(0.964)GAEGDVSSEREP ; 230.57 6.35E-27 94359000 1269.37 1674.71 1328.62 1499.85 1773.93 1835.07 1857.21 1500.37 1488.79 1426.74 TRUE FALSE FALSE 1402.888161 1728.971703 1509.677414 1528.881766 1638.011867 1678.711712 1648.231843 1461.992708 1478.429389 1488.253744 0.942640438 1.16174524 1.014395173 1.027299123 1.10062674 1.127974124 1.107493833 0.982354463 0.993398737 1 10.53940481 -7.283282756 24.99176343 0.972913538 1.074748278 0.401350625 0.053519859 537.7293011 615233.2976 0.009176367 0.010497918 5.21E-08 7.283282756 0.10183474 SASS(ph)SWLEGTSTQAK ddPTM_HeLa_SAHA_4h_R1 1 SASSSWLEGTSTQAK 15 0 K7EL81;Q9BZL4-5;Q9BZL4-2;Q9BZL4-3;Q9BZL4-4;Q9BZL4 K7EL81 PPP1R12C Protein phosphatase 1 regulatory subunit 12C 1 0 SAS(0.045)S(0.451)S(0.451)WLEGT(0.052)S(0.001)TQAK 212.35 1.38E-17 13299000 1729.7 1213.8 1546.3 2096.6 1503.1 1648.9 1826.2 1782.5 1535.3 1395 TRUE FALSE FALSE 1911.637782 1253.127916 1757.021711 2137.182725 1387.932803 1508.404444 1620.71117 1736.906231 1524.615722 1455.145277 1.313709231 0.861170315 1.207454499 1.468707461 0.953810472 1.036600584 1.113779631 1.193630807 1.047741244 1 10.50694748 -4.245198055 20.25059434 1.134984643 1.19363146 0.003718439 0.170975142 1289.995543 1608036.547 0.02482261 0.629984218 5.69E-05 4.245198055 0.058646816 SASSASSLFS(ph)PSSTLFSSSR ddPTM_HeLa_SAHA_4h_R1 2 SASSASSLFSPSSTLFSSSR 20 0 Q5T1Z4;Q5T1Z8;Q14671-2;Q14671;Q14671-3;E9PR38;Q14671-4;H0YEH2;H0YDK8 Q5T1Z4 PUM1 Pumilio homolog 1 1 0 SASSASSLFS(0.898)PS(0.1)S(0.002)TLFSSSR;SASSAS(0.041)S(0.03)LFS(0.86)PS(0.047)S(0.011)T(0.011)LFSSSR ; 239.8 1.95E-41 20963400 2428.98 2123.68 1940.41 2440.54 2739.5 3006.17 2373.41 2591.01 2707.47 2474.02 TRUE FALSE FALSE 2684.471261 2192.488625 2204.83897 2487.780181 2529.600102 2750.027404 2106.34766 2524.735716 2688.628496 2580.68711 1.040215705 0.849575532 0.854361213 0.96399915 0.980204106 1.065618297 0.816196451 0.978319187 1.041826607 1 11.33353952 -7.290724097 24.78854314 1.018990753 0.930969257 0.279924191 0.071334832 653.2524805 552954.7903 0.012179084 0.013928451 5.12E-08 7.290724097 -0.088021497 SASSEEASES(ph)PTAR ddPTM_HeLa_SAHA_4h_R1 2 SASSEEASESPTAR 14 0 A0A075B6Q3;Q5H9F3-3 A0A075B6Q3 BCORL1 1 0 SAS(0.001)S(0.001)EEAS(0.02)ES(0.959)PT(0.02)AR;SASSEEASES(1)PTAR ; 191.01 1.33E-08 16281700 2575.09 2085.28 2319.24 15318.28 898.74 1941.46 2594.4 5759.9 7982.63 2927.28 TRUE FALSE FALSE 2845.949781 2152.84444 2635.293949 15614.78746 829.8787354 1776.036686 2302.471284 5612.570098 7927.078228 3053.489367 0.932031993 0.705044027 0.863043434 5.113752034 0.271780457 0.58164168 0.754045948 1.838084049 2.596071994 1 11.57624311 SASSGAEGDVSS(ph)EREP ddPTM_HeLa_SAHA_4h_R1 2 SASSGAEGDVSSEREP 16 1 Q8TEA8 Q8TEA8 DTD1 D-tyrosyl-tRNA(Tyr) deacylase 1 1 0 SASSGAEGDVS(0.021)S(0.979)EREP;SASSGAEGDVS(0.017)S(0.983)EREP ; 230.23 6.63E-27 25487000 3018 3000.7 2813.3 2606.8 3417.8 2962.7 3054.5 3393.9 3312.1 2849.9 TRUE FALSE FALSE 3335.447087 3097.924649 3196.681873 2657.258383 3155.928902 2710.261292 2710.799621 3307.088952 3289.050826 2972.773136 1.121998529 1.042099248 1.07531982 0.893865176 1.061611081 0.911694626 0.911875712 1.112459243 1.106391465 1 11.53759365 -6.298037162 24.97380483 1.058871141 0.975538793 0.281556138 0.071565505 638.4351817 435657.7043 0.011281933 0.01723375 5.03E-07 6.298037162 -0.083332348 SASSSAAGS(ph)PGGLTSLQQQK ddPTM_HeLa_SAHA_4h_R1 1 SASSSAAGSPGGLTSLQQQK 20 0 E5RJ10;E5RHB8;E5RJX6;E5RG91;Q8NEZ2-3;Q8NEZ2-2;Q8NEZ2 E5RJ10 VPS37A Vacuolar protein sorting-associated protein 37A 1 0 SAS(0.009)S(0.138)S(0.051)AAGS(0.802)PGGLTSLQQQK 173.98 2.54E-09 5038800 1278 990.77 903.97 782.34 1344.8 1203.3 1196.2 890.89 925.49 1164.8 TRUE FALSE FALSE 1412.425904 1022.871598 1027.158324 797.483322 1241.761715 1100.77207 1061.600428 868.1023238 919.0494397 1215.020228 1.162471102 0.841855612 0.845383723 0.656353946 1.022009087 0.90597016 0.873730661 0.714475614 0.756406699 1 10.24676462 -7.247652878 24.15572942 1.076722463 0.841645518 0.029997281 0.142849104 301.2519868 527832.5103 0.01808123 0.022074876 5.65E-08 7.247652878 -0.235076945 SASSYSDIEEIATPDSSAPS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 SASSYSDIEEIATPDSSAPSSPK 23 0 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-5 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 SASSYSDIEEIATPDS(0.045)S(0.045)APS(0.56)S(0.35)PK 107.09 5.41E-05 7002700 896.15 1065.3 670.99 1104 995.56 1269 960.95 908.27 1724.6 1020.5 TRUE FALSE FALSE 990.4111687 1099.816419 762.4290228 1125.369516 919.2804079 1160.874061 852.8213769 885.0377686 1712.598368 1064.498749 0.93040144 1.033177747 0.716232897 1.057182563 0.863580543 1.090535862 0.801148313 0.83141269 1.608830794 1 10.05595854 -1 0.065730036 1.09628707 0.543621616 0.089841971 0.224697682 458.4210104 2.259210619 3.610348166 23.87471928 0.1 1 -0.552665454 SASSYSDIEEIATPDSSAPSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SASSYSDIEEIATPDSSAPSSPK 23 0 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-5 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 SASSYSDIEEIAT(0.004)PDS(0.119)S(0.092)APS(0.117)S(0.669)PK 86.48 0.0002819 6269600 789.62 825.59 857.85 959.79 985.06 1153.1 936.72 1016.7 1168.2 781.75 TRUE FALSE FALSE 872.6758545 852.3396577 974.7533305 978.3681233 909.5849156 1054.849393 831.3178003 990.6942862 1160.070401 815.4550683 1.070170373 1.045231909 1.195348914 1.199781768 1.115432292 1.293571447 1.019452613 1.214897454 1.422604931 1 9.671461576 -6.790882701 8.498576712 1.034835987 1.170164035 0 0.14049247 0.147059893 37.49861584 0.010535675 0.01396504 1.62E-07 6.790882701 0.135328047 SAST(ph)SGVPPPSVTPLR ddPTM_HeLa_SAHA_4h_R1 1 SASTSGVPPPSVTPLR 16 0 Q9P242;Q9P242-3 Q9P242 NYAP2 Neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adapter 2 1 0 S(0.03)AS(0.261)T(0.708)S(0.002)GVPPPSVTPLR 176.43 7.59E-09 6179200 1149 1383.2 1395 948.97 1628.6 1197.4 1516.6 1011.9 1146.7 1132 TRUE FALSE FALSE 1269.857092 1428.016588 1585.103335 967.3386866 1503.81702 1095.374784 1345.948177 986.0170632 1138.720021 1180.80606 1.07541546 1.209357435 1.342390922 0.819218938 1.273551238 0.927650036 1.139855411 0.835037265 0.964358213 1 10.20555632 SASVVSSDSIST(ph)SADNFSPDLR ddPTM_HeLa_SAHA_4h_R1 1 SASVVSSDSISTSADNFSPDLR 22 0 Q13614 Q13614 MTMR2 Myotubularin-related protein 2 1 0 SASVVSSDS(0.005)IS(0.135)T(0.709)S(0.135)ADNFS(0.015)PDLR 205.15 5.36E-42 0 603.92 518.66 492.34 643 584.52 585.57 445.97 591.55 458.46 386.13 TRUE FALSE FALSE 667.4430765 535.4649243 559.4335312 655.4461948 539.7342039 535.6761417 395.7882819 576.4190076 455.2695395 402.777954 1.657099327 1.329429575 1.388937815 1.627313979 1.340029161 1.329953977 0.982646339 1.431108634 1.13032388 1 8.653840909 -1.364815329 11.33381692 1.329911831 1.310562735 0 0.218768745 0 0 0.035796709 0 0.043170261 1.364815329 -0.019349095 SASVVSSDSISTSADNFS(ph)PDLR ddPTM_HeLa_SAHA_4h_R1 3 SASVVSSDSISTSADNFSPDLR 22 0 Q13614 Q13614 MTMR2 Myotubularin-related protein 2 1 0 SASVVSSDSISTSADNFS(1)PDLR;SASVVSS(0.001)DSISTSADNFS(0.999)PDLR;SASVVSSDSISTSADNFS(1)PDLR ;; 379.39 1.13E-217 122160000 5122.4 5912.3 5491.6 6319.9 6094.1 6989.3 6464.6 6383.2 6166.6 6321.9 TRUE FALSE FALSE 5661.197534 6103.862399 6239.966649 6442.230803 5627.171375 6393.772319 5737.186194 6219.926987 6123.686129 6594.468048 0.858476756 0.925603454 0.946242609 0.976914401 0.853316952 0.969566047 0.869999847 0.943203749 0.928609569 1 12.68704057 -9.58776775 1.388907961 0.999815846 0.91081079 0.045446264 0.047506296 0.366101458 1.270907623 0.030105009 0.007064029 2.58E-10 9.58776775 -0.089005057 SAT(ph)PVNCEQPDILVSSTPINEGQTVLDK ddPTM_HeLa_SAHA_4h_R1 1 SATPVNCEQPDILVSSTPINEGQTVLDK 28 0 F8WF45;A0A2R8Y7M0;P82094;P82094-2 F8WF45 TMF1 TATA element modulatory factor 1 0 S(0.245)AT(0.755)PVNCEQPDILVSSTPINEGQTVLDK 112.1 1.35E-07 10057000 1059.2 1234.2 1044.8 1332.3 1460.8 1820.5 1531.2 1507.9 1686.1 1197.2 TRUE FALSE FALSE 1170.611516 1274.18889 1187.179903 1358.088593 1348.87382 1665.383158 1358.905346 1469.330101 1674.366293 1248.817151 0.937376232 1.020316616 0.950643497 1.087499953 1.080121152 1.333568455 1.088153974 1.176577452 1.340761769 1 10.28634654 -5.871337664 1.780452062 0.972737328 1.186054795 0.026442102 0.1338983 0.145997958 0.936263988 0.009787337 0.021118791 1.34E-06 5.871337664 0.213317467 SAT(ph)T(ph)PEPNKK ddPTM_HeLa_SAHA_4h_R1 1 SATTPEPNKK 10 1 A0A0A0MTM5;E9PBQ7;P47869;P47869-2 A0A0A0MTM5 GABRA2 Gamma-aminobutyric acid receptor subunit alpha-2 2 0 S(0.001)AT(1)T(1)PEPNKK 72.652 0.015627 4271500 189.77 404.04 220.41 368.01 313.8 2072.8 221.59 3503.6 1143.8 439.2 TRUE FALSE FALSE 209.7308793 417.1311611 250.446327 375.1333657 289.7567118 1896.185779 196.65611 3413.982985 1135.840203 458.1360614 0.457791685 0.91049624 0.54666364 0.81882523 0.632468684 4.138914044 0.429252632 7.451897532 2.47926391 1 8.839632316 -2.577238007 1.047460176 0.814375198 200 0.665235896 1.251801852 18.84118231 0.791275464 0.153152706 8296.385256 0.002647049 2.577238007 199.1856248 SATDGNTS(ph)TTPPTS(ph)AK ddPTM_HeLa_SAHA_4h_R1 1 SATDGNTSTTPPTSAK 16 0 A0A669KAU9;A0A669KAX4;K4DI93;Q13620-1;Q13620 A0A669KAU9 CUL4B Cullin-4B 2 0 SATDGNT(0.056)S(0.539)T(0.166)T(0.24)PPT(0.297)S(0.703)AK 130.87 0.0014828 4625100 806.88 911.76 901.8 1102.1 1361.9 1277.4 1143.3 1205.2 1014.2 973.48 TRUE FALSE FALSE 891.7513405 941.3016222 1024.692608 1123.432739 1257.551516 1168.558334 1014.652875 1174.372729 1007.1421 1015.451487 0.878182121 0.926978427 1.009100504 1.106338169 1.238416145 1.150777116 0.99921354 1.156503038 0.991817051 1 9.987905601 -6.390596884 2.754910307 0.940185325 1.131449739 0.645179722 0.06381837 0.141462717 2.080355327 0.011428082 0.018223273 4.07E-07 6.390596884 0.191264414 SATDGNTS(ph)TTPPTSAKK ddPTM_HeLa_SAHA_4h_R1 1 SATDGNTSTTPPTSAKK 17 1 A0A669KAU9;A0A669KAX4;K4DI93;Q13620-1;Q13620 A0A669KAU9 CUL4B Cullin-4B 1 0 SATDGNT(0.003)S(0.496)T(0.496)T(0.005)PPTSAKK 133.93 6.12E-05 6983300 2658.6 2011.3 1953.3 2096.5 2306.3 2313.2 2427.7 2411.2 1625.1 1994.8 TRUE FALSE FALSE 2938.243746 2076.46744 2219.485552 2137.080789 2129.591792 2116.102346 2154.528807 2349.524995 1613.790797 2080.80559 1.412070287 0.997915158 1.066647246 1.027044909 1.023445824 1.016963024 1.035430132 1.129142005 0.775560583 1 11.02292647 SATDGNTST(ph)TPPTSAKK ddPTM_HeLa_SAHA_4h_R1 1 SATDGNTSTTPPTSAKK 17 1 A0A669KAU9;A0A669KAX4;K4DI93;Q13620-1;Q13620 A0A669KAU9 CUL4B Cullin-4B 1 0 SATDGNTS(0.111)T(0.777)T(0.111)PPT(0.001)SAKK 142.97 0.00016783 8040700 3572.3 2653.6 3049.6 2655.3 2654.8 2924.4 3065.2 3222.2 2617.8 3138.8 TRUE FALSE FALSE 3948.050904 2739.578381 3465.183606 2706.697171 2451.389798 2675.224668 2720.295629 3139.78079 2599.582517 3274.129029 1.205832412 0.836735009 1.058352794 0.826692274 0.748715086 0.817079793 0.830845579 0.958966724 0.793976808 1 11.67689546 -6.710131479 1.39846056 1.091580688 0.835151327 0 0.137964089 0.246956959 0.975480498 0.020255786 0.030750364 1.95E-07 6.710131479 -0.256429361 SATDGNTSTT(ph)PPTSAK ddPTM_HeLa_SAHA_4h_R1 4 SATDGNTSTTPPTSAK 16 0 A0A669KAU9;A0A669KAX4;K4DI93;Q13620-1;Q13620 A0A669KAU9 CUL4B Cullin-4B 1 0 SATDGNT(0.021)S(0.212)T(0.212)T(0.468)PPT(0.066)S(0.02)AK;SATDGNT(0.054)S(0.3)T(0.161)T(0.482)PPT(0.003)SAK;SATDGNT(0.003)S(0.005)T(0.015)T(0.962)PPT(0.015)S(0.001)AK;SATDGNT(0.047)S(0.168)T(0.168)T(0.61)PPT(0.006)SAK ;;; 139 9.18E-06 27036900 8479.85 8630.27 7301.56 8732.3 9171.13 10937.41 9573 9959.27 8946.7 9394.48 TRUE FALSE FALSE 9371.79953 8909.896411 8296.578572 8901.326294 8468.440001 10005.48114 8495.820845 9704.526294 8884.439186 9799.522008 0.95635272 0.90921745 0.846630944 0.908342906 0.86416868 1.021017263 0.86696278 0.990306087 0.906619647 1 13.25849567 -7.70007233 1.523484045 0.986500205 0.913335697 0.012925909 0.058040868 0.325316615 1.564966721 0.010583316 0.010456976 1.99E-08 7.70007233 -0.073164508 SATDGNTSTTPPTSAK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 SATDGNTSTTPPTSAKK 17 1 A0A669KAU9;A0A669KAX4;K4DI93;Q13620-1;Q13620 A0A669KAU9 CUL4B Cullin-4B 0 1 SATDGNTSTTPPTSAK(1)K 231.17 1.15E-45 2221900 142.71 240.89 176.49 570 553.39 836.18 712.08 690.45 203.85 102.12 FALSE TRUE FALSE 157.7208926 248.6949941 200.5411381 581.0331742 510.9893778 764.9327598 631.9548843 672.7892888 202.4313913 106.522893 1.480629076 2.33466241 1.8826107 5.454538063 4.796991178 7.180923635 5.932573428 6.315912665 1.900355742 1 6.735019705 -6.214398927 1.138695212 1.220816944 6.408258539 0.908454142 0.667592359 0.075674294 0.193707439 0.099066963 0.20568255 6.10E-07 6.214398927 5.187441595 GLPCK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 GLPCKK 6 1 Q9UGU0-2;Q9UGU0;A9JX13 Q9UGU0-2 TCF20 Transcription factor 20 0 1 ; GLPCK(1)K;GLPCK(1)K 79.027 0.022771 9393800 3748 4103.8 4570 6969.1 8846.5 12228.7 12265.6 13899.7 4383.3 3181.5 FALSE TRUE FALSE 4142.231836 4236.765813 5192.7758 7103.997008 8168.683081 11186.74596 10885.44241 13544.1658 4352.796258 3318.670035 1.248160195 1.276645695 1.564715909 2.140615648 2.461432741 3.370852132 3.280061679 4.081202909 1.31160863 1 11.69638948 -5.413162166 0.604643866 1.067339725 4.293387602 0.974245449 0.164700655 0.108629195 0.056341541 0.028135217 0.190248892 3.86E-06 5.413162166 3.226047877 up SATPEPVTDNRDVEDMELS(ph)DVEDDGSK ddPTM_HeLa_SAHA_4h_R1 3 SATPEPVTDNRDVEDMELSDVEDDGSK 27 1 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 SATPEPVTDNRDVEDMELS(0.957)DVEDDGS(0.043)K;SATPEPVT(0.018)DNRDVEDMELS(0.972)DVEDDGS(0.01)K;SATPEPVT(0.001)DNRDVEDMELS(0.999)DVEDDGSK ;; 109.46 3.92E-07 30783500 2343.79 2952.94 2021.34 1853.55 2499.42 2690.76 2155.08 2084.4 3520.41 2767.59 TRUE FALSE FALSE 2590.320586 3048.617193 2296.797689 1889.428141 2307.91498 2461.49211 1912.584727 2031.084066 3495.91118 2886.914349 0.897262708 1.056012346 0.795589135 0.654480151 0.79944006 0.852637734 0.662501375 0.703548433 1.210950779 1 11.49531259 -6.604127158 6.128059029 0.957563094 0.739181284 0.627292959 0.105045001 0.090147073 5.389865571 0.011428477 0.016223114 2.49E-07 6.604127158 -0.21838181 SATREPPYR ddPTM_HeLa_SAHA_4h_R1 1 SATREPPYR 9 1 A0A0R4J2E8;A8MXP9;P43243;D6REM6;D6R991 A0A0R4J2E8 MATR3 Matrin-3 0 0 101.25 0.014945 1004800 398.81 341.38 359.3 392 417.44 419.66 379.03 428.23 310.39 405.93 FALSE FALSE TRUE 440.7586656 352.440936 408.2635328 399.5877268 385.4558374 383.9026071 336.3805468 417.2764967 308.2299707 423.4316289 1.040920507 0.832344379 0.96417817 0.943688897 0.91031423 0.906646034 0.794415258 0.985463693 0.727933271 1 8.725985227 -7.278148955 24.98767634 1.019323575 0.905015174 0 0.107126164 475.6596892 711304.909 0.008953795 0.010254081 5.27E-08 7.278148955 -0.114308401 SATRPS(ph)PS(ph)PERSSTGPEPPAPTPLLAER ddPTM_HeLa_SAHA_4h_R1 1 SATRPSPSPERSSTGPEPPAPTPLLAER 28 2 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 S(0.018)AT(0.018)RPS(0.905)PS(0.881)PERS(0.062)S(0.079)T(0.036)GPEPPAPTPLLAER 62.404 0.0014131 12617000 585.22 319.36 601.92 347.85 505.51 401.76 692.62 647.88 333.95 350.9 TRUE FALSE FALSE 646.7761247 329.7074735 683.9465229 354.5831397 466.777933 367.5277878 614.6845747 631.3081677 331.6260148 366.0290163 1.767007794 0.900768679 1.868558209 0.968729592 1.275248443 1.004094679 1.679332915 1.724748967 0.90601018 1 8.51581421 -9.676101448 1.544306957 1.000514457 1.438052821 0.201589161 0.342272225 0.547848418 2.357255099 0.242012284 0.054291636 2.11E-10 9.676101448 0.437538363 SATRPSPS(ph)PERS(ph)STGPEPPAPTPLLAER ddPTM_HeLa_SAHA_4h_R1 1 SATRPSPSPERSSTGPEPPAPTPLLAER 28 2 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 S(0.002)AT(0.005)RPS(0.136)PS(0.813)PERS(0.818)S(0.157)T(0.069)GPEPPAPTPLLAER 68.207 0.00044222 14271000 1507.3 528.94 1369.5 1399.5 1302.2 939.89 1808.3 1673.6 433.66 967.51 TRUE FALSE FALSE 1665.84473 546.0780031 1556.128328 1426.589346 1202.425717 859.8060843 1604.825325 1630.791735 430.6421248 1009.224091 1.650619267 0.541086968 1.54190565 1.413550627 1.191435805 0.851947642 1.590157567 1.61588665 0.426706148 1 9.979030835 -4.572746785 24.9997537 1.249327579 1.609459189 0.109305429 0.409314642 135.1342298 67744.86493 0.047713452 0.178527476 2.67E-05 4.572746785 0.36013161 SATTT(ph)GSPGTEK ddPTM_HeLa_SAHA_4h_R1 1 SATTTGSPGTEK 12 0 A0A1B0GUI1;Q6GYQ0-3;Q6GYQ0-4;Q6GYQ0;Q6GYQ0-7;Q6GYQ0-5;Q6GYQ0-6;Q6GYQ0-2 A0A1B0GUI1 RALGAPA1 Ral GTPase-activating protein subunit alpha-1 1 0 SAT(0.003)T(0.007)T(0.582)GS(0.409)PGTEK 203.29 3.33E-10 6527900 1637 1384.1 1676.8 2514.9 3095.2 4618 3031.6 2917.8 2374.8 4245.1 TRUE FALSE FALSE 1809.187171 1428.945748 1905.305572 2563.579526 2858.046445 4224.52042 2690.476389 2843.166901 2358.273573 4428.127036 0.408567134 0.322697551 0.430273467 0.57893089 0.645430093 0.954019699 0.607587896 0.642069859 0.532566829 1 12.1124809 -9.419757925 1.180777452 0.997021549 0.562492672 0 0.215899997 0.357015428 0.899677132 0.124086189 0.032194613 3.80E-10 9.419757925 -0.434528877 SATTTGS(ph)PGTEK ddPTM_HeLa_SAHA_4h_R1 2 SATTTGSPGTEK 12 0 A0A1B0GUI1;Q6GYQ0-3;Q6GYQ0-4;Q6GYQ0;Q6GYQ0-7;Q6GYQ0-5;Q6GYQ0-6;Q6GYQ0-2 A0A1B0GUI1 RALGAPA1 Ral GTPase-activating protein subunit alpha-1 1 0 SAT(0.042)T(0.185)T(0.032)GS(0.74)PGTEK;S(0.024)AT(0.068)T(0.044)T(0.261)GS(0.599)PGT(0.005)EK ; 161.87 0.00014799 10546900 2979 3082.6 2966.2 3882.2 4596.7 7080.7 4505.8 3922.9 3632.2 7306.9 TRUE FALSE FALSE 3292.344888 3182.478263 3370.418289 3957.345595 4244.501839 6477.384525 3998.795525 3822.557898 3606.923224 7621.936218 0.431956499 0.41754197 0.44219975 0.519204764 0.556879737 0.849834522 0.524643006 0.501520583 0.473229258 1 12.89594182 -9.30401349 1.002080337 1.003128921 0.529806158 0 0.197432588 0.265362058 0.472470281 0.09003708 0.02344015 4.97E-10 9.30401349 -0.473322763 SATTTPSGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 SATTTPSGSPR 11 0 Q2M2I8-2;Q2M2I8;A0A096LP60;A0A096LNZ0;A0A096LP25 Q2M2I8-2;A0A096LNZ0 AAK1 AP2-associated protein kinase 1 1 0 SATTTPSGS(1)PR;SATTT(0.006)PS(0.012)GS(0.982)PR ; 139.32 0.00094282 2426400 438.08 835.16 496.33 1068.07 882.75 766.6 876.49 1317.31 1178.54 665.18 TRUE FALSE FALSE 484.1592644 862.219732 563.9672676 1088.744039 815.1138857 701.2813672 777.8650384 1283.615118 1170.338444 693.8591651 0.697777429 1.242643717 0.812797893 1.569113869 1.174754081 1.010696986 1.121070496 1.849964924 1.686708922 1 9.438499054 -6.573464378 1.561111735 0.868528214 1.298422588 0 0.377631317 0.33136726 1.624787672 0.046703558 0.074392762 2.67E-07 6.573464378 0.429894375 SAVAVYSYSCEGPEEES(ph)EDDSHLEGR ddPTM_HeLa_SAHA_4h_R1 1 SAVAVYSYSCEGPEEESEDDSHLEGR 26 0 A0A1B0GTI3;A0A1B0GTY1;A0A1B0GUC3;A0A1B0GV98;A0A1B0GTC5;A0A1B0GU26;A0A1B0GTC3;A0A1B0GVH5;Q9C0B1 A0A1B0GTI3 FTO Alpha-ketoglutarate-dependent dioxygenase FTO 1 0 SAVAVYSYSCEGPEEES(0.936)EDDS(0.064)HLEGR 153.12 6.87E-10 7097100 888.76 1797.4 1123.8 1243.2 1514.1 1547.3 1420.1 1106.3 2318.6 1529.3 TRUE FALSE FALSE 982.2438546 1855.636939 1276.945612 1267.263934 1398.089985 1415.461335 1260.306611 1078.002448 2302.464674 1595.235607 0.615735914 1.163236911 0.800474617 0.794405496 0.876415984 0.887305504 0.790044182 0.675763782 1.443338315 1 10.6395538 -4.358160337 3.085941572 0.844292394 0.665808946 0 0.233382354 0.6101797 9.124328424 0.023120649 0.229593052 4.38E-05 4.358160337 -0.178483449 SAVCIADPLPTPS(ph)QEKSQTELPDEK ddPTM_HeLa_SAHA_4h_R1 1 SAVCIADPLPTPSQEKSQTELPDEK 25 1 Q99575 Q99575 POP1 Ribonucleases P/MRP protein subunit POP1 1 0 SAVCIADPLPT(0.007)PS(0.428)QEKS(0.322)QT(0.244)ELPDEK 93.572 1.31E-05 3974200 827.14 922.37 951.33 1037.2 867.59 1032.2 1246.2 1036.2 774.36 993.66 TRUE FALSE FALSE 914.1423803 952.2553932 1080.972298 1057.276506 801.1154416 944.250753 1105.974296 1009.695504 768.9711657 1036.501545 0.881949848 0.918720669 1.042904666 1.020043347 0.772903278 0.910997921 1.067026191 0.974137963 0.741890998 1 10.01750655 -9.74321264 1.688653562 0.999960625 0.937904105 0 0.115043103 0.921685384 4.758749043 0.062168211 0.013498599 1.81E-10 9.74321264 -0.06205652 SAVEDEGLK ddPTM_HeLa_SAHA_4h_R1 3 SAVEDEGLK 9 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 0 0 ;; ;; 161.92 0.00046127 52406000 6801.6 4936.05 3941.5 5453.6 4769.9 7370.8 5717.7 5462.9 7553.1 6195.5 FALSE FALSE TRUE 7517.023495 5095.981259 4478.627094 5559.162314 4404.431292 6742.766373 5074.329348 5323.166928 7500.537362 6462.618325 1.163154486 0.788531985 0.693005044 0.86020279 0.681524279 1.043349001 0.785181654 0.823685797 1.160603487 1 12.65790307 -7.25292275 24.83447105 1.077045174 0.811142468 0.626651343 0.104287788 299.645878 873767.1864 0.017783051 0.021594637 5.59E-08 7.25292275 -0.265902706 SAVENCQDSWR ddPTM_HeLa_SAHA_4h_R1 2 SAVENCQDSWR 11 0 P52209-2;P52209 P52209-2 PGD "6-phosphogluconate dehydrogenase, decarboxylating" 0 0 ; ; 172.21 0.00047523 13866200 1916.06 1808.32 1316.18 1865.5 1541.8 2021.54 2003.39 1618.23 2225.52 1743.02 FALSE FALSE TRUE 2117.599982 1866.910754 1495.542156 1901.60945 1423.667617 1849.293419 1777.963285 1576.83802 2210.032425 1818.170122 1.164687482 1.02680752 0.822553477 1.045891925 0.783022226 1.017117923 0.977886097 0.86726649 1.215525653 1 10.82827148 -6.987084511 22.44903772 1.078715325 0.925603792 0.46604351 0.096038535 53.22057712 92503.69461 0.014762956 0.019391553 1.03E-07 6.987084511 -0.153111533 SAVLCYSPS(ph)DR ddPTM_HeLa_SAHA_4h_R1 1 SAVLCYSPSDR 11 0 Q86XL3;F5H1D4;Q86XL3-3 Q86XL3 ANKLE2 Ankyrin repeat and LEM domain-containing protein 2 1 0 SAVLCYS(0.313)PS(0.687)DR 85.924 0.018732 3457500 992.63 1284.2 1104.6 1040.6 1544.4 1383.3 1238 1107 1385.1 934.09 TRUE FALSE FALSE 1097.039378 1325.808923 1255.129135 1060.742318 1426.068406 1265.435058 1098.696982 1078.684543 1375.460976 974.3631912 1.125903962 1.360692742 1.288153275 1.088651878 1.463590187 1.29873036 1.12760518 1.107066187 1.411651208 1 9.928315823 -7.780107968 1.484148295 1.036624347 1.247463017 0 0.164946349 0.267601727 1.228253896 0.025591505 0.024358723 1.66E-08 7.780107968 0.21083867 SAVQKPPS(ph)TGSAPAIESVD ddPTM_HeLa_SAHA_4h_R1 1 SAVQKPPSTGSAPAIESVD 19 1 Q9NUQ3;Q9NUQ3-2 Q9NUQ3 TXLNG Gamma-taxilin 1 0 SAVQKPPS(0.805)T(0.145)GS(0.035)APAIES(0.015)VD 86.455 0.013576 5029400 744.02 817.27 756.63 695.97 856.35 733.61 897.05 779.6 605.76 603.28 TRUE FALSE FALSE 822.2794373 843.7500842 859.739596 709.4415057 790.736648 671.1023008 796.1115731 759.6589608 601.5444668 629.2903532 1.306677328 1.340796152 1.366204951 1.127367521 1.256552947 1.066443014 1.265094196 1.207167656 0.955909246 1 9.297582017 -9.336451662 1.073983132 1.000788311 1.244795138 0.577717842 0.089064029 0.335119741 0.695247416 0.060904773 0.016221112 4.61E-10 9.336451662 0.244006826 SAVVAAAAPASVADDT(ph)PPPERR ddPTM_HeLa_SAHA_4h_R1 1 SAVVAAAAPASVADDTPPPERR 22 1 D6RCN9;D6R966;D6RHG9;D6RHC6;D6RIR8;D6R9V1;E7EV55;D6RDY2;D6RBE0;E7EVI8;Q7LFL8 D6RCN9 CXXC5 CXXC-type zinc finger protein 5 1 0 SAVVAAAAPASVADDT(1)PPPERR 132.39 3.49E-06 5823200 927.85 970.14 1208.2 1069.4 1087.7 1122.1 1113 1002.8 1000.2 1162.6 TRUE FALSE FALSE 1025.44552 1001.573173 1372.847204 1090.099783 1004.360661 1026.490767 987.7623107 977.149828 993.2395268 1212.725376 0.845571092 0.825886217 1.132034698 0.898884286 0.828184749 0.846432991 0.814497932 0.805746996 0.819014384 1 10.24403717 -5.837821829 4.610019007 0.933145098 0.824433972 0.222637833 0.088035871 0.235826828 9.328119671 0.013486369 0.025263019 1.45E-06 5.837821829 -0.108711125 SAYPPPAPAYALS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 2 SAYPPPAPAYALSSPR 16 0 O14497;O14497-2 O14497 ARID1A AT-rich interactive domain-containing protein 1A 1 0 SAYPPPAPAYALS(0.5)S(0.5)PR;SAYPPPAPAYALS(0.675)S(0.325)PR ; 207.21 1.54E-15 24392000 2101.31 2235.16 1980.41 1820.78 2080.35 2280.39 2377.2 1754.63 2046.15 2134.54 TRUE FALSE FALSE 2322.335427 2307.580651 2250.289961 1856.02383 1920.954032 2086.087943 2109.7112 1709.749105 2031.910676 2226.570466 1.043010074 1.036383392 1.010652928 0.83357965 0.862741181 0.936906321 0.947516026 0.76788457 0.912574161 1 11.12060755 -6.307140871 8.065285811 1.021767085 0.877447367 0.529332335 0.059805173 0.137969952 22.60166882 0.007450454 0.011427493 4.93E-07 6.307140871 -0.144319718 SAYQEAMDISK ddPTM_HeLa_SAHA_4h_R1 1 SAYQEAMDISK 11 0 P31947-2;P31947 P31947-2 SFN 14-3-3 protein sigma 0 0 131.17 0.0076638 3903200 925.51 885.67 896.12 1033.4 910.22 1096.4 1074.9 1139.9 1149.7 1011.1 FALSE FALSE TRUE 1022.859388 914.3662891 1018.238567 1053.402951 840.4791402 1002.980552 953.949423 1110.743009 1141.699144 1054.693469 0.969816746 0.866949797 0.965435547 0.998776405 0.79689423 0.950968771 0.90448026 1.053142966 1.082493803 1 10.04260805 -7.489829089 10.28153383 0.986728516 0.930825562 0.184951365 0.072967006 0.761132431 232.0652188 0.010903717 0.01210145 3.24E-08 7.489829089 -0.055902954 SAYQEYDS(ph)DSDVPEELKR ddPTM_HeLa_SAHA_4h_R1 4 SAYQEYDSDSDVPEELKR 18 1 H0Y7Q2;Q96JG6-3;Q96JG6 H0Y7Q2 CCDC132 Coiled-coil domain-containing protein 132 1 0 SAYQEYDS(0.909)DS(0.091)DVPEELKR;SAYQEYDS(0.956)DS(0.044)DVPEELKR;SAYQEYDS(0.971)DS(0.029)DVPEELKR;SAYQEYDS(0.993)DS(0.007)DVPEELKR ;;; 189.09 4.38E-13 58707000 4913.15 6166.5 5503.4 6664.86 7195.5 8463.5 6121.39 5921.49 7895.3 5678.8 TRUE FALSE FALSE 5429.937659 6366.298646 6253.374692 6793.868003 6644.182345 7742.362186 5432.595087 5770.02686 7840.355964 5923.640859 0.916655447 1.074727317 1.055664049 1.146907479 1.12163828 1.307027615 0.917104061 0.974067638 1.323570444 1 12.53226846 -7.166115015 5.548264188 0.960784884 1.091206179 0 0.152028826 0.238253097 11.17932376 0.017252684 0.021183939 6.82E-08 7.166115015 0.130421295 SCDELSPVS(ph)PTQGGYPSEPTR ddPTM_HeLa_SAHA_4h_R1 3 SCDELSPVSPTQGGYPSEPTR 21 0 Q9HCD6;Q9HCD6-2 Q9HCD6 TANC2 Protein TANC2 1 0 SCDELSPVS(0.979)PT(0.021)QGGYPSEPTR;SCDELSPVS(0.773)PT(0.227)QGGYPSEPTR;SCDELSPVS(0.985)PT(0.015)QGGYPSEPTR ;; 273.01 4.11E-111 13278300 5065.86 6388.4 5072.18 3354.12 5491.38 5320.11 6729.5 4298 4175.89 5594.82 TRUE FALSE FALSE 5598.710398 6595.388352 5763.390276 3419.043843 5070.631651 4866.806698 5972.278949 4188.063383 4146.829641 5836.040071 0.959333783 1.130113617 0.987551526 0.58584996 0.868847984 0.833922769 1.023344404 0.717620738 0.710555375 1 12.51077407 -6.467954545 24.99958561 0.994667253 0.819413636 0.191709425 0.144740451 245.6825974 111826.0979 0.01678796 0.025643957 3.40E-07 6.467954545 -0.175253617 SCDEPLTPPPHSPT(ph)SMLQLIHDPVSPR ddPTM_HeLa_SAHA_4h_R1 1 SCDEPLTPPPHSPTSMLQLIHDPVSPR 27 0 I3VM54;Q9Y2K7-3;Q9Y2K7;Q9Y2K7-4;Q9Y2K7-5;Q9Y2K7-2 I3VM54 KDM2A Lysine-specific demethylase 2A 1 0 SCDEPLTPPPHS(0.179)PT(0.604)S(0.216)MLQLIHDPVSPR 81.525 2.39E-05 5922100 1074.3 1050.5 782.23 1113.9 1620 901.81 1289.8 1612.6 1056.7 1346.7 TRUE FALSE FALSE 1187.299803 1084.536889 888.8282307 1135.461145 1495.87595 824.9707146 1144.668309 1571.352027 1049.346339 1404.762828 0.845195915 0.772042702 0.632724766 0.808293844 1.064860146 0.587266903 0.814848092 1.118588844 0.746991818 1 10.45611086 -8.750369525 0.888574203 0.98995174 0.822234059 0 0.172891183 0.765827718 1.199006164 0.071096582 0.030957278 1.78E-09 8.750369525 -0.167717681 SCFES(ph)SPDPELK ddPTM_HeLa_SAHA_4h_R1 3 SCFESSPDPELK 12 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SCFES(0.5)S(0.5)PDPELK;SCFES(0.5)S(0.5)PDPELK;SCFES(0.5)S(0.5)PDPELK ;; 269.93 8.82E-54 3219227000 19839.2 20666.1 18984.2 19176.4 20442.7 22160.4 21811.8 19525.8 21529.4 17737 TRUE FALSE FALSE 21925.97808 21335.6952 21571.26791 19547.58695 18876.38474 20272.20925 19357.47886 19026.35831 21379.57515 18501.72887 1.185077256 1.153173055 1.165905525 1.056527586 1.020249776 1.095692699 1.046252434 1.028355698 1.155544722 1 14.17537247 -6.033470951 23.8652695 1.101396363 1.049398364 0.28921848 0.055229986 693.6071569 494551.0763 0.011770427 0.01953015 9.26E-07 6.033470951 -0.051997999 SCFESS(ph)PDPELK ddPTM_HeLa_SAHA_4h_R1 3 SCFESSPDPELK 12 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SCFES(0.097)S(0.903)PDPELK;SCFES(0.154)S(0.846)PDPELK;SCFES(0.07)S(0.93)PDPELK ;; 231.66 1.03E-22 397372000 19881.8 19857.7 19104.7 20801.3 23053.5 24086 23561.5 21858.3 22768.4 21138.6 TRUE FALSE FALSE 21973.05894 20501.10251 21708.18902 21203.93924 21287.14581 22033.7373 20910.29801 21299.19634 22609.95285 22049.9885 0.99651113 0.929755701 0.984498882 0.961630399 0.965403942 0.999262984 0.94831333 0.965950451 1.025395222 1 14.42849028 -7.475137355 24.9992992 0.99846081 0.966065114 0.479594754 0.019553389 250.2657526 131049.9952 0.002777474 0.003167111 3.35E-08 7.475137355 -0.032395696 SCLLEEEEES(ph)GEEAAEAME ddPTM_HeLa_SAHA_4h_R1 3 SCLLEEEEESGEEAAEAME 19 0 Q969H6-2;Q969H6 Q969H6-2 POP5 Ribonuclease P/MRP protein subunit POP5 1 0 SCLLEEEEES(1)GEEAAEAME;SCLLEEEEES(1)GEEAAEAME;SCLLEEEEES(1)GEEAAEAME ;; 175.15 4.24E-09 34451600 7376 7618.7 7034.8 7490.8 7964.1 8245.8 8732.5 9503.2 8077.5 7535.8 TRUE FALSE FALSE 8151.841522 7865.550879 7993.465908 7635.795266 7353.892379 7543.21145 7749.896117 9260.121904 8021.28802 7860.705217 1.037036919 1.000616441 1.016889158 0.971388069 0.93552578 0.959610015 0.985903415 1.178026863 1.020428549 1 12.94044303 -6.41275549 19.45377203 1.016364575 0.998032777 0 0.062927308 21.3199162 3726.459597 0.009557954 0.014599992 3.87E-07 6.41275549 -0.018331798 SCMLT(ph)GTPESVQSAK ddPTM_HeLa_SAHA_4h_R1 1 SCMLTGTPESVQSAK 15 0 Q96AE4;E9PEB5;Q96AE4-2;C9JSZ1 Q96AE4 FUBP1 Far upstream element-binding protein 1 1 0 S(0.27)CMLT(0.312)GT(0.105)PES(0.312)VQSAK 123.72 0.0010906 17259000 1872.9 1560.6 1806.7 1811.8 1767.2 2220.7 1963.9 2002.4 2433.9 1641.8 TRUE FALSE FALSE 2069.900215 1611.164464 2052.907667 1846.870009 1631.797518 2031.483867 1742.916803 1951.181507 2416.962292 1712.586033 1.208640136 0.940778701 1.198717978 1.078410061 0.952826595 1.186208358 1.017710509 1.139318826 1.411293941 1 10.74196075 -6.012825319 24.80780339 1.095476502 1.070209283 0 0.138209757 3000.822071 5804466.706 0.015806433 0.027032478 9.71E-07 6.012825319 -0.025267219 SCMLTGT(ph)PESVQSAK ddPTM_HeLa_SAHA_4h_R1 3 SCMLTGTPESVQSAK 15 0 Q96AE4;E9PEB5;Q96AE4-2;C9JSZ1 Q96AE4 FUBP1 Far upstream element-binding protein 1 1 0 S(0.003)CMLT(0.298)GT(0.698)PESVQSAK;SCMLT(0.063)GT(0.745)PES(0.191)VQSAK;SCMLT(0.004)GT(0.996)PESVQSAK ;; 228.49 1.93E-24 45829600 2908.12 3059.76 2871.4 3216.35 3066.26 3367.32 2651.74 3219.59 3635.27 3153.8 TRUE FALSE FALSE 3214.009405 3158.898232 3262.699438 3278.607105 2831.323821 3080.405392 2353.359236 3137.23755 3609.97186 3289.775752 0.976969145 0.960216887 0.991769556 0.996605043 0.86064341 0.936357255 0.715355518 0.953632644 1.097330679 1 11.68377353 -5.758846206 24.96118236 0.987150119 0.860691351 0.471379074 0.069807294 37.80491545 363891.8354 0.007895558 0.015230367 1.74E-06 5.758846206 -0.126458768 SCNCLLLK ddPTM_HeLa_SAHA_4h_R1 3 SCNCLLLK 8 0 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 ;; ;; 127.46 0.012461 18617800 3917.7 3442.55 4217.79 4558.2 3586.21 3177.58 4360.8 3543.64 3195.49 3003.09 FALSE FALSE TRUE 4329.781661 3554.090879 4792.568456 4646.430552 3311.435365 2906.832307 3870.111307 3452.99882 3173.252325 3132.567907 1.382182858 1.134561479 1.52991686 1.483265707 1.057099307 0.92793912 1.235443707 1.102290173 1.012987561 1 11.61313007 SCPETLTHAVGMS(ph)ESPIGPK ddPTM_HeLa_SAHA_4h_R1 1 SCPETLTHAVGMSESPIGPK 20 0 Q68CZ2;Q68CZ2-2;E9PCX8 Q68CZ2 TNS3 Tensin-3 1 0 SCPETLTHAVGMS(0.704)ES(0.296)PIGPK 63.374 0.0078564 4148500 839.06 1045.1 691.82 841.74 1017.9 1134.8 931.65 879.98 961.26 981.41 TRUE FALSE FALSE 927.3161805 1078.961926 786.0976268 858.0330949 939.9087219 1038.108656 826.81829 857.4713858 954.5705134 1023.723388 0.905826898 1.05395846 0.76788089 0.838149353 0.918127624 1.014051909 0.807657908 0.83760066 0.932449649 1 9.999610234 -13.52287873 0.108120884 1.373500251 0.819211831 0.133055041 0.083930791 122.7577627 0.978050159 10.14755318 0.550002379 3.00E-14 13.52287873 -0.55428842 SCPETLTHAVGMSES(ph)PIGPK ddPTM_HeLa_SAHA_4h_R1 3 SCPETLTHAVGMSESPIGPK 20 0 Q68CZ2;Q68CZ2-2;E9PCX8 Q68CZ2 TNS3 Tensin-3 1 0 SCPETLTHAVGMS(0.416)ES(0.584)PIGPK;SCPETLTHAVGMS(0.281)ES(0.719)PIGPK;SCPETLTHAVGMS(0.006)ES(0.994)PIGPK ;; 153.25 1.49E-05 38702900 8406.02 9544.5 7152.59 9628.57 12499.8 12595.2 10513.8 9947.6 10326.97 10215.83 TRUE FALSE FALSE 9290.203752 9853.748062 8127.307716 9814.944895 11542.06802 11522.0181 9330.759553 9693.154796 10255.10377 10656.28443 0.87180516 0.924688913 0.762677439 0.921047572 1.083123119 1.081241607 0.875610971 0.909618626 0.96235267 1 13.37941687 -5.913424241 24.99998037 0.920920748 0.988113664 0.16605389 0.084826684 42.93506865 12390.96405 0.014143358 0.025637016 1.22E-06 5.913424241 0.067192916 SCPS(ph)FSASSEGTR ddPTM_HeLa_SAHA_4h_R1 1 SCPSFSASSEGTR 13 0 D6RCP9;D6RFG8;P27707;D6RG38 D6RCP9 DCK Deoxycytidine kinase 1 0 S(0.002)CPS(0.952)FS(0.036)AS(0.005)S(0.005)EGTR 127.78 0.00083409 6316900 779.89 637.82 635.12 662.07 817.56 876.41 1091 1071.2 946.83 840.66 TRUE FALSE FALSE 861.9224085 658.4857865 721.670846 674.8853222 754.9187294 801.7349375 968.2378086 1043.800255 940.2409329 876.9049667 0.982914274 0.750920352 0.822974978 0.769621963 0.860890014 0.914278021 1.104153637 1.190323119 1.072226716 1 9.776276691 -4.63600282 3.699384424 0.933053876 1.17422007 0.469664814 0.102333235 0.182675298 4.578285576 0.01629497 0.073278643 2.31E-05 4.63600282 0.241166194 SCPSFSASS(ph)EGTR ddPTM_HeLa_SAHA_4h_R1 1 SCPSFSASSEGTR 13 0 D6RCP9;D6RFG8;P27707;D6RG38 D6RCP9 DCK Deoxycytidine kinase 1 0 SCPSFS(0.004)AS(0.401)S(0.59)EGT(0.004)R 99.669 0.0056671 3730300 612.01 551.61 486.88 527.69 721.98 495.1 558.52 674.67 771.27 451.27 TRUE FALSE FALSE 676.3840198 569.4825259 553.2294708 537.904203 666.6620484 452.9146946 495.6738597 657.4129183 765.9026693 470.7264582 1.436893992 1.209795022 1.175267422 1.14271079 1.416240869 0.962161117 1.052997662 1.396592239 1.627065265 1 8.878745135 -5.247121768 24.81171698 1.21584438 1.128825123 0.026819968 0.204198593 2276.782565 3945541.738 0.027424676 0.069567425 5.66E-06 5.247121768 -0.087019257 SCQGACGPS(ph)PPDQK ddPTM_HeLa_SAHA_4h_R1 2 SCQGACGPSPPDQK 14 0 P18754-2 P18754-2 RCC1 Regulator of chromosome condensation 1 0 SCQGACGPS(1)PPDQK;SCQGACGPS(1)PPDQK ; 150.37 7.46E-05 2944900 1655.7 1623.7 1528.56 1818.09 1837.39 1718.06 2086.9 1690.02 1827.26 1430.11 TRUE FALSE FALSE 1829.854123 1676.308945 1736.864196 1853.281761 1696.609575 1571.671622 1852.07652 1646.791736 1814.543949 1491.769041 1.226633663 1.123705412 1.164298326 1.242338264 1.137313839 1.0535623 1.241530337 1.103918697 1.216370564 1 10.54280848 -9.439980426 1.122376179 0.998226756 1.167435969 0 0.088351302 0.314699521 0.697101557 0.042289133 0.010118876 3.63E-10 9.439980426 0.169209213 SCQKS(ph)PAQQEPPQR ddPTM_HeLa_SAHA_4h_R1 1 SCQKSPAQQEPPQR 14 1 A0A669KBI3;F5GXF9;P51825;P51825-3;P51825-2 A0A669KBI3 AFF1 AF4/FMR2 family member 1 1 0 S(0.428)CQKS(0.572)PAQQEPPQR 70.335 0.017382 822970 167.35 227.87 124.83 180.02 194.76 219.26 172.86 192.11 185.88 100.14 TRUE FALSE FALSE 184.9526408 235.2531375 141.8411823 183.5045474 179.8375309 200.5778145 153.4093379 187.1961044 184.5864459 104.4575255 1.7706014 2.25214159 1.357883807 1.756738412 1.721633076 1.920185392 1.468628872 1.79207868 1.767095718 1 6.706772623 -9.093170901 0.845723143 0.99490669 1.750118992 0 0.325633715 0.323823243 0.416727165 0.152050589 0.044144188 8.07E-10 9.093170901 0.755212301 SCS(ph)ASCVPHGAK ddPTM_HeLa_SAHA_4h_R1 2 SCSASCVPHGAK 12 0 P00519;P00519-2 P00519 ABL1 Tyrosine-protein kinase ABL1 1 0 S(0.048)CS(0.949)AS(0.004)CVPHGAK;S(0.003)CS(0.994)AS(0.003)CVPHGAK ; 142.97 5.45E-07 0 4190.38 6920.8 3539.66 3069.53 6479.96 9961.5 6201.5 4254 3099.32 5925.02 TRUE FALSE FALSE 4631.143395 7145.038461 4022.026431 3128.945192 5983.466865 9112.724158 5503.690899 4145.18884 3077.75158 6180.476609 0.749318166 1.156065934 0.650763151 0.506262767 0.968123859 1.474437124 0.890496194 0.670690806 0.49797965 1 12.59350238 -5.531716993 24.98382047 0.854164374 1.036660843 0.101392357 0.275613261 362.6173391 1025039.597 0.037627145 0.075338488 2.94E-06 5.531716993 0.182496469 SCS(ph)FSSESR ddPTM_HeLa_SAHA_4h_R1 2 SCSFSSESR 9 0 Q5VZ89-3;Q5VZ89;Q5VZ89-7;X6RAE7;Q5VZ89-5 Q5VZ89-3 DENND4C DENN domain-containing protein 4C 1 0 S(0.025)CS(0.57)FS(0.405)SESR;SCS(0.927)FS(0.072)S(0.001)ESR ; 153.1 0.00029525 98515000 3851.4 5159.6 3924.7 3159.8 4810.1 4647 5419.1 4168 3512.6 4635.8 TRUE FALSE FALSE 4256.507923 5326.774425 4459.537677 3220.962498 4441.551177 4251.049457 4809.328606 4061.388595 3488.155531 4835.672025 0.880230897 1.101558252 0.922216737 0.666083738 0.918497192 0.879102105 0.994552273 0.839880905 0.721338319 1 12.23950068 -6.513592678 24.98470369 0.956490615 0.863740037 0.045469774 0.120013868 620.4531974 1669365.857 0.015316994 0.022362027 3.06E-07 6.513592678 -0.092750578 SCS(ph)PELQQK ddPTM_HeLa_SAHA_4h_R1 2 SCSPELQQK 9 0 P16152 P16152 CBR1 Carbonyl reductase [NADPH] 1 1 0 S(0.001)CS(0.999)PELQQK;S(0.042)CS(0.958)PELQQK ; 111.27 0.0051615 8993000 5303.4 5504.9 5421.2 5435.9 5907.8 6332.9 6553.6 6111.1 5464.8 4605.3 TRUE FALSE FALSE 5861.235945 5683.262372 6159.972904 5541.119705 5455.14564 5793.301292 5816.17168 5954.786911 5426.770012 4803.857021 1.220110407 1.183062349 1.282297303 1.15347307 1.135576187 1.205968718 1.210729556 1.239584543 1.129669345 1 12.2299775 -9.228141307 0.774635707 0.987844342 1.203826866 0.436474158 0.055523207 0.270121148 0.266329925 0.03659845 0.008223854 5.91E-10 9.228141307 0.215982524 SCS(ph)PLAFSAFGDLTIK ddPTM_HeLa_SAHA_4h_R1 1 SCSPLAFSAFGDLTIK 16 0 E9PLZ8;Q96EY5-2;Q96EY5 E9PLZ8 MVB12A Multivesicular body subunit 12A 1 0 S(0.154)CS(0.795)PLAFS(0.043)AFGDLT(0.008)IK 108.14 0.0021912 7476200 339.92 359.15 366.14 478.11 606.82 420.65 497.47 400.69 467.92 293.58 TRUE FALSE FALSE 375.6743452 370.7866956 416.0356524 487.3645104 560.3255827 384.8082535 441.4933663 390.44093 464.6637066 306.2376705 1.226741127 1.210780813 1.358538457 1.591458391 1.829708219 1.256567335 1.441669033 1.274960488 1.517330333 1 8.258507951 -7.389603557 0.76224255 1.055562605 1.474962287 0.030411177 0.218415663 0.348028414 0.423705455 0.045881673 0.050328629 4.08E-08 7.389603557 0.419399682 SCS(ph)PSSSVSR ddPTM_HeLa_SAHA_4h_R1 1 SCSPSSSVSR 10 0 Q96S65 Q96S65 CSRNP1 Cysteine/serine-rich nuclear protein 1 1 0 SCS(0.7)PS(0.277)S(0.02)S(0.004)VSR 109.39 0.0058454 6271900 817.33 769.19 753.28 1279.2 1022.3 1194.6 976.07 897.3 811.63 765.55 TRUE FALSE FALSE 903.3005194 794.1122607 855.9330755 1303.960766 943.9715949 1092.813359 866.2400347 874.3483653 805.9818007 798.556607 1.131166547 0.994434526 1.071850221 1.632897097 1.182097282 1.368485778 1.084757207 1.09491094 1.009298268 1 9.641250869 -6.477274739 24.99816765 1.057394693 1.271476643 0.366696691 0.151353054 390.5795327 214099.108 0.022982225 0.035104979 3.33E-07 6.477274739 0.21408195 SCSS(ph)PAVSAVSQLPLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 SCSSPAVSAVSQLPLSPK 18 0 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 2 0 S(0.014)CS(0.043)S(0.942)PAVS(0.001)AVSQLPLS(1)PK;S(0.228)CS(0.345)S(0.426)PAVSAVSQLPLS(1)PK;S(0.007)CS(0.115)S(0.878)PAVSAVSQLPLS(1)PK ;; 209.23 5.17E-16 32899800 10514.3 10597.4 8949 9823.9 10135.6 11757.9 10889.1 10244.8 11954.3 10845.6 TRUE FALSE FALSE 11620.24232 10940.76271 10168.52312 10014.05579 9359.012518 10756.06077 9663.829809 9982.75285 11871.10905 11313.20689 1.027139557 0.967078815 0.898818806 0.885165089 0.82726433 0.950752592 0.854207821 0.882398152 1.049314236 1 13.46572032 -6.85110022 2.411509189 1.012748235 0.880164429 0.800630887 0.032119815 0.084380801 1.002737901 0.004836598 0.006638833 1.41E-07 6.85110022 -0.132583806 SCSS(ph)PAVSAVSQLPLSPK ddPTM_HeLa_SAHA_4h_R1 2 SCSSPAVSAVSQLPLSPK 18 0 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 S(0.154)CS(0.263)S(0.582)PAVS(0.001)AVSQLPLSPK;S(0.019)CS(0.139)S(0.825)PAVS(0.008)AVS(0.008)QLPLSPK ; 100.68 0.0020008 9155100 3905.3 3841.2 3811.6 3751.1 4255.3 4720.7 4714.9 3928.7 4026.7 3673.7 TRUE FALSE FALSE 4316.077372 3965.6574 4331.024998 3823.707965 3929.259833 4318.469802 4184.367043 3828.209543 3998.677867 3832.091186 1.126298192 1.034854655 1.130198836 0.997812364 1.025356559 1.126922506 1.091927838 0.998987069 1.043471482 1 11.90391618 -9.633770874 1.469827321 1.00017148 1.075657698 0.067492351 0.051151454 0.481503806 1.87598725 0.035161881 0.008081977 2.32E-10 9.633770874 0.075486218 SCT(ph)PSPDQISHR ddPTM_HeLa_SAHA_4h_R1 2 SCTPSPDQISHR 12 0 C9J6P4;Q7Z2W4;Q7Z2W4-3;Q7Z2W4-2 C9J6P4 ZC3HAV1 Zinc finger CCCH-type antiviral protein 1 1 0 S(0.01)CT(0.74)PS(0.25)PDQISHR;S(0.075)CT(0.67)PS(0.254)PDQISHR ; 174.72 8.73E-05 14843000 3256.7 3541.2 2630.9 2883.2 3495.4 3420.7 3157.2 3388.2 3832.4 3721.2 TRUE FALSE FALSE 3599.254648 3655.937203 2989.425351 2939.008505 3227.583207 3129.237116 2801.943547 3301.53475 3805.730016 3881.639143 0.927251224 0.941853961 0.770145096 0.757156551 0.831500067 0.80616384 0.721845448 0.850551694 0.980444054 1 11.92245029 -6.810997351 5.197955938 0.963873078 0.787496985 0.827765262 0.038676254 0.061564671 3.622915823 0.006851448 0.009166428 1.55E-07 6.810997351 -0.176376093 SCT(ph)QESMLRFPQLY(ph)K ddPTM_HeLa_SAHA_4h_R1 1 SCTQESMLRFPQLYK 15 1 Q9NTI2;F8VRS1;Q9NTI2-1 Q9NTI2 ATP8A2 Phospholipid-transporting ATPase IB;Phospholipid-transporting ATPase 2 0 S(0.033)CT(0.936)QES(0.031)MLRFPQLY(0.999)K 46.069 0.019919 7267400 1298.9 1350.5 1352.9 3065.7 1543.9 1563.4 1615.8 2064.4 2220.5 1204.1 TRUE FALSE FALSE 1435.524262 1394.257086 1537.266166 3125.041057 1425.606716 1430.189525 1433.985931 2011.595637 2205.04736 1256.014644 1.142920004 1.110064356 1.223923761 2.488061005 1.135023961 1.138672651 1.141695233 1.60157021 1.755590487 1 10.29463757 -6.513005325 24.81736462 1.077065222 1.482122247 0.020194367 0.43037976 525.2726049 1320301.53 0.058053028 0.084985498 3.07E-07 6.513005325 0.405057024 SCTPS(ph)PDQISHR ddPTM_HeLa_SAHA_4h_R1 6 SCTPSPDQISHR 12 0 C9J6P4;Q7Z2W4;Q7Z2W4-3;Q7Z2W4-2 C9J6P4 ZC3HAV1 Zinc finger CCCH-type antiviral protein 1 1 0 S(0.024)CT(0.024)PS(0.952)PDQISHR;S(0.001)CT(0.041)PS(0.958)PDQISHR;SCT(0.344)PS(0.655)PDQISHR;SCTPS(1)PDQISHR;S(0.006)CT(0.207)PS(0.787)PDQISHR;SCTPS(1)PDQISHR ;;;;; 198.52 3.04E-10 35684700 11054.19 10974.17 9289.69 11427.24 12799.25 13868.5 12359.61 12561.08 13320.5 12100.75 TRUE FALSE FALSE 12216.92042 11329.74031 10555.64057 11648.43075 11818.57423 12686.82578 10968.87415 12239.78576 13227.80156 12622.47255 0.967870627 0.897584864 0.836257756 0.922832726 0.936312135 1.005098306 0.868995683 0.969682106 1.047956452 1 13.62370692 -7.468010419 3.398310647 0.986878369 0.918654887 0.377298002 0.049144193 0.215226773 4.768330873 0.008229209 0.009115194 3.40E-08 7.468010419 -0.068223482 SCTPSPDQIS(ph)HRASLEDAPVDDLTR ddPTM_HeLa_SAHA_4h_R1 1 SCTPSPDQISHRASLEDAPVDDLTR 25 1 C9J6P4;Q7Z2W4;Q7Z2W4-3;Q7Z2W4-2 C9J6P4 ZC3HAV1 Zinc finger CCCH-type antiviral protein 1 1 0 SCTPSPDQIS(0.958)HRAS(0.042)LEDAPVDDLTR 113.59 5.17E-07 11546000 897.61 706.34 658.33 625.53 975.84 1193.1 1168.6 841.71 855.83 855.85 TRUE FALSE FALSE 992.0247382 729.2258794 748.043784 637.6380377 901.07135 1091.441168 1037.106052 820.180277 849.8742093 892.7498819 1.111201198 0.816831113 0.837909698 0.714240406 1.009321164 1.222560977 1.161698336 0.918712277 0.951973477 1 9.802112228 -5.493798959 24.23202596 0.98973736 1.108541311 0.150887488 0.140354157 900.2142668 750142.1459 0.023155236 0.05167722 3.21E-06 5.493798959 0.118803951 SCTPSPDQISHRAS(ph)LEDAPVDDLTR ddPTM_HeLa_SAHA_4h_R1 3 SCTPSPDQISHRASLEDAPVDDLTR 25 1 C9J6P4;Q7Z2W4;Q7Z2W4-3;Q7Z2W4-2 C9J6P4 ZC3HAV1 Zinc finger CCCH-type antiviral protein 1 1 0 SCTPSPDQIS(0.034)HRAS(0.966)LEDAPVDDLTR;SCTPS(0.002)PDQIS(0.2)HRAS(0.797)LEDAPVDDLTR;SCTPS(0.001)PDQIS(0.4)HRAS(0.599)LEDAPVDDLTR ;; 87.05 2.36E-05 37303000 2317.98 2254.34 1567.46 2180.58 2732.7 2824.77 2775.54 2946.36 2025.87 2201 TRUE FALSE FALSE 2561.795772 2327.382095 1781.065286 2222.788279 2523.321116 2584.083704 2463.228934 2870.996377 2011.771806 2295.895881 1.115815309 1.01371413 0.775760478 0.968157266 1.099057295 1.125523037 1.072883555 1.250490669 0.876246968 1 11.1648415 -3.556396526 0.88225879 1.029107185 1.764286394 0.330933976 0.105063048 6.75640859 1.613291074 0.016536841 6.474036727 0.000277718 3.556396526 0.735179209 SDADSGFLGLRPT(ph)SVDPALR ddPTM_HeLa_SAHA_4h_R1 1 SDADSGFLGLRPTSVDPALR 20 1 Q9NZM5 Q9NZM5 GLTSCR2 Glioma tumor suppressor candidate region gene 2 protein 1 0 SDADSGFLGLRPT(0.5)S(0.5)VDPALR 67.252 0.010065 6761900 1969.6 2100.5 2216.8 2743.6 2567.7 3410 2990.2 2858.6 2350.3 2433.3 TRUE FALSE FALSE 2176.771565 2168.557578 2518.893959 2796.706345 2370.963381 3119.448816 2653.734826 2785.481151 2333.944071 2538.211471 0.857600554 0.854364423 0.992389321 1.101841347 0.934107897 1.228994846 1.045513684 1.097418865 0.919523096 1 11.30959656 -6.474192647 4.347767548 0.924732927 1.078505072 0.519123892 0.078035709 0.161897671 6.522566414 0.013365962 0.020299638 3.36E-07 6.474192647 0.153772145 SDADSGFLGLRPT(ph)SVDPALRR ddPTM_HeLa_SAHA_4h_R1 1 SDADSGFLGLRPTSVDPALRR 21 2 Q9NZM5 Q9NZM5 GLTSCR2 Glioma tumor suppressor candidate region gene 2 protein 1 0 SDADSGFLGLRPT(0.5)S(0.5)VDPALRR 90.422 0.00076001 4800800 1474.1 1440.3 1613.8 1670.2 2075.6 1804.5 1643.1 1866.4 1703.6 1493.3 TRUE FALSE FALSE 1629.152601 1486.966665 1833.72026 1702.529136 1916.567976 1650.746448 1458.214064 1818.660191 1691.744509 1557.683471 1.045881677 0.954601299 1.177209808 1.092987868 1.230396298 1.059744472 0.936142734 1.16754156 1.086064364 1 10.60518639 -6.76521587 24.99999469 1.017241856 1.105060889 0.223085047 0.080826275 109.711168 726277.3445 0.012474524 0.016746905 1.72E-07 6.76521587 0.087819033 SDAEEDGGTVS(ph)QEEEDRKPK ddPTM_HeLa_SAHA_4h_R1 2 SDAEEDGGTVSQEEEDRKPK 20 2 P27824;P27824-2;P27824-3 P27824 CANX Calnexin 1 0 SDAEEDGGT(0.041)VS(0.959)QEEEDRKPK;SDAEEDGGT(0.032)VS(0.968)QEEEDRKPK ; 79.172 0.0023118 22582000 2302.6 7811 3388.3 2639.61 4802.1 3953.3 5183.6 3723.2 4619.1 4614 TRUE FALSE FALSE 2544.798033 8064.081525 3850.039878 2690.703468 4434.164135 3616.456599 4600.327686 3627.965935 4586.955307 4812.93212 0.528741725 1.675502858 0.799936459 0.559057016 0.921302031 0.751404032 0.955826421 0.753795367 0.953047995 1 12.23270036 SDAGLES(ph)DTAMK ddPTM_HeLa_SAHA_4h_R1 2 SDAGLESDTAMK 12 0 Q9NR30 Q9NR30 DDX21 Nucleolar RNA helicase 2 1 0 SDAGLES(0.703)DT(0.297)AMK;SDAGLES(0.979)DT(0.021)AMK ; 184.31 1.37E-06 53710000 2550.2 2335.25 1806.26 2092.62 2581.6 2855.7 2773.9 3746.4 2641.8 2953.1 TRUE FALSE FALSE 2818.441737 2410.913632 2052.407706 2133.125686 2383.798366 2612.378294 2461.773471 3650.572513 2623.415499 3080.422593 0.914952949 0.782656781 0.666274722 0.692478263 0.773854331 0.848058413 0.799167451 1.185088215 0.851641429 1 11.58891257 -7.547336553 2.259338148 0.968506363 0.809405753 0.072275365 0.139736372 0.327299764 3.386421256 0.025781096 0.027553093 2.84E-08 7.547336553 -0.15910061 SDAGLESDT(ph)AMK ddPTM_HeLa_SAHA_4h_R1 1 SDAGLESDTAMK 12 0 Q9NR30 Q9NR30 DDX21 Nucleolar RNA helicase 2 1 0 SDAGLES(0.294)DT(0.706)AMK 111.79 0.0048179 3856800 1112 919.29 853.03 830.34 1135.3 1269.5 853.7 1336.5 1086.2 1067.8 TRUE FALSE FALSE 1228.965262 949.0755992 969.276486 846.4124314 1048.313559 1161.331458 757.6394292 1302.314265 1078.641046 1113.838084 1.103360785 0.852076808 0.870213095 0.759906169 0.941172307 1.042639388 0.680206073 1.169213267 0.96840022 1 10.12132381 -7.258568466 24.98317342 1.04880926 0.893862243 0.139181001 0.133384181 258.1428554 2246405.193 0.02043996 0.024457159 5.51E-08 7.258568466 -0.154947017 SDATADDLIDVVEGNR ddPTM_HeLa_SAHA_4h_R1 1 SDATADDLIDVVEGNR 16 0 Q9Y295 Q9Y295 DRG1 Developmentally-regulated GTP-binding protein 1 0 0 171.29 6.56E-18 0 153.43 321.57 172.58 251.58 148.33 237.99 303.1 0 244.15 160.57 FALSE FALSE TRUE 169.5684714 331.989079 196.0983036 256.4496947 136.9649874 217.7119131 268.9943903 0 242.4509403 167.4929585 1.012391642 1.982107677 1.170785359 1.531107319 0.817735794 1.299827259 1.606004173 0 1.447529152 1 7.387956635 -3.265362139 13.20187059 1.107083123 1.046097018 0 0.51781142 0 0 0.061424912 0 0.000542798 3.265362139 -0.060986106 SDATNYASHS(ph)PPVNR ddPTM_HeLa_SAHA_4h_R1 2 SDATNYASHSPPVNR 15 0 Q96FJ0;Q96FJ0-2 Q96FJ0 STAMBPL1 AMSH-like protease 1 0 SDATNYAS(0.023)HS(0.977)PPVNR;SDATNYASHS(1)PPVNR ; 187 1.54E-25 4138700 808.13 1347.3 969.88 1257.81 999.27 1109.58 816.28 790.96 1796.58 1031.55 TRUE FALSE FALSE 893.1328212 1390.953404 1102.050195 1282.156731 922.7061485 1015.037542 724.4300261 770.7283885 1784.077454 1076.025169 0.830029675 1.292677387 1.024186262 1.191567603 0.857513537 0.943321375 0.673246358 0.716273569 1.658025765 1 10.07149611 -4.795516249 5.461381825 0.969278207 0.693091356 0.159730649 0.257991687 0.14153158 10.79817198 0.021211854 0.069443424 1.60E-05 4.795516249 -0.276186852 SDDY(ph)MPMSPASVSAPK ddPTM_HeLa_SAHA_4h_R1 2 SDDYMPMSPASVSAPK 16 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 S(0.015)DDY(0.983)MPMS(0.002)PASVSAPK;S(0.002)DDY(0.997)MPMSPASVSAPK ; 129.71 0.00043237 8618500 2370.98 2907.9 3044.47 2933.58 3619 3795.8 3393.3 3385.4 2963.21 2870.63 TRUE FALSE FALSE 2620.370555 3002.117868 3459.354517 2990.363683 3341.713002 3472.376485 3011.476953 3298.80637 2942.58878 2994.396908 0.875091257 1.002578469 1.155275878 0.998653076 1.115988663 1.159624656 1.005704002 1.10165969 0.98269831 1 11.54804975 -6.982785204 7.712209599 0.940854678 1.085605572 0.523519981 0.059194306 0.097306818 29.45022016 0.010561956 0.013760108 1.04E-07 6.982785204 0.144750893 SDDYMPMS(ph)PASVSAPK ddPTM_HeLa_SAHA_4h_R1 2 SDDYMPMSPASVSAPK 16 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 SDDYMPMS(0.955)PAS(0.045)VSAPK;SDDYMPMS(0.999)PAS(0.001)VSAPK ; 138.05 0.00011635 13860500 8819.5 9808.7 9695.4 9097.5 10360.3 13146.9 12783.6 10864.8 9712.4 10579.3 TRUE FALSE FALSE 9747.175475 10126.50832 11016.63862 9273.595268 9566.496052 12026.71016 11345.15568 10586.89415 9644.810618 11035.4254 0.883262323 0.917636426 0.998297594 0.840347783 0.866889649 1.089827508 1.02806691 0.959355328 0.873986301 1 13.42985462 -5.260530221 24.99996769 0.933163808 1.025981612 0.398168073 0.060389996 80.04055453 2200900.197 0.009448534 0.022663501 5.49E-06 5.260530221 0.092817804 SDEEDEDS(ph)DFGEEQR ddPTM_HeLa_SAHA_4h_R1 1 SDEEDEDSDFGEEQR 15 0 Q5VW52;Q9HCL2 Q5VW52 GPAM "Glycerol-3-phosphate acyltransferase 1, mitochondrial" 1 0 S(0.473)DEEDEDS(0.527)DFGEEQR 159.88 7.46E-06 2875400 427.51 473.49 446.65 424.28 479.07 548.26 585.88 491.04 560.01 613.9 TRUE FALSE FALSE 472.4774633 488.8313867 507.5171359 432.4925529 442.3637601 501.5451636 519.9552404 478.4799078 556.1128448 640.3682334 0.73782152 0.763359831 0.792539526 0.675381024 0.690795916 0.783213685 0.811962888 0.747194946 0.868426658 1 9.322757932 -9.217071254 0.694530837 1.022786559 0.747445419 0.59391847 0.056619256 0.276624272 0.21022442 0.045169112 0.009318382 6.07E-10 9.217071254 -0.27534114 SDEEDEDS(ph)DFGEEQRDCYLK ddPTM_HeLa_SAHA_4h_R1 2 SDEEDEDSDFGEEQRDCYLK 20 1 Q5VW52;Q9HCL2 Q5VW52 GPAM "Glycerol-3-phosphate acyltransferase 1, mitochondrial" 1 0 S(0.001)DEEDEDS(0.999)DFGEEQRDCYLK;S(0.002)DEEDEDS(0.998)DFGEEQRDCYLK ; 87.326 0.0010452 11832200 2798.6 2503.6 2623.1 2709.4 2973.4 2785.8 2867.8 3208.3 1779.65 2717.8 TRUE FALSE FALSE 3092.969588 2584.718283 2980.562407 2761.844355 2745.578734 2548.434168 2545.107596 3126.236332 1767.265271 2834.977659 1.091003162 0.911724392 1.05135305 0.974203217 0.968465739 0.898925662 0.897752259 1.102737555 0.623378906 1 11.46912165 -6.71968479 1.165461312 1.03950832 0.961644928 0 0.148526582 0.576414582 1.568227523 0.013143463 0.020393432 1.91E-07 6.71968479 -0.077863392 SDEGQLS(ph)PATR ddPTM_HeLa_SAHA_4h_R1 2 SDEGQLSPATR 11 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;E9PMV1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 SDEGQLS(0.983)PAT(0.017)R;SDEGQLS(0.998)PAT(0.002)R ; 129.54 0.0013866 222950000 4194.4 4257.3 3195.6 4122.1 4410.6 4915.6 4247.6 3872.4 5075.5 4136.9 TRUE FALSE FALSE 4635.586237 4395.239313 3631.079726 4201.889206 4072.660781 4496.763226 3769.648869 3773.349615 5040.179182 4315.262004 1.074230541 1.018533593 0.841450582 0.973727482 0.94378065 1.042060302 0.873561991 0.874419586 1.167989146 1 12.07523244 -6.969595987 23.33758041 1.035649565 0.930838064 0.471824075 0.070074433 70.65718654 54234.72041 0.009515509 0.012505695 1.07E-07 6.969595987 -0.104811501 SDGAPAEGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 SDGAPAEGKR 10 1 F8WES8;C9JXU6;F5GZF3;C9JCL9;C9JXG5;F8WCP5;Q13769 F8WES8 THOC5 THO complex subunit 5 homolog 0 1 ; SDGAPAEGK(1)R;SDGAPAEGK(1)R 123.35 0.0011828 10980300 1842.49 1916.42 1939.28 2092.12 2077.4 2641.67 2556.63 2429.5 1788.39 1580.01 FALSE TRUE FALSE 2036.291552 1978.513265 2203.554979 2132.616008 1918.230061 2416.584854 2268.951264 2367.356908 1775.944448 1648.131963 1.235514872 1.200458039 1.337001543 1.293959498 1.163881354 1.466256894 1.376680578 1.436387959 1.07754991 1 10.68661605 -11.87480564 0.067764787 5.64E-16 1.826637041 0.753635582 0.071689305 51.80539154 0.385261834 10.07428694 2.549859488 1.33E-12 11.87480564 1.826637041 SDGAPASDSKPGS(ph)SEAAPSSK ddPTM_HeLa_SAHA_4h_R1 4 SDGAPASDSKPGSSEAAPSSK 21 1 P80723;P80723-2 P80723 BASP1 Brain acid soluble protein 1 1 0 SDGAPAS(0.004)DS(0.167)KPGS(0.435)S(0.392)EAAPS(0.002)SK;SDGAPASDS(0.014)KPGS(0.532)S(0.453)EAAPS(0.002)SK;SDGAPASDSKPGS(0.828)S(0.171)EAAPSSK;SDGAPASDS(0.001)KPGS(0.947)S(0.052)EAAPSSK ;;; 144.58 4.41E-06 68693800 6948.17 8313.5 7030.65 6388.99 7585.81 7723.91 9189.3 8366 7196.69 7330.29 TRUE FALSE FALSE 7679.0104 8582.862855 7988.750368 6512.65814 7004.586877 7065.789414 8155.295779 8152.009834 7146.607648 7646.334675 1.004273384 1.122480668 1.044781677 0.851735951 0.916071186 0.924075353 1.066562755 1.066133014 0.934644892 1 12.90055263 SDGAPASDSKPGSSEAAPSSK ddPTM_HeLa_SAHA_4h_R1 2 SDGAPASDSKPGSSEAAPSSK 21 1 P80723;P80723-2 P80723 BASP1 Brain acid soluble protein 1 0 0 ; ; 163.11 2.69E-12 6568700 1126.53 2027.2 1757.14 1755.7 1505.16 1859.4 2008.38 2384.53 1668.39 1340.46 FALSE FALSE TRUE 1245.023594 2092.88261 1996.593888 1789.684112 1389.834966 1700.968659 1782.391797 2323.537175 1656.779538 1398.253791 0.890413173 1.496783076 1.427919525 1.279942257 0.993979044 1.216494939 1.274726955 1.661742089 1.184891862 1 10.44941053 -7.273357861 24.9753972 0.948250657 1.317224092 0.347552537 0.185213255 453.2441216 949779.4996 0.03003321 0.034485875 5.33E-08 7.273357861 0.368973435 SDGIYIINLK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 SDGIYIINLKR 11 1 C9J9K3;A0A0C4DG17;P08865;F8WD59 C9J9K3 RPSA 40S ribosomal protein SA 0 1 SDGIYIINLK(1)R 82.261 0.0073705 0 0 0 0 0 0 73.294 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 67.04893886 0 0 0 0 0 SDGS(ph)LEDGDDVHR ddPTM_HeLa_SAHA_4h_R1 2 SDGSLEDGDDVHR 13 0 Q9NRX5 Q9NRX5 SERINC1 Serine incorporator 1 1 0 S(0.001)DGS(0.999)LEDGDDVHR;S(0.211)DGS(0.789)LEDGDDVHR ; 132.06 0.00066743 9882500 1194.61 1714.71 1129.22 1275.34 1886.63 1524.38 1903.22 1626.22 1263.95 1746.27 TRUE FALSE FALSE 1320.264561 1770.267729 1283.104221 1300.02605 1742.076817 1394.494248 1689.064677 1584.623647 1255.154069 1821.560246 0.724798734 0.971841438 0.704398454 0.713688198 0.956365194 0.765549342 0.927262593 0.869926565 0.689054382 1 10.830959 -9.546658482 1.299726248 1.000439539 0.818137455 0 0.135657243 0.421590714 1.270779249 0.067867768 0.015928392 2.84E-10 9.546658482 -0.182302084 SDGSDTTEQESTNLPS(ph)PNK ddPTM_HeLa_SAHA_4h_R1 1 SDGSDTTEQESTNLPSPNK 19 0 Q68DQ2 Q68DQ2 CRYBG3 Very large A-kinase anchor protein 1 0 SDGSDTTEQESTNLPS(1)PNK 284.72 2.16E-77 4489200 2125.3 1938.3 1988.6 1725.5 2230.9 2258.2 2232.7 2248 2099.1 2155 TRUE FALSE FALSE 2348.848805 2001.102192 2259.596052 1758.899548 2059.968924 2065.788656 1981.47072 2190.499415 2084.492192 2247.912596 1.044902195 0.890204626 1.005197469 0.782459047 0.916391913 0.918980862 0.881471425 0.974459336 0.927301264 1 11.13437023 -7.259670805 24.99853784 1.021203815 0.908153642 0.211741634 0.06376613 97.26440644 1374821.672 0.00904979 0.010772319 5.50E-08 7.259670805 -0.113050173 SDIAPVARFTT(ph)CY(ph)QK ddPTM_HeLa_SAHA_4h_R1 1 SDIAPVARFTTCYQK 15 1 H0YFH1 H0YFH1 A2M 2 0 S(0.002)DIAPVARFT(0.039)T(0.969)CY(0.991)QK 51.546 0.019256 46848000 1305.5 1289.7 1301.3 1306.7 1522.9 1761.8 1383.8 1371 1444.2 1346.3 TRUE FALSE FALSE 1442.81848 1331.487126 1478.634387 1331.993068 1406.215731 1611.684728 1228.091182 1335.931805 1434.149695 1404.345582 1.027395606 0.948119283 1.052899234 0.948479552 1.001331687 1.147641114 0.874493571 0.95128423 1.021222777 1 10.45568228 -4.695652728 24.99999853 1.013205809 0.912888538 0.357595866 0.056217387 45.38426913 17245.62904 0.007028213 0.026297161 2.02E-05 4.695652728 -0.10031727 SDIDEIVLVGGSTR ddPTM_HeLa_SAHA_4h_R1 2 SDIDEIVLVGGSTR 14 0 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 ; ; 152.38 0.00034757 13450000 2891.76 2900.5 2482.3 2776.11 3274.8 3330.8 3000.4 2971.7 3612.5 2619.41 FALSE FALSE TRUE 3195.928585 2994.478103 2820.574917 2829.845623 3023.885531 3046.997101 2662.787095 2895.688217 3587.360318 2732.345584 1.169664849 1.09593681 1.032290693 1.035683641 1.106699515 1.115158024 0.974542573 1.059781103 1.31292335 1 11.41592425 -6.774265665 24.7237509 1.083544442 1.054752288 0.055749506 0.089910537 646.232526 1245664.373 0.011819557 0.015592427 1.68E-07 6.774265665 -0.028792154 SDIGEVILVGGMTR ddPTM_HeLa_SAHA_4h_R1 1 SDIGEVILVGGMTR 14 0 P38646;H0YBG6 P38646 HSPA9 "Stress-70 protein, mitochondrial" 0 0 134.98 0.0007568 574360 0 133.88 0 0 197.57 0 0 152.52 0 131.84 FALSE FALSE TRUE 0 138.2177998 0 0 182.4322293 0 0 148.6187592 0 137.5242676 0 1.005042981 0 0 1.326545725 0 0 1.080672974 0 1 7.10354241 -9.580587935 1.358618676 1.000726253 0.362910776 0 0.587788648 0.583370831 1.92725515 0.339907613 0.078915865 2.63E-10 9.580587935 -0.637815477 SDIS(ph)PLTPR ddPTM_HeLa_SAHA_4h_R1 2 SDISPLTPR 9 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 S(0.004)DIS(0.996)PLTPR;S(0.004)DIS(0.996)PLTPR ; 120.63 0.0035463 87675000 5221.5 4481.8 4245.5 4444.3 5379.8 5441.2 4665.6 4982.5 5133.7 4277.1 TRUE FALSE FALSE 5770.721327 4627.013261 4824.05463 4530.325853 4967.600886 4977.579149 4140.614409 4855.054865 5097.974164 4461.506713 1.293446743 1.037096559 1.081261318 1.01542509 1.113435708 1.115672231 0.928075351 1.088209696 1.142657513 1 12.1233153 SDISPLT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 SDISPLTPR 9 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 SDISPLT(1)PR;SDISPLT(1)PR ; 121.5 0.0059631 337380000 3586.6 3700.1 3344 3204.1 3711.7 4325.3 4238.6 3130 3289.5 3671.9 TRUE FALSE FALSE 3963.855044 3819.985668 3799.702905 3266.119989 3427.310348 3956.760107 3761.661573 3049.939132 3266.608102 3830.213579 1.034891387 0.997329676 0.992034211 0.852725291 0.8948092 1.033039026 0.982102302 0.796284351 0.852852729 1 11.90320913 -6.460636301 7.613756417 1.014566243 0.921321172 0.037562954 0.080184732 0.256711287 28.21794312 0.009495312 0.01448417 3.46E-07 6.460636301 -0.093245071 SDK(ac)PDMAEIEK(ac)FDK ddPTM_HeLa_SAHA_4h_R1 3 SDKPDMAEIEKFDK 14 2 P62328 P62328 TMSB4X Thymosin beta-4;Hematopoietic system regulatory peptide 0 2 ;; SDK(1)PDMAEIEK(1)FDK;SDK(1)PDMAEIEK(1)FDK;SDK(1)PDMAEIEK(1)FDK 205.62 6.50E-31 10540500 1687.81 4393.4 2390.11 2081.74 3957.33 3855.31 4020.2 3500.52 3493.55 1496.19 FALSE TRUE FALSE 1865.3416 4535.749043 2715.821744 2122.035088 3654.12023 3526.815899 3567.836515 3410.981767 3469.238101 1560.698073 1.195196965 2.906230949 1.740132695 1.359670473 2.341337055 2.259768215 2.286051721 2.185548778 2.222875879 1 10.60797575 -7.408894754 8.057149828 1.085732758 2.123308227 0.162143037 0.523519381 0.1386134 8.952468128 0.065190929 0.074360145 3.90E-08 7.408894754 1.037575469 SDK(ac)PDMAEIEKFDK(ac)SK ddPTM_HeLa_SAHA_4h_R1 2 SDKPDMAEIEKFDKSK 16 3 P62328 P62328 TMSB4X Thymosin beta-4;Hematopoietic system regulatory peptide 0 2 ; SDK(1)PDMAEIEKFDK(1)SK;SDK(1)PDMAEIEK(0.005)FDK(0.995)SK 168.69 8.76E-12 61445900 6206.5 6853.8 7374.1 8099.2 8697.5 8765 8470.1 9906.6 4352.4 4364.3 FALSE TRUE FALSE 6859.328146 7075.867617 8379.003945 8255.971728 8031.099429 8018.172689 7517.022056 9653.203517 4322.111294 4552.466331 1.506727924 1.554293234 1.840541661 1.813516263 1.764120555 1.761281052 1.651197726 2.120433808 0.949399947 1 12.15243263 -8.367902199 0.32265381 0.834517134 1.908377655 0.881781863 0.12028059 0.459555378 0.107765695 0.193666607 0.077366567 4.29E-09 8.367902199 1.073860521 SDKNQQGFS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 SDKNQQGFSPK 11 1 D6RCT7;C9JKA9;Q9NS87-4;Q9NS87-2;Q9NS87 D6RCT7 KIF15 Kinesin-like protein;Kinesin-like protein KIF15 1 0 SDKNQQGFS(1)PK;SDKNQQGFS(1)PK;SDKNQQGFS(1)PK;SDKNQQGFS(1)PK ;;; 99.161 0.0052392 215623000 22867.6 20617.6 22043.1 22631.7 23453.1 23871.5 25488.7 24124.4 22179.4 22107.3 TRUE FALSE FALSE 25272.91909 21285.62377 25047.01887 23069.76928 21656.12854 21837.5139 22620.64439 23507.33278 22025.05175 23060.45389 1.095941962 0.923035768 1.086145962 1.000403955 0.939102441 0.946968087 0.980927977 1.019378582 0.955100531 1 14.49313329 -6.004272723 23.8792111 1.038349701 0.970408345 0.006558862 0.055980381 109.9738412 614629.7432 0.008017793 0.014273259 9.90E-07 6.004272723 -0.067941356 SDKQYAENYTRPS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 SDKQYAENYTRPSSR 15 2 C9JSU1;Q9Y608-4;Q9Y608;Q9Y608-2;Q9Y608-5 C9JSU1 LRRFIP2 Leucine-rich repeat flightless-interacting protein 2 1 0 SDKQYAENYT(0.001)RPS(0.5)S(0.5)R 75.462 0.013871 34271000 2210.4 1877.2 2141 2211.9 2709.3 1935.2 2497.7 2134.8 1758.9 1942.9 TRUE FALSE FALSE 2442.900014 1938.022512 2432.76433 2254.714523 2501.714019 1770.310073 2216.652222 2080.194907 1746.659672 2026.667927 1.205377546 0.956260513 1.20037639 1.112522921 1.234397597 0.873507716 1.093742193 1.026411322 0.861838118 1 10.98489401 -5.263176101 24.99986873 1.105319766 1.007472596 0.063566706 0.124137924 224.9191508 3237702.753 0.015201637 0.035765249 5.46E-06 5.263176101 -0.097847169 SDKS(ph)PDLAPTPAPQSTPR ddPTM_HeLa_SAHA_4h_R1 5 SDKSPDLAPTPAPQSTPR 18 1 F8WAE5;Q9BY44-2;Q9BY44-4;Q9BY44-3;Q9BY44 F8WAE5 EIF2A "Eukaryotic translation initiation factor 2A;Eukaryotic translation initiation factor 2A, N-terminally processed" 1 0 S(0.194)DKS(0.806)PDLAPTPAPQSTPR;S(0.288)DKS(0.712)PDLAPTPAPQSTPR;S(0.009)DKS(0.978)PDLAPT(0.013)PAPQSTPR;S(0.012)DKS(0.988)PDLAPTPAPQSTPR;S(0.006)DKS(0.994)PDLAPTPAPQSTPR ;;;; 241.98 8.10E-37 447088000 11615.3 10520.1 10507.82 10687.1 12077 12809.2 12357.5 12366.3 11476.7 11119.9 TRUE FALSE FALSE 12837.05055 10860.95814 11939.77099 10893.96427 11151.66287 11717.7841 10967.00158 12049.98795 11396.83271 11599.33331 1.106705895 0.93634331 1.029349763 0.93918883 0.961405503 1.010211862 0.945485511 1.038851771 0.982542049 1 13.50175427 -7.254931638 24.99858685 1.050388895 0.979544274 0.148965917 0.047155286 475.2739835 1825698.666 0.008236396 0.009970066 5.56E-08 7.254931638 -0.07084462 SDKSPDLAPT(ph)PAPQSTPR ddPTM_HeLa_SAHA_4h_R1 1 SDKSPDLAPTPAPQSTPR 18 1 F8WAE5;Q9BY44-2;Q9BY44-4;Q9BY44-3;Q9BY44 F8WAE5 EIF2A "Eukaryotic translation initiation factor 2A;Eukaryotic translation initiation factor 2A, N-terminally processed" 1 0 S(0.112)DKS(0.002)PDLAPT(0.886)PAPQS(0.001)TPR 145.82 0.0063773 284500000 2978.7 2669.6 2460.6 2731.5 2991.2 2838.5 2984.1 2848.2 2734.3 2869.9 TRUE FALSE FALSE 3292.013333 2756.096792 2795.917754 2784.372132 2762.014902 2596.643831 2648.321214 2775.347168 2715.271784 2993.635434 1.099670753 0.920652114 0.933953989 0.930097266 0.922629012 0.867388127 0.884650544 0.927082549 0.907014847 1 11.54768282 -7.206842117 8.263013112 1.047029421 0.911234513 0.277048127 0.053432747 0.14082078 19.9630737 0.006996967 0.00856558 6.21E-08 7.206842117 -0.135794908 SDKTEEIAEEEETVFPK ddPTM_HeLa_SAHA_4h_R1 2 SDKTEEIAEEEETVFPK 17 1 Q9NR30 Q9NR30 DDX21 Nucleolar RNA helicase 2 0 0 ; ; 156.67 2.07E-05 6162900 3549.9 3203 3407.4 3419.3 3469.3 4088.4 3595.4 4129.3 3794.6 2993.5 FALSE FALSE TRUE 3923.29477 3306.779302 3871.742727 3485.485496 3203.482984 3740.045319 3190.836129 4023.678485 3768.19307 3122.564435 1.256433567 1.058994737 1.239924046 1.116225323 1.025914133 1.197748004 1.021863983 1.288581411 1.20676231 1 11.60851563 -9.605301883 1.415562524 1.000259284 1.158636434 0 0.110588746 0.419031099 1.510893344 0.062339492 0.014478986 2.48E-10 9.605301883 0.158377149 SDLDYIRS(ph)PLPFQNR ddPTM_HeLa_SAHA_4h_R1 1 SDLDYIRSPLPFQNR 15 1 H7BYL6;A0A0A0MRF6;Q99996-5;Q99996-3;Q99996;Q99996-1;Q99996-6 H7BYL6 AKAP9 A-kinase anchor protein 9 1 0 SDLDY(0.001)IRS(0.999)PLPFQNR 65.298 0.020213 7312700 1878.4 2220.8 1640.7 1803.7 2747.4 2894.6 2287.6 2174.6 2574.9 2091.2 TRUE FALSE FALSE 2075.97873 2292.755377 1864.286052 1838.613222 2536.894806 2647.963795 2030.193227 2118.976881 2556.981061 2181.361866 0.951689292 1.051066039 0.854643184 0.842874009 1.162986685 1.213903954 0.93069988 0.9714009 1.172194811 1 11.0910134 -5.751868531 24.99861433 0.964205542 1.07011269 0.119232645 0.117238621 253.8545062 663051.3133 0.014626116 0.028954584 1.77E-06 5.751868531 0.105907148 SDLNGLPS(ph)PVEER ddPTM_HeLa_SAHA_4h_R1 2 SDLNGLPSPVEER 13 0 E7EWN3;Q9C0A6 E7EWN3 SETD5 SET domain-containing protein 5 1 0 S(0.006)DLNGLPS(0.994)PVEER;SDLNGLPS(1)PVEER ; 139.34 0.00041631 16465400 2299.74 2430.23 1836.21 2223.7 2171.3 2227.26 2463.3 2631.5 2549.72 2179.48 TRUE FALSE FALSE 2541.637205 2508.971047 2086.439136 2266.742929 2004.935463 2037.484918 2186.123001 2564.19004 2531.976291 2273.448049 1.117965817 1.103597264 0.917742166 0.997050683 0.881891919 0.896209139 0.961589161 1.127885918 1.113716362 1 11.15066632 -6.760717845 24.99998852 1.060854413 0.958356719 0.378027919 0.072933448 19.08281568 661171.9133 0.012498295 0.017081649 1.73E-07 6.760717845 -0.102497695 SDLPGSDKDTEESGLHLS(ph)PTAAEAK ddPTM_HeLa_SAHA_4h_R1 2 SDLPGSDKDTEESGLHLSPTAAEAK 25 1 Q15599-2 Q15599-2 SLC9A3R2 Na(+)/H(+) exchange regulatory cofactor NHE-RF2 1 0 SDLPGS(0.001)DKDT(0.018)EES(0.087)GLHLS(0.777)PT(0.117)AAEAK;SDLPGS(0.001)DKDT(0.001)EES(0.004)GLHLS(0.799)PT(0.195)AAEAK ; 59.539 0.0030089 18526000 3195.55 3764.6 3233.79 4245.6 5463.9 5722.5 5051.8 5287.8 4594 4229.7 TRUE FALSE FALSE 3531.672611 3886.57551 3674.47406 4327.779727 5045.257162 5234.910806 4483.358168 5152.545733 4562.02998 4412.063067 0.800458325 0.880897542 0.832824464 0.980897068 1.143514289 1.186499542 1.01615913 1.167831387 1.033990202 1 12.1072377 -5.919681165 3.844892426 0.896286409 1.12401888 0.631676889 0.07844979 0.117454542 3.410353929 0.012994953 0.024241581 1.20E-06 5.919681165 0.22773247 SDLYSSGR ddPTM_HeLa_SAHA_4h_R1 1 SDLYSSGR 8 0 P38159;P38159-2;H3BUY5 P38159 RBMX "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed" 0 0 122.18 0.019427 8548200 1172 911.82 781.06 1202 1133.2 1017.8 944.29 957.02 1112.4 871.79 FALSE FALSE TRUE 1295.276337 941.3635663 887.4987892 1225.266448 1046.374461 931.077714 838.036004 932.5408141 1104.658718 909.3771333 1.424355517 1.035174002 0.975941396 1.347368878 1.150649629 1.023863126 0.921549458 1.025472029 1.214742132 1 9.828734917 -5.223210056 3.461953886 1.183876765 0.975028157 0.246971825 0.13816361 0.305387788 7.581560503 0.026060826 0.070051265 5.98E-06 5.223210056 -0.208848608 SDMVRT(ph)S(ph)LRLLTS(ph)SAYRLQS(ph)ECK ddPTM_HeLa_SAHA_4h_R1 1 SDMVRTSLRLLTSSAYRLQSECK 23 3 R4GNG3;F8WAK2;F8VXI9;Q14161-11;Q14161-7;Q14161-9;Q14161-6;Q14161-10;Q14161-8;Q14161-4;Q14161-5;Q14161-3;Q14161 R4GNG3 GIT2 ARF GTPase-activating protein GIT2 4 0 S(0.127)DMVRT(0.823)S(0.791)LRLLT(0.259)S(0.625)S(0.328)AY(0.165)RLQS(0.883)ECK 40.689 0.0086649 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 SDPIMLLK(ac)DR ddPTM_HeLa_SAHA_4h_R1 2 SDPIMLLKDR 10 1 P08559-3;P08559;P08559-2;P08559-4;Q5JPU3 P08559-3 PDHA1 "Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial" 0 1 ; SDPIMLLK(1)DR;SDPIMLLK(1)DR 103.26 0.0082761 2991000 689.67 1081.59 725.43 649.48 939.07 671.96 985.29 658.41 693.76 680.11 FALSE TRUE FALSE 762.2126549 1116.634226 824.2878225 662.0516246 867.1186595 614.7052277 874.4225761 641.5688256 688.9320677 709.4328705 1.074397151 1.573981517 1.161896857 0.933212503 1.222270204 0.866474128 1.232565634 0.904340428 0.971102547 1 9.470522367 -4.214120738 21.35541895 1.084469758 0.904335644 0.077182306 0.194172 11692.14329 5275945.226 0.026095238 15.30667069 6.11E-05 4.214120738 -0.180134114 SDPRGPS(ph)PAPAS(ph)SPKR ddPTM_HeLa_SAHA_4h_R1 1 SDPRGPSPAPASSPKR 16 2 Q9H7N4 Q9H7N4 SCAF1 "Splicing factor, arginine/serine-rich 19" 2 0 SDPRGPS(0.999)PAPAS(0.547)S(0.453)PKR 67.579 0.02156 1985400 1606.2 1070.7 1191.3 1101.4 1306.2 1341.9 1438.7 1576.7 970.8 1409.6 TRUE FALSE FALSE 1775.147486 1105.391383 1353.64416 1122.71919 1206.119238 1227.562571 1276.81369 1536.370297 964.0441238 1470.374754 1.207275547 0.751775273 0.920611671 0.763559893 0.82028016 0.834863743 0.868359366 1.044883485 0.655645182 1 10.52196819 -7.260506498 24.99946622 1.09788012 0.854641369 0 0.166823587 47.68179422 1277786.187 0.017790378 0.021125635 5.49E-08 7.260506498 -0.243238751 SDPRGPS(ph)PAPASS(ph)PKR ddPTM_HeLa_SAHA_4h_R1 1 SDPRGPSPAPASSPKR 16 2 Q9H7N4 Q9H7N4 SCAF1 "Splicing factor, arginine/serine-rich 19" 2 0 S(0.019)DPRGPS(0.981)PAPAS(0.218)S(0.782)PKR 89.659 0.0055359 4650400 2189.6 1566.6 1834.8 1899.8 2039.1 1874.4 2010.2 2020.7 1315 2106.8 TRUE FALSE FALSE 2419.912174 1617.358868 2084.836989 1936.573376 1882.864599 1714.690575 1784.007005 1969.01342 1305.848808 2197.634458 1.10114408 0.735954454 0.948673234 0.881208141 0.856768782 0.780243761 0.811785144 0.895969488 0.594206558 1 11.10173572 -7.271600432 24.99956523 1.047762485 0.846557233 0 0.155838893 291.1087551 716222.9684 0.011137585 0.012811633 5.35E-08 7.271600432 -0.201205252 SDQDYILK ddPTM_HeLa_SAHA_4h_R1 1 SDQDYILK 8 0 Q9UQ80;Q9UQ80-2;F8VR77;F8VZ69;H0YIN7;F8W0A3 Q9UQ80 PA2G4 Proliferation-associated protein 2G4 0 0 130.96 0.011043 7756800 1994.5 1706.5 1679.4 1880 2077.9 2043.5 2248.1 1898.9 2254.1 1788.2 FALSE FALSE TRUE 2204.290661 1761.79172 1908.259886 1916.390119 1918.691751 1869.382304 1995.137871 1850.328888 2238.413535 1865.298053 1.181736429 0.944509494 1.023032154 1.027390832 1.028624754 1.002189597 1.069608081 0.99197492 1.200029953 1 10.86519046 -7.248697952 24.987779 1.085819983 1.015878271 0.367003636 0.062204738 1012.424813 1985513.774 0.01192336 0.014546263 5.64E-08 7.248697952 -0.069941713 SDS(ph)APPTPVNR ddPTM_HeLa_SAHA_4h_R1 1 SDSAPPTPVNR 11 0 A2A2F0;Q86X10-4;Q86X10-2;Q86X10-3;Q86X10 A2A2F0 RALGAPB Ral GTPase-activating protein subunit beta 1 0 S(0.001)DS(0.999)APPTPVNR 156.01 0.00029712 8296700 2466.5 2707.1 1792.8 2284.3 2503.8 2615.7 2519.2 2637.8 2188.9 2621.1 TRUE FALSE FALSE 2725.937787 2794.811816 2037.113447 2328.51593 2311.959385 2392.827644 2235.732986 2570.328895 2173.667267 2734.108448 0.997011581 1.022202253 0.74507412 0.851654561 0.845599006 0.875176567 0.817719205 0.940097638 0.795018672 1 11.41685475 -6.781180773 24.99999904 1.000320399 0.846186928 0.231396302 0.079600736 83.92636822 106281.8932 0.006843084 0.009000324 1.66E-07 6.781180773 -0.15413347 SDS(ph)ASSEPVGIYQGFEK ddPTM_HeLa_SAHA_4h_R1 1 SDSASSEPVGIYQGFEK 17 0 Q05655;Q05655-2 Q05655 PRKCD Protein kinase C delta type;Protein kinase C delta type regulatory subunit;Protein kinase C delta type catalytic subunit 1 0 S(0.353)DS(0.427)AS(0.092)S(0.092)EPVGIY(0.036)QGFEK 87.287 0.0045221 0 291.57 249 225.93 253.83 384.88 362.66 311.56 188.54 203.96 265.67 TRUE FALSE FALSE 322.2386704 257.0677634 256.7185638 258.7432467 355.3905775 331.7593277 276.5024488 183.7174198 202.5406258 277.1243339 1.162794569 0.927626094 0.926366011 0.933672056 1.282422848 1.197149753 0.997755935 0.662942215 0.730865539 1 8.114389587 -4.288162772 3.778768599 1.068607063 0.631707266 0.274555739 0.157755421 0.154167466 4.16719844 0.017494365 0.178241059 5.15E-05 4.288162772 -0.436899797 SDS(ph)DSSTLPR ddPTM_HeLa_SAHA_4h_R1 1 SDSDSSTLPR 10 0 Q9ULE0 Q9ULE0 WWC3 Protein WWC3 1 0 S(0.173)DS(0.827)DSSTLPR 132.03 0.0015007 24413000 1074.2 1304 1075.8 1093.1 1342.9 1470.6 1429.2 1285.5 1343.6 1132.7 TRUE FALSE FALSE 1187.189285 1346.250456 1222.404421 1114.258531 1240.007292 1345.296607 1268.382655 1252.618771 1334.249778 1181.53624 1.004784487 1.139406824 1.03458902 0.943059123 1.049487311 1.138599529 1.073502963 1.060161109 1.129249982 1 10.20644817 -5.664257998 0.2522178 0.989584717 1.119491093 0 0.068213706 5.748536399 0.562992453 0.052413536 0.235403177 2.17E-06 5.664257998 0.129906375 SDS(ph)DTEGLLFSR ddPTM_HeLa_SAHA_4h_R1 2 SDSDTEGLLFSR 12 0 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 S(0.037)DS(0.946)DT(0.017)EGLLFSR;S(0.021)DS(0.829)DT(0.15)EGLLFSR ; 152 0.00032359 5127400 923.42 1349.57 868.41 898.3 992.74 878.23 942.68 904.32 1512.5 1028.3 TRUE FALSE FALSE 1020.549552 1393.296953 986.7523923 915.6878955 916.6764757 803.3998632 836.6071654 881.1888038 1501.974389 1072.635045 0.951441552 1.29894782 0.919933016 0.853680755 0.854602392 0.748996471 0.779955092 0.82151782 1.400266005 1 10.06694358 -6.280102224 3.059282575 1.003699171 0.804086124 0.401169183 0.16054942 0.181417235 3.45350232 0.016031136 0.026391926 5.25E-07 6.280102224 -0.199613047 SDS(ph)DYDLSPK ddPTM_HeLa_SAHA_4h_R1 2 SDSDYDLSPK 10 0 Q08499-6;Q08499;A0A1B0GW84;Q08499-9;Q08499-2;Q08499-10;A0A087WSZ7;Q08499-12;Q08499-7;Q08499-11;A0A1W2PQN6;E9PMG3;Q07343-3;Q07343 Q08499-6 PDE4D;PDE4B "cAMP-specific 3,5-cyclic phosphodiesterase 4D;cAMP-specific 3,5-cyclic phosphodiesterase 4B" 1 0 S(0.115)DS(0.885)DYDLSPK;S(0.023)DS(0.976)DYDLS(0.001)PK ; 187.31 1.16E-06 19990200 3451.3 3929.8 2669.9 3296.7 3230.3 3764.5 3276.5 3395.3 3127.8 3356.5 TRUE FALSE FALSE 3814.323569 4057.128098 3033.740068 3360.512396 2982.795112 3443.743422 2907.819597 3308.453142 3106.033385 3501.215141 1.089428503 1.158777149 0.866482048 0.959813168 0.851931399 0.983585208 0.830517257 0.944944258 0.887130113 1 11.77364 -6.74423984 24.99999036 1.052151121 0.906257578 0.373469323 0.07957693 134.0719929 194876.7734 0.009833221 0.013886184 1.80E-07 6.74423984 -0.145893543 SDS(ph)EDICLFTK ddPTM_HeLa_SAHA_4h_R1 1 SDSEDICLFTK 11 0 O76021;J3QSV6;I3L3U9;I3L234;I3L3C4 O76021 RSL1D1 Ribosomal L1 domain-containing protein 1 1 0 S(0.012)DS(0.988)EDICLFTK 89.663 0.015431 1884300 400.83 542.72 428.61 502.59 575.56 642.57 647.17 723.02 535.56 667.45 TRUE FALSE FALSE 442.9911385 560.3044841 487.0187387 512.3183562 531.4607171 587.819421 574.3487283 704.5261953 531.8329944 696.2270359 0.636273968 0.804772661 0.699511386 0.735849557 0.763343981 0.844292724 0.824944592 1.011920191 0.763878687 1 9.443414028 -4.026214096 1.824020729 0.803147872 1.201011275 0.33499701 0.093145197 2.697249111 5.311156164 0.019880861 2.245905803 9.41E-05 4.026214096 0.397863403 SDS(ph)FENPVLQQHFR ddPTM_HeLa_SAHA_4h_R1 2 SDSFENPVLQQHFR 14 0 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 1 0 S(0.154)DS(0.846)FENPVLQQHFR;S(0.144)DS(0.856)FENPVLQQHFR ; 236.75 3.48E-25 35471000 3674.3 4470.4 2812.1 3905.6 5565.2 4725.7 9148.6 5670.1 8790.6 5019.8 TRUE FALSE FALSE 4060.779732 4615.243893 3195.318343 3981.198536 5138.795578 4323.043774 8119.17545 5525.067052 8729.425499 5236.228144 0.775516196 0.881406189 0.610232835 0.760318005 0.981392605 0.825602639 1.5505771 1.055161635 1.667120923 1 12.35431224 -4.779490997 24.9920683 0.863740996 1.302869381 0.160811315 0.297499423 113.1687829 156680.1898 0.0221367 0.066600684 1.66E-05 4.779490997 0.439128385 SDS(ph)FPER ddPTM_HeLa_SAHA_4h_R1 1 SDSFPER 7 0 P18615;P18615-3;A0A0A0MT02;E9PD43;A0A0A0MSN9;P18615-4 P18615 NELFE Negative elongation factor E 1 0 S(0.193)DS(0.807)FPER 90.15 0.019911 6815400 1944 2980.5 2110.5 1400.9 2153.5 2813.5 2803.5 1471.7 1593.2 2143.1 TRUE FALSE FALSE 2148.478839 3077.070156 2398.107949 1428.016445 1988.499295 2573.773972 2488.042802 1434.056045 1582.112791 2235.499529 0.961073269 1.376457528 1.072739188 0.638790761 0.889510049 1.151319398 1.112969504 0.641492439 0.707722266 1 11.12638153 SDS(ph)GGSSSEPFDR ddPTM_HeLa_SAHA_4h_R1 2 SDSGGSSSEPFDR 13 0 P48634;P48634-2;P48634-3;P48634-4 P48634 PRRC2A Protein PRRC2A 1 0 S(0.021)DS(0.973)GGSS(0.003)S(0.003)EPFDR;S(0.023)DS(0.975)GGS(0.002)SSEPFDR ; 219.97 2.33E-16 71993000 1834.05 1998.92 1561.54 2039.28 1821.25 2092.24 2008.92 2041.76 1805.5 1622.08 TRUE FALSE FALSE 2026.963794 2063.68632 1774.338539 2078.753213 1681.706218 1913.969381 1782.871034 1989.534736 1792.935378 1692.015807 1.197957954 1.219661371 1.048653642 1.228566072 0.993906919 1.13117701 1.053696441 1.175836968 1.05964458 1 10.72452733 -9.504712753 1.281938141 1.000722293 1.135382846 0.206440751 0.076445366 0.42799346 1.269511848 0.049497604 0.012252721 3.13E-10 9.504712753 0.134660553 SDS(ph)LLSFR ddPTM_HeLa_SAHA_4h_R1 4 SDSLLSFR 8 0 Q00587-2;Q00587 Q00587-2 CDC42EP1 Cdc42 effector protein 1 1 0 S(0.012)DS(0.988)LLSFR;SDS(1)LLSFR;S(0.017)DS(0.983)LLSFR;S(0.012)DS(0.988)LLSFR ;;; 174.86 9.16E-07 64296400 6134.51 8403.6 5952.96 6736.8 8370.6 8955.7 7460.8 6033.2 10031.1 7649.5 TRUE FALSE FALSE 6779.765908 8675.882154 6764.198387 6867.200506 7729.246436 8192.623977 6621.291148 5878.87948 9961.292758 7979.307381 0.849668472 1.087297649 0.847717485 0.860626139 0.968661322 1.026733723 0.829807756 0.736765636 1.248390654 1 12.96204781 -9.764258995 0.014446397 1.912478626 6.00E-06 0.19150348 0.128696239 3495.8767 10.27384161 735.5180785 627.3520066 1.72E-10 9.764258995 -1.912472622 SDS(ph)PEIPFQAAAGPSDGLDASSPGNSFVGLR ddPTM_HeLa_SAHA_4h_R1 1 SDSPEIPFQAAAGPSDGLDASSPGNSFVGLR 31 0 Q12888;Q12888-3;Q12888-2;A6NNK5 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 S(0.252)DS(0.748)PEIPFQAAAGPSDGLDASSPGNSFVGLR 93.845 3.22E-08 26987000 935.22 846.91 811.68 817.08 971.26 1064.9 1042.7 949.77 1073.3 1000.8 TRUE FALSE FALSE 1033.590731 874.3504397 922.2915234 832.8957649 896.8422686 974.164529 925.3726518 925.4762587 1065.830818 1043.949386 0.990077435 0.837541026 0.883463831 0.797831558 0.859085968 0.933153027 0.886415246 0.886514491 1.020960242 1 10.02783605 -7.272563537 23.96283129 0.995314353 0.869690965 0.762134498 0.034346484 146.4591007 315490.5556 0.005872183 0.00675158 5.34E-08 7.272563537 -0.125623388 SDS(ph)PSVGETER ddPTM_HeLa_SAHA_4h_R1 1 SDSPSVGETER 11 0 A0A0C4DH56;Q9BWT3-2;Q9BWT3 A0A0C4DH56 PAPOLG Poly(A) polymerase gamma 1 0 S(0.002)DS(0.435)PS(0.435)VGET(0.129)ER 92.19 0.013597 4522400 1082.1 1141.9 969.03 987.85 1089.8 1235.7 1182.8 1231.2 1205.3 1105.8 TRUE FALSE FALSE 1195.920243 1178.898309 1101.084362 1006.971265 1006.299759 1130.411408 1049.708231 1199.707687 1196.912219 1153.47645 1.036796411 1.02203934 0.954578971 0.872988144 0.872405986 0.98000389 0.910038719 1.040079914 1.037656399 1 10.17177283 -6.671321964 4.408007484 1.018230351 0.931222311 0.437551262 0.047643127 0.153582005 5.42617729 0.007449289 0.010577976 2.13E-07 6.671321964 -0.08700804 SDS(ph)QASLTVPLSPQVVR ddPTM_HeLa_SAHA_4h_R1 1 SDSQASLTVPLSPQVVR 17 0 Q8TEV9-2;Q8TEV9 Q8TEV9-2 SMCR8 Smith-Magenis syndrome chromosomal region candidate gene 8 protein 1 0 S(0.029)DS(0.877)QAS(0.082)LT(0.011)VPLSPQVVR 82.774 0.0061116 0 252.49 195.4 204.74 307.21 131.54 280.49 354.46 313.82 198.6 256.56 TRUE FALSE FALSE 279.0480567 201.7310882 232.640901 313.1564938 121.4614336 256.590674 314.5752279 305.7929388 197.2179264 267.6215572 1.042696484 0.753792371 0.869290589 1.170146744 0.453855194 0.958781784 1.175448014 1.142631939 0.736928402 1 8.064050521 -4.764562167 24.17390163 0.957736085 1.159040041 0.153140627 0.201675476 69.70221444 539609.9858 0.026496475 0.084810242 1.72E-05 4.764562167 0.201303955 SDS(ph)RAQAVSEDAGGNEGR ddPTM_HeLa_SAHA_4h_R1 2 SDSRAQAVSEDAGGNEGR 18 1 P55884;P55884-2;C9JZG1 P55884 EIF3B Eukaryotic translation initiation factor 3 subunit B 1 0 S(0.004)DS(0.996)RAQAVSEDAGGNEGR;S(0.001)DS(0.999)RAQAVSEDAGGNEGR ; 201.22 9.99E-16 34905000 1792.32 846.35 1272.13 1445.61 1393.21 1173.35 1474.86 1746.82 547.9 929.64 TRUE FALSE FALSE 1980.844441 873.7722953 1445.489251 1473.591872 1286.462551 1073.373979 1308.904871 1702.138874 544.0871193 969.7213299 2.042694514 0.901055044 1.490623344 1.519603443 1.326631179 1.106889109 1.34977424 1.755286618 0.561075747 1 9.921426408 -7.230684065 24.9659792 1.492383784 1.351658209 0 0.43435428 2643.393384 2145807.323 0.071690009 0.087796861 5.88E-08 7.230684065 -0.140725575 SDS(ph)SQPMLLR ddPTM_HeLa_SAHA_4h_R1 1 SDSSQPMLLR 10 0 A0A075B6G3;P11532-4;A0A087WTU7;A0A5H1ZRP8;A0A087WV90;P11532-11;P11532;P11532-16;A0A5H1ZRQ1;P11532-12;P11532-14;P11532-15;H0Y304;A0A5H1ZRR9;P11532-2;P11532-13;P11532-3;A0A5H1ZRQ8;A0A5H1ZRP9;P11532-8;P11532-9;A0A5H1ZRP7;P11532-7;P11532-5;P11532-6;P11532-17 A0A075B6G3 DMD Dystrophin 1 0 S(0.006)DS(0.958)S(0.036)QPMLLR 114.24 0.0043543 6437400 1538.9 1963.6 1424.3 1171 1413.2 2105.7 1704.6 1105.7 1606.5 1717.6 TRUE FALSE FALSE 1700.768563 2027.221928 1618.396187 1193.666398 1304.920921 1926.282514 1512.793922 1077.417795 1595.320236 1791.654142 0.949272811 1.131480614 0.903297209 0.666237066 0.728333048 1.075141942 0.844355998 0.601353671 0.890417519 1 10.80707645 -6.519222708 24.97728848 0.988479296 0.798181514 0.36153191 0.130997661 132.1139531 902576.6939 0.019932776 0.02854671 3.03E-07 6.519222708 -0.190297782 SDS(ph)VSASER ddPTM_HeLa_SAHA_4h_R1 1 SDSVSASER 9 0 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 S(0.061)DS(0.923)VS(0.016)ASER 187.42 3.68E-07 58085000 1428.8 1877.4 1429.7 1434 2642.7 2969.4 2782.6 1458.5 1720.5 3263.5 TRUE FALSE FALSE 1579.08774 1938.228992 1624.53207 1461.757144 2440.216897 2716.390415 2469.494525 1421.193682 1708.5269 3404.205456 0.463863818 0.569363106 0.477213286 0.42939745 0.716824213 0.797951372 0.725424642 0.417481759 0.501887128 1 11.7331024 -9.360550206 1.042717001 1.004092059 0.575507351 0 0.197503482 0.31068422 0.595294485 0.09924997 0.024814905 4.36E-10 9.360550206 -0.428584709 SDSAPPT(ph)PVNR ddPTM_HeLa_SAHA_4h_R1 1 SDSAPPTPVNR 11 0 A2A2F0;Q86X10-4;Q86X10-2;Q86X10-3;Q86X10 A2A2F0 RALGAPB Ral GTPase-activating protein subunit beta 1 0 SDSAPPT(1)PVNR 96.23 0.018928 1842700 1068.6 1295.6 1215.7 1114.9 1388.2 1528.9 1308 1290.6 1203.9 1492.3 TRUE FALSE FALSE 1181.000251 1337.57829 1381.369265 1136.480502 1281.836416 1398.629119 1160.820398 1257.588321 1195.521962 1556.640356 0.758685361 0.859272525 0.887404248 0.730085467 0.823463436 0.898492136 0.745721639 0.807886238 0.768014241 1 10.60421995 -9.400686127 0.995467603 1.006047588 0.811222303 0 0.089459156 0.304081028 0.511555669 0.044130876 0.009925435 3.97E-10 9.400686127 -0.194825286 SDSDS(ph)S(ph)T(ph)LS(ph)KK ddPTM_HeLa_SAHA_4h_R1 1 SDSDSSTLSKK 11 1 H0YBE8;H3BLZ3;Q8IX03;Q8IX03-2;H0YAU4 H0YBE8 WWC1 Protein KIBRA 4 0 S(0.001)DS(0.002)DS(0.997)S(1)T(1)LS(1)KK 75.416 0.010657 3094900 0 0 0 0 64.259 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 59.3354893 0 0 0 0 0 0 SDSDS(ph)STLPR ddPTM_HeLa_SAHA_4h_R1 1 SDSDSSTLPR 10 0 Q9ULE0 Q9ULE0 WWC3 Protein WWC3 1 0 S(0.005)DS(0.028)DS(0.461)S(0.461)T(0.046)LPR 134.38 0.0013927 28179000 2560.2 2666.9 2200.2 2343.7 2778.2 2522.1 3063.9 2749.5 2660.8 2663.8 TRUE FALSE FALSE 2829.493583 2753.30931 2500.031798 2389.065703 2565.334916 2307.202891 2719.141908 2679.171771 2642.283276 2778.649454 1.018298144 0.99088041 0.899729109 0.859793847 0.923230857 0.830332479 0.978584004 0.964199268 0.950923576 1 11.44016812 -6.824611107 4.731684014 1.00832642 0.907150181 0.415576832 0.045130301 0.110675042 4.900562549 0.006704741 0.008976794 1.50E-07 6.824611107 -0.101176238 SDSDYDLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 5 SDSDYDLSPK 10 0 Q08499-6;Q08499;A0A1B0GW84;Q08499-9;Q08499-2;Q08499-10;A0A087WSZ7;Q08499-12;Q08499-7;Q08499-11;A0A1W2PQN6;E9PMG3;Q07343-3;Q07343 Q08499-6 PDE4D;PDE4B "cAMP-specific 3,5-cyclic phosphodiesterase 4D;cAMP-specific 3,5-cyclic phosphodiesterase 4B" 1 0 SDSDYDLS(1)PK;SDSDYDLS(1)PK;SDSDYDLS(1)PK;SDSDYDLS(1)PK;SDSDYDLS(1)PK ;;;; 132.56 0.0014761 304756000 11067.3 12125.7 12204.2 12491.2 12432.9 14569.5 12474.8 13310.7 13273.4 12440.5 TRUE FALSE FALSE 12231.40939 12518.58064 13867.32482 12732.98524 11480.29389 13328.09663 11071.10267 12970.23157 13181.02933 12976.87084 0.942554607 0.964684075 1.068618544 0.981206132 0.884673511 1.027065523 0.853141163 0.999488377 1.01573249 1 13.66365492 -5.896751031 22.7318572 0.980065571 0.939946773 0.147006544 0.05734263 10.37286086 2257.986764 0.008009408 0.014518286 1.27E-06 5.896751031 -0.040118797 SDSFENPVLQQHFR ddPTM_HeLa_SAHA_4h_R1 2 SDSFENPVLQQHFR 14 0 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 0 ; ; 194.86 6.29E-09 17861200 6000.2 6895.8 5699.4 6134.6 8340.7 6721.2 7592.5 6126.5 6103.1 6372.6 FALSE FALSE TRUE 6631.328566 7119.228444 6476.084551 6253.344054 7701.637368 6148.515948 6738.171918 5969.793001 6060.62803 6647.353973 0.997589205 1.070986813 0.974234948 0.940726803 1.158601964 0.924956904 1.01366227 0.898070574 0.911735415 1 12.69856446 -3.372895146 1.472644171 1.005683844 1.39E-09 0.149366648 0.069740257 16.55090785 4.278164154 0.008203956 45.15444709 0.000423745 3.372895146 -1.005683842 SDSLS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 1 SDSLSPPR 8 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46;D6RJ93;D6R8Y0;Q9UPQ0-7;Q6NVB9 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 SDS(0.025)LS(0.975)PPR 101.65 0.0099305 71598000 1944.2 2383.8 2526.9 2761.9 2562.9 3118.2 2856.1 1927.9 2908.4 2531.6 TRUE FALSE FALSE 2148.699876 2461.036684 2871.252772 2815.360568 2366.531156 2852.511817 2534.724111 1878.58711 2888.160208 2640.749665 0.813670415 0.931946226 1.087286997 1.066121717 0.89615884 1.080190165 0.959850206 0.711384019 1.09368951 1 11.36673183 -4.259354665 24.21071741 0.946207233 0.711383904 0.348049392 0.098660759 117.9907694 1370117.185 0.014662694 0.128996029 5.50E-05 4.259354665 -0.234823329 SDSPES(ph)DAER ddPTM_HeLa_SAHA_4h_R1 2 SDSPESDAER 10 0 O75400-2;O75400-3;O75400 O75400-2 PRPF40A Pre-mRNA-processing factor 40 homolog A 1 0 SDSPES(1)DAER;SDS(0.002)PES(0.998)DAER ; 155.33 0.00036451 9510000 2963.6 4367.9 2964.3 3347.5 3659 4757.4 3540.4 3216 5790.5 3312 TRUE FALSE FALSE 3275.325045 4509.422826 3368.259367 3412.295703 3378.64821 4352.042756 3142.024874 3133.739377 5750.203439 3454.796529 0.948051504 1.305264373 0.974951589 0.987698024 0.977958668 1.259710295 0.909467417 0.907069158 1.664411606 1 11.75438503 SDSPES(ph)DAEREK ddPTM_HeLa_SAHA_4h_R1 2 SDSPESDAEREK 12 1 O75400-2;O75400-3;O75400 O75400-2 PRPF40A Pre-mRNA-processing factor 40 homolog A 1 0 S(0.001)DS(0.008)PES(0.992)DAEREK;SDS(0.003)PES(0.997)DAEREK ; 128.95 0.0049024 30323000 2996.2 3873.6 3037.9 3555.8 4226.5 3885.1 3777 3696.9 3908.5 3762.7 TRUE FALSE FALSE 3311.354063 3999.107182 3451.889191 3624.627651 3902.666483 3554.067623 3352.002019 3602.338651 3881.30043 3924.928411 0.843672474 1.018899394 0.879478255 0.923488857 0.994328068 0.905511452 0.85402883 0.917810027 0.988884388 1 11.93845062 -7.476469579 0.008856882 1.849227135 2.65E-07 0.144386344 0.056194904 2466.862967 18.84061087 1970.283199 1961.798027 3.34E-08 7.476469579 -1.84922687 SDSQASLTVPLS(ph)PQVVR ddPTM_HeLa_SAHA_4h_R1 4 SDSQASLTVPLSPQVVR 17 0 Q8TEV9-2;Q8TEV9 Q8TEV9-2 SMCR8 Smith-Magenis syndrome chromosomal region candidate gene 8 protein 1 0 SDSQASLT(0.001)VPLS(0.999)PQVVR;SDSQASLT(0.001)VPLS(0.999)PQVVR;SDSQASLTVPLS(1)PQVVR;SDSQASLTVPLS(1)PQVVR ;;; 284.23 1.21E-72 91210800 5318.82 5277.67 5457.23 4036.21 5551.77 5850.28 5954.32 5161.45 5489.28 5389.09 TRUE FALSE FALSE 5878.277891 5448.669971 6200.912884 4114.336681 5126.394582 5351.803231 5284.324243 5029.427583 5451.079654 5621.440043 1.045688978 0.969265869 1.103082633 0.731900838 0.911936184 0.95203421 0.940030348 0.894686689 0.969694529 1 12.45672404 -6.287680557 24.99629832 1.022925292 0.89420915 0.485386275 0.067293101 468.2818978 446065.5372 0.009718978 0.014848992 5.16E-07 6.287680557 -0.128716142 SDSS(ph)QPMLLR ddPTM_HeLa_SAHA_4h_R1 1 SDSSQPMLLR 10 0 A0A075B6G3;P11532-4;A0A087WTU7;A0A5H1ZRP8;A0A087WV90;P11532-11;P11532;P11532-16;A0A5H1ZRQ1;P11532-12;P11532-14;P11532-15;H0Y304;A0A5H1ZRR9;P11532-2;P11532-13;P11532-3;A0A5H1ZRQ8;A0A5H1ZRP9;P11532-8;P11532-9;A0A5H1ZRP7;P11532-7;P11532-5;P11532-6;P11532-17 A0A075B6G3 DMD Dystrophin 1 0 S(0.008)DS(0.49)S(0.502)QPMLLR 116.03 0.0038051 22296000 2987 3632.9 3241.5 2064.5 3322.6 3985.8 3663.2 2595.6 2551.3 3438.8 TRUE FALSE FALSE 3301.186365 3750.608344 3683.234739 2104.461383 3068.023106 3646.187417 3251.007095 2529.20831 2533.545296 3587.063497 0.920303298 1.045592961 1.026810577 0.586680828 0.855302146 1.016482541 0.906314343 0.705091592 0.706300654 1 11.80858757 SDSVLPASHGHLPQAGS(ph)LER ddPTM_HeLa_SAHA_4h_R1 1 SDSVLPASHGHLPQAGSLER 20 0 Q8N4C8-2;Q8N4C8-3;Q8N4C8;Q8N4C8-5;Q8N4C8-4 Q8N4C8-2 MINK1 Misshapen-like kinase 1 1 0 SDSVLPASHGHLPQAGS(1)LER 84.125 0.0010846 3004500 747.4 1159.9 589.3 1124.4 1505.4 2015 1432.1 1503.4 1263.9 1070.6 TRUE FALSE FALSE 826.0149612 1197.481521 669.6067351 1146.164388 1390.056577 1843.310664 1270.956339 1464.945205 1255.104417 1116.758805 0.73965386 1.072283035 0.599598348 1.026331185 1.244724081 1.650589774 1.13807595 1.31178299 1.123881371 1 10.12510191 -5.801850232 3.210440218 0.871393274 1.354461312 0.533780185 0.189044735 0.121128923 2.561987537 0.025958648 0.051469053 1.58E-06 5.801850232 0.483068038 SDSVS(ph)ASER ddPTM_HeLa_SAHA_4h_R1 1 SDSVSASER 9 0 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 S(0.013)DS(0.268)VS(0.719)ASER 163.38 6.88E-05 66177000 1371.6 2157.9 1482.9 1296 1802 2888.5 2816.6 1294.3 1606.1 2767.1 TRUE FALSE FALSE 1515.871181 2227.817376 1684.981889 1321.085954 1663.931149 2642.38355 2499.668755 1261.19368 1594.923019 2886.403223 0.525176513 0.771831655 0.583765247 0.457692793 0.576472177 0.915458911 0.866015093 0.436942999 0.552564176 1 11.49505714 -9.420464997 1.081216965 1.005425112 0.64134883 0 0.206319647 0.422985459 0.863080222 0.119533352 0.028370073 3.80E-10 9.420464997 -0.364076282 SDSYVELSQYR ddPTM_HeLa_SAHA_4h_R1 1 SDSYVELSQYR 11 0 F8WE41;P52298-3;P52298 F8WE41 NCBP2 Nuclear cap-binding protein subunit 2 0 0 201.61 2.02E-09 3775800 682.07 681.87 665.12 856.28 591.04 792.66 614.44 454.55 591.55 546.65 FALSE FALSE TRUE 753.813252 703.9630354 755.7590898 872.8545376 545.7546429 725.1209086 545.3015941 442.9232692 587.4333554 570.2187567 1.321972038 1.234549069 1.325384479 1.530736278 0.957096968 1.271653905 0.95630245 0.776760259 1.030189464 1 9.155371686 -4.554577596 3.331649484 1.192876729 0.794897432 0.416701335 0.16684282 0.199419938 4.344562715 0.025546817 0.141130119 2.79E-05 4.554577596 -0.397979296 SDTDTGVCS(ph)GTDEDPDDKNAPFR ddPTM_HeLa_SAHA_4h_R1 1 SDTDTGVCSGTDEDPDDKNAPFR 23 1 Q5JSH3-2;Q5JSH3;Q5JSH3-4;H7BY83;Q5JSH3-3 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 S(0.008)DT(0.008)DT(0.098)GVCS(0.819)GT(0.066)DEDPDDKNAPFR 93.34 0.00010081 5316900 891.46 1215.9 1155.4 1169.8 1024.9 1163.3 1254.7 1074.8 1123 1140.2 TRUE FALSE FALSE 985.227853 1255.295958 1312.851895 1192.443171 946.3723834 1064.180295 1113.517854 1047.308172 1115.184952 1189.359602 0.828368352 1.055438537 1.103830913 1.002592629 0.795699116 0.894750666 0.936233122 0.880564777 0.937634799 1 10.21596926 -5.780351128 24.99944134 0.949072618 0.882337576 0.236623328 0.081234463 474.8681973 627727.545 0.015259644 0.027692312 1.66E-06 5.780351128 -0.066735042 SDTEIS(ph)LEVTDVEESVEKEK ddPTM_HeLa_SAHA_4h_R1 2 SDTEISLEVTDVEESVEKEK 20 1 P26374 P26374 CHML Rab proteins geranylgeranyltransferase component A 2 1 0 S(0.01)DT(0.037)EIS(0.951)LEVT(0.001)DVEESVEKEK;S(0.002)DT(0.008)EIS(0.977)LEVT(0.013)DVEESVEKEK ; 132.48 2.22E-05 4205100 477.51 481.1 570.19 652.76 775.83 683.37 558.48 599.92 594.8 690.79 TRUE FALSE FALSE 527.7366927 496.6879557 647.8925238 665.3951137 716.386073 625.1430315 495.6383606 584.5749151 590.6607384 720.5733375 0.732384429 0.689295495 0.899134745 0.923424555 0.994188982 0.867563368 0.687838884 0.811263593 0.8197094 1 9.49300146 -9.510869415 1.293086069 0.998945102 0.818168122 0 0.110188542 0.466061591 1.40774793 0.07280466 0.018004755 3.08E-10 9.510869415 -0.18077698 SDTEISLEVTDVEES(ph)VEKEK ddPTM_HeLa_SAHA_4h_R1 2 SDTEISLEVTDVEESVEKEK 20 1 P26374 P26374 CHML Rab proteins geranylgeranyltransferase component A 2 1 0 SDTEISLEVTDVEES(1)VEKEK;SDTEISLEVTDVEES(1)VEKEK ; 116.94 0.00014708 7594800 1170.16 1633.06 1303.88 1649.23 1928.02 1843.84 2110.4 1501.2 1739.61 1550.98 TRUE FALSE FALSE 1293.242798 1685.972215 1481.565976 1681.153231 1780.295524 1686.734459 1872.932238 1462.801478 1727.503912 1617.850338 0.799358734 1.042106415 0.915762071 1.039127781 1.100408043 1.042577561 1.157667179 0.904163657 1.067777329 1 10.65986244 -6.396078179 1.568604898 0.91073501 1.060325096 0.024283571 0.099130086 0.347448738 1.68473388 0.016411691 0.02829149 4.02E-07 6.396078179 0.149590087 SDTS(ph)SPEVR ddPTM_HeLa_SAHA_4h_R1 2 SDTSSPEVR 9 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SDT(0.06)S(0.47)S(0.47)PEVR;S(0.014)DT(0.066)S(0.46)S(0.46)PEVR ; 154.85 0.00021735 93139000 5890.4 7726.4 5242.1 7958.4 8169.6 10764.9 9066 7881.9 9288.7 9061.3 TRUE FALSE FALSE 6509.979298 7976.740429 5956.466088 8112.44634 7543.647013 9847.669958 8045.86982 7680.292411 9224.05918 9451.976988 0.68874261 0.843922963 0.630182035 0.858280374 0.798102558 1.041863514 0.851236713 0.812559364 0.975886758 1 13.2064004 -4.251177579 19.79661127 0.844008047 0.812559031 0.004038207 0.123719225 699.6596168 1349169.702 0.019537046 0.291817568 5.61E-05 4.251177579 -0.031449016 SDTSGDYEITLLK ddPTM_HeLa_SAHA_4h_R1 3 SDTSGDYEITLLK 13 0 P12429;D6RA82 P12429 ANXA3 Annexin A3;Annexin 0 0 ;; ;; 208.17 1.21E-18 11837700 2528.364 2328.18 2400.49 2251.4 2426.3 2832.13 2577.37 2641.77 2395.87 2336.8 FALSE FALSE TRUE 2794.308926 2403.61456 2727.616276 2294.979103 2240.397418 2590.816591 2287.357544 2574.197349 2379.196946 2437.550884 1.146359218 0.986077696 1.118998702 0.941510234 0.919118215 1.062876926 0.938383506 1.056058918 0.976060422 1 11.25121662 -6.25652618 24.93528796 1.06672211 0.981901225 0.132798076 0.069118143 444.9123889 2257998.623 0.010847553 0.017615284 5.54E-07 6.25652618 -0.084820884 SDTSGHFER ddPTM_HeLa_SAHA_4h_R1 2 SDTSGHFER 9 0 P20073-2;P20073 P20073-2 ANXA7 Annexin A7 0 0 ; ; 116.52 0.0011307 0 1417.55 1891.12 883.68 1722.13 2235.5 1328.49 2389.2 2195.2 1471.84 1415.47 FALSE FALSE TRUE 1566.654413 1952.393529 1004.103308 1755.464316 2064.216473 1215.295178 2120.360928 2139.049963 1461.597346 1476.497839 1.061061095 1.322313841 0.680057418 1.188937952 1.398049099 0.823093096 1.436074522 1.4487322 0.989908219 1 10.52796353 -1 0.486559647 1.033113604 14.46110538 0.277718643 0.215885114 78.74622804 0.782079141 0.039886489 1080.57046 0.1 1 13.42799178 SDTSGHFQR ddPTM_HeLa_SAHA_4h_R1 1 SDTSGHFQR 9 0 P50995-2;P50995 P50995-2 ANXA11 Annexin A11 0 0 103.88 0.0088902 392260 351.95 421.13 244.8 363.48 590.02 358.32 450.59 325.3 193.49 207.71 FALSE FALSE TRUE 388.9697158 434.7748883 278.1600691 370.515681 544.8127951 327.7891201 399.8884273 316.979297 192.1434873 216.6653946 1.795255382 2.006665112 1.283823241 1.710082414 2.514535356 1.512881744 1.845649731 1.46298996 0.886821302 1 7.759324937 -9.181432526 0.689186249 0.933679146 1.784241444 0.503781265 0.323366649 0.626426336 0.475990921 0.31203706 0.067013239 6.59E-10 9.181432526 0.850562298 SDTSISDFLS(ph)EEDDIVPSKK ddPTM_HeLa_SAHA_4h_R1 2 SDTSISDFLSEEDDIVPSKK 20 1 Q4AC94;Q4AC94-2;Q4AC94-4;Q4AC94-1;Q4AC94-3 Q4AC94 C2CD3 C2 domain-containing protein 3 1 0 S(0.004)DT(0.019)S(0.031)IS(0.141)DFLS(0.805)EEDDIVPSKK;SDTSIS(0.001)DFLS(0.999)EEDDIVPSKK ; 123.87 7.21E-05 12667600 4225.2 3987.4 3742.5 4020.2 4787.2 5784.5 4969.7 4662.2 5074.6 3868 TRUE FALSE FALSE 4669.625922 4116.594376 4252.50841 4098.016784 4420.40577 5291.628057 4410.496276 4542.947675 5039.285445 4034.76841 1.157346704 1.020280214 1.053965923 1.015675838 1.095578562 1.311507259 1.093122536 1.125950046 1.248965228 1 11.97827015 -13.52287829 0.301243707 1.22E-08 1.123351834 0 0.112010156 58.83725987 0.796299062 35.80909363 0.03503211 3.00E-14 13.52287829 1.123351822 SDVLELTDDNFESR ddPTM_HeLa_SAHA_4h_R1 2 SDVLELTDDNFESR 14 0 H7BZJ3 H7BZJ3 PDIA3 0 0 ; ; 340.88 2.18E-134 53738000 3462.9 3640.6 3646.5 3546.4 3475.1 4639.9 4298.6 4606.2 4662.2 3855 FALSE FALSE TRUE 3827.14371 3758.557829 4143.42603 3615.0457 3208.838589 4244.554417 3814.910215 4488.380074 4629.755371 4021.207916 0.951739823 0.934683783 1.030393383 0.898994973 0.79797878 1.055542142 0.948697579 1.116177071 1.151334491 1 11.97341322 -3.657367012 1.761244491 0.963173837 1.7333462 0.163913882 0.091135338 7.148098458 4.681718994 0.009759289 15.71178834 0.000220107 3.657367012 0.770172363 SDVYYFS(ph)PSGK ddPTM_HeLa_SAHA_4h_R1 1 SDVYYFSPSGK 11 0 Q9UBB5;X6RBL6;Q9UBB5-3 Q9UBB5 MBD2 Methyl-CpG-binding domain protein 2 1 0 S(0.035)DVY(0.001)YFS(0.945)PS(0.019)GK 113.07 0.0034136 7040400 894.05 1005.5 1198.7 1228.4 1236.9 1232.3 1032 1266.5 1433.4 1357.4 TRUE FALSE FALSE 988.090281 1038.07886 1362.052593 1252.177458 1142.128989 1127.301107 915.8766439 1234.104764 1423.424853 1415.924157 0.697841248 0.733145808 0.961953073 0.884353482 0.806631474 0.796159245 0.646840185 0.871589596 1.005297385 1 10.46752828 -9.492393843 1.236189086 1.000041542 0.789685104 0.451972547 0.088442845 0.370883589 1.013956085 0.065781919 0.016004308 3.22E-10 9.492393843 -0.210356438 SDYDGIGSR ddPTM_HeLa_SAHA_4h_R1 1 SDYDGIGSR 9 0 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;F6S8Q4;A0A2R8YDH3;A0A2R8YF89;A0A2R8YCU0;A0A2R8Y650 A0A2R8Y5G6 DDX3X ATP-dependent RNA helicase DDX3X 0 0 124.08 0.017974 11816000 3772.3 3904.9 3521.9 3994.4 3863.3 4256.3 4275.6 4205 4204.2 4090.7 FALSE FALSE TRUE 4169.087822 4031.421322 4001.846191 4071.717388 3567.294789 3893.639295 3794.498235 4097.442189 4174.94263 4267.070096 0.977037576 0.94477504 0.937844024 0.954218538 0.836005669 0.912485431 0.889251442 0.960247218 0.978409666 1 12.05903009 -6.901299962 0.84973046 0.993243493 0.903217639 0.500210967 0.03256956 0.278569811 0.4024491 0.006733834 0.009935138 1.26E-07 6.901299962 -0.090025854 SDYDMVDYLNELR ddPTM_HeLa_SAHA_4h_R1 2 SDYDMVDYLNELR 13 0 Q14974;Q14974-2;J3KTM9 Q14974 KPNB1 Importin subunit beta-1 0 0 ; ; 185.25 1.99E-06 11242400 2409 1760.92 1610.2 2163.93 1953.32 3058.7 2396.9 1687.52 3297.3 1914.83 FALSE FALSE TRUE 2662.389673 1817.974963 1829.62967 2205.815994 1803.657044 2798.081552 2127.194504 1644.355682 3274.353821 1997.387692 1.332935856 0.910176312 0.916011287 1.104350449 0.903007989 1.400870529 1.06498829 0.823253136 1.639318112 1 10.96389867 -7.24470319 24.71225859 1.157219721 1.029123185 0.178821959 0.227680655 1366.637499 2017945.813 0.031878324 0.038984926 5.69E-08 7.24470319 -0.128096536 SEAAAPHTDAGGGLS(ph)S(ph)DEEEGTSSQAEAAR ddPTM_HeLa_SAHA_4h_R1 1 SEAAAPHTDAGGGLSSDEEEGTSSQAEAAR 30 0 Q01831-2;Q01831 Q01831-2 XPC DNA repair protein complementing XP-C cells 2 0 SEAAAPHT(0.004)DAGGGLS(0.997)S(0.997)DEEEGT(0.001)SSQAEAAR 78.583 1.15E-05 4313100 826.54 858.17 499.46 785.7 699.27 930.81 718.15 992.66 1077.8 671.73 TRUE FALSE FALSE 913.4792695 885.9752711 567.5238077 800.9083596 645.6920837 851.4997514 637.3418719 967.2691946 1070.299502 700.6915677 1.303682407 1.26442976 0.809948105 1.143025543 0.921506856 1.215227628 0.909589756 1.380449315 1.527490199 1 9.452635724 SEAAEPPKT(ph)PPSSCDSTNAAIAK ddPTM_HeLa_SAHA_4h_R1 1 SEAAEPPKTPPSSCDSTNAAIAK 23 1 C9JKQ0;A0A0C4DFR3;Q9NQR1-2;Q9NQR1 C9JKQ0 SETD8 N-lysine methyltransferase SETD8 1 0 SEAAEPPKT(0.997)PPS(0.003)S(0.001)CDSTNAAIAK 95.227 7.05E-05 0 1018.1 916.24 704.1 927.4 919.81 1053.5 952.8 916.8 769.25 959.4 TRUE FALSE FALSE 1125.188429 945.9267772 800.0510812 945.351168 849.3343565 963.7358732 845.5884364 893.3495835 763.8967266 1000.764429 1.124328959 0.945204235 0.799439966 0.944629066 0.848685596 0.962999728 0.844942538 0.892667203 0.763313228 1 9.966886702 -7.055481822 5.725149163 1.058127442 0.884336978 0 0.107095264 0.096856754 6.968851646 0.009994504 0.01239117 8.80E-08 7.055481822 -0.173790464 SEAAS(ph)PALPVITK ddPTM_HeLa_SAHA_4h_R1 4 SEAASPALPVITK 13 0 Q99958 Q99958 FOXC2 Forkhead box protein C2 1 0 S(0.001)EAAS(0.999)PALPVITK;S(0.001)EAAS(0.999)PALPVITK;S(0.042)EAAS(0.958)PALPVITK;S(0.038)EAAS(0.962)PALPVITK ;;; 196.67 3.05E-08 210677000 17034.1 17629 14885.2 16483.8 18713.6 18630.7 17246.4 16570.4 18688.8 16229.9 TRUE FALSE FALSE 18825.82479 18200.19117 16913.67754 16802.86778 17279.76801 17043.25955 15305.78968 16146.55316 18558.74312 16929.65042 1.112003162 1.075048257 0.999056515 0.992511208 1.020680734 1.00671066 0.904081851 0.953744039 1.096227191 1 14.04726456 -5.193858151 0.763659354 1.052441106 0.916255382 0.564435086 0.040005599 0.753162056 0.619930918 0.008795175 0.067005965 6.40E-06 5.193858151 -0.136185724 SEAEEGEVRT(ph)PTK ddPTM_HeLa_SAHA_4h_R1 1 SEAEEGEVRTPTK 13 1 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0;Q9H4G0-4;H7C2K6 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 SEAEEGEVRT(0.999)PT(0.001)K 84.352 0.016754 6821400 1956.1 2455 1552.7 1842.4 2379.3 2270.7 2194.5 1694.5 2596.2 2165.8 TRUE FALSE FALSE 2161.851573 2534.543611 1764.29387 1878.062316 2196.998548 2077.223585 1947.569084 1651.157144 2578.132833 2259.178237 0.95691944 1.121887405 0.780944965 0.831303297 0.972476855 0.919459807 0.862069691 0.730866258 1.141181687 1 11.14158238 -6.745969936 24.99291213 0.989755318 0.858030569 0.507817197 0.090159397 180.1831793 291108.7457 0.012116145 0.017099204 1.79E-07 6.745969936 -0.131724749 SEAHLTELLEEICDR ddPTM_HeLa_SAHA_4h_R1 1 SEAHLTELLEEICDR 15 0 F8W031;F8W1K5;F8VXJ7;Q9Y2B0 F8W031 CNPY2 Protein canopy homolog 2 0 0 155.43 2.58E-05 1185100 437.56 460.02 221.36 376.05 798.73 1459.6 624.97 773.09 476.39 386.81 FALSE FALSE TRUE 483.5845684 474.9249498 251.525788 383.3289915 737.53148 1335.233869 554.6467308 753.3154772 473.0747632 403.4872721 1.198512572 1.177050635 0.623379733 0.95003986 1.827892801 3.309234171 1.374632533 1.867011748 1.172465146 1 8.656379355 -5.647326498 4.763873141 1.055885096 2.169435791 0.552984951 0.478856837 0.119318422 4.473769111 0.067148566 0.136759307 2.25E-06 5.647326498 1.113550695 SEALS(ph)SVLDQEEAMEIK ddPTM_HeLa_SAHA_4h_R1 1 SEALSSVLDQEEAMEIK 17 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 S(0.001)EALS(0.952)S(0.047)VLDQEEAMEIK 179.78 2.76E-09 1909800 139.35 320.16 329.7 217.7 331.77 351.4 288.28 166.6 412.44 249.23 TRUE FALSE FALSE 154.0074724 330.5333941 374.629799 221.9138983 306.3498543 321.4587431 255.8419757 162.3386132 409.5697965 259.975525 0.592392197 1.271401968 1.441019492 0.853595346 1.178379597 1.236496178 0.984100237 0.624438063 1.575416749 1 8.022231999 -7.256761703 24.98722685 0.807518538 1.094687823 0 0.338049354 466.4457899 2491663.758 0.043709285 0.052598356 5.54E-08 7.256761703 0.287169285 SEALSS(ph)VLDQEEAMEIK ddPTM_HeLa_SAHA_4h_R1 1 SEALSSVLDQEEAMEIK 17 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 SEALS(0.161)S(0.839)VLDQEEAMEIK 168.32 1.43E-19 0 398.43 236.75 140.63 194.75 351.28 295.69 363.05 340.66 332.12 242.28 TRUE FALSE FALSE 440.3386955 244.4208553 159.794324 198.5196679 324.3650023 270.4955485 322.1986585 331.9464105 329.8087499 252.7258765 1.742356982 0.967138224 0.632283193 0.785513817 1.283465733 1.07031204 1.274893822 1.313464276 1.30500586 1 7.981429579 -7.156321871 22.0121151 1.350854397 1.039521578 0.21373511 0.265517495 18.17915608 3793.937878 0.058133226 0.071198431 6.98E-08 7.156321871 -0.311332818 SEANDAVNS(ph)STK ddPTM_HeLa_SAHA_4h_R1 2 SEANDAVNSSTK 12 0 O15234;J3KSY7;K7EQ38 O15234 CASC3 Protein CASC3 1 0 SEANDAVNS(0.91)S(0.082)T(0.008)K;SEANDAVNS(0.876)S(0.123)T(0.001)K ; 148.57 0.00040998 15846000 2694.4 3832.1 2432.38 3201.9 3587.4 4494.4 2741.7 2839.3 4984.5 3434.5 TRUE FALSE FALSE 2977.809354 3956.262554 2763.852079 3263.877405 3312.534187 4111.451835 2433.1967 2766.674817 4949.812459 3582.578103 0.831191748 1.104306017 0.771470154 0.911041521 0.924623021 1.147623783 0.679174781 0.77225806 1.381634208 1 11.80678244 -11.74874755 0.015134591 1.968251116 7.41E-07 0.113751832 0.189386247 7370.964569 12.63250429 955.4681505 704.4574429 1.78E-12 11.74874755 -1.968250375 SEANDAVNS(ph)STKEEK ddPTM_HeLa_SAHA_4h_R1 2 SEANDAVNSSTKEEK 15 1 O15234;J3KSY7;K7EQ38 O15234 CASC3 Protein CASC3 1 0 SEANDAVNS(0.937)S(0.035)T(0.027)KEEK;SEANDAVNS(0.683)S(0.159)T(0.159)KEEK ; 85.087 0.0068748 30452000 4740.3 5994 4920.9 4853.5 5633.5 6439.4 5658.3 5623.3 7528 5812.3 TRUE FALSE FALSE 5238.906503 6188.209533 5591.494625 4947.446511 5201.862447 5890.726893 5021.613192 5479.464128 7475.612035 6062.896698 0.864092985 1.020668806 0.922248045 0.816020255 0.857983025 0.971602715 0.828253134 0.903769997 1.233009963 1 12.56579153 -6.507969424 24.68555702 0.941871356 0.876449723 0.16118499 0.107942244 779.2954316 1290290.284 0.010291354 0.015384369 3.10E-07 6.507969424 -0.065421632 SEANDAVNSS(ph)TK ddPTM_HeLa_SAHA_4h_R1 1 SEANDAVNSSTK 12 0 O15234;J3KSY7;K7EQ38 O15234 CASC3 Protein CASC3 1 0 SEANDAVNS(0.028)S(0.965)T(0.007)K 201.08 2.43E-10 5648600 1647.7 2411.7 1380.9 1688.1 1854.1 2824.8 1925.7 1634.9 3277.2 1996.9 TRUE FALSE FALSE 1821.012646 2489.840662 1569.081861 1720.775617 1712.039259 2584.111148 1709.015168 1593.081625 3254.393698 2082.996132 0.87422757 1.195316988 0.753281217 0.826106007 0.821911876 1.240574146 0.820460078 0.764802969 1.562361854 1 11.02444444 -9.576474997 1.024774151 1.006685696 0.912736835 0.089803491 0.240691855 2.09074127 3.438232464 0.159477502 0.027689591 2.65E-10 9.576474997 -0.093948861 SEAPAEVTHFS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 SEAPAEVTHFSPK 13 0 Q6PID6 Q6PID6 TTC33 Tetratricopeptide repeat protein 33 1 0 SEAPAEVT(0.001)HFS(0.999)PK;SEAPAEVT(0.021)HFS(0.979)PK;SEAPAEVT(0.035)HFS(0.965)PK;SEAPAEVT(0.005)HFS(0.995)PK ;;; 114.54 0.0013704 280772000 15334.3 16283.4 15240.4 16255.6 16372.9 18325.2 18494.7 17676.1 17231.3 15168.3 TRUE FALSE FALSE 16947.23203 16810.99284 17317.28234 16570.25064 15118.41194 16763.78987 16413.62768 17223.97096 17111.38598 15822.27964 1.071099261 1.062488669 1.094487187 1.047273276 0.955514141 1.059505346 1.037374389 1.088589719 1.081474122 1 13.94966986 -9.434228911 1.180879725 1.000175233 1.052079609 0 0.044093484 0.607690519 1.523636976 0.025416707 0.006455465 3.68E-10 9.434228911 0.051904376 SEATDGGFT(ph)S(ph)QIRK ddPTM_HeLa_SAHA_4h_R1 2 SEATDGGFTSQIRK 14 1 A0A075B754;Q96QE3-2;Q96QE3 A0A075B754 ATAD5 ATPase family AAA domain-containing protein 5 2 0 SEAT(0.001)DGGFT(0.999)S(1)QIRK;S(0.003)EAT(0.023)DGGFT(0.975)S(0.999)QIRK ; 75.088 0.018399 9795500 0 0 0 224.089 144.28 0 121.67 178.92 0 0 TRUE FALSE FALSE 0 0 0 228.4265666 133.2252976 0 107.9793714 174.3434855 0 0 0 SECDS(ph)SPEPK ddPTM_HeLa_SAHA_4h_R1 1 SECDSSPEPK 10 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SECDS(0.5)S(0.5)PEPK 110.53 0.0054934 18045000 4953.6 6598.5 4290.8 7117.7 8231.3 11163 8306.7 7096.8 8453.2 10596 TRUE FALSE FALSE 5474.642376 6812.295729 4875.527878 7255.473376 7600.619572 10211.8496 7372.008254 6915.274132 8394.373493 11052.84542 0.495315203 0.616338642 0.441110655 0.656434891 0.6876618 0.923911374 0.666978319 0.625655555 0.759476241 1 13.4321302 -9.439137143 1.169255579 1.000078179 0.630698921 0.265572422 0.139939605 0.312635287 0.764215629 0.092983505 0.023213681 3.64E-10 9.439137143 -0.369379258 SECDSS(ph)PEPK ddPTM_HeLa_SAHA_4h_R1 2 SECDSSPEPK 10 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SECDS(0.289)S(0.711)PEPK;SECDS(0.127)S(0.873)PEPK ; 177.57 4.37E-05 53432000 10153.3 11742 7482.2 12710.3 14107.3 19976.8 14454.8 12796.2 15241.2 18945.2 TRUE FALSE FALSE 11221.27068 12122.4485 8501.83525 12956.32624 13026.40172 18274.66425 12828.30786 12468.89173 15135.13525 19762.02029 0.567820016 0.613421519 0.430210835 0.655617495 0.659163463 0.924736641 0.649139495 0.630952279 0.765869837 1 14.27044282 -9.29856408 0.994535619 1.002602563 0.640596241 0.287011453 0.134182676 0.336068429 0.588866323 0.086773444 0.022592787 5.03E-10 9.29856408 -0.362006322 SEDDSAKFDS(ph)NEEDSASVFSPSFGLK ddPTM_HeLa_SAHA_4h_R1 2 SEDDSAKFDSNEEDSASVFSPSFGLK 26 1 Q02880-2;Q02880 Q02880-2 TOP2B DNA topoisomerase 2-beta 1 0 SEDDS(0.008)AKFDS(0.977)NEEDS(0.013)AS(0.002)VFSPSFGLK;SEDDS(0.001)AKFDS(0.509)NEEDS(0.242)AS(0.242)VFS(0.007)PSFGLK ; 90.468 1.15E-05 161165200 5569.3 4401 3525.7 3265.8 5299 5242.7 5879.5 5695.8 3106.6 4370.1 TRUE FALSE FALSE 6155.104527 4543.595288 4006.164035 3329.014281 4892.991765 4795.992465 5217.923186 5550.109683 3084.980918 4558.516398 1.350242928 0.996726762 0.878830673 0.730284591 1.073373733 1.052095034 1.144653815 1.21752544 0.676751085 1 12.15434865 SEDES(ph)ET(ph)EDEEEKSQEDQEQK ddPTM_HeLa_SAHA_4h_R1 2 SEDESETEDEEEKSQEDQEQK 21 1 P25205;P25205-2;J3KQ69;A0A499FHX9;Q7Z6P5 P25205 MCM3 DNA replication licensing factor MCM3 2 0 S(0.005)EDES(0.996)ET(0.995)EDEEEKS(0.003)QEDQEQK;S(0.008)EDES(0.996)ET(0.988)EDEEEKS(0.007)QEDQEQK ; 80.859 0.0059135 139926000 3555.6 4176.1 3087.9 4345 4513.3 4604.6 4713.6 4352.7 3689.9 4240.6 TRUE FALSE FALSE 3929.594322 4311.40838 3508.702931 4429.103758 4167.491929 4212.262175 4183.213322 4241.364237 3664.221685 4423.433019 0.8883585 0.974674729 0.793208107 1.001281977 0.942139716 0.95226087 0.945693832 0.958839937 0.828366038 1 12.11095076 -9.553470626 1.330890336 0.999895723 0.927026532 0 0.075928865 0.556292136 1.769377411 0.036211936 0.008610849 2.80E-10 9.553470626 -0.072869191 SEDES(ph)ETEDEEEK ddPTM_HeLa_SAHA_4h_R1 1 SEDESETEDEEEK 13 0 P25205;P25205-2;J3KQ69;A0A499FHX9;Q7Z6P5 P25205 MCM3 DNA replication licensing factor MCM3 1 0 SEDES(0.999)ET(0.001)EDEEEK 262.64 1.12E-42 2068700 506.42 475.31 498.75 481.07 491.83 498.46 616.04 555.06 879.14 558.31 TRUE FALSE FALSE 559.6875791 490.7103559 566.7170526 490.3818055 454.1460917 455.9884037 546.7215579 540.8623689 873.0219932 582.3814764 0.961032591 0.842592657 0.973102812 0.842028508 0.779808614 0.782972025 0.938768797 0.928708056 1.499055222 1 9.185820659 -7.30444504 0.908682101 0.990836285 0.858655141 0.231476027 0.172017301 0.353626051 0.585881086 0.014776696 0.017171269 4.96E-08 7.30444504 -0.132181144 SEDES(ph)ETEDEEEKSQEDQEQK ddPTM_HeLa_SAHA_4h_R1 3 SEDESETEDEEEKSQEDQEQK 21 1 P25205;P25205-2;J3KQ69;A0A499FHX9;Q7Z6P5 P25205 MCM3 DNA replication licensing factor MCM3 1 0 SEDES(0.801)ET(0.198)EDEEEKSQEDQEQK;S(0.001)EDES(0.786)ET(0.213)EDEEEKSQEDQEQK;S(0.006)EDES(0.695)ET(0.294)EDEEEKS(0.005)QEDQEQK ;; 118.05 2.46E-05 100323000 2198.56 2647.1 2016.08 2334.2 2243.55 2785.67 2782.21 2381.73 3200.87 2611.88 TRUE FALSE FALSE 2429.814628 2732.867777 2290.820883 2379.381816 2071.649684 2548.315244 2469.148408 2320.808795 3178.594885 2724.490929 0.891841702 1.003074647 0.840825293 0.87333079 0.760380467 0.935336292 0.906278814 0.851832087 1.166674791 1 11.41177097 -9.483541013 0.293890522 1.065084816 0.862353283 0.459777836 0.078424898 3.716977025 0.385229261 0.262030704 0.035412133 3.28E-10 9.483541013 -0.202731533 SEDES(ph)ETEDEEEKSQEDQEQKR ddPTM_HeLa_SAHA_4h_R1 2 SEDESETEDEEEKSQEDQEQKR 22 2 P25205;P25205-2;J3KQ69;A0A499FHX9;Q7Z6P5 P25205 MCM3 DNA replication licensing factor MCM3 1 0 S(0.005)EDES(0.947)ET(0.048)EDEEEKSQEDQEQKR;S(0.083)EDES(0.846)ET(0.071)EDEEEKSQEDQEQKR ; 76.573 0.00088369 60714000 2518 2254.59 1883.27 2332.72 2441.16 2517 2876.7 2384.27 2661.71 2561.54 TRUE FALSE FALSE 2782.854793 2327.640195 2139.912228 2377.873169 2254.118848 2302.53744 2553.006145 2323.283826 2643.186943 2671.980525 1.041495163 0.871129177 0.800871192 0.889929079 0.843613502 0.861734364 0.955473336 0.869498787 0.98922388 1 11.38369378 -7.255995071 24.45823943 1.019594939 0.870321908 0.730988693 0.038772422 115.6154059 519395.6081 0.00661489 0.007978032 5.55E-08 7.255995071 -0.149273031 SEDESET(ph)EDEEEKSQEDQEQK ddPTM_HeLa_SAHA_4h_R1 1 SEDESETEDEEEKSQEDQEQK 21 1 P25205;P25205-2;J3KQ69;A0A499FHX9;Q7Z6P5 P25205 MCM3 DNA replication licensing factor MCM3 1 0 S(0.004)EDES(0.053)ET(0.942)EDEEEKS(0.001)QEDQEQK 69.704 0.0052499 3427800 515.03 519.66 196.22 409.89 492.17 424.57 330.56 360.6 431.08 315.94 TRUE FALSE FALSE 569.2032184 536.497325 222.9598397 417.8240137 454.4600409 388.3942474 293.3645188 351.3763741 428.0800792 329.5617196 1.727152107 1.627911536 0.676534399 1.267817191 1.378983098 1.178517481 0.890165639 1.066192926 1.298937509 1 8.364404865 -6.784996909 24.99997363 1.374311753 1.095004932 0.283081708 0.258841509 355.9661451 377760.9405 0.054745097 0.071971735 1.64E-07 6.784996909 -0.27930682 SEDFGVNEDLADSDAR ddPTM_HeLa_SAHA_4h_R1 2 SEDFGVNEDLADSDAR 16 0 P04083 P04083 ANXA1 Annexin A1 0 0 ; ; 444.59 0 79182000 2763.5 2241.9 2065.5 2364.8 2634.2 2546.2 2665.1 2286.6 2750.8 2325.6 FALSE FALSE TRUE 3054.177609 2314.539031 2346.975583 2410.574124 2432.368165 2329.249435 2365.215934 2228.112083 2731.656959 2425.867997 1.25900404 0.954107575 0.967478686 0.993695505 1.002679523 0.96017155 0.974997789 0.918480348 1.126053422 1 11.24428533 -7.223445675 24.70716416 1.122307484 0.969763664 0.586166536 0.061899129 392.3540963 255146.6581 0.016003872 0.019600419 5.98E-08 7.223445675 -0.15254382 SEDIY(ph)ADPAAYVMR ddPTM_HeLa_SAHA_4h_R1 2 SEDIYADPAAYVMR 14 0 Q5VTI5;A0A1B0GUN5;Q9Y2H5 Q5VTI5 PLEKHA6 Pleckstrin homology domain-containing family A member 6 1 0 SEDIY(0.999)ADPAAY(0.001)VMR;SEDIY(1)ADPAAYVMR ; 148.28 0.00022335 4087700 1369.33 1226.99 1041.09 1257.5 1742.28 1650.42 1668.07 2293.5 1743.52 1473.62 TRUE FALSE FALSE 1513.362412 1266.745281 1182.964323 1281.840731 1608.786883 1509.794931 1480.374373 2234.835591 1731.386702 1537.15497 0.984521692 0.824084302 0.769580391 0.833904685 1.04660032 0.982200858 0.963061241 1.453877868 1.126357938 1 10.5860469 -4.261270734 7.162087428 0.957041986 1.460564919 0.680439522 0.103877204 0.04673936 19.52409639 0.013893908 0.113008123 5.48E-05 4.261270734 0.503522932 SEDMPFS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 SEDMPFSPK 9 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 SEDMPFS(1)PK;SEDMPFS(1)PK;SEDMPFS(1)PK;SEDMPFS(1)PK ;;; 144.17 0.00069331 310458000 22250.9 22390.4 20884.2 17560.8 20544.4 20849 21110 18580.5 22578.1 22002.5 TRUE FALSE FALSE 24591.35175 23115.86365 23730.19002 17900.71468 18970.29251 19072.54791 18734.64724 18105.23771 22420.97716 22951.13545 1.071465584 1.007177344 1.033944053 0.77994898 0.826551373 0.831006725 0.816284113 0.788860218 0.976900564 1 14.48627791 -6.266108906 24.99739174 1.032202778 0.81121091 0.928192077 0.028975908 70.96973401 379922.3059 0.004664314 0.007272476 5.42E-07 6.266108906 -0.220991868 SEDPPGQEAGS(ph)EEEGSSASGLAK ddPTM_HeLa_SAHA_4h_R1 2 SEDPPGQEAGSEEEGSSASGLAK 23 0 K7EIG1;I3L2B0;A0A494C0R8;O75153 K7EIG1 CLUH Clustered mitochondria protein homolog 1 0 SEDPPGQEAGS(1)EEEGSSASGLAK;SEDPPGQEAGS(0.98)EEEGS(0.015)S(0.005)AS(0.001)GLAK ; 114.84 2.07E-05 16132900 4777.8 4433.8 4133.5 4197.8 5137.2 5636.6 4765.8 4936 4676.5 4431.9 TRUE FALSE FALSE 5280.350925 4577.458029 4696.791854 4279.054489 4743.588846 5156.329969 4229.539641 4809.744267 4643.955856 4622.980898 1.142196137 0.990152919 1.015966096 0.925605055 1.026088783 1.115369084 0.914894466 1.040398906 1.004537107 1 12.17460769 -7.189310142 24.99995964 1.067149029 1.003205693 0.070113706 0.065347438 214.8504672 74466.54693 0.012018122 0.014719131 6.47E-08 7.189310142 -0.063943336 SEDPPT(ph)TPIR ddPTM_HeLa_SAHA_4h_R1 1 SEDPPTTPIR 10 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0;H7C151 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 SEDPPT(0.698)T(0.302)PIR 108.47 0.010725 13492000 4026.1 4619.7 3812.6 3573.6 4341.8 5295.1 4701.6 3963.8 4812.5 4644 TRUE FALSE FALSE 4449.58367 4769.381311 4332.161273 3642.772196 4009.132222 4843.927691 4172.563594 3862.411736 4779.009421 4844.225567 0.918533542 0.9845498 0.894293879 0.751982364 0.827610557 0.999938509 0.861347915 0.79732285 0.986537343 1 12.24205033 -6.584977139 5.383423957 0.961776949 0.852730605 0.458407848 0.063366156 0.163100246 9.390764547 0.010737869 0.015328193 2.60E-07 6.584977139 -0.109046345 SEDPPTT(ph)PIR ddPTM_HeLa_SAHA_4h_R1 2 SEDPPTTPIR 10 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0;H7C151 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 SEDPPT(0.077)T(0.923)PIR;SEDPPT(0.02)T(0.98)PIR ; 134.84 0.0024005 186214000 13226.6 16152.9 12280.5 13099.7 15026.6 18688.6 15761.2 14520.5 16035.3 13986.3 TRUE FALSE FALSE 14617.83447 16676.26456 13954.02259 13353.26364 13875.26515 17096.22614 13987.70829 14149.08664 15923.70904 14589.31784 1.001954624 1.143046216 0.956454766 0.915276765 0.951056472 1.17183177 0.958763696 0.9698251 1.091463577 1 13.83262481 SEEDNEIES(ph)EEEVQPK ddPTM_HeLa_SAHA_4h_R1 2 SEEDNEIESEEEVQPK 16 0 A0A087WWJ1;A0A494C0M1;P52701-2;P52701;C9J7Y7;P52701-3 A0A087WWJ1 MSH6 DNA mismatch repair protein Msh6 1 0 SEEDNEIES(1)EEEVQPK;SEEDNEIES(1)EEEVQPK ; 199.08 4.60E-15 20289700 4554.3 5595.7 4173.6 4961.4 5366.8 6994.3 5103.5 4907.7 7348.4 5853.6 TRUE FALSE FALSE 5033.34217 5777.004351 4742.356473 5057.435071 4955.596943 6398.346291 4529.240748 4782.16814 7297.261886 6105.977343 0.824330306 0.946122795 0.77667443 0.828276095 0.811597663 1.047882416 0.741771627 0.783194544 1.19510137 1 12.57600652 -9.436528951 0.65317923 1.027841543 0.843470243 0.425240904 0.105446004 1.106071014 0.636625133 0.122702451 0.017662443 3.66E-10 9.436528951 -0.1843713 SEEEQS(ph)S(ph)S(ph)SVKK ddPTM_HeLa_SAHA_4h_R1 1 SEEEQSSSSVKK 12 1 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 3 0 S(0.003)EEEQS(0.511)S(0.988)S(0.989)S(0.51)VKK 59.931 0.0083279 0 446.89 340.7 293.95 388.22 396.21 594.13 449.27 385.61 428.33 520.84 TRUE FALSE FALSE 493.8959406 351.7389035 334.0079752 395.7345595 365.8524754 543.5067815 398.7169572 375.7466546 425.3492167 543.2959613 0.909073462 0.647416746 0.614780891 0.728395916 0.673394432 1.000388039 0.733885369 0.691605831 0.782905169 1 9.085594512 -7.429002657 4.197709 0.961594406 0.732007857 0.275290053 0.114988347 0.140420315 4.216796256 0.018595378 0.02092551 3.72E-08 7.429002657 -0.229586549 SEEEQS(ph)S(ph)SSMKK ddPTM_HeLa_SAHA_4h_R1 1 SEEEQSSSSMKK 12 1 A0A0G2JNQ3;B2RXH8;O60812 A0A0G2JNQ3 HNRNPCL2;HNRNPCL1 Heterogeneous nuclear ribonucleoprotein C-like 2;Heterogeneous nuclear ribonucleoprotein C-like 1 2 0 S(0.001)EEEQS(0.761)S(0.48)S(0.42)S(0.339)MKK 71.806 0.017253 11419000 1004.9 1380.8 780.87 1268.7 1293.4 1486.1 1155 1129.3 1394.6 1496.5 TRUE FALSE FALSE 1110.599993 1425.538826 887.282897 1293.257523 1194.299971 1359.475919 1025.03636 1100.414141 1384.894865 1561.021439 0.711457233 0.913208999 0.568398918 0.828468778 0.765075957 0.870888692 0.65664464 0.704932113 0.887172226 1 10.60827464 -9.376338005 0.754226909 1.027079123 0.750204011 0.338247407 0.102142747 0.570846661 0.486948499 0.102035178 0.018132977 4.20E-10 9.376338005 -0.276875112 SEEEQSSS(ph)S(ph)MKK ddPTM_HeLa_SAHA_4h_R1 1 SEEEQSSSSMKK 12 1 A0A0G2JNQ3;B2RXH8;O60812 A0A0G2JNQ3 HNRNPCL2;HNRNPCL1 Heterogeneous nuclear ribonucleoprotein C-like 2;Heterogeneous nuclear ribonucleoprotein C-like 1 2 0 SEEEQS(0.002)S(0.43)S(0.62)S(0.947)MKK 99.732 0.0036848 2425200 1020.2 857.27 748.78 929.73 1013 1136.3 1095 970.73 1039.1 977.11 TRUE FALSE FALSE 1127.509317 885.0461105 850.8198389 947.7262686 935.3841588 1039.480847 971.7877181 945.9001322 1031.868818 1019.237994 1.106227715 0.868340972 0.834760717 0.92983805 0.917728896 1.019860772 0.953445342 0.928046382 1.012392419 1 9.993275247 -7.261198268 24.99999875 1.050163088 0.923526814 0.504475179 0.053179254 14.09499154 1461487.757 0.0106035 0.012552799 5.48E-08 7.261198268 -0.126636274 SEEIS(ph)ESESEETNAPK ddPTM_HeLa_SAHA_4h_R1 3 SEEISESESEETNAPK 16 0 P54259 P54259 ATN1 Atrophin-1 1 0 S(0.001)EEIS(0.999)ESESEETNAPK;SEEIS(0.636)ES(0.364)ESEETNAPK;S(0.001)EEIS(0.991)ES(0.008)ESEETNAPK ;; 268.5 7.35E-59 22782200 5445.59 5143.16 4787.8 4891.9 5295.76 6214.1 6243.63 5640.06 6630.58 5657.75 TRUE FALSE FALSE 6018.382141 5309.801759 5440.25645 4986.589798 4890.000013 5684.62372 5541.08032 5495.795432 6584.437254 5901.683291 1.019773825 0.899709709 0.921814368 0.844943646 0.828577166 0.963220736 0.938898285 0.931225069 1.115688004 1 12.52691079 -7.259137877 24.80549611 1.009337641 0.903177733 0.588948243 0.051468519 94.87755295 1022586.742 0.006963757 0.008317286 5.51E-08 7.259137877 -0.106159908 SEENIS(ph)PDTIR ddPTM_HeLa_SAHA_4h_R1 1 SEENISPDTIR 11 0 Q8N157;E9PML3;Q8N157-3;Q8N157-2 Q8N157 AHI1 Jouberin 1 0 SEENIS(0.99)PDT(0.01)IR 109.6 0.0042643 4987500 770.62 762.17 575.33 697.3 871.4 967.04 807.81 988.43 830.89 810.43 TRUE FALSE FALSE 851.6773473 786.8648081 653.7329762 710.7972498 804.6335203 884.6427516 716.9130928 963.1473918 825.1077688 845.3716034 1.007459139 0.930791624 0.773308417 0.840810416 0.951810443 1.046454302 0.848044919 1.139318364 0.976029672 1 9.723441842 -7.246699494 7.79415403 1.00354497 0.924994947 0.068969196 0.099114309 0.285276065 109.5200774 0.016118699 0.019390529 5.67E-08 7.246699494 -0.078550022 SEEPAGQILSHLS(ph)SELK ddPTM_HeLa_SAHA_4h_R1 1 SEEPAGQILSHLSSELK 17 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SEEPAGQILSHLS(0.58)S(0.42)ELK 126.26 0.00025066 3555800 545.69 930.76 565.02 1016.9 1100.4 1101.9 708.02 825.67 1048.5 671.26 TRUE FALSE FALSE 603.0881779 960.9172347 642.0179831 1036.58357 1016.08759 1008.011921 628.3517262 804.550557 1041.203403 700.2013037 0.861306848 1.372344253 0.916904867 1.480407941 1.451136387 1.439603034 0.897387255 1.149027505 1.487005805 1 9.451625938 -7.2679761 24.70177679 0.934506008 1.242533586 0 0.265441821 379.3713 1433612.737 0.034762601 0.040245969 5.40E-08 7.2679761 0.308027579 SEEPAGQILSHLSS(ph)ELK ddPTM_HeLa_SAHA_4h_R1 2 SEEPAGQILSHLSSELK 17 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SEEPAGQILSHLS(0.325)S(0.675)ELK;SEEPAGQILS(0.017)HLS(0.366)S(0.618)ELK ; 99.409 0.0023892 4950500 1268.11 1591.99 1317.26 1592.89 1531.61 2033.6 1764.63 1414.9 1893.9 1424.9 TRUE FALSE FALSE 1401.495628 1643.571521 1496.769333 1623.722689 1414.258373 1860.325839 1566.069188 1378.708907 1880.720196 1486.334412 0.942920797 1.105788514 1.007020574 1.092434297 0.951507521 1.251619975 1.053645246 0.927589979 1.265341218 1 10.53754303 -7.268480533 24.83327331 0.973045932 1.058655613 0 0.126102551 628.199035 2215575.864 0.014035776 0.016235339 5.39E-08 7.268480533 0.085609681 SEES(ph)PVYSNSSVR ddPTM_HeLa_SAHA_4h_R1 1 SEESPVYSNSSVR 13 0 H0Y8J2;Q03188 H0Y8J2 CENPC Centromere protein C 1 0 S(0.336)EES(0.66)PVYS(0.003)NSSVR 185.66 3.21E-07 16983000 1583.1 1514.2 1668.4 1450 1679.8 1668.6 1657.9 1764.1 2127.4 1746.8 TRUE FALSE FALSE 1749.617722 1563.261074 1895.760863 1478.066847 1551.094087 1526.425893 1471.348729 1718.976876 2112.59525 1822.113097 0.96021357 0.857938553 1.040418878 0.811182824 0.851261148 0.837722914 0.807495831 0.943397465 1.159420485 1 10.83139679 -6.79338286 0.644867505 0.9900169 0.846243038 0.424577741 0.083011922 0.452017132 0.389097749 0.015108117 0.025474742 1.61E-07 6.79338286 -0.143773862 SEETLDEGPPK ddPTM_HeLa_SAHA_4h_R1 1 SEETLDEGPPK 11 0 Q00688 Q00688 FKBP3 Peptidyl-prolyl cis-trans isomerase FKBP3 0 0 113.93 0.019222 2599300 1130.1 1225.9 886.55 1060.5 1302.9 1562.6 1293.2 1445.6 1941.2 1438.2 FALSE FALSE TRUE 1248.969103 1265.619964 1007.364417 1081.027511 1203.072083 1429.457689 1147.685732 1408.623645 1927.691031 1500.20784 0.832530713 0.843629749 0.671483237 0.720585163 0.801936939 0.952839767 0.765017821 0.938952329 1.284949311 1 10.55094667 -8.816909762 0.758384951 0.997140623 0.81040438 0.43938342 0.125049985 0.494341863 0.543856599 0.050569769 0.018123143 1.52E-09 8.816909762 -0.186736242 SEETLLT(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 SEETLLTPER 10 0 H3BQ41;Q6P4F7-3;Q6P4F7 H3BQ41 ARHGAP11A Rho GTPase-activating protein 11A 1 0 SEETLLT(1)PER 110.66 0.009546 8390900 1556.9 1377.8 1391.2 1446.3 1877.9 1893.8 1724.8 1885.4 1820.1 1459.8 TRUE FALSE FALSE 1720.661885 1422.441624 1580.785491 1474.295228 1734.015708 1732.437586 1530.720965 1837.174198 1807.433776 1522.739122 1.129978117 0.934133499 1.038119707 0.968186347 1.138747723 1.137711352 1.005241766 1.20649307 1.186962198 1 10.57245308 -4.249461605 23.83016629 1.053715432 1.206493251 0.226299218 0.080591464 1005.30502 2000014.344 0.010262392 0.216835182 5.63E-05 4.249461605 0.152777819 SEEWADNHLPLTDAELAR ddPTM_HeLa_SAHA_4h_R1 1 SEEWADNHLPLTDAELAR 18 0 O60664-4;O60664-3;O60664;K7ERZ3;O60664-2 O60664-4 PLIN3 Perilipin-3 0 0 101.5 0.0020935 7097900 1763.5 1900.2 1902.4 1735.1 2142.6 2060.4 1783.8 1871.2 1908.5 1918.2 FALSE FALSE TRUE 1948.993021 1961.767727 2161.649165 1768.685369 1978.434451 1884.842329 1583.082129 1823.337413 1895.218593 2000.902989 0.974056729 0.980441199 1.080336816 0.883943589 0.988770801 0.941995858 0.791183849 0.911257279 0.947181649 1 10.96643551 -4.946964589 5.471460881 0.985500352 0.852034828 0.46985852 0.053333716 0.102281463 6.596927557 0.006623778 0.020382271 1.13E-05 4.946964589 -0.133465524 SEGDNYSATLLEPAASS(ph)LSPDHKNMEIEVSVAECK ddPTM_HeLa_SAHA_4h_R1 1 SEGDNYSATLLEPAASSLSPDHKNMEIEVSVAECK 35 1 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 SEGDNYSATLLEPAAS(0.084)S(0.452)LS(0.452)PDHKNMEIEVS(0.012)VAECK 65.134 3.05E-05 2765800 220.51 125.25 181.38 175.12 148.11 234.57 157.28 268.05 139.52 253.65 TRUE FALSE FALSE 243.7042535 129.3081822 206.0975218 178.5097008 136.7618438 214.5833163 139.5824405 261.1936691 138.549069 264.5860928 0.921077336 0.488718741 0.778943139 0.674675297 0.516889767 0.811015099 0.527550178 0.987178375 0.523644563 1 8.047593422 -7.420036499 6.803960932 0.965543054 0.679615445 0 0.201101683 0.149622993 8.565371018 0.022386476 0.025476288 3.80E-08 7.420036499 -0.285927608 SEGDNYSATLLEPAASSLS(ph)PDHK ddPTM_HeLa_SAHA_4h_R1 4 SEGDNYSATLLEPAASSLSPDHK 23 0 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 SEGDNYSATLLEPAAS(0.016)S(0.352)LS(0.632)PDHK;SEGDNYSATLLEPAAS(0.06)S(0.277)LS(0.663)PDHK;SEGDNYSATLLEPAAS(0.001)S(0.072)LS(0.927)PDHK;SEGDNYSATLLEPAAS(0.002)S(0.02)LS(0.978)PDHK ;;; 202.11 7.90E-22 121544000 7064.1 10894.8 5715.9 8595.9 11611 12390.1 10229.6 9332.3 13623.1 9031.9 TRUE FALSE FALSE 7807.134449 11247.79867 6494.833085 8762.286074 10721.36769 11334.39378 9078.538485 9093.593279 13528.29574 9421.30941 0.828667663 1.193867877 0.689376901 0.930049709 1.137991252 1.203059286 0.963617486 0.965215437 1.435925215 1 13.20171187 -5.809447788 10.63024334 0.921584003 1.069678613 0 0.212620539 0.611075884 132.595664 0.020436333 0.03711056 1.55E-06 5.809447788 0.14809461 SEGEGEAASADDGSLNT(ph)SGAGPK ddPTM_HeLa_SAHA_4h_R1 2 SEGEGEAASADDGSLNTSGAGPK 23 0 M0QXG9;M0R3F4;M0R2A4;M0R2K3;M0R193;M0R0I0;J3KQS6;Q9NWV8-3;Q9NWV8;M0R2I2 M0QXG9 BABAM1 BRISC and BRCA1-A complex member 1 1 0 SEGEGEAASADDGSLNT(0.5)S(0.5)GAGPK;SEGEGEAASADDGSLNT(0.997)S(0.003)GAGPK ; 165.17 7.03E-08 9404600 4718.8 4201.9 4001.7 4021.3 4862.9 5019.4 4977.3 4674.2 4135.7 4319.2 TRUE FALSE FALSE 5215.145035 4338.044317 4547.030836 4099.138076 4490.305653 4591.718882 4417.241104 4554.640732 4106.919327 4505.42185 1.157526467 0.962849753 1.009235314 0.909823367 0.996644888 1.01915404 0.98042786 1.010924367 0.911550453 1 12.13744648 -7.232232532 24.99229718 1.074387506 0.983940927 0 0.06905169 638.9627155 546761.0136 0.010600668 0.012982251 5.86E-08 7.232232532 -0.09044658 SEGGGTGESSQGGTSK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 SEGGGTGESSQGGTSKR 17 1 F5H0R1;Q9H6E5 F5H0R1 TUT1 Speckle targeted PIP5K1A-regulated poly(A) polymerase 0 1 ; SEGGGTGESSQGGTSK(1)R;SEGGGTGESSQGGTSK(1)R 222.16 4.35E-45 888390 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 SEGPSLS(ph)PSGK ddPTM_HeLa_SAHA_4h_R1 1 SEGPSLSPSGK 11 0 A8MU93 A8MU93 C17orf100 Uncharacterized protein C17orf100 1 0 SEGPS(0.001)LS(0.499)PS(0.499)GK 100.04 0.0037071 0 1855.1 1818.7 1751.3 1844.6 1880.2 2645.2 1848.5 1957.8 2011.8 2361 TRUE FALSE FALSE 2050.22793 1877.627073 1989.958044 1880.3049 1736.139482 2419.814079 1640.501915 1907.722311 1997.79972 2462.794264 0.83248039 0.762397046 0.808008234 0.763484359 0.704947022 0.982548203 0.666114072 0.774617002 0.81119229 1 11.2660804 -8.690199681 0.517479604 1.016970428 0.774354989 0.083486267 0.097537325 0.608443234 0.305582779 0.069551908 0.021521332 2.04E-09 8.690199681 -0.242615439 SEGSSSSK(ac)LSSSMYSSQGSSGSSQSK ddPTM_HeLa_SAHA_4h_R1 1 SEGSSSSKLSSSMYSSQGSSGSSQSK 26 1 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 0 1 SEGSSSSK(1)LSSSMYSSQGSSGSSQSK 131.5 7.03E-13 1070000 0 0 0 203.9 240.52 304.51 195.84 297.51 149.66 214.74 FALSE TRUE FALSE 0 0 0 207.8467793 222.0914096 278.5640349 173.8035678 289.900125 148.6185039 223.9984923 0 0 0 0.927893653 0.99148618 1.243597812 0.775914007 1.294205698 0.663479929 1 7.807345212 -6.079976003 7.234680431 0.431961113 1.05419547 0.527437585 0.33335165 0.259495022 20.52943285 0.069058638 0.115149339 8.32E-07 6.079976003 0.622234357 SEGVVAVLLTK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 SEGVVAVLLTKK 12 1 A0A0U1RQF0;P49327 A0A0U1RQF0 FASN Fatty acid synthase;[Acyl-carrier-protein] S-acetyltransferase;[Acyl-carrier-protein] S-malonyltransferase;3-oxoacyl-[acyl-carrier-protein] synthase;3-oxoacyl-[acyl-carrier-protein] reductase;3-hydroxyacyl-[acyl-carrier-protein] dehydratase;Enoyl-[acyl-carrier-protein] reductase;Oleoyl-[acyl-carrier-protein] hydrolase 0 1 SEGVVAVLLTK(1)K 101.93 0.0020838 0 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 SEIDLFNIR ddPTM_HeLa_SAHA_4h_R1 1 SEIDLFNIR 9 0 P08758;D6RBL5;D6RBE9 P08758 ANXA5 Annexin A5;Annexin 0 0 107.57 0.009248 482230 570.1 529.99 533.24 758.98 561.82 390.35 603.11 353.61 300.03 460.02 FALSE FALSE TRUE 630.0657337 547.1620237 605.9071702 773.6711554 518.773473 357.089984 535.2464755 344.5651682 297.9420668 479.8537135 1.313037111 1.140268395 1.262691427 1.612306279 1.081107551 0.744164261 1.115436768 0.71806294 0.620901867 1 8.906450848 -5.51391652 24.98655368 1.195536792 0.889475001 0.201786182 0.257888238 382.1170408 1065335.449 0.029372049 0.061323106 3.06E-06 5.51391652 -0.306061791 SEIDLLDIR ddPTM_HeLa_SAHA_4h_R1 2 SEIDLLDIR 9 0 P12429;D6RA82 P12429 ANXA3 Annexin A3;Annexin 0 0 ; ; 199.7 9.45E-10 17167700 7454.7 7511.6 7432.5 8093.5 8312.5 8006.3 8784 6169 7668.8 7344.8 FALSE FALSE TRUE 8238.819549 7754.980769 8445.362393 8250.161396 7675.598046 7324.118198 7795.601202 6011.205913 7615.432196 7661.470273 1.075357504 1.012205294 1.102316147 1.076837879 1.001844003 0.955967711 1.017507205 0.784602132 0.993990961 1 12.90340556 -3.521436391 1.08186808 1.039117347 6.62E-11 0.732196503 0.043555607 2.863564879 0.836892939 0.006766903 5.034032404 0.000300998 3.521436391 -1.039117347 SEIDMNDIK ddPTM_HeLa_SAHA_4h_R1 2 SEIDMNDIK 9 0 P04083 P04083 ANXA1 Annexin A1 0 0 ; ; 180.44 3.63E-05 6359400 2580.8 1985.5 2071.78 2654 2279.8 2326.74 2813.9 2493.4 2290.7 2571.8 FALSE FALSE TRUE 2852.260385 2049.831503 2354.111389 2705.372008 2105.122217 2128.488662 2497.272566 2429.622438 2274.758832 2682.682884 1.063211907 0.764097581 0.877521306 1.008457624 0.784707812 0.793417916 0.930886234 0.905668893 0.847941755 1 11.38946081 -7.278012432 24.95320214 1.029850071 0.868817805 0.126062747 0.091436409 459.653084 692074.6323 0.012397906 0.014198555 5.27E-08 7.278012432 -0.161032266 SEIPS(ph)PQSQLLEDAEANLVGR ddPTM_HeLa_SAHA_4h_R1 3 SEIPSPQSQLLEDAEANLVGR 21 0 Q9ULJ8-3;Q9ULJ8;Q9ULJ8-4;Q9ULJ8-5 Q9ULJ8-3 PPP1R9A Neurabin-1 1 0 S(0.029)EIPS(0.962)PQS(0.009)QLLEDAEANLVGR;S(0.003)EIPS(0.979)PQS(0.018)QLLEDAEANLVGR;SEIPS(0.999)PQSQLLEDAEANLVGR ;; 209.22 9.07E-22 6317000 2572.73 2310.86 2123.18 2147.89 2973.53 3071.78 2894.86 2750.33 3331.43 2488.86 TRUE FALSE FALSE 2843.341546 2385.73338 2412.515913 2189.465517 2745.698774 2810.047063 2569.122734 2679.980541 3308.246307 2596.166935 1.095207518 0.918944521 0.929260704 0.843345429 1.057597159 1.082383041 0.989583027 1.032283597 1.274281042 1 11.34216744 -10.24275585 4.252598046 0.999069227 1.018939053 0 0.116761335 1.826100742 58.36769086 0.089980094 0.012510039 5.72E-11 10.24275585 0.019869826 SEK(ac)AAPR ddPTM_HeLa_SAHA_4h_R1 1 SEKAAPR 7 1 Q92917 Q92917 GPKOW G patch domain and KOW motifs-containing protein 0 1 SEK(1)AAPR 105.14 0.010543 568680 376.91 307.49 377.04 450 334.11 574.77 689.38 488.64 276.81 239.79 FALSE TRUE FALSE 416.5551231 317.4528778 428.4210477 458.7104007 308.510564 525.7963624 611.8091481 476.1412963 274.8836567 250.1285204 1.665364359 1.26915906 1.71280367 1.833898829 1.233408183 2.102104796 2.445979159 1.903586587 1.098969667 1 7.966525757 -1 0.06311097 5.11E-16 5.398005626 0.612158536 0.277079821 144.1905487 0.684435041 11.55741628 71.08093707 0.1 1 5.398005626 SEKTKNCGKSFT(ph)NFS(ph)QLS(ph)AHAK ddPTM_HeLa_SAHA_4h_R1 1 SEKTKNCGKSFTNFSQLSAHAK 22 3 K7EIE6;Q6V9R5-2;Q6V9R5 K7EIE6 ZNF562 Zinc finger protein 562 3 0 S(0.001)EKT(0.007)KNCGKS(0.025)FT(0.974)NFS(0.995)QLS(0.998)AHAK 59.585 0.0050929 0 0 0 74.315 0 153.97 226.69 66.93 109.97 0 0 TRUE FALSE FALSE 0 0 84.44226118 0 142.1728519 207.3747367 59.39886025 107.1571266 0 0 0 SELCSS(ph)PLGK ddPTM_HeLa_SAHA_4h_R1 4 SELCSSPLGK 10 0 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 SELCS(0.042)S(0.958)PLGK;SELCS(0.033)S(0.967)PLGK;SELCS(0.185)S(0.815)PLGK;S(0.001)ELCS(0.185)S(0.814)PLGK ;;; 172.61 7.45E-05 160427000 12398.8 16860.3 12096.3 15122.6 17696.8 18967.7 16529.4 16083 19096.3 14560.4 TRUE FALSE FALSE 13702.96267 17406.58478 13744.72077 15415.31979 16340.87501 17351.54525 14669.46841 15671.62015 18963.40729 15188.1701 0.902212879 1.146062012 0.904962262 1.014955698 1.075894917 1.14243817 0.965848309 1.031830697 1.248564321 1 13.89066044 -6.541359656 0.988717509 0.959829621 1.049119196 0 0.119874517 0.66853751 1.305256465 0.015278384 0.027248529 2.88E-07 6.541359656 0.089289575 SELGNQS(ph)PSTSSR ddPTM_HeLa_SAHA_4h_R1 2 SELGNQSPSTSSR 13 0 A0A0A0MSK5;J3KN66;Q5JTV8;Q5JTV8-3;H0YD16 A0A0A0MSK5 TOR1AIP1 Torsin-1A-interacting protein 1 1 0 SELGNQS(0.998)PS(0.002)TSSR;SELGNQS(1)PSTSSR ; 217.01 3.77E-16 27296000 3597.5 7205.1 3927.8 3339.1 6085.2 5381.4 5517.1 5062 4666.5 4551.8 TRUE FALSE FALSE 3975.901556 7438.549967 4463.060129 3403.733109 5618.953291 4922.874445 4896.301388 4932.52137 4634.025447 4748.050374 0.837375605 1.566653549 0.939977418 0.716869629 1.183423268 1.03682018 1.031223555 1.038851946 0.975984895 1 12.21311953 SELISCIENGNYAK(ac)AAR ddPTM_HeLa_SAHA_4h_R1 1 SELISCIENGNYAKAAR 17 1 O95696-2;O95696 O95696-2 BRD1 Bromodomain-containing protein 1 0 1 SELISCIENGNYAK(1)AAR 227.92 4.80E-45 1071100 0 182.05 131.16 252.16 219.11 244.37 235.59 219.09 141.94 184.8 FALSE TRUE FALSE 0 187.9485394 149.0338017 257.0409214 202.3218391 223.5483012 209.0807932 213.485995 140.952228 192.7676324 0 0.975000508 0.773126691 1.333423658 1.049563335 1.159677579 1.084626037 1.107478431 0.731202776 1 7.590719019 -6.791168679 2.210802459 0.532901802 1.122925848 0.384759031 0.274017122 0.269117196 2.697653749 0.065211084 0.091834596 1.62E-07 6.791168679 0.590024046 SELISS(ph)TFK ddPTM_HeLa_SAHA_4h_R1 1 SELISSTFK 9 0 H0YHG7;Q92730 H0YHG7 RND1 Rho-related GTP-binding protein Rho6 1 0 SELIS(0.046)S(0.477)T(0.477)FK 87.258 0.020309 2131000 1745.5 923.12 291.71 548.43 2249.4 1132.8 9142.7 5275.2 711.49 678.57 TRUE FALSE FALSE 1929.099699 953.0296937 331.4627196 559.0456557 2077.051458 1036.279067 8113.939334 5140.268022 706.5386832 707.8264735 2.725385064 1.346417137 0.468282456 0.789806085 2.934407705 1.464029823 11.46317584 7.262045451 0.998180641 1 9.467251911 -4.770105629 24.99987078 1.689368702 9.362610867 0.86984246 1.219420183 38.5018121 111069.0038 0.16529674 0.507198482 1.70E-05 4.770105629 7.673242165 SELSQDAEPAGS(ph)QETK ddPTM_HeLa_SAHA_4h_R1 2 SELSQDAEPAGSQETK 16 0 Q9BVJ6-3;Q9BVJ6;X6RJY0;Q9BVJ6-2 Q9BVJ6-3 UTP14A U3 small nucleolar RNA-associated protein 14 homolog A 1 0 SELSQDAEPAGS(0.995)QET(0.005)K;SELSQDAEPAGS(0.992)QET(0.008)K ; 156.17 1.48E-05 34727000 5419.4 6551.2 5439.5 6593.7 6653.5 7747.4 6788.7 6578.1 8334.3 6628.5 TRUE FALSE FALSE 5989.437357 6763.463178 6180.766732 6721.330598 6143.710267 7087.277934 6024.817609 6409.841727 8276.300928 6914.287074 0.86624077 0.978186631 0.893912368 0.972093077 0.888552963 1.025019334 0.871357747 0.927043043 1.196985436 1 12.75536479 -9.639194929 1.476483396 0.999861419 0.92031921 0.281108338 0.080273489 0.435776228 1.712214765 0.033695441 0.007707376 2.30E-10 9.639194929 -0.079542209 SEMEVQDAELK ddPTM_HeLa_SAHA_4h_R1 4 SEMEVQDAELK 11 0 Q9UQ80;Q9UQ80-2 Q9UQ80 PA2G4 Proliferation-associated protein 2G4 0 0 ;;; ;;; 214.82 1.32E-14 29121500 5535 6479.9 4620.49 6370.19 6458.27 7118.1 6202.74 5810.2 7132.7 5972.37 FALSE FALSE TRUE 6117.196695 6689.853012 5250.146315 6493.494239 5963.438748 6511.597835 5504.79137 5661.583497 7083.06296 6229.868099 0.98191432 1.073835418 0.842737957 1.042316488 0.957233549 1.045222424 0.883612828 0.908780637 1.136952315 1 12.6049859 -4.744814854 24.999559 0.990618192 0.896196669 0.235691752 0.075800206 210.3103207 316254.2862 0.007273717 0.027064517 1.80E-05 4.744814854 -0.094421523 SEMT(ph)PEELQK ddPTM_HeLa_SAHA_4h_R1 2 SEMTPEELQK 10 0 K7ERG4;P62316 K7ERG4 SNRPD2 Small nuclear ribonucleoprotein Sm D2 1 0 SEMT(1)PEELQK;S(0.014)EMT(0.986)PEELQK ; 114.86 0.0072858 6047900 1971.66 2915.8 2015.1 2776.6 2932.6 4005.5 2964.2 2369.33 4478.3 2724.45 TRUE FALSE FALSE 2179.048245 3010.273833 2289.707334 2830.345108 2707.904822 3664.208866 2630.660415 2308.725969 4447.135146 2841.914373 0.766753659 1.059241567 0.80569188 0.995929059 0.952845324 1.289345274 0.925664911 0.812384072 1.564837839 1 11.47264737 -6.104491761 9.119329422 0.896725793 1.006584362 0 0.252138262 0.626162916 50.32647676 0.022332972 0.037088354 7.86E-07 6.104491761 0.109858569 SEMTAS(ph)PLVGPER ddPTM_HeLa_SAHA_4h_R1 2 SEMTASPLVGPER 13 0 B4DIB3;A0A087X0I6;Q9P0L2-2;Q9P0L2-3;Q9P0L2 B4DIB3 MARK1 Serine/threonine-protein kinase MARK1 1 0 SEMT(0.026)AS(0.974)PLVGPER;SEMT(0.009)AS(0.991)PLVGPER ; 165.51 4.18E-05 5991700 1208.03 904.5 1021.31 1662.24 1299.79 1393.94 1142.53 1219.12 1502.59 1127.79 TRUE FALSE FALSE 1335.096138 933.8063935 1160.488808 1694.415059 1200.200371 1275.16847 1013.969517 1187.936676 1492.133354 1176.414546 1.134885778 0.793773246 0.986462478 1.440321411 1.020218914 1.083944834 0.861915148 1.009794277 1.268373771 1 10.20018081 -4.77737985 24.79521838 1.065051486 0.935854699 0.104341275 0.168625374 341.8088772 531682.5176 0.021737051 0.065525456 1.67E-05 4.77737985 -0.129196787 SEPAVVS(ph)LEYGVAR ddPTM_HeLa_SAHA_4h_R1 2 SEPAVVSLEYGVAR 14 0 Q9Y217 Q9Y217 MTMR6 Myotubularin-related protein 6 1 0 SEPAVVS(1)LEYGVAR;SEPAVVS(1)LEYGVAR ; 141.59 0.00018862 6140100 1219.92 1754.6 1536.99 1258.5 1260.69 1469.33 1271.88 1268.44 1324.52 1553.73 TRUE FALSE FALSE 1348.236783 1811.450191 1746.442993 1282.860087 1164.096205 1344.134818 1128.764715 1235.995141 1315.302557 1620.718904 0.831875768 1.117683138 1.077573038 0.791537684 0.718259164 0.829344814 0.696459276 0.762621537 0.811555017 1 10.66241818 -6.08370109 7.38114325 0.947063672 0.753415765 0.541383896 0.095360904 0.189746645 14.74162934 0.015376743 0.02562144 8.25E-07 6.08370109 -0.193647907 SEPHS(ph)PGIPEIFR ddPTM_HeLa_SAHA_4h_R1 4 SEPHSPGIPEIFR 13 0 Q9UJJ2;Q8ND82 Q9UJJ2 ZNF280C Zinc finger protein 280C 1 0 S(0.002)EPHS(0.998)PGIPEIFR;S(0.001)EPHS(0.999)PGIPEIFR;SEPHS(1)PGIPEIFR;S(0.002)EPHS(0.998)PGIPEIFR ;;; 116.87 0.00093151 13284300 5030.69 5933.16 4298.71 6198.03 7233.17 7089.13 7458.11 6270.18 6551.98 5916.45 TRUE FALSE FALSE 5559.841056 6125.398277 4884.515812 6318.001833 6678.966077 6485.096242 6618.903834 6109.797875 6506.384238 6171.537114 0.900884326 0.992523931 0.791458549 1.023732292 1.08222084 1.050807298 1.072488703 0.989996133 1.054256682 1 12.59141414 -6.018882716 24.99052224 0.942947392 1.050986769 0.328025601 0.069266552 567.3379559 750849.658 0.009427301 0.015812209 9.57E-07 6.018882716 0.108039377 SEPIPESNDGPVK ddPTM_HeLa_SAHA_4h_R1 2 SEPIPESNDGPVK 13 0 P30101 P30101 PDIA3 Protein disulfide-isomerase A3 0 0 ; ; 165.35 1.31E-12 11692000 4412 3388.1 2758 3659.3 3348.9 4542.3 4254.7 3943 5133.3 3758.9 FALSE FALSE TRUE 4876.074403 3497.876663 3133.845877 3730.131043 3092.308005 4155.270486 3775.949958 3842.143769 5097.576947 3920.964575 1.243590527 0.892095962 0.79925381 0.951329953 0.788660021 1.059757212 0.963015576 0.979897598 1.300082378 1 11.93699289 -7.241192852 24.80668865 1.115028862 0.91784795 0.516778296 0.110711956 561.496029 687963.4506 0.019325358 0.023652546 5.74E-08 7.241192852 -0.197180913 SEPQPEEGS(ph)PAGGQK ddPTM_HeLa_SAHA_4h_R1 2 SEPQPEEGSPAGGQK 15 0 F8WE91;Q9Y6K1-3;Q9Y6K1 F8WE91 DNMT3A DNA (cytosine-5)-methyltransferase 3A 1 0 SEPQPEEGS(1)PAGGQK;SEPQPEEGS(1)PAGGQK ; 216.71 8.95E-18 45871000 7772.5 8044.8 6769.4 8311.8 9048.1 9972.3 9312.8 9027.3 8730.4 7501 TRUE FALSE FALSE 8590.047212 8305.456798 7691.898578 8472.686908 8354.836533 9122.603937 8264.899234 8796.394737 8669.644436 7824.404819 1.097853116 1.061480968 0.983065007 1.082853853 1.067791957 1.165916661 1.056297498 1.124225413 1.108026059 1 12.9337653 -13.52287875 0.208414085 0.605979474 1.096478307 0 0.054826721 45.8200912 0.567150083 7.403413109 0.041911629 3.00E-14 13.52287875 0.490498833 SEPRPPIS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 3 SEPRPPISSPR 11 1 Q6WKZ4;E7EX40;Q6WKZ4-2;Q6WKZ4-3 Q6WKZ4 RAB11FIP1 Rab11 family-interacting protein 1 1 0 SEPRPPIS(0.756)S(0.244)PR;SEPRPPIS(0.5)S(0.5)PR;SEPRPPIS(0.5)S(0.5)PR ;; 85.287 0.011493 52486000 6906.6 8548.1 6957.9 6928.1 8333.6 8916.4 9379.3 7666 8393.5 7896 TRUE FALSE FALSE 7633.067877 8825.064049 7906.086377 7062.203394 7695.081368 8156.672558 8323.916479 7469.91482 8335.08895 8236.435202 0.926744118 1.071466458 0.959891771 0.857434463 0.934273284 0.990315878 1.010621255 0.90693542 1.011977724 1 13.00780435 -6.519858064 24.98257876 0.97445599 0.942563877 0.160256149 0.054078673 292.1572398 2416297.87 0.009017481 0.012895966 3.02E-07 6.519858064 -0.031892113 SEPSPDAPESPSSCS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 1 SEPSPDAPESPSSCSPSK 18 0 Q5SYE7-2;Q5SYE7 Q5SYE7-2 NHSL1 NHS-like protein 1 1 0 SEPSPDAPES(0.003)PS(0.084)S(0.059)CS(0.852)PS(0.002)K 127.2 3.64E-06 0 437.24 334.75 311.15 419.36 349.31 468.02 384.79 465.27 588.6 369.82 TRUE FALSE FALSE 483.2309093 345.5961196 353.5519016 427.4773192 322.5459433 428.142063 341.4924165 453.3690671 584.5038847 385.7647501 1.252656987 0.89587273 0.916496133 1.108129551 0.836120831 1.109852735 0.885234891 1.175247523 1.515182205 1 8.59157751 -7.249737673 24.95381733 1.119310246 0.986026824 0.236259453 0.173311979 926.029818 1974755.161 0.021772986 0.026542261 5.63E-08 7.249737673 -0.133283422 SEPVINNDNPLES(ph)NDEKEGQEATCSRPQIVPEPMDFR ddPTM_HeLa_SAHA_4h_R1 1 SEPVINNDNPLESNDEKEGQEATCSRPQIVPEPMDFR 37 2 P23497;P23497-2;P23497-3;P23497-4;E9PHV6;P23497-7;P23497-6;P23497-5;H7C4B4 P23497 SP100 Nuclear autoantigen Sp-100 1 0 SEPVINNDNPLES(0.9)NDEKEGQEAT(0.05)CS(0.05)RPQIVPEPMDFR 41.921 0.01484 16974000 562.1 579.65 322.53 554.58 583.44 757.15 656.65 754.81 551.06 347.66 TRUE FALSE FALSE 621.224257 598.4310403 366.4827087 565.3146978 538.7369532 692.6365604 582.7620138 735.5030532 547.2251286 362.649324 1.713016448 1.6501645 1.0105705 1.558846689 1.485558962 1.90993479 1.606957397 2.028138492 1.508964976 1 8.502431349 -11.13696571 0.280949555 2.27E-29 1.693420258 0.135306801 0.293665648 9.121978822 0.392649222 5.744756991 0.138996301 7.30E-12 11.13696571 1.693420258 SEPVINNDNPLESNDEKEGQEAT(ph)CSRPQIVPEPMDFR ddPTM_HeLa_SAHA_4h_R1 1 SEPVINNDNPLESNDEKEGQEATCSRPQIVPEPMDFR 37 2 P23497;P23497-2;P23497-3;P23497-4;E9PHV6;P23497-7;P23497-6;P23497-5;H7C4B4 P23497 SP100 Nuclear autoantigen Sp-100 1 0 SEPVINNDNPLES(0.071)NDEKEGQEAT(0.73)CS(0.199)RPQIVPEPMDFR 68.041 4.80E-05 13462000 432.54 463.86 410.36 531.2 501.81 583.58 422.5 425.78 459.76 523.6 TRUE FALSE FALSE 478.0365418 478.8893683 466.2817237 541.4821441 463.3614262 533.8557009 374.959188 414.8891641 456.5604927 546.1749584 0.875244341 0.876805794 0.853722267 0.991407855 0.84837545 0.977444485 0.686518454 0.759626852 0.835923518 1 9.093219359 -1 0.188685803 0.976360595 5.15E-12 0.22410511 0.084026222 40.86302052 0.455184317 0.086093716 11.67277096 0.1 1 -0.976360595 SEPVKEES(ph)SELEQPFAQDTSSVGPDR ddPTM_HeLa_SAHA_4h_R1 4 SEPVKEESSELEQPFAQDTSSVGPDR 26 1 Q15424-2;Q15424;Q15424-4;Q15424-3;Q14151 Q15424-2;Q14151 SAFB;SAFB2 Scaffold attachment factor B1;Scaffold attachment factor B2 1 0 SEPVKEES(0.743)S(0.257)ELEQPFAQDTSSVGPDR;SEPVKEES(0.749)S(0.251)ELEQPFAQDTSSVGPDR;SEPVKEES(0.5)S(0.5)ELEQPFAQDTSSVGPDR;SEPVKEES(0.758)S(0.241)ELEQPFAQDTSSVGPDR ;;; 143 1.39E-09 118982000 6606.56 6898.29 6651.69 7790.4 8302.74 10281.5 8567.6 8688.91 7925.5 7484.92 TRUE FALSE FALSE 7301.468293 7121.799122 7558.147673 7941.194457 7666.585855 9405.458358 7603.551099 8466.660264 7870.3458 7807.631532 0.935170706 0.912158712 0.968046154 1.017106715 0.981934896 1.204649364 0.973861416 1.084408278 1.008032432 1 12.93066925 -5.488850248 24.86309527 0.968085067 1.079100267 0.423262674 0.060078746 414.6565737 302970.5713 0.008217927 0.01836537 3.24E-06 5.488850248 0.1110152 SEPVKEESS(ph)ELEQPFAQDTSSVGPDR ddPTM_HeLa_SAHA_4h_R1 1 SEPVKEESSELEQPFAQDTSSVGPDR 26 1 Q15424-2;Q15424;Q15424-4;Q15424-3;Q14151 Q15424-2;Q14151 SAFB;SAFB2 Scaffold attachment factor B1;Scaffold attachment factor B2 1 0 SEPVKEES(0.413)S(0.587)ELEQPFAQDTSSVGPDR 139.04 1.28E-09 12001000 380.57 444.57 448.31 375.65 390.32 424.86 362.64 478.71 390.39 470.22 TRUE FALSE FALSE 420.6000987 458.9743597 509.4033521 382.9212489 360.4137659 388.6595378 321.8347928 466.4652914 387.6732442 490.4934854 0.857503945 0.935739971 1.038552738 0.780685698 0.734798273 0.792384709 0.656144887 0.951012206 0.79037389 1 8.938090165 -6.187883297 9.416618084 0.938460244 0.77347267 0.351861795 0.094593331 0.320809617 39.43803027 0.012920962 0.021445478 6.49E-07 6.187883297 -0.164987575 SEPVKEESSELEQPFAQDT(ph)SSVGPDRK ddPTM_HeLa_SAHA_4h_R1 2 SEPVKEESSELEQPFAQDTSSVGPDRK 27 2 Q15424-2;Q15424;Q15424-4;Q15424-3;Q14151 Q15424-2;Q14151 SAFB;SAFB2 Scaffold attachment factor B1;Scaffold attachment factor B2 1 0 SEPVKEESSELEQPFAQDT(0.386)S(0.386)S(0.228)VGPDRK;SEPVKEESSELEQPFAQDT(0.546)S(0.113)S(0.341)VGPDRK ; 144.06 7.85E-09 27320000 2259.56 2384.7 2168.21 2473.49 2294.68 2292.9 2372.7 2211.78 1944 2045.65 TRUE FALSE FALSE 2497.230888 2461.965845 2463.682367 2521.367976 2118.862114 2097.53202 2105.717551 2155.20587 1930.471546 2133.847983 1.170294655 1.153768152 1.154572578 1.181606186 0.992977068 0.982980998 0.986817041 1.010009095 0.904690288 1 11.05924169 -5.724685708 22.98960888 1.100905922 0.992010398 0.267809738 0.081312869 69.10508983 43224.65133 0.011209579 0.022418173 1.89E-06 5.724685708 -0.108895524 SEPVKEESSELEQPFAQDTS(ph)SVGPDR ddPTM_HeLa_SAHA_4h_R1 1 SEPVKEESSELEQPFAQDTSSVGPDR 26 1 Q15424-2;Q15424;Q15424-4;Q15424-3;Q14151 Q15424-2;Q14151 SAFB;SAFB2 Scaffold attachment factor B1;Scaffold attachment factor B2 1 0 SEPVKEESSELEQPFAQDT(0.081)S(0.892)S(0.027)VGPDR 182.4 1.90E-14 15774000 1153.6 1176.2 1341.5 1223.4 1351.6 1674.6 1140 1434.8 1034.1 1087.4 TRUE FALSE FALSE 1274.940941 1214.309652 1524.312634 1247.080676 1248.0407 1531.914659 1011.7242 1398.099894 1026.903614 1134.283136 1.124005904 1.070552505 1.343855503 1.099443902 1.100290272 1.350557556 0.891950315 1.232584572 0.9053327 1 10.14756509 -8.66463023 0.655183772 1.000371765 1.153938518 0.249506122 0.131679527 0.978891651 0.825106932 0.075884297 0.028235805 2.16E-09 8.66463023 0.153566753 SEPVKEESSELEQPFAQDTSS(ph)VGPDRK ddPTM_HeLa_SAHA_4h_R1 1 SEPVKEESSELEQPFAQDTSSVGPDRK 27 2 Q15424-2;Q15424;Q15424-4;Q15424-3;Q14151 Q15424-2;Q14151 SAFB;SAFB2 Scaffold attachment factor B1;Scaffold attachment factor B2 1 0 SEPVKEESSELEQPFAQDT(0.005)S(0.065)S(0.93)VGPDRK 140.27 8.90E-10 11744000 2392.8 2128.6 2009 2444 2330.1 2699.7 2562.1 2288.1 2438 2222.4 TRUE FALSE FALSE 2644.485683 2197.568037 2282.776058 2491.307154 2151.568241 2469.670372 2273.805765 2229.573715 2421.033759 2318.21854 1.140740459 0.947955509 0.984711328 1.074664494 0.928112775 1.065331128 0.980841851 0.961761662 1.044350961 1 11.17880086 -7.247329155 24.85529771 1.066460775 0.994761457 0.253145319 0.054593517 864.7119771 1523199.727 0.010837628 0.013236636 5.66E-08 7.247329155 -0.071699318 SEPVS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 SEPVSPSR 8 0 Q14814-4;Q14814;Q14814-6;Q14814-3;Q14814-5;Q14814-2 Q14814-4 MEF2D Myocyte-specific enhancer factor 2D 1 0 SEPVS(0.773)PS(0.227)R 146.11 0.000407 48783000 2138.4 2899.8 1883 2266.6 3125.2 3058.5 2701.4 2205.8 2873.8 2759.3 TRUE FALSE FALSE 2363.326723 2993.755423 2139.605434 2310.473321 2885.747851 2797.898593 2397.431362 2149.37883 2853.800992 2878.266927 0.821093659 1.040124317 0.743365882 0.802730733 1.002599107 0.972077526 0.832942678 0.746761466 0.991499769 1 11.49098468 -9.478612306 1.093250574 1.003589455 0.870290921 0.206923551 0.098247392 0.734473176 1.499741817 0.078397448 0.017188941 3.32E-10 9.478612306 -0.133298534 SEPVSPS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SEPVSPSR 8 0 Q14814-4;Q14814;Q14814-6;Q14814-3;Q14814-5;Q14814-2 Q14814-4 MEF2D Myocyte-specific enhancer factor 2D 1 0 S(0.015)EPVS(0.023)PS(0.962)R 118.23 0.0038753 43318000 2983.1 4301.2 2424.3 3261 4101.1 3992.8 3726.1 2945.6 4941.4 3908.7 TRUE FALSE FALSE 3296.876145 4440.561702 2754.670979 3324.12137 3786.874604 3652.590977 3306.829421 2870.255817 4907.012395 4077.223186 0.808608211 1.089114208 0.67562428 0.81529051 0.928787665 0.895852596 0.811049401 0.703973191 1.203518221 1 11.99337122 -13.52287874 0.234482409 1.92019647 0.817971661 0.368563166 0.125762565 51.74610776 0.671003013 21.99718216 0.073974131 3.00E-14 13.52287874 -1.102224809 SEQSSMSIEFGQES(ph)PEQSLAMDFSR ddPTM_HeLa_SAHA_4h_R1 3 SEQSSMSIEFGQESPEQSLAMDFSR 25 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 SEQSSMSIEFGQES(1)PEQSLAMDFSR;SEQSSMSIEFGQES(0.987)PEQS(0.013)LAMDFSR;SEQSSMSIEFGQES(0.994)PEQS(0.006)LAMDFSR ;; 143.79 2.15E-09 15578700 1287.68 1505.52 1356.68 1491.88 1883.72 1953.12 1564.13 1440.95 2158.66 1681.88 TRUE FALSE FALSE 1423.12409 1554.299836 1541.561285 1520.757495 1739.389781 1786.703188 1388.129976 1404.092585 2143.637709 1754.394078 0.81117698 0.88594681 0.878685869 0.866827764 0.99144759 1.018416108 0.791230427 0.800329073 1.221867844 1 10.77675713 -9.549772735 1.329160432 0.999741236 0.876178164 0.357490462 0.101492103 0.489589809 1.554729557 0.05390435 0.012878663 2.82E-10 9.549772735 -0.123563072 SES(ph)DLEDVGPTAEWNGDGSGSLRR ddPTM_HeLa_SAHA_4h_R1 1 SESDLEDVGPTAEWNGDGSGSLRR 24 1 Q9H0B6;Q9H0B6-2;A8MZ87 Q9H0B6 KLC2 Kinesin light chain 2 1 0 S(0.034)ES(0.966)DLEDVGPTAEWNGDGSGSLRR 130.29 2.48E-07 5415800 806.18 722.26 714.79 808.31 718.42 768.75 672.75 909.97 889.74 720.76 TRUE FALSE FALSE 890.9777113 745.6616979 812.1978587 823.9560089 663.3748148 703.2481751 597.0503994 886.694285 883.5482269 751.8354909 1.185070035 0.991788372 1.08028667 1.095925929 0.882340383 0.93537507 0.794123723 1.179372743 1.175188239 1 9.55427321 -5.771023144 24.95725732 1.081402896 0.935938181 0.284449024 0.108007736 185.9060518 484122.2347 0.01594497 0.02917136 1.69E-06 5.771023144 -0.145464715 SES(ph)ELIDELSEDFDR ddPTM_HeLa_SAHA_4h_R1 1 SESELIDELSEDFDR 15 0 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;P20810-2;E9PCH5;P20810-3;H0Y7F0;H0Y9H6;E7EQ12;E7EQA0;H0YD33;A0A0A0MR45;D6RC54 P20810-6 CAST Calpastatin 1 0 S(0.004)ES(0.996)ELIDELSEDFDR 135.55 0.00020433 2860900 430.02 407.74 369.72 431.99 399.97 533.07 653.03 473.93 686.19 431.19 TRUE FALSE FALSE 475.2514766 420.9510435 420.1035162 440.3517911 369.324385 487.649437 579.5493457 461.8075568 681.4147479 449.7807111 1.056629297 0.935902837 0.934018525 0.979036629 0.821120995 1.084193753 1.28851534 1.026739354 1.514993265 1 8.813077982 -5.001561411 24.99972786 0.995996981 1.164809176 0.037642834 0.185940268 45.97537301 736168.4042 0.01222787 0.03595935 9.96E-06 5.001561411 0.168812195 SES(ph)ELIDELSEDFDRSECK ddPTM_HeLa_SAHA_4h_R1 3 SESELIDELSEDFDRSECK 19 1 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;P20810-2;E9PCH5;P20810-3;H0Y7F0;H0Y9H6;E7EQ12;E7EQA0;H0YD33;A0A0A0MR45;D6RC54 P20810-6 CAST Calpastatin 1 0 S(0.412)ES(0.588)ELIDELSEDFDRSECK;S(0.155)ES(0.845)ELIDELSEDFDRSECK;S(0.104)ES(0.896)ELIDELSEDFDRSECK ;; 229.51 1.03E-32 53462500 2480.6 2256.06 2642.5 2887.56 2802.7 3341.5 3032.05 3422.27 2689.54 2602.66 TRUE FALSE FALSE 2741.520889 2329.157824 3002.606138 2943.452899 2587.957731 3056.785401 2690.875754 3334.733289 2670.823272 2714.87341 1.009815367 0.85792502 1.105983847 1.084195266 0.953251714 1.125940307 0.991160672 1.228319993 0.983774515 1 11.40666921 -1 0.969931523 1.006095494 168.2628151 0.407594698 0.07601367 975.5824388 1.469224642 0.010504225 362372.6714 0.1 1 167.2567196 SES(ph)ENWR ddPTM_HeLa_SAHA_4h_R1 2 SESENWR 7 0 Q6Y7W6;I1E4Y6;Q6Y7W6-4;Q6Y7W6-5;Q6Y7W6-3;E7ESB6;C9JHW1;C9JH78;C9IYH5 Q6Y7W6 GIGYF2 PERQ amino acid-rich with GYF domain-containing protein 2 1 0 S(0.006)ES(0.994)ENWR;S(0.031)ES(0.969)ENWR ; 108.57 0.0089111 161560000 4287.8 5517.6 5404.4 2380.7 4584.2 7727.5 5901 1915.06 2413.5 5283.5 TRUE FALSE FALSE 4738.810477 5696.37386 6140.883487 2426.781891 4232.959586 7069.073526 5237.003949 1866.075538 2396.704257 5511.297542 0.859835718 1.03358126 1.114235521 0.440328593 0.768051363 1.282651403 0.950230669 0.338590962 0.434871142 1 12.4281763 SES(ph)ETSTMAAK ddPTM_HeLa_SAHA_4h_R1 1 SESETSTMAAK 11 0 A0A087WVF1;Q96B23-2;Q96B23 A0A087WVF1 C18orf25 Uncharacterized protein C18orf25 1 0 S(0.008)ES(0.992)ETSTMAAK 119.39 0.0022385 8307800 887.66 1092.9 1076 1007.9 1255.6 1246.2 1496.4 1597 1384.7 1161.2 TRUE FALSE FALSE 981.0281515 1128.310677 1222.631676 1027.409362 1159.396199 1140.016749 1328.021134 1556.151052 1375.06376 1211.265015 0.809920323 0.931514296 1.009384124 0.848211869 0.957177979 0.941178632 1.096391886 1.284732105 1.135229486 1 10.24229883 -4.371109131 1.482340771 0.914778673 1.387392207 0.536894374 0.090760334 0.394162996 0.914838603 0.011253005 0.255911454 4.25E-05 4.371109131 0.472613534 SES(ph)FSSEDLIPSR ddPTM_HeLa_SAHA_4h_R1 2 SESFSSEDLIPSR 13 0 Q9P219;A0A0A0MR69;Q9P219-3;Q9P219-2 Q9P219 CCDC88C Protein Daple 1 0 SES(0.946)FS(0.043)S(0.011)EDLIPSR;SES(0.961)FS(0.037)S(0.001)EDLIPSR ; 162.72 5.16E-05 7106900 800.31 892.2 933.76 1016.03 993.64 1180.91 1160.7 1180.33 1054.21 911.45 TRUE FALSE FALSE 884.4902778 921.1078654 1061.00795 1035.69673 917.5075179 1080.289824 1030.094981 1150.138868 1046.873667 950.74707 0.930310811 0.968825353 1.115972884 1.08935043 0.965038491 1.136253646 1.083458486 1.20972118 1.101106382 1 9.892917778 -3.866638905 0.371226163 0.966593996 1.419885007 0.296731168 0.07126483 4.251262995 0.325622094 0.018585789 0.911170321 0.000135944 3.866638905 0.453291011 SES(ph)LDPDSSMDTTLILK ddPTM_HeLa_SAHA_4h_R1 2 SESLDPDSSMDTTLILK 17 0 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 S(0.014)ES(0.611)LDPDS(0.185)S(0.185)MDT(0.005)T(0.001)LILK;S(0.004)ES(0.996)LDPDSSMDTTLILK ; 184.87 9.49E-12 12954500 3556.2 6006.9 4236.3 3001.8 4914.7 6112.2 6235.7 3967.3 3982.2 5022 TRUE FALSE FALSE 3930.257432 6201.527501 4813.600902 3059.90418 4538.136748 5591.406174 5534.042625 3865.822211 3954.487546 5238.522997 0.750260605 1.183831302 0.918885133 0.584115825 0.866300816 1.067363105 1.056412777 0.73796034 0.754885976 1 12.35494439 -6.491697432 0.005425904 1.782305275 6.57E-05 0 0.177880063 56665.74141 146.6797215 23822.94193 24352.04699 3.22E-07 6.491697432 -1.782239598 SES(ph)LIDASEDSQLEAAIR ddPTM_HeLa_SAHA_4h_R1 4 SESLIDASEDSQLEAAIR 18 0 C9JAT7;O94888 C9JAT7 UBXN7 UBX domain-containing protein 7 1 0 S(0.021)ES(0.977)LIDAS(0.001)EDSQLEAAIR;S(0.005)ES(0.994)LIDAS(0.001)EDSQLEAAIR;S(0.001)ES(0.996)LIDASEDS(0.004)QLEAAIR;SES(0.998)LIDAS(0.001)EDSQLEAAIR ;;; 286.84 9.28E-74 27393600 2848.53 4530.59 4238.45 1847.26 3276.8 4762.74 4843.31 2386.52 2463.51 3871.63 TRUE FALSE FALSE 3148.151455 4677.384089 4816.043893 1883.016388 3025.732292 4356.927758 4298.328012 2325.476274 2446.366233 4038.554917 0.779524241 1.158182614 1.192516628 0.466259944 0.749211625 1.078833357 1.064323279 0.575818906 0.60575287 1 11.97962344 -6.298249781 24.99982284 0.937311696 0.816427749 0.09466615 0.238329319 1375.955798 934478.9086 0.035112323 0.053635906 5.03E-07 6.298249781 -0.120883947 SES(ph)LSNCSIGK ddPTM_HeLa_SAHA_4h_R1 4 SESLSNCSIGK 11 0 A0A3B3ISP1;Q92625 A0A3B3ISP1 ANKS1A Ankyrin repeat and SAM domain-containing protein 1A 1 0 S(0.043)ES(0.695)LS(0.262)NCSIGK;S(0.001)ES(0.986)LS(0.013)NCSIGK;S(0.001)ES(0.499)LS(0.499)NCS(0.001)IGK;S(0.013)ES(0.986)LS(0.001)NCSIGK ;;; 170.95 8.73E-05 91080600 5675.8 5772.4 5310.97 5834.5 6110.3 6575.5 6396.6 6607.3 6581.1 5501.2 TRUE FALSE FALSE 6272.806686 5959.429547 6034.721333 5947.435184 5642.130134 6015.230407 5676.837733 6438.294833 6535.301589 5738.383654 1.093131283 1.038520585 1.051641315 1.036430386 0.983226371 1.048244727 0.989274694 1.121970091 1.138874983 1 12.48642871 -6.006116443 24.7625227 1.045074807 1.030332749 0.002232212 0.050841646 1041.558458 4216812.768 0.006920456 0.012233751 9.86E-07 6.006116443 -0.014742058 SES(ph)LSNCSIGKK ddPTM_HeLa_SAHA_4h_R1 2 SESLSNCSIGKK 12 1 A0A3B3ISP1;Q92625 A0A3B3ISP1 ANKS1A Ankyrin repeat and SAM domain-containing protein 1A 1 0 S(0.002)ES(0.996)LS(0.002)NCSIGKK;S(0.007)ES(0.989)LS(0.004)NCSIGKK ; 103.14 0.0024662 74555000 5774 5054.2 5377.1 5783.9 5663.7 6181.7 5760.3 6298.8 4522.9 5207.5 TRUE FALSE FALSE 6381.335812 5217.959396 6109.863185 5895.855748 5229.74853 5654.984383 5112.135884 6137.685817 4491.424771 5432.02081 1.17476277 0.960592674 1.12478641 1.085389021 0.962762978 1.041046156 0.941111248 1.129908377 0.826842335 1 12.40727329 -5.791990001 24.95662205 1.077987789 1.014760231 0 0.107993506 329.6374305 269277.9456 0.012310855 0.022317304 1.61E-06 5.791990001 -0.063227557 SES(ph)LTAESR ddPTM_HeLa_SAHA_4h_R1 2 SESLTAESR 9 0 Q15751;H0YNB1 Q15751 HERC1 Probable E3 ubiquitin-protein ligase HERC1 1 0 S(0.06)ES(0.905)LT(0.036)AESR;S(0.024)ES(0.938)LT(0.038)AESR ; 121.61 0.0033902 17865300 2568.83 3290.6 2859.07 1986.51 2706.9 3959.1 3666.7 2379.04 2093.89 3109.5 TRUE FALSE FALSE 2839.031326 3397.217599 3248.68917 2024.961774 2499.497907 3621.762407 3254.113266 2318.187602 2079.318449 3243.565763 0.875280951 1.047371272 1.00157956 0.624301131 0.77060189 1.116599037 1.003251823 0.714703438 0.641059439 1 11.66336497 -12.52075387 0.277079595 1.416742929 0.886526939 0 0.185928408 65.48719045 1.451724607 14.99247168 0.075918652 3.01E-13 12.52075387 -0.530215989 SES(ph)PEPAATCSLPSDLTR ddPTM_HeLa_SAHA_4h_R1 2 SESPEPAATCSLPSDLTR 18 0 Q9NS37;E9PIM0 Q9NS37 CREBZF CREB/ATF bZIP transcription factor 1 0 S(0.01)ES(0.99)PEPAATCSLPSDLTR;SES(0.999)PEPAAT(0.001)CSLPSDLTR ; 148.36 0.00010028 5043100 601.7 726.58 540.31 373.29 750.26 875.17 554.47 307.97 858.43 567.24 TRUE FALSE FALSE 664.9895667 750.1216687 613.940633 380.5155677 692.7752409 800.6005924 492.0795763 300.0925733 852.4561157 591.6964924 1.123869374 1.267747364 1.037593835 0.643092485 1.17082871 1.353059555 0.831641868 0.507173149 1.440698275 1 9.208713533 -4.465162536 4.192838766 1.068291767 0.54364026 0.433432858 0.215671689 0.144503458 4.924021014 0.025047781 0.152693299 3.43E-05 4.465162536 -0.524651507 SES(ph)PFRETEPLVSPHQDK ddPTM_HeLa_SAHA_4h_R1 1 SESPFRETEPLVSPHQDK 18 1 Q9BYW2;C9JG86;H7C3H4;Q9BYW2-3;Q9BYW2-2;H7BZ93;H7BXT4 Q9BYW2 SETD2 Histone-lysine N-methyltransferase SETD2 1 0 S(0.172)ES(0.778)PFRET(0.05)EPLVSPHQDK 94.271 0.0015658 8037600 579.63 815.28 482.45 796.07 992.22 1195.3 891.88 935.41 970.16 957.57 TRUE FALSE FALSE 640.5981428 841.6956069 548.1957735 811.479086 916.196318 1093.453715 791.5233151 911.4835667 963.4085776 998.8555289 0.641332129 0.842660007 0.548823887 0.812408864 0.91724608 1.094706575 0.792430229 0.912527928 0.964512434 1 9.964132216 -5.752695969 5.79215241 0.802876263 0.93224364 0.16153932 0.142706044 0.287853432 32.51840614 0.024865207 0.048359659 1.77E-06 5.752695969 0.129367377 SES(ph)PKEPEQLR ddPTM_HeLa_SAHA_4h_R1 2 SESPKEPEQLR 11 1 F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8W646 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 S(0.038)ES(0.962)PKEPEQLR;S(0.027)ES(0.973)PKEPEQLR ; 115.37 0.01267 1776795000 9055.9 10860.7 9043.2 10746.6 11415.9 12959.1 11689.3 11517.1 13197.7 10914.8 TRUE FALSE FALSE 10008.44111 11212.59381 10275.5602 10954.61598 10541.21621 11854.91177 10373.9892 11222.50926 13105.85613 11385.39044 0.879059981 0.98482295 0.902521547 0.962164279 0.925854608 1.041238931 0.911166749 0.985693843 1.151111698 1 13.47489615 SES(ph)PKEPEQLRK ddPTM_HeLa_SAHA_4h_R1 2 SESPKEPEQLRK 12 2 F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8W646 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 S(0.001)ES(0.999)PKEPEQLRK;S(0.001)ES(0.999)PKEPEQLRK ; 98.676 0.0052485 1543740000 13218.3 13737 13088 14449.9 14606.9 15575.4 14583 14390.9 14999.7 13101.3 TRUE FALSE FALSE 14608.66144 14182.08781 14871.56448 14729.59871 13487.72248 14248.2883 12942.08246 14022.80162 14895.31587 13666.16116 1.068965986 1.037752127 1.088203506 1.077815382 0.986943028 1.042596244 0.947016672 1.026096608 1.089941476 1 13.73832042 -4.790234503 24.99329519 1.03807202 0.98655661 0.261161739 0.03866345 205.4117294 178291.1447 0.005461643 0.016388894 1.62E-05 4.790234503 -0.05151541 SES(ph)PPAELPSLR ddPTM_HeLa_SAHA_4h_R1 4 SESPPAELPSLR 12 0 Q14669;Q14669-2;Q14669-3;G5E9G6;H7C1L9 Q14669 TRIP12 E3 ubiquitin-protein ligase TRIP12 1 0 SES(1)PPAELPSLR;S(0.013)ES(0.987)PPAELPSLR;S(0.007)ES(0.993)PPAELPSLR;S(0.006)ES(0.994)PPAELPSLR ;;; 187.78 8.14E-07 109478000 7894.8 7770.2 5294.26 6587.9 8077.4 8053.8 7483.3 7757.8 9287.6 6417 TRUE FALSE FALSE 8725.211287 8021.959578 6015.734181 6715.418331 7458.511357 7367.570931 6641.259389 7559.366709 9222.966835 6693.668274 1.303502195 1.198439966 0.898720094 1.003249348 1.114263667 1.10067763 0.992170379 1.129330944 1.377864343 1 12.70858134 -6.80935278 24.99993023 1.151458995 1.042071457 0.296515927 0.118461486 175.3408455 91487.4606 0.021056886 0.027674204 1.55E-07 6.80935278 -0.109387538 SES(ph)PPAELPSLRR ddPTM_HeLa_SAHA_4h_R1 1 SESPPAELPSLRR 13 1 Q14669;Q14669-2;Q14669-3;G5E9G6;H7C1L9 Q14669 TRIP12 E3 ubiquitin-protein ligase TRIP12 1 0 S(0.064)ES(0.936)PPAELPSLRR 93.106 0.0046137 16709000 2649.9 1829.1 1971.7 1944.2 2124.2 1962.5 2200.6 2886.3 1796.2 2041.1 TRUE FALSE FALSE 2928.62864 1888.36404 2240.393008 1981.832802 1961.444255 1795.283959 1952.982696 2812.472625 1783.700098 2129.10181 1.375523062 0.886929893 1.052271431 0.930830453 0.921254327 0.843211889 0.917280088 1.320966716 0.837771162 1 11.05602922 -7.239880321 24.91334152 1.177330348 0.972426252 0 0.185816698 882.3631798 1019647.365 0.030150718 0.036908547 5.76E-08 7.239880321 -0.204904095 SES(ph)PPPLSDPK ddPTM_HeLa_SAHA_4h_R1 6 SESPPPLSDPK 11 0 Q15059;Q15059-2 Q15059 BRD3 Bromodomain-containing protein 3 1 0 SES(1)PPPLSDPK;SES(1)PPPLSDPK;S(0.039)ES(0.961)PPPLSDPK;SES(1)PPPLSDPK;S(0.007)ES(0.993)PPPLSDPK;S(0.004)ES(0.996)PPPLSDPK ;;;;; 174.9 6.20E-05 690952800 29487.1 29156.7 26351.9 31159.6 31848.5 35384.6 33140.8 33896.9 32661.6 28797.6 TRUE FALSE FALSE 32588.68847 30101.39621 29942.9997 31762.73912 29408.27481 32369.63301 29411.70996 33029.86638 32434.30527 30039.20547 1.084871852 1.002070319 0.996797326 1.05737614 0.978996427 1.077579533 0.979110782 1.099558589 1.079732462 1 14.87455903 SES(ph)PQAEALLLPR ddPTM_HeLa_SAHA_4h_R1 2 SESPQAEALLLPR 13 0 A0A087WXB3;A0A087X223;A0A087WYW1;Q96NU1-4;Q96NU1-5 A0A087WXB3 SAMD11 Sterile alpha motif domain-containing protein 11 1 0 S(0.196)ES(0.804)PQAEALLLPR;S(0.15)ES(0.85)PQAEALLLPR ; 187.08 2.84E-07 4679400 843.26 1048.78 1087.89 877.82 1008.97 1226.06 1212.05 877.4 1182.99 1003.25 TRUE FALSE FALSE 931.9579558 1082.76116 1236.141984 894.8114754 931.6629366 1121.59279 1075.666944 854.9573785 1174.757476 1046.505017 0.890543228 1.034644978 1.181209801 0.855047478 0.890261319 1.071750992 1.027866017 0.816964433 1.122553124 1 10.03136351 -2.914828145 15.45253559 0.964434277 0.839990672 0 0.117644577 0 0 0.013955733 0 0.001216667 2.914828145 -0.124443605 SES(ph)PQEALLLPR ddPTM_HeLa_SAHA_4h_R1 1 SESPQEALLLPR 12 0 H7BY14;A0A087WYU3;Q96NU1-6;Q96NU1;I7G285 H7BY14 SAMD11 Sterile alpha motif domain-containing protein 11 1 0 S(0.099)ES(0.901)PQEALLLPR 165.78 0.00011382 5107700 1140.8 1111.2 879.03 1107.2 1019 1465 1534.2 1421.6 1235.4 1193.7 TRUE FALSE FALSE 1260.794578 1147.203609 998.8196306 1128.631457 940.9244401 1340.173758 1361.567778 1385.23753 1226.802751 1245.166249 1.012551199 0.921325654 0.802157649 0.906410255 0.755661697 1.076301064 1.093482721 1.112492032 0.985252172 1 10.28212266 -5.028823936 24.96687617 0.960082288 1.098463609 0.413892439 0.087356896 656.260696 568443.9223 0.014311173 0.036564795 9.36E-06 5.028823936 0.138381322 SES(ph)PVCSSR ddPTM_HeLa_SAHA_4h_R1 2 SESPVCSSR 9 0 O00472;D6RC27 O00472 ELL2 RNA polymerase II elongation factor ELL2 1 0 SES(1)PVCSSR;S(0.002)ES(0.649)PVCS(0.341)S(0.009)R ; 158.47 9.59E-05 37791000 3901.2 4447.1 2886.8 4653 5485.3 7187.2 5305.6 4760.2 5039.6 5918 TRUE FALSE FALSE 4311.546115 4591.188958 3280.19807 4743.065543 5065.017499 6574.810126 4708.599924 4638.440977 5004.529013 6173.153942 0.698434893 0.743734726 0.53136502 0.76833748 0.82049104 1.065064987 0.762754334 0.751389164 0.810692405 1 12.59179205 -9.368513731 1.100529811 0.999540512 0.765558323 0.081320648 0.135875675 0.503118592 1.093318414 0.089734793 0.023396436 4.28E-10 9.368513731 -0.233982189 SES(ph)PVPQNEK ddPTM_HeLa_SAHA_4h_R1 4 SESPVPQNEK 10 0 Q9UIF8-4;Q9UIF8-2;Q9UIF8-5;Q9UIF8-3;Q9UIF8 Q9UIF8-4 BAZ2B Bromodomain adjacent to zinc finger domain protein 2B 1 0 S(0.025)ES(0.975)PVPQNEK;S(0.013)ES(0.987)PVPQNEK;SES(1)PVPQNEK;SES(1)PVPQNEK ;;; 147.33 0.00077921 24399200 10716.4 12400.5 9188.6 11740 11821.6 12846.6 10719.5 10255.6 12256 11363.3 TRUE FALSE FALSE 11843.60012 12802.28434 10440.77456 11967.24468 10915.83156 11751.99741 9513.313648 9993.276602 12170.7095 11853.22747 0.999187786 1.08006738 0.880838116 1.009619085 0.920916399 0.991459704 0.802592684 0.843084858 1.026784437 1 13.53299232 -4.498187253 0.670887557 1.000853371 0.728675757 0.54239582 0.057199287 1.204193684 0.450389446 0.008885472 0.233700855 3.18E-05 4.498187253 -0.272177614 SES(ph)SDFEVVPK ddPTM_HeLa_SAHA_4h_R1 1 SESSDFEVVPK 11 0 E7EPN9;Q9Y520-2;Q9Y520-6;Q9Y520-4;Q9Y520-5;Q9Y520;Q9Y520-7;Q9Y520-3 E7EPN9 PRRC2C Protein PRRC2C 1 0 S(0.006)ES(0.601)S(0.393)DFEVVPK 156.51 5.50E-11 0 2221 2233.9 1754.5 2216 1890.7 2869.6 2048.3 1804.6 2270.1 2162.6 TRUE FALSE FALSE 2454.61497 2306.279826 1993.594123 2258.893884 1745.834974 2625.093936 1817.819893 1758.440945 2254.302189 2255.84027 1.088115592 1.022359542 0.88374791 1.001353649 0.773917816 1.16368786 0.805828284 0.779505964 0.999318179 1 11.1394492 -6.826784324 5.580180917 1.042086813 0.907724585 0.229024525 0.112019616 0.209321824 12.37940409 0.017334445 0.023035471 1.49E-07 6.826784324 -0.134362228 SES(ph)TENQSYAK ddPTM_HeLa_SAHA_4h_R1 1 SESTENQSYAK 11 0 Q96RT1-7;Q96RT1-6;Q96RT1-4;Q96RT1-5;Q96RT1-3;Q96RT1-9;Q96RT1-2;Q96RT1;Q96RT1-8 Q96RT1-7 ERBB2IP Protein LAP2 1 0 S(0.019)ES(0.566)T(0.416)ENQSYAK 141.34 0.00086001 3954500 1339.7 2285.8 1289.3 636.59 1288.2 2006.1 2018 725.04 1041.2 1546.3 TRUE FALSE FALSE 1480.615793 2359.86142 1464.99909 648.91212 1189.498394 1835.168994 1790.929329 706.4945266 1033.954204 1612.96856 0.917944608 1.463054816 0.908262644 0.402309218 0.737459132 1.137758689 1.110331207 0.438008864 0.64102564 1 10.6555026 -6.519505042 24.97868644 1.006749626 0.788686103 0.129771716 0.291563615 225.2178344 1667500.839 0.042612713 0.060991383 3.02E-07 6.519505042 -0.218063522 SES(ph)TQPLLDSEERPEDLQLVDHVDGGDGILPR ddPTM_HeLa_SAHA_4h_R1 2 SESTQPLLDSEERPEDLQLVDHVDGGDGILPR 32 1 P40189-3;P40189 P40189-3 IL6ST Interleukin-6 receptor subunit beta 1 0 S(0.35)ES(0.456)T(0.133)QPLLDS(0.06)EERPEDLQLVDHVDGGDGILPR;S(0.171)ES(0.616)T(0.171)QPLLDS(0.042)EERPEDLQLVDHVDGGDGILPR ; 66.419 7.54E-05 4938200 192.568 317.51 402.08 0 138.45 169.65 398.22 184.37 133.46 193.7 TRUE FALSE FALSE 212.8231858 327.7975323 456.8733685 0 127.8419909 155.1948656 353.4112375 179.6540824 132.531241 202.0513549 1.053312341 1.622347608 2.261174485 0 0.632720285 0.768096139 1.7491159 0.889150594 0.655928494 1 7.658578216 -4.783621858 24.99653058 1.041587193 1.319134333 0.039096061 0.605963666 645.7670974 727689.6117 0.081964644 0.246169587 1.65E-05 4.783621858 0.27754714 SES(ph)VEGFLSPSR ddPTM_HeLa_SAHA_4h_R1 1 SESVEGFLSPSR 12 0 Q08AD1-2;Q08AD1-3;Q08AD1 Q08AD1-2 CAMSAP2 Calmodulin-regulated spectrin-associated protein 2 1 0 S(0.402)ES(0.598)VEGFLSPSR 103.11 0.0047137 9252100 683.55 598.35 681.39 983.52 929.93 828.22 945.07 828.7 615.32 756.39 TRUE FALSE FALSE 755.4489252 617.7369326 774.2462807 1002.557452 858.6789643 757.6509966 838.7282363 807.5030539 611.037938 789.0016746 0.957474426 0.782934881 0.981298653 1.27066581 1.088310699 0.960265385 1.063024659 1.0234491 0.774444412 1 9.623884552 -6.49585968 24.9933769 0.960656605 1.079035611 0.344885936 0.110489257 783.2226371 724503.1004 0.01495207 0.022798598 3.19E-07 6.49585968 0.118379006 SESADQTVSPPT(ph)PFAR ddPTM_HeLa_SAHA_4h_R1 1 SESADQTVSPPTPFAR 16 0 F5H212;P15822 F5H212 HIVEP1 Zinc finger protein 40 1 0 SESADQT(0.002)VS(0.345)PPT(0.653)PFAR 143.88 3.85E-08 0 774.4 879.82 675.67 731.25 698.31 870.67 861.86 878.62 830.28 742.91 TRUE FALSE FALSE 855.8549451 908.3267453 767.7467889 745.4044012 644.8056387 796.4840177 764.8812445 856.1461726 824.5020139 774.9404858 1.104413772 1.17212452 0.990717098 0.961885996 0.832071173 1.027800241 0.987019337 1.104789578 1.06395527 1 9.597941708 -6.551337094 24.92638549 1.06092056 0.977009578 0.274844222 0.076303331 256.3233786 224510.0718 0.013071368 0.018485878 2.81E-07 6.551337094 -0.083910982 SESAEQQIS(ph)PPNTNAK ddPTM_HeLa_SAHA_4h_R1 1 SESAEQQISPPNTNAK 16 0 P31629 P31629 HIVEP2 Transcription factor HIVEP2 1 0 SESAEQQIS(0.98)PPNT(0.02)NAK 91.592 0.0046755 0 302.05 164.72 203.13 284.17 367.4 319.57 192.34 432.77 438.65 241.55 TRUE FALSE FALSE 333.8210049 170.0570361 230.8114985 289.6705213 339.2498914 292.3408381 170.697397 421.70037 435.5973989 251.9644026 1.324873678 0.674924848 0.916048045 1.149648594 1.346419922 1.160246587 0.677466321 1.673650586 1.728805317 1 7.977076115 -4.227113459 23.50029645 1.097821298 1.673653239 0.237998803 0.302692611 6852.267633 4691033.828 0.033101469 7.483610851 5.93E-05 4.227113459 0.575831941 SESAPTLHPY(ph)SPLSPK ddPTM_HeLa_SAHA_4h_R1 1 SESAPTLHPYSPLSPK 16 0 Q8WUF5;K7EN03 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 SESAPTLHPY(0.996)S(0.004)PLSPK 134.4 0.00058341 5624800 2682.9 3178.6 2493.2 2988.8 4322.2 4886.7 3589.9 3935.6 3961.1 3741.5 TRUE FALSE FALSE 2965.099732 3281.588726 2832.960312 3046.652546 3991.03397 4470.325668 3185.955004 3834.933051 3933.534383 3902.814375 0.759733732 0.840826237 0.725876262 0.780629631 1.022604097 1.145410783 0.816322453 0.982607083 1.007871245 1 11.93029913 -5.748283228 24.99561718 0.860081374 0.990183339 0.259735907 0.114723481 306.7436945 582784.4649 0.018774796 0.03737337 1.79E-06 5.748283228 0.130101965 SESAPTLHPYS(ph)PLSPK ddPTM_HeLa_SAHA_4h_R1 2 SESAPTLHPYSPLSPK 16 0 Q8WUF5;K7EN03 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 SESAPTLHPY(0.002)S(0.812)PLS(0.185)PK;SESAPT(0.009)LHPY(0.066)S(0.711)PLS(0.213)PK ; 112.83 0.001376 10805300 3431.11 3420.72 2121.43 3241.2 4679.29 4687.78 3764.29 3693.47 3482.16 3321.2 TRUE FALSE FALSE 3792.009892 3531.553572 2410.527432 3303.938113 4320.763811 4288.354771 3340.722182 3598.996385 3457.927365 3464.393186 1.094566837 1.019385902 0.695800766 0.953684509 1.2471921 1.237837203 0.964302261 1.038853327 0.998133635 1 11.75838696 SESAPTLHPYSPLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 SESAPTLHPYSPLSPK 16 0 Q8WUF5;K7EN03 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 SESAPTLHPYS(0.061)PLS(0.938)PK;SESAPTLHPYSPLS(1)PK;SESAPTLHPY(0.07)S(0.142)PLS(0.788)PK ;; 139.78 8.82E-05 123060700 10231.9 12789.1 8729.9 10906.7 15673.7 16643.9 13449.6 15320.9 12100.7 12308.8 TRUE FALSE FALSE 11308.13819 13203.47523 9919.565309 11117.81495 14472.78449 15225.74608 11936.21561 14929.01356 12016.49024 12839.49261 0.880730924 1.028348677 0.772582345 0.865907656 1.127208445 1.185852631 0.929648544 1.162741708 0.93590071 1 13.64830057 -5.754537122 24.99958988 0.930304242 1.095132534 0.486352174 0.093379412 125.6144589 454964.2246 0.013990697 0.027492726 1.76E-06 5.754537122 0.164828292 SESDLEDVGPTAEWNGDGS(ph)GSLRR ddPTM_HeLa_SAHA_4h_R1 4 SESDLEDVGPTAEWNGDGSGSLRR 24 1 Q9H0B6;Q9H0B6-2;A8MZ87 Q9H0B6 KLC2 Kinesin light chain 2 1 0 SESDLEDVGPTAEWNGDGS(0.5)GS(0.5)LRR;SESDLEDVGPTAEWNGDGS(0.5)GS(0.5)LRR;SESDLEDVGPT(0.028)AEWNGDGS(0.486)GS(0.486)LRR;SESDLEDVGPT(0.011)AEWNGDGS(0.495)GS(0.495)LRR ;;; 117.83 2.17E-06 22829500 3972.05 4728.1 4022.74 4103 4910.34 5399.8 5512.64 6442.2 5053.7 4190.01 TRUE FALSE FALSE 4389.848443 4881.293542 4570.938058 4182.419498 4534.11081 4939.706662 4892.343239 6277.417852 5018.53089 4370.661837 1.004389863 1.116831666 1.045822859 0.956930473 1.037396847 1.130196489 1.119359818 1.436262536 1.148231338 1 12.09363604 -1.000000016 0.78447173 1.011662312 95.61069701 0.753245905 0.063503774 103.9455961 0.364175061 0.007496844 17460.81698 0.099999996 1.000000016 94.5990347 SESDLSQPES(ph)DEEGYALSGR ddPTM_HeLa_SAHA_4h_R1 3 SESDLSQPESDEEGYALSGR 20 0 Q15751;H0YNB1 Q15751 HERC1 Probable E3 ubiquitin-protein ligase HERC1 1 0 SESDLSQPES(1)DEEGYALSGR;SESDLS(0.002)QPES(0.996)DEEGY(0.002)ALSGR;SESDLS(0.001)QPES(0.995)DEEGY(0.003)ALS(0.001)GR ;; 265.96 4.36E-64 13444300 1466.28 2278.52 1470.82 2077.43 2584.42 2784.52 2451.64 2312.37 2126.84 1977.97 TRUE FALSE FALSE 1620.510058 2352.345543 1671.25569 2117.641662 2386.402298 2547.263231 2175.775015 2253.222924 2112.039147 2063.249967 0.785416253 1.140116603 0.810011253 1.026362145 1.156622967 1.234587797 1.054537768 1.09207462 1.023646762 1 11.0107029 -5.989534992 4.427185378 0.911831128 1.133752311 0.358246569 0.10854345 0.14038263 6.838452078 0.017210042 0.030950005 1.02E-06 5.989534992 0.221921182 SESELIDELS(ph)EDFDRSECK ddPTM_HeLa_SAHA_4h_R1 4 SESELIDELSEDFDRSECK 19 1 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;P20810-2;E9PCH5;P20810-3;H0Y7F0;H0Y9H6;E7EQ12;E7EQA0;H0YD33;A0A0A0MR45;D6RC54 P20810-6 CAST Calpastatin 1 0 SESELIDELS(0.999)EDFDRS(0.001)ECK;SESELIDELS(0.997)EDFDRS(0.002)ECK;S(0.003)ES(0.021)ELIDELS(0.958)EDFDRS(0.018)ECK;SESELIDELS(1)EDFDRSECK ;;; 115.39 0.0003238 27404100 4868.17 5251.35 5223.46 5456.7 5481.89 6331.74 6185.07 5370.59 5374.7 5424.33 TRUE FALSE FALSE 5380.226457 5421.497186 5935.285926 5562.322319 5061.868773 5792.240131 5489.109645 5233.218084 5337.297025 5658.199412 0.950872542 0.95816651 1.048970793 0.983055194 0.894607702 1.023689642 0.970115976 0.924891066 0.943285423 1 12.46612731 -7.779068609 0.003779775 1.95177413 5.22E-09 0 0.043862993 23308.14992 62.81192914 16273.81672 16158.2876 1.66E-08 7.779068609 -1.951774125 SESELIDELSEDFDR ddPTM_HeLa_SAHA_4h_R1 4 SESELIDELSEDFDR 15 0 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;P20810-2;E9PCH5;P20810-3;H0Y7F0;H0Y9H6;E7EQ12;E7EQA0;H0YD33;A0A0A0MR45;D6RC54 P20810-6 CAST Calpastatin 0 0 ;;; ;;; 391.8 4.99E-228 20115100 3318.85 2536.96 1957.7 2599.11 2696.52 3703.25 3264.14 2393.8 4458.6 2965.49 FALSE FALSE TRUE 3667.94187 2619.159169 2224.485161 2649.419532 2489.91322 3387.712266 2896.850376 2332.570062 4427.57224 3093.346787 1.185751913 0.846707256 0.71911923 0.856489658 0.804925342 1.09516084 0.93647773 0.754060318 1.431321008 1 11.59495286 -7.248128319 24.76814407 1.087716181 0.863499756 0.476870318 0.151969366 481.1025581 895196.9719 0.020098795 0.024537736 5.65E-08 7.248128319 -0.224216425 SESELIDELSEDFDRSECK ddPTM_HeLa_SAHA_4h_R1 3 SESELIDELSEDFDRSECK 19 1 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PDE4;P20810-2;E9PCH5;P20810-3;H0Y7F0;H0Y9H6;E7EQ12;E7EQA0;H0YD33;A0A0A0MR45;D6RC54 P20810-6 CAST Calpastatin 0 0 ;; ;; 274.02 4.80E-64 36053100 2896.8 3416.67 3722.12 3654.14 4162.74 4170.77 3639.78 3564.34 3479.67 3687.4 FALSE FALSE TRUE 3201.498715 3527.37235 4229.35113 3724.871164 3843.791761 3815.396932 3230.222375 3473.169344 3455.454693 3846.38186 0.832340322 0.917062444 1.099566108 0.968409092 0.999326614 0.991944396 0.839808031 0.902970498 0.898364962 1 11.90928628 -4.753815193 24.99655693 0.944561001 0.871389264 0.175233417 0.070987141 316.8022175 1038636.342 0.012169552 0.043843247 1.76E-05 4.753815193 -0.073171737 SESGGLGVSMVEYVLSSS(ph)PADKLDSR ddPTM_HeLa_SAHA_4h_R1 1 SESGGLGVSMVEYVLSSSPADKLDSR 26 1 C9JW01;A0A0A0MR59;Q8TB72-2;Q8TB72-4;Q8TB72-3;Q8TB72 C9JW01 PUM2 Pumilio homolog 2 1 0 SESGGLGVSMVEYVLS(0.017)S(0.251)S(0.729)PADKLDS(0.002)R 107.29 5.77E-06 3872500 404.08 642.64 790.25 714.88 629.61 854.09 858.62 811.93 892.53 611.25 TRUE FALSE FALSE 446.5829884 663.4619577 897.9411546 728.7175361 581.3694178 781.316727 762.0058178 791.1620063 886.3188111 637.6039789 0.700408095 1.040554921 1.408305444 1.142899919 0.911803309 1.225394999 1.195108317 1.240836056 1.39007729 1 9.316516822 -7.004704582 24.91499507 0.859155271 1.179046305 0 0.214108708 127.5917375 675716.8843 0.025612486 0.033172511 9.89E-08 7.004704582 0.319891034 SESLDPDS(ph)SMDTTLILK ddPTM_HeLa_SAHA_4h_R1 1 SESLDPDSSMDTTLILK 17 0 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 SES(0.006)LDPDS(0.423)S(0.423)MDT(0.116)T(0.032)LILK 80.834 0.016442 4751200 1001.1 1394.5 1170.6 744.06 1336 1633.1 1682.1 833.64 1010.2 1491.6 TRUE FALSE FALSE 1106.400291 1439.682715 1330.123272 758.4623572 1233.635969 1493.950692 1492.825681 812.3166959 1003.169936 1555.910176 0.711095222 0.925299376 0.854884358 0.487471815 0.792870943 0.960177982 0.959454925 0.522084571 0.644747976 1 10.60354306 -9.435598147 1.018902445 1.007680442 0.780336611 0 0.192010749 0.74002897 1.296775432 0.128419386 0.028032238 3.67E-10 9.435598147 -0.227343831 SESLDPDSS(ph)MDTTLILK ddPTM_HeLa_SAHA_4h_R1 1 SESLDPDSSMDTTLILK 17 0 H0Y2V6;Q5SW79;Q5SW79-3;Q5SW79-2 H0Y2V6 CEP170 Centrosomal protein of 170 kDa 1 0 S(0.002)ES(0.017)LDPDS(0.04)S(0.895)MDT(0.036)T(0.01)LILK 79.23 0.017817 2685300 696.38 1418.4 862.72 649.65 1307 1501.9 1151.9 797.48 780.15 1209.1 TRUE FALSE FALSE 769.6284435 1464.357091 980.2869887 662.2249152 1206.857942 1373.929671 1022.28518 777.0816163 774.7208726 1261.230218 0.610220428 1.161054556 0.777246671 0.525062677 0.956889492 1.089356765 0.810546057 0.616129875 0.614258096 1 10.30061593 -9.736880466 1.666753567 1.000066249 0.793079119 0 0.22994471 0.666974872 3.34817955 0.148787956 0.032257228 1.83E-10 9.736880466 -0.20698713 SESPKEPEQLR ddPTM_HeLa_SAHA_4h_R1 2 SESPKEPEQLR 11 1 F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8W646 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 0 0 ; ; 112.85 0.0052579 27496000 3761.4 3811.6 3149.3 4134.9 4310.2 4349.5 4608.7 4268.7 4162.3 3351.6 FALSE FALSE TRUE 4157.04131 3935.098341 3578.470203 4214.936969 3979.953407 3978.89813 4090.116947 4159.512835 4133.334215 3496.103878 1.189049712 1.125566767 1.023559462 1.205609763 1.138396783 1.138094939 1.169907156 1.189756649 1.182268708 1 11.77153234 -9.406632458 0.972458956 0.99403101 1.148421618 0 0.073964205 0.361385929 0.572256169 0.041254824 0.008979705 3.92E-10 9.406632458 0.154390608 SESQESLVTS(ph)PSKPK ddPTM_HeLa_SAHA_4h_R1 1 SESQESLVTSPSKPK 15 1 E7EWD6;Q76L83;Q76L83-2;A0A5F9ZHN2 E7EWD6 ASXL2 Putative Polycomb group protein ASXL2 1 0 SESQESLVT(0.311)S(0.674)PS(0.015)KPK 68.525 0.017459 18490000 2330.6 2494.1 1837.5 2251.1 2283.1 2799.7 2301.5 2261.5 2710.8 2387.2 TRUE FALSE FALSE 2575.743201 2574.910476 2087.904931 2294.673296 2108.169371 2561.149809 2042.529163 2203.654105 2691.935322 2490.123875 1.034383561 1.03404915 0.838474323 0.921509696 0.846612248 1.028523053 0.82025203 0.884957623 1.081044742 1 11.2820018 -6.772350564 24.99935427 1.018026298 0.892631087 0.594556838 0.058710713 111.9883663 256583.703 0.008352931 0.011036917 1.69E-07 6.772350564 -0.125395211 SESS(ph)DFEVVPK ddPTM_HeLa_SAHA_4h_R1 1 SESSDFEVVPK 11 0 E7EPN9;Q9Y520-2;Q9Y520-6;Q9Y520-4;Q9Y520-5;Q9Y520;Q9Y520-7;Q9Y520-3 E7EPN9 PRRC2C Protein PRRC2C 1 0 SES(0.101)S(0.899)DFEVVPK 159.94 0.00021418 6893100 1726.7 1710.7 1272.2 1450.2 1533.9 2127.5 1722 1345 1930.9 1764.5 TRUE FALSE FALSE 1908.322228 1766.127802 1445.568791 1478.270718 1416.372913 1946.225031 1528.236028 1310.596848 1917.46271 1840.57623 1.03680695 0.959551565 0.785389253 0.803156476 0.769526896 1.057399851 0.830303034 0.712057901 1.041773048 1 10.84594179 -6.922404304 4.561234704 1.016676921 0.833885723 0.529173199 0.085936269 0.131193981 5.147988744 0.013982093 0.018475482 1.20E-07 6.922404304 -0.182791197 SESSTSAFST(ph)PTR ddPTM_HeLa_SAHA_4h_R1 4 SESSTSAFSTPTR 13 0 Q8WWQ0 Q8WWQ0 PHIP PH-interacting protein 1 0 SESSTSAFS(0.002)T(0.997)PTR;SESSTSAFS(0.126)T(0.869)PT(0.004)R;SESSTSAFS(0.034)T(0.964)PT(0.001)R;SESSTSAFS(0.033)T(0.966)PT(0.001)R ;;; 176.87 2.25E-05 38129500 11313.6 9692 7953.9 10147.9 10521.3 9290.3 10250.2 10790.6 10055.7 10579.4 TRUE FALSE FALSE 12503.61636 10006.02716 9037.81607 10344.32728 9715.160267 8498.714174 9096.820519 10514.59208 9985.721565 11035.52971 1.13303273 0.906710183 0.818974377 0.937365723 0.880352871 0.770122903 0.824321148 0.952794506 0.904870163 1 13.42986826 -7.119681919 5.143861137 1.062426918 0.862104521 0.378319676 0.07743477 0.104794607 4.025218694 0.011652986 0.01436093 7.59E-08 7.119681919 -0.200322397 SESVEGFLS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 4 SESVEGFLSPSR 12 0 Q08AD1-2;Q08AD1-3;Q08AD1 Q08AD1-2 CAMSAP2 Calmodulin-regulated spectrin-associated protein 2 1 0 SESVEGFLS(0.977)PS(0.023)R;SESVEGFLS(1)PSR;SESVEGFLS(1)PSR;SESVEGFLS(0.999)PS(0.001)R ;;; 226.42 1.85E-22 124209000 4983.27 5211.9 4844.72 4643.49 5991.7 5825.9 6053.5 5380.4 5332.8 5130.5 TRUE FALSE FALSE 5507.433203 5380.76898 5504.933211 4733.371464 5532.61724 5329.500544 5372.344248 5242.777159 5295.688611 5351.700963 1.029099578 1.005431547 1.028632438 0.884461127 1.033805379 0.995851708 1.003857332 0.979646881 0.989533729 1 12.38578179 SESVVSGLDS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 1 SESVVSGLDSPAK 13 0 H7BYJ3;O14578;O14578-4;O14578-2 H7BYJ3 CIT Citron Rho-interacting kinase 1 0 S(0.045)ES(0.235)VVS(0.011)GLDS(0.71)PAK 92.939 0.0088667 27623000 2317.5 2409.8 1963.8 2380.6 2513.5 3218.8 2348.5 2414.3 2551.2 2439.7 TRUE FALSE FALSE 2561.265283 2487.879101 2231.416437 2426.679955 2320.916173 2944.540132 2084.240599 2352.545702 2533.445991 2544.887407 1.0064356 0.977598889 0.876823246 0.953551009 0.911991692 1.157041417 0.818991282 0.924420348 0.995504157 1 11.31338611 -6.994044477 24.76152362 1.002458943 0.942685604 0.100185499 0.081884414 238.1664377 990226.1596 0.012557307 0.016479454 1.01E-07 6.994044477 -0.059773339 SESVVSGLDS(ph)PAKTSSMEK ddPTM_HeLa_SAHA_4h_R1 1 SESVVSGLDSPAKTSSMEK 19 1 H7BYJ3;O14578;O14578-4;O14578-2 H7BYJ3 CIT Citron Rho-interacting kinase 1 0 SESVVS(0.01)GLDS(0.935)PAKT(0.014)S(0.02)S(0.02)MEK 85.801 0.0019224 6408100 2018.2 1197 1582.7 1670.5 1655.4 1555.4 2074.1 1798.5 874.73 1547.9 TRUE FALSE FALSE 2230.483536 1235.783585 1798.382114 1702.834943 1528.56361 1422.87117 1840.716809 1752.496974 868.6426827 1614.637544 1.381414389 0.765362846 1.113799267 1.054623652 0.946691482 0.881232556 1.140018585 1.085381038 0.537979986 1 10.65699463 -7.268858473 24.99645458 1.180112342 1.003757454 0 0.245015086 721.5608324 2431082.724 0.029288319 0.033848828 5.38E-08 7.268858473 -0.176354888 SESVVY(ph)ADIR ddPTM_HeLa_SAHA_4h_R1 2 SESVVYADIR 10 0 O95297-4;O95297-2;O95297;O95297-5 O95297-4 MPZL1 Myelin protein zero-like protein 1 1 0 SESVVY(1)ADIR;SESVVY(1)ADIR ; 126.07 0.0053525 7321100 1824.14 3692.6 2662.4 1956.19 3395.9 2737.67 3368.2 2499.66 1886.91 2494.9 TRUE FALSE FALSE 2016.011415 3812.242663 3025.218007 1994.054886 3135.706876 2504.405114 2989.201271 2435.722317 1873.77884 2602.467349 0.774653874 1.464857058 1.162442252 0.766217062 1.204897682 0.962319514 1.148602795 0.935928098 0.720000902 1 11.34566435 SET(ph)PPVPPPPPYLASYPGFPENGAPGPPISR ddPTM_HeLa_SAHA_4h_R1 1 SETPPVPPPPPYLASYPGFPENGAPGPPISR 31 0 P48634;P48634-2;P48634-3 P48634 PRRC2A Protein PRRC2A 1 0 S(0.364)ET(0.635)PPVPPPPPY(0.001)LASYPGFPENGAPGPPISR 76.208 2.01E-05 4642600 874.08 659.94 532.22 726.54 611.84 750.81 850.56 793.31 673.96 699.25 TRUE FALSE FALSE 966.0197448 681.322489 604.7481699 740.6032323 564.9609514 686.8367641 754.8527502 773.0182789 669.2698575 729.3980895 1.324406738 0.934088667 0.829105777 1.015362177 0.774557761 0.941648702 1.034898173 1.059802994 0.917564588 1 9.510562611 -7.222955128 23.50214021 1.153192071 0.937075498 0.122970797 0.133102226 230.6524837 140858.2323 0.023884976 0.029252511 5.98E-08 7.222955128 -0.216116573 SETAPAAPAAPAPAEKT(ph)PVK ddPTM_HeLa_SAHA_4h_R1 3 SETAPAAPAAPAPAEKTPVK 20 1 P10412 P10412 HIST1H1E Histone H1.4 1 0 SETAPAAPAAPAPAEKT(1)PVK;SETAPAAPAAPAPAEKT(1)PVK;SETAPAAPAAPAPAEKT(1)PVK ;; 151.85 2.65E-05 75482100 7538.5 10437.9 8344.3 5445.4 11125 10720.8 12918.6 10261 7201.2 8480.2 TRUE FALSE FALSE 8331.434018 10776.09481 9481.417749 5550.803591 10272.6049 9807.327526 11464.96513 9998.538478 7151.086263 8845.822923 0.941849514 1.218212811 1.071852538 0.627505619 1.161294432 1.108695891 1.296088021 1.130311851 0.808413906 1 13.11078065 -5.561874116 24.99999263 0.975697377 1.180948452 0.334708554 0.154938286 138.3249483 88679.94172 0.02049853 0.040997121 2.74E-06 5.561874116 0.205251075 SETAPAETAT(ph)PAPVEKSPAK ddPTM_HeLa_SAHA_4h_R1 2 SETAPAETATPAPVEKSPAK 20 1 P16401 P16401 HIST1H1B Histone H1.5 1 0 SETAPAET(0.001)AT(0.743)PAPVEKS(0.256)PAK;SETAPAET(0.248)AT(0.483)PAPVEKS(0.269)PAK ; 116.04 0.00030268 105379000 5954.4 7008.5 6204.5 3111.91 7377.2 6608.1 7973.4 6651.5 3442.69 5002.3 TRUE FALSE FALSE 6580.711112 7235.579998 7050.016948 3172.145518 6811.96053 6045.052704 7076.212047 6481.364261 3418.73204 5217.973634 1.261162201 1.38666473 1.351102448 0.607926705 1.30548006 1.158505797 1.356122615 1.242122846 0.655183847 1 12.34927394 -9.32862671 1.097025079 1.002058356 1.208639562 0.221105515 0.240424403 0.882614203 1.930117791 0.136236193 0.037439935 4.69E-10 9.32862671 0.206581206 SETAPAETATPAPVEKS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 2 SETAPAETATPAPVEKSPAK 20 1 P16401 P16401 HIST1H1B Histone H1.5 1 0 SETAPAETAT(0.184)PAPVEKS(0.816)PAK;SETAPAETAT(0.003)PAPVEKS(0.996)PAK ; 143 2.50E-05 107278200 4680.4 5339.2 5187.9 2616.6 5989.9 5765.3 6507.6 5583.1 3352.6 4707.2 TRUE FALSE FALSE 5172.705946 5512.193583 5894.879995 2667.248077 5530.955156 5274.064005 5775.347721 5440.292386 3329.268984 4910.150428 1.053471991 1.122611957 1.200549775 0.543211072 1.126432935 1.074114547 1.176205863 1.107968578 0.678038083 1 12.26155151 SETIQDTDTQSLVGS(ph)PSTR ddPTM_HeLa_SAHA_4h_R1 2 SETIQDTDTQSLVGSPSTR 19 0 E9PMR6;Q9NZN5-2;Q9NZN5 E9PMR6 ARHGEF12 Rho guanine nucleotide exchange factor 12 1 0 SETIQDTDTQSLVGS(1)PSTR;SETIQDTDTQSLVGS(0.984)PS(0.013)T(0.003)R ; 239.87 3.88E-41 6118800 1069.69 1279.47 815.91 1091.98 1277.78 1780.11 1301.18 1022.36 1635.33 1273.54 TRUE FALSE FALSE 1182.204902 1320.925667 927.0979657 1113.116852 1179.876772 1628.434613 1154.767802 996.2095116 1623.949605 1328.448542 0.88991396 0.994337098 0.697880224 0.837907391 0.888161442 1.225816855 0.869260468 0.749904479 1.22244073 1 10.37552663 -9.188701813 0.815363161 1.003418602 0.898349276 0.170818142 0.153277181 1.648894598 1.874329802 0.109785789 0.027298886 6.48E-10 9.188701813 -0.105069326 SETS(ph)PVAPR ddPTM_HeLa_SAHA_4h_R1 1 SETSPVAPR 9 0 A0A2R8Y661;A0A2R8YGD3;Q9Y4G8;H0Y8H7;H0Y8T6 A0A2R8Y661 RAPGEF2 Rap guanine nucleotide exchange factor 2 1 0 S(0.022)ET(0.143)S(0.835)PVAPR 114.86 0.0047919 43264000 2037.9 1856.2 1839.6 2091.3 2169.2 2421.9 2412.8 1802.9 2348.1 2015.9 TRUE FALSE FALSE 2252.255672 1916.342098 2090.291108 2131.780136 2002.996365 2215.540495 2141.305394 1756.784429 2331.759381 2102.815315 1.071066801 0.911322114 0.994044077 1.013774306 0.952530805 1.053606791 1.01830407 0.835443996 1.108875023 1 11.03810643 -7.278994906 24.95167178 1.033559321 0.975743785 0.263778816 0.064987514 1067.734436 1517567.337 0.010387387 0.01189315 5.26E-08 7.278994906 -0.057815537 SETSWES(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 SETSWESPK 9 0 Q86UE4;E5RJU9 Q86UE4 MTDH Protein LYRIC 1 0 SETS(0.024)WES(0.975)PK;SETSWES(1)PK ; 162.36 7.44E-05 37388000 3985 9665.8 4172.3 4260 5155 4878.6 4891.8 3887.9 5843.8 5468.2 TRUE FALSE FALSE 4404.160584 9978.978262 4740.879316 4342.45846 4760.025014 4462.915834 4341.361789 3788.453148 5803.13252 5703.960863 0.772123212 1.749482246 0.831155653 0.761305795 0.834512215 0.782423993 0.76111353 0.664179373 1.017386455 1 12.47774837 -6.536818018 24.99767809 0.969697607 0.769055612 0.239626839 0.258046048 407.0686564 730005.0615 0.042676859 0.06037004 2.91E-07 6.536818018 -0.200641995 SEVDMLK ddPTM_HeLa_SAHA_4h_R1 2 SEVDMLK 7 0 P07355;P07355-2;A6NMY6 P07355 ANXA2;ANXA2P2 Annexin A2;Putative annexin A2-like protein 0 0 ; ; 130.77 0.00059924 4065000 3092.57 4013.15 3706.84 3352.97 4163.18 3614.99 4495.45 2553.79 2384.24 2236.15 FALSE FALSE TRUE 3417.860702 4143.178693 4211.988851 3417.871583 3844.198048 3306.972515 3989.610135 2488.46775 2367.64788 2332.56137 1.46528222 1.776235664 1.805735491 1.465286885 1.648058695 1.417742983 1.710398786 1.066839133 1.015042052 1 11.18769932 -8.684443077 0.833669331 1.028067915 1.5604382 0.513558629 0.206703703 0.336485877 0.467485229 0.095655205 0.042132577 2.07E-09 8.684443077 0.532370285 SEVQQPVHPKPLS(ph)PDSR ddPTM_HeLa_SAHA_4h_R1 7 SEVQQPVHPKPLSPDSR 17 1 Q9UHB6;F8VQE1;Q9UHB6-2;F8VS07;Q9UHB6-3;F8VRN8;Q9UHB6-4;Q9UHB6-5 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 SEVQQPVHPKPLS(0.893)PDS(0.107)R;SEVQQPVHPKPLS(0.5)PDS(0.5)R;SEVQQPVHPKPLS(0.946)PDS(0.054)R;SEVQQPVHPKPLS(0.632)PDS(0.368)R;SEVQQPVHPKPLS(0.952)PDS(0.048)R;S(0.003)EVQQPVHPKPLS(0.958)PDS(0.039)R;SEVQQPVHPKPLS(0.965)PDS(0.034)R ;;;;;; 140.84 7.28E-05 663489000 19971.06 22645.9 19196.3 20127.94 22946 23322.9 23017.6 20491.7 22952.5 19616.1 TRUE FALSE FALSE 22071.70772 23379.64202 21812.27179 20517.54538 21187.88244 21335.65771 20427.59907 19967.55199 22792.77168 20461.84607 1.078676266 1.142596906 1.065997258 1.002722106 1.035482447 1.042704438 0.9983263 0.975843133 1.113915705 1 14.32064869 -4.360492121 1.033299434 1.046637167 0.943110051 0.273372636 0.04405885 2.041411566 1.890482918 0.007295959 0.222970148 4.36E-05 4.360492121 -0.103527116 SEVS(ph)SPIQR ddPTM_HeLa_SAHA_4h_R1 1 SEVSSPIQR 9 0 B4DJX4;Q9HAU0-8;Q9HAU0;Q9HAU0-2;Q9HAU0-4;Q9HAU0-6;A0JP02;Q9HAU0-5;Q9HAU0-3;H0YG48 B4DJX4 PLEKHA5 Pleckstrin homology domain-containing family A member 5 1 0 SEVS(0.5)S(0.5)PIQR 137.46 0.0013144 34877000 3427.7 3326.3 3382.6 4377.4 4255.7 4370.6 3732.9 4418.5 3987.1 3486.8 TRUE FALSE FALSE 3788.241213 3434.074302 3843.563112 4462.130907 3929.629185 3998.200292 3312.864268 4305.481168 3959.353446 3637.133012 1.041545965 0.944170667 1.056756269 1.22682643 1.080419433 1.099272498 0.910844959 1.183756864 1.088591875 1 11.82858597 -6.525400715 24.99759163 1.013839671 1.093874007 0.170525818 0.084181895 100.2046426 993215.8409 0.012280577 0.017429642 2.98E-07 6.525400715 0.080034336 SEVSSDEDIQFR ddPTM_HeLa_SAHA_4h_R1 1 SEVSSDEDIQFR 12 0 A0A2R8Y4F5;H0YFD6;P40939 A0A2R8Y4F5 HADHA "Trifunctional enzyme subunit alpha, mitochondrial;Long-chain enoyl-CoA hydratase;Long chain 3-hydroxyacyl-CoA dehydrogenase" 0 0 135.8 0.0049802 1876400 543.55 785.29 634.49 753.54 846.42 796.11 827.6 764.67 1003.7 767.59 FALSE FALSE TRUE 600.7230829 810.7339112 720.9549929 768.1258563 781.5674825 728.2769492 734.4762699 745.1108486 996.71517 800.6845614 0.750261853 1.012550947 0.900423247 0.959336415 0.976124082 0.909567868 0.917310393 0.930592251 1.24482876 1 9.645090179 SEWLDPSQKS(ph)PLHVGETR ddPTM_HeLa_SAHA_4h_R1 1 SEWLDPSQKSPLHVGETR 18 1 O15164-2;O15164 O15164-2 TRIM24 Transcription intermediary factor 1-alpha 1 0 SEWLDPS(0.029)QKS(0.964)PLHVGET(0.007)R 52.365 0.016032 10326000 1556.5 1538.9 1345.6 1364.9 1781.2 1435.1 1843.2 1428 1495.1 1590.8 TRUE FALSE FALSE 1720.219811 1588.76137 1528.97136 1391.319613 1644.724841 1312.821406 1635.798285 1391.473828 1484.695477 1659.387173 1.036659701 0.957438623 0.921407243 0.83845388 0.991164008 0.791148339 0.985784578 0.838546814 0.894725174 1 10.69643482 -6.915261534 2.42229 1.017133377 0.894313311 0.165932903 0.071343426 0.168740551 2.011091928 0.009025687 0.012116993 1.22E-07 6.915261534 -0.122820067 SFDLLVK ddPTM_HeLa_SAHA_4h_R1 2 SFDLLVK 7 0 Q9HB71;Q9HB71-3 Q9HB71 CACYBP Calcyclin-binding protein 0 0 ; ; 117.93 0.0054831 8109100 8351.3 9690.7 9168.7 9861.6 10854.5 7029.8 12149.4 9177.9 10212.1 9690.8 FALSE FALSE TRUE 9229.728051 10004.68504 10418.16269 10052.48553 10022.83056 6430.821491 10782.31754 8943.142607 10141.03316 10108.61781 0.913055397 0.989718399 1.030621879 0.994447086 0.991513453 0.636172186 1.066646077 0.884704791 1.003206705 1 13.30329813 SFDWGYEER ddPTM_HeLa_SAHA_4h_R1 1 SFDWGYEER 9 0 P18615;P18615-3;A0A0A0MT02;E9PD43;A0A0A0MSN9;A0A0G2JI50 P18615 NELFE Negative elongation factor E 0 0 128.36 0.013869 7556300 1132.6 1131.2 1170.8 1071.6 1212.7 991.23 1354 1219.3 1396.3 1301.5 FALSE FALSE TRUE 1251.732065 1167.851622 1330.350527 1092.342368 1119.783188 906.7716275 1201.644356 1188.112072 1386.583035 1357.614034 0.922008784 0.860223593 0.979918072 0.804604505 0.824817039 0.667915626 0.88511486 0.875147164 1.021338171 1 10.40685767 -7.085282726 0.503660046 0.988174284 0.803406556 0.506806556 0.070265033 0.532040858 0.313469952 0.025722157 0.035367433 8.22E-08 7.085282726 -0.184767728 SFEQS(ph)T(ph)FSFS(ph)TMTMEELLT(ph)SLQKK ddPTM_HeLa_SAHA_4h_R1 1 SFEQSTFSFSTMTMEELLTSLQKK 24 1 Q149N8-4;A0A0D9SFM0 Q149N8-4 SHPRH 4 0 S(0.174)FEQS(0.612)T(0.614)FS(0.614)FS(0.855)T(0.098)MT(0.061)MEELLT(0.876)S(0.095)LQKK 40.622 0.017059 5766400 0 0 0 0 0 63.188 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 57.80402691 0 0 0 0 0 SFETFSHR ddPTM_HeLa_SAHA_4h_R1 1 SFETFSHR 8 0 I3L3I9;P30838;A8MYB8 I3L3I9 ALDH3A1 "Aldehyde dehydrogenase, dimeric NADP-preferring" 0 0 124.08 0.00095862 0 2287.5 2070.1 1688.2 2420.2 2182.9 2298.8 2691.9 2355.2 2521.4 2562.2 FALSE FALSE TRUE 2528.109745 2137.172598 1918.259104 2467.046471 2015.646674 2102.929307 2389.000327 2294.957394 2503.853372 2672.668981 0.945912031 0.799639841 0.717731645 0.92306473 0.754169966 0.786827446 0.893863155 0.858676256 0.93683632 1 11.38406545 -7.37441329 3.655333067 0.977151573 0.818423643 0.536400678 0.060295571 0.120011212 2.833307254 0.010449179 0.011873086 4.22E-08 7.37441329 -0.15872793 SFEVEEVET(ph)PNS(ph)TPPRR ddPTM_HeLa_SAHA_4h_R1 1 SFEVEEVETPNSTPPRR 17 1 Q9UHD8;Q9UHD8-5;Q9UHD8-2;Q9UHD8-7;K7ENL0;K7EJV0;K7EPY1 Q9UHD8 9-Sep Septin-9 2 0 SFEVEEVET(0.848)PNS(0.576)T(0.576)PPRR 70.529 0.015076 3012400 871.02 746.98 863.05 969.11 1195.8 1043.1 1004.1 1029.8 1226.3 958.91 TRUE FALSE FALSE 962.63788 771.1826421 980.6619594 987.8685254 1104.178062 954.2220117 891.1160254 1003.459207 1217.766078 1000.253303 0.962394103 0.770987349 0.980413618 0.987618359 1.103898442 0.953980366 0.89089036 1.003205092 1.217457693 1 9.966149677 -8.667023766 1.378741938 0.994327596 0.956654597 0.085815284 0.106832536 1.156489473 4.400872668 0.025458867 0.015230551 2.15E-09 8.667023766 -0.037672999 SFEVEEVET(ph)PNST(ph)PPR ddPTM_HeLa_SAHA_4h_R1 2 SFEVEEVETPNSTPPR 16 0 Q9UHD8;Q9UHD8-5;Q9UHD8-2;Q9UHD8-7;K7ENL0;K7EJV0;K7EPY1 Q9UHD8 9-Sep Septin-9 2 0 SFEVEEVET(1)PNS(0.29)T(0.71)PPR;S(0.006)FEVEEVET(0.994)PNS(0.289)T(0.711)PPR ; 141.82 0.00045052 7398600 2090.73 2334.84 2475.01 2419.2 2753.8 3264.7 2533.3 2469.25 2703.33 2395.84 TRUE FALSE FALSE 2310.642574 2410.490348 2812.291474 2466.027114 2542.804439 2986.529193 2248.246417 2406.09016 2684.517306 2499.136387 0.92457642 0.964529331 1.125305321 0.986751714 1.017473257 1.195024493 0.899609332 0.962768648 1.074177992 1 11.28721392 -6.930739159 24.99977096 0.963337326 1.031229018 0.011657331 0.0865965 74.37060316 26843.08697 0.012874796 0.016920796 1.17E-07 6.930739159 0.067891692 SFEVEEVET(ph)PNST(ph)PPRR ddPTM_HeLa_SAHA_4h_R1 1 SFEVEEVETPNSTPPRR 17 1 Q9UHD8;Q9UHD8-5;Q9UHD8-2;Q9UHD8-7;K7ENL0;K7EJV0;K7EPY1 Q9UHD8 9-Sep Septin-9 2 0 SFEVEEVET(0.985)PNS(0.312)T(0.703)PPRR 65.598 0.0097568 3435800 976.68 822.77 765.5 873.64 788.46 1046.3 778.2 1004.8 884.43 834.74 TRUE FALSE FALSE 1079.411684 849.4282878 869.8183534 890.5505655 728.0483651 957.1493537 690.6348879 979.0986709 878.2751796 870.7297265 1.239663297 0.975536107 0.998953323 1.02276348 0.836135879 1.099249658 0.793167922 1.124457614 1.008665666 1 9.766081167 -7.145385524 12.05621584 1.113164607 0.972929708 0.129700962 0.115253687 0.682047717 67.41425451 0.020055399 0.024566042 7.16E-08 7.145385524 -0.140234899 SFGT(ph)RPLSSGFSPEEAQQQDEEFEK ddPTM_HeLa_SAHA_4h_R1 1 SFGTRPLSSGFSPEEAQQQDEEFEK 25 1 Q9C0C2;Q9C0C2-2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 S(0.385)FGT(0.423)RPLS(0.078)S(0.093)GFS(0.02)PEEAQQQDEEFEK 71.472 0.00098235 123670000 533.58 543.85 482.55 454.12 588.13 639.92 706.7 672.08 594 323.79 TRUE FALSE FALSE 589.7043926 561.4710968 548.309401 462.9101493 543.0676065 585.3952159 627.1802561 654.8891668 589.8663056 337.7501715 1.74597807 1.662385823 1.623417091 1.370569694 1.607897352 1.733219596 1.856935419 1.938975083 1.746457457 1 8.399812692 -10.86646519 0.324844676 1.77E-11 1.743744464 0 0.2795575 3.623216287 0.216654825 2.651089386 0.065694417 1.36E-11 10.86646519 1.743744464 SFGTRPLS(ph)SGFSPEEAQQQDEEFEK ddPTM_HeLa_SAHA_4h_R1 2 SFGTRPLSSGFSPEEAQQQDEEFEK 25 1 Q9C0C2;Q9C0C2-2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 S(0.163)FGT(0.183)RPLS(0.218)S(0.218)GFS(0.218)PEEAQQQDEEFEK;S(0.001)FGT(0.002)RPLS(0.332)S(0.332)GFS(0.332)PEEAQQQDEEFEK ; 101 4.66E-06 172956000 1412.94 1477.02 1317.91 1725.82 1751.85 1751.37 1755.74 1450.75 1436.84 1268.77 TRUE FALSE FALSE 1561.559512 1524.876417 1497.507911 1759.225742 1617.623631 1602.143423 1558.179514 1413.641916 1426.840913 1323.472884 1.179895358 1.152178058 1.131498748 1.329249555 1.222256724 1.210560067 1.177341473 1.068130623 1.078103625 1 10.37011292 -9.09817587 0.569801975 0.976281269 1.19382945 0.405402612 0.06772394 0.681571763 0.344598387 0.07742278 0.015903372 7.98E-10 9.09817587 0.21754818 SFISPIPSK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 SFISPIPSKR 10 1 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 0 1 ; SFISPIPSK(1)R;SFISPIPSK(1)R 99.013 0.0048745 14267500 769.12 1202.84 1291.07 2154.9 3791.7 2362.3 8807.2 5170.1 743.87 931.3 FALSE TRUE FALSE 850.0195704 1241.812805 1467.010296 2196.611206 3501.180765 2161.01875 7816.190677 5037.856328 738.6933481 971.4529007 0.874998232 1.278304696 1.510119837 2.261160787 3.604066407 2.224522412 8.04587713 5.185898693 0.760400579 1 9.924000241 -5.067928484 0.741198663 0.951951044 7.422674795 0.738225487 1.137258795 0.381907444 0.271311632 0.174836901 1.638610156 8.55E-06 5.067928484 6.470723752 SFLDSGY(ph)R ddPTM_HeLa_SAHA_4h_R1 2 SFLDSGYR 8 0 P18206;P18206-2 P18206 VCL Vinculin 1 0 SFLDSGY(1)R;SFLDSGY(1)R ; 143.89 0.0011892 27446000 3523.8 4557.9 4105.4 3725.4 4847.5 4626.2 4641.5 4031.3 4315.6 4062.2 TRUE FALSE FALSE 3894.449452 4705.578951 4664.862532 3797.510504 4476.085597 4232.021734 4119.226204 3928.185183 4285.567388 4237.341322 0.919078534 1.110502693 1.100893739 0.89620123 1.056342942 0.998744593 0.972125182 0.927040067 1.011381209 1 12.04894363 -1.030632195 21.59665974 0.982247096 0.004955678 0 0.072109136 0 0 0.009802178 0 0.093189677 1.030632195 -0.977291419 SFLSEPS(ph)SPGR ddPTM_HeLa_SAHA_4h_R1 1 SFLSEPSSPGR 11 0 Q69YN4-3;Q69YN4;H0YC41 Q69YN4-3 KIAA1429 Protein virilizer homolog 1 0 SFLSEPS(0.608)S(0.392)PGR 91.469 0.014094 101230000 3538.4 3435.4 3047 3588.7 4142.7 4094.6 4302.3 3682 3960 3811.5 TRUE FALSE FALSE 3910.585147 3546.709214 3462.229292 3658.164478 3825.287221 3745.717044 3818.193881 3587.819771 3932.442038 3975.832418 0.983589029 0.89206708 0.870818719 0.920100269 0.962134924 0.942121461 0.960350809 0.902407193 0.989086466 1 11.95704123 -7.378365753 5.832807991 0.992803029 0.923416253 0.574858099 0.02740036 0.131196754 5.825724708 0.005151658 0.005863607 4.18E-08 7.378365753 -0.069386776 SFLSEPSS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 4 SFLSEPSSPGR 11 0 Q69YN4-3;Q69YN4;H0YC41 Q69YN4-3 KIAA1429 Protein virilizer homolog 1 0 SFLSEPS(0.01)S(0.99)PGR;SFLSEPS(0.062)S(0.938)PGR;SFLSEPS(0.003)S(0.997)PGR;SFLSEPS(0.003)S(0.997)PGR ;;; 147.28 0.0006271 302656100 11507.4 11653.2 9145.3 11351.8 12881.7 12921.8 13270.8 12547.9 11923.4 11373.9 TRUE FALSE FALSE 12717.80113 12030.77133 10391.57386 11571.5305 11894.70693 11820.78994 11777.53466 12226.94289 11840.42409 11864.28449 1.071940001 1.014032606 0.875870253 0.975324767 1.002564203 0.996333993 0.992688153 1.030567237 0.997988888 1 13.53433748 -6.99022649 24.99829844 1.034446128 0.978202496 0.177470137 0.04275017 224.2438163 573558.6592 0.007476842 0.00981987 1.02E-07 6.99022649 -0.056243632 SFNFYVFPKPFNR ddPTM_HeLa_SAHA_4h_R1 2 SFNFYVFPKPFNR 13 1 O95453;O95453-2;A0A494C0W0;A0A494C0Q6;A0A494C002;A0A494C1N1;A0A494C0Q2;A0A494BZW7;A0A494C1K5;A0A494C0P9;A0A494BZU6;A0A494C156 O95453 PARN Poly(A)-specific ribonuclease PARN 0 0 ; ; 152.4 1.04E-05 3832480 1161.61 1340.79 1892.16 1631.03 1735.5 1368.17 1703.75 988.89 1180.41 1349.8 FALSE FALSE TRUE 1283.793469 1384.232476 2150.013711 1662.600944 1602.526365 1251.594219 1512.039566 963.5956257 1172.195431 1407.996484 0.911787412 0.983122111 1.527002188 1.180827483 1.138160772 0.888918569 1.073894419 0.684373602 0.832527243 1 10.45942802 -2.645911383 12.31897258 1.009891716 0.757428048 0 0.219012599 0 0 0.028410547 0 0.002259897 2.645911383 -0.252463668 SFPIKPVPS(ph)PSWSGSCR ddPTM_HeLa_SAHA_4h_R1 1 SFPIKPVPSPSWSGSCR 17 1 Q9P0U3;Q9P0U3-2 Q9P0U3 SENP1 Sentrin-specific protease 1 1 0 SFPIKPVPS(0.835)PS(0.14)WS(0.014)GS(0.011)CR 65.25 0.014371 7590600 1012.8 869.43 714.67 838.65 1123.1 1212.2 1026.2 1018.2 1217.9 855.48 TRUE FALSE FALSE 1119.330951 897.6001025 812.0615058 854.8832835 1037.048321 1108.91374 910.7292752 992.1559183 1209.424535 892.3639294 1.254343563 1.005867755 0.910011576 0.957998475 1.162136082 1.242669839 1.020580556 1.111828802 1.355304148 1 9.801488389 -13.52232938 0.006247932 0.545439222 1.600521771 0 0.141581374 281707.6398 142.4436236 13136.72997 11006.69589 3.00E-14 13.52232938 1.055082549 SFQQSS(ph)LSR ddPTM_HeLa_SAHA_4h_R1 1 SFQQSSLSR 9 0 A0A0R4J2E8;A8MXP9;P43243;D6REM6;D6R991;Q68E03;D6RB45;A0A1B0GX04;D6R9F3;D6RBS2;D6RCM3;D6REK4;D6R8Z5 A0A0R4J2E8 MATR3;DKFZp686L22104 Matrin-3 1 0 SFQQS(0.154)S(0.845)LS(0.001)R 86.288 0.02125 4514000 2328.8 2106.3 2200.3 2211.2 2386 3192.4 2860.8 2775.2 2202.4 2063.2 TRUE FALSE FALSE 2573.753869 2174.545502 2500.145425 2254.000973 2203.185195 2920.38956 2538.895255 2704.214402 2187.073319 2152.154649 1.19589634 1.010403924 1.161694131 1.047322958 1.023711375 1.356960831 1.179699264 1.256514909 1.016224982 1 11.07156604 -1.000000004 0.0188726 4.13E-13 2.600818566 0.355812083 0.094063007 3086.67636 4.537610081 236.719771 411.3940124 0.099999999 1.000000004 2.600818566 SFREPAPAEALPQQYPEPAPAALCGPPPRAPS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 SFREPAPAEALPQQYPEPAPAALCGPPPRAPSR 33 2 Q8IU81 Q8IU81 IRF2BP1 Interferon regulatory factor 2-binding protein 1 1 0 SFREPAPAEALPQQYPEPAPAALCGPPPRAPS(1)R;SFREPAPAEALPQQYPEPAPAALCGPPPRAPS(1)R ; 137.92 2.63E-19 10878100 347.132 534.97 513.7 257.11 472.89 809.52 707.66 328.47 397.17 493.44 TRUE FALSE FALSE 383.6449365 552.303379 583.7043608 262.0867358 436.6572704 740.5443418 628.0322343 320.068213 394.4060616 514.7146132 0.745354662 1.073028363 1.13403495 0.509188449 0.848348306 1.438747459 1.220156215 0.621836266 0.766261636 1 9.007628932 SFS(ph)ASQSTDR ddPTM_HeLa_SAHA_4h_R1 1 SFSASQSTDR 10 0 Q9ULJ3-2;Q9ULJ3 Q9ULJ3-2 ZBTB21 Zinc finger and BTB domain-containing protein 21 1 0 S(0.024)FS(0.972)AS(0.003)QS(0.001)TDR 91.961 0.0073728 0 450.64 544.21 524.42 856.62 479.71 705.63 649.3 626.1 757.31 576.6 TRUE FALSE FALSE 498.0403828 561.8427611 595.8852265 873.2011188 442.9547234 645.5063542 576.2390551 610.0852686 752.0398181 601.4600478 0.828052311 0.934131474 0.990731186 1.451802363 0.736465747 1.073232306 0.958067052 1.014340472 1.250357062 1 9.232325099 -6.674760623 4.813369787 0.917702473 1.043078392 0 0.19919811 0.369804284 15.06200022 0.026508788 0.037577819 2.11E-07 6.674760623 0.125375919 SFS(ph)EDTLMDGPAR ddPTM_HeLa_SAHA_4h_R1 3 SFSEDTLMDGPAR 13 0 Q9BRG2;M0QZQ6 Q9BRG2 SH2D3A SH2 domain-containing protein 3A 1 0 SFS(1)EDTLMDGPAR;S(0.012)FS(0.984)EDT(0.004)LMDGPAR;S(0.036)FS(0.961)EDT(0.003)LMDGPAR ;; 166.86 2.77E-16 0 2462.47 3090.01 2762.55 2889.13 3352.5 3695.6 3880.1 3198.84 3373.61 2927.98 TRUE FALSE FALSE 2721.483893 3190.128351 3139.015927 2945.053289 3095.632174 3380.714089 3443.500936 3117.018305 3350.132773 3054.219547 0.891057061 1.044498702 1.027763682 0.964257233 1.013559152 1.1068995 1.127456911 1.020561311 1.096886691 1 11.57658806 -5.801713862 0.843598376 0.954955922 1.092130285 0 0.06784698 0.476052362 0.629885367 0.010837792 0.037047433 1.58E-06 5.801713862 0.137174363 SFS(ph)EDVISHK ddPTM_HeLa_SAHA_4h_R1 1 SFSEDVISHK 10 0 Q03001;F8W9J4;Q03001-14;F6QMI7;E9PHM6;Q03001-8;A0A494C1D7;H0YC82;Q03001-10 Q03001 DST Dystonin 1 0 S(0.251)FS(0.749)EDVISHK 122.55 0.002118 13688000 4039.9 5175.9 3590.5 4162 6034.2 5685.1 5855.1 5035.2 6844.9 5314.2 TRUE FALSE FALSE 4464.835218 5343.602556 4079.794641 4242.561528 5571.8609 5200.697497 5196.268738 4906.406875 6797.265784 5543.321169 0.80544408 0.963971308 0.735983811 0.765346513 1.005148489 0.938191625 0.937392689 0.885102401 1.226208184 1 12.43653488 -3.911740428 11.90052756 0.899471551 0.723886872 0 0.137363321 5259744.104 19033544.99 0.014211083 22613524.4 0.000122535 3.911740428 -0.175584679 SFS(ph)GNPR ddPTM_HeLa_SAHA_4h_R1 1 SFSGNPR 7 0 Q9NQS3-3 Q9NQS3-3 PVRL3 Nectin-3 1 0 S(0.007)FS(0.993)GNPR 98.582 0.014612 19378000 3266.5 3529 2820.5 3874.3 3800.5 4229.9 4289.1 3356 2880.1 3856.8 TRUE FALSE FALSE 3610.085457 3643.341915 3204.863051 3949.292679 3509.306511 3869.488723 3806.47918 3270.158379 2860.05715 4023.085523 0.897342459 0.905608865 0.796618176 0.98165765 0.872292297 0.961821145 0.94615915 0.812848338 0.710911347 1 11.97408669 -9.096930916 0.804421555 1.001965138 0.899522999 0 0.106139862 0.621503788 0.710333962 0.038933826 0.010734563 8.00E-10 9.096930916 -0.102442139 SFS(ph)LDPLMER ddPTM_HeLa_SAHA_4h_R1 1 SFSLDPLMER 10 0 Q63HR2-6;Q63HR2;Q63HR2-4;F8VV64;Q63HR2-2 Q63HR2-6 TNS2 Tensin-2 1 0 S(0.002)FS(0.998)LDPLMER 118.23 0.0033192 2635800 1331.6 1523.1 1236 1150.6 1641.8 1823.6 1685.7 1597.3 1332.9 1355.8 TRUE FALSE FALSE 1471.663798 1572.449439 1404.435643 1172.871527 1516.005639 1668.219021 1496.020599 1556.443379 1323.62424 1414.255173 1.040592833 1.111856947 0.993056748 0.829321009 1.071946327 1.179574275 1.057815186 1.100539286 0.935916138 1 10.46582673 -5.531001911 24.99864609 1.010791127 1.110260199 0.344385833 0.075973997 181.0490984 557168.331 0.010647764 0.021324834 2.94E-06 5.531001911 0.099469072 SFS(ph)MQDLR ddPTM_HeLa_SAHA_4h_R1 2 SFSMQDLR 8 0 E5RGS2;Q9H6H4 E5RGS2 REEP4 Receptor expression-enhancing protein;Receptor expression-enhancing protein 4 1 0 SFS(1)MQDLR;S(0.225)FS(0.775)MQDLR ; 119.27 0.0037069 16412100 7712.8 10211.2 6172.6 7246.1 9602.4 10995.7 8486.5 9649 7776.7 8147.4 TRUE FALSE FALSE 8524.067692 10542.04958 7013.769782 7386.358744 8866.666186 10058.8045 7531.576685 9402.192552 7722.581312 8498.674286 1.002987925 1.240434593 0.825278102 0.869118935 1.043299918 1.183573362 0.886206064 1.106312848 0.908680701 1 13.0530221 -3.908185628 18.4031945 1.00567317 6.032452205 0.058427299 0.127705106 454.4065539 91609.73265 0.015747343 550.53866 0.000123542 3.908185628 5.026779034 SFS(ph)PEER ddPTM_HeLa_SAHA_4h_R1 1 SFSPEER 7 0 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1;A0A3B3IT83 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 SFS(1)PEER 96.034 0.016213 14520000 2037 1843.2 2116.3 2146.9 2685.4 2437.7 2694.6 2152.4 2255.7 1706.8 TRUE FALSE FALSE 2251.261006 1902.920889 2404.698343 2188.456354 2479.645232 2229.994246 2391.396516 2097.344725 2240.0024 1780.388501 1.264477391 1.068823399 1.350659332 1.229201578 1.392755138 1.25253238 1.343188026 1.178026438 1.258153711 1 10.79797637 -10.07372174 0.318251908 0.786551449 1.294415024 0 0.118234246 2.944940084 0.256506869 0.565813448 0.037395878 8.44E-11 10.07372174 0.507863576 SFS(ph)PLQPGQAPTGR ddPTM_HeLa_SAHA_4h_R1 1 SFSPLQPGQAPTGR 14 0 Q7Z3C6;H7C152;Q7Z3C6-2;H7C1G6 Q7Z3C6 ATG9A Autophagy-related protein 9A 1 0 S(0.421)FS(0.574)PLQPGQAPT(0.005)GR 147.64 9.73E-05 21917000 538.97 690.71 463.1 618.8 557.59 727.06 636.86 653.06 755.77 617.78 TRUE FALSE FALSE 595.6613375 713.0894572 526.2088563 630.7777688 514.8675747 665.1103977 565.1988367 636.3556708 750.510535 644.4155191 0.924343564 1.106567791 0.816567635 0.978837024 0.798968304 1.032114184 0.877072044 0.987492777 1.164637587 1 9.331847428 -6.738945984 24.99897471 0.973947251 0.9163704 0.16326833 0.102340429 405.9088089 451122.7136 0.012097724 0.017101375 1.82E-07 6.738945984 -0.05757685 SFS(ph)PTMK ddPTM_HeLa_SAHA_4h_R1 2 SFSPTMK 7 0 A3KN83-4;A3KN83-3;A3KN83-2;A3KN83 A3KN83-4 SBNO1 Protein strawberry notch homolog 1 1 0 S(0.062)FS(0.876)PT(0.062)MK;S(0.202)FS(0.399)PT(0.399)MK ; 110.12 0.0081167 44827000 8488.8 8998.4 7808.1 8275.1 9350.6 10643.5 8997.4 8108 9810.7 8793.3 TRUE FALSE FALSE 9381.690932 9289.954064 8872.147205 8435.276526 8634.159048 9736.613921 7984.988872 7900.6091 9742.42654 9172.422196 1.022814992 1.012813613 0.967263283 0.919634568 0.941317229 1.061509568 0.870543102 0.861343812 1.062143274 1 13.16308705 -2.197606431 0.423869457 1.008642726 4.19E-14 0.487290995 0.049304725 15.22491794 0.462454811 0.010745526 11.35167511 0.006344444 2.197606431 -1.008642726 SFS(ph)SNVNLK ddPTM_HeLa_SAHA_4h_R1 1 SFSSNVNLK 9 0 M0R1N2;A0A494C1I7;M0QY62;E7ETH6 M0R1N2 ZNF587B Zinc finger protein 587B 1 0 S(0.001)FS(0.5)S(0.5)NVNLK 94.662 0.014397 5632700 175.52 268.02 198.83 174.59 123.71 248.69 320.35 334.42 141.32 175.79 TRUE FALSE FALSE 193.9819989 276.7040239 225.9255169 177.9694419 114.2313665 227.5002129 284.3033749 325.8660206 140.3365426 183.3691672 1.057876861 1.50899973 1.232080182 0.970552709 0.622958419 1.240667754 1.550442636 1.777103674 0.765322463 1 7.518607266 -4.751472158 2.853122615 1.050282555 1.723154157 0.549392434 0.230715084 0.144834478 2.324258423 0.031099925 0.139453075 1.77E-05 4.751472158 0.672871602 SFS(ph)SPENFQR ddPTM_HeLa_SAHA_4h_R1 4 SFSSPENFQR 10 0 G3V1T9;I3L521;F5GXV8;F5GY08;J3KPD3;Q9Y580 G3V1T9 RBM7 RNA-binding protein 7 1 0 S(0.22)FS(0.721)S(0.059)PENFQR;SFS(0.903)S(0.097)PENFQR;S(0.079)FS(0.914)S(0.007)PENFQR;S(0.04)FS(0.48)S(0.48)PENFQR ;;; 163.46 0.00017909 86877600 4470.51 7494.6 6337.98 2506.73 5551.82 7002.58 7308.9 2944.07 3029.28 6197.73 TRUE FALSE FALSE 4940.738753 7737.429957 7201.686908 2555.251384 5126.440751 6405.920789 6486.483336 2868.764952 3008.198994 6464.944471 0.764235296 1.196828525 1.113959592 0.395247228 0.79295975 0.990870195 1.00333164 0.443741623 0.465309332 1 12.65842226 SFS(ph)SQRPGMER ddPTM_HeLa_SAHA_4h_R1 2 SFSSQRPGMER 11 1 P48634;P48634-2;P48634-3 P48634 PRRC2A Protein PRRC2A 1 0 SFS(0.898)S(0.102)QRPGMER;SFS(0.998)S(0.002)QRPGMER ; 113.61 0.014594 33611000 6529.9 3998.4 4997.9 7389.4 4062.4 7709.6 4504.8 5059.2 4416.2 4860.5 TRUE FALSE FALSE 7216.744842 4127.950783 5678.987784 7532.432522 3751.13979 7052.698707 3997.908048 4929.79299 4385.467305 5070.059942 1.423404245 0.81418185 1.120102691 1.485669323 0.739861034 1.391048388 0.788532699 0.972334262 0.864973463 1 12.30778709 -4.744434826 24.99814093 1.168458607 0.880433405 0.067810129 0.257698578 321.6492982 472844.0863 0.033885257 0.126129503 1.80E-05 4.744434826 -0.288025202 SFS(ph)SSAEEHS ddPTM_HeLa_SAHA_4h_R1 1 SFSSSAEEHS 10 0 Q96EQ0 Q96EQ0 SGTB Small glutamine-rich tetratricopeptide repeat-containing protein beta 1 0 S(0.001)FS(0.99)S(0.003)S(0.007)AEEHS 214.71 2.68E-15 15199000 3371.8 3600.2 2387.4 4421.8 5241.6 6022 5305.7 6163.4 4286.5 3549.4 TRUE FALSE FALSE 3726.461394 3716.848842 2712.742439 4507.390333 4839.98974 5508.891721 4708.688672 6005.749152 4256.669897 3702.432004 1.006490164 1.003893883 0.732692035 1.2174134 1.307246084 1.487911652 1.271782619 1.622109237 1.14969563 1 11.85425753 -5.868640571 2.564668005 0.984774219 1.428431148 0.712066951 0.132616591 0.097766304 1.305788007 0.0169787 0.033815692 1.35E-06 5.868640571 0.443656929 SFSAS(ph)QSTDREGASPVTEVR ddPTM_HeLa_SAHA_4h_R1 1 SFSASQSTDREGASPVTEVR 20 1 Q9ULJ3-2;Q9ULJ3 Q9ULJ3-2 ZBTB21 Zinc finger and BTB domain-containing protein 21 1 0 S(0.022)FS(0.394)AS(0.519)QS(0.048)T(0.017)DREGASPVTEVR 96.561 0.004388 5139700 850.31 582.28 570.29 692.94 728.55 833.49 874.82 938.83 576.3 849.76 TRUE FALSE FALSE 939.7495072 601.146254 648.0061513 706.3528557 672.7286564 762.4719629 776.3829512 914.816088 572.2894814 886.3973122 1.060189933 0.67819052 0.731056088 0.796880638 0.758947085 0.860192097 0.875885949 1.03206099 0.645635398 1 9.791809697 -7.28062051 24.93479699 1.028423031 0.816253919 0 0.151783464 456.5027789 593436.1434 0.016330592 0.018689967 5.24E-08 7.28062051 -0.212169113 SFSEDAVTDSSGSGT(ph)LPR ddPTM_HeLa_SAHA_4h_R1 4 SFSEDAVTDSSGSGTLPR 18 0 Q27J81-2;Q27J81;A0A0A0MQU1 Q27J81-2 INF2 Inverted formin-2 1 0 SFSEDAVTDS(0.001)S(0.008)GS(0.003)GT(0.988)LPR;SFSEDAVTDSSGS(0.003)GT(0.997)LPR;SFSEDAVTDSSGS(0.026)GT(0.974)LPR;SFSEDAVTDSSGS(0.05)GT(0.95)LPR ;;; 231.06 1.39E-28 15879300 2752.29 3414.27 2781.24 2599.42 2898.81 3232.25 2660.28 2777.26 3398.6 2987.63 TRUE FALSE FALSE 3041.78849 3524.894588 3160.252903 2649.735533 2676.703804 2956.844116 2360.938293 2706.221711 3374.948866 3116.44135 0.976045479 1.13106399 1.014058199 0.850243991 0.858897538 0.948788629 0.757575076 0.868369209 1.082949585 1 11.60568385 -6.260314012 24.93748132 1.003073846 0.856493583 0.648105691 0.064893268 53.77372915 1191591.286 0.009220339 0.014757751 5.49E-07 6.260314012 -0.146580264 SFSEDT(ph)LMDGPAR ddPTM_HeLa_SAHA_4h_R1 1 SFSEDTLMDGPAR 13 0 Q9BRG2;M0QZQ6 Q9BRG2 SH2D3A SH2 domain-containing protein 3A 1 0 SFSEDT(1)LMDGPAR 258.78 4.99E-42 8470900 1138.3 1270.2 979.45 979.76 1212.3 1682.3 1370.4 1308.6 1138.6 1153.6 TRUE FALSE FALSE 1258.031617 1311.355313 1112.924345 998.7246716 1119.413836 1538.958576 1216.198985 1275.127907 1130.67639 1203.337342 1.045452155 1.089765329 0.924864796 0.829962336 0.930257707 1.278908684 1.010688311 1.059659551 0.939617139 1 10.23282543 SFSKEELMS(ph)SDLEETAGSTSIPK ddPTM_HeLa_SAHA_4h_R1 2 SFSKEELMSSDLEETAGSTSIPK 23 1 O00567 O00567 NOP56 Nucleolar protein 56 1 0 SFSKEELMS(0.466)S(0.466)DLEET(0.039)AGS(0.019)T(0.006)S(0.002)IPK;S(0.007)FS(0.021)KEELMS(0.482)S(0.482)DLEET(0.005)AGS(0.002)TSIPK ; 69.272 0.010962 15961900 2377.42 2102.91 1980.09 2630.6 2229.3 2678.5 2849 2886.91 2336.74 2967.7 TRUE FALSE FALSE 2627.487944 2171.045664 2249.926353 2681.519067 2058.491516 2450.276731 2528.423022 2813.067022 2320.478436 3095.652071 0.848767201 0.701320954 0.726802077 0.866221076 0.664962169 0.791522004 0.816765891 0.908715501 0.749592778 1 11.59602762 -8.354724155 0.846317757 0.982827596 0.782625533 0 0.10250994 0.289848179 0.436954541 0.027559152 0.01611631 4.42E-09 8.354724155 -0.200202063 SFSKEELMSS(ph)DLEETAGSTSIPK ddPTM_HeLa_SAHA_4h_R1 2 SFSKEELMSSDLEETAGSTSIPK 23 1 O00567 O00567 NOP56 Nucleolar protein 56 1 0 SFSKEELMS(0.272)S(0.725)DLEET(0.003)AGSTSIPK;SFSKEELMS(0.172)S(0.828)DLEETAGSTSIPK ; 122.65 5.31E-06 53138000 8735.8 7314.7 6640.5 8472.4 8521.7 9160.4 10029.9 11426.9 8183.6 8419.7 TRUE FALSE FALSE 9654.671525 7551.701079 7545.432758 8636.395553 7868.769187 8379.882385 8901.309255 11134.61644 8126.649661 8782.714472 1.099281043 0.859836797 0.859123086 0.983340126 0.895938176 0.954133533 1.013503204 1.267787593 0.925300451 1 13.10045119 -4.263335172 5.345705034 1.000226909 1.27820114 0.504863365 0.082667853 0.118496711 12.17913761 0.013472473 0.12030161 5.45E-05 4.263335172 0.277974231 SFSLASSSNS(ph)PISQR ddPTM_HeLa_SAHA_4h_R1 4 SFSLASSSNSPISQR 15 0 Q9BXB4 Q9BXB4 OSBPL11 Oxysterol-binding protein-related protein 11 1 0 SFSLASSSNS(1)PISQR;SFSLASSSNS(0.996)PIS(0.004)QR;SFSLASSSNS(0.918)PIS(0.082)QR;SFSLASSSNS(1)PISQR ;;; 262.24 1.89E-44 271421800 4996.54 5425.3 4757.7 5798.16 5555.77 5472.55 5673.38 5333.56 4855.28 5309.61 TRUE FALSE FALSE 5522.099002 5601.08328 5406.054579 5910.391771 5130.088103 5006.257952 5034.996351 5197.135258 4821.491711 5538.533272 0.99703274 1.011293605 0.976080546 1.067140248 0.926253911 0.903895979 0.909084789 0.93835949 0.870535839 1 12.43528825 -5.620494404 9.075871724 1.001992994 0.916128474 0.296160688 0.047967939 0.091866526 7.70840769 0.003120194 0.006247169 2.40E-06 5.620494404 -0.08586452 SFT(ph)GGLGQLVVPSK ddPTM_HeLa_SAHA_4h_R1 1 SFTGGLGQLVVPSK 14 0 Q9Y3Q8 Q9Y3Q8 TSC22D4 TSC22 domain family protein 4 1 0 S(0.404)FT(0.596)GGLGQLVVPSK 116.79 0.0019357 23786000 2156.5 2639.9 2670.3 1623.9 2204.1 2232 2243 1787.7 1958.6 2734.3 TRUE FALSE FALSE 2383.330564 2725.434492 3034.194578 1655.332933 2035.222334 2041.821043 1990.611737 1741.973223 1944.969943 2852.189054 0.835614512 0.95555885 1.063812573 0.580372795 0.713565018 0.715878578 0.69792419 0.610749564 0.681921817 1 11.4778539 -6.256108672 24.99978138 0.933062144 0.671268787 0.56604412 0.105386984 185.8289104 871493.7706 0.012609286 0.020511453 5.54E-07 6.256108672 -0.261793357 SFTQNS(ph)ILIEHQRT(ph)HT(ph)GEK ddPTM_HeLa_SAHA_4h_R1 1 SFTQNSILIEHQRTHTGEK 19 1 Q3MJ62 Q3MJ62 ZSCAN23 Zinc finger and SCAN domain-containing protein 23 3 0 S(0.032)FT(0.032)QNS(0.937)ILIEHQRT(1)HT(1)GEK 59.728 0.0075802 0 0 173.83 240.43 199.55 142.49 210.57 141.37 148.58 166.83 143.14 TRUE FALSE FALSE 0 179.4622061 273.1945483 203.4125788 131.572447 192.6282514 125.4626755 144.7795387 165.6690164 149.3114659 0 1.201931847 1.829695708 1.362337296 0.88119453 1.290110242 0.84027489 0.969647829 1.109553211 1 7.222181147 -7.219540754 21.87502053 0.527777873 1.204969659 0.211866447 0.394400836 100.3029481 52367.26521 0.076189755 0.09331159 6.03E-08 7.219540754 0.677191786 SFTSS(ph)SPSSPSR ddPTM_HeLa_SAHA_4h_R1 1 SFTSSSPSSPSR 12 0 O94875-11;O94875-9;O94875-12;O94875-8;O94875-7;H7BZX1;H7BZK1;H7C1R7;O94875-4;O94875;O94875-10;O94875-2;O94875-5;O94875-3;H7BXR3 O94875-11 SORBS2 Sorbin and SH3 domain-containing protein 2 1 0 SFT(0.001)S(0.001)S(0.493)S(0.493)PS(0.012)S(0.001)PSR 184.87 1.05E-06 112110000 2366.7 2748.1 2397.2 2994.4 3140.4 3515.1 2952.6 2930.6 2891.7 2529.9 TRUE FALSE FALSE 2615.640365 2837.140243 2723.877932 3052.360942 2899.78323 3215.593705 2620.365677 2855.639495 2871.576424 2638.97637 0.991157175 1.075091189 1.032172157 1.156645803 1.098828797 1.218500378 0.992947761 1.082101199 1.088140257 1 11.36576272 -6.904835673 1.46449416 0.995432711 1.105879169 0.154245686 0.064539407 0.267090748 1.141426361 0.010052457 0.013874837 1.24E-07 6.904835673 0.110446458 SFTSSS(ph)PSS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 SFTSSSPSSPSR 12 0 O94875-11;O94875-9;O94875-12;O94875-8;O94875-7;H7BZX1;H7BZK1;H7C1R7;O94875-4;O94875;O94875-10;O94875-2;O94875-5;O94875-3;H7BXR3 O94875-11 SORBS2 Sorbin and SH3 domain-containing protein 2 2 0 SFT(0.003)S(0.027)S(0.374)S(0.592)PS(0.011)S(0.983)PS(0.01)R 122.55 0.015914 19113000 2344.3 2266.9 2174.6 2126.3 2616.2 2686.3 2097.7 2133.8 2449.7 2459.9 TRUE FALSE FALSE 2590.88423 2340.349047 2470.943163 2167.457611 2415.747321 2457.412127 1861.661275 2079.220486 2432.652338 2565.958327 1.009714071 0.912076016 0.962970886 0.844697121 0.941460076 0.957697598 0.725522802 0.81030953 0.948048264 1 11.32528203 -2.906118847 0.277873636 1.015350545 0.281836501 0.508901063 0.060195907 7.719259351 0.246435802 0.026397913 2.228373266 0.001241313 2.906118847 -0.733514044 SFTSSSPS(ph)SPSR ddPTM_HeLa_SAHA_4h_R1 1 SFTSSSPSSPSR 12 0 O94875-11;O94875-9;O94875-12;O94875-8;O94875-7;H7BZX1;H7BZK1;H7C1R7;O94875-4;O94875;O94875-10;O94875-2;O94875-5;O94875-3;H7BXR3 O94875-11 SORBS2 Sorbin and SH3 domain-containing protein 2 1 0 SFTS(0.002)S(0.058)S(0.058)PS(0.871)S(0.012)PSR 168.82 8.73E-05 110250000 3466.4 3991.2 3524.5 4145.3 4292.2 4927.5 4421.3 4484.1 4105.8 3997.5 TRUE FALSE FALSE 3831.011856 4120.517499 4004.800505 4225.538276 3963.332563 4507.649279 3923.803688 4369.403215 4077.227404 4169.851788 0.918740533 0.988168815 0.96041795 1.013354548 0.950473246 1.081009472 0.940993562 1.04785576 0.977787128 1 12.02578039 -6.005452724 1.20329616 0.962517265 1.010677291 0.148796288 0.043568176 0.632819415 1.814170318 0.007552833 0.017476592 9.88E-07 6.005452724 0.048160026 SFTSSSPSS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 4 SFTSSSPSSPSR 12 0 O94875-11;O94875-9;O94875-12;O94875-8;O94875-7;H7BZX1;H7BZK1;H7C1R7;O94875-4;O94875;O94875-10;O94875-2;O94875-5;O94875-3;H7BXR3 O94875-11 SORBS2 Sorbin and SH3 domain-containing protein 2 1 0 SFTSSSPS(0.003)S(0.993)PS(0.003)R;SFTSSS(0.001)PS(0.01)S(0.875)PS(0.115)R;SFTSSSPS(0.011)S(0.97)PS(0.018)R;SFTSSSPS(0.12)S(0.879)PS(0.001)R ;;; 137.4 0.00077038 67285700 9521.2 9877.4 9268.7 9975.6 11092 11456.9 11886 12086.7 10651.5 9912 TRUE FALSE FALSE 10522.6835 10197.43424 10531.79017 10168.69216 10242.13336 10480.70767 10548.556 11777.53972 10577.37534 10339.35483 1.017731152 0.986273748 1.018611929 0.983493877 0.99059695 1.01367134 1.020233484 1.139098127 1.023020829 1 13.33585854 -4.233621036 2.944753183 1.005026301 1.166948374 0.899709803 0.01342469 0.094162913 1.096780841 0.001786923 0.03702275 5.84E-05 4.233621036 0.161922074 SFVLNLGK ddPTM_HeLa_SAHA_4h_R1 2 SFVLNLGK 8 0 P09382 P09382 LGALS1 Galectin-1 0 0 ; ; 144.38 0.00010475 73454000 12128.3 11895.8 24180 18833.7 17285.5 4736.7 19750.1 3126.1 1787.67 5331.2 FALSE FALSE TRUE 13404.01024 12281.23173 27475.12448 19198.2535 15961.08872 4333.106512 17527.76677 3046.138889 1775.229459 5561.054122 2.410336232 2.208435929 4.940632454 3.452268774 2.870155257 0.779187977 3.151878472 0.547762856 0.319225352 1 12.44114266 -4.233102455 22.62077669 2.147406769 0.547754276 0.126501612 1.32814807 4755.354205 3795877.519 0.186191287 19.52259186 5.85E-05 4.233102455 -1.599652493 SFYPEEVSSMVLTK ddPTM_HeLa_SAHA_4h_R1 3 SFYPEEVSSMVLTK 14 0 P11142;E9PKE3;P11142-2;E9PN89;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;E9PN25;E9PI65 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ;; ;; 243.53 7.67E-56 89299310 2716.54 2504.75 2460.49 2909.96 2880.538 2869.25 2909.98 3166.55 2886.151 2482.06 FALSE FALSE TRUE 3002.278141 2585.905543 2795.792764 2966.286484 2659.831801 2624.773758 2582.541392 3085.554236 2866.06604 2589.073754 1.159595449 0.998776315 1.079842843 1.145694084 1.027329483 1.013788717 0.99747695 1.191759884 1.106985089 1 11.33822035 SGAAAEK(ac)ADSR ddPTM_HeLa_SAHA_4h_R1 2 SGAAAEKADSR 11 1 Q9H967 Q9H967 WDR76 WD repeat-containing protein 76 0 1 ; SGAAAEK(1)ADSR;SGAAAEK(1)ADSR 107.03 0.007974 676460 338.17 110.52 0 620.92 589.3 501.18 490.91 488.54 323.72 0 FALSE TRUE FALSE 373.7402722 114.1009205 0 632.9388045 544.1479613 458.4766444 435.6715148 476.0438542 321.4672062 0 0 RQTEPVSPVLK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 RQTEPVSPVLKR 12 2 Q8IYH5-2;Q8IYH5;Q8IYH5-4 Q8IYH5-2 ZZZ3 ZZ-type zinc finger-containing protein 3 0 1 ; RQTEPVSPVLK(1)R;RQTEPVSPVLK(1)R 125.03 0.00052978 3908700 478.5 552.36 402.28 823.23 1202.65 1559.53 2005.67 1829.31 353.297 558.32 FALSE TRUE FALSE 528.8308254 570.2568264 457.1006234 839.1648071 1110.503217 1426.64927 1779.986733 1782.518899 350.8383774 582.3919076 0.908032578 0.979163376 0.784867745 1.44089366 1.906797128 2.449637867 3.056338369 3.060686242 0.602409431 1 9.185846499 -5.391891059 1.111269776 0.940173484 3.155002291 0.970488323 0.153424283 0.04635581 0.103038542 0.017690397 0.074017865 4.06E-06 5.391891059 2.214828807 up SGAHSSAS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 1 SGAHSSASPPR 11 0 P18615;P18615-3;A0A0A0MT02;E9PD43;A0A0A0MSN9;P18615-4;A0A0G2JI50 P18615 NELFE Negative elongation factor E 1 0 SGAHS(0.001)S(0.001)AS(0.998)PPR 130.69 0.0012971 1833400 246.78 215.84 137.75 331.74 357.51 760.01 258.72 286 139.03 258.07 TRUE FALSE FALSE 272.7374527 222.8333576 156.5218526 338.1613074 330.117661 695.2528723 229.6081447 278.6845341 138.0624789 269.1966607 1.01315318 0.827771626 0.581440543 1.256186858 1.226306672 2.58269501 0.85293831 1.035245138 0.512868468 1 8.072516703 -5.870086817 3.021977143 0.9613593 1.472727048 0.253523785 0.473856725 0.301440238 5.529431896 0.066098585 0.128457804 1.35E-06 5.870086817 0.511367748 SGAMS(ph)PMSWNSDASTSEAS ddPTM_HeLa_SAHA_4h_R1 1 SGAMSPMSWNSDASTSEAS 19 0 Q13158 Q13158 FADD FAS-associated death domain protein 1 0 SGAMS(0.942)PMS(0.057)WNS(0.001)DASTSEAS 122.46 0.00029651 4494700 686.67 842.69 641.09 592.39 847.72 1178.7 711.69 958.35 784.95 816.54 TRUE FALSE FALSE 758.8971012 869.9937089 728.4544065 603.8565651 782.7678767 1078.268129 631.6087681 933.8367947 779.487469 851.7450354 0.89099093 1.021425042 0.855249372 0.708963997 0.919016659 1.265951762 0.741546756 1.096380672 0.915165263 1 9.734277823 -3.938234093 19.84916107 0.938432741 3.754381607 0.101736601 0.148140309 469.4008772 162896.1007 0.019057145 4554.62589 0.000115283 3.938234093 2.815948867 SGAQAS(ph)STPLSPTR ddPTM_HeLa_SAHA_4h_R1 1 SGAQASSTPLSPTR 14 0 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 SGAQAS(0.44)S(0.44)T(0.119)PLS(0.001)PTR 106.38 0.002924 13294000 1444.4 1489.1 1538.3 1485.5 1438.7 1591.6 1562.9 1679.1 1370.5 1241.4 TRUE FALSE FALSE 1596.328619 1537.347817 1747.931513 1514.254001 1328.467117 1455.986726 1387.038379 1636.151053 1360.962579 1294.922829 1.232759654 1.187211919 1.349834502 1.169377793 1.025904468 1.124381077 1.071135937 1.263512401 1.050998985 1 10.33865041 -9.389662089 1.117400189 1.000127505 1.177874419 0.314696998 0.089138195 0.462322794 1.033573792 0.063600034 0.01632868 4.08E-10 9.389662089 0.177746914 SGAQASS(ph)TPLSPTR ddPTM_HeLa_SAHA_4h_R1 5 SGAQASSTPLSPTR 14 0 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 S(0.003)GAQAS(0.088)S(0.684)T(0.126)PLS(0.088)PT(0.012)R;SGAQAS(0.181)S(0.638)T(0.181)PLSPTR;SGAQAS(0.174)S(0.565)T(0.26)PLS(0.001)PTR;SGAQAS(0.338)S(0.502)T(0.155)PLS(0.005)PTR;S(0.003)GAQAS(0.12)S(0.539)T(0.328)PLS(0.007)PT(0.002)R ;;;; 160.03 1.31E-05 107824400 15297.5 14744.4 13883 14839.1 16720.7 17898.7 17241.1 17548.1 15770.5 14627.8 TRUE FALSE FALSE 16906.56124 15222.12823 15774.90294 15126.33224 15439.56358 16373.63006 15301.08605 17099.24501 15660.75181 15258.47604 1.108011127 0.997617861 1.033845247 0.991339646 1.011867996 1.073084233 1.002792547 1.12063911 1.026364085 1 13.89732326 -4.243194089 23.4594799 1.039726632 1.120639272 0.318055994 0.037177327 2113.536863 2717446.027 0.00646962 0.263902924 5.71E-05 4.243194089 0.08091264 SGAQASST(ph)PLS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 3 SGAQASSTPLSPTR 14 0 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 2 0 S(0.002)GAQAS(0.071)S(0.375)T(0.551)PLS(0.818)PT(0.181)R;SGAQAS(0.097)S(0.475)T(0.428)PLS(0.886)PT(0.114)R;S(0.001)GAQAS(0.045)S(0.184)T(0.771)PLS(0.778)PT(0.222)R ;; 146.1 0.0026317 253283000 11172.5 10888.1 9941 11082.8 12778.6 13452.6 12889 10766.5 11702.9 11167.9 TRUE FALSE FALSE 12347.67481 11240.88158 11295.70771 11297.32362 11799.50643 12306.3628 11438.6958 10491.10852 11621.45857 11649.40282 1.059940582 0.964932002 0.969638348 0.96977706 1.01288509 1.056394305 0.981912633 0.9005705 0.997601228 1 13.50796838 -7.250619015 24.7490253 1.028305275 0.983036048 0.1527774 0.04062266 776.0781159 1775096.831 0.007274886 0.00885839 5.62E-08 7.250619015 -0.045269227 SGAQASST(ph)PLSPTR ddPTM_HeLa_SAHA_4h_R1 1 SGAQASSTPLSPTR 14 0 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 S(0.005)GAQAS(0.06)S(0.193)T(0.622)PLS(0.06)PT(0.06)R 133.9 0.00067172 74541000 3496.7 3612.5 2771.5 3245.8 3673.8 3778.9 3945 3599 3067.1 3128.4 TRUE FALSE FALSE 3864.498949 3729.54737 3149.185587 3308.627153 3392.314238 3456.91646 3501.098217 3506.942791 3045.755801 3263.280634 1.184237393 1.142882819 0.965036704 1.013895991 1.039541069 1.059337779 1.072876841 1.074667853 0.933341671 1 11.67210735 -6.77857507 24.99910928 1.093623029 1.039169084 0 0.073505458 439.4486424 641106.1883 0.012545552 0.016511232 1.67E-07 6.77857507 -0.054453945 SGAQASSTPLS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 6 SGAQASSTPLSPTR 14 0 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 1 0 SGAQASST(0.001)PLS(0.691)PT(0.308)R;SGAQASS(0.001)T(0.002)PLS(0.499)PT(0.499)R;SGAQASST(0.002)PLS(0.882)PT(0.116)R;SGAQASSTPLS(0.959)PT(0.041)R;SGAQASST(0.001)PLS(0.813)PT(0.186)R;SGAQASSTPLS(0.816)PT(0.184)R ;;;;; 161.48 1.16E-05 4435073000 9581.1 10164.2 9127.6 7933.9 9545.9 10156.3 10579.1 9210.7 9925.1 9333.4 TRUE FALSE FALSE 10588.88406 10493.52675 10371.46179 8087.472107 8814.495204 9290.926102 9388.711825 8975.103631 9856.030421 9735.808551 1.087622461 1.077827968 1.065290237 0.830693421 0.905368584 0.95430452 0.964348444 0.921865255 1.012348422 1 13.24908508 -6.283335536 24.88660804 1.047372434 0.919653452 0.715068982 0.042024592 371.2574946 421960.7865 0.007602411 0.011618519 5.21E-07 6.283335536 -0.127718981 SGAVQGAGSLGPGS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 3 SGAVQGAGSLGPGSPVR 17 0 Q9P270 Q9P270 SLAIN2 SLAIN motif-containing protein 2 1 0 SGAVQGAGSLGPGS(1)PVR;SGAVQGAGSLGPGS(1)PVR;SGAVQGAGSLGPGS(1)PVR ;; 227.64 1.23E-60 89322000 2393.15 2970.64 2224.62 2401.05 2422.06 2455.05 2677.33 2757.14 2840.99 2693.19 TRUE FALSE FALSE 2644.872497 3066.890685 2527.779628 2447.525795 2236.482286 2245.865928 2376.069782 2686.616351 2821.219319 2809.306601 0.941468082 1.091689559 0.899787737 0.871220604 0.796097615 0.799437814 0.845785142 0.956327213 1.004240448 1 11.45599837 -6.531771466 24.99000731 0.981261233 0.850946695 0.615819748 0.056445911 112.9866015 317509.8638 0.009079282 0.012850787 2.94E-07 6.531771466 -0.130314538 SGCIVNNLAEFTVDPK ddPTM_HeLa_SAHA_4h_R1 1 SGCIVNNLAEFTVDPK 16 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 146.79 1.94E-05 479410 0 0 0 180.52 0 157.42 0 68.958 0 0 FALSE FALSE TRUE 0 0 0 184.0142256 0 144.0069304 0 67.19415421 0 0 0 SGCS(ph)DLEEAVDSGADKK ddPTM_HeLa_SAHA_4h_R1 2 SGCSDLEEAVDSGADKK 17 1 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 1 0 S(0.445)GCS(0.555)DLEEAVDSGADKK;SGCS(0.998)DLEEAVDS(0.002)GADKK ; 231.06 2.70E-61 9206100 2296.98 2535.5 2189.27 2407.08 2684.71 2632.82 2324.8 2262.81 2424.5 2540.55 TRUE FALSE FALSE 2538.586895 2617.651864 2487.612314 2453.672514 2479.0081 2408.488924 2063.207385 2204.930597 2407.627707 2650.085544 0.957926397 0.987761271 0.938691327 0.925884268 0.935444558 0.908834407 0.778543693 0.832022424 0.90850943 1 11.37182321 -4.114466567 0.405654853 0.986754506 0.627040646 0.660839812 0.037285426 1.625881758 0.166583551 0.007386271 0.289833963 7.68E-05 4.114466567 -0.359713861 SGCSEAQPPESPET(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SGCSEAQPPESPETR 15 0 A0A494BZT8;Q9Y6A5;H0Y8F2;A0A494C117 A0A494BZT8 TACC3 Transforming acidic coiled-coil-containing protein 3 1 0 SGCSEAQPPES(0.137)PET(0.863)R 178.47 5.60E-07 27578000 704.66 604.72 837.82 871.63 990.07 1157 1248.1 924.45 1003.6 841.28 TRUE FALSE FALSE 778.7793719 624.3133248 951.9937464 888.501659 914.2110505 1058.417091 1107.660503 900.8039076 996.6158659 877.5516979 0.887445576 0.711426263 1.084829246 1.012477853 1.041774579 1.206102265 1.262216808 1.026496684 1.135677668 1 9.777340309 -5.785263921 1.368280718 0.933024139 1.17086638 0.314653204 0.123295388 0.284620289 1.065813746 0.017325253 0.04384644 1.64E-06 5.785263921 0.237842241 SGDAAIVDMVPGKPMCVESFSDYPPLGR ddPTM_HeLa_SAHA_4h_R1 4 SGDAAIVDMVPGKPMCVESFSDYPPLGR 28 1 Q5VTE0;P68104;A0A087WVQ9 Q5VTE0 EEF1A1P5;EEF1A1 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1 0 0 ;;; ;;; 118.08 1.00E-10 120041040 692.547 451.69 477.24 396.522 772.21 927.46 650.936 723.12 434.69 497.19 FALSE FALSE TRUE 765.392271 466.3250524 542.2757818 404.1972567 713.0434366 848.4351903 577.6909681 704.6236375 431.6649569 518.6262941 1.475806915 0.899154281 1.045600248 0.779361288 1.374869429 1.635927835 1.113886771 1.358634619 0.832323702 1 9.018551542 -9.754975125 1.707267486 0.999816579 1.246860168 0.142138952 0.257389951 0.724093976 3.816403902 0.196764187 0.042232815 1.76E-10 9.754975125 0.247043589 SGDDLTIY(ph)GIVMQRWK ddPTM_HeLa_SAHA_4h_R1 1 SGDDLTIYGIVMQRWK 16 1 Q9NXL9-3;Q9NXL9-2;Q9NXL9 Q9NXL9-3 MCM9 DNA helicase MCM9 1 0 SGDDLT(0.003)IY(0.997)GIVMQRWK 106.4 0.002238 1584300 289.84 308.42 305.3 442.72 441.81 349.47 200.41 262.77 447.69 467.62 TRUE FALSE FALSE 320.326701 318.4130104 346.9046941 451.2894858 407.9586132 319.6931899 177.8593393 256.0487239 444.5744888 487.7813867 0.656701362 0.652778107 0.711188872 0.925188 0.836355434 0.655402602 0.364629205 0.524925163 0.911421594 1 8.930090897 -13.52287875 0.052319917 2.314456939 2.85E-16 0.490909228 0.133036353 284.9806678 1.178920223 53.39277645 12.36989165 3.00E-14 13.52287875 -2.314456939 SGDEGS(ph)EDEAPSGED ddPTM_HeLa_SAHA_4h_R1 2 SGDEGSEDEAPSGED 15 0 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 S(0.002)GDEGS(0.998)EDEAPSGED;S(0.003)GDEGS(0.997)EDEAPSGED ; 163.51 5.24E-06 10382100 4120.4 5147.5 3799.7 4939.6 5066.7 5275.4 4867.4 5496.4 6867.9 5144 TRUE FALSE FALSE 4553.802577 5314.282377 4317.503328 5035.213101 4678.490541 4825.906241 4319.707342 5355.810047 6820.105725 5365.783014 0.848674381 0.990402028 0.804636214 0.938392978 0.871911989 0.899385277 0.805046967 0.998141377 1.271036437 1 12.389573 -9.457055742 1.081294901 1.002761421 0.888370839 0.312517688 0.108168935 0.497579681 0.999054488 0.044931347 0.01007958 3.49E-10 9.457055742 -0.114390581 SGDET(ph)PGSEVPGDK ddPTM_HeLa_SAHA_4h_R1 1 SGDETPGSEVPGDK 14 0 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 1 0 S(0.001)GDET(0.997)PGS(0.003)EVPGDK 159.41 2.41E-05 30353000 2332.6 3022.4 2003.5 2977 3067.4 3015 3067.1 2413.8 4547.5 2883.4 TRUE FALSE FALSE 2577.95357 3120.327743 2276.526546 3034.62414 2832.376475 2758.105038 2721.981836 2352.058491 4515.853577 3007.717485 0.857112938 1.037440437 0.756895073 1.008945872 0.941702965 0.917009344 0.904999173 0.782007786 1.501422125 1 11.55445335 -9.508951419 1.184634813 1.001502527 0.900668984 0.168138827 0.180280035 0.689129603 1.688425161 0.0582279 0.013208882 3.10E-10 9.508951419 -0.100833543 SGDET(ph)PGSEVPGDKAAEEQGDDQDSEK ddPTM_HeLa_SAHA_4h_R1 1 SGDETPGSEVPGDKAAEEQGDDQDSEK 27 1 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 1 0 S(0.006)GDET(0.713)PGS(0.281)EVPGDKAAEEQGDDQDSEK 93.406 9.54E-06 24999000 1636.1 1468.5 1657.4 1834.3 1806.3 1993.4 1703.5 2095.8 1429.1 1793.8 TRUE FALSE FALSE 1808.192505 1516.080364 1883.261841 1869.805529 1667.901684 1823.551105 1511.817697 2042.192471 1419.154777 1871.139497 0.966359006 0.810244435 1.006478589 0.999287083 0.891382864 0.97456716 0.807966322 1.091416473 0.758444135 1 10.8697014 -7.624278723 4.234439572 0.986549782 0.936450579 0 0.110134012 0.388846982 14.31851583 0.013868176 0.014578822 2.38E-08 7.624278723 -0.050099204 SGDETPGS(ph)EVPGDKAAEEQGDDQDSEK ddPTM_HeLa_SAHA_4h_R1 1 SGDETPGSEVPGDKAAEEQGDDQDSEK 27 1 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 1 0 S(0.021)GDET(0.218)PGS(0.761)EVPGDKAAEEQGDDQDSEK 97.825 3.24E-06 19823000 621.39 354.83 413.51 454.59 410.52 459.12 513.2 316.96 279.76 423.42 TRUE FALSE FALSE 686.7506512 366.3267248 469.8609893 463.3892468 379.0660463 420.0003931 455.4533853 308.8526222 277.8131274 441.6757084 1.554875304 0.82940202 1.063814424 1.049161722 0.858245177 0.950924819 1.031194102 0.69927464 0.628997978 1 8.786843678 -7.23903029 24.98663819 1.262024467 0.938438107 0 0.258340576 707.9520599 789383.2087 0.037251909 0.04560553 5.77E-08 7.23903029 -0.323586359 SGDSEVYQLGDVSQK ddPTM_HeLa_SAHA_4h_R1 1 SGDSEVYQLGDVSQK 15 0 C9K0U8;A0A0G2JLD8;E7EUY5;Q04837 C9K0U8 SSBP1 "Single-stranded DNA-binding protein, mitochondrial" 0 0 115.06 0.0078465 3661800 1351.5 1370.2 1327.9 917.25 1418.1 1383.6 1722.9 1288.3 1306.4 1247.1 FALSE FALSE TRUE 1493.656971 1414.595379 1508.859297 935.0047001 1309.445484 1265.709496 1529.034758 1255.347151 1297.308656 1300.868584 1.148199741 1.087423738 1.159886029 0.718754155 1.00659321 0.972972606 1.175395252 0.965006894 0.997263422 1 10.34525951 SGDWVCPNPSCGNMNFAR ddPTM_HeLa_SAHA_4h_R1 1 SGDWVCPNPSCGNMNFAR 18 0 Q92804-2;Q92804;A0A075B7D9;A0A075B7F4 Q92804-2 TAF15 TATA-binding protein-associated factor 2N 0 0 99.671 0.0027462 0 331.29 287.37 296.76 229.38 383.09 326.14 204.27 324.5 341.39 306.37 FALSE FALSE TRUE 366.1366022 296.6809766 337.2009073 233.8199816 353.737727 298.3510372 181.285002 316.1997599 339.0142392 319.57911 1.145683778 0.928349092 1.055140642 0.731649768 1.106886263 0.933574905 0.56726174 0.989425622 1.060814767 1 8.320029296 -5.879704782 0.685850691 1.064498885 0.803539618 0.219787622 0.149160201 0.796212642 0.671669032 0.029415847 0.107612454 1.32E-06 5.879704782 -0.260959267 SGEHDFGAAFDGDGDR ddPTM_HeLa_SAHA_4h_R1 1 SGEHDFGAAFDGDGDR 16 0 A0A3B3ITK7;P36871;P36871-2;P36871-3 A0A3B3ITK7 PGM1 Phosphoglucomutase-1 0 0 108.14 0.0023889 4637700 1423.6 1728.8 959.74 1498.1 1733.8 2579.2 1435.9 1680.7 2400.3 1943.4 FALSE FALSE TRUE 1573.34078 1784.814254 1090.528369 1527.097892 1600.956619 2359.43765 1274.328753 1637.710128 2383.596117 2027.189485 0.776119249 0.880437802 0.537950881 0.753307919 0.789741971 1.163895959 0.62861847 0.807872249 1.175813181 1 10.98526523 -9.171849856 0.826610983 1.005641482 0.791390139 0.305062932 0.165615509 0.862438578 1.020357224 0.117084179 0.03015058 6.73E-10 9.171849856 -0.214251343 SGELGLPGAPESSTASAPGEPSPPS(ph)PPCR ddPTM_HeLa_SAHA_4h_R1 2 SGELGLPGAPESSTASAPGEPSPPSPPCR 29 0 Q5QP82;Q5QP82-2 Q5QP82 DCAF10 DDB1- and CUL4-associated factor 10 1 0 SGELGLPGAPESSTASAPGEPS(0.021)PPS(0.979)PPCR;SGELGLPGAPESSTASAPGEPS(0.007)PPS(0.993)PPCR ; 135.88 7.96E-14 10539000 3927.1 3621.4 3311.14 3723.1 4176.8 4581.6 4474.6 4122.4 4538.6 3420.1 TRUE FALSE FALSE 4340.170396 3738.735736 3762.364916 3795.165984 3856.774486 4191.221905 3971.106231 4016.954977 4507.015513 3567.557249 1.216566433 1.047981988 1.054605337 1.063799603 1.081068703 1.174815599 1.11311633 1.125967909 1.26333376 1 11.80072087 -9.677516622 1.549534458 1.000190147 1.123430897 0 0.096695625 0.358137388 1.552441563 0.044650097 0.010026113 2.10E-10 9.677516622 0.12324075 SGELTALEFSAS(ph)PGLRR ddPTM_HeLa_SAHA_4h_R1 1 SGELTALEFSASPGLRR 17 1 A0A2R8YFR7;Q12774;A0A2R8YF49;H0Y895;Q12774-2 A0A2R8YFR7 ARHGEF5 Rho guanine nucleotide exchange factor 5 1 0 SGELTALEFS(0.001)AS(0.999)PGLRR 114.56 0.00054874 4120000 897.17 1519.3 1782.5 1265.4 1447.5 1689.4 1813.5 1399.8 1424 1197.9 TRUE FALSE FALSE 991.538457 1568.526317 2025.409817 1289.893647 1336.592863 1545.453616 1609.440207 1363.995143 1414.090268 1249.547331 0.793518126 1.255275633 1.620914844 1.032288745 1.069661652 1.236810785 1.288018602 1.091591418 1.131682036 1 10.28718983 -7.252071332 24.67668158 0.90249467 1.231976154 0.272979294 0.177431475 378.2111996 996259.1095 0.028683975 0.034870942 5.60E-08 7.252071332 0.329481484 SGEQAEGS(ph)PGGPGDSQGR ddPTM_HeLa_SAHA_4h_R1 2 SGEQAEGSPGGPGDSQGR 18 0 P38936 P38936 CDKN1A Cyclin-dependent kinase inhibitor 1 1 0 SGEQAEGS(0.999)PGGPGDS(0.001)QGR;S(0.03)GEQAEGS(0.882)PGGPGDS(0.088)QGR ; 176.39 5.19E-09 12997100 1178.73 1021.94 1140.98 1583.15 1988.08 1938.76 2250.5 2284.5 796.31 982.56 TRUE FALSE FALSE 1302.71423 1055.051527 1296.466812 1613.794158 1835.75374 1773.566741 1997.267817 2226.065798 790.7684139 1024.92297 1.271036232 1.029395923 1.264940732 1.574551654 1.791113863 1.73043906 1.948700415 2.171934733 0.771539361 1 10.00129977 -5.081094297 0.407909798 1.061923278 2.52357902 0.891084951 0.143326947 0.636789304 0.112496517 0.037201128 0.407123749 8.30E-06 5.081094297 1.461655742 up SGESPTHFK ddPTM_HeLa_SAHA_4h_R1 1 SGESPTHFK 9 0 G3V2F4;E7EPD8;Q9NUW8-2;Q9NUW8 G3V2F4 TDP1 Tyrosyl-DNA phosphodiesterase 1 0 0 91.853 0.017806 9183600 3904.5 4700.3 5705.8 16154 3928.8 3523.7 5012.6 10019 10444 6645 FALSE FALSE TRUE 4315.193224 4852.592804 6483.356709 16466.68403 3627.776193 3223.460936 4448.569056 9762.728487 10371.31935 6931.49847 0.622548392 0.700078464 0.935347059 2.3756312 0.523375459 0.465045322 0.641790383 1.408458579 1.496259344 1 12.75895156 -4.244377307 22.83225562 0.868819213 1.408460031 0.022656904 0.557568609 2061.376555 2758357.098 0.071742702 2.39062195 5.70E-05 4.244377307 0.539640818 SGETEDTFIADLVVGLCTGQIK ddPTM_HeLa_SAHA_4h_R1 1 SGETEDTFIADLVVGLCTGQIK 22 0 P06733;A0A2R8Y6G6;P06733-2;P13929-3;P09104-2;P13929-2;P09104;F5H0C8;P13929 P06733 ENO1;ENO3;ENO2 Alpha-enolase;Beta-enolase;Gamma-enolase;Enolase 0 0 166.47 9.08E-08 9726100 1826.7 2361.3 2307.9 2370.6 2380.6 2238.5 2899.4 2130.4 2443.6 2213.6 FALSE FALSE TRUE 2018.840687 2437.807669 2622.408593 2416.486391 2198.198942 2047.767207 2573.151881 2075.907453 2426.594789 2309.039129 0.874320691 1.055767154 1.135714228 1.046533322 0.951997268 0.886848205 1.114382103 0.899035199 1.050911073 1 11.17307691 -7.248725221 24.91310851 0.940651436 1.015627213 0 0.090025294 1129.080011 2212407.358 0.014918622 0.018204178 5.64E-08 7.248725221 0.074975777 SGEVAEGEARSPS(ph)HK ddPTM_HeLa_SAHA_4h_R1 1 SGEVAEGEARSPSHK 15 1 O00257 O00257 CBX4 E3 SUMO-protein ligase CBX4 1 0 SGEVAEGEARS(0.382)PS(0.618)HK 67.994 0.017913 11972000 1129.2 1116.6 812.5 1553.2 1280 1432.1 1410.2 1887 1103.3 1101.9 TRUE FALSE FALSE 1247.974437 1152.778573 923.2232687 1583.264432 1181.926677 1310.077023 1251.520585 1838.733272 1095.622045 1149.408302 1.085753805 1.002932179 0.803216113 1.377460411 1.028291404 1.139783854 1.088838999 1.599721587 0.953205266 1 10.16667566 -1.802414923 1.163330165 1.045111985 200 0.580421671 0.139255802 279.2551404 1.343799787 0.018948574 147129.0541 0.015761047 1.802414923 198.954888 SGFGEISS(ph)PVIR ddPTM_HeLa_SAHA_4h_R1 4 SGFGEISSPVIR 12 0 P57740;G3V1T4 P57740 NUP107 Nuclear pore complex protein Nup107 1 0 SGFGEIS(0.264)S(0.736)PVIR;SGFGEIS(0.225)S(0.775)PVIR;SGFGEIS(0.07)S(0.93)PVIR;SGFGEIS(0.027)S(0.973)PVIR ;;; 193.62 3.41E-07 140778100 14412.8 13746.8 12867.8 14731.4 16163.8 16950.2 14878.4 14575.7 16257.5 14789.7 TRUE FALSE FALSE 15928.80443 14192.20534 14621.35677 15016.54755 14925.33314 15505.9476 13204.24327 14202.8747 16144.36273 15427.35635 1.032503825 0.919937611 0.947755172 0.973371407 0.967458896 1.005094279 0.855897989 0.920629198 1.046476297 1 13.91320324 -3.142012571 0.269548754 1.017418499 0.6918925 0.413346156 0.04213836 11.1279895 0.381075208 0.0224596 1.339721205 0.000721087 3.142012571 -0.325525999 SGGGGGGGGS(ph)SWGGR ddPTM_HeLa_SAHA_4h_R1 1 SGGGGGGGGSSWGGR 15 0 Q13151 Q13151 HNRNPA0 Heterogeneous nuclear ribonucleoprotein A0 1 0 SGGGGGGGGS(0.5)S(0.5)WGGR 114.21 0.0014494 2765900 403.03 476.66 254.88 380.18 337.82 480.57 464 447.35 498.37 217.57 TRUE FALSE FALSE 445.4225446 492.1040967 289.613719 387.5389336 311.9363046 439.6227324 411.7894988 435.9074348 494.9018026 226.9505075 1.962641765 2.168332216 1.27610959 1.707592276 1.374468416 1.93708636 1.814446257 1.920715841 2.180659599 1 7.826233904 -9.344909478 1.038256971 0.994405453 1.771141656 0 0.443209732 0.323228834 0.616756113 0.185549472 0.047239582 4.52E-10 9.344909478 0.776736203 SGGGGGGGGSS(ph)WGGR ddPTM_HeLa_SAHA_4h_R1 1 SGGGGGGGGSSWGGR 15 0 Q13151 Q13151 HNRNPA0 Heterogeneous nuclear ribonucleoprotein A0 1 0 SGGGGGGGGS(0.058)S(0.942)WGGR 84.62 0.01188 1960600 724.56 875.54 949.83 891.57 887.09 1218.5 1190.7 1141.5 1082.1 893.59 TRUE FALSE FALSE 800.7725452 903.9080705 1079.267886 908.8276266 819.1213558 1114.676945 1056.719302 1112.302083 1074.569578 932.117038 0.859090128 0.969736668 1.157867351 0.975014499 0.878775221 1.195855133 1.13367663 1.193307318 1.152826881 1 9.864367303 -4.87586405 0.661525152 0.942935941 1.269811113 0.162218943 0.112595267 1.186156909 0.562003869 0.018242903 0.249309638 1.33E-05 4.87586405 0.326875171 SGGGGGGGGSSWGGR ddPTM_HeLa_SAHA_4h_R1 2 SGGGGGGGGSSWGGR 15 0 Q13151 Q13151 HNRNPA0 Heterogeneous nuclear ribonucleoprotein A0 0 0 ; ; 200.93 1.19E-11 2468290 295.97 147.15 342.94 298.75 378.58 209.57 362.71 189.55 276.72 319.16 FALSE FALSE TRUE 327.1014826 151.9177565 389.6740772 304.5327382 349.5732822 191.713457 321.8969162 184.7015855 274.794283 332.9205495 0.982521154 0.456318352 1.170471687 0.914730973 1.05002014 0.57585348 0.966888096 0.554791784 0.82540499 1 8.379034113 -2.948644295 0.334816435 0.984318068 4.23E-33 0.086607771 0.217625982 18.88131109 0.759808628 0.065838968 9.053509038 0.001125526 2.948644295 -0.984318068 SGGGLHSVAEGVRLS(ph)PEPGR ddPTM_HeLa_SAHA_4h_R1 2 SGGGLHSVAEGVRLSPEPGR 20 1 Q9NWK9-2;Q9NWK9 Q9NWK9-2 ZNHIT6 Box C/D snoRNA protein 1 1 0 S(0.002)GGGLHS(0.003)VAEGVRLS(0.995)PEPGR;SGGGLHSVAEGVRLS(1)PEPGR ; 68.458 0.0050761 63165000 2148.67 2820.5 1551.4 2882.96 3644.7 4623.4 3659 3511 3053.7 2657.54 TRUE FALSE FALSE 2374.676969 2911.886051 1762.816713 2938.76386 3365.443873 4229.460309 3247.27969 3421.193704 3032.449053 2772.119555 0.856628627 1.050418639 0.635909339 1.0601144 1.214032731 1.525713529 1.171406797 1.234143635 1.09390991 1 11.43677376 -5.816595533 3.244285985 0.919269719 1.302290825 0.566901652 0.147675718 0.117009987 2.506643039 0.019997114 0.039334273 1.53E-06 5.816595533 0.383021106 SGGGPGPSGSET(ph)PPPPR ddPTM_HeLa_SAHA_4h_R1 2 SGGGPGPSGSETPPPPR 17 0 P27987-2;P27987 P27987-2 ITPKB Inositol-trisphosphate 3-kinase B 1 0 SGGGPGPSGS(0.002)ET(0.998)PPPPR;SGGGPGPSGS(0.005)ET(0.995)PPPPR ; 142.4 0.00020874 9026500 1060.38 955.84 883.87 931.94 969.86 1286.63 1164.37 1194.05 1289.96 1061.63 TRUE FALSE FALSE 1171.915634 986.8098431 1004.319201 949.9790463 895.5495363 1177.001886 1033.352023 1163.50793 1280.983063 1107.402065 1.058256681 0.891103489 0.90691469 0.857844749 0.808694118 1.06284964 0.933131747 1.050664404 1.15674614 1 10.1129634 -7.263235748 24.9999999 1.0275101 0.927040132 0.332086642 0.08524005 161.4440901 2246805.773 0.01292929 0.015193818 5.45E-08 7.263235748 -0.100469968 SGGGPGPSGSET(ph)PPPPRR ddPTM_HeLa_SAHA_4h_R1 2 SGGGPGPSGSETPPPPRR 18 1 P27987-2;P27987 P27987-2 ITPKB Inositol-trisphosphate 3-kinase B 1 0 SGGGPGPS(0.001)GS(0.062)ET(0.937)PPPPRR;SGGGPGPSGS(0.058)ET(0.942)PPPPRR ; 81.788 0.0082203 5849800 751.37 805.52 661.14 785.33 889.81 926.82 767.07 683.3 825.86 1003.82 TRUE FALSE FALSE 830.402544 831.6193765 751.2367161 800.5311978 821.63295 847.8497219 680.7572648 665.8221754 820.112773 1047.099593 0.793050202 0.794212301 0.717445333 0.764522499 0.784675074 0.809712589 0.650136118 0.635872824 0.783223276 1 10.03218295 -13.52287875 0.122355913 1.909858925 0.608753234 0.258975443 0.082129644 25.60737359 0.225341546 5.682598764 0.217565302 3.00E-14 13.52287875 -1.301105691 SGGGYGGDRSS(ph)GGGYSGDR ddPTM_HeLa_SAHA_4h_R1 1 SGGGYGGDRSSGGGYSGDR 19 1 Q92804-2;Q92804;A0A075B7F4 Q92804-2 TAF15 TATA-binding protein-associated factor 2N 1 0 SGGGYGGDRS(0.023)S(0.97)GGGY(0.006)S(0.001)GDR 68.243 0.0071546 17242000 835.3 991.68 829.91 893.14 914.75 1237.8 1156.4 894.32 920.29 852.36 TRUE FALSE FALSE 923.1606865 1023.811083 943.0058128 910.4280162 844.6620526 1132.332476 1026.278829 871.4445894 913.885627 889.1094109 1.038298184 1.151501795 1.060618413 1.023977482 0.950009124 1.273558082 1.154277321 0.980132005 1.02786633 1 9.796217153 -7.733075331 0.317054062 0.985849459 1.107760998 0.068934766 0.090199588 2.249006788 0.698407323 0.107223184 0.078918984 1.85E-08 7.733075331 0.121911539 SGGIVIS(ph)PFR ddPTM_HeLa_SAHA_4h_R1 1 SGGIVISPFR 10 0 Q16204 Q16204 CCDC6 Coiled-coil domain-containing protein 6 1 0 SGGIVIS(1)PFR 105.13 0.0071534 10736000 1562.4 2713.6 1693.5 1867.6 1986.6 2772.4 1920.1 1764.5 2951.6 2426.3 TRUE FALSE FALSE 1726.740401 2801.52242 1924.281361 1903.750099 1834.387137 2536.175923 1704.045295 1719.366645 2931.059575 2530.909667 0.682260779 1.106923118 0.760312146 0.75219994 0.724793603 1.002080776 0.673293605 0.679347298 1.158105172 1 11.3054403 -9.554290926 1.270368091 1.002133208 0.789994698 0.336541338 0.147558441 0.541457168 1.539716173 0.101072489 0.022876242 2.79E-10 9.554290926 -0.21213851 SGGIVIS(ph)PFRLEELTNR ddPTM_HeLa_SAHA_4h_R1 1 SGGIVISPFRLEELTNR 17 1 Q16204 Q16204 CCDC6 Coiled-coil domain-containing protein 6 1 0 SGGIVIS(1)PFRLEELTNR 67.994 0.012538 53003000 2132 2331.3 2487.9 2677.7 2781.1 2808.4 2827.3 2172.1 2381.9 2436.2 TRUE FALSE FALSE 2356.253542 2406.83565 2826.938056 2729.530756 2568.012719 2569.10852 2509.164763 2116.540827 2365.324164 2541.236504 0.927207498 0.947112024 1.112426195 1.074095524 1.010536687 1.010967895 0.987379474 0.832878334 0.930776872 1 11.31131493 -4.261495611 9.856983498 0.987887553 0.832468466 0.42115396 0.05721926 0.066275139 196.4954201 0.008832576 0.068462009 5.48E-05 4.261495611 -0.155419087 SGGLQT(ph)PECLSR ddPTM_HeLa_SAHA_4h_R1 2 SGGLQTPECLSR 12 0 P85037;P85037-2 P85037 FOXK1 Forkhead box protein K1 1 0 S(0.042)GGLQT(0.958)PECLSR;S(0.001)GGLQT(0.979)PECLS(0.021)R ; 130.61 0.0017897 25713000 2997.8 3276 3433.5 3418.7 3631.2 3576 4448.8 4020.9 4096.5 3383.9 TRUE FALSE FALSE 3313.122358 3382.144549 3901.399499 3484.873882 3352.97824 3271.304682 3948.209315 3918.0512 4067.992123 3529.796489 0.938615687 0.958169843 1.105276044 0.987273315 0.949906957 0.926768637 1.118537379 1.109993512 1.152472143 1 11.78536929 -4.749569889 24.99948801 0.976390946 1.114265541 0.216099128 0.072973305 125.4816952 264284.1618 0.006965276 0.025647366 1.78E-05 4.749569889 0.137874596 SGGLQTPECLS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 SGGLQTPECLSR 12 0 P85037;P85037-2 P85037 FOXK1 Forkhead box protein K1 1 0 SGGLQTPECLS(1)R;SGGLQTPECLS(1)R ; 153.32 0.00029043 135460000 1222.99 1325.07 935.33 1146.87 1246.62 1509.11 1302.94 1040.26 1599.37 1055.54 TRUE FALSE FALSE 1351.629699 1368.003137 1062.791901 1169.069327 1151.104245 1380.525338 1156.329762 1013.651655 1588.239854 1101.049495 1.227583052 1.242453807 0.965253521 1.06177727 1.045460944 1.253826775 1.050206886 0.920623151 1.442478164 1 10.10466361 -6.744405385 24.99995522 1.120596435 1.059214474 0.123732542 0.145132274 637.0739441 934999.5688 0.019666831 0.027771541 1.80E-07 6.744405385 -0.061381961 SGGLQTPECLS(ph)REGS(ph)PIPHDPEFGSK ddPTM_HeLa_SAHA_4h_R1 2 SGGLQTPECLSREGSPIPHDPEFGSK 26 1 P85037;P85037-2 P85037 FOXK1 Forkhead box protein K1 2 0 S(0.015)GGLQT(0.437)PECLS(0.775)REGS(0.773)PIPHDPEFGSK;S(0.017)GGLQT(0.484)PECLS(0.749)REGS(0.749)PIPHDPEFGSK ; 58.812 0.0030653 36214000 4633.5 3907.2 4144.7 4553 5208.9 5415.5 5569.3 6705.5 3708.5 4220.1 TRUE FALSE FALSE 5120.872789 4033.795844 4709.518131 4641.129899 4809.795207 4954.068933 4942.627706 6533.983019 3682.692247 4402.049164 1.163292957 0.916345023 1.069846782 1.054311237 1.092626417 1.125400637 1.122801569 1.484304872 0.836585897 1 12.10395954 SGGS(ph)GGCSGAGGASNCGTGSGR ddPTM_HeLa_SAHA_4h_R1 1 SGGSGGCSGAGGASNCGTGSGR 22 0 E9PL01;A0A087WUC6;E9PI68;Q15005 E9PL01 SPCS2 Signal peptidase complex subunit 2 1 0 S(0.05)GGS(0.949)GGCS(0.001)GAGGASNCGTGSGR 106 0.00012826 395520 0 0 0 0 0 0 0 67.806 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 66.0716207 0 0 0 SGIETFS(ph)PPPPPPK ddPTM_HeLa_SAHA_4h_R1 1 SGIETFSPPPPPPK 14 0 Q86YV5 Q86YV5 SGK223 Tyrosine-protein kinase SgK223 1 0 SGIET(0.008)FS(0.992)PPPPPPK 123.95 0.00075656 6026600 2110.2 1913 1784.3 1971.9 2293.8 2211.9 2540.5 2277.5 1779.3 1672.5 TRUE FALSE FALSE 2332.160518 1974.982455 2027.455112 2010.068976 2118.04954 2023.433676 2254.636254 2219.244848 1766.917706 1744.60966 1.336780697 1.132048332 1.16212535 1.152159719 1.214053543 1.159820287 1.292344245 1.272058099 1.012786841 1 10.76868857 -9.537143938 1.287257191 0.999507547 1.224689038 0.622935502 0.064567577 0.266833826 0.789089119 0.052609642 0.012417658 2.90E-10 9.537143938 0.22518149 SGIIPTS(ph)PTPYTYNK ddPTM_HeLa_SAHA_4h_R1 1 SGIIPTSPTPYTYNK 15 0 F8VRP2;R4GN33;Q8IW41-2;Q8IW41 F8VRP2 MAPKAPK5 MAP kinase-activated protein kinase 5 1 0 SGIIPT(0.059)S(0.941)PT(0.001)PYTYNK 133.48 1.46E-05 0 650.02 445.44 517.16 681.91 651.01 666.02 858.24 761.3 575.11 588.42 TRUE FALSE FALSE 718.392086 459.8725483 587.6358715 695.1093541 601.1297544 609.2713491 761.6685764 741.8270483 571.1077627 613.7896659 1.170420628 0.749234752 0.957389647 1.132487875 0.979374186 0.992638656 1.240927664 1.208601398 0.930461678 1 9.261600546 -4.755131359 24.75896437 1.041418447 1.224764623 0.326447279 0.117535409 137.4543455 539490.0124 0.017336629 0.061733957 1.76E-05 4.755131359 0.183346176 SGK(ac)FMNPTDQAR ddPTM_HeLa_SAHA_4h_R1 5 SGKFMNPTDQAR 12 1 Q9Y2W2;F5GXS9;F5H5G4 Q9Y2W2 WBP11 WW domain-binding protein 11 0 1 ;;;; SGK(1)FMNPTDQAR;SGK(1)FMNPTDQAR;SGK(1)FMNPTDQAR;SGK(1)FMNPTDQAR;SGK(1)FMNPTDQAR 136.01 0.00035275 47278200 5407.84 3405.42 3793.3 8244.63 6898.04 4972.7 7663.6 7772.96 2667.33 3331.25 FALSE TRUE FALSE 5976.661423 3515.757842 4310.231169 8404.216736 6369.513665 4548.997984 6801.271559 7574.138938 2648.767833 3474.87649 1.719963699 1.011764836 1.24039838 2.418565598 1.833018723 1.309110697 1.957270015 2.179685799 0.76226244 1 11.76274598 -9.730874255 0.10831658 7.10E-11 2.396678435 0.467000282 0.385757549 29.51448115 0.701389018 12.7291526 4.19476275 1.86E-10 9.730874255 2.396678435 SGK(ac)HK(ac)NK(ac)EK ddPTM_HeLa_SAHA_4h_R1 1 SGKHKNKEK 9 3 A0A5F9ZH11;P55201-3;P55201;P55201-2;A0A5F9ZHX4;A0A5F9ZHW9;P55201-4 A0A5F9ZH11 BRPF1 Peregrin 0 3 SGK(1)HK(1)NK(1)EK 59.57 0.021574 555400 0 162.93 137.44 548.47 864.3 1107.5 1299 1220.3 37.521 32.182 FALSE TRUE FALSE 0 168.2090389 156.1696074 559.08643 798.0775207 1013.134769 1152.833101 1189.086493 37.25988831 33.56952351 0 5.010766353 4.652124638 16.65458343 23.77387097 30.18019511 34.34165816 35.42160771 1.109931998 1 5.069080154 -5.840700274 0.932702114 0.438403703 35.78665902 0.992143078 1.228745057 0.031084923 0.051745452 0.206266616 0.632021038 1.44E-06 5.840700274 35.34825531 SGK(ac)LKGDDLQAIKK ddPTM_HeLa_SAHA_4h_R1 1 SGKLKGDDLQAIKK 14 3 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;G3V576;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 0 1 SGK(0.5)LK(0.5)GDDLQAIKK 73.219 0.010997 10778000 2820.9 2506.5 3180.2 3190.9 3448.5 3322 3746.3 4274.7 2488.2 3256.7 FALSE TRUE FALSE 3117.615205 2587.712245 3613.581094 3252.664484 3184.276675 3038.946911 3324.756464 4165.359364 2470.884414 3397.112275 0.917725101 0.761738805 1.06372142 0.957479241 0.937348082 0.894567699 0.978700789 1.2261471 0.727348469 1 11.73009318 -4.269620242 4.085311598 0.947595367 1.247879131 0.431836214 0.101614826 0.125544895 4.494953415 0.010312423 0.109268907 5.38E-05 4.269620242 0.300283764 WQELSPETSGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 WQELSPETSGKR 12 1 Q9NWF9-3;Q9NWF9;Q9NWF9-1 Q9NWF9-3 RNF216 E3 ubiquitin-protein ligase RNF216 0 1 ; WQELSPETSGK(1)R;WQELSPETSGK(1)R 248.05 2.12E-69 9007800 558.21 596.88 790.92 1741.1 3014.7 4236.1 5578.2 5620.5 597.59 287.69 FALSE TRUE FALSE 616.925089 616.2193036 898.7024587 1774.801508 2783.714337 3875.160448 4950.526255 5476.735748 593.4313225 300.0937238 2.055774713 2.05342283 2.994739268 5.914157369 9.276149804 12.91316726 16.49660044 18.25008427 1.977486616 1 8.229269336 -5.318512508 0.744948072 1.374882208 20.02143595 0.997146708 0.330748465 0.036757744 0.030353032 0.064994232 0.427260468 4.80E-06 5.318512508 18.64655375 up SGK(ac)YDLDFK ddPTM_HeLa_SAHA_4h_R1 1 SGKYDLDFK 9 1 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 1 SGK(1)YDLDFK 93.258 0.018463 13738000 2372.1 8487.5 3833.5 3729.3 6817.4 6096.3 7823.4 4656.9 5145.8 1763.8 FALSE TRUE FALSE 2621.608362 8762.500569 4355.909416 3801.485994 6295.052285 5576.860943 6943.090442 4537.783241 5109.989959 1839.84605 1.424906373 4.762627052 2.367540163 2.066197873 3.421510341 3.031156299 3.773734461 2.466392904 2.777400837 1 10.84536934 -7.448162879 11.21710775 1.187141016 3.090886561 0.289813821 0.888881727 0.380573585 56.3196791 0.120019618 0.137046602 3.56E-08 7.448162879 1.903745545 SGKLK(ac)GDDLQAIKK ddPTM_HeLa_SAHA_4h_R1 1 SGKLKGDDLQAIKK 14 3 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;G3V576;B4DY08 P07910;B4DY08 HNRNPC Heterogeneous nuclear ribonucleoproteins C1/C2 0 1 SGK(0.356)LK(0.644)GDDLQAIKK 73.91 0.010765 9077000 2012.5 2145.5 2217.3 2679.6 2486.1 2390.7 2741.2 2779.9 1589.2 2036.2 FALSE TRUE FALSE 2224.183984 2215.015608 2519.462097 2731.467533 2295.615555 2186.99891 2432.752962 2708.794183 1578.140628 2123.990547 1.047172261 1.042855681 1.186192707 1.286007387 1.080803094 1.029665087 1.145369015 1.275332504 0.743007369 1 11.05256163 -6.828192386 5.531132343 1.023634321 1.161357765 0.396879699 0.115442474 0.148300876 8.527481515 0.012551833 0.01668121 1.49E-07 6.828192386 0.137723443 SGKNSQEDS(ph)EDS(ph)EDKDVK ddPTM_HeLa_SAHA_4h_R1 1 SGKNSQEDSEDSEDKDVK 18 2 Q9H1E3 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 2 0 S(0.003)GKNS(0.024)QEDS(0.974)EDS(1)EDKDVK 58.952 0.022782 57420000 9483.8 3172.4 8494.3 6826.4 5240.4 4218.8 6782.7 9130.6 1535.8 5151.8 TRUE FALSE FALSE 10481.3496 3275.187841 9651.858968 6958.534843 4838.881684 3859.334506 6019.492745 8897.052473 1525.112243 5373.91931 1.950410676 0.60945981 1.796055804 1.294871479 0.900438098 0.718160114 1.120130839 1.655598449 0.283798873 1 12.39175894 -5.979992799 13.33974079 1.413569366 1.075976275 0 0.55002412 2.402444984 1595.330085 0.070954809 0.128340728 1.05E-06 5.979992799 -0.337593091 SGKNSQEDS(ph)EDSEDKDVK ddPTM_HeLa_SAHA_4h_R1 1 SGKNSQEDSEDSEDKDVK 18 2 Q9H1E3 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 SGKNS(0.001)QEDS(0.998)EDS(0.001)EDKDVK 101.89 0.0013473 11488000 3364.3 789.19 2658.8 1821.2 1299.9 1440.7 2047 3073.9 419.91 1818.1 TRUE FALSE FALSE 3718.17251 814.7602738 3021.127418 1856.451959 1200.301943 1317.944255 1816.666173 2995.274089 416.9878121 1896.487189 1.960557673 0.429615491 1.5930123 0.978889797 0.632908015 0.694939709 0.957911123 1.579380081 0.219873783 1 10.88911391 -7.264565121 24.99528304 1.453596665 0.979139642 0 0.567893785 362.9587461 2902427.656 0.082014918 0.095903968 5.44E-08 7.264565121 -0.474457023 SGKYDLDFK(ac)SPDDPSR ddPTM_HeLa_SAHA_4h_R1 2 SGKYDLDFKSPDDPSR 16 2 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 1 ; SGKYDLDFK(1)SPDDPSR;SGKYDLDFK(1)SPDDPSR 121.45 0.0002089 16476100 6821.9 17124.7 12515.1 9462.8 15319.9 11700.6 20207.4 13060 7713.6 4840.9 FALSE TRUE FALSE 7539.458742 17679.55152 14220.59265 9645.966177 14146.09257 10703.64305 17933.61017 12725.94411 7659.92043 5049.61489 1.493075988 3.501168287 2.816173701 1.910237986 2.801420085 2.119694925 3.551480768 2.52018112 1.516931607 1 12.30195765 -7.416618376 5.461674803 1.213185907 2.723027479 0.623807572 0.502373834 0.09836502 4.164186325 0.085468637 0.096931288 3.83E-08 7.416618376 1.509841572 SGLAESSSK(ac)FKPTQSSLTR ddPTM_HeLa_SAHA_4h_R1 1 SGLAESSSKFKPTQSSLTR 19 2 Q14966-3;Q14966;Q14966-5 Q14966-3 ZNF638 Zinc finger protein 638 0 1 SGLAESSSK(0.999)FK(0.001)PTQSSLTR 66.893 0.010069 1348600 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 SGLEELVLSEMNS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 SGLEELVLSEMNSPSR 16 0 A0A087WXA6;A0A087WT45;Q4V328-4;Q4V328;Q4V328-3;Q4V328-2 A0A087WXA6 GRIPAP1 GRIP1-associated protein 1 1 0 SGLEELVLSEMNS(0.973)PS(0.027)R 133.9 6.50E-06 0 495.98 743.36 691.19 654.46 682.39 900.52 773.05 790.45 854.95 729.44 TRUE FALSE FALSE 548.149452 767.4453517 785.3817736 667.1280197 630.1054256 823.7906298 686.0643794 770.2314336 849.0003333 760.8897282 0.720405903 1.008615734 1.032188692 0.876773591 0.828116614 1.082667566 0.901660719 1.012277345 1.115799441 1 9.571543576 SGLEPAS(ph)SPSK ddPTM_HeLa_SAHA_4h_R1 3 SGLEPASSPSK 11 0 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;Q9Y618-2 C9JE98;Q9Y618-2 NCOR2 Nuclear receptor corepressor 2 1 0 SGLEPAS(0.561)S(0.288)PS(0.151)K;SGLEPAS(0.498)S(0.498)PS(0.003)K;SGLEPAS(0.5)S(0.5)PSK ;; 179.94 2.98E-05 98238000 18128.1 23106.4 15695.3 18561.1 23137.3 25473 21333.9 18475.8 27593.1 19594.9 TRUE FALSE FALSE 20034.89673 23855.06252 17834.17375 18920.37693 21364.52507 23302.55709 18933.35342 18003.21579 27401.07737 20439.73203 0.980193708 1.167092723 0.872524831 0.925666584 1.045244871 1.140061771 0.92630145 0.880795098 1.34057909 1 14.31908866 SGLEPASS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 1 SGLEPASSPSK 11 0 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;Q9Y618-2 C9JE98;Q9Y618-2 NCOR2 Nuclear receptor corepressor 2 1 0 SGLEPAS(0.096)S(0.903)PS(0.001)K 114.76 0.0029978 29257000 3735 4464.6 3659.9 4133.6 4702.8 5236.3 4581.2 4226.9 5954.5 4305.4 TRUE FALSE FALSE 4127.864437 4609.255969 4158.652112 4213.611805 4342.47248 4790.137781 4065.711319 4118.782018 5913.06215 4491.026864 0.919135993 1.026325629 0.925991369 0.938229036 0.966921956 1.066601899 0.905296593 0.917113645 1.316639229 1 12.13282964 -9.682537029 1.552992937 0.999977986 0.954131766 0.08990285 0.112118284 0.75573925 3.286109282 0.035192833 0.007848242 2.08E-10 9.682537029 -0.04584622 SGLEPASS(ph)PSKGSEPR ddPTM_HeLa_SAHA_4h_R1 2 SGLEPASSPSKGSEPR 16 1 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;Q9Y618-2 C9JE98;Q9Y618-2 NCOR2 Nuclear receptor corepressor 2 1 0 S(0.007)GLEPAS(0.252)S(0.741)PSKGSEPR;SGLEPASS(0.994)PS(0.006)KGSEPR ; 189.52 5.20E-11 13196300 2360.76 3153.1 2035.29 2935.2 2721.8 3386.5 2843.47 2907.3 3839.4 2664.7 TRUE FALSE FALSE 2609.075568 3255.262509 2312.648722 2992.01504 2513.256272 3097.951148 2523.515272 2832.935476 3812.681303 2779.588258 0.938655415 1.171131192 0.832011258 1.076423831 0.904182936 1.114535989 0.907873771 1.019192489 1.371671251 1 11.44065548 SGLNGS(ph)ILAEREEPLR ddPTM_HeLa_SAHA_4h_R1 1 SGLNGSILAEREEPLR 16 1 Q96H22-5;Q96H22-4;Q96H22;Q96H22-3 Q96H22-5 CENPN Centromere protein N 1 0 S(0.014)GLNGS(0.986)ILAEREEPLR 60.09 0.022772 5864600 1119.9 780.47 724.73 747.47 1060.8 708.54 764.01 1109.6 500.25 926 TRUE FALSE FALSE 1237.69622 805.7577401 823.4924302 761.9383627 979.5217332 648.1684059 678.041584 1081.218039 496.7687195 965.9243917 1.281359318 0.834183034 0.852543364 0.788817809 1.014077025 0.671034308 0.701961344 1.119360944 0.514293586 1 9.915766456 -7.24287607 24.34738233 1.132864121 0.845167949 0 0.240878882 407.7154951 534754.2991 0.025831989 0.031602653 5.72E-08 7.24287607 -0.287696172 SGLS(ph)LEELR ddPTM_HeLa_SAHA_4h_R1 3 SGLSLEELR 9 0 A0A087WWA3;Q4R9M9;O60333-2;O60333;O60333-4 A0A087WWA3 KIF1B;KIF1Bbeta Kinesin-like protein;Kinesin-like protein KIF1B 1 0 S(0.007)GLS(0.993)LEELR;SGLS(1)LEELR;SGLS(1)LEELR ;; 150.15 0.00042675 34586400 7622.8 7986.1 7155.1 8362.2 7731.8 8536.3 8403.9 9407.2 8300.2 8003.7 TRUE FALSE FALSE 8424.601079 8244.85488 8130.159766 8524.062473 7139.391154 7808.959216 7458.271054 9166.577445 8242.438232 8348.778676 1.009081856 0.987552216 0.973814264 1.020995142 0.855141983 0.935341506 0.893336779 1.0979543 0.987262754 1 13.02734945 SGLTVPT(ph)SPK ddPTM_HeLa_SAHA_4h_R1 3 SGLTVPTSPK 10 0 Q53EL6;Q53EL6-2;Q5VZS7 Q53EL6 PDCD4 Programmed cell death protein 4 1 0 SGLTVPT(0.992)S(0.008)PK;SGLT(0.001)VPT(0.5)S(0.5)PK;SGLTVPT(0.912)S(0.088)PK ;; 131.42 0.0026756 2587620000 36618.9 34354.1 29996.9 32921.1 32489.4 37427 34629.4 33691.9 38483 33176.8 TRUE FALSE FALSE 40470.64392 35467.19538 34084.72131 33558.3355 30000.06919 34238.00904 30732.80877 32830.10998 38215.19367 34607.21421 1.16942796 1.024849766 0.984902197 0.969691906 0.866873277 0.989331555 0.888046307 0.948649313 1.104255125 1 15.07878519 -6.647528519 1.956998411 1.079773406 0.929712378 0.633535409 0.052094574 0.207468913 1.618649979 0.011690414 0.017546915 2.25E-07 6.647528519 -0.150061027 SGMNS(ph)PLR ddPTM_HeLa_SAHA_4h_R1 1 SGMNSPLR 8 0 Q9UQR1 Q9UQR1 ZNF148 Zinc finger protein 148 1 0 S(0.12)GMNS(0.88)PLR 86.189 0.021611 10759000 3688.5 4110.9 3940.9 2842.6 3730.3 3806.8 3972 2676.4 2275.7 3247.7 TRUE FALSE FALSE 4076.473353 4244.095857 4477.945329 2897.622633 3444.48522 3482.439224 3525.060106 2607.941563 2259.863218 3387.724241 1.203307313 1.252786696 1.32181518 0.855330135 1.016754899 1.027958292 1.040539269 0.769821089 0.667074135 1 11.72610073 -6.240458581 24.97854356 1.128093739 0.956470202 0.114976113 0.186697653 834.6717965 993712.8483 0.020425579 0.033850542 5.75E-07 6.240458581 -0.171623536 SGMS(ph)PEQSR ddPTM_HeLa_SAHA_4h_R1 4 SGMSPEQSR 9 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SGMS(0.879)PEQS(0.121)R;S(0.241)GMS(0.758)PEQS(0.001)R;SGMS(1)PEQSR;S(0.024)GMS(0.973)PEQS(0.003)R ;;; 121.68 0.0033787 697282500 10896.63 10709.32 8375.76 11770.2 11757.75 14599.3 12714.6 12000.6 11521.44 12062.7 TRUE FALSE FALSE 12042.78754 11056.30899 9517.164954 11998.02924 10856.87374 13355.35751 11283.91975 11693.64203 11441.26136 12582.78203 0.95708465 0.87868557 0.756364128 0.953527544 0.862835715 1.061399417 0.896774634 0.929336772 0.909279151 1 13.61916331 -7.546868464 2.840313251 0.983337152 0.906104107 0.052097617 0.076279298 0.31761892 5.27062754 0.013540631 0.014534242 2.84E-08 7.546868464 -0.077233045 SGPEAEGLGSETSPTVDDEEEMLYGDSGS(ph)LFSPSKEEARR ddPTM_HeLa_SAHA_4h_R1 1 SGPEAEGLGSETSPTVDDEEEMLYGDSGSLFSPSKEEARR 40 2 Q10570 Q10570 CPSF1 Cleavage and polyadenylation specificity factor subunit 1 1 0 SGPEAEGLGSET(0.001)S(0.001)PT(0.029)VDDEEEMLY(0.09)GDS(0.101)GS(0.375)LFS(0.301)PS(0.101)KEEARR 66.58 4.00E-06 9707100 866.41 661.34 783.58 734.12 919.57 883.3 831.53 1109.7 437.5 750.13 TRUE FALSE FALSE 957.542979 682.7678499 890.3622017 748.3299542 849.1127453 808.0378707 737.9640559 1081.315481 434.4554019 782.4717753 1.223741238 0.872578247 1.137884113 0.956366706 1.085167251 1.032673505 0.943119074 1.381922665 0.555234598 1 9.611894903 -4.245767778 23.90546172 1.069922982 1.381923094 0.162406246 0.191731912 1270.72814 1938310.499 0.015818702 0.49320743 5.68E-05 4.245767778 0.312000112 SGPFGQIFRPDNFVFGQSGAGNNWAK ddPTM_HeLa_SAHA_4h_R1 1 SGPFGQIFRPDNFVFGQSGAGNNWAK 26 1 P68371;M0QY85;M0QZL7;M0R278;M0R1I1;P04350;P07437;Q5JP53;Q5ST81;Q9BVA1;Q13885 P68371;P04350;P07437;Q9BVA1 TUBB4B;TUBB4A;TUBB;TUBB2B;TUBB2A Tubulin beta-4B chain;Tubulin beta-4A chain;Tubulin beta chain;Tubulin beta-2B chain;Tubulin beta-2A chain 0 0 93.404 1.83E-05 501470 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 SGPKPFSAPKPQT(ph)SPSPK ddPTM_HeLa_SAHA_4h_R1 1 SGPKPFSAPKPQTSPSPK 18 2 Q01518-2;Q01518 Q01518-2 CAP1 Adenylyl cyclase-associated protein 1 1 0 SGPKPFSAPKPQT(0.638)S(0.17)PS(0.192)PK 97.776 0.01346 94623000 1161.8 726.09 869.98 933.09 1054 808.27 1019.9 1213.5 842.95 858.51 TRUE FALSE FALSE 1284.003455 749.6157924 988.5363437 951.1513062 973.2427477 739.4008488 905.1381678 1182.460427 837.0838423 895.5245675 1.433800368 0.837068931 1.103862897 1.062116374 1.08678509 0.825662272 1.010735161 1.32041093 0.934741349 1 9.806589201 -7.2544859 24.97653316 1.204850174 1.031887963 0 0.184560257 811.4739047 2914773.213 0.033574714 0.04063413 5.57E-08 7.2544859 -0.172962211 SGPPS(ph)PPSTATSFGGPRPR ddPTM_HeLa_SAHA_4h_R1 1 SGPPSPPSTATSFGGPRPR 19 1 A0A0A0MS59;A0A0C4DFX4;Q6ZRS2-3;Q6ZRS2-2;Q6ZRS2;A0A087X0E3 A0A0A0MS59 SRCAP Helicase SRCAP 1 0 S(0.011)GPPS(0.988)PPSTATSFGGPRPR 82.406 0.0024647 3770900 618.17 569.93 694.33 919.04 789 1086.8 1082.4 731.58 926.74 1009.6 TRUE FALSE FALSE 683.1919569 588.3961059 788.9496765 936.8293482 728.5469905 994.1985258 960.6055033 712.8672429 920.2907409 1053.128797 0.648725929 0.558712389 0.749148327 0.889567687 0.691792868 0.944042674 0.91214437 0.67690414 0.873863428 1 10.04046617 -9.474353245 1.254996309 0.998032395 0.753258695 0.229652432 0.123205942 0.413964972 1.181060591 0.085022552 0.021593984 3.35E-10 9.474353245 -0.2447737 SGPPSPPSTATS(ph)FGGPRPR ddPTM_HeLa_SAHA_4h_R1 1 SGPPSPPSTATSFGGPRPR 19 1 A0A0A0MS59;A0A0C4DFX4;Q6ZRS2-3;Q6ZRS2-2;Q6ZRS2;A0A087X0E3 A0A0A0MS59 SRCAP Helicase SRCAP 1 0 SGPPS(0.207)PPS(0.027)T(0.027)AT(0.027)S(0.71)FGGPRPR 133.93 0.00033356 16080000 578.04 680.79 591.21 569.96 827.92 788.12 863.85 688.04 755.21 563.62 TRUE FALSE FALSE 638.8408993 702.8480427 671.7770199 580.9924 764.4849485 720.9677422 766.6473245 670.4409331 749.9544321 587.9204165 1.086611183 1.195481604 1.142632576 0.988216064 1.300320463 1.226301591 1.303998472 1.140360012 1.275605356 1 9.199477068 -6.794460921 0.273073139 0.979028336 1.285887057 0 0.118155361 1.268903009 0.272934232 0.086515109 0.147833111 1.61E-07 6.794460921 0.30685872 SGPS(ph)PLSSPNGK ddPTM_HeLa_SAHA_4h_R1 2 SGPSPLSSPNGK 12 0 O75179-4;O75179-6;O75179-2;O75179;H0YM23;O75179-7 O75179-4 ANKRD17 Ankyrin repeat domain-containing protein 17 1 0 S(0.085)GPS(0.912)PLS(0.002)SPNGK;S(0.148)GPS(0.847)PLS(0.004)S(0.001)PNGK ; 109.95 0.0031272 11702200 3418.6 3045.5 2848.5 3177 3264.5 3314.6 3188.4 4173.2 3179.1 3000.2 TRUE FALSE FALSE 3778.184033 3144.176198 3236.678746 3238.495429 3014.374715 3032.177433 2829.632841 4066.455587 3156.976384 3129.553305 1.207259844 1.004672518 1.034230266 1.034810759 0.963196476 0.968885057 0.904165088 1.299372527 1.008762618 1 11.61174103 SGQGFHGNSEVNAILS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 SGQGFHGNSEVNAILSPR 18 0 C9JW01;A0A0A0MR59;Q8TB72-2;Q8TB72-4;Q8TB72-3;Q8TB72 C9JW01 PUM2 Pumilio homolog 2 1 0 SGQGFHGNSEVNAILS(1)PR;SGQGFHGNSEVNAILS(1)PR ; 168.46 1.18E-06 12656500 1349.6 1921.94 870.36 1810.57 2979.6 3699.3 2260.2 2191.67 2109.4 1920.95 TRUE FALSE FALSE 1491.55712 1984.212117 988.9681282 1845.6162 2751.303692 3384.098828 2005.876347 2135.610255 2094.720514 2003.771555 0.744374835 0.990238688 0.493553332 0.921071165 1.373062555 1.688864591 1.001050415 1.065795274 1.045388886 1 10.96850232 -5.825392067 6.021155518 0.854434993 1.290573329 0.445156383 0.228107838 0.140351188 9.622494368 0.034047526 0.062697735 1.49E-06 5.825392067 0.436138336 SGQVYSFGCNDEGALGR ddPTM_HeLa_SAHA_4h_R1 1 SGQVYSFGCNDEGALGR 17 0 P18754-2;C9JRH2;C9J3R0;C9JMJ4;C9JQZ4;C9JW69;P18754 P18754-2 RCC1 Regulator of chromosome condensation 0 0 136.14 0.00071011 4560600 896.98 856.29 662.66 841.91 948.38 1108.1 860.16 1102.8 1069.4 1013.8 FALSE FALSE TRUE 991.3284719 884.0343578 752.9638538 858.2063855 875.7153293 1013.683646 763.372533 1074.591973 1061.957958 1057.509879 0.937417693 0.835958486 0.712015905 0.8115351 0.828091866 0.95855714 0.721858536 1.016153129 1.004206182 1 10.04645543 -7.425657259 2.576483821 0.97519419 0.833989467 0.347109385 0.088629965 0.221105395 2.788348433 0.01529774 0.017111567 3.75E-08 7.425657259 -0.141204722 SGRS(ph)PTGNTPPVIDSVSEK ddPTM_HeLa_SAHA_4h_R1 1 SGRSPTGNTPPVIDSVSEK 19 1 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 S(0.037)GRS(0.699)PT(0.26)GNT(0.003)PPVIDSVSEK 112.64 0.00041433 38539000 1564.9 1791.1 1662.3 1597.7 1772 2101 1891.5 1808.7 1461.2 1410.9 TRUE FALSE FALSE 1729.503362 1849.132815 1888.829587 1628.625794 1636.229743 1921.98298 1678.663442 1762.436073 1451.03139 1471.730804 1.175149258 1.256434132 1.283406981 1.106605766 1.111772437 1.305933786 1.140604951 1.197526116 0.985935326 1 10.52329809 -8.851896243 0.75380176 1.001022525 1.19796613 0.600459111 0.065925923 0.379695212 0.407751136 0.041357434 0.01421297 1.41E-09 8.851896243 0.196943605 SGS(ph)AAQAEGLCK ddPTM_HeLa_SAHA_4h_R1 1 SGSAAQAEGLCK 12 0 F8WF93;H7BZZ2;F8WE30;H7C0X4;Q92685 F8WF93 ALG3 "Dol-P-Man:Man(5)GlcNAc(2)-PP-Dol alpha-1,3-mannosyltransferase" 1 0 S(0.004)GS(0.996)AAQAEGLCK 118.13 0.0016272 15243000 565.73 1311.5 727.7 889.74 1189.1 935.6 1201.7 763.98 686.75 722.85 TRUE FALSE FALSE 625.2360771 1353.993461 826.8671663 906.9622043 1097.991415 855.8816165 1066.481553 744.4384978 681.9708508 754.015601 0.829208409 1.79571014 1.096618114 1.202842757 1.456191906 1.135098021 1.414402503 0.987298534 0.90445191 1 9.558450564 SGS(ph)ELPSILPEIWPK ddPTM_HeLa_SAHA_4h_R1 1 SGSELPSILPEIWPK 15 0 Q96FF9;B5MBX0 Q96FF9 CDCA5 Sororin 1 0 S(0.422)GS(0.577)ELPSILPEIWPK 105.19 0.0017654 0 0 0 0 0 0 0 68.215 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 60.53926867 0 0 0 0 SGS(ph)ESEEAELSLSLAR ddPTM_HeLa_SAHA_4h_R1 1 SGSESEEAELSLSLAR 16 0 Q8IV50 Q8IV50 LYSMD2 LysM and putative peptidoglycan-binding domain-containing protein 2 1 0 S(0.002)GS(0.994)ES(0.004)EEAELSLSLAR 178.47 3.23E-09 3675300 437.89 470.82 508.93 647.59 674.79 587.48 421.47 586.75 579.31 532.13 TRUE FALSE FALSE 483.9492793 486.0748769 578.28433 660.1250409 623.087736 537.4233989 374.0450864 571.7417846 575.2785345 555.0727285 0.871866432 0.875695836 1.041817226 1.189258645 1.122533506 0.968203573 0.673866805 1.0300304 1.036402088 1 9.116533003 -3.930261747 22.20040808 0.954985947 3.683495236 0 0.138401178 5182.279579 1510802.153 0.019512751 59192.23027 0.000117419 3.930261747 2.728509289 SGS(ph)GGGSAKEPQEER ddPTM_HeLa_SAHA_4h_R1 1 SGSGGGSAKEPQEER 15 1 F5GWT4;Q9H4A3-2;Q9H4A3;Q9H4A3-5;Q9H4A3-6;Q9H4A3-7;F6UYG0 F5GWT4 WNK1 Serine/threonine-protein kinase WNK1 1 0 S(0.262)GS(0.738)GGGS(0.001)AKEPQEER 174.59 2.33E-06 6153500 409.68 342.06 342.04 456.57 363.67 403.65 462.08 511.33 358.6 401.57 TRUE FALSE FALSE 452.7720221 353.1429684 388.6514299 465.4075726 335.8056832 369.2567491 410.0855423 498.250919 356.1044734 418.8836479 1.08090164 0.843057422 0.927826693 1.111066462 0.80166816 0.881525815 0.978996302 1.189473309 0.850127416 1 8.710405756 -7.31171828 24.99978526 1.03820355 0.95776607 0 0.126699984 639.1021903 317774.3442 0.019071611 0.021809215 4.88E-08 7.31171828 -0.08043748 SGS(ph)GNFGGGR ddPTM_HeLa_SAHA_4h_R1 3 SGSGNFGGGR 10 0 F8W6I7;P09651-2;P09651;F8VZ49;A0A2R8Y4L2;H0YH80 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 S(0.003)GS(0.997)GNFGGGR;S(0.058)GS(0.942)GNFGGGR;S(0.085)GS(0.915)GNFGGGR ;; 99.732 0.010635 28719200 3278.72 3747.9 3223.85 5383 4515.3 7913.5 5922 4820.6 5688.5 6619.8 TRUE FALSE FALSE 3623.590813 3869.334419 3663.179489 5487.195749 4169.338689 7239.22528 5255.640974 4697.296032 5648.913265 6905.211975 0.524761706 0.560349839 0.530494864 0.794645518 0.603795902 1.048371188 0.761112185 0.680253705 0.818065149 1 12.75346999 -4.25286781 19.83211078 0.747994604 0.680253124 0.006607315 0.177238248 398.8164439 922300.3928 0.030319413 0.398275506 5.59E-05 4.25286781 -0.06774148 SGS(ph)IVELIAGGGSSCS(ph)PVLSR ddPTM_HeLa_SAHA_4h_R1 2 SGSIVELIAGGGSSCSPVLSR 21 0 P42858 P42858 HTT Huntingtin 2 0 S(0.279)GS(0.721)IVELIAGGGS(0.006)S(0.064)CS(0.834)PVLS(0.096)R;S(0.102)GS(0.898)IVELIAGGGSSCS(0.999)PVLSR ; 171.9 5.52E-09 63387000 1799.75 2383.5 2086.7 2630.7 2817.1 3066.1 2868.3 3305.8 2151.37 2830.3 TRUE FALSE FALSE 1989.055963 2460.726964 2371.064609 2681.621003 2601.254407 2804.851031 2545.551335 3221.242423 2136.398441 2952.328084 0.673724568 0.833486961 0.80311691 0.90830725 0.881085819 0.9500472 0.862218311 1.09108552 0.723631785 1 11.52763734 -1 0.716264012 0.844348297 32.70148905 0.397337635 0.091697094 339.329693 1.576676367 0.020337383 17380.5666 0.1 1 31.85714075 SGS(ph)LKGPDDPR ddPTM_HeLa_SAHA_4h_R1 1 SGSLKGPDDPR 11 1 A8MVZ6;Q96G01-4;Q96G01-3;Q96G01 A8MVZ6 BICD1 Protein bicaudal D homolog 1 1 0 S(0.399)GS(0.601)LKGPDDPR 108.32 0.020359 19598000 2392.3 2716.5 2275.1 2570.7 2548.3 2955 3067.1 2847.1 2698.5 3082.6 TRUE FALSE FALSE 2643.93309 2804.516382 2585.13878 2620.459616 2353.049805 2703.217376 2721.981836 2774.275305 2679.720919 3215.505972 0.822244808 0.872185095 0.803960186 0.814944721 0.731782129 0.840681808 0.846517425 0.86278033 0.833374574 1 11.65083005 -9.217815884 0.581215842 1.027045853 0.818161908 0.026929015 0.063250646 0.446816573 0.221268499 0.050234628 0.008989623 6.06E-10 9.217815884 -0.208883945 SGS(ph)MDPSGAHPSVR ddPTM_HeLa_SAHA_4h_R1 3 SGSMDPSGAHPSVR 14 0 Q07666-3;Q07666-2;Q07666 Q07666-3 KHDRBS1 "KH domain-containing, RNA-binding, signal transduction-associated protein 1" 1 0 S(0.084)GS(0.916)MDPSGAHPSVR;S(0.167)GS(0.833)MDPSGAHPSVR;S(0.002)GS(0.983)MDPS(0.015)GAHPSVR ;; 113.52 0.0010041 13457600 3013.48 3640.75 2299.65 3903.27 4137.74 5942.72 3682.4 3639.43 4148.87 3538.12 TRUE FALSE FALSE 3330.451653 3758.712689 2613.034326 3978.823435 3820.707255 5436.366823 3268.04666 3546.33865 4119.997676 3690.665668 0.902398633 1.018437601 0.70801166 1.078077451 1.035235266 1.473004415 0.885489761 0.960894042 1.116329152 1 11.84966534 -6.035665901 24.89934146 0.93971847 1.095979955 0.132999069 0.174497679 738.6478319 515669.2676 0.024211299 0.04016038 9.21E-07 6.035665901 0.156261485 SGS(ph)NGSVVSLEQQQK ddPTM_HeLa_SAHA_4h_R1 2 SGSNGSVVSLEQQQK 15 0 Q2M1P5 Q2M1P5 KIF7 Kinesin-like protein KIF7 1 0 S(0.003)GS(0.997)NGSVVSLEQQQK;S(0.025)GS(0.975)NGSVVSLEQQQK ; 260.07 3.31E-44 14023700 2188.08 2450.71 2157.44 2463.06 2452.05 2660.7 2724.6 2611.2 2467.64 2138.24 TRUE FALSE FALSE 2418.232294 2530.114612 2451.444688 2510.736088 2264.174459 2433.993391 2418.020837 2544.409285 2450.467492 2230.429991 1.084200044 1.134361815 1.099090623 1.125673569 1.015129131 1.091266438 1.084105239 1.140770746 1.098652503 1 11.12310615 -8.839784472 0.758122989 1.000777724 1.095742907 0 0.044822753 0.395846053 0.432127788 0.020743091 0.007256116 1.45E-09 8.839784472 0.094965184 SGS(ph)PAPETTNESVPFAQHSSLDSR ddPTM_HeLa_SAHA_4h_R1 2 SGSPAPETTNESVPFAQHSSLDSR 24 0 O15047 O15047 SETD1A Histone-lysine N-methyltransferase SETD1A 1 0 S(0.201)GS(0.796)PAPET(0.004)TNESVPFAQHSSLDSR;S(0.249)GS(0.747)PAPET(0.004)TNESVPFAQHSSLDSR ; 167.92 7.50E-09 11537400 1595.93 1730.72 1214.96 1450.87 2218.9 2624.2 2014.78 2225.8 2105.87 1702.57 TRUE FALSE FALSE 1763.79724 1786.796464 1380.528422 1478.953687 2048.888361 2400.603397 1788.071652 2168.867259 2091.215079 1775.976125 0.993142427 1.006092615 0.777335012 0.832755388 1.153668866 1.351709273 1.006810636 1.221225459 1.177501797 1 10.79439647 -5.625484862 7.727638188 0.969147526 1.187238384 0.416091081 0.127493847 0.158638123 10.64396643 0.016161627 0.032408124 2.37E-06 5.625484862 0.218090857 SGS(ph)PISSEER ddPTM_HeLa_SAHA_4h_R1 2 SGSPISSEER 10 0 H8Y6P7;P0CAP2-3;P0CAP2;P0CAP1-11;P0CAP2-2 H8Y6P7 GCOM1;POLR2M DNA-directed RNA polymerase II subunit GRINL1A 1 0 S(0.326)GS(0.673)PISSEER;S(0.061)GS(0.886)PIS(0.042)S(0.011)EER ; 122.18 0.0027578 80845000 6621 6909.4 6727.9 10078.2 6625.4 7078.8 6777.3 9212.8 8739.7 5901.7 TRUE FALSE FALSE 7317.427158 7133.269093 7644.743175 10273.27813 6117.763283 6475.646416 6014.700367 8977.149916 8678.879716 6156.151169 1.188636692 1.158722211 1.241805629 1.668782629 0.993764304 1.051898538 0.977022851 1.458240655 1.409789896 1 12.58781294 -8.838154038 0.729980785 1.00074516 1.212134063 0 0.236636211 1.119943006 1.125398563 0.129203012 0.043829752 1.45E-09 8.838154038 0.211388904 SGS(ph)PISSEERR ddPTM_HeLa_SAHA_4h_R1 3 SGSPISSEERR 11 1 H8Y6P7;P0CAP2-3;P0CAP2;P0CAP1-11;P0CAP2-2 H8Y6P7 GCOM1;POLR2M DNA-directed RNA polymerase II subunit GRINL1A 1 0 S(0.027)GS(0.973)PISSEERR;S(0.158)GS(0.842)PISSEERR;S(0.165)GS(0.835)PISSEERR ;; 109.6 0.0022389 20296300 3969.35 3381.89 3294.68 3812.03 4012.23 3936.74 3723.68 3640.63 3252.77 3594.84 TRUE FALSE FALSE 4386.864445 3491.465455 3743.661832 3885.817353 3704.813804 3601.307605 3304.681726 3547.507956 3230.133709 3749.831145 1.169883196 0.93109938 0.998354776 1.036264622 0.987994835 0.960391939 0.881288143 0.94604472 0.861407776 1 11.87260992 -5.773377031 0.71429278 1.071461513 0.909284228 0 0.090037279 0.694207883 0.623010436 0.015329815 0.060941657 1.69E-06 5.773377031 -0.162177285 SGS(ph)PLEKDSDGLR ddPTM_HeLa_SAHA_4h_R1 1 SGSPLEKDSDGLR 13 1 B1AKL4;Q9NRA8;Q9NRA8-3;B1AKL5 B1AKL4 EIF4ENIF1 Eukaryotic translation initiation factor 4E transporter 1 0 SGS(0.999)PLEKDSDGLR 137.93 0.0020677 7777400 2038.4 1656.3 2016.3 2250.4 1839.5 1805.9 1848.5 2400.9 1481.3 1973.5 TRUE FALSE FALSE 2252.808265 1709.965207 2291.070864 2293.959746 1698.557907 1652.02716 1640.501915 2339.488454 1470.991513 2058.587243 1.094346753 0.830649861 1.112933577 1.114336909 0.825108537 0.802505294 0.796906675 1.136453392 0.714563601 1 11.00743888 -5.756136266 24.99915438 1.03782471 0.877309537 0 0.156678299 124.9156379 588852.456 0.016783728 0.032793342 1.75E-06 5.756136266 -0.160515172 SGS(ph)PRPTEPTDFLMLFEGS(ph)PSGK ddPTM_HeLa_SAHA_4h_R1 2 SGSPRPTEPTDFLMLFEGSPSGK 23 1 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 2 0 S(0.304)GS(0.348)PRPT(0.318)EPT(0.036)DFLMLFEGS(0.739)PS(0.255)GK;S(0.398)GS(0.455)PRPT(0.123)EPT(0.024)DFLMLFEGS(0.897)PS(0.103)GK ; 58.251 0.0081005 35189100 2998.89 4022.5 4126.5 4473.8 4680.5 5404.6 4535.2 4855.2 4804.4 4483.7 TRUE FALSE FALSE 3314.32701 4152.831639 4688.83793 4560.396868 4321.881101 4944.097675 4024.88736 4731.011014 4770.965789 4677.01425 0.708641632 0.887923666 1.00252804 0.975065849 0.924068406 1.05710554 0.860567692 1.011545136 1.020087931 1 12.19137211 -6.896112515 5.948045115 0.859294037 0.968114533 0.036874424 0.096437128 0.293826195 14.72912913 0.018794938 0.024806439 1.27E-07 6.896112515 0.108820496 SGS(ph)PSDNSGAEEMEVSLAKPK ddPTM_HeLa_SAHA_4h_R1 1 SGSPSDNSGAEEMEVSLAKPK 21 1 P31749-2;P31749 P31749-2 AKT1 RAC-alpha serine/threonine-protein kinase 1 0 S(0.027)GS(0.503)PS(0.448)DNS(0.021)GAEEMEVSLAKPK 73.072 0.0019967 9152900 670.47 793.71 837.81 776.74 806.58 1006.6 684.01 825.44 716.6 816.84 TRUE FALSE FALSE 740.9931108 819.4267248 951.9823837 791.7749259 744.7800147 920.832017 607.0433946 804.32644 711.6131223 852.0579699 0.869651053 0.961703022 1.117274196 0.929250067 0.874095473 1.080715221 0.712443773 0.943980889 0.835169845 1 9.734807778 -4.758414481 24.99999919 0.954020634 0.828212386 0.212678898 0.099963243 85.83894122 709397.944 0.012920385 0.044504996 1.74E-05 4.758414481 -0.125808248 SGS(ph)SPEVKDKPR ddPTM_HeLa_SAHA_4h_R1 1 SGSSPEVKDKPR 12 2 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.162)GS(0.708)S(0.13)PEVKDKPR 55.899 0.021282 8018400 6495.8 2393.1 6419.3 4811.4 3941.4 3279.4 6287.2 6762.5 1272.3 4692.8 TRUE FALSE FALSE 7179.058048 2470.63801 7294.088774 4904.531604 3639.410783 2999.976671 5579.747709 6589.525042 1263.445961 4895.129574 1.466571607 0.504713506 1.490070623 1.001920691 0.743475883 0.612849287 1.139857 1.346139043 0.258102659 1 12.25713133 -6.01881154 24.31983722 1.182159703 0.939066632 0 0.43271173 951.2684771 1229815.304 0.050418727 0.084601332 9.58E-07 6.01881154 -0.243093071 SGS(ph)SPGLR ddPTM_HeLa_SAHA_4h_R1 1 SGSSPGLR 8 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.28)GS(0.477)S(0.244)PGLR 117.81 0.0039436 10902000 1764.2 1778.4 1641.7 2388.3 2425.5 4102.9 2656.2 2361.5 2845.9 3557.5 TRUE FALSE FALSE 1949.76665 1836.021327 1865.422326 2434.529 2239.658714 3753.309838 2357.317385 2301.096249 2826.09515 3710.881235 0.525418769 0.494766933 0.502689849 0.656051446 0.603538236 1.011433565 0.635244632 0.620094286 0.761569819 1 11.85754611 -9.358592582 1.09206553 0.999154079 0.627897352 0.245604997 0.155505413 0.358680104 0.768050484 0.10077068 0.026445612 4.38E-10 9.358592582 -0.371256727 SGS(ph)YSYLEER ddPTM_HeLa_SAHA_4h_R1 1 SGSYSYLEER 10 0 O14974-5;O14974-4;O14974-3;O14974-2;O14974;A0A0U1RQZ1;H0YIM2;H0YIS3 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 S(0.05)GS(0.936)YS(0.014)YLEER 176.18 5.23E-05 22255000 993.73 882.92 952.12 1031.5 896.58 1329.4 1214.3 908.45 781.17 998.02 TRUE FALSE FALSE 1098.255081 911.5271873 1081.869955 1051.466174 827.8842341 1216.127641 1077.663768 885.2131644 775.7337744 1041.049526 1.054949888 0.875584844 1.039210842 1.01000591 0.795240008 1.168174626 1.035170509 0.850308407 0.745145889 1 10.02382299 SGSAT(ph)PPARAPGAPPR ddPTM_HeLa_SAHA_4h_R1 1 SGSATPPARAPGAPPR 16 1 H3BN50;Q15599-3 H3BN50 SLC9A3R2 Na(+)/H(+) exchange regulatory cofactor NHE-RF2 1 0 S(0.027)GS(0.168)AT(0.805)PPARAPGAPPR 86.699 0.0095372 10975000 3130 1888.9 3322.9 1999.6 2549.8 2196.1 3106.7 3133 1142.6 2656.6 TRUE FALSE FALSE 3459.227761 1950.101599 3775.727507 2038.305149 2354.434875 2008.979925 2757.12594 3052.862397 1134.648554 2771.139027 1.248305382 0.703718428 1.362518253 0.735547776 0.849627121 0.724965404 0.994943203 1.101663383 0.409452049 1 11.43626338 -6.240106415 24.99680466 1.099361957 0.877209811 0 0.290183664 921.0039892 1079182.71 0.028976474 0.04802432 5.75E-07 6.240106415 -0.222152146 SGSDAGEARPPTPAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SGSDAGEARPPTPASPR 17 1 Q96FS4;F6RY50;E9PIB3 Q96FS4 SIPA1 Signal-induced proliferation-associated protein 1 1 0 SGSDAGEARPPT(0.06)PAS(0.94)PR 152.68 0.00021632 5474100 768.8 497.09 390.34 788.72 617.22 694.46 503.32 753.26 592.75 636.2 TRUE FALSE FALSE 849.6659114 513.1960422 443.5335024 803.9868161 569.9287369 635.2881011 446.6851089 733.9926999 588.6250045 663.6296955 1.280331361 0.773316875 0.66834487 1.211499156 0.858805356 0.957293059 0.673093914 1.10602751 0.886978097 1 9.374234634 -7.256806275 24.99972527 1.132378698 0.889006869 0.094729945 0.191050849 385.2202405 2078607.17 0.030681598 0.036910419 5.54E-08 7.256806275 -0.24337183 SGSGSVGNGSSRYS(ph)PS(ph)QNSPIHHIPSRR ddPTM_HeLa_SAHA_4h_R1 1 SGSGSVGNGSSRYSPSQNSPIHHIPSRR 28 2 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;H0YF00;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 2 0 S(0.001)GS(0.004)GS(0.005)VGNGS(0.052)S(0.058)RY(0.091)S(0.795)PS(0.823)QNS(0.17)PIHHIPS(0.001)RR 64.209 0.00042103 10255000 1135.3 1016.6 1023 1035.3 1683.2 1444.3 1527.2 1302.6 922.92 1168.2 TRUE FALSE FALSE 1254.716063 1049.538507 1162.409112 1055.339729 1554.23358 1321.237515 1355.355437 1269.281378 916.4973246 1218.566819 1.029665377 0.861289254 0.953914955 0.866049947 1.275460283 1.084255286 1.112253686 1.041618201 0.752110849 1 10.25096965 -5.769205586 24.99973044 0.987352999 1.124090816 0.394367814 0.109752118 136.8504041 440528.5028 0.012281839 0.022560765 1.70E-06 5.769205586 0.136737817 SGSGSVGNGSSRYSPS(ph)QNS(ph)PIHHIPSR ddPTM_HeLa_SAHA_4h_R1 1 SGSGSVGNGSSRYSPSQNSPIHHIPSR 27 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;H0YF00;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 2 0 S(0.006)GS(0.006)GS(0.008)VGNGS(0.033)S(0.034)RY(0.096)S(0.124)PS(0.785)QNS(0.901)PIHHIPS(0.007)R 44.304 0.017038 10564000 403.47 608.52 476.19 561.93 857.28 820.59 795.74 847.39 646.23 542.05 TRUE FALSE FALSE 445.9088258 628.2364473 541.0826933 572.8069677 791.5953916 750.6711155 706.2012409 825.7149908 641.7328328 565.4204282 0.788632323 1.111096126 0.956956393 1.0130638 1.400012012 1.327633524 1.248984306 1.460355781 1.134965772 1 9.143180197 -5.858314887 4.048597509 0.92285643 1.349669305 0.676096415 0.115334875 0.07896949 2.410855106 0.016674376 0.031457016 1.39E-06 5.858314887 0.426812875 SGSIVELIAGGGS(ph)SCSPVLSR ddPTM_HeLa_SAHA_4h_R1 2 SGSIVELIAGGGSSCSPVLSR 21 0 P42858 P42858 HTT Huntingtin 1 0 S(0.003)GS(0.003)IVELIAGGGS(0.434)S(0.434)CS(0.122)PVLS(0.004)R;SGSIVELIAGGGS(0.477)S(0.314)CS(0.209)PVLSR ; 113.47 9.51E-05 235184500 265.21 458 406.32 533.92 737.54 679.91 525.89 371.75 512.68 551.42 TRUE FALSE FALSE 293.1060046 472.8395005 461.6911736 544.2547937 681.0298445 621.9778429 466.7154731 362.2411733 509.1122181 575.1944148 0.509577279 0.82205162 0.802669779 0.94621015 1.183999404 1.081334983 0.811404737 0.629771715 0.885113285 1 9.167905857 -6.348124551 3.653685802 0.767731811 0.946519827 0.091846381 0.181814474 0.421336372 10.66254805 0.036259507 0.057140306 4.49E-07 6.348124551 0.178788016 SGSLDDS(ph)FSDFQELPASSK ddPTM_HeLa_SAHA_4h_R1 2 SGSLDDSFSDFQELPASSK 19 0 Q9UMZ2-6;Q9UMZ2-9;Q9UMZ2-4;Q9UMZ2-8;Q9UMZ2-3;Q9UMZ2-7;Q9UMZ2-5;Q9UMZ2 Q9UMZ2-6 SYNRG Synergin gamma 1 0 SGSLDDS(0.952)FS(0.048)DFQELPASSK;S(0.026)GS(0.026)LDDS(0.516)FS(0.431)DFQELPASSK ; 145.82 3.29E-10 4412300 2940.13 2633.46 3085.99 3245.26 2901.75 3137.76 2865.74 2824.51 3006.06 2718.75 TRUE FALSE FALSE 3249.386363 2718.785832 3506.532646 3308.0767 2679.418542 2870.405195 2543.279393 2752.263124 2985.140584 2835.968618 1.145776559 0.958679802 1.236449735 1.166471547 0.944798375 1.012142792 0.896793913 0.970484337 1.052600006 1 11.46962585 -5.737817092 24.94592227 1.081331479 0.955828148 0.40586805 0.080585527 214.9609369 227004.6325 0.012887642 0.025763922 1.83E-06 5.737817092 -0.125503331 SGSLDSELS(ph)VSPK ddPTM_HeLa_SAHA_4h_R1 1 SGSLDSELSVSPK 13 0 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 SGSLDSELS(0.923)VS(0.077)PK 194.86 7.83E-08 10790000 1077.7 1200.6 965.55 1164.6 1063.4 961.41 1424.9 1155.3 1268.6 1122 TRUE FALSE FALSE 1191.057431 1239.500228 1097.130126 1187.142517 981.9225217 879.4924593 1264.566502 1125.749099 1259.771709 1170.374911 1.017671705 1.059062542 0.937417673 1.014326696 0.838981178 0.751462161 1.080479845 0.961870498 1.076383044 1 10.19275503 -5.788154025 24.96824686 1.00722901 0.909308778 0.27340809 0.0863007 233.5479798 218279.8114 0.012318776 0.022334208 1.63E-06 5.788154025 -0.097920232 SGSLDSELSVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 SGSLDSELSVSPK 13 0 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 SGSLDSELS(0.004)VS(0.996)PK;SGSLDSELS(0.002)VS(0.998)PK;SGSLDSELS(0.01)VS(0.99)PK ;; 208.82 1.90E-11 175172000 11528.7 10927.3 8965.5 10191.2 11657 12419.1 11857.8 11473.6 11204.6 9918.6 TRUE FALSE FALSE 12741.34156 11281.35169 10187.27165 10388.46541 10763.84318 11360.92281 10523.52914 11180.12193 11126.62628 10346.23939 1.231494951 1.090381855 0.984635216 1.004081292 1.040362858 1.09807268 1.017135671 1.080597646 1.075427106 1 13.33681886 -6.983252285 22.96305112 1.112033969 1.03788852 0.191413872 0.061663966 147.6935216 202502.5592 0.014644916 0.019242921 1.04E-07 6.983252285 -0.07414545 SGSLDSELSVS(ph)PKR ddPTM_HeLa_SAHA_4h_R1 3 SGSLDSELSVSPKR 14 1 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 SGSLDSELSVS(1)PKR;SGSLDSELS(0.033)VS(0.966)PKR;SGSLDSELS(0.006)VS(0.994)PKR ;; 178.14 2.34E-06 100353000 5582.6 5039.8 5226.7 6046.9 5810.7 6131 6140.5 6406.9 5266 5164.4 TRUE FALSE FALSE 6169.803482 5203.092827 5938.967457 6163.946493 5365.485421 5608.604308 5449.554779 6243.020775 5229.353477 5387.062558 1.145300136 0.965849713 1.102450063 1.144212904 0.995994638 1.041124778 1.011600426 1.158891457 0.970724476 1 12.3952831 -4.240860167 23.27757863 1.060812204 1.158891698 0.172469935 0.066083364 2849.423109 3222912.231 0.009426355 0.473048824 5.74E-05 4.240860167 0.098079494 SGSLGQPS(ph)PSAQR ddPTM_HeLa_SAHA_4h_R1 1 SGSLGQPSPSAQR 13 0 A0A087WWW7;E9PGF5;E9PF55;A0A494C067;A0A2R8Y4T1;Q9HBL0;H0Y4U1 A0A087WWW7 TNS1 Tensin-1 1 0 S(0.061)GSLGQPS(0.469)PS(0.469)AQR 107.13 0.0031364 3289000 1149.4 918.79 1083.1 1024.4 1026.7 1321.3 1239.4 1274.2 1376.7 1155.2 TRUE FALSE FALSE 1270.299166 948.5593988 1230.699227 1044.228743 948.0344678 1208.717807 1099.93945 1241.607809 1367.119433 1205.006325 1.054184645 0.787182091 1.021321798 0.866575321 0.786746466 1.003080051 0.91280803 1.030374516 1.134532993 1 10.234825 -7.315259743 24.99997784 1.025587212 0.915953399 0.339111312 0.089917772 289.8708951 134646.597 0.013525422 0.015466919 4.84E-08 7.315259743 -0.109633813 SGSLGQPSPS(ph)AQR ddPTM_HeLa_SAHA_4h_R1 1 SGSLGQPSPSAQR 13 0 A0A087WWW7;E9PGF5;E9PF55;A0A494C067;A0A2R8Y4T1;Q9HBL0;H0Y4U1 A0A087WWW7 TNS1 Tensin-1 1 0 SGSLGQPS(0.04)PS(0.96)AQR 106.6 0.0032346 3536500 1154 875.89 1043.8 889.48 1178.7 1365.9 899 969.1 1198.6 909.61 TRUE FALSE FALSE 1275.383015 904.2694107 1186.043628 906.6971716 1088.388261 1249.517636 797.842154 944.3118252 1190.258845 948.8277386 1.344167084 0.953038548 1.250009438 0.955597244 1.147087312 1.316906731 0.840871447 0.995240534 1.25445199 1 9.890002377 -4.74712272 24.99640925 1.149440327 0.918055947 0.308169264 0.140537142 248.198505 433338.5726 0.021655398 0.080260047 1.79E-05 4.74712272 -0.231384379 SGSMEEDVDTS(ph)PGGDYYTSPSS(ph)PTSSSR ddPTM_HeLa_SAHA_4h_R1 1 SGSMEEDVDTSPGGDYYTSPSSPTSSSR 28 0 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 2 0 SGSMEEDVDT(0.166)S(0.833)PGGDYYT(0.002)S(0.013)PS(0.189)S(0.65)PT(0.106)S(0.032)S(0.007)S(0.002)R 121.3 2.43E-08 2857300 402.89 264.02 328.16 384.66 465.18 400.16 516.08 609.26 439.92 555.79 TRUE FALSE FALSE 445.2678187 272.5744212 372.8799358 392.1056505 429.5380089 366.0641168 458.0093202 593.6760114 436.8585609 579.7528269 0.76803044 0.470156261 0.643170535 0.676332451 0.740898516 0.631414113 0.790007912 1.024015725 0.753525538 1 9.179294139 -8.58413585 0.966572754 0.975072225 0.71027232 0.079904915 0.151306867 0.381973345 0.725004738 0.053248245 0.028299253 2.61E-09 8.58413585 -0.264799905 SGSMEEDVDTSPGGDYYTSPS(ph)SPTSSSR ddPTM_HeLa_SAHA_4h_R1 2 SGSMEEDVDTSPGGDYYTSPSSPTSSSR 28 0 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 1 0 SGSMEEDVDTSPGGDYYTS(0.001)PS(0.444)S(0.444)PT(0.078)S(0.024)S(0.008)SR;SGSMEEDVDTSPGGDYYT(0.001)S(0.008)PS(0.447)S(0.447)PT(0.074)S(0.019)S(0.005)SR ; 196.9 4.94E-20 17454900 3768.8 3835.9 3132.79 3355.4 4341.8 4536.3 4337.3 3759.6 4759.2 4086.1 TRUE FALSE FALSE 4165.219676 3960.185677 3559.710306 3420.348619 4009.132222 4149.781719 3849.255589 3663.434876 4726.08034 4262.271768 0.977229962 0.929125568 0.835167371 0.802470796 0.940609243 0.97360796 0.90309952 0.859502884 1.108817222 1 12.05740687 -7.159765875 3.042146303 0.989846392 0.888982769 0.500927248 0.059937616 0.176007525 3.118136503 0.00867391 0.010672843 6.92E-08 7.159765875 -0.100863623 SGSMEEDVDTSPGGDYYTSPSS(ph)PTSSSR ddPTM_HeLa_SAHA_4h_R1 1 SGSMEEDVDTSPGGDYYTSPSSPTSSSR 28 0 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 1 0 SGSMEEDVDTSPGGDYYT(0.001)S(0.001)PS(0.071)S(0.861)PT(0.044)S(0.016)S(0.006)SR 151.06 1.21E-10 3485500 823.38 658.75 420.89 694.25 808.49 722.27 601.14 808.6 914.13 629.08 TRUE FALSE FALSE 909.9868862 680.0939322 478.2466973 707.6882127 746.5436709 660.7285326 533.4981451 787.9171828 907.7684949 656.2027174 1.386746598 1.036408284 0.728809383 1.078459741 1.137672324 1.006896977 0.813008131 1.200722219 1.383365949 1 9.357997758 -7.019450768 24.64556741 1.184153878 0.987415054 0.29967581 0.169906578 784.4899661 994006.4331 0.031234396 0.0385688 9.56E-08 7.019450768 -0.196738824 SGSPMVPS(ph)YETSVSPQANR ddPTM_HeLa_SAHA_4h_R1 1 SGSPMVPSYETSVSPQANR 19 0 E9PDH4;Q9Y2I7-2;Q9Y2I7-3;Q9Y2I7-4;Q9Y2I7 E9PDH4 PIKFYVE 1-phosphatidylinositol 3-phosphate 5-kinase 1 0 S(0.012)GS(0.057)PMVPS(0.813)Y(0.005)ET(0.031)S(0.025)VS(0.057)PQANR 97.095 0.00080333 0 241.72 348.97 212.03 129.13 163.28 282.99 380.32 344.07 228.26 0 TRUE FALSE FALSE 267.1452187 360.276857 240.9243442 131.6294979 150.7695217 258.8776599 337.5253927 335.2691876 226.6715201 0 0 SGSPRPTEPT(ph)DFLMLFEGS(ph)PSGK ddPTM_HeLa_SAHA_4h_R1 1 SGSPRPTEPTDFLMLFEGSPSGK 23 1 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 2 0 S(0.067)GS(0.318)PRPT(0.074)EPT(0.54)DFLMLFEGS(0.855)PS(0.145)GK 104.65 0.00014911 38343000 1024.6 1143 940.76 1047.2 1251.5 1180.6 1416.7 1486 1096.2 1266.9 TRUE FALSE FALSE 1132.372129 1180.03395 1068.961874 1067.47007 1155.61034 1080.006238 1257.289187 1447.990272 1088.571455 1321.522259 0.856869509 0.892935357 0.808886771 0.807757919 0.874453936 0.817244076 0.951394635 1.095698738 0.823725403 1 10.36798501 -4.326700924 3.540108683 0.89985979 1.106701558 0.486147222 0.065099596 0.21378868 4.498073038 0.011229825 0.103791224 4.71E-05 4.326700924 0.206841768 SGSPSDNS(ph)GAEEMEVSLAKPK ddPTM_HeLa_SAHA_4h_R1 4 SGSPSDNSGAEEMEVSLAKPK 21 1 P31749-2;P31749 P31749-2 AKT1 RAC-alpha serine/threonine-protein kinase 1 0 S(0.003)GS(0.007)PS(0.2)DNS(0.79)GAEEMEVSLAKPK;S(0.026)GS(0.022)PS(0.08)DNS(0.872)GAEEMEVSLAKPK;S(0.009)GS(0.075)PS(0.413)DNS(0.502)GAEEMEVSLAKPK;SGS(0.002)PS(0.017)DNS(0.98)GAEEMEVSLAKPK ;;; 111.63 0.0001627 124717000 5211.8 6192.41 5272.44 5845.93 6271 6327.81 6473.64 6221.18 4803.97 5869.84 TRUE FALSE FALSE 5760.001037 6393.048147 5990.940666 5959.086429 5790.517335 5788.644989 5745.20899 6062.051224 4770.538782 6122.917529 0.940728176 1.044117958 0.978445429 0.973242968 0.945712123 0.94540633 0.938312326 0.990059264 0.779128375 1 12.58000354 -5.873187267 5.309375122 0.97818428 0.95310697 0 0.068958889 0.362969423 15.58814737 0.004812535 0.008866755 1.34E-06 5.873187267 -0.02507731 SGSS(ph)PGLR ddPTM_HeLa_SAHA_4h_R1 3 SGSSPGLR 8 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.004)GS(0.331)S(0.665)PGLR;SGS(0.319)S(0.681)PGLR;SGS(0.319)S(0.681)PGLR ;; 138.06 0.0010984 145372000 4361.5 4718 4453.2 6379.8 6632 11467 6988.7 7118.9 8383.5 9887.4 TRUE FALSE FALSE 4820.262581 4870.866296 5060.058905 6503.290254 6123.857593 10489.94709 6202.313083 6936.808846 8325.158541 10313.6942 0.46736528 0.472271739 0.490615565 0.630549067 0.593759857 1.01708921 0.601366781 0.672582366 0.807194627 1 13.33227356 -9.428201618 1.174924771 0.998583954 0.607781722 0.314659501 0.159742748 0.350689351 0.870733529 0.109917546 0.028027832 3.73E-10 9.428201618 -0.390802231 SGSS(ph)QELDVKPSASPQER ddPTM_HeLa_SAHA_4h_R1 1 SGSSQELDVKPSASPQER 18 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.061)GS(0.204)S(0.703)QELDVKPS(0.025)AS(0.007)PQER 70.121 0.0083323 18862000 2229.2 1959.7 1717.2 2027.5 2483.2 2667.5 2027 2132.1 2682.1 1754.8 TRUE FALSE FALSE 2463.677484 2023.195566 1951.211073 2066.745194 2292.937752 2440.213993 1798.916625 2077.563969 2663.435048 1830.458016 1.345934986 1.105294712 1.065968766 1.129086369 1.252657932 1.333116615 0.98276858 1.134996788 1.455064812 1 10.83798897 -9.691789247 1.579692736 1.00031243 1.193816306 0 0.179220382 0.443709311 2.000945028 0.088213764 0.01968829 2.03E-10 9.691789247 0.193503876 SGSSQELDVKPS(ph)ASPQER ddPTM_HeLa_SAHA_4h_R1 1 SGSSQELDVKPSASPQER 18 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SGSSQELDVKPS(0.889)AS(0.111)PQER 206.45 4.81E-16 4927200 469.81 692.49 524.14 657.03 709.45 584.93 683.93 761.88 874.89 548.49 TRUE FALSE FALSE 519.2267714 714.9271304 595.5670696 669.7477657 655.0920943 535.0906733 606.9723964 742.3922128 868.8015693 572.1380881 0.907520024 1.249570943 1.040949872 1.170605103 1.144989484 0.935247424 1.060884442 1.297575233 1.518517273 1 9.16021958 -7.281368175 24.97845629 0.956328898 1.117390155 0 0.203982652 636.7808805 798129.6935 0.017020745 0.019476611 5.23E-08 7.281368175 0.161061257 SGSSQELDVKPSAS(ph)PQER ddPTM_HeLa_SAHA_4h_R1 1 SGSSQELDVKPSASPQER 18 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SGSSQELDVKPS(0.01)AS(0.99)PQER 82.761 0.0034047 16554000 2988 3879.5 3388.8 3704.3 4425.2 4253 3773.6 4065.6 4990.8 4873.2 TRUE FALSE FALSE 3302.291549 4005.198345 3850.608016 3776.002083 4086.142132 3890.620473 3348.984596 3961.607839 4956.068616 5083.307501 0.649634426 0.787911875 0.757500508 0.742823857 0.803835324 0.765371851 0.65881999 0.77933665 0.974969273 1 12.31155179 -9.425252601 1.090822307 1.003722215 0.736692985 0.794599331 0.04951869 0.190807265 0.396957325 0.03976625 0.009454134 3.76E-10 9.425252601 -0.26702923 SGSSS(ph)PDSEITELK ddPTM_HeLa_SAHA_4h_R1 4 SGSSSPDSEITELK 14 0 B4E1E0;P17812-2;P17812 B4E1E0 CTPS1 CTP synthase;CTP synthase 1 1 0 SGS(0.002)S(0.024)S(0.973)PDSEITELK;SGSS(0.023)S(0.839)PDS(0.138)EITELK;S(0.004)GS(0.003)S(0.14)S(0.853)PDSEITELK;SGSS(0.05)S(0.95)PDSEITELK ;;; 257.8 1.29E-43 143261000 6799.98 9848.8 6268.17 7533.6 8465.4 10555.9 9127.7 7762.6 12738.3 8251.9 TRUE FALSE FALSE 7515.233096 10167.90758 7122.363564 7679.423722 7816.782881 9656.477934 8100.627173 7564.043932 12649.65313 8607.679793 0.87308465 1.181259971 0.827442904 0.892159549 0.908117294 1.121844465 0.941092997 0.878755264 1.469577568 1 13.0714087 -4.373272048 0.002413824 1.884398727 9.97E-07 0 0.194279039 1075714.496 422.0236159 161979.8382 167517.2843 4.23E-05 4.373272048 -1.88439773 SGSSS(ph)PDSEITELKFPSINHD ddPTM_HeLa_SAHA_4h_R1 2 SGSSSPDSEITELKFPSINHD 21 1 B4E1E0;P17812-2;P17812 B4E1E0 CTPS1 CTP synthase;CTP synthase 1 1 0 S(0.044)GS(0.044)S(0.198)S(0.711)PDS(0.002)EITELKFPSINHD;S(0.029)GS(0.034)S(0.161)S(0.769)PDS(0.007)EITELKFPSINHD ; 210.33 2.51E-22 270526000 2025.13 3387.7 1674.42 2924 4913.9 6795.1 3617 4471.6 3442.2 3478.8 TRUE FALSE FALSE 2238.142465 3497.463703 1902.601238 2980.598248 4537.398044 6216.119252 3210.005641 4357.222947 3418.24545 3628.788093 0.616774088 0.9638104 0.524307617 0.821375669 1.250389366 1.713001446 0.884594404 1.200737777 0.941979901 1 11.8252721 -5.761753286 6.649645052 0.801952897 1.269134818 0.471727422 0.23368466 0.099415166 20.36883129 0.035963938 0.068911555 1.73E-06 5.761753286 0.467181921 SGSSSPDS(ph)EITELKFPSINHD ddPTM_HeLa_SAHA_4h_R1 1 SGSSSPDSEITELKFPSINHD 21 1 B4E1E0;P17812-2;P17812 B4E1E0 CTPS1 CTP synthase;CTP synthase 1 1 0 S(0.008)GS(0.008)S(0.038)S(0.267)PDS(0.68)EITELKFPSINHD 183.56 1.89E-11 91231000 1539.9 2649.9 1292.2 1930.3 4178.7 5221.3 3024.6 3536.6 2319.3 2495.4 TRUE FALSE FALSE 1701.873747 2735.758499 1468.294287 1967.663748 3858.528909 4776.415866 2684.264048 3446.138893 2303.159802 2602.988906 0.653815213 1.051006592 0.564080117 0.755924754 1.482345507 1.834973578 1.031223776 1.323916089 0.88481353 1 11.34595345 -5.761158175 24.99999995 0.822849874 1.420255375 0.622420733 0.22885891 4.026831199 357934.4832 0.035450695 0.06751413 1.73E-06 5.761158175 0.597405501 SGSYSYLEER ddPTM_HeLa_SAHA_4h_R1 1 SGSYSYLEER 10 0 O14974-5;O14974-4;O14974-3;O14974-2;O14974;A0A0U1RQZ1;H0YIM2;H0YIS3 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 0 0 118.71 0.01951 6709400 229.31 304.69 233.66 400.64 221.16 392.43 287.15 357.03 291.01 394.27 FALSE FALSE TRUE 253.4298779 314.5621559 265.501968 408.3949665 204.2147686 358.9927562 254.8391263 347.8976896 288.9848377 411.2689092 0.616214531 0.764857612 0.645567807 0.993012011 0.496548035 0.872890579 0.619641117 0.845912934 0.702666385 1 8.683938202 -9.452147864 1.155731738 1.001775158 0.720795255 0 0.165212811 0.39506482 0.934364243 0.089607217 0.021678117 3.53E-10 9.452147864 -0.280979903 SGT(ph)FDLLEMDR ddPTM_HeLa_SAHA_4h_R1 3 SGTFDLLEMDR 11 0 H0YA31;H0YA26;E9PHT6;Q9NVE7 H0YA31 PANK4 Pantothenate kinase 4 1 0 S(0.237)GT(0.763)FDLLEMDR;S(0.069)GT(0.931)FDLLEMDR;S(0.041)GT(0.959)FDLLEMDR ;; 163.51 0.00030275 5882920 1344.03 1536.5 1095.94 2435.9 1996.93 1735.71 1634.68 1818.36 3275.42 1947.71 TRUE FALSE FALSE 1485.401242 1586.283608 1245.288996 2483.050367 1843.925655 1587.817743 1450.741504 1771.848984 3252.626086 2031.68531 0.731117774 0.780772298 0.612933996 1.222162879 0.907584283 0.781527403 0.714058175 0.872107986 1.600949748 1 10.98846124 -9.516358926 1.294884057 0.999136174 0.818128468 0.212416118 0.247014507 0.679216827 2.054036387 0.106610101 0.026174202 3.05E-10 9.516358926 -0.181007706 SGT(ph)NSPPPPFSDWGR ddPTM_HeLa_SAHA_4h_R1 1 SGTNSPPPPFSDWGR 15 0 D6RAU6;D6REP2;D6RAJ6;Q9UKT5-2;Q9UKT5 D6RAU6 FBXO4 F-box only protein 4 1 0 S(0.066)GT(0.925)NS(0.01)PPPPFSDWGR 101.72 0.0067549 3147300 713.96 1022.2 641.91 860.01 1087.8 1103.2 985.7 928.32 876.41 1088 TRUE FALSE FALSE 789.0575886 1055.319951 729.3861519 876.6567371 1004.452999 1009.201154 874.7864418 904.5749186 870.3109915 1134.909005 0.695260664 0.929871863 0.642682496 0.772446719 0.885051572 0.889235304 0.77079875 0.797046208 0.766855306 1 10.14836091 -9.504563225 1.227589749 1.001057665 0.789410264 0 0.109472643 0.341277691 0.913031116 0.061153801 0.014491769 3.13E-10 9.504563225 -0.211647401 SGT(ph)PPRQGSITSPQANEQSVTPQR ddPTM_HeLa_SAHA_4h_R1 2 SGTPPRQGSITSPQANEQSVTPQR 24 1 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.173)GT(0.639)PPRQGS(0.173)IT(0.01)S(0.006)PQANEQSVTPQR;S(0.182)GT(0.739)PPRQGS(0.076)IT(0.002)S(0.001)PQANEQSVTPQR ; 93.729 7.31E-05 36289000 798.99 839.63 947.33 833.98 815.54 1052.49 1319.64 1096.85 969.88 786.59 TRUE FALSE FALSE 883.0314341 866.8345629 1076.427199 850.1228889 753.0535014 962.8119309 1171.150634 1068.794165 963.1305261 820.5037444 1.076206465 1.05646631 1.31191016 1.036098732 0.917794107 1.173440021 1.427355624 1.302607298 1.173828313 1 9.680366107 -4.946777299 4.754312449 1.052321608 1.359858656 0.513818954 0.105992667 0.098038843 4.700509148 0.014151189 0.044213273 1.13E-05 4.946777299 0.307537048 SGTAETEPVEQDSS(ph)QPSLPLVR ddPTM_HeLa_SAHA_4h_R1 2 SGTAETEPVEQDSSQPSLPLVR 22 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0;H7C3N7 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 SGTAETEPVEQDS(0.344)S(0.656)QPSLPLVR;SGTAETEPVEQDS(0.372)S(0.624)QPS(0.003)LPLVR ; 199.87 1.71E-21 18911200 2749.93 2802.93 2999.8 3179.5 2883.6 3844.9 3191.3 3093.7 2982 3340.9 TRUE FALSE FALSE 3039.180255 2893.746771 3408.597122 3241.04382 2662.659191 3517.292889 2832.206525 3014.567634 2961.248019 3484.942549 0.872089055 0.830357095 0.978092773 0.930013558 0.764046797 1.009282891 0.812698197 0.865026494 0.849726496 1 11.76691916 -9.250448466 0.78266614 1.007401016 0.882750276 0 0.084318572 0.761833416 0.761973903 0.060260705 0.013266427 5.62E-10 9.250448466 -0.124650741 SGTNS(ph)PPPPFSDWGR ddPTM_HeLa_SAHA_4h_R1 3 SGTNSPPPPFSDWGR 15 0 D6RAU6;D6REP2;D6RAJ6;Q9UKT5-2;Q9UKT5 D6RAU6 FBXO4 F-box only protein 4 1 0 S(0.29)GT(0.059)NS(0.651)PPPPFSDWGR;S(0.004)GT(0.05)NS(0.944)PPPPFS(0.003)DWGR;S(0.005)GT(0.485)NS(0.51)PPPPFSDWGR ;; 220.52 4.71E-18 51880800 8555.4 8286.4 8004.7 8928.8 9584.8 10373.8 9983.5 10678.3 10632.1 8888.1 TRUE FALSE FALSE 9455.296226 8554.884797 9095.538829 9101.629835 8850.414695 9489.893879 8860.130305 10405.16455 10558.11035 9271.309488 1.019844741 0.922726699 0.981041442 0.981698416 0.954602444 1.023576431 0.955650366 1.122297186 1.138793863 1 13.17855741 -4.250395218 24.81748843 0.994645636 1.122297268 0.310535645 0.055613393 833.168883 1872186.027 0.004631566 0.091486851 5.62E-05 4.250395218 0.127651631 SGTPPRQGS(ph)ITSPQANEQS(ph)VTPQRR ddPTM_HeLa_SAHA_4h_R1 1 SGTPPRQGSITSPQANEQSVTPQRR 25 2 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 S(0.012)GT(0.038)PPRQGS(0.744)IT(0.146)S(0.047)PQANEQS(0.792)VT(0.223)PQRR 56.766 0.008426 30804000 1881.6 1550.9 1689.3 1743 1630.9 1947.2 2321.4 2148.7 1827.3 1891.9 TRUE FALSE FALSE 2079.515321 1601.150178 1919.509007 1776.738285 1505.940794 1781.287605 2060.189962 2093.739365 1814.583671 1973.469068 1.053735959 0.811337864 0.972657255 0.900312204 0.763093184 0.902617444 1.043943377 1.060943594 0.919489289 1 10.94651819 -7.297825064 24.94210629 1.02537532 0.921051428 0.068416867 0.093676737 633.3732343 434170.8119 0.01569211 0.017944904 5.04E-08 7.297825064 -0.104323892 SGTPPRQGS(ph)ITSPQANEQSVTPQRR ddPTM_HeLa_SAHA_4h_R1 1 SGTPPRQGSITSPQANEQSVTPQRR 25 2 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.026)GT(0.213)PPRQGS(0.712)IT(0.03)S(0.011)PQANEQS(0.004)VT(0.004)PQRR 48.567 0.0093813 7734200 953.16 849.21 866.4 678.28 1066.3 871.01 1051.6 910.17 764.88 1100.3 TRUE FALSE FALSE 1053.417742 876.7249612 984.46848 691.4090902 984.6003244 796.7950478 933.2712003 886.8891693 759.5571378 1147.739318 0.917819688 0.763871158 0.857745713 0.602409519 0.857860587 0.694229984 0.813138651 0.772727008 0.661785412 1 10.16457929 -7.413389172 1.119550074 0.976783941 0.757026176 0 0.123616046 0.18925417 0.469712396 0.014606473 0.016152563 3.86E-08 7.413389172 -0.219757765 SGTPTQDEMMDKPTS(ph)SSVDTMSLLSK ddPTM_HeLa_SAHA_4h_R1 1 SGTPTQDEMMDKPTSSSVDTMSLLSK 26 1 Q5VT52-2;Q5VT52-3;Q5VT52;Q5VT52-5 Q5VT52-2 RPRD2 Regulation of nuclear pre-mRNA domain-containing protein 2 1 0 S(0.072)GT(0.209)PT(0.104)QDEMMDKPT(0.231)S(0.348)S(0.029)S(0.005)VDT(0.002)MSLLSK 85.913 3.03E-05 87391000 1536.1 1803.2 1573.5 1593.3 1628.8 1833.2 1886.2 1996.8 1805.1 1883 TRUE FALSE FALSE 1697.674046 1861.624863 1787.928386 1624.140625 1504.001696 1677.001047 1673.959812 1945.724747 1792.538162 1964.185345 0.864314587 0.947784723 0.910264599 0.826877478 0.765712716 0.853789613 0.852241269 0.990601397 0.912611514 1 10.93971536 -9.633594259 0.44182478 1.054157683 0.864660981 0.134135443 0.065303259 2.137663767 0.443224577 0.191570721 0.017977727 2.32E-10 9.633594259 -0.189496702 SGTS(ph)TPTTPGSTAITPGT(ph)PPSYSSR ddPTM_HeLa_SAHA_4h_R1 1 SGTSTPTTPGSTAITPGTPPSYSSR 25 0 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 2 0 S(0.036)GT(0.047)S(0.27)T(0.27)PT(0.051)T(0.198)PGS(0.082)T(0.047)AIT(0.002)PGT(0.986)PPS(0.005)YS(0.004)S(0.003)R 107.94 1.66E-06 8135000 1841.2 1665.4 1623.1 1601.1 1833.9 1875.3 1944.9 2037.8 2025.5 2034.3 TRUE FALSE FALSE 2034.865864 1719.360053 1844.287615 1632.091606 1693.386978 1715.51389 1726.054733 1985.676027 2011.404381 2122.008629 0.958933831 0.810251207 0.869123523 0.76912581 0.798011354 0.808438697 0.813406086 0.935753041 0.947877569 1 11.05121481 -7.3400823 3.640489282 0.98268314 0.825382667 0.664244437 0.045295711 0.088770262 2.209178417 0.007682976 0.008806627 4.57E-08 7.3400823 -0.157300473 SGTSEFLNK ddPTM_HeLa_SAHA_4h_R1 1 SGTSEFLNK 9 0 P14625;Q96GW1;A0A1W2PRR1 P14625 HSP90B1 Endoplasmin 0 0 124.92 0.0033545 1270800 80.827 191.69 0 157.45 131.56 133.85 0 182.62 154.26 166.12 FALSE FALSE TRUE 89.32875471 197.9008818 0 160.4976724 121.4799012 122.445227 0 177.9488448 153.1864921 173.2822462 0.515510138 1.142072464 0 0.926221099 0.701052208 0.706623037 0 1.026930622 0.884028777 1 7.436980039 -9.516765243 0.731120296 1.06603248 0.60415278 0.100647366 0.366124384 1.577273749 1.140831652 0.479162601 0.066707628 3.04E-10 9.516765243 -0.4618797 SGTSSPQS(ph)PVFR ddPTM_HeLa_SAHA_4h_R1 6 SGTSSPQSPVFR 12 0 Q8N556;Q8N556-2 Q8N556 AFAP1 Actin filament-associated protein 1 1 0 SGTSSPQS(1)PVFR;SGTSS(0.003)PQS(0.996)PVFR;SGT(0.001)S(0.01)S(0.173)PQS(0.817)PVFR;SGT(0.005)S(0.003)S(0.001)PQS(0.991)PVFR;SGTSS(0.001)PQS(0.999)PVFR;SGTSS(0.005)PQS(0.995)PVFR ;;;;; 164.93 0.00012126 698651000 13385.5 13165.9 11084.86 12904.2 15326.6 14559.9 14457.4 14319.8 14196.2 12815.1 TRUE FALSE FALSE 14793.4483 13592.4838 12595.44699 13153.97945 14152.27922 13319.31461 12830.6153 13953.52025 14097.40749 13367.62168 1.106662701 1.016821401 0.942235448 0.984017933 1.058698365 0.996386263 0.95982783 1.04382968 1.054593542 1 13.70645519 -7.008982684 24.78863253 1.050967107 0.996373908 0.279092968 0.040334159 469.5423765 1295755.06 0.008186195 0.010450048 9.80E-08 7.008982684 -0.054593198 SGTSTPTT(ph)PGSTAIT(ph)PGTPPSYSSR ddPTM_HeLa_SAHA_4h_R1 1 SGTSTPTTPGSTAITPGTPPSYSSR 25 0 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 2 0 S(0.043)GT(0.05)S(0.068)T(0.074)PT(0.148)T(0.366)PGS(0.237)T(0.257)AIT(0.545)PGT(0.203)PPS(0.006)YS(0.001)S(0.001)R 56.963 0.0078033 7448900 358.37 458.29 340.33 395.71 416.48 556.83 481.19 502.71 601.21 361.98 TRUE FALSE FALSE 396.0650009 473.1388967 386.7084 403.3695393 384.5693924 509.3849514 427.0452348 489.8514061 597.0261307 377.5867293 1.04893782 1.253060185 1.024157816 1.068283147 1.018492872 1.349054169 1.130985815 1.297321564 1.581162907 1 8.56066425 -1 0.190482133 0.988770706 2.281859249 0 0.205061337 36.89180699 0.4129915 0.100249063 14.13091418 0.1 1 1.293088542 SGTSTPTTPGSTAIT(ph)PGTPPSYSSR ddPTM_HeLa_SAHA_4h_R1 1 SGTSTPTTPGSTAITPGTPPSYSSR 25 0 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 SGTSTPT(0.002)T(0.004)PGS(0.008)T(0.021)AIT(0.424)PGT(0.415)PPS(0.06)Y(0.029)S(0.021)S(0.017)R 52.91 0.017696 6136400 475.4 458.2 567.76 572.69 414.78 890.26 492.32 600.82 627.05 595.66 TRUE FALSE FALSE 525.4047532 473.0459806 645.131376 583.7752431 382.999646 814.4048395 436.9228579 585.4518944 622.686308 621.3418177 0.845596962 0.761329702 1.038287393 0.9395396 0.616407322 1.310719505 0.703192422 0.942238037 1.00216385 1 9.279243344 -9.458352933 1.23510476 0.99910385 0.889898373 0.050746772 0.182378985 1.222539936 3.378548431 0.110514417 0.028304713 3.48E-10 9.458352933 -0.109205478 SGTSTPTTPGSTAITPGT(ph)PPSYSSR ddPTM_HeLa_SAHA_4h_R1 2 SGTSTPTTPGSTAITPGTPPSYSSR 25 0 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 SGTSTPTTPGST(0.001)AIT(0.15)PGT(0.796)PPS(0.02)YS(0.02)S(0.014)R;SGTSTPTTPGS(0.013)T(0.053)AIT(0.049)PGT(0.642)PPS(0.092)YS(0.092)S(0.059)R ; 121.76 1.32E-07 103915000 1715.97 1547.1 1514.52 2192.96 2431.28 2977 2552.9 2685.63 2493.51 1986.53 TRUE FALSE FALSE 1896.463598 1597.227055 1720.910898 2235.407912 2244.995852 2723.342852 2265.640973 2616.935473 2476.157461 2072.17903 0.915202582 0.770795878 0.830483695 1.078771612 1.083398596 1.314241102 1.093361597 1.262890626 1.19495344 1 11.01693294 -5.802810657 2.151102638 0.934213557 1.205289673 0.475775456 0.122573337 0.155705529 1.468721551 0.014774148 0.031431909 1.57E-06 5.802810657 0.271076117 SGTTESFT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SGTTESFTR 9 0 Q7Z5P9-2;Q7Z5P9 Q7Z5P9-2 MUC19 Mucin-19 1 0 SGTTESFT(1)R 123.98 0.0052694 861690 1443.9 1623.5 1311.4 1616 1636.5 1659 1780.7 1639.2 1964.1 1404.1 TRUE FALSE FALSE 1595.776027 1676.102465 1490.110763 1647.280017 1511.111724 1517.643867 1580.330949 1597.271638 1950.431668 1464.637622 1.089536417 1.144380316 1.017392111 1.124701422 1.031730785 1.036190689 1.078991093 1.090557564 1.331682075 1 10.51632804 -9.256216477 1.016873991 1.000537878 1.076078544 0 0.110337391 0.447450348 0.83879482 0.023848918 0.006715839 5.54E-10 9.256216477 0.075540667 SGVGNIFIK ddPTM_HeLa_SAHA_4h_R1 1 SGVGNIFIK 9 0 P11940;P11940-2;A0A087WTT1;E7EQV3;E5RH24;E5RJB9;E5RGH3;Q4VXU2;Q4VXU2-2;Q96DU9-2;Q96DU9 P11940 PABPC1;PABPC1L;PABPC5 Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 1-like;Polyadenylate-binding protein 5 0 0 112.84 0.0073141 906360 612.19 675.66 871.4 833.61 591.01 865.43 649.52 925.26 675.89 487.4 FALSE FALSE TRUE 676.582953 697.5518273 990.1498539 849.745727 545.7269415 791.6904952 576.4343002 901.593189 671.1864265 508.4141993 1.330771159 1.372014842 1.947525965 1.671365057 1.073390441 1.557176209 1.133788751 1.773343841 1.320156729 1 8.989860513 -8.252164329 0.811670647 1.040931203 1.490643527 0.173116377 0.270330547 0.462316538 0.651429899 0.094667298 0.058451362 5.60E-09 8.252164329 0.449712323 SGVS(ph)ITIDDPVR ddPTM_HeLa_SAHA_4h_R1 2 SGVSITIDDPVR 12 0 S4R3H4;E7EQT4;Q9UKV3;G3V3B0;Q9UKV3-3;Q9UKV3-2;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 S(0.175)GVS(0.821)IT(0.004)IDDPVR;S(0.145)GVS(0.842)IT(0.013)IDDPVR ; 136.01 0.00082179 5030400 2141.24 2577.84 2445.08 2536.24 2838.27 3212.4 2936.7 3201 2773.18 2605.22 TRUE FALSE FALSE 2366.465448 2661.363707 2778.282769 2585.332593 2620.802366 2938.685448 2606.254787 3119.123055 2753.881215 2717.543784 0.870810421 0.979326892 1.022350692 0.951349012 0.964401156 1.081375566 0.959047947 1.14777288 1.013371424 1 11.40808756 -1 0.470835309 0.945306396 5.51281368 0.354356797 0.057694336 62.04542123 0.639658777 0.013110091 277.9934661 0.1 1 4.567507284 SGVSLAALK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 SGVSLAALKK 10 1 P10412;P16403;P16402 P10412;P16403;P16402 HIST1H1E;HIST1H1C;HIST1H1D Histone H1.4;Histone H1.2;Histone H1.3 0 1 ; SGVSLAALK(1)K;SGVSLAALK(1)K 120.68 0.0016539 5447300 2782.2 7154.1 5964.7 2865 8225.7 3118.9 9778.2 2960.2 929.13 1529.8 FALSE TRUE FALSE 3074.844561 7385.897534 6777.538253 2920.456218 7595.448643 2853.152174 8677.931201 2884.48237 922.6641087 1595.757165 1.926887517 4.628459579 4.247224078 1.830138246 4.759777246 1.787961375 5.438127676 1.807594811 0.578198318 1 10.64002541 -7.453553227 4.58962381 1.392715658 3.520607986 0.408272457 1.290088858 0.157292178 6.052790264 0.201372678 0.225708673 3.52E-08 7.453553227 2.127892328 SGVTNMSS(ph)PHK ddPTM_HeLa_SAHA_4h_R1 2 SGVTNMSSPHK 11 0 Q9NVG8 Q9NVG8 TBC1D13 TBC1 domain family member 13 1 0 SGVTNMS(0.169)S(0.831)PHK;SGVTNMS(0.014)S(0.986)PHK ; 118.87 0.0022821 10781600 4863.5 5438.3 3658.4 5998.7 7652.5 7354.1 6924.9 5263.7 7579.1 6013.6 TRUE FALSE FALSE 5375.065245 5614.504488 4156.9477 6114.813513 7066.167103 6727.489307 6145.692027 5129.062176 7526.356426 6272.875726 0.85687418 0.89504475 0.662686124 0.974802273 1.126463748 1.072472914 0.979724818 0.817657228 1.199825527 1 12.61491127 -6.012499042 24.89770053 0.904988286 1.008901252 0.050125464 0.145728598 893.4482695 1779725.469 0.018387663 0.031547185 9.72E-07 6.012499042 0.103912966 SGYHDDS(ph)DEDLLE ddPTM_HeLa_SAHA_4h_R1 2 SGYHDDSDEDLLE 13 0 Q99523-2;Q99523 Q99523-2 SORT1 Sortilin 1 0 S(0.007)GYHDDS(0.993)DEDLLE;S(0.036)GYHDDS(0.964)DEDLLE ; 86.772 0.013206 27037000 3128.5 6389.8 2892.8 3949.9 6667.9 8511.3 5259.5 4698.3 3294.2 5422.3 TRUE FALSE FALSE 3457.569984 6596.833713 3287.015719 4026.356026 6157.006943 7786.089357 4667.687218 4578.124289 3271.275394 5656.081889 0.61130126 1.166325708 0.581147123 0.711863107 1.088563968 1.376587099 0.825250997 0.809416196 0.578364221 1 12.46558729 -5.753329749 24.99155157 0.815185484 1.035806659 0.207276904 0.231313523 261.1579473 804807.119 0.034780572 0.068605951 1.76E-06 5.753329749 0.220621175 SGYIS(ph)ESENSEISQQVR ddPTM_HeLa_SAHA_4h_R1 1 SGYISESENSEISQQVR 17 0 A0A075B754;Q96QE3-2;Q96QE3 A0A075B754 ATAD5 ATPase family AAA domain-containing protein 5 1 0 SGYIS(0.995)ES(0.005)ENSEISQQVR 212.35 1.27E-20 2759100 1304 1254.6 539.25 972.15 823.1 1280.3 1214.1 1191.4 1205.9 1009.8 TRUE FALSE FALSE 1441.160703 1295.249863 612.7361817 990.967369 760.0342558 1171.211237 1077.486273 1160.925713 1197.508044 1053.33742 1.368185233 1.229662821 0.581709308 0.940788156 0.721548709 1.111905089 1.022926037 1.102140389 1.136870314 1 10.04075194 SGYMS(ph)DSDLMGK ddPTM_HeLa_SAHA_4h_R1 3 SGYMSDSDLMGK 12 0 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-6 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 SGYMS(0.906)DS(0.094)DLMGK;S(0.039)GYMS(0.925)DS(0.036)DLMGK;S(0.009)GYMS(0.708)DS(0.283)DLMGK ;; 108.72 0.0059799 46837800 4371.78 4828.38 4730.7 6156.3 5288.5 5017.3 5610.2 6444.9 5158.2 5183.18 TRUE FALSE FALSE 4831.623879 4984.82268 5375.37516 6275.464089 4883.296273 4589.797813 4978.925531 6280.04879 5122.303666 5406.652256 0.893644283 0.921979525 0.994215072 1.160693122 0.903201471 0.848916778 0.920888804 1.161541097 0.947407642 1 12.40051985 -6.742550095 23.55682281 0.946288392 0.991003168 0.071751132 0.098463396 371.5047602 463300.5936 0.016364457 0.02311467 1.81E-07 6.742550095 0.044714775 SGYMSDS(ph)DLMGK ddPTM_HeLa_SAHA_4h_R1 1 SGYMSDSDLMGK 12 0 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-6 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 SGYMS(0.324)DS(0.676)DLMGK 94.402 0.017438 8737000 1683.3 1634.3 1474.2 1730.4 1770.4 2022.2 2177 2022.7 1734 1907.8 TRUE FALSE FALSE 1860.357217 1687.252392 1675.096299 1763.894394 1634.752334 1849.897183 1932.03823 1970.962263 1721.932953 1990.054595 0.934827227 0.847842264 0.841733842 0.886354776 0.821461049 0.929571072 0.970846848 0.990406127 0.865269203 1 10.95859229 -8.138844819 1.151618031 0.986566118 0.898446845 0 0.065151395 0.379745518 1.04595031 0.015616026 0.011953026 7.26E-09 8.138844819 -0.088119273 SGYQDMPEYENFR ddPTM_HeLa_SAHA_4h_R1 2 SGYQDMPEYENFR 13 0 F5H365;Q15436;Q15436-2 F5H365 SEC23A Protein transport protein Sec23A 0 0 ; ; 137.4 2.06E-05 6251100 1690.95 1845.36 1773.34 1860.54 2340.2 3060.3 1825.94 2041.48 2518.3 1640.08 FALSE FALSE TRUE 1868.811879 1905.150875 2015.00154 1896.553442 2160.894382 2799.545223 1620.480426 1989.261898 2500.774945 1710.791875 1.092366586 1.113607624 1.177818044 1.108582212 1.263096004 1.636403156 0.947210733 1.162772589 1.461764567 1 10.74044855 -7.037338909 0.697623016 1.024577815 1.240107284 0 0.213393563 0.728512374 0.735661796 0.041712548 0.057967242 9.18E-08 7.037338909 0.215529469 SGYS(ph)SPGSPGTPGSR ddPTM_HeLa_SAHA_4h_R1 1 SGYSSPGSPGTPGSR 15 0 I3L170;A0A0G2JQJ7;A0A0G2JPD5;A0A0G2JS76;A0A0G2JMX7;P10636-3;P10636-2;P10636-4;P10636-6;P10636-5;P10636-7;P10636-8;P10636;P10636-9 I3L170 MAPT Microtubule-associated protein;Microtubule-associated protein tau 1 0 SGYS(0.492)S(0.492)PGS(0.015)PGTPGSR 136.33 0.00019535 3023300 805.72 921.93 1024 1313 1433.3 1127.5 1180.5 1517.7 1368.9 994.31 TRUE FALSE FALSE 890.4693264 951.8011369 1163.545387 1338.415014 1323.480864 1031.430657 1047.667033 1478.879432 1359.373713 1037.17957 0.858548849 0.917682111 1.121836007 1.290437116 1.276038308 0.994457167 1.010111521 1.425866334 1.310644514 1 10.01844998 -6.676752632 4.331725696 0.930050213 1.183487042 0.103289029 0.173273994 0.146394445 5.105576519 0.020631509 0.029278465 2.10E-07 6.676752632 0.25343683 SGYSS(ph)PGSPGTPGSR ddPTM_HeLa_SAHA_4h_R1 1 SGYSSPGSPGTPGSR 15 0 I3L170;A0A0G2JQJ7;A0A0G2JPD5;A0A0G2JS76;A0A0G2JMX7;P10636-3;P10636-2;P10636-4;P10636-6;P10636-5;P10636-7;P10636-8;P10636;P10636-9 I3L170 MAPT Microtubule-associated protein;Microtubule-associated protein tau 1 0 S(0.001)GYS(0.029)S(0.798)PGS(0.171)PGT(0.002)PGSR 150.26 6.15E-05 3847700 1382.8 1347.5 952.56 1120.8 1417.1 1475.8 1517.8 1617.8 1328.7 1178.9 TRUE FALSE FALSE 1528.249249 1391.159884 1082.369916 1142.494705 1308.522104 1350.053537 1347.013149 1576.419019 1319.453469 1229.728148 1.242753734 1.131274328 0.880170075 0.929062823 1.064074288 1.097847145 1.095374739 1.281924806 1.072963541 1 10.2641237 -10.58207522 0.004809098 4.38E-05 2.151993878 0.014756511 0.11738722 162321.9457 119.7063451 27748.46943 25844.28263 2.62E-11 10.58207522 2.151950042 SHAAEK(ac)LR ddPTM_HeLa_SAHA_4h_R1 2 SHAAEKLR 8 1 A0A0C4DG07;O60934 A0A0C4DG07 NBN Nibrin 0 1 ; SHAAEK(1)LR;SHAAEK(1)LR 110.41 0.0062808 1836450 1181.65 1080.64 2736.6 2785 2615.2 143.671 3102.5 386.06 0 59.622 FALSE TRUE FALSE 1305.941369 1115.653445 3109.529596 2838.907702 2414.823941 131.4294225 2753.398535 376.1851442 0 62.1925962 20.99834142 17.93868584 49.99838865 45.64703639 38.82815783 2.11326477 44.27212728 6.048712663 0 1 5.958670938 -2.136035043 9.366946306 10 14.92082639 0 23.06300761 0 0 3.238976998 0 0.007310801 2.136035043 4.920826389 SHDDGNIDLES(ph)DSFLKFDSEPSAVALELPTR ddPTM_HeLa_SAHA_4h_R1 1 SHDDGNIDLESDSFLKFDSEPSAVALELPTR 31 1 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;P18583-8 P18583-10 SON Protein SON 1 0 SHDDGNIDLES(0.831)DS(0.165)FLKFDS(0.004)EPSAVALELPTR 94.802 1.46E-08 8674600 432.11 665.57 678.06 729.6 784.34 220.78 640.69 457.7 727.21 626.7 TRUE FALSE FALSE 477.5613124 687.1349047 770.4624856 743.722463 724.2440386 201.9683019 568.597875 445.9926967 722.1492864 653.720104 0.730528722 1.051114843 1.178581599 1.137677208 1.107880933 0.308952258 0.869787959 0.682238001 1.104676576 1 9.352529255 -5.284111402 24.99185685 0.941204889 0.645272151 0.44594594 0.193457876 731.4990882 806346.091 0.030466489 0.068168175 5.20E-06 5.284111402 -0.295932737 SHDDGNIDLESDS(ph)FLKFDSEPSAVALELPTR ddPTM_HeLa_SAHA_4h_R1 2 SHDDGNIDLESDSFLKFDSEPSAVALELPTR 31 1 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;P18583-8 P18583-10 SON Protein SON 1 0 SHDDGNIDLES(0.269)DS(0.704)FLKFDS(0.027)EPSAVALELPTR;SHDDGNIDLES(0.214)DS(0.782)FLKFDS(0.004)EPSAVALELPTR ; 102.91 2.05E-09 18504500 2304.9 2095.75 1952.34 2217.77 2535.36 340.487 2734.11 2092.52 2078.06 2302.01 TRUE FALSE FALSE 2547.339957 2163.653675 2218.394728 2260.698145 2341.101265 311.4755921 2426.460747 2038.996368 2063.598611 2401.260917 1.060834306 0.90104897 0.923845765 0.941462933 0.974946641 0.129713348 1.010494416 0.8491357 0.859381251 1 11.22957646 -5.481453525 24.99780665 1.002708068 0.673598694 0.24481118 0.220081033 418.7293463 252679.427 0.028933009 0.064689548 3.30E-06 5.481453525 -0.329109374 SHDDGNIDLESDSFLKFDS(ph)EPSAVALELPTR ddPTM_HeLa_SAHA_4h_R1 1 SHDDGNIDLESDSFLKFDSEPSAVALELPTR 31 1 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;P18583-8 P18583-10 SON Protein SON 1 0 S(0.001)HDDGNIDLES(0.274)DS(0.274)FLKFDS(0.339)EPS(0.112)AVALELPT(0.001)R 42.756 0.015772 7134400 363.93 369.81 459.7 375 491.88 169.16 484.1 441.89 474.19 563.94 TRUE FALSE FALSE 402.2098272 381.7920866 522.345522 382.2586673 454.1922607 154.7466163 429.6277939 430.5870936 470.8900732 588.2542133 0.683734716 0.649025673 0.887958828 0.649818835 0.77210201 0.263060787 0.73034376 0.731974517 0.800487379 1 9.200295938 -11.9598625 0.21218411 1.822011672 0.601308247 0.203938472 0.163553364 18.44200482 0.412572339 6.621516747 0.145406409 1.10E-12 11.9598625 -1.220703425 SHEAEVLK ddPTM_HeLa_SAHA_4h_R1 2 SHEAEVLK 8 0 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 0 0 ; ; 121.05 0.0037283 12326800 11072.4 10082.4 13691.5 15425.8 10491.4 2369.3 11464.1 8270.4 7074.2 8444.4 FALSE FALSE TRUE 12237.04583 10409.07638 15557.30632 15724.38867 9687.551199 2167.422311 10174.1293 8058.855143 7024.970066 8808.47941 1.389234766 1.181710928 1.766173887 1.78514224 1.099798359 0.246060893 1.155038097 0.914897426 0.797523584 1 13.10467728 -5.513377553 24.95517391 1.280762648 0.787407191 0.318160217 0.356147442 433.5627523 1138764.28 0.051069248 0.106999552 3.07E-06 5.513377553 -0.493355457 SHEGETAYIR ddPTM_HeLa_SAHA_4h_R1 2 SHEGETAYIR 10 0 J3KTL2;Q07955;J3KSR8 J3KTL2 SRSF1 Serine/arginine-rich splicing factor 1 0 0 ; ; 132.32 0.00026555 4152100 251.93 261.24 264.06 546.1 355.78 315.34 551.36 341.53 425.44 586.38 FALSE FALSE TRUE 278.4291533 269.7043474 300.0447216 556.6705552 328.5202133 288.4712579 489.3195217 332.7941571 422.4793284 611.6617115 0.455201213 0.44093711 0.490540304 0.910095474 0.537094618 0.471618956 0.7999839 0.544082049 0.690707495 1 9.256590159 -9.375350156 1.091915089 1.000712376 0.577282994 0.199896092 0.173127981 0.323339867 0.687894708 0.10442402 0.026753117 4.21E-10 9.375350156 -0.423429382 SHFEQWGTLTDCVVMRDPNTK(ac)R ddPTM_HeLa_SAHA_4h_R1 3 SHFEQWGTLTDCVVMRDPNTKR 22 2 F8W6I7;P09651-2;P09651;P09651-3;F8VZ49;F8W646;Q32P51 F8W6I7 HNRNPA1;HNRNPA1L2 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed;Heterogeneous nuclear ribonucleoprotein A1-like 2" 0 1 ;; SHFEQWGTLTDCVVMRDPNTK(1)R;SHFEQWGTLTDCVVMRDPNTK(1)R;SHFEQWGTLTDCVVMRDPNTK(1)R 54.171 0.0082533 11309600 935.98 1303.2 1555.32 1891.66 1818.37 524.54 1997.46 1057.81 1276.92 1235.59 FALSE TRUE FALSE 1034.430671 1345.424535 1767.27091 1928.275815 1679.046883 479.846241 1772.700544 1030.752752 1268.03381 1288.862332 0.802592058 1.043885372 1.371186717 1.49610689 1.302735631 0.372302169 1.375399451 0.799738441 0.983839607 1 10.33188246 -7.00828239 24.19467847 0.907645839 1.129750989 0.066826219 0.314767023 477.3057336 1394320.742 0.051109801 0.065400195 9.81E-08 7.00828239 0.22210515 SHHAPMS(ph)PGSSGGGGQPLAR ddPTM_HeLa_SAHA_4h_R1 5 SHHAPMSPGSSGGGGQPLAR 20 0 O14497;O14497-2 O14497 ARID1A AT-rich interactive domain-containing protein 1A 1 0 SHHAPMS(1)PGSSGGGGQPLAR;SHHAPMS(0.993)PGS(0.005)S(0.002)GGGGQPLAR;S(0.161)HHAPMS(0.71)PGS(0.061)S(0.068)GGGGQPLAR;S(0.01)HHAPMS(0.99)PGSSGGGGQPLAR;SHHAPMS(1)PGSSGGGGQPLAR ;;;; 140.12 3.79E-05 12487720 4172.37 5402.27 2686.94 3837.027 5638.87 1577.4 4990.74 4843.67 4641.69 4715.61 TRUE FALSE FALSE 4611.23902 5577.307093 3053.10219 3911.298206 5206.820999 1442.996646 4429.1688 4719.775935 4609.388101 4918.923025 0.937448908 1.133847199 0.620685092 0.795153367 1.05852866 0.293356216 0.900434664 0.959514087 0.937072623 1 12.26412676 -6.760936322 24.9999783 0.981890544 0.769567699 0.233758451 0.203397366 15.78098879 784224.3099 0.030697053 0.041922396 1.73E-07 6.760936322 -0.212322845 SHIEIIR ddPTM_HeLa_SAHA_4h_R1 1 SHIEIIR 7 0 P00390-5;P00390-4;P00390-2;P00390-3;P00390 P00390-5 GSR "Glutathione reductase, mitochondrial" 0 0 101.64 0.013833 4350700 2536.5 2984 2517.9 2485.7 2610.5 1398.7 3055.4 2304.4 2463.1 2925.7 FALSE FALSE TRUE 2803.300708 3080.683558 2861.026299 2533.814318 2410.484054 1279.522891 2711.598351 2245.456785 2445.959087 3051.841245 0.918560463 1.009450791 0.937475468 0.830257577 0.789845821 0.419262599 0.888512256 0.735771164 0.801469962 1 11.5754642 -5.958046526 2.015366273 0.963710283 0.696169107 0.420494835 0.123650727 0.184102089 1.50238014 0.01688292 0.033750754 1.10E-06 5.958046526 -0.267541175 SHILEDDENS(ph)VDISMLK ddPTM_HeLa_SAHA_4h_R1 5 SHILEDDENSVDISMLK 17 0 O75717-2;O75717 O75717-2 WDHD1 WD repeat and HMG-box DNA-binding protein 1 1 0 SHILEDDENS(1)VDISMLK;SHILEDDENS(1)VDISMLK;SHILEDDENS(1)VDISMLK;SHILEDDENS(1)VDISMLK;SHILEDDENS(1)VDISMLK ;;;; 199.15 1.84E-15 111650500 23580.2 25411.2 26739.2 34900.9 33396.2 1480.945 31865.6 34898.6 24043.3 27867.5 TRUE FALSE FALSE 26060.47363 26234.53955 30383.07892 35576.45739 30837.39037 1354.760154 28279.99882 34005.94434 23875.98072 29069.00431 0.896503828 0.902491853 1.045205354 1.223862263 1.060834078 0.046604973 0.972857499 1.169835196 0.821355299 1 14.82719404 SHILEDDENSVDIS(ph)MLK ddPTM_HeLa_SAHA_4h_R1 2 SHILEDDENSVDISMLK 17 0 O75717-2;O75717 O75717-2 WDHD1 WD repeat and HMG-box DNA-binding protein 1 1 0 SHILEDDENS(0.304)VDIS(0.696)MLK;SHILEDDENS(0.043)VDIS(0.957)MLK ; 120.77 0.0010369 15456400 2258.99 2360.78 2219.73 2985.5 2743.6 212.35 2513.42 2776.8 2222.24 2065.88 TRUE FALSE FALSE 2496.600933 2437.270821 2522.223245 3043.28867 2533.385961 194.2565854 2230.603367 2705.773477 2206.775251 2154.950197 1.158542289 1.131010278 1.170432267 1.412231556 1.175612302 0.09014435 1.035106691 1.255608357 1.024049305 1 11.07343881 SHLDS(ph)PEAR ddPTM_HeLa_SAHA_4h_R1 2 SHLDSPEAR 9 0 K7ER08;K7EP90;Q9BTD8-4;Q9BTD8-2;Q9BTD8-3;Q9BTD8 K7ER08 RBM42 RNA-binding protein 42 1 0 S(0.227)HLDS(0.773)PEAR;S(0.432)HLDS(0.568)PEAR ; 118.77 0.0030097 13498400 4522.8 4760.5 4070.3 5256.9 5557.9 148.235 5309.6 4764.9 5339.8 5210.2 TRUE FALSE FALSE 4998.528855 4914.743323 4624.979287 5358.654901 5132.054903 135.6045441 4712.149834 4643.020757 5302.639897 5434.83722 0.919720068 0.904303685 0.850987638 0.985982594 0.944288613 0.024950985 0.867026857 0.854307235 0.975675937 1 12.40802111 -5.449374077 24.9999985 0.949292696 0.589592979 0.357246874 0.219781639 109.3091065 37177.07845 0.029434831 0.065818273 3.55E-06 5.449374077 -0.359699716 SHLEPSGNPLPATPTTSAPSAPPAS(ph)SQGPDTAPRPSPPQEEAR ddPTM_HeLa_SAHA_4h_R1 1 SHLEPSGNPLPATPTTSAPSAPPASSQGPDTAPRPSPPQEEAR 43 1 Q8N1F8 Q8N1F8 STK11IP Serine/threonine-protein kinase 11-interacting protein 1 0 SHLEPSGNPLPATPT(0.008)T(0.008)S(0.008)APS(0.017)APPAS(0.453)S(0.453)QGPDT(0.018)APRPS(0.036)PPQEEAR 80.048 6.92E-10 10406000 352.96 629.32 318.87 485.39 740.52 0 737.04 473.07 568.76 476.73 TRUE FALSE FALSE 390.0859522 649.7103809 362.323943 494.7854253 683.7815176 0 654.1063194 460.9695544 564.8019529 497.2841634 0.784432687 1.306517337 0.728605433 0.994975231 1.375031758 0 1.31535723 0.926974129 1.135773054 1 8.957926677 SHLGNVHDQDN ddPTM_HeLa_SAHA_4h_R1 2 SHLGNVHDQDN 11 0 Q8WW12;Q8WW12-3 Q8WW12 PCNP PEST proteolytic signal-containing nuclear protein 0 0 ; ; 126.03 0.001833 3759400 825.62 856.13 812.22 1278.52 822.5 314.37 1131.65 1181.89 918.76 1181.91 FALSE FALSE TRUE 912.4624997 883.8691737 922.9051117 1303.267603 759.4802277 287.5839074 1004.313764 1151.658965 912.3662744 1232.867924 0.740113748 0.716921218 0.748583927 1.057102369 0.616027242 0.233264165 0.814615859 0.934130041 0.740035698 1 10.26780254 -9.8657265 0.32799229 1.187454953 0.695953081 0 0.220066012 6.319092753 0.646670572 1.187508058 0.096650003 1.36E-10 9.8657265 -0.491501872 SHNVAAGS(ph)YEAPLPPGS(ph)FHGDFAYGTYR ddPTM_HeLa_SAHA_4h_R1 1 SHNVAAGSYEAPLPPGSFHGDFAYGTYR 28 0 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;X6RGP5;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 2 0 S(0.001)HNVAAGS(0.983)Y(0.016)EAPLPPGS(0.998)FHGDFAYGT(0.002)YR 87.016 4.25E-06 2987700 1829.9 1519.9 1923.9 1986.4 2190.6 1419.8 2296.1 1874.5 1952.8 1779.2 TRUE FALSE FALSE 2022.377278 1569.145757 2186.079073 2024.849644 2022.756701 1298.825052 2037.736785 1826.553004 1939.210306 1855.910019 1.089695759 0.845485902 1.177901434 1.091027918 1.0899002 0.699831909 1.097971757 0.984181876 1.044883796 1 10.85791105 SHNVAAGSYEAPLPPGS(ph)FHGDFAYGTYR ddPTM_HeLa_SAHA_4h_R1 2 SHNVAAGSYEAPLPPGSFHGDFAYGTYR 28 0 O15027;O15027-5;F1T0I1;O15027-2;O15027-3;X6RGP5;O15027-4;A0A3F2YNZ0;A0A3F2YNX0 O15027;O15027-4 SEC16A Protein transport protein Sec16A 1 0 SHNVAAGSY(0.06)EAPLPPGS(0.933)FHGDFAY(0.004)GT(0.002)Y(0.001)R;SHNVAAGSYEAPLPPGS(1)FHGDFAYGTYR ; 120.23 6.40E-09 23436000 1470.5 1374.63 1343.53 1550.22 1766.14 511.2 1745.42 1282.35 1315.33 1782.23 TRUE FALSE FALSE 1625.173937 1419.168914 1526.619272 1580.22675 1630.818735 467.6428841 1549.020748 1249.549344 1306.176511 1859.070657 0.874186213 0.763375458 0.821173346 0.850008978 0.877222567 0.25154659 0.833223171 0.672136553 0.702596486 1 10.86036589 -6.525315855 0.312396762 1.008326459 0.573576696 0.085219057 0.184206252 1.543393784 0.34867926 0.111665447 0.252180687 2.98E-07 6.525315855 -0.434749763 SHPAMS(ph)PGTPGPTMGR ddPTM_HeLa_SAHA_4h_R1 8 SHPAMSPGTPGPTMGR 16 0 A0A1B0GUC6;A0A1B0GUG2;A0A1B0GU09;A0A6I8PTU7;A0A3F2YNW7;Q8NFD5;Q8NFD5-2;Q8NFD5-3 A0A1B0GUC6 ARID1B AT-rich interactive domain-containing protein 1B 1 0 S(0.004)HPAMS(0.99)PGT(0.007)PGPTMGR;S(0.001)HPAMS(0.989)PGT(0.011)PGPTMGR;S(0.001)HPAMS(0.961)PGT(0.038)PGPTMGR;S(0.007)HPAMS(0.974)PGT(0.019)PGPTMGR;S(0.001)HPAMS(0.983)PGT(0.016)PGPTMGR;S(0.001)HPAMS(0.998)PGT(0.001)PGPTMGR;SHPAMS(0.878)PGT(0.011)PGPT(0.111)MGR;S(0.343)HPAMS(0.579)PGT(0.076)PGPT(0.002)MGR ;;;;;;; 103.88 0.0028159 14780190 3547.66 3954.32 3170.18 3569.85 4305.78 1126.383 4468.59 3935.95 4188.51 4079.89 TRUE FALSE FALSE 3920.819156 4082.442563 3602.195621 3638.949609 3975.872067 1030.408832 3965.772493 3835.274098 4159.361818 4255.794024 0.92128969 0.959266952 0.846421514 0.855057737 0.93422568 0.242119056 0.931852545 0.901188844 0.97734096 1 12.05521261 -6.114586646 1.22734347 0.961178496 0.728482763 0.202173524 0.187624584 0.507276537 1.508212574 0.030490851 0.065260998 7.68E-07 6.114586646 -0.232695733 SHPLDPIDTVDFER ddPTM_HeLa_SAHA_4h_R1 4 SHPLDPIDTVDFER 14 0 A0A1B0GVU9;P47897-2;P47897;A0A0U1RQM8;A0A0U1RQU2;A0A0U1RRI9;A0A0U1RQE9;A0A0U1RQL2;C9J165;A0A0U1RQT0 A0A1B0GVU9 QARS Glutamine--tRNA ligase 0 0 ;;; ;;; 164.68 9.09E-06 12581600 6025.88 6263.6 6226 8500.1 6947.22 2634.02 7096.5 8243.9 8834.1 7333.6 FALSE FALSE TRUE 6659.709706 6466.54475 7074.446856 8664.631727 6414.925504 2409.586677 6297.983143 8033.032975 8772.622779 7649.787386 0.870574484 0.845323461 0.924789997 1.132663078 0.83857566 0.314987405 0.823288652 1.050098855 1.146779948 1 12.90120394 -5.519413064 24.99560597 0.942400456 0.711831375 0.244485557 0.195067768 150.4151135 1084838.676 0.026371574 0.05364809 3.02E-06 5.519413064 -0.230569081 SHPPS(ph)VRMPSSS(ph)LSES(ph)S(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SHPPSVRMPSSSLSESSPR 19 1 O60293-2;O60293;G3V1X1;O60293-4 O60293-2 ZFC3H1 Zinc finger C3H1 domain-containing protein 4 0 S(0.342)HPPS(0.658)VRMPS(0.194)S(0.194)S(0.473)LS(0.141)ES(0.999)S(0.999)PR 62.739 0.0067231 5172200 0 0 0 0 0 0 133.1 0 67.62 0 TRUE FALSE FALSE 0 0 0 0 0 0 118.1232377 0 67.14942691 0 0 SHS(ph)APSEVGFSDAR ddPTM_HeLa_SAHA_4h_R1 1 SHSAPSEVGFSDAR 14 0 Q86V48-2;Q86V48-3;Q86V48 Q86V48-2 LUZP1 Leucine zipper protein 1 1 0 S(0.051)HS(0.733)APS(0.215)EVGFSDAR 155.14 3.49E-05 5536500 369.18 368.04 306.61 420.26 380.69 104.18 388.55 447.13 413.42 399.12 TRUE FALSE FALSE 408.0120463 379.9647375 348.393214 428.39474 351.5216144 95.3032779 344.8293314 435.693062 410.5429766 416.3280164 0.980025437 0.912657142 0.836823851 1.028983693 0.844338119 0.228913919 0.828263575 1.046513914 0.986104611 1 8.701576836 -5.518940947 24.89262684 0.971973113 0.684382503 0.252023644 0.196310089 138.5670647 875943.8324 0.027576231 0.056197795 3.03E-06 5.518940947 -0.28759061 SHS(ph)DTSIASR ddPTM_HeLa_SAHA_4h_R1 1 SHSDTSIASR 10 0 H7C3H3;E9PEM3;H7C357;H0Y6E6;Q92622-3;Q92622-2;Q92622 H7C3H3 KIAA0226 Run domain Beclin-1 interacting and cysteine-rich containing protein 1 0 S(0.068)HS(0.931)DT(0.001)SIASR 134.38 0.0013927 2523100 1023.3 1033.8 572.04 1108.2 1070.8 183.64 1249.6 1520.8 970.03 929.82 TRUE FALSE FALSE 1130.935389 1067.295798 649.9946321 1129.650813 988.7555353 167.9928389 1108.991719 1481.900138 963.2794823 969.9090906 1.166022053 1.100408078 0.670160367 1.164697624 1.019431146 0.173204727 1.143397593 1.527875295 0.993164712 1 9.92170572 SHS(ph)LSQHTATSSK ddPTM_HeLa_SAHA_4h_R1 1 SHSLSQHTATSSK 13 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 S(0.037)HS(0.926)LS(0.037)QHTATSSK 94.454 0.006378 974610 670.59 1418.8 314.78 819.78 1738.1 481.47 1165.5 1230.7 761.44 1341.2 TRUE FALSE FALSE 741.125733 1464.770051 357.6765791 835.6480273 1604.927153 440.4460473 1034.354873 1199.220476 756.141077 1399.025696 0.529744189 1.046992958 0.255661194 0.597307133 1.147174894 0.314823415 0.739339439 0.857182595 0.540476904 1 10.45020675 -9.49292532 1.174307558 1.00429289 0.668720989 0 0.305068742 0.682491997 1.648738669 0.189759885 0.043774947 3.21E-10 9.49292532 -0.335571901 SHS(ph)PSASQSGSQLR ddPTM_HeLa_SAHA_4h_R1 4 SHSPSASQSGSQLR 14 0 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 S(0.003)HS(0.99)PS(0.006)ASQS(0.001)GSQLR;S(0.153)HS(0.821)PS(0.026)ASQSGSQLR;S(0.152)HS(0.847)PS(0.001)ASQSGSQLR;S(0.037)HS(0.418)PS(0.418)AS(0.082)QS(0.022)GS(0.022)QLR ;;; 180.85 5.22E-07 18700850 2427.69 3585.63 1034.78 2588.96 5090.88 196.063 3725.42 3781.9 3314.04 3161.84 TRUE FALSE FALSE 2683.045573 3701.806765 1175.794429 2639.073064 4700.817874 179.3573294 3306.225937 3685.164474 3290.977326 3298.162396 0.813497109 1.122384625 0.356499859 0.800164682 1.425283934 0.054380988 1.002444859 1.117338697 0.997821493 1 11.68744672 -9.286928306 0.619620044 1.025293364 0.82243051 0.029152786 0.371422313 4.046785895 2.242924874 0.464247665 0.079361679 5.17E-10 9.286928306 -0.202862854 SHS(ph)SLPPNNSYADFER ddPTM_HeLa_SAHA_4h_R1 1 SHSSLPPNNSYADFER 16 0 O43293 O43293 DAPK3 Death-associated protein kinase 3 1 0 S(0.078)HS(0.503)S(0.419)LPPNNSYADFER 69.729 0.018902 3944900 3838.3 4573 4068.4 2634.2 4197.5 3777.1 5047.9 4396.5 2666.7 3186.5 TRUE FALSE FALSE 4242.030005 4721.1682 4622.820365 2685.18875 3875.888457 3455.269831 4479.897007 4284.043896 2648.142218 3323.885609 1.276226231 1.420376257 1.390788044 0.807846318 1.166071554 1.039527299 1.347789164 1.288866225 0.796700768 1 11.69865502 -9.345630907 1.136216893 1.003131816 1.2165302 0.282398711 0.186009371 0.696579956 1.644483386 0.113207261 0.031434132 4.51E-10 9.345630907 0.213398384 SHS(ph)SSEAYEPR ddPTM_HeLa_SAHA_4h_R1 2 SHSSSEAYEPR 11 0 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 S(0.004)HS(0.897)S(0.097)S(0.002)EAYEPR;S(0.001)HS(0.775)S(0.19)S(0.033)EAYEPR ; 129.54 0.0010856 7812200 1197.18 1537.92 983.38 1427.53 2096.7 453.95 2072 1976.13 1316.33 1364.45 TRUE FALSE FALSE 1323.104885 1587.749617 1117.389905 1455.161907 1936.051299 415.2709061 1838.853107 1925.583456 1307.169552 1423.278117 0.92961795 1.11555823 0.785081912 1.022401659 1.360276165 0.291770738 1.291984388 1.352921423 0.918421731 1 10.47500189 -4.557636524 24.99922879 0.953887271 1.337692023 0.268860428 0.25827937 139.5466249 100367.4413 0.031574695 0.11814261 2.77E-05 4.557636524 0.383804752 SHS(ph)VPENMVEPPLSGR ddPTM_HeLa_SAHA_4h_R1 1 SHSVPENMVEPPLSGR 16 0 A1L390-3;A1L390;G3V311;A1L390-2 A1L390-3 PLEKHG3 Pleckstrin homology domain-containing family G member 3 1 0 S(0.056)HS(0.943)VPENMVEPPLSGR 112.91 0.0014907 13726000 726.42 1189.4 1042.7 652.34 991.49 407.35 1015.5 723.51 741.28 1052.9 TRUE FALSE FALSE 802.8281885 1227.93734 1184.793726 664.966984 915.5222504 372.6414883 901.2332674 705.0036618 736.1213721 1098.295672 0.730976375 1.118038951 1.078756619 0.605453523 0.833584502 0.339290683 0.820574359 0.641906984 0.67023971 1 10.10105078 -6.242049016 24.53563269 0.906045467 0.650882186 0.356155769 0.18200565 594.4261305 752158.0415 0.026916585 0.044589075 5.73E-07 6.242049016 -0.255163281 SHSAPSEVGFS(ph)DAR ddPTM_HeLa_SAHA_4h_R1 1 SHSAPSEVGFSDAR 14 0 Q86V48-2;Q86V48-3;Q86V48 Q86V48-2 LUZP1 Leucine zipper protein 1 1 0 SHS(0.003)APS(0.015)EVGFS(0.982)DAR 133.98 2.24E-05 0 316.64 400.24 340.07 296.75 661.49 221.08 506.08 445.97 400.74 434.66 TRUE FALSE FALSE 349.945648 413.2080386 386.4129686 302.4940254 610.8067791 202.2427402 449.1345465 434.5627332 397.9512177 453.4003198 0.771824881 0.911353655 0.852255615 0.667167649 1.347168832 0.44605778 0.990591596 0.958452639 0.877703875 1 8.824641598 -9.582162065 1.378759338 0.999723279 0.855327175 0.001709775 0.22297823 1.051119769 3.594121165 0.139435384 0.032780095 2.62E-10 9.582162065 -0.144396105 SHSESASPSALSSSPNNLS(ph)PTGWSQPK ddPTM_HeLa_SAHA_4h_R1 2 SHSESASPSALSSSPNNLSPTGWSQPK 27 0 H7C155;P04049;P04049-2 H7C155 RAF1 RAF proto-oncogene serine/threonine-protein kinase 1 0 SHSESASPSALS(0.001)S(0.013)S(0.327)PNNLS(0.637)PT(0.021)GWS(0.001)QPK;SHSESASPSALS(0.012)S(0.255)S(0.255)PNNLS(0.346)PT(0.121)GWS(0.011)QPK ; 125.37 2.13E-08 11632000 1701.09 2919.5 918.9 2026.03 4010.1 312.62 2797.34 3193.2 2534.46 2806.04 TRUE FALSE FALSE 1880.018451 3014.093716 1044.122907 2065.24674 3702.847004 285.9830172 2482.575941 3111.522568 2516.822487 2927.022117 0.642297317 1.029747503 0.356718489 0.705579479 1.265056039 0.097704426 0.848157561 1.063033501 0.859857694 1 11.51521793 -9.449615744 1.07453196 1.006452559 0.73450732 0.037924112 0.326186064 1.113078339 2.208355521 0.23755043 0.053569603 3.55E-10 9.449615744 -0.271945239 SHSGT(ph)SPDNTAPPPPPPRPQPSHSR ddPTM_HeLa_SAHA_4h_R1 1 SHSGTSPDNTAPPPPPPRPQPSHSR 25 1 E9PMG1;H0YDT0;Q96D71-4;Q96D71-3;Q96D71 E9PMG1 REPS1 RalBP1-associated Eps domain-containing protein 1 1 0 S(0.212)HS(0.212)GT(0.286)S(0.286)PDNT(0.003)APPPPPPRPQPSHSR 55.669 0.0049441 14545000 227.62 236.37 189.63 311.81 420.91 122.53 248.16 394.65 250.91 188.47 TRUE FALSE FALSE 251.562116 244.0285431 215.4717888 317.8455334 388.6599667 112.0897547 220.2363837 384.5554244 249.1638969 196.595864 1.279590073 1.241269974 1.096013845 1.616745779 1.976948847 0.570153168 1.120249323 1.956070776 1.267391347 1 7.619089161 -12.6642865 0.146630407 3.78E-11 1.478799921 0.045330991 0.401550807 94.94362429 1.210039661 28.37676257 1.066271436 2.17E-13 12.6642865 1.478799921 SHSLS(ph)RPGPTEGDAEGEAEGPVGSTLGSYATLTR ddPTM_HeLa_SAHA_4h_R1 1 SHSLSRPGPTEGDAEGEAEGPVGSTLGSYATLTR 34 1 Q8WXE0-2;Q8WXE0 Q8WXE0-2 CASKIN2 Caskin-2 1 0 S(0.153)HS(0.196)LS(0.621)RPGPT(0.029)EGDAEGEAEGPVGSTLGSYATLTR 86.492 3.70E-08 9520500 440.23 638.04 437.44 566.65 938.95 269.35 679.66 791.68 612.98 713.03 TRUE FALSE FALSE 486.5354112 658.7129146 497.0520451 577.6183301 867.0078539 246.3998647 603.182868 771.4299719 608.7142223 743.7722128 0.654145722 0.885637973 0.668285312 0.776606494 1.165690031 0.331284042 0.810977955 1.037185792 0.818414848 1 9.53871704 -9.543575631 1.305106912 1.000135623 0.771144153 0.012768325 0.220937435 0.70975533 2.163369704 0.143464716 0.033984914 2.86E-10 9.543575631 -0.22899147 SHSS(ph)PSQIPK ddPTM_HeLa_SAHA_4h_R1 2 SHSSPSQIPK 10 0 Q9H792;H0YN99 Q9H792 PEAK1 Pseudopodium-enriched atypical kinase 1 1 0 SHS(0.03)S(0.959)PS(0.012)QIPK;SHS(0.038)S(0.96)PS(0.002)QIPK ; 137.01 4.58E-05 17915000 5387.4 5283.9 4522.8 5529.3 6652.2 2907.22 6064.3 6971.1 6144.4 5726.3 TRUE FALSE FALSE 5954.07145 5455.101827 5139.14363 5636.327597 6142.509873 2659.5085 5381.929004 6792.789356 6101.64062 5973.188817 0.996799471 0.913264589 0.860368521 0.943604458 1.028346845 0.44524099 0.901014378 1.137213231 1.021504728 1 12.54428561 -7.14371436 2.822015473 0.999089676 0.875709919 0.090346232 0.168254524 0.490760592 7.506034292 0.028590984 0.035365959 7.18E-08 7.14371436 -0.123379757 SHSS(ph)SEAYEPR ddPTM_HeLa_SAHA_4h_R1 1 SHSSSEAYEPR 11 0 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 S(0.036)HS(0.384)S(0.565)S(0.014)EAYEPR 109.6 0.0033386 6773400 1933.2 2025.2 1471.7 1828 3027.6 1161.6 2718.5 2393.1 2200.2 2336.8 TRUE FALSE FALSE 2136.542846 2090.817809 1672.255612 1863.383583 2795.625942 1062.625145 2412.607225 2331.887967 2184.888629 2437.550884 0.876512101 0.857753503 0.686039263 0.764449102 1.146899521 0.435939677 0.989766918 0.956652016 0.896345854 1 11.25121662 -8.43207348 0.767690938 0.989833525 0.831038308 0.046711478 0.182373855 0.972384377 1.200800109 0.074522271 0.038585434 3.70E-09 8.43207348 -0.158795217 SHST(ph)EPNLSSFLNDPNPMK ddPTM_HeLa_SAHA_4h_R1 1 SHSTEPNLSSFLNDPNPMK 19 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 S(0.023)HS(0.429)T(0.547)EPNLSSFLNDPNPMK 107.07 0.0010981 8533500 1091.5 2196.9 981.82 585.76 1974.6 173.19 2255.3 961.83 754.68 1781 TRUE FALSE FALSE 1206.308978 2268.081001 1115.617317 597.0982318 1823.306575 158.4332377 2001.527708 937.2277813 749.4281204 1857.787626 0.649325553 1.220850527 0.60050853 0.321402847 0.981439724 0.085280597 1.077371644 0.504485964 0.403398166 1 10.85936987 -6.604362491 24.99999998 0.861233566 0.598736865 0.090510874 0.335870002 39.92674914 12246.67829 0.045580949 0.064461199 2.49E-07 6.604362491 -0.262496701 SHSVPRS(ph)PSQGSYSR ddPTM_HeLa_SAHA_4h_R1 1 SHSVPRSPSQGSYSR 15 1 Q5VTI5;A0A1B0GUN5;Q9Y2H5 Q5VTI5 PLEKHA6 Pleckstrin homology domain-containing family A member 6 1 0 SHS(0.003)VPRS(0.966)PS(0.028)QGS(0.002)Y(0.001)SR 72.891 0.0089854 766970 254.2 282.12 147.8 215.75 160.09 105.91 148.34 260.09 199.04 162.28 TRUE FALSE FALSE 280.9379223 291.2608731 167.9414143 219.9261532 147.8239388 96.88587217 131.6483928 253.4372744 197.6548644 169.276685 1.659637429 1.720620138 0.992111904 1.29921113 0.873268157 0.572352136 0.777711312 1.497177679 1.167643757 1 7.40323947 -5.777802738 6.786104226 1.326088533 0.892886039 0.250956775 0.314962382 0.170790462 32.74718544 0.053458919 0.100303915 1.67E-06 5.777802738 -0.433202494 SHTEEDCTEELFDFLHAR ddPTM_HeLa_SAHA_4h_R1 4 SHTEEDCTEELFDFLHAR 18 0 P07919 P07919 UQCRH "Cytochrome b-c1 complex subunit 6, mitochondrial" 0 0 ;;; ;;; 277.94 1.16E-61 40651700 3696.39 4270.6 4133.8 3771.53 4953.97 849.59 5382.82 3745.69 4407.7 4618.9 FALSE FALSE TRUE 4085.19326 4408.970242 4697.132736 3844.533417 4574.397889 777.2001523 4777.130927 3649.880673 4377.026457 4818.043383 0.847894661 0.915095588 0.974904616 0.797944956 0.949430614 0.161310327 0.991508491 0.75754417 0.908465555 1 12.23423167 SHTPS(ph)PTSPK ddPTM_HeLa_SAHA_4h_R1 4 SHTPSPTSPK 10 0 B7Z385;A0A087X0J3;A0A087WZ15;E9PDI2;P40123-2;P40123 B7Z385 CAP2 Adenylyl cyclase-associated protein;Adenylyl cyclase-associated protein 2 1 0 SHTPS(0.949)PT(0.05)S(0.001)PK;SHTPS(0.955)PT(0.044)S(0.002)PK;SHT(0.383)PS(0.418)PT(0.156)S(0.042)PK;SHTPS(0.993)PT(0.005)S(0.001)PK ;;; 98.902 0.0088315 28221400 18218.7 20327.3 17676.8 19271.8 20587.9 1536.21 22040.9 20323.4 23163 20420.7 TRUE FALSE FALSE 20135.02646 20985.91786 20085.70225 19644.83356 19010.45955 1405.316266 19560.79992 19803.55686 23001.8068 21301.13631 0.945255979 0.985201801 0.942940412 0.922243455 0.892462227 0.06597377 0.918298425 0.929694856 1.079839425 1 14.37864277 -5.500990371 24.82438608 0.966172285 0.634886307 0.313892516 0.22543948 618.0070233 700903.1469 0.030125153 0.066796789 3.16E-06 5.500990371 -0.331285979 SHTPSPTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 SHTPSPTSPK 10 0 B7Z385;A0A087X0J3;A0A087WZ15;E9PDI2;P40123-2;P40123 B7Z385 CAP2 Adenylyl cyclase-associated protein;Adenylyl cyclase-associated protein 2 1 0 SHTPS(0.009)PT(0.025)S(0.966)PK;SHTPSPT(0.31)S(0.69)PK;SHTPSPT(0.012)S(0.988)PK;SHTPSPT(0.083)S(0.917)PK ;;; 152.67 0.00050241 242744000 30967.2 34076.3 25526.4 32510.4 36534.3 1280.36 35620.2 33653 37738.3 33729.5 TRUE FALSE FALSE 34224.47218 35180.39448 29005.00486 33139.6858 33735.04983 1171.266125 31612.12135 32792.20499 37475.6761 35183.74381 0.972735373 0.999904804 0.824386541 0.94190334 0.958824905 0.03328998 0.898486571 0.932027165 1.065141797 1 15.10262138 -5.464832343 24.9999881 0.970657995 0.62350093 0.311480584 0.234952018 231.6791474 99781.39568 0.031314515 0.07002122 3.43E-06 5.464832343 -0.347157064 SHVEDGDIAGAPAS(ph)SPEAPPAEQDPVQLK ddPTM_HeLa_SAHA_4h_R1 3 SHVEDGDIAGAPASSPEAPPAEQDPVQLK 29 0 A0A087WVV2;Q9P2E9-3;Q9P2E9;A0A087WU26;F8W7S5 A0A087WVV2 RRBP1 Ribosome-binding protein 1 1 0 SHVEDGDIAGAPAS(0.5)S(0.5)PEAPPAEQDPVQLK;SHVEDGDIAGAPAS(0.726)S(0.274)PEAPPAEQDPVQLK;SHVEDGDIAGAPAS(0.5)S(0.5)PEAPPAEQDPVQLK ;; 112.28 1.49E-09 40554000 4757.7 4166.87 3514.12 4607.61 4894.36 772.614 5255 5958.73 4961.67 4243.07 TRUE FALSE FALSE 5258.136715 4301.879322 3993.005973 4696.796954 4519.355194 706.7829406 4663.69357 5806.314315 4927.141334 4426.009513 1.188008453 0.971954378 0.902168412 1.061180944 1.021090258 0.159688527 1.05370166 1.311862141 1.113224298 1 12.11179084 -6.520619398 1.219133168 1.085006788 0.87473906 0.062902013 0.284587346 0.857565787 2.545921724 0.051248385 0.087695749 3.02E-07 6.520619398 -0.210267728 SHVTEEEEEEEEEES(ph)DS ddPTM_HeLa_SAHA_4h_R1 2 SHVTEEEEEEEEEESDS 17 0 O75971-2;O75971 O75971-2 SNAPC5 snRNA-activating protein complex subunit 5 1 0 SHVTEEEEEEEEEES(0.895)DS(0.105);SHVTEEEEEEEEEES(0.5)DS(0.5) ; 181.87 1.50E-09 18357900 3136.8 4519.8 3416.2 3818.5 4661.2 187.018 4983.7 4630.3 4057.1 4041.6 TRUE FALSE FALSE 3466.743016 4666.244486 3881.741945 3892.412589 4304.059863 171.0830143 4422.92096 4511.863631 4028.866311 4215.853155 0.82231114 1.106832784 0.92074885 0.923279926 1.020922623 0.040580876 1.049116465 1.070213659 0.955646737 1 12.0416089 SICEVLDLER ddPTM_HeLa_SAHA_4h_R1 1 SICEVLDLER 10 0 H0Y8X0;B4DFG0;H0Y993;P35659;A0A494C028;P35659-2;D6RDA2 H0Y8X0 DEK Protein DEK 0 0 133.23 0.0086756 5213400 1267 940.28 901.46 1123.8 1040.7 1030.3 1211.4 1108.6 1216.5 824.12 FALSE FALSE TRUE 1400.268873 970.7456889 1024.306274 1145.552774 960.9617908 942.5126437 1075.090084 1080.243617 1208.034277 859.6518463 1.628879039 1.129231203 1.191536177 1.332577577 1.11784997 1.096388785 1.250611033 1.256605941 1.405259911 1 9.747608685 SIDAVIATASAPPSSS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 4 SIDAVIATASAPPSSSPGR 19 0 Q9NR48-2;Q9NR48 Q9NR48-2 ASH1L Histone-lysine N-methyltransferase ASH1L 1 0 SIDAVIATAS(0.002)APPS(0.008)S(0.227)S(0.764)PGR;SIDAVIATASAPPS(0.001)S(0.027)S(0.972)PGR;SIDAVIAT(0.001)AS(0.008)APPS(0.195)S(0.195)S(0.602)PGR;SIDAVIATAS(0.001)APPS(0.007)S(0.212)S(0.78)PGR ;;; 268.42 7.04E-64 24936300 8847.1 9081.5 9489.7 9677.6 10423.8 10606.9 11840.8 12056.8 8568 10231.6 TRUE FALSE FALSE 9777.67857 9375.746559 10782.9069 9864.923942 9625.130696 9703.132447 10508.44202 11748.40451 8508.37459 10672.73435 0.916136226 0.878476523 1.010322804 0.92431083 0.901842994 0.909151501 0.984606351 1.100786746 0.797206631 1 13.38164222 -4.311394293 3.279240551 0.947783397 1.113980253 0.381447081 0.06278739 0.186977721 3.271803739 0.006652761 0.072611479 4.88E-05 4.311394293 0.166196855 SIDDLEEK ddPTM_HeLa_SAHA_4h_R1 1 SIDDLEEK 8 0 P09493-3;P09493-9;Q6ZN40;P09493-2;H7BYY1;P09493-8;P09493-7 P09493-3 TPM1 Tropomyosin alpha-1 chain 0 0 134.91 0.0085684 5448500 1585 1597.5 1340.4 1262.4 1560.4 1484.3 1346 1539.9 1787.6 1510.9 FALSE FALSE TRUE 1751.717572 1649.260048 1523.062731 1286.835577 1440.842489 1357.82929 1194.544538 1500.511588 1775.159946 1576.042293 1.111466094 1.04645672 0.966384429 0.816498125 0.914215624 0.861543688 0.757939392 0.952075712 1.126340298 1 10.62209053 -6.519717637 3.033641573 1.053553712 0.858042637 0.730291348 0.059842803 0.108169295 2.038042674 0.009742241 0.0147422 3.02E-07 6.519717637 -0.195511075 SIDKDEEFAGS(ph)SPQSSK ddPTM_HeLa_SAHA_4h_R1 1 SIDKDEEFAGSSPQSSK 17 1 Q9Y2M0;A0A590UJ38;H3BQ24;A0A590UJL5;Q9Y2M0-2 Q9Y2M0 FAN1 Fanconi-associated nuclease 1 1 0 SIDKDEEFAGS(0.484)S(0.484)PQS(0.014)S(0.019)K 82.635 0.0050151 4404500 1115.7 653.67 815.98 1002.4 1243.9 1019.4 825.98 1085.9 984.5 1174.4 TRUE FALSE FALSE 1233.054445 674.8493369 927.177505 1021.802901 1148.592651 932.541385 733.0385565 1058.12425 977.6487843 1225.034131 1.006547012 0.550882069 0.756858508 0.834101578 0.93760053 0.761237064 0.598382149 0.863750832 0.798058405 1 10.25860623 -7.306865733 24.49547323 1.003091711 0.761408374 0.245407872 0.126404797 194.779052 105031.1899 0.018410351 0.021053086 4.93E-08 7.306865733 -0.241683337 SIDTQTPS(ph)VQER ddPTM_HeLa_SAHA_4h_R1 1 SIDTQTPSVQER 12 0 Q86VQ1;H7C0B2 Q86VQ1 GLCCI1 Glucocorticoid-induced transcript 1 protein 1 0 SIDTQT(0.21)PS(0.79)VQER 149.32 0.00039105 5067400 1103 1165.6 1112.1 792.61 1127 1499.2 1130 1168.5 1402.4 1056.4 TRUE FALSE FALSE 1219.018601 1203.366205 1263.651196 807.9521127 1040.649503 1371.459726 1002.849426 1138.611462 1392.640584 1101.946574 1.10624111 1.092036795 1.146744521 0.733204433 0.944373827 1.244579146 0.910070824 1.033272836 1.263800457 1 10.10583856 SIEAVHEDIR ddPTM_HeLa_SAHA_4h_R1 2 SIEAVHEDIR 10 0 H7C312;H7BZ20;P23919-2;P23919 H7C312 DTYMK Thymidylate kinase 0 0 ; ; 128.51 7.78E-05 7301000 7875.1 8850.3 7723.5 8911.6 9154.1 9679.9 9752.1 9650.8 9294 8543.2 FALSE FALSE TRUE 8703.43915 9137.055527 8776.018358 9084.096904 8452.714836 8855.118062 8654.768042 9403.94651 9229.322297 8911.539161 0.976648253 1.025306107 0.98479266 1.019363405 0.948513459 0.993668759 0.97118667 1.055255028 1.035659736 1 13.12145891 SIEEGDGAFGRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SIEEGDGAFGRSPR 14 1 O75420 O75420 GIGYF1 PERQ amino acid-rich with GYF domain-containing protein 1 1 0 SIEEGDGAFGRS(1)PR 90.793 0.0050605 3622600 1432.4 1939.4 1595.5 1667.5 1771.2 1857.6 1682.2 1697.3 1782.4 1744.2 TRUE FALSE FALSE 1583.066404 2002.237832 1812.926431 1699.776874 1635.491039 1699.322029 1492.914429 1653.885524 1769.996133 1819.400998 0.870103076 1.100492874 0.996441374 0.93425082 0.898917303 0.934000823 0.820552715 0.909027491 0.972845533 1 10.82924783 -5.395402223 1.475174662 0.955080736 0.87252131 0.282258042 0.063033694 0.588225718 2.430881379 0.011301756 0.037722859 4.02E-06 5.395402223 -0.082559426 SIEVIENR ddPTM_HeLa_SAHA_4h_R1 1 SIEVIENR 8 0 P49321-4;P49321;P49321-3;H0YDS9;E9PRH9;H0YF33;Q5T624;P49321-2 P49321-4 NASP Nuclear autoantigenic sperm protein 0 0 124.08 0.017578 3252200 704.19 658.02 843.58 823.53 711.96 902.94 878.95 769.62 800.04 563.76 FALSE FALSE TRUE 778.2599351 679.3402797 958.5386892 839.470614 657.4097786 826.0044322 780.0482327 749.9342348 794.4724565 588.0664526 1.323421752 1.155210056 1.629983627 1.427509783 1.1179175 1.404610701 1.326462731 1.275254236 1.350990952 1 9.199835381 -9.067006938 0.623126604 0.97068014 1.342270516 0 0.172769571 0.671281169 0.425437162 0.135565457 0.030913797 8.57E-10 9.067006938 0.371590375 SIFAS(ph)PESVTGK ddPTM_HeLa_SAHA_4h_R1 1 SIFASPESVTGK 12 0 O75940 O75940 SMNDC1 Survival of motor neuron-related-splicing factor 30 1 0 S(0.017)IFAS(0.842)PES(0.139)VT(0.001)GK 155.08 0.00024605 14376000 3384.3 3005.5 2806.4 3038.5 3746.6 4102 3503.4 3346.1 3415.3 2931.2 TRUE FALSE FALSE 3740.276202 3102.880172 3188.841577 3097.314561 3459.536317 3752.486523 3109.188212 3260.511607 3391.532649 3057.578377 1.223280564 1.014816233 1.042930445 1.012995966 1.131462841 1.227274025 1.016879317 1.066370573 1.109221819 1 11.57817377 -11.97133176 8.485433659 1.095308884 1.093806206 0 0.081890811 0 0 0 0.01317038 1.07E-12 11.97133176 -0.001502678 SIGAAS(ph)PRPQSLEK ddPTM_HeLa_SAHA_4h_R1 1 SIGAASPRPQSLEK 14 1 Q96L73-2;Q96L73-3;Q96L73 Q96L73-2 NSD1 "Histone-lysine N-methyltransferase, H3 lysine-36 and H4 lysine-20 specific" 1 0 S(0.006)IGAAS(0.994)PRPQSLEK 66.939 0.020346 9551500 3465.1 3238.8 2804.6 2565.7 3105.5 3493.4 3137.5 3106.3 3547.9 3918.8 TRUE FALSE FALSE 3829.575116 3343.739245 3186.796282 2615.362834 2867.557261 3195.742667 2784.460243 3026.845344 3523.209875 4087.758646 0.93683983 0.817988422 0.77959502 0.639803633 0.701498672 0.781783599 0.681170412 0.740465768 0.861892832 1 11.9970943 -7.093216378 1.324492154 0.978059897 0.710900166 0.755755901 0.053299226 0.084930889 0.288005846 0.007688366 0.009813726 8.07E-08 7.093216378 -0.267159731 SIGS(ph)PESTPK ddPTM_HeLa_SAHA_4h_R1 3 SIGSPESTPK 10 0 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-6;Q8NEY1-5;H0Y6F6 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 S(0.321)IGS(0.672)PEST(0.007)PK;S(0.029)IGS(0.846)PES(0.023)T(0.102)PK;S(0.018)IGS(0.714)PES(0.02)T(0.248)PK ;; 178.53 3.77E-05 92911000 11987.5 11326.5 11798.5 12198.7 12542.5 13016.6 14516.8 13756.3 11800.4 11877.3 TRUE FALSE FALSE 13248.40025 11693.48603 13406.33814 12434.82348 11581.49636 11907.51245 12883.33146 13404.43376 11718.28006 12389.38853 1.069334473 0.943830763 1.082082308 1.003667247 0.934791603 0.961105742 1.039868225 1.081928598 0.945831994 1 13.59681737 -6.032035935 24.81753053 1.029463914 0.999532191 0 0.057998201 1395.016422 1080686.282 0.008206445 0.013617687 9.29E-07 6.032035935 -0.029931723 SIITVEELTEIERLEDLDTCMMT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SIITVEELTEIERLEDLDTCMMTPK 25 1 Q5VZK9;Q5VZK9-2 Q5VZK9 LRRC16A Leucine-rich repeat-containing protein 16A 1 0 SIITVEELTEIERLEDLDT(0.127)CMMT(0.873)PK 83.063 5.88E-05 18049000 1229 1194.1 1407.5 1742.6 1376.1 1347 1682.2 1222.3 779.58 1509.4 TRUE FALSE FALSE 1358.271859 1232.789623 1599.30677 1776.330543 1270.663515 1232.228022 1492.914429 1191.035336 774.1548393 1574.477621 0.862680956 0.782983262 1.01576977 1.128203106 0.807038156 0.782626571 0.948196665 0.756463807 0.491689961 1 10.62065754 SILAKPSSS(ph)PDPR ddPTM_HeLa_SAHA_4h_R1 2 SILAKPSSSPDPR 13 1 Q9BTC0;Q9BTC0-1 Q9BTC0 DIDO1 Death-inducer obliterator 1 1 0 SILAKPS(0.004)S(0.095)S(0.9)PDPR;SILAKPS(0.027)S(0.373)S(0.6)PDPR ; 125.53 0.0041239 20892000 2824.3 2312.1 2121.24 2210.8 2146.2 2336 2307.07 2883.6 2216.5 1973.91 TRUE FALSE FALSE 3121.372832 2387.013557 2410.31154 2253.593231 1981.75862 2136.959658 2047.472412 2809.841687 2201.075196 2059.01492 1.515954451 1.159298815 1.170613926 1.09450068 0.962478999 1.037855354 0.99439416 1.364653388 1.068994292 1 11.00773857 -6.56524915 2.289353252 1.24456941 1.076730122 0.029195795 0.165717879 0.52051665 5.511027515 0.035000893 0.053344895 2.72E-07 6.56524915 -0.167839287 SILPYGDSMDR ddPTM_HeLa_SAHA_4h_R1 1 SILPYGDSMDR 11 0 A0A3B3ITM2;Q9UMD9-2;Q9UMD9 A0A3B3ITM2 COL17A1 Collagen alpha-1(XVII) chain;120 kDa linear IgA disease antigen;97 kDa linear IgA disease antigen 0 0 117.89 0.010373 3427100 969.46 1185.2 1260.1 845.3 1356.4 1397.6 1264.4 1104.6 968.08 1169.5 FALSE FALSE TRUE 1071.432251 1223.601258 1431.819866 861.6620038 1252.472925 1278.516617 1122.126384 1076.345931 961.3430525 1219.922868 0.878278684 1.003015264 1.173697045 0.706324987 1.026682061 1.0480307 0.919833879 0.882306545 0.78803593 1 10.25257422 SILPYPVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 SILPYPVSPK 10 0 Q8IWI9-3;Q8IWI9;H3BP52;H3BTF4 Q8IWI9-3 MGA MAX gene-associated protein 1 0 S(0.01)ILPY(0.001)PVS(0.989)PK;S(0.001)ILPY(0.002)PVS(0.998)PK ; 139.46 0.0011596 11074800 8901 6293.2 5546 5920.8 6516.8 7475.5 7836.1 9152.5 7468.3 6759.4 TRUE FALSE FALSE 9837.248019 6497.103809 6301.779998 6035.405646 6017.484192 6838.545344 6954.361405 8918.392303 7416.327492 7050.830814 1.395189912 0.921466417 0.893764177 0.855985033 0.853443282 0.969892134 0.986318008 1.264871125 1.051837392 1 12.78357755 -7.226961959 24.92349573 1.186617483 0.953716248 0.234883197 0.147944755 596.1478061 430951.7982 0.030152341 0.03692802 5.93E-08 7.226961959 -0.232901235 SILS(ph)PGGSCGPIK ddPTM_HeLa_SAHA_4h_R1 2 SILSPGGSCGPIK 13 0 P78347-2;P78347-4;P78347-3;P78347;A0A494C1K3;P78347-5 P78347-2 GTF2I General transcription factor II-I 1 0 S(0.4)ILS(0.599)PGGS(0.001)CGPIK;S(0.031)ILS(0.96)PGGS(0.01)CGPIK ; 155.86 9.22E-05 93467000 5545 5424.9 5609.4 5377.3 5386.9 5679.9 6087.2 4234.9 4109.6 4709.2 TRUE FALSE FALSE 6128.248541 5600.670319 6373.81982 5481.385417 4974.156886 5195.940566 5402.252235 4126.57739 4081.000959 4912.236658 1.247547496 1.14014668 1.29753924 1.115863465 1.012605302 1.057754528 1.099754065 0.840060786 0.830782644 1 12.26216435 -3.453777239 0.938835653 1.128930954 2.88E-12 0.205009009 0.128996526 7.044997799 1.563418059 0.017469275 11.67610089 0.000351741 3.453777239 -1.128930954 SILVS(ph)PTGPSR ddPTM_HeLa_SAHA_4h_R1 2 SILVSPTGPSR 11 0 Q14684-2;Q14684 Q14684-2 RRP1B Ribosomal RNA processing protein 1 homolog B 1 0 S(0.044)ILVS(0.902)PT(0.054)GPSR;SILVS(0.604)PT(0.395)GPSR ; 139.76 0.0009249 41738000 3633.1 3323.7 3169.9 3500.2 4091.7 4051.3 3864.7 3801.7 3966.1 3624.6 TRUE FALSE FALSE 4015.246127 3431.390061 3601.877464 3567.951432 3778.19483 3706.106448 3429.833785 3704.458019 3938.499587 3780.874244 1.061988807 0.907565245 0.952657304 0.943684239 0.999291324 0.980224733 0.907153627 0.979788742 1.041690184 1 11.88450415 -7.267629546 24.99966112 1.029272492 0.953619495 0.583284763 0.031527335 300.8724778 1215104.168 0.005996304 0.006948593 5.40E-08 7.267629546 -0.075652997 SILYDER ddPTM_HeLa_SAHA_4h_R1 1 SILYDER 7 0 P25787;A0A024RA52 P25787 PSMA2 Proteasome subunit alpha type-2;Proteasome subunit alpha type 0 0 119.56 0.023666 5392300 2706.6 2452.2 2745.4 3085.1 2962.5 2713.4 2944.2 2856.2 2457.8 2907 FALSE FALSE TRUE 2991.292606 2531.652889 3119.528815 3144.816572 2735.51389 2482.203055 2612.910867 2783.14254 2440.69597 3032.334997 0.986465087 0.834885622 1.028754679 1.037094046 0.902114672 0.818578111 0.861682786 0.917821594 0.804889952 1 11.56621343 -5.586113928 5.978073831 0.985673318 0.864647413 0.080788302 0.080704738 0.125502251 8.605179158 0.008279209 0.01677606 2.59E-06 5.586113928 -0.121025905 SINEENGEVS(ph)EDQSQNK ddPTM_HeLa_SAHA_4h_R1 1 SINEENGEVSEDQSQNK 17 0 Q13523 Q13523 PRPF4B Serine/threonine-protein kinase PRP4 homolog 1 0 SINEENGEVS(1)EDQSQNK 235.02 3.08E-28 9512000 926.25 897.39 571.55 937.61 585.19 1129.4 816.1 930.86 1190 741.07 TRUE FALSE FALSE 1023.677225 926.4660248 649.4378575 955.7587974 540.3528686 1033.168766 724.2702801 907.0499491 1181.718693 773.0211544 1.324255124 1.198500222 0.840129476 1.236394104 0.699014336 1.336533626 0.936934618 1.173383088 1.528701623 1 9.594364085 SINHQIES(ph)PSER ddPTM_HeLa_SAHA_4h_R1 1 SINHQIESPSER 12 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 SINHQIES(0.99)PS(0.01)ER 182.72 9.40E-06 16121000 724.67 744.72 658.49 1143.2 1137.6 1579.9 1299.1 1185.3 1257.8 1226.8 TRUE FALSE FALSE 800.8941155 768.8494166 748.2255879 1165.328289 1050.437334 1445.283632 1152.921849 1154.981742 1249.046867 1279.693352 0.625848462 0.600807542 0.584691314 0.910630885 0.820850817 1.129398406 0.900936031 0.902545708 0.976051697 1 10.32158243 -5.461348498 10.89262817 0.78939177 0.971004415 0.246205013 0.152576197 1.15007269 200.8497484 0.026405844 0.059026528 3.46E-06 5.461348498 0.181612644 SIPAGAEPGEK(ac)GSAR ddPTM_HeLa_SAHA_4h_R1 2 SIPAGAEPGEKGSAR 15 1 H3BU16;A6NGP5;Q9H910-2;Q9H910;Q9H910-3 H3BU16 HN1L Hematological and neurological expressed 1-like protein 0 1 ; SIPAGAEPGEK(1)GSAR;SIPAGAEPGEK(1)GSAR 201.09 6.85E-24 10892000 840.32 880.77 776.95 1042.05 1144.77 1534.28 1122.04 1189.64 736.96 601.1 FALSE TRUE FALSE 928.7087131 909.3075259 882.8286998 1062.220385 1057.05797 1403.550712 995.7851062 1159.210731 731.8314354 627.0163627 1.481155466 1.450213391 1.407983511 1.694087185 1.685853883 2.238459466 1.588132568 1.848772696 1.167164812 1 9.292359282 -8.111263585 0.161366708 0.544399568 2.178148635 0.69244974 0.182879297 2.21344799 0.220365058 1.249059386 0.773810429 7.74E-09 8.111263585 1.633749068 SIPAGAEPGEKGS(ph)AR ddPTM_HeLa_SAHA_4h_R1 2 SIPAGAEPGEKGSAR 15 1 H3BU16;A6NGP5;Q9H910-2;Q9H910;Q9H910-3 H3BU16 HN1L Hematological and neurological expressed 1-like protein 1 0 SIPAGAEPGEKGS(1)AR;SIPAGAEPGEKGS(1)AR ; 191.15 2.15E-08 23301600 4070.9 3740.5 4136.1 4334.9 4882.5 4607.6 4428.1 3975.1 3943.6 4622.3 TRUE FALSE FALSE 4499.09594 3861.694654 4699.746168 4418.808258 4508.403905 4215.006558 3929.838534 3873.422698 3916.156167 4821.589974 0.933114588 0.800917265 0.974729538 0.916462885 0.935045064 0.874194318 0.815050337 0.803349667 0.812212608 1 12.23529325 -1 0.106006175 1.054975702 0.346628832 0 0.075185077 63.27623366 0.473381555 0.339670454 6.567665156 0.1 1 -0.70834687 SIPLDEGEDEAQR ddPTM_HeLa_SAHA_4h_R1 1 SIPLDEGEDEAQR 13 0 Q14204;A0A2R8YFZ7;A0A2R8YGC7 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 123.62 0.0060388 2804800 477.19 589.27 352.21 366.77 375.69 569.76 452.5 668.24 375.76 691.24 FALSE FALSE TRUE 527.3830336 608.3627346 400.2073446 373.8693637 346.9047134 521.2132426 401.5835091 651.1473884 373.1450556 721.0427392 0.731417161 0.843726317 0.555039698 0.518512071 0.481115327 0.7228604 0.556948274 0.903063512 0.517507542 1 9.493940966 -8.436347432 0.52889158 1.006560618 0.625889944 0 0.194881483 0.541787968 0.317577032 0.093877038 0.038320032 3.66E-09 8.436347432 -0.380670674 SIPLECPLSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SIPLECPLSSPK 12 0 Q92667-2;Q92667;I3L2A2;I3L2N7 Q92667-2 AKAP1 "A-kinase anchor protein 1, mitochondrial" 1 0 SIPLECPLS(0.367)S(0.633)PK 97.463 0.0080474 3094600 706.96 1316.9 885 755.73 1127.2 1093.8 1340.9 1113.8 1044.2 1063 TRUE FALSE FALSE 781.3212964 1359.568424 1005.603191 770.358247 1040.83418 1000.602086 1190.018403 1085.310609 1036.933327 1108.831132 0.704635065 1.226127572 0.906903821 0.694748032 0.938676909 0.902393572 1.073218787 0.978788002 0.935158923 1 10.11482395 -4.855179389 5.789996716 0.882444465 1.025094199 0.057029111 0.144896024 0.332939358 16.50693342 0.022575658 0.070290711 1.40E-05 4.855179389 0.142649734 SIPTDNQIK ddPTM_HeLa_SAHA_4h_R1 1 SIPTDNQIK 9 0 B4DLR8;H3BNV2;P15559-3;P15559-2;P15559 B4DLR8 NQO1 NAD(P)H dehydrogenase [quinone] 1 0 0 135.71 0.0088722 10967000 1466.2 1333.2 1596.9 1576.8 1370.3 1370.8 1873 1570.7 1686.2 1321.5 FALSE FALSE TRUE 1620.421643 1376.396555 1814.517216 1607.321244 1265.30791 1254.000128 1662.245111 1530.523768 1674.465597 1378.476332 1.175516478 0.998491249 1.316320907 1.166012942 0.917903253 0.909700151 1.205856837 1.110301086 1.214722051 1 10.42885878 SIQADGLVWGSSK ddPTM_HeLa_SAHA_4h_R1 2 SIQADGLVWGSSK 13 0 P24534 P24534 EEF1B2 Elongation factor 1-beta 0 0 ; ; 169.58 2.78E-10 2425500 1362.87 1370.05 1439.91 1403.12 1665.17 1526.94 1705.37 1210.54 1256.4 1263.66 FALSE FALSE TRUE 1506.22292 1414.440519 1636.133436 1430.279417 1537.585034 1396.836122 1513.477279 1179.57614 1247.65661 1318.142567 1.142685896 1.073055794 1.241241636 1.085071867 1.166478553 1.059700337 1.148189367 0.894877511 0.946526303 1 10.3642907 -2.936249764 10.7828363 1.083561831 0.684270668 0 0.100725167 0 0 0.012202946 0 0.001158111 2.936249764 -0.399291163 SIQDLTVTGTEPGQVSS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 SIQDLTVTGTEPGQVSSR 18 0 Q9UG54;O43318-4;O43318-3;O43318-2;O43318 Q9UG54 DKFZp586F0420;MAP3K7 Mitogen-activated protein kinase kinase kinase 7 1 0 SIQDLTVTGT(0.002)EPGQVS(0.216)S(0.782)R;SIQDLTVT(0.002)GT(0.106)EPGQVS(0.051)S(0.841)R ; 207.54 8.37E-17 53925000 1924.13 1993.51 2099.06 1602.72 2166.91 2561.3 2076.5 1670.87 1724.41 2423.87 TRUE FALSE FALSE 2126.518822 2058.101032 2385.108965 1633.742963 2000.881824 2343.062831 1842.846755 1628.131565 1712.40969 2528.374898 0.841061515 0.814001529 0.943336753 0.646163259 0.791370704 0.926707045 0.728866102 0.643943889 0.677276812 1 11.30399468 -13.52287874 0.066353001 1.799773307 0.48268691 0 0.131941672 150.7100888 0.779950411 18.98526279 3.013065877 3.00E-14 13.52287874 -1.317086397 SIQEELQQLR ddPTM_HeLa_SAHA_4h_R1 1 SIQEELQQLR 10 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 123.96 0.01503 4386000 806.52 899.58 885.68 980.65 1060.9 854.63 758.48 1232.4 1034.8 968.14 FALSE FALSE TRUE 891.353474 928.7269822 1006.375858 999.6318988 979.6140712 781.810716 673.1338342 1200.876992 1027.598743 1009.881253 0.882631964 0.919639788 0.996528903 0.989850931 0.970028969 0.774161035 0.666547509 1.189126928 1.017544131 1 9.979969949 -5.289537418 24.0805044 0.95041425 0.855605354 0.076283747 0.130455326 755.6831294 647632.4041 0.017449189 0.039026972 5.13E-06 5.289537418 -0.094808896 SIQEIQELDKDDESLR ddPTM_HeLa_SAHA_4h_R1 2 SIQEIQELDKDDESLR 16 1 J3KRE2;J3KTF8;J3QQX2;P52565;J3KS60;J3KRY1;P52565-2 J3KRE2 ARHGDIA Rho GDP-dissociation inhibitor 1 0 0 ; ; 273.84 5.24E-59 84065000 3814.9 4088 3519 3545.5 3863.6 4488.2 4478.9 4091.4 4464.8 4080.8 FALSE FALSE TRUE 4216.168685 4220.453882 3998.550994 3614.128279 3567.571803 4105.78011 3974.922384 3986.747912 4433.729093 4256.743259 0.990468165 0.99147485 0.939345117 0.849036002 0.838098891 0.964535529 0.933794251 0.936572321 1.041577756 1 12.05553436 -6.639501853 3.697878901 0.995166865 0.904812696 0.593612495 0.039144324 0.130732558 3.430961394 0.006123966 0.008794961 2.29E-07 6.639501853 -0.090354169 SIQFVDWCPTGFK ddPTM_HeLa_SAHA_4h_R1 3 SIQFVDWCPTGFK 13 0 P68363;P68363-2;P68366-2;P68366 P68363;P68366-2 TUBA1B;TUBA4A Tubulin alpha-1B chain;Tubulin alpha-4A chain 0 0 ;; ;; 201.38 1.93E-23 74187240 2751.65 2810.75 2911.92 3479.81 3157.65 3697.8 3466.4 2194.92 3234.4 3316.36 FALSE FALSE TRUE 3041.081172 2901.820144 3308.741293 3547.166754 2915.711539 3382.726637 3076.351549 2138.777125 3211.891547 3459.344509 0.879091737 0.838835258 0.956464811 1.025386961 0.842850873 0.97785191 0.889287419 0.618260806 0.928468251 1 11.75628298 -4.27072117 3.460982446 0.93598434 0.581940321 0.707998904 0.059815052 0.129345741 2.659174207 0.009218004 0.118222899 5.36E-05 4.27072117 -0.354044019 SIQPQVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 SIQPQVSPR 9 0 A0A2R8YCL1;Q13322-3;Q13322-2;Q13322-4;Q13322 A0A2R8YCL1 GRB10 Growth factor receptor-bound protein 10 1 0 SIQPQVS(1)PR;SIQPQVS(1)PR ; 152.64 0.00031591 86257000 4133.5 4273.3 4046.5 4297.7 5119.5 5306.2 4640.8 4822.8 4278 4243.7 TRUE FALSE FALSE 4568.280495 4411.757724 4597.935947 4380.888198 4727.245016 4854.081908 4118.60497 4699.439759 4248.22905 4426.666675 1.031991074 0.996632014 1.038690347 0.989658477 1.067901733 1.096554646 0.930407747 1.061620426 0.959690296 1 12.11200503 -10.32440315 0.4299329 0.976688667 1.027330115 0.116650643 0.045889329 12.77245566 1.640924439 0.329692926 0.01180579 4.74E-11 10.32440315 0.050641448 SIQSLEDES(ph)K ddPTM_HeLa_SAHA_4h_R1 1 SIQSLEDESK 10 0 A4FU28;A0A5F9ZHA4;A0A2R8YE69;Q8IX94;Q86UF2;P0CG41;A4D2H0 A4FU28 CTAGE9;CTAGE4;CTAGE6;CTAGE8;CTAGE15 cTAGE family member 9;cTAGE family member 4;cTAGE family member 6;cTAGE family member 8;cTAGE family member 15 1 0 SIQSLEDES(1)K 75.739 0.023812 3424700 64.504 0 100.98 200.37 0 248.51 157.56 132.98 139.44 143.56 TRUE FALSE FALSE 71.28882667 0 114.7410285 204.2484511 0 227.3355499 139.8309341 129.5785642 138.4696257 149.7495742 0.476053619 0 0.766219398 1.363933435 0 1.518104817 0.933765154 0.86530172 0.924674587 1 7.22640809 -6.512591625 24.86639679 0.674647276 0.931266912 0.099783024 0.454549359 1094.704973 2646161.693 0.071691159 0.105133273 3.07E-07 6.512591625 0.256619636 SIRDT(ph)PAK ddPTM_HeLa_SAHA_4h_R1 1 SIRDTPAK 8 1 P06748;P06748-3 P06748 NPM1 Nucleophosmin 1 0 SIRDT(1)PAK 98.898 0.012875 161290000 4171.6 2868.9 4155.9 5575.7 5215.5 10018 10152 8408.2 6470 8896.7 TRUE FALSE FALSE 4610.388028 2961.854242 4722.244409 5683.625736 4815.889517 9164.41004 9009.670241 8193.130419 6424.974743 9280.280276 0.49679405 0.319155689 0.508847176 0.612441173 0.518937939 0.98751436 0.970840317 0.882853769 0.692325507 1 13.17995266 -5.244069547 24.00098049 0.6780939 0.949446615 0.391778518 0.181702835 651.4421654 900134.6336 0.036241431 0.092113687 5.70E-06 5.244069547 0.271352715 SIS(ph)ADDDLQESSR ddPTM_HeLa_SAHA_4h_R1 2 SISADDDLQESSR 13 0 P18615;P18615-3;A0A0A0MT02;E9PD43;A0A0A0MSN9;P18615-4;A0A0G2JI50;A2ABK4 P18615 NELFE Negative elongation factor E 1 0 S(0.041)IS(0.959)ADDDLQESSR;S(0.003)IS(0.997)ADDDLQESSR ; 238.88 1.30E-31 178316200 1750.9 1965.61 1840.05 970.96 1831.25 2543.07 2447.23 1422.67 1298.54 1976.96 TRUE FALSE FALSE 1935.067695 2029.297054 2090.802431 989.7543348 1690.940021 2326.386129 2171.86124 1386.280161 1289.503354 2062.196421 0.938352756 0.984046444 1.013871623 0.479951534 0.819970398 1.128110837 1.053178649 0.672234782 0.625305786 1 11.00996604 SIS(ph)CGPSSR ddPTM_HeLa_SAHA_4h_R1 2 SISCGPSSR 9 0 Q5VU43-13;Q5VU43-2 Q5VU43-13 1 0 S(0.036)IS(0.838)CGPS(0.126)SR;S(0.154)IS(0.846)CGPSSR ; 150.15 0.00042675 49611000 3189.9 3804.6 3632.4 2392.14 3962.1 6268.6 3909.1 2483 2471.9 3909.2 TRUE FALSE FALSE 3525.428318 3927.871536 4127.404555 2438.443329 3658.524754 5734.480014 3469.23778 2419.488455 2454.697847 4077.744743 0.864553458 0.963246055 1.012178254 0.597988222 0.897193175 1.406287145 0.85077365 0.59333985 0.601974376 1 11.99355575 -9.492685814 1.17884259 1.001141995 0.904639292 0 0.248421188 1.987718546 4.847409739 0.159135401 0.036869996 3.22E-10 9.492685814 -0.096502703 SIS(ph)LGDSEGPIVATLAQPLR ddPTM_HeLa_SAHA_4h_R1 2 SISLGDSEGPIVATLAQPLR 20 0 O43379;O43379-4 O43379 WDR62 WD repeat-containing protein 62 1 0 SIS(0.701)LGDS(0.299)EGPIVATLAQPLR;S(0.145)IS(0.855)LGDSEGPIVATLAQPLR ; 233.79 4.38E-33 220528000 444.1 610.31 412.59 543.54 727.08 791.61 772.41 587.26 562.53 517.92 TRUE FALSE FALSE 490.8124756 630.0844444 468.8156165 554.0610027 671.3712875 724.1603745 685.4963939 572.2387395 558.6153079 540.2500658 0.908491283 1.166282957 0.867775214 1.025563971 1.242704684 1.340417004 1.268850181 1.059210865 1.033993965 1 9.077483533 -5.825528356 4.320904577 0.968048579 1.239816954 0.539541748 0.101214491 0.102326177 3.786136691 0.014411108 0.027280515 1.49E-06 5.825528356 0.271768375 SIS(ph)LTRPGSSSLSSGPNSILCR ddPTM_HeLa_SAHA_4h_R1 2 SISLTRPGSSSLSSGPNSILCR 22 1 A0A087WZ32;A0A087X038;A8K727;Q9HB19 A0A087WZ32 PLEKHA2 Pleckstrin homology domain-containing family A member 2 1 0 S(0.184)IS(0.506)LT(0.184)RPGS(0.078)S(0.034)S(0.01)LS(0.001)S(0.001)GPNS(0.002)ILCR;S(0.16)IS(0.67)LT(0.16)RPGS(0.007)S(0.002)S(0.001)LSSGPNSILCR ; 74.287 0.0012395 36711000 1283.41 1409.18 1658.63 1373.87 1570.93 1393.78 1526.56 1164.4 1004.01 1169.6 TRUE FALSE FALSE 1418.404952 1454.838357 1884.659459 1400.46324 1450.565683 1275.022103 1354.787451 1134.616334 997.0230127 1220.02718 1.162601109 1.19246389 1.54476842 1.147895115 1.188961776 1.045076801 1.110456778 0.92999267 0.817213771 1 10.25269757 -2.750985449 14.60399169 1.119301392 0.529663275 0 0.184617182 0 0 0.02229673 0 0.001774249 2.750985449 -0.589638117 SIS(ph)NEGLTLNNSHVSK ddPTM_HeLa_SAHA_4h_R1 2 SISNEGLTLNNSHVSK 16 0 Q08AD1-2;Q08AD1-3;Q08AD1 Q08AD1-2 CAMSAP2 Calmodulin-regulated spectrin-associated protein 2 1 0 SIS(1)NEGLTLNNSHVSK;S(0.006)IS(0.994)NEGLTLNNSHVSK ; 183.88 2.82E-10 14971700 916.62 1144.36 796.96 1001.62 1661.7 2097.23 1500.18 1167.37 763.78 1398.19 TRUE FALSE FALSE 1013.034297 1181.438015 905.5655584 1021.007803 1534.380905 1918.534205 1331.375798 1137.510366 758.4647928 1458.472813 0.694585657 0.810051448 0.620899855 0.700052681 1.052046285 1.315440499 0.912856096 0.779932512 0.520040405 1 10.51024278 -5.744159635 24.95538115 0.819302188 1.029223122 0.297401235 0.186965628 288.850653 417155.376 0.027599726 0.055094346 1.80E-06 5.744159635 0.209920935 SIS(ph)PEVSASRR ddPTM_HeLa_SAHA_4h_R1 2 SISPEVSASRR 11 1 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 S(0.009)IS(0.991)PEVSASRR;S(0.033)IS(0.967)PEVSASRR ; 116.98 0.0012885 13498800 1392.03 1124.1 1435.88 1428.68 1417.12 1341.96 1780.79 1415.36 985.75 1346.51 TRUE FALSE FALSE 1538.450102 1160.521578 1631.554249 1456.334167 1308.540572 1227.617458 1580.410822 1379.157141 978.8900855 1404.564636 1.095321684 0.826250034 1.161608521 1.036858063 0.931634286 0.874019911 1.125196223 0.981910768 0.69693488 1 10.4559073 -5.828502043 18.57746189 1.037038924 0.981250674 0 0.146652676 12.87801417 3565.361046 0.014513738 0.026308699 1.48E-06 5.828502043 -0.05578825 SIS(ph)PEWK ddPTM_HeLa_SAHA_4h_R1 1 SISPEWK 7 0 F5H6E2;O00159-2;O00159-3;O00159 F5H6E2 MYO1C Unconventional myosin-Ic 1 0 S(0.007)IS(0.993)PEWK 104.06 0.011224 12773000 3537.3 3819.9 3535.8 3351.4 4110.3 4022.8 4286.3 3829.4 4127.5 3744.2 TRUE FALSE FALSE 3909.369444 3943.667266 4017.64041 3416.271193 3795.369702 3680.034808 3803.994243 3731.449493 4098.776391 3905.630786 1.000957248 1.009738883 1.02867901 0.874704083 0.971768687 0.942238273 0.97397692 0.95540252 1.049453114 1 11.93133986 -6.302315027 24.99999329 1.003232342 0.946791874 0.570973846 0.030815997 286.4380454 175188.1827 0.003880068 0.00592695 4.99E-07 6.302315027 -0.056440468 SIS(ph)TSGPLDKEDTGR ddPTM_HeLa_SAHA_4h_R1 1 SISTSGPLDKEDTGR 15 1 A0A0U1RR27;Q7Z401;Q7Z401-2 A0A0U1RR27 DENND4A C-myc promoter-binding protein 1 0 S(0.403)IS(0.589)T(0.006)S(0.002)GPLDKEDTGR 118.52 0.0039976 9911800 1184.5 1038 1112.4 1096.5 1007.3 1451 957.55 1288.8 779.79 941.46 TRUE FALSE FALSE 1309.091145 1071.631881 1263.992079 1117.724343 930.1208916 1327.366637 849.8039539 1255.834362 774.3633779 982.050948 1.333017546 1.091218214 1.2870942 1.138153112 0.947120812 1.351627061 0.865335913 1.278787383 0.788516502 1 9.939654062 -5.995547811 24.91284123 1.166211278 1.101928175 0 0.197967279 439.1430148 2457249.379 0.02523932 0.045630557 1.01E-06 5.995547811 -0.064283104 SIS(ph)VDLAESKR ddPTM_HeLa_SAHA_4h_R1 2 SISVDLAESKR 11 1 Q9H410-4;Q9H410;Q5JW53;Q5JW54;Q9H410-3;Q9H410-2;Q5JW57 Q9H410-4 DSN1 Kinetochore-associated protein DSN1 homolog 1 0 S(0.016)IS(0.984)VDLAESKR;S(0.029)IS(0.971)VDLAESKR ; 72.681 0.016991 6798200 3790.7 5807.6 3762.2 3629 5215.6 6202.9 6516.2 4380.6 4657.2 5509.5 TRUE FALSE FALSE 4189.423218 5995.770051 4274.893023 3699.244543 4815.981855 5674.378023 5782.980026 4268.550595 4624.790166 5747.041508 0.728970412 1.043279406 0.743842378 0.643678062 0.837993226 0.987356367 1.006253395 0.742738779 0.804725381 1 12.48860375 -9.605460479 1.401850104 1.000119094 0.831959532 0 0.140038817 0.598043063 2.106778541 0.094185554 0.021650225 2.48E-10 9.605460479 -0.168159562 SIS(ph)VGENLGLVAEPQAHAPIR ddPTM_HeLa_SAHA_4h_R1 1 SISVGENLGLVAEPQAHAPIR 21 0 O60336-3;O60336-6;O60336;O60336-4 O60336-3 MAPKBP1 Mitogen-activated protein kinase-binding protein 1 1 0 S(0.155)IS(0.845)VGENLGLVAEPQAHAPIR 140.81 5.50E-06 10811000 750.31 993.97 675.76 871.73 962.42 1048.4 1088.9 902.82 813.17 860.57 TRUE FALSE FALSE 829.2310483 1026.17528 767.8490536 888.6035947 888.6795875 959.0704219 966.3741062 879.7271717 807.5110838 897.6733842 0.923755859 1.143149945 0.855376874 0.989896337 0.989980992 1.068395742 1.076531981 0.980008082 0.899560016 1 9.81004681 -5.437171366 3.882131095 0.971096162 1.044758797 0.15508081 0.075747703 0.313101524 8.707628941 0.010097224 0.023340841 3.65E-06 5.437171366 0.073662634 SISASKAS(ph)PPGDLQNPK ddPTM_HeLa_SAHA_4h_R1 4 SISASKASPPGDLQNPK 17 1 O00273 O00273 DFFA DNA fragmentation factor subunit alpha 1 0 SISAS(0.001)KAS(0.999)PPGDLQNPK;SISAS(0.009)KAS(0.991)PPGDLQNPK;SIS(0.041)AS(0.363)KAS(0.596)PPGDLQNPK;SIS(0.012)AS(0.37)KAS(0.618)PPGDLQNPK ;;; 126.29 0.00018977 168353000 24008 24597.4 20675 24407.8 25612.7 29214.3 27058.1 25847.7 28791.6 25288.9 TRUE FALSE FALSE 26533.27159 25394.3719 23492.48133 24880.24826 23650.26046 26725.07728 24013.45137 25186.55326 28591.23691 26379.22824 1.00583957 0.96266546 0.890567424 0.943175746 0.896548612 1.013110658 0.910316676 0.954787344 1.083854184 1 14.68711474 -7.091953652 4.110530391 1.002587164 0.935225727 0.476593264 0.041638195 0.138063961 4.193548639 0.005072024 0.006311264 8.09E-08 7.091953652 -0.067361437 SISLYYTGEK ddPTM_HeLa_SAHA_4h_R1 2 SISLYYTGEK 10 0 P19338;H7BY16 P19338 NCL Nucleolin 0 0 ; ; 205.09 3.88E-25 44167000 7736.2 8697.8 9250 9468.7 10023.3 8878.4 11029.2 7546.5 6297.7 7100 FALSE FALSE TRUE 8549.929011 8979.614427 10510.54183 9651.98038 9255.316919 8121.910371 9788.165389 7353.471457 6253.873793 7406.115747 1.154441721 1.212459369 1.419170614 1.303244604 1.249685697 1.096649127 1.321632786 0.992891781 0.844420207 1 12.85450138 -8.200409004 0.902553795 1.023924233 1.233185339 0.426824941 0.127083176 0.387235444 0.669578833 0.036702498 0.024763924 6.30E-09 8.200409004 0.209261106 SISS(ph)SNPDLAVAPGSVDDEVSR ddPTM_HeLa_SAHA_4h_R1 1 SISSSNPDLAVAPGSVDDEVSR 22 0 K7EKT0;K7EP20;K7ESB7;Q96HP0 K7EKT0 DOCK6 Dedicator of cytokinesis protein 6 1 0 SIS(0.044)S(0.478)S(0.478)NPDLAVAPGSVDDEVSR 359.27 1.17E-172 11595000 479.39 263.66 356.82 418.21 426.12 319.44 412.89 491.03 331.35 331.52 TRUE FALSE FALSE 529.8144397 272.202757 405.4455714 426.3050593 393.4707777 292.2219149 366.4305305 478.4701636 329.0441084 345.8134496 1.532081648 0.787137566 1.172440146 1.232760206 1.137812246 0.845027616 1.059619083 1.383607735 0.95150755 1 8.43385017 -7.2658689 24.97876221 1.251260767 1.088572047 0 0.223641238 744.9645472 4200964.153 0.042348724 0.049312322 5.42E-08 7.2658689 -0.16268872 SISSPS(ph)VSSETMDKPVDLSTR ddPTM_HeLa_SAHA_4h_R1 1 SISSPSVSSETMDKPVDLSTR 21 1 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 1 0 S(0.074)IS(0.072)S(0.065)PS(0.354)VS(0.333)S(0.08)ET(0.02)MDKPVDLSTR 49.089 0.021134 19806000 1510.9 1506.7 1500.6 2199.6 2072.8 1711.1 1726.8 1943.3 2316.1 1688.4 TRUE FALSE FALSE 1669.823394 1555.518069 1705.093953 2242.176439 1913.982512 1565.304654 1532.495919 1893.5932 2299.982072 1761.195187 0.94811944 0.883217306 0.968145931 1.273099345 1.086752068 0.888774092 0.870145416 1.075175094 1.305921166 1 10.78233909 SISSS(ph)NPDLAVAPGSVDDEVSR ddPTM_HeLa_SAHA_4h_R1 1 SISSSNPDLAVAPGSVDDEVSR 22 0 K7EKT0;K7EP20;K7ESB7;Q96HP0 K7EKT0 DOCK6 Dedicator of cytokinesis protein 6 1 0 SISS(0.002)S(0.998)NPDLAVAPGSVDDEVSR 345.81 7.64E-152 10682000 1064.3 926.12 754.9 848.33 1052.8 896.77 982.86 993.31 803.23 906.14 TRUE FALSE FALSE 1176.247957 956.1268956 857.7738406 864.7506539 972.1346914 820.3601509 872.2660061 967.9025685 797.640257 945.2081299 1.244432755 1.011551705 0.907497316 0.914878561 1.028487442 0.867914827 0.922829564 1.024009991 0.843877906 1 9.884488228 -7.014177008 13.21521399 1.116091626 0.943740902 0 0.112253129 1.096521362 1021.568307 0.01631461 0.020511747 9.68E-08 7.014177008 -0.172350724 SIT(ph)SPPSTSTTK ddPTM_HeLa_SAHA_4h_R1 1 SITSPPSTSTTK 12 0 C9JWJ8;K7EN08;Q14938-6;Q14938-5;Q14938-3;Q14938-2;Q14938-4;Q14938 C9JWJ8 NFIX Nuclear factor 1;Nuclear factor 1 X-type 1 0 S(0.012)IT(0.799)S(0.184)PPS(0.003)T(0.001)STTK 110.98 0.0016939 0 1762.9 1630.3 1426.5 1775.9 1761.5 1833.7 1998.8 1685.5 1855.6 1778.3 TRUE FALSE FALSE 1948.32991 1683.12279 1620.895991 1810.275112 1626.534251 1677.458444 1773.889763 1642.387351 1842.686729 1854.971216 1.050328918 0.907357901 0.873811937 0.975904692 0.876851477 0.904304298 0.956289644 0.885397755 0.993377532 1 10.85718108 -7.254678497 24.97406007 1.023766434 0.912573657 0.653106748 0.034246846 208.9926121 771998.9154 0.005639077 0.006823452 5.56E-08 7.254678497 -0.111192777 SITST(ph)PLSGK ddPTM_HeLa_SAHA_4h_R1 3 SITSTPLSGK 10 0 Q9P0K7-3;Q9P0K7;Q9P0K7-2;Q9P0K7-4 Q9P0K7-3 RAI14 Ankycorbin 1 0 SIT(0.005)S(0.419)T(0.576)PLSGK;SIT(0.015)S(0.364)T(0.619)PLS(0.001)GK;SIT(0.016)S(0.038)T(0.943)PLS(0.002)GK ;; 181.31 3.58E-05 61655000 10661 11437.7 10617.1 12378.7 13567.4 11682.8 14111.1 15784.1 12118.3 10867.2 TRUE FALSE FALSE 11782.37289 11808.28898 12063.9431 12618.30764 12527.86874 10687.35971 12523.28189 15380.36558 12033.96776 11335.73817 1.039400585 1.041686814 1.064239744 1.113143886 1.105165676 0.942802273 1.10476104 1.356803178 1.061595423 1 13.46859072 -4.302764555 3.352642541 1.032503805 1.385856478 0.782246423 0.048450675 0.090168704 1.683879812 0.006932852 0.076479617 4.98E-05 4.302764555 0.353352673 SITSTPLS(ph)GK ddPTM_HeLa_SAHA_4h_R1 2 SITSTPLSGK 10 0 Q9P0K7-3;Q9P0K7;Q9P0K7-2;Q9P0K7-4 Q9P0K7-3 RAI14 Ankycorbin 1 0 S(0.001)IT(0.008)S(0.002)T(0.013)PLS(0.976)GK;SITS(0.001)T(0.026)PLS(0.974)GK ; 116.24 0.0037399 10141400 4736.2 5938.1 4773.4 5649.5 7013.2 7468.6 7902.5 6802.8 6557.2 6008.3 TRUE FALSE FALSE 5234.375246 6130.498336 5423.894093 5758.854242 6475.850131 6832.233263 7013.289902 6628.794226 6511.567911 6267.347217 0.835181946 0.978164784 0.865421031 0.918866315 1.033268129 1.090131602 1.119020482 1.057671451 1.038967156 1 12.61363921 -5.61905088 3.020598959 0.919848372 1.090078153 0.548164714 0.060188306 0.137123253 2.50781831 0.00966011 0.020978147 2.40E-06 5.61905088 0.170229781 SIVECQPDASATPGVGT(ph)ADSPAAPTDSRDDQK ddPTM_HeLa_SAHA_4h_R1 1 SIVECQPDASATPGVGTADSPAAPTDSRDDQK 32 1 Q7Z2Z1-2;Q7Z2Z1 Q7Z2Z1-2 TICRR Treslin 1 0 SIVECQPDAS(0.003)AT(0.009)PGVGT(0.553)ADS(0.432)PAAPT(0.002)DSRDDQK 80.439 1.87E-06 5578300 941.73 875.5 1047.2 1039.2 1059.6 1241.1 1008 1130.9 883.34 946.34 TRUE FALSE FALSE 1040.785482 903.8667744 1189.906962 1059.315219 978.4136769 1135.351298 894.5771871 1101.973216 877.192765 987.1413487 1.05434291 0.915640679 1.205406869 1.073114018 0.99115864 1.150140554 0.906230084 1.116327684 0.88861921 1 9.947112869 -9.412411627 0.486833686 0.986179382 1.052806968 0.115548065 0.096779572 5.443549472 1.594156308 0.179292845 0.022769902 3.87E-10 9.412411627 0.066627586 SIVECQPDASATPGVGTADS(ph)PAAPTDSRDDQK ddPTM_HeLa_SAHA_4h_R1 1 SIVECQPDASATPGVGTADSPAAPTDSRDDQK 32 1 Q7Z2Z1-2;Q7Z2Z1 Q7Z2Z1-2 TICRR Treslin 1 0 SIVECQPDASATPGVGT(0.036)ADS(0.964)PAAPTDSRDDQK 133.44 1.56E-14 6733300 250.04 244.74 268.31 240.14 221.17 240.61 294.66 220.15 165.62 195.76 TRUE FALSE FALSE 276.3403544 252.6697366 304.8738895 244.7882569 204.2240024 220.1086744 261.5040813 214.5188818 164.4674369 204.2001716 1.353281695 1.237362998 1.493014854 1.198766167 1.000116703 1.077906412 1.280626158 1.050532328 0.805422619 1 7.673840269 -4.227193685 21.21864101 1.187160279 1.050530298 0.012708677 0.189791612 4980.914252 3085758.849 0.024464107 3.837598704 5.93E-05 4.227193685 -0.136629981 SIVEGIIEEEEEDEEGSESISKR ddPTM_HeLa_SAHA_4h_R1 1 SIVEGIIEEEEEDEEGSESISKR 23 1 Q9Y570;Q9Y570-4;Q9Y570-2 Q9Y570 PPME1 Protein phosphatase methylesterase 1 0 0 241.51 2.28E-47 4509900 663.05 1552.8 888.66 1246 1292.8 1306 1317.9 921.64 1041.7 897.57 FALSE FALSE TRUE 732.7926412 1603.111739 1009.761957 1270.118132 1193.745943 1194.721453 1169.606423 898.0657833 1034.450725 936.2686353 0.782673491 1.712234799 1.078495977 1.356574474 1.275003667 1.276045579 1.249220981 0.959196698 1.104865298 1 9.870778719 -7.311092268 24.99996069 0.897373556 1.267526054 0.318606046 0.200922865 234.4707759 118054.2378 0.031466815 0.035983697 4.89E-08 7.311092268 0.370152499 SIYDDISS(ph)PGLGSTPLTSR ddPTM_HeLa_SAHA_4h_R1 1 SIYDDISSPGLGSTPLTSR 19 0 Q8NFH5-2;Q8NFH5;C9IYQ7;F8WCF5;F8WEL4 Q8NFH5-2 NUP35 Nucleoporin NUP53 1 0 SIYDDIS(0.105)S(0.712)PGLGS(0.003)T(0.003)PLT(0.088)S(0.088)R 73.597 0.0068741 0 924.18 774.44 679.47 1223.9 1028.1 1361.8 1139.1 1452.5 1012.7 934.26 TRUE FALSE FALSE 1021.389493 799.5323641 772.0646331 1247.590354 949.3272001 1245.766979 1010.92547 1415.347153 1005.652538 974.5405208 1.048072882 0.820419826 0.792234511 1.280183151 0.974127991 1.27831214 1.037335491 1.452322528 1.031924806 1 9.928578363 -1 0.572674587 1.002158162 22.0806073 0.445196393 0.147143877 97.22121485 0.757457736 0.025282403 2551.275372 0.1 1 21.07844913 SIYDDISSPGLGS(ph)TPLTSR ddPTM_HeLa_SAHA_4h_R1 2 SIYDDISSPGLGSTPLTSR 19 0 Q8NFH5-2;Q8NFH5;C9IYQ7;F8WCF5;F8WEL4 Q8NFH5-2 NUP35 Nucleoporin NUP53 1 0 SIYDDISSPGLGS(0.648)T(0.352)PLTSR;SIYDDIS(0.005)S(0.046)PGLGS(0.939)T(0.01)PLTSR ; 305.55 1.25E-163 14677000 5139.4 4830.5 3943 4258.3 4352.8 4077.3 4177.1 4325.7 5196.9 4762.7 TRUE FALSE FALSE 5679.985672 4987.011369 4480.331506 4340.725554 4019.289404 3729.891102 3707.081714 4215.054858 5160.73435 4968.043305 1.14330438 1.003818015 0.901830204 0.873729412 0.809028657 0.750776689 0.746185467 0.848433598 1.038786104 1 12.27846203 -6.492424843 1.40862831 1.067601006 0.786816146 0.854107664 0.047622214 0.127229505 0.503205278 0.010883546 0.018324745 3.22E-07 6.492424843 -0.280784861 SIYFSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SIYFSSPK 8 0 A2IDA3;P29372-5;P29372-4;P29372-2;P29372 A2IDA3 MPG DNA-3-methyladenine glycosylase 1 0 SIYFS(0.015)S(0.985)PK 122.28 0.0032203 10559000 3713.5 4064.1 3350 3739.7 4554.4 5199.8 4558.2 3865.7 3594.8 3669.1 TRUE FALSE FALSE 4104.102968 4195.779507 3806.520554 3812.087301 4205.442856 4756.747787 4045.299339 3766.820991 3569.783494 3827.292857 1.072325302 1.096278666 0.994572586 0.996027073 1.098803518 1.242849179 1.056961014 0.984199833 0.932717622 1 11.90210858 -5.684628706 8.855400344 1.034472387 1.103827415 0.18981036 0.074642258 0.39890159 41.87251936 0.010214373 0.020444617 2.07E-06 5.684628706 0.069355028 SIYGEKFEDENFILK ddPTM_HeLa_SAHA_4h_R1 2 SIYGEKFEDENFILK 15 1 P62937;F8WE65;C9J5S7;P62937-2 P62937 PPIA "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed;Peptidyl-prolyl cis-trans isomerase" 0 0 ; ; 158.93 2.78E-07 12895000 4648.9 4330.15 5844 5921.6 6310.1 6339.9 6725.4 4676.7 5612.2 5699.1 FALSE FALSE TRUE 5137.892632 4470.449701 6640.389886 6036.221131 5826.621501 5799.704853 5968.640292 4557.076786 5573.144243 5944.816092 0.864264353 0.751991253 1.117005099 1.015375587 0.980118041 0.97559029 1.004007559 0.766563122 0.937479673 1 12.53741646 -4.914244921 0.003074737 1.864628896 6.74E-08 0.008179402 0.108521276 441552.021 269.3172335 80250.4842 83089.3259 1.22E-05 4.914244921 -1.864628829 SIYYITGESK ddPTM_HeLa_SAHA_4h_R1 2 SIYYITGESK 10 0 P08238;Q58FF8 P08238;Q58FF8 HSP90AB1;HSP90AB2P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta 2 0 0 ; ; 177.06 2.37E-16 7473100 6961.7 7470.6 7549.7 6321.8 8039.8 8503.5 8400.3 6353.9 7062.7 7308.8 FALSE FALSE TRUE 7693.963547 7712.652342 8578.533799 6444.16758 7423.792261 7778.953961 7455.076136 6191.376438 7013.550096 7623.918136 1.009187587 1.011638924 1.125213262 0.84525666 0.973750259 1.020335452 0.977853645 0.812099019 0.919940373 1 12.89631691 -6.251941762 24.9997651 1.013353911 0.936656922 0.250263095 0.07441848 763.7319287 2010305.422 0.00998962 0.016415063 5.60E-07 6.251941762 -0.076696989 SK(ac)AGVTPESK(ac)APPPLPAATPDPQTPRPGDR ddPTM_HeLa_SAHA_4h_R1 1 SKAGVTPESKAPPPLPAATPDPQTPRPGDR 30 3 H3BS19;Q96JG9 H3BS19 ZNF469 Zinc finger protein 469 0 2 SK(1)AGVTPESK(1)APPPLPAATPDPQTPRPGDR 56.021 0.0049198 953890 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 SK(ac)IPNEHK(ac)KPAEVFR ddPTM_HeLa_SAHA_4h_R1 2 SKIPNEHKKPAEVFR 15 3 Q92613;F2Z2B6;F2Z3N8 Q92613 JADE3 Protein Jade-3 0 2 ; SK(1)IPNEHK(0.885)K(0.115)PAEVFR;SK(1)IPNEHK(0.971)K(0.029)PAEVFR 86.498 0.0047089 9008400 2283.3 2898.5 2183.6 3898.4 4237.3 4876.5 3983.2 4361.6 2577 2348.7 FALSE TRUE FALSE 2523.46797 2992.413302 2481.169636 3973.859169 3912.638989 4460.994766 3534.999853 4250.036588 2559.066447 2449.963951 1.030002082 1.221411156 1.012737202 1.6220072 1.597019004 1.820840981 1.442878313 1.734734336 1.044532286 1 11.25854481 -6.255797236 9.929877895 1.033218058 1.639835384 0.875450216 0.109447615 0.039865113 57.9937513 0.015791175 0.025393262 5.55E-07 6.255797236 0.606617326 SK(ac)QPLQVTK ddPTM_HeLa_SAHA_4h_R1 1 SKQPLQVTK 9 1 F8W126;Q96EZ8-3;Q96EZ8;Q96EZ8-2;F8W0I9;F8VVA6;F8VP44 F8W126 MCRS1 Microspherule protein 1 0 1 SK(1)QPLQVTK 107.55 0.0055083 1478100 725.87 869.09 824.46 1118.4 1315 1401.6 1366.8 1468.4 673.91 846.77 FALSE TRUE FALSE 802.220337 897.2490862 936.8131152 1140.048249 1214.244984 1282.175795 1213.004067 1430.840454 669.2202054 883.2783987 0.908230449 1.015816856 1.060609109 1.290700928 1.374702456 1.451610044 1.373297557 1.619920125 0.757654898 1 9.786724419 -6.110317139 1.17555446 0.955403498 1.478981048 0.886963678 0.08769815 0.081015352 0.221033509 0.010635545 0.023240703 7.76E-07 6.110317139 0.52357755 SKDHFGLEGDEESTMLEDSVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 5 SKDHFGLEGDEESTMLEDSVSPK 23 1 Q9Y490 Q9Y490 TLN1 Talin-1 1 0 SKDHFGLEGDEESTMLEDS(0.153)VS(0.846)PK;SKDHFGLEGDEESTMLEDS(0.054)VS(0.946)PK;SKDHFGLEGDEESTMLEDS(0.257)VS(0.743)PK;SKDHFGLEGDEESTMLEDS(0.043)VS(0.956)PK;SKDHFGLEGDEESTMLEDS(0.063)VS(0.937)PK ;;;; 139.79 1.17E-06 86016800 6244.25 9510.3 5137.96 8808.22 11908 17760.4 9543.75 10240.5 9913.8 9916.6 TRUE FALSE FALSE 6901.048865 9818.43996 5838.134431 8978.715835 10995.61161 16247.114 8469.862132 9978.562838 9844.809059 10344.15316 0.667144885 0.949177744 0.56438979 0.86799912 1.062978423 1.570656752 0.818806721 0.964657298 0.951726923 1 13.33652792 -5.748965747 4.621143397 0.8254748 1.121430329 0.272616985 0.217883115 0.202800221 10.68427449 0.033479084 0.065938161 1.78E-06 5.748965747 0.295955529 SKDIVLVAYSALGSQR ddPTM_HeLa_SAHA_4h_R1 2 SKDIVLVAYSALGSQR 16 1 A0A0A0MSS8;P42330;S4R3Z2;P42330-2;A0A3B3IRI8 A0A0A0MSS8 AKR1C3 Aldo-keto reductase family 1 member C3 0 0 ; ; 140.68 1.14E-05 5088500 3503.51 4150.8 5051.17 5443.8 5639.7 5427.7 6249.8 3101.83 4413.3 5686.5 FALSE FALSE TRUE 3872.025256 4285.288643 5739.517142 5549.172621 5207.587404 4965.229425 5546.556055 3022.48968 4382.587486 5931.672844 0.652771209 0.72244184 0.967605142 0.935515624 0.877928966 0.837070681 0.935074506 0.509550975 0.738845112 1 12.53422331 -9.64283352 1.495007892 0.999268765 0.794385697 0 0.157484027 0.4986991 2.015204245 0.099936791 0.023008902 2.28E-10 9.64283352 -0.204883068 SKDYDVYS(ph)DNDICSQESEDNFAK ddPTM_HeLa_SAHA_4h_R1 4 SKDYDVYSDNDICSQESEDNFAK 23 1 A0A0C4DGZ1;Q8N5P1 A0A0C4DGZ1 ZC3H8 Zinc finger CCCH domain-containing protein 8 1 0 SKDYDVY(0.016)S(0.983)DNDICSQESEDNFAK;SKDY(0.002)DVY(0.085)S(0.895)DNDICS(0.017)QESEDNFAK;SKDYDVY(0.026)S(0.973)DNDICSQESEDNFAK;SKDY(0.002)DVY(0.117)S(0.814)DNDICS(0.067)QESEDNFAK ;;; 145.44 1.20E-06 107536000 8777.2 8925 8070.3 8669.7 9264.4 8977 9882.9 9094.5 8630.8 8825.3 TRUE FALSE FALSE 9700.426167 9214.175856 9170.078456 8837.51458 8554.563673 8212.109097 8770.850082 8861.875859 8570.73756 9205.801873 1.053729626 1.000909642 0.996119467 0.959994002 0.929257852 0.892057988 0.952752428 0.962640298 0.931014775 1 13.16832768 -6.329860189 1.637216097 1.024580753 0.932838833 0.289267275 0.03694871 0.153600004 0.806319564 0.004494519 0.007913989 4.68E-07 6.329860189 -0.09174192 SKEFVS(ph)SDESSSGENK ddPTM_HeLa_SAHA_4h_R1 1 SKEFVSSDESSSGENK 16 1 Q08945 Q08945 SSRP1 FACT complex subunit SSRP1 1 0 S(0.033)KEFVS(0.727)S(0.21)DES(0.018)S(0.006)S(0.007)GENK 69.765 0.014352 5529100 1749.4 1602.1 1512.3 1541.3 1551.4 1999.3 1638.5 1903 1890.4 1712.7 TRUE FALSE FALSE 1933.409919 1654.009091 1718.388368 1571.13409 1432.532067 1828.948392 1454.131668 1854.324016 1877.244552 1786.542879 1.082207397 0.925815501 0.961851176 0.879427026 0.801845891 1.023736074 0.813936058 1.037939832 1.05076938 1 10.80295483 -7.195593979 6.869081657 1.038754059 0.915468163 0.358510037 0.075505101 0.195055579 17.31739741 0.012023845 0.014728552 6.37E-08 7.195593979 -0.123285895 SKEFVSS(ph)DESSSGENK ddPTM_HeLa_SAHA_4h_R1 1 SKEFVSSDESSSGENK 16 1 Q08945 Q08945 SSRP1 FACT complex subunit SSRP1 1 0 SKEFVS(0.161)S(0.622)DES(0.216)SSGENK 186.75 6.94E-11 8889000 2697.1 2276.8 2442.5 2157.4 2423.1 2667.2 2743 2422.1 2029.5 2731.5 TRUE FALSE FALSE 2980.793353 2350.569814 2775.35118 2199.159597 2237.442601 2439.939555 2434.350421 2360.146189 2015.376544 2849.268333 1.046160981 0.82497313 0.974057497 0.771833095 0.785269178 0.856338986 0.854377383 0.828334124 0.707331255 1 11.47637578 -7.260275807 24.99883059 1.021798243 0.843362547 0 0.11242082 40.64733861 873292.1277 0.008932505 0.010620524 5.49E-08 7.260275807 -0.178435695 SKEFVSSDES(ph)SSGENK ddPTM_HeLa_SAHA_4h_R1 1 SKEFVSSDESSSGENK 16 1 Q08945 Q08945 SSRP1 FACT complex subunit SSRP1 1 0 S(0.012)KEFVS(0.219)S(0.305)DES(0.443)S(0.015)S(0.006)GENK 82.034 0.0069138 26298000 2611.2 2364.6 1861.4 2566.1 2362.4 2496.1 2594.2 2460.6 2741.2 2950.3 TRUE FALSE FALSE 2885.857997 2441.214591 2115.061898 2615.770576 2181.393422 2283.418237 2302.293788 2397.661415 2722.123766 3077.501871 0.937727455 0.793245526 0.687265837 0.849965552 0.708819527 0.741971356 0.748104757 0.779093406 0.884523838 1 11.58754402 -7.282626513 2.493487744 0.974777892 0.752689243 0.727913359 0.050698333 0.07335937 0.870588107 0.007513694 0.008832001 5.22E-08 7.282626513 -0.222088649 SKEGDVEEPTDDS(ph)LPTTGDAGGREPMEEK ddPTM_HeLa_SAHA_4h_R1 1 SKEGDVEEPTDDSLPTTGDAGGREPMEEK 29 2 Q9UKN8 Q9UKN8 GTF3C4 General transcription factor 3C polypeptide 4 1 0 SKEGDVEEPT(0.019)DDS(0.759)LPT(0.094)T(0.127)GDAGGREPMEEK 71.794 9.17E-05 12027000 815.96 908.79 1008.4 1427 1130 1598.1 1381.1 1762.5 988.66 770.46 TRUE FALSE FALSE 901.7864166 938.2353923 1145.8195 1454.621648 1043.419644 1461.932889 1225.694993 1717.417802 981.7798346 803.6783011 1.122073864 1.167426557 1.425719095 1.809955111 1.298305109 1.819052334 1.52510649 2.136946835 1.221607991 1 9.65047432 -5.002479217 0.280404061 0.950855441 2.426832566 0.661387145 0.202322327 2.032669978 0.170190959 0.10866808 0.996254639 9.94E-06 5.002479217 1.475977125 SKEGHSLEMENENLVENGADS(ph)DEDDNSFLK ddPTM_HeLa_SAHA_4h_R1 3 SKEGHSLEMENENLVENGADSDEDDNSFLK 30 1 Q9UHB6;F8VQE1;Q9UHB6-2;F8VS07;Q9UHB6-3;Q9UHB6-4;Q9UHB6-5 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 SKEGHSLEMENENLVENGADS(0.933)DEDDNS(0.067)FLK;SKEGHSLEMENENLVENGADS(0.921)DEDDNS(0.079)FLK;SKEGHSLEMENENLVENGADS(0.908)DEDDNS(0.092)FLK ;; 99.219 1.20E-08 21458900 2139.97 3799.9 1788.99 3141.92 4768.5 6474.9 3980.6 3999.36 3644.59 3545.16 TRUE FALSE FALSE 2365.061863 3923.019253 2032.784241 3202.736405 4403.13856 5923.202093 3532.692412 3897.062162 3619.227001 3698.009197 0.639550022 1.060846267 0.549696913 0.866070427 1.190678099 1.601727248 0.955295734 1.053827061 0.978696052 1 11.8525331 -5.772686306 5.394619243 0.822948032 1.21388274 0.387170776 0.215392702 0.133097121 11.53538224 0.03312696 0.063370526 1.69E-06 5.772686306 0.390934708 SKENMAQESSIQEQGVTSNTS(ph)DSESSSK ddPTM_HeLa_SAHA_4h_R1 1 SKENMAQESSIQEQGVTSNTSDSESSSK 28 1 Q92796-3;Q92796-2 Q92796-3 1 0 SKENMAQESSIQEQGVTS(0.004)NT(0.18)S(0.552)DS(0.18)ES(0.059)S(0.02)S(0.004)K 149.96 1.21E-10 7128300 831.24 1541.7 1048.6 1268.1 1255.1 1655.1 1276.5 1328.5 1849.3 1309.6 TRUE FALSE FALSE 918.6736371 1591.652092 1191.497747 1292.645909 1158.934509 1514.076169 1132.86486 1294.518894 1836.430571 1366.063265 0.672497139 1.165137906 0.872212713 0.946256255 0.848375429 1.108349963 0.829291651 0.947627337 1.344323223 1 10.41580858 -7.275166899 24.99106146 0.845345883 0.95216308 0 0.20120696 1419.371091 2583971.665 0.025599614 0.02935534 5.31E-08 7.275166899 0.106817197 SKEQAELEAAR ddPTM_HeLa_SAHA_4h_R1 2 SKEQAELEAAR 11 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 93.839 0.018891 12522500 3279 3821.8 3291.5 4008.5 3604.5 4332.8 4247.1 4137.3 4121.9 3551.3 FALSE FALSE TRUE 3623.900265 3945.628828 3740.048479 4086.090314 3328.323989 3963.621064 3769.20513 4031.473857 4093.215362 3704.413923 0.97826548 1.065115538 1.009619485 1.103032868 0.898475186 1.06997251 1.017490272 1.088289252 1.104956262 1 11.8550296 -7.279935956 24.66064039 0.989736476 1.032868296 0 0.065392798 1010.114113 1346736.602 0.008522219 0.009756104 5.25E-08 7.279935956 0.04313182 SKESVPEFPLS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 9 SKESVPEFPLSPPK 14 1 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 1 0 SKESVPEFPLS(1)PPK;SKESVPEFPLS(1)PPK;SKESVPEFPLS(1)PPK;SKESVPEFPLS(1)PPK;SKESVPEFPLS(1)PPK;S(0.001)KES(0.001)VPEFPLS(0.997)PPK;SKESVPEFPLS(1)PPK;SKESVPEFPLS(1)PPK;SKESVPEFPLS(1)PPK ;;;;;;;; 165.24 3.45E-05 1261109600 30473.05 35846.89 27280.32 33346.69 34606 39126.57 34375.11 31419.47 40056.95 32862.52 TRUE FALSE FALSE 33678.34521 37008.35276 30997.93994 33992.16341 31954.49576 35792.76612 30507.13215 30615.80545 39778.19042 34279.38406 0.982466463 1.079609619 0.904273539 0.991621184 0.932178236 1.044148461 0.889955668 0.893125892 1.160411469 1 15.06505357 -2.433217713 0.569715055 0.993303346 2.53E-11 0.228540165 0.07358999 19.86485554 0.835082363 0.008444584 20.57358906 0.003687927 2.433217713 -0.993303346 SKESVPEFPLS(ph)PPKKK ddPTM_HeLa_SAHA_4h_R1 1 SKESVPEFPLSPPKKK 16 3 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 1 0 SKESVPEFPLS(1)PPKKK 62.035 0.01428 2555200 2484.9 1501.6 2574.7 2455.7 2137.9 1822.1 2351.8 2269.2 1589.9 2255.7 TRUE FALSE FALSE 2746.273183 1550.252825 2925.566708 2503.233625 1974.094564 1666.846829 2087.169274 2211.15715 1578.835756 2352.954266 1.16715961 0.658853785 1.243358934 1.063868372 0.838985522 0.708405961 0.887042007 0.939736561 0.671001464 1 11.20025756 -5.760193195 23.04439342 1.058527708 0.836996906 0 0.197213808 11.33946126 209661.1176 0.022560323 0.043177344 1.74E-06 5.760193195 -0.221530802 SKESVPEFPLSPPK ddPTM_HeLa_SAHA_4h_R1 1 SKESVPEFPLSPPK 14 1 P16949;P16949-2;A2A2D0 P16949 STMN1 Stathmin 0 0 105.46 0.0047529 1160800 1319 1482.9 1020.1 1172 1411.9 1412.5 1448.4 1401.8 1220.6 1333 FALSE FALSE TRUE 1457.738472 1530.946933 1159.113916 1194.685755 1303.720527 1292.147053 1285.42222 1365.943986 1212.105745 1390.472154 1.048376602 1.101026676 0.833611743 0.859194304 0.93760995 0.929286538 0.924450171 0.982359828 0.871722416 1 10.44135914 -6.763230028 24.99999999 1.02934647 0.91136721 0.291190437 0.067967358 25.73994579 359368.4281 0.007929702 0.010725029 1.72E-07 6.763230028 -0.11797926 SKGFGFVCFSSPEEATK ddPTM_HeLa_SAHA_4h_R1 1 SKGFGFVCFSSPEEATK 17 1 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YAR2;Q9H361;H0YB86;B1ANR0;Q13310-2;Q13310;Q13310-3;H0Y5F5;H0YEU6 P11940;B1ANR0 PABPC1;PABPC3;PABPC4 Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 3;Polyadenylate-binding protein 4 0 0 151.73 5.15E-07 1189400 237.8 282.16 274.84 378.65 381.24 266.34 291.95 313.6 243.33 261.86 FALSE FALSE TRUE 262.8128951 291.3021691 312.2937639 385.9793183 352.0294736 243.6463336 259.0990176 305.5785661 241.6366467 273.1500661 0.962155707 1.06645469 1.143304735 1.413066904 1.28877682 0.891987094 0.948559235 1.118720454 0.884629648 1 8.093549962 -7.030254997 3.534274955 0.982472792 1.133507588 0.240261484 0.143386647 0.32117935 8.384053331 0.025699679 0.032789075 9.33E-08 7.030254997 0.151034796 SKGGVVGIK(ac)VDK ddPTM_HeLa_SAHA_4h_R1 1 SKGGVVGIKVDK 12 2 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7;H3BR04;H3BMQ8;H3BU78 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 1 SKGGVVGIK(1)VDK 102.52 0.0097627 0 1585.1 2488.8 1641.1 1884.9 2358.3 2183.4 2845 2488.8 1686 964.48 FALSE TRUE FALSE 1751.828091 2569.438753 1864.740562 1921.384965 2177.607563 1997.362037 2524.873112 2425.1401 1674.266989 1006.063453 1.741269982 2.553952979 1.85350194 1.909804953 2.164483321 1.985324117 2.509655932 2.410524001 1.664176334 1 9.974505584 -8.817524709 0.261350003 0.477075421 2.424699829 0.469501963 0.323066304 1.292044985 0.159935758 0.850910797 0.238237943 1.52E-09 8.817524709 1.947624407 SKGHYEVTGS(ph)DDETGK ddPTM_HeLa_SAHA_4h_R1 2 SKGHYEVTGSDDETGK 16 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 SKGHYEVT(0.002)GS(0.975)DDET(0.023)GK;SKGHYEVT(0.001)GS(0.973)DDET(0.027)GK ; 73.057 0.0076822 14361400 5561.9 10109.9 5356.4 6601.6 12789 27027 8929.5 8812 11527.2 9951.4 TRUE FALSE FALSE 6146.926161 10437.46739 6086.342297 6729.383514 11809.10958 24724.14755 7924.729159 8586.6018 11446.98128 10380.45355 0.592163544 1.005492423 0.586327203 0.648274517 1.137629442 2.381798389 0.763428025 0.827189463 1.102743846 1 13.34158186 -5.543532607 10.6711336 0.794977873 1.349728385 0.207768121 0.44376139 0.426892459 215.8304208 0.062933166 0.126597962 2.86E-06 5.543532607 0.554750512 SKGIAYIEFK ddPTM_HeLa_SAHA_4h_R1 2 SKGIAYIEFK 10 1 P19338;H7BY16 P19338 NCL Nucleolin 0 0 ; ; 121.02 0.0017473 4314100 7803.8 5833.2 12178.8 10949.1 10140.5 4778.1 12420.7 3429.7 1713.39 5963.1 FALSE FALSE TRUE 8624.639489 6022.199507 13838.46344 11161.03566 9363.537081 4370.978999 11023.09015 3341.97324 1701.466379 6220.198424 1.386553756 0.968168392 2.224762378 1.794321483 1.505343792 0.702707326 1.772144455 0.537277593 0.273538923 1 12.60274489 -3.148159399 14.29473714 1.27249362 1.202231314 0 0.593799302 0 0 0.064286927 0 0.000710953 3.148159399 -0.070262306 SKGPS(ph)AAGEQEPDKESGASVDEVAR ddPTM_HeLa_SAHA_4h_R1 1 SKGPSAAGEQEPDKESGASVDEVAR 25 2 G3V1U3;P50579-3;P50579;F8VSC4 G3V1U3 METAP2 Methionine aminopeptidase 2 1 0 S(0.366)KGPS(0.55)AAGEQEPDKES(0.061)GAS(0.023)VDEVAR 61.807 0.0028105 11139000 515.32 461.52 491.09 408.71 713.43 657.43 608.95 472.8 464.49 480.68 TRUE FALSE FALSE 569.523722 476.4735508 558.0131877 416.6211731 658.7671475 601.4132654 540.4293433 460.7064606 461.2575763 501.4044672 1.135856896 0.950277834 1.112900311 0.830908379 1.313843794 1.199457334 1.07783113 0.918831982 0.919931126 1 8.969831039 -5.748376922 24.99994024 1.045642935 1.129084254 0.134963979 0.131025085 466.9323975 893645.6227 0.018307092 0.036430663 1.78E-06 5.748376922 0.08344132 SKGQESFK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 SKGQESFKK 9 2 P06748;P06748-3 P06748 NPM1 Nucleophosmin 0 1 ; SKGQESFK(1)K;SKGQESFK(1)K 115 0.00057148 16620000 4472.5 5224.72 4828.33 7095.04 7127.7 7499 7973.67 7231.52 5298.01 4645.65 FALSE TRUE FALSE 4942.938071 5394.004356 5486.309668 7232.374759 6581.577166 6860.043012 7076.451666 7046.54819 5261.140717 4845.946707 1.020014946 1.113096095 1.132144037 1.492458584 1.358161277 1.415624939 1.460282602 1.45411178 1.085678617 1 12.24256282 -6.474622579 1.880380641 1.013174304 1.436628175 0.912715691 0.055956267 0.05249848 0.368597504 0.007858658 0.012703469 3.35E-07 6.474622579 0.423453871 SKITVTSEVPFSKR ddPTM_HeLa_SAHA_4h_R1 2 SKITVTSEVPFSKR 14 2 K7ERI7;P35268;K7EMH1;K7EP65;K7EKS7;K7ELC4 K7ERI7 RPL22 60S ribosomal protein L22 0 0 ; ; 74.537 0.015282 3554100 2752.9 1489.34 2656.9 2511.07 2473.04 2585.67 3393.2 2658.9 1589.76 2961.1 FALSE FALSE TRUE 3042.462653 1537.595593 3018.968495 2559.675391 2283.556209 2365.356369 3011.388206 2590.889188 1578.696731 3088.767512 0.985008629 0.497802307 0.977402308 0.828704453 0.739309838 0.765792945 0.974948161 0.838810036 0.511108953 1 11.59281557 -7.469952191 24.99992871 0.993386691 0.808474222 0 0.198327454 268.2924156 126728.8796 0.02033932 0.023238554 3.39E-08 7.469952191 -0.184912469 AAVPQK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 AAVPQKK 7 1 A0A1W2PQJ7;Q7Z5J4-3;Q7Z5J4-2;Q7Z5J4;A8MXE8;Q7Z5J4-4 A0A1W2PQJ7 RAI1 Retinoic acid-induced protein 1 0 1 AAVPQK(1)K 83.614 0.016428 3280700 1492.6 1449.8 1679.8 3586.6 5209.2 7064.8 9948.2 9657.4 2084.8 1169.4 FALSE TRUE FALSE 1649.598516 1496.774471 1908.714396 3656.023829 4810.072221 6462.839295 8828.802354 9410.377692 2070.291707 1219.818557 1.352331055 1.227046812 1.564752713 2.997186597 3.943268607 5.298197226 7.237799674 7.714571678 1.697212832 1 10.25245085 -5.215963239 0.738417829 1.112754644 8.69094217 0.986253576 0.283207029 0.062187012 0.04762603 0.039491862 0.300185482 6.08E-06 5.215963239 7.578187526 up SKLTFSCLGGSDNFK ddPTM_HeLa_SAHA_4h_R1 2 SKLTFSCLGGSDNFK 15 1 A0A087WYT3;Q15185-2;Q15185-4;Q15185;Q15185-3 A0A087WYT3 PTGES3 Prostaglandin E synthase 3 0 0 ; ; 145.79 3.86E-05 4155200 4207.7 3585.2 3894 4717.6 4664.5 3523 5339.1 3030.2 3179.3 4423.1 FALSE FALSE TRUE 4650.285192 3701.362832 4424.654041 4808.91597 4307.107018 3222.82058 4738.330416 2952.691872 3157.174992 4613.801487 1.007907515 0.802237123 0.959003991 1.04228931 0.933526731 0.698517392 1.026990526 0.639969422 0.684289301 1 12.17174022 -2.576215425 0.336560265 1.002519229 6.03E-13 0 0.15011018 15.26126271 0.50287746 0.033839956 7.933123064 0.002653289 2.576215425 -1.002519229 SKMDGEATS(ph)PLPR ddPTM_HeLa_SAHA_4h_R1 1 SKMDGEATSPLPR 13 1 Q86UU1-3;Q86UU1-2;Q86UU1;A0A087WZL0 Q86UU1-3 PHLDB1 Pleckstrin homology-like domain family B member 1 1 0 SKMDGEAT(0.024)S(0.976)PLPR 118.51 0.0054174 6248400 2246.6 2275.6 1951.9 2120 2627.4 2321.3 2197.4 2353.9 2125.7 2378.4 TRUE FALSE FALSE 2482.907696 2349.330933 2217.894767 2161.035666 2426.08918 2123.512181 1950.142769 2293.690646 2110.907081 2480.944464 1.000791325 0.946950231 0.893971953 0.871053624 0.977889354 0.855928946 0.786048538 0.924523173 0.85084818 1 11.27667373 -6.941459499 1.920891776 1.001009233 0.880554217 0.0525345 0.066076667 0.170041915 1.25831317 0.007981329 0.010697466 1.14E-07 6.941459499 -0.120455016 SKNILFVITKPDVYK ddPTM_HeLa_SAHA_4h_R1 2 SKNILFVITKPDVYK 15 2 F8VZJ2;F8W0W4;H0YHX9;Q13765;E9PAV3-2;E9PAV3;F8W1N5;F8VNW4;F8VZ58;Q9BZK3 F8VZJ2;Q9BZK3 NACA;NACAP1 "Nascent polypeptide-associated complex subunit alpha;Nascent polypeptide-associated complex subunit alpha, muscle-specific form;Putative nascent polypeptide-associated complex subunit alpha-like protein" 0 0 ; ; 105.99 0.0022637 7591800 4726.7 3807.2 6247.4 5779.7 5837.6 5699.5 6384.4 4189.98 4564.8 6329.6 FALSE FALSE TRUE 5223.875993 3930.555778 7098.763137 5891.574451 5390.324349 5213.870535 5666.010509 4082.806379 4533.033185 6602.500032 0.791196663 0.595313254 1.075162908 0.892324789 0.816406562 0.789681259 0.858161375 0.618372792 0.686563145 1 12.68879669 -9.198285221 0.919129261 1.001278433 0.811518162 0 0.160077866 0.682248991 1.028383013 0.086185512 0.023753442 6.33E-10 9.198285221 -0.189760271 SKPIPIMPAS(ph)PQK ddPTM_HeLa_SAHA_4h_R1 5 SKPIPIMPASPQK 13 1 O00429-4;O00429-5;O00429-3;O00429-9;O00429-2;O00429;O00429-8;O00429-6;O00429-7 O00429-4 DNM1L Dynamin-1-like protein 1 0 SKPIPIMPAS(1)PQK;SKPIPIMPAS(1)PQK;SKPIPIMPAS(1)PQK;SKPIPIMPAS(1)PQK;SKPIPIMPAS(1)PQK ;;;; 117.37 0.0019953 61080000 24877.44 29867.02 20809.81 28264.54 30832.31 34345.66 27474.33 25174.63 41579.22 29016.81 TRUE FALSE FALSE 27494.16328 30834.73104 23645.66253 28811.64104 28469.94507 31419.21654 24382.84608 24530.69942 41289.86682 30267.86668 0.90836145 1.018728256 0.781213383 0.951888726 0.940599659 1.038038685 0.805568702 0.810453531 1.364148562 1 14.88549938 -1.00002594 0.018664851 1.642160909 8.98E-07 0.196297413 0.143362224 3976.694835 5.781622411 193.1501689 333.6600982 0.099994027 1.00002594 -1.642160012 SKPLAAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SKPLAASPK 9 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 SKPLAAS(1)PK 70.54 0.02314 5530800 1556.3 2257.7 1374.8 2166.8 2577 3482.9 3097.6 2828.8 4078.2 3253.1 TRUE FALSE FALSE 1719.998775 2330.850961 1562.150584 2208.741547 2379.550817 3186.137326 2749.049896 2756.443392 4049.819474 3393.357061 0.506872322 0.686886443 0.460355499 0.650901602 0.70123797 0.938933707 0.810126917 0.812305732 1.193455154 1 11.72849753 -5.284174304 23.51099579 0.719615183 0.849422617 0.048462321 0.208009516 776.9275843 803448.0266 0.030166428 0.067513072 5.20E-06 5.284174304 0.129807434 SKPPPTYES(ph)EEEDK ddPTM_HeLa_SAHA_4h_R1 1 SKPPPTYESEEEDK 14 1 O60885;O60885-2;O60885-3 O60885 BRD4 Bromodomain-containing protein 4 1 0 SKPPPT(0.252)YES(0.748)EEEDK 145.69 4.88E-07 0 443.34 478.33 239.06 475.69 494.63 433.54 546.87 292.03 642.01 371.9 TRUE FALSE FALSE 489.9725353 493.8282058 271.6378518 484.8976678 456.7315563 396.599953 485.3347483 284.5602955 637.5422001 387.934429 1.263029261 1.272968236 0.700215891 1.249947495 1.177342154 1.0223376 1.251074182 0.733526787 1.643427735 1 8.59966901 -4.248607991 23.99760059 1.119649911 0.733526352 0.209996333 0.235732107 1134.313918 2121357.595 0.023372684 0.547962764 5.64E-05 4.248607991 -0.386123559 SKS(ph)ATTTPSGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SKSATTTPSGSPR 13 1 Q2M2I8-2;Q2M2I8;A0A096LP60;A0A096LNZ0;A0A096LP25 Q2M2I8-2;A0A096LNZ0 AAK1 AP2-associated protein kinase 1 2 0 S(0.057)KS(0.705)AT(0.144)T(0.065)T(0.029)PSGS(1)PR 120.59 0.015645 1962300 1241.8 1510.9 1114.7 1073.1 1311.6 1850.6 1267.7 1134.5 1363.5 1255.4 TRUE FALSE FALSE 1372.418222 1559.854151 1266.605511 1093.871402 1211.105491 1692.918469 1125.05506 1105.481133 1354.011292 1309.526438 1.048026357 1.191158961 0.967224085 0.835318303 0.924842337 1.292771509 0.85913123 0.844183898 1.033970185 1 10.35482947 -6.557181534 24.9992852 1.038007958 0.957401233 0.136255211 0.132638309 382.0363843 278420.235 0.021063616 0.029788538 2.77E-07 6.557181534 -0.080606725 SKS(ph)DSYTLDPDTLR ddPTM_HeLa_SAHA_4h_R1 1 SKSDSYTLDPDTLR 14 1 A0A499FJI4;O75592-2;O75592 A0A499FJI4 MYCBP2 E3 ubiquitin-protein ligase MYCBP2 1 0 S(0.089)KS(0.908)DS(0.002)YTLDPDTLR 99.834 0.002922 61203000 3646 3792.9 3434.7 4256 4384.8 4502.6 4549.3 4115.4 3663 4341.1 TRUE FALSE FALSE 4029.503008 3915.792449 3902.763029 4338.381034 4048.837571 4118.953149 4037.400791 4010.134027 3637.508885 4528.266066 0.88985562 0.86474434 0.861866987 0.958066724 0.89412537 0.909609349 0.891599728 0.88557827 0.803289566 1 12.14474301 -9.133416276 0.836308167 1.001804617 0.894967562 0 0.065779344 0.284051501 0.350840091 0.019062201 0.005211714 7.36E-10 9.133416276 -0.106837054 SKS(ph)EDMDNVQSK ddPTM_HeLa_SAHA_4h_R1 3 SKSEDMDNVQSK 12 1 Q6VMQ6-2;Q6VMQ6-5;Q6VMQ6;Q6VMQ6-4 Q6VMQ6-2 ATF7IP Activating transcription factor 7-interacting protein 1 1 0 S(0.012)KS(0.988)EDMDNVQSK;SKS(1)EDMDNVQSK;S(0.023)KS(0.977)EDMDNVQSK ;; 238.65 1.85E-30 60003800 8556.94 8351.21 7302.95 8572.4 9023.44 10512.58 11307.4 11266.6 8648.44 8544.54 TRUE FALSE FALSE 9456.99821 8621.794683 8298.157994 8738.331198 8332.065977 9616.849042 10035.06159 10978.41669 8588.254802 8912.936935 1.061041751 0.967334869 0.931023977 0.980409854 0.934828333 1.078976449 1.125898418 1.231739523 0.963571813 1 13.12168518 -4.611151534 1.822761978 1.00844264 1.234311435 0.748108074 0.04592949 0.218318236 1.157869975 0.007563247 0.066583222 2.45E-05 4.611151534 0.225868795 SKS(ph)ETGDSSIFR ddPTM_HeLa_SAHA_4h_R1 1 SKSETGDSSIFR 12 1 O43166-3;O43166-2;O43166 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 S(0.008)KS(0.986)ET(0.002)GDS(0.003)SIFR 107.46 0.016165 11849000 815.33 722.82 1109 826.46 955.38 1262.5 1043.6 883.13 1092.1 884.03 TRUE FALSE FALSE 901.0901503 746.2398423 1260.128745 842.4573284 882.1789908 1154.927897 926.1713814 860.5408134 1084.499987 922.1448596 0.977167677 0.809243618 1.366519296 0.913584584 0.95665988 1.252436518 1.004366474 0.933194828 1.176062498 1 9.848849591 SKS(ph)PASTSSVNGTPGSQLSTPR ddPTM_HeLa_SAHA_4h_R1 1 SKSPASTSSVNGTPGSQLSTPR 22 1 Q5VZY9;O15075-2;O15075 Q5VZY9 DCLK1 Serine/threonine-protein kinase DCLK1 1 0 S(0.063)KS(0.87)PAS(0.045)T(0.015)S(0.006)S(0.002)VNGTPGSQLSTPR 78.272 0.00067834 5327200 420.43 314.59 420.78 479.35 651.43 508.99 402.05 411.54 598.52 464.13 TRUE FALSE FALSE 464.6527564 324.7829224 478.1217071 488.6285124 601.5175741 465.6211885 356.8102759 401.0134027 594.3548506 484.1409157 0.959746928 0.670843781 0.987567238 1.009269195 1.24244317 0.961747238 0.736996739 0.828298931 1.227648462 1 8.919283214 -4.797867943 8.472664658 0.978750946 0.78278763 0.242110305 0.152492954 0.227464378 48.03073969 0.018511666 0.056647061 1.59E-05 4.797867943 -0.195963316 SKS(ph)PLPPEEEAK ddPTM_HeLa_SAHA_4h_R1 2 SKSPLPPEEEAK 12 1 H3BQZ7;Q1KMD3 H3BQZ7 HNRNPUL2-BSCL2;HNRNPUL2 Heterogeneous nuclear ribonucleoprotein U-like protein 2 1 0 S(0.371)KS(0.629)PLPPEEEAK;S(0.028)KS(0.972)PLPPEEEAK ; 116.79 0.0029091 5583200 2231.13 2942.51 2928.21 3080.13 2820.93 3257.7 2545.7 2463.96 4964.8 3120.76 TRUE FALSE FALSE 2465.81049 3037.849255 3327.251209 3139.75037 2604.790953 2980.125633 2259.251136 2400.935471 4930.249553 3255.311236 0.757473038 0.933197791 1.022099261 0.964500824 0.800166486 0.915465655 0.69402001 0.737544062 1.514524786 1 11.66857977 -4.762167893 24.99999982 0.89751374 0.715781988 0.106552605 0.210438966 15.88030558 545060.9826 0.014559333 0.04785648 1.73E-05 4.762167893 -0.181731751 SKS(ph)PRDPDANWDSPSR ddPTM_HeLa_SAHA_4h_R1 1 SKSPRDPDANWDSPSR 16 2 Q9UHB7;Q9UHB7-2;Q9UHB7-3 Q9UHB7 AFF4 AF4/FMR2 family member 4 1 0 S(0.233)KS(0.767)PRDPDANWDSPSR 77.372 0.010355 16458000 1379.1 1205.5 1298.9 1501.9 1372.8 1566.3 1510.8 1441.3 1486.7 1261.7 TRUE FALSE FALSE 1524.160066 1244.558991 1475.907328 1530.971446 1267.616361 1432.842428 1340.800808 1404.433633 1476.353934 1316.098062 1.158090047 0.945643054 1.121426564 1.163265482 0.963162547 1.088704915 1.018769685 1.067119293 1.121765905 1 10.36205127 -5.747797146 24.99926573 1.075077004 1.037196041 0.098058582 0.071242742 658.3398272 1206391.947 0.011519997 0.022943154 1.79E-06 5.747797146 -0.037880963 SKS(ph)YNTPLLNPVQEHEAEGAAAGGTSIR ddPTM_HeLa_SAHA_4h_R1 1 SKSYNTPLLNPVQEHEAEGAAAGGTSIR 28 1 P85299-2;P85299-4;P85299-3;P85299;P85299-5 P85299-2 PRR5 Proline-rich protein 5 1 0 S(0.098)KS(0.311)Y(0.28)NT(0.311)PLLNPVQEHEAEGAAAGGTSIR 41.366 0.020026 6123400 524.97 575.69 681.31 617.04 888.42 772 827.09 799.24 931.11 620.44 TRUE FALSE FALSE 580.1887532 594.3427337 774.1553787 628.9837015 820.3494515 706.2212568 734.0236564 778.7965981 924.6303297 647.1902048 0.896473323 0.918343216 1.196179072 0.971868389 1.26755542 1.091211288 1.13416991 1.20335041 1.428684061 1 9.338045962 -6.76659547 24.99982963 0.947288726 1.138991299 0 0.170914464 65.7861314 318970.7437 0.012426018 0.016608847 1.71E-07 6.76659547 0.191702573 SKSDPIMLLK(ac)DR ddPTM_HeLa_SAHA_4h_R1 1 SKSDPIMLLKDR 12 2 P08559-3;P08559;P08559-2;P08559-4;Q5JPU3 P08559-3 PDHA1 "Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial" 0 1 SKSDPIMLLK(1)DR 79.744 0.021806 3782400 2774.3 3550.4 3916.4 2852 3902.5 2495.3 3715.8 2667.3 2373.7 2889.7 FALSE TRUE FALSE 3066.113603 3665.43529 4450.106596 2907.204584 3603.491293 2282.686402 3297.688405 2599.074328 2357.181228 3014.289109 1.017192941 1.216019817 1.476337019 0.964474368 1.195469699 0.757288475 1.094018618 0.862251176 0.78200237 1 11.55760208 -4.252510853 22.89200852 1.050498104 0.862250859 0.077096528 0.20019197 726.5502384 1862673.469 0.02482704 0.374316978 5.59E-05 4.252510853 -0.188247245 SKT(ph)PPPPPQTAQTK ddPTM_HeLa_SAHA_4h_R1 1 SKTPPPPPQTAQTK 14 1 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 S(0.233)KT(0.767)PPPPPQTAQTK 156.29 2.77E-05 19053000 3396.8 3619.8 3046.2 3464.6 3670.9 4274.1 3728.4 3517.5 4055.3 3133.6 TRUE FALSE FALSE 3754.091009 3737.083895 3461.320272 3531.662343 3389.636435 3909.922635 3308.870619 3427.527443 4027.078837 3268.704831 1.148494955 1.143291942 1.058927144 1.080447004 1.036996795 1.196168769 1.012287983 1.048588851 1.23201055 1 11.67450339 SKTDNSSLS(ph)SPLNPK ddPTM_HeLa_SAHA_4h_R1 1 SKTDNSSLSSPLNPK 15 1 Q9UIG0-2;Q9UIG0 Q9UIG0-2 BAZ1B Tyrosine-protein kinase BAZ1B 1 0 SKTDNSSLS(0.6)S(0.4)PLNPK 75.682 0.011353 6717800 4544.8 3045.6 2994.6 3033.9 3345.9 3660.4 4034.1 4576.2 3867 4411.4 TRUE FALSE FALSE 5022.842916 3144.279438 3402.688493 3092.625522 3089.537865 3348.513327 3580.172451 4459.14743 3840.089232 4601.597043 1.091543408 0.683301777 0.739458162 0.672076562 0.671405566 0.72768504 0.778028241 0.969043441 0.834512278 1 12.16791894 -7.262728076 24.99866467 1.043228835 0.742755763 0.451220558 0.10680594 44.1297615 856043.7215 0.014894063 0.017532699 5.46E-08 7.262728076 -0.300473072 SKTDNSSLSS(ph)PLNPK ddPTM_HeLa_SAHA_4h_R1 1 SKTDNSSLSSPLNPK 15 1 Q9UIG0-2;Q9UIG0 Q9UIG0-2 BAZ1B Tyrosine-protein kinase BAZ1B 1 0 SKTDNSSLS(0.131)S(0.869)PLNPK 79.92 0.0091026 13740000 4671.4 3202 3103.5 2742.9 3700.2 4113.7 4268.2 4070.2 3796 3993.8 TRUE FALSE FALSE 5162.759285 3305.746901 3526.428818 2795.992796 3416.691475 3763.189617 3787.930903 3966.090178 3769.583327 4165.992263 1.239262812 0.793507691 0.846479925 0.671146901 0.820138699 0.903311715 0.909250585 0.952015733 0.904846454 1 12.02444444 -7.250964737 24.98276993 1.112985217 0.839918515 0.37975354 0.111578222 386.0424798 920739.4258 0.019267651 0.023464063 5.61E-08 7.250964737 -0.273066702 SKTPSS(ph)PCPASK ddPTM_HeLa_SAHA_4h_R1 2 SKTPSSPCPASK 12 1 Q9NQS7-2;Q9NQS7 Q9NQS7-2 INCENP Inner centromere protein 1 0 SKTPS(0.234)S(0.766)PCPASK;SKT(0.017)PS(0.192)S(0.791)PCPASK ; 140.77 0.00038417 34487000 6484.2 4400.4 4333.6 6108.2 5906.1 6021.8 6820.1 6979.7 5817.9 6496.6 TRUE FALSE FALSE 7166.237907 4542.975847 4924.16044 6226.433044 5453.575894 5508.708762 6052.684398 6801.16938 5777.41276 6776.70022 1.057481912 0.670381705 0.726630997 0.91880013 0.804753895 0.812889546 0.893161008 1.003610778 0.852540702 1 12.72636724 -7.290139598 24.96149088 1.027144247 0.832573822 0.21072969 0.105448856 423.1305955 368009.0113 0.015771968 0.018037611 5.13E-08 7.290139598 -0.194570425 SKVGS(ph)TENIK ddPTM_HeLa_SAHA_4h_R1 1 SKVGSTENIK 10 1 E7EVA0;P27816;P27816-6;P27816-2;P27816-5;H0Y2V1;H7C4C5;F8W9U4 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 SKVGS(0.861)T(0.139)ENIK 103.11 0.0047708 36030000 5524.4 5089.4 3774.1 6291.4 5340.1 5611 5932.2 6138.5 6456.9 5025.5 TRUE FALSE FALSE 6105.481739 5254.299899 4288.414693 6413.179145 4930.942692 5132.911233 5264.693243 5981.486058 6411.965907 5242.173899 1.164685082 1.002313162 0.818060365 1.22338161 0.940629362 0.979156993 1.004295803 1.141031597 1.223150172 1 12.3559495 SKVSSSSGTTPFSSAAALPPGS(ph)YASLGR ddPTM_HeLa_SAHA_4h_R1 1 SKVSSSSGTTPFSSAAALPPGSYASLGR 28 1 H0Y5T1;Q7Z460-2;Q7Z460-3;Q7Z460 H0Y5T1 CLASP1 CLIP-associating protein 1 1 0 SKVSSSSGTTPFSSAAALPPGS(0.5)Y(0.001)AS(0.5)LGR 79.886 1.24E-05 3686600 707.61 582.34 592.06 600.14 537.09 532.69 714.75 709.91 503.52 528.09 TRUE FALSE FALSE 782.0396664 601.2081981 672.7428535 611.7565775 495.9382802 487.3018152 634.3244489 691.7515301 500.0159633 550.8585443 1.419674206 1.091402147 1.221262446 1.110551128 0.900300604 0.884622414 1.151519669 1.255769811 0.907703018 1 9.105538085 -6.002707916 24.25607835 1.19381186 1.038976954 0 0.168640994 121.8935126 1091889.447 0.027760921 0.049635891 9.94E-07 6.002707916 -0.154834906 SKVSSSSGTTPFSSAAALPPGSYAS(ph)LGR ddPTM_HeLa_SAHA_4h_R1 1 SKVSSSSGTTPFSSAAALPPGSYASLGR 28 1 H0Y5T1;Q7Z460-2;Q7Z460-3;Q7Z460 H0Y5T1 CLASP1 CLIP-associating protein 1 1 0 SKVSSSSGTTPFSSAAALPPGS(0.099)Y(0.002)AS(0.899)LGR 98.718 7.57E-07 5023500 1528.3 1249.5 1411.9 1535.6 1792.1 1944 1291.3 1526 1180.1 1321.7 TRUE FALSE FALSE 1689.053606 1289.98462 1604.306379 1565.323759 1654.789685 1778.360263 1145.999525 1486.96713 1171.887588 1378.684955 1.225119343 0.935663086 1.163649732 1.135374512 1.200266732 1.289896039 0.83122654 1.078540187 0.850003899 1 10.42907711 -4.751135837 24.99994366 1.118958086 0.954883444 0.133489726 0.141433555 238.7298741 579229.0043 0.01691818 0.061891679 1.77E-05 4.751135837 -0.164074642 SLAALDALNT(ph)DDENDEEEYEAWK ddPTM_HeLa_SAHA_4h_R1 5 SLAALDALNTDDENDEEEYEAWK 23 0 P55081 P55081 MFAP1 Microfibrillar-associated protein 1 1 0 SLAALDALNT(1)DDENDEEEYEAWK;SLAALDALNT(1)DDENDEEEYEAWK;S(0.003)LAALDALNT(0.996)DDENDEEEY(0.001)EAWK;SLAALDALNT(1)DDENDEEEYEAWK;SLAALDALNT(1)DDENDEEEYEAWK ;;;; 174.55 1.34E-10 52994600 11258.64 13364.53 13063.08 13431.16 13670.16 14836.02 14373.41 15178.81 13946.35 12548.81 TRUE FALSE FALSE 12442.87541 13797.54954 14843.24851 13691.13952 12622.75529 13571.90763 12756.07608 14790.55802 13849.29621 13089.85061 0.950574287 1.054064706 1.133950948 1.045935506 0.964316222 1.036826778 0.974501273 1.129925654 1.058017897 1 13.67616101 -7.2523993 24.62166488 0.97666008 1.045157464 0.060711483 0.058814279 548.4846026 1493860.459 0.009027721 0.010973496 5.59E-08 7.2523993 0.068497384 SLAALDALNT(ph)DDENDEEEYEAWKVR ddPTM_HeLa_SAHA_4h_R1 2 SLAALDALNTDDENDEEEYEAWKVR 25 1 P55081 P55081 MFAP1 Microfibrillar-associated protein 1 1 0 SLAALDALNT(1)DDENDEEEYEAWKVR;SLAALDALNT(1)DDENDEEEYEAWKVR ; 118.36 1.76E-07 15206800 4772.9 834.59 5046.4 2193.26 2305.05 1562.49 3582.4 3974.9 426.82 2586.87 TRUE FALSE FALSE 5274.935521 861.6312636 5734.097111 2235.713719 2128.437567 1429.357062 3179.298924 3873.227814 423.8497249 2698.402626 1.954836343 0.319311601 2.124996862 0.828532294 0.788776866 0.529704888 1.178215176 1.435378018 0.157074308 1 11.39788991 SLADELALVDVLEDK ddPTM_HeLa_SAHA_4h_R1 2 SLADELALVDVLEDK 15 0 A0A5F9ZHM4;P07195;A0A3B3IS95;A8MW50;C9J7H8;F5H793 A0A5F9ZHM4 LDHB L-lactate dehydrogenase B chain;L-lactate dehydrogenase 0 0 ; ; 283.47 1.24E-68 78884000 4059.6 2856.9 2463.5 3490.2 2933.1 4526.1 3278.3 2975.6 4412.5 3610.3 FALSE FALSE TRUE 4486.607354 2949.465434 2799.212951 3557.757868 2708.366512 4140.450817 2909.417056 2899.488461 4381.793053 3765.957701 1.191358934 0.783191334 0.743293784 0.944715302 0.71917072 1.099441668 0.772557019 0.769920613 1.16352689 1 11.87880108 -7.254940373 24.94383539 1.090363942 0.837540373 0.548572851 0.117660573 316.0312889 1212960.328 0.020355417 0.024615907 5.56E-08 7.254940373 -0.252823569 SLAPDRS(ph)DDEHDPLDNTSRPR ddPTM_HeLa_SAHA_4h_R1 3 SLAPDRSDDEHDPLDNTSRPR 21 2 Q92614;A0A0D9SFK2;Q92614-3;Q92614-4;Q92614-2;Q92614-5 Q92614 MYO18A Unconventional myosin-XVIIIa 1 0 S(0.029)LAPDRS(0.967)DDEHDPLDNT(0.002)S(0.002)RPR;S(0.006)LAPDRS(0.994)DDEHDPLDNTSRPR;S(0.03)LAPDRS(0.97)DDEHDPLDNTSRPR ;; 84.948 0.00069809 74947500 4009.43 3923.8 3676.2 4233.9 5280 6262.8 4664.4 4998.7 4596 4719 TRUE FALSE FALSE 4431.160243 4050.933694 4177.173391 4315.853257 4875.447541 5729.174206 4139.549436 4870.840492 4564.016062 4922.459184 0.900192379 0.822949169 0.848594825 0.876767708 0.990449562 1.163884553 0.8409515 0.989513637 0.927182104 1 12.26516353 -5.633688934 9.028057708 0.927551115 0.998027144 0.188894628 0.088323819 0.488576824 37.12389897 0.014019251 0.028068022 2.32E-06 5.633688934 0.070476029 SLAS(ph)IEAK ddPTM_HeLa_SAHA_4h_R1 2 SLASIEAK 8 0 E9PHV5;P28290-3;P28290;P28290-2;E7EUL7 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 S(0.002)LAS(0.998)IEAK;S(0.386)LAS(0.614)IEAK ; 109.79 0.0065111 50821000 4452.2 6607.8 5666.1 3615.2 5970 6519.8 8003.1 6110.9 5179.8 5729.5 TRUE FALSE FALSE 4920.502823 6821.897056 6438.2466 3685.177424 5512.57989 5964.276361 7102.570125 5954.592026 5143.75335 5976.526784 0.823304739 1.14144842 1.077255542 0.616608535 0.92237182 0.997950244 1.188410992 0.996329849 0.860659299 1 12.5450916 -4.995879391 5.060397411 0.92265 1.09442274 0.188183288 0.142755885 0.219119688 16.73737119 0.020558114 0.060555693 1.01E-05 4.995879391 0.171772739 SLCIPFKPLCELQPGAK ddPTM_HeLa_SAHA_4h_R1 2 SLCIPFKPLCELQPGAK 17 1 P07814 P07814 EPRS Bifunctional glutamate/proline--tRNA ligase;Glutamate--tRNA ligase;Proline--tRNA ligase 0 0 ; ; 144.4 2.42E-06 979400 461.89 252.02 409.86 451.546 562.82 526.62 563.74 478.91 492.4 695.8 FALSE FALSE TRUE 510.4737094 260.1856134 465.7135863 460.2863258 519.6968532 481.7490133 500.3064915 466.6601757 488.9733483 725.7993432 0.703326221 0.358481467 0.641656114 0.634178482 0.716033788 0.663749586 0.689317917 0.642960317 0.673703211 1 9.503426941 -8.627760464 0.871236056 0.976849902 0.631516234 0.138536006 0.135256267 0.24966265 0.383249629 0.045413986 0.021730467 2.36E-09 8.627760464 -0.345333668 SLDEMEK ddPTM_HeLa_SAHA_4h_R1 2 SLDEMEK 7 0 P23246;P23246-2;H0Y9K7 P23246 SFPQ "Splicing factor, proline- and glutamine-rich" 0 0 ; ; 124.08 0.016982 13535500 2415.3 2303.8 2147.76 2326.5 2010.35 2634.9 2351.6 2433 2566.6 2277.9 FALSE FALSE TRUE 2669.352336 2378.444632 2440.445548 2371.532772 1856.317417 2410.391696 2086.991779 2370.767383 2548.738822 2376.111417 1.123412108 1.000981947 1.027075385 0.998073051 0.78124174 1.014427051 0.878322357 0.997750933 1.072651225 1 11.21438677 -5.992688476 24.9744902 1.050689578 0.917955641 0.43003682 0.068778123 129.8213582 443435.554 0.010666812 0.019306112 1.02E-06 5.992688476 -0.132733937 SLDGAAAVDSADRS(ph)PRPTSAPAITQGQVAEGGVLDASAK ddPTM_HeLa_SAHA_4h_R1 2 SLDGAAAVDSADRSPRPTSAPAITQGQVAEGGVLDASAK 39 2 P11171;P11171-2;P11171-4;P11171-7;P11171-3;A0A2R8Y5Z6;A0A2R8Y420;A0A2R8Y5G2;A0A2R8YD30;Q4VB86;A0A2R8YCW8;A0A2R8Y6G5;A0A2U3TZH6;A0A3B3IU06;A0A2R8Y570;A0A3B3IUD6;A0A2R8Y4N6;A0A2R8YFR9;A0A2R8Y7Y3;A0A2R8Y7N0;A0A3B3ITP0;P11171-5;P11171-6 P11171 EPB41 Protein 4.1 1 0 S(0.079)LDGAAAVDS(0.174)ADRS(0.628)PRPT(0.05)S(0.05)APAIT(0.019)QGQVAEGGVLDASAK;S(0.05)LDGAAAVDS(0.122)ADRS(0.47)PRPT(0.112)S(0.112)APAIT(0.133)QGQVAEGGVLDASAK ; 63.727 6.18E-06 36781400 4301.28 5351.34 3978.74 5007.65 5220.97 6028.5 5758.89 5423.05 6585.3 5256.12 TRUE FALSE FALSE 4753.708365 5524.726927 4520.941967 5104.580307 4820.940407 5514.837885 5110.884541 5284.336233 6539.472361 5482.737056 0.86703198 1.00765856 0.824577564 0.931027743 0.879294476 1.005854891 0.932177576 0.963813544 1.192738644 1 12.42068057 SLDNNYST(ph)PNER ddPTM_HeLa_SAHA_4h_R1 2 SLDNNYSTPNER 12 0 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-9;O60716-17;O60716-11;O60716-13;O60716-19;O60716-21;O60716-25;O60716-26;O60716-27;O60716-29;H0YC95 O60716 CTNND1 Catenin delta-1 1 0 SLDNNYST(1)PNER;SLDNNYS(0.002)T(0.998)PNER ; 212.1 3.35E-15 37191000 4550.1 4960.6 3641.5 4383.9 5589.8 5262.8 4965.9 4316.9 5415.1 4608.6 TRUE FALSE FALSE 5028.700395 5121.326695 4137.744656 4468.756724 5161.510732 4814.379832 4407.123862 4206.479949 5377.415878 4807.2993 1.046055193 1.065323038 0.860721249 0.929577387 1.073682001 1.001472871 0.916756704 0.875019358 1.118593943 1 12.23101091 -6.788304841 24.99981865 1.025624062 0.949689819 0.380176725 0.066580173 231.4614283 215387.0385 0.010263628 0.013491035 1.63E-07 6.788304841 -0.075934243 SLDQEIAR ddPTM_HeLa_SAHA_4h_R1 2 SLDQEIAR 8 0 P48681 P48681 NES Nestin 0 0 ; ; 124.83 0.016845 505747000 5469.4 5215.1 4443.9 5794.5 5433.3 5261.8 6024.8 5481.5 4863.7 5154.7 FALSE FALSE TRUE 6044.696587 5384.072662 5049.491549 5906.660926 5017.001728 4813.465038 5346.873648 5341.291167 4829.853116 5376.944343 1.124188052 1.001325719 0.93910058 1.098516285 0.933058147 0.895204549 0.994407475 0.99336925 0.898252392 1 12.39257082 -7.01539323 23.08328997 1.058860815 0.975940893 0 0.076753693 266.8066405 400096.9035 0.011032778 0.013763346 9.65E-08 7.01539323 -0.082919922 SLDS(ph)DES(ph)EDEEDDYQQK ddPTM_HeLa_SAHA_4h_R1 2 SLDSDESEDEEDDYQQK 17 0 Q13442 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 2 0 S(0.033)LDS(0.969)DES(0.997)EDEEDDY(0.001)QQK;S(0.078)LDS(0.922)DES(1)EDEEDDYQQK ; 143.23 0.00024337 56632000 5905.5 6301.7 5474.9 6560.5 7626.6 7504.3 6775.2 6847.2 7556 6395.4 TRUE FALSE FALSE 6526.667585 6505.879215 6220.99086 6687.487964 7042.251556 6864.891422 6012.836665 6672.058539 7503.417181 6671.136992 0.97834411 0.975227944 0.932523327 1.002451002 1.055629882 1.029043689 0.90132112 1.000138139 1.124758372 1 12.70371695 -7.287331451 0.001883732 1.844013654 0.129725114 0 0.059123464 180783.9648 289.1021989 131494.8677 131597.3888 5.16E-08 7.287331451 -1.714288539 SLDS(ph)DESEDEEDDY(ph)QQKR ddPTM_HeLa_SAHA_4h_R1 1 SLDSDESEDEEDDYQQKR 18 1 Q13442 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 2 0 S(0.094)LDS(0.87)DES(0.054)EDEEDDY(0.981)QQKR 46.962 0.020976 137030000 1266.9 1087.1 1354.9 1238.1 1403.4 1482.4 1634.8 1542.8 1478.4 1582.7 TRUE FALSE FALSE 1400.158355 1122.322753 1539.538716 1262.065216 1295.871795 1356.09118 1450.848001 1503.33741 1468.111694 1650.937943 0.848098719 0.679809171 0.932523674 0.764453456 0.784930652 0.821406514 0.878802264 0.910595953 0.889259164 1 10.68907018 -8.787692093 0.838176578 0.993389501 0.825669571 0.226950728 0.076992568 0.382720318 0.526205525 0.035626729 0.014296344 1.63E-09 8.787692093 -0.16771993 SLDS(ph)PTSSPGAGTR ddPTM_HeLa_SAHA_4h_R1 1 SLDSPTSSPGAGTR 14 0 Q9P107;K7EJC2 Q9P107 GMIP GEM-interacting protein 1 0 S(0.002)LDS(0.448)PT(0.448)S(0.089)S(0.013)PGAGTR 103.13 0.0035951 17049000 717.17 699.17 683.28 748.64 758.39 720.61 745.28 852.46 664.53 629.89 TRUE FALSE FALSE 792.6052311 721.8235667 776.39384 763.1310098 700.282322 659.209974 661.4191329 830.6553075 659.9054816 657.0476405 1.206313184 1.098586346 1.181640101 1.161454608 1.065801441 1.003290984 1.006653235 1.264223865 1.004349519 1 9.35985417 -4.239235819 23.28474608 1.096278185 1.264224321 0.322850316 0.076795905 2606.156609 2732953.181 0.012665208 0.74481057 5.76E-05 4.239235819 0.167946136 SLDSDES(ph)EDEEDDYQQK ddPTM_HeLa_SAHA_4h_R1 1 SLDSDESEDEEDDYQQK 17 0 Q13442 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 1 0 SLDSDES(1)EDEEDDYQQK 217.79 7.16E-21 4851600 2197.7 2442.4 2165.2 2107 2246.6 3101.9 2638.2 2383.9 2841.9 2520.3 TRUE FALSE FALSE 2428.864169 2521.535363 2460.26218 2147.784032 2074.465993 2837.600669 2341.342793 2322.92329 2822.122987 2628.962467 0.923886971 0.959137072 0.935830089 0.816970215 0.789081632 1.079361423 0.890595747 0.88358937 1.07347405 1 11.36027783 -8.733223629 0.468887479 1.009726382 0.902561766 0.27562822 0.078368129 1.754174953 0.698003317 0.085492347 0.024116634 1.85E-09 8.733223629 -0.107164616 SLDSDES(ph)EDEEDDYQQKR ddPTM_HeLa_SAHA_4h_R1 2 SLDSDESEDEEDDYQQKR 18 1 Q13442 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 1 0 SLDS(0.006)DES(0.994)EDEEDDYQQKR;S(0.003)LDS(0.085)DES(0.912)EDEEDDYQQKR ; 147.64 5.65E-05 18432400 2190.89 2499.19 2611.96 2493.98 2300.17 2581.16 2950.97 2709.08 2764.5 2435.44 TRUE FALSE FALSE 2421.337862 2580.165396 2967.904306 2542.254589 2123.931472 2361.230647 2618.919089 2639.785656 2745.261619 2540.443737 0.953116114 1.015635717 1.168262167 1.000712809 0.836047436 0.929455989 1.030890411 1.03910416 1.080622877 1 11.3108648 -4.560578571 23.72877449 0.982541988 1.037050915 0.004413505 0.084256084 189.3193105 119159.7906 0.011353988 0.042483097 2.75E-05 4.560578571 0.054508927 SLDSEPSVPSAAKPPS(ph)PEK ddPTM_HeLa_SAHA_4h_R1 2 SLDSEPSVPSAAKPPSPEK 19 1 Q7Z3K3-5;Q7Z3K3-7;Q7Z3K3-2;Q7Z3K3-3;Q7Z3K3-6;Q7Z3K3 Q7Z3K3-5 POGZ Pogo transposable element with ZNF domain 1 0 SLDSEPSVPS(0.002)AAKPPS(0.998)PEK;SLDSEPSVPS(0.014)AAKPPS(0.986)PEK ; 75.797 0.0037757 191033000 2570.7 2604.7 1702.88 2532.9 2675.9 2802.5 2377.9 2413.75 3604 2536.81 TRUE FALSE FALSE 2841.098021 2689.093989 1934.939618 2581.927942 2470.87312 2563.711234 2110.332434 2352.00977 3578.919471 2646.184294 1.07365841 1.016215687 0.731218768 0.975717356 0.933749447 0.968833214 0.797500174 0.888830674 1.352483075 1 11.36969783 -6.966912109 24.99433551 1.035317592 0.887949243 0.40149967 0.123450664 117.5775157 88816.919 0.011553051 0.015183626 1.08E-07 6.966912109 -0.147368349 SLDSESIS(ph)PGDFHR ddPTM_HeLa_SAHA_4h_R1 2 SLDSESISPGDFHR 14 0 Q52LW3;F8VWZ8 Q52LW3 ARHGAP29 Rho GTPase-activating protein 29 1 0 SLDSES(0.001)IS(0.999)PGDFHR;SLDSESIS(1)PGDFHR ; 126.25 0.00051373 7908100 3224.4 3492.6 2987.6 3511.6 3851.5 3813.7 3935.7 3546.3 3294.2 3127.1 TRUE FALSE FALSE 3563.557186 3605.762532 3394.734569 3579.572096 3556.398902 3488.751305 3492.844678 3455.590781 3271.275394 3261.924585 1.092470747 1.105409533 1.040715222 1.097380397 1.090276249 1.069537696 1.070792591 1.059371758 1.002866654 1 11.67150771 -9.280397496 0.935278003 0.998477627 1.079015766 0.731416569 0.018535128 0.247236884 0.376489909 0.013779395 0.003463094 5.24E-10 9.280397496 0.080538139 SLEATCEKLS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SLEATCEKLSR 11 1 A4FU28 A4FU28 CTAGE9 cTAGE family member 9 1 0 SLEAT(0.001)CEKLS(0.999)R 67.704 0.023328 1482200 313.1 172.13 293.63 425.85 501.63 468.9 362.9 451.8 403.16 525.81 TRUE FALSE FALSE 346.0332946 177.7071249 333.6443672 434.0929425 463.1952178 428.947082 322.0655369 440.2436102 400.3543767 548.4802424 0.63089473 0.323999137 0.608306994 0.791446818 0.84450666 0.782064784 0.587196242 0.802660837 0.729933999 1 9.099295842 -9.168696945 1.025885407 0.991424033 0.670292965 0.105828265 0.164785009 0.415471007 0.815552973 0.090789665 0.028776363 6.78E-10 9.168696945 -0.321131068 SLEDQVEMLR ddPTM_HeLa_SAHA_4h_R1 2 SLEDQVEMLR 10 0 K7ELL7;P14314-2;P14314 K7ELL7 PRKCSH Glucosidase 2 subunit beta 0 0 ; ; 180.45 3.66E-05 5338200 1601.82 1793.54 1512.91 1522.65 1647.47 2204.29 2100.3 1809.3 2019.99 1488.57 FALSE FALSE TRUE 1770.306777 1851.651873 1719.081496 1552.123093 1521.241205 2016.472091 1863.968716 1763.020726 2005.932725 1552.749538 1.140110967 1.192498744 1.10712092 0.999596558 0.979708039 1.298646074 1.200431023 1.135418613 1.291858524 1 10.60060942 -13.52287875 0.218619857 0.296431879 1.153197337 0 0.12788508 56.09740079 0.708789432 16.87287992 0.077672908 3.00E-14 13.52287875 0.856765457 SLEEDLETLKS(ph)LEK ddPTM_HeLa_SAHA_4h_R1 2 SLEEDLETLKSLEK 14 1 P48681 P48681 NES Nestin 1 0 SLEEDLET(0.001)LKS(0.999)LEK;SLEEDLETLKS(1)LEK ; 103.01 0.0021711 5581000 1619.1 2515.4 2157.43 2654 2766.5 4317.7 3312.9 3216.9 3808.4 2628.5 TRUE FALSE FALSE 1789.404367 2596.90061 2451.433325 2705.372008 2554.531368 3949.807669 2940.123773 3134.616356 3781.897034 2741.827499 0.652632001 0.94714223 0.894087366 0.986703944 0.931689309 1.440574825 1.072322666 1.143258049 1.379334417 1 11.42092209 SLEPEES(ph)PGKR ddPTM_HeLa_SAHA_4h_R1 2 SLEPEESPGKR 11 1 Q5JWZ0;Q5JXL1;Q9BVI0 Q5JWZ0 PHF20 PHD finger protein 20 1 0 SLEPEES(1)PGKR;SLEPEES(1)PGKR ; 72.209 0.017329 23697000 4399.3 4317.5 3453.2 4949.6 4741.9 5929 6588.8 6609.5 6107 5521.9 TRUE FALSE FALSE 4862.038559 4457.389833 3923.784113 5045.406665 4378.576646 5423.815844 5847.410883 6440.43856 6064.50089 5759.976133 0.844107414 0.773855608 0.681215342 0.875942287 0.760172707 0.941638597 1.015179707 1.118136328 1.052869101 1 12.49184712 -4.643057255 2.230336486 0.880398242 1.110093956 0.382094635 0.106217675 0.327116862 2.909351558 0.016399214 0.108000741 2.27E-05 4.643057255 0.229695714 SLEQYDQVLDGAHGAS(ph)LTDLANLSEGVSLAER ddPTM_HeLa_SAHA_4h_R1 1 SLEQYDQVLDGAHGASLTDLANLSEGVSLAER 32 0 M0R2S2;M0R165;Q9UBC2-4;Q9UBC2-3;Q9UBC2;Q9UBC2-2;M0R3I1 M0R2S2 EPS15L1 Epidermal growth factor receptor substrate 15-like 1 1 0 SLEQYDQVLDGAHGAS(0.99)LT(0.01)DLANLSEGVSLAER 110.85 4.29E-10 33652000 772.12 770.2 794.84 916.95 886.26 975.3 1062.3 1160 1267.5 887.4 TRUE FALSE FALSE 853.3351242 795.1549853 903.1566559 934.6988932 818.3549503 892.1989531 942.7672082 1130.32888 1258.679364 925.6601568 0.921866538 0.859013947 0.975689241 1.009764638 0.884077103 0.963851524 1.01848092 1.221105685 1.359764007 1 9.854338815 -4.251089752 2.202434307 0.953540169 1.295647703 0.138391367 0.136266204 0.269154115 1.435879096 0.007135929 0.181196981 5.61E-05 4.251089752 0.342107533 SLESLDTSLFAK ddPTM_HeLa_SAHA_4h_R1 1 SLESLDTSLFAK 12 0 Q12874 Q12874 SF3A3 Splicing factor 3A subunit 3 0 0 160.18 5.48E-06 0 0 71.422 0 0 0 66.727 0 0 0 151.14 FALSE FALSE TRUE 0 73.73611966 0 0 0 61.0414842 0 0 0 157.6563851 0 0.467701449 0 0 0 0.387180539 0 0 0 1 7.30063979 -9.382931926 0.664188635 1.13951957 0.092912043 0 0.352870482 0.353733865 0.219273477 0.222479933 0.035090868 4.14E-10 9.382931926 -1.046607527 SLETENAGLR ddPTM_HeLa_SAHA_4h_R1 2 SLETENAGLR 10 0 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 143.37 9.74E-05 4413700 1566.77 1552.06 1422.76 1218.43 1693.03 1527.19 1368.31 1603.75 1475.43 1367.6 FALSE FALSE TRUE 1731.570057 1602.347762 1616.646323 1242.014475 1563.310407 1397.06482 1214.344158 1562.728397 1465.162363 1426.563929 1.213804739 1.123221841 1.133244919 0.87063359 1.095857238 0.979321566 0.851237111 1.095449258 1.027056925 1 10.47832868 -6.287765502 24.51271826 1.107752447 0.977995105 0.297566464 0.092488611 601.8490955 560390.9057 0.016092709 0.024587147 5.16E-07 6.287765502 -0.129757341 SLETENRR ddPTM_HeLa_SAHA_4h_R1 1 SLETENRR 8 1 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 118.74 0.0077565 1669800 734.05 503.63 1036.2 1106.9 490.56 673.42 1024 836.67 495.93 812 FALSE FALSE TRUE 811.2607469 519.9479424 1177.40794 1128.32565 452.9733988 616.0408274 908.776825 815.2691929 492.4787828 847.0092938 0.957794386 0.613863326 1.390076766 1.332129008 0.534791533 0.727312949 1.072924266 0.962526856 0.581432561 1 9.726233989 -5.755990649 24.99998819 1.005259293 0.835207542 0.064813322 0.276521154 257.672399 1182245.183 0.03578067 0.069951469 1.75E-06 5.755990649 -0.170051752 SLFFGGK(ac)GAPLQR ddPTM_HeLa_SAHA_4h_R1 2 SLFFGGKGAPLQR 13 1 B8ZZS4;Q9H8Y5 B8ZZS4 ANKZF1 Ankyrin repeat and zinc finger domain-containing protein 1 0 1 ; SLFFGGK(1)GAPLQR;SLFFGGK(1)GAPLQR 119.27 0.0021592 1185110 0 68.856 168.7 302.25 203.67 415.21 316.31 197.49 0 0 FALSE TRUE FALSE 0 71.08697958 191.6895574 308.1004858 188.0648486 379.8317721 280.7179663 192.4384918 0 0 0 SLFSNVVTK ddPTM_HeLa_SAHA_4h_R1 1 SLFSNVVTK 9 0 P31939-2;P31939;H7C1S2 P31939-2 ATIC Bifunctional purine biosynthesis protein PURH;Phosphoribosylaminoimidazolecarboxamide formyltransferase;IMP cyclohydrolase 0 0 114.5 0.006758 839950 380.49 403.78 420.99 591.04 343.91 306.31 456.1 350.09 386.1 413.44 FALSE FALSE TRUE 420.511684 416.8627369 478.3603248 602.4804339 317.5596901 280.2106647 404.7784276 341.1352047 383.4130987 431.2654217 0.975064688 0.966603664 1.109201667 1.397006121 0.736343964 0.649740625 0.93858308 0.791009869 0.889042059 1 8.752432237 SLGDDISSETSGDFRK ddPTM_HeLa_SAHA_4h_R1 2 SLGDDISSETSGDFRK 16 1 P12429;D6RFG5;D6RA82 P12429 ANXA3 Annexin A3;Annexin 0 0 ; ; 136.14 0.00024628 13995300 795.12 898.67 657.13 808.6 999.59 1167.95 950.34 922.98 880.12 956.92 FALSE FALSE TRUE 878.7543697 927.7874976 746.6802542 824.2516223 923.0016302 1068.434089 843.405242 899.3715081 873.9951733 998.1775043 0.88035882 0.929481474 0.74804356 0.82575656 0.924686868 1.070384861 0.844945151 0.901013602 0.875590934 1 9.96315258 -9.173883915 0.881637669 1.001141295 0.890398891 0 0.087243488 0.802504201 1.105982145 0.057749168 0.015778304 6.70E-10 9.173883915 -0.110742404 SLGEKS(ph)PAASGAR ddPTM_HeLa_SAHA_4h_R1 1 SLGEKSPAASGAR 13 1 O75683 O75683 SURF6 Surfeit locus protein 6 1 0 SLGEKS(0.999)PAAS(0.001)GAR 116.58 0.0060837 5131600 1404.8 1561.3 1584.9 1561.4 1534.2 1649.7 1528.4 1460.6 1796.7 1579.6 TRUE FALSE FALSE 1552.563309 1611.887144 1800.881918 1591.623155 1416.649927 1509.136279 1356.420409 1423.239967 1784.196618 1647.704286 0.942258464 0.978262397 1.092964273 0.96596408 0.85977195 0.915902381 0.823218353 0.863771478 1.082837881 1 10.68624163 -5.800533766 5.481347684 0.982583603 0.865931187 0.614962381 0.053540207 0.100064568 7.341321597 0.006958152 0.013018669 1.58E-06 5.800533766 -0.116652417 SLGEPAAGEGSAK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 SLGEPAAGEGSAKR 14 1 Q9BUL9 Q9BUL9 RPP25 Ribonuclease P protein subunit p25 0 1 SLGEPAAGEGSAK(1)R 64.64 0.02053 0 186.78 259.17 701.05 858.84 1430.9 1355.7 2059 1493 93.254 170.25 FALSE TRUE FALSE 206.4263774 267.567278 796.5854431 875.4640901 1321.264751 1240.186733 1827.315901 1454.811222 92.60503782 177.5903107 1.162374099 1.50665471 4.485523112 4.92968387 7.43995968 6.983414401 10.28950225 8.191951555 0.521453211 1 7.47240906 -6.083614005 0.8044708 0.961355861 9.164031147 0.938676976 0.821666206 0.091407373 0.114253956 0.139922962 0.381393584 8.25E-07 6.083614005 8.202675286 SLGLSLS(ph)GGDQEDAGR ddPTM_HeLa_SAHA_4h_R1 2 SLGLSLSGGDQEDAGR 16 0 H0YE82;H7C1L7;H0YEB7;C9JEV6;H7C3G9;Q9UJ70;Q9UJ70-2 H0YE82 NAGK N-acetyl-D-glucosamine kinase 1 0 SLGLS(0.005)LS(0.995)GGDQEDAGR;SLGLS(0.003)LS(0.997)GGDQEDAGR ; 238.83 4.07E-36 31726000 2149.55 2375.69 2468.4 2650.9 2595.8 3067 3173.3 2729.5 2861.6 2659 TRUE FALSE FALSE 2375.649531 2452.663915 2804.780697 2702.212003 2396.910365 2805.674346 2816.231932 2659.683342 2841.685893 2773.642503 0.856508915 0.884275429 1.011226463 0.974246681 0.864174227 1.011548656 1.015355054 0.958913537 1.024532141 1 11.43756613 -6.759345855 24.99735353 0.926749671 0.971441744 0.037192324 0.062012713 110.1480055 1315191.669 0.010992151 0.015115452 1.74E-07 6.759345855 0.044692073 SLGNILQAKPTSS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 1 SLGNILQAKPTSSPAK 16 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 SLGNILQAKPT(0.051)S(0.244)S(0.705)PAK 69.986 0.014176 15972000 2125.4 2497.3 1933.4 2424.3 2846.9 2820.8 2343 1811.8 2906.6 2289.2 TRUE FALSE FALSE 2348.959324 2578.214159 2196.873683 2471.225832 2628.771137 2580.451971 2079.359474 1765.456779 2886.372734 2387.898615 0.983693072 1.07970001 0.920002914 1.034895626 1.100872173 1.080637157 0.870790519 0.739334898 1.208750119 1 11.22152587 -4.527248477 3.928924962 1.008563194 0.757495631 0.565680732 0.083125458 0.082821788 2.79876045 0.007732537 0.040801805 2.97E-05 4.527248477 -0.251067563 SLGNILQAKPTSSPAK(ac)GPPQK ddPTM_HeLa_SAHA_4h_R1 2 SLGNILQAKPTSSPAKGPPQK 21 2 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 0 1 ; SLGNILQAKPTSSPAK(1)GPPQK;SLGNILQAKPTSSPAK(1)GPPQK 226.23 8.71E-49 4198000 1640.24 1622.87 1630.2 2300 2391.1 2637.44 2685.6 2201.67 1318.39 1382.19 FALSE TRUE FALSE 1812.767969 1675.452053 1852.355166 2344.519826 2207.894435 2412.715274 2383.40922 2145.354469 1309.215217 1441.782975 1.257309873 1.162069522 1.284766985 1.626125337 1.531363924 1.673424722 1.653098463 1.487987101 0.908052903 1 10.4936383 -6.718056713 0.480817706 1.049296594 1.669052432 0.833921934 0.107042606 0.285610068 0.14408901 0.036316932 0.069372783 1.91E-07 6.718056713 0.619755837 SLGS(ph)PLLHER ddPTM_HeLa_SAHA_4h_R1 3 SLGSPLLHER 10 0 H7C3L4;E7EQA9;Q92844;E7EV32;E7EMT6;E7ENY2;E7EVA2;E7EW82 H7C3L4 TANK TRAF family member-associated NF-kappa-B activator 1 0 S(0.002)LGS(0.998)PLLHER;S(0.001)LGS(0.999)PLLHER;SLGS(1)PLLHER ;; 114.87 0.0032577 13855800 4543.48 5289.37 5268.61 5654.43 5751.5 5567.5 5490.82 4831.98 5109.79 5111.16 TRUE FALSE FALSE 5021.384073 5460.749058 5986.588733 5763.879669 5310.821313 5093.117678 4872.978483 4708.384948 5074.230555 5331.527121 0.941828478 1.024237322 1.122865663 1.081093566 0.996116346 0.955283085 0.913993003 0.88312126 0.95174055 1 12.38033311 -4.846845405 2.158758098 0.996935325 0.88954666 0.412288262 0.05386166 0.334354106 2.985187359 0.009243352 0.043902142 1.42E-05 4.846845405 -0.107388665 SLGSAGPSGT(ph)LPR ddPTM_HeLa_SAHA_4h_R1 3 SLGSAGPSGTLPR 13 0 Q8WUF5 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 SLGSAGPS(0.017)GT(0.983)LPR;SLGSAGPS(0.065)GT(0.935)LPR;SLGSAGPS(0.001)GT(0.999)LPR ;; 146.67 0.00038353 32110900 3063.05 2625.66 2741.91 2891.83 3137.5 3614.19 2313.79 3544.7 1617.12 2805.39 TRUE FALSE FALSE 3385.235653 2710.733107 3115.563216 2947.805551 2897.105428 3306.240679 2053.43626 3454.031707 1605.86633 2926.344092 1.156813945 0.9263207 1.064660586 1.007333881 0.990008467 1.129819521 0.701707043 1.18032316 0.548761964 1 11.5148837 -7.255509451 24.90351051 1.074051029 0.995924987 0 0.208923671 935.8369363 3930172.495 0.020463042 0.024693818 5.55E-08 7.255509451 -0.078126042 SLGSVQAPS(ph)YGARPVSSAASVYAGAGGSGSR ddPTM_HeLa_SAHA_4h_R1 1 SLGSVQAPSYGARPVSSAASVYAGAGGSGSR 31 1 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 SLGSVQAPS(0.498)Y(0.418)GARPVS(0.023)S(0.007)AAS(0.043)VY(0.011)AGAGGSGSR 95.523 2.06E-08 15121000 768.19 693.1 717.15 714.37 925.69 748.35 767.12 917.62 576.2 697.77 TRUE FALSE FALSE 848.9917488 715.5568948 814.8794672 728.1976643 854.7638322 684.5863699 680.8016387 894.1486091 572.1901773 727.8542795 1.166430936 0.983104606 1.119564026 1.000471777 1.17436121 0.940554159 0.935354312 1.228472009 0.786132875 1 9.507505833 -5.251197043 24.85031492 1.075603888 1.024849594 0 0.134247027 1805.130847 4379659.329 0.0141443 0.035646322 5.61E-06 5.251197043 -0.050754294 SLGSVQAPSYGAR ddPTM_HeLa_SAHA_4h_R1 1 SLGSVQAPSYGAR 13 0 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 117.95 0.0074477 47736000 641.22 438.36 538.08 578.44 506.34 722.02 595.93 606.71 631.89 524.15 FALSE FALSE TRUE 708.6664616 452.5631516 611.4067402 589.6365426 467.5443386 660.499834 528.874388 591.1912367 627.492626 546.7486716 1.296146655 0.827735256 1.118259215 1.078441656 0.855135756 1.208050185 0.967308044 1.081285182 1.147680202 1 9.094734 -7.274149399 24.99608582 1.139847023 1.024455405 0.173534473 0.127801514 1227.383483 2413822.101 0.024868153 0.028543883 5.32E-08 7.274149399 -0.115391618 SLGSVQAPSYGARPVSSAASVYAGAGGS(ph)GSR ddPTM_HeLa_SAHA_4h_R1 2 SLGSVQAPSYGARPVSSAASVYAGAGGSGSR 31 1 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 SLGSVQAPS(0.004)Y(0.004)GARPVS(0.024)S(0.024)AAS(0.049)VY(0.045)AGAGGS(0.613)GS(0.238)R;SLGSVQAPSYGARPVS(0.001)S(0.002)AAS(0.001)VYAGAGGS(0.805)GS(0.19)R ; 83.293 1.40E-06 18060000 3274.59 2972.96 2550.18 3114.82 3460.83 3443.86 3552.35 2949.16 2795.88 3402.13 TRUE FALSE FALSE 3619.026401 3069.285855 2897.70525 3175.111845 3195.661953 3150.423753 3152.630229 2873.724758 2776.423243 3548.812474 1.019785189 0.864876878 0.81652814 0.894696992 0.900487692 0.887740273 0.888362023 0.809770812 0.782352763 1 11.79312063 -7.259700389 24.95371286 1.009343008 0.868277056 0 0.077686007 41.86521152 600747.4421 0.005050303 0.006016183 5.50E-08 7.259700389 -0.141065952 SLGSVQAPSYGARPVSSAASVYAGAGGSGSR ddPTM_HeLa_SAHA_4h_R1 2 SLGSVQAPSYGARPVSSAASVYAGAGGSGSR 31 1 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 ; ; 173.86 7.44E-35 6952200 201 235.834 147.9 192.55 251.61 231.482 285.66 160.46 86.389 237.964 FALSE FALSE TRUE 222.1421022 243.4751763 168.0550418 196.2770837 232.3316962 211.7584313 253.516785 156.3556655 85.78781192 248.2237926 0.894926711 0.980869617 0.677030352 0.79072631 0.93597674 0.853094819 1.021323469 0.62989798 0.345606725 1 7.955497596 -8.230091119 0.56555076 0.996914772 0.84107441 0 0.234169426 0.92310103 0.657717125 0.062972875 0.032537468 5.89E-09 8.230091119 -0.155840362 SLGTADVHFER ddPTM_HeLa_SAHA_4h_R1 5 SLGTADVHFER 11 0 E9PB61;Q86V81 E9PB61 ALYREF THO complex subunit 4 0 0 ;;;; ;;;; 129.34 0.0015295 33627600 10410.74 11131.41 9608.47 12382.48 13127.6 13774.23 13773.5 11649.6 12110.1 10868.21 FALSE FALSE TRUE 11505.7894 11492.07499 10917.86225 12622.16081 12121.76612 12600.58811 12223.66953 11351.6201 12025.82483 11336.79172 1.014907011 1.013697285 0.963046911 1.113380321 1.069241318 1.111477429 1.078230052 1.001307987 1.060778492 1 13.4687248 -6.258990113 24.99996593 1.004824002 1.076658895 0.431159858 0.036573144 123.6246282 1261846.996 0.004646378 0.007480906 5.51E-07 6.258990113 0.071834894 SLGVLPFTLNS(ph)GSPEK ddPTM_HeLa_SAHA_4h_R1 1 SLGVLPFTLNSGSPEK 16 0 P42695 P42695 NCAPD3 Condensin-2 complex subunit D3 1 0 SLGVLPFT(0.084)LNS(0.675)GS(0.241)PEK 213.71 2.20E-20 111140000 2545.8 3499.7 2135 3131.3 3248.8 3840.8 2955.1 3369.8 3701.2 3330.8 TRUE FALSE FALSE 2813.578925 3613.092576 2425.946681 3191.910839 2999.877646 3513.542232 2622.584371 3283.605395 3675.443048 3474.407089 0.80980117 1.039916303 0.698233287 0.918692242 0.863421461 1.011263834 0.754829329 0.945083668 1.057861947 1 11.76255109 -9.532895807 1.253736473 1.000954959 0.871894464 0.232165103 0.10350821 0.603009592 1.676813632 0.067380175 0.015586225 2.93E-10 9.532895807 -0.129060496 SLGVLPFTLNSGS(ph)PEK ddPTM_HeLa_SAHA_4h_R1 1 SLGVLPFTLNSGSPEK 16 0 P42695 P42695 NCAPD3 Condensin-2 complex subunit D3 1 0 SLGVLPFTLNS(0.082)GS(0.918)PEK 199.91 4.28E-15 106210000 2320.4 2582.5 1407.2 2131.8 2613.6 2819.1 2578.6 2293 2912.1 2194.2 TRUE FALSE FALSE 2564.470318 2666.174694 1598.965888 2173.064072 2413.346533 2578.89682 2288.449141 2234.34838 2891.834459 2288.8027 1.120441844 1.164877468 0.698603636 0.949432676 1.054414403 1.126744922 0.999845527 0.976208382 1.263470398 1 11.16037739 -10.07974555 2.845170344 0.999102522 1.036908331 0 0.150912928 1.744769201 25.73931705 0.114784223 0.019183917 8.32E-11 10.07974555 0.037805809 SLGVSNFNR ddPTM_HeLa_SAHA_4h_R1 1 SLGVSNFNR 9 0 P51857-2;P51857 P51857-2 AKR1D1 3-oxo-5-beta-steroid 4-dehydrogenase 0 0 143.37 0.0045555 22620000 1492.5 1208.9 1294.7 1663.9 1463.6 1889.8 1806.8 1502.5 1603.6 1573.7 FALSE FALSE TRUE 1649.487998 1248.069153 1471.134973 1696.107191 1351.459284 1728.778408 1603.494109 1464.068226 1592.440417 1641.549909 1.004835728 0.760299243 0.896186565 1.033235226 0.823282483 1.053137891 0.976817153 0.891881641 0.970083461 1 10.6808429 SLGYAYVNFQQPADAER ddPTM_HeLa_SAHA_4h_R1 3 SLGYAYVNFQQPADAER 17 0 P11940;P11940-2;A0A087WTT1;E7EQV3;E7ERJ7;H0YBN4;E5RH24;E5RJB9;E5RGH3;B1ANR1;E5RHG7;B1ANR0;Q13310-2;Q13310;Q13310-3 P11940;B1ANR0 PABPC1;PABPC4 Polyadenylate-binding protein 1;Polyadenylate-binding protein;Polyadenylate-binding protein 4 0 0 ;; ;; 227.91 8.08E-45 2709100 1065.62 1066.31 957.32 1175.3 1134.62 883.68 1283.72 790.2 941.78 1122.61 FALSE FALSE TRUE 1177.706801 1100.859144 1087.778584 1198.049631 1047.685661 808.3854926 1139.272447 769.9878282 935.2260763 1171.011211 1.005717785 0.940092745 0.928922434 1.023089805 0.894684569 0.69033113 0.972896277 0.657540953 0.798648269 1 10.19353917 -2.746932377 0.329451744 1.01065124 1.08E-14 0.257624129 0.107738508 9.209537964 0.326507424 0.0265795 4.583263609 0.001790885 2.746932377 -1.01065124 SLHDALCVVK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 SLHDALCVVKR 11 1 P17987;E7EQR6;F5H282;E7ERF2;F5GZ03 P17987 TCP1 T-complex protein 1 subunit alpha 0 1 SLHDALCVVK(1)R 89.561 0.0080808 1491900 218.87 398.11 402.92 498.99 646.27 215.14 349.5 351.69 313.36 340.79 FALSE TRUE FALSE 241.8917508 411.0090252 457.8278393 508.648673 596.7529322 196.8088617 310.1733402 342.694279 311.1793022 355.4831247 0.680459167 1.156198415 1.287903159 1.430865877 1.678709595 0.553637706 0.872540266 0.964024043 0.875370111 1 8.473637264 -7.23977329 23.3809177 0.849105719 1.140588271 0.157859476 0.299201811 509.6018414 549935.5976 0.054369469 0.066545105 5.76E-08 7.23977329 0.291482552 SLIEEGGDWDR ddPTM_HeLa_SAHA_4h_R1 1 SLIEEGGDWDR 11 0 H7C531;C9J0E9;Q15008-3;Q15008-2;Q15008;Q15008-4 H7C531 PSMD6 26S proteasome non-ATPase regulatory subunit 6 0 0 106.2 0.0066743 0 543.05 604.16 676.46 830.4 819.55 808.26 617.74 862.72 1082.4 710.06 FALSE FALSE TRUE 600.1704906 623.7351804 768.6444459 846.4735928 756.7562561 739.3917009 548.2302694 840.6528716 1074.86749 740.6741615 0.810302994 0.842118185 1.037763278 1.142842071 1.021712779 0.998268522 0.740177392 1.134983391 1.451201549 1 9.532695199 -6.751455491 24.99016266 0.90279521 1.005920145 0 0.207311577 322.7186789 807778.3455 0.019874868 0.027916984 1.77E-07 6.751455491 0.103124935 SLIEEGGDWDRR ddPTM_HeLa_SAHA_4h_R1 4 SLIEEGGDWDRR 12 1 H7C531;C9J0E9;Q15008-3;Q15008-2;Q15008;Q15008-4 H7C531 PSMD6 26S proteasome non-ATPase regulatory subunit 6 0 0 ;;; ;;; 166.29 0.00022375 69055000 9252.6 7872.8 8208.2 10001.4 9518.7 11201.8 10107.5 8006.3 10215.8 9241.9 FALSE FALSE TRUE 10225.83092 8127.883886 9326.77075 10194.99156 8789.379262 10247.34362 8970.177499 7801.510439 10144.70742 9640.363538 1.060730841 0.843109687 0.967470854 1.057531858 0.911726952 1.062962364 0.930481248 0.809254797 1.052315857 1 13.23487184 -4.402633976 3.018184792 1.007172737 0.802794554 0.383093765 0.069861195 0.216741273 3.177947552 0.009743235 0.087412974 3.96E-05 4.402633976 -0.204378182 SLIGS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 4 SLIGSPGR 8 0 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6 C9JE98 NCOR2 Nuclear receptor corepressor 2 1 0 SLIGS(1)PGR;SLIGS(1)PGR;SLIGS(1)PGR;SLIGS(1)PGR ;;; 114.86 0.0048066 255338000 15574.8 16068.1 14727.2 13186.3 15229.6 16305.9 15683 14876.6 16974.3 15472.8 TRUE FALSE FALSE 17213.02892 16588.71698 16734.14612 13441.5399 14062.71134 14916.54559 13918.30756 14496.07811 16856.17446 16139.90813 1.066488656 1.027807398 1.036817929 0.832813904 0.871300581 0.924202633 0.86235358 0.898151216 1.044378588 1 13.97834475 -6.271202056 24.88093461 1.032238167 0.87912903 0.894646603 0.026984549 171.2859199 436535.025 0.004960563 0.007634481 5.36E-07 6.271202056 -0.153109137 SLIPDIKPLAGQEAVVDLHADDSRISEDETERNGDDGT(ph)HDK ddPTM_HeLa_SAHA_4h_R1 1 SLIPDIKPLAGQEAVVDLHADDSRISEDETERNGDDGTHDK 41 3 S4R3H4;E7EQT4;Q9UKV3;G3V3B0;Q9UKV3-3;Q9UKV3-2 S4R3H4 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 SLIPDIKPLAGQEAVVDLHADDS(0.015)RIS(0.015)EDET(0.388)ERNGDDGT(0.582)HDK 51.264 0.00076239 4762100 2145.9 2194.2 3141.6 2890.2 2962.1 2880.4 3260 1740.4 2646.7 2941.8 TRUE FALSE FALSE 2371.615608 2265.29352 3569.720887 2946.144 2735.144538 2634.973715 2893.17622 1695.883088 2628.281399 3068.635395 0.77285676 0.738208757 1.163292613 0.96008278 0.89132275 0.858679307 0.942821759 0.552650566 0.85649843 1 11.58338152 -4.257416906 24.57351464 0.903103865 0.552650392 0.466842568 0.114171043 247.8612931 1514119.814 0.017499875 0.177658179 5.53E-05 4.257416906 -0.350453472 SASDSGCDPASK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 SASDSGCDPASKK 13 1 Q7LBC6;H0Y9V5 Q7LBC6 KDM3B Lysine-specific demethylase 3B 0 1 ; SASDSGCDPASK(1)K;SASDSGCDPASK(1)K 229.68 6.79E-44 3752900 2111 2628.3 2579 3458.5 4076.4 4863.9 4586.3 5356.2 1972.54 1546.93 FALSE TRUE FALSE 2333.044666 2713.458644 2930.452689 3525.444269 3764.067113 4449.468356 4070.237454 5219.19616 1958.812934 1613.625723 1.445840031 1.681591094 1.816067163 2.184796771 2.332676692 2.757435193 2.522417309 3.234452752 1.213920245 1 10.65609027 -5.183439676 0.273710826 0.932053293 4.066463928 0.957167317 0.139939269 0.592524789 0.051993552 0.080588889 0.604898719 6.55E-06 5.183439676 3.134410635 up SLKES(ph)EQES(ph)EEEILAQKK ddPTM_HeLa_SAHA_4h_R1 2 SLKESEQESEEEILAQKK 18 2 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 2 0 S(0.093)LKES(0.937)EQES(0.969)EEEILAQKK;S(0.18)LKES(0.822)EQES(0.998)EEEILAQKK ; 78.272 0.0058659 24247000 8065.8 7700 7473.2 7185 7318.4 9013.6 8372.7 8477.7 7101.4 7820.1 TRUE FALSE FALSE 8914.197851 7949.485052 8491.608777 7324.076065 6757.665773 8245.590571 7430.58176 8260.85271 7051.980779 8157.262782 1.092792777 0.974528499 1.040987523 0.897859522 0.828423204 1.010828116 0.910916071 1.012699104 0.864503323 1 12.99386941 -6.271290967 24.21244896 1.038439698 0.929574747 0.001261188 0.07992138 324.6453252 797886.8495 0.009469999 0.014582512 5.35E-07 6.271290967 -0.108864951 SLKESEQES(ph)EEEILAQK ddPTM_HeLa_SAHA_4h_R1 2 SLKESEQESEEEILAQK 17 1 Q9BW71 Q9BW71 HIRIP3 HIRA-interacting protein 3 1 0 SLKESEQES(1)EEEILAQK;SLKESEQES(1)EEEILAQK ; 92.551 0.0025804 42520000 3737.6 4067.8 3695.7 4328.4 4561.2 4949.1 5051.8 4598.5 4854.3 3740.9 TRUE FALSE FALSE 4130.737917 4199.599389 4199.33075 4412.182441 4211.721841 4527.408837 4483.358168 4480.877029 4820.518531 3902.188507 1.058569546 1.076216431 1.076147588 1.130694336 1.079323009 1.160222995 1.148934287 1.148298454 1.235337176 1 11.93006776 -5.903145274 0.179740965 0.966562472 1.246900645 0 0.075763271 1.572327243 0.107243733 0.042541537 0.121174612 1.25E-06 5.903145274 0.280338173 SLLGDSAPTLHLNKGT(ph)PS(ph)QSPVVGR ddPTM_HeLa_SAHA_4h_R1 3 SLLGDSAPTLHLNKGTPSQSPVVGR 25 1 C9J2I0;B8ZZY2;P52594-2;P52594-3;P52594;P52594-4 C9J2I0 AGFG1 Arf-GAP domain and FG repeat-containing protein 1 2 0 SLLGDSAPT(0.002)LHLNKGT(0.955)PS(0.521)QS(0.522)PVVGR;SLLGDS(0.002)APT(0.11)LHLNKGT(0.889)PS(0.499)QS(0.5)PVVGR;SLLGDSAPT(0.003)LHLNKGT(0.986)PS(0.506)QS(0.506)PVVGR ;; 68.42 0.00075901 21474300 4340.7 5237.4 4376.3 5221.2 5802.6 6472.8 5310.4 5185.3 4964.9 5909.5 TRUE FALSE FALSE 4797.274742 5407.095196 4972.679373 5322.263876 5358.006042 5921.281025 4712.859816 5052.667534 4930.348857 6164.287465 0.778236701 0.877164673 0.806691674 0.863402933 0.869201197 0.960578341 0.764542511 0.819667733 0.799824616 1 12.58971843 -9.454278612 1.154445203 1.001156416 0.838858895 0 0.08098023 0.302758187 0.713513257 0.039691523 0.009560187 3.51E-10 9.454278612 -0.162297522 SLLGDSAPTLHLNKGT(ph)PSQS(ph)PVVGR ddPTM_HeLa_SAHA_4h_R1 2 SLLGDSAPTLHLNKGTPSQSPVVGR 25 1 C9J2I0;B8ZZY2;P52594-2;P52594-3;P52594;P52594-4 C9J2I0 AGFG1 Arf-GAP domain and FG repeat-containing protein 1 2 0 S(0.001)LLGDS(0.001)APT(0.022)LHLNKGT(0.893)PS(0.334)QS(0.75)PVVGR;S(0.001)LLGDS(0.002)APT(0.029)LHLNKGT(0.939)PS(0.293)QS(0.735)PVVGR ; 51.39 0.010052 13593000 1799.42 1494.46 1449.92 1832.03 1493.03 1729.98 1932.93 1474.52 1569.63 1847.58 TRUE FALSE FALSE 1988.691252 1542.881485 1647.507547 1867.49159 1378.634364 1582.575971 1715.431629 1436.803913 1558.706817 1927.238216 1.03188658 0.800566049 0.854854129 0.968998837 0.715341961 0.821162614 0.890098388 0.745524815 0.808777454 1 10.91231919 -7.264284781 24.97170151 1.015057555 0.832311394 0.150475799 0.093775381 112.727738 989314.8254 0.01094006 0.012803952 5.44E-08 7.264284781 -0.18274616 SLLIGVFK ddPTM_HeLa_SAHA_4h_R1 1 SLLIGVFK 8 0 Q9HCK8-2;Q9HCK8;H0YJG4;A0A2R8Y840;C9JFU2;H7C294;A0A087WU44;Q8TD26-3;Q8TD26;Q9P2D1;H3BTW3;Q3L8U1-2;Q3L8U1-3;Q3L8U1 Q9HCK8-2;Q9P2D1;H3BTW3 CHD8;CHD6;CHD9;CHD7 Chromodomain-helicase-DNA-binding protein 8;Chromodomain-helicase-DNA-binding protein 6;Chromodomain-helicase-DNA-binding protein 7;Chromodomain-helicase-DNA-binding protein 9 0 0 113.89 0.005661 196780 64.181 144.94 181.43 304.32 348.7 240.88 324.27 216.57 384.91 302.59 FALSE FALSE TRUE 70.93185205 149.6361511 206.1543356 310.2105537 321.9826813 220.3556688 287.7822862 211.030453 382.23138 315.6361357 0.224726652 0.47407801 0.653139207 0.982810643 1.020107158 0.698131943 0.911753293 0.668587747 1.210987389 1 8.302118572 -6.398369204 6.255825406 0.609626197 0.858802958 0.000256105 0.280538784 0.391069748 18.46815506 0.047791715 0.073183009 4.00E-07 6.398369204 0.249176761 SLLLPPPPFHGS(ph)ISR ddPTM_HeLa_SAHA_4h_R1 1 SLLLPPPPFHGSISR 15 0 A0A2R8YGQ0;A0A2R8Y7I3;A0A2R8YFQ2;A0A2R8Y466;A0A2R8YFJ9;A0A2R8Y5U9;A0A2R8Y7S4;Q6P4D5-2;Q6P4D5 A0A2R8YGQ0 FAM122C Protein FAM122C 1 0 SLLLPPPPFHGS(0.918)IS(0.082)R 77.24 0.017222 5082900 309.03 351.54 436.67 621.86 416.66 2535.4 415.35 6864.4 4109.3 1051.3 TRUE FALSE FALSE 341.5351933 362.9301267 496.1771135 633.8969995 384.7356008 2319.369656 368.6137249 6688.818588 4080.703047 1096.626688 0.311441621 0.33095139 0.452457631 0.578042653 0.350835526 2.11500384 0.336134191 6.09944903 3.721141471 1 10.09885677 -4.259217795 24.99989956 0.682058561 6.0994509 0.649836693 1.092885458 42.08173256 473521.3742 0.072146673 0.642124581 5.51E-05 4.259217795 5.417392339 SLLLPPPPFHGSIS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SLLLPPPPFHGSISR 15 0 A0A2R8YGQ0;A0A2R8Y7I3;A0A2R8YFQ2;A0A2R8Y466;A0A2R8YFJ9;A0A2R8Y5U9;A0A2R8Y7S4;Q6P4D5-2;Q6P4D5 A0A2R8YGQ0 FAM122C Protein FAM122C 1 0 SLLLPPPPFHGS(0.255)IS(0.745)R 74.783 0.020348 6490400 708.25 981.48 564.58 1426 721.87 6799.5 960.08 16268 11453 1894.3 TRUE FALSE FALSE 782.7469846 1013.280596 641.5180222 1453.602292 666.5604766 6220.144347 852.0492716 15851.88812 11373.29764 1975.972543 0.396132521 0.512800949 0.324659381 0.735638912 0.337332864 3.147890069 0.431205016 8.022322055 5.755797406 1 10.94834719 -2.987894636 1.40540778 0.721767023 200 0.504285439 1.823297642 10.09001242 0.868903144 0.117126302 5898.460189 0.001028266 2.987894636 199.278233 SLLLSVNAR ddPTM_HeLa_SAHA_4h_R1 2 SLLLSVNAR 9 0 Q14697;Q14697-2;F5H6X6;E9PKU7;E9PNH1 Q14697 GANAB Neutral alpha-glucosidase AB 0 0 ; ; 110.41 0.0082078 3565700 1624.02 2023.47 3277.9 2809.15 2890 2198.13 2995.49 1139.09 1139.04 1743.08 FALSE FALSE TRUE 1794.841875 2089.031756 3724.595141 2863.52516 2668.568824 2010.836958 2658.429582 1109.953727 1131.113328 1818.232709 0.987135401 1.148935307 2.048469991 1.574894757 1.467671773 1.105929372 1.462095346 0.610457463 0.622094918 1 10.82832114 -6.991132155 24.99778192 0.997825555 1.400689674 0.263150392 0.362058988 216.8565734 611299.1121 0.054118573 0.071068494 1.02E-07 6.991132155 0.40286412 SLLS(ph)SPTK ddPTM_HeLa_SAHA_4h_R1 1 SLLSSPTK 8 0 Q92667-2;Q92667;I3NI36 Q92667-2 AKAP1 "A-kinase anchor protein 1, mitochondrial" 1 0 SLLS(0.77)S(0.229)PT(0.001)K 125.71 0.0026649 15697000 3744.7 9644.1 5915.4 4088.4 7275.8 5532.5 8146.9 5150.9 6510.4 5149.7 TRUE FALSE FALSE 4138.584727 9956.575168 6721.519906 4167.536894 6718.329776 5061.099875 7230.189371 5019.147436 6465.093596 5371.728769 0.770438141 1.853514128 1.25127686 0.775827871 1.250682986 0.942173385 1.34597067 0.934363527 1.203540587 1 12.39117075 SLLSNLDEVK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 SLLSNLDEVKK 11 1 Q8WUM4;Q8WUM4-2 Q8WUM4 PDCD6IP Programmed cell death 6-interacting protein 0 1 SLLSNLDEVK(1)K 150.94 8.35E-06 356030 0 0 0 0 0 82.336 70.985 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 75.32050959 62.99758098 0 0 0 0 SLLSS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 1 SLLSSPTK 8 0 Q92667-2;Q92667;I3NI36 Q92667-2 AKAP1 "A-kinase anchor protein 1, mitochondrial" 1 0 SLLS(0.118)S(0.882)PTK 166.07 8.18E-06 18211000 5027.4 11851 6264.7 4668.5 8560.3 6732.9 9701.6 6876.5 7127.3 6789 TRUE FALSE FALSE 5556.204999 12234.98018 7118.420691 4758.865568 7904.411663 6159.219042 8609.950435 6700.609087 7077.700539 7081.707015 0.784585551 1.727687993 1.005184298 0.671994133 1.116173212 0.869736496 1.21580156 0.946185584 0.99943425 1 12.78988144 SLLVQTK ddPTM_HeLa_SAHA_4h_R1 2 SLLVQTK 7 0 G5E9G0;P39023 G5E9G0 RPL3 60S ribosomal protein L3 0 0 ; ; 116.73 0.0061222 6033800 6879.6 7835.2 8518 7957.6 8834.6 5674.9 8935.3 5036.4 3371.8 5958.3 FALSE FALSE TRUE 7603.227893 8089.065621 9678.78868 8111.630855 8157.694857 5191.366594 7929.876528 4907.576181 3348.335369 6215.191472 1.223329631 1.301499022 1.557279244 1.30512968 1.312541197 0.835270581 1.275886119 0.789609814 0.538734065 1 12.60158312 -4.250938994 24.183474 1.168241177 0.789609475 0.130485241 0.275453288 1139.843528 2625095.904 0.02895792 0.533908424 5.61E-05 4.250938994 -0.378631702 SLMS(ph)S(ph)PEDLTKDFEELKAEEVDVTK ddPTM_HeLa_SAHA_4h_R1 5 SLMSSPEDLTKDFEELKAEEVDVTK 25 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 S(0.016)LMS(0.662)S(0.662)PEDLT(0.66)KDFEELKAEEVDVTK;S(0.036)LMS(0.966)S(0.966)PEDLT(0.033)KDFEELKAEEVDVTK;S(0.199)LMS(0.766)S(0.766)PEDLT(0.268)KDFEELKAEEVDVTK;S(0.008)LMS(0.973)S(0.88)PEDLT(0.139)KDFEELKAEEVDVTK;S(0.11)LMS(0.91)S(0.935)PEDLT(0.045)KDFEELKAEEVDVTK ;;;; 82.593 4.98E-05 235468100 13236.12 15042.25 14477.96 16518.39 17908.26 18017.35 18930.04 16644.16 16554.55 15953.84 TRUE FALSE FALSE 14628.35583 15529.62877 16450.94099 16838.12732 16536.13299 16482.17042 16799.98208 16218.42649 16439.34554 16641.68812 0.879018747 0.93317629 0.988537994 1.011804043 0.993657186 0.990414572 1.009511893 0.974566184 0.987841223 1 14.02251417 -6.707140136 5.733472081 0.940550531 0.996437468 0.296791107 0.032512477 0.212629667 14.76791916 0.007280113 0.01026288 1.96E-07 6.707140136 0.055886936 SLMS(ph)SPEDLTKDFEELKAEEVDVTK ddPTM_HeLa_SAHA_4h_R1 2 SLMSSPEDLTKDFEELKAEEVDVTK 25 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 S(0.013)LMS(0.491)S(0.491)PEDLT(0.004)KDFEELKAEEVDVTK;S(0.012)LMS(0.433)S(0.237)PEDLT(0.318)KDFEELKAEEVDVTK ; 60.951 0.0027668 7554900 1376.84 1515.48 1647.7 2004.99 1551.73 2100.96 2126.35 1721.14 1660.49 1850.34 TRUE FALSE FALSE 1521.662348 1564.582546 1872.239975 2043.799481 1432.836783 1921.946388 1887.087502 1677.115731 1648.934515 1930.117213 0.788378207 0.810615302 0.970013615 1.058899152 0.742357393 0.995766669 0.977706167 0.86891911 0.854318331 1 10.91447275 SLMSS(ph)PEDLTK ddPTM_HeLa_SAHA_4h_R1 2 SLMSSPEDLTK 11 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 SLMS(0.054)S(0.946)PEDLTK;SLMS(0.125)S(0.875)PEDLTK ; 221.6 6.96E-16 19864900 4359.4 6024.1 4078.3 5003.4 5388.4 6837.9 5451.7 4550.3 8998.8 5575.2 TRUE FALSE FALSE 4817.941694 6219.284793 4634.069485 5100.248042 4975.541956 6255.272451 4838.260368 4433.909915 8936.176618 5815.574156 0.828455035 1.069418879 0.796837829 0.876998196 0.855554726 1.075607031 0.831948873 0.762419977 1.536594045 1 12.50570592 -9.544692728 1.248671125 1.001345289 0.885322914 0.173698599 0.198415045 0.716355942 1.962355042 0.072315492 0.016336568 2.85E-10 9.544692728 -0.116022375 SLNFS(ph)MS(ph)MNNT(ph)T(ph)EDILGMVQIPRQELRK ddPTM_HeLa_SAHA_4h_R1 1 SLNFSMSMNNTTEDILGMVQIPRQELRK 28 2 A0A0C4DFV3;Q8IZF3 A0A0C4DFV3 ADGRF4;GPR115 Probable G-protein coupled receptor 115 4 0 S(0.455)LNFS(0.583)MS(0.971)MNNT(0.995)T(0.997)EDILGMVQIPRQELRK 44.317 0.012992 5947000 1073.7 958.58 1065.8 1232.6 1160.5 1471.2 1643.3 896.12 1444.5 964.31 TRUE FALSE FALSE 1186.636692 989.6386209 1211.041674 1256.458755 1071.582741 1345.845483 1458.391559 873.198548 1434.447607 1005.886123 1.179692875 0.983847573 1.203955046 1.249106361 1.065312182 1.337970027 1.449857519 0.86808887 1.426053679 1 9.974251271 -11.12336272 0.209190517 0.704627286 1.224509321 0 0.207245361 24.89435273 0.751019464 3.540727561 0.168404469 7.53E-12 11.12336272 0.519882034 SLNILTAFQK ddPTM_HeLa_SAHA_4h_R1 2 SLNILTAFQK 10 0 F8VY02;P30040 F8VY02 ERP29 Endoplasmic reticulum resident protein 29 0 0 ; ; 167.09 4.19E-11 2027290 552.64 730.66 1477.39 1171.25 1068.43 364.29 1092.86 350.109 118.03 633.83 FALSE FALSE TRUE 610.7692108 754.3338634 1678.721015 1193.921237 986.5671242 333.2504426 969.8885166 341.1537187 117.2086196 661.1575132 0.923787749 1.140929126 2.53906366 1.805804538 1.492181673 0.504040922 1.466955298 0.515994618 0.177277906 1 9.368850208 -5.272215 24.84987592 1.1932291 0.892792755 0.084325842 0.635884251 1769.347719 4080329.111 0.088422457 0.199589185 5.34E-06 5.272215 -0.300436345 SLPAPVAQRPDS(ph)PGGGLQAPGQK ddPTM_HeLa_SAHA_4h_R1 2 SLPAPVAQRPDSPGGGLQAPGQK 23 1 Q5JVS0-2;Q5JVS0 Q5JVS0-2 HABP4 Intracellular hyaluronan-binding protein 4 1 0 SLPAPVAQRPDS(1)PGGGLQAPGQK;S(0.001)LPAPVAQRPDS(0.999)PGGGLQAPGQK ; 97.784 7.99E-05 19561400 3652.8 3869.4 3559.6 4257 4254.1 4681.6 4645.2 4128.8 4612.8 3468 TRUE FALSE FALSE 4037.018264 3994.771099 4044.68375 4339.400391 3928.151777 4282.701342 4122.509871 4023.191274 4580.699149 3617.522452 1.115962186 1.104283706 1.118081174 1.199550369 1.085867974 1.183876921 1.139594826 1.11213996 1.266253136 1 11.82078626 -9.068964447 0.413204393 0.966556965 1.144902184 0 0.089380969 0.726855822 0.18302651 0.056206749 0.010540723 8.53E-10 9.068964447 0.178345219 SLPELDRDKS(ph)DSDTEGLLFSR ddPTM_HeLa_SAHA_4h_R1 1 SLPELDRDKSDSDTEGLLFSR 21 2 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 S(0.001)LPELDRDKS(0.543)DS(0.386)DT(0.07)EGLLFSR 48.567 0.014232 37507000 2006.6 2083.2 2007.6 1647 2238 2222.2 2760.2 1953.2 2130.6 2177.3 TRUE FALSE FALSE 2217.663395 2150.697047 2281.185273 1678.880067 2066.524923 2032.856058 2449.615032 1903.239972 2115.772981 2271.174058 0.976439206 0.946953862 1.004407947 0.739212418 0.9098928 0.895068368 1.078567722 0.837998288 0.931576765 1 11.14922256 SLPELDRDKSDS(ph)DTEGLLFSR ddPTM_HeLa_SAHA_4h_R1 1 SLPELDRDKSDSDTEGLLFSR 21 2 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 S(0.002)LPELDRDKS(0.108)DS(0.842)DT(0.047)EGLLFSR 48.567 0.014232 40387000 1589.4 1576.4 1866.5 1761.2 2169.6 2012.8 2199.1 1691.4 2048.9 1664.8 TRUE FALSE FALSE 1756.580384 1627.476394 2120.8569 1795.290573 2003.365717 1841.298116 1951.65148 1648.136437 2034.641538 1736.577675 1.011518465 0.937174546 1.221285365 1.033809543 1.153628626 1.060302768 1.123849228 0.949071533 1.171638659 1 10.76203123 -6.794762118 24.99994956 1.000471417 1.09079261 0.061217166 0.089307387 167.2214596 125455.1644 0.010285455 0.013518182 1.60E-07 6.794762118 0.090321193 SLPSSSQLKGS(ph)PQAISR ddPTM_HeLa_SAHA_4h_R1 1 SLPSSSQLKGSPQAISR 17 1 Q8WYP5;Q8WYP5-3;Q8WYP5-2 Q8WYP5 AHCTF1 Protein ELYS 1 0 SLPS(0.001)SS(0.001)QLKGS(0.994)PQAIS(0.004)R 75.057 0.0078193 15134000 1477.8 892.7 605.2 797.24 1063.8 834.81 914.13 921.77 1051.1 1123.3 TRUE FALSE FALSE 1633.241784 921.6240657 687.6735043 812.671733 982.2918738 763.6794915 811.2696865 898.1924581 1043.78531 1171.73096 1.393870982 0.786549214 0.58688686 0.693565128 0.838325441 0.651753276 0.692368568 0.766551784 0.89080629 1 10.19442564 -7.135702022 5.849819792 1.1852117 0.706322922 0.578362359 0.142996119 0.099481189 4.374566001 0.02593308 0.031874246 7.32E-08 7.135702022 -0.478888777 SLPSTSSTSSTK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 SLPSTSSTSSTKR 13 1 A0A590UJA3;S4R3W2;A0A590UJU2;A0A590UK38;A0A590UK73;B1AKN7;B1AKN5;A0A590UK09;B1AKN8;Q12857-2;Q12857-3;Q12857;Q12857-4 A0A590UJA3 NFIA Nuclear factor 1;Nuclear factor 1 A-type 0 1 ; SLPSTSSTSSTK(1)R;SLPSTSSTSSTK(1)R 293.88 1.84E-117 40169000 53.209 148.69 0 136.22 282.99 374.31 191.63 249.82 0 177.276 FALSE TRUE FALSE 58.80576675 153.5076536 0 138.8567351 261.3073673 342.4166822 170.0672881 243.4299661 0 184.9192359 0.31800784 0.830133506 0 0.750904763 1.413089158 1.851709372 0.919684138 1.316412351 0 1 7.530751496 -5.807115474 5.349797948 0.627973939 1.378104696 0.543021216 0.388487535 0.129081792 8.379017171 0.056192516 0.104999711 1.56E-06 5.807115474 0.750130757 SLPTPAVLLS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 1 SLPTPAVLLSPTK 13 0 Q8WX93-3;Q8WX93;Q8WX93-8;Q8WX93-2;Q8WX93-9;Q8WX93-5;A0A3B3ISX8 Q8WX93-3 PALLD Palladin 1 0 SLPTPAVLLS(0.824)PT(0.176)K 114.7 0.00063607 0 568.45 814.29 871.07 504.3 730.78 665.94 870.4 598.92 646.49 745.44 TRUE FALSE FALSE 628.2421791 840.6735303 989.7748833 514.0614557 674.7877943 609.1981655 772.4603012 583.6004936 641.9910235 777.5795665 0.807945844 1.081141489 1.272892095 0.661104635 0.867805461 0.783454442 0.99341641 0.75053476 0.825627436 1 9.602846498 SLPTTVPES(ph)PNYR ddPTM_HeLa_SAHA_4h_R1 6 SLPTTVPESPNYR 13 0 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50;H0YC33 Q6PKG0 LARP1 La-related protein 1 1 0 SLPTTVPES(1)PNYR;SLPTTVPES(1)PNYR;SLPTTVPES(1)PNYR;SLPTTVPES(1)PNYR;SLPTTVPES(1)PNYR;SLPTTVPES(1)PNYR ;;;;; 279.65 2.35E-67 1660990400 14330.3 13994.47 12410.63 13851.17 15122.5 17333.8 16053.8 16232.7 16076.9 13861.2 TRUE FALSE FALSE 15837.6267 14447.90001 14101.88602 14119.27942 13963.81732 15856.86272 14247.38417 15817.49104 15965.01954 14458.82417 1.095360627 0.999244464 0.975313474 0.976516435 0.965764377 1.096691027 0.985376405 1.093968006 1.10417136 1 13.81966261 -11.53257277 11.34094196 0.693360795 1.031156557 0 0.056708407 0 0 0 0.007533355 2.93E-12 11.53257277 0.337795762 SLQSVAEER ddPTM_HeLa_SAHA_4h_R1 1 SLQSVAEER 9 0 P61313;E7EX53;A0A2R8Y738;A0A2R8YEM3;E7EQV9;P61313-2 P61313 RPL15 60S ribosomal protein L15;Ribosomal protein L15 0 0 131.12 0.011461 14654000 3165.6 3300.2 2541.7 3463.4 3100 3775.1 3817.3 3628.6 4308.9 3161.8 FALSE FALSE TRUE 3498.572332 3407.128645 2888.069639 3530.439115 2862.47867 3453.440242 3387.767357 3535.785666 4278.914014 3298.120671 1.06077754 1.033051542 0.875671307 1.070439643 0.867912049 1.047093356 1.027181142 1.072060733 1.297379459 1 11.68742847 -10.10419621 2.992987369 0.999518541 1.017653228 0 0.118124165 1.872011608 30.61197553 0.061881634 0.0100949 7.87E-11 10.10419621 0.018134687 SLRS(ph)LEEQDQETLR ddPTM_HeLa_SAHA_4h_R1 1 SLRSLEEQDQETLR 14 1 P48681 P48681 NES Nestin 1 0 S(0.002)LRS(0.998)LEEQDQETLR 177.39 4.49E-06 4298500 296.52 410.58 355.41 302.46 473.73 428.81 381.76 551.28 392.86 188.62 TRUE FALSE FALSE 327.7093341 423.8830614 403.8434239 308.3145507 437.4329097 392.2729756 338.8033601 537.1790558 390.1260553 196.7523313 1.665593144 2.154399181 2.052547084 1.567018539 2.223266718 1.993739912 1.721978885 2.730229687 1.982828121 1 7.62023692 -9.683721249 0.18438849 1.62E-12 2.38450535 0.037728016 0.428048811 5.114351069 0.236904181 3.028078157 0.564721763 2.07E-10 9.683721249 2.38450535 SLRVDIAEGR ddPTM_HeLa_SAHA_4h_R1 1 SLRVDIAEGR 10 1 Q15056-2;Q15056 Q15056-2 EIF4H Eukaryotic translation initiation factor 4H 0 0 123.11 0.0039793 4545000 1884.4 1610.8 2118.5 2100.9 2140.9 1816.6 2089.5 1950.2 1293.8 1982.9 FALSE FALSE TRUE 2082.609838 1662.990977 2407.198147 2141.565957 1976.864705 1661.81546 1854.383961 1900.316708 1284.79634 2068.392523 1.006873606 0.804001638 1.163801416 1.035376957 0.955749299 0.803433314 0.896533874 0.918740851 0.621156926 1 11.01429428 -5.488818233 6.954171099 1.001916629 0.875446602 0 0.147992391 0.192949403 30.2284859 0.011726841 0.025832246 3.24E-06 5.488818233 -0.126470027 SLS(ph)AASCPPISLPAAASR ddPTM_HeLa_SAHA_4h_R1 1 SLSAASCPPISLPAAASR 18 0 P41250;F8WCK4 P41250 GARS Glycine--tRNA ligase 1 0 S(0.001)LS(0.891)AAS(0.109)CPPISLPAAASR 97.129 0.0023487 2586000 1239.6 1397.3 1162.6 1009.5 1324.3 1329.3 1285.2 1297.6 1282.3 1283 TRUE FALSE FALSE 1369.986815 1442.573437 1321.033073 1029.040332 1222.83242 1216.036162 1140.585914 1264.409271 1273.37637 1338.316409 1.023664364 1.077901629 0.987085763 0.768906609 0.913709502 0.908631287 0.8522543 0.944776035 0.951476319 1 10.38620353 -6.500428655 24.5480858 1.017253593 0.879771015 0.608785724 0.052537695 265.3075739 290101.0297 0.007010705 0.010655017 3.16E-07 6.500428655 -0.137482578 SLS(ph)AIDR ddPTM_HeLa_SAHA_4h_R1 1 SLSAIDR 7 0 O95831-6;O95831-4;O95831-3;O95831 O95831-6 AIFM1 "Apoptosis-inducing factor 1, mitochondrial" 1 0 S(0.031)LS(0.969)AIDR 86.67 0.022804 9270600 1844.1 2622.8 1831 1298.4 2638.4 1964.5 2890 2002.7 1520.2 2278.9 TRUE FALSE FALSE 2038.070899 2707.780441 2080.519145 1323.53241 2436.246362 1797.113548 2564.809594 1951.473834 1509.620804 2377.154532 0.857357345 1.139084735 0.875214092 0.556771717 1.02485822 0.755993573 1.078941045 0.820928471 0.63505371 1 11.21501998 -10.69021986 0.383670903 1.142566394 0.880257134 0 0.195971045 16.00398619 1.356231752 2.03630178 0.048534376 2.04E-11 10.69021986 -0.26230926 SLS(ph)ASPALGSTK ddPTM_HeLa_SAHA_4h_R1 1 SLSASPALGSTK 12 0 O95544;O95544-2 O95544 NADK NAD kinase 1 0 S(0.008)LS(0.496)AS(0.496)PALGSTK 167.73 9.69E-05 36317000 2627.3 1970 1871.2 2563.3 2088.4 2458.3 2026.9 1837.1 2053.3 2185.2 TRUE FALSE FALSE 2903.651468 2033.829293 2126.197391 2612.916378 1928.387243 2248.83901 1798.827877 1790.109642 2039.010918 2279.414666 1.273858378 0.892259457 0.932782184 1.146310242 0.846001069 0.986586181 0.789162193 0.785337424 0.894532684 1 11.15444769 -5.317370948 0.596624173 1.114199913 0.735835008 0.150243301 0.135963846 1.066066257 0.509491944 0.028728943 0.221173496 4.82E-06 5.317370948 -0.378364905 SLS(ph)CLSDLDGGVALEPR ddPTM_HeLa_SAHA_4h_R1 2 SLSCLSDLDGGVALEPR 17 0 O95685 O95685 PPP1R3D Protein phosphatase 1 regulatory subunit 3D 1 0 S(0.003)LS(0.997)CLSDLDGGVALEPR;S(0.058)LS(0.942)CLSDLDGGVALEPR ; 201.4 1.92E-15 14404000 1756.95 1904.12 1834.9 1153.18 2182.26 2685.8 2123.51 1667.16 1276.62 1674.58 TRUE FALSE FALSE 1941.754062 1965.814737 2084.950616 1175.501466 2015.05571 2456.95473 1884.567066 1624.516461 1267.735897 1746.779339 1.11161955 1.125393857 1.193597022 0.672953613 1.153583435 1.406562738 1.078881015 0.930006684 0.725756178 1 10.77048166 -9.339017287 1.043654913 0.999584352 1.089645084 0.087577459 0.198528276 1.870923858 3.622605838 0.124427772 0.032107258 4.58E-10 9.339017287 0.090060732 SLS(ph)DFTGPPQLQALK ddPTM_HeLa_SAHA_4h_R1 1 SLSDFTGPPQLQALK 15 0 O95425-3;O95425-4;O95425 O95425-3 SVIL Supervillin 1 0 S(0.141)LS(0.858)DFTGPPQLQALK 137.21 3.87E-06 0 504.88 476.52 222.28 455.19 484.84 539.86 461.75 404.48 329.09 538.79 TRUE FALSE FALSE 557.9855949 491.9595607 252.5711608 464.0008607 447.6916639 493.8608908 409.7926747 394.1339873 326.7998359 562.0198737 0.992821822 0.87534193 0.449398985 0.825595112 0.796576215 0.87872496 0.729142676 0.701281228 0.581473808 1 9.134477336 -6.997280525 24.99782425 0.993319347 0.737372389 0 0.168887388 46.25814485 425205.8327 0.017111383 0.022417944 1.01E-07 6.997280525 -0.255946957 SLS(ph)DPSR ddPTM_HeLa_SAHA_4h_R1 1 SLSDPSR 7 0 Q96PE2 Q96PE2 ARHGEF17 Rho guanine nucleotide exchange factor 17 1 0 S(0.004)LS(0.996)DPSR 95.815 0.016351 7247200 7394.2 7186.3 5623.8 7074 8430.7 9364.9 8442.3 7970.7 7950.7 7441 TRUE FALSE FALSE 8171.955882 7419.140835 6390.182177 7210.927499 7784.741587 8566.957835 7492.350185 7766.821035 7895.370431 7761.817925 1.052840451 0.955850924 0.823284215 0.929025593 1.002953388 1.103730842 0.965282909 1.00064458 1.017206344 1 12.92217888 -7.251314767 24.39888054 1.024952435 0.967945933 0.122704685 0.066923703 835.6732425 2013856.309 0.01223007 0.014880272 5.61E-08 7.251314767 -0.057006502 SLS(ph)DSESDDSK ddPTM_HeLa_SAHA_4h_R1 4 SLSDSESDDSK 11 0 Q13185;S4R2Y4 Q13185 CBX3 Chromobox protein homolog 3 1 0 S(0.001)LS(0.767)DS(0.201)ES(0.031)DDSK;S(0.01)LS(0.912)DS(0.023)ES(0.054)DDSK;S(0.084)LS(0.668)DS(0.246)ES(0.002)DDSK;S(0.366)LS(0.619)DS(0.015)ESDDSK ;;; 210.15 3.97E-11 785343300 5902.5 7628.2 5065.57 6933.27 6942.8 9383 7594.9 6478.01 8120.2 8568.8 TRUE FALSE FALSE 6523.352032 7875.358685 5755.879499 7067.473467 6410.844164 8583.515613 6740.301863 6312.311884 8063.690867 8938.242903 0.729824878 0.881085776 0.643960962 0.790700537 0.717237631 0.960313532 0.754096967 0.706213956 0.902156157 1 13.12577554 -9.340650515 0.873497608 1.011974497 0.772965054 0.365488335 0.090503782 0.441234911 0.553259456 0.072520335 0.015640643 4.56E-10 9.340650515 -0.239009444 SLS(ph)DSESDDSKSK ddPTM_HeLa_SAHA_4h_R1 2 SLSDSESDDSKSK 13 1 Q13185;S4R2Y4 Q13185 CBX3 Chromobox protein homolog 3 1 0 S(0.269)LS(0.462)DS(0.269)ESDDSKSK;SLS(0.994)DS(0.006)ESDDSKSK ; 193.45 5.14E-07 67978000 5341.3 3515.26 4331 4816.6 5056.9 4898.6 6366.5 6072.3 3034.51 5391.3 TRUE FALSE FALSE 5903.122441 3629.15673 4921.206125 4909.832258 4669.441414 4481.211721 5650.124664 5916.979359 3013.392598 5623.745327 1.049678123 0.645327361 0.875076277 0.873053805 0.830308121 0.796837598 1.004690706 1.052142125 0.535833759 1 12.45731555 SLS(ph)EQPVMDTATATEQAK ddPTM_HeLa_SAHA_4h_R1 2 SLSEQPVMDTATATEQAK 18 0 P18615;P18615-3;A0A0A0MT02;E9PD43;A0A0A0MSN9;P18615-4;A0A0G2JI50;A2ABK4 P18615 NELFE Negative elongation factor E 1 0 S(0.029)LS(0.969)EQPVMDT(0.001)ATATEQAK;S(0.214)LS(0.786)EQPVMDTATATEQAK ; 206.8 1.00E-16 96755200 3022.3 4653.2 3770.2 1699.83 3189.5 4960.3 4463.3 2019.86 2030.65 3731 TRUE FALSE FALSE 3340.199381 4803.966733 4283.983222 1732.732668 2945.121199 4537.654534 3961.077737 1968.194906 2016.518541 3891.861669 0.858252339 1.234362149 1.100754237 0.44521949 0.756738407 1.165934178 1.017784822 0.505720674 0.51813726 1 11.92624472 SLS(ph)ESSVIMDR ddPTM_HeLa_SAHA_4h_R1 3 SLSESSVIMDR 11 0 H3BSS6;Q9H2Y7;A0A0C4DGM5;Q9H2Y7-2;H3BNX5 H3BSS6 ZNF106 Zinc finger protein 106 1 0 SLS(0.77)ES(0.115)S(0.115)VIMDR;S(0.046)LS(0.954)ESSVIMDR;S(0.012)LS(0.987)ESSVIMDR ;; 166.24 0.00014146 75757000 3919.44 4230.65 3897.68 4104.89 4640.42 5952.87 5598.63 4369.27 3831.29 3754.2 TRUE FALSE FALSE 4331.704682 4367.725836 4428.835532 4184.346082 4284.872022 5445.651986 4968.657418 4257.5104 3804.627741 3916.061935 1.10613794 1.115336251 1.130941136 1.068508658 1.094178819 1.390593938 1.268789284 1.087191794 0.971544323 1 11.93518787 -6.60346082 0.215115185 0.96948258 1.297978456 0.43256195 0.087981648 2.709030517 0.371544806 0.168821802 0.314333338 2.49E-07 6.60346082 0.328495877 SLS(ph)FEMQQDELIEKPMSPMQYAR ddPTM_HeLa_SAHA_4h_R1 2 SLSFEMQQDELIEKPMSPMQYAR 23 1 Q9Y6Y0 Q9Y6Y0 IVNS1ABP Influenza virus NS1A-binding protein 1 0 S(0.08)LS(0.851)FEMQQDELIEKPMS(0.034)PMQY(0.034)AR;S(0.082)LS(0.918)FEMQQDELIEKPMSPMQYAR ; 64.574 0.0023984 58322000 858.77 1047.1 956.34 983.49 1009.39 1392.13 1203.87 1012.22 1192.29 1267.23 TRUE FALSE FALSE 949.0993688 1081.026727 1086.665035 1002.526871 932.0507563 1273.512692 1068.407379 986.3288781 1183.992757 1321.866487 0.717999418 0.817803264 0.822068678 0.758417647 0.70510204 0.963420061 0.808256651 0.746163768 0.895697688 1 10.36836075 -9.428633774 1.109559073 1.002239782 0.789467337 0.380400513 0.075325551 0.308723723 0.668320328 0.051669994 0.012433567 3.73E-10 9.428633774 -0.212772444 SLS(ph)FSDEMSSCR ddPTM_HeLa_SAHA_4h_R1 1 SLSFSDEMSSCR 12 0 Q14153-2;Q14153 Q14153-2 FAM53B Protein FAM53B 1 0 S(0.059)LS(0.939)FS(0.002)DEMSSCR 106.54 0.0038221 3265300 654.39 506.4 391.67 561.54 622.22 872.85 654.39 691.17 677.46 719.37 TRUE FALSE FALSE 723.2217426 522.8076923 445.0447479 572.4094187 574.545638 798.4782695 580.7563149 673.4908722 672.7455007 750.3855612 0.963800185 0.696718753 0.593088101 0.762820406 0.765667235 1.064090663 0.773943883 0.897526428 0.89653311 1 9.551488258 -7.369553697 6.498739675 0.983990105 0.793406819 0.262807187 0.119887256 0.203428588 10.67240542 0.020976936 0.023904561 4.27E-08 7.369553697 -0.190583286 SLS(ph)GSPLK ddPTM_HeLa_SAHA_4h_R1 2 SLSGSPLK 8 0 Q9UIG0-2;Q9UIG0 Q9UIG0-2 BAZ1B Tyrosine-protein kinase BAZ1B 1 0 S(0.024)LS(0.615)GS(0.361)PLK;S(0.05)LS(0.597)GS(0.354)PLK ; 112.11 0.0057317 126507000 8330.1 7128.7 4868.4 6143 6600.3 6560.3 7062.5 6918 7720 7294.9 TRUE FALSE FALSE 9206.298138 7359.674557 5531.840198 6261.906648 6094.58644 6001.325533 6267.808913 6741.047577 7666.275891 7609.418839 1.209855619 0.967179585 0.726972758 0.822915229 0.800926663 0.78867068 0.823690882 0.885882052 1.007471931 1 12.89357056 -6.980641259 5.186436427 1.099007355 0.809620986 0.761814288 0.066573355 0.069749425 5.345081784 0.013795682 0.017921733 1.05E-07 6.980641259 -0.289386369 SLS(ph)GSSPCPK ddPTM_HeLa_SAHA_4h_R1 2 SLSGSSPCPK 10 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SLS(0.996)GS(0.003)SPCPK;SLS(0.636)GS(0.35)S(0.013)PCPK ; 107.03 0.0065717 28766000 2966.4 3211.4 2621.2 2589.96 2817.8 3789.3 3623 2620.3 3390.6 3493.1 TRUE FALSE FALSE 3278.419562 3315.451467 2978.403485 2640.092421 2601.900773 3466.430322 3215.330505 2553.27652 3367.004539 3643.704636 0.899748989 0.909912245 0.81741079 0.724562687 0.714081143 0.951347782 0.882434452 0.700736414 0.924060777 1 11.8311903 -7.617796741 0.655077867 0.983514844 0.802024606 0.390929292 0.079152633 0.432646779 0.414882161 0.026998667 0.024721743 2.41E-08 7.617796741 -0.181490238 SLS(ph)MDSQVPVYSPSIDLK ddPTM_HeLa_SAHA_4h_R1 2 SLSMDSQVPVYSPSIDLK 18 0 Q9ULJ3-2;Q9ULJ3 Q9ULJ3-2 ZBTB21 Zinc finger and BTB domain-containing protein 21 1 0 S(0.03)LS(0.97)MDSQVPVYSPSIDLK;S(0.005)LS(0.912)MDS(0.083)QVPVYSPSIDLK ; 194.19 3.48E-13 10980500 8114.1 7535 6546.8 7212.1 7567.8 8775.7 7920.7 6863.3 8252.1 7914.4 TRUE FALSE FALSE 8967.578267 7779.138944 7438.96381 7351.700624 6987.956799 8027.960989 7029.44199 6687.746724 8194.672964 8255.628516 1.086238104 0.942283065 0.901077828 0.890507683 0.846447582 0.972422751 0.851472662 0.810083292 0.992616486 1 13.01116234 -7.011076051 3.113050794 1.040529636 0.880981575 0.655634655 0.047348114 0.10730891 2.13601547 0.008501532 0.010966106 9.75E-08 7.011076051 -0.159548061 SLS(ph)MVDLQDAR ddPTM_HeLa_SAHA_4h_R1 1 SLSMVDLQDAR 11 0 H0Y3A3;A0A3B3ITG3;Q5VWQ8-3;Q5VWQ8-4;Q5VWQ8-2;Q5VWQ8-5;Q5VWQ8 H0Y3A3 DAB2IP Disabled homolog 2-interacting protein 1 0 S(0.045)LS(0.955)MVDLQDAR 187.74 1.07E-06 6105700 1615.1 1394.4 1324.5 1498.4 1996.6 1758.6 1831 1789 1077.6 1367.1 TRUE FALSE FALSE 1784.983628 1439.579475 1504.995962 1527.403699 1843.620939 1608.757386 1624.971061 1743.23997 1070.100894 1426.042371 1.251704482 1.009492778 1.055365529 1.071078763 1.292823395 1.128127339 1.13949704 1.2224321 0.750399087 1 10.47780113 -9.606144534 1.402452641 0.999873724 1.155963404 0.371553688 0.117623739 0.441882248 1.557799032 0.064632452 0.014846037 2.48E-10 9.606144534 0.15608968 SLS(ph)NSNPDISGTPTSPDDEVR ddPTM_HeLa_SAHA_4h_R1 1 SLSNSNPDISGTPTSPDDEVR 21 0 Q96N67-2;Q96N67-6;Q96N67;Q96N67-4;Q96N67-3;Q96N67-5;A0A0U1RRC1;A0A0U1RQJ5 Q96N67-2 DOCK7 Dedicator of cytokinesis protein 7 1 0 S(0.002)LS(0.743)NS(0.256)NPDISGTPTSPDDEVR 313.08 8.29E-109 34373000 477.91 458.46 321.72 408.24 530.26 668.17 530.28 617.79 553.24 513.92 TRUE FALSE FALSE 528.1787665 473.3144048 365.5623262 416.1420755 489.6315934 611.238157 470.6114988 601.9878263 549.3899578 536.0776063 0.985265492 0.882921426 0.681920531 0.776272075 0.913359535 1.140204608 0.877879421 1.122949027 1.024832881 1 9.06629806 -4.244920115 22.89199289 0.949118833 1.122949469 0.157138933 0.125757182 1621.841518 2247387.871 0.018588415 0.590958411 5.69E-05 4.244920115 0.173830636 SLS(ph)PDEER ddPTM_HeLa_SAHA_4h_R1 1 SLSPDEER 8 0 Q5UIP0;Q5UIP0-2;H7C2B5 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 S(0.098)LS(0.902)PDEER 99.53 0.011377 9324100 2179.5 2105.1 1756.6 2047.2 2635.5 2932.1 2564.4 2461.7 2386.9 2662.7 TRUE FALSE FALSE 2408.74981 2173.306621 1995.9803 2086.826516 2433.568559 2682.268584 2275.846963 2398.733278 2370.289369 2777.502028 0.867236022 0.782468059 0.718624246 0.751332131 0.876171659 0.965712557 0.819386247 0.863629713 0.853388889 1 11.43957225 -8.527899834 0.88457615 0.986815924 0.828704791 0.113474533 0.078528701 0.371216165 0.595992353 0.029859311 0.015681261 2.97E-09 8.527899834 -0.158111133 SLS(ph)PFR ddPTM_HeLa_SAHA_4h_R1 1 SLSPFR 6 0 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7;A0A087WY36;H0YMW2;H0YLH1 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 SLS(1)PFR 95.815 0.017175 9523800 5807.5 5121.5 5293.4 5827.9 6453.5 6389.8 7190.9 4685 3764.1 5476.2 TRUE FALSE FALSE 6418.359496 5287.43996 6014.756985 5940.707432 5959.034224 5845.353092 6381.761007 4565.164484 3737.905322 5712.305782 1.123602227 0.92562271 1.052947306 1.039984143 1.043192443 1.023291349 1.117195271 0.799180691 0.654360159 1 12.47985749 -4.251532129 24.74379109 1.048609628 0.799180535 0.062509341 0.135651312 622.7890272 1555406.825 0.00823877 0.146577375 5.60E-05 4.251532129 -0.249429093 SLS(ph)PFRR ddPTM_HeLa_SAHA_4h_R1 1 SLSPFRR 7 1 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7;A0A087WY36;H0YMW2;H0YLH1 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 SLS(1)PFRR 72.607 0.018272 19519000 2848.7 2360.1 2307.1 2397.4 2269.8 2778.3 2761 2463.8 2337.8 2240 TRUE FALSE FALSE 3148.339336 2436.568789 2621.499573 2443.805144 2095.888414 2541.57321 2450.325013 2400.779564 2321.531059 2336.577362 1.347414978 1.042793972 1.121939986 1.045890961 0.896990807 1.087733388 1.048681312 1.027477028 0.993560537 1 11.19018109 -6.55961486 1.869982254 1.16108131 1.020929824 0.011323803 0.11048374 0.458861416 3.22977197 0.023113026 0.036119176 2.76E-07 6.55961486 -0.140151486 SLS(ph)PGAASSSSGDGDGKEGLEEPK ddPTM_HeLa_SAHA_4h_R1 3 SLSPGAASSSSGDGDGKEGLEEPK 24 1 Q6ZN18-2;Q6ZN18 Q6ZN18-2 AEBP2 Zinc finger protein AEBP2 1 0 S(0.098)LS(0.557)PGAAS(0.108)S(0.108)S(0.02)S(0.108)GDGDGKEGLEEPK;S(0.041)LS(0.948)PGAAS(0.003)S(0.002)S(0.002)S(0.003)GDGDGKEGLEEPK;S(0.022)LS(0.717)PGAAS(0.196)S(0.009)S(0.009)S(0.048)GDGDGKEGLEEPK ;; 112.26 7.69E-06 29002300 4875.01 5837.17 4464.32 4801.45 4989.2 6122.46 5726 4571.88 7436.1 5095.54 TRUE FALSE FALSE 5387.785919 6026.298138 5072.69428 4894.389008 4606.928574 5600.791964 5081.69541 4454.93793 7384.351575 5315.233666 1.013649871 1.133778591 0.954369008 0.920822924 0.866740554 1.053724505 0.956062467 0.838145265 1.389280705 1 12.3759174 -6.54162767 24.99635962 1.017504314 0.932910303 0.197419752 0.1344231 233.5832224 311415.7402 0.010117587 0.014309641 2.87E-07 6.54162767 -0.08459401 SLS(ph)PGGAALGYR ddPTM_HeLa_SAHA_4h_R1 1 SLSPGGAALGYR 12 0 A0A494C001;A0A499FJY3;A0A087WWP4;Q96T37-4;Q96T37-2;Q96T37-3;Q96T37 A0A494C001 RBM15 Putative RNA-binding protein 15 1 0 S(0.01)LS(0.99)PGGAALGYR 227.48 1.68E-22 189220000 2257.8 1752 2022.5 2131.3 2044.9 2152.3 2373.3 2404.1 2018.4 2191.2 TRUE FALSE FALSE 2495.285763 1808.76595 2298.115767 2172.554393 1888.220204 1968.911931 2106.250038 2342.606603 2004.35379 2285.673355 1.091707071 0.791349274 1.005443653 0.950509568 0.826111132 0.861414395 0.921500893 1.024908742 0.876920486 1 11.15840353 -7.282863685 24.99711136 1.043306118 0.911872783 0.048888651 0.089133287 581.3299738 678273.3199 0.012704606 0.014535079 5.21E-08 7.282863685 -0.131433335 SLS(ph)PGVSR ddPTM_HeLa_SAHA_4h_R1 3 SLSPGVSR 8 0 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 S(0.046)LS(0.954)PGVSR;S(0.132)LS(0.868)PGVSR;S(0.001)LS(0.999)PGVSR ;; 131.12 0.0018244 52450000 10535.8 11776.7 9202 10814.4 11876.1 13849.4 11714.8 11657.3 15096.6 12214.5 TRUE FALSE FALSE 11644.00378 12158.27281 10456.00064 11023.72835 10966.15578 12669.35321 10396.61987 11359.12315 14991.54153 12741.12687 0.913891205 0.95425412 0.820649597 0.865208271 0.860689631 0.994366773 0.815989039 0.891532065 1.17662603 1 13.63720526 -8.541784777 0.462261841 1.009486697 0.878028946 0.443941892 0.076827487 0.838817801 0.356936614 0.049045281 0.01690873 2.87E-09 8.541784777 -0.131457751 SLS(ph)PIIGK ddPTM_HeLa_SAHA_4h_R1 1 SLSPIIGK 8 0 Q9H4G0-3;Q9H4G0-2;A0A0C4DH22;A0A1B0GTW6;Q9H4G0;Q9H4G0-4;H7C2K6;X6RC15 Q9H4G0-3 EPB41L1 Band 4.1-like protein 1 1 0 S(0.001)LS(0.999)PIIGK 101.65 0.0099305 139970000 5387.7 7167 5655.1 5277 7038.8 6185.6 6635.7 5115.6 7059.2 5668.2 TRUE FALSE FALSE 5954.403006 7399.215502 6425.747578 5379.143966 6499.488665 5658.552081 5889.033572 4984.750359 7010.074452 5912.583841 1.007072908 1.251435193 1.08679179 0.90977889 1.099263679 0.957035407 0.996016924 0.843074786 1.185619458 1 12.52957302 -3.359131285 1.043275275 1.026619023 1.73E-14 0.253464628 0.1016621 10.43615236 2.189225265 0.013562457 18.70942908 0.00043739 3.359131285 -1.026619023 SLS(ph)PLIK ddPTM_HeLa_SAHA_4h_R1 1 SLSPLIK 7 0 Q5VY60;Q7Z4H7-3;Q7Z4H7 Q5VY60 HAUS6 HAUS augmin-like complex subunit 6 1 0 S(0.128)LS(0.872)PLIK 91.069 0.019334 22025000 5843.3 6223.8 5964.7 6807.3 6823.4 7730.6 6876.4 6880.3 6797.5 6130.2 TRUE FALSE FALSE 6457.925104 6425.455204 6777.538253 6939.065135 6300.592566 7071.909389 6102.649374 6704.311889 6750.195644 6394.502922 1.009918235 1.004840451 1.05990072 1.085160992 0.985313893 1.105935751 0.954358681 1.048449265 1.055624765 1 12.6426165 -6.78912031 23.44515489 1.00482622 1.038551231 0.025878081 0.044518793 153.6422801 130131.1335 0.006137529 0.008067829 1.63E-07 6.78912031 0.033725011 SLS(ph)PPQSQSK ddPTM_HeLa_SAHA_4h_R1 1 SLSPPQSQSK 10 0 B4DWA1;I3L4C2;Q9UQB8-3;Q9UQB8-5;Q9UQB8-4;Q9UQB8-2;Q9UQB8;I3L0Y9;I3L3C6;Q9UQB8-6 B4DWA1 BAIAP2 Brain-specific angiogenesis inhibitor 1-associated protein 2 1 0 SLS(0.986)PPQS(0.014)QSK 89.356 0.0081403 0 2412.8 2388.8 2557.4 2736.9 3714.2 4018.3 3406.7 2855.5 2844.6 2405.5 TRUE FALSE FALSE 2666.589374 2466.198687 2905.909154 2789.876657 3429.618798 3675.918234 3023.36915 2782.460445 2824.804197 2509.212877 1.062719468 0.982857497 1.158095903 1.111853316 1.366810616 1.464968663 1.204907394 1.108897722 1.125773035 1 11.29301916 -6.183353698 1.780679338 1.02919892 1.287338859 0.482377666 0.104339925 0.193800049 1.200841921 0.016329513 0.030182409 6.56E-07 6.183353698 0.258139939 SLS(ph)PQEDALTGSR ddPTM_HeLa_SAHA_4h_R1 1 SLSPQEDALTGSR 13 0 Q96EN8 Q96EN8 MOCOS Molybdenum cofactor sulfurase 1 0 S(0.378)LS(0.622)PQEDALTGSR 196.18 4.36E-08 30583000 1264.1 1022 1062.6 1252.8 1472.6 1571.1 1010 1157.8 1290.4 1020.1 TRUE FALSE FALSE 1397.063838 1055.113471 1207.405594 1277.049756 1359.769706 1437.233441 896.3521418 1128.185152 1281.420001 1064.081503 1.312929351 0.991572043 1.134692775 1.200142801 1.27788116 1.350679846 0.842371697 1.060243176 1.20424986 1 10.05539294 -4.747742792 24.99992269 1.162534349 0.951307469 0.349155139 0.124350983 253.2909395 462315.1209 0.020409073 0.075532781 1.79E-05 4.747742792 -0.211226881 SLS(ph)PSHLTEDR ddPTM_HeLa_SAHA_4h_R1 3 SLSPSHLTEDR 11 0 Q5T200-2;Q5T200 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 S(0.222)LS(0.766)PS(0.004)HLT(0.008)EDR;S(0.175)LS(0.578)PS(0.246)HLT(0.001)EDR;S(0.098)LS(0.856)PS(0.046)HLTEDR ;; 166.24 0.00014146 101593000 3460.86 4211.61 2543.38 3733.91 5819.25 6797.99 4835.91 5752.28 4549.6 4194.48 TRUE FALSE FALSE 3824.889134 4348.068927 2889.978581 3806.185227 5373.380322 6218.763008 4291.760679 5605.145007 4517.938963 4375.32456 0.874195521 0.993770603 0.660517532 0.86992066 1.228110109 1.421326103 0.980901101 1.281080964 1.03259516 1 12.09517432 -5.756684391 24.98557038 0.915884034 1.224034497 0.558284369 0.140404657 70.05270841 368094.3985 0.019970613 0.038925851 1.75E-06 5.756684391 0.308150463 SLS(ph)PSVR ddPTM_HeLa_SAHA_4h_R1 1 SLSPSVR 7 0 Q96PE2 Q96PE2 ARHGEF17 Rho guanine nucleotide exchange factor 17 1 0 S(0.004)LS(0.987)PS(0.009)VR 98.629 0.014582 13549000 985.38 1010 929.04 806.01 1009.8 1087.4 949.59 917.25 831.68 989.69 TRUE FALSE FALSE 1089.026789 1042.724663 1055.644733 821.6114891 932.4293422 994.7474025 842.739634 893.7880732 825.8922712 1032.360379 1.054890144 1.010039404 1.022554482 0.795857247 0.903201402 0.96356604 0.816323109 0.865771383 0.800003843 1 10.01173096 -6.282337376 24.24744357 1.024905548 0.873180455 0.204202468 0.08406189 213.1355196 247295.5213 0.00710854 0.0108666 5.22E-07 6.282337376 -0.151725093 SLS(ph)PVAAPPLR ddPTM_HeLa_SAHA_4h_R1 1 SLSPVAAPPLR 11 0 Q8NDT2 Q8NDT2 RBM15B Putative RNA-binding protein 15B 1 0 S(0.09)LS(0.91)PVAAPPLR 117.14 0.0024273 5106900 1233.8 1358.8 946.46 1478.6 1602.6 1714.7 1273.2 1314.3 2166.9 1183.4 TRUE FALSE FALSE 1363.576745 1402.826012 1075.43864 1507.220441 1479.809134 1568.597913 1129.936185 1280.682109 2151.820366 1234.422165 1.10462756 1.13642322 0.871208141 1.220992691 1.198786911 1.270714313 0.915356364 1.037474978 1.743180272 1 10.26962016 SLS(ph)PVAAPPLREPR ddPTM_HeLa_SAHA_4h_R1 3 SLSPVAAPPLREPR 14 1 Q8NDT2 Q8NDT2 RBM15B Putative RNA-binding protein 15B 1 0 S(0.005)LS(0.995)PVAAPPLREPR;S(0.023)LS(0.977)PVAAPPLREPR;S(0.007)LS(0.993)PVAAPPLREPR ;; 148.85 0.00038795 151358000 5852.3 5970 4867.2 5588.3 6823 6767.8 6313.8 6279.2 6761.3 5305.8 TRUE FALSE FALSE 6467.871765 6163.431917 5530.476669 5696.469627 6300.223214 6191.145365 5603.354607 6118.587156 6714.247563 5534.559004 1.168633627 1.113626562 0.999262392 1.029254476 1.138342406 1.118633908 1.012430187 1.105523882 1.213149513 1 12.43425265 -9.676407487 1.554762344 1.000255164 1.096126067 0 0.085024073 0.442769933 1.935642574 0.042953721 0.009698973 2.11E-10 9.676407487 0.095870903 SLS(ph)RPSSLIEQEK ddPTM_HeLa_SAHA_4h_R1 2 SLSRPSSLIEQEK 13 1 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 S(0.175)LS(0.529)RPS(0.121)S(0.175)LIEQEK;S(0.171)LS(0.791)RPS(0.031)S(0.007)LIEQEK ; 86.488 0.0080174 37101000 3028.8 5181 3676 2165.75 4934.7 6335 5797.8 2850.7 2824.67 5311.4 TRUE FALSE FALSE 3347.383081 5348.867799 4176.946136 2207.671223 4556.604352 5795.22236 5145.416285 2777.783222 2805.012891 5540.400447 0.604177101 0.965429819 0.753906902 0.398467808 0.822432312 1.045993411 0.928708373 0.501368673 0.506283421 1 12.43577454 -9.56965438 1.338406996 1.000429855 0.744759427 0 0.247020058 0.616162512 1.973058424 0.14230483 0.033134523 2.69E-10 9.56965438 -0.255670428 SLS(ph)SPPSSK ddPTM_HeLa_SAHA_4h_R1 3 SLSSPPSSK 9 0 Q5VW31;A0A1B0GWB8;A0A2R8Y7V8;Q5VW30;Q5VW27;A0A1B0GWI9;A0A1B0GU97;A0A0A0MRX8;A0A1B0GWJ4;A0A1B0GVN4;U3KQE8;A0A1B0GW37;Q5VW26;O00712-4;O00712;O00712-5;O00712-6 Q5VW31 NFIB Nuclear factor 1;Nuclear factor 1 B-type 1 0 S(0.03)LS(0.483)S(0.483)PPS(0.003)S(0.001)K;SLS(0.499)S(0.499)PPS(0.001)SK;SLS(0.488)S(0.488)PPS(0.009)S(0.014)K ;; 106.4 0.0073823 123369000 13100.8 14900.5 11814.7 7837 12022.7 16321.3 14238.7 8329.9 9547.5 15613.5 TRUE FALSE FALSE 14478.80225 15383.28598 13424.74579 7988.696467 11101.52332 14930.63342 12636.524 8116.83322 9481.05817 16286.6744 0.888996851 0.944532051 0.824277901 0.490505076 0.6816323 0.916739235 0.775881171 0.498372659 0.582135919 1 13.99140443 -6.54048649 4.883239071 0.944447348 0.688819596 0.135539115 0.165303515 0.120897319 7.725614538 0.019555685 0.028513005 2.88E-07 6.54048649 -0.255627752 SLS(ph)SPTVTLSAPLEGAK ddPTM_HeLa_SAHA_4h_R1 3 SLSSPTVTLSAPLEGAK 17 0 A0A1B0GVY1;Q96PU5-9;Q96PU5-4;Q96PU5-2;Q96PU5-6;Q96PU5-5;Q96PU5-7;Q96PU5 A0A1B0GVY1 NEDD4L E3 ubiquitin-protein ligase NEDD4-like 1 0 SLS(0.795)S(0.205)PTVTLSAPLEGAK;S(0.048)LS(0.924)S(0.027)PTVT(0.001)LSAPLEGAK;S(0.09)LS(0.516)S(0.059)PT(0.335)VTLSAPLEGAK ;; 265.56 4.89E-59 165497000 6251.41 7124.42 6839.96 6480.94 8152.41 8321.84 8235.25 8072.71 6631.76 7105.44 TRUE FALSE FALSE 6908.961986 7355.255883 7772.074128 6606.387965 7527.774107 7612.772415 7308.597996 7866.221767 6585.609042 7411.790292 0.93215832 0.992372368 1.048609556 0.891334982 1.015648556 1.027116542 0.986077278 1.061311972 0.888531486 1 12.85560635 -1.0000572 0.504296633 0.97122716 3.698527618 0.243529149 0.050513292 107.8963575 1.024584065 0.008820138 314.294117 0.09998683 1.0000572 2.727300458 SLS(ph)TTNSSSSSGAPGPCGLAR ddPTM_HeLa_SAHA_4h_R1 1 SLSTTNSSSSSGAPGPCGLAR 21 0 E7ER32;A0A087X287;A0A087WU73;A0A494BZX7;W0Z7M9;B0QY83;A0A499FIJ6;Q969V6 E7ER32 MKL1;mkl1 MKL/myocardin-like protein 1 1 0 SLS(0.499)T(0.499)T(0.003)NSSSSSGAPGPCGLAR 214.24 5.05E-27 8948700 621.67 1031.9 811.61 371.24 729.08 1277.5 793.38 322.22 395.07 688.56 TRUE FALSE FALSE 687.0601029 1065.334237 922.2119841 378.425887 673.2180479 1168.649813 704.1067943 313.978079 392.3206757 718.2471913 0.956578893 1.483241772 1.283975761 0.526874162 0.937306899 1.62708581 0.980312632 0.437144875 0.546219575 1 9.488336636 SLS(ph)VPDSGR ddPTM_HeLa_SAHA_4h_R1 2 SLSVPDSGR 9 0 O75420 O75420 GIGYF1 PERQ amino acid-rich with GYF domain-containing protein 1 1 0 S(0.001)LS(0.997)VPDS(0.001)GR;S(0.051)LS(0.949)VPDSGR ; 126.39 0.0026265 100626000 6110.6 6883.9 6498 4804.1 6779.8 8480.4 8339.4 4329 4941.3 6930.4 TRUE FALSE FALSE 6753.340944 7106.942877 7383.5136 4897.090302 6260.333189 7757.822211 7401.028764 4218.270448 4906.913091 7229.203461 0.934174973 0.983087959 1.021345386 0.677403856 0.865978281 1.073122683 1.023768221 0.583504182 0.678762621 1 12.81962098 SLS(ph)VPVDLSR ddPTM_HeLa_SAHA_4h_R1 2 SLSVPVDLSR 10 0 Q9NYF3;D6RHW3 Q9NYF3 FAM53C Protein FAM53C 1 0 SLS(0.999)VPVDLS(0.001)R;S(0.156)LS(0.844)VPVDLSR ; 174.57 6.23E-05 55272400 4834.1 5303.7 6077.1 6060.4 7319.5 6416 7495.9 5116.6 3662.7 4331.4 TRUE FALSE FALSE 5342.572818 5475.54336 6905.25554 6177.707805 6758.681491 5869.320705 6652.441604 4985.724781 3637.210972 4518.147851 1.182469674 1.211899995 1.528337666 1.367309793 1.495896485 1.29905459 1.47238245 1.10348863 0.805022565 1 12.14151577 -7.589099349 0.912972032 1.044623681 1.379941197 0.57576586 0.144388072 0.249952854 0.433317149 0.029776649 0.029502497 2.58E-08 7.589099349 0.335317516 SLS(ph)YEEPR ddPTM_HeLa_SAHA_4h_R1 3 SLSYEEPR 8 0 F5GZK9;Q8IZD4-2;Q8IZD4 F5GZK9 DCP1B mRNA-decapping enzyme 1B 1 0 SLS(1)YEEPR;S(0.182)LS(0.817)YEEPR;S(0.007)LS(0.993)YEEPR ;; 131.52 0.0017825 154476100 14722.4 16976.7 15240.1 12929.9 17040.4 19692.8 18331.8 14716.1 14884.5 16441.2 TRUE FALSE FALSE 16270.96958 17526.75622 17316.94146 13180.17691 15734.76823 18014.86265 16269.05762 14339.68347 14780.91755 17150.06059 0.94874123 1.021964682 1.009730628 0.76852072 0.917475956 1.050425598 0.948629746 0.836130193 0.861858037 1 14.06592605 SLSAIYLEK ddPTM_HeLa_SAHA_4h_R1 1 SLSAIYLEK 9 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 120.99 0.0046385 816160 315.1 727.37 571.95 527 646.16 610.81 500.85 652.71 397.35 414.01 FALSE FALSE TRUE 348.2436637 750.9372652 649.8923674 537.2008471 596.6513604 558.7655517 444.4930398 636.0146233 394.584809 431.8599972 0.806380924 1.738844232 1.504868179 1.243923611 1.381585153 1.293858091 1.029252634 1.472733357 0.91368687 1 8.754419877 -7.285565177 24.99692377 0.908568755 1.363410929 0.59268695 0.179679423 412.174805 427056.3129 0.032281602 0.036924806 5.18E-08 7.285565177 0.454842174 SLSDNGQPGT(ph)PDPADSGGTSAK ddPTM_HeLa_SAHA_4h_R1 1 SLSDNGQPGTPDPADSGGTSAK 22 0 O75691 O75691 UTP20 Small subunit processome component 20 homolog 1 0 S(0.022)LS(0.018)DNGQPGT(0.96)PDPADSGGTSAK 94.384 0.00029652 6475500 1805.7 1710.5 1858.1 1825.4 2091.2 2064.1 2245.9 2264.1 1699 2072.8 TRUE FALSE FALSE 1995.631811 1765.921322 2111.312191 1860.733257 1930.972708 1888.227068 1993.185421 2206.1876 1687.176521 2162.168552 0.922976985 0.816736198 0.976479003 0.860586588 0.893072238 0.873302438 0.921845533 1.02035875 0.780316835 1 11.07826328 -8.692034587 0.880535959 0.994591647 0.907654858 0 0.086638135 0.50796039 0.788397522 0.023869371 0.010881529 2.03E-09 8.692034587 -0.086936789 SLSDS(ph)ESDDSK ddPTM_HeLa_SAHA_4h_R1 3 SLSDSESDDSK 11 0 Q13185;S4R2Y4 Q13185 CBX3 Chromobox protein homolog 3 1 0 S(0.134)LS(0.278)DS(0.588)ESDDSK;S(0.001)LS(0.124)DS(0.874)ES(0.001)DDSK;S(0.001)LS(0.321)DS(0.469)ES(0.209)DDSK ;; 224.25 1.11E-16 621800000 6938.2 9984.5 6550.7 9413.5 9341.5 11244.9 9297 9132 11121.9 10122.3 TRUE FALSE FALSE 7667.99171 10308.00435 7443.395281 9595.711905 8625.756288 10286.77126 8250.877092 8898.416663 11044.50179 10558.72189 0.726223476 0.976254935 0.7049523 0.908794834 0.816931858 0.974243982 0.781427637 0.842755094 1.046007453 1 13.36614759 -9.596382582 1.393619563 0.999920151 0.828781217 0.379626455 0.089892421 0.381482514 1.330247911 0.060695826 0.01408459 2.53E-10 9.596382582 -0.171138934 SLSDS(ph)ESDDSKSK ddPTM_HeLa_SAHA_4h_R1 1 SLSDSESDDSKSK 13 1 Q13185;S4R2Y4 Q13185 CBX3 Chromobox protein homolog 3 1 0 SLS(0.025)DS(0.885)ES(0.087)DDS(0.002)KSK 191.01 8.00E-07 45657000 845.07 617.92 872.99 990.91 765.13 1009.4 1040 1165.6 593.64 930.93 TRUE FALSE FALSE 933.9583399 637.9410134 991.9565309 1010.090496 706.5059047 923.3934413 922.9764629 1135.78564 589.5088109 971.0669482 0.961785736 0.65694854 1.02151199 1.040186259 0.72755633 0.950906055 0.950476653 1.169626504 0.607073294 1 9.923426952 -3.295550023 16.67416002 0.956427595 0.94799227 0 0.179670983 0 0 0.017800765 0 0.000506349 3.295550023 -0.008435325 SLSGS(ph)SPCPK ddPTM_HeLa_SAHA_4h_R1 3 SLSGSSPCPK 10 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SLSGS(0.77)S(0.23)PCPK;S(0.263)LS(0.177)GS(0.445)S(0.116)PCPK;SLS(0.002)GS(0.676)S(0.322)PCPK ;; 174.77 6.11E-05 272881000 18202.1 15800 14828.8 16638 16493.9 17047.3 15145.1 15001.3 18579.5 15498.1 TRUE FALSE FALSE 20116.68039 16311.93037 16849.59164 16960.05255 15230.14095 15594.77413 13440.93349 14617.58847 18450.20375 16166.29894 1.24435905 1.009008335 1.042266489 1.049099278 0.942092003 0.964647146 0.831416859 0.904201297 1.141275676 1 13.98070181 -5.724238288 0.92035864 1.10915297 0.871323578 0.609836667 0.069696441 0.411865416 0.652017959 0.016971522 0.05860856 1.89E-06 5.724238288 -0.237829392 SLSKS(ph)DSDLLTCSPTEDATMGSR ddPTM_HeLa_SAHA_4h_R1 3 SLSKSDSDLLTCSPTEDATMGSR 23 1 A0A3B3ISP1;Q92625 A0A3B3ISP1 ANKS1A Ankyrin repeat and SAM domain-containing protein 1A 1 0 S(0.041)LS(0.154)KS(0.723)DS(0.013)DLLT(0.064)CS(0.004)PTEDATMGSR;S(0.003)LS(0.056)KS(0.706)DS(0.232)DLLT(0.002)CSPTEDATMGSR;S(0.014)LS(0.096)KS(0.444)DS(0.444)DLLT(0.002)CSPTEDATMGSR ;; 90.978 0.00011193 102741000 4618.17 4711.65 4491.34 4517.14 5091.64 5426.19 5492.21 5123.45 5205 4442.67 TRUE FALSE FALSE 5103.93031 4864.310551 5103.396425 4604.575777 4701.519643 4963.848085 4874.212076 4992.399568 5168.777981 4634.215246 1.101358059 1.049651407 1.101242854 0.99360421 1.014523365 1.071130239 1.05178802 1.077291257 1.115351296 1 12.17810934 -9.613578991 1.439226687 1.000196482 1.062039504 0 0.048181001 0.418601242 1.564587027 0.024567976 0.005722743 2.43E-10 9.613578991 0.061843022 SLSLEATS(ph)PLSAEK ddPTM_HeLa_SAHA_4h_R1 2 SLSLEATSPLSAEK 14 0 H3BN63;Q86YC2 H3BN63 PALB2 Partner and localizer of BRCA2 1 0 SLS(0.003)LEAT(0.332)S(0.664)PLSAEK;SLSLEAT(0.133)S(0.867)PLSAEK ; 246.31 2.79E-33 16766000 4473.6 3982.6 3296.9 3643.9 3688.7 4388.9 4585.9 4232.1 3901.3 4073.6 TRUE FALSE FALSE 4944.153774 4111.638853 3746.184362 3714.432954 3406.072603 4014.941029 4069.882463 4123.84901 3874.150536 4249.232832 1.163540331 0.967619101 0.881614284 0.874142016 0.80157354 0.944862564 0.957792294 0.970492598 0.911729408 1 12.05298668 -7.039160318 5.506736104 1.077121749 0.904389993 0.254392933 0.0785592 0.115848753 9.180325197 0.0127669 0.015952046 9.14E-08 7.039160318 -0.172731756 SLSNS(ph)NPDISGTPTSPDDEVR ddPTM_HeLa_SAHA_4h_R1 4 SLSNSNPDISGTPTSPDDEVR 21 0 Q96N67-2;Q96N67-6;Q96N67;Q96N67-4;Q96N67-3;Q96N67-5;A0A0U1RRC1;A0A0U1RQJ5 Q96N67-2 DOCK7 Dedicator of cytokinesis protein 7 1 0 SLS(0.024)NS(0.976)NPDISGTPTSPDDEVR;SLSNS(0.92)NPDIS(0.079)GT(0.001)PTSPDDEVR;SLSNS(0.999)NPDIS(0.001)GTPTSPDDEVR;SLS(0.005)NS(0.974)NPDIS(0.019)GT(0.001)PTSPDDEVR ;;; 367.05 9.29E-189 191068600 4727.43 4184.36 3762.02 4892.5 4773.89 4941.43 4908.15 5557.23 4873.32 4069.95 TRUE FALSE FALSE 5224.682778 4319.936009 4274.688494 4987.201412 4408.11558 4520.392364 4355.872044 5415.084103 4839.406169 4245.425462 1.230661761 1.017550784 1.006892838 1.174723583 1.038321275 1.064767808 1.026015433 1.275510347 1.139910761 1 12.05169343 -4.248238692 24.01849771 1.09064972 1.275510557 0.370581487 0.075670479 1401.330911 2549627.313 0.013199907 0.317890049 5.65E-05 4.248238692 0.184860837 SLSPGAASSSS(ph)GDGDGKEGLEEPK ddPTM_HeLa_SAHA_4h_R1 1 SLSPGAASSSSGDGDGKEGLEEPK 24 1 Q6ZN18-2;Q6ZN18 Q6ZN18-2 AEBP2 Zinc finger protein AEBP2 1 0 S(0.003)LS(0.041)PGAAS(0.103)S(0.103)S(0.103)S(0.648)GDGDGKEGLEEPK 78.324 0.00020191 16054000 1456.1 2011 1497.3 1518.7 2033.9 2019.8 2323.2 1548.6 2472.1 1910.8 TRUE FALSE FALSE 1609.259279 2076.157719 1701.344246 1548.096635 1878.063021 1847.701677 2061.787422 1508.989054 2454.896455 1993.183939 0.807381219 1.041628762 0.853581154 0.776695319 0.942242702 0.927010117 1.034419042 0.757074661 1.231645713 1 10.96085914 -9.645052944 1.477853185 0.999973792 0.885837998 0.258764668 0.119662855 0.588650583 2.312159771 0.065575313 0.01485871 2.26E-10 9.645052944 -0.114135794 SLSS(ph)PGGPSKPK ddPTM_HeLa_SAHA_4h_R1 1 SLSSPGGPSKPK 12 1 J3KRY8;Q9BZE9-3;Q9BZE9;Q9BZE9-2;J3QL04;J3QR12;Q9BZE9-4 J3KRY8 ASPSCR1 Tether containing UBX domain for GLUT4 1 0 SLS(0.197)S(0.803)PGGPSKPK 77.633 0.014153 20829000 2192.6 2129.8 1846.6 2063.6 2582.3 2884.1 2799.2 2891.9 2566.5 2355.2 TRUE FALSE FALSE 2423.227728 2198.806917 2098.245031 2103.543962 2384.444732 2638.358454 2484.226649 2817.929385 2548.639518 2456.744198 0.986357363 0.895008491 0.854075501 0.856232392 0.970571024 1.073924773 1.011186533 1.147017824 1.037405327 1 11.26253193 -4.419077092 1.165605546 0.965415278 1.180502633 0.440927167 0.066798774 1.09343552 1.463947416 0.01109323 0.265191858 3.81E-05 4.419077092 0.215087355 SLSS(ph)PPSSK ddPTM_HeLa_SAHA_4h_R1 1 SLSSPPSSK 9 0 Q5VW31;A0A1B0GWB8;A0A2R8Y7V8;Q5VW30;Q5VW27;A0A1B0GWI9;A0A1B0GU97;A0A0A0MRX8;A0A1B0GWJ4;A0A1B0GVN4;U3KQE8;A0A1B0GW37;Q5VW26;O00712-4;O00712;O00712-5;O00712-6 Q5VW31 NFIB Nuclear factor 1;Nuclear factor 1 B-type 1 0 S(0.002)LS(0.29)S(0.703)PPS(0.005)SK 91.636 0.016481 52329000 5185.6 6316.6 4510.1 3150.8 4540.5 6456.8 5444.3 2749.4 4271.4 6062.8 TRUE FALSE FALSE 5731.0452 6521.261984 5124.71294 3211.78829 4192.607871 5906.644315 4831.693035 2679.074329 4241.67498 6324.196979 0.906209155 1.031160479 0.810334175 0.507857093 0.662947072 0.933975386 0.764001035 0.423622847 0.670705703 1 12.62666659 -6.538023642 5.930256071 0.95904402 0.677493634 0.313369021 0.161149754 0.102369069 12.79947973 0.02108754 0.030513415 2.90E-07 6.538023642 -0.281550386 SLSS(ph)PTDNLELSLR ddPTM_HeLa_SAHA_4h_R1 3 SLSSPTDNLELSLR 14 0 J3QRU8;A0A0C4DGN6;Q9Y2X7;Q9Y2X7-3 J3QRU8 GIT1 ARF GTPase-activating protein GIT1 1 0 SLS(0.044)S(0.952)PT(0.004)DNLELSLR;S(0.006)LS(0.089)S(0.903)PT(0.003)DNLELSLR;SLS(0.108)S(0.889)PT(0.002)DNLELSLR ;; 220.72 1.21E-17 94772400 5215.3 5298.3 4870.54 5108.17 5641 5430.8 5542.4 5181.3 5942.5 4968.7 TRUE FALSE FALSE 5763.869183 5469.968396 5534.271827 5207.046017 5208.787799 4968.065287 4918.754565 5048.769848 5901.145659 5182.924973 1.112088099 1.055382516 1.067789299 1.004653944 1.004990006 0.958544705 0.949030632 0.974115943 1.138574394 1 12.33955079 -5.769796689 1.500454829 1.055331814 0.959807629 0.60675928 0.038365703 0.259582746 1.176196001 0.006772486 0.016578952 1.70E-06 5.769796689 -0.095524185 SLSS(ph)S(ph)PQAQPPRPAELSDEEVAELFQR ddPTM_HeLa_SAHA_4h_R1 1 SLSSSPQAQPPRPAELSDEEVAELFQR 27 1 A0A087WXA6;A0A087WT45;Q4V328-4;Q4V328 A0A087WXA6 GRIPAP1 GRIP1-associated protein 1 2 0 S(0.321)LS(0.252)S(0.718)S(0.708)PQAQPPRPAELSDEEVAELFQR 69.152 0.0038706 7829600 570.59 557.09 416.07 524.2 489.34 517.25 653.37 414.55 461.04 320.77 TRUE FALSE FALSE 630.6072742 575.1400815 472.7698528 534.346649 451.8468749 473.17739 579.851088 403.9464113 457.8315851 334.5999645 1.884660314 1.718888651 1.412940535 1.596971625 1.350409214 1.414158518 1.73296817 1.207251805 1.368295379 1 8.386293482 -9.544869491 1.329980346 1.002063384 1.582195813 0.217935436 0.223741015 0.285778728 0.910620644 0.14734081 0.035506636 2.85E-10 9.544869491 0.58013243 SLSSPPSSK(ac)RPK ddPTM_HeLa_SAHA_4h_R1 1 SLSSPPSSKRPK 12 2 Q5VW31;A0A1B0GWB8;A0A2R8Y7V8;Q5VW30;Q5VW27;A0A1B0GWI9;A0A1B0GU97;A0A0A0MRX8;A0A1B0GWJ4;A0A1B0GVN4;U3KQE8;A0A1B0GW37;Q5VW26;O00712-4;O00712;O00712-5;O00712-6 Q5VW31 NFIB Nuclear factor 1;Nuclear factor 1 B-type 0 1 SLSSPPSSK(1)RPK 145.81 9.02E-05 0 356.46 280.05 375.22 1411.1 1583.2 1850.3 2209.8 3178.4 248.09 140.14 FALSE TRUE FALSE 393.9540983 289.1238037 426.3530275 1438.413881 1461.895558 1692.64403 1961.147488 3097.10113 246.3635215 146.1821212 2.694954041 1.977832866 2.916588048 9.839875553 10.00050858 11.57900854 13.41578212 21.18659316 1.685319103 1 7.191623063 -3.2634802 0.32806612 0.901577272 52.99968042 0.938483008 1.570944092 2.040412558 0.09457487 0.564757964 48.26540118 0.000545155 3.2634802 52.09810315 SLSSS(ph)PQAQPPRPAELSDEEVAELFQR ddPTM_HeLa_SAHA_4h_R1 2 SLSSSPQAQPPRPAELSDEEVAELFQR 27 1 A0A087WXA6;A0A087WT45;Q4V328-4;Q4V328 A0A087WXA6 GRIPAP1 GRIP1-associated protein 1 1 0 S(0.004)LS(0.048)S(0.171)S(0.63)PQAQPPRPAELS(0.147)DEEVAELFQR;S(0.004)LS(0.042)S(0.17)S(0.722)PQAQPPRPAELS(0.063)DEEVAELFQR ; 88.027 1.23E-05 149137000 1347.65 1718.03 1796.22 1949.37 1656.32 2098.84 2436.4 2032.89 1813.93 1528.45 TRUE FALSE FALSE 1489.40201 1773.695299 2040.999507 1987.102875 1529.413119 1920.007024 2162.24986 1980.891617 1801.306713 1594.34896 0.934175672 1.112488761 1.28014604 1.24634125 0.95927125 1.204257708 1.356196112 1.242445454 1.129807062 1 10.63875172 -7.061169786 3.973342108 0.969527798 1.210323384 0.359449755 0.10955575 0.12905705 4.064478326 0.017125236 0.021508469 8.69E-08 7.061169786 0.240795586 SLSSTSAGGK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 SLSSTSAGGKK 11 1 Q6W2J9-4;Q6W2J9-2;Q6W2J9;H7BYY2;H7C231;H7C2V9 Q6W2J9-4 BCOR BCL-6 corepressor 0 1 SLSSTSAGGK(1)K 154.84 2.35E-07 1014300 260.05 212.89 209.75 308.29 359.82 338.33 369.67 191.46 179.95 169.51 FALSE TRUE FALSE 287.4032522 219.7877757 238.3336377 314.2573987 332.2506693 309.5023806 328.0737587 186.5627304 178.6977133 176.8184057 1.625414793 1.243014124 1.347900615 1.777288951 1.87905025 1.750396852 1.855427649 1.055109222 1.010628462 1 7.466124648 -6.325997767 5.806505157 1.300246893 1.69056818 0.354862285 0.276043134 0.228707044 15.36115841 0.047530579 0.073251694 4.72E-07 6.325997767 0.390321287 SLST(ph)TNSSSSSGAPGPCGLAR ddPTM_HeLa_SAHA_4h_R1 1 SLSTTNSSSSSGAPGPCGLAR 21 0 E7ER32;A0A087X287;A0A087WU73;A0A494BZX7;W0Z7M9;B0QY83;A0A499FIJ6;Q969V6 E7ER32 MKL1;mkl1 MKL/myocardin-like protein 1 1 0 SLS(0.311)T(0.686)T(0.003)NSSSSSGAPGPCGLAR 171.33 8.96E-10 7486100 483.57 378.12 409.96 254.25 422.97 702.98 668.28 412.96 423.73 423.49 TRUE FALSE FALSE 534.4341113 390.3713361 465.8272138 259.1713764 390.56213 643.0821491 593.0833756 402.3970812 420.7812284 441.7487264 1.209814719 0.883695442 1.054507203 0.586694111 0.884127348 1.45576458 1.342580839 0.910918486 0.952535238 1 8.787082165 -3.965068397 15.13339534 1.072856272 0.363969188 0.010766472 0.237908319 3300619.846 42289819.45 0.033809041 61047080.83 0.000108376 3.965068397 -0.708887084 SLSYS(ph)PVER ddPTM_HeLa_SAHA_4h_R1 4 SLSYSPVER 9 0 Q9UQ35;Q9UQ35-2;I3L4U6 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.003)LS(0.077)YS(0.92)PVER;S(0.001)LS(0.302)YS(0.697)PVER;SLS(0.012)YS(0.988)PVER;SLSYS(1)PVER ;;; 181.87 5.43E-06 183675000 9946.7 10983.7 10557.2 10344.6 10193.6 11751.9 11941.3 10558.1 11112.4 11016.6 TRUE FALSE FALSE 10992.93954 11339.57909 11995.88024 10544.83469 9412.56857 10750.57201 10597.6335 10288.03909 11035.0679 11491.57954 0.956608228 0.986772884 1.043884367 0.917614037 0.819083968 0.935517347 0.922208601 0.895267622 0.960274248 1 13.48828949 -6.018961576 24.04518424 0.983895466 0.894416041 0.615285751 0.036477732 247.2323627 313515.9313 0.005545358 0.009303896 9.57E-07 6.018961576 -0.089479425 SLT(ph)NLSFLTDSEK ddPTM_HeLa_SAHA_4h_R1 1 SLTNLSFLTDSEK 13 0 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-6 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 S(0.251)LT(0.749)NLSFLTDSEK 142.54 0.00053576 12207000 1515 1574.3 1298.5 1445.3 1519.7 1504.9 1701.1 1290.2 1458.5 1174.2 TRUE FALSE FALSE 1674.354651 1625.308353 1475.452818 1473.275871 1403.260914 1376.674054 1509.687751 1257.198552 1448.35018 1224.825508 1.367014844 1.326971346 1.204622869 1.202845517 1.145682307 1.123975655 1.232573734 1.026430739 1.182495114 1 10.25836052 -4.251011299 23.11308099 1.188672986 1.026430469 0.213429183 0.097459941 953.9945969 2114333.21 0.019624779 0.341904579 5.61E-05 4.251011299 -0.162242516 SLT(ph)NPTPIQQQLR ddPTM_HeLa_SAHA_4h_R1 1 SLTNPTPIQQQLR 13 0 Q9UJF2-2;H0Y638;Q9UJF2 Q9UJF2-2 RASAL2 Ras GTPase-activating protein nGAP 1 0 S(0.015)LT(0.774)NPT(0.211)PIQQQLR 136.3 0.00091235 7692200 969.9 887.31 794.58 805.23 1130.3 1078.2 994.61 869.18 992.38 636.88 TRUE FALSE FALSE 1071.918532 916.0594262 902.8612244 820.816391 1043.696658 986.3312942 882.6938651 846.9476342 985.4739468 664.3390136 1.61351134 1.378903553 1.359036886 1.235538444 1.571030207 1.484680674 1.328679856 1.274872643 1.483390147 1 9.37577583 -9.496307758 1.231274678 0.999085309 1.426202158 0 0.186990586 0.253684009 0.685902192 0.091428679 0.022018588 3.19E-10 9.496307758 0.427116849 SLT(ph)PPPSSTESK ddPTM_HeLa_SAHA_4h_R1 3 SLTPPPSSTESK 12 0 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 1 0 SLT(0.826)PPPS(0.048)S(0.101)T(0.024)ESK;S(0.006)LT(0.994)PPPSSTESK;S(0.228)LT(0.746)PPPS(0.009)S(0.015)T(0.002)ESK ;; 116.71 0.0030638 113735000 11511.4 10377.7 9210.3 11196.4 11508.8 12972.9 12242.2 13063.6 12823.6 11557.8 TRUE FALSE FALSE 12722.22187 10713.94429 10465.43172 11413.12251 10626.99823 11867.53594 10864.67544 12729.45203 12734.35952 12056.11332 1.055250687 0.888673157 0.868060165 0.946666824 0.881461375 0.98435836 0.901175623 1.055850396 1.056257451 1 13.55747726 -7.265554774 24.99437965 1.026090603 0.929248463 0.428006701 0.055019702 253.4461415 1539273.614 0.009018893 0.010517945 5.43E-08 7.265554774 -0.09684214 SLTDPSQESHTEAIS(ph)DAETSSSDISFSGIATR ddPTM_HeLa_SAHA_4h_R1 3 SLTDPSQESHTEAISDAETSSSDISFSGIATR 32 0 Q5QJE6;J3KP30 Q5QJE6 DNTTIP2 Deoxynucleotidyltransferase terminal-interacting protein 2 1 0 SLTDPSQESHTEAIS(0.992)DAET(0.002)S(0.004)S(0.001)S(0.001)DISFSGIATR;SLTDPS(0.001)QES(0.016)HT(0.145)EAIS(0.835)DAET(0.001)S(0.001)S(0.001)SDISFSGIATR;SLTDPS(0.015)QES(0.013)HT(0.013)EAIS(0.926)DAET(0.01)S(0.011)S(0.005)S(0.005)DIS(0.001)FSGIATR ;; 138.54 1.46E-14 53154100 1693.6 1995.93 1518.54 2435.48 2760.25 2811 3037.16 2652.85 2377.13 2106.42 TRUE FALSE FALSE 1871.740619 2060.599442 1725.478723 2482.622237 2548.760241 2571.486986 2695.410763 2584.993938 2360.587359 2197.238075 0.851860634 0.93781346 0.785294385 1.129883132 1.15998365 1.170326973 1.226726769 1.176474215 1.074343006 1 11.10147548 -6.106384872 5.706924686 0.919392228 1.180991446 0.725373394 0.075064297 0.082425946 3.732282629 0.010664603 0.017882159 7.83E-07 6.106384872 0.261599219 SLTEISTDFDRS(ph)SPPLQPPPVNSLTTENR ddPTM_HeLa_SAHA_4h_R1 2 SLTEISTDFDRSSPPLQPPPVNSLTTENR 29 1 Q9NQC7-2;Q9NQC7;J3KRR7 Q9NQC7-2 CYLD Ubiquitin carboxyl-terminal hydrolase CYLD 1 0 S(0.001)LT(0.005)EIS(0.024)T(0.024)DFDRS(0.471)S(0.471)PPLQPPPVNS(0.001)LT(0.001)T(0.001)ENR;SLTEISTDFDRS(0.641)S(0.359)PPLQPPPVNSLTTENR ; 158.83 2.03E-15 53167300 1506.88 1846.68 1670.31 1960.76 2327.31 2457.04 2901.8 2487.42 1879.63 1642.59 TRUE FALSE FALSE 1665.380552 1906.513644 1897.931148 1998.713345 2148.992011 2247.686369 2575.281827 2423.795398 1866.549502 1713.410094 0.97196845 1.112701303 1.107692289 1.166511948 1.254219301 1.311820432 1.503015441 1.414603198 1.089376973 1 10.74265478 -5.571002052 0.597714465 0.983440712 1.522659999 0.893760489 0.053987969 0.178442618 0.097074286 0.008967632 0.050365344 2.69E-06 5.571002052 0.539219287 SLTEISTDFDRSS(ph)PPLQPPPVNSLTTENR ddPTM_HeLa_SAHA_4h_R1 1 SLTEISTDFDRSSPPLQPPPVNSLTTENR 29 1 Q9NQC7-2;Q9NQC7;J3KRR7 Q9NQC7-2 CYLD Ubiquitin carboxyl-terminal hydrolase CYLD 1 0 SLTEIST(0.002)DFDRS(0.179)S(0.819)PPLQPPPVNSLTTENR 108.3 2.06E-09 36161000 1179 1146.8 1132.2 1179.1 1421.7 1186.9 1321.1 1381.4 1307.3 1250.8 TRUE FALSE FALSE 1303.012629 1183.957072 1286.49032 1201.923186 1312.769653 1085.769443 1172.446351 1346.065788 1298.202393 1304.728109 0.998685182 0.907435859 0.98602177 0.921205864 1.006163387 0.832180617 0.898613545 1.031682983 0.994998409 1 10.34953348 -7.283488001 22.43619489 0.999379129 0.938234515 0.188109427 0.054503588 233.5294909 237633.6365 0.008818614 0.010091755 5.21E-08 7.283488001 -0.061144614 SLTNDWEDHLAVK ddPTM_HeLa_SAHA_4h_R1 2 SLTNDWEDHLAVK 13 0 P07900;P07900-2;P08238 P07900;P08238 HSP90AA1;HSP90AB1 Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-beta 0 0 ; ; 146.79 3.68E-05 9809100 8940.7 10724.3 8897.9 8530.2 10652.7 15393.2 11051.7 13407.4 16906.7 13157.6 FALSE FALSE TRUE 9881.123847 11071.77436 10110.45947 8695.314356 9836.492427 14081.61276 9808.13363 13064.45812 16789.0449 13724.88853 0.719942011 0.806693208 0.736651482 0.633543532 0.716690151 1.025991048 0.714623919 0.951880818 1.223255465 1 13.74450681 -9.373449651 1.047923254 1.002507369 0.780358782 0.430151943 0.134546411 0.480537049 0.927045682 0.08017494 0.019772683 4.23E-10 9.373449651 -0.222148587 SLTNPT(ph)PIQQQLR ddPTM_HeLa_SAHA_4h_R1 3 SLTNPTPIQQQLR 13 0 Q9UJF2-2;H0Y638;Q9UJF2 Q9UJF2-2 RASAL2 Ras GTPase-activating protein nGAP 1 0 SLT(0.001)NPT(0.999)PIQQQLR;SLT(0.001)NPT(0.999)PIQQQLR;S(0.053)LT(0.006)NPT(0.942)PIQQQLR ;; 206.67 6.22E-11 47711700 5033.6 4981.7 3975.9 4638.7 5712.3 5110.2 4956.7 5506.9 4549.6 4044 TRUE FALSE FALSE 5563.057143 5143.110349 4517.714946 4728.488746 5274.624808 4674.782211 4398.959071 5366.041472 4517.938963 4218.356631 1.318773549 1.219221322 1.070965625 1.120931481 1.250398027 1.108199856 1.042813459 1.272069183 1.07101873 1 12.04246535 -9.636870218 1.482157189 1.000628704 1.190089255 0.262933764 0.088913096 0.372251985 1.477447677 0.068537845 0.015804296 2.31E-10 9.636870218 0.189460552 SLTPAVPVESKPDK(ac)PSGK ddPTM_HeLa_SAHA_4h_R1 2 SLTPAVPVESKPDKPSGK 18 2 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;F8W7E0;B7Z574;E7ES10;P20810-8;P20810-4;P20810;E7EVY3;E9PSG1;P20810-2;E9PCH5;P20810-3;H0YA91;H0Y944;E7EQK6 P20810-6 CAST Calpastatin 0 1 ; SLTPAVPVESKPDK(1)PSGK;SLTPAVPVESKPDK(1)PSGK 159.69 4.44E-09 3863700 871.85 2384.2 1313.18 1367.24 2312.37 2067.39 2440 1808.47 1779.11 674.57 FALSE TRUE FALSE 963.5551832 2461.449644 1492.133332 1393.704907 2135.19671 1891.236741 2165.444778 1762.211956 1766.729029 703.654014 1.369359322 3.498096501 2.120549733 1.980667885 3.034441171 2.687736734 3.077428303 2.504372776 2.510792227 1 9.458722421 -7.394406059 6.142847722 1.161429662 2.674931238 0.330775725 0.603630797 0.087476747 4.017191776 0.073574966 0.08372455 4.03E-08 7.394406059 1.513501576 SLTSS(ph)LENIFSR ddPTM_HeLa_SAHA_4h_R1 2 SLTSSLENIFSR 12 0 A0A3B3IRT3;O60343-2;O60343-3;O60343;Q5JU47 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 1 0 SLT(0.001)S(0.297)S(0.701)LENIFSR;SLT(0.001)S(0.079)S(0.92)LENIFSR ; 204.18 1.69E-10 76342000 2294.54 2447.54 2171.09 2727.22 2537.59 3112.6 2736.53 2594.92 2639.14 2374.6 TRUE FALSE FALSE 2535.890245 2526.841902 2466.954839 2780.009287 2343.160402 2847.388969 2428.608442 2528.545704 2620.77401 2476.980627 1.023782834 1.020129861 0.995952416 1.122337921 0.945974457 1.149540266 0.980471311 1.020817715 1.05805188 1 11.27436687 -7.967798456 0.494505413 1.001001139 1.038108896 0 0.060374805 2.06561471 1.217984522 0.030824947 0.019291444 1.08E-08 7.967798456 0.037107757 SLTTECHLLDS(ph)PGLNCSNPFTQLER ddPTM_HeLa_SAHA_4h_R1 2 SLTTECHLLDSPGLNCSNPFTQLER 25 0 Q15398-1;Q15398 Q15398-1 DLGAP5 Disks large-associated protein 5 1 0 SLTTECHLLDS(1)PGLNCSNPFTQLER;SLTTECHLLDS(1)PGLNCSNPFTQLER ; 144.95 2.52E-09 19858700 2793.29 3333.79 2195.02 2362.56 3445.7 4227.2 3797.7 2957.36 3361.45 3837.3 TRUE FALSE FALSE 3087.101058 3441.806983 2494.145894 2408.290765 3181.69121 3867.018778 3370.372801 2881.715013 3338.057396 4002.744782 0.771246039 0.859861713 0.623108899 0.601659835 0.794877361 0.966091767 0.842015413 0.719934737 0.833942102 1 11.96677392 -9.092359162 0.744930614 1.008713658 0.772477186 0.147784821 0.113800639 0.640071287 0.611315668 0.089595726 0.023123756 8.08E-10 9.092359162 -0.236236473 SLTVSDDAESS(ph)EPER ddPTM_HeLa_SAHA_4h_R1 4 SLTVSDDAESSEPER 15 0 H0Y9Y2;Q8NFC6 H0Y9Y2;Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 SLTVSDDAES(0.02)S(0.98)EPER;SLTVSDDAES(0.013)S(0.987)EPER;SLTVSDDAES(0.096)S(0.904)EPER;SLTVSDDAES(0.374)S(0.626)EPER ;;; 306.27 1.06E-98 37942700 7274.7 6911.6 6040.43 6676.8 7113.1 8623.6 7563.3 7711.6 7943.3 7588.4 TRUE FALSE FALSE 8039.886324 7135.540375 6863.588343 6806.039119 6568.095815 7888.820765 6712.257578 7514.348438 7888.021929 7915.573061 1.015704897 0.901455943 0.867099361 0.859828981 0.829768832 0.996620296 0.847981255 0.949311993 0.996519376 1 12.95047809 -7.231314629 5.803889853 1.007495599 0.890201764 0.539211767 0.04694254 0.093117139 9.923154512 0.007368197 0.008920827 5.87E-08 7.231314629 -0.117293835 SLVPAAELLESR ddPTM_HeLa_SAHA_4h_R1 1 SLVPAAELLESR 12 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 102.53 0.017797 1067600 410.07 413.26 373.56 397 373.61 569.59 611.95 538.07 546.92 442.32 FALSE FALSE TRUE 453.2030441 426.6498951 424.4668114 404.6845091 344.9840825 521.0577276 543.0917754 524.3069485 543.1139392 461.3905799 0.982254653 0.924704391 0.91997286 0.877097467 0.747705085 1.129320256 1.177075994 1.136362491 1.177124031 1 8.849844739 -5.03265285 24.87735821 0.9571819 1.155839036 0.446683151 0.102176451 330.0984562 251493.4169 0.011805089 0.03012491 9.28E-06 5.03265285 0.198657136 SLVSVTK ddPTM_HeLa_SAHA_4h_R1 2 SLVSVTK 7 0 P08238;Q58FF7;Q58FF8 P08238;Q58FF8 HSP90AB1;HSP90AB3P;HSP90AB2P Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3;Putative heat shock protein HSP 90-beta 2 0 0 ; ; 122.13 0.0032645 18200200 15419.5 14381.5 13562.5 14484 15780.8 16930.1 17014.3 15771.5 15302.3 14220.3 FALSE FALSE TRUE 17041.39376 14847.47004 15410.72687 14764.35876 14571.67851 15487.56023 15099.80618 15368.08787 15195.81005 14833.40673 1.148852322 1.000948084 1.038920267 0.995345104 0.982355489 1.044100018 1.017959425 1.036045741 1.024431564 1 13.85656235 -7.144343629 19.47712842 1.070546276 1.016370455 0.155291522 0.040916697 5.324525052 867.7673383 0.009468206 0.011596164 7.17E-08 7.144343629 -0.054175821 SLYAS(ph)SPGGVYATR ddPTM_HeLa_SAHA_4h_R1 7 SLYASSPGGVYATR 14 0 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 SLYAS(0.5)S(0.5)PGGVYATR;SLYAS(0.908)S(0.092)PGGVYATR;SLYAS(0.5)S(0.5)PGGVYATR;SLYAS(0.5)S(0.5)PGGVYATR;SLYAS(0.913)S(0.087)PGGVYATR;SLYAS(0.931)S(0.069)PGGVYATR;S(0.033)LY(0.106)AS(0.496)S(0.364)PGGVYAT(0.001)R ;;;;;; 236.4 5.52E-25 8280076000 17233.66 16324.33 16376.2 15026.2 18430.6 17357.6 17723.7 14959.36 13483.92 13794.93 TRUE FALSE FALSE 19046.37543 16853.249 18607.86325 15317.05383 17018.45141 15878.63483 15729.38263 14576.72123 13390.0843 14389.69694 1.323611992 1.171202498 1.293137953 1.064445894 1.182683101 1.103472498 1.093100341 1.012997097 0.930532752 1 13.81274859 -4.394375556 1.006842264 1.164141205 0.96179708 0.062119273 0.116113923 2.688227932 2.426567788 0.019660785 0.554591794 4.03E-05 4.394375556 -0.202344125 SLYASS(ph)PGGVYATR ddPTM_HeLa_SAHA_4h_R1 2 SLYASSPGGVYATR 14 0 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 SLYAS(0.332)S(0.668)PGGVYATR;SLYAS(0.148)S(0.852)PGGVYATR ; 170.26 2.59E-06 3372344100 2469.56 2539.65 2505 2885.7 2799.9 2621.4 2681.7 2629.7 2750 2831.81 TRUE FALSE FALSE 2729.319652 2621.936326 2846.368355 2941.556896 2585.372267 2398.041972 2379.948058 2562.436082 2730.862526 2953.903188 0.923970583 0.887617555 0.963595681 0.995820347 0.875239337 0.811821451 0.805696026 0.867474632 0.924492901 1 11.52840683 -1.000000004 0.140301872 1.018332264 0.302692741 0.436423593 0.048988477 41.30892084 0.382683063 0.131945568 5.955420676 0.099999999 1.000000004 -0.715639523 SLYASSPGGVY(ph)ATR ddPTM_HeLa_SAHA_4h_R1 2 SLYASSPGGVYATR 14 0 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 SLYAS(0.005)S(0.042)PGGVY(0.579)AT(0.374)R;SLYASS(0.003)PGGVY(0.612)AT(0.386)R ; 132.56 0.0010141 11139500 1448.57 1278.94 1209.56 1431.9 1797.53 1625.59 1884.78 1912.26 1657.26 1866.06 TRUE FALSE FALSE 1600.937239 1320.378495 1374.392538 1459.616495 1659.80364 1487.080587 1672.699594 1863.347158 1645.726993 1946.514979 0.822463354 0.678329481 0.706078583 0.749861425 0.8527053 0.76397079 0.859330451 0.957273475 0.845473583 1 10.92667773 -8.743686878 0.902867455 0.987778985 0.795227419 0.169736421 0.089043578 0.356561637 0.577643363 0.038014365 0.016857417 1.80E-09 8.743686878 -0.192551565 SLYASSPGGVYATR ddPTM_HeLa_SAHA_4h_R1 3 SLYASSPGGVYATR 14 0 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 0 0 ;; ;; 217.22 1.09E-32 25917900 3182.91 3338.03 3325 3280.33 3779.08 2882.68 3378.22 2424.1 2385.2 2546.61 FALSE FALSE TRUE 3517.703078 3446.184362 3778.113684 3343.825531 3489.527707 2637.059446 2998.093795 2362.095032 2368.601199 2656.40682 1.324233567 1.297310463 1.422264713 1.258777649 1.313626994 0.992716713 1.128627502 0.889206809 0.891656045 1 11.37526039 -5.244546251 24.72741031 1.205586471 1.016028033 0.268260104 0.159394399 883.3782274 1293046.651 0.023530657 0.05981763 5.69E-06 5.244546251 -0.189558439 SLYGDVDS(ph)PLPTGEAGGPPSTR ddPTM_HeLa_SAHA_4h_R1 1 SLYGDVDSPLPTGEAGGPPSTR 22 0 Q9Y4B5;Q9Y4B5-2;Q9Y4B5-3;J3QL92 Q9Y4B5 MTCL1 Microtubule cross-linking factor 1 1 0 SLY(0.001)GDVDS(0.991)PLPT(0.008)GEAGGPPSTR 94.188 0.00026418 5282400 573.75 500.21 665.31 902.11 754.81 634.88 875.97 867.97 735.63 725.03 TRUE FALSE FALSE 634.0996575 516.4171322 755.974982 919.5716435 696.9766209 580.7846523 777.4035502 845.7685842 730.5106909 756.2895915 0.838434992 0.682829882 0.999584009 1.215898849 0.921573731 0.767939502 1.027917823 1.118313135 0.965913982 1 9.562794954 -6.575310619 24.99978819 0.900541291 1.004394862 0.182022146 0.136548962 177.0136878 84400.2477 0.023349623 0.033021354 2.66E-07 6.575310619 0.103853571 SLYVAEYHSEPVEDEKP ddPTM_HeLa_SAHA_4h_R1 1 SLYVAEYHSEPVEDEKP 17 1 P26196 P26196 DDX6 Probable ATP-dependent RNA helicase DDX6 0 0 83.252 0.016608 3778300 1108.4 1160.3 1259.2 1354.4 1344.6 1497.8 1230.1 1261.1 1548.3 1029.8 FALSE FALSE TRUE 1224.986598 1197.894481 1430.797218 1380.61637 1241.577038 1370.179014 1091.685911 1228.842888 1537.525254 1074.199718 1.140371364 1.11515062 1.331965737 1.285251102 1.15581583 1.275534699 1.016278344 1.143961284 1.431321596 1 10.06904653 -8.417430887 0.729183778 1.010575876 1.191135599 0 0.157932562 0.487202537 0.545474858 0.041983569 0.02128091 3.82E-09 8.417430887 0.180559723 SLYYYIQQDT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 SLYYYIQQDTK 11 0 P07355;P07355-2;A6NMY6 P07355 ANXA2;ANXA2P2 Annexin A2;Putative annexin A2-like protein 1 0 S(0.005)LY(0.001)YYIQQDT(0.994)K 137.9 0.001752 4030600 845.63 1454.3 1043.9 691.13 1383.1 1704.4 1378.3 1033.5 1185.3 1364.9 TRUE FALSE FALSE 934.5772433 1501.420274 1186.157256 704.5078205 1277.127177 1559.175531 1223.210057 1007.064566 1177.051401 1423.747519 0.65642063 1.054555147 0.833123317 0.494826373 0.897018018 1.095120807 0.859148157 0.707333676 0.826727622 1 10.47547761 -9.683588288 1.556698268 0.999852491 0.805431 0 0.17700841 0.641313954 2.803116689 0.126828411 0.02829969 2.07E-10 9.683588288 -0.194421491 SLYYYIQQDTK ddPTM_HeLa_SAHA_4h_R1 2 SLYYYIQQDTK 11 0 P07355;P07355-2;A6NMY6 P07355 ANXA2;ANXA2P2 Annexin A2;Putative annexin A2-like protein 0 0 ; ; 208.84 1.58E-32 9494700 3742.4 6108.9 4763.8 3928.9 5859.2 6394.6 6532.6 3731.2 4599.2 5469.4 FALSE FALSE TRUE 4136.042803 6306.832368 5412.985855 4004.949541 5410.269362 5849.744105 5797.534655 3635.761307 4567.193793 5705.212601 0.724958576 1.105450894 0.948778991 0.701980771 0.948302849 1.025333237 1.016182053 0.637270083 0.800529991 1 12.47806493 SMDAMS(ph)SPTKTETVK ddPTM_HeLa_SAHA_4h_R1 3 SMDAMSSPTKTETVK 15 1 H3BPE1;H3BQK9;H0Y390;A0A590UJG2;Q9UPN3-4;Q9UPN3-3;Q9UPN3-2;Q9UPN3;Q9UPN3-5 H3BPE1 MACF1 "Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5" 1 0 S(0.001)MDAMS(0.716)S(0.204)PT(0.078)KTETVK;S(0.001)MDAMS(0.495)S(0.495)PT(0.006)KT(0.001)ET(0.001)VK;SMDAMS(0.575)S(0.414)PT(0.009)KT(0.002)ETVK ;; 102.73 0.0021455 21204000 6529.66 5830.2 5395.75 5745.8 6088.71 6354.25 6069.09 6190.25 6053.29 5791.5 TRUE FALSE FALSE 7216.479598 6019.102305 6131.05471 5857.018268 5622.194355 5812.832152 5386.18002 6031.912368 6011.164662 6041.199908 1.194544082 0.996342183 1.014873668 0.969512408 0.930641998 0.962198279 0.891574539 0.998462633 0.995028265 1 12.56061941 -6.73564821 1.886884171 1.090469606 0.94875569 0.298508923 0.063130951 0.249603535 1.818015479 0.013261463 0.019291572 1.84E-07 6.73564821 -0.141713916 SMDAMSS(ph)PTKTETVK ddPTM_HeLa_SAHA_4h_R1 4 SMDAMSSPTKTETVK 15 1 H3BPE1;H3BQK9;H0Y390;A0A590UJG2;Q9UPN3-4;Q9UPN3-3;Q9UPN3-2;Q9UPN3;Q9UPN3-5 H3BPE1 MACF1 "Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5" 1 0 S(0.001)MDAMS(0.213)S(0.745)PT(0.033)KT(0.002)ET(0.007)VK;SMDAMS(0.155)S(0.843)PT(0.001)KTETVK;S(0.001)MDAMS(0.035)S(0.961)PT(0.002)KTETVK;S(0.001)MDAMS(0.067)S(0.928)PT(0.004)KTETVK ;;; 156.2 8.05E-05 32126900 6388.43 5800.41 5370.91 5814.19 6519.57 7012.28 7227.37 6956.13 5456.66 6193.8 TRUE FALSE FALSE 7060.394379 5988.34709 6102.829644 5926.732055 6020.041955 6414.794294 6414.127306 6778.202267 5418.686659 6460.84503 1.092797358 0.92686747 0.94458691 0.917330787 0.931773155 0.992872336 0.9927691 1.049120082 0.838696275 1 12.65750716 -7.255967669 24.96496314 1.043820975 0.963280454 0 0.077645507 369.4804842 1685775.882 0.008642224 0.010424466 5.55E-08 7.255967669 -0.08054052 SMDFEEAER ddPTM_HeLa_SAHA_4h_R1 2 SMDFEEAER 9 0 K7ER96;O43396 K7ER96 TXNL1 Thioredoxin-like protein 1 0 0 ; ; 164.96 0.00036049 19930300 4356.7 4526.7 3923.3 4100.8 4462.2 3766.2 4918.9 3850.5 5067.7 4134.4 FALSE FALSE TRUE 4814.957695 4673.36805 4457.946892 4180.176914 4120.3072 3445.298572 4365.412426 3752.009785 5032.433463 4312.654217 1.116472004 1.083640796 1.03368985 0.969281724 0.955399388 0.798881245 1.01223335 0.870000143 1.166899364 1 12.07436033 -6.034021476 1.801287113 1.058483306 0.905835271 0.590912722 0.067075305 0.204668154 1.317465606 0.010096555 0.019960395 9.25E-07 6.034021476 -0.152648036 SMEAEMIQLQEELAAAER ddPTM_HeLa_SAHA_4h_R1 4 SMEAEMIQLQEELAAAER 18 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ;;; ;;; 154.13 0.00018355 159091000 961.72 1251.83 1415.343 1461.72 1490.39 1577.14 1854.15 1853.79 1475.627 1332.95 FALSE FALSE TRUE 1062.878122 1292.390113 1608.218573 1490.013704 1376.19664 1442.758799 1645.516162 1806.372736 1465.357992 1390.419998 0.764429542 0.929496206 1.156642292 1.071628506 0.98977046 1.03764244 1.183466985 1.299156182 1.053895941 1 10.44130502 -6.845262006 5.343351147 0.887000353 1.113249466 0.380227938 0.109674826 0.144206407 6.935318532 0.019543254 0.025940949 1.43E-07 6.845262006 0.226249113 SMGSQEDDSGNKPSS(ph)YS ddPTM_HeLa_SAHA_4h_R1 3 SMGSQEDDSGNKPSSYS 17 1 H7C3P9;Q9UNS2-2;Q9UNS2 H7C3P9 COPS3 COP9 signalosome complex subunit 3 1 0 SMGSQEDDSGNKPS(0.045)S(0.551)YS(0.404);SMGSQEDDSGNKPS(0.099)S(0.51)YS(0.391);SMGSQEDDSGNKPS(0.107)S(0.54)Y(0.007)S(0.346) ;; 112.16 0.0058407 46041000 4525.2 4236.2 3338.39 3534.51 4531.5 4264 4243.1 4517.1 4350.9 3680.16 TRUE FALSE FALSE 5001.181298 4373.455659 3793.328404 3602.925552 4184.297449 3900.683211 3765.655221 4401.559123 4320.621733 3838.829708 1.302788005 1.139267952 0.98814709 0.938547898 1.089992984 1.016112594 0.980938335 1.146588793 1.125504922 1 11.90645085 -6.776167842 21.02401524 1.146699844 1.023026175 0.293212911 0.087357546 45.32609256 64699.99185 0.019856812 0.026199775 1.67E-07 6.776167842 -0.12367367 SMGSQEDDSGNKPSSYS(ph) ddPTM_HeLa_SAHA_4h_R1 1 SMGSQEDDSGNKPSSYS 17 1 H7C3P9;Q9UNS2-2;Q9UNS2 H7C3P9 COPS3 COP9 signalosome complex subunit 3 1 0 SMGSQEDDSGNKPS(0.07)S(0.464)YS(0.466) 133.94 0.00051837 31522000 2213.6 2035.2 1426.5 1655 2459.7 1992.3 2246.2 2125.6 2535.6 1862.5 TRUE FALSE FALSE 2446.436604 2101.141815 1620.895991 1687.034918 2271.238317 1822.544832 1993.451664 2071.23023 2517.954553 1942.80149 1.259231382 1.081501032 0.8343086 0.86835167 1.16905321 0.938101418 1.02607069 1.066104922 1.296043145 1 10.92392278 -6.985921148 24.84330732 1.124938585 0.984306573 0.331320748 0.119819596 263.5868053 465118.9856 0.020973565 0.027557966 1.03E-07 6.985921148 -0.140632011 SMGTGDTPGLEVPS(ph)SPLR ddPTM_HeLa_SAHA_4h_R1 2 SMGTGDTPGLEVPSSPLR 18 0 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 SMGTGDTPGLEVPS(0.5)S(0.5)PLR;SMGTGDTPGLEVPS(0.5)S(0.5)PLR ; 156.83 2.56E-05 37176000 3916.8 3780.9 3266.7 3318.1 3885.8 3835 4293.8 3752.8 3663.4 3129.7 TRUE FALSE FALSE 4328.786995 3903.403641 3711.868864 3382.326624 3588.070843 3508.236425 3810.650323 3656.80881 3637.906101 3264.636683 1.32596286 1.195662495 1.136992941 1.036049935 1.099072023 1.074617719 1.167250966 1.120127342 1.1143372 1 11.67270673 -6.515431391 23.33809153 1.161594633 1.100266877 0.107413859 0.08135604 390.3541415 1223271.223 0.019659953 0.028538627 3.05E-07 6.515431391 -0.061327756 SMGTGDTPGLEVPS(ph)SPLRK ddPTM_HeLa_SAHA_4h_R1 8 SMGTGDTPGLEVPSSPLRK 19 1 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 SMGTGDTPGLEVPS(0.5)S(0.5)PLRK;SMGTGDTPGLEVPS(0.5)S(0.5)PLRK;SMGTGDTPGLEVPS(0.5)S(0.5)PLRK;SMGTGDTPGLEVPS(0.5)S(0.5)PLRK;SMGTGDTPGLEVPS(0.588)S(0.412)PLRK;SMGTGDTPGLEVPS(0.5)S(0.5)PLRK;SMGTGDTPGLEVPS(0.5)S(0.5)PLRK;SMGTGDTPGLEVPS(0.55)S(0.45)PLRK ;;;;;;; 225.37 6.59E-32 273205300 11270.83 10741.69 10215.88 10692.93 11181.8 12218.64 12764.14 12286.29 11608.22 11432.68 TRUE FALSE FALSE 12456.34761 11089.7278 11608.04692 10899.90712 10325.0529 11177.54313 11327.88537 11972.02449 11527.43745 11925.59878 1.044505004 0.929909517 0.97337225 0.913992439 0.865789055 0.937273116 0.949879799 1.003892946 0.966612885 1 13.54177409 -7.254457417 24.56605464 1.021016252 0.937024382 0.334339289 0.03945452 258.853427 910776.062 0.006425287 0.007782364 5.57E-08 7.254457417 -0.08399187 SMGTGDTPGLEVPSS(ph)PLR ddPTM_HeLa_SAHA_4h_R1 5 SMGTGDTPGLEVPSSPLR 18 0 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 SMGTGDTPGLEVPS(0.369)S(0.631)PLR;SMGTGDTPGLEVPS(0.027)S(0.973)PLR;SMGTGDTPGLEVPS(0.024)S(0.976)PLR;SMGTGDTPGLEVPS(0.028)S(0.972)PLR;SMGTGDTPGLEVPS(0.358)S(0.642)PLR ;;;; 286.85 9.28E-74 123678200 9826.7 9216.9 8261.5 8665.9 9562.6 10009.5 9989.6 10992.8 10775.7 9414.8 TRUE FALSE FALSE 10860.31739 9515.533607 9387.334196 8833.641026 8829.915654 9156.634288 8865.543917 10711.62009 10700.71103 9820.718103 1.105857767 0.968924422 0.955870446 0.899490336 0.899110998 0.932379302 0.902738865 1.090716583 1.089605761 1 13.2616128 -7.078513911 5.32650151 1.04988376 0.941281275 0.43982485 0.059065228 0.168984318 8.406350907 0.010478671 0.012957468 8.35E-08 7.078513911 -0.108602485 SMGTGDTPGLEVPSS(ph)PLRK ddPTM_HeLa_SAHA_4h_R1 2 SMGTGDTPGLEVPSSPLRK 19 1 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 SMGTGDTPGLEVPS(0.213)S(0.787)PLRK;SMGTGDTPGLEVPS(0.197)S(0.803)PLRK ; 112.57 0.00036736 25617000 2721.1 2259 2069.06 2476.6 2546.6 2771 3051.1 2694.3 2748.2 2477.9 TRUE FALSE FALSE 3007.317783 2332.193082 2351.020722 2524.538174 2351.480058 2534.895211 2707.782198 2625.383707 2729.075052 2584.734396 1.163491997 0.902295062 0.90957923 0.976710868 0.909756941 0.98071787 1.047605589 1.015726688 1.055843516 1 11.33580032 -7.253642644 24.96875588 1.077204554 0.963521049 0.429165522 0.05803157 501.7724391 1606909.697 0.012687152 0.01537974 5.58E-08 7.253642644 -0.113683506 SMGYDDLDYGMMS(ph)DYGTAR ddPTM_HeLa_SAHA_4h_R1 4 SMGYDDLDYGMMSDYGTAR 19 0 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-8;O60716-9;O60716-17;O60716-7;O60716-4;O60716-6;A0A669KB62;O60716-11;O60716-13;O60716-19;O60716-21;O60716-20;O60716-22;O60716-23;O60716-14;O60716-24;O60716-16;O60716-15;O60716-12 O60716 CTNND1 Catenin delta-1 1 0 S(0.002)MGY(0.001)DDLDY(0.003)GMMS(0.994)DYGTAR;SMGYDDLDY(0.014)GMMS(0.808)DY(0.124)GT(0.054)AR;S(0.001)MGYDDLDY(0.356)GMMS(0.643)DYGTAR;S(0.223)MGYDDLDY(0.098)GMMS(0.643)DY(0.027)GT(0.009)AR ;;; 148.13 0.00012918 41410600 2428.03 3313.71 2332.59 2855.21 2912.01 3037.73 2588.36 2769.37 3590.16 2708.92 TRUE FALSE FALSE 2683.421336 3421.076378 2650.463218 2910.476718 2688.892423 2778.898314 2297.110921 2698.533525 3565.175784 2825.714798 0.949643374 1.210694151 0.937979735 1.02999663 0.951579552 0.983431985 0.812930916 0.954991469 1.261689887 1 11.46440015 -4.869646646 8.329971763 0.992531302 0.884422595 0.131042233 0.11751803 0.247950112 17.2971086 0.010811379 0.032672717 1.35E-05 4.869646646 -0.108108708 SMIGSTAQQFLTFLSHR ddPTM_HeLa_SAHA_4h_R1 1 SMIGSTAQQFLTFLSHR 17 0 A0A0A0MTP6;O15357;O15357-2 A0A0A0MTP6 INPPL1 "Phosphatidylinositol 3,4,5-trisphosphate 5-phosphatase 2" 0 0 168.69 1.45E-12 626240 0 111.78 128.55 59.992 135.22 0 125.9 0 0 56.749 FALSE FALSE TRUE 0 115.4017453 146.0681245 61.15323191 124.8594728 0 111.7334006 0 0 59.19572711 0 1.949494515 2.467545069 1.033068346 2.109264957 0 1.887524761 0 0 1 5.887421137 -7.263214394 24.94642174 0.527777785 1.378388303 0.2263451 0.836963144 193.6306739 2721317.75 0.139002391 0.163323086 5.45E-08 7.263214394 0.850610518 SMMS(ph)PMADR ddPTM_HeLa_SAHA_4h_R1 3 SMMSPMADR 9 0 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;H7C1M2 P18583-10 SON Protein SON 1 0 S(0.004)MMS(0.996)PMADR;S(0.043)MMS(0.957)PMADR;S(0.001)MMS(0.999)PMADR ;; 133.91 0.0016474 17535300 2616.71 2943.15 2581.26 3197.33 2985.13 3616.97 3210.5 2665.87 3396.58 3030.93 TRUE FALSE FALSE 2891.947564 3038.509991 2933.02067 3259.218946 2756.409984 3308.783807 2849.24609 2597.680906 3372.942923 3161.608225 0.914707756 0.961064678 0.927698962 1.030873756 0.871837934 1.04655086 0.901201505 0.821632764 1.06684405 1 11.62644289 -8.905082027 0.009445131 1.930335816 2.76E-06 0.22333491 0.06750291 5072.748897 14.6434841 1546.380184 1446.589386 1.24E-09 8.905082027 -1.930333053 SMMS(ph)PMAER ddPTM_HeLa_SAHA_4h_R1 4 SMMSPMAER 9 0 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;H7C1M2 P18583-10 SON Protein SON 1 0 SMMS(1)PMAER;SMMS(1)PMAER;S(0.024)MMS(0.976)PMAER;S(0.007)MMS(0.993)PMAER ;;; 134.84 0.0015599 40033700 5210.19 4421.33 4674.27 5245.04 6114.67 6430.13 5809.88 5569.16 5592.14 5477.61 TRUE FALSE FALSE 5758.221689 4564.583993 5311.255173 5346.565334 5646.165306 5882.246749 5156.137012 5426.708951 5553.223842 5713.776574 1.007778588 0.798873378 0.929552478 0.935732307 0.988166974 1.029484908 0.902404381 0.94975869 0.971900768 1 12.48022891 SMPGK(ac)PPGMDPIASALR ddPTM_HeLa_SAHA_4h_R1 2 SMPGKPPGMDPIASALR 17 1 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5 H0YKH0 TLE3 Transducin-like enhancer protein 3 0 1 ; SMPGK(1)PPGMDPIASALR;SMPGK(1)PPGMDPIASALR 122.78 0.00024141 1484900 143.99 74.708 162.89 203 203.56 195.66 213.14 225.42 195.23 174.7 FALSE TRUE FALSE 159.1355288 77.12858822 185.0878009 206.9293585 187.9632768 178.9886672 189.1569262 219.6540828 193.8713785 182.232172 0.87325705 0.423243533 1.015670279 1.135525941 1.031449468 0.982201251 1.037999625 1.205352932 1.063870207 1 7.50963387 -6.537609857 24.99158319 0.891125537 1.069021816 0.284985072 0.17141997 298.0738337 505685.597 0.027492077 0.0388883 2.90E-07 6.537609857 0.177896279 SMQQLDPS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 1 SMQQLDPSPAR 11 0 Q9H410-4;Q9H410;Q5JW54;Q9H410-3;Q9H410-2 Q9H410-4 DSN1 Kinetochore-associated protein DSN1 homolog 1 0 SMQQLDPS(1)PAR 149.82 0.00053096 6407900 2898.8 2688.9 2588.7 2833.9 3130.6 2886.6 3166 3036.8 2840.9 2689 TRUE FALSE FALSE 3203.709084 2776.022124 2941.474555 2888.754232 2890.734104 2640.64544 2809.753348 2959.123053 2821.129946 2804.93595 1.142168357 0.989691805 1.048677976 1.029882423 1.030588276 0.941428071 1.001717472 1.05496992 1.005773392 1 11.45375211 -6.31569554 1.230836595 1.063592428 1.00306689 0 0.05052502 0.650824389 1.946561046 0.01068654 0.020365414 4.83E-07 6.31569554 -0.060525538 SMS(ph)AAFCSLLAPER ddPTM_HeLa_SAHA_4h_R1 1 SMSAAFCSLLAPER 14 0 E9PNR2;Q13671-2;Q13671 E9PNR2 RIN1 Ras and Rab interactor 1 1 0 S(0.113)MS(0.887)AAFCSLLAPER 194.23 7.00E-09 52518000 0 173.22 74.869 99.168 227.73 285.77 0 127.43 163.8 147.47 TRUE FALSE FALSE 0 178.8324417 85.07175742 101.08754 210.2813766 261.4207883 0 124.1705251 162.6601025 153.8281534 0 1.162546892 0.553031129 0.657145898 1.36698889 1.699433963 0 0.807202858 1.057414387 1 7.265175757 -6.533027069 1.485594117 0.552520207 0.921381183 0 0.532251476 0.855634703 3.78032418 0.099853405 0.163321254 2.93E-07 6.533027069 0.368860977 SMS(ph)AEDLLER ddPTM_HeLa_SAHA_4h_R1 3 SMSAEDLLER 10 0 A0A2R8Y5P9;Q8TF72 A0A2R8Y5P9 SHROOM3 Protein Shroom3 1 0 S(0.33)MS(0.67)AEDLLER;S(0.011)MS(0.989)AEDLLER;S(0.084)MS(0.916)AEDLLER ;; 130.44 0.0015825 6821100 2930.51 2632.08 2707.05 2947.22 2897.62 3046.88 3389.5 3540.8 3698.1 2751.59 TRUE FALSE FALSE 3238.754487 2717.361119 3075.952676 3004.267705 2675.604982 2787.268683 3008.104539 3450.231463 3672.364621 2870.224511 1.128397613 0.94674166 1.071676681 1.046701292 0.932193622 0.971097791 1.048038064 1.202077207 1.279469466 1 11.48694787 -7.276587981 24.90464364 1.0606322 1.027895624 0.052056658 0.103992488 2522.483511 4147015.764 0.014519668 0.016645118 5.29E-08 7.276587981 -0.032736576 SMS(ph)APGNLLVK ddPTM_HeLa_SAHA_4h_R1 1 SMSAPGNLLVK 11 0 J3KPJ3;Q8N5S9 J3KPJ3 CAMKK1 Calcium/calmodulin-dependent protein kinase kinase 1 1 0 S(0.001)MS(0.999)APGNLLVK 93.766 0.012512 3206100 936.02 872.01 848.03 952.16 749.12 986.49 1163.6 966.08 939.54 973.14 TRUE FALSE FALSE 1034.474878 900.2636961 963.595112 970.5904336 691.7225874 902.4355022 1032.668666 941.3690725 933.0016646 1015.096828 1.019089854 0.886874701 0.949264233 0.956155518 0.681435079 0.889014208 1.017310504 0.927368746 0.919125781 1 9.987401634 -7.262613468 24.86755393 1.009014655 0.900594172 0.118357226 0.087413517 100.9085429 2137271.283 0.014301581 0.016848852 5.46E-08 7.262613468 -0.108420483 SMS(ph)APSDLEMIGNEDLEFTR ddPTM_HeLa_SAHA_4h_R1 3 SMSAPSDLEMIGNEDLEFTR 20 0 F8VWT9;J3KPF0;Q9Y4D8-2;Q9Y4D8-4;Q9Y4D8 F8VWT9 HECTD4 Probable E3 ubiquitin-protein ligase HECTD4 1 0 S(0.024)MS(0.891)APS(0.085)DLEMIGNEDLEFTR;S(0.008)MS(0.705)APS(0.287)DLEMIGNEDLEFTR;S(0.437)MS(0.551)APS(0.012)DLEMIGNEDLEFTR ;; 180.76 8.84E-10 12708200 3435.92 3930.17 3933.75 3371.05 4934.95 5377.73 5256.74 3728.98 3406.5 4798.39 TRUE FALSE FALSE 3797.32583 4057.510087 4469.820964 3436.301547 4556.835197 4919.51715 4665.23778 3633.598091 3382.793889 5005.272076 0.758665218 0.810647259 0.893022576 0.686536415 0.910407092 0.98286708 0.932064773 0.725954161 0.675846155 1 12.28923278 -9.504336514 1.262571867 0.999694691 0.834326021 0 0.134368454 0.456999412 1.307655472 0.064576441 0.015751525 3.13E-10 9.504336514 -0.16536867 SMS(ph)APVIFDR ddPTM_HeLa_SAHA_4h_R1 1 SMSAPVIFDR 10 0 O60749;D6RC15 O60749 SNX2 Sorting nexin-2 1 0 S(0.39)MS(0.61)APVIFDR 129.82 0.0016703 3707800 654.69 779.3 608.74 788.26 943.14 738.93 777.24 824.11 740.17 918.36 TRUE FALSE FALSE 723.553298 804.5498313 691.695917 803.5179121 870.876817 675.9690069 689.7829096 803.0304595 735.0190967 957.9549939 0.755310325 0.839861827 0.722054712 0.838784616 0.909099929 0.705637542 0.720057742 0.838275769 0.767279362 1 9.903814068 -9.319409574 0.822627982 1.013814983 0.787852797 0 0.095152799 0.389593918 0.425569858 0.058440171 0.012254207 4.79E-10 9.319409574 -0.225962186 SMS(ph)DVSAEDVQNLR ddPTM_HeLa_SAHA_4h_R1 5 SMSDVSAEDVQNLR 14 0 E9PMS6;Q8WWI1-3;E9PMP7;E9PK58;E9PJ10;E9PLU6;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 S(0.034)MS(0.963)DVS(0.002)AEDVQNLR;S(0.317)MS(0.683)DVSAEDVQNLR;S(0.005)MS(0.995)DVSAEDVQNLR;SMS(0.958)DVS(0.042)AEDVQNLR;S(0.039)MS(0.951)DVS(0.01)AEDVQNLR ;;;; 233.52 1.43E-24 99563800 4486.12 4544.14 3953.25 4197.89 5243.82 5257.73 4714.75 4771.02 4508.16 4406.28 TRUE FALSE FALSE 4957.990685 4691.373118 4491.978322 4279.146231 4842.039644 4809.741825 4184.233921 4648.984217 4476.787348 4596.256295 1.078701962 1.020694412 0.977312411 0.93100688 1.053474683 1.046447699 0.910356963 1.011471928 0.974007336 1 12.16624353 -6.921357828 5.245292868 1.037760094 0.988075233 0.03582798 0.049832796 0.274415931 13.35095927 0.008174211 0.010787174 1.20E-07 6.921357828 -0.04968486 SMS(ph)ENAVR ddPTM_HeLa_SAHA_4h_R1 4 SMSENAVR 8 0 Q9GZY8-5;C9JHF5;H7C433;A0A0A0MS29;Q9GZY8-4;Q9GZY8-3;Q9GZY8-2;Q9GZY8 Q9GZY8-5 MFF Mitochondrial fission factor 1 0 S(0.372)MS(0.628)ENAVR;S(0.162)MS(0.838)ENAVR;S(0.014)MS(0.986)ENAVR;S(0.028)MS(0.972)ENAVR ;;; 141.08 0.00060975 366786000 8058.74 17266.1 11867.3 8145.1 14970.4 12549.9 15441.1 11238.8 9413.5 11972.5 TRUE FALSE FALSE 8906.395248 17825.53297 13484.51384 8302.760189 13823.37119 11480.57792 13703.62679 10951.32777 9347.990687 12488.69307 0.713156709 1.427333739 1.079737789 0.664822183 1.10687092 0.91927777 1.097282695 0.876899425 0.748516329 1 13.60833489 SMS(ph)FQGIR ddPTM_HeLa_SAHA_4h_R1 1 SMSFQGIR 8 0 P15924-2;P15924-3;P15924 P15924-2 DSP Desmoplakin 1 0 S(0.016)MS(0.984)FQGIR 90.149 0.017793 16346000 1615.8 1116.7 1368.3 2020.4 1818.7 1730.9 2115.7 1849.4 2004 1497.7 TRUE FALSE FALSE 1785.757258 1152.881813 1554.764798 2059.507764 1679.351599 1583.417582 1877.635868 1802.095026 1990.054001 1562.273177 1.143050578 0.737951486 0.99519394 1.318276339 1.074941069 1.013534384 1.201861426 1.153508268 1.273819477 1 10.60943103 SMS(ph)GGHGLR ddPTM_HeLa_SAHA_4h_R1 1 SMSGGHGLR 9 0 H3BMQ0;P49815;A0A2R8Y5F1;A0A2R8YGD6;A0A2R8Y7C8;A0A2R8YDR3;A0A2R8Y7X5;A0A2R8YDZ2;X5D2U8;A0A2R8YGU4;A0A2R8Y6C9;P49815-5;P49815-3;P49815-2;P49815-6;P49815-7;P49815-4 H3BMQ0 TSC2 Tuberin 1 0 SMS(1)GGHGLR 82.494 0.019518 15990000 3411.9 3843.4 2895.7 3606 4778.4 6141.5 4175.8 5148.7 2826.2 3521.5 TRUE FALSE FALSE 3770.779296 3967.928682 3290.310916 3675.799344 4412.280024 5618.209649 3705.927994 5017.003709 2806.532244 3673.329099 1.026529122 1.080199616 0.895729957 1.000672481 1.201166546 1.529459925 1.008874483 1.365792058 0.764029622 1 11.84287244 -5.66275969 4.408946112 1.008013596 1.284916182 0.509972917 0.14886752 0.122807642 4.235739828 0.01686262 0.034430538 2.17E-06 5.66275969 0.276902586 SMS(ph)PTSTPK ddPTM_HeLa_SAHA_4h_R1 2 SMSPTSTPK 9 0 O94913;E9PKN0;E9PQ01 O94913;E9PQ01 PCF11 Pre-mRNA cleavage complex 2 protein Pcf11 1 0 S(0.025)MS(0.451)PT(0.451)S(0.061)T(0.011)PK;S(0.004)MS(0.736)PT(0.215)S(0.043)T(0.002)PK ; 96.171 0.013358 30904000 11270.5 10191 9223.4 10430.9 11534.4 11965.6 12038.2 11589.3 12155.7 10162.3 TRUE FALSE FALSE 12455.9829 10521.19509 10480.31692 10632.80515 10650.63676 10946.06356 10683.63005 11292.86249 12071.10749 10600.44649 1.175043232 0.992523768 0.988667499 1.003052576 1.004734732 1.032604011 1.007847176 1.065319513 1.138735761 1 13.37183741 SMS(ph)VDETDKSPCEAGR ddPTM_HeLa_SAHA_4h_R1 2 SMSVDETDKSPCEAGR 16 1 A0A0X1KG75;A0A590PXD8;A0A0D9SG04;Q53SF7;Q53SF7-3;Q53SF7-2;A0A0B4J1Z0 A0A0X1KG75 COBLL1 Cordon-bleu protein-like 1 1 0 S(0.01)MS(0.99)VDETDKSPCEAGR;S(0.001)MS(0.999)VDETDKSPCEAGR ; 151.8 2.43E-09 3989000 831.9 1579.76 1137.98 597.98 1191.02 1621.41 1699.85 935.3 1140.46 1259.29 TRUE FALSE FALSE 919.4030589 1630.945261 1293.057988 609.5547676 1099.764305 1483.256746 1508.578404 911.3763803 1132.523446 1313.584155 0.699919419 1.241599371 0.984373923 0.464039373 0.837224095 1.12916766 1.148444429 0.693808902 0.86216284 1 10.35929291 -5.290981988 24.27038005 0.862889849 1.0062708 0.055996843 0.222761809 1020.299676 838213.8022 0.033365394 0.074620354 5.12E-06 5.290981988 0.143380951 SMSQVDVDS(ph)GIENMEVDENDRR ddPTM_HeLa_SAHA_4h_R1 2 SMSQVDVDSGIENMEVDENDRR 22 1 O95155-2;O95155;O95155-4 O95155-2 UBE4B Ubiquitin conjugation factor E4 B 1 0 S(0.001)MS(0.003)QVDVDS(0.996)GIENMEVDENDRR;SMS(0.006)QVDVDS(0.993)GIENMEVDENDRR ; 91.503 0.0001557 10670300 1031.98 1296.05 911.96 1014.39 1204.63 1304.27 1576.04 1770.68 1045.7 1492.13 TRUE FALSE FALSE 1140.528391 1338.04287 1036.23716 1034.024985 1112.33151 1193.138858 1398.699831 1725.38857 1038.422889 1556.463027 0.732769344 0.859668908 0.66576407 0.664342787 0.714653346 0.76657064 0.898639934 1.108531677 0.667168362 1 10.60405559 -4.320889315 3.087926744 0.82347156 1.134565053 0.390539988 0.114432726 0.320089168 4.765598891 0.0195343 0.222330806 4.78E-05 4.320889315 0.311093493 SMSSIPPYPASSLAS(ph)SSPPGSGR ddPTM_HeLa_SAHA_4h_R1 1 SMSSIPPYPASSLASSSPPGSGR 23 0 A0A2R8Y7R9;Q13136-2;Q13136;H0YDW2 A0A2R8Y7R9 PPFIA1 Liprin-alpha-1 1 0 SMSSIPPYPAS(0.003)S(0.003)LAS(0.428)S(0.428)S(0.139)PPGSGR 186.89 2.92E-15 14305000 3902.8 3852.9 3445.9 3599.4 4317.4 4752.2 4938.9 4567.4 4241.8 4120.5 TRUE FALSE FALSE 4313.314411 3977.736488 3915.489307 3669.071592 3986.601745 4347.285825 4383.161974 4450.572522 4212.280968 4298.15492 1.003526976 0.925452098 0.910969795 0.85363875 0.927514671 1.011430697 1.019777568 1.03546117 0.980020741 1 12.06950177 -5.023333264 19.86991307 0.973059558 1.02461579 0.223969163 0.049295857 89.27293452 76025.95489 0.008726196 0.022528327 9.48E-06 5.023333264 0.051556232 SMSSIPPYPASSLASSS(ph)PPGSGR ddPTM_HeLa_SAHA_4h_R1 1 SMSSIPPYPASSLASSSPPGSGR 23 0 A0A2R8Y7R9;Q13136-2;Q13136;H0YDW2 A0A2R8Y7R9 PPFIA1 Liprin-alpha-1 1 0 SMSSIPPYPAS(0.001)S(0.001)LAS(0.002)S(0.052)S(0.944)PPGSGR 254.54 3.84E-58 15033000 3289.9 2865.7 2464.1 3059 3875.7 3405.1 3703.7 3591.7 3072.2 2904 TRUE FALSE FALSE 3635.946777 2958.55056 2799.894716 3118.211368 3578.744703 3114.966323 3286.949928 3499.829515 3050.82031 3029.205652 1.200297106 0.976675373 0.924299977 1.029382527 1.181413583 1.028311274 1.085086424 1.155362137 1.007135421 1 11.56472381 -4.281657201 4.394195751 1.073408106 1.159847596 0.0602593 0.08552033 0.484477419 21.95087431 0.013950348 0.124391612 5.23E-05 4.281657201 0.08643949 SMVWPGDGLVPDT(ph)AEPHVAPSPTLPSTEDVIR ddPTM_HeLa_SAHA_4h_R1 1 SMVWPGDGLVPDTAEPHVAPSPTLPSTEDVIR 32 0 R4GNG3;F8WAK2;F8VXI9;Q14161-11;Q14161-7;Q14161-9;Q14161-6;Q14161-10;Q14161-8;Q14161-4;Q14161-5;Q14161-3;Q14161 R4GNG3 GIT2 ARF GTPase-activating protein GIT2 1 0 SMVWPGDGLVPDT(1)AEPHVAPSPTLPSTEDVIR 126.5 3.32E-12 6218100 207.78 332.34 132.56 205.85 351.67 367.73 518.83 229.52 216.72 196.27 TRUE FALSE FALSE 229.6352537 343.1080341 150.6245865 209.8345244 324.7251206 336.3973352 460.4498829 223.6492107 215.2118279 204.7321602 1.121637429 1.675887333 0.735715318 1.024922143 1.586097271 1.643109392 2.249035434 1.092399018 1.051187208 1 7.677593935 -5.682533394 4.407172958 1.081310942 1.703367438 0.374227259 0.341091858 0.149256997 5.420180977 0.046490368 0.094519883 2.08E-06 5.682533394 0.622056495 SMYEEEINETR ddPTM_HeLa_SAHA_4h_R1 2 SMYEEEINETR 11 0 P20700;E9PBF6;A0A0D9SFE5 P20700 LMNB1 Lamin-B1 0 0 ; ; 220.82 5.22E-15 14765200 2019.16 2061.49 1568.73 1758.48 2069 2412.8 2154.5 2061.97 2319.8 2011.76 FALSE FALSE TRUE 2231.544513 2128.283629 1782.508355 1792.517923 1910.473667 2207.215866 1912.06999 2009.227793 2303.656323 2098.496819 1.063401428 1.014194355 0.849421519 0.854191394 0.910401031 1.051808059 0.911161729 0.95746049 1.097764982 1 11.03514056 -6.909761212 8.423938359 1.030392326 0.924284927 0.50066167 0.05899728 0.190532327 15.88522855 0.009635126 0.012676271 1.23E-07 6.909761212 -0.106107399 SNDEEAFTFAR ddPTM_HeLa_SAHA_4h_R1 1 SNDEEAFTFAR 11 0 P0DN79;P35520;P35520-2 P0DN79 CBS Cystathionine beta-synthase 0 0 111.27 0.0029173 0 597.14 514.25 385.01 629.09 590.69 698.09 528.77 574.96 535.64 558.13 FALSE FALSE TRUE 659.949925 530.9120374 437.4771578 641.2669466 545.4314598 638.6088047 469.271408 560.2533557 531.9124376 582.1937157 1.13355728 0.911916469 0.751428856 1.101466624 0.936855629 1.09690089 0.806039975 0.96231433 0.913634798 1 9.185355457 -7.248364493 24.57728493 1.063068716 0.938210007 0.041514036 0.11693701 702.9506746 1321359.501 0.018143507 0.022147118 5.64E-08 7.248364493 -0.124858709 SNDRNS(ph)MDIQCEVDALLER ddPTM_HeLa_SAHA_4h_R1 6 SNDRNSMDIQCEVDALLER 19 1 Q02241-2;H7BYN4;Q02241;A0A2U3TZL8;A0A2R8Y531;H0YME6 Q02241-2 KIF23 Kinesin-like protein KIF23;Kinesin-like protein 1 0 SNDRNS(1)MDIQCEVDALLER;S(0.064)NDRNS(0.936)MDIQCEVDALLER;SNDRNS(1)MDIQCEVDALLER;S(0.027)NDRNS(0.973)MDIQCEVDALLER;S(0.057)NDRNS(0.943)MDIQCEVDALLER;S(0.193)NDRNS(0.807)MDIQCEVDALLER ;;;;; 208.72 1.18E-20 22468300 3228.6 2659.86 3076.44 2937.22 3753.95 2573.47 3227.14 2577.03 3392.4 3228.47 TRUE FALSE FALSE 3568.198961 2746.041209 3495.681222 2994.07414 3466.323162 2354.195878 2864.013714 2511.113304 3368.792012 3367.665141 1.059546841 0.815413972 1.038013304 0.889065277 1.029295674 0.699058778 0.850444921 0.745654095 1.000334615 1 11.71753298 -5.200390425 0.535418538 1.023000344 0.69402346 0.457629109 0.09127594 1.032203483 0.357211998 0.018835989 0.177170164 6.30E-06 5.200390425 -0.328976884 SNEDQSMGNWQIK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 SNEDQSMGNWQIKR 14 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 1 SNEDQSMGNWQIK(1)R 208.82 1.02E-32 1094400 139.33 210.01 126.38 207.21 209.79 170.29 64.916 255.56 198.78 71.434 FALSE TRUE FALSE 153.9853687 216.8144618 143.6024082 211.2208492 193.7159355 155.780334 57.61148083 249.0231452 197.3966738 74.51386933 2.066532983 2.909719543 1.927190328 2.834651469 2.59972992 2.090621993 0.773164531 3.341970394 2.649126607 1 6.219437076 -8.702466554 0.770418032 1.039392597 2.293889086 0 0.829224124 0.513834829 0.603439965 0.341318935 0.138953337 1.98E-09 8.702466554 1.254496489 SNEDS(ph)LILEK ddPTM_HeLa_SAHA_4h_R1 1 SNEDSLILEK 10 0 A0A0U1RRH6;O94880 A0A0U1RRH6 PHF14 PHD finger protein 14 1 0 S(0.066)NEDS(0.934)LILEK 95.854 0.01365 6819400 1121.4 1198.4 1144.8 1469.4 1573.4 1698.9 1431.7 1568.7 1713.7 1442.9 TRUE FALSE FALSE 1239.353997 1237.228946 1300.807382 1497.842362 1452.846432 1554.144162 1270.601348 1528.574925 1701.774222 1505.11048 0.823430581 0.822018691 0.864260398 0.99517104 0.965275607 1.032578128 0.844191416 1.015589849 1.130663991 1 10.55565367 -6.256164631 24.72616395 0.902331964 0.966692403 0.011303883 0.099172112 673.9776316 3159369.628 0.013093088 0.021294996 5.54E-07 6.256164631 0.06436044 SNEEGS(ph)EEKGPEVR ddPTM_HeLa_SAHA_4h_R1 4 SNEEGSEEKGPEVR 14 1 P31947-2;P31947 P31947-2 SFN 14-3-3 protein sigma 1 0 SNEEGS(1)EEKGPEVR;SNEEGS(1)EEKGPEVR;S(0.021)NEEGS(0.979)EEKGPEVR;SNEEGS(1)EEKGPEVR ;;; 117.13 0.0043639 18795100 4296.96 4382.24 3719.42 4970.28 4420.07 5134.91 4660.7 4646.34 4121 4434.31 TRUE FALSE FALSE 4748.933968 4524.227451 4226.283188 5066.486957 4081.405192 4697.38678 4136.26577 4527.493351 4092.321625 4625.494805 1.026686694 0.978106698 0.913693208 1.095339454 0.882371587 1.015542548 0.894232065 0.978812763 0.884731644 1 12.17539199 -5.942938538 0.595607962 1.011354572 0.941110707 0 0.071700457 1.335634444 0.833843524 0.012193734 0.045435467 1.14E-06 5.942938538 -0.070243865 SNEEGSEEK(ac)GPEVR ddPTM_HeLa_SAHA_4h_R1 2 SNEEGSEEKGPEVR 14 1 P31947-2;P31947 P31947-2 SFN 14-3-3 protein sigma 0 1 ; SNEEGSEEK(1)GPEVR;SNEEGSEEK(1)GPEVR 253.97 2.18E-69 2131400 156.68 540.96 356.85 322.5 820.73 519.57 769.46 493.93 509.34 0 FALSE TRUE FALSE 173.1603213 558.4874589 405.4796596 328.7424538 757.8458447 475.299713 682.8783357 481.2959858 505.7954615 0 0 SNEEGSEEKGPEVR ddPTM_HeLa_SAHA_4h_R1 4 SNEEGSEEKGPEVR 14 1 P31947-2;P31947 P31947-2 SFN 14-3-3 protein sigma 0 0 ;;; ;;; 176.43 1.73E-06 35601970 5806.87 6242.77 5722.64 6314.38 5658.47 7376.23 6514.28 7112.2 6739.31 6090.14 FALSE FALSE TRUE 6417.663229 6445.039844 6502.491577 6436.603956 5224.919251 6747.733706 5781.27607 6930.280222 6692.410593 6352.71574 1.010223579 1.014533014 1.023576663 1.013205095 0.822470179 1.062180961 0.910047971 1.090916154 1.053472384 1 12.63315775 SNETQNPHKPS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 SNETQNPHKPSPSR 14 1 A0A5S6SZ32;Q96LW4-2;Q96LW4 A0A5S6SZ32 PRIMPOL DNA-directed primase/polymerase protein 1 0 SNETQNPHKPS(0.5)PS(0.5)R 77.795 0.011294 2059900 287.76 410.48 119.23 305.7 468.5 694.48 481.15 394.25 418.93 244.42 TRUE FALSE FALSE 318.0279171 423.7798213 135.4780435 311.6172655 432.6036312 635.306397 427.0097357 384.1656559 416.014632 254.9581424 1.247373056 1.662154491 0.531373669 1.222229118 1.696763348 2.491806659 1.674822901 1.506779318 1.631697769 1 7.994116602 -5.718842894 3.96843702 1.120436519 1.897545855 0.378795067 0.387296177 0.13276248 4.392691053 0.050803719 0.102653671 1.91E-06 5.718842894 0.777109336 SNGELSES(ph)PGAGK ddPTM_HeLa_SAHA_4h_R1 2 SNGELSESPGAGK 13 0 E7ETD6;E9PE19;A0A2R8Y7Q1;Q12830-4;Q12830;F5GXF5;Q12830-2;A0A0A0MR81;F5H176 E7ETD6 BPTF Nucleosome-remodeling factor subunit BPTF 1 0 SNGELS(0.477)ES(0.522)PGAGK;S(0.002)NGELS(0.03)ES(0.968)PGAGK ; 110.22 0.0025588 51483000 6459.3 5724.3 4435.2 5254.7 5755.4 6928.9 5789.2 6606.2 6796.4 6351.4 TRUE FALSE FALSE 7138.71881 5909.771076 5039.605958 5356.412317 5314.422495 6338.518739 5137.78398 6437.22297 6749.103299 6625.239937 1.077503438 0.892008611 0.76066769 0.808485786 0.802147929 0.956722896 0.775486477 0.971621108 1.018695679 1 12.69375699 -7.132424302 4.67536096 1.03626511 0.842891178 0.592824547 0.068865733 0.106035083 3.605248628 0.01132351 0.01396297 7.37E-08 7.132424302 -0.193373932 SNMS(ph)PHGLPAR ddPTM_HeLa_SAHA_4h_R1 1 SNMSPHGLPAR 11 0 H0Y4T7;E7ESY4;Q13330-3;Q13330 H0Y4T7 MTA1 Metastasis-associated protein MTA1 1 0 S(0.166)NMS(0.834)PHGLPAR 83.869 0.020546 11234000 1927.5 1702.1 1226.3 1620.2 2092.9 1676.5 1606.3 1804.4 1913.8 1956.1 TRUE FALSE FALSE 2130.243294 1757.249157 1393.413778 1651.561314 1932.542454 1533.652768 1425.554896 1758.246061 1900.48171 2040.437044 1.044013242 0.861212142 0.682899667 0.809415472 0.947121824 0.751629546 0.698651743 0.861700716 0.931409139 1 10.99466248 -7.132202746 4.150133434 1.020553693 0.792338396 0.5562817 0.078206555 0.099832266 2.907466528 0.01232415 0.015227037 7.38E-08 7.132202746 -0.228215297 SNNVEMDWVLK ddPTM_HeLa_SAHA_4h_R1 1 SNNVEMDWVLK 11 0 P31943;G8JLB6;E9PCY7;D6RBM0;D6RIT2;D6RJ04;D6RDU3;D6RIU0;E5RGV0;D6RFM3;D6R9T0;D6RAM1;D6RIH9;H0YAQ2;E5RGH4;E7EQJ0 P31943;E7EQJ0 HNRNPH1 "Heterogeneous nuclear ribonucleoprotein H;Heterogeneous nuclear ribonucleoprotein H, N-terminally processed" 0 0 124.42 0.0029767 346740 355.56 256.53 325.86 390.53 292 523.53 236.23 280.53 342.53 312.78 FALSE FALSE TRUE 392.9594322 264.8417403 370.2665038 398.0892729 269.6270231 478.9222987 209.6487787 273.3544488 340.1463058 326.2654765 1.204416221 0.811736942 1.134862652 1.220139125 0.82640378 1.467891436 0.642571138 0.837828298 1.042544585 1 8.349902528 -4.723298218 24.99997426 1.090281294 0.740199249 0.355934667 0.187397422 124.8555517 81836.04237 0.023708054 0.08870381 1.89E-05 4.723298218 -0.350082046 SNPSAVAGNET(ph)PGASTK ddPTM_HeLa_SAHA_4h_R1 2 SNPSAVAGNETPGASTK 17 0 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;A0A3B3ISZ5;A0A3B3IS03 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 SNPSAVAGNET(1)PGASTK;SNPSAVAGNET(1)PGASTK ; 285.96 1.65E-72 17808800 2815.7 3723.5 2899.3 2817.5 4056.8 3591.5 3536.6 3136.3 3497.5 3204.9 TRUE FALSE FALSE 3111.868245 3844.143843 3294.401505 2872.036787 3745.96886 3285.483995 3138.65246 3056.077987 3473.160613 3343.078923 0.930839001 1.149881271 0.985439345 0.859099307 1.120514635 0.982771891 0.938850841 0.914150715 1.038910744 1 11.7069617 -4.657430005 3.858150896 0.985047038 0.920043464 0.08926388 0.08216284 0.448249336 12.11484765 0.011115988 0.048027154 2.20E-05 4.657430005 -0.065003574 SNPSVFVIFQK ddPTM_HeLa_SAHA_4h_R1 1 SNPSVFVIFQK 11 0 C9J6P4;Q7Z2W4;Q7Z2W4-4 C9J6P4 ZC3HAV1 Zinc finger CCCH-type antiviral protein 1 0 0 127.42 0.0015706 282870 151.05 0 148.96 76.073 74.271 77.375 253.1 84.976 164.77 82.268 FALSE FALSE TRUE 166.938132 0 169.259493 77.54550292 68.58037203 70.7822147 224.6205219 82.80243696 163.6233522 85.81497609 1.945326325 0 1.972377093 0.903636014 0.799165544 0.824823567 2.617497925 0.964894949 1.906699269 1 6.423157538 -4.793742046 24.99999336 1.271269023 1.791202742 0.097440401 0.704435244 325.4862402 251903.273 0.094863322 0.284621156 1.61E-05 4.793742046 0.519933719 SNS(ph)DESNFSEK ddPTM_HeLa_SAHA_4h_R1 2 SNSDESNFSEK 11 0 A0A087WWW9;O95999 A0A087WWW9 BCL10 B-cell lymphoma/leukemia 10 1 0 S(0.261)NS(0.736)DES(0.002)NFS(0.001)EK;S(0.003)NS(0.673)DES(0.324)NFSEK ; 169.4 0.00010502 25987600 1851.05 2503.9 2222.2 1719.64 2161.5 3129.2 2804.3 2226.3 2493.8 2173.76 TRUE FALSE FALSE 2045.751932 2585.028003 2525.029843 1752.926119 1995.886337 2862.574556 2488.752783 2169.35447 2476.445443 2267.481432 0.902213312 1.140043736 1.113583471 0.773071874 0.88022169 1.262446746 1.097584637 0.956724249 1.092156879 1 11.14687502 -5.28222163 24.88334153 0.961294252 1.104785197 0.134645114 0.128875371 854.0434536 1022575.985 0.017869783 0.039999939 5.22E-06 5.28222163 0.143490945 SNS(ph)DVTISDIDAEDVLDQNAVNPNTGAALHR ddPTM_HeLa_SAHA_4h_R1 1 SNSDVTISDIDAEDVLDQNAVNPNTGAALHR 31 0 Q9P2F8 Q9P2F8 SIPA1L2 Signal-induced proliferation-associated 1-like protein 2 1 0 S(0.247)NS(0.752)DVT(0.001)ISDIDAEDVLDQNAVNPNTGAALHR 139.01 3.00E-14 13710000 489.53 393.52 518.26 555.11 672.73 647.09 616.67 767.68 568.26 540.73 TRUE FALSE FALSE 541.0210114 406.2703062 588.8857738 565.8549568 621.1855727 591.9542916 547.2806686 748.0438572 564.3054324 564.0435166 0.959183105 0.720281848 1.044043157 1.003211526 1.101307886 1.049483372 0.970280931 1.326216569 1.000464354 1 9.139662662 -1.651195316 1.178066507 0.975677234 200 0.512443019 0.098457826 564.3116005 1.71775335 0.014510699 302377.7722 0.022325679 1.651195316 199.0243227 SNS(ph)EVEDVGPTSHNR ddPTM_HeLa_SAHA_4h_R1 2 SNSEVEDVGPTSHNR 15 0 Q13206 Q13206 DDX10 Probable ATP-dependent RNA helicase DDX10 1 0 S(0.149)NS(0.851)EVEDVGPTSHNR;S(0.216)NS(0.784)EVEDVGPTSHNR ; 194.15 3.19E-34 3726900 1165.84 1166.28 861.28 884.84 1269.52 1437.62 1431.7 1202.75 1107.44 1192.43 TRUE FALSE FALSE 1288.4684 1204.068237 978.650753 901.9673577 1172.249652 1315.126688 1270.601348 1171.985397 1099.733235 1243.841493 1.035878291 0.968023855 0.786796998 0.725146542 0.942442955 1.057310514 1.021513879 0.942230504 0.884142587 1 10.28058693 -6.997878919 24.9788076 1.016153508 0.913648291 0.028083708 0.101794372 89.94864393 1059257.82 0.016736834 0.021912555 1.00E-07 6.997878919 -0.102505217 SNS(ph)FIGVPNGEVEMPLK ddPTM_HeLa_SAHA_4h_R1 3 SNSFIGVPNGEVEMPLK 17 0 Q9H7E2-2;Q9H7E2;Q9H7E2-3 Q9H7E2-2 TDRD3 Tudor domain-containing protein 3 1 0 S(0.166)NS(0.834)FIGVPNGEVEMPLK;S(0.28)NS(0.72)FIGVPNGEVEMPLK;S(0.05)NS(0.95)FIGVPNGEVEMPLK ;; 130.56 4.66E-06 5628600 2494.88 2807.07 2108.41 2353.06 2917.7 3145.53 2657.47 2115.17 2682.25 2213.41 TRUE FALSE FALSE 2757.302925 2898.02091 2395.733135 2398.606879 2694.146456 2877.513148 2358.444482 2061.067014 2663.584004 2308.840937 1.194236849 1.255184306 1.037634553 1.038879223 1.166882661 1.24630203 1.021484176 0.892684715 1.15364552 1 11.17295307 -4.474525806 4.720938137 1.11200601 0.912038683 0.421497342 0.086213521 0.196907935 9.408413191 0.014207231 0.080962692 3.35E-05 4.474525806 -0.199967327 SNS(ph)FNNPLGNR ddPTM_HeLa_SAHA_4h_R1 2 SNSFNNPLGNR 11 0 O95835;O95835-2 O95835 LATS1 Serine/threonine-protein kinase LATS1 1 0 S(0.091)NS(0.909)FNNPLGNR;S(0.08)NS(0.92)FNNPLGNR ; 169.58 0.00010288 42492000 2813 2940.6 2720.6 2635.4 2709.2 2352.5 2855.4 3015 2545.1 2572.5 TRUE FALSE FALSE 3108.884247 3035.877369 3091.3492 2686.411978 2501.621681 2152.053765 2534.102877 2937.880666 2527.388442 2683.413065 1.158555978 1.131349254 1.152021372 1.001117574 0.932253671 0.801983785 0.944358105 1.094829829 0.941855906 1 11.38985343 -6.006182342 4.203938337 1.087150213 0.935071246 0.317060369 0.091378913 0.173028002 7.291483189 0.014011113 0.024998867 9.86E-07 6.006182342 -0.152078967 SNS(ph)FSDER ddPTM_HeLa_SAHA_4h_R1 4 SNSFSDER 8 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 S(0.142)NS(0.505)FS(0.353)DER;SNS(0.819)FS(0.181)DER;SNS(0.5)FS(0.5)DER;S(0.002)NS(0.552)FS(0.446)DER ;;; 169.21 3.72E-06 794501600 17596.4 25573.7 15715.6 18821.6 22621.6 26941.9 21443.6 16654.8 35006.9 22301.4 TRUE FALSE FALSE 19447.27009 26402.30466 17857.24012 19185.91928 20888.3379 24646.29855 19030.70969 16228.79433 34763.28413 23262.92249 0.835977083 1.134952183 0.767626687 0.824742432 0.897924064 1.059466993 0.818070459 0.697624915 1.494364439 1 14.50574473 -13.47628529 0.017258329 2.056365993 9.81E-07 0.145460158 0.204771539 5944.719263 8.344480129 632.3926992 389.5536884 3.34E-14 13.47628529 -2.056365012 SNS(ph)GRELTDEEILASVMIK ddPTM_HeLa_SAHA_4h_R1 7 SNSGRELTDEEILASVMIK 19 1 Q5JSH3-2;Q5JSH3;Q5JSH3-4;H7BY83 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 S(0.073)NS(0.853)GRELT(0.073)DEEILASVMIK;S(0.136)NS(0.829)GRELT(0.035)DEEILASVMIK;S(0.064)NS(0.907)GRELT(0.03)DEEILASVMIK;S(0.264)NS(0.731)GRELT(0.005)DEEILASVMIK;S(0.42)NS(0.572)GRELT(0.008)DEEILASVMIK;S(0.262)NS(0.738)GRELTDEEILASVMIK;S(0.247)NS(0.751)GRELT(0.003)DEEILASVMIK ;;;;;; 120.33 0.00057222 182265700 11680.57 14762.53 15895.4 15812.1 17655.15 17123.2 18370.3 17586.18 14954.44 14860.79 TRUE FALSE FALSE 12909.18594 15240.84566 18061.54233 16118.16606 16302.41622 15664.20703 16303.2255 17136.35098 14850.37083 15501.51138 0.832769504 0.983184496 1.165147184 1.039780294 1.051666242 1.01049547 1.051718448 1.105463239 0.957995028 1 13.92012126 -6.995246413 24.79173495 0.920343039 1.065616881 0.56626089 0.055695356 78.05303145 407071.8358 0.011586394 0.015196432 1.01E-07 6.995246413 0.145273842 SNS(ph)IDGSNVTVTPGPGEQTVDVEPR ddPTM_HeLa_SAHA_4h_R1 1 SNSIDGSNVTVTPGPGEQTVDVEPR 25 0 Q96PN7;Q05GC8;Q96PN7-2;Q96PN7-3;Q96PN7-4;Q96PN7-5 Q96PN7 TRERF1;BCAR2 Transcriptional-regulating factor 1 1 0 S(0.398)NS(0.594)IDGS(0.009)NVTVTPGPGEQTVDVEPR 104.5 2.09E-06 3447800 234.21 275.1 283.73 249.69 279.61 552.03 389.52 306.79 316.14 284.8 TRUE FALSE FALSE 258.8452824 284.0134205 322.3952468 254.523111 258.1863422 504.9939384 345.6901844 298.942756 313.939956 297.0791218 0.87130082 0.956019456 1.085216776 0.85675193 0.869082757 1.699863442 1.16363002 1.006273192 1.056755366 1 8.214703408 SNS(ph)LNNGQPK ddPTM_HeLa_SAHA_4h_R1 4 SNSLNNGQPK 10 0 O60333-3 O60333-3 KIF1B Kinesin-like protein KIF1B 1 0 S(0.009)NS(0.991)LNNGQPK;S(0.002)NS(0.998)LNNGQPK;SNS(1)LNNGQPK;SNS(1)LNNGQPK ;;; 152.38 0.0005176 44700600 7714.5 8958.4 6854.9 10923.7 11845.2 14669.1 12155.8 10424.6 10570.9 13631.4 TRUE FALSE FALSE 8525.946505 9248.658038 7789.050073 11135.14401 10937.62334 13419.21015 10787.99739 10157.95383 10497.33625 14219.11636 0.599611557 0.650438311 0.547787209 0.783110829 0.769219623 0.943744309 0.758696751 0.714387137 0.738255175 1 13.79554419 -9.457030266 1.20909192 0.99900872 0.712872045 0.042163315 0.129985865 0.339170046 0.891737665 0.079736965 0.020034927 3.49E-10 9.457030266 -0.286136675 SNS(ph)LPHPAGGGK ddPTM_HeLa_SAHA_4h_R1 2 SNSLPHPAGGGK 12 0 G5E9A7;Q09019 G5E9A7 DMWD Dystrophia myotonica WD repeat-containing protein 1 0 S(0.014)NS(0.986)LPHPAGGGK;S(0.049)NS(0.951)LPHPAGGGK ; 132.31 0.00095945 18417300 6567.9 6506.6 4870.6 5147.1 7593.3 7235.3 7735.6 5845.1 5708 6142.4 TRUE FALSE FALSE 7258.741857 6717.418109 5534.340003 5246.729563 7011.502994 6618.811735 6865.169929 5695.590806 5668.277563 6407.228924 1.132898784 1.048412377 0.863764986 0.818876557 1.094311297 1.033022515 1.071472552 0.888931997 0.884669118 1 12.64548482 -6.971681295 24.86832115 1.064226085 0.968374966 0 0.105524508 266.4700804 234002.3631 0.015989746 0.021014482 1.07E-07 6.971681295 -0.095851119 SNS(ph)LPHSAVSNAGSK ddPTM_HeLa_SAHA_4h_R1 1 SNSLPHSAVSNAGSK 15 0 A0A088AWN2;Q8TBZ3-4;Q8TBZ3-5;Q8TBZ3-6;Q8TBZ3;Q8TBZ3-2;Q8TBZ3-7 A0A088AWN2 WDR20 WD repeat-containing protein 20 1 0 S(0.001)NS(0.967)LPHS(0.021)AVS(0.01)NAGSK 144.15 0.0001062 5206700 837.06 1537.9 728.14 623.41 1426 2142.8 1426.3 1090.5 1095.7 1320.2 TRUE FALSE FALSE 925.1058114 1587.728969 827.3671272 635.477002 1316.740188 1960.221385 1265.80897 1062.606589 1088.074934 1377.120283 0.671768344 1.152934125 0.600795107 0.46145352 0.956154814 1.423420604 0.919170958 0.771614943 0.790108858 1 10.42743886 -5.528948586 24.99799916 0.818174324 1.05344719 0.185690022 0.240039661 222.7554998 917394.0143 0.036855063 0.073871434 2.96E-06 5.528948586 0.235272867 SNS(ph)LSEQLAINTSPDAVK ddPTM_HeLa_SAHA_4h_R1 1 SNSLSEQLAINTSPDAVK 18 0 Q5T1M5;Q5T1M5-2;Q5T1M5-3 Q5T1M5 FKBP15 FK506-binding protein 15 1 0 S(0.002)NS(0.984)LS(0.014)EQLAINTSPDAVK 220.1 5.49E-22 3349200 820.24 824.59 831.53 1193.4 1175.8 1382.6 1219.7 1183.6 1004.4 1022.2 TRUE FALSE FALSE 906.5166066 851.307257 944.846578 1216.499983 1085.710458 1264.794702 1082.456146 1153.325226 997.4102986 1066.272045 0.850173848 0.798395927 0.886121495 1.140890816 1.018230257 1.186183871 1.01517821 1.081642562 0.935418221 1 10.05835985 -6.267230453 24.9046756 0.912615394 1.085887195 0.656644785 0.069629783 281.5041439 1210615.21 0.012797678 0.019874802 5.40E-07 6.267230453 0.173271801 SNS(ph)LSTPRPTR ddPTM_HeLa_SAHA_4h_R1 1 SNSLSTPRPTR 11 1 J3KQR7;Q9Y4F5-3;Q9Y4F5-2;Q9Y4F5 J3KQR7 CEP170B Centrosomal protein of 170 kDa protein B 1 0 S(0.367)NS(0.608)LS(0.016)T(0.009)PRPTR 72.815 0.019167 19410000 399.11 392.34 331.21 464.3 440.28 435.62 411.82 426.73 522.95 698.08 TRUE FALSE FALSE 441.090221 405.0520734 376.3455739 473.2871979 406.5458415 398.5027253 365.4809297 415.8148645 519.3107484 728.1776451 0.605745348 0.556254475 0.51683209 0.649961175 0.558305853 0.547260312 0.501911769 0.571034922 0.713164915 1 9.508146641 -9.057884044 0.519879225 1.067460391 0.544935364 0.527527278 0.095809476 0.202192059 0.084670657 0.052212633 0.010652872 8.75E-10 9.057884044 -0.522525026 SNS(ph)LVSTFTMEK ddPTM_HeLa_SAHA_4h_R1 2 SNSLVSTFTMEK 12 0 Q9HB21 Q9HB21 PLEKHA1 Pleckstrin homology domain-containing family A member 1 1 0 S(0.228)NS(0.472)LVS(0.285)T(0.015)FT(0.001)MEK;S(0.021)NS(0.975)LVS(0.002)T(0.001)FTMEK ; 110.84 0.0029461 5882900 1452.07 1433.73 1490.74 1278.39 1579.08 2023.3 1545.91 1585.62 1320.92 1711.47 TRUE FALSE FALSE 1604.805385 1480.183793 1693.890284 1303.135087 1458.091232 1850.903457 1371.960138 1545.062136 1311.72761 1785.259847 0.898919778 0.829113921 0.94882002 0.729941408 0.816738938 1.036769779 0.768493248 0.865455042 0.734754446 1 10.80191836 -8.44269329 0.575454786 1.001355732 0.853059758 0 0.115950488 0.747429935 0.518508503 0.051424986 0.021862848 3.61E-09 8.44269329 -0.148295974 SNS(ph)PLPVPPSK ddPTM_HeLa_SAHA_4h_R1 5 SNSPLPVPPSK 11 0 Q13247;Q13247-3 Q13247 SRSF6 Serine/arginine-rich splicing factor 6 1 0 S(0.229)NS(0.771)PLPVPPSK;SNS(1)PLPVPPSK;S(0.289)NS(0.711)PLPVPPSK;S(0.001)NS(0.986)PLPVPPS(0.013)K;S(0.034)NS(0.966)PLPVPPSK ;;;; 143.58 0.00076835 768465000 29826.8 31974.6 29610.8 30900.7 31716.2 36850.4 35426.9 32505.3 37436.2 31337.3 TRUE FALSE FALSE 32964.11967 33010.59802 33646.00562 31498.82773 29286.11161 33710.53861 31440.57197 31673.86149 37175.67844 32688.40436 1.008434652 1.009856512 1.02929483 0.963608605 0.895917442 1.031269016 0.961826451 0.968963218 1.137274185 1 14.99649134 -6.23951601 23.47303503 1.00634396 0.964098162 0.240138872 0.051880656 342.1028426 366283.7977 0.004483125 0.007429735 5.76E-07 6.23951601 -0.042245798 SNS(ph)QTLSDAPFTTCPEGPAR ddPTM_HeLa_SAHA_4h_R1 1 SNSQTLSDAPFTTCPEGPAR 20 0 Q8IZW8 Q8IZW8 TNS4 Tensin-4 1 0 S(0.032)NS(0.922)QT(0.043)LS(0.004)DAPFTTCPEGPAR 139.38 1.81E-10 0 68.287 419.85 268.97 125.12 298.28 280.59 248.71 0 229.78 223.15 TRUE FALSE FALSE 75.46973997 433.4534155 305.6238309 127.5418785 275.4258508 256.6821534 220.7244962 0 228.1809423 232.7710886 0.324222997 1.862144556 1.312980202 0.54792835 1.183247681 1.102723517 0.948247042 0 0.980280428 1 7.862768069 -2.837003674 9.547094569 0.822902856 0.805152835 0 0.510063826 0 0 0.070329481 0 0.001455447 2.837003674 -0.017750021 SNS(ph)SEALLVDR ddPTM_HeLa_SAHA_4h_R1 2 SNSSEALLVDR 11 0 Q96HB5-2;Q96HB5;Q96HB5-5;Q96HB5-3;Q96HB5-4 Q96HB5-2 CCDC120 Coiled-coil domain-containing protein 120 1 0 S(0.011)NS(0.494)S(0.494)EALLVDR;S(0.039)NS(0.938)S(0.023)EALLVDR ; 135.72 0.0010908 12623200 2034.8 2195.01 1900.51 2365.2 1809.79 2613.78 2290.37 2059.45 1924.47 2183.72 TRUE FALSE FALSE 2248.8296 2266.129764 2159.501605 2410.981866 1671.124281 2391.071239 2032.65154 2006.772251 1911.077457 2277.870856 0.987250701 0.994845585 0.948035135 1.058436592 0.73363434 1.049695698 0.892347138 0.880985964 0.838975331 1 11.15347024 SNS(ph)SSEAVLGQEELSAQAK ddPTM_HeLa_SAHA_4h_R1 1 SNSSSEAVLGQEELSAQAK 19 0 A0A1B0GTL5;Q9BXF6 A0A1B0GTL5 RAB11FIP5 Rab11 family-interacting protein 5 1 0 S(0.001)NS(0.333)S(0.333)S(0.333)EAVLGQEELSAQAK 340.46 1.45E-143 25206000 1052.3 1028.6 967.89 1234.5 1222 1211.8 1427.4 1235.3 1271.1 800.99 TRUE FALSE FALSE 1162.985742 1061.927315 1099.789009 1258.395533 1128.370624 1108.547823 1266.785195 1203.702815 1262.254312 835.5245988 1.391922804 1.270970737 1.316285613 1.506114284 1.350493601 1.326768624 1.516155475 1.440655148 1.510732674 1 9.706538493 -11.93973576 0.235685775 7.69E-17 1.451097181 0 0.178063852 6.750010392 0.168546146 3.248358105 0.053350531 1.15E-12 11.93973576 1.451097181 SNS(ph)TSSMSSGLPEQDR ddPTM_HeLa_SAHA_4h_R1 2 SNSTSSMSSGLPEQDR 16 0 P42684-2;P42684-6;P42684-3;P42684 P42684-2 ABL2 Abelson tyrosine-protein kinase 2 1 0 S(0.065)NS(0.905)T(0.027)SSMSS(0.002)GLPEQDR;S(0.002)NS(0.498)T(0.498)S(0.002)SMSSGLPEQDR ; 210.43 3.23E-16 19544800 1028.73 1148.99 706.85 1235.86 824.52 1226.06 1047.17 1027.39 799.72 1069.5 TRUE FALSE FALSE 1136.936541 1186.21803 803.1758369 1259.781857 761.3454557 1121.59279 929.3396756 1001.110851 794.1546834 1115.611379 1.019115225 1.063289647 0.719942313 1.129230018 0.682446836 1.005361555 0.833031729 0.897365221 0.711856027 1 10.12361884 -6.809984868 24.99998599 1.013348598 0.884189749 0 0.154531243 117.5355285 60528.05702 0.017056961 0.022417265 1.55E-07 6.809984868 -0.129158849 SNS(ph)TTQVSQPR ddPTM_HeLa_SAHA_4h_R1 3 SNSTTQVSQPR 11 0 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 S(0.011)NS(0.725)T(0.167)T(0.096)QVS(0.001)QPR;SNS(0.77)T(0.229)T(0.001)QVSQPR;SNS(0.99)T(0.009)TQVSQPR ;; 160.48 0.00020792 17169300 2119.71 2245.09 1766.34 1544.91 1858.86 2075.29 2576.13 2149.43 2071.26 1782.04 TRUE FALSE FALSE 2342.670823 2317.832389 2007.047616 1574.813967 1716.434548 1898.463617 2286.257072 2094.450693 2056.845933 1858.872465 1.260264417 1.24690232 1.079712381 0.847187742 0.923374024 1.021298476 1.229916046 1.126731786 1.10650191 1 10.86021208 -6.524426802 24.998604 1.136954316 1.027350644 0.189085189 0.1188249 90.74073474 1465299.881 0.023417253 0.033253439 2.99E-07 6.524426802 -0.109603672 SNS(ph)VGIQDAFNDGSDSTFQKR ddPTM_HeLa_SAHA_4h_R1 3 SNSVGIQDAFNDGSDSTFQKR 21 1 O14497;O14497-2;H0Y488;A0A1B0GTU5;O14497-3;A0A087WUV6 O14497 ARID1A AT-rich interactive domain-containing protein 1A 1 0 S(0.063)NS(0.931)VGIQDAFNDGS(0.006)DSTFQKR;S(0.014)NS(0.985)VGIQDAFNDGS(0.001)DSTFQKR;S(0.011)NS(0.989)VGIQDAFNDGSDSTFQKR ;; 134.07 2.91E-06 44603000 3557.9 3078.58 3545.26 2658.54 3287.2 3983.4 3593.03 3362.2 2011.15 3366.5 TRUE FALSE FALSE 3932.136246 3178.328012 4028.38957 2709.999886 3035.335446 3643.99191 3188.732808 3276.199792 1997.154243 3511.64629 1.119741546 0.905082047 1.147151289 0.771717782 0.864362523 1.037687628 0.908044986 0.932952673 0.568723066 1 11.77793182 -6.271538409 24.99954315 1.050389314 0.908577325 0 0.175435939 559.6719732 1385433.038 0.013753224 0.02116002 5.35E-07 6.271538409 -0.141811988 SNS(ph)WVNTGGPK ddPTM_HeLa_SAHA_4h_R1 1 SNSWVNTGGPK 11 0 Q96N67-2;Q96N67-6;Q96N67;A0A1B0GWE0;A0A0U1RRC1 Q96N67-2 DOCK7 Dedicator of cytokinesis protein 7 1 0 S(0.009)NS(0.991)WVNTGGPK 119.25 0.0022496 3823100 785.56 870.97 657.44 1331.9 833.43 968.86 830.85 688.13 834.27 842.24 TRUE FALSE FALSE 868.1888051 899.1899995 747.0324994 1357.68085 769.5727735 886.3076773 737.3605713 670.528631 828.4642471 878.5530882 0.988203009 1.023489658 0.850298644 1.545360057 0.875954776 1.008826546 0.839289715 0.763219252 0.942987121 1 9.778985656 -4.651173206 2.06846446 1.019884573 0.756147531 0.203623295 0.182558636 0.460874839 3.445777156 0.024155237 0.168838761 2.23E-05 4.651173206 -0.263737042 SNSFS(ph)DER ddPTM_HeLa_SAHA_4h_R1 1 SNSFSDER 8 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 S(0.001)NS(0.316)FS(0.683)DER 130.01 0.0019702 539190000 5306.5 7858.2 4510.8 5834.1 6424.4 7772.1 6137.6 4807.4 10231 6381.5 TRUE FALSE FALSE 5864.662017 8112.810836 5125.508333 5947.027442 5932.16386 7109.873355 5446.981095 4684.433669 10159.80164 6656.637695 0.881024668 1.218755054 0.769984573 0.893398096 0.8911652 1.068087777 0.818278137 0.703723694 1.526266278 1 12.70057793 -4.546016476 6.298310991 0.949297005 0.729653446 0.128913634 0.21593021 0.118594745 16.52173622 0.015317121 0.062276909 2.84E-05 4.546016476 -0.219643559 SNSFS(ph)DEREFSGPSTPTGTLEFEGGEVSLEGGK ddPTM_HeLa_SAHA_4h_R1 1 SNSFSDEREFSGPSTPTGTLEFEGGEVSLEGGK 33 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 S(0.185)NS(0.143)FS(0.438)DEREFS(0.185)GPS(0.022)T(0.022)PT(0.003)GT(0.003)LEFEGGEVSLEGGK 55.413 0.0015709 30677000 2623.4 2867.9 3175.6 2758.6 3248.1 3344 3054.4 3561.3 3292.5 3059.2 TRUE FALSE FALSE 2899.341249 2960.821842 3608.35423 2811.996692 2999.23128 3059.072387 2710.710873 3470.207103 3269.587224 3191.097083 0.908571934 0.927838221 1.130756644 0.881200609 0.939874658 0.958627177 0.849460484 1.087465223 1.024596601 1 11.63983679 SNSGLATY(ph)SPPMGPVSER ddPTM_HeLa_SAHA_4h_R1 1 SNSGLATYSPPMGPVSER 18 0 H0Y465;P21359-2;P21359-6;P21359;J3KSB5;P21359-4 H0Y465 NF1 Neurofibromin;Neurofibromin truncated 1 0 SNS(0.001)GLAT(0.059)Y(0.536)S(0.403)PPMGPVS(0.001)ER 78.615 0.013213 4550000 1279.3 1452 1334 1450.1 1581.2 1747.1 1223.4 1543.3 1276.5 1482.2 TRUE FALSE FALSE 1413.862644 1499.045753 1515.790573 1478.168782 1460.048798 1598.237251 1085.739812 1503.824621 1267.616733 1546.104896 0.914467477 0.969562775 0.980393101 0.956059829 0.944340065 1.033718511 0.702242012 0.972653683 0.819877575 1 10.59442249 -4.781274485 24.99996213 0.963624875 0.837447663 0.231603155 0.081622838 154.3815352 194581.366 0.008707851 0.026174163 1.65E-05 4.781274485 -0.126177212 SNSGLATYS(ph)PPMGPVSER ddPTM_HeLa_SAHA_4h_R1 2 SNSGLATYSPPMGPVSER 18 0 H0Y465;P21359-2;P21359-6;P21359;J3KSB5;P21359-4 H0Y465 NF1 Neurofibromin;Neurofibromin truncated 1 0 SNS(0.002)GLAT(0.043)Y(0.401)S(0.552)PPMGPVS(0.002)ER;SNS(0.001)GLAT(0.092)Y(0.001)S(0.906)PPMGPVSER ; 95.429 0.0025153 22370400 3057.1 3119.9 2546.39 3631 3844.1 5213.6 3584.6 4993.7 4399.02 4977.3 TRUE FALSE FALSE 3378.659804 3220.986807 2893.398768 3701.283256 3549.565888 4769.371949 3181.251374 4865.968385 4368.406862 5191.895761 0.650756479 0.620387418 0.557291383 0.712896296 0.683674336 0.918618587 0.612734061 0.937223821 0.841389555 1 12.3420457 -9.267381146 0.999496274 0.999757456 0.704453942 0.271281508 0.127367844 0.375194334 0.672829069 0.078110837 0.021317701 5.40E-10 9.267381146 -0.295303514 SNSIPT(ph)HEAAFELYSGSQMGSTLSLAERPK ddPTM_HeLa_SAHA_4h_R1 1 SNSIPTHEAAFELYSGSQMGSTLSLAERPK 30 1 Q8NEY1-2;Q8NEY1-3;Q8NEY1;Q8NEY1-6;Q8NEY1-5;H0Y6F6 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 S(0.096)NS(0.179)IPT(0.725)HEAAFELYSGSQMGSTLSLAERPK 83.465 1.41E-06 1799600 154.73 154.87 135.48 245.73 125.01 408.94 135.09 194.31 153.55 229.66 TRUE FALSE FALSE 171.0052113 159.8878896 153.9425089 250.4864595 115.4317608 374.0960114 119.8893177 189.3398316 152.481433 239.5617665 0.713825139 0.667418228 0.642600491 1.045602823 0.481845507 1.561584792 0.500452636 0.790359139 0.636501539 1 7.904253866 -9.452886673 1.230047351 0.998248458 0.795010584 0 0.317157546 1.083426377 2.971115056 0.181508678 0.046680829 3.52E-10 9.452886673 -0.203237875 SNSIS(ph)QIPSLEEMQQLR ddPTM_HeLa_SAHA_4h_R1 1 SNSISQIPSLEEMQQLR 17 0 A0A1B0GV57;Q9NYJ8 A0A1B0GV57 TAB2 TGF-beta-activated kinase 1 and MAP3K7-binding protein 2 1 0 SNS(0.121)IS(0.867)QIPS(0.012)LEEMQQLR 147.53 9.37E-05 3414200 890.08 1080.8 804.94 876.33 890.13 1183.2 1616.9 844.16 931.91 902.17 TRUE FALSE FALSE 983.7026982 1115.818629 914.6330313 893.2926343 821.9284317 1082.384703 1434.962157 822.5676095 925.4247624 941.0669638 1.045305739 1.18569525 0.971910678 0.949233868 0.87340058 1.150167571 1.524824706 0.874079785 0.983378227 1 9.878153575 -5.00812448 24.99481778 1.016419113 1.233963193 0.197690733 0.16489869 370.9787751 1141322.961 0.020533246 0.057852778 9.81E-06 5.00812448 0.21754408 SNSLSEQLAINT(ph)SPDAVK ddPTM_HeLa_SAHA_4h_R1 1 SNSLSEQLAINTSPDAVK 18 0 Q5T1M5;Q5T1M5-2;Q5T1M5-3 Q5T1M5 FKBP15 FK506-binding protein 15 1 0 SNSLSEQLAINT(0.5)S(0.5)PDAVK 277.64 7.16E-61 24658000 1122.6 1725.4 1359 1423.7 1395.4 2018.4 1489.2 1703.3 1577.8 1543.3 TRUE FALSE FALSE 1240.680219 1781.304092 1544.197443 1451.257772 1288.484753 1846.420965 1321.631297 1659.732052 1566.819961 1609.839216 0.770685797 1.10651056 0.95922464 0.901492371 0.80038102 1.146959862 0.820970991 1.030992435 0.973277298 1 10.65270089 -7.276095227 24.95809896 0.891712746 0.95879326 0.025023665 0.119515366 1918.518971 3267123.71 0.021765572 0.024944449 5.30E-08 7.276095227 0.067080515 SNSLSEQLAINTS(ph)PDAVK ddPTM_HeLa_SAHA_4h_R1 2 SNSLSEQLAINTSPDAVK 18 0 Q5T1M5;Q5T1M5-2;Q5T1M5-3 Q5T1M5 FKBP15 FK506-binding protein 15 1 0 SNSLSEQLAINT(0.047)S(0.953)PDAVK;SNSLSEQLAINT(0.004)S(0.996)PDAVK ; 195.45 2.28E-13 32582600 3815.2 4027.9 3855.8 3976.34 4863.9 5422.6 5210.9 5021.2 5155.1 4180.72 TRUE FALSE FALSE 4216.500241 4158.406603 4381.248344 4053.307811 4491.229033 4960.563973 4624.555818 4892.764975 5119.225239 4360.971299 0.966871816 0.953550555 1.004649662 0.929450696 1.029868973 1.137490626 1.0604417 1.12194386 1.17387272 1 12.09043378 -5.486306612 5.207107969 0.97956182 1.100513334 0.269747775 0.067561123 0.061716276 4.272926426 0.003911613 0.008669223 3.26E-06 5.486306612 0.120951514 SNSS(ph)SEAVLGQEELSAQAK ddPTM_HeLa_SAHA_4h_R1 1 SNSSSEAVLGQEELSAQAK 19 0 A0A1B0GTL5;Q9BXF6 A0A1B0GTL5 RAB11FIP5 Rab11 family-interacting protein 5 1 0 S(0.001)NS(0.09)S(0.837)S(0.073)EAVLGQEELSAQAK 273.8 3.32E-64 28575000 1785.3 1793.5 1452.6 2022.7 2049.3 1585.7 2371.7 2190.1 1732.2 1880.4 TRUE FALSE FALSE 1973.086045 1851.610577 1650.552763 2061.852283 1892.283077 1450.589439 2104.830074 2134.080413 1720.145479 1961.473246 1.005920447 0.943989718 0.841486248 1.051175328 0.964725407 0.739540772 1.073086303 1.087998736 0.876966067 1 10.93772194 -7.265817606 23.18214845 1.002795769 0.952923908 0 0.107869392 350.2228018 1854384.837 0.016761631 0.019549022 5.42E-08 7.265817606 -0.049871861 SNSTSS(ph)MSSGLPEQDR ddPTM_HeLa_SAHA_4h_R1 1 SNSTSSMSSGLPEQDR 16 0 P42684-2;P42684-6;P42684-3;P42684 P42684-2 ABL2 Abelson tyrosine-protein kinase 2 1 0 SNS(0.011)T(0.065)S(0.014)S(0.452)MS(0.452)S(0.005)GLPEQDR 107.09 0.0041483 2354100 935.74 798.34 662.12 870.79 971.32 1298.3 1087 955.03 855.71 876.62 TRUE FALSE FALSE 1034.165427 824.2067398 752.3502654 887.6453996 896.8976714 1187.677536 964.6878992 930.6017155 849.7550444 914.4153783 1.130958043 0.901348292 0.822766418 0.970724488 0.980842725 1.298838104 1.054977773 1.017701296 0.929287788 1 9.836705856 SNSTT(ph)QVSQPR ddPTM_HeLa_SAHA_4h_R1 1 SNSTTQVSQPR 11 0 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 S(0.002)NS(0.002)T(0.042)T(0.931)QVS(0.023)QPR 136.01 0.0018878 13746000 638 1029 1170.6 627.26 951.79 1227.3 1183.2 918.21 589.52 926.02 TRUE FALSE FALSE 705.1077672 1062.340275 1330.123272 639.4015243 878.8640558 1122.727135 1050.063222 894.7235178 585.4174823 965.945254 0.729966594 1.099793462 1.377017244 0.661943854 0.909848723 1.162309283 1.087083577 0.926267316 0.606056585 1 9.915797615 -7.243281564 24.60481795 0.872484217 1.033499731 0.207384541 0.203533698 1067.993321 1447189.423 0.033130224 0.04053131 5.71E-08 7.243281564 0.161015514 SNSWVNT(ph)GGPK ddPTM_HeLa_SAHA_4h_R1 2 SNSWVNTGGPK 11 0 Q96N67-2;Q96N67-6;Q96N67;A0A1B0GWE0;A0A0U1RRC1 Q96N67-2 DOCK7 Dedicator of cytokinesis protein 7 1 0 SNS(0.115)WVNT(0.885)GGPK;S(0.306)NS(0.251)WVNT(0.444)GGPK ; 128.57 0.0025697 82356000 7696.9 7954 6920.8 6504 7540.1 7600.5 9072 7562.1 6845.1 7703.8 TRUE FALSE FALSE 8506.495257 8211.714819 7863.930582 6629.894325 6962.379167 6952.894641 8051.194684 7368.672432 6797.464392 8035.948519 1.05855522 1.021872502 0.978593947 0.825029467 0.866404153 0.86522389 1.001897245 0.916963618 0.845882023 1 12.97225261 -6.49532877 4.863892829 1.027183427 0.897477558 0.157890714 0.072985125 0.101257383 6.157598936 0.007788952 0.011697115 3.20E-07 6.49532877 -0.129705868 SNT(ph)LDIMDGR ddPTM_HeLa_SAHA_4h_R1 2 SNTLDIMDGR 10 0 H0Y9X0;A0A286YEZ9;A0A2C9F2R7;O94915 H0Y9X0 FRYL Protein furry homolog-like 1 0 S(0.007)NT(0.993)LDIMDGR;S(0.088)NT(0.912)LDIMDGR ; 157.5 0.00044536 34483000 4801 4697.5 4871 5775.5 6255.5 6712.7 5509.5 6181.4 5305.7 6188.2 TRUE FALSE FALSE 5305.991208 4849.702082 5534.794513 5887.293154 5776.204941 6140.740195 4889.55656 6023.288739 5268.777202 6455.003586 0.821996632 0.751308968 0.857442516 0.912051105 0.894841477 0.951314761 0.757483167 0.933119348 0.816231491 1 12.65620218 -9.323183877 1.081568355 0.998888978 0.856906726 0 0.085229172 0.401692284 0.851191727 0.04231427 0.011556658 4.75E-10 9.323183877 -0.141982252 SNT(ph)PESIAETPPAR ddPTM_HeLa_SAHA_4h_R1 1 SNTPESIAETPPAR 14 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 S(0.001)NT(0.995)PES(0.003)IAET(0.001)PPAR 201.72 8.65E-12 24887000 978.52 1188.8 1077.3 1000.8 1138 1322.8 1410.1 1183.6 826.51 993.03 TRUE FALSE FALSE 1081.445223 1227.3179 1224.108834 1020.171931 1050.806686 1210.089998 1251.431837 1153.325226 820.7582496 1035.844383 1.044022868 1.184847763 1.181749743 0.984869878 1.014444547 1.168216016 1.20812726 1.113415533 0.792356712 1 10.01659157 -1 0.036520244 0.610222743 1.851005255 0.376037431 0.096510524 732.8097559 2.06449902 20.45236993 59.28785696 0.1 1 1.240782512 SNT(ph)PILVDGK ddPTM_HeLa_SAHA_4h_R1 2 SNTPILVDGK 10 0 A0A2U3TZU2;P06744-2;P06744;K7EQ48;A0A0J9YXP8;A0A0J9YX90;A0A0J9YYH3;A0A2R8Y6C7;K7EP41;K7EPY4;K7ERC6 A0A2U3TZU2 GPI Glucose-6-phosphate isomerase 1 0 S(0.088)NT(0.912)PILVDGK;S(0.207)NT(0.793)PILVDGK ; 163.33 0.00031636 25030000 7669.5 10154.2 6600.1 9442.8 9635.7 11347.5 8677.4 8242.7 13679.1 8094.7 TRUE FALSE FALSE 8476.213199 10483.20274 7499.527256 9625.579049 8897.414748 10380.62916 7700.996114 8031.863669 13583.90603 8443.702132 1.003850333 1.241541042 0.888179988 1.139971413 1.053733849 1.229393103 0.91204024 0.951225368 1.60876187 1 13.04365997 -7.465931798 24.99975814 1.001697926 1.061320141 0 0.223580868 647.992385 284470.9565 0.018451189 0.021092127 3.42E-08 7.465931798 0.059622215 SNT(ph)PILVDGKDVMPEVNK ddPTM_HeLa_SAHA_4h_R1 2 SNTPILVDGKDVMPEVNK 18 1 A0A2U3TZU2;P06744-2;P06744;K7EQ48;A0A0J9YXP8;A0A0J9YX90;A0A0J9YYH3;A0A2R8Y6C7;K7EP41;K7EPY4;K7ERC6 A0A2U3TZU2 GPI Glucose-6-phosphate isomerase 1 0 S(0.075)NT(0.925)PILVDGKDVMPEVNK;S(0.066)NT(0.934)PILVDGKDVMPEVNK ; 83.082 0.0061047 8804900 2714.2 2767.6 2787.9 2907.5 3180.7 3474.8 3321.7 3173.9 2947.8 2745.8 TRUE FALSE FALSE 2999.692009 2857.272056 3167.820493 2963.778867 2936.995453 3178.727491 2947.933574 3092.716234 2927.28602 2864.184876 1.047310889 0.997586462 1.10601118 1.034772194 1.025421047 1.109819243 1.029239976 1.079789318 1.0220311 1 11.4839089 -13.52287875 0.127000377 0.80673593 1.081035031 0.24074928 0.033380867 72.227548 0.654185032 3.524111329 0.120703489 3.00E-14 13.52287875 0.2742991 SNTACDGDKES(ph)EVEDVETDSGNSPEDLRK ddPTM_HeLa_SAHA_4h_R1 1 SNTACDGDKESEVEDVETDSGNSPEDLRK 29 2 Q7Z3K6-4;Q7Z3K6-3;Q7Z3K6;Q7Z3K6-2 Q7Z3K6-4 MIER3 Mesoderm induction early response protein 3 1 0 S(0.052)NT(0.183)ACDGDKES(0.765)EVEDVETDSGNSPEDLRK 94.73 3.05E-08 24704000 1707 1688 1526.4 1763.7 1790 1814.4 1449.2 1691.3 1671.8 1759.1 TRUE FALSE FALSE 1886.550092 1742.692308 1734.409843 1797.838964 1652.850587 1659.802912 1286.132202 1648.038995 1660.165808 1834.94341 1.0281244 0.949725369 0.945211625 0.97977897 0.900763794 0.904552644 0.700911099 0.898141592 0.904750413 1 10.84151986 -5.49201473 0.769737372 1.00957404 0.789693362 0.416471684 0.065037649 0.358756817 0.347445777 0.009260059 0.047672009 3.22E-06 5.49201473 -0.219880678 SNTAGS(ph)QSQVETEA ddPTM_HeLa_SAHA_4h_R1 1 SNTAGSQSQVETEA 14 0 Q02790 Q02790 FKBP4 "Peptidyl-prolyl cis-trans isomerase FKBP4;Peptidyl-prolyl cis-trans isomerase FKBP4, N-terminally processed" 1 0 S(0.002)NT(0.007)AGS(0.892)QS(0.099)QVETEA 76.311 0.020426 9328900 636.61 845.14 536.03 755.57 640.29 763.08 817.38 660.13 631.4 728.25 TRUE FALSE FALSE 703.5715607 872.5230905 609.0773769 770.1951499 591.2311185 698.061291 725.4062512 643.2448305 627.006036 759.6484215 0.926180508 1.148588039 0.801788511 1.013883697 0.778295724 0.918926797 0.95492366 0.846766494 0.82538977 1 9.569188058 -6.702605165 24.99999956 0.977929575 0.891354121 0.161497345 0.099078436 92.84733198 39452.42267 0.012850103 0.018172786 1.98E-07 6.702605165 -0.086575453 SNTAGSQS(ph)QVETEA ddPTM_HeLa_SAHA_4h_R1 1 SNTAGSQSQVETEA 14 0 Q02790 Q02790 FKBP4 "Peptidyl-prolyl cis-trans isomerase FKBP4;Peptidyl-prolyl cis-trans isomerase FKBP4, N-terminally processed" 1 0 SNT(0.001)AGS(0.358)QS(0.64)QVETEA 108.66 0.0025251 9523100 800.52 744.56 814.19 949.86 759.3 875.05 1093.7 911.46 961.41 888.69 TRUE FALSE FALSE 884.7223665 768.6842325 925.1435731 968.2459138 701.122598 800.4908171 970.6339975 888.146173 954.7194695 927.005775 0.954387114 0.829211913 0.997991165 1.044487467 0.756330345 0.86352301 1.047063593 0.958080518 1.029895924 1 9.856434516 -8.250397171 1.087568558 0.992019645 0.930226452 0.112590111 0.088950263 0.8875775 2.174396963 0.026177565 0.018465337 5.62E-09 8.250397171 -0.061793192 SNTEPQS(ph)PPIASPK ddPTM_HeLa_SAHA_4h_R1 2 SNTEPQSPPIASPK 14 0 F8WF45;A0A2R8Y7M0;P82094;P82094-2 F8WF45 TMF1 TATA element modulatory factor 1 0 SNTEPQS(1)PPIASPK;SNTEPQS(0.989)PPIAS(0.01)PK ; 181.81 3.86E-07 11848300 4555 5578 5310.9 4178.5 5596.9 6924.9 6667.7 5290.1 4796.1 5502.9 TRUE FALSE FALSE 5034.115799 5758.73086 6034.641794 4259.38091 5168.066731 6334.859562 5917.432848 5154.786902 4762.72355 5740.15695 0.876999678 1.003235784 1.051302577 0.742032134 0.90033544 1.103603894 1.030883458 0.898021944 0.829720092 1 12.48687447 -5.292770342 24.98690835 0.936024664 1.012841208 0.142702519 0.098659754 1078.746262 860314.5883 0.013894763 0.031073686 5.10E-06 5.292770342 0.076816544 SNTEPQSPPIAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SNTEPQSPPIASPK 14 0 F8WF45;A0A2R8Y7M0;P82094;P82094-2 F8WF45 TMF1 TATA element modulatory factor 1 0 SNTEPQSPPIAS(0.999)PK 103.39 0.0034931 8244200 2045.5 2027.1 2103.9 2348 2243.2 2893.5 2674.5 2238.5 1999.5 2213.8 TRUE FALSE FALSE 2260.655075 2092.77937 2390.608535 2393.448935 2071.326501 2646.957522 2373.558221 2181.242411 1985.585317 2309.247752 0.978957357 0.906260217 1.035232592 1.036462603 0.896970236 1.146242329 1.027849099 0.944568381 0.859840749 1 11.17320725 SNTPES(ph)IAETPPAR ddPTM_HeLa_SAHA_4h_R1 1 SNTPESIAETPPAR 14 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 S(0.018)NT(0.087)PES(0.894)IAET(0.001)PPAR 167.69 5.24E-06 4778800 714.66 586.2 773.85 514.54 668.54 761.47 682.2 756.62 661.62 677.84 TRUE FALSE FALSE 789.8312178 605.1932646 879.306248 524.4996657 617.3166096 696.5884721 605.4370605 737.266756 657.0157326 707.0649997 1.117056025 0.855923097 1.243600303 0.741798372 0.87306911 0.985183077 0.856267897 1.042714257 0.929215465 1 9.465699036 -6.253621441 24.99547643 1.051397768 0.900645469 0.205310138 0.123420346 578.5334812 1849683.259 0.016783544 0.027502483 5.58E-07 6.253621441 -0.150752299 SNTPESIAET(ph)PPAR ddPTM_HeLa_SAHA_4h_R1 2 SNTPESIAETPPAR 14 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 SNTPES(0.002)IAET(0.998)PPAR;SNTPESIAET(1)PPAR ; 169.98 5.03E-06 28296000 2074.08 2228.14 1761.82 1948.3 2739.7 2566.9 2532.37 2202.9 2489.9 2667.1 TRUE FALSE FALSE 2292.241251 2300.333198 2001.911654 1986.012164 2529.784778 2348.185679 2247.421063 2146.553008 2472.572583 2782.091733 0.823927271 0.826835855 0.719570685 0.713855744 0.909310339 0.844036036 0.807817023 0.77156083 0.888745886 1 11.44195428 -8.880183785 0.659789656 1.006516412 0.799312932 0.40987529 0.063567095 0.40472563 0.319292729 0.044805702 0.01332815 1.32E-09 8.880183785 -0.20720348 SNTPILVDGK ddPTM_HeLa_SAHA_4h_R1 1 SNTPILVDGK 10 0 A0A2U3TZU2;P06744-2;P06744;K7EQ48;A0A0J9YXP8;A0A0J9YX90;A0A0J9YYH3;A0A2R8Y6C7;K7EP41;K7EPY4;K7ERC6 A0A2U3TZU2 GPI Glucose-6-phosphate isomerase 0 0 116.55 0.021874 3990600 2333.8 1519.8 1509.8 2110.8 1795 2442.5 1756.6 1907.3 2315 2224.6 FALSE FALSE TRUE 2579.279792 1569.042517 1715.547681 2151.657586 1657.467488 2234.385259 1558.942745 1858.514028 2298.889727 2320.513393 1.111512564 0.676161802 0.739296608 0.927233427 0.714267581 0.962884018 0.671809415 0.8009064 0.990681516 1 11.18022831 -7.268525715 24.98979118 1.052658714 0.788198799 0.579329882 0.096974727 253.1063404 892571.9574 0.015961861 0.01845564 5.39E-08 7.268525715 -0.264459915 SNVSDAVAQSTR ddPTM_HeLa_SAHA_4h_R1 2 SNVSDAVAQSTR 12 0 P60174;P60174-3;P60174-4 P60174 TPI1 Triosephosphate isomerase 0 0 ; ; 191.33 1.26E-16 2939500 920.04 1077.1 1004.83 737.89 1133.1 1171.03 1015.4 661.16 668.62 999.45 FALSE FALSE TRUE 1016.814028 1111.998747 1141.762999 752.172928 1046.282123 1071.251656 901.1445196 644.2484845 663.967019 1042.541181 0.975322651 1.066623331 1.095173045 0.721480304 1.003588292 1.027538936 0.864373069 0.617959747 0.636873661 1 10.02588866 -4.344031896 2.551187134 0.985338593 0.57374124 0.266054327 0.146002163 0.212804798 1.962095595 0.012809669 0.17238554 4.53E-05 4.344031896 -0.411597353 SNVSSPAT(ph)PT(ph)ASSSSSTTPTRK ddPTM_HeLa_SAHA_4h_R1 1 SNVSSPATPTASSSSSTTPTRK 22 1 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 2 0 S(0.001)NVS(0.015)S(0.064)PAT(0.884)PT(0.568)AS(0.014)S(0.082)S(0.069)S(0.043)S(0.037)T(0.032)T(0.027)PT(0.164)RK 85.002 0.00027571 13933000 1583.4 1941.2 1593.3 2121.2 1874.8 1726.7 2000 1739.1 1932.7 1920.5 TRUE FALSE FALSE 1749.949277 2004.096154 1810.426626 2162.258893 1731.153229 1579.575446 1774.954736 1694.61634 1919.250183 2003.302154 0.873532369 1.000396346 0.9037212 1.079347361 0.864149837 0.788485872 0.88601449 0.845911505 0.958043289 1 10.96816432 -5.546234177 24.99910156 0.950431852 0.841657093 0.500782398 0.058769777 177.7588408 190268.3241 0.009480966 0.018962705 2.84E-06 5.546234177 -0.108774759 SNVSSPAT(ph)PTASSSSS(ph)TTPTRK ddPTM_HeLa_SAHA_4h_R1 1 SNVSSPATPTASSSSSTTPTRK 22 1 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 2 0 S(0.003)NVS(0.041)S(0.191)PAT(0.765)PT(0.082)AS(0.038)S(0.127)S(0.012)S(0.24)S(0.291)T(0.106)T(0.088)PT(0.016)RK 91.809 0.00024252 18559000 3873.3 3387.1 3339.1 3373.4 3428.7 4104.7 4025.9 3788.5 4009.6 3205.9 TRUE FALSE FALSE 4280.711465 3496.844262 3794.135159 3438.697035 3165.993747 3754.956468 3572.895136 3691.595656 3981.696867 3344.122038 1.280070349 1.045668855 1.134568391 1.028280965 0.946733914 1.122852702 1.068410511 1.103905783 1.190655371 1 11.70741178 -6.27048477 23.08370335 1.127901069 1.052697154 0.171500248 0.083590826 446.4873381 1139428.028 0.017470599 0.026966811 5.36E-07 6.27048477 -0.075203915 SNVSSPAT(ph)PTASSSSSTT(ph)PTR ddPTM_HeLa_SAHA_4h_R1 1 SNVSSPATPTASSSSSTTPTR 21 0 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 2 0 SNVSS(0.002)PAT(0.995)PT(0.004)AS(0.011)S(0.008)S(0.105)S(0.231)S(0.078)T(0.172)T(0.38)PT(0.016)R 156.61 3.88E-06 5814800 1260.6 834.15 870.99 1041.9 977.93 942.63 1115.1 1291.2 1195.9 790.76 TRUE FALSE FALSE 1393.195692 861.1770073 989.6839813 1062.067481 903.0012147 862.3126209 989.6260132 1258.172974 1187.577635 824.8535335 1.689021912 1.044036271 1.199829959 1.287583114 1.094741282 1.045413017 1.199759682 1.525328949 1.439743647 1 9.687994157 SNVSSPAT(ph)PTASSSSSTTPTR ddPTM_HeLa_SAHA_4h_R1 2 SNVSSPATPTASSSSSTTPTR 21 0 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 SNVSSPAT(0.843)PT(0.116)AS(0.036)S(0.005)SSSTTPTR;SNVSS(0.012)PAT(0.969)PT(0.018)AS(0.001)SSSSTTPTR ; 193.06 7.07E-15 25926000 1896.22 1962.68 1562.78 1691.95 1953.35 2445.78 1985.81 2251.97 2282.47 1891.43 TRUE FALSE FALSE 2095.67312 2026.27212 1775.74752 1724.700139 1803.684745 2237.385784 1762.361432 2194.367868 2266.586105 1972.978804 1.062187346 1.027011601 0.900033754 0.874160501 0.914193676 1.134014101 0.893249045 1.112210564 1.14881422 1 10.94615974 -10.33822923 23.23640093 0.999999833 1.007222088 0 0.101733021 71.43100369 578731.888 0.103732174 0.012625851 4.59E-11 10.33822923 0.007222255 SNVSSPAT(ph)PTASSSSSTTPTRK ddPTM_HeLa_SAHA_4h_R1 2 SNVSSPATPTASSSSSTTPTRK 22 1 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 S(0.003)NVS(0.006)S(0.288)PAT(0.659)PT(0.044)ASSSSSTTPTRK;S(0.001)NVS(0.022)S(0.113)PAT(0.862)PT(0.001)ASSSSSTTPTRK ; 115.88 4.84E-05 11389300 3567.5 3031.9 3048.9 3573 3293.8 3400.2 4145.1 3674.3 3150.4 3611.7 TRUE FALSE FALSE 3942.746018 3130.135549 3464.388214 3642.160582 3041.429756 3110.483831 3678.682439 3580.316726 3128.47611 3767.418062 1.046537961 0.830843697 0.919565643 0.966752434 0.807298183 0.825627467 0.976446568 0.950336986 0.830403225 1 11.87936042 -7.273551016 24.9557949 1.021976262 0.897165508 0 0.083567743 453.1054577 933613.2742 0.010194716 0.01170364 5.33E-08 7.273551016 -0.124810754 SNVSSPATPTAS(ph)SSSSTTPTRK ddPTM_HeLa_SAHA_4h_R1 2 SNVSSPATPTASSSSSTTPTRK 22 1 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 SNVSSPATPT(0.063)AS(0.239)S(0.042)S(0.157)S(0.157)S(0.157)T(0.157)T(0.028)PTRK;SNVSSPATPT(0.024)AS(0.744)S(0.064)S(0.064)S(0.041)S(0.027)T(0.027)T(0.008)PTRK ; 121.58 9.01E-06 34785000 4116.3 4465.7 3996.2 4093.5 4426.8 5101.7 5202.7 5405.6 4532.4 4769.5 TRUE FALSE FALSE 4549.27132 4610.39161 4540.781325 4172.735612 4087.61954 4667.006459 4617.278503 5267.332579 4500.858659 4975.136486 0.91440131 0.926686458 0.912694825 0.838717817 0.821609528 0.938066015 0.92807072 1.058731272 0.904670389 1 12.28052039 -9.026358963 0.744441727 1.002169081 0.912203349 0 0.066761291 0.892271932 0.874693992 0.046642592 0.013031658 9.41E-10 9.026358963 -0.089965732 SNVSSPATPTASSSSS(ph)TTPTRK ddPTM_HeLa_SAHA_4h_R1 1 SNVSSPATPTASSSSSTTPTRK 22 1 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 SNVSSPATPTAS(0.029)S(0.019)S(0.078)S(0.123)S(0.336)T(0.336)T(0.078)PTRK 108.38 5.56E-05 27155000 1015.6 1070.8 881.47 1329.9 1356.3 1494.2 1095 1011.9 1144.8 1159.8 TRUE FALSE FALSE 1122.425468 1105.494623 1001.592141 1355.642138 1252.380587 1366.885754 971.7877181 986.0170632 1136.833244 1209.804654 0.927774136 0.913779443 0.827895758 1.120546307 1.035192403 1.129840053 0.803260026 0.815021714 0.939683312 1 10.2405584 -1.000007329 0.007086121 1.819265239 0.004143557 0.014471189 0.112202636 95561.9463 52.91175664 6106.232964 7516.764158 0.099998312 1.000007329 -1.815121682 SNVSSPATPTASSSSSTT(ph)PTR ddPTM_HeLa_SAHA_4h_R1 4 SNVSSPATPTASSSSSTTPTR 21 0 Q12888;Q12888-3;Q12888-2;A6NNK5;H7BZY0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 SNVSSPATPTASSSSST(0.009)T(0.99)PT(0.001)R;SNVSSPATPTASS(0.001)SSS(0.01)T(0.003)T(0.985)PTR;SNVSSPATPTAS(0.001)S(0.001)S(0.028)S(0.091)S(0.091)T(0.091)T(0.695)PT(0.002)R;SNVSSPATPTASSSSST(0.008)T(0.991)PT(0.001)R ;;; 353.74 8.73E-166 74215000 10322.8 9998.82 9148.9 9813.67 10379.8 11986.9 10888.39 10985.4 11511.4 9863.73 TRUE FALSE FALSE 11408.59947 10322.78833 10395.66445 10003.62777 9584.501966 10965.54868 9663.199701 10704.40937 11431.29123 10289.00367 1.108814792 1.003283569 1.010366482 0.972263991 0.931528676 1.065754181 0.939177398 1.040373754 1.11102023 1 13.32881567 -7.027355907 22.67980045 1.051630271 0.991698635 0.322779508 0.049418125 256.5230281 212673.8733 0.008747968 0.010735757 9.39E-08 7.027355907 -0.059931636 SNVVSPT(ph)KNEDNGAPENSVEKPHEKPEAR ddPTM_HeLa_SAHA_4h_R1 1 SNVVSPTKNEDNGAPENSVEKPHEKPEAR 29 3 Q71RC2-6;Q71RC2-5;Q71RC2-3;Q71RC2;Q71RC2-4;X6RLN4;Q71RC2-2 Q71RC2-6 LARP4 La-related protein 4 1 0 S(0.006)NVVS(0.047)PT(0.935)KNEDNGAPENS(0.012)VEKPHEKPEAR 47.937 0.00631 54592000 2206.6 2138 2128.5 2397.8 2268.7 2737.5 2424.3 2414.6 2289.6 2663 TRUE FALSE FALSE 2438.700312 2207.272603 2418.560895 2444.212886 2094.872696 2504.249599 2151.511384 2352.838028 2273.666487 2777.814962 0.87792036 0.7946075 0.870670267 0.87990486 0.754144075 0.901517788 0.77453373 0.847010352 0.818508978 1 11.43973479 -8.642038224 0.464838849 1.018386447 0.823793604 0 0.072139747 0.511861294 0.209636448 0.044793894 0.013906388 2.28E-09 8.642038224 -0.194592843 SNYNFEKPFLWLAR ddPTM_HeLa_SAHA_4h_R1 2 SNYNFEKPFLWLAR 14 1 F5H018;B5MDF5;J3KQE5;P62826;B4DV51 F5H018 RAN GTP-binding nuclear protein Ran 0 0 ; ; 107.99 0.0036145 1118930 765.54 1098.9 778.36 840.58 1031 352.27 943.08 150.9 238.21 308.08 FALSE FALSE TRUE 846.0630096 1134.505081 884.4308473 856.8506414 952.0050027 322.2546142 836.9621563 147.0401965 236.5522772 321.3628365 2.632734447 3.530293339 2.752125469 2.666302833 2.962399178 1.002774987 2.60441489 0.457551962 0.736090955 1 8.32805929 -4.249649886 23.5307704 2.097634123 0.457549692 0.240851191 0.913922905 1007.254668 2010302.908 0.135235778 2.748267104 5.63E-05 4.249649886 -1.640084431 SPAAPYFLGSSFS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 2 SPAAPYFLGSSFSPVR 16 0 P30291 P30291 WEE1 Wee1-like protein kinase 1 0 SPAAPYFLGS(0.011)S(0.172)FS(0.816)PVR;SPAAPYFLGS(0.015)S(0.07)FS(0.914)PVR ; 121.45 0.00063823 5153600 1164.3 1290.24 1376.61 1423.31 1279 1199.51 1212.58 1049.08 1207.28 988.76 TRUE FALSE FALSE 1286.766416 1332.044623 1564.207242 1450.860223 1181.003296 1097.305 1076.137307 1022.246053 1198.87844 1031.390282 1.247603781 1.291503949 1.516600717 1.406703406 1.145059553 1.063908608 1.043385152 0.991134074 1.162390669 1 10.01037464 -5.242792124 3.346882557 1.188226561 1.027226928 0.263044298 0.144408802 0.417203393 9.763871179 0.027179779 0.072392085 5.72E-06 5.242792124 -0.160999633 SPAGLQVLNDYLADK ddPTM_HeLa_SAHA_4h_R1 1 SPAGLQVLNDYLADK 15 0 P24534;C9JZW3;F8WF65;F2Z2G2 P24534 EEF1B2 Elongation factor 1-beta 0 0 204.35 5.63E-24 530210 0 229.44 161.06 232.64 332.67 346.9 227.75 151.53 359.51 130.46 FALSE FALSE TRUE 0 236.8740065 183.008418 237.1430836 307.1808965 317.3421684 202.1229706 147.654082 357.0081406 136.0847691 0 1.740635695 1.344811909 1.74261297 2.257276098 2.331944791 1.48527254 1.085015487 2.623424672 1 7.088361796 -7.244849621 24.25697392 0.527777791 1.735562677 0 0.784841018 309.2996102 452247.3857 0.086729674 0.10604304 5.69E-08 7.244849621 1.207784886 SPAGLSGTPATQGLLGACS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 1 SPAGLSGTPATQGLLGACSPVR 22 0 A0A0B4J2F2;P57059 A0A0B4J2F2 LOC102724428;SIK1 Serine/threonine-protein kinase SIK1 1 0 SPAGLS(0.002)GT(0.131)PAT(0.326)QGLLGACS(0.542)PVR 79.237 0.0010717 2148200 319.05 225.19 357.72 277.15 323.2 161.89 318.78 224.78 310.45 367.7 TRUE FALSE FALSE 352.6091429 232.4863038 406.4682187 282.514639 298.4364858 148.0960612 282.9100354 219.0304531 308.2895532 383.5533465 0.919322295 0.606138118 1.059743638 0.736571957 0.778083384 0.386115941 0.737602834 0.571056035 0.803772294 1 8.583283439 -5.955291902 0.373987407 0.998021469 0.490326426 0.330491589 0.158510863 1.174779811 0.27166367 0.057636111 0.234960086 1.11E-06 5.955291902 -0.507695043 SPAGPAATPAQAQAAST(ph)PR ddPTM_HeLa_SAHA_4h_R1 6 SPAGPAATPAQAQAASTPR 19 0 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 SPAGPAATPAQAQAAS(0.222)T(0.778)PR;SPAGPAATPAQAQAAS(0.239)T(0.761)PR;SPAGPAATPAQAQAAS(0.084)T(0.916)PR;SPAGPAATPAQAQAAS(0.229)T(0.771)PR;SPAGPAATPAQAQAAS(0.241)T(0.759)PR;SPAGPAATPAQAQAAS(0.239)T(0.761)PR ;;;;; 267.22 1.38E-63 111871600 5433.76 6915.79 4765.29 5497.82 6613.42 6298.96 6610.75 5631.22 10255.33 6902.15 TRUE FALSE FALSE 6005.307808 7139.866134 5414.678905 5604.238256 6106.701188 5762.253171 5866.891011 5487.181546 10183.96232 7199.735465 0.834101175 0.99168451 0.752066368 0.778395023 0.848184106 0.800342346 0.814875913 0.76213655 1.414491181 1 12.81372818 -13.52287875 0.146449026 1.675147636 0.753210484 0.433826659 0.143357956 34.15563213 0.343498902 6.619888608 0.143741309 3.00E-14 13.52287875 -0.921937152 SPAGSQQQFGYSPGQQQTHPQGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SPAGSQQQFGYSPGQQQTHPQGSPR 25 0 Q8TAP9 Q8TAP9 MPLKIP M-phase-specific PLK1-interacting protein 1 0 SPAGSQQQFGYSPGQQQT(0.371)HPQGS(0.629)PR 118.81 1.22E-07 7477500 819.31 899.8 935.49 955.1 890.41 957.41 1065.1 907.93 1061.2 1094.1 TRUE FALSE FALSE 905.4887849 928.9541104 1062.973705 973.5873416 822.1869782 875.8332818 945.2521448 884.7064653 1053.815023 1141.272005 0.793403133 0.813963811 0.931393831 0.853072131 0.720412815 0.767418527 0.828244398 0.775193347 0.923368853 1 10.15642696 -13.52287875 0.238627693 2.152402052 0.785571576 0.505845463 0.057893588 22.4287094 0.29248814 12.10608093 0.037558327 3.00E-14 13.52287875 -1.366830476 SPALK(ac)SPLQSVVVR ddPTM_HeLa_SAHA_4h_R1 2 SPALKSPLQSVVVR 14 1 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 0 1 ; SPALK(1)SPLQSVVVR;SPALK(1)SPLQSVVVR 155.08 1.46E-06 4810600 324.65 320.23 305.15 237.651 381.42 371.25 444.56 332.92 172.17 98.099 FALSE TRUE FALSE 358.7981765 330.6056621 346.7342528 242.2510788 352.195682 339.6174114 394.5369388 324.4043885 170.971855 102.328528 3.506335756 3.230825935 3.388441715 2.367385553 3.441813236 3.318892767 3.855590876 3.170224324 1.670813197 1 6.677064597 -9.276960159 0.732162513 0.791924965 3.310687993 0.776900241 0.411099269 0.246123125 0.206141031 0.383528949 0.076481752 5.28E-10 9.276960159 2.518763027 SPAPGS(ph)PDEEGGAEAPAAGIR ddPTM_HeLa_SAHA_4h_R1 1 SPAPGSPDEEGGAEAPAAGIR 21 0 O15061;H0YL34;A0A075B7B1;O15061-2 O15061 SYNM Synemin 1 0 S(0.033)PAPGS(0.967)PDEEGGAEAPAAGIR 150.61 4.16E-06 63922000 1411.2 1804.1 1257.2 1416.7 1801 1874.9 1808.6 1988.7 1868.3 1437.9 TRUE FALSE FALSE 1559.636491 1862.554024 1428.524669 1444.122277 1663.007769 1715.147972 1605.091568 1937.831934 1855.298348 1499.894906 1.039830514 1.241789686 0.952416508 0.962815642 1.108749528 1.143512099 1.070136022 1.291978475 1.23695223 1 10.5506457 -1 0.574186583 1.028965156 13.59411249 0.144456682 0.106497065 98.54319561 0.764050843 0.014973711 1546.343952 0.1 1 12.56514733 SPAS(ph)PLNNQGIPTPAQLTK ddPTM_HeLa_SAHA_4h_R1 1 SPASPLNNQGIPTPAQLTK 19 0 A0A2U3U043;J3QLL6;J3KSG1;J3QRK1;Q719H9 A0A2U3U043 KCTD1 BTB/POZ domain-containing protein KCTD1 1 0 S(0.313)PAS(0.686)PLNNQGIPT(0.001)PAQLTK 85.054 0.0021119 0 0 210.93 234.57 252.17 191.15 390.27 253.49 206.94 266.36 267.76 TRUE FALSE FALSE 0 217.7642704 266.535978 257.051115 176.5041283 357.0168004 224.9666381 201.6467744 264.5063791 279.304444 0 0.779666329 0.954284773 0.920325904 0.631941711 1.278235302 0.805453128 0.721960494 0.947018154 1 8.125694718 -7.015445318 24.58329131 0.520517534 0.887771342 0.062619873 0.306660885 785.8305256 1250754.702 0.065110031 0.081153138 9.65E-08 7.015445318 0.367253808 SPASDTYIVFGEAK ddPTM_HeLa_SAHA_4h_R1 4 SPASDTYIVFGEAK 14 0 F8VZJ2;F8W0W4;H0YHX9;Q13765;E9PAV3-2;E9PAV3;F8W1N5;F8VNW4 F8VZJ2 NACA "Nascent polypeptide-associated complex subunit alpha;Nascent polypeptide-associated complex subunit alpha, muscle-specific form" 0 0 ;;; ;;; 234.63 6.55E-24 60722500 3543.01 3727.89 3423.23 4309.73 3835.05 3465.58 4107.42 3566.67 4012.59 3603.21 FALSE FALSE TRUE 3915.680048 3848.676082 3889.729957 4393.151056 3541.209298 3170.293087 3645.242291 3475.439746 3984.666059 3758.562017 1.041802697 1.023975676 1.034898437 1.168838252 0.94217131 0.84348564 0.969850245 0.924672715 1.060157061 1 11.87596509 -5.54312309 24.99961568 1.032109395 0.914127706 0.587800639 0.053746499 138.1012339 170539.9209 0.007710757 0.015422785 2.86E-06 5.54312309 -0.11798169 SPAVATSTAAPPPPS(ph)SPLPSK ddPTM_HeLa_SAHA_4h_R1 2 SPAVATSTAAPPPPSSPLPSK 21 0 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 SPAVATSTAAPPPPS(0.448)S(0.448)PLPS(0.105)K;SPAVATSTAAPPPPS(0.605)S(0.38)PLPS(0.015)K ; 106.72 0.00014926 120893000 2729.8 2288.6 2406.77 2752.2 2409.36 2789.1 2824.2 2723.1 2614.5 2393.2 TRUE FALSE FALSE 3016.932889 2362.752142 2734.752082 2805.472811 2224.755357 2551.452989 2506.413583 2653.447045 2596.305482 2496.382564 1.208521856 0.946470375 1.095485973 1.123815256 0.891191674 1.02206009 1.004018222 1.062916831 1.040027085 1 11.28562333 -5.798169084 24.99936535 1.089430519 0.997616703 0.145308536 0.079061214 222.757768 151615.2634 0.014062867 0.025491596 1.59E-06 5.798169084 -0.091813815 SPAVATSTAAPPPPSS(ph)PLPSK ddPTM_HeLa_SAHA_4h_R1 3 SPAVATSTAAPPPPSSPLPSK 21 0 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 SPAVATSTAAPPPPS(0.212)S(0.788)PLPSK;SPAVATSTAAPPPPS(0.193)S(0.807)PLPSK;SPAVATSTAAPPPPS(0.032)S(0.968)PLPSK ;; 216.16 4.13E-27 368520000 10692.6 10224.1 9074.4 10668 10095.2 10286.5 11044 10843.6 10521.7 9625.4 TRUE FALSE FALSE 11817.29673 10555.36755 10311.01197 10874.49457 9321.707957 9410.03233 9801.300054 10566.23641 10448.47863 10040.3981 1.176974918 1.051289744 1.026952505 1.083074043 0.928420155 0.937217054 0.976186398 1.052372257 1.04064386 1 13.29352885 -5.774370597 24.7607209 1.07807792 0.97114222 0.372024132 0.054985748 179.9247909 344520.5649 0.010973895 0.019983962 1.68E-06 5.774370597 -0.1069357 SPAVK(ac)PAAAPK ddPTM_HeLa_SAHA_4h_R1 1 SPAVKPAAAPK 11 1 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 SPAVK(1)PAAAPK 90.05 0.011385 0 278.28 454.47 212.21 332.94 344.05 436.49 376.86 317.89 337.37 275.34 FALSE TRUE FALSE 307.5507672 469.1951262 241.1288737 339.3845351 317.6889633 399.2985964 334.454721 309.7588341 335.0222147 287.2112549 1.070817254 1.633623746 0.839552314 1.181654721 1.106115996 1.390260965 1.164490302 1.078505208 1.166466178 1 8.165968475 -7.501369904 23.70888532 1.031242595 1.198897278 0.058965565 0.199644996 145.4990274 160385.1706 0.032159039 0.03452325 3.15E-08 7.501369904 0.167654683 SPDASSAFSPAS(ph)PATPNGTK ddPTM_HeLa_SAHA_4h_R1 1 SPDASSAFSPASPATPNGTK 20 0 Q53GS7-2;Q53GS7 Q53GS7-2 GLE1 Nucleoporin GLE1 1 0 SPDASSAFS(0.006)PAS(0.99)PAT(0.004)PNGTK 142.23 1.40E-10 0 314.2 274.85 300.36 364.34 281.18 291.6 308.84 564.97 538.93 314.95 TRUE FALSE FALSE 347.2489976 283.7553203 341.2914966 371.3923275 259.6360491 266.7540395 274.0885104 550.5188855 535.1795423 328.5290358 1.056981148 0.863714587 1.038847284 1.13047033 0.790298637 0.811964881 0.834290064 1.675708462 1.629017481 1 8.359877073 -4.253759503 24.97554353 0.984495228 1.675708798 0.409002985 0.234477088 366.7334608 1192616.674 0.017162426 0.246010525 5.57E-05 4.253759503 0.69121357 SPDEEDYDYESYEK ddPTM_HeLa_SAHA_4h_R1 1 SPDEEDYDYESYEK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 0 0 198.57 3.94E-11 6691700 565.67 826.18 615.41 739.23 666.53 840.26 730.31 529.79 1043.2 783.58 FALSE FALSE TRUE 625.169766 852.9487741 699.2748699 753.5388656 615.4606154 768.6651208 648.1335967 516.2387389 1035.940286 817.3639685 0.764860931 1.043536058 0.855524463 0.921913486 0.752982318 0.94041963 0.792955919 0.631589792 1.26741614 1 9.674834837 -13.52287843 0.022949986 2.067293121 9.40E-07 0.315062095 0.141660473 2318.105056 4.285706284 266.1924876 139.1799525 3.00E-14 13.52287843 -2.067292182 SPEDLER ddPTM_HeLa_SAHA_4h_R1 1 SPEDLER 7 0 A0A2U3TZU2;P06744-2;P06744;Q8N196 A0A2U3TZU2 GPI;SIX5 Glucose-6-phosphate isomerase;Homeobox protein SIX5 0 0 120.62 0.022094 36116000 3806.2 3965.5 3632 4199.8 4030.5 4947.1 4227.6 3776 4401.8 3971.9 FALSE FALSE TRUE 4206.553579 4093.984802 4126.950045 4281.093202 3721.683961 4525.579248 3751.899322 3679.415388 4371.167515 4143.148047 1.015303709 0.988133843 0.996090412 1.033294768 0.898274433 1.092304498 0.905567283 0.88807239 1.055035318 1 12.01651166 -4.613808897 9.675595819 1.003819577 0.892470112 0.469123524 0.047891987 0.152630934 14.57753843 0.005371331 0.020161695 2.43E-05 4.613808897 -0.111349466 SPEEGAETPVYLALLPPDAEGPHGQFVSEK ddPTM_HeLa_SAHA_4h_R1 1 SPEEGAETPVYLALLPPDAEGPHGQFVSEK 30 0 P16152 P16152 CBR1 Carbonyl reductase [NADPH] 1 0 0 101.59 1.23E-09 0 273.62 234.6 264.74 306.63 342.54 404.33 332.14 337.3 216.24 293.88 FALSE FALSE TRUE 302.400607 242.2011939 300.8173885 312.565267 316.2946592 369.8788093 294.7667331 328.6723544 214.7351682 306.550605 0.986462274 0.790085519 0.981297651 1.019620454 1.03178612 1.206583198 0.961559782 1.07216345 0.700488483 1 8.259981442 -5.869841351 2.511558107 0.974848851 1.072216028 0.207394093 0.119049931 0.331677386 4.249966198 0.01249208 0.024952996 1.35E-06 5.869841351 0.097367176 SPFEVYVDK ddPTM_HeLa_SAHA_4h_R1 2 SPFEVYVDK 9 0 P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98 P21333-2 FLNA Filamin-A 0 0 ; ; 126.07 0.0029806 3318400 1277.81 1749.38 1566.45 1240.12 2018.08 1666.14 1614.54 994.79 1715.97 1422.3 FALSE FALSE TRUE 1412.215919 1806.06106 1779.917648 1264.124316 1863.455146 1524.175499 1432.86771 969.3447122 1704.028425 1483.622314 0.951870234 1.217332095 1.199710757 0.852052645 1.256017202 1.027333901 0.965790078 0.65336353 1.148559448 1 10.53490816 -4.262087608 3.075041099 1.0231286 0.595797358 0.445764277 0.131838805 0.273517591 3.853957271 0.017803199 0.282812889 5.47E-05 4.262087608 -0.427331242 SPFNSPS(ph)PQDSPR ddPTM_HeLa_SAHA_4h_R1 2 SPFNSPSPQDSPR 13 0 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 1 0 S(0.004)PFNS(0.087)PS(0.909)PQDSPR;S(0.012)PFNS(0.029)PS(0.579)PQDS(0.38)PR ; 123.63 0.001006 17774600 1269.03 1130.38 850.13 1461.38 1359.83 1783.16 1348.9 1222.32 2060.99 1076.9 TRUE FALSE FALSE 1402.512398 1167.005054 965.9812891 1489.667123 1255.640119 1631.224736 1197.118222 1191.054824 2046.647403 1123.330429 1.248530585 1.038879588 0.859926219 1.326116594 1.117783411 1.452132599 1.065686632 1.060288935 1.821946018 1 10.13356665 SPFNSPSPQDS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SPFNSPSPQDSPR 13 0 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 1 0 SPFNS(0.003)PS(0.062)PQDS(0.935)PR 86.777 0.013202 5693000 1154.4 1439.4 1304.1 1359.1 1385.9 1126.2 1479.5 1032.8 1449.9 1438.7 TRUE FALSE FALSE 1275.825089 1486.037504 1481.815957 1385.407346 1279.712641 1030.241424 1313.022766 1006.382471 1439.810028 1500.729398 0.850136667 0.990210165 0.987397167 0.923155999 0.852727109 0.686493798 0.874923066 0.67059556 0.959406826 1 10.55144815 -5.55556225 3.249020485 0.937088825 0.756915096 0.656067053 0.066660987 0.14288853 3.111088305 0.011013775 0.024393597 2.78E-06 5.55556225 -0.180173729 SPFSVAVSPSLDLSK ddPTM_HeLa_SAHA_4h_R1 2 SPFSVAVSPSLDLSK 15 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 226.42 2.17E-43 4129400 1599.1 1247.34 1479.84 1497.63 1582.87 1367.01 1756.7 1386.09 1106.14 1405.36 FALSE FALSE TRUE 1767.300675 1287.754634 1681.504889 1526.618794 1461.590843 1250.533057 1559.031493 1350.635825 1098.442282 1465.951947 1.205565215 0.878442596 1.147039568 1.041383926 0.99702507 0.853051875 1.063494268 0.921337038 0.749303061 1 10.5176221 -5.771222362 2.901814572 1.083223328 0.954552449 0 0.142742312 0.299345404 5.174065142 0.016057996 0.032759393 1.69E-06 5.771222362 -0.128670879 SPFTVGVAAPLDLSK ddPTM_HeLa_SAHA_4h_R1 2 SPFTVGVAAPLDLSK 15 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 ; ; 211.38 1.49E-32 2382040 902.33 1021.07 1002.46 858.26 1204.38 1102.12 1194.67 816 1003.24 926.56 FALSE FALSE TRUE 997.2412094 1054.153338 1139.070028 874.8728634 1112.100665 1008.213176 1060.242587 795.1279016 996.2583712 966.5085361 1.031797622 1.09068187 1.178541095 0.905188967 1.150637188 1.043149789 1.096982125 0.822680682 1.030780727 1 9.916638664 -4.251670679 24.46600453 1.038934987 0.822680524 0.447493186 0.075864084 734.9605283 1840680.09 0.010060089 0.175669316 5.60E-05 4.251670679 -0.216254463 SPGAGSLGS(ph)PASQR ddPTM_HeLa_SAHA_4h_R1 2 SPGAGSLGSPASQR 14 0 E9PC47;P53667-4;P53667-2;P53667 E9PC47 LIMK1 LIM domain kinase 1 1 0 SPGAGSLGS(1)PASQR;SPGAGSLGS(0.991)PAS(0.009)QR ; 192.4 1.61E-33 15501000 1138.13 1108.01 1081.6 1551.12 1463.17 1499.55 1282.46 1360.75 1776.14 1293.26 TRUE FALSE FALSE 1257.843735 1143.910251 1228.994815 1581.144171 1351.062231 1371.779904 1138.154226 1325.943985 1763.779697 1349.018768 0.932413815 0.847957255 0.911028701 1.17206981 1.001514777 1.016872364 0.843690431 0.982895136 1.307453787 1 10.3976947 -4.778007411 24.99278832 0.974363352 0.913292714 0.000251837 0.135895943 452.368943 682398.8825 0.012321206 0.037115075 1.67E-05 4.778007411 -0.061070638 SPGAGSLGS(ph)PASQRK ddPTM_HeLa_SAHA_4h_R1 2 SPGAGSLGSPASQRK 15 1 E9PC47;P53667-4;P53667-2;P53667 E9PC47 LIMK1 LIM domain kinase 1 1 0 SPGAGS(0.001)LGS(0.702)PAS(0.297)QRK;SPGAGS(0.022)LGS(0.861)PAS(0.116)QRK ; 68.088 0.015719 11278400 2676.6 2345.76 2210.71 3001.7 2778.2 2985.3 2614.6 3292.7 2458 2553.66 TRUE FALSE FALSE 2958.137069 2421.764163 2511.974046 3059.802244 2565.334916 2730.935645 2320.398327 3208.477502 2440.894578 2663.76078 1.110511534 0.909152271 0.943017881 1.148677564 0.963050036 1.025218055 0.871098615 1.204491607 0.916334003 1 11.37924881 SPGAPSAGEAEARPSPSTTPLPDSS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 SPGAPSAGEAEARPSPSTTPLPDSSPSR 28 1 Q5SYE7-2;Q5SYE7 Q5SYE7-2 NHSL1 NHS-like protein 1 1 0 SPGAPSAGEAEARPS(0.01)PS(0.03)T(0.07)T(0.231)PLPDS(0.137)S(0.432)PS(0.091)R 60.762 0.0021354 3538300 650.28 747.06 803.61 941.04 866.94 888.24 1442.7 1044.7 899.34 910.2 TRUE FALSE FALSE 718.679434 771.2652342 913.1217858 959.25519 800.5152445 812.5569549 1280.363599 1017.978087 893.0814197 949.4431764 0.756948338 0.812334275 0.961744535 1.010334493 0.843141817 0.855824735 1.348541578 1.07218432 0.940637041 1 9.890937848 -4.77334157 24.99976036 0.887549351 1.210362953 0.609069064 0.099961863 104.6337427 219777.8297 0.016206759 0.049174481 1.69E-05 4.77334157 0.322813602 SPGDPAKPAS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 SPGDPAKPASSPR 13 1 C9JWC4;Q8NCD3-3;Q8NCD3-2;Q8NCD3;H7C3V8 C9JWC4 HJURP Holliday junction recognition protein 1 0 SPGDPAKPAS(0.788)S(0.212)PR 149.35 0.0008104 1906000 752.3 801.47 708.85 898.86 1006.8 1185.2 1083.2 1215.4 1124.2 629.48 TRUE FALSE FALSE 831.4303657 827.4381539 805.4483865 916.2587351 929.6592015 1084.214292 961.3154852 1184.311828 1116.376601 656.6199634 1.266227669 1.260147726 1.226658389 1.395417115 1.415825368 1.651205191 1.464036336 1.803648829 1.70018681 1 9.358914803 -1 0.134183643 0.89360614 3.731816435 0.076890035 0.224227762 17.21760591 0.154501293 0.239519023 9.334270145 0.1 1 2.838210295 SPGDPAKPASS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SPGDPAKPASSPR 13 1 C9JWC4;Q8NCD3-3;Q8NCD3-2;Q8NCD3;H7C3V8 C9JWC4 HJURP Holliday junction recognition protein 1 0 SPGDPAKPAS(0.086)S(0.914)PR 130.47 0.00036246 0 784.51 641.81 684.72 744.53 795.86 723.57 811.25 846.33 928 746.1 TRUE FALSE FALSE 867.0283613 662.6050651 778.0300757 758.9414548 734.8813787 661.9177653 719.9660149 824.6821041 921.5419724 778.2680223 1.114048549 0.851384158 0.999694261 0.975167208 0.944252311 0.850501044 0.925087495 1.059637657 1.184093328 1 9.60412327 -7.271486248 24.94050313 1.053856259 0.942764411 0.432608833 0.076559248 545.9861288 1355361.9 0.012015214 0.013822597 5.35E-08 7.271486248 -0.111091847 SPGGGGGGGSGNDNNQAAT(ph)KSPR ddPTM_HeLa_SAHA_4h_R1 1 SPGGGGGGGSGNDNNQAATKSPR 23 1 Q9NS37;E9PIM0;J3KN20 Q9NS37 CREBZF CREB/ATF bZIP transcription factor 1 0 SPGGGGGGGSGNDNNQAAT(0.5)KS(0.5)PR 71.527 0.0023718 1935400 81.787 139.66 202.38 180.54 167.6 206.93 131.34 0 206.47 250.68 TRUE FALSE FALSE 90.38973191 144.1850756 229.9592925 184.0346128 154.7585242 189.2983998 116.5612775 0 205.0331585 261.4880416 0.345674438 0.551402178 0.879425656 0.703797434 0.591837865 0.72392756 0.445761408 0 0.784101473 1 8.03060116 -9.473474589 1.176163051 1.003513204 0.532790791 0.259078398 0.23556379 0.445382569 1.089088301 0.172107171 0.041007293 3.36E-10 9.473474589 -0.470722413 SPGGGGGGGSGNDNNQAATKS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SPGGGGGGGSGNDNNQAATKSPR 23 1 Q9NS37;E9PIM0;J3KN20 Q9NS37 CREBZF CREB/ATF bZIP transcription factor 1 0 SPGGGGGGGSGNDNNQAAT(0.345)KS(0.655)PR 109.17 3.43E-05 2025800 0 0 0 77.666 61.618 0 0 77.959 77.936 73.387 TRUE FALSE FALSE 0 0 0 79.16933774 56.89684215 0 0 75.96492166 77.39363703 76.55107272 0 0 0 1.034202852 0.743253362 0 0 0.992343007 1.011006564 1 6.258350689 -9.482068715 1.249965181 0.996427418 0.3007822 0.287419472 0.408627985 0.487880225 1.374872184 0.28560655 0.071400326 3.30E-10 9.482068715 -0.695645218 SPGKAEAESDALPDDT(ph)VIESEALPSDIAAEAR ddPTM_HeLa_SAHA_4h_R1 1 SPGKAEAESDALPDDTVIESEALPSDIAAEAR 32 1 Q9GZR7-2;Q9GZR7;G3V529;A0A1W2PRR2;F5GYL3 Q9GZR7-2 DDX24 ATP-dependent RNA helicase DDX24 1 0 S(0.32)PGKAEAES(0.006)DALPDDT(0.674)VIESEALPSDIAAEAR 92.07 2.47E-08 25132000 2778.8 3066.7 2154.1 3028.6 3456.5 3717 3121.3 3300 3698.6 2593.3 TRUE FALSE FALSE 3071.086934 3166.063092 2447.64953 3087.222932 3191.663717 3400.290689 2770.083109 3215.590778 3672.861141 2705.109854 1.135291023 1.170400931 0.904824448 1.14125603 1.179864733 1.256988023 1.024018712 1.188709868 1.357749348 1 11.40147147 -6.025497664 24.9649538 1.062552086 1.1594295 0 0.127272624 886.5133315 867991.0446 0.013723259 0.022818561 9.43E-07 6.025497664 0.096877415 SPGLVPPS(ph)PEFAPR ddPTM_HeLa_SAHA_4h_R1 2 SPGLVPPSPEFAPR 14 0 H3BS42;Q9H5H4 H3BS42 ZNF768 Zinc finger protein 768 1 0 S(0.001)PGLVPPS(0.999)PEFAPR;S(0.002)PGLVPPS(0.998)PEFAPR ; 106.76 0.0028576 5481700 1776.4 2162.3 1514.47 2209.2 1861.53 2463.4 2174.5 2263.2 3175.1 2060.24 TRUE FALSE FALSE 1963.249902 2232.359939 1720.854085 2251.962261 1718.899974 2253.504461 1929.819537 2205.310621 3153.004221 2149.067029 0.913535909 1.038757707 0.800744724 1.047879024 0.79983544 1.048596638 0.897980152 1.026171167 1.467150246 1 11.06949477 -9.529301952 1.235719444 1.000589434 0.941398943 0.061351193 0.174002449 1.138843856 3.062946399 0.057957288 0.013285669 2.96E-10 9.529301952 -0.05919049 SPGS(ph)NSKVPEIEVTVEGPNNNNPQTSAVR ddPTM_HeLa_SAHA_4h_R1 1 SPGSNSKVPEIEVTVEGPNNNNPQTSAVR 29 1 P78347-2;P78347-4;P78347-3;P78347;A0A494C1K3 P78347-2 GTF2I General transcription factor II-I 1 0 S(0.134)PGS(0.694)NS(0.172)KVPEIEVTVEGPNNNNPQTSAVR 134 6.80E-14 141180000 1834.2 963.87 1444.7 1469.7 1427.1 1381.1 1482.3 1667.7 994.57 1212 TRUE FALSE FALSE 2027.129572 995.1000204 1641.576192 1498.148169 1317.755906 1263.42251 1315.507703 1625.042649 987.6487064 1264.255251 1.603417956 0.787103727 1.298453133 1.185004505 1.042317922 0.999341319 1.040539639 1.285375439 0.78120989 1 10.30407206 -7.25957036 24.99900703 1.284947362 1.095387073 0 0.251360439 292.4325048 3911426.069 0.042791932 0.051025572 5.50E-08 7.25957036 -0.18956029 SPGS(ph)PPGPELPIETALDDR ddPTM_HeLa_SAHA_4h_R1 2 SPGSPPGPELPIETALDDR 19 0 Q5VWV2;Q8TEW0-4;Q8TEW0-11;Q8TEW0-2;Q8TEW0;Q8TEW0-8;Q8TEW0-3;Q8TEW0-7;Q8TEW0-6;Q5VWU8;Q8TEW0-9;Q8TEW0-10;Q8TEW0-5;F5GZI3;B1AP52 Q5VWV2 PARD3 Partitioning defective 3 homolog 1 0 S(0.029)PGS(0.971)PPGPELPIETALDDR;S(0.236)PGS(0.764)PPGPELPIETALDDR ; 149.19 1.49E-10 1106500 0 335.44 0 191.196 305.83 114.35 0 193.35 362.07 0 TRUE FALSE FALSE 0 346.3084761 0 194.8968751 282.3973715 104.6067367 0 188.404387 359.5503254 0 0 SPGS(ph)PPGPELPIETALDDRER ddPTM_HeLa_SAHA_4h_R1 2 SPGSPPGPELPIETALDDRER 21 1 Q5VWV2;Q8TEW0-4;Q8TEW0-11;Q8TEW0-2;Q8TEW0;Q8TEW0-8;Q8TEW0-3;Q8TEW0-7;Q8TEW0-6;Q5VWU8;Q8TEW0-9;Q8TEW0-10;Q8TEW0-5;F5GZI3;B1AP52 Q5VWV2 PARD3 Partitioning defective 3 homolog 1 0 S(0.016)PGS(0.984)PPGPELPIETALDDRER;S(0.011)PGS(0.989)PPGPELPIETALDDRER ; 102.16 0.00015471 15113800 1173.97 1177.87 1138.5 1338.09 1419.54 1377.24 1576.06 1458.48 1611.93 1300.19 TRUE FALSE FALSE 1297.453551 1216.033761 1293.648851 1363.990667 1310.775152 1259.891404 1398.717581 1421.174193 1600.712448 1356.247554 0.956649505 0.896616372 0.953844191 1.005709218 0.966471901 0.928953863 1.031314362 1.047872263 1.180250938 1 10.40540482 -4.629556627 6.862022215 0.96965629 1.043609172 0.044781321 0.073503425 0.151831667 8.501929029 0.004864142 0.018546258 2.35E-05 4.629556627 0.073952882 SPGS(ph)PVGEGTGSPPK ddPTM_HeLa_SAHA_4h_R1 3 SPGSPVGEGTGSPPK 15 0 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;H0Y9H2;A0A0A0MSR2 E7EV99 ADD1 Alpha-adducin 1 0 S(0.001)PGS(0.999)PVGEGTGSPPK;S(0.025)PGS(0.975)PVGEGTGSPPK;S(0.004)PGS(0.996)PVGEGTGSPPK ;; 188 7.10E-09 89962800 5466.3 7446.5 5790.9 7384 7227 9557.4 7690.5 7032.5 10417.8 7921.1 TRUE FALSE FALSE 6041.270514 7687.771486 6580.053694 7526.927997 6673.268821 8743.055752 6825.1447 6852.618833 10345.30168 8262.617386 0.731156997 0.930428111 0.796364322 0.910961702 0.807645872 1.058146026 0.826026957 0.82935207 1.252061084 1 13.01238315 -9.668520406 1.535386892 0.99966976 0.845237075 0.344216512 0.119078035 0.414253689 1.76386598 0.064151475 0.014503317 2.15E-10 9.668520406 -0.154432685 SPGS(ph)TPT(ph)TPTSSQAPQK ddPTM_HeLa_SAHA_4h_R1 1 SPGSTPTTPTSSQAPQK 17 0 A0A494C1F2;P35658-2;P35658-4;P35658;P35658-3;P35658-5 A0A494C1F2 NUP214 Nuclear pore complex protein Nup214 2 0 S(0.05)PGS(0.761)T(0.189)PT(0.389)T(0.272)PT(0.276)S(0.05)S(0.013)QAPQK 134.81 0.002803 8750200 1523.6 1794.4 1271.1 1607.5 1903.6 2064.3 1893.4 1964.4 2130.4 1758.4 TRUE FALSE FALSE 1683.859239 1852.539737 1444.318888 1638.615487 1757.746579 1888.410027 1680.349649 1914.153492 2115.574373 1834.213229 0.918028074 1.009991482 0.78743238 0.893361503 0.958310926 1.029547708 0.916114671 1.043582863 1.153396093 1 10.84094565 -4.247193696 22.91146452 0.949790423 1.043583073 0.047856157 0.092585919 1192.216937 1917344.835 0.009497458 0.240273255 5.66E-05 4.247193696 0.09379265 SPGSNS(ph)KVPEIEVTVEGPNNNNPQTSAVR ddPTM_HeLa_SAHA_4h_R1 1 SPGSNSKVPEIEVTVEGPNNNNPQTSAVR 29 1 P78347-2;P78347-4;P78347-3;P78347;A0A494C1K3 P78347-2 GTF2I General transcription factor II-I 1 0 S(0.174)PGS(0.174)NS(0.651)KVPEIEVTVEGPNNNNPQTSAVR 130.57 8.16E-14 143610000 733.63 585.15 790.66 745.86 705.54 684.47 771.86 816.55 505.38 777.28 TRUE FALSE FALSE 810.7965694 604.1092439 898.4070272 760.2971988 651.4816776 626.1493053 685.0082814 795.6638334 501.8630194 810.7923447 1.000005211 0.745085037 1.108060569 0.937721235 0.803512369 0.772268398 0.844862789 0.981341078 0.618978488 1 9.663188657 -5.935602717 5.806523153 0.985776081 0.845857076 0 0.152806814 0.186306033 12.03439877 0.01424509 0.026010386 1.16E-06 5.935602717 -0.139919005 SPGST(ph)PTTPT(ph)SSQAPQK ddPTM_HeLa_SAHA_4h_R1 1 SPGSTPTTPTSSQAPQK 17 0 A0A494C1F2;P35658-2;P35658-4;P35658;P35658-3;P35658-5 A0A494C1F2 NUP214 Nuclear pore complex protein Nup214 2 0 SPGS(0.398)T(0.602)PT(0.002)T(0.072)PT(0.856)S(0.06)S(0.01)QAPQK 178.85 1.38E-08 8385700 866.04 1204 756.81 1031.3 1336.7 1194.7 1153.6 1291.6 1290.9 875.86 TRUE FALSE FALSE 957.1340607 1243.01039 859.9441255 1051.262303 1234.282335 1092.904839 1023.793892 1258.562742 1281.916522 913.622611 1.047625189 1.360529364 0.941246544 1.150652677 1.350976125 1.196232258 1.120587297 1.377552095 1.403113831 1 9.835454546 -6.561018518 0.308016504 0.976798097 1.311517249 0 0.179132914 1.559550948 0.351370191 0.090119943 0.196199029 2.75E-07 6.561018518 0.334719153 SPLAQMEEERR ddPTM_HeLa_SAHA_4h_R1 1 SPLAQMEEERR 11 1 G3V1Q4;E7ES33;E7EPK1;Q16181-2;Q16181;A0A0U1RRM2 G3V1Q4 7-Sep Septin-7 0 0 84.687 0.022858 17984000 792.47 691.55 741.76 1051.5 994.82 1021.2 1064.9 1058.4 959.76 1019.8 FALSE FALSE TRUE 875.8256306 713.9566737 842.8431899 1071.853303 918.5971065 934.1880149 945.0746493 1031.327661 953.080952 1063.768569 0.823323471 0.671157895 0.792318193 1.007600088 0.863530972 0.87818727 0.888421295 0.969503791 0.895947653 1 10.0549686 -9.306069672 1.137568984 0.99672684 0.857979866 0.083361915 0.092724668 0.539282901 1.291924647 0.055905774 0.01638942 4.94E-10 9.306069672 -0.138746974 SPLDPMTS(ph)PGSGLILQANFVHSQR ddPTM_HeLa_SAHA_4h_R1 1 SPLDPMTSPGSGLILQANFVHSQR 24 0 Q08499-6;Q08499;A0A1B0GW84;Q08499-9;Q08499-2;Q08499-10;A0A087WSZ7;Q08499-12;Q08499-7;Q08499-11;A0A1W2PQN6 Q08499-6 PDE4D "cAMP-specific 3,5-cyclic phosphodiesterase 4D" 1 0 S(0.018)PLDPMT(0.144)S(0.836)PGS(0.001)GLILQANFVHSQR 108.69 1.51E-05 2008300 480.54 418.19 592.49 546.21 598.38 699.7 651.71 409 520.71 603.88 TRUE FALSE FALSE 531.085402 431.7396304 673.2314516 556.7826844 552.5322537 640.0816236 578.3778756 398.5383722 517.0863367 629.9162221 0.843104818 0.685392145 1.068763477 0.88389958 0.877151968 1.016137704 0.918182221 0.632684726 0.820881124 1 9.299016155 -9.309042473 1.091629702 0.998379712 0.872876596 0 0.135858618 0.824320962 1.793311481 0.076468692 0.021479136 4.91E-10 9.309042473 -0.125503116 SPLGEAPPGT(ph)PPCR ddPTM_HeLa_SAHA_4h_R1 1 SPLGEAPPGTPPCR 14 0 M0QXZ5;Q96B54 M0QXZ5 ZNF428 Zinc finger protein 428 1 0 S(0.003)PLGEAPPGT(0.997)PPCR 95.195 0.01181 19997000 1167.9 1102.7 1048 894.13 1390.8 1173.5 1039.3 1096.2 1494.9 1119.4 TRUE FALSE FALSE 1290.745081 1138.428204 1190.815982 911.4371791 1284.237204 1073.511198 922.3552287 1068.160791 1484.496869 1167.662812 1.105409085 0.974963141 1.019828644 0.780565391 1.099835664 0.919367464 0.789915735 0.914785313 1.271340368 1 10.18940801 -6.596811285 2.357634649 1.047223554 0.906816022 0.346610612 0.114382025 0.258010531 2.91054994 0.014851473 0.022310028 2.53E-07 6.596811285 -0.140407532 SPLLAGGS(ph)PPQPVVPAHK ddPTM_HeLa_SAHA_4h_R1 4 SPLLAGGSPPQPVVPAHK 18 0 Q8NFH5-2;Q8NFH5;C9IYQ7;F8WCF5;F8WEL4;C9JIY9 Q8NFH5-2 NUP35 Nucleoporin NUP53 1 0 SPLLAGGS(1)PPQPVVPAHK;SPLLAGGS(1)PPQPVVPAHK;S(0.001)PLLAGGS(0.999)PPQPVVPAHK;SPLLAGGS(1)PPQPVVPAHK ;;; 127.1 0.00018668 60902000 21343.5 22581.3 17936.4 21295.5 23622.2 26722.2 24921.8 19866.7 27647 23334.2 TRUE FALSE FALSE 23588.50726 23312.94894 20380.67918 21707.7052 21812.27214 24445.31823 22117.53347 19358.53858 27454.60228 24340.25156 0.96911518 0.957794084 0.837324098 0.891843913 0.896139963 1.004316581 0.908681384 0.795330259 1.127950638 1 14.57105646 -6.952783761 7.446338606 0.984315527 0.895455215 0.424551285 0.068233886 0.169343055 22.23026059 0.008383441 0.011015974 1.11E-07 6.952783761 -0.088860312 SPLS(ph)PTETFSWPDVR ddPTM_HeLa_SAHA_4h_R1 2 SPLSPTETFSWPDVR 15 0 A1L390-3;A1L390;G3V311;A1L390-2 A1L390-3 PLEKHG3 Pleckstrin homology domain-containing family G member 3 1 0 S(0.042)PLS(0.803)PT(0.042)ET(0.111)FS(0.002)WPDVR;SPLS(0.901)PT(0.062)ET(0.028)FS(0.009)WPDVR ; 166.9 3.17E-06 23240000 1093.09 1102.03 1038.5 828.35 1208.51 1453.64 1223.29 1220.01 1202.37 1240.74 TRUE FALSE FALSE 1208.066221 1137.736495 1180.021372 844.3839121 1115.914225 1329.781694 1085.64219 1188.803911 1194.002609 1294.234373 0.933421524 0.879080728 0.911752458 0.652419631 0.862219585 1.027465907 0.838829668 0.918538354 0.922555168 1 10.33788318 -7.683867164 1.064783301 0.982716169 0.866137394 0.138176195 0.090469249 0.481716569 1.134785385 0.021668579 0.020813672 2.07E-08 7.683867164 -0.116578775 SPLVAAMQHFLPVLK ddPTM_HeLa_SAHA_4h_R1 2 SPLVAAMQHFLPVLK 15 0 O95373;E9PLB2 O95373 IPO7 Importin-7 0 0 ; ; 136.24 6.53E-05 3832600 1081.41 1416.64 1226.59 1664.7 1972.11 1232.94 1688.21 956.21 1361.35 1513.46 FALSE FALSE TRUE 1195.157665 1462.540065 1393.743297 1696.922676 1821.007358 1127.886576 1498.248168 931.7515328 1351.876255 1578.712667 0.757045718 0.926413081 0.882835317 1.074877469 1.153476117 0.714434361 0.949031574 0.590197033 0.856315581 1 10.6245329 -3.865813576 1.999209661 0.90969023 2.69E-12 0.365046151 0.128505296 3.600359432 5.25670385 0.020169153 8.921024369 0.000136203 3.865813576 -0.90969023 SPNPS(ph)TPR ddPTM_HeLa_SAHA_4h_R1 1 SPNPSTPR 8 0 O76021;J3QSV6;O76021-2 O76021 RSL1D1 Ribosomal L1 domain-containing protein 1 1 0 SPNPS(0.774)T(0.226)PR 108.31 0.0070077 38522000 814.51 1113 773.21 1080.4 1340.5 1247 1728.3 1381.5 1424.7 1554.1 TRUE FALSE FALSE 900.1838989 1149.06193 878.5790321 1101.312704 1237.79118 1140.748585 1533.827135 1346.16323 1414.785397 1621.104857 0.55529036 0.708814069 0.541963111 0.679359327 0.763547882 0.703685872 0.946161582 0.830398617 0.872729109 1 10.6627617 -2.539550822 14.7021135 0.763446089 43.1115797 0 0.145526003 0 0 0.024928654 0 0.002887016 2.539550822 42.34813361 SPNPST(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SPNPSTPR 8 0 O76021;J3QSV6;O76021-2 O76021 RSL1D1 Ribosomal L1 domain-containing protein 1 1 0 SPNPS(0.038)T(0.962)PR 107.45 0.01277 39259000 2401.3 3210 1801.4 3201.1 3878.1 4456.2 4324.9 3146.1 4007.8 4608.9 TRUE FALSE FALSE 2653.879752 3314.006106 2046.885411 3263.061919 3580.960816 4076.50669 3838.250869 3065.627317 3979.909393 4807.612234 0.552016182 0.689324751 0.425759257 0.678728184 0.744852255 0.847927514 0.798369478 0.637661102 0.827834942 1 12.23110482 -9.421085828 1.139207036 1.000706814 0.66615672 0.351200267 0.124099729 0.329972619 0.763315386 0.087321495 0.021822334 3.79E-10 9.421085828 -0.334550094 SPPAS(ph)PESWK ddPTM_HeLa_SAHA_4h_R1 2 SPPASPESWK 10 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 S(0.179)PPAS(0.815)PES(0.006)WK;S(0.288)PPAS(0.711)PES(0.002)WK ; 130.1 0.0016306 29117000 3631.6 3717 3466.4 3841.4 3789.9 4422.3 4165.7 4353.3 4162.2 3748.9 TRUE FALSE FALSE 4013.58835 3837.433239 3938.78294 3915.755852 3499.518681 4045.495161 3696.964472 4241.94889 4133.234911 3910.533426 1.026353163 0.98130685 1.007223954 1.001335477 0.894895478 1.034512359 0.945386235 1.084749426 1.056949132 1 11.9331497 -7.252473915 24.03467508 1.012444549 0.989676264 0.067582485 0.0498368 979.2333332 2625138.18 0.00734594 0.008924736 5.59E-08 7.252473915 -0.022768285 SPPLIGSESAYESFLS(ph)ADDKASGR ddPTM_HeLa_SAHA_4h_R1 1 SPPLIGSESAYESFLSADDKASGR 24 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 SPPLIGS(0.017)ES(0.038)AY(0.007)ES(0.055)FLS(0.874)ADDKAS(0.009)GR 65.223 0.0015133 3335700 290.47 321.51 193.83 233.06 281.73 430.24 339.81 392.1 181.14 367.51 TRUE FALSE FALSE 321.0229673 331.927135 220.244143 237.5712133 260.1439083 393.5811315 301.5736845 382.0706498 179.879432 383.3551547 0.83740355 0.865847585 0.574517234 0.619715714 0.678597653 1.026674943 0.786669178 0.996649308 0.469223981 1 8.582537768 -8.474523435 0.822390509 0.984392948 0.787807829 0 0.213457227 0.627383691 0.880112449 0.060941041 0.031866304 3.35E-09 8.474523435 -0.196585119 SPPLLES(ph)PDATR ddPTM_HeLa_SAHA_4h_R1 2 SPPLLESPDATR 12 0 Q15036-2;Q15036 Q15036-2 SNX17 Sorting nexin-17 1 0 SPPLLES(0.993)PDAT(0.007)R;SPPLLES(0.999)PDAT(0.001)R ; 113.54 0.002397 11611400 945.7 751.22 880.34 736.32 909.11 1062.81 1253.01 906.67 966.26 1062.99 TRUE FALSE FALSE 1045.173065 775.5600209 1000.308151 750.5725383 839.4541882 972.2526088 1112.018017 883.4786942 959.535718 1108.820701 0.942598803 0.699445835 0.902136973 0.676910647 0.757069369 0.876834828 1.002883528 0.796773269 0.865365985 1 10.11481038 -7.454276864 7.778036795 0.974893803 0.820909336 0.217277059 0.097791367 0.237648145 24.23626225 0.016021753 0.018195709 3.51E-08 7.454276864 -0.153984467 SPPLS(ph)PVGTTPVK ddPTM_HeLa_SAHA_4h_R1 3 SPPLSPVGTTPVK 13 0 C9J4K0;Q9BVC5-2;Q9BVC5 C9J4K0 C2orf49 Ashwin 1 0 S(0.035)PPLS(0.95)PVGT(0.011)T(0.003)PVK;SPPLS(0.998)PVGT(0.002)TPVK;S(0.001)PPLS(0.96)PVGT(0.038)T(0.002)PVK ;; 138.55 0.0004437 37322000 5992.1 7807.4 6232.7 6244.7 6991.2 9623.8 9075.8 8122.6 5976.1 6856.8 TRUE FALSE FALSE 6622.376571 8060.364883 7082.059897 6365.575198 6455.535766 8803.798098 8054.567098 7914.835653 5934.511834 7152.430204 0.925891813 1.126940725 0.990161343 0.889987741 0.902565363 1.23088207 1.126130122 1.106593903 0.829719643 1 12.8042178 -5.263820289 24.99921564 0.969271306 1.151694842 0.554989263 0.082030841 112.5618218 1181890.683 0.010269519 0.024020854 5.45E-06 5.263820289 0.182423536 SPPLSPVGTT(ph)PVK ddPTM_HeLa_SAHA_4h_R1 1 SPPLSPVGTTPVK 13 0 C9J4K0;Q9BVC5-2;Q9BVC5 C9J4K0 C2orf49 Ashwin 1 0 SPPLSPVGT(0.047)T(0.953)PVK 180.3 1.25E-05 13231000 1978.9 2166.2 1928.2 2390.4 2024.1 2177.8 2388.3 2312.1 2566.9 2206.3 TRUE FALSE FALSE 2187.049782 2236.386301 2190.965054 2436.669649 1869.013895 1992.239188 2119.562198 2252.95983 2549.036734 2301.42439 0.950302687 0.971740071 0.952003926 1.058765892 0.812111796 0.865654851 0.92097842 0.978941493 1.10759091 1 11.16831133 -5.762290562 24.99999702 0.978681705 0.894263793 0.386833924 0.063641358 17.54048996 515203.0673 0.007275691 0.013769653 1.73E-06 5.762290562 -0.084417912 SPPPS(ph)PPTHR ddPTM_HeLa_SAHA_4h_R1 1 SPPPSPPTHR 10 0 Q96HA1 Q96HA1 POM121 Nuclear envelope pore membrane protein POM 121 1 0 SPPPS(0.996)PPT(0.003)HR 86.803 0.016305 2864000 199.1 168.05 132.05 0 0 116.58 119.75 153.9 0 127.87 TRUE FALSE FALSE 220.0422515 173.4949303 150.0450863 0 0 106.6467281 106.2754148 149.9634608 0 133.3831015 1.649701117 1.300726466 1.124918259 0 0 0.799552019 0.796768209 1.124306297 0 1 7.059432091 -6.459153413 7.623977278 1.310387158 0.541886004 0.048578821 0.546517082 0.211780526 22.78387147 0.06433442 0.098155073 3.47E-07 6.459153413 -0.768501154 SPPREGS(ph)QGELTPANSQSR ddPTM_HeLa_SAHA_4h_R1 1 SPPREGSQGELTPANSQSR 19 1 C9JFE4;A0A096LP07;A0A096LPJ3;A8K070;Q13098-5;Q13098;Q13098-7;J3QQX0 C9JFE4 GPS1 COP9 signalosome complex subunit 1 1 0 S(0.061)PPREGS(0.938)QGELT(0.001)PANSQSR 57.216 0.016276 11879000 336.3 277.57 308.77 234.74 298.92 312.77 219.13 308.39 170.52 137.61 TRUE FALSE FALSE 371.673577 286.5634501 350.8475676 239.2837321 276.0168142 286.1202364 194.4729157 300.5018303 169.3333374 143.5430405 2.589283156 1.996359064 2.444197686 1.666982469 1.922885381 1.993271393 1.354805604 2.09346151 1.179669434 1 7.165339575 -9.534360196 1.307560667 1.002455486 2.058408836 0.5395847 0.335858854 0.277974557 0.854255557 0.25791366 0.062135896 2.92E-10 9.534360196 1.05595335 SPPS(ph)PATDQR ddPTM_HeLa_SAHA_4h_R1 1 SPPSPATDQR 10 0 Q6F5E8;Q6F5E8-2 Q6F5E8 RLTPR Leucine-rich repeat-containing protein 16C 1 0 S(0.116)PPS(0.815)PAT(0.069)DQR 98.368 0.011695 9633200 668.03 730.63 617.44 812.91 709.7 564.86 752.49 821.25 623.5 384.33 TRUE FALSE FALSE 738.2964604 754.3028914 701.5815077 828.6450485 655.3229393 516.7307502 667.8178448 800.2436142 619.1610127 400.9003472 1.841595962 1.881522171 1.750014717 2.066960167 1.634628017 1.288925674 1.665795127 1.996116042 1.544426232 1 8.647099857 -9.2160618 0.873751448 0.982788882 1.758123399 0.281632561 0.262003814 0.322849896 0.428428525 0.164650732 0.042223554 6.08E-10 9.2160618 0.775334517 SPPS(ph)TGSTYGSSQK ddPTM_HeLa_SAHA_4h_R1 1 SPPSTGSTYGSSQK 14 0 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 S(0.227)PPS(0.455)T(0.119)GS(0.196)T(0.003)YGSSQK 178.68 8.27E-07 15804000 292.21 722.77 462.63 433.22 496.83 655.75 552.64 448.63 840.68 572.17 TRUE FALSE FALSE 322.9459885 746.1882222 525.6748071 441.6055995 458.7629927 599.8764109 490.4554927 437.1546942 834.8296394 596.8390488 0.541093933 1.250233583 0.880764769 0.739907351 0.768654453 1.005089081 0.821755034 0.732449888 1.398751709 1 9.221198118 SPPS(ph)TPTWS(ph)GT(ph)LKM ddPTM_HeLa_SAHA_4h_R1 1 SPPSTPTWSGTLKM 14 1 Q2T9K0-4 Q2T9K0-4 3 0 S(0.017)PPS(0.449)T(0.39)PT(0.145)WS(0.999)GT(1)LKM 59.9 0.018941 3293600 1193.5 1038.9 912.52 1086.6 1431.7 1103.9 1270.2 903.85 1302.8 1188.4 TRUE FALSE FALSE 1319.037806 1072.561042 1036.873473 1107.632714 1322.003455 1009.84151 1127.273753 880.7308258 1293.733709 1239.63774 1.064051024 0.865221352 0.836432645 0.893513225 1.066443375 0.814626303 0.909357401 0.710474357 1.04363853 1 10.27570287 -2.065893428 0.248979149 1.035327542 1.96E-16 0.423990668 0.086429049 20.19479814 0.401741222 0.053449013 7.924997904 0.008592243 2.065893428 -1.035327542 SPQLSLS(ph)PRPASPK ddPTM_HeLa_SAHA_4h_R1 1 SPQLSLSPRPASPK 14 1 M0QXA7;A0A669KBH9;A0A669KAV7;O95785-3;B9EGQ5;A0A669KBG4;A0A2R8YFV2;O95785-4;O95785 M0QXA7 WIZ Protein Wiz 1 0 S(0.001)PQLS(0.077)LS(0.845)PRPAS(0.077)PK 63.894 0.023004 16732000 1841.1 2508.7 2219.9 1835.6 2580.8 2638.7 2504.4 2265.3 3122.9 2115.9 TRUE FALSE FALSE 2034.755345 2589.983526 2522.416411 1871.130692 2383.059662 2413.867915 2222.598321 2207.356906 3101.167485 2207.126804 0.921902331 1.173463854 1.142850699 0.847767645 1.07971126 1.093669793 1.0070098 1.000104254 1.405069921 1 11.1079538 SPQPPAEEDEDDFDDT(ph)LVAIDTYNCDLHFK ddPTM_HeLa_SAHA_4h_R1 1 SPQPPAEEDEDDFDDTLVAIDTYNCDLHFK 30 0 M0R3F1;A0A0A0MRA5;B7Z4B8;Q9BUJ2-3;Q9BUJ2-4;Q9BUJ2-2;Q9BUJ2;M0QYI8;M0QYZ0;M0R0K8 M0R3F1 HNRNPUL1 Heterogeneous nuclear ribonucleoprotein U-like protein 1 1 0 S(0.457)PQPPAEEDEDDFDDT(0.543)LVAIDTYNCDLHFK 92.819 3.36E-08 3219200 1726.2 2799.5 1964.6 1960 2259.6 2989.9 2926.2 2175.2 2914.3 2448.6 TRUE FALSE FALSE 1907.769636 2890.205637 2232.325457 1997.938634 2086.469936 2735.143699 2596.936275 2119.561534 2894.019149 2554.171129 0.746923185 1.131563036 0.873992127 0.782225831 0.816887292 1.070853737 1.016743258 0.829843196 1.133056089 1 11.31863947 -5.271377788 24.86553165 0.885507756 0.976906387 0 0.142016457 1224.450564 3063530.039 0.019258991 0.043546134 5.35E-06 5.271377788 0.091398632 SPQPPVEEEDEHFDDT(ph)VVCLDTYNCDLHFK ddPTM_HeLa_SAHA_4h_R1 2 SPQPPVEEEDEHFDDTVVCLDTYNCDLHFK 30 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1W2PP35;Q5RI18;A0A1W2PRI6 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 1 0 S(0.278)PQPPVEEEDEHFDDT(0.722)VVCLDTYNCDLHFK;S(0.093)PQPPVEEEDEHFDDT(0.907)VVCLDTYNCDLHFK ; 99.836 1.29E-08 73102000 1711.93 3049.37 2383.2 2496.96 3091.15 3143.12 2963.48 2114.26 3898.9 3200.63 TRUE FALSE FALSE 1891.998652 3148.171589 2707.970085 2545.292271 2854.306755 2875.308493 2630.021431 2060.180291 3871.767237 3338.624823 0.566699989 0.942954586 0.811103442 0.762377448 0.854934863 0.861225398 0.787755909 0.617074514 1.159689226 1 11.70503826 -9.67551872 1.544731467 0.999648731 0.752422556 0.465485868 0.12078104 0.35454256 1.526893763 0.088468889 0.019873515 2.11E-10 9.67551872 -0.247226174 SPQPVCS(ph)PAGSEGTPK ddPTM_HeLa_SAHA_4h_R1 4 SPQPVCSPAGSEGTPK 16 0 A0A590UJS4;Q6KC79-2;Q6KC79-3;Q6KC79 A0A590UJS4;Q6KC79 NIPBL Nipped-B-like protein 1 0 S(0.132)PQPVCS(0.771)PAGS(0.059)EGT(0.037)PK;S(0.006)PQPVCS(0.589)PAGS(0.311)EGT(0.094)PK;SPQPVCS(0.641)PAGS(0.079)EGT(0.28)PK;S(0.004)PQPVCS(0.932)PAGS(0.063)EGT(0.001)PK ;;; 176.11 4.51E-09 33842400 7764.9 7688.1 6696.3 8160.7 7769.3 7841.6 8996.8 9450.6 8238 8032.2 TRUE FALSE FALSE 8581.647809 7937.199484 7608.836891 8318.662149 7174.017912 7173.451564 7984.456386 9208.867336 8180.671087 8378.507451 1.024245411 0.94732857 0.90813751 0.992857284 0.85624056 0.856172965 0.952968823 1.099105943 0.976387637 1 13.03247755 -7.207100024 5.894218951 1.011437796 0.938260385 0.114799549 0.067093827 0.257302928 20.26176254 0.011045615 0.013496721 6.21E-08 7.207100024 -0.073177411 SPQQTVPYVVPLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SPQQTVPYVVPLSPK 15 0 H0Y6S1;B4DRC2;Q9UQR0 H0Y6S1 SCML2 Sex comb on midleg-like protein 2 1 0 S(0.021)PQQT(0.002)VPY(0.011)VVPLS(0.965)PK 116.09 0.0011377 5202100 3066.8 3209.7 2627 3301.5 3651.5 3699.5 3228.4 3853.8 3710.8 3699.9 TRUE FALSE FALSE 3389.380095 3313.696386 2984.993879 3365.405307 3371.722859 3384.281787 2865.131935 3755.225376 3684.976241 3859.420796 0.878209523 0.858599402 0.773430532 0.871997505 0.873634423 0.876888519 0.742373555 0.973002317 0.954800328 1 11.91416864 -8.699393619 0.650821108 1.001258636 0.848146542 0.385167699 0.060492219 0.470200688 0.385986629 0.036608842 0.01307865 2.00E-09 8.699393619 -0.153112095 SPQTLAPVGEDAMKTPS(ph)PAAEDAREPEAK ddPTM_HeLa_SAHA_4h_R1 1 SPQTLAPVGEDAMKTPSPAAEDAREPEAK 29 2 Q92797 Q92797 SYMPK Symplekin 1 0 SPQTLAPVGEDAMKT(0.08)PS(0.92)PAAEDAREPEAK 65.248 0.00020977 6704600 1054.4 953.12 1193.1 1109.6 1339.9 1116.7 973.75 1237.4 867.64 1010.4 TRUE FALSE FALSE 1165.30663 984.0017134 1355.689455 1131.077913 1237.237151 1021.550878 864.1810872 1205.7491 861.6020226 1053.963289 1.105642523 0.933620482 1.286277681 1.073166328 1.173890177 0.969247116 0.819934714 1.144014324 0.817487698 1 10.0416089 -3.937698737 22.23906704 1.049518156 3.439889612 0.028439167 0.142866057 2297.904881 990617.3187 0.016224533 56106.92028 0.000115425 3.937698737 2.390371456 SPRPGSSAPEHS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SPRPGSSAPEHSPR 14 1 O75385 O75385 ULK1 Serine/threonine-protein kinase ULK1 1 0 SPRPGSSAPEHS(1)PR 85.576 0.007463 676620 0 155.81 0 146.23 135.73 171.89 212.6 223.2 58.785 230.77 TRUE FALSE FALSE 0 160.8583462 0 149.0604931 125.3303967 157.244005 188.6776885 217.4908672 58.3759104 240.7196241 0 0.668239438 0 0.619228672 0.520648855 0.653224703 0.783806843 0.903502853 0.242505822 1 7.911209948 -4.821472547 1.402921855 0.491941307 0.914052634 0.233230597 0.291842111 0.986262995 3.119386558 0.058715238 0.437789072 1.51E-05 4.821472547 0.422111326 SPRS(ph)PSGHPHVR ddPTM_HeLa_SAHA_4h_R1 2 SPRSPSGHPHVR 12 1 Q8WX93-3;Q8WX93;Q8WX93-8;Q8WX93-2;Q8WX93-9;Q8WX93-5;Q8WX93-4;Q8WX93-7 Q8WX93-3 PALLD Palladin 1 0 S(0.421)PRS(0.567)PS(0.011)GHPHVR;S(0.051)PRS(0.944)PS(0.005)GHPHVR ; 71.513 0.012398 6066900 466.75 358.44 169.452 649.02 676.6 373.18 654.85 723.71 239.28 428.92 TRUE FALSE FALSE 515.8449065 370.0536912 192.5440361 661.5827206 624.7590542 341.3829645 581.1645545 705.1985461 237.614831 447.4128403 1.152950609 0.827096717 0.430349822 1.478685145 1.396381592 0.763015573 1.298944738 1.576169664 0.531086302 1 8.805462851 -4.529652265 6.688485018 1.045087436 1.512749304 0.237515065 0.331444562 0.126137297 28.53714311 0.039445316 0.166165784 2.95E-05 4.529652265 0.467661869 SPS(ph)APAATSSASSSTSSYKR ddPTM_HeLa_SAHA_4h_R1 1 SPSAPAATSSASSSTSSYKR 20 1 A0A087X0S7;A0A0C4DH00;A0A087WTU1;A0A0B4J2G4;Q15345-3;Q15345 A0A087X0S7 LRRC41 Leucine-rich repeat-containing protein 41 1 0 S(0.086)PS(0.914)APAATSSASSSTSSYKR 123.4 3.89E-06 0 0 0 138.28 0 76.423 232.1 175.19 149.59 197.8 70.549 TRUE FALSE FALSE 0 0 157.1240783 0 70.56748625 212.3237742 155.4771601 145.7637044 196.4234937 73.59071265 0 0 2.135107442 0 0.95891837 2.885197963 2.112728013 1.980735057 2.669134278 1 6.201451801 -5.400611521 5.158185299 0.570673593 2.293058032 0.254949911 0.922818351 0.122535811 4.659349654 0.096285378 0.218993839 3.98E-06 5.400611521 1.722384439 SPS(ph)FGAGEGLLR ddPTM_HeLa_SAHA_4h_R1 1 SPSFGAGEGLLR 12 0 Q96PE2 Q96PE2 ARHGEF17 Rho guanine nucleotide exchange factor 17 1 0 S(0.315)PS(0.685)FGAGEGLLR 110.15 0.0030874 30728000 537.06 555.49 632.82 495.74 755.14 581.92 668.21 538.36 571.3 568.13 TRUE FALSE FALSE 593.5504349 573.4882405 719.057414 505.3357646 697.2813363 532.3371422 593.0212522 524.5895307 567.3242768 592.6248647 1.001561815 0.967708705 1.213343309 0.852707665 1.176598179 0.898270008 1.000668867 0.885196626 0.957307583 1 9.210975348 -3.758235101 1.083283323 1.011247985 0.668335117 0.114925129 0.105004696 6.968536567 3.07180095 0.013523624 3.56675999 0.000174488 3.758235101 -0.342912869 SPS(ph)MPENLNRPR ddPTM_HeLa_SAHA_4h_R1 2 SPSMPENLNRPR 12 1 D6RJC2;P30307-4;P30307-3;P30307-2;P30307;H0Y999 D6RJC2 CDC25C M-phase inducer phosphatase 3 1 0 S(0.001)PS(0.999)MPENLNRPR;SPS(1)MPENLNRPR ; 152.88 0.00017966 99952000 4072.1 4420.4 3544.1 3861.9 4083 4312.3 4274.7 4382.5 3993.6 4305.7 TRUE FALSE FALSE 4500.422161 4563.62386 4027.071491 3936.652659 3770.161422 3944.86778 3793.699506 4270.401996 3965.808212 4491.339799 1.002022195 1.016094098 0.896630331 0.876498514 0.839429122 0.878327616 0.844669893 0.950808041 0.882990019 1 12.13293016 -6.691424561 4.698024217 1.002166197 0.87531204 0.451503141 0.047425543 0.057767768 2.43685051 0.004231404 0.005983487 2.04E-07 6.691424561 -0.126854158 SPS(ph)PAHLPDDPK ddPTM_HeLa_SAHA_4h_R1 4 SPSPAHLPDDPK 12 0 Q92615;A0A087X183;H0Y4V9;H0Y641 Q92615 LARP4B La-related protein 4B 1 0 S(0.209)PS(0.791)PAHLPDDPK;S(0.228)PS(0.772)PAHLPDDPK;S(0.332)PS(0.668)PAHLPDDPK;S(0.059)PS(0.941)PAHLPDDPK ;;; 141.38 0.00062228 178676100 9526 11878.5 7462.4 10845.6 12844 14520.2 12585.3 12757.8 13456 10429.4 TRUE FALSE FALSE 10527.98839 12263.37119 8479.337009 11055.53227 11859.89549 13282.99727 11169.16892 12431.47395 13362.3586 10879.06247 0.96772938 1.127245222 0.77941799 1.016221048 1.090157863 1.22096893 1.026666493 1.142697174 1.228263799 1 13.40926661 -5.760085925 3.906030028 0.980374871 1.123544753 0.101685991 0.120023001 0.174202222 5.865548906 0.012463919 0.0246777 1.74E-06 5.760085925 0.143169882 SPS(ph)PAHLPDDPKVAEK ddPTM_HeLa_SAHA_4h_R1 4 SPSPAHLPDDPKVAEK 16 1 Q92615;A0A087X183;H0Y4V9;H0Y641 Q92615 LARP4B La-related protein 4B 1 0 S(0.072)PS(0.928)PAHLPDDPKVAEK;S(0.181)PS(0.819)PAHLPDDPKVAEK;S(0.365)PS(0.635)PAHLPDDPKVAEK;S(0.151)PS(0.849)PAHLPDDPKVAEK ;;; 168.64 5.53E-07 107553000 19004.9 13269 16347 16850.4 19703 19444.5 22900 26087.5 10897.7 17771.2 TRUE FALSE FALSE 21003.92258 13698.92431 18574.68403 17176.56386 18193.3604 17787.71921 20323.23173 25420.21952 10821.86202 18537.4034 1.133056347 0.738988304 1.002011103 0.926589527 0.981440604 0.959558295 1.096336487 1.371293432 0.583785214 1 14.17815155 -4.297373165 3.041228357 1.015633464 1.413573241 0.291497049 0.170290183 0.226853888 3.212152831 0.015923109 0.207078774 5.04E-05 4.297373165 0.397939777 SPS(ph)PEPIYNSEGK ddPTM_HeLa_SAHA_4h_R1 2 SPSPEPIYNSEGK 13 0 Q15637-6;Q15637-4;Q15637-3;Q15637-2;Q15637;Q15637-7;Q15637-5 Q15637-6 SF1 Splicing factor 1 1 0 S(0.013)PS(0.987)PEPIYNSEGK;S(0.424)PS(0.576)PEPIYNSEGK ; 162.72 5.16E-05 20390100 2996.3 3652.1 2223.44 3555.8 3397.7 4322.8 3093.9 2838.6 6009.6 4594.5 TRUE FALSE FALSE 3311.464582 3770.430436 2526.438824 3624.627651 3137.36896 3954.473121 2745.766229 2765.992722 5967.778704 4792.59138 0.690954917 0.786720615 0.527155066 0.756298078 0.654628929 0.825122112 0.57291891 0.577139277 1.245209164 1 12.22659022 -9.551153379 0.396283566 1.143444072 0.653009967 0.67745914 0.118639664 1.319424812 0.229807209 0.280189694 0.029732712 2.81E-10 9.551153379 -0.490434104 SPS(ph)PISISSSETSSIMQK ddPTM_HeLa_SAHA_4h_R1 1 SPSPISISSSETSSIMQK 18 0 Q5VT06 Q5VT06 CEP350 Centrosome-associated protein 350 1 0 S(0.02)PS(0.871)PIS(0.099)IS(0.006)S(0.002)S(0.002)ETSSIMQK 136.35 9.77E-05 2885100 821.17 1208.7 1015.3 1064.4 1222.5 1263.8 1232.5 1250.5 1251.7 1189.7 TRUE FALSE FALSE 907.5444283 1247.862673 1153.659797 1085.003001 1128.832314 1156.11713 1093.815856 1218.514021 1242.989318 1240.993789 0.731304569 1.005534986 0.929625762 0.874301717 0.909619632 0.931605895 0.881403167 0.981885672 1.001608008 1 10.27728018 SPS(ph)PISNQPSPR ddPTM_HeLa_SAHA_4h_R1 1 SPSPISNQPSPR 12 0 F6SS63;Q8N5C8-2;Q8N5C8 F6SS63 TAB3 TGF-beta-activated kinase 1 and MAP3K7-binding protein 3 1 0 S(0.008)PS(0.971)PIS(0.021)NQPSPR 116.71 0.0017505 19549000 2058.9 2779.6 1941.9 2845.3 2870.2 3910.8 2979 2682.5 5244.6 3443.5 TRUE FALSE FALSE 2275.464549 2869.660864 2206.532019 2900.374896 2650.285896 3577.577838 2643.79508 2613.885534 5208.102402 3591.966137 0.633487194 0.79891089 0.614296442 0.807461648 0.737837105 0.995994311 0.736030068 0.727703278 1.449930819 1 11.81055803 -9.50180862 1.249033427 1.000021061 0.747292735 0.43067581 0.177132915 0.336747969 0.94008254 0.072367169 0.017530148 3.15E-10 9.50180862 -0.252728326 SPS(ph)PLGTSVR ddPTM_HeLa_SAHA_4h_R1 1 SPSPLGTSVR 10 0 E9PFQ4;Q86SQ0-2;Q86SQ0-3;Q86SQ0;E9PDY7;G5E9V3 E9PFQ4 PHLDB2 Pleckstrin homology-like domain family B member 2 1 0 S(0.491)PS(0.509)PLGTSVR 123.67 0.0025453 11265000 1305.5 1515.3 1532.1 1518.9 1610.8 1663.2 1834.4 2312.1 2214.4 1456 TRUE FALSE FALSE 1442.81848 1564.396714 1740.886609 1548.300506 1487.380852 1521.486003 1627.988484 2252.95983 2198.98981 1518.775285 0.949988121 1.030038301 1.146243704 1.019440151 0.979329112 1.001784805 1.071908728 1.483405644 1.44787042 1 10.56869271 -4.2413774 2.744992219 0.996689032 1.590111915 0.317704503 0.151713627 0.127450374 1.230597683 0.008244695 0.174012822 5.74E-05 4.2413774 0.593422883 SPS(ph)PLTGK ddPTM_HeLa_SAHA_4h_R1 1 SPSPLTGK 8 0 Q9P2F8;Q9P2F8-2 Q9P2F8 SIPA1L2 Signal-induced proliferation-associated 1-like protein 2 1 0 S(0.092)PS(0.907)PLTGK 116.52 0.0042487 9054500 2407.9 2984.2 2643.8 2592.5 3103.5 3198.9 3093.8 2660.4 3297.2 2754 TRUE FALSE FALSE 2661.17397 3080.890038 3004.083296 2642.681586 2865.7105 2926.335723 2745.677482 2592.35082 3274.254517 2872.738418 0.926354434 1.072457561 1.045721141 0.919917236 0.997553583 1.018657218 0.955770099 0.902397101 1.13976772 1 11.48821092 -4.356920904 3.588911351 0.980034821 0.900151193 0.066135556 0.068675515 0.335194422 6.972168757 0.007141412 0.059248909 4.40E-05 4.356920904 -0.079883628 SPS(ph)PLVSLQAVK ddPTM_HeLa_SAHA_4h_R1 1 SPSPLVSLQAVK 12 0 Q9UPZ3-2;Q9UPZ3 Q9UPZ3-2 HPS5 Hermansky-Pudlak syndrome 5 protein 1 0 S(0.423)PS(0.576)PLVS(0.001)LQAVK 160.84 0.00015692 7775700 1356 1501.3 1418.1 1353 1249.7 1126.3 1517.3 817.15 816.31 1094.9 TRUE FALSE FALSE 1498.630302 1549.943105 1611.351283 1379.189271 1153.948256 1030.332904 1346.569411 796.2484862 810.6292322 1142.106497 1.312163362 1.357091575 1.410859046 1.207583771 1.010368349 0.902133826 1.179022634 0.697175341 0.709766764 1 10.15748147 -5.671311258 4.282377295 1.194049411 0.952633485 0.191012506 0.21897624 0.229570817 7.716874407 0.027302252 0.055756492 2.13E-06 5.671311258 -0.241415926 SPS(ph)PPDGSPAATPEIR ddPTM_HeLa_SAHA_4h_R1 4 SPSPPDGSPAATPEIR 16 0 O00499-6;O00499-2;O00499;O00499-9;O00499-7;O00499-4;O00499-11;O00499-3;O00499-5;O00499-10;O00499-8 O00499-6 BIN1 Myc box-dependent-interacting protein 1 1 0 SPS(1)PPDGSPAATPEIR;S(0.417)PS(0.583)PPDGSPAATPEIR;S(0.082)PS(0.911)PPDGS(0.007)PAATPEIR;S(0.415)PS(0.569)PPDGS(0.015)PAAT(0.001)PEIR ;;; 244.56 2.26E-36 283986700 2808.5 2839.09 2406.77 2587.78 2795.39 3775.7 3085.78 2882.58 3621.99 2843.18 TRUE FALSE FALSE 3103.910916 2931.078379 2734.752082 2637.870224 2581.207822 3453.989118 2738.559913 2808.847778 3596.784277 2965.763404 1.04658076 0.988304858 0.922107299 0.889440547 0.870335044 1.164620588 0.923391229 0.947090983 1.212768447 1 11.53418779 -7.000368518 7.064636652 1.021815736 0.954443061 0.196334751 0.097515496 0.200757373 60.85950444 0.012564329 0.016116142 9.99E-08 7.000368518 -0.067372675 SPS(ph)PPLPLSCSNSTR ddPTM_HeLa_SAHA_4h_R1 1 SPSPPLPLSCSNSTR 15 0 Q96HJ3-2;Q96HJ3 Q96HJ3-2 CCDC34 Coiled-coil domain-containing protein 34 1 0 S(0.464)PS(0.535)PPLPLS(0.001)CSNSTR 94.339 0.0064234 29748000 649.38 496.87 594.89 595.62 681.55 614.25 671.03 656.91 453.22 549.79 TRUE FALSE FALSE 717.6847679 512.968914 675.9585111 607.1490864 629.3297862 561.9124443 595.5239383 640.1071934 450.0660051 573.4941375 1.251424768 0.89446235 1.17866682 1.058684033 1.097360453 0.979805036 1.038413297 1.116152985 0.784778737 1 9.163634928 -5.737610085 2.096850044 1.10533953 1.046042503 0 0.140419478 0.878899001 7.869733185 0.017737818 0.039316542 1.83E-06 5.737610085 -0.059297028 SPS(ph)PSFR ddPTM_HeLa_SAHA_4h_R1 1 SPSPSFR 7 0 P49585;C9JEJ2 P49585 PCYT1A Choline-phosphate cytidylyltransferase A 1 0 S(0.039)PS(0.96)PS(0.001)FR 115.49 0.0053628 23227000 1750 1835.7 1855.5 2030.9 2494.9 2524.3 2344.2 2322.2 1777.4 1842.9 TRUE FALSE FALSE 1934.073029 1895.177884 2108.357877 2070.211006 2303.741301 2309.215439 2080.424446 2262.801487 1765.030929 1922.356438 1.006094911 0.985861855 1.096756999 1.076913191 1.198394458 1.201242076 1.082226171 1.177097775 0.918160074 1 10.90866015 -6.368633595 1.509994169 1.001439656 1.15819963 0.742146821 0.046823993 0.126839008 0.569068752 0.006115958 0.010761409 4.28E-07 6.368633595 0.156759974 SPS(ph)PSPTPEAK ddPTM_HeLa_SAHA_4h_R1 2 SPSPSPTPEAK 11 0 F8VXC8;Q8TAQ2-2;Q8TAQ2-3;Q8TAQ2 F8VXC8 SMARCC2 SWI/SNF complex subunit SMARCC2 1 0 S(0.062)PS(0.807)PS(0.131)PTPEAK;S(0.011)PS(0.901)PS(0.087)PT(0.001)PEAK ; 132.5 0.0012226 11501300 4323.5 5010.1 3994.2 4563.4 4790.5 5656.2 4757.5 5037.6 4551.9 4554.8 TRUE FALSE FALSE 4778.265567 5172.430527 4538.508775 4651.731206 4423.452925 5174.259939 4222.173579 4908.745486 4520.222957 4751.179719 1.005700868 1.08866236 0.955238287 0.97906867 0.931022017 1.089047404 0.888657939 1.033163504 0.951389597 1 12.21407006 SPS(ph)TTYLHTPTPSEDAAIPSK ddPTM_HeLa_SAHA_4h_R1 1 SPSTTYLHTPTPSEDAAIPSK 21 0 Q13111 Q13111 CHAF1A Chromatin assembly factor 1 subunit A 1 0 S(0.192)PS(0.23)T(0.23)T(0.23)Y(0.006)LHT(0.111)PTPSEDAAIPSK 90.836 0.00035645 32447000 2148.2 2960.3 1833.7 2997.7 2783.3 3421.7 2872 2689.4 3071.7 2687.8 TRUE FALSE FALSE 2374.157532 3056.215662 2083.587087 3055.724818 2570.044155 3130.15191 2548.835001 2620.609042 3050.32379 2803.684212 0.846799195 1.090071289 0.743160402 1.089896218 0.916666772 1.116442393 0.909102027 0.934701929 1.087969814 1 11.45310815 SPSDSSTAST(ph)PVAEQIER ddPTM_HeLa_SAHA_4h_R1 2 SPSDSSTASTPVAEQIER 18 0 Q16643;Q16643-2;Q16643-3;D6R9Q9 Q16643 DBN1 Drebrin 1 0 SPSDSST(0.001)AS(0.226)T(0.773)PVAEQIER;SPSDSST(0.04)AS(0.219)T(0.741)PVAEQIER ; 229.02 1.78E-28 50935000 2181.2 2178.79 2143.2 2007.92 2337.5 3225.8 2787.4 2182.75 2285.1 2439.1 TRUE FALSE FALSE 2410.628624 2249.384226 2435.264135 2046.786195 2158.401255 2950.943692 2473.754416 2126.918416 2269.197803 2544.261538 0.947476739 0.884101022 0.957159513 0.804471618 0.848340952 1.159842905 0.972287785 0.835966894 0.891888577 1 11.31303126 -8.422787848 0.965167501 0.993023677 0.928848735 0 0.099587043 1.054128295 2.027924607 0.03353481 0.020065586 3.78E-09 8.422787848 -0.064174942 SPSEGQTATT(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 SPSEGQTATTSPR 13 0 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 SPSEGQT(0.001)AT(0.023)T(0.488)S(0.488)PR 106.55 0.0056788 8362200 2618.1 2421 2408.2 2381.3 2746.7 2460.8 2973.5 3213.9 2267.6 2648.9 TRUE FALSE FALSE 2893.48377 2499.441988 2736.376955 2427.393505 2536.248439 2251.125996 2638.913954 3131.693092 2251.819587 2763.107042 1.047184827 0.904576605 0.990326076 0.878501436 0.91789728 0.814708211 0.955053103 1.133395501 0.81495923 1 11.43207574 -7.264142593 24.92313094 1.022281724 0.93614849 0 0.102810045 270.9221523 2497850.153 0.01335081 0.015620279 5.44E-08 7.264142593 -0.086133234 SPSFGDPQLS(ph)PEAR ddPTM_HeLa_SAHA_4h_R1 2 SPSFGDPQLSPEAR 14 0 O95425-3;O95425-2;O95425-4;O95425;A0A6I8PIX7 O95425-3 SVIL Supervillin 1 0 SPSFGDPQLS(1)PEAR;SPSFGDPQLS(1)PEAR ; 122.16 0.00083475 8847500 1317.91 1384.35 1313.63 1558.76 1595.09 2163.43 1964.42 1406.84 2244.01 1513.53 TRUE FALSE FALSE 1456.533821 1429.203848 1492.644655 1588.932054 1472.874549 1979.093593 1743.378292 1370.85507 2228.393752 1578.785685 0.92256589 0.905255135 0.945438427 1.006426691 0.932916078 1.253554305 1.104252659 0.868297124 1.411460575 1 10.62459963 SPSFGDPQLS(ph)PEARPR ddPTM_HeLa_SAHA_4h_R1 2 SPSFGDPQLSPEARPR 16 1 O95425-3;O95425-2 O95425-3 SVIL Supervillin 1 0 SPSFGDPQLS(1)PEARPR;SPSFGDPQLS(1)PEARPR ; 124.25 0.00028715 81401000 4358.5 4455.9 4004.9 4605.5 4530.5 5070.7 5083.1 4844.7 4161.4 4320.2 TRUE FALSE FALSE 4816.947028 4600.274084 4550.666915 4694.646112 4183.374069 4638.647833 4511.13621 4720.779589 4132.440479 4506.464965 1.068897032 1.020816565 1.009808564 1.041758041 0.928305024 1.029331831 1.001036565 1.047557149 0.917002686 1 12.13778046 -6.561606771 1.880291445 1.032513551 1.005700574 0 0.050401459 0.664048679 4.72738652 0.006420733 0.010018755 2.74E-07 6.561606771 -0.026812976 SPSGSAFGS(ph)QENLR ddPTM_HeLa_SAHA_4h_R1 4 SPSGSAFGSQENLR 14 0 Q96N67-2;Q96N67-6;Q96N67;Q96N67-4;Q96N67-3;Q96N67-5;A0A1B0GWE0 Q96N67-2 DOCK7 Dedicator of cytokinesis protein 7 1 0 SPSGS(0.001)AFGS(0.999)QENLR;SPSGSAFGS(1)QENLR;SPSGSAFGS(1)QENLR;SPSGS(0.004)AFGS(0.996)QENLR ;;; 152.07 6.05E-05 48323600 2323.57 2521.52 2158.26 2791.28 2802.24 2859.85 2861.97 2867.99 3061.68 2511.57 TRUE FALSE FALSE 2567.973754 2603.218902 2452.376433 2845.309261 2587.532977 2616.174691 2539.933603 2794.630969 3040.37352 2619.856074 0.9801965 0.993649586 0.936072961 1.086055562 0.987662262 0.998594815 0.969493564 1.06671164 1.160511659 1 11.35527184 -6.290345883 24.99983063 0.986962602 1.015628053 0 0.066135981 1094.580099 946647.1067 0.005347567 0.008169632 5.12E-07 6.290345883 0.028665451 SPSLS(ph)PSPPSPLEK ddPTM_HeLa_SAHA_4h_R1 1 SPSLSPSPPSPLEK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 S(0.001)PS(0.003)LS(0.995)PS(0.001)PPSPLEK 119.96 0.00031613 0 891.82 818.68 399.83 732.3 672.47 795.7 750.58 769.52 814.54 675.67 TRUE FALSE FALSE 985.6257194 845.2057692 454.3167502 746.4747254 620.9454939 727.9018835 666.122763 749.8367927 808.8715498 704.8014403 1.398444531 1.199211183 0.644602471 1.059127696 0.881021886 1.032775817 0.945121172 1.063897929 1.147658764 1 9.461073062 -6.893607271 20.73822349 1.194314426 0.943364618 0.412299724 0.145161211 2.884157701 550.54963 0.028979866 0.038087068 1.28E-07 6.893607271 -0.250949808 SPSLSPSPPS(ph)PLEK ddPTM_HeLa_SAHA_4h_R1 4 SPSLSPSPPSPLEK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 SPSLS(0.014)PS(0.423)PPS(0.563)PLEK;SPSLS(0.001)PS(0.102)PPS(0.898)PLEK;SPSLS(0.001)PS(0.057)PPS(0.942)PLEK;SPSLSPS(0.082)PPS(0.918)PLEK ;;; 152.34 5.83E-05 237625000 7205.67 9054.9 6638.12 8375.3 9112.1 10892.7 9718.3 9467.7 9854 7902.4 TRUE FALSE FALSE 7963.595431 9348.284701 7542.728424 8537.416042 8413.932867 9964.580679 8624.771307 9225.529943 9785.425212 8243.111137 0.966090994 1.134072384 0.915034178 1.035703134 1.020722968 1.208837357 1.0463005 1.119180585 1.187103394 1 13.00897323 -5.450862902 7.528242128 0.994921457 1.117265905 0.051937439 0.088676133 0.197419122 18.36038055 0.008617131 0.01929628 3.54E-06 5.450862902 0.122344448 SPSLSPSPPS(ph)PLEKTPLGER ddPTM_HeLa_SAHA_4h_R1 1 SPSLSPSPPSPLEKTPLGER 20 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 SPSLS(0.003)PS(0.105)PPS(0.89)PLEKT(0.002)PLGER 62.735 0.0074698 3041900 1017 631.84 909.83 885.97 842.9 1026.8 1043.3 1353.5 576.92 815.04 TRUE FALSE FALSE 1123.972726 652.3120306 1033.816894 903.1192305 778.3171841 939.3108634 925.9051382 1318.87943 572.9051667 850.1803631 1.322040328 0.767263111 1.215997145 1.062267808 0.915473019 1.104837166 1.089069071 1.551293687 0.67386309 1 9.731625127 -4.260114872 24.10155662 1.105454763 1.551293921 0.312946035 0.202267559 55.75270666 1014314.964 0.023125539 0.192075874 5.49E-05 4.260114872 0.445839158 SPSMAVPSPGWVAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 SPSMAVPSPGWVASPK 16 0 Q86UU0-3;Q86UU0-4;Q86UU0-2;Q86UU0;A0A087WZX0 Q86UU0-3 BCL9L B-cell CLL/lymphoma 9-like protein 1 0 SPSMAVPSPGWVAS(1)PK;SPSMAVPS(0.088)PGWVAS(0.912)PK ; 118.5 0.00080221 6882700 3668.2 3359.2 3226.8 3681.3 4085.7 4638.4 3970.1 3862 4110.5 3612.3 TRUE FALSE FALSE 4054.038106 3468.040284 3666.5315 3752.556885 3772.654549 4243.182225 3523.373899 3763.215632 4081.894696 3768.043931 1.075899905 0.920382126 0.973059648 0.995889898 1.00122361 1.126096803 0.935067097 0.998718619 1.083292756 1 11.87960007 -7.307514496 24.99994777 1.035841612 0.995486377 0.172113949 0.056601783 774.5114453 420241.237 0.009899052 0.011320019 4.93E-08 7.307514496 -0.040355235 SPSPGGPQLS(ph)PQLPR ddPTM_HeLa_SAHA_4h_R1 2 SPSPGGPQLSPQLPR 15 0 Q9HCH0;H7C1V4;Q9HCH0-2 Q9HCH0 NCKAP5L Nck-associated protein 5-like 1 0 SPS(0.005)PGGPQLS(0.995)PQLPR;SPSPGGPQLS(1)PQLPR ; 174.18 5.46E-07 60397000 716.7 1056.2 985.33 674.08 979.14 690.24 922.18 771.66 887.66 1177.47 TRUE FALSE FALSE 792.0857943 1090.421573 1119.605641 687.1277931 904.1185047 631.4276688 818.4138794 751.9220546 881.4827018 1228.236494 0.644896808 0.887794475 0.911555426 0.55944258 0.73611109 0.514092906 0.666332488 0.612196477 0.717681575 1 10.26237266 -13.52287875 0.181167882 2.333723307 0.605299662 0.13539076 0.141501639 34.14337537 0.393317013 16.18370847 0.162284537 3.00E-14 13.52287875 -1.728423645 SPSPPDGS(ph)PAATPEIR ddPTM_HeLa_SAHA_4h_R1 4 SPSPPDGSPAATPEIR 16 0 O00499-6;O00499-2;O00499;O00499-9;O00499-7;O00499-4;O00499-11;O00499-3;O00499-5;O00499-10;O00499-8 O00499-6 BIN1 Myc box-dependent-interacting protein 1 1 0 S(0.408)PS(0.133)PPDGS(0.46)PAATPEIR;SPSPPDGS(1)PAATPEIR;SPSPPDGS(0.998)PAAT(0.002)PEIR;SPS(0.332)PPDGS(0.668)PAATPEIR ;;; 207.21 1.54E-15 139299100 6149.34 7178.36 5989.77 6081.09 7172.95 7823.44 7358.54 6443.35 7927.2 6962.33 TRUE FALSE FALSE 6796.155795 7410.943574 6806.024662 6198.79829 6623.360121 7156.838899 6530.537713 6278.538437 7872.03397 7262.510119 0.935786069 1.020438313 0.937144947 0.853533859 0.911993238 0.985449766 0.899212201 0.864513554 1.083927436 1 12.82625255 -6.525614168 24.99098116 0.972929704 0.906572092 0.421293746 0.05251403 71.03960736 649020.0231 0.006714756 0.009527932 2.98E-07 6.525614168 -0.066357612 SPSPPT(ph)QHTGQPPGQPSAPSQLSAPR ddPTM_HeLa_SAHA_4h_R1 2 SPSPPTQHTGQPPGQPSAPSQLSAPR 26 0 Q68EM7-7;Q68EM7-3;Q68EM7-6;Q68EM7-5;Q68EM7;I3L460;Q68EM7-2 Q68EM7-7 ARHGAP17 Rho GTPase-activating protein 17 1 0 S(0.296)PS(0.296)PPT(0.364)QHT(0.044)GQPPGQPSAPSQLSAPR;S(0.048)PS(0.043)PPT(0.687)QHT(0.222)GQPPGQPSAPSQLSAPR ; 107.32 1.65E-06 28870000 2292.41 2337.29 1996.19 2149.34 1860.51 2273.54 2457.55 2420.43 2362.52 2211.86 TRUE FALSE FALSE 2533.536202 2413.01973 2268.220377 2190.943584 1717.958126 2079.821601 2181.020006 2358.518905 2346.079031 2307.224109 1.098088474 1.045854072 0.983094953 0.949601547 0.74459959 0.901438917 0.945300458 1.022232256 1.016840549 1 11.17194243 -6.413287506 2.400620876 1.047160425 0.903283111 0.427480784 0.069628814 0.212355261 2.397605769 0.012099549 0.01941694 3.86E-07 6.413287506 -0.143877314 SPSPPTQHT(ph)GQPPGQPSAPSQLSAPR ddPTM_HeLa_SAHA_4h_R1 2 SPSPPTQHTGQPPGQPSAPSQLSAPR 26 0 Q68EM7-7;Q68EM7-3;Q68EM7-6;Q68EM7-5;Q68EM7;I3L460;Q68EM7-2 Q68EM7-7 ARHGAP17 Rho GTPase-activating protein 17 1 0 S(0.016)PS(0.016)PPT(0.158)QHT(0.811)GQPPGQPSAPSQLSAPR;S(0.06)PS(0.026)PPT(0.084)QHT(0.827)GQPPGQPS(0.002)APS(0.001)QLSAPR ; 89.392 2.86E-05 366890000 687.86 780.42 476.73 753.34 995.41 1132.63 1028.8 845.35 907.37 851.36 TRUE FALSE FALSE 760.2122708 805.7061201 541.6962817 767.921985 919.1419008 1036.123552 913.0367163 823.7271711 901.0555383 888.0662961 0.85603099 0.907258978 0.609972796 0.864712453 1.034992438 1.166718697 1.028117743 0.927551439 1.014626433 1 9.794523571 -5.726502023 8.378811245 0.897336981 1.048139315 0.306225338 0.117856908 0.282729737 59.72445955 0.018460215 0.036721966 1.88E-06 5.726502023 0.150802335 SPSSESS(ph)PQHPTPPARPR ddPTM_HeLa_SAHA_4h_R1 2 SPSSESSPQHPTPPARPR 18 1 O14733;O14733-4;O14733-3;O14733-2 O14733 MAP2K7 Dual specificity mitogen-activated protein kinase kinase 7 1 0 SPSSES(0.007)S(0.99)PQHPT(0.003)PPARPR;S(0.003)PS(0.013)S(0.013)ES(0.054)S(0.856)PQHPT(0.062)PPARPR ; 136.33 6.97E-05 5406400 317.29 446.36 0 96.649 210.471 493.86 522.59 359.45 190.447 396.52 TRUE FALSE FALSE 350.664018 460.8223569 0 98.51978115 194.3447575 451.7803496 463.7867978 350.2557895 189.1216638 413.6159177 0.847801071 1.114131099 0 0.238191464 0.469867694 1.09227022 1.121298233 0.846814096 0.45723981 1 8.692147898 SPSSQETHDS(ph)PFCLR ddPTM_HeLa_SAHA_4h_R1 1 SPSSQETHDSPFCLR 15 0 Q8TB45-2;Q8TB45 Q8TB45-2 DEPTOR DEP domain-containing mTOR-interacting protein 1 0 SPSSQET(0.29)HDS(0.71)PFCLR 88.471 0.0071182 2085500 1418 1613.9 1407.3 1247.2 1650.4 1940.9 1730.8 1527.8 2146.6 1637.6 TRUE FALSE FALSE 1567.151746 1666.191419 1599.079515 1271.341359 1523.946709 1775.524401 1536.045829 1488.721088 2131.661636 1708.20495 0.917426065 0.975404865 0.936116896 0.744255752 0.892133411 1.039409469 0.899216355 0.871511986 1.247895714 1 10.73826536 -9.039788642 0.450580238 1.017596885 0.903407731 0.272508209 0.106359912 2.28103566 0.702547308 0.118622929 0.023343513 9.12E-10 9.039788642 -0.114189155 SPSTT(ph)YLHTPT(ph)PS(ph)EDAAIPS(ph)KSR ddPTM_HeLa_SAHA_4h_R1 1 SPSTTYLHTPTPSEDAAIPSKSR 23 1 Q13111 Q13111 CHAF1A Chromatin assembly factor 1 subunit A 4 0 S(0.007)PS(0.059)T(0.179)T(0.666)Y(0.055)LHT(0.128)PT(0.899)PS(0.843)EDAAIPS(0.582)KS(0.581)R 48.371 0.018258 1996400 331.14 525.96 532.5 500.55 502.4 629.24 537.81 537.52 577.04 513.93 TRUE FALSE FALSE 365.9708245 543.0014491 605.0663269 510.2388691 463.9062205 575.625212 477.2942034 523.7710167 573.0243317 536.0880374 0.682669261 1.012896038 1.128669705 0.951781859 0.865354547 1.073751272 0.890328025 0.977024258 1.06889968 1 9.066326132 -7.153513935 22.22407805 0.849997692 0.98497552 0 0.12335379 15.53973226 3184.736572 0.022587948 0.027664498 7.02E-08 7.153513935 0.134977828 SPT(ph)GPSNSFLANMGGTVAHK ddPTM_HeLa_SAHA_4h_R1 2 SPTGPSNSFLANMGGTVAHK 20 0 H0Y6J6;Q5W012;Q96I25 H0Y6J6 RBM17 Splicing factor 45 1 0 S(0.434)PT(0.534)GPS(0.021)NS(0.01)FLANMGGTVAHK;S(0.268)PT(0.342)GPS(0.306)NS(0.084)FLANMGGTVAHK ; 116.7 0.00027922 19617600 1283 2300.95 1152.24 1935.17 2016.07 2679.09 2292.57 1903.68 2867.52 1913.18 TRUE FALSE FALSE 1417.951827 2375.50229 1309.261267 1972.628014 1861.599152 2450.81646 2034.60399 1854.986622 2847.564695 1995.666553 0.710515404 1.190330262 0.656052117 0.988455717 0.932820741 1.228069116 1.019510994 0.929507297 1.426873989 1 10.96265497 -6.0181471 23.77368664 0.873114402 1.0311614 0 0.235763192 543.7466615 712339.2715 0.025143804 0.0422784 9.59E-07 6.0181471 0.158046998 SPT(ph)SPLNMK ddPTM_HeLa_SAHA_4h_R1 1 SPTSPLNMK 9 0 A0A0A0MRP6;B7ZLQ5;P28370-2;P28370 A0A0A0MRP6 SMARCA1 Probable global transcription activator SNF2L1 1 0 SPT(0.795)S(0.204)PLNMK 108.43 0.011832 20645000 4635.2 4022.9 3669.7 3663.4 4605.7 4631.7 4521.7 4374.1 3656.5 4119.5 TRUE FALSE FALSE 5122.751603 4153.2446 4169.787605 3734.310404 4252.812261 4237.053103 4012.906416 4262.216856 3631.054119 4297.111805 1.192138309 0.966520023 0.970369819 0.869027983 0.989690856 0.986023472 0.9338613 0.991879441 0.844998753 1 12.0691516 -7.129675623 8.362587494 1.090661163 0.955774766 0 0.095114893 0.221194908 14.03556396 0.012797594 0.015689011 7.42E-08 7.129675623 -0.134886397 SPTAALNES(ph)LVECPK ddPTM_HeLa_SAHA_4h_R1 1 SPTAALNESLVECPK 15 0 Q53EZ4 Q53EZ4 CEP55 Centrosomal protein of 55 kDa 1 0 SPTAALNES(1)LVECPK 174.59 5.24E-07 6562200 1242.5 997.27 826.03 1101 1041.8 1151.5 1057.8 1208.8 937.77 937.55 TRUE FALSE FALSE 1373.191851 1029.582202 938.5970666 1122.311447 961.9775091 1053.385722 938.77356 1177.880646 931.2439822 977.9723688 1.404121317 1.052772282 0.959737817 1.147590139 0.983644876 1.077111947 0.959918286 1.204410967 0.952219114 1 9.933649894 -7.063102346 24.99689392 1.192814672 1.049082796 0 0.139479513 308.1136805 122053.0717 0.026708322 0.0327109 8.65E-08 7.063102346 -0.143731876 SPTEYHEPVYANPFYRPT(ph)TPQR ddPTM_HeLa_SAHA_4h_R1 1 SPTEYHEPVYANPFYRPTTPQR 22 1 S4R313;Q9NP74-2;Q9NP74;Q9NP74-3 S4R313 PALMD Palmdelphin 1 0 SPTEYHEPVYANPFY(0.113)RPT(0.444)T(0.444)PQR 77.031 0.00050494 12150000 1829.8 2505.1 1479.9 2276.6 2849.3 3557.1 2218.7 2412.4 2799.4 2578.4 TRUE FALSE FALSE 2022.266759 2586.266884 1681.573065 2320.666885 2630.98725 3254.015068 1969.046037 2350.694301 2779.918747 2689.567442 0.751892935 0.961592129 0.625220635 0.862840191 0.978219474 1.209865578 0.732105098 0.874004594 1.033593248 1 11.39315845 SPTEYHEPVYANPFYRPTT(ph)PQR ddPTM_HeLa_SAHA_4h_R1 1 SPTEYHEPVYANPFYRPTTPQR 22 1 S4R313;Q9NP74-2;Q9NP74;Q9NP74-3 S4R313 PALMD Palmdelphin 1 0 SPTEYHEPVYANPFY(0.246)RPT(0.308)T(0.446)PQR 82.475 0.00092287 9391700 700.77 866.84 478.59 891.63 1004.6 1212.9 934.96 827.62 1116.5 812.45 TRUE FALSE FALSE 774.4802038 894.9261848 543.8097528 908.888788 927.627765 1109.554096 829.7558401 806.4506788 1108.730186 847.4786955 0.913863921 1.055986645 0.641679556 1.072462108 1.094573551 1.309241285 0.979087551 0.951588144 1.308269094 1 9.727033291 -6.033786051 24.99971204 0.941579948 1.09117741 0.043532663 0.179243922 710.9772128 526081.0801 0.020162718 0.033449265 9.25E-07 6.033786051 0.149597462 SPTS(ph)PLNMK ddPTM_HeLa_SAHA_4h_R1 1 SPTSPLNMK 9 0 A0A0A0MRP6;B7ZLQ5;P28370-2;P28370 A0A0A0MRP6 SMARCA1 Probable global transcription activator SNF2L1 1 0 S(0.001)PT(0.06)S(0.938)PLNMK 119.03 0.0038023 21738000 6293.1 5429.7 4856.6 3862.7 5858 5849.8 6002.5 5525.3 4334.4 5460.1 TRUE FALSE FALSE 6955.037132 5605.625843 5518.432156 3937.468144 5409.161306 5351.36413 5327.082902 5383.970827 4304.236557 5695.511632 1.221143522 0.984218136 0.968908943 0.69132826 0.949723511 0.939575665 0.935312444 0.945300646 0.755724303 1 12.47560973 -6.917029856 2.978343323 1.104214072 0.899180607 0 0.142493695 0.183838507 3.309223581 0.018204404 0.024275085 1.21E-07 6.917029856 -0.205033465 SPVDES(ph)GDEVQYGDVPVENGMAPFFEMK ddPTM_HeLa_SAHA_4h_R1 3 SPVDESGDEVQYGDVPVENGMAPFFEMK 28 0 Q8WX93-3;Q8WX93;Q8WX93-8;Q8WX93-2;Q8WX93-9;Q8WX93-5;Q8WX93-4;D6R9F5;F8WA26 Q8WX93-3 PALLD Palladin 1 0 S(0.014)PVDES(0.986)GDEVQYGDVPVENGMAPFFEMK;S(0.004)PVDES(0.993)GDEVQY(0.003)GDVPVENGMAPFFEMK;S(0.036)PVDES(0.964)GDEVQYGDVPVENGMAPFFEMK ;; 87.996 4.59E-06 14541200 1824.74 2078.71 1891.63 2016.09 1941.77 2335.34 2417.8 2219.75 2163.95 1943.02 TRUE FALSE FALSE 2016.674525 2146.061568 2149.411485 2055.114337 1792.992002 2136.355894 2145.742781 2162.972009 2148.890896 2026.793101 0.995007593 1.058845901 1.060498718 1.013973422 0.884644812 1.054057216 1.058688615 1.067189349 1.060241864 1 10.98498311 -5.034706832 24.99944989 1.000667506 1.061297594 0.157406226 0.04921983 590.315858 425206.2898 0.006419979 0.016376113 9.23E-06 5.034706832 0.060630088 SPVDIVTGGIS(ph)PVRDLDR ddPTM_HeLa_SAHA_4h_R1 2 SPVDIVTGGISPVRDLDR 18 1 E9PEM5;A0A494C1L5;P50851-2;P50851;A0A494C0R9;H0YAC6;A0A494BZW2;H0Y9N9 E9PEM5 LRBA Lipopolysaccharide-responsive and beige-like anchor protein 1 0 SPVDIVTGGIS(1)PVRDLDR;SPVDIVT(0.004)GGIS(0.996)PVRDLDR ; 81.017 0.0037821 4448500 1142.81 1057.94 964.9 1340.15 1342.61 1121.38 1459.08 1410.53 1334.74 1512.96 TRUE FALSE FALSE 1263.015999 1092.21795 1096.391547 1366.090541 1239.739512 1025.832115 1294.900478 1374.450685 1325.451436 1578.19111 0.800293444 0.692069511 0.694714056 0.86560527 0.785544605 0.650005002 0.820496624 0.870902565 0.839854836 1 10.6240562 -8.79322499 0.75981748 0.99635563 0.768101301 0.258887216 0.084674553 0.345165049 0.383987962 0.04285152 0.015761581 1.61E-09 8.79322499 -0.228254328 SPVGKS(ph)PPSTGSTYGSSQK ddPTM_HeLa_SAHA_4h_R1 1 SPVGKSPPSTGSTYGSSQK 19 1 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 S(0.255)PVGKS(0.742)PPS(0.002)T(0.002)GSTYGSSQK 82.865 0.0023914 16801000 764.5 1037.9 792.38 977.36 1104.7 1280.7 967.6 898.99 1180.5 1169.5 TRUE FALSE FALSE 844.9136177 1071.528641 900.3614199 996.2782161 1020.058125 1171.577155 858.7231014 875.9951375 1172.284804 1219.922868 0.692595933 0.878357697 0.738047825 0.816673121 0.836166082 0.960369861 0.703915898 0.7180742 0.960949938 1 10.25257422 -9.501615393 1.227432133 1.000913264 0.787099884 0.458577879 0.081058275 0.332078046 0.889232901 0.060018014 0.014287627 3.15E-10 9.501615393 -0.21381338 SPVPSPGSS(ph)SPQLQVK ddPTM_HeLa_SAHA_4h_R1 1 SPVPSPGSSSPQLQVK 16 0 Q8N3F8 Q8N3F8 MICALL1 MICAL-like protein 1 1 0 SPVPS(0.001)PGS(0.263)S(0.655)S(0.081)PQLQVK 97.073 0.0046901 15100000 1312.1 1359.9 1721.4 1696.3 1080.3 1083.7 1153.8 1364.6 1660.5 1026.7 TRUE FALSE FALSE 1450.112698 1403.961652 1955.983427 1729.134339 997.5276474 991.3626633 1023.971387 1329.695508 1648.944445 1070.966062 1.354023017 1.310930106 1.826372933 1.614555682 0.931427879 0.925671409 0.956119362 1.241585103 1.539679458 1 10.06469705 SPVPSPGSSS(ph)PQLQVK ddPTM_HeLa_SAHA_4h_R1 1 SPVPSPGSSSPQLQVK 16 0 Q8N3F8 Q8N3F8 MICALL1 MICAL-like protein 1 1 0 SPVPSPGS(0.043)S(0.221)S(0.736)PQLQVK 148.18 7.31E-05 14250000 1015.6 1328.4 792.7 1159.3 1162.4 1434.2 1239.4 1330.5 1493.2 1187.4 TRUE FALSE FALSE 1122.425468 1371.441032 900.7250278 1181.739928 1073.337163 1311.998091 1099.93945 1296.467737 1482.8087 1238.594625 0.906208896 1.107255759 0.727215353 0.954097413 0.866576636 1.059263511 0.888054435 1.046724821 1.197170301 1 10.27448838 -4.234299595 21.9183376 0.947225973 1.046725552 0.012335558 0.127890222 3053.67384 2465961.476 0.012755524 1.083439761 5.83E-05 4.234299595 0.099499578 SPYGGGRPGR ddPTM_HeLa_SAHA_4h_R1 1 SPYGGGRPGR 10 1 P46781 P46781 RPS9 40S ribosomal protein S9 0 0 82.749 0.020994 809710 313.27 237.28 269.91 292.82 351.78 448.49 255.96 296.57 249.19 187.84 FALSE FALSE TRUE 346.2211759 244.9680277 306.6919292 298.4879545 324.8266924 410.2761289 227.1587072 288.9841688 247.4558665 195.9387017 1.76698719 1.25022788 1.565244265 1.523374157 1.657797513 2.093900416 1.159335574 1.474870285 1.262924907 1 7.614258576 -9.439171795 1.051858023 0.984234158 1.576818057 0.289244228 0.257508374 0.423686172 0.801626727 0.194458982 0.043609162 3.64E-10 9.439171795 0.592583899 SQAAPGSS(ph)PCR ddPTM_HeLa_SAHA_4h_R1 5 SQAAPGSSPCR 11 0 Q8N556;Q8N556-2 Q8N556 AFAP1 Actin filament-associated protein 1 1 0 SQAAPGS(0.082)S(0.918)PCR;SQAAPGS(0.036)S(0.964)PCR;SQAAPGS(0.202)S(0.798)PCR;SQAAPGS(0.236)S(0.764)PCR;SQAAPGS(0.071)S(0.929)PCR ;;;; 140.33 0.00090169 128341100 11403.44 11768.55 8012.71 12532.41 12783.25 13708.5 11900.4 11427.9 14658.7 12286.93 TRUE FALSE FALSE 12602.90614 12149.85874 9104.64039 12774.99292 11803.80015 12540.45868 10561.33567 11135.59087 14556.68891 12816.67968 0.983320677 0.947972411 0.710374342 0.99674746 0.920971768 0.978448318 0.824030555 0.868835856 1.135761311 1 13.64573494 -6.993701337 24.99429361 0.99073013 0.886532081 0.348548192 0.088435364 148.972343 591146.4254 0.011770932 0.015448875 1.01E-07 6.993701337 -0.104198049 SQALGQS(ph)APSLTASLK ddPTM_HeLa_SAHA_4h_R1 2 SQALGQSAPSLTASLK 16 0 O15021;H7C0U3;H7C2V7;H7C3S4;E7EX28;O15021-4 O15021 MAST4 Microtubule-associated serine/threonine-protein kinase 4 1 0 S(0.083)QALGQS(0.823)APS(0.086)LT(0.007)ASLK;SQALGQS(0.86)APS(0.139)LTASLK ; 130.09 0.00015658 6960800 1879.97 1742.84 2133.1 1792.52 2350.34 2177.83 2246.5 2071.22 1743.75 1871.81 TRUE FALSE FALSE 2077.71387 1799.30916 2423.787759 1827.216817 2170.257457 1992.266632 1993.717908 2018.241191 1731.615102 1952.51289 1.064122998 0.921535099 1.241368378 0.935828299 1.111520169 1.020360297 1.021103583 1.033663441 0.886864876 1 10.93111636 -1.795415293 21.93602164 1.035344708 0.301449966 0 0.097805145 0 0 0.009889962 0 0.01601713 1.795415293 -0.733894742 SQANGAGALSYVS(ph)PNTSK ddPTM_HeLa_SAHA_4h_R1 2 SQANGAGALSYVSPNTSK 18 0 O95453;O95453-2;A0A494C0W0;A0A494C0Q6;O95453-3;A0A494C0K5;A0A494C002;A0A494C1N1;A0A494C0Q2;A0A494BZW7;A0A494C1K5;A0A494C0P9;A0A494BZU6;A0A494C156;A0A494C1G3;F5H1Z4 O95453 PARN Poly(A)-specific ribonuclease PARN 1 0 SQANGAGALSYVS(0.999)PNT(0.001)SK;SQANGAGALSYVS(0.992)PNT(0.007)SK ; 328.58 6.77E-121 35295000 3090.13 3467.37 2732.86 3071.26 3334.48 3674.86 3009.2 3029.59 4404.1 3061.97 TRUE FALSE FALSE 3415.164051 3579.715063 3105.279929 3130.708678 3078.992863 3361.741254 2670.596896 2952.097475 4373.45151 3193.986512 1.069248113 1.12076712 0.972227001 0.980188447 0.963996827 1.052522057 0.836132803 0.924267358 1.369276762 1 11.6411425 -4.82358204 0.735748483 1.03567363 0.849626222 0.221387627 0.120089806 1.073700918 0.639011916 0.010077807 0.140368857 1.50E-05 4.82358204 -0.186047407 SQAPLES(ph)SLDSLGDVFLDSGRK ddPTM_HeLa_SAHA_4h_R1 1 SQAPLESSLDSLGDVFLDSGRK 22 1 A0A087WY61;Q14980-5;Q14980-2;Q14980;H0YFY6 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 1 0 S(0.001)QAPLES(0.498)S(0.498)LDS(0.002)LGDVFLDSGRK 98.326 0.00011251 3108300 690.55 837.62 893.92 701.17 912.61 1019.5 1169.2 1056.6 999.18 805.28 TRUE FALSE FALSE 763.1852174 864.7594376 1015.738762 714.7421593 842.686019 932.6328644 1037.638539 1029.573702 992.226625 839.9995617 0.908554304 1.029476058 1.209213443 0.850883967 1.003198165 1.110277799 1.235284619 1.225683618 1.181222789 1 9.714244765 -5.039119461 2.304920529 0.974899449 1.233620799 0.282898327 0.11032113 0.172475953 1.77816927 0.013367582 0.04804804 9.14E-06 5.039119461 0.25872135 SQAPLESS(ph)LDSLGDVFLDSGRK ddPTM_HeLa_SAHA_4h_R1 1 SQAPLESSLDSLGDVFLDSGRK 22 1 A0A087WY61;Q14980-5;Q14980-2;Q14980;H0YFY6 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 1 0 SQAPLES(0.261)S(0.687)LDS(0.052)LGDVFLDSGRK 95.889 0.00012794 2322700 759.59 631.87 708.15 869.74 999.4 1078.9 1115.5 1225.7 944.41 827.3 TRUE FALSE FALSE 839.4871613 652.3430026 804.6529941 886.5750754 922.8261879 986.9716503 989.9810042 1194.348369 937.8377739 862.9689517 0.97278953 0.755928706 0.932424037 1.027354546 1.069361981 1.143693117 1.147180327 1.383999235 1.086757261 1 9.753164844 -4.183120744 0.720364703 0.965628509 1.642587109 0.694726927 0.085727542 1.267334959 0.426586122 0.013966783 0.712803315 6.56E-05 4.183120744 0.676958601 SQAQQPQKEAALS(ph)S ddPTM_HeLa_SAHA_4h_R1 2 SQAQQPQKEAALSS 14 1 Q3MHD2-2;Q3MHD2 Q3MHD2-2 LSM12 Protein LSM12 homolog 1 0 SQAQQPQKEAALS(0.588)S(0.412);SQAQQPQKEAALS(0.58)S(0.42) ; 127.57 0.00026895 3576000 2661.7 1190.4 2012.5 1718.47 1670.87 1449.27 1916.91 2562.2 676.39 1651.23 TRUE FALSE FALSE 2941.669818 1228.969741 2286.753019 1751.733472 1542.848302 1325.784043 1701.214242 2496.662634 671.6829469 1722.422606 1.707867632 0.713512315 1.327637602 1.017017232 0.895743179 0.769720531 0.987686898 1.449506425 0.38996408 1 10.75022344 -7.253743639 24.92722351 1.334270828 1.018472247 0 0.399410924 765.0692125 2478132.728 0.054626707 0.06622307 5.58E-08 7.253743639 -0.31579858 SQASMVINSDT(ph)DDEEEVSAALTLAHLK ddPTM_HeLa_SAHA_4h_R1 1 SQASMVINSDTDDEEEVSAALTLAHLK 27 0 Q14676;Q14676-3;Q14676-2;Q14676-4 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 1 0 S(0.002)QAS(0.006)MVINS(0.439)DT(0.466)DDEEEVS(0.084)AALT(0.002)LAHLK 53.361 0.014511 6450200 1655.1 2244 827.16 1191.9 1680.1 3798.6 1686.6 2167.3 5274.7 3064.6 TRUE FALSE FALSE 1829.191012 2316.707072 939.8810571 1214.970948 1551.371101 3474.93791 1496.819329 2111.863604 5237.992933 3196.729904 0.572206932 0.724711547 0.294013284 0.380066813 0.485299399 1.087028937 0.468234532 0.66063248 1.638547231 1 11.64238114 -9.110200823 0.75353521 1.016462194 0.579049775 0.424672829 0.293423317 0.649923923 0.632942164 0.17013377 0.043406251 7.76E-10 9.110200823 -0.437412419 SQASPS(ph)EDEETFELR ddPTM_HeLa_SAHA_4h_R1 1 SQASPSEDEETFELR 15 0 Q13829-2;Q13829 Q13829-2 TNFAIP1 BTB/POZ domain-containing adapter for CUL3-mediated RhoA degradation protein 2 1 0 SQAS(0.236)PS(0.764)EDEETFELR 144.08 0.00010669 4275400 700.9 583.79 687.03 695.7 719.94 1012.7 827.72 734.41 869.99 735.03 TRUE FALSE FALSE 774.6238778 602.705179 780.6548705 709.1662795 664.7783527 926.4122627 734.5827672 715.6248556 863.9356688 766.7207404 1.010307713 0.786081747 1.01817367 0.924934258 0.867041046 1.2082786 0.958083861 0.933357894 1.126793138 1 9.582557396 -3.240508038 13.68076402 0.98493727 0.978912995 0 0.115067188 0 0 0.013160986 0 0.000574767 3.240508038 -0.006024274 SQDADS(ph)PGSSGAPENLTFK ddPTM_HeLa_SAHA_4h_R1 3 SQDADSPGSSGAPENLTFK 19 0 A8MQ02;J3KN01;P55196-3;P55196;P55196-5;H0Y8L4;H0Y8U8;H0Y948 A8MQ02 MLLT4 Afadin 1 0 S(0.036)QDADS(0.964)PGSSGAPENLTFK;S(0.006)QDADS(0.977)PGS(0.009)S(0.009)GAPENLTFK;S(0.001)QDADS(0.801)PGS(0.148)S(0.05)GAPENLTFK ;; 187.06 9.77E-14 4889700 796.87 1111.63 952.181 855.56 1092.63 901.71 972.65 640.14 1197.95 869.62 TRUE FALSE FALSE 880.6884428 1147.647541 1081.939268 872.120601 1008.912925 824.8792351 863.2048621 623.7661457 1189.613368 907.113574 0.970868994 1.265164114 1.192727459 0.961423824 1.11222338 0.909345046 0.951595133 0.687638421 1.311427149 1 9.825139383 -3.761009111 1.130818294 1.026759339 0.062881683 0.393154781 0.138121008 3.142858076 1.491158843 0.016954885 4.734691172 0.000173377 3.761009111 -0.963877656 SQDAT(ph)FSPGSEQAEK ddPTM_HeLa_SAHA_4h_R1 3 SQDATFSPGSEQAEK 15 0 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 S(0.001)QDAT(0.894)FS(0.102)PGS(0.002)EQAEK;S(0.001)QDAT(0.757)FS(0.229)PGS(0.013)EQAEK;SQDAT(0.719)FS(0.234)PGS(0.047)EQAEK ;; 294.29 4.94E-83 59535900 5357.6 5428.5 4463.8 4936.6 5425 5245.5 5107 5125 6924.8 5756.3 TRUE FALSE FALSE 5921.13695 5604.386962 5072.103418 5032.155031 5009.337672 4798.55389 4532.346919 4993.909921 6876.609753 6004.482264 0.986119484 0.933367227 0.844719527 0.838066433 0.834266378 0.799161972 0.754827264 0.831697006 1.145246076 1 12.55182414 -6.770978786 1.124221704 0.99703694 0.801043751 0.787143746 0.051724401 0.071589582 0.180641452 0.004093347 0.006214043 1.69E-07 6.770978786 -0.195993189 SQDATFSPGS(ph)EQAEK ddPTM_HeLa_SAHA_4h_R1 1 SQDATFSPGSEQAEK 15 0 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 SQDAT(0.08)FS(0.12)PGS(0.8)EQAEK 140.49 0.00014763 5011500 1376.2 1341.8 1095.7 1278.8 1194.6 1380.1 1443.6 1343.6 1709.1 1877.7 TRUE FALSE FALSE 1520.95503 1385.2752 1245.01629 1303.553023 1103.070006 1262.507716 1281.162329 1309.232658 1697.206234 1958.656836 0.776529611 0.707257736 0.635647994 0.665534155 0.563176757 0.644578311 0.654102498 0.668433915 0.86651536 1 10.93564894 -8.149206115 0.497908091 1.005247532 0.622833578 0.836296985 0.049645343 0.148895666 0.085311274 0.02411711 0.012725536 7.09E-09 8.149206115 -0.382413953 SQDATFSPGSEQAEKS(ph)PGPIVSR ddPTM_HeLa_SAHA_4h_R1 3 SQDATFSPGSEQAEKSPGPIVSR 23 1 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 SQDAT(0.002)FS(0.203)PGS(0.034)EQAEKS(0.678)PGPIVS(0.083)R;SQDATFSPGSEQAEKS(0.998)PGPIVS(0.002)R;SQDATFS(0.015)PGS(0.296)EQAEKS(0.67)PGPIVS(0.019)R ;; 122.21 5.56E-06 196313000 5557.4 4833.05 5520 5258.17 5384.59 4366.86 6177.4 6068.01 5304.4 5269.8 TRUE FALSE FALSE 6141.95283 4989.643991 6272.236853 5359.949484 4972.023877 3994.778961 5482.302694 5912.799091 5267.486249 5497.006868 1.117326752 0.907701975 1.141027654 0.975066907 0.904496574 0.726718932 0.997325058 1.07563975 0.958246256 1 12.42443057 -6.013815571 6.705820443 1.049684625 0.91924627 0.141667098 0.10571869 0.165450758 35.62434394 0.015627951 0.027076577 9.69E-07 6.013815571 -0.130438355 SQDQDS(ph)EVNELSR ddPTM_HeLa_SAHA_4h_R1 2 SQDQDSEVNELSR 13 0 E7ERS3;Q86VM9 E7ERS3 ZC3H18 Zinc finger CCCH domain-containing protein 18 1 0 SQDQDS(1)EVNELSR;SQDQDS(1)EVNELSR ; 195.6 5.89E-08 19203000 940.93 1648.69 1251.83 1489.35 1826.93 1641.54 1661.67 1051.85 1659.78 1240.18 TRUE FALSE FALSE 1039.901335 1702.108638 1422.422873 1518.178523 1686.951018 1501.671557 1474.694518 1024.9452 1648.229456 1293.650229 0.803850462 1.315740994 1.099542087 1.173561824 1.304024055 1.160801833 1.139948407 0.792289273 1.274092037 1 10.33723189 -7.271057491 24.94361636 0.907373829 1.147523218 0 0.183295871 519.3264947 1346818.687 0.025234583 0.029055558 5.36E-08 7.271057491 0.240149389 SQDSMSSDTAR ddPTM_HeLa_SAHA_4h_R1 4 SQDSMSSDTAR 11 0 P25205;P25205-2;J3KQ69;A0A499FHX9;Q7Z6P5 P25205 MCM3 DNA replication licensing factor MCM3 0 0 ;;; ;;; 144.17 0.0044682 5663870 1483.6 1632.92 1492.07 1775.84 1675.89 1732.35 1887.13 1798.34 1828.33 1536.89 FALSE FALSE TRUE 1639.651855 1685.827679 1695.401529 1810.213951 1547.48367 1584.744034 1674.785166 1752.341067 1815.606503 1603.152849 1.022767015 1.051570148 1.057542037 1.129158678 0.965275189 0.988517118 1.04468215 1.09305926 1.132522394 1 10.64669627 -7.719283741 1.52433008 1.006973282 1.044834312 0 0.059258993 0.570294172 2.752030278 0.009677859 0.009482564 1.91E-08 7.719283741 0.037861031 SQDSYPGS(ph)PSLS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SQDSYPGSPSLSPR 14 0 A0A0D9SEU5;R4GMX8;Q6VN20-2;Q6VN20-3;Q6VN20 A0A0D9SEU5 RANBP10 Ran-binding protein 10 2 0 S(0.047)QDS(0.152)YPGS(0.799)PS(0.002)LS(1)PR 158.14 0.00016985 7171500 2578.3 2762.8 2570.6 2428 2540.3 2763.2 2996.5 2944.4 2437 2243 TRUE FALSE FALSE 2849.497424 2852.316533 2920.907981 2474.997451 2345.662763 2527.759815 2659.325934 2869.086511 2420.040719 2339.706707 1.21788659 1.219091489 1.248407748 1.057823805 1.002545642 1.08037465 1.136606535 1.226259045 1.034335078 1 11.19211198 -9.485522849 1.261474472 1.00097467 1.151635935 0.309200247 0.078132737 0.461644629 1.327732948 0.05880938 0.014758533 3.27E-10 9.485522849 0.150661264 SQDSYPGS(ph)PSLSPR ddPTM_HeLa_SAHA_4h_R1 2 SQDSYPGSPSLSPR 14 0 A0A0D9SEU5;R4GMX8;Q6VN20-2;Q6VN20-3;Q6VN20 A0A0D9SEU5 RANBP10 Ran-binding protein 10 1 0 SQDSYPGS(0.974)PS(0.026)LSPR;SQDSYPGS(0.994)PS(0.006)LSPR ; 257.46 1.35E-43 24453000 3387.5 3195.7 2946.7 3528.5 3943.7 3417.9 3522.3 3422.1 3600.4 3486.4 TRUE FALSE FALSE 3743.812792 3299.242777 3348.26093 3596.79922 3641.534558 3126.675691 3125.961534 3334.567637 3575.344523 3636.715766 1.029448831 0.907203914 0.920682601 0.989024013 1.001325039 0.85975256 0.859556186 0.91691731 0.983124542 1 11.82842046 -5.624581039 0.439555519 1.014396856 0.853245446 0.355353583 0.046863419 1.212878797 0.333414984 0.014639699 0.085506074 2.37E-06 5.624581039 -0.16115141 SQDVAVS(ph)PQQQQCSK ddPTM_HeLa_SAHA_4h_R1 5 SQDVAVSPQQQQCSK 15 0 H3BTD6;H3BQ37;H3BPW9;Q96F86 H3BTD6;H3BQ37 EDC3 Enhancer of mRNA-decapping protein 3 1 0 SQDVAVS(1)PQQQQCSK;SQDVAVS(1)PQQQQCSK;S(0.002)QDVAVS(0.998)PQQQQCSK;SQDVAVS(1)PQQQQCSK;SQDVAVS(1)PQQQQCSK ;;;; 278.72 3.22E-69 319660200 17315.2 17250.2 15633.99 17863.7 18383.9 15181.76 20927 18870.9 17742.2 16420.2 TRUE FALSE FALSE 19136.49218 17809.1178 17764.50874 18209.47774 16975.32955 13888.18864 18572.23888 18388.2097 17618.73059 17128.15518 1.11725355 1.039756915 1.037152487 1.063131292 0.99107752 0.810839725 1.084310522 1.073566272 1.028641462 1 14.06408215 -5.730750148 7.431074467 1.054331592 0.983557616 0.118612201 0.07502266 0.300557685 55.07563054 0.011755474 0.023301876 1.86E-06 5.730750148 -0.070773976 SQEDEIS(ph)SPVNK ddPTM_HeLa_SAHA_4h_R1 1 SQEDEISSPVNK 12 0 Q5UIP0;Q5UIP0-2;H7C2B5 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 SQEDEIS(0.796)S(0.204)PVNK 126.5 0.0012211 15336000 6016.1 5276.8 4243.4 5555.4 6533.8 6342.7 5647.7 7370.2 5392.8 6129.4 TRUE FALSE FALSE 6648.901001 5447.771782 4821.668453 5662.9328 6033.181656 5802.266277 5012.205932 7181.680956 5355.271066 6393.668431 1.039919582 0.852057288 0.754131764 0.885709489 0.943618162 0.907501904 0.783932728 1.123248888 0.837589738 1 12.64242821 -7.264738519 24.70816984 1.018850916 0.88559595 0 0.110780562 213.312355 1597552.456 0.015186686 0.017753352 5.44E-08 7.264738519 -0.133254966 SQEDEISS(ph)PVNK ddPTM_HeLa_SAHA_4h_R1 3 SQEDEISSPVNK 12 0 Q5UIP0;Q5UIP0-2;H7C2B5 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 SQEDEIS(0.143)S(0.857)PVNK;SQEDEIS(0.019)S(0.981)PVNK;SQEDEIS(0.136)S(0.864)PVNK ;; 195.87 1.59E-07 60279000 10809.4 10211.9 7105.6 8691.2 11297 11714.8 9930.2 11736.8 10922.5 10421.7 TRUE FALSE FALSE 11946.38229 10542.77226 8073.914164 8859.430744 10431.4263 10716.63313 8812.827761 11436.58965 10846.48943 10871.03049 1.098919031 0.969804313 0.742699983 0.814957768 0.959561866 0.985797358 0.810670872 1.05202443 0.997742527 1 13.40820108 -6.999398371 24.99686027 1.046061765 0.890859537 0.320157476 0.09005565 16.07236427 667743.4311 0.014670518 0.019185887 1.00E-07 6.999398371 -0.155202227 SQEEPKDT(ph)FEHDPSESIDEFNK ddPTM_HeLa_SAHA_4h_R1 2 SQEEPKDTFEHDPSESIDEFNK 22 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 S(0.001)QEEPKDT(0.933)FEHDPS(0.043)ES(0.022)IDEFNK;S(0.142)QEEPKDT(0.811)FEHDPS(0.032)ES(0.015)IDEFNK ; 96.55 0.00025698 52042200 1503.09 1989.51 1346.95 1550.43 1601.39 2240.01 1907.01 1861.11 2517.4 2095.18 TRUE FALSE FALSE 1661.191903 2053.971429 1530.505331 1580.440815 1478.691844 2049.148546 1692.428216 1813.505501 2499.881208 2185.513463 0.760092276 0.93981184 0.70029554 0.723143939 0.676587845 0.937605089 0.774384713 0.829784639 1.143841596 1 11.09375655 -9.375291762 0.706872653 1.027372358 0.787733553 0.544714628 0.097161003 0.691159031 0.501983029 0.103064828 0.017313178 4.21E-10 9.375291762 -0.239638805 SQEEPKDTFEHDPSES(ph)IDEFNK ddPTM_HeLa_SAHA_4h_R1 1 SQEEPKDTFEHDPSESIDEFNK 22 1 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 SQEEPKDTFEHDPS(0.435)ES(0.565)IDEFNK 131.18 1.45E-06 7823000 1345.7 1444.5 1455.4 1231 1596 1552.9 1636.9 1790.6 1355.9 1191.1 TRUE FALSE FALSE 1487.2469 1491.302748 1653.734333 1254.827785 1473.714825 1420.584184 1452.711704 1744.799045 1346.464182 1242.45415 1.197023568 1.200287952 1.331022422 1.009959027 1.18613216 1.143369503 1.169227616 1.404316646 1.083713376 1 10.2789769 -9.135316637 0.666354501 0.983017123 1.201113203 0.271707496 0.102885535 0.769019479 0.551781602 0.095563949 0.02115137 7.32E-10 9.135316637 0.218096079 SQEPIPDDQKVS(ph)DDDKEKGEGALPTGK ddPTM_HeLa_SAHA_4h_R1 1 SQEPIPDDQKVSDDDKEKGEGALPTGK 27 3 Q86UE4;E5RJU9;H0YBJ8 Q86UE4 MTDH Protein LYRIC 1 0 S(0.001)QEPIPDDQKVS(0.966)DDDKEKGEGALPT(0.033)GK 47.919 0.010189 17156000 1912.7 4545.8 2321.8 2228.7 2240.1 2243.7 2698.6 2132.5 2472.7 2452.7 TRUE FALSE FALSE 2113.886562 4693.086903 2638.202813 2271.839711 2068.464022 2052.524137 2394.946426 2077.953738 2455.492279 2558.4479 0.826237877 1.834349217 1.031173163 0.887975757 0.808483933 0.802253639 0.936093491 0.812193103 0.959758563 1 11.32105314 -6.126356196 4.661872128 1.006456558 0.844802474 0.142682315 0.270832783 0.553834229 18.72161954 0.044190753 0.074686088 7.48E-07 6.126356196 -0.161654084 SQESGYYDRMDYEDDRLR ddPTM_HeLa_SAHA_4h_R1 4 SQESGYYDRMDYEDDRLR 18 2 A0A0R4J2E8;A8MXP9;P43243;D6REM6;D6R991 A0A0R4J2E8 MATR3 Matrin-3 0 0 ;;; ;;; 63.462 0.010606 38077500 9244.2 4537.94 8571.6 6979.2 7060.5 6721.1 9416.7 6905.4 3354.49 7169.2 FALSE FALSE TRUE 10216.54737 4684.972233 9739.693009 7114.292508 6519.526015 6148.424468 8357.108133 6728.769867 3331.145831 7478.299297 1.366159198 0.626475626 1.302394117 0.951324924 0.871792604 0.822168815 1.117514531 0.899772742 0.44544163 1 12.8684945 -7.286832218 24.99457619 1.172908495 0.955366277 0 0.296508663 905.7070244 891499.4302 0.034731032 0.039724377 5.17E-08 7.286832218 -0.217542218 SQETECTYFSTPLLLGK ddPTM_HeLa_SAHA_4h_R1 1 SQETECTYFSTPLLLGK 17 0 P40926;P40926-2;G3XAL0 P40926 MDH2 "Malate dehydrogenase, mitochondrial;Malate dehydrogenase" 0 0 180.78 1.29E-08 41203000 820.29 1041.8 696.9 1004.5 1051.9 1035.1 649.41 1112.7 1101.3 889.48 FALSE FALSE TRUE 906.5718658 1075.555004 791.8699027 1023.94355 971.3036493 946.9036567 576.3366776 1084.238745 1093.635964 927.8298358 0.977088504 1.159215798 0.853464582 1.103589808 1.046855373 1.020557456 0.621166356 1.168574994 1.178703165 1 9.857716429 SQETPATK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 SQETPATKK 9 1 M0QXK2;M0R221;M0R2B8;M0QZG7;M0R268;P09012 M0QXK2 SNRPA U1 small nuclear ribonucleoprotein A 0 1 ; SQETPATK(1)K;SQETPATK(1)K 172.98 2.05E-11 5954000 3751.9 3619.3 3474.1 5113 5072.8 5151.6 5569.7 6160.7 3594.4 2990.8 FALSE TRUE FALSE 4146.542056 3736.567695 3947.532256 5211.969509 4684.12316 4712.654698 4942.982697 6003.118215 3569.386278 3119.748025 1.329127232 1.19771458 1.265336888 1.670637971 1.501442784 1.510588246 1.584417286 1.924231754 1.144126465 1 11.6072138 -1 0.1120293 0.795248423 3.872260223 0.800872529 0.117430131 30.85324023 0.241313759 0.655094482 14.76443057 0.1 1 3.0770118 SQGDEAGGHGEDRPEPLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SQGDEAGGHGEDRPEPLSPK 20 1 Q9NZT2-2;Q9NZT2;A0A0A0MRN5 Q9NZT2-2 OGFR Opioid growth factor receptor 1 0 SQGDEAGGHGEDRPEPLS(1)PK 47.688 0.016871 82356000 2344.1 2761.9 1891.9 2288.1 2598.2 3055.6 2873.8 3171.3 2651.3 2336.1 TRUE FALSE FALSE 2590.663193 2851.387372 2149.718279 2332.389484 2399.126477 2795.24569 2550.432461 3090.182738 2632.849387 2436.820704 1.063132462 1.170126045 0.882181556 0.95714448 0.984531391 1.147087139 1.046622945 1.268120684 1.080444443 1 11.25078439 SQGGEEEGPLS(ph)DK ddPTM_HeLa_SAHA_4h_R1 1 SQGGEEEGPLSDK 13 0 E9PR76;E9PSH4;Q9H063 E9PR76 MAF1 Repressor of RNA polymerase III transcription MAF1 homolog 1 0 S(0.275)QGGEEEGPLS(0.725)DK 133.04 0.00063362 54522000 1919 2225.2 1984.1 1997.7 2798.7 2918.4 2975.6 2601.7 2472.5 2616.8 TRUE FALSE FALSE 2120.849225 2297.29794 2254.482815 2036.368372 2584.264211 2669.735902 2640.777657 2535.152281 2455.293671 2729.623054 0.776975129 0.841617284 0.825931922 0.746025488 0.946747649 0.978060285 0.967451404 0.928755447 0.89949917 1 11.41448602 -5.553549034 24.99146448 0.871731967 0.95958856 0.343324466 0.06809033 281.7627547 229591.5348 0.01413724 0.028274705 2.80E-06 5.553549034 0.087856593 SQGS(ph)GNEAEPLGK ddPTM_HeLa_SAHA_4h_R1 4 SQGSGNEAEPLGK 13 0 B8ZZZ7;Q9NUQ6-2;Q9NUQ6;Q9NUQ6-4;Q9NUQ6-3 B8ZZZ7 SPATS2L SPATS2-like protein 1 0 SQGS(1)GNEAEPLGK;SQGS(1)GNEAEPLGK;S(0.041)QGS(0.959)GNEAEPLGK;SQGS(1)GNEAEPLGK ;;; 151.48 0.00015264 28140900 7898.2 6686.8 6469.9 7325.4 6754.6 8861.7 6962.6 6007.21 6359 6423.6 TRUE FALSE FALSE 8728.968914 6903.456707 7351.584278 7467.19371 6237.064007 8106.633305 6179.149923 5853.554267 6314.747201 6700.552832 1.302723691 1.030281662 1.097160856 1.114414571 0.930828271 1.209845442 0.922185091 0.873592734 0.942421821 1 12.71006442 -3.140746591 0.58468484 1.131099467 2.54E-13 0.138732118 0.121473721 10.81378333 0.95368142 0.023897991 11.19845131 0.000723192 3.140746591 -1.131099467 SQGS(ph)PEDSAPQASPGPSK ddPTM_HeLa_SAHA_4h_R1 1 SQGSPEDSAPQASPGPSK 18 0 Q9P107;Q9P107-2 Q9P107 GMIP GEM-interacting protein 1 0 SQGS(0.551)PEDS(0.4)APQAS(0.049)PGPSK 166.38 8.75E-20 0 896.21 787.92 886.15 740.16 1028.6 1072.2 880.89 857.19 665.62 875.9 TRUE FALSE FALSE 990.4774798 813.449125 1006.909907 754.4868671 949.7888902 980.842528 781.7699388 835.264321 660.9878962 913.6643356 1.084071514 0.890315068 1.102056705 0.825781239 1.039538103 1.073526119 0.855642393 0.914191666 0.72344719 1 9.835520431 -7.27391736 24.91020478 1.039700436 0.961526861 0 0.133749541 1043.027665 2082226.315 0.014846213 0.017036131 5.32E-08 7.27391736 -0.078173575 SQGS(ph)SQFR ddPTM_HeLa_SAHA_4h_R1 1 SQGSSQFR 8 0 Q15172 Q15172 PPP2R5A Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform 1 0 S(0.019)QGS(0.873)S(0.109)QFR 91.469 0.01689 29745000 1167.5 1257.1 1143.8 1494.3 1321.5 1878.9 1712.9 1653.3 1469.4 1671.8 TRUE FALSE FALSE 1290.303007 1297.830865 1299.671107 1523.224337 1220.246955 1718.80715 1520.159984 1611.01098 1459.174326 1743.87948 0.739903773 0.744220504 0.745275762 0.873468812 0.699731243 0.98562267 0.871711607 0.923808668 0.83674035 1 10.76808462 SQGSPEDSAPQAS(ph)PGPSK ddPTM_HeLa_SAHA_4h_R1 1 SQGSPEDSAPQASPGPSK 18 0 Q9P107;Q9P107-2 Q9P107 GMIP GEM-interacting protein 1 0 SQGSPEDSAPQAS(1)PGPSK 242.8 1.67E-37 3045700 733.92 970.07 550.88 843.92 705.38 819.15 851.72 937.05 892.03 660.22 TRUE FALSE FALSE 811.1170729 1001.500904 625.9510575 860.2552919 651.3339368 749.3538116 755.882224 913.0816178 885.8222906 688.6853152 1.177776054 1.454221373 0.908907223 1.249126811 0.94576423 1.088093205 1.097572734 1.325832855 1.286251167 1 9.427701105 -9.242797689 1.110702936 1.004466169 1.149599493 0 0.178154157 0.812242026 1.873939776 0.08484687 0.026388184 5.72E-10 9.242797689 0.145133323 SQIDVALS(ph)QDS(ph)TYQGER ddPTM_HeLa_SAHA_4h_R1 1 SQIDVALSQDSTYQGER 17 0 Q92900-2;Q92900 Q92900-2 UPF1 Regulator of nonsense transcripts 1 2 0 SQIDVALS(1)QDS(0.999)T(0.001)YQGER 157.73 7.60E-05 3009900 1119.6 1466.1 1086.4 1094 1485.9 1426.8 1410 1645.7 1214.9 1022.2 TRUE FALSE FALSE 1237.364665 1513.602602 1234.448934 1115.175952 1372.050663 1305.228613 1251.343089 1603.605377 1206.445412 1066.272045 1.160458695 1.419527605 1.157724186 1.045864381 1.286773549 1.224104692 1.173568317 1.503936435 1.131461167 1 10.05835985 -13.52287874 0.066321944 0.073951556 1.593800818 0.261722371 0.127478012 183.870481 0.951147412 26.71877034 4.243928855 3.00E-14 13.52287874 1.519849262 SQIDVALS(ph)QDSTYQGER ddPTM_HeLa_SAHA_4h_R1 4 SQIDVALSQDSTYQGER 17 0 Q92900-2;Q92900 Q92900-2 UPF1 Regulator of nonsense transcripts 1 1 0 SQIDVALS(0.978)QDS(0.022)TYQGER;SQIDVALS(0.985)QDS(0.008)T(0.007)YQGER;SQIDVALS(0.816)QDS(0.139)T(0.046)YQGER;SQIDVALS(0.942)QDS(0.058)TYQGER ;;; 296.73 1.21E-86 125419000 3545.31 3593.91 3334.42 3622.93 3821.68 4114.62 3956.11 4042.3 4142.98 3456.8 TRUE FALSE FALSE 3918.221972 3710.355042 3788.817393 3693.057049 3528.863704 3764.031228 3510.958091 3938.903819 4114.148665 3605.839565 1.086632364 1.02898506 1.050744861 1.024187844 0.978652444 1.043870965 0.973686718 1.092368018 1.140968307 1 11.81611949 -6.098042513 6.411545726 1.041459524 1.018030554 0.067726575 0.048598539 0.569340978 31.51159953 0.00633344 0.010582472 7.98E-07 6.098042513 -0.02342897 SQIDVALSQDS(ph)TYQGER ddPTM_HeLa_SAHA_4h_R1 4 SQIDVALSQDSTYQGER 17 0 Q92900-2;Q92900 Q92900-2 UPF1 Regulator of nonsense transcripts 1 1 0 SQIDVALS(0.458)QDS(0.541)T(0.001)YQGER;SQIDVALS(0.231)QDS(0.768)T(0.001)YQGER;SQIDVALS(0.133)QDS(0.867)TYQGER;SQIDVALS(0.231)QDS(0.598)T(0.171)YQGER ;;; 329.6 4.33E-120 126035000 4373.2 4736.45 4248.62 5257.42 5471.582 5813.021 5512.9 5414.78 5282.14 4800.21 TRUE FALSE FALSE 4833.193241 4889.914088 4827.599808 5359.184966 5052.350569 5317.718908 4892.573983 5276.277768 5245.381158 5007.170545 0.965254368 0.976582292 0.964137284 1.070302064 1.009023065 1.062020728 0.977113509 1.053744369 1.047573896 1 12.28977988 -6.277774347 24.8205469 0.98121181 1.03137603 0.267584093 0.034239288 504.5493326 766647.5222 0.004065507 0.006219162 5.28E-07 6.277774347 0.050164221 SQLDDHPES(ph)DDEENFIDANDDEDMEK ddPTM_HeLa_SAHA_4h_R1 3 SQLDDHPESDDEENFIDANDDEDMEK 26 0 Q03701 Q03701 CEBPZ CCAAT/enhancer-binding protein zeta 1 0 S(0.002)QLDDHPES(0.998)DDEENFIDANDDEDMEK;SQLDDHPES(1)DDEENFIDANDDEDMEK;SQLDDHPES(1)DDEENFIDANDDEDMEK ;; 123.29 1.26E-10 4812700 776.98 1209.83 463.004 1021.37 878.67 1643.04 1380.12 775 1232.07 1045.28 TRUE FALSE FALSE 858.7063213 1249.029286 526.0997739 1041.140093 811.3464944 1503.043749 1224.825265 755.1766222 1223.495925 1090.347136 0.78755315 1.145533605 0.482506677 0.954870296 0.7441176 1.378500203 1.123335151 0.692602014 1.122115961 1 10.09057181 SQLPTLEQDGGTQNPVS(ph)SPGMSQELR ddPTM_HeLa_SAHA_4h_R1 1 SQLPTLEQDGGTQNPVSSPGMSQELR 26 0 P46937-6;P46937-7;P46937;P46937-9;P46937-5;P46937-3;P46937-2;P46937-8;H0YCI3;P46937-4 P46937-6 YAP1 Transcriptional coactivator YAP1 1 0 SQLPTLEQDGGTQNPVS(0.545)S(0.368)PGMS(0.087)QELR 123.62 5.00E-08 12231000 1801.4 1810.9 1845.2 1827.4 2182.7 2194.9 2244.4 1854.3 2099.1 1877.8 TRUE FALSE FALSE 1990.879517 1869.574348 2096.654247 1862.771969 2015.461998 2007.882172 1991.854205 1806.869691 2084.492192 1958.761148 1.016397287 0.954467751 1.070398118 0.950994955 1.028947302 1.025077598 1.016894892 0.922455345 1.064189064 1 10.93572577 -4.257642881 24.60520948 1.007756313 0.922455304 0.337410761 0.037599999 215.3191468 1395412.701 0.003954969 0.039286266 5.53E-05 4.257642881 -0.085301009 SQLQALHIGLDS(ph)SSIGSGPGDAEADDGFPESR ddPTM_HeLa_SAHA_4h_R1 2 SQLQALHIGLDSSSIGSGPGDAEADDGFPESR 32 0 E9PF63;O75116;Q14DU5 E9PF63 ROCK2 Rho-associated protein kinase 2 1 0 SQLQALHIGLDS(0.447)S(0.106)S(0.447)IGSGPGDAEADDGFPESR;SQLQALHIGLDS(0.326)S(0.326)S(0.326)IGS(0.021)GPGDAEADDGFPESR ; 141.17 1.16E-14 6252800 1255.2 1872.222 1116.3 1627.3 2111.421 2561.51 1981.328 1803.17 1785.9 1549.3 TRUE FALSE FALSE 1387.227695 1932.883221 1268.423551 1658.798745 1949.644379 2343.254937 1758.383759 1757.047522 1773.471776 1616.097905 0.858380975 1.196018642 0.784868012 1.026422186 1.206390017 1.449946151 1.088042843 1.087216014 1.097378922 1 10.65829889 -5.851085515 4.001731979 0.943995498 1.217366942 0.322386517 0.145447746 0.150458461 4.556915638 0.020297747 0.038417007 1.41E-06 5.851085515 0.273371444 SQLS(ph)SEEEGAVMGK ddPTM_HeLa_SAHA_4h_R1 1 SQLSSEEEGAVMGK 14 0 Q5TB80-2;Q5TB80 Q5TB80-2 CEP162 Centrosomal protein of 162 kDa 1 0 SQLS(0.965)S(0.034)EEEGAVMGK 119.45 0.00095314 2346800 610.47 564.66 698.44 514.12 751.03 1108.9 657.04 430.64 442.52 479.73 TRUE FALSE FALSE 674.6820355 582.9553545 793.6197659 524.071536 693.4862437 1014.415481 583.10813 419.6248524 439.4404673 500.413508 1.348249047 1.164947279 1.585927944 1.047276957 1.385826387 2.027154474 1.165252577 0.838556205 0.878154687 1 8.966976924 -9.264047165 0.596906915 0.947508192 1.34487731 0.187999283 0.308246024 1.879823588 0.965479608 0.411559628 0.07060288 5.44E-10 9.264047165 0.397369117 SQMTQEAS(ph)DEAEDMKEAMNR ddPTM_HeLa_SAHA_4h_R1 1 SQMTQEASDEAEDMKEAMNR 20 1 Q9P0K7-3;Q9P0K7;Q9P0K7-2;Q9P0K7-4 Q9P0K7-3 RAI14 Ankycorbin 1 0 S(0.015)QMT(0.072)QEAS(0.913)DEAEDMKEAMNR 52.654 0.018988 3261600 661.43 637.35 707.05 842.57 841.83 839.65 684.91 787.1 802.89 732.57 TRUE FALSE FALSE 731.0022421 658.0005582 803.4030918 858.8791607 777.3291673 768.1070963 607.8421242 766.9671217 797.3026231 764.1546778 0.956615543 0.861082942 1.051361871 1.123959829 1.017240606 1.005172275 0.795443831 1.003680464 1.043378581 1 9.577720883 -4.84053775 24.99999973 0.990164108 0.89951319 0.199759121 0.080624038 35.70520788 11282.71217 0.010948238 0.032844733 1.44E-05 4.84053775 -0.090650919 SQNVMAAASIANIVK ddPTM_HeLa_SAHA_4h_R1 2 SQNVMAAASIANIVK 15 0 P17987;E7ERF2;F5GYL4;F5GZI8 P17987 TCP1 T-complex protein 1 subunit alpha 0 0 ; ; 183.06 3.79E-16 1277040 580.41 674.85 757.22 783.32 842.39 677.31 963.62 440.74 651.18 688.75 FALSE FALSE TRUE 641.4601868 696.7155828 860.4099982 798.4822913 777.8462602 619.5993776 855.1909415 429.466509 646.6483854 718.4453832 0.892844748 0.969754416 1.197599732 1.111402912 1.082679739 0.862416813 1.190335357 0.597771966 0.900066171 1 9.488734676 -4.241500423 24.04388881 0.992293762 0.597771338 0.525006328 0.118135143 1853.574989 2235122.204 0.016688249 0.834078432 5.73E-05 4.241500423 -0.394522424 SQPAPVS(ph)PQQK ddPTM_HeLa_SAHA_4h_R1 3 SQPAPVSPQQK 11 0 Q13118-2;Q13118 Q13118-2 KLF10 Krueppel-like factor 10 1 0 SQPAPVS(1)PQQK;SQPAPVS(1)PQQK;SQPAPVS(1)PQQK ;; 171.11 8.63E-05 12705900 8041.4 7320.6 7068.1 8234.8 8915.2 10640.6 9642.4 9828.5 7977.6 7536.6 TRUE FALSE FALSE 8887.231347 7557.792243 8031.303859 8394.196462 8232.119302 9733.961018 8557.411775 9577.101201 7922.083232 7861.539709 1.130469561 0.961362853 1.021594262 1.067754762 1.047138297 1.238174884 1.088516002 1.218222073 1.00770123 1 12.94059618 -5.281441084 24.30466251 1.051782965 1.172325485 0.563318026 0.058005823 393.0920811 477657.3558 0.009249552 0.020712567 5.23E-06 5.281441084 0.12054252 SQPERDWVLNEFR ddPTM_HeLa_SAHA_4h_R1 2 SQPERDWVLNEFR 13 1 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2;A0A0U1RQJ0 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 0 0 ; ; 136.33 0.00078853 22549000 3402 2656 3466.3 3515.8 3503 3402.2 3669.4 2204.9 2259.1 3168.3 FALSE FALSE TRUE 3759.837969 2742.056143 3938.669312 3583.853393 3234.600897 3112.31342 3256.509455 2148.501851 2243.378739 3304.900918 1.137655277 0.829693903 1.191766231 1.0844057 0.978728554 0.941726695 0.985357666 0.650095692 0.67880363 1 11.6903913 -3.747575547 1.010457062 1.053860855 1.30E-13 0.200125567 0.153426021 2.506338175 0.970607793 0.014869061 3.671727645 0.000178823 3.747575547 -1.053860855 SQPLTS(ph)PESR ddPTM_HeLa_SAHA_4h_R1 2 SQPLTSPESR 10 0 P46939;P46939-2 P46939 UTRN Utrophin 1 0 SQPLT(0.065)S(0.935)PESR;SQPLT(0.361)S(0.639)PESR ; 130.56 0.0015678 41661000 6252.3 5541.4 5420.9 5335 6976.2 6001.7 6098.8 5728.1 5729.6 5807.2 TRUE FALSE FALSE 6909.945601 5720.944996 6159.632021 5438.26664 6441.685063 5490.321395 5412.546973 5581.583496 5689.727247 6057.576812 1.140711181 0.944427974 1.01684753 0.897762721 1.063409555 0.906356051 0.893516854 0.921421828 0.93927447 1 12.56452508 -7.2371043 24.11454273 1.066446947 0.950350763 0.131236923 0.072187548 390.4742095 386935.6809 0.011760643 0.014399236 5.79E-08 7.2371043 -0.116096183 SQPSK(ac)TLFVK ddPTM_HeLa_SAHA_4h_R1 1 SQPSKTLFVK 10 1 P19338;H7BY16 P19338 NCL Nucleolin 0 1 SQPSK(1)TLFVK 115.57 0.0053319 1745600 900.82 909.81 806.61 783.95 1038 2825.8 833.18 3253.8 1435.8 880.64 FALSE TRUE FALSE 995.5723807 939.2884409 916.5306102 799.1244859 958.4686642 2585.025942 739.4283936 3170.572507 1425.808151 918.6087001 1.083782878 1.022512024 0.997737785 0.86992915 1.043391668 2.81406647 0.804943817 3.451494099 1.552138741 1 9.843306637 -1 0.652993598 1.032530344 189.685931 0.516364337 0.602947798 107.8353151 0.638173459 0.087848272 29488.83991 0.1 1 188.6534007 SQQENPESQPQK(ac)RPR ddPTM_HeLa_SAHA_4h_R1 2 SQQENPESQPQKRPR 15 2 J3KS37;O94762-4;O94762;J3KSV9 J3KS37 RECQL5 ATP-dependent DNA helicase Q5 0 1 ; SQQENPESQPQK(1)RPR;SQQENPESQPQK(1)RPR 146.84 2.76E-05 790090 0 0 0 163.5 217.73 298.1 406.57 294.3 0 0 FALSE TRUE FALSE 0 0 0 166.6647789 201.0475744 272.7002029 360.8216736 286.7722321 0 0 0 SQQQPT(ph)PVTPK ddPTM_HeLa_SAHA_4h_R1 2 SQQQPTPVTPK 11 0 O95251-4;O95251;O95251-2 O95251-4 KAT7 Histone acetyltransferase KAT7 1 0 S(0.226)QQQPT(0.758)PVT(0.016)PK;SQQQPT(0.901)PVT(0.099)PK ; 179.83 5.33E-05 143511000 10997.2 9302.1 8176.8 8944.1 8992.1 9987.9 9701.6 9439.7 9810.6 9569.9 TRUE FALSE FALSE 12153.93595 9603.494143 9291.091721 9117.225989 8303.127241 9136.87473 8609.950435 9198.246143 9742.327236 9982.505223 1.217523626 0.962032469 0.930737477 0.913320433 0.831767883 0.91528875 0.862503975 0.921436647 0.975940109 1 13.28518621 -7.045909308 4.809812335 1.102827946 0.896095238 0.521413865 0.069236894 0.111969047 5.866507095 0.01402644 0.01756774 9.00E-08 7.045909308 -0.206732708 SQQQPTPVT(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 SQQQPTPVTPK 11 0 O95251-4;O95251;O95251-2 O95251-4 KAT7 Histone acetyltransferase KAT7 1 0 SQQQPT(0.459)PVT(0.541)PK;SQQQPT(0.456)PVT(0.544)PK ; 159.58 0.00038215 87011000 10461.3 8229.4 7036.5 7571.7 7241.5 8384.9 7856.4 8779.3 8677.6 8519.2 TRUE FALSE FALSE 11561.66753 8496.03796 7995.397575 7718.261202 6686.657834 7670.459348 6972.377195 8554.738218 8617.211875 8886.504404 1.301036606 0.956060738 0.899723582 0.868537374 0.752450855 0.863158223 0.784602908 0.962666289 0.969696461 1 13.11740032 -7.017620326 4.084041943 1.142416752 0.85119986 0.48863941 0.102978805 0.120151818 4.594894032 0.020295838 0.025914402 9.60E-08 7.017620326 -0.291216892 SQQTSFQSSPCNKS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 SQQTSFQSSPCNKSPK 16 1 Q12986-3;Q12986-2;Q12986 Q12986-3 NFX1 Transcriptional repressor NF-X1 1 0 SQQTSFQS(0.001)S(0.009)PCNKS(0.99)PK;SQQTSFQSSPCNKS(1)PK ; 119.27 0.00045239 37305000 3795.7 3480.8 3174 3418.5 3854.8 4236.5 3730.6 4219.8 3567.9 3634.7 TRUE FALSE FALSE 4194.949141 3593.580204 3606.536191 3484.670011 3559.446057 3875.526366 3310.82307 4111.863626 3543.070693 3791.409705 1.106435196 0.94782165 0.951238846 0.919096136 0.938818628 1.022186118 0.873243286 1.084521048 0.934499558 1 11.88851865 -7.242159331 24.5667593 1.050261066 0.958283077 0.027501287 0.069575406 565.4174429 720459.2088 0.010215144 0.012500812 5.73E-08 7.242159331 -0.091977989 SQRYS(ph)GAYGASVSDEELK ddPTM_HeLa_SAHA_4h_R1 2 SQRYSGAYGASVSDEELK 18 1 A0A286YEX5;C9JRZ6;F8WAR4;Q9NX63 A0A286YEX5 CHCHD3 MICOS complex subunit MIC19 1 0 S(0.006)QRYS(0.994)GAYGASVSDEELK;S(0.065)QRY(0.066)S(0.866)GAY(0.003)GASVSDEELK ; 146.68 0.0005218 53894000 2035.55 2198.5 1786.63 1522.1 2315.6 2196.5 2172.1 2230.3 1749.32 1707.43 TRUE FALSE FALSE 2249.658488 2269.732842 2030.102632 1551.562446 2138.179228 2009.345843 1927.689591 2173.252155 1737.14634 1781.045663 1.263111067 1.274382173 1.139837498 0.871152536 1.200519039 1.128183226 1.082335861 1.220211362 0.975351938 1 10.79850879 -9.62318385 1.468711562 1.000817044 1.159021883 0.243639181 0.109927493 0.533223961 2.082873499 0.081042823 0.018959673 2.38E-10 9.62318385 0.158204839 SQS(ph)AAVTPSSTTSSTR ddPTM_HeLa_SAHA_4h_R1 1 SQSAAVTPSSTTSSTR 16 0 Q16186;A0A087WX59 Q16186 ADRM1 Proteasomal ubiquitin receptor ADRM1 1 0 S(0.384)QS(0.616)AAVTPSSTTSSTR 205.98 2.00E-15 4364800 1098.3 873.7 924.05 844.06 983.07 1178.4 918.6 707.69 884.42 1086.8 TRUE FALSE FALSE 1213.824233 902.0084533 1049.974722 860.3980018 907.747389 1077.993691 815.2367104 689.5883145 878.2652492 1133.657267 1.070715347 0.795662393 0.926183559 0.75895778 0.800724713 0.950899114 0.719120967 0.608286415 0.774718493 1 10.14676883 -7.256525226 24.23927622 1.03339336 0.80136118 0.154302275 0.12378821 143.506199 707850.491 0.015821464 0.019044419 5.54E-08 7.256525226 -0.232032181 SQS(ph)DLSSSSSR ddPTM_HeLa_SAHA_4h_R1 2 SQSDLSSSSSR 11 0 J3KP75 J3KP75 PHACTR2 Phosphatase and actin regulator 1 0 S(0.001)QS(0.999)DLSSSSSR;SQS(0.992)DLS(0.007)SSSSR ; 214.48 2.27E-15 27146000 2477.57 2717.12 2133.45 2721.98 3348.1 4145.1 3441.5 3027.48 3472.6 3533.5 TRUE FALSE FALSE 2738.17218 2805.156471 2424.185455 2774.667859 3091.569301 3791.91416 3054.253362 2950.041445 3448.433894 3685.846478 0.742888288 0.761061669 0.657701147 0.752789861 0.838767789 1.028777021 0.828643673 0.800370136 0.935588043 1 11.84778027 -9.363401445 1.097010277 0.999532323 0.799290624 0.3355288 0.092328219 0.445780621 0.963168149 0.067805894 0.017752098 4.33E-10 9.363401445 -0.200241698 SQS(ph)ESSDEVTELDLSHGK ddPTM_HeLa_SAHA_4h_R1 2 SQSESSDEVTELDLSHGK 18 0 Q86YS7;Q86YS7-5;Q86YS7-3;Q86YS7-2;Q86YS7-4 Q86YS7;Q86YS7-3 C2CD5 C2 domain-containing protein 5 1 0 S(0.232)QS(0.729)ES(0.037)S(0.002)DEVTELDLSHGK;S(0.23)QS(0.692)ES(0.077)S(0.001)DEVTELDLSHGK ; 183.75 3.18E-10 14225500 3473.2 5821.4 3770.7 3351.9 5383.4 5075.3 4968.2 3363.1 5757.6 5693.1 TRUE FALSE FALSE 3838.527112 6010.01718 4284.551359 3416.780871 4970.925055 4642.855887 4409.16506 3277.076772 5717.532393 5938.557402 0.646373665 1.012033188 0.721480162 0.575355367 0.837059359 0.781815443 0.742463996 0.551830445 0.962781363 1 12.5358968 -9.467965557 0.973992513 1.015239337 0.732830321 0.383824565 0.125457623 0.528858863 0.814656467 0.113253819 0.02242539 3.40E-10 9.467965557 -0.282409016 SQS(ph)EYKPDTPQSGLEYSGIQELEDR ddPTM_HeLa_SAHA_4h_R1 1 SQSEYKPDTPQSGLEYSGIQELEDR 25 1 Q16513-3;Q16513-2;Q16513;Q16513-4;Q16513-5 Q16513-3 PKN2 Serine/threonine-protein kinase N2 1 0 S(0.045)QS(0.393)EY(0.246)KPDT(0.297)PQS(0.016)GLEY(0.001)S(0.001)GIQELEDR 45.126 0.022579 5631900 1047.4 725.71 734.54 809.35 777.63 1187.8 1010.7 1013.3 761.35 769.36 TRUE FALSE FALSE 1157.570338 749.2234802 834.6392859 825.0161396 718.0481574 1086.592758 896.973376 987.3812532 756.0517034 802.5308748 1.442399756 0.933575896 1.040008942 1.028017944 0.894729636 1.353957576 1.117680832 1.230334289 0.942084258 1 9.648413086 -7.233841017 24.96420016 1.208911053 1.085742728 0 0.181187152 1535.034405 1388523.09 0.033831889 0.041429472 5.84E-08 7.233841017 -0.123168325 SQS(ph)FNNYDK ddPTM_HeLa_SAHA_4h_R1 2 SQSFNNYDK 9 0 A0A0A0MTL4;A0A0A0MTE8;Q8IVL1-4;Q8IVL1-8;Q8IVL1-9;Q8IVL1-10;Q8IVL1-13;Q8IVL1-12;Q8IVL1-11;Q8IVL1-3;Q8IVL1-2;Q8IVL1 A0A0A0MTL4 NAV2 Neuron navigator 2 1 0 S(0.164)QS(0.836)FNNYDK;S(0.374)QS(0.626)FNNYDK ; 135.1 0.0015361 34631000 3362.8 3145.1 2376.8 2574.2 3309.7 3817.1 4164.7 4471.6 3315.5 2995.4 TRUE FALSE FALSE 3716.514733 3247.003304 2700.697926 2624.027363 3056.111501 3491.861606 3696.076995 4357.222947 3292.427166 3124.546353 1.189457385 1.039191914 0.864348811 0.839810669 0.978097668 1.117557946 1.182916359 1.39451378 1.05372966 1 11.60943103 -4.377898607 1.711256503 1.045790084 1.463203834 0.568210955 0.102699586 0.57492466 1.955166332 0.018860011 0.361952563 4.19E-05 4.377898607 0.41741375 SQS(ph)FTHSPSGDPK ddPTM_HeLa_SAHA_4h_R1 1 SQSFTHSPSGDPK 13 0 J3KQR7;Q9Y4F5-3;Q9Y4F5-2;Q9Y4F5 J3KQR7 CEP170B Centrosomal protein of 170 kDa protein B 1 0 S(0.042)QS(0.719)FT(0.234)HS(0.005)PSGDPK 104.78 0.0027994 10247000 3812.5 4379.1 3042.6 5097.4 6280.5 6053.9 5870.7 6352.7 5520.4 4708.6 TRUE FALSE FALSE 4213.516242 4520.985713 3457.229683 5196.067548 5799.289447 5538.073662 5210.113385 6190.207133 5481.983087 4911.610789 0.857868513 0.920469049 0.703889178 1.057915167 1.18073066 1.127547336 1.060774888 1.260321185 1.11612734 1 12.26198053 -6.009743941 22.85454217 0.912977847 1.144693246 0.51636807 0.108470544 81.68622855 191598.7137 0.014092261 0.024503367 9.78E-07 6.009743941 0.231715399 SQS(ph)GEDESMNQPGPIK ddPTM_HeLa_SAHA_4h_R1 2 SQSGEDESMNQPGPIK 16 0 A0A0C4DG33;O43933-2;O43933 A0A0C4DG33 PEX1 Peroxisome biogenesis factor 1 1 0 S(0.011)QS(0.674)GEDES(0.315)MNQPGPIK;S(0.006)QS(0.83)GEDES(0.164)MNQPGPIK ; 149.36 6.45E-05 10859400 4133.9 4955.5 4631.9 5020.3 5460.5 6761.1 5983 6100.8 5241.3 5081.3 TRUE FALSE FALSE 4568.722569 5116.061451 5263.11121 5117.475166 5042.11767 6185.016243 5309.777094 5944.75037 5204.825367 5300.37971 0.861961372 0.965225461 0.992968711 0.965492181 0.951274804 1.166900596 1.001772964 1.12157066 0.98197217 1 12.37188 -5.33825782 8.411138659 0.943373513 1.087048913 0.556516721 0.05444214 0.20375266 20.69477077 0.009174102 0.020569542 4.59E-06 5.33825782 0.143675401 SQS(ph)GTLDGESAAWSASGEDSR ddPTM_HeLa_SAHA_4h_R1 1 SQSGTLDGESAAWSASGEDSR 21 0 H3BMQ0;P49815;A0A2R8Y5F1;A0A2R8YGD6;A0A2R8Y7C8;A0A2R8YDR3;A0A2R8Y7X5;A0A2R8YDZ2;X5D2U8;A0A2R8YGU4;A0A2R8Y6C9;P49815-5;P49815-3;P49815-2;P49815-6;P49815-7;P49815-4;H3BQK4 H3BMQ0 TSC2 Tuberin 1 0 S(0.007)QS(0.88)GT(0.101)LDGES(0.012)AAWSASGEDSR 123.17 2.63E-05 21056000 378.96 468.04 292.25 264.75 362.22 473.96 402.39 423.22 375.54 265.61 TRUE FALSE FALSE 418.8207515 483.2048031 332.076308 269.8746191 334.4667819 433.5759416 357.1120182 412.3946452 372.9265866 277.061747 1.511651306 1.744032904 1.198564261 0.974059472 1.207192207 1.564907268 1.288925743 1.488457536 1.346005324 1 8.114063726 -9.424596661 1.191794636 1.002934917 1.376568232 0.028782595 0.232074715 0.49159896 1.264084571 0.14771632 0.038403488 3.76E-10 9.424596661 0.373633315 SQS(ph)IEQESQEK ddPTM_HeLa_SAHA_4h_R1 3 SQSIEQESQEK 11 0 A0A0A0MRN0;Q5VTL8 A0A0A0MRN0 PRPF38B Pre-mRNA-splicing factor 38B 1 0 S(0.002)QS(0.998)IEQESQEK;S(0.008)QS(0.777)IEQES(0.216)QEK;S(0.333)QS(0.667)IEQESQEK ;; 242.4 5.43E-31 210997800 6062.9 6349.1 5339.05 7381.5 6618.7 7566.8 6096.8 6013.7 7458 5935.8 TRUE FALSE FALSE 6700.62364 6554.815006 6066.627929 7524.379606 6111.576636 6922.06607 5410.772018 5859.878262 7406.099171 6191.721387 1.082190755 1.058641789 0.979796659 1.215232265 0.987056144 1.11795503 0.873872011 0.946405352 1.196129268 1 12.59612484 -4.753406573 24.99933446 1.049932253 0.910138647 0.362454188 0.082726922 128.7204639 400588.1558 0.009092436 0.032840779 1.76E-05 4.753406573 -0.139793606 SQS(ph)KSPTGTPAR ddPTM_HeLa_SAHA_4h_R1 1 SQSKSPTGTPAR 12 1 Q13595 Q13595 TRA2A Transformer-2 protein homolog alpha 1 0 S(0.006)QS(0.91)KS(0.084)PTGTPAR 111.72 0.012313 1784200 454.15 369.48 684.03 832.29 686.09 797.06 606.98 772.57 659.29 565.19 TRUE FALSE FALSE 501.9195807 381.4513944 777.2460461 848.4001765 633.5219324 729.1460039 538.6810129 752.8087781 654.7019472 589.5581069 0.85134879 0.647012381 1.318353589 1.439044204 1.07457081 1.236766988 0.913703003 1.276903446 1.110496047 1 9.203490202 -6.743047702 24.99998812 0.90663285 1.201914151 0.433211997 0.172234122 175.9844226 239216.8055 0.026128895 0.036911942 1.81E-07 6.743047702 0.295281302 SQS(ph)LNIR ddPTM_HeLa_SAHA_4h_R1 2 SQSLNIR 7 0 A0A0C4DGF9;O00443-2;O00443 A0A0C4DGF9 PIK3C2A Phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit alpha 1 0 S(0.077)QS(0.923)LNIR;S(0.06)QS(0.94)LNIR ; 89.029 0.018228 23819000 6507.3 5389.6 5358.9 5346.8 6760.4 7335.1 6143.7 6336 5428.4 6280.1 TRUE FALSE FALSE 7191.767671 5564.226576 6089.182984 5450.295046 6242.419613 6710.108214 5452.394707 6173.934294 5390.623322 6550.865845 1.097834674 0.84938796 0.929523383 0.831996132 0.952915196 1.024308599 0.832316649 0.942460804 0.82288715 1 12.67746989 -7.263730435 24.99999307 1.046199708 0.909991774 0 0.093169274 126.1701597 1376765.464 0.010949144 0.012845081 5.45E-08 7.263730435 -0.136207934 SQS(ph)LPGADSLLAKPIDK ddPTM_HeLa_SAHA_4h_R1 2 SQSLPGADSLLAKPIDK 17 1 H0Y4W2;F2Z2U4;Q9Y4A5-2;Q9Y4A5 H0Y4W2 TRRAP Transformation/transcription domain-associated protein 1 0 S(0.092)QS(0.904)LPGADS(0.004)LLAKPIDK;S(0.081)QS(0.891)LPGADS(0.028)LLAKPIDK ; 88.765 0.0032463 37321000 3702.8 6369.6 4237.8 1452.5 3904 7032.7 4651.5 2083.32 2089 5124.5 TRUE FALSE FALSE 4092.277493 6575.979219 4815.305314 1480.615238 3604.876363 6433.474395 4128.100978 2030.031691 2074.462479 5345.442274 0.765563874 1.230203018 0.900824491 0.27698648 0.674383181 1.203543891 0.772265561 0.379768705 0.388080606 1 12.3840936 -6.480172594 24.9939182 0.919090335 0.687442347 0.071855171 0.307529282 714.2826448 418036.5161 0.041206162 0.062940333 3.31E-07 6.480172594 -0.231647989 SQS(ph)LPHSATVTLGGTSDPSTLSSSALSER ddPTM_HeLa_SAHA_4h_R1 3 SQSLPHSATVTLGGTSDPSTLSSSALSER 29 0 F8WDP1;A0A0A0MRY0;Q8WUA7;Q8WUA7-3;Q8WUA7-4 F8WDP1 TBC1D22A TBC1 domain family member 22A 1 0 S(0.146)QS(0.479)LPHS(0.186)AT(0.186)VT(0.004)LGGTSDPSTLSSSALSER;S(0.19)QS(0.524)LPHS(0.051)AT(0.173)VT(0.055)LGGT(0.005)S(0.002)DPSTLSSSALSER;S(0.194)QS(0.529)LPHS(0.226)AT(0.05)VT(0.001)LGGTSDPSTLSSSALSER ;; 110.08 2.17E-09 38942500 2613.19 3857.28 2490.72 1997.61 3607.15 5113.7 4335.41 2818 2670.48 3390.71 TRUE FALSE FALSE 2888.057314 3982.258403 2830.14235 2036.27663 3330.770946 4677.983991 3847.578257 2745.91964 2651.895912 3536.900102 0.816550434 1.125917693 0.800175936 0.575723535 0.941720391 1.322622595 1.087839109 0.776363358 0.749779704 1 11.78826976 -5.505223841 24.9179103 0.89293794 1.076054784 0.186462017 0.187630076 1001.037376 1412850.53 0.026695111 0.058530042 3.12E-06 5.505223841 0.183116844 SQS(ph)LPNSLDYTQTSDPGR ddPTM_HeLa_SAHA_4h_R1 4 SQSLPNSLDYTQTSDPGR 18 0 H0YNE5;H0YLG5;Q96TC7 H0YNE5 RMDN3 Regulator of microtubule dynamics protein 3 1 0 S(0.208)QS(0.786)LPNS(0.005)LDYTQT(0.001)S(0.001)DPGR;S(0.037)QS(0.942)LPNS(0.021)LDYTQTSDPGR;S(0.091)QS(0.709)LPNS(0.177)LDYT(0.022)QTS(0.001)DPGR;SQS(1)LPNSLDYTQTSDPGR ;;; 355.79 6.74E-161 138649800 4947.47 5058.01 4121.09 4373.73 5185.94 6062.76 5915.43 5284.7 4364.08 4966.14 TRUE FALSE FALSE 5467.867594 5221.892843 4682.690683 4458.389869 4788.594398 5546.17874 5249.810248 5149.525026 4333.710012 5180.254599 1.055521015 1.008037876 0.903949911 0.860650724 0.924393639 1.070638254 1.013427071 0.994067942 0.836582436 1 12.33880729 -6.98383008 24.6567542 1.026510955 0.961769991 0 0.082550849 264.0902519 402697.446 0.010335806 0.013581591 1.04E-07 6.98383008 -0.064740964 SQS(ph)LPTTLLSPVR ddPTM_HeLa_SAHA_4h_R1 1 SQSLPTTLLSPVR 13 0 E9PHV5;P28290-3;P28290;P28290-2;E7EUL7 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 S(0.379)QS(0.606)LPT(0.007)T(0.007)LLS(0.001)PVR 102.72 0.0042175 44877000 1897.7 2472.6 2481.2 2583.9 2593 2360.5 3137.4 2328.4 1908.5 2151 TRUE FALSE FALSE 2097.308793 2552.713862 2819.325014 2633.915121 2394.3249 2159.37212 2784.371495 2268.842899 1895.218593 2243.740137 0.934737833 1.137704773 1.256529207 1.173894908 1.067113282 0.96239849 1.240950968 1.01118791 0.844669381 1 11.13168988 -7.256499151 24.69708974 0.969181754 1.125008676 0.442079348 0.096788387 261.5597685 1307585.115 0.014876305 0.017906844 5.54E-08 7.256499151 0.155826923 SQS(ph)LQDQPTR ddPTM_HeLa_SAHA_4h_R1 2 SQSLQDQPTR 10 0 Q8N4C8-2;Q8N4C8-3;Q8N4C8 Q8N4C8-2 MINK1 Misshapen-like kinase 1 1 0 S(0.004)QS(0.996)LQDQPTR;S(0.078)QS(0.917)LQDQPT(0.005)R ; 148.89 0.00015193 6306200 3435.3 4149.7 3441.8 3498 4070.1 4761.3 4788.3 4651.1 3344.1 4242.5 TRUE FALSE FALSE 3796.640616 4284.153003 3910.83058 3565.708848 3758.249817 4355.610454 4249.507882 4532.131597 3320.828136 4425.414937 0.857917431 0.968079392 0.883720653 0.805734355 0.849242358 0.984226455 0.96025072 1.024114498 0.750399269 1 12.11159702 -5.109669199 12.385621 0.915777542 0.9872029 0.207555158 0.077575581 0.956511037 102.8053458 0.010338916 0.026372682 7.77E-06 5.109669199 0.071425359 SQS(ph)MDIDGVSCEK ddPTM_HeLa_SAHA_4h_R1 4 SQSMDIDGVSCEK 13 0 O95155-2;O95155;O95155-4 O95155-2 UBE4B Ubiquitin conjugation factor E4 B 1 0 S(0.001)QS(0.962)MDIDGVS(0.037)CEK;S(0.392)QS(0.607)MDIDGVS(0.001)CEK;SQS(0.98)MDIDGVS(0.02)CEK;S(0.005)QS(0.789)MDIDGVS(0.206)CEK ;;; 218.63 2.98E-16 114161000 9385.1 13601.8 11110.7 6753.4 11879.3 16006.4 15047 10111.3 8207.9 12813.1 TRUE FALSE FALSE 10372.26788 14042.50724 12624.80833 6884.121823 10969.1106 14642.56467 13353.87196 9852.667587 8150.780556 13365.53545 0.776045817 1.050650556 0.944579316 0.515065173 0.820701172 1.095546432 0.999127346 0.737169687 0.609835692 1 13.70623002 -6.70774324 0.012636927 1.755101333 3.68E-05 0 0.192165973 3618.314092 26.16345114 1780.626614 1850.615607 1.96E-07 6.70774324 -1.755064571 SQS(ph)PAASDCSSSSSSASLPSSGR ddPTM_HeLa_SAHA_4h_R1 7 SQSPAASDCSSSSSSASLPSSGR 23 0 O95817;C9JFK9 O95817 BAG3 BAG family molecular chaperone regulator 3 1 0 S(0.115)QS(0.88)PAAS(0.005)DCSSSSSSASLPSSGR;S(0.251)QS(0.749)PAASDCSSSSSSASLPSSGR;S(0.005)QS(0.99)PAAS(0.004)DCSSSSSSASLPSSGR;S(0.16)QS(0.839)PAASDCSSSSSSASLPSSGR;S(0.382)QS(0.615)PAAS(0.003)DCSSSSSSASLPSSGR;S(0.02)QS(0.977)PAAS(0.003)DCSSSSSSASLPSSGR;S(0.018)QS(0.97)PAAS(0.012)DCSSSSSSASLPSSGR ;;;;;; 321.54 7.22E-131 248234600 6750.5 7995.52 7207.38 8206.5 8086.41 9078 9189.54 8598.04 8051.04 7969.68 TRUE FALSE FALSE 7460.548562 8254.580094 8189.564212 8365.348674 7466.831013 8304.503329 8155.508774 8378.114587 7995.012157 8313.291907 0.897424107 0.992937598 0.985116883 1.006261872 0.898179818 0.998942828 0.981020379 1.007797474 0.961714354 1 13.02120415 SQS(ph)PHYFR ddPTM_HeLa_SAHA_4h_R1 1 SQSPHYFR 8 0 Q9UKJ3-2;Q9UKJ3 Q9UKJ3-2 GPATCH8 G patch domain-containing protein 8 1 0 S(0.379)QS(0.621)PHYFR 80.24 0.021412 20381000 2122.2 2640.1 1610.8 2376.8 3169.2 4353.8 3133.7 2889.7 2839.6 2867.6 TRUE FALSE FALSE 2345.422733 2725.640972 1830.311435 2422.806401 2926.376581 3982.831746 2781.087829 2815.785658 2819.838992 2991.23627 0.784098119 0.911208854 0.611891295 0.809968248 0.978316762 1.331500218 0.929745289 0.941345118 0.942700188 1 11.54652615 -5.527145244 17.73052569 0.868486334 1.070610736 0.327160514 0.143398571 3.359824702 13962.7945 0.022560042 0.045521771 2.97E-06 5.527145244 0.202124402 SQS(ph)PVHLR ddPTM_HeLa_SAHA_4h_R1 5 SQSPVHLR 8 0 Q96T58;A0A669KB49 Q96T58 SPEN Msx2-interacting protein 1 0 S(0.001)QS(0.999)PVHLR;S(0.013)QS(0.987)PVHLR;S(0.013)QS(0.987)PVHLR;S(0.014)QS(0.986)PVHLR;SQS(1)PVHLR ;;;; 97.813 0.0098267 94507800 10647.4 11681.65 9562.49 12203.7 12634.2 13677.8 13723.9 13733.6 12118.28 11052.75 TRUE FALSE FALSE 11767.34238 12060.14312 10865.61634 12439.92026 11666.17033 12512.37449 12179.65065 13382.3144 12033.9479 11529.28814 1.020647783 1.046044038 0.942436012 1.078984245 1.011872561 1.085268608 1.056409598 1.160723388 1.043771979 1 13.49301582 -1 0.473982453 1.008718745 4.828988215 0.554221097 0.036893964 37.96585333 0.388571658 0.00644065 143.4656017 0.1 1 3.82026947 SQS(ph)S(ph)DTEQQSPTSGGGK ddPTM_HeLa_SAHA_4h_R1 1 SQSSDTEQQSPTSGGGK 17 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 2 0 S(0.106)QS(0.751)S(0.891)DT(0.052)EQQS(0.186)PT(0.012)S(0.002)GGGK 103.46 0.0045475 0 255.2 285.97 160.89 198.9 355.84 368.22 283.22 266.52 243.65 383.51 TRUE FALSE FALSE 282.0431069 295.2356156 182.8152513 202.7499971 328.5756161 336.8455845 251.3513402 259.7028043 241.9544198 400.044993 0.705028464 0.738006026 0.456986725 0.506817985 0.821346653 0.842019249 0.628307677 0.649183989 0.604818018 1 8.644018458 -8.849831714 0.688589301 1.005010908 0.663692748 0 0.166012649 0.476740967 0.419030372 0.087532039 0.027903279 1.41E-09 8.849831714 -0.34131816 SQS(ph)SDLLER ddPTM_HeLa_SAHA_4h_R1 2 SQSSDLLER 9 0 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 S(0.035)QS(0.943)S(0.022)DLLER;S(0.036)QS(0.908)S(0.056)DLLER ; 99.844 0.010829 16303600 3629.1 3418 3297.4 3019.1 3782.8 4219.9 3984.4 4114.7 3838.1 3477.5 TRUE FALSE FALSE 4010.825389 3528.745443 3746.7525 3077.539046 3492.962681 3860.340779 3536.064826 4009.451932 3811.39035 3627.432043 1.105692771 0.972794363 1.032893919 0.848407085 0.962929874 1.064207608 0.974812149 1.105314141 1.050713095 1 11.82473287 -6.497555131 24.94532049 1.043489095 0.987513168 0.067946836 0.071193955 1304.988223 1285493.292 0.011753585 0.017905807 3.18E-07 6.497555131 -0.055975927 SQS(ph)SDTEQQS(ph)PTSGGGK ddPTM_HeLa_SAHA_4h_R1 1 SQSSDTEQQSPTSGGGK 17 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 2 0 S(0.11)QS(0.851)S(0.039)DTEQQS(0.764)PT(0.199)S(0.037)GGGK 172.5 8.01E-08 8051300 1012.8 1028.5 557.05 959.79 1075 1188.8 1074.5 1143.6 1480.1 1334.8 TRUE FALSE FALSE 1119.330951 1061.824075 632.961873 978.3681233 992.6337322 1087.507552 953.5944321 1114.348368 1469.799864 1392.34976 0.803915067 0.762613034 0.454599764 0.702674106 0.712919814 0.781059173 0.684881385 0.800336524 1.055625465 1 10.44330595 -8.176361713 0.805493399 0.973972633 0.696827881 0.624349752 0.097082588 0.283405003 0.396503092 0.034743446 0.022608767 6.66E-09 8.176361713 -0.277144752 SQS(ph)SDTEQQSPTSGGGK ddPTM_HeLa_SAHA_4h_R1 1 SQSSDTEQQSPTSGGGK 17 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 SQS(0.792)S(0.208)DTEQQSPTSGGGK 357.28 3.41E-160 81609000 4043.1 3758.8 3498.5 3876.2 3599 4816.3 4382.6 3990.6 3864.2 3868.6 TRUE FALSE FALSE 4468.371808 3880.587586 3975.257361 3951.229456 3323.245398 4405.924144 3889.458314 3888.52623 3837.308718 4035.394278 1.107294975 0.961637778 0.985097635 0.979143346 0.823524337 1.091819991 0.963836008 0.963605031 0.95091296 1 11.97849392 -7.235951918 24.23593849 1.050667073 0.967285132 0.051466925 0.072398957 552.8918148 525743.045 0.011456249 0.014027677 5.81E-08 7.235951918 -0.083381941 SQS(ph)SSQFR ddPTM_HeLa_SAHA_4h_R1 1 SQSSSQFR 8 0 Q16537-2;Q16537 Q16537-2 PPP2R5E Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform 1 0 SQS(0.333)S(0.333)S(0.333)QFR 105.17 0.0080662 27690000 707.59 910.48 774.99 701.23 1236.3 1402.5 1332.1 1089.3 977.02 1525.2 TRUE FALSE FALSE 782.0175627 939.9801494 880.6016012 714.8033206 1141.574961 1282.99911 1182.208602 1061.437283 970.2208383 1590.958836 0.491538527 0.590826191 0.553503699 0.449290896 0.717538968 0.806431367 0.743079315 0.667168288 0.60983403 1 10.63568079 -9.415132852 1.130979764 1.000945282 0.618877498 0 0.158564201 0.284328539 0.647929395 0.085468433 0.021393768 3.84E-10 9.415132852 -0.382067784 SQS(ph)TTFNPDDMSEPEFKR ddPTM_HeLa_SAHA_4h_R1 6 SQSTTFNPDDMSEPEFKR 18 1 Q86W92-3;Q86W92-4;Q86W92;F5GZP6;Q86W92-2 Q86W92-3;Q86W92-2 PPFIBP1 Liprin-beta-1 1 0 S(0.044)QS(0.395)T(0.395)T(0.156)FNPDDMS(0.01)EPEFKR;S(0.01)QS(0.417)T(0.417)T(0.156)FNPDDMSEPEFKR;S(0.034)QS(0.401)T(0.401)T(0.155)FNPDDMS(0.01)EPEFKR;S(0.085)QS(0.796)T(0.118)T(0.002)FNPDDMSEPEFKR;S(0.152)QS(0.736)T(0.102)T(0.01)FNPDDMSEPEFKR;S(0.011)QS(0.879)T(0.055)T(0.055)FNPDDMSEPEFKR ;;;;; 205.33 6.98E-17 167080700 8571.16 9375.3 9304.95 7999.8 10318.84 11335.36 12018.9 9907.96 7915.73 9651.4 TRUE FALSE FALSE 9472.713935 9679.065871 10572.98013 8154.647697 9528.212708 10369.52356 10666.50174 9654.52873 7860.64379 10067.51909 0.940918398 0.9614152 1.05020711 0.809995752 0.946431055 1.029997904 1.05949655 0.958977941 0.780792539 1 13.29742059 -5.257283737 24.71379785 0.962736473 1.020491376 0.097205206 0.084624067 452.0540345 2688367.144 0.008788196 0.021550147 5.53E-06 5.257283737 0.057754904 SQS(ph)VPASTGLGWGSGLVAPLQEGSIDSTLAGTQDTR ddPTM_HeLa_SAHA_4h_R1 1 SQSVPASTGLGWGSGLVAPLQEGSIDSTLAGTQDTR 36 0 H0Y764;A0A494C1V1;Q6ZNJ1-2;Q6ZNJ1-3;Q6ZNJ1 H0Y764 NBEAL2 Neurobeachin-like protein 2 1 0 S(0.209)QS(0.739)VPAS(0.026)T(0.026)GLGWGSGLVAPLQEGSIDSTLAGTQDTR 104.1 1.69E-13 2572300 704.13 629.95 730.97 622.02 737.49 702.92 678.02 655.89 555.82 679.51 TRUE FALSE FALSE 778.1936241 650.3607933 830.5827849 634.0600966 680.9836755 643.0272615 601.7274051 639.1132835 551.9520034 708.8070015 1.097892123 0.917542846 1.171803866 0.894545476 0.96074626 0.907196543 0.848929827 0.90167462 0.778705631 1 9.469249045 -6.218633394 24.97718818 1.044264587 0.903119442 0.061423562 0.106785341 287.326883 167654.5305 0.009916036 0.016443817 6.04E-07 6.218633394 -0.141145145 SQS(ph)WEER ddPTM_HeLa_SAHA_4h_R1 2 SQSWEER 7 0 Q6Y7W6;I1E4Y6;Q6Y7W6-4;Q6Y7W6-5;Q6Y7W6-3;E7ESB6 Q6Y7W6 GIGYF2 PERQ amino acid-rich with GYF domain-containing protein 2 1 0 S(0.008)QS(0.992)WEER;SQS(1)WEER ; 112.85 0.0067201 284180000 6669.2 8604.2 7400.1 5575.6 8314.7 10642.2 9742.6 5868 6978.3 8053 TRUE FALSE FALSE 7370.697055 8882.981725 8408.54709 5683.5238 7677.629482 9735.424689 8646.337007 5717.905057 6929.737442 8400.20424 0.877442601 1.057472113 1.000993172 0.676593525 0.913981287 1.15895095 1.029300807 0.680686433 0.824948685 1 13.03620869 -9.628741971 1.431081129 1.000189801 0.925796954 0 0.155616089 1.471392554 5.390672779 0.104676688 0.023607045 2.35E-10 9.628741971 -0.074392848 SQS(ph)YIPTSGCR ddPTM_HeLa_SAHA_4h_R1 2 SQSYIPTSGCR 11 0 A0A087WZ32;A0A087X038;A8K727;Q9HB19;E5RHB5 A0A087WZ32 PLEKHA2 Pleckstrin homology domain-containing family A member 2 1 0 S(0.348)QS(0.599)YIPT(0.051)S(0.001)GCR;S(0.129)QS(0.867)YIPT(0.003)SGCR ; 169.58 0.00010288 167993700 3762.25 4055.61 3969.1 2762.2 4366.9 4914.5 4256.4 2907.62 2861.91 3998.4 TRUE FALSE FALSE 4157.980717 4187.014425 4509.988278 2815.666375 4032.309065 4495.756952 3777.45867 2833.247291 2841.993735 4170.790592 0.99692867 1.00388987 1.081326952 0.675091763 0.966797296 1.077914811 0.905693678 0.679307011 0.681404082 1 12.02610516 SQSAAVT(ph)PSSTTSSTR ddPTM_HeLa_SAHA_4h_R1 4 SQSAAVTPSSTTSSTR 16 0 Q16186;A0A087WX59 Q16186 ADRM1 Proteasomal ubiquitin receptor ADRM1 1 0 SQS(0.001)AAVT(0.916)PS(0.072)S(0.008)T(0.003)TSSTR;SQS(0.03)AAVT(0.869)PS(0.076)S(0.023)T(0.002)TSSTR;S(0.001)QS(0.017)AAVT(0.567)PS(0.203)S(0.194)T(0.018)TSSTR;SQSAAVT(0.718)PS(0.076)S(0.076)T(0.025)T(0.076)S(0.025)S(0.002)T(0.002)R ;;; 189.52 2.05E-11 34237300 6575.44 5687.5 5482.4 5713.4 7681.82 8239.77 7405.74 6531.62 7533.15 6390.34 TRUE FALSE FALSE 7267.074948 5871.778732 6229.512921 5823.991119 7093.240611 7537.69524 6572.426644 6364.550618 7480.726196 6665.858831 1.090193347 0.88087355 0.934540181 0.873704539 1.064115036 1.13079131 0.985983474 0.954798291 1.122244918 1 12.70257505 -7.30008772 24.99960751 1.042591297 0.97936736 0.207424303 0.08003663 923.5617606 597401.8 0.014472115 0.016549607 5.01E-08 7.30008772 -0.063223937 SQSAAVTPS(ph)STTSSTR ddPTM_HeLa_SAHA_4h_R1 1 SQSAAVTPSSTTSSTR 16 0 Q16186;A0A087WX59 Q16186 ADRM1 Proteasomal ubiquitin receptor ADRM1 1 0 SQSAAVT(0.234)PS(0.745)S(0.02)T(0.001)TSSTR 270.95 5.56E-59 9327000 1677.5 1536.4 1602.6 1647.5 1798.4 2308.1 1976.1 1667.5 1875.1 1892.7 TRUE FALSE FALSE 1853.947147 1586.180368 1820.993982 1679.389745 1660.606981 2111.436895 1753.744027 1624.847765 1862.051026 1974.30356 0.939038547 0.803412606 0.922347515 0.850623875 0.84111026 1.069459093 0.888284893 0.822997941 0.943143225 1 10.94712811 -7.922471707 1.434921501 0.983716054 0.891520752 0.166754774 0.072600182 0.378613407 1.619282989 0.016382695 0.014581273 1.20E-08 7.922471707 -0.092195301 SQSAAVTPSS(ph)TTSSTR ddPTM_HeLa_SAHA_4h_R1 1 SQSAAVTPSSTTSSTR 16 0 Q16186;A0A087WX59 Q16186 ADRM1 Proteasomal ubiquitin receptor ADRM1 1 0 SQSAAVT(0.011)PS(0.208)S(0.386)T(0.386)T(0.007)S(0.002)STR 102.5 0.0022036 0 135.76 198.68 243.3 324.82 329.92 452.17 349.11 349.1 259.84 294.91 TRUE FALSE FALSE 150.0398597 205.1173624 276.4556569 331.1073608 304.6416009 413.6425722 309.827224 340.1705275 258.0317523 307.6250134 0.487736215 0.666777256 0.898677432 1.076334324 0.990301788 1.34463244 1.00715875 1.105796059 0.838786643 1 8.265029005 -6.393381666 2.563990139 0.745056398 1.111747402 0.552564559 0.151291432 0.225056443 2.883609485 0.033657691 0.054014093 4.04E-07 6.393381666 0.366691004 SQSAAVTPSSTTS(ph)STR ddPTM_HeLa_SAHA_4h_R1 1 SQSAAVTPSSTTSSTR 16 0 Q16186;A0A087WX59 Q16186 ADRM1 Proteasomal ubiquitin receptor ADRM1 1 0 S(0.009)QS(0.005)AAVT(0.009)PS(0.064)S(0.016)T(0.064)T(0.25)S(0.485)S(0.034)T(0.064)R 128.74 0.00023201 2702200 405.97 444.28 231.89 336.33 552.24 414.61 328.59 623.01 340.12 292.86 TRUE FALSE FALSE 448.6717873 458.6749635 263.4907616 342.8401535 509.9274905 379.2828955 291.6161884 607.0743063 337.7530772 305.4866278 1.468711709 1.501456764 0.862527972 1.122275485 1.669230153 1.241569551 0.954595592 1.987236923 1.105623116 1 8.25496542 -9.45433788 1.170656674 0.998697597 1.339555525 0.120033542 0.318167277 0.771796464 1.880760427 0.213538128 0.052157836 3.51E-10 9.45433788 0.340857928 SQSAAVTPSSTTSSTR ddPTM_HeLa_SAHA_4h_R1 3 SQSAAVTPSSTTSSTR 16 0 Q16186;A0A087WX59 Q16186 ADRM1 Proteasomal ubiquitin receptor ADRM1 0 0 ;; ;; 139.64 0.00067796 3108270 612.23 301.86 508.42 631.28 448.33 530.37 496.85 844.19 573.84 605.77 FALSE FALSE TRUE 676.6271604 311.6404621 577.7048299 643.4993372 413.9790523 485.1794922 440.9431304 822.5968422 569.8466007 631.8877093 1.070802851 0.493189624 0.914252361 1.018376094 0.655146549 0.767825494 0.697818812 1.301808581 0.901816244 1 9.303524394 SQSDLDDQHDY(ph)DSVASDEDTDQEPLR ddPTM_HeLa_SAHA_4h_R1 1 SQSDLDDQHDYDSVASDEDTDQEPLR 26 0 J3QRU8;A0A0C4DGN6;Q9Y2X7;Q9Y2X7-3;J3QLH1 J3QRU8 GIT1 ARF GTPase-activating protein GIT1 1 0 SQSDLDDQHDY(0.666)DS(0.275)VAS(0.053)DEDT(0.005)DQEPLR 114.74 2.08E-06 6097000 866.98 693.94 574.77 617.59 666.44 868.72 999.92 1172.6 769.25 901.97 TRUE FALSE FALSE 958.1729342 716.4241113 653.0966623 629.5443475 615.3775112 794.7001687 887.40637 1142.60659 763.8967266 940.8583408 1.018402976 0.761458001 0.694149835 0.669117039 0.654059686 0.844654433 0.943188078 1.214429995 0.81191471 1 9.877833711 -7.269368324 24.0656879 1.008690302 0.813397702 0.051273821 0.167530064 387.2402037 1175337.769 0.027811434 0.032123817 5.38E-08 7.269368324 -0.1952926 SQSDLDDQHDYDSVAS(ph)DEDTDQEPLR ddPTM_HeLa_SAHA_4h_R1 1 SQSDLDDQHDYDSVASDEDTDQEPLR 26 0 J3QRU8;A0A0C4DGN6;Q9Y2X7;Q9Y2X7-3;J3QLH1 J3QRU8 GIT1 ARF GTPase-activating protein GIT1 1 0 SQSDLDDQHDY(0.02)DS(0.112)VAS(0.8)DEDT(0.068)DQEPLR 126.45 3.01E-08 7739700 1106 1317.1 778.23 1340.2 1409.2 1407.3 1449 1407 1551.7 1048.7 TRUE FALSE FALSE 1222.334155 1359.774904 884.2831316 1366.141509 1301.2274 1287.390123 1285.954706 1371.010977 1540.901593 1093.914589 1.117394508 1.243035716 0.80836579 1.248855736 1.189514623 1.176865301 1.175553118 1.253307151 1.408612344 1 10.09528438 -1.000000003 0.075366111 0.858618149 1.825182032 0 0.169878236 203.2527917 1.134324712 2.406117174 20.72000025 0.099999999 1.000000003 0.966563883 SQSES(ph)SDEVTELDLSHGKK ddPTM_HeLa_SAHA_4h_R1 1 SQSESSDEVTELDLSHGKK 19 1 Q86YS7;Q86YS7-5;Q86YS7-3;Q86YS7-2;Q86YS7-4 Q86YS7;Q86YS7-3 C2CD5 C2 domain-containing protein 5 1 0 S(0.039)QS(0.126)ES(0.415)S(0.415)DEVT(0.006)ELDLSHGKK 68.569 0.0068979 0 419.09 561.18 421.06 557.95 638.98 525.65 459.52 752.08 447.56 512.5 TRUE FALSE FALSE 463.1718091 579.3626002 478.439864 568.7499291 590.0214904 480.8616628 407.8136002 732.8428826 444.4453935 534.5963831 0.866395329 1.083738346 0.894955295 1.063886601 1.103676548 0.89948544 0.762843919 1.370833971 0.831366256 1 9.062306267 -7.262914993 24.96904675 0.936908908 1.010119542 0.09804516 0.159348137 347.9736451 5888070.769 0.025171388 0.029609274 5.46E-08 7.262914993 0.073210635 SQSFT(ph)HSPSGDPK ddPTM_HeLa_SAHA_4h_R1 2 SQSFTHSPSGDPK 13 0 J3KQR7;Q9Y4F5-3;Q9Y4F5-2;Q9Y4F5 J3KQR7 CEP170B Centrosomal protein of 170 kDa protein B 1 0 SQSFT(0.92)HS(0.079)PSGDPK;S(0.011)QS(0.359)FT(0.589)HS(0.041)PSGDPK ; 168.67 2.65E-16 7919600 2115.96 2239.49 1380.03 2504.47 2913.99 3171.03 2824.15 3700.43 2659.7 2495.09 TRUE FALSE FALSE 2338.526381 2312.050945 1568.093302 2552.947638 2690.720716 2900.840404 2506.369209 3605.778359 2641.190931 2602.665541 0.898512062 0.888339631 0.602495126 0.980897314 1.03383269 1.114565187 0.963000881 1.385417489 1.014802282 1 11.34577421 -1 0.793281589 0.92746106 104.0026017 0.524625368 0.127906611 297.0030215 1.003787598 0.020806486 55017.81967 0.1 1 103.0751407 SQSGT(ph)LDGESAAWSASGEDSR ddPTM_HeLa_SAHA_4h_R1 1 SQSGTLDGESAAWSASGEDSR 21 0 H3BMQ0;P49815;A0A2R8Y5F1;A0A2R8YGD6;A0A2R8Y7C8;A0A2R8YDR3;A0A2R8Y7X5;A0A2R8YDZ2;X5D2U8;A0A2R8YGU4;A0A2R8Y6C9;P49815-5;P49815-3;P49815-2;P49815-6;P49815-7;P49815-4;H3BQK4 H3BMQ0 TSC2 Tuberin 1 0 SQS(0.032)GT(0.968)LDGESAAWSASGEDSR 333.33 1.31E-144 24578000 339.99 411.46 527.25 547.5 765.22 761.9 513.71 562.57 389.24 478.21 TRUE FALSE FALSE 375.7517081 424.791574 599.1008842 558.0976542 706.5890089 696.9818337 455.9059988 548.180274 386.5312471 498.8279734 0.753269119 0.851579295 1.201017016 1.118817877 1.416498365 1.39723887 0.913954355 1.098936514 0.774878852 1 8.962398561 -6.759236733 24.98545686 0.877839539 1.194813602 0.55640243 0.150246391 39.52487633 448341.4101 0.02668576 0.036702283 1.74E-07 6.759236733 0.316974063 SQSKS(ph)PTGTPAR ddPTM_HeLa_SAHA_4h_R1 1 SQSKSPTGTPAR 12 1 Q13595 Q13595 TRA2A Transformer-2 protein homolog alpha 1 0 S(0.005)QS(0.145)KS(0.837)PT(0.008)GT(0.004)PAR 158.52 0.00078811 1832500 314.24 499.57 383.51 650.97 473.3 498.39 567.87 620.81 393.89 571.05 TRUE FALSE FALSE 347.293205 515.7563958 435.7727456 663.5704657 437.0358563 455.9243681 503.971773 604.9305791 391.1488874 595.6707602 0.583028794 0.865841385 0.731566454 1.11398865 0.733686938 0.765396589 0.846057599 1.015545196 0.656652825 1 9.218371333 SQSKSPT(ph)GTPAR ddPTM_HeLa_SAHA_4h_R1 1 SQSKSPTGTPAR 12 1 Q13595 Q13595 TRA2A Transformer-2 protein homolog alpha 1 0 SQS(0.096)KS(0.041)PT(0.859)GT(0.003)PAR 149.82 0.01915 1116700 220.53 300.05 303.87 485.91 291.83 382.71 396.62 373.36 245.94 359.75 TRUE FALSE FALSE 243.7263572 309.7718169 345.2798211 495.3154907 269.4700484 350.1009549 351.9912738 363.8099918 244.2284835 375.2605831 0.649485633 0.825484559 0.920106818 1.319924109 0.718087805 0.932954248 0.937991597 0.969486294 0.650823706 1 8.551748949 -6.647602939 5.186646831 0.829497295 0.971423199 0.209141879 0.16803261 0.359799799 15.05497556 0.029213942 0.041481119 2.25E-07 6.647602939 0.141925904 SQSLPNSLDYT(ph)QTSDPGR ddPTM_HeLa_SAHA_4h_R1 2 SQSLPNSLDYTQTSDPGR 18 0 H0YNE5;H0YLG5;Q96TC7 H0YNE5 RMDN3 Regulator of microtubule dynamics protein 3 1 0 S(0.017)QS(0.405)LPNS(0.082)LDYT(0.432)QT(0.037)S(0.028)DPGR;S(0.031)QS(0.075)LPNS(0.008)LDYT(0.831)QT(0.047)S(0.009)DPGR ; 142.55 0.00024406 38308600 2113.02 2552 1774.96 1799.39 2424.5 2406.92 2590.34 2173.78 2077.3 2121.83 TRUE FALSE FALSE 2335.277138 2634.686474 2016.842305 1834.219795 2238.735334 2201.836875 2298.868126 2118.177855 2062.8439 2213.312475 1.055105036 1.190381613 0.91123252 0.828721573 1.011486339 0.994815192 1.038655026 0.957017086 0.932016569 1 11.11199143 SQSLPNSLDYTQTS(ph)DPGR ddPTM_HeLa_SAHA_4h_R1 1 SQSLPNSLDYTQTSDPGR 18 0 H0YNE5;H0YLG5;Q96TC7 H0YNE5 RMDN3 Regulator of microtubule dynamics protein 3 1 0 S(0.001)QS(0.099)LPNS(0.162)LDYT(0.213)QT(0.002)S(0.522)DPGR 205.8 1.22E-16 124030000 1765.3 1900.3 1406.9 1549.5 1910 2026.6 2116.2 1982.9 1664.6 1485.7 TRUE FALSE FALSE 1950.982353 1961.870967 1598.625005 1579.492813 1763.656213 1853.922279 1878.079606 1932.180289 1653.015913 1549.755798 1.258896631 1.26592265 1.031533489 1.019188194 1.138022013 1.196267361 1.21185519 1.246764356 1.066629927 1 10.59782519 -9.511637043 1.279544072 1.00054723 1.176254718 0.285990694 0.084897488 0.423935278 1.248586826 0.064180027 0.015685539 3.08E-10 9.511637043 0.175707489 SQSLPT(ph)TLLSPVR ddPTM_HeLa_SAHA_4h_R1 1 SQSLPTTLLSPVR 13 0 E9PHV5;P28290-3;P28290;P28290-2;E7EUL7 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 S(0.016)QS(0.158)LPT(0.378)T(0.378)LLS(0.07)PVR 117.48 0.0022062 49811000 1226.3 1759.6 1751.3 1660.7 2027.5 1304 2119.3 1110.5 760.19 1435.5 TRUE FALSE FALSE 1355.28786 1816.612195 1989.958044 1692.84525 1872.153388 1192.891864 1880.830786 1082.095018 754.8997759 1497.39143 0.90509925 1.213184581 1.328949801 1.130529543 1.250276548 0.796646648 1.256071558 0.722653407 0.504143246 1 10.54823569 -7.274023718 24.73740288 0.955185756 1.1099004 0.17097859 0.235837185 984.9325448 1936106.763 0.030376365 0.034864604 5.32E-08 7.274023718 0.154714644 SQSLPTTLLS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 1 SQSLPTTLLSPVR 13 0 E9PHV5;P28290-3;P28290;P28290-2;E7EUL7 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 SQSLPTTLLS(0.999)PVR 104.9 0.0035522 4361900 908.87 1299.3 985.35 1046.5 1306.5 1198.5 1362.9 1143.7 907.79 657.11 TRUE FALSE FALSE 1004.469117 1341.398173 1119.628367 1066.756521 1206.396252 1096.381057 1209.542905 1114.44581 901.4726155 685.4412279 1.465434345 1.956984958 1.63344182 1.556306328 1.760028728 1.599525988 1.764619424 1.625880914 1.315171278 1 9.420889159 -8.350900743 0.70929213 1.030055656 1.696719322 0.637644746 0.151410754 0.190306876 0.20442794 0.059017292 0.031127235 4.46E-09 8.350900743 0.666663667 SQSPAAS(ph)DCSSSSSSASLPSSGR ddPTM_HeLa_SAHA_4h_R1 3 SQSPAASDCSSSSSSASLPSSGR 23 0 O95817;C9JFK9 O95817 BAG3 BAG family molecular chaperone regulator 3 1 0 SQS(0.006)PAAS(0.506)DCS(0.206)S(0.206)S(0.056)S(0.015)S(0.004)S(0.001)ASLPSSGR;S(0.054)QS(0.421)PAAS(0.523)DCS(0.001)S(0.001)SSSSASLPSSGR;S(0.002)QS(0.387)PAAS(0.611)DCSSSSSSASLPSSGR ;; 236.19 1.25E-39 307218100 1476.12 1151.777 1670.75 1414.68 1543.86 1555.36 1421.46 1718.76 1263.32 1510.06 TRUE FALSE FALSE 1631.385074 1189.095331 1898.431109 1442.063177 1425.56978 1422.834578 1261.51358 1674.796608 1254.528453 1575.166077 1.035690838 0.754901561 1.205225999 0.915499133 0.905028239 0.903291785 0.800876554 1.063250811 0.796442021 1 10.62128823 -6.045923818 24.99788822 1.008661835 0.908876988 0 0.135799841 581.3643088 316455.3503 0.016228882 0.026913249 9.00E-07 6.045923818 -0.099784846 SQSS(ph)DTEQQS(ph)PTSGGGK ddPTM_HeLa_SAHA_4h_R1 3 SQSSDTEQQSPTSGGGK 17 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 2 0 S(0.001)QS(0.163)S(0.833)DT(0.003)EQQS(0.917)PT(0.076)S(0.007)GGGK;S(0.102)QS(0.406)S(0.49)DT(0.002)EQQS(0.874)PT(0.115)S(0.01)GGGK;S(0.004)QS(0.022)S(0.957)DT(0.017)EQQS(0.952)PT(0.007)S(0.041)GGGK ;; 201.9 2.05E-14 77235000 7464.3 9738 6825.3 9373.1 11395.5 14725.3 11573.9 10552.5 12526.2 13882.7 TRUE FALSE FALSE 8249.429321 10053.51759 7755.416339 9554.529904 10522.37925 13470.6216 10271.57431 10282.58233 12439.02915 14481.25114 0.569662748 0.694243715 0.535548777 0.659786217 0.726620867 0.930211172 0.70930158 0.710061737 0.858974755 1 13.82189863 -9.436667924 1.159044885 1.000547921 0.683922089 0.418307237 0.107669491 0.304432235 0.729450541 0.077288226 0.019197995 3.66E-10 9.436667924 -0.316625832 SQSS(ph)DTEQQSPTSGGGK ddPTM_HeLa_SAHA_4h_R1 4 SQSSDTEQQSPTSGGGK 17 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 S(0.03)QS(0.295)S(0.61)DT(0.06)EQQS(0.005)PTSGGGK;S(0.001)QS(0.063)S(0.874)DT(0.063)EQQSPTSGGGK;S(0.003)QS(0.069)S(0.858)DT(0.069)EQQSPTSGGGK;S(0.003)QS(0.356)S(0.63)DT(0.011)EQQSPTSGGGK ;;; 289.32 4.23E-73 13723100 2417.84 2539.61 2147.49 2381.59 2544.82 2990.35 2900.5 2915.73 2723.87 2509.62 TRUE FALSE FALSE 2672.159505 2621.89503 2440.138754 2427.689118 2349.836441 2735.555357 2574.128106 2841.149849 2704.914367 2617.822 1.020756761 1.001555885 0.932125543 0.927369821 0.897630336 1.044973782 0.983309066 1.085310555 1.033269018 1 11.35415129 -3.81728969 1.915376582 0.991784063 1.296085404 0.274424797 0.047378917 5.114548757 6.035689224 0.007165771 4.249646282 0.000152304 3.81728969 0.304301341 SQSSDT(ph)EQQSPTSGGGK ddPTM_HeLa_SAHA_4h_R1 1 SQSSDTEQQSPTSGGGK 17 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 S(0.088)QS(0.292)S(0.088)DT(0.531)EQQSPTSGGGK 136.53 0.00013439 8748100 2349.6 2362.1 1630.6 1918.9 2095.9 2788.2 2653.1 2293.2 2203.1 2378.6 TRUE FALSE FALSE 2596.741708 2438.63359 1852.809676 1956.043084 1935.312595 2550.629674 2354.566205 2234.543265 2187.768448 2481.153087 1.046586655 0.98286301 0.74675347 0.788360499 0.780005315 1.028001733 0.948980624 0.900606769 0.881754721 1 11.27679504 -6.980295711 23.77791028 1.021616395 0.868878671 0.225282637 0.090934828 99.59795448 120187.8231 0.013859676 0.018213423 1.05E-07 6.980295711 -0.152737725 SQSSDTEQQS(ph)PTSGGGK ddPTM_HeLa_SAHA_4h_R1 11 SQSSDTEQQSPTSGGGK 17 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 SQS(0.002)S(0.006)DT(0.01)EQQS(0.591)PT(0.374)S(0.017)GGGK;SQSSDTEQQS(0.881)PT(0.117)S(0.003)GGGK;SQSSDTEQQS(0.999)PT(0.001)SGGGK;SQSSDTEQQS(0.998)PT(0.002)SGGGK;S(0.003)QS(0.099)S(0.011)DT(0.097)EQQS(0.79)PT(0.001)SGGGK;SQSSDTEQQS(1)PTSGGGK;SQSSDTEQQS(0.94)PT(0.052)S(0.007)GGGK;SQSSDTEQQS(0.999)PTSGGGK;SQSSDTEQQS(0.989)PT(0.011)SGGGK;SQSSDTEQQS(0.936)PT(0.063)S(0.001)GGGK;SQSSDTEQQS(0.921)PT(0.079)SGGGK ;;;;;;;;;; 317.01 7.19E-103 491051600 12408.16 14760.44 10040.93 16187.32 18164.59 21451.71 18289.71 15493.58 18585.75 19494.37 TRUE FALSE FALSE 13713.3072 15238.68794 11409.25565 16500.64899 16772.82304 19623.90362 16231.70369 15097.27666 18456.41025 20334.86769 0.674374056 0.74938712 0.561068595 0.811446095 0.824830694 0.965037192 0.798220276 0.742432992 0.907623818 1 14.31166798 -9.43423649 1.171250548 0.999660527 0.761048108 0.339921113 0.102187697 0.385382189 0.947641993 0.073901323 0.018617476 3.68E-10 9.43423649 -0.238612419 SQSSTS(ph)PEGQALENR ddPTM_HeLa_SAHA_4h_R1 1 SQSSTSPEGQALENR 15 0 O60239-2;O60239 O60239-2 SH3BP5 SH3 domain-binding protein 5 1 0 SQSS(0.009)T(0.034)S(0.957)PEGQALENR 142.19 0.00012803 4216900 586.01 771.27 476.99 503.82 726.8 624.95 748.6 677.04 517.35 476.02 TRUE FALSE FALSE 647.6492205 796.259654 541.9917131 513.5721646 671.112741 571.7007441 664.3655578 659.7222971 513.7497192 496.5435518 1.304315036 1.603604862 1.091529054 1.034294299 1.351568737 1.151360726 1.337980436 1.328629271 1.03465188 1 8.955776452 -9.183220427 0.997079069 1.004477526 1.27149949 0.313318153 0.151806959 0.517827624 0.948524072 0.093921162 0.028492456 6.56E-10 9.183220427 0.267021964 SQST(ph)TFNPDDMSEPEFK ddPTM_HeLa_SAHA_4h_R1 2 SQSTTFNPDDMSEPEFK 17 0 Q86W92-3;Q86W92-4;Q86W92;F5GZP6;Q86W92-2 Q86W92-3;Q86W92-2 PPFIBP1 Liprin-beta-1 1 0 S(0.001)QS(0.083)T(0.458)T(0.458)FNPDDMSEPEFK;S(0.005)QS(0.326)T(0.629)T(0.041)FNPDDMSEPEFK ; 266.29 8.08E-59 48926400 1472.04 2436.1 1768.7 1743.03 2191.8 2669.6 2599.6 2271.6 2459.5 2259.15 TRUE FALSE FALSE 1626.875921 2515.031238 2009.729225 1776.768866 2023.864758 2442.135061 2307.086166 2213.495761 2442.384139 2356.553013 0.690362539 1.067250015 0.852825807 0.753969402 0.858824201 1.036316624 0.979008812 0.939293854 1.036422319 1 11.20246242 -5.2780634 22.82599515 0.859599588 0.984286657 0.059995341 0.117771807 359.5988476 493756.115 0.018993036 0.042620445 5.27E-06 5.2780634 0.12468707 SQSTT(ph)FNPDDMSEPEFK ddPTM_HeLa_SAHA_4h_R1 1 SQSTTFNPDDMSEPEFK 17 0 Q86W92-3;Q86W92-4;Q86W92;F5GZP6;Q86W92-2 Q86W92-3;Q86W92-2 PPFIBP1 Liprin-beta-1 1 0 SQST(0.037)T(0.962)FNPDDMS(0.001)EPEFK 233.37 8.17E-28 36359000 2309.3 3275.7 2118.9 2281.9 2803.9 3512.4 3298.6 2300.2 2638.4 2796.7 TRUE FALSE FALSE 2552.202769 3381.834829 2407.652657 2326.069474 2589.065788 3213.12376 2927.432847 2241.364215 2620.03916 2917.279424 0.874857152 1.159242684 0.825307524 0.797342022 0.887493247 1.101411039 1.003480442 0.768306319 0.898110458 1 11.51040786 -9.642547114 1.446561051 1.000303767 0.925291049 0 0.125118197 1.209356821 4.518392139 0.087804484 0.019541072 2.28E-10 9.642547114 -0.075012717 SQSTTFNPDDMS(ph)EPEFK ddPTM_HeLa_SAHA_4h_R1 1 SQSTTFNPDDMSEPEFK 17 0 Q86W92-3;Q86W92-4;Q86W92;F5GZP6;Q86W92-2 Q86W92-3;Q86W92-2 PPFIBP1 Liprin-beta-1 1 0 S(0.001)QS(0.004)T(0.018)T(0.018)FNPDDMS(0.96)EPEFK 82.489 0.015024 9918500 1469 2031.4 1703.7 1558.7 1857.8 2118.9 2271.6 1930.8 1958.5 2108.4 TRUE FALSE FALSE 1623.51616 2097.218693 1935.871364 1588.870892 1715.455765 1938.357799 2015.993589 1881.412932 1944.870639 2199.303442 0.738195616 0.953583145 0.880220222 0.72244278 0.779999582 0.881350778 0.91665095 0.855458549 0.884312097 1 11.10283095 -9.564678774 1.329903749 1.000311416 0.830272238 0.143465645 0.079175234 0.365116986 1.15390423 0.055805512 0.013016444 2.72E-10 9.564678774 -0.170039178 SQT(ph)FSPGER ddPTM_HeLa_SAHA_4h_R1 1 SQTFSPGER 9 0 Q6AWC2-7;Q6AWC2-3;Q6AWC2-2;Q6AWC2-4;Q6AWC2;Q6AWC2-6 Q6AWC2-7 WWC2 Protein WWC2 1 0 S(0.193)QT(0.8)FS(0.007)PGER 106.26 0.012997 7066700 1414.1 1645 1597.7 1323.6 1781.2 1615.5 1625.6 1521.1 894.44 1340.4 TRUE FALSE FALSE 1562.841526 1698.299079 1815.426236 1349.220192 1644.724841 1477.850311 1442.68321 1482.192465 888.2155192 1398.191204 1.117759518 1.214640083 1.298410568 0.964975454 1.176323264 1.056972972 1.031821117 1.060078522 0.635260411 1 10.44934595 -1.000124248 16.56352965 1.08238252 5.18E-05 0 0.17275 0 0 0.013879745 0 0.099971395 1.000124248 -1.082330765 SQT(ph)PPGVATPPIPK ddPTM_HeLa_SAHA_4h_R1 3 SQTPPGVATPPIPK 14 0 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 1 0 S(0.056)QT(0.944)PPGVATPPIPK;S(0.015)QT(0.985)PPGVATPPIPK;S(0.015)QT(0.982)PPGVAT(0.003)PPIPK ;; 162.26 1.90E-05 96706000 11860.7 11104.8 10048.9 11366.8 12747.9 12875.2 13372.8 13040.7 12002.7 10928.7 TRUE FALSE FALSE 13108.26284 11464.60281 11418.31176 11586.82085 11771.15866 11778.16053 11868.05735 12707.13778 11919.17223 11399.88974 1.149858739 1.00567664 1.001615982 1.016397624 1.032567764 1.033181969 1.041067731 1.114671989 1.045551536 1 13.47673225 SQTPS(ph)PSTLNIDHMEQK ddPTM_HeLa_SAHA_4h_R1 1 SQTPSPSTLNIDHMEQK 17 0 A0A1B0GUI1;Q6GYQ0-3;Q6GYQ0-4;Q6GYQ0;Q6GYQ0-7;Q6GYQ0-5;Q6GYQ0-6;Q6GYQ0-2 A0A1B0GUI1 RALGAPA1 Ral GTPase-activating protein subunit alpha-1 1 0 S(0.003)QT(0.01)PS(0.986)PSTLNIDHMEQK 165.19 2.30E-06 4756600 1605.6 1928.9 1460.1 1921.4 2219 2374.3 2160.7 2301.4 1637.2 2307.1 TRUE FALSE FALSE 1774.484375 1991.397626 1659.074824 1958.591475 2048.980699 2171.996283 1917.572349 2242.53352 1625.806592 2406.570372 0.73734988 0.827483646 0.689393854 0.813851736 0.851411088 0.902527642 0.796807096 0.931837916 0.675569936 1 11.2327629 -9.45257645 1.181690312 1.000183873 0.810042441 0 0.120326289 0.315585921 0.787028182 0.048818592 0.012069592 3.53E-10 9.45257645 -0.190141432 SQTT(ph)SLENGVFPR ddPTM_HeLa_SAHA_4h_R1 1 SQTTSLENGVFPR 13 0 A0A087WX11;J3KNG8;Q8TF40-3;Q8TF40;Q8TF40-2 A0A087WX11 FNIP1 Folliculin-interacting protein 1 1 0 S(0.117)QT(0.057)T(0.725)S(0.101)LENGVFPR 108.66 0.0049876 5629900 1776.8 2177.7 1916.7 1974.7 2128.1 3918.2 2123.3 2144.6 2161.8 1951.3 TRUE FALSE FALSE 1963.691976 2248.258909 2177.897894 2012.923174 1965.045438 3584.347317 1884.380696 2089.744237 2146.755858 2035.430092 0.964755303 1.104562086 1.069993955 0.988942426 0.965420254 1.760977854 0.925789936 1.026684358 1.054693976 1 10.99111796 SQTTS(ph)LENGVFPR ddPTM_HeLa_SAHA_4h_R1 1 SQTTSLENGVFPR 13 0 A0A087WX11;J3KNG8;Q8TF40-3;Q8TF40;Q8TF40-2 A0A087WX11 FNIP1 Folliculin-interacting protein 1 1 0 SQTT(0.065)S(0.934)LENGVFPR 151.3 0.00015518 4579600 1001 791.63 903.33 1002.2 1118.4 1975.6 958.72 899.99 801.2 1227.6 TRUE FALSE FALSE 1106.289773 817.2793314 1026.431108 1021.59903 1032.708434 1807.267766 850.8423024 876.969559 795.624384 1280.527844 0.863932618 0.638236283 0.801568754 0.797795249 0.806470893 1.411345934 0.664446546 0.684850051 0.621325329 1 10.32252291 -8.693726452 1.043328396 0.985771874 0.841215437 0 0.236574744 0.986994167 2.157322998 0.079396929 0.04059142 2.02E-09 8.693726452 -0.144556437 SQTTT(ph)ERDSDT(ph)DVEEEELPVENR ddPTM_HeLa_SAHA_4h_R1 1 SQTTTERDSDTDVEEEELPVENR 23 1 Q14676;Q14676-3;Q14676-2;Q14676-4 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 2 0 S(0.013)QT(0.047)T(0.13)T(0.591)ERDS(0.236)DT(0.983)DVEEEELPVENR 92.225 0.00015499 14671000 2176.1 1647.5 1370.1 1589.9 1697.3 1884.8 2041.9 2342.3 1606.8 1753.4 TRUE FALSE FALSE 2404.992182 1700.880081 1556.810093 1620.674814 1567.253241 1724.204436 1812.140038 2282.387358 1595.618148 1828.997655 1.314923601 0.929952029 0.851182115 0.886099995 0.856891881 0.942704564 0.990783139 1.247889712 0.872400325 1 10.83683751 -7.228296013 24.81463254 1.148713934 0.947852742 0 0.154833894 587.6076565 439945.741 0.026071946 0.031930587 5.91E-08 7.228296013 -0.200861191 SQTTTERDS(ph)DTDVEEEELPVENR ddPTM_HeLa_SAHA_4h_R1 2 SQTTTERDSDTDVEEEELPVENR 23 1 Q14676;Q14676-3;Q14676-2;Q14676-4 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 1 0 S(0.004)QT(0.013)T(0.008)T(0.013)ERDS(0.951)DT(0.011)DVEEEELPVENR;S(0.002)QT(0.001)T(0.003)T(0.016)ERDS(0.942)DT(0.036)DVEEEELPVENR ; 136.67 1.05E-06 30581000 908.22 537.97 793.29 687.57 490.12 884.12 853.78 1049.92 873.61 748.77 TRUE FALSE FALSE 1003.750747 555.400581 901.3954299 700.8789116 452.5671115 808.7880021 757.7104274 1023.064567 867.5304769 781.0531391 1.285124784 0.711091926 1.154076957 0.897351123 0.579431909 1.035509572 0.970113798 1.309852705 1.110718892 1 9.609276895 -7.278405101 24.89849394 1.13464225 0.946491033 0.14102086 0.20433104 1126.468961 1653175.527 0.036494368 0.041789172 5.27E-08 7.278405101 -0.188151218 SQTVPSPT(ph)INNSGQYSR ddPTM_HeLa_SAHA_4h_R1 1 SQTVPSPTINNSGQYSR 17 0 Q9P2D1;Q9P2D1-4;Q9P2D1-2;Q9P2D1-3 Q9P2D1 CHD7 Chromodomain-helicase-DNA-binding protein 7 1 0 SQT(0.007)VPS(0.313)PT(0.546)INNS(0.022)GQYS(0.111)R 88.637 0.0096475 2882900 409.82 401.76 543.88 358.21 412.85 524.55 536.38 433.84 350.6 477.7 TRUE FALSE FALSE 452.9267479 414.7772876 617.997134 365.1436725 381.2175222 479.855389 476.0251107 422.743001 348.1601461 498.2959848 0.908951229 0.83239139 1.240220979 0.732784698 0.765042332 0.962992686 0.955305933 0.848377298 0.698701488 1 8.960859139 SQVEEELFSVR ddPTM_HeLa_SAHA_4h_R1 3 SQVEEELFSVR 11 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ;; ;; 163.12 0.001065 23980600 3706.58 3603 3173.99 3795.3 3848.8 4233.2 3822.97 3932.8 4123.4 3765.7 FALSE FALSE TRUE 4096.455091 3719.739564 3606.524828 3868.76352 3553.905775 3872.507545 3392.799354 3832.204671 4094.704924 3928.057756 1.042870382 0.946966617 0.918144552 0.984904948 0.90474886 0.985858097 0.86373459 0.975597842 1.042424826 1 11.93960043 -7.197853892 6.389935936 1.020202322 0.937970956 0.529894122 0.037933606 0.13201359 10.70104732 0.005862797 0.007178679 6.34E-08 7.197853892 -0.082231366 SQVMDEATALQLR ddPTM_HeLa_SAHA_4h_R1 2 SQVMDEATALQLR 13 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 105.2 0.015341 10283800 1009.29 891.18 924.41 1325.16 1338.51 1401.9 1067.17 1461.69 1053.25 1432.75 FALSE FALSE TRUE 1115.451753 920.0548167 1050.383781 1350.810388 1235.953653 1282.450233 947.089223 1424.302086 1045.920347 1494.522864 0.746359778 0.615617759 0.702822155 0.903840564 0.826988789 0.858100109 0.633706747 0.953014584 0.699835628 1 10.54546925 -9.197736227 0.994221087 0.996985166 0.775880332 0 0.138764168 0.428932678 0.777149494 0.064769738 0.019245609 6.34E-10 9.197736227 -0.221104834 SQVS(ph)SPCSR ddPTM_HeLa_SAHA_4h_R1 1 SQVSSPCSR 9 0 H0YCY5;E9PNY0;E9PM53;E5KP25;Q9UIF7-6;Q9UIF7-5;Q9UIF7-4;Q9UIF7-3;Q9UIF7-2;Q9UIF7 H0YCY5 MUTYH A/G-specific adenine DNA glycosylase 1 0 SQVS(0.488)S(0.488)PCS(0.025)R 104.07 0.0080957 2778000 1735.6 1910.8 1395.2 1740.4 1947.2 2771.9 2112.9 1891.9 2055.8 2059.4 TRUE FALSE FALSE 1918.158371 1972.711174 1585.33059 1774.087959 1798.005957 2535.718526 1875.150931 1843.507937 2041.49352 2148.190812 0.892918059 0.918312825 0.737984066 0.82585213 0.83698615 1.180397249 0.872897752 0.858167685 0.950331557 1 11.06890643 -8.996088471 0.867898689 0.997938911 0.892026235 0.082345431 0.108885007 1.032326281 1.45365813 0.066125646 0.022007471 1.01E-09 8.996088471 -0.105912676 SQVSS(ph)PCSR ddPTM_HeLa_SAHA_4h_R1 1 SQVSSPCSR 9 0 H0YCY5;E9PNY0;E9PM53;E5KP25;Q9UIF7-6;Q9UIF7-5;Q9UIF7-4;Q9UIF7-3;Q9UIF7-2;Q9UIF7 H0YCY5 MUTYH A/G-specific adenine DNA glycosylase 1 0 SQVS(0.241)S(0.749)PCS(0.009)R 94.82 0.014289 2906100 794.36 625.51 498 800.7 801.93 787.31 718.63 734.05 692.3 903.3 TRUE FALSE FALSE 877.9144295 645.7769344 565.8648465 816.1987063 740.4862966 720.2267587 637.7678611 715.2740639 687.4822279 942.2456836 0.931725605 0.685359398 0.600549152 0.866227058 0.785873907 0.764372574 0.676859414 0.759116307 0.729620989 1 9.879959471 -7.364009971 4.461973023 0.970470645 0.735253262 0.218522126 0.102295962 0.092206279 3.037610149 0.012524306 0.01425528 4.33E-08 7.364009971 -0.235217383 SQVVAGTNYFIK ddPTM_HeLa_SAHA_4h_R1 1 SQVVAGTNYFIK 12 0 P04080;A0A1W2PS52 P04080 CSTB Cystatin-B 0 0 130.56 0.0010394 518000 0 183.15 0 155.63 157.13 0 149.74 252.2 0 87.766 FALSE FALSE TRUE 0 189.0841802 0 158.6424437 145.0907333 0 132.8908611 245.7490892 0 91.55002178 0 2.065364666 0 1.732849874 1.584824673 0 1.451565587 2.684314918 0 1 6.516488324 -4.396305172 3.285141871 0.722757171 2.720284391 0.358014655 0.761304014 0.211380737 3.687536859 0.103194705 0.859355262 4.02E-05 4.396305172 1.99752722 SRADLES(ph)PQRK ddPTM_HeLa_SAHA_4h_R1 1 SRADLESPQRK 11 2 A0A087X1K6;Q9Y2Y9 A0A087X1K6 KLF13 Krueppel-like factor 13 1 0 SRADLES(1)PQRK 78.401 0.018165 10478000 1505.5 1396.6 1234.2 1414.9 1878.1 1513.4 1397.6 1939.2 1331 1415.5 TRUE FALSE FALSE 1663.855397 1441.850756 1402.390349 1442.287435 1734.200384 1384.449806 1240.33837 1889.598072 1321.737463 1476.529132 1.126869332 0.976513585 0.949788472 0.976809332 1.174511458 0.937637989 0.840036504 1.279756715 0.895165177 1 10.52799411 -7.233394965 24.79764621 1.059910534 1.010921002 0 0.132251595 2038.015038 1802072.034 0.019783123 0.02422583 5.84E-08 7.233394965 -0.048989532 SRAPTSVT(ph)PVAPGK ddPTM_HeLa_SAHA_4h_R1 2 SRAPTSVTPVAPGK 14 1 F5GZK9;Q8IZD4-2;Q8IZD4 F5GZK9 DCP1B mRNA-decapping enzyme 1B 1 0 S(0.139)RAPT(0.008)S(0.008)VT(0.844)PVAPGK;S(0.026)RAPT(0.026)S(0.008)VT(0.94)PVAPGK ; 90.706 0.0093 11661700 7979.8 7001.6 6450 7093.6 7488.7 7894.8 7169.3 6396.3 7144.9 6974.8 TRUE FALSE FALSE 8819.151977 7228.456434 7328.97241 7230.906886 6914.917424 7222.118625 6362.591495 6232.691908 7095.178059 7275.517762 1.212168297 0.993531549 1.007347195 0.993868357 0.950436471 0.992660435 0.874520784 0.856666441 0.975212802 1 12.82883421 -5.85361343 0.770456552 1.094339325 0.881117664 0.347694416 0.073359485 0.506255048 0.552406728 0.016879168 0.058554049 1.40E-06 5.85361343 -0.213221661 SRDAT(ph)PPVS(ph)PINMEDQER ddPTM_HeLa_SAHA_4h_R1 4 SRDATPPVSPINMEDQER 18 1 P17275 P17275 JUNB Transcription factor jun-B 2 0 S(0.004)RDAT(0.996)PPVS(1)PINMEDQER;S(0.015)RDAT(0.986)PPVS(1)PINMEDQER;S(0.484)RDAT(0.975)PPVS(0.541)PINMEDQER;S(0.035)RDAT(0.987)PPVS(0.978)PINMEDQER ;;; 129.42 0.00086866 37911500 5504.78 5648.4 4964.54 5839.1 6358.4 6545.7 6708.7 6959.1 5217.9 5578.46 TRUE FALSE FALSE 6083.798017 5831.411866 5641.081657 5952.124224 5871.220766 5987.969535 5953.81942 6781.096299 5181.588209 5818.974711 1.045510304 1.002137345 0.969428798 1.022881954 1.008978567 1.029042028 1.023173276 1.165342115 0.890464122 1 12.50654926 -4.258633049 4.79614471 1.016690052 1.173930206 0.528528361 0.044428986 0.062858785 4.095640759 0.003236886 0.032915551 5.51E-05 4.258633049 0.157240154 SRDAT(ph)PPVSPINMEDQER ddPTM_HeLa_SAHA_4h_R1 2 SRDATPPVSPINMEDQER 18 1 P17275 P17275 JUNB Transcription factor jun-B 1 0 S(0.023)RDAT(0.977)PPVSPINMEDQER;S(0.031)RDAT(0.967)PPVS(0.002)PINMEDQER ; 104.97 0.0017518 21024300 370.76 664.02 425.6 572.22 274.043 1851.92 414.35 3221.9 1574.61 1457.3 TRUE FALSE FALSE 409.7582379 685.5346837 483.5985516 583.2961455 253.0458845 1694.125997 367.7262475 3139.488463 1563.652161 1520.131335 0.269554497 0.450970694 0.318129454 0.38371431 0.166463172 1.114460283 0.241904261 2.065274487 1.028629649 1 10.56998026 -2.527367063 11.70189454 0.636724576 0.834490534 0 0.571525079 0 0 0.070471826 0 0.002969155 2.527367063 0.197765959 SRDPQLCR ddPTM_HeLa_SAHA_4h_R1 1 SRDPQLCR 8 1 I3L4S2;Q8TAT6;Q8TAT6-2 I3L4S2 NPLOC4 Nuclear protein localization protein 4 homolog 0 0 101.72 0.014976 326780 239.7 146.25 249.6 209.7 265.26 203.32 258.14 149.79 213.44 122.86 FALSE FALSE TRUE 264.9127458 150.988596 283.6141881 213.7590467 244.9358361 185.9959922 229.0934078 145.9585887 211.9546537 128.1570959 2.067093859 1.178152446 2.21301978 1.667945464 1.911215563 1.451312476 1.787598309 1.138903685 1.653865923 1 7.00176955 -9.519191095 1.249779848 0.99671304 1.726498703 0.003270177 0.387402614 0.363974034 1.01033615 0.228034975 0.053761312 3.03E-10 9.519191095 0.729785663 SRDS(ph)GDENEPIQER ddPTM_HeLa_SAHA_4h_R1 2 SRDSGDENEPIQER 14 1 Q8WX93-3;Q8WX93;Q8WX93-8;Q8WX93-2;Q8WX93-9;Q8WX93-5;Q8WX93-4;Q8WX93-7 Q8WX93-3 PALLD Palladin 1 0 S(0.026)RDS(0.974)GDENEPIQER;S(0.014)RDS(0.986)GDENEPIQER ; 187.56 8.88E-08 46102000 1979 1842.19 1641.96 1594.95 2359.91 2166.92 2060.42 1954.96 1962.06 1736.68 TRUE FALSE FALSE 2187.1603 1901.878165 1865.717758 1625.822564 2179.094206 1982.286225 1828.576119 1904.954954 1948.405865 1811.556774 1.20733743 1.049858438 1.029897481 0.897472598 1.202884854 1.094244604 1.009394873 1.051556861 1.075542259 1 10.8230143 -7.052964028 24.98538058 1.099524527 1.047504111 0.057566815 0.085275987 816.8900497 385359.7267 0.017123743 0.020972304 8.85E-08 7.052964028 -0.052020417 SRES(ph)LNVDVVK ddPTM_HeLa_SAHA_4h_R1 1 SRESLNVDVVK 11 1 Q07866-6;Q07866-4;G3V5R9;Q07866-7;H0YG16;Q07866-9;G3V3H3;H0YJT3;F8W6L3;E7EVH7;G5E9S8;H0YJU9;H0YJL0;G3V2E7;Q07866-8;Q07866-2;Q07866-3;Q07866-5;Q07866-10;Q07866;H0YGB8 Q07866-6 KLC1 Kinesin light chain 1 1 0 S(0.023)RES(0.977)LNVDVVK 88.951 0.0095656 4010000 1328.2 1733.5 1315.3 1806.8 2321.3 2260.4 2325.4 2160.4 2549.8 1462 TRUE FALSE FALSE 1467.90617 1789.666537 1494.542234 1841.773227 2143.442495 2067.801203 2063.739872 2105.140096 2532.055734 1525.033975 0.962539979 1.173525683 0.980005861 1.207693243 1.40550475 1.355905008 1.353241899 1.380388982 1.660327426 1 10.57462567 -6.057852338 2.494842646 0.997770098 1.372284856 0 0.218063658 0.065666286 0.80841013 0.009547547 0.017580423 8.75E-07 6.057852338 0.374514759 SRFWYFVSQLKK ddPTM_HeLa_SAHA_4h_R1 1 SRFWYFVSQLKK 12 2 M0R3D6;M0R1A7;M0R117;Q02543 M0R3D6 RPL18A 60S ribosomal protein L18a 0 0 89.266 0.0092947 745670 316.22 193.47 888.18 670.4 486.34 102.95 1031.9 0 0 141.07 FALSE FALSE TRUE 349.4814705 199.7385549 1009.216545 683.3765614 449.0767343 94.17808082 915.7878962 0 0 147.1522181 2.374965699 1.357360137 6.858316906 4.644011285 3.051783657 0.640004494 6.223405316 0 0 1 7.201165478 -7.614135932 1.158875257 1.410014789 3.457153533 0.181653352 2.16276463 0.581828604 1.599822051 0.459038046 0.461493535 2.43E-08 7.614135932 2.047138743 SRGFGFILFK ddPTM_HeLa_SAHA_4h_R1 1 SRGFGFILFK 10 1 Q99729-3;Q99729-4;D6R9P3;D6RD18;D6RBZ0;Q99729-2;Q99729 Q99729-3 HNRNPAB Heterogeneous nuclear ribonucleoprotein A/B 0 0 153.97 1.50E-07 1476500 1370.8 692.35 2618.5 1548.6 1321.4 36.737 2312.2 0 13.366 599.12 FALSE FALSE TRUE 1514.987033 714.7825943 2975.335543 1578.575392 1220.154617 33.60680092 2052.025171 0 13.27298492 624.9509952 2.424169327 1.143741829 4.760910161 2.525918679 1.952400471 0.053775098 3.283497724 0 0.021238441 1 9.287599257 -5.455483414 24.99568587 1.966202126 1.275124003 0.066380848 1.444904157 479.6790532 177902.5892 0.190756647 0.426544673 3.50E-06 5.455483414 -0.691078122 SRGFGFVLFK ddPTM_HeLa_SAHA_4h_R1 2 SRGFGFVLFK 10 1 Q14103-3;Q14103;H0YA96;D6RAF8;H0Y8G5;Q14103-4;Q14103-2;D6RF44;D6RBQ9;O14979-3;O14979-2;A0A087WUK2;O14979 Q14103-3;O14979-3 HNRNPD;HNRNPDL Heterogeneous nuclear ribonucleoprotein D0;Heterogeneous nuclear ribonucleoprotein D-like 0 0 ; ; 142.83 3.20E-05 11084500 2080.52 1255.31 4400.5 2774.61 2689.01 231.876 4064.5 115.06 160.18 1173.89 FALSE FALSE TRUE 2299.358639 1295.982868 5000.177223 2828.316589 2482.978635 212.1188603 3607.151763 112.1169318 159.0652943 1224.502143 1.877790621 1.058375337 4.083436891 2.309768591 2.027745439 0.173228656 2.945810903 0.091561238 0.129902014 1 10.25797958 -4.218515034 22.64982254 1.670797997 0.091543625 0.150822868 1.160479708 12344.92005 6513542.964 0.14451015 69.59166524 6.05E-05 4.218515034 -1.579254372 SRGPKS(ph)DDDGFEIVPIEDPAK ddPTM_HeLa_SAHA_4h_R1 2 SRGPKSDDDGFEIVPIEDPAK 21 2 Q8IY81 Q8IY81 FTSJ3 pre-rRNA processing protein FTSJ3 1 0 S(0.19)RGPKS(0.81)DDDGFEIVPIEDPAK;S(0.02)RGPKS(0.98)DDDGFEIVPIEDPAK ; 82.381 0.00087773 12793900 3904.1 4387.1 4541 4736.5 4776.6 5397.6 5368.9 4220.7 4273.7 4757.1 TRUE FALSE FALSE 4314.751151 4529.244918 5159.823831 4828.181807 4410.61794 4937.694114 4764.777242 4112.740606 4243.958974 4962.201862 0.869523504 0.912749026 1.03982546 0.972991817 0.888842909 0.995061114 0.960214311 0.828813644 0.855257221 1 12.27676471 -4.257105934 24.10353059 0.946165789 0.828813566 0.261299848 0.057895602 299.5802746 1666219.683 0.008417169 0.087539647 5.53E-05 4.257105934 -0.117352223 SRIPSPLQPEMQGT(ph)PDDEPSEPEPSPSTLIYR ddPTM_HeLa_SAHA_4h_R1 1 SRIPSPLQPEMQGTPDDEPSEPEPSPSTLIYR 32 1 Q96GY3;K7EMY4 Q96GY3 LIN37 Protein lin-37 homolog 1 0 S(0.025)RIPS(0.236)PLQPEMQGT(0.739)PDDEPSEPEPSPSTLIYR 110.46 6.34E-10 15358000 1159.4 789.83 858.31 924.86 1013.5 1374.1 1079.4 1106.5 920.47 981.3 TRUE FALSE FALSE 1281.351012 815.4210102 975.2760169 942.7620027 935.845849 1257.01895 957.9430712 1078.197332 914.0643743 1023.608645 1.251797762 0.796614032 0.952782122 0.921018015 0.914261376 1.228026898 0.935848945 1.053329646 0.892982273 1 9.999448522 -7.272924015 24.9812664 1.118904493 0.975291551 0 0.139091059 908.8852207 1976994.733 0.023439602 0.026928108 5.33E-08 7.272924015 -0.143612942 SRLDQELK ddPTM_HeLa_SAHA_4h_R1 2 SRLDQELK 8 1 P46781;B5MCT8;C9JM19;F2Z3C0;A8MXK4 P46781 RPS9 40S ribosomal protein S9 0 0 ; ; 104.42 0.012606 14598600 4615.5 4764.5 4464.8 5662.5 5900.4 4809.4 5645.5 4586.9 4249 4472.9 FALSE FALSE TRUE 5100.979467 4918.872926 5073.239692 5772.105876 5448.312627 4399.612063 5010.253482 4469.57374 4219.430863 4665.748609 1.093282106 1.054251598 1.087336699 1.237123206 1.167725286 0.942959519 1.073836998 0.957954257 0.904341664 1 12.18789286 -3.67094463 1.207144278 1.066624389 0.701889974 0.100407338 0.093094515 9.512990242 4.216626004 0.012750467 6.165085285 0.000213332 3.67094463 -0.364734415 SRLGDLYEEEMR ddPTM_HeLa_SAHA_4h_R1 3 SRLGDLYEEEMR 12 1 P08670;B0YJC4 P08670 VIM Vimentin 0 0 ;; ;; 213.99 2.47E-15 77815800 7418.6 5490.6 7590.8 6613.2 7716.5 7872.9 8218.6 5932.6 5383.1 6300.3 FALSE FALSE TRUE 8198.922386 5668.499043 8625.234693 6741.208049 7125.263437 7202.084628 7293.821498 5780.852682 5345.638569 6571.936766 1.247565623 0.862530977 1.312434218 1.025756682 1.084195374 1.095884651 1.10984353 0.879626948 0.813403835 1 12.68210288 -4.260667803 23.39103969 1.10514866 0.879626822 0.052161779 0.15004483 30.7045695 930367.5772 0.016938779 0.135915695 5.49E-05 4.260667803 -0.225521838 SRLS(ph)SSSSNDSGNK ddPTM_HeLa_SAHA_4h_R1 1 SRLSSSSSNDSGNK 14 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 S(0.009)RLS(0.971)S(0.01)S(0.01)SSNDSGNK 140.89 0.0001228 1332100 173.06 319.25 323.14 449.28 536.88 350.91 307.39 320.72 475.49 456.27 TRUE FALSE FALSE 191.2632448 329.5939095 367.1758364 457.9764641 495.7443704 321.0104938 272.8016682 312.5164468 472.1810264 475.9420326 0.401862478 0.692508513 0.771471757 0.962252612 1.041606617 0.674473931 0.573182551 0.656627121 0.992097764 1 8.894642061 -9.722875135 1.645321454 0.999605824 0.677320129 0.251459935 0.176202149 0.451909684 2.213927002 0.154796101 0.034010893 1.89E-10 9.722875135 -0.322285695 SRLT(ph)PVS(ph)PESSSTEEK ddPTM_HeLa_SAHA_4h_R1 1 SRLTPVSPESSSTEEK 16 1 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 2 0 S(0.402)RLT(0.598)PVS(0.947)PES(0.044)S(0.005)S(0.003)T(0.001)EEK 150.92 0.00032428 59801000 2420.7 2026.7 2086.4 2776.4 2599.9 2498.6 2662.9 2732.5 2322.1 1960.2 TRUE FALSE FALSE 2675.320333 2092.36641 2370.723726 2830.141237 2400.696224 2285.705223 2363.263484 2662.606607 2305.940317 2044.713815 1.308408205 1.023305264 1.159440362 1.384125845 1.174098892 1.117860703 1.155791811 1.302190354 1.127757 1 10.99768322 -9.525493123 1.238892447 0.998238138 1.209497432 0.180391581 0.106140236 0.411559838 1.115630917 0.074670465 0.017269408 2.98E-10 9.525493123 0.211259294 SRLT(ph)PVSPES(ph)SSTEEK ddPTM_HeLa_SAHA_4h_R1 3 SRLTPVSPESSSTEEK 16 1 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 2 0 S(0.194)RLT(0.806)PVS(0.081)PES(0.845)S(0.061)S(0.011)T(0.002)EEK;SRLT(1)PVS(0.01)PES(0.821)S(0.14)S(0.024)T(0.004)EEK;S(0.013)RLT(0.987)PVS(0.057)PES(0.511)S(0.35)S(0.068)T(0.013)EEK ;; 227.64 1.21E-26 155477000 6561.2 6838.6 7059.4 7020.9 6910.2 7109.3 8945.1 7766.3 6496.2 5679.2 TRUE FALSE FALSE 7251.33712 7060.175127 8021.418268 7156.799672 6380.741969 6503.547644 7938.573806 7567.649291 6450.992415 5924.058105 1.224048953 1.191780196 1.354041119 1.208090728 1.0770897 1.097819692 1.340056709 1.277443461 1.088948201 1 12.53237008 -9.139170425 0.725448896 0.987183902 1.221056169 0.372074005 0.088932636 0.574133515 0.503975392 0.079699044 0.018928671 7.26E-10 9.139170425 0.233872267 SRLT(ph)PVSPESSSTEEK ddPTM_HeLa_SAHA_4h_R1 8 SRLTPVSPESSSTEEK 16 1 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 1 0 S(0.09)RLT(0.907)PVS(0.003)PESSSTEEK;SRLT(1)PVSPESSSTEEK;S(0.014)RLT(0.986)PVSPESSSTEEK;S(0.019)RLT(0.981)PVSPESSSTEEK;S(0.089)RLT(0.911)PVSPESSSTEEK;S(0.001)RLT(0.994)PVS(0.005)PESSSTEEK;S(0.018)RLT(0.588)PVS(0.389)PES(0.004)S(0.001)STEEK;S(0.102)RLT(0.894)PVS(0.004)PESSSTEEK ;;;;;;; 191.41 4.57E-10 1798817800 21024 19603.86 20481.1 22281.8 20963.94 20891.4 23987.3 23172.9 20167.78 17965.25 TRUE FALSE FALSE 23235.40078 20239.03793 23272.15765 22713.09646 19357.68745 19111.33519 21288.18587 22580.17077 20027.43078 18739.81985 1.239894565 1.080001734 1.241855996 1.212023202 1.03297084 1.019824915 1.135986688 1.204929981 1.068709888 1 14.19381946 -2.77280437 2.00678449 1.118101023 28.05402986 0.089059997 0.086041464 1154.953344 19.14954743 0.015238659 141843.9101 0.001687313 2.77280437 26.93592883 SRLTPVS(ph)PESSSTEEK ddPTM_HeLa_SAHA_4h_R1 2 SRLTPVSPESSSTEEK 16 1 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 1 0 SRLTPVS(0.999)PES(0.001)SSTEEK;SRLT(0.005)PVS(0.983)PES(0.008)S(0.002)S(0.002)TEEK ; 202.84 1.41E-14 194926000 5395.4 4194.8 4726.3 4513 4716.7 4842.5 5518 5375.1 3644.6 3914.9 TRUE FALSE FALSE 5962.912927 4330.714272 5370.37555 4600.355641 4355.307465 4429.891757 4897.100117 5237.612725 3619.236932 4083.690498 1.460177486 1.060490327 1.315078984 1.126519173 1.066512623 1.084776566 1.199184933 1.282568482 0.886266218 1 11.99565781 SRLTPVSPES(ph)SSTEEK ddPTM_HeLa_SAHA_4h_R1 1 SRLTPVSPESSSTEEK 16 1 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 1 0 SRLTPVS(0.035)PES(0.961)S(0.002)S(0.002)T(0.001)EEK 220.97 3.35E-20 176390000 1435.4 2048.8 1053.9 1282.4 1297 1122.6 1390.6 1470 997.9 1293.6 TRUE FALSE FALSE 1586.381958 2115.182464 1197.520004 1307.222706 1197.62414 1026.948164 1234.126028 1432.399529 990.9555327 1349.373427 1.175643396 1.56752936 0.887463752 0.968762746 0.887540926 0.761055571 0.914591916 1.061529374 0.734381983 1 10.39807394 SRNT(ph)DEMVELR ddPTM_HeLa_SAHA_4h_R1 1 SRNTDEMVELR 11 1 P61978;P61978-2;P61978-3;Q5T6W2;S4R457 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 1 0 S(0.372)RNT(0.628)DEMVELR 94.09 0.013397 3542800 735.66 626.31 627.93 653.03 630.46 737.93 550.35 629.66 757.28 594.36 TRUE FALSE FALSE 813.0400941 646.6028549 713.5010303 665.6703399 582.154291 675.0542125 488.4231696 613.5542089 752.0100268 619.9857683 1.311385092 1.04293177 1.15083453 1.073686484 0.938980088 1.08882211 0.787797389 0.989626279 1.21294724 1 9.276091289 -5.724051091 1.122262964 1.14383422 0.919935162 0.420931108 0.105836972 0.459903266 1.126740015 0.021740684 0.064991491 1.89E-06 5.724051091 -0.223899058 SRNTDEMVELR ddPTM_HeLa_SAHA_4h_R1 8 SRNTDEMVELR 11 1 P61978;P61978-2;P61978-3;Q5T6W2;S4R457 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 ;;;;;;; ;;;;;;; 167.2 0.00019764 54377700 14626.4 12440.2 13259.6 13681.1 14501.9 15451.5 14762.7 13904.3 11745.7 13331.8 FALSE FALSE TRUE 16164.87186 12843.27064 15066.54923 13945.91747 13390.76755 14134.94527 13101.56214 13548.64814 11663.96072 13906.59914 1.162388568 0.923537848 1.083410047 1.002827315 0.962907424 1.016419984 0.942111152 0.974260349 0.838735668 1 13.76348203 -6.323191001 1.069606439 1.070342968 0.971561712 0 0.095289977 0.540717973 1.225915103 0.013368522 0.026594758 4.75E-07 6.323191001 -0.098781256 SRPTPQDYEMRVS(ph)PSDTTPLVSR ddPTM_HeLa_SAHA_4h_R1 1 SRPTPQDYEMRVSPSDTTPLVSR 23 2 Q9HCK8-2;Q9HCK8;H0YJG4 Q9HCK8-2 CHD8 Chromodomain-helicase-DNA-binding protein 8 1 0 SRPTPQDYEMRVS(0.984)PS(0.014)DT(0.001)T(0.001)PLVSR 104.68 5.89E-05 10051000 560.72 691.67 555.01 628.03 855.57 623.52 830.27 881.31 685.84 491.72 TRUE FALSE FALSE 619.6991023 714.0805618 630.6438724 640.1864288 790.0164114 570.3925882 736.8458344 858.7673663 681.0671836 512.9204556 1.20817779 1.392185775 1.229515933 1.248120292 1.540231829 1.112048821 1.436569406 1.674270068 1.327822231 1 9.002591298 -1.000000003 0.057675856 0.422262207 3.082188082 0.220546995 0.168503837 166.6076384 0.727198731 7.16636744 37.8801306 0.099999999 1.000000003 2.659925875 SRPTS(ph)EGSDIES(ph)TEPQK ddPTM_HeLa_SAHA_4h_R1 1 SRPTSEGSDIESTEPQK 17 1 Q4G0J3;Q4G0J3-3;H0YA82;D6RFF0 Q4G0J3 LARP7 La-related protein 7 2 0 S(0.002)RPT(0.017)S(0.98)EGS(0.003)DIES(0.833)T(0.164)EPQK 123.59 0.0062136 12943000 2115.3 2525.9 2365.1 2731.5 3052.1 3109 2715.3 2933.1 2872.8 2639.6 TRUE FALSE FALSE 2337.796959 2607.740817 2687.403511 2784.372132 2818.248757 2844.095709 2409.767298 2858.075549 2852.807951 2753.406074 0.849056367 0.947096341 0.976028758 1.011246455 1.023549989 1.032937254 0.875195025 1.038014544 1.036101423 1 11.42700168 -6.761861586 3.465641894 0.927569423 0.992637668 0 0.064950955 0.332592895 8.455815281 0.011279452 0.015674574 1.73E-07 6.761861586 0.065068245 SRPTSEGS(ph)DIESTEPQK ddPTM_HeLa_SAHA_4h_R1 5 SRPTSEGSDIESTEPQK 17 1 Q4G0J3;Q4G0J3-3;H0YA82;D6RFF0 Q4G0J3 LARP7 La-related protein 7 1 0 SRPTS(0.008)EGS(0.991)DIESTEPQK;S(0.001)RPT(0.001)S(0.001)EGS(0.939)DIES(0.052)T(0.006)EPQK;SRPTSEGS(1)DIESTEPQK;SRPTS(0.002)EGS(0.998)DIESTEPQK;SRPT(0.003)S(0.008)EGS(0.951)DIES(0.027)T(0.01)EPQK ;;;; 294.85 6.55E-86 134017000 7917.12 9549.46 6999.08 9228.1 9022.8 9407.3 9179.75 8757.5 11352.7 8130.79 TRUE FALSE FALSE 8749.879007 9858.86877 7952.878173 9406.72322 8331.475013 8605.745116 8146.82037 8533.495831 11273.69564 8481.348148 1.031661341 1.162417648 0.937690333 1.109107073 0.982329091 1.014667122 0.96055724 1.006148513 1.329233919 1 13.05007789 SRPTSEGS(ph)DIESTEPQKQCSK ddPTM_HeLa_SAHA_4h_R1 3 SRPTSEGSDIESTEPQKQCSK 21 2 Q4G0J3;Q4G0J3-3;H0YA82;D6RFF0 Q4G0J3 LARP7 La-related protein 7 1 0 S(0.004)RPT(0.164)S(0.164)EGS(0.373)DIES(0.129)T(0.164)EPQKQCSK;S(0.002)RPT(0.14)S(0.216)EGS(0.641)DIESTEPQKQCSK;S(0.003)RPT(0.058)S(0.058)EGS(0.857)DIES(0.017)T(0.007)EPQKQCS(0.001)K ;; 99.943 0.00021336 34978200 3043.34 1785.28 3037.12 4706.53 2601.79 2558.19 3044.99 5101.45 2869.21 3015.69 TRUE FALSE FALSE 3363.452465 1843.124243 3451.002897 4797.631694 2402.441412 2340.21782 2702.359711 4970.962296 2849.242934 3145.711154 1.069218469 0.585916555 1.097050151 1.525134209 0.763719647 0.743939194 0.859061617 1.580234819 0.905754786 1 11.61917049 -4.253014321 24.3378034 0.994769272 1.580235248 0.358607769 0.246397804 660.0967138 1906784.56 0.033247592 0.500018832 5.58E-05 4.253014321 0.585465977 SRQPS(ph)GAGLCDISEGTVVPEDR ddPTM_HeLa_SAHA_4h_R1 1 SRQPSGAGLCDISEGTVVPEDR 22 1 H0Y332;Q5T5C0-3;Q5T5C0-2;Q5T5C0 H0Y332 STXBP5 Syntaxin-binding protein 5 1 0 S(0.076)RQPS(0.924)GAGLCDISEGTVVPEDR 88.09 0.00027153 3997200 491.81 599.32 516.51 527.73 736.83 875.61 582.66 836.45 596.08 605.97 TRUE FALSE FALSE 543.5408323 618.7383612 586.8972929 537.9449773 680.3742446 801.003102 517.0975633 815.0548202 591.9318307 632.0963322 0.859901892 0.978867191 0.928493432 0.851049041 1.07637746 1.267216817 0.818067654 1.28944716 0.936458259 1 9.304000633 -5.645672712 6.646089874 0.930654713 1.106359444 0.343470936 0.12696235 0.196650549 10.72962934 0.017340071 0.034849579 2.26E-06 5.645672712 0.175704731 SRS(ph)APPNLWAAQR ddPTM_HeLa_SAHA_4h_R1 2 SRSAPPNLWAAQR 13 1 Q92934;F5H1R6;F5H3B1 Q92934 BAD Bcl2-associated agonist of cell death 1 0 S(0.058)RS(0.942)APPNLWAAQR;S(0.002)RS(0.998)APPNLWAAQR ; 133.25 0.00037312 25729000 1402.19 1391.4 1894.62 2127.84 1830.07 2027.57 2510.15 2330.4 1394.66 1594.92 TRUE FALSE FALSE 1549.678778 1436.482273 2152.808947 2169.02742 1689.850432 1854.809629 2227.701316 2270.791742 1384.954448 1663.684807 0.931473781 0.863434148 1.294000485 1.30374901 1.015727514 1.114880428 1.339016445 1.36491704 0.83246204 1 10.70016642 -6.757332183 24.99999974 0.958920759 1.230465753 0.667103268 0.112379007 55.62575288 338585.2753 0.017726276 0.024552303 1.75E-07 6.757332183 0.271544994 SRS(ph)DIDVNAAAGAK ddPTM_HeLa_SAHA_4h_R1 3 SRSDIDVNAAAGAK 14 1 E3W994;J3KR49;O75122;A0A0U1RQI6;B3KR06;E7ENG2;O75122-2;E7ERI8;E7EW49;O75122-3 E3W994;E7ERI8 CLASP2 CLIP-associating protein 2 1 0 S(0.085)RS(0.915)DIDVNAAAGAK;S(0.01)RS(0.99)DIDVNAAAGAK;S(0.003)RS(0.997)DIDVNAAAGAK ;; 186.96 9.40E-08 406536000 5621.8 5096.7 5488.8 6485.7 5767.9 6018.1 5906 6253.8 5456.8 5078.4 TRUE FALSE FALSE 6213.126718 5261.836424 6236.78508 6611.240102 5325.964748 5505.324023 5241.441336 6093.836851 5418.825685 5297.354677 1.172873462 0.993295096 1.177339533 1.248026705 1.005400822 1.039259094 0.989445045 1.1503547 1.022930503 1 12.37105639 -3.914704474 19.14847601 1.081824856 4.09726193 0.055541738 0.089007772 748.7470213 174820.5594 0.013040401 3894.945319 0.000121701 3.914704474 3.015437073 SRS(ph)DIDVNAAASAK ddPTM_HeLa_SAHA_4h_R1 5 SRSDIDVNAAASAK 14 1 H0Y5T1;Q7Z460-2;Q7Z460-3;F8WA11;Q7Z460-5;Q7Z460;Q7Z460-4 H0Y5T1;Q7Z460-4 CLASP1 CLIP-associating protein 1 1 0 S(0.017)RS(0.983)DIDVNAAASAK;S(0.341)RS(0.659)DIDVNAAASAK;S(0.149)RS(0.851)DIDVNAAASAK;S(0.157)RS(0.843)DIDVNAAASAK;S(0.248)RS(0.752)DIDVNAAASAK ;;;; 190.96 7.96E-09 603556300 16650.62 15698.09 14527.99 17153.9 16643.28 18103.76 16577.04 18178.34 14977.83 14237.11 TRUE FALSE FALSE 18402.00861 16206.71842 16507.78882 17485.93854 15368.07548 16561.2178 14711.74783 17713.36438 14873.59806 14850.94149 1.239113939 1.091292322 1.111565138 1.17742963 1.03482163 1.115162821 0.990627284 1.192743531 1.001525599 1 13.85826677 -5.74657831 24.99514228 1.117661874 1.078989732 0 0.083901393 818.1663569 1376081.366 0.014311734 0.028534083 1.79E-06 5.74657831 -0.038672142 SRS(ph)DVDMDAAAEATR ddPTM_HeLa_SAHA_4h_R1 1 SRSDVDMDAAAEATR 15 1 O15085;O15085-2 O15085 ARHGEF11 Rho guanine nucleotide exchange factor 11 1 0 S(0.056)RS(0.944)DVDMDAAAEATR 151.59 0.00023032 8871700 589.3 815.39 855.65 527.86 525.28 787.75 623.49 569.01 426.7 586.44 TRUE FALSE FALSE 651.2852778 841.809171 972.253526 538.0774936 485.0331599 720.6292682 553.3332643 554.4555481 423.73056 611.7242984 1.064671257 1.376125116 1.58936555 0.879607848 0.792895036 1.178029498 0.904546813 0.906381436 0.692682244 1 9.256737772 SRS(ph)ESETSTMAAK ddPTM_HeLa_SAHA_4h_R1 1 SRSESETSTMAAK 13 1 A0A087WVF1;Q96B23-2;Q96B23 A0A087WVF1 C18orf25 Uncharacterized protein C18orf25 1 0 S(0.004)RS(0.394)ES(0.394)ET(0.194)S(0.013)TMAAK 181.75 2.09E-05 17043000 1529.1 1812.1 1496 1670.2 1994.9 2561.3 2203.4 1892.9 1688.4 1754.4 TRUE FALSE FALSE 1689.937754 1870.813229 1699.867089 1702.529136 1842.051193 2343.062831 1955.467633 1844.482359 1676.650287 1830.04077 0.92344268 1.022279536 0.928868426 0.930323064 1.006562927 1.280333678 1.068537743 1.007891403 0.916181931 1 10.83766007 -5.505996613 24.40066718 0.963088298 1.118810252 0.51117714 0.071974129 328.6540436 475020.8898 0.00997364 0.02179214 3.12E-06 5.505996613 0.155721953 SRS(ph)FSSSAEEHS ddPTM_HeLa_SAHA_4h_R1 1 SRSFSSSAEEHS 12 1 Q96EQ0 Q96EQ0 SGTB Small glutamine-rich tetratricopeptide repeat-containing protein beta 1 0 S(0.212)RS(0.778)FS(0.003)S(0.003)S(0.003)AEEHS 105.66 0.017801 5219100 813.15 775.27 454.71 1025.9 1084.2 1133.2 1529.3 1186.4 824.83 1102.8 TRUE FALSE FALSE 898.6808479 800.3892567 516.6755108 1045.757778 1001.12883 1036.644985 1357.219139 1156.053606 819.0899409 1150.347105 0.781225809 0.69578065 0.449147486 0.909080201 0.870284131 0.901158425 1.179834446 1.004960677 0.712037208 1 10.16785353 -4.899108297 5.228150309 0.845392115 1.090184182 0.336195685 0.156729615 0.218773171 9.34403574 0.024562243 0.076965673 1.26E-05 4.899108297 0.244792067 SRS(ph)FTLDDESLK ddPTM_HeLa_SAHA_4h_R1 4 SRSFTLDDESLK 12 1 Q86WR7-2;Q86WR7;X6RHS9 Q86WR7-2 PROSER2 Proline and serine-rich protein 2 1 0 S(0.067)RS(0.922)FT(0.011)LDDESLK;S(0.003)RS(0.951)FT(0.046)LDDESLK;S(0.2)RS(0.777)FT(0.024)LDDESLK;S(0.011)RS(0.987)FT(0.002)LDDESLK ;;; 133.96 0.00053489 53528900 7913.7 7956.7 7061.2 7538 9537.7 9885.3 9892.3 10148.7 7954.9 7333.1 TRUE FALSE FALSE 8746.099275 8214.502301 8023.463563 7683.90889 8806.923487 9043.016827 8779.192369 9889.110949 7899.541203 7649.265828 1.143390682 1.073894212 1.048919431 1.004528939 1.151342323 1.182207159 1.147716992 1.292818314 1.032718875 1 12.90110557 -1 0.39489536 1.058470407 4.523066932 0.684698746 0.049293264 36.08260886 0.429366887 0.01556711 97.96009867 0.1 1 3.464596525 SRS(ph)GEGEVSGLMR ddPTM_HeLa_SAHA_4h_R1 1 SRSGEGEVSGLMR 13 1 Q13263;Q13263-2;M0R0K9 Q13263 TRIM28 Transcription intermediary factor 1-beta 1 0 S(0.007)RS(0.992)GEGEVS(0.001)GLMR 140.31 0.0017039 73909000 1841.9 1649.3 1816.4 1901.8 2387.8 2100 2288.9 2367.5 1586.8 1815.9 TRUE FALSE FALSE 2035.639493 1702.738402 2063.929533 1938.612089 2204.84728 1921.068186 2031.346948 2306.942778 1575.75733 1894.192336 1.074674126 0.898925822 1.089609272 1.023450498 1.164003907 1.014188554 1.072407965 1.217903132 0.831888769 1 10.88736711 -5.790054495 24.65005119 1.028513026 1.106579098 0.254735279 0.093568423 201.5685012 173637.5489 0.010158816 0.018416842 1.62E-06 5.790054495 0.078066072 SRS(ph)GSSQELDVKPSASPQER ddPTM_HeLa_SAHA_4h_R1 2 SRSGSSQELDVKPSASPQER 20 2 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.052)RS(0.639)GS(0.245)S(0.064)QELDVKPSASPQER;S(0.203)RS(0.555)GS(0.142)S(0.1)QELDVKPSASPQER ; 86.997 0.0012988 17294200 2103.3 1431.99 1915 1830.58 2110.28 2139.84 1992.97 2322.36 1837.19 1546.1 TRUE FALSE FALSE 2324.534744 1478.387416 2175.966227 1866.013523 1948.590802 1957.513594 1768.71577 2262.957394 1824.404845 1612.759937 1.441339588 0.916681635 1.349218924 1.157031173 1.208233635 1.213766258 1.096701207 1.403158239 1.131231501 1 10.65531599 -9.690588684 1.570798031 1.000168061 1.247869885 0.112420344 0.151582123 0.422426081 1.880569863 0.10723385 0.023844548 2.04E-10 9.690588684 0.247701823 SRS(ph)LPAFPTS(ph)S(ph)LLT(ph)QSQK ddPTM_HeLa_SAHA_4h_R1 1 SRSLPAFPTSSLLTQSQK 18 1 Q99698 Q99698 LYST Lysosomal-trafficking regulator 4 0 S(0.461)RS(0.538)LPAFPT(0.002)S(0.76)S(0.76)LLT(0.796)QS(0.683)QK 66.871 0.0048066 0 1002.4 1227.2 958.29 1020.1 1246.9 1314.2 1274.2 1242.1 1384 1289.4 TRUE FALSE FALSE 1107.837031 1266.962085 1088.880771 1039.845511 1151.362791 1202.222767 1130.823662 1210.328881 1374.368631 1344.992344 0.823675344 0.941984607 0.809581389 0.773123739 0.856036688 0.893851011 0.840765873 0.899877896 1.02184123 1 10.39338225 -9.367700958 0.826572705 1.011373634 0.851526236 0.636268465 0.046811889 0.42265844 0.455511498 0.045654613 0.008962518 4.29E-10 9.367700958 -0.159847398 SRS(ph)LSNS(ph)NPDISGTPTSPDDEVR ddPTM_HeLa_SAHA_4h_R1 1 SRSLSNSNPDISGTPTSPDDEVR 23 1 Q96N67-2;Q96N67-6;Q96N67;Q96N67-4;Q96N67-3;Q96N67-5;A0A0U1RRC1;A0A0U1RQJ5 Q96N67-2 DOCK7 Dedicator of cytokinesis protein 7 2 0 S(0.026)RS(0.554)LS(0.554)NS(0.866)NPDISGTPTSPDDEVR 99.569 0.00063641 6017600 359.35 452.62 407.13 223.49 607.14 632.03 616.16 418.69 348.91 458.59 TRUE FALSE FALSE 397.1480818 467.285185 462.6115562 227.8159721 560.6210644 578.1774883 546.8280552 407.9805161 346.4819069 478.3620592 0.830224877 0.976844162 0.967074096 0.476241725 1.171959719 1.20866084 1.143125891 0.852869721 0.724308921 1 8.901959158 SRS(ph)PES(ph)QVIGENTKQP ddPTM_HeLa_SAHA_4h_R1 1 SRSPESQVIGENTKQP 16 2 O95218-2 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 2 0 S(0.259)RS(0.742)PES(0.978)QVIGENT(0.02)KQP 80.508 0.0056375 0 989.71 858.93 1005.4 1051.9 1081.2 1104.6 772.98 939.02 953.92 862.57 TRUE FALSE FALSE 1093.812239 886.7598956 1142.410676 1072.261046 998.3586896 1010.481866 686.002256 915.0012281 947.2815931 899.759614 1.215671632 0.985552009 1.269684323 1.191719465 1.109583798 1.123057592 0.76242837 1.016939651 1.052816306 1 9.813395802 -4.782081435 24.85699421 1.115668253 0.889684035 0.44069534 0.103075125 143.1681654 172402.3498 0.015526718 0.046655979 1.65E-05 4.782081435 -0.225984218 SRS(ph)PFSTTR ddPTM_HeLa_SAHA_4h_R1 1 SRSPFSTTR 9 1 K7EPI8;Q8NG27-2;Q8NG27-3;Q8NG27 K7EPI8 PJA1 E3 ubiquitin-protein ligase Praja-1 1 0 S(0.009)RS(0.986)PFS(0.004)T(0.001)TR 119.03 0.016913 3978000 1835.7 2293.9 1815.8 1737.3 2070.4 2246.1 1872 1996.1 2423.8 2196.8 TRUE FALSE FALSE 2028.787348 2368.223865 2063.247768 1770.927954 1911.766399 2054.719644 1661.357633 1945.042652 2406.932578 2291.514799 0.885347696 1.033475265 0.900385967 0.772819776 0.834280625 0.896664357 0.725004104 0.848802134 1.05036746 1 11.16208589 -6.476896676 5.868442324 0.951691733 0.817214471 0.603386924 0.064258768 0.12754529 10.90624962 0.009625375 0.014594171 3.34E-07 6.476896676 -0.134477261 SRS(ph)PGSPVGEGTGSPPK ddPTM_HeLa_SAHA_4h_R1 1 SRSPGSPVGEGTGSPPK 17 1 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;H0Y9H2;A0A0A0MSR2 E7EV99 ADD1 Alpha-adducin 1 0 S(0.364)RS(0.428)PGS(0.207)PVGEGTGS(0.001)PPK 101.16 0.001623 20531000 1801.4 2144.4 1504.5 1637.4 1810.5 2065.1 1824.6 1750.9 1954 1452.3 TRUE FALSE FALSE 1990.879517 2213.879967 1709.525425 1669.094245 1671.779881 1889.141862 1619.291206 1706.114513 1940.401955 1514.91576 1.314184966 1.461388168 1.128462367 1.101773635 1.103546431 1.247027664 1.068898515 1.126210815 1.28086459 1 10.56502186 -4.734803414 24.97426873 1.171019572 1.097554655 0.053457492 0.128336362 722.3600722 677284.2012 0.021516475 0.080459725 1.84E-05 4.734803414 -0.073464916 SRS(ph)PLELEPEAK ddPTM_HeLa_SAHA_4h_R1 7 SRSPLELEPEAK 12 1 A0A087WTQ7;A0A087WV56;A0A087WW71;A0A087X0X5;Q92466-3;Q92466-2;Q92466-5;Q92466-4;Q92466 A0A087WTQ7 DDB2 DNA damage-binding protein 2 1 0 SRS(1)PLELEPEAK;S(0.048)RS(0.952)PLELEPEAK;S(0.096)RS(0.904)PLELEPEAK;S(0.056)RS(0.944)PLELEPEAK;SRS(1)PLELEPEAK;S(0.037)RS(0.963)PLELEPEAK;S(0.014)RS(0.986)PLELEPEAK ;;;;;; 162.67 0.00015245 1856275600 43697.2 38854 34256 40002.5 43643.3 51291.9 47667 48776.3 44090.3 39638.6 TRUE FALSE FALSE 48293.47199 40112.89509 38924.22928 40776.80623 40299.35978 46921.54156 42303.38371 47528.67287 43783.47201 41347.61403 1.167986911 0.970138085 0.941389974 0.986194904 0.974647769 1.13480651 1.023115473 1.149490097 1.058911694 1 15.33551646 -2.91869719 2.112357427 1.051878088 19.96346444 0.128451532 0.07313226 640.5744529 17.37041619 0.012854411 57823.69576 0.001205876 2.91869719 18.91158635 SRS(ph)PLELEPEAKK ddPTM_HeLa_SAHA_4h_R1 1 SRSPLELEPEAKK 13 2 A0A087WTQ7;A0A087WV56;A0A087WW71;A0A087X0X5;Q92466-3;Q92466-2;Q92466-5;Q92466-4;Q92466 A0A087WTQ7 DDB2 DNA damage-binding protein 2 1 0 S(0.043)RS(0.957)PLELEPEAKK 104.2 0.0026381 41331000 2036.3 1496.3 1606.9 1927.3 2037.2 2415.7 2268.1 2743.2 1612.7 2173.3 TRUE FALSE FALSE 2250.487377 1544.781102 1825.879964 1964.605678 1881.110176 2209.86877 2012.887419 2673.032916 1601.477089 2267.001599 0.99271539 0.681420385 0.805416266 0.866609745 0.829778937 0.974798064 0.887907366 1.179104998 0.706429625 1 11.14656969 -7.465646087 24.99992015 0.996786781 0.88263404 0 0.151734837 368.0461802 160767.719 0.020312633 0.023220659 3.42E-08 7.465646087 -0.114152741 SRS(ph)PLLVTVVESDPRPQGQPR ddPTM_HeLa_SAHA_4h_R1 2 SRSPLLVTVVESDPRPQGQPR 21 2 A0A2R8YH03;Q5VWN6;Q5VWN6-2 A0A2R8YH03 FAM208B Protein FAM208B 1 0 S(0.43)RS(0.57)PLLVTVVESDPRPQGQPR;S(0.244)RS(0.756)PLLVTVVESDPRPQGQPR ; 115.99 2.28E-05 40872000 2376.46 2858.96 2428.01 3067.8 3363.2 3257.5 3091.6 2906.93 2998.02 2805.49 TRUE FALSE FALSE 2626.426966 2951.59218 2758.886558 3127.181705 3105.512343 2979.942674 2743.725031 2832.57494 2977.156535 2926.448404 0.897479335 1.008591908 0.942742252 1.068592804 1.061188141 1.018279588 0.937561389 0.967922392 1.017327533 1 11.51493513 -6.304861451 24.91060806 0.954936868 1.009870175 0.067414814 0.05039147 578.1883773 331696.681 0.008673963 0.013249777 4.96E-07 6.304861451 0.054933307 SRS(ph)PSSPELNNK ddPTM_HeLa_SAHA_4h_R1 1 SRSPSSPELNNK 12 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.125)RS(0.819)PS(0.05)S(0.007)PELNNK 111.31 0.0044753 0 1231.3 1503.6 1065.3 1192.3 1324.7 1385.8 1413.4 1372.2 1216.1 1434.5 TRUE FALSE FALSE 1360.813783 1552.317627 1210.473536 1215.378691 1223.201772 1267.722044 1254.360512 1337.101111 1207.637061 1496.348315 0.90942314 1.037403932 0.808951715 0.812229798 0.817457914 0.847210526 0.8382811 0.893576113 0.807056117 1 10.54723033 -6.747193487 24.99996464 0.962045711 0.83492275 0.369160223 0.06245582 108.3904995 190212.8541 0.007123484 0.010046658 1.79E-07 6.747193487 -0.127122961 SRS(ph)QPCDLDAR ddPTM_HeLa_SAHA_4h_R1 1 SRSQPCDLDAR 11 1 Q9NYF3 Q9NYF3 FAM53C Protein FAM53C 1 0 S(0.208)RS(0.792)QPCDLDAR 101.3 0.0043636 18037000 1776.4 2187.6 1957.5 2780.3 2876.2 2955.5 2623.9 2464.6 1961.7 1639.4 TRUE FALSE FALSE 1963.249902 2258.479675 2224.257906 2834.116727 2655.826177 2703.674773 2328.651866 2401.559101 1948.04837 1710.082557 1.148043932 1.320684587 1.300672822 1.65729819 1.553039744 1.581020028 1.361718975 1.404352726 1.139154576 1 10.73985026 -7.109794286 1.037545171 1.047386871 1.504735463 0.757736636 0.098813638 0.149673043 0.315315303 0.021165083 0.027146513 7.77E-08 7.109794286 0.457348592 SRS(ph)SDIVSSVR ddPTM_HeLa_SAHA_4h_R1 2 SRSSDIVSSVR 11 1 Q14C86-4;Q14C86-5;Q14C86-2;Q14C86;Q14C86-6;F8W9S7;Q14C86-3;H0Y4E7;H0Y7I9;C9IZ08 Q14C86-4 GAPVD1 GTPase-activating protein and VPS9 domain-containing protein 1 1 0 S(0.003)RS(0.845)S(0.152)DIVSSVR;S(0.137)RS(0.432)S(0.432)DIVSSVR ; 100.18 0.0048198 86050000 1869.08 2643.6 2561.3 1337.22 2023.9 3205 2897.6 1783.85 1510.15 2238.7 TRUE FALSE FALSE 2065.67841 2729.254375 2910.340625 1363.103827 1868.829219 2931.915969 2571.554422 1738.2217 1499.640743 2335.221313 0.884575007 1.168734783 1.246280431 0.583715051 0.800279275 1.255519532 1.101203731 0.744349878 0.642183563 1 11.18934357 SRS(ph)TCGDSEVEEESPGK ddPTM_HeLa_SAHA_4h_R1 2 SRSTCGDSEVEEESPGK 17 1 O95696-2;O95696 O95696-2 BRD1 Bromodomain-containing protein 1 1 0 S(0.137)RS(0.335)T(0.335)CGDS(0.193)EVEEESPGK;S(0.211)RS(0.726)T(0.062)CGDS(0.001)EVEEESPGK ; 124.99 4.98E-05 5061400 978.25 877.2 978.96 1540.61 1411.61 1489.09 1072.29 1611.53 1221.11 1169.66 TRUE FALSE FALSE 1081.146823 905.6218556 1112.367571 1570.430734 1303.452747 1362.211155 951.6331071 1570.309396 1212.612196 1220.089767 0.886120721 0.742258381 0.911709614 1.2871436 1.068325284 1.11648437 0.779969747 1.287044149 0.993871295 1 10.25277158 SRS(ph)TCGDSEVEEESPGKR ddPTM_HeLa_SAHA_4h_R1 1 SRSTCGDSEVEEESPGKR 18 2 O95696-2;O95696 O95696-2 BRD1 Bromodomain-containing protein 1 1 0 S(0.177)RS(0.576)T(0.177)CGDS(0.07)EVEEESPGKR 64.749 0.013569 3364200 478.55 523.48 634.54 681.09 751.39 882.24 646.2 742.65 512.33 655.38 TRUE FALSE FALSE 528.8860847 540.4410955 721.0118067 694.2734818 693.8186605 807.0681887 573.4878753 723.6540883 508.7646538 683.6366392 0.773636248 0.790538518 1.054671101 1.015559205 1.014893908 1.180551396 0.838878203 1.058536139 0.744203316 1 9.417085909 -6.745216584 24.91496763 0.882426696 1.024506954 0.423094959 0.106890717 244.6331293 375706.5728 0.018280618 0.025807056 1.80E-07 6.745216584 0.142080259 SRS(ph)TTELDDYSTNK ddPTM_HeLa_SAHA_4h_R1 1 SRSTTELDDYSTNK 14 1 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 S(0.232)RS(0.758)T(0.01)TELDDYSTNK 144.15 0.00056174 61525000 2167.6 2188.4 1860.3 2175.1 2393.6 1826.9 2709.5 2763.7 2800.8 2433.2 TRUE FALSE FALSE 2395.598113 2259.305596 2113.811996 2217.202206 2210.202885 1671.237842 2404.619929 2693.008556 2781.309005 2538.10716 0.943852234 0.890153746 0.832830083 0.873565246 0.870807553 0.658458346 0.947406779 1.061030282 1.095820164 1 11.30953727 -7.514622105 1.244515643 0.983018737 0.866557928 0.26597152 0.101345001 0.467891003 1.451255711 0.020668033 0.021913281 3.06E-08 7.514622105 -0.116460808 SRS(ph)TTELDDYSTNKNGNNK ddPTM_HeLa_SAHA_4h_R1 2 SRSTTELDDYSTNKNGNNK 19 2 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 S(0.172)RS(0.531)T(0.279)T(0.009)ELDDY(0.007)S(0.001)TNKNGNNK;S(0.213)RS(0.574)T(0.17)T(0.043)ELDDYSTNKNGNNK ; 113.14 0.00047827 14032400 4527.6 2781.16 4156.7 3711.52 3055.68 3581.44 3609.82 4084.3 2449.2 3988.4 TRUE FALSE FALSE 5003.833741 2871.271409 4723.153429 3783.361837 2821.554459 3276.281163 3203.633553 3979.82952 2432.155818 4160.359443 1.202740727 0.690149841 1.135275327 0.909383405 0.678199684 0.787499544 0.770037685 0.956607133 0.584602329 1 12.02249246 -6.52987118 1.023028276 1.084699144 0.801412927 0 0.216650184 0.392673646 0.820625304 0.02888705 0.051387706 2.95E-07 6.52987118 -0.283286216 SRS(ph)Y(ph)S(ph)S(ph)TS(ph)IEEAMK ddPTM_HeLa_SAHA_4h_R1 1 SRSYSSTSIEEAMK 14 1 Q8NFH8-3;Q8NFH8-2;Q8NFH8-4;Q8NFH8 Q8NFH8-3 REPS2 RalBP1-associated Eps domain-containing protein 2 5 0 S(0.164)RS(0.863)Y(0.964)S(0.962)S(0.962)T(0.508)S(0.576)IEEAMK 48.177 0.0086479 0 175.6 375.45 188.25 569.69 536.69 1038.7 527.56 533.35 729.74 486.36 TRUE FALSE FALSE 194.0704137 387.6148263 213.9037296 580.7171737 495.5689281 950.1969164 468.1975603 519.7076793 724.6616799 507.3293598 0.382533378 0.764029952 0.421626948 1.144655168 0.976818941 1.872938946 0.922867071 1.024398981 1.428385064 1 8.986778843 -6.140575082 6.039365919 0.686981395 1.207517306 0.181154404 0.377965351 0.20194203 9.253269808 0.050720009 0.084737878 7.23E-07 6.140575082 0.520535911 SRSAQRWGRS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SRSAQRWGRSR 11 3 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SRSAQRWGRS(1)R 57.149 0.022411 1584200 276.77 420.39 310.98 211.69 420.33 103.66 340.34 482.38 449.03 434.57 TRUE FALSE FALSE 305.8819385 434.0109118 353.3587349 215.7875661 388.1244062 94.82758482 302.0440475 470.0414181 445.9051637 453.3064394 0.674779601 0.957433811 0.779514042 0.476030224 0.856207573 0.209190906 0.666313163 1.036917584 0.983672688 1 8.824342845 -6.509968435 23.28085736 0.851316251 0.63606168 0.20999615 0.223594444 345.1807297 622455.9724 0.035385437 0.052471366 3.09E-07 6.509968435 -0.215254571 SRSESDLSQPESDEEGYALS(ph)GR ddPTM_HeLa_SAHA_4h_R1 1 SRSESDLSQPESDEEGYALSGR 22 1 Q15751;H0YNB1 Q15751 HERC1 Probable E3 ubiquitin-protein ligase HERC1 1 0 SRSESDLS(0.001)QPES(0.31)DEEGY(0.016)ALS(0.673)GR 80.191 0.00059885 4194900 280.24 396.34 234.01 280.42 370.52 360.02 300.03 311.03 341.26 420.45 TRUE FALSE FALSE 309.716929 409.181676 265.8996641 285.8479346 342.1308376 329.3442706 266.2698348 303.074303 338.8851439 438.5776571 0.706184923 0.932974285 0.606277269 0.651761279 0.780091808 0.750937183 0.607121294 0.691039085 0.772691309 1 8.776688507 -13.52287344 0.207110276 2.447050375 0.66197243 0.162314466 0.113401981 23.78349802 0.293546371 13.86939123 0.080641669 3.00E-14 13.52287344 -1.785077944 SRSGRHVVFYPTLK ddPTM_HeLa_SAHA_4h_R1 1 SRSGRHVVFYPTLK 14 2 H0YDL6;H0YCC4;H0YC89;Q9BWS9-3;Q9BWS9;Q9BWS9-2 H0YDL6 CHID1 Chitinase domain-containing protein 1 0 0 40.725 0.021477 22064000 4140.1 4817.7 4903.3 4808.7 5852.2 2912.8 5863.7 5898 5483.9 6018.5 FALSE FALSE TRUE 4575.574713 4973.796641 5571.496189 4901.779342 5403.8057 2664.613053 5203.901044 5747.1377 5445.737093 6277.986989 0.728828321 0.792259788 0.887465393 0.780788388 0.860754524 0.424437492 0.828912365 0.915442754 0.867433638 1 12.61608632 -9.371402754 0.814014441 1.01911971 0.770186798 0.145056708 0.13584469 0.778354332 0.805732835 0.130072006 0.025020821 4.25E-10 9.371402754 -0.248932912 SRSLS(ph)NS(ph)NPDISGTPTSPDDEVR ddPTM_HeLa_SAHA_4h_R1 1 SRSLSNSNPDISGTPTSPDDEVR 23 1 Q96N67-2;Q96N67-6;Q96N67;Q96N67-4;Q96N67-3;Q96N67-5;A0A0U1RRC1;A0A0U1RQJ5 Q96N67-2 DOCK7 Dedicator of cytokinesis protein 7 2 0 S(0.051)RS(0.183)LS(0.844)NS(0.919)NPDIS(0.002)GTPTSPDDEVR 104.72 0.00043486 8432900 401.28 441.23 335.65 334.74 370.66 508.01 648.29 563.76 284.67 395.35 TRUE FALSE FALSE 443.4884715 455.5261415 381.390634 341.2193767 342.2601109 464.72469 575.342703 549.3398355 282.6889583 412.3954733 1.075396071 1.104585697 0.924817702 0.827408153 0.829931784 1.126890861 1.395123711 1.332070479 0.685480265 1 8.687884687 -4.900428402 4.203395867 1.004390371 1.361195968 0.584247826 0.137281082 0.097549505 3.111629795 0.014985952 0.048934741 1.26E-05 4.900428402 0.356805597 SRSPES(ph)QVIGENTK ddPTM_HeLa_SAHA_4h_R1 1 SRSPESQVIGENTK 14 1 O95218-2 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 S(0.035)RS(0.205)PES(0.76)QVIGENT(0.001)K 162.76 4.59E-05 7153800 790.94 1151.8 820.73 888.52 1155.7 1148.7 1054.1 867.8 1503.2 1061.6 TRUE FALSE FALSE 874.1346982 1189.119076 932.5748102 905.7185894 1067.150516 1050.824298 935.4898938 845.6029326 1492.739109 1107.370771 0.789378518 1.073821981 0.842152271 0.817900032 0.963679504 0.948936278 0.844784708 0.763613195 1.348002988 1 10.11292263 -9.630828695 1.444543669 1.000120483 0.872990402 0.262569037 0.142653166 0.527981976 1.976304804 0.064463826 0.01462722 2.34E-10 9.630828695 -0.127130081 SRSPGS(ph)PVGEGTGSPPK ddPTM_HeLa_SAHA_4h_R1 1 SRSPGSPVGEGTGSPPK 17 1 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;H0Y9H2;A0A0A0MSR2 E7EV99 ADD1 Alpha-adducin 1 0 S(0.217)RS(0.051)PGS(0.392)PVGEGT(0.011)GS(0.33)PPK 134.83 0.00052159 7012900 1339.7 1277 1066.4 1365 1340.4 1660.2 1461.9 1366.5 1712 1330.3 TRUE FALSE FALSE 1480.615793 1318.375638 1211.723438 1391.421549 1237.698842 1518.74162 1297.403164 1331.546909 1700.086053 1387.655743 1.066990714 0.950073997 0.873216174 1.002713789 0.891935084 1.094465704 0.934960397 0.959565739 1.225149725 1 10.43843399 -7.247525176 24.18595348 1.031634504 0.958387834 0.276893886 0.085129581 532.6644163 925888.7359 0.009794351 0.011957645 5.66E-08 7.247525176 -0.07324667 SRST(ph)TELDDYSTNK ddPTM_HeLa_SAHA_4h_R1 2 SRSTTELDDYSTNK 14 1 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 S(0.008)RS(0.095)T(0.886)T(0.011)ELDDYSTNK;S(0.101)RS(0.086)T(0.793)T(0.021)ELDDYSTNK ; 206.13 1.35E-10 17861800 4494.1 4817.3 4111.6 4782.9 4815.6 6280.9 5133.9 4960.2 6003 4690.5 TRUE FALSE FALSE 4966.810058 4973.383681 4671.907436 4875.479946 4446.629768 5745.731985 4556.22006 4833.325266 5961.224634 4892.73041 1.015140758 1.016484307 0.954867128 0.996474266 0.908823785 1.174340604 0.931222381 0.987858488 1.218384038 1 12.25642408 SRSWEDS(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 SRSWEDSPER 10 1 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1;B1AN86;A0A3B3IU26 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 SRSWEDS(1)PER 122.33 0.012173 8615100 1115.9 1038.7 1422.7 1238.4 1498.8 1328.5 1310.6 1563.4 1092.9 1010.7 TRUE FALSE FALSE 1233.275482 1072.354562 1616.578147 1262.371023 1383.962268 1215.304326 1163.127839 1523.410492 1085.29442 1054.276223 1.169784023 1.01714763 1.53335351 1.197381668 1.312713156 1.152738058 1.103247719 1.444982309 1.029421319 1 10.04203719 -8.185065998 0.523528305 1.001786355 1.262514236 0.314589771 0.143093674 0.759216784 0.472909074 0.084977057 0.044204083 6.53E-09 8.185065998 0.260727881 SRT(ph)ASGSS(ph)VTSLDGTR ddPTM_HeLa_SAHA_4h_R1 1 SRTASGSSVTSLDGTR 16 1 E5RJY1;E7ESM1;Q92597-3;Q92597-2;Q92597 E5RJY1 NDRG1 Protein NDRG1 2 0 S(0.142)RT(0.858)AS(0.3)GS(0.048)S(0.399)VT(0.121)S(0.098)LDGT(0.034)R 108.96 0.012647 11790000 1916.6 1621 1679.4 2359 2302.6 2311.7 2537.2 2535 2618 1909.4 TRUE FALSE FALSE 2118.196782 1673.521464 1908.259886 2404.661856 2126.175285 2114.730155 2251.707578 2470.158371 2599.781125 1991.723578 1.063499375 0.840237813 0.958094741 1.207327102 1.067505204 1.061758859 1.13053217 1.240211442 1.305292136 1 10.95980172 -6.268420194 24.97113692 1.008596005 1.132322254 0.147477693 0.121844649 468.200227 1674802.118 0.012791661 0.019792854 5.39E-07 6.268420194 0.123726249 SRT(ph)GS(ph)ESSQTGTSTTSSR ddPTM_HeLa_SAHA_4h_R1 1 SRTGSESSQTGTSTTSSR 18 1 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 2 0 S(0.339)RT(0.669)GS(0.988)ES(0.004)S(0.001)QTGTSTTSSR 156.87 6.05E-05 103830000 1268.8 1357.5 1181 1124.2 1186.6 1250.2 1598.4 1376.9 1102.6 1063.5 TRUE FALSE FALSE 1402.258205 1401.483891 1341.94053 1145.960517 1095.682964 1143.675927 1418.543825 1341.680892 1094.926917 1109.35269 1.264032817 1.263334829 1.209660861 1.032999268 0.987677746 1.030939878 1.278713108 1.209426816 0.986996225 1 10.11550239 -9.570049651 1.382795724 1.001001205 1.168871162 0.291665025 0.102114502 0.517700615 1.791178545 0.079337283 0.019088197 2.69E-10 9.570049651 0.167869957 SRT(ph)GSESSQTGTSTTSSR ddPTM_HeLa_SAHA_4h_R1 1 SRTGSESSQTGTSTTSSR 18 1 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 S(0.074)RT(0.926)GSESSQTGTSTTSSR 167.05 0.00011983 29557000 188.12 152.77 262.73 312.13 348.62 470.68 374.16 288.47 337.28 281.41 TRUE FALSE FALSE 207.9073247 157.7198482 298.5334762 318.1717275 321.9088109 430.575416 332.0585321 281.0913551 334.932841 293.5429623 0.70826881 0.537297324 1.017000966 1.08390174 1.096632699 1.46682248 1.131209311 0.957581653 1.141001094 1 8.197427858 -6.396501607 3.087080805 0.832924486 1.164270274 0.334390225 0.194906839 0.205945293 3.73838319 0.030434386 0.047947859 4.01E-07 6.396501607 0.331345788 SRT(ph)PPSAPSQSR ddPTM_HeLa_SAHA_4h_R1 2 SRTPPSAPSQSR 12 1 Q9UQ35;I3L3Q8 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.21)RT(0.789)PPSAPS(0.001)QSR;S(0.241)RT(0.756)PPSAPSQS(0.003)R ; 98.676 0.0079927 545730000 3944.3 3549.2 3329.3 3874.2 4066.5 4428.7 4211.7 4209.2 3842 3863.7 TRUE FALSE FALSE 4359.179571 3664.196409 3782.999666 3949.190743 3754.925649 4051.349845 3737.788431 4101.534759 3815.263209 4030.283015 1.081606318 0.90916603 0.938643676 0.979879261 0.931677908 1.005227134 0.927425795 1.017679092 0.946648956 1 11.97666544 -7.264000989 24.99968224 1.038536316 0.958151941 0.114233625 0.047371044 154.2381093 1505260.675 0.007089851 0.008306867 5.45E-08 7.264000989 -0.080384375 SRT(ph)PSASNDDQQE ddPTM_HeLa_SAHA_4h_R1 1 SRTPSASNDDQQE 13 1 O43765 O43765 SGTA Small glutamine-rich tetratricopeptide repeat-containing protein alpha 1 0 S(0.008)RT(0.955)PS(0.029)AS(0.008)NDDQQE 137.81 9.07E-06 0 219.18 130.99 212.21 192.64 111.08 307.79 199.72 159.1 189.4 205.69 TRUE FALSE FALSE 242.234358 135.2341619 241.1288737 196.3688258 102.5690744 281.5645604 177.24698 155.0304524 188.08195 214.5583025 1.128990839 0.630290976 1.123838466 0.915223617 0.478047567 1.312298602 0.826101707 0.722556296 0.876600662 1 7.745225918 -7.317179651 24.99985518 1.060912361 0.872329134 0.055039973 0.232291907 420.6921458 188682.0126 0.036356352 0.041575074 4.82E-08 7.317179651 -0.188583226 SRT(ph)S(ph)VQTEDDQLIAGQSAR ddPTM_HeLa_SAHA_4h_R1 1 SRTSVQTEDDQLIAGQSAR 19 1 G3XAM7;P35221-3;P35221;P35221-2;A0A0A0MTJ6;A0A0A0MRI5;P26232-4;P26232-6;P26232-3;P26232-2;P26232-5;P26232 G3XAM7 CTNNA1;CTNNA2 Catenin alpha-1;Catenin alpha-2 2 0 S(0.231)RT(0.884)S(0.884)VQT(0.001)EDDQLIAGQSAR 107.65 0.0041776 3567100 1155.7 1119.9 1030.9 1038.3 1075.1 1179.2 1293.9 1054.7 1253.4 1527 TRUE FALSE FALSE 1277.261829 1156.185495 1171.385683 1058.397798 992.7260703 1078.725526 1148.306967 1027.722301 1244.677487 1592.836443 0.801878833 0.725865797 0.735408641 0.66447362 0.623244197 0.677235589 0.720919572 0.645215211 0.78142203 1 10.63738242 -8.148542087 0.436785438 1.017336573 0.654659995 0.51933157 0.071356343 0.173029068 0.078052209 0.026241864 0.013294268 7.10E-09 8.148542087 -0.362676578 SRTDQDFR ddPTM_HeLa_SAHA_4h_R1 1 SRTDQDFR 8 1 E9PGM9;P78332;F8WCA5;P78332-3 E9PGM9 RBM6 RNA-binding protein 6 0 0 105.14 0.012243 549090 254.19 160.27 249 384 201.78 190.9 248.35 283.41 229.01 177.35 FALSE FALSE TRUE 280.9268705 165.4628532 282.9324233 391.4328753 186.31966 174.634246 220.4050044 276.1607826 227.4163008 184.9964264 1.518552957 0.894411078 1.529393993 2.115894252 1.007152752 0.943987132 1.191401416 1.492789822 1.229301047 1 7.531353592 -4.248318077 21.97536021 1.264525243 1.492790645 0.03451124 0.352426726 1318.008778 2207154.83 0.051257329 1.09429519 5.65E-05 4.248318077 0.228265403 SRTGS(ph)ESSQTGTSTTSSR ddPTM_HeLa_SAHA_4h_R1 1 SRTGSESSQTGTSTTSSR 18 1 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 S(0.089)RT(0.046)GS(0.865)ESSQTGTSTTSSR 161.97 3.26E-06 279830000 119.05 226.55 135.92 222.5 175.88 110.27 181.76 208 61.877 196.46 TRUE FALSE FALSE 131.5722252 233.8903686 154.4424698 226.8068092 162.4041124 100.8743756 161.3078864 202.6796612 61.44639292 204.9303521 0.642033861 1.141316385 0.753633945 1.106750693 0.792484426 0.492237361 0.787135165 0.989017289 0.299840372 1 7.678989866 -5.528927928 24.93515746 0.867117953 0.739752174 0 0.257148482 318.7166812 1313771.094 0.029581708 0.059293311 2.96E-06 5.528927928 -0.127365779 SRTGSESSQTGTSTTS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 SRTGSESSQTGTSTTSSR 18 1 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 SRTGSESSQTGT(0.003)S(0.002)T(0.002)T(0.021)S(0.574)S(0.397)R 65.915 0.010647 705480 127.82 0 0 179.31 126.65 209.04 108.68 62.796 0 0 TRUE FALSE FALSE 141.2646941 0 0 182.7808043 116.9461044 191.228616 96.45104037 61.18976925 0 0 0 SRTGSESSQTGTSTTSSR ddPTM_HeLa_SAHA_4h_R1 1 SRTGSESSQTGTSTTSSR 18 1 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 0 0 89.344 0.0050393 283860 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 SRTS(ph)VQTEDDQLIAGQSAR ddPTM_HeLa_SAHA_4h_R1 2 SRTSVQTEDDQLIAGQSAR 19 1 G3XAM7;P35221-3;P35221;P35221-2;A0A0A0MTJ6;A0A0A0MRI5;P26232-4;P26232-6;P26232-3;P26232-2;P26232-5;P26232 G3XAM7 CTNNA1;CTNNA2 Catenin alpha-1;Catenin alpha-2 1 0 S(0.015)RT(0.092)S(0.893)VQTEDDQLIAGQSAR;S(0.058)RT(0.206)S(0.736)VQTEDDQLIAGQSAR ; 168.86 5.38E-07 37333100 866.38 1252.46 1332.13 926.53 1580.9 1395.88 1491.13 1345.66 1475.77 1306.26 TRUE FALSE FALSE 957.5098235 1293.040526 1513.665739 944.4643279 1459.771784 1276.943171 1323.344128 1311.239966 1465.499996 1362.579261 0.702718624 0.948965365 1.110882708 0.693144505 1.071329812 0.93715148 0.971205247 0.962321975 1.07553376 1 10.41212444 -7.042107728 24.89696895 0.857839484 0.957116194 0 0.140945744 848.6140333 501757.2181 0.023823383 0.029179052 9.08E-08 7.042107728 0.09927671 SRY(ph)QDGVYWAEFRGGS(ph)YS(ph)LKK ddPTM_HeLa_SAHA_4h_R1 1 SRYQDGVYWAEFRGGSYSLKK 21 3 Q9UKU9-2;Q9UKU9 Q9UKU9-2 ANGPTL2 Angiopoietin-related protein 2 3 0 S(0.064)RY(0.468)QDGVY(0.469)WAEFRGGS(0.675)Y(0.649)S(0.675)LKK 46.702 0.0079363 0 188.2 221.17 248.82 297.79 231.05 247.32 397.48 243.96 199.28 389.54 TRUE FALSE FALSE 207.9957395 228.3360531 282.7278938 303.5541561 213.3469989 226.2469446 352.7545043 237.7198564 197.8931943 406.3349758 0.511882442 0.561940435 0.695800043 0.747053968 0.525052018 0.55679909 0.868137191 0.585034197 0.487019838 1 8.666525741 -9.398957279 1.093607149 1.002594428 0.627086551 0 0.189132752 0.272065596 0.575684795 0.078832824 0.019543849 3.99E-10 9.398957279 -0.375507876 SS(ph)DEENGPPSS(ph)PDLDR ddPTM_HeLa_SAHA_4h_R1 1 SSDEENGPPSSPDLDR 16 0 Q96B36;Q96B36-2;Q96B36-3 Q96B36;Q96B36-3 AKT1S1 Proline-rich AKT1 substrate 1 2 0 S(0.265)S(0.735)DEENGPPS(0.011)S(0.989)PDLDR 273.43 4.23E-58 23117000 998.21 852.07 581.21 928.27 965.09 891.89 1098.5 1095.1 1164 917.58 TRUE FALSE FALSE 1103.206308 879.6776271 660.414272 946.2380082 891.1450127 815.8959544 974.8938889 1067.088928 1155.899629 957.1413643 1.152605403 0.919067611 0.689986136 0.988608416 0.93104848 0.852429939 1.018547443 1.114870768 1.207658213 1 9.902588208 -7.240810204 23.72767274 1.072063661 0.924011395 0.328034272 0.118139266 437.7458081 503494.9546 0.019746285 0.024165924 5.74E-08 7.240810204 -0.148052266 SS(ph)DGS(ph)LSHEEDLAK ddPTM_HeLa_SAHA_4h_R1 1 SSDGSLSHEEDLAK 14 0 A0A2R8Y7R9;Q13136-2;Q13136;H0YEF9;E9PJZ7 A0A2R8Y7R9 PPFIA1 Liprin-alpha-1 2 0 S(0.319)S(0.683)DGS(0.905)LS(0.093)HEEDLAK 101.3 0.0067141 0 728.21 690.98 601.9 696.55 836.43 916.15 991.18 920.94 658.23 563.35 TRUE FALSE FALSE 804.8064689 713.3682054 683.9237974 710.0327325 772.3429141 838.0888659 879.6498178 897.3836883 653.6493238 587.6387755 1.369559843 1.213957001 1.163850695 1.208280941 1.314315778 1.426197353 1.496922692 1.527100875 1.112331846 1 9.198785785 -9.924213496 0.051254198 2.35E-24 2.189505724 0.709343268 0.088273422 85.32573229 0.846949994 24.01469401 13.25219192 1.19E-10 9.924213496 2.189505724 SS(ph)FMSR ddPTM_HeLa_SAHA_4h_R1 1 SSFMSR 6 0 Q16513-3;Q16513-2;Q16513;Q16513-4;B1AL79;Q16513-5;A0A3B3IUG4 Q16513-3 PKN2 Serine/threonine-protein kinase N2 1 0 S(0.222)S(0.777)FMSR 98.629 0.021081 6828300 2016.9 2354 1446.8 2192.2 2276.3 2801.9 2649.2 2387.2 2087.2 1573.1 TRUE FALSE FALSE 2229.046796 2430.271145 1643.962369 2234.633201 2101.890386 2563.162357 2351.105044 2326.138881 2072.675005 1640.92404 1.358409495 1.481038175 1.001851597 1.361813921 1.28091876 1.562023771 1.432793345 1.417578647 1.263114535 1 10.68029274 -12.35217014 0.192278979 5.18E-15 1.449861631 0.202811697 0.159267351 20.88809321 0.370938058 8.188993695 0.172403579 4.44E-13 12.35217014 1.449861631 SS(ph)FSSDPDEK ddPTM_HeLa_SAHA_4h_R1 2 SSFSSDPDEK 10 0 P46013 P46013 MKI67 Antigen KI-67 1 0 S(0.025)S(0.973)FS(0.002)SDPDEK;S(0.35)S(0.646)FSS(0.004)DPDEK ; 160.72 0.00021372 9284200 4110.7 4184.6 2967.8 3971.8 4058.1 5073.7 4443.7 4135.2 6311.1 3984 TRUE FALSE FALSE 4543.082287 4320.183786 3372.236328 4048.679932 3747.169255 4641.392216 3943.683181 4029.427572 6267.180541 4155.769737 1.093198751 1.039562839 0.811458897 0.974231054 0.901678748 1.116855002 0.948965758 0.969598372 1.508067323 1 12.0209 -6.953302043 24.99987055 1.045188291 0.956713127 0.154968238 0.163984727 134.8764111 72206.10266 0.012312764 0.01618214 1.11E-07 6.953302043 -0.088475164 SS(ph)GFISELPSEEGK ddPTM_HeLa_SAHA_4h_R1 1 SSGFISELPSEEGK 14 0 Q5VZK9;Q5VZK9-2;A0A0U1RQQ1 Q5VZK9 LRRC16A Leucine-rich repeat-containing protein 16A 1 0 S(0.182)S(0.818)GFISELPSEEGK 278.16 5.57E-57 23158000 1638.4 1700.4 1753.5 1574.3 1798.9 2054.8 1988.9 1882.9 1547.5 1644.3 TRUE FALSE FALSE 1810.734429 1755.494076 1992.457848 1604.772853 1661.068671 1879.71948 1765.103738 1834.738144 1536.730822 1715.19382 1.055702515 1.023496036 1.161651718 0.935621872 0.968443712 1.095922489 1.029098704 1.069697269 0.895951702 1 10.7441559 -9.399747504 1.117966236 0.999936087 1.042273302 0.152408004 0.068344052 1.217989723 2.715918266 0.040110751 0.010152891 3.98E-10 9.399747504 0.042337215 SS(ph)GNSPTPVSR ddPTM_HeLa_SAHA_4h_R1 1 SSGNSPTPVSR 11 0 H0YBT1;O95429-2;O95429 H0YBT1 BAG4 BAG family molecular chaperone regulator 4 1 0 S(0.162)S(0.594)GNS(0.234)PT(0.011)PVSR 105.66 0.0052307 5133900 1346.2 1275.1 1340.3 1394.7 1472.6 1205.9 1606.6 1327.4 1192.6 1145.6 TRUE FALSE FALSE 1487.799493 1316.414077 1522.949104 1421.696435 1359.769706 1103.150536 1425.82114 1293.44703 1184.300599 1194.992422 1.245028391 1.101608723 1.274442478 1.189711674 1.137889815 0.923144377 1.193163331 1.082389315 0.991052811 1 10.22278575 SS(ph)GPYGGGGQYFAKPR ddPTM_HeLa_SAHA_4h_R1 2 SSGPYGGGGQYFAKPR 16 1 F8W6I7;P09651-2;P09651;P09651-3;H0YH80 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 1 0 S(0.218)S(0.781)GPY(0.001)GGGGQYFAKPR;S(0.315)S(0.685)GPYGGGGQYFAKPR ; 100.39 0.0022382 43519000 1348.71 1352.31 1463.93 1566.8 1647.54 2194.36 1851.05 2298.7 1536.25 1650.68 TRUE FALSE FALSE 1490.573506 1396.125731 1663.426757 1597.12768 1521.305841 2007.388183 1642.764982 2239.902582 1525.559111 1721.848893 0.865681949 0.810829415 0.966070114 0.927565529 0.8835304 1.165832955 0.954070354 1.300870588 0.886000576 1 10.74974282 -1 0.713312068 0.926176077 49.21601423 0.62286486 0.087104726 155.7578563 0.732213141 0.014689017 12038.02866 0.1 1 48.28983815 SS(ph)ITEPEGPNGPNIQK ddPTM_HeLa_SAHA_4h_R1 1 SSITEPEGPNGPNIQK 16 0 Q13625-2;Q13625;Q13625-3 Q13625-2 TP53BP2 Apoptosis-stimulating of p53 protein 2 1 0 S(0.008)S(0.948)IT(0.044)EPEGPNGPNIQK 250.52 3.65E-37 11144000 1215.4 1983.9 1310.9 1645.7 1861.1 1856.5 1869.4 1126.3 2175.6 2028.2 TRUE FALSE FALSE 1343.241348 2048.179662 1489.542625 1677.554903 1718.50292 1698.315756 1659.050192 1097.490877 2160.459822 2115.645628 0.634908479 0.968110933 0.70406055 0.792928117 0.812282973 0.802741127 0.784181514 0.518749862 1.021182278 1 11.04688228 -9.515459263 1.218850954 1.002440175 0.749178382 0.45309718 0.112896159 0.378389199 0.990439623 0.081400733 0.01881657 3.05E-10 9.515459263 -0.253261793 SS(ph)LAELMAR ddPTM_HeLa_SAHA_4h_R1 1 SSLAELMAR 9 0 Q9ULE0 Q9ULE0 WWC3 Protein WWC3 1 0 S(0.225)S(0.775)LAELMAR 99.788 0.006259 0 596.25 549.4 767.41 682.5 714.86 584.38 637.39 478.84 664.36 582.17 TRUE FALSE FALSE 658.9663107 567.2009205 871.9886383 695.7107744 660.0875812 534.5875364 565.6691997 466.5919662 659.7366647 607.2701978 1.085128684 0.934017382 1.435915415 1.145636287 1.086975096 0.880312484 0.931495077 0.768343264 1.086397237 1 9.246194759 -5.238839831 6.0837102 1.074238674 0.865503694 0.411149853 0.132467317 0.165445918 22.8540695 0.019453886 0.048820255 5.77E-06 5.238839831 -0.208734981 SS(ph)LETLEDIEENAPLR ddPTM_HeLa_SAHA_4h_R1 2 SSLETLEDIEENAPLR 16 0 V9GYB4;Q8TDN4-2;Q8TDN4 V9GYB4 CABLES1 CDK5 and ABL1 enzyme substrate 1 1 0 S(0.021)S(0.978)LET(0.001)LEDIEENAPLR;S(0.003)S(0.994)LET(0.003)LEDIEENAPLR ; 223.68 3.30E-35 1501000 139.32 489.58 404.53 346.79 458 240.02 389.64 354.98 600.96 363.27 TRUE FALSE FALSE 153.9743168 505.4427132 459.6572417 353.5026219 422.9081389 219.5689457 345.7966817 345.9001256 596.7778704 378.9323475 0.40633722 1.333860032 1.213032471 0.93289112 1.116051828 0.579441019 0.912555194 0.912828181 1.574892918 1 8.56579649 -7.265292184 24.9999208 0.719659252 0.990613502 0 0.357176126 465.5511345 3020844.482 0.04953364 0.057772781 5.43E-08 7.265292184 0.27095425 SS(ph)LETLEDIEENAPLRR ddPTM_HeLa_SAHA_4h_R1 1 SSLETLEDIEENAPLRR 17 1 V9GYB4;Q8TDN4-2;Q8TDN4 V9GYB4 CABLES1 CDK5 and ABL1 enzyme substrate 1 1 0 S(0.404)S(0.594)LET(0.003)LEDIEENAPLRR 171.25 4.13E-09 4220300 365.19 367.55 335.08 373.34 325.6 347.82 571.15 372.33 475.7 314.44 TRUE FALSE FALSE 403.6023598 379.4588612 380.7429574 380.5665356 300.6525983 318.1837792 506.8826988 362.8063377 472.389565 327.9970472 1.230506077 1.156897187 1.160812149 1.160274273 0.916632027 0.970081231 1.545387994 1.106126841 1.440225054 1 8.357539017 -9.478846411 1.209034929 0.99965399 1.162856395 0 0.209484684 0.827020957 2.155809031 0.112161752 0.027252618 3.32E-10 9.478846411 0.163202405 SS(ph)LGSHQLPR ddPTM_HeLa_SAHA_4h_R1 2 SSLGSHQLPR 10 0 O95817;C9JFK9 O95817 BAG3 BAG family molecular chaperone regulator 3 1 0 S(0.212)S(0.783)LGS(0.005)HQLPR;S(0.319)S(0.68)LGS(0.001)HQLPR ; 97.779 0.010557 29154000 1800.64 2273.18 1026.09 2050.88 2863.1 3493.8 2505.59 2595.58 2339.39 2264.46 TRUE FALSE FALSE 1990.039577 2346.832523 1165.920202 2090.577748 2643.729897 3196.108584 2223.654419 2529.188822 2323.109995 2362.091953 0.842490308 0.993539867 0.49359645 0.885053499 1.119232422 1.353083897 0.941391979 1.070741052 0.98349685 1 11.20584941 -5.757942734 12.43853076 0.891002628 1.124887679 0.351951199 0.167325347 0.200062405 650.2674473 0.025062781 0.048134136 1.75E-06 5.757942734 0.233885051 SS(ph)LSGDEEDELFK ddPTM_HeLa_SAHA_4h_R1 2 SSLSGDEEDELFK 13 0 Q5T1M5;Q5T1M5-2 Q5T1M5 FKBP15 FK506-binding protein 15 1 0 S(0.424)S(0.542)LS(0.035)GDEEDELFK;S(0.026)S(0.933)LS(0.041)GDEEDELFK ; 137.95 0.00046444 1290200 874.41 1182.94 1008.51 897.77 1111.2 1022.01 1051.72 794.91 1110.99 888.79 TRUE FALSE FALSE 966.3844557 1221.268032 1145.944491 915.1476365 1026.060096 934.9289983 933.3776976 774.5773532 1103.25853 927.1100865 1.042362142 1.317284808 1.236039287 0.987097056 1.106729515 1.008433639 1.006760374 0.835475058 1.189997333 1 9.856596847 -3.929348225 1.282125273 1.061754556 0.557414078 0.300316652 0.112132182 3.204446198 2.551797768 0.017217189 2.598608433 0.000117666 3.929348225 -0.504340478 SS(ph)MEMEGIFNHK ddPTM_HeLa_SAHA_4h_R1 2 SSMEMEGIFNHK 12 0 E7EPJ7;O75962-5;O75962-4;O75962;E7EWP2;O75962-2 E7EPJ7 TRIO Triple functional domain protein 1 0 S(0.258)S(0.742)MEMEGIFNHK;S(0.231)S(0.769)MEMEGIFNHK ; 134.4 0.00060161 23562700 2899.8 3732.4 2963.5 4366.1 3869.6 4258.5 4386.2 3306.8 4072.1 3486.9 TRUE FALSE FALSE 3204.814269 3853.332209 3367.350347 4450.612179 3573.112084 3895.651842 3892.653232 3222.216844 4043.761925 3637.237323 0.881112224 1.059411819 0.925798909 1.223624356 0.982369795 1.071046923 1.070222503 0.885896783 1.111767412 1 11.82862735 -7.245322076 24.45462424 0.943858549 1.03569907 0 0.105339776 774.4613057 1175083.223 0.015055953 0.018408066 5.68E-08 7.245322076 0.091840521 SS(ph)PAAKPGS(ph)TPSRPSSAK ddPTM_HeLa_SAHA_4h_R1 1 SSPAAKPGSTPSRPSSAK 18 2 K7EL66;K7ERD8;Q15555-2;Q15555-4;Q15555-5;Q15555-3;Q15555 K7EL66 MAPRE2 Microtubule-associated protein RP/EB family member 2 2 0 S(0.464)S(0.537)PAAKPGS(0.425)T(0.366)PS(0.206)RPS(0.001)S(0.001)AK 59.614 0.021772 3535200 1207.5 1304.5 1016.2 1301.7 1620.8 1473 1293.2 1183.9 1554 1362.1 TRUE FALSE FALSE 1334.51039 1346.766656 1154.682444 1326.896286 1496.614654 1347.492113 1147.685732 1153.617552 1543.185587 1420.826797 0.93924917 0.947875321 0.812683465 0.933890245 1.053340673 0.948385909 0.80775907 0.811933977 1.08611802 1 10.47251498 -4.77520157 6.216683483 0.959927039 0.808688784 0.438489724 0.070182219 0.090394729 13.10364061 0.008692289 0.028781539 1.68E-05 4.77520157 -0.151238255 SS(ph)PAFGDRR ddPTM_HeLa_SAHA_4h_R1 1 SSPAFGDRR 9 1 P13716;P13716-2 P13716 ALAD Delta-aminolevulinic acid dehydratase 1 0 S(0.356)S(0.644)PAFGDRR 131.09 0.0010042 6602800 1383.5 1260.2 1101 1517.3 1415.8 1764.5 1457.6 1582.3 1650 1349.4 TRUE FALSE FALSE 1529.022878 1301.031307 1251.038546 1546.669536 1307.32171 1614.154673 1293.587012 1541.827057 1638.517516 1407.579238 1.086278368 0.924304133 0.888787297 1.098815252 0.928773084 1.146759365 0.919015411 1.095374964 1.164067693 1 10.45900042 -7.293119636 24.89366265 1.040742556 0.999524534 0.092294367 0.094379522 1623.486761 1275697.058 0.014147113 0.016178385 5.09E-08 7.293119636 -0.041218022 SS(ph)PEQPRPSTSK ddPTM_HeLa_SAHA_4h_R1 3 SSPEQPRPSTSK 12 1 P29590;P29590-4;P29590-5;P29590-9;P29590-3;P29590-8;H3BVD2;H3BRN3;P29590-11;H3BT57;P29590-12;P29590-13;H3BUJ5;P29590-2 P29590;P29590-11;P29590-2 PML Protein PML 1 0 S(0.14)S(0.86)PEQPRPSTSK;S(0.227)S(0.773)PEQPRPSTSK;S(0.216)S(0.784)PEQPRPSTSK ;; 160.86 0.00069744 33444000 8846 8738.6 8594.1 9424.8 9670.4 11423.8 10446.7 9988.4 9933.8 9726.4 TRUE FALSE FALSE 9776.462867 9021.736374 9765.259192 9607.230632 8929.456041 10450.42797 9271.209822 9732.911191 9864.669877 10145.7527 0.963601534 0.889213116 0.962497261 0.946921427 0.880117651 1.030029834 0.91380207 0.959308932 0.972295518 1 13.30858828 -8.140634684 1.125883614 0.992757181 0.941804313 0.147729281 0.040971554 0.438126106 1.155768281 0.010361785 0.007871336 7.23E-09 8.140634684 -0.050952868 SS(ph)PGGQDEGGFMAQGK ddPTM_HeLa_SAHA_4h_R1 5 SSPGGQDEGGFMAQGK 16 0 A0A1B0GTU4;F5GZ78;P49023;A0A1B0GV30 A0A1B0GTU4 PXN Paxillin 1 0 S(0.42)S(0.58)PGGQDEGGFMAQGK;S(0.047)S(0.953)PGGQDEGGFMAQGK;S(0.129)S(0.871)PGGQDEGGFMAQGK;S(0.099)S(0.901)PGGQDEGGFMAQGK;S(0.411)S(0.589)PGGQDEGGFMAQGK ;;;; 343.22 8.00E-139 171126200 11533.62 13601.75 11382.1 12852.8 15718.59 16046.46 15591.89 13448.76 17252.35 13223.22 TRUE FALSE FALSE 12746.77907 14042.45562 12933.19331 13101.58453 14514.23503 14679.21133 13837.4495 13104.76019 17132.28949 13793.33773 0.924125786 1.018060741 0.937640589 0.949848745 1.052264167 1.064224746 1.003198049 0.950078977 1.242069891 1 13.75168398 -5.772989511 24.95805544 0.964721159 1.019765761 0 0.09580086 216.194438 467163.7115 0.00643015 0.011725059 1.69E-06 5.772989511 0.055044602 SS(ph)PIMR ddPTM_HeLa_SAHA_4h_R1 3 SSPIMR 6 0 A0A087WWN8;A0A087WZV0;O43314-2;O43314;K7ENU7;H0Y9S9 A0A087WWN8 PPIP5K2 Inositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 1 0 S(0.108)S(0.892)PIMR;S(0.019)S(0.981)PIMR;S(0.018)S(0.982)PIMR ;; 107.59 0.015588 65225000 4902.3 4713.8 2904.85 4342.5 5034.4 6277.3 5291.2 4881.1 4940.7 4949.5 TRUE FALSE FALSE 5417.946407 4866.530213 3300.70783 4426.555367 4648.66536 5742.438725 4695.82025 4756.24853 4906.317266 5162.897167 1.04940041 0.942596774 0.639313107 0.857378178 0.900398596 1.11225123 0.909532012 0.921236348 0.950303116 1 12.33396515 -7.007449487 24.94616181 1.021889591 0.89090828 0.159119843 0.110061085 385.2122157 1289967.136 0.01849898 0.023749264 9.83E-08 7.007449487 -0.130981311 SS(ph)PLSWR ddPTM_HeLa_SAHA_4h_R1 1 SSPLSWR 7 0 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-6 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 S(0.222)S(0.775)PLS(0.003)WR 109.48 0.0084455 1856100 808.79 915.74 1081.6 1278.3 1288.6 1470.8 1159.6 1224.4 1626.3 1340.3 TRUE FALSE FALSE 893.8622431 945.4105768 1228.994815 1303.043345 1189.867746 1345.479566 1029.118756 1193.081621 1614.982446 1398.086892 0.639346702 0.676217324 0.879054673 0.932018855 0.851068523 0.962371919 0.736090698 0.853367289 1.155137392 1 10.44923831 SS(ph)PNPFITGLTR ddPTM_HeLa_SAHA_4h_R1 1 SSPNPFITGLTR 12 0 A0A0D9SGJ6;J3KQV8;O43426 A0A0D9SGJ6 SYNJ1 Synaptojanin-1 1 0 S(0.113)S(0.887)PNPFITGLTR 125.84 0.0012531 7262500 1348.7 1555.4 1154.7 1232.7 1347.9 1429.8 1151.3 1334.6 1421 1360.1 TRUE FALSE FALSE 1490.562454 1605.795981 1312.056503 1256.560691 1244.624193 1307.972996 1021.752694 1300.462864 1411.111145 1418.740567 1.050623693 1.131846102 0.924803684 0.885687433 0.877273987 0.921925422 0.720182899 0.916631902 0.994622398 1 10.47039508 -6.555920902 5.919438732 1.032856516 0.8641194 0.64058324 0.063412038 0.08690086 8.618455858 0.009829827 0.014089022 2.78E-07 6.555920902 -0.168737116 SS(ph)PNPFVGS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 1 SSPNPFVGSPPK 12 0 P98082;P98082-3 P98082 DAB2 Disabled homolog 2 2 0 S(0.348)S(0.652)PNPFVGS(1)PPK 115.68 0.022085 6674900 1940.1 2655.3 1870.9 2158.1 2968.9 2926 2688.7 2336.3 3764.1 2373 TRUE FALSE FALSE 2144.168619 2741.333462 2125.856509 2199.873146 2741.423523 2676.688339 2386.1604 2276.540829 3737.905322 2475.311643 0.866221684 1.107470031 0.858823783 0.88872573 1.107506415 1.081354078 0.963983831 0.919698671 1.510074633 1 11.27339446 -5.7793812 24.99577001 0.940069646 1.018783395 0 0.198951879 352.7526127 491439.2944 0.013353181 0.024242409 1.66E-06 5.7793812 0.078713748 SS(ph)PQLDPLRK ddPTM_HeLa_SAHA_4h_R1 1 SSPQLDPLRK 10 1 Q8ND56;Q8ND56-2;Q8ND56-3 Q8ND56 LSM14A Protein LSM14 homolog A 1 0 S(0.229)S(0.771)PQLDPLRK 77.204 0.015062 119620000 2689.8 3870.9 2355.7 4041.2 4230 4271.4 3066.5 4028.7 6004.9 3422.6 TRUE FALSE FALSE 2972.725505 3996.3197 2676.722528 4119.42327 3905.898314 3907.45269 2721.449349 3925.651687 5963.111412 3570.165036 0.832657727 1.119365536 0.749747561 1.153846735 1.094038588 1.094473967 0.762275503 1.09957149 1.670262117 1 11.80177505 -6.242321897 24.98625603 0.925330532 1.031300366 0 0.271577937 1375.85954 1798227.562 0.020389076 0.033774311 5.72E-07 6.242321897 0.105969834 SS(ph)PSIICMPK ddPTM_HeLa_SAHA_4h_R1 1 SSPSIICMPK 10 0 F8VQD8;A0A087X050;F8VVY1;F8VX63;F8VUB4;F8VV52;F8VP97;Q9NZN8-4;Q9NZN8-5;Q9NZN8 F8VQD8 CNOT2 CCR4-NOT transcription complex subunit 2 1 0 S(0.187)S(0.811)PS(0.002)IICMPK 108.9 0.0059946 3671300 1637.3 1340.9 1769.6 1616.4 1526 1678.3 1483.7 1892.7 2161.7 1719.6 TRUE FALSE FALSE 1809.518726 1384.34604 2010.751872 1647.687759 1409.07821 1535.299398 1316.750171 1844.287475 2146.656554 1793.740372 1.008796343 0.771765001 1.120982671 0.918576504 0.785553044 0.855920635 0.734080691 1.028179721 1.196748753 1 10.80875537 -5.999821878 23.77096683 0.992345678 0.844083279 0.276520636 0.125248202 3.0184949 402542.9859 0.014513801 0.026099479 1.00E-06 5.999821878 -0.148262399 SS(ph)PSPEVVKPK ddPTM_HeLa_SAHA_4h_R1 1 SSPSPEVVKPK 11 1 A0A1W2PNZ9;Q15652-3;Q15652;Q15652-2 A0A1W2PNZ9 JMJD1C Probable JmjC domain-containing histone demethylation protein 2C 1 0 S(0.326)S(0.579)PS(0.095)PEVVKPK 92.151 0.0081149 23526000 2530.6 2524 2253.6 2410.2 2930.6 2967.6 2617.2 2885.9 2891.9 2630.6 TRUE FALSE FALSE 2796.780119 2605.779256 2560.708872 2456.852906 2706.058061 2714.743785 2322.705768 2812.082857 2871.775032 2744.01804 1.019228036 0.949621766 0.933196806 0.895348671 0.986166279 0.98933161 0.846461552 1.024804799 1.046558365 1 11.42207425 -7.220126122 6.30143634 1.00908387 0.94303887 0.322120957 0.048999731 0.183696331 20.43556047 0.007321229 0.00892016 6.02E-08 7.220126122 -0.066045 SS(ph)PSVKPAVDPAAAK ddPTM_HeLa_SAHA_4h_R1 1 SSPSVKPAVDPAAAK 15 1 H3BV90;Q6FI81-3;Q6FI81;H3BPG7;H3BT65 H3BV90 CIAPIN1 Anamorsin 1 0 S(0.198)S(0.581)PS(0.222)VKPAVDPAAAK 69.024 0.017034 14591000 1968.7 2317.6 2006.5 2026.7 2368.5 2469.1 2146.5 1724.1 2466.5 2036.2 TRUE FALSE FALSE 2175.776899 2392.691761 2279.935371 2065.929709 2187.026042 2258.718789 1904.970171 1680.000018 2449.335426 2123.990547 1.02438163 1.126507726 1.073420677 0.972664267 1.02967786 1.063431658 0.896882603 0.790963981 1.153176237 1 11.05256163 -4.547102582 3.358109583 1.02557242 0.802053755 0.667836631 0.058694165 0.089664337 1.99663637 0.006446799 0.03603678 2.84E-05 4.547102582 -0.223518665 SS(ph)PVLQHK ddPTM_HeLa_SAHA_4h_R1 2 SSPVLQHK 8 0 Q3V6T2;A0A2R8Y820;Q3V6T2-3;Q3V6T2-2;Q3V6T2-4;A0A2R8Y7B1;H0Y7K3;A0A2R8Y5D7;H7C2C6;H0Y470;A0A2R8Y885;A0A2R8YCU9;A0A2U3TZV9;A0A2R8Y4Z5;A0A2R8Y7D4;A0A2R8YDS8;H0Y7U8;Q3V6T2-5;A0A2R8Y4C6 Q3V6T2 CCDC88A Girdin 1 0 S(0.063)S(0.937)PVLQHK;S(0.182)S(0.818)PVLQHK ; 121.5 0.0026199 9479800 7123.6 5397.7 8646 10842 7614.4 11861.2 13805.3 10463.8 6871 10638.1 TRUE FALSE FALSE 7872.892932 5572.589022 9824.231854 11051.86259 7030.986317 10850.55903 12251.89131 10196.15115 6823.184152 11096.76055 0.709476689 0.502181605 0.885324308 0.995953958 0.633607104 0.977813208 1.104096214 0.918840332 0.614880723 1 13.43785096 -5.023042937 24.16454262 0.829938167 1.018839929 0.235779745 0.168389243 610.1924205 639895.5712 0.024844831 0.063889475 9.48E-06 5.023042937 0.188901761 SS(ph)PVVNDGVVR ddPTM_HeLa_SAHA_4h_R1 1 SSPVVNDGVVR 11 0 H0YAM1;H0Y8R1;F5H5I6;H0YAK1;Q12849-5;Q12849 H0YAM1 GRSF1 G-rich sequence factor 1 1 0 S(0.022)S(0.978)PVVNDGVVR 168.82 0.00011163 6237400 1087.3 1237.5 1109.3 872.9 1349 1114.5 1142 1005.6 987.3 1191.7 TRUE FALSE FALSE 1201.667203 1277.595812 1260.469627 889.7962417 1245.639911 1019.53833 1013.499154 979.8782081 980.4292989 1243.080019 0.966685317 1.027766348 1.01398913 0.715799649 1.002059314 0.820171119 0.815312883 0.788266397 0.788709724 1 10.27970345 -6.287541901 24.829205 0.989849291 0.836798399 0.301129701 0.093894886 370.5517845 352474.9295 0.009954837 0.015209203 5.16E-07 6.287541901 -0.153050891 SS(ph)QSSSQQFSGIGR ddPTM_HeLa_SAHA_4h_R1 1 SSQSSSQQFSGIGR 14 0 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 1 0 S(0.156)S(0.831)QS(0.008)S(0.002)SQQFS(0.003)GIGR 136.57 0.00031603 6027800 739.34 910.85 722.23 868.04 987.82 1031.3 842.52 1024.4 783.34 991.68 TRUE FALSE FALSE 817.1071734 940.3621376 820.6517432 884.8421694 912.133445 943.4274381 747.7174322 998.1973313 777.8886732 1034.436178 0.789905835 0.909057666 0.793332407 0.855385947 0.881768701 0.912020923 0.722826065 0.964967537 0.751992911 1 10.01462892 -9.449983291 1.131915453 1.001692162 0.846150585 0 0.101505529 0.363380766 0.818112372 0.045241913 0.010752413 3.55E-10 9.449983291 -0.155541577 SS(ph)RGQEEISGALPVAS(ph)PASSR ddPTM_HeLa_SAHA_4h_R1 3 SSRGQEEISGALPVASPASSR 21 1 H0Y8S9;Q9UBK8;Q9UBK8-1;H0Y9D5 H0Y8S9 MTRR Methionine synthase reductase 2 0 S(0.448)S(0.552)RGQEEISGALPVAS(0.723)PAS(0.227)S(0.049)R;S(0.453)S(0.547)RGQEEISGALPVAS(0.928)PAS(0.061)S(0.01)R;S(0.428)S(0.572)RGQEEISGALPVAS(0.952)PAS(0.042)S(0.006)R ;; 154.92 2.55E-05 21365600 3393 2808.44 3205.72 3356.57 4008.9 3541.9 3862.3 3374.04 3206.53 2898.41 TRUE FALSE FALSE 3749.891308 2899.435299 3642.578827 3421.541266 3701.738948 3240.110194 3427.703839 3287.736942 3184.215497 3023.37464 1.240299915 0.959006291 1.204805643 1.131696093 1.224373222 1.071686635 1.133734402 1.087439479 1.053199116 1 11.56194405 -9.625237139 1.43993909 0.999989486 1.145682422 0.190687976 0.080554671 0.40458414 1.506558279 0.05635641 0.012870931 2.37E-10 9.625237139 0.145692936 SS(ph)RGQEEISGALPVASPASSR ddPTM_HeLa_SAHA_4h_R1 1 SSRGQEEISGALPVASPASSR 21 1 H0Y8S9;Q9UBK8;Q9UBK8-1;H0Y9D5 H0Y8S9 MTRR Methionine synthase reductase 1 0 S(0.2)S(0.8)RGQEEISGALPVASPASSR 186.06 4.44E-14 58018000 1677.4 1544.5 1542.4 1820.9 2041.2 2343.2 2442.6 2219.5 1546.8 1323.2 TRUE FALSE FALSE 1853.836628 1594.542813 1752.59024 1856.146153 1884.803697 2143.546178 2167.752219 2162.728404 1536.035693 1380.249628 1.34311692 1.155256833 1.26976324 1.344790185 1.365552766 1.553013408 1.570550845 1.566911058 1.112868036 1 10.4307135 -1.000000001 0.054894432 0.337704288 3.3694731 0.842170112 0.074911759 110.4912251 0.460370577 5.658405522 27.66492831 0.1 1.000000001 3.031768813 SS(ph)SLVDIREEETEGGSR ddPTM_HeLa_SAHA_4h_R1 1 SSSLVDIREEETEGGSR 17 1 Q96Q42-3;Q96Q42 Q96Q42-3 ALS2 Alsin 1 0 S(0.099)S(0.45)S(0.45)LVDIREEET(0.001)EGGSR 61.767 0.017308 3613400 1583 1353.5 1145.3 1551.9 1736.3 1758.4 1659 1804.3 1478.2 1509.3 TRUE FALSE FALSE 1749.507203 1397.354288 1301.37552 1581.939269 1603.265069 1608.574428 1472.324954 1758.148619 1467.913086 1574.373309 1.111240385 0.887562232 0.826599074 1.004805696 1.018351276 1.021723639 0.935181602 1.116729182 0.932379301 1 10.62056195 -7.27217798 24.97487306 1.05253018 0.970750744 0 0.087716154 940.4688454 2187254.59 0.014615922 0.01679813 5.34E-08 7.27217798 -0.081779436 SS(ph)SNVNGGPELDR ddPTM_HeLa_SAHA_4h_R1 1 SSSNVNGGPELDR 13 0 G5E9L9;Q8N568-2;Q8N568;A0A0U1RR70;Q8N568-3 G5E9L9 DCLK2 Serine/threonine-protein kinase DCLK2 1 0 S(0.066)S(0.52)S(0.415)NVNGGPELDR 94.487 0.0081308 5386800 512.37 517.26 492.62 437.53 391.18 400.62 474.27 377.31 400.75 411.8 TRUE FALSE FALSE 566.2634274 534.0195634 559.7516881 445.9990258 361.2078729 366.4849222 420.9038914 367.6589565 397.9611481 429.5547133 1.318256813 1.243193351 1.303097535 1.03828223 0.840889092 0.853174021 0.979860955 0.855907164 0.926450428 1 8.746698092 -5.978781278 4.752404042 1.173249993 0.889933398 0.531738667 0.121319363 0.12417117 7.218967753 0.02022184 0.036515154 1.05E-06 5.978781278 -0.283316595 SS(ph)SPELVTHLK ddPTM_HeLa_SAHA_4h_R1 1 SSSPELVTHLK 11 0 E9PNR6;Q07960;H0YE29 E9PNR6 ARHGAP1 Rho GTPase-activating protein 1 1 0 S(0.14)S(0.54)S(0.321)PELVTHLK 164.13 0.0001298 149090000 5913.9 6951.5 5009.1 6506.8 7845.8 8892.7 7681.9 7116.5 6989.6 5407.3 TRUE FALSE FALSE 6535.951136 7176.733161 5691.714062 6632.748523 7244.656499 8134.991931 6817.512394 6934.470235 6940.958805 5640.435166 1.158767177 1.272372246 1.009091301 1.175928511 1.284414462 1.442263175 1.208685535 1.229421141 1.230571507 1 12.46159076 -8.50290178 0.164432767 0.834197122 1.370858176 0.06547318 0.119043919 4.886234643 0.374494252 0.779029643 0.369228454 3.14E-09 8.50290178 0.536661055 SS(ph)SPVGLAK ddPTM_HeLa_SAHA_4h_R1 1 SSSPVGLAK 9 0 B1AKL4;Q9NRA8;Q9NRA8-3;Q9NRA8-2 B1AKL4 EIF4ENIF1 Eukaryotic translation initiation factor 4E transporter 1 0 S(0.163)S(0.641)S(0.196)PVGLAK 137.46 0.0013144 167920000 5627.8 5916.7 5618.2 5683.1 5720.9 6268.6 6875.1 6183.2 6226.3 5066.3 TRUE FALSE FALSE 6219.757825 6108.404962 6383.819038 5793.104618 5282.565878 5734.480014 6101.495654 6025.042697 6182.970671 5284.732987 1.176929438 1.155858769 1.207973809 1.096196276 0.99958993 1.085103075 1.154551359 1.140084601 1.169968414 1 12.36761487 -9.434905911 1.17650433 1.000300432 1.129652069 0 0.075216357 0.399739854 0.993208036 0.041629821 0.010523805 3.67E-10 9.434905911 0.129351637 SS(ph)SQENLLDEVMK ddPTM_HeLa_SAHA_4h_R1 1 SSSQENLLDEVMK 13 0 Q3V6T2;A0A2R8Y820;Q3V6T2-3;Q3V6T2-2;Q3V6T2-4;A0A2R8Y7B1;H0Y7K3;A0A2R8Y5D7;H7C2C6;H0Y470;A0A2R8Y885;A0A2R8YCU9;A0A2U3TZV9;A0A2R8Y4Z5;A0A2R8Y7D4;A0A2R8YDS8;H0Y7U8;Q3V6T2-5;A0A2R8Y4C6 Q3V6T2 CCDC88A Girdin 1 0 S(0.012)S(0.494)S(0.494)QENLLDEVMK 257.37 3.48E-42 14089000 2298.9 2385.8 1755.2 2606.6 2632.1 2579.9 2767.2 2644 2609.8 2191.9 TRUE FALSE FALSE 2540.70885 2463.101485 1994.389515 2657.054512 2430.429067 2360.078006 2455.827373 2576.370308 2591.638189 2286.403536 1.111225035 1.077282049 0.872282379 1.162110918 1.062992175 1.032222864 1.074100584 1.12682222 1.133499904 1 11.15886434 -4.346552461 2.927588097 1.049962277 1.133129753 0.065217167 0.076593138 0.64788966 8.497656145 0.010209927 0.113047102 4.50E-05 4.346552461 0.083167475 SS(ph)STHNAMAPLVRK ddPTM_HeLa_SAHA_4h_R1 1 SSSTHNAMAPLVRK 14 1 H0YK34;P30532 H0YK34 CHRNA5 Neuronal acetylcholine receptor subunit alpha-5 1 0 S(0.128)S(0.369)S(0.369)T(0.134)HNAMAPLVRK 58.688 0.02342 3996600 375.68 543.41 749.58 1136.3 684.03 1091.6 696.89 1076.9 988.52 599.69 TRUE FALSE FALSE 415.1957461 561.0168405 851.7288588 1158.29473 631.6197692 998.5895388 618.4741031 1049.354457 981.6408088 625.5455707 0.663733812 0.896844078 1.361577635 1.851655233 1.009710241 1.596349787 0.98869552 1.677502817 1.56925547 1 9.288971178 -6.767452978 4.981699913 0.838837926 1.407719996 0.142451011 0.350759458 0.109712427 7.377021876 0.041541397 0.056871276 1.71E-07 6.767452978 0.56888207 SS(ph)SVGSSSSYPISPAVSR ddPTM_HeLa_SAHA_4h_R1 1 SSSVGSSSSYPISPAVSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 S(0.012)S(0.494)S(0.494)VGSSSSYPISPAVSR 284.24 1.39E-73 1956800000 3879.1 3991.2 3334.9 4704.7 4682.5 4995.7 5086.4 5721.2 4755.6 4168.1 TRUE FALSE FALSE 4287.121536 4120.517499 3789.362805 4795.766272 4323.727862 4570.038255 4514.064885 5574.859988 4722.505392 4347.807189 0.986042239 0.947723144 0.871557233 1.103031037 0.994461731 1.051113367 1.038239436 1.28222337 1.086180961 1 12.08607225 -1.000001457 0.909540576 0.98795472 155.4209578 0.625129338 0.063694016 369.9998367 0.732639164 0.008144221 118709.4725 0.099999664 1.000001457 154.433003 SS(ph)SVKS(ph)LS(ph)QEMR ddPTM_HeLa_SAHA_4h_R1 1 SSSVKSLSQEMR 12 1 A2A2Y4-2;A2A2Y4 A2A2Y4-2 FRMD3 FERM domain-containing protein 3 3 0 S(0.149)S(0.608)S(0.251)VKS(0.993)LS(1)QEMR 63.16 0.0071583 0 1017 1246 821.27 773.67 1282.3 1522.3 1149.8 1066.8 1366.6 1010.7 TRUE FALSE FALSE 1123.972726 1286.371218 933.1883986 788.6455016 1184.050451 1392.591476 1020.421478 1039.512801 1357.089719 1054.276223 1.066108389 1.220146285 0.885146016 0.748044473 1.123093194 1.320898115 0.967888164 0.985996628 1.287224059 1 10.04203719 -9.529419842 1.382420577 1.000713234 1.043646998 0 0.178187561 2.67207537 9.377502137 0.102221774 0.026241892 2.96E-10 9.529419842 0.042933763 SS(ph)SVLSLEGSEK ddPTM_HeLa_SAHA_4h_R1 1 SSSVLSLEGSEK 12 0 A1L390-3;A1L390;G3V311;A1L390-2;A0A0U1RR71 A1L390-3 PLEKHG3 Pleckstrin homology domain-containing family G member 3 1 0 S(0.008)S(0.485)S(0.485)VLS(0.022)LEGSEK 190.85 5.65E-07 25383000 2167.5 2729.8 2219.1 2270.4 2471.2 2621.8 2812.3 2525.8 2552.3 2004.2 TRUE FALSE FALSE 2395.487595 2818.247311 2521.507391 2314.346875 2281.85719 2398.40789 2495.852602 2461.193693 2534.538336 2090.61087 1.145831407 1.348049678 1.206110342 1.10701944 1.091478678 1.147228269 1.19383891 1.177260545 1.212343422 1 11.02970884 -8.668860396 0.944345208 1.012952373 1.17528093 0 0.09179247 0.345994438 0.620905166 0.030436041 0.014879846 2.14E-09 8.668860396 0.162328557 SS(ph)VGAGEPR ddPTM_HeLa_SAHA_4h_R1 1 SSVGAGEPR 9 0 P51610-2;P51610;A6NEM2;P51610-4 P51610-2 HCFC1 Host cell factor 1;HCF N-terminal chain 1;HCF N-terminal chain 2;HCF N-terminal chain 3;HCF N-terminal chain 4;HCF N-terminal chain 5;HCF N-terminal chain 6;HCF C-terminal chain 1;HCF C-terminal chain 2;HCF C-terminal chain 3;HCF C-terminal chain 4;HCF C-terminal chain 5;HCF C-terminal chain 6 1 0 S(0.227)S(0.773)VGAGEPR 90.149 0.017506 1901200 890.97 993.96 1110.3 1400.7 1320.7 1368.6 1386.7 1219.4 1124 1308.9 TRUE FALSE FALSE 984.6863125 1026.164956 1261.605902 1427.812574 1219.508251 1251.98758 1230.664866 1188.209514 1116.177992 1365.333085 0.721205927 0.751585798 0.924027928 1.045761353 0.893194683 0.916983258 0.901366033 0.870270798 0.817513327 1 10.41503724 -6.571573934 24.99938518 0.85504944 0.928203595 0.230524193 0.083836893 232.6878696 119457.6335 0.0187726 0.02654847 2.68E-07 6.571573934 0.073154156 SSADKIGEVS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 SSADKIGEVSSPK 13 1 P35251-2;P35251;A0A1W2PP02 P35251-2 RFC1 Replication factor C subunit 1 1 0 SSADKIGEVS(0.5)S(0.5)PK 71.781 0.017482 111620000 7244.2 4421.7 3879.5 4988.5 5687.9 5834.7 6719.6 7813.7 4584.8 5099.3 TRUE FALSE FALSE 8006.178194 4564.965981 4408.178056 5085.059631 5252.094331 5337.550735 5963.492923 7613.836868 4552.894004 5319.155778 1.505159564 0.858212501 0.828736409 0.955989981 0.987392464 1.003458247 1.121135227 1.43139949 0.855942972 1 12.37698157 -7.243012497 24.98743517 1.238547588 1.017526367 0 0.228541958 1163.919345 1578312.704 0.04065653 0.049746155 5.71E-08 7.243012497 -0.221021221 SSADKIGEVSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SSADKIGEVSSPK 13 1 P35251-2;P35251;A0A1W2PP02 P35251-2 RFC1 Replication factor C subunit 1 1 0 SSADKIGEVS(0.06)S(0.94)PK 76.311 0.013554 12165000 4257.7 3006 2862.6 3056.8 3781.5 3776.5 4846.7 4275.6 2310.5 3366 TRUE FALSE FALSE 4705.544421 3103.396372 3252.70022 3115.968784 3491.762287 3454.720954 4301.33656 4166.236343 2294.421042 3511.124733 1.340181503 0.883875285 0.926398367 0.887456021 0.994485401 0.983935695 1.225059457 1.186581697 0.653471812 1 11.77771753 -7.248654695 24.91714187 1.16064127 1.010796574 0 0.207726436 1078.682658 2102335.441 0.028287395 0.034527584 5.64E-08 7.248654695 -0.149844696 SSARETRTTGPSADGSGT(ph)T(ph)GPS(ph)VVR ddPTM_HeLa_SAHA_4h_R1 1 SSARETRTTGPSADGSGTTGPSVVR 25 2 Q7Z5P9-2;Q7Z5P9 Q7Z5P9-2 MUC19 Mucin-19 3 0 S(0.002)S(0.003)ARET(0.006)RT(0.005)T(0.005)GPS(0.08)ADGS(0.494)GT(0.807)T(0.807)GPS(0.79)VVR 45.511 0.02113 9785400 568.7 734.29 806.21 700.65 746.5 743.8 801.1 953.92 547.13 635.26 TRUE FALSE FALSE 628.5184753 758.0814778 916.0761002 714.2120939 689.3033313 680.4240555 710.9581196 929.5201077 543.3224778 662.6491675 0.948493571 1.144016344 1.382445108 1.077813312 1.040223643 1.02682398 1.072902758 1.402733382 0.819924787 1 9.372101443 -7.24921422 15.50716566 0.975677442 1.155428637 0.384551421 0.134559206 4.53193006 5747.006533 0.020968022 0.025417452 5.63E-08 7.24921422 0.179751195 SSARSSIAEVQS(ph)EIER ddPTM_HeLa_SAHA_4h_R1 1 SSARSSIAEVQSEIER 16 1 F8VUW8;F8VNV8;P54284-5;P54284-2;P54284-3;P54284-4;P54284 F8VUW8 CACNB3 Voltage-dependent L-type calcium channel subunit beta-3 1 0 S(0.002)S(0.005)ARS(0.01)S(0.01)IAEVQS(0.974)EIER 47.774 0.023152 4113000 1265.1 1346.4 1164.7 1423 1381 1388.4 1430.3 1406.7 1487.2 1258.9 TRUE FALSE FALSE 1398.169022 1390.024243 1323.419251 1450.544223 1275.188078 1270.100509 1269.35888 1370.718651 1476.850454 1313.17734 1.064722167 1.058519821 1.007799335 1.104606498 0.97107073 0.967196486 0.966631727 1.043818386 1.124639003 1 10.35884604 SSASAPDVDDPEAFPALA ddPTM_HeLa_SAHA_4h_R1 1 SSASAPDVDDPEAFPALA 18 0 Q8NC51-2;Q8NC51;Q8NC51-4;Q8NC51-3 Q8NC51-2 SERBP1 Plasminogen activator inhibitor 1 RNA-binding protein 0 0 112.83 0.0059297 1011400 918.45 824.49 878.29 960.58 878.49 1039.7 1195.4 1152.9 951.58 850.51 FALSE FALSE TRUE 1015.056785 851.204017 997.9787873 979.1734149 811.180286 951.1117108 1060.890446 1123.410487 944.9578773 887.1796484 1.144138943 0.95944944 1.12488918 1.103692377 0.914335994 1.072062138 1.195801152 1.266271707 1.065125738 1 9.793082461 -4.665959088 3.272348319 1.057144518 1.252835831 0.535591674 0.069245726 0.162637624 3.307110185 0.010801449 0.050277775 2.16E-05 4.665959088 0.195691313 SSATIQNET(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SSATIQNETPK 11 0 F5GX09;Q5HYJ3-3;Q5HYJ3-2;Q5HYJ3 F5GX09 FAM76B Protein FAM76B 1 0 SSATIQNET(1)PK 135.81 3.35E-05 0 1741.2 1922 1734.4 2135.9 2335.6 2031.3 2162.5 2398 2351.3 2340.5 TRUE FALSE FALSE 1924.347405 1984.274061 1970.755 2177.243433 2156.646833 1858.221812 1919.169809 2336.662632 2334.937112 2441.410409 0.788211354 0.812757271 0.807219873 0.891797391 0.883361038 0.761126358 0.786090614 0.957095384 0.956388612 1 11.25349912 -9.351978369 1.023151595 1.002120027 0.830564488 0.484533157 0.057924257 0.324655739 0.596380662 0.041072771 0.010202545 4.45E-10 9.351978369 -0.171555538 SSATLWNS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 4 SSATLWNSPSR 11 0 Q3KQU3-4;Q3KQU3;C9JIR3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 SSATLWNS(0.872)PS(0.128)R;SSATLWNS(0.841)PS(0.159)R;SSATLWNS(0.699)PS(0.301)R;SSATLWNS(0.953)PS(0.047)R ;;; 158.01 0.00023641 61320200 5255.1 4647.81 4666.6 4795.08 5842.3 5612.76 5943.1 6299.4 5349.65 4997.27 TRUE FALSE FALSE 5807.855529 4798.402094 5302.539945 4887.895707 5394.664236 5134.521271 5274.366747 6138.270469 5312.42135 5212.726766 1.114168417 0.92051671 1.017229597 0.937685002 1.034902553 0.984997201 1.011824902 1.177554617 1.019125227 1 12.34782253 -12.32191536 12.28373353 1.040640344 1.034629753 0 0.073416543 0 0 0 0.010156921 4.77E-13 12.32191536 -0.006010591 SSATSGDIWPGLSAYDNS(ph)PR ddPTM_HeLa_SAHA_4h_R1 7 SSATSGDIWPGLSAYDNSPR 20 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 SSATS(0.001)GDIWPGLS(0.176)AY(0.007)DNS(0.817)PR;SSATSGDIWPGLSAYDNS(0.999)PR;SSATSGDIWPGLS(0.042)AY(0.001)DNS(0.957)PR;SSATSGDIWPGLS(0.276)AY(0.061)DNS(0.663)PR;SSATSGDIWPGLS(0.002)AYDNS(0.998)PR;SSATSGDIWPGLSAYDNS(1)PR;SSATSGDIWPGLSAYDNS(1)PR ;;;;;; 300.5 7.12E-92 293646900 15247.45 17807.82 13746.1 17013.19 18620.05 22090.37 17336.96 16407.27 25007.87 18720.8 TRUE FALSE FALSE 16851.24675 18384.80505 15619.34692 17342.50489 17193.38579 20208.1462 15386.15963 15987.59579 24833.8382 19527.94531 0.862929842 0.941461314 0.799845897 0.888086515 0.880450325 1.034832179 0.787904687 0.818703429 1.271707689 1 14.25325254 -9.33779352 0.718534153 1.01387515 0.876900381 0.360142119 0.110548153 0.900150635 0.695888313 0.076717845 0.013803832 4.59E-10 9.33779352 -0.13697477 SSAWAEGGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 SSAWAEGGSPR 11 0 Q8N9B5-2;Q8N9B5 Q8N9B5-2 JMY Junction-mediating and -regulatory protein 1 0 SSAWAEGGS(1)PR;SSAWAEGGS(1)PR ; 103.43 0.0058533 23591000 2691 2514.4 2233.1 2504.2 2634.8 3301.5 2453.7 2579.6 2988.7 2906.8 TRUE FALSE FALSE 2974.051727 2595.86821 2537.415239 2552.672412 2432.922193 3020.193626 2177.603218 2513.617567 2967.901393 3032.126374 0.980846891 0.856121378 0.836843497 0.841875337 0.802381528 0.996064561 0.718176933 0.828994988 0.978818502 1 11.56611417 -7.24766408 3.384038229 0.992106977 0.83806349 0.525444497 0.064011804 0.127499852 3.033120298 0.010420862 0.012416819 5.65E-08 7.24766408 -0.154043487 SSCST(ph)PLSQANR ddPTM_HeLa_SAHA_4h_R1 2 SSCSTPLSQANR 12 0 B1AKL4;Q9NRA8;Q9NRA8-3;Q9NRA8-2 B1AKL4 EIF4ENIF1 Eukaryotic translation initiation factor 4E transporter 1 0 SSCS(0.118)T(0.882)PLS(0.001)QANR;SSCS(0.062)T(0.938)PLS(0.001)QANR ; 210.15 4.75E-11 17432000 5354.3 4690.5 4894.6 6029.4 5555.9 5132.1 5479.5 5274.1 5853.5 5249.5 TRUE FALSE FALSE 5917.48984 4842.475278 5561.610598 6146.107756 5130.208142 4694.816208 4862.932239 5139.196159 5812.765017 5475.831635 1.080655914 0.884336042 1.015665011 1.122406269 0.936882009 0.857370445 0.888071906 0.938523406 1.061530997 1 12.41886237 -5.546980152 14.10609845 1.029571421 0.8945161 0.495943507 0.061456084 1.125148516 658.0037043 0.009241523 0.018506947 2.84E-06 5.546980152 -0.135055321 SSDEENGPPSS(ph)PDLDR ddPTM_HeLa_SAHA_4h_R1 2 SSDEENGPPSSPDLDR 16 0 Q96B36;Q96B36-2;Q96B36-3 Q96B36;Q96B36-3 AKT1S1 Proline-rich AKT1 substrate 1 1 0 SSDEENGPPSS(1)PDLDR;SSDEENGPPS(0.002)S(0.998)PDLDR ; 320 3.68E-119 140153000 7594.6 7004.1 7010.2 6922.5 8220.4 6813.9 8246 7730.6 9276.6 7389.8 TRUE FALSE FALSE 8393.434873 7231.037436 7965.513548 7056.494998 7590.554728 6233.317386 7318.138378 7532.862446 9212.043385 7708.410443 1.088867145 0.938071148 1.033353583 0.915428031 0.984710763 0.808638491 0.949370617 0.977226434 1.195063944 1 12.91221768 -6.456793202 1.22469896 1.038833222 0.920618073 0.393035747 0.076646633 0.323148024 0.964310124 0.010704135 0.01893043 3.49E-07 6.456793202 -0.118215149 SSDGS(ph)LSHEEDLAK ddPTM_HeLa_SAHA_4h_R1 2 SSDGSLSHEEDLAK 14 0 A0A2R8Y7R9;Q13136-2;Q13136;H0YEF9;E9PJZ7 A0A2R8Y7R9 PPFIA1 Liprin-alpha-1 1 0 S(0.001)S(0.001)DGS(0.995)LS(0.004)HEEDLAK;S(0.305)S(0.305)DGS(0.389)LS(0.002)HEEDLAK ; 115.12 0.0013978 6885600 3919.6 4817.4 3662.31 4663 6105.5 6095.1 5755.4 5471.2 4891.2 5114.8 TRUE FALSE FALSE 4331.881512 4973.486921 4161.390534 4753.259108 5637.697909 5575.76319 5107.787245 5331.254626 4857.161741 5335.324059 0.811924724 0.932180851 0.779969593 0.890903543 1.056673943 1.045065516 0.957352766 0.999237266 0.910378018 1 12.38136019 -5.772957049 24.83233476 0.89866577 1.01267191 0.490571501 0.06279199 188.4494022 406301.1658 0.012341475 0.022513099 1.69E-06 5.772957049 0.11400614 SSDPGPDIGVVEES(ph)PEKGDEISLR ddPTM_HeLa_SAHA_4h_R1 1 SSDPGPDIGVVEESPEKGDEISLR 24 1 Q7Z2Z1-2;Q7Z2Z1 Q7Z2Z1-2 TICRR Treslin 1 0 SSDPGPDIGVVEES(0.999)PEKGDEIS(0.001)LR 86.248 9.90E-05 3340900 751.2 640.11 580.75 560.42 821 582.23 653.54 814.87 934.23 709.43 TRUE FALSE FALSE 830.2146626 660.849984 659.8915856 571.2677395 758.0951574 532.6207285 580.0019592 794.0268053 927.7286174 740.0169992 1.121885934 0.893020005 0.891724901 0.771965698 1.024429382 0.719741207 0.783768427 1.072984548 1.253658522 1 9.531414602 -7.171894321 5.843611564 1.057367715 0.870237155 0.426230906 0.123028356 0.170306654 8.972031273 0.017499891 0.021475111 6.73E-08 7.171894321 -0.187130561 SSDPGPDIGVVEES(ph)PEKGDEISLRR ddPTM_HeLa_SAHA_4h_R1 2 SSDPGPDIGVVEESPEKGDEISLRR 25 2 Q7Z2Z1-2;Q7Z2Z1 Q7Z2Z1-2 TICRR Treslin 1 0 S(0.001)S(0.001)DPGPDIGVVEES(0.984)PEKGDEIS(0.013)LRR;SSDPGPDIGVVEES(0.99)PEKGDEIS(0.01)LRR ; 63.674 0.00076708 20350800 3410.8 3698.1 2806.4 3192.7 3643.3 3394.9 3792.5 3944.2 3025 3657.3 TRUE FALSE FALSE 3769.563593 3817.920866 3188.841577 3254.499325 3364.151141 3105.635421 3365.757919 3843.313075 3003.948779 3814.984101 0.988094182 1.000769797 0.835872835 0.853083326 0.88182573 0.814062481 0.882246906 1.007425712 0.787407942 1 11.89746133 -6.771378296 24.99775232 0.994700127 0.875216791 0 0.08150375 102.3319261 257378.4917 0.007613684 0.010072919 1.69E-07 6.771378296 -0.119483336 SSDQPLTVPVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 SSDQPLTVPVSPK 13 0 Q9ULW0;Q9ULW0-2 Q9ULW0 TPX2 Targeting protein for Xklp2 1 0 SSDQPLTVPVS(1)PK;SSDQPLT(0.001)VPVS(0.999)PK;SSDQPLTVPVS(1)PK ;; 205.52 4.44E-11 435959100 16013.8 15562.2 15550 15588.8 17281.1 11202 17500.7 17287.9 15914.6 14737 TRUE FALSE FALSE 17698.20496 16066.42549 17669.07302 15890.54377 15957.02585 10247.52658 15531.47518 16845.70055 15803.849 15372.38419 1.151298636 1.045148579 1.149403554 1.03370717 1.038031944 0.666619208 1.010349142 1.09584176 1.028067527 1 13.90805332 -5.501831189 24.9099231 1.073488907 0.919452554 0.248473817 0.1117886 750.512367 888235.5206 0.016300949 0.036080111 3.15E-06 5.501831189 -0.154036353 SSDYQFPS(ph)SPFTDTLK ddPTM_HeLa_SAHA_4h_R1 3 SSDYQFPSSPFTDTLK 16 0 Q9UK61-3;Q9UK61 Q9UK61-3 FAM208A Protein FAM208A 1 0 SSDYQFPS(0.577)S(0.357)PFT(0.057)DT(0.009)LK;S(0.002)S(0.002)DYQFPS(0.423)S(0.253)PFT(0.319)DT(0.001)LK;SSDYQFPS(0.644)S(0.348)PFT(0.008)DTLK ;; 117.4 0.00086361 24256700 2990.25 3914.48 3184.38 4090.32 4211.48 2594.76 3708.35 3727.85 5631.59 3801.56 TRUE FALSE FALSE 3304.778215 4041.31172 3618.330723 4169.494058 3888.797312 2373.67185 3291.076698 3632.496995 5592.399307 3965.463856 0.833390074 1.01912711 0.912460901 1.051451787 0.980666437 0.598586177 0.829934862 0.916033313 1.410276202 1 11.95327392 -5.327787245 24.99999953 0.939907341 0.786354875 0.189644661 0.17643963 163.2614191 61516.87793 0.014795895 0.033084633 4.70E-06 5.327787245 -0.153552465 SSDYQFPSS(ph)PFTDTLK ddPTM_HeLa_SAHA_4h_R1 1 SSDYQFPSSPFTDTLK 16 0 Q9UK61-3;Q9UK61 Q9UK61-3 FAM208A Protein FAM208A 1 0 SSDYQFPS(0.199)S(0.707)PFT(0.088)DT(0.006)LK 151.44 4.93E-05 10158000 1467.8 1534.5 1072 1164.4 1374.3 928.69 1395.2 1223.4 2437.4 1325 TRUE FALSE FALSE 1622.189939 1584.218807 1218.086577 1186.938646 1269.001431 849.5603873 1238.208424 1192.107199 2420.437935 1382.127234 1.173690741 1.146217777 0.881312912 0.858776686 0.918150948 0.614675962 0.895871518 0.86251625 1.75124104 1 10.43267472 -6.65793476 4.846019853 1.088901141 0.830704771 0.378624474 0.227620186 0.109961597 4.298427542 0.016112115 0.022882581 2.20E-07 6.65793476 -0.258196371 SSEAS(ph)PTAQR ddPTM_HeLa_SAHA_4h_R1 1 SSEASPTAQR 10 0 J3KNN7;Q7Z569 J3KNN7 BRAP BRCA1-associated protein 1 0 S(0.003)S(0.008)EAS(0.839)PT(0.15)AQR 95.618 0.013833 3124500 349.52 597.02 404.27 554.29 786.27 1078 659.58 589.09 1068.1 1087.3 TRUE FALSE FALSE 386.2841173 616.3638397 459.3618103 565.0190845 726.0261625 986.1483353 585.3623225 574.0219308 1060.667005 1134.178824 0.340584843 0.543445025 0.405017093 0.498174602 0.640133766 0.869482232 0.516111137 0.506112368 0.935184984 1 10.14743241 -9.462139671 1.19168914 1.000629427 0.527134156 0.611494187 0.135824135 0.274351531 0.6954835 0.106503807 0.026170051 3.45E-10 9.462139671 -0.473495271 SSEEIESAFR ddPTM_HeLa_SAHA_4h_R1 2 SSEEIESAFR 10 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2;A0A0D9SFH4 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 ; ; 137.95 0.0073746 25447000 1634.05 1917.33 1633.73 1777.86 1852.74 1866.47 1792.85 2017.28 1870.64 1665.89 FALSE FALSE TRUE 1805.926876 1979.45275 1856.366216 1812.273051 1710.783461 1707.436256 1591.113799 1965.680899 1857.622064 1737.714671 1.039253974 1.139112642 1.068280223 1.042905997 0.984501938 0.982575727 0.915635821 1.131187376 1.069002924 1 10.7629755 -5.764116404 24.89011587 1.034684605 0.995708151 0.083167022 0.062902591 138.8452691 1290958.496 0.009256446 0.017344766 1.72E-06 5.764116404 -0.038976454 SSEGGVGVGPGGGDEPPT(ph)SPR ddPTM_HeLa_SAHA_4h_R1 2 SSEGGVGVGPGGGDEPPTSPR 21 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 SSEGGVGVGPGGGDEPPT(0.5)S(0.5)PR;SSEGGVGVGPGGGDEPPT(0.98)S(0.02)PR ; 247.28 5.64E-43 19589700 1391.45 1475.44 1282.77 1249.71 1787.67 1615.94 1706.62 1887.4 1620.06 1496.65 TRUE FALSE FALSE 1537.809095 1523.245224 1457.579215 1273.899944 1650.699111 1478.252821 1514.586626 1839.123041 1608.785871 1561.177906 0.985031296 0.975702525 0.933640689 0.815986403 1.057342091 0.946883001 0.970156329 1.178035529 1.0304949 1 10.60841924 -4.260418503 24.53818553 0.975987517 1.178035603 0.503359225 0.062066721 41.97913444 1008835.112 0.008133338 0.066334282 5.49E-05 4.260418503 0.202048086 SSEGGVGVGPGGGDEPPTS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SSEGGVGVGPGGGDEPPTSPR 21 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 SSEGGVGVGPGGGDEPPT(0.011)S(0.989)PR 261.02 1.10E-53 19850000 889.39 759.51 634.51 753.39 832.14 1339 984.33 927.22 806.39 643.18 TRUE FALSE FALSE 982.9401209 784.1186223 720.9777184 767.9729529 768.381613 1224.909667 873.5705978 903.503055 800.7782663 670.9106374 1.465083524 1.1687378 1.074625558 1.144672494 1.145281607 1.825741908 1.302066995 1.346681666 1.19356919 1 9.389976808 -9.510601812 1.214351963 0.996984833 1.320992478 0.112096538 0.213242338 0.575528539 1.496218013 0.157787909 0.036622044 3.09E-10 9.510601812 0.324007644 SSEHINEGET(ph)AMLVCK ddPTM_HeLa_SAHA_4h_R1 1 SSEHINEGETAMLVCK 16 0 R4GN83;R4GMX5;I3L192;A0A087WUV8;A0A087X2B5;P35613-3;P35613-4;P35613-2;P35613 R4GN83 BSG Basigin 1 0 SSEHINEGET(0.999)AMLVCK 104.82 0.004685 6312500 454.18 598.48 453.14 506.29 544.45 774.49 631.39 609.08 510.64 549.17 TRUE FALSE FALSE 501.9527363 617.8711447 514.8915593 516.0899751 502.7343586 708.4990948 560.3443355 593.5006155 507.0864147 572.8474063 0.876241615 1.07859639 0.898828473 0.900920506 0.877606066 1.236802484 0.97817382 1.036053597 0.8852033 1 9.162007078 -5.29602697 24.98423511 0.940741322 1.07312654 0.392201755 0.086179472 504.2432994 364237.8175 0.012250629 0.027394815 5.06E-06 5.29602697 0.132385218 SSEMS(ph)PVPMR ddPTM_HeLa_SAHA_4h_R1 4 SSEMSPVPMR 10 0 E9PCH4;Q8TEU7;Q8TEU7-4;A0A5F9ZHG7;B7Z7Y1;Q8TEU7-2;Q8TEU7-5;Q8TEU7-3;D6RE77 E9PCH4 RAPGEF6 Rap guanine nucleotide exchange factor 6 1 0 SSEMS(1)PVPMR;SS(0.001)EMS(0.999)PVPMR;SS(0.001)EMS(0.999)PVPMR;S(0.032)S(0.003)EMS(0.965)PVPMR ;;; 138.25 0.0012154 58281600 6437.72 5988.3 6274.05 6053.87 6694.18 6880.08 6595.9 5912.71 5900.08 6188.09 TRUE FALSE FALSE 7114.868927 6182.324849 7129.04486 6171.051408 6181.273375 6293.858478 5853.711973 5761.47144 5859.020863 6454.888844 1.102244996 0.957774022 1.10444115 0.956027525 0.957611126 0.975052961 0.906864876 0.89257485 0.907687337 1 12.65617654 -5.551261977 0.844953479 1.04587564 0.898732691 0.182857139 0.064230187 0.447923509 0.554649943 0.009157013 0.040681799 2.81E-06 5.551261977 -0.147142949 SSEPVKETVQTTQS(ph)PTPVEK ddPTM_HeLa_SAHA_4h_R1 3 SSEPVKETVQTTQSPTPVEK 20 1 A0A0A0MT33;Q9UPN6;Q9UPN6-2 A0A0A0MT33 SCAF8 Protein SCAF8 1 0 SSEPVKETVQTTQS(0.999)PT(0.001)PVEK;SSEPVKETVQTT(0.001)QS(0.903)PT(0.096)PVEK;SSEPVKETVQTT(0.001)QS(0.598)PT(0.401)PVEK ;; 183.07 1.90E-10 203152000 11180.9 11946.3 9940.6 11204.2 12903 12184.4 12777.1 10351.2 13277.1 11185.9 TRUE FALSE FALSE 12356.95836 12333.36796 11295.2532 11421.07349 11914.37493 11146.22057 11339.38708 10086.43129 13184.70358 11668.17889 1.059030589 1.057008816 0.968039083 0.978822282 1.021099782 0.955266514 0.971821497 0.864439206 1.129970984 1 13.51029179 -2.474595228 0.507051194 1.026659771 1.74E-15 0.583573011 0.044104146 9.685571811 0.405191565 0.006726658 8.8406148 0.003352778 2.474595228 -1.026659771 SSEPVKETVQTTQSPT(ph)PVEK ddPTM_HeLa_SAHA_4h_R1 1 SSEPVKETVQTTQSPTPVEK 20 1 A0A0A0MT33;Q9UPN6;Q9UPN6-2 A0A0A0MT33 SCAF8 Protein SCAF8 1 0 SSEPVKETVQTT(0.019)QS(0.336)PT(0.645)PVEK 156.08 9.03E-06 29325000 7903.7 8317.6 7185.2 8145.4 9546.7 9515.5 9614 7713.6 10167 7884.2 TRUE FALSE FALSE 8735.047429 8587.095697 8164.361637 8303.065995 8815.233908 8704.725867 8532.207417 7516.297281 10096.24702 8224.126446 1.062124651 1.044134688 0.99273299 1.009598533 1.071874802 1.058437747 1.037460632 0.913932602 1.22763762 1 13.00564673 -4.259896537 24.57970842 1.032295679 0.913932552 0.227185912 0.066774526 59.22005189 943343.7849 0.004256031 0.035885716 5.50E-05 4.259896537 -0.118363126 SSEPVQHEES(ph)IRKPSPEPR ddPTM_HeLa_SAHA_4h_R1 1 SSEPVQHEESIRKPSPEPR 19 2 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 SSEPVQHEES(0.764)IRKPS(0.236)PEPR 62.709 0.0064364 56194000 2163.7 2460.1 1748.6 2089.4 3095.7 3042.3 2918.2 3019.7 2142.7 2208 TRUE FALSE FALSE 2391.287893 2539.808854 1986.890102 2129.843358 2858.508135 2783.078924 2589.836456 2942.460446 2127.788776 2303.197686 1.038246916 1.102731594 0.862665899 0.924733197 1.241104119 1.208354342 1.124452526 1.277554447 0.92384114 1 11.16942253 -5.753069235 24.99959978 1.006754874 1.20622883 0.691757654 0.075900159 89.4574219 267185.5526 0.010529471 0.020783017 1.77E-06 5.753069235 0.199473956 SSESGNSVK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 SSESGNSVKR 10 1 H3BU93;Q9GZU8;H3BNK9 H3BU93 FAM192A Protein FAM192A 0 1 ; SSESGNSVK(1)R;SSESGNSVK(1)R 162.64 4.64E-08 12033100 604.33 431.53 324.27 702.32 878.64 1169.89 936.91 959.43 509.98 739.1 FALSE TRUE FALSE 667.8962022 445.5118551 368.4598269 715.9144192 811.318793 1070.20879 831.486421 934.8891698 506.4310077 770.9662181 0.866310594 0.577861707 0.477919549 0.92859376 1.052340263 1.388139669 1.078499163 1.212620148 0.656878338 1 9.590523836 -5.619527327 3.296030685 0.866414509 1.212897644 0.525523768 0.187170539 0.198978439 4.285507825 0.029973179 0.064105031 2.40E-06 5.619527327 0.346483136 SSETGAFRVPS(ph)PGMEEAGCSR ddPTM_HeLa_SAHA_4h_R1 3 SSETGAFRVPSPGMEEAGCSR 21 1 Q96RL1-2;Q96RL1;Q96RL1-3;Q96RL1-4 Q96RL1-2 UIMC1 BRCA1-A complex subunit RAP80 1 0 SSETGAFRVPS(0.987)PGMEEAGCS(0.013)R;SSETGAFRVPS(0.999)PGMEEAGCSR;SSETGAFRVPS(0.996)PGMEEAGCS(0.003)R ;; 142.23 3.26E-05 105727400 3497.7 2742.94 3105.3 3357.49 3616.99 3008.36 3584.19 3553.24 2223.35 2981.29 TRUE FALSE FALSE 3865.604134 2831.813056 3528.474112 3422.479074 3339.857008 2752.030803 3180.887508 3462.353266 2207.877526 3109.828002 1.243028274 0.910601182 1.134620342 1.100536451 1.073968401 0.884946306 1.02284998 1.113358444 0.70996773 1 11.60261907 -5.505230085 23.82111622 1.100630194 1.003769066 0 0.157092309 656.9211642 886671.1249 0.016532102 0.036211192 3.12E-06 5.505230085 -0.096861129 SSFASSSASDASKPS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 SSFASSSASDASKPSSPR 18 1 Q96IF1 Q96IF1 AJUBA LIM domain-containing protein ajuba 1 0 SSFASSSASDAS(0.006)KPS(0.497)S(0.497)PR 109.22 0.00075792 47840000 2324.5 2430 2084.2 1882.6 2233.4 2512.7 1879.4 2070.2 2733.3 2894 TRUE FALSE FALSE 2569.001575 2508.733594 2368.223922 1919.040445 2062.277375 2298.603824 1667.924966 2017.247282 2714.278743 3018.774503 0.851008107 0.831043721 0.784498451 0.63570182 0.683150521 0.76143608 0.552517243 0.668233841 0.899132658 1 11.55974728 -7.022619353 0.311465293 1.021151652 0.578595222 0.773114668 0.060863545 0.386755478 0.111473466 0.045895495 0.065310013 9.49E-08 7.022619353 -0.442556429 SSFASSSASDASKPSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 SSFASSSASDASKPSSPR 18 1 Q96IF1 Q96IF1 AJUBA LIM domain-containing protein ajuba 1 0 SSFASSSASDASKPS(0.005)S(0.995)PR;SSFASSSASDAS(0.008)KPS(0.225)S(0.767)PR;SSFASSSASDASKPS(0.011)S(0.989)PR ;; 205.92 7.14E-17 127855000 9616.1 10293.7 8745.1 8261.4 9191.8 10361.5 9683.3 9346.4 12319.7 10123.4 TRUE FALSE FALSE 10627.56552 10627.22263 9936.836685 8421.311343 8487.52627 9478.641908 8593.709599 9107.332621 12233.9662 10559.86932 1.006410704 1.006378234 0.940999968 0.797482534 0.803752965 0.897609774 0.813808329 0.862447474 1.158533864 1 13.36630436 -6.471646043 3.590029252 1.002914942 0.836079887 0.73609761 0.05662924 0.052005972 1.353774199 0.004261926 0.006509433 3.38E-07 6.471646043 -0.166835055 SSFES(ph)PAQDQSWMFLGHSEVGDPSLDAR ddPTM_HeLa_SAHA_4h_R1 1 SSFESPAQDQSWMFLGHSEVGDPSLDAR 28 0 E9PDC2;A0A088AWP5;Q8WUY3-4;Q8WUY3;Q8WUY3-2;Q8WUY3-3;H7BZH9 E9PDC2 PRUNE2 Protein prune homolog 2 1 0 S(0.133)S(0.133)FES(0.699)PAQDQS(0.034)WMFLGHS(0.001)EVGDPSLDAR 46.66 0.022637 2178900 217.03 344.75 273.78 242.48 271.99 309.99 269.21 304.8 351.45 318.24 TRUE FALSE FALSE 239.8582112 355.9201262 311.0893126 247.173551 251.150185 283.577108 238.9177823 297.0036573 349.0042308 331.9608838 0.722549622 1.072174896 0.937126414 0.744586375 0.756565599 0.854248563 0.719716671 0.894694742 1.051341432 1 8.374869443 -6.260787908 24.99561167 0.888772091 0.791109261 0.255469941 0.112060765 99.93122987 3834126.798 0.019225443 0.03069192 5.49E-07 6.260787908 -0.09766283 SSFFS(ph)DRGSGSR ddPTM_HeLa_SAHA_4h_R1 1 SSFFSDRGSGSR 12 1 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;F6S8Q4;A0A2R8YDH3;A0A2R8YF89;A0A2R8YCU0;A0A2R8Y650;A0A087WX09 A0A2R8Y5G6 DDX3X ATP-dependent RNA helicase DDX3X 1 0 SSFFS(0.508)DRGS(0.471)GS(0.021)R 65.895 0.023603 29622000 2177.9 2034.3 2175.7 2000 2273.9 2435.3 2091.9 2012.1 1934.2 2014.9 TRUE FALSE FALSE 2406.981515 2100.212655 2472.193065 2038.712892 2099.674273 2227.798739 1856.513906 1960.633395 1920.739745 2101.7722 1.145215221 0.999257986 1.176242157 0.969997078 0.99900183 1.059962036 0.883308813 0.932847716 0.913866757 1 11.0373906 -4.879448407 0.857457649 1.068219169 0.879286084 0.154164528 0.08305594 0.935676064 0.854311928 0.012163031 0.135826143 1.32E-05 4.879448407 -0.188933086 SSFFSDRGS(ph)GSR ddPTM_HeLa_SAHA_4h_R1 2 SSFFSDRGSGSR 12 1 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;F6S8Q4;A0A2R8YDH3;A0A2R8YF89;A0A2R8YCU0;A0A2R8Y650;A0A087WX09 A0A2R8Y5G6 DDX3X ATP-dependent RNA helicase DDX3X 1 0 SSFFSDRGS(0.999)GS(0.001)R;SSFFSDRGS(0.946)GS(0.054)R ; 136.01 0.0036553 38546000 8001.4 7156.1 6683.4 9006.1 7263.9 8790.6 9216.4 7927 6654 7178.5 TRUE FALSE FALSE 8843.023964 7387.962335 7594.178946 9180.426089 6707.341551 8041.591425 8179.346416 7724.238818 6607.694272 7488.000266 1.180959355 0.986640234 1.014179845 1.226018398 0.895745368 1.073930441 1.092327207 1.031548951 0.882437772 1 12.87036477 -5.755999057 24.9999931 1.082054245 1.031922453 0 0.107124263 341.5791948 1569640.592 0.014106051 0.027601724 1.75E-06 5.755999057 -0.050131792 SSFLSS(ph)PER ddPTM_HeLa_SAHA_4h_R1 2 SSFLSSPER 9 0 Q4AC94 Q4AC94 C2CD3 C2 domain-containing protein 3 1 0 SSFLS(0.073)S(0.927)PER;SSFLS(0.072)S(0.928)PER ; 133.99 0.0016398 17659900 5807.4 5755.5 5460.7 5617.7 5893.5 4462.7 7071 4192.2 2365.74 3838.9 TRUE FALSE FALSE 6418.248977 5941.981976 6204.855758 5726.438707 5441.941303 4082.452854 6275.35247 4084.969594 2349.276623 4004.413766 1.602793655 1.483858143 1.549504152 1.43003172 1.358985764 1.019488268 1.567108904 1.020116759 0.586671798 1 11.96737534 -2.911590731 10.99414926 1.321039748 1.278158561 0 0.324932455 0 0 0.036031383 0 0.001225771 2.911590731 -0.042881187 SSFSSTSES(ph)PTR ddPTM_HeLa_SAHA_4h_R1 2 SSFSSTSESPTR 12 0 Q6ZMT1-2;Q6ZMT1 Q6ZMT1-2 STAC2 SH3 and cysteine-rich domain-containing protein 2 1 0 SSFSSTS(0.005)ES(0.981)PT(0.013)R;SSFSSTSES(0.888)PT(0.112)R ; 142.97 5.45E-07 2450700 1311.98 2012.41 1756.95 1921.55 2125.43 2611.94 2298.85 2162.88 2200.55 2039.22 TRUE FALSE FALSE 1449.980076 2077.613404 1996.377996 1958.744379 1962.580013 2389.388018 2040.177348 2107.556661 2185.236193 2127.140754 0.681656855 0.976716468 0.938526514 0.9208344 0.922637587 1.123286277 0.95911723 0.990793232 1.027311516 1 11.05469978 -6.178252602 1.116621786 0.856484008 1.008436119 0 0.107811122 0.604342803 1.487544104 0.022660978 0.048502054 6.63E-07 6.178252602 0.151952111 SSFTVDCSK ddPTM_HeLa_SAHA_4h_R1 2 SSFTVDCSK 9 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 123.86 0.0055563 11708000 3746 3525.9 3118 3731.5 3870.5 3631.4 4153.1 3604.4 2913.1 3024.2 FALSE FALSE TRUE 4140.021467 3640.141473 3542.904802 3803.728578 3573.943126 3321.98429 3685.782258 3512.204667 2892.8275 3154.588062 1.31238101 1.153919752 1.123095863 1.205776635 1.132934968 1.05306437 1.168387816 1.113363963 0.917022268 1 11.62323591 -5.523837729 24.69575733 1.153739241 1.113236298 0 0.107306662 106.4174319 2740492.714 0.017128187 0.034514329 2.99E-06 5.523837729 -0.040502943 SSFVSDNSLNRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 SSFVSDNSLNRSPR 14 1 Q6UB98-2;Q6UB98 Q6UB98-2 ANKRD12 Ankyrin repeat domain-containing protein 12 1 0 SSFVSDNSLNRS(1)PR;SSFVSDNSLNRS(1)PR ; 186.08 1.02E-07 9289300 2592.2 2719.5 2233.46 2685.3 2630.4 2981.3 2999.1 3036.5 2578.6 2376 TRUE FALSE FALSE 2864.859489 2807.613584 2537.824297 2737.277865 2428.85932 2727.276468 2661.633375 2958.830727 2560.655313 2478.440988 1.155911923 1.132814377 1.023959945 1.10443536 0.979994816 1.100400002 1.073914363 1.193827386 1.03317179 1 11.27521719 -9.577818981 1.383297875 1.000382417 1.099122969 0.217258234 0.058881282 0.457734536 1.580188855 0.041456906 0.009850367 2.64E-10 9.577818981 0.098740552 SSFYSGGWQEGSS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 SSFYSGGWQEGSSSPR 16 0 D3DPQ1;Q96BR9-2;Q96BR9 D3DPQ1 ZBTB8A Zinc finger and BTB domain-containing protein 8A 1 0 SSFYSGGWQEGS(0.001)S(0.499)S(0.499)PR 195.23 3.66E-12 4739800 936.57 876.97 588.56 844.06 965.33 1064 670.68 845.24 643.23 725.47 TRUE FALSE FALSE 1035.08273 905.3844034 668.7658917 860.3980018 891.3666239 973.3412141 595.2133213 823.6199847 638.7537101 756.7485621 1.367802704 1.196413774 0.883735927 1.136966814 1.17789008 1.286214818 0.786540406 1.088366765 0.844076543 1 9.563670218 SSFYSGGWQEGSSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SSFYSGGWQEGSSSPR 16 0 D3DPQ1;Q96BR9-2;Q96BR9 D3DPQ1 ZBTB8A Zinc finger and BTB domain-containing protein 8A 1 0 SSFYSGGWQEGS(0.016)S(0.183)S(0.801)PR 222.42 4.64E-21 7493200 2147.4 2312.9 1714.6 2192.6 2068.7 2160.7 2240.9 2000.9 2125 2396.8 TRUE FALSE FALSE 2373.273385 2387.839478 1948.256759 2235.040944 1910.196653 1976.596204 1988.748034 1949.719875 2110.211952 2500.137778 0.949257039 0.955083155 0.779259758 0.89396711 0.764036554 0.790594911 0.795455375 0.779844972 0.844038265 1 11.28779189 -6.775809511 0.778694758 0.986367789 0.782291484 0.473074566 0.060261275 0.164127314 0.200642586 0.008297639 0.013530851 1.68E-07 6.775809511 -0.204076305 SSFYVNGLTLGGQK ddPTM_HeLa_SAHA_4h_R1 3 SSFYVNGLTLGGQK 14 0 P07737;K7EJ44;I3L3D5 P07737 PFN1 Profilin-1 0 0 ;; ;; 258.78 1.26E-69 110635300 6609.2 7068.1 9221.1 8351 8528.7 4939.4 8766.2 4104.01 3530.61 5294.5 FALSE FALSE TRUE 7304.38598 7297.111078 10477.70349 8512.645681 7875.232849 4518.535332 7779.804105 3999.035367 3506.040198 5522.771806 1.322594204 1.321276948 1.897182041 1.541371974 1.425956589 0.818164409 1.40867745 0.72409933 0.634833435 1 12.4311768 -5.269248716 24.70196435 1.271613252 1.026150099 0.140400864 0.353988097 897.0792153 2837584.507 0.04753027 0.108145049 5.38E-06 5.269248716 -0.245463153 SSGAPQDSDSSATCS(ph)ADEVDEAEGGDKNR ddPTM_HeLa_SAHA_4h_R1 1 SSGAPQDSDSSATCSADEVDEAEGGDKNR 29 1 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;C9JQE8 C9JE98 NCOR2 Nuclear receptor corepressor 2 1 0 SSGAPQDS(0.001)DS(0.009)S(0.028)AT(0.052)CS(0.91)ADEVDEAEGGDKNR 154.11 8.76E-15 3426500 494.4 597.5 555.02 382.49 573.79 603.76 457.2 562.29 359.84 467.03 TRUE FALSE FALSE 546.4032604 616.859392 630.6552352 389.893647 529.8263342 552.3162513 405.7546527 547.907436 357.3358441 487.1659489 1.121595755 1.266220255 1.294538825 0.800330253 1.087568487 1.133733285 0.832887959 1.124683359 0.733499221 1 8.928269487 -6.260962454 24.99921283 1.094027748 0.999544442 0.054669662 0.17841309 86.61132512 4539912.835 0.021976604 0.035034757 5.48E-07 6.260962454 -0.094483305 SSGDPEQIKEDS(ph)LSEESADAR ddPTM_HeLa_SAHA_4h_R1 3 SSGDPEQIKEDSLSEESADAR 21 1 Q9BVS4-2;Q9BVS4 Q9BVS4-2 RIOK2 Serine/threonine-protein kinase RIO2 1 0 SSGDPEQIKEDS(0.725)LS(0.245)EES(0.03)ADAR;SSGDPEQIKEDS(0.66)LS(0.247)EES(0.093)ADAR;SSGDPEQIKEDS(0.608)LS(0.248)EES(0.144)ADAR ;; 86.073 0.00051532 30112300 4179.96 4534.82 4373.55 4885.14 5397.29 6247.4 4771.31 5535.5 5654 4630.37 TRUE FALSE FALSE 4619.627371 4681.751143 4969.554618 4979.698949 4983.750806 5715.086373 4234.429641 5393.909925 5614.653354 4830.007911 0.956443024 0.969305067 1.02889161 1.030991882 1.031830775 1.183245758 0.876692072 1.116749708 1.162452206 1 12.23780984 -6.646327383 3.829282138 0.978095708 1.043942163 0 0.093841014 0.313288739 8.690524665 0.010858598 0.015548757 2.26E-07 6.646327383 0.065846456 SSGDPEQIKEDSLSEES(ph)ADAR ddPTM_HeLa_SAHA_4h_R1 1 SSGDPEQIKEDSLSEESADAR 21 1 Q9BVS4-2;Q9BVS4 Q9BVS4-2 RIOK2 Serine/threonine-protein kinase RIO2 1 0 SSGDPEQIKEDS(0.199)LS(0.311)EES(0.491)ADAR 91.378 0.00026562 25365000 3251 3671.3 3097.5 3319.5 3404.7 4741.2 4350.5 3945.3 4480.8 3341.7 TRUE FALSE FALSE 3592.955096 3790.252529 3519.611169 3383.753723 3143.832622 4337.223087 3860.97029 3844.384939 4449.617748 3485.777041 1.030747249 1.087347953 1.009706337 0.970731542 0.901902957 1.244262911 1.10763547 1.102877463 1.2765067 1 11.76726458 -5.258585273 24.99925544 1.010198129 1.147196295 0.16353674 0.101801512 143.5662575 1257494.789 0.008058774 0.019577305 5.51E-06 5.258585273 0.136998166 SSGEIVYCGQVFEK ddPTM_HeLa_SAHA_4h_R1 2 SSGEIVYCGQVFEK 14 0 M0R3D6;M0R1A7;M0R117;Q02543;M0R0P7 M0R3D6 RPL18A 60S ribosomal protein L18a 0 0 ; ; 109.84 0.0030987 0 1012.82 802.3 809.03 954.41 1002.19 1179.36 982.93 1083.55 996.82 913.02 FALSE FALSE TRUE 1119.353055 828.2950464 919.2803952 972.8839857 925.4024187 1078.871893 872.3281295 1055.83436 989.8830485 952.3847604 1.175316008 0.869706321 0.965240555 1.0215241 0.971668654 1.132810958 0.915940874 1.108621645 1.039373045 1 9.895400725 -7.277521072 24.9737388 1.082788109 0.998604778 0.130645202 0.085572969 1154.057206 1792166.404 0.016032414 0.018363812 5.28E-08 7.277521072 -0.084183331 SSGEIVYCGQVFEKS(ph)PLR ddPTM_HeLa_SAHA_4h_R1 5 SSGEIVYCGQVFEKSPLR 18 1 M0R3D6;M0R1A7;M0R117;Q02543;M0R0P7 M0R3D6 RPL18A 60S ribosomal protein L18a 1 0 SSGEIVYCGQVFEKS(1)PLR;SSGEIVYCGQVFEKS(1)PLR;SSGEIVYCGQVFEKS(1)PLR;SSGEIVYCGQVFEKS(1)PLR;SSGEIVYCGQVFEKS(1)PLR ;;;; 118.84 0.00034626 80423800 9110 11373.2 10593.1 11181.9 12948.8 14193.7 13676.3 11093.3 13305.6 12742.9 TRUE FALSE FALSE 10068.2316 11741.69914 12036.6725 11398.34184 11956.66574 12984.31691 12137.40673 10809.54945 13213.00525 13292.30878 0.757447917 0.883345349 0.90553663 0.857514073 0.899517604 0.976829317 0.913115015 0.813218353 0.994033878 1 13.69830409 -5.535362237 23.43914929 0.882383284 0.908245831 0 0.075380036 519.0171444 974508.3674 0.01396146 0.027941712 2.91E-06 5.535362237 0.025862547 SSGFGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SSGFGSPR 8 0 A1L390-3;A1L390;G3V311;A1L390-2;A0A0U1RR71 A1L390-3 PLEKHG3 Pleckstrin homology domain-containing family G member 3 1 0 SSGFGS(1)PR 136.49 0.00098391 3485300 2653 2806.8 2393.5 2786.3 2880.3 3173.9 2543.4 2705.2 2885.6 3022.6 TRUE FALSE FALSE 2932.054712 2897.742162 2719.673715 2840.232866 2659.612036 2903.465864 2257.209938 2636.004901 2865.518875 3152.919078 0.929949244 0.919066455 0.862589127 0.900826439 0.84353958 0.920881822 0.715911155 0.83605219 0.908846311 1 11.62247243 -1 0.108769802 1.069787235 0.201650508 0.444986484 0.053569817 40.64251949 0.310455525 0.256125628 5.314310448 0.1 1 -0.868136727 SSGGREDLES(ph)SGLQR ddPTM_HeLa_SAHA_4h_R1 1 SSGGREDLESSGLQR 15 1 Q9UK76;J3KT51;Q9UK76-3;Q9UK76-2;J3KSH8 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 1 0 SSGGREDLES(0.516)S(0.484)GLQR 108.25 0.0014507 76752000 1352.6 1368.7 1294.5 1315.3 1461.1 1674.9 1530.4 1381 953.08 1245.5 TRUE FALSE FALSE 1494.872674 1413.046778 1470.907719 1340.759533 1349.150834 1532.189097 1358.195364 1345.67602 946.4474387 1299.1996 1.150610479 1.087628704 1.132164541 1.031988875 1.038447698 1.179333104 1.045409315 1.035773117 0.728485014 1 10.34340738 -9.578388228 1.380104749 1.000303498 1.095757969 0.282159619 0.100633536 0.410249293 1.408194583 0.035905945 0.0085032 2.64E-10 9.578388228 0.095454471 SSGGREDLESS(ph)GLQR ddPTM_HeLa_SAHA_4h_R1 3 SSGGREDLESSGLQR 15 1 Q9UK76;J3KT51;Q9UK76-3;Q9UK76-2;J3KSH8 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 1 0 SSGGREDLES(0.347)S(0.653)GLQR;SSGGREDLES(0.003)S(0.997)GLQR;SSGGREDLES(0.048)S(0.952)GLQR ;; 210.02 1.08E-12 132727100 7033.03 6580.26 5895.39 4969.25 6246.61 8255.28 7417.4 5900.4 5133.58 5807.53 TRUE FALSE FALSE 7772.796364 6793.464741 6698.783047 5065.437019 5767.996091 7551.883701 6582.77463 5749.476312 5097.854999 6057.92104 1.283079841 1.121418503 1.105789099 0.836167554 0.952141181 1.246613096 1.086639226 0.949084063 0.841518892 1 12.56460706 -6.504350625 24.38610859 1.135402402 1.021964279 0 0.150353802 932.0843154 1226779.191 0.02256138 0.034073079 3.13E-07 6.504350625 -0.113438123 SSGGREDLESSGLQR ddPTM_HeLa_SAHA_4h_R1 4 SSGGREDLESSGLQR 15 1 Q9UK76;J3KT51;Q9UK76-3;Q9UK76-2;J3KSH8 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 0 0 ;;; ;;; 161.49 7.83E-06 28276400 3031.85 3042.37 3105.5 3112.45 4157.44 3637.44 3372.94 3553.37 2619.74 2886.1 FALSE FALSE TRUE 3350.753894 3140.944784 3528.701367 3172.69597 3838.897845 3327.509648 2993.407914 3462.479941 2601.509016 3010.533895 1.113009855 1.043318193 1.172118133 1.053864889 1.275155165 1.105288884 0.994311314 1.15012156 0.864135435 1 11.55580365 -9.261451121 0.529819725 0.977551491 1.116879451 0.373533357 0.085064303 1.584106513 0.615909164 0.113136872 0.018096476 5.48E-10 9.261451121 0.13932796 SSGLS(ph)TPVPPSAGHLAHVR ddPTM_HeLa_SAHA_4h_R1 1 SSGLSTPVPPSAGHLAHVR 19 0 Q63ZY3-3;Q63ZY3;Q63ZY3-2 Q63ZY3-3 KANK2 KN motif and ankyrin repeat domain-containing protein 2 1 0 S(0.005)S(0.005)GLS(0.495)T(0.495)PVPPSAGHLAHVR 85.362 0.0025318 0 296.53 426.89 170.71 511.29 617.53 436.73 640.47 695.48 609.53 501.54 TRUE FALSE FALSE 327.7203859 440.7215161 193.9734698 521.1867573 570.2149848 399.518147 568.40263 677.6906286 605.2882311 523.1638439 0.626420174 0.842415854 0.370770022 0.996220904 1.089935766 0.763657794 1.086471545 1.295369771 1.15697642 1 9.031119029 -3.663632142 0.75705912 0.803900569 2.198093722 0.264612266 0.224291873 5.036616142 1.094124095 0.035409166 7.367474262 0.000216954 3.663632142 1.394193153 SSGMSSLLGK(ac)IGAK ddPTM_HeLa_SAHA_4h_R1 2 SSGMSSLLGKIGAK 14 1 Q9UEE9 Q9UEE9 CFDP1 Craniofacial development protein 1 0 1 ; SSGMSSLLGK(1)IGAK;SSGMSSLLGK(1)IGAK 174.73 9.93E-11 1565830 194.67 268.45 242.45 757.746 1468.29 1319.16 2031.71 2292.02 231.44 126.74 FALSE TRUE FALSE 215.1462838 277.1479561 275.4898234 772.4132695 1355.789937 1206.760147 1803.096644 2233.393447 229.8293902 132.2043817 1.627376348 2.096359838 2.083817646 5.84256936 10.2552572 9.127989039 13.63870562 16.89349036 1.738440038 1 7.046626183 -5.101967423 0.566826125 1.029723066 19.79132797 0.957026542 1.127716958 0.230574032 0.086393381 0.226479467 2.38468277 7.91E-06 5.101967423 18.7616049 SSGNS(ph)PTPVSR ddPTM_HeLa_SAHA_4h_R1 2 SSGNSPTPVSR 11 0 H0YBT1;O95429-2;O95429 H0YBT1 BAG4 BAG family molecular chaperone regulator 4 1 0 S(0.012)S(0.039)GNS(0.943)PT(0.005)PVSR;S(0.11)S(0.013)GNS(0.876)PTPVSR ; 134.4 0.0011448 111945300 2741.2 2544.1 2664.3 2962.2 3401.6 2983.1 3434.4 3165.1 3168.2 2863.3 TRUE FALSE FALSE 3029.531993 2626.530509 3027.376929 3019.537664 3140.970143 2728.923098 3047.952273 3084.141325 3146.152238 2986.750876 1.014323631 0.879393903 1.01360209 1.01097741 1.05163446 0.913676169 1.020490962 1.03260749 1.053369487 1 11.54436119 SSGNSSS(ph)SGSGSGSTSAGSSSPGAR ddPTM_HeLa_SAHA_4h_R1 1 SSGNSSSSGSGSGSTSAGSSSPGAR 25 0 E5RHJ2;E5RG56;Q12797-7;Q12797-6;Q12797-11;Q12797-2;Q12797 E5RHJ2 ASPH Aspartyl/asparaginyl beta-hydroxylase 1 0 SSGNS(0.084)S(0.084)S(0.749)S(0.084)GSGSGSTSAGSSSPGAR 273.26 4.35E-78 2995800 384.06 950 489.76 505.41 550.32 900.91 796.71 436.34 562.2 585.58 TRUE FALSE FALSE 424.4571929 980.7806233 556.5019422 515.1929414 508.1546005 824.1473996 707.062094 425.1790546 558.2876044 610.8272196 0.694889126 1.605659656 0.911062776 0.843434812 0.831912175 1.349231621 1.157548438 0.696070904 0.913986127 1 9.254620542 SSGNSSSSGSGSGSTS(ph)AGSSSPGAR ddPTM_HeLa_SAHA_4h_R1 2 SSGNSSSSGSGSGSTSAGSSSPGAR 25 0 E5RHJ2;E5RG56;Q12797-7;Q12797-6;Q12797-11;Q12797-2;Q12797 E5RHJ2 ASPH Aspartyl/asparaginyl beta-hydroxylase 1 0 S(0.001)S(0.001)GNS(0.013)S(0.044)S(0.021)S(0.058)GS(0.054)GS(0.054)GS(0.186)T(0.186)S(0.265)AGS(0.075)S(0.022)S(0.022)PGAR;SSGNSSSS(0.002)GS(0.01)GS(0.01)GS(0.106)T(0.163)S(0.204)AGS(0.204)S(0.171)S(0.131)PGAR ; 52.372 0.016333 3163680 0 141.32 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 145.8988607 0 0 0 0 0 0 0 0 0 SSGNSSSSGSGSGSTSAGS(ph)SSPGAR ddPTM_HeLa_SAHA_4h_R1 2 SSGNSSSSGSGSGSTSAGSSSPGAR 25 0 E5RHJ2;E5RG56;Q12797-7;Q12797-6;Q12797-11;Q12797-2;Q12797 E5RHJ2 ASPH Aspartyl/asparaginyl beta-hydroxylase 1 0 SSGNSSSSGSGSGSTS(0.002)AGS(0.64)S(0.179)S(0.179)PGAR;SSGNSSSSGSGSGST(0.005)S(0.014)AGS(0.754)S(0.166)S(0.06)PGAR ; 133.48 2.74E-09 2072400 0 130.06 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 134.2740293 0 0 0 0 0 0 0 0 0 SSGNSSSSGSGSGSTSAGS(ph)SSPGARR ddPTM_HeLa_SAHA_4h_R1 1 SSGNSSSSGSGSGSTSAGSSSPGARR 26 1 E5RHJ2;E5RG56;Q12797-7;Q12797-6;Q12797-11;Q12797-2;Q12797 E5RHJ2 ASPH Aspartyl/asparaginyl beta-hydroxylase 1 0 SSGNSSSSGSGSGST(0.003)S(0.007)AGS(0.33)S(0.33)S(0.33)PGARR 53.361 0.0072982 5018200 0 0 0 0 67.905 0 0 0 0 114.34 TRUE FALSE FALSE 0 0 0 0 62.70213357 0 0 0 0 119.269757 0 0 0 0 0.525716956 0 0 0 0 1 6.898084457 -9.202192241 0.784202398 1.046734877 0.064407226 0 0.343963948 0.229730064 0.236251362 0.141241853 0.033241782 6.28E-10 9.202192241 -0.98232765 SSGNSSSSGSGSGSTSAGSSS(ph)PGAR ddPTM_HeLa_SAHA_4h_R1 5 SSGNSSSSGSGSGSTSAGSSSPGAR 25 0 E5RHJ2;E5RG56;Q12797-7;Q12797-6;Q12797-11;Q12797-2;Q12797 E5RHJ2 ASPH Aspartyl/asparaginyl beta-hydroxylase 1 0 SSGNSSSSGSGSGSTSAGSS(0.098)S(0.901)PGAR;SSGNSSSSGSGSGSTSAGS(0.032)S(0.114)S(0.854)PGAR;SSGNSSSSGSGSGSTS(0.001)AGS(0.141)S(0.141)S(0.717)PGAR;SSGNSSSSGSGSGSTSAGS(0.033)S(0.123)S(0.843)PGAR;SSGNSSSSGSGSGSTSAGS(0.084)S(0.023)S(0.893)PGAR ;;;; 336.89 1.25E-157 108338950 1966.84 5928.44 1904.051 2176.23 4107.958 4210.8 3626 2778.6 3879.09 3842.16 TRUE FALSE FALSE 2173.721255 6120.525346 2163.525154 2218.354079 3793.207146 3852.016151 3217.992937 2707.527435 3852.095097 4007.814321 0.542370749 1.527147931 0.539826694 0.553507199 0.946452815 0.9611264 0.802929647 0.675562094 0.961146098 1 11.96859996 SSGNSSSSGSGSGSTSAGSSS(ph)PGARR ddPTM_HeLa_SAHA_4h_R1 1 SSGNSSSSGSGSGSTSAGSSSPGARR 26 1 E5RHJ2;E5RG56;Q12797-7;Q12797-6;Q12797-11;Q12797-2;Q12797 E5RHJ2 ASPH Aspartyl/asparaginyl beta-hydroxylase 1 0 SSGNSSSSGSGSGS(0.003)T(0.004)S(0.01)AGS(0.142)S(0.142)S(0.7)PGARR 82.946 3.81E-05 48548000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 SSGNSSSSGSGSGSTSAGSSSPGAR ddPTM_HeLa_SAHA_4h_R1 2 SSGNSSSSGSGSGSTSAGSSSPGAR 25 0 E5RHJ2;E5RG56;Q12797-7;Q12797-6;Q12797-11;Q12797-2;Q12797 E5RHJ2 ASPH Aspartyl/asparaginyl beta-hydroxylase 0 0 ; ; 96.143 0.00010259 463650 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 SSGPPGMSSQK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 SSGPPGMSSQKR 12 1 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 0 1 ; SSGPPGMSSQK(1)R;SSGPPGMSSQK(1)R 130.01 0.00030937 1037040 0 0 0 0 0 0 139.74 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 124.0160874 0 0 0 0 SSGPT(ph)SLFAVTVAPPGAR ddPTM_HeLa_SAHA_4h_R1 1 SSGPTSLFAVTVAPPGAR 18 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;A0A1W2PP22 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 1 0 S(0.002)S(0.002)GPT(0.603)S(0.392)LFAVTVAPPGAR 154.81 6.11E-05 11199000 577.99 671.97 567.56 472.29 345.96 455.88 499.63 547.28 298.77 525.4 TRUE FALSE FALSE 638.7856401 693.7422689 644.9041211 481.4318559 319.4526195 417.0364593 443.4103174 533.2813701 296.6908352 548.0525652 1.165555424 1.265831624 1.176719464 0.878441023 0.582886825 0.760942446 0.809065308 0.97304785 0.541354706 1 9.098170462 -6.102783368 4.787810085 1.103184057 0.776482829 0.200471756 0.209919681 0.118013384 4.331474257 0.019285215 0.032645926 7.89E-07 6.102783368 -0.326701228 SSGPTS(ph)LFAVTVAPPGAR ddPTM_HeLa_SAHA_4h_R1 1 SSGPTSLFAVTVAPPGAR 18 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;A0A1W2PP22 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 1 0 S(0.002)SGPT(0.039)S(0.958)LFAVT(0.001)VAPPGAR 156.29 2.00E-05 8161400 1152 1301.3 1233.4 1215.1 1207.1 1358.6 1166.1 1168.9 1262.3 1353.4 TRUE FALSE FALSE 1273.172646 1343.462974 1401.481329 1238.620018 1114.612259 1242.839637 1034.887359 1139.001231 1253.515552 1411.751697 0.901838934 0.951628375 0.992725089 0.87736393 0.789524292 0.880352855 0.733051967 0.806799972 0.887915031 1 10.46327065 -5.992583154 3.544065307 0.954794286 0.803529306 0.67429279 0.047019212 0.103455603 2.791183115 0.00744241 0.013551705 1.02E-06 5.992583154 -0.15126498 SSGPTSLFAVTVAPPGAR ddPTM_HeLa_SAHA_4h_R1 2 SSGPTSLFAVTVAPPGAR 18 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;A0A1W2PP22 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 0 ; ; 267.23 1.81E-85 21359000 924.74 754.3 693.01 649.92 1060.24 895.03 1020.69 811.37 1050.56 893.55 FALSE FALSE TRUE 1022.008396 778.7398149 787.4497938 662.5001414 979.0046403 818.7684087 905.8392749 790.6163302 1043.249067 932.0753134 1.096486927 0.835490227 0.844834942 0.710779625 1.050349286 0.878435891 0.971852019 0.848232239 1.119275505 1 9.864302722 -7.26006303 24.99976071 1.045563272 0.879852862 0.490885109 0.089675826 85.61903663 1555174.581 0.014923638 0.017743924 5.49E-08 7.26006303 -0.16571041 SSGPYGGGGQYFAK(ac)PR ddPTM_HeLa_SAHA_4h_R1 2 SSGPYGGGGQYFAKPR 16 1 F8W6I7;P09651-2;P09651;P09651-3;H0YH80 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 0 1 ; SSGPYGGGGQYFAK(1)PR;SSGPYGGGGQYFAK(1)PR 269.44 6.42E-85 79253000 969.03 1288.63 1032.41 1020.13 1611.34 1308.67 1429.09 935.38 738.72 768.8 FALSE TRUE FALSE 1070.957021 1330.382458 1173.101458 1039.876091 1487.879477 1197.163954 1268.285032 911.454334 733.5791874 801.9467304 1.335446584 1.658941183 1.462817184 1.296689732 1.855334551 1.492822289 1.581507828 1.136552217 0.914748024 1 9.647362598 -8.307832504 0.704100905 1.023772596 1.50968853 0.53303571 0.192380515 0.366280874 0.390865026 0.08152169 0.04441068 4.92E-09 8.307832504 0.485915934 SSGPYGGGGQYFAKPR ddPTM_HeLa_SAHA_4h_R1 2 SSGPYGGGGQYFAKPR 16 1 F8W6I7;P09651-2;P09651;P09651-3;H0YH80 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 0 0 ; ; 203.85 3.63E-25 11609200 4443.9 3636.4 4150.9 4454.2 4542.1 4761 4874.4 3751.3 3922.1 4465.8 FALSE FALSE TRUE 4911.329791 3754.221746 4716.563035 4540.417482 4194.085279 4355.336015 4325.919683 3655.347178 3894.805787 4658.342493 1.054308437 0.805913638 1.012498124 0.974685199 0.90033854 0.934954015 0.928639251 0.78468837 0.836092621 1 12.185601 -1.514222504 0.255194831 1.026728792 4.18E-14 0 0.089322556 25.88536194 0.410885824 0.037021823 11.03299067 0.030603951 1.514222504 -1.026728792 SSGRNS(ph)PSAASTSSNDSK ddPTM_HeLa_SAHA_4h_R1 5 SSGRNSPSAASTSSNDSK 18 1 A0A590UJ84;B1AKN3;Q9P2R6-2;Q9P2R6;D6RA28 A0A590UJ84 RERE Arginine-glutamic acid dipeptide repeats protein 1 0 S(0.049)S(0.013)GRNS(0.915)PS(0.023)AASTSSNDSK;S(0.197)S(0.197)GRNS(0.392)PS(0.215)AASTSSNDSK;SSGRNS(0.978)PS(0.022)AASTSSNDSK;S(0.087)S(0.087)GRNS(0.823)PS(0.002)AASTSSNDSK;S(0.305)S(0.101)GRNS(0.561)PS(0.033)AASTSSNDSK ;;;; 150.9 0.00014285 24513600 1453 1676.81 1206.84 2215.59 2183.22 3140.8 2332.18 2049.71 2666.48 2940.77 TRUE FALSE FALSE 1605.833207 1731.139744 1371.30187 2258.475948 2015.942155 2873.18617 2069.756968 1997.281386 2647.923749 3067.560986 0.5234886 0.564337515 0.447033287 0.73624484 0.657180791 0.936635387 0.674723984 0.651097532 0.863201664 1 11.58287631 -9.408785754 1.143820853 0.999353523 0.642292652 0.417314142 0.130455072 0.330084933 0.774568006 0.092791982 0.023709904 3.90E-10 9.408785754 -0.357060871 SSGS(ph)EGSSPNWLQALK ddPTM_HeLa_SAHA_4h_R1 1 SSGSEGSSPNWLQALK 16 0 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 S(0.305)S(0.305)GS(0.355)EGS(0.02)S(0.015)PNWLQALK 80.967 0.0088615 0 322.03 160.75 327.71 284.67 329.01 208.61 272.96 308.49 495.09 337.14 TRUE FALSE FALSE 355.9025929 165.9584055 372.3686122 290.1801995 303.8013249 190.8352544 242.2458224 300.5992725 491.6446284 351.6757553 1.012019133 0.47190744 1.058840726 0.82513564 0.863867697 0.542645467 0.688832877 0.85476257 1.398005467 1 8.458102068 -7.404227299 19.55214195 1.005735869 0.763592405 0.382469145 0.200692944 3.06392377 493.629082 0.025664882 0.02934831 3.94E-08 7.404227299 -0.242143464 SSGS(ph)ETEQVVDFSDR ddPTM_HeLa_SAHA_4h_R1 2 SSGSETEQVVDFSDR 15 0 O95251-4;O95251;O95251-2 O95251-4 KAT7 Histone acetyltransferase KAT7 1 0 S(0.162)S(0.162)GS(0.461)ET(0.215)EQVVDFSDR;S(0.009)S(0.009)GS(0.976)ET(0.005)EQVVDFSDR ; 325.68 1.99E-116 15428700 957.43 933.93 793.76 1241.43 1149.51 1379.78 1271.62 1279.33 1314.89 1212.9 TRUE FALSE FALSE 1058.13688 964.1899448 901.9294791 1265.459673 1061.434792 1262.214982 1128.533971 1246.606591 1305.739573 1265.194055 0.836343544 0.762088583 0.712878373 1.000209942 0.83895019 0.997645363 0.891984883 0.985308606 1.032046877 1 10.30514297 -5.256135467 24.9619275 0.893687346 0.95168014 0.094471569 0.102418062 1138.148754 5356472.862 0.015402956 0.038031612 5.54E-06 5.256135467 0.057992794 SSGS(ph)PEPSPAIAK ddPTM_HeLa_SAHA_4h_R1 2 SSGSPEPSPAIAK 13 0 Q66K64;K7ELE9 Q66K64 DCAF15 DDB1- and CUL4-associated factor 15 1 0 SSGS(0.998)PEPS(0.002)PAIAK;S(0.147)S(0.147)GS(0.706)PEPSPAIAK ; 215.34 4.59E-16 65682000 5899.3 5487.2 5110.5 5788.8 6059.8 7187.7 6439.8 6712.5 5714.1 5039.4 TRUE FALSE FALSE 6519.815441 5664.98888 5806.932326 5900.850595 5595.499433 6575.267523 5715.176755 6540.80397 5674.335113 5256.673196 1.24029309 1.077675684 1.104678208 1.122544692 1.064456401 1.250841983 1.087223143 1.24428583 1.079453658 1 12.35993433 -9.565766691 1.338485926 0.999905014 1.15541729 0.242550047 0.072169336 0.350294748 1.123691386 0.049099246 0.011507454 2.72E-10 9.565766691 0.155512276 SSGS(ph)PYGGGYGSGGGS(ph)GGYGSR ddPTM_HeLa_SAHA_4h_R1 1 SSGSPYGGGYGSGGGSGGYGSR 22 0 P51991;P51991-2;H7C1J8 P51991 HNRNPA3 Heterogeneous nuclear ribonucleoprotein A3 2 0 S(0.062)S(0.078)GS(0.86)PYGGGYGS(0.294)GGGS(0.704)GGYGS(0.001)R 116.45 0.00034267 4284300 394.87 488.52 450.59 318.22 468.96 537.74 550.57 743.21 458.27 333.3 TRUE FALSE FALSE 436.4042383 504.3483685 511.9940586 324.3796083 433.0283861 491.9215268 488.6184146 724.1997644 455.0808618 347.6701941 1.255224767 1.45065173 1.472642945 0.933009541 1.24551484 1.41490854 1.405407834 2.08300791 1.308944136 1 8.441575579 -1.000000037 0.731054597 1.162532849 141.0622059 0.642933514 0.177989945 146.1228035 0.639670579 0.031587158 33616.7396 0.099999992 1.000000037 139.8996731 SSGS(ph)PYGGGYGSGGGSGGYGSR ddPTM_HeLa_SAHA_4h_R1 28 SSGSPYGGGYGSGGGSGGYGSR 22 0 P51991;P51991-2;H7C1J8 P51991 HNRNPA3 Heterogeneous nuclear ribonucleoprotein A3 1 0 SSGS(0.999)PYGGGYGS(0.001)GGGSGGYGSR;SSGS(1)PYGGGYGSGGGSGGYGSR;S(0.072)S(0.072)GS(0.833)PY(0.023)GGGYGSGGGSGGYGSR;S(0.063)S(0.214)GS(0.723)PYGGGYGSGGGSGGYGSR;S(0.001)S(0.037)GS(0.962)PYGGGYGSGGGSGGYGSR;S(0.006)S(0.018)GS(0.976)PYGGGYGSGGGSGGYGSR;S(0.002)S(0.008)GS(0.99)PYGGGYGSGGGSGGYGSR;SSGS(1)PYGGGYGSGGGSGGYGSR;SSGS(1)PYGGGYGSGGGSGGYGSR;SSGS(1)PYGGGYGSGGGSGGYGSR;SSGS(1)PYGGGYGSGGGSGGYGSR;S(0.174)S(0.174)GS(0.647)PYGGGYGS(0.005)GGGSGGYGSR;S(0.005)S(0.023)GS(0.965)PY(0.001)GGGY(0.001)GS(0.004)GGGSGGYGSR;S(0.003)S(0.005)GS(0.992)PYGGGYGSGGGSGGYGSR;S(0.001)S(0.006)GS(0.993)PYGGGYGSGGGSGGYGSR;S(0.036)S(0.055)GS(0.909)PYGGGYGSGGGSGGYGSR;S(0.025)S(0.004)GS(0.97)PY(0.001)GGGYGSGGGSGGYGSR;SSGS(1)PYGGGYGSGGGSGGYGSR;S(0.207)S(0.207)GS(0.585)PY(0.001)GGGYGSGGGSGGYGSR;S(0.002)S(0.002)GS(0.989)PY(0.007)GGGYGSGGGSGGYGSR;S(0.065)S(0.01)GS(0.925)PYGGGYGSGGGSGGYGSR;SSGS(1)PYGGGYGSGGGSGGYGSR;S(0.001)SGS(0.999)PYGGGYGSGGGSGGYGSR;S(0.001)SGS(0.998)PYGGGYGSGGGSGGYGSR;SSGS(1)PYGGGYGSGGGSGGYGSR;S(0.274)S(0.033)GS(0.692)PYGGGYGSGGGSGGYGSR;S(0.017)S(0.017)GS(0.966)PYGGGYGSGGGSGGYGSR;S(0.006)S(0.02)GS(0.974)PYGGGYGSGGGSGGYGSR ;;;;;;;;;;;;;;;;;;;;;;;;;;; 332.57 1.19E-149 1345788800 22846.297 23100.45 20851.5 22213.99 24337 27686.66 25654.03 24880.38 24737.33 22885.22 TRUE FALSE FALSE 25249.37534 23848.91974 23693.03383 22643.9739 22472.30432 25327.60081 22767.37103 24243.97591 24565.18091 23871.91383 1.057702182 0.999036772 0.992506675 0.948561312 0.941370033 1.060979065 0.953730446 1.015585766 1.029041118 1 14.54302661 -7.036158212 5.768240196 1.027384261 0.984568159 0.229018687 0.035575259 0.225411524 21.04166762 0.006258265 0.007818513 9.20E-08 7.036158212 -0.042816102 SSGS(ph)SPAMETR ddPTM_HeLa_SAHA_4h_R1 1 SSGSSPAMETR 11 0 Q6P0Q8-2;Q6P0Q8;A0A669KBJ4;E7ERL6 Q6P0Q8-2 MAST2 Microtubule-associated serine/threonine-protein kinase 2 1 0 SS(0.008)GS(0.496)S(0.496)PAMETR 150.09 0.00052105 4056900 1406.9 1680 1195.3 1424 1797.3 1875.5 1331.9 1762.4 1551.1 1569.6 TRUE FALSE FALSE 1554.884197 1734.433102 1358.189259 1451.563579 1659.591262 1715.696849 1182.031107 1717.32036 1540.305769 1637.273137 0.949679172 1.059342551 0.829543482 0.886573868 1.013631278 1.047898979 0.721951078 1.048890573 0.940775081 1 10.6770793 -9.068367747 0.227900609 1.034720571 0.920444338 0 0.104276071 14.72667767 1.26531987 0.510037081 0.125550126 8.54E-10 9.068367747 -0.114276233 SSGSEGSS(ph)PNWLQALK ddPTM_HeLa_SAHA_4h_R1 2 SSGSEGSSPNWLQALK 16 0 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 S(0.037)S(0.113)GS(0.014)EGS(0.077)S(0.758)PNWLQALK;SSGSEGS(0.004)S(0.996)PNWLQALK ; 181.51 1.58E-09 9619400 3051.32 3219 3176.28 3686.7 4540.5 4151.93 4096.57 3725.25 4235.83 3390.43 TRUE FALSE FALSE 3372.271838 3323.297712 3609.126897 3758.06141 4192.607871 3798.162206 3635.613162 3629.963499 4206.352514 3536.60803 0.953532823 0.939685055 1.020505204 1.062617451 1.185488422 1.073956224 1.027994375 1.026396895 1.189374813 1 11.78815062 -6.415158429 3.145925283 0.974704328 1.078782086 0 0.080976172 0.160718699 3.031251013 0.007548807 0.011810489 3.84E-07 6.415158429 0.104077758 SSGSETEQVVDFS(ph)DRETK ddPTM_HeLa_SAHA_4h_R1 1 SSGSETEQVVDFSDRETK 18 1 O95251-4;O95251 O95251-4 KAT7 Histone acetyltransferase KAT7 1 0 SSGSETEQVVDFS(0.991)DRET(0.009)K 80.102 0.0039802 8844300 1286.4 1332.2 956.87 906.68 1191.2 1615.6 1194.7 1590.6 1203.7 1527 TRUE FALSE FALSE 1421.709454 1375.364154 1087.26726 924.2301025 1099.930513 1477.941791 1060.269212 1549.914755 1195.323354 1592.836443 0.89256462 0.863468538 0.682598182 0.580241686 0.69054831 0.927867891 0.665648514 0.973053299 0.75043697 1 10.63738242 -7.348809677 1.414625113 0.961744867 0.75034407 0.078101556 0.133522948 0.292951034 1.129382483 0.02312442 0.026476292 4.48E-08 7.348809677 -0.211400797 SSGSGSSVADERVDY(ph)VVVDQQK ddPTM_HeLa_SAHA_4h_R1 1 SSGSGSSVADERVDYVVVDQQK 22 1 Q13480-2;B7Z3B9;Q13480 Q13480-2 GAB1 GRB2-associated-binding protein 1 1 0 SSGSGSSVADERVDY(1)VVVDQQK 88.755 0.00057332 6228700 511.54 507.75 402.12 555.87 789.2 427.43 412.26 598.61 551.95 583.82 TRUE FALSE FALSE 565.3461242 524.2014331 456.9188194 566.6296677 728.7316665 391.0105593 365.8714198 583.298423 548.108935 608.9913373 0.928331964 0.860769934 0.75028788 0.930439619 1.196620743 0.642062597 0.600782634 0.957810706 0.900027474 1 9.250277896 -1 0.101995264 1.086208869 0.158591557 0.054935193 0.161986216 164.7170171 1.193946752 1.232683863 21.49892559 0.1 1 -0.927617313 SSGSPYGGGYGSGGGSGGYGSR ddPTM_HeLa_SAHA_4h_R1 4 SSGSPYGGGYGSGGGSGGYGSR 22 0 P51991;P51991-2;H7C1J8 P51991 HNRNPA3 Heterogeneous nuclear ribonucleoprotein A3 0 0 ;;; ;;; 383.26 1.95E-241 15547100 1777.36 1891.6 1635.17 1930.39 1812.874 2113.63 1948.17 2103.716 1698.69 1938.24 FALSE FALSE TRUE 1964.31088 1952.889081 1858.002452 1967.75549 1673.971986 1933.536833 1728.956784 2049.905991 1686.868678 2021.807012 0.971562008 0.965912706 0.91898111 0.973265736 0.827958344 0.956340947 0.855154213 1.013897953 0.834337139 1 10.98142958 -7.024438946 0.884703716 0.991129155 0.9161066 0 0.071203351 0.472581922 0.736417876 0.010073749 0.013722287 9.45E-08 7.024438946 -0.075022555 SSGSS(ph)PAMETR ddPTM_HeLa_SAHA_4h_R1 1 SSGSSPAMETR 11 0 Q6P0Q8-2;Q6P0Q8;A0A669KBJ4;E7ERL6 Q6P0Q8-2 MAST2 Microtubule-associated serine/threonine-protein kinase 2 1 0 S(0.002)S(0.006)GS(0.142)S(0.85)PAMETR 122.55 0.00023824 0 788.91 576.54 624.67 675.74 693.64 944.66 864.4 705.62 826.97 732.91 TRUE FALSE FALSE 871.8911734 595.2202743 709.7967745 688.8199248 640.4934531 864.1696535 767.135437 687.5712621 821.2150484 764.5093369 1.140458502 0.778565082 0.928434409 0.900996092 0.83778369 1.130358534 1.003435014 0.899362806 1.074172687 1 9.578390311 -7.285155987 24.98872303 1.066327624 0.932223617 0.332922958 0.094278319 762.7178912 803626.3484 0.017551819 0.020077006 5.19E-08 7.285155987 -0.134104007 SSGSSSSGLGTVSNS(ph)PASQR ddPTM_HeLa_SAHA_4h_R1 2 SSGSSSSGLGTVSNSPASQR 20 0 H0Y3N9;Q9UPP1-4;Q9UPP1-3;Q9UPP1-2;Q9UPP1;H0Y589;Q9UPP1-5 H0Y3N9 PHF8 Histone lysine demethylase PHF8 1 0 SSGSSSSGLGTVS(0.01)NS(0.954)PAS(0.035)QR;SSGSSSSGLGTVSNS(0.995)PAS(0.005)QR ; 314.72 1.34E-107 13789100 1361.61 1251.84 768.42 1498.63 1157.82 1235.37 1442.99 2008 1981.71 1490.15 TRUE FALSE FALSE 1504.830387 1292.400437 873.1362758 1527.638151 1069.108082 1130.109526 1280.620967 1956.638268 1967.919119 1554.397659 0.968111589 0.831447751 0.561720015 0.982784644 0.687795736 0.727040162 0.823869593 1.258775871 1.266033249 1 10.60213992 -7.277884916 5.034727274 0.985608394 0.822813503 0.192056474 0.197525694 0.256823438 19.45003088 0.028941086 0.033832952 5.27E-08 7.277884916 -0.162794892 SSGTAS(ph)SVAFT(ph)PLQGLEIVNPQAAEK ddPTM_HeLa_SAHA_4h_R1 1 SSGTASSVAFTPLQGLEIVNPQAAEK 26 0 E7EVX8;Q8WWY3 E7EVX8 PRPF31 U4/U6 small nuclear ribonucleoprotein Prp31 2 0 S(0.065)S(0.081)GT(0.113)AS(0.601)S(0.143)VAFT(0.997)PLQGLEIVNPQAAEK 90.323 1.63E-05 12026000 1849.1 1846.8 1793.3 1495.3 1398.5 1886.5 1541.8 1834.2 1226.4 1690.5 TRUE FALSE FALSE 2043.596822 1906.637532 2037.681585 1524.243694 1291.347232 1725.759587 1368.312606 1787.28382 1217.865383 1763.385728 1.158905161 1.081236794 1.155550684 0.864384728 0.732311264 0.978662558 0.775957628 1.01355239 0.690640376 1 10.78413237 -6.24914949 24.07088737 1.082997547 0.865640928 0.114963041 0.152425371 261.9160756 512986.2153 0.014056298 0.023187993 5.63E-07 6.24914949 -0.217356619 SSGTPGCSSGTERPQS(ph)PGSSK ddPTM_HeLa_SAHA_4h_R1 2 SSGTPGCSSGTERPQSPGSSK 21 1 Q8IYD8-2;Q8IYD8-3;Q8IYD8 Q8IYD8-2 FANCM Fanconi anemia group M protein 1 0 SSGTPGCS(0.001)S(0.001)GT(0.005)ERPQS(0.986)PGS(0.005)S(0.002)K;S(0.001)S(0.001)GT(0.01)PGCS(0.001)S(0.001)GT(0.01)ERPQS(0.97)PGS(0.004)S(0.002)K ; 79.565 0.00089418 13843500 1670.04 1902.05 1696.44 1983.68 2007.82 2746.54 2330.1 2374.35 1623.13 1778.09 TRUE FALSE FALSE 1845.70247 1963.677668 1927.622009 2022.076995 1853.981265 2512.51934 2067.911016 2313.617565 1611.834506 1854.752162 0.995120808 1.058727796 1.039288185 1.09021412 0.999584367 1.354638853 1.114925788 1.247399848 0.869029588 1 10.85701071 -5.282327491 24.96215687 1.012766302 1.226581926 0.653249199 0.077085309 280.698251 335445.5528 0.008433304 0.018876013 5.22E-06 5.282327491 0.213815624 SSGVVPQS(ph)APPVPTASSR ddPTM_HeLa_SAHA_4h_R1 2 SSGVVPQSAPPVPTASSR 18 0 P41162 P41162 ETV3 ETS translocation variant 3 1 0 SSGVVPQS(1)APPVPTASSR;S(0.001)S(0.001)GVVPQS(0.999)APPVPTASSR ; 233.57 5.14E-29 27813000 2915.5 3257.5 3672.9 4044.2 5383.7 4635.5 4382.3 5858.5 1660.59 2744.2 TRUE FALSE FALSE 3222.165667 3363.045137 4173.423684 4122.481339 4971.202069 4240.529321 3889.19207 5708.648053 1649.033819 2862.515892 1.125641145 1.174856408 1.457956512 1.440160158 1.736654837 1.481399399 1.358662176 1.994276458 0.576078485 1 11.48306799 -6.683215478 0.785929727 1.034037794 1.636747926 0.662262636 0.217587114 0.228348615 0.283617498 0.033020662 0.057274937 2.07E-07 6.683215478 0.602710131 SSHLKAHLRRHTGEK ddPTM_HeLa_SAHA_4h_R1 1 SSHLKAHLRRHTGEK 15 3 Q9UIH9 Q9UIH9 KLF15 Krueppel-like factor 15 0 0 41.644 0.023606 1059200 1396.7 651.16 1635.3 1148.4 905.3 111.18 1225.4 710.52 1055 1330.3 FALSE FALSE TRUE 1543.611314 672.2580112 1858.150168 1170.628943 835.9361096 101.7068385 1087.514767 692.3459272 1047.658169 1387.655743 1.112387796 0.484455899 1.339057022 0.843601843 0.602408857 0.073293999 0.783706458 0.498932052 0.754984206 1 10.43843399 -5.801302571 3.194746822 1.023801089 0.469406579 0.363444269 0.272203328 0.147794075 3.095409949 0.036245636 0.071930951 1.58E-06 5.801302571 -0.55439451 SSHYDELLAAEAR ddPTM_HeLa_SAHA_4h_R1 1 SSHYDELLAAEAR 13 0 Q7KZF4;H7C597 Q7KZF4 SND1 Staphylococcal nuclease domain-containing protein 1 0 0 128.57 0.00087378 4723200 809.58 1078.7 616.06 882.22 1243.4 674.69 1263.4 1015.1 1097.6 966.7 FALSE FALSE TRUE 894.7353389 1113.650588 700.0134485 899.2966438 1148.130961 617.2026163 1121.238907 989.1352118 1089.961712 1008.379168 0.887300499 1.104396663 0.694196658 0.891823902 1.138590519 0.612073946 1.111921926 0.980915952 1.080904631 1 9.977822504 -9.52504817 1.184302679 1.001516273 0.922559725 0.055626548 0.166388814 1.757650752 4.271612474 0.117232059 0.025894277 2.99E-10 9.52504817 -0.078956548 SSIAPEEQSK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 SSIAPEEQSKK 11 1 A0A1B0GVD3;Q6ZN17-2;Q6ZN17 A0A1B0GVD3 LIN28B Protein lin-28 homolog B 0 1 ; SSIAPEEQSK(1)K;SSIAPEEQSK(1)K 116.3 0.0021967 7168700 1980.48 1961.24 2120.76 2392.52 3143.3 2591.2 3502.5 2827.8 1271.41 1368.47 FALSE TRUE FALSE 2188.795973 2024.785463 2409.766128 2438.830684 2902.461033 2370.415182 3108.389482 2755.468971 1262.562154 1427.471439 1.53333784 1.418442014 1.688136143 1.708497009 2.033288341 1.660569254 2.177549335 1.930314608 0.884474547 1 10.47924616 -7.969490177 0.101055804 9.79E-14 2.854846846 0.867506354 0.143899943 3.038746492 0.195866594 2.993666391 2.301192474 1.07E-08 7.969490177 2.854846846 SSINSVDGES(ph)PNGSSDR ddPTM_HeLa_SAHA_4h_R1 1 SSINSVDGESPNGSSDR 17 0 E9PGE5;Q9NUY8-2;Q9NUY8 E9PGE5 TBC1D23 TBC1 domain family member 23 1 0 SSINSVDGES(1)PNGSSDR 317.31 6.08E-103 27886000 881.15 809.6 747.77 775.97 908.87 1143.9 811.6 922.75 1003.2 677.56 TRUE FALSE FALSE 973.8333999 835.8315712 849.6722014 790.9900214 839.232577 1046.433285 720.276632 899.1473911 996.2186495 706.7729275 1.377858944 1.182602698 1.202185551 1.119157215 1.187414719 1.480579184 1.019106143 1.272187086 1.409531422 1 9.465102969 -9.566231363 1.349102116 1.000282977 1.243826422 0 0.17541086 0.392275654 1.282035374 0.086350271 0.020387135 2.71E-10 9.566231363 0.243543446 SSKASLGS(ph)LEGEAEAEASSPK ddPTM_HeLa_SAHA_4h_R1 1 SSKASLGSLEGEAEAEASSPK 21 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 S(0.008)S(0.008)KAS(0.06)LGS(0.924)LEGEAEAEASSPK 84.948 0.00058085 5474300 1993.6 2140.5 2105.5 1938.6 1585.9 2236.4 2585.6 1919.8 1839.8 2165.8 TRUE FALSE FALSE 2203.295995 2209.853604 2392.426575 1976.124406 1464.388685 2045.846138 2294.661483 1870.694296 1826.996682 2259.178237 0.97526435 0.978167003 1.058980888 0.874709385 0.648195286 0.90557093 1.015706262 0.828041925 0.808699664 1 11.14158238 -6.144444127 6.706560068 0.991742361 0.853128247 0.194479974 0.10511056 0.209689512 10.9057565 0.013359557 0.022264211 7.17E-07 6.144444127 -0.138614113 SSLALCLDS(ph)DSEDELKR ddPTM_HeLa_SAHA_4h_R1 2 SSLALCLDSDSEDELKR 17 1 Q86T82-2;Q86T82 Q86T82-2 USP37 Ubiquitin carboxyl-terminal hydrolase 37 1 0 SSLALCLDS(0.993)DS(0.007)EDELKR;SSLALCLDS(0.996)DS(0.004)EDELKR ; 114.53 0.0001991 7596600 1401.35 1384.77 1334.1 1558.75 1690.26 1920.34 1929.87 1831.6 1306.14 1296.67 TRUE FALSE FALSE 1548.750423 1429.637457 1515.9042 1588.92186 1560.752644 1756.716228 1712.715948 1784.750324 1297.050465 1352.575789 1.145037812 1.05697401 1.120753611 1.174737765 1.153911416 1.298793193 1.266262461 1.319519644 0.958948456 1 10.40149372 -1 0.142654937 0.973571335 2.22978711 0.859305694 0.043347518 20.8408267 0.195329532 0.11273009 5.381120229 0.1 1 1.256215775 SSLEPDS(ph)EEDDRK ddPTM_HeLa_SAHA_4h_R1 1 SSLEPDSEEDDRK 13 1 A0A1B0GV45 A0A1B0GV45 1 0 SSLEPDS(1)EEDDRK 97.551 0.0020489 0 693.9 904.42 700.66 865.62 929.73 996.15 908.02 753.05 1116.6 809.11 TRUE FALSE FALSE 766.8875857 933.7238014 796.1422959 882.3753268 858.4942883 911.2724158 805.8471998 733.7880714 1108.82949 843.9946918 0.908640295 1.10631478 0.943302492 1.045474972 1.017179725 1.079713445 0.954801266 0.869422614 1.313787279 1 9.721090115 SSLET(ph)LEDIEENAPLRR ddPTM_HeLa_SAHA_4h_R1 1 SSLETLEDIEENAPLRR 17 1 V9GYB4;Q8TDN4-2;Q8TDN4 V9GYB4 CABLES1 CDK5 and ABL1 enzyme substrate 1 1 0 S(0.307)S(0.307)LET(0.386)LEDIEENAPLRR 79.676 0.013344 4967200 200.17 262.03 155.12 276.62 207.66 152.43 223.07 192.74 144.24 229.9 TRUE FALSE FALSE 221.224799 270.5199439 176.2589458 281.9743801 191.7491357 139.4421065 197.9695765 187.8099899 143.2362221 239.8121141 0.922492176 1.128049536 0.734987665 1.175813745 0.79958069 0.581463981 0.8255195 0.783154723 0.597285181 1 7.905760728 -5.539060003 24.78100109 0.971196898 0.731414875 0.186258407 0.173001534 131.7838293 201821.6431 0.016418401 0.032844243 2.89E-06 5.539060003 -0.239782022 SSLFPFEDAFLDDSHGDQALS(ph)SGLSSPTR ddPTM_HeLa_SAHA_4h_R1 1 SSLFPFEDAFLDDSHGDQALSSGLSSPTR 29 0 Q8NE35-2 Q8NE35-2 1 0 SSLFPFEDAFLDDS(0.003)HGDQALS(0.414)S(0.414)GLS(0.108)S(0.043)PT(0.017)R 80.944 4.92E-06 18170000 284.93 368.16 302.57 456.02 446.86 745.61 535.11 498.4 433 401.07 TRUE FALSE FALSE 314.9002447 380.0886256 343.8026639 464.8469265 412.6216833 682.0798333 474.8980145 485.6516497 429.9867177 418.3620905 0.752697847 0.908515934 0.821782546 1.111111492 0.986278854 1.630357647 1.135136345 1.160840479 1.027786044 1 8.708608319 -5.766105294 1.82101591 0.880955017 1.281437846 0.474964112 0.166421296 0.202823077 1.366190526 0.025379724 0.057750847 1.71E-06 5.766105294 0.400482829 SSLFS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 SSLFSPR 7 0 Q7RTP6 Q7RTP6 MICAL3 Protein-methionine sulfoxide oxidase MICAL3 1 0 SSLFS(1)PR;SSLFS(1)PR ; 104.06 0.011224 20336700 7309.2 8660.4 6606.5 8543.3 8808.2 8781.6 8422.9 7025.7 8230.7 7784.6 TRUE FALSE FALSE 8078.015192 8941.002642 7506.799415 8708.667925 8133.317619 8033.358276 7475.133124 6845.992767 8173.421889 8120.232203 0.994801009 1.101077213 0.92445625 1.072465381 1.001611458 0.989301546 0.920556572 0.843078449 1.006550267 1 12.98730527 -4.492956439 1.791765632 1.005830725 0.825652531 0.594159609 0.045119913 0.280152762 1.25553086 0.005861718 0.072750015 3.21E-05 4.492956439 -0.180178194 SSLGQS(ph)AS(ph)ETEEDTVSVSKK ddPTM_HeLa_SAHA_4h_R1 1 SSLGQSASETEEDTVSVSKK 20 1 E9PPJ0;Q13435;E9PJ04;H0YCG1 E9PPJ0 SF3B2 Splicing factor 3B subunit 2 2 0 S(0.005)S(0.005)LGQS(0.843)AS(0.749)ET(0.374)EEDT(0.023)VS(0.001)VSKK 64.845 0.013888 6998400 1500.2 1877.7 1804.9 2147.7 2029.8 1986.9 2058.6 2160.3 1735.1 1906.4 TRUE FALSE FALSE 1657.997919 1938.538712 2050.862372 2189.271839 1874.277163 1817.604942 1826.96091 2105.042654 1723.025298 1988.594234 0.83375376 0.97482869 1.031312642 1.100914305 0.942513626 0.914014992 0.918719807 1.058558161 0.866453934 1 10.95753321 -7.021637096 24.47640624 0.920589376 0.990850201 0.254374159 0.069681898 909.5402184 1028892.578 0.0139785 0.01721172 9.51E-08 7.021637096 0.070260825 SSLGQS(ph)ASETEEDTVSVSK ddPTM_HeLa_SAHA_4h_R1 2 SSLGQSASETEEDTVSVSK 19 0 E9PPJ0;Q13435;E9PJ04;H0YCG1 E9PPJ0 SF3B2 Splicing factor 3B subunit 2 1 0 SSLGQS(0.604)AS(0.342)ET(0.051)EEDT(0.003)VSVSK;SSLGQS(0.94)AS(0.05)ET(0.009)EEDTVSVSK ; 163.41 3.28E-06 2521200 1026.69 1460.89 978.9 1145.04 1251.26 1625.41 1230.31 1088.82 1380.6 1271.95 TRUE FALSE FALSE 1134.681965 1508.223795 1112.299394 1167.203905 1155.388729 1486.915924 1091.872281 1060.969561 1370.992292 1326.789989 0.855208416 1.136746438 0.838338699 0.879720162 0.870815079 1.120686722 0.822942809 0.799651467 1.033315222 1 10.37372432 SSLGQSAS(ph)ETEEDTVSVSK ddPTM_HeLa_SAHA_4h_R1 7 SSLGQSASETEEDTVSVSK 19 0 E9PPJ0;Q13435;E9PJ04;H0YCG1 E9PPJ0 SF3B2 Splicing factor 3B subunit 2 1 0 SSLGQS(0.004)AS(0.776)ET(0.045)EEDT(0.168)VS(0.008)VSK;SSLGQS(0.001)AS(0.927)ET(0.063)EEDT(0.008)VS(0.001)VSK;SSLGQS(0.032)AS(0.968)ETEEDTVSVSK;SSLGQS(0.002)AS(0.932)ETEEDT(0.065)VSVSK;SSLGQS(0.008)AS(0.96)ET(0.03)EEDT(0.002)VSVSK;SSLGQS(0.007)AS(0.993)ETEEDTVSVSK;SSLGQS(0.002)AS(0.498)ET(0.498)EEDT(0.002)VSVSK ;;;;;; 298 2.14E-91 50048300 6493.81 9144.12 7156.71 8530.09 8546.43 10078.06 8880.13 9049.99 10542.53 8719.32 TRUE FALSE FALSE 7176.85873 9440.395488 8131.989168 8695.202227 7891.60438 9219.35259 7880.914401 8818.50436 10469.16368 9095.252557 0.789077454 1.037947592 0.894091628 0.956015479 0.867661929 1.013644485 0.866486593 0.969572236 1.15105805 1 13.15089798 -7.249877553 24.96588305 0.900397684 0.939006142 0 0.106814667 2203.18561 4757427.967 0.014965362 0.018251246 5.62E-08 7.249877553 0.038608458 SSLGQSAS(ph)ETEEDTVSVSKK ddPTM_HeLa_SAHA_4h_R1 6 SSLGQSASETEEDTVSVSKK 20 1 E9PPJ0;Q13435;E9PJ04;H0YCG1 E9PPJ0 SF3B2 Splicing factor 3B subunit 2 1 0 SSLGQS(0.031)AS(0.935)ET(0.031)EEDT(0.002)VSVSKK;S(0.001)S(0.001)LGQS(0.109)AS(0.881)ET(0.008)EEDTVSVSKK;S(0.002)S(0.002)LGQS(0.125)AS(0.832)ET(0.039)EEDTVSVSKK;SSLGQS(0.002)AS(0.828)ET(0.17)EEDTVSVSKK;SSLGQS(0.066)AS(0.607)ET(0.326)EEDTVSVSKK;S(0.003)S(0.003)LGQS(0.191)AS(0.694)ET(0.109)EEDTVSVSKK ;;;;; 174.4 1.04E-22 152689800 12481.36 11890.09 12186.39 12451.69 13090.7 12616.33 13827.65 14206.21 11735.08 12511.59 TRUE FALSE FALSE 13794.20671 12275.33672 13847.08777 12692.71047 12087.69339 11541.34771 12271.72643 13842.83572 11653.41462 13051.02588 1.056944247 0.94056489 1.060996116 0.972545039 0.926187222 0.884324942 0.940288261 1.060670314 0.892911771 1 13.67187559 -6.046763701 6.30871001 1.021967308 0.947217761 0 0.066208412 0.198510761 19.98999412 0.007924431 0.013384487 8.98E-07 6.046763701 -0.074749546 SSLGQSASETEEDT(ph)VSVSK ddPTM_HeLa_SAHA_4h_R1 1 SSLGQSASETEEDTVSVSK 19 0 E9PPJ0;Q13435;E9PJ04;H0YCG1 E9PPJ0 SF3B2 Splicing factor 3B subunit 2 1 0 SSLGQSAS(0.25)ET(0.001)EEDT(0.748)VSVSK 277.07 1.84E-64 36855000 1768.3 2173.4 1667.3 1867.3 1871 1783.8 2097.7 1925.3 2324.9 1930.5 TRUE FALSE FALSE 1954.297907 2243.819586 1894.510961 1903.444292 1727.644384 1631.810205 1861.661275 1876.053614 2308.720832 2013.733303 0.970484972 1.114258568 0.940795367 0.94523157 0.857931079 0.810340775 0.924482538 0.931629631 1.146487883 1 10.97565691 -6.127820472 2.310569359 0.995094059 0.880833643 0.46983769 0.071184613 0.193646922 2.022879119 0.008265727 0.014952507 7.45E-07 6.127820472 -0.114260416 SSLGSLQT(ph)PEAVTTR ddPTM_HeLa_SAHA_4h_R1 2 SSLGSLQTPEAVTTR 15 0 C9J6P4;Q7Z2W4;Q7Z2W4-3;Q7Z2W4-2 C9J6P4 ZC3HAV1 Zinc finger CCCH-type antiviral protein 1 1 0 SSLGS(0.074)LQT(0.572)PEAVT(0.177)T(0.177)R;S(0.004)S(0.001)LGS(0.001)LQT(0.379)PEAVT(0.308)T(0.308)R ; 200.33 3.68E-12 20626300 2724.45 2227.94 1499.45 2224.36 2901.46 2807.72 2360.48 2095.95 2629.03 2342.66 TRUE FALSE FALSE 3011.020151 2300.126718 1703.787237 2267.415704 2679.150762 2568.48646 2094.872578 2042.338634 2610.734366 2443.663537 1.232174604 0.941261627 0.697226607 0.927875573 1.096366468 1.051080241 0.857267192 0.835769165 1.068368999 1 11.25482994 -7.125307266 7.469751003 1.109376287 0.91568877 0.344133216 0.117242233 0.248981756 14.14965336 0.023090679 0.028325731 7.49E-08 7.125307266 -0.193687517 SSLPAPSK(ac)ALSGPEPAKDNVEDR ddPTM_HeLa_SAHA_4h_R1 1 SSLPAPSKALSGPEPAKDNVEDR 23 2 A0A669KBI3;F5GXF9;P51825;P51825-3;P51825-2 A0A669KBI3 AFF1 AF4/FMR2 family member 1 0 1 SSLPAPSK(1)ALSGPEPAKDNVEDR 183.24 9.07E-26 1424500 185.5 379.92 260.23 197.56 318.41 600.72 358.53 386.68 283.77 172.86 FALSE TRUE FALSE 205.0117411 392.2296573 295.6927892 201.3840595 294.0134946 549.5352764 318.1872608 376.7892855 281.7952215 180.3128406 1.136978046 2.17527302 1.639887588 1.116859226 1.63057436 3.047676886 1.764640055 2.089642004 1.562812835 1 7.494358328 -6.447763492 0.402924964 0.957373376 2.323106752 0.244978409 0.50440149 0.923668544 0.310253801 0.199900329 0.500949673 3.57E-07 6.447763492 1.365733376 SSLS(ph)GDEEDELFK ddPTM_HeLa_SAHA_4h_R1 2 SSLSGDEEDELFK 13 0 Q5T1M5;Q5T1M5-2 Q5T1M5 FKBP15 FK506-binding protein 15 1 0 S(0.076)S(0.01)LS(0.913)GDEEDELFK;SSLS(1)GDEEDELFK ; 199.31 9.22E-11 15610500 1478.55 1600.17 1368.56 1598.85 1482.63 1906.31 1862.44 1435.69 1885.13 1479.6 TRUE FALSE FALSE 1634.070673 1652.016558 1555.06023 1629.798054 1369.03121 1743.881663 1652.87335 1398.967129 1872.011227 1543.392797 1.058752299 1.070379855 1.0075596 1.05598397 0.887027082 1.129901388 1.07093499 0.906423259 1.212919505 1 10.59188956 SSLS(ph)GDEEDELFKGATLK ddPTM_HeLa_SAHA_4h_R1 2 SSLSGDEEDELFKGATLK 18 1 Q5T1M5;Q5T1M5-2 Q5T1M5 FKBP15 FK506-binding protein 15 1 0 S(0.051)S(0.016)LS(0.933)GDEEDELFKGATLK;S(0.028)S(0.028)LS(0.944)GDEEDELFKGATLK ; 99.407 0.0012661 31026000 2158.04 1231.43 2582.4 1749.94 1777.11 1455.08 1932.22 2502.27 769.23 1489.03 TRUE FALSE FALSE 2385.032549 1271.32914 2934.316023 1783.812619 1640.948216 1331.098998 1714.80152 2438.265557 763.8768658 1553.22937 1.535531451 0.818507018 1.88917109 1.148454087 1.056475139 0.856988043 1.104023368 1.569803921 0.491799138 1 10.60105518 -6.026160258 24.96962836 1.274320249 1.120488052 0 0.402158574 2017.416117 1925596.367 0.050356716 0.083695331 9.42E-07 6.026160258 -0.153832197 SSLS(ph)NNSLK ddPTM_HeLa_SAHA_4h_R1 2 SSLSNNSLK 9 0 Q9ULJ7-2;Q9ULJ7 Q9ULJ7-2 ANKRD50 Ankyrin repeat domain-containing protein 50 1 0 S(0.115)S(0.001)LS(0.449)NNS(0.435)LK;S(0.093)S(0.007)LS(0.572)NNS(0.328)LK ; 129.88 0.002069 13843700 3939.2 4216.8 3278.4 4336 4034.3 4578.1 4330.5 4979.6 3937.4 4248.1 TRUE FALSE FALSE 4353.54313 4353.427087 3725.163279 4419.92955 3725.192806 4188.020124 3843.220743 4852.229042 3909.999313 4431.256381 0.982462479 0.982436292 0.840656229 0.997443878 0.840662892 0.945108963 0.867298214 1.095000746 0.882368109 1 12.11350008 -6.967802379 24.99222441 0.991230586 0.926338283 0 0.080017254 246.0893144 191017.257 0.010398174 0.013665821 1.08E-07 6.967802379 -0.064892303 SSLS(ph)PTMRPGTGAER ddPTM_HeLa_SAHA_4h_R1 1 SSLSPTMRPGTGAER 15 1 O75400-2;H7BXZ7;H7C2N3;O75400-5 O75400-2 PRPF40A Pre-mRNA-processing factor 40 homolog A 1 0 S(0.002)S(0.004)LS(0.937)PT(0.056)MRPGT(0.002)GAER 113.65 0.006855 5626900 1255.8 1340 1458.4 1302.3 1452.5 1403.4 1411.4 1373.4 1058.6 1595 TRUE FALSE FALSE 1387.890806 1383.416879 1657.143157 1327.5079 1341.209764 1283.822425 1252.585557 1338.270417 1051.233116 1663.768256 0.83418517 0.831496138 0.996018016 0.797892312 0.806127752 0.771635365 0.752860594 0.804361071 0.631838667 1 10.70023878 -13.52287875 0.110622683 1.605527228 0.70595631 0 0.12647072 51.33235032 0.41673249 7.055215833 0.359488524 3.00E-14 13.52287875 -0.899570918 SSLSNNECGSLDKT(ph)SPEMSNSNNDER ddPTM_HeLa_SAHA_4h_R1 1 SSLSNNECGSLDKTSPEMSNSNNDER 26 1 Q5UIP0;Q5UIP0-2 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 SSLSNNECGSLDKT(0.842)S(0.155)PEMS(0.002)NSNNDER 129.26 1.43E-08 8356200 633.83 575.25 433.27 695.37 627.3 838.17 673.64 866.27 801.27 738.2 TRUE FALSE FALSE 700.4991475 593.8884774 492.3137792 708.8298919 579.2364095 766.7532006 597.8402543 844.1120677 795.6938968 770.0274147 0.909706764 0.771256278 0.639345782 0.920525527 0.752228295 0.995747925 0.776388273 1.09621041 1.033331907 1 9.588766 -7.930192957 1.529991727 0.9749676 0.846289905 0.190218107 0.12613819 0.433606663 2.10106701 0.026921307 0.024078346 1.17E-08 7.930192957 -0.128677695 SSLSTSS(ph)PESAR ddPTM_HeLa_SAHA_4h_R1 1 SSLSTSSPESAR 12 0 D6REJ6;D6R9F1;D6REQ4;D6RDH3;D6RBZ2;D6RF08;D6RF67;D6RF51;D6RB63;D6R9D1;D6RC23;D6RAM4;D6RGK2;D6R9N9;D6RC13;Q8N7B6-2;Q8N7B6-3;Q8N7B6-4;Q8N7B6 D6REJ6 PACRGL PACRG-like protein 1 0 SSLST(0.011)S(0.019)S(0.963)PES(0.006)AR 177.83 3.41E-05 14013000 2134.2 2151.5 2020.3 1983.5 2021.8 2525.9 2614.1 2675.7 2063.9 2136.7 TRUE FALSE FALSE 2358.684948 2221.210012 2295.615963 2021.893511 1866.890121 2310.67911 2319.954588 2607.259468 2049.537152 2228.823594 1.058264528 0.996584036 1.029967544 0.907157263 0.837612329 1.036725884 1.040887486 1.169791757 0.919560057 1 11.12206672 -4.253822697 2.238256754 1.004636504 1.213395023 0.366782251 0.070104257 0.607369386 3.40308359 0.010237432 0.251636305 5.57E-05 4.253822697 0.208758519 SSLVSSS(ph)PASVR ddPTM_HeLa_SAHA_4h_R1 1 SSLVSSSPASVR 12 0 S4R3K6;Q86VQ0 S4R3K6 LCA5 Lebercilin 1 0 SSLVS(0.024)S(0.024)S(0.951)PASVR 147.96 2.43E-07 0 1512.5 1506.7 1577.1 1530.4 1751.6 2011 1601.5 1741.8 1673.5 1425.9 TRUE FALSE FALSE 1671.59169 1555.518069 1792.018975 1560.023105 1617.392786 1839.651486 1421.295005 1697.247278 1661.853977 1487.377527 1.123851651 1.045812539 1.204817837 1.048841385 1.087412413 1.23684233 0.955571117 1.141100526 1.117304751 1 10.53855516 -9.330056615 0.85445796 0.994072947 1.105332211 0 0.084416452 0.830136513 0.990835468 0.062641011 0.01342422 4.68E-10 9.330056615 0.111259264 KPAAATVTK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 KPAAATVTKK 10 2 P16403 P16403 HIST1H1C Histone H1.2 0 1 KPAAATVTK(1)K 131.17 2.96E-06 0 5719.5 6868.2 8168.6 6011.2 13465 11265 14994 12998 3133.9 4057.5 FALSE TRUE FALSE 6321.103252 7090.734186 9281.774268 6127.555468 12433.31461 10305.15862 13306.83566 12665.52998 3112.090935 4232.438682 1.493489623 1.675330635 2.193008562 1.44776001 2.937624274 2.434803998 3.144011445 2.992489894 0.735294984 1 12.04727345 -5.145550375 0.281664343 0.962153389 4.211815036 0.831839982 0.334790681 1.325825737 0.119862547 0.179094718 1.432453377 7.15E-06 5.145550375 3.249661647 SSPAGNS(ph)PAPL ddPTM_HeLa_SAHA_4h_R1 1 SSPAGNSPAPL 11 0 Q86TG7-2;A0A087WZG9;B4DSP0 Q86TG7-2 PEG10 1 0 SSPAGNS(1)PAPL 109.16 0.0043731 3466000 1889.8 1623.8 1687.4 1809.4 1533 1967.4 2017.6 1873.1 1740.6 1868.2 TRUE FALSE FALSE 2088.577835 1676.412185 1917.350084 1844.423553 1415.541871 1799.766452 1790.574338 1825.188814 1728.487023 1948.747245 1.071754092 0.860251215 0.983888542 0.946466279 0.726385566 0.923550479 0.918833544 0.936595969 0.886973427 1 10.92833127 -7.261796195 25 1.033883878 0.899501506 0.118132842 0.082054623 21.88842133 1533581.582 0.011809852 0.01396018 5.47E-08 7.261796195 -0.134382372 SSPETGTTGDVAWQIS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SSPETGTTGDVAWQISPK 18 0 E9PDC2;A0A088AWP5;Q8WUY3-4;Q8WUY3;Q8WUY3-2;Q8WUY3-3;H7BZH9 E9PDC2 PRUNE2 Protein prune homolog 2 1 0 SSPETGTTGDVAWQIS(1)PK 127.32 0.00022926 3306900 600.8 854.19 983.43 915.38 1084.1 892.03 1154.8 1097.2 959.78 1302.5 TRUE FALSE FALSE 663.9949006 881.8663165 1117.446719 933.0985036 1001.036492 816.0240256 1024.858865 1069.135213 953.1008128 1358.657149 0.488714096 0.649072002 0.822464092 0.686779961 0.736783737 0.600610703 0.7543175 0.786905816 0.701502078 1 10.40796573 -9.558834044 1.344939315 0.999194777 0.667941263 0.008900325 0.129414231 0.257998236 0.839533968 0.076838452 0.018306487 2.76E-10 9.558834044 -0.331253514 SSPGAVAGLSNAPGT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 SSPGAVAGLSNAPGTPR 17 0 V9GYB2;U3KPY3;Q9BWG4-2;Q9BWG4 V9GYB2 SSBP4 Single-stranded DNA-binding protein 4 1 0 SSPGAVAGLSNAPGT(1)PR;SSPGAVAGLSNAPGT(1)PR ; 212.92 2.13E-20 14115000 1616.63 2049.17 1753.76 1331.37 1975.2 2032.99 1861.43 1337.94 2119.55 1973.69 TRUE FALSE FALSE 1786.674561 2115.564453 1992.75328 1357.140592 1823.860603 1859.767815 1651.976997 1303.717432 2104.799879 2058.785435 0.867829416 1.02757889 0.967926645 0.65919477 0.885891542 0.90333251 0.802403674 0.633245898 1.022350286 1 11.00757777 -6.292632091 24.86990695 0.946250577 0.791324028 0.523627481 0.092721473 494.8229332 394520.6333 0.01471506 0.022478974 5.10E-07 6.292632091 -0.154926548 SSPGSVAAS(ph)PSGGGGR ddPTM_HeLa_SAHA_4h_R1 3 SSPGSVAASPSGGGGR 16 0 Q9BXB5-2;Q9BXB5 Q9BXB5-2 OSBPL10 Oxysterol-binding protein-related protein 10 1 0 SSPGSVAAS(0.998)PS(0.002)GGGGR;SSPGSVAAS(0.982)PS(0.017)GGGGR;SSPGSVAAS(0.757)PS(0.243)GGGGR ;; 211.49 2.64E-20 18161800 1793.66 1222.18 1615.13 1822.87 2181.05 2016.69 1979.1 1638.7 1633.87 1865.23 TRUE FALSE FALSE 1982.325388 1261.779434 1835.231505 1858.154285 2013.93842 1844.856666 1756.406459 1596.784427 1622.499766 1945.649194 1.018850364 0.648513328 0.943248922 0.955030481 1.035098427 0.94819594 0.902735429 0.820694929 0.833911771 1 10.9260359 SSPGSVAASPS(ph)GGGGR ddPTM_HeLa_SAHA_4h_R1 1 SSPGSVAASPSGGGGR 16 0 Q9BXB5-2;Q9BXB5 Q9BXB5-2 OSBPL10 Oxysterol-binding protein-related protein 10 1 0 SSPGSVAAS(0.228)PS(0.772)GGGGR 76.843 0.014788 889020 231.36 272.02 202.22 364.1 328.45 200.68 368.54 328.87 229.12 255.52 TRUE FALSE FALSE 255.6955063 280.8336265 229.7774885 371.147682 303.284232 183.580935 327.0709093 320.4579816 227.5255353 266.5367177 0.959325636 1.053639547 0.862085684 1.392482376 1.137870364 0.688764147 1.227113893 1.202303324 0.853636742 1 8.05819048 SSPNIWSTGS(ph)SVY(ph)S(ph)T(ph)PVFSQK ddPTM_HeLa_SAHA_4h_R1 1 SSPNIWSTGSSVYSTPVFSQK 21 0 A0A1W2PP56;E5RIG3;A0A1W2PPS4;A0A1W2PPN5;A0A286YFI6;A0A1X7SBZ8;P18507;P18507-2;P18507-3 A0A1W2PP56 GABRG2 Gamma-aminobutyric acid receptor subunit gamma-2 4 0 S(0.001)S(0.001)PNIWS(0.041)T(0.041)GS(0.862)S(0.071)VY(0.982)S(0.667)T(0.667)PVFS(0.667)QK 60.334 0.0048596 14838000 1749.9 1442.8 1646 1950.5 1867.8 698.67 1995.1 1796.2 1853.6 1717.9 TRUE FALSE FALSE 1933.962511 1489.547667 1870.308308 1988.254748 1724.689568 639.1393854 1770.606097 1750.255805 1840.700647 1791.967076 1.07923998 0.831236068 1.043718008 1.109537544 0.962456058 0.356669156 0.988079592 0.976723193 1.027195572 1 10.80732842 -5.504002322 24.98483269 1.026534858 0.772635055 0.27303116 0.176041085 688.9129965 911844.5126 0.024052203 0.052959717 3.13E-06 5.504002322 -0.253899804 SSPNPFVGS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 1 SSPNPFVGSPPK 12 0 P98082;P98082-3 P98082 DAB2 Disabled homolog 2 1 0 S(0.185)S(0.018)PNPFVGS(0.798)PPK 164.7 0.00012331 123290000 2978.2 4117.4 2816.4 2721.5 4014.1 3984.3 3397.4 2766.6 4824.2 3191.1 TRUE FALSE FALSE 3291.46074 4250.806462 3200.204325 2774.178568 3706.540525 3644.815225 3015.115611 2695.834378 4790.627999 3328.683938 0.988817443 1.277023154 0.961402279 0.833416035 1.113515309 1.094971855 0.905798107 0.809879949 1.439195817 1 11.70073618 -6.578652272 24.99998002 1.020671461 0.959085793 0.064425006 0.180424269 222.7503796 99844.7657 0.019848767 0.028070398 2.64E-07 6.578652272 -0.061585668 SSPNVANQPPS(ph)PGGK ddPTM_HeLa_SAHA_4h_R1 2 SSPNVANQPPSPGGK 15 0 A8MQ02;J3KN01;P55196-6;P55196-3;P55196;P55196-5;Q5TIG5;P55196-2;P55196-1 A8MQ02 MLLT4 Afadin 1 0 SSPNVANQPPS(1)PGGK;SSPNVANQPPS(1)PGGK ; 221.78 3.31E-18 22421000 4870.1 5877.3 4644.4 5203.5 6304.5 6274.9 6938.4 6669.5 5505.1 5000 TRUE FALSE FALSE 5382.359463 6067.728376 5277.314645 5304.221267 5821.450572 5740.243218 6157.672971 6498.903847 5466.789561 5215.574469 1.031978259 1.163386394 1.011837656 1.016996555 1.116166705 1.100596541 1.18063178 1.246057148 1.048166332 1 12.34861045 -1 0.308918638 1.011061176 3.161177971 0.646866164 0.04730956 19.53299582 0.249713477 0.016488497 23.77034008 0.1 1 2.150116795 NTVVPTK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 NTVVPTKK 8 1 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 1 ; NTVVPTK(1)K;NTVVPTK(1)K 83.948 0.015799 1301020 1189.69 2443.88 1726.26 2327.73 2948.7 3123.2 5088 3708.5 1878.4 1061.57 FALSE TRUE FALSE 1314.827053 2523.063315 1961.505723 2372.78658 2722.771243 2857.085789 4515.484849 3613.64194 1865.328061 1107.339478 1.187374856 2.278491254 1.771368006 2.142781529 2.458840579 2.580135402 4.07777826 3.263355107 1.684513285 1 10.11288186 -5.142751274 0.354042878 0.937626669 4.783978852 0.757781682 0.433902663 0.858945907 0.117667713 0.135755229 1.296729727 7.20E-06 5.142751274 3.846352183 SSPS(ph)PALEQPFR ddPTM_HeLa_SAHA_4h_R1 1 SSPSPALEQPFR 12 0 Q9UMZ2-6;Q9UMZ2-9;Q9UMZ2-4;Q9UMZ2-8;Q9UMZ2-3;Q9UMZ2-7;Q9UMZ2-5;Q9UMZ2 Q9UMZ2-6 SYNRG Synergin gamma 1 0 S(0.038)S(0.048)PS(0.914)PALEQPFR 80.312 0.021322 10621000 803.96 1140.5 912.96 1228.4 1064.6 1369.8 1098.2 977.81 1158.8 1222.7 TRUE FALSE FALSE 888.5242015 1177.452948 1037.373434 1252.177458 983.030578 1253.085334 974.6276457 952.7990361 1150.735816 1275.416581 0.696654109 0.923190874 0.813360474 0.981779191 0.770752547 0.982491017 0.764164164 0.747049278 0.902243105 1 10.31675283 -9.644191458 1.487361745 0.999643143 0.820365211 0.146230401 0.098631101 0.397586193 1.58627538 0.069669043 0.015916662 2.27E-10 9.644191458 -0.179277932 SSPS(ph)PEVVKPK ddPTM_HeLa_SAHA_4h_R1 1 SSPSPEVVKPK 11 1 A0A1W2PNZ9;Q15652-3;Q15652;Q15652-2 A0A1W2PNZ9 JMJD1C Probable JmjC domain-containing histone demethylation protein 2C 1 0 S(0.006)S(0.023)PS(0.971)PEVVKPK 82.202 0.013115 19808000 2596.6 2848 2681 2487.2 2868.8 3410.1 2894.9 3183.4 2884.1 2675.2 TRUE FALSE FALSE 2869.722302 2940.277069 3046.352718 2535.343353 2648.993164 3119.540295 2569.158233 3101.973238 2864.029313 2790.540964 1.028374906 1.053658451 1.091671026 0.908549054 0.949275856 1.117898048 0.920666733 1.111602832 1.026334804 1 11.44632911 SSPSTGS(ph)LDSGNESK ddPTM_HeLa_SAHA_4h_R1 2 SSPSTGSLDSGNESK 15 0 A0A0U1RQT1;A0A087X1H5;Q15057 A0A0U1RQT1 ACAP2 "Arf-GAP with coiled-coil, ANK repeat and PH domain-containing protein 2" 1 0 SSPS(0.001)T(0.102)GS(0.896)LDS(0.001)GNESK;SSPS(0.004)T(0.244)GS(0.752)LDSGNESK ; 218.2 7.29E-18 14951000 1599.67 1751.84 1405.5 1789.05 1834.26 1857.03 1948.6 2044.87 1849.69 1762.31 TRUE FALSE FALSE 1767.93063 1808.600765 1597.03422 1823.67965 1693.719395 1698.800597 1729.3384 1992.565186 1836.817857 1838.291809 0.961724696 0.983848569 0.868759907 0.99205123 0.921355025 0.924119114 0.940731168 1.083922137 0.999198195 1 10.84415008 -8.705129905 0.773587522 0.998314657 0.954979067 0.07723805 0.053480701 1.172291533 1.387714345 0.026946041 0.010977721 1.97E-09 8.705129905 -0.04333559 SSPYGT(ph)LKPEEMSGPGLAEPK ddPTM_HeLa_SAHA_4h_R1 1 SSPYGTLKPEEMSGPGLAEPK 21 1 Q5JSZ5;A0A494C0D3;Q5JSZ5-5;H0Y412;A0A494C065 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 S(0.036)S(0.036)PY(0.416)GT(0.513)LKPEEMSGPGLAEPK 64.843 0.0075521 2769500 378.62 562.09 363.98 545.59 642.09 771.87 682.34 572.07 524.76 509.62 TRUE FALSE FALSE 418.4449888 580.3020848 413.5812989 556.1506834 592.8932029 706.1023336 605.5613074 557.4372777 521.1081524 531.5922122 0.787154099 1.091630147 0.778004812 1.046197951 1.115315818 1.328278175 1.139146311 1.048618217 0.980278003 1 9.054176159 -5.92542723 2.933398891 0.90598838 1.170770124 0.477732323 0.111582366 0.159946107 2.791260214 0.017934516 0.034234981 1.19E-06 5.92542723 0.264781744 SSQGK(ac)TEVK ddPTM_HeLa_SAHA_4h_R1 2 SSQGKTEVK 9 1 Q96EV2;H0Y3K4 Q96EV2 RBM33 RNA-binding protein 33 0 1 ; SSQGK(1)TEVK;SSQGK(1)TEVK 136.96 0.00055341 891190 344.32 81.292 153.6 403.45 417.44 360.82 546.08 553.5 200.543 228.52 FALSE TRUE FALSE 380.5371574 83.92591414 174.5318081 411.2593581 385.4558374 330.0761061 484.6336412 539.3422715 199.1474049 238.3726155 1.596396283 0.352078673 0.732180614 1.725279379 1.6170307 1.384706483 2.03309277 2.262601642 0.835445819 1 7.897074697 -4.51880024 0.771720027 1.192754113 2.703862755 0.51606105 0.401929538 1.452076033 0.769906579 0.072305573 1.73985902 3.03E-05 4.51880024 1.511108642 RTDPECTAPIK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 RTDPECTAPIKK 12 2 Q5T7F5;Q8N1G2 Q5T7F5 CMTR1 Cap-specific mRNA (nucleoside-2-O-)-methyltransferase 1 0 1 RTDPECTAPIK(1)K 128.21 0.00031721 17071000 1223.5 1223.4 1479.5 3091.3 4360.2 6817.6 6879.4 8903.4 1154.8 847.79 FALSE TRUE FALSE 1352.193344 1263.038963 1681.118555 3151.136582 4026.122418 6236.702125 6105.311806 8675.66392 1146.763653 884.3423759 1.529038278 1.428223952 1.900981567 3.563254083 4.55267386 7.052361501 6.903787462 9.810299898 1.296741719 1 9.788461211 -5.128982664 0.615708476 1.134604734 10.77174303 0.973343398 0.476970894 0.151073091 0.070211502 0.0865727 0.844305921 7.43E-06 5.128982664 9.637138294 up SSQPS(ph)PTAVPASDS(ph)PPTKQEVK ddPTM_HeLa_SAHA_4h_R1 1 SSQPSPTAVPASDSPPTKQEVK 22 1 Q3KQU3-4;Q3KQU3;Q3KQU3-2;C9JIR3;E9PLH3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 2 0 S(0.033)S(0.044)QPS(0.461)PT(0.462)AVPAS(0.002)DS(0.899)PPT(0.1)KQEVK 110.89 0.00043698 25341000 1530.3 1352.3 1131.1 1327.9 1568.1 1500.8 1734.2 1386.8 1291.5 1310.1 TRUE FALSE FALSE 1691.263975 1396.115407 1285.240417 1353.603425 1447.952517 1372.923397 1539.063252 1351.327664 1282.512346 1366.584822 1.23758434 1.021609039 0.940476139 0.990500847 1.059540903 1.004638259 1.126211287 0.988835557 0.93847987 1 10.41635929 -7.067405722 24.99990685 1.113108654 1.019731789 0 0.089456092 240.8274065 89319.21424 0.016241775 0.019892035 8.56E-08 7.067405722 -0.093376865 SSQPS(ph)PTAVPASDSPPTK ddPTM_HeLa_SAHA_4h_R1 1 SSQPSPTAVPASDSPPTK 18 0 Q3KQU3-4;Q3KQU3;Q3KQU3-2;C9JIR3;E9PLH3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 S(0.035)S(0.035)QPS(0.756)PT(0.175)AVPASDSPPTK 188.56 8.85E-13 9331600 2129.4 2765.2 1408.7 2390.5 2679.4 2207.7 2154.1 2131.7 2969 2442.2 TRUE FALSE FALSE 2353.380062 2854.794294 1600.6703 2436.771584 2474.104951 2019.59154 1911.714999 2077.174201 2948.338487 2547.495194 0.923801571 1.120627941 0.628331038 0.956536283 0.971191214 0.792775407 0.750429286 0.815379046 1.157348008 1 11.31486371 -1.000000587 0.154304235 1.022662426 0.052006021 0.319847604 0.129669943 64.64587141 0.638925313 0.226370928 14.20120324 0.099999865 1.000000587 -0.970656405 SSQPSPT(ph)AVPASDS(ph)PPTKQEVK ddPTM_HeLa_SAHA_4h_R1 1 SSQPSPTAVPASDSPPTKQEVK 22 1 Q3KQU3-4;Q3KQU3;Q3KQU3-2;C9JIR3;E9PLH3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 2 0 S(0.012)S(0.016)QPS(0.345)PT(0.618)AVPAS(0.49)DS(0.383)PPT(0.135)KQEVK 70.907 0.013995 36330000 3812.7 3457.9 2892.9 3244.5 3534 3521.6 3822.9 3598.1 3759.1 3528.7 TRUE FALSE FALSE 4213.737279 3569.938229 3287.129346 3307.301989 3263.225683 3221.539868 3392.737231 3506.065812 3732.940117 3680.839526 1.144776144 0.969870651 0.89303794 0.898518386 0.886543861 0.875218777 0.921729189 0.952517975 1.01415454 1 11.84581914 -7.025356012 4.804379085 1.06833135 0.904278659 0.712224655 0.041880738 0.090360446 5.375715164 0.009425789 0.011924886 9.43E-08 7.025356012 -0.164052691 SSQPSPT(ph)AVPASDSPPTKQEVK ddPTM_HeLa_SAHA_4h_R1 1 SSQPSPTAVPASDSPPTKQEVK 22 1 Q3KQU3-4;Q3KQU3;Q3KQU3-2;C9JIR3;E9PLH3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 S(0.014)S(0.014)QPS(0.232)PT(0.735)AVPAS(0.005)DSPPTKQEVK 72.585 0.0016516 0 1040.3 1015.4 706.31 874.79 847.53 1080.5 1032.4 1107.5 707 818.45 TRUE FALSE FALSE 1149.723527 1048.299626 802.5622485 891.7228254 782.5924345 988.4353213 916.2316349 1079.171754 702.0799294 853.7373849 1.346694601 1.227894719 0.94005752 1.044493121 0.91666647 1.157774438 1.073200789 1.264055871 0.822360531 1 9.737648546 -6.786381206 24.99654259 1.173104671 1.062767165 0 0.165079239 411.9226964 412824.8092 0.025659373 0.033730699 1.64E-07 6.786381206 -0.110337506 SSQPSPTAVPASDS(ph)PPTKQEVK ddPTM_HeLa_SAHA_4h_R1 1 SSQPSPTAVPASDSPPTKQEVK 22 1 Q3KQU3-4;Q3KQU3;Q3KQU3-2;C9JIR3;E9PLH3 Q3KQU3-4 MAP7D1 MAP7 domain-containing protein 1 1 0 SSQPS(0.007)PT(0.019)AVPAS(0.02)DS(0.95)PPT(0.004)KQEVK 81.904 0.00063772 0 1218.9 1489.7 969.03 1097 1187 1248.8 1126.7 1387.9 1541.8 1335.8 TRUE FALSE FALSE 1347.109495 1537.967257 1101.084362 1118.234021 1096.052316 1142.395214 999.9207507 1352.399528 1531.070488 1393.392875 0.966783682 1.103757084 0.790218166 0.802526008 0.786606804 0.819865836 0.717615806 0.970580194 1.098807462 1 10.44438638 -6.742245623 24.9996099 0.992834441 0.808584179 0.657022644 0.077308722 107.8809619 140513.1961 0.010017135 0.014153764 1.81E-07 6.742245623 -0.184250262 SSQQPS(ph)TPQQAPPGQPQQGTFVAHK ddPTM_HeLa_SAHA_4h_R1 1 SSQQPSTPQQAPPGQPQQGTFVAHK 25 0 E7ERS3;Q86VM9;H3BRH3 E7ERS3 ZC3H18 Zinc finger CCCH domain-containing protein 18 1 0 S(0.01)S(0.01)QQPS(0.578)T(0.403)PQQAPPGQPQQGTFVAHK 127.92 2.86E-08 7253600 2910.6 2742.2 2312.4 3268.4 3568 2972.1 2831.3 3269.5 3103 2680.4 TRUE FALSE FALSE 3216.750262 2831.049079 2627.52183 3331.664608 3294.620611 2718.860359 2512.714672 3185.870924 3081.40597 2795.965162 1.150497262 1.012548053 0.939754853 1.191597325 1.178348234 0.972422832 0.898693126 1.139453012 1.102090259 1 11.44913067 SSQQPST(ph)PQQAPPGQPQQGTFVAHK ddPTM_HeLa_SAHA_4h_R1 1 SSQQPSTPQQAPPGQPQQGTFVAHK 25 0 E7ERS3;Q86VM9;H3BRH3 E7ERS3 ZC3H18 Zinc finger CCCH domain-containing protein 18 1 0 S(0.016)S(0.016)QQPS(0.26)T(0.708)PQQAPPGQPQQGTFVAHK 122 1.29E-07 8556100 2288.5 1844.3 1732.9 2089.1 2234.9 2367.4 2360.8 2267.6 2690.2 2091.5 TRUE FALSE FALSE 2529.21493 1904.05653 1969.050587 2129.537551 2063.662445 2165.684201 2095.156571 2209.598075 2671.478679 2181.674801 1.159299695 0.87274993 0.902540831 0.97610219 0.945907449 0.992670494 0.960343205 1.012799009 1.224508198 1 11.09122035 -7.260234555 24.99999032 1.075224855 0.952573212 0.532738763 0.07055582 80.09867084 1662039.972 0.01173642 0.013950092 5.49E-08 7.260234555 -0.122651643 SSQQQTQPQK(ac)QR ddPTM_HeLa_SAHA_4h_R1 1 SSQQQTQPQKQR 12 1 F5H3E1;F5H2E6;A0A0C4DGG8;Q8IX12-2;Q8IX12;F5H7M9 F5H3E1 CCAR1 Cell division cycle and apoptosis regulator protein 1 0 1 SSQQQTQPQK(1)QR 111.5 0.005223 114630 0 0 0 72.296 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 73.69539362 0 0 0 0 0 0 0 SSQS(ph)SSQQFSGIGR ddPTM_HeLa_SAHA_4h_R1 1 SSQSSSQQFSGIGR 14 0 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 1 0 S(0.047)S(0.045)QS(0.906)S(0.002)SQQFSGIGR 166.79 6.16E-06 5021800 819.13 873.75 902.74 866.87 914.26 1140.1 1187.6 1115.9 1202.5 1003 TRUE FALSE FALSE 905.2898517 902.0600733 1025.760706 883.6495224 844.2095963 1042.957066 1053.968122 1087.356894 1194.131705 1046.244239 0.86527583 0.862188808 0.980421844 0.844592008 0.806895336 0.996858121 1.007382486 1.039295466 1.141350806 1 10.03100396 -5.023407669 24.49673083 0.917559534 1.018034349 0.150514219 0.092068702 559.1264411 585141.7407 0.010252272 0.02633898 9.48E-06 5.023407669 0.100474814 SSQSEGIFLGS(ph)ESDEDSVR ddPTM_HeLa_SAHA_4h_R1 2 SSQSEGIFLGSESDEDSVR 19 0 Q9BYW2;C9JG86;Q9BYW2-3;Q9BYW2-2;H7BZ93;H7BXT4 Q9BYW2 SETD2 Histone-lysine N-methyltransferase SETD2 1 0 SSQSEGIFLGS(0.789)ES(0.202)DEDS(0.009)VR;SSQSEGIFLGS(0.987)ES(0.013)DEDSVR ; 195.25 2.34E-14 1783300 724.82 765.22 672.72 729.28 684.67 847.69 636.47 660.97 856.83 785.3 TRUE FALSE FALSE 801.0598932 790.0136301 764.3947782 743.396269 632.2107325 775.462043 564.8527205 644.0633445 850.8672503 819.1581262 0.977906301 0.964421404 0.933146793 0.907512537 0.771781067 0.946657328 0.689552728 0.786250327 1.038709406 1 9.677998159 -5.427266182 0.483714414 0.99786125 0.70230861 0.68877171 0.060197533 0.685643611 0.211472286 0.013219108 0.095907914 3.74E-06 5.427266182 -0.295552641 SSQSEGIFLGSES(ph)DEDSVR ddPTM_HeLa_SAHA_4h_R1 1 SSQSEGIFLGSESDEDSVR 19 0 Q9BYW2;C9JG86;Q9BYW2-3;Q9BYW2-2;H7BZ93;H7BXT4 Q9BYW2 SETD2 Histone-lysine N-methyltransferase SETD2 1 0 SSQSEGIFLGS(0.063)ES(0.937)DEDSVR 146.6 8.40E-05 7076500 252.26 356.3 374.35 439.07 431.95 503.72 289.59 463.81 403.52 337.36 TRUE FALSE FALSE 278.7938642 367.8443538 425.3644685 447.5688348 398.8540843 460.8002221 257.004571 451.9464118 400.7118715 351.9052406 0.792241297 1.045293765 1.208747184 1.271844756 1.133413312 1.309444046 0.730323227 1.284284403 1.138692538 1 8.459043189 -7.025073477 5.606945795 0.902178051 1.147150523 0.134859435 0.177806106 0.160667919 15.62119852 0.027062992 0.034072789 9.44E-08 7.025073477 0.244972472 SSS(ph)ALDSPAGPR ddPTM_HeLa_SAHA_4h_R1 2 SSSALDSPAGPR 12 0 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 S(0.104)S(0.104)S(0.792)ALDSPAGPR;S(0.012)S(0.012)S(0.976)ALDSPAGPR ; 140.45 0.00065675 7691200 2338.8 2418.59 2466.6 2777.7 3003 2712.31 2699.6 3051.9 3089.3 2771.1 TRUE FALSE FALSE 2584.805715 2496.953903 2802.735402 2831.4664 2772.910789 2481.205929 2395.833903 2973.836817 3067.80131 2890.575682 0.894218315 0.863825818 0.969611493 0.979551035 0.959293613 0.858377777 0.828843167 1.028804343 1.061311533 1 11.49714113 -9.380592678 1.102878922 1.000045574 0.918357077 0.286472396 0.063065293 0.650706119 1.414916653 0.040780957 0.010472156 4.16E-10 9.380592678 -0.081688497 SSS(ph)APNVHINTIEPVNIDDLIR ddPTM_HeLa_SAHA_4h_R1 3 SSSAPNVHINTIEPVNIDDLIR 22 0 H7C560;A0A2U3TZI2;A0A2R8Y8E0;P15056;A0A2R8Y679;A0A2R8Y492;A0A2R8YDP5 H7C560 BRAF Serine/threonine-protein kinase B-raf 1 0 S(0.099)S(0.099)S(0.803)APNVHINTIEPVNIDDLIR;S(0.18)S(0.18)S(0.639)APNVHINTIEPVNIDDLIR;S(0.045)S(0.045)S(0.91)APNVHINTIEPVNIDDLIR ;; 130.14 2.35E-06 126946000 3421.29 3863.98 3381.54 3903.39 5436.32 6292.48 4609.87 4764.1 4935.13 4837.44 TRUE FALSE FALSE 3781.15698 3989.175487 3842.358661 3978.945758 5019.790336 5756.325303 4091.155295 4642.24122 4900.786029 5046.005712 0.749336643 0.790561033 0.761465381 0.78853374 0.994804727 1.140768686 0.810771039 0.919983346 0.971220864 1 12.30092612 -3.906381811 18.00278157 0.879930007 2.861672234 0 0.124978154 1105.477097 220991.5057 0.019215138 3519.034282 0.000124056 3.906381811 1.981742228 SSS(ph)ASSPEMK ddPTM_HeLa_SAHA_4h_R1 4 SSSASSPEMK 10 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.005)S(0.015)S(0.98)ASSPEMK;SS(0.002)S(0.908)AS(0.045)S(0.045)PEMK;S(0.003)S(0.004)S(0.87)AS(0.12)S(0.003)PEMK;SS(0.002)S(0.993)AS(0.005)SPEMK ;;; 115.57 0.006979 23661700 14332 15654 11225.7 16824.9 20175.6 27877.9 22672.9 19115.5 20432.4 24401.8 TRUE FALSE FALSE 15839.50552 16161.19987 12755.47994 17150.57027 18629.74989 25502.54608 20121.68562 18626.55319 20290.20926 25453.88102 0.622282532 0.634920854 0.501121221 0.673789991 0.731902136 1.001911892 0.790515427 0.731776548 0.797136172 1 14.63559802 -4.250715033 19.83882069 0.779120265 0.731776115 0 0.153257112 700.1986972 1294760.387 0.026862997 0.417805285 5.61E-05 4.250715033 -0.04734415 SSS(ph)DPPAVHPPLPPLR ddPTM_HeLa_SAHA_4h_R1 1 SSSDPPAVHPPLPPLR 16 0 O43150 O43150 ASAP2 "Arf-GAP with SH3 domain, ANK repeat and PH domain-containing protein 2" 1 0 S(0.171)S(0.023)S(0.806)DPPAVHPPLPPLR 122.46 0.00045531 6167500 852.8 1083.6 740.63 989.4 895.9 1197.6 1229.7 1047.4 1155.9 872.24 TRUE FALSE FALSE 942.5014168 1118.709351 841.5591994 1008.551268 827.2563355 1095.557742 1091.33092 1020.609025 1147.855998 909.846535 1.035890538 1.229558291 0.924946315 1.108485034 0.909226231 1.204112672 1.199467028 1.121737552 1.261592976 1 9.829479414 -1 0.229143174 1.004989995 1.992281484 0 0.12739245 53.94299667 0.655259389 0.063772552 20.15803316 0.1 1 0.987291488 SSS(ph)EDAESLAPR ddPTM_HeLa_SAHA_4h_R1 2 SSSEDAESLAPR 12 0 Q4G0J3;Q4G0J3-3;H0YA82 Q4G0J3 LARP7 La-related protein 7 1 0 S(0.028)S(0.028)S(0.943)EDAESLAPR;S(0.004)S(0.004)S(0.993)EDAESLAPR ; 151.16 0.00034475 102558000 1612.2 1979.6 1454.75 2248.1 2282.38 2500.2 2299.1 2145.72 2627.9 1844.88 TRUE FALSE FALSE 1781.778593 2043.740339 1652.995754 2291.615226 2107.504537 2287.168894 2040.399217 2090.835589 2609.61223 1924.421805 0.925877366 1.062002277 0.85895709 1.19080714 1.095136488 1.188496663 1.060266108 1.086474693 1.356050021 1 10.91020934 -6.252719768 24.99198564 0.965697112 1.122635696 0 0.138110329 319.3300908 915256.775 0.00900976 0.014791591 5.59E-07 6.252719768 0.156938584 SSS(ph)EITLSECDAEDAGEPR ddPTM_HeLa_SAHA_4h_R1 2 SSSEITLSECDAEDAGEPR 19 0 O60292 O60292 SIPA1L3 Signal-induced proliferation-associated 1-like protein 3 1 0 S(0.005)S(0.005)S(0.988)EIT(0.002)LSECDAEDAGEPR;SS(0.002)S(0.998)EITLSECDAEDAGEPR ; 294.98 3.00E-91 23797000 1609.41 1921.8 1603.51 1880.11 2285.02 1772.15 2146.23 2241.43 1633.86 1995.14 TRUE FALSE FALSE 1778.695128 1984.067581 1822.027992 1916.502248 2109.942261 1621.15285 1904.730552 2184.097466 1622.489835 2081.160249 0.854665146 0.953346856 0.875486639 0.920881632 1.013829791 0.778965892 0.915225318 1.049461456 0.779608315 1 11.02317234 -9.597203192 1.403128537 0.999834717 0.909311562 0 0.100217681 0.591052814 2.093943789 0.0498733 0.011638452 2.53E-10 9.597203192 -0.090523155 SSS(ph)ESYTQSFQSR ddPTM_HeLa_SAHA_4h_R1 2 SSSESYTQSFQSR 13 0 Q9BTU6;E9PAM4 Q9BTU6 PI4K2A Phosphatidylinositol 4-kinase type 2-alpha 1 0 SS(0.006)S(0.994)ESYTQSFQSR;S(0.002)SS(0.996)ES(0.001)YTQSFQSR ; 212.83 5.81E-16 37539000 1521.95 1899.2 1961.98 1162.82 2322.76 2560.9 2638.1 1762.98 1246.46 1600.22 TRUE FALSE FALSE 1682.035684 1960.735326 2229.348417 1185.328063 2144.790631 2342.696913 2341.254045 1717.885524 1237.785783 1669.213315 1.007681684 1.174646349 1.335568316 0.710111794 1.284911048 1.403473655 1.402609255 1.029158771 0.741538407 1 10.70495262 -6.109087541 0.538760928 0.998934846 1.298644081 0.233257476 0.211275641 1.18917547 0.628220257 0.048836541 0.160877724 7.78E-07 6.109087541 0.299709234 SSS(ph)ETILSSLAGSDIVK ddPTM_HeLa_SAHA_4h_R1 2 SSSETILSSLAGSDIVK 17 0 Q01850 Q01850 CDR2 Cerebellar degeneration-related protein 2 1 0 S(0.084)S(0.023)S(0.887)ET(0.006)ILS(0.001)SLAGSDIVK;SS(0.001)S(0.999)ETILSSLAGSDIVK ; 361.39 3.93E-182 94938000 1880.23 2428.9 2164.2 2627.7 3358.9 3107 2990.8 2638.1 2156.8 1949.74 TRUE FALSE FALSE 2078.001218 2507.597954 2459.125905 2678.562933 3101.541808 2842.26612 2654.267313 2570.621222 2141.790653 2033.802833 1.021731893 1.232960203 1.209126994 1.31702193 1.524996306 1.397513109 1.305076023 1.263948098 1.053096504 1 10.98996411 -6.912529932 1.200357916 1.00436563 1.367720972 0.780762524 0.07512035 0.128852812 0.36697559 0.014588465 0.020403427 1.22E-07 6.912529932 0.363355342 SSS(ph)FGSVSTSSNSSK ddPTM_HeLa_SAHA_4h_R1 3 SSSFGSVSTSSNSSK 15 0 E5RG30;E5RJ65;E5RHF1;E5RGS8;E5RH07;E5RGQ6;A0A0C4DGW2;P57768-2;P57768 E5RG30 SNX16 Sorting nexin-16 1 0 S(0.003)S(0.004)S(0.992)FGSVSTSSNSSK;SS(0.002)S(0.998)FGSVSTSSNSSK;SS(0.003)S(0.997)FGSVSTSSNSSK ;; 202.32 1.72E-12 18387100 3218.58 2932.61 3099.03 3195.43 3406.01 3531.93 3740.38 3722.5 3629.6 3089.49 TRUE FALSE FALSE 3557.125012 3027.628488 3521.349669 3257.282168 3145.04225 3230.989694 3319.502598 3627.28384 3604.341318 3222.693033 1.103774072 0.939471571 1.092673001 1.010732991 0.975905001 1.002574449 1.030039958 1.12554432 1.118425268 1 11.65405106 SSS(ph)FSLPSR ddPTM_HeLa_SAHA_4h_R1 2 SSSFSLPSR 9 0 Q14153-2;Q14153 Q14153-2 FAM53B Protein FAM53B 1 0 S(0.003)S(0.002)S(0.606)FS(0.39)LPSR;SS(0.001)S(0.92)FS(0.078)LPSR ; 128.03 0.0023634 27194000 2519.7 2742.6 2504.2 2620 2717.8 2833.4 2966 2776.1 2802.3 2386.3 TRUE FALSE FALSE 2784.733607 2831.462039 2845.459335 2670.713889 2509.562751 2591.97838 2632.257874 2705.091382 2782.798566 2489.185071 1.11873305 1.137505633 1.143128877 1.072927007 1.008186486 1.041295969 1.057477768 1.086737749 1.117955671 1 11.28145778 -4.245564778 21.14471927 1.065363403 1.086737866 0 0.05010633 1909.876306 2543537.463 0.008339245 0.214687835 5.68E-05 4.245564778 0.021374463 SSS(ph)KDSRPSQAAGDNQGDEAK ddPTM_HeLa_SAHA_4h_R1 2 SSSKDSRPSQAAGDNQGDEAK 21 2 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 S(0.18)S(0.18)S(0.636)KDS(0.004)RPSQAAGDNQGDEAK;S(0.192)S(0.192)S(0.61)KDS(0.004)RPS(0.001)QAAGDNQGDEAK ; 68.959 0.0036789 30795100 244.078 344.27 513.93 309.12 561.17 387.52 412.59 334.81 558.76 596.09 TRUE FALSE FALSE 269.7512439 355.4245739 583.965704 315.1034646 518.1732758 354.5011159 366.1642873 326.246045 554.8715437 621.7903571 0.433829893 0.571614805 0.939168157 0.506768014 0.833356886 0.570129646 0.588887047 0.524688171 0.892377209 1 9.280284433 -9.500891386 1.241832205 1.000503909 0.608748316 0.429249753 0.148172724 0.316944213 0.8729917 0.10532639 0.025401815 3.16E-10 9.500891386 -0.391755593 SSS(ph)KESLVR ddPTM_HeLa_SAHA_4h_R1 2 SSSKESLVR 9 1 Q13439-3;Q13439-4;Q13439;Q13439-5;E7EVX2;Q86W71 Q13439-3 GOLGA4 Golgin subfamily A member 4 1 0 S(0.001)S(0.027)S(0.93)KES(0.042)LVR;SS(0.003)S(0.98)KES(0.017)LVR ; 140.63 0.004523 44663000 7166.8 6408.7 5558.2 6775.5 7425.1 7951.4 7118 7276.6 6446 6381.6 TRUE FALSE FALSE 7920.636906 6616.346085 6315.64255 6906.6496 6856.190442 7273.895987 6317.063906 7090.475108 6401.141761 6656.742007 1.18986689 0.993931578 0.948758799 1.037542028 1.02996187 1.092711116 0.94897232 1.065156964 0.961602801 1 12.70060054 SSS(ph)LDMNR ddPTM_HeLa_SAHA_4h_R1 3 SSSLDMNR 8 0 E9PMG1;H0YDT0;Q96D71-4;Q96D71-3;Q96D71 E9PMG1 REPS1 RalBP1-associated Eps domain-containing protein 1 1 0 S(0.028)S(0.028)S(0.944)LDMNR;SSS(1)LDMNR;S(0.007)S(0.373)S(0.62)LDMNR ;; 175.91 8.18E-07 231323000 8967.4 9552.2 9265.5 8189.21 10079.6 10779.4 10623.3 9743.5 9040.1 8654.6 TRUE FALSE FALSE 9910.632276 9861.697547 10528.15409 8347.724001 9307.303226 9860.934477 9427.938325 9494.275378 8977.189208 9027.742161 1.097797445 1.092376961 1.166200131 0.924674614 1.030966886 1.092292436 1.044329596 1.05167773 0.994400266 1 13.1401495 SSS(ph)LESLQTAVAEVR ddPTM_HeLa_SAHA_4h_R1 2 SSSLESLQTAVAEVR 15 0 A0A087WZG6;A0A087X1S9;Q8TEW8-5;Q8TEW8-2;Q8TEW8;R4GN62 A0A087WZG6 PARD3B Partitioning defective 3 homolog B 1 0 S(0.006)S(0.006)S(0.936)LES(0.051)LQTAVAEVR;S(0.349)S(0.013)S(0.638)LES(0.001)LQTAVAEVR ; 179.9 2.45E-07 8906700 1562.42 1508.66 1317.05 1516.19 1804.21 1841.03 1704.44 1744.95 1888.24 1596.67 TRUE FALSE FALSE 1726.762504 1557.541574 1496.530715 1545.53805 1665.97182 1684.163887 1512.651925 1700.316706 1875.099584 1665.510258 1.036776865 0.93517381 0.898541878 0.927966695 1.000277129 1.011199948 0.90822132 1.020898369 1.12584091 1 10.70174852 -7.262175547 24.99992759 1.017366853 0.955886324 0.353438342 0.05335779 60.19925148 2044333.246 0.007076245 0.008363003 5.47E-08 7.262175547 -0.06148053 SSS(ph)LGNLK ddPTM_HeLa_SAHA_4h_R1 2 SSSLGNLK 8 0 Q86W92-3;Q86W92-4;Q86W92;F5GZP6;H0YGH8;Q86W92-2 Q86W92-3;Q86W92-2 PPFIBP1 Liprin-beta-1 1 0 S(0.022)S(0.215)S(0.762)LGNLK;S(0.185)S(0.185)S(0.629)LGNLK ; 107.55 0.0072627 41978000 6544 7384.9 5459.7 7036.7 8604.8 9354.7 8318.2 8048.7 10545.6 8152.8 TRUE FALSE FALSE 7232.327945 7624.175605 6203.719483 7172.905504 7945.502083 8557.626932 7382.214244 7842.825908 10472.21231 8504.307107 0.850431182 0.896507559 0.72947971 0.843443847 0.934291528 1.006269744 0.868055933 0.922218096 1.231401004 1 13.05397798 -9.328495897 1.041204669 1.000285662 0.879262474 0.361044491 0.101298713 0.55822199 1.079053784 0.049613154 0.012962447 4.69E-10 9.328495897 -0.121023187 SSS(ph)LGNLKK ddPTM_HeLa_SAHA_4h_R1 1 SSSLGNLKK 9 1 Q86W92-3;Q86W92-4;Q86W92;F5GZP6;H0YGH8;Q86W92-2 Q86W92-3;Q86W92-2 PPFIBP1 Liprin-beta-1 1 0 S(0.016)S(0.117)S(0.867)LGNLKK 81.338 0.0077516 0 1084.2 902.99 1089.5 1195.2 1259.7 1231.4 1380.6 1346.9 1214.6 1203.8 TRUE FALSE FALSE 1198.24113 932.2474685 1237.971386 1218.334824 1163.182058 1126.477792 1225.251254 1312.448248 1206.1475 1255.701709 0.954240264 0.742411563 0.985880147 0.970242228 0.926320359 0.897090276 0.975750248 1.045191098 0.960536639 1 10.29427808 -8.250630275 1.618531628 0.989266874 0.934652148 0.044746098 0.075911232 0.627213768 3.304389759 0.01842413 0.014422241 5.62E-09 8.250630275 -0.054614726 SSS(ph)LGSTPHEELER ddPTM_HeLa_SAHA_4h_R1 1 SSSLGSTPHEELER 14 0 B1AKL4;Q9NRA8;Q9NRA8-3;Q9NRA8-2 B1AKL4 EIF4ENIF1 Eukaryotic translation initiation factor 4E transporter 1 0 S(0.247)S(0.247)S(0.443)LGS(0.062)T(0.001)PHEELER 98.408 0.0042839 4472700 508.53 674.74 549.93 601.2 689.47 734.98 668.25 671.47 696.23 645.05 TRUE FALSE FALSE 562.0195186 696.6020187 624.8715965 612.8370953 636.6429576 672.3555691 593.0567513 654.2947697 691.3848787 672.8612623 0.835268056 1.035283286 0.928678216 0.910792655 0.9461727 0.999248444 0.881395296 0.972406655 1.027529622 1 9.394165255 -7.259905699 24.98666451 0.922209918 0.949546882 0 0.064528589 484.0394584 7886017.518 0.011933765 0.014219246 5.50E-08 7.259905699 0.027336965 SSS(ph)LIQLT(ph)SQNSSPNQQR ddPTM_HeLa_SAHA_4h_R1 1 SSSLIQLTSQNSSPNQQR 18 0 H7C419;O95639 H7C419 CPSF4 Cleavage and polyadenylation specificity factor subunit 4 2 0 S(0.011)S(0.014)S(0.976)LIQLT(0.433)S(0.32)QNS(0.189)S(0.058)PNQQR 131.18 4.08E-06 0 372.63 500.71 412.17 290.21 398.69 453.99 694.34 381.01 481.83 478.19 TRUE FALSE FALSE 411.8249331 516.9333325 468.3383811 295.8274342 368.1424583 415.3074979 616.2110358 371.2643159 478.4769058 498.8071111 0.825619611 1.03633914 0.938916809 0.593069801 0.73804573 0.832601398 1.235369388 0.744304377 0.959242351 1 8.962338222 -9.485320592 0.945771334 1.009326429 0.868490171 0.064722363 0.167479843 1.55708826 2.205842196 0.165072043 0.030836876 3.27E-10 9.485320592 -0.140836257 SSS(ph)LIQLTS(ph)QNSSPNQQR ddPTM_HeLa_SAHA_4h_R1 1 SSSLIQLTSQNSSPNQQR 18 0 H7C419;O95639 H7C419 CPSF4 Cleavage and polyadenylation specificity factor subunit 4 2 0 S(0.012)S(0.028)S(0.96)LIQLT(0.343)S(0.533)QNS(0.108)S(0.015)PNQQR 121.51 0.0052991 4100400 409.1 500.04 462.38 404.03 352.95 528.99 677.73 435.98 447.95 509.54 TRUE FALSE FALSE 452.131015 516.2416241 525.3907384 411.8505849 325.9070473 483.917076 601.4700367 424.8282629 444.8326795 531.508763 0.850655806 0.971275847 0.988489325 0.774870733 0.613173422 0.910459262 1.131627696 0.799287411 0.836924451 1 9.053949668 -9.501448318 0.770795447 1.017191103 0.879627169 0 0.141350445 1.937086236 1.616730965 0.180270087 0.026928003 3.15E-10 9.501448318 -0.137563934 SSS(ph)LIQLTSQNSSPNQQR ddPTM_HeLa_SAHA_4h_R1 3 SSSLIQLTSQNSSPNQQR 18 0 H7C419;O95639 H7C419 CPSF4 Cleavage and polyadenylation specificity factor subunit 4 1 0 S(0.087)S(0.087)S(0.827)LIQLTSQNSSPNQQR;SS(0.019)S(0.981)LIQLTSQNSSPNQQR;S(0.006)SS(0.993)LIQLTSQNSSPNQQR ;; 331.4 1.82E-121 38363000 2479 2924.15 2654.17 2052.38 3078.94 3352.78 3272.26 2280.68 2304.15 2688.14 TRUE FALSE FALSE 2739.752594 3018.894379 3015.866465 2092.106783 2843.032282 3067.104282 2904.056693 2222.343508 2288.115233 2804.038871 0.977073686 1.076623584 1.075543744 0.746104772 1.013906159 1.093816606 1.035669199 0.792550892 0.816006959 1 11.45329063 SSS(ph)MAAGLER ddPTM_HeLa_SAHA_4h_R1 2 SSSMAAGLER 10 0 B4DWA1;I3L4C2;Q9UQB8-3;Q9UQB8-5;Q9UQB8-4;Q9UQB8-2;Q9UQB8;I3L0Y9;I3L3C6;Q9UQB8-6 B4DWA1 BAIAP2 Brain-specific angiogenesis inhibitor 1-associated protein 2 1 0 S(0.012)S(0.012)S(0.977)MAAGLER;SS(0.003)S(0.997)MAAGLER ; 174.57 6.23E-05 146483000 4881 3903.7 4065.3 4956.2 5163.6 4309.4 5320.8 5309.1 3028.8 3557.1 TRUE FALSE FALSE 5394.405975 4030.182441 4619.297913 5052.134418 4767.966084 3942.214876 4722.08958 5173.300909 3007.722334 3710.463989 1.45383596 1.086166704 1.24493808 1.361591012 1.285005352 1.062458735 1.272641264 1.39424636 0.810605451 1 11.85738389 -9.588922181 1.378578245 0.999994879 1.286263825 0.510888848 0.133836672 0.34058735 1.160951135 0.089928662 0.020898863 2.58E-10 9.588922181 0.286268946 SSS(ph)MSSIDLVSASDDVHR ddPTM_HeLa_SAHA_4h_R1 3 SSSMSSIDLVSASDDVHR 18 0 A0A0A0MRE4;A0A2R8YFA1;A0A2U3TZL3;Q9Y5P4;Q9Y5P4-3 A0A0A0MRE4 COL4A3BP Collagen type IV alpha-3-binding protein 1 0 S(0.121)S(0.121)S(0.689)MS(0.049)S(0.02)IDLVSASDDVHR;S(0.101)S(0.101)S(0.653)MS(0.144)SIDLVSASDDVHR;S(0.002)S(0.002)S(0.994)MS(0.001)SIDLVSASDDVHR ;; 219.97 5.64E-22 14037900 1854.44 2355.33 1550.12 2393.06 2348.48 3087.82 2671.11 2068.97 2019.41 2340.52 TRUE FALSE FALSE 2049.498508 2431.644237 1761.362281 2439.381137 2168.53997 2824.720364 2370.549673 2016.048743 2005.356761 2441.431271 0.839465985 0.995991272 0.721446596 0.999160273 0.888224868 1.156993603 0.970967195 0.825765102 0.821385711 1 11.25351145 SSS(ph)MSSLTGAYTSGIPSSSR ddPTM_HeLa_SAHA_4h_R1 2 SSSMSSLTGAYTSGIPSSSR 20 0 A8CG34-2;A8CG34 A8CG34-2 POM121C Nuclear envelope pore membrane protein POM 121C 1 0 SS(0.003)S(0.997)MSSLTGAYTSGIPSSSR;S(0.006)S(0.126)S(0.866)MS(0.001)SLTGAYTSGIPSSSR ; 159.4 2.67E-06 7177300 774.79 869.32 577.91 870.51 777.85 786.92 680 1005.87 779.99 822.32 TRUE FALSE FALSE 856.2859671 897.4865384 656.6645652 887.3599798 718.251301 719.8699889 603.4846103 980.1413019 774.5619861 857.7742395 0.99826496 1.046296912 0.765544749 1.03449129 0.837343054 0.839230133 0.703547137 1.14265649 0.902990496 1 9.74445418 -6.78504019 24.99879018 1.002691506 0.881047684 0.129471691 0.123433746 260.2845225 275701.3458 0.017448246 0.022938464 1.64E-07 6.78504019 -0.121643822 SSS(ph)MSYVDGFIGTWPK ddPTM_HeLa_SAHA_4h_R1 1 SSSMSYVDGFIGTWPK 16 0 Q08AD1-2;Q08AD1-3;Q08AD1 Q08AD1-2 CAMSAP2 Calmodulin-regulated spectrin-associated protein 2 1 0 S(0.038)S(0.069)S(0.823)MS(0.069)YVDGFIGTWPK 233.28 9.21E-28 111920000 1949.5 2775.5 2123.8 1718.8 2612.5 3418.3 2819.2 1932.6 1915.8 2413.5 TRUE FALSE FALSE 2154.557355 2865.428021 2413.220404 1752.069859 2412.330814 3127.041609 2501.976196 1883.16689 1902.467792 2517.557796 0.855812469 1.138177652 0.958556108 0.695940273 0.958202754 1.242093275 0.993810827 0.74801337 0.755679887 1 11.29780918 -5.511157062 24.92372951 0.930670471 1.012154928 0.04349508 0.162156106 1398.957006 2974588.013 0.022207278 0.047199795 3.08E-06 5.511157062 0.081484457 SSS(ph)PAGETEGDREPQAR ddPTM_HeLa_SAHA_4h_R1 1 SSSPAGETEGDREPQAR 17 1 Q9BTC0 Q9BTC0 DIDO1 Death-inducer obliterator 1 1 0 S(0.004)S(0.004)S(0.988)PAGET(0.003)EGDREPQAR 127.18 0.0012275 4528300 422.98 450.57 375.72 572.97 573.28 639.65 658.56 580.6 904.41 672.94 TRUE FALSE FALSE 467.4709771 465.1687636 426.9211649 584.0606629 529.3554103 585.1482214 584.4570956 565.7490927 898.1161372 701.9537367 0.665956961 0.662677238 0.608189889 0.83205008 0.754117234 0.833599411 0.832614836 0.805963503 1.279452035 1 9.45523214 -9.38435252 1.122314419 0.999240111 0.744044167 0.574579048 0.120499036 0.29585367 0.669645041 0.0583687 0.015166378 4.13E-10 9.38435252 -0.255195944 SSS(ph)PAPADIAQTVQEDLR ddPTM_HeLa_SAHA_4h_R1 25 SSSPAPADIAQTVQEDLR 18 0 Q13283 Q13283 G3BP1 Ras GTPase-activating protein-binding protein 1 1 0 S(0.019)S(0.019)S(0.962)PAPADIAQTVQEDLR;S(0.001)S(0.001)S(0.998)PAPADIAQTVQEDLR;SS(0.01)S(0.99)PAPADIAQTVQEDLR;SS(0.003)S(0.997)PAPADIAQTVQEDLR;S(0.001)S(0.026)S(0.973)PAPADIAQTVQEDLR;SS(0.027)S(0.973)PAPADIAQTVQEDLR;S(0.066)S(0.066)S(0.868)PAPADIAQTVQEDLR;S(0.008)S(0.008)S(0.984)PAPADIAQTVQEDLR;SS(0.002)S(0.998)PAPADIAQTVQEDLR;S(0.005)S(0.005)S(0.991)PAPADIAQTVQEDLR;S(0.005)S(0.005)S(0.99)PAPADIAQTVQEDLR;SS(0.007)S(0.993)PAPADIAQTVQEDLR;SSS(1)PAPADIAQTVQEDLR;S(0.018)S(0.018)S(0.963)PAPADIAQTVQEDLR;S(0.001)S(0.001)S(0.997)PAPADIAQTVQEDLR;S(0.001)S(0.031)S(0.968)PAPADIAQTVQEDLR;S(0.007)S(0.007)S(0.986)PAPADIAQTVQEDLR;S(0.005)S(0.104)S(0.891)PAPADIAQTVQEDLR;S(0.003)S(0.003)S(0.994)PAPADIAQTVQEDLR;S(0.038)S(0.017)S(0.946)PAPADIAQTVQEDLR;S(0.046)S(0.046)S(0.908)PAPADIAQTVQEDLR;S(0.024)S(0.024)S(0.952)PAPADIAQTVQEDLR;SS(0.001)S(0.999)PAPADIAQTVQEDLR;SSS(1)PAPADIAQTVQEDLR;S(0.184)S(0.184)S(0.632)PAPADIAQTVQEDLR ;;;;;;;;;;;;;;;;;;;;;;;; 338.36 1.34E-139 20593257700 19747.95 21875.97 19234.57 21579.29 21777.758 23900.04 22001.874 21913.31 21299.04 20492.709 TRUE FALSE FALSE 21825.12999 22584.76578 21855.75703 21996.98836 20109.15089 21863.62213 19526.16523 21352.79926 21150.81825 21376.24997 1.020999007 1.056535445 1.022431767 1.029038694 0.940723977 1.022799703 0.913451389 0.998902955 0.989454103 1 14.38372116 -5.773110648 24.99933458 1.016270149 0.968848938 0.367977668 0.032407268 177.2154564 379587.8267 0.004398948 0.008022036 1.69E-06 5.773110648 -0.047421211 SSS(ph)PATEQSWMENDFDELR ddPTM_HeLa_SAHA_4h_R1 1 SSSPATEQSWMENDFDELR 19 0 Q9UN81 Q9UN81 L1RE1 LINE-1 retrotransposable element ORF1 protein 1 0 S(0.012)S(0.012)S(0.906)PAT(0.07)EQSWMENDFDELR 121.24 0.00033158 2555200 330.31 331.77 393.55 404.5 447.25 376.42 402.27 472.96 660.75 336.23 TRUE FALSE FALSE 365.0535213 342.5195657 447.1809445 412.3296824 412.9818016 344.3468983 357.0055209 460.862368 656.151787 350.7265208 1.040849493 0.97660013 1.275013203 1.175644435 1.177503773 0.981810265 1.017902838 1.314022011 1.870835959 1 8.454202716 -6.792116312 24.99837749 1.016627269 1.144479708 0 0.286786746 191.0079869 155650.1194 0.015530427 0.020412158 1.61E-07 6.792116312 0.127852439 SSS(ph)PATEQSWMENDFDELREEGFR ddPTM_HeLa_SAHA_4h_R1 1 SSSPATEQSWMENDFDELREEGFR 24 1 Q9UN81 Q9UN81 L1RE1 LINE-1 retrotransposable element ORF1 protein 1 0 S(0.024)S(0.024)S(0.631)PAT(0.12)EQS(0.202)WMENDFDELREEGFR 129.66 3.92E-07 3688000 72.537 179.83 0 223.56 147.16 217.56 113.18 0 0 148.09 TRUE FALSE FALSE 80.16677447 185.65661 0 227.8873271 135.8846326 199.022664 100.4446885 0 0 154.4748846 0.518963161 1.201856279 0 1.475238694 0.879655181 1.288382021 0.650233135 0 0 1 7.271228486 -13.52287874 0.025032776 1.892085474 1.82E-08 0 0.544141227 8365.319048 16.8548995 904.0250152 445.8206438 3.00E-14 13.52287874 -1.892085456 SSS(ph)PATEQSWMENDFDELREEGFRR ddPTM_HeLa_SAHA_4h_R1 3 SSSPATEQSWMENDFDELREEGFRR 25 2 Q9UN81 Q9UN81 L1RE1 LINE-1 retrotransposable element ORF1 protein 1 0 S(0.157)S(0.17)S(0.633)PAT(0.031)EQS(0.009)WMENDFDELREEGFRR;S(0.313)S(0.313)S(0.353)PAT(0.02)EQSWMENDFDELREEGFRR;S(0.192)S(0.192)S(0.61)PAT(0.005)EQSWMENDFDELREEGFRR ;; 81.525 4.51E-05 20757800 1481.1 1256.525 1484.6 1420.443 1678.97 1777.7 1570.72 1339.51 1517.886 1578.67 TRUE FALSE FALSE 1636.888894 1297.237234 1686.913557 1447.937728 1550.327681 1626.229959 1393.978452 1305.247274 1507.322908 1646.73419 0.99402132 0.787763588 1.024399425 0.879278354 0.941455938 0.987548549 0.846510907 0.792627785 0.91534075 1 10.68539198 -1 0.217116822 1.006971491 0.043450947 0.156831254 0.075995783 38.96307346 0.463629465 0.053462063 13.22113323 0.1 1 -0.963520544 SSS(ph)PCRTPEPDNDAHLR ddPTM_HeLa_SAHA_4h_R1 2 SSSPCRTPEPDNDAHLR 17 1 Q9Y2K6 Q9Y2K6 USP20 Ubiquitin carboxyl-terminal hydrolase 20 1 0 S(0.009)S(0.061)S(0.869)PCRT(0.061)PEPDNDAHLR;S(0.013)S(0.1)S(0.843)PCRT(0.044)PEPDNDAHLR ; 154.13 1.40E-05 7729500 2555.6 2509.5 2322.2 2528.8 2513.7 3147.8 2888.2 3850.4 2730.93 2748.1 TRUE FALSE FALSE 2824.409734 2590.809447 2638.657323 2577.748581 2321.100849 2879.589731 2563.212135 3751.912343 2711.925236 2866.58404 0.985287609 0.903796788 0.920488388 0.89924054 0.809709681 1.004537 0.894169541 1.308844357 0.946047699 1 11.48511686 -4.254852908 24.94604778 0.959479585 1.308844519 0.754760023 0.062820864 325.5073842 1232815.188 0.00970349 0.125465023 5.56E-05 4.254852908 0.349364934 SSS(ph)PEDPGAEV ddPTM_HeLa_SAHA_4h_R1 2 SSSPEDPGAEV 11 0 Q9Y5U2-2;Q9Y5U2 Q9Y5U2-2 TSSC4 Protein TSSC4 1 0 S(0.015)S(0.015)S(0.971)PEDPGAEV;S(0.242)S(0.242)S(0.517)PEDPGAEV ; 173.24 7.27E-05 11067200 5816.5 7111 6234.5 6353.5 6631.4 7958.2 7853.2 6904.2 8111.6 5721.1 TRUE FALSE FALSE 6428.306157 7341.401066 7084.105192 6476.48118 6123.303565 7280.116588 6969.537268 6727.600561 8055.150715 5967.764619 1.077171532 1.230176043 1.187061763 1.085244073 1.026063184 1.219906791 1.167863968 1.127323377 1.349776881 1 12.54297492 -7.811390321 1.592302674 1.022873895 1.145834904 0 0.119584463 0.236319394 1.248113117 0.013733067 0.012977253 1.54E-08 7.811390321 0.122961009 SSS(ph)PELVTHLK ddPTM_HeLa_SAHA_4h_R1 2 SSSPELVTHLK 11 0 E9PNR6;Q07960;H0YE29 E9PNR6 ARHGAP1 Rho GTPase-activating protein 1 1 0 S(0.001)S(0.001)S(0.998)PELVTHLK;S(0.159)S(0.159)S(0.654)PELVT(0.027)HLK ; 234.63 8.92E-23 114957000 7250.4 8671.6 7128.1 8837.9 9954 12283.3 10767.4 10262.2 10837.9 8765.8 TRUE FALSE FALSE 8013.030338 8952.56553 8099.480346 9008.970334 9191.32667 11236.69374 9555.823814 9999.707783 10762.47817 9143.736537 0.876340904 0.979092682 0.885795464 0.985261364 1.00520467 1.228895178 1.045067711 1.093612851 1.177032839 1 13.15856812 -5.546329439 3.358672541 0.941614306 1.115964012 0.232638001 0.094310376 0.12363419 2.909775362 0.009396306 0.020806165 2.84E-06 5.546329439 0.174349705 SSS(ph)PGKLLGSGYGGLTGGSSR ddPTM_HeLa_SAHA_4h_R1 3 SSSPGKLLGSGYGGLTGGSSR 21 1 H0Y5T1;Q7Z460-2;Q7Z460-3;F8WA11;Q7Z460-5;Q7Z460;Q7Z460-4 H0Y5T1;Q7Z460-4 CLASP1 CLIP-associating protein 1 1 0 S(0.058)S(0.058)S(0.882)PGKLLGSGYGGLTGGSSR;S(0.034)S(0.034)S(0.932)PGKLLGSGYGGLTGGSSR;S(0.008)S(0.008)S(0.983)PGKLLGSGYGGLTGGSSR ;; 135.26 2.58E-05 22419500 4892.7 3273.59 5225.8 3887.98 4587.33 4286.89 4893.2 5387.9 2494.56 4237.9 TRUE FALSE FALSE 5407.336635 3379.656464 5937.944809 3963.237475 4235.849766 3921.622855 4342.604258 5250.08532 2477.200154 4420.616609 1.223208686 0.764521505 1.34323904 0.896534992 0.958203378 0.887121233 0.982352609 1.187636428 0.560374349 1 12.1100319 SSS(ph)PHDKNLPQK ddPTM_HeLa_SAHA_4h_R1 1 SSSPHDKNLPQK 12 1 A0A499FJI4;O75592-2;O75592 A0A499FJI4 MYCBP2 E3 ubiquitin-protein ligase MYCBP2 1 0 S(0.317)S(0.317)S(0.367)PHDKNLPQK 83.877 0.010767 3676900 1753 2113.8 1285.4 2061.6 2953.4 4408.3 2368.9 3379.2 1685.5 2366.7 TRUE FALSE FALSE 1937.388583 2182.288507 1460.567618 2101.505249 2727.11113 4032.68804 2102.345137 3292.764957 1673.770468 2468.740019 0.784768168 0.883968539 0.591624718 0.851246074 1.104657076 1.633500493 0.851586283 1.333783603 0.677985715 1 11.2695592 -5.621652604 4.52739763 0.866948924 1.250444174 0.492025386 0.212609514 0.153435277 5.510773905 0.029543818 0.060669195 2.39E-06 5.621652604 0.38349525 SSS(ph)PIPLTPSK ddPTM_HeLa_SAHA_4h_R1 2 SSSPIPLTPSK 11 0 Q8N5Y2;Q8N5Y2-3;Q8N5Y2-2;A0A3B3IT59;Q8N5Y2-6;Q8N5Y2-4;A0A3B3ITL5;A0A3B3ITF3;A0A3F2YNX2;A0A3B3IRN2 Q8N5Y2 MSL3 Male-specific lethal 3 homolog 1 0 SS(0.002)S(0.998)PIPLTPSK;SS(0.077)S(0.923)PIPLTPSK ; 185.3 1.33E-06 38167000 5552.7 5533.3 4879.8 5071.6 5466.5 6486.6 5857.7 5998.5 5457 5450.1 TRUE FALSE FALSE 6136.758463 5712.582551 5544.793731 5169.768152 5047.657951 5933.905187 5198.576179 5845.067056 5419.024293 5685.080483 1.079449707 1.004837586 0.9753237 0.909357074 0.887878011 1.043768018 0.914424377 1.028141479 0.953200981 1 12.47296506 -6.832105368 3.029469468 1.037558356 0.954997054 0.102458437 0.05669055 0.215906734 4.030451557 0.008649261 0.011819052 1.47E-07 6.832105368 -0.082561302 SSS(ph)PPPR ddPTM_HeLa_SAHA_4h_R1 1 SSSPPPR 7 0 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 SS(0.002)S(0.998)PPPR 115.49 0.0053628 1479200 602.01 363.01 556.53 476.26 486.43 495.04 785.92 598.22 543.4 458.97 TRUE FALSE FALSE 665.3321739 374.7717622 632.3710101 485.478701 449.1598385 452.859807 697.4862132 582.9183986 539.6184352 478.7584428 1.389703271 0.782799275 1.320856101 1.014036845 0.938176329 0.945904587 1.45686457 1.21756265 1.127120458 1 8.903154119 -9.856014416 1.954430466 0.9989721 1.176455123 0 0.212676848 0.757950295 5.243293552 0.166851291 0.033472887 1.39E-10 9.856014416 0.177483022 SSS(ph)PRGEASSLNGESH ddPTM_HeLa_SAHA_4h_R1 3 SSSPRGEASSLNGESH 16 1 Q8IY57-3;Q8IY57;Q8IY57-5 Q8IY57-3 YAF2 YY1-associated factor 2 1 0 S(0.16)S(0.16)S(0.68)PRGEAS(0.001)SLNGESH;S(0.122)S(0.122)S(0.753)PRGEASS(0.001)LNGESH;S(0.083)S(0.083)S(0.709)PRGEAS(0.001)S(0.123)LNGESH ;; 152.88 0.00017272 17918100 2960.32 2361.25 1988.72 2741.08 3625.53 4048.17 3569.3 4228.06 2778.8 3293.1 TRUE FALSE FALSE 3271.70004 2437.756049 2259.732405 2794.137567 3347.742675 3703.243142 3167.67297 4119.912347 2759.462105 3435.081657 0.952437341 0.709664658 0.657839501 0.81341227 0.974574409 1.078065534 0.922153616 1.19936373 0.803317761 1 11.74612868 -2.518639635 8.514106481 0.94320465 1.271333638 0 0.161533803 0 0 0.021463795 0 0.003029426 2.518639635 0.328128988 SSS(ph)PSASLTENEVK ddPTM_HeLa_SAHA_4h_R1 1 SSSPSASLTENEVK 14 0 O96028-5 O96028-5 WHSC1 Histone-lysine N-methyltransferase NSD2 1 0 S(0.001)S(0.026)S(0.973)PS(0.001)ASLTENEVK 209.22 1.07E-12 17749000 1133.1 967.87 828.42 1188.2 1040.3 1219.6 862.81 1256.7 926.62 1205 TRUE FALSE FALSE 1252.284657 999.229623 941.3127634 1211.199329 960.5924387 1115.683219 765.724348 1224.555434 920.171576 1256.953447 0.99628563 0.79496152 0.748884349 0.963599194 0.764222765 0.887609021 0.609190698 0.974224969 0.732064961 1 10.2957155 -7.265936023 23.82944515 0.998246 0.815445519 0 0.131621453 127.4431569 675369.3283 0.015325528 0.017852486 5.42E-08 7.265936023 -0.182800481 SSS(ph)PTQYGLTK ddPTM_HeLa_SAHA_4h_R1 3 SSSPTQYGLTK 11 0 Q9NYL2 Q9NYL2 ZAK Mitogen-activated protein kinase kinase kinase MLT 1 0 S(0.002)S(0.038)S(0.922)PT(0.038)QYGLTK;S(0.036)S(0.036)S(0.893)PT(0.036)QYGLTK;S(0.005)S(0.191)S(0.803)PT(0.001)QYGLTK ;; 112.5 0.0035534 155085000 7530.7 6638.5 7363.9 8126.8 8591.8 8039.1 8829 8264.2 7511.5 7087.5 TRUE FALSE FALSE 8322.813578 6853.591756 8367.413942 8284.105966 7933.49814 7354.123453 7835.537683 8052.81373 7459.22686 7393.07681 1.125757758 0.927028344 1.131790479 1.120522102 1.073098298 0.994731103 1.059848002 1.089237125 1.008947567 1 12.85195919 -2.985206059 2.419510413 1.057376543 10.61759561 0.019587164 0.064046062 2354.426833 54.14894133 0.009476091 123778.1761 0.001034651 2.985206059 9.560219065 SSS(ph)PTSYWK ddPTM_HeLa_SAHA_4h_R1 1 SSSPTSYWK 9 0 Q92614;A0A0D9SFK2;Q92614-3;Q92614-4;Q92614-2;Q92614-5 Q92614 MYO18A Unconventional myosin-XVIIIa 1 0 S(0.028)S(0.35)S(0.587)PT(0.028)S(0.006)YWK 123.75 0.0030481 8161200 5245.1 5498 4336.4 5372.8 5640.7 6574.6 6286.3 5661.7 6857.2 4961.5 TRUE FALSE FALSE 5796.803683 5676.138807 4927.342009 5476.798313 5208.510785 6014.407092 5578.948979 5516.881912 6809.480187 5175.414546 1.120065578 1.096750561 0.952067118 1.058233744 1.006394896 1.162111178 1.077971422 1.065978747 1.315736184 1 12.33745871 -9.613207404 1.438544346 1.000231677 1.073524785 0 0.112929565 0.572490088 2.13769181 0.039805722 0.009273541 2.44E-10 9.613207404 0.073293108 SSS(ph)PVGLAK ddPTM_HeLa_SAHA_4h_R1 1 SSSPVGLAK 9 0 B1AKL4;Q9NRA8;Q9NRA8-3;Q9NRA8-2 B1AKL4 EIF4ENIF1 Eukaryotic translation initiation factor 4E transporter 1 0 S(0.074)S(0.074)S(0.853)PVGLAK 133.75 0.0016624 170900000 15307 14466 14242 15072 15529 17371 18040 16064 14885 14103 TRUE FALSE FALSE 16917.06049 14934.70789 16182.82559 15363.74035 14339.17137 15890.89307 16010.09172 15653.10614 14781.41407 14711.04935 1.14995607 1.015203439 1.100045633 1.0443674 0.97472118 1.080201194 1.088303855 1.064037362 1.004783121 1 13.84461254 -9.756024293 1.712142637 0.999964895 1.077672331 0.182115163 0.046537172 0.451766078 2.396101667 0.038677452 0.008309603 1.75E-10 9.756024293 0.077707436 SSS(ph)PVQVEEEPVR ddPTM_HeLa_SAHA_4h_R1 4 SSSPVQVEEEPVR 13 0 Q8IZ21-3;Q8IZ21;Q8IZ21-2;A0A0J9YVR0 Q8IZ21-3 PHACTR4 Phosphatase and actin regulator 4 1 0 S(0.068)S(0.068)S(0.864)PVQVEEEPVR;S(0.071)S(0.071)S(0.858)PVQVEEEPVR;S(0.094)S(0.094)S(0.813)PVQVEEEPVR;S(0.337)S(0.055)S(0.608)PVQVEEEPVR ;;; 252.46 5.69E-42 300686400 5177.05 5552.05 5656.65 5010.3 5915.42 5721.63 6816.8 6126.75 5204.49 4781.02 TRUE FALSE FALSE 5721.595872 5731.940063 6427.508803 5107.281602 5462.181798 5234.114935 6049.755723 5970.036606 5168.27153 4987.15317 1.147266923 1.14934109 1.288813194 1.024087576 1.095250459 1.049519587 1.21306796 1.197083066 1.036316984 1 12.2840008 -9.098923029 0.81632683 0.997647234 1.14366983 0.313319837 0.07452785 0.599043996 0.708177042 0.053817661 0.01500805 7.96E-10 9.098923029 0.146022596 SSS(ph)PVTELAS(ph)RSPIR ddPTM_HeLa_SAHA_4h_R1 1 SSSPVTELASRSPIR 15 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 2 0 S(0.055)S(0.004)S(0.942)PVT(0.263)ELAS(0.695)RS(0.042)PIR 156.29 9.38E-12 0 1565.5 1846 1475.1 1384.3 1811.3 2197.9 1853.1 1775.5 2446.8 1454.1 TRUE FALSE FALSE 1730.166473 1905.811611 1676.118946 1411.095128 1672.518585 2010.626555 1644.584311 1730.085281 2429.77252 1516.793367 1.140673812 1.25647412 1.105041057 0.930314675 1.102667391 1.325577101 1.084250727 1.140620284 1.601913993 1 10.56680885 -9.110845404 0.884019213 1.00007542 1.134535964 0 0.212514761 0.785127598 1.113282313 0.067053131 0.019863588 7.75E-10 9.110845404 0.134460545 SSS(ph)PVTELASR ddPTM_HeLa_SAHA_4h_R1 4 SSSPVTELASR 11 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.056)S(0.056)S(0.887)PVTELASR;S(0.006)S(0.006)S(0.988)PVTELASR;S(0.002)S(0.008)S(0.985)PVT(0.005)ELASR;S(0.044)S(0.044)S(0.91)PVT(0.002)ELASR ;;; 220.29 9.85E-16 278463000 9618.4 10935.2 8811 10413.2 11304.2 12652.4 10544.2 10393.4 14511.4 10456.3 TRUE FALSE FALSE 10630.10744 11289.50765 10011.71719 10614.76254 10438.07464 11574.34434 9357.738865 10127.55188 14410.41399 10907.12226 0.974602391 1.035058321 0.917906387 0.973195522 0.956996207 1.061173063 0.857947554 0.928526483 1.321193037 1 13.41298289 -4.745960324 24.99981869 0.986767647 0.893237007 0.104464575 0.113284913 147.6910152 238527.9115 0.005114481 0.018996269 1.79E-05 4.745960324 -0.09353064 SSS(ph)QENLLDEVMK ddPTM_HeLa_SAHA_4h_R1 7 SSSQENLLDEVMK 13 0 Q3V6T2;A0A2R8Y820;Q3V6T2-3;Q3V6T2-2;Q3V6T2-4;A0A2R8Y7B1;H0Y7K3;A0A2R8Y5D7;H7C2C6;H0Y470;A0A2R8Y885;A0A2R8YCU9;A0A2U3TZV9;A0A2R8Y4Z5;A0A2R8Y7D4;A0A2R8YDS8;H0Y7U8;Q3V6T2-5;A0A2R8Y4C6 Q3V6T2 CCDC88A Girdin 1 0 S(0.018)S(0.256)S(0.726)QENLLDEVMK;SS(0.005)S(0.995)QENLLDEVMK;S(0.058)S(0.158)S(0.784)QENLLDEVMK;S(0.009)S(0.027)S(0.964)QENLLDEVMK;S(0.024)S(0.024)S(0.951)QENLLDEVMK;SS(0.087)S(0.912)QENLLDEVMK;S(0.004)S(0.136)S(0.861)QENLLDEVMK ;;;;;; 225.21 6.56E-23 42655500 10685.29 10260.62 8359.23 10540.63 10741.51 11843.81 11721.15 12106.64 11853.58 10648.97 TRUE FALSE FALSE 11809.21783 10593.07082 9498.382331 10744.65914 9918.497824 10834.65076 10402.25535 11796.96968 11771.08997 11108.09921 1.063117785 0.953634877 0.855086199 0.967281524 0.892906845 0.975382966 0.936456828 1.062015153 1.059685347 1 13.43932435 -7.184499137 6.963155524 1.029743143 0.944065683 0.373263818 0.053827006 0.212157688 16.54045352 0.008877854 0.010882673 6.54E-08 7.184499137 -0.08567746 SSS(ph)QGPLSSIR ddPTM_HeLa_SAHA_4h_R1 1 SSSQGPLSSIR 11 0 A0A0U1RQE4 A0A0U1RQE4 1 0 SS(0.001)S(0.999)QGPLSSIR 170.95 8.73E-05 5374700 1028.2 967.57 796.97 1047.7 1020.9 967.42 999.07 1065.6 923.07 731.83 TRUE FALSE FALSE 1136.350794 998.9199028 905.5769212 1067.979748 942.6788626 884.9903734 886.6520142 1038.343495 916.6462807 763.3827728 1.48857275 1.308543942 1.18626848 1.399009496 1.234870495 1.15930095 1.161477631 1.360187225 1.200768885 1 9.576262819 -9.589767914 1.398000158 1.000939068 1.306920874 0.212349468 0.119058989 0.298528449 1.05165675 0.084666812 0.019933058 2.57E-10 9.589767914 0.305981807 SSS(ph)QIPEGFGLTSGGSNYSLAR ddPTM_HeLa_SAHA_4h_R1 2 SSSQIPEGFGLTSGGSNYSLAR 22 0 A2RRE0;Q9Y4E6-2;Q9Y4E6 A2RRE0 WDR7 WD repeat-containing protein 7 1 0 S(0.017)S(0.017)S(0.966)QIPEGFGLTSGGSNYSLAR;S(0.013)S(0.013)S(0.974)QIPEGFGLTSGGSNYSLAR ; 218.42 8.57E-30 18512000 2319.62 2383.41 1910.5 3101.57 3192.02 3248 2717.3 3840.43 2462.03 2619.64 TRUE FALSE FALSE 2563.608274 2460.634048 2170.852991 3161.605372 2947.448117 2971.252127 2411.542252 3742.197361 2444.896533 2732.585501 0.938162145 0.900478337 0.794431863 1.157001445 1.078629787 1.087340955 0.882513009 1.369471279 0.894719134 1 11.41605092 -6.233127978 24.99299401 0.951639245 1.098519624 0.383383969 0.12534204 752.9316726 664680.0954 0.017614932 0.02920731 5.85E-07 6.233127978 0.146880379 SSS(ph)SERPEPQQK ddPTM_HeLa_SAHA_4h_R1 1 SSSSERPEPQQK 12 1 P78362;C9J2M4 P78362 SRPK2 SRSF protein kinase 2;SRSF protein kinase 2 N-terminal;SRSF protein kinase 2 C-terminal 1 0 S(0.317)S(0.317)S(0.357)S(0.009)ERPEPQQK 70.889 0.019468 9898700 1509.4 1438.9 1181.8 2003.7 1769.6 2409.9 1993.2 1720.3 1516 1567.4 TRUE FALSE FALSE 1668.165617 1485.521304 1342.849549 2042.484511 1634.01363 2204.562962 1768.91989 1676.297217 1505.450033 1634.978285 1.020298332 0.908587789 0.821325618 1.249242592 0.999409989 1.34837446 1.081922559 1.025271854 0.920776775 1 10.67505576 -6.247455309 24.9345988 0.987811314 1.141242846 0.412930904 0.114605262 722.2300603 1287787.208 0.01638606 0.027083082 5.66E-07 6.247455309 0.153431532 SSS(ph)SGSDDYAYTQALLLHQR ddPTM_HeLa_SAHA_4h_R1 2 SSSSGSDDYAYTQALLLHQR 20 0 F6SS63;Q8N5C8-2;Q8N5C8 F6SS63 TAB3 TGF-beta-activated kinase 1 and MAP3K7-binding protein 3 1 0 S(0.086)S(0.086)S(0.688)S(0.133)GS(0.008)DDYAYTQALLLHQR;S(0.019)S(0.019)S(0.802)S(0.152)GS(0.009)DDYAYTQALLLHQR ; 237.84 2.85E-34 35455000 1260.9 2200 1708.55 1051.77 1854.81 2916.5 2006.21 1386.95 1129.04 2052.12 TRUE FALSE FALSE 1393.527247 2271.281443 1941.382296 1072.128529 1712.694859 2667.997792 1780.465971 1351.473827 1121.182919 2140.596936 0.650999366 1.061050497 0.906935007 0.50085493 0.800101518 1.246380272 0.831761431 0.631353715 0.52377115 1 11.06379745 -9.712126915 1.614448127 0.999945469 0.80899718 0 0.25197249 0.760850288 3.580671766 0.15237866 0.033494783 1.94E-10 9.712126915 -0.190948289 SSS(ph)SPELQTLQDILGDPGDKADVGR ddPTM_HeLa_SAHA_4h_R1 3 SSSSPELQTLQDILGDPGDKADVGR 25 1 H3BMQ0;P49815;A0A2R8Y5F1;A0A2R8YGD6;A0A2R8Y7C8;A0A2R8YDR3;A0A2R8Y7X5;A0A2R8YDZ2;X5D2U8;A0A2R8YGU4;A0A2R8Y6C9;P49815-5;P49815-3;P49815-2;P49815-6;P49815-7;P49815-4;H3BQK4;A0A2R8Y670 H3BMQ0 TSC2 Tuberin 1 0 S(0.024)S(0.024)S(0.716)S(0.237)PELQTLQDILGDPGDKADVGR;S(0.028)S(0.028)S(0.67)S(0.272)PELQT(0.002)LQDILGDPGDKADVGR;S(0.063)S(0.063)S(0.653)S(0.216)PELQT(0.005)LQDILGDPGDKADVGR ;; 200.76 2.04E-24 41298000 3270.62 3461.02 2851.89 3402.45 3693.81 4343 4184.13 3396.6 3256.37 4223.09 TRUE FALSE FALSE 3614.638818 3573.159319 3240.530717 3468.30934 3410.791076 3972.951967 3713.32068 3309.71989 3233.708656 4405.168077 0.82054504 0.811128941 0.735620222 0.787327357 0.774270361 0.901884309 0.842946425 0.751326586 0.734071572 1 12.10498135 -8.936793635 0.682232264 1.00666325 0.802119757 0 0.092936347 0.32873694 0.273312249 0.036888703 0.01058725 1.16E-09 8.936793635 -0.204543493 SSS(ph)SPLVVVSVK ddPTM_HeLa_SAHA_4h_R1 1 SSSSPLVVVSVK 12 0 Q96B01-3;Q96B01-2;Q96B01 Q96B01-3 RAD51AP1 RAD51-associated protein 1 1 0 S(0.105)S(0.01)S(0.682)S(0.203)PLVVVSVK 164.13 0.00012826 4786200 1920.7 2285.6 2174.3 2514.1 2459.1 2910.3 2345.2 2384.5 3100.3 2511.6 TRUE FALSE FALSE 2122.728038 2359.65494 2470.602281 2562.764041 2270.684289 2662.326067 2081.311924 2323.507943 3078.72476 2619.887367 0.810236373 0.900670376 0.94301851 0.978196266 0.866710652 1.016198673 0.794428016 0.886873219 1.175136305 1 11.35528907 -9.651870731 1.50647323 0.999700886 0.888689116 0.336455631 0.086917264 0.4447466 1.823089191 0.04868746 0.011119099 2.23E-10 9.651870731 -0.11101177 SSS(ph)SSASPSSPSSR ddPTM_HeLa_SAHA_4h_R1 1 SSSSSASPSSPSSR 14 0 E9PK91;Q9NYF8-3;H0YF63;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 SSS(0.982)S(0.012)S(0.001)AS(0.005)PSSPSSR 215.09 2.89E-17 2864900 383.88 320.76 190.64 442.04 337.78 631.89 329.96 345.39 367.75 507.43 TRUE FALSE FALSE 424.2582597 331.1528345 216.6194264 450.5963234 311.8993694 578.0494171 292.8320324 336.5554239 365.1907978 529.3077906 0.80153413 0.625633781 0.409250403 0.851293579 0.589258981 1.092085602 0.553235825 0.635840677 0.689940342 1 9.047963078 -8.155404955 0.99404733 0.964788564 0.688984417 0.027875011 0.196912235 0.412973145 0.859430211 0.051631175 0.037303271 6.99E-09 8.155404955 -0.275804147 SSS(ph)TEPPPPVR ddPTM_HeLa_SAHA_4h_R1 3 SSSTEPPPPVR 11 0 Q8N684-2;Q8N684;Q8N684-3;F5H6M0;F5H047;F5H669;F5H5B7;F5H1W4;F5H2K8;F5H6P5;F5H6A8;F5GXA3;C9JM38;C9J286;C9J323;J3QT54 Q8N684-2 CPSF7 Cleavage and polyadenylation specificity factor subunit 7 1 0 S(0.001)S(0.017)S(0.941)T(0.041)EPPPPVR;S(0.001)S(0.006)S(0.96)T(0.034)EPPPPVR;S(0.039)S(0.039)S(0.884)T(0.039)EPPPPVR ;; 171.67 8.27E-05 68011000 4780.96 5815.32 4577.63 5790.67 5613.41 6253.25 5554.44 4993.99 7050.85 5555.9 TRUE FALSE FALSE 5283.843309 6003.740184 5201.445577 5902.756791 5183.311739 5720.43792 4929.439793 4866.250967 7001.782561 5795.442039 0.91172395 1.035941718 0.897506272 1.018517095 0.894377289 0.987058085 0.850571839 0.839668646 1.208153324 1 12.50070299 -4.750898947 24.01704862 0.959956693 0.845120092 0.238208214 0.091503616 82.19356323 187276.6224 0.006515438 0.023818354 1.77E-05 4.750898947 -0.1148366 SSS(ph)TGNLLDKDDLAIPPPDYGAASR ddPTM_HeLa_SAHA_4h_R1 2 SSSTGNLLDKDDLAIPPPDYGAASR 25 1 B4DWA1;I3L4C2;Q9UQB8-3;Q9UQB8-5;Q9UQB8-4;Q9UQB8-2;Q9UQB8;I3L3C6;Q9UQB8-6 B4DWA1 BAIAP2 Brain-specific angiogenesis inhibitor 1-associated protein 2 1 0 S(0.139)S(0.139)S(0.584)T(0.139)GNLLDKDDLAIPPPDYGAASR;S(0.145)S(0.145)S(0.701)T(0.008)GNLLDKDDLAIPPPDYGAASR ; 122.31 6.54E-08 129662000 3633.8 2787.1 2734.1 4075.7 3939.7 3708.5 4256.2 4500.3 3635.8 2983.1 TRUE FALSE FALSE 4016.019756 2877.403869 3106.688909 4154.591067 3637.841037 3392.514937 3777.281174 4385.188842 3610.498172 3111.71604 1.290612545 0.924700015 0.998384451 1.335144664 1.16907873 1.090239242 1.213890061 1.409250968 1.160291661 1 11.6034947 SSS(ph)TSDILEPFTVER ddPTM_HeLa_SAHA_4h_R1 5 SSSTSDILEPFTVER 15 0 A0A1B0GUI1;Q6GYQ0-3;Q6GYQ0-4;Q6GYQ0;Q6GYQ0-7;Q6GYQ0-5;Q6GYQ0-6;Q6GYQ0-2 A0A1B0GUI1 RALGAPA1 Ral GTPase-activating protein subunit alpha-1 1 0 S(0.008)S(0.013)S(0.974)T(0.005)SDILEPFTVER;SSS(0.997)T(0.003)SDILEPFTVER;S(0.027)S(0.027)S(0.933)T(0.012)S(0.001)DILEPFTVER;S(0.003)S(0.003)S(0.939)T(0.052)S(0.003)DILEPFTVER;S(0.004)S(0.004)S(0.763)T(0.202)S(0.027)DILEPFTVER ;;;; 354.93 1.22E-156 111245800 3803.36 4787.97 3717.68 4164.59 4850.19 5347.47 4940.74 5826.49 4123.61 4831.92 TRUE FALSE FALSE 4203.414855 4943.10337 4224.30607 4245.201662 4478.56949 4891.835472 4384.794932 5677.456822 4094.913462 5040.247718 0.833969894 0.980726275 0.838114773 0.84226052 0.888561384 0.970554573 0.869956236 1.126424164 0.812442898 1 12.29927893 -4.254413044 24.34313872 0.911703281 1.12642431 0.508074179 0.06665958 419.5190942 1453392.953 0.009964284 0.132064115 5.57E-05 4.254413044 0.214721029 SSS(ph)VGSS(ph)SSYPISPAVSR ddPTM_HeLa_SAHA_4h_R1 1 SSSVGSSSSYPISPAVSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 2 0 S(0.003)S(0.004)S(0.993)VGS(0.363)S(0.528)S(0.09)S(0.019)YPISPAVSR 146.67 0.001323 17855000 1807.7 1762.1 1291.2 1716.8 1848 1840.9 2066.5 1710.2 1375.7 1621.1 TRUE FALSE FALSE 1997.84218 1819.193196 1467.158012 1750.031147 1706.406639 1684.044963 1833.971981 1666.45556 1366.126392 1690.993554 1.181460553 1.075813205 0.867630753 1.034912961 1.00911481 0.995890823 1.084552911 0.985489008 0.807883855 1 10.72365545 -6.968183718 24.99992995 1.087950146 1.000028704 0 0.11005367 236.1140442 185528.3262 0.013342707 0.017535667 1.08E-07 6.968183718 -0.087921442 SSS(ph)VGSSSSYPIS(ph)PAVSR ddPTM_HeLa_SAHA_4h_R1 4 SSSVGSSSSYPISPAVSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 2 0 S(0.007)S(0.015)S(0.973)VGS(0.003)S(0.001)SSYPIS(0.999)PAVS(0.001)R;S(0.011)S(0.019)S(0.959)VGS(0.011)SSS(0.001)YPIS(0.998)PAVS(0.001)R;S(0.008)S(0.012)S(0.953)VGS(0.019)S(0.006)S(0.003)SYPIS(1)PAVSR;S(0.07)S(0.005)S(0.906)VGS(0.018)SSSYPIS(0.991)PAVS(0.009)R ;;; 173.34 8.07E-08 135081300 5191.71 4952.48 5078.84 5177.68 6347.83 7453.7 6260.5 6242.52 6356.53 5433.58 TRUE FALSE FALSE 5737.797878 5112.943601 5770.957866 5277.901483 5861.460637 6818.602827 5556.052063 6082.845377 6312.29439 5667.848225 1.012341483 0.902096069 1.018192026 0.931200215 1.034159774 1.203032007 0.980275378 1.073219525 1.113702086 1 12.46858541 -5.5200694 24.99290407 0.993245191 1.082253991 0.231614446 0.07264216 98.46061841 875936.278 0.008458793 0.017163014 3.02E-06 5.5200694 0.0890088 SSS(ph)VGSSSSYPISPAVSR ddPTM_HeLa_SAHA_4h_R1 6 SSSVGSSSSYPISPAVSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 S(0.048)S(0.009)S(0.942)VGSSSSYPISPAVSR;SSS(0.999)VGS(0.001)SSSYPISPAVSR;SSS(0.994)VGS(0.005)SSSYPISPAVSR;S(0.074)S(0.074)S(0.853)VGSSSSYPISPAVSR;S(0.009)S(0.009)S(0.981)VGSSSSYPISPAVSR;S(0.016)S(0.009)S(0.951)VGS(0.023)S(0.001)SSYPISPAVSR ;;;;; 355.38 7.51E-161 2941299800 9825.63 8890.88 8313.47 11581.01 11622.21 11306.14 11806.88 12876.35 11485.67 9869.71 TRUE FALSE FALSE 10859.13485 9178.950346 9446.386397 11805.17719 10731.71878 10342.79327 10478.33879 12546.99161 11405.74029 10295.2415 1.054772231 0.891572125 0.917548792 1.146663456 1.042396022 1.00461881 1.017784652 1.218717561 1.107865249 1 13.32969005 -6.251974569 24.76102641 1.006928068 1.075296714 0.221964313 0.082987495 907.3267316 2373669.812 0.012046072 0.019798662 5.60E-07 6.251974569 0.068368646 SSS(ph)VLSLEGSEK ddPTM_HeLa_SAHA_4h_R1 1 SSSVLSLEGSEK 12 0 A1L390-3;A1L390;G3V311;A1L390-2;A0A0U1RR71 A1L390-3 PLEKHG3 Pleckstrin homology domain-containing family G member 3 1 0 S(0.079)S(0.008)S(0.834)VLS(0.079)LEGS(0.001)EK 174.46 5.12E-05 24577000 1874.3 2447 1885.4 2516.9 2382.1 2711.4 2496.8 2199 2565.7 2086.3 TRUE FALSE FALSE 2071.447474 2526.284406 2142.332493 2565.618239 2199.584013 2480.373466 2215.853493 2142.752764 2547.845085 2176.250603 0.951842343 1.160842599 0.984414428 1.178916727 1.010721839 1.139746251 1.018197762 0.984607545 1.170749858 1 11.08762898 -7.29494816 24.97041136 0.977258881 1.067859198 0 0.091855412 554.5222834 413222.994 0.010802805 0.012353778 5.07E-08 7.29494816 0.090600317 SSS(ph)VTSIDK ddPTM_HeLa_SAHA_4h_R1 1 SSSVTSIDK 9 0 H0Y332;Q5T5C0-3;Q5T5C0-2;Q5T5C0;Q5JRH0 H0Y332 STXBP5 Syntaxin-binding protein 5 1 0 S(0.002)S(0.042)S(0.922)VT(0.017)S(0.017)IDK 84.31 0.023168 12314000 1403.9 1449.5 1160.5 1663 2116.3 2230.7 1721.6 1722.8 1936.3 1609.3 TRUE FALSE FALSE 1551.568643 1496.464751 1318.646896 1695.18977 1954.149551 2040.63181 1527.881037 1678.733271 1922.825131 1678.684799 0.924276341 0.891450707 0.78552382 1.009832085 1.164095578 1.215613445 0.910165528 1.000028875 1.145435481 1 10.71311565 -6.00108642 24.9978461 0.942493572 1.07308857 0.201702987 0.115128799 43.80680127 1008013.746 0.015227728 0.027349473 9.98E-07 6.00108642 0.130594998 SSS(ph)VTSIDKESR ddPTM_HeLa_SAHA_4h_R1 3 SSSVTSIDKESR 12 1 H0Y332;Q5T5C0-3;Q5T5C0-2;Q5T5C0;Q5JRH0 H0Y332 STXBP5 Syntaxin-binding protein 5 1 0 SS(0.003)S(0.993)VT(0.004)SIDKESR;S(0.003)S(0.034)S(0.96)VT(0.002)SIDKESR;SS(0.012)S(0.987)VT(0.001)SIDKESR ;; 173.76 0.00024348 24492200 4505.68 5207.96 3989.5 5495.5 7084.7 6100.5 7469.2 8278.2 5636.7 6751.5 TRUE FALSE FALSE 4979.608095 5376.701321 4533.168284 5601.873349 6541.871817 5580.70308 6628.745958 8066.455631 5597.473746 7042.590206 0.707070545 0.763455087 0.643679122 0.795427987 0.928901388 0.792421952 0.941236926 1.14538194 0.794803273 1 12.78189042 -4.34321882 2.384303823 0.832537548 1.189974792 0.51590716 0.099402782 0.408173115 3.149516261 0.018758092 0.276962803 4.54E-05 4.34321882 0.357437243 SSS(ph)YSEANEPDLQMANGGK ddPTM_HeLa_SAHA_4h_R1 1 SSSYSEANEPDLQMANGGK 19 0 H0Y3A3;A0A3B3ITG3;Q5VWQ8-3;Q5VWQ8-4;Q5VWQ8-2;Q5VWQ8-5;Q5VWQ8 H0Y3A3 DAB2IP Disabled homolog 2-interacting protein 1 0 S(0.075)S(0.075)S(0.827)YS(0.023)EANEPDLQMANGGK 219.68 1.76E-61 0 276.96 537.39 365.37 431.78 392.06 566.95 556.72 360.01 285.26 307.91 TRUE FALSE FALSE 306.0919235 554.8017886 415.1607208 440.1377263 362.0204475 518.6426704 494.0764004 350.8014655 283.2748524 321.185507 0.953006648 1.727356237 1.292588588 1.370353633 1.127138179 1.614776069 1.538289835 1.092208266 0.881966484 1 8.327262985 -7.295071726 24.74314403 0.977808649 1.393510741 0.536461844 0.190820486 302.130481 222275.07 0.030277446 0.034624741 5.07E-08 7.295071726 0.415702092 SSSALDS(ph)PAGPR ddPTM_HeLa_SAHA_4h_R1 3 SSSALDSPAGPR 12 0 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 SSSALDS(1)PAGPR;SSSALDS(1)PAGPR;SSSALDS(1)PAGPR ;; 174.21 5.24E-05 75545400 6194.2 5578.5 5388.7 6364.6 6427.4 6523.4 5510 6699.5 6174.6 5764.8 TRUE FALSE FALSE 6845.734376 5759.24706 6123.043973 6487.796036 5934.934001 5967.56962 4890.000298 6528.136491 6131.630456 6013.34874 1.138422977 0.957743731 1.018241954 1.078899016 0.986959888 0.992387084 0.813190871 1.0856075 1.019669858 1 12.55395291 -5.479269134 2.22483028 1.054864946 0.946978016 0.108150524 0.078738232 0.344185863 3.349310506 0.012215101 0.031063161 3.32E-06 5.479269134 -0.10788693 SSSASS(ph)PEMK ddPTM_HeLa_SAHA_4h_R1 3 SSSASSPEMK 10 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SSSAS(0.001)S(0.999)PEMK;SSS(0.001)AS(0.21)S(0.789)PEMK;SSS(0.009)AS(0.311)S(0.68)PEMK ;; 112.85 0.0057549 8903800 5915.8 7034.1 5584 8925.5 9783.1 15240.2 9834.5 8440 11253.9 12386 TRUE FALSE FALSE 6538.050987 7262.009455 6344.95844 9098.265959 9033.520992 13941.64922 8727.896177 8224.117021 11175.58319 12920.02108 0.506040273 0.562074118 0.491095053 0.704199003 0.699187791 1.079073257 0.675532658 0.636540527 0.864981808 1 13.6573208 -9.49086606 1.259155674 0.998408038 0.65739306 0.289279134 0.160191573 0.404095881 1.154850683 0.116789511 0.029014501 3.23E-10 9.49086606 -0.341014978 SSSASS(ph)PEMKDGLPR ddPTM_HeLa_SAHA_4h_R1 1 SSSASSPEMKDGLPR 15 1 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.007)S(0.007)S(0.043)AS(0.143)S(0.8)PEMKDGLPR 63.614 0.02165 5689000 2161.9 1478 1897.9 1840.8 1888.4 1941.1 1980.4 2060.6 1351.4 1647.5 TRUE FALSE FALSE 2389.298561 1525.88817 2156.535928 1876.431346 1743.7112 1775.70736 1757.56018 2007.892836 1341.995497 1718.531788 1.390313859 0.887902209 1.254871131 1.091880499 1.0146517 1.033270011 1.022710311 1.168376896 0.780896523 1 10.74696082 -6.014079856 21.9728119 1.167144 1.054971162 0 0.181273072 262.4207869 409535.1448 0.025282192 0.043127037 9.68E-07 6.014079856 -0.112172838 SSSEPAVHAPGT(ph)PGNPVSLSTNSSLASSGELVEPR ddPTM_HeLa_SAHA_4h_R1 1 SSSEPAVHAPGTPGNPVSLSTNSSLASSGELVEPR 35 0 Q8N3F8;H0Y6J8 Q8N3F8 MICALL1 MICAL-like protein 1 1 0 S(0.04)S(0.04)S(0.162)EPAVHAPGT(0.703)PGNPVS(0.04)LS(0.009)T(0.005)NS(0.001)SLASSGELVEPR 57.95 0.0025533 7795500 393.91 430.49 455.31 1009.6 468.74 287.8 625.84 1426 947.54 731.88 TRUE FALSE FALSE 435.3432611 444.4381585 517.3572756 1029.142268 432.8252425 263.2778209 555.4188361 1389.524985 940.945992 763.4349285 0.570242787 0.582155914 0.677670429 1.348041895 0.566944511 0.344859543 0.7275261 1.820096164 1.232516298 1 9.576361384 -4.260388456 24.32997694 0.758760614 1.820096664 0.513254849 0.302039776 35.44849743 820498.5498 0.039293497 0.321604242 5.49E-05 4.260388456 1.06133605 SSSET(ph)ILSSLAGSDIVK ddPTM_HeLa_SAHA_4h_R1 1 SSSETILSSLAGSDIVK 17 0 Q01850 Q01850 CDR2 Cerebellar degeneration-related protein 2 1 0 SS(0.064)S(0.221)ET(0.713)ILS(0.001)SLAGSDIVK 246.75 1.41E-36 16900000 2072.4 2264.4 2206 2435.7 2738.6 3254.3 2693.6 2378.8 1818 1909.1 TRUE FALSE FALSE 2290.384541 2337.768046 2506.622192 2482.846496 2528.76906 2977.015332 2390.509039 2317.95374 1805.34839 1991.410644 1.150131716 1.173925656 1.25871688 1.246777757 1.269838076 1.4949279 1.200409893 1.163975771 0.906567611 1 10.95957503 -7.732454119 0.512258199 1.008960775 1.292665632 0.630061588 0.091486448 0.402141958 0.257506511 0.041866639 0.032843171 1.85E-08 7.732454119 0.283704857 SSSFS(ph)SWDDSSDSYWK ddPTM_HeLa_SAHA_4h_R1 1 SSSFSSWDDSSDSYWK 16 0 Q9NP61-2;Q9NP61 Q9NP61-2 ARFGAP3 ADP-ribosylation factor GTPase-activating protein 3 1 0 S(0.088)S(0.088)S(0.189)FS(0.629)S(0.005)WDDSSDSYWK 128.85 0.00022602 3721400 585.11 640.16 388.96 675.24 757.47 744.96 480.82 629.95 845.81 542.4 TRUE FALSE FALSE 646.6545544 660.901604 441.9654432 688.3102466 699.4328122 681.485217 426.7168682 613.8367912 839.9239393 565.7855184 1.142932319 1.168113326 0.781153686 1.216556847 1.236215473 1.20449392 0.754202528 1.084928425 1.484527108 1 9.14411144 -4.771431952 24.99990721 1.08561465 0.919565434 0.117750684 0.194395861 236.8036957 592452.8685 0.020361107 0.062138468 1.69E-05 4.771431952 -0.166049216 SSSISEEKGDS(ph)DDEKPR ddPTM_HeLa_SAHA_4h_R1 4 SSSISEEKGDSDDEKPR 17 2 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 SSSIS(0.001)EEKGDS(0.999)DDEKPR;S(0.001)S(0.001)S(0.003)IS(0.031)EEKGDS(0.964)DDEKPR;SSSISEEKGDS(1)DDEKPR;SSSIS(0.049)EEKGDS(0.951)DDEKPR ;;; 106.7 0.0013762 343966000 9050.32 9347.64 8753.21 9615.65 10201.62 11355.5 10808.4 11366.9 10958.9 9370.65 TRUE FALSE FALSE 10002.27418 9650.509669 9946.051874 9801.77481 9419.97408 10387.94752 9592.210386 11076.15116 10882.63612 9774.66458 1.023285669 0.987298294 1.017533829 1.00277352 0.963713282 1.062742095 0.981333969 1.133148976 1.113351362 1 13.25483148 -4.253801086 24.98112239 1.008323134 1.133149036 0.395775589 0.041906608 368.1987227 1204169.285 0.003186897 0.044844991 5.57E-05 4.253801086 0.124825903 SSSLEMTPYNTPQLS(ph)PATTPANKK ddPTM_HeLa_SAHA_4h_R1 3 SSSLEMTPYNTPQLSPATTPANKK 24 1 Q14C86-4;Q14C86-5;Q14C86-2;Q14C86;Q14C86-6;F8W9S7;Q14C86-3;H0Y4E7;H0Y7I9;C9IZ08;B4DGD8;B0QZ65;A0A0A0MQV8 Q14C86-4 GAPVD1 GTPase-activating protein and VPS9 domain-containing protein 1 1 0 S(0.001)S(0.001)S(0.001)LEMT(0.272)PY(0.205)NT(0.179)PQLS(0.334)PAT(0.006)T(0.001)PANKK;SSSLEMTPYNT(0.003)PQLS(0.976)PAT(0.016)T(0.005)PANKK;SSSLEMTPYNT(0.001)PQLS(0.998)PATTPANKK ;; 97.57 2.73E-05 16955000 4260.76 4001.4 3676.56 4082.5 4444.08 5018.52 4539.08 4382.73 3625.14 4167 TRUE FALSE FALSE 4708.926286 4131.047985 4177.58245 4161.522691 4103.57555 4590.913863 4028.330772 4270.626113 3599.912356 4346.659763 1.083343658 0.950395985 0.961101783 0.957407048 0.944075629 1.056193517 0.926764686 0.982507568 0.828202011 1 12.08569146 -7.248123471 24.9839976 1.039356728 0.968495434 0 0.076681421 605.8697299 1136765.463 0.007155327 0.008732479 5.65E-08 7.248123471 -0.070861294 SSSLIQLTSQNS(ph)SPNQQR ddPTM_HeLa_SAHA_4h_R1 1 SSSLIQLTSQNSSPNQQR 18 0 H7C419;O95639 H7C419 CPSF4 Cleavage and polyadenylation specificity factor subunit 4 1 0 SSSLIQLT(0.022)S(0.022)QNS(0.478)S(0.478)PNQQR 115.58 0.00077174 3354700 608.37 682.16 517.94 805.1 752.04 448.92 711.81 925.27 883.54 582.19 TRUE FALSE FALSE 672.3611479 704.2624316 588.5221659 820.6838747 694.4188577 410.6694904 631.7152654 901.6029332 877.3913732 607.2910601 1.107148108 1.159678576 0.969094071 1.351384746 1.143469587 0.67623174 1.040218286 1.48463067 1.444762538 1 9.246244321 -9.106752484 0.80950075 0.997864498 1.104468327 0 0.246888698 2.264734538 2.617059349 0.148467557 0.040683443 7.82E-10 9.106752484 0.10660383 SSSMS(ph)SLTGAYASGIPSSSR ddPTM_HeLa_SAHA_4h_R1 1 SSSMSSLTGAYASGIPSSSR 20 0 Q96HA1;Q96HA1-2;Q96HA1-3 Q96HA1 POM121 Nuclear envelope pore membrane protein POM 121 1 0 S(0.003)S(0.01)S(0.201)MS(0.601)S(0.18)LT(0.004)GAYASGIPSSSR 110.26 8.16E-05 0 204.79 422.06 317.41 299.03 310.65 254.71 371.55 380.5 468.71 403.02 TRUE FALSE FALSE 226.3307518 435.7350209 360.6649818 304.8181581 286.8480641 233.007275 329.7422161 370.767361 465.4482089 420.3961645 0.538374921 1.036486671 0.857916918 0.725073594 0.682327976 0.554256425 0.784360667 0.881947535 1.107165689 1 8.715605697 -6.146377585 7.307467368 0.804710613 0.716114802 0.08509426 0.177938575 0.789759415 45.53915972 0.030231604 0.050308457 7.14E-07 6.146377585 -0.088595811 SSSNDS(ph)VDEETAESDTSPVLEK ddPTM_HeLa_SAHA_4h_R1 1 SSSNDSVDEETAESDTSPVLEK 22 0 F8VXG7;Q99590-2;Q99590;A0A0A0MTP7 F8VXG7 SCAF11 Protein SCAF11 1 0 S(0.025)S(0.025)S(0.127)NDS(0.823)VDEETAESDTSPVLEK 169.66 1.84E-08 10943000 4037.5 4510.6 3835.8 4639.3 4646.1 5653.7 4927.2 4299.9 5758.8 4241.7 TRUE FALSE FALSE 4462.182775 4656.7464 4358.522848 4729.10036 4290.116822 5171.972953 4372.778488 4189.914784 5718.724042 4424.580445 1.008498507 1.052471857 0.985070314 1.068824585 0.969609859 1.168918278 0.988292233 0.946963183 1.292489562 1 12.11132494 -7.483374855 15.44543309 1.003748171 1.027933908 0 0.109042695 16.53242429 6464.454113 0.009663587 0.010853431 3.29E-08 7.483374855 0.024185737 SSSPAPADIAQTVQEDLR ddPTM_HeLa_SAHA_4h_R1 4 SSSPAPADIAQTVQEDLR 18 0 Q13283 Q13283 G3BP1 Ras GTPase-activating protein-binding protein 1 0 0 ;;; ;;; 197.06 7.29E-37 6356300 1353.832 1360.88 1519.011 1443.46 1447.243 1806.22 2112.5 1935.77 1253.79 1900.9 FALSE FALSE TRUE 1496.234261 1404.973405 1726.013908 1471.400256 1336.355554 1652.319894 1874.79594 1886.255806 1245.064773 1982.857102 0.754585018 0.708560089 0.870468127 0.742060663 0.673954544 0.833302558 0.945502295 0.951281766 0.627914524 1 10.953365 -9.339357989 1.064550214 0.999925235 0.804029871 0 0.14513065 0.447554457 0.908350691 0.065195995 0.017145426 4.58E-10 9.339357989 -0.195895364 SSSPAT(ph)EQSWMENDFDELREEGFR ddPTM_HeLa_SAHA_4h_R1 1 SSSPATEQSWMENDFDELREEGFR 24 1 Q9UN81 Q9UN81 L1RE1 LINE-1 retrotransposable element ORF1 protein 1 0 S(0.041)S(0.041)S(0.159)PAT(0.42)EQS(0.339)WMENDFDELREEGFR 73.796 0.0010037 1203100 70.311 207.09 116.82 150.54 153.68 246.38 147.95 0 182.5 135.42 TRUE FALSE FALSE 77.70663358 213.7998519 132.7396212 153.4539194 141.9050716 225.3870379 131.3022766 0 181.2299676 141.2586189 0.550101892 1.513534916 0.939692192 1.086333142 1.004576377 1.595563086 0.929516922 0 1.282965733 1 7.142195086 -10.13899739 3.249752939 1.003677374 0.879824 0 0.440760654 1.663791696 32.30844583 0.403986973 0.063831459 7.26E-11 10.13899739 -0.123853374 SSSPNS(ph)PLPMFR ddPTM_HeLa_SAHA_4h_R1 2 SSSPNSPLPMFR 12 0 A0A0U1RR27;Q7Z401;Q7Z401-2;H3BTW5 A0A0U1RR27 DENND4A C-myc promoter-binding protein 1 0 S(0.097)S(0.053)S(0.053)PNS(0.798)PLPMFR;S(0.002)S(0.054)S(0.054)PNS(0.891)PLPMFR ; 105.95 0.0039426 20230900 1294.21 1416.32 1373.65 1240.2 1306.56 1798.57 1239.19 1468.72 1554.98 1261.14 TRUE FALSE FALSE 1430.340946 1462.209697 1560.843868 1264.205864 1206.451655 1645.321718 1099.75308 1431.152269 1544.158768 1315.513917 1.087286822 1.111512146 1.186489818 0.960997712 0.917095319 1.250706432 0.835987416 1.087903556 1.173806485 1 10.3614108 SSSQLGS(ph)PDVSHLIR ddPTM_HeLa_SAHA_4h_R1 1 SSSQLGSPDVSHLIR 15 0 Q9HCD6;Q9HCD6-2 Q9HCD6 TANC2 Protein TANC2 1 0 SSSQLGS(1)PDVSHLIR 124.25 0.00046585 4025800 1135.8 1138.1 872.37 1519.7 1371.5 1703.6 1172.1 1613.6 1564.2 1412.1 TRUE FALSE FALSE 1255.268655 1174.975187 991.2520405 1549.115991 1266.415966 1558.443696 1040.212223 1572.326448 1553.314605 1472.982542 0.852195202 0.797684394 0.672955729 1.051686593 0.859763053 1.058019122 0.706194536 1.067444049 1.05453701 1 10.52452462 -9.270122989 1.08919082 0.997469866 0.877471372 0.143093804 0.134760252 0.865953078 1.89633792 0.075356623 0.022234683 5.37E-10 9.270122989 -0.119998494 SSSQPAAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 SSSQPAAKR 9 1 O94776-2;O94776 O94776-2 MTA2 Metastasis-associated protein MTA2 0 1 ; SSSQPAAK(1)R;SSSQPAAK(1)R 126.07 0.00084987 1092390 0 124.49 170.33 540.08 536.28 574.65 1731.86 1637.98 41.465 156.522 FALSE TRUE FALSE 0 128.5235577 193.5416854 550.5340294 495.1903423 525.6865871 1536.986555 1596.082843 41.17644169 163.2704294 0 0.787182089 1.185405625 3.371915119 3.032945672 3.21972931 9.413747243 9.775700652 0.252197791 1 7.351119712 -4.448374968 0.641897815 0.541588374 15.64877722 0.911206086 1.012958453 0.49623721 0.161400825 0.179406109 5.2223338 3.56E-05 4.448374968 15.10718885 SSSQPS(ph)SCCSDPSKPGGNVEGATQSLAEQMR ddPTM_HeLa_SAHA_4h_R1 1 SSSQPSSCCSDPSKPGGNVEGATQSLAEQMR 31 1 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 1 0 S(0.083)S(0.083)S(0.265)QPS(0.329)S(0.092)CCS(0.074)DPS(0.074)KPGGNVEGATQSLAEQMR 54.622 0.006463 0 260.7 143.03 178.63 230.06 305.68 219.92 193.14 272.84 212.28 119.7 TRUE FALSE FALSE 288.1216221 147.6642658 202.9727661 234.513144 282.2588644 201.1815788 171.4073789 265.8611479 210.8027262 124.8608528 2.307541681 1.182630605 1.625591701 1.878195917 2.260587351 1.611246233 1.372787187 2.129259427 1.688301189 1 6.964177414 -9.574238393 1.346251439 0.998691254 1.839009463 0.071395145 0.406258864 0.348563583 1.129673009 0.265796553 0.061786375 2.67E-10 9.574238393 0.840318209 SSSQPSS(ph)CCSDPSKPGGNVEGATQSLAEQMR ddPTM_HeLa_SAHA_4h_R1 1 SSSQPSSCCSDPSKPGGNVEGATQSLAEQMR 31 1 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 1 0 S(0.006)S(0.006)S(0.087)QPS(0.15)S(0.404)CCS(0.258)DPS(0.089)KPGGNVEGATQSLAEQMR 112.01 5.67E-10 25889000 677.48 729.93 662.07 831.16 706.14 914.69 863.08 711.15 966.33 912.11 TRUE FALSE FALSE 748.7404548 753.5802109 752.2934517 847.2483037 652.0357058 836.7532661 765.9639669 692.9598127 959.6052309 951.4355259 0.78695869 0.792045483 0.790693044 0.890494711 0.685317805 0.879463971 0.805061348 0.728330816 1.008586714 1 9.893962085 -9.230937117 0.68545093 1.020315419 0.794532874 0.675103204 0.057899168 0.428026368 0.312724304 0.057113191 0.011433282 5.88E-10 9.230937117 -0.225782544 SSSQPSSCCS(ph)DPSKPGGNVEGATQSLAEQMR ddPTM_HeLa_SAHA_4h_R1 1 SSSQPSSCCSDPSKPGGNVEGATQSLAEQMR 31 1 E7EMC7;Q13501;Q13501-2 E7EMC7 SQSTM1 Sequestosome-1 1 0 SSSQPS(0.084)S(0.217)CCS(0.566)DPS(0.132)KPGGNVEGAT(0.001)QSLAEQMR 101.98 5.32E-09 18786000 362.26 554.66 303.82 336.71 434.78 605.72 541.73 448.12 519.76 491.85 TRUE FALSE FALSE 400.3641689 572.6313479 345.2230074 343.2275089 401.4672503 554.1092483 480.7731146 436.6577393 516.1429478 513.0560606 0.7803517 1.116118475 0.6728758 0.668986365 0.782501721 1.080016963 0.937077157 0.85109167 1.006016667 1 9.002972664 -9.54727658 1.259844277 1.001490633 0.853799196 0.133698791 0.143012893 0.841834564 2.353604187 0.108670026 0.024671276 2.84E-10 9.54727658 -0.147691437 SSSS(ph)PELQTLQDILGDPGDKADVGR ddPTM_HeLa_SAHA_4h_R1 1 SSSSPELQTLQDILGDPGDKADVGR 25 1 H3BMQ0;P49815;A0A2R8Y5F1;A0A2R8YGD6;A0A2R8Y7C8;A0A2R8YDR3;A0A2R8Y7X5;A0A2R8YDZ2;X5D2U8;A0A2R8YGU4;A0A2R8Y6C9;P49815-5;P49815-3;P49815-2;P49815-6;P49815-7;P49815-4;H3BQK4;A0A2R8Y670 H3BMQ0 TSC2 Tuberin 1 0 S(0.001)S(0.001)S(0.028)S(0.971)PELQTLQDILGDPGDKADVGR 184.6 5.31E-18 13963000 1907.7 1683.2 1791.3 1748.3 2413.9 2730.2 1884.3 2110.4 1997.4 2035.9 TRUE FALSE FALSE 2108.360639 1737.736784 2035.409035 1782.140875 2228.947503 2497.5716 1672.273605 2056.419024 1983.499931 2123.677612 0.992787524 0.818267695 0.958435981 0.839176749 1.049569619 1.176059674 0.78744231 0.968329191 0.933992956 1 11.05234906 -7.479295368 24.97412033 0.996818144 0.943342266 0.00789806 0.110022651 1104.451646 632876.6523 0.018282797 0.020763635 3.32E-08 7.479295368 -0.053475878 SSSS(ph)PLVVVSVK ddPTM_HeLa_SAHA_4h_R1 1 SSSSPLVVVSVK 12 0 Q96B01-3;Q96B01-2;Q96B01 Q96B01-3 RAD51AP1 RAD51-associated protein 1 1 0 SS(0.002)S(0.021)S(0.978)PLVVVSVK 191.48 5.14E-07 3545300 1528.9 1690.7 1231.9 1621.1 1791.3 1845.3 1819.9 1493 2353.3 1778.2 TRUE FALSE FALSE 1689.716717 1745.479789 1399.776917 1652.478735 1654.050981 1688.070059 1615.120062 1454.811222 2336.923194 1854.866904 0.910963861 0.941026974 0.754650866 0.890888037 0.89173567 0.910076111 0.870747146 0.784321084 1.259887266 1 10.85709995 -8.347909464 0.403555705 1.015027443 0.852428559 0.439193228 0.098312303 0.817399182 0.292251755 0.055891754 0.022777598 4.49E-09 8.347909464 -0.162598884 SSSSS(ph)ASPSSPSSR ddPTM_HeLa_SAHA_4h_R1 1 SSSSSASPSSPSSR 14 0 E9PK91;Q9NYF8-3;H0YF63;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 S(0.004)S(0.004)S(0.001)S(0.019)S(0.451)AS(0.157)PS(0.263)S(0.101)PS(0.001)SR 83.087 0.014587 174560 0 67.625 0 131.37 0 155.44 0 0 0 69.8 TRUE FALSE FALSE 0 69.81609437 0 133.9128563 0 142.1956375 0 0 0 72.80941959 0 0.958888215 0 1.839224335 0 1.952984082 0 0 0 1 6.186053204 -9.802078461 1.818766696 1.00117359 0.512261874 0 0.79409073 0.907918402 5.438486239 0.515736911 0.107603157 1.58E-10 9.802078461 -0.488911716 SSSSS(ph)QESLNRPFSSK ddPTM_HeLa_SAHA_4h_R1 5 SSSSSQESLNRPFSSK 16 1 E3W994;J3KR49;O75122;A0A0U1RQI6;B3KR06;E7ENG2;O75122-2;E7ERI8;E7EW49;O75122-3 E3W994;E7ERI8 CLASP2 CLIP-associating protein 2 1 0 SSSS(0.005)S(0.995)QESLNRPFSSK;SSSS(0.008)S(0.992)QESLNRPFSSK;SSSS(0.025)S(0.953)QES(0.021)LNRPFSSK;S(0.044)S(0.044)S(0.138)S(0.211)S(0.563)QES(0.001)LNRPFSSK;SSSS(0.012)S(0.987)QES(0.001)LNRPFSSK ;;;; 223.29 1.30E-20 132952200 9434.48 10033.6 8928.87 9734.1 10777.7 11736 10898.2 10347.8 9429.4 9441.2 TRUE FALSE FALSE 10426.84189 10358.69522 10145.6499 9922.517581 9951.914954 10736.02678 9671.905854 10083.11826 9363.780038 9848.256336 1.058750051 1.051830382 1.030197586 1.007540548 1.010525581 1.090144936 0.982093228 1.023848072 0.950805881 1 13.2656526 -6.480593882 24.69271408 1.03083382 1.02314795 0 0.038926673 2378.621185 1389030.597 0.005173962 0.007902839 3.31E-07 6.480593882 -0.00768587 SSSSS(ph)QESLNRPLSAK ddPTM_HeLa_SAHA_4h_R1 2 SSSSSQESLNRPLSAK 16 1 H0Y5T1;Q7Z460-2;Q7Z460-3;F8WA11;Q7Z460-5;Q7Z460;Q7Z460-4 H0Y5T1;Q7Z460-4 CLASP1 CLIP-associating protein 1 1 0 SSS(0.003)S(0.026)S(0.968)QES(0.003)LNRPLSAK;S(0.03)S(0.021)S(0.017)S(0.069)S(0.853)QES(0.011)LNRPLSAK ; 140.46 0.00049469 12524500 2399.2 2075.92 1901.58 2560.4 2598.7 3146.4 2700.2 2549.4 2752.6 2283.6 TRUE FALSE FALSE 2651.558864 2143.18117 2160.717419 2609.960244 2399.588167 2878.309019 2396.366389 2484.190039 2733.444432 2382.057172 1.113138213 0.899718611 0.90708042 1.095674896 1.007359603 1.208329109 1.006007084 1.04287591 1.147514201 1 11.21799232 SSSSSAS(ph)PS(ph)SPSSREEK ddPTM_HeLa_SAHA_4h_R1 1 SSSSSASPSSPSSREEK 17 1 E9PK91;Q9NYF8-3;H0YF63;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 2 0 S(0.003)S(0.004)S(0.023)S(0.171)S(0.289)AS(0.499)PS(0.935)S(0.047)PS(0.027)S(0.002)REEK 94.007 0.0067284 0 320.17 285.74 289.76 330.03 351.26 308.32 281.72 366.39 136.4 381.79 TRUE FALSE FALSE 353.8469496 294.9981635 329.2469838 336.4182079 324.3465347 282.0494014 250.0201242 357.0182743 135.4507813 398.2508353 0.888502718 0.740734576 0.826732689 0.844739491 0.814427757 0.708220489 0.627795605 0.896465852 0.340114243 1 8.637533578 -7.7611208 0.400911134 1.013623917 0.741648309 0 0.219641489 0.521608174 0.226854315 0.054268772 0.039472692 1.73E-08 7.7611208 -0.271975608 SSSSSASPS(ph)SPSSREEKESK ddPTM_HeLa_SAHA_4h_R1 3 SSSSSASPSSPSSREEKESK 20 2 E9PK91;Q9NYF8-3;H0YF63;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 SSSS(0.001)S(0.004)AS(0.138)PS(0.674)S(0.138)PS(0.024)S(0.02)REEKESK;SSSSSAS(0.008)PS(0.537)S(0.454)PS(0.001)S(0.001)REEKESK;SSSSS(0.002)AS(0.08)PS(0.482)S(0.426)PS(0.001)S(0.007)REEKES(0.001)K ;; 88.385 0.0011191 13706000 2662.35 905.68 2455.7 1856.14 1234.19 1215.32 2205.79 2988.33 226.59 1454.17 TRUE FALSE FALSE 2942.388188 935.0246262 2790.350007 1892.068274 1139.626629 1111.767899 1957.588704 2911.892846 225.0131417 1516.866385 1.939780733 0.616418582 1.839548977 1.247353288 0.751303239 0.732937264 1.290547884 1.919676561 0.148340779 1 10.56687829 -6.006243227 24.82311321 1.412766886 1.131596051 0 0.617502638 654.2749989 2601422.286 0.078088781 0.138109319 9.86E-07 6.006243227 -0.281170835 SSSSSASPSS(ph)PSSR ddPTM_HeLa_SAHA_4h_R1 6 SSSSSASPSSPSSR 14 0 E9PK91;Q9NYF8-3;H0YF63;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 SSSSS(0.004)AS(0.002)PS(0.002)S(0.985)PS(0.006)SR;SSSSSASPS(0.023)S(0.923)PS(0.049)S(0.005)R;SSSSSASPS(0.075)S(0.918)PS(0.007)SR;SSSSSAS(0.003)PS(0.007)S(0.978)PS(0.01)S(0.001)R;SSSSSAS(0.006)PS(0.195)S(0.7)PS(0.097)S(0.002)R;SSSSSAS(0.021)PS(0.091)S(0.398)PS(0.398)S(0.091)R ;;;;; 225.33 3.93E-24 128744840 2495.863 3441.45 2727.032 3670.24 4793.441 7444.249 4529.68 3541.683 5207.5 6825.45 TRUE FALSE FALSE 2758.389322 3552.955238 3098.657719 3741.282802 4426.168586 6809.957105 4019.988485 3451.091877 5171.260584 7119.728552 0.387429001 0.499029592 0.435221329 0.525481102 0.621676593 0.956491115 0.56462665 0.484722395 0.726328335 1 12.79760652 -9.437591375 1.167235221 1.000118947 0.551072443 0.299029265 0.167887179 0.315264711 0.767929589 0.113834218 0.028436097 3.65E-10 9.437591375 -0.449046504 SSSSSASPSS(ph)PSSREEK ddPTM_HeLa_SAHA_4h_R1 3 SSSSSASPSSPSSREEK 17 1 E9PK91;Q9NYF8-3;H0YF63;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 S(0.001)S(0.001)S(0.005)S(0.004)S(0.046)AS(0.11)PS(0.188)S(0.565)PS(0.04)S(0.04)REEK;SSSSSASPS(0.215)S(0.699)PS(0.066)S(0.02)REEK;S(0.001)S(0.001)S(0.003)S(0.002)S(0.007)AS(0.003)PS(0.383)S(0.557)PS(0.022)S(0.022)REEK ;; 150.92 0.0002848 56792900 4872.6 3765.9 4080.9 4452 4759 4241 4879 5921.2 2965.73 3857.4 TRUE FALSE FALSE 5385.122424 3887.917631 4637.0238 4538.174898 4394.366448 3879.642941 4330.002079 5769.744278 2945.091243 4023.711392 1.338347088 0.966251615 1.152424552 1.127857954 1.092117704 0.964195133 1.076121436 1.433935915 0.731934017 1 11.97431111 SSSSSASPSS(ph)PSSREEKESK ddPTM_HeLa_SAHA_4h_R1 1 SSSSSASPSSPSSREEKESK 20 2 E9PK91;Q9NYF8-3;H0YF63;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 SSSSS(0.001)AS(0.044)PS(0.241)S(0.329)PS(0.121)S(0.262)REEKES(0.001)K 67.252 0.0066094 7195300 1395.5 428.65 1367.1 650.41 622.53 447.67 1208.3 1252.9 201.3 672.8 TRUE FALSE FALSE 1542.285093 442.5385412 1553.401268 662.9996261 574.8318859 409.5259975 1072.338904 1220.852632 199.8991369 701.8077006 2.197589299 0.630569515 2.213428646 0.944702695 0.81907321 0.583530214 1.527966853 1.739582839 0.28483463 1 9.454931968 -7.256273868 24.99210413 1.565528275 1.210202477 0 0.685517694 1011.699409 4894870.256 0.107226268 0.129229256 5.54E-08 7.256273868 -0.355325799 SSSSSASPSSPS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 SSSSSASPSSPSSR 14 0 E9PK91;Q9NYF8-3;H0YF63;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 SSSSSAS(0.001)PS(0.015)S(0.36)PS(0.542)S(0.082)R 104.9 0.0031811 1409900 137.43 225.87 171.39 249.43 230.99 477.94 221.75 308.34 166.62 343.73 TRUE FALSE FALSE 151.885518 233.1883362 194.7461366 254.2580783 213.2915961 437.2168232 196.7981064 300.4531093 165.4604779 358.5498825 0.423610564 0.650365117 0.543149353 0.709128885 0.594872866 1.219403058 0.548872322 0.83796739 0.461471293 1 8.486030034 -3.91936478 17.56661624 0.71816321 3.964056989 0.018558099 0.237169418 458.618013 103596.6421 0.03559516 2138.829896 0.000120402 3.91936478 3.245893779 SSSSSASPSSPS(ph)SREEK ddPTM_HeLa_SAHA_4h_R1 1 SSSSSASPSSPSSREEK 17 1 E9PK91;Q9NYF8-3;H0YF63;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 SSSSSASPS(0.092)S(0.255)PS(0.326)S(0.326)REEK 82.859 0.0049505 7354100 1385.4 962.37 1139.9 1017.9 1336.6 1180.1 1649.6 1543.8 507.33 937.15 TRUE FALSE FALSE 1531.122728 993.5514194 1295.239636 1037.602926 1234.189997 1079.548841 1463.982666 1504.311831 503.7994492 977.5551228 1.566277638 1.016363575 1.324978618 1.061426514 1.262527266 1.104335516 1.497596025 1.538851157 0.515366794 1 9.933034246 -4.682524616 7.502676358 1.235276594 1.524511265 0.149716475 0.280692337 0.277001678 22.30732087 0.030506626 0.115265584 2.08E-05 4.682524616 0.289234671 SSSSSGVPYS(ph)PAIPNK ddPTM_HeLa_SAHA_4h_R1 4 SSSSSGVPYSPAIPNK 16 0 A0A0A0MRE1;B4DJ07;A0A0A0MSB8;Q9UPT5-4;Q9UPT5-2;Q9UPT5-5;Q9UPT5-1;Q9UPT5-6;Q9UPT5 A0A0A0MRE1 EXOC7 Exocyst complex component 7 1 0 SSSSSGVPYS(0.999)PAIPNK;SSSS(0.001)S(0.004)GVPY(0.001)S(0.994)PAIPNK;SSSSSGVPYS(1)PAIPNK;SSSSSGVPYS(1)PAIPNK ;;; 220.25 8.98E-21 108502900 15077.6 15564.2 14171.3 15375.5 15541.2 15277.2 16203.2 16112.6 16279 15562 TRUE FALSE FALSE 16663.53115 16068.49029 16102.49096 15673.11504 14350.43661 13975.49661 14379.97329 15700.46302 16165.71311 16232.95398 1.026524881 0.98986853 0.991963076 0.965512196 0.884031128 0.860933668 0.885850678 0.967196916 0.995857755 1 13.98663794 -6.006028039 2.315943349 1.009840955 0.895655019 0.732445971 0.028466363 0.104313662 1.118817848 0.004434901 0.008447513 9.86E-07 6.006028039 -0.114185936 SSSSSGVPYS(ph)PAIPNKR ddPTM_HeLa_SAHA_4h_R1 3 SSSSSGVPYSPAIPNKR 17 1 A0A0A0MRE1;B4DJ07;A0A0A0MSB8;Q9UPT5-4;Q9UPT5-2;Q9UPT5-5;Q9UPT5-1;Q9UPT5-6;Q9UPT5 A0A0A0MRE1 EXOC7 Exocyst complex component 7 1 0 S(0.001)SS(0.007)S(0.027)S(0.02)GVPY(0.003)S(0.941)PAIPNKR;SSSSSGVPYS(1)PAIPNKR;S(0.003)S(0.001)S(0.003)S(0.002)S(0.011)GVPY(0.014)S(0.966)PAIPNKR ;; 130.47 0.00030102 28824600 6059.9 6081.7 5320.7 5391.8 6219.4 6295.8 5885.5 6125.7 5736.2 6072.4 TRUE FALSE FALSE 6697.308086 6278.75107 6045.777287 5496.166086 5742.870916 5759.362421 5223.24805 5969.013464 5696.281317 6334.210882 1.057323195 0.991244401 0.954464163 0.86769547 0.906643467 0.909247028 0.824609118 0.942345238 0.899288234 1 12.62894918 -6.628066175 2.10540793 1.02666658 0.888395433 0.363385707 0.051857406 0.105251354 0.949336943 0.005656657 0.0084915 2.35E-07 6.628066175 -0.138271147 SSSSVGS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 2 SSSSVGSPTR 10 0 Q9HCD6;Q9HCD6-2 Q9HCD6 TANC2 Protein TANC2 1 0 SSSSVGS(0.732)PT(0.268)R;SSSSVGS(0.993)PT(0.007)R ; 143 0.00099764 19396800 3039.6 2986.9 3178.9 4032.1 4339.1 7210.5 5268.5 4370.3 4912.2 6877 TRUE FALSE FALSE 3359.319074 3083.67752 3612.103937 4110.147126 4006.639095 6596.124835 4675.674514 4258.514054 4878.0156 7173.501125 0.468295608 0.42987064 0.50353431 0.572962498 0.558533278 0.919512623 0.651798115 0.593645136 0.680004856 1 12.8084617 -9.359244281 1.08879231 0.999419234 0.582979761 0.198676667 0.158865838 0.305832272 0.650086554 0.096313247 0.025178335 4.37E-10 9.359244281 -0.416439473 SSST(ph)SDILEPFTVER ddPTM_HeLa_SAHA_4h_R1 1 SSSTSDILEPFTVER 15 0 A0A1B0GUI1;Q6GYQ0-3;Q6GYQ0-4;Q6GYQ0;Q6GYQ0-7;Q6GYQ0-5;Q6GYQ0-6;Q6GYQ0-2 A0A1B0GUI1 RALGAPA1 Ral GTPase-activating protein subunit alpha-1 1 0 SSS(0.331)T(0.667)S(0.001)DILEPFTVER 258.96 7.08E-44 9554800 694.57 808.94 568.47 811.19 854.79 851.67 834.88 859.58 548.04 698.07 TRUE FALSE FALSE 767.6280594 835.1501868 645.9381311 826.8917555 789.2961749 779.1029246 740.9371051 837.5931883 544.226145 728.167214 1.054192011 1.146920887 0.887073901 1.135579493 1.083949071 1.069950569 1.017537031 1.150275887 0.747391718 1 9.508125974 SSSTGSSSSTGGGGQESQPS(ph)PLALLAATCSR ddPTM_HeLa_SAHA_4h_R1 2 SSSTGSSSSTGGGGQESQPSPLALLAATCSR 31 0 P08047;H3BVI2;P08047-2 P08047 SP1 Transcription factor Sp1 1 0 SSSTGSSSSTGGGGQES(0.132)QPS(0.868)PLALLAATCSR;SSSTGSSSSTGGGGQES(0.013)QPS(0.987)PLALLAATCSR ; 137.7 3.32E-14 11376800 681 820.12 504.48 602.25 777.5 853.15 576.53 656.66 642.67 734.79 TRUE FALSE FALSE 752.6307045 846.6924261 573.2279072 613.9074196 717.928118 780.4568203 511.6573271 639.863588 638.1976071 766.4703929 0.98194361 1.10466423 0.747880039 0.80095386 0.936667776 1.018247838 0.667550021 0.834818401 0.832644826 1 9.582086254 -6.758298406 24.99999899 0.999724441 0.838262427 0.290308671 0.109561906 62.7269242 499260.5836 0.015223538 0.021010264 1.74E-07 6.758298406 -0.161462014 SSSTS(ph)ESGDSDNMR ddPTM_HeLa_SAHA_4h_R1 1 SSSTSESGDSDNMR 14 0 O75179-4;O75179-6;O75179-2;O75179;H0YM23;O75179-7 O75179-4 ANKRD17 Ankyrin repeat domain-containing protein 17 1 0 S(0.004)S(0.001)S(0.007)T(0.014)S(0.97)ES(0.002)GDS(0.002)DNMR 121.42 0.00086706 2784900 1317.1 856.69 1608.8 3223.2 1037.6 1920.6 1335.2 1572.3 2160.5 1607.5 TRUE FALSE FALSE 1455.638621 884.4473181 1828.038886 3285.589697 958.0993122 1756.954075 1184.959782 1532.082843 2145.464905 1676.807192 0.86810137 0.527459163 1.09019027 1.959432016 0.571383112 1.047797316 0.706676228 0.913690524 1.279494097 1 10.71150109 SSSVGSSSSYPIS(ph)PAVSR ddPTM_HeLa_SAHA_4h_R1 4 SSSVGSSSSYPISPAVSR 18 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 1 0 SSSVGS(0.013)S(0.013)S(0.013)SYPIS(0.962)PAVSR;SSSVGSSSSYPIS(1)PAVSR;SSSVGSSSS(0.001)YPIS(0.999)PAVSR;SSSVGSSSSYPIS(1)PAVSR ;;; 353.55 1.10E-160 376144000 4795.48 5250.3 4833.93 4258.03 6069.85 6979.4 5425 5041.54 4759.65 4762.54 TRUE FALSE FALSE 5299.890589 5420.413165 5492.672806 4340.450328 5604.779404 6384.715855 4814.564722 4912.584707 4726.527208 4967.876407 1.066832215 1.091092596 1.105637974 0.873703364 1.128204276 1.285200221 0.969139392 0.988870154 0.951418035 1 12.27841357 SSSVLS(ph)LEGSEK ddPTM_HeLa_SAHA_4h_R1 1 SSSVLSLEGSEK 12 0 A1L390-3;A1L390;G3V311;A1L390-2;A0A0U1RR71 A1L390-3 PLEKHG3 Pleckstrin homology domain-containing family G member 3 1 0 S(0.003)S(0.008)S(0.121)VLS(0.867)LEGSEK 101.45 0.0056918 4356300 1491.8 1431.7 1657.3 1467.9 1407.1 1990.6 1611.9 1689.9 1716.2 1513.2 TRUE FALSE FALSE 1648.714369 1478.088019 1883.148213 1496.313327 1299.288302 1820.989681 1430.52477 1646.674805 1704.256824 1578.441457 1.044520442 0.936422452 1.193042798 0.947968846 0.823146336 1.15366311 0.906289405 1.043228304 1.079708605 1 10.62428504 SSSVS(ph)PSASFR ddPTM_HeLa_SAHA_4h_R1 3 SSSVSPSASFR 11 0 Q04727-4;Q04727;Q04727-3;H7C4W5;H7C4P7;Q5JSY7;Q04727-2 Q04727-4 TLE4 Transducin-like enhancer protein 4 1 0 S(0.001)SS(0.016)VS(0.931)PS(0.052)ASFR;S(0.015)S(0.002)S(0.013)VS(0.962)PS(0.008)ASFR;SSSVS(0.994)PS(0.006)ASFR ;; 184.44 1.42E-06 50977500 4362.59 4162.3 3853.67 4145.65 5042.1 4348.9 4675 4633 4055.82 3866.95 TRUE FALSE FALSE 4821.467232 4297.161251 4378.828079 4225.89505 4655.775387 3978.349254 4148.956696 4514.494569 4027.595218 4033.673139 1.195304395 1.065322128 1.085568396 1.04765431 1.154227233 0.98628449 1.028580292 1.119201882 0.998493205 1 11.97787847 -5.257378754 24.96284502 1.091775772 1.043078036 0.022853481 0.06607447 772.0007694 4745892.61 0.011211869 0.027429878 5.53E-06 5.257378754 -0.048697736 SSSVS(ph)PSSWK ddPTM_HeLa_SAHA_4h_R1 2 SSSVSPSSWK 10 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 SS(0.001)S(0.016)VS(0.597)PS(0.114)S(0.272)WK;SSSVS(0.959)PS(0.027)S(0.014)WK ; 108.35 0.0061652 13408600 2972.9 3237.7 3263.4 3269.6 3795.3 3948 3891.5 3605.7 4017.4 3577.9 TRUE FALSE FALSE 3285.603262 3342.603604 3708.119157 3332.887836 3504.504934 3611.608189 3453.618178 3513.471415 3989.442586 3732.160779 0.8803488 0.895621545 0.993558257 0.89301829 0.939001598 0.967698983 0.925366934 0.941404088 1.068936421 1 11.86579542 -9.578541508 1.385161243 0.999695439 0.924004725 0.470180526 0.040337588 0.35156438 1.217195427 0.024428921 0.00580543 2.64E-10 9.578541508 -0.075690714 SSSVSPSSWKS(ph)PPAS(ph)PESWK ddPTM_HeLa_SAHA_4h_R1 1 SSSVSPSSWKSPPASPESWK 20 1 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 2 0 SSSVS(0.004)PS(0.017)S(0.086)WKS(0.892)PPAS(0.542)PES(0.458)WK 79.177 0.017112 2637100 706.87 623.22 571.92 648.83 889.28 756.98 894.36 794.78 693.14 705.47 TRUE FALSE FALSE 781.2218298 643.4127369 649.8582792 661.3890429 821.1435585 692.4810453 793.724259 774.4506784 688.3163823 735.8862642 1.061606756 0.874337202 0.883096085 0.898765305 1.115856619 0.941016403 1.078596378 1.0524054 0.935357019 1 9.523338996 -4.730545123 24.94116456 1.00036055 1.06550097 0.082329712 0.080706372 396.9849523 320483.0706 0.011716527 0.043829307 1.86E-05 4.730545123 0.06514042 SSSVSSSAASS(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 SSSVSSSAASSPER 14 0 Q8WWQ0 Q8WWQ0 PHIP PH-interacting protein 1 0 SSSVSSSAAS(0.153)S(0.847)PER 122.66 0.00018371 0 522.64 529.3 413.7 341.05 383.12 532.2 629.58 464.2 452.38 448.99 TRUE FALSE FALSE 577.6136732 546.4496673 470.0768815 347.6515159 353.7654284 486.8535659 558.7380014 452.3264362 449.2318507 468.3481562 1.23329977 1.166759514 1.003691112 0.74229291 0.755347114 1.03951208 1.19299712 0.965791004 0.959183558 1 8.871437575 -6.582605195 6.087566315 1.116761166 0.941491042 0.189472184 0.142296979 0.237618774 17.61814159 0.025145615 0.035771931 2.61E-07 6.582605195 -0.175270124 SSSVTS(ph)IDKESR ddPTM_HeLa_SAHA_4h_R1 1 SSSVTSIDKESR 12 1 H0Y332;Q5T5C0-3;Q5T5C0-2;Q5T5C0;Q5JRH0 H0Y332 STXBP5 Syntaxin-binding protein 5 1 0 SSSVT(0.002)S(0.998)IDKESR 234.87 2.33E-22 16793000 4972 4348.5 4572.8 3810.2 4418.3 5718.8 4111.1 4260.6 3852.8 4380.6 TRUE FALSE FALSE 5494.977772 4489.394253 5195.95737 3883.951931 4079.770809 5231.526067 3648.508208 4151.620021 3825.988051 4569.469104 1.202541837 0.982476115 1.137103075 0.849978814 0.892832562 1.144887064 0.798453414 0.908556317 0.837293778 1 12.15781084 -6.267076169 24.98015898 1.090612882 0.923349864 0.078831716 0.130374684 405.5449755 1797224.049 0.017443614 0.027104996 5.41E-07 6.267076169 -0.167263018 SST(ph)DFSELEQPR ddPTM_HeLa_SAHA_4h_R1 2 SSTDFSELEQPR 12 0 Q86V48-2;Q86V48-3;Q86V48 Q86V48-2 LUZP1 Leucine zipper protein 1 1 0 S(0.002)S(0.002)T(0.995)DFS(0.001)ELEQPR;S(0.001)S(0.001)T(0.997)DFSELEQPR ; 249.98 9.43E-32 56259000 2963.2 3270.2 3055 3052.7 3616.5 3728.7 3231.8 3734.9 2158.71 2593.1 TRUE FALSE FALSE 3274.882972 3376.156626 3471.31949 3111.789423 3339.404551 3410.993783 2868.149358 3639.366666 2143.687361 2704.901231 1.210721831 1.248162627 1.283344268 1.150426266 1.234575412 1.261041898 1.060352713 1.345471185 0.792519644 1 11.4013602 -9.017907481 0.712121862 0.991561331 1.221997264 0.591544911 0.100316024 0.409175962 0.362973504 0.05372704 0.014566721 9.60E-10 9.017907481 0.230435933 SST(ph)GPEPPAPTPLLAER ddPTM_HeLa_SAHA_4h_R1 1 SSTGPEPPAPTPLLAER 17 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.039)S(0.039)T(0.922)GPEPPAPTPLLAER 75.998 0.021129 3564800 318.11 417.11 387.87 429.67 470.96 588.15 413.82 392.78 683.32 516.1 TRUE FALSE FALSE 351.5702693 430.6246377 440.7269037 437.9868842 434.8751465 538.0363112 367.2558845 382.7332563 678.5647205 538.3515967 0.653049553 0.79989479 0.818659973 0.813570326 0.807790205 0.99941435 0.68218593 0.71093549 1.260448979 1 9.072404893 -9.559531791 1.343070304 0.999567914 0.774724348 0.486348516 0.125364938 0.34314349 1.112600292 0.069365217 0.016483606 2.76E-10 9.559531791 -0.224843566 SST(ph)PEEVK ddPTM_HeLa_SAHA_4h_R1 3 SSTPEEVK 8 0 P23528;G3V1A4;E9PP50;E9PK25;E9PQB7;E9PLJ3;E9PS23 P23528 CFL1 Cofilin-1 1 0 S(0.314)S(0.046)T(0.641)PEEVK;S(0.002)S(0.002)T(0.996)PEEVK;S(0.065)S(0.065)T(0.87)PEEVK ;; 145.46 0.00075091 45625000 13888 16107.5 11949.1 19054.3 19443.6 27844.6 22591.8 19123 22573.9 23456.9 TRUE FALSE FALSE 15348.80356 16629.39357 13577.46112 19423.12353 17953.83557 25472.08343 20049.71121 18633.86135 22416.80639 24468.24175 0.627294912 0.679631734 0.55490138 0.793809532 0.733760756 1.04102631 0.819417734 0.761552936 0.916159265 1 14.57862282 -4.233961157 18.6525208 0.799367993 0.76155135 0.0044771 0.148572942 2144.38537 1454858.62 0.024778755 1.438875985 5.83E-05 4.233961157 -0.037816643 SST(ph)PLHS(ph)PSPIR ddPTM_HeLa_SAHA_4h_R1 1 SSTPLHSPSPIR 12 0 O95817;C9JFK9 O95817 BAG3 BAG family molecular chaperone regulator 3 2 0 S(0.27)S(0.329)T(0.402)PLHS(0.747)PS(0.253)PIR 74.141 0.023546 25100000 2774.5 4409.3 2740.6 3135.1 3757.8 4040.9 3886.2 3992 3537.8 3859.6 TRUE FALSE FALSE 3066.33464 4552.164213 3114.074696 3195.784394 3469.878176 3696.592587 3448.914548 3889.89042 3513.180162 4026.006244 0.761631864 1.130689804 0.773489783 0.793785255 0.861866069 0.918178553 0.856659016 0.966190856 0.872621638 1 11.97513369 -9.680410692 1.544178533 1.000021017 0.864367603 0 0.110782529 0.5428737 2.330952286 0.074564532 0.016593945 2.09E-10 9.680410692 -0.135653414 SST(ph)PLPTISSSAENTR ddPTM_HeLa_SAHA_4h_R1 6 SSTPLPTISSSAENTR 16 0 P42166;P42167;G5E972;H0YJH7;P42167-2;P42167-3 P42166;P42167 TMPO "Lamina-associated polypeptide 2, isoform alpha;Thymopoietin;Thymopentin;Lamina-associated polypeptide 2, isoforms beta/gamma;Thymopoietin;Thymopentin" 1 0 S(0.004)S(0.007)T(0.989)PLPTISSSAENTR;SS(0.003)T(0.997)PLPTISSSAENTR;S(0.004)S(0.004)T(0.992)PLPTISSSAENTR;S(0.088)S(0.088)T(0.823)PLPTISSSAENTR;SST(0.999)PLPTISSSAENTR;S(0.093)S(0.093)T(0.814)PLPTISSSAENTR ;;;;; 244.57 3.94E-36 1771400000 10651.13 12812.91 11131.42 9779.69 9985.2 11770.69 11429.44 9182.71 11234.69 10891.41 TRUE FALSE FALSE 11771.46472 13228.05669 12648.35195 9968.990042 9220.136133 10767.76099 10143.36933 8947.829575 11156.50688 11360.99199 1.036130008 1.164339937 1.113314045 0.877475317 0.811560834 0.947783521 0.892824266 0.787592279 0.982001122 1 13.47180119 -6.203595803 8.747314988 1.037411117 0.866532781 0.684654417 0.065573253 0.217439917 31.31481564 0.010426311 0.01729999 6.26E-07 6.203595803 -0.170878336 SST(ph)PPGESYFGVSSLQLK ddPTM_HeLa_SAHA_4h_R1 3 SSTPPGESYFGVSSLQLK 18 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 S(0.155)S(0.03)T(0.816)PPGESYFGVSSLQLK;S(0.064)S(0.1)T(0.835)PPGESYFGVSSLQLK;S(0.085)S(0.085)T(0.83)PPGESYFGVSSLQLK ;; 174.4 1.13E-08 417371600 9922.2 11435.2 10468.6 10857.8 12202.9 12765.2 12397.1 10958.8 13115.2 10909.6 TRUE FALSE FALSE 10965.86252 11805.70798 11895.20629 11067.96842 11267.91644 11677.53314 11002.14568 10678.48976 13023.93026 11379.96625 0.963611164 1.037411511 1.045276061 0.972583589 0.990153766 1.026148311 0.9667995 0.93835865 1.144461238 1 13.47420866 -4.526578872 24.44416517 0.993070578 0.945468845 0.040129994 0.054862968 71.07634704 469560.9777 0.004170255 0.015761427 2.97E-05 4.526578872 -0.047601733 SST(ph)PPLHVHVDENTPVHVHIK ddPTM_HeLa_SAHA_4h_R1 1 SSTPPLHVHVDENTPVHVHIK 21 0 Q5BJF6-4;Q5BJF6-9;Q5BJF6-3 Q5BJF6-4 ODF2 Outer dense fiber protein 2 1 0 S(0.116)S(0.116)T(0.767)PPLHVHVDENTPVHVHIK 108.77 4.65E-05 18019000 2615.6 2574.7 2569.1 2672.4 3300.6 640.91 3340.7 2872.4 2583.6 2548.8 TRUE FALSE FALSE 2890.720809 2658.121969 2919.203569 2724.128166 3047.708741 586.3008623 2964.795644 2798.928167 2565.620517 2658.691242 1.0872721 0.999785883 1.097985175 1.024612457 1.146319171 0.220522358 1.11513349 1.052746601 0.964993782 1 11.37650053 SST(ph)PSDINSPR ddPTM_HeLa_SAHA_4h_R1 1 SSTPSDINSPR 11 0 A0A1B0GWK2;Q674X7-4;Q674X7-3;Q674X7-2;Q674X7;Q674X7-5 A0A1B0GWK2 KAZN Kazrin 1 0 S(0.001)S(0.002)T(0.838)PS(0.125)DINS(0.034)PR 115.29 0.0050225 7081100 997.65 919.83 1023.9 1222.6 1199.2 1461.7 965.89 1376.8 1510.5 979.21 TRUE FALSE FALSE 1102.587404 949.6330955 1163.43176 1246.265191 1107.317555 1337.154937 857.2055151 1341.58345 1499.988308 1021.428535 1.079456238 0.929710756 1.139024141 1.220119811 1.084087155 1.309102782 0.839222212 1.313438389 1.468520073 1 9.996372553 -6.634308615 11.8064224 1.030501667 1.14445742 0 0.190669225 0.553433815 55.74050161 0.018666528 0.026399047 2.32E-07 6.634308615 0.113955752 SST(ph)PSHGQTTATEPTPAQK ddPTM_HeLa_SAHA_4h_R1 1 SSTPSHGQTTATEPTPAQK 19 0 O00512 O00512 BCL9 B-cell CLL/lymphoma 9 protein 1 0 S(0.132)S(0.132)T(0.47)PS(0.151)HGQT(0.081)T(0.026)AT(0.009)EPTPAQK 65.265 0.016136 4231500 1187 1508.5 915.97 1102.3 1999.4 2406.6 1435.7 2091.4 1465.4 1585.2 TRUE FALSE FALSE 1311.854106 1557.37639 1040.793621 1123.63661 1846.206404 2201.544141 1274.151257 2037.905016 1455.202162 1653.54573 0.793358226 0.941840532 0.629431411 0.679531621 1.116513666 1.331408077 0.770557012 1.232445514 0.880049542 1 10.69134723 -5.728673844 24.98034976 0.866752707 1.103910067 0.389883899 0.173173204 192.109429 146462.7576 0.026076759 0.052150611 1.87E-06 5.728673844 0.23715736 SSTETCY(ph)SAIPK ddPTM_HeLa_SAHA_4h_R1 3 SSTETCYSAIPK 12 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;A0A0A0MT44 O75369-8 FLNB Filamin-B 1 0 SST(0.001)ET(0.005)CY(0.896)S(0.098)AIPK;SSTET(0.005)CY(0.972)S(0.023)AIPK;SSTETCY(0.977)S(0.023)AIPK ;; 211.64 4.82E-15 83116000 6816.2 6072.6 4077.5 9184.6 14462.7 8797.1 11098.2 13155.5 8793.8 7019.9 TRUE FALSE FALSE 7533.15919 6269.356224 4633.160465 9362.381214 13354.57105 8047.537589 9849.401327 12819.00136 8732.60323 7322.562244 1.028760008 0.856169742 0.632723944 1.278566286 1.823756577 1.099005692 1.345075808 1.75061692 1.192561147 1 12.83813284 -6.007699077 24.91681756 0.972865667 1.475110607 0.566396903 0.231789253 199.3371092 645125.9264 0.031908271 0.056077057 9.82E-07 6.007699077 0.502244941 SSTETCYS(ph)AIPK ddPTM_HeLa_SAHA_4h_R1 1 SSTETCYSAIPK 12 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;A0A0A0MT44 O75369-8 FLNB Filamin-B 1 0 SSTETCY(0.042)S(0.957)AIPK 171.32 6.70E-05 14023000 1195.9 1195.1 719.64 2033.2 2651.5 1646.2 1698.1 2323.4 1705.5 1117.2 TRUE FALSE FALSE 1321.690249 1233.822024 817.7087915 2072.555526 2448.342643 1505.934499 1507.025319 2263.970792 1693.631287 1165.367959 1.134139855 1.058740301 0.701674338 1.778455902 2.100918103 1.292239491 1.293175522 1.942708974 1.453301743 1 10.18656984 -6.248500764 24.99435421 1.039875035 1.66160153 0.521241185 0.292228456 430.5740566 831767.3729 0.039537755 0.065304652 5.64E-07 6.248500764 0.621726495 SSTFPQTDVLSSS(ph)LEAEHR ddPTM_HeLa_SAHA_4h_R1 3 SSTFPQTDVLSSSLEAEHR 19 0 D4PHA4;Q86WP2-4;Q86WP2-3;Q86WP2;Q86WP2-2 D4PHA4 GPBP1 Vasculin 1 0 SSTFPQTDVLSS(0.041)S(0.959)LEAEHR;SSTFPQTDVLS(0.001)S(0.137)S(0.862)LEAEHR;SSTFPQTDVLS(0.039)S(0.039)S(0.923)LEAEHR ;; 224.38 6.27E-27 74475000 7425.7 8179.4 7196.04 7926.43 8777 10062.62 10134.66 9488.04 8804.16 8202.21 TRUE FALSE FALSE 8206.769196 8444.417927 8176.678856 8079.857514 8104.508156 9205.228165 8994.281384 9245.349675 8742.891134 8555.847414 0.959200042 0.986976219 0.955683109 0.944366715 0.94724786 1.075899057 1.051243781 1.080588424 1.021861507 1 13.06269504 -5.254479362 24.99398106 0.97414324 1.067443764 0.768188775 0.024064671 190.9218953 685612.9947 0.00329889 0.008211885 5.57E-06 5.254479362 0.093300523 SSTGPEPPAPT(ph)PLLAER ddPTM_HeLa_SAHA_4h_R1 2 SSTGPEPPAPTPLLAER 17 0 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182;I3L1I8;Q9UQ35-3 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SSTGPEPPAPT(1)PLLAER;SSTGPEPPAPT(1)PLLAER ; 187.5 1.32E-11 21850000 3086.9 3383.8 2826.8 3655.6 4240.2 4124.8 3404.7 4465.2 3369.3 3804.2 TRUE FALSE FALSE 3411.594305 3493.43734 3212.021583 3726.359424 3915.316792 3773.343835 3021.594195 4350.98665 3345.852767 3968.217679 0.859729627 0.88035426 0.809436841 0.939051162 0.986668855 0.950891342 0.761448701 1.096458663 0.843162608 1 11.95427545 -9.474916929 1.238674731 0.999529472 0.901220473 0 0.101241909 0.68833389 1.903635355 0.056563679 0.014167846 3.35E-10 9.474916929 -0.098309 SSTGS(ph)YEER ddPTM_HeLa_SAHA_4h_R1 1 SSTGSYEER 9 0 Q7Z674;H7C434;F8W6C0;G3V0F5;Q9UHY8;Q9UHY8-2 Q7Z674 DKFZp779C2259;FEZ2 Fasciculation and elongation protein zeta-2 1 0 S(0.08)S(0.305)T(0.21)GS(0.405)YEER 90.913 0.01698 15228000 1480.9 1630.4 1072.4 1506.1 2301.4 2462.3 2143.8 1828.6 1695.3 2189.5 TRUE FALSE FALSE 1636.667857 1683.22603 1218.541087 1535.252743 2125.067229 2252.498187 1902.573982 1781.82706 1683.502269 2283.90006 0.716610978 0.736996359 0.533535205 0.672206622 0.930455437 0.986250768 0.833037318 0.780168577 0.73711731 1 11.15728381 -4.259205871 18.77195836 0.830598127 0.780168047 0 0.143780891 45.16242438 378454.6393 0.023547861 0.201437529 5.51E-05 4.259205871 -0.05043008 SSTLSSSSMS(ph)LSPK ddPTM_HeLa_SAHA_4h_R1 1 SSTLSSSSMSLSPK 14 0 O15119-3;O15119-2;O15119 O15119-3 TBX3 T-box transcription factor TBX3 1 0 SSTLSSSS(0.002)MS(0.938)LS(0.06)PK 252.08 2.30E-43 11443000 992.55 898.98 870.64 1148.1 1225.3 1151.8 1136 1335.4 1113.5 822.26 TRUE FALSE FALSE 1096.950963 928.1075418 989.2862851 1170.323136 1131.417779 1053.66016 1008.17429 1301.242402 1105.751063 857.7116526 1.278927434 1.082074073 1.153401941 1.364471535 1.319112053 1.228454991 1.175423334 1.517109389 1.289187409 1 9.744348911 -13.52287875 0.15754643 1.84E-10 1.350757961 0.039781493 0.137471206 41.61180712 0.439818845 12.91938276 0.217918884 3.00E-14 13.52287875 1.35075796 SSTLSSSSMSLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SSTLSSSSMSLSPK 14 0 O15119-3;O15119-2;O15119 O15119-3 TBX3 T-box transcription factor TBX3 1 0 SSTLSSSSMS(0.001)LS(0.999)PK 218.6 1.84E-17 10521000 1113.6 1082.5 1190.6 1429.6 1159.7 1214.9 1517.6 1396 1218.5 1015.4 TRUE FALSE FALSE 1230.733557 1117.57371 1352.848768 1457.271975 1070.844037 1111.383685 1346.835654 1360.292341 1210.020359 1059.178863 1.161969522 1.055132187 1.277261863 1.375850695 1.011013412 1.049288013 1.271584716 1.284289546 1.14241362 1 10.04873052 -9.542090129 0.319035457 0.899220875 1.20720837 0.089822947 0.120496359 4.382124697 0.50827011 0.498216054 0.059463267 2.87E-10 9.542090129 0.307987496 SSTPEEVK ddPTM_HeLa_SAHA_4h_R1 1 SSTPEEVK 8 0 P23528;G3V1A4;E9PP50;E9PK25;E9PQB7;E9PLJ3;E9PS23 P23528 CFL1 Cofilin-1 0 0 107.66 0.012887 0 710.04 608.47 659.35 946.57 1153 1043.5 1482.6 1091.2 769.33 1016.4 FALSE FALSE TRUE 784.725265 628.1848272 749.2027843 964.8922311 1064.657389 954.5879294 1315.773946 1063.288684 763.9761699 1060.221978 0.740151856 0.592503117 0.706647098 0.910085106 1.004183474 0.900366102 1.241036286 1.002892513 0.720581336 1 10.05015064 -5.31211835 1.368630843 0.839290422 1.104842527 0.433011418 0.137661629 0.449209555 1.553953934 0.024715084 0.094694858 4.87E-06 5.31211835 0.265552106 SSTPLHS(ph)PSPIR ddPTM_HeLa_SAHA_4h_R1 2 SSTPLHSPSPIR 12 0 O95817;C9JFK9 O95817 BAG3 BAG family molecular chaperone regulator 3 1 0 SS(0.003)T(0.012)PLHS(0.925)PS(0.06)PIR;SS(0.002)T(0.008)PLHS(0.927)PS(0.063)PIR ; 94.45 0.0076932 20272600 1281.15 1921.95 852.69 1168.1 2550 2317.66 2229.3 1549.79 1594.83 1644.18 TRUE FALSE FALSE 1415.907235 1984.222441 968.8901526 1190.710265 2354.619551 2120.182329 1978.453297 1510.148616 1583.731448 1715.068646 0.825568841 1.156934707 0.564927914 0.69426391 1.372901053 1.236208436 1.153570909 0.880517884 0.923421609 1 10.74405061 -5.762608263 24.99996768 0.892301702 1.165669568 0.36648846 0.190479017 29.11095243 622644.8727 0.028578311 0.05399188 1.73E-06 5.762608263 0.273367866 SSTPLPTISSS(ph)AENTR ddPTM_HeLa_SAHA_4h_R1 2 SSTPLPTISSSAENTR 16 0 P42166;P42167;G5E972;H0YJH7;P42167-2;P42167-3 P42166;P42167 TMPO "Lamina-associated polypeptide 2, isoform alpha;Thymopoietin;Thymopentin;Lamina-associated polypeptide 2, isoforms beta/gamma;Thymopoietin;Thymopentin" 1 0 SSTPLPTIS(0.001)S(0.1)S(0.895)AENT(0.004)R;SSTPLPT(0.001)IS(0.007)S(0.162)S(0.83)AENTR ; 188 1.38E-11 10431200 2235.32 3351.4 2358.72 2499.66 2979.8 3674.7 3465 2942.61 3421.1 3077.63 TRUE FALSE FALSE 2470.441214 3459.987559 2680.154078 2548.044534 2751.488368 3361.594887 3075.109081 2867.342297 3397.292287 3210.321691 0.769530736 1.077769735 0.8348553 0.793703803 0.857075593 1.047120884 0.957881912 0.893163543 1.058240455 1 11.64850215 -5.288747388 24.85427957 0.88938645 0.965238137 0.016922888 0.107576553 1281.979533 1166786.672 0.015866048 0.035485432 5.14E-06 5.288747388 0.075851687 SSTPPRQS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 SSTPPRQSPSR 11 1 Q9UQ35;Q9UQ35-2;I3L4D8;I3L182 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 SSTPPRQS(0.999)PSR 113.52 0.014688 864490 450.26 486.94 536.4 605.31 590.23 446.43 835.76 381.29 114.18 530.17 TRUE FALSE FALSE 497.6204127 502.7171755 609.4977985 617.0266503 545.0067049 408.3916525 741.7180852 371.5371539 113.3854121 553.0282233 0.899810157 0.909026256 1.102109753 1.115723618 0.985495282 0.738464395 1.34119391 0.671823134 0.205026448 1 9.111209299 -1.457390692 15.19025327 0.968439142 0.055661339 0 0.301944014 0 0 0.021019583 0 0.034882637 1.457390692 -0.912777803 SSTPRES(ph)PCGK ddPTM_HeLa_SAHA_4h_R1 1 SSTPRESPCGK 11 1 P49792;A0A1W2PNU4;P0DJD1;P0DJD0;A0A286YES2;F8VYC4;O14715;J3KQ37;H7BZ48;J3KNE0;Q7Z3J3;A6NKT7;Q99666 P49792;J3KNE0;Q99666 RANBP2;RGPD2;RGPD1;RGPD8;RGPD6;RGPD3;RGPD4;RGPD5 E3 SUMO-protein ligase RanBP2;RANBP2-like and GRIP domain-containing protein 2;RANBP2-like and GRIP domain-containing protein 1;RANBP2-like and GRIP domain-containing protein 8;RanBP2-like and GRIP domain-containing protein 4;RanBP2-like and GRIP domain-containing protein 3;RANBP2-like and GRIP domain-containing protein 5/6 1 0 S(0.076)S(0.007)T(0.076)PRES(0.842)PCGK 122.33 0.0088595 2332900 885.13 755.3 734.58 772.8 821.3 1157.8 794.03 790.09 502.86 672.93 TRUE FALSE FALSE 978.2320345 779.7722156 834.6847369 787.7586615 758.3721714 1059.148926 704.6836546 769.8806418 499.3605563 701.9433055 1.393605476 1.110876348 1.18910563 1.12225397 1.080389492 1.508881014 1.003903946 1.096784649 0.711397277 1 9.455210702 SSTQFGS(ph)YK ddPTM_HeLa_SAHA_4h_R1 1 SSTQFGSYK 9 0 Q4ADV7-2;Q4ADV7-3;Q4ADV7 Q4ADV7-2 RIC1 RAB6A-GEF complex partner protein 1 1 0 SSTQFGS(0.659)Y(0.341)K 101.33 0.0098071 554610000 1110.9 852.85 1353.9 3437.7 903 736.29 1214.9 2626.7 1766 1149.7 TRUE FALSE FALSE 1227.749559 880.4828996 1538.402441 3504.241654 833.8123351 673.5539497 1078.196255 2559.512817 1753.710262 1199.269193 1.023748101 0.734182871 1.282783256 2.921980881 0.695267034 0.561636998 0.899044402 2.134227104 1.462315777 1 10.22793981 -6.540026042 23.07679834 0.991594603 1.399858941 0.062899773 0.67786256 203.8337201 274317.2479 0.10445485 0.147751964 2.88E-07 6.540026042 0.408264338 SSTRAPS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 1 SSTRAPSPTK 10 1 H3BMM9;H3BTC0;Q15287;H3BTV0;H3BNI3;H3BP82;H3BTR6;H3BUG0;H3BTY0;H3BNU7;H3BUL0 H3BMM9 RNPS1 RNA-binding protein with serine-rich domain 1 1 0 SST(0.046)RAPS(0.944)PT(0.01)K 145.14 0.0039704 11320000 1987.9 687.66 1299.1 1428 1118.8 1246.6 2086.8 1891.6 365.87 1250.8 TRUE FALSE FALSE 2196.996443 709.9406352 1476.134583 1455.641005 1033.077786 1140.382667 1851.987772 1843.215611 363.3238809 1304.728109 1.683873006 0.544129179 1.131373328 1.115666164 0.791795454 0.874038552 1.419443452 1.412720089 0.278467121 1 10.34953348 -7.28097711 24.99924254 1.322940003 1.046146693 0 0.442453059 1333.181152 1705850.106 0.06041287 0.069138627 5.24E-08 7.28097711 -0.27679331 SSTTVSSFANSKPGSAK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 SSTTVSSFANSKPGSAKK 18 2 A0A669KAU9;A0A669KAX4;K4DI93;Q13620-1;Q13620 A0A669KAU9 CUL4B Cullin-4B 0 1 SSTTVSSFANSKPGSAK(1)K 152.59 0.00026265 0 219.16 139.31 166.76 332.08 433.02 441.13 440.12 580.98 340.36 225.88 FALSE TRUE FALSE 242.2122543 143.8237354 189.4851844 338.5078886 399.8421011 403.5432423 390.5965393 566.1193728 337.991407 235.6187922 1.0279836 0.610408593 0.804202341 1.436676105 1.696987313 1.712695488 1.65774782 2.402691939 1.434484083 1 7.880310798 -5.900505603 2.044469226 0.963631983 1.876323273 0.699135468 0.276032177 0.114553339 0.969203059 0.03594075 0.073663268 1.26E-06 5.900505603 0.912691291 SSTVAS(ph)LDTDSTK ddPTM_HeLa_SAHA_4h_R1 2 SSTVASLDTDSTK 13 0 C9IZZ8;C9J6Y2;C9J0J6;C9JZ07;G3V1A3;C9J5T5;C9JBU8;A8MPU2;O14713-2;O14713 C9IZZ8 ITGB1BP1 Integrin beta-1-binding protein 1 1 0 SSTVAS(0.999)LDT(0.001)DSTK;SST(0.004)VAS(0.996)LDTDSTK ; 242.4 9.41E-32 29366000 4134.7 4060.8 3512.5 3596.2 4356.2 4606.6 3859.2 4239.1 4297.7 4411.8 TRUE FALSE FALSE 4569.606717 4192.372584 3991.165208 3665.809651 4022.428897 4214.091764 3424.952659 4130.66996 4267.791956 4602.014289 0.992957959 0.910986434 0.867264845 0.796566334 0.874058324 0.915705928 0.744229036 0.897578691 0.927374773 1 12.16804975 -7.031262196 2.020013685 0.997731859 0.844903615 0.528503603 0.051354574 0.123012504 0.988275807 0.007573198 0.009791672 9.31E-08 7.031262196 -0.152828244 SSTVAT(ph)LQGTPDHGDPR ddPTM_HeLa_SAHA_4h_R1 1 SSTVATLQGTPDHGDPR 17 0 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 S(0.015)S(0.005)T(0.015)VAT(0.741)LQGT(0.226)PDHGDPR 85.177 0.0081409 6570100 1128.3 1143.5 1144 977.97 1563.7 1221.1 1174.7 1169.5 1052.2 1259.4 TRUE FALSE FALSE 1246.979771 1180.55015 1299.898362 996.9000235 1443.889644 1117.05541 1042.519664 1139.585883 1044.877655 1313.698897 0.949212771 0.898645917 0.989494902 0.758849707 1.099102425 0.850313122 0.793575808 0.86746353 0.795370733 1 10.35941893 -1.000000012 0.139417205 1.023899478 0.353106659 0 0.107416062 73.38933805 0.676845841 0.22271415 9.842229124 0.099999997 1.000000012 -0.670792819 SSTVATLQGT(ph)PDHGDPR ddPTM_HeLa_SAHA_4h_R1 1 SSTVATLQGTPDHGDPR 17 0 Q8IVT2 Q8IVT2 MISP Mitotic interactor and substrate of PLK1 1 0 SSTVAT(0.028)LQGT(0.972)PDHGDPR 152.68 8.51E-05 3968100 666.23 470.16 456.64 458.41 723.3 601.69 502.63 746.29 520.65 464.29 TRUE FALSE FALSE 736.3071282 485.3934925 518.8685211 467.2831884 667.8809103 550.422627 446.0727496 727.2009824 517.0267543 484.3078141 1.520328821 1.002241712 1.071361035 0.96484751 1.379042194 1.136514033 0.921052142 1.501526429 1.06755815 1 8.91978047 SSVFLFLQEK(ac)K(ac)ANNK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 SSVFLFLQEKKANNKK 16 3 H3BSY2-2 H3BSY2-2 0 3 SSVFLFLQEK(1)K(1)ANNK(1)K 55.213 0.013948 3096000 1224.3 642.08 1306 3575.3 842.13 904.08 1288.8 2046 1953.2 1355.4 FALSE TRUE FALSE 1353.077491 662.8838133 1483.974879 3644.505101 777.6061813 827.0472978 1143.780832 1993.666283 1939.607522 1413.837927 0.957024469 0.468854174 1.04960749 2.577738955 0.549996691 0.584966128 0.808990062 1.410109493 1.371874021 1 10.46540103 -4.242704726 21.9486421 0.992967755 1.410111471 0.029669052 0.577135234 1975.496704 2314193.179 0.075214525 2.766474712 5.72E-05 4.242704726 0.417143716 SSVKT(ph)PETVVPTALELQPSTSTDRPVTSEPTSQATR ddPTM_HeLa_SAHA_4h_R1 1 SSVKTPETVVPTALELQPSTSTDRPVTSEPTSQATR 36 2 Q14676;Q14676-2;H0Y6Z8 Q14676 MDC1 Mediator of DNA damage checkpoint protein 1 1 0 S(0.146)S(0.146)VKT(0.606)PET(0.101)VVPT(0.001)ALELQPSTSTDRPVTSEPTSQATR 59.678 0.0022569 21647000 697.65 535.83 581.88 677.65 598.05 732.61 565.1 702.92 523.14 583.71 TRUE FALSE FALSE 771.0320279 553.1912436 661.1755761 690.7668956 552.2275382 670.1875064 501.5134607 684.9403242 519.4994261 608.8765947 1.266319045 0.90854411 1.085894222 1.134494086 0.90696135 1.100695136 0.823670125 1.124924706 0.853209716 1 9.250006046 -6.10803199 1.03420904 1.11403572 0.985629177 0 0.14816669 0.819419395 1.727611213 0.024110744 0.056032399 7.80E-07 6.10803199 -0.128406542 SSVLIAQQT(ph)DT(ph)SDPEK ddPTM_HeLa_SAHA_4h_R1 1 SSVLIAQQTDTSDPEK 16 0 P46060 P46060 RANGAP1 Ran GTPase-activating protein 1 2 0 SSVLIAQQT(0.739)DT(0.667)S(0.593)DPEK 65.374 0.022693 1831900 0 0 0 0 161.02 0 58.848 0 0 0 TRUE FALSE FALSE 0 0 0 0 148.6826824 0 52.22626816 0 0 0 0 SSVQGAS(ph)SREGSPAR ddPTM_HeLa_SAHA_4h_R1 1 SSVQGASSREGSPAR 15 1 O95817;C9JFK9 O95817 BAG3 BAG family molecular chaperone regulator 3 1 0 SSVQGAS(0.496)S(0.496)REGS(0.009)PAR 125.41 0.00018904 0 381.1 187.64 393.27 359.94 201.59 164.4 507.96 330.65 136.19 202.56 TRUE FALSE FALSE 421.1858465 193.7196591 446.8627875 366.9071592 186.1442178 150.3921951 450.8030039 322.1924518 135.2422427 211.2933529 1.993370074 0.916827986 2.114892785 1.736482261 0.880975266 0.711769647 2.13354087 1.524858437 0.64006861 1 7.723103572 SSVQGASS(ph)REGSPAR ddPTM_HeLa_SAHA_4h_R1 1 SSVQGASSREGSPAR 15 1 O95817;C9JFK9 O95817 BAG3 BAG family molecular chaperone regulator 3 1 0 SSVQGAS(0.264)S(0.736)REGSPAR 77.137 0.010303 27047000 1461.5 920.43 1226.2 1053.2 1333.6 1151.8 1787.9 1752.3 536.45 996.42 TRUE FALSE FALSE 1615.227276 950.2525359 1393.30015 1073.586209 1231.419856 1053.66016 1586.720787 1707.478703 532.7168008 1039.380543 1.554028779 0.914248918 1.340510134 1.032909666 1.184763237 1.013738585 1.526602357 1.642784941 0.512532974 1 10.02150824 -9.707282155 1.604809242 1.000127049 1.304995256 0.266674101 0.283654931 0.562924379 2.617444713 0.179068297 0.039473671 1.96E-10 9.707282155 0.304868207 SSVS(ph)SVGAR ddPTM_HeLa_SAHA_4h_R1 1 SSVSSVGAR 9 0 Q9BZ67-2;Q9BZ67-3;Q9BZ67;Q8N4M4;E9PRA3;E9PRP1;E9PS62;Q9BZ68 Q9BZ67-2 FRMD8;FRMD8P1 FERM domain-containing protein 8;Putative FERM domain-containing protein FRMD8P1 1 0 SS(0.001)VS(0.499)S(0.499)VGAR 120.31 0.0035982 2671600 1776.5 1537.5 1483.2 1843.3 2165.8 2421.6 2040.8 2201.5 1570.2 1750.4 TRUE FALSE FALSE 1963.360421 1587.316009 1685.322772 1878.979737 1999.856872 2215.266056 1811.163813 2145.188818 1559.27285 1825.86831 1.075302315 0.869348572 0.92302537 1.029088312 1.09529086 1.213267158 0.991946573 1.174886932 0.853989766 1 10.834367 -5.741847703 4.144187528 1.012361431 1.118641497 0.34291025 0.092753768 0.223391204 8.611846521 0.012219681 0.024335891 1.81E-06 5.741847703 0.106280066 SSYDVFQLEFNDGAYNIK ddPTM_HeLa_SAHA_4h_R1 2 SSYDVFQLEFNDGAYNIK 18 0 Q16658 Q16658 FSCN1 Fascin 0 0 ; ; 246.5 5.83E-37 35027700 3721 3511 3176.5 3700.1 3548.6 3562.4 3210.2 3479.6 3468 2740.32 FALSE FALSE TRUE 4112.391853 3624.758704 3609.376877 3771.720786 3276.707035 3258.863478 2848.979847 3390.59687 3443.865906 2858.468606 1.438669588 1.268077143 1.262696001 1.319490016 1.146315558 1.14007321 0.996680475 1.186158513 1.204794028 1 11.48102673 -5.464310428 3.268039868 1.22878806 1.097357828 0.231775596 0.1135024 0.462713946 9.732460904 0.024995494 0.058390087 3.43E-06 5.464310428 -0.131430233 SSYLES(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SSYLESPR 8 0 H0YIQ2;P49750-3;P49750-1;P49750;F8VU51 H0YIQ2 YLPM1 YLP motif-containing protein 1 1 0 SSYLES(1)PR 120.31 0.0035399 2626900 1134.8 1854.5 1082.4 1436.6 1992.7 1754.9 1560.8 1354.6 2254.5 1609 TRUE FALSE FALSE 1254.163471 1914.587017 1229.903835 1464.40747 1840.019757 1605.372647 1385.174676 1319.951293 2238.810751 1678.371864 0.747250057 1.140740653 0.732795789 0.872516694 1.096312322 0.956505934 0.825308566 0.786447462 1.333918185 1 10.71284668 -5.576581753 0.007838241 1.758918875 7.88E-07 0 0.186988171 27152.43404 56.55384405 6141.300619 6551.962968 2.65E-06 5.576581753 -1.758918088 SSYYVVSGNDPAAEEPSR ddPTM_HeLa_SAHA_4h_R1 1 SSYYVVSGNDPAAEEPSR 18 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 0 0 170.74 6.60E-07 3129900 2506.2 2219.4 2042.2 2261 3027.6 2511.7 2620.3 2498.4 2578.3 2597.6 FALSE FALSE TRUE 2769.813615 2291.310016 2320.500381 2304.764924 2795.625942 2297.68903 2325.456948 2434.494546 2560.3574 2709.595248 1.022224119 0.84562815 0.856401111 0.850593802 1.031750386 0.847982381 0.858230376 0.898471662 0.944922457 1 11.40386165 -7.269269791 24.9333038 1.010494725 0.885081986 0.405057246 0.056483952 307.6726885 979677.8715 0.008857431 0.010226682 5.38E-08 7.269269791 -0.125412739 ST(ph)ELVLSPDMPR ddPTM_HeLa_SAHA_4h_R1 1 STELVLSPDMPR 12 0 Q8TDY2-2;Q8TDY2 Q8TDY2-2 RB1CC1 RB1-inducible coiled-coil protein 1 1 0 S(0.053)T(0.947)ELVLSPDMPR 154.67 0.0085737 8963500 910.97 1026.8 1052.9 1081.8 1476 1361.1 1197.8 1474.9 1188.4 1195.3 TRUE FALSE FALSE 1006.790004 1060.068994 1196.383729 1102.739803 1362.909199 1245.126623 1063.020392 1437.174194 1180.129828 1246.835233 0.807476383 0.850207763 0.95953635 0.884431057 1.093094872 0.998629643 0.852574874 1.15265767 0.946500225 1 10.28405511 -5.785229803 24.9824945 0.904725917 1.010148297 0.285885306 0.088780151 276.1015559 289935.6462 0.014808311 0.026852942 1.64E-06 5.785229803 0.105422381 ST(ph)GVVNIPAAECLDEYEDDEAGQKER ddPTM_HeLa_SAHA_4h_R1 1 STGVVNIPAAECLDEYEDDEAGQKER 26 1 Q96IZ0;H0YI16 Q96IZ0 PAWR PRKC apoptosis WT1 regulator protein 1 0 S(0.477)T(0.522)GVVNIPAAECLDEY(0.002)EDDEAGQKER 61.89 0.0036034 5622100 401.06 451.79 345.91 291.01 572.96 324.65 639.33 714.97 476.94 449.94 TRUE FALSE FALSE 443.2453309 466.4282924 393.0488134 296.6429194 529.0599286 296.9879936 567.3909058 696.6821027 473.6209357 469.3391154 0.944403133 0.993798039 0.837451643 0.632043888 1.127244483 0.632779123 1.208914593 1.484389602 1.009123084 1 8.874486891 -4.536659196 7.550092224 0.932511411 1.418778774 0.585226109 0.156786595 0.062301151 20.23939973 0.020284809 0.081329682 2.91E-05 4.536659196 0.486267364 ST(ph)PKEDDSSASTSQSTR ddPTM_HeLa_SAHA_4h_R1 1 STPKEDDSSASTSQSTR 17 1 E7EX17;P23588-2;P23588;F8VX11 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 S(0.409)T(0.591)PKEDDSSASTSQSTR 137.17 0.0060306 9166100 536.11 627.71 498.42 416.97 567.68 737.82 606.01 765.99 620.63 513.43 TRUE FALSE FALSE 592.5005096 648.0482159 566.3420819 425.0410573 524.184481 674.9535851 537.8201599 746.3970849 616.3109853 535.56648 1.106306186 1.210023853 1.057463645 0.793628939 0.978747738 1.26026107 1.00420803 1.393659075 1.150764673 1 9.064921858 -1.996567671 1.381785204 1.048456293 199.8995705 0.360462452 0.127951292 688.6479097 2.847550203 0.018230138 432456.417 0.010079345 1.996567671 198.8511142 ST(ph)PPPNNLVNPVQELETER ddPTM_HeLa_SAHA_4h_R1 1 STPPPNNLVNPVQELETER 19 0 Q8NDI1-3;Q8NDI1-2;Q8NDI1 Q8NDI1-3 EHBP1 EH domain-binding protein 1 1 0 S(0.451)T(0.549)PPPNNLVNPVQELETER 88.992 0.0041509 4046100 730.95 706.58 556.1 630.96 594.44 825.13 701.52 674.04 740.57 467.77 TRUE FALSE FALSE 807.8346747 729.4736556 631.882412 643.1731432 548.8941356 754.8242819 622.5831233 656.7990328 735.4163131 487.9378539 1.655609763 1.495013453 1.295005925 1.318145616 1.124926323 1.546968074 1.275947579 1.346071078 1.50719258 1 8.930553601 -9.587274489 1.398682028 1.001596739 1.412609306 0 0.212072565 0.306381511 1.081664813 0.116563245 0.027571622 2.59E-10 9.587274489 0.411012567 ST(ph)PS(ph)SSPSLR ddPTM_HeLa_SAHA_4h_R1 1 STPSSSPSLR 10 0 S4R3I2;M0R0J9;M0QZ12;Q96CP6-2;Q96CP6-3;Q96CP6 S4R3I2 GRAMD1A GRAM domain-containing protein 1A 2 0 S(0.407)T(0.593)PS(0.912)S(0.013)S(0.074)PS(0.002)LR 108.7 0.0040562 0 1282.3 1451.1 1288.2 1290.2 1579.3 1317.8 1547.6 1418.7 1379.3 1084.8 TRUE FALSE FALSE 1417.178197 1498.116592 1463.749187 1315.173687 1458.294375 1205.516026 1373.459975 1382.411708 1369.701339 1131.571037 1.25239879 1.323926243 1.293554836 1.162254639 1.288734271 1.065347192 1.213763812 1.221674701 1.210442203 1 10.14411144 -9.188575377 0.941035962 1.000477564 1.226819005 0.062862339 0.09433034 0.316405111 0.505819988 0.047874214 0.013663152 6.48E-10 9.188575377 0.226341441 ST(ph)PYKPIDDR ddPTM_HeLa_SAHA_4h_R1 1 STPYKPIDDR 10 1 Q8NB90-3;Q8NB90-2;Q8NB90 Q8NB90-3 SPATA5 Spermatogenesis-associated protein 5 1 0 S(0.126)T(0.874)PYKPIDDR 111.63 0.0019086 0 2372.3 1736.3 1891.1 1824.2 2723.8 2712 2585.1 2428.4 2149.2 2462.9 TRUE FALSE FALSE 2621.829399 1792.557259 2148.80926 1859.510029 2515.103032 2480.922343 2294.217744 2366.285044 2134.243542 2569.087672 1.02052936 0.697740789 0.836409471 0.723801702 0.978986844 0.965682242 0.89300874 0.921060449 0.830739864 1 11.32704041 ST(ph)SATDTHHVEMAR ddPTM_HeLa_SAHA_4h_R1 1 STSATDTHHVEMAR 14 0 H3BQP2;H3BNP3;H3BTL2;H3BS02;O14874-2;O14874-3;O14874 H3BQP2 BCKDK "[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial" 1 0 S(0.414)T(0.573)S(0.013)ATDTHHVEMAR 157.91 1.74E-05 36021000 792.36 1284.7 708.72 830.48 1280.6 573.65 1227.2 1113.5 962.15 905.44 TRUE FALSE FALSE 875.7040603 1326.325123 805.3006707 846.5551413 1182.480705 524.7717927 1089.112226 1085.018282 955.4543198 944.4779495 0.927183171 1.404294429 0.85264105 0.896320705 1.251993977 0.555621011 1.153136743 1.148802132 1.011621627 1 9.883373305 ST(ph)SFRGGMGSGGLATGIAGGLAGMGGIQNEK ddPTM_HeLa_SAHA_4h_R1 1 STSFRGGMGSGGLATGIAGGLAGMGGIQNEK 31 1 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 S(0.082)T(0.402)S(0.373)FRGGMGS(0.071)GGLAT(0.071)GIAGGLAGMGGIQNEK 47.757 0.010954 9093500 415.69 478.52 303.36 347.69 474.56 701.72 568.04 515.51 506.3 387.94 TRUE FALSE FALSE 459.4141815 494.024362 344.700321 354.4200427 438.1993153 641.9295082 504.1226442 502.3240006 502.7766171 404.6659919 1.135292292 1.220820064 0.851814405 0.875833526 1.08286667 1.586319387 1.245774674 1.241329913 1.242448407 1 8.6605878 -5.430087451 9.40502696 1.046271451 1.345896139 0.455672797 0.149885811 0.265717105 25.30803026 0.020218659 0.045248673 3.71E-06 5.430087451 0.299624689 ST(ph)SPIIGSPPVR ddPTM_HeLa_SAHA_4h_R1 1 STSPIIGSPPVR 12 0 Q86TB9-2;Q86TB9-4;Q86TB9 Q86TB9-2 PATL1 Protein PAT1 homolog 1 1 0 S(0.14)T(0.547)S(0.313)PIIGSPPVR 159.44 0.00029599 19072000 1728.3 1990.8 1592.6 1800.4 1728.8 2099.8 1725.8 2120.8 2340.9 1865.7 TRUE FALSE FALSE 1910.090524 2055.303226 1809.631234 1835.249345 1596.339717 1920.885227 1531.608442 2066.553007 2324.609486 1946.139458 0.981476695 1.05609247 0.929856916 0.94302047 0.820259674 0.987023422 0.786998299 1.061873032 1.194472204 1 10.92639938 -6.591754011 8.521272801 0.995868439 0.91319296 0.232254288 0.098135634 0.285638004 31.98469197 0.010412841 0.014737367 2.56E-07 6.591754011 -0.082675479 ST(ph)SQGSINSPVYSR ddPTM_HeLa_SAHA_4h_R1 1 STSQGSINSPVYSR 14 0 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639;A0A494C1P1;A0A494C1G0;H0Y7N6;F6XFR5 J3QSX6 ABLIM1 Actin-binding LIM protein 1 1 0 S(0.07)T(0.406)S(0.406)QGS(0.119)INSPVYSR 207.66 3.28E-12 81197000 1787.6 2249.2 1827.5 1290.9 1720.7 2381 2179.1 1576.2 1560.5 2063.2 TRUE FALSE FALSE 1975.62797 2322.075556 2076.542183 1315.887236 1588.860338 2178.125405 1933.901933 1535.883086 1549.640353 2152.154649 0.917976768 1.078953855 0.96486662 0.611427825 0.738264947 1.012067328 0.898588739 0.713649034 0.720041357 1 11.07156604 -6.467888395 24.97435842 0.971530244 0.807360367 0.192915038 0.134401675 266.4165718 120995.3225 0.017281519 0.02639788 3.40E-07 6.467888395 -0.164169877 ST(ph)TPPPAEPVSLPQEPPKPR ddPTM_HeLa_SAHA_4h_R1 2 STTPPPAEPVSLPQEPPKPR 20 1 Q9UN86-2 Q9UN86-2 G3BP2 Ras GTPase-activating protein-binding protein 2 1 0 S(0.259)T(0.37)T(0.37)PPPAEPVSLPQEPPKPR;S(0.29)T(0.419)T(0.29)PPPAEPVSLPQEPPKPR ; 182.77 4.26E-10 1581870000 8006 11587.7 7515.1 7975.7 10141.7 11709.4 9716.1 9055.7 11563.4 9584.3 TRUE FALSE FALSE 8848.107813 11963.14908 8539.218691 8130.081207 9364.645137 10711.69324 8622.818857 8824.068306 11482.92936 9997.526077 0.885029731 1.196610941 0.854133175 0.813209302 0.936696245 1.071434389 0.86249526 0.882625185 1.148577085 1 13.28735542 ST(ph)VLGLPQHVQK ddPTM_HeLa_SAHA_4h_R1 1 STVLGLPQHVQK 12 0 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 S(0.189)T(0.811)VLGLPQHVQK 87.083 0.017166 1835000 1056.7 1055 876.72 832.38 1052.7 1012.9 1130.2 1280.3 1033.5 992.14 TRUE FALSE FALSE 1167.848554 1089.182692 996.1948358 848.4919185 972.0423534 926.5952216 1003.026921 1247.55178 1026.307789 1034.916011 1.128447663 1.052435831 0.962585201 0.819865486 0.939247575 0.895333739 0.969186785 1.20546186 0.991682203 1 10.01529797 -6.764077031 5.542972154 1.062017629 0.954035374 0.112707044 0.099173866 0.209449241 20.43874894 0.016444203 0.022500979 1.72E-07 6.764077031 -0.107982255 ST(ph)VQLMFMPRS(ph)LS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 STVQLMFMPRSLSR 14 1 Q4VAR0;P15538-2;P19099;P15538 Q4VAR0 CYP11B1;CYP11B2 "Cytochrome P450 11B1, mitochondrial;Cytochrome P450 11B2, mitochondrial" 3 0 S(0.429)T(0.571)VQLMFMPRS(1)LS(1)R 89.232 0.011993 5427100 348.44 982.46 339.29 290.58 1191.3 1068.9 1570.7 1112.7 944.23 345.88 TRUE FALSE FALSE 385.0905179 1014.292349 385.5266743 296.2045961 1100.022851 977.8237065 1393.960702 1084.238745 937.6590266 360.7925795 1.067346004 2.811289384 1.068554888 0.82098306 3.048906529 2.710210138 3.863606907 3.005158107 2.598886673 1 8.495025856 -5.751899375 22.05574125 1.170719873 3.175536106 0.479549945 0.750915927 19.30405396 44627.61522 0.089205035 0.176102933 1.77E-06 5.751899375 2.004816234 STADS(ph)GGEGLETAPK ddPTM_HeLa_SAHA_4h_R1 2 STADSGGEGLETAPK 15 0 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 S(0.001)T(0.004)ADS(0.995)GGEGLETAPK;S(0.049)T(0.049)ADS(0.902)GGEGLETAPK ; 122.63 0.00068092 17916500 2806 3056.3 2649 3162 3283.6 3766.4 3111.5 4002.6 4099.3 2746.3 TRUE FALSE FALSE 3101.147954 3155.326125 3009.991925 3223.205082 3032.011277 3445.481531 2761.385831 3900.219288 4070.772638 2864.706433 1.082536039 1.101448333 1.050715665 1.125143242 1.05840209 1.202734595 0.963933267 1.36147259 1.421008656 1 11.48417159 STAGDTHLGGEDFDNR ddPTM_HeLa_SAHA_4h_R1 6 STAGDTHLGGEDFDNR 16 0 P11142;E9PKE3;P11142-2;E9PN89;P54652 P11142 HSPA8;HSPA2 Heat shock cognate 71 kDa protein;Heat shock-related 70 kDa protein 2 0 0 ;;;;; ;;;;; 182.02 1.41E-09 255793000 21143.1 23414.2 17446.6 23494.9 28447.1 30937.4 28079.7 25922.4 24505.2 24818.8 FALSE FALSE TRUE 23367.02827 24172.83544 19824.13179 23949.67776 26267.48934 28301.35947 24920.09825 25259.34254 24334.66632 25888.85993 0.902590084 0.933715718 0.765739853 0.925095884 1.014625187 1.093186782 0.962579979 0.975683851 0.939966703 1 14.66004381 -5.757944116 24.51042235 0.933744403 1.013856745 0.323566537 0.066392592 89.58009245 628164.2522 0.011149822 0.021597586 1.75E-06 5.757944116 0.080112342 STALK(ac)ILAGK ddPTM_HeLa_SAHA_4h_R1 1 STALKILAGK 10 1 H0Y990;D6RGF4;D6R9I9;P61221 H0Y990 ABCE1 ATP-binding cassette sub-family E member 1 0 1 STALK(1)ILAGK 107.79 0.0073296 402220 0 71.516 0 145.28 197.87 215.77 124.58 0 122.48 149.49 FALSE TRUE FALSE 0 73.83316532 0 148.0921045 182.7092433 197.3851821 110.5619305 0 121.6276517 155.9352455 0 0.473486062 0 0.949702577 1.171699463 1.26581506 0.709024635 0 0.779988202 1 7.284803242 -4.255572806 24.38174872 0.609498111 5.68E-05 0.167392333 0.426086929 852.8968834 3544527.997 0.07214305 0.856591515 5.55E-05 4.255572806 -0.609441312 STANQS(ph)FR ddPTM_HeLa_SAHA_4h_R1 1 STANQSFR 8 0 J3KRH6;Q13464 J3KRH6 ROCK1 Rho-associated protein kinase 1 1 0 STANQS(1)FR 89.561 0.0077035 0 1466.4 1556.2 1259.9 1368.6 1985.7 1577.2 1607.5 1669.7 1418.6 1507.8 TRUE FALSE FALSE 1620.64268 1606.621901 1431.592611 1395.091232 1833.556095 1442.813687 1426.619869 1626.991492 1408.727847 1572.808637 1.030413136 1.021498651 0.910214108 0.88700634 1.165784605 0.917348527 0.907052413 1.034449744 0.895676571 1 10.61912743 STAPSAAASASASAAAS(ph)SPAGGGAEALELLEHCGVCR ddPTM_HeLa_SAHA_4h_R1 1 STAPSAAASASASAAASSPAGGGAEALELLEHCGVCR 37 0 Q13263;Q13263-2 Q13263 TRIM28 Transcription intermediary factor 1-beta 1 0 STAPSAAASASAS(0.001)AAAS(0.553)S(0.445)PAGGGAEALELLEHCGVCR 134.17 9.94E-20 224310000 1180.2 1400.3 1241.6 1595.1 1553.9 1949.4 1776.3 1747.7 1586.9 1576.9 TRUE FALSE FALSE 1304.338851 1445.670639 1410.798782 1625.975467 1434.840518 1783.300153 1576.426049 1702.996365 1575.856634 1644.887876 0.792965204 0.878887041 0.857686899 0.988502311 0.872302932 1.084146937 0.958379031 1.035326717 0.958032858 1 10.68377353 -5.272774116 24.8700098 0.899818989 1.01919371 0.400261842 0.06622354 638.8772038 1401786.396 0.012211593 0.027523593 5.34E-06 5.272774116 0.119374722 STAPSAAASASASAAASS(ph)PAGGGAEALELLEHCGVCR ddPTM_HeLa_SAHA_4h_R1 3 STAPSAAASASASAAASSPAGGGAEALELLEHCGVCR 37 0 Q13263;Q13263-2 Q13263 TRIM28 Transcription intermediary factor 1-beta 1 0 STAPSAAASASASAAAS(0.208)S(0.792)PAGGGAEALELLEHCGVCR;STAPSAAASASASAAAS(0.081)S(0.919)PAGGGAEALELLEHCGVCR;STAPSAAASASASAAAS(0.21)S(0.79)PAGGGAEALELLEHCGVCR ;; 221.48 5.18E-44 1157200000 5372.7 5501.9 4811.9 5759.2 6755.7 6917.9 6192.9 6308.6 5853.1 5878.3 TRUE FALSE FALSE 5937.825237 5680.16517 5467.640673 5870.677644 6238.079725 6328.456001 5496.058593 6147.235147 5812.367801 6131.742281 0.968374887 0.926354193 0.891694468 0.957424069 1.017342126 1.032081211 0.896329027 1.002526666 0.947914562 1 12.58208135 -8.558939149 1.116120356 0.99563677 0.960800402 0 0.047457034 0.830626697 2.093711065 0.015471932 0.009074292 2.76E-09 8.558939149 -0.034836368 STAQQELDGKPAS(ph)PTPVIVASHTANKEEK ddPTM_HeLa_SAHA_4h_R1 4 STAQQELDGKPASPTPVIVASHTANKEEK 29 2 H0YAC7;P35606-2;P35606 H0YAC7 COPB2 Coatomer subunit beta 1 0 STAQQELDGKPAS(0.602)PT(0.398)PVIVASHTANKEEK;STAQQELDGKPAS(0.5)PT(0.5)PVIVASHTANKEEK;STAQQELDGKPAS(0.828)PT(0.172)PVIVASHTANKEEK;S(0.001)T(0.001)AQQELDGKPAS(0.493)PT(0.493)PVIVAS(0.009)HT(0.001)ANKEEK ;;; 132.28 4.82E-14 92679900 5656.8 4905.99 4967.76 6124.6 6812.4 6723.5 6419 6328.8 5246.2 5514.9 TRUE FALSE FALSE 6251.808178 5064.947295 5644.740462 6243.150489 6290.435384 6150.619975 5696.717226 6166.91846 5209.691267 5752.674328 1.086765532 0.880450901 0.981237619 1.085260547 1.093480184 1.069175765 0.990272854 1.072008966 0.905612063 1 12.49001708 -6.243848734 24.71277636 1.023347635 1.06019576 0.128347875 0.068896183 1694.005081 2379876.89 0.010005641 0.016566637 5.70E-07 6.243848734 0.036848125 STAQQELDGKPASPT(ph)PVIVASHTANK ddPTM_HeLa_SAHA_4h_R1 2 STAQQELDGKPASPTPVIVASHTANK 26 1 H0YAC7;P35606-2;P35606 H0YAC7 COPB2 Coatomer subunit beta 1 0 STAQQELDGKPAS(0.427)PT(0.572)PVIVASHTANK;STAQQELDGKPAS(0.175)PT(0.825)PVIVASHTANK ; 92.518 6.83E-06 24676000 5868.9 7727.8 4721.3 7406 7784.6 9206.9 6653.6 6248.4 9895.5 7081.7 TRUE FALSE FALSE 6486.217829 7978.18579 5364.694177 7549.353839 7188.14563 8422.420323 5904.919417 6088.574976 9826.63641 7387.026744 0.878055279 1.080026656 0.726231861 1.021974619 0.973076974 1.140163778 0.799363482 0.824225387 1.330255968 1 12.85077809 -9.106675388 0.007843634 1.908672701 2.26E-05 0.036682458 0.167763215 19861.13479 42.64729135 5352.268012 5027.085612 7.82E-10 9.106675388 -1.908650066 STAYEDYYYHPPPR ddPTM_HeLa_SAHA_4h_R1 2 STAYEDYYYHPPPR 14 0 O43390;B4DT28;O43390-4;O43390-3;O43390-2;A0A286YEZ8 O43390 HNRNPR Heterogeneous nuclear ribonucleoprotein R 0 0 ; ; 123.95 0.00082493 29647000 3172.5 2693.96 2003.54 2919.7 2850.3 3003.5 3324.3 2857.9 3085.4 3012 FALSE FALSE TRUE 3506.198106 2781.246072 2276.571997 2976.215015 2631.91063 2747.584903 2950.241015 2784.799056 3063.92845 3141.86206 1.115961821 0.885222208 0.724593236 0.947277429 0.837691337 0.874508444 0.939010357 0.886353062 0.975195089 1 11.61740413 -7.209081166 7.858702881 1.054707048 0.869129142 0.527137622 0.068178838 0.151468112 20.8203891 0.011580244 0.014170765 6.18E-08 7.209081166 -0.185577906 STCIYGGAPK ddPTM_HeLa_SAHA_4h_R1 2 STCIYGGAPK 10 0 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2;P17844-2;P17844;J3KTA4;J3QRQ7;J3KRZ1 A0A1X7SBZ2;P17844-2 DDX17;DDX5 Probable ATP-dependent RNA helicase DDX17;Probable ATP-dependent RNA helicase DDX5 0 0 ; ; 133.57 0.00037979 5824800 5309.8 4141.6 4764.8 5579.6 4628.9 5080.9 5027.4 4696 5227.1 4418.2 FALSE FALSE TRUE 5868.309126 4275.790557 5414.12213 5687.601226 4274.234682 4647.978736 4461.703721 4575.88312 5190.724186 4608.690224 1.273313857 0.927766968 1.174763733 1.234103606 0.927429372 1.008524876 0.968106664 0.992881469 1.126290537 1 12.17014108 -5.746756616 24.99030151 1.125668403 0.976247035 0.358137021 0.097310679 256.2814029 436192.3974 0.017548307 0.034975115 1.79E-06 5.746756616 -0.149421367 STCS(ph)CPDLQPNGQDLGENSR ddPTM_HeLa_SAHA_4h_R1 1 STCSCPDLQPNGQDLGENSR 20 0 O43847;O43847-2;F5H7V1 O43847 NRD1 Nardilysin 1 0 S(0.001)T(0.001)CS(0.998)CPDLQPNGQDLGENSR 220.1 4.98E-26 3900800 183.29 178.71 202.46 170.86 236.76 260.67 302.77 198.97 210.29 220.73 TRUE FALSE FALSE 202.5692832 184.5003213 230.0501944 174.1672424 218.6194999 238.4594495 268.7015228 193.8806355 208.8265748 230.2467505 0.879792148 0.801315636 0.999146324 0.756437352 0.949500913 1.03566912 1.167015483 0.842055903 0.906968608 1 7.847036985 -5.341450191 4.989166248 0.920787054 1.029882167 0.183433463 0.104888223 0.289051242 12.75617194 0.015041837 0.034629151 4.56E-06 5.341450191 0.109095113 STDEYS(ph)EADEEEEEEEGKPSR ddPTM_HeLa_SAHA_4h_R1 2 STDEYSEADEEEEEEEGKPSR 21 1 Q96T23-3;Q96T23-2;Q96T23 Q96T23-3 RSF1 Remodeling and spacing factor 1 1 0 S(0.027)T(0.027)DEYS(0.946)EADEEEEEEEGKPSR;S(0.003)T(0.003)DEYS(0.994)EADEEEEEEEGKPSR ; 135.76 3.52E-06 33840000 1693.54 1625.54 1420.27 1317.09 1431.35 1222.79 1837.46 1533.35 1554.78 1379.2 TRUE FALSE FALSE 1871.674307 1678.208563 1613.816999 1342.584181 1321.680272 1118.601413 1630.704165 1494.129127 1543.960159 1438.664062 1.30098079 1.16650482 1.121746933 0.933215903 0.918685819 0.777527876 1.133485022 1.038553174 1.073190191 1 10.49051404 -6.320105186 5.087508563 1.147456727 0.957399286 0.372363677 0.111151314 0.208185341 11.42117094 0.021778824 0.033813834 4.79E-07 6.320105186 -0.190057441 STDS(ph)PVPGSEDDLVAGATLHSPEWSEER ddPTM_HeLa_SAHA_4h_R1 2 STDSPVPGSEDDLVAGATLHSPEWSEER 28 0 Q9H694;Q9H694-2 Q9H694 BICC1 Protein bicaudal C homolog 1 1 0 S(0.178)T(0.178)DS(0.445)PVPGS(0.199)EDDLVAGATLHSPEWSEER;S(0.189)T(0.189)DS(0.557)PVPGS(0.065)EDDLVAGATLHSPEWSEER ; 101.81 5.10E-07 20189000 4427.8 4973 4221.3 4505.8 5743.8 5497.4 5092.9 5557.2 5481.3 5040.8 TRUE FALSE FALSE 4893.536319 5134.128463 4796.55678 4593.016274 5303.711285 5028.990592 4519.833488 5415.054871 5443.155187 5258.133557 0.930660332 0.976416519 0.912216612 0.873506963 1.008668043 0.956421235 0.859588947 1.029843539 1.035187701 1 12.36033507 -9.324322736 0.81378299 1.004137235 0.940018468 0.22362717 0.052468546 1.067059552 1.131911851 0.045252765 0.009323943 4.74E-10 9.324322736 -0.064118767 STDSEVS(ph)QSPAK ddPTM_HeLa_SAHA_4h_R1 1 STDSEVSQSPAK 12 0 A0A0G2JNJ7;H7C148;H7C3F5;A0A2H2FJL5;B7Z6J7;O75175 A0A0G2JNJ7 CNOT3 CCR4-NOT transcription complex subunit 3 1 0 STDS(0.004)EVS(0.749)QS(0.247)PAK 87.667 0.014625 7045700 1101.1 992.45 1057.9 1381.7 1470.2 1307.5 1393.8 1140.9 1416.3 1337.1 TRUE FALSE FALSE 1216.91875 1024.606031 1202.065103 1408.444801 1357.553594 1196.093644 1236.965956 1111.71743 1406.443853 1394.748925 0.872500225 0.734616828 0.861850532 1.0098196 0.973331881 0.857569146 0.886873568 0.797073517 1.00838497 1 10.44578972 -9.071893458 0.984014607 0.996003788 0.878362107 0.322850182 0.074203866 0.575308476 1.052834636 0.043653766 0.014921994 8.47E-10 9.071893458 -0.117641681 STDSEVSQS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 7 STDSEVSQSPAK 12 0 A0A0G2JNJ7;H7C148;H7C3F5;A0A2H2FJL5;B7Z6J7;O75175 A0A0G2JNJ7 CNOT3 CCR4-NOT transcription complex subunit 3 1 0 STDSEVS(0.054)QS(0.946)PAK;STDS(0.001)EVS(0.101)QS(0.898)PAK;STDS(0.002)EVS(0.003)QS(0.996)PAK;STDSEVSQS(1)PAK;ST(0.002)DS(0.015)EVS(0.071)QS(0.911)PAK;STDS(0.002)EVS(0.057)QS(0.941)PAK;STDSEVS(0.05)QS(0.95)PAK ;;;;;; 211.82 1.96E-15 414167900 17058.61 18406.55 14696.98 16479.85 17464.93 18136.08 17914.39 16436.15 18020.12 17197.5 TRUE FALSE FALSE 18852.91287 19002.9343 16699.8079 16798.84133 16126.77084 16590.78395 15898.61569 16015.73708 17894.71652 17938.96839 1.050947438 1.059310317 0.930923537 0.936444112 0.898979835 0.924846044 0.886261425 0.892790306 0.997533199 1 14.13080931 -6.656396292 5.096836057 1.027254711 0.909645138 0.859848778 0.022897288 0.062800292 2.607847054 0.00422326 0.005994068 2.21E-07 6.656396292 -0.117609573 STELLIR ddPTM_HeLa_SAHA_4h_R1 1 STELLIR 7 0 K7EK07;P84243;Q6NXT2;Q71DI3;P68431;K7EMV3;K7EP01;A0A590UJJ6;B4DEB1;Q5TEC6;K7ES00;Q16695 K7EK07 H3F3B;H3F3A;H3F3C;HIST2H3A;HIST1H3A;HIST2H3PS2;HIST3H3 Histone H3;Histone H3.3;Histone H3.3C;Histone H3.2;Histone H3.1;Histone H3.1t 0 0 128.86 0.0099147 42658000 3380.9 7125.5 4529.2 3292.6 7329.1 7646.5 5858.9 7674.9 6563.7 5176 FALSE FALSE TRUE 3736.518574 7356.370875 5146.415789 3356.333034 6767.545941 6994.975182 5199.641152 7478.587171 6518.022677 5399.162691 0.692055192 1.362502169 0.95318776 0.621639544 1.253443604 1.295566661 0.963045837 1.385138326 1.207228426 1 12.39851997 -5.732040982 24.97926232 0.887180619 1.210728467 0.161868431 0.235546197 190.8430915 162154.803 0.032485372 0.064962875 1.85E-06 5.732040982 0.323547849 STESLQANVQR ddPTM_HeLa_SAHA_4h_R1 1 STESLQANVQR 11 0 P26373;J3QSB4 P26373 RPL13 60S ribosomal protein L13 0 0 146.11 8.06E-05 1077500 460.61 355.11 178.01 260.42 445.54 383.17 489.4 511.66 346.68 293.49 FALSE FALSE TRUE 509.0590732 366.615797 202.2682758 265.4608057 411.4028215 350.5217603 434.331424 498.5724781 344.2674257 306.1437902 1.662810383 1.197528118 0.660696974 0.867111515 1.343822199 1.14495793 1.41871708 1.628556561 1.124528528 1 8.25806561 -9.846567653 1.930343273 0.998463701 1.304119327 0.014843036 0.30048773 0.701472976 4.734557318 0.262860432 0.053137544 1.42E-10 9.846567653 0.305655626 STETSDFENIES(ph)PLNER ddPTM_HeLa_SAHA_4h_R1 2 STETSDFENIESPLNER 17 0 Q96K76-2;Q96K76-4;Q96K76 Q96K76-2 USP47 Ubiquitin carboxyl-terminal hydrolase 47 1 0 STETSDFENIES(1)PLNER;STETSDFENIES(1)PLNER ; 281.09 1.70E-72 32277900 1668.3 1720.98 1486.64 1631.94 1714.19 2036.31 1783.65 1473.01 1936.82 1477.28 TRUE FALSE FALSE 1843.779448 1776.740881 1689.231557 1663.528559 1582.849133 1862.804932 1582.949008 1435.332537 1923.341512 1540.97277 1.196503588 1.152999531 1.096211166 1.079531443 1.027175277 1.208849999 1.02724009 0.931445749 1.248134652 1 10.58962565 -4.523194381 24.98355294 1.100403008 0.955394288 0.348508475 0.078776199 8.554252628 677211.8502 0.011414794 0.043591243 3.00E-05 4.523194381 -0.14500872 STFAGS(ph)PER ddPTM_HeLa_SAHA_4h_R1 2 STFAGSPER 9 0 H0YE03;H7C3G7;Q2TBE0-3;Q2TBE0-2;Q2TBE0 H0YE03 CWF19L2 CWF19-like protein 2 1 0 ST(0.001)FAGS(0.999)PER;STFAGS(1)PER ; 106.62 0.0073153 19802400 4342.6 5548.9 3795.8 4292.7 5128 5649 4716.5 4094.3 5602.6 4404.3 TRUE FALSE FALSE 4799.374593 5728.688001 4313.071856 4375.791416 4735.093748 5167.67342 4185.787007 3989.573734 5563.61105 4594.190927 1.044661545 1.246941647 0.938809885 0.952461812 1.030669779 1.124827745 0.911104278 0.868395284 1.211009977 1 12.1655951 STFS(ph)LPEEEEEPEPLVFAEQPSVK ddPTM_HeLa_SAHA_4h_R1 2 STFSLPEEEEEPEPLVFAEQPSVK 24 0 H3BR17;Q6Q0C0;Q6Q0C0-2 H3BR17 TRAF7 E3 ubiquitin-protein ligase TRAF7 1 0 S(0.061)T(0.061)FS(0.877)LPEEEEEPEPLVFAEQPSVK;S(0.146)T(0.146)FS(0.708)LPEEEEEPEPLVFAEQPSVK ; 143.21 5.09E-07 7640300 2778.6 3181.5 3056.5 2657.5 3349.7 3375.5 3904.8 3315.8 3487.8 3204.9 TRUE FALSE FALSE 3070.865897 3284.582687 3473.023902 2708.939755 3093.04671 3087.88841 3465.421627 3230.986637 3463.528116 3343.078923 0.918574155 0.982502287 1.038869851 0.810312834 0.925209001 0.923666022 1.036595817 0.966470344 1.036029419 1 11.7069617 -9.557906719 1.307028239 1.000224755 0.946702871 0.137338317 0.063350978 0.943607728 2.869012389 0.044963317 0.0104183 2.77E-10 9.557906719 -0.053521884 STFS(ph)PAPRPEMPGTVEVESTFLAR ddPTM_HeLa_SAHA_4h_R1 1 STFSPAPRPEMPGTVEVESTFLAR 24 1 Q92576-2;Q92576;E7ER40;E7EVH3 Q92576-2 PHF3 PHD finger protein 3 1 0 S(0.04)T(0.04)FS(0.644)PAPRPEMPGT(0.269)VEVES(0.002)T(0.005)FLAR 67.47 0.0012604 8547900 868.31 981.5 689.55 973.94 877.74 845.49 1110.4 841.97 1126 1097.8 TRUE FALSE FALSE 959.6428297 1013.301244 783.518283 992.792017 810.4877508 773.4494954 985.4548696 820.4336266 1118.164074 1145.131531 0.838019742 0.884877603 0.684216845 0.866967672 0.70776826 0.675424154 0.860560419 0.716453617 0.976450342 1 10.1612976 -8.467300988 0.340685148 1.044608569 0.737271299 0.620858848 0.069638256 0.862577057 0.210469118 0.10531403 0.037840073 3.41E-09 8.467300988 -0.30733727 STFST(ph)NYR ddPTM_HeLa_SAHA_4h_R1 1 STFSTNYR 8 0 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 S(0.005)T(0.001)FS(0.136)T(0.858)NYR 125.71 0.0046642 200100000 767.85 756.91 868.89 514.57 1048.7 617.64 826.14 1033.5 369.88 741.91 TRUE FALSE FALSE 848.615986 781.4343806 987.2978042 524.5302464 968.3488326 565.0135973 733.1805529 1007.064566 367.305975 773.8973709 1.09654848 1.00973903 1.275747717 0.677777527 1.251262595 0.730088534 0.947387316 1.301289556 0.474618456 1 9.595998448 STFSTNYR ddPTM_HeLa_SAHA_4h_R1 5 STFSTNYR 8 0 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 ;;;; ;;;; 170.66 5.21E-11 112393600 7742.2 7276.89 8082.1 8400 9009.4 7498.43 8897.9 6234.54 6032.26 6606.87 FALSE FALSE TRUE 8556.560118 7512.666011 9183.486498 8562.594147 8319.101718 6859.521579 7896.684874 6075.069494 5990.281012 6891.724499 1.241570251 1.090099584 1.332538249 1.242445798 1.207114666 0.995327306 1.145821322 0.881502082 0.869199141 1 12.75064931 -5.251494238 24.54871839 1.146729674 1.021377336 0.157469185 0.139218264 791.0426107 1952612.297 0.01839249 0.046258983 5.60E-06 5.251494238 -0.125352338 STFVLDEFK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 STFVLDEFKR 10 1 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 0 1 ; STFVLDEFK(1)R;STFVLDEFK(1)R 128.91 0.00050207 6458300 1148.52 3111.2 2469.45 2212.52 3780.3 2666.3 4511.9 1453.86 2272.16 938.06 FALSE TRUE FALSE 1269.326603 3212.004921 2805.973786 2255.346524 3490.654231 2439.11624 4004.209137 1416.672366 2256.347854 978.5043574 1.297210987 3.282565782 2.867615013 2.304891651 3.56733642 2.492698394 4.092173026 1.447793621 2.305914978 1 9.934434465 -7.311681358 6.302072158 1.134974387 2.902993547 0.348144525 0.778174393 0.099157099 9.523791446 0.104331416 0.11950608 4.88E-08 7.311681358 1.76801916 STFVLDEFKR ddPTM_HeLa_SAHA_4h_R1 1 STFVLDEFKR 10 1 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 0 0 74.533 0.023266 1888900 982.21 915.53 1205.7 1244.7 1438.3 1100.3 1233.6 497.44 689.23 1081.3 FALSE FALSE TRUE 1085.523354 945.1937727 1370.006517 1268.792968 1328.097765 1006.54825 1094.792081 484.7162051 684.4335923 1127.920135 0.96241154 0.837997074 1.214630783 1.124896107 1.177475004 0.892393192 0.970629079 0.429743375 0.606810333 1 10.1394492 -4.163660285 2.511671366 1.007408367 0.201769223 0.471398576 0.170778138 0.359583082 2.188968535 0.01635024 0.680649848 6.86E-05 4.163660285 -0.805639144 STGGAPTFNVT(ph)VTK ddPTM_HeLa_SAHA_4h_R1 2 STGGAPTFNVTVTK 14 0 P07737;K7EJ44 P07737 PFN1 Profilin-1 1 0 STGGAPT(0.001)FNVT(0.999)VTK;STGGAPTFNVT(1)VTK ; 167.29 9.90E-06 9145200 1468.7 1459.45 1438.78 1861.21 1921.48 1950.9 1717.95 1801.66 2340.81 1655.99 TRUE FALSE FALSE 1623.184605 1506.737138 1634.849446 1897.236411 1774.256618 1784.672345 1524.641745 1755.576146 2324.520113 1727.387833 0.939675835 0.872263373 0.946428714 1.098326835 1.027132751 1.033162507 0.882628507 1.016318462 1.345685125 1 10.75437632 STGGAPTFNVTVTK ddPTM_HeLa_SAHA_4h_R1 7 STGGAPTFNVTVTK 14 0 P07737;K7EJ44 P07737 PFN1 Profilin-1 0 0 ;;;;;; ;;;;;; 246.63 2.15E-56 149322300 12731.59 11809.36 11204.24 12895.9 13542.8 14070.38 14495.22 13475.39 13192.31 12723.06 FALSE FALSE TRUE 14070.75705 12191.99101 12731.09548 13145.51879 12505.15359 12871.50447 12864.1797 13130.70904 13100.50364 13271.61338 1.060214508 0.918651762 0.95927263 0.990498925 0.942248183 0.969852278 0.969300365 0.989383028 0.987107088 1 13.69605614 -7.268473541 24.99314186 1.028434629 0.96341515 0.420245063 0.027348406 314.0756902 1115943.696 0.004928418 0.005702498 5.39E-08 7.268473541 -0.065019479 STGGK(ac)APR ddPTM_HeLa_SAHA_4h_R1 1 STGGKAPR 8 1 K7EK07;P84243;Q6NXT2;Q71DI3;P68431;K7EMV3;K7EP01;A0A590UJJ6;B4DEB1;Q5TEC6;K7ES00;Q16695 K7EK07 H3F3B;H3F3A;H3F3C;HIST2H3A;HIST1H3A;HIST2H3PS2;HIST3H3 Histone H3;Histone H3.3;Histone H3.3C;Histone H3.2;Histone H3.1;Histone H3.1t 0 1 STGGK(1)APR 110.12 0.0047985 567130 223.26 187.87 487.2 382.41 319.56 348.04 848.48 399.77 0 324.23 FALSE TRUE FALSE 246.7435112 193.9571113 553.5930788 389.8120985 295.0753818 318.385034 753.0067973 389.5444623 0 338.209142 0.729558964 0.573482757 1.636836531 1.15257706 0.872464239 0.941385061 2.226453114 1.151785726 0 1 8.401771847 -5.042793312 0.703370705 0.884360881 1.746022046 0.251792842 0.491046544 1.278525024 0.784336391 0.070110289 0.710641347 9.06E-06 5.042793312 0.861661165 STGHT(ph)PTKPSGSSVSEK ddPTM_HeLa_SAHA_4h_R1 1 STGHTPTKPSGSSVSEK 17 1 Q8NI08-2;Q8NI08;Q8NI08-7 Q8NI08-2 NCOA7 Nuclear receptor coactivator 7 1 0 S(0.054)T(0.054)GHT(0.827)PT(0.064)KPS(0.001)GSSVSEK 62.792 0.011205 9065900 2717.8 3290.1 1821.8 2963.2 4066.1 4186.5 3077.7 3608 3334.3 3235 TRUE FALSE FALSE 3003.670674 3396.701399 2070.065416 3020.557021 3754.556296 3829.786647 2731.389096 3515.712584 3311.096335 3374.476682 0.890114515 1.006586123 0.613447836 0.895118653 1.112633647 1.134927578 0.80942598 1.041854165 0.981217726 1 11.72044807 -3.952401511 20.14406618 0.941168932 1.958045378 0.044553187 0.143447369 426.5186834 286844.0361 0.01926392 46926.49971 0.000111583 3.952401511 1.016876446 STGS(ph)PTQETQAPFIAK ddPTM_HeLa_SAHA_4h_R1 3 STGSPTQETQAPFIAK 16 0 H0Y704;O15231-2;O15231-3 H0Y704 ZNF185 Zinc finger protein 185 1 0 S(0.024)T(0.033)GS(0.854)PT(0.087)QET(0.002)QAPFIAK;S(0.014)T(0.002)GS(0.739)PT(0.244)QETQAPFIAK;S(0.007)T(0.001)GS(0.993)PTQETQAPFIAK ;; 303.44 5.55E-87 45331300 4345.06 5311.4 4002.42 4555.61 5234.3 5263.3 5063.92 4984.6 5257.5 3979.35 TRUE FALSE FALSE 4802.093347 5483.492845 4547.848954 4643.790419 4833.249065 4814.837229 4494.114394 4857.10115 5220.912629 4150.919253 1.156874671 1.32103096 1.09562453 1.118737835 1.164380411 1.159944806 1.08267931 1.170126628 1.257772631 1 12.01921515 -9.013077527 0.930311806 1.004650321 1.156345656 0 0.099910029 0.372109524 0.609335508 0.035014737 0.012163944 9.70E-10 9.013077527 0.151695335 STGTEPPGEVRLADS(ph)AASR ddPTM_HeLa_SAHA_4h_R1 2 STGTEPPGEVRLADSAASR 19 1 O43586-2 O43586-2 1 0 STGTEPPGEVRLADS(0.996)AAS(0.004)R;STGTEPPGEVRLADS(1)AASR ; 118.71 0.0017972 74518000 1428.22 1230.73 1193.26 1580.42 1505.54 1506.73 1611.88 1495.77 1273.5 1103.68 TRUE FALSE FALSE 1578.446733 1270.60646 1355.871259 1611.011314 1390.18585 1378.348127 1430.50702 1457.510369 1264.63761 1151.265046 1.371054162 1.103661111 1.177722943 1.399340074 1.207528931 1.19724657 1.242552291 1.266007662 1.09847651 1 10.1690043 -9.51051235 1.224715108 0.99815634 1.25551725 0.430219732 0.08767437 0.292413388 0.775958592 0.063864149 0.014954693 3.09E-10 9.51051235 0.25736091 STIFIS(ph)PSSVK ddPTM_HeLa_SAHA_4h_R1 2 STIFISPSSVK 11 0 E9PHV5;P28290-3;P28290;P28290-2;E7EUL7 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 S(0.003)T(0.009)IFIS(0.987)PS(0.001)SVK;STIFIS(0.876)PS(0.122)S(0.001)VK ; 184.87 1.38E-06 27933000 4354.5 4735 3847.2 4244.7 5252.3 5941.9 5265.7 5691.8 5413.9 4342.3 TRUE FALSE FALSE 4812.526289 4888.417107 4371.476381 4326.862306 4849.869909 5435.616692 4673.189577 5546.211998 5376.224229 4529.517804 1.06248093 1.079235653 0.965108555 0.955258925 1.070725432 1.200043123 1.031719 1.224459697 1.186930809 1 12.14514176 -5.516062731 24.23507444 1.023875891 1.139262767 0.261981378 0.078988819 142.4182095 506382.2663 0.008452288 0.017447717 3.05E-06 5.516062731 0.115386876 STIGVMVT(ph)ASHNPEEDNGVK ddPTM_HeLa_SAHA_4h_R1 1 STIGVMVTASHNPEEDNGVK 20 0 D6RC77;D6RCQ8;D6RF77;A0A494C163;A0A494C099;A0A494C0G1;H0Y987;O95394;O95394-3;O95394-4 D6RC77 PGM3 Phosphoacetylglucosamine mutase 1 0 S(0.003)T(0.003)IGVMVT(0.898)AS(0.097)HNPEEDNGVK 71.872 0.0071275 21498000 4012.9 5735.8 4806 5248.3 6011.8 7045.3 6468.5 5582.4 5809.5 5719.7 TRUE FALSE FALSE 4434.995234 5921.643683 5460.936651 5349.888436 5551.177183 6445.000804 5740.647356 5439.610291 5769.071216 5966.304259 0.74334044 0.992514533 0.915296374 0.89668381 0.930421404 1.080233345 0.96217811 0.911721906 0.966942175 1 12.54262184 -5.510086325 10.97489819 0.890556193 0.98627699 0.054785346 0.080930544 0.678775806 567.0913239 0.015186426 0.03235463 3.09E-06 5.510086325 0.095720797 STIGVMVTAS(ph)HNPEEDNGVK ddPTM_HeLa_SAHA_4h_R1 9 STIGVMVTASHNPEEDNGVK 20 0 D6RC77;D6RCQ8;D6RF77;A0A494C163;A0A494C099;A0A494C0G1;H0Y987;O95394;O95394-3;O95394-4 D6RC77 PGM3 Phosphoacetylglucosamine mutase 1 0 STIGVMVT(0.148)AS(0.852)HNPEEDNGVK;STIGVMVT(0.003)AS(0.997)HNPEEDNGVK;STIGVMVT(0.332)AS(0.668)HNPEEDNGVK;STIGVMVT(0.035)AS(0.965)HNPEEDNGVK;STIGVMVTAS(1)HNPEEDNGVK;S(0.002)T(0.002)IGVMVT(0.074)AS(0.922)HNPEEDNGVK;STIGVMVT(0.15)AS(0.85)HNPEEDNGVK;STIGVMVT(0.238)AS(0.762)HNPEEDNGVK;STIGVMVT(0.039)AS(0.961)HNPEEDNGVK ;;;;;;;; 176.65 1.48E-09 759358600 17173.13 26654.48 21324.27 24334 27685.28 29078.15 27083.82 23089.14 25550.82 24495.47 TRUE FALSE FALSE 18979.47861 27518.10264 24230.23046 24805.01976 25564.03983 26600.52803 24036.27729 22498.55323 25373.00976 25551.58959 0.742790523 1.076962454 0.948286617 0.970781864 1.000487259 1.041051788 0.940695968 0.880514817 0.993011009 1 14.64112542 -7.247465447 24.99278437 0.878539965 0.979909447 0.080483988 0.085067921 1070.145539 1913988.112 0.017571144 0.021463052 5.66E-08 7.247465447 0.101369483 STLEPVEK ddPTM_HeLa_SAHA_4h_R1 4 STLEPVEK 8 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37;P17066;P48741 A0A0G2JIW1;P17066 HSPA1B;HSPA1A;HSPA6;HSPA7 Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A;Heat shock 70 kDa protein 6;Putative heat shock 70 kDa protein 7 0 0 ;;; ;;; 161.02 9.23E-05 52354800 9240.6 9248.5 8452.3 8829.9 9086.9 10461.3 10488.6 10205 10006.6 9804.2 FALSE FALSE TRUE 10212.56871 9548.157468 9604.135426 9000.815483 8390.663685 9569.938386 9308.395124 9943.970877 9936.963256 10226.90704 0.998597979 0.933631002 0.939104598 0.880111205 0.820449785 0.935760768 0.910186734 0.972334141 0.971648927 1 13.32008227 -7.040296273 1.731266169 1.000233436 0.903602238 0.455341343 0.038885653 0.189127452 1.107509612 0.006875409 0.008891074 9.11E-08 7.040296273 -0.096631199 STLESEKPGS(ph)PEAAETSPPSNIIDHCEK ddPTM_HeLa_SAHA_4h_R1 1 STLESEKPGSPEAAETSPPSNIIDHCEK 28 1 Q96T23-3;Q96T23-2;Q96T23;H0YER1;H0YCN2 Q96T23-3 RSF1 Remodeling and spacing factor 1 1 0 STLES(0.005)EKPGS(0.98)PEAAET(0.015)S(0.001)PPSNIIDHCEK 134.61 1.68E-10 25299000 4230.2 4270.6 3118 3978.8 4849.2 5315.6 4894.7 4741.7 4268.7 4193.1 TRUE FALSE FALSE 4675.151845 4408.970242 3542.904802 4055.815427 4477.655344 4862.680975 4343.935474 4620.41418 4238.993769 4373.885062 1.068878532 1.008021514 0.810013238 0.927279837 1.023724968 1.11175326 0.993152635 1.056363877 0.969159845 1 12.09469959 -5.516391465 24.89325897 1.00489594 1.051036684 0.108098594 0.075148887 693.6437313 2661671.463 0.01239372 0.025495938 3.05E-06 5.516391465 0.046140744 STLESEKPGSPEAAET(ph)S(ph)PPSNIIDHCEK ddPTM_HeLa_SAHA_4h_R1 2 STLESEKPGSPEAAETSPPSNIIDHCEK 28 1 Q96T23-3;Q96T23-2;Q96T23;H0YER1;H0YCN2 Q96T23-3 RSF1 Remodeling and spacing factor 1 2 0 STLESEKPGS(0.031)PEAAET(0.978)S(0.978)PPS(0.014)NIIDHCEK;S(0.078)T(0.078)LES(0.076)EKPGS(0.556)PEAAET(0.599)S(0.599)PPS(0.014)NIIDHCEK ; 81.763 1.00E-05 25338800 6010.3 5643.4 5208.5 5858.8 6642.5 7234.8 6782.6 7977.6 6282.4 6238.7 TRUE FALSE FALSE 6642.49093 5826.249863 5918.287255 5972.205546 6133.553085 6618.354338 6019.403997 7773.544543 6238.680267 6507.680888 1.020715527 0.895288193 0.909431079 0.917716411 0.942509811 1.017006588 0.92496914 1.194518397 0.958664135 1 12.66792779 -4.251871752 24.54393866 0.981259921 1.194518545 0.645190102 0.049954835 595.5381559 1527698.825 0.00800527 0.136018465 5.60E-05 4.251871752 0.213258624 STLINTLFK ddPTM_HeLa_SAHA_4h_R1 1 STLINTLFK 9 0 Q9UHD8;Q9UHD8-5;Q9UHD8-2;Q9UHD8-7;K7ELJ9;K7EL40;K7EK18;K7EQD7;K7ER14;K7EIR4;K7ER52;K7EIE4;K7EJZ2;K7ENQ5;K7EN52;K7EKN4;Q9UHD8-4;Q9UHD8-9;Q9UHD8-3;Q9UHD8-8 Q9UHD8 9-Sep Septin-9 0 0 102.07 0.01127 264330 135.87 0 149.83 0 187.63 56.379 135.35 63.386 0 0 FALSE FALSE TRUE 150.16143 0 170.2480521 0 173.2538299 51.57519202 120.1200618 61.7646779 0 0 0 STLMGHMLYLLGNINKR ddPTM_HeLa_SAHA_4h_R1 1 STLMGHMLYLLGNINKR 17 1 E9PS53;E9PHZ9;B7Z524;H0YDX7;J3QT46;Q9Y450-4;Q9Y450 E9PS53 HBS1L HBS1-like protein 0 0 68.83 0.006331 304510 364.61 538.85 435.11 533.64 616.26 301.77 751.26 353.63 474.63 380.8 FALSE FALSE TRUE 402.9613527 556.3090936 494.4045248 543.9693739 569.0422919 276.0574983 666.7262476 344.5846567 471.3270112 397.2181516 1.014458557 1.400512769 1.244667503 1.369447422 1.432568702 0.694977048 1.678488873 0.867494739 1.18656967 1 8.633787741 -7.322501855 11.24998361 1.00674756 1.249380001 0.06599297 0.272141571 1.168094652 213.3812042 0.040488903 0.046279425 4.76E-08 7.322501855 0.242632441 STLNEIYFGK ddPTM_HeLa_SAHA_4h_R1 2 STLNEIYFGK 10 0 B1AK87;P47756-2;P47756;B1AK88 B1AK87 CAPZB F-actin-capping protein subunit beta 0 0 ; ; 148.56 4.84E-05 2586900 973.16 1248.41 1430.23 1844.44 1987.74 2355.2 1790.89 2889.3 1134.97 1262.98 FALSE FALSE TRUE 1075.521434 1288.859303 1625.134296 1880.141803 1835.439791 2154.52371 1589.374344 2815.39589 1127.071651 1317.433249 0.816376416 0.978310897 1.233561015 1.427124908 1.393193767 1.635394971 1.206417362 2.137031149 0.855505698 1 10.36351415 -6.236245098 0.964007723 0.907405484 1.623959804 0.668866249 0.220329397 0.230224186 0.422917444 0.03761084 0.082665929 5.80E-07 6.236245098 0.71655432 STLNPQWNES(ph)FTFK ddPTM_HeLa_SAHA_4h_R1 1 STLNPQWNESFTFK 14 0 P17252;J3KRN5 P17252 PRKCA Protein kinase C alpha type 1 0 STLNPQWNES(0.959)FT(0.041)FK 148.7 8.85E-05 16332000 3265.4 3189.3 3077.8 3519.1 4073.3 4073.2 3617.4 4130.1 3059.9 3489.6 TRUE FALSE FALSE 3608.869754 3292.635413 3497.226556 3587.217269 3761.204634 3726.140445 3210.360632 4024.458022 3038.605907 3640.053734 0.991433099 0.904556815 0.960762343 0.985484702 1.033282723 1.023649846 0.881954187 1.105604015 0.83476952 1 11.82974403 -3.298196831 14.53225909 0.98939641 0.99329672 0 0.077592765 0 0 0.007131656 0 0.000503272 3.298196831 0.00390031 STLNPQWNESFT(ph)FK ddPTM_HeLa_SAHA_4h_R1 1 STLNPQWNESFTFK 14 0 P17252;J3KRN5 P17252 PRKCA Protein kinase C alpha type 1 0 STLNPQWNES(0.16)FT(0.84)FK 145.49 0.00020152 17307000 2738.9 2622.2 2459.9 2431.4 3078.2 3214.9 2537.1 3094.9 2329.1 2846.5 TRUE FALSE FALSE 3026.990069 2707.161 2795.122361 2478.463263 2842.348981 2940.972433 2251.618831 3015.736939 2312.891603 2969.226545 1.019454064 0.911739458 0.941363792 0.834716794 0.957269153 0.990484353 0.758318302 1.015664145 0.778954239 1 11.53587146 -7.257671438 23.90829427 1.009186643 0.911954625 0 0.101295366 152.6259795 968439.9362 0.010730166 0.012872957 5.52E-08 7.257671438 -0.097232018 STLPDADRER ddPTM_HeLa_SAHA_4h_R1 3 STLPDADRER 10 1 O43707;O43707-2;F5GXS2;O43707-3;H7C144 O43707 ACTN4 Alpha-actinin-4 0 0 ;; ;; 112.3 0.0075069 68051600 5815 5148.1 5985.8 6426.1 6940.4 5715.6 6790.6 5765.1 4513.2 4831.9 FALSE FALSE TRUE 6426.64838 5314.901818 6801.513651 6550.486458 6408.628051 5228.598725 6026.503816 5617.63709 4481.792274 5040.226856 1.275071255 1.054496547 1.349445937 1.299641196 1.271495953 1.037373689 1.195681065 1.114560366 0.889204475 1 12.29927295 -9.431073575 1.070816189 0.995798314 1.206822216 0.457367937 0.106295503 0.465827282 0.924136376 0.076392824 0.01766626 3.71E-10 9.431073575 0.211023901 STLS(ph)PPEASPGPPAAPR ddPTM_HeLa_SAHA_4h_R1 1 STLSPPEASPGPPAAPR 17 0 Q6NUJ5-2;Q6NUJ5 Q6NUJ5-2 PWWP2B PWWP domain-containing protein 2B 1 0 S(0.004)T(0.004)LS(0.993)PPEASPGPPAAPR 158.89 1.12E-13 0 696.98 835.09 763.07 771.41 742.49 897.14 720.38 723.53 699.67 816.15 TRUE FALSE FALSE 770.2915543 862.1474639 867.0572057 786.341756 685.6005766 820.6986248 639.3209465 705.0231503 694.8009395 851.3382206 0.90480086 1.012696767 1.018463855 0.923653769 0.805321035 0.964010078 0.750959996 0.828135203 0.816127977 1 9.733588591 -5.925268352 5.088257431 0.963804749 0.840759598 0.330191717 0.075335275 0.142238389 6.750472449 0.009374772 0.017210143 1.19E-06 5.925268352 -0.12304515 STLT(ph)PTQR ddPTM_HeLa_SAHA_4h_R1 1 STLTPTQR 8 0 A0A088AWL3;O75376;O75376-2;E7EVK1 A0A088AWL3 NCOR1 Nuclear receptor corepressor 1 1 0 S(0.009)T(0.031)LT(0.96)PT(0.001)QR 108.57 0.012114 3681800 2111.6 2059.6 2041.3 2377.5 2569.7 2571.5 2133.8 2355.6 2469.2 2281.2 TRUE FALSE FALSE 2333.707776 2126.332391 2319.477733 2423.51995 2372.810141 2352.393733 1893.699208 2295.347163 2452.016636 2379.553696 0.980733396 0.893584539 0.974753265 1.018476681 0.997166042 0.988586111 0.795821171 0.964612468 1.030452324 1 11.21647529 -4.797133423 24.88897086 0.98490863 0.88021677 0.402589842 0.051282038 94.43186852 65845.95705 0.006391618 0.019175865 1.60E-05 4.797133423 -0.10469186 STLTDSLVCK ddPTM_HeLa_SAHA_4h_R1 3 STLTDSLVCK 10 0 P13639 P13639 EEF2 Elongation factor 2 0 0 ;; ;; 179.51 3.21E-12 3653100 2181.18 2415.73 2412.57 2353.75 2754.91 2551.51 3031.77 2482.78 2138.55 2228.74 FALSE FALSE TRUE 2410.60652 2494.001237 2741.342475 2399.310235 2543.829391 2334.106994 2690.62726 2419.274083 2123.667656 2324.831889 1.036894982 1.072766272 1.179157293 1.032036014 1.094199285 1.003989581 1.15734272 1.040623236 0.913471493 1 11.18291068 -7.49027323 2.017358088 1.013650769 1.084730881 0.338419163 0.060004013 0.282825956 2.271445685 0.009178103 0.010000389 3.23E-08 7.49027323 0.071080112 STNGDTFLGGEDFDQALLR ddPTM_HeLa_SAHA_4h_R1 2 STNGDTFLGGEDFDQALLR 19 0 P38646 P38646 HSPA9 "Stress-70 protein, mitochondrial" 0 0 ; ; 338.92 1.12E-142 31199000 2708 3372.3 2343.2 2718.3 3059.6 3357.9 3496.9 3230.8 3141.4 2999.2 FALSE FALSE TRUE 2992.839865 3481.564733 2662.519093 2770.916627 2825.174109 3071.788029 3103.419609 3148.160814 3119.538742 3128.51019 0.956634207 1.112850693 0.851050159 0.88569845 0.903041364 0.981869274 0.991980023 1.006281144 0.997132358 1 11.61126009 -8.69979797 0.489098972 1.001416198 0.954348876 0.051263677 0.068793487 3.368374884 1.492035981 0.073159018 0.021785793 2.00E-09 8.69979797 -0.047067322 STPAEDDS(ph)PGDSQVK ddPTM_HeLa_SAHA_4h_R1 1 STPAEDDSPGDSQVK 15 0 Q9UHB6-4;Q9UHB6-5 Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 STPAEDDS(1)PGDSQVK 222.57 2.42E-18 5072300 711.72 1118.4 834.75 652.36 974.94 1111.9 1104.7 906.53 1111.8 940.98 TRUE FALSE FALSE 786.5819751 1154.636894 948.5053828 664.9873711 900.2403078 1017.159865 980.3962486 883.3422752 1104.062893 981.5502528 0.801366993 1.176340071 0.966334001 0.677486832 0.917161709 1.036278949 0.998824304 0.899946052 1.124815454 1 9.938918322 -5.399477959 10.09913988 0.912486802 0.98023328 0 0.142396373 1.079805591 84.19836355 0.019480221 0.04358689 3.99E-06 5.399477959 0.067746477 STPAEDDSRDS(ph)QVKSEVQQPVHPKPLSPDSR ddPTM_HeLa_SAHA_4h_R1 1 STPAEDDSRDSQVKSEVQQPVHPKPLSPDSR 31 3 Q9UHB6;F8VQE1;Q9UHB6-2;F8VS07;Q9UHB6-3;F8VRN8 Q9UHB6 LIMA1 LIM domain and actin-binding protein 1 1 0 S(0.013)T(0.013)PAEDDS(0.136)RDS(0.399)QVKS(0.31)EVQQPVHPKPLS(0.122)PDS(0.007)R 43.623 0.015049 24412000 2761 719.66 2070.7 1428.8 1215 817.11 1994.9 2067 384.66 972.83 TRUE FALSE FALSE 3051.414648 742.9774562 2352.884212 1456.45649 1121.906962 747.4876311 1770.428602 2014.129133 381.9831197 1014.773462 3.00699098 0.732160905 2.318630019 1.435252837 1.10557381 0.736605419 1.744654021 1.984806667 0.376422063 1 9.986941981 -6.070126753 11.0311104 1.886359954 1.358598331 0 0.826587613 1.667412597 258.8380789 0.130876161 0.217190999 8.51E-07 6.070126753 -0.527761623 STPENHPET(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 STPENHPETPK 11 0 A0A590UJS4;Q6KC79-2;Q6KC79-3;Q6KC79 A0A590UJS4;Q6KC79 NIPBL Nipped-B-like protein 1 0 STPENHPET(1)PK;STPENHPET(1)PK ; 131.66 0.0022 26030400 8222.7 9979.3 5395.3 8650.6 11153.2 13388 9906.2 11125.1 11918.1 10432.9 TRUE FALSE FALSE 9087.601313 10302.63587 6130.543386 8818.044872 10298.64423 12247.26708 8791.528304 10840.53605 11835.16097 10882.71338 0.83504922 0.946697346 0.563328572 0.810279989 0.946330558 1.125387269 0.807843412 0.996124374 1.087519313 1 13.40975069 -3.838552585 8.63238544 0.900409121 3.366304379 0.032409 0.153095579 47033.37101 58537.77828 0.02025172 2164217.11 0.000145027 3.838552585 2.465895258 STPESGDS(ph)DKESVGSSSTSNEGGR ddPTM_HeLa_SAHA_4h_R1 1 STPESGDSDKESVGSSSTSNEGGR 24 1 Q6GQQ9-2;Q6GQQ9 Q6GQQ9-2 OTUD7B OTU domain-containing protein 7B 1 0 S(0.001)T(0.001)PES(0.026)GDS(0.914)DKES(0.041)VGS(0.006)S(0.006)S(0.003)T(0.001)S(0.001)NEGGR 64.318 0.0016153 25348000 387.97 638.32 506.51 634.92 506.25 554.38 505.6 648.02 600.5 575.75 TRUE FALSE FALSE 428.7784647 659.0019868 575.534545 647.2097947 467.4612344 507.1437051 448.7085573 631.4445867 596.3210716 600.5734002 0.713948478 1.097288003 0.958308418 1.077653114 0.778358206 0.844432512 0.747133585 1.051402854 0.992919552 1 9.230196768 -4.21074683 20.44197562 0.885277266 1.051410921 0.059067959 0.131748231 6603.583694 2662190.291 0.020168398 13.09806318 6.16E-05 4.21074683 0.166133655 STPFIVPS(ph)SPTEQEGR ddPTM_HeLa_SAHA_4h_R1 2 STPFIVPSSPTEQEGR 16 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 STPFIVPS(0.753)S(0.246)PT(0.001)EQEGR;S(0.009)T(0.009)PFIVPS(0.613)S(0.216)PT(0.151)EQEGR ; 227.74 1.96E-27 299739800 2811.8 2697.7 2580.2 2890 2939.9 3391.8 3372.2 2834 2695.5 2829.5 TRUE FALSE FALSE 3107.558025 2785.10725 2931.816219 2945.940129 2714.645497 3102.799558 2992.751181 2761.510384 2676.741796 2951.493592 1.052876426 0.943626392 0.993333079 0.998118423 0.919753139 1.051264203 1.013978546 0.935631502 0.906910929 1 11.52722949 -7.270567607 24.97200371 1.024969423 0.98244474 0 0.053910465 777.7922459 2127794.264 0.006833511 0.007867525 5.36E-08 7.270567607 -0.042524683 STPFIVPSS(ph)PTEQEGR ddPTM_HeLa_SAHA_4h_R1 6 STPFIVPSSPTEQEGR 16 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 STPFIVPS(0.469)S(0.522)PT(0.009)EQEGR;STPFIVPS(0.021)S(0.975)PT(0.004)EQEGR;STPFIVPS(0.225)S(0.77)PT(0.005)EQEGR;STPFIVPS(0.254)S(0.708)PT(0.037)EQEGR;STPFIVPS(0.132)S(0.868)PTEQEGR;STPFIVPS(0.23)S(0.747)PT(0.023)EQEGR ;;;;; 289.87 6.55E-73 1028110200 12840.23 13724.86 12881.34 14550.89 14814.31 17148.61 14983.82 14928.41 16220.86 13841.13 TRUE FALSE FALSE 14190.8243 14169.55447 14636.74193 14832.54352 13679.24077 15687.45195 13297.80114 14546.56289 16107.97771 14437.88885 0.982887765 0.981414569 1.013773003 1.027334652 0.947454362 1.086547494 0.921035012 1.007527003 1.115674035 1 13.81757218 STPKEDDSSASTSQSTR ddPTM_HeLa_SAHA_4h_R1 3 STPKEDDSSASTSQSTR 17 1 E7EX17;P23588-2;P23588;F8VX11 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 0 0 ;; ;; 197.73 1.15E-13 5072620 1892.09 1316.7 1609.89 1908.62 1690.41 1979.7 1658.97 1709.35 1363.22 1715.37 FALSE FALSE TRUE 2091.108707 1359.361944 1829.277425 1945.5641 1560.891151 1811.018423 1472.298329 1665.627302 1353.733241 1789.327996 1.168655894 0.75970529 1.022326499 1.08731552 0.872333722 1.012122108 0.822821938 0.930867514 0.756559582 1 10.80520215 -6.062539121 0.604311401 1.067364613 0.889857389 0 0.149425793 1.080847919 0.722816263 0.02773654 0.09085172 8.66E-07 6.062539121 -0.177507224 STPLAS(ph)PSPSPGR ddPTM_HeLa_SAHA_4h_R1 1 STPLASPSPSPGR 13 0 Q8WYP5;Q8WYP5-3;Q8WYP5-2 Q8WYP5 AHCTF1 Protein ELYS 1 0 S(0.011)T(0.037)PLAS(0.937)PS(0.015)PSPGR 100.73 0.0051638 3756400 834.91 843.45 684.37 800.02 1172.3 1161 1301.6 1111.6 999.91 817.82 TRUE FALSE FALSE 922.7296645 870.7783334 777.6323796 815.5055439 1082.478627 1062.076268 1155.140542 1083.166882 992.9515449 853.0802225 1.081644657 1.020746127 0.911558326 0.955954109 1.268906017 1.244989909 1.354081963 1.269712804 1.163960339 1 9.736537607 -5.746714379 19.4048341 1.022222658 1.28658379 0.7758278 0.069020197 5.261450606 6932.658466 0.008980286 0.017835892 1.79E-06 5.746714379 0.264361132 STPLASPSPS(ph)PGRSPQR ddPTM_HeLa_SAHA_4h_R1 1 STPLASPSPSPGRSPQR 17 1 Q8WYP5;Q8WYP5-3;Q8WYP5-2 Q8WYP5 AHCTF1 Protein ELYS 1 0 STPLAS(0.058)PS(0.126)PS(0.414)PGRS(0.402)PQR 157.84 2.98E-05 12968000 2108.7 1336.4 1413 1400 1770.6 1768 1606.1 1808.5 1659.3 1408.7 TRUE FALSE FALSE 2330.502741 1379.700237 1605.556281 1427.099024 1634.937011 1617.356454 1425.377401 1762.241189 1647.752796 1469.435951 1.585984567 0.938931864 1.092634409 0.971188314 1.112628971 1.100664818 0.970016692 1.199263695 1.121350539 1 10.52104676 -7.214844894 24.9984236 1.276715334 1.053966141 0.201594849 0.158656404 532.8401737 285874.4902 0.036996607 0.04531131 6.10E-08 7.214844894 -0.222749193 STPLASPSPSPGRS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 1 STPLASPSPSPGRSPQR 17 1 Q8WYP5;Q8WYP5-3;Q8WYP5-2 Q8WYP5 AHCTF1 Protein ELYS 1 0 STPLAS(0.001)PS(0.006)PS(0.052)PGRS(0.94)PQR 200.71 9.13E-15 14190000 3304.3 2249.5 1689 1815.5 1445.6 1981.8 2358.6 2385.1 1764.6 1956.2 TRUE FALSE FALSE 3651.861435 2322.385276 1919.168124 1850.641628 1334.83844 1812.939491 2093.204121 2324.092596 1752.320005 2040.541355 1.789653233 1.138122131 0.940519102 0.906936594 0.654158974 0.888460058 1.025808232 1.13895883 0.858752507 1 10.99473623 -6.97137929 4.812203564 1.37735823 0.920297583 0.122114064 0.267508484 0.175754934 10.18066973 0.051416097 0.067060822 1.07E-07 6.97137929 -0.457060646 STPS(ph)PTPVESSDPK ddPTM_HeLa_SAHA_4h_R1 2 STPSPTPVESSDPK 14 0 Q9NW07 Q9NW07 ZNF358 Zinc finger protein 358 1 0 ST(0.001)PS(0.994)PT(0.005)PVESSDPK;S(0.002)TPS(0.953)PT(0.028)PVES(0.002)S(0.015)DPK ; 180.06 6.33E-07 26802000 6098.4 5690.2 4995.9 5433.7 6076.6 6346.3 6289.7 6274.9 6237.2 5717.3 TRUE FALSE FALSE 6739.857692 5874.566213 5676.715234 5538.877121 5611.012221 5805.559537 5581.966402 6114.397144 6193.794817 5963.800783 1.130127906 0.985037299 0.951861982 0.928749521 0.940845012 0.973466376 0.935974659 1.025251742 1.03856501 1 12.54201635 -7.060611995 7.156398454 1.061436446 0.957585048 0.547333679 0.039326799 0.174581523 17.90204251 0.008792298 0.01082361 8.70E-08 7.060611995 -0.103851398 STPS(ph)PVLQPR ddPTM_HeLa_SAHA_4h_R1 1 STPSPVLQPR 10 0 Q8TEK3-1;Q8TEK3 Q8TEK3-1 DOT1L "Histone-lysine N-methyltransferase, H3 lysine-79 specific" 1 0 S(0.004)T(0.134)PS(0.863)PVLQPR 88.338 0.019569 7722900 1222.4 1174.3 1462.6 1361.4 1283 1348 1540.7 1169.1 1049.7 1192.9 TRUE FALSE FALSE 1350.977641 1212.34809 1661.915511 1387.751866 1184.696817 1233.142816 1367.336381 1139.196115 1042.395052 1244.331757 1.085705346 0.974296512 1.335588762 1.115258739 0.952074727 0.991008073 1.098851953 0.915508351 0.837714738 1 10.28115546 -5.7589432 24.99778828 1.065166948 0.997299244 0.063383067 0.126247851 138.905452 1391031.564 0.015818115 0.030513943 1.74E-06 5.7589432 -0.067867704 STPVK(ac)LMR ddPTM_HeLa_SAHA_4h_R1 1 STPVKLMR 8 1 P10243-2;P10243 P10243-2 MYBL1 Myb-related protein A 0 1 STPVK(1)LMR 107.29 0.0059749 3282600 760.18 839.82 1485.3 1271.2 1553.9 562.6 2379.9 416.53 120.88 411.02 FALSE TRUE FALSE 840.1392202 867.030719 1687.708949 1295.805914 1434.840518 514.6633149 2112.107388 405.8757657 120.0387862 428.7410837 1.959549136 2.022271138 3.936429265 3.0223507 3.346636402 1.200405873 4.926300438 0.946668703 0.279979668 1 8.743962858 -7.656906746 0.916795465 1.227530664 2.907679203 0.319470654 1.171992981 0.430629521 0.759253238 0.264887145 0.252465843 2.20E-08 7.656906746 1.680148539 STS(ph)ATDTHHVEMAR ddPTM_HeLa_SAHA_4h_R1 1 STSATDTHHVEMAR 14 0 H3BQP2;H3BNP3;H3BTL2;H3BS02;O14874-2;O14874-3;O14874 H3BQP2 BCKDK "[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial" 1 0 S(0.095)T(0.095)S(0.396)AT(0.396)DT(0.018)HHVEMAR 91.657 0.002925 0 212.11 192.82 185.02 129.8 313.05 161.9 335.9 249.21 361.97 396.98 TRUE FALSE FALSE 234.420703 199.0674945 210.2335621 132.3124667 289.0641766 148.1052092 298.103648 242.8355691 359.4510213 414.0957506 0.566102653 0.480728175 0.507693116 0.319521431 0.6980612 0.357659331 0.719890623 0.586423717 0.868038421 1 8.693820588 -8.932228171 0.69490742 1.013375936 0.522181318 0.614232522 0.126715 0.324565934 0.281972655 0.087950129 0.025779795 1.17E-09 8.932228171 -0.491194617 STS(ph)DTDLVTSDSR ddPTM_HeLa_SAHA_4h_R1 2 STSDTDLVTSDSR 13 0 Q76N89-2;Q76N89 Q76N89-2 HECW1 E3 ubiquitin-protein ligase HECW1 1 0 S(0.001)T(0.034)S(0.96)DT(0.005)DLVTSDSR;S(0.121)T(0.02)S(0.738)DT(0.121)DLVTSDSR ; 190.57 1.92E-07 7884400 1604.11 1425.37 1513.93 1370.18 1500.09 1733.84 1643.14 1649.16 1589.79 1424.87 TRUE FALSE FALSE 1772.83765 1471.552923 1720.240496 1396.701815 1385.153428 1586.107078 1458.249563 1606.976875 1578.726522 1486.303119 1.192783375 0.990075917 1.15739547 0.939715323 0.93194545 1.067149128 0.981125279 1.081190542 1.062183415 1 10.53751266 -6.257795188 24.89862103 1.088695246 0.999088726 0.227311391 0.073197401 386.3492371 2639701.652 0.013351167 0.021584125 5.52E-07 6.257795188 -0.08960652 STS(ph)FGVPNANSIK ddPTM_HeLa_SAHA_4h_R1 2 STSFGVPNANSIK 13 0 A0A087WVP4;A0A087X1R1;P53814-5;P53814;P53814-6;P53814-2;H7BZZ8;A0A096LNK9;B5MCI0 A0A087WVP4 SMTN Smoothelin 1 0 S(0.01)T(0.419)S(0.571)FGVPNANSIK;S(0.001)T(0.004)S(0.994)FGVPNANSIK ; 174.94 1.61E-05 15030400 4599.7 5170 4805.9 4378.4 5431.3 5922.3 6241.6 3893.9 3563.5 3906.1 TRUE FALSE FALSE 5083.51755 5337.511392 5460.823024 4463.150263 5015.154967 5417.686722 5539.278741 3794.299676 3538.701313 4074.511087 1.247638659 1.309975916 1.34024007 1.095383021 1.230860552 1.329653204 1.359495317 0.931228212 0.868497161 1 11.99241124 -9.100897932 0.847376676 0.998294152 1.239289435 0.419150518 0.132460505 0.540180632 0.696425691 0.081217974 0.023402688 7.93E-10 9.100897932 0.240995283 STS(ph)FRQGPEESGLGDGTGPK ddPTM_HeLa_SAHA_4h_R1 2 STSFRQGPEESGLGDGTGPK 20 1 Q92614;A0A0D9SFK2;Q92614-3;Q92614-4;Q92614-2;Q92614-5 Q92614 MYO18A Unconventional myosin-XVIIIa 1 0 S(0.049)T(0.049)S(0.898)FRQGPEES(0.004)GLGDGTGPK;S(0.144)T(0.144)S(0.661)FRQGPEES(0.051)GLGDGTGPK ; 109.37 0.0022491 15247600 5542.3 3308 4246.2 3738.3 4069.8 3550.9 5143.4 4849.8 2061.27 3855.3 TRUE FALSE FALSE 6125.264543 3415.18137 4824.850023 3810.660202 3757.972803 3248.343343 4564.651095 4725.749138 2046.925454 4021.52085 1.523121419 0.849226324 1.199757555 0.947566939 0.934465577 0.807740023 1.135055932 1.175114917 0.508992874 1 11.97352548 -7.242618237 24.96903312 1.247029576 1.00659108 0 0.289336604 976.8407513 1295925.203 0.037462125 0.045837137 5.72E-08 7.242618237 -0.240438496 STS(ph)LNERPK ddPTM_HeLa_SAHA_4h_R1 3 STSLNERPK 9 1 H3BMQ0;P49815;A0A2R8Y5F1;A0A2R8YGD6;A0A2R8Y7C8;A0A2R8YDR3;A0A2R8Y7X5;A0A2R8YDZ2;X5D2U8;A0A2R8YGU4;A0A2R8Y6C9;P49815-5;P49815-3;P49815-2;P49815-6;P49815-7;P49815-4 H3BMQ0 TSC2 Tuberin 1 0 S(0.006)T(0.163)S(0.831)LNERPK;STS(0.999)LNERPK;S(0.016)T(0.001)S(0.982)LNERPK ;; 131.42 0.0083693 56488000 15357.9 13876.7 11977.7 18514.1 18942.6 18870.5 18814.6 19574.9 16277.7 15109.1 TRUE FALSE FALSE 16973.31439 14326.31418 13609.95858 18872.46718 17491.22208 17262.62724 16697.53169 19074.2024 16164.42216 15760.52724 1.076950925 0.908999678 0.863547162 1.197451512 1.109811989 1.095307725 1.059452608 1.210251542 1.025626993 1 13.94402818 -6.230905209 24.99995278 1.013903535 1.126744351 0.499982842 0.074628216 646.3904807 529234.4638 0.012209233 0.0202454 5.88E-07 6.230905209 0.112840815 STS(ph)LSALVR ddPTM_HeLa_SAHA_4h_R1 2 STSLSALVR 9 0 Q5VZ89-3;Q5VZ89;Q5VZ89-7;X6RAE7;Q5VZ89-5;X6R5W5;A0A0A0MRX3 Q5VZ89-3 DENND4C DENN domain-containing protein 4C 1 0 S(0.004)T(0.044)S(0.951)LS(0.002)ALVR;S(0.018)T(0.219)S(0.762)LS(0.001)ALVR ; 136.49 0.0014055 10517600 3672.9 3582.1 3190.3 5316 4521.5 5594.9 4643.7 5416.2 3839.4 4110.1 TRUE FALSE FALSE 4059.232474 3698.16239 3625.05747 5418.898867 4175.063647 5118.183044 4121.178654 5277.661447 3812.681303 4287.306525 0.946802485 0.862584088 0.845532608 1.263940153 0.973819722 1.193799187 0.961251226 1.230996994 0.889295244 1 12.06585585 -6.271309126 24.99679788 0.95521316 1.111127336 0.481559998 0.106255881 551.7811249 1397477.754 0.015041603 0.023147881 5.35E-07 6.271309126 0.155914176 STS(ph)LVEGR ddPTM_HeLa_SAHA_4h_R1 1 STSLVEGR 8 0 M0QY76;P26651 M0QY76 ZFP36 Tristetraprolin 1 0 S(0.05)T(0.033)S(0.917)LVEGR 90.149 0.017793 6652700 1461.2 1898.5 1959.6 1419.4 2137.4 3163 2405.9 1525.6 1353 1831.1 TRUE FALSE FALSE 1614.89572 1960.012646 2226.644083 1446.874539 1973.632874 2893.494605 2135.1818 1486.577361 1343.584363 1910.047682 0.845474035 1.026159014 1.16575314 0.757507026 1.033289845 1.514880823 1.117868323 0.778293325 0.70342975 1 10.89939294 -5.51761126 24.98636917 0.940989979 1.158263864 0.17823444 0.208245923 271.2921483 1286874.087 0.027729787 0.056806332 3.04E-06 5.51761126 0.217273885 STS(ph)PTFNK ddPTM_HeLa_SAHA_4h_R1 1 STSPTFNK 8 0 Q9BX63 Q9BX63 BRIP1 Fanconi anemia group J protein 1 0 S(0.112)T(0.069)S(0.79)PT(0.029)FNK 110.53 0.0062609 20232000 8741.8 7987.8 7007.1 8381.8 8562.9 8703.9 9318.2 8204.6 8190.3 7182.5 TRUE FALSE FALSE 9661.302633 8246.609961 7961.991097 8544.041859 7906.812452 7962.278753 8269.691612 7994.738212 8133.303035 7492.172725 1.289519474 1.100696722 1.062707894 1.14039574 1.055343055 1.062746288 1.103777491 1.067078737 1.085573349 1 12.87116844 -7.014596416 24.2739781 1.139790712 1.083408935 0.057049439 0.07104357 1159.814075 1928783.051 0.017867293 0.022328254 9.67E-08 7.014596416 -0.056381777 STS(ph)PVTDPSIPIR ddPTM_HeLa_SAHA_4h_R1 1 STSPVTDPSIPIR 13 0 A0A087WU18;Q99607 A0A087WU18 ELF4 ETS-related transcription factor Elf-4 1 0 S(0.115)T(0.115)S(0.589)PVT(0.18)DPSIPIR 112.02 0.0022208 30902000 4215.5 3509.4 3259.6 3441.9 3813.1 3820.6 3701.7 3600.3 4308.8 4028 TRUE FALSE FALSE 4658.905631 3623.106863 3703.801313 3508.522952 3520.941102 3495.063386 3285.174974 3508.209539 4278.81471 4201.666793 1.108823203 0.862302282 0.881507624 0.835031221 0.83798675 0.831827834 0.781874227 0.834956628 1.018361265 1 12.03674604 -7.179627251 5.415507889 1.051221056 0.835245435 0.876222078 0.035230007 0.064167 3.217566366 0.007835193 0.009610124 6.61E-08 7.179627251 -0.215975621 STS(ph)QGSINSPVYSR ddPTM_HeLa_SAHA_4h_R1 1 STSQGSINSPVYSR 14 0 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639;A0A494C1P1;A0A494C1G0;H0Y7N6;F6XFR5 J3QSX6 ABLIM1 Actin-binding LIM protein 1 1 0 STS(1)QGSINSPVYSR 250.05 8.40E-34 78209000 1622.6 1907.1 1705.9 1064.7 1533.9 2384.5 2509.9 1335.5 1221.9 1483.5 TRUE FALSE FALSE 1793.272513 1968.891291 1938.371168 1085.308808 1416.372913 2181.327185 2227.479446 1301.339844 1213.396698 1547.460945 1.158848318 1.272336661 1.252613951 0.701348109 0.91528831 1.409616955 1.439441463 0.840951656 0.784121048 1 10.59568728 -9.267527849 1.068325079 1.002166261 1.132657273 0.092120405 0.239609509 1.543536983 3.23482459 0.145055776 0.0421745 5.40E-10 9.267527849 0.130491012 STS(ph)TPNVHMVSTTLPVDSR ddPTM_HeLa_SAHA_4h_R1 10 STSTPNVHMVSTTLPVDSR 19 0 H7C155;P04049;P04049-2 H7C155 RAF1 RAF proto-oncogene serine/threonine-protein kinase 1 0 S(0.022)T(0.022)S(0.929)T(0.027)PNVHMVS(0.001)TTLPVDSR;S(0.03)T(0.03)S(0.449)T(0.22)PNVHMVS(0.112)T(0.12)T(0.039)LPVDSR;S(0.058)T(0.058)S(0.661)T(0.222)PNVHMVSTTLPVDSR;S(0.095)T(0.095)S(0.686)T(0.124)PNVHMVSTTLPVDSR;STS(0.99)T(0.01)PNVHMVSTTLPVDSR;S(0.088)T(0.088)S(0.474)T(0.351)PNVHMVSTTLPVDSR;STS(0.5)T(0.5)PNVHMVSTTLPVDSR;S(0.121)T(0.121)S(0.601)T(0.158)PNVHMVSTTLPVDSR;STS(0.982)T(0.017)PNVHMVSTTLPVDSR;ST(0.001)S(0.91)T(0.089)PNVHMVSTTLPVDSR ;;;;;;;;; 261.02 4.93E-52 217126600 10931.77 12238.44 9749.63 11565.95 14417.39 14938.47 13807.49 12383.59 13282.15 12182.52 TRUE FALSE FALSE 12081.62373 12634.97349 11078.2588 11789.82569 13312.73269 13665.62831 12253.83489 12066.8357 13189.71844 12707.76806 0.950727435 0.994271648 0.871770617 0.927765256 1.047605892 1.075375963 0.96427908 0.949563735 1.037925651 1 13.63342304 -5.760512236 24.99983657 0.965844973 1.010723498 0.144584181 0.053978436 38.70338174 1043557.132 0.007808522 0.014941726 1.74E-06 5.760512236 0.044878525 STS(ph)TPTSPGPR ddPTM_HeLa_SAHA_4h_R1 4 STSTPTSPGPR 11 0 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6;H3BRB0;A0A0C4DGL7 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 S(0.003)T(0.097)S(0.881)T(0.005)PT(0.013)SPGPR;S(0.005)T(0.005)S(0.656)T(0.168)PT(0.166)SPGPR;S(0.005)T(0.005)S(0.908)T(0.065)PT(0.017)SPGPR;STS(0.755)T(0.05)PT(0.194)SPGPR ;;; 178.46 3.92E-05 52328000 9678.7 8697.8 8232 12262.9 9778.3 11830.4 11673.3 14373.3 9558.5 9504.8 TRUE FALSE FALSE 10696.75007 8979.614427 9353.81409 12500.26616 9029.088766 10822.38336 10359.78956 14005.6518 9491.98162 9914.598443 1.078888886 0.905696229 0.943438521 1.260793993 0.910686279 1.091560432 1.044902587 1.412629254 0.957374287 1 13.27533863 -4.258222171 5.075819568 1.032785975 1.431320107 0.569320726 0.101681521 0.089671296 7.338572916 0.012682527 0.124611574 5.52E-05 4.258222171 0.398534132 STS(ph)VPENPK ddPTM_HeLa_SAHA_4h_R1 6 STSVPENPK 9 0 D6RDA9;Q3MSN4;A0A494C0P1;P04150-7;P04150-5;P04150-2;P04150-6;P04150-10;P04150;P04150-3;P04150-9;P04150-8;P04150-13;P04150-12;P04150-11 D6RDA9 NR3C1 Glucocorticoid receptor 1 0 S(0.001)T(0.001)S(0.998)VPENPK;S(0.007)T(0.007)S(0.986)VPENPK;S(0.058)T(0.058)S(0.883)VPENPK;S(0.029)T(0.029)S(0.941)VPENPK;S(0.073)T(0.073)S(0.854)VPENPK;S(0.002)T(0.002)S(0.997)VPENPK ;;;;; 157.78 9.97E-05 227086500 38278.2 64220 50158.3 14169.7 41858.6 61531.1 56468.7 19661.2 19658 50401.8 TRUE FALSE FALSE 42304.4767 66300.77014 56993.61191 14443.97503 38651.40311 56288.30412 50114.69326 19158.29497 19521.19838 52574.86826 0.804652072 1.261073443 1.08404669 0.27473155 0.735168806 1.070631387 0.953206255 0.364400247 0.371302849 1 15.68208571 STS(ph)YGYSR ddPTM_HeLa_SAHA_4h_R1 2 STSYGYSR 8 0 Q13242 Q13242 SRSF9 Serine/arginine-rich splicing factor 9 1 0 S(0.001)T(0.003)S(0.996)YGYSR;ST(0.011)S(0.988)YGYSR ; 123.86 0.0029642 91419000 3917.8 3986.8 3684.7 4621.2 3943.9 4616.4 3744.3 5209.1 5301.1 3893.3 TRUE FALSE FALSE 4329.89218 4115.974936 4186.831727 4710.650008 3641.719234 4223.056749 3322.98151 5075.858765 5264.209213 4061.159216 1.066171492 1.013497555 1.030944985 1.159927439 0.896719148 1.039864857 0.818234729 1.249854658 1.296233152 1 11.98767587 -5.738823976 24.99394783 1.03851337 0.990865794 0.008677413 0.138648274 660.9432049 730453.6582 0.014550449 0.029082509 1.82E-06 5.738823976 -0.047647576 STSAPQMS(ph)PGSSDNQSSSPQPAQQK ddPTM_HeLa_SAHA_4h_R1 4 STSAPQMSPGSSDNQSSSPQPAQQK 25 0 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 STSAPQMS(0.582)PGS(0.392)S(0.026)DNQSSSPQPAQQK;S(0.002)T(0.002)S(0.009)APQMS(0.576)PGS(0.202)S(0.202)DNQS(0.004)S(0.001)S(0.001)PQPAQQK;S(0.001)TS(0.001)APQMS(0.912)PGS(0.068)S(0.018)DNQSSSPQPAQQK;STSAPQMS(0.983)PGS(0.011)S(0.005)DNQSSSPQPAQQK ;;; 167.48 4.94E-11 116851700 20273.5 19065.7 18672 20151.7 21623.2 23447 24563 23631.2 21741.9 18972.8 TRUE FALSE FALSE 22405.95975 19683.44119 21216.52292 20541.76529 19966.43509 21449.18369 21799.10659 23026.74812 21590.59635 19790.81026 1.132139587 0.994574802 1.072039125 1.037944633 1.00887406 1.083795126 1.101476206 1.163507093 1.090940495 1 14.27254306 -9.639116629 1.469740751 1.000054603 1.078807673 0 0.056451214 0.489091519 1.900949432 0.037387847 0.008512459 2.30E-10 9.639116629 0.07875307 STSAPQMSPGS(ph)SDNQSS(ph)SPQPAQQK ddPTM_HeLa_SAHA_4h_R1 1 STSAPQMSPGSSDNQSSSPQPAQQK 25 0 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 2 0 STSAPQMS(0.319)PGS(0.442)S(0.238)DNQS(0.066)S(0.612)S(0.322)PQPAQQK 136.44 2.32E-09 5952300 1133.3 807.71 785.25 686.26 913.92 1038.4 1209.2 800.68 926.63 911.5 TRUE FALSE FALSE 1252.505694 833.880334 892.2597806 699.5435546 843.895647 949.9224781 1073.137634 780.199765 920.1815064 950.7992258 1.317318799 0.877030935 0.938431329 0.735742663 0.887564508 0.999077884 1.128669023 0.820572571 0.967797913 1 9.892996918 -7.239815471 24.66281273 1.149844994 0.917336608 0.252318847 0.134268666 573.2076985 653763.6062 0.025361364 0.031044422 5.76E-08 7.239815471 -0.232508386 STSAPQMSPGS(ph)SDNQSSSPQPAQQK ddPTM_HeLa_SAHA_4h_R1 2 STSAPQMSPGSSDNQSSSPQPAQQK 25 0 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 STSAPQMS(0.104)PGS(0.858)S(0.038)DNQSSSPQPAQQK;STSAPQMS(0.215)PGS(0.392)S(0.392)DNQSSSPQPAQQK ; 173.36 1.76E-13 9466100 2709.2 2603.47 2068.34 2397.2 3152.4 3054.5 2760.82 2908.2 2604 2525.19 TRUE FALSE FALSE 2994.166086 2687.824136 2350.202604 2443.601272 2910.863793 2794.239416 2450.165268 2833.812455 2585.878552 2634.063299 1.136709998 1.02040985 0.892234672 0.927692692 1.105084982 1.060809517 0.930184658 1.075833089 0.981707066 1 11.3630743 -7.01089966 24.81024274 1.06529447 0.996330638 0.022724894 0.076536593 742.8379941 1690879.651 0.013461251 0.017051679 9.75E-08 7.01089966 -0.068963833 STSAPQMSPGSS(ph)DNQSSS(ph)PQPAQQK ddPTM_HeLa_SAHA_4h_R1 2 STSAPQMSPGSSDNQSSSPQPAQQK 25 0 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 2 0 STSAPQMS(0.127)PGS(0.341)S(0.53)DNQS(0.009)S(0.195)S(0.797)PQPAQQK;STSAPQMS(0.395)PGS(0.205)S(0.399)DNQSS(0.197)S(0.803)PQPAQQK ; 157.08 6.54E-10 20481300 4873.2 4080 4186.4 4274.3 4301.8 4640.2 4950.2 5032.6 4295.6 4016.9 TRUE FALSE FALSE 5385.785535 4212.194677 4756.90079 4357.035257 3972.197013 4244.828855 4393.190468 4903.873379 4265.70657 4190.088217 1.28536328 1.005275894 1.135274616 1.039843323 0.947998421 1.013064316 1.04847207 1.170350867 1.01804696 1 12.0327649 -6.582439086 1.789293551 1.130739481 1.039882491 0 0.098162989 0.639454222 4.132193436 0.020507554 0.031927691 2.62E-07 6.582439086 -0.09085699 STSAPQMSPGSS(ph)DNQSSSPQPAQQK ddPTM_HeLa_SAHA_4h_R1 1 STSAPQMSPGSSDNQSSSPQPAQQK 25 0 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 STSAPQMS(0.069)PGS(0.385)S(0.544)DNQS(0.001)SSPQPAQQK 86.557 4.47E-05 24406000 2511.8 2370 2496.3 2609.6 3243.3 2835.4 3055.6 2762.6 2940.7 2252.7 TRUE FALSE FALSE 2776.002649 2446.789555 2836.482764 2660.112582 2994.799055 2593.807968 2711.775846 2691.936692 2920.235429 2349.824921 1.181365736 1.04126462 1.207103873 1.13204714 1.274477527 1.103830309 1.154033146 1.145590324 1.242745961 1 11.19833755 -9.519188783 0.617564168 0.963357163 1.159795686 0 0.09589985 0.851442585 0.405432479 0.098689009 0.012073736 3.03E-10 9.519188783 0.196438523 STSAPQMSPGSSDNQSSS(ph)PQPAQQK ddPTM_HeLa_SAHA_4h_R1 3 STSAPQMSPGSSDNQSSSPQPAQQK 25 0 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 STSAPQMSPGSSDNQSS(0.204)S(0.795)PQPAQQK;STSAPQMSPGSSDNQS(0.003)S(0.068)S(0.928)PQPAQQK;STSAPQMSPGSSDNQS(0.008)S(0.441)S(0.552)PQPAQQK ;; 146.17 2.00E-09 9907600 4779.7 5197.7 4691.6 5132.4 5361.8 4964.1 5131.1 5886.4 4530.39 4624.36 TRUE FALSE FALSE 5282.450776 5366.10889 5330.946815 5231.745024 4950.980042 4541.130753 4553.735124 5735.834411 4498.862647 4823.738791 1.095094698 1.112437701 1.105148319 1.084582986 1.026378139 0.941413072 0.94402606 1.189084787 0.932650552 1 12.23593607 -5.549646382 12.56942589 1.058940085 1.011287169 0.021519716 0.082099536 2.054875362 961.8380447 0.010981805 0.022000198 2.82E-06 5.549646382 -0.047652916 STSFRGGMGSGGLAT(ph)GIAGGLAGMGGIQNEK ddPTM_HeLa_SAHA_4h_R1 1 STSFRGGMGSGGLATGIAGGLAGMGGIQNEK 31 1 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 S(0.187)T(0.187)S(0.171)FRGGMGS(0.206)GGLAT(0.249)GIAGGLAGMGGIQNEK 72.707 0.00012538 327300000 913.68 1000.3 862.93 1090.2 1372 1469.3 1338.1 1309.7 1250.2 676.89 TRUE FALSE FALSE 1009.785055 1032.710376 980.5256065 1111.302397 1266.877656 1344.107374 1187.533466 1276.19977 1241.499756 706.0740405 1.430140462 1.462609184 1.38870083 1.573917654 1.794256103 1.903635167 1.68188235 1.807458846 1.758313838 1 9.463675665 -7.887080538 0.13988921 0.493558456 2.226997753 0.023883453 0.252628942 1.450686772 0.144392071 0.941985656 0.69931642 1.30E-08 7.887080538 1.733439297 STSGPRPGCQPSS(ph)PCVPK ddPTM_HeLa_SAHA_4h_R1 1 STSGPRPGCQPSSPCVPK 18 1 O14545 O14545 TRAFD1 TRAF-type zinc finger domain-containing protein 1 1 0 STSGPRPGCQPS(0.027)S(0.973)PCVPK 94.176 0.0015713 15686000 3276.9 3022.9 3210.9 3794.6 4152.5 4524.2 3713.3 3658.8 3819.8 3264.7 TRUE FALSE FALSE 3621.579377 3120.843943 3648.46473 3868.04997 3834.336347 4138.712708 3295.469711 3565.213194 3793.217701 3405.457194 1.063463485 0.916424364 1.071358271 1.13583867 1.125938788 1.215317789 0.96770258 1.046911763 1.113864449 1 11.73363278 -6.532969943 24.99777835 1.020938058 1.099564254 0.178552537 0.075746523 248.1062494 614603.6992 0.011309134 0.016002894 2.93E-07 6.532969943 0.078626196 STSLSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 STSLSSPR 8 0 Q9NS56-2;Q9NS56 Q9NS56-2 TOPORS E3 ubiquitin-protein ligase Topors 1 0 STS(0.002)LS(0.09)S(0.908)PR;STS(0.002)LS(0.088)S(0.911)PR ; 96.034 0.013769 22263200 10990.2 11052.6 8988.2 13012.1 13315.2 14814.4 14599.4 14246.9 10939.1 11476.6 TRUE FALSE FALSE 12146.19966 11410.71149 10213.06509 13263.96801 12294.99225 13552.12978 12956.63709 13882.48493 10862.97391 11971.41239 1.014600388 0.953163346 0.853121148 1.107970186 1.027029381 1.13204101 1.082298117 1.159636346 0.907409548 1 13.54730575 -5.636810484 1.607721512 0.993662632 1.120045914 0.509074869 0.066101394 0.264043505 1.364351598 0.00919957 0.023953545 2.31E-06 5.636810484 0.126383282 STSPVT(ph)DPSIPIR ddPTM_HeLa_SAHA_4h_R1 1 STSPVTDPSIPIR 13 0 A0A087WU18;Q99607 A0A087WU18 ELF4 ETS-related transcription factor Elf-4 1 0 S(0.003)T(0.003)S(0.037)PVT(0.958)DPSIPIR 155.88 0.00016077 36236000 2408 2217.6 1904.5 2007.9 2325.3 2599.1 2042.7 2325.7 2967.8 2021.7 TRUE FALSE FALSE 2661.284488 2289.451695 2164.035342 2046.765808 2147.136016 2377.642058 1812.85002 2266.211962 2947.146838 2108.865381 1.261950863 1.085631978 1.026160969 0.970553088 1.0181475 1.127450846 0.859632879 1.074611961 1.397503541 1 11.04225129 -6.822706248 3.846389558 1.125650546 1.008567128 0.28019833 0.122901024 0.288070132 8.613625726 0.018487376 0.025029853 1.50E-07 6.822706248 -0.117083418 STSQGS(ph)INSPVYSR ddPTM_HeLa_SAHA_4h_R1 1 STSQGSINSPVYSR 14 0 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639;A0A494C1P1;A0A494C1G0;H0Y7N6;F6XFR5 J3QSX6 ABLIM1 Actin-binding LIM protein 1 1 0 STSQGS(0.704)INS(0.296)PVYSR 123.72 0.00076655 9729900 885.48 1070.3 732.06 935.74 1260.4 1139.8 873.23 1207.7 1091.6 985.9 TRUE FALSE FALSE 978.6188491 1104.978422 831.8213244 953.8526008 1163.828424 1042.682628 774.9718622 1176.808783 1084.003467 1028.406974 0.951587138 1.074456368 0.8088445 0.927504991 1.131680797 1.013881327 0.753565351 1.144302608 1.054060789 1 10.00619558 -9.568649131 1.27823071 1.00039622 0.968410533 0.014447654 0.121476499 2.982871604 8.553836108 0.084801364 0.01885504 2.70E-10 9.568649131 -0.031985687 STSQGSINS(ph)PVYSR ddPTM_HeLa_SAHA_4h_R1 3 STSQGSINSPVYSR 14 0 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639;A0A494C1P1;A0A494C1G0;H0Y7N6;F6XFR5 J3QSX6 ABLIM1 Actin-binding LIM protein 1 1 0 STSQGS(0.233)INS(0.761)PVYS(0.006)R;STS(0.003)QGS(0.427)INS(0.57)PVYSR;STSQGS(0.064)INS(0.936)PVYSR ;; 220.97 1.13E-17 81561000 3704.81 3470.02 3266.19 4272.18 4216.01 4136.2 4118.83 4304.07 4151.77 3610.05 TRUE FALSE FALSE 4094.498914 3582.450925 3711.289364 4354.874222 3892.980225 3783.77249 3655.368408 4193.978122 4122.877495 3765.696923 1.087315044 0.951338092 0.985551796 1.156459033 1.033800729 1.004800059 0.970701701 1.113732254 1.09485112 1 11.87870118 -9.782097303 1.765595181 0.999900939 1.043770752 0 0.068565988 0.925626617 5.216933967 0.046046478 0.009699025 1.65E-10 9.782097303 0.043869813 STST(ph)PTSPGPR ddPTM_HeLa_SAHA_4h_R1 3 STSTPTSPGPR 11 0 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6;H3BRB0;A0A0C4DGL7 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 STS(0.024)T(0.974)PT(0.001)SPGPR;STS(0.023)T(0.975)PT(0.001)SPGPR;STS(0.023)T(0.971)PT(0.005)SPGPR ;; 158.08 0.00041239 15663900 5654.6 6285.7 6496.5 6454.9 6246.1 7216.6 7463.2 6596.1 6346.8 6962 TRUE FALSE FALSE 6249.376772 6489.360804 7381.809188 6579.843923 5767.525167 6601.705081 6623.421094 6427.381313 6302.632102 7262.165891 0.860538972 0.893584765 1.016474878 0.906044288 0.794188022 0.909054568 0.912044863 0.885050192 0.867872229 1 12.82618417 -5.999925435 24.99999994 0.935564878 0.876396544 0.154906148 0.056428982 4.007884815 1342530.628 0.009712778 0.017483137 1.00E-06 5.999925435 -0.059168334 STSTLEIQPSRAS(ph)PTSDIESVER ddPTM_HeLa_SAHA_4h_R1 2 STSTLEIQPSRASPTSDIESVER 23 1 Q96JK2-2;Q96JK2-3;Q96JK2 Q96JK2-2 DCAF5 DDB1- and CUL4-associated factor 5 1 0 STSTLEIQPS(0.038)RAS(0.74)PT(0.161)S(0.06)DIES(0.001)VER;STSTLEIQPS(0.004)RAS(0.971)PT(0.018)S(0.007)DIES(0.001)VER ; 102.28 5.88E-05 10745900 1904.7 2475.1 1797.17 1829.03 2223.4 2235.94 2156.98 2171.64 1865.01 1734.47 TRUE FALSE FALSE 2105.045085 2555.294864 2042.078968 1864.43352 2053.043572 2045.425333 1914.270934 2116.092593 1852.031244 1809.25149 1.163489485 1.412349183 1.128687183 1.030499923 1.134747482 1.130536769 1.058045796 1.169595606 1.023645001 1 10.82117724 -9.104613523 1.071209933 1.006901482 1.150612411 0.251619337 0.096909284 0.547323369 1.200736369 0.052567795 0.018635046 7.86E-10 9.104613523 0.143710929 STSTPTS(ph)PGPR ddPTM_HeLa_SAHA_4h_R1 4 STSTPTSPGPR 11 0 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6;H3BRB0;A0A0C4DGL7 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 S(0.001)TS(0.001)T(0.005)PT(0.115)S(0.878)PGPR;STSTPTS(1)PGPR;STSTPTS(1)PGPR;STST(0.001)PT(0.096)S(0.903)PGPR ;;; 155.33 0.00032277 30076300 12992.4 15892.2 14168.2 11963.4 15960.4 14961.3 15502.4 12814.9 15188.4 13724.2 TRUE FALSE FALSE 14359.00024 16407.11771 16098.96851 12194.96891 14737.5176 13686.51307 13758.02915 12487.11341 15082.70269 14315.91743 1.003009435 1.146075185 1.124550249 0.851846832 1.029449749 0.956034647 0.961030211 0.872253803 1.053561727 1 13.80533251 -6.25656857 24.99803592 1.023002756 0.942131135 0.410432333 0.069663876 487.6197282 2502566.745 0.011012406 0.017898317 5.54E-07 6.25656857 -0.080871621 STSTPTSPGPR ddPTM_HeLa_SAHA_4h_R1 1 STSTPTSPGPR 11 0 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3;H3BUF6;H3BRB0;A0A0C4DGL7 Q8WWM7-6 ATXN2L Ataxin-2-like protein 0 0 132.01 0.00013412 0 765.15 845.97 701.2 475.88 719.87 683.07 624.99 636.56 591.87 648.7 FALSE FALSE TRUE 845.6319876 873.3799831 796.7558843 485.0913455 664.7137161 624.8685932 554.6644803 620.2777169 587.7511285 676.6686317 1.249698816 1.290705586 1.177468331 0.71688168 0.982332688 0.923448441 0.819698822 0.916663915 0.868595204 1 9.402305701 -6.279406343 24.83589305 1.140677417 0.877919807 0.46009875 0.131668354 462.7467231 639657.7325 0.019473722 0.02978514 5.26E-07 6.279406343 -0.26275761 STSYGYS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 STSYGYSR 8 0 Q13242 Q13242 SRSF9 Serine/arginine-rich splicing factor 9 1 0 STSYGYS(1)R;STSYGYS(1)R ; 115.23 0.004681 207310000 5238 6203.6 4741.4 5144.3 6205.1 7454.2 6383.2 5027.2 7844.1 5864.3 TRUE FALSE FALSE 5788.956873 6404.60071 5387.5333 5243.875365 5729.666579 6819.060224 5664.945536 4898.611503 7789.512269 6117.138672 0.94635044 1.046992892 0.880727672 0.857243173 0.936657952 1.114746712 0.926077671 0.800801121 1.27339148 1 12.57864127 -6.135559447 0.010503624 1.888311085 1.35E-07 0.148210766 0.121057718 4321.083722 16.69394698 1455.596626 1545.152727 7.32E-07 6.135559447 -1.88831095 STT(ph)ELDDYSTNK ddPTM_HeLa_SAHA_4h_R1 1 STTELDDYSTNK 12 0 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 S(0.092)T(0.181)T(0.727)ELDDYSTNK 226.42 3.24E-22 23530000 1400.6 1583.5 1330.8 1398.7 1246.3 1713 1297 1383.8 2115.6 1917.1 TRUE FALSE FALSE 1547.921534 1634.806439 1512.154493 1425.773861 1150.808763 1567.042763 1151.058146 1348.4044 2100.877367 1999.755563 0.774055371 0.817503133 0.756169665 0.712974069 0.575474715 0.783617154 0.575599422 0.67428461 1.050567082 1 10.96560795 -12.0993053 0.111747528 1.760327336 0.492598764 0.819654832 0.063313206 20.29628104 0.233821029 3.93164785 0.394119165 7.96E-13 12.0993053 -1.267728572 STT(ph)PPPAEPVSLPQEPPK ddPTM_HeLa_SAHA_4h_R1 4 STTPPPAEPVSLPQEPPK 18 0 Q9UN86-2;Q9UN86 Q9UN86-2 G3BP2 Ras GTPase-activating protein-binding protein 2 1 0 S(0.001)T(0.001)T(0.999)PPPAEPVSLPQEPPK;S(0.029)T(0.029)T(0.942)PPPAEPVSLPQEPPK;S(0.066)T(0.066)T(0.867)PPPAEPVSLPQEPPK;S(0.019)T(0.019)T(0.962)PPPAEPVSLPQEPPK ;;; 196.45 2.31E-13 76976000 14847.9 19585.9 13194.8 17267.1 19024.2 23471.4 17761.5 16375.8 24696.6 18013.3 TRUE FALSE FALSE 16409.67025 20220.49601 14992.91863 17601.32969 17566.56991 21471.50467 15762.92927 15956.93075 24524.73435 18789.94152 0.87332205 1.076134058 0.797922581 0.936742122 0.934892208 1.142712693 0.838902519 0.84922727 1.305205465 1 14.19767296 -9.659939756 1.503410099 1.000013919 0.926164126 0.129639704 0.140598046 0.960027101 3.902681353 0.070239284 0.015776575 2.19E-10 9.659939756 -0.073849793 STT(ph)PTSSPFR ddPTM_HeLa_SAHA_4h_R1 4 STTPTSSPFR 10 0 E7EPN9;Q9Y520-2;Q9Y520-6;Q9Y520-4;Q9Y520-5;Q9Y520;Q9Y520-7;A0A2R8Y7F4;A0A2R8YET2;H7C5N8;A0A2R8Y424 E7EPN9 PRRC2C Protein PRRC2C 1 0 STT(0.968)PT(0.023)S(0.009)SPFR;S(0.062)T(0.072)T(0.76)PT(0.032)S(0.072)S(0.003)PFR;S(0.199)T(0.07)T(0.687)PT(0.027)S(0.015)S(0.003)PFR;S(0.298)T(0.016)T(0.682)PT(0.003)S(0.001)SPFR ;;; 150.15 0.0011077 426060000 16085.9 15145.8 17628.3 18598.3 17896.5 13267.9 19184.8 14070.8 10893.7 12763.4 TRUE FALSE FALSE 17777.88877 15636.53386 20030.59292 18958.29699 16525.27404 12137.40028 17026.07581 13710.88931 10817.88985 13313.69264 1.335308637 1.174470095 1.504510692 1.423969856 1.24122394 0.911647926 1.278839483 1.029833697 0.812538651 1 13.70062315 -2.831183373 13.9738963 1.191617147 0.573604839 0 0.216304016 0 0 0.026652724 0 0.001475084 2.831183373 -0.618012308 STT(ph)SVSEEDVSSR ddPTM_HeLa_SAHA_4h_R1 1 STTSVSEEDVSSR 13 0 Q96IZ0 Q96IZ0 PAWR PRKC apoptosis WT1 regulator protein 1 0 ST(0.001)T(0.629)S(0.253)VS(0.118)EEDVSSR 135.04 0.00098817 35962000 607.17 925.59 732.27 604.23 711.71 1017.8 739.75 573.89 641.24 824.94 TRUE FALSE FALSE 671.0349264 955.5797233 832.0599421 615.9257454 657.1789336 931.077714 656.5113831 559.2107248 636.7775586 860.5072006 0.779813261 1.110484285 0.966941289 0.715770589 0.763711138 1.082010369 0.762935374 0.649861761 0.740002592 1 9.749043454 -6.275555154 24.84776734 0.91771363 0.807306917 0.153623278 0.144724552 1255.955207 2210834.526 0.022795215 0.034924188 5.30E-07 6.275555154 -0.110406713 STTQELMEDDR ddPTM_HeLa_SAHA_4h_R1 1 STTQELMEDDR 11 0 A0A075B730;P58107 A0A075B730;P58107 EPPK1 Epiplakin 0 0 123.75 0.00032527 0 644.07 548.76 586.44 567.34 877.77 741.11 682.93 702.36 607.32 596.08 FALSE FALSE TRUE 711.8162377 566.5401841 666.3569892 578.3216861 810.5154522 677.9632586 606.084919 684.3946482 603.0936107 621.7799259 1.144804147 0.911158692 1.07169267 0.930106718 1.30354072 1.090358872 0.974757939 1.100702386 0.969947059 1 9.28026023 STTS(ph)VSEEDVSSR ddPTM_HeLa_SAHA_4h_R1 1 STTSVSEEDVSSR 13 0 Q96IZ0 Q96IZ0 PAWR PRKC apoptosis WT1 regulator protein 1 0 ST(0.001)T(0.266)S(0.659)VS(0.073)EEDVSSR 113.54 0.0019372 28517000 501.32 536.06 552.75 527.17 644.87 803.68 699.03 390.43 595.54 835.8 TRUE FALSE FALSE 554.0511377 553.4286957 628.0758914 537.3741377 595.4601999 735.2019426 620.3733047 380.4433659 591.3955887 871.8354283 0.635499682 0.634785738 0.720406479 0.616371072 0.682996103 0.843280645 0.71157157 0.436370619 0.678333972 1 9.767912021 -9.236450485 0.792893119 1.018384212 0.665896018 0.028604658 0.138188057 0.380063581 0.39505995 0.085158717 0.019346556 5.80E-10 9.236450485 -0.352488195 STVNEK(ac)PK ddPTM_HeLa_SAHA_4h_R1 2 STVNEKPK 8 1 A0A590UJS4;Q6KC79-2;Q6KC79-3;Q6KC79 A0A590UJS4;Q6KC79 NIPBL Nipped-B-like protein 0 1 ; STVNEK(1)PK;STVNEK(1)PK 146.79 4.62E-05 17066100 7139.1 6658.8 6239.9 7892.8 8933.3 8863.5 9648 8605.9 4743 6312.9 FALSE TRUE FALSE 7890.023293 6874.549489 7090.241076 8045.576557 8248.832484 8108.279935 8562.381648 8385.773539 4709.993077 6585.080014 1.198166655 1.043958384 1.076712973 1.221788732 1.25265486 1.231310769 1.300269948 1.273450516 0.715252217 1 12.68498526 -1 0.02550075 1.05E-12 2.813757557 0.559023852 0.112516565 775.5246681 1.535943532 58.16283282 122.5994201 0.1 1 2.813757557 STVS(ph)ETFMSKPSIAK ddPTM_HeLa_SAHA_4h_R1 1 STVSETFMSKPSIAK 15 1 B7ZM87;O75044;E9PDX4;A0A087WW56;Q5VZB4;A0A286YEY3;A0A075B7B5;P0DMP2;A0A087X0L1;P0DJJ0 B7ZM87 SRGAP2;SRGAP2B;SRGAP2C SLIT-ROBO Rho GTPase-activating protein 2;SLIT-ROBO Rho GTPase-activating protein 2B;SLIT-ROBO Rho GTPase-activating protein 2C 1 0 S(0.02)T(0.055)VS(0.869)ET(0.055)FMSKPSIAK 64.327 0.021042 3875400 1258.3 1126.8 1195.4 1296.1 1443.8 1519.3 1476.8 1805.6 1412.9 1494.5 TRUE FALSE FALSE 1390.653767 1163.309059 1358.302887 1321.18789 1333.176356 1389.847093 1310.626577 1759.415366 1403.067514 1558.935209 0.892053601 0.746220274 0.871301693 0.847493778 0.855183941 0.891536149 0.840719082 1.128600699 0.900016566 1 10.60634525 -8.765592841 0.987215343 0.991037425 0.878165102 0.03360043 0.095852897 0.580914987 1.127140455 0.037203633 0.017270335 1.72E-09 8.765592841 -0.112872323 STVTGERQS(ph)GDGQESTEPVENK ddPTM_HeLa_SAHA_4h_R1 2 STVTGERQSGDGQESTEPVENK 22 1 O15234;J3KSY7 O15234 CASC3 Protein CASC3 1 0 STVT(0.004)GERQS(0.995)GDGQESTEPVENK;STVT(0.001)GERQS(0.998)GDGQES(0.001)TEPVENK ; 98.267 0.00012807 148078000 3250.8 3138.08 2577.44 3265.16 3285.6 4074.7 3716 3648.7 3797.6 3145.99 TRUE FALSE FALSE 3592.734059 3239.755851 2928.6801 3328.361893 3033.858038 3727.512636 3297.8659 3555.371537 3771.172192 3281.629025 1.094802012 0.987240126 0.892447037 1.014240753 0.924497563 1.135872644 1.004947809 1.083416654 1.149176876 1 11.68019644 -3.206405159 1.025410941 1.024091472 1.431812443 0.048125049 0.079323193 39.12266007 6.103609808 0.011327758 29.01632769 0.00062172 3.206405159 0.407720971 STVTGERQS(ph)GDGQESTEPVENKVGK ddPTM_HeLa_SAHA_4h_R1 4 STVTGERQSGDGQESTEPVENKVGK 25 2 O15234;J3KSY7 O15234 CASC3 Protein CASC3 1 0 S(0.036)T(0.036)VT(0.098)GERQS(0.447)GDGQES(0.11)T(0.273)EPVENKVGK;S(0.013)T(0.013)VT(0.201)GERQS(0.738)GDGQES(0.018)T(0.018)EPVENKVGK;S(0.006)T(0.006)VT(0.005)GERQS(0.515)GDGQES(0.195)T(0.273)EPVENKVGK;S(0.003)T(0.003)VT(0.022)GERQS(0.971)GDGQES(0.001)T(0.001)EPVENKVGK ;;; 70.501 0.00039832 49830500 9689.3 5123.35 9691.9 6994 7210.97 7197.2 9188.8 10730.7 3550.97 7347.7 TRUE FALSE FALSE 10708.46503 5289.349902 11012.66166 7129.378983 6658.467036 6583.95807 8154.85204 10456.22423 3526.258511 7664.495306 1.397152011 0.690110658 1.436841073 0.930182445 0.868741746 0.859020432 1.063977694 1.364241716 0.460077066 1 12.90397508 -7.303279718 24.99962822 1.187543954 1.030695987 0 0.326716058 984.4105414 588183.7155 0.042397756 0.048483926 4.97E-08 7.303279718 -0.156847967 STVTGERQSGDGQES(ph)TEPVENKVGK ddPTM_HeLa_SAHA_4h_R1 1 STVTGERQSGDGQESTEPVENKVGK 25 2 O15234;J3KSY7 O15234 CASC3 Protein CASC3 1 0 STVT(0.001)GERQS(0.338)GDGQES(0.504)T(0.157)EPVENKVGK 83.436 7.00E-05 12676000 1052.8 609.66 915.14 698 770.04 737.71 772.99 1094.5 402.36 640.55 TRUE FALSE FALSE 1163.538334 629.413384 1039.850513 711.5107993 711.0397016 674.8529578 686.0111308 1066.504275 399.559944 668.1672453 1.741387868 0.941999759 1.556272806 1.064869319 1.064164259 1.010006046 1.026705717 1.596163659 0.597993911 1 9.384065451 -6.227390248 24.84032312 1.335950031 1.132589048 0 0.357206902 1237.417222 902749.6573 0.049836412 0.082641119 5.92E-07 6.227390248 -0.203360982 STVTLSWKPVQK ddPTM_HeLa_SAHA_4h_R1 2 STVTLSWKPVQK 12 1 H0YER7;G3V1C3;Q9BZZ5-1;Q9BZZ5-5;Q9BZZ5-2;Q9BZZ5-6;Q9BZZ5 H0YER7 API5 Apoptosis inhibitor 5 0 0 ; ; 134.98 0.00021178 3789500 1417.98 1589.85 1026.5 1242.38 1470.03 1775.71 1209.64 1520.98 1926.73 1535.01 FALSE FALSE TRUE 1567.129642 1641.362183 1166.386074 1266.428061 1357.396619 1624.409518 1073.528124 1482.075534 1913.321729 1601.191793 0.978727001 1.025087807 0.728448696 0.790928399 0.847741429 1.014500277 0.670455674 0.925607751 1.194936008 1 10.64493041 -6.777094499 24.99999208 0.992308748 0.82984874 0.455584429 0.110979716 158.1489977 252550.8823 0.01365651 0.017982401 1.67E-07 6.777094499 -0.162460008 SVAAEGALLPQTPPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 SVAAEGALLPQTPPSPR 17 0 Q86X27-3;Q86X27;H7C2H2 Q86X27-3 RALGPS2 Ras-specific guanine nucleotide-releasing factor RalGPS2 1 0 SVAAEGALLPQT(0.003)PPS(0.997)PR;SVAAEGALLPQT(0.03)PPS(0.97)PR ; 176.46 4.74E-09 54351000 2472.1 1913.91 1898.21 1967.15 2489.3 2235.1 2411.7 2183.1 2400.1 1776 TRUE FALSE FALSE 2732.12682 1975.92194 2156.888173 2005.227033 2298.570372 2044.656906 2140.329169 2127.259463 2383.397509 1852.572052 1.474774932 1.066583045 1.164266821 1.082401643 1.240745465 1.103685497 1.155328435 1.148273538 1.286534311 1 10.85531394 SVAGGFVYTYK ddPTM_HeLa_SAHA_4h_R1 1 SVAGGFVYTYK 11 0 Q15393;Q15393-3 Q15393 SF3B3 Splicing factor 3B subunit 3 0 0 150.1 3.82E-05 770680 105.5 0 184.09 198.18 0 156.75 267.66 133.42 117.99 134.26 FALSE FALSE TRUE 116.5969741 0 209.1768265 202.0160605 0 143.3940181 237.5421924 130.0073096 117.168898 140.0486057 0.832546483 0 1.493601636 1.442471059 0 1.02388751 1.696141074 0.928301349 0.836630236 1 7.12978381 AAASK(ac)LEQGK ddPTM_HeLa_SAHA_4h_R1 2 AAASKLEQGK 10 1 P35269;M0QXD6 P35269 GTF2F1 General transcription factor IIF subunit 1 0 1 ; AAASK(1)LEQGK;AAASK(1)LEQGK 140.07 8.32E-05 3469800 1667.09 1836.35 1766.91 2102.6 2525 3068.5 3480.9 2692.6 1977.43 1240.75 FALSE TRUE FALSE 1842.442175 1895.848945 2007.695293 2143.298863 2331.535045 2807.046537 3089.219971 2623.727191 1963.668904 1294.244805 1.42356544 1.464830253 1.551248486 1.656022768 1.801463709 2.168868306 2.386889992 2.027226365 1.517231436 1 10.33789481 -5.127241924 0.225397009 0.929185387 3.049955833 0.739276688 0.196980147 1.582305863 0.099492736 0.147644007 0.95207669 7.46E-06 5.127241924 2.120770447 up SVAVS(ph)DEEEVEEEAER ddPTM_HeLa_SAHA_4h_R1 3 SVAVSDEEEVEEEAER 16 0 Q9Y6X9-2;Q9Y6X9 Q9Y6X9-2 MORC2 MORC family CW-type zinc finger protein 2 1 0 SVAVS(1)DEEEVEEEAER;SVAVS(1)DEEEVEEEAER;S(0.006)VAVS(0.994)DEEEVEEEAER ;; 238.64 4.13E-36 47649400 2790.71 2607.53 2146.78 2139.72 2570.87 2919.43 2805.68 2612.09 2958.43 2854.46 TRUE FALSE FALSE 3084.249682 2692.015683 2439.331998 2181.137375 2373.890496 2670.67814 2489.977502 2545.27652 2937.842045 2977.52974 1.035841772 0.904110426 0.819246896 0.732532524 0.797268442 0.896944237 0.836256132 0.854828244 0.986670932 1 11.5399002 -7.040517711 3.053358194 1.016806942 0.822107421 0.795752139 0.041754085 0.079117365 1.48148636 0.007549407 0.009639954 9.11E-08 7.040517711 -0.194699521 SVCPGGS(ph)SPGSSSGGGR ddPTM_HeLa_SAHA_4h_R1 3 SVCPGGSSPGSSSGGGR 17 0 Q53LP3 Q53LP3 SOWAHC Ankyrin repeat domain-containing protein SOWAHC 1 0 SVCPGGS(0.498)S(0.498)PGS(0.002)S(0.002)SGGGR;S(0.131)VCPGGS(0.433)S(0.433)PGS(0.002)SSGGGR;SVCPGGS(0.486)S(0.486)PGS(0.012)S(0.005)S(0.01)GGGR ;; 205.66 1.09E-15 38286100 4008.69 4165.77 3649.44 4173.96 4790.63 4373.91 4332.07 3972.02 4349.61 3716.13 TRUE FALSE FALSE 4430.342407 4300.743681 4146.766678 4254.753031 4423.572964 4001.228261 3844.614082 3870.42148 4319.34071 3876.350551 1.14291583 1.10948265 1.069760493 1.09761823 1.141169486 1.032215278 0.991812797 0.99847045 1.114280211 1 11.92048333 -5.016500851 8.18736366 1.079218378 0.999083634 0.478642078 0.040986273 0.185795275 76.23782349 0.008186155 0.022223886 9.63E-06 5.016500851 -0.080134744 SVCPGGSS(ph)PGSSSGGGR ddPTM_HeLa_SAHA_4h_R1 1 SVCPGGSSPGSSSGGGR 17 0 Q53LP3 Q53LP3 SOWAHC Ankyrin repeat domain-containing protein SOWAHC 1 0 SVCPGGS(0.207)S(0.793)PGSSSGGGR 219.53 5.36E-21 1216700 469.85 307.03 469.8 526.56 344.64 488.19 436.82 405.35 598.83 433.69 TRUE FALSE FALSE 519.2709787 316.9779734 533.8218974 536.7523302 318.2337577 446.5934655 387.667864 394.9817339 594.6626933 452.3884983 1.147843017 0.700676464 1.180007669 1.18648536 0.703452362 0.987190141 0.856935721 0.873102953 1.314495606 1 8.82141844 -5.76726062 24.99913426 1.057153471 0.864726386 0.309022235 0.166658184 136.5470048 586399.5722 0.02127424 0.039320923 1.71E-06 5.76726062 -0.192427085 SVDEALR ddPTM_HeLa_SAHA_4h_R1 1 SVDEALR 7 0 P32119 P32119 PRDX2 Peroxiredoxin-2 0 0 138.24 0.0039789 14352000 2452.4 2597.3 2322.4 2623.7 2530.1 2722.1 2941 2320.2 2542.5 2100.7 FALSE FALSE TRUE 2710.354684 2681.454224 2638.884577 2674.485507 2336.244285 2490.161766 2610.07094 2260.852644 2524.806535 2191.271458 1.236886774 1.223697874 1.204270958 1.220517658 1.066159228 1.136400402 1.19112168 1.031753796 1.152210753 1 11.0975525 -9.441567792 1.187926379 1.000518952 1.172413284 0.039069269 0.079730594 0.332530565 0.84328088 0.046323029 0.011706004 3.62E-10 9.441567792 0.171894332 SVDETLR ddPTM_HeLa_SAHA_4h_R1 4 SVDETLR 7 0 Q06830;A0A0A0MSI0;A0A0A0MRQ5;Q13162;H7C3T4 Q06830;Q13162 PRDX1;PRDX4 Peroxiredoxin-1;Peroxiredoxin-4 0 0 ;;; ;;; 139.31 0.00041329 238740600 21225.7 22089.2 19402.3 21650.6 21696.7 24808.8 24751.9 22528 21369.3 20717.6 FALSE FALSE TRUE 23458.31651 22804.90457 22046.3444 22069.67867 20034.30353 22694.95067 21966.75107 21951.76638 21220.5893 21610.83713 1.085488562 1.055253179 1.020152263 1.021232012 0.927048935 1.050165273 1.016469234 1.015775847 0.981942031 1 14.39946734 -6.447008516 2.891628561 1.042457476 1.004827385 0.043388414 0.040197841 0.412998381 6.763440005 0.00680364 0.010603148 3.57E-07 6.447008516 -0.03763009 SVDISLGDS(ph)PRR ddPTM_HeLa_SAHA_4h_R1 1 SVDISLGDSPRR 12 1 A0A1B0GTN9;E9PKC0;Q6IQ23;Q6IQ23-2;H0YDE2;Q6IQ23-3 A0A1B0GTN9 PLEKHA7 Pleckstrin homology domain-containing family A member 7 1 0 SVDISLGDS(1)PRR 65.528 0.021073 2544200 2206.2 2273.9 2789.5 5462.2 2072.9 2232.4 2949.6 3996.5 4439.3 2537.2 TRUE FALSE FALSE 2438.258238 2347.575852 3169.638533 5567.928779 1914.07485 2042.186961 2617.703245 3894.275317 4408.40655 2646.591109 0.921282562 0.887018718 1.197630613 2.103811488 0.723222731 0.771629193 0.989084878 1.471430666 1.665692345 1 11.3699196 -6.750370361 23.20672822 0.956103561 1.198099076 0 0.430990116 179.1073117 375503.5041 0.058723754 0.082515247 1.78E-07 6.750370361 0.241995515 SVDS(ph)LPR ddPTM_HeLa_SAHA_4h_R1 1 SVDSLPR 7 0 Q08AD1-2;Q08AD1-3;Q08AD1 Q08AD1-2 CAMSAP2 Calmodulin-regulated spectrin-associated protein 2 1 0 SVDS(1)LPR 90.709 0.01956 2933200 1665.6 1557 1728.7 1836.3 1763.9 2083.3 1525 1941.5 1648.7 1934.8 TRUE FALSE FALSE 1840.79545 1607.447822 1964.278233 1871.844242 1628.750363 1905.79112 1353.402986 1891.839241 1637.226562 2018.218697 0.912089187 0.796468601 0.973273232 0.927473442 0.807023721 0.94429366 0.67059283 0.937380693 0.811223563 1 10.9788668 -13.52287873 0.069403337 1.519125579 0.679038959 0 0.104341132 194.7148728 1.050478354 16.20391587 2.371218137 3.00E-14 13.52287873 -0.84008662 SVDVILDDDLVDK ddPTM_HeLa_SAHA_4h_R1 1 SVDVILDDDLVDK 13 0 P25205;P25205-2;J3KQ69;A0A499FHX9 P25205 MCM3 DNA replication licensing factor MCM3 0 0 159.99 0.00036775 1711800 767.52 423.02 663.78 923.03 725.11 926.28 647.27 665.46 845.82 844.38 FALSE FALSE TRUE 848.2512751 436.7261256 754.2364816 940.8965804 669.5522285 847.3557329 574.4374761 648.4384968 839.9338698 880.7853541 0.963062421 0.495837179 0.856322688 1.068247305 0.760176387 0.962045666 0.652187816 0.736204904 0.953619251 1 9.782646669 -2.176799109 0.061362399 1.327633441 9.95E-15 0.124560721 0.159760884 267.121578 1.545882234 7.976193595 33.69561029 0.00665581 2.176799109 -1.327633441 SVEAAAELSAK ddPTM_HeLa_SAHA_4h_R1 4 SVEAAAELSAK 11 0 P20962;F5H7R9;F5GXR3 P20962 PTMS Parathymosin 0 0 ;;; ;;; 211.78 1.19E-32 24719100 10205.7 10225.4 10350.8 10697.8 10619.4 13203.3 11449.3 10663.8 11346.9 10532.7 FALSE FALSE TRUE 11279.18235 10556.70967 11761.35312 10904.87139 9805.743866 12078.30456 10160.99463 10391.03544 11267.936 10986.81624 1.026610631 0.960852483 1.070496936 0.992541529 0.892500944 1.099345278 0.924835221 0.945773116 1.025587008 1 13.42348576 -5.997202942 24.99588919 1.012976753 0.96853667 0.151756271 0.056443891 137.6150124 1229768.878 0.007670082 0.013839507 1.01E-06 5.997202942 -0.044440082 SVEAAAELSAK(ac)DLK ddPTM_HeLa_SAHA_4h_R1 2 SVEAAAELSAKDLK 14 1 P20962;F5H7R9;F5GXR3 P20962 PTMS Parathymosin 0 1 ; SVEAAAELSAK(1)DLK;SVEAAAELSAK(1)DLK 257.19 1.22E-69 23932100 3347 3668.2 4075.3 4185.4 4075 4244.1 4043.1 4462.9 4041.8 3911.3 FALSE TRUE FALSE 3699.052817 3787.052087 4630.660661 4266.414469 3762.77438 3882.478803 3588.159747 4348.74548 4013.672785 4079.935284 0.906644973 0.928213764 1.134983851 1.045706408 0.922263251 0.951603036 0.879464868 1.065885897 0.983758934 1 11.99433055 -4.211635932 21.56732769 0.964818097 1.065888633 0.125214835 0.071477649 11478.49795 4969989.406 0.010499839 8.242985666 6.14E-05 4.211635932 0.101070536 SVEDEMDS(ph)PGEEPFYTGQGR ddPTM_HeLa_SAHA_4h_R1 10 SVEDEMDSPGEEPFYTGQGR 20 0 A0A590UJA3;S4R3W2;A0A590UJU2;A0A590UK38;A0A590UK73;B1AKN7;B1AKN5;A0A590UK09;B1AKN8;Q12857-2;Q12857-3;Q12857;Q12857-4 A0A590UJA3 NFIA Nuclear factor 1;Nuclear factor 1 A-type 1 0 S(0.001)VEDEMDS(0.997)PGEEPFY(0.002)TGQGR;SVEDEMDS(1)PGEEPFYTGQGR;SVEDEMDS(1)PGEEPFYTGQGR;SVEDEMDS(0.948)PGEEPFY(0.007)T(0.045)GQGR;SVEDEMDS(1)PGEEPFYTGQGR;SVEDEMDS(0.997)PGEEPFYT(0.003)GQGR;SVEDEMDS(1)PGEEPFYTGQGR;SVEDEMDS(1)PGEEPFYTGQGR;SVEDEMDS(1)PGEEPFYTGQGR;SVEDEMDS(1)PGEEPFYTGQGR ;;;;;;;;; 333.03 1.71E-143 112318600 9372.25 9988.91 7788.2 9021.49 10067.86 11457.45 9997.39 8907.44 11413.78 9272.6 TRUE FALSE FALSE 10358.06626 10312.55724 8849.535337 9196.113984 9296.462742 10481.2108 8872.457366 8679.600583 11334.35058 9672.387165 1.070890369 1.066185323 0.914927741 0.9507595 0.961134266 1.083621925 0.917297583 0.89735868 1.171825567 1 13.23965628 -6.767856871 24.99790719 1.036864566 0.958550561 0.399492396 0.066820932 139.4609769 543238.9931 0.008996327 0.011982959 1.71E-07 6.767856871 -0.078314005 SVEEEEQVWR ddPTM_HeLa_SAHA_4h_R1 2 SVEEEEQVWR 10 0 A0A087WVV2;Q9P2E9-3;Q9P2E9;A0A087WU26;F8W7S5 A0A087WVV2 RRBP1 Ribosome-binding protein 1 0 0 ; ; 132.88 0.0087724 8004000 1678.98 1577.81 1265.29 1188.33 1304.05 2582.36 1946.05 3446.29 1949.65 1704.07 FALSE FALSE TRUE 1855.58282 1628.932079 1437.717132 1211.331846 1204.133971 2362.3284 1727.075332 3358.138892 1936.082227 1777.540797 1.04390449 0.916396452 0.808823704 0.681465003 0.677415659 1.328986881 0.971609391 1.889204961 1.089191444 1 10.79566696 SVEST(ph)SPEPSK ddPTM_HeLa_SAHA_4h_R1 4 SVESTSPEPSK 11 0 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;P18583-8 P18583-10 SON Protein SON 1 0 SVES(0.001)T(0.5)S(0.5)PEPSK;SVES(0.001)T(0.499)S(0.499)PEPSK;SVES(0.043)T(0.478)S(0.478)PEPS(0.001)K;SVES(0.04)T(0.48)S(0.48)PEPSK ;;; 182.71 2.10E-05 302893000 20143.5 22553.1 19411.1 20899.3 23464.4 26043.3 24783.3 22732.7 23608.7 21614.1 TRUE FALSE FALSE 22262.28575 23283.83524 22056.34362 21303.83617 21666.56274 23824.26432 21994.61786 22151.23045 23444.40513 22545.98963 0.987416659 1.032726246 0.978282346 0.944905791 0.960994088 1.056696322 0.975544574 0.982490936 1.039848129 1 14.46058322 SVESTS(ph)PEPSK ddPTM_HeLa_SAHA_4h_R1 1 SVESTSPEPSK 11 0 P18583-10;P18583-3;P18583-4;P18583-7;P18583;P18583-5;P18583-9;P18583-6;P18583-2;P18583-8 P18583-10 SON Protein SON 1 0 SVES(0.021)T(0.224)S(0.754)PEPSK 108.35 0.0045712 28534000 2539.8 2400.2 2141.4 2581.9 2690.9 3226 3070.9 2527.5 2485.8 2725.4 TRUE FALSE FALSE 2806.947817 2477.968055 2433.21884 2631.876408 2484.723823 2951.126651 2725.35425 2462.85021 2468.501115 2842.905332 0.987351842 0.87163228 0.855891617 0.925769979 0.87400864 1.038067155 0.958651074 0.866314535 0.868302257 1 11.47315034 -7.370021324 7.047488527 0.994393223 0.916380373 0 0.065264474 0.227385009 13.08196221 0.00909239 0.010367085 4.27E-08 7.370021324 -0.07801285 SVFALTNGIYPHK ddPTM_HeLa_SAHA_4h_R1 1 SVFALTNGIYPHK 13 0 Q02878 Q02878 RPL6 60S ribosomal protein L6 0 0 137.4 0.00011673 4187000 1730.2 2465.8 1412.2 1689.9 2419.6 2677.6 2836.6 1609 1906.9 2283 FALSE FALSE TRUE 1912.190374 2545.693538 1604.647262 1722.610458 2234.210771 2449.453416 2517.418302 1567.84411 1893.629728 2381.431303 0.802958444 1.068976264 0.673816314 0.723350892 0.938179812 1.028563542 1.057103054 0.658362098 0.795164541 1 11.21761322 -4.233920651 22.40528778 0.905935132 0.658360671 0.218276978 0.135812479 2586.463573 2105716.365 0.019197861 1.804532548 5.84E-05 4.233920651 -0.247574461 SVGDDEELQQNESGTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 SVGDDEELQQNESGTSPK 18 0 F5H212;P15822 F5H212 HIVEP1 Zinc finger protein 40 1 0 SVGDDEELQQNES(0.284)GT(0.284)S(0.433)PK 216.17 1.01E-21 4970500 858.64 712.8 684 711.96 889.67 960.93 779.52 913.85 937.41 813.46 TRUE FALSE FALSE 948.9556948 735.8951877 777.2119579 725.7410153 821.5036768 879.053358 691.806358 890.4750402 930.8864875 848.5322416 1.118349602 0.867256601 0.915948646 0.855289852 0.968146685 1.035969307 0.815297668 1.049429823 1.09705494 1 9.728825668 -7.260815004 24.99999572 1.055887312 0.927410304 0.41562327 0.076533277 44.28126432 1773031.022 0.013117752 0.015551683 5.49E-08 7.260815004 -0.128477008 SVGDES(ph)WEQTQEGDVGALYHEQLALK ddPTM_HeLa_SAHA_4h_R1 1 SVGDESWEQTQEGDVGALYHEQLALK 26 0 O75691 O75691 UTP20 Small subunit processome component 20 homolog 1 0 S(0.006)VGDES(0.985)WEQT(0.009)QEGDVGALYHEQLALK 130.41 2.22E-09 3670300 609.52 474.86 477.81 482.53 711.76 435.86 576.32 422.15 496.22 540.19 TRUE FALSE FALSE 673.6321102 490.2457756 542.9234585 491.8700659 657.2251026 398.7222759 511.4709568 411.3520143 492.7667646 563.4802345 1.195484897 0.870031894 0.963518195 0.872914498 1.166367624 0.707606499 0.907699908 0.730020308 0.874505856 1 9.138221195 -5.100415485 0.497363121 1.080742327 0.684958922 0.128021768 0.142306573 1.716243518 0.473280675 0.031353061 0.341944815 7.94E-06 5.100415485 -0.395783405 SVGDESWEQT(ph)QEGDVGALYHEQLALK ddPTM_HeLa_SAHA_4h_R1 1 SVGDESWEQTQEGDVGALYHEQLALK 26 0 O75691 O75691 UTP20 Small subunit processome component 20 homolog 1 0 S(0.001)VGDES(0.365)WEQT(0.634)QEGDVGALYHEQLALK 190.15 4.03E-18 4312500 516.46 532.79 414.82 563.68 795.82 743.72 752.37 931.57 540.23 656.26 TRUE FALSE FALSE 570.7836324 550.0527456 471.3495093 574.5908415 734.8444435 680.3508719 667.7113475 907.7417883 536.4704954 684.5545803 0.833802956 0.803519195 0.688549201 0.839364542 1.073463628 0.993859207 0.97539534 1.326032744 0.783678192 1 9.419021763 -1.000000001 0.817253204 0.895098552 119.5948953 0.617238665 0.107444438 323.6735963 0.985135824 0.018991235 71286.70652 0.1 1.000000001 118.6997967 SVGGDS(ph)DTEDMR ddPTM_HeLa_SAHA_4h_R1 2 SVGGDSDTEDMR 12 0 Q9UK61-3;Q9UK61;Q9UK61-2;A0A087X0F1;Q9UK61-4 Q9UK61-3 FAM208A Protein FAM208A 1 0 SVGGDS(0.977)DT(0.023)EDMR;SVGGDS(0.796)DT(0.204)EDMR ; 217.46 1.10E-15 48680000 3779.7 4124.3 3532 3216.4 4048.9 4626.7 3405 3716.7 3851.5 3621.5 TRUE FALSE FALSE 4177.266188 4257.930026 4013.322566 3278.658073 3738.674157 4232.479131 3021.860439 3621.632196 3824.697098 3777.640588 1.105787089 1.127140057 1.062388672 0.867911596 0.989684982 1.12040281 0.799933283 0.958702161 1.012456587 1 11.88326973 -6.295933595 23.92738955 1.059088513 0.951106973 0.309728496 0.085129689 378.5068585 262555.684 0.013533904 0.020674236 5.06E-07 6.295933595 -0.107981541 SVGGSGGGS(ph)FGDNLVTR ddPTM_HeLa_SAHA_4h_R1 4 SVGGSGGGSFGDNLVTR 17 0 P02545;P02545-3;P02545-5;P02545-4;A0A0C4DGC5 P02545 LMNA Prelamin-A/C;Lamin-A/C 1 0 SVGGSGGGS(1)FGDNLVTR;SVGGSGGGS(1)FGDNLVTR;S(0.311)VGGS(0.117)GGGS(0.572)FGDNLVTR;SVGGSGGGS(1)FGDNLVTR ;;; 225.17 1.26E-27 281686000 3392.35 3264.84 3248.66 3878.35 3833.03 3864.43 4035.31 4456.8 4333.15 3879.97 TRUE FALSE FALSE 3749.172938 3370.622958 3691.370467 3953.421072 3539.344069 3535.158823 3581.246298 4342.801509 4302.995256 4047.254495 0.926349688 0.832817151 0.912067791 0.976815537 0.874504945 0.87347085 0.884858193 1.073024075 1.063188703 1 11.98272785 -8.752288473 0.922200248 0.994778294 0.915213621 0.272179668 0.06717941 0.623338734 1.053493613 0.027656665 0.012364303 1.77E-09 8.752288473 -0.079564673 SVGGSGGGSFGDNLVTR ddPTM_HeLa_SAHA_4h_R1 2 SVGGSGGGSFGDNLVTR 17 0 P02545;P02545-3;P02545-5;P02545-4;A0A0C4DGC5 P02545 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 180.95 2.14E-17 3530300 402.134 410.42 561.33 691.99 806.91 738.03 910.76 1128.36 257.243 517.28 FALSE FALSE TRUE 444.4322992 423.7178773 637.8251291 705.3844671 745.0847301 675.145692 808.2788878 1099.498185 255.452825 539.5824723 0.823659629 0.785269906 1.182071624 1.307278318 1.380854213 1.251237256 1.497970986 2.037683286 0.47342684 1 9.075699675 -1 0.355750782 0.900735705 14.31570449 0.779368353 0.194374207 16.24722466 0.202488373 0.045540091 148.9212858 0.1 1 13.41496878 up SVGKVEPSSQSPGRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 SVGKVEPSSQSPGRSPR 17 2 X6RM00;G8JLD3;X6RLX0;Q8IUD2-5;Q8IUD2-4;Q8IUD2-2;Q8IUD2-3;Q8IUD2;K7EKH8;K7EIZ7 X6RM00 ERC1 ELKS/Rab6-interacting/CAST family member 1 1 0 S(0.001)VGKVEPS(0.001)S(0.002)QS(0.017)PGRS(0.979)PR;SVGKVEPS(0.001)S(0.001)QS(0.073)PGRS(0.926)PR;SVGKVEPSSQS(0.002)PGRS(0.998)PR ;; 101.2 0.001043 30399300 14842.4 9912.5 15751.6 13227.3 13303 12400.5 15102.2 15597.1 7481.7 12068.7 TRUE FALSE FALSE 16403.59173 10233.6715 17898.14602 13483.33352 12283.72701 11343.90764 13402.86071 15198.14877 7429.634241 12589.04072 1.303005693 0.812903201 1.421724372 1.071037406 0.975747659 0.901093887 1.064645115 1.207252332 0.590166829 1 13.61988073 -6.008768082 24.49866625 1.140514129 1.02867129 0 0.242425289 689.9433574 1927764.521 0.026599944 0.046492951 9.80E-07 6.008768082 -0.111842839 SVGNTIDPVILFQK ddPTM_HeLa_SAHA_4h_R1 2 SVGNTIDPVILFQK 14 0 P46821;D6RA40;D6RA32 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 0 0 ; ; 195.88 3.93E-23 500840 0 223.926 65.297 72.898 173.72 163.69 170.87 73.897 137.74 87.879 FALSE FALSE TRUE 0 231.1813493 74.19533511 74.3090462 160.4096111 149.7426911 151.6432579 72.00682174 136.7814561 91.66789376 0 2.521944596 0.809392821 0.810633289 1.749899606 1.633534763 1.654267941 0.785518449 1.492141365 1 6.51834462 -7.289602465 24.99936359 0.527777801 1.405896536 0.103181942 0.632769679 629.0683862 558399.8439 0.1026249 0.11736792 5.13E-08 7.289602465 0.878118735 SVICDIS(ph)PLR ddPTM_HeLa_SAHA_4h_R1 2 SVICDISPLR 10 0 Q9UGU0-2;Q9UGU0 Q9UGU0-2 TCF20 Transcription factor 20 1 0 S(0.001)VICDIS(0.999)PLR;SVICDIS(1)PLR ; 129 0.0017867 22800000 4349.7 4754.8 3833.8 4438.3 4298.4 4629.7 4668.1 4249 5543.3 4930.1 TRUE FALSE FALSE 4807.221403 4908.85864 4356.250298 4524.209714 3969.057521 4235.223514 4142.833102 4140.316732 5504.723724 5142.660738 0.934773194 0.954536745 0.847081019 0.879741042 0.771790659 0.823547134 0.805581646 0.805092333 1.070403825 1 12.32829927 -6.679954536 0.563182837 0.985590772 0.78998233 0.823928986 0.038795516 0.189919137 0.125895055 0.007761776 0.014851282 2.09E-07 6.679954536 -0.195608441 SVIEPLPVT(ph)PTR ddPTM_HeLa_SAHA_4h_R1 2 SVIEPLPVTPTR 12 0 H0YCM0;E9PM17;B3KNX7;Q13153;Q13153-2 H0YCM0 PAK1 Non-specific serine/threonine protein kinase;Serine/threonine-protein kinase PAK 1 1 0 S(0.083)VIEPLPVT(0.892)PT(0.025)R;S(0.062)VIEPLPVT(0.469)PT(0.469)R ; 141.34 0.0010917 9269600 1486.76 2199.73 1566.45 1232.45 1591.55 2248.04 1730.8 1748.67 1827.45 1620.13 TRUE FALSE FALSE 1643.144238 2271.002695 1779.917648 1256.305852 1469.605783 2056.494345 1536.045829 1703.941553 1814.732627 1689.981733 0.972285207 1.343803102 1.053217093 0.743384279 0.86959862 1.216873712 0.908912682 1.008260338 1.073817895 1 10.72279194 SVLCSTPT(ph)INIPAS(ph)PFMQK ddPTM_HeLa_SAHA_4h_R1 1 SVLCSTPTINIPASPFMQK 19 0 Q96KB5;Q96KB5-2;E5RIE1 Q96KB5 PBK Lymphokine-activated killer T-cell-originated protein kinase 2 0 S(0.004)VLCS(0.135)T(0.293)PT(0.745)INIPAS(0.824)PFMQK 56.424 0.01547 1850700 757.05 734.41 628.62 484.77 753.24 892.09 592.4 764.13 619.97 808.38 TRUE FALSE FALSE 836.6799925 758.2053659 714.2850599 494.1534243 695.5269139 816.0789132 525.7415929 744.584661 615.6555783 843.2332179 0.992228454 0.899164489 0.847078892 0.586022246 0.82483339 0.967797397 0.62348302 0.883011538 0.730113052 1 9.719787891 -6.909915856 2.192002698 0.996298585 0.779088071 0.053738566 0.135483329 0.191345776 1.864028175 0.017216488 0.023238104 1.23E-07 6.909915856 -0.217210513 SVLFVCLGNICR ddPTM_HeLa_SAHA_4h_R1 2 SVLFVCLGNICR 12 0 F2Z2Q9;G5E9R5;D3YTI2;P24666-4;P24666-3;P24666-2;P24666 F2Z2Q9 ACP1 Low molecular weight phosphotyrosine protein phosphatase 0 0 ; ; 151.83 3.53E-05 1325140 653.03 683.75 942.56 722.67 717.49 483.29 868.04 162.35 136.12 337.87 FALSE FALSE TRUE 721.7186916 705.9039486 1071.007168 736.6583228 662.5160712 442.1109731 770.3658546 158.1973221 135.1727298 352.4372292 2.04779357 2.00292106 3.038859347 2.090183051 1.879812961 1.254438908 2.185824285 0.44886666 0.383537035 1 8.461222519 -4.247454164 23.50745006 1.724710297 0.448864652 0.24246666 0.694559669 1164.612351 1957493.505 0.092038058 2.344242789 5.66E-05 4.247454164 -1.275845645 SVLISLK ddPTM_HeLa_SAHA_4h_R1 1 SVLISLK 7 0 P09496-2;P09496-4;P09496-3;P09496;P09496-5;C9J8P9 P09496-2 CLTA Clathrin light chain A 0 0 126.67 0.00086354 3385700 3473.7 3758.2 9476.4 6477.3 5536.9 1369.9 6611.5 1332.8 555.32 1891.9 FALSE FALSE TRUE 3839.079704 3879.968146 10767.79444 6602.677508 5112.663918 1253.176813 5867.556619 1298.708906 551.4554829 1973.469068 1.94534577 1.966064839 5.456277282 3.345721307 2.590698786 0.635012139 2.973219452 0.658084247 0.279434571 1 10.94651819 -5.303621397 24.9803153 2.016549395 1.577212262 0.041623958 1.4720057 2172.820278 1286747.245 0.222560676 0.497664252 4.97E-06 5.303621397 -0.439337133 SVLISLK(ac)QAPLVH ddPTM_HeLa_SAHA_4h_R1 2 SVLISLKQAPLVH 13 1 P09496-2;P09496-4;P09496-3;P09496;P09496-5;C9J8P9 P09496-2 CLTA Clathrin light chain A 0 1 ; SVLISLK(1)QAPLVH;SVLISLK(1)QAPLVH 116.84 0.0025983 4061000 760.58 1058.78 944.54 969.92 926.46 847.55 1159.72 845.44 885.31 961.89 FALSE TRUE FALSE 840.5812941 1093.085167 1073.256992 988.6942041 855.474835 775.3339718 1029.225253 823.814869 879.1490556 1003.361785 0.837764908 1.089422761 1.069661022 0.985381563 0.852608548 0.772736199 1.025776812 0.82105466 0.876203448 1 9.970626181 -5.755215172 24.95958875 0.951505171 0.872502969 0.210260231 0.0956962 264.0370181 1058799.66 0.015607992 0.030601295 1.76E-06 5.755215172 -0.079002202 SVNEILGLAES(ph)SPNEPK ddPTM_HeLa_SAHA_4h_R1 3 SVNEILGLAESSPNEPK 17 0 Q9H8G2;Q9H8G2-2 Q9H8G2 CAAP1 Caspase activity and apoptosis inhibitor 1 1 0 SVNEILGLAES(0.642)S(0.358)PNEPK;SVNEILGLAES(0.608)S(0.392)PNEPK;SVNEILGLAES(0.751)S(0.249)PNEPK ;; 263.47 9.23E-48 18896200 2774.45 2676.1 2700.93 2700.49 3295.8 2965.41 3413.14 3206.8 2854.04 2542.89 TRUE FALSE FALSE 3066.279381 2762.807396 3068.998675 2752.761889 3043.276516 2712.740385 3029.084504 3124.774699 2834.178503 2652.526433 1.155984477 1.041575821 1.157009648 1.037788674 1.147312418 1.022700604 1.141962043 1.178037158 1.068482662 1 11.37315141 -9.476194509 1.1572152 0.998629965 1.111604497 0.185638089 0.057418365 0.407475184 0.956979295 0.037624143 0.00877979 3.34E-10 9.476194509 0.112974532 SVNEILGLAESS(ph)PNEPK ddPTM_HeLa_SAHA_4h_R1 1 SVNEILGLAESSPNEPK 17 0 Q9H8G2;Q9H8G2-2 Q9H8G2 CAAP1 Caspase activity and apoptosis inhibitor 1 1 0 SVNEILGLAES(0.028)S(0.972)PNEPK 205.18 1.19E-15 8322200 1391.6 1528.2 1382.3 1442.5 1438.2 1701.1 1483.7 1292.7 1410.7 1268.4 TRUE FALSE FALSE 1537.974873 1577.714683 1570.672645 1470.421673 1328.005427 1556.15671 1316.750171 1259.634606 1400.882824 1323.086931 1.162414076 1.192449752 1.187127322 1.111356811 1.003717439 1.176156058 0.995210624 0.95204221 1.058798776 1 10.36969214 -4.593147181 7.017086732 1.096882028 0.962476085 0.382010857 0.069080138 0.194140281 15.57488606 0.011743039 0.044881294 2.55E-05 4.593147181 -0.134405942 SVNFSLT(ph)PNEIK ddPTM_HeLa_SAHA_4h_R1 4 SVNFSLTPNEIK 12 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 S(0.007)VNFS(0.062)LT(0.931)PNEIK;SVNFS(0.033)LT(0.967)PNEIK;SVNFS(0.003)LT(0.996)PNEIK;SVNFS(0.006)LT(0.994)PNEIK ;;; 193.51 6.13E-07 42407000 5935.6 6171.1 5621.4 6232.7 7147.2 7761.8 7109.9 6275.5 8096.8 5943 TRUE FALSE FALSE 6559.933642 6371.047689 6387.455117 6353.342921 6599.58308 7100.450973 6309.87534 6114.981797 8040.45371 6199.231814 1.058184923 1.027715672 1.030362359 1.02485971 1.064580786 1.145375941 1.017847941 0.986409604 1.297008073 1 12.59787374 -5.76582948 24.8403057 1.028212913 1.057561909 0 0.094000882 194.6760052 1101534.418 0.006411852 0.011907641 1.71E-06 5.76582948 0.029348996 SVNGGPGS(ph)PDLAR ddPTM_HeLa_SAHA_4h_R1 3 SVNGGPGSPDLAR 13 0 H0YAH0;O60245;O60245-2;A0A087X2C4 H0YAH0 PCDH7 Protocadherin-7 1 0 SVNGGPGS(1)PDLAR;S(0.007)VNGGPGS(0.993)PDLAR;S(0.05)VNGGPGS(0.95)PDLAR ;; 167.92 3.33E-05 34100700 3426.35 7557.6 5324.8 3478.98 5047.8 4353.4 6583.8 3846.64 3494.3 4736.6 TRUE FALSE FALSE 3786.749214 7802.471199 6050.436014 3546.320689 4661.038655 3982.465828 5842.973496 3748.248519 3469.982882 4940.818006 0.766421513 1.579186116 1.224581842 0.717759829 0.94337388 0.806033702 1.182592334 0.758629141 0.70230939 1 12.2705342 SVNVS(ph)LTQEELDSGLDELSVR ddPTM_HeLa_SAHA_4h_R1 1 SVNVSLTQEELDSGLDELSVR 21 0 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 S(0.026)VNVS(0.938)LT(0.035)QEELDSGLDELSVR 163.67 2.03E-07 2214700 255.02 71.681 0 202.47 218.86 232.79 142.08 201.16 274.99 256.72 TRUE FALSE FALSE 281.8441737 74.00351143 0 206.3890996 202.0909941 212.9549824 126.0927845 196.0146185 273.0763222 267.7884556 1.052488141 0.276350641 0 0.770716942 0.754666566 0.795235859 0.470867141 0.731975611 1.019746432 1 8.064949957 -7.281130569 24.50850667 1.024786094 0.545804801 0.460982436 0.238456584 424.0457693 527784.3841 0.042846688 0.049035485 5.23E-08 7.281130569 -0.478981293 SVPAGLTLQSVS(ph)PQSLQGK ddPTM_HeLa_SAHA_4h_R1 2 SVPAGLTLQSVSPQSLQGK 19 0 B4DJX4;Q9HAU0-8;Q9HAU0;Q9HAU0-2;Q9HAU0-4;Q9HAU0-6;A0JP02;Q9HAU0-5;Q9HAU0-3;H0YG48 B4DJX4 PLEKHA5 Pleckstrin homology domain-containing family A member 5 1 0 SVPAGLTLQS(0.029)VS(0.96)PQS(0.011)LQGK;SVPAGLTLQS(0.003)VS(0.979)PQS(0.017)LQGK ; 235.45 5.48E-33 6493000 1977.56 2057.24 2081.62 2328.46 2720.9 2913.7 2793.7 2289.7 2707.8 2211.02 TRUE FALSE FALSE 2185.568834 2123.895926 2365.292333 2373.53071 2512.42523 2665.436368 2479.345523 2231.132789 2688.956199 2306.347893 0.947631899 0.920891394 1.02555748 1.029129525 1.089352234 1.155695711 1.075009339 0.967387789 1.165893579 1 11.17139443 -6.27098285 2.087252507 0.971071256 1.075571384 0.009961568 0.078825013 0.218479632 1.857985328 0.008213294 0.014208752 5.36E-07 6.27098285 0.104500128 SVPGTTSS(ph)PLVGDISPK ddPTM_HeLa_SAHA_4h_R1 2 SVPGTTSSPLVGDISPK 17 0 H0Y6S1;B4DRC2;Q9UQR0;Q9UQR0-2 H0Y6S1 SCML2 Sex comb on midleg-like protein 2 1 0 SVPGTTS(0.043)S(0.636)PLVGDIS(0.32)PK;SVPGTT(0.001)S(0.187)S(0.72)PLVGDIS(0.092)PK ; 217.32 7.63E-21 26002000 4827.1 4176.3 3955.1 4169.8 4716.7 4956 4917.2 4899.1 4509.4 4026.39 TRUE FALSE FALSE 5334.836526 4311.61486 4494.080431 4250.512509 4355.307465 4533.720918 4363.903715 4773.788116 4478.018718 4199.987378 1.27020299 1.026578052 1.070022366 1.012029829 1.036981084 1.079460606 1.039027817 1.136619634 1.066198137 1 12.03616928 SVPGYKVEEKS(ph)P ddPTM_HeLa_SAHA_4h_R1 1 SVPGYKVEEKSP 12 2 S5FZ81 S5FZ81 PHF10 1 0 SVPGYKVEEKS(1)P 103.83 0.020792 3720700 723.21 597.16 930.06 887.35 697.98 687.74 943.32 841.63 589.54 655.99 TRUE FALSE FALSE 799.280546 616.5083758 1056.803733 904.5259424 644.5009232 629.1406829 837.1751509 820.1023233 585.4373431 684.2729392 1.168072709 0.900968518 1.544418422 1.321878874 0.941876971 0.919429436 1.22345208 1.198501762 0.85556115 1 9.418428084 -9.259001162 0.741587881 0.98819175 1.153037538 0.155421369 0.193371806 1.861835794 1.624519194 0.190195832 0.039339955 5.51E-10 9.259001162 0.164845788 SVPHLQK ddPTM_HeLa_SAHA_4h_R1 2 SVPHLQK 7 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ; ; 105.95 0.0035197 7721300 9482.1 10827.9 9516.8 10282.7 13045.3 10402.2 14267.8 9322.5 8017.8 9836.2 FALSE FALSE TRUE 10479.47078 11178.73106 10813.69994 10481.73653 12045.77193 9515.874039 12662.34959 9084.043949 7962.003477 10260.28672 1.021362372 1.089514491 1.053937403 1.021583199 1.174019037 0.927447185 1.234112646 0.885359659 0.776002045 1 13.32478343 -7.448488225 5.076352675 1.009137132 1.060343107 0.085739667 0.121759011 0.474931892 21.50753393 0.014591844 0.016425644 3.56E-08 7.448488225 0.051205975 SVPHLQK(ac)VFDR ddPTM_HeLa_SAHA_4h_R1 1 SVPHLQKVFDR 11 1 P07355;P07355-2;H0YN42;A6NMY6;H0YM50;H0YN28;H0YNP5;H0YL33 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 1 SVPHLQK(1)VFDR 95.477 0.0020183 0 1009.1 1123.3 1129.3 1086.2 1533.5 876.55 1415.9 510.82 568.97 979.88 FALSE TRUE FALSE 1115.241768 1159.695657 1283.195123 1107.224972 1416.003561 801.8630087 1256.579206 497.7539641 565.0104914 1022.127422 1.091098569 1.134590103 1.255416003 1.083255324 1.385349351 0.784503958 1.229376278 0.486978388 0.552778919 1 9.997359344 -4.252594213 24.91006882 1.081672701 0.486978066 0.355237425 0.228434356 587.1801816 1653600.338 0.020092349 0.320825972 5.59E-05 4.252594213 -0.594694634 SVPPATPATPT(ph)SPATVDAAVPGAGKK ddPTM_HeLa_SAHA_4h_R1 2 SVPPATPATPTSPATVDAAVPGAGKK 26 1 A0A0G2JHC2;Q6NYC8;Q6NYC8-3;Q6NYC8-4 A0A0G2JHC2 PPP1R18 Phostensin 1 0 SVPPAT(0.002)PAT(0.012)PT(0.485)S(0.485)PAT(0.016)VDAAVPGAGKK;SVPPAT(0.004)PAT(0.021)PT(0.427)S(0.427)PAT(0.121)VDAAVPGAGKK ; 99.441 1.30E-07 0 612.82 836.73 618.95 603.08 851.38 864.2 712.02 556.95 695.45 509.65 TRUE FALSE FALSE 677.2792193 863.840601 703.2972826 614.7534855 786.1474483 790.5652981 631.9016357 542.7040255 690.6103068 531.6235057 1.273982832 1.624910471 1.322923601 1.156370023 1.478767285 1.487077395 1.188626216 1.020842795 1.299059014 1 9.054261084 -8.693333099 0.914589519 1.021510641 1.326032701 0.035244183 0.189574625 0.456244537 0.764896385 0.075611416 0.035398151 2.03E-09 8.693333099 0.304522061 SVPPATPATPTSPAT(ph)VDAAVPGAGKK ddPTM_HeLa_SAHA_4h_R1 2 SVPPATPATPTSPATVDAAVPGAGKK 26 1 A0A0G2JHC2;Q6NYC8;Q6NYC8-3;Q6NYC8-4 A0A0G2JHC2 PPP1R18 Phostensin 1 0 S(0.003)VPPAT(0.03)PAT(0.121)PT(0.268)S(0.268)PAT(0.31)VDAAVPGAGKK;S(0.001)VPPAT(0.003)PAT(0.014)PT(0.064)S(0.064)PAT(0.854)VDAAVPGAGKK ; 65.111 0.0025551 0 503.38 532.69 640.98 643.39 667.62 632.22 548.16 560.27 676.69 482.99 TRUE FALSE FALSE 556.327818 549.9495055 728.3294163 655.8437438 616.4670998 578.3512992 486.4795941 545.9391047 671.9808592 503.8140626 1.104232413 1.09157236 1.445631376 1.301757518 1.223600422 1.147945923 0.96559352 1.083612279 1.333787421 1 8.976747581 -7.769796152 1.246651199 1.029186408 1.184168604 0 0.15677965 0.481457409 1.560474159 0.031459773 0.029530562 1.70E-08 7.769796152 0.154982195 SVPSIAAATGTHS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 SVPSIAAATGTHSR 14 0 Q8IY63-2;Q8IY63 Q8IY63-2 AMOTL1 Angiomotin-like protein 1 1 0 SVPSIAAAT(0.156)GT(0.201)HS(0.643)R 84.403 0.010569 4000600 1091.9 1431.5 1114.1 1563.4 1660.3 1830.8 1367.1 2005.1 1384.6 1832.1 TRUE FALSE FALSE 1206.751052 1477.881539 1265.923746 1593.661868 1533.088173 1674.80554 1213.27031 1953.812445 1374.964456 1911.090797 0.631446216 0.773318328 0.662409001 0.833901702 0.802205827 0.876361051 0.634857492 1.022354588 0.719465793 1 10.90018061 -9.548859395 1.332460405 0.999291931 0.75830439 0 0.142932703 0.360725511 1.152702161 0.077479784 0.018585742 2.83E-10 9.548859395 -0.240987541 SVPTSTVFYPSDGVATEK ddPTM_HeLa_SAHA_4h_R1 4 SVPTSTVFYPSDGVATEK 18 0 P29401;P29401-2;A0A0B4J1R6 P29401 TKT Transketolase 0 0 ;;; ;;; 317.55 9.64E-160 8791700 2381.27 2250.25 2134.78 1999.85 2631.48 2568.07 2272.61 1991.59 1987.76 2320.15 FALSE FALSE TRUE 2631.742904 2323.159576 2425.696701 2038.559989 2429.856571 2349.255988 2016.889942 1940.648012 1973.927016 2420.183021 1.087414828 0.959910699 1.002278208 0.842316457 1.003997032 0.970693525 0.83336257 0.801860022 0.815610637 1 11.24090044 -3.109405887 0.35785281 1.039230889 0.300019079 0.069162525 0.091239243 6.762791298 0.322002305 0.019431061 2.567539484 0.00077731 3.109405887 -0.73921181 SVPVNNLPERS(ph)PTDSPR ddPTM_HeLa_SAHA_4h_R1 2 SVPVNNLPERSPTDSPR 17 1 P49454 P49454 CENPF Centromere protein F 1 0 SVPVNNLPERS(0.944)PT(0.05)DS(0.007)PR;SVPVNNLPERS(0.361)PT(0.361)DS(0.277)PR ; 212.41 5.64E-20 16399800 1097.16 838.6 1070.46 1071.95 1236.68 1573.92 1537.25 1245.63 1378.42 1022.59 TRUE FALSE FALSE 1212.564323 865.7711902 1216.336714 1092.699142 1141.925846 1439.813161 1364.274584 1213.768588 1368.827463 1066.678859 1.136766059 0.811651213 1.140302635 1.024393736 1.070543243 1.34980941 1.278992803 1.137895045 1.283261078 1 10.05891018 -5.352877185 6.607563438 1.048971022 1.257225058 0.321697908 0.124007557 0.159565748 9.709634347 0.014429846 0.032527936 4.44E-06 5.352877185 0.208254037 SVS(ph)CDNVSK ddPTM_HeLa_SAHA_4h_R1 3 SVSCDNVSK 9 0 Q96CB8;A0A087WXN4 Q96CB8 INTS12 Integrator complex subunit 12 1 0 S(0.02)VS(0.827)CDNVS(0.153)K;S(0.188)VS(0.625)CDNVS(0.186)K;S(0.037)VS(0.963)CDNVSK ;; 128.88 0.0022283 131906400 6997.6 8272.1 6105.3 5376.1 8062.1 10109.4 8912.4 6960.6 5965.6 8572.4 TRUE FALSE FALSE 7733.639674 8540.121468 6937.298489 5480.162189 7444.38364 9248.022246 7909.553296 6782.557931 5924.084904 8941.998116 0.864867066 0.9550574 0.775810775 0.612856558 0.832519035 1.034223238 0.884539808 0.758505855 0.662501247 1 13.12638153 -8.703866844 0.584804911 1.004790519 0.834376044 0 0.149155883 1.064637644 0.692264309 0.089444315 0.029409545 1.98E-09 8.703866844 -0.170414475 SVS(ph)EESANSLVSVGVEAK ddPTM_HeLa_SAHA_4h_R1 1 SVSEESANSLVSVGVEAK 18 0 Q8NEZ4;Q8NEZ4-3;H0YMU7;C9J4Z5 Q8NEZ4 KMT2C Histone-lysine N-methyltransferase 2C 1 0 S(0.004)VS(0.995)EES(0.001)ANSLVSVGVEAK 185.09 1.22E-12 3651700 519.11 742.98 564.02 700.92 968.01 954.48 823.39 738.13 709.62 746.11 TRUE FALSE FALSE 573.7123716 767.0530395 640.8817083 714.4873201 893.8412829 873.1529342 730.7399902 719.2497034 704.6816966 778.2784535 0.737155666 0.98557661 0.823460685 0.918035591 1.148485197 1.121903003 0.938918438 0.924154716 0.905436471 1 9.604142607 -5.977511518 20.73715626 0.878760574 1.032983524 0.333433562 0.095848607 35.37509821 32618.36054 0.017831619 0.03231705 1.05E-06 5.977511518 0.15422295 SVS(ph)EINSDDELSGK ddPTM_HeLa_SAHA_4h_R1 2 SVSEINSDDELSGK 14 0 F8WF45;A0A2R8Y7M0;P82094;P82094-2 F8WF45 TMF1 TATA element modulatory factor 1 0 S(0.007)VS(0.869)EINS(0.124)DDELSGK;S(0.003)VS(0.84)EINS(0.143)DDELS(0.014)GK ; 227.92 3.14E-24 113534000 8933.2 10235.7 9655.6 10042.3 10755.1 12301.6 11996.9 10843 11833.7 9499.1 TRUE FALSE FALSE 9872.834963 10567.3434 10971.41488 10236.68324 9931.046562 11253.43447 10646.97724 10565.65176 11751.34832 9908.652688 0.996385207 1.066476314 1.107255974 1.033105464 1.002260032 1.135717925 1.074513112 1.066305591 1.185968334 1 13.27447319 -7.252876628 7.731373894 0.998264782 1.069673676 0 0.068511597 0.090103471 42.68264416 0.005705492 0.006818236 5.59E-08 7.252876628 0.071408894 SVS(ph)ENSLVAMDFSGQTGR ddPTM_HeLa_SAHA_4h_R1 2 SVSENSLVAMDFSGQTGR 18 0 A0A2R8YCL1;Q13322-3;Q13322-2;Q13322-4;Q13322 A0A2R8YCL1 GRB10 Growth factor receptor-bound protein 10 1 0 S(0.037)VS(0.955)ENS(0.008)LVAMDFSGQTGR;S(0.13)VS(0.87)ENSLVAMDFSGQTGR ; 139.74 0.00012932 21796700 1872.81 2253.73 2203.91 2325.41 2348.93 2274.65 2333.22 2278.32 2474.57 2240.83 TRUE FALSE FALSE 2069.800749 2326.752331 2504.247377 2370.421673 2168.955491 2080.837023 2070.679945 2220.043873 2457.349266 2337.443148 0.885497793 0.995426277 1.071361834 1.014108803 0.927917966 0.890219309 0.885873929 0.94977449 1.051297983 1 11.19071556 -5.532387557 24.22209559 0.963809322 0.906801189 0.239298968 0.05723072 207.2615587 527963.1783 0.009411777 0.018844411 2.94E-06 5.532387557 -0.057008133 SVS(ph)HPGSCSSER ddPTM_HeLa_SAHA_4h_R1 1 SVSHPGSCSSER 12 0 H7C0Q0;Q9HB20 H7C0Q0 PLEKHA3 Pleckstrin homology domain-containing family A member 3 1 0 S(0.005)VS(0.995)HPGSCSSER 79.875 0.017004 1833400 465.39 1064.4 320.26 548.18 1547.8 3658.7 1647 1115.6 799.63 1045.8 TRUE FALSE FALSE 514.3418555 1098.887258 363.903365 558.7908166 1429.207898 3346.958177 1461.675225 1087.064567 794.0653097 1090.889556 0.471488477 1.007331358 0.333584058 0.512234088 1.310130701 3.068099936 1.33989295 0.996493698 0.727906235 1 10.09128933 -5.529494277 9.883264456 0.723832803 1.827436685 0.47214889 0.537111486 0.098432583 116.3929824 0.077920836 0.159177412 2.95E-06 5.529494277 1.103603882 SVS(ph)KESVASMGADSGDDFASDGSSSR ddPTM_HeLa_SAHA_4h_R1 1 SVSKESVASMGADSGDDFASDGSSSR 26 1 Q5T165;Q92805 Q5T165 GOLGA1 Golgin subfamily A member 1 1 0 S(0.211)VS(0.602)KES(0.179)VAS(0.008)MGADSGDDFASDGSSSR 61.141 0.0025228 7566300 657.16 790.22 467.25 453.23 684.52 702.08 640.28 510.97 680.62 494.66 TRUE FALSE FALSE 726.283104 815.8236465 530.9243967 462.002922 632.0722255 642.2588342 568.2340093 497.9001273 675.88351 515.9872134 1.407560275 1.581092758 1.028948747 0.895376688 1.224976529 1.244718508 1.10125599 0.964946639 1.309884223 1 9.011191505 SVS(ph)PAVHR ddPTM_HeLa_SAHA_4h_R1 1 SVSPAVHR 8 0 H0YLX2;A0A669KBM4;Q2KHR2-2;Q2KHR2 H0YLX2 RFX7 DNA-binding protein RFX7 1 0 S(0.011)VS(0.989)PAVHR 89.886 0.018045 4486800 2507.4 2201.5 1752.2 2319.8 2118.6 2979.4 2464.4 2286.5 2601.8 2537.2 TRUE FALSE FALSE 2771.139836 2272.830044 1990.980691 2364.703083 1956.273326 2725.538358 2187.099226 2228.014641 2583.693862 2646.591109 1.047060057 0.858776423 0.752281183 0.893490149 0.739167195 1.029829787 0.826383501 0.841843167 0.976234619 1 11.3699196 -7.252673463 20.20693476 1.022222812 0.848710105 0.466383271 0.077447014 25.55682209 58911.98155 0.012026297 0.014562825 5.59E-08 7.252673463 -0.173512707 SVS(ph)PLVWCR ddPTM_HeLa_SAHA_4h_R1 1 SVSPLVWCR 9 0 Q9P270 Q9P270 SLAIN2 SLAIN motif-containing protein 2 1 0 S(0.001)VS(0.999)PLVWCR 94.409 0.014572 2346400 925 1091.1 999.79 1054.9 986.22 1003 1160.9 1317.3 1060.5 924.28 TRUE FALSE FALSE 1022.295744 1126.452356 1136.036175 1075.319115 910.6560367 917.5387573 1030.272477 1283.605373 1053.119894 964.1302341 1.060329516 1.168361199 1.178301576 1.115325582 0.944536334 0.951675121 1.068603017 1.33136098 1.092300456 1 9.913084228 SVS(ph)PSPVPLLFQPDQNAPPIR ddPTM_HeLa_SAHA_4h_R1 2 SVSPSPVPLLFQPDQNAPPIR 21 0 Q02241-2;Q02241-3 Q02241-2 KIF23 Kinesin-like protein KIF23 1 0 S(0.011)VS(0.974)PS(0.015)PVPLLFQPDQNAPPIR;S(0.017)VS(0.981)PS(0.002)PVPLLFQPDQNAPPIR ; 229.96 5.93E-65 136300000 1525.03 1256.13 938.54 1356.57 1487.55 1541.6 1422.57 1664.72 1573.89 1298.36 TRUE FALSE FALSE 1685.439652 1296.829436 1066.439343 1382.828374 1373.57424 1410.247007 1262.49868 1622.138873 1562.937171 1354.338654 1.244474303 0.957537048 0.787424431 1.021035891 1.014202937 1.041280926 0.932188324 1.197735048 1.154022421 1 10.40337282 -7.225011082 24.67836175 1.115446235 0.986551768 0.242410219 0.111561891 642.4981453 435260.9433 0.02140715 0.026217754 5.96E-08 7.225011082 -0.128894466 SVS(ph)PTFLNPSDENLK ddPTM_HeLa_SAHA_4h_R1 4 SVSPTFLNPSDENLK 15 0 Q9UKA4 Q9UKA4 AKAP11 A-kinase anchor protein 11 1 0 S(0.009)VS(0.854)PT(0.137)FLNPSDENLK;S(0.031)VS(0.963)PT(0.006)FLNPSDENLK;S(0.001)VS(0.999)PTFLNPSDENLK;S(0.014)VS(0.982)PT(0.004)FLNPSDENLK ;;; 299.17 1.60E-83 75963800 6991.5 6191.1 5517.2 6313.1 6212 7270.4 7015.2 7553.45 6033.3 6414.7 TRUE FALSE FALSE 7726.898048 6391.695702 6269.055284 6435.299179 5736.037902 6650.921018 6225.831233 7360.243686 5991.313774 6691.26911 1.154773171 0.955229209 0.936900785 0.961745683 0.857242148 0.993970039 0.930441017 1.099977234 0.895392739 1 12.70806415 -7.23027895 23.52492404 1.073087329 0.957185275 0 0.087448463 281.7589165 212717.1228 0.012877031 0.01576964 5.88E-08 7.23027895 -0.115902054 SVS(ph)PTTEMVSNESVDYR ddPTM_HeLa_SAHA_4h_R1 1 SVSPTTEMVSNESVDYR 17 0 P08581;P08581-2 P08581 MET Hepatocyte growth factor receptor 1 0 S(0.039)VS(0.829)PT(0.126)T(0.006)EMVSNESVDYR 135.69 0.00011797 7188100 816.22 1483.9 968.86 660.01 810.14 724.58 1075.2 711.95 866.36 994.31 TRUE FALSE FALSE 902.0737646 1531.979334 1100.891195 672.7854479 748.0672482 662.8417076 954.2156662 693.7393499 860.3309302 1037.17957 0.869737305 1.477062775 1.061427767 0.648668242 0.72125143 0.639080953 0.920010087 0.668871013 0.829490818 1 10.01844998 -6.262802284 24.9995907 0.994268318 0.726332643 0.431872863 0.182969008 112.6830655 2066936.881 0.028837296 0.045574084 5.46E-07 6.262802284 -0.267935674 SVS(ph)PVQDLDDDTPPS(ph)PAHSDMPYDAR ddPTM_HeLa_SAHA_4h_R1 1 SVSPVQDLDDDTPPSPAHSDMPYDAR 26 0 G3V3A7;O00409-2;O00409 G3V3A7 FOXN3 Forkhead box protein N3 2 0 S(0.133)VS(0.692)PVQDLDDDT(0.175)PPS(0.994)PAHS(0.004)DMPY(0.003)DAR 96.957 2.10E-05 3965700 420.08 352.7 464.5 362.46 373.27 454.72 425.59 199.26 358.37 429.95 TRUE FALSE FALSE 464.2659418 364.1277114 527.799641 369.4759374 344.6701332 415.9752978 377.7014931 194.1632177 355.876074 448.4872486 1.035182033 0.811902039 1.176844253 0.823827073 0.76851713 0.927507525 0.842167741 0.432929182 0.793503216 1 8.808923157 -3.833965613 0.5757306 1.005682463 1.84E-25 0.450288016 0.139565627 2.725999499 0.435652467 0.021515728 2.037630588 0.000146566 3.833965613 -1.005682463 SVS(ph)SNVASVSPIPAGSK ddPTM_HeLa_SAHA_4h_R1 1 SVSSNVASVSPIPAGSK 17 0 Q9Y6G9;E9PHI6 Q9Y6G9 DYNC1LI1 Cytoplasmic dynein 1 light intermediate chain 1 1 0 S(0.001)VS(0.958)S(0.041)NVASVSPIPAGSK 168.08 1.45E-06 12807000 784.31 943.36 910.33 472.04 871.88 1260.1 1078.1 716.11 538.12 806.69 TRUE FALSE FALSE 866.8073243 973.925483 1034.385032 481.1770168 805.0767428 1152.732391 956.7893506 697.7929431 534.3751791 841.4703537 1.030110354 1.157409145 1.229259031 0.571828841 0.956749978 1.369902559 1.137044634 0.82925434 0.635049324 1 9.716768634 -8.330533859 1.618362497 1.006701344 1.040953955 0.006762507 0.240161378 2.824090791 14.83174289 0.053204932 0.040096533 4.67E-09 8.330533859 0.034252611 SVS(ph)SSSYR ddPTM_HeLa_SAHA_4h_R1 1 SVSSSSYR 8 0 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 SVS(0.478)S(0.478)S(0.043)SYR 104.01 0.0084534 10831000 1614.3 1763.8 1404.9 1846.9 2370.1 2515.7 2345.7 1917 2536.8 1817.2 TRUE FALSE FALSE 1784.099481 1820.948277 1596.352456 1882.64942 2188.50345 2301.348207 2081.755662 1867.965916 2519.146202 1895.548385 0.941204928 0.960644577 0.842158643 0.993195128 1.154548978 1.214080434 1.098233988 0.985448818 1.328980163 1 10.88839957 -5.858857471 5.471716243 0.959986429 1.118678728 0.052671493 0.134474244 0.122526929 5.662157516 0.010380479 0.019122274 1.38E-06 5.858857471 0.158692299 SVS(ph)TMNLSK ddPTM_HeLa_SAHA_4h_R1 1 SVSTMNLSK 9 0 A0A087WZ40;Q14244-5;Q14244-3;Q14244-6;Q14244;Q14244-7 A0A087WZ40 MAP7 Ensconsin 1 0 SVS(0.402)T(0.402)MNLS(0.195)K 112.94 0.0053801 23252000 2956 2124.1 2758.4 3352.8 2841.4 2635.8 2537.4 3152.7 1743.4 2360.8 TRUE FALSE FALSE 3266.925643 2192.922234 3134.300387 3417.698292 2623.692546 2411.215011 2251.885074 3072.058499 1731.267537 2462.585641 1.326624174 0.890495826 1.272768075 1.387849517 1.065421848 0.979139556 0.914439293 1.247493061 0.703028357 1 11.26595818 -5.541495974 24.88511838 1.16298221 1.03185126 0 0.215599627 399.4137444 533883.3677 0.025816274 0.051639016 2.87E-06 5.541495974 -0.13113095 SVS(ph)TPSEAGSQDSGDGAVGSR ddPTM_HeLa_SAHA_4h_R1 1 SVSTPSEAGSQDSGDGAVGSR 21 0 E7EQL5;Q13409-2;Q13409-3;Q13409-6;E9PGG1;E7EQU2;E7EV09;E7ETL8;Q13409;Q13409-7;Q13409-5;E7ERH4;E7ERR6;E7EMU4;E7ESD3;E7EUM4;E7ET01 E7EQL5 DYNC1I2 Cytoplasmic dynein 1 intermediate chain 2 1 0 S(0.001)VS(0.473)T(0.473)PS(0.052)EAGSQDSGDGAVGSR 203.89 3.24E-21 18139000 485.46 486.12 407.82 485.86 716.76 638.1 701.33 559.64 480.25 580.93 TRUE FALSE FALSE 536.5229102 501.870607 463.3955858 495.2645229 661.8420036 583.7302901 622.4145026 545.3252191 476.9079011 605.9767353 0.885385327 0.828201114 0.764708542 0.817299566 1.092190451 0.963288285 1.02712607 0.899911147 0.787006948 1 9.243118596 -3.895038717 13.74548071 0.932388759 3.59E-05 0 0.10751755 1182266.63 2151367.947 0.014625283 33204884.4 0.000127339 3.895038717 -0.932352905 SVS(ph)TTNIAGHFNDESPLGLR ddPTM_HeLa_SAHA_4h_R1 2 SVSTTNIAGHFNDESPLGLR 20 0 V9GYM8;A0A5F9ZI21;Q92974-3;Q92974-2;Q92974;V9GYF5;V9GYG5;V9GZ14 V9GYM8 ARHGEF2 Rho guanine nucleotide exchange factor 2 1 0 S(0.011)VS(0.903)T(0.077)T(0.009)NIAGHFNDESPLGLR;S(0.353)VS(0.42)T(0.104)T(0.123)NIAGHFNDESPLGLR ; 189.48 4.06E-14 43811000 767.49 784 573.28 982.09 1568.32 1376.09 1287.21 1344.25 1177.12 819.2 TRUE FALSE FALSE 848.2181196 809.4021144 651.4036129 1001.099772 1448.15566 1258.83939 1142.369743 1309.866031 1168.928326 854.5197211 0.992625563 0.947201211 0.762303779 1.171535012 1.694701275 1.473154287 1.336855914 1.532868112 1.367936043 1 9.738969977 -5.960800187 5.954385078 0.975344355 1.491278468 0.667131849 0.164058206 0.051436316 4.75968533 0.015710908 0.028515451 1.09E-06 5.960800187 0.515934113 SVS(ph)VATGLNMMK ddPTM_HeLa_SAHA_4h_R1 1 SVSVATGLNMMK 12 0 Q9UHR4 Q9UHR4 BAIAP2L1 Brain-specific angiogenesis inhibitor 1-associated protein 2-like protein 1 1 0 S(0.087)VS(0.812)VAT(0.1)GLNMMK 115.34 0.0020298 2659700 728.41 724.66 719.9 638.03 711.47 766.71 737.95 613.68 517.85 693.07 TRUE FALSE FALSE 805.0275059 748.1394595 818.0042229 650.3799933 656.9573223 701.3819946 654.9139238 597.9829542 514.2462397 722.9516395 1.113528847 1.034840256 1.131478481 0.899617565 0.908715447 0.970164471 0.905888981 0.827141017 0.711314854 1 9.497755334 -6.245183058 24.81206203 1.058575357 0.906630617 0.031784194 0.119719784 363.2613338 554446.7123 0.008537213 0.014128314 5.69E-07 6.245183058 -0.15194474 SVS(ph)VDESRPELIFR ddPTM_HeLa_SAHA_4h_R1 2 SVSVDESRPELIFR 14 1 Q96BY7 Q96BY7 ATG2B Autophagy-related protein 2 homolog B 1 0 S(0.185)VS(0.812)VDES(0.004)RPELIFR;S(0.058)VS(0.94)VDES(0.002)RPELIFR ; 81.526 0.009457 26635000 2007.22 2599.1 2333.1 2214.8 3090 3943.7 3359 2144.1 2375.5 2498 TRUE FALSE FALSE 2218.348609 2683.312545 2651.042718 2257.670657 2853.244868 3607.674573 2981.03648 2089.257027 2358.968702 2605.701005 0.851344266 1.029785282 1.017400965 0.866435041 1.09500087 1.38453129 1.144043954 0.801802288 0.905310585 1 11.34745583 -5.646549352 6.32035521 0.940114686 1.13325195 0.227623807 0.143362841 0.214578223 11.11118228 0.021077638 0.042411316 2.26E-06 5.646549352 0.193137265 SVS(ph)VDIR ddPTM_HeLa_SAHA_4h_R1 2 SVSVDIR 7 0 Q6UB99 Q6UB99 ANKRD11 Ankyrin repeat domain-containing protein 11 1 0 S(0.012)VS(0.988)VDIR;SVS(1)VDIR ; 124.08 0.0028297 42622000 21927 26024 19712.2 15111 24042 30414 29477 19660.7 16384.9 23636 TRUE FALSE FALSE 24233.38246 26867.19467 22398.47596 15403.49526 22199.90715 27822.5561 26160.17038 19157.80776 16270.87615 24655.06363 0.982896772 1.089723193 0.908473663 0.624759907 0.900419787 1.128472289 1.061046557 0.777033394 0.659940546 1 14.58959636 -6.587787388 21.65591693 0.999036671 0.904918399 0 0.171081147 33.4974585 11174.79835 0.021872008 0.030931703 2.58E-07 6.587787388 -0.094118272 SVS(ph)VDSGEQR ddPTM_HeLa_SAHA_4h_R1 1 SVSVDSGEQR 10 0 Q86UU0-3;Q86UU0-4;Q86UU0-2;Q86UU0;A0A087WZX0 Q86UU0-3 BCL9L B-cell CLL/lymphoma 9-like protein 1 0 S(0.012)VS(0.971)VDS(0.017)GEQR 132.56 0.0014761 8277400 907.48 1006.6 923.33 776.41 1026.6 1566.7 1427.4 1446.3 922.22 881.35 TRUE FALSE FALSE 1002.93291 1039.2145 1049.156604 791.4385383 947.9421298 1433.208346 1266.785195 1409.30574 915.8021959 919.3493117 1.09091604 1.130380463 1.141194746 0.860868147 1.031101147 1.558937748 1.377914987 1.532938266 0.996141711 1 9.844469315 -5.266901415 24.9945572 1.043453177 1.478728808 0.84962354 0.087472564 119.9862235 549064.1896 0.012503627 0.028730481 5.41E-06 5.266901415 0.43527563 SVS(ph)VVTGSEQK ddPTM_HeLa_SAHA_4h_R1 1 SVSVVTGSEQK 11 0 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 S(0.155)VS(0.844)VVT(0.001)GSEQK 110.8 0.0039697 7926300 3351 3893.1 4258.4 2028.3 3918.2 5164.8 4206.2 2138.3 2292.2 3729.6 TRUE FALSE FALSE 3703.473555 4019.238994 4838.712575 2067.560679 3617.988362 4724.729984 3732.907306 2083.605382 2276.248394 3890.401308 0.95195155 1.033116811 1.24375667 0.531451775 0.929978189 1.214458255 0.959517286 0.535575951 0.585093468 1 11.92570327 -6.291431009 24.99226851 0.999974177 0.867605206 0.046539912 0.243073741 1336.972771 1114107.296 0.031196093 0.047656323 5.11E-07 6.291431009 -0.132368971 SVS(ph)VVTGSEQKR ddPTM_HeLa_SAHA_4h_R1 1 SVSVVTGSEQKR 12 1 I3L2J8;Q9UPN4-3;Q9UPN4-2;Q9UPN4 I3L2J8 CEP131 Centrosomal protein of 131 kDa 1 0 S(0.08)VS(0.92)VVTGSEQKR 113.53 0.0012598 16137000 1429.5 2069.8 1607.3 890.41 1614.6 2312.7 2116.9 939.46 782.96 1655.3 TRUE FALSE FALSE 1579.861369 2136.862878 1826.334474 907.6451731 1490.889697 2115.644949 1878.700841 915.4299735 777.5113176 1726.668084 0.914976876 1.237564358 1.0577218 0.525662796 0.863448923 1.225275992 1.088049787 0.530171364 0.45029576 1 10.75377507 SVSEINS(ph)DDELSGK ddPTM_HeLa_SAHA_4h_R1 1 SVSEINSDDELSGK 14 0 F8WF45;A0A2R8Y7M0;P82094;P82094-2 F8WF45 TMF1 TATA element modulatory factor 1 0 SVSEINS(0.535)DDELS(0.465)GK 101.01 0.0044393 3655700 633.04 445.38 426.4 501.69 438.48 945.97 626.66 1052.7 1007.1 797.93 TRUE FALSE FALSE 699.6260517 459.8106042 484.5075714 511.4009354 404.8837571 865.3680341 556.1465675 1025.773458 1000.091509 832.3326673 0.840560607 0.55243609 0.582108081 0.614418916 0.486444631 1.0396901 0.668178229 1.232408025 1.201552634 1 9.701016451 -4.247037291 23.42953008 0.820583618 1.232408718 0.241755474 0.230627022 1240.865146 2018574.196 0.031431942 0.832597252 5.66E-05 4.247037291 0.4118251 SVSENS(ph)LVAMDFSGQTGR ddPTM_HeLa_SAHA_4h_R1 2 SVSENSLVAMDFSGQTGR 18 0 A0A2R8YCL1;Q13322-3;Q13322-2;Q13322-4;Q13322 A0A2R8YCL1 GRB10 Growth factor receptor-bound protein 10 1 0 SVS(0.029)ENS(0.97)LVAMDFSGQTGR;S(0.004)VS(0.103)ENS(0.893)LVAMDFSGQTGR ; 216.53 9.70E-22 22032500 1857.47 2132.83 1944.02 1926.98 2346 2222.26 1868.76 1928.16 2040.54 2059.42 TRUE FALSE FALSE 2052.847217 2201.935091 2208.940922 1964.279484 2166.249987 2032.910946 1658.482206 1878.840459 2026.339716 2148.211675 0.955607513 1.025008437 1.028269675 0.914378926 1.008396897 0.94632711 0.772029231 0.874606763 0.94326818 1 11.06892044 -4.892090593 5.350931777 0.982435182 0.824930697 0.693694469 0.041518384 0.0732678 3.154085064 0.005311545 0.016609774 1.28E-05 4.892090593 -0.157504485 SVSGS(ph)PEPAAK ddPTM_HeLa_SAHA_4h_R1 4 SVSGSPEPAAK 11 0 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 S(0.001)VS(0.105)GS(0.893)PEPAAK;S(0.029)VS(0.029)GS(0.942)PEPAAK;S(0.074)VS(0.056)GS(0.87)PEPAAK;S(0.012)VS(0.076)GS(0.912)PEPAAK ;;; 186.17 1.24E-06 186935000 23136.3 23547.1 19021.3 23580.8 22223.7 27769.5 25957.2 22779.9 27965.6 24301 TRUE FALSE FALSE 25569.88219 24310.04149 21613.42371 24037.24048 20520.92491 25403.38237 23036.42754 22197.22314 27770.98511 25348.73504 1.008724189 0.959023851 0.852643087 0.948261933 0.809544337 1.002155821 0.908780162 0.8756738 1.09555704 1 14.62962613 -6.994068467 4.939855411 1.003439761 0.902541536 0.509058401 0.057014482 0.108871812 7.531158151 0.007380746 0.009514525 1.01E-07 6.994068467 -0.100898226 SVSGS(ph)PESDELQELR ddPTM_HeLa_SAHA_4h_R1 1 SVSGSPESDELQELR 15 0 Q7Z2Z1-2;Q7Z2Z1 Q7Z2Z1-2 TICRR Treslin 1 0 S(0.003)VS(0.316)GS(0.658)PES(0.023)DELQELR 175.27 4.88E-07 4366600 602.87 590.94 314.61 423.92 584.16 504.92 670.9 710.46 535.79 579.32 TRUE FALSE FALSE 666.2826327 610.0868437 357.4834124 432.1255846 539.401787 461.8979754 595.4085663 692.2874619 532.0613938 604.2973203 1.102574197 1.009580588 0.591568753 0.715087706 0.892609927 0.764355492 0.98529076 1.145607367 0.880462937 1 9.239114734 -6.974866479 24.92959634 1.048839945 0.843418842 0.159700961 0.152851953 205.2519033 203586.0103 0.02411477 0.031692338 1.06E-07 6.974866479 -0.205421103 SVSLT(ph)IY ddPTM_HeLa_SAHA_4h_R1 1 SVSLTIY 7 0 P30291;P30291-2 P30291 WEE1 Wee1-like protein kinase 1 0 SVS(0.001)LT(0.86)IY(0.139) 107.43 0.0050304 3522500 3860.6 5744.7 4783.7 3242.1 4624.6 5378.9 5000.6 3744 4084.6 5313.4 TRUE FALSE FALSE 4266.675621 5930.832049 5435.597724 3304.855534 4270.264147 4920.587459 4437.919327 3648.233901 4056.174936 5542.486677 0.769812517 1.070066992 0.980714621 0.596276676 0.770459975 0.887794188 0.800709065 0.658230522 0.731833051 1 12.43631768 -6.284278922 24.93724521 0.910887207 0.755520779 0.324651904 0.120292619 792.9493956 865776.1654 0.019386033 0.029625288 5.20E-07 6.284278922 -0.155366428 SVSLTIY(ph) ddPTM_HeLa_SAHA_4h_R1 1 SVSLTIY 7 0 P30291;P30291-2 P30291 WEE1 Wee1-like protein kinase 1 0 SVS(0.012)LT(0.397)IY(0.591) 91.093 0.0089644 8892100 5088.6 6256 5673.3 4051.8 5038.9 6604.7 5775.9 4885 4695.8 6587.1 TRUE FALSE FALSE 5623.842295 6458.698505 6446.427779 4130.228448 4652.820571 6041.942403 5125.980531 4760.048773 4663.121545 6871.102117 0.818477473 0.939979991 0.938194145 0.601101305 0.677157826 0.879326533 0.746020135 0.692763503 0.678656999 1 12.74632581 -6.283075773 24.9070124 0.916070391 0.727311796 0.307292632 0.108208777 487.6450227 561357.6046 0.014526492 0.022202092 5.21E-07 6.283075773 -0.188758595 SVSMLSLNT(ph)PNSNR ddPTM_HeLa_SAHA_4h_R1 2 SVSMLSLNTPNSNR 14 0 Q9H8V3-2;Q9H8V3-4;Q9H8V3;Q9H8V3-3;H7C3G1 Q9H8V3-2 ECT2 Protein ECT2 1 0 SVSMLSLNT(0.994)PNS(0.006)NR;SVSMLSLNT(1)PNSNR ; 198.81 1.13E-11 8761900 1797.27 1803.51 1644.48 1663.83 1860.8 2137.37 2117.85 2273.93 2127.91 1674.8 TRUE FALSE FALSE 1986.315105 1861.944907 1868.58117 1696.035836 1718.225906 1955.254051 1879.543944 2215.766163 2113.101701 1747.008824 1.136980579 1.065790213 1.069588856 0.970822707 0.983524457 1.119201016 1.075864024 1.268319961 1.209554109 1 10.77067118 -1.00000004 0.009431747 6.24E-10 2.302135134 0 0.094163259 22987.64765 16.92979226 1798.380266 2371.509584 0.099999991 1.00000004 2.302135134 SVSPTTEMVSNES(ph)VDYR ddPTM_HeLa_SAHA_4h_R1 1 SVSPTTEMVSNESVDYR 17 0 P08581;P08581-2 P08581 MET Hepatocyte growth factor receptor 1 0 SVSPTTEMVS(0.076)NES(0.922)VDY(0.001)R 109.04 0.0016612 2496500 266.34 333.8 317.64 395.23 545.36 507.54 568.08 301.35 500.54 597.93 TRUE FALSE FALSE 294.3548632 344.615339 360.926325 402.8802482 503.5746346 464.2947367 504.1581433 293.6419033 497.0567014 623.7096885 0.471942105 0.55252523 0.578676797 0.645941943 0.807386263 0.744408409 0.808321808 0.470799009 0.796935995 1 9.284730859 -9.476943877 1.227865752 0.999201598 0.627868054 0.36158564 0.130572141 0.290814533 0.787108545 0.090108744 0.022303337 3.33E-10 9.476943877 -0.371333544 SVSS(ph)PTSSNTPTPTK ddPTM_HeLa_SAHA_4h_R1 2 SVSSPTSSNTPTPTK 15 0 Q5M775-4;Q5M775;Q5M775-5;Q5M775-3;Q5M775-2 Q5M775-4 SPECC1 Cytospin-B 1 0 SVS(0.014)S(0.905)PT(0.078)S(0.002)S(0.001)NTPTPTK;SVS(0.016)S(0.983)PT(0.001)SSNTPTPTK ; 187.16 1.49E-25 8146600 1577.63 1828.63 1613.07 1299.46 1746.91 2082.5 1847.38 1845.57 1732.63 1638.66 TRUE FALSE FALSE 1743.572362 1887.878812 1832.890779 1324.612927 1613.062133 1905.059284 1639.50794 1798.362992 1720.572487 1709.310652 1.020044168 1.104467938 1.072298226 0.774939842 0.943691617 1.11451905 0.959163238 1.052098394 1.006588524 1 10.7391989 SVSS(ph)SSYR ddPTM_HeLa_SAHA_4h_R1 2 SVSSSSYR 8 0 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 SVS(0.123)S(0.752)S(0.123)S(0.002)YR;SVS(0.077)S(0.458)S(0.458)S(0.007)YR ; 101.46 0.010058 69114000 5030.3 4703 3047.2 6117.2 6438.7 6440.2 6140.7 5806.6 7326.2 4111.8 TRUE FALSE FALSE 5559.410034 4855.380286 3462.456547 6235.607252 5945.368197 5891.458728 5449.732275 5658.07558 7275.216378 4289.079821 1.296177797 1.132033091 0.807272583 1.453833342 1.386164036 1.373595031 1.270606401 1.319181693 1.696218462 1 12.06645245 -6.2080962 24.99998615 1.12002556 1.357805972 0.098325203 0.222432738 271.9544974 127454.9748 0.023004113 0.038147989 6.19E-07 6.2080962 0.237780412 SVSS(ph)YGNIR ddPTM_HeLa_SAHA_4h_R1 2 SVSSYGNIR 9 0 Q8N122;Q8N122-3 Q8N122 RPTOR Regulatory-associated protein of mTOR 1 0 S(0.001)VS(0.045)S(0.955)YGNIR;SVS(0.031)S(0.969)YGNIR ; 147.3 0.00055372 72608000 5056.6 4793.3 4090.6 6642 6567.7 6785.1 6405.8 6611.2 5375.6 5179.2 TRUE FALSE FALSE 5588.476389 4948.606065 4648.045665 6770.565514 6064.484245 6206.971308 5685.002525 6442.095077 5338.190762 5402.500658 1.034424009 0.915984352 0.860350782 1.253228078 1.12253281 1.14890709 1.052290945 1.192428374 0.988096272 1 12.39941163 -6.254467569 24.99852557 0.996923225 1.146216258 0.636546511 0.070479817 355.5105242 1274737.534 0.010998876 0.017972925 5.57E-07 6.254467569 0.149293033 SVSSNVAS(ph)VSPIPAGSK ddPTM_HeLa_SAHA_4h_R1 1 SVSSNVASVSPIPAGSK 17 0 Q9Y6G9;E9PHI6 Q9Y6G9 DYNC1LI1 Cytoplasmic dynein 1 light intermediate chain 1 1 0 S(0.003)VS(0.296)S(0.065)NVAS(0.636)VS(0.001)PIPAGSK 173.09 6.76E-09 10754000 3998.3 5538.9 4075.6 2004 5211.1 5714.1 5629 2296.9 2372.1 5106.7 TRUE FALSE FALSE 4418.859539 5718.363994 4631.001543 2042.790318 4811.826644 5227.226533 4995.610105 2238.148624 2355.592363 5326.874829 0.829540712 1.073493217 0.869365565 0.383487576 0.903311378 0.981293291 0.937812557 0.42016167 0.44220907 1 12.37907367 -6.510964872 24.89502416 0.930835038 0.747673497 0 0.250798849 777.7773325 1625231.013 0.030801252 0.045503039 3.08E-07 6.510964872 -0.183161541 SVSSNVASVS(ph)PIPAGSK ddPTM_HeLa_SAHA_4h_R1 3 SVSSNVASVSPIPAGSK 17 0 Q9Y6G9;E9PHI6 Q9Y6G9 DYNC1LI1 Cytoplasmic dynein 1 light intermediate chain 1 1 0 SVSSNVAS(0.008)VS(0.991)PIPAGS(0.001)K;SVSSNVAS(0.003)VS(0.997)PIPAGSK;SVSSNVAS(0.009)VS(0.99)PIPAGS(0.001)K ;; 262.37 1.54E-47 54899000 8071.8 7550.7 6787.2 7314.7 9091.1 9002.5 8403.5 7466.6 8239 7683.4 TRUE FALSE FALSE 8920.828959 7795.347634 7712.12427 7456.286596 8394.541882 8235.436353 7457.916063 7275.615184 8181.664128 8014.668976 1.113062684 0.972635009 0.962251129 0.930329951 1.047397205 1.027545414 0.930533262 0.907787359 1.020836188 1 12.96842722 -7.181860868 10.67712358 1.0533792 0.970444219 0.333962522 0.048838196 0.590923035 77.4120773 0.009751076 0.011945245 6.58E-08 7.181860868 -0.082934981 SVSSNVASVSPIPAGS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 SVSSNVASVSPIPAGSK 17 0 Q9Y6G9;E9PHI6 Q9Y6G9 DYNC1LI1 Cytoplasmic dynein 1 light intermediate chain 1 1 0 SVSSNVASVS(0.003)PIPAGS(0.997)K 190.18 5.60E-12 37188000 6339 5675.3 5296.9 6315.8 6590.7 7178.6 6902.3 5989.3 7128.1 6076.4 TRUE FALSE FALSE 7005.765104 5859.183444 6018.733947 6438.051442 6085.72199 6566.942894 6125.635038 5836.102378 7078.494972 6338.383341 1.105292111 0.924397142 0.949569255 1.01572453 0.960137887 1.036059598 0.966434926 0.920755667 1.116766625 1 12.6298992 -7.257481084 24.99498066 1.049721275 0.97104474 0.504025101 0.046459679 282.398118 1783222.848 0.008499523 0.010204466 5.53E-08 7.257481084 -0.078676535 SVSSS(ph)SYR ddPTM_HeLa_SAHA_4h_R1 1 SVSSSSYR 8 0 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 SVS(0.075)S(0.075)S(0.845)S(0.005)YR 192.91 6.56E-09 4886400 5078.4 5849.9 4202.3 6363 6774.1 7962.3 7103.2 6862.9 6798.7 5618.1 TRUE FALSE FALSE 5612.569413 6039.440598 4774.967559 6486.165066 6255.069921 7283.867245 6303.929241 6687.356955 6751.387293 5860.323785 0.957723433 1.03056432 0.81479586 1.106792953 1.0673591 1.242912083 1.075696407 1.141124143 1.152050218 1 12.51676466 -6.031186071 24.69058198 0.972331629 1.129627265 0.355466999 0.090131994 302.6701064 239629.1392 0.009798628 0.016261718 9.31E-07 6.031186071 0.157295637 SVSSS(ph)SYRR ddPTM_HeLa_SAHA_4h_R1 7 SVSSSSYRR 9 1 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 SVSS(0.001)S(0.546)S(0.453)YRR;SVSS(0.002)S(0.602)S(0.396)YRR;SVS(0.001)S(0.014)S(0.492)S(0.492)YRR;SVSS(0.002)S(0.499)S(0.499)YRR;SVS(0.001)S(0.125)S(0.749)S(0.125)YRR;SVS(0.002)S(0.091)S(0.454)S(0.454)YRR;SVSS(0.001)S(0.595)S(0.404)YRR ;;;;;; 109.83 0.0064197 253538900 9650.76 8273.41 7866.53 11379.96 12426.2 12819.06 13245.21 13318.57 7906.11 11712.81 TRUE FALSE FALSE 10665.87122 8541.473912 8938.539741 11600.23558 11474.10724 11726.80397 11754.82411 12977.90026 7851.090737 12217.80656 0.872977581 0.699100438 0.731599383 0.949453204 0.939129883 0.959812542 0.962105927 1.062211961 0.642594127 1 13.57669768 -4.260043282 1.008282974 0.90473772 1.134147642 0.140358765 0.124446216 2.889419682 2.242884857 0.017306335 0.715751383 5.49E-05 4.260043282 0.229409922 SVSSSS(ph)YRR ddPTM_HeLa_SAHA_4h_R1 1 SVSSSSYRR 9 1 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 SVSS(0.001)S(0.149)S(0.85)YRR 78.513 0.015117 9652800 1375.5 906.8 1181.5 1494.8 1523.6 1508.9 1761.2 1753.5 795.19 1386 TRUE FALSE FALSE 1520.181401 936.180915 1342.508667 1523.734016 1406.862097 1380.333231 1563.025141 1708.648009 789.656208 1445.757243 1.051477631 0.647536728 0.928585123 1.0539349 0.973097042 0.954747582 1.081111748 1.181836036 0.546188658 1 10.49760961 -4.491628221 3.003925905 0.985868746 1.179066961 0.078855938 0.179410569 0.340093972 5.558287016 0.016777319 0.119188633 3.22E-05 4.491628221 0.193198215 SVSSVLSSLT(ph)PAK ddPTM_HeLa_SAHA_4h_R1 2 SVSSVLSSLTPAK 13 0 H0Y4T7;E7ESY4;Q13330-3;Q13330;F8W9Y9 H0Y4T7 MTA1 Metastasis-associated protein MTA1 1 0 SVSSVLS(0.001)S(0.005)LT(0.994)PAK;SVSSVLS(0.019)S(0.078)LT(0.903)PAK ; 125.47 0.0016272 10145400 3096.7 2722.5 2434.9 3016.7 2746.6 2940 2625.7 2875 3174.9 2281.34 TRUE FALSE FALSE 3422.425114 2810.710786 2766.715492 3075.092591 2536.156101 2689.49546 2330.249326 2801.461663 3152.805612 2379.699732 1.43817519 1.181119932 1.162632182 1.292218741 1.065746265 1.130182697 0.979219897 1.177233256 1.324875391 1 11.21656383 -5.742459351 24.88079017 1.21122538 1.083324883 0.252077457 0.118755034 402.1575771 527182.7709 0.024288951 0.048515059 1.81E-06 5.742459351 -0.127900497 SVST(ph)PSEAGSQDSGDGAVGSR ddPTM_HeLa_SAHA_4h_R1 2 SVSTPSEAGSQDSGDGAVGSR 21 0 E7EQL5;Q13409-2;Q13409-3;Q13409-6;E9PGG1;E7EQU2;E7EV09;E7ETL8;Q13409;Q13409-7;Q13409-5;E7ERH4;E7ERR6;E7EMU4;E7ESD3;E7EUM4;E7ET01 E7EQL5 DYNC1I2 Cytoplasmic dynein 1 intermediate chain 2 1 0 S(0.002)VS(0.031)T(0.559)PS(0.408)EAGSQDSGDGAVGSR;SVS(0.018)T(0.796)PS(0.186)EAGSQDSGDGAVGSR ; 242.59 1.17E-42 11756900 1427.41 1368.6 1573.31 1433.95 1995.77 1821.84 1708.02 1614.2 1771.52 1480.71 TRUE FALSE FALSE 1577.551533 1412.943538 1787.712493 1461.706176 1842.854534 1666.608983 1515.829094 1572.911101 1759.191848 1544.550655 1.021366006 0.914792619 1.157432091 0.946363379 1.193133115 1.079025138 0.981404585 1.018361617 1.138966756 1 10.59297147 -6.766762111 24.9951974 1.00322416 1.060322087 0.045965899 0.086590936 207.7293784 975485.085 0.011374526 0.015195092 1.71E-07 6.766762111 0.057097926 SVST(ph)TNIAGHFNDESPLGLR ddPTM_HeLa_SAHA_4h_R1 1 SVSTTNIAGHFNDESPLGLR 20 0 V9GYM8;A0A5F9ZI21;Q92974-3;Q92974-2;Q92974;V9GYF5;V9GYG5;V9GZ14 V9GYM8 ARHGEF2 Rho guanine nucleotide exchange factor 2 1 0 S(0.01)VS(0.144)T(0.84)T(0.006)NIAGHFNDESPLGLR 154.92 1.44E-05 31763000 1180.3 1429.2 696.09 1252.5 1583.1 1186 1600.4 2513 1582 1179 TRUE FALSE FALSE 1304.449369 1475.507018 790.9495201 1276.743949 1461.80322 1084.946128 1420.31878 2448.721099 1570.990733 1229.83246 1.060672418 1.199762623 0.643135993 1.038144617 1.188619806 0.882190187 1.154888024 1.991101372 1.277402235 1 10.26424608 -4.270927255 3.568117524 1.017880383 2.094853196 0.734291153 0.170875482 0.083788699 1.899819962 0.0192888 0.237596117 5.36E-05 4.270927255 1.076972812 SVSTPSEAGSQDS(ph)GDGAVGSR ddPTM_HeLa_SAHA_4h_R1 1 SVSTPSEAGSQDSGDGAVGSR 21 0 E7EQL5;Q13409-2;Q13409-3;Q13409-6;E9PGG1;E7EQU2;E7EV09;E7ETL8;Q13409;Q13409-7;Q13409-5;E7ERH4;E7ERR6;E7EMU4;E7ESD3;E7EUM4;E7ET01 E7EQL5 DYNC1I2 Cytoplasmic dynein 1 intermediate chain 2 1 0 SVST(0.01)PS(0.174)EAGS(0.052)QDS(0.764)GDGAVGSR 255.69 2.53E-53 9810000 409.55 555.92 604.19 590.32 629.46 612.22 556.03 735.9 371.46 528.48 TRUE FALSE FALSE 452.6283481 573.9321728 686.5258667 601.7464972 581.2309108 560.0554117 493.464041 717.0767436 368.8749796 551.2653591 0.821071632 1.041117791 1.245363699 1.091573209 1.054357763 1.015945229 0.895147923 1.300783247 0.669142317 1 9.106603137 -7.049513355 8.724803738 0.916174355 1.089650278 0.394712175 0.137999802 0.354339787 59.71590755 0.020039468 0.02463924 8.92E-08 7.049513355 0.173475923 SVSTTNIAGHFNDES(ph)PLGLR ddPTM_HeLa_SAHA_4h_R1 2 SVSTTNIAGHFNDESPLGLR 20 0 V9GYM8;A0A5F9ZI21;Q92974-3;Q92974-2;Q92974;V9GYF5;V9GYG5;V9GZ14 V9GYM8 ARHGEF2 Rho guanine nucleotide exchange factor 2 1 0 SVSTTNIAGHFNDES(1)PLGLR;SVSTTNIAGHFNDES(1)PLGLR ; 131.94 2.86E-05 13518000 645.37 1039.67 578.744 909.091 1268.94 1208.17 866.94 1080.1 1021.8 1034.86 TRUE FALSE FALSE 713.2529777 1073.35599 657.6122184 926.6877709 1171.714091 1105.227119 769.3896295 1052.472606 1014.689211 1079.477879 0.660738855 0.994328843 0.609194714 0.85845925 1.085445208 1.023853421 0.712742377 0.974983023 0.939981476 1 10.07611796 -5.981082217 24.46578901 0.829692439 0.941973291 0.103461256 0.150453662 381.9741253 493991.7981 0.025162484 0.045605399 1.04E-06 5.981082217 0.112280852 SVT(ph)PASTLTK ddPTM_HeLa_SAHA_4h_R1 1 SVTPASTLTK 10 0 A8MQ02;J3KN01;P55196-6;P55196-3;P55196;P55196-5;Q5TIG5;P55196-2;P55196-1 A8MQ02 MLLT4 Afadin 1 0 SVT(0.791)PAS(0.01)T(0.182)LT(0.016)K 102.4 0.014983 3727200 2070.8 2587.4 2217.8 2321.1 2553.3 2563.8 2796.8 2367.7 2640.9 2597.4 TRUE FALSE FALSE 2288.616245 2671.233458 2520.030234 2366.028247 2357.666706 2345.349816 2482.096703 2307.137662 2622.521762 2709.386625 0.844699027 0.985918153 0.930110974 0.873270808 0.87018467 0.865638663 0.916110193 0.851535045 0.967939288 1 11.40375056 -9.493347492 1.139453065 1.00230717 0.889710608 0.434927361 0.041340108 0.356269114 0.799636326 0.032874029 0.007346659 3.21E-10 9.493347492 -0.112596562 SVTEQGAELSNEER ddPTM_HeLa_SAHA_4h_R1 8 SVTEQGAELSNEER 14 0 E7EX29;P63104;E7ESK7;E5RIR4;E9PD24;E7EVZ2;E5RGE1 E7EX29 YWHAZ 14-3-3 protein zeta/delta 0 0 ;;;;;;; ;;;;;;; 274.59 3.71E-85 250856000 4020.55 4118.34 3892.52 4603.69 4435.91 4963.11 4783.17 4816.63 4290.09 4287.03 FALSE FALSE TRUE 4443.449896 4251.776918 4422.972354 4692.801077 4096.031534 4540.225106 4244.955123 4693.427579 4260.234914 4471.864844 0.993645839 0.95078386 0.989066644 1.049405839 0.915956022 1.015286746 0.949258368 1.049545937 0.95267524 1 12.12666087 -7.507016719 19.16642434 0.997196945 0.986475565 0 0.042891668 36.75128145 44416.4736 0.006444576 0.006909939 3.11E-08 7.507016719 -0.01072138 SVTLLIK ddPTM_HeLa_SAHA_4h_R1 1 SVTLLIK 7 0 P40227;P40227-2 P40227 CCT6A T-complex protein 1 subunit zeta 0 0 102.77 0.020558 12831000 1828.4 2442.3 2835 2845.7 2872.9 2311.1 3318.8 1947.1 2158.6 2294 FALSE FALSE TRUE 2020.719501 2521.432122 3221.339036 2900.782638 2652.779023 2114.181278 2945.359889 1897.296001 2143.578127 2392.905567 0.844462702 1.053711504 1.346203996 1.212242839 1.108601635 0.883520565 1.230871761 0.792883776 0.895805567 1 11.22454775 -7.015991972 23.57475283 0.927737876 1.106588554 0.210589816 0.156644506 383.9805687 566050.0465 0.025891211 0.032234836 9.64E-08 7.015991972 0.178850678 SVTPSEGAGRRS(ph)PARPATER ddPTM_HeLa_SAHA_4h_R1 1 SVTPSEGAGRRSPARPATER 20 3 Q9BR39 Q9BR39 JPH2 Junctophilin-2 1 0 S(0.001)VT(0.008)PS(0.181)EGAGRRS(0.709)PARPAT(0.101)ER 48.314 0.017154 1900700 0 0 72.993 0 144.66 217.46 213.95 59.847 0 0 TRUE FALSE FALSE 0 0 82.94010591 0 133.5761821 198.9311846 189.8757829 58.3162004 0 0 0 SVTVVEDDEDEDGDDLLHHHHVSGSR ddPTM_HeLa_SAHA_4h_R1 2 SVTVVEDDEDEDGDDLLHHHHVSGSR 26 0 P02545-2;Q3BDU5;Q5TCI8 P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 126.9 4.37E-08 17741700 2389.57 2429.1 1776.34 3170.1 4075.9 3173.3 3575.6 3419.5 3849.2 4087.4 FALSE FALSE TRUE 2640.915936 2507.804434 2018.410364 3231.46187 3763.605423 2902.916988 3173.264078 3332.034141 3822.413104 4263.627817 0.619405832 0.588185588 0.4734021 0.757913685 0.882723724 0.680856095 0.744263855 0.781502111 0.896516598 1 12.05786579 -9.301326306 1.039716627 0.999017362 0.687262556 0.451473714 0.111495686 0.347531502 0.676063813 0.078563794 0.021279437 5.00E-10 9.301326306 -0.311754805 SVVS(ph)DLEADDVK ddPTM_HeLa_SAHA_4h_R1 4 SVVSDLEADDVK 12 0 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 1 0 SVVS(1)DLEADDVK;SVVS(1)DLEADDVK;SVVS(1)DLEADDVK;SVVS(1)DLEADDVK ;;; 208.51 6.60E-11 88452800 8158.6 7103.6 4523.74 5366.9 7792.7 9875.1 6841.4 7704.4 7405.2 6417.4 TRUE FALSE FALSE 9016.758981 7333.761301 5140.211729 5470.78411 7195.62501 9033.685924 6071.587666 7507.332604 7353.66661 6694.08552 1.346973975 1.095558352 0.767873627 0.817256382 1.074922779 1.349502616 0.907007783 1.121487406 1.098531919 1 12.70867127 -6.995895976 24.97597854 1.166870794 1.005261394 0.119062397 0.174117501 194.9797006 1186582.403 0.03287348 0.043101775 1.01E-07 6.995895976 -0.1616094 SVVS(ph)DLEADDVKGSVPLS(ph)SSPPATHFPDETEITNPVPK ddPTM_HeLa_SAHA_4h_R1 1 SVVSDLEADDVKGSVPLSSSPPATHFPDETEITNPVPK 38 1 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 2 0 S(0.063)VVS(0.753)DLEADDVKGS(0.075)VPLS(0.3)S(0.281)S(0.264)PPAT(0.219)HFPDET(0.032)EIT(0.013)NPVPK 44.897 0.010819 33311000 2359.6 1498.6 1143.3 1545.5 1594 1891 2002 2065.3 1026.2 1505.6 TRUE FALSE FALSE 2607.793554 1547.155623 1299.10297 1575.415387 1471.868064 1729.876162 1776.729691 2012.472617 1019.058591 1570.513784 1.660471612 0.985127058 0.827183424 1.003121019 0.937188886 1.101471492 1.131304742 1.281410349 0.648869562 1 10.61702089 SVVS(ph)FDK ddPTM_HeLa_SAHA_4h_R1 2 SVVSFDK 7 0 Q15424-2;Q15424;Q15424-4;Q15424-3 Q15424-2 SAFB Scaffold attachment factor B1 1 0 S(0.015)VVS(0.985)FDK;S(0.418)VVS(0.582)FDK ; 106.88 0.0097768 41508000 9780.1 12615.9 8434 12942 11634.5 16207.9 10849.6 10222.8 14019.6 11278.7 TRUE FALSE FALSE 10808.81579 13024.66344 9583.341598 13192.51112 10743.06712 14826.89574 9628.774453 9961.315578 13922.03646 11764.97995 0.918727939 1.107070602 0.81456506 1.121337323 0.913139433 1.260256779 0.818426762 0.8466921 1.183345532 1 13.52221124 SVVS(ph)FDKVK ddPTM_HeLa_SAHA_4h_R1 1 SVVSFDKVK 9 1 Q15424-2;Q15424;Q15424-4;Q15424-3 Q15424-2 SAFB Scaffold attachment factor B1 1 0 SVVS(1)FDKVK 96.113 0.0079804 13514000 5986.6 7538.9 5822.8 9093.6 7258 7624.9 7232.8 6136.3 6684.9 5798.3 TRUE FALSE FALSE 6616.298056 7783.165306 6616.30086 9269.619778 6701.893608 6975.215623 6418.946308 5979.342331 6638.379237 6048.293089 1.093911614 1.286836665 1.093912078 1.532600957 1.108063632 1.153253574 1.061282285 0.988599964 1.097562426 1 12.56231234 -7.81498782 1.563113349 1.027596145 1.177019117 0.09822893 0.144527125 0.442496072 2.252348893 0.03103903 0.02923713 1.53E-08 7.81498782 0.149422972 SVVSDLEADDVKGS(ph)VPLS(ph)SSPPATHFPDETEITNPVPK ddPTM_HeLa_SAHA_4h_R1 1 SVVSDLEADDVKGSVPLSSSPPATHFPDETEITNPVPK 38 1 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 2 0 S(0.073)VVS(0.204)DLEADDVKGS(0.412)VPLS(0.333)S(0.333)S(0.333)PPAT(0.132)HFPDET(0.13)EIT(0.051)NPVPK 41.27 0.017636 36288000 382.51 634 480.14 183.97 499.05 559.41 440.02 467.07 248.46 227.96 TRUE FALSE FALSE 422.7441568 654.542016 545.5709787 187.5310054 460.8128968 511.7451208 390.5077915 455.1230257 246.7309466 237.7884712 1.777816034 2.752623004 2.294354205 0.788646331 1.937911012 2.152102321 1.642248632 1.913982723 1.03760685 1 7.89353496 SVVSDLEADDVKGSVPLS(ph)SSPPATHFPDETEITNPVPK ddPTM_HeLa_SAHA_4h_R1 1 SVVSDLEADDVKGSVPLSSSPPATHFPDETEITNPVPK 38 1 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 1 0 SVVSDLEADDVKGSVPLS(0.309)S(0.309)S(0.309)PPAT(0.066)HFPDET(0.006)EIT(0.002)NPVPK 91.151 1.53E-12 60757000 3455.8 1929.1 1728.9 1749.5 2137.4 2545.3 3240.6 3699.7 1324.5 2387.6 TRUE FALSE FALSE 3819.2969 1991.604106 1964.505488 1783.364102 1973.632874 2328.426121 2875.959159 3605.067031 1315.282697 2490.541121 1.533520916 0.799667225 0.78878661 0.716054872 0.79245143 0.93490772 1.15475273 1.447503517 0.528111215 1 11.28224352 -7.243837493 24.71430485 1.251940445 0.934204834 0 0.329505398 836.3401292 1174282.172 0.048346468 0.059138634 5.70E-08 7.243837493 -0.317735611 SVVSDLEADDVKGSVPLSS(ph)SPPATHFPDETEITNPVPK ddPTM_HeLa_SAHA_4h_R1 1 SVVSDLEADDVKGSVPLSSSPPATHFPDETEITNPVPK 38 1 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 1 0 SVVSDLEADDVKGSVPLS(0.089)S(0.407)S(0.407)PPAT(0.089)HFPDET(0.002)EIT(0.006)NPVPK 86.771 2.52E-09 48464000 3146 1734.1 1227.6 1172.4 2009 2446.6 1731.2 2964.7 1267 1593.5 TRUE FALSE FALSE 3476.910714 1790.285978 1394.890935 1195.093497 1855.070854 2238.135916 1536.40082 2888.867267 1258.182844 1662.203583 2.091747815 1.07705578 0.839181764 0.718981423 1.116031076 1.34648724 0.924315671 1.737974395 0.756936669 1 10.69888138 SVVTSIFGVK ddPTM_HeLa_SAHA_4h_R1 2 SVVTSIFGVK 10 0 J3KR24;A0A0A0MSX9;P41252 J3KR24 IARS "Isoleucine--tRNA ligase, cytoplasmic" 0 0 ; ; 182.76 5.55E-17 1477770 1044.9 1270.34 1450.18 1435.75 1351.37 1326.19 1360.91 1108.27 1444.03 1299.13 FALSE FALSE TRUE 1154.807376 1311.49985 1647.802978 1463.541017 1247.828323 1213.191151 1207.776825 1079.922058 1433.980878 1355.141852 0.852167155 0.967795251 1.215963462 1.07999101 0.920810113 0.895250301 0.891254907 0.796907022 1.058177692 1 10.40422816 -4.643322056 1.398406481 0.963525566 0.795486174 0.255811424 0.101809994 0.980480863 2.694926013 0.017284314 0.189393643 2.27E-05 4.643322056 -0.168039392 SVWGSLAVQNS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 SVWGSLAVQNSPK 13 0 P18615;P18615-3;P18615-4 P18615 NELFE Negative elongation factor E 1 0 SVWGSLAVQNS(1)PK;SVWGSLAVQNS(1)PK;SVWGSLAVQNS(1)PK;SVWGSLAVQNS(1)PK ;;; 149.59 2.45E-07 30589500 7395.45 7101.5 6965.24 7880.73 7481.6 7693.02 8057.66 7332.56 7652.28 7802.73 TRUE FALSE FALSE 8173.337363 7331.593259 7914.426634 8033.272925 6908.361424 7037.531416 7150.99089 7145.003733 7599.02716 8139.143876 1.004201116 0.900781872 0.972390555 0.986992373 0.84878232 0.864652539 0.878592515 0.877856915 0.933639616 1 12.99066134 -6.127597083 0.657120528 1.002475113 0.858100659 0.455099794 0.042045428 0.333709564 0.272204301 0.007812448 0.022991329 7.45E-07 6.127597083 -0.144374454 SVWLHSCQR ddPTM_HeLa_SAHA_4h_R1 1 SVWLHSCQR 9 0 C9J366 C9J366 IQCJ-SCHIP1 0 0 98.582 0.012753 5859300 195.75 313.39 270.99 235.33 402.33 437.83 189.02 307.33 575.9 333.68 FALSE FALSE TRUE 216.3398831 323.5440416 307.9191059 239.8851524 371.5035623 400.5244208 167.7509721 299.4689436 571.892265 348.0665778 0.621547419 0.929546421 0.884655769 0.689193297 1.067334775 1.150712095 0.481950819 0.860378338 1.643054236 1 8.443219479 -4.73880216 24.99998812 0.85576635 0.671164898 0.009298814 0.305428706 398.7092655 440317.7543 0.027652541 0.103316218 1.82E-05 4.73880216 -0.184601452 SVYATMGDHENRS(ph)PVKEPVEQPR ddPTM_HeLa_SAHA_4h_R1 2 SVYATMGDHENRSPVKEPVEQPR 23 2 Q96T58 Q96T58 SPEN Msx2-interacting protein 1 0 SVY(0.004)AT(0.004)MGDHENRS(0.991)PVKEPVEQPR;S(0.001)VY(0.004)AT(0.006)MGDHENRS(0.989)PVKEPVEQPR ; 64.761 0.0015264 39734000 2926.1 3245.7 2952.9 3964.9 4041.5 4218.9 4141.5 4159.2 4363.4 3854.2 TRUE FALSE FALSE 3233.880623 3350.86281 3355.305834 4041.646373 3731.841143 3859.425985 3675.48752 4052.813686 4333.034744 4020.373424 0.804373197 0.83347054 0.834575668 1.005291287 0.928232467 0.959967042 0.914215455 1.008068967 1.077769224 1 11.97311379 -6.25491509 24.96474356 0.89355288 0.958318921 0.075972568 0.082366478 877.1339965 3356290.13 0.012673767 0.0207012 5.56E-07 6.25491509 0.064766041 SWDSS(ph)SPVDRPEPEAASPTTR ddPTM_HeLa_SAHA_4h_R1 1 SWDSSSPVDRPEPEAASPTTR 21 1 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 SWDS(0.11)S(0.445)S(0.445)PVDRPEPEAASPTTR 111.09 7.67E-05 102210000 807.5 942.78 1040.4 894.26 973.15 972.48 1027.3 1163.9 1187.3 926.54 TRUE FALSE FALSE 892.4365549 973.3266906 1182.180294 911.5696954 898.5874572 889.619233 911.7055003 1134.129123 1179.037483 966.4876738 0.923381207 1.007076155 1.22317162 0.943177777 0.929745388 0.920466196 0.943318291 1.173454307 1.219919834 1 9.916607523 -8.253159367 0.00510053 8.06E-08 1.961371003 0 0.129588088 35517.49371 86.28698388 16760.80753 16417.3546 5.58E-09 8.253159367 1.961370922 SWDSSS(ph)PVDRPEPEAAS(ph)PTTR ddPTM_HeLa_SAHA_4h_R1 1 SWDSSSPVDRPEPEAASPTTR 21 1 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 2 0 S(0.004)WDS(0.078)S(0.423)S(0.499)PVDRPEPEAAS(0.68)PT(0.251)T(0.065)R 91.655 0.0023383 21840000 2029.7 2143.2 1904.8 1998.1 2240.2 1886.9 2136.8 1601.2 2520.5 2174.2 TRUE FALSE FALSE 2243.193159 2212.641086 2164.376224 2036.776115 2068.55636 1726.125505 1896.36164 1560.243623 2502.959635 2267.940402 0.98908823 0.975616945 0.954335582 0.898073033 0.912085855 0.761098265 0.836160262 0.687956183 1.103626724 1 11.14716701 -4.806839006 0.480372007 1.000685506 0.605822385 0.840641774 0.046409808 0.538351636 0.115982554 0.006696922 0.108962202 1.56E-05 4.806839006 -0.394863121 SWDSSS(ph)PVDRPEPEAASPTTR ddPTM_HeLa_SAHA_4h_R1 1 SWDSSSPVDRPEPEAASPTTR 21 1 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 S(0.004)WDS(0.058)S(0.222)S(0.716)PVDRPEPEAAS(0.001)PTTR 71.872 0.0023072 100390000 591.61 692.88 694.65 762.24 822.78 779.06 891.04 721.17 896.88 796.3 TRUE FALSE FALSE 653.8382542 715.3297666 789.3132844 776.9942574 759.7387742 712.6797051 790.7778341 702.7235156 890.6385391 830.63239 0.787157185 0.86118694 0.950255846 0.935424945 0.914651034 0.857996526 0.95201902 0.84601025 1.072241523 1 9.69806632 -9.660180993 1.524012884 0.999641883 0.876369296 0.488989384 0.05635839 0.347487674 1.4589055 0.042621779 0.009706437 2.19E-10 9.660180993 -0.123272587 SWDSSSPVDRPEPEAAS(ph)PTTR ddPTM_HeLa_SAHA_4h_R1 1 SWDSSSPVDRPEPEAASPTTR 21 1 C9J0I9;Q86WB0-2;Q86WB0 C9J0I9 ZC3HC1 Nuclear-interacting partner of ALK 1 0 SWDS(0.001)S(0.002)S(0.002)PVDRPEPEAAS(0.446)PT(0.275)T(0.275)R 57.068 0.011566 4728000 498.16 307 313.84 274.62 337.03 414.9 369.94 354.71 487.01 456.32 TRUE FALSE FALSE 550.5587544 316.9470014 356.6084808 279.9356672 311.2068342 379.5481858 328.3133776 345.6370318 483.6208578 475.9941884 1.156650161 0.665863175 0.749186628 0.588107322 0.653803853 0.797379874 0.689742408 0.726137084 1.01602261 1 8.894800149 -7.256553502 24.98535212 1.073973689 0.695726187 0.861544877 0.066369478 108.6444942 555585.4608 0.01293269 0.015573135 5.54E-08 7.256553502 -0.378247502 SWEDS(ph)PER ddPTM_HeLa_SAHA_4h_R1 2 SWEDSPER 8 0 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1;B1AN86;A0A3B3IU26 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 S(0.026)WEDS(0.974)PER;S(0.047)WEDS(0.953)PER ; 119.53 0.0036657 75887000 6143.9 6504 4991.6 6840 7795.1 5680.9 7012.2 7263 7809.2 5953.1 TRUE FALSE FALSE 6790.143591 6714.733867 5671.829253 6972.398091 7197.841122 5196.85536 6223.168801 7077.222977 7754.855141 6209.767275 1.093461847 1.081318119 0.913372273 1.122811497 1.159116083 0.836884078 1.002158137 1.139692144 1.248815744 1 12.60032349 -5.305458583 24.99994952 1.050570535 0.993835125 0.067315862 0.112447808 954.2293945 541936.7946 0.013328605 0.029803802 4.95E-06 5.305458583 -0.05673541 SWEEQMIEVGR ddPTM_HeLa_SAHA_4h_R1 1 SWEEQMIEVGR 11 0 Q00059-2;Q00059 Q00059-2 TFAM "Transcription factor A, mitochondrial" 0 0 141.89 1.14E-06 0 574.2 618.01 487.64 556.26 706.25 1055.1 766.46 437.83 928.5 793.79 FALSE FALSE TRUE 634.5969905 638.0339295 554.0930397 567.0272167 652.1372776 965.1995442 680.2159036 426.6309426 922.0384929 828.0141716 0.766408369 0.77055919 0.669183039 0.684803758 0.787591928 1.165679981 0.821502731 0.515245943 1.113554 1 9.69351165 -9.149117296 0.863822061 1.002455302 0.781473033 0.314383902 0.16086668 0.803072405 1.064369418 0.113430559 0.031360071 7.09E-10 9.149117296 -0.220982269 SWSTATS(ph)PLGGERPFR ddPTM_HeLa_SAHA_4h_R1 2 SWSTATSPLGGERPFR 16 1 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-6;Q9UPQ0-9;D6RD46;D6RJ93;Q6NVB9 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 SWS(0.001)T(0.004)AT(0.056)S(0.94)PLGGERPFR;SWST(0.003)AT(0.006)S(0.991)PLGGERPFR ; 172.09 2.98E-08 76846000 3617.2 3564 3583.4 3490.5 4780.9 5598.6 4877.9 3962.7 4046.4 3976.7 TRUE FALSE FALSE 3997.673692 3679.475938 4071.72709 3558.063675 4414.588475 5121.567783 4329.025854 3861.339872 4018.240773 4148.154998 0.963723316 0.887015056 0.981575445 0.857746077 1.064229393 1.234661623 1.043602724 0.930857182 0.968681444 1 12.01825409 -5.553850033 24.88882469 0.96633188 1.080821561 0.336948542 0.081854499 172.5588456 138669.4935 0.011887753 0.0237757 2.79E-06 5.553850033 0.114489681 SWSYNGYYS(ph)DLSTAR ddPTM_HeLa_SAHA_4h_R1 2 SWSYNGYYSDLSTAR 15 0 A0A087WYW3;P30414 A0A087WYW3 NKTR NK-tumor recognition protein;Putative peptidyl-prolyl cis-trans isomerase 1 0 SWS(0.001)YNGYYS(0.918)DLS(0.041)T(0.041)AR;SWSYNGYYS(0.996)DLS(0.003)T(0.001)AR ; 93.738 0.0066323 7213800 1159.34 1367.31 1035.36 1178.02 1592.65 1972.5 2141.72 1389.04 1702.42 1220.86 TRUE FALSE FALSE 1281.2847 1411.611741 1176.453469 1200.822281 1470.621501 1804.431903 1900.728029 1353.510368 1690.572721 1273.497249 1.006115012 1.108452917 0.923797417 0.942932763 1.154789696 1.416910719 1.492526215 1.06282944 1.327504022 1 10.31458013 -5.503105859 4.067831443 1.002002255 1.337943252 0.36217269 0.152842626 0.093673998 3.510577406 0.015157227 0.033681883 3.14E-06 5.503105859 0.335940997 SWTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 SWTSPK 6 0 O75494-2;O75494 O75494-2 SRSF10 Serine/arginine-rich splicing factor 10 1 0 SWT(0.225)S(0.775)PK;SWTS(1)PK ; 124.08 0.0026538 21233600 11101 10816.1 9957.7 11226.2 11362.9 13541.8 11732.6 11208 12884.6 11325.8 TRUE FALSE FALSE 12268.65411 11166.54874 11314.6835 11443.49933 10492.27706 12387.96246 10412.41697 10921.31559 12794.93502 11814.11067 1.038474623 0.945187416 0.957726216 0.968629773 0.888113998 1.048573423 0.881354277 0.924429769 1.083021429 1 13.52822341 -7.251225613 23.8942077 1.018168572 0.945632391 0.423458364 0.049102051 291.2089204 681257.4541 0.00709579 0.008631038 5.61E-08 7.251225613 -0.072536181 SWVIGS(ph)PEILR ddPTM_HeLa_SAHA_4h_R1 3 SWVIGSPEILR 11 0 Q6P0Q8-2;Q6P0Q8;A0A669KBJ4;E7ERL6 Q6P0Q8-2 MAST2 Microtubule-associated serine/threonine-protein kinase 2 1 0 SWVIGS(1)PEILR;SWVIGS(1)PEILR;S(0.003)WVIGS(0.997)PEILR ;; 118.61 0.0023039 12077500 2057.64 2645.68 2378.21 2829.55 3084.24 3369.63 2479.54 2372.32 3048.19 2870.54 TRUE FALSE FALSE 2274.072016 2731.401768 2702.300074 2884.320032 2847.926198 3082.518567 2200.535633 2311.639489 3026.977398 2994.303027 0.759466225 0.912199514 0.902480493 0.96326925 0.951114891 1.029461126 0.73490746 0.772012541 1.010912179 1 11.54800452 -9.689858289 1.577328312 0.999747983 0.864960286 0.222440221 0.092100007 0.528104944 2.375090346 0.073004445 0.01632649 2.04E-10 9.689858289 -0.134787698 SYCAEIAHNVSSK ddPTM_HeLa_SAHA_4h_R1 1 SYCAEIAHNVSSK 13 0 D3YTB1;F8W727;P62910 D3YTB1 RPL32 60S ribosomal protein L32 0 0 82.774 0.014118 1819000 369.81 350.06 260.95 307.29 382.74 548.44 391.09 231.62 376.21 265.73 FALSE FALSE TRUE 408.7083125 361.4021737 296.510907 313.2380423 353.4145439 501.7098266 347.0835239 225.6954958 373.591924 277.1869208 1.474486283 1.303821164 1.06971464 1.130060688 1.275004401 1.810005412 1.252164146 0.814235734 1.347797807 1 8.114715374 -9.580742321 1.379422507 1.000723987 1.301162379 0 0.268899488 0.642682268 2.201332581 0.177261991 0.041792808 2.63E-10 9.580742321 0.300438392 SYDPPCPGHWT(ph)PEAPGSGTTCPGLPR ddPTM_HeLa_SAHA_4h_R1 1 SYDPPCPGHWTPEAPGSGTTCPGLPR 26 0 H3BM67;H3BUP2;H3BUN4;O60936;O60936-3;J3QLT7 H3BM67 NOL3 Nucleolar protein 3 1 0 S(0.043)Y(0.039)DPPCPGHWT(0.917)PEAPGSGTTCPGLPR 64.68 0.0016785 6089800 1562.2 1668.1 1615.1 1580.5 1635.4 1726.6 1740 1886.8 2063.5 1845.8 TRUE FALSE FALSE 1726.519364 1722.147534 1835.197417 1611.092863 1510.096005 1579.483966 1544.210621 1838.538388 2049.139935 1925.381471 0.896715477 0.894444847 0.953160423 0.836765538 0.784310033 0.820348586 0.8020284 0.954895648 1.064277374 1 10.9109286 -8.33919002 0.328078501 1.024964961 0.83283368 0.570687962 0.057191651 1.113714342 0.273529352 0.084623648 0.034697723 4.58E-09 8.33919002 -0.192131282 SYDYDLIIIGGGSGGLAAAK ddPTM_HeLa_SAHA_4h_R1 2 SYDYDLIIIGGGSGGLAAAK 20 0 Q16881;A0A087WSY9;A0A087WSW9;E9PIR7;A0A182DWI3;Q16881-5;F8W809;Q16881-2;Q16881-4;Q16881-3;Q16881-6;E9PKD3;A0A0B4J225;E9PIZ5;E9PKI4;E9PLT3;E9PQI3 Q16881 TXNRD1 "Thioredoxin reductase 1, cytoplasmic" 0 0 ; ; 220.85 2.50E-25 14717100 2192.07 1970.62 2000.43 2177.01 2043.72 1947.56 2282.93 2186.18 2032.23 2048.09 FALSE FALSE TRUE 2422.64198 2034.469381 2273.038183 2219.149177 1887.130615 1781.616931 2026.048708 2130.260681 2018.087546 2136.393183 1.133986946 0.952291646 1.063960605 1.038736312 0.883325518 0.833936817 0.948350109 0.997129507 0.944623659 1 11.06096147 -5.812585347 6.53293865 1.054411753 0.912279077 0.307499184 0.068926666 0.129890783 12.29243003 0.010415443 0.019155386 1.54E-06 5.812585347 -0.142132676 SYEDDDDMDLQPNK ddPTM_HeLa_SAHA_4h_R1 1 SYEDDDDMDLQPNK 14 0 Q9BTE3;Q9BTE3-2 Q9BTE3 MCMBP Mini-chromosome maintenance complex-binding protein 0 0 120.09 0.00060064 0 500.63 499.29 380.01 441.38 704.2 653.23 466.95 489.02 587.3 480.13 FALSE FALSE TRUE 553.2885604 515.4673236 431.7957838 449.9235481 650.2443481 597.571129 414.4075571 476.5115765 583.2129315 500.830754 1.104741584 1.029224582 0.862159083 0.898354473 1.298331508 1.193159813 0.827440315 0.951442324 1.164491052 1 8.968179345 -4.742233409 24.99991555 1.050305489 0.889441296 0.225828097 0.129258444 303.3901653 394908.79 0.017836992 0.066525762 1.81E-05 4.742233409 -0.160864192 SYELPDGQVIT(ph)IGNER ddPTM_HeLa_SAHA_4h_R1 2 SYELPDGQVITIGNER 16 0 P60709;A0A2R8Y793;P63267-2;Q6S8J3;A5A3E0;Q562R1;A0A2R8YEA7;Q9BYX7;P63267;P68133;P68032;P62736;P63261 P60709;P63267;P63261 ACTB;ACTG2;POTEE;POTEF;ACTBL2;POTEKP;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;POTE ankyrin domain family member E;POTE ankyrin domain family member F;Beta-actin-like protein 2;Putative beta-actin-like protein 3;Putative beta-actin-like protein 3, N-terminally processed;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 SYELPDGQVIT(1)IGNER;SYELPDGQVIT(1)IGNER ; 139.67 0.00019761 16466600 1740.08 1300.71 1195.81 1756.88 1688.11 1855.35 1502.48 1308.03 2076.59 1647.61 TRUE FALSE FALSE 1923.109598 1342.853857 1358.768759 1790.886953 1558.767376 1697.263742 1333.416996 1274.572487 2062.138841 1718.64653 1.118967492 0.781343827 0.790603964 1.042033322 0.906973801 0.987558356 0.775852959 0.741614092 1.199862104 1 10.74705714 -7.265975968 24.99842789 1.056179095 0.86849859 0.51451642 0.105763691 273.6223812 1507766.107 0.017555702 0.020427 5.42E-08 7.265975968 -0.187680504 SYELPDGQVITIGNER ddPTM_HeLa_SAHA_4h_R1 11 SYELPDGQVITIGNER 16 0 P60709;A0A2R8Y793;P63267-2;Q6S8J3;A5A3E0;Q562R1;A0A2R8YEA7;Q9BYX7;P63267;P68133;P68032;P62736;P63261 P60709;P63267;P63261 ACTB;ACTG2;POTEE;POTEF;ACTBL2;POTEKP;ACTA1;ACTC1;ACTA2;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, gamma-enteric smooth muscle;POTE ankyrin domain family member E;POTE ankyrin domain family member F;Beta-actin-like protein 2;Putative beta-actin-like protein 3;Putative beta-actin-like protein 3, N-terminally processed;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;;;;;;;;;; ;;;;;;;;;; 296.22 1.49E-85 1393981000 15492.55 14132.05 14291.91 14346.99 16121.9 16355.61 16535.8 13945.97 16193.13 14454.28 FALSE FALSE TRUE 17122.12749 14589.93769 16239.53707 14624.69674 14886.6435 14962.02001 14675.14826 13589.25228 16080.44069 15077.47475 1.135609761 0.967664542 1.077072742 0.969969904 0.987343289 0.992342568 0.973316057 0.901294979 1.066520817 1 13.8801072 -5.979160274 0.92903667 1.060272467 0.950808574 0.421867747 0.048609004 0.492108982 0.825388765 0.010786451 0.029394677 1.05E-06 5.979160274 -0.109463893 SYEPLEDPGVK ddPTM_HeLa_SAHA_4h_R1 2 SYEPLEDPGVK 11 0 P37837;F2Z393 P37837 TALDO1 Transaldolase 0 0 ; ; 140.17 0.0054496 15788800 7637.1 7416.6 6252.4 7191.8 7040.8 8639.3 8048.9 7913.5 8670 7361.1 FALSE FALSE TRUE 8440.405218 7656.902706 7104.444511 7331.007689 6501.335425 7903.183037 7143.216588 7711.084129 8609.664764 7678.473045 1.099229647 0.997190804 0.925241838 0.954748118 0.846696392 1.029264932 0.930291289 1.004247079 1.121273033 1 12.90660373 -6.993432108 5.537379759 1.047050973 0.947588131 0.482038951 0.056021143 0.124312289 12.85412162 0.009118059 0.01175628 1.02E-07 6.993432108 -0.099462842 SYES(ph)SEDCSEAAGSPAR ddPTM_HeLa_SAHA_4h_R1 1 SYESSEDCSEAAGSPAR 17 0 Q6P6C2-3;Q6P6C2;K7ER58 Q6P6C2-3 ALKBH5 RNA demethylase ALKBH5 1 0 SYES(0.986)S(0.014)EDCSEAAGSPAR 190.24 5.55E-12 5806200 639.46 698.87 591.73 828.99 825.84 980.03 811.3 560.44 678.99 783.99 TRUE FALSE FALSE 706.7213367 721.5138465 672.3678828 845.0363002 762.5643176 896.5259305 720.0103888 546.1047563 674.2648533 817.7916457 0.864182632 0.882270992 0.822175045 1.033314909 0.932467728 1.096276705 0.880432556 0.667779818 0.82449467 1 9.675589515 -9.452739482 1.198392143 0.999771978 0.902089237 0 0.121882672 0.937945163 2.418444095 0.074892829 0.018773245 3.53E-10 9.452739482 -0.097682741 SYESS(ph)EDCSEAAGSPAR ddPTM_HeLa_SAHA_4h_R1 1 SYESSEDCSEAAGSPAR 17 0 Q6P6C2-3;Q6P6C2;K7ER58 Q6P6C2-3 ALKBH5 RNA demethylase ALKBH5 1 0 SYES(0.343)S(0.608)EDCS(0.049)EAAGSPAR 136.34 0.0001185 5111900 342.79 328.13 241.45 284.11 391.2 488.84 373.83 525.55 468.42 375.55 TRUE FALSE FALSE 378.846225 338.7616273 274.3535486 289.6093599 361.2263405 447.1880819 331.7656645 512.107192 465.1602271 391.7417984 0.967081446 0.864757421 0.700342802 0.739286339 0.922103135 1.141537828 0.846898814 1.307256959 1.187415356 1 8.61375926 -4.252226004 24.54508455 0.940337877 1.307257206 0.367771437 0.147850814 771.9297476 2056418.936 0.018823493 0.309528293 5.59E-05 4.252226004 0.36691933 SYESSEDCSEAAGS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 2 SYESSEDCSEAAGSPAR 17 0 Q6P6C2-3;Q6P6C2;K7ER58 Q6P6C2-3 ALKBH5 RNA demethylase ALKBH5 1 0 SYESSEDCSEAAGS(1)PAR;SYESSEDCSEAAGS(1)PAR ; 249.86 2.97E-37 35775000 1476.96 1606.02 1502.88 1536.52 1827.65 1523.14 1601.22 1787.25 2100.29 1644.19 TRUE FALSE FALSE 1632.313429 1658.056102 1707.68466 1566.261566 1687.615852 1393.359903 1421.046511 1741.534733 2085.673911 1715.079077 0.951742372 0.966751985 0.995688585 0.913229942 0.983987196 0.812417294 0.828560345 1.015425327 1.216080319 1 10.74405938 -5.286020344 24.70751899 0.972807818 0.879776916 0.200371453 0.094952795 492.6063158 495141.826 0.00764153 0.017095182 5.18E-06 5.286020344 -0.093030901 SYETLVDFDNHLDDIR ddPTM_HeLa_SAHA_4h_R1 1 SYETLVDFDNHLDDIR 16 0 M0R1B0;O43402 M0R1B0 EMC8 ER membrane protein complex subunit 8 0 0 158.65 5.43E-06 3385800 1210.7 871.49 662.33 845.28 919.47 1319.4 1023.3 837.57 1472.9 968.09 FALSE FALSE TRUE 1338.046981 899.7268478 752.5888831 861.6416167 849.0204072 1206.979697 908.1555908 816.1461722 1462.649969 1009.829098 1.325023199 0.890969422 0.745263614 0.853254891 0.840756529 1.195231649 0.899316125 0.808202273 1.448413373 1 9.979895438 -7.232956648 23.64187083 1.153483172 0.893569413 0.486432027 0.162697085 298.304343 247605.1848 0.027296679 0.033426907 5.85E-08 7.232956648 -0.259913759 SYGSLVQSACS(ph)PVRER ddPTM_HeLa_SAHA_4h_R1 1 SYGSLVQSACSPVRER 16 1 Q96S90 Q96S90 LYSMD1 LysM and putative peptidoglycan-binding domain-containing protein 1 1 0 SYGSLVQS(0.085)ACS(0.915)PVRER 142.57 0.00047471 5022800 974.33 1060.8 1083.8 804.8 1015.8 846.62 946.68 1032.3 1064.2 1092.8 TRUE FALSE FALSE 1076.8145 1095.170616 1231.49462 820.3780678 937.9696235 774.483213 840.1570749 1005.895261 1056.794146 1139.915956 0.944643764 0.960746808 1.080338084 0.719682941 0.822841034 0.679421328 0.737034226 0.882429319 0.927080755 1 10.15471175 -6.25212978 24.97507231 0.979263392 0.764640168 0.730903851 0.064975105 245.8801968 659628.1964 0.009198662 0.015120848 5.60E-07 6.25212978 -0.214623225 SYLEGS(ph)SDNQLK ddPTM_HeLa_SAHA_4h_R1 1 SYLEGSSDNQLK 12 0 Q9UHI6;E9PJ60 Q9UHI6 DDX20 Probable ATP-dependent RNA helicase DDX20 1 0 SYLEGS(0.5)S(0.5)DNQLK 92.247 0.011128 3022000 880.56 1151.1 1206.1 1346.6 1100.5 1297.6 996.39 1003.4 1480.4 1146 TRUE FALSE FALSE 973.181341 1188.396395 1370.461027 1372.66539 1016.179928 1187.03718 884.2735748 977.7344809 1470.097776 1195.409668 0.814098603 0.994133163 1.146436291 1.148280315 0.850068353 0.992996135 0.739724296 0.817907456 1.22978575 1 10.2232894 -4.760603809 24.99976218 0.949793499 0.778815841 0.214124766 0.139365984 24.00401312 718054.0927 0.017761361 0.059521849 1.74E-05 4.760603809 -0.170977657 SYLEGSS(ph)DNQLKDSESTPVDDR ddPTM_HeLa_SAHA_4h_R1 4 SYLEGSSDNQLKDSESTPVDDR 22 1 Q9UHI6;E9PJ60 Q9UHI6 DDX20 Probable ATP-dependent RNA helicase DDX20 1 0 SYLEGS(0.166)S(0.834)DNQLKDSESTPVDDR;SYLEGS(0.173)S(0.826)DNQLKDSESTPVDDR;S(0.001)Y(0.001)LEGS(0.222)S(0.776)DNQLKDSESTPVDDR;S(0.005)Y(0.004)LEGS(0.212)S(0.779)DNQLKDSESTPVDDR ;;; 119.37 1.24E-05 65155100 5555.83 5800.1 4886.75 5311.42 6425.6 6873 6621.53 5083.12 6156.27 5654.06 TRUE FALSE FALSE 6140.21769 5988.027046 5552.690841 5414.230215 5933.271916 6287.381734 5876.458017 4953.101151 6113.428016 5897.834197 1.041097034 1.015292537 0.941479644 0.918003123 1.006008599 1.066049252 0.996375588 0.839816954 1.036554744 1 12.52596955 -6.84313229 7.938049536 1.019792116 0.967775422 0.214738866 0.057111275 0.357806789 30.44446985 0.009436594 0.012428131 1.44E-07 6.84313229 -0.052016694 SYLLGNS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 SYLLGNSSPR 10 0 P02545;P02545-3;P02545-5;P02545-4;A0A0C4DGC5 P02545 LMNA Prelamin-A/C;Lamin-A/C 1 0 SYLLGNS(0.5)S(0.5)PR 101.35 0.0093775 4677400 2144.4 1703.9 2065.5 2118.5 2794.7 2602.3 2785.9 2668.7 1855.4 2124.3 TRUE FALSE FALSE 2369.957831 1759.107478 2346.975583 2159.506631 2580.57069 2380.5694 2472.4232 2600.438518 1842.48812 2215.888969 1.069529143 0.79386084 1.059157573 0.974555432 1.164575809 1.074317997 1.115770345 1.173541885 0.831489369 1 11.11366988 -5.761479359 25 1.012234676 1.126764753 0.371508025 0.096901579 0.978561253 612207.9962 0.011673467 0.022195763 1.73E-06 5.761479359 0.114530077 SYLLGNSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 SYLLGNSSPR 10 0 P02545;P02545-3;P02545-5;P02545-4;A0A0C4DGC5 P02545 LMNA Prelamin-A/C;Lamin-A/C 1 0 SYLLGNS(0.007)S(0.993)PR;SYLLGNS(0.031)S(0.969)PR ; 113.67 0.0045291 40640600 4918.6 5550 5300.5 5868.8 7202.1 8466.8 8027.9 6563.2 4850.7 5475.3 TRUE FALSE FALSE 5435.960915 5729.823641 6022.824536 5982.39911 6650.276654 7745.381007 7124.579564 6395.322847 4816.943584 5711.366978 0.951779309 1.003231567 1.054532927 1.047454862 1.164393162 1.356134361 1.247438589 1.119753445 0.843395916 1 12.47962037 -5.824226824 1.823129036 0.98339326 1.244375538 0.722468026 0.074390304 0.114233707 0.770775757 0.009434825 0.020751558 1.50E-06 5.824226824 0.260982278 SYQDPSNAQFLESIR ddPTM_HeLa_SAHA_4h_R1 1 SYQDPSNAQFLESIR 15 0 F2Z2K0;Q9UNZ2-4;Q9UNZ2;Q9UNZ2-5;Q9UNZ2-6 F2Z2K0 NSFL1C NSFL1 cofactor p47 0 0 112.08 0.0018348 0 560.84 646.79 526.03 357.46 663.75 622.85 489.5 435.41 529.19 563.97 FALSE FALSE TRUE 619.8317244 667.7464204 597.714629 364.3791552 612.8936184 569.7796759 434.4201717 424.2728427 525.5073237 588.2855067 1.053623993 1.135072023 1.01602814 0.619391692 1.041830219 0.968542773 0.738451257 0.72120227 0.893286198 1 9.200372684 -6.484327252 24.85142098 1.036227353 0.832624886 0.382628425 0.126810929 381.7930853 246115.1404 0.0180755 0.027607148 3.28E-07 6.484327252 -0.203602467 SYQNS(ph)PSSDDGIRPLPEYSTEK ddPTM_HeLa_SAHA_4h_R1 2 SYQNSPSSDDGIRPLPEYSTEK 22 1 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 1 0 SYQNS(0.333)PS(0.333)S(0.333)DDGIRPLPEYSTEK;S(0.001)Y(0.001)QNS(0.333)PS(0.333)S(0.333)DDGIRPLPEYSTEK ; 113.51 3.45E-05 19780300 1779.56 1896.79 1949.9 2175.93 2106.5 2506.3 2526.1 2196.4 2084.3 1936.09 TRUE FALSE FALSE 1966.742286 1958.247241 2215.622217 2218.048272 1945.100425 2292.74914 2241.85658 2140.219268 2069.795187 2019.564315 0.973844839 0.969638464 1.097079306 1.098280582 0.963128736 1.135269188 1.110069416 1.059743061 1.024872133 1 10.97982838 -6.762814339 24.99999227 0.985953059 1.077157222 0.454283183 0.045534427 22.30195764 405505.515 0.006901805 0.009351534 1.73E-07 6.762814339 0.091204163 SYQT(ph)ETLPMILT(ph)S(ph)TSPR ddPTM_HeLa_SAHA_4h_R1 1 SYQTETLPMILTSTSPR 17 0 A0PJX4 A0PJX4 SHISA3 Protein shisa-3 homolog 3 0 S(0.083)Y(0.071)QT(0.423)ET(0.423)LPMILT(0.87)S(0.432)T(0.349)S(0.349)PR 63.128 0.01638 21198000 1555 1986.6 1459.9 2037.4 2378.1 2028.6 2219.4 1990.9 2054.4 1531.1 TRUE FALSE FALSE 1718.562035 2050.967143 1658.847569 2076.836823 2195.890492 1855.751867 1969.667271 1939.975661 2040.103263 1597.113214 1.076042712 1.28417142 1.038653713 1.300369194 1.374912231 1.16194134 1.233267156 1.214676357 1.277369222 1 10.64125087 -7.374881031 0.799494732 1.014900584 1.246143034 0 0.119576558 0.295457012 0.390887539 0.021532235 0.023911083 4.22E-08 7.374881031 0.23124245 SYS(ph)AGEASEVSR ddPTM_HeLa_SAHA_4h_R1 1 SYSAGEASEVSR 12 0 Q76N89-2;Q76N89 Q76N89-2 HECW1 E3 ubiquitin-protein ligase HECW1 1 0 S(0.021)YS(0.979)AGEASEVSR 80.905 0.020781 2475800 604.56 543.07 499.39 547.76 631.12 731.08 518.69 702.54 700.51 664.83 TRUE FALSE FALSE 668.1503946 560.6658243 567.4442685 558.3626869 582.7637219 668.7878711 460.3256361 684.5700441 695.6350939 693.4940749 0.963455088 0.808465198 0.818239534 0.805144135 0.840329778 0.964374312 0.663777317 0.987131785 1.003087292 1 9.437739746 -7.344050917 4.700954779 0.984042479 0.836780203 0.389828023 0.084738137 0.151306646 5.922492704 0.013150274 0.015011993 4.53E-08 7.344050917 -0.147262276 SYS(ph)AGNASQLEQLSR ddPTM_HeLa_SAHA_4h_R1 2 SYSAGNASQLEQLSR 15 0 Q14678;Q14678-2 Q14678 KANK1 KN motif and ankyrin repeat domain-containing protein 1 1 0 S(0.095)YS(0.565)AGNAS(0.113)QLEQLS(0.226)R;S(0.016)YS(0.981)AGNAS(0.004)QLEQLSR ; 157.47 8.94E-06 144544000 1369.08 1044.49 1181.99 1065.83 1040.17 1567.83 1284.13 1030.39 1285.28 1470.23 TRUE FALSE FALSE 1513.086116 1078.332161 1343.065442 1086.460681 960.4723993 1434.242064 1139.636313 1004.034116 1276.335632 1533.61881 0.986611605 0.703129196 0.875749197 0.708429418 0.626278442 0.935201142 0.743102722 0.654682969 0.832237857 1 10.58272422 -7.27061799 23.82921031 0.993677717 0.754941545 0.38962638 0.102388856 159.1829183 413264.7349 0.014458234 0.016667427 5.36E-08 7.27061799 -0.238736172 SYS(ph)LSELSVLQAK ddPTM_HeLa_SAHA_4h_R1 3 SYSLSELSVLQAK 13 0 Q9P0V3-2;Q9P0V3 Q9P0V3-2 SH3BP4 SH3 domain-binding protein 4 1 0 SYS(0.795)LS(0.205)ELSVLQAK;S(0.005)YS(0.994)LS(0.001)ELSVLQAK;S(0.012)YS(0.808)LS(0.18)ELSVLQAK ;; 237.48 3.69E-24 70800000 4113.76 5103.49 4274.15 3831.18 4541.53 4183.75 5613.73 4689.34 4024.32 4126.64 TRUE FALSE FALSE 4546.464151 5268.846425 4856.608903 3905.338029 4193.558953 3827.270963 4982.058326 4569.393473 3996.314429 4304.559646 1.056197271 1.224015197 1.128247557 0.907256108 0.974213229 0.889120207 1.157390938 1.061524023 0.928390999 1 12.07164994 -6.272423678 24.78215612 1.052098958 0.999402101 0.095185524 0.101732803 1577.325943 3558667.588 0.015777099 0.024247063 5.34E-07 6.272423678 -0.052696857 SYS(ph)PAHNR ddPTM_HeLa_SAHA_4h_R1 2 SYSPAHNR 8 0 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 S(0.015)YS(0.985)PAHNR;S(0.042)YS(0.958)PAHNR ; 99.788 0.0087697 6425500 1532.4 1711.35 1672.59 2359.92 2458.91 4717.1 3512.16 3414.84 2603.59 3456.85 TRUE FALSE FALSE 1693.584863 1766.798863 1900.521855 2405.599664 2270.508847 4315.176542 3116.962513 3327.493337 2585.471405 3605.891721 0.46967158 0.489975573 0.527060156 0.667130311 0.629666397 1.196701642 0.864408239 0.922793471 0.717013046 1 11.81614036 -5.281757782 24.89802151 0.693841375 0.981611854 0.460746239 0.167985485 821.3479218 1006472.592 0.034010154 0.076134235 5.23E-06 5.281757782 0.287770479 SYS(ph)PDGK ddPTM_HeLa_SAHA_4h_R1 3 SYSPDGK 7 0 A0A0R4J2E8;A8MXP9;P43243;D6REM6;B3KM87;P43243-2 A0A0R4J2E8 MATR3 Matrin-3 1 0 S(0.018)YS(0.982)PDGK;S(0.028)YS(0.971)PDGK;S(0.003)YS(0.997)PDGK ;; 103.55 0.0068596 107715000 8770.2 10783.7 8558.1 13227.8 13734.1 27813 17520.1 14065.8 19072.9 23165.3 TRUE FALSE FALSE 9692.689875 11133.09896 9724.353299 13483.8432 12681.79623 25443.17593 15548.69224 13706.0172 18940.17014 24164.06945 0.401119931 0.460729472 0.402430283 0.558012102 0.524820385 1.052934233 0.643463315 0.567206498 0.783815415 1 14.56057582 -9.444982939 1.191601992 0.998732213 0.565458655 0.290609624 0.186770428 0.373486358 0.952892415 0.131504204 0.033163456 3.59E-10 9.444982939 -0.433273557 SYS(ph)PDGKESPS(ph)DKK ddPTM_HeLa_SAHA_4h_R1 1 SYSPDGKESPSDKK 14 2 A0A0R4J2E8;A8MXP9;P43243;D6REM6;B3KM87;P43243-2 A0A0R4J2E8 MATR3 Matrin-3 2 0 S(0.318)YS(0.682)PDGKES(0.028)PS(0.972)DKK 80.459 0.01338 1039100000 4734.6 4847.9 4584.9 5327.8 5240 5604.6 5467.4 5615 5450.1 4389.1 TRUE FALSE FALSE 5232.606951 5004.975141 5209.706295 5430.927273 4838.512332 5127.056549 4852.193763 5471.37643 5412.17231 4578.335581 1.142905944 1.093186607 1.137903983 1.186223067 1.056827803 1.119851627 1.059816101 1.195057971 1.182126608 1 12.1606075 -9.311713767 0.862577801 0.994003232 1.122530825 0 0.071220263 0.409635299 0.504997784 0.035637383 0.007914385 4.88E-10 9.311713767 0.128527592 SYS(ph)PDGKESPSDK ddPTM_HeLa_SAHA_4h_R1 2 SYSPDGKESPSDK 13 1 A0A0R4J2E8;A8MXP9;P43243;D6REM6;B3KM87;P43243-2 A0A0R4J2E8 MATR3 Matrin-3 1 0 S(0.037)YS(0.934)PDGKES(0.029)PSDK;S(0.005)YS(0.995)PDGKESPSDK ; 164.65 0.00019951 47408000 3089.6 2776.3 2506 2231.7 2549.9 3065.9 3328.1 3285.6 2321.2 2697.8 TRUE FALSE FALSE 3414.578304 2866.253942 2847.504629 2274.897781 2354.527213 2804.668072 2953.613429 3201.559109 2305.04658 2814.115361 1.213375383 1.018527521 1.011864925 0.808388246 0.836684681 0.996642892 1.049570842 1.137678702 0.819101666 1 11.45846576 -6.919387952 3.285787531 1.101135756 0.963984652 0 0.135866223 0.295597376 6.441107718 0.020557313 0.027327542 1.20E-07 6.919387952 -0.137151104 SYS(ph)PDGKESPSDKK ddPTM_HeLa_SAHA_4h_R1 6 SYSPDGKESPSDKK 14 2 A0A0R4J2E8;A8MXP9;P43243;D6REM6;B3KM87;P43243-2 A0A0R4J2E8 MATR3 Matrin-3 1 0 S(0.004)YS(0.994)PDGKES(0.001)PSDKK;S(0.023)YS(0.977)PDGKESPSDKK;S(0.032)YS(0.968)PDGKESPSDKK;S(0.022)YS(0.978)PDGKESPSDKK;S(0.03)YS(0.97)PDGKESPSDKK;S(0.435)YS(0.564)PDGKESPSDKK ;;;;; 121.18 0.0013068 917058300 15295.8 13647.8 14910.2 14901.9 15168.2 16090.2 16467.9 16573.4 12038.9 14175.6 TRUE FALSE FALSE 16904.68242 14089.99767 16942.08441 15190.34782 14006.01579 14719.22444 14614.88855 16149.47643 11955.12031 14786.77949 1.143229493 0.952878055 1.145758914 1.02729251 0.94719853 0.995431389 0.988375363 1.092156439 0.808500615 1 13.85202025 -6.006916476 24.78151276 1.065216767 1.001736432 0 0.103304332 432.673405 1550266.983 0.010640186 0.018747919 9.84E-07 6.006916476 -0.063480335 SYS(ph)PDHR ddPTM_HeLa_SAHA_4h_R1 1 SYSPDHR 7 0 A0A024RAC6;Q14241 A0A024RAC6 TCEB3 Transcription elongation factor B polypeptide 3 1 0 S(0.003)YS(0.997)PDHR 107.01 0.0097116 1626000 928.02 825.86 931.96 1700.2 1694.7 3438.5 2249.1 2933 1711.9 2515.4 TRUE FALSE FALSE 1025.633402 852.6184059 1058.962655 1733.10983 1564.852452 3145.520456 1996.025349 2857.978107 1699.986749 2623.851204 0.390888553 0.324949221 0.403590971 0.660521384 0.596395272 1.198818154 0.760723529 1.089230252 0.647897543 1 11.35747019 -5.279504186 24.28573159 0.64195049 0.990703943 0.451203149 0.213752695 606.9883331 816014.6486 0.041534831 0.093067413 5.25E-06 5.279504186 0.348753453 SYS(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 SYSPER 6 0 F8WF16;B7Z8L1;F8W6A0;F8W0Q9;Q8NEY8-5;Q8NEY8-6;Q8NEY8-9;Q8NEY8-8;Q8NEY8-2;Q8NEY8-3;Q8NEY8;F8VWU8 F8WF16 PPHLN1 Periphilin-1 1 0 SYS(1)PER 115.49 0.0062972 30013000 9405.3 10680 8044.4 11330 12823 16603 14033 11343 12023 13609 TRUE FALSE FALSE 10394.59261 11026.03901 9140.648939 11549.30853 11840.50451 15188.33099 12453.96991 11052.86248 11939.33096 14195.75059 0.732232688 0.776714055 0.643900362 0.813575053 0.83408795 1.069920953 0.877302671 0.778603598 0.841049643 1 13.79317151 -4.250011208 21.33866448 0.856081495 0.778603256 0.016348131 0.116646995 817.818175 1526781.337 0.019486286 0.345255311 5.62E-05 4.250011208 -0.07747824 SYS(ph)PSFQR ddPTM_HeLa_SAHA_4h_R1 2 SYSPSFQR 8 0 Q9P227;Q9P227-2 Q9P227 ARHGAP23 Rho GTPase-activating protein 23 1 0 S(0.013)YS(0.727)PS(0.26)FQR;S(0.018)YS(0.591)PS(0.391)FQR ; 114.97 0.0047696 19988400 4351.9 4108.9 3582.1 4178.3 4342.7 4927.2 4520 4274.2 4359.5 4043.8 TRUE FALSE FALSE 4809.652809 4242.031056 4070.249933 4259.177038 4009.963264 4507.37484 4011.397704 4164.872153 4329.161885 4218.148008 1.140228555 1.005661975 0.964937675 1.009726788 0.950645463 1.068567256 0.950985526 0.987369847 1.026318156 1 12.042394 -7.024297159 23.67729476 1.06657306 0.98946759 0.28304647 0.046624991 375.738426 366152.076 0.009709083 0.01193008 9.46E-08 7.024297159 -0.07710547 SYS(ph)SPDITQAIQEEEK ddPTM_HeLa_SAHA_4h_R1 5 SYSSPDITQAIQEEEK 16 0 P40818-2;P40818 P40818-2 USP8 Ubiquitin carboxyl-terminal hydrolase 8 1 0 SYS(0.952)S(0.048)PDITQAIQEEEK;S(0.001)YS(0.854)S(0.146)PDITQAIQEEEK;SYS(0.932)S(0.068)PDITQAIQEEEK;SYS(0.963)S(0.037)PDITQAIQEEEK;SYS(0.769)S(0.231)PDITQAIQEEEK ;;;; 342.02 1.16E-138 122044400 9534.52 9439.23 8397.95 8245.97 10233.93 11023.23 10668.43 10518.64 8661.45 9184.01 TRUE FALSE FALSE 10537.40456 9745.067245 9542.378891 8405.582673 9449.808494 10083.98879 9467.990179 10249.58842 8601.174264 9579.977617 1.099940415 1.017232778 0.99607528 0.877411515 0.986412377 1.052610892 0.988310261 1.069896907 0.897828221 1 13.22580657 -7.001535223 6.256668742 1.04779601 0.992661227 0 0.071003729 0.218563323 37.93758456 0.00995983 0.012759419 9.96E-08 7.001535223 -0.055134783 SYS(ph)SPDITQAIQEEEKR ddPTM_HeLa_SAHA_4h_R1 3 SYSSPDITQAIQEEEKR 17 1 P40818-2;P40818 P40818-2 USP8 Ubiquitin carboxyl-terminal hydrolase 8 1 0 S(0.023)YS(0.974)S(0.003)PDITQAIQEEEKR;S(0.008)YS(0.98)S(0.012)PDITQAIQEEEKR;S(0.025)YS(0.971)S(0.004)PDITQAIQEEEKR ;; 224.12 3.39E-22 765720000 6532 6764.1 6262 6716.7 7713.9 8496.4 7710 7540.4 7744.4 6598 TRUE FALSE FALSE 7219.06573 6983.261278 7115.352749 6846.711441 7122.862649 7772.458921 6842.450508 7347.527486 7690.50609 6882.47207 1.048905925 1.014644332 1.033836778 0.994804101 1.034927941 1.12931209 0.994185002 1.067570985 1.11740462 1 12.74871113 -5.51100695 24.96527214 1.021767507 1.060969104 0.031925151 0.045226842 663.7553022 1395812.906 0.004837336 0.010290666 3.08E-06 5.51100695 0.039201597 SYSEDDIHR ddPTM_HeLa_SAHA_4h_R1 2 SYSEDDIHR 9 0 Q9Y5A9;A0A024R7W5;A0A087X0Q1;A0A087WY31;Q9Y5A9-2;Q9BYJ9;Q7Z739 Q9Y5A9 YTHDF2;YTHDF3;YTHDF1 YTH domain-containing family protein 2;YTH domain-containing family protein 1;YTH domain-containing family protein 3 0 0 ; ; 196.79 4.00E-08 20514000 7346.6 6945.8 6178.1 8067.4 8433.7 8691.8 8885.7 8427.7 7744.5 7896.7 FALSE FALSE TRUE 8119.349095 7170.848477 7020.019294 8223.556193 7787.511728 7951.209741 7885.85765 8212.131637 7690.605394 8237.165383 0.985696987 0.870548076 0.852237265 0.998347831 0.945411603 0.965284703 0.957350895 0.996960879 0.933647078 1 13.00793224 -7.491126567 23.6997166 0.993689906 0.940475035 0.039383686 0.048770111 243.707852 181905.3654 0.008101861 0.008886711 3.23E-08 7.491126567 -0.053214872 SYSMIVNNLLKPISVEGSSK ddPTM_HeLa_SAHA_4h_R1 2 SYSMIVNNLLKPISVEGSSK 20 1 Q9HB71;Q9HB71-3 Q9HB71 CACYBP Calcyclin-binding protein 0 0 ; ; 165.66 1.80E-12 1709920 390.97 529.92 428.79 512.84 743.99 702.1 537.85 398.82 487.87 576.42 FALSE FALSE TRUE 432.0940184 547.0897557 487.2232682 522.7667598 686.9856469 642.2771301 477.3297025 388.6187619 484.4748729 601.2722871 0.718632852 0.909886864 0.810320513 0.869434316 1.142553318 1.068196795 0.793866128 0.646327413 0.805749547 1 9.231874655 -5.962762146 24.99860536 0.862731355 0.92667997 0.033816388 0.145151614 582.1887035 390833.7851 0.02482383 0.044996945 1.09E-06 5.962762146 0.063948615 SYSPS(ph)FQR ddPTM_HeLa_SAHA_4h_R1 1 SYSPSFQR 8 0 Q9P227;Q9P227-2 Q9P227 ARHGAP23 Rho GTPase-activating protein 23 1 0 S(0.038)YS(0.249)PS(0.713)FQR 102.62 0.0092635 16522000 2871.7 2543.4 2229.8 2897.7 2849.8 2822.8 2727.4 2817.1 3377.7 2712.8 TRUE FALSE FALSE 3173.758582 2625.807829 2533.665532 2953.789174 2631.44894 2582.281559 2420.505774 2745.042661 3354.194311 2829.762084 1.121563753 0.927925299 0.895363446 1.043829511 0.929918792 0.912543699 0.855374304 0.970061291 1.185327321 1 11.46646505 -7.242860481 24.29852965 1.057405105 0.932387634 0.542347772 0.067332017 374.6856631 490035.3047 0.010568734 0.012929632 5.72E-08 7.242860481 -0.12501747 SYSPYDMLESIR ddPTM_HeLa_SAHA_4h_R1 4 SYSPYDMLESIR 12 0 P07355;P07355-2;H0YN42;A6NMY6;H0YM50;H0YN28;H0YL33 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ;;; ;;; 197.21 2.74E-23 147470180 1657.17 1714.923 1445.33 1785.54 1758.9 1887.05 1871.6 1712.62 2142.56 1609.79 FALSE FALSE TRUE 1831.478744 1770.48763 1642.292045 1820.101709 1624.133462 1726.262724 1661.002642 1668.81366 2127.649751 1679.195925 1.09068794 1.054366321 0.978022886 1.083912652 0.96720903 1.028029367 0.989165479 0.993817121 1.267064622 1 10.71355486 -5.751527898 24.9999401 1.04195162 0.99656128 0.123793292 0.079200251 253.2264135 638713.401 0.006096271 0.012082087 1.77E-06 5.751527898 -0.04539034 SYSPYDMLESIRK ddPTM_HeLa_SAHA_4h_R1 2 SYSPYDMLESIRK 13 1 P07355;P07355-2;H0YN42;A6NMY6;H0YM50;H0YN28;H0YL33 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ; ; 147.26 3.55E-05 2974600 1327.76 1108.49 1756.43 1204.04 1614.8 1005.54 1524.71 599.06 999.87 864.84 FALSE FALSE TRUE 1467.419889 1144.405803 1995.787133 1227.345935 1491.074373 919.862335 1353.145618 583.7369126 992.9118233 902.1274848 1.626621418 1.268563282 2.212311638 1.360501654 1.652842196 1.019658918 1.499949443 0.647066986 1.100633602 1 9.817187513 -5.236862864 24.22789837 1.396215757 1.099997513 0.179004785 0.37662246 1004.089748 989843.7681 0.056608605 0.144239557 5.80E-06 5.236862864 -0.296218244 SYSSGGEDGYVR ddPTM_HeLa_SAHA_4h_R1 3 SYSSGGEDGYVR 12 0 Q13347 Q13347 EIF3I Eukaryotic translation initiation factor 3 subunit I 0 0 ;; ;; 227.27 1.03E-21 23194000 3066.01 2129.197 2725.54 2957.03 2596.58 3186.55 3354.27 3239.11 3071.46 2513.82 FALSE FALSE TRUE 3388.506999 2198.18438 3096.962397 3014.267592 2397.630601 2915.038013 2976.838712 3156.258256 3050.08546 2622.203083 1.292236678 0.838296772 1.181053603 1.149517218 0.914357327 1.111675153 1.135243388 1.203666595 1.163176674 1 11.35656371 SYSSSSS(ph)SPER ddPTM_HeLa_SAHA_4h_R1 1 SYSSSSSSPER 11 0 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 SYS(0.004)S(0.017)S(0.017)S(0.082)S(0.612)S(0.269)PER 84.31 0.020156 16327000 1070.2 962.38 815.3 1122.3 1073.3 1713.5 1082.6 1356.4 1467.4 1134.1 TRUE FALSE FALSE 1182.768546 993.5617434 926.4048381 1144.023739 991.0639859 1567.50016 960.7829988 1321.705252 1457.188244 1182.996601 0.999807223 0.839868637 0.783100169 0.967055813 0.837757256 1.325025075 0.812160405 1.117251944 1.231777202 1 10.20823021 -3.94292785 18.86410139 0.973768516 2.828948296 0.056818603 0.170370378 191.1240737 95363.05883 0.018878035 7240.900591 0.000114044 3.94292785 1.85517978 SYSSSSSS(ph)PER ddPTM_HeLa_SAHA_4h_R1 2 SYSSSSSSPER 11 0 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 SYSSSSS(0.018)S(0.982)PER;SYSSSSS(0.014)S(0.986)PER ; 183.99 3.88E-06 36534000 4689 5896.1 4060.5 6234.2 5085.1 7100.7 5894.6 5175.6 8041.9 6683.7 TRUE FALSE FALSE 5182.210534 6087.137509 4613.843794 6354.871956 4695.480737 6495.680413 5231.324094 5043.215646 7985.935763 6971.867016 0.743303124 0.87310006 0.661780235 0.911502176 0.673489716 0.93169884 0.750347659 0.723366587 1.145451533 1 12.76732934 -9.342968583 0.860467679 1.012537657 0.783456176 0.538348326 0.101685456 0.460697098 0.555902513 0.072129037 0.015275231 4.54E-10 9.342968583 -0.229081481 SYSSSSSS(ph)PERNR ddPTM_HeLa_SAHA_4h_R1 1 SYSSSSSSPERNR 13 1 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 SYS(0.004)S(0.004)S(0.012)S(0.041)S(0.041)S(0.897)PERNR 97.223 0.0040682 4826600 399.25 253.49 330.43 326.75 328.19 402.67 354.45 445.96 308.32 366.54 TRUE FALSE FALSE 441.2449468 261.7032423 375.4592796 333.0747187 303.0441531 368.3602506 314.5663531 434.5529889 306.174376 382.3433332 1.154054245 0.684471834 0.9819951 0.871140386 0.792596933 0.963427942 0.822732675 1.136551762 0.800783875 1 8.578724908 -7.291432771 24.99354364 1.072747838 0.891947752 0 0.147328547 570.7451517 475601.3883 0.020018294 0.022893312 5.11E-08 7.291432771 -0.180800086 SYVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 SYVSPR 6 0 A0A0A0MRT2;Q9BTA9-5;Q9BTA9-2;Q9BTA9 A0A0A0MRT2 WAC WW domain-containing adapter protein with coiled-coil 1 0 SYVS(1)PR 88.37 0.019717 4526300 4479 5310.8 3879.8 4478.5 4191.8 3989.4 3732 3666.3 5024.9 4432 TRUE FALSE FALSE 4950.12177 5482.873405 4408.518939 4565.187844 3870.62519 3649.480676 3312.065538 3572.521355 4989.931312 4623.08521 1.070739895 1.185977146 0.953588078 0.987476466 0.837238557 0.789403723 0.716418882 0.772756978 1.079350928 1 12.17464024 -5.703211308 1.452903933 1.043700356 0.746258277 0.843681442 0.057871347 0.122096019 0.515461137 0.009476825 0.024704872 1.98E-06 5.703211308 -0.297442078 SYVS(ph)SPDPQLEENLK ddPTM_HeLa_SAHA_4h_R1 1 SYVSSPDPQLEENLK 15 0 E9PP00;Q9C0D7;Q9C0D7-2 E9PP00 ZC3H12C Probable ribonuclease ZC3H12C 1 0 S(0.122)Y(0.002)VS(0.546)S(0.33)PDPQLEENLK 91.812 0.0073011 3750400 452.65 496.75 378.6 403.21 458.34 701.26 379.11 607.53 529.71 704.74 TRUE FALSE FALSE 500.2618038 512.8450259 430.1936363 411.0147126 423.2220882 641.5087028 336.451545 591.9902623 526.023705 735.1247903 0.680512765 0.697629889 0.585198108 0.559108764 0.575714619 0.872652795 0.457679498 0.805292204 0.715557021 1 9.521845364 -8.958069721 0.602213791 1.026664684 0.639535384 0.13662548 0.143485934 0.497212202 0.307407055 0.100803711 0.025504042 1.10E-09 8.958069721 -0.3871293 SYVSS(ph)PDPQLEENLK ddPTM_HeLa_SAHA_4h_R1 1 SYVSSPDPQLEENLK 15 0 E9PP00;Q9C0D7;Q9C0D7-2 E9PP00 ZC3H12C Probable ribonuclease ZC3H12C 1 0 SYVS(0.197)S(0.803)PDPQLEENLK 124.62 5.80E-05 0 528.8 519.61 595.56 513.58 714.02 520.35 487.83 649.07 506.9 392.39 TRUE FALSE FALSE 584.4216102 536.4457049 676.7198153 523.5210835 659.3119419 476.0132526 432.9380845 632.4677292 503.3724416 409.3078532 1.427828969 1.310616693 1.65332722 1.279039919 1.610797195 1.162971218 1.057732172 1.545212789 1.229813789 1 8.677042537 -9.247398059 0.891474621 0.990970178 1.376272136 0.199614394 0.192537749 0.518705425 0.713184605 0.134037694 0.033616228 5.66E-10 9.247398059 0.385301959 SYVTTSTR ddPTM_HeLa_SAHA_4h_R1 2 SYVTTSTR 8 0 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 0 0 ; ; 112.41 0.00646 8702300 2480.1 2467.8 2654 2650.6 2895.6 2520.6 3111.6 2174.6 1279.09 1989.29 FALSE FALSE TRUE 2740.968297 2547.758339 3015.673299 2701.906196 2673.739754 2305.830699 2761.474579 2118.976881 1270.188709 2075.058027 1.320911638 1.227801009 1.453295888 1.302087055 1.288513246 1.111212636 1.330793907 1.021165121 0.612122019 1 11.01893597 -9.310013216 0.981120348 0.99648328 1.265831134 0.450674007 0.170524642 0.415110397 0.700950332 0.079739126 0.020163628 4.90E-10 9.310013216 0.269347854 SYYAS(ph)WYQQK ddPTM_HeLa_SAHA_4h_R1 1 SYYASWYQQK 10 0 P01714 P01714 Ig lambda chain V-III region SH 1 0 SYY(0.007)AS(0.627)WY(0.366)QQK 86.833 0.020801 6701400 1008.5 1048.2 836.58 1083.1 1028.1 1012.1 1185.9 1234.4 1227.8 1148.6 TRUE FALSE FALSE 1114.578657 1082.162368 950.5847657 1104.064967 949.3272001 925.8633861 1052.459411 1202.825835 1219.25564 1198.121767 0.930271603 0.903215681 0.79339579 0.92149646 0.792346176 0.772762345 0.878424414 1.003926202 1.017639169 1 10.22655882 -7.663618847 0.886986887 0.984362296 0.856533422 0.404594131 0.067099924 0.377565185 0.626201382 0.017588305 0.016601893 2.17E-08 7.663618847 -0.127828874 T(ph)ADGRVSPAGGTLDDKPK ddPTM_HeLa_SAHA_4h_R1 2 TADGRVSPAGGTLDDKPK 18 2 C9JA69;Q8WY36-2;Q8WY36 C9JA69 BBX HMG box transcription factor BBX 1 0 T(0.885)ADGRVS(0.114)PAGGTLDDKPK;T(0.881)ADGRVS(0.119)PAGGTLDDKPK ; 100.59 0.011837 67983000 4930.7 5812.9 4998 5423.8 5448.2 5210.4 6107.5 5801.5 5681.9 4972.9 TRUE FALSE FALSE 5449.333649 6001.241774 5679.101412 5528.785492 5030.760093 4766.444607 5420.268026 5653.10603 5642.359195 5187.306056 1.050513232 1.156909137 1.094807469 1.065829822 0.969821337 0.918867049 1.044910011 1.089796123 1.087724367 1 12.34076978 -4.3095995 4.964152299 1.03094327 1.090867983 0.016078095 0.064895168 0.386536704 21.06217383 0.00933176 0.064122338 4.90E-05 4.3095995 0.059924713 T(ph)APSPLVEAK ddPTM_HeLa_SAHA_4h_R1 1 TAPSPLVEAK 10 0 Q8TEH3;Q8TEH3-7;Q8TEH3-6;A0A0A0MS48;Q8TEH3-4;Q8TEH3-3;Q8TEH3-5;Q8TEH3-2 Q8TEH3 DENND1A DENN domain-containing protein 1A 1 0 T(0.562)APS(0.438)PLVEAK 119.03 0.0056114 10649000 2679.4 3190.8 2209.6 2741.6 2827.2 3765.7 3224.4 2942.2 3936.1 2775.7 TRUE FALSE FALSE 2961.231586 3294.184014 2510.712781 2794.667632 2610.580547 3444.841175 2861.582026 2866.942784 3908.70836 2895.374011 1.022745792 1.13774041 0.867146272 0.96521818 0.901638454 1.189774158 0.988328974 0.990180465 1.349983921 1 11.49953401 -5.305536552 24.99996575 0.999899235 1.049318886 0 0.140537397 982.8209785 557188.8699 0.011985928 0.026801415 4.95E-06 5.305536552 0.049419651 T(ph)APTLSPEHWK ddPTM_HeLa_SAHA_4h_R1 1 TAPTLSPEHWK 11 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 T(0.576)APT(0.253)LS(0.171)PEHWK 101.35 0.0060673 0 622.21 764.1 598.09 721.62 753.31 777.69 669.33 733.44 840.16 630.6 TRUE FALSE FALSE 687.6569026 788.8573413 679.5945905 735.5879986 695.5915505 711.4264368 594.0152268 714.6796668 834.3132582 657.7882521 1.045407698 1.199257267 1.033151 1.118274758 1.057470316 1.081543239 0.903049309 1.086488949 1.268361445 1 9.361479432 -3.920931672 21.54772902 1.039916308 3.44092846 0 0.103033745 3641.759656 841396.4796 0.009978539 64751.72139 0.000119969 3.920931672 2.401012152 T(ph)AQRQRSGS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 TAQRQRSGSR 10 2 Q8N9B5-2;Q8N9B5 Q8N9B5-2 JMY Junction-mediating and -regulatory protein 2 0 T(1)AQRQRS(0.063)GS(0.937)R 92.65 0.016186 4061600 221.09 268.07 270.21 249.69 267.14 190.51 132.32 301.74 343.8 339.22 TRUE FALSE FALSE 244.3452606 276.7556439 307.0328116 254.523111 246.6717909 174.2774762 117.4310054 294.0219277 341.4074678 353.8454343 0.690542358 0.782137106 0.867703189 0.719305907 0.697117348 0.492524304 0.331870907 0.830933225 0.964849154 1 8.466975494 -13.52287875 0.083926396 2.169062739 0.313248233 0.481233716 0.139845024 104.0740563 0.667024548 22.48077921 2.248221698 3.00E-14 13.52287875 -1.855814506 T(ph)AS(ph)PPPPPKR ddPTM_HeLa_SAHA_4h_R1 4 TASPPPPPKR 10 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 2 0 T(1)AS(1)PPPPPKR;T(1)AS(1)PPPPPKR;T(1)AS(1)PPPPPKR;T(1)AS(1)PPPPPKR ;;; 98.156 0.0098543 90591000 13293.6 13380 12396.7 13517.5 15066.5 15493 14798.4 14231.4 14622.3 13826.5 TRUE FALSE FALSE 14691.88184 13813.52078 14086.05772 13779.15076 13912.10802 14172.90924 13133.24508 13867.38139 14520.54222 14422.62808 1.018668842 0.957767246 0.976663729 0.955384184 0.964602841 0.982685622 0.910599997 0.961501698 1.006788925 1 13.81604645 -7.254917659 24.70600836 1.008815842 0.958367395 0.60406456 0.018559984 213.7125805 809600.4849 0.003137956 0.003797565 5.56E-08 7.254917659 -0.050448447 T(ph)ASAPNLDR ddPTM_HeLa_SAHA_4h_R1 1 TASAPNLDR 9 0 Q86W92-2 Q86W92-2 PPFIBP1 Liprin-beta-1 1 0 T(0.5)AS(0.5)APNLDR 105.13 0.013599 10049000 2208.9 2102 2125.6 2101.6 2051.2 2602.4 2181.3 2167.8 2108.7 2264.7 TRUE FALSE FALSE 2441.242237 2170.106179 2415.265698 2142.279507 1894.037499 2380.660879 1935.854383 2112.350815 2094.025385 2362.3423 1.033399028 0.918624781 1.022402934 0.90684551 0.801762513 1.007754414 0.819463963 0.894176434 0.886419121 1 11.20600231 -6.18585396 4.684403269 1.007821861 0.8823742 0.199935193 0.070814308 0.132777639 5.452928409 0.008464616 0.014186808 6.52E-07 6.18585396 -0.125447662 T(ph)ASEGDGGAAAGAAAAGAR ddPTM_HeLa_SAHA_4h_R1 3 TASEGDGGAAAGAAAAGAR 19 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 T(0.887)AS(0.113)EGDGGAAAGAAAAGAR;T(0.998)AS(0.002)EGDGGAAAGAAAAGAR;T(0.988)AS(0.012)EGDGGAAAGAAAAGAR ;; 305.9 1.44E-106 106684000 1508.78 1495.21 1104.92 1499.56 2139.4 2652.47 1951.84 1966.27 2366.57 1551.07 TRUE FALSE FALSE 1667.480403 1543.655785 1255.492743 1528.586152 1975.479634 2426.464634 1732.213826 1915.975661 2350.100847 1617.944218 1.030616744 0.954084676 0.77598024 0.944770614 1.220981299 1.499720822 1.07062642 1.184203781 1.452522788 1 10.65994615 -5.719859387 6.749259808 0.985542375 1.251822017 0.220534088 0.191411913 0.125182951 14.73695586 0.018246594 0.036355865 1.91E-06 5.719859387 0.266279641 T(ph)ASELLLDR ddPTM_HeLa_SAHA_4h_R1 3 TASELLLDR 9 0 Q92508 Q92508 PIEZO1 Piezo-type mechanosensitive ion channel component 1 1 0 T(0.643)AS(0.357)ELLLDR;T(0.654)AS(0.346)ELLLDR;T(0.619)AS(0.381)ELLLDR ;; 150.46 0.00072313 6640700 1704.87 4049.2 2380.39 2087 2787 2155.25 3198.9 2098.81 2005.72 1925.22 TRUE FALSE FALSE 1884.196049 4180.396737 2704.777153 2127.396903 2573.460662 1971.610575 2838.951353 2045.125479 1991.762031 2008.225656 0.938239208 2.081636954 1.346849217 1.059341562 1.281459907 0.981767447 1.41366153 1.018374341 0.991801905 1 10.97170567 T(ph)ASESISNLSEAGSIK ddPTM_HeLa_SAHA_4h_R1 1 TASESISNLSEAGSIK 16 0 F5H1T5;F5H6A0;J3KP58;P30622-2;P30622-1;P30622 F5H1T5 CLIP1 CAP-Gly domain-containing linker protein 1 1 0 T(0.438)AS(0.438)ES(0.123)ISNLSEAGSIK 185.63 3.00E-11 16799000 830.42 810.68 734.7 740.73 682.65 887 732.89 866.29 552.37 614.09 TRUE FALSE FALSE 917.7673857 836.9465639 834.8210898 755.0679003 630.3455045 811.4226099 650.4232883 844.1315562 548.5260122 640.5664252 1.432743506 1.306572638 1.303254521 1.178750354 0.984043933 1.266726725 1.01538773 1.317789261 0.856314022 1 9.323204372 -6.002366508 24.97953171 1.226248744 1.137296994 0 0.18186258 264.1061964 2787818.142 0.027458612 0.049176278 9.95E-07 6.002366508 -0.08895175 T(ph)ASFSESR ddPTM_HeLa_SAHA_4h_R1 1 TASFSESR 8 0 P53396;P53396-2;P53396-3 P53396 ACLY ATP-citrate synthase 1 0 T(0.654)AS(0.345)FSESR 125.71 0.0046642 107580000 3035.4 3802.3 2514.3 2786.5 4008.3 4186.7 3507 3197.6 3936.8 3331 TRUE FALSE FALSE 3354.677299 3925.497015 2856.93571 2840.436737 3701.18492 3829.969606 3112.38313 3115.810022 3909.403488 3474.615712 0.965481532 1.129764366 0.8222307 0.817482269 1.065206983 1.102271423 0.895748879 0.896735144 1.125132623 1 11.76263771 -6.989923058 0.006710345 1.940809313 0.000218868 0.069200983 0.110680155 10145.28078 49.65326378 7135.858284 7220.337922 1.02E-07 6.989923058 -1.940590445 T(ph)ASGSSVTSLDGTR ddPTM_HeLa_SAHA_4h_R1 2 TASGSSVTSLDGTR 14 0 E5RJY1;E7ESM1;Q92597-3;Q92597-2;Q92597 E5RJY1 NDRG1 Protein NDRG1 1 0 T(0.992)AS(0.008)GSSVTSLDGTR;T(0.621)AS(0.378)GSSVTSLDGTR ; 195.87 6.66E-09 69049000 425.44 443.12 397.49 551.66 400.03 491.79 567.99 688.88 616.75 475.34 TRUE FALSE FALSE 470.1897312 457.4773787 451.6578672 562.338177 369.3797878 449.8867253 504.0782703 671.2594471 612.4579865 495.8342337 0.948280089 0.922641778 0.910904969 1.134125357 0.744966287 0.907332924 1.016626598 1.353798107 1.235207142 1 8.953714072 -4.273445491 3.5306589 0.957908929 1.395915549 0.435747706 0.127026046 0.130851331 2.871019724 0.012176944 0.149280008 5.33E-05 4.273445491 0.438006619 T(ph)ASPPPPPK ddPTM_HeLa_SAHA_4h_R1 1 TASPPPPPK 9 0 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 T(0.72)AS(0.28)PPPPPK 109.29 0.011372 5921100 3560 3260.3 3284.1 3506.8 3535.9 4722.1 4393.9 3856.9 3528.5 3195.8 TRUE FALSE FALSE 3934.457134 3365.935859 3731.640045 3574.679185 3264.980106 4319.750514 3899.486808 3758.246083 3503.944881 3333.586578 1.180247473 1.009704047 1.119406968 1.072322288 0.979419622 1.295826706 1.169757172 1.127388173 1.051103608 1 11.70285948 -9.515803794 1.205085864 0.998420234 1.124181886 0.150497124 0.085784934 0.600230097 1.528291674 0.063872064 0.014584536 3.05E-10 9.515803794 0.125761652 T(ph)ASPPPPPKR ddPTM_HeLa_SAHA_4h_R1 1 TASPPPPPKR 10 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 T(0.988)AS(0.012)PPPPPKR 111.52 0.0070272 206310000 1996.8 1940.2 1822 1851.5 2315.8 1902.3 2222.1 2096 2223.4 2166.8 TRUE FALSE FALSE 2206.832586 2003.063753 2070.292671 1887.33846 2138.363904 1740.213338 1972.06346 2042.387355 2207.927178 2260.221352 0.976378966 0.886224595 0.915968991 0.835023728 0.946086056 0.769930492 0.872508995 0.903622715 0.976863251 1 11.14224835 -7.158869815 1.095712224 0.994044369 0.864628682 0.543964511 0.045570196 0.209335783 0.489132426 0.00867157 0.010825253 6.94E-08 7.158869815 -0.129415687 T(ph)ASPSTSSIDSATDTR ddPTM_HeLa_SAHA_4h_R1 1 TASPSTSSIDSATDTR 16 0 Q96P50-4;Q96P50-1;Q96P50 Q96P50-4 ACAP3 "Arf-GAP with coiled-coil, ANK repeat and PH domain-containing protein 3" 1 0 T(0.975)AS(0.02)PS(0.001)T(0.001)S(0.002)S(0.001)IDSATDTR 184.87 3.19E-11 4722400 489.07 553.48 567.18 731.91 578.97 659.86 637.21 543.2 703.4 658.98 TRUE FALSE FALSE 540.5126265 571.4131152 644.4723367 746.0771764 534.6094437 603.6362157 565.5094538 529.3057305 698.5049821 687.3918528 0.786323877 0.831277113 0.937561791 1.0853739 0.777736078 0.878154452 0.822688619 0.770020373 1.016167095 1 9.424988942 -9.531031994 1.297522009 0.999811714 0.857055441 0.29652024 0.08967623 0.523019667 1.580214641 0.065320735 0.015698094 2.94E-10 9.531031994 -0.142756273 T(ph)ASQEGCQELTQEQR ddPTM_HeLa_SAHA_4h_R1 1 TASQEGCQELTQEQR 15 0 A0A0C4DG33;O43933-2;O43933 A0A0C4DG33 PEX1 Peroxisome biogenesis factor 1 1 0 T(0.644)AS(0.355)QEGCQELT(0.001)QEQR 90.259 0.013723 3346000 204.23 169.2 242.87 260.93 234.75 106.31 127.63 145.56 269.86 0 TRUE FALSE FALSE 225.7118484 174.682191 275.9670588 265.9806775 216.7635057 97.25178992 113.2687365 141.836786 267.9820223 0 0 T(ph)ASSSTEPSVSR ddPTM_HeLa_SAHA_4h_R1 1 TASSSTEPSVSR 12 0 Q9BZF3-6;Q9BZF3-2;Q9BZF3-4;Q9BZF3;Q9BZF3-3;Q9BZF3-5 Q9BZF3-6 OSBPL6 Oxysterol-binding protein-related protein 6 1 0 T(0.886)AS(0.084)S(0.025)S(0.002)T(0.002)EPSVSR 128.08 0.0020029 2477400 826.41 1220.7 993.45 1049.5 922.45 1195.9 1068.1 992.67 852.38 978.68 TRUE FALSE FALSE 913.3355955 1260.251481 1128.832192 1069.81459 851.7720803 1094.002592 947.9145769 967.2789388 846.4482182 1020.875684 0.894658977 1.234480848 1.105748927 1.047938164 0.834354362 1.07163155 0.92853086 0.947499244 0.829139366 1 9.995591479 -2.966426493 15.76359835 0.981837495 0.666970044 0 0.121915403 0 0 0.015371374 0 0.001080372 2.966426493 -0.314867451 T(ph)ASTNNIAQAR ddPTM_HeLa_SAHA_4h_R1 1 TASTNNIAQAR 11 0 Q9UBI6 Q9UBI6 GNG12 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-12 1 0 T(0.489)AS(0.489)T(0.022)NNIAQAR 99.844 0.014571 3100500 438.67 413.3 346.43 390.65 519.78 666.37 516.64 530.57 252.51 437.57 TRUE FALSE FALSE 484.8113233 426.6911912 393.6396763 398.2115956 479.9545687 609.5915271 458.5063075 516.9987877 250.7527624 456.4357841 1.062167648 0.934832908 0.862420717 0.872437284 1.051527039 1.335547186 1.004536286 1.1326868 0.549371393 1 8.834268092 -5.512451822 24.95681752 0.996986165 1.150826783 0.20645563 0.172612746 456.7649678 1093264.376 0.015092867 0.031816198 3.07E-06 5.512451822 0.153840618 T(ph)CQILCMMLRKFS(ph)FPTVALHSMMK ddPTM_HeLa_SAHA_4h_R1 1 TCQILCMMLRKFSFPTVALHSMMK 24 2 Q9Y6V7-2;Q9Y6V7 Q9Y6V7-2 DDX49 Probable ATP-dependent RNA helicase DDX49 2 0 T(0.999)CQILCMMLRKFS(0.309)FPT(0.358)VALHS(0.334)MMK 42.973 0.0086571 0 393.98 365.94 437.54 440.46 537.97 550.98 508.21 501.98 411.42 495.71 TRUE FALSE FALSE 435.420624 377.7966961 497.1656726 448.9857402 496.7508548 504.0334043 451.0248733 489.1400785 408.5568947 517.082484 0.842071889 0.730631394 0.961482332 0.868305839 0.960680105 0.974764027 0.872249374 0.945961415 0.790119386 1 9.014250625 -3.839459099 15.69503278 0.912511338 12.01560925 0 0.085349296 421.481618 41210.89561 0.011822692 21.19054231 0.000144724 3.839459099 11.10309791 T(ph)CSFGGFDLTNR ddPTM_HeLa_SAHA_4h_R1 1 TCSFGGFDLTNR 12 0 O94885;A0A1B0GWB9 O94885 SASH1 SAM and SH3 domain-containing protein 1 1 0 T(0.99)CS(0.01)FGGFDLTNR 161.25 0.00026836 8613500 873.7 1101.8 1033.9 884.63 712.18 722.82 1052.7 707.24 758.75 888.07 TRUE FALSE FALSE 965.5997747 1137.499043 1174.794508 901.7532928 657.6129223 661.2316695 934.2474254 689.1498249 753.469797 926.3590438 1.042360175 1.227924583 1.268184853 0.973438214 0.709889893 0.713796313 1.008515469 0.743933823 0.813366914 1 9.85542766 -5.9449329 6.372827718 1.059034526 0.805965493 0.458892516 0.141124872 0.137006366 11.75782269 0.018909225 0.03442161 1.14E-06 5.9449329 -0.253069033 T(ph)CT(ph)T(ph)FIVDST(ph)DPGARSLR ddPTM_HeLa_SAHA_4h_R1 1 TCTTFIVDSTDPGARSLR 18 1 M0QX92 M0QX92 TRPM4 4 0 T(1)CT(0.999)T(0.999)FIVDS(0.135)T(0.509)DPGARS(0.357)LR 46.131 0.0081038 0 156.82 131.55 134.46 132.98 172.28 182.32 291.58 0 124.05 164.42 TRUE FALSE FALSE 173.3150471 135.8123063 152.7835086 135.5540202 159.0799436 166.7853103 258.770651 0 123.1867259 171.5089509 1.010530624 0.791867163 0.890819446 0.7903612 0.927531437 0.972458344 1.508788024 0 0.718252461 1 7.422140061 -4.240889714 24.88357299 0.986801089 1.00E-06 0.6522673 0.208529392 1962.976804 2376930.298 0.024817725 1.437213997 5.74E-05 4.240889714 -0.986800088 T(ph)DSREDEIS(ph)PPPPNPVVK ddPTM_HeLa_SAHA_4h_R1 1 TDSREDEISPPPPNPVVK 18 1 K7EMU2;K7EMZ6;K7EIE5;K7EID3;K7EJ40;K7EK41;K7EPB2;P10644-2;P10644 K7EMU2 PRKAR1A "cAMP-dependent protein kinase type I-alpha regulatory subunit;cAMP-dependent protein kinase type I-alpha regulatory subunit, N-terminally processed" 2 0 T(0.558)DS(0.483)REDEIS(0.959)PPPPNPVVK 70.281 0.0079023 0 528.49 648.13 535.9 798.91 931.34 841.64 1044.1 777.14 1012.9 582.36 TRUE FALSE FALSE 584.079003 669.1298373 608.9296612 814.3740583 859.9809304 769.9275371 926.6151201 757.2618841 1005.851146 607.4683896 0.961496949 1.101505607 1.00240551 1.340603186 1.415680133 1.267436381 1.525371749 1.246586484 1.655808209 1 9.246665528 -6.249989927 4.441433461 0.99259484 1.36978096 0.001407261 0.224684686 0.053489131 2.745058287 0.011302226 0.018442458 5.62E-07 6.249989927 0.37718612 T(ph)DSVIIADQTPTPTR ddPTM_HeLa_SAHA_4h_R1 1 TDSVIIADQTPTPTR 15 0 P17544-4;P17544-2;P17544-3;P17544;P17544-1;K7ESA4;K7ELQ4;P17544-5 P17544-4 ATF7 Cyclic AMP-dependent transcription factor ATF-7 1 0 T(0.996)DS(0.003)VIIADQTPTPTR 148.18 0.00013431 8605200 1138.9 1091.6 1097.7 479.9 1214.6 1377.3 1143.1 575.72 449.96 1119 TRUE FALSE FALSE 1258.694727 1126.968556 1247.288839 489.1891584 1121.53761 1259.946292 1014.47538 560.993916 446.8286917 1167.245566 1.07834612 0.96549397 1.068574493 0.419097037 0.960841183 1.079418357 0.869119069 0.480613448 0.382806073 1 10.18889239 T(ph)DSVKTPESEGNPLLEQLEK ddPTM_HeLa_SAHA_4h_R1 1 TDSVKTPESEGNPLLEQLEK 20 1 Q8WYK2;Q8WYK2-2 Q8WYK2 JDP2 Jun dimerization protein 2 1 0 T(0.312)DS(0.17)VKT(0.223)PES(0.294)EGNPLLEQLEK 67.478 0.0099202 4548400 873.86 1021.7 648.65 932.33 919.47 986.37 848.31 845.04 1580.9 924.45 TRUE FALSE FALSE 965.7766042 1054.80375 737.044644 950.3765953 849.0204072 902.3257268 752.8559262 823.4251004 1569.898388 964.3075636 1.001523415 1.093845771 0.764325275 0.985553397 0.880445658 0.935723996 0.780721789 0.853902978 1.628005885 1 9.913349554 -5.829307947 0.541243289 1.007446446 0.815797285 0.176714835 0.212061464 0.864396686 0.416396991 0.017888415 0.078790681 1.48E-06 5.829307947 -0.191649162 T(ph)DSYSAGQSVEILDGVELGEPAHKK ddPTM_HeLa_SAHA_4h_R1 1 TDSYSAGQSVEILDGVELGEPAHKK 25 1 B1AKQ2;B1AKP8;P42345 B1AKQ2 MTOR Serine/threonine-protein kinase mTOR 1 0 T(0.467)DS(0.143)Y(0.016)S(0.018)AGQS(0.357)VEILDGVELGEPAHKK 52.402 0.008669 8701800 839.9 794.05 887.88 959.41 1295.9 1077.1 1085.4 1016.2 875.18 1210.7 TRUE FALSE FALSE 928.2445356 819.777741 1008.875663 977.9807679 1196.608422 985.3250204 963.2679354 990.2070754 869.0895511 1262.899202 0.735010786 0.649123651 0.798856837 0.774393369 0.947509049 0.78020876 0.762743324 0.784074512 0.688170164 1 10.30252378 -9.283215264 1.018966905 0.999563765 0.778662647 0 0.117724195 0.313952804 0.586020183 0.049552021 0.013488692 5.21E-10 9.283215264 -0.220901118 T(ph)EALIRY(ph)LET(ph)MK ddPTM_HeLa_SAHA_4h_R1 1 TEALIRYLETMK 12 1 Q9NUJ7 Q9NUJ7 PLCXD1 PI-PLC X domain-containing protein 1 3 0 T(1)EALIRY(1)LET(1)MK 45.115 0.0088044 0 200.81 242.88 255.43 215.17 288.41 737.02 172.11 669.13 572.89 177.82 TRUE FALSE FALSE 221.9321171 250.7494714 290.2386702 219.3349265 266.3120881 674.2217496 152.7437298 652.0146235 568.9032118 185.4866904 1.196485401 1.351846166 1.564741219 1.182483368 1.435747694 3.634879398 0.823475417 3.515155842 3.067083738 1 7.53517186 -1 0.270507392 0.989052428 14.85351177 0.06947249 0.99233533 33.92131711 0.430305568 0.313611148 222.5867532 0.1 1 13.86445934 T(ph)EARSSDEENGPPS(ph)SPDLDR ddPTM_HeLa_SAHA_4h_R1 1 TEARSSDEENGPPSSPDLDR 20 1 Q96B36;Q96B36-2;Q96B36-3 Q96B36;Q96B36-3 AKT1S1 Proline-rich AKT1 substrate 1 2 0 T(0.43)EARS(0.252)S(0.318)DEENGPPS(0.557)S(0.443)PDLDR 128.47 0.00028459 35112000 881.96 980.02 1109.6 1091.7 1112.6 1130.2 1230.3 1127 947.29 1073.6 TRUE FALSE FALSE 974.7285994 1011.773291 1260.810509 1112.831432 1027.352828 1033.900602 1091.863406 1098.172972 940.6977318 1119.88815 0.870380314 0.903459235 1.125836102 0.99369873 0.917370925 0.923217735 0.974975408 0.980609512 0.839992576 1 10.12913893 T(ph)EESARGIIFT(ph)KT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 TEESARGIIFTKTR 14 2 A0A3B3IRK8;Q9BYX4 A0A3B3IRK8 IFIH1 Interferon-induced helicase C domain-containing protein 1 3 0 T(0.997)EES(0.003)ARGIIFT(1)KT(1)R 64.588 0.0069673 0 439.02 359.27 367.74 416.49 415.97 644.53 948.05 430.02 696.82 653.8 TRUE FALSE FALSE 485.1981379 370.9105837 417.8536921 424.5517662 384.0984685 589.612418 841.3729189 419.0207111 691.9707729 681.9885176 0.711446198 0.543866318 0.612699014 0.622520402 0.563203718 0.864548893 1.233705403 0.614410214 1.014636984 1 9.413603639 -3.978587525 23.27335828 0.809397044 0.000160524 0.055996845 0.21814154 18481.59686 970476.1042 0.031682566 637749.474 0.000105054 3.978587525 -0.80923652 T(ph)EESPASDEAGEK ddPTM_HeLa_SAHA_4h_R1 1 TEESPASDEAGEK 13 0 A6NEL0;P05114;A6NL93 A6NEL0 HMGN1 Non-histone chromosomal protein HMG-14 1 0 T(0.883)EES(0.115)PAS(0.002)DEAGEK 155.43 0.00017166 7117500 1244.5 2164.8 1287.7 1528.7 1823.8 2558.5 1793.7 1456.1 2923.7 1869.2 TRUE FALSE FALSE 1375.40222 2234.94094 1463.18105 1558.290199 1684.060838 2340.501406 1591.868155 1418.85507 2903.353734 1949.79036 0.705410309 1.14624679 0.750429934 0.7992091 0.863713799 1.200386182 0.816430416 0.727696218 1.489059436 1 10.9291033 T(ph)EFALHLYQSVAACRNE ddPTM_HeLa_SAHA_4h_R1 1 TEFALHLYQSVAACRNE 17 1 E5RG55 E5RG55 SERPINE3 1 0 T(0.993)EFALHLY(0.007)QSVAACRNE 69.422 0.021202 1972300 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 T(ph)EGGNNMALVENVTT(ph)LQK ddPTM_HeLa_SAHA_4h_R1 1 TEGGNNMALVENVTTLQK 18 0 F8WC02;F8WE25;F8W8P2;A0A0A0MT08;Q68CQ1-8;Q68CQ1-2;Q68CQ1-1;Q68CQ1-9;Q68CQ1 F8WC02 MROH7-TTC4;MROH7 Maestro heat-like repeat-containing protein family member 7 2 0 T(1)EGGNNMALVENVT(0.312)T(0.688)LQK 99.881 0.00052666 0 710.23 871.18 670.6 966.55 997.72 930.56 915.85 1005.5 761.44 958.55 TRUE FALSE FALSE 784.9352501 899.4068036 761.9858757 985.2589729 921.2749091 851.2710528 812.7961476 979.7807659 756.141077 999.8777815 0.785031195 0.899516741 0.762079016 0.985379404 0.92138752 0.851375107 0.812895498 0.979900528 0.756233503 1 9.96560795 -9.572747894 1.366951399 0.999658261 0.862416138 0 0.104205382 0.404067122 1.358890441 0.050524925 0.011960393 2.67E-10 9.572747894 -0.137242123 T(ph)EMDKSPFNSPSPQDSPR ddPTM_HeLa_SAHA_4h_R1 1 TEMDKSPFNSPSPQDSPR 18 1 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 1 0 T(0.813)EMDKS(0.183)PFNS(0.003)PS(0.001)PQDSPR 70.335 0.0092614 12938000 1310.1 1536.5 1199.4 1479.2 1900.4 2303.1 1730.2 1623.3 1678.7 1565.1 TRUE FALSE FALSE 1447.902329 1586.283608 1362.847986 1507.832055 1754.791763 2106.862923 1535.513342 1581.778337 1667.01779 1632.57912 0.886880342 0.971642714 0.834782198 0.923588962 1.074858634 1.290511986 0.940544518 0.968883111 1.02109464 1 10.6729372 -5.757964547 24.61084649 0.936673177 1.075389409 0.281904397 0.100596808 71.61397715 507202.624 0.014792898 0.028655002 1.75E-06 5.757964547 0.138716232 T(ph)ESGEETDLISPPQEEVK ddPTM_HeLa_SAHA_4h_R1 1 TESGEETDLISPPQEEVK 18 0 A0A5F9UY30;A0A5H1ZRP2;O43493;O43493-5;O43493-3;O43493-7 A0A5F9UY30 TGOLN2 Trans-Golgi network integral membrane protein 2 1 0 T(0.492)ES(0.492)GEET(0.017)DLISPPQEEVK 151.04 5.45E-10 0 422.2 388.69 404.06 383.94 561 390.69 368.9 289.14 472.93 271.2 TRUE FALSE FALSE 466.6089331 401.283811 459.1231925 391.3717139 518.0163012 357.401014 327.3904011 281.7442175 469.6388416 282.8927592 1.649419852 1.418501527 1.622958445 1.383463172 1.831140191 1.263379858 1.15729509 0.99594001 1.660130301 1 8.14411144 -2.928233408 8.866829449 1.349759978 1.308160629 0 0.281136313 0 0 0.04190182 0 0.001179686 2.928233408 -0.041599349 T(ph)ESPATAAETASEELDNR ddPTM_HeLa_SAHA_4h_R1 2 TESPATAAETASEELDNR 18 0 C9JWF0;C9IYK2;C9JJ64;C9JR83;Q9NTJ3-2;Q9NTJ3 C9JWF0 SMC4 Structural maintenance of chromosomes protein 4 1 0 T(0.719)ES(0.281)PATAAETASEELDNR;T(0.86)ES(0.139)PATAAETASEELDNR ; 240.34 3.72E-37 223796000 17716.49 17222.92 17841.5 18401.75 20980.85 22001.81 21034.39 20924.88 19963.65 19353.18 TRUE FALSE FALSE 19579.9917 17780.95391 20272.84671 18757.94248 19373.30181 20127.13201 18667.54508 20389.65187 19824.72133 20187.5903 0.969902371 0.880786347 1.004223209 0.929181849 0.959663908 0.997005175 0.924703979 1.010009197 0.982025147 1 14.30118109 -8.36731644 1.223650778 0.994591369 0.958277459 0.09416921 0.038246915 0.543313412 1.653743666 0.010067728 0.0069197 4.29E-09 8.36731644 -0.03631391 T(ph)ET(ph)VT(ph)S(ph)FRKR ddPTM_HeLa_SAHA_4h_R1 1 TETVTSFRKR 10 2 P78527-2;P78527 P78527-2 PRKDC DNA-dependent protein kinase catalytic subunit 4 0 T(1)ET(1)VT(1)S(1)FRKR 49.632 0.0087477 0 454.74 498.92 349.63 277.39 202.48 728.3 332.12 509.1 895.3 501.53 TRUE FALSE FALSE 502.5716396 515.0853354 397.2757556 282.7592846 186.9660261 666.2447427 294.7489835 496.0779592 889.0695344 523.1534127 0.960658246 0.98457799 0.759386723 0.540490184 0.35738279 1.273516958 0.563408316 0.948245672 1.699443247 1 9.031090263 -6.734204505 5.426250669 0.981490266 0.728308838 0.21764175 0.325924046 0.208781984 16.58645601 0.035280585 0.049237502 1.84E-07 6.734204505 -0.253181428 T(ph)ETPPPLASLNVSK ddPTM_HeLa_SAHA_4h_R1 1 TETPPPLASLNVSK 14 0 Q3MHD2-2;Q3MHD2;K7ELG9 Q3MHD2-2 LSM12 Protein LSM12 homolog 1 0 T(0.5)ET(0.5)PPPLASLNVSK 132.24 0.00074516 10768000 2287.5 2792.6 2445.5 3070.1 3333.6 3263.5 3101 2388.3 4117.8 2853.9 TRUE FALSE FALSE 2528.109745 2883.082072 2778.760004 3129.526225 3078.180288 2985.43144 2752.067319 2327.210744 4089.143895 2976.945596 0.849229408 0.968469856 0.933426532 1.051254087 1.034006229 1.00285052 0.924460065 0.781744466 1.373603838 1 11.53961714 -5.119835949 0.002796561 1.86918661 2.96E-08 0 0.155016073 444687.2231 266.2191416 87676.6663 90272.43216 7.59E-06 5.119835949 -1.86918658 T(ph)ETQEKNTLPTK ddPTM_HeLa_SAHA_4h_R1 1 TETQEKNTLPTK 12 1 P63313;CON__P21752 P63313 TMSB10 Thymosin beta-10 1 0 T(0.648)ET(0.009)QEKNT(0.342)LPTK 150.9 0.017775 14292000 592.71 1021.7 657.84 786.11 1247.7 919.11 1202 1244.9 1301.1 833.95 TRUE FALSE FALSE 655.0539573 1054.80375 747.4870093 801.3262958 1152.101496 840.7966572 1066.747797 1213.057261 1292.045539 869.9056658 0.753017233 1.212549581 0.859273642 0.92116459 1.324398197 0.966537741 1.226279858 1.394469893 1.485270863 1 9.764715151 -4.053884495 0.455668687 0.896111086 1.79513169 0 0.241047661 3.646710597 0.444975068 0.037377648 1.835815373 8.83E-05 4.053884495 0.899020605 T(ph)FDGAFLRFPANCAFVLS(ph)TICQK ddPTM_HeLa_SAHA_4h_R1 1 TFDGAFLRFPANCAFVLSTICQK 23 1 A0A2R8YGQ5;A0A2R8YDL0;O75443 A0A2R8YGQ5 TECTA Alpha-tectorin 2 0 T(1)FDGAFLRFPANCAFVLS(0.527)T(0.473)ICQK 66.501 0.0051234 0 523.37 580.49 522.65 669.41 745.89 775.25 787.72 760.21 1062.5 456.97 TRUE FALSE FALSE 578.4204579 599.2982569 593.8740202 682.3673985 688.7400693 709.1943386 699.0836724 740.764929 1055.105976 476.6722131 1.213455373 1.257254441 1.245875056 1.43152334 1.444892424 1.487802979 1.466592038 1.554034216 2.213483285 1 8.896853718 -6.533791912 0.221551395 0.921032071 1.71674274 0 0.381224855 0.446995107 0.060855878 0.062224387 0.123969544 2.93E-07 6.533791912 0.795710669 T(ph)FPASNYTVSSR ddPTM_HeLa_SAHA_4h_R1 2 TFPASNYTVSSR 12 0 O95835;O95835-2;Q6PJG3 O95835 LATS1 Serine/threonine-protein kinase LATS1 1 0 T(1)FPASNYTVSSR;T(0.999)FPAS(0.001)NYTVSSR ; 177.93 5.89E-05 36208000 537.34 522.84 458.32 623.55 659.55 643.11 837.94 564.7 587.48 577.18 TRUE FALSE FALSE 593.8598866 539.780359 520.7774628 635.6197119 609.0154215 588.31341 743.6527859 550.2557917 583.3916788 602.0650545 0.986371626 0.89654823 0.864985368 1.055732611 1.011544213 0.977159205 1.235170154 0.913947401 0.968984455 1 9.233775572 T(ph)FPCKR ddPTM_HeLa_SAHA_4h_R1 1 TFPCKR 6 1 Q9NXH9-2;Q9NXH9 Q9NXH9-2 TRMT1 tRNA (guanine(26)-N(2))-dimethyltransferase 1 0 T(1)FPCKR 71.296 0.0080225 0 472.17 475.16 482.96 674.69 560.11 1200 547.31 911.9 1147.2 662.74 TRUE FALSE FALSE 521.835007 490.5554958 548.7752737 687.7496006 517.1944928 1097.753249 485.7252384 888.5749184 1139.216542 691.3139648 0.75484517 0.709598707 0.793814825 0.994844073 0.74813257 1.587922861 0.70261164 1.285342064 1.647900375 1 9.433197259 T(ph)FQSTQAAT(ph)AS(ph)S(ph)R ddPTM_HeLa_SAHA_4h_R1 1 TFQSTQAATASSR 13 0 H0YKW9;P50440-3;P50440 H0YKW9 GATM "Glycine amidinotransferase, mitochondrial" 4 0 T(0.998)FQS(0.006)T(0.006)QAAT(0.997)AS(0.997)S(0.996)R 54.608 0.0082717 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 T(ph)FSLTEVR ddPTM_HeLa_SAHA_4h_R1 1 TFSLTEVR 8 0 O95239;O95239-2 O95239 KIF4A Chromosome-associated kinesin KIF4A 1 0 T(0.499)FS(0.499)LT(0.003)EVR 131.12 0.0031931 39325000 2856.1 2893.9 2451.5 2496.7 3742 3640.2 4045.2 3183.2 1978.4 2234.3 TRUE FALSE FALSE 3156.517702 2987.664259 2785.577653 2545.027239 3455.288768 3330.034481 3590.02345 3101.778353 1964.632153 2330.631607 1.354361492 1.281911843 1.195202899 1.091990356 1.482554668 1.428812031 1.54036504 1.330874576 0.842961259 1 11.18650527 -12.79478551 0.153190611 8.07E-14 1.4734984 0.632278437 0.127881156 31.00381184 0.395202569 9.754449587 0.296152721 1.60E-13 12.79478551 1.4734984 T(ph)FSPTYGLLR ddPTM_HeLa_SAHA_4h_R1 1 TFSPTYGLLR 10 0 O15061;H0YL34;A0A075B7B1;O15061-2 O15061 SYNM Synemin 1 0 T(0.978)FS(0.015)PT(0.007)YGLLR 120.63 0.0052122 8435700 1855 1687 2429.7 2646.3 1976.3 1359.7 2489.4 1383.8 1077 1063.7 TRUE FALSE FALSE 2050.117411 1741.659907 2760.806863 2697.522963 1824.876321 1243.845911 2209.28616 1348.4044 1069.505069 1109.561313 1.847682852 1.56968334 2.48819676 2.431161696 1.644682723 1.121024946 1.991134816 1.215259026 0.963899027 1 10.11577368 -9.127375012 0.829748691 0.986674102 1.807164572 0.361670904 0.425146276 0.619190208 0.752429322 0.317522494 0.086817695 7.46E-10 9.127375012 0.82049047 T(ph)GDLGIPPNPEDRS(ph)PSPEPIYNSEGKR ddPTM_HeLa_SAHA_4h_R1 1 TGDLGIPPNPEDRSPSPEPIYNSEGKR 27 2 Q15637-6;Q15637-4;Q15637-3;Q15637-2;Q15637;Q15637-7;Q15637-5 Q15637-6 SF1 Splicing factor 1 2 0 T(0.952)GDLGIPPNPEDRS(0.913)PS(0.132)PEPIY(0.001)NS(0.001)EGKR 61.256 0.0035658 17853000 1791.4 1553.4 1527.7 1247.8 1500.5 1454.4 1963 1291.1 1199.6 1863.8 TRUE FALSE FALSE 1979.827671 1603.731179 1735.887 1271.952973 1385.532014 1330.476938 1742.118074 1258.075531 1191.251886 1944.157539 1.018347346 0.82489775 0.89287363 0.654243778 0.712664476 0.684346258 0.896078655 0.647105755 0.612734237 1 10.92492941 -6.882207561 1.40380587 1.010097831 0.730964756 0 0.148066043 0.144047208 0.566319132 0.013373167 0.018709553 1.31E-07 6.882207561 -0.279133075 T(ph)GPPPISPSK ddPTM_HeLa_SAHA_4h_R1 1 TGPPPISPSK 10 0 A0A075B6E4;A0A0A6YYI5;G5E9M7;Q14135-2;Q14135;Q14135-4;F8W708;E7ERW0;E7EQU6;E7EWF5;A0A096LP98;E7EUJ2;F8WBN7 A0A075B6E4 VGLL4 Transcription cofactor vestigial-like protein 4 1 0 T(0.79)GPPPIS(0.208)PS(0.002)K 136.49 0.0022685 47914000 4064.8 4123.2 3610.1 3186.8 3508 3472.7 3613.9 3379.3 4074.1 3813.6 TRUE FALSE FALSE 4492.354314 4256.794385 4102.065627 3248.485122 3239.217798 3176.806423 3207.254461 3292.862399 4045.748006 3978.022959 1.129293209 1.070077883 1.031181989 0.816607937 0.814278306 0.798589263 0.806243326 0.827763548 1.0170248 1 11.95783589 -6.291143962 3.932609124 1.062911116 0.809794011 0.926478148 0.033355149 0.057872023 2.000700052 0.007542392 0.01208304 5.12E-07 6.291143962 -0.253117106 T(ph)GSCSELDACPSK ddPTM_HeLa_SAHA_4h_R1 1 TGSCSELDACPSK 13 0 Q9H1H9-3;Q9H1H9-4;Q9H1H9-2;A0A1B0GUA8;Q9H1H9;H0Y9Z7 Q9H1H9-3 KIF13A Kinesin-like protein KIF13A 1 0 T(0.997)GS(0.003)CSELDACPSK 189.99 3.62E-07 21147000 1117.3 1580.4 994.3 1039.9 1330.2 1741.5 1514.8 1582.5 1419 1592.6 TRUE FALSE FALSE 1234.82274 1631.605997 1129.798026 1060.028768 1228.280363 1593.114403 1344.350717 1542.021941 1409.125063 1661.26478 0.743302787 0.982146866 0.680083054 0.63808538 0.739364596 0.958976812 0.809233262 0.928221654 0.848224245 1 10.69806632 -9.421416176 1.003806425 1.006918838 0.802421686 0.071795468 0.119580587 0.599552615 1.019532551 0.092447202 0.020316205 3.79E-10 9.421416176 -0.204497152 T(ph)GSESSQT(ph)GTSTTSSR ddPTM_HeLa_SAHA_4h_R1 2 TGSESSQTGTSTTSSR 16 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 2 0 T(0.993)GS(0.007)ES(0.001)S(0.293)QT(0.697)GT(0.008)STTSSR;T(0.568)GS(0.255)ES(0.048)S(0.277)QT(0.594)GT(0.102)S(0.113)T(0.043)TSSR ; 201.4 1.60E-14 100490000 8375.27 9397.24 6958.07 9906.47 10024.73 10853.14 10935.95 9314.76 11126.17 9071.41 TRUE FALSE FALSE 9256.219326 9701.716742 7906.279544 10098.22405 9256.637353 9928.391414 9705.408124 9076.501927 11048.74208 9462.52288 0.978197828 1.025278022 0.835536109 1.067180939 0.978242005 1.049233015 1.025668128 0.959205282 1.167631742 1 13.20800917 T(ph)GSGQGPSSTGQPGR ddPTM_HeLa_SAHA_4h_R1 1 TGSGQGPSSTGQPGR 15 0 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 T(0.695)GS(0.303)GQGPS(0.001)STGQPGR 124.6 0.0010089 1307500 0 0 0 78.34 0 0 171.59 185.14 0 0 TRUE FALSE FALSE 0 0 0 79.85638398 0 0 152.2822416 180.4043869 0 0 0 T(ph)GSNAAQYK ddPTM_HeLa_SAHA_4h_R1 1 TGSNAAQYK 9 0 Q8N556;Q8N556-2 Q8N556 AFAP1 Actin filament-associated protein 1 1 0 T(0.692)GS(0.308)NAAQYK 111.86 0.0099966 144610000 3235.3 3110.3 2416.7 3530.8 4353.6 3492 4025 3225.6 3041.8 3607.9 TRUE FALSE FALSE 3575.603698 3211.075761 2746.03529 3599.14374 4020.028109 3194.461955 3572.096407 3143.093823 3020.631866 3763.454226 0.950085609 0.853225672 0.729658214 0.956340512 1.068175104 0.848811162 0.949153674 0.835161964 0.802622188 1 11.87784171 -7.586458932 2.755686423 0.98099037 0.895540922 0 0.102131149 0.344587943 5.466422226 0.016444645 0.017383772 2.59E-08 7.586458932 -0.085449448 T(ph)GSPGPELLFHEGQQKR ddPTM_HeLa_SAHA_4h_R1 2 TGSPGPELLFHEGQQKR 17 1 A6NHN7;A6NHB5;Q14202-2;Q14202;A6NL54;Q14202-3 A6NHN7 ZMYM3 Zinc finger MYM-type protein 3 1 0 T(0.5)GS(0.5)PGPELLFHEGQQKR;T(0.5)GS(0.5)PGPELLFHEGQQKR ; 98.882 0.0016761 12767600 6765.4 5319.6 6827.4 5905 6260.1 5559.2 7292.4 7046.8 3451.9 5695.6 TRUE FALSE FALSE 7477.015813 5491.95853 7757.802516 6019.299814 5780.45249 5085.524885 6471.839959 6866.55306 3427.877947 5941.16519 1.258510002 0.924390815 1.30577122 1.013151397 0.972949296 0.855981061 1.089321666 1.15575865 0.576970651 1 12.53653019 -6.059259289 24.9997294 1.121456091 1.009588438 0 0.213416802 403.1835402 170090.3082 0.021074581 0.034948299 8.72E-07 6.059259289 -0.111867652 T(ph)GSYGALAEITASK ddPTM_HeLa_SAHA_4h_R1 1 TGSYGALAEITASK 14 0 O14974-5;O14974-4;O14974-3;O14974-2;O14974;H0YIS4;H0YHI8;A0A3B3ISH4;F8VZN8 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 T(0.663)GS(0.336)YGALAEITASK 162.29 1.89E-05 33437000 2207.4 2566.4 2603.7 3036 3099.9 3096.3 3171.6 2924.3 2617.9 2707.4 TRUE FALSE FALSE 2439.58446 2649.553044 2958.518677 3094.76617 2862.386332 2832.477821 2814.723221 2849.50064 2599.681821 2824.129264 0.863835976 0.938184055 1.047586141 1.095830212 1.0135465 1.002956153 0.996669401 1.008983787 0.920525082 1 11.46359041 -6.771430715 22.98459232 0.934089963 1.027532672 0.574969802 0.040796376 60.21371292 138518.7039 0.009343886 0.01237468 1.69E-07 6.771430715 0.093442709 T(ph)HPYSPK ddPTM_HeLa_SAHA_4h_R1 3 THPYSPK 7 0 M0QZ39;M0R1C6;H0YD59;E9PME6;M0QXT0;B1AQP1;B4DLJ1;Q15853-4;P22415-2;Q15853-3;P22415;Q15853-2;Q15853 M0QZ39 USF2;USF1 Upstream stimulatory factor 2;Upstream stimulatory factor 1 1 0 T(0.992)HPY(0.007)S(0.001)PK;T(0.986)HPY(0.011)S(0.003)PK;T(0.998)HPY(0.002)S(0.001)PK ;; 99.136 0.016155 40887700 19138.5 16724.9 17596.7 26022.6 20760 3284.43 27828.6 24855.8 21817.5 25839.8 TRUE FALSE FALSE 21151.57524 17266.79773 19994.68664 26526.30505 19169.37328 3004.578086 24697.25269 24220.02463 21665.67024 26953.88023 0.784732107 0.64060527 0.741811066 0.984136786 0.711191603 0.111471078 0.916278193 0.898572837 0.803805243 1 14.71820536 -8.681428116 0.443101055 1.038355997 0.692080576 0.059686519 0.235847063 1.810471076 0.657257537 0.277228033 0.08119945 2.08E-09 8.681428116 -0.346275421 T(ph)HT(ph)GERPYPCPQCGK ddPTM_HeLa_SAHA_4h_R1 1 THTGERPYPCPQCGK 15 1 Q9NW07 Q9NW07 ZNF358 Zinc finger protein 358 2 0 T(1)HT(1)GERPYPCPQCGK 79.639 0.0052685 0 630.81 460.95 626.64 655.16 757.55 949.81 720.24 675.42 606.51 754.69 TRUE FALSE FALSE 697.1614901 475.8850824 712.0352358 667.8415692 699.5066827 868.8808445 639.1966996 658.1437344 602.2892475 787.2283793 0.885589885 0.604507021 0.904483698 0.848345393 0.888568935 1.103721445 0.811958406 0.836026434 0.765075629 1 9.62063842 -8.652272115 1.128085486 0.985814458 0.864211445 0 0.134310025 0.605787352 1.550944493 0.040906212 0.022576996 2.23E-09 8.652272115 -0.121603012 T(ph)HTGERPNACADCGK ddPTM_HeLa_SAHA_4h_R1 1 THTGERPNACADCGK 15 1 Q6DD87 Q6DD87 ZNF787 Zinc finger protein 787 1 0 T(0.636)HT(0.364)GERPNACADCGK 88.637 0.0097813 1496500 386.31 479.25 328.74 486.54 314.52 0 389.94 510.28 609.23 383.87 TRUE FALSE FALSE 426.9438583 494.7780144 373.5389752 495.9576852 290.4215455 0 346.0629249 497.2277765 604.9903188 400.4205143 1.066238724 1.235646019 0.932866728 1.238592099 0.725291375 0 0.86424874 1.241763992 1.510887423 1 8.645372078 -5.649238898 7.006370138 1.053307802 0.661423944 0.274629432 0.333280217 0.222118609 12.89798284 0.042743917 0.085808099 2.24E-06 5.649238898 -0.391883858 T(ph)ISDGTISASK ddPTM_HeLa_SAHA_4h_R1 1 TISDGTISASK 11 0 A0A075B6Q2;S4R347;Q5T0N5-3;Q5T0N5-4;Q5T0N5-2;Q5T0N5-5;Q5T0N5 A0A075B6Q2 FNBP1L Formin-binding protein 1-like 1 0 T(0.976)IS(0.012)DGT(0.007)IS(0.005)ASK 132.14 0.0021656 10465000 810.56 1011.6 778.76 1315 952.84 1285.1 1065.9 1090.6 1211.6 861.4 TRUE FALSE FALSE 895.8184198 1044.376504 884.8853572 1340.453727 879.8336051 1175.60225 945.9621267 1062.704031 1203.168377 898.5391696 0.99697203 1.162304927 0.984804433 1.491814461 0.979182249 1.308348361 1.052777841 1.182701954 1.339027187 1 9.811437586 -7.002411065 1.504121336 0.99731816 1.18035816 0 0.179910097 0.367342197 1.629644921 0.02361268 0.031176522 9.94E-08 7.002411065 0.18304 T(ph)ISKLMT(ph)EY(ph)K ddPTM_HeLa_SAHA_4h_R1 1 TISKLMTEYK 10 1 Q5TH69 Q5TH69 ARFGEF3 Brefeldin A-inhibited guanine nucleotide-exchange protein 3 3 0 T(0.939)IS(0.063)KLMT(0.999)EY(0.999)K 50.878 0.0081511 0 227.47 336.38 208.57 309.02 437.39 207.67 266.33 252.2 353.25 225.24 TRUE FALSE FALSE 251.3963383 347.2789327 236.9928334 315.001529 403.8772727 189.9753477 236.3618475 245.7490892 350.7917045 234.9511987 1.069993853 1.47808964 1.008689612 1.340710457 1.718983665 0.808573647 1.006004008 1.045958014 1.49304071 1 7.876217318 -7.497286589 20.61514802 1.030878625 1.201859701 0 0.288478835 68.01974431 54795.11403 0.043629975 0.047217855 3.18E-08 7.497286589 0.170981076 T(ph)ISQEFLTPGK ddPTM_HeLa_SAHA_4h_R1 3 TISQEFLTPGK 11 0 E7ETM8;Q0ZGT2-4;E7EUA0;Q0ZGT2-2;Q0ZGT2;H7BXY5;Q0ZGT2-3 E7ETM8 NEXN Nexilin 1 0 T(0.999)IS(0.001)QEFLTPGK;T(0.597)IS(0.403)QEFLTPGK;T(0.98)IS(0.02)QEFLTPGK ;; 168.76 0.00019666 27248300 4699.32 7331.6 4510.9 5723.9 6888.9 8408.2 6601.9 6420 9441.8 6157.6 TRUE FALSE FALSE 5193.616039 7569.14865 5125.62196 5834.694361 6361.07397 7691.774057 5859.036837 6255.785696 9376.093745 6423.084271 0.808586003 1.178428981 0.798000111 0.90839449 0.990345713 1.19752034 0.912184332 0.973953545 1.459749452 1 12.64905051 -5.623647504 5.216335501 0.920800976 1.027937764 0 0.208860515 0.330469267 14.21389155 0.018331868 0.037239042 2.38E-06 5.623647504 0.107136788 T(ph)KFASDDEHDEHDENGATGPVK ddPTM_HeLa_SAHA_4h_R1 2 TKFASDDEHDEHDENGATGPVK 22 1 P05455 P05455 SSB Lupus La protein 1 0 T(0.829)KFAS(0.171)DDEHDEHDENGATGPVK;T(0.499)KFAS(0.499)DDEHDEHDENGAT(0.002)GPVK ; 67.778 0.0017882 69315000 11570.9 12820.3 10505.5 13145.1 13573.6 10409.8 13179.4 13141.3 16029 12752.6 TRUE FALSE FALSE 12787.98035 13235.68613 11937.13483 13399.54242 12533.5937 9522.826476 11696.41923 12805.16457 15917.45288 13302.427 0.961326858 0.994982805 0.897365183 1.007300579 0.942203532 0.715871358 0.879269567 0.962618669 1.196582615 1 13.69940187 -5.50579572 24.60599239 0.97689363 0.850885259 0.328326006 0.093880153 395.5436387 569731.1255 0.008659983 0.01893435 3.12E-06 5.50579572 -0.126008372 T(ph)KFASDDEHDEHDENGATGPVKR ddPTM_HeLa_SAHA_4h_R1 2 TKFASDDEHDEHDENGATGPVKR 23 2 P05455 P05455 SSB Lupus La protein 1 0 T(0.712)KFAS(0.288)DDEHDEHDENGATGPVKR;T(0.804)KFAS(0.196)DDEHDEHDENGATGPVKR ; 87.098 0.00054586 98916000 6113.6 4392.5 4976.3 5855.6 6041.1 4391.2 6614.7 6667.9 4192.4 5355.9 TRUE FALSE FALSE 6756.656498 4534.819882 5654.444249 5968.943605 5578.232223 4017.045056 5870.396547 6497.344773 4163.224747 5586.81906 1.209392398 0.811699794 1.012104417 1.068397516 0.998463019 0.719021864 1.050758309 1.162977484 0.745186966 1 12.44781138 -7.276690837 24.98123381 1.098879738 0.973808157 0 0.170590738 1153.498029 1889376.905 0.024009418 0.027507775 5.29E-08 7.276690837 -0.12507158 T(ph)KLEEALSPEVLELR ddPTM_HeLa_SAHA_4h_R1 1 TKLEEALSPEVLELR 15 1 Q9Y3E2 Q9Y3E2 BOLA1 BolA-like protein 1 1 0 T(0.998)KLEEALS(0.002)PEVLELR 83.869 0.013544 1870300 810.25 620.3 1010.7 1280.6 1274.2 1240.8 1229.6 976.43 1069.9 1160.5 TRUE FALSE FALSE 895.4758126 640.398127 1148.432933 1305.387865 1176.571071 1135.076859 1091.242172 951.4543345 1062.454479 1210.534834 0.739735683 0.529020817 0.94869879 1.0783563 0.971943176 0.93766559 0.901454581 0.785978484 0.877673611 1 10.24142888 -9.6540066 1.535270743 0.999024692 0.848304548 0.010685848 0.14830619 0.735078664 3.148470138 0.110030108 0.025529539 2.22E-10 9.6540066 -0.150720144 T(ph)KSPTDDEVTPSAVVR ddPTM_HeLa_SAHA_4h_R1 1 TKSPTDDEVTPSAVVR 16 1 Q5VTI5;A0A1B0GUN5;Q9Y2H5 Q5VTI5 PLEKHA6 Pleckstrin homology domain-containing family A member 6 1 0 T(0.948)KS(0.052)PT(0.001)DDEVTPSAVVR 133.35 0.00013775 42457000 1348.8 1233.7 1116.1 1175.6 1579.2 1770.4 1670.3 1348.1 1500.2 1477.4 TRUE FALSE FALSE 1490.672973 1273.672689 1268.196296 1198.355438 1458.202037 1619.55196 1482.353448 1313.617554 1489.759986 1541.097944 0.96727984 0.826470955 0.822917388 0.777598492 0.946209839 1.050907871 0.9618814 0.852390699 0.966687414 1 10.58974284 -7.448898338 7.371712243 0.985710686 0.895059235 0.216348403 0.075810134 0.333075197 29.02692045 0.014365261 0.016317351 3.56E-08 7.448898338 -0.090651452 T(ph)KSSDDLLAGMAGGVTVTNGVK ddPTM_HeLa_SAHA_4h_R1 1 TKSSDDLLAGMAGGVTVTNGVK 22 1 F8WAN1;Q69YQ0-2;Q69YQ0;C9J8U1 F8WAN1 SPECC1L-ADORA2A;SPECC1L Cytospin-A 1 0 T(0.333)KS(0.333)S(0.333)DDLLAGMAGGVTVTNGVK 148.84 2.82E-06 1881300 2076.4 1527.1 1356.1 2104.1 1862.4 1943.9 1728 2345.5 1894 2077.8 TRUE FALSE FALSE 2294.805279 1576.579042 1540.902246 2144.827898 1719.703314 1778.268784 1533.560892 2285.505506 1880.8195 2167.384127 1.058790295 0.727410994 0.710950231 0.989592879 0.793446484 0.820467753 0.707563036 1.054499513 0.867783185 1 11.08173915 -7.273269613 24.69423997 1.027762089 0.824377424 0.202399009 0.120193551 411.2734847 858483.8635 0.017534786 0.020138842 5.33E-08 7.273269613 -0.203384665 T(ph)LCGTPNYIAPEVLSK ddPTM_HeLa_SAHA_4h_R1 1 TLCGTPNYIAPEVLSK 16 0 P53350 P53350 PLK1 Serine/threonine-protein kinase PLK1 1 0 T(0.999)LCGT(0.001)PNYIAPEVLSK 97.129 0.0058541 0 143.59 212.4 117.3 258.85 164.81 303.52 150.34 164.78 0 56.936 TRUE FALSE FALSE 158.693455 219.2818994 133.2850331 263.8604161 152.1822934 277.6583884 133.4233475 160.5651662 0 59.3907896 2.672021303 3.692186968 2.244203757 4.442783432 2.562388788 4.675108553 2.246532643 2.703536479 0 1 5.892167308 -8.570740597 0.595812087 0.965269522 3.270661636 0.574077082 0.887140473 0.462405723 0.329629736 0.513517621 0.196362081 2.69E-09 8.570740597 2.305392114 T(ph)LNT(ph)ES(ph)NCEY(ph)K ddPTM_HeLa_SAHA_4h_R1 1 TLNTESNCEYK 11 0 Q9Y473 Q9Y473 ZNF175 Zinc finger protein 175 4 0 T(1)LNT(1)ES(1)NCEY(1)K 69.045 0.011106 8817500 2410.8 3655.2 2466.5 3341.2 3489.8 3865.4 2879.5 1992.5 5235.4 3036.8 TRUE FALSE FALSE 2664.379005 3773.630878 2802.621775 3405.873757 3222.412278 3536.046174 2555.491082 1941.534735 5198.966425 3167.73131 0.841100063 1.191272399 0.884741003 1.075177603 1.017261871 1.116270866 0.80672596 0.61291017 1.641227086 1 11.62923425 -4.49215675 4.263924429 0.967449137 0.639443303 0.178871012 0.237937399 0.133749848 5.379099242 0.015953259 0.089877047 3.22E-05 4.49215675 -0.328005834 T(ph)LRDSPNVEAAHLAR ddPTM_HeLa_SAHA_4h_R1 1 TLRDSPNVEAAHLAR 15 1 Q9UHF7;Q9UHF7-3;Q9UHF7-2;E5RFF3;E5RJ97;H0YC29 Q9UHF7 TRPS1 Zinc finger transcription factor Trps1 1 0 T(0.888)LRDS(0.112)PNVEAAHLAR 140.8 5.94E-05 6214200 1339.9 1701.6 1332.8 1587 1861.9 1726.4 1493.2 1492.9 1930.7 1539.7 TRUE FALSE FALSE 1480.83683 1756.732956 1514.427043 1617.71868 1719.241624 1579.301008 1325.181206 1454.71378 1917.264102 1606.084002 0.922017048 1.093798926 0.942931404 1.007244128 1.070455606 0.983324039 0.825100807 0.905751989 1.193750824 1 10.64933164 -4.773606133 24.93929064 0.982214282 0.865426405 0.257504123 0.086225631 142.7565628 292623.0985 0.008169991 0.024775306 1.68E-05 4.773606133 -0.116787876 T(ph)LS(ph)VRR ddPTM_HeLa_SAHA_4h_R1 3 TLSVRR 6 1 A0A087WUQ5;A0A087WVB8 A0A087WUQ5 CNBD2 2 0 T(1)LS(1)VRR;T(1)LS(1)VRR;T(1)LS(1)VRR ;; 58.917 0.0067631 0 313.726 129.82 266.55 426.401 464.909 503.62 158.79 358.7 127.63 370.21 TRUE FALSE FALSE 346.7251401 134.0262532 302.8740459 434.6546079 429.2877729 460.7087427 140.9225313 349.5249734 126.7418124 386.1715649 0.897852591 0.347064013 0.784299191 1.125547936 1.111650396 1.193015708 0.364922082 0.905102823 0.328200789 1 8.593098127 -7.999891532 2.227830415 0.968944863 0.839159287 0 0.342127636 0.80513643 8.064561166 0.060177072 0.054302847 1.00E-08 7.999891532 -0.129785576 T(ph)LSDDLDEAAKEFQEK ddPTM_HeLa_SAHA_4h_R1 1 TLSDDLDEAAKEFQEK 16 1 A0A087WV29;Q9H0A0-2;Q9H0A0 A0A087WV29 NAT10 N-acetyltransferase 10 1 0 T(0.5)LS(0.5)DDLDEAAKEFQEK 78.674 0.014899 2495300 496.38 444.3 613.55 591.91 769.27 619.28 748.48 691.88 638.35 763.35 TRUE FALSE FALSE 548.5915259 458.6956115 697.1613988 603.367274 710.3286988 566.51386 664.2590605 674.1827114 633.9076704 796.2617542 0.688958779 0.576061338 0.875542992 0.757749912 0.892079388 0.711466873 0.834221984 0.846684784 0.796104631 1 9.637098954 -9.403219971 1.16252464 0.998379394 0.766450636 0.065230961 0.110069925 0.341963559 0.835536637 0.062598414 0.016384932 3.95E-10 9.403219971 -0.231928758 T(ph)LSDESICSNR ddPTM_HeLa_SAHA_4h_R1 2 TLSDESICSNR 11 0 Q9P2F8;Q9P2F8-2 Q9P2F8 SIPA1L2 Signal-induced proliferation-associated 1-like protein 2 1 0 T(0.717)LS(0.277)DES(0.007)ICSNR;T(0.998)LS(0.002)DES(0.001)ICSNR ; 182.41 2.44E-05 17783700 1418.77 1206.86 1207.04 1184.25 1439.83 1638.73 1559.93 1401.4 1447.76 1433.87 TRUE FALSE FALSE 1568.002738 1245.963056 1371.529125 1207.172871 1329.510536 1499.100985 1384.402571 1365.554217 1437.68492 1495.691153 1.048346602 0.833034984 0.916986854 0.807100362 0.888893763 1.00227977 0.925593876 0.912992107 0.961217774 1 10.54659659 -7.273671804 24.98864236 1.022830342 0.900057683 0.424821527 0.054572434 424.4091295 866990.0275 0.009197848 0.010559382 5.33E-08 7.273671804 -0.122772659 T(ph)LSDESIYNSQR ddPTM_HeLa_SAHA_4h_R1 2 TLSDESIYNSQR 12 0 O43166-3;O43166-2;O43166;F5GYF8 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 T(0.873)LS(0.127)DESIYNSQR;T(0.843)LS(0.155)DES(0.002)IYNSQR ; 162.48 0.00024963 47972000 1130.75 1195.33 985.97 1086.26 1146.67 1659.78 1468.17 1114.38 1309.12 987.7 TRUE FALSE FALSE 1249.687473 1234.059476 1120.332857 1107.286133 1058.812392 1518.357406 1302.967648 1085.875773 1300.009727 1030.284581 1.212953679 1.197785058 1.087401363 1.074738139 1.027689254 1.473726226 1.264667716 1.053957124 1.261796742 1 10.00882717 -9.360955417 0.840865643 0.987320891 1.179785238 0 0.148134372 0.927252179 1.046784237 0.121361925 0.024470117 4.36E-10 9.360955417 0.192464347 T(ph)LSESFSR ddPTM_HeLa_SAHA_4h_R1 1 TLSESFSR 8 0 O94921 O94921 CDK14 Cyclin-dependent kinase 14 1 0 T(0.988)LS(0.005)ES(0.007)FSR 117.53 0.0069832 3526900 941.19 1137.2 914.58 1112.9 1114.3 1444.5 1334.7 1170.1 925.63 1114 TRUE FALSE FALSE 1040.188683 1174.046026 1039.214199 1134.441789 1028.922575 1321.420473 1184.516043 1140.170536 919.1884655 1162.029992 0.895147879 1.010340554 0.894309275 0.976258614 0.885452684 1.137165549 1.019350664 0.981188562 0.791019571 1 10.18243159 -5.273344232 24.99867451 0.947935648 1.043246505 0.334318741 0.074053608 594.4238372 1248214.441 0.00831717 0.018738808 5.33E-06 5.273344232 0.095310857 T(ph)LSMIEEEIR ddPTM_HeLa_SAHA_4h_R1 2 TLSMIEEEIR 10 0 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 T(0.907)LS(0.093)MIEEEIR;T(0.588)LS(0.412)MIEEEIR ; 152.67 0.00087933 19286200 631.31 921.52 931.28 739.03 1052.04 982.38 1087.97 1171.43 825.03 727.32 TRUE FALSE FALSE 697.7140824 951.3778526 1058.189989 753.3349943 971.4329225 898.6756973 965.5487522 1141.466517 819.2885491 758.6783246 0.919644149 1.253993717 1.394780837 0.992957054 1.280427938 1.184527972 1.272672121 1.504546103 1.079889226 1 9.56734451 -4.541207773 0.260646076 0.930759802 1.739703229 0.378617446 0.141039394 5.041505978 0.303111974 0.098349733 1.297015845 2.88E-05 4.541207773 0.808943428 T(ph)LSPT(ph)PSAEGYQDVR ddPTM_HeLa_SAHA_4h_R1 1 TLSPTPSAEGYQDVR 15 0 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639;A0A494C1P1;A0A494C1G0;H0Y7N6;F6XFR5 J3QSX6 ABLIM1 Actin-binding LIM protein 1 2 0 T(0.605)LS(0.395)PT(0.611)PS(0.389)AEGYQDVR 164.66 1.89E-05 20007000 2345.1 2613 1825.2 2171.8 2527 3255.4 2727 2143.1 2429.9 2873.1 TRUE FALSE FALSE 2591.768378 2697.662914 2073.928751 2213.838329 2333.381806 2978.021606 2420.150783 2088.282605 2412.990128 2996.973402 0.864795255 0.900129081 0.692007727 0.738691351 0.778579418 0.993676355 0.807531619 0.696797177 0.805142324 1 11.54929056 -8.292808506 0.585538619 0.996435263 0.797724891 0.034747072 0.1033496 0.568330296 0.426238252 0.050517691 0.025059276 5.10E-09 8.292808506 -0.198710372 T(ph)LSPTPS(ph)AEGYQDVR ddPTM_HeLa_SAHA_4h_R1 1 TLSPTPSAEGYQDVR 15 0 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639;A0A494C1P1;A0A494C1G0;H0Y7N6;F6XFR5 J3QSX6 ABLIM1 Actin-binding LIM protein 1 2 0 T(0.997)LS(0.003)PT(0.062)PS(0.938)AEGYQDVR 165.24 1.00E-04 9015200 1154 1036.9 1076.3 1213.3 1022.6 1089.5 1039.4 809.78 1052.5 1086.1 TRUE FALSE FALSE 1275.383015 1070.49624 1222.972559 1236.785176 944.2486089 996.6684706 922.4439764 789.0670001 1045.175567 1132.927086 1.12574148 0.944894207 1.079480378 1.091672351 0.833459294 0.879728698 0.814213013 0.696485246 0.922544425 1 10.1458393 -5.26240267 0.974931389 1.056698179 0.725326166 0.63393727 0.079113304 0.271920104 0.424071775 0.011808381 0.065202222 5.47E-06 5.26240267 -0.331372014 T(ph)LSPTPSAEGYQDVR ddPTM_HeLa_SAHA_4h_R1 2 TLSPTPSAEGYQDVR 15 0 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639;A0A494C1P1;A0A494C1G0;H0Y7N6;F6XFR5 J3QSX6 ABLIM1 Actin-binding LIM protein 1 1 0 T(0.926)LS(0.074)PTPSAEGYQDVR;T(0.959)LS(0.041)PTPSAEGYQDVR ; 261.61 4.04E-44 478979100 2899.2 3406.2 2830.8 2881.2 3727.7 3450.4 3639.8 3655.6 3518.6 2688.7 TRUE FALSE FALSE 3204.151158 3516.563115 3216.566682 2936.969792 3442.084431 3156.406509 3230.240125 3562.095045 3494.113776 2804.623015 1.142453421 1.253845203 1.146880228 1.047188794 1.227289519 1.125429868 1.15175555 1.270079803 1.245840798 1 11.45359115 -8.868483285 0.613700192 0.990192309 1.171036934 0 0.098483169 0.557795817 0.37555723 0.052311598 0.014880721 1.35E-09 8.868483285 0.180844625 T(ph)LTPPLR ddPTM_HeLa_SAHA_4h_R1 1 TLTPPLR 7 0 Q5T200-2;Q5T200 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 T(0.665)LT(0.335)PPLR 101.6 0.022254 6281400 745.19 1130.7 879.32 1010.7 941.22 1365 1134.7 1042.7 1174 1053.9 TRUE FALSE FALSE 823.5725033 1167.335422 999.1491503 1030.26356 869.1039269 1248.694321 1007.02057 1016.029244 1165.830038 1099.338787 0.749152594 1.061852303 0.90886373 0.93716657 0.790569693 1.135859424 0.91602387 0.924218499 1.060482949 1 10.10242034 -5.282033348 24.93309711 0.89399974 0.98443298 0 0.114945883 1337.77185 1619637.454 0.017161376 0.038413117 5.22E-06 5.282033348 0.09043324 T(ph)LTPPLRR ddPTM_HeLa_SAHA_4h_R1 1 TLTPPLRR 8 1 Q5T200-2;Q5T200 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 T(0.966)LT(0.034)PPLRR 73.248 0.0051001 0 2466.6 2288.8 1920.4 2584 2960.3 2390.9 2632.5 2508.4 2322.3 2684.9 TRUE FALSE FALSE 2726.048305 2362.958622 2182.102111 2634.017057 2733.482454 2187.181869 2336.284172 2444.23876 2306.138925 2800.659179 0.973359531 0.843715165 0.779138757 0.940498964 0.976013959 0.780952529 0.834190818 0.872736954 0.823427193 1 11.45155071 -7.316814824 5.23977825 0.988109661 0.861248265 0.022132596 0.078232659 0.131371817 7.883247435 0.010381132 0.011903989 4.82E-08 7.316814824 -0.126861396 T(ph)MSPYPAETFR ddPTM_HeLa_SAHA_4h_R1 1 TMSPYPAETFR 11 0 A0A1B0GTT1;A0A1B0GVM0;Q9BUH8 A0A1B0GTT1 BEGAIN Brain-enriched guanylate kinase-associated protein 1 0 T(0.867)MS(0.133)PYPAETFR 163.46 2.18E-11 0 588.32 894.28 645.39 520.01 717.51 877.62 665.45 455.23 741.4 800.92 TRUE FALSE FALSE 650.2021969 923.2552588 733.3403882 530.0755455 662.5345388 802.8418386 590.5718146 443.5858758 736.240537 835.4515808 0.778264368 1.105097267 0.877777246 0.634477877 0.793025657 0.960967526 0.706889338 0.530953422 0.881248601 1 9.706412408 -6.441165078 7.975205117 0.911969675 0.741933233 0.37174168 0.131059412 0.349955275 31.04636568 0.022248377 0.03398853 3.62E-07 6.441165078 -0.170036442 T(ph)MVVTT(ph)VLEPDT(ph)FR ddPTM_HeLa_SAHA_4h_R1 1 TMVVTTVLEPDTFR 14 0 Q5JPC9;D3YTG3;H0Y897 Q5JPC9 DKFZp667H216;ABI3BP 3 0 T(0.741)MVVT(0.316)T(0.943)VLEPDT(1)FR 55.097 0.020147 3334400 1024.5 1097.6 972.78 691.92 1362 1468.9 1010.7 1076.9 855.47 951.79 TRUE FALSE FALSE 1132.261611 1133.16296 1105.345392 705.3131121 1257.643854 1343.741456 896.973376 1049.354457 849.5167146 992.8263248 1.140442777 1.141350639 1.113332075 0.710409358 1.266730971 1.353450672 0.903454465 1.056936577 0.855654905 1 9.955397559 -9.549435107 1.344712834 1.000451594 1.091869974 0.082501948 0.175717678 1.406910076 4.593402441 0.115003166 0.027818494 2.82E-10 9.549435107 0.09141838 T(ph)NTPVKEDWNVR ddPTM_HeLa_SAHA_4h_R1 1 TNTPVKEDWNVR 12 1 P78347-2;P78347-4;P78347-3;P78347;A0A494C1K3;A0A494C0Q7 P78347-2 GTF2I General transcription factor II-I 1 0 T(0.936)NT(0.064)PVKEDWNVR 83.877 0.019707 222750000 4954.6 4586 4668.8 4962.3 5680.1 4556.3 4873.6 5627.8 5063.2 5717.4 TRUE FALSE FALSE 5475.747561 4734.589409 5305.03975 5058.352492 5244.891965 4168.077607 4325.209701 5483.849025 5027.964779 5963.905094 0.918148004 0.793874036 0.889524509 0.848161131 0.879439207 0.69888396 0.725231142 0.91950642 0.84306586 1 12.54204158 -7.483366748 0.4144794 1.005322126 0.784690655 0.108847479 0.082288105 0.533497045 0.248146932 0.039899102 0.037910266 3.29E-08 7.483366748 -0.220631471 T(ph)PAPEPEPCEASELPAKR ddPTM_HeLa_SAHA_4h_R1 1 TPAPEPEPCEASELPAKR 18 1 H0Y5D5;A0A494C0L7;Q9BTG3;Q5SYW2;F5H2X7;Q9ULV3-5;Q9ULV3-3;Q9ULV3-4;Q9ULV3-2;Q9ULV3 H0Y5D5 CIZ1 Cip1-interacting zinc finger protein 1 0 T(1)PAPEPEPCEASELPAKR 162.42 7.03E-06 4267900 1081.1 1461.2 1214.6 1161.7 1278 1706.4 1374.7 1431.8 1215.8 1399.2 TRUE FALSE FALSE 1194.815058 1508.543839 1380.119363 1184.186383 1180.079916 1561.00512 1220.015138 1395.176629 1207.339149 1459.52636 0.818632052 1.033584511 0.945593996 0.811349775 0.808536213 1.069528556 0.835897982 0.955910539 0.82721298 1 10.51128455 T(ph)PASKSPSEGQTATTSPR ddPTM_HeLa_SAHA_4h_R1 1 TPASKSPSEGQTATTSPR 18 1 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 T(0.418)PAS(0.325)KS(0.254)PS(0.003)EGQTATTSPR 83.751 0.0058396 7723400 988.84 1191.4 672.95 1160.6 1027.9 1400.9 1314 1018.3 1348.9 810.67 TRUE FALSE FALSE 1092.850728 1230.002142 764.6561214 1183.065091 949.1425241 1281.535439 1166.145262 992.2533605 1339.512895 845.621951 1.292363244 1.454553232 0.904252924 1.399047281 1.122419449 1.515494527 1.379038541 1.173400666 1.584056437 1 9.723869017 -9.553409424 0.490136463 0.900734361 1.293912227 0 0.251161962 2.036681468 0.555015613 0.404672936 0.042619109 2.80E-10 9.553409424 0.393177867 T(ph)PASTPVSGTPQAS(ph)PMIER ddPTM_HeLa_SAHA_4h_R1 1 TPASTPVSGTPQASPMIER 19 0 Q9UHR4 Q9UHR4 BAIAP2L1 Brain-specific angiogenesis inhibitor 1-associated protein 2-like protein 1 2 0 T(0.868)PAS(0.129)T(0.003)PVS(0.001)GT(0.008)PQAS(0.991)PMIER 179.85 4.97E-08 14323000 815.36 1235.1 880.08 1075.6 1172.8 1355.7 1082.2 984.41 1350.1 1191.3 TRUE FALSE FALSE 901.1233058 1275.11805 1000.012719 1096.419793 1082.940317 1240.186733 960.4280078 959.2302176 1340.704544 1242.662773 0.725155147 1.026117526 0.804733787 0.88231483 0.871467578 0.998007472 0.772879037 0.771915147 1.078896522 1 10.27921912 -9.669847851 1.530265725 0.999848431 0.841833254 0.337132689 0.096465645 0.436514111 1.842889301 0.069157517 0.015542879 2.14E-10 9.669847851 -0.158015177 T(ph)PCEEILVK ddPTM_HeLa_SAHA_4h_R1 1 TPCEEILVK 9 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 1 0 T(1)PCEEILVK 116.77 0.0073646 3725200 1735.5 1949.7 1735.8 1889.7 1760.1 2422.2 2113.3 1868.5 2454.3 2120 TRUE FALSE FALSE 1918.047853 2012.871559 1972.345784 1926.277876 1625.241518 2215.814933 1875.505922 1820.706476 2437.220326 2211.403575 0.867344104 0.910223526 0.89189771 0.871065733 0.734936642 1.001994823 0.84810658 0.823326188 1.102114672 1 11.11074662 -9.805400164 0.388389082 1.074651252 0.86032303 0.494550891 0.070697322 2.847893787 0.411346528 0.266024146 0.020713846 1.57E-10 9.805400164 -0.214328222 T(ph)PDKMKKSK ddPTM_HeLa_SAHA_4h_R1 1 TPDKMKKSK 9 3 P46940;H0YLE8 P46940 IQGAP1 Ras GTPase-activating-like protein IQGAP1 1 0 T(1)PDKMKKSK 58.978 0.007654 0 855.79 725.37 705.77 692.95 956.81 788.59 918.53 728.15 833.59 884.7 TRUE FALSE FALSE 945.8059187 748.8724639 801.9486601 706.3630493 883.4994245 721.3976955 815.174587 709.5249773 827.7889793 922.8437466 1.024881972 0.81148349 0.868997231 0.765419988 0.957366215 0.781711637 0.883328938 0.768846275 0.896997983 1 9.849942585 -7.263957684 24.99875008 1.011749823 0.837241741 0.452251329 0.066801358 82.33517763 817324.8379 0.008424771 0.009872492 5.45E-08 7.263957684 -0.174508082 T(ph)PDTIRR ddPTM_HeLa_SAHA_4h_R1 2 TPDTIRR 7 1 A0A087WVQ6;Q00610-2;Q00610 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 1 0 T(0.998)PDT(0.002)IRR;T(1)PDTIRR ; 75.043 0.0049803 0 737.35 754.84 555.65 734.917 1019.16 1234 932.22 1096.34 884.38 1288.38 TRUE FALSE FALSE 814.9078561 779.2973113 631.3710883 749.1423812 941.072181 1128.856258 827.3241521 1068.29721 878.2255276 1343.928367 0.606362568 0.579865215 0.469795194 0.557427315 0.700239837 0.83996758 0.615601376 0.794906363 0.653476442 1 10.39224053 -9.17878815 0.910416284 1.001400967 0.641999529 0.013099174 0.147711167 0.32523233 0.482681926 0.076967227 0.021550517 6.63E-10 9.17878815 -0.359401437 T(ph)PDTPNNDPR ddPTM_HeLa_SAHA_4h_R1 1 TPDTPNNDPR 10 0 Q16513-3;Q16513-2;Q16513;B1AL79 Q16513-3 PKN2 Serine/threonine-protein kinase N2 1 0 T(0.684)PDT(0.316)PNNDPR 103.43 0.013577 4264200 1254.8 1477.4 937.83 1149.5 899.6 1343.8 1186.8 1200.6 1246.6 1237.7 TRUE FALSE FALSE 1386.785621 1525.268729 1065.632588 1171.750235 830.6728423 1229.30068 1053.258141 1169.89039 1237.924809 1291.063304 1.074142234 1.181405067 0.825391431 0.907585423 0.643402101 0.952161429 0.815806736 0.90614487 0.958841294 1 10.33434403 -6.73842715 24.99548246 1.046969388 0.839565009 0.544963433 0.094745385 127.7678435 138778.9103 0.013839243 0.019564517 1.83E-07 6.73842715 -0.207404379 T(ph)PDTSTYCYETAEK ddPTM_HeLa_SAHA_4h_R1 3 TPDTSTYCYETAEK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(1)PDTSTYCYETAEK;T(0.987)PDT(0.01)S(0.002)TYCYETAEK;T(1)PDTSTYCYETAEK ;; 338.14 9.83E-135 95503000 2056.79 2217.35 1924.08 2040.27 2454.47 2631.51 2171.86 1839.58 2656.7 1968.49 TRUE FALSE FALSE 2273.132609 2289.193595 2186.283602 2079.762376 2266.409039 2407.290544 1927.476597 1792.526207 2638.211808 2053.361237 1.107030058 1.11485186 1.064734038 1.012857523 1.103755636 1.172365826 0.938693378 0.872971679 1.284825953 1 11.00377174 -4.576572613 7.419083027 1.064724917 0.888829228 0.417403576 0.085449183 0.10349994 11.86289815 0.00817685 0.03121977 2.65E-05 4.576572613 -0.175895689 T(ph)PEDGDYSYEIIEK ddPTM_HeLa_SAHA_4h_R1 1 TPEDGDYSYEIIEK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.995)PEDGDYS(0.005)YEIIEK 113.76 0.0028617 1986800 352.28 379.76 207.7 407.81 532.83 583.7 359.12 422.49 576.55 287.65 TRUE FALSE FALSE 389.3344267 392.0644732 236.0042743 415.7037523 492.0046805 533.9654762 318.7108724 411.6833176 572.5377416 300.0519992 1.297556516 1.306655094 0.786544582 1.385439035 1.639731386 1.779576465 1.062185465 1.372039908 1.908128401 1 8.229068732 -6.020530979 24.63924493 1.132918576 1.464220778 0.011513377 0.331099001 586.706377 704106.9817 0.035456358 0.059281287 9.54E-07 6.020530979 0.331302201 T(ph)PEEGGYSYDISEK ddPTM_HeLa_SAHA_4h_R1 4 TPEEGGYSYDISEK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(1)PEEGGYSYDISEK;T(1)PEEGGYSYDISEK;T(1)PEEGGYSYDISEK;T(1)PEEGGYSYDISEK ;;; 160.87 2.15E-05 136735000 7438.12 9064.56 7063.01 8411.27 9192.04 9757.55 7983.07 7571.23 12430.77 9411.39 TRUE FALSE FALSE 8220.495589 9358.257691 8025.52022 8574.082294 8487.747881 8926.151846 7084.793953 7377.5689 12344.26326 9817.161081 0.837359754 0.95325498 0.817499087 0.873376959 0.864582725 0.909239624 0.721674412 0.751497183 1.257416799 1 13.26109017 -13.52287875 0.058658192 1.603282226 0.563964907 0.480351456 0.103763428 180.9015672 0.834158383 16.4286934 3.20518248 3.00E-14 13.52287875 -1.039317319 T(ph)PEFLR ddPTM_HeLa_SAHA_4h_R1 2 TPEFLR 6 0 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 1 0 T(1)PEFLR;T(1)PEFLR ; 113.41 0.017609 44089000 1568.9 2122.1 1694.28 1800.94 2319.73 3037.55 2334.85 1873.93 2920.87 2472.91 TRUE FALSE FALSE 1733.9241 2190.857432 1925.167655 1835.799798 2141.992789 2778.733651 2072.126533 1825.997584 2900.543428 2579.529252 0.672186252 0.849324515 0.746325188 0.711680163 0.830381275 1.077225098 0.803296389 0.707880162 1.124446806 1 11.33289209 -9.569786187 1.359319822 0.999585848 0.789426147 0.42228537 0.116185615 0.42869408 1.424367552 0.08179691 0.019347491 2.69E-10 9.569786187 -0.210159701 T(ph)PEGISEEQR ddPTM_HeLa_SAHA_4h_R1 1 TPEGISEEQR 10 0 E9PFQ4;Q86SQ0-2;Q86SQ0-3;Q86SQ0;A0A1W2PQ63;E9PGF6 E9PFQ4 PHLDB2 Pleckstrin homology-like domain family B member 2 1 0 T(0.998)PEGIS(0.002)EEQR 110.66 0.009546 2786000 227.5 300.31 301.59 207.85 308.95 321.33 269 129.52 276.66 295.81 TRUE FALSE FALSE 251.4294938 310.040241 342.6891146 211.8732373 285.2783177 293.9508762 238.731412 126.2070659 274.7347005 308.5638168 0.814837904 1.004784826 1.110593971 0.68664317 0.924535873 0.95264208 0.773685698 0.40901447 0.8903659 1 8.269425086 -4.29948674 2.403906038 0.918412315 0.314499253 0.670561057 0.10888027 0.237689084 1.757501216 0.016095731 0.285825824 5.02E-05 4.29948674 -0.603913062 T(ph)PELPEPSVK ddPTM_HeLa_SAHA_4h_R1 1 TPELPEPSVK 10 0 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 T(0.999)PELPEPS(0.001)VK 104.07 0.013093 45849000 3077.8 2406.4 2475.7 2553.7 2919.4 3343.6 2783.7 2951.3 2939.3 2829.4 TRUE FALSE FALSE 3401.537125 2484.368939 2813.075503 2603.130556 2695.716203 3058.706469 2470.47075 2875.810019 2918.845172 2951.389281 1.152520661 0.84176254 0.953136044 0.882001765 0.913371957 1.036361584 0.837053508 0.974391971 0.988973292 1 11.52717851 -7.261063493 24.99984839 1.072023645 0.920621653 0.388968759 0.071172441 21.93151876 1458654.139 0.012710404 0.015057921 5.48E-08 7.261063493 -0.151401993 T(ph)PENLITEIR ddPTM_HeLa_SAHA_4h_R1 3 TPENLITEIR 10 0 Q5VY60;Q7Z4H7-3;Q7Z4H7;Q5SYF9 Q5VY60 HAUS6 HAUS augmin-like complex subunit 6 1 0 T(1)PENLITEIR;T(1)PENLITEIR;T(1)PENLITEIR ;; 158.86 0.00041529 19735700 297.03 693.68 431.615 419.28 540.05 633.27 525.71 325.84 451.07 486.876 TRUE FALSE FALSE 328.2729782 716.1556871 490.4332444 427.3957707 498.6714857 579.3118333 466.5557272 317.5054846 447.9309671 507.8676071 0.646375106 1.41012279 0.965671442 0.841549579 0.98189268 1.140674903 0.918656202 0.625173727 0.881983731 1 8.988308648 T(ph)PGT(ph)PGTPSYPR ddPTM_HeLa_SAHA_4h_R1 1 TPGTPGTPSYPR 12 0 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 2 0 T(1)PGT(0.986)PGT(0.009)PS(0.006)YPR 116.71 0.0072798 7128700 1938.1 1853.3 1393.1 1576.6 1459.6 2031.3 1745.7 1554.6 1949.4 2000.1 TRUE FALSE FALSE 2141.95825 1913.348136 1582.944413 1607.117373 1347.765763 1858.221812 1549.269242 1514.835583 1935.833967 2086.334099 1.026661191 0.917086164 0.758720482 0.770306814 0.645997093 0.890663587 0.742579648 0.726075265 0.927863839 1 11.02675449 -6.912818486 2.726666566 1.012334054 0.755308512 0.733763934 0.06282225 0.076453068 1.155505903 0.009078285 0.012152172 1.22E-07 6.912818486 -0.257025541 T(ph)PHTPGTPK ddPTM_HeLa_SAHA_4h_R1 1 TPHTPGTPK 9 0 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 T(0.892)PHT(0.108)PGTPK 120.45 0.0062567 5615300 3022.4 3592.1 3216.6 2860.1 3304.8 3376.2 3222.4 3072.9 2617.6 3391.8 TRUE FALSE FALSE 3340.309899 3708.486397 3654.941497 2915.461371 3051.586938 3088.528766 2859.807071 2994.299668 2599.383908 3538.037097 0.944113871 1.048176233 1.033042163 0.824033579 0.862508463 0.872949797 0.808303303 0.84631664 0.734696623 1 11.78873346 -6.253975933 24.99387722 0.983770025 0.843672045 0.252440342 0.085618397 211.7457733 709102.0339 0.005895085 0.00965138 5.57E-07 6.253975933 -0.14009798 T(ph)PLSEAEFEEIMNR ddPTM_HeLa_SAHA_4h_R1 2 TPLSEAEFEEIMNR 14 0 F8WJN3;Q16630-3;Q16630;Q16630-2 F8WJN3 CPSF6 Cleavage and polyadenylation specificity factor subunit 6 1 0 T(1)PLSEAEFEEIMNR;T(0.994)PLS(0.006)EAEFEEIMNR ; 99.991 0.0047989 673160 188.54 218.477 144.31 177.95 245.61 224.95 158.96 212.46 236.184 162.05 TRUE FALSE FALSE 208.3715023 225.5557981 163.9758153 181.3944796 226.7914149 205.7829945 141.0734024 207.0255808 234.5403763 169.0367686 1.232699276 1.334359383 0.970060045 1.073106645 1.341669134 1.217385994 0.834572287 1.224736977 1.387511003 1 7.401193283 -3.932018342 20.93728526 1.120934482 3.976284415 0 0.175730001 1727.290352 556388.5279 0.021799235 10513.27826 0.000116945 3.932018342 2.855349933 T(ph)PPTPPSSIVAK ddPTM_HeLa_SAHA_4h_R1 1 TPPTPPSSIVAK 12 0 Q96QT6;Q96QT6-4 Q96QT6 PHF12 PHD finger protein 12 1 0 T(0.933)PPT(0.067)PPSSIVAK 96.342 0.015244 4256100 1021.9 1242.2 1148.5 909.55 1082.6 1307.2 1211 947.43 1287.4 1069.4 TRUE FALSE FALSE 1129.388131 1282.448095 1305.011599 927.1556555 999.6514219 1195.819206 1074.735093 923.1961125 1278.440879 1115.507068 1.012443725 1.149654836 1.169881964 0.831151754 0.896140823 1.071996082 0.963449828 0.827602208 1.146062554 1 10.12348394 -6.245949142 24.99896592 1.030278466 0.927922722 0.385454302 0.095309451 981.4126685 1583856.446 0.014137165 0.023389583 5.68E-07 6.245949142 -0.102355744 T(ph)PQPSSPMDQMGK ddPTM_HeLa_SAHA_4h_R1 1 TPQPSSPMDQMGK 13 0 O14497;O14497-2 O14497 ARID1A AT-rich interactive domain-containing protein 1A 1 0 T(0.931)PQPS(0.059)S(0.01)PMDQMGK 90.444 0.017595 4868700 338.32 587.68 380.94 320.73 469.73 340.08 460.87 357.79 373.69 335.12 TRUE FALSE FALSE 373.9060499 606.7212176 432.8525193 326.9381929 433.7393889 311.1032708 409.0116947 348.6382499 371.0894609 349.5686632 1.069621191 1.735628165 1.238247489 0.935261731 1.240784528 0.88996327 1.170046797 0.997338396 1.061563864 1 8.449432051 -6.257480964 24.76165776 1.111600828 1.05560995 0.029640277 0.226908295 1754.494231 10975151.1 0.037339606 0.060447423 5.53E-07 6.257480964 -0.055990878 T(ph)PS(ph)PESHR ddPTM_HeLa_SAHA_4h_R1 1 TPSPESHR 8 0 Q66K74-2;Q66K74 Q66K74-2 MAP1S Microtubule-associated protein 1S;MAP1S heavy chain;MAP1S light chain 2 0 T(1)PS(0.997)PES(0.003)HR 86.014 0.0040354 0 218.3 240.27 0 209.32 298.6 468.03 511.51 352.37 483.01 448.5 TRUE FALSE FALSE 241.2617956 248.0549056 0 213.3716913 275.7213325 428.1512109 453.9535486 343.3568856 479.6486941 467.8370299 0.515696236 0.530216485 0 0.456081237 0.589353375 0.915171702 0.970324108 0.733924131 1.02524739 1 8.869862247 -9.237531505 1.021646718 0.994793079 0.585362704 0.302408244 0.255237862 0.625158068 1.1919094 0.179377979 0.051984938 5.79E-10 9.237531505 -0.409430376 T(ph)PS(ph)PTVAHES(ph)NWAKCEDLETQTQSEK ddPTM_HeLa_SAHA_4h_R1 1 TPSPTVAHESNWAKCEDLETQTQSEK 26 1 O00592;O00592-2 O00592 PODXL Podocalyxin 3 0 T(0.897)PS(0.897)PT(0.288)VAHES(0.787)NWAKCEDLET(0.121)QT(0.005)QS(0.005)EK 41.76 0.023533 174500000 658.65 1229.6 975.4 1012.1 1139.7 1229.2 1244 1059 1681.3 1237.6 TRUE FALSE FALSE 727.929829 1269.439847 1108.322432 1031.690659 1052.376432 1124.465245 1104.021846 1031.912313 1669.599696 1290.958993 0.563867507 0.983330883 0.858526443 0.799166097 0.815189668 0.871030955 0.855195132 0.799337794 1.293301883 1 10.33422746 T(ph)PSASNDDQQE ddPTM_HeLa_SAHA_4h_R1 2 TPSASNDDQQE 11 0 O43765 O43765 SGTA Small glutamine-rich tetratricopeptide repeat-containing protein alpha 1 0 T(0.494)PS(0.494)AS(0.012)NDDQQE;T(0.497)PS(0.497)AS(0.006)NDDQQE ; 168.02 0.00021167 12727800 2354.66 2834.7 1900.14 3436.9 3674 4356.4 3840.6 3735.7 3221.5 3468.4 TRUE FALSE FALSE 2602.333942 2926.54614 2159.081184 3503.426169 3392.498914 3985.210212 3408.44558 3640.146203 3199.081319 3617.939698 0.719286157 0.80889854 0.596770915 0.968348414 0.937688076 1.101513719 0.942095741 1.006137887 0.884227374 1 11.82095265 -6.028056371 24.89081365 0.837786456 0.994497083 0.413139025 0.109085539 761.3586634 675455.1232 0.020800549 0.03454668 9.37E-07 6.028056371 0.156710627 T(ph)PSDDEEDNLFAPPK ddPTM_HeLa_SAHA_4h_R1 1 TPSDDEEDNLFAPPK 15 0 A0A0A0MR88;A0A096LPC5;Q9Y4E1-6;Q9Y4E1;J3KP36;Q9Y4E1-3;Q9Y4E1-2;Q9Y4E1-1;E7ESD2;Q641Q2-2;Q641Q2;F8W7U3 A0A0A0MR88;E7ESD2 FAM21C;FAM21A WASH complex subunit FAM21C;WASH complex subunit FAM21A 1 0 T(0.969)PS(0.031)DDEEDNLFAPPK 193.77 5.14E-09 12193000 2310.8 3208.4 2597.1 3084.5 2802.2 3109.9 3426.9 3110.4 4461.2 2792.7 TRUE FALSE FALSE 2553.860546 3312.354265 2951.019263 3144.204958 2587.496041 2844.919024 3041.296193 3030.840472 4430.154146 2913.106964 0.87667929 1.137052057 1.013014386 1.079330418 0.888225552 0.97659271 1.044004299 1.040415099 1.520766041 1 11.50834296 -7.28839868 24.99946497 0.941765225 1.020656604 0 0.195021402 901.4913468 835953.8727 0.012850888 0.014698067 5.15E-08 7.28839868 0.078891378 T(ph)PSEIQFHQVK ddPTM_HeLa_SAHA_4h_R1 1 TPSEIQFHQVK 11 0 C9JCU6;Q12851-2;Q12851 C9JCU6 MAP4K2 Mitogen-activated protein kinase kinase kinase kinase 2 1 0 T(0.865)PS(0.135)EIQFHQVK 116.03 0.0047053 3800200 638.67 735.23 523.2 649.86 520.13 553.54 731.19 631.6 440.05 458.7 TRUE FALSE FALSE 705.8482409 759.0519344 594.4989713 662.43898 480.2777518 506.3752779 648.9145768 615.4445865 436.9876562 478.4768018 1.475198459 1.586392342 1.242482329 1.384474603 1.003763923 1.058306852 1.356209067 1.286257942 0.913289118 1 8.902305169 -5.791671394 24.99736891 1.271301932 1.18058011 0.042257457 0.2108318 669.3603216 553459.8366 0.03494425 0.063347424 1.62E-06 5.791671394 -0.090721822 T(ph)PSELINK ddPTM_HeLa_SAHA_4h_R1 1 TPSELINK 8 0 E7EVA0;P27816-4;B5MEG9 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 T(0.999)PS(0.001)ELINK 99.688 0.019725 5284900 2014.7 2506.5 1514.9 1940.9 2207.5 2820.5 2332 1870.7 2669.3 2380.3 TRUE FALSE FALSE 2226.61539 2587.712245 1721.342683 1978.468926 2038.361827 2580.177532 2069.597223 1822.850203 2650.724124 2482.926382 0.896770603 1.042202565 0.693271736 0.796829475 0.820951375 1.039167956 0.833531448 0.734153947 1.067580635 1 11.27782577 -8.167288017 0.394324899 1.011219407 0.8334183 0.3152981 0.107463983 1.435743318 0.534849183 0.105519318 0.051451601 6.80E-09 8.167288017 -0.177801107 T(ph)PSFELPDASERPPTYCELVPR ddPTM_HeLa_SAHA_4h_R1 1 TPSFELPDASERPPTYCELVPR 22 1 Q9BRG2;Q9BRG2-2 Q9BRG2 SH2D3A SH2 domain-containing protein 3A 1 0 T(0.78)PS(0.22)FELPDASERPPTYCELVPR 102.27 0.00018184 12568000 365.86 270.72 463.14 522.65 490.37 675.61 543.1 587.39 657.72 401.8 TRUE FALSE FALSE 404.3428334 279.4915056 526.2543073 532.7666465 452.7979565 618.0442271 481.9889586 572.3654143 653.142873 419.1235644 0.964734193 0.666847511 1.255606585 1.271144578 1.080344784 1.474611021 1.149992507 1.365624515 1.558353976 1 8.711231826 -6.624283908 15.90999534 0.959148645 1.262841369 0.132425089 0.23403136 0.587130561 89.27629376 0.020292777 0.028698284 2.38E-07 6.624283908 0.303692725 T(ph)PSPAAEDAREPEAK ddPTM_HeLa_SAHA_4h_R1 1 TPSPAAEDAREPEAK 15 1 Q92797 Q92797 SYMPK Symplekin 1 0 T(0.938)PS(0.062)PAAEDAREPEAK 81.594 0.015339 17061000 2951.7 3213.4 2346.9 3388.1 3717.3 4004.5 3077.4 3294.7 4037.5 3527.4 TRUE FALSE FALSE 3262.173349 3317.516268 2666.72331 3453.681575 3432.481277 3663.294071 2731.122853 3210.426345 4009.402709 3679.483477 0.88658459 0.901625538 0.7247548 0.938632174 0.932870415 0.995600087 0.742257132 0.87252093 1.089664551 1 11.84528754 -8.901772054 0.680596795 1.00362454 0.872601909 0.363116186 0.085022158 0.838293939 0.703231524 0.059662969 0.017780309 1.25E-09 8.901772054 -0.131022632 T(ph)PSPPPPIPEDIALGK ddPTM_HeLa_SAHA_4h_R1 1 TPSPPPPIPEDIALGK 16 0 Q5T200-2;Q5T200 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 T(0.618)PS(0.382)PPPPIPEDIALGK 111.43 0.0029893 3975800 377.61 383.94 285.18 333.36 321.01 468.36 373.76 323.05 294.69 345.17 TRUE FALSE FALSE 417.3287523 396.3799079 324.0428452 339.8126648 296.4142832 428.4530931 331.7035411 314.7868488 292.6392283 360.0519679 1.159079215 1.100896379 0.899989096 0.943787828 0.823254168 1.189975701 0.921265736 0.874281706 0.812769418 1 8.492061342 -6.76819545 24.99378857 1.079152882 0.947088459 0 0.129078414 161.2025887 596361.521 0.016975827 0.022593011 1.71E-07 6.76819545 -0.132064424 T(ph)PSPSPPCSSSPSPSGR ddPTM_HeLa_SAHA_4h_R1 2 TPSPSPPCSSSPSPSGR 17 0 O75385 O75385 ULK1 Serine/threonine-protein kinase ULK1 1 0 T(0.865)PS(0.069)PS(0.065)PPCSSSPSPSGR;T(0.948)PS(0.051)PS(0.001)PPCSSSPSPSGR ; 118.61 0.0012089 4752300 307.95 464.47 477.16 398.12 460.3 635.59 602.69 523.6 414.01 489.3 TRUE FALSE FALSE 340.3415939 479.5191327 542.1848799 405.8261883 425.0319134 581.4341563 534.873735 510.2070702 411.1288707 510.3961176 0.66681854 0.93950388 1.062282532 0.795120053 0.832749112 1.139182169 1.047958079 0.999629606 0.805509401 1 8.995473545 -5.270647077 24.76811723 0.859396284 1.060826765 0.380821284 0.110558232 548.2228138 1474684.864 0.020773536 0.047060144 5.36E-06 5.270647077 0.201430481 T(ph)PSSQNLLALLAR ddPTM_HeLa_SAHA_4h_R1 2 TPSSQNLLALLAR 13 0 O75385 O75385 ULK1 Serine/threonine-protein kinase ULK1 1 0 T(0.714)PS(0.286)S(0.001)QNLLALLAR;T(0.616)PS(0.376)S(0.008)QNLLALLAR ; 172.43 3.54E-05 42274000 482.33 651.06 659.73 566.57 613.19 639.73 667.71 217.921 476.09 662.54 TRUE FALSE FALSE 533.0636824 672.1547712 749.6345687 577.5367816 566.2075147 585.221405 592.5775135 212.3468964 472.7768509 691.1053418 0.771320449 0.972579331 1.084689299 0.83567113 0.819278163 0.846790452 0.857434428 0.307256917 0.684087971 1 9.43276182 -4.252205905 3.901978564 0.896813572 0.245499934 0.696377914 0.111818829 0.105664348 3.166132954 0.015114947 0.197342374 5.59E-05 4.252205905 -0.651313637 T(ph)PSSSSTLAYSPR ddPTM_HeLa_SAHA_4h_R1 1 TPSSSSTLAYSPR 13 0 H3BR17;Q6Q0C0;A0A087WUB0 H3BR17 TRAF7 E3 ubiquitin-protein ligase TRAF7 1 0 T(0.748)PS(0.184)S(0.062)S(0.005)STLAYSPR 145.83 0.00040382 17868000 0 174.04 156.53 167.8 230.79 187.27 136.34 137.78 289.83 143.69 TRUE FALSE FALSE 0 179.6790102 177.8610932 171.0480116 213.1069201 171.3135424 120.9986644 134.2557871 287.8130494 149.8851791 0 1.198777699 1.186648969 1.14119363 1.42180115 1.142965192 0.80727571 0.895724233 1.920223541 1 7.227713924 -7.226564933 24.66909825 0.527777702 1.118578712 0 0.518761794 453.6419675 320892.5431 0.066568921 0.081527919 5.94E-08 7.226564933 0.59080101 T(ph)PSSSSTLAYSPRDEEDSMPPISTPR ddPTM_HeLa_SAHA_4h_R1 1 TPSSSSTLAYSPRDEEDSMPPISTPR 26 1 H3BR17;Q6Q0C0 H3BR17 TRAF7 E3 ubiquitin-protein ligase TRAF7 1 0 T(0.253)PS(0.253)S(0.253)S(0.072)S(0.072)T(0.072)LAY(0.019)S(0.007)PRDEEDSMPPISTPR 56.335 0.011127 8075800 0 0 0 0 60.361 0 127.06 65.222 0 57.199 TRUE FALSE FALSE 0 0 0 0 55.73615322 0 112.7628744 63.55371568 0 59.66512882 0 0 0 0 0.93414955 0 1.889929288 1.065173527 0 1 5.898816092 -4.761645821 24.99999994 0.406010672 1.477551496 0.531838208 0.442824449 3.751017337 454557.5863 0.071104012 0.235207829 1.73E-05 4.761645821 1.071540824 T(ph)PSVTEASPWR ddPTM_HeLa_SAHA_4h_R1 2 TPSVTEASPWR 11 0 A0A3B3IU55;Q8WXE9;Q8WXE9-3 A0A3B3IU55 STON2 Stonin-2 1 0 T(0.975)PS(0.025)VTEASPWR;T(0.965)PS(0.035)VTEASPWR ; 103.21 0.01051 16720100 1136.34 1254.26 1185.72 1254.7 1151.36 1252.48 1348.16 1157.57 1050.1 1036.84 TRUE FALSE FALSE 1255.865455 1294.898847 1347.303747 1278.986533 1063.143046 1145.761658 1196.461489 1127.961036 1042.792269 1081.543247 1.161179138 1.197269597 1.245723415 1.182556996 0.982987087 1.059376647 1.10625395 1.042918107 0.964170663 1 10.07887564 -3.261168735 16.06280873 1.0957289 0.844262723 0 0.093827113 0 0 0.01314807 0 0.000548064 3.261168735 -0.251466176 T(ph)PT(ph)PDLS(ph)DPFLS(ph)FK ddPTM_HeLa_SAHA_4h_R1 1 TPTPDLSDPFLSFK 14 0 A8K5M9 A8K5M9 C15orf62 "Uncharacterized protein C15orf62, mitochondrial" 4 0 T(1)PT(1)PDLS(1)DPFLS(1)FK 71.354 0.020728 46425000 1365.2 2661.7 605.1 876.96 3467.9 1768.3 5034.8 3187.1 1778.6 1004 TRUE FALSE FALSE 1508.798 2747.940826 687.5598768 893.9348289 3202.190251 1617.630892 4468.271053 3105.578597 1766.222578 1047.287353 1.440672414 2.623865186 0.656515019 0.853571683 3.057604239 1.544591259 4.266518676 2.965354816 1.6864737 1 10.03244163 -5.16333892 1.092068451 1.27159456 3.636266591 0.442702405 0.828393699 0.362040955 0.713440729 0.120288919 0.676930203 6.87E-06 5.16333892 2.364672031 T(ph)PTAPAVNLAGAR ddPTM_HeLa_SAHA_4h_R1 2 TPTAPAVNLAGAR 13 0 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 T(1)PTAPAVNLAGAR;T(1)PTAPAVNLAGAR ; 145.83 0.00040382 21333000 334.68 487.38 487.24 527.06 503.68 552.25 639.07 533.48 610.96 612.87 TRUE FALSE FALSE 369.883178 503.1714318 553.6385298 537.2620084 465.0881472 505.1951931 567.1601617 519.8343541 606.7082796 639.293825 0.578580871 0.787073818 0.866015763 0.840399183 0.727502956 0.790239438 0.887166651 0.813138394 0.949028844 1 9.320335349 -9.671570894 1.543275892 0.999422989 0.758327838 0.400967998 0.086461994 0.317439022 1.366380582 0.077020428 0.017409594 2.13E-10 9.671570894 -0.241095152 T(ph)PTPEPAEVETR ddPTM_HeLa_SAHA_4h_R1 1 TPTPEPAEVETR 12 0 F8W6G1;Q9UHY1 F8W6G1 NRBP1 Nuclear receptor-binding protein 1 0 T(0.787)PT(0.213)PEPAEVETR 139.74 0.0011956 73950000 545.73 551.45 490.4 501.54 598.55 776.35 675.61 518.99 574.52 546.62 TRUE FALSE FALSE 603.1323853 569.3173418 557.2291581 511.2480319 552.6892283 710.2006124 599.5885847 505.7149873 570.5218685 570.1874633 1.057779106 0.998473973 0.977273606 0.896631485 0.969311435 1.245556344 1.051563956 0.886927581 1.000586483 1 9.155292509 -4.254576592 23.82829978 1.025728386 0.886927457 0.179702556 0.086169992 567.0030487 1968587.964 0.012043177 0.155734946 5.56E-05 4.254576592 -0.138800929 T(ph)PTPEPFDSETR ddPTM_HeLa_SAHA_4h_R1 1 TPTPEPFDSETR 12 0 H0YCB1;Q9NSY0-2;Q9NSY0-4;Q9NSY0 H0YCB1 NRBP2 Nuclear receptor-binding protein 2 1 0 T(0.64)PT(0.36)PEPFDSETR 164.81 0.00021407 4321100 248.44 344.75 198.06 424.02 307.04 481.5 570.18 331.86 432.89 431.8 TRUE FALSE FALSE 274.5720591 355.9201262 225.0505853 432.2275202 283.5146615 440.4734912 506.0218458 323.3715017 429.8774832 450.4170112 0.609595225 0.790201341 0.499649391 0.959616332 0.629449276 0.977923747 1.123451897 0.71793803 0.954398863 1 8.815117505 -3.9501715 15.46622128 0.816319611 0.137908518 0.022824115 0.192977237 6084808.878 50791431.72 0.028782234 122313859 0.000112158 3.9501715 -0.678411093 T(ph)PTSSPASSPLVAK ddPTM_HeLa_SAHA_4h_R1 2 TPTSSPASSPLVAK 14 0 Q14684-2;Q14684 Q14684-2 RRP1B Ribosomal RNA processing protein 1 homolog B 1 0 T(0.926)PT(0.044)S(0.015)S(0.015)PASSPLVAK;T(0.776)PT(0.008)S(0.005)S(0.208)PAS(0.002)S(0.001)PLVAK ; 197.38 1.52E-09 78534000 6628.2 6471.6 5637 6074.8 5887.6 5941.8 6434.6 5480.7 6035.5 5969.4 TRUE FALSE FALSE 7325.384487 6681.284086 6405.181004 6192.386538 5436.49336 5435.525212 5710.561873 5340.51163 5993.498464 6226.770048 1.176434079 1.072993548 1.028652247 0.994478115 0.87308401 0.872928528 0.917098565 0.857669641 0.962537306 1 12.60426829 -6.074697149 1.667997153 1.08366907 0.879884125 0.62514395 0.058769356 0.172374705 0.946596445 0.010901037 0.021536634 8.42E-07 6.074697149 -0.203784945 T(ph)PVDESDDEIQHDEIPTGK ddPTM_HeLa_SAHA_4h_R1 2 TPVDESDDEIQHDEIPTGK 19 0 Q86TC9;A0A087WX60;Q86TC9-2 Q86TC9 MYPN Myopalladin 1 0 T(0.5)PVDES(0.5)DDEIQHDEIPTGK;T(0.828)PVDES(0.172)DDEIQHDEIPTGK ; 96.591 0.0018654 61322000 4550.3 4572.9 4436.3 4665.8 6112.3 4940.2 5465.3 4660 5106.7 4800.1 TRUE FALSE FALSE 5028.921432 4721.06496 5040.855861 4756.113306 5643.976894 4519.267167 4850.33006 4540.803948 5071.162059 5007.055802 1.004366963 0.942882434 1.006750486 0.949882225 1.127204712 0.902579749 0.968699022 0.906881035 1.012803184 1 12.28974682 T(ph)PVPSTVQANTFEFADAEEDDEVKV ddPTM_HeLa_SAHA_4h_R1 1 TPVPSTVQANTFEFADAEEDDEVKV 25 1 Q00587-2;Q00587 Q00587-2 CDC42EP1 Cdc42 effector protein 1 1 0 T(0.931)PVPS(0.034)T(0.034)VQANT(0.001)FEFADAEEDDEVKV 98.978 1.58E-05 1791100 440.6 773.37 521.31 441.83 847.19 894.1 562.04 631.37 901.04 742.13 TRUE FALSE FALSE 486.9443295 798.4276954 592.3514119 450.3822585 782.2784852 817.9176499 498.79778 615.2204696 894.7695893 774.1268562 0.629023946 1.031391288 0.76518649 0.581793869 1.010530095 1.056567982 0.644335972 0.794728234 1.155843622 1 9.59642619 -9.683455354 1.5582634 0.999785884 0.789936082 0.234830555 0.17226478 0.569451166 2.495113322 0.121579454 0.027163845 2.07E-10 9.683455354 -0.209849801 T(ph)QKSGT(ph)GATAT(ph)VS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 TQKSGTGATATVSPK 15 1 Q86TU7;C9K0W5;Q6NXR6;Q86TU7-3;Q86TU7-2 Q86TU7 SETD3 Histone-lysine N-methyltransferase setd3 4 0 T(0.832)QKS(0.171)GT(0.991)GAT(0.453)AT(0.815)VS(0.738)PK 68.41 0.0072142 0 72.112 0 0 0 0 0 154.63 174.99 0 0 TRUE FALSE FALSE 79.69707102 0 0 0 0 0 137.2306254 170.5140092 0 0 0 T(ph)QSPEFEAQSSK ddPTM_HeLa_SAHA_4h_R1 1 TQSPEFEAQSSK 12 0 H3BS42;Q9H5H4 H3BS42 ZNF768 Zinc finger protein 768 1 0 T(0.504)QS(0.492)PEFEAQS(0.002)S(0.002)K 144.29 8.33E-07 0 1017.6 1231.5 821.86 1195.2 1421.3 1340.4 1034.1 1163.6 1276.3 1581.6 TRUE FALSE FALSE 1124.635837 1271.401408 933.8588007 1218.334824 1312.400301 1226.190379 917.7403464 1133.836797 1267.418124 1649.790516 0.681684023 0.770644149 0.566046896 0.738478499 0.795495118 0.743240046 0.556276895 0.687261071 0.768229731 1 10.68806713 -9.275208294 0.608602579 1.047474387 0.685804801 0.243097876 0.103587238 0.499505984 0.266987987 0.10087461 0.017288071 5.31E-10 9.275208294 -0.361669586 T(ph)QSSLTVSEVLTRR ddPTM_HeLa_SAHA_4h_R1 2 TQSSLTVSEVLTRR 14 1 Q86V48-2;Q86V48-3;Q86V48 Q86V48-2 LUZP1 Leucine zipper protein 1 1 0 T(0.598)QS(0.347)S(0.055)LTVSEVLTRR;T(0.586)QS(0.351)S(0.061)LT(0.002)VSEVLTRR ; 133.32 0.00053971 19278100 2276.11 2289.5 2456.1 2715.4 2811.1 2602.5 2858.9 2995.9 2288 2343.9 TRUE FALSE FALSE 2515.521693 2363.681302 2790.804517 2767.960494 2595.714125 2380.752359 2537.209048 2919.269216 2272.077622 2444.957 1.028861323 0.966757821 1.141453415 1.132110092 1.06166044 0.973739971 1.037731563 1.193996138 0.929291444 1 11.25559338 -6.768554678 24.9999936 1.010494434 1.083059861 0.373175767 0.064451786 173.7460664 610465.4445 0.00973017 0.012938398 1.70E-07 6.768554678 0.072565427 T(ph)QT(ph)S(ph)MSLGTTREK ddPTM_HeLa_SAHA_4h_R1 1 TQTSMSLGTTREK 13 1 Q8NB16 Q8NB16 MLKL Mixed lineage kinase domain-like protein 3 0 T(0.994)QT(0.868)S(0.868)MS(0.268)LGT(0.001)T(0.001)REK 51.013 0.019697 4524900 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 T(ph)QTPPVEENVTQK ddPTM_HeLa_SAHA_4h_R1 2 TQTPPVEENVTQK 13 0 Q6P1Q9-2;Q6P1Q9 Q6P1Q9-2 METTL2B Methyltransferase-like protein 2B 1 0 T(0.599)QT(0.401)PPVEENVTQK;T(0.785)QT(0.215)PPVEENVTQK ; 160.27 0.00010552 14311500 4673 4036.9 3545.2 4343.5 4875.3 4806.4 4830.9 4147.3 4826.2 4374.1 TRUE FALSE FALSE 5164.52758 4167.698209 4028.321393 4427.574723 4501.755567 4396.86768 4287.314418 4041.218071 4792.614081 4562.688857 1.131904397 0.913430291 0.882883212 0.970387169 0.986645311 0.963657137 0.939646457 0.885709764 1.050392484 1 12.15566856 -7.247973121 24.74824234 1.062288188 0.937319123 0.633589297 0.043921403 417.2224139 766770.6506 0.009755843 0.011914013 5.65E-08 7.247973121 -0.124969065 T(ph)QTPPVSPAPQPT(ph)EER ddPTM_HeLa_SAHA_4h_R1 1 TQTPPVSPAPQPTEER 16 0 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 2 0 T(0.785)QT(0.215)PPVS(0.093)PAPQPT(0.907)EER 171.52 2.91E-08 4425100 1944.2 2865.2 1702.1 1914.3 2756.1 2783.7 2459.8 2291.3 3554.2 2369.6 TRUE FALSE FALSE 2148.699876 2958.03436 1934.053324 1951.354045 2544.928213 2546.513099 2183.01683 2232.691864 3529.466033 2471.765053 0.869297781 1.196729583 0.782458398 0.789457737 1.029599561 1.030240757 0.883181364 0.903278352 1.427913235 1 11.2713259 -9.700355192 1.575479362 1.000121816 0.927278703 0.081823292 0.180431827 1.125015996 5.021868879 0.08462335 0.018533961 1.99E-10 9.700355192 -0.072843114 T(ph)QTPPVSPAPQPT(ph)EERLPSSPVYEDAASFK ddPTM_HeLa_SAHA_4h_R1 1 TQTPPVSPAPQPTEERLPSSPVYEDAASFK 30 1 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 2 0 T(0.379)QT(0.367)PPVS(0.257)PAPQPT(0.319)EERLPS(0.239)S(0.229)PVY(0.204)EDAAS(0.008)FK 43.65 0.02017 3478600 679.42 674.72 747.99 499.63 771.27 794.48 900.74 686.92 739.8 648.45 TRUE FALSE FALSE 750.8845129 696.5813707 849.9221818 509.3010611 712.1754592 726.7858344 799.3863646 669.349581 734.6516716 676.4078529 1.110106143 1.029824488 1.256523232 0.752949657 1.052878757 1.074478706 1.181811183 0.989565065 1.086107544 1 9.401749599 -9.650624475 1.505484074 1.000187397 1.064664431 0 0.127962609 1.315851425 5.388335781 0.083581096 0.019117384 2.24E-10 9.650624475 0.064477034 T(ph)QTPPVSPAPQPTEER ddPTM_HeLa_SAHA_4h_R1 2 TQTPPVSPAPQPTEER 16 0 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 1 0 T(0.499)QT(0.499)PPVS(0.001)PAPQPTEER;T(0.935)QT(0.064)PPVS(0.002)PAPQPTEER ; 137.27 0.00020655 98353000 968.46 1427.72 768.49 1345.17 1437.01 1586.21 1422.35 1040.7 2289.4 1347.05 TRUE FALSE FALSE 1070.327066 1473.979065 873.2158151 1371.20771 1326.906604 1451.055984 1262.303435 1014.080401 2273.467879 1405.127918 0.761729272 1.048999914 0.621449339 0.975859702 0.944331536 1.032686039 0.898354818 0.721699703 1.617979296 1 10.45648576 T(ph)RLNVQLEY(ph)S(ph)R ddPTM_HeLa_SAHA_4h_R1 1 TRLNVQLEYSR 11 1 Q8NDV3-2;Q8NDV3-3 Q8NDV3-2 3 0 T(1)RLNVQLEY(1)S(1)R 67.846 0.013646 4160500 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 T(ph)RS(ph)KS(ph)EDS(ph)ALFT(ph)HHSLGSEVNK ddPTM_HeLa_SAHA_4h_R1 1 TRSKSEDSALFTHHSLGSEVNK 22 2 F6Q6H0;I6L8A6;Q99708-3;Q99708;Q99708-2 F6Q6H0 RBBP8 DNA endonuclease RBBP8 5 0 T(0.999)RS(0.999)KS(0.998)EDS(0.929)ALFT(0.501)HHS(0.501)LGS(0.072)EVNK 47.047 0.012825 25941000 600.27 771.07 430.59 717.58 1098.1 1035.6 664.34 859.63 697.8 923.51 TRUE FALSE FALSE 663.4091527 796.0531739 489.2685628 731.4697985 1013.963815 947.3610539 589.5867148 837.6419093 692.943953 963.3270356 0.688664522 0.826358178 0.507894562 0.759316174 1.052564475 0.983426208 0.612031733 0.869530158 0.719323685 1 9.911881845 -9.466192991 1.205960298 0.99987244 0.778041192 0 0.176066588 0.603157732 1.570551047 0.11036373 0.027274804 3.42E-10 9.466192991 -0.221831248 T(ph)RSEPLPPSATAPPPPGPMQPR ddPTM_HeLa_SAHA_4h_R1 1 TRSEPLPPSATAPPPPGPMQPR 22 1 J3KPH8;Q8WUI4-8;Q8WUI4-5;Q8WUI4-6;Q8WUI4-7;Q8WUI4;Q8WUI4-4;Q8WUI4-3;Q8WUI4-10 J3KPH8 HDAC7 Histone deacetylase;Histone deacetylase 7 1 0 T(0.634)RS(0.366)EPLPPSATAPPPPGPMQPR 105.04 0.00014961 8591400 347.76 393.53 382.88 227.86 269.85 312.95 326.11 275.79 305.09 315.49 TRUE FALSE FALSE 384.3389924 406.2806302 435.0568924 232.2705598 249.1741513 286.2848994 289.4152445 268.7356911 302.9668538 329.0923179 1.167875917 1.234549116 1.321990423 0.705791497 0.757155782 0.869922766 0.879434824 0.816596671 0.920613571 1 8.362348539 -6.248780778 24.98921578 1.111953053 0.810734329 0.660302599 0.115567406 399.8307412 789301.5076 0.018018515 0.029750732 5.64E-07 6.248780778 -0.301218724 T(ph)RSLSSLR ddPTM_HeLa_SAHA_4h_R1 1 TRSLSSLR 8 1 H0Y9X0;A0A286YEZ9;A0A2C9F2R7;O94915 H0Y9X0 FRYL Protein furry homolog-like 1 0 T(0.985)RS(0.01)LS(0.003)S(0.001)LR 90.149 0.019398 22821000 1649.7 1319.3 1620.3 1850.4 2088.7 1665.1 1862.8 2204.4 1266.8 1578.2 TRUE FALSE FALSE 1823.223015 1362.046186 1841.106046 1886.217168 1928.664257 1523.224112 1653.192841 2148.01464 1257.984236 1646.243926 1.107504779 0.82736596 1.118367708 1.145770161 1.171554365 0.925272427 1.004221073 1.304797307 0.764154216 1 10.6849624 T(ph)RSNPEGAEDR ddPTM_HeLa_SAHA_4h_R1 1 TRSNPEGAEDR 11 1 M0QXG9;M0R3F4;M0R2A4;M0R2K3;M0R193;M0R0I0;J3KQS6;Q9NWV8-3;Q9NWV8;M0R3H9;M0R2I2 M0QXG9 BABAM1 BRISC and BRCA1-A complex member 1 1 0 T(0.983)RS(0.017)NPEGAEDR 88.134 0.018295 132290000 1272.4 1300.7 916.98 1466.3 1157.3 1588.8 1982 1777.1 1504.6 1595.5 TRUE FALSE FALSE 1406.23687 1342.843533 1041.941259 1494.682357 1068.627924 1453.425302 1758.980144 1731.644355 1494.129366 1664.289813 0.844947111 0.806856788 0.626057584 0.898090191 0.64209245 0.873300606 1.056895337 1.040470441 0.897757923 1 10.70069097 -4.763849591 23.20448416 0.870023868 1.048683008 0.321496163 0.116054954 27.247454 262367.5103 0.01908107 0.061613423 1.72E-05 4.763849591 0.17865914 T(ph)RSPDVISSASTALSQDIPEIASEALSR ddPTM_HeLa_SAHA_4h_R1 3 TRSPDVISSASTALSQDIPEIASEALSR 28 1 Q6P2E9;Q6P2E9-2 Q6P2E9 EDC4 Enhancer of mRNA-decapping protein 4 1 0 T(0.5)RS(0.371)PDVIS(0.021)S(0.021)AS(0.078)T(0.009)ALSQDIPEIASEALSR;T(0.473)RS(0.473)PDVIS(0.013)S(0.013)AS(0.013)T(0.013)ALS(0.002)QDIPEIASEALSR;T(0.475)RS(0.464)PDVIS(0.017)S(0.017)AS(0.019)T(0.008)ALSQDIPEIASEALSR ;; 104.15 3.06E-07 1380636000 1080.2 1186.1 933.12 1137.47 1079.46 1249.64 1442.04 1199.96 1100.5 1076.86 TRUE FALSE FALSE 1193.820392 1224.530418 1060.280734 1159.487377 996.752008 1143.163642 1279.777864 1169.266761 1092.841531 1123.288705 1.062790347 1.090129735 0.94390759 1.032225617 0.887351581 1.017693525 1.139313392 1.040931646 0.972894614 1 10.13351306 -4.938036099 0.002964856 0.271091722 1.795681691 0.010574367 0.068602555 372446.5959 221.5088981 56013.18596 57901.47436 1.15E-05 4.938036099 1.524589969 T(ph)RSTNWSFCDGST(ph)KTEK ddPTM_HeLa_SAHA_4h_R1 1 TRSTNWSFCDGSTKTEK 17 2 A0A2R8Y7R8 A0A2R8Y7R8 2 0 T(0.329)RS(0.333)T(0.335)NWS(0.004)FCDGS(0.136)T(0.815)KT(0.048)EK 58.079 0.0083051 0 467.43 494.16 766.25 752.3 642.19 749.06 825.12 725.99 868.58 637.43 TRUE FALSE FALSE 516.596432 510.1711082 870.6705595 766.8618543 592.9855409 685.2358739 732.275326 707.420227 862.5354811 664.9127268 0.776938704 0.767275294 1.309450886 1.153327081 0.891824622 1.030565135 1.101310437 1.063929443 1.29721608 1 9.377021182 -6.78315744 24.99999964 0.882168075 1.083102385 0.051127495 0.175109856 203.116388 233809.7265 0.021941069 0.028850143 1.65E-07 6.78315744 0.200934311 T(ph)RSYDNLTTACDNTVPLASR ddPTM_HeLa_SAHA_4h_R1 4 TRSYDNLTTACDNTVPLASR 20 1 G5E953;Q13615-3;Q13615-2;Q13615 G5E953 MTMR3 Myotubularin-related protein 3 1 0 T(0.802)RS(0.197)Y(0.001)DNLTTACDNTVPLASR;T(0.499)RS(0.499)Y(0.002)DNLTTACDNTVPLASR;T(0.488)RS(0.488)Y(0.024)DNLTTACDNTVPLASR;T(0.804)RS(0.19)Y(0.005)DNLTTACDNTVPLASR ;;; 118.52 0.00023992 60432000 1647.6 1604.74 1339.6 2025.89 2253.71 1920.85 1986.41 2057.01 2300.49 1834.4 TRUE FALSE FALSE 1820.902127 1656.734629 1522.153712 2065.10403 2081.031227 1757.182774 1762.893919 2004.394663 2284.480703 1913.489961 0.951613107 0.865818302 0.795485601 1.079234316 1.087557954 0.918313035 0.92129771 1.047507279 1.193881729 1 10.90199062 T(ph)RTFSATVR ddPTM_HeLa_SAHA_4h_R1 2 TRTFSATVR 9 1 H3BTK3;I3L3X8;H3BSW7;H3BUY4;H3BPY5;H3BNU9;Q9Y2V2 H3BTK3 CARHSP1 Calcium-regulated heat stable protein 1 1 0 T(0.749)RT(0.1)FS(0.15)AT(0.001)VR;T(0.848)RT(0.101)FS(0.052)ATVR ; 92.943 0.016987 70120000 4279 2641.3 4817.4 4282.4 4369.6 4066 4875.2 5356.1 2647.3 3779.1 TRUE FALSE FALSE 4729.084853 2726.879853 5473.890184 4365.292044 4034.802192 3719.553925 4326.629665 5219.098718 2628.877224 3942.035495 1.199655573 0.691744114 1.388594849 1.10737005 1.023532689 0.943561754 1.09756233 1.323960356 0.666883194 1 11.94472505 -8.754919266 0.009482015 1.70E-05 2.146871187 0.04131746 0.220461528 12302.12474 38.97794026 4545.705947 4279.185686 1.76E-09 8.754919266 2.146854211 T(ph)S(ph)ALPGET(ph)QRRL ddPTM_HeLa_SAHA_4h_R1 3 TSALPGETQRRL 12 2 J3QLL8;Q8N584-3 J3QLL8 TTC39C 3 0 T(1)S(1)ALPGET(1)QRRL;T(1)S(1)ALPGET(1)QRRL;T(1)S(1)ALPGET(1)QRRL ;; 96.948 0.0015446 32419000 785.93 872.03 650.6 877.01 811.88 1028.51 700.72 644.07 869.35 751.11 TRUE FALSE FALSE 868.5977234 900.2843442 739.2603798 893.9857967 749.6739298 940.8751618 621.8731414 627.595622 863.3001226 783.4940279 1.108620733 1.149063442 0.943543095 1.141024392 0.956834262 1.200870879 0.793717781 0.801021577 1.101859225 1 9.613778468 -4.741093984 24.99739371 1.059279399 0.797369378 0.646366928 0.081529028 109.4925327 134525.979 0.010550868 0.039379668 1.82E-05 4.741093984 -0.261910021 T(ph)S(ph)ANS(ph)NKDKDK ddPTM_HeLa_SAHA_4h_R1 1 TSANSNKDKDK 11 2 A8MUE8;A8MW92-4;A8MW92;H0YC05;E9PM57;A8MXR8;A0A0A0MQS0;F8W9L8;A8MW92-2 A8MUE8 PHF20L1 PHD finger protein 20-like protein 1 3 0 T(1)S(1)ANS(1)NKDKDK 65.809 0.0078936 0 1016.7 781.47 702.73 852.55 1252.3 937.77 1187 1022.1 809.31 1094.3 TRUE FALSE FALSE 1123.641171 806.7901407 798.4943847 869.0523381 1156.349045 857.8667202 1053.435636 995.956162 803.6779458 1141.480628 0.984371651 0.70679267 0.69952513 0.761337789 1.013025553 0.751538571 0.92286773 0.87251254 0.704066215 1 10.15669066 -7.354652996 8.630683892 0.992967742 0.820526507 0 0.13024074 0.242044135 20.64166861 0.016108341 0.018391539 4.42E-08 7.354652996 -0.172441235 T(ph)S(ph)LMAFLR ddPTM_HeLa_SAHA_4h_R1 1 TSLMAFLR 8 0 H0Y542;O75363;O75363-2 H0Y542 BCAS1 Breast carcinoma-amplified sequence 1 2 0 T(1)S(1)LMAFLR 94.302 0.021829 497100000 2953.1 2733.7 2385.9 2972.2 3148.7 3242.6 3295.6 2795.1 2879.4 2843.2 TRUE FALSE FALSE 3263.720607 2822.273674 2711.038027 3029.731229 2907.447286 2966.312238 2924.770414 2723.605389 2859.362021 2965.784266 1.10045786 0.95161125 0.914104933 1.021561569 0.980329999 1.000178021 0.986170993 0.918342383 0.96411666 1 11.53419794 -7.244534647 24.73773769 1.047438435 0.96997088 0.155932822 0.046980202 569.4231435 833271.9617 0.007990685 0.00977181 5.69E-08 7.244534647 -0.077467555 T(ph)S(ph)RT(ph)KRR ddPTM_HeLa_SAHA_4h_R1 1 TSRTKRR 7 3 J3KN16 J3KN16 KIAA0368 3 0 T(1)S(1)RT(1)KRR 60.064 0.020243 7968900 1965.9 1884.2 1731.3 2484.1 2142.5 2333.2 2071.6 2215.3 2254.4 1768.6 TRUE FALSE FALSE 2172.682382 1945.249316 1967.232548 2532.183348 1978.342113 2134.398234 1838.498116 2158.635834 2238.711447 1844.853001 1.177699459 1.054419683 1.066335663 1.372566457 1.072357587 1.15694759 0.996555343 1.170085547 1.213490422 1 10.84929015 -9.432933647 1.029116927 0.995749206 1.134948948 0 0.117306478 0.712171156 1.280681333 0.075896243 0.016806322 3.69E-10 9.432933647 0.139199741 T(ph)SDANETEDHLESLICK ddPTM_HeLa_SAHA_4h_R1 1 TSDANETEDHLESLICK 17 0 F2Z2T1;Q09161 F2Z2T1 NCBP1 Nuclear cap-binding protein subunit 1 1 0 T(0.5)S(0.5)DANET(0.001)EDHLESLICK 74.698 0.015323 4384400 1001.5 979.05 1174 1530.5 1670.7 2191.2 2036.4 2185.6 1147.4 1418.1 TRUE FALSE FALSE 1106.842365 1010.771862 1333.986606 1560.125041 1542.691327 2004.497433 1807.258912 2129.695517 1139.41515 1479.241231 0.748250077 0.683304279 0.90180464 1.054679256 1.042893677 1.355084884 1.221747254 1.439721576 0.770270005 1 10.53064163 -5.554332943 1.229047296 0.863081291 1.355868134 0.804575426 0.1078133 0.196486472 0.569161794 0.020495154 0.067039045 2.79E-06 5.554332943 0.492786843 T(ph)SDFNTFLAQEGCTK ddPTM_HeLa_SAHA_4h_R1 1 TSDFNTFLAQEGCTK 15 0 E9PHZ2;Q9UHD1-2;Q9UHD1 E9PHZ2 CHORDC1 Cysteine and histidine-rich domain-containing protein 1 1 0 T(0.891)S(0.099)DFNT(0.01)FLAQEGCTK 91.914 0.012717 3611800 585.34 708.04 738.25 608.52 744.62 550.28 638.14 709.95 786.3 672.12 TRUE FALSE FALSE 646.9087468 730.9809606 838.8548654 620.2987845 687.5673765 503.3930482 566.3348077 691.790507 780.8280743 701.0983825 0.922707516 1.042622518 1.196486665 0.884752839 0.980700275 0.71800629 0.80778222 0.986723867 1.113721118 1 9.453473096 -5.306710895 20.99839789 0.981659476 0.834532086 0.335856739 0.108612695 62.35673172 28922.90316 0.014517688 0.032463206 4.94E-06 5.306710895 -0.147127391 T(ph)SDSDQQAYLVQR ddPTM_HeLa_SAHA_4h_R1 2 TSDSDQQAYLVQR 13 0 Q96CV9-2;Q96CV9;Q96CV9-3 Q96CV9-2 OPTN Optineurin 1 0 T(0.5)S(0.5)DS(0.001)DQQAYLVQR;T(0.915)S(0.085)DSDQQAYLVQR ; 217.19 6.45E-16 15638900 1723.72 1892.65 1790.65 1797.58 2387.6 2627.2 2678.6 2581 2178.29 1722.64 TRUE FALSE FALSE 1905.028778 1953.973102 2034.670457 1832.37476 2204.662604 2403.34778 2377.196878 2514.981757 2163.131103 1796.911441 1.060168428 1.087406456 1.132315378 1.019735708 1.226917784 1.337488162 1.322934912 1.399613637 1.20380507 1 10.81130359 -5.31553038 0.6743908 1.027687757 1.445315572 0.706372608 0.072601691 0.262104373 0.168936815 0.009053151 0.064593161 4.84E-06 5.31553038 0.417627815 T(ph)SDVGGYYYEK ddPTM_HeLa_SAHA_4h_R1 3 TSDVGGYYYEK 11 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.5)S(0.5)DVGGYYYEK;T(0.999)S(0.001)DVGGYYYEK;T(0.597)S(0.403)DVGGYYYEK ;; 198.52 7.79E-10 77614900 6354.7 7129.2 5663.4 6608.9 7969 6714.6 7144.3 7578 8357 6516.7 TRUE FALSE FALSE 7023.116502 7360.190758 6435.178658 6736.824816 7358.416942 6142.478305 6340.404561 7384.165733 8298.842957 6797.666829 1.033165743 1.082752501 0.946674619 0.991049574 1.082491556 0.903615676 0.932732468 1.086279442 1.220836967 1 12.73082394 -6.736739979 24.99991285 1.021131056 0.988109992 0.064332231 0.086456714 514.5214415 520780.8408 0.009092769 0.012856488 1.83E-07 6.736739979 -0.033021065 T(ph)SETSISPPGSSIGSPNR ddPTM_HeLa_SAHA_4h_R1 1 TSETSISPPGSSIGSPNR 18 0 A0A0C4DGA7;O94929-2;O94929-3;O94929 A0A0C4DGA7 ABLIM3 Actin-binding LIM protein 3 1 0 T(0.867)S(0.072)ET(0.031)S(0.021)IS(0.009)PPGSSIGSPNR 223.76 2.04E-22 11663000 1658.1 1107.6 1191.3 1376.1 1580.7 1837 1541.9 1452.8 1752 1278.1 TRUE FALSE FALSE 1832.506566 1143.486967 1353.64416 1402.736405 1459.587107 1680.477265 1368.401354 1415.63948 1739.807689 1333.205146 1.374512071 0.857697685 1.015330734 1.052153459 1.094795585 1.260479132 1.026399694 1.061831695 1.304981229 1 10.38068308 -7.262763881 24.99881542 1.176852917 1.059816258 0.244347204 0.131248793 218.5092177 4124158.804 0.027900981 0.032839098 5.46E-08 7.262763881 -0.117036659 T(ph)SFSFQK ddPTM_HeLa_SAHA_4h_R1 1 TSFSFQK 7 0 H0Y7F8;Q9BPZ7-4;Q9BPZ7-3;Q9BPZ7-2;Q9BPZ7 H0Y7F8 MAPKAP1 Target of rapamycin complex 2 subunit MAPKAP1 1 0 T(0.989)S(0.011)FSFQK 104.2 0.019518 7882700 4635.1 4060.8 3978.7 5222 4768.5 5184.4 5561.9 4461 4868.7 4229.1 TRUE FALSE FALSE 5122.641085 4192.372584 4520.896516 5323.079361 4403.13856 4742.659953 4936.060374 4346.894079 4834.81832 4411.437198 1.161218182 0.950341668 1.024812621 1.206654231 0.998118836 1.075082732 1.118923415 0.98536914 1.095973512 1 12.10703303 -4.237540769 22.68286247 1.071312296 0.985368784 0.102451637 0.075185477 3720.050579 3530611.512 0.011250991 0.749200419 5.79E-05 4.237540769 -0.085943511 T(ph)SFSVGSDDELGPIR ddPTM_HeLa_SAHA_4h_R1 2 TSFSVGSDDELGPIR 15 0 Q9NRY4 Q9NRY4 ARHGAP35 Rho GTPase-activating protein 35 1 0 T(0.503)S(0.05)FS(0.101)VGS(0.346)DDELGPIR;T(0.629)S(0.021)FS(0.021)VGS(0.329)DDELGPIR ; 188.09 1.23E-08 81987000 1287.17 1330.02 1155.92 1281.36 1473.49 1646.12 1508.11 1616.82 1200.66 1351.24 TRUE FALSE FALSE 1422.560446 1373.113521 1313.442758 1306.162576 1360.591515 1505.861315 1338.413494 1575.464086 1192.304509 1409.498569 1.009267038 0.974185821 0.931851076 0.926685989 0.965301806 1.068366686 0.949567118 1.117747914 0.84590686 1 10.4609663 -4.249319231 24.61538137 0.991351226 1.11774801 0.275533489 0.06158102 1115.308022 2265080.829 0.005864223 0.130374709 5.63E-05 4.249319231 0.126396784 T(ph)SIVQAAAGGVPGGGSNNGK ddPTM_HeLa_SAHA_4h_R1 1 TSIVQAAAGGVPGGGSNNGK 20 0 Q9NR12-2;Q9NR12 Q9NR12-2 PDLIM7 PDZ and LIM domain protein 7 1 0 T(0.83)S(0.17)IVQAAAGGVPGGGSNNGK 193.47 3.71E-14 1941900 425.95 283.11 400.73 251.12 411.62 637.73 501.74 332.38 368.58 294.46 TRUE FALSE FALSE 470.7533753 292.2829498 455.3393975 255.9807907 380.0817645 583.3918162 445.2828947 323.8782009 366.0150218 307.1556117 1.532621764 0.951579391 1.482438804 0.833391223 1.237424127 1.899336343 1.449698061 1.054443379 1.191627331 1 8.262825931 -9.588882028 1.365887857 0.999261895 1.336710896 0.051342565 0.30187236 0.688360127 2.295179137 0.213606996 0.049171473 2.58E-10 9.588882028 0.337449 T(ph)SLADSSIFDSK ddPTM_HeLa_SAHA_4h_R1 1 TSLADSSIFDSK 12 0 Q9H8V3-2;Q9H8V3-4;Q9H8V3;Q9H8V3-3;C9J0L6;C9JDV9;C9JTI2;C9J1C4;C9JDB4 Q9H8V3-2 ECT2 Protein ECT2 1 0 T(0.824)S(0.176)LADSSIFDSK 122.52 0.002475 3303900 1836.7 2455.9 1524.6 2271.2 2498.9 2602.8 2351.6 2180 3244.6 2380.3 TRUE FALSE FALSE 2029.892533 2535.472771 1732.364548 2315.16236 2307.434822 2381.026797 2086.991779 2124.238757 3222.020564 2482.926382 0.817540362 1.021163088 0.697710798 0.932432946 0.929320675 0.958959885 0.840537115 0.855538357 1.297670599 1 11.27782577 -9.528423525 1.253362138 1.000775459 0.876703226 0.288576183 0.127675412 0.541498265 1.507583591 0.058022012 0.013515749 2.96E-10 9.528423525 -0.124072233 T(ph)SLDIEEYSDTEVQK ddPTM_HeLa_SAHA_4h_R1 1 TSLDIEEYSDTEVQK 15 0 P51580 P51580 TPMT Thiopurine S-methyltransferase 1 0 T(0.741)S(0.114)LDIEEYS(0.142)DT(0.003)EVQK 191.19 8.40E-09 20040000 1248 1408 1108.9 1712 1480.5 1662.6 1427.5 1558.3 1753.1 1607.2 TRUE FALSE FALSE 1379.270366 1453.620124 1260.015117 1745.138236 1367.06441 1520.937126 1266.873943 1518.440942 1740.900034 1676.494257 0.822711059 0.867059411 0.751577353 1.040944953 0.815430416 0.907212846 0.755668525 0.905723915 1.038416939 1 10.71123183 -9.338900648 0.986300729 1.002728887 0.855695107 0.378756619 0.080870634 0.517217818 0.874199613 0.055003972 0.013422536 4.58E-10 9.338900648 -0.14703378 T(ph)SPAKQQAPPVR ddPTM_HeLa_SAHA_4h_R1 1 TSPAKQQAPPVR 12 1 A0A1C7CYX9;Q16555-2;Q16555 A0A1C7CYX9 DPYSL2 Dihydropyrimidinase-related protein 2 1 0 T(0.851)S(0.149)PAKQQAPPVR 154.23 0.013534 17130000 2735.1 1588.5 3264 2494.2 2114.5 2001.1 2874.4 3159.3 985.54 2586.6 TRUE FALSE FALSE 3022.790367 1639.968442 3708.800922 2542.478848 1952.487467 1830.595022 2550.964947 3078.489681 978.6815469 2698.120985 1.120331662 0.60781872 1.374586589 0.942314619 0.723647115 0.678470325 0.945459808 1.140975404 0.36272708 1 11.39773933 -6.003671381 24.95064648 1.044302298 0.859721846 0 0.301615081 222.7655805 1513931.84 0.030053058 0.053638071 9.92E-07 6.003671381 -0.184580451 T(ph)SPAPWK ddPTM_HeLa_SAHA_4h_R1 1 TSPAPWK 7 0 Q9UQ35;Q9UQ35-2 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 T(0.993)S(0.007)PAPWK 103.83 0.019845 8446200 5040.2 8264.5 5294.2 6407.3 7898.2 8483.8 7257.2 6071.3 10799 7042.4 TRUE FALSE FALSE 5570.351361 8532.275223 6015.666005 6531.322557 7293.041622 7760.932511 6440.600756 5916.004937 10723.84888 7346.032329 0.758280268 1.161480761 0.818900018 0.889095265 0.992786486 1.056479493 0.876745496 0.805333365 1.459815095 1 12.84274953 T(ph)SPDPSPVSAAPSK ddPTM_HeLa_SAHA_4h_R1 3 TSPDPSPVSAAPSK 14 0 Q13469-5;Q13469-3;Q13469-4;Q13469-2;Q13469 Q13469-5 NFATC2 "Nuclear factor of activated T-cells, cytoplasmic 2" 1 0 T(0.613)S(0.387)PDPSPVSAAPSK;T(0.844)S(0.153)PDPS(0.002)PVSAAPSK;T(0.5)S(0.5)PDPSPVSAAPSK ;; 147.52 0.00017201 10732800 7839 8615.8 7326.2 7507.9 9807.1 9504.9 9287.1 8091.5 9808.3 8022.8 TRUE FALSE FALSE 8663.541987 8894.957573 8324.576383 7653.226261 9055.682117 8695.029047 8242.091066 7884.531146 9740.043242 8368.702171 1.035231247 1.062883753 0.994727284 0.914505751 1.082089186 1.038993726 0.984870879 0.942145029 1.163865441 1 13.03078819 T(ph)SPDSLRR ddPTM_HeLa_SAHA_4h_R1 1 TSPDSLRR 8 1 Q9BRL6-2;Q9BRL6 Q9BRL6-2 SRSF8 Serine/arginine-rich splicing factor 8 1 0 T(0.883)S(0.116)PDS(0.001)LRR 72.243 0.0052397 0 735.77 1027.6 1093.7 1110.1 1047.4 994.42 1022 1016.8 1126.8 1005.2 TRUE FALSE FALSE 813.1616644 1060.894914 1242.74374 1131.587591 967.1484383 909.6898215 907.0018702 990.7917283 1118.958507 1048.539091 0.775518692 1.011783846 1.185214505 1.079204009 0.922377092 0.867578356 0.865014836 0.944925885 1.067159552 1 10.03416493 -3.870536023 16.95090708 0.929499255 3.360161499 0 0.122575057 2252.646909 304034.369 0.01887691 6545.337142 0.00013473 3.870536023 2.430662244 T(ph)SPDTLR ddPTM_HeLa_SAHA_4h_R1 1 TSPDTLR 7 0 Q01130-2;Q01130;J3QL05;J3KP15 Q01130-2 SRSF2 Serine/arginine-rich splicing factor 2 1 0 T(0.499)S(0.499)PDT(0.003)LR 124.08 0.0049527 688460000 3431.5 4280.4 3135.8 4271.6 4657.8 5006.3 4305.6 3518.7 5835.4 4101.4 TRUE FALSE FALSE 3792.440914 4419.087768 3563.130493 4354.282995 4300.92037 4579.735075 3821.122556 3428.696749 5794.790976 4278.231426 0.886450623 1.032923965 0.832851274 1.017776404 1.005303347 1.070473899 0.893154712 0.801428536 1.354482822 1 12.06279881 -4.522408788 24.99995076 0.960113476 0.824360038 0.092136384 0.142166727 12.56497463 668321.1222 0.009979031 0.038254035 3.00E-05 4.522408788 -0.135753438 T(ph)SPDTLRR ddPTM_HeLa_SAHA_4h_R1 3 TSPDTLRR 8 1 Q01130-2;Q01130;J3QL05;J3KP15 Q01130-2 SRSF2 Serine/arginine-rich splicing factor 2 1 0 T(0.928)S(0.071)PDT(0.001)LRR;T(0.966)S(0.034)PDTLRR;T(0.977)S(0.023)PDTLRR ;; 140.83 0.0055458 499361600 6732.6 6645.3 5776.8 7009.5 7798.9 8537.8 7050.6 7342.3 8545.9 6435.3 TRUE FALSE FALSE 7440.765758 6860.61208 6564.03222 7145.179008 7201.349967 7810.331408 6257.247932 7154.494598 8486.428386 6712.757277 1.108451483 1.022025942 0.977844416 1.064417901 1.072785693 1.163505708 0.932142736 1.065805645 1.26422393 1 12.71268976 -9.720176697 1.635400116 1.000041415 1.058735748 0 0.102963257 0.716970683 3.466585659 0.044560466 0.00977842 1.90E-10 9.720176697 0.058694333 T(ph)SPENVQDR ddPTM_HeLa_SAHA_4h_R1 1 TSPENVQDR 9 0 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 1 0 T(0.5)S(0.5)PENVQDR 177.04 2.63E-05 46464000 1489.7 2050.2 1461.8 1644.9 2286.5 2953.2 1945.7 2329.4 2182.7 1664.9 TRUE FALSE FALSE 1646.393481 2116.627825 1661.006491 1676.739418 2111.308864 2701.570746 1726.764715 2269.817321 2167.510413 1736.681987 0.948010916 1.218776864 0.956425243 0.96548443 1.215714149 1.555593233 0.994289529 1.306985008 1.2480756 1 10.76211788 -5.689490465 5.127494541 0.99296665 1.275083144 0.235432119 0.167295112 0.136671825 6.606530605 0.020201577 0.040736806 2.04E-06 5.689490465 0.282116494 T(ph)SPGRVDLPGSSTTLTK ddPTM_HeLa_SAHA_4h_R1 4 TSPGRVDLPGSSTTLTK 17 1 O94875-11;O94875-9;O94875-12;O94875-8;O94875-7;H7BZX1;H7BZK1;H7C1R7;O94875-4;O94875;O94875-10;O94875-2;O94875-5;O94875-3;H7BXR3 O94875-11 SORBS2 Sorbin and SH3 domain-containing protein 2 1 0 T(0.802)S(0.198)PGRVDLPGSSTTLTK;T(0.822)S(0.178)PGRVDLPGSSTTLTK;T(0.79)S(0.21)PGRVDLPGSSTTLTK;T(0.836)S(0.164)PGRVDLPGSSTTLTK ;;; 119.18 0.00072294 59902900 6200.8 7139.77 6050.23 7358.4 6998.2 8152.2 7548.25 7178 8055.5 6803.45 TRUE FALSE FALSE 6853.028594 7371.103233 6874.723836 7500.832472 6461.999428 7457.586697 6698.901044 6994.397154 7999.44112 7096.780025 0.965653236 1.038654602 0.96871029 1.056934616 0.910553717 1.050840898 0.943935281 0.985573335 1.12719305 1 12.79294887 T(ph)SPINLGLNVNDLLK ddPTM_HeLa_SAHA_4h_R1 1 TSPINLGLNVNDLLK 15 0 P50616 P50616 TOB1 Protein Tob1 1 0 T(0.637)S(0.363)PINLGLNVNDLLK 178.85 5.25E-07 67604000 670.59 586.48 569.57 726.35 968.82 836.18 1005.1 983.58 632.16 796.49 TRUE FALSE FALSE 741.125733 605.4823368 647.1880334 740.4095546 894.5892209 764.9327598 892.0035027 958.4214478 627.7607471 830.8305818 0.892029915 0.728767513 0.778965107 0.891167912 1.076740843 0.920684405 1.073628634 1.153570257 0.755582138 1 9.698410511 -4.413718274 1.005030248 0.917561394 1.24509936 0.414399799 0.10651116 1.357129612 1.245570061 0.016754846 0.44909803 3.86E-05 4.413718274 0.327537966 T(ph)SPLKDNPS(ph)PEPQLDDIKR ddPTM_HeLa_SAHA_4h_R1 1 TSPLKDNPSPEPQLDDIKR 19 2 Q96JC9-2;Q96JC9 Q96JC9-2 EAF1 ELL-associated factor 1 2 0 T(0.749)S(0.251)PLKDNPS(1)PEPQLDDIKR 100.92 0.0013715 12679000 1484.2 1493.6 1308.8 1707.5 2136.8 1656.6 2045.8 1762.4 1724.3 1628.2 TRUE FALSE FALSE 1640.314966 1541.99362 1487.156448 1740.551132 1973.078846 1515.44836 1815.6012 1717.32036 1712.300456 1698.39967 0.965800332 0.90790975 0.875622195 1.024818341 1.161728232 0.892280178 1.069007037 1.011140305 1.008184638 1 10.72996028 -6.030900038 24.94363763 0.968333739 1.03439383 0.217831977 0.072796218 897.8594516 724783.869 0.01069557 0.017750864 9.31E-07 6.030900038 0.06606009 T(ph)SPLKDNPSPEPQLDDIKR ddPTM_HeLa_SAHA_4h_R1 2 TSPLKDNPSPEPQLDDIKR 19 2 Q96JC9-2;Q96JC9 Q96JC9-2 EAF1 ELL-associated factor 1 1 0 T(0.806)S(0.194)PLKDNPSPEPQLDDIKR;T(0.772)S(0.228)PLKDNPSPEPQLDDIKR ; 134.58 0.00045231 34631000 2478.9 3071.3 2456.2 3078.1 3600.4 3857.2 3605.8 3931.9 2609.2 2423.4 TRUE FALSE FALSE 2739.642076 3170.812135 2790.918145 3137.681077 3324.53813 3528.54486 3200.065894 3831.327691 2591.042365 2527.884634 1.083768634 1.254334194 1.104052814 1.241227956 1.315146303 1.39584885 1.265906621 1.515626006 1.02498442 1 11.30371491 -4.877136042 0.236847311 0.967156344 1.735001362 0.822564233 0.066541337 2.14307091 0.129369674 0.056624345 0.481262683 1.33E-05 4.877136042 0.767845018 T(ph)SPLNSSGSSQGR ddPTM_HeLa_SAHA_4h_R1 2 TSPLNSSGSSQGR 13 0 G3XAH6;P51003;H0YJL4 G3XAH6 PAPOLA Poly(A) polymerase alpha 1 0 T(0.913)S(0.087)PLNSSGSSQGR;T(0.996)S(0.004)PLNSSGSSQGR ; 160.48 0.00010424 12350400 2387.64 2975.5 2111.01 2798.11 2977.47 3841.7 2565.51 2678.08 4715.9 2718.81 TRUE FALSE FALSE 2638.78293 3071.908152 2398.687449 2852.271465 2749.336892 3514.365547 2276.832063 2609.578591 4683.081668 2836.031205 0.930449188 1.083171492 0.845790217 1.005726404 0.969431115 1.239184372 0.802823347 0.920151579 1.651280021 1 11.46965769 T(ph)SPLVSQNNEQGSTLR ddPTM_HeLa_SAHA_4h_R1 1 TSPLVSQNNEQGSTLR 16 0 A0A1W2PNZ9;Q15652-3;Q15652;H7BXU7 A0A1W2PNZ9 JMJD1C Probable JmjC domain-containing histone demethylation protein 2C 1 0 T(0.996)S(0.004)PLVSQNNEQGSTLR 181.4 2.86E-09 11131000 1296.6 1765.6 1234.6 1314.8 1472.2 1899.2 1582.6 1450.7 2006.2 1418.6 TRUE FALSE FALSE 1432.982337 1822.806598 1402.844858 1340.249855 1359.400354 1737.377475 1404.521683 1413.593195 1992.238691 1479.762788 0.96838652 1.231823514 0.948020094 0.905719393 0.918660994 1.174091881 0.949153265 0.955283648 1.34632301 1 10.53115021 -4.098383845 0.003410891 0.787647255 1.212128159 0 0.152359739 1704510.33 872.0423535 52877.31632 55676.61844 7.97E-05 4.098383845 0.424480905 T(ph)SPNSLVAYINNSR ddPTM_HeLa_SAHA_4h_R1 2 TSPNSLVAYINNSR 14 0 P10070 P10070 GLI2 Zinc finger protein GLI2 1 0 T(0.864)S(0.135)PNS(0.001)LVAYINNSR;T(0.997)S(0.003)PNSLVAYINNSR ; 145.46 0.00020202 4318600 2536.35 2683.62 2091.48 2257.15 2698.72 2826.4 2461.52 2543.53 2502.37 2608.69 TRUE FALSE FALSE 2803.13493 2770.571049 2376.496002 2300.840402 2491.944657 2585.574819 2184.543291 2478.470186 2484.955803 2721.163393 1.03012371 1.018156814 0.873338223 0.845535556 0.915764435 0.950172572 0.802797545 0.910812703 0.913196102 1 11.41000787 -6.762926501 24.99516453 1.014917438 0.8822515 0.501120988 0.050103949 14.50499755 243798.0842 0.006043633 0.008185505 1.73E-07 6.762926501 -0.132665939 T(ph)SPPCSPANLSR ddPTM_HeLa_SAHA_4h_R1 1 TSPPCSPANLSR 12 0 P49585;C9JEJ2 P49585 PCYT1A Choline-phosphate cytidylyltransferase A 1 0 T(0.841)S(0.159)PPCSPANLSR 115.92 0.0033466 37650000 1257.5 1387.6 1209.3 1088.6 1567.1 1574.1 1589.7 1305.5 1336.9 1318.9 TRUE FALSE FALSE 1389.76962 1432.55915 1374.097106 1109.671427 1447.029137 1439.977824 1410.822772 1272.1072 1327.596404 1375.764234 1.010180077 1.041282449 0.998788217 0.80658546 1.051800229 1.046674851 1.025482955 0.924654944 0.964988311 1 10.42601754 -6.506662005 24.92608947 1.008265707 0.974746364 0.048971147 0.068925664 1822.376435 2801104.26 0.010410711 0.015623314 3.11E-07 6.506662005 -0.033519343 T(ph)SPPGGELSPGAGR ddPTM_HeLa_SAHA_4h_R1 2 TSPPGGELSPGAGR 14 0 Q99958 Q99958 FOXC2 Forkhead box protein C2 1 0 T(0.98)S(0.02)PPGGELSPGAGR;T(0.943)S(0.057)PPGGELSPGAGR ; 146.67 0.00018436 169169000 3664.6 3718.9 3219.3 3260.9 4150.9 4600.2 4040.9 3731.8 4218 3733.2 TRUE FALSE FALSE 4050.059442 3839.3948 3658.009439 3324.019435 3832.858939 4208.23708 3586.207297 3636.34596 4188.646595 3894.156522 1.040035093 0.985937463 0.939358605 0.853591636 0.984259086 1.080654323 0.920920173 0.933795532 1.075623584 1 11.92709516 -6.998923096 4.742014786 1.018788934 0.953817441 0.295529031 0.057276813 0.223178298 13.5779735 0.009441348 0.012139216 1.00E-07 6.998923096 -0.064971493 T(ph)SPPLLDR ddPTM_HeLa_SAHA_4h_R1 7 TSPPLLDR 8 0 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 T(0.934)S(0.066)PPLLDR;T(0.993)S(0.007)PPLLDR;T(0.935)S(0.065)PPLLDR;T(0.927)S(0.073)PPLLDR;T(0.989)S(0.011)PPLLDR;T(0.921)S(0.079)PPLLDR;T(0.909)S(0.091)PPLLDR ;;;;;; 187.5 3.09E-08 3609259800 27807.7 34586.7 27490 30838 34364.1 40233.1 33694.5 30210.1 43019 30934 TRUE FALSE FALSE 30732.64147 35707.33177 31236.19404 31434.91408 31731.13008 36805.01353 29903.10618 29437.36939 42719.62728 32267.71613 0.95242692 1.106596191 0.96803238 0.974190859 0.983370808 1.140614148 0.926719017 0.912285495 1.323912331 1 14.97780385 -4.555092954 24.9999056 0.995890019 0.915893032 0.006349201 0.120050884 189.5332672 147087.4416 0.008328856 0.03116426 2.79E-05 4.555092954 -0.079996986 T(ph)SPQELSEELSR ddPTM_HeLa_SAHA_4h_R1 1 TSPQELSEELSR 12 0 A0A1B0GVY1;Q96PU5-9;Q96PU5-4;Q96PU5-2;Q96PU5-6;Q96PU5-5;Q96PU5-7;Q96PU5;K7ERN1;Q96PU5-3 A0A1B0GVY1 NEDD4L E3 ubiquitin-protein ligase NEDD4-like 1 0 T(0.499)S(0.499)PQELS(0.001)EELSR 111.88 0.004788 7504300 589.15 737.61 785.55 720.03 749.53 836.01 647.81 692.56 848.3 714.99 TRUE FALSE FALSE 651.1195001 761.509048 892.600663 733.9672218 692.1011733 764.7772447 574.9167139 674.845318 842.3966112 745.816718 0.873028835 1.021040464 1.196809674 0.984112053 0.927977554 1.025422502 0.770855225 0.904840696 1.129495479 1 9.542677326 -4.76444818 24.99999756 0.96983117 0.837847957 0.241037599 0.101949658 81.95787511 681014.3733 0.01394138 0.044624788 1.72E-05 4.76444818 -0.131983214 T(ph)SPQPESGIK ddPTM_HeLa_SAHA_4h_R1 1 TSPQPESGIK 10 0 A0A1B0GVV3;Q5EBL4-3;Q5EBL4-2;Q5EBL4 A0A1B0GVV3 RILPL1 RILP-like protein 1 1 0 T(0.988)S(0.012)PQPESGIK 164.48 0.00029088 10568000 2621.8 3009.6 2452.4 2922.8 3060.8 3920.8 3413.6 2412.6 3785.7 2766.8 TRUE FALSE FALSE 2897.572953 3107.113015 2786.6003 2979.37502 2826.282165 3586.725782 3029.492744 2350.889185 3759.355005 2886.090288 1.003978623 1.076582055 0.965527763 1.032322181 0.979277113 1.242762847 1.049687446 0.814558434 1.302577061 1 11.49490072 -7.479790984 24.68297312 1.001755237 1.029724699 0 0.138363904 1706.878491 977797.0414 0.016736788 0.01899279 3.31E-08 7.479790984 0.027969462 T(ph)SPQVLGSILK ddPTM_HeLa_SAHA_4h_R1 3 TSPQVLGSILK 11 0 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 T(0.998)S(0.002)PQVLGSILK;T(0.857)S(0.143)PQVLGSILK;T(0.975)S(0.025)PQVLGSILK ;; 174.46 0.00011343 31335000 8588.5 8206.7 9963.8 10501.1 9884.6 8247.9 10455.5 8086.9 7228.6 7065.3 TRUE FALSE FALSE 9491.877835 8472.602465 11321.61477 10704.36398 9127.244083 7545.132519 9279.019623 7880.048808 7178.295584 7369.91966 1.28792148 1.149619379 1.536192428 1.45243971 1.238445533 1.023774053 1.259039454 1.069217735 0.973999164 1 12.84743318 -9.212936916 0.881823965 0.99518378 1.258176987 0.332632964 0.14867379 0.660585828 0.897273272 0.114549007 0.029760648 6.12E-10 9.212936916 0.262993206 T(ph)SPSGGTWSSVVSGAK ddPTM_HeLa_SAHA_4h_R1 2 TSPSGGTWSSVVSGAK 16 0 F8WB06;F8VRK6 F8WB06 ATXN2 1 0 T(0.982)S(0.018)PSGGTWSSVVSGAK;T(0.585)S(0.414)PS(0.001)GGTWSSVVSGAK ; 200 7.44E-15 27397000 2733 2757.5 3074.6 3306.3 3194.7 3090.8 3034 2976.4 3134.6 2836.8 TRUE FALSE FALSE 3020.469479 2846.844809 3493.590476 3370.298217 2949.922776 2827.446452 2692.606335 2900.267998 3112.786063 2959.108331 1.020736364 0.962061706 1.180622703 1.138957362 0.996895837 0.955506232 0.909938412 0.980115519 1.051933797 1 11.5309468 -5.34602733 3.932316812 1.029438681 0.94412428 0.306915616 0.066144078 0.271551776 7.816346949 0.0102597 0.024401063 4.51E-06 5.34602733 -0.085314401 T(ph)SPSGGTWSSVVSGVPR ddPTM_HeLa_SAHA_4h_R1 3 TSPSGGTWSSVVSGVPR 17 0 Q99700;H0YH87;A0A5F9ZHW5;A0A5F9ZHX3;A0A2R8Y5A6;A0A2R8Y7E6;A0A5F9ZI57;V9GY86;F8VQP2;A0A2R8YDM9;A0A2R8Y7P6;Q99700-5;Q99700-2;Q99700-4;A0A5F9ZHH4 Q99700 ATXN2 Ataxin-2 1 0 T(0.963)S(0.037)PSGGTWSSVVSGVPR;T(0.909)S(0.091)PSGGTWSSVVSGVPR;T(0.897)S(0.103)PSGGTWSSVVSGVPR ;; 226.06 2.05E-27 87975000 4444.67 4410.28 3924.24 4198.06 5033.4 4916.36 4708.61 5037.84 5154.94 4078.65 TRUE FALSE FALSE 4912.180783 4553.175966 4459.014991 4279.319522 4647.741979 4497.458469 4178.78481 4908.979348 5119.066353 4254.500562 1.154584589 1.070202225 1.048070138 1.005833578 1.092429514 1.057106094 0.982203375 1.153832107 1.203212052 1 12.05477407 -9.747282896 1.696004969 1.000021917 1.080922781 0 0.082352244 0.478654449 2.49230345 0.042269786 0.009147123 1.79E-10 9.747282896 0.080900864 T(ph)SPSVTPTPAR ddPTM_HeLa_SAHA_4h_R1 2 TSPSVTPTPAR 11 0 Q8WXE0-2;Q8WXE0 Q8WXE0-2 CASKIN2 Caskin-2 1 0 T(0.939)S(0.061)PSVTPTPAR;T(0.939)S(0.061)PSVTPTPAR ; 199.19 7.38E-10 20169200 4187.6 4820.5 4554.4 4649 5245.6 5050.6 4896.7 5651.5 5207 4519.5 TRUE FALSE FALSE 4628.070981 4976.687363 5175.049914 4738.988118 4843.683261 4620.260466 4345.710429 5506.942813 5170.764063 4714.357763 0.981697023 1.055644822 1.097721084 1.005224541 1.027432262 0.980040272 0.921803276 1.168121532 1.096811978 1 12.20284553 T(ph)SPTPPESATTVK ddPTM_HeLa_SAHA_4h_R1 4 TSPTPPESATTVK 13 0 Q5M775-4;Q5M775;J3KSG2 Q5M775-4 SPECC1 Cytospin-B 1 0 T(0.989)S(0.011)PTPPESATTVK;T(0.987)S(0.013)PTPPESATTVK;T(0.959)S(0.041)PTPPESATTVK;T(0.998)S(0.002)PTPPESATTVK ;;; 202.61 1.17E-10 303766000 11342.5 9059 8981.9 9012.3 10577.1 11447.6 10960.1 10154 10408.3 8597.2 TRUE FALSE FALSE 12535.55619 9352.517544 10205.90656 9186.746099 9766.684883 10472.20008 9726.840703 9894.275383 10335.86779 8967.867366 1.39783024 1.042892046 1.138052799 1.024406999 1.089075528 1.167746985 1.084632534 1.103303046 1.152544677 1 13.13054923 T(ph)SPTVATQTGASATSTR ddPTM_HeLa_SAHA_4h_R1 6 TSPTVATQTGASATSTR 17 0 Q6P1L5;Q6P1L5-2 Q6P1L5 FAM117B Protein FAM117B 1 0 T(0.862)S(0.138)PTVATQTGASATSTR;T(0.863)S(0.136)PTVATQTGASATSTR;T(0.984)S(0.016)PTVATQTGASATSTR;T(0.998)S(0.002)PTVATQTGASATSTR;T(0.964)S(0.036)PTVATQTGASATSTR;T(0.856)S(0.144)PTVATQTGASATSTR ;;;;; 268.08 6.90E-59 141431800 8405.79 8798.48 7846.45 8788 8527.77 10433.5 9031.33 9725.31 10215.62 8609.46 TRUE FALSE FALSE 9289.949559 9083.556525 8915.723343 8958.104448 7874.374105 9544.507103 8015.100979 9476.550652 10144.52867 8980.655954 1.034439979 1.011458024 0.992769725 0.99748888 0.876815028 1.062785074 0.892485028 1.055218093 1.12959774 1 13.13260511 -6.435621837 2.194811777 1.016225561 0.971203727 0.135923954 0.066782731 0.475322482 4.511389041 0.008131797 0.013077709 3.67E-07 6.435621837 -0.045021835 T(ph)SPYILR ddPTM_HeLa_SAHA_4h_R1 2 TSPYILR 7 0 P49454 P49454 CENPF Centromere protein F 1 0 T(0.711)S(0.289)PYILR;T(0.695)S(0.305)PYILR ; 143.89 0.0004192 74136000 6194.8 7307.8 5367.7 6939.2 8220.9 8726.1 7810.9 6903.4 10489.7 6960.5 TRUE FALSE FALSE 6846.397487 7544.577515 6099.182202 7073.51825 7591.016418 7982.587188 6931.996975 6726.821024 10416.70132 7260.601219 0.942951869 1.039111953 0.840038176 0.97423313 1.045507967 1.099438868 0.954741455 0.926482645 1.434688535 1 12.8258733 -5.970717714 22.72476723 0.966607987 1.009527232 0 0.161656234 155.697405 120827.8897 0.009743862 0.017661841 1.07E-06 5.970717714 0.042919244 T(ph)SRDTSPSSGS(ph)AVSSSK ddPTM_HeLa_SAHA_4h_R1 1 TSRDTSPSSGSAVSSSK 17 1 F8WF16;B7Z8L1;F8W6A0;F8W0Q9;Q8NEY8-5;Q8NEY8-6;Q8NEY8-9;Q8NEY8-8;Q8NEY8-2;Q8NEY8-3;Q8NEY8;Q8NEY8-7 F8WF16 PPHLN1 Periphilin-1 2 0 T(0.768)S(0.229)RDT(0.003)S(0.002)PS(0.002)S(0.002)GS(0.994)AVSSSK 129.98 0.00085654 4448200 1143.5 1576.9 1166.7 1364 1376 1534.1 1598.4 1376.9 1742 1295.1 TRUE FALSE FALSE 1263.778577 1627.992595 1325.6918 1390.402192 1270.571177 1403.386049 1418.543825 1341.680892 1729.87728 1350.938099 0.935482223 1.205083042 0.981312024 1.029212362 0.940510286 1.038823356 1.050043541 0.993147571 1.280500773 1 10.39974586 T(ph)SRDTSPSSGSAVSSSK ddPTM_HeLa_SAHA_4h_R1 1 TSRDTSPSSGSAVSSSK 17 1 F8WF16;B7Z8L1;F8W6A0;F8W0Q9;Q8NEY8-5;Q8NEY8-6;Q8NEY8-9;Q8NEY8-8;Q8NEY8-2;Q8NEY8-3;Q8NEY8;Q8NEY8-7 F8WF16 PPHLN1 Periphilin-1 1 0 T(0.835)S(0.068)RDT(0.005)S(0.092)PSSGSAVSSSK 106.47 0.0021243 7899900 4742.4 1710.8 4024.1 3397.7 2438.3 2035.8 3903.7 5327.2 677 2499.1 TRUE FALSE FALSE 5241.227391 1766.231042 4572.483391 3463.467397 2251.477981 1862.338387 3464.445402 5190.937938 672.2887019 2606.848431 2.010560847 0.677534996 1.754027329 1.328603288 0.863678131 0.714402251 1.328978456 1.991269563 0.257893284 1 11.34809099 -5.995371836 24.92980153 1.440107569 1.183165456 0 0.599408838 357.4585178 1925436.939 0.079418616 0.143560064 1.01E-06 5.995371836 -0.256942112 T(ph)SSEDNLYLAVLR ddPTM_HeLa_SAHA_4h_R1 5 TSSEDNLYLAVLR 13 0 Q15149-4 Q15149-4 PLEC Plectin 1 0 T(0.777)S(0.115)S(0.107)EDNLYLAVLR;T(0.379)S(0.379)S(0.242)EDNLYLAVLR;T(0.591)S(0.092)S(0.317)EDNLYLAVLR;T(0.482)S(0.035)S(0.482)EDNLYLAVLR;T(0.333)S(0.333)S(0.333)EDNLYLAVLR ;;;; 273.07 3.10E-54 3244748000 5891.87 10051.41 7386.91 8124.73 8644.9 8731 8709.14 7439.79 7971.17 7485 TRUE FALSE FALSE 6511.603919 10377.08228 8393.559625 8281.995898 7982.52963 7987.069681 7729.164646 7249.490944 7915.697979 7807.714981 0.83399611 1.32908057 1.075034072 1.060745163 1.022389989 1.022971471 0.989939395 0.928503533 1.013830295 1 12.93068467 T(ph)SSFTEQLDEGTPNR ddPTM_HeLa_SAHA_4h_R1 1 TSSFTEQLDEGTPNR 15 0 Q13439-3;Q13439-4;Q13439;Q13439-5;E7EVX2;Q86W71;C9J0Y3;C9JHJ5 Q13439-3 GOLGA4 Golgin subfamily A member 4 1 0 T(0.7)S(0.149)S(0.149)FT(0.002)EQLDEGTPNR 270.74 6.66E-56 30113000 918.84 841.48 626.79 773.36 1030.4 652.91 1084 967.86 1138.6 711.94 TRUE FALSE FALSE 1015.487807 868.7445041 712.205677 788.3295011 951.4509746 597.2783948 962.0254671 943.1035426 1130.67639 742.6352175 1.367411325 1.169813232 0.959024916 1.061529917 1.281182136 0.80426888 1.295421284 1.269941851 1.522519217 1 9.536509923 -6.965793599 24.95545472 1.178505853 1.107722826 0.06260062 0.198458514 630.006695 459623.0964 0.031178424 0.040976401 1.08E-07 6.965793599 -0.070783027 T(ph)SSLTQFPPSQSEER ddPTM_HeLa_SAHA_4h_R1 1 TSSLTQFPPSQSEER 15 0 B7Z7F3;Q9H6Z4-3;Q9H6Z4-2;Q9H6Z4 B7Z7F3 RANBP3 Ran-binding protein 3 1 0 T(0.909)S(0.052)S(0.038)LT(0.001)QFPPSQSEER 119 0.00054335 0 446.13 337.87 325.47 354.83 390.46 461.93 438.84 603.4 512.17 462.62 TRUE FALSE FALSE 493.0560003 348.8172097 369.8233566 361.6982477 360.5430392 422.5709653 389.4605682 587.9659017 508.6057673 482.5658122 1.021738357 0.722838628 0.766368747 0.749531439 0.747137551 0.875675306 0.80706208 1.21841599 1.053961459 1 8.9145819 -7.283142699 24.15600357 1.010265349 0.831033244 0.274947421 0.135774775 483.7637066 538432.172 0.02227255 0.025482862 5.21E-08 7.283142699 -0.179232105 T(ph)SSPRSPPSSSEIFTPAHEENVR ddPTM_HeLa_SAHA_4h_R1 2 TSSPRSPPSSSEIFTPAHEENVR 23 1 I3L3A7;I3L2L5;I3L317;I3L4Q0;C9JLW8 I3L3A7 FAM195B Protein FAM195B 1 0 T(0.432)S(0.432)S(0.068)PRS(0.068)PPSSSEIFTPAHEENVR;T(0.33)S(0.33)S(0.33)PRS(0.01)PPSSSEIFTPAHEENVR ; 141.64 6.89E-07 34173000 2790.2 2576.5 2610.04 2531.68 3212.9 3650 3660.2 3171.5 2497.13 2872.1 TRUE FALSE FALSE 3083.686038 2659.980291 2965.722659 2580.684327 2966.728296 3338.999466 3248.344663 3090.377622 2479.752269 2995.930287 1.029291653 0.887864548 0.989917113 0.861396655 0.99025278 1.114511736 1.08425242 1.031525211 0.827706933 1 11.54878834 -5.278624145 23.1729107 0.989513865 1.077512044 0.2764764 0.076256296 285.9685883 385616.5158 0.008861118 0.019874658 5.26E-06 5.278624145 0.08799818 T(ph)SSTCS(ph)NESLSVGGTSVTPR ddPTM_HeLa_SAHA_4h_R1 1 TSSTCSNESLSVGGTSVTPR 20 0 A0A3B3IRT3;O60343-2;O60343-3;O60343;Q5JU47 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 2 0 T(0.583)S(0.005)S(0.406)T(0.006)CS(0.999)NESLSVGGTSVTPR 173.09 6.59E-08 7791300 1182.9 1454.2 1434 1420.8 1193.5 1243.6 1534.1 1487.5 1672.7 1295.5 TRUE FALSE FALSE 1307.322849 1501.317034 1629.418052 1448.301639 1102.054288 1137.638284 1361.47903 1449.451904 1661.059545 1351.355345 0.967416049 1.110971322 1.205765795 1.071740045 0.815517763 0.841849842 1.007491505 1.072591239 1.22918043 1 10.40019137 -4.290676604 5.321328102 0.993474359 1.074453855 0 0.132677073 0.440642386 36.78758153 0.016066717 0.113776898 5.12E-05 4.290676604 0.080979496 T(ph)SSTCSNESLSVGGTSVTPR ddPTM_HeLa_SAHA_4h_R1 1 TSSTCSNESLSVGGTSVTPR 20 0 A0A3B3IRT3;O60343-2;O60343-3;O60343;Q5JU47 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 1 0 T(0.757)S(0.037)S(0.005)T(0.07)CS(0.124)NES(0.007)LSVGGTSVTPR 123.42 0.00025245 4220600 579.2 547.06 522.51 749.8 467.78 697.14 472.36 575.91 632.78 550.14 TRUE FALSE FALSE 640.1229135 564.7851029 593.7149417 764.3134632 431.9387975 637.73975 419.2088096 561.1790561 628.3764325 573.8592277 1.11547028 0.984187542 1.034600322 1.331883198 0.752691212 1.111317409 0.730508092 0.97790369 1.095001007 1 9.164553065 -5.729677502 24.99999698 1.065609949 0.897077759 0.328737526 0.136810794 197.3916691 155367.4509 0.018379508 0.036756595 1.86E-06 5.729677502 -0.168532189 T(ph)SSTDEVLSLEEK ddPTM_HeLa_SAHA_4h_R1 1 TSSTDEVLSLEEK 13 0 K7ENH8;A0A0A0MRB7;P15923-2;K7EMM4 K7ENH8 TCF3 Transcription factor E2-alpha 1 0 T(0.587)S(0.001)S(0.38)T(0.031)DEVLSLEEK 221.86 2.46E-16 16237000 2566.7 3042.1 2499.2 2658.6 3977.1 4433 4452.8 3983.8 3806.6 3383.9 TRUE FALSE FALSE 2836.677282 3140.666036 2839.777961 2710.061047 3672.375457 4055.283461 3951.759225 3881.900164 3780.109561 3529.796489 0.803637629 0.889758388 0.804516059 0.767766939 1.040392971 1.148871747 1.119543078 1.099751834 1.070914307 1 11.78536929 -5.568380064 6.28631447 0.88653291 1.118394121 0.598923649 0.087163475 0.098633406 9.448849278 0.013083235 0.02655092 2.70E-06 5.568380064 0.231861211 T(ph)SSTDEVLSLEEKDLR ddPTM_HeLa_SAHA_4h_R1 1 TSSTDEVLSLEEKDLR 16 1 K7ENH8;A0A0A0MRB7;P15923-2;K7EMM4 K7ENH8 TCF3 Transcription factor E2-alpha 1 0 T(0.538)S(0.121)S(0.171)T(0.171)DEVLSLEEKDLR 134.4 0.00013533 6188900 2913.7 2165 3384.6 3236.8 3483 3297.1 4627.5 4423.7 2695.4 3204.4 TRUE FALSE FALSE 3220.176335 2235.147421 3845.835662 3299.452944 3216.133292 3016.168531 4106.801521 4310.548159 2676.642492 3342.557366 0.963387006 0.66869381 1.150566839 0.987104359 0.962177441 0.902353558 1.22864055 1.289595866 0.80077683 1 11.70673661 -4.694211825 5.796019625 0.966560584 1.269864353 0.510179185 0.125298661 0.112080776 6.842978061 0.014946959 0.057377847 2.02E-05 4.694211825 0.303303768 T(ph)STFCGTPEFLAPEVLTDTSYTR ddPTM_HeLa_SAHA_4h_R1 1 TSTFCGTPEFLAPEVLTDTSYTR 23 0 Q16512;Q16512-2 Q16512 PKN1 Serine/threonine-protein kinase N1 1 0 T(0.347)S(0.347)T(0.306)FCGT(0.001)PEFLAPEVLTDTSYTR 64.701 0.004522 2280100 282.96 67.266 260.33 175.98 282.73 313.62 412.9 311.03 171.49 195.43 TRUE FALSE FALSE 312.7230311 69.44546253 295.8064167 179.3863474 261.0672885 286.8978116 366.4394053 303.074303 170.2965871 203.8559437 1.534039309 0.340659494 1.45105613 0.879966235 1.280645949 1.407355638 1.797540943 1.486708199 0.8353771 1 7.671406211 -5.103123962 2.685544625 1.174555858 1.638989447 0.286193745 0.346003953 0.314155771 4.361627668 0.049562907 0.15609837 7.89E-06 5.103123962 0.464433589 T(ph)STPVIMEGVQEETDTR ddPTM_HeLa_SAHA_4h_R1 2 TSTPVIMEGVQEETDTR 17 0 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 T(0.333)S(0.333)T(0.333)PVIMEGVQEETDTR;T(0.703)S(0.11)T(0.187)PVIMEGVQEETDTR ; 265.43 8.65E-59 22894000 2039.3 3229.68 2104.81 2446.26 2091.65 2422.25 2735.03 2867.79 2537.08 2571.78 TRUE FALSE FALSE 2253.802931 3334.323751 2391.642545 2493.6109 1931.388229 2215.860673 2427.277226 2794.436084 2519.424254 2682.662022 0.840136742 1.242916075 0.891518397 0.929528535 0.719952127 0.825993232 0.904801725 1.041665354 0.939150826 1 11.38944959 -6.161990059 3.392498812 0.949456526 0.869405043 0.10867827 0.126794592 0.56880985 12.3883762 0.020552885 0.035217594 6.89E-07 6.161990059 -0.080051483 T(ph)STSLGSAFGVQLDS(ph)RK ddPTM_HeLa_SAHA_4h_R1 1 TSTSLGSAFGVQLDSRK 17 1 Q70Z35-4;Q70Z35 Q70Z35-4 PREX2 "Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 2 protein" 2 0 T(0.25)S(0.25)T(0.25)S(0.25)LGS(0.001)AFGVQLDS(1)RK 97.163 0.00507 4243400 3236 3578.5 3381.9 3531 3707.2 4293.5 4074.4 3690.6 3795.8 3598.5 TRUE FALSE FALSE 3576.377327 3694.445748 3842.76772 3599.347611 3423.155137 3927.669645 3615.937789 3596.199796 3769.384719 3753.648946 0.952773522 0.984227828 1.023741904 0.958892977 0.911953991 1.046360409 0.963312723 0.958054375 1.004192127 1 11.87407802 T(ph)SVAGTVR ddPTM_HeLa_SAHA_4h_R1 1 TSVAGTVR 8 0 Q96EB6;B0QZ35;E9PC49 Q96EB6 SIRT1 NAD-dependent protein deacetylase sirtuin-1;SirtT1 75 kDa fragment 1 0 T(0.653)S(0.347)VAGTVR 125.71 0.0046642 5041100 1694.5 1913.6 1465.6 1928.7 1942.1 2091 1891.5 1907.5 1825.1 2024.5 TRUE FALSE FALSE 1872.735285 1975.601896 1665.324335 1966.032777 1793.296718 1912.835036 1678.663442 1858.708912 1812.398981 2111.786103 0.886801595 0.93551231 0.788585706 0.930981019 0.849184828 0.905790143 0.794902211 0.880159648 0.858230376 1 11.044248 -10.2660621 0.24436052 1.13581748 0.845477286 0 0.064381449 5.082809704 0.267897327 0.449119269 0.034681998 5.42E-11 10.2660621 -0.290340195 T(ph)SVQTEDDQLIAGQSAR ddPTM_HeLa_SAHA_4h_R1 2 TSVQTEDDQLIAGQSAR 17 0 G3XAM7;P35221-3;P35221;P35221-2;A0A0A0MTJ6;A0A0A0MRI5;P26232-4;P26232-6;P26232-3;P26232-2;P26232-5;P26232 G3XAM7 CTNNA1;CTNNA2 Catenin alpha-1;Catenin alpha-2 1 0 T(0.498)S(0.498)VQT(0.004)EDDQLIAGQSAR;T(0.987)S(0.013)VQTEDDQLIAGQSAR ; 269.87 5.73E-59 18446400 1101.34 1469.75 1006.69 1050.86 1441.27 1467.18 1329.63 1163.51 1659.87 1444.99 TRUE FALSE FALSE 1217.183994 1517.370864 1143.876471 1071.200915 1330.840204 1342.16801 1180.016533 1133.749099 1648.31883 1507.290591 0.807531077 1.006687678 0.758895781 0.71067976 0.882935389 0.890450732 0.78287262 0.752176857 1.093564068 1 10.55774187 -13.52287874 0.221419246 1.961338593 0.795830576 0.531288863 0.083634344 35.34741906 0.448895462 14.71120983 0.064029558 3.00E-14 13.52287874 -1.165508017 T(ph)T(ph)RS(ph)RR ddPTM_HeLa_SAHA_4h_R1 1 TTRSRR 6 2 Q96T58;Q8WXC6-1 Q96T58 SPEN Msx2-interacting protein 3 0 T(1)T(1)RS(1)RR 46.37 0.0085194 0 1889.5 2128.9 1774 2158 2478.7 2778.9 2331.4 2435.6 2392.9 2579.1 TRUE FALSE FALSE 2088.246279 2197.877757 2015.751481 2199.771211 2288.782541 2542.122086 2069.064736 2373.300879 2376.247614 2690.297623 0.776213851 0.816964539 0.749267094 0.817668347 0.850754401 0.944922251 0.769083955 0.882170381 0.8832657 1 11.39355007 -9.35574649 1.045350804 1.001396275 0.822398197 0.279444836 0.06460148 0.298112631 0.575764865 0.03972495 0.010026002 4.41E-10 9.35574649 -0.178998079 T(ph)THSPYEER ddPTM_HeLa_SAHA_4h_R1 1 TTHSPYEER 9 0 Q8NDT2;Q8NDT2-2 Q8NDT2 RBM15B Putative RNA-binding protein 15B 1 0 T(0.611)T(0.38)HS(0.008)PYEER 114.89 0.008368 1854400 985.49 843.84 613.06 931.29 1094.7 126.57 1057 1146.5 954.52 1013.1 TRUE FALSE FALSE 1089.14836 871.1809697 696.6046241 949.3164646 1010.824322 115.7855239 938.0635781 1117.17419 947.8774176 1056.779699 1.030629526 0.824373302 0.659176766 0.898310656 0.956513759 0.109564485 0.887662376 1.057149557 0.896948927 1 10.04545894 -7.150955781 3.876957452 1.014562511 0.751959966 0.123508752 0.247242446 0.288943469 7.745740555 0.040448115 0.049855055 7.06E-08 7.150955781 -0.262602545 T(ph)TIFSPEGR ddPTM_HeLa_SAHA_4h_R1 2 TTIFSPEGR 9 0 H0YMI6;H0YMA1;H0YMZ1;H0YL69;P25789;H0YLS6;H0YLC2 H0YMI6 PSMA4 Proteasome subunit alpha type;Proteasome subunit alpha type-4 1 0 T(0.857)T(0.089)IFS(0.054)PEGR;T(0.609)T(0.008)IFS(0.383)PEGR ; 107.45 0.012355 36362000 5476.6 5641.5 5491.3 5704 6925.2 7065.9 6500.3 5610.8 6212.7 5888.7 TRUE FALSE FALSE 6052.653916 5824.288302 6239.625767 5814.409168 6394.592672 6463.845568 5768.869136 5467.28386 6169.465315 6142.590676 0.985358497 0.948181087 1.015797095 0.946572786 1.04102536 1.052299577 0.939158971 0.890061563 1.004375131 1 12.58463153 -4.543360922 7.989613925 0.99472494 0.901917577 0.534886137 0.032771307 0.083666756 25.78488971 0.004366974 0.017061333 2.86E-05 4.543360922 -0.092807363 T(ph)TKSPSDSGYSYETIGK ddPTM_HeLa_SAHA_4h_R1 2 TTKSPSDSGYSYETIGK 17 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.752)T(0.135)KS(0.111)PS(0.001)DS(0.001)GYSYETIGK;T(0.659)T(0.291)KS(0.041)PS(0.009)DSGYSYETIGK ; 106.86 0.0020762 164453000 6223 5496.83 5399.26 5639.61 6531.5 6789.3 6290.3 6658.69 6269.32 5623.93 TRUE FALSE FALSE 6877.563692 5674.930899 6135.043035 5748.772807 6031.057881 6210.813444 5582.498889 6488.370351 6225.691292 5866.405145 1.172364254 0.967360889 1.045792591 0.979948139 1.028067058 1.058708577 0.951604731 1.106021523 1.061244687 1 12.51826099 -7.235426022 24.9930357 1.081394246 1.018331991 0.172155435 0.058308712 1123.256332 1079199.116 0.012145721 0.0148735 5.82E-08 7.235426022 -0.063062255 T(ph)TKTPEDGDYSYEIIEK ddPTM_HeLa_SAHA_4h_R1 1 TTKTPEDGDYSYEIIEK 17 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.498)T(0.103)KT(0.399)PEDGDYSYEIIEK 103.4 0.0025143 28405000 1380.9 1509.7 1299.5 1443 1616.5 1546.6 2054.7 1675.9 1482.7 1559.3 TRUE FALSE FALSE 1526.149398 1558.615271 1476.589092 1470.931352 1492.644119 1414.820979 1823.499748 1633.032905 1472.38177 1626.529054 0.938285974 0.958246191 0.907815996 0.904337582 0.917686724 0.869840582 1.121098786 1.003998607 0.905229308 1 10.66758088 -4.754333307 24.99998958 0.950910986 1.062548685 0.516890357 0.04823746 115.7488497 407206.857 0.007166679 0.025694708 1.76E-05 4.754333307 0.111637699 T(ph)TPAPVNQTDR ddPTM_HeLa_SAHA_4h_R1 2 TTPAPVNQTDR 11 0 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-6;Q8NEY1-5;H0Y6F6 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 T(0.883)T(0.117)PAPVNQTDR;T(0.975)T(0.024)PAPVNQTDR ; 111.86 0.0064954 6176400 2212.6 3220.6 2009.43 2176.05 2837.2 2985 2594.12 2245.2 3237.2 2862.56 TRUE FALSE FALSE 2445.33142 3324.949553 2283.264656 2218.170594 2619.814349 2730.661207 2302.22279 2187.771035 3214.672062 2985.978971 0.818937924 1.113520753 0.764662001 0.742862095 0.877372003 0.914494453 0.771011053 0.732681327 1.076588982 1 11.54398829 -13.52287875 0.114715434 1.521185669 0.741356649 0.3825917 0.104885811 100.5799323 0.840957118 12.46062687 0.57424801 3.00E-14 13.52287875 -0.77982902 T(ph)TPNSGDVQVTEDAVR ddPTM_HeLa_SAHA_4h_R1 2 TTPNSGDVQVTEDAVR 16 0 P35269;M0QXD6 P35269 GTF2F1 General transcription factor IIF subunit 1 1 0 T(0.971)T(0.029)PNSGDVQVTEDAVR;T(0.984)T(0.016)PNSGDVQVTEDAVR ; 202.18 6.00E-15 14119000 1298.02 1760.99 1251.21 1550.93 1856.5 2445.9 1784.11 2447.71 2271.2 1800.2 TRUE FALSE FALSE 1434.551699 1818.047231 1421.718383 1580.950493 1714.255371 2237.49556 1583.357247 2385.101122 2255.394534 1877.815432 0.763947124 0.968171419 0.757112951 0.841909416 0.912898756 1.191541789 0.843191093 1.270146726 1.201073596 1 10.87483955 -5.416129465 6.585097386 0.878661235 1.074867098 0.174481514 0.161702867 0.224920301 12.05773432 0.018708557 0.04207557 3.84E-06 5.416129465 0.196205863 T(ph)TPNSGDVQVTEDAVRR ddPTM_HeLa_SAHA_4h_R1 1 TTPNSGDVQVTEDAVRR 17 1 P35269;M0QXD6 P35269 GTF2F1 General transcription factor IIF subunit 1 1 0 T(0.793)T(0.202)PNS(0.004)GDVQVTEDAVRR 112.82 0.0016778 12077000 856.78 808.74 983.52 845.19 1028.2 1124.6 875.67 763.31 891.44 902.36 TRUE FALSE FALSE 946.9000514 834.9437066 1117.548984 861.5498746 949.4195381 1028.777753 777.137307 743.7856355 885.2363965 941.2651556 1.005986513 0.887044104 1.18728392 0.915310494 1.008663215 1.092973374 0.825630591 0.790197779 0.940475052 1 9.878457379 -4.672586811 6.799224448 1.006644768 0.80137083 0.47942267 0.082177701 0.114829648 7.266141696 0.009738061 0.03704308 2.13E-05 4.672586811 -0.205273938 T(ph)TPSYVAFTDTER ddPTM_HeLa_SAHA_4h_R1 1 TTPSYVAFTDTER 13 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;P11142;E9PKE3;P11142-2;E9PNE6;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;P54652;E9PN25;E9PI65;P17066;P48741 A0A0G2JIW1;P11142;P17066 HSPA1B;HSPA1A;HSPA8;HSPA2;HSPA6;HSPA7 Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A;Heat shock cognate 71 kDa protein;Heat shock-related 70 kDa protein 2;Heat shock 70 kDa protein 6;Putative heat shock 70 kDa protein 7 1 0 T(0.413)T(0.397)PS(0.19)YVAFTDTER 101.62 0.0082917 2551100 581.47 551.56 338.17 570.72 501.9 744.43 476.04 565.8 694.91 411.25 TRUE FALSE FALSE 642.6316825 569.4309059 384.2540465 581.7671109 463.4445304 681.000376 422.4747263 551.3276553 690.0740647 428.9810001 1.498042296 1.327403558 0.895736749 1.356160554 1.080338128 1.587483771 0.984833189 1.28520297 1.608635498 1 8.744769941 -9.677559109 1.555693367 1.000688853 1.283588264 0 0.279402003 0.51276088 2.24368982 0.146925708 0.033126908 2.10E-10 9.677559109 0.282899412 T(ph)TPTLGLEEVLSSR ddPTM_HeLa_SAHA_4h_R1 2 TTPTLGLEEVLSSR 14 0 O43474-4;O43474-1;O43474 O43474-4 KLF4 Krueppel-like factor 4 1 0 T(0.984)T(0.016)PTLGLEEVLSSR;T(0.99)T(0.01)PTLGLEEVLSSR ; 177.36 1.77E-06 10045000 963.87 1128.34 733.18 960.37 819.3 1302.2 960.72 896.53 1093.18 1218.88 TRUE FALSE FALSE 1065.254269 1164.898956 833.0939522 978.9593501 756.525411 1191.245234 852.6172571 873.5980608 1085.572471 1271.431882 0.837838255 0.916210277 0.655240728 0.769966023 0.595018437 0.936932014 0.670596097 0.687097809 0.853818822 1 10.31223846 -8.00143455 0.365976141 1.023296066 0.703515962 0.324006014 0.106996131 0.742815625 0.260925175 0.095877487 0.054702599 9.97E-09 8.00143455 -0.319780104 T(ph)TPTQPSEQK ddPTM_HeLa_SAHA_4h_R1 3 TTPTQPSEQK 10 0 O95104-2;O95104-3;O95104 O95104-2 SCAF4 "Splicing factor, arginine/serine-rich 15" 1 0 T(0.607)T(0.393)PTQPSEQK;T(0.897)T(0.103)PTQPSEQK;T(0.994)T(0.006)PTQPSEQK ;; 157.68 0.00044135 39028900 6174.45 6850.7 4865.4 7592.32 7435.82 7908.08 6880.98 6417.37 8364.01 6637.12 TRUE FALSE FALSE 6823.90698 7072.667175 5528.431374 7739.280332 6866.089078 7234.267094 6106.714021 6253.222968 8305.804173 6923.278724 0.985646722 1.021577703 0.798527922 1.117863463 0.991739514 1.044919233 0.882055203 0.90321699 1.1996923 1 12.75723972 -4.74609056 24.99896313 0.99277202 0.892636028 0.166731595 0.100035864 254.9197404 415186.3408 0.009469128 0.035159086 1.79E-05 4.74609056 -0.100135992 T(ph)TPVDLCLLEESVGSLEGSR ddPTM_HeLa_SAHA_4h_R1 2 TTPVDLCLLEESVGSLEGSR 20 0 Q9UKK3 Q9UKK3 PARP4 Poly [ADP-ribose] polymerase 4 1 0 T(0.5)T(0.5)PVDLCLLEESVGSLEGSR;T(0.844)T(0.156)PVDLCLLEESVGSLEGSR ; 205.98 5.48E-51 75701000 1519.249 1655.04 1467.548 1846.12 1839.64 1697.58 2133.6 1359.83 1256 1333.39 TRUE FALSE FALSE 1679.05058 1708.664382 1667.537799 1881.854322 1698.687181 1552.936634 1893.521713 1325.047518 1247.259394 1390.878968 1.207186692 1.228478121 1.198909349 1.352996461 1.221304815 1.11651457 1.361384963 0.952669174 0.89674186 1 10.44178117 -9.028005083 0.736364259 0.993663426 1.214329549 0.420865006 0.115253648 0.597582454 0.570724082 0.076340138 0.021077066 9.38E-10 9.028005083 0.220666123 T(ph)TRTPDTSTYCYETAEK ddPTM_HeLa_SAHA_4h_R1 1 TTRTPDTSTYCYETAEK 17 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.351)T(0.351)RT(0.296)PDT(0.001)STYCYETAEK 81.884 0.0095758 146840000 3780.1 2849.7 3227 3291.4 3842.4 3640.7 3581.9 3487.5 2976.6 3344 TRUE FALSE FALSE 4177.708262 2942.03215 3666.758755 3355.109806 3547.996142 3330.491878 3178.855185 3398.2948 2955.885598 3488.176205 1.197676957 0.843429912 1.051196539 0.961852157 1.017149345 0.954794621 0.911322995 0.97423255 0.847401457 1 11.7682572 -7.265523564 24.9978162 1.09334745 0.963009617 0 0.103904512 299.8297818 1835146.519 0.014670884 0.017101409 5.43E-08 7.265523564 -0.130337833 T(ph)TSFAESCKPVQQPSAFGSMK ddPTM_HeLa_SAHA_4h_R1 1 TTSFAESCKPVQQPSAFGSMK 21 1 A0A3B3ITW1;P49841;P49841-2 A0A3B3ITW1 GSK3B Glycogen synthase kinase-3 beta 1 0 T(0.7)T(0.148)S(0.148)FAES(0.005)CKPVQQPSAFGSMK 64.68 0.0076294 5495500 944.87 1028.9 789.27 1125.5 1191.4 972.22 1065.4 958.63 889.96 1048 TRUE FALSE FALSE 1044.255762 1062.237035 896.8276053 1147.28568 1100.115189 889.3813864 945.518388 934.1096327 883.7666959 1093.184409 0.955242092 0.971690619 0.820380896 1.049489611 1.006339992 0.813569403 0.864921216 0.854484957 0.808433315 1 10.09432107 -1 0.237507117 0.991896413 0.052068415 0 0.087604576 41.17811126 0.506278017 0.041113389 15.3704072 0.1 1 -0.939827998 T(ph)TSISPALAR ddPTM_HeLa_SAHA_4h_R1 4 TTSISPALAR 10 0 Q9UKE5-8;Q9UKE5-5;Q9UKE5-7;Q9UKE5-3;Q9UKE5-6;Q9UKE5-2;Q9UKE5-4;Q9UKE5 Q9UKE5-8 TNIK TRAF2 and NCK-interacting protein kinase 1 0 T(0.798)T(0.007)S(0.028)IS(0.167)PALAR;T(0.847)T(0.127)S(0.006)IS(0.02)PALAR;T(0.828)T(0.01)S(0.037)IS(0.125)PALAR;T(0.924)T(0.017)S(0.01)IS(0.048)PALAR ;;; 150.15 0.0011077 162230000 9977.5 10114.6 9081.4 9670.1 10852.8 9662.4 11462.3 10260.9 10109.4 9181.3 TRUE FALSE FALSE 11026.97923 10442.31968 10318.9659 9857.278769 10021.26081 8839.109161 10172.53184 9998.441036 10039.04786 9577.150775 1.151384111 1.090336774 1.077456766 1.029249617 1.046371833 0.922937246 1.062166826 1.043989102 1.048229071 1 13.2253808 -6.081432072 2.336074973 1.075472692 1.015201837 0.216447239 0.049962354 0.454087713 4.877825915 0.010260953 0.018891047 8.29E-07 6.081432072 -0.060270856 T(ph)TSPLEEEEREIK ddPTM_HeLa_SAHA_4h_R1 1 TTSPLEEEEREIK 13 1 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 T(0.605)T(0.089)S(0.306)PLEEEEREIK 177.16 0.00062524 22534000 3317.9 2398.4 2834.4 3319 2829.2 2911.1 3313.8 3627.3 2202.4 2521.6 TRUE FALSE FALSE 3666.891945 2476.109734 3220.657271 3383.244044 2612.427307 2663.057903 2940.922503 3534.518918 2187.073319 2630.318516 1.394086656 0.941372582 1.224436224 1.286248803 0.993198083 1.012446928 1.118086074 1.343760802 0.831486113 1 11.3610218 -5.766207308 24.99649511 1.179490436 1.109500628 0 0.186384072 405.7607671 2127266.894 0.027061266 0.050254369 1.71E-06 5.766207308 -0.069989808 T(ph)TSPPEVSGYSYEK ddPTM_HeLa_SAHA_4h_R1 1 TTSPPEVSGYSYEK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.597)T(0.013)S(0.39)PPEVSGYSYEK 135.91 0.0005822 438200000 1317.8 1237.1 1118.5 1123 1389.1 1302.2 1136.7 1251.8 1250.2 1077 TRUE FALSE FALSE 1456.41225 1277.182852 1270.923355 1144.737289 1282.667458 1191.245234 1008.795524 1219.780769 1241.499756 1123.434741 1.296392392 1.1368554 1.131283651 1.018961981 1.141737398 1.060359975 0.897956497 1.085760235 1.105092901 1 10.13370061 -5.401515549 1.045953419 1.139879341 0.991542996 0.210738539 0.088955904 0.823338976 1.597565269 0.019691524 0.085986679 3.97E-06 5.401515549 -0.148336346 T(ph)TT(ph)TFLLR ddPTM_HeLa_SAHA_4h_R1 1 TTTTFLLR 8 0 H0YAY3;E9PF32;A2RUS2-2;A2RUS2 H0YAY3 DENND3 DENN domain-containing protein 3 2 0 T(0.998)T(0.007)T(0.498)T(0.498)FLLR 54.157 0.0081229 0 0 0 0 54.442 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 55.49580363 0 0 0 0 0 0 0 T(ph)TTPSRYPQHTR ddPTM_HeLa_SAHA_4h_R1 1 TTTPSRYPQHTR 12 1 Q06413-5;A0A0D9SFD0;Q06413-6;A0A0D9SGI5;Q06413;Q06413-2;Q06413-3;Q06413-4;A0A1B0GV32;A0A0R4J2G5;A0A0D9SGF3;D8L7E9 Q06413-5 MEF2C Myocyte-specific enhancer factor 2C 1 0 T(0.33)T(0.33)T(0.33)PS(0.009)RYPQHTR 58.674 0.020962 1339900 168.85 162.06 315.65 231.33 271.28 162.33 342.7 221.27 161.99 277.96 TRUE FALSE FALSE 186.6104177 167.3108503 358.6651382 235.8077267 250.494585 148.4985708 304.1384941 215.6102338 160.8626984 289.9442159 0.643608003 0.577044966 1.237014289 0.813286535 0.863940618 0.512162556 1.048955204 0.743626608 0.554805682 1 8.179631548 -9.634586958 1.485478749 0.999046521 0.787182831 0 0.246729015 0.684940933 2.735540491 0.140910496 0.03269888 2.32E-10 9.634586958 -0.21186369 T(ph)VATPLNQVANPNSAIFGGAR ddPTM_HeLa_SAHA_4h_R1 1 TVATPLNQVANPNSAIFGGAR 21 0 Q15056-2;Q15056 Q15056-2 EIF4H Eukaryotic translation initiation factor 4H 1 0 T(0.997)VAT(0.003)PLNQVANPNSAIFGGAR 178.54 4.01E-10 3469900 811.93 1027.6 662.8 706.16 1192.9 1077.2 1005.2 751.34 1339.6 1135.7 TRUE FALSE FALSE 897.3325227 1060.894914 753.1229323 719.8287479 1101.50026 985.4164998 892.0922505 732.1218107 1330.277615 1184.665585 0.757456394 0.895522692 0.635726185 0.607621895 0.92979848 0.831809848 0.753032976 0.617998716 1.122914037 1 10.21026415 -9.335081634 0.502109074 1.060277779 0.747240335 0.536613032 0.111872466 1.271141217 0.41822363 0.198974017 0.02824103 4.62E-10 9.335081634 -0.313037444 T(ph)VHPNSPGIPYR ddPTM_HeLa_SAHA_4h_R1 1 TVHPNSPGIPYR 12 0 J3KPH8;Q8WUI4-8;Q8WUI4-5;Q8WUI4-6;Q8WUI4-7;Q8WUI4;Q8WUI4-4;Q8WUI4-3;F8VWY3;C9J102;C9JNI4 J3KPH8 HDAC7 Histone deacetylase;Histone deacetylase 7 1 0 T(0.517)VHPNS(0.483)PGIPYR 95.483 0.010438 11189000 2852.1 3173.5 2643.8 2198.2 2929.2 769.16 3117.5 2333.8 2852.3 3035.3 TRUE FALSE FALSE 3152.096964 3276.323482 3004.083296 2240.74934 2704.765329 703.6232408 2766.710695 2274.104775 2832.450612 3166.166637 0.995556244 1.034791866 0.948807703 0.707716806 0.854271312 0.222231904 0.873836096 0.718251765 0.894599349 1 11.62852147 -6.159724584 1.721754383 1.001984145 0.645491605 0.437195828 0.170350738 0.219126505 1.271703273 0.024950201 0.046959835 6.92E-07 6.159724584 -0.35649254 T(ph)VIIEQSWGSPK ddPTM_HeLa_SAHA_4h_R1 1 TVIIEQSWGSPK 12 0 P10809;E7EXB4;E7ESH4;P10809-2;C9JL25;C9JL19;C9JCQ4 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 1 0 T(0.733)VIIEQS(0.06)WGS(0.207)PK 209.67 6.73E-11 41081000 2406.8 3533.9 3096.2 2359.2 3620.5 3147.3 3753 3036.9 3855.5 3468.8 TRUE FALSE FALSE 2659.958267 3648.400679 3518.134012 2404.865727 3343.098072 2879.132334 3330.702563 2959.220495 3828.669262 3618.356944 0.735128764 1.008303143 0.972301535 0.664629213 0.923927109 0.795701579 0.920501381 0.817835427 1.058123707 1 11.82111902 T(ph)VIRLPSGSGAAS(ph)PTGSAVDIR ddPTM_HeLa_SAHA_4h_R1 1 TVIRLPSGSGAASPTGSAVDIR 22 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 2 0 T(0.898)VIRLPS(0.056)GS(0.044)GAAS(0.413)PT(0.263)GS(0.326)AVDIR 95.344 0.0015284 7195500 385.48 386.35 831.72 213.22 507.85 539.96 611.6 387.41 253.57 587.83 TRUE FALSE FALSE 426.026555 398.8679935 945.0624702 217.3471814 468.9386427 493.9523703 542.7811584 377.5006132 251.8053857 613.1742281 0.694788749 0.650496996 1.541262543 0.354462356 0.764772264 0.805566098 0.88519891 0.615649836 0.410658789 1 9.260153251 T(ph)VLPFT(ph)DK ddPTM_HeLa_SAHA_4h_R1 1 TVLPFTDK 8 0 Q9BX63 Q9BX63 BRIP1 Fanconi anemia group J protein 2 0 T(1)VLPFT(1)DK 118.03 0.0015694 0 1153.9 1649.8 1207.3 1407.7 1649.3 2441.8 1484.7 2461.1 2289.9 1722.1 TRUE FALSE FALSE 1275.272496 1703.254602 1371.824557 1434.948069 1522.93099 2233.744903 1317.637648 2398.148626 2273.964399 1796.348159 0.709925017 0.948176217 0.763674096 0.798814006 0.847792775 1.243492188 0.73350906 1.335013268 1.265881777 1 10.81085128 -5.302284673 23.39726846 0.853166984 1.066955302 0.119133172 0.211337957 240.8457657 137962.4495 0.024018447 0.053707895 4.99E-06 5.302284673 0.213788318 T(ph)VNSNCEINNR ddPTM_HeLa_SAHA_4h_R1 1 TVNSNCEINNR 11 0 A0A5H1ZRS1;A0A4W8VX11;Q15154-5;Q15154-4;Q15154-2;Q15154;E7EV93 A0A5H1ZRS1 PCM1 Pericentriolar material 1 protein 1 0 T(0.998)VNS(0.002)NCEINNR 140.01 0.0016011 2293000 635.95 538.05 625.4 431.43 575.6 762.09 597.45 645.54 483.28 620.63 TRUE FALSE FALSE 702.8421388 555.483173 710.6262551 439.7809515 531.4976524 697.1556446 530.2233536 629.0280215 479.9168151 647.3883966 1.085657609 0.858036962 1.097681483 0.679315468 0.820987301 1.076873865 0.819018933 0.97163932 0.741312043 1 9.338487698 -7.261247241 24.99992322 1.040449427 0.902482193 0 0.152265342 18.96159883 2467234.1 0.01945908 0.023044956 5.48E-08 7.261247241 -0.137967234 T(ph)VSDNSLSNSR ddPTM_HeLa_SAHA_4h_R1 3 TVSDNSLSNSR 11 0 B7ZL14;H0Y7W6;Q96RU3-4;Q96RU3-3;Q96RU3-5;Q96RU3-2;Q96RU3 B7ZL14 FNBP1 Formin-binding protein 1 1 0 T(0.623)VS(0.257)DNS(0.119)LS(0.001)NSR;T(0.618)VS(0.201)DNS(0.179)LS(0.001)NSR;T(0.847)VS(0.132)DNS(0.021)LSNSR ;; 169.09 0.00018998 166774000 4512.9 5410.44 4390.44 5448 6310.6 6558.8 6116.5 5813.9 6718.7 5404.47 TRUE FALSE FALSE 4987.587528 5585.741806 4988.746299 5553.453918 5827.083191 5999.953341 5428.255322 5665.188856 6671.94402 5637.483151 0.884718835 0.990821907 0.884924383 0.985094548 1.033632037 1.064296457 0.962886305 1.004914552 1.183496933 1 12.4608355 -6.006791751 20.26568091 0.943761269 1.015193727 0 0.086828136 25.31671347 75548.47984 0.007738206 0.013602121 9.84E-07 6.006791751 0.071432458 T(ph)VSEPNLK ddPTM_HeLa_SAHA_4h_R1 2 TVSEPNLK 8 0 J3KPH8;Q8WUI4-8;Q8WUI4-5;Q8WUI4-6;Q8WUI4-7;Q8WUI4;Q8WUI4-4;Q8WUI4-3;F8VWY3;C9JEB6;H0YI41;C9JAH2;C9JF80 J3KPH8 HDAC7 Histone deacetylase;Histone deacetylase 7 1 0 T(0.997)VS(0.003)EPNLK;T(0.996)VS(0.004)EPNLK ; 118.71 0.0066473 21227500 4066 4034.7 3299.5 3716.7 4443.1 5304.1 3997.9 3662.9 3736.4 3761.3 TRUE FALSE FALSE 4493.680535 4165.426927 3749.138677 3788.642103 4102.670638 4852.16084 3548.04577 3569.208322 3710.398088 3923.46805 1.145333791 1.061669644 0.955567531 0.965636028 1.045674537 1.236702014 0.904313664 0.909707503 0.945693463 1 11.93791374 -6.965452424 22.41122028 1.070465211 1.009265184 0 0.102423282 132.0015483 85628.80373 0.016934281 0.022255878 1.08E-07 6.965452424 -0.061200027 T(ph)VSFEALPIMR ddPTM_HeLa_SAHA_4h_R1 1 TVSFEALPIMR 11 0 O15084-2;O15084;O15084-4;O15084-1 O15084-2 ANKRD28 Serine/threonine-protein phosphatase 6 regulatory ankyrin repeat subunit A 1 0 T(0.644)VS(0.356)FEALPIMR 129.74 0.00010652 0 358.98 376.15 295.18 204.39 444.7 294 483.38 368.76 375.54 348.23 TRUE FALSE FALSE 396.7391635 388.3375068 335.4055932 208.346264 410.6271821 268.949546 428.9888102 359.3276532 372.9265866 363.2438995 1.092211498 1.069081979 0.923361944 0.573571268 1.130444813 0.740410359 1.180993847 0.989218687 1.026656159 1 8.504794758 -6.753649059 23.01281998 1.046676323 0.919973711 0.118276876 0.165719206 106.4318082 314398.2743 0.02511219 0.035088771 1.76E-07 6.753649059 -0.126702612 T(ph)VSPGS(ph)VSPIHGQGQVVENLK ddPTM_HeLa_SAHA_4h_R1 1 TVSPGSVSPIHGQGQVVENLK 21 0 A0A087WVF7;Q9NZM3-4;Q9NZM3-3;Q9NZM3-2;Q9NZM3 A0A087WVF7 ITSN2 Intersectin-2 2 0 T(0.506)VS(0.445)PGS(0.815)VS(0.234)PIHGQGQVVENLK 64.83 0.0057963 5561000 894.94 864.31 955.78 799.7 931.17 849.39 923.8 804.13 951 1253.6 TRUE FALSE FALSE 989.0738953 892.3142111 1086.028721 815.1793499 859.8239558 777.0171935 819.8515927 783.561519 944.3819136 1307.648831 0.756375773 0.682380613 0.830520164 0.62339317 0.657534298 0.594209374 0.62696618 0.599214025 0.722198415 1 10.35275944 -11.46934911 0.122195492 1.715924453 0.454146079 0.301712439 0.100454179 10.32866128 0.154544852 2.174170933 0.252008123 3.39E-12 11.46934911 -1.261778374 T(ph)VSPPTVCTIPTVVGR ddPTM_HeLa_SAHA_4h_R1 1 TVSPPTVCTIPTVVGR 16 0 A0A0C4DH56;Q9BWT3-2;Q9BWT3 A0A0C4DH56 PAPOLG Poly(A) polymerase gamma 1 0 T(0.963)VS(0.037)PPTVCTIPTVVGR 110.6 0.0032038 5601000 1204.1 1074.1 653.28 1128.5 1231.7 1376.7 1287.4 987.21 1644.4 1079.1 TRUE FALSE FALSE 1330.752763 1108.901545 742.3055963 1150.343749 1137.327412 1259.397415 1142.538364 961.9585977 1632.956487 1125.625282 1.182234251 0.985142714 0.659460664 1.021959766 1.010396115 1.118842509 1.015025499 0.854599317 1.450710563 1 10.13651092 -7.01985305 24.42895617 1.085930517 0.952153313 0.24966969 0.168793388 745.7481901 917634.3399 0.022449791 0.027709127 9.55E-08 7.01985305 -0.133777204 T(ph)VY(ph)QT(ph)LS(ph)AK ddPTM_HeLa_SAHA_4h_R1 1 TVYQTLSAK 9 0 H7C428;A0A0A0MSB4;Q6ZN50;Q969R2-5;Q969R2-4;Q969R2-6;Q969R2-3;Q969R2-2;Q969R2 H7C428 OSBP2 Oxysterol-binding protein;Oxysterol-binding protein 2 4 0 T(1)VY(1)QT(1)LS(1)AK 52.482 0.018081 2981000 835.67 1024 1132.1 1197.4 1221 1491.7 1175.2 1274.3 1331.9 1040.3 TRUE FALSE FALSE 923.5696048 1057.178272 1286.376692 1220.577408 1127.447244 1364.598768 1042.963403 1241.705251 1322.631199 1085.152424 0.851096661 0.974220993 1.185434105 1.124798122 1.038975925 1.257518057 0.961121571 1.144268053 1.218843703 1 10.08368199 -6.904254029 5.786612937 0.928872298 1.113845606 0.016417969 0.122935342 0.128831147 6.479237347 0.014087844 0.018593752 1.25E-07 6.904254029 0.184973309 T(ph)YGGS(ph)YGGRGRGRR ddPTM_HeLa_SAHA_4h_R1 1 TYGGSYGGRGRGRR 14 3 P51116 P51116 FXR2 Fragile X mental retardation syndrome-related protein 2 2 0 T(0.62)Y(0.38)GGS(0.993)Y(0.007)GGRGRGRR 76.868 0.019593 5046000 864.62 770.84 909.93 792.51 1108.2 1133.6 939.41 1117.8 945.79 766.93 TRUE FALSE FALSE 955.5646986 795.8157218 1033.930522 807.850177 1023.289955 1037.010903 833.7051144 1089.208295 939.2081704 799.9961056 1.194461688 0.994774495 1.292419444 1.009817637 1.279118671 1.296269938 1.042136466 1.361516996 1.174015928 1 9.643849167 -13.52287875 0.15175239 0.320824941 1.248928106 0.074641883 0.129573115 63.83937717 0.658002881 13.00544485 0.250121563 3.00E-14 13.52287875 0.928103165 T(ph)YISGTNCDT(ph)GHSVNS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 TYISGTNCDTGHSVNSPK 18 0 Q9NYB5-4;Q9NYB5-3 Q9NYB5-4 3 0 T(0.378)Y(0.09)IS(0.364)GT(0.365)NCDT(0.714)GHS(0.213)VNS(0.876)PK 52.823 0.008169 0 1127.5 1420.3 1920.8 3630.5 1151.6 2042.1 1375.6 2851.3 2181.5 1595.6 TRUE FALSE FALSE 1246.095623 1466.318652 2182.556621 3700.773577 1063.364657 1868.101591 1220.813868 2778.367875 2166.318764 1664.394125 0.748678216 0.880992447 1.311321993 2.223495939 0.638889937 1.122391364 0.733488451 1.669296853 1.301565976 1 10.70078139 -6.766130588 24.09640284 0.877979583 1.264314532 0.078861898 0.446135201 103.8028092 533184.7227 0.067353938 0.090205494 1.71E-07 6.766130588 0.386334949 T(ph)YSDEANQMR ddPTM_HeLa_SAHA_4h_R1 4 TYSDEANQMR 10 0 A0A1B0GTL5;Q9BXF6 A0A1B0GTL5 RAB11FIP5 Rab11 family-interacting protein 5 1 0 T(0.734)YS(0.266)DEANQMR;T(0.513)YS(0.487)DEANQMR;T(0.968)YS(0.032)DEANQMR;T(0.983)YS(0.017)DEANQMR ;;; 167.84 0.00021662 108839000 6189.7 6158.4 5716.6 5856.9 6372.5 7228.7 6627.6 6868.1 6159.4 5619.1 TRUE FALSE FALSE 6840.761045 6357.936201 6495.628477 5970.268769 5884.240427 6612.774092 5881.845005 6692.423947 6116.536234 5861.3669 1.167093131 1.084719027 1.108210523 1.018579603 1.003902422 1.12819658 1.003493742 1.141785536 1.0435341 1 12.51702143 -9.703972741 1.607616031 1.000172266 1.092215636 0.118926177 0.05684891 0.449559108 2.102119306 0.043098374 0.009577716 1.98E-10 9.703972741 0.09204337 T(ph)YSFEQPWPNAR ddPTM_HeLa_SAHA_4h_R1 2 TYSFEQPWPNAR 12 0 Q5VWV2;Q8TEW0-4;Q8TEW0-11;Q8TEW0-2;Q8TEW0;Q8TEW0-3;Q8TEW0-7;Q8TEW0-6;Q8TEW0-5 Q5VWV2 PARD3 Partitioning defective 3 homolog 1 0 T(0.912)YS(0.088)FEQPWPNAR;T(0.995)YS(0.005)FEQPWPNAR ; 164.48 0.00021915 13167700 785.52 791.75 626.92 790.41 775.44 1070.79 1056.93 982.62 1138.38 964.17 TRUE FALSE FALSE 868.1445977 817.4032195 712.3533927 805.7095285 716.0259547 979.5526679 938.0014547 957.4860032 1130.457921 1005.740087 0.863189813 0.812738032 0.708287759 0.801111081 0.711939361 0.973962041 0.932647974 0.952021318 1.124006028 1 9.974041803 -8.729893679 0.880136252 0.990849304 0.841589647 0.402635072 0.097411589 0.536051886 0.825827788 0.043868321 0.019321589 1.86E-09 8.729893679 -0.149259657 T(ph)YTHEVVTLWYR ddPTM_HeLa_SAHA_4h_R1 1 TYTHEVVTLWYR 12 0 G3V5T9;P24941;Q00526;K7EJ83 G3V5T9 CDK2;CDK3 Cyclin-dependent kinase 2;Cyclin-dependent kinase 3 1 0 T(0.99)YT(0.01)HEVVTLWYR 110.98 0.0051088 6698600 1174.1 974.49 1232.9 1432.6 1414.3 1094.1 1180.9 1020.5 995.37 1025.5 TRUE FALSE FALSE 1297.597225 1006.064115 1400.913191 1460.330045 1305.93664 1000.876525 1048.022024 994.3970877 988.4431391 1069.714324 1.213031551 0.940497938 1.309614315 1.365158914 1.220827478 0.935648427 0.979721409 0.929591262 0.924025338 1 10.06300985 -5.246361744 23.75456324 1.133810288 0.951460429 0.276672429 0.141098833 468.5156692 738134.8299 0.020450775 0.051873702 5.67E-06 5.246361744 -0.18234986 TGIVAK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 TGIVAKK 7 1 Q9BQ61 Q9BQ61 C19orf43 Uncharacterized protein C19orf43 0 1 TGIVAK(1)K 89.298 0.012201 6861400 3665.9 2977.1 3269.4 4901.7 5747.9 6059.2 7532.6 7308.2 3986.4 3044.9 FALSE TRUE FALSE 4051.496182 3073.559993 3714.936806 4996.579491 5307.497144 5542.922072 6685.012023 7121.266826 3958.658318 3176.18054 1.275587496 0.967690581 1.169623942 1.573140893 1.671031315 1.745153338 2.104733008 2.242085025 1.246358092 1 11.63307721 -5.047144376 0.541367988 1.091334027 2.561462529 0.912078014 0.124688182 0.421386416 0.137174975 0.028948912 0.333868454 8.97E-06 5.047144376 1.470128502 up TAAAASEK(ac)NRGPR ddPTM_HeLa_SAHA_4h_R1 2 TAAAASEKNRGPR 13 2 K7EN09;Q9UNZ5 K7EN09 C19orf53 Leydig cell tumor 10 kDa protein homolog 0 1 ; TAAAASEK(1)NRGPR;TAAAASEK(1)NRGPR 80.17 0.019524 1144830 349.17 0 274.28 367.7 432.83 470.19 773.83 814.95 0 419.49 FALSE TRUE FALSE 385.8973026 0 311.65745 374.8173652 399.6666589 430.1271668 686.7566118 794.104759 0 437.5762668 0.881897241 0 0.712235726 0.856576084 0.91336457 0.982976453 1.569455804 1.814780232 0 1 8.773390681 -4.70494513 2.095039663 0.843154893 1.831155454 0.50152397 0.383621379 0.202888573 1.613440084 0.043552295 0.269276107 1.97E-05 4.70494513 0.988000561 TAADVVS(ph)PGANSVDSR ddPTM_HeLa_SAHA_4h_R1 1 TAADVVSPGANSVDSR 16 0 Q01804-5;Q01804-3;Q01804 Q01804-5 OTUD4 OTU domain-containing protein 4 1 0 T(0.005)AADVVS(0.974)PGANSVDS(0.021)R 113.14 0.0014577 31517000 1265.9 1235.4 1024.3 1107.4 1385.5 1606.1 1251.9 1039.7 1124.9 1042.3 TRUE FALSE FALSE 1399.05317 1275.427771 1163.88627 1128.835328 1279.343289 1469.251244 1111.032917 1013.105979 1117.071729 1087.238654 1.286794914 1.17308906 1.070497508 1.03825901 1.176690403 1.351360384 1.021885042 0.931815638 1.027439307 1 10.08645294 -6.767216631 24.914886 1.142039387 1.107259946 0 0.127990005 740.5583824 3193720.079 0.024372648 0.032519113 1.71E-07 6.767216631 -0.03477944 TAAKGEAAAERPGEAAVAS(ph)SPSK ddPTM_HeLa_SAHA_4h_R1 1 TAAKGEAAAERPGEAAVASSPSK 23 2 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 TAAKGEAAAERPGEAAVAS(0.752)S(0.226)PS(0.022)K 63.706 0.0016342 28818000 4108.6 2944.1 4114.4 3372.6 4165.4 4146.2 4565.8 3501.4 3194.5 3548.1 TRUE FALSE FALSE 4540.761399 3039.490772 4675.089005 3437.88155 3846.247952 3792.920434 4052.044167 3411.839258 3172.269214 3701.075955 1.226876037 0.821245175 1.263170241 0.928887057 1.039224268 1.024815616 1.094828698 0.921850645 0.857120808 1 11.85372903 TAAKGEAAAERPGEAAVASS(ph)PSKANGQENGHVK ddPTM_HeLa_SAHA_4h_R1 1 TAAKGEAAAERPGEAAVASSPSKANGQENGHVK 33 3 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 TAAKGEAAAERPGEAAVAS(0.129)S(0.435)PS(0.435)KANGQENGHVK 56.573 0.0014146 20827000 2919.7 1764.7 2680.7 2419.1 2696.7 2239.7 3165.2 3038.2 1201.7 2452.2 TRUE FALSE FALSE 3226.807442 1821.877438 3046.011836 2465.925179 2490.079429 2048.86496 2809.043366 2960.487243 1193.337272 2557.926343 1.261493495 0.712247811 1.190812958 0.964032911 0.973475814 0.800986692 1.098172109 1.157377831 0.466525268 1 11.32075901 TAANKS(ph)PCETISSPSSTLESK ddPTM_HeLa_SAHA_4h_R1 2 TAANKSPCETISSPSSTLESK 21 1 Q9C0D5 Q9C0D5 TANC1 Protein TANC1 1 0 TAANKS(0.46)PCET(0.311)IS(0.111)S(0.111)PS(0.004)S(0.002)TLESK;T(0.007)AANKS(0.915)PCET(0.054)IS(0.019)S(0.005)PSSTLESK ; 99.219 0.00018496 22557000 3510.7 2849.6 2788.77 3516.8 3250 3711.5 3918.3 4151.1 3770.3 3491.4 TRUE FALSE FALSE 3879.971534 2941.92891 3168.809052 3584.872749 3000.985702 3395.25932 3477.402572 4044.920873 3744.062175 3641.93134 1.065360978 0.807793622 0.870090278 0.984332876 0.824009412 0.932268899 0.954823759 1.110652699 1.028043042 1 11.83048801 -7.296105682 24.98689525 1.03086491 0.923747646 0.252915411 0.082501619 598.1095037 431105.957 0.014176877 0.016212274 5.06E-08 7.296105682 -0.107117264 TAAPS(ph)PSLLYK ddPTM_HeLa_SAHA_4h_R1 2 TAAPSPSLLYK 11 0 Q9BTC0;Q9BTC0-1;Q9BTC0-2;Q9BTC0-3 Q9BTC0 DIDO1 Death-inducer obliterator 1 1 0 T(0.086)AAPS(0.63)PS(0.283)LLYK;T(0.026)AAPS(0.598)PS(0.376)LLYK ; 128.36 0.0014852 52515000 4454.6 3919.4 3292.7 4423.9 4455.4 4385.3 4593.6 4467.2 4854.9 4331.1 TRUE FALSE FALSE 4923.155266 4046.391132 3741.412008 4509.530982 4114.028215 4011.647769 4076.716038 4352.935492 4821.114356 4517.834917 1.089715618 0.895648293 0.8281427 0.998161966 0.910619421 0.887958025 0.902360558 0.963500343 1.067129376 1 12.14141584 -7.252771365 24.89909721 1.042365708 0.911016019 0.642516561 0.047655042 310.0850433 890727.9429 0.008710105 0.010577076 5.59E-08 7.252771365 -0.13134969 NETSFLPAK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 NETSFLPAKK 10 1 F8WAJ0;Q9H8H2-3;Q9H8H2-4;Q9H8H2-2;Q9H8H2 F8WAJ0 DDX31 Probable ATP-dependent RNA helicase DDX31 0 1 NETSFLPAK(1)K 172.56 7.08E-12 1338000 469.71 567.69 679.48 866.49 1414.3 1160.8 1987.4 1662.5 339.15 275.72 FALSE TRUE FALSE 519.1162529 586.0835285 772.0759958 883.2621669 1305.93664 1061.89331 1763.772521 1619.975657 336.7898275 287.6076385 1.804945987 2.037788466 2.68447667 3.071066441 4.540688301 3.69215962 6.132564943 5.632589126 1.17100446 1 8.167958182 -5.046111927 0.358455182 1.055954719 8.098688326 0.923957706 0.470308732 0.594739426 0.079439566 0.155595733 1.669853419 8.99E-06 5.046111927 7.042733607 up TAATLATHELR ddPTM_HeLa_SAHA_4h_R1 1 TAATLATHELR 11 0 Q8N1G4 Q8N1G4 LRRC47 Leucine-rich repeat-containing protein 47 0 0 86.911 0.005236 0 1063.3 861.95 1158.7 1403 1259.5 1413.1 1130.7 1004.1 984.48 1030.6 FALSE FALSE TRUE 1175.142773 889.8777455 1316.601602 1430.157094 1162.997382 1292.69593 1003.47066 978.4165759 977.6289235 1075.03421 1.093121281 0.82776691 1.224706702 1.330336357 1.081823603 1.202469576 0.933431375 0.910125991 0.909393315 1 10.07016685 -4.613285268 10.06213938 1.073931345 0.91598113 0.172562546 0.140927078 0.403269704 40.71741502 0.018784335 0.070459655 2.44E-05 4.613285268 -0.157950214 TADGIVSHLK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 TADGIVSHLKK 11 1 P30101 P30101 PDIA3 Protein disulfide-isomerase A3 0 1 ; TADGIVSHLK(1)K;TADGIVSHLK(1)K 111.27 0.0019246 5015900 4219.7 9502 6045.4 6276.9 10036.8 6474.8 10620 6951.5 5344.5 3406.5 FALSE TRUE FALSE 4663.547407 9809.871034 6869.235629 6398.398476 9267.782552 5923.110614 9425.00965 6773.690696 5307.307189 3553.370886 1.312429115 2.760722522 1.933160328 1.800655963 2.6081664 1.666899067 2.652413709 1.906271795 1.493597871 1 11.79497256 -7.413599288 5.886543283 1.135706234 2.177228662 0.549421573 0.379266638 0.099025456 4.551282721 0.058186451 0.066097366 3.86E-08 7.413599288 1.041522429 TADGRVS(ph)PAGDDKPK ddPTM_HeLa_SAHA_4h_R1 1 TADGRVSPAGDDKPK 15 2 H7C1Q0 H7C1Q0 BBX 1 0 T(0.001)ADGRVS(0.999)PAGDDKPK 78.917 0.01146 3858300 1365.7 1418.4 1627.7 2073.8 1518.8 1381 1949.6 1730.5 1857.5 1431.6 TRUE FALSE FALSE 1509.350592 1464.357091 1849.514479 2113.941398 1402.429872 1263.331031 1730.225877 1686.236316 1844.573506 1493.323282 1.010732646 0.980602866 1.238522496 1.415595285 0.939133468 0.845986295 1.158641198 1.129183705 1.235213787 1 10.54431081 -6.811571565 24.99922618 1.003374843 1.115479974 0 0.162885778 184.4897356 91998.0662 0.024668031 0.032420177 1.54E-07 6.811571565 0.112105131 TADGRVS(ph)PAGGTLDDKPK ddPTM_HeLa_SAHA_4h_R1 2 TADGRVSPAGGTLDDKPK 18 2 C9JA69;Q8WY36-2;Q8WY36 C9JA69 BBX HMG box transcription factor BBX 1 0 T(0.009)ADGRVS(0.989)PAGGT(0.002)LDDKPK;T(0.116)ADGRVS(0.884)PAGGTLDDKPK ; 116.94 0.00047594 79312000 3833.7 4186.3 3608.7 4374.7 3850.2 3877.1 3917.9 3975.3 3964.2 3454.4 TRUE FALSE FALSE 4236.946156 4321.938867 4100.474843 4459.378644 3555.198508 3546.749268 3477.047581 3873.617582 3936.612809 3603.336089 1.175839847 1.199427075 1.137966246 1.237569445 0.986640829 0.984295991 0.964952337 1.075008683 1.092491156 1 11.81511751 -5.655271184 19.07304976 1.109070486 0.998673902 0.444437824 0.070330887 2.326385904 408.1570246 0.013293781 0.026587597 2.21E-06 5.655271184 -0.110396584 TADSSS(ph)SEDEEEYVVEK ddPTM_HeLa_SAHA_4h_R1 2 TADSSSSEDEEEYVVEK 17 0 P45973;F8VNY3 P45973 CBX5 Chromobox protein homolog 5 1 0 TADS(0.301)S(0.042)S(0.329)S(0.329)EDEEEYVVEK;TADSSS(0.5)S(0.5)EDEEEYVVEK ; 325.77 1.02E-119 75107300 5156.6 4614.3 4716 5020.6 5628.3 5840.7 6471.1 5941.4 5493.3 5415.3 TRUE FALSE FALSE 5698.994847 4763.806348 5358.67192 5117.780973 5197.06087 5343.039501 5742.954797 5789.427591 5455.071678 5648.780085 1.008889488 0.843333654 0.948642333 0.90599756 0.92003243 0.945874936 1.01667169 1.02489874 0.965707922 1 12.46372362 TADSSSS(ph)EDEEEYVVEK ddPTM_HeLa_SAHA_4h_R1 4 TADSSSSEDEEEYVVEK 17 0 P45973;F8VNY3 P45973 CBX5 Chromobox protein homolog 5 1 0 TADSSS(0.005)S(0.995)EDEEEYVVEK;TADSSS(0.016)S(0.984)EDEEEYVVEK;TADSSS(0.004)S(0.995)EDEEEYVVEK;TADS(0.001)S(0.003)S(0.238)S(0.757)EDEEEYVVEK ;;; 284.44 1.18E-72 86773000 4754.01 5344.57 4352.9 5125.88 5154.37 5587.99 6125.77 5620.51 4977.67 4970.64 TRUE FALSE FALSE 5254.058584 5517.737575 4946.090543 5225.09882 4759.443284 5111.861815 5436.482237 5476.745493 4943.029989 5184.948616 1.013328959 1.064183656 0.953932413 1.007743607 0.917934513 0.985904045 1.048512269 1.05627768 0.953342136 1 12.34011398 -4.724692367 8.758858634 0.999519315 1.052749663 0.264752265 0.039397052 0.302826889 64.83781437 0.005054125 0.018757107 1.88E-05 4.724692367 0.053230348 TADSVS(ph)PLEPPTKDK ddPTM_HeLa_SAHA_4h_R1 1 TADSVSPLEPPTKDK 15 1 Q9UMZ2-6;Q9UMZ2-9;Q9UMZ2-4;Q9UMZ2-8;Q9UMZ2-3;Q9UMZ2-7;Q9UMZ2-5;Q9UMZ2 Q9UMZ2-6 SYNRG Synergin gamma 1 0 T(0.001)ADS(0.055)VS(0.943)PLEPPTKDK 80.459 0.0088702 7970600 976.47 902.12 811.46 917.89 1171.9 1051 1062.9 1370.5 760.95 778.32 TRUE FALSE FALSE 1079.179595 931.3492799 922.0415429 935.6570882 1082.109275 961.4488872 943.2996946 1335.444594 755.654487 811.8771842 1.329239959 1.14715538 1.135690916 1.152461365 1.332848485 1.18422947 1.161874866 1.644884991 0.930749751 1 9.665117692 -12.23781658 0.320543348 5.49E-13 1.274515947 0.403702525 0.145621966 20.21393123 0.575357531 12.93114356 0.054660173 5.78E-13 12.23781658 1.274515947 TAEELMNFSK ddPTM_HeLa_SAHA_4h_R1 1 TAEELMNFSK 10 0 P50990-2;P50990;P50990-3;H7C4C8 P50990-2 CCT8 T-complex protein 1 subunit theta 0 0 121.9 0.0050485 796760 0 0 0 0 75.737 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 69.93404742 0 0 0 0 0 0 TAEISSTALRS(ph)SPIMR ddPTM_HeLa_SAHA_4h_R1 1 TAEISSTALRSSPIMR 16 1 A0A087WWN8;A0A087WZV0;O43314-2;O43314;K7ENU7;H0Y9S9 A0A087WWN8 PPIP5K2 Inositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 1 0 TAEISSTALRS(0.5)S(0.5)PIMR 74.853 0.010318 21575000 1156 929.72 954.18 1371 1222.2 1297 1397.3 1471.5 1104.9 1288.7 TRUE FALSE FALSE 1277.593384 959.843538 1084.210681 1397.537687 1128.5553 1186.488303 1240.072127 1433.861161 1097.210911 1344.262164 0.950404927 0.714030019 0.806547049 1.039631796 0.839535122 0.882631629 0.92249277 1.066652919 0.816217953 1 10.39259881 -7.502608255 15.94279173 0.978126114 0.89178086 0 0.11034019 4.638378827 3649.373401 0.01726059 0.018628807 3.14E-08 7.502608255 -0.086345255 TAEISSTALRSS(ph)PIMR ddPTM_HeLa_SAHA_4h_R1 1 TAEISSTALRSSPIMR 16 1 A0A087WWN8;A0A087WZV0;O43314-2;O43314;K7ENU7;H0Y9S9 A0A087WWN8 PPIP5K2 Inositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 1 0 TAEISS(0.001)TALRS(0.126)S(0.873)PIMR 84.759 0.0059187 22212000 814.13 670.32 639.02 755.56 691.78 887.11 854.09 929.32 752.04 492.09 TRUE FALSE FALSE 899.7639288 692.0388078 726.1023177 770.1849564 638.7759659 811.5232373 757.9855454 905.54934 746.8064924 513.3064081 1.752878816 1.348198263 1.414559231 1.500439005 1.244434037 1.580972348 1.476672672 1.764149689 1.454894154 1 9.003676461 -9.500576586 1.222759155 0.997405464 1.522337767 0.095092626 0.205591816 0.266085104 0.706331345 0.117849769 0.027992072 3.16E-10 9.500576586 0.524932303 TAEK(ac)TSLSFK ddPTM_HeLa_SAHA_4h_R1 2 TAEKTSLSFK 10 1 H0Y612;Q9UPN9-2;Q9UPN9 H0Y612 TRIM33 E3 ubiquitin-protein ligase TRIM33 0 1 ; TAEK(1)TSLSFK;TAEK(1)TSLSFK 204.5 2.89E-25 57349000 8293.3 8351.4 8359.9 6218.6 7310.3 5401.3 7271.2 4680.4 5111.6 6473.4 FALSE TRUE FALSE 9165.627345 8621.99084 9499.143636 6338.969995 6750.186393 4941.078853 6453.025439 4560.682145 5076.027959 6752.499954 1.357367998 1.276859074 1.406759526 0.938758984 0.999657377 0.731740672 0.955649831 0.675406468 0.75172573 1 12.72120601 -5.841850038 2.01674138 1.197214904 0.818584117 0.349829304 0.19973855 0.209507373 1.732590255 0.02684078 0.056856036 1.44E-06 5.841850038 -0.378630788 VEEAPVK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 VEEAPVKK 8 1 H0Y9Y2;Q8NFC6 H0Y9Y2;Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 0 1 ; VEEAPVK(1)K;VEEAPVK(1)K 155.01 1.72E-07 20342000 7120.8 5997.6 6416.2 10768.2 10582.7 14642.4 13984.7 15729.7 7204.7 5515 FALSE TRUE FALSE 7869.798415 6191.926175 7290.566322 10976.63408 9771.855812 13394.78514 12411.10475 15327.35705 7154.561906 5752.77864 1.36799952 1.076336595 1.26731216 1.908057787 1.698632335 2.32840267 2.157410449 2.664339793 1.243670642 1 12.49004324 -4.916559465 0.414812068 1.092767659 3.20773709 0.885222157 0.184124956 0.750810208 0.125757485 0.053022248 0.715868517 1.21E-05 4.916559465 2.11496943 up TAENATSGETLEENEAGD ddPTM_HeLa_SAHA_4h_R1 2 TAENATSGETLEENEAGD 18 0 Q9UQ80;Q9UQ80-2 Q9UQ80 PA2G4 Proliferation-associated protein 2G4 0 0 ; ; 195.72 1.21E-12 21677000 5102.3 4612.2 4630.7 5044.8 4579.4 5759 5482 5455.6 4447.3 5072.1 FALSE FALSE TRUE 5638.983324 4761.638306 5261.74768 5142.449399 4228.527361 5268.300801 4865.150932 5316.053652 4416.350877 5290.783053 1.065812616 0.899987442 0.994512084 0.971963762 0.799225241 0.995750676 0.91955215 1.004776344 0.834725377 1 12.36926555 -7.263428767 24.99943265 1.03107818 0.939934885 0 0.085942746 149.2918121 1876058.593 0.009992977 0.011729519 5.45E-08 7.263428767 -0.091143295 TAENFR ddPTM_HeLa_SAHA_4h_R1 1 TAENFR 6 0 P49792;A6NM32;H0Y548;C9JQD4;P30405;O43447;P30405-2;R4GN99;P62937;F8WE65;C9J5S7;P0DN26;A0A0H2UH34;A0A0B4J2A2;A0A075B767;A0A075B759;Q9Y536;F5H284;P0DN37;Q08752 P49792;P62937;Q08752 RANBP2;PPIH;PPIF;PPIA;PPIAL4C;PPIAL4E;PPIAL4A;PPIAL4D;PPID "E3 SUMO-protein ligase RanBP2;Peptidyl-prolyl cis-trans isomerase;Peptidyl-prolyl cis-trans isomerase F, mitochondrial;Peptidyl-prolyl cis-trans isomerase H;Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed;Peptidyl-prolyl cis-trans isomerase A-like 4A/B/C;Peptidyl-prolyl cis-trans isomerase A-like 4D;Peptidyl-prolyl cis-trans isomerase D" 0 0 114.19 0.0088324 4790700 2768.5 2288.4 2417.4 3628.5 3050.3 3782.5 3925.1 3429.6 2570 3485.3 FALSE FALSE TRUE 3059.703532 2362.545661 2746.830683 3698.734864 2816.586673 3460.20972 3483.437418 3341.875798 2552.115161 3635.56834 0.841602535 0.649842182 0.75554368 1.017374594 0.774730774 0.951765831 0.958154845 0.919216883 0.701985198 1 11.8279652 TAESQT(ph)PTPSATSFFSGK ddPTM_HeLa_SAHA_4h_R1 1 TAESQTPTPSATSFFSGK 18 0 A0A3B3ITG9;A0A3B3ISX1;A0A3B3IRQ9;P55265-5;P55265-3;P55265-2;P55265;P55265-4 A0A3B3ITG9 ADAR Double-stranded RNA-specific adenosine deaminase 1 0 T(0.052)AES(0.102)QT(0.533)PT(0.31)PS(0.003)ATSFFSGK 142.26 5.64E-09 0 212.5 180.94 199.52 270.15 273.73 394.45 139.45 244.15 192.17 232.42 TRUE FALSE FALSE 234.851725 186.8025747 226.7095465 275.3791439 252.7568665 360.8406409 123.758719 237.9049965 190.8326733 242.4407636 0.968697349 0.770508111 0.935113152 1.13586156 1.042551025 1.488366211 0.510469927 0.981291236 0.787131134 1 7.921488482 -4.606795227 0.004901683 1.197819116 0.760798145 0 0.243592737 1032564.895 896.0637522 38712.93439 41206.36371 2.47E-05 4.606795227 -0.437020971 TAESQTPT(ph)PSATSFFSGK ddPTM_HeLa_SAHA_4h_R1 1 TAESQTPTPSATSFFSGK 18 0 A0A3B3ITG9;A0A3B3ISX1;A0A3B3IRQ9;P55265-5;P55265-3;P55265-2;P55265;P55265-4 A0A3B3ITG9 ADAR Double-stranded RNA-specific adenosine deaminase 1 0 T(0.052)AES(0.157)QT(0.115)PT(0.658)PS(0.018)ATSFFSGK 111.73 0.0018819 2257500 373.81 412.7 278.44 460.61 423.74 366.87 437.15 441.85 322.57 424.56 TRUE FALSE FALSE 413.1290509 426.0717508 316.3843531 469.5257726 391.2731327 335.610612 387.9607315 430.5481168 320.3252091 442.8648593 0.932855796 0.962080738 0.714403833 1.060201013 0.883504583 0.75781721 0.876025097 0.972188485 0.723302385 1 8.790722716 -7.936172206 0.569720718 0.995810653 0.87871858 0 0.127209328 0.919460921 0.696130496 0.04266973 0.028886423 1.16E-08 7.936172206 -0.117092073 TAESQTPTPS(ph)ATSFFSGK ddPTM_HeLa_SAHA_4h_R1 1 TAESQTPTPSATSFFSGK 18 0 A0A3B3ITG9;A0A3B3ISX1;A0A3B3IRQ9;P55265-5;P55265-3;P55265-2;P55265;P55265-4 A0A3B3ITG9 ADAR Double-stranded RNA-specific adenosine deaminase 1 0 TAESQT(0.027)PT(0.163)PS(0.6)AT(0.163)S(0.045)FFS(0.002)GK 100.58 0.002011 2528600 796.75 1062.8 789.24 787.72 904.68 1349.6 995.57 734.34 1178.6 903.07 TRUE FALSE FALSE 880.5558206 1097.235417 896.793517 802.9674597 835.3636138 1234.606487 883.5458434 715.5566461 1170.398027 942.0057672 0.93476691 1.164786305 0.952004275 0.852401851 0.886792462 1.310614574 0.937941013 0.759609623 1.242453143 1 9.879592082 TAFYNEDDS(ph)EEEQR ddPTM_HeLa_SAHA_4h_R1 4 TAFYNEDDSEEEQR 14 0 Q8WWQ0 Q8WWQ0 PHIP PH-interacting protein 1 0 TAFYNEDDS(1)EEEQR;TAFYNEDDS(1)EEEQR;TAFYNEDDS(1)EEEQR;TAFYNEDDS(1)EEEQR ;;; 266.28 1.61E-55 79913000 4259 5034.59 3317.71 3426.63 4308.94 5070.48 4037.3 4088.02 4961.3 4179.65 TRUE FALSE FALSE 4706.981161 5197.714019 3769.830241 3492.957379 3978.789948 4638.446578 3583.012378 3983.454368 4926.773909 4359.855166 1.079618699 1.192175846 0.864668687 0.801163627 0.912596817 1.063899236 0.82181913 0.913666674 1.130031554 1 12.09006449 -6.730240884 24.99970739 1.050241658 0.896950919 0.548091902 0.086114536 144.1645573 115520.3751 0.013576772 0.019199348 1.86E-07 6.730240884 -0.153290739 TAGINVR ddPTM_HeLa_SAHA_4h_R1 1 TAGINVR 7 0 P50991-2;P50991 P50991-2 CCT4 T-complex protein 1 subunit delta 0 0 107.66 0.01468 3286000 1514.5 1423.8 1293 1474.6 1473.8 1581.4 1663.6 1714.2 1246 1289 FALSE FALSE TRUE 1673.802059 1469.932054 1469.203306 1503.143015 1360.877762 1446.655823 1476.40735 1670.353246 1237.328985 1344.575098 1.244855762 1.093231651 1.09268966 1.117931618 1.01212477 1.075920434 1.098047518 1.242290779 0.920237915 1 10.39293462 TAHNSEADLEES(ph)FNEHELEPSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 TAHNSEADLEESFNEHELEPSSPK 24 0 Q8IWS0-5;Q8IWS0 Q8IWS0-5 PHF6 PHD finger protein 6 2 0 TAHNSEADLEES(1)FNEHELEPS(0.409)S(0.591)PK 64.806 0.0013186 3013800 1033.7 1013.5 827.51 1042 1396.3 234.34 1178.9 1253.6 1039.1 1036 TRUE FALSE FALSE 1142.429309 1046.338065 940.2787533 1062.169417 1289.315796 214.3729136 1046.247069 1221.534727 1031.868818 1080.66703 1.057151997 0.968233541 0.870091089 0.982883152 1.193074055 0.198370921 0.968149338 1.130352545 0.95484436 1 10.07770636 TAHNSEADLEESFNEHELEPSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 TAHNSEADLEESFNEHELEPSSPK 24 0 Q8IWS0-5;Q8IWS0 Q8IWS0-5 PHF6 PHD finger protein 6 1 0 TAHNSEADLEESFNEHELEPS(0.055)S(0.945)PK;TAHNSEADLEESFNEHELEPS(0.026)S(0.974)PK;TAHNSEADLEES(0.034)FNEHELEPS(0.337)S(0.629)PK ;; 156.8 5.70E-08 48087000 4240.1 5134.9 3624.33 5190.9 6024.3 636.64 5170.5 6604.9 5161.8 5995.9 TRUE FALSE FALSE 4686.093172 5301.274129 4118.234818 5291.377376 5562.719435 582.3946904 4588.701732 6435.956222 5125.878614 6254.412592 0.749245929 0.847605439 0.658452694 0.846023075 0.889407175 0.093117408 0.733674292 1.029026488 0.819561955 1 12.61065868 -9.414343451 0.308537939 1.142048913 0.676017513 0.063472989 0.241113694 5.598736479 0.655995134 0.939276641 0.131566416 3.85E-10 9.414343451 -0.466031399 TAIHEVMEQGR ddPTM_HeLa_SAHA_4h_R1 2 TAIHEVMEQGR 11 0 P25205;P25205-2;J3KQ69;A0A499FHX9 P25205 MCM3 DNA replication licensing factor MCM3 0 0 ; ; 132.32 0.0061685 11307600 5210.4 5244.9 5405.3 5428.4 5869.8 5859 6718.1 5450.2 4506.4 5366.3 FALSE FALSE TRUE 5758.453778 5414.838201 6141.906134 5533.474532 5420.057192 5359.780238 5962.161707 5310.791776 4475.039595 5597.667455 1.028723808 0.967338315 1.097225976 0.988532201 0.968270666 0.957502439 1.065115382 0.948750854 0.799447204 1 12.45061007 -6.055627654 24.99928606 1.016604729 0.987395583 0 0.080808471 510.8073271 229558.1861 0.006018439 0.009980484 8.80E-07 6.055627654 -0.029209146 TALIHDGLAR ddPTM_HeLa_SAHA_4h_R1 1 TALIHDGLAR 10 0 P25398 P25398 RPS12 40S ribosomal protein S12 0 0 83.869 0.012953 1571400 1458.2 1344.1 1330 1365.3 1327 1392 1420.2 1141.3 1365.8 1168.8 FALSE FALSE TRUE 1611.580166 1387.649722 1511.245474 1391.727356 1225.325547 1273.393769 1260.395358 1112.107199 1356.295287 1219.192688 1.321842054 1.138170968 1.239546044 1.141515504 1.005030262 1.044456534 1.033795044 0.912166887 1.112453593 1 10.25171044 -5.788147432 4.875032103 1.161653962 1.003628631 0.461827848 0.084771854 0.201686124 11.79423485 0.018427171 0.035109144 1.63E-06 5.788147432 -0.158025332 TALINSTGEEVAMR ddPTM_HeLa_SAHA_4h_R1 5 TALINSTGEEVAMR 14 0 P02545;P02545-6;P02545-5;P02545-4;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ;;;; ;;;; 190.85 2.05E-16 27264100 2894.35 2172.43 2525.74 2484.74 2870.45 3181.02 2624.49 3176.89 2951.88 2738.18 FALSE FALSE TRUE 3198.791013 2242.818157 2869.934694 2532.835736 2650.516741 2909.9792 2329.175478 3095.629754 2931.337627 2856.23634 1.119932188 0.785235495 1.004795945 0.886773864 0.927975288 1.018815971 0.81547015 1.083814287 1.026293793 1 11.47989965 -7.289284187 24.99715157 1.056634643 0.931633593 0.25987873 0.090110622 641.0885926 575523.5993 0.014765964 0.016887314 5.14E-08 7.289284187 -0.12500105 TALPTSGS(ph)SAGELELLAGEVPAR ddPTM_HeLa_SAHA_4h_R1 2 TALPTSGSSAGELELLAGEVPAR 23 0 Q9Y6I3-3;Q9Y6I3;Q9Y6I3-1 Q9Y6I3-3 EPN1 Epsin-1 1 0 TALPTSGS(0.5)S(0.5)AGELELLAGEVPAR;T(0.004)ALPT(0.012)S(0.01)GS(0.932)S(0.042)AGELELLAGEVPAR ; 220.16 3.58E-30 4963900 1726.5 1790.86 1361 1819.7 1923.68 2290.5 1994.66 2137.07 2010.05 1907.92 TRUE FALSE FALSE 1908.101191 1848.885039 1546.469992 1854.922925 1776.288054 2095.336514 1770.215607 2082.406844 1996.061898 1990.179768 0.95875821 0.929004037 0.777050404 0.932037876 0.892526435 1.052837813 0.88947523 1.046341078 1.002955577 1 10.95868304 -7.857799702 1.537210841 0.98800827 0.928707526 0.110514781 0.074765243 0.576986863 2.836472755 0.016177163 0.014935676 1.39E-08 7.857799702 -0.059300744 TALPTSGSS(ph)AGELELLAGEVPAR ddPTM_HeLa_SAHA_4h_R1 1 TALPTSGSSAGELELLAGEVPAR 23 0 Q9Y6I3-3;Q9Y6I3;Q9Y6I3-1 Q9Y6I3-3 EPN1 Epsin-1 1 0 TALPTSGS(0.004)S(0.996)AGELELLAGEVPAR 247.28 4.81E-48 4793100 1900.8 2250.9 2007.4 2175.1 2176.1 2680.2 2537.1 2426.1 2490.7 2568.6 TRUE FALSE FALSE 2100.734865 2323.830637 2280.958018 2217.202206 2009.367688 2451.831882 2251.618831 2364.043875 2473.367016 2679.344916 0.784047941 0.867312985 0.851311828 0.827516529 0.749947375 0.915086321 0.840361693 0.882321593 0.923123783 1 11.3876646 -9.411968831 1.068731365 1.002634437 0.835462063 0.464611942 0.049841283 0.262515462 0.522663755 0.033784153 0.008027009 3.87E-10 9.411968831 -0.167172374 TALPTSGSSAGELELLAGEVPARS(ph)PGAFDMSGVR ddPTM_HeLa_SAHA_4h_R1 4 TALPTSGSSAGELELLAGEVPARSPGAFDMSGVR 34 1 Q9Y6I3-3;Q9Y6I3;Q9Y6I3-1 Q9Y6I3-3 EPN1 Epsin-1 1 0 TALPTSGS(0.001)S(0.007)AGELELLAGEVPARS(0.985)PGAFDMS(0.007)GVR;TALPTSGSSAGELELLAGEVPARS(0.997)PGAFDMS(0.003)GVR;TALPTSGSSAGELELLAGEVPARS(0.993)PGAFDMS(0.007)GVR;TALPTSGSSAGELELLAGEVPARS(1)PGAFDMSGVR ;;; 149.91 5.85E-21 47623200 2820.29 2786.02 2778.21 2471.57 3360.69 3242.03 3868.2 3300.95 2238.18 2762.02 TRUE FALSE FALSE 3116.941042 2876.288876 3156.809991 2519.410811 3103.194658 2965.790805 3432.939955 3216.516479 2222.604323 2881.104199 1.081856409 0.998328654 1.095694488 0.87446015 1.077085188 1.029393802 1.191536202 1.116417962 0.771441839 1 11.49240612 -4.771876938 24.98650926 1.031140539 1.15397708 0.2188226 0.102816909 134.54301 322085.9137 0.008443642 0.025729043 1.69E-05 4.771876938 0.122836541 TAMPS(ph)PGVSQNK ddPTM_HeLa_SAHA_4h_R1 2 TAMPSPGVSQNK 12 0 Q86UU0-3;Q86UU0-4;Q86UU0-2;Q86UU0;A0A087WZX0 Q86UU0-3 BCL9L B-cell CLL/lymphoma 9-like protein 1 0 T(0.085)AMPS(0.914)PGVS(0.001)QNK;T(0.099)AMPS(0.887)PGVS(0.014)QNK ; 134.75 6.86E-05 2530200 2370.2 2916.3 2485.6 2626.2 2616 3194.6 2700.3 2271.3 3649.3 2764.5 TRUE FALSE FALSE 2619.508511 3010.790033 2824.324624 2677.033899 2415.562645 2922.402108 2396.455137 2213.203435 3623.904224 2883.691124 0.90838734 1.044075077 0.979413017 0.928335867 0.837663446 1.013424109 0.831037387 0.767489769 1.256689454 1 11.49370093 -3.098468418 0.64836007 0.962116648 1.27E-14 0.298468517 0.109890444 7.347811137 0.691477042 0.010450672 7.43884258 0.000797134 3.098468418 -0.962116648 TAMPSPGVS(ph)QNK ddPTM_HeLa_SAHA_4h_R1 1 TAMPSPGVSQNK 12 0 Q86UU0-3;Q86UU0-4;Q86UU0-2;Q86UU0;A0A087WZX0 Q86UU0-3 BCL9L B-cell CLL/lymphoma 9-like protein 1 0 TAMPS(0.049)PGVS(0.951)QNK 151.55 0.00059294 4563600 1293.5 1761 1378.3 1729.2 1567.9 1881.9 1526.4 1185.3 2148.5 1446.4 TRUE FALSE FALSE 1429.556265 1818.057555 1566.127546 1762.671166 1447.767841 1721.551533 1354.645455 1154.981742 2133.548414 1508.761383 0.947503218 1.205000059 1.038022025 1.168290219 0.959573765 1.141036318 0.897852683 0.765516506 1.414105927 1 10.55914894 -4.523965929 5.66050874 1.017495759 0.793148084 0.209681974 0.155039829 0.108568186 12.46689556 0.013410025 0.060485788 2.99E-05 4.523965929 -0.224347675 TAMRVS(ph)PHHPAPTPNPR ddPTM_HeLa_SAHA_4h_R1 1 TAMRVSPHHPAPTPNPR 17 1 A8MZI9;Q01196-7;Q01196-3;Q01196-4;Q01196;Q01196-9;Q01196-10;Q01196-2;Q01196-8;Q01196-11 A8MZI9 RUNX1 Runt-related transcription factor 1 1 0 T(0.131)AMRVS(0.869)PHHPAPTPNPR 51.591 0.021832 1237400 381.01 278.07 281.06 281.46 272.36 366.75 378.1 387.55 359.14 388.05 TRUE FALSE FALSE 421.0863799 287.0796504 319.3613931 286.9080653 251.4918356 335.5008367 335.5551929 377.6370322 356.6407155 404.7807346 1.040282662 0.709222613 0.788973797 0.708798717 0.621303867 0.828845862 0.828980147 0.932942208 0.881071368 1 8.660996817 -7.267093883 24.98274206 1.019022373 0.770542461 0.482088977 0.091223108 198.8566224 878587.3909 0.014123052 0.016387214 5.41E-08 7.267093883 -0.248479912 TAMSTPHVAEPAENEQDEQDENGAEASADLR ddPTM_HeLa_SAHA_4h_R1 1 TAMSTPHVAEPAENEQDEQDENGAEASADLR 31 0 P26038 P26038 MSN Moesin 0 0 56.442 0.0058473 3404200 506.96 764.46 678.68 553.76 673.31 848.7 807.8 599.58 797.84 655.98 FALSE FALSE TRUE 560.2843788 789.2290056 771.166976 564.4788256 621.7211333 776.3859853 716.904218 584.2436118 792.2877665 684.2625081 0.818814961 1.153400919 1.127004573 0.82494484 0.908600319 1.134631777 1.04770349 0.853829641 1.157871076 1 9.418406092 -7.282505764 24.989329 0.914440405 1.007432008 0 0.139925777 1417.341101 1681271.38 0.021927397 0.025088685 5.22E-08 7.282505764 0.092991603 TANSPGS(ph)GARPDPVR ddPTM_HeLa_SAHA_4h_R1 1 TANSPGSGARPDPVR 15 1 Q13206;A0A3B3ISR7;E9PIF2 Q13206 DDX10 Probable ATP-dependent RNA helicase DDX10 1 0 T(0.037)ANS(0.067)PGS(0.896)GARPDPVR 119 0.0038853 2019400 343.37 431.73 222.48 449.5 424.17 335.05 352.44 477.29 495.34 324.16 TRUE FALSE FALSE 379.487232 445.7183353 252.7984158 458.2007225 391.6701862 306.5018551 312.7825236 465.0816129 491.8928886 338.136124 1.122291305 1.318162431 0.747623214 1.355077704 1.158321038 0.906445166 0.925019545 1.375427172 1.45471854 1 8.401460341 -9.234801817 1.059137162 1.002145953 1.104504558 0 0.241880673 1.531591268 3.17655787 0.110925502 0.03336425 5.82E-10 9.234801817 0.102358605 TAPAAAVS(ph)PMQR ddPTM_HeLa_SAHA_4h_R1 5 TAPAAAVSPMQR 12 0 Q5M775-4;Q5M775;J3KSG2 Q5M775-4 SPECC1 Cytospin-B 1 0 TAPAAAVS(1)PMQR;TAPAAAVS(1)PMQR;TAPAAAVS(1)PMQR;TAPAAAVS(1)PMQR;TAPAAAVS(1)PMQR ;;;; 112.08 0.0026935 34919900 7981.71 7722.13 6761.43 7851.79 8985.96 9482.9 8372.49 7993.66 8867.91 8228.2 TRUE FALSE FALSE 8821.262879 7972.332079 7682.842468 8003.772749 8297.457686 8674.903571 7430.39539 7789.193752 8806.197492 8582.95797 1.027764893 0.928856008 0.895127588 0.932519159 0.966736376 1.010712577 0.865714992 0.907518571 1.026009625 1 13.06725922 -7.255804672 24.5185182 1.0131112 0.930475632 0.533105333 0.037792941 220.2474281 958371.2081 0.006575914 0.007928571 5.55E-08 7.255804672 -0.082635568 TAPAAPAEDAVAAAAAAPSEPSEPS(ph)RPSPQPKPR ddPTM_HeLa_SAHA_4h_R1 2 TAPAAPAEDAVAAAAAAPSEPSEPSRPSPQPKPR 34 2 Q53GA4 Q53GA4 PHLDA2 Pleckstrin homology-like domain family A member 2 1 0 TAPAAPAEDAVAAAAAAPS(0.004)EPS(0.21)EPS(0.393)RPS(0.393)PQPKPR;TAPAAPAEDAVAAAAAAPS(0.001)EPS(0.022)EPS(0.489)RPS(0.489)PQPKPR ; 144.44 5.98E-21 292060000 6189.5 6291.3 5665.8 5462.4 6731.3 6792.6 7711.9 6007.8 6393.1 6259.3 TRUE FALSE FALSE 6840.540008 6495.142248 6437.905718 5568.132651 6215.549248 6213.832266 6844.136715 5854.129175 6348.609897 6529.169055 1.047689216 0.994788493 0.986022213 0.852808773 0.951966352 0.951703381 1.048240083 0.896611671 0.972345768 1 12.67268368 -6.707027182 2.96621927 1.021854966 0.946115883 0.221779307 0.051221197 0.223476051 4.020606197 0.008005618 0.011403711 1.96E-07 6.707027182 -0.075739083 TAPGMGDQSGCYR ddPTM_HeLa_SAHA_4h_R1 2 TAPGMGDQSGCYR 13 0 E9PB51;Q9BWF3;Q96PK6-5;Q9BQ04 E9PB51;Q9BQ04 RBM4;RBM14;RBM4B RNA-binding protein 4;RNA-binding protein 14;RNA-binding protein 4B 0 0 ; ; 133.75 0.0026723 11923200 832.72 961.21 817.48 864.56 1030.73 1115.68 982.92 938.83 709.47 798.27 FALSE FALSE TRUE 920.3093103 992.3538347 928.8819171 881.294809 951.7556901 1020.617787 872.3192547 914.816088 704.5327405 832.6873263 1.105227954 1.191748455 1.115523063 1.058374231 1.142992886 1.225691511 1.04759521 1.098630974 0.846095189 1 9.701631056 -8.769519554 0.746312531 1.001674792 1.124801044 0.483540428 0.072741869 0.46668209 0.50292963 0.030880634 0.011463254 1.70E-09 8.769519554 0.123126252 TAPPALPT(ph)GYDSEEEEESRPMSYDEK ddPTM_HeLa_SAHA_4h_R1 3 TAPPALPTGYDSEEEEESRPMSYDEK 26 1 P25440-2;P25440;A0A0G2JK44;A0A140T9E9;H0Y6K2;P25440-3;P25440-4;A0A140T9I1;A0A0G2JHN8 P25440-2 BRD2 Bromodomain-containing protein 2 1 0 TAPPALPT(0.373)GY(0.313)DS(0.313)EEEEES(0.001)RPMSYDEK;TAPPALPT(0.439)GY(0.392)DS(0.113)EEEEES(0.016)RPMS(0.019)Y(0.021)DEK;TAPPALPT(0.333)GY(0.333)DS(0.333)EEEEESRPMSYDEK ;; 92.792 1.77E-05 43674000 1787.34 2305.75 1423.4 2189.85 2131.27 3050.05 2269.8 2089.05 2723.22 2074.48 TRUE FALSE FALSE 1975.340622 2380.457813 1617.373539 2232.237713 1967.972553 2790.168581 2014.39613 2035.615126 2704.26889 2163.920985 0.912852473 1.100066883 0.747427263 1.031570805 0.909447511 1.289404096 0.930900964 0.940706773 1.24970778 1 11.07943211 TAPPALPT(ph)GYDSEEEEESRPMSYDEKR ddPTM_HeLa_SAHA_4h_R1 3 TAPPALPTGYDSEEEEESRPMSYDEKR 27 2 P25440-2;P25440;A0A0G2JK44;A0A140T9E9;H0Y6K2;P25440-3;P25440-4;A0A140T9I1;A0A0G2JHN8 P25440-2 BRD2 Bromodomain-containing protein 2 1 0 TAPPALPT(0.367)GY(0.288)DS(0.288)EEEEES(0.049)RPMS(0.004)Y(0.004)DEKR;TAPPALPT(0.692)GY(0.156)DS(0.14)EEEEES(0.008)RPMS(0.002)Y(0.002)DEKR;TAPPALPT(0.385)GY(0.308)DS(0.308)EEEEESRPMSYDEKR ;; 88.768 0.00010234 17293500 1105.13 1485.57 1325.89 1369.87 1359.84 1555.47 1722.33 1630.72 1262.39 1495.23 TRUE FALSE FALSE 1221.372644 1533.703443 1506.575384 1396.385815 1255.649353 1422.935205 1528.528895 1589.008544 1253.604925 1559.696683 0.78308344 0.983334426 0.965941263 0.895293188 0.805059963 0.912315337 0.980016764 1.018793308 0.803749177 1 10.60704978 -4.682390724 3.330497895 0.900306434 1.010520114 0.25501073 0.073111727 0.327025993 6.963964633 0.012523259 0.056579107 2.08E-05 4.682390724 0.11021368 TAPPALPTGYDS(ph)EEEEESRPMSYDEK ddPTM_HeLa_SAHA_4h_R1 1 TAPPALPTGYDSEEEEESRPMSYDEK 26 1 P25440-2;P25440;A0A0G2JK44;A0A140T9E9;H0Y6K2;P25440-3;P25440-4;A0A140T9I1;A0A0G2JHN8 P25440-2 BRD2 Bromodomain-containing protein 2 1 0 TAPPALPT(0.31)GY(0.31)DS(0.379)EEEEESRPMSYDEK 82.56 4.49E-05 23546000 1638 2207.9 1774.7 2207.7 2389.2 2884.5 2461.8 1827.1 2712 2024 TRUE FALSE FALSE 1810.292355 2279.437409 2016.546874 2250.433226 2206.140012 2638.724372 2184.791785 1780.365428 2693.126971 2111.264545 0.857444587 1.079655041 0.955136995 1.065917216 1.044937745 1.249831234 1.034826161 0.843269704 1.275599014 1 11.04389165 -7.248138407 24.7321875 0.932682165 1.045052757 0 0.148410602 841.8125017 1565289.663 0.018002849 0.021978311 5.65E-08 7.248138407 0.112370592 TAPPALPTGYDS(ph)EEEEESRPMSYDEKR ddPTM_HeLa_SAHA_4h_R1 3 TAPPALPTGYDSEEEEESRPMSYDEKR 27 2 P25440-2;P25440;A0A0G2JK44;A0A140T9E9;H0Y6K2;P25440-3;P25440-4;A0A140T9I1;A0A0G2JHN8 P25440-2 BRD2 Bromodomain-containing protein 2 1 0 TAPPALPT(0.041)GY(0.031)DS(0.928)EEEEESRPMSYDEKR;TAPPALPT(0.426)GY(0.094)DS(0.48)EEEEESRPMSYDEKR;TAPPALPT(0.199)GY(0.149)DS(0.652)EEEEESRPMSYDEKR ;; 136.67 8.22E-10 38178500 2608.04 2304.46 2707.25 2918.2 3152.27 3102.65 2826.08 2818.77 2139.75 2459.78 TRUE FALSE FALSE 2882.365613 2379.126016 3076.179931 2974.685981 2910.743754 2838.286765 2508.082041 2746.669945 2124.859306 2565.833154 1.123364397 0.927233329 1.198900999 1.159345056 1.134424407 1.106185241 0.977492257 1.07047878 0.828136195 1 11.32521165 -9.489427857 1.025149207 0.995615904 1.090447446 0.261602091 0.094991059 0.923490154 1.598692991 0.068574585 0.013822189 3.24E-10 9.489427857 0.094831542 TAPPAS(ph)PEAR ddPTM_HeLa_SAHA_4h_R1 6 TAPPASPEAR 10 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 TAPPAS(1)PEAR;T(0.002)APPAS(0.998)PEAR;TAPPAS(1)PEAR;TAPPAS(1)PEAR;TAPPAS(1)PEAR;TAPPAS(1)PEAR ;;;;; 141.71 0.0010566 583820700 12932.1 11972.2 11652.4 11547.6 12854.3 14287.3 14435.2 14111.6 13279.7 13186.6 TRUE FALSE FALSE 14292.35761 12360.10714 13240.32839 11771.1205 11869.40631 13069.94166 12810.9133 13750.64571 13187.28549 13755.13886 1.039055858 0.898581051 0.962573226 0.855761662 0.862907051 0.950186094 0.931354706 0.999673347 0.958717002 1 13.74768308 -7.262081955 24.99978868 1.018443045 0.920995928 0.34169084 0.046198126 33.65705889 1309438.586 0.007356318 0.008676817 5.47E-08 7.262081955 -0.097447117 TAPS(ph)PLVEAK ddPTM_HeLa_SAHA_4h_R1 1 TAPSPLVEAK 10 0 Q8TEH3;Q8TEH3-7;Q8TEH3-6;A0A0A0MS48;Q8TEH3-4;Q8TEH3-3;Q8TEH3-5;Q8TEH3-2 Q8TEH3 DENND1A DENN domain-containing protein 1A 1 0 T(0.001)APS(0.999)PLVEAK 87.667 0.020118 11484000 1493.1 1807.1 1563.2 1929.6 1864.7 1968 1922.3 1751.7 2483.7 1651.7 TRUE FALSE FALSE 1650.151109 1865.651226 1776.224755 1966.950198 1721.827089 1800.315328 1705.997745 1706.89405 2466.415729 1722.91287 0.957768171 1.082847112 1.030942879 1.141642292 0.999369799 1.044925347 0.990182251 0.990702478 1.431538282 1 10.75063403 -7.273574591 24.96768135 0.980057192 1.040342272 0 0.14952133 717.7356827 1476708.891 0.007755916 0.008908798 5.33E-08 7.273574591 0.06028508 TAPS(ph)SPLTSPSDTR ddPTM_HeLa_SAHA_4h_R1 1 TAPSSPLTSPSDTR 14 0 A0A087WVA8;Q8IWB9;Q8IWB9-2 A0A087WVA8 TEX2 Testis-expressed sequence 2 protein 1 0 T(0.004)APS(0.595)S(0.395)PLT(0.006)SPS(0.001)DTR 108.32 0.002584 6103600 939.14 1788.6 1382.5 1161.5 1397.3 1597.2 2137.8 1418 1188.6 1673.7 TRUE FALSE FALSE 1037.923054 1846.551814 1570.8999 1183.982512 1290.239176 1461.109574 1897.249118 1381.729613 1180.328436 1745.861398 0.594504842 1.057673774 0.899785001 0.678165239 0.739027266 0.836898952 1.086712336 0.791431447 0.676072246 1 10.76972331 -6.644698694 0.00593341 1.653874885 0.000117901 0 0.164052331 42941.14584 138.0038016 19038.75633 19420.21078 2.27E-07 6.644698694 -1.653756984 TAPSS(ph)PLTSPSDTR ddPTM_HeLa_SAHA_4h_R1 1 TAPSSPLTSPSDTR 14 0 A0A087WVA8;Q8IWB9;Q8IWB9-2 A0A087WVA8 TEX2 Testis-expressed sequence 2 protein 1 0 TAPS(0.029)S(0.969)PLT(0.002)SPSDTR 167.22 5.72E-06 4834200 564.84 864.44 738.78 498.25 834.59 795.67 1058.5 637.42 696.35 489.64 TRUE FALSE FALSE 624.2524628 892.4484232 839.457091 507.8943492 770.6438945 727.8744397 939.3947942 621.1157194 691.5040437 510.7507766 1.222225186 1.74732661 1.643574771 0.994407395 1.508845272 1.425106868 1.839243007 1.216083749 1.353897195 1 8.996475682 -7.569111477 2.958802487 1.085988212 1.482425695 0.19097305 0.250752957 0.191370066 3.501066533 0.043439119 0.046266145 2.70E-08 7.569111477 0.396437484 TAPTALGITLSS(ph)SPTSTPELR ddPTM_HeLa_SAHA_4h_R1 2 TAPTALGITLSSSPTSTPELR 21 0 F5H1U9;O75970-5;O75970-3;O75970-2;O75970 F5H1U9 MPDZ Multiple PDZ domain protein 1 0 TAPTALGIT(0.017)LS(0.135)S(0.71)S(0.135)PT(0.004)STPELR;TAPTALGITLS(0.002)S(0.499)S(0.499)PTSTPELR ; 227.64 4.69E-34 47152000 1180.81 1375.07 1074.44 1240.88 1278.12 1633.12 1508.47 1055.27 1120.13 1151.65 TRUE FALSE FALSE 1305.013014 1419.62317 1220.859088 1264.899027 1180.190722 1493.968988 1338.732986 1028.277721 1112.334924 1201.303268 1.086331028 1.181735877 1.016278837 1.052938971 0.982425299 1.243623512 1.11440052 0.855968471 0.925940147 1 10.23038469 -9.241222709 1.076428765 1.001700156 1.073151703 0.109989462 0.103945828 1.136059464 2.441112309 0.05787521 0.017527028 5.74E-10 9.241222709 0.071451547 TAPTALGITLSSS(ph)PTSTPELR ddPTM_HeLa_SAHA_4h_R1 2 TAPTALGITLSSSPTSTPELR 21 0 F5H1U9;O75970-5;O75970-3;O75970-2;O75970 F5H1U9 MPDZ Multiple PDZ domain protein 1 0 TAPTALGITLSS(0.321)S(0.646)PT(0.025)S(0.007)TPELR;TAPTALGITLSS(0.225)S(0.772)PT(0.002)STPELR ; 284.46 5.00E-79 42866000 2377.18 2249.01 2181.3 2105.76 2717.3 2608.6 2760.4 2319.3 2086.2 2323.81 TRUE FALSE FALSE 2627.222699 2321.8794 2478.556204 2146.52003 2509.101061 2386.332604 2449.792527 2259.975664 2071.681964 2424.000822 1.08383738 0.957870715 1.022506338 0.885527765 1.035107348 0.984460312 1.010640139 0.932332879 0.854653986 1 11.24317447 -7.246930235 24.88307084 1.039589875 0.977829937 0 0.074237243 764.8079109 1311641.907 0.00806635 0.009854909 5.66E-08 7.246930235 -0.061759937 TAPTALGITLSSSPT(ph)STPELR ddPTM_HeLa_SAHA_4h_R1 1 TAPTALGITLSSSPTSTPELR 21 0 F5H1U9;O75970-5;O75970-3;O75970-2;O75970 F5H1U9 MPDZ Multiple PDZ domain protein 1 0 TAPTALGITLS(0.008)S(0.033)S(0.183)PT(0.561)S(0.165)T(0.049)PELR 130.09 1.06E-05 1808400 310.84 395.46 322.07 326.86 411.42 319.62 450.67 356.97 271.23 381.66 TRUE FALSE FALSE 343.5355774 408.2731635 365.9600223 333.1868479 379.8970885 292.3865779 399.9594255 347.8392243 269.3424883 398.1152304 0.862904886 1.025515058 0.919231404 0.836910579 0.954239023 0.734427009 1.004632315 0.873714939 0.676544045 1 8.637042254 -6.514443099 24.39032398 0.941751892 0.883060591 0 0.114506036 531.202568 1535887.818 0.012723049 0.018524013 3.06E-07 6.514443099 -0.0586913 TAPTLS(ph)PEHWK ddPTM_HeLa_SAHA_4h_R1 5 TAPTLSPEHWK 11 0 Q96JM3 Q96JM3 CHAMP1 Chromosome alignment-maintaining phosphoprotein 1 1 0 TAPT(0.001)LS(0.999)PEHWK;T(0.011)APT(0.189)LS(0.8)PEHWK;T(0.048)APT(0.001)LS(0.951)PEHWK;TAPT(0.112)LS(0.888)PEHWK;T(0.026)APT(0.252)LS(0.722)PEHWK ;;;; 134.04 0.00090769 148484800 7523.27 6990.21 6708.72 6690.3 7834.36 8384.38 8091.32 7803.24 7177.72 7570.7 TRUE FALSE FALSE 8314.602057 7216.69739 7622.949424 6819.800431 7234.093029 7669.983655 7180.863378 7603.64442 7127.769662 7897.109927 1.052866445 0.913840311 0.965283438 0.863581803 0.916043096 0.971239317 0.9093027 0.962838873 0.902579517 1 12.94710906 -7.256528139 24.9982857 1.024964711 0.928147651 0.068527071 0.050689666 190.1533551 967883.6767 0.005792036 0.006975876 5.54E-08 7.256528139 -0.09681706 TAPTSTIAPGVVMASS(ph)PALPTQPAEEAAR ddPTM_HeLa_SAHA_4h_R1 1 TAPTSTIAPGVVMASSPALPTQPAEEAAR 29 0 H7C1R5;C9JBT4;C9J896;P16220;P16220-1 H7C1R5 CREB1 Cyclic AMP-responsive element-binding protein 1 1 0 TAPTSTIAPGVVMAS(0.272)S(0.521)PALPT(0.207)QPAEEAAR 70.027 0.00021969 4548000 404.97 439.31 301.92 349.6 632.72 430.64 536.33 513.77 399.89 433.19 TRUE FALSE FALSE 447.5666027 453.5439322 343.0640853 356.3670135 584.2411303 393.9470493 475.9807369 500.6285073 397.1071329 451.8669409 0.990483176 1.00371125 0.759214836 0.788654759 1.292949489 0.871820914 1.053364816 1.107911339 0.878814308 1 8.819754201 -4.533689514 24.32082484 0.978404597 1.094274781 0.096883246 0.143424051 239.8837439 539664.7983 0.018463364 0.06923127 2.93E-05 4.533689514 0.115870184 TAQALSSGS(ph)GSQETK ddPTM_HeLa_SAHA_4h_R1 1 TAQALSSGSGSQETK 15 0 C9JIG9;O95747 C9JIG9 OXSR1 Serine/threonine-protein kinase OSR1 1 0 TAQALSS(0.101)GS(0.869)GS(0.03)QETK 183.76 2.47E-25 0 409.74 626.87 391.21 436.1 532.18 632.06 536.4 543.52 559.53 592.15 TRUE FALSE FALSE 452.8383332 647.1809993 444.5220615 444.5413461 491.4044834 578.2049321 476.0428603 529.6175454 555.6361852 617.6804844 0.73312715 1.047760154 0.719663439 0.71969466 0.795564205 0.93609066 0.770694351 0.857429624 0.899552761 1 9.270716939 -9.508040797 1.178712315 1.003004342 0.814110909 0.16969118 0.103240314 0.46844732 1.134298198 0.073978143 0.016719742 3.10E-10 9.508040797 -0.188893433 TAQALSSGSGS(ph)QETK ddPTM_HeLa_SAHA_4h_R1 2 TAQALSSGSGSQETK 15 0 C9JIG9;O95747 C9JIG9 OXSR1 Serine/threonine-protein kinase OSR1 1 0 TAQALSSGS(0.008)GS(0.992)QETK;TAQALSSGS(0.007)GS(0.992)QETK ; 252.47 8.29E-44 20698800 2890.8 4513 2640.4 3540.2 3733.3 4862 3501.3 3780.9 4928 3460.97 TRUE FALSE FALSE 3194.867607 4659.224161 3000.219961 3608.72569 3447.255361 4447.730247 3107.324509 3684.190053 4893.705647 3610.189354 0.884958459 1.290576118 0.831042271 0.999594574 0.954868297 1.231993619 0.860709565 1.020497733 1.355526031 1 11.81785879 TAQDLSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 TAQDLSSPR 9 0 Q9UHI6;Q9UHI6-2 Q9UHI6 DDX20 Probable ATP-dependent RNA helicase DDX20 1 0 TAQDLS(0.23)S(0.77)PR 94.82 0.014289 20411000 2751 2693.8 2330.8 2391.3 3579.3 3074.7 3007.2 2938.3 2697 2537.8 TRUE FALSE FALSE 3040.362802 2781.080887 2648.429286 2437.587069 3305.054807 2812.718262 2668.821941 2863.142541 2678.231357 2647.216978 1.148512883 1.050567789 1.000457956 0.92081121 1.248501666 1.062518972 1.008161388 1.081567006 1.011715843 1 11.37026073 -3.863954537 18.73562671 1.06320766 7.58560694 0 0.086983948 3478.064322 486414.144 0.012262795 15135.31432 0.000136787 3.863954537 6.52239928 TAQDPGIS(ph)PSQSLCAESSR ddPTM_HeLa_SAHA_4h_R1 1 TAQDPGISPSQSLCAESSR 19 0 A0A0A0MT72;Q9BSQ5-4;Q9BSQ5;Q9BSQ5-2;A0A3B3IRS0;E9PEC4 A0A0A0MT72 CCM2 Cerebral cavernous malformations 2 protein 1 0 TAQDPGIS(0.957)PS(0.029)QS(0.011)LCAES(0.002)S(0.001)R 80.459 0.0046602 3917100 800.52 948.57 960.08 1014.8 931.53 946.06 1285.9 1068.5 993.8 1061.6 TRUE FALSE FALSE 884.7223665 979.3042904 1090.914703 1034.442921 860.1563726 865.4503656 1141.207148 1041.169317 986.8840649 1107.370771 0.798939605 0.884350857 0.985139513 0.934143241 0.776755532 0.781536219 1.030555598 0.940217445 0.891195696 1 10.11292263 TAQSPAMVGS(ph)PIR ddPTM_HeLa_SAHA_4h_R1 2 TAQSPAMVGSPIR 13 0 Q5VWG9 Q5VWG9 TAF3 Transcription initiation factor TFIID subunit 3 1 0 TAQSPAMVGS(1)PIR;TAQSPAMVGS(1)PIR ; 164.53 4.53E-05 12471100 1445.5 1753.65 1237.11 1564.88 1502.67 1957.39 1980.23 1360.61 2204.62 1515.8 TRUE FALSE FALSE 1597.544322 1810.469411 1405.696908 1595.170515 1387.535749 1790.60936 1757.409309 1325.807566 2189.27787 1581.153556 1.010366334 1.14503073 0.889032506 1.008865021 0.877546487 1.132470248 1.111472888 0.83850652 1.384608004 1 10.62676177 -9.447428667 1.512506789 1.000382727 1.007152883 0 0.158843372 8.600880343 37.75927043 0.050506367 0.015827847 3.57E-10 9.447428667 0.006770155 TAQVPS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 2 TAQVPSPPR 9 0 S4R3H4;E7EQT4;Q9UKV3;G3V3B0;Q9UKV3-3;Q9UKV3-2;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 TAQVPS(1)PPR;TAQVPS(1)PPR ; 106.16 0.0074565 652930000 5454.1 7102 5148.3 6252 6495.3 8297.4 6345.8 6023.3 8313.5 6162.8 TRUE FALSE FALSE 6027.787262 7332.10946 5849.883513 6373.016501 5997.631517 7590.41484 5631.753883 5869.232708 8255.645677 6428.508468 0.93766498 1.140561531 0.909990792 0.991367832 0.93297404 1.180742761 0.876059184 0.913000696 1.284224127 1 12.65026833 TAS(ph)APNLAETEK ddPTM_HeLa_SAHA_4h_R1 1 TASAPNLAETEK 12 0 Q86W92-3;Q86W92-4;Q86W92;F5GZP6 Q86W92-3 PPFIBP1 Liprin-beta-1 1 0 T(0.001)AS(0.999)APNLAETEK 146.96 0.0004506 3989900 1422.2 2039.8 1460.4 2079.6 2395.8 2272.1 1966.5 2020.5 2706 2237.8 TRUE FALSE FALSE 1571.793521 2105.890858 1659.415707 2119.853665 2212.234322 2078.504298 1745.224244 1968.818536 2687.168726 2334.28251 0.673351882 0.902157665 0.710888978 0.908139292 0.947714903 0.89042534 0.747649112 0.843436271 1.151175453 1 11.18876346 -9.651102388 1.502421568 0.999555881 0.808162069 0.437451955 0.101740883 0.368813988 1.502686003 0.069517992 0.015853556 2.23E-10 9.651102388 -0.191393811 TAS(ph)APNLAETEKETAEHLDLAGASSRPK ddPTM_HeLa_SAHA_4h_R1 1 TASAPNLAETEKETAEHLDLAGASSRPK 28 2 Q86W92-3;Q86W92-4;Q86W92;F5GZP6 Q86W92-3 PPFIBP1 Liprin-beta-1 1 0 T(0.157)AS(0.639)APNLAET(0.148)EKET(0.056)AEHLDLAGASSRPK 77.876 9.34E-06 18964000 742.11 1129.6 620.25 782.59 1828.3 1235.5 1404 1606 1160.8 1323 TRUE FALSE FALSE 820.1685347 1166.199781 704.7744399 797.7381611 1688.216049 1130.228449 1246.018225 1564.920845 1152.721898 1380.041005 0.594307366 0.845047196 0.510690941 0.578053955 1.223308614 0.818981788 0.902884929 1.133966919 0.835280904 1 10.43049542 -4.208575888 0.771356433 0.784778807 1.305092778 0.228955006 0.196470988 3.955970091 1.58248777 0.037103516 1.802249874 6.19E-05 4.208575888 0.520313972 TAS(ph)EGDGGAAAGAAAAGAR ddPTM_HeLa_SAHA_4h_R1 1 TASEGDGGAAAGAAAAGAR 19 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 T(0.032)AS(0.968)EGDGGAAAGAAAAGAR 86.016 0.0031698 5397600 243.83 397.37 355.67 407.06 398.03 488.24 516.45 338.13 496.64 356.88 TRUE FALSE FALSE 269.4771581 410.2450487 404.1388554 414.9392349 367.5330274 446.6392052 458.3376868 329.4811242 493.1838418 372.2668433 0.723881707 1.10201877 1.085616038 1.114628505 0.98728381 1.199782396 1.231207385 0.88506707 1.3248127 1 8.540193315 -7.235661254 24.05567726 0.869610807 1.093666574 0 0.181942341 358.621216 334658.9086 0.021962843 0.026892722 5.81E-08 7.235661254 0.224055768 TAS(ph)ELLLDR ddPTM_HeLa_SAHA_4h_R1 1 TASELLLDR 9 0 Q92508 Q92508 PIEZO1 Piezo-type mechanosensitive ion channel component 1 1 0 T(0.182)AS(0.818)ELLLDR 150.04 0.00043162 2221900 571.67 1494.2 967.67 614.74 1059.3 789.83 1111.4 869.71 692.6 1043.6 TRUE FALSE FALSE 631.8008735 1542.61306 1099.539028 626.6391816 978.1366629 722.5320405 986.342347 847.4640775 687.7801402 1088.594703 0.580382094 1.417068314 1.010053627 0.575640484 0.898531529 0.663729153 0.906069398 0.778493663 0.631805518 1 10.08825121 -6.285636762 24.76211563 0.866938887 0.77420673 0.078132324 0.237219024 2464.972737 2522496.779 0.040187012 0.061405775 5.18E-07 6.285636762 -0.092732157 TAS(ph)FSESR ddPTM_HeLa_SAHA_4h_R1 6 TASFSESR 8 0 P53396;P53396-2;P53396-3 P53396 ACLY ATP-citrate synthase 1 0 T(0.008)AS(0.987)FS(0.003)ES(0.003)R;T(0.003)AS(0.993)FS(0.003)ESR;T(0.001)AS(0.98)FS(0.019)ES(0.001)R;T(0.022)AS(0.448)FS(0.265)ES(0.265)R;T(0.014)AS(0.938)FS(0.047)ES(0.001)R;TAS(0.996)FS(0.004)ES(0.001)R ;;;;; 123.86 0.0029642 2800421000 17032.9 19571.8 13861.6 16733.1 19545.2 22023.1 19193.4 17288.5 25976.7 18878.1 TRUE FALSE FALSE 18824.49857 20205.93916 15750.58666 17056.99335 18047.651 20146.60798 17033.70812 16846.2852 25795.92603 19692.02728 0.955945181 1.026097459 0.799845868 0.866187778 0.916495328 1.023084505 0.865005308 0.855487602 1.309968022 1 14.26532402 -6.783140196 24.99859829 0.982132639 0.893140508 0.260810502 0.118103584 198.0021314 228090.966 0.009492789 0.012482025 1.65E-07 6.783140196 -0.088992131 TAS(ph)FSESRADEVAPAK ddPTM_HeLa_SAHA_4h_R1 4 TASFSESRADEVAPAK 16 1 P53396;P53396-2;P53396-3 P53396 ACLY ATP-citrate synthase 1 0 T(0.032)AS(0.834)FS(0.076)ES(0.058)RADEVAPAK;T(0.075)AS(0.499)FS(0.328)ES(0.099)RADEVAPAK;T(0.001)AS(0.799)FS(0.197)ES(0.004)RADEVAPAK;T(0.131)AS(0.835)FS(0.031)ES(0.003)RADEVAPAK ;;; 187.78 6.29E-11 226613000 7298.1 5677.26 6279.16 6143.21 6885.19 6901.82 8053.6 7634.98 5851.59 6325.18 TRUE FALSE FALSE 8065.747643 5861.206949 7134.851224 6262.120713 6357.64823 6313.746107 7147.387732 7439.688267 5810.868309 6597.889464 1.222473897 0.888345732 1.081383867 0.949109673 0.963588169 0.956934205 1.083283946 1.127586072 0.880716226 1 12.68778889 -7.261919242 24.99999055 1.105057115 1.00711519 0 0.110845321 61.18268316 3187488.176 0.017716453 0.020934541 5.47E-08 7.261919242 -0.097941926 TAS(ph)FSESRADEVAPAKK ddPTM_HeLa_SAHA_4h_R1 1 TASFSESRADEVAPAKK 17 2 P53396;P53396-2;P53396-3 P53396 ACLY ATP-citrate synthase 1 0 T(0.127)AS(0.713)FS(0.127)ES(0.033)RADEVAPAKK 74.029 0.010223 3122700 999.42 828.57 1117 1217.3 882.75 830.18 1002.9 1023.3 828.56 1411.7 TRUE FALSE FALSE 1104.543581 855.4162116 1269.218943 1240.862602 815.1138857 759.4439935 890.0510525 997.1254677 822.7939835 1472.565296 0.750081225 0.580902059 0.861910128 0.842653705 0.553533272 0.51572857 0.60442213 0.677134977 0.558748726 1 10.52411589 -13.52287875 0.110181287 2.173903148 0.455088361 0 0.173886431 50.50828626 0.408704116 13.20778249 0.680344498 3.00E-14 13.52287875 -1.718814787 TAS(ph)GSSVTSLDGTR ddPTM_HeLa_SAHA_4h_R1 1 TASGSSVTSLDGTR 14 0 E5RJY1;E7ESM1;Q92597-3;Q92597-2;Q92597 E5RJY1 NDRG1 Protein NDRG1 1 0 T(0.292)AS(0.551)GS(0.157)SVTSLDGTR 237.59 1.89E-25 58739000 1309.3 1135 730.93 1027.8 1329.4 1373.5 1227.7 1299.1 1466.9 862.58 TRUE FALSE FALSE 1447.018181 1171.774745 830.5373339 1047.694555 1227.541659 1256.470073 1089.555965 1265.870903 1456.691723 899.7700452 1.608208885 1.302304684 0.923055105 1.164402572 1.364283759 1.396434655 1.210927137 1.406882692 1.618960012 1 9.813412528 -9.700543089 1.598736933 1.000560195 1.337144793 0 0.257834236 0.420724114 1.944538457 0.146899317 0.032664798 1.99E-10 9.700543089 0.336584599 TAS(ph)LNQRPR ddPTM_HeLa_SAHA_4h_R1 2 TASLNQRPR 9 1 A0A0A0MRT6;Q8IZP0-2;Q8IZP0-4;Q8IZP0-3;Q8IZP0-5;Q8IZP0-6;Q8IZP0-9;Q8IZP0-12;Q8IZP0;B6VEX4;Q8IZP0-11;Q8IZP0-10;Q8IZP0-8;Q8IZP0-7 A0A0A0MRT6 ABI1 Abl interactor 1 1 0 T(0.01)AS(0.99)LNQRPR;T(0.011)AS(0.989)LNQRPR ; 77.288 0.017858 4156200 1280.71 1302.9 1544.56 1571.89 1271.33 1901.49 1784.6 1269.01 1061.65 1279.34 TRUE FALSE FALSE 1415.420954 1345.114815 1755.044593 1602.316204 1173.92097 1739.472355 1583.792111 1236.550562 1054.261891 1334.498608 1.060638764 1.007955202 1.315134075 1.200687804 0.879671933 1.303465094 1.186806866 0.926603111 0.790005988 1 10.38208209 TAS(ph)LPGYGR ddPTM_HeLa_SAHA_4h_R1 2 TASLPGYGR 9 0 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639 J3QSX6 ABLIM1 Actin-binding LIM protein 1 1 0 T(0.455)AS(0.545)LPGYGR;T(0.007)AS(0.993)LPGYGR ; 131.12 0.0019099 226060000 4622.9 4060.1 4400.1 4629.6 4287.8 5062 4695.5 5076 4216.5 4104.8 TRUE FALSE FALSE 5109.157833 4191.649904 4999.722713 4719.212603 3959.26969 4630.689122 4167.149982 4946.16327 4187.157033 4281.778016 1.193232768 0.978950774 1.167674432 1.102161902 0.924678878 1.081487434 0.97322887 1.15516574 0.977901474 1 12.06399429 TAS(ph)NPKVENEDEPVR ddPTM_HeLa_SAHA_4h_R1 2 TASNPKVENEDEPVR 15 1 Q9UBF8-2 Q9UBF8-2 PI4KB Phosphatidylinositol 4-kinase beta 1 0 T(0.429)AS(0.571)NPKVENEDEPVR;T(0.335)AS(0.665)NPKVENEDEPVR ; 99.813 0.017685 50391000 2987.6 3614.2 2735.97 3315.4 3404.63 3911.1 3508.2 4252.9 3376.7 3263 TRUE FALSE FALSE 3301.849476 3731.302451 3108.813743 3379.574361 3143.767985 3577.852277 3113.448103 4144.116976 3353.20127 3403.683899 0.970081116 1.096254107 0.91336735 0.992916634 0.923636882 1.05117055 0.914728922 1.217538731 0.985168238 1 11.73288134 -4.25041966 24.70856968 0.985250483 1.217538889 0.613816653 0.055776708 630.9762431 1414752.548 0.006727892 0.133295086 5.62E-05 4.25041966 0.232288407 TAS(ph)PPPPPK ddPTM_HeLa_SAHA_4h_R1 4 TASPPPPPK 9 0 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 T(0.001)AS(0.999)PPPPPK;T(0.001)AS(0.999)PPPPPK;T(0.002)AS(0.998)PPPPPK;T(0.067)AS(0.933)PPPPPK ;;; 128.81 0.0022394 834515000 20833.4 19990.2 19463.2 20773.5 21761.8 23762 22848.3 22502.7 21624.9 20355.5 TRUE FALSE FALSE 23024.7526 20637.8956 22115.54354 21175.60113 20094.41559 21737.34392 20277.34915 21927.11352 21474.41056 21233.12522 1.084378882 0.971966933 1.04155857 0.997290833 0.946371077 1.023746796 0.954986557 1.032684227 1.011363628 1 14.37402911 -6.572667683 1.443187732 1.037515553 0.989160257 0.072159089 0.03839666 0.48289138 2.020636646 0.007345747 0.011851691 2.68E-07 6.572667683 -0.048355296 TAS(ph)PPPPPKR ddPTM_HeLa_SAHA_4h_R1 4 TASPPPPPKR 10 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 T(0.394)AS(0.606)PPPPPKR;T(0.06)AS(0.94)PPPPPKR;T(0.14)AS(0.86)PPPPPKR;T(0.309)AS(0.691)PPPPPKR ;;; 130.44 0.00083089 723128000 11175.7 11170.3 10421 11644.1 12272.8 13747.2 12638.7 13143.9 13565.3 12244.2 TRUE FALSE FALSE 12351.2114 11532.22505 11841.11961 11869.48839 11332.46072 12575.86122 11216.56021 12807.69807 13470.89797 12772.10738 0.96704569 0.90292265 0.92710774 0.929328891 0.887281979 0.984634786 0.878207478 1.002786595 1.054712239 1 13.64070897 -7.641544226 1.835547906 0.988962155 0.928781453 0.382686214 0.042948576 0.239885642 1.670137025 0.006806084 0.006964043 2.28E-08 7.641544226 -0.060180702 TASAPNLAETEKET(ph)AEHLDLAGASSRPK ddPTM_HeLa_SAHA_4h_R1 1 TASAPNLAETEKETAEHLDLAGASSRPK 28 2 Q86W92-3;Q86W92-4;Q86W92;F5GZP6 Q86W92-3 PPFIBP1 Liprin-beta-1 1 0 T(0.109)AS(0.34)APNLAET(0.054)EKET(0.497)AEHLDLAGASSRPK 55.171 0.016047 18433000 693.37 1016.1 720.92 890.68 1403.3 809.29 1347.1 1536.7 1188.2 1282.4 TRUE FALSE FALSE 766.3018379 1049.022307 819.1632232 907.9203993 1295.779457 740.3339391 1195.520763 1497.393439 1179.931219 1337.69054 0.572854345 0.784204026 0.612371246 0.6787223 0.968669074 0.553441859 0.89371998 1.119387029 0.882065907 1 10.38552869 -4.389411485 3.776622306 0.769349008 1.117957825 0.349217517 0.150510681 0.254571937 5.742335659 0.025325992 0.186928334 4.08E-05 4.389411485 0.348608817 TASDTDSSYCIPTAGMS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 2 TASDTDSSYCIPTAGMSPSR 20 0 Q13480-2;B7Z3B9;Q13480 Q13480-2 GAB1 GRB2-associated-binding protein 1 1 0 TASDTDSSYCIPTAGMS(0.557)PS(0.443)R;TASDTDSSYCIPT(0.282)AGMS(0.696)PS(0.022)R ; 223.93 8.76E-27 12373600 1163.18 1680.12 1646.34 1157.57 1532.39 1545.23 1394.59 1443.9 1504.29 1353.01 TRUE FALSE FALSE 1285.528609 1734.55699 1870.694641 1179.976441 1414.978609 1413.567711 1237.667063 1406.967129 1493.821523 1411.344883 0.91085363 1.229010012 1.325469532 0.836065271 1.002574655 1.001574972 0.876941617 0.996898169 1.058438332 1 10.46285486 -3.310214775 16.29994833 0.991760409 0.993334542 0 0.147096192 0 0 0.019683272 0 0.000489537 3.310214775 0.001574133 TASESISNLSEAGS(ph)IK ddPTM_HeLa_SAHA_4h_R1 4 TASESISNLSEAGSIK 16 0 F5H1T5;F5H6A0;J3KP58;P30622-2;P30622-1;P30622 F5H1T5 CLIP1 CAP-Gly domain-containing linker protein 1 1 0 TASES(0.001)IS(0.027)NLS(0.406)EAGS(0.565)IK;TASESISNLS(0.008)EAGS(0.992)IK;TASESISNLSEAGS(1)IK;TASESISNLSEAGS(1)IK ;;; 221.34 6.80E-21 180444000 11781.1 15016.1 11423.9 13556.5 15057.1 16424.4 15397.4 13907.8 20312.6 14722.8 TRUE FALSE FALSE 13020.29015 15502.63149 12980.6896 13818.90566 13903.42825 15024.94872 13664.84403 13552.05861 20171.24296 15357.57196 0.847809158 1.009445473 0.845230589 0.899810575 0.905314218 0.978341417 0.889778935 0.882434974 1.313439586 1 13.90666252 -9.571153916 1.335754493 1.00025291 0.901926707 0.273428103 0.111965366 0.393404424 1.252989304 0.034949966 0.008100792 2.68E-10 9.571153916 -0.098326203 TASET(ph)RSEGS(ph)EYEEIPK ddPTM_HeLa_SAHA_4h_R1 1 TASETRSEGSEYEEIPK 17 1 P48634 P48634 PRRC2A Protein PRRC2A 2 0 T(0.065)AS(0.116)ET(0.816)RS(0.466)EGS(0.534)EY(0.003)EEIPK 127.49 0.0015912 9827900 1960.1 1903.5 1479.9 1726.7 1521.9 1867.7 1831.2 1393.4 2031 1941.5 TRUE FALSE FALSE 2166.272311 1965.174649 1681.573065 1760.122775 1405.292351 1708.561453 1625.148557 1357.758846 2016.866106 2025.207566 1.069654463 0.970357153 0.830321342 0.869107347 0.693900405 0.843647575 0.802460243 0.670429475 0.995881182 1 10.98385406 -6.68474676 1.618512868 1.033761464 0.772434662 0.781207471 0.059192589 0.111872424 0.595528558 0.01001902 0.015116593 2.07E-07 6.68474676 -0.261326801 TASETRS(ph)EGSEY(ph)EEIPK ddPTM_HeLa_SAHA_4h_R1 1 TASETRSEGSEYEEIPK 17 1 P48634 P48634 PRRC2A Protein PRRC2A 2 0 TASET(0.003)RS(0.724)EGS(0.323)EY(0.95)EEIPK 116.86 0.0080651 9742300 1603 1260.3 1490.6 1508.2 1740 1916.6 1665.7 1289.3 1704.5 1259.2 TRUE FALSE FALSE 1771.610895 1301.134547 1693.731205 1537.393392 1606.681576 1753.294898 1478.271052 1256.321573 1692.638246 1313.490274 1.348781129 0.99059321 1.289488958 1.170464237 1.223215434 1.334836604 1.125452606 0.956475733 1.288656855 1 10.3591898 -4.317512598 4.004713598 1.179447207 0.947283169 0.258867418 0.121415678 0.28144051 8.265357513 0.020006329 0.164523526 4.81E-05 4.317512598 -0.232164038 TASGSSVT(ph)SLDGTR ddPTM_HeLa_SAHA_4h_R1 1 TASGSSVTSLDGTR 14 0 E5RJY1;E7ESM1;Q92597-3;Q92597-2;Q92597 E5RJY1 NDRG1 Protein NDRG1 1 0 TASGS(0.002)S(0.008)VT(0.495)S(0.495)LDGTR 153.81 8.06E-05 7520200 1709.3 2089.4 1779.3 1250.7 1961.3 2521.2 2103.9 1588 1855.9 2030.4 TRUE FALSE FALSE 1889.092017 2157.097931 2021.773738 1274.909107 1811.025618 2306.379576 1867.163635 1547.381259 1842.984641 2117.940481 0.891947642 1.018488456 0.954594218 0.601957004 0.85508806 1.0889728 0.881594007 0.730606584 0.870177731 1 11.04844633 TASGSSVTS(ph)LDGTR ddPTM_HeLa_SAHA_4h_R1 1 TASGSSVTSLDGTR 14 0 E5RJY1;E7ESM1;Q92597-3;Q92597-2;Q92597 E5RJY1 NDRG1 Protein NDRG1 1 0 T(0.001)AS(0.001)GS(0.003)S(0.01)VT(0.11)S(0.874)LDGT(0.001)R 108.97 0.002471 16773000 1135.6 1138.4 1079.3 898.72 1070.7 1395.8 1127.8 1128.5 1564.9 1156 TRUE FALSE FALSE 1255.047618 1175.284907 1226.381383 916.1160252 988.6631973 1276.869987 1000.896976 1099.634604 1554.009733 1205.840817 1.040807045 0.97466008 1.017034227 0.75973214 0.819895282 1.058904268 0.830040716 0.911923521 1.288735388 1 10.23582375 -6.311891597 24.01726166 1.015551638 0.880573764 0.369149913 0.1143705 159.8431336 76091.34718 0.011287472 0.017241919 4.88E-07 6.311891597 -0.134977874 TASIS(ph)SSPSEGTPT(ph)VGSYGCTPQSLPK ddPTM_HeLa_SAHA_4h_R1 1 TASISSSPSEGTPTVGSYGCTPQSLPK 27 0 Q6PKG0;Q6PKG0-3 Q6PKG0 LARP1 La-related protein 1 2 0 T(0.074)AS(0.027)IS(0.401)S(0.164)S(0.221)PS(0.076)EGT(0.114)PT(0.876)VGS(0.029)Y(0.016)GCT(0.001)PQSLPK 77.175 5.81E-05 4854500 1753.9 1535.1 1366.9 1628.8 1525.2 1900.1 1703.8 1583.2 1777.6 1820.3 TRUE FALSE FALSE 1938.383249 1584.838247 1553.174013 1660.327779 1408.339506 1738.20079 1512.08394 1542.704036 1765.229537 1898.782041 1.02085611 0.834660436 0.81798436 0.874417254 0.741706776 0.91542934 0.796344134 0.812470311 0.929664121 1 10.89085859 -7.257471765 21.46433086 1.009848733 0.827881479 0.659572701 0.050279254 13.50072427 73036.62699 0.006591429 0.007899812 5.53E-08 7.257471765 -0.181967254 TASIS(ph)SSPSEGTPTVGSYGCTPQSLPK ddPTM_HeLa_SAHA_4h_R1 1 TASISSSPSEGTPTVGSYGCTPQSLPK 27 0 Q6PKG0;Q6PKG0-3 Q6PKG0 LARP1 La-related protein 1 1 0 T(0.116)AS(0.025)IS(0.671)S(0.178)S(0.011)PSEGTPTVGSYGCTPQSLPK 129.93 3.13E-09 5615700 2768.5 2578.6 2430.4 3296.6 2655.2 3472.9 3329.6 3329.8 2841.6 2851.4 TRUE FALSE FALSE 3059.703532 2662.148332 2761.602255 3360.41046 2451.75915 3176.989382 2954.944645 3244.628537 2821.825074 2974.337808 1.028700749 0.895038998 0.928476331 1.129801212 0.824304201 1.068133341 0.993479838 1.090874254 0.948723802 1 11.53835279 -3.154117349 10.79266175 1.002283227 1.00181017 0 0.089844293 0 0 0.010440948 0 0.000701266 3.154117349 -0.000473056 TASISS(ph)SPSEGTPTVGSYGCT(ph)PQSLPK ddPTM_HeLa_SAHA_4h_R1 1 TASISSSPSEGTPTVGSYGCTPQSLPK 27 0 Q6PKG0;Q6PKG0-3 Q6PKG0 LARP1 La-related protein 1 2 0 T(0.073)AS(0.025)IS(0.086)S(0.395)S(0.395)PS(0.026)EGT(0.021)PT(0.041)VGS(0.07)Y(0.008)GCT(0.793)PQS(0.066)LPK 57.417 0.006737 7564000 1620.1 1383.4 1157.3 1200.7 1412.5 1597.7 1460.7 1543.2 1364.7 1486.3 TRUE FALSE FALSE 1790.509551 1428.223068 1315.010817 1223.941285 1304.274555 1461.566972 1296.338192 1503.727179 1355.202942 1550.381667 1.154883078 0.921207402 0.848185221 0.789445148 0.841260306 0.942714302 0.836141332 0.96990774 0.874109241 1 10.5984077 -7.093610454 5.114347475 1.072736795 0.868916072 0.25591913 0.087148044 0.107819782 4.538909567 0.012366706 0.01527869 8.06E-08 7.093610454 -0.203820723 TASISSS(ph)PSEGTPTVGSYGCTPQSLPK ddPTM_HeLa_SAHA_4h_R1 1 TASISSSPSEGTPTVGSYGCTPQSLPK 27 0 Q6PKG0;Q6PKG0-3 Q6PKG0 LARP1 La-related protein 1 1 0 T(0.008)AS(0.002)IS(0.029)S(0.147)S(0.769)PS(0.038)EGT(0.007)PTVGSYGCTPQSLPK 154.88 2.61E-10 4269700 1863.2 2111.2 1468.2 1848.2 2226.7 2178.1 2120.7 1999.6 2403.7 2058.7 TRUE FALSE FALSE 2059.179925 2179.604265 1668.27865 1883.974584 2056.090727 1992.513626 1882.073255 1948.453127 2386.972456 2147.460632 0.958890652 1.014968206 0.77686111 0.877303432 0.957452116 0.927846405 0.876418048 0.907328916 1.11153258 1 11.06841597 -6.812347046 24.99999998 0.982623434 0.891301167 0.493860058 0.061653406 68.38063402 33580.43774 0.007667009 0.010076433 1.54E-07 6.812347046 -0.091322267 TASPPGPPPYGK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 TASPPGPPPYGKR 13 1 P54259 P54259 ATN1 Atrophin-1 0 1 TASPPGPPPYGK(1)R 83.081 0.018896 3066500 502.24 569.52 622.74 814.67 947.58 1612.8 1074.7 989.73 577.47 595.12 FALSE TRUE FALSE 555.0679076 587.9728217 707.6037641 830.4391159 874.9766251 1475.380367 953.7719275 964.4141397 573.4513393 620.7785356 0.894148035 0.947153917 1.139865062 1.337738128 1.40948273 2.376661373 1.536412541 1.553555873 0.923761545 1 9.277934865 -5.944976303 1.508382428 0.953357168 1.786672744 0.693956199 0.237159437 0.153654087 0.699181154 0.036585999 0.079969215 1.14E-06 5.944976303 0.833315575 TASPST(ph)SSIDSATDTR ddPTM_HeLa_SAHA_4h_R1 1 TASPSTSSIDSATDTR 16 0 Q96P50-4;Q96P50-1;Q96P50 Q96P50-4 ACAP3 "Arf-GAP with coiled-coil, ANK repeat and PH domain-containing protein 3" 1 0 T(0.198)AS(0.13)PS(0.198)T(0.471)S(0.004)SIDSATDTR 156.72 1.89E-05 5544000 885.86 870.19 1046.3 829.02 859.13 1195 996.82 702.92 762.41 1027.1 TRUE FALSE FALSE 979.0388193 898.384727 1188.884315 845.0668809 793.303645 1093.179277 884.6551901 684.9403242 757.1043267 1071.383308 0.91380817 0.838527837 1.10967224 0.788762411 0.740448017 1.020343764 0.825713061 0.639304644 0.706660559 1 10.06525901 -2.198673443 0.27365894 0.974999006 1.42E-28 0.064243653 0.138075453 22.57179083 0.513059452 0.051037499 9.258419731 0.006328876 2.198673443 -0.974999006 TASPSTS(ph)SIDSATDTR ddPTM_HeLa_SAHA_4h_R1 1 TASPSTSSIDSATDTR 16 0 Q96P50-4;Q96P50-1;Q96P50 Q96P50-4 ACAP3 "Arf-GAP with coiled-coil, ANK repeat and PH domain-containing protein 3" 1 0 TASPS(0.003)T(0.075)S(0.461)S(0.461)IDSATDTR 119.54 0.00074417 3967000 789.63 911.98 654.61 822.77 849.83 1263.7 1087.3 1372 1244.8 898.38 TRUE FALSE FALSE 872.6869064 941.5287504 743.8168417 838.6959031 784.716209 1156.025651 964.9541424 1336.906227 1236.137335 937.1135584 0.931249899 1.00471148 0.793731811 0.894977877 0.837375793 1.233602524 1.029708869 1.426621368 1.319090226 1 9.872080072 -3.428647238 0.893207822 0.948693375 2.90650497 0.385749406 0.157111919 3.730663891 0.752460157 0.01588789 10.19808896 0.000372694 3.428647238 1.957811596 TASRPDDIPDS(ph)PSSPK ddPTM_HeLa_SAHA_4h_R1 2 TASRPDDIPDSPSSPK 16 1 Q5VZK9;Q5VZK9-2;A0A0U1RQQ1 Q5VZK9 LRRC16A Leucine-rich repeat-containing protein 16A 1 0 TASRPDDIPDS(0.761)PS(0.238)SPK;TASRPDDIPDS(0.973)PS(0.027)SPK ; 263.07 9.90E-47 12484800 2085.04 2499.4 2232.9 1785.69 2142.9 2747 2088.97 1752.5 1899.88 2583.7 TRUE FALSE FALSE 2304.354074 2580.3822 2537.187984 1820.254612 1978.711465 2512.940146 1853.913598 1707.673588 1886.65858 2695.095951 0.855017452 0.957436116 0.941409148 0.675395105 0.734189617 0.932412126 0.68788408 0.633622557 0.700033919 1 11.39612092 -6.27250764 24.27963455 0.93282469 0.741388683 0.305950365 0.109913908 301.7351704 661893.6879 0.014055693 0.021601489 5.34E-07 6.27250764 -0.191436007 TASTPT(ph)PPQTGGGLEPQANGETPQVAVIVRPDDR ddPTM_HeLa_SAHA_4h_R1 1 TASTPTPPQTGGGLEPQANGETPQVAVIVRPDDR 34 1 Q04637-9;Q04637;E7EX73;E9PGM1;Q04637-3;Q04637-8;E7EUU4;Q04637-7;Q04637-4;Q04637-5;Q04637-6;C9JF13;C9J6B6;C9JSU8;C9J556;C9K073;C9J2Z7;C9JWW9;C9JWH7 Q04637-9 EIF4G1 Eukaryotic translation initiation factor 4 gamma 1 1 0 T(0.002)AS(0.029)T(0.127)PT(0.439)PPQT(0.398)GGGLEPQANGET(0.004)PQVAVIVRPDDR 94.019 6.43E-11 121900000 823.26 802.02 806.86 714.15 609.11 771.92 908.1 781.4 693.44 787.86 TRUE FALSE FALSE 909.8542641 828.0059742 916.8146789 727.9734059 562.4401234 706.1480733 805.918198 761.4129195 688.6142946 821.8285003 1.107109651 1.007516743 1.115579076 0.885797226 0.684376513 0.859240186 0.980640362 0.926486389 0.837905103 1 9.682693553 -6.184471157 6.445956595 1.052261465 0.86149677 0.299740781 0.103836248 0.145706806 10.08119942 0.01297767 0.021610814 6.54E-07 6.184471157 -0.190764695 TASTPTPPQT(ph)GGGLEPQANGETPQVAVIVRPDDR ddPTM_HeLa_SAHA_4h_R1 3 TASTPTPPQTGGGLEPQANGETPQVAVIVRPDDR 34 1 Q04637-9;Q04637;E7EX73;E9PGM1;Q04637-3;Q04637-8;E7EUU4;Q04637-7;Q04637-4;Q04637-5;Q04637-6;C9JF13;C9J6B6;C9JSU8;C9J556;C9K073;C9J2Z7;C9JWW9;C9JWH7 Q04637-9 EIF4G1 Eukaryotic translation initiation factor 4 gamma 1 1 0 TAS(0.004)T(0.011)PT(0.208)PPQT(0.717)GGGLEPQANGET(0.059)PQVAVIVRPDDR;T(0.001)AS(0.004)T(0.01)PT(0.054)PPQT(0.534)GGGLEPQANGET(0.397)PQVAVIVRPDDR;T(0.006)AS(0.041)T(0.109)PT(0.33)PPQT(0.507)GGGLEPQANGET(0.007)PQVAVIVRPDDR ;; 65.765 0.0001019 438030000 3655.41 3747.6 3493.4 4021.1 4002.8 4081.3 3743.5 3797.2 3561.7 3280.6 TRUE FALSE FALSE 4039.902795 3869.024699 3969.462359 4098.934205 3696.106329 3733.550279 3322.271528 3700.073122 3536.91384 3422.042721 1.180552999 1.130618468 1.159968675 1.197803341 1.080087723 1.091029711 0.970844551 1.081246911 1.033567997 1 11.74064206 -4.915920738 8.230613724 1.10398998 1.026269497 0.211892624 0.063991771 0.391551045 33.82382583 0.011324268 0.034208691 1.21E-05 4.915920738 -0.077720482 TATAVAHCK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 TATAVAHCKR 10 1 M0R210;P62249;M0R1M5;M0R3H0;Q6IPX4 M0R210 RPS16 40S ribosomal protein S16 0 1 ; TATAVAHCK(1)R;TATAVAHCK(1)R 79.07 0.015259 950540 903.14 914.62 970.5 1049.22 929.4 829.42 1446.41 542.86 324.35 616.47 FALSE TRUE FALSE 998.136409 944.2542881 1102.754686 1069.52917 858.1895728 758.7487498 1283.65614 528.9744273 322.0928219 643.0490386 1.552193299 1.468401679 1.714884277 1.663215565 1.334563185 1.17992362 1.996202565 0.822603558 0.500883763 1 9.328784951 -9.23624504 0.901162097 0.990894316 1.487476652 0.360221868 0.34379127 0.607728856 0.861494814 0.202400117 0.052072646 5.80E-10 9.23624504 0.496582335 TATCHSSSS(ph)PPIDAASAEPYGFR ddPTM_HeLa_SAHA_4h_R1 4 TATCHSSSSPPIDAASAEPYGFR 23 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 TATCHS(0.001)S(0.082)S(0.239)S(0.678)PPIDAASAEPYGFR;T(0.001)AT(0.001)CHS(0.003)S(0.202)S(0.194)S(0.599)PPIDAASAEPYGFR;TATCHS(0.001)S(0.002)S(0.05)S(0.947)PPIDAASAEPYGFR;T(0.001)AT(0.001)CHS(0.014)S(0.059)S(0.264)S(0.66)PPIDAASAEPYGFR ;;; 86.32 0.00028756 136526500 2828.62 3549.32 2666.2 3177.32 3963.33 4823.58 3954.4 3434.5 3803.82 3984.98 TRUE FALSE FALSE 3126.14723 3664.320297 3029.535851 3238.821623 3659.660512 4412.583847 3509.440505 3346.650463 3777.348907 4156.79199 0.752057653 0.88152602 0.728815841 0.779163747 0.880405014 1.061535881 0.844266567 0.805104146 0.908717327 1 12.02125484 -4.523242319 24.99980433 0.874260171 0.814894693 0.044785474 0.098684972 35.51751535 2442563.813 0.016718548 0.063879308 3.00E-05 4.523242319 -0.059365479 TATDS(ph)DERIDDEIDTEVEETQEEK ddPTM_HeLa_SAHA_4h_R1 1 TATDSDERIDDEIDTEVEETQEEK 24 1 A0A0C4DGZ1;Q8N5P1 A0A0C4DGZ1 ZC3H8 Zinc finger CCCH domain-containing protein 8 1 0 T(0.031)AT(0.158)DS(0.725)DERIDDEIDT(0.084)EVEET(0.002)QEEK 75.184 0.0003921 2694400 437.1 449.67 398.96 525.36 498.77 610.74 442.05 394.41 508.67 331.82 TRUE FALSE FALSE 483.0761835 464.239603 453.3281911 535.5291025 460.5543504 558.7015161 392.3093706 384.3215633 505.1301241 346.1263841 1.395664144 1.341243038 1.309718681 1.547206821 1.330595908 1.614154661 1.133428102 1.110350383 1.459380583 1 8.435155107 -9.24250374 0.822022661 0.983768587 1.356908047 0 0.204322938 0.517458328 0.58567461 0.124973685 0.029154822 5.72E-10 9.24250374 0.37313946 TATESFASDPILYRPVAVALDTK ddPTM_HeLa_SAHA_4h_R1 3 TATESFASDPILYRPVAVALDTK 23 1 P14618;P14618-3;P14618-2;H3BTN5;H3BQ34;H3BUW1;H3BTJ2;H3BT25 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;; ;; 178.1 7.76E-21 213490050 2236.92 2412.92 1933.13 2778.8 2383.86 3062.93 3111.59 2472.73 3319.29 2662.59 FALSE FALSE TRUE 2472.209509 2491.100191 2196.566889 2832.587692 2201.209162 2801.951132 2761.465704 2409.481147 3296.190791 2777.387285 0.890120554 0.896922156 0.790875259 1.01987494 0.792546712 1.008844228 0.994267425 0.867535169 1.186795521 1 11.43951265 -9.288647195 1.026254944 0.999747876 0.908766594 0.271280011 0.098047185 0.742444053 1.406704178 0.048494278 0.013195069 5.14E-10 9.288647195 -0.090981282 TATESFASDPILYRPVAVALDTKGPEIR ddPTM_HeLa_SAHA_4h_R1 1 TATESFASDPILYRPVAVALDTKGPEIR 28 2 P14618;P14618-3;P14618-2;H3BTN5;H3BQ34;H3BUW1;H3BTJ2;H3BT25 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 84.125 3.57E-05 4473600 1307.1 829.82 1211 1176.6 1042.7 908.1 1424.3 837.21 733.26 1292.8 FALSE FALSE TRUE 1444.586775 856.7067125 1376.028773 1199.374794 962.8085513 830.7247712 1264.034015 815.7953805 728.157184 1348.538935 1.071223632 0.635285115 1.020384905 0.889388332 0.713964222 0.616018381 0.937335944 0.604947591 0.539960075 1 10.39718146 -6.580569755 0.683244306 1.034089372 0.722623764 0 0.210779462 0.479019157 0.451296516 0.032037373 0.062715129 2.63E-07 6.580569755 -0.311465608 TATNNASSSCQST(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 TATNNASSSCQSTPR 15 0 Q92833-2;Q92833-3;Q92833 Q92833-2 JARID2 Protein Jumonji 1 0 TATNNAS(0.001)S(0.002)S(0.008)CQS(0.213)T(0.777)PR 142.19 0.00022408 822150 71.949 181.15 0 208.76 237.49 230.28 149.51 283.6 145.16 125.61 TRUE FALSE FALSE 79.51692593 187.0193789 0 212.8008517 219.2935675 210.6588485 132.6867413 276.3459226 144.1498197 131.0256618 0.606880552 1.42734924 0 1.624115831 1.673668841 1.607767864 1.012677513 2.109097705 1.10016479 1 7.033705586 -6.165583259 24.99999997 0.80980976 1.576455287 0.454370466 0.425801198 33.0402711 8614.354027 0.057930908 0.096067547 6.83E-07 6.165583259 0.766645527 TATPPGYKPGS(ph)PPSFR ddPTM_HeLa_SAHA_4h_R1 1 TATPPGYKPGSPPSFR 16 1 P54259 P54259 ATN1 Atrophin-1 1 0 TAT(0.003)PPGY(0.003)KPGS(0.604)PPS(0.391)FR 70.02 0.01415 16480000 2878.5 2553.4 2608.3 2849.1 3206.8 3521.9 3588.3 3008.8 2986.1 2915.4 TRUE FALSE FALSE 3181.273837 2636.131835 2963.745541 2904.24845 2961.095677 3221.814306 3184.53504 2931.839253 2965.319487 3041.097162 1.046094113 0.866835782 0.974564568 0.955000217 0.973693216 1.059424982 1.04716649 0.964072865 0.975082126 1 11.5703762 TATPQQAQEVHEK ddPTM_HeLa_SAHA_4h_R1 5 TATPQQAQEVHEK 13 0 P60174;P60174-3;P60174-4;U3KPZ0 P60174 TPI1 Triosephosphate isomerase 0 0 ;;;; ;;;; 164.64 9.15E-08 44188000 8502.53 8929.28 10360.28 11083.72 9034.61 10048.73 10420.01 10900.05 9910.46 9654.95 FALSE FALSE TRUE 9396.865116 9218.594531 11772.125 11298.26143 8342.380134 9192.521671 9247.523051 10621.2425 9841.492302 10071.22214 0.933041192 0.915340204 1.168887433 1.121836185 0.82833841 0.912751356 0.918212598 1.05461307 0.977189477 1 13.29795114 -4.230399029 22.04011921 0.972299897 1.054613758 0.05659596 0.096840588 5889.798658 4181690.746 0.013621296 1.731010107 5.88E-05 4.230399029 0.08231386 TATSLPVVNFGS(ph)PLR ddPTM_HeLa_SAHA_4h_R1 2 TATSLPVVNFGSPLR 15 0 Q96T17-2;Q96T17;Q96T17-5;Q96T17-4 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 TATSLPVVNFGS(1)PLR;TATSLPVVNFGS(1)PLR ; 117.48 0.00095382 7823800 1212.5 1007.84 888.61 1126.7 1150.33 1332.02 1034.63 1322.75 1311.49 1264.21 TRUE FALSE FALSE 1340.036313 1040.494677 1009.705143 1148.508908 1062.191964 1218.524402 918.2107094 1288.91597 1302.363234 1318.71628 1.016167263 0.789020878 0.765672767 0.870929498 0.805474218 0.924023174 0.696291328 0.977402031 0.987599269 1 10.36491849 -7.267598912 24.89455875 1.007634545 0.828801255 0.509935949 0.075582683 227.20832 918291.0496 0.011316817 0.013115883 5.40E-08 7.267598912 -0.17883329 TATSLPVVNFGS(ph)PLRR ddPTM_HeLa_SAHA_4h_R1 2 TATSLPVVNFGSPLRR 16 1 Q96T17-2;Q96T17;Q96T17-5;Q96T17-4 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 TATSLPVVNFGS(1)PLRR;TATSLPVVNFGS(1)PLRR ; 167.97 6.29E-07 71407000 4878.3 4573.2 4711.1 5729.6 4847 5286 4935.1 6202.4 5333.4 4459.3 TRUE FALSE FALSE 5391.421976 4721.374681 5353.104174 5840.504693 4475.623907 4835.603062 4379.78956 6043.751589 5296.284435 4651.562246 1.159056182 1.015008384 1.150818562 1.255600674 0.962176505 1.039565377 0.94157389 1.299295004 1.138603367 1 12.18349962 -4.236958022 23.54755705 1.073006853 1.299295606 0.336290931 0.095117144 3040.892457 2924803.9 0.013607035 1.050224791 5.79E-05 4.236958022 0.226288753 TAVAPSAVNLADPRT(ph)PTAPAVNLAGAR ddPTM_HeLa_SAHA_4h_R1 1 TAVAPSAVNLADPRTPTAPAVNLAGAR 27 1 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 TAVAPS(0.003)AVNLADPRT(0.933)PT(0.064)APAVNLAGAR 75.524 0.00018878 6655700 1109.2 1068.6 957.99 1166 1056.9 1238.7 1176.3 1088.5 1267.1 1003.5 TRUE FALSE FALSE 1225.870745 1103.223341 1088.539888 1188.569616 975.9205503 1133.155791 1043.939628 1060.657746 1258.282148 1046.765796 1.171103173 1.053935222 1.039907773 1.135468527 0.932319869 1.082530396 0.997300095 1.013271307 1.202066549 1 10.03172297 -5.773883112 24.99996031 1.080450717 1.011149661 0.287969502 0.068088206 299.3379412 601382.1694 0.0106747 0.019448549 1.68E-06 5.773883112 -0.069301056 TAVDSGIPLLTNFQVTK ddPTM_HeLa_SAHA_4h_R1 1 TAVDSGIPLLTNFQVTK 17 0 P31327;P31327-3;P31327-2 P31327 CPS1 "Carbamoyl-phosphate synthase [ammonia], mitochondrial" 0 0 120.53 0.0048286 0 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 TAVIPINGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 TAVIPINGSPR 11 0 A0A3B3IS71;P06400 A0A3B3IS71 RB1 Retinoblastoma-associated protein 1 0 TAVIPINGS(1)PR;TAVIPINGS(1)PR;TAVIPINGS(1)PR ;; 106.54 0.005014 64037200 6025.52 6560.02 5728.36 6963.4 6977.47 7928.5 6703.82 7397.05 6350.37 6280.95 TRUE FALSE FALSE 6659.31184 6772.568952 6508.991069 7098.186676 6442.857756 7252.947195 5949.48853 7207.844172 6306.177258 6551.752493 1.016416882 1.033703419 0.993473285 1.083402751 0.983379296 1.107023991 0.908075898 1.100139876 0.962517626 1 12.67766514 -8.054621657 0.630726942 1.00128921 1.028202182 0.076324375 0.05804639 1.960406743 1.761446175 0.021902125 0.013961469 8.82E-09 8.054621657 0.026912972 TAVPS(ph)PVEAAAASDPAAAR ddPTM_HeLa_SAHA_4h_R1 4 TAVPSPVEAAAASDPAAAR 19 0 Q147X3;Q147X3-2;J3KNC2 Q147X3 NAA30 N-alpha-acetyltransferase 30 1 0 T(0.023)AVPS(0.977)PVEAAAASDPAAAR;T(0.001)AVPS(0.999)PVEAAAASDPAAAR;T(0.006)AVPS(0.993)PVEAAAAS(0.001)DPAAAR;TAVPS(0.993)PVEAAAAS(0.007)DPAAAR ;;; 142.72 7.99E-05 38548200 5489.3 5714.11 5144.64 5077.48 6756.5 6810.2 5865.37 5859 5920.5 5636.7 TRUE FALSE FALSE 6066.68976 5899.250913 5845.724747 5175.761968 6238.81843 6229.932647 5205.383131 5709.135264 5879.298758 5879.725722 1.031798088 1.003320766 0.994217251 0.880272688 1.061073037 1.059561779 0.885310536 0.970986664 0.999927384 1 12.52153314 -6.683136351 3.871163047 1.014706091 0.973508988 0.080109313 0.057044224 0.414167706 12.12539213 0.009118923 0.012952498 2.07E-07 6.683136351 -0.041197103 TAVSVTQGGHS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 TAVSVTQGGHSR 12 0 P40425 P40425 PBX2 Pre-B-cell leukemia transcription factor 2 1 0 TAVSVTQGGHS(1)R;TAVSVTQGGHS(1)R ; 107.13 0.0028991 6816600 3789.3 5017.8 2441.4 5098.1 6539 8731.3 5642.2 6050.5 5495.6 5345.7 TRUE FALSE FALSE 4187.87596 5180.380012 2774.101278 5196.781097 6037.983233 7987.344119 5007.324807 5895.736971 5457.355672 5576.179288 0.751029647 0.929019629 0.497491407 0.931960905 1.08281727 1.432404467 0.897984901 1.057307641 0.978690854 1 12.44506123 -5.802305526 4.184926069 0.852624388 1.127007031 0.349755732 0.182582103 0.196125121 7.353241033 0.027921097 0.053589464 1.58E-06 5.802305526 0.274382643 TAVVVGTITDDVR ddPTM_HeLa_SAHA_4h_R1 3 TAVVVGTITDDVR 13 0 G3V203;H0YHA7;J3QQ67;Q07020-2;Q07020;F8VUA6;F8VYV2;A0A075B7A0 G3V203 RPL18 60S ribosomal protein L18 0 0 ;; ;; 193.3 5.25E-16 14272000 3569.03 3356.22 3321.91 3802.4 3801.8 4124.58 4586.4 3174.63 3583.2 3242.57 FALSE FALSE TRUE 3944.436951 3464.96373 3774.602595 3876.00095 3510.506905 3773.14258 4070.326201 3093.427561 3558.264219 3382.373061 1.166174422 1.024417965 1.115962824 1.14594129 1.037882824 1.11553117 1.203393631 0.914573143 1.052002294 1 11.72382008 -9.597017754 1.39499365 1.000054373 1.103846856 0.062952736 0.080357253 0.537987937 1.879897993 0.05194882 0.012054051 2.53E-10 9.597017754 0.103792484 TCDSITPSKS(ph)SPVPVSDTQK ddPTM_HeLa_SAHA_4h_R1 1 TCDSITPSKSSPVPVSDTQK 20 1 Q76FK4-2;Q76FK4-4;Q76FK4;F5GWN9;F8WE42;F5H101 Q76FK4-2 NOL8 Nucleolar protein 8 1 0 TCDSIT(0.004)PS(0.01)KS(0.722)S(0.245)PVPVS(0.008)DT(0.012)QK 70.615 0.0043196 15677000 3871.9 4045.4 3527.5 3760.3 4592.3 1987.1 4728.5 4627.2 3842.4 4500.1 TRUE FALSE FALSE 4279.164207 4176.473614 4008.20933 3833.086044 4240.438966 1817.787901 4196.436735 4508.842924 3815.660426 4694.121334 0.911600681 0.889724257 0.85387851 0.816571574 0.90335095 0.387247745 0.893977048 0.960529693 0.812859352 1 12.19663942 -7.046699565 0.635272123 0.979090957 0.77178609 0.062186632 0.156459348 0.749197639 0.643176786 0.040616354 0.056657749 8.98E-08 7.046699565 -0.207304867 TCDSITPSKSS(ph)PVPVSDTQK ddPTM_HeLa_SAHA_4h_R1 1 TCDSITPSKSSPVPVSDTQK 20 1 Q76FK4-2;Q76FK4-4;Q76FK4;F5GWN9;F8WE42;F5H101 Q76FK4-2 NOL8 Nucleolar protein 8 1 0 TCDSIT(0.001)PS(0.006)KS(0.039)S(0.954)PVPVSDTQK 111.99 0.00024789 16451000 3315.8 3254.2 2898.9 3609.7 3207.7 1546.7 3682.5 3538.4 3300.6 3097.8 TRUE FALSE FALSE 3664.571057 3359.638215 3293.946995 3679.570963 2961.926719 1414.912459 3268.135408 3447.892852 3277.630856 3231.361318 1.134064159 1.039697479 1.019368208 1.138706137 0.916618857 0.437868848 1.011380371 1.067009385 1.014318899 1 11.65792636 -5.541698836 11.40681112 1.062459971 0.826282001 0.274653498 0.162052893 0.47407027 284.0976722 0.023296589 0.046846487 2.87E-06 5.541698836 -0.236177969 TCEERPAEDGS(ph)DEEDPDSMEAPTR ddPTM_HeLa_SAHA_4h_R1 4 TCEERPAEDGSDEEDPDSMEAPTR 24 1 D6RGJ8;Q9H6Y2 D6RGJ8 WDR55 WD repeat-containing protein 55 1 0 T(0.002)CEERPAEDGS(0.996)DEEDPDS(0.001)MEAPT(0.001)R;T(0.003)CEERPAEDGS(0.976)DEEDPDS(0.019)MEAPT(0.002)R;TCEERPAEDGS(1)DEEDPDSMEAPTR;TCEERPAEDGS(0.903)DEEDPDS(0.095)MEAPT(0.002)R ;;; 132.37 2.62E-07 187967000 2985.43 3243.13 3281.59 3116.22 3550.52 4675.05 4099.48 3686.35 3346.84 3136.34 TRUE FALSE FALSE 3299.451225 3348.20954 3728.787995 3176.538944 3278.479925 4276.709439 3638.195721 3592.058505 3323.549068 3271.562966 1.008524445 1.023428121 1.139757368 0.970954549 1.002114267 1.307237392 1.112066544 1.097964044 1.015890295 1 11.67576432 -5.304702277 24.99760455 1.013391193 1.166387135 0.502665899 0.067585277 252.3623279 145816.3141 0.009255038 0.020695059 4.96E-06 5.304702277 0.152995942 TCEESSFCK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 TCEESSFCKR 10 1 Q14697;Q14697-2 Q14697 GANAB Neutral alpha-glucosidase AB 0 1 TCEESSFCK(1)R 147.2 1.74E-05 927720 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 TCFS(ph)PNRVIGLSSDLQQVGGASAR ddPTM_HeLa_SAHA_4h_R1 1 TCFSPNRVIGLSSDLQQVGGASAR 24 1 O00303 O00303 EIF3F Eukaryotic translation initiation factor 3 subunit F 1 0 T(0.238)CFS(0.762)PNRVIGLSSDLQQVGGASAR 86.761 9.23E-05 60292000 521.96 523.58 559.01 527.64 696.91 553.26 406.76 538.53 464.28 413.76 TRUE FALSE FALSE 576.8621476 540.5443355 635.1889716 537.8532352 643.5129064 506.1191354 360.9902943 524.7551824 461.0490377 431.5992185 1.336569027 1.252421952 1.471710199 1.246186768 1.490996459 1.17265999 0.83640164 1.215839047 1.068234181 1 8.753548442 -3.873718738 20.77428388 1.196057916 9.529019847 0 0.193153777 18450.82675 3287777.578 0.029036055 610269.4398 0.000133746 3.873718738 8.332961931 TCNS(ph)PQNSTDSVSDIVPDSPFPGALGSDTR ddPTM_HeLa_SAHA_4h_R1 4 TCNSPQNSTDSVSDIVPDSPFPGALGSDTR 30 0 Q14694;Q14694-3;Q14694-2 Q14694 USP10 Ubiquitin carboxyl-terminal hydrolase 10 1 0 T(0.212)CNS(0.778)PQNS(0.005)T(0.003)DS(0.001)VSDIVPDSPFPGALGSDTR;T(0.272)CNS(0.693)PQNS(0.033)T(0.002)DSVSDIVPDSPFPGALGSDTR;T(0.04)CNS(0.888)PQNS(0.067)T(0.003)DS(0.002)VSDIVPDSPFPGALGSDTR;T(0.07)CNS(0.846)PQNS(0.078)T(0.005)DS(0.001)VSDIVPDSPFPGALGSDTR ;;; 193.11 4.45E-23 84890000 6037.9 6098.5 5334.04 5912.32 6720.9 7423.8 7041 6660.3 6775.7 6565.9 TRUE FALSE FALSE 6672.994025 6296.095401 6060.935193 6026.761503 6205.946094 6791.250475 6248.728149 6489.93917 6728.547352 6848.988082 0.974303641 0.919273815 0.884938785 0.879949188 0.906111388 0.991569907 0.912357866 0.947576356 0.982414814 1 12.74167513 -7.371094553 2.912711253 0.989473628 0.919026766 0.496815095 0.030322199 0.162871325 2.571751645 0.005784872 0.006584915 4.26E-08 7.371094553 -0.070446862 TCNVLVALEQQS(ph)PDIAQGVHLDR ddPTM_HeLa_SAHA_4h_R1 2 TCNVLVALEQQSPDIAQGVHLDR 23 0 P31153-2;P31153 P31153-2 MAT2A S-adenosylmethionine synthase isoform type-2 1 0 TCNVLVALEQQS(1)PDIAQGVHLDR;TCNVLVALEQQS(1)PDIAQGVHLDR ; 124.39 5.67E-06 7402900 1876.53 2902.6 2201.32 2840.2 2805.5 3124.4 3158.5 2182.2 4210.4 2821.6 TRUE FALSE FALSE 2073.912035 2996.646144 2501.304426 2895.176178 2590.543196 2858.183543 2803.097267 2126.382484 4181.099484 2943.252985 0.704632611 1.018140867 0.849843503 0.983665418 0.880163278 0.971096796 0.952380676 0.722459977 1.42057088 1 11.52319584 TCPSLS(ph)PTSPLNNK ddPTM_HeLa_SAHA_4h_R1 3 TCPSLSPTSPLNNK 14 0 O75925;O75925-2 O75925 PIAS1 E3 SUMO-protein ligase PIAS1 1 0 T(0.001)CPS(0.001)LS(0.96)PT(0.03)S(0.008)PLNNK;TCPS(0.002)LS(0.882)PT(0.099)S(0.016)PLNNK;TCPS(0.026)LS(0.926)PT(0.042)S(0.006)PLNNK ;; 195.87 3.81E-09 17146200 1985.82 2161.42 1788.68 1975.86 2280.1 2648.4 2471.46 2385.44 1737.75 1794.78 TRUE FALSE FALSE 2194.697659 2231.451426 2032.431995 2014.105627 2105.399231 2422.741421 2193.364816 2324.423899 1725.656856 1872.161749 1.172279938 1.191911664 1.085607051 1.07581817 1.124581907 1.294087662 1.171568011 1.241572156 0.921745601 1 10.87048937 -13.52287875 0.170787373 0.30845075 1.216709646 0.627573063 0.064551211 35.29401102 0.392674199 8.152166798 0.10244113 3.00E-14 13.52287875 0.908258895 TCPSLSPT(ph)SPLNNK ddPTM_HeLa_SAHA_4h_R1 2 TCPSLSPTSPLNNK 14 0 O75925;O75925-2 O75925 PIAS1 E3 SUMO-protein ligase PIAS1 1 0 T(0.001)CPSLS(0.091)PT(0.566)S(0.343)PLNNK;TCPSLS(0.011)PT(0.494)S(0.494)PLNNK ; 189.99 2.67E-08 20176500 3398.2 3338.1 2993.2 3132.63 3411.8 3952.5 3901.8 3305.2 2526.94 2892.22 TRUE FALSE FALSE 3755.638267 3446.25663 3401.097708 3193.266584 3150.388621 3615.724764 3462.759195 3220.65777 2509.354819 3016.917758 1.244859346 1.142310433 1.12734187 1.058453309 1.044240802 1.198483039 1.147780441 1.067532504 0.831761095 1 11.55885965 -9.643690736 1.493776981 1.000453748 1.144912387 0.44334697 0.082226605 0.351987913 1.419070372 0.049748946 0.011426813 2.27E-10 9.643690736 0.144458639 TCS(ph)FGGFDLTNR ddPTM_HeLa_SAHA_4h_R1 1 TCSFGGFDLTNR 12 0 O94885;A0A1B0GWB9 O94885 SASH1 SAM and SH3 domain-containing protein 1 1 0 T(0.165)CS(0.834)FGGFDLT(0.001)NR 123.95 0.0013449 9988800 920.21 1042.8 1118.2 1036.3 934.33 741.99 990.48 1003 1039.6 1049.5 TRUE FALSE FALSE 1017.00191 1076.587404 1270.582473 1056.359085 862.7418373 678.7682777 879.0285836 977.3447123 1032.365339 1094.749081 0.928981743 0.983410192 1.160615245 0.964932607 0.788072675 0.620021783 0.802949825 0.892756824 0.943015488 1 10.09638452 -5.756227577 5.119909492 0.98369324 0.764614693 0.607285687 0.086709928 0.099096182 7.302528855 0.013208592 0.025729539 1.75E-06 5.756227577 -0.219078547 TDAEAT(ph)DTEATET ddPTM_HeLa_SAHA_4h_R1 1 TDAEATDTEATET 13 0 Q9Y3D3 Q9Y3D3 MRPS16 "28S ribosomal protein S16, mitochondrial" 1 0 T(0.002)DAEAT(0.997)DT(0.001)EATET 130.56 0.0012584 9652800 1323.7 1739.6 1097.7 765.98 1702.9 1564.6 1801 1127.7 1258.9 1422.8 TRUE FALSE FALSE 1462.932839 1795.964181 1247.288839 780.8066505 1572.42417 1431.287278 1598.34674 1098.855067 1250.139212 1484.143871 0.985708238 1.210101134 0.840409656 0.52609903 1.059482305 0.964385802 1.076948651 0.740396594 0.842330206 1 10.53541524 TDALTSS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 4 TDALTSSPGR 10 0 P49736;F8WDM3;C9J013;C9JZ21 P49736 MCM2 DNA replication licensing factor MCM2 1 0 TDALT(0.001)S(0.005)S(0.994)PGR;TDALT(0.016)S(0.18)S(0.804)PGR;TDALTS(0.003)S(0.997)PGR;TDALT(0.016)S(0.144)S(0.841)PGR ;;; 123.51 0.0025677 45107100 10317.7 15655 10052.1 13258.9 13814.1 17660.1 12520.3 12287.5 23326.4 14197.9 TRUE FALSE FALSE 11402.96303 16162.23227 11421.94784 13515.54518 12755.66664 16155.36013 11111.48289 11973.20354 23164.06968 14810.04095 0.769948109 1.091302335 0.771229997 0.91259337 0.861285035 1.090838316 0.750266858 0.808451751 1.564078706 1 13.85428801 -9.680351084 1.547146856 0.999962072 0.869146566 0.160523939 0.215173629 0.619337893 2.671527634 0.082078168 0.018305081 2.09E-10 9.680351084 -0.130815507 TDANESSSS(ph)PEIR ddPTM_HeLa_SAHA_4h_R1 1 TDANESSSSPEIR 13 0 Q96JM7-2;Q96JM7 Q96JM7-2 L3MBTL3 Lethal(3)malignant brain tumor-like protein 3 1 0 TDANES(0.001)S(0.001)S(0.042)S(0.957)PEIR 129.77 0.00075151 5691600 1442.7 1416.4 1475.2 1725.9 1559.6 1683 1467.6 1685.5 1733.2 1611.5 TRUE FALSE FALSE 1594.449805 1462.292289 1676.232573 1759.30729 1440.103785 1539.598932 1302.461785 1642.387351 1721.13852 1680.979651 0.948524156 0.869904813 0.997176005 1.046596423 0.856705067 0.915893854 0.774823053 0.97704178 1.023890157 1 10.71508655 -1.000000385 0.104445515 1.038971556 0.550442305 0.218288142 0.072055882 129.8694969 0.959895546 0.492647734 9.151784255 0.099999911 1.000000385 -0.488529251 TDASSASS(ph)FLDSDELER ddPTM_HeLa_SAHA_4h_R1 3 TDASSASSFLDSDELER 17 0 Q14498-2;Q14498;G3XAC6;Q14498-3;H0Y4X3;A0A0U1RQH7;A0A0U1RQW2 Q14498-2 RBM39 RNA-binding protein 39 1 0 TDASSAS(0.027)S(0.973)FLDSDELER;TDASSAS(0.064)S(0.933)FLDS(0.002)DELER;TDASS(0.007)AS(0.31)S(0.681)FLDS(0.002)DELER ;; 316.8 7.94E-103 16741200 2510.57 2173.25 2066.62 2226.31 2788.59 3272.69 2880.62 2655.27 2539.52 2538.26 TRUE FALSE FALSE 2774.643272 2243.664726 2348.248211 2269.403449 2574.928837 2993.8384 2556.485056 2587.352038 2521.847274 2647.696811 1.047945996 0.847402436 0.886902232 0.85712361 0.972516501 1.130733092 0.965550529 0.977208579 0.952468298 1 11.37052221 TDASSASSFLDS(ph)DELER ddPTM_HeLa_SAHA_4h_R1 2 TDASSASSFLDSDELER 17 0 Q14498-2;Q14498;G3XAC6;Q14498-3;H0Y4X3;A0A0U1RQH7;A0A0U1RQW2 Q14498-2 RBM39 RNA-binding protein 39 1 0 TDASSASSFLDS(1)DELER;TDASSASSFLDS(1)DELER ; 202.18 1.77E-15 4379200 499.2 662.51 424.27 584.2 460.59 796.34 686.88 631.78 767.42 493.91 TRUE FALSE FALSE 551.7081464 683.9757587 482.0873061 595.5080358 425.2996937 728.4873519 609.5904546 615.6199824 762.0794617 515.2048772 1.070851948 1.327580132 0.935719609 1.155866456 0.825496249 1.41397604 1.183200085 1.19490325 1.479177499 1 9.009002441 -1 0.141840346 0.975042678 1.865138196 0 0.216044431 100.5084536 0.938256379 0.39002918 18.26100029 0.1 1 0.890095518 TDATDGKDYNASAS(ph)TISPPSSMEEDKFSR ddPTM_HeLa_SAHA_4h_R1 1 TDATDGKDYNASASTISPPSSMEEDKFSR 29 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 TDAT(0.001)DGKDY(0.02)NAS(0.032)AS(0.315)T(0.315)IS(0.315)PPSSMEEDKFSR 43.633 0.015476 44344000 1168.7 1889 1434.3 1752.3 1746.7 1940 1501.3 1460 2147.9 1504.9 TRUE FALSE FALSE 1291.629228 1950.204839 1629.758934 1786.2183 1612.868223 1774.701086 1332.369773 1422.655314 2132.952589 1569.783604 0.822807185 1.242339922 1.038206114 1.137875498 1.027446216 1.130538682 0.848760154 0.906274795 1.358755808 1 10.61634998 -7.299897141 24.99935456 0.916325626 1.045275203 0 0.18013271 670.6045762 435922.7623 0.021255849 0.024307258 5.01E-08 7.299897141 0.128949578 TDATDGKDYNASAST(ph)ISPPSSMEEDKFSR ddPTM_HeLa_SAHA_4h_R1 1 TDATDGKDYNASASTISPPSSMEEDKFSR 29 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 TDATDGKDYNAS(0.004)AS(0.207)T(0.271)IS(0.271)PPS(0.114)S(0.114)MEEDKFS(0.017)R 45.912 0.01203 15668000 1785.2 1814.5 1286.1 1822.8 1938.4 2071.2 2090.1 1508.5 2109.9 1939.4 TRUE FALSE FALSE 1972.975527 1873.290991 1461.36301 1858.08293 1789.880211 1894.722108 1854.916447 1469.914754 2095.217034 2023.017025 0.975263926 0.925988742 0.722368123 0.918471227 0.884757858 0.936582384 0.916905999 0.726595345 1.035689274 1 10.98229275 -6.99825222 24.99801773 0.986335254 0.859254879 0.465983158 0.072485742 40.79051892 583403.963 0.011104714 0.014537809 1.00E-07 6.99825222 -0.127080374 TDATDGKDYNASASTIS(ph)PPSSMEEDKFSR ddPTM_HeLa_SAHA_4h_R1 1 TDATDGKDYNASASTISPPSSMEEDKFSR 29 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.001)DAT(0.004)DGKDY(0.055)NAS(0.043)AS(0.093)T(0.049)IS(0.747)PPS(0.003)S(0.003)MEEDKFS(0.003)R 43.24 0.016124 41701000 711.1 921.57 771.6 628.02 996.73 1091.2 872.72 772.3 1199.4 948.56 TRUE FALSE FALSE 785.8967606 951.4294727 876.7496297 640.1762352 920.3607627 998.2236211 774.5192487 752.5456843 1191.053278 989.4570637 0.794270706 0.961567215 0.886091637 0.646997489 0.930167459 1.008859967 0.782771964 0.760564265 1.203744277 1 9.950493294 -9.448834036 1.036241935 1.005244549 0.845609264 0.356326086 0.12096185 0.67610736 1.227298968 0.083439641 0.018151407 3.56E-10 9.448834036 -0.159635285 TDCEPVGLEPAVEQSSAASELAEASSEELAEAPTEAPS(ph)PEAR ddPTM_HeLa_SAHA_4h_R1 2 TDCEPVGLEPAVEQSSAASELAEASSEELAEAPTEAPSPEAR 42 0 Q15424-2;Q15424;Q15424-4;Q15424-3;Q14151 Q15424-2;Q14151 SAFB;SAFB2 Scaffold attachment factor B1;Scaffold attachment factor B2 1 0 TDCEPVGLEPAVEQSSAASELAEASSEELAEAPTEAPS(1)PEAR;TDCEPVGLEPAVEQSSAASELAEASSEELAEAPTEAPS(1)PEAR ; 120.77 2.06E-22 8226400 1123.21 1601.69 1388.07 1672.89 1542.44 1775.45 1610.08 1542.63 2008.11 1612.26 TRUE FALSE FALSE 1241.354381 1653.585807 1577.228951 1705.271205 1424.25858 1624.171672 1428.909561 1503.171758 1994.135399 1681.772419 0.73812269 0.983239937 0.937837328 1.013972631 0.846879497 0.965749975 0.84964502 0.893802123 1.185734393 1 10.71576677 TDCSSGDASRPSSDNADS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 TDCSSGDASRPSSDNADSPK 20 1 E9PMR6;Q9NZN5-2;Q9NZN5 E9PMR6 ARHGEF12 Rho guanine nucleotide exchange factor 12 1 0 TDCSSGDASRPSSDNADS(1)PK 92.518 0.00068458 3517900 332.67 444.88 471.64 323.34 442.83 383.01 404.34 258.38 299.51 294.01 TRUE FALSE FALSE 367.6617569 459.2944039 535.912643 329.5987133 408.9004611 350.3753932 358.842599 251.7710137 297.4256855 306.68621 1.198820635 1.497603704 1.747429867 1.074709924 1.333286101 1.14245565 1.170064344 0.820940119 0.969804562 1 8.260619488 -2.978982285 14.09299609 1.170371721 1.12651109 0 0.258595059 0 0 0.035145506 0 0.001049585 2.978982285 -0.043860631 TDDEVVQREEEAIQLDGLNASQIR ddPTM_HeLa_SAHA_4h_R1 2 TDDEVVQREEEAIQLDGLNASQIR 24 1 P14625;Q96GW1;A0A1W2PRR1 P14625 HSP90B1 Endoplasmin 0 0 ; ; 181.51 1.55E-11 14694500 683.38 924.04 1009.04 1020.13 960.79 1109.42 1103.94 1126.58 1009.19 808.06 FALSE FALSE TRUE 755.2610439 953.9795023 1146.546716 1039.876091 887.1744778 1014.891175 979.7217658 1097.763715 1002.166965 842.8994211 0.89602748 1.131783316 1.360241433 1.233689412 1.052527093 1.204047777 1.162323453 1.302366199 1.188952014 1 9.719216682 -7.107607178 4.710396392 0.9515731 1.211597314 0.310489667 0.110080516 0.099098451 3.512872035 0.014317023 0.017697613 7.81E-08 7.107607178 0.260024214 TDDQENVSADAPS(ph)PAQENGEKGEFHK ddPTM_HeLa_SAHA_4h_R1 1 TDDQENVSADAPSPAQENGEKGEFHK 26 1 J3KTP5;J3KRH7;J3KS48;J3KT43;E9PH27;E7EP87;A0A088AWN8;Q9UHQ1;Q9UHQ1-2 J3KTP5 NARF Nuclear prelamin A recognition factor 1 0 TDDQENVSADAPS(1)PAQENGEKGEFHK 100.85 2.18E-06 5262000 1262.5 1263.2 1020.3 1140.5 1019.3 1045.3 1289.3 1352.9 1059.3 1180 TRUE FALSE FALSE 1395.295543 1304.128509 1159.341171 1162.576027 941.2014542 956.2345593 1144.224571 1318.294777 1051.928245 1230.875575 1.133579682 1.059512867 0.941883318 0.944511412 0.764660111 0.776873454 0.929602142 1.071021965 0.854617856 1 10.26546922 -6.578715561 2.29797862 1.064981127 0.885053034 0.126148426 0.109302918 0.219336349 2.344527744 0.015893178 0.024092894 2.64E-07 6.578715561 -0.179928093 TDDT(ph)SGEDNDEKEAVASK ddPTM_HeLa_SAHA_4h_R1 1 TDDTSGEDNDEKEAVASK 18 1 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;C9JQE8 C9JE98 NCOR2 Nuclear receptor corepressor 2 1 0 T(0.286)DDT(0.356)S(0.356)GEDNDEKEAVAS(0.001)K 66.809 0.018587 5911400 993.62 890.61 724.56 762.33 1029 1111.6 928.02 1045.3 1224.8 949.87 TRUE FALSE FALSE 1098.13351 919.4663484 823.2992635 777.0859995 950.1582423 1016.885426 823.5967472 1018.56274 1216.276517 990.8235443 1.108303811 0.927981933 0.830924203 0.784282937 0.958958079 1.026303253 0.831224441 1.0279961 1.227540993 1 9.952484341 -7.155592288 6.045170381 1.050944405 0.906195923 0.431407585 0.097681615 0.181340211 8.880144276 0.01414678 0.017370601 6.99E-08 7.155592288 -0.144748482 TDDTAQVT(ph)SDYETNNNSDSSDIVQNEDETECLREPLRK ddPTM_HeLa_SAHA_4h_R1 1 TDDTAQVTSDYETNNNSDSSDIVQNEDETECLREPLRK 38 2 Q14432 Q14432 PDE3A "cGMP-inhibited 3,5-cyclic phosphodiesterase A" 1 0 TDDTAQVT(0.427)S(0.427)DY(0.075)ET(0.068)NNNS(0.003)DS(0.001)SDIVQNEDETECLREPLRK 79.458 3.37E-08 3818900 272.21 228.51 401.35 453.09 232.12 419.11 379.03 266.44 495.72 395.29 TRUE FALSE FALSE 300.8422967 235.9138739 456.0438879 461.8602121 214.3350157 383.3994702 336.3805468 259.6248506 492.2702442 412.3328864 0.729610241 0.572144211 1.106009011 1.120114906 0.519810626 0.929829957 0.815798492 0.629648663 1.193866074 1 8.687665721 -9.441385476 1.201292367 0.998900541 0.803575955 0.215241698 0.204844177 0.815869315 2.124718828 0.129601207 0.033125354 3.62E-10 9.441385476 -0.195324586 TDDYLDQPCYETINR ddPTM_HeLa_SAHA_4h_R1 4 TDDYLDQPCYETINR 15 0 P50395;Q5SX91;Q5SX87;P50395-2 P50395 GDI2 Rab GDP dissociation inhibitor beta 0 0 ;;; ;;; 284.04 1.16E-68 40981000 3106.29 3024.02 3051.59 3175.26 3016.16 3315.2 3768.16 3370.7 3372.47 2582.74 FALSE FALSE TRUE 3433.023834 3122.000232 3467.444793 3236.721749 2785.062472 3032.726309 3344.15672 3284.482375 3349.000707 2694.094561 1.274277408 1.158830977 1.287053856 1.201413564 1.033765671 1.125694084 1.241291515 1.219141459 1.243089517 1 11.39558477 -9.460277046 1.178334839 0.999286748 1.197471488 0 0.102200383 0.334953751 0.827145793 0.054166231 0.013197143 3.47E-10 9.460277046 0.198184739 TDEDRTVMDGGLES(ph)DGPNMTENGLEDESRPQR ddPTM_HeLa_SAHA_4h_R1 1 TDEDRTVMDGGLESDGPNMTENGLEDESRPQR 32 2 P51116 P51116 FXR2 Fragile X mental retardation syndrome-related protein 2 1 0 TDEDRTVMDGGLES(0.998)DGPNMT(0.002)ENGLEDESRPQR 83.435 4.59E-07 5430200 358.21 379 359.77 384.62 316.09 424.31 476.88 333.78 341.38 310.97 TRUE FALSE FALSE 395.8881713 391.2798487 408.797582 392.0648763 291.8712525 388.1564009 423.2202073 325.2423909 339.0043088 324.3774386 1.220455322 1.206248654 1.260252821 1.20866876 0.899789004 1.1966196 1.304715301 1.0026665 1.045092132 1 8.341529669 -9.380782703 1.108190168 1.000124385 1.169811584 0.183358167 0.116163219 0.597128551 1.313247007 0.077870094 0.020085791 4.16E-10 9.380782703 0.169687199 TDEERPPVEHS(ph)PEK ddPTM_HeLa_SAHA_4h_R1 1 TDEERPPVEHSPEK 14 1 Q15170-2 Q15170-2 1 0 TDEERPPVEHS(1)PEK 89.311 0.0056241 19280000 1513.5 2385.9 1687.6 1919.2 2169.4 2199.6 2012.4 1664.4 3229.5 2306.5 TRUE FALSE FALSE 1672.696874 2463.204725 1917.577339 1956.348891 2003.181041 2012.181705 1785.959456 1621.827058 3207.025647 2405.944503 0.69523502 1.023799478 0.797016447 0.813131346 0.832596528 0.836337539 0.74231116 0.674091633 1.332959111 1 11.23238765 -9.539732061 1.254276311 1.001889618 0.795742309 0.428736301 0.141598806 0.387051338 1.074193301 0.069347228 0.015868962 2.89E-10 9.539732061 -0.206147309 TDESSPVLS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 TDESSPVLSPR 11 0 Q8NA72-3;Q8NA72 Q8NA72-3 POC5 Centrosomal protein POC5 1 0 TDESSPVLS(1)PR 129.74 0.0013694 5934700 1313.1 1563.5 1426.6 1442.2 1567.1 1548.2 1532.4 1307.6 1722.2 1495.2 TRUE FALSE FALSE 1451.217883 1614.158426 1621.009619 1470.115866 1447.029137 1416.28465 1359.970319 1274.153485 1710.21507 1559.665389 0.930467453 1.034938928 1.03933166 0.942584144 0.927781783 0.908069551 0.871962876 0.816940284 1.09652691 1 10.60702083 -4.831489233 0.93869924 0.976471756 0.802208469 0.599400379 0.051097933 0.512084715 0.571755537 0.006617659 0.073902085 1.47E-05 4.831489233 -0.174263287 TDEVPAGGSRS(ph)EAEDEDDEDYVPYVPLR ddPTM_HeLa_SAHA_4h_R1 2 TDEVPAGGSRSEAEDEDDEDYVPYVPLR 28 1 D6RD33;D6RGI7;A0A499FJW5;Q9UJV9 D6RD33 DDX41 Probable ATP-dependent RNA helicase DDX41 1 0 T(0.013)DEVPAGGS(0.431)RS(0.556)EAEDEDDEDY(0.001)VPYVPLR;T(0.003)DEVPAGGS(0.212)RS(0.781)EAEDEDDEDY(0.004)VPYVPLR ; 74.905 8.17E-05 45134000 2992.7 2871.1 2797.9 2970.9 3363.8 3230.2 3955.3 3590.6 3034.2 3001.4 TRUE FALSE FALSE 3307.485917 2964.125524 3179.183241 3028.406065 3106.066371 2954.968787 3510.239234 3498.757651 3013.084755 3130.805042 1.056433049 0.946761451 1.015452319 0.967293084 0.992098303 0.943836728 1.12119381 1.117526516 0.962399356 1 11.61231796 -4.7383341 24.98617524 1.009530818 1.11936031 0.6174821 0.038597216 135.9346944 146998.1518 0.005682081 0.021232934 1.83E-05 4.7383341 0.109829493 TDGEPGPQGWS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 TDGEPGPQGWSPR 13 0 Q9H773 Q9H773 DCTPP1 dCTP pyrophosphatase 1 1 0 TDGEPGPQGWS(1)PR 174.47 1.68E-05 12967000 641.06 844.68 770.04 590.44 993.87 788.13 862.65 753.62 852.77 836.45 TRUE FALSE FALSE 708.4896321 872.0481862 874.977041 601.86882 917.7198953 720.9768901 765.5823516 734.3434916 846.8355041 872.513453 0.812009981 0.999466751 1.002823553 0.689810361 1.051811742 0.826321804 0.877444753 0.841641454 0.97057014 1 9.769033566 -9.587555393 1.360812965 1.000323412 0.880921723 0.123330069 0.102242428 0.633271663 2.093968561 0.069394738 0.015948808 2.58E-10 9.587555393 -0.119401689 TDGEPGPQGWSPR ddPTM_HeLa_SAHA_4h_R1 1 TDGEPGPQGWSPR 13 0 Q9H773 Q9H773 DCTPP1 dCTP pyrophosphatase 1 0 0 112.64 0.0022402 0 278.38 234.98 418.71 271.08 204.99 461.86 439.81 323.94 390.33 253.82 FALSE FALSE TRUE 307.6612857 242.5935062 475.7696183 276.3271454 189.2837105 422.5069296 390.3214213 315.6540839 387.6136617 264.7634224 1.162023375 0.916265185 1.79696128 1.043675682 0.714916391 1.595790407 1.474227134 1.192211828 1.464000043 1 8.048560014 -1.00000339 0.043470584 0.378027846 2.636407025 0 0.332287396 943.8197978 3.147874116 43.03916921 152.2554569 0.099999219 1.00000339 2.258379178 TDGFAEAIHS(ph)PQVAGVPR ddPTM_HeLa_SAHA_4h_R1 3 TDGFAEAIHSPQVAGVPR 18 0 P12270 P12270 TPR Nucleoprotein TPR 1 0 T(0.002)DGFAEAIHS(0.998)PQVAGVPR;TDGFAEAIHS(1)PQVAGVPR;T(0.002)DGFAEAIHS(0.998)PQVAGVPR ;; 181.86 1.63E-09 143600000 2547.88 4797.48 3666.13 1760.81 3526.04 2499.04 4149.83 1764.47 2788.55 4698.45 TRUE FALSE FALSE 2815.877708 4952.9215 4165.731104 1794.893024 3255.875577 2286.107733 3682.880207 1719.337412 2769.144254 4901.023173 0.574548948 1.010589284 0.849971722 0.366228226 0.664325685 0.466455198 0.751451294 0.350811933 0.565013499 1 12.25886725 -6.280942929 24.21080436 0.816685316 0.537780505 0.37257758 0.180394953 482.1559898 598525.0524 0.029919177 0.045749114 5.24E-07 6.280942929 -0.278904811 TDGS(ph)QKTESSTEGKEQEEK ddPTM_HeLa_SAHA_4h_R1 1 TDGSQKTESSTEGKEQEEK 19 2 A0A0R4J2E8;A8MXP9;P43243;D6REM6;B3KM87;P43243-2 A0A0R4J2E8 MATR3 Matrin-3 1 0 T(0.025)DGS(0.868)QKT(0.107)ESSTEGKEQEEK 83.905 0.0026747 6848600 576.27 686.93 594.11 431.83 637.55 503.65 706.66 774.52 725.01 923.09 TRUE FALSE FALSE 636.8847226 709.1869827 675.0722168 440.1886941 588.7010567 460.7361865 627.144757 754.7088999 719.9645964 962.8889274 0.661431142 0.736520031 0.701090435 0.457154176 0.611390411 0.478493597 0.651315784 0.783796426 0.747713029 1 9.911225578 -9.13145303 0.445377806 1.08618982 0.603650953 0.309417604 0.122543965 0.784998509 0.223531754 0.172372264 0.030369223 7.39E-10 9.13145303 -0.482538867 TDGSIS(ph)GDRQPVTVADYISR ddPTM_HeLa_SAHA_4h_R1 2 TDGSISGDRQPVTVADYISR 20 1 P51116 P51116 FXR2 Fragile X mental retardation syndrome-related protein 2 1 0 T(0.002)DGS(0.029)IS(0.96)GDRQPVT(0.01)VADYISR;T(0.001)DGS(0.049)IS(0.943)GDRQPVT(0.007)VADYISR ; 147.73 0.00017751 104339000 2459.64 3146.6 2119.93 2518.5 2731.87 2455.4 2598.56 2678.9 2619.73 2697.6 TRUE FALSE FALSE 2718.35622 3248.551905 2408.82302 2567.249209 2522.554711 2246.186106 2306.16319 2610.377617 2601.499086 2813.906738 0.966043467 1.154463245 0.856042238 0.912343389 0.896459956 0.798244688 0.819559212 0.927670268 0.924515035 1 11.4583588 TDGSQKT(ph)ESSTEGKEQEEK ddPTM_HeLa_SAHA_4h_R1 2 TDGSQKTESSTEGKEQEEK 19 2 A0A0R4J2E8;A8MXP9;P43243;D6REM6;B3KM87;P43243-2 A0A0R4J2E8 MATR3 Matrin-3 1 0 T(0.115)DGS(0.115)QKT(0.771)ESSTEGKEQEEK;T(0.001)DGS(0.253)QKT(0.617)ES(0.04)S(0.085)T(0.004)EGKEQEEK ; 96.143 0.0098701 11591700 2062.02 1926.56 1958.19 1918.92 1909.42 2016.96 2395.41 2347.52 1688.88 2167.84 TRUE FALSE FALSE 2278.912724 1988.981808 2225.041935 1956.063471 1763.120652 1845.103661 2125.872162 2287.473838 1677.126947 2261.306192 1.007786001 0.879572088 0.983963138 0.865014866 0.77969125 0.815945964 0.940108054 1.011571916 0.741662917 1 11.14294064 -7.264296962 24.99999899 1.003676725 0.892781733 0 0.106294527 206.1686868 1803694.104 0.011842912 0.013861975 5.44E-08 7.264296962 -0.110894992 TDGSQKTESS(ph)TEGKEQEEK ddPTM_HeLa_SAHA_4h_R1 1 TDGSQKTESSTEGKEQEEK 19 2 A0A0R4J2E8;A8MXP9;P43243;D6REM6;B3KM87;P43243-2 A0A0R4J2E8 MATR3 Matrin-3 1 0 T(0.004)DGS(0.011)QKT(0.135)ES(0.213)S(0.623)T(0.015)EGKEQEEK 63.883 0.010943 2433700 545.58 125.17 178.69 264.9 323.4 263.15 386.23 442 122.61 309.27 TRUE FALSE FALSE 602.9666076 129.2255901 203.0409426 270.0275226 298.6211619 240.7281396 342.7703839 430.69428 121.756747 322.6041432 1.869060334 0.40057015 0.629381075 0.837024348 0.925658173 0.746202876 1.062510793 1.335055017 0.377418423 1 8.333621157 -7.260656507 24.99998973 1.410389597 0.846537876 0 0.446495626 64.41235263 2056929.059 0.066678763 0.079122726 5.49E-08 7.260656507 -0.563851721 TDIFGVEETAIGK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 TDIFGVEETAIGKK 14 1 Q15459;Q15459-2 Q15459 SF3A1 Splicing factor 3A subunit 1 0 1 TDIFGVEETAIGK(1)K 162.22 2.83E-07 613580 253.51 342.83 289.15 414.46 343.73 502.26 382.68 463.24 387.59 324.83 FALSE TRUE FALSE 280.1753449 353.9379169 328.5538562 422.4824726 317.3934817 459.4646224 339.6198392 451.3909916 384.8927296 338.835011 0.82687838 1.044573038 0.969657342 1.246867823 0.936719853 1.356012831 1.002316255 1.332185214 1.135929633 1 8.404439142 -6.488257824 1.444895971 0.920833184 1.169062924 0.186967454 0.151138082 0.287381129 1.195278316 0.022006388 0.036943033 3.25E-07 6.488257824 0.24822974 TDIQIALPSGCYGR ddPTM_HeLa_SAHA_4h_R1 2 TDIQIALPSGCYGR 14 0 P33316-2;A0A0C4DGL3;H0YNJ9;H0YKC5;H0YMP1;H0YNW5;H0YMM5;P33316;H0YKI0 P33316-2;H0YNW5;P33316 DUT "Deoxyuridine 5-triphosphate nucleotidohydrolase, mitochondrial" 0 0 ; ; 150.51 9.38E-05 4143700 889.08 1044.87 987.83 1182.45 954.33 1498.32 1531.32 1161.77 1499.83 1203.83 FALSE FALSE TRUE 982.5975136 1078.724474 1122.446328 1205.33803 881.2094416 1370.654707 1359.011843 1132.053606 1489.392561 1255.733003 0.782489201 0.859039677 0.893857473 0.959868083 0.70174905 1.091517627 1.08224586 0.901508205 1.186074235 1 10.29431403 -5.218345422 24.9979319 0.885405936 1.030806105 0.110078485 0.133122537 486.6592718 282300.4799 0.015092339 0.03847774 6.05E-06 5.218345422 0.145400169 TDITYPAGFMDVISIDK ddPTM_HeLa_SAHA_4h_R1 2 TDITYPAGFMDVISIDK 17 0 P62701 P62701 RPS4X "40S ribosomal protein S4, X isoform" 0 0 ; ; 189.99 3.44E-11 52447000 2110 1927.72 1742.1 1843.89 1656.4 2181 2487.8 2219.1 2215.2 1918.3 FALSE FALSE TRUE 2331.939481 1990.179393 1979.504316 1879.581157 1529.48699 1995.16653 2207.866196 2162.338635 2199.784243 2001.007301 1.165382795 0.994588771 0.98925392 0.939317491 0.764358525 0.997081085 1.103377382 1.08062506 1.099338439 1 10.96651072 -7.041266326 15.48853427 1.078198798 0.975416256 0.213199796 0.093869729 8.76464883 3289.20639 0.018242893 0.022361712 9.09E-08 7.041266326 -0.102782542 TDK(ac)TLVLLMGK ddPTM_HeLa_SAHA_4h_R1 3 TDKTLVLLMGK 11 1 P07737;K7EJ44 P07737 PFN1 Profilin-1 0 1 ;; TDK(1)TLVLLMGK;TDK(1)TLVLLMGK;TDK(1)TLVLLMGK 132.32 0.00060802 787940 281.4 868.75 759.79 841.54 877.05 613.558 832.18 652.91 177.91 282.48 FALSE TRUE FALSE 310.9989431 896.89807 863.3302244 857.8292236 809.8506185 561.2794066 738.5409162 636.2095076 176.6719098 294.6590952 1.055453397 3.043849942 2.929928987 2.911259953 2.748432448 1.904843311 2.506424978 2.159137518 0.599580711 1 8.202902988 -7.272351383 24.65634349 1.026186263 2.600481573 0.82540783 0.35981417 172.275783 389266.967 0.060050511 0.069030429 5.34E-08 7.272351383 1.574295311 TDKTLVLLMGK ddPTM_HeLa_SAHA_4h_R1 2 TDKTLVLLMGK 11 1 P07737;K7EJ44 P07737 PFN1 Profilin-1 0 0 ; ; 147.91 1.27E-05 0 4062.28 2793.27 7306.3 5972.6 5560.9 4158.3 7307.8 4812.8 1527.94 3194.67 FALSE FALSE TRUE 4489.569249 2883.773781 8301.964514 6088.20831 5134.825043 3803.989446 6485.507111 4689.695545 1517.306941 3332.407858 1.347244827 0.865372398 2.49128104 1.826969737 1.540875326 1.141513767 1.946192479 1.40729939 0.455318498 1 11.70234927 -6.813111307 24.99999982 1.14616312 1.705371754 0.43786215 0.417395507 82.21722684 39778.12556 0.058118266 0.07638242 1.54E-07 6.813111307 0.559208634 TDLEKDIISDTSGDFR ddPTM_HeLa_SAHA_4h_R1 3 TDLEKDIISDTSGDFR 16 1 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YKS4;H0YNA0;H0YN52 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ;; ;; 135.86 0.00018347 88626000 9568.5 10299.3 8387.1 9478.5 11266.2 11145.9 10671 9266.6 11502.4 10290.5 FALSE FALSE TRUE 10574.95873 10633.00408 9530.05031 9661.970074 10402.98619 10196.20661 9470.270995 9029.57379 11422.35386 10734.17382 0.985167458 0.990574986 0.887823364 0.900113063 0.969146426 0.949882757 0.882254299 0.841198768 1.064111133 1 13.38992353 -1.000000001 0.194409097 1.010971104 0.292784418 0.638786912 0.038700794 25.51507206 0.288631938 0.036344617 5.575220268 0.1 1.000000001 -0.718186686 TDLEKDIISDTSGDFRK ddPTM_HeLa_SAHA_4h_R1 2 TDLEKDIISDTSGDFRK 17 2 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YKS4;H0YNA0;H0YN52 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ; ; 73.91 0.0064633 9532900 7645 7399.2 7500.7 6273 8471 8080.2 10112 6072.1 6485.2 8365.5 FALSE FALSE TRUE 8449.136177 7638.938935 8522.856334 6394.422986 7821.95381 7391.721502 8974.171147 5916.784474 6440.068965 8726.177645 0.968251681 0.875404931 0.976699843 0.732786249 0.896378017 0.847074378 1.028419488 0.678049968 0.738017174 1 13.09113413 -7.108121443 1.02149146 0.990827249 0.855883576 0 0.12443071 0.438692679 0.897098737 0.018189919 0.023373284 7.80E-08 7.108121443 -0.134943673 TDLETS(ph)PGAAPR ddPTM_HeLa_SAHA_4h_R1 2 TDLETSPGAAPR 12 0 Q6F5E8;Q6F5E8-2 Q6F5E8 RLTPR Leucine-rich repeat-containing protein 16C 1 0 T(0.004)DLET(0.041)S(0.956)PGAAPR;T(0.022)DLET(0.205)S(0.772)PGAAPR ; 130.44 0.0010301 25065000 4141.5 3785 3789.4 4172.8 4642.8 4919.2 4575.7 4469.1 3752.2 3534.8 TRUE FALSE FALSE 4577.121972 3907.636483 4305.799698 4253.570578 4287.069667 4500.056485 4060.830193 4354.786893 3726.088135 3687.202527 1.241353557 1.059783523 1.167768699 1.153603727 1.162688959 1.220452756 1.101330931 1.181054434 1.0105461 1 11.84831095 -9.506327092 1.215164565 0.998659403 1.167020966 0.608527237 0.049725194 0.262381027 0.68447883 0.037304251 0.008723901 3.12E-10 9.506327092 0.168361563 TDLQGSAS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 1 TDLQGSASPSK 11 0 Q6VY07-2;Q6VY07;B4DF77 Q6VY07-2 PACS1 Phosphofurin acidic cluster sorting protein 1 1 0 TDLQGS(0.002)AS(0.937)PS(0.061)K 99.991 0.0037184 0 1325.9 1386.2 984.9 1070.4 1659.1 1591.1 1342.4 1323 1999.3 1170.3 TRUE FALSE FALSE 1465.364245 1431.11379 1119.117043 1091.11914 1531.980116 1455.529329 1191.349619 1289.159576 1985.386709 1220.75736 1.200373058 1.172316331 0.916739951 0.893805088 1.254942355 1.192316652 0.975910249 1.056032605 1.626356533 1 10.25356076 -11.59420131 12.71174048 0.436909161 1.084358365 0 0.209713633 0 0 0 0.017328757 2.55E-12 11.59420131 0.647449204 TDLQGSAS(ph)PSKVEGVHTPR ddPTM_HeLa_SAHA_4h_R1 4 TDLQGSASPSKVEGVHTPR 19 1 Q6VY07-2;Q6VY07;B4DF77 Q6VY07-2 PACS1 Phosphofurin acidic cluster sorting protein 1 1 0 T(0.013)DLQGS(0.059)AS(0.819)PS(0.109)KVEGVHT(0.001)PR;T(0.006)DLQGS(0.233)AS(0.438)PS(0.315)KVEGVHT(0.008)PR;TDLQGS(0.018)AS(0.572)PS(0.409)KVEGVHT(0.001)PR;T(0.001)DLQGS(0.038)AS(0.699)PS(0.262)KVEGVHTPR ;;; 88.418 0.0015043 70973000 6473.76 6480.4 4110.59 5723.28 7674.1 7413.35 6901.5 6793.12 6531.2 6239.3 TRUE FALSE FALSE 7154.699779 6690.369212 4670.759798 5834.06236 7086.112116 6781.690874 6124.925056 6619.361827 6485.748847 6508.306757 1.099318155 1.027973859 0.717661286 0.896402487 1.088779675 1.042005413 0.94109348 1.017063589 0.996533982 1 12.66806654 -6.976411637 24.99964867 1.047781664 0.950955611 0.132665424 0.09834672 322.7714695 342082.1409 0.016878767 0.022182265 1.06E-07 6.976411637 -0.096826053 TDLQGSASPS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 TDLQGSASPSK 11 0 Q6VY07-2;Q6VY07;B4DF77 Q6VY07-2 PACS1 Phosphofurin acidic cluster sorting protein 1 1 0 TDLQGS(0.001)AS(0.341)PS(0.657)K 96.866 0.010377 3804400 1353.7 1543.2 881.09 1499.5 1369.4 1551.8 1340.4 1455.5 2629.1 1651.5 TRUE FALSE FALSE 1496.088377 1593.200693 1001.160357 1528.524991 1264.476868 1419.57791 1189.574664 1418.270418 2610.803879 1722.704247 0.868453409 0.924825428 0.58115626 0.887282302 0.734006937 0.824040407 0.690527504 0.823281431 1.515526466 1 10.75045933 -7.879327466 0.536512914 0.993009264 0.759357458 0.362161661 0.19119541 0.458249416 0.314247436 0.041588558 0.028992653 1.32E-08 7.879327466 -0.233651806 TDMDNQIVVSDYAQMDR ddPTM_HeLa_SAHA_4h_R1 2 TDMDNQIVVSDYAQMDR 17 0 P50991-2;P50991 P50991-2 CCT4 T-complex protein 1 subunit delta 0 0 ; ; 180.61 9.90E-09 34694000 1092.18 1215.32 1178.86 1254.9 1381.84 1467.49 1346.02 1324.62 1336.97 1521.32 FALSE FALSE TRUE 1207.060504 1254.697165 1339.508902 1279.190404 1275.963718 1342.451596 1194.562287 1290.738138 1327.665917 1586.91155 0.760635023 0.790653496 0.844098023 0.806088029 0.804054717 0.845952376 0.752759211 0.81336489 0.836635108 1 10.632006 -9.326525924 0.929935111 1.006340225 0.800549275 0.243356572 0.057063467 0.16930755 0.24930721 0.024493881 0.005737682 4.71E-10 9.326525924 -0.20579095 TDPASNTK(ac)LIAMK ddPTM_HeLa_SAHA_4h_R1 4 TDPASNTKLIAMK 13 1 E7EWM1;Q15596 E7EWM1 NCOA2 Nuclear receptor coactivator 2 0 1 ;;; TDPASNTK(1)LIAMK;TDPASNTK(1)LIAMK;TDPASNTK(1)LIAMK;TDPASNTK(1)LIAMK 303.33 1.95E-136 16062000 1600.32 1408.25 1385.63 2054.17 2255.04 2399.04 1929.1 2777.51 1463.81 1185.73 FALSE TRUE FALSE 1768.649 1453.878224 1574.45644 2093.931431 2082.259322 2194.628295 1712.032591 2706.465316 1453.623227 1236.852623 1.429959372 1.175466015 1.272953957 1.692951441 1.683514498 1.774365235 1.384184792 2.188187392 1.175259849 1 10.27245789 -1.000000002 0.098262268 0.692837307 4.162644818 0.644209158 0.201876644 57.80691639 0.406231932 1.715368299 27.15900248 0.099999999 1.000000002 3.469807511 AIPVPNK(ac)LGLKK ddPTM_HeLa_SAHA_4h_R1 1 AIPVPNKLGLKK 12 2 Q9NYZ3 Q9NYZ3 GTSE1 G2 and S phase-expressed protein 1 0 1 AIPVPNK(1)LGLKK 116.55 0.0026401 0 290.63 180.76 393.3 608.66 737 861.94 1713.7 1454.3 129.82 250.85 FALSE TRUE FALSE 321.1997969 186.6167426 446.8968758 620.4414944 680.5312192 788.4978629 1520.869966 1417.101112 128.9165721 261.6653711 1.227521225 0.713188535 1.707894605 2.371125731 2.600769128 3.013382548 5.812270685 5.415699852 0.492677237 1 8.0315792 -4.875429861 0.681045236 1.070476621 7.09475899 0.918993823 0.504659902 0.266544531 0.135613774 0.078417469 1.054278217 1.33E-05 4.875429861 6.024282369 up TDPLGS(ph)PDVFTR ddPTM_HeLa_SAHA_4h_R1 1 TDPLGSPDVFTR 12 0 A0A0D9SG23;A0A1B0GW10;E9PHH0;Q9P267-2;Q9P267 A0A0D9SG23 MBD5 Methyl-CpG-binding domain protein 5 1 0 TDPLGS(1)PDVFTR 122.46 0.001417 2060700 607.78 780.4 803.28 636.4 566.86 905.36 761.16 856.66 720.18 750.05 TRUE FALSE FALSE 671.709089 805.685472 912.7468151 648.7184422 523.4273093 828.2182346 675.5122735 834.7478776 715.1682087 782.3883262 0.858536697 1.02977696 1.166616097 0.829151485 0.669012167 1.058576933 0.86339769 1.066922716 0.914083435 1 9.611741034 TDPTTLTDEEINR ddPTM_HeLa_SAHA_4h_R1 1 TDPTTLTDEEINR 13 0 V9GZ78;V9GYY3;A0A384N5Y3;F5H2F4;P11586;A0A494C1T2 V9GZ78 MTHFD1 "C-1-tetrahydrofolate synthase, cytoplasmic;Methylenetetrahydrofolate dehydrogenase;Methenyltetrahydrofolate cyclohydrolase;Formyltetrahydrofolate synthetase;C-1-tetrahydrofolate synthase, cytoplasmic, N-terminally processed" 0 0 186.74 1.76E-06 4156700 502.18 479.12 508.5 476.33 544.95 604.23 518.32 584.12 533.37 501.14 FALSE FALSE TRUE 555.0015965 494.6438024 577.7957318 485.5500559 503.1960487 552.7462047 459.9972695 569.1790562 529.6582347 522.7465979 1.061702933 0.946240118 1.105307493 0.928844029 0.962600332 1.05738843 0.879962244 1.088824028 1.013221773 1 9.029967957 -6.239755803 24.95672211 1.027534911 0.980711575 0.086254237 0.067471657 1367.131658 1573500.603 0.009294977 0.015406697 5.76E-07 6.239755803 -0.046823336 TDPVPEEGEDVAATISATETLSEEEQEELRR ddPTM_HeLa_SAHA_4h_R1 3 TDPVPEEGEDVAATISATETLSEEEQEELRR 31 1 H0YC42;P55327-2;P55327-4;P55327;P55327-7;P55327-5;P55327-6;P55327-3;E5RFR7;H0YC44;P55327-8 H0YC42 TPD52 Tumor protein D52 0 0 ;; ;; 223.67 1.16E-37 7286200 485.92 613.86 646.2 739.94 589.58 809.67 592.18 786.93 805.94 543.97 FALSE FALSE TRUE 537.0312951 633.7494668 734.2607707 754.2626087 544.4065078 740.6815609 525.5463479 766.8014701 800.3313979 567.4232088 0.946438719 1.11689028 1.294026679 1.329276979 0.959436448 1.305342378 0.926198188 1.351374879 1.410466448 1 9.148281351 -7.115230475 4.327248971 0.975113327 1.18411087 0 0.196068243 0.188028437 5.853501644 0.021488594 0.026592456 7.67E-08 7.115230475 0.208997542 TDQAQK(ac)AEGAGDAK ddPTM_HeLa_SAHA_4h_R1 2 TDQAQKAEGAGDAK 14 1 P05204 P05204 HMGN2 Non-histone chromosomal protein HMG-17 0 1 ; TDQAQK(1)AEGAGDAK;TDQAQK(1)AEGAGDAK 190.27 1.45E-16 1960490 423.68 845.04 374.28 557.38 678.67 733.74 625.36 896.89 492.28 260.1 FALSE TRUE FALSE 468.2446063 872.4198505 425.2849292 568.1688959 626.6704512 671.2212241 554.9928469 873.9488525 488.8541834 271.3141839 1.725839024 3.215533511 1.567499801 2.094136354 2.30975927 2.473962896 2.04557255 3.221169052 1.801801057 1 8.083820661 -8.804341633 0.181458647 4.28E-11 2.95328764 0.285856975 0.559920283 4.151294178 0.298967456 3.466887628 1.25184719 1.57E-09 8.804341633 2.95328764 TDQEAPNASQPT(ph)PPPLPK ddPTM_HeLa_SAHA_4h_R1 4 TDQEAPNASQPTPPPLPK 18 0 Q9H792 Q9H792 PEAK1 Pseudopodium-enriched atypical kinase 1 1 0 TDQEAPNASQPT(1)PPPLPK;TDQEAPNASQPT(1)PPPLPK;TDQEAPNASQPT(1)PPPLPK;TDQEAPNAS(0.096)QPT(0.904)PPPLPK ;;; 149.42 0.00015671 15226300 6275.75 7396.29 6034.34 6584.33 7370.83 7496.55 6953.73 6335.25 8114.9 6868.2 TRUE FALSE FALSE 6935.862179 7635.934649 6856.66843 6711.779228 6806.078598 6857.801766 6171.277999 6173.203478 8058.42775 7164.321714 0.968111491 1.065827995 0.957057584 0.936833869 0.949996227 0.957215776 0.861390407 0.861659167 1.124799817 1 12.80661441 -4.401576092 0.591159713 0.989930606 0.770090511 0.513541571 0.053747938 1.355372808 0.354305943 0.006183534 0.195922159 3.97E-05 4.401576092 -0.219840095 TDS(ph)ASADPDNLK ddPTM_HeLa_SAHA_4h_R1 2 TDSASADPDNLK 12 0 Q96Q15;H3BR09;E9PNP6;I3L0W2 Q96Q15 SMG1 Serine/threonine-protein kinase SMG1 1 0 T(0.001)DS(0.816)AS(0.183)ADPDNLK;T(0.11)DS(0.876)AS(0.014)ADPDNLK ; 165.51 0.00011625 7710600 2305.74 3821 2242.85 1703.61 3005.3 3629.2 2913.1 1937.73 2076.63 3371.6 TRUE FALSE FALSE 2548.268312 3944.802907 2548.493918 1736.585835 2775.034563 3319.971743 2585.310321 1888.165672 2062.178563 3516.966176 0.72456435 1.121649373 0.724628498 0.493773823 0.789042153 0.943987396 0.735096726 0.536873424 0.586351548 1 11.78011574 -6.563693262 24.9999192 0.886985396 0.709142028 0.142929809 0.179686045 180.1324673 110335.0479 0.026782971 0.037876865 2.73E-07 6.563693262 -0.177843368 TDS(ph)PDMHEDT ddPTM_HeLa_SAHA_4h_R1 2 TDSPDMHEDT 10 0 Q9BW61 Q9BW61 DDA1 DET1- and DDB1-associated protein 1 1 0 T(0.043)DS(0.88)PDMHEDT(0.077);T(0.05)DS(0.949)PDMHEDT(0.001) ; 97.597 0.012295 114295000 11166.2 11800.7 10353 11350.9 12288.3 9244.4 13693.2 12406.2 11971.6 10862.8 TRUE FALSE FALSE 12340.71215 12183.05042 11763.85292 11570.61308 11346.77311 8456.725112 12152.4051 12088.86737 11888.28866 11331.14847 1.089096324 1.075182313 1.038187167 1.021133305 1.00137891 0.746325506 1.072477793 1.066870441 1.049168908 1 13.46800647 -5.703636323 3.792755271 1.044571663 0.959904291 0.152353025 0.087069059 0.32463429 9.456063112 0.013083567 0.026691324 1.98E-06 5.703636323 -0.084667372 TDS(ph)QTIGDFATR ddPTM_HeLa_SAHA_4h_R1 2 TDSQTIGDFATR 12 0 Q13480-2 Q13480-2 GAB1 GRB2-associated-binding protein 1 1 0 T(0.047)DS(0.855)QT(0.098)IGDFATR;T(0.004)DS(0.498)QT(0.498)IGDFATR ; 161.49 0.00015125 14505500 2034.61 1746.95 1516.6 1605.16 1433.45 1996.07 1569.01 1351.16 1387.02 1354.33 TRUE FALSE FALSE 2248.619615 1803.552326 1723.27435 1636.230193 1323.619371 1825.993606 1392.460865 1316.599284 1377.367615 1412.721794 1.591693159 1.276650742 1.219825699 1.158211192 0.936928542 1.292535879 0.985658232 0.931959349 0.974974422 1 10.46426167 -6.19352725 2.23073694 1.285162835 1.050924296 0.103127168 0.191231702 0.433258762 4.213022049 0.037441071 0.066254397 6.40E-07 6.19352725 -0.234238539 TDS(ph)TSDGRPAWMR ddPTM_HeLa_SAHA_4h_R1 3 TDSTSDGRPAWMR 13 1 Q14204;A0A2R8Y706;A0A2R8Y5T0;A0A2R8Y542;A0A2R8Y6I5 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 1 0 T(0.035)DS(0.759)T(0.087)S(0.118)DGRPAWMR;T(0.04)DS(0.734)T(0.098)S(0.128)DGRPAWMR;TDS(0.886)T(0.093)S(0.022)DGRPAWMR ;; 132.14 0.0029558 345569000 5112.3 5434.3 4678.1 5160.7 6235 6264.7 5227.4 6528.3 4897.6 5875.2 TRUE FALSE FALSE 5650.03517 5610.374886 5315.607106 5260.592811 5757.275647 5730.912316 4639.199194 6361.315539 4863.517203 6128.508625 0.921926608 0.915455167 0.867357367 0.858380584 0.939425234 0.935123481 0.756986647 1.037987531 0.793589028 1 12.58132032 -8.549901299 0.600498733 1.000789842 0.894752706 0 0.092786203 0.801161376 0.584842323 0.040800255 0.016016049 2.82E-09 8.549901299 -0.106037136 TDS(ph)VIIADQTPTPTR ddPTM_HeLa_SAHA_4h_R1 1 TDSVIIADQTPTPTR 15 0 P17544-4;P17544-2;P17544-3;P17544;P17544-1;K7ESA4;K7ELQ4;P17544-5 P17544-4 ATF7 Cyclic AMP-dependent transcription factor ATF-7 1 0 T(0.146)DS(0.853)VIIADQT(0.001)PTPTR 168.45 2.22E-06 7921100 641.28 704.28 423.72 274.67 528.37 776.14 581.14 327.41 401.84 650.13 TRUE FALSE FALSE 708.7327727 727.0991341 481.462355 279.986635 487.8864047 710.0085056 515.7485977 319.0353263 399.0435627 678.160286 1.045081506 1.072164132 0.709953627 0.412862034 0.719426388 1.046962673 0.760511355 0.470442361 0.588420719 1 9.40548249 -6.75465475 23.90421108 1.025698995 0.695465252 0.17775362 0.212949007 60.21335661 212147.3048 0.026388028 0.036812017 1.76E-07 6.75465475 -0.330233744 TDS(ph)YSAGQSVEILDGVELGEPAHK ddPTM_HeLa_SAHA_4h_R1 1 TDSYSAGQSVEILDGVELGEPAHK 24 0 B1AKQ2;B1AKP8;P42345 B1AKQ2 MTOR Serine/threonine-protein kinase mTOR 1 0 T(0.212)DS(0.699)Y(0.024)S(0.066)AGQSVEILDGVELGEPAHK 108.09 1.59E-05 4684800 710.53 994.19 902.48 997.04 1331.8 959.64 1033.7 1311.7 964.59 1022.9 TRUE FALSE FALSE 785.2668054 1026.402408 1025.465274 1016.339151 1229.757772 877.8732732 917.3853555 1278.148613 957.8773397 1067.002225 0.735956109 0.961949642 0.961071355 0.952518305 1.15253534 0.822747369 0.859778297 1.197887486 0.897727593 1 10.05934747 -7.027257588 24.17000044 0.873925247 0.981258978 0.140862978 0.123643614 800.4006309 709734.4543 0.023284498 0.028564957 9.39E-08 7.027257588 0.107333731 TDSLAAT(ph)PPAAK ddPTM_HeLa_SAHA_4h_R1 2 TDSLAATPPAAK 12 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 T(0.042)DS(0.003)LAAT(0.955)PPAAK;T(0.002)DS(0.001)LAAT(0.997)PPAAK ; 116.19 0.0032511 46505000 8339.1 8888.6 8612.8 8528 9638 10383.6 10119 10128.2 9656.3 8921.7 TRUE FALSE FALSE 9216.244799 9176.596472 9786.50753 8693.071772 8899.538522 9498.858863 8980.383488 9869.135309 9589.101022 9306.358149 0.990317013 0.986056664 1.051593693 0.934100282 0.95628584 1.02068486 0.964972908 1.06047233 1.030381688 1 13.18400099 -6.257947596 24.98554316 0.998288953 0.98619402 0.037764948 0.038539494 1115.615134 7982849.606 0.005297364 0.008567834 5.52E-07 6.257947596 -0.012094933 TDSREDEIS(ph)PPPPNPVVK ddPTM_HeLa_SAHA_4h_R1 9 TDSREDEISPPPPNPVVK 18 1 K7EMU2;K7EMZ6;K7EIE5;K7EID3;K7EJ40;K7EK41;K7EPB2;P10644-2;P10644 K7EMU2 PRKAR1A "cAMP-dependent protein kinase type I-alpha regulatory subunit;cAMP-dependent protein kinase type I-alpha regulatory subunit, N-terminally processed" 1 0 TDSREDEIS(1)PPPPNPVVK;T(0.064)DS(0.114)REDEIS(0.822)PPPPNPVVK;TDSREDEIS(1)PPPPNPVVK;T(0.002)DS(0.012)REDEIS(0.986)PPPPNPVVK;TDSREDEIS(1)PPPPNPVVK;TDSREDEIS(1)PPPPNPVVK;TDSREDEIS(1)PPPPNPVVK;TDSREDEIS(1)PPPPNPVVK;TDSREDEIS(1)PPPPNPVVK ;;;;;;;; 204.05 9.62E-17 3131594900 22419.78 23884.25 21169.77 22289.55 23352.81 22896.3 24856.99 23905.94 22728.78 22578.56 TRUE FALSE FALSE 24777.99533 24658.11537 24054.67601 22720.99647 21563.52274 20945.40643 22060.01607 23294.46067 22570.60857 23552.03222 1.05205339 1.046963385 1.021341844 0.964714903 0.915569516 0.889324804 0.936650216 0.989063723 0.958329556 1 14.52356393 -6.129658519 2.94570524 1.027245682 0.930327474 0.552106299 0.034617216 0.118436572 1.97481125 0.004845548 0.008498129 7.42E-07 6.129658519 -0.096918207 TDSTESSGTQS(ph)PKR ddPTM_HeLa_SAHA_4h_R1 1 TDSTESSGTQSPKR 14 1 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 TDST(0.001)ES(0.043)S(0.043)GT(0.043)QS(0.87)PKR 97.797 0.002105 0 0 157.51 159.9 153.91 51.451 148.03 111.15 177.12 64.05 227.17 TRUE FALSE FALSE 0 162.6134273 181.6903393 156.8891506 47.5088355 135.4170112 98.64310947 172.5895269 63.60427084 236.9644104 0 0.686235655 0.766741043 0.662078961 0.200489328 0.571465609 0.416278163 0.728335224 0.268412757 1 7.888526588 -9.678490327 1.55310912 0.999005416 0.430811696 0 0.32794904 0.348154839 1.516809377 0.200389229 0.045025635 2.10E-10 9.678490327 -0.568193721 TDSVIIADQTPT(ph)PTR ddPTM_HeLa_SAHA_4h_R1 2 TDSVIIADQTPTPTR 15 0 P17544-4;P17544-2;P17544-3;P17544;P17544-1;K7ESA4;K7ELQ4;P17544-5 P17544-4 ATF7 Cyclic AMP-dependent transcription factor ATF-7 1 0 TDSVIIADQT(0.025)PT(0.974)PTR;TDSVIIADQT(0.026)PT(0.968)PT(0.006)R ; 198.61 4.26E-12 17734200 1507.58 1727.19 1818.22 1210.11 1817.58 1758.79 1963.81 1295.17 1825.34 2091.51 TRUE FALSE FALSE 1666.154181 1783.152089 2065.997553 1233.533429 1678.317413 1608.931197 1742.83693 1262.041427 1812.63731 2181.685232 0.763700536 0.817327845 0.946973249 0.565403941 0.76927569 0.737471737 0.798848938 0.578470903 0.830842728 1 11.09122725 -13.52287875 0.142556917 1.927807275 0.647429226 0.286780763 0.109937823 41.72823244 0.411735551 10.87470836 0.25832794 3.00E-14 13.52287875 -1.28037805 TDSVKT(ph)PESEGNPLLEQLEK ddPTM_HeLa_SAHA_4h_R1 1 TDSVKTPESEGNPLLEQLEK 20 1 Q8WYK2;Q8WYK2-2 Q8WYK2 JDP2 Jun dimerization protein 2 1 0 T(0.024)DS(0.087)VKT(0.833)PES(0.057)EGNPLLEQLEK 106.02 0.00067641 6637900 1241.7 1637 1119.1 941.02 1606.4 1910.3 1522.2 1395.1 1939.8 1406.5 TRUE FALSE FALSE 1372.307703 1690.039874 1271.60512 959.2348028 1483.317979 1747.531693 1350.91805 1359.415362 1926.300774 1467.141098 0.935361776 1.151927293 0.866723127 0.653812237 1.011026125 1.191113585 0.920782637 0.926574386 1.312962179 1 10.51879191 -6.084517823 0.004145318 1.917425215 5.08E-08 0.000245694 0.176341141 124524.8384 183.3800956 41889.81419 42931.59662 8.23E-07 6.084517823 -1.917425164 TDSYS(ph)AGQSVEILDGVELGEPAHKK ddPTM_HeLa_SAHA_4h_R1 1 TDSYSAGQSVEILDGVELGEPAHKK 25 1 B1AKQ2;B1AKP8;P42345 B1AKQ2 MTOR Serine/threonine-protein kinase mTOR 1 0 T(0.233)DS(0.233)Y(0.233)S(0.289)AGQS(0.011)VEILDGVELGEPAHKK 112.58 6.69E-07 8841500 1082.5 1221.8 1074.3 1353.2 1370.5 1189.3 1469 1296.7 1283 1232.2 TRUE FALSE FALSE 1196.362317 1261.387122 1220.700009 1379.393143 1265.492586 1087.964949 1303.704254 1263.532292 1274.071499 1285.326172 0.930784996 0.981375116 0.949720029 1.073185291 0.984569219 0.846450475 1.01429838 0.983044086 0.991243722 1 10.3279188 -6.842557016 0.001812484 1.937656889 6.48E-06 0 0.056046278 325138.0698 380.2047588 202783.28 203671.3642 1.44E-07 6.842557016 -1.937650408 TDTAVQATGS(ph)VPSTPIAHR ddPTM_HeLa_SAHA_4h_R1 1 TDTAVQATGSVPSTPIAHR 19 0 I3L533;I3L2R9;Q9NXR1;Q9NXR1-1;I3L2R3;I3L522 I3L533 NDE1 Nuclear distribution protein nudE homolog 1 1 0 TDTAVQATGS(1)VPSTPIAHR 106.74 0.00079994 5711900 1866.1 2068 1782.7 1897.4 2272.4 2982.3 2069.3 2138.1 2969.5 2092 TRUE FALSE FALSE 2062.38496 2135.004557 2025.637072 1934.126921 2098.289203 2728.191262 1836.456918 2083.410498 2948.835008 2182.196358 0.945095959 0.978374173 0.928256096 0.886321212 0.961549219 1.250204296 0.841563552 0.954730994 1.351315154 1 11.09156521 TDTESELDLISR ddPTM_HeLa_SAHA_4h_R1 2 TDTESELDLISR 12 0 V9GZ78;V9GYY3;A0A384N5Y3;F5H2F4;P11586;A0A494C1T2 V9GZ78 MTHFD1 "C-1-tetrahydrofolate synthase, cytoplasmic;Methylenetetrahydrofolate dehydrogenase;Methenyltetrahydrofolate cyclohydrolase;Formyltetrahydrofolate synthetase;C-1-tetrahydrofolate synthase, cytoplasmic, N-terminally processed" 0 0 ; ; 233.84 4.12E-22 17979700 5007.9 5053.1 4796 5133.1 6094.9 6160.7 5817 6640.7 6311.5 5672.6 FALSE FALSE TRUE 5534.653899 5216.823755 5449.573904 5232.458573 5627.910079 5635.773701 5162.45585 6470.84051 6267.577758 5917.173547 0.93535433 0.881641161 0.920975844 0.884283439 0.951114588 0.952443537 0.872453006 1.093569499 1.059218174 1 12.53069249 -8.912370733 0.939798165 0.996795332 0.932303426 0.220512602 0.062957503 0.717232258 1.227210774 0.027604538 0.010753764 1.22E-09 8.912370733 -0.064491906 TDTGEPMGR ddPTM_HeLa_SAHA_4h_R1 2 TDTGEPMGR 9 0 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 0 0 ; ; 134.81 0.001316 3083500 2121.3 2114.5 1987.75 2487.33 2502.86 2796.9 2508.6 2473.8 2841.8 2397.2 FALSE FALSE TRUE 2344.428067 2183.011187 2258.630218 2535.475869 2311.091408 2558.588385 2226.325726 2410.523778 2822.023682 2500.555024 0.937563079 0.873010658 0.903251557 1.013965238 0.924231375 1.023208192 0.890332628 0.963995495 1.128558922 1 11.28803264 -9.082373886 1.024838851 0.997636899 0.941319765 0.273821256 0.062633398 0.654783682 1.308608847 0.024139198 0.008447843 8.27E-10 9.082373886 -0.056317134 TDTGIVT(ph)VEQSPSSSK ddPTM_HeLa_SAHA_4h_R1 1 TDTGIVTVEQSPSSSK 16 0 H0Y9Y2;Q8NFC6 H0Y9Y2;Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 TDTGIVT(0.574)VEQS(0.285)PS(0.104)S(0.011)S(0.025)K 182.7 1.63E-09 43059000 2793.2 3203.5 2502.5 3173.8 3564.2 4151.4 3726.4 3309.4 3303.8 3129.7 TRUE FALSE FALSE 3087.001592 3307.295502 2843.527668 3235.233488 3291.111766 3797.677365 3307.095665 3224.75034 3280.808587 3264.636683 0.945588098 1.013066942 0.871008919 0.990993425 1.008109657 1.163277183 1.013005729 0.987782303 1.004953661 1 11.67270673 -5.612722115 3.840444612 0.969443928 1.054913241 0.292135858 0.057630028 0.203827547 5.780153042 0.008205447 0.017204329 2.44E-06 5.612722115 0.085469312 TDTGIVTVEQS(ph)PSSSK ddPTM_HeLa_SAHA_4h_R1 2 TDTGIVTVEQSPSSSK 16 0 H0Y9Y2;Q8NFC6 H0Y9Y2;Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 TDTGIVTVEQS(0.9)PS(0.084)S(0.012)S(0.004)K;TDT(0.003)GIVT(0.039)VEQS(0.938)PS(0.013)S(0.002)S(0.004)K ; 183.75 3.53E-10 49769000 7756.4 8664.6 7438.1 9432.6 9664.4 11095.7 9537.6 10213.9 9702.8 8739.9 TRUE FALSE FALSE 8572.25374 8945.338725 8451.725532 9615.181613 8923.91576 10150.28394 8464.404146 9952.643228 9635.277425 9116.719861 0.940278288 0.981201448 0.92705772 1.054675559 0.978851593 1.11337017 0.92844842 1.091691242 1.05687984 1 13.15429913 -6.251853981 24.94627567 0.968886094 1.02898784 0.143723232 0.059803374 720.2189524 1874390.439 0.007455921 0.012255582 5.60E-07 6.251853981 0.060101747 TDTPPSSVPTSVISTPSTEEIQS(ph)ETPGDAQGSPPELKRPR ddPTM_HeLa_SAHA_4h_R1 1 TDTPPSSVPTSVISTPSTEEIQSETPGDAQGSPPELKRPR 40 2 Q13112 Q13112 CHAF1B Chromatin assembly factor 1 subunit B 1 0 TDTPPSSVPT(0.003)S(0.003)VIS(0.018)T(0.018)PS(0.046)T(0.046)EEIQS(0.578)ET(0.199)PGDAQGS(0.087)PPELKRPR 42.253 0.013465 13601000 335.14 354.82 323.99 480.8 419.79 461.21 529.39 293.07 214.95 458.56 TRUE FALSE FALSE 370.3915629 366.3164008 368.1416699 490.1065792 387.6257809 421.9123133 469.8216439 285.5736938 213.4541454 478.3307657 0.774341919 0.76582237 0.769638284 1.024618558 0.810371836 0.882051383 0.9822108 0.59702138 0.446247996 1 8.901864777 -9.406184498 1.140813219 0.999704909 0.830165997 0 0.206506629 0.556183787 1.298240941 0.074078899 0.018951249 3.92E-10 9.406184498 -0.169538913 TDTS(ph)PVLETAGTVAAMAATPSAR ddPTM_HeLa_SAHA_4h_R1 2 TDTSPVLETAGTVAAMAATPSAR 23 0 Q8WWH5 Q8WWH5 TRUB1 Probable tRNA pseudouridine synthase 1 1 0 T(0.063)DT(0.187)S(0.75)PVLETAGTVAAMAATPSAR;T(0.004)DT(0.209)S(0.787)PVLETAGTVAAMAATPSAR ; 129.2 2.63E-06 6142400 1154.62 1519.89 1342.38 1204.75 1735.23 1745.05 1545.56 1521.14 1553.5 1434.36 TRUE FALSE FALSE 1276.068229 1569.135433 1525.312556 1228.069678 1602.277052 1596.361923 1371.649521 1482.231441 1542.689067 1496.202279 0.852871465 1.048745517 1.01945611 0.820791209 1.070896011 1.066942582 0.916754065 0.990662467 1.031069855 1 10.54708952 -7.25067977 24.86164036 0.930522635 0.988368605 0 0.084722543 1292.802499 2987212.226 0.014583506 0.017763175 5.61E-08 7.25067977 0.057845971 TDVSNFDEEFTGEAPT(ph)LSPPR ddPTM_HeLa_SAHA_4h_R1 2 TDVSNFDEEFTGEAPTLSPPR 21 0 Q16512;Q16512-2 Q16512 PKN1 Serine/threonine-protein kinase N1 1 0 TDVSNFDEEFTGEAPT(0.5)LS(0.5)PPR;TDVSNFDEEFTGEAPT(0.718)LS(0.282)PPR ; 200.97 5.12E-21 6781400 1519.9 2180.16 1796.3 1581.65 2041.02 2338.64 1783.55 1752.19 2399.05 1884.35 TRUE FALSE FALSE 1679.770056 2250.798614 2041.090409 1612.265123 1884.637489 2139.374715 1582.86026 1707.371517 2382.354816 1965.59355 0.854586674 1.145098698 1.038409191 0.820243393 0.958813427 1.088411546 0.805283605 0.868628978 1.212028202 1 10.94074931 -4.716940836 24.99999824 0.955322587 0.836956045 0.123252941 0.126070455 180.1849602 101228.249 0.014295173 0.05348711 1.92E-05 4.716940836 -0.118366542 TDVSNFDEEFTGEAPTLS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 2 TDVSNFDEEFTGEAPTLSPPR 21 0 Q16512;Q16512-2 Q16512 PKN1 Serine/threonine-protein kinase N1 1 0 TDVSNFDEEFT(0.001)GEAPT(0.128)LS(0.871)PPR;TDVSNFDEEFTGEAPT(0.329)LS(0.671)PPR ; 95.287 0.00029627 5492000 721.97 828.38 527.58 831.23 1236.21 1017.2 916.02 653.31 937.71 820.44 TRUE FALSE FALSE 797.9101171 855.2200555 599.4758549 847.3196586 1141.491857 930.5288374 812.9470188 636.5992762 931.1843998 855.8131835 0.932341465 0.999306942 0.700475135 0.990075492 1.33380962 1.087303696 0.949911773 0.743853084 1.088069707 1 9.741152093 -5.995981005 24.99926216 0.947203258 1.044108406 0.052404538 0.16469978 263.0356672 1636127.879 0.023857294 0.043113392 1.01E-06 5.995981005 0.096905148 TDY(ph)IPLLDVDEK ddPTM_HeLa_SAHA_4h_R1 1 TDYIPLLDVDEK 12 0 E7EVA0;P27816;P27816-6;P27816-2;P27816-5;H7C456;A0A0J9YVV8;A0A0J9YW37;P27816-7 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 T(0.016)DY(0.984)IPLLDVDEK 124.1 0.00018034 0 264.9 331.39 246.8 356.73 784.53 382.09 713.83 569.95 609.64 420.75 TRUE FALSE FALSE 292.7633974 342.1272534 280.4326187 363.635025 724.4194809 349.5337824 633.5079697 555.3715043 605.3974656 438.8905916 0.667053254 0.779527427 0.638957918 0.828532286 1.650569629 0.796402997 1.44343028 1.265398518 1.379381279 1 8.777717534 -5.867131362 11.85430292 0.815480298 1.26463018 0.313282005 0.284024995 0.278535416 29.32541143 0.033113922 0.060046613 1.36E-06 5.867131362 0.449149882 TDYNAS(ph)VSVPDSSGPER ddPTM_HeLa_SAHA_4h_R1 1 TDYNASVSVPDSSGPER 17 0 P61978;P61978-2;P61978-3;Q5T6W2 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 1 0 T(0.001)DYNAS(0.616)VS(0.381)VPDS(0.001)SGPER 110.34 0.0015165 3770700 337.45 290.57 300.75 412.36 300.58 259.9 254.9 481.9 503.81 358.03 TRUE FALSE FALSE 372.9445393 299.9846586 341.7346438 420.3418241 277.5496253 237.7550578 226.2179811 469.5736958 500.3039452 373.4664255 0.998602589 0.803243982 0.915034446 1.125514358 0.743171558 0.636616953 0.605725082 1.257338448 1.339622282 1 8.544834741 -5.742080697 24.97673398 0.98384383 0.78363553 0.177171281 0.215354865 277.0862583 357497.0186 0.02506216 0.050064387 1.81E-06 5.742080697 -0.2002083 TDYNASVS(ph)VPDSSGPER ddPTM_HeLa_SAHA_4h_R1 1 TDYNASVSVPDSSGPER 17 0 P61978;P61978-2;P61978-3;Q5T6W2 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 1 0 TDYNAS(0.264)VS(0.732)VPDS(0.003)S(0.001)GPER 119.62 0.00064168 2674100 444.98 443.7 401.89 397.84 676.41 707.91 671.75 729.21 754.21 605.08 TRUE FALSE FALSE 491.785038 458.0761711 456.6574762 405.5407685 624.5836119 647.5920854 596.1629221 710.5578641 748.9613912 631.16796 0.779166671 0.725759544 0.723511815 0.642524327 0.989567994 1.026021798 0.944539267 1.125782532 1.18662771 1 9.301880161 -5.549234241 24.9653226 0.847634996 1.020763445 0.250020812 0.152320854 222.4362885 210702.7992 0.020191247 0.040383416 2.82E-06 5.549234241 0.17312845 TDYNASVSVPDSSGPER ddPTM_HeLa_SAHA_4h_R1 6 TDYNASVSVPDSSGPER 17 0 P61978;P61978-2;P61978-3;Q5T6W2 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 ;;;;; ;;;;; 324.84 8.10E-160 65677300 6414.12 7025.52 5518.16 6827.85 6677.02 7800.74 6895.17 7037.57 7368.3 6091.43 FALSE FALSE TRUE 7088.786571 7253.151458 6270.146107 6960.01291 6165.42817 7136.073066 6119.307325 6857.55915 7317.0234 6354.061358 1.115630802 1.141498492 0.986793447 1.095364448 0.970312973 1.123072735 0.963054491 1.07924031 1.151550636 1 12.63346331 TEADAEKTFEEK ddPTM_HeLa_SAHA_4h_R1 1 TEADAEKTFEEK 12 1 P19338;H7BY16 P19338 NCL Nucleolin 0 0 127.83 0.00039479 1933800 1121.9 1127.2 1148.5 1655 1263.3 1654 1682.6 1399.1 1321.4 1243.4 FALSE FALSE TRUE 1239.906589 1163.72202 1305.011599 1687.034918 1166.506227 1513.069895 1493.26942 1363.313048 1312.20427 1297.009059 0.955973731 0.897235074 1.006169995 1.300711746 0.899381711 1.166583906 1.151317648 1.051120683 1.011715578 1 10.34097284 -6.50354496 24.97147319 0.971491362 1.111575608 0.338958834 0.098612571 635.2832688 820531.293 0.013844982 0.020951383 3.14E-07 6.50354496 0.140084247 TEAELSQDLETS(ph)PTAKPQIK ddPTM_HeLa_SAHA_4h_R1 1 TEAELSQDLETSPTAKPQIK 20 1 Q5VT06;H0Y7F7 Q5VT06 CEP350 Centrosome-associated protein 350 1 0 TEAELSQDLET(0.143)S(0.803)PT(0.054)AKPQIK 128.98 3.48E-05 6887700 1065.5 1025 897.19 1220.6 1085.2 1020.4 1168.2 1100.2 1087.2 933.69 TRUE FALSE FALSE 1177.574179 1058.210673 1019.454381 1244.226478 1002.05221 933.4561794 1036.751061 1072.058477 1079.634087 973.9459453 1.209075498 1.086518895 1.046725833 1.277510815 1.028858137 0.958427091 1.064485218 1.100737143 1.108515408 1 9.927697894 TEAGAETRS(ph)PGKAEAESDALPDDTVIESEALPSDIAAEAR ddPTM_HeLa_SAHA_4h_R1 2 TEAGAETRSPGKAEAESDALPDDTVIESEALPSDIAAEAR 40 2 Q9GZR7-2;Q9GZR7;G3V529;A0A1W2PRR2;F5GYL3 Q9GZR7-2 DDX24 ATP-dependent RNA helicase DDX24 1 0 T(0.021)EAGAET(0.198)RS(0.554)PGKAEAES(0.198)DALPDDT(0.029)VIESEALPSDIAAEAR;T(0.008)EAGAET(0.206)RS(0.564)PGKAEAES(0.206)DALPDDT(0.015)VIESEALPSDIAAEAR ; 56.842 0.0005587 28520000 2141.93 889.34 1231.57 1434.78 1359.3 1044.75 2116.2 2436.81 660.27 1123.15 TRUE FALSE FALSE 2367.228025 918.1551995 1399.401946 1462.552242 1255.150728 955.7314224 1878.079606 2374.479929 655.6751273 1171.574493 2.020552717 0.783693401 1.194462626 1.248364701 1.07133668 0.81576667 1.603039002 2.026742595 0.559652955 1 10.19423297 -7.248735953 24.845511 1.481927692 1.237045693 0 0.504275681 1891.181442 3698796.55 0.084227026 0.102784959 5.64E-08 7.248735953 -0.244881999 TEAPAPASSTPQEPWPGPT(ph)APSPTSRPPWAVDPAFAER ddPTM_HeLa_SAHA_4h_R1 1 TEAPAPASSTPQEPWPGPTAPSPTSRPPWAVDPAFAER 38 1 Q9NR12-2;Q9NR12 Q9NR12-2 PDLIM7 PDZ and LIM domain protein 7 1 0 TEAPAPASSTPQEPWPGPT(0.893)APS(0.08)PT(0.013)S(0.013)RPPWAVDPAFAER 108.07 5.53E-15 7235300 1364.6 1405.6 1050.2 1161.6 1444.2 1716.9 1408.9 1396 1282.4 1252.4 TRUE FALSE FALSE 1508.134889 1451.142362 1193.315787 1184.084448 1333.545708 1570.610461 1250.366864 1360.292341 1273.475674 1306.397093 1.154423029 1.110797299 0.913440326 0.906374068 1.020781289 1.202245833 0.957110874 1.041254875 0.974799837 1 10.35137777 -6.817570755 24.99992691 1.077800161 1.009549453 0.060751026 0.091933205 156.0860855 69517.28047 0.016019052 0.021053166 1.52E-07 6.817570755 -0.068250709 TEAPAPASSTPQEPWPGPTAPS(ph)PTSRPPWAVDPAFAER ddPTM_HeLa_SAHA_4h_R1 1 TEAPAPASSTPQEPWPGPTAPSPTSRPPWAVDPAFAER 38 1 Q9NR12-2;Q9NR12 Q9NR12-2 PDLIM7 PDZ and LIM domain protein 7 1 0 TEAPAPASSTPQEPWPGPT(0.112)APS(0.74)PT(0.112)S(0.037)RPPWAVDPAFAER 116.19 5.20E-16 10428000 1416.6 1263.5 960.87 1062.2 1561.7 1580.3 1479.8 1374.5 1151.3 1066.7 TRUE FALSE FALSE 1565.604488 1304.438229 1091.81236 1082.760417 1442.042883 1445.649549 1313.289009 1339.34228 1143.28801 1112.690657 1.407043797 1.172327835 0.981236207 0.973101023 1.295996218 1.299237609 1.180282229 1.203696887 1.027498525 1 10.11983684 -9.721134061 1.640163015 1.000234679 1.220101365 0.196529561 0.130227654 0.474204471 2.307698951 0.110572867 0.024294644 1.90E-10 9.721134061 0.219866686 TEAQDLCRAS(ph)PEPPGPESSSR ddPTM_HeLa_SAHA_4h_R1 4 TEAQDLCRASPEPPGPESSSR 21 1 Q9C0C2;Q9C0C2-2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 T(0.001)EAQDLCRAS(0.999)PEPPGPESSSR;T(0.008)EAQDLCRAS(0.98)PEPPGPES(0.001)S(0.003)S(0.008)R;TEAQDLCRAS(0.999)PEPPGPESSSR;TEAQDLCRAS(0.999)PEPPGPESSSR ;;; 117.22 2.61E-05 515834000 7776.62 6369.62 7173.35 7439.86 7229.29 8430.57 9139.25 8969.52 5600.35 6518.39 TRUE FALSE FALSE 8594.600572 6575.999867 8150.896781 7583.869249 6675.383362 7712.238007 8110.877537 8740.092666 5561.376708 6799.429693 1.26401786 0.967139917 1.19876183 1.115368434 0.981756362 1.134247776 1.192876153 1.285415551 0.817918114 1 12.73119803 -9.659221262 1.507465845 1.000097654 1.153892652 0.330445644 0.116323708 0.489101826 2.001713251 0.074549869 0.016813971 2.19E-10 9.659221262 0.153794998 TEATQGLDYVPSAGTIS(ph)PTSSLEEDKGFK ddPTM_HeLa_SAHA_4h_R1 1 TEATQGLDYVPSAGTISPTSSLEEDKGFK 29 1 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 TEATQGLDY(0.001)VPS(0.067)AGT(0.305)IS(0.559)PT(0.048)S(0.018)S(0.002)LEEDKGFK 111.72 1.27E-09 3064300 1286.5 1342 1165.8 1236.2 1441.2 1723.4 1450.8 1191.6 1644 1433.9 TRUE FALSE FALSE 1421.819973 1385.481681 1324.669153 1260.128439 1330.775567 1576.556624 1287.552166 1161.120597 1632.55927 1495.722446 0.950590784 0.926295974 0.885638346 0.842488151 0.889720931 1.054043568 0.860822921 0.776294158 1.091485438 1 10.54662677 -1.000000001 0.060694201 1.156249773 0.411887334 0.423208275 0.070598071 269.4762648 1.233595884 3.093670748 17.79040378 0.1 1.000000001 -0.744362439 TEDEEFLIQHLLQAPS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 4 TEDEEFLIQHLLQAPSPPR 19 0 Q9ULL5;Q9ULL5-2 Q9ULL5 PRR12 Proline-rich protein 12 1 0 TEDEEFLIQHLLQAPS(1)PPR;TEDEEFLIQHLLQAPS(1)PPR;TEDEEFLIQHLLQAPS(1)PPR;TEDEEFLIQHLLQAPS(1)PPR ;;; 180.68 1.33E-09 144774000 6881.98 10972.6 7246.34 9942.5 10583.8 10208 9601.2 7619.57 16863.3 11585.1 TRUE FALSE FALSE 7605.858232 11328.11944 8233.833478 10134.95146 9772.871531 9338.220971 8520.847707 7424.672432 16745.94692 12084.59036 0.629384862 0.937402022 0.681349821 0.838667358 0.808705239 0.7727379 0.705100252 0.614391735 1.385727313 1 13.56088095 -9.504865064 1.204820226 1.002512084 0.742708341 0.485551227 0.15664437 0.319112261 0.815994849 0.069749319 0.016206945 3.13E-10 9.504865064 -0.259803743 TEDEVLTSK(ac)GDAWAK ddPTM_HeLa_SAHA_4h_R1 2 TEDEVLTSKGDAWAK 15 1 Q9BQ61 Q9BQ61 C19orf43 Uncharacterized protein C19orf43 0 1 ; TEDEVLTSK(1)GDAWAK;TEDEVLTSK(1)GDAWAK 279.77 6.50E-100 3989300 918.06 1001.54 957.75 1174.09 1285.57 1056.07 1269.17 1427.07 1075.33 1179.73 FALSE TRUE FALSE 1014.625763 1033.990553 1088.267182 1196.81621 1187.069904 966.0868947 1126.359651 1390.567616 1067.846691 1230.593934 0.824500865 0.840236998 0.884343042 0.97255169 0.964631689 0.785057417 0.915297581 1.129997132 0.867749029 1 10.26513907 -6.269868282 24.07154921 0.905795289 0.942644068 0.098920836 0.091514695 1358.418691 3879418.877 0.016083912 0.024834448 5.37E-07 6.269868282 0.036848779 TEDFQTPS(ph)PVLR ddPTM_HeLa_SAHA_4h_R1 1 TEDFQTPSPVLR 12 0 Q5VT06;H0Y7F7 Q5VT06 CEP350 Centrosome-associated protein 350 1 0 TEDFQTPS(1)PVLR 96.756 0.008465 2055900 876.15 869.6 522.89 784.7 1004.3 853.95 879.16 592.93 942.21 710.67 TRUE FALSE FALSE 968.3074769 897.7756106 594.1467261 799.8890032 927.350751 781.1886558 780.234603 577.7637092 935.6530839 741.3104616 1.306210457 1.211065616 0.801481642 1.079020255 1.25096137 1.053794188 1.052507206 0.779381567 1.262160906 1 9.533934061 TEDGDWEWS(ph)DDEMDEK ddPTM_HeLa_SAHA_4h_R1 3 TEDGDWEWSDDEMDEK 16 0 Q9UEW8-2;Q9UEW8 Q9UEW8-2 STK39 STE20/SPS1-related proline-alanine-rich protein kinase 1 0 TEDGDWEWS(1)DDEMDEK;TEDGDWEWS(1)DDEMDEK;TEDGDWEWS(1)DDEMDEK ;; 195.6 3.13E-12 15392200 4351.89 5559.86 3432.29 5000.23 5371.79 6447.58 5243.04 4343.47 8149.6 4754 TRUE FALSE FALSE 4809.641757 5740.003112 3900.024607 5097.016682 4960.204611 5898.209911 4653.07934 4232.370327 8092.88627 4958.968206 0.969887597 1.157499479 0.786458885 1.027838145 1.000249327 1.189402647 0.938316026 0.853478012 1.631969784 1 12.27582426 TEDGDWEWS(ph)DDEMDEKSEEGK ddPTM_HeLa_SAHA_4h_R1 6 TEDGDWEWSDDEMDEKSEEGK 21 1 Q9UEW8-2;Q9UEW8 Q9UEW8-2 STK39 STE20/SPS1-related proline-alanine-rich protein kinase 1 0 T(0.004)EDGDWEWS(0.996)DDEMDEKSEEGK;T(0.004)EDGDWEWS(0.996)DDEMDEKSEEGK;T(0.001)EDGDWEWS(0.999)DDEMDEKSEEGK;TEDGDWEWS(1)DDEMDEKSEEGK;TEDGDWEWS(0.999)DDEMDEKSEEGK;TEDGDWEWS(1)DDEMDEKSEEGK ;;;;; 128.38 6.58E-06 56155100 6745.55 8630.67 6419.55 7539.69 8891.38 8943.28 8591.23 8263.71 8664.73 7657.82 TRUE FALSE FALSE 7455.077899 8910.309371 7294.372842 7685.631603 8210.124385 8181.26223 7624.52219 8052.336264 8604.431438 7987.986097 0.933286289 1.115463806 0.913167944 0.962148846 1.027809048 1.024195853 0.954498681 1.008055869 1.077171559 1 12.96361611 -5.780762086 24.82360113 0.975002641 1.001598079 0 0.063229291 583.6076129 749752.0059 0.008133317 0.014757778 1.66E-06 5.780762086 0.026595437 TEDGGEFEEGAS(ph)ENNAK ddPTM_HeLa_SAHA_4h_R1 2 TEDGGEFEEGASENNAK 17 0 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 TEDGGEFEEGAS(1)ENNAK;TEDGGEFEEGAS(1)ENNAK ; 189.52 6.08E-12 9666800 659.05 715.98 567.97 737.09 704.01 708.13 813.95 781.66 871.11 862.48 TRUE FALSE FALSE 728.3719028 739.1782218 645.3699937 751.3574428 650.0689059 647.7933402 722.3622038 761.666269 865.0478746 899.6657337 0.809602806 0.821614289 0.717344197 0.835151784 0.722567151 0.720037805 0.802922882 0.846610291 0.961521421 1 9.813245265 -8.917911945 0.527223346 1.024644796 0.771960627 0.741086476 0.04653897 0.405578697 0.189214041 0.050140907 0.01215873 1.21E-09 8.917911945 -0.252684169 TEDSIRDYEDGMEVDT(ph)TPTVAGQFEDADVDH ddPTM_HeLa_SAHA_4h_R1 3 TEDSIRDYEDGMEVDTTPTVAGQFEDADVDH 31 1 P54105;E9PMI6;J3KN38 P54105 CLNS1A Methylosome subunit pICln 1 0 TEDSIRDYEDGMEVDT(0.499)T(0.499)PT(0.002)VAGQFEDADVDH;TEDSIRDYEDGMEVDT(0.482)T(0.482)PT(0.035)VAGQFEDADVDH;TEDSIRDYEDGMEVDT(0.806)T(0.185)PT(0.009)VAGQFEDADVDH ;; 158.97 1.74E-15 14052600 1284.54 1118.04 1006.33 1041.62 824.26 1266.3 1490.71 1092.56 1008.85 1357.8 TRUE FALSE FALSE 1419.653811 1154.26523 1143.467412 1061.782061 761.1053769 1158.404116 1322.971387 1064.613897 1001.829331 1416.341403 1.002338707 0.81496257 0.80733883 0.749665341 0.537374234 0.817884808 0.934076618 0.751664743 0.707336048 1 10.46795335 -7.163010618 2.619684295 1.002581492 0.765630907 0.041188313 0.131532413 0.154883378 2.046850263 0.016835378 0.0206927 6.87E-08 7.163010618 -0.236950585 TEDSIRDYEDGMEVDTTPTVAGQFEDADVDH ddPTM_HeLa_SAHA_4h_R1 4 TEDSIRDYEDGMEVDTTPTVAGQFEDADVDH 31 1 P54105;E9PMI6;J3KN38 P54105 CLNS1A Methylosome subunit pICln 0 0 ;;; ;;; 148.1 2.46E-14 25546900 1813.46 1833.65 2112.08 1964.11 2314.18 1997.67 2507.17 2581.51 1619.52 2070.47 FALSE FALSE TRUE 2004.208043 1893.061463 2399.903263 2002.128189 2136.868028 1827.457277 2225.056633 2515.478712 1608.249628 2159.738094 0.927986615 0.876523625 1.111201062 0.927023603 0.989410723 0.846147633 1.030243731 1.164714703 0.744650304 1 11.07664066 -4.376286127 3.685846554 0.961216305 1.16664665 0.322763618 0.097564987 0.160953059 3.476070159 0.009176772 0.070936889 4.20E-05 4.376286127 0.205430345 TEDSLMPEEEFLRR ddPTM_HeLa_SAHA_4h_R1 2 TEDSLMPEEEFLRR 14 1 Q15459;Q15459-2 Q15459 SF3A1 Splicing factor 3A subunit 1 0 0 ; ; 169.58 6.73E-06 7608900 1772.38 2181.9 1958.29 3409.9 2672.9 7703.2 2650 2251.96 3495 2701.7 FALSE FALSE TRUE 1958.80706 2252.594992 2225.155563 3475.903545 2468.102979 7046.844023 2351.815026 2194.358124 3470.67801 2818.183509 0.695060153 0.799307421 0.789570855 1.233384389 0.875777951 2.50049154 0.834514508 0.778642738 1.231530168 1 11.46054984 -6.007831223 2.031900089 0.843569239 1.314085903 0.09889278 0.481644619 0.436544695 3.593641061 0.071018425 0.138425477 9.82E-07 6.007831223 0.470516664 TEEAAADGGGGMQNEPLT(ph)PGYHGFPAR ddPTM_HeLa_SAHA_4h_R1 2 TEEAAADGGGGMQNEPLTPGYHGFPAR 27 0 O43251-6;O43251-8 O43251-6 1 0 TEEAAADGGGGMQNEPLT(1)PGYHGFPAR;TEEAAADGGGGMQNEPLT(1)PGYHGFPAR ; 179.64 4.88E-14 9205600 1008.04 962.97 1398.08 1050.38 1341.92 1453.21 1286.24 1308.95 1330.03 1270.33 TRUE FALSE FALSE 1114.070272 994.1708598 1588.603062 1070.711624 1239.10238 1329.388332 1141.50889 1275.468954 1320.774213 1325.100143 0.840744209 0.750260926 1.198855098 0.808023174 0.935100932 1.003236125 0.861451035 0.96254533 0.996735394 1 10.37188568 -9.668199554 1.55100654 0.99958565 0.908508891 0.059170945 0.117846009 0.856081724 3.734138682 0.078405999 0.017924556 2.15E-10 9.668199554 -0.091076758 TEEARPSPAPGPGT(ph)PT(ph)GTPTR ddPTM_HeLa_SAHA_4h_R1 1 TEEARPSPAPGPGTPTGTPTR 21 1 Q4KMP7 Q4KMP7 TBC1D10B TBC1 domain family member 10B 2 0 TEEARPS(0.029)PAPGPGT(0.969)PT(0.533)GT(0.169)PT(0.299)R 108.47 0.00047861 3438800 257.03 468.35 317.99 318.71 390.57 451.38 460.48 349.32 446.02 329.38 TRUE FALSE FALSE 284.0655947 483.5248473 361.3240212 324.8790929 360.644611 412.9198846 408.6655785 340.3849002 442.9161105 343.5811837 0.826778672 1.40730887 1.051640888 0.945567186 1.049663451 1.201811694 1.18942945 0.990697152 1.289116318 1 8.424507219 TEEARPSPAPGPGT(ph)PTGTPTR ddPTM_HeLa_SAHA_4h_R1 4 TEEARPSPAPGPGTPTGTPTR 21 1 Q4KMP7 Q4KMP7 TBC1D10B TBC1 domain family member 10B 1 0 T(0.008)EEARPS(0.026)PAPGPGT(0.615)PT(0.298)GT(0.041)PT(0.012)R;T(0.159)EEARPS(0.047)PAPGPGT(0.718)PT(0.073)GT(0.003)PT(0.001)R;T(0.001)EEARPS(0.002)PAPGPGT(0.903)PT(0.082)GT(0.01)PT(0.002)R;TEEARPSPAPGPGT(0.735)PT(0.198)GT(0.055)PT(0.012)R ;;; 101.04 0.00030423 78829000 1762.99 1741.29 1709.89 2040.84 2075.7 2273.29 2344.44 2068.68 2117.19 2183.9 TRUE FALSE FALSE 1948.429377 1797.708939 1942.904904 2080.343409 1916.660314 2079.592903 2080.637441 2015.766161 2102.456302 2278.058617 0.855302565 0.789140773 0.852877485 0.913208903 0.841356891 0.912879453 0.913337974 0.884861411 0.922915805 1 11.15358915 -9.187725907 0.9684463 0.998813912 0.870682681 0.369953576 0.043415864 0.296705569 0.507350276 0.025642647 0.007527863 6.49E-10 9.187725907 -0.128131231 TEEARPSPAPGPGTPT(ph)GTPTR ddPTM_HeLa_SAHA_4h_R1 1 TEEARPSPAPGPGTPTGTPTR 21 1 Q4KMP7 Q4KMP7 TBC1D10B TBC1 domain family member 10B 1 0 TEEARPSPAPGPGT(0.037)PT(0.658)GT(0.262)PT(0.043)R 101.38 0.0002978 54265000 512.66 547.56 420.39 540.4 576.24 417.45 489.62 609.97 602.3 593.89 TRUE FALSE FALSE 566.583931 565.3013033 477.6785599 550.8602234 532.0886157 381.8809115 434.526669 594.3678506 598.1085453 619.4955043 0.914589254 0.912518815 0.771076717 0.889207782 0.858906339 0.616438552 0.701420214 0.959438521 0.965476813 1 9.274950003 -7.043762733 0.512981014 0.987880724 0.764101945 0.38602641 0.09257047 0.567472219 0.341741852 0.03241724 0.046155989 9.04E-08 7.043762733 -0.22377878 TEEGPTLSYGR ddPTM_HeLa_SAHA_4h_R1 1 TEEGPTLSYGR 11 0 A0A0R4J2E8;A8MXP9;P43243;D6REM6;D6R991 A0A0R4J2E8 MATR3 Matrin-3 0 0 133.99 0.0069695 4298700 1202.5 1730.6 1579.6 1532.7 1472.7 2162.3 1860.1 1857.9 1538.4 1380.7 FALSE FALSE TRUE 1328.984467 1786.672575 1794.859662 1562.367625 1359.862044 1978.059875 1650.796652 1810.377608 1527.694149 1440.228734 0.922759306 1.240547792 1.246232365 1.084805203 0.944198662 1.373434531 1.146204498 1.257007006 1.060730225 1 10.49208224 -7.264677561 24.99146846 0.963525225 1.179698672 0.359787625 0.113871633 185.1295338 1428778.833 0.018565195 0.021704468 5.44E-08 7.264677561 0.216173447 TEELIES(ph)PK ddPTM_HeLa_SAHA_4h_R1 3 TEELIESPK 9 0 F8VXG7;Q99590-2;Q99590;A0A0A0MTP7 F8VXG7 SCAF11 Protein SCAF11 1 0 T(0.001)EELIES(0.999)PK;TEELIES(1)PK;TEELIES(1)PK ;; 108.9 0.0066156 9888500 4872.2 6312 5119.5 5635.7 5837 7721 5005.2 5054.4 10192.9 6885.5 TRUE FALSE FALSE 5384.68035 6516.512941 5817.158799 5744.787123 5389.770321 7063.127363 4442.001723 4925.115767 10121.96678 7182.367602 0.749708265 0.907293152 0.809922176 0.799845878 0.75041694 0.983398199 0.618459256 0.685723154 1.409279967 1 12.81024378 -13.52287875 0.243703013 2.310557726 0.759816606 0.438678061 0.160073424 34.46007237 0.452237983 21.71150891 0.061075542 3.00E-14 13.52287875 -1.55074112 TEELIES(ph)PKLESSEGEIIQTVDR ddPTM_HeLa_SAHA_4h_R1 6 TEELIESPKLESSEGEIIQTVDR 23 1 F8VXG7;Q99590-2;Q99590;A0A0A0MTP7 F8VXG7 SCAF11 Protein SCAF11 1 0 T(0.003)EELIES(0.995)PKLES(0.001)S(0.001)EGEIIQTVDR;T(0.002)EELIES(0.997)PKLESSEGEIIQTVDR;TEELIES(1)PKLESSEGEIIQTVDR;TEELIES(0.999)PKLES(0.001)SEGEIIQTVDR;TEELIES(1)PKLESSEGEIIQTVDR;T(0.002)EELIES(0.977)PKLES(0.015)S(0.006)EGEIIQTVDR ;;;;; 105.46 4.64E-05 340114500 4311.19 4925.05 4553.56 4760.52 4737.46 6205.86 5502.63 5262.7 5857.34 5037.49 TRUE FALSE FALSE 4764.660745 5084.624851 5174.095443 4852.666748 4374.476838 5677.085815 4883.45959 5128.087754 5816.578294 5254.680847 0.906745982 0.967637236 0.984664073 0.923494098 0.832491443 1.080386417 0.929354176 0.97590851 1.106932745 1 12.35938743 -4.20941328 0.00348606 1.88449019 2.24E-07 0.012042621 0.076224535 214437.401 116.2360204 30627.15307 32223.74841 6.17E-05 4.20941328 -1.884489966 TEELIESPKLESS(ph)EGEIIQTVDR ddPTM_HeLa_SAHA_4h_R1 2 TEELIESPKLESSEGEIIQTVDR 23 1 F8VXG7;Q99590-2;Q99590;A0A0A0MTP7 F8VXG7 SCAF11 Protein SCAF11 1 0 TEELIES(0.086)PKLES(0.088)S(0.811)EGEIIQT(0.015)VDR;TEELIESPKLES(0.218)S(0.782)EGEIIQTVDR ; 101.86 6.07E-05 8265500 1527.95 1542.02 1720.01 2061.83 1707.47 1700.47 2186.72 2055.96 1612.24 1938.84 TRUE FALSE FALSE 1688.666791 1591.98246 1954.404005 2101.739701 1576.644017 1555.580389 1940.66451 2003.37152 1601.020291 2022.432881 0.834968027 0.787162073 0.966362851 1.039213573 0.779577919 0.769162925 0.959569303 0.990575034 0.791630865 1 10.98187611 -9.474045039 1.242453014 0.999342416 0.883766828 0 0.111729468 0.66597403 1.855726091 0.064370475 0.01619391 3.36E-10 9.474045039 -0.115575587 TEES(ph)PASDEAGEK ddPTM_HeLa_SAHA_4h_R1 1 TEESPASDEAGEK 13 0 A6NEL0;P05114;A6NL93 A6NEL0 HMGN1 Non-histone chromosomal protein HMG-14 1 0 T(0.001)EES(0.887)PAS(0.113)DEAGEK 79.337 0.019844 7018000 1514.2 2557.9 1377.5 2079.9 1913.4 3640.5 1928.4 1961.2 4654.2 2225.4 TRUE FALSE FALSE 1673.470503 2640.777638 1565.218526 2120.159472 1766.795705 3330.308919 1711.411357 1911.035344 4621.811043 2321.347885 0.720904658 1.137605292 0.674271416 0.91333121 0.761107681 1.434644476 0.737248978 0.823243839 1.99100319 1 11.18074703 TEES(ph)PASDEAGEKEAK ddPTM_HeLa_SAHA_4h_R1 1 TEESPASDEAGEKEAK 16 1 A6NEL0;P05114;A6NL93 A6NEL0 HMGN1 Non-histone chromosomal protein HMG-14 1 0 T(0.079)EES(0.886)PAS(0.034)DEAGEKEAK 67.644 0.016034 5452000 1053.8 1267.6 1043.8 1095.5 1242.5 1320.8 1135.5 1370.3 1286.8 1183.8 TRUE FALSE FALSE 1164.643519 1308.671072 1186.043628 1116.704987 1147.299918 1208.260409 1007.730552 1335.24971 1277.845054 1234.839411 0.943153829 1.059790496 0.960484106 0.904332156 0.929108601 0.978475742 0.816082271 1.081314459 1.034826911 1 10.27010772 -6.519155524 24.99114895 0.980390831 0.935821125 0.11955026 0.070285447 289.655649 1944242.133 0.009890157 0.014166473 3.03E-07 6.519155524 -0.044569706 TEESPAS(ph)DEAGEKEAK ddPTM_HeLa_SAHA_4h_R1 2 TEESPASDEAGEKEAK 16 1 A6NEL0;P05114;A6NL93 A6NEL0 HMGN1 Non-histone chromosomal protein HMG-14 1 0 TEESPAS(1)DEAGEKEAK;TEESPAS(1)DEAGEKEAK ; 159.64 4.96E-12 16552000 1834.22 2214.28 1562.81 2178.52 2435.12 3015.56 2618.85 2465.38 2914.8 2407.93 TRUE FALSE FALSE 2027.151675 2286.024125 1775.781608 2220.688405 2248.541632 2758.617323 2324.170106 2402.319149 2894.515669 2511.747646 0.807068209 0.910132882 0.706990454 0.884120826 0.895210008 1.098286019 0.92531991 0.956433324 1.152391114 1 11.29447581 -5.476584194 24.73114822 0.888548262 0.988244537 0.083134767 0.117984264 513.9780247 274572.975 0.014387932 0.032171328 3.34E-06 5.476584194 0.099696275 TEESPASDEAGEK ddPTM_HeLa_SAHA_4h_R1 1 TEESPASDEAGEK 13 0 A6NEL0;P05114;A6NL93 A6NEL0 HMGN1 Non-histone chromosomal protein HMG-14 0 0 116.84 0.0079243 1926300 672.53 526.87 681.9 488.79 498.39 798.79 627.46 688.02 816.78 628.2 FALSE FALSE TRUE 743.2697911 543.9409337 774.8257808 498.2512373 460.2034659 730.7285981 556.8565494 670.4214446 811.0959615 655.2847763 1.13426989 0.830083276 1.182426036 0.760358329 0.702295372 1.115131351 0.849793204 1.023099374 1.237776293 1 9.355978205 -7.266992942 24.84687872 1.063405225 0.923060197 0.232516322 0.155832884 552.0509015 2469895.365 0.024379839 0.028293951 5.41E-08 7.266992942 -0.140345028 TEESPASDEAGEKEAKS(ph)D ddPTM_HeLa_SAHA_4h_R1 2 TEESPASDEAGEKEAKSD 18 2 A6NEL0;P05114;A6NL93 A6NEL0 HMGN1 Non-histone chromosomal protein HMG-14 1 0 TEESPASDEAGEKEAKS(1)D;TEESPASDEAGEKEAKS(1)D ; 87.802 0.0027809 96928000 3777.1 4863.7 3574.6 4869.5 4433 5633.3 4599.3 4768.3 5973.2 4479.5 TRUE FALSE FALSE 4174.392708 5021.287071 4061.727872 4963.756214 4093.344498 5153.311148 4081.774659 4646.33379 5931.632015 4672.633167 0.893370517 1.074616151 0.86925888 1.062303852 0.87602522 1.1028709 0.873549135 0.994371615 1.269440977 1 12.19002007 TEFLDLDNSPLSPPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 TEFLDLDNSPLSPPSPR 17 0 Q8NCF5 Q8NCF5 NFATC2IP NFATC2-interacting protein 1 0 TEFLDLDNS(0.055)PLS(0.161)PPS(0.784)PR;TEFLDLDNS(0.017)PLS(0.066)PPS(0.918)PR ; 128.8 0.00015467 6600100 3792.6 4267.1 3568.6 4100.4 4418 4579 4315.3 5132.3 4841.6 4371.2 TRUE FALSE FALSE 4191.523069 4405.35684 4054.910224 4179.769171 4079.493794 4188.843439 3829.731087 5001.023197 4807.906911 4559.663824 0.919261426 0.966158254 0.88930026 0.916683627 0.894691791 0.918673745 0.839915229 1.096796472 1.054443287 1 12.15471175 -9.260774979 0.673241253 1.008441294 0.923506977 0.227867883 0.066408263 1.316629397 0.905851058 0.065911838 0.012478927 5.49E-10 9.260774979 -0.084934317 TEFLHSQNSLS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 TEFLHSQNSLSPR 13 0 Q96FS4;F6RY50 Q96FS4 SIPA1 Signal-induced proliferation-associated protein 1 1 0 TEFLHSQNS(0.02)LS(0.98)PR;TEFLHSQNS(0.092)LS(0.908)PR ; 126.07 0.0007085 27206000 2674.9 3572.3 2247.7 2952 3883.3 4335.1 3774.2 3491.1 3894.4 2913.4 TRUE FALSE FALSE 2956.258255 3688.044864 2554.00485 3009.140229 3585.762393 3965.725091 3349.517083 3401.802717 3867.298553 3039.010932 0.972769865 1.213567488 0.840406602 0.990170913 1.179910989 1.304939397 1.102173424 1.119378243 1.272551708 1 11.56938615 -5.76067145 24.46206072 0.993672213 1.180451394 0.109667008 0.132462141 10.42234735 331971.6505 0.013821251 0.026390722 1.74E-06 5.76067145 0.186779181 TEFS(ph)PAAFEQEQLGSPQVR ddPTM_HeLa_SAHA_4h_R1 1 TEFSPAAFEQEQLGSPQVR 19 0 Q92585 Q92585 MAML1 Mastermind-like protein 1 1 0 T(0.012)EFS(0.988)PAAFEQEQLGSPQVR 150.61 5.51E-05 4943200 244.98 232.96 269.59 433.84 243.78 316.06 337.28 189.74 353.37 353.41 TRUE FALSE FALSE 270.7481204 240.5080569 306.3283212 442.2376005 225.1016291 289.1299099 299.3283667 184.8867255 350.9108694 368.6472346 0.734436868 0.652407055 0.830952446 1.199622726 0.610615266 0.784299685 0.811964226 0.501527499 0.951887974 1 8.526097125 -13.52287874 0.278253857 2.760717728 0.752796766 0.185129972 0.174701699 57.79552096 0.779148375 56.44393581 0.083286944 3.00E-14 13.52287874 -2.007920962 TEGAEAT(ph)PGAQK ddPTM_HeLa_SAHA_4h_R1 1 TEGAEATPGAQK 12 0 H3BM18;X6RHM1;Q16666-3;Q16666-2;Q16666 H3BM18 IFI16 Gamma-interferon-inducible protein 16 1 0 TEGAEAT(1)PGAQK 142.1 0.0010421 2141700 592.64 871.4 367.08 567.95 1103.6 1175.4 939.15 883.63 1146 906.05 TRUE FALSE FALSE 654.9765943 899.6339317 417.1037507 578.9434935 1019.042406 1075.249307 833.4743703 861.0280241 1138.024893 945.1142496 0.693013141 0.951878497 0.441326274 0.612564559 1.078221397 1.137692409 0.881876843 0.911030623 1.20411357 1 9.884344929 -5.735406802 24.99292497 0.810098885 1.003288092 0.154809154 0.21143921 308.5157233 296193.0418 0.029035293 0.05805562 1.84E-06 5.735406802 0.193189208 NISFNDK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 NISFNDKK 8 1 E7EQR4;P15311;A0A2R8Y7M3;A0A2R8Y5S7;P35241;P35241-5;P35241-4;P26038 E7EQR4;A0A2R8Y7M3;P26038 EZR;RDX;MSN Ezrin;Radixin;Moesin 0 1 NISFNDK(1)K 91.265 0.0099203 8027800 2187.1 6866.9 3557.4 5104.4 7205.5 8291.8 11962 10085 3310.5 1708.7 FALSE TRUE FALSE 2417.149213 7089.392066 4042.183946 5203.203043 6653.416147 7585.291992 10616.00428 9827.040303 3287.461961 1782.370419 1.356143025 3.977507699 2.267869744 2.919260209 3.732903147 4.255732652 5.956115611 5.513466896 1.844432518 1 10.79958148 -4.797087318 0.296909135 0.776734 8.919503668 0.800323732 0.719259202 1.430908749 0.119678115 0.339715781 4.075542853 1.60E-05 4.797087318 8.142769668 up TEIKEEEDQPSTSATQSS(ph)PAPGQSK ddPTM_HeLa_SAHA_4h_R1 2 TEIKEEEDQPSTSATQSSPAPGQSK 25 1 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 1 0 TEIKEEEDQPSTS(0.001)AT(0.032)QS(0.152)S(0.749)PAPGQS(0.065)K;TEIKEEEDQPST(0.001)S(0.014)AT(0.068)QS(0.344)S(0.574)PAPGQSK ; 115.31 3.14E-07 61161000 4397.1 5230.4 3769.1 4571.6 4983.2 5524.9 4803.4 4399.1 7517 5441 TRUE FALSE FALSE 4859.607153 5399.868392 4282.733319 4660.089929 4601.388293 5054.147438 4262.90879 4286.577392 7464.688585 5675.588138 0.856229704 0.951420057 0.754588461 0.821076127 0.810733299 0.890506378 0.751095514 0.755265761 1.315227322 1 12.47055419 -13.52287873 0.10056029 1.61993422 0.686708051 0.516001119 0.113175999 51.48260292 0.386075882 6.649247502 0.435137888 3.00E-14 13.52287873 -0.933226169 TEIMS(ph)PLYQDEAPK ddPTM_HeLa_SAHA_4h_R1 2 TEIMSPLYQDEAPK 14 0 Q8IY81 Q8IY81 FTSJ3 pre-rRNA processing protein FTSJ3 1 0 T(0.45)EIMS(0.55)PLYQDEAPK;TEIMS(1)PLYQDEAPK ; 184.87 2.52E-08 27991000 4809.2 5371.1 4433.5 5864.2 6939.9 7162.4 6094.1 5126.6 7598.5 6114.1 TRUE FALSE FALSE 5315.053721 5545.127164 5037.674291 5977.710071 6408.166361 6552.123225 5408.375829 4995.468995 7545.62142 6377.708773 0.833379809 0.869454433 0.789887791 0.937281755 1.004775632 1.02734751 0.848012354 0.783270164 1.183124173 1 12.63882251 -9.50014063 1.268473022 0.999535558 0.885406891 0.331870447 0.098400549 0.595609686 1.726059055 0.0580387 0.014317519 3.16E-10 9.50014063 -0.114128667 TEKEPDATPPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 TEKEPDATPPSPR 13 1 A0A1W2PS85;R4GMW8;P28715;A0A494C0S2;A0A090HNM7 A0A1W2PS85 BIVM-ERCC5;ERCC5;ERCC5-201 DNA repair protein complementing XP-G cells 1 0 TEKEPDATPPS(1)PR;TEKEPDATPPS(1)PR ; 90.498 0.0059729 32864000 4999.9 5157.2 3777.4 4726 5423.5 7123.1 6481.2 5630.8 5299.1 5524.5 TRUE FALSE FALSE 5525.812422 5324.296664 4292.1644 4817.478564 5007.952602 6516.171807 5751.918318 5486.772289 5262.223132 5762.688231 0.958894912 0.923925857 0.744819818 0.83597765 0.869030633 1.130752098 0.998131096 0.952120273 0.913154229 1 12.49252625 -5.277173527 24.93062949 0.940117188 1.024114168 0.224579801 0.087290904 1228.728617 1946909.363 0.014603467 0.032757176 5.28E-06 5.277173527 0.08399698 TEKGESSSPS(ph)PSAEK ddPTM_HeLa_SAHA_4h_R1 1 TEKGESSSPSPSAEK 15 1 E9PHV5;P28290-3;P28290;P28290-2 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 TEKGESS(0.003)S(0.042)PS(0.82)PS(0.135)AEK 65.924 0.019679 4102800 770.34 1227.1 668.05 1011.6 892.87 1331 1134.5 777 1249.3 977.44 TRUE FALSE FALSE 851.3678956 1266.858845 759.0883749 1031.180981 824.4584935 1217.591312 1006.843074 757.1254651 1240.60602 1019.582222 0.835016419 1.242527398 0.74450923 1.011375992 0.808623842 1.194206103 0.987505522 0.74258402 1.216778787 1 9.993762408 TELADK(ac)VTK ddPTM_HeLa_SAHA_4h_R1 2 TELADKVTK 9 1 P35579 P35579 MYH9 Myosin-9 0 1 ; TELADK(1)VTK;TELADK(1)VTK 125.75 0.0018362 3396700 936.47 2870.8 1292.47 1794.09 2690.7 1864.23 2693.1 2197.1 1917.91 915.15 FALSE TRUE FALSE 1034.972211 2963.815804 1468.601081 1828.817206 2484.539147 1705.387116 2390.0653 2140.901363 1904.563108 954.6065951 1.084187158 3.104751024 1.538435926 1.91578103 2.602683828 1.786481599 2.503717565 2.242705397 1.995128797 1 9.898762493 -7.367145563 9.446582071 1.037554917 2.208404386 0.329545482 0.517583512 0.160848603 13.34068756 0.065742669 0.075086691 4.29E-08 7.367145563 1.170849469 TELESTIFGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 TELESTIFGSPR 12 0 Q9UQK1 Q9UQK1 PPP1R3C Protein phosphatase 1 regulatory subunit 3C 1 0 TELESTIFGS(1)PR;TELES(0.003)T(0.003)IFGS(0.994)PR;TELESTIFGS(1)PR;TELESTIFGS(1)PR ;;; 176.87 3.90E-05 19437600 2683.46 2884.51 3418.62 4866.23 5547.28 6520 5811.2 5982.8 3935.53 3658.21 TRUE FALSE FALSE 2965.718635 2977.970017 3884.49173 4960.422918 5122.248605 5964.459319 5157.308482 5829.768639 3908.142326 3815.933336 0.777193513 0.780404099 1.01796635 1.299923893 1.342331785 1.563040754 1.351519544 1.527743838 1.024164204 1 11.89782025 -6.194357469 1.898967859 0.88277733 1.451077279 0.87087082 0.097840282 0.089888074 0.632804178 0.017294775 0.03141036 6.39E-07 6.194357469 0.568299949 TELGSQT(ph)PESSR ddPTM_HeLa_SAHA_4h_R1 4 TELGSQTPESSR 12 0 H0YID1;F8VUX5;H0YIQ8;F8VXI8;F8VX10;Q9H9L4-4;Q9H9L4 H0YID1 KANSL2 KAT8 regulatory NSL complex subunit 2 1 0 T(0.001)ELGS(0.006)QT(0.957)PES(0.008)S(0.028)R;TELGS(0.009)QT(0.781)PES(0.105)S(0.105)R;TELGSQT(0.998)PES(0.001)SR;TELGS(0.013)QT(0.881)PES(0.102)S(0.004)R ;;; 181.76 2.50E-05 26722000 4047.06 4070.62 4243.82 4331.87 5064 6055.9 4703.84 4744.01 4501.13 4292.19 TRUE FALSE FALSE 4472.748339 4202.510759 4822.145689 4415.719608 4675.997414 5539.90325 4174.551543 4622.665093 4469.80627 4477.247316 0.998995147 0.938637172 1.077033576 0.986257693 1.044391137 1.23734582 0.932392439 1.032479282 0.998338031 1 12.1283963 -5.600417024 6.291425715 1.000359957 1.067664169 0.140155435 0.076339411 0.296837115 18.97520657 0.010479859 0.021143678 2.51E-06 5.600417024 0.067304212 TELSQSDMFDQR ddPTM_HeLa_SAHA_4h_R1 2 TELSQSDMFDQR 12 0 B7Z7P8;P62495-2;P62495 B7Z7P8 ETF1 Eukaryotic peptide chain release factor subunit 1 0 0 ; ; 150.61 0.0015739 27177000 1772.67 1932.51 1421.63 1552.91 2045.6 2561.8 2262 2110.1 2207.46 1961.38 FALSE FALSE TRUE 1959.127564 1995.124592 1615.362333 1582.968819 1888.86657 2343.520228 2007.473807 2056.126697 2192.098106 2045.944691 0.95756624 0.975160571 0.789543501 0.773710465 0.92322465 1.145446521 0.981196518 1.004976677 1.071435663 1 10.99855143 -2.516486116 12.78549375 0.962566426 1.074730825 0 0.107786603 0 0 0.014176924 0 0.003044485 2.516486116 0.112164399 TEMDKS(ph)PFNSPSPQDSPR ddPTM_HeLa_SAHA_4h_R1 3 TEMDKSPFNSPSPQDSPR 18 1 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 1 0 T(0.003)EMDKS(0.997)PFNSPSPQDSPR;T(0.036)EMDKS(0.897)PFNS(0.033)PS(0.033)PQDSPR;TEMDKS(0.5)PFNS(0.5)PSPQDSPR ;; 226.79 5.62E-28 66549400 4103.61 4054.06 3519.34 4395.9 5088 5438.1 4714.7 5135.1 4456.7 3925.44 TRUE FALSE FALSE 4535.246528 4185.414204 3998.937327 4480.989001 4698.158539 4974.743286 4184.189548 5003.751578 4425.685462 4094.684929 1.107593528 1.022157816 0.976616613 1.094342808 1.147379742 1.214927002 1.021858732 1.222011379 1.080836631 1 11.99953673 -5.964311454 4.428449377 1.044022443 1.145657083 0.425623262 0.062000165 0.176483604 7.93323213 0.009672655 0.017638763 1.09E-06 5.964311454 0.101634639 TEMDKSPFNS(ph)PSPQDSPR ddPTM_HeLa_SAHA_4h_R1 1 TEMDKSPFNSPSPQDSPR 18 1 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 1 0 TEMDKSPFNS(0.593)PS(0.4)PQDS(0.007)PR 62.167 0.013333 26457000 824.97 882.03 831.64 680.51 759.88 803.76 697.89 757.78 769.09 719.27 TRUE FALSE FALSE 911.7441297 910.6083507 944.9715682 693.6822551 701.6581586 735.2751262 619.3615805 738.3970849 763.7378401 750.2812497 1.215203139 1.213689335 1.259489783 0.924562963 0.935193514 0.979999336 0.825505876 0.984160387 1.017935395 1 9.551287694 -6.232291314 23.90851194 1.125156434 0.92716466 0.587170858 0.08808983 292.8835485 240235.5997 0.016090019 0.026678213 5.86E-07 6.232291314 -0.197991774 TEMDKSPFNSPS(ph)PQDSPR ddPTM_HeLa_SAHA_4h_R1 1 TEMDKSPFNSPSPQDSPR 18 1 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 1 0 T(0.18)EMDKS(0.265)PFNS(0.031)PS(0.516)PQDS(0.007)PR 59.15 0.016771 46258000 708.32 1049.4 582.53 1027.4 1231.5 1512.2 1080.6 1193.5 1134.3 1054.3 TRUE FALSE FALSE 782.8243475 1083.401249 661.9141547 1047.286813 1137.142736 1383.352053 959.008044 1162.971998 1126.406314 1099.756033 0.71181637 0.985128716 0.601873629 0.952290128 1.033995452 1.257871757 0.872018898 1.057481808 1.024232903 1 10.1029678 -5.936384511 4.506763933 0.85082548 1.054247867 0.256744134 0.150968959 0.21711992 8.870060948 0.023195827 0.042689298 1.16E-06 5.936384511 0.203422387 TEMDKSPFNSPSPQDS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 TEMDKSPFNSPSPQDSPR 18 1 A0A286YEX4;P08651-4;P08651-5;P08651-3;P08651-6;P08651-2;P08651 A0A286YEX4 NFIC Nuclear factor 1 C-type 1 0 TEMDKS(0.003)PFNS(0.061)PS(0.092)PQDS(0.844)PR 55.02 0.021479 26285000 1613.5 1335.2 1256.1 1900.9 1653.5 1784.4 1660.6 1568.1 1424.8 1642 TRUE FALSE FALSE 1783.215333 1378.461356 1427.274767 1937.694668 1526.809187 1632.359081 1473.744918 1527.990273 1414.884701 1712.794656 1.041114489 0.804802462 0.83330174 1.131305882 0.89141403 0.953038402 0.860432926 0.892103597 0.82606791 1 10.74213648 -7.303104069 24.98203454 1.019415186 0.914180329 0 0.104538884 497.3075871 298183.137 0.014409755 0.016478274 4.98E-08 7.303104069 -0.105234857 TEMQDNTYPEILR ddPTM_HeLa_SAHA_4h_R1 4 TEMQDNTYPEILR 13 0 O43143 O43143 DHX15 Pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15 0 0 ;;; ;;; 197.21 7.22E-08 18700100 1774.46 1985.81 2182.28 2236.52 2150.5 2485.52 2264.1 2381.73 2485.05 2118.53 FALSE FALSE TRUE 1961.105844 2050.151547 2479.669754 2279.811079 1985.729155 2273.739713 2009.337509 2320.808795 2467.756335 2209.870196 0.887430333 0.927724873 1.122088419 1.031649317 0.898572757 1.028901931 0.909255898 1.05020141 1.116697415 1 11.10974592 TENNDHINLK ddPTM_HeLa_SAHA_4h_R1 1 TENNDHINLK 10 0 P61956-2;P61956 P61956-2 SUMO2 Small ubiquitin-related modifier 2 0 0 91.549 0.01853 6326600 5902.8 5369.6 4902.8 5761.7 6344.4 6572.1 6061.3 5630.4 6081.6 5307.5 FALSE FALSE TRUE 6523.683587 5543.578563 5570.928051 5873.226035 5858.293443 6012.120106 5379.266572 5486.382521 6039.27765 5536.332299 1.178340323 1.001308856 1.006248858 1.06085143 1.05815423 1.085939171 0.971630004 0.990977821 1.090844502 1 12.43471482 TEPAAEAEAASGPS(ph)ESPSPPAAEELPGSHAEPPVPAQGEAPGEQAR ddPTM_HeLa_SAHA_4h_R1 2 TEPAAEAEAASGPSESPSPPAAEELPGSHAEPPVPAQGEAPGEQAR 46 0 P55884;P55884-2 P55884 EIF3B Eukaryotic translation initiation factor 3 subunit B 1 0 TEPAAEAEAAS(0.007)GPS(0.349)ES(0.31)PS(0.31)PPAAEELPGS(0.024)HAEPPVPAQGEAPGEQAR;TEPAAEAEAAS(0.01)GPS(0.624)ES(0.182)PS(0.182)PPAAEELPGS(0.001)HAEPPVPAQGEAPGEQAR ; 100.81 1.07E-16 68754500 2331.3 2725 2048.12 2308.1 2345.6 3020.7 2853.7 2503.5 2354.5 2525.3 TRUE FALSE FALSE 2576.51683 2813.291788 2327.227127 2352.776613 2165.880635 2763.319366 2532.594165 2439.464095 2338.114843 2634.178042 0.978110359 1.067996067 0.88347374 0.893172966 0.822222568 1.049025283 0.961436215 0.926081706 0.88760699 1 11.36313714 -6.744563851 24.99755494 0.995249377 0.924186118 0.149809059 0.06869291 264.5561288 391883.51 0.009481046 0.013388584 1.80E-07 6.744563851 -0.071063258 TEPAAEAEAASGPSES(ph)PSPPAAEELPGSHAEPPVPAQGEAPGEQAR ddPTM_HeLa_SAHA_4h_R1 1 TEPAAEAEAASGPSESPSPPAAEELPGSHAEPPVPAQGEAPGEQAR 46 0 P55884;P55884-2 P55884 EIF3B Eukaryotic translation initiation factor 3 subunit B 1 0 TEPAAEAEAAS(0.012)GPS(0.119)ES(0.392)PS(0.392)PPAAEELPGS(0.085)HAEPPVPAQGEAPGEQAR 88.213 1.48E-11 9198100 974.94 983.04 1086.7 808.89 808.1 1202.6 1095.1 1169.7 984.44 856.18 TRUE FALSE FALSE 1077.488662 1014.891141 1234.789817 824.5472356 746.1835526 1100.131714 971.8764659 1139.780768 977.5892019 893.0941098 1.206467102 1.13637648 1.382597649 0.923247871 0.835503834 1.231820591 1.088212827 1.276215748 1.094609393 1 9.802668397 -9.532451332 1.318470634 1.000654435 1.137430621 0.036085675 0.155002385 0.876262604 2.748558384 0.105473322 0.025703964 2.93E-10 9.532451332 0.136776186 TEPLNSSETTATTGDGALDTFTGSVITSSGYS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 TEPLNSSETTATTGDGALDTFTGSVITSSGYSPR 34 0 E9PLN6;F2Z2Y1;O95677-3;O95677-2;O95677-4;O95677 E9PLN6 EYA4 Eyes absent homolog;Eyes absent homolog 4 1 0 TEPLNSSETTATTGDGALDTFTGSVITS(0.002)S(0.01)GYS(0.988)PR 138.3 2.15E-19 3986000 400.15 355.84 307 399.57 414.43 584.63 394.84 534.83 598.46 462.37 TRUE FALSE FALSE 442.239613 367.3694495 348.8363612 407.3042551 382.6764629 534.816235 350.411564 521.149823 594.2952681 482.3050335 0.916929292 0.761695243 0.72326917 0.844495137 0.793432447 1.1088755 0.726535159 1.08053988 1.232197939 1 8.913802056 -7.948445359 1.571267637 0.976960968 0.85983527 0.2042356 0.151445282 0.477221839 2.431696507 0.027403684 0.024398188 1.13E-08 7.948445359 -0.117125697 EGVKFDESEK(ac)TK ddPTM_HeLa_SAHA_4h_R1 1 EGVKFDESEKTK 12 2 P14625 P14625 HSP90B1 Endoplasmin 0 1 EGVKFDESEK(1)TK 107.93 0.0031849 1602400 358.34 852.18 584.6 523.43 914.13 987.89 1069.5 1155.6 452.76 286.61 FALSE TRUE FALSE 396.0318453 879.7911911 664.2662435 533.5617445 844.0895569 903.7162143 949.1570452 1126.041425 449.6092063 298.9671597 1.324666715 2.94276867 2.221870269 1.784683458 2.823352095 3.02279426 3.174786977 3.766438515 1.503874896 1 8.223843209 -4.794891195 0.222855508 0.697659517 5.568586862 0.738274641 0.447165985 2.84892083 0.151522039 0.458786169 3.871495062 1.60E-05 4.794891195 4.870927346 HVATEYQENKAPGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 HVATEYQENKAPGKK 15 2 O95239 O95239 KIF4A Chromosome-associated kinesin KIF4A 0 1 ; HVATEYQENK(0.012)APGK(0.988)K;HVATEYQENK(0.001)APGK(0.999)K 92.039 0.0046398 2485600 624.94 985.84 918.03 2273.63 3542.9 4242.6 5849.9 7077.8 941.81 794.97 FALSE TRUE FALSE 690.6740565 1017.781863 1043.134348 2317.639396 3271.443767 3881.106612 5191.653856 6896.760125 935.2558675 829.2450472 0.832895004 1.227359592 1.257932563 2.794878793 3.945086894 4.680289168 6.260699263 8.316914461 1.127840161 1 9.69565468 -4.731477623 0.562667733 0.83918749 10.84022346 0.984058957 0.31139974 0.199713929 0.05858214 0.064454036 1.173438636 1.86E-05 4.731477623 10.00103597 up TEPSS(ph)PLSDPSDIIR ddPTM_HeLa_SAHA_4h_R1 4 TEPSSPLSDPSDIIR 15 0 Q9ULJ3-2;Q9ULJ3 Q9ULJ3-2 ZBTB21 Zinc finger and BTB domain-containing protein 21 1 0 TEPS(0.037)S(0.963)PLSDPSDIIR;TEPS(0.332)S(0.667)PLS(0.001)DPSDIIR;TEPS(0.318)S(0.681)PLSDPSDIIR;TEPS(0.212)S(0.785)PLS(0.003)DPSDIIR ;;; 210.07 2.34E-13 27070400 4590.1 5168.2 3487.84 4729.92 4937.9 6008.7 4344.65 4331.18 6971.1 4761.2 TRUE FALSE FALSE 5072.907778 5335.653071 3963.144671 4821.474441 4559.559169 5496.724956 3855.778548 4220.394687 6922.587548 4966.478633 1.021429498 1.074333238 0.797978802 0.97080342 0.918066805 1.106765047 0.776360644 0.849776069 1.393862344 1 12.27800759 -2.213385944 0.36968933 1.00909423 4.76E-10 0.187110009 0.154237443 22.77956163 0.649028603 0.024699966 14.18758991 0.006118065 2.213385944 -1.009094229 TEPTS(ph)PTPSAFK ddPTM_HeLa_SAHA_4h_R1 2 TEPTSPTPSAFK 12 0 Q86XN7-2;Q86XN7 Q86XN7-2 PROSER1 Proline and serine-rich protein 1 1 0 T(0.002)EPT(0.112)S(0.829)PT(0.057)PSAFK;TEPT(0.051)S(0.913)PT(0.031)PS(0.005)AFK ; 145.09 0.00049778 35256000 3813.4 4890.9 3880.6 4322.5 4780.8 4985.1 4997.5 3857.9 5764.9 4215.2 TRUE FALSE FALSE 4214.510909 5049.368369 4409.427959 4406.168238 4414.496137 4560.341435 4435.168147 3759.220504 5724.781592 4396.937901 0.958510446 1.148382916 1.002840626 1.002099265 1.003993287 1.03716303 1.008694743 0.854963292 1.301992823 1 12.10228344 -4.25954367 24.3088987 1.000953147 0.854963221 0.092361638 0.107493219 89.69524574 1150032.695 0.007283234 0.063317447 5.50E-05 4.25954367 -0.145989926 TEQELPRPQS(ph)PSDLDSLDGR ddPTM_HeLa_SAHA_4h_R1 2 TEQELPRPQSPSDLDSLDGR 20 1 P54259 P54259 ATN1 Atrophin-1 1 0 T(0.037)EQELPRPQS(0.842)PS(0.103)DLDS(0.018)LDGR;T(0.02)EQELPRPQS(0.628)PS(0.251)DLDS(0.102)LDGR ; 52.498 0.019166 25185000 1709.93 1763.81 1806.47 2087.58 1694.86 2392.69 2286.55 2006.08 2339.99 2106.65 TRUE FALSE FALSE 1889.788283 1820.958601 2052.646324 2127.98813 1565.000193 2188.819351 2029.261376 1954.767378 2323.705819 2197.477991 0.859980528 0.828658402 0.934091869 0.968377448 0.712180144 0.996059738 0.923450148 0.889550378 1.057442135 1 11.101633 -9.343457006 1.054945316 1.000320183 0.888196662 0.320639142 0.078018358 0.599438548 1.188869796 0.049918444 0.012936786 4.53E-10 9.343457006 -0.112123521 TEQGDSAVYLCAS(ph)SL ddPTM_HeLa_SAHA_4h_R1 1 TEQGDSAVYLCASSL 15 0 A0A1B0GX95 A0A1B0GX95 1 0 TEQGDS(0.042)AVYLCAS(0.945)S(0.013)L 91.202 0.0075129 7480600 271.29 483.89 319.49 663.13 267.77 346.33 306.38 811.07 547.57 403.53 TRUE FALSE FALSE 299.8255269 499.5683535 363.0284334 675.9658401 247.2535204 316.8207356 271.9053161 790.3240038 543.7594158 420.9281531 0.712296207 1.186825708 0.8624475 1.605893631 0.587400768 0.752671764 0.645966097 1.877574588 1.291810519 1 8.717430195 -7.260665317 24.99677345 0.864139878 1.03887384 0 0.41743013 196.7778498 6354564.601 0.064034371 0.076007652 5.49E-08 7.260665317 0.174733962 TES(ph)GEETDLISPPQEEVK ddPTM_HeLa_SAHA_4h_R1 2 TESGEETDLISPPQEEVK 18 0 A0A5F9UY30;A0A5H1ZRP2;O43493;O43493-5;O43493-3;O43493-7 A0A5F9UY30 TGOLN2 Trans-Golgi network integral membrane protein 2 1 0 T(0.093)ES(0.903)GEET(0.004)DLISPPQEEVK;T(0.169)ES(0.83)GEET(0.001)DLISPPQEEVK ; 198.85 2.78E-16 2748500 1333.08 2758.21 1506.53 2011.68 2357.59 2433.08 2157.97 1697.16 1944.37 2418.54 TRUE FALSE FALSE 1473.299471 2847.577814 1711.832063 2050.618975 2176.951964 2225.767896 1915.149536 1653.749105 1930.838971 2522.815095 0.583990271 1.12873029 0.678540439 0.812829675 0.862905873 0.88225566 0.759131947 0.655517365 0.765350966 1 11.30081876 -9.703578817 1.596245429 0.999921814 0.769924155 0 0.160683149 0.452889152 2.082641243 0.108231614 0.023890255 1.98E-10 9.703578817 -0.22999766 TES(ph)PATAAETASEELDNR ddPTM_HeLa_SAHA_4h_R1 7 TESPATAAETASEELDNR 18 0 C9JWF0;C9IYK2;C9JJ64;C9JR83;Q9NTJ3-2;Q9NTJ3 C9JWF0 SMC4 Structural maintenance of chromosomes protein 4 1 0 T(0.008)ES(0.984)PAT(0.005)AAET(0.001)AS(0.002)EELDNR;T(0.138)ES(0.862)PATAAETASEELDNR;T(0.031)ES(0.606)PAT(0.362)AAETASEELDNR;T(0.377)ES(0.606)PAT(0.017)AAETASEELDNR;T(0.005)ES(0.844)PAT(0.15)AAET(0.001)AS(0.001)EELDNR;T(0.067)ES(0.865)PAT(0.067)AAETASEELDNR;T(0.413)ES(0.514)PAT(0.073)AAETASEELDNR ;;;;;; 276.14 1.06E-60 691723100 6717.57 6573.74 6009.54 6677.84 6718.59 8292 6875.45 7528.69 6517.76 7159.38 TRUE FALSE FALSE 7424.154834 6786.733489 6828.488815 6807.09925 6203.813086 7585.47495 6101.806271 7336.117011 6472.402377 7468.055909 0.994121485 0.908768436 0.914359627 0.911495486 0.830713262 1.015722839 0.817054177 0.982332899 0.866678351 1 12.86651701 -7.267323302 6.230604886 0.997362681 0.908734542 0 0.069631073 0.111501644 20.89098488 0.008318393 0.009783334 5.40E-08 7.267323302 -0.088628139 TES(ph)VPSDINNPVDR ddPTM_HeLa_SAHA_4h_R1 4 TESVPSDINNPVDR 14 0 A0A2R8Y4X0;A0A0A0MQW1;A0A2R8Y5H9;Q8IVT5-4;Q8IVT5-3;Q8IVT5-2;Q8IVT5;A8MY87 A0A2R8Y4X0 KSR1 Kinase suppressor of Ras 1 1 0 T(0.087)ES(0.911)VPS(0.003)DINNPVDR;T(0.047)ES(0.953)VPSDINNPVDR;T(0.187)ES(0.807)VPS(0.006)DINNPVDR;T(0.174)ES(0.775)VPS(0.051)DINNPVDR ;;; 233.28 1.51E-24 90118500 4432.43 4779.65 4755.79 4700.87 5323.88 5547.9 5027.35 5025.23 4831.83 4316.18 TRUE FALSE FALSE 4898.653324 4934.513796 5403.884294 4791.862136 4915.965465 5075.187708 4461.659347 4896.691893 4798.204902 4502.271643 1.088040374 1.096005347 1.200257275 1.064320973 1.091885576 1.127250444 0.990979599 1.087604721 1.065729765 1 12.13643739 -8.922128702 0.843497328 1.002172913 1.093083643 0.132868428 0.05265505 0.537105248 0.724345653 0.028510237 0.010028685 1.20E-09 8.922128702 0.09091073 TET(ph)PPPLASLNVSK ddPTM_HeLa_SAHA_4h_R1 2 TETPPPLASLNVSK 14 0 Q3MHD2-2;Q3MHD2;K7ELG9 Q3MHD2-2 LSM12 Protein LSM12 homolog 1 0 T(0.002)ET(0.998)PPPLASLNVSK;T(0.001)ET(0.999)PPPLASLNVSK ; 206.49 4.34E-12 48016000 5094.7 6493.8 4906.4 6133.6 6230.2 7645.3 5720.2 5397.7 8760.9 5725.1 TRUE FALSE FALSE 5630.583921 6704.203381 5575.018641 6252.324697 5752.843422 6993.877429 5076.548041 5259.63465 8699.932184 5971.937079 0.942840463 1.122617886 0.933536065 1.046950866 0.963312799 1.171123764 0.850067235 0.880725061 1.456802386 1 12.54398325 TETDSVGT(ph)PQSNGGMR ddPTM_HeLa_SAHA_4h_R1 1 TETDSVGTPQSNGGMR 16 0 F8VRD2;Q9H0H5;H0YIK5 F8VRD2 RACGAP1 Rac GTPase-activating protein 1 1 0 TETDS(0.004)VGT(0.996)PQSNGGMR 220.52 1.47E-20 11400000 1051.1 1077 1167.6 1098.6 1124.6 1283.5 1043.6 905.74 1031.9 1060.5 TRUE FALSE FALSE 1161.659521 1111.895507 1326.714447 1119.864992 1038.433391 1174.138579 926.1713814 882.5724823 1024.718924 1106.223345 1.050113005 1.005127501 1.199318793 1.012331729 0.938719469 1.061393781 0.837237241 0.797824857 0.926321912 1 10.11142698 -4.712012636 5.762357627 1.030530073 0.811130521 0.569219 0.071836025 0.086933671 6.355992733 0.008784352 0.033373085 1.94E-05 4.712012636 -0.219399553 TETQEK(ac)NPLPSK ddPTM_HeLa_SAHA_4h_R1 2 TETQEKNPLPSK 12 1 P62328 P62328 TMSB4X Thymosin beta-4;Hematopoietic system regulatory peptide 0 1 ; TETQEK(1)NPLPSK;TETQEK(1)NPLPSK 299.29 1.28E-117 15605200 2406 9072.6 3239.1 4458.9 6698.8 7028.7 6688.2 5392.5 7702.9 1753.25 FALSE TRUE FALSE 2659.074119 9366.558193 3680.507679 4545.208457 6185.539391 6429.815218 5935.626134 5254.567658 7649.294892 1828.841188 1.453966663 5.121580953 2.012480747 2.485294233 3.382217894 3.515786532 3.245566741 2.873167825 4.182591109 1 10.83671408 -7.481239232 20.01285621 1.200271797 3.18304706 0 1.21653828 21.08850814 10135.92714 0.125388418 0.141658889 3.30E-08 7.481239232 1.982775263 TETQEK(ac)NTLPTK ddPTM_HeLa_SAHA_4h_R1 1 TETQEKNTLPTK 12 1 P63313;CON__P21752 P63313 TMSB10 Thymosin beta-10 0 1 TETQEK(1)NTLPTK 239.48 1.03E-55 1380500 258.83 481.61 356.53 388.24 408.76 674.76 424.54 419.97 320.12 233.95 FALSE TRUE FALSE 286.054927 497.21448 405.1160517 395.7549466 377.4408971 617.2666519 376.7696419 409.2277755 317.8922589 244.0367294 1.172179809 2.037457563 1.660061797 1.621702387 1.546656104 2.529400609 1.543905472 1.676910588 1.302641039 1 7.930954491 -7.36178321 5.306313469 1.075456598 1.797019204 0.502618589 0.290934175 0.113952961 4.84420603 0.047742472 0.054367467 4.35E-08 7.36178321 0.721562606 TETQEKNPLPSKETIEQEK ddPTM_HeLa_SAHA_4h_R1 2 TETQEKNPLPSKETIEQEK 19 2 P62328 P62328 TMSB4X Thymosin beta-4;Hematopoietic system regulatory peptide 0 0 ; ; 125.61 6.11E-06 12032000 3221.89 2943.02 2948.1 3464.1 3504.2 4066.9 3762.4 3619.4 2959.85 3611 FALSE FALSE TRUE 3560.783173 3038.375779 3349.851715 3531.152665 3235.708953 3720.37724 3339.04485 3526.820989 2939.252163 3766.687882 0.945335341 0.806643894 0.889336154 0.937468879 0.859032937 0.987705209 0.886467091 0.936318883 0.780328038 1 11.87908078 -7.864184834 1.802148477 0.983394822 0.902701599 0 0.079877069 0.244382627 1.642811661 0.0100028 0.009348056 1.37E-08 7.864184834 -0.080693223 TETYVEANMGLNPS(ph)SPNDPVTNICQAADK ddPTM_HeLa_SAHA_4h_R1 1 TETYVEANMGLNPSSPNDPVTNICQAADK 29 0 A0A5F9ZHH6;P19793-2;P19793 A0A5F9ZHH6 RXRA Retinoic acid receptor RXR-alpha 1 0 TETYVEANMGLNPS(0.489)S(0.489)PNDPVT(0.022)NICQAADK 109.08 2.47E-09 4210800 565.74 657.23 489.94 781.29 698.44 1019.5 894.63 815.51 604.18 499.96 TRUE FALSE FALSE 625.2471289 678.5246832 556.7064717 796.4129977 644.9256781 932.6328644 793.9638779 794.650435 599.9754622 521.5157223 1.1989037 1.301062756 1.06747783 1.527112153 1.236637076 1.788312077 1.522415996 1.523732461 1.150445589 1 9.026566937 -5.936033211 0.314922782 1.006943236 1.760389589 0.594300446 0.150759943 1.158019616 0.191764883 0.079631777 0.31584597 1.16E-06 5.936033211 0.753446353 TEVS(ph)PVPR ddPTM_HeLa_SAHA_4h_R1 1 TEVSPVPR 8 0 E9PPY3;O43159 E9PPY3 RRP8 Ribosomal RNA-processing protein 8 1 0 TEVS(1)PVPR 96.665 0.013337 48691000 2076.8 2408.6 1701 2382 2533.1 3363.8 2484.5 2373.4 3113.5 2534.3 TRUE FALSE FALSE 2295.247353 2486.64022 1932.803422 2428.107054 2339.014425 3077.185316 2204.937521 2312.691865 3091.8329 2643.566076 0.868239071 0.940638573 0.731134901 0.918496828 0.884795144 1.164028145 0.834076947 0.874837927 1.169568988 1 11.36826967 TEVSETARPSS(ph)PDTR ddPTM_HeLa_SAHA_4h_R1 2 TEVSETARPSSPDTR 15 1 O75132 O75132 ZBED4 Zinc finger BED domain-containing protein 4 1 0 TEVSETARPS(0.08)S(0.916)PDT(0.004)R;TEVSETARPS(0.025)S(0.768)PDT(0.207)R ; 164.7 2.01E-05 11336400 1333.41 1977.48 1621.85 1663.47 1981.07 2445.8 1673.4 1486.95 1904.42 1618.24 TRUE FALSE FALSE 1473.664182 2041.551649 1842.867272 1695.668867 1829.280845 2237.40408 1485.104628 1448.915972 1891.166986 1688.010246 0.873018505 1.209442688 1.091739387 1.00453707 1.083690605 1.325468306 0.87979598 0.858357333 1.120352789 1 10.72110795 -7.285204913 24.93186036 0.940036519 1.067089462 0 0.145282157 1053.808713 1105522.708 0.02369026 0.027098955 5.19E-08 7.285204913 0.127052943 TEWLDGK ddPTM_HeLa_SAHA_4h_R1 6 TEWLDGK 7 0 P62937;P62937-2;P0DN26;A0A0H2UH34;A0A0B4J2A2;A0A075B767;A0A075B759;Q9Y536;F5H284;P0DN37 P62937 PPIA;PPIAL4C;PPIAL4E;PPIAL4A;PPIAL4D "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed;Peptidyl-prolyl cis-trans isomerase;Peptidyl-prolyl cis-trans isomerase A-like 4A/B/C;Peptidyl-prolyl cis-trans isomerase A-like 4D" 0 0 ;;;;; ;;;;; 147.69 0.0010134 114733100 27981.2 25258.3 26840.7 28272.7 28653.8 29985.2 30339.3 23775.7 26549.1 25738.8 FALSE FALSE TRUE 30924.391 26076.68549 30498.41082 28819.95899 26458.35203 27430.29227 26925.44212 23167.55202 26364.34265 26848.52563 1.151809653 0.971252048 1.135943598 1.073427993 0.985467597 1.021668476 1.002864831 0.862898482 0.981966124 1 14.71255525 -3.044267408 0.682242287 1.068247216 4.51E-10 0.399245524 0.062029849 9.115433897 0.844426127 0.011309141 11.09298817 0.000903093 3.044267408 -1.068247216 TEWLDGK(ac)HVVFGK ddPTM_HeLa_SAHA_4h_R1 1 TEWLDGKHVVFGK 13 1 P62937;P62937-2 P62937 PPIA "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed" 0 1 TEWLDGK(1)HVVFGK 117.03 0.0034415 870920 1427.8 1800.4 1895.6 2167.3 2071.3 1959.2 2318.7 1476.2 1871.1 1786 FALSE TRUE FALSE 1577.982555 1858.734141 2153.922496 2209.251225 1912.597441 1792.265138 2057.793774 1438.440942 1858.078863 1863.0032 0.847010115 0.997708507 1.15615609 1.185854767 1.026620588 0.962030091 1.104557294 0.77210868 0.997356774 1 10.86341444 -7.007473701 24.28417898 0.9274708 1.043954577 0.08965315 0.115727382 322.4499267 1047735.943 0.019323164 0.024808337 9.83E-08 7.007473701 0.116483778 TFANFPS(ph)GSPVSASTLAR ddPTM_HeLa_SAHA_4h_R1 1 TFANFPSGSPVSASTLAR 18 0 B1AKU2;P98170 B1AKU2 XIAP E3 ubiquitin-protein ligase XIAP 1 0 TFANFPS(0.773)GS(0.2)PVS(0.014)AS(0.006)T(0.006)LAR 82.449 0.0058292 2008400 1172.2 1148.4 888.61 1398.1 1411.1 1598.5 1216.7 1308.2 1223.5 1158 TRUE FALSE FALSE 1295.497374 1185.608913 1009.705143 1425.162247 1302.981823 1462.298807 1079.793714 1274.738138 1214.985564 1207.927047 1.072496371 0.981523608 0.83589911 1.179841325 1.078692481 1.210585367 0.893922954 1.055310535 1.005843496 1 10.23831761 TFAPEEISAMVLTK ddPTM_HeLa_SAHA_4h_R1 2 TFAPEEISAMVLTK 14 0 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 ; ; 269.81 1.06E-83 1163900 175.34 73.804 169.11 211.78 284.99 355.54 413.59 310.79 204 207.83 FALSE FALSE TRUE 193.7830657 76.19529802 192.1554301 215.8793081 263.1541278 325.2459918 367.0517647 302.8404418 202.5803474 216.7905684 0.893872216 0.351469617 0.886364345 0.995796587 1.21386336 1.500277407 1.693116852 1.396926278 0.934451849 1 7.760158183 -5.529606172 1.919538243 0.892201445 1.557721976 0.729141498 0.188226848 0.152127423 1.109244576 0.030626355 0.079556204 2.95E-06 5.529606172 0.665520531 TFDHYCEYR ddPTM_HeLa_SAHA_4h_R1 2 TFDHYCEYR 9 0 Q14204;A0A2R8YFZ7;A0A2R8Y6H2;A0A2R8YGC7 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 ; ; 114.86 0.0052243 13780400 5705.9 5253.8 5375.7 5939.4 6232 3796.2 6276.3 4207.7 4042.5 5218.5 FALSE FALSE TRUE 6306.072742 5424.026567 6108.272401 6054.365676 5754.505506 3472.742403 5570.074206 4100.073127 4014.367913 5443.495074 1.158460264 0.996423528 1.122123253 1.112220291 1.057134328 0.63796189 1.023253283 0.753205996 0.737461476 1 12.41031754 -5.392590421 8.511882832 1.076606709 0.827126404 0.279162546 0.147348541 0.163721802 10.52076466 0.014218743 0.03185177 4.05E-06 5.392590421 -0.249480305 TFEHVTSEIGAEEAEEVGVEHLLR ddPTM_HeLa_SAHA_4h_R1 2 TFEHVTSEIGAEEAEEVGVEHLLR 24 0 H3BNT7;H3BTM8;P51665 H3BNT7 PSMD7 26S proteasome non-ATPase regulatory subunit 7 0 0 ; ; 239.87 1.57E-48 7224300 1658.15 2072.2 1379.95 1897.54 2274.6 2602.1 2677.7 2205.56 2218.8 1876.48 FALSE FALSE TRUE 1832.561825 2139.34064 1568.0024 1934.269631 2100.320639 2380.386441 2376.398149 2149.144969 2203.35919 1957.384236 0.936229991 1.09295896 0.801070311 0.988191074 1.073024193 1.216105861 1.214068298 1.097967854 1.125665135 1 10.93471127 -5.560756944 2.949513728 0.966473177 1.178451394 0.447145626 0.089822857 0.123098398 2.175591272 0.010520299 0.023661924 2.75E-06 5.560756944 0.211978217 TFEMSDFIVDTR ddPTM_HeLa_SAHA_4h_R1 2 TFEMSDFIVDTR 12 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 ; ; 185.96 5.77E-06 10869000 1534.28 1688.75 1582.17 1915.9 1862.18 1855.34 2161.56 1842.24 1914.82 1742.54 FALSE FALSE TRUE 1695.66261 1743.466608 1797.779888 1952.985015 1719.500171 1697.254594 1918.33558 1795.118168 1901.494612 1817.669427 0.932877334 0.959176945 0.98905767 1.074444553 0.945991689 0.933753172 1.055381991 0.987593311 1.046116848 1 10.82787413 -6.616648996 6.070197483 0.966857312 0.999279118 0 0.049674584 0.394450487 21.23038062 0.00736165 0.010444648 2.42E-07 6.616648996 0.032421805 TFESLVDFSK ddPTM_HeLa_SAHA_4h_R1 1 TFESLVDFSK 10 0 A0A1W2PQC2;A0A1W2PRT2;A0A1W2PQV5;A0A1W2PNM1;A0A0A0MSE2;A0A0D9SFP2;E9PF18;Q16836;Q16836-3;Q16836-2;A0A1W2PQ78 A0A1W2PQC2 HADH "Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial" 0 0 110.14 0.0017263 0 74.142 0 78.652 0 0 148.68 171.08 77.773 0 164.65 FALSE FALSE TRUE 81.94059574 0 89.37028496 0 0 136.0116275 151.8296281 75.78367927 0 171.7488673 0.477095407 0 0.520354436 0 0 0.79192154 0.884021132 0.44124704 0 1 7.424156774 -8.735413136 0.872304107 0.967334324 0.390633032 0 0.424940856 0.47937339 0.724259198 0.151648614 0.066002187 1.84E-09 8.735413136 -0.576701292 TFIAIK(ac)PDGVQR ddPTM_HeLa_SAHA_4h_R1 2 TFIAIKPDGVQR 12 1 P15531;P15531-2;E7ERL0;E5RHP0;C9K028;Q32Q12;P22392-2;J3KPD9;P22392;F6XY72 P15531;Q32Q12 NME1;NME1-NME2;NME2 Nucleoside diphosphate kinase A;Nucleoside diphosphate kinase;Nucleoside diphosphate kinase B 0 1 ; TFIAIK(1)PDGVQR;TFIAIK(1)PDGVQR 143 0.00011909 6818100 864.29 2747.8 1321.11 1761.8 2584.1 2220.4 2738.1 1592.16 2493.9 1121.77 FALSE TRUE FALSE 955.1999877 2836.830523 1501.143991 1795.902187 2386.106816 2031.209428 2430.001782 1551.434853 2476.544747 1170.134995 0.816316059 2.42436175 1.282881033 1.534782051 2.039172256 1.735876149 2.076684992 1.325859717 2.116460715 1 10.19245926 -7.288831604 24.99682692 0.913260311 1.7664712 0 0.505039183 338.0349683 308473.5526 0.052700523 0.0602727 5.14E-08 7.288831604 0.853210889 TFIAIKPDGVQR ddPTM_HeLa_SAHA_4h_R1 2 TFIAIKPDGVQR 12 1 P15531;P15531-2;E7ERL0;E5RHP0;C9K028;Q32Q12;P22392-2;J3KPD9;P22392;F6XY72 P15531;Q32Q12 NME1;NME1-NME2;NME2 Nucleoside diphosphate kinase A;Nucleoside diphosphate kinase;Nucleoside diphosphate kinase B 0 0 ; ; 166.11 4.10E-08 38673000 9335.9 8064.2 8256.8 9680.8 10614.7 9446.8 10136.8 6746.5 8685.9 8775.8 FALSE FALSE TRUE 10317.8928 8325.485371 9381.993704 9868.185883 9801.403979 8641.879494 8996.180585 6573.934299 8625.454115 9154.167686 1.127125169 0.90947486 1.024887682 1.077999248 1.070704002 0.944037709 0.982741511 0.718135665 0.942243403 1 13.160213 -3.660315489 1.050350509 1.047834488 3.69E-18 0.590504384 0.069561276 2.465778214 0.882174455 0.010405241 3.926349573 0.000218617 3.660315489 -1.047834488 TFLEGDWTS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 2 TFLEGDWTSPSK 12 0 Q8NDT2;Q8NDT2-2 Q8NDT2 RBM15B Putative RNA-binding protein 15B 1 0 TFLEGDWT(0.471)S(0.525)PS(0.004)K;TFLEGDWT(0.194)S(0.783)PS(0.023)K ; 168.98 8.59E-05 43000000 6726.1 6581.6 5123.2 5635.8 6706.5 6628.1 6824.7 6583.9 7955.7 7014.6 TRUE FALSE FALSE 7433.582058 6794.848158 5821.363016 5744.889059 6192.649419 6063.348591 6056.766794 6415.493371 7900.335636 7317.033735 1.015928357 0.928634253 0.795590567 0.78513907 0.846333315 0.828662107 0.82776259 0.87678882 1.079718356 1 12.83704319 -6.980527543 3.418334226 1.007011388 0.826189423 0.879059805 0.033780583 0.04524418 1.118527819 0.004279599 0.005572924 1.05E-07 6.980527543 -0.180821965 TFLLEYHNR ddPTM_HeLa_SAHA_4h_R1 1 TFLLEYHNR 9 0 G3V5X9;A0A0A0MRI2;Q9UNH7-2;Q9UNH7 G3V5X9 SNX6 "Sorting nexin-6;Sorting nexin-6, N-terminally processed" 0 0 82.749 0.013895 965140 486.9 564.83 908.35 856.36 789.65 152.52 752.68 177.17 287.46 258.5 FALSE FALSE TRUE 538.114376 583.1308626 1032.135208 872.9360861 729.1471876 139.5244379 667.9864655 172.6382479 285.4595425 269.6452001 1.995638624 2.162585733 3.827752941 3.237350733 2.704098524 0.517437128 2.477279274 0.640242244 1.058648707 1 8.074918543 -4.240751806 22.76915837 1.869170522 0.640238196 0.123383469 1.005809953 2719.119908 2992556.321 0.152423075 7.34822673 5.74E-05 4.240751806 -1.228932326 TFNKDTVIIVS(ph)EPS(ph)EDEESQGLPTMAR ddPTM_HeLa_SAHA_4h_R1 2 TFNKDTVIIVSEPSEDEESQGLPTMAR 27 1 D6RAY8;Q9H4L7;Q9H4L7-2 D6RAY8 SMARCAD1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A containing DEAD/H box 1 2 0 TFNKDTVIIVS(0.993)EPS(0.977)EDEES(0.029)QGLPT(0.001)MAR;TFNKDTVIIVS(0.998)EPS(0.993)EDEES(0.008)QGLPT(0.001)MAR ; 86.997 1.67E-05 34227000 3158.1 2950.5 3409.1 3188.2 3679.8 3969.2 3678.8 4141.2 2888.2 3746.4 TRUE FALSE FALSE 3490.283448 3046.098136 3873.674394 3249.912221 3397.854519 3631.00183 3264.851742 4035.2741 2868.100781 3907.925638 0.893129443 0.77946676 0.991235441 0.831620794 0.869477783 0.929137902 0.835443671 1.032587228 0.733918976 1 11.9321873 -8.99851308 0.902819724 0.997271331 0.892017325 0 0.108847467 0.579051973 0.890134986 0.0372936 0.012821448 1.00E-09 8.99851308 -0.105254006 TFNKDTVIIVSEPS(ph)EDEES(ph)QGLPTMAR ddPTM_HeLa_SAHA_4h_R1 1 TFNKDTVIIVSEPSEDEESQGLPTMAR 27 1 D6RAY8;Q9H4L7;Q9H4L7-2 D6RAY8 SMARCAD1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A containing DEAD/H box 1 2 0 TFNKDT(0.001)VIIVS(0.584)EPS(0.681)EDEES(0.652)QGLPT(0.082)MAR 52.158 0.0093982 22823000 3528.8 3521.8 4073.1 4071.6 4548.8 4538.2 4995.3 5380 3175 4620.1 TRUE FALSE FALSE 3899.975375 3635.908631 4628.160856 4150.411706 4200.271927 4151.519829 4433.215697 5242.38739 3152.904916 4819.295121 0.809241866 0.754448221 0.960339788 0.86120721 0.871553167 0.861437145 0.919888819 1.087791318 0.654225325 1 12.23460644 -4.273181368 3.614218114 0.891731252 1.107633304 0.270115294 0.100396521 0.249629632 5.905117187 0.011962464 0.142609594 5.33E-05 4.273181368 0.215902052 TFNLEK(ac)QNHTPR ddPTM_HeLa_SAHA_4h_R1 2 TFNLEKQNHTPR 12 1 Q15233;C9JYS8;C9IZL7;C9J4X2;C9JJ13 Q15233 NONO Non-POU domain-containing octamer-binding protein 0 1 ; TFNLEK(1)QNHTPR;TFNLEK(1)QNHTPR 120.84 0.0030549 5195000 2122.3 2186.62 2041.51 2795.2 3010.6 3500.1 3230.2 3988.3 3022.7 2223.57 FALSE TRUE FALSE 2345.533251 2257.467923 2319.716351 2849.305138 2779.928478 3201.871789 2866.729395 3886.285061 3001.664785 2319.438985 1.011250249 0.973281874 1.000119583 1.228445825 1.19853486 1.380450967 1.235958097 1.675528042 1.294133971 1 11.17956018 -1 0.342030075 0.985843465 8.127398947 0.632248926 0.126717282 13.21448805 0.166522095 0.023684996 61.20245833 0.1 1 7.141555482 TFNTSTGGLLLPSDTK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 TFNTSTGGLLLPSDTKR 17 1 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 1 ; TFNTSTGGLLLPSDTK(1)R;TFNTSTGGLLLPSDTK(1)R 301.75 1.75E-138 4265600 615 1561.21 610.29 729.05 1162.33 1234.2 1254.68 1164.58 1017.01 432.17 FALSE TRUE FALSE 679.6885217 1611.794228 693.4571429 743.161817 1073.272527 1129.039217 1113.500104 1134.79173 1009.932545 450.8029637 1.507728601 3.575385164 1.538271038 1.648529129 2.380801842 2.504507085 2.470037231 2.517267679 2.240297039 1 8.81635319 -7.48780266 13.16873951 1.223801501 2.340386159 0.209358047 0.617033315 1.14851082 430.9261781 0.09198141 0.102391767 3.25E-08 7.48780266 1.116584658 TFNTSTGGLLLPSDTKR ddPTM_HeLa_SAHA_4h_R1 2 TFNTSTGGLLLPSDTKR 17 1 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 0 ; ; 171.87 1.27E-12 6275500 3100.8 2466.65 2616.42 2760.53 2934.7 3674.6 3488.9 3387.3 3109.2 3244.3 FALSE FALSE TRUE 3426.956371 2546.571078 2972.972092 2813.96405 2709.84392 3361.503407 3096.31979 3300.657771 3087.562824 3384.17765 1.012640802 0.752493321 0.878491734 0.831506008 0.800739264 0.993299925 0.914940086 0.97532048 0.912352466 1 11.72458959 -7.324022953 24.9972628 1.005969335 0.879205547 0.22832906 0.075409246 154.7013298 61790.73923 0.011883015 0.013588744 4.74E-08 7.324022953 -0.126763788 TFPLAHS(ph)PQAECEDQLDAQER ddPTM_HeLa_SAHA_4h_R1 2 TFPLAHSPQAECEDQLDAQER 21 0 A0A1W2PRB5;A0A0J9YVS1;A0A3B3IT55;A0A0G2JNB1;A0A0G2JNT7;Q7Z3B3;A0A0G2JQF5;A0A0G2JQF4;Q7Z3B3-4;Q7Z3B3-2 A0A1W2PRB5 KANSL1 KAT8 regulatory NSL complex subunit 1 1 0 T(0.001)FPLAHS(0.999)PQAECEDQLDAQER;T(0.003)FPLAHS(0.997)PQAECEDQLDAQER ; 152.4 2.50E-06 19163800 2780.8 2953.7 2754.1 3148.3 2785.2 3088.6 3397.9 3016.9 3021.1 2877.3 TRUE FALSE FALSE 3073.297303 3049.401818 3129.414405 3209.239899 2571.798578 2825.433904 3015.559349 2939.732066 3000.075919 3001.354484 1.023970117 1.01600855 1.042667376 1.069263866 0.856879316 0.94138627 1.004732818 0.979468464 0.999574004 1 11.55139801 -5.785837002 24.99988912 1.018207438 0.949537008 0.473600943 0.040640119 174.8108454 179125.7352 0.0061256 0.011107281 1.64E-06 5.785837002 -0.06867043 TFS(ph)DESNVL ddPTM_HeLa_SAHA_4h_R1 2 TFSDESNVL 9 0 H7C113;Q8NB49 H7C113 ATP11C Phospholipid-transporting ATPase IG 1 0 T(0.403)FS(0.597)DESNVL;T(0.063)FS(0.937)DESNVL ; 128.27 0.0023259 1613270 1143.59 2369.26 1699.68 970.61 1714.9 1487.84 2226.81 1448.57 1043.15 1894.09 TRUE FALSE FALSE 1263.878043 2446.025579 1931.303539 989.3975601 1583.504732 1361.067662 1976.243478 1411.517677 1035.890634 1975.753489 0.639694198 1.238021642 0.977502279 0.500769739 0.801468777 0.688885364 1.000248001 0.714419934 0.524301559 1 10.94818724 TFS(ph)DGLATR ddPTM_HeLa_SAHA_4h_R1 2 TFSDGLATR 9 0 Q86UU1-3;Q86UU1-2;Q86UU1 Q86UU1-3 PHLDB1 Pleckstrin homology-like domain family B member 1 1 0 T(0.066)FS(0.934)DGLATR;T(0.014)FS(0.962)DGLAT(0.023)R ; 141.89 0.00089877 7818500 4213.5 6470.4 5040.9 3023 5043.9 6594 5912.9 3128.4 3270 4837.5 TRUE FALSE FALSE 4656.695262 6680.045205 5727.8476 3081.514536 4657.437472 6032.154103 5247.56493 3048.380058 3247.243804 5046.068299 0.922836352 1.323811889 1.135110993 0.610676343 0.922983439 1.195416658 1.039931412 0.604109948 0.64351959 1 12.30094402 TFS(ph)LTEVR ddPTM_HeLa_SAHA_4h_R1 3 TFSLTEVR 8 0 O95239;O95239-2 O95239 KIF4A Chromosome-associated kinesin KIF4A 1 0 T(0.318)FS(0.665)LT(0.017)EVR;TFS(0.87)LT(0.13)EVR;T(0.003)FS(0.994)LT(0.003)EVR ;; 154.01 0.0001376 111933000 8416.5 7510.1 6753.2 8662.2 9210.7 10477.5 11789.7 10535.2 6777.9 7407.6 TRUE FALSE FALSE 9301.786086 7753.432168 7673.490927 8829.869407 8504.978156 9584.758055 10463.09193 10265.72484 6730.732042 7726.977888 1.203806484 1.003423626 0.993077894 1.142732584 1.100686229 1.240427784 1.354098857 1.328556259 0.871069148 1 12.91568855 -5.097194704 2.027739201 1.08524574 1.346675528 0.618451049 0.09299082 0.176266618 1.383494813 0.012620652 0.045979648 7.99E-06 5.097194704 0.261429788 TFS(ph)YIK ddPTM_HeLa_SAHA_4h_R1 1 TFSYIK 6 0 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7;A0A087WY36;H0YMW2 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 T(0.002)FS(0.998)YIK 113.71 0.009781 19732000 3065.5 3101.8 2368.1 2976.5 3656.9 3377.3 3845.8 3093.7 2175.9 2709.2 TRUE FALSE FALSE 3387.943355 3202.300355 2690.812335 3034.114462 3376.709112 3089.53504 3413.060462 3014.567634 2160.757735 2826.006871 1.198844699 1.133153776 0.952160578 1.073640158 1.194869392 1.093251072 1.207732542 1.066723392 0.764597481 1 11.46454926 -9.587035743 1.387761355 1.000260516 1.12541065 0.328251756 0.106153813 0.470027648 1.628973776 0.054309281 0.01274838 2.59E-10 9.587035743 0.125150134 TFSAT(ph)VR ddPTM_HeLa_SAHA_4h_R1 5 TFSATVR 7 0 H3BTK3;I3L3X8;H3BSW7;H3BUY4;H3BPY5;H3BNU9;Q9Y2V2 H3BTK3 CARHSP1 Calcium-regulated heat stable protein 1 1 0 T(0.001)FS(0.1)AT(0.9)VR;T(0.004)FS(0.026)AT(0.97)VR;T(0.043)FS(0.232)AT(0.725)VR;T(0.002)FS(0.037)AT(0.961)VR;T(0.371)FS(0.194)AT(0.435)VR ;;;; 132.76 0.00056928 3745674000 27459.4 27635.2 26314.3 29088.6 30368.9 30974.6 30865.3 29834.8 30099.6 27548.5 TRUE FALSE FALSE 30347.70568 28530.59861 29900.27577 29651.65192 28042.04144 28335.38982 27392.25521 29071.66902 29890.13443 28736.25065 1.056077428 0.992843463 1.040507202 1.031855278 0.975842039 0.986050343 0.953229965 1.011672308 1.040154291 1 14.81058422 -5.759981076 24.99843009 1.025799214 0.979976013 0.499193259 0.022139365 28.46411348 487919.8357 0.003732654 0.00715064 1.74E-06 5.759981076 -0.045823201 TFSATVR ddPTM_HeLa_SAHA_4h_R1 2 TFSATVR 7 0 H3BTK3;I3L3X8;H3BSW7;H3BUY4;H3BPY5;H3BNU9;Q9Y2V2 H3BTK3 CARHSP1 Calcium-regulated heat stable protein 1 0 0 ; ; 138.48 0.00012419 0 4059.6 4546.3 4487.1 4526.4 4677.3 5106.9 4835.7 4529.2 4665.7 4279.5 FALSE FALSE TRUE 4486.607354 4693.603103 5098.57862 4614.015017 4318.926284 4671.763389 4291.574309 4413.349622 4633.231014 4464.010188 1.005062078 1.051431987 1.142152102 1.033603156 0.9674992 1.046539589 0.961371979 0.988651333 1.037907804 1 12.1241246 -4.748892787 24.96633355 1.018026464 0.975011647 0.137468548 0.046251617 399.9145471 795770.5635 0.006838518 0.025241884 1.78E-05 4.748892787 -0.043014817 TFSPT(ph)YGLLR ddPTM_HeLa_SAHA_4h_R1 1 TFSPTYGLLR 10 0 O15061;H0YL34;A0A075B7B1;O15061-2 O15061 SYNM Synemin 1 0 T(0.019)FS(0.228)PT(0.753)YGLLR 98.754 0.019944 1956400 843.96 937.17 1276.1 1803.8 1024.6 683.61 961.89 1069.8 719.26 727.05 TRUE FALSE FALSE 932.731585 967.5349229 1450.000262 1838.715157 946.0953694 625.3625821 853.6556056 1042.436065 714.2546111 758.3966836 1.229872974 1.275763652 1.911928538 2.42447679 1.247494075 0.82458507 1.125605668 1.374526139 0.941795536 1 9.566808845 -7.511307579 1.700757832 1.082041047 1.464737806 0.168401251 0.419363108 0.557808759 3.209380591 0.091522123 0.098491373 3.08E-08 7.511307579 0.38269676 TFSVWYVPEVTGTHK ddPTM_HeLa_SAHA_4h_R1 1 TFSVWYVPEVTGTHK 15 0 P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98 P21333-2 FLNA Filamin-A 0 0 178.67 5.98E-12 16189000 3781.2 4772.9 4308.9 4448.7 6734.2 6355.5 6542.1 2442 5562.6 5851.8 FALSE FALSE TRUE 4178.923965 4927.545092 4896.094452 4534.811021 6218.227051 5813.975645 5805.96569 2379.537176 5523.889414 6104.099736 0.684609385 0.807251733 0.802099354 0.74291234 1.01869683 0.952470618 0.951158392 0.389826064 0.904947437 1 12.57556282 -9.556517205 1.341010932 0.999512943 0.794670369 0.116019348 0.169069703 0.623632403 2.017141679 0.11459469 0.027324198 2.78E-10 9.556517205 -0.204842574 TFSWASVTSK ddPTM_HeLa_SAHA_4h_R1 2 TFSWASVTSK 10 0 Q13283 Q13283 G3BP1 Ras GTPase-activating protein-binding protein 1 0 0 ; ; 179.1 4.48E-12 2557100 1255.51 1010.61 1402.81 1553.29 1176.63 1109.64 1166.85 922.48 872.46 975.54 FALSE FALSE TRUE 1387.570302 1043.354427 1593.977641 1583.356174 1086.476864 1015.092429 1035.552967 898.8842973 866.3884798 1017.600304 1.363571038 1.025308683 1.566408378 1.555970619 1.067685279 0.997535502 1.017642156 0.883337293 0.851403519 1 9.990955291 -5.533236904 24.99305646 1.224054295 0.981533917 0.223594541 0.22059258 252.9773606 610404.574 0.032292721 0.064638587 2.93E-06 5.533236904 -0.242520377 TFTTQETITNAETAK ddPTM_HeLa_SAHA_4h_R1 2 TFTTQETITNAETAK 15 0 A0A2U3TZU2;P06744-2;P06744;K7EQ48;A0A0J9YXP8;A0A0J9YX90;A0A0J9YYH3;A0A2R8Y6C7;CON__Q3ZBD7 A0A2U3TZU2 GPI Glucose-6-phosphate isomerase 0 0 ; ; 250.89 8.99E-34 9971000 1762.61 1508.65 1249.42 1971.36 1414.91 1879.29 1838.98 1511.11 2367.4 1741.34 FALSE FALSE TRUE 1948.009407 1557.53125 1419.684451 2009.518523 1306.499901 1719.163919 1632.05313 1472.457994 2350.925071 1816.417689 1.072445737 0.85747417 0.781584797 1.106308607 0.719272835 0.946458477 0.898501011 0.810638436 1.294264576 1 10.82688028 -7.257357168 24.93556306 1.034210488 0.877416948 0.387860709 0.129195021 261.5718433 1597772.02 0.01554611 0.018678642 5.53E-08 7.257357168 -0.15679354 TFVLAGS(ph)ADSPELGK ddPTM_HeLa_SAHA_4h_R1 1 TFVLAGSADSPELGK 15 0 O15061 O15061 SYNM Synemin 1 0 TFVLAGS(0.969)ADS(0.03)PELGK 133.23 1.53E-05 0 663.98 612.69 844.49 703.46 753.12 798.94 765.91 801.95 706.43 722.48 TRUE FALSE FALSE 733.8204628 632.541558 959.5726993 717.0764855 695.4161083 730.8658173 679.727791 781.4372802 701.5138961 753.6296485 0.97371496 0.839326796 1.273268244 0.95149718 0.922755772 0.969794406 0.90193876 1.036898272 0.930846998 1 9.557711913 TFVLAGSADS(ph)PELGK ddPTM_HeLa_SAHA_4h_R1 2 TFVLAGSADSPELGK 15 0 O15061 O15061 SYNM Synemin 1 0 TFVLAGS(0.051)ADS(0.949)PELGK;TFVLAGS(0.002)ADS(0.998)PELGK ; 197.73 7.50E-11 5441800 3356.7 3784.6 3592.8 4283.8 4460.7 4684.9 4318.7 4407.8 4176.1 4117.1 TRUE FALSE FALSE 3709.773107 3907.223523 4082.408074 4366.719143 4118.92213 4285.720163 3832.74851 4295.054858 4147.03818 4294.60833 0.863821057 0.909797407 0.950589148 1.016791011 0.95909145 0.99793039 0.892455893 1.000103974 0.965638275 1 12.06831085 -6.521537867 24.8131795 0.931870422 0.970798802 0.134658732 0.045699797 92.60009321 1713595.408 0.009281802 0.013232147 3.01E-07 6.521537867 0.03892838 TFVNITPAEVGVLVGK ddPTM_HeLa_SAHA_4h_R1 3 TFVNITPAEVGVLVGK 16 0 P07737;I3L3D5 P07737 PFN1 Profilin-1 0 0 ;; ;; 193.16 3.95E-11 340745000 7691.9 7923 7351.1 8100.5 8631.2 7659.1 8459.1 8047.9 8603.6 7440.8 FALSE FALSE TRUE 8500.969334 8179.710398 8352.869625 8257.296891 7969.879321 7006.501591 7507.259805 7842.046371 8543.726847 7761.609302 1.095258599 1.053867836 1.076177543 1.063864022 1.026833355 0.902712481 0.967229799 1.010363452 1.100767446 1 12.9221401 -5.462048883 7.292940348 1.050371216 0.960972748 0.599746305 0.037188395 0.183131545 19.16838302 0.006172071 0.013798146 3.45E-06 5.462048883 -0.089398467 TFVNITPAEVGVLVGKDR ddPTM_HeLa_SAHA_4h_R1 1 TFVNITPAEVGVLVGKDR 18 1 P07737;I3L3D5 P07737 PFN1 Profilin-1 0 0 101.38 0.0032826 3562800 296.33 208.23 372.47 424.24 394.92 319.37 312.06 405.85 146.46 120.24 FALSE FALSE TRUE 327.499349 214.9767886 423.2282719 432.4517787 364.6613149 292.1578793 276.9461875 395.4689447 145.4407729 125.4241348 2.611135005 1.713998577 3.374376649 3.447915182 2.907425396 2.329359335 2.20807732 3.153053 1.159591598 1 6.970671176 -9.137204686 0.491657039 0.671784778 2.798222905 0.637470295 0.501116374 0.783412428 0.276408965 0.804588949 0.145208483 7.29E-10 9.137204686 2.126438127 TFYEK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 TFYEKR 6 1 P62753;A2A3R7 P62753 RPS6 40S ribosomal protein S6 0 1 ; TFYEK(1)R;TFYEK(1)R 93.262 0.012416 10830400 6213.7 7433.8 7148.2 8482.6 9804.2 7723.1 10404.2 9545.2 7942.8 6453.2 FALSE TRUE FALSE 6867.285475 7674.659997 8122.31947 8646.792989 9053.004314 7065.048431 9233.492034 9301.047605 7887.525408 6731.429033 1.020182407 1.140123436 1.206626324 1.284540466 1.344885948 1.049561452 1.371698638 1.381734482 1.171746054 1 12.7166971 -6.913792383 1.412002488 1.005936225 1.28224904 0.448692311 0.102335078 0.169730145 0.672241555 0.015739468 0.021693218 1.22E-07 6.913792383 0.276312815 TGAAGK(ac)FK ddPTM_HeLa_SAHA_4h_R1 2 TGAAGKFK 8 1 P39748;P39748-2 P39748 FEN1 Flap endonuclease 1 0 1 ; TGAAGK(1)FK;TGAAGK(1)FK 103.56 0.0075286 43648000 1963.34 2763.1 4940.3 10369.7 16999.5 11378.5 32623 10524.2 538.59 1065.81 FALSE TRUE FALSE 2169.853109 2852.626253 5613.538356 10570.42054 15697.00198 10408.98779 28952.17418 10255.0062 534.8419083 1111.762285 1.951723978 2.565859889 5.049225389 9.507806372 14.11902724 9.362601994 26.04169486 9.224099739 0.48107578 1 10.11863263 -6.031162126 0.932504295 1.320492882 16.6265686 0.657648638 4.334849003 0.216334185 0.367270742 0.68061945 1.773859499 9.31E-07 6.031162126 15.30607572 TGAAPIIDVVR ddPTM_HeLa_SAHA_4h_R1 1 TGAAPIIDVVR 11 0 E9PJD9;E9PLL6;P46776;E9PLX7 E9PJD9 RPL27A 60S ribosomal protein L27a 0 0 114.86 0.0085461 1654200 856.74 601.72 608.69 692.73 669.06 841.01 769.81 585.17 791.17 780.31 FALSE FALSE TRUE 946.8558441 621.2161228 691.6391033 706.1387909 617.7967673 769.3512166 683.1889528 570.2021987 785.6641836 813.9529828 1.163280759 0.763208853 0.849728569 0.867542482 0.759007928 0.94520351 0.839346949 0.700534565 0.965245168 1 9.668801651 -7.257992694 24.99221084 1.077104804 0.824405689 0.60633269 0.081588852 130.157099 943781.312 0.014175093 0.016992111 5.52E-08 7.257992694 -0.252699115 TGADTTAAGPLFQQRPYPS(ph)PGAVLR ddPTM_HeLa_SAHA_4h_R1 1 TGADTTAAGPLFQQRPYPSPGAVLR 25 1 H7C053;O60828-5;O60828-4;O60828-2;O60828 H7C053 PQBP1 Polyglutamine-binding protein 1 1 0 TGADTTAAGPLFQQRPY(0.031)PS(0.969)PGAVLR 64.592 0.0011135 12969000 1966.2 1656.8 2112.6 2097.2 2051.9 2099.8 2395.3 1934.7 1735.5 2110.7 TRUE FALSE FALSE 2173.013937 1710.481407 2400.494126 2137.794339 1894.683865 1920.885227 2125.77454 1885.213175 1723.422514 2201.702607 0.98696978 0.776890304 1.090289905 0.970973251 0.860553946 0.872454446 0.965513932 0.856252416 0.782768076 1 11.1044039 -5.930053242 0.237015179 1.016419142 0.845443147 0 0.106878169 5.900116366 0.607042603 0.093052886 0.317192663 1.17E-06 5.930053242 -0.170975995 TGAIVDVPVGEELLGR ddPTM_HeLa_SAHA_4h_R1 4 TGAIVDVPVGEELLGR 16 0 P25705-2;P25705;K7EK77;K7EQH4;K7EJP1;K7ERX7 P25705-2 ATP5A1 "ATP synthase subunit alpha, mitochondrial" 0 0 ;;; ;;; 210.64 2.79E-33 22623610 4362.54 4949.57 4117.02 4376.57 4996.59 5502.06 5380.8 5091.41 5784.77 5266.57 FALSE FALSE TRUE 4821.411973 5109.939316 4678.066045 4461.284841 4613.752354 5033.253534 4775.338223 4961.179104 5744.513315 5493.637607 0.877635607 0.930155879 0.851542526 0.812082114 0.839835585 0.916196862 0.869248859 0.903077243 1.045666592 1 12.42354603 -9.154464064 0.542933416 1.020017162 0.869133859 0.715655406 0.036687779 0.613976635 0.268869019 0.047491686 0.008821089 7.01E-10 9.154464064 -0.150883303 TGDLGIPPNPEDRS(ph)PS(ph)PEPIYNSEGK ddPTM_HeLa_SAHA_4h_R1 1 TGDLGIPPNPEDRSPSPEPIYNSEGK 26 1 Q15637-6;Q15637-4;Q15637-3;Q15637-2;Q15637;Q15637-7;Q15637-5 Q15637-6 SF1 Splicing factor 1 2 0 T(0.003)GDLGIPPNPEDRS(0.999)PS(0.998)PEPIYNSEGK 69.913 0.0047055 90927000 1957.5 2065.9 1459.2 1559.1 1848.8 1713.8 1932.3 1682.7 2305.6 1656 TRUE FALSE FALSE 2163.398831 2132.836515 1658.052177 1589.278635 1707.145343 1567.774598 1714.872518 1639.658971 2289.555142 1727.398264 1.252403036 1.23471035 0.959855183 0.920041815 0.988275477 0.907593015 0.992748779 0.949207258 1.325435592 1 10.75438503 -6.704118185 11.18554391 1.131161427 0.952647466 0.599819427 0.092951012 0.441755763 84.55861757 0.016321075 0.023076473 1.98E-07 6.704118185 -0.178513961 TGDLGIPPNPEDRS(ph)PS(ph)PEPIYNSEGKR ddPTM_HeLa_SAHA_4h_R1 5 TGDLGIPPNPEDRSPSPEPIYNSEGKR 27 2 Q15637-6;Q15637-4;Q15637-3;Q15637-2;Q15637;Q15637-7;Q15637-5 Q15637-6 SF1 Splicing factor 1 2 0 T(0.011)GDLGIPPNPEDRS(0.991)PS(0.994)PEPIY(0.003)NS(0.001)EGKR;T(0.028)GDLGIPPNPEDRS(0.981)PS(0.957)PEPIY(0.018)NS(0.015)EGKR;T(0.029)GDLGIPPNPEDRS(0.916)PS(0.947)PEPIY(0.051)NS(0.057)EGKR;T(0.001)GDLGIPPNPEDRS(0.995)PS(0.991)PEPIY(0.006)NS(0.007)EGKR;T(0.074)GDLGIPPNPEDRS(0.995)PS(0.928)PEPIY(0.002)NS(0.002)EGKR ;;;; 60.171 0.0025326 77718200 6479.19 6031.61 6370.65 6490.05 6505.06 6164.95 6901.66 7800.32 5371.85 6356.33 TRUE FALSE FALSE 7160.700932 6227.038121 7238.809005 6615.674303 6006.643708 5639.661577 6125.067053 7600.799109 5334.466858 6630.382493 1.079983084 0.939167254 1.091763411 0.997781698 0.905927179 0.850578618 0.92378789 1.14635907 0.804548887 1 12.69487638 -5.985199866 10.02018567 1.033941453 0.947306122 0 0.109298754 0.343668659 215.7997611 0.012030549 0.021631031 1.03E-06 5.985199866 -0.086635331 TGEDEDEEDNDALLKENES(ph)PDVRR ddPTM_HeLa_SAHA_4h_R1 1 TGEDEDEEDNDALLKENESPDVRR 24 2 A0A087WWS1;Q96FV9 A0A087WWS1 THOC1 THO complex subunit 1 1 0 TGEDEDEEDNDALLKENES(1)PDVRR 54.457 0.0059119 5782800 555.91 714.1 640.49 754.44 678.09 1064.9 859.76 844.1 966.82 785.85 TRUE FALSE FALSE 614.3831644 737.2373085 727.7726417 769.0432771 626.1348907 974.164529 763.017542 822.5091442 960.0918209 819.7318394 0.749492865 0.899364003 0.887817951 0.938164458 0.763828926 1.188394158 0.930813597 1.003388065 1.171226705 1 9.679008225 -5.271802807 24.9900708 0.878533541 1.029860113 0.118594432 0.130365655 669.9433908 1615482.607 0.01591547 0.035962863 5.35E-06 5.271802807 0.151326572 TGEK(ac)AAPR ddPTM_HeLa_SAHA_4h_R1 1 TGEKAAPR 8 1 Q8NEZ4;Q8NEZ4-3;H0Y765;H7BY37;Q8NEZ4-2 Q8NEZ4 KMT2C Histone-lysine N-methyltransferase 2C 0 1 TGEK(1)AAPR 96.034 0.014207 2470500 770.72 719.89 644.17 1210.5 1226.9 1813.4 1921.2 1872.1 491.28 469.8 FALSE TRUE FALSE 851.7878658 743.2149083 731.9541329 1233.930978 1132.895187 1658.888118 1705.02152 1824.214393 487.8611425 490.0553771 1.738146147 1.516593722 1.493615144 2.517941921 2.31176973 3.385103389 3.479242549 3.722465823 0.995522476 1 8.936800975 -4.694687131 0.348885737 1.151075845 5.437836843 0.929968097 0.258476323 0.937358543 0.099393582 0.102176885 1.614935699 2.02E-05 4.694687131 4.286760998 up TGFGGK(ac)FGVQSER ddPTM_HeLa_SAHA_4h_R1 2 TGFGGKFGVQSER 13 1 Q14247 Q14247 CTTN Src substrate cortactin 0 1 ; TGFGGK(1)FGVQSER;TGFGGK(1)FGVQSER 162.32 5.06E-07 9241900 843.74 1083.86 1293.12 1537.5 2028.39 1497.13 1799.99 1568.85 577.27 489.77 FALSE TRUE FALSE 932.4884444 1118.977775 1469.339659 1567.260536 1872.975196 1369.566101 1597.450388 1528.721089 573.2527311 510.8863816 1.825236448 2.190267377 2.876059555 3.067728153 3.666128642 2.680764551 3.126821238 2.992291718 1.122074793 1 8.996858669 -7.287176416 0.728886727 1.181122617 3.170511098 0.898804901 0.269381787 0.131183396 0.146057187 0.077883367 0.091160693 5.16E-08 7.287176416 1.989388481 up TGGPAYGPSSDVS(ph)TASETESEKREEPNR ddPTM_HeLa_SAHA_4h_R1 1 TGGPAYGPSSDVSTASETESEKREEPNR 28 2 P51116 P51116 FXR2 Fragile X mental retardation syndrome-related protein 2 1 0 TGGPAY(0.002)GPS(0.015)S(0.044)DVS(0.392)T(0.392)AS(0.09)ET(0.031)ES(0.034)EKREEPNR 68.303 0.00039228 7562400 732.77 734.62 921.16 888.2 663.73 791.82 699.88 887.44 825.61 903.03 TRUE FALSE FALSE 809.8461107 758.42217 1046.690888 905.3923954 612.8751508 724.3524813 621.1276604 864.7405698 819.8645128 941.9640426 0.859742064 0.80514981 1.111179239 0.961175113 0.650635399 0.768981032 0.659396359 0.918018662 0.870377717 1 9.879528179 -5.774677116 24.99777238 0.938004154 0.74424798 0.429049945 0.104637317 159.5026963 301200.5043 0.015576652 0.028355349 1.68E-06 5.774677116 -0.193756174 TGGPAYGPSSDVSTAS(ph)ETESEKR ddPTM_HeLa_SAHA_4h_R1 4 TGGPAYGPSSDVSTASETESEKR 23 1 P51116 P51116 FXR2 Fragile X mental retardation syndrome-related protein 2 1 0 TGGPAYGPSSDVST(0.001)AS(0.918)ET(0.065)ES(0.015)EKR;TGGPAYGPSSDVS(0.001)T(0.006)AS(0.975)ET(0.017)ES(0.001)EKR;TGGPAYGPSSDVS(0.001)T(0.011)AS(0.922)ET(0.052)ES(0.014)EKR;TGGPAYGPSS(0.001)DVS(0.043)T(0.114)AS(0.831)ET(0.009)ES(0.001)EKR ;;; 144.73 1.12E-06 43694900 5626.54 6714.75 5591.8 6120.57 6638.28 7800.86 6299.63 5709.78 6890.2 5905.17 TRUE FALSE FALSE 6218.365293 6932.312306 6353.821383 6239.042483 6129.656421 7136.182842 5590.779053 5563.732095 6842.250537 6159.770778 1.009512451 1.125417253 1.031502894 1.012869262 0.995111124 1.15851435 0.907627776 0.903236873 1.110796292 1 12.58866095 -4.58465314 24.99999759 1.023664121 0.904328327 0.424404179 0.061550792 40.21288118 16273.81319 0.007537279 0.028201924 2.60E-05 4.58465314 -0.119335795 TGGPAYGPSSDVSTAS(ph)ETESEKREEPNR ddPTM_HeLa_SAHA_4h_R1 1 TGGPAYGPSSDVSTASETESEKREEPNR 28 2 P51116 P51116 FXR2 Fragile X mental retardation syndrome-related protein 2 1 0 TGGPAY(0.001)GPS(0.008)S(0.032)DVS(0.132)T(0.132)AS(0.522)ET(0.119)ES(0.055)EKREEPNR 56.468 0.0059641 6400800 312.08 596.67 506.82 558.1 631.33 891.88 710.52 517.9 427.46 435.29 TRUE FALSE FALSE 344.9060063 616.0024995 575.8867902 568.9028325 582.9576318 815.8868064 630.5704196 504.6528679 424.4852711 454.0574822 0.759608684 1.356661929 1.268312522 1.252931302 1.283885091 1.796879995 1.388745796 1.111429473 0.934871217 1 8.826731139 -7.251302652 24.22499499 0.886481879 1.360280533 0.580768585 0.176213584 238.5137695 570005.9656 0.03171979 0.038595149 5.61E-08 7.251302652 0.473798654 TGISDVFAK ddPTM_HeLa_SAHA_4h_R1 2 TGISDVFAK 9 0 P19338 P19338 NCL Nucleolin 0 0 ; ; 141.2 0.00032731 5624200 4448.4 3715.8 4054.3 4185.9 4565.9 5520 4635.5 4661.7 4638.3 4672.7 FALSE FALSE TRUE 4916.303122 3836.194358 4606.79889 4266.924147 4216.061728 5049.664945 4113.90134 4542.460464 4606.021693 4874.162965 1.008645619 0.787046799 0.945146669 0.8754168 0.864981692 1.036006589 0.844022116 0.931946777 0.944987216 1 12.25093877 GK(ac)YKEETIEK ddPTM_HeLa_SAHA_4h_R1 2 GKYKEETIEK 10 2 P61254 P61254 RPL26 60S ribosomal protein L26 0 1 ; GK(0.936)YK(0.064)EETIEK;GK(0.938)YK(0.062)EETIEK 119.03 0.0017571 3810100 1413.46 1946.93 1669.98 1866.3 2349.5 2247.44 2502 2784 1070.9 977.22 FALSE TRUE FALSE 1562.134208 2010.011809 1897.556178 1902.424935 2169.481818 2055.945468 2220.468375 2712.789311 1063.44752 1019.352737 1.532476592 1.971851095 1.861530469 1.866306791 2.128293514 2.016912688 2.178312075 2.661286141 1.04325763 1 9.993437652 -4.688099711 0.093923711 1.03E-14 4.531752643 0.921995397 0.135534354 9.10191858 0.162013028 2.141995925 6.50939424 2.05E-05 4.688099711 4.531752643 TGK(ac)SIEQLEK(ac)ELLNGQK ddPTM_HeLa_SAHA_4h_R1 1 TGKSIEQLEKELLNGQK 17 2 P21695-2;P21695 P21695-2 GPD1 "Glycerol-3-phosphate dehydrogenase [NAD(+)], cytoplasmic" 0 2 TGK(1)SIEQLEK(1)ELLNGQK 70.281 0.0096722 2634000 938.27 733.89 766.67 623.42 885.79 601.45 834.44 626.2 283.15 812.04 FALSE TRUE FALSE 1036.961544 757.6685175 871.147795 635.4871956 817.9209616 550.2030763 740.5466151 610.1827107 281.1795361 847.0510184 1.224201991 0.89447802 1.028447846 0.750234852 0.965610033 0.649551284 0.874264476 0.720361227 0.331951122 1 9.726305056 -6.531827116 1.298188719 1.101032811 0.788846154 0 0.267584153 0.230234783 0.775895027 0.021176935 0.035544574 2.94E-07 6.531827116 -0.312186656 TGPAVAK(ac)AQAGKR ddPTM_HeLa_SAHA_4h_R1 2 TGPAVAKAQAGKR 13 2 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;A0A2R8Y857;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 0 1 ; TGPAVAK(1)AQAGKR;TGPAVAK(1)AQAGKR 113.69 0.0013692 6149000 1532.89 1527.13 1686.95 2073.55 2319.59 2179.4 2659.82 2537.88 510.67 1186.74 FALSE TRUE FALSE 1694.126403 1576.610014 1916.838761 2113.686559 2141.863515 1993.702859 2360.530053 2472.964704 507.1162059 1237.906169 1.368541854 1.273610273 1.548452386 1.707469121 1.730230908 1.610544409 1.906873164 1.997699637 0.409656417 1 10.27368625 -1 0.093960972 0.549391896 4.684866787 0.780617645 0.210056816 23.6705961 0.1601887 0.8954409 12.67058698 0.1 1 4.135474891 TGPPPIS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 1 TGPPPISPSK 10 0 A0A075B6E4;A0A0A6YYI5;G5E9M7;Q14135-2;Q14135;Q14135-4;F8W708;E7ERW0;E7EQU6;E7EWF5;A0A096LP98;E7EUJ2;F8WBN7 A0A075B6E4 VGLL4 Transcription cofactor vestigial-like protein 4 1 0 T(0.046)GPPPIS(0.92)PS(0.034)K 115.92 0.0038376 47021000 2379.2 2435.2 1880.9 1971.9 2088.4 1980.1 2098.1 2404.1 2070.9 2020.5 TRUE FALSE FALSE 2629.455172 2514.102078 2137.219257 2010.068976 1928.387243 1811.38434 1862.016266 2342.606603 2056.488438 2107.613643 1.247598288 1.192866675 1.014046983 0.953717956 0.914962403 0.859448005 0.883471348 1.111497172 0.975742611 1 11.04139471 -6.524969147 3.693985293 1.125740324 0.936707106 0.352683221 0.099217407 0.184171972 5.490720113 0.018043125 0.026919441 2.99E-07 6.524969147 -0.189033218 TGQAGSLSGS(ph)PKPFSPQLSAPITTK ddPTM_HeLa_SAHA_4h_R1 1 TGQAGSLSGSPKPFSPQLSAPITTK 25 1 Q9ULU4-19;Q9ULU4-16;H7C4X9;A0A087WVZ6;Q9ULU4-22;Q9ULU4-7;Q9ULU4-11;Q9ULU4-10;Q9ULU4-13;Q9ULU4;Q9ULU4-20;Q9ULU4-5;Q9ULU4-9;Q9ULU4-14;Q9ULU4-12;Q9ULU4-4;Q9ULU4-21;Q9ULU4-23;Q9ULU4-6;Q9ULU4-3;A0A087WYS3;Q9ULU4-8;Q9ULU4-17;A0A087WV57 Q9ULU4-19 ZMYND8 Protein kinase C-binding protein 1 1 0 T(0.018)GQAGS(0.098)LS(0.105)GS(0.73)PKPFS(0.036)PQLS(0.011)APIT(0.001)TK 66.017 0.00099404 8872200 1032.3 892.36 772.76 870.68 726.94 812.01 511.34 782.02 850.17 1113.9 TRUE FALSE FALSE 1140.88205 921.2730495 878.0677084 887.5332704 671.2420142 742.8221798 453.8026774 762.0170608 844.2535977 1161.92568 0.981889005 0.792884661 0.755700406 0.76384685 0.57769789 0.639302661 0.390560847 0.655822548 0.726598622 1 10.18230208 -6.421774422 0.665601763 1.004503779 0.522089303 0.535160618 0.116950319 0.171840672 0.151225865 0.016177111 0.036413263 3.79E-07 6.421774422 -0.482414477 TGQAGSLSGSPKPFS(ph)PQLSAPITTK ddPTM_HeLa_SAHA_4h_R1 1 TGQAGSLSGSPKPFSPQLSAPITTK 25 1 Q9ULU4-19;Q9ULU4-16;H7C4X9;A0A087WVZ6;Q9ULU4-22;Q9ULU4-7;Q9ULU4-11;Q9ULU4-10;Q9ULU4-13;Q9ULU4;Q9ULU4-20;Q9ULU4-5;Q9ULU4-9;Q9ULU4-14;Q9ULU4-12;Q9ULU4-4;Q9ULU4-21;Q9ULU4-23;Q9ULU4-6;Q9ULU4-3;A0A087WYS3;Q9ULU4-8;Q9ULU4-17;A0A087WV57 Q9ULU4-19 ZMYND8 Protein kinase C-binding protein 1 1 0 T(0.002)GQAGS(0.04)LS(0.027)GS(0.141)PKPFS(0.761)PQLS(0.027)APIT(0.001)TK 68.689 0.00077004 6300100 518.53 529.01 532.15 494.25 589.12 506.73 558 504.43 673.3 583.17 TRUE FALSE FALSE 573.0713645 546.1502711 604.6686307 503.8169234 543.9817529 463.5537532 495.2123714 491.527411 668.6144505 608.3133127 0.942066124 0.897810815 0.994008545 0.82821946 0.89424601 0.762031249 0.814074526 0.808016857 1.09912842 1 9.248670767 -5.852238305 0.391319695 0.990626605 0.748241621 0.697577188 0.05504033 0.685661162 0.164923415 0.014739465 0.067183457 1.41E-06 5.852238305 -0.242384984 TGQLEGAPAPGPAAS(ph)PQTLDHSGATATGGASELK ddPTM_HeLa_SAHA_4h_R1 1 TGQLEGAPAPGPAASPQTLDHSGATATGGASELK 34 0 P55317-2;P55317 P55317-2 FOXA1 Hepatocyte nuclear factor 3-alpha 1 0 TGQLEGAPAPGPAAS(0.497)PQT(0.497)LDHS(0.004)GAT(0.001)ATGGASELK 83.917 1.27E-07 8740400 415.47 546.46 369.8 384.41 501.88 406.94 340.2 351.53 472.39 508.15 TRUE FALSE FALSE 459.1710408 564.1656625 420.1944182 391.8508114 463.4260628 372.2664226 301.9198006 342.5383716 469.1025995 530.0588333 0.866264294 1.064345365 0.792731659 0.739259091 0.874291746 0.702311516 0.569596772 0.646227079 0.885001004 1 9.050008689 -3.35294197 0.251891644 0.986428702 3.52E-13 0.652749213 0.086419488 6.306049009 0.217543228 0.051884171 2.089839246 0.000443668 3.35294197 -0.986428702 TGQPAQPAPSAQQPPRPPAS(ph)PDEPSVAASSVGSSR ddPTM_HeLa_SAHA_4h_R1 3 TGQPAQPAPSAQQPPRPPASPDEPSVAASSVGSSR 35 1 O94964-2 O94964-2 SOGA1 Protein SOGA1;N-terminal form;C-terminal 80 kDa form 1 0 T(0.001)GQPAQPAPS(0.292)AQQPPRPPAS(0.649)PDEPS(0.017)VAAS(0.015)S(0.017)VGS(0.005)S(0.006)R;TGQPAQPAPS(0.333)AQQPPRPPAS(0.515)PDEPS(0.037)VAAS(0.045)S(0.045)VGS(0.012)S(0.012)R;T(0.001)GQPAQPAPS(0.249)AQQPPRPPAS(0.645)PDEPS(0.02)VAAS(0.032)S(0.038)VGS(0.007)S(0.007)R ;; 61.099 0.00057352 44695000 1888.57 1475.89 1770.14 1838.15 1840.12 2042.93 2283.43 1988.67 1650.93 1667.63 TRUE FALSE FALSE 2087.218458 1523.709804 2011.365461 1873.730051 1699.130403 1868.860871 2026.492447 1937.802701 1639.441044 1739.52969 1.199875155 0.875932048 1.156269693 1.077147497 0.976775741 1.07434836 1.164965713 1.113980814 0.942462237 1 10.76448159 -9.794882229 1.797299057 0.999743443 1.098490406 0.137397665 0.093549018 0.620080346 3.623542113 0.070493982 0.014740777 1.60E-10 9.794882229 0.098746963 TGRDT(ph)PENGETAIGAENSEK ddPTM_HeLa_SAHA_4h_R1 1 TGRDTPENGETAIGAENSEK 20 1 Q8N3X1-2;Q8N3X1 Q8N3X1-2 FNBP4 Formin-binding protein 4 1 0 T(0.004)GRDT(0.996)PENGETAIGAENSEK 135.34 4.52E-05 37700000 2450.2 2970.9 2013.1 2981.8 2679.7 3439.7 2815.3 2619.5 4559.3 2619.8 TRUE FALSE FALSE 2707.923278 3067.159109 2287.434784 3039.517051 2474.381965 3146.618209 2498.515035 2552.496983 4527.57146 2732.752399 0.990914244 1.122369927 0.837044287 1.112254828 0.905454137 1.151446509 0.914285186 0.934038877 1.65678071 1 11.41613904 TGS(ph)CSELDACPSK ddPTM_HeLa_SAHA_4h_R1 1 TGSCSELDACPSK 13 0 Q9H1H9-3;Q9H1H9-4;Q9H1H9-2;A0A1B0GUA8;Q9H1H9;H0Y9Z7 Q9H1H9-3 KIF13A Kinesin-like protein KIF13A 1 0 T(0.196)GS(0.723)CS(0.082)ELDACPSK 164.2 4.64E-05 50917000 2099.5 1949.1 2184.5 1717.2 2021.1 2311.3 2219.6 2009.6 1861.6 2308.2 TRUE FALSE FALSE 2320.335043 2012.252119 2482.192284 1750.438889 1866.243755 2114.364237 1969.844766 1958.197342 1848.644974 2407.717798 0.963707227 0.835750818 1.030931567 0.72701165 0.775109008 0.878161153 0.818137727 0.81330019 0.767799688 1 11.23345059 -6.824795488 0.84051122 0.989028179 0.810534603 0 0.099548292 0.312630304 0.442538699 0.014527042 0.022540424 1.50E-07 6.824795488 -0.178493576 TGS(ph)EPALSPAVVR ddPTM_HeLa_SAHA_4h_R1 1 TGSEPALSPAVVR 13 0 O75815;O75815-2;O75815-3 O75815 BCAR3 Breast cancer anti-estrogen resistance protein 3 1 0 T(0.026)GS(0.592)EPALS(0.381)PAVVR 89.747 0.010551 7129400 1375.1 1114.3 1260 1215.4 1173.1 1490.3 1659.4 1103 1599.8 1239.7 TRUE FALSE FALSE 1519.739327 1150.404051 1431.706238 1238.925824 1083.217331 1363.318056 1472.679945 1074.786857 1588.666862 1293.149534 1.175223195 0.889614094 1.107146699 0.958068492 0.837658216 1.054261723 1.138831903 0.831138881 1.228525255 1 10.3366734 -7.261595525 24.9999998 1.082744285 0.98254335 0.25297171 0.116144987 20.75851733 3323444.58 0.019117292 0.022592701 5.48E-08 7.261595525 -0.100200935 TGS(ph)ESSQTGTSTTSSR ddPTM_HeLa_SAHA_4h_R1 7 TGSESSQTGTSTTSSR 16 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 T(0.1)GS(0.751)ES(0.141)S(0.009)QTGTSTTSSR;T(0.055)GS(0.921)ES(0.023)S(0.001)QTGTSTTSSR;T(0.078)GS(0.92)ES(0.001)SQTGTSTTSSR;T(0.4)GS(0.596)ES(0.003)SQTGTSTTSSR;T(0.179)GS(0.664)ES(0.078)S(0.078)QTGTSTTSSR;T(0.001)GS(0.418)ES(0.171)S(0.397)QT(0.013)GTSTTSSR;T(0.091)GS(0.881)ES(0.028)SQTGTSTTSSR ;;;;;; 172.32 6.57E-09 426562330 573.89 855.045 497.267 813.84 647.76 1010.64 984.57 642.284 1080.887 814.602 TRUE FALSE FALSE 634.2543833 882.749019 565.0319571 829.59305 598.1287687 924.5277863 873.7835924 625.8553053 1073.365019 849.7234788 0.746424454 1.038866221 0.664959803 0.976309436 0.7039099 1.088033707 1.028315227 0.73653997 1.263193317 1 9.730849618 -4.201376055 21.24094213 0.89014835 0.736532223 0.032762462 0.185760754 22805.66496 8063117.119 0.02014961 39.36608592 6.29E-05 4.201376055 -0.153616127 TGS(ph)GQGPSSTGQPGR ddPTM_HeLa_SAHA_4h_R1 1 TGSGQGPSSTGQPGR 15 0 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 T(0.031)GS(0.913)GQGPS(0.043)S(0.012)T(0.001)GQPGR 127.83 0.00040485 1061700 0 0 0 183.98 66.256 148.73 149.03 68.118 0 0 TRUE FALSE FALSE 0 0 0 187.5411989 61.17947959 136.0573673 132.2607522 66.37564019 0 0 0 TGS(ph)NAAQYK ddPTM_HeLa_SAHA_4h_R1 2 TGSNAAQYK 9 0 Q8N556;Q8N556-2 Q8N556 AFAP1 Actin filament-associated protein 1 1 0 T(0.334)GS(0.665)NAAQY(0.001)K;T(0.452)GS(0.548)NAAQYK ; 110.08 0.0062561 198178000 6136.9 6080.7 4293.9 5979.6 7309.6 5573 6620.6 5174.4 5474.5 6349.6 TRUE FALSE FALSE 6782.407299 6277.71867 4879.05033 6095.343805 6749.540027 5098.149047 5875.632664 5042.04634 5436.402509 6623.36233 1.024012724 0.947814472 0.736642522 0.920279384 1.019050399 0.769722203 0.887107238 0.761251777 0.820791954 1 12.69334807 -6.993366361 24.94791076 1.010001149 0.856782351 0.106935196 0.099256232 107.3163833 403594.9022 0.012355632 0.016216278 1.02E-07 6.993366361 -0.153218798 TGS(ph)PGPELLFHEGQQK ddPTM_HeLa_SAHA_4h_R1 4 TGSPGPELLFHEGQQK 16 0 A6NHN7;A6NHB5;Q14202-2;Q14202;A6NL54;Q14202-3 A6NHN7 ZMYM3 Zinc finger MYM-type protein 3 1 0 T(0.019)GS(0.981)PGPELLFHEGQQK;T(0.492)GS(0.508)PGPELLFHEGQQK;T(0.116)GS(0.884)PGPELLFHEGQQK;T(0.437)GS(0.563)PGPELLFHEGQQK ;;; 170.38 1.73E-07 47970600 11156.2 13342.9 10089.9 12228.1 13361.8 13354.4 13303.5 12428.8 15523.2 12942.2 TRUE FALSE FALSE 12329.6603 13775.21871 11464.89903 12464.79256 12338.02177 12216.52999 11806.55517 12110.88929 15415.17279 13500.20158 0.913294533 1.020371335 0.849239099 0.923304181 0.913913892 0.904914635 0.874546583 0.897089515 1.141847601 1 13.72069333 -13.52287875 0.127379403 1.314793484 0.865074847 0.468822088 0.060064642 53.83214237 0.488686812 4.32094063 0.146662865 3.00E-14 13.52287875 -0.449718638 TGS(ph)PGSPGAGGVQSTAK ddPTM_HeLa_SAHA_4h_R1 1 TGSPGSPGAGGVQSTAK 17 0 O43237;O43237-2;J3KRZ2;J3KRI4 O43237 DYNC1LI2 Cytoplasmic dynein 1 light intermediate chain 2 1 0 T(0.179)GS(0.733)PGS(0.088)PGAGGVQSTAK 160.64 5.26E-06 6853400 1687.6 1975.2 1413.3 1577.3 1953.9 1845.7 2052.9 1604.8 2631.1 1695.2 TRUE FALSE FALSE 1865.109511 2039.197776 1605.897164 1607.830922 1804.192604 1688.435976 1821.902289 1563.75154 2612.789961 1768.288368 1.054754159 1.153204315 0.90816475 0.909258326 1.020304514 0.954841986 1.030319671 0.884330615 1.477581376 1 10.78813785 TGS(ph)QGQCTQVR ddPTM_HeLa_SAHA_4h_R1 2 TGSQGQCTQVR 11 0 P62857 P62857 RPS28 40S ribosomal protein S28 1 0 T(0.329)GS(0.671)QGQCTQVR;TGS(1)QGQCTQVR ; 179.46 3.28E-05 29673000 871.15 1008.82 1104.37 1346.01 1421.36 1320.2 1506.48 1657.36 1135.88 1030.01 TRUE FALSE FALSE 962.781554 1041.50643 1254.867792 1372.06397 1312.455704 1207.711533 1336.966906 1614.967131 1127.975319 1074.418772 0.896095246 0.969367306 1.167950361 1.277029037 1.221549491 1.124060343 1.244362944 1.503107702 1.049846995 1 10.0693407 -6.661643264 2.895789491 0.949555995 1.259874346 0.665503387 0.097680543 0.10860657 1.844320855 0.015597244 0.022559701 2.18E-07 6.661643264 0.310318351 TGS(ph)YGALAEITASK ddPTM_HeLa_SAHA_4h_R1 5 TGSYGALAEITASK 14 0 O14974-5;O14974-4;O14974-3;O14974-2;O14974;H0YIS4;H0YHI8;A0A3B3ISH4;F8VZN8 O14974-5 PPP1R12A Protein phosphatase 1 regulatory subunit 12A 1 0 T(0.039)GS(0.961)YGALAEITASK;T(0.161)GS(0.796)YGALAEIT(0.04)AS(0.002)K;T(0.179)GS(0.821)YGALAEITASK;T(0.029)GS(0.971)YGALAEITASK;T(0.029)GS(0.971)YGALAEITASK ;;;; 202.32 4.63E-12 171513700 8686.9 9334.8 8451.3 9673.82 10250.3 10521.9 10661 10350.2 9726.3 9243.2 TRUE FALSE FALSE 9600.627999 9637.253645 9602.999152 9861.070775 9464.924228 9625.374925 9461.396222 10085.45687 9658.613886 9641.719587 0.995738147 0.999536811 0.995984074 1.022750214 0.981663503 0.998304798 0.981297593 1.046022629 1.001752208 1 13.23507476 -4.24916561 24.9445258 0.997668951 1.04602266 0.641632115 0.010889594 848.9006105 1725227.463 0.001347077 0.031148297 5.63E-05 4.24916561 0.048353709 TGSCS(ph)ELDACPSK ddPTM_HeLa_SAHA_4h_R1 2 TGSCSELDACPSK 13 0 Q9H1H9-3;Q9H1H9-4;Q9H1H9-2;A0A1B0GUA8;Q9H1H9;H0Y9Z7 Q9H1H9-3 KIF13A Kinesin-like protein KIF13A 1 0 T(0.025)GS(0.282)CS(0.693)ELDACPSK;T(0.002)GS(0.179)CS(0.819)ELDACPSK ; 157.5 7.01E-05 64310000 7162.3 6346.6 6255.7 5986.8 6534.6 7512 7449.3 7484 6375.9 6527.7 TRUE FALSE FALSE 7915.663576 6552.234004 7108.194218 6102.683171 6033.92036 6871.935339 6611.085159 7292.570117 6331.529593 6809.141093 1.162505442 0.962270265 1.043919361 0.8962486 0.886149997 1.009222051 0.970913228 1.070997064 0.929857306 1 12.73325711 -7.229638094 24.81648726 1.076738688 0.974062101 0 0.080164828 606.3549601 473176.4808 0.013262273 0.016242143 5.89E-08 7.229638094 -0.102676587 TGSEPALS(ph)PAVVR ddPTM_HeLa_SAHA_4h_R1 1 TGSEPALSPAVVR 13 0 O75815;O75815-2;O75815-3 O75815 BCAR3 Breast cancer anti-estrogen resistance protein 3 1 0 TGSEPALS(1)PAVVR 214.61 4.94E-16 41689000 1289.9 1416.2 1108.7 1132.1 1107.1 1135.2 1395.5 779.24 1338.3 1271.6 TRUE FALSE FALSE 1425.5776 1462.085809 1259.787862 1154.013433 1022.274237 1038.474574 1238.474667 759.3081691 1328.986661 1326.424899 1.07475184 1.102275606 0.949761922 0.870017921 0.77069892 0.782912455 0.933693772 0.572447162 1.001931329 1 10.37332728 -6.226613205 1.890161867 1.040903746 0.778288146 0.667201527 0.088196 0.148739694 1.036522557 0.013245637 0.023740234 5.93E-07 6.226613205 -0.2626156 TGSEPALS(ph)PAVVRR ddPTM_HeLa_SAHA_4h_R1 2 TGSEPALSPAVVRR 14 1 O75815;O75815-2;O75815-3 O75815 BCAR3 Breast cancer anti-estrogen resistance protein 3 1 0 TGSEPALS(1)PAVVRR;TGSEPALS(1)PAVVRR ; 120.77 0.00047017 13261600 6899.7 4355.8 6707.7 4510.6 4947.1 4955.7 5687.8 5459 3586.1 5971.2 TRUE FALSE FALSE 7625.442103 4496.930778 7621.790424 4597.909185 4568.054267 4533.44648 5047.793775 5319.366685 3561.144038 6228.647654 1.224253245 0.721975464 1.223666973 0.738187395 0.733394233 0.727838005 0.810415688 0.85401631 0.571736312 1 12.60470325 -6.248553396 24.86094617 1.081715027 0.770177916 0 0.212003012 442.6067991 853921.7803 0.021917216 0.036196651 5.64E-07 6.248553396 -0.311537111 TGSES(ph)PKVCSDQSSGSGTGK ddPTM_HeLa_SAHA_4h_R1 2 TGSESPKVCSDQSSGSGTGK 20 1 O15169-2;O15169 O15169-2 AXIN1 Axin-1 1 0 T(0.024)GS(0.024)ES(0.951)PKVCSDQSSGSGTGK;T(0.008)GS(0.039)ES(0.881)PKVCS(0.072)DQSSGSGTGK ; 105.99 0.00037015 24078000 7239 5943.8 5921.1 5867.5 6077 6556.1 6814.9 6938.5 5892.9 6170.8 TRUE FALSE FALSE 8000.431234 6136.38302 6727.996672 5981.073947 5611.381573 5997.483396 6048.069516 6761.023217 5851.890829 6436.853387 1.242910278 0.953320303 1.045230685 0.929192198 0.871758487 0.931741495 0.939600322 1.050361537 0.909122902 1 12.65213989 -7.223172573 24.29680428 1.114707634 0.956966813 0.047269371 0.098668653 327.5944694 208000.283 0.016921469 0.020724155 5.98E-08 7.223172573 -0.157740822 TGSES(ph)SQTGTSTTSSR ddPTM_HeLa_SAHA_4h_R1 4 TGSESSQTGTSTTSSR 16 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 T(0.23)GS(0.131)ES(0.409)S(0.23)QTGTSTTSSR;T(0.017)GS(0.003)ES(0.49)S(0.49)QTGTSTTSSR;T(0.019)GS(0.046)ES(0.935)S(0.001)QTGTSTTSSR;TGS(0.008)ES(0.474)S(0.474)QT(0.042)GT(0.002)STTSSR ;;; 304.03 3.98E-87 629949900 4339.78 4907.36 3436.63 5179.459 5260.76 6046.817 5710.82 5440.369 5912.09 5384.05 TRUE FALSE FALSE 4796.257972 5066.361684 3904.956039 5279.714919 4857.681705 5531.594173 5068.223504 5301.212239 5870.947284 5616.182744 0.85400675 0.902100575 0.695304305 0.940089587 0.864943668 0.984938423 0.902432085 0.943917333 1.04536258 1 12.45537416 -3.358207296 17.62320549 0.911923564 0.899524384 0 0.09240318 0 0 0.01187248 0 0.000438321 3.358207296 -0.012399179 TGSESSQTGTSTTS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 TGSESSQTGTSTTSSR 16 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 T(0.057)GSESSQTGTS(0.023)T(0.023)T(0.072)S(0.413)S(0.413)R 108.35 0.0011236 0 135.34 289 177.98 220.82 232.87 469.68 270.93 257.3 307.37 283.83 TRUE FALSE FALSE 149.5756822 298.3637896 202.2341875 225.0942904 215.0275509 429.6606217 240.4442434 250.7186386 305.2309871 296.0673003 0.505208383 1.007756646 0.6830683 0.760280822 0.726279298 1.451226195 0.812126983 0.846829887 1.030951364 1 8.209781348 TGSESSQTGTSTTSSR ddPTM_HeLa_SAHA_4h_R1 5 TGSESSQTGTSTTSSR 16 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 0 0 ;;;; ;;;; 267.77 4.72E-58 2649930 112.3 66.506 112.42 0 0 105.1 55.508 0 0 56.77 FALSE FALSE TRUE 124.1122293 68.66083804 127.7400121 0 0 96.14488872 49.26209375 0 0 59.21763253 2.095866112 1.15946611 2.157127982 0 0 1.623585487 0.831882189 0 0 1 5.887954909 -6.259001677 24.99889687 1.541700871 0.54565949 0.177253978 0.750953785 183.5301312 1882117.529 0.097413551 0.156685585 5.51E-07 6.259001677 -0.996041381 TGSGGVASSSESNRDR ddPTM_HeLa_SAHA_4h_R1 2 TGSGGVASSSESNRDR 16 1 K7EMT0;Q15428 K7EMT0 SF3A2 Splicing factor 3A subunit 2 0 0 ; ; 91.845 0.0077322 410270 64.39 0 0 0 148.594 71.682 253.373 0 0 162.23 FALSE FALSE TRUE 71.16283563 0 0 0 137.2087598 65.57429033 224.8628032 0 0 169.2245292 0.420523171 0 0 0 0.810808932 0.387498731 1.328783742 0 0 1 7.402794893 -8.894045953 0.949277886 0.968209011 0.38864937 0 0.508461379 0.589808159 1.03462469 0.202907072 0.081162403 1.28E-09 8.894045953 -0.579559641 TGSGQGPSS(ph)TGQPGR ddPTM_HeLa_SAHA_4h_R1 2 TGSGQGPSSTGQPGR 15 0 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 TGSGQGPS(0.203)S(0.79)T(0.008)GQPGR;TGSGQGPS(0.314)S(0.622)T(0.063)GQPGR ; 115.38 0.00046096 0 301.45 393.96 294.15 406.71 404.49 548.48 524.07 424.52 619.26 722.6 TRUE FALSE FALSE 333.1578941 406.7245625 334.2352301 414.5824602 373.4980636 501.7464183 465.1002643 413.6613931 614.9505192 753.7548223 0.441997695 0.539597957 0.443426987 0.550022962 0.495516649 0.665662631 0.617044496 0.548800991 0.815849532 1 9.557951517 -9.313167164 0.95463214 1.009907896 0.535035022 0.742686891 0.084724128 0.169286926 0.267235385 0.056811216 0.013920574 4.86E-10 9.313167164 -0.474872874 TGSGS(ph)PFAGNS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 1 TGSGSPFAGNSPAR 14 0 M0QY97;Q9UPT8 M0QY97 ZC3H4 Zinc finger CCCH domain-containing protein 4 2 0 T(0.073)GS(0.312)GS(0.616)PFAGNS(1)PAR 114.06 0.017813 13857000 1748.6 2305.6 1760.9 1736.9 2098.2 2656.5 1776.9 1679.2 3548.2 2613 TRUE FALSE FALSE 1932.525771 2380.302953 2000.866282 1770.520211 1937.436369 2430.151255 1576.958535 1636.248495 3523.507787 2725.659218 0.709012249 0.873294408 0.73408527 0.649575046 0.710813867 0.891582939 0.578560418 0.600312939 1.292717653 1 11.41238948 -13.52287875 0.188296712 2.269285461 0.654346715 0.610440813 0.129197826 28.14816725 0.331262453 13.10452504 0.112830027 3.00E-14 13.52287875 -1.614938746 TGSGS(ph)PFAGNSPAR ddPTM_HeLa_SAHA_4h_R1 2 TGSGSPFAGNSPAR 14 0 M0QY97;Q9UPT8 M0QY97 ZC3H4 Zinc finger CCCH domain-containing protein 4 1 0 T(0.388)GS(0.052)GS(0.56)PFAGNSPAR;T(0.046)GS(0.095)GS(0.851)PFAGNS(0.007)PAR ; 135.61 0.00034018 76832000 2277.41 2890.5 2400.3 2752.3 2897.8 3074 3142.7 3025.6 2617.6 2818.9 TRUE FALSE FALSE 2516.958433 2984.154097 2727.400384 2805.574746 2675.77119 2812.077906 2789.075125 2948.209533 2599.383908 2940.436574 0.855981202 1.014867698 0.927549469 0.954135441 0.909991126 0.956347071 0.948524158 1.002643471 0.884012915 1 11.52181466 -3.776930363 1.303386483 0.937224924 1.130778773 0.154180764 0.045639113 7.762970835 4.744660182 0.008264117 2.725223629 0.000167136 3.776930363 0.193553849 TGSGSPFAGNS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 4 TGSGSPFAGNSPAR 14 0 M0QY97;Q9UPT8 M0QY97 ZC3H4 Zinc finger CCCH domain-containing protein 4 1 0 T(0.101)GS(0.067)GS(0.099)PFAGNS(0.733)PAR;T(0.156)GS(0.001)GS(0.267)PFAGNS(0.575)PAR;TGSGSPFAGNS(1)PAR;TGSGSPFAGNS(1)PAR ;;; 147.75 9.64E-05 122461900 3887.57 4442.63 3695.14 4654.24 4562.52 5836.1 5391.1 4665.86 5574.29 4363.9 TRUE FALSE FALSE 4296.482449 4586.574127 4198.694436 4744.329545 4212.940703 5338.831447 4784.479239 4546.514057 5535.498062 4552.049085 0.943856793 1.007584506 0.922374596 1.042240419 0.925504234 1.172841362 1.051060555 0.998784058 1.216045337 1 12.1523004 -5.282181126 24.99952523 0.974129482 1.071911871 0.011285169 0.093209199 541.2210278 652319.8393 0.007230491 0.016182762 5.22E-06 5.282181126 0.097782389 TGSGSPFAGNS(ph)PAREGEQDAASLK ddPTM_HeLa_SAHA_4h_R1 2 TGSGSPFAGNSPAREGEQDAASLK 24 1 M0QY97;Q9UPT8 M0QY97 ZC3H4 Zinc finger CCCH domain-containing protein 4 1 0 T(0.007)GS(0.007)GS(0.026)PFAGNS(0.862)PAREGEQDAAS(0.098)LK;T(0.002)GS(0.005)GS(0.04)PFAGNS(0.953)PAREGEQDAASLK ; 67.785 0.001225 29460000 1518.88 1641.12 1476.85 1482.96 1872.3 2308.66 2283.61 1915.19 1843.42 1629.44 TRUE FALSE FALSE 1678.642767 1694.293365 1678.107427 1511.664835 1728.844778 2111.94918 2026.652193 1866.202213 1830.59149 1699.693133 0.987615197 0.996823092 0.987300234 0.88937515 1.017151123 1.242547339 1.192363582 1.097964201 1.077012935 1 10.73105859 -5.362797568 5.702394824 0.986046947 1.178209302 0.710740959 0.053887151 0.072082185 3.336604287 0.006375015 0.014461178 4.34E-06 5.362797568 0.192162355 TGSNIS(ph)GASSDISLDEQYK ddPTM_HeLa_SAHA_4h_R1 3 TGSNISGASSDISLDEQYK 19 0 P22059 P22059 OSBP Oxysterol-binding protein 1 1 0 T(0.024)GS(0.029)NIS(0.805)GAS(0.138)S(0.004)DISLDEQYK;T(0.009)GS(0.01)NIS(0.981)GASSDISLDEQYK;TGSNIS(0.928)GAS(0.061)S(0.006)DIS(0.004)LDEQYK ;; 221.86 6.18E-26 35500700 3797.96 4971.19 3651.57 4085.05 4554.55 5526.8 4158.08 3919 5897.1 4152.98 TRUE FALSE FALSE 4197.446858 5132.259818 4149.186943 4164.12205 4205.581363 5055.885547 3690.201895 3818.757655 5856.061601 4332.035292 0.968931824 1.184722532 0.957791584 0.96123918 0.97080958 1.167092419 0.85184022 0.881515823 1.351803761 1 12.08082928 TGSPGS(ph)PGAGGVQSTAK ddPTM_HeLa_SAHA_4h_R1 3 TGSPGSPGAGGVQSTAK 17 0 O43237;O43237-2;J3KRZ2;J3KRI4 O43237 DYNC1LI2 Cytoplasmic dynein 1 light intermediate chain 2 1 0 T(0.001)GS(0.061)PGS(0.938)PGAGGVQSTAK;T(0.039)GS(0.039)PGS(0.921)PGAGGVQSTAK;T(0.012)GS(0.06)PGS(0.928)PGAGGVQSTAK ;; 170 4.71E-07 16841200 4327.7 5434.5 4614.4 4958.3 5467.9 6533.3 5433.8 4964.4 6577.6 5157.1 TRUE FALSE FALSE 4782.907342 5610.581366 5243.226401 5054.275066 5048.950683 5976.626085 4822.374523 4837.417836 6531.825946 5379.447819 0.889107489 1.042966036 0.974677435 0.939552764 0.938563 1.111011071 0.896444149 0.899240591 1.214218664 1 12.39324238 TGSQGQCTQVR ddPTM_HeLa_SAHA_4h_R1 4 TGSQGQCTQVR 11 0 P62857 P62857 RPS28 40S ribosomal protein S28 0 0 ;;; ;;; 218.07 8.85E-15 5864440 725.94 678.38 954.44 986.716 597.25 530.64 429.21 184.33 412.03 631.32 FALSE FALSE TRUE 802.2976999 700.3599571 1084.506113 1005.815315 551.488834 485.4264867 380.9141612 179.6151055 409.1626497 658.5392948 1.218298902 1.063505189 1.64683584 1.527342898 0.837442562 0.737126077 0.578422828 0.272747742 0.621318504 1 9.363125718 -5.073297663 1.57280657 1.169040215 0.381022105 0.52699164 0.280974059 0.222595698 1.005068977 0.036853475 0.165870913 8.45E-06 5.073297663 -0.78801811 TGSS(ph)PNSVSSSPTNSAITQLR ddPTM_HeLa_SAHA_4h_R1 1 TGSSPNSVSSSPTNSAITQLR 21 0 U3KQ51;E7ESP8;A0A1X7SC99;E7EUW9;A0A1B0GWI0;A0A1B0GVV8;A0A1B0GW50;A0JP08;A0A1B0GV02;O60315-2;O60315 U3KQ51 ZEB2 Zinc finger E-box-binding homeobox 2 1 0 T(0.302)GS(0.049)S(0.646)PNS(0.003)VSSSPTNSAITQLR 146.28 6.49E-06 6143800 638.28 571.44 548.57 437.75 398.41 337.09 625.95 542.25 424.97 348.83 TRUE FALSE FALSE 705.4172189 589.9550309 623.3262628 446.2232842 367.8839119 308.3680356 555.5164586 528.3800302 422.0125992 363.8697684 1.938653002 1.621335659 1.71304768 1.226326898 1.011031814 0.847468139 1.526690335 1.452113025 1.159790221 1 8.507278382 -6.113072066 8.580942496 1.488916077 1.195450214 0.164631437 0.307918926 0.571443323 39.72058388 0.061510206 0.102196057 7.71E-07 6.113072066 -0.293465864 TGSS(ph)SPPGGPPKPGSQLDSMLGSLQSDLNK ddPTM_HeLa_SAHA_4h_R1 1 TGSSSPPGGPPKPGSQLDSMLGSLQSDLNK 30 1 A0A1B0GTU4;F5GZ78;P49023;P49023-2;P49023-3;P49023-4 A0A1B0GTU4 PXN Paxillin 1 0 T(0.025)GS(0.102)S(0.359)S(0.359)PPGGPPKPGS(0.074)QLDS(0.074)MLGS(0.008)LQS(0.001)DLNK 63.913 0.0019041 14319000 821.04 790.97 698.73 666.61 565.49 1064.1 1038.9 861.42 1085.1 787.2 TRUE FALSE FALSE 907.4007543 816.597947 793.9492856 679.5132005 522.1622784 973.4326935 922.0002378 839.3861237 1077.548701 821.1400445 1.105049937 0.994468547 0.966886575 0.827524129 0.635899177 1.185464891 1.122829466 1.022220423 1.31225935 1 9.681484483 -7.011577137 4.616200328 1.049814354 0.958104143 0.127315705 0.166845122 0.442515563 24.45047376 0.025696041 0.032806658 9.74E-08 7.011577137 -0.091710211 TGSS(ph)SSILSASSESSEK ddPTM_HeLa_SAHA_4h_R1 1 TGSSSSILSASSESSEK 17 0 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 TGS(0.002)S(0.872)S(0.122)S(0.004)ILSASSESSEK 241.68 1.63E-36 5029800 514.36 664.66 463.07 600.78 641.59 643.32 865.59 735.7 614.22 603.29 TRUE FALSE FALSE 568.4627448 686.1954201 526.174768 612.4089656 592.4315128 588.5055168 768.1915351 716.8818593 609.945593 629.3007843 0.903324386 1.090409288 0.836126032 0.973157798 0.941412322 0.935173659 1.220706464 1.139172042 0.969243338 1 9.297605931 -4.764809505 24.99998911 0.954103235 1.179939291 0.658159779 0.064512488 33.34011015 247330.3507 0.008753204 0.027918324 1.72E-05 4.764809505 0.225836056 TGSSS(ph)PPGGPPKPGSQLDSMLGSLQSDLNK ddPTM_HeLa_SAHA_4h_R1 1 TGSSSPPGGPPKPGSQLDSMLGSLQSDLNK 30 1 A0A1B0GTU4;F5GZ78;P49023;P49023-2;P49023-3;P49023-4 A0A1B0GTU4 PXN Paxillin 1 0 T(0.054)GS(0.135)S(0.135)S(0.39)PPGGPPKPGS(0.054)QLDS(0.165)MLGS(0.067)LQS(0.001)DLNK 46.655 0.0072171 0 172.09 146.64 216.45 207.28 215.36 282.33 208.86 213.74 277.81 394.25 TRUE FALSE FALSE 190.1912158 151.3912322 245.9466788 211.2922041 198.8591633 258.2738957 185.3585231 208.2728403 275.8766976 411.2480469 0.462473238 0.368126325 0.598049476 0.513782876 0.483550414 0.628024613 0.450721954 0.506440923 0.670827982 1 8.683865017 -9.192961238 0.821017098 1.017434056 0.500838405 0.477282917 0.121066776 0.178614341 0.206060569 0.058721582 0.014617024 6.41E-10 9.192961238 -0.516595651 TGSSSPPGGPPKPGSQLDS(ph)MLGSLQSDLNK ddPTM_HeLa_SAHA_4h_R1 1 TGSSSPPGGPPKPGSQLDSMLGSLQSDLNK 30 1 A0A1B0GTU4;F5GZ78;P49023;P49023-2;P49023-3;P49023-4 A0A1B0GTU4 PXN Paxillin 1 0 T(0.001)GS(0.003)S(0.009)S(0.028)PPGGPPKPGS(0.059)QLDS(0.674)MLGS(0.223)LQS(0.003)DLNK 62.696 0.0038045 16167000 588.27 706.2 472.41 692.09 511.54 631.26 666.84 522.36 754.43 506.1 TRUE FALSE FALSE 650.1469377 729.0813434 536.7875746 705.4864027 472.3459157 577.4730966 591.8054082 508.9987876 749.1798602 527.9204478 1.231524447 1.381043955 1.016796331 1.336349834 0.894729344 1.093863856 1.121012476 0.964158122 1.419115064 1 9.044176736 -5.740623493 24.99999135 1.140996945 1.03115494 0.190379781 0.158664297 427.3775481 513279.9163 0.021192973 0.042349918 1.82E-06 5.740623493 -0.109842005 TGST(ph)SSKEDDYESDAATIVQK ddPTM_HeLa_SAHA_4h_R1 1 TGSTSSKEDDYESDAATIVQK 21 1 Q5T4S7-3;Q5T4S7-4;Q5T4S7;Q5T4S7-2;Q5T4S7-5 Q5T4S7-3 UBR4 E3 ubiquitin-protein ligase UBR4 1 0 T(0.04)GS(0.04)T(0.314)S(0.314)S(0.256)KEDDY(0.01)ES(0.002)DAAT(0.025)IVQK 65.374 0.0073003 27888000 1155.1 1166.7 1013.7 1333.2 1696.8 1615.9 1903.3 1873.8 1066.4 1391.7 TRUE FALSE FALSE 1276.598718 1204.501845 1151.841757 1359.006014 1566.791551 1478.216229 1689.135675 1825.870909 1058.978836 1451.702998 0.879380093 0.829716442 0.793441743 0.936146041 1.079278305 1.018263537 1.163554582 1.25774412 0.729473479 1 10.50353061 -4.77204084 0.980107109 0.922149917 1.302537948 0.666542754 0.091936909 0.479595691 0.573903067 0.013238512 0.158683319 1.69E-05 4.77204084 0.380388031 TGSTS(ph)SKEDDYESDAATIVQK ddPTM_HeLa_SAHA_4h_R1 1 TGSTSSKEDDYESDAATIVQK 21 1 Q5T4S7-3;Q5T4S7-4;Q5T4S7;Q5T4S7-2;Q5T4S7-5 Q5T4S7-3 UBR4 E3 ubiquitin-protein ligase UBR4 1 0 T(0.004)GS(0.006)T(0.024)S(0.48)S(0.48)KEDDY(0.004)ESDAATIVQK 94.313 0.00023542 25106000 1357.4 1651.5 1173.8 2000.5 2032.6 1820.1 2550.5 2621.1 1446 1763.1 TRUE FALSE FALSE 1500.17756 1705.009684 1333.759351 2039.22257 1876.862627 1665.01724 2263.511027 2554.056057 1435.937168 1839.115869 0.815705843 0.927081165 0.725217684 1.108805924 1.020524404 0.905335693 1.230760424 1.388741242 0.780775802 1 10.84479666 -4.021153614 0.850240971 0.909328102 1.885571299 0.672790146 0.112602121 1.465233076 0.591898155 0.017813468 1.468705017 9.52E-05 4.021153614 0.976243197 TGT(ph)PSDPR ddPTM_HeLa_SAHA_4h_R1 1 TGTPSDPR 8 0 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-8;O60716-9;O60716-17;O60716-7;O60716-4;O60716-6;A0A669KB62;O60716-11;O60716-13;O60716-19;O60716-21;O60716-20;O60716-22;O60716-23;O60716-14;O60716-24;O60716-16;O60716-15;O60716-12 O60716 CTNND1 Catenin delta-1 1 0 T(0.013)GT(0.941)PS(0.046)DPR 110.76 0.010827 26468000 5976.4 7205.8 4762.5 7966.2 7385.1 8429 7330.9 7081.1 9769.2 8649.5 TRUE FALSE FALSE 6605.025173 7439.272648 5411.508698 8120.39732 6819.255233 7710.80178 6506.007838 6899.975715 9701.215342 9022.422275 0.732067839 0.824531641 0.599784463 0.900024081 0.755812023 0.854626568 0.721093254 0.764758676 1.075234017 1 13.13929909 -9.287590704 0.874420655 1.009046713 0.768117576 0.619549638 0.082354873 0.364024063 0.469302995 0.059215997 0.013790028 5.16E-10 9.287590704 -0.240929138 TGTAYTFFTPNNIK ddPTM_HeLa_SAHA_4h_R1 1 TGTAYTFFTPNNIK 14 0 P17844-2;P17844;J3KTA4 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 0 0 150.14 0.00010459 524120 172.28 213.58 313.55 143.84 0 132.13 165.92 226.16 0 0 FALSE FALSE TRUE 190.4012008 220.5001321 356.2789611 146.6242312 0 120.8717807 147.2502449 220.3751547 0 0 0 TGTGDIATCYS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 TGTGDIATCYSPR 13 0 E9PMR6;Q9NZN5-2;Q9NZN5 E9PMR6 ARHGEF12 Rho guanine nucleotide exchange factor 12 1 0 TGTGDIATCYS(1)PR;TGTGDIAT(0.001)CYS(0.999)PR ; 164.92 4.39E-05 10971300 1620.9 1413.76 1377.98 1293.18 1669.07 2197.21 1780.9 1553.12 1583.76 1615.82 TRUE FALSE FALSE 1791.393699 1459.566752 1565.763938 1318.211369 1541.186217 2009.995347 1580.508445 1513.393439 1572.738485 1685.485908 1.062835169 0.865962002 0.928968869 0.782095752 0.91438689 1.192531683 0.937716796 0.897897415 0.933106873 1 10.71894885 -7.275667494 24.52145507 1.029672164 0.93516839 0.057098276 0.103743738 866.9651052 1494167.998 0.017736537 0.020334485 5.30E-08 7.275667494 -0.094503773 TGTITTFEHAHNMR ddPTM_HeLa_SAHA_4h_R1 1 TGTITTFEHAHNMR 14 0 P13639 P13639 EEF2 Elongation factor 2 0 0 83.53 0.0058457 5737100 1518.5 1696.4 2248 2242.9 2391.6 9310.1 2107.5 1618.4 2244.6 2561.9 FALSE FALSE TRUE 1678.222797 1751.364473 2554.345733 2286.314573 2208.356125 8516.827103 1870.358553 1577.003671 2228.979646 2672.356047 0.627993713 0.655363448 0.955840348 0.85554265 0.826370471 3.187010621 0.699891227 0.590117351 0.834087826 1 11.38389652 -5.444815179 24.99999743 0.819898695 1.512026171 0.175310834 0.665683194 143.9842628 46110.14406 0.091322021 0.204202224 3.59E-06 5.444815179 0.692127476 TGTIVVEGHELHDEDIR ddPTM_HeLa_SAHA_4h_R1 3 TGTIVVEGHELHDEDIR 17 0 J3KR24;A0A0A0MSX9;P41252 J3KR24 IARS "Isoleucine--tRNA ligase, cytoplasmic" 0 0 ;; ;; 113.67 0.00047026 13530500 5975.2 6312.4 7079.7 6742.6 7221.7 2686.25 7625.3 5700.5 7770.1 7429.2 FALSE FALSE TRUE 6603.698951 6516.925902 8044.484647 6873.112773 6668.374906 2457.366388 6767.281175 5554.689464 7716.027241 7749.50917 0.852144156 0.840946924 1.038063763 0.886909432 0.860489969 0.317099617 0.873252877 0.71677952 0.995679478 1 12.91988922 -5.502031533 24.78171461 0.925255322 0.647686518 0.470169427 0.142175016 466.5592006 554612.5609 0.019499662 0.043147139 3.15E-06 5.502031533 -0.277568804 TGVAVNKPAEFTVDAK ddPTM_HeLa_SAHA_4h_R1 2 TGVAVNKPAEFTVDAK 16 1 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 178.47 1.64E-12 13217300 5712.1 5438.5 5508.7 5142 6044.7 6767.5 5964.4 5172.3 4724.3 5675.6 FALSE FALSE TRUE 6312.924886 5614.710968 6259.396948 5241.530845 5581.556392 6190.870927 5293.270015 5040.000055 4691.423212 5920.302892 1.06631789 0.948382384 1.057276471 0.885348426 0.942782235 1.045701722 0.894087703 0.851307804 0.792429593 1 12.53145527 -6.266445425 24.90375167 1.02634275 0.930014185 0 0.093310825 316.381479 1573913.846 0.009055068 0.014104122 5.41E-07 6.266445425 -0.096328565 TGVAVNKPAEFTVDAK(ac)HGGK ddPTM_HeLa_SAHA_4h_R1 2 TGVAVNKPAEFTVDAKHGGK 20 2 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 1 ; TGVAVNKPAEFTVDAK(1)HGGK;TGVAVNKPAEFTVDAK(1)HGGK 97.083 0.0009335 16542800 8529.4 8356.2 6893.2 8718.3 10078.6 9825.3 10594.8 10964.7 8316.3 8596.8 FALSE TRUE FALSE 9426.561426 8626.946363 7832.569398 8887.055303 9306.379845 8988.129164 9402.64522 10684.23885 8258.426191 8967.45012 1.051197531 0.962028921 0.873444434 0.991034819 1.037795552 1.002306012 1.048530529 1.1914467 0.920933608 1 13.1304821 -4.235693739 2.239484737 1.006736434 1.246649641 0.54053945 0.055164454 0.434092681 2.346026522 0.007715186 0.210227735 5.81E-05 4.235693739 0.239913207 TGVPST(ph)ASVGK ddPTM_HeLa_SAHA_4h_R1 1 TGVPSTASVGK 11 0 E9PHV5;P28290-3;P28290;P28290-2;E7EUL7;H7BZ26 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 TGVPS(0.012)T(0.577)AS(0.411)VGK 116.71 0.0044101 34179000 3548.8 3112.1 3413.6 3612.2 3790.2 4046.6 3259 3897.6 4105.6 3450 TRUE FALSE FALSE 3922.079066 3212.934082 3878.787631 3682.119354 3499.795695 3701.806914 2892.288743 3797.905036 4077.028795 3598.746384 1.089845921 0.892792584 1.077816333 1.023167226 0.972504123 1.028637898 0.803693407 1.055341119 1.132902506 1 11.81327872 -5.330085914 1.54863788 1.03248414 0.937220696 0.13695177 0.086356227 0.51694126 2.338161448 0.011633906 0.03996103 4.68E-06 5.330085914 -0.095263444 TGVS(ph)PGDVSDSATSDSTK ddPTM_HeLa_SAHA_4h_R1 1 TGVSPGDVSDSATSDSTK 18 0 Q5T5U3;A0A087WW76;A0A452Q6Z5 Q5T5U3 ARHGAP21 Rho GTPase-activating protein 21 1 0 TGVS(0.891)PGDVS(0.101)DS(0.009)ATSDSTK 185.28 1.20E-12 3278100 528.16 621.34 264.37 458.68 487.79 556.28 668.65 461.95 499.66 603.24 TRUE FALSE FALSE 583.7142921 641.4718237 300.3969668 467.5584147 450.4156356 508.8818145 593.4117422 450.1339879 496.1828254 629.2486286 0.927636971 1.019425064 0.477389943 0.743042406 0.715799153 0.808713426 0.94304813 0.71535156 0.788532232 1 9.297486357 -6.839224202 25 0.968894089 0.746353026 0.368428722 0.124330275 21.40130405 6877.386338 0.017973806 0.023622213 1.45E-07 6.839224202 -0.222541064 TGVSPGDVS(ph)DSATSDSTK ddPTM_HeLa_SAHA_4h_R1 1 TGVSPGDVSDSATSDSTK 18 0 Q5T5U3;A0A087WW76;A0A452Q6Z5 Q5T5U3 ARHGAP21 Rho GTPase-activating protein 21 1 0 TGVSPGDVS(0.992)DS(0.008)ATSDSTK 180.32 2.63E-09 3554600 723.24 824.75 677.65 711.43 704.3 970.14 768.07 760.02 743.77 704.23 TRUE FALSE FALSE 799.3137015 851.4724411 769.996613 725.2007564 650.3366862 887.4786141 681.6447422 740.5797889 738.594044 734.5928017 1.088104457 1.159108065 1.048195151 0.987214624 0.885302285 1.208123211 0.927921892 1.008150076 1.005446885 1 9.520800949 -6.32272081 7.510848871 1.053874756 1.004017291 0.090343839 0.089084015 0.658400172 72.33814835 0.013632417 0.020886773 4.76E-07 6.32272081 -0.049857465 TGVTSTS(ph)DS(ph)EEEGDDQEGEK ddPTM_HeLa_SAHA_4h_R1 1 TGVTSTSDSEEEGDDQEGEK 20 0 O75475;O75475-3;O75475-2 O75475 PSIP1 PC4 and SFRS1-interacting protein 2 0 T(0.003)GVT(0.008)S(0.064)T(0.223)S(0.768)DS(0.933)EEEGDDQEGEK 80.859 0.0057328 9375400 1881.9 1935.7 1511.8 2085.5 2092.1 2644.4 2169.9 2484.2 2802.7 2397.6 TRUE FALSE FALSE 2079.846876 1998.41795 1717.820231 2125.867868 1931.80375 2419.082243 1925.737141 2420.657761 2783.195783 2500.97227 0.831615329 0.799056421 0.686860967 0.850016569 0.772421099 0.967256723 0.769995399 0.967886686 1.112845519 1 11.28827335 -8.977617115 0.853824054 0.997038165 0.827168439 0.465117203 0.090920015 0.462771139 0.631449409 0.047000461 0.015734198 1.05E-09 8.977617115 -0.169869726 TGYES(ph)GEYEMLGEGLGVK ddPTM_HeLa_SAHA_4h_R1 3 TGYESGEYEMLGEGLGVK 18 0 Q13561;Q13561-3;Q13561-2;F8VW18;F8W1I6;H0YHL1;F8VX93;F8VRV7 Q13561 DCTN2 Dynactin subunit 2 1 0 T(0.005)GYES(0.995)GEYEMLGEGLGVK;T(0.001)GYES(0.999)GEYEMLGEGLGVK;T(0.001)GYES(0.999)GEYEMLGEGLGVK ;; 167.14 2.31E-06 13918000 2732.15 2358.33 2236.29 2497.33 2899.91 3478.19 2854.17 2576.02 2746.96 2437.01 TRUE FALSE FALSE 3019.530073 2434.741439 2541.039955 2545.669433 2677.719522 3181.828644 2533.01128 2510.129138 2727.843682 2542.081428 1.187817998 0.957774764 0.999590307 1.001411444 1.053357101 1.251662755 0.996432 0.987430659 1.073074864 1 11.31179453 -7.248905653 24.87243608 1.088691836 1.040208882 0.065337254 0.08801943 1999.694248 3968274.968 0.017364741 0.021204652 5.64E-08 7.248905653 -0.048482954 TGYGGGFNERENVEYIEREES(ph)DGEYDEFGR ddPTM_HeLa_SAHA_4h_R1 1 TGYGGGFNERENVEYIEREESDGEYDEFGR 30 2 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 T(0.001)GY(0.001)GGGFNERENVEY(0.07)IEREES(0.927)DGEY(0.001)DEFGR 53.878 0.0032891 8535500 695.03 471.85 820.44 533.38 789.85 1896.6 1023 1036.8 304.64 711.81 TRUE FALSE FALSE 768.1364443 487.1382496 932.2452905 543.7043412 729.3318636 1734.99901 907.8893476 1010.280157 302.5199854 742.4996126 1.034527737 0.656078793 1.255549868 0.732262121 0.982265649 2.336700223 1.222747234 1.360647386 0.407434536 1 9.536246463 -5.417603237 24.07693374 0.983466483 1.608514958 0.467224844 0.363252954 15.05794416 3437.190479 0.040963578 0.091597336 3.82E-06 5.417603237 0.625048476 TGYTLDVTTGQR ddPTM_HeLa_SAHA_4h_R1 3 TGYTLDVTTGQR 12 0 O43390;O43390-4;O43390-2;O60506-2;O60506;O60506-4;O60506-3;B7Z645;F6UXX1 O43390;O60506-2 HNRNPR;SYNCRIP Heterogeneous nuclear ribonucleoprotein R;Heterogeneous nuclear ribonucleoprotein Q 0 0 ;; ;; 190.57 4.37E-16 19385600 3520.96 3380.14 3328.53 3683.89 3870.17 4367.11 4334.13 3658.02 3601.19 3653.47 FALSE FALSE TRUE 3891.310728 3489.658754 3782.124734 3755.197018 3573.638411 3995.007659 3846.442286 3564.453145 3576.129026 3810.988971 1.021076355 0.915683247 0.992426051 0.985360243 0.937719431 1.048286334 1.009302917 0.935309226 0.938372966 1 11.89594972 THAVSVSETDDY(ph)AEIIDEEDTYTMPSTR ddPTM_HeLa_SAHA_4h_R1 2 THAVSVSETDDYAEIIDEEDTYTMPSTR 28 0 Q05397-5;Q05397;Q05397-7;Q05397-2;E7ESA6;H0YBP1;Q05397-3;Q05397-4;H0YB33;H0YB99 Q05397-5 PTK2 Focal adhesion kinase 1 1 0 THAVS(0.002)VS(0.025)ET(0.208)DDY(0.763)AEIIDEEDT(0.001)Y(0.001)TMPSTR;THAVSVSETDDY(1)AEIIDEEDTYTMPSTR ; 220.66 4.65E-33 10857400 552.95 735.4 593.04 536.37 888.95 279.04 753.56 1095.91 910.09 712.84 TRUE FALSE FALSE 611.111818 759.2274425 673.8564028 546.752217 820.838843 255.2642222 668.7674455 1067.878209 903.7566096 743.574021 0.821857409 1.021051598 0.906239841 0.735303012 1.103910061 0.343293626 0.899395927 1.43614244 1.215422519 1 9.538332556 -9.566469489 1.317465184 1.000533685 0.884397122 0.043067864 0.271988794 1.732626812 5.349767696 0.180495852 0.041568732 2.71E-10 9.566469489 -0.116136563 THEAQIQEMR ddPTM_HeLa_SAHA_4h_R1 2 THEAQIQEMR 10 0 P35579 P35579 MYH9 Myosin-9 0 0 ; ; 143.37 0.00084824 7120800 1372.95 1395.65 1201.5 1440.81 1620.97 383.987 1852.64 1539.89 1525.6 1568.94 FALSE FALSE TRUE 1517.36318 1440.869976 1365.234163 1468.698961 1496.771629 351.2691473 1644.176071 1500.501844 1514.983225 1636.584682 0.927152256 0.880412723 0.83419708 0.897417028 0.91457023 0.214635485 1.004638556 0.916849498 0.925698036 1 10.67647254 -6.780523271 0.697758397 0.978676424 0.757869902 0.11453548 0.20482956 0.912192659 0.906995362 0.04786946 0.079943202 1.66E-07 6.780523271 -0.220806522 THILLFLPK ddPTM_HeLa_SAHA_4h_R1 1 THILLFLPK 9 0 P07237;H7BZ94;I3L398;I3L312;I3L4M2 P07237 P4HB Protein disulfide-isomerase 0 0 107.47 0.0019491 3633200 495.27 725.61 999.41 1108.8 1046.5 0 1031 288.16 214.46 428.19 FALSE FALSE TRUE 547.364771 749.1202401 1135.60439 1130.262427 966.3173961 0 914.9891666 280.7892845 212.9675554 446.6513664 1.225485495 1.677192317 2.542484979 2.530524952 2.163471264 0 2.04855338 0.62865426 0.476809367 1 8.803005365 -5.288601756 24.99057174 1.433653042 1.008016688 0.115619525 0.800890242 1837.010408 1690126.961 0.1189483 0.266037291 5.15E-06 5.288601756 -0.425636354 THINIVVIGHVDSGK ddPTM_HeLa_SAHA_4h_R1 2 THINIVVIGHVDSGK 15 0 Q5VTE0;P68104;A0A087WVQ9;A0A087WV01;A6PW80;Q5JR01;A0A2U3TZH3;Q05639;A0A2R8Y488;A0A2R8Y660;A0A2R8YDN5 Q5VTE0;A0A2U3TZH3 EEF1A1P5;EEF1A1;EEF1A2 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha;Elongation factor 1-alpha 2 0 0 ; ; 89.466 0.0051855 12211600 5471.4 7436.8 7324.4 9421.1 11841.2 332.735 13733.5 8919.9 9949.4 9241.6 FALSE FALSE TRUE 6046.906956 7677.757199 8322.531088 9603.459014 10933.92981 304.3841061 12188.17044 8691.741874 9880.161315 9640.050603 0.627269213 0.796443661 0.863328569 0.996204212 1.134219131 0.031574949 1.264326396 0.901628242 1.024907619 1 13.234825 THNDIIHNENMR ddPTM_HeLa_SAHA_4h_R1 6 THNDIIHNENMR 12 0 E7EQR4;P15311 E7EQR4 EZR Ezrin 0 0 ;;;;; ;;;;; 179.94 9.66E-06 63594910 5473.44 5264.33 5672.05 5418.74 6260 1304.528 6522.84 5008.52 6217.8 6015.08 FALSE FALSE TRUE 6049.161532 5434.897746 6445.007435 5523.627548 5780.360152 1193.374875 5788.872876 4880.409311 6174.529824 6274.419536 0.964098989 0.86619929 1.027187838 0.880340806 0.921258153 0.190196857 0.922614888 0.777826424 0.984079848 1 12.61526628 -5.491589599 24.98142119 0.967399077 0.642165327 0.396344434 0.180021827 465.3745661 371557.2289 0.023771189 0.053099321 3.22E-06 5.491589599 -0.325233751 THS(ph)LSNADGQYDPYTDSR ddPTM_HeLa_SAHA_4h_R1 2 THSLSNADGQYDPYTDSR 18 0 A0A0A0MTL4;A0A0A0MTE8;Q8IVL1-4;Q8IVL1-8;Q8IVL1-9;Q8IVL1-10;Q8IVL1-13;Q8IVL1-12;Q8IVL1-11;Q8IVL1-3;Q8IVL1-2;Q8IVL1;Q8IVL1-5;E9PNV5;Q8IVL1-6 A0A0A0MTL4 NAV2 Neuron navigator 2 1 0 T(0.431)HS(0.562)LS(0.007)NADGQYDPYTDSR;T(0.004)HS(0.834)LS(0.162)NADGQYDPYTDSR ; 111.25 0.00087142 3251900 997.57 1328.41 884.04 937.32 1350.24 880.14 1729.09 1033.16 1133.82 1319.87 TRUE FALSE FALSE 1102.49899 1371.451356 1004.512367 955.463184 1246.784903 805.1471205 1534.528242 1006.733263 1125.929654 1376.776055 0.800783094 0.996132487 0.729612026 0.69398591 0.905582937 0.584806162 1.114580862 0.73122514 0.817801595 1 10.4270782 -9.48609739 0.564772647 1.045474503 0.815994409 0 0.156343904 2.049161817 0.80555393 0.259734346 0.031674208 3.27E-10 9.48609739 -0.229480095 THSDAS(ph)DDEAFTTSK ddPTM_HeLa_SAHA_4h_R1 2 THSDASDDEAFTTSK 15 0 H0YK04;Q13017-2;Q13017 H0YK04 ARHGAP5 Rho GTPase-activating protein 5 1 0 THSDAS(0.998)DDEAFT(0.002)TSK;THS(0.008)DAS(0.992)DDEAFTTSK ; 213.83 1.22E-17 7343400 1325.68 1271.51 1186.36 1490.79 1470 377.23 1500.72 1484.71 1443.53 1540.89 TRUE FALSE FALSE 1465.121105 1312.707758 1348.030963 1519.646396 1357.368918 345.0878818 1331.855036 1446.733268 1433.484357 1607.325309 0.911527428 0.816703222 0.83867961 0.945450425 0.844489233 0.214696975 0.828615731 0.900087406 0.891844575 1 10.65044623 -6.490532978 0.606447873 0.972767073 0.682620664 0.175653029 0.189475941 0.843804397 0.623540365 0.04718419 0.10385077 3.23E-07 6.490532978 -0.290146409 THSGGKPY(ph)VCRECGRGFT(ph)WK ddPTM_HeLa_SAHA_4h_R1 1 THSGGKPYVCRECGRGFTWK 20 3 Q7Z6E1;K7EPW3;P10072-2;P10072;F5H6A5 Q7Z6E1 HKR1 Krueppel-related zinc finger protein 1 2 0 T(0.156)HS(0.185)GGKPY(0.659)VCRECGRGFT(1)WK 52.909 0.013299 10294000 331.37 941.01 627.53 429.02 686.81 591.09 630.53 634.9 286.72 617.86 TRUE FALSE FALSE 366.225017 971.4993414 713.0465204 437.3243025 634.1867662 540.7258066 559.5811049 618.6601773 284.7246922 644.4989683 0.568232123 1.507371445 1.106357893 0.678549267 0.983999661 0.838986303 0.868242049 0.959908716 0.441776801 1 9.332034239 THSLCNGDS(ph)PGPVQK ddPTM_HeLa_SAHA_4h_R1 3 THSLCNGDSPGPVQK 15 0 A0A1B0GWK2;Q674X7-4;Q674X7-3;Q674X7-2;Q674X7 A0A1B0GWK2 KAZN Kazrin 1 0 THSLCNGDS(1)PGPVQK;THSLCNGDS(1)PGPVQK;T(0.001)HS(0.012)LCNGDS(0.986)PGPVQK ;; 148.19 6.00E-05 16045700 8141.2 7343.9 8702.7 8945.7 8058.6 1673.15 8950.8 7640.6 10044.8 8353.4 TRUE FALSE FALSE 8997.528769 7581.847179 9888.658634 9118.856959 7441.151809 1530.588207 7943.632427 7445.164515 9974.897419 8713.555955 1.032589773 0.870120903 1.134859142 1.046513847 0.853974181 0.17565598 0.91164072 0.854434694 1.144756225 1 13.08904588 -5.517871579 22.80250588 1.012931393 0.647205467 0.438647373 0.19737004 46.02055039 209574.398 0.026373109 0.054087153 3.03E-06 5.517871579 -0.365725925 THT(ph)GERPNACADCGK ddPTM_HeLa_SAHA_4h_R1 1 THTGERPNACADCGK 15 1 Q6DD87 Q6DD87 ZNF787 Zinc finger protein 787 1 0 T(0.014)HT(0.986)GERPNACADCGK 90.422 0.0084862 1591200 375.29 518.4 418.98 448.03 496.67 37.372 524.76 411.3 556.95 488.49 TRUE FALSE FALSE 414.7647241 535.1965001 476.0764124 456.7022685 458.6152519 34.18769535 465.7126237 400.7795416 553.0741396 509.5511945 0.813980476 1.050329203 0.93430536 0.896283383 0.900037635 0.06709374 0.913966307 0.786534397 1.085414274 1 8.993083291 -5.476985504 24.99542619 0.921507429 0.598656695 0.362594271 0.218920312 367.768563 200302.1642 0.029118523 0.065108663 3.33E-06 5.476985504 -0.322850734 THTDS(ph)SEKELEPEAAEEALENGPK ddPTM_HeLa_SAHA_4h_R1 1 THTDSSEKELEPEAAEEALENGPK 24 1 Q9H3P7 Q9H3P7 ACBD3 Golgi resident protein GCP60 1 0 T(0.004)HT(0.019)DS(0.538)S(0.44)EKELEPEAAEEALENGPK 108.96 1.12E-05 8386400 1416.7 1540.4 1637 1625.7 1606.7 199.27 1674.7 1944.1 1357 1707.3 TRUE FALSE FALSE 1565.715006 1590.309971 1860.081835 1657.167774 1483.594993 182.2910749 1486.258348 1894.372737 1347.556527 1780.910058 0.879165682 0.892976017 1.044455797 0.930517387 0.833054419 0.102358384 0.834549921 1.063710505 0.756667368 1 10.79839894 -5.513657064 24.77943657 0.942596694 0.647651624 0.176981227 0.236696521 403.6834138 1084729.513 0.032254821 0.067466044 3.06E-06 5.513657064 -0.29494507 THTDSS(ph)EKELEPEAAEEALENGPK ddPTM_HeLa_SAHA_4h_R1 1 THTDSSEKELEPEAAEEALENGPK 24 1 Q9H3P7 Q9H3P7 ACBD3 Golgi resident protein GCP60 1 0 T(0.016)HT(0.018)DS(0.151)S(0.815)EKELEPEAAEEALENGPK 108.08 1.21E-05 8469000 1147.9 1208.8 1136.5 1273.9 1287 244.86 1359.4 1612.3 1439.8 1307.5 TRUE FALSE FALSE 1268.641389 1247.965913 1291.376301 1298.558177 1188.390338 223.9965505 1206.436734 1571.059701 1429.780315 1363.872724 0.93017579 0.915016402 0.94684517 0.952110966 0.871335219 0.16423567 0.884566949 1.151910786 1.048323857 1 10.4134933 -5.511896088 24.79655974 0.957407813 0.710189871 0.164668081 0.231592052 585.2940689 1321470.547 0.032109532 0.067938027 3.08E-06 5.511896088 -0.247217942 THTGEK(ac)PYR ddPTM_HeLa_SAHA_4h_R1 1 THTGEKPYR 9 1 Q8N8E2-2;Q8N8E2;Q9NX65;Q9UJW8-2;Q8WXB4;Q9UJW8-3;P52747-3;Q9UJW8;A0A087X2B0;P17017;M0QZI7;E7EN86;A0A1W2PQ54;G5E9B8;A0A0A0MP75;O94892;P52747;F5H032;Q9UJW8-4;P52747-2;Q99612;Q86UD4;Q86TJ5;Q7Z3I7;Q15937;Q9BSK1;Q9NX65-2;Q499Z4;Q9BSK1-2;Q9NX65-3;Q9HCG1 Q8N8E2-2 ZNF513;ZSCAN32;ZNF180;ZNF606;ZNF143;ZNF79;ZNF14;ZNF160;ZNF432;KLF6;ZNF329;ZNF554;ZNF572;ZNF577;ZNF672 Zinc finger protein 513;Zinc finger and SCAN domain-containing protein 32;Zinc finger protein 180;Zinc finger protein 606;Zinc finger protein 143;Zinc finger protein 14;Zinc finger protein 432;Krueppel-like factor 6;Zinc finger protein 329;Zinc finger protein 554;Zinc finger protein 572;Zinc finger protein 79;Zinc finger protein 577;Zinc finger protein 672;Zinc finger protein 160 0 1 THTGEK(1)PYR 96.665 0.016888 1994100 425.35 594.55 351.46 633 668.74 0 616.65 661.54 363.81 416.65 FALSE TRUE FALSE 470.0902646 613.8138101 399.3551385 645.2526303 617.5012857 0 547.2629191 644.6187647 361.2782166 434.6138205 1.08162751 1.412320044 0.918873537 1.484657413 1.420804532 0 1.259193549 1.483198956 0.831262605 1 8.763590242 -4.527006499 24.99953578 1.046122639 1.42719804 0.116406888 0.403739216 159.0776172 963456.5423 0.052074484 0.196517542 2.97E-05 4.527006499 0.381075401 THYDPPR ddPTM_HeLa_SAHA_4h_R1 1 THYDPPR 7 0 P31943;G8JLB6;E9PCY7;H0YB39;D6RBM0;H0YBD7;E5RGV0;P55795;E7EN40 P31943 HNRNPH1;HNRNPH2 "Heterogeneous nuclear ribonucleoprotein H;Heterogeneous nuclear ribonucleoprotein H, N-terminally processed;Heterogeneous nuclear ribonucleoprotein H2" 0 0 99.375 0.015387 6141600 3790.1 3229.9 3546.4 3986.9 3800.6 415.93 3457.3 3813 3361.7 3734.6 FALSE FALSE TRUE 4188.760108 3334.550879 4029.684923 4064.072215 3509.398849 380.490424 3068.275505 3715.468981 3338.305656 3895.616883 1.075249501 0.855975056 1.034415099 1.043242274 0.900858312 0.097671418 0.787622499 0.953756258 0.856938902 1 11.92763609 -5.507172613 24.85819299 1.019797601 0.608608546 0.353572871 0.216753466 440.8255925 697696.6965 0.028793275 0.06259563 3.11E-06 5.507172613 -0.411189056 TIAATPIQTLPQSQST(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 TIAATPIQTLPQSQSTPK 18 0 A0A0C4DG88;P14859-4;P14859-5;P14859-3;P14859;P14859-2;P14859-6 A0A0C4DG88 POU2F1 "POU domain protein;POU domain, class 2, transcription factor 1" 1 0 TIAATPIQTLPQS(0.001)QS(0.275)T(0.724)PK;TIAATPIQTLPQSQS(0.37)T(0.63)PK ; 228.39 1.90E-28 13991400 5532.8 5558.5 4966.8 4835.6 5079 5623.5 5146.2 4661.7 5010.5 4637 TRUE FALSE FALSE 6114.765289 5738.599047 5643.649638 4929.20003 4689.848117 5144.346163 4567.136032 4542.460464 4975.631523 4836.923763 1.264184756 1.186415029 1.166784906 1.01907747 0.969593144 1.063557421 0.944223282 0.939121782 1.028676855 1 12.23987408 -6.13665726 4.312776803 1.136242551 0.983855757 0.459051921 0.077662877 0.217399629 6.66747164 0.016118112 0.027327527 7.30E-07 6.13665726 -0.152386794 TIAPALVS(ph)K ddPTM_HeLa_SAHA_4h_R1 2 TIAPALVSK 9 0 P06733;K7EM90;A0A2R8YEM5;A0A2R8Y879;K7ERS8;A0A2R8Y6I8 P06733 ENO1 Alpha-enolase;Enolase 1 0 TIAPALVS(1)K;TIAPALVS(1)K ; 108.35 0.0067855 12548600 8572.1 8769.1 8014.7 9037.8 7390.8 8536.3 8455.7 9113.5 8552.8 7267.4 TRUE FALSE FALSE 9473.752808 9053.224594 9106.901577 9212.739688 6824.518501 7808.959216 7504.242382 8880.389866 8493.280368 7580.73318 1.249714583 1.194241293 1.201322004 1.215283465 0.900245179 1.030106064 0.989909842 1.171442083 1.120377168 1 12.88812167 -5.775475529 24.99971574 1.140061788 1.021080355 0.348028113 0.090905428 294.8592256 525172.1918 0.017390433 0.031633513 1.68E-06 5.775475529 -0.118981433 TIAPALVSK ddPTM_HeLa_SAHA_4h_R1 5 TIAPALVSK 9 0 P06733;K7EM90;A0A2R8YEM5;A0A2R8Y879;K7ERS8;A0A2R8Y6I8 P06733 ENO1 Alpha-enolase;Enolase 0 0 ;;;; ;;;; 148.52 0.0029967 63842700 25433.8 24388.2 25774.3 25087.4 23515.9 21820.1 27839.2 22099.4 18843.7 19849.8 FALSE FALSE TRUE 28109.04378 25178.39368 29286.68738 25573.0029 21714.11682 19960.90472 24706.65995 21534.12935 18712.56516 20705.62202 1.357556114 1.216017256 1.414431662 1.235075328 1.048706327 0.964033087 1.193234375 1.040013641 0.903743203 1 14.33773492 -5.756714613 24.93931874 1.201313163 1.06394496 0.140296274 0.150918983 180.4276703 952361.0728 0.023572755 0.045941167 1.75E-06 5.756714613 -0.137368202 TIAPALVSK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 TIAPALVSKK 10 1 P06733;K7EM90;A0A2R8YEM5;A0A2R8Y879;K7ERS8;A0A2R8Y6I8 P06733 ENO1 Alpha-enolase;Enolase 0 1 ; TIAPALVSK(1)K;TIAPALVSK(1)K 167.67 1.14E-11 9989000 7599.1 7529.9 11083.7 8185.3 8725.7 5211.5 10813 5848.4 2691.7 4742 FALSE TRUE FALSE 8398.408204 7773.873701 12594.12891 8343.738318 8057.138751 4767.450881 9596.292782 5698.806396 2672.968241 4946.450827 1.6978655 1.571606385 2.546094029 1.686813153 1.628872708 0.963812448 1.940036021 1.152100081 0.54038104 1 12.27217802 -9.109532468 0.888533903 1.002705276 1.661244834 0.366525639 0.432708416 0.619640805 0.889458131 0.259483246 0.077358682 7.77E-10 9.109532468 0.658539558 TIAQDYGVLK ddPTM_HeLa_SAHA_4h_R1 5 TIAQDYGVLK 10 0 Q06830;A0A0A0MSI0 Q06830 PRDX1 Peroxiredoxin-1 0 0 ;;;; ;;;; 171.85 2.70E-11 33745100 7776.81 6969.11 8731.31 8968.49 9205.78 7365.48 8957.06 7069.7 5556.52 6112.86 FALSE FALSE TRUE 8594.810557 7194.913737 9921.167456 9142.088093 8500.435125 6737.899667 7949.188035 6888.867311 5517.851725 6376.41531 1.34790633 1.128363412 1.555916134 1.433734731 1.333105626 1.056690843 1.246654687 1.080366785 0.865353252 1 12.63852988 -9.347773177 0.981031414 0.993769918 1.281627277 0.412748431 0.156077496 0.560432912 0.931503194 0.11687067 0.028008346 4.49E-10 9.347773177 0.287857359 TICTFDSSGFESMS(ph)PIKETVSSR ddPTM_HeLa_SAHA_4h_R1 2 TICTFDSSGFESMSPIKETVSSR 23 1 E9PEI0;Q69YH5 E9PEI0 CDCA2 Cell division cycle-associated protein 2 1 0 TICTFDSSGFES(0.006)MS(0.993)PIKET(0.001)VSSR;TICTFDSSGFES(0.009)MS(0.99)PIKETVSSR ; 156.47 1.78E-07 112105000 1792.62 1453.76 1695.93 2197.7 2265.7 2525.7 2518.3 2347.1 2189.8 1746.91 TRUE FALSE FALSE 1981.175996 1500.862778 1927.042508 2240.239661 2092.102555 2310.496151 2234.934256 2287.064581 2174.561004 1822.227839 1.087227378 0.823641668 1.057520068 1.229396025 1.148101522 1.267951296 1.226484531 1.255092547 1.19335297 1 10.83148764 -6.306000602 4.860619366 1.022664882 1.224052722 0.530770419 0.090884857 0.1047427 5.847192919 0.011914914 0.018647396 4.94E-07 6.306000602 0.20138784 TIDDLEDK(ac)LK ddPTM_HeLa_SAHA_4h_R1 1 TIDDLEDKLK 10 1 J3KN67;P06753-7;P06753-2;A0A087WWU8;P06753-5 J3KN67;P06753-2 TPM3 Tropomyosin alpha-3 chain 0 1 TIDDLEDK(1)LK 157.95 1.99E-07 813580 433.44 1037.1 593.16 590.5 822.96 797.47 852.02 809.08 873.47 163.02 FALSE TRUE FALSE 479.0312079 1070.70272 673.9927558 601.9299814 759.9049826 729.5210696 756.1484672 788.3849051 867.3914512 170.04859 2.817025463 6.296451623 3.963530399 3.539752852 4.468752035 4.290074205 4.4466612 4.636233121 5.100844712 1 7.409803233 -7.897271379 1.157489969 1.427053913 4.437084897 0 1.405981188 0.157833761 0.444063611 0.204717007 0.178197107 1.27E-08 7.897271379 3.010030985 TIDDLEDKLK ddPTM_HeLa_SAHA_4h_R1 2 TIDDLEDKLK 10 1 J3KN67;P06753-7;P06753-2;A0A087WWU8;P06753-5 J3KN67;P06753-2 TPM3 Tropomyosin alpha-3 chain 0 0 ; ; 114.86 0.0029382 4036300 4203.3 3521 4216.4 3966.6 4606.1 3609.1 4224.8 3943 3478.8 3641.7 FALSE FALSE TRUE 4645.422379 3635.08271 4790.989034 4043.379279 4253.181613 3301.584376 3749.414385 3842.143769 3454.590748 3798.711509 1.222894228 0.956925184 1.261214236 1.064408094 1.119637962 0.869132696 0.987022672 1.011433419 0.909411188 1 11.89129444 -5.281779315 24.47529909 1.105792314 0.958978901 0.16516455 0.111041636 569.7292333 685561.6951 0.014974977 0.033526439 5.23E-06 5.281779315 -0.146813414 TIDDLEEK ddPTM_HeLa_SAHA_4h_R1 5 TIDDLEEK 8 0 P67936;P67936-2;K7ENT6;A0A2R8YE05;A0A5F9UN72;K7EPB9 P67936 TPM4 Tropomyosin alpha-4 chain 0 0 ;;;; ;;;; 140.5 0.0027384 38947100 10730.4 10620.6 9908.3 11061.7 11717.2 12180.3 10168.5 11632.2 11343 11209.3 FALSE FALSE TRUE 11859.0727 10964.71441 11258.55152 11275.8152 10819.43067 11142.46992 9024.313618 11334.66517 11264.06314 11692.58778 1.014238501 0.937749163 0.962879367 0.96435583 0.925323878 0.952951573 0.771797808 0.969388931 0.963350744 1 13.51330664 -5.859451576 0.592108769 1.006840361 0.871427227 0.273810054 0.053850212 0.649009718 0.388446305 0.010592288 0.043231529 1.38E-06 5.859451576 -0.135413134 TIDGQQTIIACIESHQFQPK ddPTM_HeLa_SAHA_4h_R1 1 TIDGQQTIIACIESHQFQPK 20 0 P52907 P52907 CAPZA1 F-actin-capping protein subunit alpha-1 0 0 173.49 1.12E-15 634920 211.68 175.16 171.06 63.484 198.66 61.781 157.81 0 194.83 137.73 FALSE FALSE TRUE 233.9454736 180.8352989 194.371166 64.71282462 183.4387137 56.51691123 140.0528035 0 193.4741622 143.6682143 1.628373226 1.258700818 1.352916975 0.450432442 1.27682184 0.393384936 0.974834998 0 1.346673397 1 7.1665971 -4.849334919 0.593014671 1.296917377 2.95E-13 0.51538477 0.344128418 1.372576797 0.491045234 0.071006832 1.062945752 1.41E-05 4.849334919 -1.296917377 TIEAAEALLHMES(ph)PTCLR ddPTM_HeLa_SAHA_4h_R1 1 TIEAAEALLHMESPTCLR 18 0 Q15723-2;Q15723-3;Q15723-1;Q15723;Q15723-4;D6RHI1 Q15723-2 ELF2 ETS-related transcription factor Elf-2 1 0 TIEAAEALLHMES(0.711)PT(0.289)CLR 123.84 0.0002926 4524600 446.31 642.53 507.31 777.53 769.27 661.74 552.56 422.29 896.76 580.08 TRUE FALSE FALSE 493.2549335 663.3483936 576.4435648 792.5802175 710.3286988 605.3560292 490.3844945 411.4884333 890.5193741 605.0900876 0.815176027 1.096280384 0.952657425 1.309854902 1.17392222 1.000439507 0.810432206 0.680044908 1.471713704 1 9.241006141 -4.569763118 3.32404241 0.978474429 0.696241436 0.169441007 0.208440133 0.252800918 5.431766636 0.023291772 0.124593574 2.69E-05 4.569763118 -0.282232993 TIETS(ph)PSLSR ddPTM_HeLa_SAHA_4h_R1 2 TIETSPSLSR 10 0 H3BP78;F8W7R3;Q9NVI1-2;Q9NVI1-1;Q9NVI1 H3BP78 FANCI Fanconi anemia group I protein 1 0 T(0.002)IET(0.222)S(0.77)PS(0.006)LSR;T(0.035)IET(0.215)S(0.744)PS(0.006)LSR ; 158.08 0.00024709 95274000 7261.5 7758.1 5883.2 6988.3 8638.2 8098.3 7597 7933.8 6789.9 6901.2 TRUE FALSE FALSE 8025.297887 8009.46753 6684.931858 7123.568652 7976.342982 7408.27928 6742.165566 7730.864884 6742.648533 7198.744506 1.114819102 1.112620058 0.928624686 0.989557088 1.108018624 1.029107128 0.936575199 1.073918498 0.936642289 1 12.8135296 -6.787568461 24.99937437 1.060115083 1.011848164 0.01360167 0.071482234 397.8259451 380624.5314 0.011062854 0.014542012 1.63E-07 6.787568461 -0.04826692 TIFAYFTGSK ddPTM_HeLa_SAHA_4h_R1 2 TIFAYFTGSK 10 0 I3L0K2;I3L3M7;Q9BRA2 I3L0K2 TXNDC17 Thioredoxin domain-containing protein 17 0 0 ; ; 166.34 2.72E-08 5276800 1584.99 1615.92 2740.68 2416.03 2813.09 1390.39 2601.8 784.86 843.62 1315.13 FALSE FALSE TRUE 1751.70652 1668.276868 3114.165598 2462.795754 2597.551652 1271.92095 2309.038616 764.7844177 837.7491797 1371.83169 1.276910668 1.216094423 2.270078479 1.79526087 1.893491505 0.927169826 1.683179236 0.557491435 0.610679273 1 10.42188777 -7.590475331 1.448948833 1.091066031 1.520260433 0.182203759 0.490600978 0.541671084 2.309481043 0.096582702 0.099835138 2.57E-08 7.590475331 0.429194401 TIGDMFQNQDR ddPTM_HeLa_SAHA_4h_R1 2 TIGDMFQNQDR 11 0 Q96AY3;H0Y827;Q96AY3-2 Q96AY3 FKBP10 Peptidyl-prolyl cis-trans isomerase FKBP10 0 0 ; ; 138.08 0.0043606 10009100 810.92 820.32 583.23 717.1 973.98 1143.34 1020.44 934.45 710.14 698.03 FALSE FALSE TRUE 896.2162862 846.8989062 662.7095471 730.9805074 899.3538628 1045.921 905.6174055 910.5481221 705.1980779 728.1254894 1.230854158 1.16312218 0.910158423 1.003921052 1.235163273 1.43645706 1.243765558 1.250537353 0.968511731 1 9.508043304 -1 0.085774986 0.912237469 1.936270343 0.343163906 0.127859287 191.2723191 1.196857517 2.03707018 23.21413152 0.1 1 1.024032873 TIGGGDDS(ph)FNTFFSETGAGK ddPTM_HeLa_SAHA_4h_R1 3 TIGGGDDSFNTFFSETGAGK 20 0 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;A0A1W2PQM2;P0DPH7-2;Q6PEY2;F8VQQ4;F8VVB9;F8VS66;F8VRZ4;F8VWV9;F8VX09;F8VRK0;F8W0F6;F8VXZ7;P68363;P68363-2 Q9BQE3;P68363 TUBA1C;TUBA3E;TUBA1A;TUBA1B Tubulin alpha-1C chain;Tubulin alpha-3E chain;Tubulin alpha-1B chain 1 0 TIGGGDDS(0.487)FNT(0.404)FFS(0.108)ET(0.001)GAGK;TIGGGDDS(0.991)FNT(0.008)FFS(0.001)ETGAGK;TIGGGDDS(0.871)FNT(0.129)FFSETGAGK ;; 120.56 0.00018852 113371800 4447.57 4696.62 4150.77 3936.13 4274.8 4803.46 4601.18 4155.41 4934.76 4579.69 TRUE FALSE FALSE 4915.385819 4848.79357 4716.415319 4012.319488 3947.265748 4394.178184 4083.443117 4049.120629 4900.418603 4777.142848 1.028938421 1.014998656 0.987287898 0.839899416 0.826281707 0.919833952 0.854787735 0.847603004 1.025805332 1 12.2219323 -6.341860178 4.413842252 1.013503947 0.859207529 0.907153078 0.024678107 0.049554305 1.783649121 0.003955913 0.006158945 4.55E-07 6.341860178 -0.154296418 TIGGGDDS(ph)FTTFFCETGAGK ddPTM_HeLa_SAHA_4h_R1 1 TIGGGDDSFTTFFCETGAGK 20 0 P68366-2;P68366;C9JEV8;C9JQ00;C9JJQ8;C9JDL2 P68366-2 TUBA4A Tubulin alpha-4A chain 1 0 T(0.118)IGGGDDS(0.816)FT(0.05)T(0.016)FFCETGAGK 67.827 0.0069627 1743000 1249.1 1345.2 1086 1351.5 1777.9 1329.5 1262.8 1049.1 1582.2 1486.7 TRUE FALSE FALSE 1380.486069 1388.785363 1233.994424 1377.660237 1641.677686 1216.21912 1120.70642 1022.265541 1571.189341 1550.798913 0.890177352 0.895528976 0.795715301 0.888355173 1.058601262 0.784253271 0.722663919 0.659186393 1.013148338 1 10.59879591 -3.302506639 0.490279434 0.943513402 7.80E-34 0.583195797 0.079954015 5.401297123 0.439583815 0.017291911 3.634299691 0.000498303 3.302506639 -0.943513402 TIGGGDDSFNT(ph)FFSETGAGK ddPTM_HeLa_SAHA_4h_R1 1 TIGGGDDSFNTFFSETGAGK 20 0 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;A0A1W2PQM2;P0DPH7-2;Q6PEY2;F8VQQ4;F8VVB9;F8VS66;F8VRZ4;F8VWV9;F8VX09;F8VRK0;F8W0F6;F8VXZ7;P68363;P68363-2 Q9BQE3;P68363 TUBA1C;TUBA3E;TUBA1A;TUBA1B Tubulin alpha-1C chain;Tubulin alpha-3E chain;Tubulin alpha-1B chain 1 0 TIGGGDDS(0.002)FNT(0.499)FFS(0.499)ETGAGK 249.41 6.48E-42 5195900 741.06 893.22 436.78 460.1 465.1 698.91 573.77 393.79 943.37 629.69 TRUE FALSE FALSE 819.0080909 922.1609141 496.3021037 469.0059008 429.4641385 639.358936 509.2078895 383.717422 936.8050114 656.8390175 1.246893179 1.403937479 0.755591691 0.714034776 0.653834695 0.973387571 0.775240015 0.584187924 1.426232283 1 9.359396018 -6.730219049 23.35850729 1.141397173 0.749332517 0.689781339 0.16423477 50.17597162 37540.45467 0.024751226 0.035000359 1.86E-07 6.730219049 -0.392064656 TIGGGDDSFNTFFS(ph)ETGAGK ddPTM_HeLa_SAHA_4h_R1 1 TIGGGDDSFNTFFSETGAGK 20 0 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;A0A1W2PQM2;P0DPH7-2;Q6PEY2;F8VQQ4;F8VVB9;F8VS66;F8VRZ4;F8VWV9;F8VX09;F8VRK0;F8W0F6;F8VXZ7;P68363;P68363-2 Q9BQE3;P68363 TUBA1C;TUBA3E;TUBA1A;TUBA1B Tubulin alpha-1C chain;Tubulin alpha-3E chain;Tubulin alpha-1B chain 1 0 TIGGGDDS(0.187)FNT(0.187)FFS(0.622)ET(0.005)GAGK 211.67 1.40E-25 5345500 2018.1 1793.8 1561.5 1359.9 1220.4 1313.8 1245 1066.5 1857.7 1592.5 TRUE FALSE FALSE 2230.373017 1851.920297 1774.293088 1386.222831 1126.893216 1201.856849 1104.909323 1039.220474 1844.772114 1661.160469 1.34265958 1.114835281 1.06810457 0.834490621 0.678377097 0.723504364 0.66514304 0.625599088 1.110532155 1 10.69797573 -6.181589727 1.767973239 1.162891784 0.670564878 0.872688367 0.082686429 0.129594137 0.79172132 0.020738943 0.038420836 6.58E-07 6.181589727 -0.492326907 TIGGGDDSFNTFFSETGAGK ddPTM_HeLa_SAHA_4h_R1 3 TIGGGDDSFNTFFSETGAGK 20 0 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;A0A1W2PQM2;P0DPH7-2;Q6PEY2;F8VQQ4;F8VVB9;F8VS66;F8VRZ4;F8VWV9;F8VX09;F8VRK0;F8W0F6;F8VXZ7;P68363;P68363-2 Q9BQE3;P68363 TUBA1C;TUBA3E;TUBA1A;TUBA1B Tubulin alpha-1C chain;Tubulin alpha-3E chain;Tubulin alpha-1B chain 0 0 ;; ;; 357.92 2.38E-236 347680500 5057.92 5168.65 4372.78 4798.38 4526.08 5099.22 4510.67 4524.86 6098.8 5137.06 FALSE FALSE TRUE 5589.935232 5336.117651 4968.679686 4891.259583 4179.292728 4664.737769 4003.11754 4409.120633 6056.357954 5358.543797 1.043181776 0.995814881 0.927244392 0.912796418 0.779930684 0.870523401 0.747053247 0.822820677 1.130224588 1 12.38762528 -6.226830436 1.166694613 1.020715495 0.799630055 0.812114099 0.049980288 0.105409059 0.283143859 0.005990782 0.012230465 5.93E-07 6.226830436 -0.22108544 TIIFVETK ddPTM_HeLa_SAHA_4h_R1 2 TIIFVETK 8 0 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 0 0 ; ; 111.04 0.0074208 1701540 1793.56 2232 2330.6 2659.4 2452.8 2512 2548.9 1755.39 2483.1 2782.1 FALSE FALSE TRUE 1982.21487 2304.318264 2648.202031 2710.876533 2264.866994 2297.963468 2262.091064 1710.489666 2465.819905 2902.049946 0.683039543 0.794031222 0.912528068 0.934124699 0.780436945 0.79184146 0.779480404 0.589407383 0.849682104 1 11.50285663 -9.501969596 1.232868632 1.000733802 0.780732936 0.180999211 0.10347864 0.384705724 1.040975783 0.071662194 0.017126919 3.15E-10 9.501969596 -0.220000867 TIIPLISQCTPK ddPTM_HeLa_SAHA_4h_R1 2 TIIPLISQCTPK 12 0 P40926;P40926-2;G3XAL0 P40926 MDH2 "Malate dehydrogenase, mitochondrial;Malate dehydrogenase" 0 0 ; ; 191.53 1.16E-16 2594900 1056.04 1100.44 736.45 741.9 1262.75 1010.61 1347.99 794.98 742 996.97 FALSE FALSE TRUE 1167.119132 1136.094978 836.8095707 756.2605473 1165.998368 924.5003425 1196.310617 774.6455627 736.8363616 1039.954256 1.122279298 1.092447068 0.80465998 0.727205589 1.121201593 0.888981739 1.150349269 0.744884266 0.708527666 1 10.02230435 -6.784316956 24.99761004 1.06195923 0.918162948 0 0.175693125 275.0592181 300547.5337 0.02158683 0.028381213 1.64E-07 6.784316956 -0.143796282 TIIQNPTDQQK ddPTM_HeLa_SAHA_4h_R1 1 TIIQNPTDQQK 11 0 Q9UQ80;Q9UQ80-2;F8VR77 Q9UQ80 PA2G4 Proliferation-associated protein 2G4 0 0 179.57 8.45E-22 0 1240.2 1079.1 1259.8 1295.9 1015.8 1131.5 1166.3 1265.1 1368.2 1215.9 FALSE FALSE TRUE 1370.649926 1114.063548 1431.478983 1320.984018 937.9696235 1035.089834 1035.064854 1232.740574 1358.678585 1268.323399 1.080678577 0.878374986 1.128638787 1.041519867 0.739535062 0.816108758 0.816089063 0.97194499 1.071239863 1 10.30870694 -5.777281776 24.9862505 1.03343396 0.833087966 0.584335556 0.081585842 119.2901732 188141.5186 0.011658034 0.021182536 1.67E-06 5.777281776 -0.200345994 TILETS(ph)FHQHR ddPTM_HeLa_SAHA_4h_R1 2 TILETSFHQHR 11 0 Q5M775-4;Q5M775;Q5M775-5;Q5M775-3;Q5M775-2 Q5M775-4 SPECC1 Cytospin-B 1 0 TILET(0.23)S(0.77)FHQHR;TILET(0.168)S(0.832)FHQHR ; 122.46 0.0015506 15456100 5258.2 4933.3 4311.6 5009.2 5498 4502.3 5630.4 6413.1 6097.6 5727.5 TRUE FALSE FALSE 5811.281601 5093.142157 4899.162394 5106.160309 5076.744428 4118.678711 4996.852574 6249.062188 6055.166305 5974.440555 0.972690505 0.852488549 0.820020276 0.854667523 0.849743902 0.68938316 0.836371628 1.045966083 1.013511851 1 12.54458791 -7.275789559 3.556701878 0.988397471 0.840998032 0.399147081 0.08155388 0.171614037 4.600734947 0.013909926 0.016354237 5.30E-08 7.275789559 -0.147399439 TIMQRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 TIMQRSPR 8 1 K7EQN2 K7EQN2 POLR2E 1 0 T(0.002)IMQRS(0.998)PR 58.815 0.0077633 0 966.61 1006.7 875.12 1122.4 1048.9 898.11 1282.2 1201.3 1121.8 1220.6 TRUE FALSE FALSE 1068.282475 1039.317741 994.3767962 1144.125675 968.5335086 821.5859754 1137.923481 1170.572485 1113.993302 1273.226039 0.839035993 0.816286903 0.780989993 0.898603735 0.760692508 0.645278961 0.893732492 0.919375232 0.874937574 1 10.31427285 -8.885841904 0.579197333 1.013788863 0.809662555 0.182806469 0.084613579 0.702932569 0.411938046 0.072911146 0.019486855 1.30E-09 8.885841904 -0.204126308 TIMQVSS(ph)GSRGSSGEAT(ph)R ddPTM_HeLa_SAHA_4h_R1 2 TIMQVSSGSRGSSGEATR 18 1 K7EJ87 K7EJ87 POLR2E 2 0 T(0.137)IMQVS(0.384)S(0.476)GS(0.003)RGSS(0.153)GEAT(0.847)R;T(0.149)IMQVS(0.381)S(0.463)GS(0.007)RGSS(0.14)GEAT(0.86)R ; 90.308 0.012977 39433000 0 0 192.44 137.04 186.318 352.17 272.462 176.85 271.25 193.53 TRUE FALSE FALSE 0 0 218.664721 139.6926074 172.0423551 322.1631347 241.8038587 172.3264331 269.3623492 201.8740254 0 0 1.083174126 0.691979105 0.852226307 1.595862242 1.197795795 0.853633511 1.3343091 1 7.657311485 -5.934971768 1.389785763 0.496856073 1.194873882 0.155424403 0.45558135 0.408733867 1.575958989 0.076943042 0.174709318 1.16E-06 5.934971768 0.698017809 TINEVENQILTR ddPTM_HeLa_SAHA_4h_R1 5 TINEVENQILTR 12 0 O43707;O43707-2;F5GXS2;O43707-3;H7C144;H0YJW3;P12814-4;P12814-3;P12814;P12814-2;H9KV75;H7C5W8;H0YJ11 O43707;P12814-4 ACTN4;ACTN1 Alpha-actinin-4;Alpha-actinin-1 0 0 ;;;; ;;;; 228.93 2.52E-43 76339700 2852.15 2573.49 2414.7 2617.4 3272.13 3594.07 3432.48 3196.41 3179.09 2560.94 FALSE FALSE TRUE 3152.152223 2656.872765 2743.762741 2668.063562 3021.420106 3287.835016 3046.248317 3114.650461 3156.966454 2671.354656 1.179982679 0.994578821 1.027105381 0.998768005 1.131044169 1.230774434 1.140338408 1.165944197 1.181784847 1 11.38335581 -5.528567544 24.33753433 1.069050816 1.176110684 0.369143321 0.068116933 104.3942319 446613.6685 0.011437954 0.022936163 2.96E-06 5.528567544 0.107059868 TIPWLEDRVPQK ddPTM_HeLa_SAHA_4h_R1 1 TIPWLEDRVPQK 12 1 O43707;O43707-2;K7EJH8 O43707 ACTN4 Alpha-actinin-4 0 0 149.49 2.46E-05 990370 248.41 431.35 202.06 394.08 424.29 413.37 286.86 439.82 358.24 312.49 FALSE FALSE TRUE 274.5389035 445.326023 229.5956845 401.7079882 391.7809919 378.1485504 254.5817578 428.5700413 355.7469787 325.9629732 0.842239537 1.366185916 0.704361242 1.232373065 1.201918697 1.160096641 0.781014344 1.31478136 1.091372358 1 8.348564285 TIQAPTQVPVVVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 TIQAPTQVPVVVSPR 15 0 A0A0U1RRL5;P32519-2;P32519 A0A0U1RRL5 ELF1 ETS-related transcription factor Elf-1 1 0 TIQAPTQVPVVVS(1)PR 122.96 0.00066349 2876700 711.6 544.58 461.03 558.14 568.54 702.78 627.15 564.3 611.65 680.09 TRUE FALSE FALSE 786.4493529 562.2247493 523.8567675 568.9436068 524.978588 642.8991903 556.5814314 549.8660231 607.3934778 709.4120082 1.108593235 0.792522177 0.738437976 0.8019932 0.740019315 0.906242329 0.784567254 0.775101093 0.856192834 1 9.470479941 -7.253512151 24.91315726 1.051280139 0.791842686 0.52466483 0.07939472 164.6708786 517516.9014 0.009618099 0.011664092 5.58E-08 7.253512151 -0.259437453 TIQEMQQK ddPTM_HeLa_SAHA_4h_R1 3 TIQEMQQK 8 0 O43707;O43707-2;K7EJH8 O43707 ACTN4 Alpha-actinin-4 0 0 ;; ;; 166.52 4.53E-05 32728100 3042.9 3064.7 2954.98 3298.61 3671.61 3079.6 3325.29 2838.04 2615.53 2645.58 FALSE FALSE TRUE 3362.966183 3163.998291 3357.669286 3362.459366 3390.292035 2817.200755 2951.119618 2765.447046 2597.328314 2759.643901 1.218623237 1.146524118 1.216703823 1.218439584 1.228525185 1.020856623 1.069384212 1.00210286 0.941182416 1 11.4302664 -5.221052889 24.86651828 1.133605094 1.034641489 0.215867873 0.093722867 699.1837534 430495.7783 0.014341583 0.036563671 6.01E-06 5.221052889 -0.098963605 TIQEVLEEQS(ph)EDEDR ddPTM_HeLa_SAHA_4h_R1 2 TIQEVLEEQSEDEDR 15 0 M0R0Q7;P18858-2;P18858-3;P18858 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 TIQEVLEEQS(1)EDEDR;TIQEVLEEQS(1)EDEDR ; 260.07 3.31E-44 28809000 1418.29 2559.73 1569.55 1865.84 2203.01 3010.28 2112.45 1701.61 3461.28 2183.34 TRUE FALSE FALSE 1567.47225 2642.666932 1783.4401 1901.956031 2034.21585 2753.787209 1874.751566 1658.08528 3437.192671 2277.474472 0.688250195 1.160349749 0.783077976 0.83511629 0.893189309 1.209140757 0.823171275 0.728036823 1.509212381 1 11.15321917 -5.514436556 24.48635644 0.867917369 0.933878953 0 0.261757898 1133.744217 3288389.336 0.026241865 0.054614329 3.06E-06 5.514436556 0.065961584 TIQEVLEEQS(ph)EDEDREAK ddPTM_HeLa_SAHA_4h_R1 5 TIQEVLEEQSEDEDREAK 18 1 M0R0Q7;P18858-2;P18858-3;P18858 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 TIQEVLEEQS(1)EDEDREAK;TIQEVLEEQS(1)EDEDREAK;TIQEVLEEQS(1)EDEDREAK;TIQEVLEEQS(1)EDEDREAK;TIQEVLEEQS(1)EDEDREAK ;;;; 149.67 5.19E-05 271760000 7106.05 8970.45 6109.77 7160.46 8201.4 11797.2 8865.14 9010.5 12129.2 8691.5 TRUE FALSE FALSE 7853.496943 9261.098466 6942.377637 7299.061057 7573.010504 10792.01219 7867.611115 8780.024457 12044.79191 9066.2331 0.866235939 1.021493531 0.765740033 0.805081998 0.835298455 1.190352385 0.867792724 0.968431361 1.328533226 1 13.14628754 -3.906603634 17.17367057 0.927479238 2.613881008 0 0.173492281 11717102.76 20258969.61 0.016319634 755231440.9 0.000123993 3.906603634 1.68640177 TIQEVLEEQS(ph)EDEDREAKR ddPTM_HeLa_SAHA_4h_R1 2 TIQEVLEEQSEDEDREAKR 19 2 M0R0Q7;P18858-2;P18858-3;P18858 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 TIQEVLEEQS(1)EDEDREAKR;T(0.001)IQEVLEEQS(0.999)EDEDREAKR ; 61.04 0.0076677 56297000 6323.9 5837.2 5492.2 5893.2 6531.6 7684.9 7314 6537.2 6161.5 6579.5 TRUE FALSE FALSE 6989.076817 6026.32911 6240.648414 6007.271408 6031.150219 7030.103286 6491.009471 6369.98789 6118.62162 6863.174444 1.018344627 0.878067308 0.909294739 0.875290502 0.878769769 1.024322395 0.945773639 0.928140169 0.891514804 1 12.74466031 -7.275528545 24.89450333 1.008662743 0.921247177 0.023351413 0.055758132 480.5655764 849121.4178 0.007468393 0.008561333 5.30E-08 7.275528545 -0.087415566 TIQFVDWCPTGFK ddPTM_HeLa_SAHA_4h_R1 1 TIQFVDWCPTGFK 13 0 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;A0A1W2PQM2;P0DPH7-2;Q6PEY2;Q9NY65;C9J2C0;Q9NY65-2;V9GZ17 Q9BQE3 TUBA1C;TUBA3E;TUBA8 Tubulin alpha-1C chain;Tubulin alpha-3E chain;Tubulin alpha-8 chain 0 0 145.6 0.00020551 659110 237.57 325.99 508.28 411.73 377.69 263.8 399.3 225.49 429.81 362.74 FALSE FALSE TRUE 262.5587026 336.5522899 577.5457514 419.6996295 348.7514738 241.3227559 354.3697131 219.7222923 426.8189172 378.3794966 0.693903092 0.889456995 1.526366403 1.109202886 0.9216976 0.637779684 0.93654576 0.580692914 1.12801809 1 8.563690105 -5.314321258 11.07553535 0.929951596 0.740214061 0.188943819 0.237463672 1.662570843 345.9028157 0.037649405 0.084272564 4.85E-06 5.314321258 -0.189737535 TIQNSSVS(ph)PTSSSSSSSSTGETQTQSSSR ddPTM_HeLa_SAHA_4h_R1 1 TIQNSSVSPTSSSSSSSSTGETQTQSSSR 29 0 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 TIQNS(0.001)S(0.006)VS(0.982)PT(0.011)SSSSSSSSTGETQTQSSSR 221.37 2.94E-37 5321500 547.45 667.97 517.34 484.39 570.01 659.33 551.99 681.73 592.93 624.56 TRUE FALSE FALSE 605.0333028 689.6126663 587.840401 493.7660689 526.3359569 603.1513747 489.8786324 664.2923337 588.8037519 651.4878381 0.928694701 1.058519631 0.902304489 0.757905275 0.807898361 0.925806039 0.751938262 1.019654236 0.903783183 1 9.347594437 -6.52700652 24.93561455 0.972687808 0.846772944 0.315104601 0.083266309 89.66723552 541671.489 0.011852153 0.016801674 2.97E-07 6.52700652 -0.125914864 TIQNSSVSPT(ph)SSSSSSSSTGETQTQSSSR ddPTM_HeLa_SAHA_4h_R1 1 TIQNSSVSPTSSSSSSSSTGETQTQSSSR 29 0 Q7Z417 Q7Z417 NUFIP2 Nuclear fragile X mental retardation-interacting protein 2 1 0 TIQNS(0.001)S(0.004)VS(0.022)PT(0.964)S(0.007)S(0.001)SSSSSSTGETQTQSSSR 167.86 9.78E-16 4875200 444.91 558.04 522.73 439.15 658.31 671.59 604.92 699.62 551.91 588.33 TRUE FALSE FALSE 491.7076751 576.1208621 593.9649221 447.6503833 607.87043 614.3667537 536.8528095 681.7247334 548.0692134 613.6957855 0.801223809 0.938772721 0.967849114 0.729433693 0.990507747 1.001093324 0.874786535 1.110851255 0.893063349 1 9.261379866 -4.255196266 24.04451544 0.909283575 1.110851411 0.330290247 0.085458433 424.5864576 1635156.021 0.013281684 0.161979822 5.56E-05 4.255196266 0.201567835 TIS(ph)AQDTLAYATALLNEK ddPTM_HeLa_SAHA_4h_R1 2 TISAQDTLAYATALLNEK 18 0 Q9UPU5;A0A0U1RQI9 Q9UPU5 USP24 Ubiquitin carboxyl-terminal hydrolase 24 1 0 T(0.074)IS(0.923)AQDT(0.002)LAYAT(0.001)ALLNEK;T(0.309)IS(0.691)AQDTLAYATALLNEK ; 199.36 2.66E-16 351190000 1381.28 2363.7 1574.06 1869.48 2218.06 2682.02 2347.06 2155.27 2022.12 2073.61 TRUE FALSE FALSE 1526.569368 2440.285431 1788.564699 1905.666489 2048.112722 2453.496807 2082.962632 2100.141314 2008.047902 2163.013475 0.705760452 1.128187808 0.826885602 0.881023864 0.946879317 1.134295665 0.962991057 0.97093307 0.928356631 1 11.07882694 -5.54833615 4.735053783 0.879106387 1.020678652 0.121145239 0.114374405 0.254267888 14.25494057 0.019924131 0.041953189 2.83E-06 5.54833615 0.141572266 TIS(ph)DGTISASK ddPTM_HeLa_SAHA_4h_R1 2 TISDGTISASK 11 0 A0A075B6Q2;S4R347;Q5T0N5-3;Q5T0N5-4;Q5T0N5-2;Q5T0N5-5;Q5T0N5 A0A075B6Q2 FNBP1L Formin-binding protein 1-like 1 0 T(0.047)IS(0.94)DGT(0.012)ISASK;T(0.163)IS(0.798)DGT(0.024)IS(0.015)ASK ; 165.35 0.00015168 124199000 6809.7 7130.6 6028.8 7776.2 8396.5 8634.6 9051.2 8351.9 8660 6351.9 TRUE FALSE FALSE 7525.97549 7361.636119 6850.373467 7926.719596 7753.161984 7898.883503 8032.735155 8138.270491 8599.734355 6625.761494 1.135865741 1.111062649 1.033899797 1.196348465 1.170154101 1.192147274 1.212348975 1.228277006 1.297923923 1 12.69387056 -6.345388553 0.024429587 8.00E-12 2.292167395 0 0.097886318 115.6237492 1.207825092 53.32626649 59.82613806 4.51E-07 6.345388553 2.292167395 TIS(ph)DGTISASKQESGK ddPTM_HeLa_SAHA_4h_R1 1 TISDGTISASKQESGK 16 1 A0A075B6Q2;S4R347;Q5T0N5-3;Q5T0N5-4;Q5T0N5-2;Q5T0N5-5;Q5T0N5 A0A075B6Q2 FNBP1L Formin-binding protein 1-like 1 0 T(0.295)IS(0.442)DGT(0.26)IS(0.003)ASKQESGK 93.381 0.0034114 12850000 2558.1 1262.1 2381.7 2112.8 2312.6 2169.2 2659.3 3070.2 1331.6 2036.3 TRUE FALSE FALSE 2827.172695 1302.992868 2706.265673 2153.696299 2135.409088 1984.371956 2360.068565 2991.66873 1322.333287 2124.094858 1.331001148 0.613434406 1.27407948 1.013936026 1.005326612 0.934220027 1.11109377 1.408444033 0.622539658 1 11.05263248 TIS(ph)ETIER ddPTM_HeLa_SAHA_4h_R1 2 TISETIER 8 0 P26639;P26639-2 P26639 TARS "Threonine--tRNA ligase, cytoplasmic" 1 0 TIS(0.944)ET(0.055)IER;T(0.032)IS(0.954)ET(0.013)IER ; 115.57 0.004566 3742200 1741.85 1728.41 1944.71 1720.22 1874.76 2379.14 2372.85 1867.33 1924.11 1789.19 TRUE FALSE FALSE 1925.065775 1784.411618 2209.724951 1753.517346 1731.116294 2176.423887 2105.850673 1819.566402 1910.719962 1866.330737 1.031470862 0.956106859 1.183994298 0.939553376 0.927550653 1.166151232 1.128337347 0.974943169 1.023784222 1 10.86598896 -5.255888406 24.9966647 1.012841262 1.093663252 0.170000467 0.081449819 611.3505691 2752969.574 0.010827767 0.026815652 5.55E-06 5.255888406 0.08082199 TIS(ph)NPEVVMK ddPTM_HeLa_SAHA_4h_R1 2 TISNPEVVMK 10 0 A8MQ02;J3KN01;P55196-6;P55196-3;P55196;P55196-5;Q5TIG5;P55196-2;P55196-1;F8W9I4;E9PFY5 A8MQ02 MLLT4 Afadin 1 0 T(0.012)IS(0.988)NPEVVMK;T(0.003)IS(0.997)NPEVVMK ; 110.92 0.0053738 12016800 2256.98 2063.94 1922.54 2888.2 2589.04 3069 2731 2659.1 2150.38 1990.29 TRUE FALSE FALSE 2494.379512 2130.81301 2184.533739 2944.105287 2390.668315 2807.503934 2423.700692 2591.084072 2135.41533 2076.101142 1.201473021 1.02635318 1.052228957 1.418093381 1.151518231 1.35229632 1.167429006 1.24805291 1.02856999 1 11.01966101 -6.292177198 24.99311802 1.088377583 1.260189651 0.550472016 0.091274552 503.8874445 409713.1166 0.015472094 0.023631944 5.10E-07 6.292177198 0.171812068 TIS(ph)PSTSNNIPLMR ddPTM_HeLa_SAHA_4h_R1 2 TISPSTSNNIPLMR 14 0 O94806;O94806-2;F8WBA3;Q15139 O94806 PRKD3;PRKD1 Serine/threonine-protein kinase D3;Serine/threonine-protein kinase;Serine/threonine-protein kinase D1 1 0 T(0.277)IS(0.445)PS(0.277)T(0.001)SNNIPLMR;T(0.165)IS(0.757)PS(0.071)T(0.006)S(0.001)NNIPLMR ; 156.2 2.62E-05 12266800 1732.36 1344.46 1294.02 1655.93 1826.16 1941.3 1752.81 1587.62 1703.26 1480.62 TRUE FALSE FALSE 1914.577573 1388.021386 1470.362307 1687.98292 1686.240015 1775.890319 1555.579206 1547.010979 1691.406875 1544.456774 1.239644647 0.898711708 0.952025548 1.092929856 1.091801366 1.149847861 1.007201517 1.001653789 1.095146788 1 10.59288378 -7.265177201 24.99256527 1.113165523 1.033704659 0.160104171 0.087249318 582.8268736 3897015.454 0.019164633 0.022383416 5.43E-08 7.265177201 -0.079460864 TIS(ph)VSGSTAK ddPTM_HeLa_SAHA_4h_R1 2 TISVSGSTAK 10 0 Q8TDJ6;Q8TDJ6-3 Q8TDJ6 DMXL2 DmX-like protein 2 1 0 T(0.142)IS(0.857)VS(0.001)GSTAK;T(0.376)IS(0.623)VSGSTAK ; 142.19 0.0010345 31169000 6514.5 6656.6 5577.3 4943.1 7406.9 7374.1 6556.9 5335.5 3079.9 6177.1 TRUE FALSE FALSE 7199.725 6872.278208 6337.345399 5038.780848 6839.384922 6745.785194 5819.100355 5199.025636 3058.466725 6443.425011 1.117375462 1.066556714 0.983536766 0.78200349 1.061451776 1.046925383 0.903106709 0.806872995 0.47466475 1 12.65361204 -6.58938022 5.002175495 1.057278844 0.929461624 0 0.203801502 0.19627168 9.552569384 0.014829985 0.021213224 2.57E-07 6.58938022 -0.127817219 TISDGT(ph)ISASKQESGK ddPTM_HeLa_SAHA_4h_R1 1 TISDGTISASKQESGK 16 1 A0A075B6Q2;S4R347;Q5T0N5-3;Q5T0N5-4;Q5T0N5-2;Q5T0N5-5;Q5T0N5 A0A075B6Q2 FNBP1L Formin-binding protein 1-like 1 0 T(0.042)IS(0.051)DGT(0.863)IS(0.042)AS(0.002)KQESGK 78.191 0.015222 13843000 5039.6 2907.1 4779.2 4800.9 4607.2 3725.3 5203 6732.3 2073.1 4146.8 TRUE FALSE FALSE 5569.688251 3001.291947 5430.484487 4893.828362 4254.197331 3407.883482 4617.544746 6560.097514 2058.673128 4325.588842 1.287613884 0.693845869 1.255432424 1.131366975 0.983495539 0.787842675 1.067495066 1.516579073 0.47592899 1 12.07868082 TISET(ph)IER ddPTM_HeLa_SAHA_4h_R1 1 TISETIER 8 0 P26639;P26639-2 P26639 TARS "Threonine--tRNA ligase, cytoplasmic" 1 0 T(0.066)IS(0.325)ET(0.609)IER 114.86 0.0084128 5878700 1542.5 1292 1368.3 1361 1558.9 1464.6 1508 1519.7 1012.7 1420.5 TRUE FALSE FALSE 1704.747227 1333.861648 1554.764798 1387.344123 1439.457419 1339.80784 1338.315871 1480.828274 1005.652538 1481.744707 1.150499961 0.900196668 1.049279806 0.936290926 0.971461151 0.904209635 0.903202735 0.999381518 0.678694875 1 10.53308119 -7.253260066 24.97037195 1.071069426 0.952173522 0 0.136014937 456.1970669 1392709.991 0.011472367 0.013931023 5.58E-08 7.253260066 -0.118895904 TISIDENMEPSPTGDFY(ph)PSPS(ph)SPAAGSR ddPTM_HeLa_SAHA_4h_R1 1 TISIDENMEPSPTGDFYPSPSSPAAGSR 28 0 Q5VW31;A0A1B0GWB8;A0A2R8Y7V8;Q5VW30;Q5VW27;A0A1B0GWI9;A0A1B0GU97;A0A0A0MRX8;A0A1B0GWJ4;A0A1B0GVN4;U3KQE8;A0A1B0GW37;Q5VW26;O00712-4;O00712;O00712-5;O00712-6 Q5VW31 NFIB Nuclear factor 1;Nuclear factor 1 B-type 2 0 TIS(0.001)IDENMEPS(0.078)PT(0.302)GDFY(0.468)PS(0.29)PS(0.411)S(0.391)PAAGS(0.06)R 51.444 0.0076854 0 486.39 330.62 221.88 451.38 256.72 491.78 343.34 291.52 210.69 370.34 TRUE FALSE FALSE 537.5507318 341.3323049 252.1166509 460.1171126 237.0501691 449.8775773 304.7064796 284.0633405 209.2237911 386.3071698 1.391511144 0.883577452 0.652632596 1.191065423 0.613631295 1.164559223 0.788767342 0.735330231 0.541599555 1 8.593604644 -7.167316743 8.53421927 1.184724679 0.864422654 0 0.285935674 0.294011985 24.48196389 0.035811341 0.043891203 6.80E-08 7.167316743 -0.320302024 TISIDENMEPSPTGDFYPSPS(ph)SPAAGSR ddPTM_HeLa_SAHA_4h_R1 1 TISIDENMEPSPTGDFYPSPSSPAAGSR 28 0 Q5VW31;A0A1B0GWB8;A0A2R8Y7V8;Q5VW30;Q5VW27;A0A1B0GWI9;A0A1B0GU97;A0A0A0MRX8;A0A1B0GWJ4;A0A1B0GVN4;U3KQE8;A0A1B0GW37;Q5VW26;O00712-4;O00712;O00712-5;O00712-6 Q5VW31 NFIB Nuclear factor 1;Nuclear factor 1 B-type 1 0 TISIDENMEPS(0.003)PT(0.052)GDFYPS(0.017)PS(0.453)S(0.453)PAAGS(0.023)R 78.618 0.00036596 0 475.83 550.45 506.59 699.78 842.95 723.28 793.93 738.36 720.87 482.28 TRUE FALSE FALSE 525.8799826 568.2849412 575.625447 713.3252538 778.3633531 661.6524749 704.5949069 719.4738203 715.853407 503.073451 1.045334397 1.129626181 1.144217501 1.417934602 1.54721612 1.315220419 1.400580582 1.430156608 1.422960018 1 8.974625245 -6.471407376 1.846979001 1.025970521 1.425605288 0.390510134 0.140401758 0.075571541 0.511712964 0.010568383 0.017150594 3.38E-07 6.471407376 0.399634767 TISLVIR ddPTM_HeLa_SAHA_4h_R1 1 TISLVIR 7 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 106.42 0.016176 3662900 1072 1504.3 2369.4 1976 1563.7 1515.2 2283.8 1017.3 647.16 1253.3 FALSE FALSE TRUE 1184.757879 1553.040307 2692.289493 2014.248337 1443.889644 1386.096436 2026.820813 991.278939 642.6563609 1307.335897 0.906238314 1.187942832 2.059370893 1.540727477 1.104451922 1.060245067 1.550344344 0.758243495 0.491577079 1 10.35241415 -7.004508617 24.94681472 0.960532411 1.363467967 0.284660921 0.360607729 203.1707818 1124179.491 0.053149492 0.06887258 9.90E-08 7.004508617 0.402935556 TITGNSAAVIT(ph)PFK ddPTM_HeLa_SAHA_4h_R1 1 TITGNSAAVITPFK 14 0 Q9BXS6-4;Q9BXS6-6;Q9BXS6-3;Q9BXS6-5;Q9BXS6-2;Q9BXS6 Q9BXS6-4 NUSAP1 Nucleolar and spindle-associated protein 1 1 0 T(0.018)ITGNS(0.007)AAVIT(0.975)PFK 86.548 0.020524 1961200 1053.2 1177.9 1357 1482.7 1291.7 1339.6 1608.7 1588.5 1060.1 1356.9 TRUE FALSE FALSE 1163.980408 1216.064733 1541.924893 1511.399803 1192.730225 1225.458544 1427.684842 1547.86847 1052.722678 1415.4026 0.822367013 0.859165253 1.089389615 1.067823249 0.842679126 0.8658021 1.008677561 1.093588828 0.743762007 1 10.46699676 -6.791345235 24.99823876 0.90950256 0.985857575 0.23648305 0.105006491 367.6066388 307280.2454 0.017543758 0.023058734 1.62E-07 6.791345235 0.076355014 TITLEVEPSDTIENVK ddPTM_HeLa_SAHA_4h_R1 2 TITLEVEPSDTIENVK 16 0 P62979;P0CG48;B4DV12;Q96C32;Q5PY61;J3QKN0;F5GXK7;F5H747;F5H388;F5H265;F5H2Z3;F5GYU3;F5H6Q2;J3QTR3;J3QS39;P0CG47;F5GZ39;Q49A90;M0R1V7;J3QSA3;P62987 P62979;P62987 RPS27A;UBC;UBB;UBA52 Ubiquitin-40S ribosomal protein S27a;Ubiquitin;40S ribosomal protein S27a;Polyubiquitin-C;Ubiquitin;Polyubiquitin-B;Ubiquitin;Ubiquitin-60S ribosomal protein L40;Ubiquitin;60S ribosomal protein L40 0 0 ; ; 230.59 8.54E-27 20155800 6382.9 4280.3 4908.1 6112.9 5432.9 6835.1 5410.3 5945.3 6481.8 5543.3 FALSE FALSE TRUE 7054.282708 4418.984528 5576.950308 6231.224019 5016.632376 6252.711027 4801.518805 5793.227835 6436.692626 5782.298791 1.219978933 0.764226251 0.964486705 1.077637847 0.867584426 1.081353844 0.830382341 1.001890086 1.113171916 1 12.49742744 -7.276658894 24.99024372 1.103878936 0.945543439 0.342311422 0.107702941 767.7708231 1260666.788 0.020224899 0.023175547 5.29E-08 7.276658894 -0.158335497 TITSALK(ac)TYLRML ddPTM_HeLa_SAHA_4h_R1 2 TITSALKTYLRML 13 2 A0A2R8YDK5 A0A2R8YDK5 0 1 ; TITSALK(1)TYLRML;TITSALK(1)TYLRML 43.382 0.021958 24176000 8894.9 8147.4 12920.6 10561 10657.6 836.5 13873.9 5639.2 4571.5 6552.7 FALSE TRUE FALSE 9830.506393 8411.381106 14681.35208 10765.42343 9841.01699 765.225494 12312.77226 5494.957429 4539.686559 6835.218965 1.438213822 1.230594243 2.147897844 1.574993205 1.439751534 0.111953326 1.801372029 0.803918274 0.664161102 1 12.73877184 TITVALADGGRPDNTGR ddPTM_HeLa_SAHA_4h_R1 1 TITVALADGGRPDNTGR 17 1 P49588;P49588-2 P49588 AARS "Alanine--tRNA ligase, cytoplasmic" 0 0 78.508 0.010576 2683600 390.72 435.87 500.47 402.48 405.06 607.94 495.03 286.48 427.01 506.85 FALSE FALSE TRUE 431.8177223 449.992474 568.6714453 410.2705824 374.0243903 556.1400918 439.3279216 279.1522564 424.0384026 528.702784 0.816749477 0.8511256 1.075597599 0.775994746 0.707437906 1.051895524 0.830954432 0.527994678 0.802035502 1 9.046313113 -4.294505592 3.771979211 0.902730182 0.501089671 0.446306596 0.116957675 0.153275077 4.075980343 0.016298701 0.160395375 5.08E-05 4.294505592 -0.401640511 TITVPVSGS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 TITVPVSGSPK 11 0 E9PMC9;Q7Z589-6;Q7Z589;Q7Z589-5;Q7Z589-4;Q7Z589-7;Q7Z589-2 E9PMC9 C11orf30;EMSY Protein EMSY 1 0 TITVPVSGS(0.999)PK;TITVPVS(0.014)GS(0.986)PK ; 169.09 0.00010854 24496000 10554.8 8989.5 9208.2 8981.3 9832.8 10807.8 9952.8 10011.8 10407.9 9372.2 TRUE FALSE FALSE 11665.00229 9280.765698 10463.04554 9155.146049 9079.412988 9886.914637 8832.88475 9755.712653 10335.47058 9776.281408 1.193194202 0.9493145 1.070247992 0.93646507 0.928718457 1.011316494 0.903501483 0.997896055 1.057198555 1 13.2550701 -6.717655651 1.630656887 1.087765103 0.957787595 0.304169308 0.067989632 0.325011337 1.758276882 0.01463564 0.021748917 1.92E-07 6.717655651 -0.129977509 TIVFVETK ddPTM_HeLa_SAHA_4h_R1 1 TIVFVETK 8 0 P17844-2;P17844;J3KTA4;J3QSF1 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 0 0 96.711 0.022321 1165900 583.11 725.8 695.86 1075.5 935.81 728.52 927.16 590.99 523.28 671.74 FALSE FALSE TRUE 644.4441852 749.3163962 790.6881769 1096.317858 864.10844 666.4459975 822.8335166 575.8733315 519.6384519 700.7019988 0.919712212 1.069379561 1.128422893 1.564599301 1.233203903 0.951111883 1.1742988 0.821851989 0.741596931 1 9.452657201 -6.982283891 3.213977231 0.962551262 1.160137322 0.232179806 0.195088836 0.310741238 6.682390822 0.031038552 0.040437134 1.04E-07 6.982283891 0.19758606 TIVITSHPGQIVK ddPTM_HeLa_SAHA_4h_R1 1 TIVITSHPGQIVK 13 0 P31689;P31689-2 P31689 DNAJA1 DnaJ homolog subfamily A member 1 0 0 196.02 7.61E-24 10432000 3586.9 3758.3 3780.7 4069.4 4354.9 4255 4820.1 3910.6 3970.7 3593.9 FALSE FALSE TRUE 3964.186599 3880.071386 4295.914107 4148.169121 4021.228503 3892.450062 4277.729662 3810.572514 3943.067575 3748.850617 1.057440534 1.035002933 1.145928325 1.106517582 1.072656372 1.038304926 1.141077653 1.016464219 1.051807068 1 11.87223262 -8.285297173 0.638707918 1.00342826 1.083985075 0.165495559 0.043351712 0.537455717 0.477511395 0.019499823 0.010229405 5.18E-09 8.285297173 0.080556816 TIYLS(ph)SPDSAVGVQWPR ddPTM_HeLa_SAHA_4h_R1 1 TIYLSSPDSAVGVQWPR 17 0 Q86YV5 Q86YV5 SGK223 Tyrosine-protein kinase SgK223 1 0 TIY(0.001)LS(0.749)S(0.25)PDSAVGVQWPR 170.11 4.14E-07 3457500 657.67 685.1 837.86 908.35 825.81 814.03 1107 537.83 501.03 843.53 TRUE FALSE FALSE 726.8467481 707.2976895 952.0391974 925.9324277 762.5366162 744.6700644 982.4374465 524.0730874 497.5432914 879.8987064 0.826057298 0.803839901 1.081987268 1.052317069 0.866618635 0.846313398 1.116534709 0.595606157 0.565455191 1 9.781193641 -4.238990122 24.26320637 0.93038234 0.595605617 0.247897472 0.157655763 3049.799429 3296156.365 0.015652509 1.059643735 5.77E-05 4.238990122 -0.334776723 TIYLSS(ph)PDSAVGVQWPR ddPTM_HeLa_SAHA_4h_R1 1 TIYLSSPDSAVGVQWPR 17 0 Q86YV5 Q86YV5 SGK223 Tyrosine-protein kinase SgK223 1 0 TIYLS(0.005)S(0.947)PDS(0.048)AVGVQWPR 115.56 0.00027685 0 519.73 631.42 503 459.26 495.31 590.99 706.98 610.56 529.05 351.56 TRUE FALSE FALSE 574.397586 651.8784223 571.5462205 468.1496414 457.3594548 540.6343272 627.4287497 594.9427593 525.368298 366.7174721 1.566321841 1.777603937 1.558546467 1.276594864 1.247171159 1.474252983 1.71093225 1.622346369 1.432624126 1 8.518525194 -9.165903037 0.882696541 0.994832124 1.524102308 0.158445842 0.205590901 0.364761328 0.50561624 0.125130299 0.034576251 6.82E-10 9.165903037 0.529270184 TK(ac)FENLCK ddPTM_HeLa_SAHA_4h_R1 1 TKFENLCK 8 1 P07900;P07900-2;Q58FG0 P07900 HSP90AA1;HSP90AA5P Heat shock protein HSP 90-alpha;Putative heat shock protein HSP 90-alpha A5 0 1 TK(1)FENLCK 93.649 0.017457 1923200 0 433.94 416.25 461.23 859.7 840.82 1094.2 646.55 107.45 122.13 FALSE TRUE FALSE 0 447.9999407 472.9743823 470.1577736 793.8299717 769.1774057 971.0777362 630.0121872 106.7022467 127.395622 0 3.516603897 3.712642357 3.690533209 6.231218619 6.037706741 7.622536168 4.945320548 0.837566041 1 6.993171889 -6.530802149 0.906861024 0.50215329 6.36548836 0.840378757 0.962030451 0.136028554 0.223434724 0.19429503 0.358102484 2.95E-07 6.530802149 5.86333507 TKDGVVEITGK(ac)HEER ddPTM_HeLa_SAHA_4h_R1 1 TKDGVVEITGKHEER 15 2 P04792 P04792 HSPB1 Heat shock protein beta-1 0 1 TKDGVVEITGK(1)HEER 118.16 0.00028316 9379000 2775.3 4446.9 3397.1 3711.5 5115.7 4249.3 5055.9 4207.3 4137.9 3931.5 FALSE TRUE FALSE 3067.218788 4590.982478 3860.039097 3783.341449 4723.736171 3887.235734 4486.996826 4099.683358 4109.104017 4101.006205 0.747918592 1.119477086 0.941241955 0.922539801 1.151848092 0.947873653 1.094120955 0.999677434 1.001974591 1 12.00176221 -7.252360342 24.98824645 0.880961556 1.022613896 0.172296801 0.100229922 680.5065611 1872960.576 0.018963208 0.023050288 5.59E-08 7.252360342 0.14165234 TKDIEDVFYK ddPTM_HeLa_SAHA_4h_R1 2 TKDIEDVFYK 10 1 J3KTL2;Q07955;Q07955-3;Q07955-2;J3QQV5;J3KSW7 J3KTL2 SRSF1 Serine/arginine-rich splicing factor 1 0 0 ; ; 124.42 0.00109 3068100 3413 2893.6 3534.5 3186.3 3672.3 3635.3 4092.2 3402.6 3194.9 3144.2 FALSE FALSE TRUE 3771.994999 2987.354539 4016.163253 3247.975444 3390.929167 3325.551988 3631.734886 3315.566419 3172.666431 3279.761849 1.150081979 0.910844956 1.224528925 0.990308319 1.033894936 1.013961422 1.107316645 1.01091682 0.967346587 1 11.67937535 TKDQPDGSSLS(ph)PAQSPSQSQPPAASSLR ddPTM_HeLa_SAHA_4h_R1 1 TKDQPDGSSLSPAQSPSQSQPPAASSLR 28 1 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;A0A1W2PPU9;J3KSW8;Q6WCQ1-3 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 TKDQPDGS(0.001)S(0.009)LS(0.983)PAQS(0.006)PS(0.001)QSQPPAASSLR 95.323 1.16E-06 10691000 672.17 882.92 795.26 831.3 744.83 1031 697.97 783.65 1099.7 733.78 TRUE FALSE FALSE 742.8719246 911.5271873 903.6338913 847.3910136 687.7612863 943.1529998 619.4325786 763.6053677 1092.047098 765.4168468 0.970545563 1.190889894 1.180577479 1.107097416 0.898544746 1.232208311 0.809274817 0.997633343 1.426735122 1 9.580101845 -2.806944269 13.45929178 1.017767011 0.625817369 0 0.183938177 0 0 0.016764386 0 0.001559753 2.806944269 -0.391949642 TKDS(ph)GSISLQETR ddPTM_HeLa_SAHA_4h_R1 1 TKDSGSISLQETR 13 1 Q9H2G2-2;Q9H2G2 Q9H2G2-2 SLK STE20-like serine/threonine-protein kinase 1 0 T(0.342)KDS(0.565)GS(0.081)IS(0.012)LQETR 67.994 0.020765 43712000 2092.2 3096.1 2750.4 1390.7 2392.4 2340.8 2418.2 1893.1 2022.5 2631.5 TRUE FALSE FALSE 2312.267195 3196.415671 3125.210189 1417.619009 2209.094829 2141.350671 2146.097772 1844.677243 2008.425258 2744.956843 0.842369235 1.164468461 1.138527987 0.516444917 0.804783082 0.780103584 0.781832974 0.672024133 0.731678264 1 11.42256775 -6.265725497 24.99985724 0.959911452 0.724015875 0.463279725 0.141443266 269.5886446 1572443.435 0.020491194 0.031985053 5.42E-07 6.265725497 -0.235895578 TKEYVSNDAAQS(ph)DDEEKLQSQPTDTDGGR ddPTM_HeLa_SAHA_4h_R1 4 TKEYVSNDAAQSDDEEKLQSQPTDTDGGR 29 2 Q5JSH3-2;Q5JSH3;Q5JSH3-4;H7BY83 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 TKEYVSNDAAQS(0.999)DDEEKLQS(0.001)QPTDTDGGR;T(0.001)KEYVSNDAAQS(0.996)DDEEKLQS(0.002)QPTDTDGGR;T(0.002)KEY(0.001)VS(0.001)NDAAQS(0.984)DDEEKLQS(0.011)QPT(0.001)DTDGGR;T(0.001)KEY(0.001)VS(0.001)NDAAQS(0.994)DDEEKLQS(0.002)QPT(0.001)DTDGGR ;;; 104.77 1.85E-09 68951500 5903 5076.44 5404.44 5312.63 6464 6712.8 6391.58 6275.92 5361.54 5143.39 TRUE FALSE FALSE 6523.904624 5240.919987 6140.928938 5415.463636 5968.729716 6140.831675 5672.382597 6115.391054 5324.228607 5365.146714 1.215978793 0.976845605 1.144596647 1.00937848 1.112500745 1.144578518 1.057265141 1.139836687 0.992373348 1 12.38940191 -9.727943282 1.649362684 1.000018392 1.115906644 0.245042602 0.0682442 0.424299836 2.086021307 0.052489458 0.011450433 1.87E-10 9.727943282 0.115888253 TKFAS(ph)DDEHDEHDENGATGPVK ddPTM_HeLa_SAHA_4h_R1 2 TKFASDDEHDEHDENGATGPVK 22 1 P05455 P05455 SSB Lupus La protein 1 0 T(0.482)KFAS(0.518)DDEHDEHDENGATGPVK;T(0.463)KFAS(0.537)DDEHDEHDENGATGPVK ; 70.761 0.0012876 53665000 7653 8403.9 6001.9 8067.2 8038.3 6561.4 8510.4 8424.8 10101.8 7816.2 TRUE FALSE FALSE 8457.977653 8676.191874 6819.807675 8223.352321 7422.407191 6002.331807 7552.787394 8209.305815 10031.50075 8153.194634 1.037382037 1.064146297 0.836458343 1.008604932 0.910367963 0.736193857 0.926359266 1.00688211 1.230376705 1 12.99314974 -6.768411043 24.99979451 1.021632891 0.902551154 0.379406374 0.100449343 131.429576 471295.1219 0.012168439 0.016185424 1.70E-07 6.768411043 -0.119081737 TKPTQAAGPS(ph)S(ph)PQKPPTPEETK ddPTM_HeLa_SAHA_4h_R1 1 TKPTQAAGPSSPQKPPTPEETK 22 2 F5H8D7;P18887 F5H8D7 XRCC1 DNA repair protein XRCC1 2 0 T(0.006)KPT(0.017)QAAGPS(0.969)S(0.984)PQKPPT(0.019)PEET(0.006)K 67.579 0.0023122 19903000 720.03 737.44 510.39 915.27 907.28 925.47 659.94 790.96 851.89 960.51 TRUE FALSE FALSE 795.766059 761.3335399 579.9432912 932.9863744 837.7644024 846.6147494 585.6818143 770.7283885 845.9616281 1001.922287 0.794239303 0.759872846 0.578830613 0.931196348 0.836157069 0.844990436 0.584558126 0.76924967 0.844338567 1 9.968554896 -8.869867361 0.612356349 1.013502468 0.756189262 0.193618398 0.113626452 0.666943804 0.446549554 0.088944578 0.025219704 1.35E-09 8.869867361 -0.257313205 TKPTQAAGPS(ph)SPQKPPTPEETK ddPTM_HeLa_SAHA_4h_R1 1 TKPTQAAGPSSPQKPPTPEETK 22 2 F5H8D7;P18887 F5H8D7 XRCC1 DNA repair protein XRCC1 1 0 T(0.006)KPT(0.004)QAAGPS(0.494)S(0.494)PQKPPT(0.002)PEETK 66.536 0.0018307 4043000 1323.6 1224.4 1148.8 1096.2 1286.5 1393.8 1153.6 1075.2 1199.3 1443.4 TRUE FALSE FALSE 1462.822321 1264.071363 1305.352481 1117.418536 1187.928648 1275.040399 1023.793892 1047.697941 1190.953974 1505.632038 0.971566946 0.839561946 0.866979746 0.742159112 0.788990018 0.846847282 0.67997616 0.695852582 0.790999357 1 10.55615352 -6.732471013 0.633173439 1.000594847 0.725901624 0.35048102 0.081199578 0.198195496 0.164006952 0.012201701 0.021679606 1.85E-07 6.732471013 -0.274693223 TKPTQAAGPSS(ph)PQKPPT(ph)PEETK ddPTM_HeLa_SAHA_4h_R1 1 TKPTQAAGPSSPQKPPTPEETK 22 2 F5H8D7;P18887 F5H8D7 XRCC1 DNA repair protein XRCC1 2 0 T(0.002)KPT(0.001)QAAGPS(0.266)S(0.759)PQKPPT(0.708)PEET(0.264)K 64.542 0.0029105 19794000 1814.3 2040.3 1754.2 2292.4 1742.5 2372.4 2168.5 1895.4 2974 2143.6 TRUE FALSE FALSE 2005.136398 2106.407059 1993.253241 2336.772717 1608.990026 2170.258173 1924.494673 1846.918413 2953.303692 2236.021087 0.896743063 0.942033629 0.891428642 1.045058444 0.719577305 0.970589314 0.860678231 0.825984345 1.32078526 1 11.12671808 -13.52287875 0.078247677 1.363852641 0.772616056 0.260535473 0.131022038 196.2686665 1.181370279 12.6956022 1.471745608 3.00E-14 13.52287875 -0.591236585 TKPTQAAGPSS(ph)PQKPPTPEETK ddPTM_HeLa_SAHA_4h_R1 2 TKPTQAAGPSSPQKPPTPEETK 22 2 F5H8D7;P18887 F5H8D7 XRCC1 DNA repair protein XRCC1 1 0 TKPTQAAGPS(0.012)S(0.981)PQKPPT(0.006)PEET(0.001)K;T(0.003)KPT(0.004)QAAGPS(0.089)S(0.892)PQKPPT(0.01)PEET(0.002)K ; 107.09 4.53E-05 31680300 5227.83 5225.99 4613.59 5329.21 5672.87 6510.9 5651.55 6163 6155.7 5619.68 TRUE FALSE FALSE 5777.717146 5395.315505 5242.306019 5432.364566 5238.215926 5956.134691 5015.62272 6005.359384 6112.861983 5861.971907 0.985626891 0.92039259 0.894290539 0.926712828 0.893592806 1.016063329 0.855620395 1.024460622 1.042799604 1 12.51717034 -7.325956069 4.999058801 0.993635843 0.929998697 0.298043443 0.052017457 0.196784153 9.816432719 0.007627907 0.008733055 4.72E-08 7.325956069 -0.063637146 TKPYIQVDIGGGQTK ddPTM_HeLa_SAHA_4h_R1 2 TKPYIQVDIGGGQTK 15 1 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 ; ; 173.51 3.34E-11 26613000 11481.1 13273.6 11558.8 14283.8 17135.3 18041.5 16824.1 16170.8 15698.6 15080.5 FALSE FALSE TRUE 12688.73478 13703.67335 13133.97307 14560.2836 15822.39702 16504.2627 14931.00799 15757.17435 15589.35216 15730.69416 0.806622686 0.871142317 0.834926478 0.925597018 1.005829549 1.049175741 0.949163962 1.001683346 0.991014892 1 13.94129471 -5.855289154 4.377319946 0.897334352 1.001147845 0.378414656 0.06106942 0.222007602 7.669000668 0.011762532 0.022041527 1.40E-06 5.855289154 0.103813493 TKSDES(ph)GEEKNGDEDCQR ddPTM_HeLa_SAHA_4h_R1 2 TKSDESGEEKNGDEDCQR 18 2 Q6PKG0;A0A0B4J210;Q6PKG0-3;E5RH50;H0YBM7;E5RHK4 Q6PKG0 LARP1 La-related protein 1 1 0 T(0.002)KS(0.006)DES(0.992)GEEKNGDEDCQR;T(0.041)KS(0.033)DES(0.925)GEEKNGDEDCQR ; 93.851 0.0019114 6812900 916.64 956.59 756.31 782.94 899.92 877.72 1072.75 830.29 867.34 1026.46 TRUE FALSE FALSE 1013.056401 987.5841436 859.3759881 798.0949359 830.968324 802.9333181 952.0413467 809.052384 861.3041103 1070.715714 0.946148812 0.922358877 0.802618264 0.745384536 0.776086792 0.749903366 0.889163514 0.755618297 0.804419043 1 10.06435977 -6.883869577 2.104415841 0.975334156 0.784490119 0.410013821 0.067400456 0.093180989 0.838713278 0.007200437 0.009828504 1.31E-07 6.883869577 -0.190844037 TKSNSLSEQLAINTS(ph)PDAVK ddPTM_HeLa_SAHA_4h_R1 1 TKSNSLSEQLAINTSPDAVK 20 1 Q5T1M5;Q5T1M5-2;Q5T1M5-3 Q5T1M5 FKBP15 FK506-binding protein 15 1 0 TKSNSLSEQLAINT(0.155)S(0.845)PDAVK 84.829 0.00097061 0 549.68 606.66 761.87 510.06 858.66 833.24 564.67 996.9 510.81 708.57 TRUE FALSE FALSE 607.4978644 626.316182 865.693676 519.9329489 792.8696563 762.2432643 501.1318455 971.4007415 507.2552316 739.1199204 0.821920568 0.847381007 1.171249282 0.703448702 1.072721265 1.031284969 0.678011554 1.314266758 0.686296253 1 9.529664647 -4.235545631 23.7376263 0.918882436 1.314267779 0.355797708 0.167215638 3223.965859 2955422.012 0.019416704 1.806793229 5.81E-05 4.235545631 0.395385344 TKSPT(ph)DDEVTPSAVVR ddPTM_HeLa_SAHA_4h_R1 3 TKSPTDDEVTPSAVVR 16 1 Q5VTI5;A0A1B0GUN5;Q9Y2H5 Q5VTI5 PLEKHA6 Pleckstrin homology domain-containing family A member 6 1 0 TKS(0.216)PT(0.774)DDEVT(0.01)PSAVVR;T(0.003)KS(0.043)PT(0.954)DDEVTPSAVVR;T(0.16)KS(0.246)PT(0.594)DDEVTPSAVVR ;; 184.21 5.28E-09 61855000 4045.88 4207.96 3438.94 4400.11 4354.89 4683.6 4454.78 4413.78 4158.94 3594.98 TRUE FALSE FALSE 4471.444222 4344.300665 3907.580834 4485.280492 4021.219269 4284.530931 3953.51643 4300.881899 4129.997598 3749.977181 1.192392381 1.158487227 1.042027896 1.196082076 1.072331664 1.142548534 1.054277463 1.146908819 1.101339394 1 11.8726661 -9.514896485 1.277231967 1.0002397 1.130717515 0.120627305 0.059520335 0.317591609 0.930179278 0.035747356 0.008675728 3.06E-10 9.514896485 0.130477816 TKSTGGAPTFNVTVTK ddPTM_HeLa_SAHA_4h_R1 2 TKSTGGAPTFNVTVTK 16 1 P07737;K7EJ44 P07737 PFN1 Profilin-1 0 0 ; ; 134.08 2.71E-05 6269800 5561.2 2049.33 5098 3896 3343.3 2620.6 4160.8 4660.2 1056.9 3530.7 FALSE FALSE TRUE 6146.152532 2115.729637 5792.728891 3971.412714 3087.137076 2397.310137 3692.615833 4540.998832 1049.544947 3682.925756 1.668823359 0.574469804 1.572860621 1.078330919 0.838229517 0.650925459 1.002631081 1.232986797 0.284975863 1 11.8466366 -6.006238688 16.17303607 1.27622821 0.921520028 0 0.444659322 3.808776922 9880.976086 0.052701497 0.092466295 9.86E-07 6.006238688 -0.354708182 TKVGDGDLS(ph)AEEIPENEVSLR ddPTM_HeLa_SAHA_4h_R1 1 TKVGDGDLSAEEIPENEVSLR 21 1 Q14684-2;Q14684 Q14684-2 RRP1B Ribosomal RNA processing protein 1 homolog B 1 0 T(0.001)KVGDGDLS(0.998)AEEIPENEVS(0.001)LR 80.406 0.00084521 4544100 1643 1469.6 1296.4 1585.6 1697.7 1671.9 1562.3 1614.6 1527.6 1732.9 TRUE FALSE FALSE 1815.818278 1517.216004 1473.066641 1616.291581 1567.622593 1529.444714 1386.505892 1573.30087 1516.969307 1807.6138 1.004538845 0.839347434 0.814923321 0.89415758 0.867233141 0.846112546 0.767036572 0.870374452 0.839210957 1 10.81987076 -7.261453557 24.99999987 1.002143346 0.841808393 0.279654312 0.060908444 0.333257534 587339.6681 0.005437925 0.006429574 5.48E-08 7.261453557 -0.160334953 TLAEK(ac)SR ddPTM_HeLa_SAHA_4h_R1 2 TLAEKSR 7 1 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 0 1 ; TLAEK(1)SR;TLAEK(1)SR 110.12 0.0031975 1233600 1381.84 1215.11 1534.55 1926.03 2261.45 1704.5 3013.4 2072.8 862.93 1238.68 FALSE TRUE FALSE 1527.188271 1254.480361 1743.670482 1963.311096 2088.17819 1559.267011 2674.324301 2019.780777 856.9247999 1292.085557 1.181955996 0.970895739 1.349500792 1.51949001 1.616129968 1.206783098 2.069773389 1.5631943 0.663210571 1 10.33548589 -5.835461993 0.4733664 1.039576998 1.838478355 0.596834833 0.240682708 0.703319372 0.251446765 0.054737715 0.250459878 1.46E-06 5.835461993 0.798901357 TLDFDPLLS(ph)PASPK ddPTM_HeLa_SAHA_4h_R1 2 TLDFDPLLSPASPK 14 0 Q53H80 Q53H80 AKIRIN2 Akirin-2 1 0 TLDFDPLLS(0.752)PAS(0.248)PK;TLDFDPLLS(0.978)PAS(0.022)PK ; 225.09 4.01E-24 323970000 4113.9 4689.5 3971.7 4070.9 4644.8 4241.1 4620 4669.9 4107.1 3697.5 TRUE FALSE FALSE 4546.618877 4841.442877 4512.942592 4149.698156 4288.916427 3879.73442 4100.145441 4550.45072 4078.518357 3856.91732 1.178821971 1.255262292 1.170090572 1.075910581 1.112006318 1.00591589 1.06306283 1.17981547 1.05745548 1 11.9132325 -4.243629439 22.32195581 1.098078779 1.179815762 0.08359882 0.076214855 1964.882887 2462492.771 0.012925285 0.446512233 5.71E-05 4.243629439 0.081736983 TLDGFK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 TLDGFKK 7 1 P07237;H7BZ94;H0Y3Z3;I3L0S0 P07237 P4HB Protein disulfide-isomerase 0 1 ; TLDGFK(1)K;TLDGFK(1)K 87.616 0.013054 4814100 2716.7 9900.8 4100.1 4851.4 9446.3 8369.6 9025.2 7935.9 7416.8 2455.9 FALSE TRUE FALSE 3002.454971 10221.59242 4658.840276 4945.305862 8722.526535 7656.462994 8009.660743 7732.911169 7365.185885 2561.785868 1.172016369 3.990026077 1.818590825 1.930413437 3.40486168 2.988720911 3.126592602 3.018562662 2.875020109 1 11.32293417 -7.354943672 8.411220501 1.077314455 2.848979749 0.223989093 0.829731232 0.142163179 11.69840828 0.101673673 0.116070608 4.42E-08 7.354943672 1.771665294 TLDSGTSEIVKS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 TLDSGTSEIVKSPR 14 1 Q9H501 Q9H501 ESF1 ESF1 homolog 1 0 TLDSGTSEIVKS(1)PR;TLDSGTSEIVKS(1)PR;TLDSGT(0.003)S(0.002)EIVKS(0.996)PR ;; 147.51 0.00043775 85462300 6479.52 6536.22 5932.42 6937.87 8014.09 8646.2 7995.35 8258.81 8114.6 7463.8 TRUE FALSE FALSE 7161.065643 6747.997817 6740.859303 7072.162506 7400.052156 7909.495118 7095.692175 8047.561599 8058.129838 7785.600945 0.919783289 0.866727933 0.865811047 0.908364371 0.950479251 1.015913245 0.911386574 1.033646812 1.035004221 1 12.92659269 -4.246368704 23.34219901 0.945324039 1.033646974 0.191491489 0.056312674 1501.511463 2325514.812 0.007944895 0.223145122 5.67E-05 4.246368704 0.088322935 TLEAEFNSPS(ph)PPTPEPGEGPR ddPTM_HeLa_SAHA_4h_R1 1 TLEAEFNSPSPPTPEPGEGPR 21 0 A0MZ66-7;A0MZ66-8;A0MZ66-4;A0MZ66-5;A0MZ66-6;A0MZ66;A0MZ66-3 A0MZ66-7 KIAA1598 Shootin-1 1 0 TLEAEFNS(0.005)PS(0.848)PPT(0.146)PEPGEGPR 130.47 4.93E-06 5601000 604.01 866.68 639.57 548.23 851.84 880.93 799.76 623.4 841.97 794.67 TRUE FALSE FALSE 667.5425431 894.7610006 726.7272689 558.8417844 786.5722032 805.869808 709.7688999 607.4543307 836.1106622 828.9321127 0.805304238 1.079414088 0.876702999 0.67417075 0.948898216 0.972178295 0.856244907 0.732815536 1.008659997 1 9.695110144 -6.528253798 24.99439643 0.921186557 0.844055906 0.201920662 0.110054095 289.2280893 1344926.887 0.018730689 0.026537252 2.96E-07 6.528253798 -0.077130651 TLEAEFNSPSPPT(ph)PEPGEGPR ddPTM_HeLa_SAHA_4h_R1 2 TLEAEFNSPSPPTPEPGEGPR 21 0 A0MZ66-7;A0MZ66-8;A0MZ66-4;A0MZ66-5;A0MZ66-6;A0MZ66;A0MZ66-3 A0MZ66-7 KIAA1598 Shootin-1 1 0 TLEAEFNS(0.002)PS(0.044)PPT(0.954)PEPGEGPR;TLEAEFNS(0.043)PS(0.043)PPT(0.914)PEPGEGPR ; 164.56 9.83E-17 2939300 972.09 1119.49 1232.03 1008.09 1397.51 1492.52 1226.17 1240.16 1226.81 1294.92 TRUE FALSE FALSE 1074.338886 1155.762211 1399.924632 1027.60304 1290.433086 1365.348899 1088.198124 1208.438503 1218.272529 1350.750338 0.795364514 0.855644583 1.036405169 0.760764599 0.955345373 1.010807742 0.805624913 0.894642384 0.901922802 1 10.39954533 -9.635758464 1.479344988 0.999612606 0.877797845 0.015310473 0.091574128 0.517540543 2.045809998 0.061186882 0.014109 2.31E-10 9.635758464 -0.121814761 TLEEDEEELFK ddPTM_HeLa_SAHA_4h_R1 2 TLEEDEEELFK 11 0 P43487-2;P43487;C9JJ34;F6WQW2;C9JDM3 P43487-2 RANBP1 Ran-specific GTPase-activating protein 0 0 ; ; 204.34 3.77E-24 1429470 536.16 662.162 335.29 492.628 708.65 690.15 749.04 473.66 539.37 767.7 FALSE FALSE TRUE 592.5557688 683.6164833 380.9815751 502.1635273 654.3533901 631.3453373 664.7560478 461.5444631 535.6164803 800.799304 0.739955399 0.853667679 0.475751631 0.627077877 0.817125323 0.788393964 0.830115666 0.576354725 0.66885233 1 9.64529691 -8.949731438 0.623794798 1.017341628 0.710676154 0 0.153056753 0.641176964 0.431545743 0.104390227 0.027406941 1.12E-09 8.949731438 -0.306665474 TLEEEAKTHEAQIQEMR ddPTM_HeLa_SAHA_4h_R1 1 TLEEEAKTHEAQIQEMR 17 1 P35579 P35579 MYH9 Myosin-9 0 0 118.52 0.000653 6511100 2841.4 1417.4 2787.8 2174.5 2144.6 2360.8 3057.7 2662.1 1395 1888.6 FALSE FALSE TRUE 3140.271489 1463.32469 3167.706866 2216.590592 1980.281211 2159.646559 2713.639549 2594.007337 1385.292081 1970.026789 1.594024765 0.74279431 1.607951163 1.125157589 1.00520522 1.096252381 1.377463273 1.316737088 0.703184388 1 10.94399953 TLEEVVMAEEEDEGTDRPGS(ph)PA ddPTM_HeLa_SAHA_4h_R1 3 TLEEVVMAEEEDEGTDRPGSPA 22 1 F8WC89;A6NKF1 F8WC89 SAC3D1 SAC3 domain-containing protein 1 1 0 TLEEVVMAEEEDEGTDRPGS(1)PA;TLEEVVMAEEEDEGT(0.01)DRPGS(0.99)PA;TLEEVVMAEEEDEGT(0.061)DRPGS(0.939)PA ;; 215.45 7.50E-30 11014400 3919.16 4848.1 4530.5 4402 5225.1 6649.1 5937.1 5473.2 5893.5 4924.51 TRUE FALSE FALSE 4331.395231 5005.181621 5147.892946 4487.207075 4824.753967 6082.559273 5269.041882 5333.203469 5852.486654 5136.829726 0.843203972 0.974371721 1.002153706 0.873536269 0.9392474 1.18410763 1.025738084 1.038228587 1.139318795 1 12.32666254 -5.375064175 8.718121128 0.930402081 1.076743031 0.182209636 0.090576333 0.216848115 15.1986533 0.010599595 0.023741303 4.22E-06 5.375064175 0.14634095 TLEGELHDLR ddPTM_HeLa_SAHA_4h_R1 6 TLEGELHDLR 10 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;H0YAB0;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ;;;;; ;;;;; 194.12 4.46E-07 213227300 27424.9 27354.8 28327 30180.3 32141.5 32321.5 32625.7 25721.1 28717.6 26557.1 FALSE FALSE TRUE 30309.57681 28241.11347 32187.25604 30764.48335 29678.82521 29567.52636 28954.57037 25063.19151 28517.75188 27702.10655 1.094125342 1.019457254 1.161906441 1.110546712 1.071356258 1.067338555 1.045211862 0.904739553 1.029443441 1 14.75770807 -4.261544686 3.931021354 1.059759361 0.890218777 0.532615802 0.045281487 0.180442238 5.62990038 0.007361918 0.087291253 5.48E-05 4.261544686 -0.169540584 TLENQS(ph)HETLER ddPTM_HeLa_SAHA_4h_R1 1 TLENQSHETLER 12 0 P48681 P48681 NES Nestin 1 0 TLENQS(1)HETLER 78.244 0.018167 3542400 656.46 943.07 684.39 714.13 803.11 1128.3 773.95 799.11 864.83 618.9 TRUE FALSE FALSE 725.5094747 973.6260868 777.6551051 727.9530188 741.5758853 1032.162492 686.8631091 778.6699233 858.8115776 645.5838078 1.123803704 1.508132755 1.204576533 1.127588719 1.148690342 1.598804802 1.063941042 1.206148472 1.330286738 1 9.334460584 -7.494679502 7.939845381 1.054057548 1.262484028 0.010899631 0.181617963 0.211964226 47.72190317 0.027420353 0.030259183 3.20E-08 7.494679502 0.20842648 TLENSPISSCDT(ph)SDTEGPVPVNSAAVLKK ddPTM_HeLa_SAHA_4h_R1 1 TLENSPISSCDTSDTEGPVPVNSAAVLKK 29 1 Q8N556;Q8N556-2 Q8N556 AFAP1 Actin filament-associated protein 1 1 0 TLENS(0.005)PIS(0.011)S(0.03)CDT(0.318)S(0.318)DT(0.318)EGPVPVNSAAVLKK 56.442 0.010003 4453100 615.19 478.82 817.67 807.17 995 848.67 1059.4 911.06 789.83 784.05 TRUE FALSE FALSE 679.8985068 494.3340822 929.0978094 822.7939425 918.763315 776.3585415 940.1935238 887.7564044 784.3335087 817.8542325 0.83131991 0.604428103 1.136018831 1.006039842 1.123382723 0.94926273 1.149585692 1.085470209 0.959013816 1 9.675699922 TLEPVKPPTVPNDYMTS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 2 TLEPVKPPTVPNDYMTSPAR 20 1 A0A0A0MRT6;Q8IZP0-2;Q8IZP0-4;Q8IZP0-3;Q8IZP0-5;Q8IZP0-6;Q8IZP0-9;Q8IZP0-12;Q8IZP0;B6VEX4;Q8IZP0-11;Q8IZP0-10;Q8IZP0-8;Q8IZP0-7 A0A0A0MRT6 ABI1 Abl interactor 1 1 0 TLEPVKPPTVPNDYMT(0.093)S(0.906)PAR;TLEPVKPPTVPNDY(0.009)MT(0.088)S(0.903)PAR ; 80.868 0.0017408 15537700 1636.4 2064.17 2267.1 1968.08 2023.95 2896.1 2130.13 2448.37 2635.97 2564.44 TRUE FALSE FALSE 1808.52406 2131.050462 2576.048581 2006.175034 1868.875388 2649.335987 1890.442166 2385.744241 2617.62607 2675.005558 0.676082356 0.796652723 0.963006814 0.749970417 0.698643553 0.990403918 0.706705883 0.891865153 0.978549769 1 11.38532617 -9.57452301 1.368150882 0.999545992 0.793005878 0.311726197 0.104799165 0.389735545 1.312479669 0.073436907 0.017348436 2.66E-10 9.57452301 -0.206540114 TLEPVRPPVVPNDY(ph)VPSPTR ddPTM_HeLa_SAHA_4h_R1 2 TLEPVRPPVVPNDYVPSPTR 20 1 H7C3Q7;H0Y6B5;B7Z836;E7EW77;E7EP65;A0A0C4DG21;F8WAL6;Q9NYB9-3;Q9NYB9-2;Q9NYB9-4;Q9NYB9 H7C3Q7 ABI2 Abl interactor 2 1 0 TLEPVRPPVVPNDY(0.986)VPS(0.011)PT(0.002)R;TLEPVRPPVVPNDY(0.999)VPS(0.001)PTR ; 134.83 5.70E-05 17459500 1351.31 1341.93 857.8 1789.72 2388.04 1876.79 2104.42 1893.42 1808.85 1237.99 TRUE FALSE FALSE 1493.446986 1385.409412 974.6965168 1824.362619 2205.068891 1716.876933 1867.625123 1844.989058 1796.262066 1291.365807 1.156486394 1.072824915 0.754779561 1.412738829 1.707547837 1.329504718 1.446240184 1.428711406 1.390978494 1 10.33468202 -6.098085362 7.95977147 1.054301463 1.476709567 0.563679183 0.17178821 0.125253709 9.122458663 0.020633504 0.034317649 7.98E-07 6.098085362 0.422408104 TLEPVRPPVVPNDYVPSPT(ph)R ddPTM_HeLa_SAHA_4h_R1 2 TLEPVRPPVVPNDYVPSPTR 20 1 H7C3Q7;H0Y6B5;B7Z836;E7EW77;E7EP65;A0A0C4DG21;F8WAL6;Q9NYB9-3;Q9NYB9-2;Q9NYB9-4;Q9NYB9 H7C3Q7 ABI2 Abl interactor 2 1 0 TLEPVRPPVVPNDYVPS(0.213)PT(0.787)R;TLEPVRPPVVPNDYVPS(0.176)PT(0.824)R ; 114.64 0.00035483 48689000 1201.58 1340.4 1442.84 1121.27 1308.19 1564.38 1422.97 1334.86 1460.43 1228.01 TRUE FALSE FALSE 1327.967697 1383.829839 1639.462721 1142.973802 1207.956765 1431.086023 1262.853671 1300.716214 1450.266749 1280.955521 1.036700866 1.08031061 1.279874824 0.892282194 0.943012263 1.117201964 0.985868479 1.015426526 1.132175728 1 10.32300467 -3.072703973 14.95818569 1.029703182 1.007746221 0 0.106188519 0 0 0.012810889 0 0.000845855 3.072703973 -0.021956961 TLEVVS(ph)PSQSVTGSAGHTPYYQSPTDEK ddPTM_HeLa_SAHA_4h_R1 1 TLEVVSPSQSVTGSAGHTPYYQSPTDEK 28 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.001)LEVVS(0.329)PS(0.329)QS(0.329)VT(0.002)GS(0.003)AGHT(0.007)PYYQSPTDEK 105.9 1.92E-07 7693300 1209.5 1693 496.99 1527.8 2349.5 3897.5 1718.2 1882.4 2080.5 1377.8 TRUE FALSE FALSE 1336.720759 1747.854311 564.717209 1557.372778 2169.481818 3565.411073 1524.863614 1834.250934 2066.021631 1437.203701 0.930084412 1.216149325 0.392927745 1.083613114 1.509515886 2.480797309 1.060993381 1.276263715 1.437528744 1 10.48904884 -5.779350163 4.316555731 0.942829807 1.616445858 0.300098332 0.425005206 0.156052494 6.718262349 0.056319102 0.109180631 1.66E-06 5.779350163 0.67361605 TLEVVSPS(ph)QSVTGSAGHTPYYQSPTDEK ddPTM_HeLa_SAHA_4h_R1 1 TLEVVSPSQSVTGSAGHTPYYQSPTDEK 28 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 TLEVVS(0.037)PS(0.676)QS(0.267)VT(0.011)GS(0.009)AGHTPYYQSPTDEK 112.91 8.03E-08 8832800 492.04 1105.2 370.2 969.61 1645.2 2495.7 1078.5 1332.8 1294 1185.8 TRUE FALSE FALSE 543.7950248 1141.009205 420.6489281 988.3782036 1519.145131 2283.05232 957.1443415 1298.708906 1284.994949 1236.925641 0.43963437 0.922455778 0.340076165 0.799060324 1.22816205 1.845747427 0.77380912 1.049949053 1.038861922 1 10.27254306 -5.795542013 5.111318691 0.713626367 1.238684279 0.326785973 0.32684199 0.163200035 10.38953318 0.050250985 0.094870437 1.60E-06 5.795542013 0.525057913 TLEVVSPSQS(ph)VTGSAGHTPYYQSPTDEK ddPTM_HeLa_SAHA_4h_R1 1 TLEVVSPSQSVTGSAGHTPYYQSPTDEK 28 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.001)LEVVS(0.056)PS(0.297)QS(0.443)VT(0.023)GS(0.181)AGHTPYYQSPTDEK 141.14 2.56E-10 9669400 375.38 779.37 326.25 802.08 1008.9 1721.3 693.57 943.65 1102.1 620.48 TRUE FALSE FALSE 414.8641907 804.6220994 370.709651 817.6054182 931.5983 1574.635556 615.5276782 919.5127994 1094.430396 647.2319294 0.640982269 1.243174298 0.572761686 1.263234061 1.43935776 2.432876817 0.951015626 1.420685164 1.690940058 1 9.338138971 -5.972903612 3.084071731 0.846365658 1.578425534 0.170352634 0.467815141 0.178299516 3.493044396 0.057078189 0.106226538 1.06E-06 5.972903612 0.732059876 TLEVVSPSQSVTGS(ph)AGHTPYYQSPTDEK ddPTM_HeLa_SAHA_4h_R1 1 TLEVVSPSQSVTGSAGHTPYYQSPTDEK 28 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 TLEVVS(0.008)PS(0.133)QS(0.133)VT(0.026)GS(0.698)AGHT(0.001)PYYQSPTDEK 106.62 1.80E-07 6616300 359.58 1128.5 279.7 743.04 1233.7 1873.4 978.33 1216.7 943.99 963.52 TRUE FALSE FALSE 397.4022742 1165.06414 317.8160594 757.4226137 1139.174173 1713.775781 868.2457336 1185.578576 937.4206967 1005.062063 0.395400731 1.159196217 0.316215357 0.753607804 1.133436645 1.705144234 0.863872756 1.17960733 0.932699314 1 9.973068875 -5.727333563 4.538579326 0.713057682 1.239525492 0.346699898 0.308633672 0.171115273 7.980351666 0.048177637 0.096242496 1.87E-06 5.727333563 0.52646781 TLFPLIEAK ddPTM_HeLa_SAHA_4h_R1 2 TLFPLIEAK 9 0 P13010 P13010 XRCC5 X-ray repair cross-complementing protein 5 0 0 ; ; 128.36 0.0024757 1832930 1830.02 1798.42 1824.29 1827.64 1595.9 1352.54 1885.28 965.21 875.62 1397.19 FALSE FALSE TRUE 2022.5099 1856.689988 2072.894741 1863.016615 1473.622487 1237.295983 1673.143333 940.5213258 869.5264891 1457.429699 1.387723814 1.273948232 1.422294841 1.27828918 1.011110511 0.848957575 1.148009632 0.645328778 0.59661642 1 10.50921058 -5.605973146 4.313288391 1.220392948 0.909837854 0.171270068 0.253759796 0.183869559 6.406507582 0.028422088 0.058880698 2.48E-06 5.605973146 -0.310555095 TLFPLIEAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 TLFPLIEAKK 10 1 P13010 P13010 XRCC5 X-ray repair cross-complementing protein 5 0 1 ; TLFPLIEAK(1)K;TLFPLIEAK(1)K 130.98 0.00041612 485640 331.4 511.65 173.861 267.08 549.74 394.11 613.63 234.65 203.737 345.11 FALSE TRUE FALSE 366.2581725 528.2277957 197.5538717 272.2497196 507.61904 360.5296108 544.5827374 228.6479928 202.3191776 359.989381 1.017413823 1.467342715 0.548776942 0.756271529 1.410094483 1.001500683 1.512774449 0.635152048 0.562014293 1 8.49181054 -5.765074045 24.99973296 0.99264048 1.156631409 0.069178238 0.339326092 213.4125298 1467893.912 0.042337453 0.078960784 1.72E-06 5.765074045 0.163990929 TLFPLIEAKK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 TLFPLIEAKKK 11 2 P13010 P13010 XRCC5 X-ray repair cross-complementing protein 5 0 1 TLFPLIEAK(0.255)K(0.745)K 89.266 0.011804 757720 548.58 443.12 594.48 483.77 656.19 363.58 609.54 216.75 195.46 469.98 FALSE TRUE FALSE 606.2821614 457.4773787 675.4926385 493.1340679 605.912864 332.6009386 540.952955 211.2058489 194.0997779 490.2431378 1.236696885 0.933164268 1.377872705 1.005896931 1.23594359 0.678440784 1.103438097 0.430818573 0.395925538 1 8.937353626 -4.013686755 0.950713479 1.114668225 1.19E-13 0.151557819 0.295005404 1.904751061 0.957022668 0.027251112 2.432267823 9.69E-05 4.013686755 -1.114668225 TLGPVMYGK(ac)LPR ddPTM_HeLa_SAHA_4h_R1 1 TLGPVMYGKLPR 12 1 Q6ZRI6-2;Q6ZRI6;H3BN41;H3BRS2;H3BT66 Q6ZRI6-2 C15orf39 Uncharacterized protein C15orf39 0 1 TLGPVMYGK(1)LPR 136.96 0.00030666 2556700 170.01 255 111.11 304.71 525.99 279.73 434.19 418.35 211.77 60.548 FALSE TRUE FALSE 187.8924318 263.2621673 126.2514922 310.6081027 485.6887598 255.8954303 385.3337985 407.6492128 210.2962753 63.15852059 2.974934024 4.168276344 1.998962151 4.917912892 7.689995827 4.051637497 6.101058018 6.45438191 3.329658031 1 5.980905473 -6.497121842 0.269232182 0.645485406 7.610910384 0.522765366 1.359189294 1.033081266 0.182081889 1.175016273 2.605404503 3.18E-07 6.497121842 6.965424978 TLGT(ph)PTQPGSTPR ddPTM_HeLa_SAHA_4h_R1 4 TLGTPTQPGSTPR 13 0 Q8NFH5-2;Q8NFH5;Q8NFH5-3 Q8NFH5-2 NUP35 Nucleoporin NUP53 1 0 T(0.079)LGT(0.834)PT(0.084)QPGS(0.001)T(0.002)PR;T(0.213)LGT(0.531)PT(0.256)QPGSTPR;T(0.14)LGT(0.819)PT(0.04)QPGSTPR;T(0.016)LGT(0.982)PT(0.003)QPGSTPR ;;; 144.51 0.00043589 57916700 8902.1 8796.8 8205.4 9303.4 9022.4 10118.2 9935.7 9662.4 9946.7 8714.8 TRUE FALSE FALSE 9838.463722 9081.822092 9323.58918 9483.48076 8331.105661 9256.072437 8817.708887 9415.249799 9877.480105 9090.537677 1.082275226 0.999041246 1.025636713 1.043225505 0.916459065 1.018209567 0.969987607 1.035719793 1.086567204 1 13.15014991 TLHCEGTEINS(ph)DDEQESK ddPTM_HeLa_SAHA_4h_R1 1 TLHCEGTEINSDDEQESK 18 0 Q9BPX3;H0Y9Z8 Q9BPX3 NCAPG Condensin complex subunit 3 1 0 TLHCEGTEINS(1)DDEQESK 217.33 6.86E-22 26044000 2369.1 2399.3 1693.9 2404.9 2788.1 347.8 2755 2509.4 3577.1 2604.9 TRUE FALSE FALSE 2618.292808 2477.038894 1924.735871 2451.450317 2574.47638 318.1654833 2445.000149 2445.213182 3552.20667 2717.209987 0.963596049 0.91161114 0.708350065 0.902193915 0.947470528 0.117092711 0.899820095 0.899898496 1.307299284 1 11.40791035 -6.637237487 0.807923818 0.991343972 0.70141348 0.254112642 0.247350526 0.672392239 0.880407938 0.046546772 0.082703147 2.31E-07 6.637237487 -0.289930493 TLHCEGTEINS(ph)DDEQESKEVEETATAK ddPTM_HeLa_SAHA_4h_R1 4 TLHCEGTEINSDDEQESKEVEETATAK 27 1 Q9BPX3;H0Y9Z8 Q9BPX3 NCAPG Condensin complex subunit 3 1 0 TLHCEGTEINS(1)DDEQESKEVEETATAK;TLHCEGT(0.02)EINS(0.98)DDEQESKEVEETATAK;TLHCEGTEINS(0.999)DDEQES(0.001)KEVEETATAK;TLHCEGT(0.067)EINS(0.931)DDEQES(0.001)KEVEETATAK ;;; 122.47 1.63E-08 320327600 6962.43 6935.8 5837.2 6993.5 7736.3 902.83 7993.5 9046.8 6399.63 7407.4 TRUE FALSE FALSE 7694.770332 7160.524471 6632.663217 7128.869305 7143.546365 825.9038048 7094.050342 8815.395956 6355.094454 7726.769265 0.995858692 0.926716487 0.85840058 0.922619669 0.924519177 0.106888633 0.918113392 1.140890281 0.822477576 1 12.9156496 -6.206147815 1.245782611 0.992846007 0.747156506 0.048687672 0.258317292 0.645227835 1.972646876 0.042224613 0.085177996 6.22E-07 6.206147815 -0.245689501 TLHCEGTEINSDDEQES(ph)KEVEETATAK ddPTM_HeLa_SAHA_4h_R1 1 TLHCEGTEINSDDEQESKEVEETATAK 27 1 Q9BPX3;H0Y9Z8 Q9BPX3 NCAPG Condensin complex subunit 3 1 0 TLHCEGT(0.003)EINS(0.224)DDEQES(0.773)KEVEETATAK 119.28 3.46E-08 76112000 1117.4 1081.7 1129.6 1425.1 1385.6 135.52 1714.5 1548.7 1143.8 1237 TRUE FALSE FALSE 1234.933259 1116.74779 1283.536005 1452.684871 1279.435627 123.9729336 1521.579948 1509.086496 1135.840203 1290.333124 0.957065456 0.865472465 0.994732276 1.125821576 0.991554509 0.096078238 1.179214824 1.169532479 0.880268964 1 10.33352786 -5.427926209 19.66899937 0.983659795 0.800139894 0.058875802 0.286692061 17.63366896 3646.562342 0.039018852 0.087248936 3.73E-06 5.427926209 -0.1835199 TLHLQTGNLLNWGR ddPTM_HeLa_SAHA_4h_R1 2 TLHLQTGNLLNWGR 14 0 P48507;P48507-2 P48507 GCLM Glutamate--cysteine ligase regulatory subunit 0 0 ; ; 200.76 4.77E-24 12523700 2512.2 2082.2 2443.6 2765.9 2768.4 448.22 3235.2 1129.21 1504.99 2295.7 FALSE FALSE TRUE 2776.444722 2149.664646 2776.601082 2819.437994 2556.28579 410.0291344 2871.166781 1100.326443 1494.516652 2394.678862 1.159422571 0.897683894 1.159487866 1.17737624 1.067485846 0.171225103 1.198977795 0.459488101 0.624098987 1 11.22561648 -5.458570608 24.99994575 1.077506471 0.660562823 0.265432899 0.289326815 151.6846852 58967.38767 0.031875337 0.07127537 3.48E-06 5.458570608 -0.416943647 TLHPAVHAGILAR ddPTM_HeLa_SAHA_4h_R1 2 TLHPAVHAGILAR 13 0 P31939-2;P31939;C9JLK0 P31939-2 ATIC Bifunctional purine biosynthesis protein PURH;Phosphoribosylaminoimidazolecarboxamide formyltransferase;IMP cyclohydrolase 0 0 ; ; 110.93 0.0011043 10765900 5750.7 4954.6 4687.7 6072.7 7018.7 1003.98 7611.7 4240 5489 5844.6 FALSE FALSE TRUE 6355.585011 5115.132291 5326.515344 6190.24589 6480.928722 918.4352558 6755.211483 4131.546939 5450.801602 6096.589309 1.042482065 0.839015396 0.873687741 1.015362127 1.06304171 0.150647388 1.108031252 0.677681689 0.894073936 1 12.57378665 TLHPDLGTDKDK(ac)EQWK ddPTM_HeLa_SAHA_4h_R1 2 TLHPDLGTDKDKEQWK 16 2 P00338-3;P00338;P00338-2;P00338-5;P00338-4 P00338-3 LDHA L-lactate dehydrogenase A chain 0 1 ; TLHPDLGTDK(0.029)DK(0.971)EQWK;TLHPDLGTDK(0.357)DK(0.643)EQWK 75.669 0.0060693 22303000 7620.4 21049 10090.9 10250.8 18623.9 4252.1 21762.9 11985.8 17599.3 6078.3 FALSE TRUE FALSE 8421.948636 21731.00141 11466.0353 10449.21906 17196.94081 3889.797158 19314.08122 11679.22059 17476.82504 6340.365259 1.328306539 3.427405287 1.808418732 1.64804686 2.712294971 0.61349733 3.046209552 1.842042235 2.756438206 1 12.63035024 -7.492638585 21.32293914 1.144837416 2.138497538 0 0.905301499 59.19541594 41741.41066 0.120299056 0.13158374 3.22E-08 7.492638585 0.993660122 TLHSDDEGTVLDDSR ddPTM_HeLa_SAHA_4h_R1 1 TLHSDDEGTVLDDSR 15 0 E9PMH2;O00170 E9PMH2 AIP AH receptor-interacting protein 0 0 199.33 2.50E-12 6307800 1653.3 1486.3 1445 1721.8 1602.8 448.6 1803.8 1437.2 1390.2 1495.4 FALSE FALSE TRUE 1827.20168 1534.457095 1641.917075 1755.127929 1479.99381 410.3767562 1600.831677 1400.438505 1380.525485 1559.874012 1.17137773 0.983705788 1.052595954 1.125172876 0.948790607 0.26308327 1.026257034 0.897789497 0.88502371 1 10.6072138 -5.513353523 24.90494589 1.073589782 0.733293362 0.313422679 0.198922099 318.7629717 833446.496 0.026537054 0.055604389 3.07E-06 5.513353523 -0.34029642 TLIGFLR ddPTM_HeLa_SAHA_4h_R1 2 TLIGFLR 7 0 E5RH18;E5RJ47;O15116 E5RH18 LSM1 U6 snRNA-associated Sm-like protein LSm1 0 0 ; ; 128.75 0.00072192 14184800 3517.7 3659.6 7403.6 6025.6 5380.5 2761.5 5216.3 1594.48 1593.5 2876.2 FALSE FALSE TRUE 3887.707826 3778.173441 8412.524052 6142.234201 4968.247252 2526.204664 4629.348195 1553.69551 1582.410704 3000.207058 1.295813173 1.259304231 2.803981155 2.047270099 1.655968124 0.842010106 1.543009568 0.517862761 0.527433831 1 11.55084636 -5.251926139 24.61390548 1.379514683 1.02516571 0.109056652 0.632615431 1406.45212 3638945.78 0.09176897 0.230552352 5.60E-06 5.251926139 -0.354348973 TLK(ac)IPAMTIAK ddPTM_HeLa_SAHA_4h_R1 4 TLKIPAMTIAK 11 1 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 1 ;;; TLK(1)IPAMTIAK;TLK(1)IPAMTIAK;TLK(1)IPAMTIAK;TLK(1)IPAMTIAK 126.66 0.00099681 9719000 5242.94 9290 10433.6 6653.8 9473.3 4156.48 11529.5 3440.23 1783.44 4186.35 FALSE TRUE FALSE 5794.416485 9591.002095 11855.43667 6782.593921 8747.457801 3802.32452 10232.17032 3352.233898 1771.028896 4366.844036 1.326911709 2.196323481 2.714875222 1.553202694 2.003153245 0.870725973 2.343149934 0.767655971 0.405562663 1 12.09237529 -7.479813922 4.396747223 1.137212609 1.801932872 0.271804275 0.623259676 0.235633892 9.325504675 0.097997158 0.108655018 3.31E-08 7.479813922 0.664720263 TLLAK(ac)NLPYK ddPTM_HeLa_SAHA_4h_R1 2 TLLAKNLPYK 10 1 P19338 P19338 NCL Nucleolin 0 1 ; TLLAK(1)NLPYK;TLLAK(1)NLPYK 193.82 5.14E-19 2354600 2431.3 2203.5 2930.9 2445.3 2795.4 1998.67 3010.5 1475.42 898.51 1497.49 FALSE TRUE FALSE 2687.035289 2274.894846 3330.307789 2492.632317 2581.217056 1828.372072 2671.750617 1437.680893 892.2571958 1562.054122 1.720193462 1.456348287 2.132005377 1.595740046 1.652450462 1.17049214 1.71040848 0.920378412 0.571207606 1 10.60922873 -9.356703335 1.048903028 0.995937079 1.570452425 0.404570864 0.342406424 0.492605169 0.958814801 0.211031546 0.053367514 4.40E-10 9.356703335 0.574515346 TLLEEEYFR ddPTM_HeLa_SAHA_4h_R1 1 TLLEEEYFR 9 0 A0A087WWJ1;A0A494C0M1;P52701-2;P52701;P52701-3;P52701-4 A0A087WWJ1 MSH6 DNA mismatch repair protein Msh6 0 0 126.24 0.015901 2573200 736.03 535.71 470.95 506.58 747.48 798.75 645.29 707.93 670.45 576.62 FALSE FALSE TRUE 813.4490124 553.0673555 535.1286134 516.3855884 690.2082439 730.6920064 572.6802709 689.8221757 665.7842839 601.4809101 1.352410357 0.919509408 0.889685116 0.858523653 1.147514796 1.214821608 0.952117118 1.146872933 1.10690842 1 9.232375139 -7.237798995 24.98321571 1.166416023 1.017299861 0.162225513 0.139246723 1170.757667 1237260.809 0.028905419 0.03539187 5.78E-08 7.237798995 -0.149116163 TLLISSLS(ph)PALPAEHLEDR ddPTM_HeLa_SAHA_4h_R1 2 TLLISSLSPALPAEHLEDR 19 0 Q8NDT2 Q8NDT2 RBM15B Putative RNA-binding protein 15B 1 0 TLLIS(0.001)S(0.019)LS(0.98)PALPAEHLEDR;TLLIS(0.004)S(0.055)LS(0.942)PALPAEHLEDR ; 125.37 1.17E-06 2398700 1738.95 2023.61 1818.78 2371.12 2362.75 2263.71 2453.31 2268.92 2475.64 2369.91 TRUE FALSE FALSE 1921.86074 2089.176292 2066.633867 2417.016456 2181.716605 2070.829173 2177.257102 2210.884312 2458.41182 2472.088418 0.777423949 0.845105813 0.835987035 0.977722495 0.882539876 0.837684104 0.880735934 0.894338688 0.994467593 1 11.27151463 -9.565839179 1.36130082 0.99951484 0.856638469 0.518578863 0.04962065 0.30416566 1.015733464 0.03938251 0.009390257 2.72E-10 9.565839179 -0.142876371 TLLLMS(ph)FTK ddPTM_HeLa_SAHA_4h_R1 1 TLLLMSFTK 9 0 F8WE24;P48553-2;P48553 F8WE24 TRAPPC10 Trafficking protein particle complex subunit 10 1 0 TLLLMS(0.9)FT(0.1)K 89.752 0.01789 107810000 2693.1 2776.7 2633.2 2803.8 3026.4 3515.7 3155.7 2875.9 2956.7 2622.3 TRUE FALSE FALSE 2976.372614 2866.666902 2992.038783 2858.071603 2794.517886 3216.142581 2800.612331 2802.338642 2936.124084 2735.360186 1.088109942 1.048003446 1.09383722 1.044861155 1.021627024 1.175765662 1.023855046 1.024486156 1.073395781 1 11.4175151 -9.406415225 1.060207217 0.998875042 1.06750498 0 0.049565437 0.604461126 1.183117591 0.031759517 0.007547903 3.92E-10 9.406415225 0.068629937 TLLQGSGCLAGIYLEDTKEK ddPTM_HeLa_SAHA_4h_R1 1 TLLQGSGCLAGIYLEDTKEK 20 1 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 163.53 5.89E-12 409620 0 78.537 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 81.08165033 0 0 0 0 0 0 0 0 0 TLLSESSSQSSKS(ph)PSLSSK ddPTM_HeLa_SAHA_4h_R1 1 TLLSESSSQSSKSPSLSSK 19 1 Q9UPU5 Q9UPU5 USP24 Ubiquitin carboxyl-terminal hydrolase 24 1 0 T(0.01)LLS(0.004)ES(0.015)S(0.015)S(0.004)QS(0.004)S(0.005)KS(0.757)PS(0.171)LS(0.012)S(0.003)K 76.796 0.003361 34153000 2432 2923.4 2532.3 2363.7 2598.3 3419.8 3275.6 2796.5 2264 2500.2 TRUE FALSE FALSE 2687.808918 3018.120078 2877.388656 2409.452831 2399.218815 3128.413801 2907.020867 2724.969579 2248.24464 2607.995858 1.030603216 1.157256469 1.103294949 0.923871418 0.919947326 1.199547074 1.114657011 1.044851958 0.862058363 1 11.34872586 -1.168827025 0.009829635 1.65E-08 2.23578983 0.157027648 0.09623573 21687.37498 17.10097735 1689.406449 2236.580446 0.067791146 1.168827025 2.235789814 TLLSESSSQSSKSPS(ph)LSSK ddPTM_HeLa_SAHA_4h_R1 2 TLLSESSSQSSKSPSLSSK 19 1 Q9UPU5 Q9UPU5 USP24 Ubiquitin carboxyl-terminal hydrolase 24 1 0 TLLSES(0.002)S(0.002)S(0.001)QS(0.034)S(0.049)KS(0.185)PS(0.651)LS(0.067)S(0.009)K;T(0.002)LLS(0.008)ES(0.006)S(0.006)S(0.006)QS(0.006)S(0.013)KS(0.295)PS(0.581)LS(0.071)S(0.007)K ; 60.093 0.012983 36642700 3489 3910.6 3459.6 3725.6 4326.9 4589 4063.1 4268.4 3381.8 4077.2 TRUE FALSE FALSE 3855.989028 4037.306006 3931.056271 3797.714375 3995.373857 4197.991383 3605.909295 4159.220509 3358.265778 4252.988045 0.906654095 0.94928694 0.924304566 0.892952046 0.939427483 0.9870687 0.847853146 0.977952551 0.789625022 1 12.05426108 -9.37952094 0.976263575 1.002360348 0.925661254 0 0.07599128 0.503526754 0.815436525 0.0282902 0.00643994 4.17E-10 9.37952094 -0.076699094 TLLTGDGGGEATGS(ph)PLAQGK ddPTM_HeLa_SAHA_4h_R1 1 TLLTGDGGGEATGSPLAQGK 20 0 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;J3KSW8;Q6WCQ1-3;H0Y2S9;H0Y7E2 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 TLLTGDGGGEAT(0.085)GS(0.915)PLAQGK 279.12 1.90E-77 12585000 1562.1 1618.2 1229 1234.4 1365 1792.4 1449.9 1275.9 1581.2 1571.7 TRUE FALSE FALSE 1726.408845 1670.630742 1396.48172 1258.293597 1260.413995 1639.677436 1286.753436 1243.264325 1570.1963 1639.463679 1.053032688 1.019010524 0.851791801 0.767503186 0.768796535 1.000130383 0.784862423 0.758335998 0.957749977 1 10.67900822 -6.72984099 4.399186773 1.025858077 0.821026089 0.626002441 0.070052196 0.08938558 3.89913802 0.010818617 0.015132178 1.86E-07 6.72984099 -0.204831989 TLMLPLTEGS(ph)LR ddPTM_HeLa_SAHA_4h_R1 1 TLMLPLTEGSLR 12 0 Q7L4E1-3;Q7L4E1 Q7L4E1-3 FAM73B Protein FAM73B 1 0 TLMLPLT(0.005)EGS(0.995)LR 84.365 0.017631 9136700 2632.9 3088.5 2385.5 2335.9 3242.7 3096.7 3270.1 3100.1 2212.8 2922.8 TRUE FALSE FALSE 2909.840502 3188.569426 2710.583517 2381.114722 2994.245027 2832.843738 2902.139742 3020.803931 2197.400945 3048.816212 0.954416501 1.045838517 0.889060976 0.780996478 0.982100861 0.929161859 0.951890681 0.99081208 0.720739065 1 11.57403347 -6.741546542 24.95134618 0.982925326 0.918919032 0 0.102015074 290.837912 364793.6608 0.009609099 0.013578556 1.81E-07 6.741546542 -0.064006294 TLMMNT(ph)LYKLHDR ddPTM_HeLa_SAHA_4h_R1 1 TLMMNTLYKLHDR 13 1 Q9Y2U8 Q9Y2U8 LEMD3 Inner nuclear membrane protein Man1 1 0 T(0.021)LMMNT(0.949)LY(0.03)KLHDR 51.286 0.0086955 0 476.54 580.65 386.5 645.17 687.61 919.08 843.08 911.31 896.24 550.53 TRUE FALSE FALSE 526.6646636 599.463441 439.1702072 657.6581983 634.9254704 840.7692134 748.2144195 888.0000098 890.0029929 574.2660425 0.917109187 1.04387757 0.764750437 1.145215196 1.105629488 1.464076144 1.30290556 1.546321642 1.549809543 1 9.165575445 -5.481784228 1.485831807 0.955908856 1.447266864 0.307351507 0.214749572 0.121541498 0.518954143 0.014541169 0.044700076 3.30E-06 5.481784228 0.491358008 TLMNLGGLAVAR ddPTM_HeLa_SAHA_4h_R1 2 TLMNLGGLAVAR 12 0 P37802;P37802-2;X6RJP6 P37802 TAGLN2 Transgelin-2 0 0 ; ; 144.55 0.00017109 3871000 707.11 627.49 932.42 576.91 698.8 358.975 748.78 361.07 167.21 566.62 FALSE FALSE TRUE 781.4870741 647.8210877 1059.485342 588.0769273 645.258095 328.3883105 664.5253037 351.8343522 166.046372 591.0497612 1.322201827 1.096051687 1.792548464 0.994970248 1.091715347 0.555601799 1.124313632 0.595270272 0.280934674 1 9.207135787 -5.544054227 2.756820283 1.195184419 0.795850205 0.077950797 0.389015842 0.251630529 3.857280908 0.038647781 0.089037062 2.86E-06 5.544054227 -0.399334214 TLNAET(ph)PKSS(ph)PLPAK ddPTM_HeLa_SAHA_4h_R1 1 TLNAETPKSSPLPAK 15 1 Q7L2J0 Q7L2J0 MEPCE 7SK snRNA methylphosphate capping enzyme 2 0 TLNAET(0.982)PKS(0.17)S(0.848)PLPAK 131.82 0.0015093 8676600 2207.9 1920.9 1690.7 1944.8 1478.1 1787 1601.6 1565.2 2074 2160.2 TRUE FALSE FALSE 2440.137052 1983.13842 1921.099791 1982.444416 1364.848297 1634.737547 1421.383753 1525.16445 2059.566865 2253.336794 1.082899396 0.880089663 0.85255777 0.879781674 0.605700977 0.725474128 0.630790638 0.676847089 0.91400756 1 11.13784725 -6.360283425 0.935774931 1.038394302 0.654579322 0.759726742 0.074261125 0.136969404 0.238245892 0.012282952 0.025104584 4.36E-07 6.360283425 -0.38381498 TLNAETPKSS(ph)PLPAK ddPTM_HeLa_SAHA_4h_R1 3 TLNAETPKSSPLPAK 15 1 Q7L2J0 Q7L2J0 MEPCE 7SK snRNA methylphosphate capping enzyme 1 0 TLNAETPKS(0.323)S(0.677)PLPAK;TLNAET(0.005)PKS(0.235)S(0.759)PLPAK;TLNAET(0.001)PKS(0.127)S(0.872)PLPAK ;; 182.35 5.15E-07 25811600 4767.8 4956.89 4374.54 4702.2 4308.54 4752.88 4806.56 4036.09 3807.85 4464.15 TRUE FALSE FALSE 5269.299079 5117.496488 4970.67953 4793.21788 3978.420596 4347.907885 4265.713219 3932.852662 3781.350862 4656.621354 1.1315713 1.098972001 1.067443357 1.029333827 0.854357762 0.933704408 0.91605327 0.84457214 0.812037435 1 12.18506786 -5.872112495 4.725820477 1.066669795 0.892970665 0.296250457 0.089932643 0.091962532 3.432664559 0.008283049 0.015374801 1.34E-06 5.872112495 -0.17369913 TLNDELEIIEGMK ddPTM_HeLa_SAHA_4h_R1 4 TLNDELEIIEGMK 13 0 P10809;E7EXB4;E7ESH4 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ;;; ;;; 278.35 4.68E-55 35690330 4225.26 3888.01 3234.92 3781.58 3729.04 4877.67 4705.61 4303.32 5514.8 4020.32 FALSE FALSE TRUE 4669.692233 4013.984075 3675.758051 3854.777949 3443.321761 4462.065075 4176.122378 4193.247306 5476.422058 4193.65567 1.113513507 0.957156331 0.876504496 0.919192765 0.821078799 1.064003682 0.995819091 0.999902623 1.305882621 1 12.0339927 -7.148250185 6.994163829 1.05348032 0.944530976 0.332804452 0.105211827 0.236230281 13.12450329 0.012839644 0.015753057 7.11E-08 7.148250185 -0.108949344 TLNMTTS(ph)PEEK ddPTM_HeLa_SAHA_4h_R1 4 TLNMTTSPEEK 11 0 P49915-2;P49915 P49915-2 GMPS GMP synthase [glutamine-hydrolyzing] 1 0 TLNMT(0.001)T(0.078)S(0.922)PEEK;TLNMT(0.028)T(0.422)S(0.549)PEEK;TLNMT(0.035)T(0.228)S(0.737)PEEK;TLNMT(0.095)T(0.365)S(0.54)PEEK ;;; 195.71 2.26E-07 214345000 13789.3 13519.3 13054.6 13561.8 15584 15977.3 15375.8 14623.2 14786.5 13313.3 TRUE FALSE FALSE 15239.72184 13957.33419 14833.6129 13824.30825 14389.95729 14615.94415 13645.67452 14249.15972 14683.59954 13887.30152 1.097385394 1.005042929 1.068142208 0.995463966 1.036195352 1.052468267 0.982600867 1.026056769 1.057340011 1 13.76147867 -6.26247589 24.99999984 1.044943987 1.019423342 0.148928325 0.032250881 213.4018541 5147238.421 0.006295926 0.010009623 5.46E-07 6.26247589 -0.025520644 TLPANRS(ph)SPSGASSPR ddPTM_HeLa_SAHA_4h_R1 1 TLPANRSSPSGASSPR 16 1 A0A499FJI4;O75592-2;O75592 A0A499FJI4 MYCBP2 E3 ubiquitin-protein ligase MYCBP2 1 0 TLPANRS(0.5)S(0.5)PS(0.001)GASSPR 105.19 0.011667 2487900 320.02 332.22 374.96 276.8 394.74 336.72 449.53 515.14 343.53 339.66 TRUE FALSE FALSE 353.6811719 342.984146 426.0575961 282.1578643 364.4951065 308.0295617 398.9477013 501.9634647 341.1393468 354.3044049 0.998240968 0.968049342 1.202518485 0.796371313 1.02876256 0.869392414 1.126002657 1.416757618 0.962842522 1 8.468845592 -4.353492247 3.135732236 0.992099197 1.442075817 0.631856137 0.101296254 0.127559902 1.977781949 0.012413905 0.122584854 4.43E-05 4.353492247 0.44997662 VKEGNGTSNSTLSGPGLDSKPGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 VKEGNGTSNSTLSGPGLDSKPGKR 24 3 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 0 1 ; VKEGNGTSNSTLSGPGLDSK(0.19)PGK(0.81)R;VKEGNGTSNSTLSGPGLDSK(0.049)PGK(0.951)R 122.35 6.64E-08 5641600 359.76 418.26 305.43 513.45 853.08 911.21 904.13 1271.22 460.41 482.62 FALSE TRUE FALSE 397.6012074 431.8118984 347.0524098 523.3885672 787.7171947 833.5697817 802.3949129 1238.704033 457.2059693 503.4281101 0.789787458 0.857742923 0.68937829 1.039649071 1.564706418 1.655787122 1.593861957 2.460538075 0.908185221 1 8.975641965 -4.666420275 0.669511842 0.873620525 2.74910809 0.87064214 0.188627458 0.539078454 0.227555827 0.035694744 0.689410591 2.16E-05 4.666420275 1.875487565 up TLQIFNIEMK ddPTM_HeLa_SAHA_4h_R1 2 TLQIFNIEMK 10 0 A0A087WVQ6;Q00610-2;Q00610;J3KS13;A0A087WX41;P53675-2;P53675;J3KSQ2;F5H5N6 A0A087WVQ6 CLTC;CLTCL1 Clathrin heavy chain;Clathrin heavy chain 1;Clathrin heavy chain 2 0 0 ; ; 175.15 1.68E-11 864020 314.64 295.1 292.92 790.48 554.39 690.92 589.43 274.64 297.78 362.34 FALSE FALSE TRUE 347.7352788 304.6614336 332.8376121 805.7808835 511.912758 632.049729 523.1057851 267.6151065 295.7077247 377.9622506 0.920026479 0.806063127 0.880610727 2.131908364 1.354401814 1.672256232 1.384015955 0.708047182 0.782373701 1 8.562098341 TLQNTS(ph)SEGSR ddPTM_HeLa_SAHA_4h_R1 1 TLQNTSSEGSR 11 0 Q06787-8;Q06787-5;Q06787-9;Q06787-3;Q06787 Q06787-8 FMR1 Fragile X mental retardation protein 1 1 0 TLQNT(0.077)S(0.892)S(0.031)EGSR 128.57 0.0014682 8805400 1570.5 1616.8 1057.5 1777.1 1928.8 2818.9 2208.7 1899.2 2145.8 2158.7 TRUE FALSE FALSE 1735.692396 1669.185381 1201.610593 1811.49834 1781.015761 2578.713861 1960.171263 1850.621214 2130.867203 2251.772121 0.770811744 0.741276333 0.533628861 0.80447676 0.790939609 1.145193084 0.870501613 0.82185102 0.94630677 1 11.13684512 -4.247118133 19.03238252 0.859136236 0.821850442 0 0.156423995 774.2228197 1028351.584 0.023759602 0.474979853 5.66E-05 4.247118133 -0.037285795 TLQPPES(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 TLQPPESPR 9 0 Q86UU1-3;Q86UU1-2;Q86UU1 Q86UU1-3 PHLDB1 Pleckstrin homology-like domain family B member 1 1 0 TLQPPES(1)PR 115.92 0.0044667 50454000 2819.5 3384.1 3294.7 3217.2 3536.3 3715.9 3523.5 3278.2 3687.7 3036.6 TRUE FALSE FALSE 3116.067946 3493.74706 3743.684558 3279.473558 3265.349458 3399.284415 3127.026507 3194.348391 3662.036995 3167.522687 0.983755526 1.102990383 1.181896683 1.035343353 1.030884316 1.073168135 0.987215189 1.008468986 1.156120211 1 11.62913924 -7.281204567 24.22228321 0.992328995 1.060323417 0 0.072972453 561.2435641 687803.3191 0.009330892 0.010678928 5.23E-08 7.281204567 0.067994422 TLQQNAESR ddPTM_HeLa_SAHA_4h_R1 2 TLQQNAESR 9 0 O95816-2;O95816 O95816-2 BAG2 BAG family molecular chaperone regulator 2 0 0 ; ; 131.52 0.011236 4045000 1290.95 1113.75 1005.43 1304.59 1325.46 1091.84 1295.14 1208.49 940.7 1236.18 FALSE FALSE TRUE 1426.738044 1149.836231 1142.444764 1329.842226 1223.903541 998.8090895 1149.407439 1177.578576 934.1535921 1289.47777 1.106446406 0.891706905 0.885974765 1.031302949 0.949146678 0.774584187 0.891374373 0.913221308 0.724443348 1 10.33257119 -7.250874768 24.77542135 1.050266359 0.905550627 0 0.121467972 409.1028066 959401.059 0.012138716 0.014779787 5.61E-08 7.250874768 -0.144715731 TLQRLS(ph)SGFDDIDLPSAVK ddPTM_HeLa_SAHA_4h_R1 2 TLQRLSSGFDDIDLPSAVK 19 1 Q9Y446;Q9Y446-2;E9PKC4 Q9Y446 PKP3 Plakophilin-3 1 0 T(0.151)LQRLS(0.424)S(0.424)GFDDIDLPSAVK;T(0.002)LQRLS(0.739)S(0.259)GFDDIDLPSAVK ; 116.92 0.00027352 36436800 8036.5 6238.6 6129.7 8480.2 9756.9 8064.1 9529.1 9927 7610.2 7125.9 TRUE FALSE FALSE 8881.815943 6440.734733 6965.023594 8644.346534 9009.32843 7376.993313 8456.860589 9673.081714 7557.239999 7433.132422 1.194895427 0.866489976 0.937024016 1.162948007 1.212050037 0.992447449 1.137725 1.301346615 1.016696538 1 12.85975459 -4.331406335 3.312608052 1.0747279 1.316412954 0.311809079 0.109396624 0.301471963 5.357526542 0.01664525 0.1649746 4.66E-05 4.331406335 0.241685054 TLQTDSIDSFET(ph)QRTPR ddPTM_HeLa_SAHA_4h_R1 1 TLQTDSIDSFETQRTPR 17 1 A0A3B3IS71;P06400 A0A3B3IS71 RB1 Retinoblastoma-associated protein 1 0 TLQTDSIDS(0.01)FET(0.772)QRT(0.218)PR 149.74 0.003765 8425300 1686.4 2069.2 1654.7 1991 2123.5 2255.8 2624.1 2154.4 1937.9 2270.1 TRUE FALSE FALSE 1863.783289 2136.243438 1880.193899 2029.538684 1960.797889 2063.593149 2328.829362 2099.293568 1924.413996 2367.975121 0.787078915 0.902139308 0.794009144 0.857077706 0.828048349 0.871458966 0.983468678 0.886535314 0.812683368 1 11.20943821 -9.523413511 1.279664011 0.999991954 0.856305735 0 0.07838 0.329871375 0.967238511 0.041106075 0.00986052 3.00E-10 9.523413511 -0.143686219 TLQTDSIDSFETQRT(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 TLQTDSIDSFETQRTPR 17 1 A0A3B3IS71;P06400 A0A3B3IS71 RB1 Retinoblastoma-associated protein 1 0 TLQTDSIDSFET(0.016)QRT(0.984)PR;TLQTDSIDSFET(0.01)QRT(0.99)PR;TLQTDSIDSFET(0.001)QRT(0.999)PR ;; 133.86 0.00012698 42548900 3865.4 4120.4 3922 4475.4 5056.3 5521.3 5353.9 5095.1 4391 3834 TRUE FALSE FALSE 4271.980507 4253.903663 4456.469735 4562.027839 4668.887386 5050.854178 4751.465081 4964.77472 4360.442673 3999.302503 1.06818139 1.063661391 1.114311741 1.140705869 1.167425415 1.262933768 1.18807344 1.24141015 1.090300789 1 11.96553269 -6.093997623 0.396316094 1.008610493 1.275589827 0.809765414 0.034281918 0.318498759 0.088371668 0.009626053 0.034231422 8.05E-07 6.093997623 0.266979333 TLRDS(ph)PNVEAAHLAR ddPTM_HeLa_SAHA_4h_R1 1 TLRDSPNVEAAHLAR 15 1 Q9UHF7;Q9UHF7-3;Q9UHF7-2;E5RFF3;E5RJ97;H0YC29 Q9UHF7 TRPS1 Zinc finger transcription factor Trps1 1 0 T(0.014)LRDS(0.986)PNVEAAHLAR 135.95 4.79E-06 0 463.67 701.75 490.18 624.88 587.81 673.63 522.12 684.69 913.74 549.77 TRUE FALSE FALSE 512.440938 724.4871604 556.9791777 636.975456 542.7721248 616.2329343 463.3696835 667.1766212 907.3812089 573.4732752 0.893574226 1.263332036 0.971238245 1.11073259 0.946464549 1.074562601 0.808005714 1.163396186 1.582255439 1 9.163582446 TLS(ph)DDLDEAAKEFQEK ddPTM_HeLa_SAHA_4h_R1 2 TLSDDLDEAAKEFQEK 16 1 A0A087WV29;Q9H0A0-2;Q9H0A0 A0A087WV29 NAT10 N-acetyltransferase 10 1 0 T(0.178)LS(0.822)DDLDEAAKEFQEK;T(0.152)LS(0.848)DDLDEAAKEFQEK ; 85.054 0.0058111 3501500 912.83 699.05 827.61 1225.15 1051.1 1258.56 983.11 1081.54 1176.91 1022.98 TRUE FALSE FALSE 1008.845648 721.6996787 940.3923808 1248.86455 970.5649451 1151.323608 872.4878754 1053.875773 1168.719787 1067.085674 0.945421415 0.676327774 0.881271676 1.170350779 0.909547348 1.078942053 0.8176362 0.98762058 1.095244567 1 10.0594603 TLS(ph)DESIYNSQR ddPTM_HeLa_SAHA_4h_R1 2 TLSDESIYNSQR 12 0 O43166-3;O43166-2;O43166;F5GYF8 O43166-3 SIPA1L1 Signal-induced proliferation-associated 1-like protein 1 1 0 T(0.354)LS(0.644)DES(0.002)IYNSQR;T(0.08)LS(0.916)DES(0.004)IYNSQR ; 195.71 1.72E-07 215620000 2266 2070.37 1885.12 2192.5 2222.12 2489.9 2585.7 2415.56 2513.8 2126.6 TRUE FALSE FALSE 2504.348277 2137.451346 2142.014336 2234.939008 2051.861646 2277.746512 2294.750231 2353.773473 2496.306261 2218.288133 1.128955359 0.963558933 0.96561592 1.007506182 0.924975261 1.026803722 1.034468966 1.061076529 1.125330034 1 11.11523105 -7.240194114 24.97193628 1.060895592 0.996591793 0.350555678 0.051280265 961.5275539 1130191.037 0.010010808 0.012254603 5.75E-08 7.240194114 -0.064303798 TLS(ph)DESLCSGR ddPTM_HeLa_SAHA_4h_R1 2 TLSDESLCSGR 11 0 O60292;M0R2Q7 O60292 SIPA1L3 Signal-induced proliferation-associated 1-like protein 3 1 0 T(0.001)LS(0.807)DES(0.192)LCSGR;T(0.084)LS(0.909)DES(0.007)LCSGR ; 155.47 0.00031752 60069000 3557.4 3496.2 2955.1 3565.6 4433.1 4335.5 3659.6 4263 5272.4 3743 TRUE FALSE FALSE 3931.583654 3609.479174 3357.805639 3634.617344 4093.436836 3966.091009 3247.812176 4153.958633 5235.708939 3904.379048 1.006967716 0.924469456 0.860010157 0.930907911 1.048421986 1.015805833 0.831838338 1.063922991 1.340983771 1 11.93087741 -7.278520245 22.98328694 1.003290316 0.950504394 0.094810288 0.128105352 474.4931474 638456.4292 0.011725771 0.013425739 5.27E-08 7.278520245 -0.052785922 TLS(ph)ESFSR ddPTM_HeLa_SAHA_4h_R1 3 TLSESFSR 8 0 O94921 O94921 CDK14 Cyclin-dependent kinase 14 1 0 T(0.049)LS(0.811)ES(0.14)FSR;T(0.013)LS(0.866)ES(0.12)FSR;T(0.015)LS(0.935)ES(0.05)FSR ;; 97.597 0.0127 15457500 4133.9 4294.9 4312.8 5315.5 4731.5 5079 4875.3 4540.1 4035.7 3645.34 TRUE FALSE FALSE 4568.722569 4434.057578 4900.525924 5418.389189 4368.973492 4646.240626 4326.718413 4423.970816 4007.615235 3802.508447 1.20150228 1.166087502 1.288761351 1.424951256 1.14897141 1.221888312 1.137858988 1.163434842 1.053939864 1 11.89273574 -8.893828237 0.677652401 0.994237405 1.224935931 0.466768295 0.081817845 0.509760433 0.424815907 0.063652504 0.019068786 1.28E-09 8.893828237 0.230698526 TLS(ph)MIEEEIR ddPTM_HeLa_SAHA_4h_R1 7 TLSMIEEEIR 10 0 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 T(0.013)LS(0.987)MIEEEIR;T(0.001)LS(0.999)MIEEEIR;T(0.058)LS(0.942)MIEEEIR;T(0.007)LS(0.993)MIEEEIR;T(0.002)LS(0.998)MIEEEIR;T(0.001)LS(0.999)MIEEEIR;T(0.026)LS(0.974)MIEEEIR ;;;;;; 120.86 0.0052129 116858500 9719.75 11131.91 10267.1 11317.59 13089.28 11739.04 13588.95 13022.22 11095.99 10127.02 TRUE FALSE FALSE 10742.1179 11492.59119 11666.24692 11536.65832 12086.38219 10738.80775 12059.88558 12689.13047 11018.7721 10563.64539 1.016894973 1.087937995 1.104376992 1.092109579 1.144148799 1.01658162 1.141640516 1.201207537 1.043084247 1 13.36682016 -1 0.138941958 0.960470113 1.69138722 0.493102313 0.044431824 35.82710335 0.329623784 0.11933316 5.214018232 0.1 1 0.730917107 TLS(ph)PTPASATAPTSQGIPTS(ph)DEESTPKK ddPTM_HeLa_SAHA_4h_R1 1 TLSPTPASATAPTSQGIPTSDEESTPKK 28 1 Q9NQS7-2;Q9NQS7 Q9NQS7-2 INCENP Inner centromere protein 2 0 T(0.029)LS(0.734)PT(0.237)PASATAPT(0.002)S(0.005)QGIPT(0.238)S(0.738)DEES(0.014)T(0.004)PKK 96.368 2.27E-06 8070900 1184.5 801.97 705.43 908.54 1241.5 1262.9 1351.9 1354 1007.9 1069.1 TRUE FALSE FALSE 1309.091145 827.9543542 801.5623267 926.1261055 1146.376538 1155.293815 1199.780654 1319.366641 1000.885942 1115.194133 1.173868393 0.742430694 0.718764835 0.830461781 1.027961414 1.03595758 1.075849145 1.18308248 0.897499289 1 10.12307916 -4.353658299 1.680040997 1.008372714 1.223298832 0.08017986 0.150545263 1.709772787 5.342754362 0.025972916 0.556184024 4.43E-05 4.353658299 0.214926118 TLS(ph)PTPSAEGYQDVR ddPTM_HeLa_SAHA_4h_R1 4 TLSPTPSAEGYQDVR 15 0 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639;A0A494C1P1;A0A494C1G0;H0Y7N6;F6XFR5 J3QSX6 ABLIM1 Actin-binding LIM protein 1 1 0 T(0.012)LS(0.862)PT(0.123)PS(0.003)AEGYQDVR;T(0.134)LS(0.866)PTPSAEGYQDVR;T(0.088)LS(0.91)PT(0.001)PSAEGYQDVR;T(0.065)LS(0.917)PT(0.017)PS(0.001)AEGYQDVR ;;; 246.77 9.47E-34 573701700 5729.05 6618.08 5512.86 5644.04 7202 7708.1 6370.02 7152.8 6436.6 5376.76 TRUE FALSE FALSE 6331.657765 6832.510134 6264.123851 5753.288556 6650.184316 7051.326515 5653.248585 6969.841733 6391.807177 5608.578437 1.128923815 1.218224941 1.116882633 1.025801568 1.185716557 1.25723953 1.007964611 1.242710931 1.139648353 1 12.45341943 -8.955473372 0.622715113 0.989903339 1.147491601 0.011927754 0.090365207 0.822098278 0.549621783 0.068811427 0.017920978 1.11E-09 8.955473372 0.157588262 TLS(ph)SSAQEDIIR ddPTM_HeLa_SAHA_4h_R1 4 TLSSSAQEDIIR 12 0 Q9H788-2;Q9H788 Q9H788-2 SH2D4A SH2 domain-containing protein 4A 1 0 T(0.004)LS(0.332)S(0.332)S(0.332)AQEDIIR;T(0.027)LS(0.324)S(0.324)S(0.324)AQEDIIR;T(0.049)LS(0.317)S(0.317)S(0.317)AQEDIIR;T(0.192)LS(0.733)S(0.074)S(0.001)AQEDIIR ;;; 211.83 1.96E-15 280899600 3636.52 5586.6 5076.87 2256.79 4660.8 5553.86 6281.15 2877.85 2467.19 4515.29 TRUE FALSE FALSE 4019.025859 5767.609506 5768.719404 2300.473434 4303.690511 5080.639883 5574.378471 2804.238764 2450.020624 4709.966249 0.853302475 1.224554317 1.224789966 0.488426734 0.913741263 1.078699849 1.183528326 0.595384046 0.520177958 1 12.20150101 TLS(ph)TSDDVEDRENEK ddPTM_HeLa_SAHA_4h_R1 1 TLSTSDDVEDRENEK 15 1 Q96A65;Q96A65-2 Q96A65 EXOC4 Exocyst complex component 4 1 0 T(0.008)LS(0.846)T(0.114)S(0.032)DDVEDRENEK 80.316 0.0089317 4549200 382.72 731.73 577.5 298.66 470.77 683.52 693.62 426.58 546.11 587.79 TRUE FALSE FALSE 422.9762456 755.4385321 656.1986925 304.4409962 434.6997043 625.2802506 615.5720521 415.6687013 542.309576 613.1325035 0.689861071 1.232096697 1.070239612 0.496533774 0.708981667 1.019812597 1.003978828 0.677942694 0.884490013 1 9.260055077 TLSASTQDLS(ph)PH ddPTM_HeLa_SAHA_4h_R1 1 TLSASTQDLSPH 12 0 Q6P597;Q6P597-3;Q6P597-2 Q6P597 KLC3 Kinesin light chain 3 1 0 TLS(0.001)AS(0.045)T(0.061)QDLS(0.892)PH 107.06 0.0037177 5727700 2527 2859.8 2228.4 3182.3 3469.7 3773.9 2870.3 4343.7 3330.6 3481.1 TRUE FALSE FALSE 2792.801454 2952.459396 2532.074747 3243.898018 3203.852336 3452.342489 2547.32629 4232.594444 3307.422083 3631.187257 0.769115239 0.813083762 0.697313184 0.893343634 0.882315372 0.950747578 0.701513337 1.165622741 0.910837654 1 11.82622562 -4.239396935 23.99914021 0.864930477 1.165623287 0.481286441 0.097721409 2775.136709 3021405.255 0.015801409 0.987040913 5.76E-05 4.239396935 0.30069281 TLSDVEDQKELAS(ph)PVSPELR ddPTM_HeLa_SAHA_4h_R1 2 TLSDVEDQKELASPVSPELR 20 1 Q5T4S7-3;Q5T4S7-4;Q5T4S7;Q5T4S7-2;Q5T4S7-5 Q5T4S7-3 UBR4 E3 ubiquitin-protein ligase UBR4 1 0 TLSDVEDQKELAS(0.601)PVS(0.398)PELR;T(0.002)LS(0.006)DVEDQKELAS(0.926)PVS(0.066)PELR ; 56.335 0.014782 44238000 2987.4 2943.4 3030.5 3303.6 3595.4 4388 3180.3 4000.5 2755.3 3598.2 TRUE FALSE FALSE 3301.628439 3038.768091 3443.480758 3367.545955 3319.921229 4014.117714 2822.444274 3898.173003 2736.125643 3753.336011 0.87965171 0.809617919 0.917445373 0.89721409 0.884525451 1.069479978 0.75198284 1.038588869 0.728984998 1 11.87395774 -9.296607944 1.082408779 0.998661207 0.901649226 0 0.122216143 0.714613862 1.530190283 0.050810384 0.014394947 5.05E-10 9.296607944 -0.097011981 TLSDVEDQKELASPVS(ph)PELR ddPTM_HeLa_SAHA_4h_R1 1 TLSDVEDQKELASPVSPELR 20 1 Q5T4S7-3;Q5T4S7-4;Q5T4S7;Q5T4S7-2;Q5T4S7-5 Q5T4S7-3 UBR4 E3 ubiquitin-protein ligase UBR4 1 0 TLSDVEDQKELAS(0.01)PVS(0.99)PELR 55.189 0.016092 28396000 1077.2 1108.4 997.27 1038.7 1261.4 1301 999.44 1257.3 928.62 1092.9 TRUE FALSE FALSE 1190.504838 1144.312887 1133.172762 1058.80554 1164.751805 1190.147481 886.9803808 1225.140087 922.1576578 1140.020268 1.044283924 1.003765389 0.993993523 0.928760278 1.021693945 1.043970458 0.778039133 1.07466518 0.808895845 1 10.15484376 -6.661310895 2.676116365 1.020683182 0.965617005 0 0.101928074 0.478536721 6.97569971 0.011706692 0.017021845 2.18E-07 6.661310895 -0.055066177 TLSEVDY(ph)APAGPAR ddPTM_HeLa_SAHA_4h_R1 2 TLSEVDYAPAGPAR 14 0 A0A0A0MTP6;O15357;O15357-2;H0YFZ4 A0A0A0MTP6 INPPL1 "Phosphatidylinositol 3,4,5-trisphosphate 5-phosphatase 2" 1 0 TLSEVDY(1)APAGPAR;TLSEVDY(1)APAGPAR ; 286.86 8.21E-69 38349000 1236.95 1603.57 1019.01 1813.73 3551.2 1592.75 2011.73 3221 2345.95 1681.66 TRUE FALSE FALSE 1367.058076 1655.52672 1157.875376 1848.837367 3279.107823 1457.038739 1785.364846 3138.611484 2329.624343 1754.164592 0.77932144 0.943769317 0.660072254 1.053970292 1.869327335 0.830616891 1.017786389 1.789234316 1.328053452 1 10.77656841 -5.991867851 24.918778 0.880372208 1.330787253 0.261137089 0.335534035 159.2501618 487974.4722 0.042990318 0.077829529 1.02E-06 5.991867851 0.450415045 TLSFYFPPCGK ddPTM_HeLa_SAHA_4h_R1 2 TLSFYFPPCGK 11 0 Q9UG63;Q9UG63-2 Q9UG63 ABCF2 ATP-binding cassette sub-family F member 2 0 0 ; ; 180.8 7.76E-14 430900 650.28 830.89 860.04 681.89 640.82 906.34 761.8 647.91 635.142 623.91 FALSE FALSE TRUE 718.679434 857.8113812 977.2417723 695.088967 591.72051 829.1147331 676.0802591 631.3374004 630.7219951 650.8098134 1.104284876 1.31806768 1.501578114 1.06803701 0.909206496 1.273973926 1.038829233 0.970079718 0.969134119 1 9.346092195 -8.192807195 1.456989765 1.02421857 1.153288769 0.122210164 0.168102644 0.661918392 2.851457028 0.04356614 0.03435548 6.41E-09 8.192807195 0.129070199 TLSNAEDYLDDEDS(ph)D ddPTM_HeLa_SAHA_4h_R1 6 TLSNAEDYLDDEDSD 15 0 Q92882 Q92882 OSTF1 Osteoclast-stimulating factor 1 1 0 TLSNAEDYLDDEDS(1)D;T(0.014)LS(0.113)NAEDY(0.004)LDDEDS(0.869)D;TLSNAEDYLDDEDS(1)D;TLSNAEDYLDDEDS(1)D;TLSNAEDYLDDEDS(1)D;TLSNAEDYLDDEDS(1)D ;;;;; 294.52 2.77E-83 75243300 8506.31 9136.77 8809.38 9042.23 9295.54 11378.31 9598.79 10355.53 10615.61 9410.63 TRUE FALSE FALSE 9401.042714 9432.807343 10009.87643 9217.255437 8583.317733 10408.81398 8518.708887 10090.65054 10541.73511 9816.368314 0.957690504 0.960926388 1.019712801 0.938967971 0.874388313 1.060352835 0.867806567 1.027941313 1.0738936 1 13.26097367 -6.205463552 24.9992655 0.980483576 0.950606591 0.074848987 0.065094311 675.0862935 301498.9097 0.007953926 0.01319009 6.23E-07 6.205463552 -0.029876985 TLSPSSGYSSQSGT(ph)PTLPPK ddPTM_HeLa_SAHA_4h_R1 1 TLSPSSGYSSQSGTPTLPPK 20 0 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 TLSPSSGYSSQSGT(0.992)PT(0.008)LPPK 220.1 8.71E-26 3528300 1809.5 1567.3 1556 1888 1783.6 1998.3 2207.7 1710.7 2818.4 2057.4 TRUE FALSE FALSE 1999.831512 1618.081548 1768.043577 1924.54497 1646.940953 1828.033598 1959.283786 1666.942771 2798.786525 2146.104583 0.931842525 0.753962114 0.823838498 0.896761968 0.767409457 0.85179148 0.912948885 0.776729515 1.304124015 1 11.06750467 -7.481961621 3.93989478 0.971781213 0.830818381 0.424299212 0.116733608 0.108601068 3.371523277 0.009228198 0.01020077 3.30E-08 7.481961621 -0.140962832 TLSPT(ph)PASATAPTSQGIPTS(ph)DEESTPKK ddPTM_HeLa_SAHA_4h_R1 1 TLSPTPASATAPTSQGIPTSDEESTPKK 28 1 Q9NQS7-2;Q9NQS7 Q9NQS7-2 INCENP Inner centromere protein 2 0 T(0.128)LS(0.176)PT(0.675)PAS(0.018)AT(0.004)APT(0.005)S(0.005)QGIPT(0.292)S(0.673)DEES(0.019)T(0.006)PKK 99.108 6.52E-08 0 324.36 435.77 359.79 368.79 288.91 550.89 561.65 460.52 416.05 356.99 TRUE FALSE FALSE 358.477673 449.8892339 408.8203075 375.9284637 266.7737782 503.9510728 498.4516638 448.7405652 413.1546742 372.381586 0.96266219 1.208140388 1.097853178 1.009524847 0.716398953 1.353318993 1.338550784 1.205055734 1.109492762 1 8.540637924 -5.22832608 24.99143342 0.9949844 1.30293281 0.508051648 0.12704652 351.3500606 265172.1916 0.016963295 0.043245143 5.91E-06 5.22832608 0.30794841 TLSPT(ph)PASATAPTSQGIPTSDEESTPKK ddPTM_HeLa_SAHA_4h_R1 1 TLSPTPASATAPTSQGIPTSDEESTPKK 28 1 Q9NQS7-2;Q9NQS7 Q9NQS7-2 INCENP Inner centromere protein 1 0 T(0.16)LS(0.183)PT(0.239)PAS(0.11)AT(0.181)APT(0.063)S(0.059)QGIPT(0.005)S(0.001)DEESTPKK 54.308 0.014514 8539200 938.93 849.77 912 985.17 1073.1 1144.3 1177.2 1052.8 666.62 688.28 TRUE FALSE FALSE 1037.690965 877.3031056 1036.282611 1004.23939 990.8793098 1046.799202 1044.738358 1025.8709 661.9809371 717.9551192 1.445342387 1.221947002 1.443380767 1.398749536 1.380141019 1.458028746 1.45515831 1.428878871 0.922036656 1 9.487749851 -9.801692498 0.455987706 0.79683866 1.424068656 0.87257105 0.067740139 0.767163247 0.153253408 0.238032273 0.017715054 1.58E-10 9.801692498 0.627229996 TLSPT(ph)PSAEGYQDVRDR ddPTM_HeLa_SAHA_4h_R1 1 TLSPTPSAEGYQDVRDR 17 1 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639;A0A494C1P1;A0A494C1G0;H0Y7N6;F6XFR5 J3QSX6 ABLIM1 Actin-binding LIM protein 1 1 0 T(0.034)LS(0.14)PT(0.826)PSAEGYQDVRDR 124.98 0.0004169 6952700 1321 448.09 1146.4 590.05 749.54 525.6 738.64 1183.4 85.174 705.26 TRUE FALSE FALSE 1459.948841 462.60841 1302.625422 601.471271 692.1104071 480.8159231 655.5262832 1153.130342 84.5812672 735.6672101 1.984523465 0.628828367 1.770672125 0.817586081 0.94079279 0.653578026 0.891063614 1.567461925 0.114972186 1 9.522909479 -6.244049866 24.82244813 1.421562558 0.949826747 0 0.58671819 1008.31813 1439311.033 0.072650845 0.12029212 5.70E-07 6.244049866 -0.471735811 TLSPTPS(ph)AEGYQDVRDR ddPTM_HeLa_SAHA_4h_R1 1 TLSPTPSAEGYQDVRDR 17 1 J3QSX6;F8W8M4;A0A0A0MRL6;A0A3B3IS55;O14639-4;O14639-3;O14639-5;O14639-2;O14639-6;O14639;A0A494C1P1;A0A494C1G0;H0Y7N6;F6XFR5 J3QSX6 ABLIM1 Actin-binding LIM protein 1 1 0 T(0.003)LS(0.014)PT(0.268)PS(0.714)AEGY(0.001)QDVRDR 100.27 0.0017224 8078900 1543.3 513.16 1643.2 923.97 1021.7 549.34 1020.7 1640.1 398.6 967.99 TRUE FALSE FALSE 1705.631375 529.7867207 1867.126739 941.8547754 943.4175667 502.5331415 905.8481497 1598.148617 395.8261101 1009.724786 1.689204225 0.524684278 1.849144207 0.932783654 0.934331394 0.497693182 0.897123812 1.582756647 0.392013859 1 9.979746406 -6.103942543 22.14186568 1.300736849 0.936650933 0 0.508121221 20.8197729 4421.59098 0.065608036 0.108798752 7.87E-07 6.103942543 -0.364085916 TLSS(ph)SSMDLSR ddPTM_HeLa_SAHA_4h_R1 3 TLSSSSMDLSR 11 0 Q9H0B6;Q9H0B6-2 Q9H0B6 KLC2 Kinesin light chain 2 1 0 TLS(0.004)S(0.893)S(0.05)S(0.052)MDLSR;TLS(0.097)S(0.814)S(0.045)S(0.045)MDLSR;T(0.001)LS(0.244)S(0.536)S(0.109)S(0.109)MDLSR ;; 152.96 0.00041256 195996000 5161.1 4677.4 4989.8 5775.4 6054.5 5926.8 5361.9 5827.9 4572.3 4406.8 TRUE FALSE FALSE 5703.968178 4828.950829 5669.783958 5887.191218 5590.605518 5421.803297 4758.5649 5678.830757 4540.480992 4596.798714 1.240856634 1.050502998 1.233420106 1.280715468 1.216195415 1.179473724 1.035191053 1.235388171 0.987748491 1 12.16641378 -9.421809686 0.998219395 0.993167228 1.185729547 0.491621033 0.076986353 0.442083609 0.741324297 0.064047905 0.013986898 3.79E-10 9.421809686 0.192562319 TLSSCLLNLIRKPHIGLTELVQIIINTTHLEQACK ddPTM_HeLa_SAHA_4h_R1 1 TLSSCLLNLIRKPHIGLTELVQIIINTTHLEQACK 35 2 F2Z3K0;E7EW84;Q8TAG9-2;Q8TAG9 F2Z3K0 EXOC6 Exocyst complex component 6 0 0 33.544 0.019995 1840000 646.88 472.22 389.9 660.65 684.67 819.18 643.19 624.46 662.51 642.82 FALSE FALSE TRUE 714.9218064 487.5202378 443.0335415 673.4378361 632.2107325 749.3812554 570.8165684 608.4872174 657.899539 670.5351161 1.066195922 0.727061456 0.66071639 1.00432896 0.942845076 1.117586891 0.851285122 0.907465102 0.98115598 1 9.389169078 -7.322846872 24.99982519 1.031259223 0.892715596 0.180209027 0.123872801 277.6426147 113031.3778 0.02216949 0.025351775 4.76E-08 7.322846872 -0.138543627 TLSSPSNRPS(ph)GETSVPPPPAVGR ddPTM_HeLa_SAHA_4h_R1 1 TLSSPSNRPSGETSVPPPPAVGR 23 1 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 T(0.017)LS(0.237)S(0.2)PS(0.186)NRPS(0.3)GET(0.04)S(0.02)VPPPPAVGR 79.695 0.000397 118530000 614.61 578.96 500.22 573.52 799.32 715.42 799.19 537.08 528.28 380.09 TRUE FALSE FALSE 679.2574997 597.7186839 568.3873766 584.6213089 738.0762743 654.4621912 709.2630378 523.3422713 524.6036565 396.47754 1.713230716 1.50757262 1.433592875 1.474538278 1.861584074 1.650691717 1.788911013 1.319979617 1.323161096 1 8.631095331 -9.360780794 0.805909221 0.949337743 1.609556115 0.42209307 0.186310908 0.36568411 0.371353504 0.16072067 0.03110664 4.36E-10 9.360780794 0.660218372 TLSSPSNRPSGETS(ph)VPPPPAVGR ddPTM_HeLa_SAHA_4h_R1 1 TLSSPSNRPSGETSVPPPPAVGR 23 1 Q8WWM7-6;Q8WWM7-8;Q8WWM7-5;Q8WWM7-4;Q8WWM7-9;Q8WWM7-2;Q8WWM7;Q8WWM7-3 Q8WWM7-6 ATXN2L Ataxin-2-like protein 1 0 T(0.003)LS(0.057)S(0.253)PS(0.118)NRPS(0.19)GET(0.069)S(0.31)VPPPPAVGR 82.859 0.00031188 119430000 531.46 531.21 468.51 526.71 499.35 636.77 486.46 609.64 514.64 538.16 TRUE FALSE FALSE 587.3614012 548.4215525 532.3561029 536.9052337 461.0899109 582.5136136 431.7222405 594.0462915 511.0585783 561.3627113 1.046313532 0.976946886 0.948328224 0.956431952 0.821376094 1.037677783 0.769061129 1.058221858 0.910389251 1 9.132789425 -6.787291753 1.845944355 1.021675317 0.920962428 0.026971268 0.089724691 0.332940138 2.317009045 0.012542892 0.017905511 1.63E-07 6.787291753 -0.100712889 TLSSS(ph)AQEDIIR ddPTM_HeLa_SAHA_4h_R1 1 TLSSSAQEDIIR 12 0 Q9H788-2;Q9H788 Q9H788-2 SH2D4A SH2 domain-containing protein 4A 1 0 T(0.009)LS(0.066)S(0.066)S(0.858)AQEDIIR 226.23 1.88E-22 10574000 834.79 1382.7 1146.7 516.5 905.93 1112.3 1325 718.49 483.25 1081.6 TRUE FALSE FALSE 922.5970424 1427.500387 1302.966304 526.4976044 836.5178391 1017.525782 1175.907513 700.1120662 479.8870239 1128.233069 0.817736217 1.265253099 1.15487335 0.466656774 0.741440631 0.901875517 1.042255847 0.620538509 0.425343874 1 10.13984941 -6.287801265 24.9850305 0.960110992 0.777992866 0.10108235 0.254385868 1059.299032 1003970.617 0.031411828 0.047991128 5.15E-07 6.287801265 -0.182118126 TLSSS(ph)SMDLSR ddPTM_HeLa_SAHA_4h_R1 1 TLSSSSMDLSR 11 0 Q9H0B6;Q9H0B6-2 Q9H0B6 KLC2 Kinesin light chain 2 1 0 TLS(0.001)S(0.217)S(0.749)S(0.033)MDLSR 187.78 1.07E-06 65368000 1333.3 1408.2 1099 1224.1 1510.3 1485.3 1398.4 1417.6 1133.7 906.85 TRUE FALSE FALSE 1473.542611 1453.826604 1248.765997 1247.794226 1394.58114 1358.744084 1241.048352 1381.339845 1125.810489 945.9487415 1.557740443 1.536897868 1.320120152 1.319092854 1.474267134 1.436382358 1.311961523 1.460269235 1.190139 1 9.8856182 -9.384468225 1.076575724 0.996806109 1.431775166 0.622953093 0.099648699 0.202398811 0.414808204 0.067101792 0.016728955 4.13E-10 9.384468225 0.434969057 TLSVAAAFNEDEDS(ph)EPEEMPPEAK ddPTM_HeLa_SAHA_4h_R1 12 TLSVAAAFNEDEDSEPEEMPPEAK 24 0 Q8WW12 Q8WW12 PCNP PEST proteolytic signal-containing nuclear protein 1 0 TLSVAAAFNEDEDS(1)EPEEMPPEAK;TLSVAAAFNEDEDS(1)EPEEMPPEAK;TLSVAAAFNEDEDS(1)EPEEMPPEAK;TLSVAAAFNEDEDS(1)EPEEMPPEAK;TLSVAAAFNEDEDS(1)EPEEMPPEAK;TLSVAAAFNEDEDS(1)EPEEMPPEAK;TLSVAAAFNEDEDS(1)EPEEMPPEAK;TLSVAAAFNEDEDS(1)EPEEMPPEAK;TLSVAAAFNEDEDS(1)EPEEMPPEAK;TLSVAAAFNEDEDS(1)EPEEMPPEAK;TLSVAAAFNEDEDS(1)EPEEMPPEAK;TLSVAAAFNEDEDS(1)EPEEMPPEAK ;;;;;;;;;;; 180.09 1.19E-11 67620200 26205.12 35042.1 31962.13 35619.07 36987.9 42211.1 39658.5 38591.25 37685.7 34638.85 TRUE FALSE FALSE 28961.49475 36177.48703 36317.76262 36308.52861 34153.89509 38614.47681 35196.0212 37604.1417 37423.44215 36132.30034 0.801540297 1.00125059 1.005132867 1.004877305 0.945245522 1.068696885 0.974087475 1.040734782 1.035733728 1 15.14100149 -7.057211307 24.93031266 0.906025645 1.004817388 0.057269841 0.068144289 266.7067001 116219.0738 0.012843068 0.015729513 8.77E-08 7.057211307 0.098791743 TLTAEEAEEEWER ddPTM_HeLa_SAHA_4h_R1 2 TLTAEEAEEEWER 13 0 P35269;M0R0R9 P35269 GTF2F1 General transcription factor IIF subunit 1 0 0 ; ; 160.67 0.00035326 4394900 515.72 548.67 555.08 616.65 661.08 722.21 719.84 594.33 707.65 634.68 FALSE FALSE TRUE 569.9657958 566.447268 630.7234117 628.5861524 610.4281932 660.673645 638.8417087 579.1278992 702.725406 662.0441608 0.860918092 0.85560345 0.952690846 0.949462573 0.922035461 0.997929872 0.964953317 0.874757204 1.061447933 1 9.370783643 TLTAEEAEEEWERR ddPTM_HeLa_SAHA_4h_R1 4 TLTAEEAEEEWERR 14 1 P35269;M0R0R9 P35269 GTF2F1 General transcription factor IIF subunit 1 0 0 ;;; ;;; 217.12 4.67E-17 17591900 3197.54 3115.38 3178.12 3796.32 3673.54 3951.97 3518.87 3526.07 4099.55 3646.69 FALSE FALSE TRUE 3533.871928 3216.320356 3611.217643 3869.803263 3392.074159 3615.239923 3122.917486 3435.878235 4071.020898 3803.916652 0.929008769 0.845528609 0.949341947 1.017320729 0.891731988 0.950399352 0.820974215 0.903247508 1.070218217 1 11.89326992 -13.52287875 0.106681453 1.293684849 0.855120923 0.398708003 0.056757371 102.1864222 0.805182559 6.590306242 0.370170774 3.00E-14 13.52287875 -0.438563926 TLTDEVNS(ph)PDSDRR ddPTM_HeLa_SAHA_4h_R1 4 TLTDEVNSPDSDRR 14 1 F8VXC8;Q8TAQ2-2;Q8TAQ2-3;Q8TAQ2 F8VXC8 SMARCC2 SWI/SNF complex subunit SMARCC2 1 0 TLTDEVNS(0.919)PDS(0.081)DRR;T(0.002)LTDEVNS(0.99)PDS(0.007)DRR;TLTDEVNS(0.988)PDS(0.012)DRR;TLTDEVNS(1)PDSDRR ;;; 200.97 1.38E-11 240435000 8814.9 9011.2 7731.8 8641.3 9936.7 10478.6 9346.2 9698.2 9528.7 8772.1 TRUE FALSE FALSE 9742.091626 9303.168792 8785.449439 8808.564857 9175.352193 9585.764329 8294.540978 9450.134087 9462.389001 9150.308161 1.06467361 1.016705517 0.960126073 0.962652263 1.002736961 1.047589235 0.906476682 1.032766757 1.034106047 1 13.15960462 -6.951469588 7.658619261 1.031067636 0.984574772 0.228784277 0.039882526 0.271286534 36.51696925 0.006735223 0.008851688 1.12E-07 6.951469588 -0.046492864 TLTDEVNSPDS(ph)DRR ddPTM_HeLa_SAHA_4h_R1 2 TLTDEVNSPDSDRR 14 1 F8VXC8;Q8TAQ2-2;Q8TAQ2-3;Q8TAQ2 F8VXC8 SMARCC2 SWI/SNF complex subunit SMARCC2 1 0 TLTDEVNS(0.008)PDS(0.992)DRR;TLTDEVNS(0.03)PDS(0.97)DRR ; 206.67 6.17E-12 73055000 4117.2 4797.1 4439.6 4664.9 4966.7 5450.9 4987.7 4977.4 4910.3 5007.2 TRUE FALSE FALSE 4550.265986 4952.529187 5044.605568 4755.195885 4586.152519 4986.452654 4426.470869 4850.085315 4876.128823 5223.084897 0.871183616 0.948200017 0.965828752 0.91041903 0.87805437 0.954694927 0.847482083 0.928586345 0.933572576 1 12.35068644 -9.491768017 1.184551029 1.000956561 0.909344396 0.139645428 0.04159095 0.357906206 0.883428765 0.027235958 0.0063509 3.22E-10 9.491768017 -0.091612164 TLTEPS(ph)VDFNHSDDFTPISTVQK ddPTM_HeLa_SAHA_4h_R1 2 TLTEPSVDFNHSDDFTPISTVQK 23 0 Q6R327-3;Q6R327 Q6R327-3 RICTOR Rapamycin-insensitive companion of mTOR 1 0 T(0.018)LT(0.433)EPS(0.539)VDFNHS(0.01)DDFTPISTVQK;T(0.168)LT(0.389)EPS(0.44)VDFNHS(0.002)DDFT(0.001)PISTVQK ; 121.26 8.02E-06 84436000 2067.76 1847.8 1315.8 2767.8 2477.52 2966.27 2342.9 3007.52 2290.52 2112.81 TRUE FALSE FALSE 2285.256484 1907.669932 1495.110372 2821.374771 2287.692953 2713.527108 2079.270726 2930.591993 2274.580085 2203.903579 1.036913096 0.865586839 0.678391916 1.2801716 1.038018621 1.231236763 0.943449045 1.329727862 1.032068783 1 11.10584539 TLTLVDTGIGMTK ddPTM_HeLa_SAHA_4h_R1 4 TLTLVDTGIGMTK 13 0 P08238 P08238 HSP90AB1 Heat shock protein HSP 90-beta 0 0 ;;; ;;; 271.21 8.73E-84 260735900 8667.3 9164.7 8531.2 9833 9438.3 9323.8 9078.6 8872.1 8886.2 8615.9 FALSE FALSE TRUE 9578.966381 9461.642293 9693.787507 10023.33193 8715.139493 8529.359786 8057.052034 8645.164529 8824.360211 8987.373614 1.065824877 1.052770553 1.078600704 1.115268193 0.969709268 0.949038079 0.896485712 0.961923349 0.981861953 1 13.13368386 -5.562946234 8.204805229 1.042913471 0.936328805 0.640966897 0.038869234 0.123964522 22.54648608 0.005969465 0.012003148 2.74E-06 5.562946234 -0.106584666 TLTRTS(ph)QETADVK ddPTM_HeLa_SAHA_4h_R1 1 TLTRTSQETADVK 13 1 H3BVG0;Q8N1F7;H3BNN5;H3BV11;H3BRI8;H3BM93 H3BVG0 NUP93 Nuclear pore complex protein Nup93 1 0 TLTRT(0.002)S(0.827)QET(0.171)ADVK 120.21 0.0051046 21104000 4870.3 3549.8 4025.3 4136.2 4357.7 4439.6 5041.8 5669.6 2638.7 4290.2 TRUE FALSE FALSE 5382.5805 3664.815849 4573.846921 4216.262132 4023.813967 4061.321103 4474.483395 5524.579841 2620.337072 4475.171518 1.202765185 0.818921875 1.022049524 0.942145371 0.899141843 0.907523005 0.999846235 1.234495666 0.585527742 1 12.12772726 -7.274556256 24.95621814 1.095750221 0.970887553 0 0.196716774 964.1494107 1834390.617 0.021112673 0.024219149 5.31E-08 7.274556256 -0.124862668 TLVITSTPAS(ph)PNR ddPTM_HeLa_SAHA_4h_R1 1 TLVITSTPASPNR 13 0 E9PK89;Q8TBN0 E9PK89 RAB3IL1 Guanine nucleotide exchange factor for Rab-3A 1 0 TLVIT(0.017)S(0.014)T(0.097)PAS(0.872)PNR 106.13 0.0033231 5397200 677.27 1056.4 647.83 968.59 903.85 1330.6 1070.2 601.26 1050.6 901.57 TRUE FALSE FALSE 748.508366 1090.628053 736.1128986 987.3384601 834.5972083 1217.225394 949.7782794 585.8806398 1043.288789 940.4410949 0.795912014 1.159698421 0.782731532 1.049867414 0.887452933 1.294313276 1.009928516 0.622984941 1.109361123 1 9.877193772 TLVLLMGK ddPTM_HeLa_SAHA_4h_R1 5 TLVLLMGK 8 0 P07737;K7EJ44;CON__P02584 P07737 PFN1 Profilin-1 0 0 ;;;; ;;;; 125.25 0.0018116 74340400 14706.82 18656 44946.35 33072.43 28137.25 7171.39 33604.91 4479.94 1996.78 8689.17 FALSE FALSE TRUE 16253.7508 19260.46664 51071.40451 33712.59471 25981.37998 6560.347227 29823.59708 4365.349622 1982.884245 9063.802642 1.793259567 2.124987425 5.6346554 3.719475813 2.866498865 0.723796345 3.290406716 0.481624523 0.218769574 1 13.14590073 -5.273989376 24.65395761 2.034512307 1.677788783 0.020365327 1.60833167 4002.280381 7862315.993 0.246364939 0.554513484 5.32E-06 5.273989376 -0.356723524 TLVS(ph)RGREEPGGSWR ddPTM_HeLa_SAHA_4h_R1 2 TLVSRGREEPGGSWR 15 2 Q2NL68-2 Q2NL68-2 1 0 TLVS(0.993)RGREEPGGS(0.007)WR;TLVS(0.996)RGREEPGGS(0.004)WR ; 107.93 0.011836 31572000 1998.26 2706.4 1888.64 2164.02 2313.26 2721.4 2377.2 2566.4 2402.3 2254.03 TRUE FALSE FALSE 2208.446155 2794.089136 2146.014024 2205.907736 2136.018519 2489.52141 2109.7112 2500.755204 2385.582199 2351.212264 0.939279787 1.188361076 0.91272662 0.938200166 0.908475407 1.05882461 0.897286575 1.063602484 1.014617963 1 11.19918907 TLVSVTK ddPTM_HeLa_SAHA_4h_R1 3 TLVSVTK 7 0 P07900;P07900-2;Q58FG1 P07900 HSP90AA1;HSP90AA4P Heat shock protein HSP 90-alpha;Putative heat shock protein HSP 90-alpha A4 0 0 ;; ;; 126.28 0.0032645 50689500 21192.6 19467.4 18874.1 20074.2 21833.5 23292.7 23146.5 22286.9 21525 20111.4 FALSE FALSE TRUE 23421.7349 20098.15653 21446.16406 20462.76517 20160.62195 21308.03092 20541.9949 21716.83337 21375.20577 20978.50088 1.116463709 0.958035879 1.022292498 0.975415988 0.961013471 1.015707988 0.979192699 1.035194721 1.018910069 1 14.35662397 -7.24509761 24.82454385 1.054996754 0.992083939 0.283586804 0.037420481 733.2934638 1113936.191 0.007924126 0.009691182 5.69E-08 7.24509761 -0.062912815 TLYSFFS(ph)PSPAR ddPTM_HeLa_SAHA_4h_R1 1 TLYSFFSPSPAR 12 0 P13051 P13051 UNG Uracil-DNA glycosylase 1 0 TLYS(0.002)FFS(0.994)PS(0.004)PAR 137.81 0.00075513 6804800 455.44 555.87 460.76 586.98 366.09 494.72 483.13 403.95 580.61 471.57 TRUE FALSE FALSE 503.3452688 573.8805527 523.5499733 598.3418467 338.0402633 452.5670728 428.7669409 393.6175439 576.5694877 491.9016905 1.023263954 1.166657004 1.064338634 1.216385018 0.687211022 0.920035612 0.871651692 0.80019555 1.172123412 1 8.942226203 -5.756217109 24.99999929 1.041497682 0.830640661 0.63906649 0.098520165 74.76583259 357914.0929 0.013369298 0.026110243 1.75E-06 5.756217109 -0.210857021 TMAVLQIEAEK ddPTM_HeLa_SAHA_4h_R1 2 TMAVLQIEAEK 11 0 E7EWP0;H0Y886;O43674-2;O43674 E7EWP0 NDUFB5 "NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial" 0 0 ; ; 102.52 0.020947 12144200 2632.6 2334.8 7001.5 9965.5 7325.2 4684.9 4953.8 2613.5 3046.2 5615.2 FALSE FALSE TRUE 2909.508947 2410.449052 7955.627958 10158.39666 6763.944759 4285.720163 4396.385386 2546.650454 3025.001246 5857.298752 0.496732209 0.411529129 1.358241793 1.734314245 1.154789101 0.731688846 0.750582405 0.434782408 0.516449881 1 12.51601977 -2.338149041 13.32224024 0.840782954 0.965279109 0 0.422233058 0 0 0.059796789 0 0.004590405 2.338149041 0.124496155 TMFAQVES(ph)DDEEAK ddPTM_HeLa_SAHA_4h_R1 1 TMFAQVESDDEEAK 14 0 Q9NW82 Q9NW82 WDR70 WD repeat-containing protein 70 1 0 TMFAQVES(1)DDEEAK 153.22 5.09E-05 3992800 380.93 762.98 548.34 604.44 709.77 811.92 677.94 649.67 981.9 928.33 TRUE FALSE FALSE 420.9979652 787.7010526 623.0649196 616.1398102 655.3875759 742.7398483 601.656407 633.0523821 975.066878 968.3548494 0.43475588 0.813442565 0.64342624 0.636274823 0.676805178 0.76701206 0.621318112 0.653740086 1.006931373 1 9.919392004 -9.56356352 1.338151294 1.000017563 0.633793923 0.668645133 0.09659939 0.238355618 0.764851012 0.078570652 0.018477493 2.73E-10 9.56356352 -0.36622364 TMFAQVES(ph)DDEEAKNEPEWK ddPTM_HeLa_SAHA_4h_R1 3 TMFAQVESDDEEAKNEPEWK 20 1 Q9NW82 Q9NW82 WDR70 WD repeat-containing protein 70 1 0 T(0.001)MFAQVES(0.999)DDEEAKNEPEWK;T(0.002)MFAQVES(0.998)DDEEAKNEPEWK;T(0.017)MFAQVES(0.983)DDEEAKNEPEWK ;; 85.573 0.0012339 497424000 3558.87 3899.74 3511.08 3568.83 4375.8 4396.67 3910.17 4188.38 4164.88 4208.13 TRUE FALSE FALSE 3933.208275 4026.094135 3989.551697 3637.909865 4040.527149 4022.048981 3470.187381 4081.247304 4135.896261 4389.563078 0.896036395 0.917197011 0.908872165 0.828763547 0.920485041 0.916275472 0.790554166 0.929761626 0.942211374 1 12.09986163 -10.0346344 0.286630376 1.095063247 0.870568244 0.31896997 0.045608305 3.812215092 0.285359211 0.295596155 0.023044486 9.23E-11 10.0346344 -0.224495003 TMGVMFTPLTVK ddPTM_HeLa_SAHA_4h_R1 2 TMGVMFTPLTVK 12 0 O00303 O00303 EIF3F Eukaryotic translation initiation factor 3 subunit F 0 0 ; ; 175.86 9.05E-11 1033050 250.7 1554.8 160.54 307.13 356.47 61.84 388.8 176.59 267.4 0 FALSE FALSE TRUE 277.0697763 1605.17654 182.4175551 313.0749453 329.1573456 56.5708841 345.0512007 172.0730835 265.5391416 0 0 TMIIS(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 TMIISPER 8 0 O75533;B4DGZ4;A0A494C1M2;O75533-2 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 TMIIS(1)PER 94.409 0.014879 3032700 1268.9 1366.1 868.4 1549.7 1876.2 2054.4 1205.3 1451.9 2286 1678.9 TRUE FALSE FALSE 1402.368724 1410.362536 986.7410296 1579.696684 1732.445961 1879.353562 1069.676472 1414.7625 2270.09154 1751.285595 0.800765294 0.805329833 0.563438101 0.902021172 0.989242398 1.073127974 0.610794992 0.807842253 1.296242912 1 10.77419866 -9.178914255 0.94458707 0.999064791 0.82034228 0.287442727 0.174406653 0.817545064 1.322755615 0.097412543 0.028242742 6.62E-10 9.178914255 -0.178722512 TMNLQDIRY(ph)ILK ddPTM_HeLa_SAHA_4h_R1 1 TMNLQDIRYILK 12 1 Q8IWB6-3;Q8IWB6-2;Q8IWB6 Q8IWB6-3 TEX14 Inactive serine/threonine-protein kinase TEX14 1 0 TMNLQDIRY(1)ILK 67.153 0.015094 7578000 527.72 996.31 485.15 734.13 389.29 536.27 507.99 610.7 551.91 441.83 TRUE FALSE FALSE 583.2280109 1028.591098 551.2637154 748.3401477 359.4626843 490.576779 450.8296282 595.0791783 548.0692134 460.8794536 1.265467589 2.231800723 1.196112587 1.623722086 0.779949467 1.06443621 0.978194243 1.291181834 1.189181269 1 8.848245642 -5.741606216 24.99645203 1.25752584 1.02742272 0.13958152 0.359547244 549.1549254 692116.0413 0.056714062 0.113309452 1.81E-06 5.741606216 -0.230103121 TMPPGSHSPS(ph)GAGQGRT(ph)AR ddPTM_HeLa_SAHA_4h_R1 1 TMPPGSHSPSGAGQGRTAR 19 1 Q96PY0 Q96PY0 PSMG3-AS1 Putative uncharacterized protein PSMG3-AS1 2 0 TMPPGS(0.001)HS(0.002)PS(0.997)GAGQGRT(1)AR 88.319 0.015588 28009000 157.16 0 75.552 55.194 118.68 170.86 113.81 57.381 0 135.47 TRUE FALSE FALSE 173.6908099 0 85.8478331 56.26235968 109.586764 156.3017668 101.0037993 55.91327711 0 141.3107747 1.229140597 0 0.60751088 0.398146283 0.775501828 1.106085273 0.714763609 0.395675965 0 1 7.142727662 -7.322358206 24.99998092 1.108205423 0.599806976 0 0.446880283 171.1310753 70228.67792 0.049165469 0.05622286 4.76E-08 7.322358206 -0.508398447 TMS(ph)SDDEDCSAK ddPTM_HeLa_SAHA_4h_R1 2 TMSSDDEDCSAK 12 0 H0YBW3;Q9NVR2 H0YBW3 INTS10 Integrator complex subunit 10 1 0 T(0.281)MS(0.439)S(0.281)DDEDCSAK;T(0.02)MS(0.661)S(0.319)DDEDCSAK ; 180.09 2.27E-05 10779000 3008 2558 2614.1 3422.8 3550.7 4009.3 3461.9 3706.3 3254.9 3048.1 TRUE FALSE FALSE 3324.395241 2640.880878 2970.335934 3489.053243 3278.646133 3667.685084 3072.357901 3611.498213 3232.248886 3179.518508 1.04556562 0.830591447 0.934209355 1.097352708 1.03117693 1.153534749 0.966296593 1.135863246 1.016584391 1 11.63459259 -6.240210897 24.58973286 0.998753974 1.072426721 0.30036723 0.076905536 933.4664167 1081269.11 0.011958635 0.019816905 5.75E-07 6.240210897 0.073672747 TNATSPGVNSST(ph)SPQSTDK ddPTM_HeLa_SAHA_4h_R1 1 TNATSPGVNSSTSPQSTDK 19 0 B7ZM87;O75044 B7ZM87 SRGAP2 SLIT-ROBO Rho GTPase-activating protein 2 1 0 TNATSPGVNS(0.19)S(0.19)T(0.609)S(0.009)PQSTDK 156.08 2.76E-05 6834700 1747.6 2006.8 1868.5 1904.2 2244.7 2113.8 1919 1862.5 2972.2 2175 TRUE FALSE FALSE 1931.420586 2071.821637 2123.129449 1941.058545 2072.711571 1933.692348 1703.069069 1814.859947 2951.516218 2268.774894 0.851305518 0.913189599 0.935804365 0.855553607 0.913581853 0.852306834 0.750655816 0.799929491 1.300929513 1 11.14769776 -13.52287872 0.022241745 2.119006491 8.24E-08 0.416400404 0.110261832 1110.466338 1.990223022 129.4702598 69.05541618 3.00E-14 13.52287872 -2.119006409 TNATSPGVNSSTSPQS(ph)TDK ddPTM_HeLa_SAHA_4h_R1 1 TNATSPGVNSSTSPQSTDK 19 0 B7ZM87;O75044 B7ZM87 SRGAP2 SLIT-ROBO Rho GTPase-activating protein 2 1 0 T(0.007)NAT(0.051)S(0.21)PGVNS(0.014)S(0.014)T(0.181)S(0.225)PQS(0.252)T(0.047)DK 109.77 0.00085428 7648100 1429.5 1533.9 1373 1193.8 1386.6 1539.7 1253.8 1095.6 1718.8 1218.2 TRUE FALSE FALSE 1579.861369 1583.599366 1560.10529 1216.907725 1280.359008 1408.508898 1112.719124 1067.576138 1706.838731 1270.722564 1.243277969 1.246219601 1.227730847 0.957650206 1.007583436 1.108431485 0.875658587 0.840133141 1.343203292 1 10.31143337 -6.241984683 23.50494272 1.137433507 0.964446857 0.490917073 0.11764185 366.7611268 443115.7197 0.019163072 0.031738907 5.73E-07 6.241984683 -0.172986651 TNEGVIEFR ddPTM_HeLa_SAHA_4h_R1 2 TNEGVIEFR 9 0 Q13247;Q13247-3;A0A590UJK4;A0A590UK01;A0A590UJP7;A0A590UK80 Q13247 SRSF6 Serine/arginine-rich splicing factor 6 0 0 ; ; 154.01 0.0015286 13143700 4407.4 4561 4097.1 4909.7 4250 5179.8 4450 4780.5 5292.4 4089.7 FALSE FALSE TRUE 4870.990554 4708.779393 4655.431451 5004.734343 3924.365918 4738.451899 3949.274288 4658.221732 5255.569757 4266.026982 1.141809598 1.103785657 1.091280358 1.173160499 0.919911181 1.110741193 0.925749955 1.091934428 1.231958865 1 12.05867738 -4.791751964 24.99899195 1.07209548 1.008841767 0.080707586 0.092554204 337.486459 278327.1193 0.011387102 0.03416672 1.62E-05 4.791751964 -0.063253713 TNEK(ac)VELQELNDR ddPTM_HeLa_SAHA_4h_R1 2 TNEKVELQELNDR 13 1 P08670;B0YJC4;A0A1B0GTT5;P17661 P08670 VIM;DES Vimentin;Desmin 0 1 ; TNEK(1)VELQELNDR;TNEK(1)VELQELNDR 288.61 6.45E-117 12663200 727.39 2471 1310.54 1206.45 1778.76 2145.4 2608.5 1876.06 1560.22 852.35 FALSE TRUE FALSE 803.9002176 2551.062021 1489.133566 1229.802584 1642.471793 1962.59985 2314.984715 1828.073102 1549.362302 889.0989798 0.904174041 2.869266616 1.6748794 1.383200985 1.847344143 2.207403107 2.603742404 2.056096276 1.742620717 1 9.796200227 -7.290581677 24.80192812 0.954748756 2.063168044 0.384126929 0.474122405 303.461969 258264.4269 0.070389494 0.080500752 5.12E-08 7.290581677 1.108419288 TNEKVELQELNDR ddPTM_HeLa_SAHA_4h_R1 2 TNEKVELQELNDR 13 1 P08670;B0YJC4;A0A1B0GTT5;P17661 P08670 VIM;DES Vimentin;Desmin 0 0 ; ; 158.31 0.0001019 202887000 3892.3 3111.5 4407.2 4152.3 4418.1 4673.4 4792.6 4968.6 3273.9 4165.4 FALSE FALSE TRUE 4301.709973 3212.314642 5007.790264 4232.673771 4079.586132 4275.200028 4253.324035 4841.510406 3251.116663 4344.990779 0.990038919 0.73931449 1.152543358 0.974150231 0.938917098 0.983937653 0.978902891 1.114274035 0.748244779 1 12.0851374 -4.260606882 23.42669536 0.981881007 1.114274111 0.085756131 0.120359317 40.79194564 1147366.865 0.011953883 0.096395584 5.49E-05 4.260606882 0.132393104 TNGHS(ph)PSQPR ddPTM_HeLa_SAHA_4h_R1 1 TNGHSPSQPR 10 0 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;C9JVY5;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 T(0.013)NGHS(0.851)PS(0.136)QPR 79.886 0.020741 759730 225.75 0 244.31 306.93 227.34 273.39 471.75 259.17 164.2 396.19 TRUE FALSE FALSE 249.4954208 0 277.6032945 312.871074 209.9212583 250.0956339 418.6674484 252.5408067 163.0573188 413.2716898 0.603707989 0 0.671721053 0.757059053 0.507949766 0.605160334 1.013056202 0.611076957 0.394552356 1 8.690946728 -8.973482742 1.027271517 0.977646558 0.603243436 0 0.300604643 0.509322899 1.043835601 0.119035804 0.046846946 1.06E-09 8.973482742 -0.374403122 TNK(ac)NK(ac)SSISR ddPTM_HeLa_SAHA_4h_R1 2 TNKNKSSISR 10 2 Q92793;Q92793-2 Q92793 CREBBP CREB-binding protein 0 2 ; TNK(1)NK(1)SSISR;TNK(1)NK(1)SSISR 187.16 4.58E-23 1833280 0 67.634 0 159.64 148.46 110.11 187.461 197.11 0 0 FALSE TRUE FALSE 0 69.82538598 0 162.730063 137.0850269 100.7280085 166.3673949 192.0682116 0 0 0 TNLQPLESTQS(ph)QDF ddPTM_HeLa_SAHA_4h_R1 2 TNLQPLESTQSQDF 14 0 Q9Y248 Q9Y248 GINS2 DNA replication complex GINS protein PSF2 1 0 TNLQPLEST(0.003)QS(0.996)QDF;TNLQPLESTQS(1)QDF ; 135.14 0.00035229 9516800 4848.2 4750 4567 4836.9 5042.1 5257.5 5114.1 4433.5 4755.6 5160.4 TRUE FALSE FALSE 5358.15592 4903.903117 5189.366976 4930.525194 4655.775387 4809.531422 4538.648008 4320.09749 4722.505392 5382.890098 0.995405038 0.911016764 0.964048472 0.915962448 0.86492113 0.893484974 0.843161931 0.802560968 0.877317817 1 12.39416526 -5.300482429 0.371292932 1.00733228 0.753291964 0.434442289 0.046133648 0.651631436 0.106372405 0.00812457 0.066556861 5.01E-06 5.300482429 -0.254040316 TNLTSQSSTTNLPGSPGSPGS(ph)PGSPGSPGSVPK ddPTM_HeLa_SAHA_4h_R1 1 TNLTSQSSTTNLPGSPGSPGSPGSPGSPGSVPK 33 0 Q6IN85-4;Q6IN85-2;Q6IN85 Q6IN85-4 SMEK1 Serine/threonine-protein phosphatase 4 regulatory subunit 3A 1 0 TNLTSQSSTTNLPGS(0.011)PGS(0.102)PGS(0.787)PGS(0.077)PGS(0.022)PGS(0.001)VPK 80.877 0.00014648 0 265.63 196.4 108.92 120.61 231.81 150.9 139.03 125.8 226.71 279.16 TRUE FALSE FALSE 293.5701822 202.7634889 123.7630504 122.944581 214.0487679 138.0424711 123.3859785 122.5822182 225.1323067 291.1959538 1.00815337 0.696312865 0.425016381 0.422205664 0.735067796 0.474053534 0.423721473 0.420961269 0.773129928 1 8.185846499 -7.084302396 2.909661547 1.004808556 0.489947394 0.735937187 0.116158444 0.063539399 1.04654685 0.015611128 0.019669859 8.24E-08 7.084302396 -0.514861162 TNPPTQKPPS(ph)PPMSGR ddPTM_HeLa_SAHA_4h_R1 3 TNPPTQKPPSPPMSGR 16 1 A0A0A0MRT6;Q8IZP0-2;Q8IZP0-4;Q8IZP0-3;Q8IZP0-5;Q8IZP0-6;Q8IZP0-9;Q8IZP0-12;Q8IZP0;B6VEX4;Q8IZP0-11;Q8IZP0-10;Q8IZP0-8;Q8IZP0-7 A0A0A0MRT6 ABI1 Abl interactor 1 1 0 TNPPT(0.002)QKPPS(0.846)PPMS(0.153)GR;TNPPT(0.051)QKPPS(0.678)PPMS(0.27)GR;TNPPT(0.01)QKPPS(0.891)PPMS(0.099)GR ;; 69.081 0.014894 265805000 5285.8 4894.2 5276.8 4881.2 5004.4 5781.7 5597.2 5166.4 5631.9 5526.3 TRUE FALSE FALSE 5841.784696 5052.775291 5995.894824 4975.682684 4620.963953 5289.066633 4967.388325 5034.250969 5592.707149 5764.565838 1.013395433 0.87652313 1.040129472 0.863149598 0.801615262 0.91751344 0.861710745 0.873309649 0.970187054 1 12.49299624 -6.249532203 24.47092837 0.99699088 0.862929739 0.573344343 0.049211941 261.4687807 537354.7923 0.00710492 0.01172037 5.63E-07 6.249532203 -0.134061141 TNPS(ph)PTNPFSSDLQK ddPTM_HeLa_SAHA_4h_R1 2 TNPSPTNPFSSDLQK 15 0 G3V3Z8;P49757-9;P49757-8;P49757-7;P49757-6;P49757-5;P49757-4;P49757-2;P49757-3;P49757 G3V3Z8 NUMB Protein numb homolog 1 0 T(0.013)NPS(0.705)PT(0.282)NPFSSDLQK;T(0.014)NPS(0.863)PT(0.124)NPFSSDLQK ; 191.15 4.83E-09 18163500 5744 5492.8 5517.7 5263.2 6445.2 7035.3 5995.9 5804.5 6355.4 5637.8 TRUE FALSE FALSE 6348.180274 5670.770324 6269.623421 5365.076847 5951.370168 6435.85286 5321.225552 5656.029295 6311.172254 5880.873149 1.079462201 0.964273532 1.066104176 0.912292565 1.011987509 1.094370291 0.904835969 0.961766927 1.073169255 1 12.52181466 -6.291938972 24.99872452 1.033766505 0.981497387 0.197849786 0.059482238 1011.760613 829278.2674 0.009318361 0.014235079 5.11E-07 6.291938972 -0.052269118 TNQELQEINR ddPTM_HeLa_SAHA_4h_R1 4 TNQELQEINR 10 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33;H0YKS4;H0YNA0;H0YN52;H0YMM1;H0YLE2 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ;;; ;;; 184.71 4.59E-17 42387700 3644.88 3788.74 3540.41 3455.5 4353.37 4006.94 4049.83 3349.66 4050.84 3776.44 FALSE FALSE TRUE 4028.265202 3911.497662 4022.878637 3522.386199 4019.815731 3665.52617 3594.13247 3263.980547 4022.649875 3939.26081 1.022594186 0.992952193 1.021226781 0.894174407 1.020449248 0.930511166 0.912387537 0.828576909 1.021168709 1 11.94370922 -2.445995327 0.438113008 1.010548724 7.68E-19 0.706759715 0.035217711 7.490090199 0.280657062 0.007323403 5.600721639 0.003581003 2.445995327 -1.010548724 TNS(ph)MGSATGPLPGTK ddPTM_HeLa_SAHA_4h_R1 1 TNSMGSATGPLPGTK 15 0 O15014 O15014 ZNF609 Zinc finger protein 609 1 0 T(0.036)NS(0.964)MGSATGPLPGTK 100.69 0.0074654 16775000 1406.2 1664.2 1217.3 1453.9 2044.5 1257.3 1584.9 1841.9 1623.6 1374.7 TRUE FALSE FALSE 1554.110568 1718.121172 1383.187305 1482.042337 1887.850852 1150.170967 1406.562881 1794.786865 1612.301235 1433.970045 1.083781752 1.198156948 0.964585913 1.033523917 1.316520424 0.802088559 0.980887213 1.251620891 1.124361866 1 10.48579917 -9.206801029 1.061679216 1.00192735 1.072739734 0 0.147187014 1.601570211 3.365469237 0.07927068 0.024744598 6.21E-10 9.206801029 0.070812384 TNS(ph)MQQLEQWIK ddPTM_HeLa_SAHA_4h_R1 2 TNSMQQLEQWIK 12 0 B4DJX4;Q9HAU0-8;Q9HAU0;Q9HAU0-2;Q9HAU0-4;Q9HAU0-6;A0JP02;Q9HAU0-5;Q9HAU0-3 B4DJX4 PLEKHA5 Pleckstrin homology domain-containing family A member 5 1 0 TNS(1)MQQLEQWIK;T(0.008)NS(0.992)MQQLEQWIK ; 182.37 1.12E-05 13006100 2124.02 1419.4 1334.72 2569.13 1860.37 2094.78 2319.5 2473.62 1848.81 1347.41 TRUE FALSE FALSE 2347.434169 1465.389491 1516.608691 2618.859226 1717.828853 1916.292959 2058.503755 2410.348382 1835.943981 1405.503439 1.670173195 1.042608257 1.079050146 1.863289091 1.222216043 1.363421039 1.464602432 1.714935955 1.306253638 1 10.45687127 -9.551756913 1.286301313 0.997176089 1.442406788 0.102302932 0.270648259 0.476448625 1.39775946 0.18720057 0.043103211 2.81E-10 9.551756913 0.445230699 TNS(ph)PGFQK ddPTM_HeLa_SAHA_4h_R1 1 TNSPGFQK 8 0 A0A087X0H9;Q5T8P6-3;Q5T8P6-2;Q5T8P6;Q5T8P6-5;Q5T8P6-4 A0A087X0H9 RBM26 RNA-binding protein 26 1 0 T(0.014)NS(0.986)PGFQK 86.344 0.021461 16493000 6017.1 6071.4 5045.8 6153.9 6070 6606.1 6430.5 5830.1 7351.7 6190.1 TRUE FALSE FALSE 6650.006185 6268.117344 5733.415347 6273.017633 5604.917911 6043.223115 5706.923216 5680.974484 7300.538921 6456.985505 1.029893312 0.970749793 0.887939944 0.971508706 0.868039414 0.935920192 0.88383708 0.879818373 1.130641987 1 12.65664507 -6.952497361 3.689527278 1.01385825 0.906511585 0.640143454 0.047286947 0.081349442 2.322794644 0.004735208 0.006221911 1.12E-07 6.952497361 -0.107346665 TNS(ph)SSSSPVVLK ddPTM_HeLa_SAHA_4h_R1 1 TNSSSSSPVVLK 12 0 E9PMC9;Q7Z589-6;Q7Z589;Q7Z589-5;Q7Z589-4;Q7Z589-7;Q7Z589-2 E9PMC9 C11orf30;EMSY Protein EMSY 1 0 T(0.03)NS(0.477)S(0.477)S(0.015)SS(0.001)PVVLK 180.95 1.84E-05 24746000 1947.8 1893.6 1623.3 1965.4 1935.9 1601.5 2142.1 1867.6 1907.2 1971.5 TRUE FALSE FALSE 2152.678541 1954.953882 1844.51487 2003.443159 1787.57176 1465.04319 1901.06527 1819.829496 1893.92764 2056.501013 1.046767557 0.950621405 0.896919018 0.974199938 0.869229701 0.712396046 0.924417376 0.884915439 0.920946612 1 11.00597607 -6.471690075 0.983094388 1.02167508 0.849475763 0.341930395 0.069673889 0.277374882 0.534488441 0.011919572 0.022246419 3.38E-07 6.471690075 -0.172199317 TNS(ph)TGGSSGSSVGGGSGK ddPTM_HeLa_SAHA_4h_R1 3 TNSTGGSSGSSVGGGSGK 18 0 X6RM00;G8JLD3;X6RLX0;Q8IUD2-5;Q8IUD2-4;Q8IUD2-2;Q8IUD2-3;Q8IUD2;K7EKH8;K7EIZ7 X6RM00 ERC1 ELKS/Rab6-interacting/CAST family member 1 1 0 T(0.001)NS(0.495)T(0.495)GGS(0.009)SGSSVGGGSGK;T(0.002)NS(0.716)T(0.282)GGSSGSSVGGGSGK;T(0.025)NS(0.878)T(0.097)GGSSGSSVGGGSGK ;; 241.13 1.98E-37 20496090 915.13 1005.24 1420.89 965.85 1465.39 1521.78 1758.02 1206.26 1484.99 2181.25 TRUE FALSE FALSE 1011.387572 1037.810436 1614.52149 984.5454234 1353.112135 1392.115783 1560.202963 1175.405616 1474.655834 2275.294362 0.444508451 0.456121394 0.709587962 0.432711231 0.594697617 0.611839859 0.685714775 0.516594967 0.648116507 1 11.15183749 -9.348014962 1.019809991 1.005547679 0.554091921 0.249880833 0.139831382 0.210543825 0.384337062 0.069889066 0.017402768 4.49E-10 9.348014962 -0.451455758 TNSGISSASGGSTEPT(ph)TPDSERPAQALLR ddPTM_HeLa_SAHA_4h_R1 2 TNSGISSASGGSTEPTTPDSERPAQALLR 29 1 A2A2F0;Q86X10-4;Q86X10-2;Q86X10-3;Q86X10;A0A0J9YW54 A2A2F0 RALGAPB Ral GTPase-activating protein subunit beta 1 0 TNSGISSASGGSTEPT(0.489)T(0.489)PDS(0.02)ERPAQALLR;T(0.001)NS(0.002)GIS(0.001)S(0.001)ASGGS(0.001)T(0.002)EPT(0.465)T(0.465)PDS(0.064)ERPAQALLR ; 92.363 1.08E-07 18906900 1802.98 1533.96 869.72 1692.26 2039.72 3405.72 1933.36 3663.2 4449.26 2721 TRUE FALSE FALSE 1992.625709 1583.66131 988.2409123 1725.016139 1883.437094 3115.533496 1715.813244 3569.500648 4418.297237 2838.315626 0.702045146 0.557958141 0.348178653 0.607760505 0.663575635 1.097669853 0.604518126 1.257612302 1.556661703 1 11.47081931 -5.271241726 24.3757558 0.763137093 0.948391904 0.06896625 0.342638472 921.1425446 2290632.168 0.038382956 0.086856717 5.35E-06 5.271241726 0.185254811 TNSMGS(ph)ATGPLPGTK ddPTM_HeLa_SAHA_4h_R1 1 TNSMGSATGPLPGTK 15 0 O15014 O15014 ZNF609 Zinc finger protein 609 1 0 T(0.002)NS(0.096)MGS(0.9)AT(0.002)GPLPGTK 140.68 0.00014543 20317000 2960.1 3054.2 2848.3 2932.8 3690.5 2912.8 3787.5 3843.4 3515.5 3128.4 TRUE FALSE FALSE 3271.456899 3153.158084 3236.451491 2989.568585 3407.734687 2664.613053 3361.320532 3745.091393 3491.035349 3263.280634 1.002505535 0.966254036 0.991778475 0.916123656 1.044266513 0.816544255 1.030043355 1.147646131 1.069793175 1 11.67210735 -7.302219898 21.62280903 1.00118318 0.982181734 0.014485101 0.083892452 549.1864357 291189.2328 0.013285454 0.015192845 4.99E-08 7.302219898 -0.019001446 TNSMSSSGLGS(ph)PNR ddPTM_HeLa_SAHA_4h_R1 6 TNSMSSSGLGSPNR 14 0 F8VQD8;A0A087X050;F8VVY1;F8VX63;F8VUB4;F8VV52;F8VP97;Q9NZN8-4;Q9NZN8-5;Q9NZN8 F8VQD8 CNOT2 CCR4-NOT transcription complex subunit 2 1 0 TNSMSSSGLGS(0.999)PNR;TNSMSSSGLGS(1)PNR;TNSMSSSGLGS(1)PNR;TNSMSSSGLGS(1)PNR;TNSMSSSGLGS(1)PNR;TNSMS(0.001)SSGLGS(0.999)PNR ;;;;; 175.27 1.31E-06 329941500 7379.23 7541.19 6759.1 7352.12 8158.72 8707.36 8483.57 7635.34 7853.55 7593.39 TRUE FALSE FALSE 8155.411269 7785.529504 7680.194948 7494.430914 7533.600636 7965.443942 7528.976376 7440.039059 7798.896506 7920.778204 1.029622476 0.982924822 0.969626311 0.94617356 0.951118746 1.005639059 0.950534933 0.939306577 0.984612409 1 12.95142646 -6.981952891 2.959123584 1.013912426 0.960880694 0.460941419 0.02076148 0.133295129 2.392264337 0.0034193 0.004462766 1.04E-07 6.981952891 -0.053031731 TNSSSS(ph)SPVVLK ddPTM_HeLa_SAHA_4h_R1 1 TNSSSSSPVVLK 12 0 E9PMC9;Q7Z589-6;Q7Z589;Q7Z589-5;Q7Z589-4;Q7Z589-7;Q7Z589-2 E9PMC9 C11orf30;EMSY Protein EMSY 1 0 TNS(0.045)S(0.163)S(0.163)S(0.624)S(0.004)PVVLK 250.05 5.15E-32 26836000 4857.1 5157.5 4165.1 4612.9 5190.9 4093.9 5305 4570.2 5039.2 5188 TRUE FALSE FALSE 5367.992063 5324.606384 4732.698137 4702.18935 4793.174363 3745.076688 4708.067438 4453.300902 5004.131797 5411.680069 0.99192709 0.983910046 0.874533985 0.868896404 0.885709115 0.692035863 0.869982589 0.822905428 0.924690989 1 12.40186084 -6.460397292 1.056701981 0.998829522 0.810078244 0.614169573 0.054606883 0.173584333 0.386181039 0.008479069 0.01558295 3.46E-07 6.460397292 -0.188751278 TNSTFNQVVLK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 TNSTFNQVVLKR 12 1 G3V203;H0YHA7;J3QQ67;Q07020-2;Q07020;F8VYV2;A0A075B7A0 G3V203 RPL18 60S ribosomal protein L18 0 1 ; TNSTFNQVVLK(1)R;TNSTFNQVVLK(1)R 128.85 0.00033645 2487900 0 0 157.84 144.46 329.51 280.58 452.37 320.29 285.33 0 FALSE TRUE FALSE 0 0 179.3496132 147.2562322 304.263015 256.6730055 401.468137 312.0974456 283.3443653 0 0 TNSTGGS(ph)SGSSVGGGSGK ddPTM_HeLa_SAHA_4h_R1 1 TNSTGGSSGSSVGGGSGK 18 0 X6RM00;G8JLD3;X6RLX0;Q8IUD2-5;Q8IUD2-4;Q8IUD2-2;Q8IUD2-3;Q8IUD2;K7EKH8;K7EIZ7 X6RM00 ERC1 ELKS/Rab6-interacting/CAST family member 1 1 0 TNS(0.231)T(0.231)GGS(0.526)S(0.007)GS(0.005)SVGGGSGK 188.54 8.87E-13 14499000 1977.8 1344.8 1987.8 1633.1 1776.8 2788.6 2713.8 1666.5 1815.2 3220.3 TRUE FALSE FALSE 2185.834078 1388.372402 2258.687032 1664.711012 1640.661968 2550.995592 2408.436082 1623.873343 1802.567875 3359.142893 0.650711848 0.413311504 0.672399807 0.495576123 0.488416843 0.7594186 0.716979348 0.483418954 0.53661542 1 11.71387745 -8.760901788 0.735086825 0.995041942 0.584527628 0 0.176744059 0.303108573 0.316966481 0.066444418 0.024571518 1.73E-09 8.760901788 -0.410514314 TNT(ph)PQGVLPSSQLK ddPTM_HeLa_SAHA_4h_R1 3 TNTPQGVLPSSQLK 14 0 Q14004-2;Q14004;A0A2R8Y7W5;A0A2R8Y4Z0;A0A2R8YF61 Q14004-2 CDK13 Cyclin-dependent kinase 13 1 0 T(0.023)NT(0.977)PQGVLPSSQLK;T(0.024)NT(0.972)PQGVLPS(0.003)S(0.001)QLK;T(0.02)NT(0.973)PQGVLPS(0.002)S(0.004)QLK ;; 169.15 6.54E-06 26090100 5658.4 6332.3 5923.8 6411.4 6490.4 4520.1 6127.9 6133 7726.3 6765 TRUE FALSE FALSE 6253.576474 6537.470675 6731.064614 6535.501918 5993.106954 4134.962051 5438.372564 5976.12674 7672.532049 7056.672257 0.886193413 0.926424019 0.953858188 0.926145027 0.849282315 0.585964871 0.770670986 0.846876052 1.087273402 1 12.78477229 -5.545205372 4.254781379 0.941969992 0.734378371 0.612191972 0.080592488 0.098629223 4.159713649 0.010499878 0.022458439 2.85E-06 5.545205372 -0.207591621 TNT(ph)PVKEDWNVR ddPTM_HeLa_SAHA_4h_R1 1 TNTPVKEDWNVR 12 1 P78347-2;P78347-4;P78347-3;P78347;A0A494C1K3;A0A494C0Q7 P78347-2 GTF2I General transcription factor II-I 1 0 T(0.049)NT(0.951)PVKEDWNVR 90.476 0.013272 43561000 4026.2 3723.3 3673 3593.9 4697.2 3398 3458.2 3930.7 4723.1 4373.2 TRUE FALSE FALSE 4449.694189 3843.937363 4173.537312 3663.465131 4337.301551 3108.471283 3069.074235 3830.158386 4690.231563 4561.750054 0.975435773 0.842645326 0.914898287 0.803083266 0.95079772 0.681420781 0.672784392 0.83962478 1.02816496 1 12.15537169 -6.177138641 0.481618983 1.00134525 0.713763796 0.604901016 0.074948529 0.542188742 0.231449671 0.020994948 0.067011307 6.65E-07 6.177138641 -0.287581453 TNTEEKNTLPS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 TNTEEKNTLPSK 12 1 H3BU88;A0A087X1C1;P0CG35;P0CG34 H3BU88 TMSB15B;TMSB15A Thymosin beta-15B;Thymosin beta-15A 1 0 TNT(0.001)EEKNT(0.344)LPS(0.656)K 81.789 0.011899 7920700 682.82 653.58 750.8 729.19 699.87 704.59 737.22 606.18 776.88 761.11 TRUE FALSE FALSE 754.6421405 674.7564208 853.115114 743.3045269 646.2461118 644.5549681 654.2660653 590.6747933 771.4736288 793.9251769 0.95052048 0.849899261 1.074553546 0.936240024 0.813988686 0.811858582 0.824090335 0.743993024 0.971720826 1 9.632859237 -5.79484182 3.812136485 0.972401807 0.798946702 0.684268588 0.055398406 0.094970284 2.926109935 0.008102849 0.015777648 1.60E-06 5.79484182 -0.173455105 TNYNDRYDEIR ddPTM_HeLa_SAHA_4h_R1 3 TNYNDRYDEIR 11 1 P62424;Q5T8U2 P62424 RPL7A 60S ribosomal protein L7a 0 0 ;; ;; 123.01 0.0029328 39659000 7521.8 7208.3 6640.1 8316.4 8794.3 9720.5 8251.8 7967.6 10117.1 8304.4 FALSE FALSE TRUE 8312.977435 7441.85365 7544.978248 8477.375948 8120.482634 8892.258714 7323.285746 7763.800329 10046.69428 8662.443325 0.959657353 0.859094065 0.870998859 0.978635661 0.937435586 1.026530089 0.845406483 0.89625987 1.159799135 1 13.08055829 -7.638735818 2.741160618 0.984964889 0.919094919 0.282493267 0.07654617 0.272613765 4.317509308 0.010301765 0.010682427 2.30E-08 7.638735818 -0.06586997 TNYNDRYDEIRR ddPTM_HeLa_SAHA_4h_R1 4 TNYNDRYDEIRR 12 2 P62424;Q5T8U2 P62424 RPL7A 60S ribosomal protein L7a 0 0 ;;; ;;; 69.721 0.018065 229434000 8986.7 6744.2 8958 8108.2 10119.8 9153.8 10432.7 6951.8 6922.3 8945.1 FALSE FALSE TRUE 9931.962338 6962.716505 10178.74959 8265.145936 9344.42311 8373.844742 9258.785139 6773.983022 6874.127151 9330.767037 1.064431498 0.746210518 1.090880262 0.885794909 1.001463553 0.897444413 0.992285533 0.725983512 0.736716191 1 13.18777997 -2.321550135 0.362116253 1.018268571 4.53E-23 0 0.137174561 20.91052814 0.629512884 0.02820557 12.58723952 0.004769248 2.321550135 -1.018268571 TPAAAAAMNLAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 TPAAAAAMNLASPR 14 0 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 TPAAAAAMNLAS(1)PR;TPAAAAAMNLAS(1)PR;TPAAAAAMNLAS(1)PR;TPAAAAAMNLAS(1)PR ;;; 195.6 4.34E-09 153517000 2050.73 2118.59 1704.72 2042.97 2183.86 2468.54 2056.11 1949.79 1956.65 1798.22 TRUE FALSE FALSE 2266.43519 2187.233706 1937.030364 2082.514639 2016.533119 2258.206504 1824.751091 1899.917195 1943.033513 1875.750064 1.208282081 1.16605818 1.032669757 1.110230344 1.075054271 1.203895203 0.972811424 1.012883982 1.035870157 1 10.87325189 -4.731402812 24.99998916 1.105300257 0.992847562 0.296203866 0.068515458 243.6343134 202777.8903 0.011839558 0.044288386 1.86E-05 4.731402812 -0.112452696 TPAAPAS(ph)PAAVPSEGSGGSTTGWR ddPTM_HeLa_SAHA_4h_R1 4 TPAAPASPAAVPSEGSGGSTTGWR 24 0 P07199 P07199 CENPB Major centromere autoantigen B 1 0 T(0.041)PAAPAS(0.959)PAAVPSEGSGGSTTGWR;TPAAPAS(1)PAAVPSEGSGGSTTGWR;TPAAPAS(1)PAAVPSEGSGGSTTGWR;TPAAPAS(1)PAAVPSEGSGGSTTGWR ;;; 215.88 2.06E-30 129267000 7207.7 6648 5693 6743.2 7251.6 8181.9 7572.5 6857.8 7123 7529.5 TRUE FALSE FALSE 7965.838956 6863.399562 6468.812392 6873.724387 6695.983975 7484.75609 6720.42237 6682.387406 7073.430463 7854.133593 1.014222493 0.873858266 0.823618839 0.875172838 0.852542664 0.952970305 0.855654197 0.850811528 0.900599713 1 12.93923642 -7.258272555 23.2893107 1.006716181 0.869763248 0.462065575 0.04616892 31.93706095 234869.2772 0.005279615 0.006316926 5.52E-08 7.258272555 -0.136952933 TPADIIS(ph)TVEFNHT(ph)GELLAT(ph)GDK ddPTM_HeLa_SAHA_4h_R1 1 TPADIISTVEFNHTGELLATGDK 23 0 Q9Y2T4-2 Q9Y2T4-2 PPP2R2C Serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B gamma isoform 3 0 T(0.043)PADIIS(0.809)T(0.366)VEFNHT(0.785)GELLAT(0.997)GDK 47.75 0.02023 3457500 892.28 943.75 1397.3 1169.7 938.85 1013.5 1299.4 1278.7 1548.8 913.54 TRUE FALSE FALSE 986.1341043 974.3281192 1587.716767 1192.341235 866.9155158 927.1440982 1153.188092 1245.992706 1538.021775 952.9271802 1.034847284 1.022458105 1.666147005 1.251240661 0.90973952 0.972943282 1.210153426 1.307542414 1.613997173 1 9.896222162 -6.939057109 24.99999998 1.017088908 1.207748944 0 0.268855917 94.22995978 38654.43145 0.032246548 0.042380271 1.15E-07 6.939057109 0.190660035 TPADRGPS(ph)PAPAPAASPQPGSR ddPTM_HeLa_SAHA_4h_R1 2 TPADRGPSPAPAPAASPQPGSR 22 1 Q8IX07 Q8IX07 ZFPM1 Zinc finger protein ZFPM1 1 0 T(0.001)PADRGPS(0.996)PAPAPAAS(0.003)PQPGSR;TPADRGPS(1)PAPAPAASPQPGSR ; 101.48 0.00017664 6116800 445.603 311.63 455.86 394.03 513.27 695.58 498.45 416 509.07 489.31 TRUE FALSE FALSE 492.473568 321.7270165 517.9822268 401.6570204 473.9433635 636.3126708 442.3630942 405.3593224 505.5273404 510.4065487 0.964865301 0.630334813 1.014842439 0.786935476 0.928560507 1.246678109 0.866687732 0.794189109 0.990440545 1 8.995503029 -7.502022129 24.37477601 0.984499516 0.901556769 0.068161806 0.152443497 306.189652 357845.293 0.026550012 0.028478067 3.15E-08 7.502022129 -0.082942747 TPAPEPEPCEASELPAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 TPAPEPEPCEASELPAKR 18 1 H0Y5D5;A0A494C0L7;Q9BTG3;Q5SYW2;F5H2X7;Q9ULV3-5;Q9ULV3-3;Q9ULV3-4;Q9ULV3-2;Q9ULV3 H0Y5D5 CIZ1 Cip1-interacting zinc finger protein 0 1 ; TPAPEPEPCEASELPAK(1)R;TPAPEPEPCEASELPAK(1)R 187.74 1.19E-18 3006600 0 0 63.087 0 0 167.43 0 0 0 0 FALSE TRUE FALSE 0 0 71.68416782 0 0 153.1640221 0 0 0 0 0 TPAPPEPGS(ph)PAPGEGPSGR ddPTM_HeLa_SAHA_4h_R1 3 TPAPPEPGSPAPGEGPSGR 19 0 P0C1Z6-2;P0C1Z6 P0C1Z6-2 TFPT TCF3 fusion partner 1 0 TPAPPEPGS(1)PAPGEGPSGR;T(0.033)PAPPEPGS(0.967)PAPGEGPSGR;T(0.001)PAPPEPGS(0.999)PAPGEGPSGR ;; 187.04 9.80E-14 43102200 2166.64 2607.05 1942.53 2061.29 2448.78 2556.4 2300.14 2408.98 2892.94 2451.92 TRUE FALSE FALSE 2394.537136 2691.520131 2207.247872 2101.189249 2261.155005 2338.580338 2041.322194 2347.36178 2872.807795 2557.634271 0.936231252 1.052347539 0.863003713 0.821536243 0.884080664 0.91435291 0.798129043 0.917786334 1.123228535 1 11.32059427 -6.732384077 24.98037303 0.975230126 0.864307469 0.550741999 0.064769796 108.6513871 93413.08663 0.007093168 0.010030329 1.85E-07 6.732384077 -0.110922658 TPAQFDADELR ddPTM_HeLa_SAHA_4h_R1 3 TPAQFDADELR 11 0 P04083;Q5T3N1 P04083 ANXA1 Annexin A1;Annexin 0 0 ;; ;; 158.56 0.0013805 116446800 2477.05 2340.32 2308.76 2676.8 2568.67 2897.86 3053.17 2494.52 2204.33 1917.02 FALSE FALSE TRUE 2737.597484 2416.147904 2623.385789 2728.613335 2371.85906 2650.946025 2709.619276 2430.71379 2188.989888 1999.672114 1.369023184 1.20827204 1.311907973 1.364530373 1.186123987 1.32569035 1.355031786 1.215556177 1.094674408 1 10.96554775 -9.370808724 0.948264735 0.988824368 1.297851128 0.655838681 0.069669068 0.232707169 0.352253908 0.05185772 0.011613345 4.26E-10 9.370808724 0.30902676 TPAQYDASELK ddPTM_HeLa_SAHA_4h_R1 3 TPAQYDASELK 11 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YM50;H0YNP5;H0YKS4;H0YMM1;H0YKX9;H0YMT9;H0YLV6;H0YKZ7;H0YMW4 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ;; ;; 174.77 3.44E-05 55614000 6458.1 6688.4 6286.1 6200 7446.8 6676.5 7108.4 5838.4 5080.4 5899.4 FALSE FALSE TRUE 7137.392589 6905.108548 7142.736971 6320.009965 6876.227793 6107.624639 6308.544124 5689.062182 5045.045083 6153.752005 1.15984404 1.122097306 1.160712516 1.027017332 1.117404112 0.992504188 1.025154104 0.924486748 0.819832369 1 12.58725059 -4.486259565 1.009967229 1.086146675 0.891209706 0.072851973 0.099819119 1.251298409 1.254971927 0.010869196 0.240466196 3.26E-05 4.486259565 -0.194936969 TPAS(ph)PHFR ddPTM_HeLa_SAHA_4h_R1 2 TPASPHFR 8 0 P29590-2 P29590-2 PML Protein PML 1 0 TPAS(1)PHFR;TPAS(1)PHFR ; 108.47 0.0054451 16481800 2151.4 1821.01 2179.82 2300.1 2303.2 2266.14 2592.1 2192.77 2610.1 1973.46 TRUE FALSE FALSE 2377.694123 1880.011919 2476.874518 2344.621762 2126.729314 2073.052123 2300.430086 2136.682118 2591.936102 2058.545518 1.155035972 0.913271969 1.203215812 1.138970084 1.033122316 1.007047017 1.117502657 1.037957188 1.259110415 1 11.00740963 TPASKS(ph)PSEGQTATTSPR ddPTM_HeLa_SAHA_4h_R1 1 TPASKSPSEGQTATTSPR 18 1 P25054-2;P25054-3;P25054 P25054-2 APC Adenomatous polyposis coli protein 1 0 T(0.078)PAS(0.062)KS(0.823)PS(0.033)EGQT(0.003)ATTSPR 77.51 0.0045412 9922700 1013.8 1283.1 805.29 1182.5 1102.6 1377.7 1143.9 1277.5 1350.6 1012.6 TRUE FALSE FALSE 1120.436135 1324.673282 915.0307274 1205.388997 1018.119026 1260.312209 1015.185361 1244.8234 1341.201065 1056.258142 1.060759763 1.254118884 0.866294603 1.141187888 0.96389224 1.193185794 0.961114827 1.178521945 1.269766369 1 10.04474675 -8.680651164 1.033729344 1.006224729 1.072646655 0 0.14129325 1.063143558 2.283840005 0.039029161 0.02004688 2.09E-09 8.680651164 0.066421926 TPAST(ph)PVSGTPQAS(ph)PMIER ddPTM_HeLa_SAHA_4h_R1 1 TPASTPVSGTPQASPMIER 19 0 Q9UHR4 Q9UHR4 BAIAP2L1 Brain-specific angiogenesis inhibitor 1-associated protein 2-like protein 1 2 0 T(0.029)PAS(0.358)T(0.611)PVS(0.001)GT(0.001)PQAS(1)PMIER 114.9 0.013641 14574000 1085 945.83 780.6 1129.7 1096.9 1137.6 1182.3 1045.8 1574.8 1157.8 TRUE FALSE FALSE 1199.125278 976.4755126 886.9761028 1151.566977 1012.855759 1040.67008 1049.264492 1019.04995 1563.840839 1207.718424 0.99288481 0.808529118 0.734422929 0.953506177 0.838652238 0.861682706 0.868798945 0.843781075 1.294872056 1 10.23806842 -7.271534511 23.83610489 0.996640059 0.845583945 0.473222172 0.107328544 157.7521473 372475.5357 0.008537824 0.009829189 5.35E-08 7.271534511 -0.151056114 TPASTPVSGT(ph)PQAS(ph)PMIER ddPTM_HeLa_SAHA_4h_R1 2 TPASTPVSGTPQASPMIER 19 0 Q9UHR4 Q9UHR4 BAIAP2L1 Brain-specific angiogenesis inhibitor 1-associated protein 2-like protein 1 2 0 T(0.003)PAS(0.007)T(0.011)PVS(0.083)GT(0.898)PQAS(0.998)PMIER;T(0.001)PAS(0.008)T(0.01)PVS(0.079)GT(0.902)PQAS(1)PMIER ; 105.92 0.0015578 10343400 580.36 811.81 546.9 576.43 720.62 856.62 629.62 715.63 1004.91 534.92 TRUE FALSE FALSE 641.4049276 838.1131766 621.4286839 587.5876362 665.4062513 783.6311568 558.7735005 697.3252208 997.9167495 557.983019 1.149506178 1.50204065 1.113705369 1.053056484 1.192520612 1.40439965 1.001416677 1.249724807 1.788435697 1 9.124077407 -8.411127807 1.08363134 1.022860718 1.205469861 0 0.281485511 0.488126706 1.17336798 0.044913744 0.0286597 3.88E-09 8.411127807 0.182609144 TPASTPVSGTPQAS(ph)PMIER ddPTM_HeLa_SAHA_4h_R1 2 TPASTPVSGTPQASPMIER 19 0 Q9UHR4 Q9UHR4 BAIAP2L1 Brain-specific angiogenesis inhibitor 1-associated protein 2-like protein 1 1 0 TPASTPVS(0.016)GT(0.005)PQAS(0.98)PMIER;TPASTPVSGTPQAS(1)PMIER ; 241.98 3.18E-41 49630000 1490.6 1419.66 1186.36 1413.06 1640.81 1893.63 1962.6 1823.74 2002.43 1487.39 TRUE FALSE FALSE 1647.388147 1465.657915 1348.030963 1440.41182 1515.091492 1732.282071 1741.763083 1777.091372 1988.494927 1551.518662 1.061790739 0.944660191 0.868846115 0.92838833 0.976521604 1.116507402 1.122618197 1.145388331 1.281644221 1 10.59946533 -5.216840197 6.432748329 1.000189379 1.128817108 0.21174127 0.104639937 0.170169343 18.61019812 0.009851256 0.025188355 6.07E-06 5.216840197 0.128627729 TPAT(ph)TPEAR ddPTM_HeLa_SAHA_4h_R1 1 TPATTPEAR 9 0 H7C477;H0Y7U4;A0A0C4DG98;Q8NI27-2;Q8NI27 H7C477 THOC2 THO complex subunit 2 1 0 T(0.068)PAT(0.466)T(0.466)PEAR 120.45 0.0020837 0 2707.9 2857.4 2275.1 2896.5 3592.1 4237.4 3363.3 3721 3372.4 3147.5 TRUE FALSE FALSE 2992.729346 2949.981635 2585.13878 2952.565946 3316.874074 3876.349681 2984.852632 3625.822208 3348.931194 3283.204128 0.911527042 0.898506922 0.787382898 0.899294053 1.010255209 1.180660577 0.909127948 1.104354791 1.020019183 1 11.68088873 -5.56823676 6.347869445 0.934812997 1.056594187 0.357286673 0.087082919 0.184468109 18.09587065 0.012824841 0.026013208 2.70E-06 5.56823676 0.12178119 TPAVEGLTEAEEEELRAELTK ddPTM_HeLa_SAHA_4h_R1 2 TPAVEGLTEAEEEELRAELTK 21 1 O43399-2;O43399-4;O43399;O43399-3;O43399-5;O43399-7;A0A087WZ51;A0A087WYR3;O43399-6 O43399-2 TPD52L2 Tumor protein D54 0 0 ; ; 182.76 9.56E-11 8064100 1161.4 854.78 1159.47 1243.54 1224.01 1140.87 1249.49 921.76 1323.58 962.03 FALSE FALSE TRUE 1283.561381 882.4754328 1317.476533 1267.610515 1130.226618 1043.661458 1108.894097 898.1827139 1314.369099 1003.507821 1.279074615 0.879390687 1.312871216 1.263179507 1.126275844 1.040013277 1.105017891 0.895043063 1.309774644 1 9.970836146 -3.469858563 1.093199814 1.135879503 3.90E-16 0.234309576 0.137958654 10.35114197 2.781995055 0.021280856 20.67814863 0.000338955 3.469858563 -1.135879503 TPDTSTYCYETAEK ddPTM_HeLa_SAHA_4h_R1 1 TPDTSTYCYETAEK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 0 0 212.9 2.13E-16 3245100 529.63 492.99 351.92 357.78 443.75 507.77 433.62 462.5 561.8 474.2 FALSE FALSE TRUE 585.3389134 508.9631995 399.8778249 364.7053493 409.7499709 464.5051394 384.8279364 450.6699197 557.8903881 494.6450827 1.183351324 1.028946243 0.808413626 0.737307136 0.828371665 0.939067537 0.777987996 0.911097543 1.12785997 1 8.950249925 -6.848083913 4.568055741 1.08726152 0.831358035 0.757398436 0.070286728 0.09446369 3.560037924 0.014006817 0.018694133 1.42E-07 6.848083913 -0.255903485 TPEDGDYS(ph)YEIIEK ddPTM_HeLa_SAHA_4h_R1 2 TPEDGDYSYEIIEK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.157)PEDGDYS(0.843)YEIIEK;T(0.001)PEDGDYS(0.999)YEIIEK ; 153.79 4.61E-05 22436000 1945.72 2971.65 2391.41 2198.43 2881.2 3228.83 2372.13 2309.01 2907.49 2557.01 TRUE FALSE FALSE 2150.379757 3067.93341 2717.298901 2240.983792 2660.443078 2953.715519 2105.211689 2249.948868 2887.25654 2667.255215 0.806214473 1.150221168 1.018762241 0.840183489 0.997446013 1.107398911 0.789280185 0.84354465 1.082482293 1 11.38114016 TPEDGDYSYEIIEK ddPTM_HeLa_SAHA_4h_R1 4 TPEDGDYSYEIIEK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 0 0 ;;; ;;; 199.27 3.72E-11 21658800 3812.94 3725.83 3433.8 3688.49 3769.41 3827.94 3493 3875.76 3830.38 3050.62 FALSE FALSE TRUE 4214.002524 3846.549337 3901.740382 3759.886058 3480.59862 3501.777977 3099.958447 3776.623671 3803.724074 3182.147158 1.324263874 1.208790526 1.22613449 1.181556311 1.093789334 1.100445015 0.974171933 1.18681616 1.195332549 1 11.63578484 -5.687374691 4.846183657 1.169183125 1.07939701 0.209583803 0.090251078 0.411378887 17.86081401 0.019095375 0.038601692 2.05E-06 5.687374691 -0.089786115 TPEEGGYSYDISEKTT(ph)SPPEVSGYSYEK ddPTM_HeLa_SAHA_4h_R1 1 TPEEGGYSYDISEKTTSPPEVSGYSYEK 28 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 TPEEGGYSYDIS(0.002)EKT(0.156)T(0.791)S(0.051)PPEVSGYSYEK 122.44 1.19E-08 5329100 1098.9 562.93 1045.2 650.4 907.71 662.38 871.53 1207.4 129.03 902.84 TRUE FALSE FALSE 1214.487344 581.1693014 1187.634413 662.9894325 838.1614559 605.9414976 773.4631507 1176.516456 128.1320697 941.7658508 1.289585243 0.617105941 1.26107186 0.703985425 0.889989221 0.643409927 0.821290292 1.249266424 0.136055124 1 9.8792246 -7.277346867 24.99434649 1.136748583 0.879927063 0 0.38531025 893.1640596 1403364.621 0.037611749 0.043083596 5.28E-08 7.277346867 -0.25682152 TPEELDDS(ph)DFETEDFDVR ddPTM_HeLa_SAHA_4h_R1 4 TPEELDDSDFETEDFDVR 18 0 G3XAM7;P35221-3;P35221;P35221-2 G3XAM7 CTNNA1 Catenin alpha-1 1 0 TPEELDDS(1)DFETEDFDVR;T(0.003)PEELDDS(0.996)DFET(0.001)EDFDVR;TPEELDDS(1)DFETEDFDVR;TPEELDDS(1)DFETEDFDVR ;;; 245.18 1.22E-37 199608700 3351.69 3323.83 2930.32 3191.15 3555.86 4013.26 3718.09 3735.8 3475.69 3243.74 TRUE FALSE FALSE 3704.236132 3431.524273 3329.648749 3252.919323 3283.410775 3671.30767 3299.720728 3640.243645 3451.50239 3383.593506 1.094763932 1.01416564 0.984056963 0.961380059 0.970391617 1.08503213 0.975211922 1.075851351 1.020070048 1 11.72434054 -7.023832272 24.55235889 1.04526096 1.006083765 0.070408337 0.045765317 1013.851992 1044483.778 0.008503807 0.01044917 9.47E-08 7.023832272 -0.039177195 TPEFLR ddPTM_HeLa_SAHA_4h_R1 2 TPEFLR 6 0 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 0 0 ; ; 126.68 0.013372 8858800 4169.9 4021.8 3998.3 4014.9 3798.8 3893 3890.4 3876.89 3622 3391.6 FALSE FALSE TRUE 4608.509214 4152.108959 4543.167502 4092.614195 3507.736765 3561.294499 3452.641953 3777.724767 3596.794207 3537.828474 1.302637832 1.173632071 1.284168392 1.156815325 0.9914943 1.006632889 0.97592124 1.06780891 1.016667211 1 11.78864839 -5.766467426 23.5687536 1.161440206 1.007723281 0.366424835 0.093315269 62.30463519 292054.8371 0.017900886 0.033223092 1.71E-06 5.766467426 -0.153716925 TPESQPDT(ph)PPGTPLVSQDEKR ddPTM_HeLa_SAHA_4h_R1 2 TPESQPDTPPGTPLVSQDEKR 21 1 A0A0D9SEV0;M0R000;M0QYI1;A0A0D9SFD6;M0R3C8;A0A0D9SFL2;M0QYH2;Q96T60-2;Q96T60 A0A0D9SEV0 PNKP Bifunctional polynucleotide phosphatase/kinase;Polynucleotide 3-phosphatase;Polynucleotide 5-hydroxyl-kinase 1 0 T(0.002)PES(0.007)QPDT(0.98)PPGT(0.011)PLVSQDEKR;TPES(0.001)QPDT(0.986)PPGT(0.013)PLVSQDEKR ; 107.91 0.00023549 165848000 3267.7 3451.6 3369.2 3608.9 3821.7 4535.8 3938.6 3479.2 4339.2 4273.5 TRUE FALSE FALSE 3611.411679 3563.434105 3828.33703 3678.755478 3528.882172 4149.324322 3495.418362 3390.207102 4309.003154 4457.751499 0.810141992 0.799379262 0.858804496 0.825249115 0.791628284 0.930811043 0.784121404 0.760519536 0.96663153 1 12.12210048 -9.222990013 0.73882841 1.013113677 0.820740057 0.6655245 0.045960318 0.359759521 0.316850045 0.042389942 0.009175463 5.98E-10 9.222990013 -0.19237362 TPGDFSYAY(ph)QKPEETTRSPDEEDYDYESYEK ddPTM_HeLa_SAHA_4h_R1 1 TPGDFSYAYQKPEETTRSPDEEDYDYESYEK 31 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.007)PGDFS(0.033)Y(0.103)AY(0.384)QKPEET(0.333)T(0.07)RS(0.07)PDEEDYDYESYEK 80.733 2.71E-06 79869000 1209.3 1352.6 927.36 1127.1 1311.6 1639.8 1088.8 1369.7 1441.7 1326.1 TRUE FALSE FALSE 1336.499722 1396.425127 1053.735791 1148.91665 1211.105491 1500.079815 966.2853584 1334.665057 1431.667092 1383.274661 0.966185357 1.009506765 0.761769026 0.830577385 0.87553508 1.084441042 0.698549164 0.964859037 1.034983964 1 10.43387193 -6.7934603 24.99957285 0.98549644 0.869831501 0.290724038 0.100640383 197.3227032 154054.3397 0.015028167 0.019751746 1.61E-07 6.7934603 -0.115664939 TPGDFSYAYQKPEET(ph)TRSPDEEDYDYESYEK ddPTM_HeLa_SAHA_4h_R1 2 TPGDFSYAYQKPEETTRSPDEEDYDYESYEK 31 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.001)PGDFS(0.006)Y(0.008)AY(0.029)QKPEET(0.716)T(0.177)RS(0.062)PDEEDYDYESYEK;T(0.002)PGDFS(0.009)Y(0.01)AY(0.009)QKPEET(0.677)T(0.143)RS(0.143)PDEEDY(0.001)DY(0.004)ESYEK ; 82.169 4.47E-06 123606000 2245.82 3365.87 2644 2668.2 3095.89 3752 3180.02 2888.79 3650.5 3058.65 TRUE FALSE FALSE 2482.045652 3474.926396 3004.310551 2719.846869 2858.683577 3432.308492 2822.19578 2814.898935 3625.095873 3190.52337 0.777943103 1.089139929 0.941635651 0.852476711 0.895992051 1.075782276 0.884555746 0.882268709 1.136207278 1 11.63957739 -7.285941265 24.97845493 0.895139814 0.942922952 0 0.118044748 2221.630176 2264835.117 0.018648837 0.021331458 5.18E-08 7.285941265 0.047783138 TPGHPPPPEIPS(ph)ELGACDFEKPESPR ddPTM_HeLa_SAHA_4h_R1 1 TPGHPPPPEIPSELGACDFEKPESPR 26 1 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 1 0 TPGHPPPPEIPS(0.997)ELGACDFEKPES(0.003)PR 74.364 0.00014895 24850000 2173.5 2231.3 1693.7 2033.4 2396.4 2317.7 2210 2318.5 1891.5 2205.6 TRUE FALSE FALSE 2402.118702 2303.595584 1924.508616 2072.759397 2212.78835 2120.218921 1961.324984 2259.196127 1878.336897 2300.69421 1.044084299 1.001261086 0.836490398 0.900927811 0.961791593 0.92155616 0.852492685 0.981962799 0.816421795 1 11.16785353 -6.911910093 7.774904642 1.02090663 0.909395693 0 0.077193346 0.117083857 9.03040191 0.0067402 0.008871008 1.22E-07 6.911910093 -0.111510936 TPGHPPPPEIPSELGACDFEKPES(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 TPGHPPPPEIPSELGACDFEKPESPR 26 1 A0A669KB10;A0A669KBG8;Q92538-3;Q92538-2;Q92538 A0A669KB10 GBF1 Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 1 0 TPGHPPPPEIPS(0.106)ELGACDFEKPES(0.894)PR 47.537 0.016283 7938100 1173.5 1295.9 1171.8 1400.7 1509.5 1640.6 1304.8 1344.9 1537.8 1408.2 TRUE FALSE FALSE 1296.934114 1337.88801 1331.486802 1427.812574 1393.842436 1500.81165 1157.98047 1310.499405 1527.098325 1468.914394 0.882920148 0.910800531 0.906442749 0.972018914 0.948892898 1.021714851 0.788324 0.892155058 1.039610158 1 10.5205346 -9.441222278 1.150665275 1.000405496 0.914092521 0.314012018 0.059551576 0.601673806 1.414315389 0.041631341 0.010195584 3.62E-10 9.441222278 -0.086312974 TPGNGDGGSTSET(ph)PQPPR ddPTM_HeLa_SAHA_4h_R1 1 TPGNGDGGSTSETPQPPR 18 0 H0YNI8;H0YNX3;H0YLV1;H0YMT8;H0YM21;H0YNE0;H0YMJ0;H0YLJ3;B3KTM8;Q9UBU8-3;Q9UBU8-2;Q9UBU8 H0YNI8 MORF4L1 Mortality factor 4-like protein 1 1 0 T(0.299)PGNGDGGS(0.004)T(0.004)S(0.006)ET(0.688)PQPPR 95.554 0.00349 0 356.63 297.75 223.27 360.54 391.8 401.18 402.1 271.87 410.1 324.73 TRUE FALSE FALSE 394.1419797 307.3972954 253.6960729 367.518773 361.7803686 366.997207 356.8546497 264.9159591 407.2460807 338.7306995 1.163585055 0.907497596 0.748960969 1.084988085 1.068047181 1.083448319 1.053505485 0.782084291 1.202270952 1 8.403994935 -7.253542761 24.71038716 1.077248499 0.970174841 0.229835621 0.126423882 808.5956467 2530290.175 0.021801287 0.026447243 5.58E-08 7.253542761 -0.107073657 SLITGPSK(ac)LSR ddPTM_HeLa_SAHA_4h_R1 1 SLITGPSKLSR 11 1 A0A088AWL3;O75376;O75376-2;E7EVK1 A0A088AWL3 NCOR1 Nuclear receptor corepressor 1 0 1 SLITGPSK(1)LSR 108.31 0.0074921 2647300 1338.7 1300 1382.8 1994 2242.8 2672.9 4507 4598.5 1438.5 1516.3 FALSE TRUE FALSE 1479.510608 1342.120853 1571.240783 2032.596753 2070.957149 2445.153883 3999.860498 4480.877029 1428.489361 1581.675114 0.935407402 0.848543953 0.993402987 1.28509119 1.309344208 1.545926759 2.528876167 2.832994583 0.903149673 1 10.62723758 -4.656605717 0.918572766 0.965832125 3.388758706 0.968284356 0.118924753 0.138217336 0.127380345 0.018027904 0.289808217 2.20E-05 4.656605717 2.422926581 up TPGPPGLTTTPAPPDK(ac)LGGK(ac)QR ddPTM_HeLa_SAHA_4h_R1 2 TPGPPGLTTTPAPPDKLGGKQR 22 2 A0A1W2PQJ7;Q7Z5J4-3;Q7Z5J4-2;Q7Z5J4 A0A1W2PQJ7 RAI1 Retinoic acid-induced protein 1 0 2 ; TPGPPGLTTTPAPPDK(1)LGGK(1)QR;TPGPPGLTTTPAPPDK(1)LGGK(1)QR 167.69 2.99E-18 3631000 0 0 0 241.169 209.17 302.66 309.334 409.12 0 0 FALSE TRUE FALSE 0 0 0 245.8371747 193.1434398 276.8716653 274.5269242 398.6553028 0 0 0 TPGRPAQWPPWDPGACS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 TPGRPAQWPPWDPGACSR 18 1 J3QQL7 J3QQL7 SMARCD2 1 0 TPGRPAQWPPWDPGACS(1)R 60.918 0.014756 9573600 763.9 668.7 622.63 877.7 871.21 1130.6 995.63 1056.6 1039.8 1012.2 TRUE FALSE FALSE 844.2505069 690.3663188 707.4787739 894.6891527 804.458078 1034.266519 883.599092 1029.573702 1032.563947 1055.840896 0.79960012 0.653854498 0.670061916 0.847371187 0.761912217 0.979566641 0.836867653 0.975122015 0.977954114 1 10.04417674 -1.620622338 24.76127463 0.86432351 0.833222924 0 0.124350504 0 0 0.018335723 0 0.023953979 1.620622338 -0.031100586 TPGT(ph)PGTPSYPR ddPTM_HeLa_SAHA_4h_R1 1 TPGTPGTPSYPR 12 0 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 T(0.001)PGT(0.619)PGT(0.354)PS(0.026)YPR 165.35 0.00020582 51266000 1020 1181 1164.3 1115.5 1137.9 1276.2 904.34 1176.6 1243 1046.9 TRUE FALSE FALSE 1127.28828 1219.265175 1322.964741 1137.092116 1050.714348 1167.46058 802.5812831 1146.504276 1234.349862 1092.036982 1.032280315 1.116505388 1.211465144 1.041257882 0.962160041 1.06906689 0.734939655 1.049876785 1.130318736 1 10.092806 -4.807447463 24.99996033 1.037746475 0.892406004 0.291023408 0.101343421 104.4219165 56740.77741 0.013144626 0.03943408 1.56E-05 4.807447463 -0.145340471 TPGTPGT(ph)PSYPR ddPTM_HeLa_SAHA_4h_R1 1 TPGTPGTPSYPR 12 0 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 T(0.004)PGT(0.306)PGT(0.631)PS(0.059)YPR 141.34 0.0010917 50010000 1257.7 1317.2 1001 1572.6 1161.9 1472 1067.3 1268.9 1472.9 1256.9 TRUE FALSE FALSE 1389.990657 1359.878144 1137.411067 1603.039947 1072.875473 1346.577319 947.204595 1236.443375 1462.649969 1311.09111 1.060178538 1.037211017 0.86753015 1.222676239 0.818307336 1.027066165 0.722455204 0.943064418 1.115597503 1 10.35655223 -5.711495907 24.99999986 1.02854681 0.87729997 0.350753621 0.112824303 93.68120405 46893.02888 0.014176827 0.028353623 1.94E-06 5.711495907 -0.15124684 TPHDILEDINAS(ph)PEMR ddPTM_HeLa_SAHA_4h_R1 3 TPHDILEDINASPEMR 16 0 Q9Y6Q9-2;Q9Y6Q9-3;Q9Y6Q9-5;Q9Y6Q9;Q9Y6Q9-4 Q9Y6Q9-2 NCOA3 Nuclear receptor coactivator 3 1 0 TPHDILEDINAS(1)PEMR;TPHDILEDINAS(1)PEMR;TPHDILEDINAS(1)PEMR ;; 198.05 3.90E-15 23539400 1695.21 1795.24 1457.76 1957.56 2064.42 2002.32 2146.28 1623.57 1789.89 2123.92 TRUE FALSE FALSE 1873.519966 1853.406954 1656.415941 1995.451404 1906.244586 1831.711071 1904.774926 1582.04143 1777.43401 2215.492585 0.845644882 0.836566534 0.747651313 0.900680696 0.860415692 0.826773731 0.859752336 0.714081122 0.802274863 1 11.11341178 -9.064897156 0.510108479 1.028438653 0.820046437 0 0.080288135 0.666241386 0.266212958 0.067959121 0.013614632 8.61E-10 9.064897156 -0.208392216 TPHPVLT(ph)PVAANQAK ddPTM_HeLa_SAHA_4h_R1 2 TPHPVLTPVAANQAK 15 0 A0A494C1F2;P35658-2;P35658-4;P35658;P35658-3;P35658-5;A0A0A0MSW3;A0A494C104;H0Y837 A0A494C1F2 NUP214 Nuclear pore complex protein Nup214 1 0 T(0.001)PHPVLT(0.999)PVAANQAK;TPHPVLT(1)PVAANQAK ; 122.29 0.00079146 16704100 6362.7 6043.2 5043.2 6536.5 7992.6 8466.6 7118.2 6675.5 7461.7 6453.7 TRUE FALSE FALSE 7031.957979 6239.003645 5730.461032 6663.023409 7380.208715 7745.198048 6317.241402 6504.750376 7409.773422 6731.950591 1.044564704 0.92677502 0.851233377 0.989761187 1.096295734 1.150513205 0.938396876 0.966250463 1.100687434 1 12.71680887 TPHS(ph)PPLAK ddPTM_HeLa_SAHA_4h_R1 1 TPHSPPLAK 9 0 Q8IZW8 Q8IZW8 TNS4 Tensin-4 1 0 TPHS(1)PPLAK 95.477 0.010833 2833100 2072.1 2262 1900.3 2015.3 2335.7 2536 2475.6 2775.6 2458.5 2773.3 TRUE FALSE FALSE 2290.052985 2335.290284 2159.262988 2054.309046 2156.739171 2319.918533 2197.038973 2704.604171 2441.391098 2892.870535 0.791619589 0.807257102 0.746408442 0.710128234 0.745536015 0.801943435 0.759466746 0.93492057 0.843933757 1 11.49828604 -9.023567765 0.673335974 1.011845222 0.779213024 0.25581266 0.074121038 0.379541634 0.294664381 0.049237801 0.012622888 9.47E-10 9.023567765 -0.232632198 TPHTPGT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 TPHTPGTPK 9 0 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 T(0.021)PHT(0.075)PGT(0.904)PK 97.163 0.022185 2685000 2238.9 2199.6 2428.2 2844.1 2386.9 3114.7 2149.5 2373.1 3108.9 3488.7 TRUE FALSE FALSE 2474.397774 2270.868483 2759.10245 2899.151668 2204.016238 2849.310037 1907.632603 2312.399538 3087.264912 3639.11493 0.679944938 0.624016698 0.758179531 0.796663948 0.60564623 0.782967862 0.524202351 0.635429104 0.84835598 1 11.8293719 -9.809481993 0.391251418 1.186313505 0.65618094 0.492477947 0.094310047 1.514663342 0.221379096 0.352152936 0.027181866 1.55E-10 9.809481993 -0.530132565 TPHVQAVQGPLGS(ph)PPK ddPTM_HeLa_SAHA_4h_R1 7 TPHVQAVQGPLGSPPK 16 0 Q15149 Q15149 PLEC Plectin 1 0 TPHVQAVQGPLGS(1)PPK;TPHVQAVQGPLGS(1)PPK;TPHVQAVQGPLGS(1)PPK;TPHVQAVQGPLGS(1)PPK;TPHVQAVQGPLGS(1)PPK;TPHVQAVQGPLGS(1)PPK;TPHVQAVQGPLGS(1)PPK ;;;;;; 152.06 3.51E-05 57838000 19631.1 20989.9 16859.07 21927.8 20824.2 23825.7 19916.6 20515.2 24171.2 21597.4 TRUE FALSE FALSE 21695.98917 21669.98653 19156.53626 22352.24428 19228.65429 21795.61632 17675.53175 19990.45089 24002.99065 22528.56961 0.963043351 0.961889144 0.850321907 0.992173257 0.853523088 0.967465609 0.784582957 0.887337778 1.065446722 1 14.4594681 -3.084017002 0.159909879 1.02506967 0.601479845 0.472295413 0.058890718 20.03779516 0.374992133 0.106765424 1.808645764 0.000824106 3.084017002 -0.423589825 TPHVQAVQGPLGS(ph)PPKR ddPTM_HeLa_SAHA_4h_R1 1 TPHVQAVQGPLGSPPKR 17 1 Q15149 Q15149 PLEC Plectin 1 0 TPHVQAVQGPLGS(1)PPKR 58.796 0.021591 6740300 1704.7 2159.5 1367 1957.7 2043.3 2486.6 1914.8 1835.1 2531.9 2031.7 TRUE FALSE FALSE 1884.008167 2229.469217 1553.287641 1995.594114 1886.742795 2274.727691 1699.341665 1788.160799 2514.280302 2119.29653 0.888978083 1.051985499 0.732926053 0.941630435 0.89026843 1.073340922 0.801842329 0.843752054 1.186374944 1 11.04936975 -13.52287874 0.247420646 1.615107191 0.89165255 0.247250729 0.113427952 72.73343829 0.958560111 21.82110748 0.057166059 3.00E-14 13.52287874 -0.723454641 TPHYGSQT(ph)PLHDGSR ddPTM_HeLa_SAHA_4h_R1 1 TPHYGSQTPLHDGSR 15 0 O00267-2;O00267 O00267-2 SUPT5H Transcription elongation factor SPT5 1 0 TPHYGS(0.002)QT(0.998)PLHDGSR 102.47 0.0040788 4013500 643.62 1133.2 634.32 1002.1 1446.2 1364.1 976.79 1252.6 1420.2 1174 TRUE FALSE FALSE 711.3189046 1169.916424 720.7618262 1021.497095 1335.392468 1247.871006 866.8790184 1220.560306 1410.316713 1224.616885 0.580850152 0.955332592 0.588561071 0.834136052 1.090457338 1.018988894 0.707877728 0.99668747 1.15163912 1 10.25811477 -5.982613078 24.21539719 0.792717675 0.94334345 0.013944004 0.19247243 284.2849195 395930.3858 0.028195827 0.051100295 1.04E-06 5.982613078 0.150625774 TPIS(ph)PLK ddPTM_HeLa_SAHA_4h_R1 1 TPISPLK 7 0 Q9NQW6;Q9NQW6-2 Q9NQW6 ANLN Actin-binding protein anillin 1 0 T(0.264)PIS(0.736)PLK 86.882 0.022628 85524000 6292.7 6086.1 4375.8 5973.9 6677.6 7054.6 6621.1 6520 7369.7 5931.9 TRUE FALSE FALSE 6954.595058 6283.293633 4972.111236 6089.533473 6165.963731 6453.508392 5876.076402 6353.227841 7318.413658 6187.653239 1.123947123 1.015456651 0.803553632 0.984142653 0.996494712 1.042965425 0.949645395 1.026758869 1.182744633 1 12.59517663 -6.998114604 24.99764555 1.059118554 0.966789196 0.337814835 0.077784094 66.02119691 875326.8672 0.012208089 0.015981907 1.00E-07 6.998114604 -0.092329358 TPITSVPLGPLASS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 2 TPITSVPLGPLASSPTK 17 0 Q15911 Q15911 ZFHX3 Zinc finger homeobox protein 3 1 0 TPITSVPLGPLAS(0.038)S(0.957)PT(0.004)K;TPITSVPLGPLAS(0.124)S(0.767)PT(0.109)K ; 161.08 5.04E-06 20806900 3670 4183.1 4007.8 3564.1 4077.2 4427.6 4185.4 4128.3 3532.8 3901.2 TRUE FALSE FALSE 4056.027439 4318.635185 4553.962112 3633.088309 3764.805817 4050.343571 3714.447777 4022.704064 3508.214957 4069.399824 0.996713917 1.061246221 1.119074632 0.892782343 0.92515014 0.995317183 0.912775332 0.988525148 0.862096405 1 11.99060032 -6.221819462 24.99991038 1.012342319 0.943160739 0.187136379 0.067318404 492.0132524 310457.149 0.007408529 0.012285465 6.00E-07 6.221819462 -0.06918158 TPLALAGS(ph)PTPK ddPTM_HeLa_SAHA_4h_R1 2 TPLALAGSPTPK 12 0 M0QXA7;A0A669KBH9;A0A669KAV7;O95785-3;B9EGQ5;A0A669KBG4;A0A2R8YFV2;O95785-4;O95785 M0QXA7 WIZ Protein Wiz 1 0 T(0.001)PLALAGS(0.994)PT(0.005)PK;TPLALAGS(0.862)PT(0.138)PK ; 167.22 0.00010128 37621000 5644.3 5627.3 3862.2 5984.4 5874.4 6064.8 5143 4819.9 7600 5006.3 TRUE FALSE FALSE 6237.993371 5809.628212 4388.520503 6100.236716 5424.304741 5548.04492 4564.296104 4696.613937 7547.110981 5222.146093 1.194526783 1.112498216 0.840367241 1.168147464 1.038711795 1.062407068 0.874026889 0.899364716 1.445212533 1 12.3504271 -4.785134873 6.260066938 1.077621711 0.885778496 0.241845877 0.149170696 0.126532615 16.572479 0.014693222 0.047563435 1.64E-05 4.785134873 -0.191843215 TPLGAS(ph)LDEQSSSTLK ddPTM_HeLa_SAHA_4h_R1 4 TPLGASLDEQSSSTLK 16 0 E9PHV5;P28290-3;P28290 E9PHV5 SSFA2 Sperm-specific antigen 2 1 0 TPLGAS(0.979)LDEQS(0.02)S(0.001)STLK;TPLGAS(1)LDEQSSSTLK;T(0.142)PLGAS(0.858)LDEQSSSTLK;TPLGAS(1)LDEQSSSTLK ;;; 178.22 3.36E-09 71557000 6327.38 6222.5 5596.7 6767.4 6302.2 6195.75 8613.7 8972 8639.6 6675.8 TRUE FALSE FALSE 6992.922859 6424.113083 6359.38913 6898.392813 5819.326798 5667.837244 7644.463806 8742.509231 8579.47632 6963.626409 1.004207068 0.922524085 0.91322951 0.990632238 0.835674756 0.81392035 1.097770523 1.255453512 1.232041442 1 12.76562309 -4.517764044 5.893554541 0.966662794 1.221956394 0.409695577 0.109601336 0.078539918 10.56548635 0.011108812 0.050864018 3.04E-05 4.517764044 0.255293599 TPLHEIALSIK ddPTM_HeLa_SAHA_4h_R1 2 TPLHEIALSIK 11 0 Q08211 Q08211 DHX9 ATP-dependent RNA helicase A 0 0 ; ; 92.611 0.0077572 3498300 5062.1 6800.3 5954.2 6983 8043.4 6611.4 7838.8 5097.7 4525.5 5401.2 FALSE FALSE TRUE 5594.554904 7020.634182 6765.607368 7118.166063 7427.11643 6048.071525 6956.757593 4967.308215 4494.006677 5634.072165 0.992986021 1.246102992 1.200837897 1.263414073 1.318250142 1.073481373 1.23476544 0.881655057 0.79764805 1 12.45996233 -7.273568296 23.91013359 0.996687832 1.182548839 0.38956134 0.131957766 319.0931834 629037.6861 0.018691017 0.021468205 5.33E-08 7.273568296 0.185861006 TPLS(ph)PSPMK ddPTM_HeLa_SAHA_4h_R1 1 TPLSPSPMK 9 0 F8WAN1;Q69YQ0-2;Q69YQ0;A0A494C1J1 F8WAN1 SPECC1L-ADORA2A;SPECC1L Cytospin-A 1 0 T(0.002)PLS(0.983)PS(0.015)PMK 89.171 0.018453 4922900 1626 1595.4 1772 1872.6 1807 2372.6 1904.6 1998.9 1828.5 1584 TRUE FALSE FALSE 1797.03014 1647.092007 2013.478932 1908.846881 1668.54805 2170.441132 1690.289395 1947.771032 1815.77532 1652.293992 1.087597092 0.996851659 1.21859605 1.155270727 1.009837268 1.313592583 1.022995547 1.178828369 1.098942034 1 10.69025469 -8.006269238 0.339325658 0.985543125 1.154550654 0.103013825 0.096179344 1.504599679 0.466313702 0.102140225 0.057882545 9.86E-09 8.006269238 0.169007529 TPLSEAEFEEIMNR ddPTM_HeLa_SAHA_4h_R1 2 TPLSEAEFEEIMNR 14 0 F8WJN3;Q16630-3;Q16630;Q16630-2 F8WJN3 CPSF6 Cleavage and polyadenylation specificity factor subunit 6 0 0 ; ; 174.23 8.73E-06 5123200 142.11 227.69 222.48 245.55 220.54 338.09 290.49 345.83 385.66 415.87 FALSE FALSE TRUE 157.0577818 235.0673054 252.7984158 250.3029753 203.6422728 309.28283 257.8033007 336.9841694 382.9761607 433.8001909 0.362050974 0.541879211 0.582753122 0.577000611 0.469437951 0.712961489 0.594290427 0.776818859 0.88284 1 8.760886878 -9.488779501 1.232246169 1.000000844 0.554551882 0.608348434 0.114872396 0.230074024 0.625118572 0.086156018 0.021012101 3.25E-10 9.488779501 -0.445448962 TPLSFTNPLHS(ph)DDS(ph)DSDERNSDGAVTQNK ddPTM_HeLa_SAHA_4h_R1 1 TPLSFTNPLHSDDSDSDERNSDGAVTQNK 29 1 Q05209-2;Q05209-3;Q05209;H3BM04 Q05209-2 PTPN12 Tyrosine-protein phosphatase non-receptor type 12 2 0 TPLSFT(0.002)NPLHS(0.548)DDS(0.842)DS(0.543)DERNS(0.05)DGAVT(0.015)QNK 60.384 0.0014902 12659000 662.58 613 602.36 533.53 733.79 914.31 738.13 910.15 776.55 627.07 TRUE FALSE FALSE 732.2732044 632.8616022 684.4464838 543.8572446 677.5671687 836.4056442 655.0736697 886.8696809 771.1459253 654.1060565 1.119502254 0.967521392 1.046384569 0.831451168 1.035867444 1.278700351 1.001479291 1.355849976 1.178931028 1 9.353380762 -1.000213426 0.944238325 1.03895662 199.9931196 0.363511002 0.117515361 920.010605 1.567112102 0.016767615 395347.0057 0.099950869 1.000213426 198.954163 TPLVSVLLEGPPHSGK ddPTM_HeLa_SAHA_4h_R1 1 TPLVSVLLEGPPHSGK 16 0 I3L0N3;P46459-2;P46459 I3L0N3 NSF Vesicle-fusing ATPase 0 0 101.2 0.0033516 505880 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 TPLYLQPDAYGS(ph)LDR ddPTM_HeLa_SAHA_4h_R1 2 TPLYLQPDAYGSLDR 15 0 Q8WUF5 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 TPLYLQPDAYGS(1)LDR;TPLYLQPDAYGS(1)LDR ; 187.56 7.43E-09 68209000 1691.48 1786.07 1304.3 2195.6 1902.35 1945.92 1438.9 1631.91 1726.39 1441.21 TRUE FALSE FALSE 1869.397627 1843.93984 1482.043211 2238.099013 1756.592354 1780.116669 1276.991185 1590.168105 1714.375911 1503.347616 1.243489933 1.226555868 0.98582869 1.488743514 1.168453879 1.184101833 0.849431742 1.05775144 1.140372255 1 10.55396292 -4.774437667 24.99127847 1.150240226 0.953591577 0.270394729 0.142120253 233.9511001 449811.2049 0.021524513 0.065149481 1.68E-05 4.774437667 -0.196648649 TPMYGSQT(ph)PLQDGSR ddPTM_HeLa_SAHA_4h_R1 1 TPMYGSQTPLQDGSR 15 0 O00267-2;O00267 O00267-2 SUPT5H Transcription elongation factor SPT5 1 0 TPMYGS(0.017)QT(0.982)PLQDGSR 156.72 2.50E-05 12331000 533.55 588.4 448.04 469.79 738.39 539.32 511.75 542.02 664.37 546.9 TRUE FALSE FALSE 589.671237 607.4645461 509.0965579 478.8834648 681.8147177 493.3669019 454.1665431 528.1559132 659.7465951 570.4795355 1.03364135 1.064831441 0.892401088 0.839440217 1.195160694 0.864828396 0.796113646 0.925810446 1.156477234 1 9.156031324 -5.043842391 24.9948671 1.00810569 0.853339043 0.326505323 0.10549963 338.3524757 192896.9827 0.012604049 0.032136294 9.04E-06 5.043842391 -0.154766647 TPMYGSQT(ph)PMYGSGSR ddPTM_HeLa_SAHA_4h_R1 2 TPMYGSQTPMYGSGSR 16 0 O00267-2;O00267 O00267-2 SUPT5H Transcription elongation factor SPT5 1 0 T(0.01)PMYGS(0.034)QT(0.941)PMYGS(0.012)GS(0.002)R;TPMYGS(0.006)QT(0.994)PMYGSGSR ; 145.94 2.87E-08 0 595.94 362.13 557.03 453.81 864.2 516.9 762.82 756.14 693.54 575.81 TRUE FALSE FALSE 658.6237035 373.8632496 632.9391475 462.5941488 797.9851827 472.857212 676.985486 736.7990337 688.7135987 600.635987 1.09654386 0.622445637 1.053781593 0.77017388 1.328567052 0.787260874 1.127114426 1.226698116 1.146640584 1 9.230347106 -4.531868 24.93697355 1.00196241 1.201802301 0.142183409 0.195885821 228.8331684 634805.4643 0.024440222 0.091706694 2.94E-05 4.531868 0.19983989 TPNNVVSTPAPS(ph)PDASQLASSLSSQK ddPTM_HeLa_SAHA_4h_R1 1 TPNNVVSTPAPSPDASQLASSLSSQK 26 0 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 T(0.002)PNNVVS(0.048)T(0.171)PAPS(0.63)PDAS(0.107)QLAS(0.033)S(0.008)LS(0.001)SQK 51.963 0.012243 2900200 1152.1 1525.2 1114.9 1036.1 1222.8 1705.3 1740.6 1226.8 1534.9 1215.3 TRUE FALSE FALSE 1273.283164 1574.617481 1266.832766 1056.155214 1129.109328 1559.998846 1544.743107 1195.420232 1524.218506 1267.697531 1.004406125 1.242108187 0.999317846 0.833128714 0.890677233 1.230576544 1.218542333 0.942985376 1.202351877 1 10.30799485 -5.256566386 24.84357037 1.000953095 1.139485502 0.092182102 0.138642858 460.507358 2347756.247 0.01741251 0.042843916 5.54E-06 5.256566386 0.138532407 TPPDTTFPEPTCLS(ph)AS(ph)PPNAPPRQS(ph)KR ddPTM_HeLa_SAHA_4h_R1 1 TPPDTTFPEPTCLSASPPNAPPRQSKR 27 2 H0Y8W5;A1A4S6 H0Y8W5 ARHGAP10 Rho GTPase-activating protein 10 3 0 T(0.029)PPDT(0.072)T(0.046)FPEPT(0.229)CLS(0.726)AS(0.899)PPNAPPRQS(0.998)KR 46.839 0.0079551 0 0 201.63 264.9 319.62 388.24 610.2 278.87 262.18 331.06 227.12 TRUE FALSE FALSE 0 208.1629443 300.9991925 325.8067073 358.4931351 558.2075271 247.4908137 255.4738152 328.7561265 236.9122547 0 0.878649965 1.270509172 1.375220998 1.513189495 2.356178357 1.044651801 1.078347828 1.387670414 1 7.888209016 -6.794692078 2.657311687 0.525779244 1.485565773 0.229612434 0.490817001 0.191537963 2.777187858 0.083139345 0.115731454 1.60E-07 6.794692078 0.959786528 TPPEPSAK(ac)QR ddPTM_HeLa_SAHA_4h_R1 2 TPPEPSAKQR 10 1 X6R7H2;Q5VV67-2;Q5VV67 X6R7H2 PPRC1 Peroxisome proliferator-activated receptor gamma coactivator-related protein 1 0 1 ; TPPEPSAK(1)QR;TPPEPSAK(1)QR 109.29 0.0070159 2107690 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 TPPGPCCS(ph)PGVGWAQR ddPTM_HeLa_SAHA_4h_R1 1 TPPGPCCSPGVGWAQR 16 0 H3BSW6;Q2VPK5-3;Q2VPK5;Q2VPK5-5 H3BSW6 CTU2 Cytoplasmic tRNA 2-thiolation protein 2 1 0 T(0.043)PPGPCCS(0.957)PGVGWAQR 82.942 0.01105 5173500 177.75 0 137.83 64.684 189.86 142.68 53.572 122.47 180.53 194.34 TRUE FALSE FALSE 196.4465605 0 156.6127546 65.93605235 175.3129678 130.5228613 47.54393757 119.3373947 179.273677 202.7189485 0.969058699 0 0.772561005 0.325258457 0.864807997 0.64386118 0.234531295 0.588683967 0.88434593 1 7.663337136 -7.465647298 24.98609813 0.986349708 0.503542262 0.42490885 0.244565012 162.0092112 70730.25719 0.038052441 0.043500288 3.42E-08 7.465647298 -0.482807447 TPPQQKS(ph)PTTAR ddPTM_HeLa_SAHA_4h_R1 1 TPPQQKSPTTAR 12 1 G3V1S3;Q6ZUT9;Q6ZUT9-2 G3V1S3 DENND5B DENN domain-containing protein 5B 1 0 TPPQQKS(0.482)PT(0.482)T(0.035)AR 67.846 0.021987 4082100 1147.7 750 798.93 728.68 954.02 927.73 1240.2 1312.7 574.04 956.52 TRUE FALSE FALSE 1268.420352 774.3004921 907.8040198 742.7846551 880.9231937 848.6821847 1100.649432 1279.123035 570.0452089 997.7602583 1.271267663 0.776038618 0.90984183 0.744452035 0.882900663 0.850587281 1.103120136 1.281994371 0.571324829 1 9.962549396 -7.263035159 24.99514228 1.128098616 0.928373339 0 0.238323889 169.073882 2648240.281 0.030810858 0.036242805 5.46E-08 7.263035159 -0.199725277 TPPRDLPT(ph)IPGVTSPSSDEPPMEASQSHLR ddPTM_HeLa_SAHA_4h_R1 4 TPPRDLPTIPGVTSPSSDEPPMEASQSHLR 30 1 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 1 0 T(0.084)PPRDLPT(0.731)IPGVT(0.084)S(0.084)PS(0.014)S(0.002)DEPPMEASQSHLR;T(0.393)PPRDLPT(0.588)IPGVT(0.014)S(0.005)PSSDEPPMEASQSHLR;T(0.261)PPRDLPT(0.563)IPGVT(0.067)S(0.067)PS(0.021)S(0.021)DEPPMEASQSHLR;T(0.381)PPRDLPT(0.608)IPGVT(0.006)S(0.003)PS(0.001)SDEPPMEASQSHLR ;;; 88.989 7.24E-07 77469400 607.38 738.54 311.21 521.14 818.12 1384.16 852.78 1055.04 1036.706 733.55 TRUE FALSE FALSE 671.2670152 762.4691806 353.6200781 531.2274183 755.4358223 1266.221781 756.82295 1028.053604 1029.491479 765.1769304 0.877270326 0.996461276 0.462141583 0.694254358 0.98726947 1.654809144 0.989082289 1.343550182 1.345429322 1 9.579649568 -5.502518313 24.39409516 0.887791277 1.299457225 0.356330545 0.260217066 411.1973181 492659.9783 0.03123832 0.069012862 3.14E-06 5.502518313 0.411665948 TPPSTTVGSHS(ph)PPETPVLTR ddPTM_HeLa_SAHA_4h_R1 2 TPPSTTVGSHSPPETPVLTR 20 0 Q9ULU4-19;Q9ULU4-16;H7C4X9;A0A087WVZ6;Q9ULU4-22;Q9ULU4-7;Q9ULU4-11;Q9ULU4-10;Q9ULU4-13;Q9ULU4;Q9ULU4-20;Q9ULU4-5;Q9ULU4-9;Q9ULU4-14;Q9ULU4-12;Q9ULU4-4;Q9ULU4-21;Q9ULU4-23;Q9ULU4-6;Q9ULU4-3;Q9ULU4-18;Q9ULU4-15;Q9ULU4-2 Q9ULU4-19 ZMYND8 Protein kinase C-binding protein 1 1 0 TPPSTTVGS(0.013)HS(0.985)PPET(0.002)PVLTR;TPPSTTVGS(0.294)HS(0.706)PPETPVLTR ; 103.94 0.00054129 23367700 642 838.54 350.31 699.9 879.25 1160.81 835.35 998.72 605.71 858.43 TRUE FALSE FALSE 709.5285056 865.7092462 398.0484225 713.4475766 811.882055 1061.902457 741.3542195 973.1741885 601.4948148 895.4411184 0.792378741 0.966796396 0.444527746 0.796755434 0.906683911 1.185898699 0.82792068 1.086809806 0.67173017 1 9.806454758 -5.506998801 23.91636835 0.860036383 1.01853259 0.223570069 0.177955697 620.2603372 934155.3623 0.025601658 0.055663879 3.11E-06 5.506998801 0.158496207 TPQASTYSYETSDLCY(ph)TAEKKSPSEAR ddPTM_HeLa_SAHA_4h_R1 1 TPQASTYSYETSDLCYTAEKKSPSEAR 27 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 TPQASTY(0.001)S(0.003)Y(0.038)ET(0.127)S(0.127)DLCY(0.535)T(0.035)AEKKS(0.1)PS(0.032)EAR 54.152 0.010059 3886800 372.41 547.92 510.36 550.02 591.38 579.34 632.73 915.62 584.97 478.53 TRUE FALSE FALSE 411.5817925 565.6729675 579.909203 560.6664324 546.0685922 529.9769727 561.5335551 892.1997662 580.8991461 499.1617702 0.824545903 1.133245776 1.16176606 1.123215891 1.093971183 1.061733899 1.124953049 1.78739603 1.163749271 1 8.963363635 -1.176176303 0.85047736 0.968661036 199.9999998 0.697589729 0.128675328 173.988559 0.642609601 0.021888481 66766.43373 0.066653613 1.176176303 199.0313388 TPQASTYSYETSDLCYTAEKKS(ph)PSEAR ddPTM_HeLa_SAHA_4h_R1 1 TPQASTYSYETSDLCYTAEKKSPSEAR 27 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 TPQAST(0.001)YS(0.001)Y(0.001)ET(0.003)S(0.009)DLCY(0.062)T(0.024)AEKKS(0.736)PS(0.162)EAR 64.498 0.00081399 17050000 587.85 683.54 633.13 773.42 820.46 815.76 662.25 806.69 541.91 613.27 TRUE FALSE FALSE 649.6827602 705.6871445 719.4096592 788.3906625 757.5965321 746.2526587 587.7318871 786.0560379 538.1388042 639.711071 1.015587801 1.103134175 1.124585288 1.232416787 1.184279226 1.166546418 0.918745843 1.228767288 0.841221652 1 9.321276641 -7.165014865 2.35291983 1.006001876 1.139186196 0.402362024 0.097723458 0.245490211 2.610713369 0.014322565 0.017594824 6.84E-08 7.165014865 0.13318432 TPQEAIMDGTEIAVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 5 TPQEAIMDGTEIAVSPR 17 0 Q06587 Q06587 RING1 E3 ubiquitin-protein ligase RING1 1 0 TPQEAIMDGT(0.143)EIAVS(0.857)PR;TPQEAIMDGTEIAVS(1)PR;TPQEAIMDGTEIAVS(1)PR;TPQEAIMDGTEIAVS(1)PR;TPQEAIMDGTEIAVS(1)PR ;;;; 176.46 4.74E-09 48156900 2173.52 1789.15 1917.21 2396.44 2216.02 2565.71 2501.82 2400.61 2433.13 2136.27 TRUE FALSE FALSE 2402.140806 1847.119634 2178.477394 2442.826562 2046.229026 2347.097074 2220.308629 2339.205872 2416.19765 2228.375054 1.077978683 0.828908774 0.977608051 1.09623672 0.918260605 1.053277396 0.996380131 1.04973616 1.084286797 1 11.12177636 TPQGPVSATVEVSS(ph)PTGFAQSQVLEDVSQAAR ddPTM_HeLa_SAHA_4h_R1 1 TPQGPVSATVEVSSPTGFAQSQVLEDVSQAAR 32 0 O15061;H0YL34;A0A075B7B1;O15061-2 O15061 SYNM Synemin 1 0 T(0.004)PQGPVS(0.001)AT(0.003)VEVS(0.161)S(0.659)PT(0.17)GFAQS(0.002)QVLEDVSQAAR 57.154 0.0071929 0 0 150.99 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 155.8821751 0 0 0 0 0 0 0 0 0 TPQNVPAS(ph)PGGDR ddPTM_HeLa_SAHA_4h_R1 2 TPQNVPASPGGDR 13 0 H0YLX2;A0A669KBM4;Q2KHR2-2;Q2KHR2 H0YLX2 RFX7 DNA-binding protein RFX7 1 0 TPQNVPAS(1)PGGDR;TPQNVPAS(1)PGGDR ; 132.65 0.00064715 13199500 1774.73 1754.93 1603.11 1877.41 1691.87 1796.76 1847.77 1788.81 1824.63 1925.18 TRUE FALSE FALSE 1961.404244 1811.790883 1821.573482 1913.749985 1562.239286 1643.66594 1639.854057 1743.05483 1811.932251 2008.183931 0.976705477 0.902203655 0.907075021 0.95297545 0.777936354 0.818483762 0.816585588 0.867975688 0.902274051 1 10.9716757 -6.515505821 0.671592427 0.994964045 0.81796386 0.497127692 0.048962729 0.243298991 0.220304398 0.008874051 0.01841635 3.05E-07 6.515505821 -0.177000185 TPQPGS(ph)PSPNTPCLPEAAVSQPGSAVASDWR ddPTM_HeLa_SAHA_4h_R1 1 TPQPGSPSPNTPCLPEAAVSQPGSAVASDWR 31 0 H3BU45;Q9Y4R8 H3BU45 TELO2 Telomere length regulation protein TEL2 homolog 1 0 T(0.142)PQPGS(0.768)PS(0.089)PNT(0.001)PCLPEAAVSQPGSAVASDWR 89.167 3.00E-07 6666300 496.5 416.19 166.24 488.13 463.26 359.43 488.46 620.8 350.31 403.95 TRUE FALSE FALSE 548.724148 429.6748291 188.8943215 497.578462 427.7651189 328.8045419 433.4971952 604.9208349 347.8721642 421.3662614 1.302249844 1.019718161 0.448290095 1.180869252 1.015185975 0.780329542 1.028789523 1.435617633 0.825581438 1 8.718930993 -7.014039315 24.83945243 1.143689886 0.964184565 0 0.268869325 1130.315906 1999843.762 0.042296459 0.052952108 9.68E-08 7.014039315 -0.17950532 TPS(ph)DDEEDNLFAPPK ddPTM_HeLa_SAHA_4h_R1 1 TPSDDEEDNLFAPPK 15 0 A0A0A0MR88;A0A096LPC5;Q9Y4E1-6;Q9Y4E1;J3KP36;Q9Y4E1-3;Q9Y4E1-2;Q9Y4E1-1;E7ESD2;Q641Q2-2;Q641Q2;F8W7U3 A0A0A0MR88;E7ESD2 FAM21C;FAM21A WASH complex subunit FAM21C;WASH complex subunit FAM21A 1 0 T(0.056)PS(0.944)DDEEDNLFAPPK 146.27 9.07E-05 12654000 3537.7 4630.3 3714.6 4866 4719.1 4951.2 4534.5 4582.9 6685.4 4105.4 TRUE FALSE FALSE 3909.811518 4780.324758 4220.806343 4960.188466 4357.523578 4529.329905 4024.266126 4465.676054 6638.875757 4282.403885 0.912994576 1.116271348 0.98561613 1.158271989 1.017541478 1.05766061 0.939721295 1.042796563 1.550268479 1 12.06420515 -7.273300278 24.99525737 0.958914106 1.04278653 0 0.196718838 721.9120494 1521330.767 0.010723285 0.012313566 5.33E-08 7.273300278 0.083872424 TPS(ph)GEFLER ddPTM_HeLa_SAHA_4h_R1 2 TPSGEFLER 9 0 B3KT28;B1ANM7;Q9UNN5-2;Q9UNN5 B3KT28 FAF1 FAS-associated factor 1 1 0 T(0.037)PS(0.963)GEFLER;T(0.329)PS(0.671)GEFLER ; 110.54 0.0061141 12823200 1941.15 1825.95 1775.35 2095.4 2419.77 2689.3 2432.97 2393.3 2225.67 1867.29 TRUE FALSE FALSE 2145.329063 1885.111978 2017.285452 2135.959497 2234.367745 2460.15651 2159.205812 2332.082851 2210.181381 1947.79801 1.101412494 0.967816975 1.035674871 1.096602156 1.147124976 1.263044986 1.10853682 1.197291936 1.13470769 1 10.92762836 -5.85897896 2.406732923 1.041395685 1.183449506 0.544612687 0.056821075 0.155020599 1.826194972 0.008302852 0.016791521 1.38E-06 5.85897896 0.142053821 TPS(ph)PAAEDAREPEAK ddPTM_HeLa_SAHA_4h_R1 1 TPSPAAEDAREPEAK 15 1 Q92797 Q92797 SYMPK Symplekin 1 0 T(0.286)PS(0.714)PAAEDAREPEAK 101.2 0.017976 5159700 1149.6 1481.5 1182.2 1203.9 1594.8 1761.7 1423 1649.6 1433.1 1244.3 TRUE FALSE FALSE 1270.520203 1529.501572 1343.304059 1227.203225 1472.606769 1611.593249 1262.880295 1607.405621 1423.12694 1297.947862 0.978868442 1.178399854 1.034944545 0.945495009 1.134565425 1.241647138 0.972982299 1.238420793 1.096443842 1 10.34201672 -5.60124364 0.383986797 0.985615433 1.192546843 0.092433702 0.10096061 2.384686511 0.486388421 0.033598349 0.199554677 2.50E-06 5.60124364 0.20693141 TPS(ph)PGPVESK ddPTM_HeLa_SAHA_4h_R1 1 TPSPGPVESK 10 0 Q5T0W9 Q5T0W9 FAM83B Protein FAM83B 1 0 T(0.122)PS(0.878)PGPVESK 110.64 0.0054617 10678000 3374.5 3629.4 3066.2 4124.4 4139.1 4324.9 4032.2 4069.5 3999.9 3615.6 TRUE FALSE FALSE 3729.445393 3746.994941 3484.045768 4204.233726 3821.963052 3956.394189 3578.486244 3965.408083 3972.06437 3771.48621 0.988852984 0.993506202 0.923785896 1.114741906 1.013383807 1.049027881 0.948826549 1.051417892 1.05318279 1 11.88091744 -6.278757328 24.9998019 0.9896531 1.030190697 0.164290498 0.048325973 1070.626143 1545529.031 0.006372117 0.009749822 5.26E-07 6.278757328 0.040537597 TPS(ph)PPPPIPEDIALGK ddPTM_HeLa_SAHA_4h_R1 1 TPSPPPPIPEDIALGK 16 0 Q5T200-2;Q5T200 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 T(0.06)PS(0.94)PPPPIPEDIALGK 115.1 0.0011704 3400700 517.44 493.62 313.62 314.84 403.9 618.29 649.96 659.28 488.65 345.49 TRUE FALSE FALSE 571.8667133 509.6136119 356.3585003 320.9341835 372.9532693 565.6082136 576.8247902 642.4165722 485.2494449 360.3857647 1.586818263 1.414078085 0.988825129 0.890529579 1.034872367 1.569452151 1.600575957 1.782580321 1.346472287 1 8.493398215 -1 0.029412548 9.76E-12 3.315284152 0.140313994 0.280231959 2213.934152 5.046577149 184.2404284 435.0164913 0.1 1 3.315284152 TPS(ph)SEEISPTK ddPTM_HeLa_SAHA_4h_R1 3 TPSSEEISPTK 11 0 J3QLT3;E7ENF8;A0A1W2PRI7;Q15311 J3QLT3 RALBP1 RalA-binding protein 1 1 0 T(0.311)PS(0.653)S(0.036)EEISPTK;T(0.075)PS(0.896)S(0.028)EEISPTK;T(0.001)PS(0.988)S(0.011)EEISPTK ;; 175.48 5.83E-05 23319500 4129.3 4568.9 3164.61 4162.5 4949.7 5960.5 5213.1 4482.3 6180.3 3905 TRUE FALSE FALSE 4563.63872 4716.935358 3595.86657 4243.071207 4570.455055 5452.631867 4626.508268 4367.649256 6137.290789 4073.363661 1.12036123 1.157995149 0.882775728 1.041662753 1.122034622 1.338606695 1.135795537 1.072246335 1.506688649 1 11.99200491 -13.52287875 0.047370989 0.509344308 1.380380895 0 0.186952103 703.9721463 2.647620271 46.70411602 12.38720373 3.00E-14 13.52287875 0.871036588 TPS(ph)SEEISPTKFPGLYR ddPTM_HeLa_SAHA_4h_R1 2 TPSSEEISPTKFPGLYR 17 1 J3QLT3;E7ENF8;A0A1W2PRI7;Q15311 J3QLT3 RALBP1 RalA-binding protein 1 1 0 T(0.332)PS(0.626)S(0.042)EEISPTKFPGLYR;T(0.024)PS(0.767)S(0.156)EEIS(0.049)PT(0.004)KFPGLY(0.001)R ; 66.702 0.013401 14366900 1554.76 1631.16 1532.96 1650.17 2021.26 1734.99 1838.09 2160.6 1578.68 1825.56 TRUE FALSE FALSE 1718.29679 1684.010654 1741.863805 1682.111427 1866.391495 1587.159091 1631.263276 2105.334981 1567.693837 1904.268826 0.9023394 0.884334518 0.914715287 0.883337165 0.980109253 0.833474281 0.856634974 1.105587064 0.823252377 1 10.89502144 -9.228491933 0.942283024 1.000489883 0.914253489 0 0.090884245 0.798954075 1.263506095 0.046829468 0.012710778 5.91E-10 9.228491933 -0.086236394 TPS(ph)SPCPASK ddPTM_HeLa_SAHA_4h_R1 2 TPSSPCPASK 10 0 Q9NQS7-2;Q9NQS7 Q9NQS7-2 INCENP Inner centromere protein 1 0 T(0.02)PS(0.6)S(0.38)PCPASK;T(0.012)PS(0.587)S(0.393)PCPAS(0.008)K ; 123.67 0.0025453 56172000 10963.7 10316.3 6967.7 12069.1 12489.3 13647 12667.5 11764.2 13086.3 14087 TRUE FALSE FALSE 12116.91227 10650.55489 7917.22187 12302.71488 11532.37253 12484.19882 11242.11956 11463.2888 12995.23137 14694.35951 0.824596149 0.724805656 0.53879326 0.837240635 0.784816278 0.84959122 0.765063598 0.7801149 0.884368683 1 13.84297486 -8.41815129 0.861349797 0.980724979 0.759152178 0.384651497 0.088502112 0.314718416 0.486848701 0.033961416 0.019117907 3.82E-09 8.41815129 -0.221572802 TPS(ph)SSSTLAYSPR ddPTM_HeLa_SAHA_4h_R1 1 TPSSSSTLAYSPR 13 0 H3BR17;Q6Q0C0;A0A087WUB0 H3BR17 TRAF7 E3 ubiquitin-protein ligase TRAF7 1 0 T(0.301)PS(0.688)S(0.01)S(0.001)STLAYSPR 132.97 0.00063615 18602000 208.02 311.28 213.5 184.47 99.14 230.51 266.26 166.66 331.77 152.34 TRUE FALSE FALSE 229.900498 321.3656762 242.5946681 188.0406836 91.54391462 210.8692512 236.299724 162.3970785 329.4611856 158.9081229 1.446751077 2.022336368 1.526634785 1.183329588 0.576080775 1.326988497 1.487021051 1.021955804 2.073280959 1 7.312049063 -6.010819956 24.76349918 1.313494215 1.113097455 0.087719363 0.415145753 1208.944275 2766905.675 0.058647671 0.10151858 9.75E-07 6.010819956 -0.200396759 TPS(ph)TSDMAEEGR ddPTM_HeLa_SAHA_4h_R1 1 TPSTSDMAEEGR 12 0 Q9HCH0 Q9HCH0 NCKAP5L Nck-associated protein 5-like 1 0 T(0.289)PS(0.647)T(0.048)S(0.016)DMAEEGR 79.744 0.021838 4542600 412.46 478.03 523.23 758.5 458.79 642.02 783.61 1815 1028.9 768.83 TRUE FALSE FALSE 455.8444352 493.5184856 594.5330595 773.1818643 423.6376093 587.3162841 695.4361405 1768.574928 1021.739801 801.9780239 0.568400158 0.61537657 0.741333356 0.96409358 0.52824092 0.732334636 0.867151119 2.205266074 1.274024687 1 9.647418894 -4.260672321 4.334618303 0.765423954 2.312126124 0.786833228 0.217373774 0.059377547 2.630546357 0.02604156 0.282009835 5.49E-05 4.260672321 1.54670217 TPS(ph)VTEASPWR ddPTM_HeLa_SAHA_4h_R1 2 TPSVTEASPWR 11 0 A0A3B3IU55;Q8WXE9;Q8WXE9-3 A0A3B3IU55 STON2 Stonin-2 1 0 T(0.081)PS(0.919)VTEASPWR;T(0.469)PS(0.531)VTEASPWR ; 124.21 0.0018339 15386900 1280.63 1125.93 968.36 1080.23 1105 1440.14 1484.35 1124.33 1110.77 1176.51 TRUE FALSE FALSE 1415.332539 1162.410871 1100.323058 1101.139414 1020.335139 1317.43197 1317.327031 1095.571267 1103.040061 1227.235104 1.153269276 0.947178635 0.896587014 0.897252214 0.831409675 1.073495996 1.073410488 0.892715066 0.898800937 1 10.26119594 -7.231681097 22.5327581 1.07237715 0.94647312 0.020738935 0.097570459 199.9119314 151371.5383 0.015659883 0.019176603 5.87E-08 7.231681097 -0.12590403 TPSAAY(ph)LWVGTGAS(ph)EAEK ddPTM_HeLa_SAHA_4h_R1 1 TPSAAYLWVGTGASEAEK 18 0 A0A0A0MS51;A0A0A0MT01;P06396-2;P06396-4;P06396-3;P06396 A0A0A0MS51 GSN Gelsolin 2 0 TPSAAY(0.501)LWVGT(0.501)GAS(0.999)EAEK 70.98 0.0058184 0 532.01 523.31 564.66 697.71 671.73 765.13 585.85 710.93 825.65 651 TRUE FALSE FALSE 587.9692527 540.2655874 641.6089242 711.215186 620.2621925 699.9366195 519.9286161 692.74544 819.9042344 679.0677959 0.865847646 0.795598894 0.944837803 1.047340472 0.913402456 1.030731576 0.765650527 1.020141795 1.207396727 1 9.407411805 -6.404432727 0.005732757 1.849182257 4.62E-07 0.007405512 0.124081406 25710.78019 65.68156869 10457.18292 10727.32001 3.94E-07 6.404432727 -1.849181795 TPSNTPSAEADWS(ph)PGLELHPDYK ddPTM_HeLa_SAHA_4h_R1 4 TPSNTPSAEADWSPGLELHPDYK 23 0 A0A2R8YCS7;Q9Y3Z3-3;Q9Y3Z3-4;Q9Y3Z3;A0A2R8Y7R5;A0A2R8Y755;A0A2R8Y586;A0A2R8YF51;A0A2R8Y5D2 A0A2R8YCS7 SAMHD1 Deoxynucleoside triphosphate triphosphohydrolase SAMHD1 1 0 TPSNTPSAEADWS(1)PGLELHPDYK;TPSNTPS(0.001)AEADWS(0.999)PGLELHPDYK;T(0.002)PS(0.003)NT(0.025)PS(0.047)AEADWS(0.923)PGLELHPDYK;TPSNTPSAEADWS(1)PGLELHPDYK ;;; 132.85 1.19E-06 146094000 10585.4 11710.6 9699 12010.6 12830.7 14981.1 13262.5 12174 13263.1 11509.8 TRUE FALSE FALSE 11698.82094 12090.03112 11020.72921 12243.08253 11847.61454 13704.626 11770.1686 11862.60671 13170.80101 12006.04381 0.974410982 1.00699542 0.917931784 1.019743283 0.986804207 1.141477261 0.980353627 0.988052926 1.097014239 1 13.55147322 -5.449912108 24.99999912 0.986096246 1.036523861 0.035964331 0.059470747 175.3348391 60072.84836 0.006465364 0.014456991 3.55E-06 5.449912108 0.050427615 TPSPKEEDEEPES(ph)PPEK ddPTM_HeLa_SAHA_4h_R1 2 TPSPKEEDEEPESPPEK 17 1 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 TPSPKEEDEEPES(1)PPEK;TPSPKEEDEEPES(1)PPEK ; 122.64 0.00029506 145829000 6345 6307.6 5595.5 6582.3 7460.6 7310.8 7183.1 6449.6 7042.4 6935.3 TRUE FALSE FALSE 7012.396212 6511.970379 6358.0256 6709.709935 6888.97044 6687.878711 6374.838683 6284.628571 6993.391365 7234.314724 0.969324183 0.900150274 0.878870473 0.927483831 0.952263027 0.924466099 0.881194547 0.868724794 0.966697142 1 12.82064065 -7.395240333 2.902975782 0.987563691 0.906159621 0.638834862 0.025406546 0.120585533 1.886645405 0.004979053 0.005626303 4.02E-08 7.395240333 -0.08140407 TPSPKEEDEEPES(ph)PPEKK ddPTM_HeLa_SAHA_4h_R1 1 TPSPKEEDEEPESPPEKK 18 2 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 TPSPKEEDEEPES(1)PPEKK 85.224 0.0034515 65244000 1007.1 656.76 724.36 851.69 901.76 1019.4 1187.7 1120.6 875.05 1075.9 TRUE FALSE FALSE 1113.031399 678.0394549 823.0720085 868.1756915 832.6673436 932.541385 1054.05687 1091.936675 868.9604558 1122.287314 0.991752633 0.604158531 0.733387964 0.773577034 0.741937767 0.830929276 0.939204121 0.972956444 0.774276288 1 10.13222635 -7.457720381 24.84120817 0.996361547 0.800121274 0.092782853 0.121014428 126.7265349 48313.74402 0.017762193 0.02031067 3.49E-08 7.457720381 -0.196240273 TPSS(ph)PLQSCTPSLSPR ddPTM_HeLa_SAHA_4h_R1 2 TPSSPLQSCTPSLSPR 16 0 R4GNJ5;A0A590TQL1;Q96AP0-2;Q96AP0 R4GNJ5 ACD Adrenocortical dysplasia protein homolog 1 0 T(0.001)PS(0.21)S(0.78)PLQS(0.007)CT(0.001)PSLSPR;T(0.001)PS(0.16)S(0.838)PLQS(0.001)CTPSLSPR ; 117 0.00032064 5825400 783.08 883.74 685.93 775.46 961.77 682.02 884.28 613.44 977.02 634.63 TRUE FALSE FALSE 865.4479473 912.3737558 779.4049682 790.4701496 888.0793904 623.9080591 784.7784871 597.7490931 970.2208383 661.9920051 1.307338972 1.378224735 1.177363113 1.194078091 1.341525855 0.942470686 1.18548031 0.902955154 1.46560809 1 9.370669983 -3.454758845 1.018440254 1.177488932 2.39E-14 0.226729994 0.159277074 10.48308975 2.549047128 0.023864008 20.02220243 0.000350947 3.454758845 -1.177488932 TPSS(ph)SPPITPPASETK ddPTM_HeLa_SAHA_4h_R1 1 TPSSSPPITPPASETK 16 0 F5GZ90;Q9NZJ0 F5GZ90 DTL Denticleless protein homolog 1 0 T(0.017)PS(0.017)S(0.483)S(0.483)PPIT(0.001)PPASETK 97.235 0.0046446 12149000 1638 1505.3 1500 1586.2 1662.7 2006.2 1658.6 1919.4 1407.6 1484.9 TRUE FALSE FALSE 1810.292355 1554.072708 1704.412188 1616.903195 1535.304285 1835.260473 1471.969963 1870.304527 1397.804397 1548.921306 1.168743918 1.0033258 1.100386561 1.043889827 0.991208707 1.184863599 0.950319398 1.207488412 0.902437323 1 10.59704813 -9.727722004 1.651171138 1.000045818 1.090544174 0.209116689 0.088591057 0.586812161 2.892811707 0.056698571 0.012388364 1.87E-10 9.727722004 0.090498356 TPSSDVLVFDYTK ddPTM_HeLa_SAHA_4h_R1 2 TPSSDVLVFDYTK 13 0 E9PC52;Q16576;Q16576-2;Q5JP01;Q09028-4;Q09028-2;H0YF10;Q09028-3;Q09028 E9PC52;Q09028-3 RBBP7;RBBP4 Histone-binding protein RBBP7;Histone-binding protein RBBP4 0 0 ; ; 173.04 1.90E-10 1211500 403.01 992.36 532.34 329.62 723.03 661.03 612.43 446.4 639.35 167.59 FALSE FALSE TRUE 445.4004409 1024.513115 604.8845229 336.0002717 667.6315976 604.7065251 543.5177646 434.9817344 634.9007113 174.8156251 2.547829696 5.860535148 3.460128479 1.922026544 3.819061353 3.459110276 3.109091446 2.488231439 3.631830456 1 7.449690329 -5.771180864 24.69965658 2.248118084 3.228191847 0 1.383883172 358.176368 908162.5673 0.232645696 0.425609471 1.69E-06 5.771180864 0.980073764 TPSSS(ph)PPITPPASETK ddPTM_HeLa_SAHA_4h_R1 1 TPSSSPPITPPASETK 16 0 F5GZ90;Q9NZJ0 F5GZ90 DTL Denticleless protein homolog 1 0 T(0.001)PS(0.001)S(0.05)S(0.948)PPITPPASETK 116.35 0.00098756 11499000 1407.9 1411.7 1286.9 1377.1 1647.3 1642.3 1379.4 1370 1507.5 1238.3 TRUE FALSE FALSE 1555.989382 1457.440006 1462.27203 1403.755762 1521.08423 1502.366801 1224.186282 1334.957384 1497.009185 1291.689173 1.204615951 1.12832099 1.132061846 1.086759718 1.177593079 1.163102418 0.947740608 1.033497386 1.158954659 1 10.33504323 -4.759078123 24.99999923 1.11198816 0.990618983 0.448948227 0.059352427 61.3833914 649857.1352 0.011381865 0.038896062 1.74E-05 4.759078123 -0.121369177 TPST(ph)PVACSTPAQLK ddPTM_HeLa_SAHA_4h_R1 1 TPSTPVACSTPAQLK 15 0 Q6PL18;A0A0B4J211 Q6PL18 ATAD2 ATPase family AAA domain-containing protein 2 1 0 T(0.013)PS(0.124)T(0.862)PVACS(0.001)TPAQLK 94.728 0.011006 4257100 794.36 931.24 861.97 1037.9 822.87 1044.6 938.97 917.57 1082.4 1123.8 TRUE FALSE FALSE 877.9144295 961.412787 979.4347827 1057.990055 759.8218784 955.5942032 833.3146244 894.099888 1074.86749 1172.252518 0.748912385 0.820141371 0.835515188 0.902527433 0.648172528 0.815177778 0.710866142 0.762719529 0.916924872 1 10.19506766 -9.760330697 0.508535417 1.095511471 0.772237454 0.479518975 0.071596209 1.207782303 0.312925341 0.208945123 0.016490096 1.74E-10 9.760330697 -0.323274017 TPT(ph)PEPFDSETR ddPTM_HeLa_SAHA_4h_R1 1 TPTPEPFDSETR 12 0 H0YCB1;Q9NSY0-2;Q9NSY0-4;Q9NSY0 H0YCB1 NRBP2 Nuclear receptor-binding protein 2 1 0 T(0.025)PT(0.961)PEPFDS(0.011)ET(0.003)R 119.21 0.0027558 4428400 464.88 526.29 393.24 335.78 563.55 597.58 429.81 408.64 316.33 493.9 TRUE FALSE FALSE 513.7782113 543.3421413 446.8286993 342.2795074 520.3709207 546.6628221 381.4466476 398.1875805 314.1286338 515.1944461 0.997251068 1.054635091 0.86730108 0.66436956 1.010047613 1.061080581 0.740393555 0.772887952 0.6097283 1 9.008973231 -6.711997408 8.653424153 1.002821706 0.855293361 0 0.167365602 0.289662176 46.50647943 0.017911568 0.025293995 1.94E-07 6.711997408 -0.147528345 TPTCQSSTDCS(ph)PYAR ddPTM_HeLa_SAHA_4h_R1 2 TPTCQSSTDCSPYAR 15 0 O95235-2;O95235 O95235-2 KIF20A Kinesin-like protein KIF20A 1 0 TPTCQS(0.002)S(0.001)T(0.001)DCS(0.996)PYAR;TPTCQSSTDCS(1)PYAR ; 169.15 8.49E-18 3434000 815.92 724.15 886.58 716.51 954.34 985.64 832.58 868.46 1165.06 943.55 TRUE FALSE FALSE 901.7422092 747.6129351 1007.398505 730.3790871 881.2186754 901.6579269 738.8959072 846.2460507 1156.952253 984.2310581 0.916189549 0.75959088 1.023538626 0.742080918 0.895337196 0.916103916 0.750734191 0.859804254 1.175488462 1 9.942853232 -8.227851346 0.330390825 1.029307139 0.826348113 0.415161673 0.099739262 1.375229657 0.364244808 0.111386591 0.050917877 5.92E-09 8.227851346 -0.202959026 TPTGEGLLDS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 4 TPTGEGLLDSPSK 13 0 O95425-3;O95425-2;O95425-4;O95425;A0A6I8PIX7;A0A0J9YWY6 O95425-3 SVIL Supervillin 1 0 TPTGEGLLDS(0.956)PS(0.044)K;TPTGEGLLDS(0.995)PS(0.005)K;TPTGEGLLDS(0.99)PS(0.01)K;TPTGEGLLDS(0.998)PS(0.002)K ;;; 184.87 3.42E-07 82320700 4832.21 5849.3 3873.85 4770.15 5422.18 6050.6 5102.31 4427.35 7255.2 5014.17 TRUE FALSE FALSE 5340.484019 6038.821158 4401.758104 4862.483151 5006.73374 5535.05484 4528.18465 4314.104798 7204.710472 5230.355407 1.021055665 1.154571857 0.841579159 0.929665916 0.957245416 1.058255971 0.865750852 0.824820583 1.377480097 1 12.35269327 -6.740232555 24.99987361 1.021067978 0.920130564 0.265866131 0.135666998 233.2485812 274966.7814 0.012017683 0.016985638 1.82E-07 6.740232555 -0.100937414 TPTS(ph)PLK ddPTM_HeLa_SAHA_4h_R1 1 TPTSPLK 7 0 O60264 O60264 SMARCA5 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5 1 0 TPT(0.003)S(0.997)PLK 93.598 0.017744 97614000 6559.6 5589.6 4793.5 4360.9 5535.8 5969 5508.1 5332.4 4608.3 4999.5 TRUE FALSE FALSE 7249.568825 5770.706707 5446.733217 4445.311525 5111.6482 5460.407619 4888.314091 5196.004929 4576.230465 5215.052912 1.390123734 1.106548065 1.044425303 0.852400081 0.980171877 1.047047405 0.937346979 0.9963475 0.877504129 1 12.34846618 -6.750282149 3.042531814 1.185856562 0.967094518 0.030392718 0.140462155 0.233748172 4.478393365 0.024731192 0.034697836 1.78E-07 6.750282149 -0.218762044 TPTS(ph)SPASSPLVAK ddPTM_HeLa_SAHA_4h_R1 1 TPTSSPASSPLVAK 14 0 Q14684-2;Q14684 Q14684-2 RRP1B Ribosomal RNA processing protein 1 homolog B 1 0 T(0.001)PT(0.02)S(0.893)S(0.079)PAS(0.005)S(0.001)PLVAK 189.99 1.52E-08 41271000 5503.3 5502.9 5076.5 4884.2 5412.9 5199.8 6231.6 5435 4749.7 5551.9 TRUE FALSE FALSE 6082.162344 5681.197571 5768.298983 4978.740754 4998.164771 4756.747787 5530.403967 5295.98057 4716.646451 5791.269579 1.050229533 0.980993458 0.996033582 0.859697634 0.863051651 0.821365285 0.954955367 0.91447661 0.814440838 1 12.49966394 -6.369520862 3.773389275 1.020124893 0.88221827 0.085301708 0.075038762 0.095568279 2.461095165 0.006384389 0.009980438 4.27E-07 6.369520862 -0.137906622 TPTSS(ph)PASSPLVAK ddPTM_HeLa_SAHA_4h_R1 1 TPTSSPASSPLVAK 14 0 Q14684-2;Q14684 Q14684-2 RRP1B Ribosomal RNA processing protein 1 homolog B 1 0 T(0.003)PTS(0.006)S(0.794)PAS(0.178)S(0.019)PLVAK 126.63 0.00063935 28983000 1164.8 1121.6 1068.5 1047.3 1110.3 1044.6 1111.4 1028.6 971.65 1155.2 TRUE FALSE FALSE 1287.319008 1157.940576 1214.109615 1067.572006 1025.229054 955.5942032 986.342347 1002.289901 964.8882085 1205.006325 1.068308922 0.960941492 1.007554558 0.885947222 0.850808027 0.793020072 0.81853707 0.831771486 0.800732899 1 10.234825 -6.143632362 1.348200798 1.029633173 0.813579859 0.323200853 0.077517936 0.091451692 0.327281108 0.005452492 0.011080394 7.18E-07 6.143632362 -0.216053314 TPTSSPAS(ph)SPLVAK ddPTM_HeLa_SAHA_4h_R1 2 TPTSSPASSPLVAK 14 0 Q14684-2;Q14684 Q14684-2 RRP1B Ribosomal RNA processing protein 1 homolog B 1 0 TPTSSPAS(0.661)S(0.339)PLVAK;T(0.001)PTS(0.002)S(0.019)PAS(0.615)S(0.363)PLVAK ; 231.07 2.18E-24 33318000 2906.9 3319.8 2813.5 3071 3762 3462.8 3975.2 4094.9 2869.2 2883.3 TRUE FALSE FALSE 3212.661079 3427.363698 3196.909128 3130.443646 3473.756373 3167.749959 3527.900034 3990.158387 2849.233004 3007.613174 1.068176289 1.13956267 1.06293893 1.04083985 1.15498775 1.05324381 1.172989953 1.326686032 0.947340246 1 11.55440331 -1 0.490988948 1.039633336 9.172893629 0.704147119 0.055086822 34.79222817 0.341781057 0.010078399 292.4374809 0.1 1 8.133260293 TPTSSPASSPLVAKK(ac)PLTTTPR ddPTM_HeLa_SAHA_4h_R1 1 TPTSSPASSPLVAKKPLTTTPR 22 2 Q14684-2;Q14684 Q14684-2 RRP1B Ribosomal RNA processing protein 1 homolog B 0 1 TPTSSPASSPLVAK(0.033)K(0.967)PLTTTPR 167.9 4.92E-20 1695500 0 255.01 172.69 287.91 398.38 677.51 558.21 974 189.94 225.15 FALSE TRUE FALSE 0 263.2724913 196.2232939 293.4829144 367.8562105 619.7823364 495.3987417 949.0864903 188.6181921 234.8573184 0 1.120989089 0.835500019 1.249622181 1.566296563 2.638973913 2.109360463 4.041119506 0.803118223 1 7.87564074 -4.46153272 0.542508017 0.540933604 5.356387468 0.846434001 0.424791159 0.963508825 0.217899492 0.099417887 2.797618542 3.46E-05 4.46153272 4.815453864 TPTVPDS(ph)PGYMGPTR ddPTM_HeLa_SAHA_4h_R1 4 TPTVPDSPGYMGPTR 15 0 A0A087WXN9;Q765P7 A0A087WXN9 MTSS1L MTSS1-like protein 1 0 TPTVPDS(1)PGYMGPTR;TPTVPDS(1)PGYMGPTR;TPT(0.003)VPDS(0.997)PGYMGPTR;T(0.001)PTVPDS(0.999)PGYMGPTR ;;; 192.4 2.25E-12 14806600 2934.48 2849.11 2308.61 2825.46 3174 3770.54 3385.94 3093.66 2581.67 2594.34 TRUE FALSE FALSE 3243.14207 2941.423033 2623.215348 2880.150864 2930.808806 3449.26878 3004.94512 3014.528657 2563.703948 2706.194694 1.198414171 1.086922179 0.969337259 1.06428073 1.082999982 1.274582641 1.110395023 1.113936356 0.947346454 1 11.40204992 -9.609022035 1.420115471 1.000161359 1.122292138 0.31044502 0.078898227 0.51283575 1.860404176 0.05902754 0.013667737 2.46E-10 9.609022035 0.122130778 TPVAS(ph)THSISSAATPDR ddPTM_HeLa_SAHA_4h_R1 1 TPVASTHSISSAATPDR 17 0 H0YIY6;J3KNR0;P27448-8;P27448-6;P27448-3;P27448-4;P27448-2;P27448;P27448-7;A2SY06 H0YIY6 MARK3 MAP/microtubule affinity-regulating kinase 3 1 0 T(0.242)PVAS(0.714)T(0.044)HSISSAATPDR 89.311 0.0041447 0 207.66 280.73 237.86 271.88 402.28 259.51 400.23 341.27 228.57 417.36 TRUE FALSE FALSE 229.5026316 289.8258362 270.2743221 277.1426305 371.4573933 237.398288 355.1950671 332.5408076 226.9793628 435.3544321 0.527162731 0.665723867 0.620814449 0.63659081 0.853229842 0.545298889 0.81587562 0.763839261 0.521366836 1 8.7660466 -9.474162664 1.210194387 1.000211176 0.664986351 0 0.178308957 0.268068533 0.70168412 0.074518178 0.018255737 3.36E-10 9.474162664 -0.335224825 TPVDES(ph)DDEIQHDEIPTGK ddPTM_HeLa_SAHA_4h_R1 2 TPVDESDDEIQHDEIPTGK 19 0 Q86TC9;A0A087WX60;Q86TC9-2 Q86TC9 MYPN Myopalladin 1 0 T(0.023)PVDES(0.977)DDEIQHDEIPTGK;T(0.053)PVDES(0.947)DDEIQHDEIPTGK ; 121.14 0.00026187 57020400 6634.4 6036.8 5050 5442.9 6527.9 6776.3 6947.2 6255.5 6410.7 5986.9 TRUE FALSE FALSE 7332.236632 6232.396281 5738.187701 5548.2552 6027.733712 6198.921118 6165.482772 6095.493368 6366.087417 6245.024558 1.174092522 0.997977866 0.918841495 0.888428084 0.965205766 0.992617573 0.987263175 0.976055948 1.01938549 1 12.60849153 -7.014656938 20.45748704 1.082411719 0.955648671 0.453488475 0.052836269 45.01830212 62835.31359 0.011703308 0.014649354 9.67E-08 7.014656938 -0.126763047 TPVEPEVAIHR ddPTM_HeLa_SAHA_4h_R1 3 TPVEPEVAIHR 11 0 P60866;P60866-2;E5RIP1;E5RJX2 P60866 RPS20 40S ribosomal protein S20 0 0 ;; ;; 192.38 6.32E-07 20270700 8288.5 7355.6 6843.6 8638 7877.9 9406.2 8959.8 8253.1 9733.2 7654.2 FALSE FALSE TRUE 9160.322459 7593.926266 7776.210168 8805.200981 7274.297004 8604.738842 7951.619723 8041.997652 9665.465869 7984.210021 1.147304797 0.95111805 0.9739486 1.102826824 0.911085378 1.077719501 0.995918156 1.007237739 1.210572598 1 12.96293396 -7.247765741 24.89061778 1.069560601 1.004656204 0.264859879 0.076413841 1063.341337 1935640.662 0.011917771 0.014551666 5.65E-08 7.247765741 -0.064904398 TPVQYSQQQNS(ph)PQK ddPTM_HeLa_SAHA_4h_R1 4 TPVQYSQQQNSPQK 14 0 P46013 P46013 MKI67 Antigen KI-67 1 0 TPVQYSQQQNS(1)PQK;TPVQYSQQQNS(1)PQK;TPVQYS(0.007)QQQNS(0.993)PQK;T(0.001)PVQY(0.057)S(0.217)QQQNS(0.726)PQK ;;; 205.33 3.07E-12 18929500 5207.11 5067.58 3707.61 4614.88 4503.73 4943.56 4664.76 4620.37 6230.67 4986.25 TRUE FALSE FALSE 5754.817721 5231.772917 4212.863782 4704.207676 4158.65518 4522.340876 4139.868928 4502.187626 6187.31026 5201.23164 1.106433653 1.005871932 0.809974267 0.904441102 0.799552004 0.869474999 0.795940119 0.865600292 1.1895856 1 12.34463758 -6.853821336 4.698937544 1.050414053 0.841215148 0.78610244 0.05973279 0.064348296 2.483229164 0.007833329 0.010433574 1.40E-07 6.853821336 -0.209198905 TQAEK(ac)GDTENGKEK ddPTM_HeLa_SAHA_4h_R1 2 TQAEKGDTENGKEK 14 2 Q9H981 Q9H981 ACTR8 Actin-related protein 8 0 1 ; TQAEK(1)GDTENGKEK;TQAEK(1)GDTENGKEK 143.93 7.38E-05 1577650 1371.4 1373.47 1114.43 1311.63 1467.34 1253.38 1434.53 1688.83 1160.73 943.6 FALSE TRUE FALSE 1515.650144 1417.971329 1266.298717 1337.018495 1354.912726 1146.584973 1273.112909 1645.632174 1152.652385 984.2832139 1.539851663 1.440613138 1.286518655 1.358367669 1.376547631 1.164893352 1.293441655 1.671909214 1.171057648 1 9.942929681 -9.448937185 1.167472721 0.998795126 1.392650778 0.412063606 0.141550683 0.307078919 0.745046183 0.09781417 0.024023423 3.56E-10 9.448937185 0.393855652 TQDPS(ph)S(ph)PGTTPPQAR ddPTM_HeLa_SAHA_4h_R1 1 TQDPSSPGTTPPQAR 15 0 Q13112 Q13112 CHAF1B Chromatin assembly factor 1 subunit B 2 0 TQDPS(0.986)S(0.989)PGT(0.011)T(0.014)PPQAR 145.49 0.0010857 19539000 1511.2 1210.7 1313.5 1527.4 1916.1 1614.9 1489 1749.3 1505.6 1380.2 TRUE FALSE FALSE 1670.15495 1249.927474 1492.49694 1556.965036 1769.288832 1477.301435 1321.453801 1704.555439 1495.122407 1439.707177 1.160065725 0.868181735 1.036667014 1.081445631 1.228922701 1.026112434 0.917862898 1.183959813 1.038490626 1 10.49155969 -9.821628336 1.862525177 0.999695037 1.076080989 0.009851788 0.107534311 0.898396867 5.63976879 0.081558791 0.016747989 1.51E-10 9.821628336 0.076385952 TQDPS(ph)SPGTTPPQAR ddPTM_HeLa_SAHA_4h_R1 1 TQDPSSPGTTPPQAR 15 0 Q13112 Q13112 CHAF1B Chromatin assembly factor 1 subunit B 1 0 T(0.001)QDPS(0.623)S(0.263)PGT(0.057)T(0.057)PPQAR 160.03 7.37E-06 118180000 4313.2 3679.1 3634.6 3893.7 4005.5 4138.4 4256.2 4357.1 3423.7 3839.6 TRUE FALSE FALSE 4766.882166 3798.305254 4129.90436 3969.068194 3698.599455 3785.785038 3777.281174 4245.651691 3399.874193 4005.143947 1.190189973 0.948356739 1.031150045 0.990992645 0.923462304 0.945230705 0.94310747 1.060049713 0.848876904 1 11.96763838 -7.235037075 24.99256962 1.089811939 0.975422765 0 0.095963329 665.1766155 629660.5741 0.013157705 0.016112374 5.82E-08 7.235037075 -0.114389174 TQDPSS(ph)PGTTPPQAR ddPTM_HeLa_SAHA_4h_R1 1 TQDPSSPGTTPPQAR 15 0 Q13112 Q13112 CHAF1B Chromatin assembly factor 1 subunit B 1 0 TQDPS(0.099)S(0.879)PGT(0.022)TPPQAR 213 1.31E-17 109700000 3093.9 2770.2 2454.1 2709.5 2970.1 3107.9 3001.8 3034.4 2841.5 2682.3 TRUE FALSE FALSE 3419.330597 2859.956298 2788.531968 2761.946291 2742.53158 2843.089435 2664.029564 2956.784442 2821.72577 2797.94708 1.222085515 1.022162398 0.996634993 0.987133141 0.980194229 1.016134099 0.952137223 1.056769252 1.00849862 1 11.45015296 -7.021740063 23.77294201 1.10578163 0.996725185 0.195864061 0.063651945 405.4358581 443347.3875 0.013876259 0.017089928 9.51E-08 7.021740063 -0.109056445 TQDPSSPGTT(ph)PPQAR ddPTM_HeLa_SAHA_4h_R1 2 TQDPSSPGTTPPQAR 15 0 Q13112 Q13112 CHAF1B Chromatin assembly factor 1 subunit B 1 0 T(0.001)QDPS(0.001)S(0.004)PGT(0.041)T(0.952)PPQAR;TQDPS(0.002)S(0.021)PGT(0.155)T(0.822)PPQAR ; 137.27 0.00032301 18204700 6000.9 6428.8 5106.5 6296.9 6379.8 7965.5 6973.4 7523.8 6724.4 6191 TRUE FALSE FALSE 6632.102195 6637.097338 5802.387226 6418.785605 5890.981102 7286.794587 6188.734679 7331.35209 6677.604353 6457.924308 1.026971187 1.027744678 0.898491055 0.99393943 0.912209686 1.128349333 0.958316385 1.135248997 1.034017129 1 12.65685482 -4.248697841 24.27802688 1.003389455 1.135249122 0.299310691 0.06257164 1290.135797 2458190.104 0.007880549 0.184162022 5.64E-05 4.248697841 0.131859667 TQEDEEEIST(ph)SPGVSEFVSDAFDACNLNQEDLRK ddPTM_HeLa_SAHA_4h_R1 2 TQEDEEEISTSPGVSEFVSDAFDACNLNQEDLRK 34 1 Q96A49 Q96A49 SYAP1 Synapse-associated protein 1 1 0 TQEDEEEIS(0.038)T(0.437)S(0.437)PGVS(0.087)EFVSDAFDACNLNQEDLRK;TQEDEEEIS(0.102)T(0.412)S(0.412)PGVS(0.073)EFVS(0.001)DAFDACNLNQEDLRK ; 132.61 2.84E-19 26223400 1933.23 2030.79 2183.8 2077.41 2435.7 2720.9 2785.3 2759.5 2191.8 2277.3 TRUE FALSE FALSE 2136.576001 2096.588928 2481.396891 2117.621275 2249.077192 2489.064013 2471.890713 2688.915986 2176.547085 2375.485548 0.899427068 0.882593847 1.044585135 0.891447762 0.946786308 1.047812737 1.040583352 1.131943736 0.916253558 1 11.21400671 -4.792820273 1.294930855 0.947963469 1.127277508 0.593212512 0.051387384 0.393356205 0.993741696 0.008395579 0.072154038 1.61E-05 4.792820273 0.179314039 TQEDEEEISTS(ph)PGVSEFVSDAFDACNLNQEDLRK ddPTM_HeLa_SAHA_4h_R1 1 TQEDEEEISTSPGVSEFVSDAFDACNLNQEDLRK 34 1 Q96A49 Q96A49 SYAP1 Synapse-associated protein 1 1 0 TQEDEEEIS(0.028)T(0.221)S(0.72)PGVS(0.031)EFVSDAFDACNLNQEDLRK 127.44 9.77E-17 20526000 1697.4 1449.1 1118.2 1460.6 2143.1 1860.8 1984.9 2344.2 1738.4 1567 TRUE FALSE FALSE 1875.94032 1496.051791 1270.582473 1488.872025 1978.896141 1702.249371 1761.553828 2284.238758 1726.302333 1634.561039 1.147672235 0.915262113 0.777323356 0.91086964 1.210659066 1.04141071 1.077692289 1.397463113 1.056125952 1 10.67468754 TQEISRPNS(ph)PSEGEGESSDSR ddPTM_HeLa_SAHA_4h_R1 1 TQEISRPNSPSEGEGESSDSR 21 1 A0A590UJ84;B1AKN3;Q9P2R6-2;Q9P2R6 A0A590UJ84 RERE Arginine-glutamic acid dipeptide repeats protein 1 0 TQEIS(0.006)RPNS(0.813)PS(0.114)EGEGES(0.021)S(0.021)DS(0.025)R 48.532 0.022153 3948400 273.23 290.33 153.24 295.58 205.55 274.02 244.05 274.58 166.23 114.45 TRUE FALSE FALSE 301.969585 299.7368825 174.1227492 301.3013783 189.8008034 250.6719544 216.5888517 267.5566412 165.0731919 119.3844996 2.529386864 2.510685085 1.458503824 2.523789766 1.589827859 2.099702685 1.814212502 2.241133833 1.382702046 1 6.899471725 -9.440516764 1.169175962 0.999311078 2.118369432 0.469809744 0.377530397 0.279314727 0.682291975 0.251845442 0.062739418 3.63E-10 9.440516764 1.119058354 TQHIQQPR ddPTM_HeLa_SAHA_4h_R1 1 TQHIQQPR 8 0 P51397 P51397 DAP Death-associated protein 1 0 0 74.376 0.0085578 0 441.95 417.58 513.48 431.16 356.96 347.58 467.24 268.78 183.19 257.75 FALSE FALSE TRUE 488.4363287 431.109866 583.4543803 439.5057253 329.6098019 317.9642286 414.6649255 261.9049968 181.9151659 268.8628639 1.816674574 1.603456348 2.170081698 1.634683641 1.225940233 1.182626057 1.542291559 0.97412113 0.676609492 1 8.07072669 -5.742780481 24.32153397 1.493715532 1.249989499 0.082740068 0.408872381 406.1528694 529408.3772 0.060646464 0.12110216 1.81E-06 5.742780481 -0.243726033 TQLEELEDELQATEDAK ddPTM_HeLa_SAHA_4h_R1 5 TQLEELEDELQATEDAK 17 0 P35579;P35579-2;P35749-4;P35749-3;P35749;P35749-2;P35580;P35580-5;P35580-2;P35580-3;P35580-4 P35579;P35749-4;P35580 MYH9;MYH11;MYH10 Myosin-9;Myosin-11;Myosin-10 0 0 ;;;; ;;;; 319.28 1.21E-118 36256340 8056.31 5431 5346.42 6872.73 6430.83 8300.74 6463.45 6562.31 8539.99 7076.87 FALSE FALSE TRUE 8903.709649 5606.967963 6075.002275 7005.761627 5938.101195 7593.470253 5736.165595 6394.455612 8480.559514 7381.988499 1.206139735 0.759547101 0.822949301 0.949034481 0.804404016 1.028648345 0.777048839 0.866224001 1.148817763 1 12.84979377 -7.26046766 24.99973083 1.097343764 0.861755893 0.632018959 0.090481872 49.82229382 1281799.99 0.017347517 0.020601912 5.49E-08 7.26046766 -0.235587871 TQLS(ph)PSIK ddPTM_HeLa_SAHA_4h_R1 2 TQLSPSIK 8 0 H0Y9Y2;Q8NFC6 H0Y9Y2;Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 T(0.004)QLS(0.988)PS(0.008)IK;T(0.014)QLS(0.523)PS(0.463)IK ; 118.23 0.0038753 25537000 5597.8 6551 4905.4 5781.4 6575.2 7238.3 6254.8 6005 8626 5812.5 TRUE FALSE FALSE 6186.602288 6763.256698 5573.882366 5893.307357 6071.409597 6621.556118 5550.993442 5851.400795 8565.970964 6063.105321 1.0203686 1.115477357 0.919311487 0.971994885 1.001369641 1.092106399 0.915536371 0.965083152 1.4128026 1 12.56584117 TQLS(ph)QGR ddPTM_HeLa_SAHA_4h_R1 1 TQLSQGR 7 0 Q8ND56;Q8ND56-2 Q8ND56 LSM14A Protein LSM14 homolog A 1 0 TQLS(1)QGR 86.882 0.022628 7702700 1078.8 1789.6 1182.1 1139 1658 3628.6 2200.1 859.74 1605.3 2931.2 TRUE FALSE FALSE 1192.273134 1847.584214 1343.190432 1161.046992 1530.964398 3319.422866 1952.538958 837.7490957 1594.128587 3057.578377 0.389940334 0.604263893 0.439298774 0.37972763 0.500711416 1.085637867 0.638589994 0.273991045 0.521369656 1 11.57817377 -9.413054835 1.101309114 1.00395188 0.53912434 0 0.255346972 0.436634038 0.934325169 0.158048787 0.038642124 3.86E-10 9.413054835 -0.464827541 TQLWASEPGT(ph)PPLPTSLPSQNPILK ddPTM_HeLa_SAHA_4h_R1 1 TQLWASEPGTPPLPTSLPSQNPILK 25 0 Q9BXP5-5;Q9BXP5-4;Q9BXP5-2;Q9BXP5-3;Q9BXP5;H7C3A1 Q9BXP5-5 SRRT Serrate RNA effector molecule homolog 1 0 TQLWAS(0.065)EPGT(0.441)PPLPT(0.349)S(0.073)LPS(0.073)QNPILK 88.668 4.96E-05 167490000 791.43 580.33 614.17 960.79 869.95 1048.2 846.25 764.86 748.55 669.39 TRUE FALSE FALSE 874.6762386 599.1330728 697.8658891 979.3874798 803.2946189 958.887463 751.0277228 745.2959887 743.3407796 698.2506788 1.252667939 0.858048679 0.999448923 1.402630186 1.150438723 1.373271079 1.075584665 1.06737596 1.064575807 1 9.447601261 -6.302387781 24.99844563 1.090421928 1.211511233 0.241327884 0.142518406 840.879091 513343.7087 0.024526078 0.037464459 4.98E-07 6.302387781 0.121089305 TQLWASEPGTPPLPT(ph)SLPSQNPILK ddPTM_HeLa_SAHA_4h_R1 1 TQLWASEPGTPPLPTSLPSQNPILK 25 0 Q9BXP5-5;Q9BXP5-4;Q9BXP5-2;Q9BXP5-3;Q9BXP5;H7C3A1 Q9BXP5-5 SRRT Serrate RNA effector molecule homolog 1 0 T(0.002)QLWAS(0.08)EPGT(0.229)PPLPT(0.659)S(0.024)LPS(0.005)QNPILK 80.79 0.00014165 208070000 491.34 563.54 372.76 448.34 290.59 683.87 549.84 544.47 569.64 414.07 TRUE FALSE FALSE 543.0213955 581.7990658 423.5577915 457.018269 268.325057 625.6004287 487.9705561 530.5432458 565.6758289 431.9225841 1.257219269 1.346998483 0.980633584 1.058102275 0.621234144 1.4484087 1.12976393 1.228329486 1.309669486 1 8.754628943 -9.67063912 1.555224122 1.000657895 1.147343417 0 0.235266101 1.013509642 4.444748525 0.149866127 0.034207087 2.13E-10 9.67063912 0.146685522 TQMAEVLPS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 TQMAEVLPSPR 11 0 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 1 0 TQMAEVLPS(1)PR;TQMAEVLPS(1)PR;TQMAEVLPS(1)PR ;; 124.48 0.0018106 103868000 6682 4772.4 3677.2 4335.9 5806.3 6590.6 5290.1 6913 4253.1 4810.2 TRUE FALSE FALSE 7384.843418 4927.028891 4178.309666 4419.827614 5361.422548 6029.043802 4694.844025 6736.17547 4223.502331 5017.591263 1.471790553 0.981951027 0.832732171 0.880866412 1.068525168 1.201581294 0.935676858 1.342511798 0.841739016 1 12.29277924 TQPDGTSVPGEPAS(ph)PISQR ddPTM_HeLa_SAHA_4h_R1 6 TQPDGTSVPGEPASPISQR 19 0 A0A087WY61;Q14980-5;Q14980-2;Q14980;H0YFY6 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 1 0 TQPDGTSVPGEPAS(1)PISQR;TQPDGTSVPGEPAS(0.998)PIS(0.002)QR;TQPDGTSVPGEPAS(0.98)PIS(0.02)QR;TQPDGTSVPGEPAS(0.987)PIS(0.013)QR;TQPDGTSVPGEPAS(1)PISQR;TQPDGTSVPGEPAS(0.989)PIS(0.011)QR ;;;;; 314.94 2.54E-107 1096690000 7345.9 8066.06 6636.03 7411.51 8067.5 9738.87 8316.39 8218.72 8678.1 7432.09 TRUE FALSE FALSE 8118.575466 8327.405636 7540.353609 7554.970493 7449.369893 8909.063487 7380.60791 8008.497043 8617.708396 7752.523772 1.047217101 1.074154157 0.972632117 0.974517553 0.960896105 1.14918235 0.952026479 1.033018057 1.111600383 1 12.92045033 -9.762103531 1.732274207 1.00000378 1.024248664 0 0.067289386 1.492187879 8.114222853 0.040178316 0.008635202 1.73E-10 9.762103531 0.024244884 TQPDVMS(ph)QNAR ddPTM_HeLa_SAHA_4h_R1 1 TQPDVMSQNAR 11 0 Q96Q15;J3KRA9;Q96Q15-4;Q96Q15-3;Q96Q15-2 Q96Q15 SMG1 Serine/threonine-protein kinase SMG1 1 0 TQPDVMS(1)QNAR 101.32 0.0073084 5189700 857.3 792.3 650.27 926.74 882.32 1007.2 813.48 883.37 612.37 905.41 TRUE FALSE FALSE 947.4747474 817.9710398 738.8854091 944.6783928 814.7168322 921.3808936 721.9450894 860.7746745 608.1084673 944.4466561 1.003206207 0.866084955 0.782347425 1.000245368 0.862639332 0.975577485 0.764410658 0.911406345 0.643878046 1 9.883325503 -7.264980328 24.17680268 1.001514046 0.87974442 0 0.132620818 132.2530235 902992.4426 0.010877571 0.012700231 5.43E-08 7.264980328 -0.121769626 TQPSSGVDSAVGTLPAT(ph)SPQSTSVQAK ddPTM_HeLa_SAHA_4h_R1 1 TQPSSGVDSAVGTLPATSPQSTSVQAK 27 0 Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 Q13428 TCOF1 Treacle protein 1 0 TQPSSGVDSAVGTLPAT(0.493)S(0.493)PQS(0.004)T(0.007)S(0.003)VQAK 137.58 1.33E-09 15037000 2256 1871.3 1892.4 2338 2240.2 2659.4 2607.2 2140 2569.5 2277.1 TRUE FALSE FALSE 2493.296431 1931.931348 2150.286417 2383.255371 2068.55636 2432.804159 2313.830994 2085.261899 2551.61864 2375.276925 1.04968663 0.813349941 0.905278199 1.003358954 0.870869556 1.024219169 0.974131046 0.877902647 1.074240487 1 11.21388001 -7.334663646 24.99998566 1.023463175 0.930196751 0.405564157 0.063614674 117.2999713 40047.6371 0.010441892 0.011940757 4.63E-08 7.334663646 -0.093266424 TQPSSGVDSAVGTLPATS(ph)PQSTSVQAK ddPTM_HeLa_SAHA_4h_R1 2 TQPSSGVDSAVGTLPATSPQSTSVQAK 27 0 Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 Q13428 TCOF1 Treacle protein 1 0 TQPSSGVDSAVGTLPAT(0.257)S(0.716)PQS(0.009)T(0.014)S(0.005)VQAK;TQPSSGVDSAVGTLPAT(0.256)S(0.738)PQS(0.002)T(0.003)S(0.001)VQAK ; 171.36 9.29E-14 21681700 4474.7 3612.2 4008.92 4054.2 4827.8 4892.2 4701.5 4396.3 4951.7 4727 TRUE FALSE FALSE 4945.369477 3729.23765 4555.23474 4132.674903 4457.895007 4475.357037 4172.474846 4283.849012 4917.240717 4930.804103 1.002953955 0.756314299 0.923832025 0.838134068 0.904090877 0.907632294 0.846205763 0.868793187 0.997249255 1 12.26760722 -7.302115919 24.61768845 1.00139495 0.867496251 0.663066476 0.044524022 162.5051445 98348.69252 0.006863892 0.007849211 4.99E-08 7.302115919 -0.133898698 TQQSPIS(ph)NGSPELGIK ddPTM_HeLa_SAHA_4h_R1 1 TQQSPISNGSPELGIK 16 0 Q15723-2;Q15723-3;Q15723-1;Q15723 Q15723-2 ELF2 ETS-related transcription factor Elf-2 1 0 T(0.008)QQS(0.056)PIS(0.849)NGS(0.087)PELGIK 98.552 0.0042748 5578000 1295.7 1276.3 1174.6 1502 1482.5 1496.6 1540.1 1711.9 1622.6 1281.9 TRUE FALSE FALSE 1431.987671 1317.652957 1334.668371 1531.073382 1368.91117 1369.08126 1366.803895 1668.112077 1611.308194 1337.168982 1.070910027 0.985404967 0.998129921 1.145011141 1.023738352 1.023865554 1.022162429 1.247495342 1.205014636 1 10.38496608 -4.259475203 24.81503596 1.034124457 1.247495422 0.392579236 0.069312603 73.10463795 923513.4612 0.006230052 0.054559893 5.50E-05 4.259475203 0.213370965 TQRLS(ph)AETWDLLR ddPTM_HeLa_SAHA_4h_R1 1 TQRLSAETWDLLR 13 1 A0A0A0MSK4;A0A0A0MRC4;Q86YR5-4;Q86YR5 A0A0A0MSK4 GPSM1 G-protein-signaling modulator 1 1 0 T(0.066)QRLS(0.93)AET(0.003)WDLLR 75.445 0.014305 2522600 755.23 919.11 960.85 1093.4 1140.6 1255.5 1469.1 1214.3 1054 910.14 TRUE FALSE FALSE 834.6685565 948.8897671 1091.789634 1114.564338 1053.207474 1148.524337 1303.793002 1183.239964 1046.665128 949.3805895 0.87917171 0.999483008 1.15000206 1.173991074 1.109362764 1.209761764 1.373309099 1.246328372 1.10247159 1 9.890842743 -6.202207591 0.819638195 0.941740527 1.281966173 0.614603449 0.083091931 0.221779398 0.29199574 0.015145729 0.037011811 6.28E-07 6.202207591 0.340225645 TQS(ph)LPVTEK ddPTM_HeLa_SAHA_4h_R1 1 TQSLPVTEK 9 0 Q9NQW6;Q9NQW6-2 Q9NQW6 ANLN Actin-binding protein anillin 1 0 T(0.047)QS(0.782)LPVT(0.171)EK 124.12 0.0029882 14060000 3224.5 5064.4 4113.2 2897.2 3630.5 5007.1 4314.8 2799.5 3381.6 3510.9 TRUE FALSE FALSE 3563.667705 5228.489883 4673.725475 2953.279495 3352.331874 4580.466911 3829.287348 2727.892844 3358.06717 3662.272081 0.973075628 1.427662874 1.276181936 0.806406359 0.915369421 1.250717262 1.045604276 0.744863512 0.91693547 1 11.83852326 -4.260645345 23.40206656 1.039292096 0.744863356 0.201889267 0.184981441 37.0447999 1091264.876 0.025801782 0.20718342 5.49E-05 4.260645345 -0.29442874 TQS(ph)LSALPK ddPTM_HeLa_SAHA_4h_R1 2 TQSLSALPK 9 0 I3L2J0;A0A0A0MQR4;Q96RK0 I3L2J0 CIC Protein capicua homolog 1 0 T(0.001)QS(0.593)LS(0.406)ALPK;T(0.039)QS(0.858)LS(0.104)ALPK ; 89.356 0.018274 71576000 7059.1 6486.5 6972.3 6977.6 7520.7 8329.9 8131.7 8317.6 6043.4 6020.3 TRUE FALSE FALSE 7801.608526 6696.666856 7922.448734 7112.661538 6944.465591 7620.145657 7216.699715 8104.847836 6001.343487 6279.864596 1.242321137 1.066371218 1.261563623 1.132613837 1.105830466 1.213425153 1.149180783 1.290608693 0.955648549 1 12.61651774 -9.4338175 1.046784428 0.995028455 1.183078529 0.574583448 0.069519007 0.34887803 0.653923414 0.050595256 0.011384599 3.68E-10 9.4338175 0.188050074 TQS(ph)PEFEAQSSK ddPTM_HeLa_SAHA_4h_R1 1 TQSPEFEAQSSK 12 0 H3BS42;Q9H5H4 H3BS42 ZNF768 Zinc finger protein 768 1 0 T(0.002)QS(0.997)PEFEAQSS(0.001)K 176.43 7.62E-17 0 1695.9 1860.7 1281 1458 1523.9 1821.5 1692.6 1463.2 2244.2 1745.1 TRUE FALSE FALSE 1874.282543 1920.987901 1455.568009 1486.221698 1407.139111 1666.297953 1502.144193 1425.773463 2228.582429 1820.339801 1.029633336 1.055290831 0.799613351 0.816452894 0.773009034 0.915377421 0.825199884 0.783245777 1.224267265 1 10.82999207 -6.758578654 24.9999984 1.017481819 0.821306087 0.716450476 0.076015089 19.20893398 167866.4621 0.006197294 0.008544324 1.74E-07 6.758578654 -0.196175732 TQS(ph)PGGCSAEAVLAR ddPTM_HeLa_SAHA_4h_R1 4 TQSPGGCSAEAVLAR 15 0 K7ESM2;K7ELS4;K7EJA3;K7ERG7;Q96MH2 K7ESM2 HEXIM2 Protein HEXIM2 1 0 T(0.116)QS(0.884)PGGCSAEAVLAR;T(0.102)QS(0.68)PGGCS(0.219)AEAVLAR;T(0.06)QS(0.933)PGGCS(0.008)AEAVLAR;T(0.397)QS(0.603)PGGCSAEAVLAR ;;; 175.19 4.92E-07 110769000 3430.27 3282.69 3037.07 3288.07 3261.51 3662.13 3701.43 3188.81 3524.21 3484.2 TRUE FALSE FALSE 3791.081537 3389.05131 3450.946083 3351.715349 3011.613808 3350.095921 3284.935355 3107.244858 3499.684736 3634.420913 1.0431047 0.93248729 0.949517451 0.922214413 0.828636495 0.921768832 0.903840098 0.854949091 0.962927745 1 11.8275098 -6.754155081 1.296541492 1.01996403 0.885152726 0.611848139 0.037301123 0.147771126 0.499241831 0.006200085 0.009302705 1.76E-07 6.754155081 -0.134811304 TQS(ph)SLTVSEVLTR ddPTM_HeLa_SAHA_4h_R1 3 TQSSLTVSEVLTR 13 0 Q86V48-2;Q86V48-3;Q86V48 Q86V48-2 LUZP1 Leucine zipper protein 1 1 0 T(0.002)QS(0.435)S(0.435)LT(0.127)VSEVLTR;T(0.144)QS(0.829)S(0.026)LT(0.001)VSEVLTR;T(0.334)QS(0.642)S(0.024)LTVSEVLTR ;; 230.96 3.66E-23 87179100 1476.07 1932.07 1453.37 1834.27 1801.2 1921.94 1950.78 1922.93 2347.74 1832.06 TRUE FALSE FALSE 1631.329815 1994.670336 1651.427695 1869.774948 1663.192445 1758.179899 1731.2731 1873.744235 2331.401886 1911.049072 0.853630521 1.043756733 0.864147195 0.978402373 0.870303368 0.92000772 0.905928124 0.980479393 1.219959194 1 10.90014911 -9.672395294 1.531793187 0.999964638 0.915972831 0.241514652 0.091295708 0.472243729 1.996241118 0.039848511 0.008923604 2.13E-10 9.672395294 -0.083991807 TQSAS(ph)PPPKER ddPTM_HeLa_SAHA_4h_R1 1 TQSASPPPKER 11 1 Q9UN81 Q9UN81 L1RE1 LINE-1 retrotransposable element ORF1 protein 1 0 T(0.003)QS(0.06)AS(0.937)PPPKER 80.96 0.013768 5179300 1690.6 1990.4 1694 2540.1 2269.3 2669.1 2228.1 2479.8 2426.6 2654.2 TRUE FALSE FALSE 1868.425065 2054.890266 1924.849498 2589.267309 2095.426724 2441.677664 1977.388324 2416.370307 2409.713093 2768.635551 0.674854104 0.742203236 0.695233974 0.93521421 0.756844549 0.881906491 0.714210407 0.872765758 0.870361248 1 11.43495944 -9.487186349 1.240903808 0.999525791 0.773092961 0.264124236 0.090936393 0.304085489 0.840621818 0.057967058 0.014272741 3.26E-10 9.487186349 -0.226432829 TQSPHS(ph)PKEESER ddPTM_HeLa_SAHA_4h_R1 2 TQSPHSPKEESER 13 1 Q5T5U3;E7ESW5;A0A1B0GV73;Q5T5U3-3;A0A1B0GTZ9 Q5T5U3 ARHGAP21 Rho GTPase-activating protein 21 1 0 T(0.015)QS(0.044)PHS(0.933)PKEES(0.008)ER;T(0.097)QS(0.053)PHS(0.81)PKEES(0.04)ER ; 94.01 0.0049781 9774300 2507 3375.3 1588.64 3732.7 4241.1 5004.9 4177 4453.2 3607 3359.2 TRUE FALSE FALSE 2770.697763 3484.661935 1805.131586 3804.951806 3916.147834 4578.454363 3706.992967 4339.293592 3581.898593 3504.031552 0.790717127 0.994472191 0.515158485 1.085878295 1.117612035 1.306624754 1.057922257 1.238371724 1.022222129 1 11.77480005 -6.016058681 24.35966498 0.877332807 1.170601928 0.498969531 0.150676441 334.0657858 506750.6595 0.022043871 0.037276725 9.64E-07 6.016058681 0.293269121 TQSRPGGPPNPPGPS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 TQSRPGGPPNPPGPSPK 17 1 M0QXA7;A0A669KBH9;A0A669KAV7;O95785-3;B9EGQ5;A0A669KBG4;A0A2R8YFV2;O95785-4;O95785;O95785-2 M0QXA7 WIZ Protein Wiz 1 0 TQSRPGGPPNPPGPS(1)PK;TQSRPGGPPNPPGPS(1)PK ; 85.224 0.0042681 18473700 5552.4 4998.5 4627.5 5125 5232.7 5867.3 5141.9 5303.1 5118 5044.4 TRUE FALSE FALSE 6136.426907 5160.45468 5258.111601 5224.201786 4831.771656 5367.373031 4563.319879 5167.454381 5082.383421 5261.888771 1.166202323 0.980722874 0.999282165 0.992837746 0.918258038 1.020046844 0.867239898 0.982053138 0.965885758 1 12.36136504 -7.091030675 7.978170827 1.078472931 0.963157961 0.179953767 0.065979751 0.244544355 19.35376522 0.011904825 0.014603944 8.11E-08 7.091030675 -0.11531497 TQSSLVPALTDFVR ddPTM_HeLa_SAHA_4h_R1 2 TQSSLVPALTDFVR 14 0 C9IZG4;O60888-3;O60888;O60888-2 C9IZG4 CUTA Protein CutA 0 0 ; ; 109.15 0.0099108 562210 142.71 0 0 62.464 0 136.101 130.38 0 68.206 69.695 FALSE FALSE TRUE 157.7208926 0 0 63.67308104 0 124.5044291 115.7092993 0 67.73134889 72.69989253 2.169479033 0 0 0.875834597 0 1.712580649 1.591602068 0 0.931656795 1 6.183881326 -7.262427756 24.99655972 1.552253979 0.643079596 0.189423913 0.694478257 95.21844863 2408110.891 0.126770857 0.149388927 5.46E-08 7.262427756 -0.909174384 TQSSS(ph)CEDLPSTTQPK ddPTM_HeLa_SAHA_4h_R1 2 TQSSSCEDLPSTTQPK 16 0 Q5JS72;A0A2U3TZM4;A0A2R8Y6F8;A0A2R8YFN5;O14936-5;O14936-3;O14936-4 Q5JS72 CASK Peripheral plasma membrane protein CASK 1 0 T(0.034)QS(0.012)S(0.051)S(0.904)CEDLPSTTQPK;TQSS(0.006)S(0.994)CEDLPSTTQPK ; 260.44 5.07E-47 17317800 2215.5 2692.49 1938.38 2580.83 2881.92 3004.01 3139.14 2975.16 3061.95 2480.91 TRUE FALSE FALSE 2448.536455 2779.728443 2202.532332 2630.785697 2661.107912 2748.051448 2785.915705 2899.059715 3040.641641 2587.874171 0.946157461 1.074135858 0.85109715 1.016581766 1.028298803 1.061895311 1.076526725 1.120247556 1.174957297 1 11.33755176 -5.324975717 1.309146657 0.974306683 1.101668853 0.068751236 0.083101526 0.312889545 0.984996431 0.007930162 0.031062729 4.73E-06 5.324975717 0.12736217 TQSSSCERDS(ph)PSTSR ddPTM_HeLa_SAHA_4h_R1 2 TQSSSCERDSPSTSR 15 1 Q5JS79;A0A2U3TZM1;A0A2R8YE77;A0A2R8YEK3;O14936-6;O14936-2;O14936 Q5JS79 CASK Peripheral plasma membrane protein CASK 1 0 TQSSSCERDS(0.959)PS(0.031)T(0.01)SR;T(0.002)QS(0.002)S(0.028)S(0.028)CERDS(0.591)PS(0.274)T(0.07)S(0.006)R ; 103.75 0.0018949 12415820 979.8 1146.03 545.168 1061.42 1203.04 1288.29 1186.74 1134.45 1134.97 1287.16 TRUE FALSE FALSE 1082.859859 1183.162124 619.4606559 1081.965319 1110.863335 1178.520444 1053.204892 1105.432412 1127.071651 1342.655767 0.806505946 0.881210324 0.461369676 0.805839699 0.827362726 0.877753236 0.784419147 0.823317815 0.839434559 1 10.39087376 -8.809195635 0.736601711 0.997820946 0.779592632 0.121919741 0.121936029 0.592515717 0.613121315 0.070123172 0.024714966 1.55E-09 8.809195635 -0.218228314 TQT(ph)PPLGQTPQLGLK ddPTM_HeLa_SAHA_4h_R1 2 TQTPPLGQTPQLGLK 15 0 H0Y3P2;D3DQV9;P78344-2;P78344;E9PKF8 H0Y3P2 EIF4G2 Eukaryotic translation initiation factor 4 gamma 2 1 0 T(0.043)QT(0.957)PPLGQTPQLGLK;T(0.02)QT(0.945)PPLGQT(0.035)PQLGLK ; 121.13 0.0013314 251480000 2830.3 3038.9 3187.7 3234.5 3201.9 3317 3175.9 3212.1 2880.5 2683.4 TRUE FALSE FALSE 3128.00394 3137.362354 3622.103155 3297.108425 2956.571114 3034.372939 2818.539373 3129.939133 2860.454366 2799.094506 1.117505655 1.120849027 1.294026746 1.177919651 1.056259839 1.084055194 1.006946842 1.118197019 1.021921325 1 11.45074448 -8.946318798 0.89860851 1.004150443 1.121076457 0.270847053 0.072311236 0.612247385 0.943484561 0.042862875 0.015525891 1.13E-09 8.946318798 0.116926014 TQT(ph)PPVEENVTQK ddPTM_HeLa_SAHA_4h_R1 2 TQTPPVEENVTQK 13 0 Q6P1Q9-2;Q6P1Q9 Q6P1Q9-2 METTL2B Methyltransferase-like protein 2B 1 0 T(0.001)QT(0.998)PPVEENVTQK;T(0.485)QT(0.515)PPVEENVTQK ; 166.3 6.83E-05 13895700 4319.4 4194.7 3737.8 4032.5 4343.1 4857.7 4535.7 4722.1 4536.3 4434 TRUE FALSE FALSE 4773.73431 4330.611032 4247.167918 4110.554869 4010.332616 4443.796631 4025.331099 4601.31552 4504.731519 4625.171439 1.032120511 0.936313624 0.918272538 0.888735677 0.867066804 0.960785279 0.870309599 0.994842154 0.973959901 1 12.17529113 -7.141262561 4.017541076 1.01510949 0.913919287 0.469255125 0.039762263 0.110034721 3.076887502 0.005980688 0.007382181 7.22E-08 7.141262561 -0.101190202 TQT(ph)PPVS(ph)PAPQPTEER ddPTM_HeLa_SAHA_4h_R1 1 TQTPPVSPAPQPTEER 16 0 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 2 0 T(0.147)QT(0.853)PPVS(0.99)PAPQPT(0.01)EER 143.43 0.0025077 30667000 1216.8 2302.6 1414.3 1722.2 2194.2 2392.2 1721.6 1541.6 3139.7 1941.2 TRUE FALSE FALSE 1344.788607 2377.205751 1607.033439 1755.535671 2026.08087 2188.371102 1527.881037 1502.168104 3117.850572 2024.894632 0.664127696 1.173989853 0.793638056 0.866976308 1.000585827 1.080733322 0.754548416 0.741850011 1.539759414 1 10.98363112 TQT(ph)PPVSPAPQPT(ph)EERLPSSPVYEDAASFK ddPTM_HeLa_SAHA_4h_R1 1 TQTPPVSPAPQPTEERLPSSPVYEDAASFK 30 1 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 2 0 T(0.26)QT(0.696)PPVS(0.071)PAPQPT(0.937)EERLPS(0.016)S(0.016)PVY(0.004)EDAASFK 67.076 0.00019139 3868100 1001.9 1107.3 1133.3 1064.6 1408.8 1111.3 1362.6 1347.1 968.68 1068.3 TRUE FALSE FALSE 1107.284439 1143.177247 1287.740222 1085.206872 1300.858048 1016.610988 1209.276662 1312.643133 961.938877 1114.359641 0.993650881 1.025860238 1.155587635 0.973838995 1.167359262 0.912282669 1.085176291 1.177934918 0.863221209 1 10.1219992 -1 0.232581864 0.992200534 1.743041906 0.242319999 0.089758544 56.82574003 0.693864412 0.048633764 16.47551506 0.1 1 0.750841372 TQT(ph)PPVSPAPQPTEER ddPTM_HeLa_SAHA_4h_R1 2 TQTPPVSPAPQPTEER 16 0 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 1 0 T(0.286)QT(0.713)PPVSPAPQPTEER;T(0.008)QT(0.99)PPVS(0.002)PAPQPTEER ; 121.45 0.0011171 101895000 1721.28 3036.87 1761.73 2431.09 2866.33 2789.07 2523.59 2568.09 4346.8 2385.76 TRUE FALSE FALSE 1902.332128 3135.266581 2001.80939 2478.147262 2646.712415 2551.425545 2239.629011 2502.401976 4316.550265 2488.621789 0.764411907 1.259840525 0.80438474 0.995791033 1.063525372 1.02523636 0.899947522 1.005537277 1.734514374 1 11.28113128 TQT(ph)PPVSPAPQPTEERLPSS(ph)PVYEDAASFK ddPTM_HeLa_SAHA_4h_R1 1 TQTPPVSPAPQPTEERLPSSPVYEDAASFK 30 1 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 2 0 T(0.17)QT(0.771)PPVS(0.043)PAPQPT(0.085)EERLPS(0.19)S(0.412)PVY(0.329)EDAAS(0.001)FK 79.023 2.43E-05 44117000 1454.3 1648.4 1386.4 1387.5 1663.7 1936.5 2220.4 1657 1575.9 1490.8 TRUE FALSE FALSE 1607.269947 1701.809242 1575.331372 1414.357069 1536.227665 1771.499306 1970.554748 1614.616339 1564.933184 1555.075684 1.033563809 1.094357824 1.013025532 0.909510118 0.987879678 1.139172404 1.267176105 1.038287947 1.00633892 1 10.60276908 -5.196710446 5.537515328 1.012257541 1.162885405 0.479437971 0.067239154 0.133640807 8.154153961 0.009104419 0.023607881 6.36E-06 5.196710446 0.150627864 TQTCTSSSLS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 2 TQTCTSSSLSPTK 13 0 A0A2R8YCF6;A0A2R8YD00;R4GN03;A0A2R8Y500;A0A2U3TZI0;Q9BZR9 A0A2R8YCF6 TRIM8 Probable E3 ubiquitin-protein ligase TRIM8 1 0 TQTCTS(0.001)S(0.003)S(0.004)LS(0.982)PT(0.01)K;TQTCTSSS(0.001)LS(0.932)PT(0.067)K ; 171.91 2.11E-05 11812200 2157.51 2006.84 1985.99 1985.44 1765.67 2072.35 2101.4 1813.09 2192 2230.3 TRUE FALSE FALSE 2384.446801 2071.862933 2256.630375 2023.871062 1630.384746 1895.774121 1864.944941 1766.713783 2176.745694 2326.459148 1.024925283 0.890564932 0.969984956 0.869936214 0.700800935 0.814875311 0.801623765 0.759400304 0.935647503 1 11.18392014 -6.327032843 1.164817477 1.008696309 0.771598544 0.731214057 0.052806914 0.130264926 0.349642406 0.008138241 0.015683635 4.71E-07 6.327032843 -0.237097766 TQTESS(ph)TPPGIPGGSR ddPTM_HeLa_SAHA_4h_R1 1 TQTESSTPPGIPGGSR 16 0 E9PER6;Q6A1A2;O15530-4;O15530-5;O15530;H3BQ10;O15530-3 E9PER6 PDPK1;PDPK2P Putative 3-phosphoinositide-dependent protein kinase 2;3-phosphoinositide-dependent protein kinase 1 1 0 TQTES(0.006)S(0.497)T(0.497)PPGIPGGSR 199.33 4.50E-15 6506400 1219.1 1055.9 1104.4 1288.5 1811.8 1501.4 1463.2 1206.3 1055.9 1229.6 TRUE FALSE FALSE 1347.330531 1090.111853 1254.901881 1313.440781 1672.980275 1373.472273 1298.556885 1175.444593 1048.551906 1282.614074 1.050456688 0.849914152 0.978393974 1.024034281 1.304352034 1.070838299 1.012429937 0.916444484 0.817511618 1 10.32487143 -5.980125323 24.99912464 1.005336639 1.082740502 0.122253704 0.120031608 444.1358773 558648.2813 0.015872105 0.028768767 1.05E-06 5.980125323 0.077403863 TQTGDSS(ph)SISSFSYR ddPTM_HeLa_SAHA_4h_R1 2 TQTGDSSSISSFSYR 15 0 A0A087WXA6;A0A087WT45;Q4V328-4;Q4V328;Q4V328-3;Q4V328-2 A0A087WXA6 GRIPAP1 GRIP1-associated protein 1 1 0 TQTGDS(0.006)S(0.496)S(0.496)IS(0.001)SFSYR;TQTGDS(0.004)S(0.496)S(0.496)IS(0.004)SFSYR ; 249.54 4.12E-34 54001000 2465.8 2401.6 2441.7 2596.7 2656.5 3036.5 2646.8 2377.7 2560.1 2861.3 TRUE FALSE FALSE 2725.164157 2479.413416 2774.44216 2646.962883 2452.959544 2777.773117 2348.975098 2316.881877 2542.284056 2984.664646 0.913055395 0.830717588 0.929565794 0.88685437 0.821854324 0.930681817 0.787014749 0.776262043 0.851782146 1 11.54335313 -1 0.041289855 1.384740934 0.038627416 0.131791009 0.063235592 260.3277606 0.826190841 7.320175639 24.33125741 0.1 1 -1.346113518 TQTPPVS(ph)PAPQPTEER ddPTM_HeLa_SAHA_4h_R1 2 TQTPPVSPAPQPTEER 16 0 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 1 0 TQT(0.033)PPVS(0.967)PAPQPTEER;T(0.005)QT(0.175)PPVS(0.819)PAPQPT(0.001)EER ; 155.63 1.87E-05 10292600 961.14 1495.67 1159.21 976.61 1426.84 1735.13 1347.08 908.67 1697.2 1272.98 TRUE FALSE FALSE 1062.237115 1544.130689 1317.181102 995.5136988 1317.515827 1587.287162 1195.503013 885.4275371 1685.389047 1327.864398 0.79995903 1.162867754 0.991954528 0.749710362 0.992206606 1.195368417 0.900320104 0.666805691 1.269247861 1 10.37489211 -2.048212394 15.38913615 0.927647375 0.351518641 0 0.193386489 0 0 0.021452544 0 0.00894927 2.048212394 -0.576128734 TQTPPVSPAPQPT(ph)EERLPS(ph)SPVYEDAASFK ddPTM_HeLa_SAHA_4h_R1 1 TQTPPVSPAPQPTEERLPSSPVYEDAASFK 30 1 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 2 0 T(0.052)QT(0.121)PPVS(0.231)PAPQPT(0.611)EERLPS(0.46)S(0.457)PVY(0.069)EDAASFK 58.349 0.020273 41312000 1305 1528.3 1208.8 1485.6 1525.2 1501.1 1904.3 1541.2 1282.7 1169.3 TRUE FALSE FALSE 1442.265888 1577.817923 1373.528969 1514.355936 1408.339506 1373.197835 1690.023152 1501.778336 1273.773586 1219.714245 1.182462116 1.293596372 1.12610718 1.241566163 1.154647091 1.125835695 1.385589419 1.231254239 1.044321316 1 10.25232748 -13.52287875 0.163801573 0.107634022 1.280335268 0.510964685 0.076241824 32.19974809 0.349041299 9.110452891 0.133595422 3.00E-14 13.52287875 1.172701246 TQTPPVSPAPQPTEERLPS(ph)SPVYEDAASFK ddPTM_HeLa_SAHA_4h_R1 3 TQTPPVSPAPQPTEERLPSSPVYEDAASFK 30 1 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 1 0 TQTPPVSPAPQPT(0.031)EERLPS(0.453)S(0.453)PVY(0.063)EDAASFK;TQTPPVS(0.001)PAPQPT(0.037)EERLPS(0.459)S(0.459)PVY(0.044)EDAASFK;TQTPPVSPAPQPTEERLPS(0.482)S(0.482)PVY(0.035)EDAASFK ;; 102.5 6.34E-09 720190000 7624.1 8357.4 7207.2 7205.5 9471.5 10175.8 9934.6 8905.7 8438.8 7525.3 TRUE FALSE FALSE 8426.037819 8628.185243 8189.359683 7344.972872 8745.795716 9308.764593 8816.732662 8677.905089 8380.073704 7849.752511 1.073414456 1.099166532 1.043263424 0.935694834 1.11414923 1.185867272 1.123186069 1.10550047 1.06755897 1 12.93843145 -1 0.108356295 0.97099492 1.467741927 0.204762937 0.058988434 105.4712009 0.803189863 0.382776367 7.859018575 0.1 1 0.496747007 TQTPPVSPAPQPTEERLPSS(ph)PVYEDAASFK ddPTM_HeLa_SAHA_4h_R1 1 TQTPPVSPAPQPTEERLPSSPVYEDAASFK 30 1 Q14247;Q14247-3;Q14247-2;H0YEV2;H0YCD9 Q14247 CTTN Src substrate cortactin 1 0 TQTPPVSPAPQPT(0.002)EERLPS(0.267)S(0.726)PVY(0.005)EDAASFK 107.32 1.67E-09 303940000 2190.4 2391.8 1929.6 2028.7 2657.3 2920.6 3224.7 2421.2 2194.5 2029.6 TRUE FALSE FALSE 2420.796322 2469.295889 2192.555839 2067.968422 2453.698248 2671.748449 2861.848269 2359.26921 2179.228296 2117.105989 1.143445975 1.166354402 1.035638202 0.976790219 1.158986967 1.261981433 1.351773735 1.11438408 1.029343031 1 11.04787778 -1 0.094449269 0.924626218 1.821328285 0.343941766 0.091717785 122.0333335 0.829485823 0.993363149 14.2373346 0.1 1 0.896702067 TQVLGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 TQVLGKK 7 1 Q9H814 Q9H814 PHAX Phosphorylated adapter RNA export protein 0 1 ; TQVLGK(1)K;TQVLGK(1)K 107.29 0.0043106 16208300 3975.7 4121.3 6071.8 9359 11766.4 8907.5 17629.3 8781.6 1606.42 2188 FALSE TRUE FALSE 4393.882367 4254.832824 6899.233283 9540.156978 10864.86097 8148.530888 15645.60477 8556.979388 1595.240792 2282.335388 1.925169452 1.864245214 3.022883192 4.179997834 4.760413843 3.570260064 6.855085738 3.749220835 0.698951084 1 11.1562951 -6.436267467 0.73749773 1.291893403 5.124485858 0.758083625 0.875931519 0.209524317 0.226846886 0.167695323 0.357400114 3.66E-07 6.436267467 3.832592455 TQVTVQYMQDR ddPTM_HeLa_SAHA_4h_R1 3 TQVTVQYMQDR 11 0 P31153-2;P31153 P31153-2 MAT2A S-adenosylmethionine synthase isoform type-2 0 0 ;; ;; 145.25 0.0030885 13728440 1235.82 1066.19 1392.77 1133.78 1227.56 1306.021 1473.72 927.69 867.27 921.72 FALSE FALSE TRUE 1365.809218 1100.735256 1582.569442 1155.725951 1133.504618 1194.740663 1307.893147 903.9610331 861.2345975 961.45986 1.420557711 1.144858253 1.646006774 1.202053252 1.178941176 1.24263187 1.360320073 0.940196331 0.895757206 1 9.909082817 -9.504990197 1.248940271 0.999736184 1.28928964 0.313034849 0.181311887 0.481603529 1.342516745 0.11877762 0.028626028 3.13E-10 9.504990197 0.289553455 TRAGGVMK(ac)IVREHYLR ddPTM_HeLa_SAHA_4h_R1 1 TRAGGVMKIVREHYLR 16 3 F2Z2C0;Q9Y2L1-2;Q9Y2L1 F2Z2C0 DIS3 Exosome complex exonuclease RRP44 0 1 TRAGGVMK(1)IVREHYLR 50.077 0.022097 16935000 2133.9 1244.5 5333.5 6040.1 4129.4 5902.5 3178 3424 1934.7 5320.6 FALSE TRUE FALSE 2358.353393 1284.822617 6060.321604 6157.01487 3813.006264 5399.573793 2820.403076 3336.419038 1921.236265 5549.997104 0.424928761 0.231499691 1.091950408 1.109372627 0.687028514 0.972896687 0.508181 0.601156897 0.346168877 1 12.4382713 -9.668953082 1.551588786 0.998537588 0.669913649 0 0.339592458 0.628646984 2.743658576 0.207874164 0.047476481 2.14E-10 9.668953082 -0.328623939 TRDDGDEEGLLTHS(ph)EEELEHS(ph)QDTDADDGALQ ddPTM_HeLa_SAHA_4h_R1 2 TRDDGDEEGLLTHSEEELEHSQDTDADDGALQ 32 1 Q9UKM9-2;Q9UKM9 Q9UKM9-2 RALY RNA-binding protein Raly 2 0 TRDDGDEEGLLT(0.071)HS(0.681)EEELEHS(0.624)QDT(0.624)DADDGALQ;TRDDGDEEGLLT(0.321)HS(0.531)EEELEHS(0.518)QDT(0.63)DADDGALQ ; 62.848 0.00020783 15840300 770.35 904.86 958.15 1060.09 899.64 819.12 990.48 1104.81 1077 996.25 TRUE FALSE FALSE 851.3789475 934.1780577 1088.721692 1080.609575 830.7097776 749.3263678 879.0285836 1076.55056 1069.505069 1039.203213 0.819261273 0.898936845 1.047650429 1.039844336 0.799371833 0.721058556 0.845867846 1.035938444 1.02915874 1 10.02126208 -5.726719305 24.99836434 0.930262287 0.840974033 0.185769963 0.103865377 309.5998849 222909.6005 0.016578195 0.0331552 1.88E-06 5.726719305 -0.089288254 TRDDGDEEGLLTHS(ph)EEELEHSQDT(ph)DADDGALQ ddPTM_HeLa_SAHA_4h_R1 1 TRDDGDEEGLLTHSEEELEHSQDTDADDGALQ 32 1 Q9UKM9-2;Q9UKM9 Q9UKM9-2 RALY RNA-binding protein Raly 2 0 TRDDGDEEGLLT(0.043)HS(0.847)EEELEHS(0.505)QDT(0.605)DADDGALQ 58.349 0.001845 7422800 417.88 304.37 388.3 419.55 432.19 310.94 455.2 427.74 449.65 303.13 TRUE FALSE FALSE 461.8345357 314.2317877 441.2155018 427.6709969 399.0756956 284.4461627 403.979698 416.7990302 446.520849 316.1994178 1.460579969 0.99377725 1.395371013 1.352535688 1.262101298 0.899578389 1.277610505 1.318152428 1.412149498 1 8.304690901 -3.047202752 2.003702885 1.212974873 10.88183365 0.015624281 0.187499196 508.7469905 29.22760015 0.029717496 21822.33993 0.00089701 3.047202752 9.668858779 TRDDGDEEGLLTHS(ph)EEELEHSQDTDADDGALQ ddPTM_HeLa_SAHA_4h_R1 4 TRDDGDEEGLLTHSEEELEHSQDTDADDGALQ 32 1 Q9UKM9-2;Q9UKM9 Q9UKM9-2 RALY RNA-binding protein Raly 1 0 TRDDGDEEGLLT(0.035)HS(0.425)EEELEHS(0.425)QDT(0.116)DADDGALQ;TRDDGDEEGLLT(0.002)HS(0.703)EEELEHS(0.147)QDT(0.147)DADDGALQ;TRDDGDEEGLLT(0.009)HS(0.33)EEELEHS(0.33)QDT(0.33)DADDGALQ;TRDDGDEEGLLT(0.007)HS(0.738)EEELEHS(0.039)QDT(0.215)DADDGALQ ;;; 87.439 1.94E-07 40561300 1689.74 1946.11 1805.64 2128.56 2207.95 2093.7 2280.36 1981.83 1945.65 1846.52 TRUE FALSE FALSE 1867.474606 2009.165241 2051.703216 2169.761357 2038.777348 1915.304981 2023.767891 1931.137658 1932.110063 1926.132514 0.969546276 1.043108523 1.065193179 1.126486024 1.058482391 0.994378615 1.050689855 1.002598546 1.003103395 1 10.91149125 -7.194366906 5.950068966 0.985653948 1.051082691 0.359980186 0.035090011 0.167983539 11.46109929 0.006175129 0.00756251 6.39E-08 7.194366906 0.065428743 TRDDGDEEGLLTHSEEELEHS(ph)QDTDADDGALQ ddPTM_HeLa_SAHA_4h_R1 4 TRDDGDEEGLLTHSEEELEHSQDTDADDGALQ 32 1 Q9UKM9-2;Q9UKM9 Q9UKM9-2 RALY RNA-binding protein Raly 1 0 TRDDGDEEGLLT(0.001)HS(0.104)EEELEHS(0.448)QDT(0.448)DADDGALQ;TRDDGDEEGLLTHS(0.065)EEELEHS(0.799)QDT(0.136)DADDGALQ;TRDDGDEEGLLT(0.052)HS(0.122)EEELEHS(0.413)QDT(0.413)DADDGALQ;TRDDGDEEGLLTHS(0.029)EEELEHS(0.485)QDT(0.485)DADDGALQ ;;; 85.925 4.54E-07 37827600 1835.18 1863.36 1599.63 2353.72 2208.23 2266.36 2683.9 2417.05 2104.28 1857.73 TRUE FALSE FALSE 2028.212653 1923.734087 1817.619246 2399.279654 2039.035894 2073.253378 2381.900508 2355.225361 2089.636144 1937.825832 1.046643418 0.992728064 0.937968323 1.238129668 1.052228668 1.069886335 1.229161295 1.215395792 1.078340535 1 10.92022319 -3.566802543 0.386099527 1.011642439 1.563310931 0.442255681 0.075202733 5.413844928 0.372264834 0.019138768 1.546040471 0.000271142 3.566802543 0.551668493 TREEECHFYAGGQVYPGEASR ddPTM_HeLa_SAHA_4h_R1 1 TREEECHFYAGGQVYPGEASR 21 1 Q13162;A6NG45 Q13162 PRDX4 Peroxiredoxin-4 0 0 143.72 4.68E-06 5886700 1310 1228.4 1304.1 1391.5 1671.1 2067.3 1704.9 1051.1 1664.3 1588.7 FALSE FALSE TRUE 1447.79181 1268.200966 1481.815957 1418.434495 1543.060679 1891.15441 1513.060165 1024.214384 1652.718001 1657.196632 0.873639122 0.765268853 0.894170268 0.855924075 0.931127091 1.141176836 0.91302392 0.618040349 0.997297465 1 10.69452908 -9.127237774 0.993420226 0.996970396 0.883588523 0.132760517 0.124623684 0.971193739 1.791322006 0.072925073 0.023588464 7.46E-10 9.127237774 -0.113381874 TREEEEDSTIEASDQVS(ph)DDTVEMPLPK ddPTM_HeLa_SAHA_4h_R1 1 TREEEEDSTIEASDQVSDDTVEMPLPK 27 1 P12270 P12270 TPR Nucleoprotein TPR 1 0 TREEEEDSTIEAS(0.018)DQVS(0.72)DDT(0.262)VEMPLPK 79.021 3.64E-05 6158100 539.34 644.31 407.8 566.35 694.67 588.1 699.36 883.08 595.7 776.12 TRUE FALSE FALSE 596.0702558 665.1860667 463.3728603 577.3125232 641.4445347 537.9905714 620.6661722 860.4920923 591.5544752 809.5823314 0.736268854 0.821641038 0.572360392 0.713099213 0.792315383 0.664528548 0.766649849 1.062883982 0.730690941 1 9.661033994 -9.187428546 0.828655891 1.007309953 0.756193245 0 0.14550827 0.572107106 0.676470352 0.091605203 0.023173145 6.49E-10 9.187428546 -0.251116708 TREEIQEVR ddPTM_HeLa_SAHA_4h_R1 3 TREEIQEVR 9 1 P08559-3;P08559;P08559-2;P08559-4;Q5JPU3;P29803 P08559-3 PDHA1;PDHA2 "Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial;Pyruvate dehydrogenase E1 component subunit alpha, testis-specific form, mitochondrial" 0 0 ;; ;; 159.34 0.00013814 9268100 3985.49 5160.3 4631.3 3726.4 5786.8 4857.8 5828.4 4557.1 4376.9 5221.8 FALSE FALSE TRUE 4404.702124 5327.497106 5262.429445 3798.52986 5343.416634 4443.888111 5172.573092 4440.535981 4346.440797 5446.937353 0.808656652 0.978072036 0.966126303 0.697369846 0.980994693 0.815850784 0.949629628 0.815235369 0.79796049 1 12.41122956 -9.539543711 1.265976979 1.000886703 0.872032193 0 0.108338784 0.541897202 1.538113003 0.060876098 0.014069212 2.89E-10 9.539543711 -0.12885451 TRHS(ph)PTPQQSNR ddPTM_HeLa_SAHA_4h_R1 2 TRHSPTPQQSNR 12 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 T(0.018)RHS(0.941)PT(0.033)PQQS(0.007)NR;T(0.004)RHS(0.99)PT(0.005)PQQS(0.001)NR ; 97.223 0.0048779 21496000 824.22 411.39 788.16 1049.15 669.18 0 1510.15 946.17 1145.51 1185.51 TRUE FALSE FALSE 910.9152413 424.7193059 895.5663402 1069.457815 617.907573 0 1340.223948 921.9683414 1137.538303 1236.623138 0.736615072 0.343450881 0.724203124 0.864821127 0.499673307 0 1.083777188 0.745553203 0.919874671 1 10.27219019 -8.360892653 0.809676813 0.974147386 0.613018674 0.1836119 0.28189677 0.653567494 0.904561651 0.11176007 0.063390584 4.36E-09 8.360892653 -0.361128712 TRKS(ph)PSSDSWTCADTSTER ddPTM_HeLa_SAHA_4h_R1 2 TRKSPSSDSWTCADTSTER 19 2 F8VWH9;Q8N6T3-5;Q8N6T3;Q8N6T3-2;Q8N6T3-4;E5RHH7;H0YIQ0 F8VWH9 ARFGAP1 ADP-ribosylation factor GTPase-activating protein 1 1 0 T(0.218)RKS(0.782)PS(0.001)SDSWTCADTSTER;T(0.209)RKS(0.652)PS(0.129)S(0.009)DSWTCADTSTER ; 100.39 0.0010037 41501000 2515.6 2538.5 2409.3 2370.61 2767 3699.4 3096.6 3706.6 2524.2 2382.3 TRUE FALSE FALSE 2780.20235 2620.749066 2737.626857 2416.496585 2554.993058 3384.190308 2748.162418 3611.790539 2506.633887 2485.012612 1.118788024 1.054622038 1.101655116 0.972428298 1.028161002 1.361840295 1.105894757 1.45342946 1.00870067 1 11.27903746 -1.000000043 0.543460492 1.051250917 16.97594964 0.612235326 0.094739477 60.07124036 0.511615329 0.017249366 1118.894057 0.09999999 1.000000043 15.92469872 TRLS(ph)TASEETVQNR ddPTM_HeLa_SAHA_4h_R1 1 TRLSTASEETVQNR 14 1 O43379;O43379-4;H7C3R4;O43379-3;O43379-2 O43379 WDR62 WD repeat-containing protein 62 1 0 T(0.052)RLS(0.896)T(0.048)AS(0.003)EET(0.001)VQNR 105.63 0.013587 4487200 334.45 387.93 326.76 458.14 437.88 490.06 503.37 654.16 389.37 370.95 TRUE FALSE FALSE 369.6289855 400.4991865 371.2891511 467.0079622 404.329729 448.304131 446.7294828 637.4275344 386.6603425 386.9434699 0.955253194 1.035032809 0.959543654 1.206915218 1.044932298 1.158577844 1.154508391 1.647340203 0.999268298 1 8.595979002 -1 0.640458785 0.991446551 52.40580457 0.852939986 0.075038558 47.32176995 0.293187597 0.012385434 3449.698865 0.1 1 51.41435802 TRNS(ph)GIWESPELDR ddPTM_HeLa_SAHA_4h_R1 2 TRNSGIWESPELDR 14 1 O15085;O15085-2 O15085 ARHGEF11 Rho guanine nucleotide exchange factor 11 1 0 T(0.037)RNS(0.963)GIWESPELDR;TRNS(1)GIWESPELDR ; 101.54 0.0025181 17693100 1149.62 1427.46 1177.8 1344.57 1545.74 1808.34 1382.32 1044.65 1994.26 1396.89 TRUE FALSE FALSE 1270.542306 1473.710641 1338.30445 1370.596097 1427.305735 1654.259259 1226.777716 1017.929366 1980.381782 1457.116764 0.871956413 1.011388158 0.918460677 0.940622008 0.979541084 1.135296291 0.841921352 0.698591486 1.359109874 1 10.50890078 -4.523990533 24.99882087 0.956523619 0.734423886 0.26276287 0.144776621 17.57026643 395091.5102 0.010540604 0.040115521 2.99E-05 4.523990533 -0.222099733 TRNS(ph)GIWESPELDRNLAEDASSTEAAGGYK ddPTM_HeLa_SAHA_4h_R1 1 TRNSGIWESPELDRNLAEDASSTEAAGGYK 30 2 O15085;O15085-2 O15085 ARHGEF11 Rho guanine nucleotide exchange factor 11 1 0 T(0.286)RNS(0.706)GIWES(0.008)PELDRNLAEDASSTEAAGGYK 58.432 0.0052228 0 349.18 399.94 297.1 302.74 223.17 197.03 407.77 363.87 201.38 288.61 TRUE FALSE FALSE 385.9083545 412.8983184 337.5872408 308.5999705 206.0707628 180.2419355 361.8866464 354.5627323 199.9785802 301.0533895 1.281860188 1.37151194 1.121353396 1.025067251 0.684499062 0.598704223 1.202068002 1.177740376 0.664262842 1 8.23387555 -6.113388502 3.792847784 1.15704623 0.908788507 0.057779339 0.252550177 0.293297987 7.540792302 0.034236645 0.058876673 7.70E-07 6.113388502 -0.248257722 TRPAS(ph)QPTPFALHHAASCEVDPSSGDSISLAR ddPTM_HeLa_SAHA_4h_R1 1 TRPASQPTPFALHHAASCEVDPSSGDSISLAR 32 1 Q5T5Y3-2;Q5T5Y3;Q5T5Y3-3 Q5T5Y3-2 CAMSAP1 Calmodulin-regulated spectrin-associated protein 1 1 0 T(0.236)RPAS(0.434)QPT(0.324)PFALHHAAS(0.007)CEVDPSSGDSISLAR 63.768 9.46E-05 6745200 385.91 467.33 162.58 511.2 473.07 386.01 423.03 391.68 412.05 578.12 TRUE FALSE FALSE 426.5017844 482.4717986 184.7355557 521.0950152 436.8234788 353.1197764 375.429551 381.6613927 409.1825105 603.0455825 0.707246346 0.80005859 0.306337632 0.864105518 0.72436229 0.585560672 0.622555843 0.632889791 0.678526669 1 9.236123245 -8.894769848 0.488274895 1.04756014 0.634809035 0.039703509 0.171421671 0.85004709 0.338630782 0.164924829 0.039491748 1.27E-09 8.894769848 -0.412751105 TRPGSFQSLSDALS(ph)DTPAK ddPTM_HeLa_SAHA_4h_R1 1 TRPGSFQSLSDALSDTPAK 19 1 G3V4K3;Q9H9C1-2;Q9H9C1 G3V4K3 VIPAS39 Spermatogenesis-defective protein 39 homolog 1 0 TRPGS(0.005)FQS(0.007)LS(0.009)DALS(0.792)DT(0.187)PAK 89.663 0.0013055 5356800 1744.8 2364.8 1994.7 2405 2761.1 2179.4 2343.2 2359.8 1671.1 1960.4 TRUE FALSE FALSE 1928.326069 2441.421072 2266.527328 2451.552253 2549.545115 1993.702859 2079.536969 2299.439733 1659.470679 2044.922438 0.942982498 1.193894216 1.10836836 1.198848527 1.246768614 0.974952801 1.016927063 1.124463056 0.811507883 1 10.99783041 -7.271906965 24.94278592 0.973075066 1.120712819 0.4764231 0.093417966 492.8747475 1174449.901 0.014174726 0.016302864 5.35E-08 7.271906965 0.147637753 TRQPS(ph)SSPSSIIR ddPTM_HeLa_SAHA_4h_R1 1 TRQPSSSPSSIIR 13 1 Q6P1L5;Q6P1L5-2 Q6P1L5 FAM117B Protein FAM117B 1 0 T(0.001)RQPS(0.333)S(0.333)S(0.333)PSSIIR 131.32 0.0030817 8134600 652.9 866.52 779.02 747.81 745.49 838.4 941.15 819.24 812.04 826.66 TRUE FALSE FALSE 721.5750176 894.5958165 885.1807886 762.2849439 688.3707173 766.9636033 835.249325 798.285027 806.3889475 862.3013582 0.836801439 1.037451476 1.026532987 0.884012227 0.798294831 0.889438009 0.968628099 0.925761069 0.935159083 1 9.752048342 TRS(ph)EPLPPSATAPPPPGPMQPR ddPTM_HeLa_SAHA_4h_R1 1 TRSEPLPPSATAPPPPGPMQPR 22 1 J3KPH8;Q8WUI4-8;Q8WUI4-5;Q8WUI4-6;Q8WUI4-7;Q8WUI4;Q8WUI4-4;Q8WUI4-3;Q8WUI4-10 J3KPH8 HDAC7 Histone deacetylase;Histone deacetylase 7 1 0 T(0.315)RS(0.685)EPLPPSATAPPPPGPMQPR 135.98 1.78E-06 10942000 334.65 502.64 261.4 230.74 488.38 521.38 324.21 235.08 233.34 325.48 TRUE FALSE FALSE 369.8500224 518.9258658 297.0222307 235.2063064 450.9604299 476.9554908 287.7290375 229.066994 231.7161679 339.5130357 1.089354409 1.528441654 0.874847795 0.69277548 1.328256599 1.404822321 0.84747567 0.67469278 0.682495644 1 8.407323158 -4.533230626 24.93709617 1.082283301 0.717888374 0.189953317 0.269602293 179.6207469 432697.4331 0.032889094 0.123325828 2.93E-05 4.533230626 -0.364394926 TRS(ph)LSSLR ddPTM_HeLa_SAHA_4h_R1 1 TRSLSSLR 8 1 H0Y9X0;A0A286YEZ9;A0A2C9F2R7;O94915 H0Y9X0 FRYL Protein furry homolog-like 1 0 T(0.245)RS(0.542)LS(0.163)S(0.049)LR 73.841 0.020286 6165800 1410.2 1078.1 1431.4 1412.4 1586.1 1538.5 1619.1 1476.3 1124.9 1276.4 TRUE FALSE FALSE 1558.531306 1113.031147 1626.463738 1439.739044 1464.573361 1407.411145 1436.914607 1438.538384 1117.071729 1331.431851 1.170567841 0.835965541 1.221589927 1.081346404 1.099998742 1.057065853 1.079225051 1.080444623 0.839000305 1 10.37876287 -9.727733318 1.642419639 0.999932181 1.091645664 0.172793679 0.108381871 0.677160122 3.296245879 0.066202044 0.014382902 1.87E-10 9.727733318 0.091713483 TRS(ph)MDDLLSACDTSSPLTR ddPTM_HeLa_SAHA_4h_R1 2 TRSMDDLLSACDTSSPLTR 19 1 J3QR65;Q9NYA4 J3QR65 MTMR4 Myotubularin-related protein 4 1 0 T(0.112)RS(0.888)MDDLLS(0.001)ACDTSSPLTR;T(0.173)RS(0.784)MDDLLS(0.043)ACDTSSPLTR ; 94.845 0.0021898 3559200 853.24 658.24 649.55 864.65 739.89 690.72 821.38 952.4 842.35 725.49 TRUE FALSE FALSE 942.987698 679.5674079 738.0672913 881.3865511 683.199788 631.8667701 728.9561606 928.0389871 836.4880178 756.7694244 1.246070028 0.897984757 0.975286881 1.164669875 0.902784608 0.834952827 0.963247374 1.226316705 1.105340664 1 9.563709991 -7.250635388 24.9422813 1.116199738 0.989871952 0.164640112 0.125656689 1017.735668 2349562.793 0.023764761 0.028943589 5.62E-08 7.250635388 -0.126327785 TRS(ph)PDVISSASTALSQDIPEIASEALSR ddPTM_HeLa_SAHA_4h_R1 1 TRSPDVISSASTALSQDIPEIASEALSR 28 1 Q6P2E9;Q6P2E9-2 Q6P2E9 EDC4 Enhancer of mRNA-decapping protein 4 1 0 T(0.138)RS(0.766)PDVIS(0.048)S(0.048)ASTALSQDIPEIASEALSR 143.43 2.04E-10 206770000 575.71 670.95 456.76 420.98 782.14 561.79 504.89 740.77 682.86 662.55 TRUE FALSE FALSE 636.2658193 692.6892202 519.0048741 429.1286766 722.2126022 513.9223315 448.0784484 721.822176 678.1079217 691.1157729 0.920635651 1.002276677 0.750966617 0.62092155 1.044995109 0.743612505 0.648340648 1.044430187 0.981178477 1 9.432783595 -6.76399512 24.99980982 0.964456799 0.800803161 0.26306551 0.136100735 67.86813532 663876.7846 0.020584459 0.027762149 1.72E-07 6.76399512 -0.163653638 TRS(ph)YDNLTTACDNTVPLASR ddPTM_HeLa_SAHA_4h_R1 1 TRSYDNLTTACDNTVPLASR 20 1 G5E953;Q13615-3;Q13615-2;Q13615 G5E953 MTMR3 Myotubularin-related protein 3 1 0 T(0.002)RS(0.99)YDNLT(0.006)T(0.002)ACDNTVPLASR 189.98 1.70E-13 6081700 1040.8 871.21 892.78 980.27 1027.6 1211.1 1108 1195.2 966.1 832.55 TRUE FALSE FALSE 1150.276119 899.4377756 1014.443409 999.2445433 948.86551 1107.907467 983.3249239 1164.628515 959.3768314 868.4453049 1.32452339 1.035687303 1.168114334 1.150613099 1.092602499 1.275736607 1.132281928 1.341049929 1.104706106 1 9.76229118 -9.60626693 1.408208776 1.000025635 1.200863 0.209803636 0.098488311 0.364799524 1.298612383 0.068749024 0.015855518 2.48E-10 9.60626693 0.200837365 TRSDIVSR ddPTM_HeLa_SAHA_4h_R1 1 TRSDIVSR 8 1 Q15084-3;Q15084;Q15084-4;Q15084-5;Q15084-2 Q15084-3 PDIA6 Protein disulfide-isomerase A6 0 0 113.62 0.007917 1017800 359.86 292.28 384.1 447.44 338.26 447.94 519.22 561.67 207.46 378.34 FALSE FALSE TRUE 397.7117259 301.7500638 436.4431477 456.1008482 312.3425919 409.772992 460.7959991 547.3032947 206.016269 394.652089 1.007752745 0.76459766 1.105893418 1.155703621 0.791437827 1.038314514 1.167600558 1.386799437 0.522019963 1 8.624437575 -4.453025991 2.088010446 0.990871216 1.418872687 0.3484389 0.187871141 0.265555584 1.683663058 0.015585436 0.182945307 3.52E-05 4.453025991 0.428001472 TRT(ph)PASINATPANINLADLTR ddPTM_HeLa_SAHA_4h_R1 1 TRTPASINATPANINLADLTR 21 1 Q7KZ85;Q7KZ85-2 Q7KZ85;Q7KZ85-2 SUPT6H Transcription elongation factor SPT6 1 0 T(0.248)RT(0.743)PAS(0.009)INATPANINLADLTR 62.108 0.01065 5321100 637.64 800.25 647.99 579.15 844.83 711.42 821.69 701.89 624.87 660.16 TRUE FALSE FALSE 704.7099008 826.1786251 736.2947026 590.3602857 780.0993079 650.8030137 729.2312786 683.9366701 620.5214788 688.6227283 1.023361373 1.199755092 1.069228 0.857305839 1.132839908 0.945079195 1.05897068 0.993195028 0.901105138 1 9.427569988 TRTFS(ph)ATVR ddPTM_HeLa_SAHA_4h_R1 1 TRTFSATVR 9 1 H3BTK3;I3L3X8;H3BSW7;H3BUY4;H3BPY5;H3BNU9;Q9Y2V2 H3BTK3 CARHSP1 Calcium-regulated heat stable protein 1 1 0 T(0.001)RT(0.003)FS(0.997)ATVR 126.66 0.01149 335090000 5424.8 3050.8 4932.5 4646 4262.4 3576 5083.5 5816.5 2057.9 4366.1 TRUE FALSE FALSE 5995.405354 3149.647922 5604.675413 4735.930048 3935.815833 3271.304682 4511.491201 5667.722352 2043.578906 4554.343938 1.31641471 0.691570062 1.230621905 1.03987097 0.864189417 0.718282309 0.990590799 1.244465159 0.448709833 1 12.15302753 -7.285974878 24.9887873 1.149418044 0.968550993 0 0.29014341 1107.1007 1127551.263 0.034861287 0.039875264 5.18E-08 7.285974878 -0.180867051 TS(ph)DSDQQAYLVQR ddPTM_HeLa_SAHA_4h_R1 2 TSDSDQQAYLVQR 13 0 Q96CV9-2;Q96CV9;Q96CV9-3 Q96CV9-2 OPTN Optineurin 1 0 T(0.219)S(0.732)DS(0.049)DQQAYLVQR;T(0.224)S(0.705)DS(0.071)DQQAYLVQR ; 164.66 4.48E-05 13816200 1760.34 2352.47 2067.76 2174.96 2454.71 2797.4 2732.44 2769.73 2284.17 1812.86 TRUE FALSE FALSE 1945.500638 2428.691572 2349.543564 2217.059496 2266.63065 2559.045782 2424.97866 2698.884317 2268.274275 1891.021267 1.028809497 1.284328005 1.242473369 1.172413835 1.198627795 1.353261239 1.282364563 1.427209923 1.199496968 1 10.88494987 -6.398371239 0.366876888 0.974923528 1.410931129 0.41374434 0.096033343 0.554470564 0.153906507 0.035886969 0.094021708 4.00E-07 6.398371239 0.436007602 TS(ph)DSTPDPQRVPLR ddPTM_HeLa_SAHA_4h_R1 1 TSDSTPDPQRVPLR 14 1 P52948-6;P52948-2;P52948-5;P52948;H7C3P6 P52948-6 NUP98 Nuclear pore complex protein Nup98-Nup96;Nuclear pore complex protein Nup98;Nuclear pore complex protein Nup96 1 0 T(0.256)S(0.308)DS(0.256)T(0.179)PDPQRVPLR 70.529 0.017213 13811000 2946.7 2857.1 2787.8 2938.8 3174.3 2266.7 3359.1 3463.3 2760.3 3544.7 TRUE FALSE FALSE 3256.647426 2949.671915 3167.706866 2995.684724 2931.08582 2073.564408 2981.125227 3374.713801 2741.090848 3697.529364 0.8807631 0.797741309 0.856709049 0.810185513 0.792714683 0.560797279 0.806247884 0.912694253 0.74133038 1 11.85234589 -7.778005805 0.48049333 0.998136717 0.761265157 0 0.115268835 0.534326518 0.307840013 0.047655225 0.035305693 1.67E-08 7.778005805 -0.236871559 TS(ph)DVGGYYYEK ddPTM_HeLa_SAHA_4h_R1 1 TSDVGGYYYEK 11 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.367)S(0.633)DVGGYYYEK 168.82 0.00011163 8422900 2642.6 2960.5 2059.7 3187.8 3642.6 3072.8 3226 3457.8 3630.1 2591 TRUE FALSE FALSE 2920.560793 3056.422142 2340.38519 3249.504479 3363.504775 2810.980153 2863.00199 3369.354483 3604.837839 2702.71069 1.0806043 1.130872851 0.865939961 1.202313104 1.244493089 1.040059583 1.059307606 1.246657474 1.333786058 1 11.40019137 TS(ph)GETTQTHTEPTGDSK ddPTM_HeLa_SAHA_4h_R1 1 TSGETTQTHTEPTGDSK 17 0 P46013;P46013-2 P46013 MKI67 Antigen KI-67 1 0 T(0.42)S(0.504)GET(0.033)T(0.033)QT(0.009)HTEPTGDSK 78.456 0.008177 3526600 1493 1258.8 764.24 1055.9 1253.8 1619.8 1095 1376.1 1846.6 1591.7 TRUE FALSE FALSE 1650.04059 1299.585946 868.3866472 1076.338471 1157.734115 1481.783927 971.7877181 1340.901355 1833.74936 1660.325977 0.993805201 0.782729394 0.52302178 0.648269368 0.697293261 0.892465665 0.585299352 0.807613308 1.104451407 1 10.6972508 -7.167455413 3.756824169 0.997616857 0.692432078 0.676892409 0.10410404 0.099149193 2.595947865 0.016076045 0.019745683 6.80E-08 7.167455413 -0.305184779 TS(ph)PDTLR ddPTM_HeLa_SAHA_4h_R1 4 TSPDTLR 7 0 Q01130-2;Q01130;J3QL05;J3KP15 Q01130-2 SRSF2 Serine/arginine-rich splicing factor 2 1 0 T(0.228)S(0.769)PDT(0.004)LR;T(0.223)S(0.775)PDT(0.001)LR;T(0.23)S(0.769)PDT(0.001)LR;T(0.23)S(0.77)PDTLR ;;; 136.27 0.00081117 904703000 15380.8 20491.7 14209.3 17379.7 19358.3 23627 18845.7 16891 27207.2 17627.9 TRUE FALSE FALSE 16998.62311 21155.64453 16145.66941 17716.10922 17875.07124 21613.84668 16725.13224 16458.95268 27017.86288 18387.92504 0.924444878 1.150518315 0.878058257 0.963464295 0.972109208 1.175436958 0.909571483 0.895095702 1.469326355 1 14.16647107 -5.455193824 24.99999999 0.971603479 0.999785544 0 0.184807412 824.6014834 304570.2968 0.013508586 0.030206112 3.51E-06 5.455193824 0.028182065 TS(ph)PDTLRR ddPTM_HeLa_SAHA_4h_R1 1 TSPDTLRR 8 1 Q01130-2;Q01130;J3QL05;J3KP15 Q01130-2 SRSF2 Serine/arginine-rich splicing factor 2 1 0 T(0.16)S(0.82)PDT(0.02)LRR 77.662 0.015665 494860000 1134.6 1382.3 941.69 1384 1446.4 1729.6 1172.8 1333.2 1401.3 1450.1 TRUE FALSE FALSE 1253.942434 1427.087427 1070.018609 1410.789321 1335.577144 1582.22835 1040.833457 1299.098674 1391.548239 1512.620908 0.82898658 0.943453459 0.707393772 0.932678713 0.882955629 1.046017771 0.688099346 0.85883956 0.919958353 1 10.56283475 -9.356648429 0.919074648 1.005949685 0.859686959 0.109506499 0.1033859 0.775523074 1.094149188 0.080262371 0.017787731 4.40E-10 9.356648429 -0.146262726 TS(ph)PENVQDR ddPTM_HeLa_SAHA_4h_R1 1 TSPENVQDR 9 0 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 1 0 T(0.451)S(0.549)PENVQDR 177.04 1.50E-05 52483000 3263.8 3852.1 2372.9 3696.8 4350.4 5585.5 4246.2 4244.5 4548.8 3534.4 TRUE FALSE FALSE 3607.101459 3976.910567 2696.266454 3768.35691 4017.073292 5109.583977 3768.406401 4135.931836 4517.14453 3686.785281 0.978386639 1.078693296 0.731332651 1.022125408 1.089586994 1.385918514 1.022138832 1.121826068 1.225225823 1 11.84814768 -5.682589771 3.660642818 0.976942996 1.170073895 0.203141472 0.143776743 0.188045032 4.951395799 0.016820752 0.034684841 2.08E-06 5.682589771 0.193130899 TS(ph)PGRVDLPGSSTTLTK ddPTM_HeLa_SAHA_4h_R1 1 TSPGRVDLPGSSTTLTK 17 1 O94875-11;O94875-9;O94875-12;O94875-8;O94875-7;H7BZX1;H7BZK1;H7C1R7;O94875-4;O94875;O94875-10;O94875-2;O94875-5;O94875-3;H7BXR3 O94875-11 SORBS2 Sorbin and SH3 domain-containing protein 2 1 0 T(0.459)S(0.541)PGRVDLPGSSTTLTK 95.988 0.0032492 8497100 1783.9 1976 1702.3 1820.5 2026.4 2018.9 2038.2 1803.9 2179.9 1971.9 TRUE FALSE FALSE 1971.538787 2040.023697 1934.280579 1855.73841 1871.13767 1846.878362 1808.856372 1757.75885 2164.729898 2056.918259 0.958491558 0.991786469 0.940377951 0.902193561 0.90968013 0.897886123 0.879401193 0.854559408 1.052414158 1 11.00626875 -4.196286733 0.228244313 1.004306948 0.723764962 0.837487323 0.02362276 2.655623861 0.113483944 0.014512384 0.214139158 6.36E-05 4.196286733 -0.280541986 TS(ph)PLKDNPS(ph)PEPQLDDIKR ddPTM_HeLa_SAHA_4h_R1 3 TSPLKDNPSPEPQLDDIKR 19 2 Q96JC9-2;Q96JC9 Q96JC9-2 EAF1 ELL-associated factor 1 2 0 T(0.434)S(0.566)PLKDNPS(1)PEPQLDDIKR;T(0.459)S(0.541)PLKDNPS(0.999)PEPQLDDIKR;T(0.451)S(0.549)PLKDNPS(1)PEPQLDDIKR ;; 124.21 0.00019686 145198000 7394.2 7425.7 7091.1 8227 7939.9 10052.4 8973.9 8238.6 8708.2 7429.3 TRUE FALSE FALSE 8171.955882 7666.297552 8057.438179 8386.245481 7331.546577 9195.878967 7964.133154 8027.868541 8647.598927 7749.613481 1.054498512 0.989249021 1.039721297 1.082150162 0.946053193 1.186624209 1.027681338 1.035905669 1.115874869 1 12.91990864 -5.283967378 24.9998734 1.024300288 1.077831551 0.116615791 0.060772223 965.0115535 1070896.293 0.007273859 0.016277228 5.20E-06 5.283967378 0.053531263 TS(ph)PLVSQNNEQGSTLR ddPTM_HeLa_SAHA_4h_R1 1 TSPLVSQNNEQGSTLR 16 0 A0A1W2PNZ9;Q15652-3;Q15652;H7BXU7 A0A1W2PNZ9 JMJD1C Probable JmjC domain-containing histone demethylation protein 2C 1 0 T(0.013)S(0.987)PLVSQNNEQGSTLR 95.195 0.0037592 0 71.754 336.34 217.49 344.76 270.48 334.6 387.46 365.08 317.17 371.19 TRUE FALSE FALSE 79.30141494 347.2376367 247.1284046 351.4333283 249.7558808 306.0901976 343.8619811 355.7417822 314.9627881 387.1938175 0.204810644 0.896805737 0.638255038 0.90764189 0.645040984 0.790534827 0.888087479 0.918769273 0.813449941 1 8.596912106 -6.281430842 22.10464186 0.6406495 0.820771465 0.02229662 0.216343939 400.3884753 442710.3328 0.047449246 0.072577423 5.23E-07 6.281430842 0.180121965 TS(ph)PPCSPANLSR ddPTM_HeLa_SAHA_4h_R1 1 TSPPCSPANLSR 12 0 P49585;C9JEJ2 P49585 PCYT1A Choline-phosphate cytidylyltransferase A 1 0 T(0.391)S(0.609)PPCSPANLSR 105.36 0.0040633 42237000 1522.6 1685.6 1432.2 1573.8 1740.5 1886.9 1591.2 1591.3 1974.4 1386.5 TRUE FALSE FALSE 1682.754054 1740.214546 1627.372757 1604.263175 1607.143266 1726.125505 1412.153988 1550.59685 1960.65999 1446.2788 1.163505994 1.203235881 1.125213726 1.109235076 1.111226456 1.1934943 0.976405094 1.072128589 1.35565839 1 10.49812997 -1.034322229 21.55270944 1.094292681 0.003648339 0 0.109342616 0 0 0.011265091 0 0.092401234 1.034322229 -1.090644342 TS(ph)PPGGELS(ph)PGAGR ddPTM_HeLa_SAHA_4h_R1 1 TSPPGGELSPGAGR 14 0 Q99958 Q99958 FOXC2 Forkhead box protein C2 2 0 T(0.396)S(0.604)PPGGELS(1)PGAGR 135.86 0.0037628 11045000 2061.7 1849.6 1705.8 1872.2 2414.1 2639.4 2232.9 1682.4 2366.8 2083 TRUE FALSE FALSE 2278.559065 1909.528254 1938.257541 1908.439138 2229.13218 2414.508271 1981.648215 1639.366644 2350.329246 2172.808324 1.048670074 0.878829592 0.892051783 0.878328345 1.025922146 1.111238504 0.912021642 0.754492067 1.081701142 1 11.0853452 -7.271285766 24.71794265 1.022983091 0.929931333 0.257688357 0.091940847 767.240684 1926044.709 0.016094441 0.018525408 5.35E-08 7.271285766 -0.093051759 TS(ph)PPLLDR ddPTM_HeLa_SAHA_4h_R1 2 TSPPLLDR 8 0 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 T(0.025)S(0.975)PPLLDR;T(0.023)S(0.977)PPLLDR ; 128.91 0.0016737 71949200 5137.4 6306.4 5462.7 5842.4 6249.1 7993.7 5741.2 5807.4 7803.2 6060.2 TRUE FALSE FALSE 5677.775303 6510.731498 6207.128307 5955.4881 5770.295308 7312.591789 5095.185066 5658.855117 7748.896896 6321.48488 0.898171144 1.029937051 0.981909856 0.94210272 0.912806946 1.156783877 0.806010797 0.895178146 1.225803279 1 12.62604776 TS(ph)PSGGTWSSVVSGVPR ddPTM_HeLa_SAHA_4h_R1 1 TSPSGGTWSSVVSGVPR 17 0 Q99700;H0YH87;A0A5F9ZHW5;A0A5F9ZHX3;A0A2R8Y5A6;A0A2R8Y7E6;A0A5F9ZI57;V9GY86;F8VQP2;A0A2R8YDM9;A0A2R8Y7P6;Q99700-5;Q99700-2;Q99700-4;A0A5F9ZHH4 Q99700 ATXN2 Ataxin-2 1 0 T(0.377)S(0.619)PS(0.004)GGTWSSVVSGVPR 211.49 1.36E-20 53669000 1335.1 1288.6 1085 891.8 1451.3 1421.3 1390.8 1255.2 1488.7 1170.6 TRUE FALSE FALSE 1475.531944 1330.351485 1232.85815 909.0620786 1340.101708 1300.197244 1234.303524 1223.093802 1478.340015 1221.070295 1.208392301 1.089496232 1.009653707 0.744479726 1.097481212 1.064801305 1.010837401 1.001657158 1.210691982 1 10.25393054 -6.736394505 5.035408438 1.100749478 0.985554096 0.282022552 0.105796206 0.25076825 16.22725921 0.018652581 0.025998993 1.83E-07 6.736394505 -0.115195382 TS(ph)PYILR ddPTM_HeLa_SAHA_4h_R1 1 TSPYILR 7 0 P49454 P49454 CENPF Centromere protein F 1 0 T(0.228)S(0.772)PYILR 127.46 0.0019969 3832200 1785.4 2387.3 1674.5 2205.3 2439.2 2625.4 2090.4 2072.3 3336.6 2367.2 TRUE FALSE FALSE 1973.196564 2464.650086 1902.69214 2247.98677 2252.309023 2401.70115 1855.18269 2019.293567 3313.380329 2469.261577 0.799103903 0.998132442 0.770551066 0.910388268 0.912138691 0.972639421 0.751310719 0.817772238 1.341850681 1 11.26986396 -9.51640399 1.222707779 1.001264903 0.862196015 0.316933187 0.135476772 0.481092493 1.268387992 0.056921389 0.013180616 3.05E-10 9.51640399 -0.139068888 TS(ph)SEASMDAAYLDK ddPTM_HeLa_SAHA_4h_R1 1 TSSEASMDAAYLDK 14 0 Q5W0B1 Q5W0B1 RNF219 RING finger protein 219 1 0 T(0.356)S(0.607)S(0.037)EASMDAAYLDK 177.93 9.33E-07 6140700 658.74 658.19 731.92 584.27 780.36 1033.1 875.79 771.93 883.14 658.19 TRUE FALSE FALSE 728.0292956 679.5157879 831.6622459 595.5793907 720.5689854 945.0740679 777.2438042 752.1851483 876.9941568 686.567792 1.060389526 0.989728612 1.211333033 0.867473537 1.049523432 1.376519666 1.132071462 1.095573019 1.277359886 1 9.42325837 -5.489098128 24.91772137 1.028213506 1.197550631 0.148375365 0.130947804 473.7435674 349448.8552 0.013885865 0.031030125 3.24E-06 5.489098128 0.169337125 TS(ph)SIADEGTYTLDSILR ddPTM_HeLa_SAHA_4h_R1 1 TSSIADEGTYTLDSILR 17 0 E7ERV5;A0A087WY00;G3V394;F8WE88;F8W6H6;Q9Y4I1-2;Q9Y4I1;Q9Y4I1-3 E7ERV5 MYO5A Unconventional myosin-Va 1 0 T(0.001)S(0.5)S(0.5)IADEGTYTLDSILR 279.71 1.91E-72 17027000 1013.6 1318.9 932.46 1005.1 1750 1304 1484.8 1229.2 1221.1 1129.5 TRUE FALSE FALSE 1120.215099 1361.633225 1059.530793 1024.555164 1615.915378 1192.891864 1317.726396 1197.758844 1212.602266 1178.198273 0.950786574 1.155691073 0.899280552 0.869594862 1.37151396 1.012471238 1.118424994 1.016602105 1.029200512 1 10.20236663 TS(ph)SISGPLSPAYTGQVPYNYNQLEGR ddPTM_HeLa_SAHA_4h_R1 1 TSSISGPLSPAYTGQVPYNYNQLEGR 26 0 Q01082-3 Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 T(0.254)S(0.333)S(0.333)IS(0.08)GPLSPAYTGQVPYNYNQLEGR 166.08 4.78E-11 4015800 308.89 417.02 378.77 281.4 310.97 571.22 569.75 294.5 251.99 349.67 TRUE FALSE FALSE 341.3804674 430.5317216 430.3868031 286.8469039 287.1435458 522.5488424 505.6402305 286.9671164 250.2363811 364.7459849 0.935940302 1.180360414 1.1799631 0.78642923 0.787242513 1.432637682 1.386280456 0.786758808 0.686056575 1 8.510748287 -5.264690296 24.99068086 0.976839694 1.220331124 0.21241753 0.224108297 307.2671794 2362056.67 0.028169334 0.065574286 5.44E-06 5.264690296 0.243491429 TS(ph)SLTQFPPSQSEER ddPTM_HeLa_SAHA_4h_R1 1 TSSLTQFPPSQSEER 15 0 B7Z7F3;Q9H6Z4-3;Q9H6Z4-2;Q9H6Z4 B7Z7F3 RANBP3 Ran-binding protein 3 1 0 T(0.016)S(0.454)S(0.454)LT(0.075)QFPPSQSEER 136.57 0.00019266 5329700 1243 1314.2 1238.6 1412.6 1695.7 1329.5 1433.2 1367.6 1417.2 1302.1 TRUE FALSE FALSE 1373.744443 1356.780942 1407.389958 1439.942916 1565.775832 1216.21912 1271.932564 1332.618772 1407.33759 1358.239903 1.01141517 0.998925844 1.036186578 1.060153594 1.152797697 0.89543763 0.936456484 0.98113652 1.036148022 1 10.40752261 TS(ph)SPLFNK ddPTM_HeLa_SAHA_4h_R1 1 TSSPLFNK 8 0 Q9BY89 Q9BY89 KIAA1671 Uncharacterized protein KIAA1671 1 0 T(0.062)S(0.561)S(0.378)PLFNK 91.867 0.016618 8524600 3157.8 3125.6 3076.5 2626.8 3264.3 3915.5 3350.6 3373.9 3896.2 3441.4 TRUE FALSE FALSE 3489.951893 3226.871491 3495.749398 2677.645512 3014.190039 3581.877372 2973.58167 3287.600523 3869.086027 3589.775596 0.972192216 0.898906186 0.973807221 0.745908885 0.839659739 0.9977998 0.828347508 0.915823409 1.077807212 1 11.80967795 -7.097825327 1.272932604 0.990282753 0.874700031 0.399832617 0.072817086 0.329726323 1.033502884 0.012719648 0.016230277 7.98E-08 7.097825327 -0.115582722 TS(ph)STNEDEDLNPEQKIER ddPTM_HeLa_SAHA_4h_R1 1 TSSTNEDEDLNPEQKIER 18 1 Q99081;Q99081-3;B4DZP2;F5GY10;B4DGI9;Q99081-4;Q99081-2 Q99081 TCF12 Transcription factor 12 1 0 T(0.266)S(0.317)S(0.317)T(0.1)NEDEDLNPEQKIER 60.761 0.014936 3771400 344.8 249.74 435.95 467.6 364.36 417.2 451.11 340.26 194.09 458.8 TRUE FALSE FALSE 381.067646 257.8317399 495.3589957 476.6510742 336.4428155 381.6522129 400.3499155 331.5566419 192.7393119 478.5811133 0.796244639 0.538741987 1.035057552 0.995967164 0.703000612 0.797466098 0.836535134 0.692790904 0.402730711 1 8.902619653 -9.095734274 0.918912695 0.997564453 0.804951729 0 0.229930811 0.68154461 1.061665931 0.083902646 0.026235342 8.02E-10 9.095734274 -0.192612724 TS(ph)TSDLSR ddPTM_HeLa_SAHA_4h_R1 1 TSTSDLSR 8 0 Q5T5U3;A0A087WW76;A0A452Q6Z5 Q5T5U3 ARHGAP21 Rho GTPase-activating protein 21 1 0 T(0.129)S(0.869)T(0.001)S(0.001)DLSR 128.6 0.0010335 0 2569.2 3600.6 2195.2 3003.7 3317.8 3639.7 2952.5 2414.3 3942.2 3243.9 TRUE FALSE FALSE 2839.440244 3717.261802 2494.350424 3061.840957 3063.590881 3329.577084 2620.276929 2352.545702 3914.765909 3383.760404 0.839137499 1.098559401 0.737153381 0.904863404 0.905380557 0.983987247 0.774368341 0.695245946 1.156927631 1 11.7244117 TS(ph)VAGTVR ddPTM_HeLa_SAHA_4h_R1 1 TSVAGTVR 8 0 Q96EB6;B0QZ35;E9PC49 Q96EB6 SIRT1 NAD-dependent protein deacetylase sirtuin-1;SirtT1 75 kDa fragment 1 0 T(0.224)S(0.776)VAGTVR 96.665 0.013337 3403300 1917.1 2021.6 1547.3 2265.2 2362 2156.4 1667.4 1995 2220.6 2028.2 TRUE FALSE FALSE 2118.749374 2087.101166 1758.157986 2309.046222 2181.02407 1972.662588 1479.779764 1943.970789 2205.146664 2115.645628 1.001467044 0.986507919 0.831026691 1.091414456 1.03090236 0.932416357 0.699445949 0.918854634 1.042304361 1 11.04688228 -4.962058515 7.66148722 0.994827038 0.809535405 0.465521916 0.079965022 0.125786141 20.88837667 0.01000291 0.03008677 1.09E-05 4.962058515 -0.185291633 TS(ph)VPSPEQPQPYR ddPTM_HeLa_SAHA_4h_R1 1 TSVPSPEQPQPYR 13 0 Q8TEH3 Q8TEH3 DENND1A DENN domain-containing protein 1A 1 0 T(0.008)S(0.78)VPS(0.212)PEQPQPYR 143.98 0.00025662 9085900 2117.9 2149.3 1716.1 2301.7 2271 2650.9 2437 2530.7 2237.1 2141 TRUE FALSE FALSE 2340.670439 2218.93873 1949.961171 2346.252732 2096.996471 2425.028406 2162.782346 2465.968358 2221.531839 2233.308988 1.048072816 0.993565486 0.87312646 1.050572377 0.938963879 1.085845452 0.968420562 1.104176973 0.994726592 1 11.12496715 -4.244601808 23.47396526 1.008981118 1.104177149 0.205218653 0.05889964 1763.703596 2458761.954 0.00777787 0.258663333 5.69E-05 4.244601808 0.095196032 TSAAACAVTDLS(ph)DDSDFDEKAK ddPTM_HeLa_SAHA_4h_R1 1 TSAAACAVTDLSDDSDFDEKAK 22 1 Q9NQZ2 Q9NQZ2 UTP3 Something about silencing protein 10 1 0 T(0.001)S(0.001)AAACAVT(0.107)DLS(0.525)DDS(0.366)DFDEKAK 55.575 0.011497 4413900 635.37 572.82 530.05 480.29 479.81 567.48 558.89 639.53 438.55 549.39 TRUE FALSE FALSE 702.2011318 591.3797438 602.2824536 489.5867075 443.0470615 519.1275114 496.0022263 623.1717486 435.4980948 573.0768915 1.225317479 1.031937865 1.050962729 0.854312422 0.773102297 0.905860137 0.865507288 1.087413849 0.759929603 1 9.162584913 -6.437018972 2.942074156 1.103091688 0.889480057 0 0.142877551 0.188586303 3.176071374 0.017730432 0.02768724 3.66E-07 6.437018972 -0.213611631 TSACGLFSVCYPR ddPTM_HeLa_SAHA_4h_R1 2 TSACGLFSVCYPR 13 0 P30153;C9J9C1;P30154-4;P30154;P30154-3;P30154-2 P30153 PPP2R1A;PPP2R1B Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform;Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform 0 0 ; ; 158.08 0.00018692 1157700 0 0 254.48 0 289.736 0 175.73 0 0 0 FALSE FALSE TRUE 0 0 289.1592091 0 267.5364903 0 155.9563979 0 0 0 0 TSASEGNPYVSSTLSVPAS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 TSASEGNPYVSSTLSVPASPR 21 0 E9PFQ4;Q86SQ0-2;Q86SQ0-3;Q86SQ0;E9PDY7;G5E9V3;A0A1W2PQ63 E9PFQ4 PHLDB2 Pleckstrin homology-like domain family B member 2 1 0 TSASEGNPYVSSTLS(0.001)VPAS(0.999)PR;TSASEGNPYVSSTLSVPAS(1)PR;TSASEGNPYVSSTLSVPAS(1)PR;TSASEGNPYVSSTLSVPAS(1)PR ;;; 400.77 1.43E-266 175098000 5717.9 5768.64 4927.99 5742.07 6175.1 6152.2 6326.57 5272.54 6440.3 5358.44 TRUE FALSE FALSE 6319.334957 5955.547721 5599.550813 5853.216068 5701.965172 5627.997949 5614.687693 5137.676061 6395.481428 5589.468572 1.130578851 1.065494446 1.001803792 1.047186507 1.020126529 1.006893209 1.0045119 0.919170758 1.144202055 1 12.44849541 -2.985694682 0.540992284 1.05896704 0.462904873 0.507372204 0.044286501 10.15315304 0.712819451 0.009810827 5.235722926 0.001033488 2.985694682 -0.596062167 TSASK(ac)LGALSLGSFNKPSSK ddPTM_HeLa_SAHA_4h_R1 2 TSASKLGALSLGSFNKPSSK 20 2 Q10571 Q10571 MN1 Probable tumor suppressor protein MN1 0 1 ; TSASK(1)LGALSLGSFNKPSSK;TSASK(1)LGALSLGSFNKPSSK 298.42 7.35E-123 8397200 1310.49 1632.38 1555.93 3207 4962.8 3259.08 6593.9 2906.88 1589.8 1148.08 FALSE TRUE FALSE 1448.333351 1685.270183 1767.964037 3269.076122 4582.551336 2981.388049 5851.937018 2832.526219 1578.736452 1197.579347 1.209384041 1.407230499 1.476281335 2.729736555 3.82651166 2.48951191 4.886471223 2.365209641 1.318272944 1 10.22590553 -6.207118891 2.012810417 1.122852157 3.452660056 0.691161319 0.670463227 0.11444134 0.90484776 0.09328804 0.166773214 6.21E-07 6.207118891 2.329807899 TSAVS(ph)SPLLDQQR ddPTM_HeLa_SAHA_4h_R1 2 TSAVSSPLLDQQR 13 0 Q5T200-2;Q5T200;A0A087WX14 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 TS(0.001)AVS(0.5)S(0.5)PLLDQQR;T(0.031)S(0.004)AVS(0.482)S(0.482)PLLDQQR ; 249.28 2.43E-32 102434000 4916.7 5260.7 3958.1 4356.7 5182.6 4938.9 5167.2 4866.8 4758.2 4285.2 TRUE FALSE FALSE 5433.861065 5431.150132 4497.489255 4441.030228 4785.510308 4518.077935 4585.773057 4742.314303 4725.087299 4469.955943 1.215640855 1.215034376 1.006159638 0.993528859 1.070594513 1.010765652 1.025910124 1.060930882 1.057076928 1 12.1260449 -6.701223869 24.99980662 1.11316715 1.027475692 0.333636852 0.0645738 98.63584746 40950.27507 0.014291803 0.020211659 1.99E-07 6.701223869 -0.085691458 TSAVSS(ph)PLLDQQR ddPTM_HeLa_SAHA_4h_R1 4 TSAVSSPLLDQQR 13 0 Q5T200-2;Q5T200;A0A087WX14 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 T(0.009)S(0.009)AVS(0.074)S(0.909)PLLDQQR;TSAVS(0.026)S(0.974)PLLDQQR;TSAVS(0.05)S(0.95)PLLDQQR;TSAVS(0.048)S(0.952)PLLDQQR ;;; 203.29 6.16E-11 112105300 7076.4 7785.6 6878.3 7326.2 8194 8379 7955.7 7334.4 7290.2 7054.1 TRUE FALSE FALSE 7820.72822 8037.858548 7815.638903 7468.009195 7566.17749 7665.062061 7060.503698 7146.796668 7239.466905 7358.236773 1.06285357 1.092362042 1.062161921 1.014918305 1.028259585 1.041698208 0.959537443 0.971264841 0.983858923 1 12.84514438 -4.761792795 24.99982456 1.036558329 0.965401121 0.462313235 0.030343241 6.189973325 438044.3873 0.004576315 0.015104092 1.73E-05 4.761792795 -0.071157208 TSDDEVGS(ph)PKEESR ddPTM_HeLa_SAHA_4h_R1 3 TSDDEVGSPKEESR 14 1 B8ZZI9;Q6ULP2-7;Q6ULP2-8;Q6ULP2-6;Q6ULP2;Q6ULP2-9 B8ZZI9 AFTPH Aftiphilin 1 0 T(0.001)SDDEVGS(0.989)PKEES(0.01)R;TSDDEVGS(0.999)PKEES(0.001)R;TSDDEVGS(1)PKEESR ;; 125.39 0.0030857 28085800 4943.5 5503.9 4420.6 5031.1 5879.4 4653.9 6379.4 6160.1 5662 5332.5 TRUE FALSE FALSE 5463.480012 5682.229971 5023.016347 5128.484216 5428.921642 4257.361538 5661.573122 6002.533562 5622.597681 5562.410172 0.982214515 1.021540986 0.903028758 0.92198958 0.976001675 0.765380726 1.017827335 1.079124584 1.010820401 1 12.44149442 -6.767048739 24.99993381 0.993612105 0.939602604 0.118094712 0.077561831 246.084508 1096756.405 0.012209725 0.016296875 1.71E-07 6.767048739 -0.054009502 TSDIFGS(ph)PVTATSR ddPTM_HeLa_SAHA_4h_R1 4 TSDIFGSPVTATSR 14 0 H3BU16;A6NGP5;Q9H910-2;Q9H910;Q9H910-3;H3BMT0;H3BTV5;H3BMV3 H3BU16 HN1L Hematological and neurological expressed 1-like protein 1 0 TSDIFGS(0.999)PVT(0.001)ATSR;T(0.014)S(0.012)DIFGS(0.973)PVTATSR;TS(0.001)DIFGS(0.864)PVT(0.132)AT(0.003)SR;T(0.001)S(0.001)DIFGS(0.997)PVT(0.001)ATSR ;;; 206.45 2.50E-12 90550000 8293.8 8309.5 7856.61 8729.9 8947.3 6317.2 10036.9 8910.9 8789.84 9453.3 TRUE FALSE FALSE 9166.179937 8578.733252 8927.267895 8898.879838 8261.759807 5778.93902 8907.521596 8682.972081 8728.670788 9860.878026 0.929550078 0.869976612 0.905321805 0.902442948 0.837832066 0.586047105 0.903319316 0.88054756 0.885181904 1 13.2675004 -6.966079598 0.511401309 0.988847059 0.797986164 0.213190097 0.091265286 0.646235434 0.381908005 0.030038664 0.045732516 1.08E-07 6.966079598 -0.190860895 TSDPDVILCNS(ph)VELIR ddPTM_HeLa_SAHA_4h_R1 2 TSDPDVILCNSVELIR 16 0 Q96CW6;A0A087X0P9 Q96CW6 SLC7A6OS Probable RNA polymerase II nuclear localization protein SLC7A6OS 1 0 TSDPDVILCNS(1)VELIR;TSDPDVILCNS(1)VELIR ; 187.56 1.44E-11 15190700 2239.38 2348.43 2764.15 2436.86 2959.47 3232.36 3125 3087.8 2112.69 2542.95 TRUE FALSE FALSE 2474.928263 2424.520673 3140.833967 2484.028949 2732.716048 2956.944743 2773.366775 3008.818547 2097.987618 2652.589019 0.93302364 0.914020474 1.184063548 0.936454509 1.030207103 1.114739118 1.045532027 1.134295032 0.79092072 1 11.37318545 -5.599503695 0.62240442 0.96852007 1.116552657 0.322201113 0.092780495 1.009379692 0.612656882 0.014979222 0.079408039 2.51E-06 5.599503695 0.148032587 TSDPLASK(ac)TTTTK ddPTM_HeLa_SAHA_4h_R1 1 TSDPLASKTTTTK 13 1 A0A3B3IRW6;Q2KHR3-2;Q2KHR3;H0YCQ7 A0A3B3IRW6 QSER1 Glutamine and serine-rich protein 1 0 1 TSDPLASK(1)TTTTK 179.6 1.41E-11 1638600 556.1 475.69 538.2 710.63 984.68 961.71 690.63 1065.8 718.86 481.35 FALSE TRUE FALSE 614.5931495 491.1026681 611.5430932 724.3852712 909.2340311 879.7668976 612.9184948 1038.538379 713.8573947 502.1033542 1.224037132 0.978090794 1.217962573 1.442701518 1.810850343 1.752162957 1.220701853 2.068375705 1.421733969 1 8.971840552 -6.158051514 2.421424308 1.100100972 1.678687823 0.539193637 0.232613782 0.140954663 1.614034893 0.031289469 0.055551567 6.95E-07 6.158051514 0.578586851 TSDS(ph)TPDPQRVPLR ddPTM_HeLa_SAHA_4h_R1 2 TSDSTPDPQRVPLR 14 1 P52948-6;P52948-2;P52948-5;P52948;H7C3P6 P52948-6 NUP98 Nuclear pore complex protein Nup98-Nup96;Nuclear pore complex protein Nup98;Nuclear pore complex protein Nup96 1 0 T(0.132)S(0.132)DS(0.605)T(0.132)PDPQRVPLR;T(0.08)S(0.08)DS(0.42)T(0.42)PDPQRVPLR ; 94.45 0.0041954 16772800 4305.5 3899.6 4012.6 4199.9 5198.8 3186.5 4321.6 4647.7 3881.5 4066.9 TRUE FALSE FALSE 4758.372244 4025.949599 4559.416231 4281.195138 4800.469067 2914.992273 3835.322194 4528.818564 3854.488325 4242.243962 1.121663979 0.949014162 1.074765212 1.009181739 1.131587224 0.687134521 0.90407865 1.067552598 0.908596573 1 12.05061187 -5.294490092 24.99445599 1.052241495 0.8880374 0.239556568 0.109699888 493.8572823 373476.6912 0.014151385 0.031645278 5.08E-06 5.294490092 -0.164204094 TSEEDTPK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 TSEEDTPKK 9 1 A0A1B0GW41;Q8WYH8-2;Q8WYH8 A0A1B0GW41 ING5 Inhibitor of growth protein 5 0 1 ; TSEEDTPK(1)K;TSEEDTPK(1)K 219.54 1.33E-34 2244000 1641.22 1643.31 1733.64 2265.4 2531.9 3005.8 2729.8 2459.8 2041.89 1614.7 FALSE TRUE FALSE 1813.85105 1696.554322 1969.891431 2309.250093 2337.906369 2749.68893 2422.63572 2396.881878 2027.680321 1684.317619 1.076905584 1.00726508 1.16954867 1.371030064 1.388043646 1.632523996 1.438348499 1.423058128 1.203858642 1 10.7179485 -6.249312677 1.539886319 1.03307852 1.485914047 0.82839362 0.082954514 0.076301144 0.354027536 0.010504839 0.019461629 5.63E-07 6.249312677 0.452835527 TSEIEPKNS(ph)PEDLGLSLTGDSCK ddPTM_HeLa_SAHA_4h_R1 2 TSEIEPKNSPEDLGLSLTGDSCK 23 1 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 TSEIEPKNS(1)PEDLGLSLTGDSCK;TSEIEPKNS(1)PEDLGLSLTGDSCK ; 150.22 7.59E-07 367730000 8477.7 5507.1 7614.5 7484.8 7734.5 7435.8 9134.2 8895.4 4552.6 6404.6 TRUE FALSE FALSE 9369.423383 5685.533653 8652.164405 7629.679127 7141.884281 6802.228007 8106.395776 8667.868548 4520.918086 6680.733649 1.402454262 0.851034325 1.295091955 1.142042106 1.069026945 1.018185781 1.213399037 1.297442617 0.676709823 1 12.70579083 TSES(ph)PSKPGEK ddPTM_HeLa_SAHA_4h_R1 1 TSESPSKPGEK 11 1 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;F8W7E0;E9PSG1;H0YA91;H0Y944;E7EN75;D6RBR1;D6RGF7 P20810-6 CAST Calpastatin 1 0 TSES(1)PSKPGEK 161.25 0.00088502 26245000 1175 1612.6 1828.2 2875.3 2361.4 3303.8 3033.9 2136 2287.3 3921.8 TRUE FALSE FALSE 1298.591891 1664.849298 2077.337575 2930.955589 2180.470042 3022.297653 2692.517587 2081.364213 2271.382493 4090.887991 0.317435211 0.406965261 0.507796249 0.716459506 0.533006537 0.738787681 0.65817436 0.508780543 0.555229695 1 11.99819832 -9.50147996 1.266216178 0.998475906 0.530757557 0.006763301 0.182763731 0.256309942 0.739265809 0.102372139 0.025156071 3.15E-10 9.50147996 -0.467718349 TSESPSKPGEK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 TSESPSKPGEKK 12 2 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;F8W7E0;E9PSG1;H0YA91;H0Y944;E7EN75;D6RBR1;D6RGF7 P20810-6 CAST Calpastatin 0 1 TSESPSKPGEK(1)K 94.122 0.0094611 2878900 1206.7 1301.5 1213.1 1287.1 1589.4 1779 1932.4 1957.9 1372.5 957.84 FALSE TRUE FALSE 1333.626243 1343.669454 1378.41495 1312.013682 1467.620515 1627.419192 1714.961266 1907.819753 1362.948661 999.13717 1.334777929 1.344829814 1.379605315 1.313146704 1.468887916 1.62882459 1.716442264 1.909467299 1.364125669 1 9.964538947 -1 0.142996807 0.919848702 4.260372345 0.765830629 0.115752064 14.35029077 0.134721663 0.205339894 9.881609572 0.1 1 3.340523643 TSETLS(ph)QAGQK ddPTM_HeLa_SAHA_4h_R1 1 TSETLSQAGQK 11 0 H0YC42;P55327-2;P55327-4;P55327;P55327-7;P55327-5;P55327-6;P55327-3 H0YC42 TPD52 Tumor protein D52 1 0 T(0.001)SET(0.081)LS(0.918)QAGQK 89.43 0.015637 5294400 1136.9 1108.9 1095.9 1290.5 1133 1492.9 1100.3 1160.3 984.89 1219.8 TRUE FALSE FALSE 1256.484358 1144.829088 1245.243545 1315.479494 1046.189785 1365.696521 976.4913482 1130.621206 978.0360703 1272.391548 0.987498196 0.899745907 0.978663798 1.033863747 0.822223149 1.073330394 0.767445642 0.888579627 0.768659673 1 10.31332698 -1.484505445 0.294784714 0.998135963 7.15E-13 0 0.1088669 33.86522201 0.563555283 0.028661778 17.04551906 0.032771367 1.484505445 -0.998135963 TSETSIS(ph)PPGSSIGSPNR ddPTM_HeLa_SAHA_4h_R1 1 TSETSISPPGSSIGSPNR 18 0 A0A0C4DGA7;O94929-2;O94929-3;O94929 A0A0C4DGA7 ABLIM3 Actin-binding LIM protein 3 1 0 T(0.026)S(0.003)ET(0.268)S(0.268)IS(0.432)PPGS(0.003)SIGSPNR 233.48 5.24E-29 11085000 909.16 763.7 941.6 789.66 941.54 1091.2 1168.5 1112.9 1158.2 805.52 TRUE FALSE FALSE 1004.78962 788.4443811 1069.916344 804.9450112 869.3994086 998.2236211 1037.017305 1084.433629 1150.139992 840.2499093 1.195822349 0.938345095 1.273331104 0.95798286 1.034691464 1.188008008 1.234177229 1.290608446 1.368807041 1 9.714674672 -1.000000857 0.016837652 7.08E-08 2.537564891 0 0.153235066 5171.993997 6.788656121 399.1388181 653.632737 0.099999803 1.000000857 2.53756482 TSEVYS(ph)DDEEEEEDDKSSEK ddPTM_HeLa_SAHA_4h_R1 2 TSEVYSDDEEEEEDDKSSEK 20 1 Q92541 Q92541 RTF1 RNA polymerase-associated protein RTF1 homolog 1 0 T(0.007)S(0.01)EVYS(0.983)DDEEEEEDDKSSEK;T(0.002)S(0.001)EVY(0.003)S(0.995)DDEEEEEDDKSSEK ; 139.28 2.81E-05 19059900 1079.94 1605.74 1253.23 1946.97 1856.36 2274.77 1554.23 1867.98 1670.25 1081.32 TRUE FALSE FALSE 1193.533044 1657.76703 1424.013658 1984.65642 1714.126098 2080.946798 1379.34395 1820.199776 1658.626594 1127.940997 1.05815202 1.4697285 1.262489493 1.759539218 1.519694827 1.844907494 1.222886617 1.613736695 1.470490565 1 10.13947589 -7.081653292 1.276668815 1.014493786 1.568747211 0.266959556 0.229621539 0.173735277 0.548593759 0.032052254 0.041191575 8.29E-08 7.081653292 0.554253425 TSFFQALGITTK ddPTM_HeLa_SAHA_4h_R1 2 TSFFQALGITTK 12 0 F8VWS0;P05388-2;P05388;G3V210;F8VW21;F8VU65;Q8NHW5;F8VPE8 F8VWS0 RPLP0;RPLP0P6 60S acidic ribosomal protein P0;60S acidic ribosomal protein P0-like 0 0 ; ; 207.95 3.75E-32 5848500 1833.42 2164.71 2295.52 2070.52 2733.36 2382.61 3010.88 1902.74 2234.36 2438.36 FALSE FALSE TRUE 2026.267528 2234.848024 2608.341511 2110.597909 2523.930547 2179.598224 2672.087858 1854.070666 2218.810907 2543.489633 0.796648629 0.878654269 1.025497206 0.829804015 0.992310138 0.856932222 1.05055976 0.728947601 0.872349106 1 11.3125935 -9.691892904 1.58289893 0.999764652 0.88614092 0 0.10463781 0.570085862 2.583137756 0.066596654 0.014892475 2.03E-10 9.691892904 -0.113623732 TSFSQEQSCDS(ph)AGEGSER ddPTM_HeLa_SAHA_4h_R1 1 TSFSQEQSCDSAGEGSER 18 0 Q1RLN5;Q8IWW6-3;Q8IWW6-2;Q8IWW6-4;Q8IWW6 Q1RLN5 ARHGAP12 Rho GTPase-activating protein 12 1 0 TSFSQEQS(0.001)CDS(0.987)AGEGS(0.012)ER 218.11 5.07E-49 0 321.82 220.96 330.8 414.81 234.4 402.53 435.26 281.22 340.93 382.67 TRUE FALSE FALSE 355.6705042 228.119249 375.8797013 422.8392474 216.4403226 368.2321794 386.2833993 274.0267996 338.5574404 399.1687764 0.891027869 0.571485703 0.94165607 1.059299405 0.542227587 0.922497453 0.967719476 0.686493573 0.848156119 1 8.640855065 -8.124371936 1.333626512 0.975239265 0.826212695 0.038412693 0.168154214 0.547194241 1.998124518 0.039584885 0.031666961 7.51E-09 8.124371936 -0.149026569 TSFSQEQSCDSAGEGS(ph)ER ddPTM_HeLa_SAHA_4h_R1 1 TSFSQEQSCDSAGEGSER 18 0 Q1RLN5;Q8IWW6-3;Q8IWW6-2;Q8IWW6-4;Q8IWW6 Q1RLN5 ARHGAP12 Rho GTPase-activating protein 12 1 0 TSFS(0.001)QEQS(0.108)CDS(0.248)AGEGS(0.643)ER 89.344 0.0028576 0 135.47 115.44 206.12 202.87 103.23 154.75 299.33 136.46 130.14 152.07 TRUE FALSE FALSE 149.7193562 119.1803317 234.2089602 206.7968422 95.3205397 141.5644294 265.6486006 132.9695508 129.2343451 158.6264819 0.943848432 0.75132683 1.476480833 1.303671617 0.600911894 0.892438814 1.674680024 0.838255688 0.814708513 1 7.309489832 TSFSVGS(ph)DDELGPIR ddPTM_HeLa_SAHA_4h_R1 2 TSFSVGSDDELGPIR 15 0 Q9NRY4 Q9NRY4 ARHGAP35 Rho GTPase-activating protein 35 1 0 TSFS(0.064)VGS(0.936)DDELGPIR;TSFSVGS(1)DDELGPIR ; 150.05 1.89E-05 10017000 1338.76 1340.94 908.94 1124.82 1349.44 1708.33 1875.88 1298.88 1334.62 1663.76 TRUE FALSE FALSE 1479.576919 1384.387336 1032.80561 1146.592518 1246.046199 1562.770673 1664.801045 1265.65653 1325.332271 1735.492836 0.852539918 0.797691184 0.595107965 0.660672573 0.717978302 0.900476591 0.959267023 0.729277877 0.763663349 1 10.76112969 -8.126658727 0.940950465 0.974229727 0.770180549 0.02621124 0.12190778 0.385312326 0.724320401 0.034909002 0.02515306 7.47E-09 8.126658727 -0.204049178 TSGAPGS(ph)PQTPPER ddPTM_HeLa_SAHA_4h_R1 2 TSGAPGSPQTPPER 14 0 K7ESM2;K7ELS4;K7EJA3;K7ERG7;Q96MH2;K7EIM4 K7ESM2 HEXIM2 Protein HEXIM2 1 0 T(0.001)SGAPGS(0.77)PQT(0.229)PPER;T(0.002)SGAPGS(0.947)PQT(0.051)PPER ; 162.64 1.04E-05 21393700 2951.7 4081.5 3053.7 3476.8 3874.4 4960.7 3887.4 3732.4 5445 3867.5 TRUE FALSE FALSE 3262.173349 4213.743278 3469.842333 3544.098492 3577.544309 4538.020452 3449.979521 3636.930612 5407.107802 4034.246852 0.808620163 1.044493169 0.860096682 0.878503131 0.886793605 1.124874262 0.855173133 0.901514148 1.340301672 1 11.97808365 TSGGDHAPDS(ph)PSGENSPAPQGR ddPTM_HeLa_SAHA_4h_R1 3 TSGGDHAPDSPSGENSPAPQGR 22 0 E9PL60;E9PII7;H0YDE3;H0YDU2;E9PRI1;Q96NY9 E9PL60 MUS81 Crossover junction endonuclease MUS81 1 0 TSGGDHAPDS(0.972)PS(0.026)GENS(0.001)PAPQGR;TSGGDHAPDS(0.983)PS(0.017)GENSPAPQGR;TSGGDHAPDS(0.985)PS(0.015)GENSPAPQGR ;; 140.41 2.74E-06 9981200 2221.39 3032.98 1589.17 2914.7 3858.26 3497.95 3200.56 3483.55 3417.64 3222.78 TRUE FALSE FALSE 2455.045992 3131.250542 1805.733812 2971.118233 3562.640952 3199.904981 2840.424565 3394.445835 3393.856365 3361.729818 0.730292476 0.931440274 0.537144241 0.883806372 1.059764212 0.951862629 0.844929462 1.0097319 1.009556552 1 11.71498806 -5.988104844 24.69468527 0.845726283 0.958701731 0.152051094 0.138688165 345.6653441 717605.2125 0.022030392 0.039911403 1.03E-06 5.988104844 0.112975448 CATPVIIDEILPSK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 CATPVIIDEILPSKK 15 1 Q9ULW0;Q9ULW0-2 Q9ULW0 TPX2 Targeting protein for Xklp2 0 1 ; CATPVIIDEILPSK(1)K;CATPVIIDEILPSK(1)K 181.98 1.19E-16 1107920 405.47 302.71 411.37 815.16 863.4 1046.381 1045.633 1439.27 410.06 382.46 FALSE TRUE FALSE 448.119195 312.5180026 467.4293613 830.9386005 797.2464785 957.223452 927.9756229 1402.455557 407.2063591 398.9497223 1.123247291 0.783351849 1.171649797 2.082815338 1.998363287 2.399358612 2.326046544 3.515369178 1.020695933 1 8.640063132 -4.597268189 0.459479446 0.986731238 4.396515711 0.888901197 0.274817054 0.821141255 0.14213897 0.066168462 1.431782579 2.53E-05 4.597268189 3.409784473 up TSIAIDTIINQK ddPTM_HeLa_SAHA_4h_R1 2 TSIAIDTIINQK 12 0 P25705-2;P25705;P25705-3;K7EK77;K7ENJ4 P25705-2 ATP5A1 "ATP synthase subunit alpha, mitochondrial" 0 0 ; ; 224.75 4.46E-43 3241100 1568.94 2150.5 1973.03 1650.98 2086.17 1884.45 2219.47 1714.81 2242.15 2361.88 FALSE FALSE TRUE 1733.968308 2220.177611 2241.904253 1682.937105 1926.328105 1723.884258 1969.729394 1670.947643 2226.546696 2463.712206 0.703803108 0.901151363 0.909970023 0.683089974 0.781880327 0.699710078 0.799496544 0.678223552 0.90373652 1 11.26661802 -9.452783275 0.89712787 1.017942176 0.76788178 0.410506421 0.084404445 0.4472641 0.564889197 0.081037448 0.01512909 3.53E-10 9.452783275 -0.250060397 TSIDAYDNFDNISLAQR ddPTM_HeLa_SAHA_4h_R1 1 TSIDAYDNFDNISLAQR 17 0 A0A087WVQ6;Q00610-2;Q00610;J3KS13;K7EJJ5 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 209.79 1.74E-15 6120200 686.08 422.54 421.08 523.4 697.24 667.62 538.32 712.08 674.96 560.76 FALSE FALSE TRUE 758.2450422 436.2305732 478.4625895 533.5311638 643.8176218 610.7350201 477.7468168 693.8660247 670.2628984 584.9371079 1.296284732 0.745773464 0.817972707 0.912117143 1.100661273 1.044103737 0.816749032 1.186223297 1.145871735 1 9.192137705 -7.269138515 24.99938273 1.139912231 0.944707916 0.287956219 0.144798609 642.1999324 2085243.534 0.028239985 0.032613517 5.38E-08 7.269138515 -0.195204314 TSISDPPES(ph)PPLLPPREPVR ddPTM_HeLa_SAHA_4h_R1 2 TSISDPPESPPLLPPREPVR 20 1 G5E9C8;Q07889 G5E9C8 SOS1 Son of sevenless homolog 1 1 0 T(0.001)S(0.001)ISDPPES(0.998)PPLLPPREPVR;TSIS(0.001)DPPES(0.999)PPLLPPREPVR ; 89.468 0.00081442 11725200 6595.8 6260.4 5997.1 7126.2 7316.3 8560.2 7521.5 7418.7 7160.2 6773.6 TRUE FALSE FALSE 7289.576507 6463.241068 6814.353556 7264.137906 6755.726675 7830.822802 6675.161024 7228.940396 7110.371585 7065.643045 1.031693288 0.914742087 0.964435015 1.028092965 0.956137556 1.108295841 0.944735105 1.023111463 1.006330427 1 12.78660515 TSK(ac)NK(ac)SSLSR ddPTM_HeLa_SAHA_4h_R1 2 TSKNKSSLSR 10 2 A0A669KB12;Q09472 A0A669KB12 EP300 Histone acetyltransferase p300 0 2 ; TSK(1)NK(1)SSLSR;TSK(1)NK(1)SSLSR 166.29 5.42E-10 3131300 0 0 418.2 789.63 742.37 642.76 913.26 635.27 55.12 0 FALSE TRUE FALSE 0 0 475.1901181 804.9144305 685.489771 587.9932319 810.4975812 619.0207133 54.73641543 0 0 TSKAET(ph)PTESVSEPEVATK ddPTM_HeLa_SAHA_4h_R1 1 TSKAETPTESVSEPEVATK 19 1 M0R0Q7;P18858-2;P18858-3;P18858;B4E135 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 T(0.095)S(0.095)KAET(0.601)PT(0.207)ES(0.001)VSEPEVATK 91.416 0.0021592 13175000 2043 1374.7 1557.6 1822.1 2019.3 1877.6 1780.6 1892.9 1937.8 1844.5 TRUE FALSE FALSE 2257.892114 1419.241182 1769.861616 1857.36938 1864.58167 1717.617917 1580.242202 1844.482359 1924.314692 1924.025422 1.173525094 0.737641596 0.919874341 0.965355946 0.969104487 0.89272101 0.821320854 0.958657998 1.000150346 1 10.90991215 -7.275259676 24.99991326 1.081942405 0.898554046 0.445242354 0.081969886 501.910813 907918.2875 0.015517374 0.017794429 5.31E-08 7.275259676 -0.183388358 TSKEPPSS(ph)PLQPQK ddPTM_HeLa_SAHA_4h_R1 2 TSKEPPSSPLQPQK 14 1 Q92615;A0A087X183;H0Y4V9 Q92615 LARP4B La-related protein 4B 1 0 TSKEPPS(0.034)S(0.966)PLQPQK;T(0.016)S(0.003)KEPPS(0.14)S(0.841)PLQPQK ; 134.93 0.00021298 58909000 9450.7 8927.9 8050.2 9920.9 9915.4 10738.8 10436.3 10077.2 10226.8 8825.1 TRUE FALSE FALSE 10444.76799 9217.169818 9147.239332 10112.93337 9155.684194 9823.793825 9261.980057 9819.439816 10155.63087 9205.59325 1.134611068 1.001257558 0.993661037 1.098564002 0.994578399 1.067154887 1.006125277 1.066681913 1.103202215 1 13.16829498 TSLAGDTSNSS(ph)SPASTGAK ddPTM_HeLa_SAHA_4h_R1 1 TSLAGDTSNSSSPASTGAK 19 0 H3BPE1;H3BQK9;H0Y390;A0A590UJG2;Q9UPN3-4;Q9UPN3-3;Q9UPN3-2;Q9UPN3;Q9UPN3-5;H0Y6T5;H0Y4F5;H0Y314 H3BPE1 MACF1 "Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5" 1 0 TSLAGDTSNS(0.005)S(0.328)S(0.328)PAS(0.328)T(0.012)GAK 201.9 7.25E-20 8025200 1998.9 1424.9 1361.1 1712.5 2240.1 1986.9 2039.1 1949.5 1918.9 1662.4 TRUE FALSE FALSE 2209.153473 1471.067695 1546.58362 1745.647914 2068.464022 1817.604942 1809.655101 1899.634613 1905.546219 1734.0742 1.273967097 0.848330305 0.891878571 1.00667429 1.192834783 1.048170224 1.043585737 1.095474815 1.0988839 1 10.75994992 -7.270968935 24.95486275 1.129373344 1.021691912 0.161907982 0.110281441 1086.003152 2843890.963 0.023630562 0.027218179 5.36E-08 7.270968935 -0.107681432 TSLAGDTSNSSS(ph)PASTGAK ddPTM_HeLa_SAHA_4h_R1 1 TSLAGDTSNSSSPASTGAK 19 0 H3BPE1;H3BQK9;H0Y390;A0A590UJG2;Q9UPN3-4;Q9UPN3-3;Q9UPN3-2;Q9UPN3;Q9UPN3-5;H0Y6T5;H0Y4F5;H0Y314 H3BPE1 MACF1 "Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5" 1 0 TSLAGDTSNS(0.017)S(0.064)S(0.85)PAS(0.064)T(0.005)GAK 170.79 5.66E-08 9555600 1570.1 1303 1311.9 1628.3 1343.2 1579.3 1559.3 1355.3 1783.4 1329 TRUE FALSE FALSE 1735.250322 1345.218055 1490.6789 1659.818101 1240.284306 1444.734755 1383.84346 1320.633388 1770.989174 1386.299694 1.251713702 0.970365976 1.075293392 1.197301066 0.894672567 1.042151824 0.998228209 0.952631956 1.277493735 1 10.43702346 -5.760746057 24.99997773 1.1105289 0.978816699 0.360937622 0.100298408 20.32705612 732901.8452 0.015976085 0.030493715 1.73E-06 5.760746057 -0.131712201 TSLDIEEYS(ph)DTEVQK ddPTM_HeLa_SAHA_4h_R1 3 TSLDIEEYSDTEVQK 15 0 P51580 P51580 TPMT Thiopurine S-methyltransferase 1 0 TSLDIEEYS(0.98)DT(0.02)EVQK;TSLDIEEYS(0.965)DT(0.035)EVQK;TSLDIEEYS(0.992)DT(0.008)EVQK ;; 201.72 1.84E-12 28216800 2790.42 3652.97 3342.13 3560.06 3994.19 4630 4080.63 4164.06 4819.55 3832.64 TRUE FALSE FALSE 3083.929179 3771.328625 3797.578071 3628.970109 3688.156025 4235.497952 3621.466773 4057.549375 4786.010359 3997.883867 0.771390386 0.94333121 0.949897045 0.907722743 0.922527054 1.059434964 0.905845916 1.014924272 1.197135915 1 11.96502085 -5.735993999 1.298848641 0.896527194 0.984782863 0 0.116613911 0.701791233 2.350065142 0.014944249 0.040369596 1.84E-06 5.735993999 0.088255669 TSLEASMEAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 TSLEASMEASPK 12 0 A0A0A0MRP0;Q8IWC1-2;Q8IWC1-4;Q8IWC1;Q8IWC1-3 A0A0A0MRP0 MAP7D3 MAP7 domain-containing protein 3 1 0 TSLEASMEAS(1)PK 197.36 3.82E-08 47990000 2269.8 2040 1835.5 1951.8 2325.3 2565.3 2583.6 2558 2478.7 2186 TRUE FALSE FALSE 2508.547978 2106.097338 2085.632381 1989.579911 2147.136016 2346.722008 2292.886528 2492.570064 2461.450525 2280.249158 1.10012012 0.923625969 0.914651091 0.872527418 0.941623423 1.029151573 1.005542101 1.093113029 1.0794656 1 11.15497576 -10.32529852 6.712130169 0.999347511 1.014129414 0 0.079774618 1.503970366 201.932858 0.08975871 0.01266885 4.73E-11 10.32529852 0.014781903 TSLGPNGLDK ddPTM_HeLa_SAHA_4h_R1 1 TSLGPNGLDK 10 0 B7ZAR1;E9PCA1;P48643 B7ZAR1 CCT5 T-complex protein 1 subunit epsilon 0 0 119.53 0.018812 4569800 1237.8 1185.5 1161.8 1494.8 1095.6 1139.4 1168.9 1435.3 1317.4 924.01 FALSE FALSE TRUE 1367.997483 1223.910978 1320.124054 1523.734016 1011.655365 1042.31671 1037.372296 1398.587104 1308.232106 963.8485931 1.419307444 1.269816636 1.369638409 1.580885241 1.049599877 1.081411248 1.076281382 1.451044401 1.357300426 1 9.912662727 -3.176892147 14.08705999 1.228299975 1.21264057 0 0.194292861 0 0 0.028951312 0 0.000665438 3.176892147 -0.015659405 TSLPLS(ph)PVK ddPTM_HeLa_SAHA_4h_R1 1 TSLPLSPVK 9 0 Q86XL3;Q86XL3-2 Q86XL3 ANKLE2 Ankyrin repeat and LEM domain-containing protein 2 1 0 TSLPLS(1)PVK 116.55 0.004275 12680000 5168.6 7599.3 6566.1 4738.4 6105.9 4660.5 6363.9 2763.2 2509.6 3884.7 TRUE FALSE FALSE 5712.257062 7845.522306 7460.893913 4830.118584 5638.067261 4263.399181 5647.817223 2692.521345 2492.135489 4052.188428 1.409672122 1.936119814 1.84120113 1.191977784 1.391363546 1.052122638 1.393769644 0.664461042 0.615009774 1 11.98448555 -4.256263917 23.87577664 1.30344245 0.664460539 0.218285433 0.368543328 342.4029918 1579493.93 0.0476478 0.529010642 5.54E-05 4.256263917 -0.638981911 TSLPTVGPSGLYS(ph)PSTNR ddPTM_HeLa_SAHA_4h_R1 2 TSLPTVGPSGLYSPSTNR 18 0 Q6VMQ6-2;Q6VMQ6-5;Q6VMQ6;Q6VMQ6-4 Q6VMQ6-2 ATF7IP Activating transcription factor 7-interacting protein 1 1 0 TSLPTVGPSGLYS(0.919)PS(0.052)T(0.029)NR;TSLPTVGPS(0.005)GLYS(0.993)PS(0.001)T(0.001)NR ; 202.79 1.90E-16 9007400 1954.56 2583.9 1895.24 2214.69 2521.5 2840 2326.8 1989.91 2963.5 2246 TRUE FALSE FALSE 2160.149589 2667.620055 2153.513437 2257.558527 2328.303215 2598.016023 2064.98234 1939.010984 2942.876762 2342.836052 0.922023369 1.138628567 0.91919084 0.963600729 0.993796904 1.108919261 0.881402836 0.82763409 1.256117243 1 11.19404028 -4.538944124 24.79557308 0.982316713 0.841076212 0.19680714 0.111366048 143.5640296 221579.2761 0.009722006 0.036398839 2.89E-05 4.538944124 -0.141240501 TSLS(ph)FQDPK ddPTM_HeLa_SAHA_4h_R1 2 TSLSFQDPK 9 0 P48681 P48681 NES Nestin 1 0 T(0.001)SLS(0.998)FQDPK;T(0.039)S(0.003)LS(0.958)FQDPK ; 128.88 0.0022283 31342000 9647.8 12096.2 8989.8 10770.8 12584.4 13117.3 11552.2 9976.5 14027.7 11000.5 TRUE FALSE FALSE 10662.59987 12488.12482 10214.88313 10979.28441 11620.18599 11999.63224 10252.31605 9721.315576 13930.08009 11474.78539 0.929219982 1.088310098 0.890202542 0.956818279 1.012671313 1.045739143 0.893464732 0.847189315 1.213973039 1 13.48617955 -4.573569526 7.180351911 0.975941314 0.85827159 0.202333344 0.092802251 0.136650263 15.5853278 0.007543494 0.02894039 2.67E-05 4.573569526 -0.117669725 TSLSFK(ac)SDQVK ddPTM_HeLa_SAHA_4h_R1 2 TSLSFKSDQVK 11 1 H0Y612;Q9UPN9-2;Q9UPN9 H0Y612 TRIM33 E3 ubiquitin-protein ligase TRIM33 0 1 ; TSLSFK(1)SDQVK;TSLSFK(1)SDQVK 213.35 5.89E-33 5107600 1772.83 2164.8 2475.9 1886.04 2530 1700.79 2323 1614.16 732.58 1402.07 FALSE TRUE FALSE 1959.304393 2234.94094 2813.302758 1922.547031 2336.151947 1555.873124 2061.609926 1572.872124 727.4819161 1462.520099 1.3396769 1.528143744 1.923599381 1.314544007 1.5973469 1.063830251 1.40962844 1.075453339 0.497416696 1 10.51424074 -8.614260686 0.928663525 1.032724559 1.415623137 0.377642229 0.292766132 0.479398838 0.837739235 0.097146902 0.049127227 2.43E-09 8.614260686 0.382898579 TSLVETT(ph)DGT(ph)LVT(ph)TIK ddPTM_HeLa_SAHA_4h_R1 1 TSLVETTDGTLVTTIK 16 0 Q8WXI7 Q8WXI7 MUC16 Mucin-16 3 0 T(0.004)S(0.004)LVET(0.027)T(0.969)DGT(0.989)LVT(0.889)T(0.119)IK 54.811 0.0086074 0 0 132.76 68.345 132.05 0 0 165.77 77.709 131.84 0 TRUE FALSE FALSE 0 137.0615111 77.65870067 134.6060187 0 0 147.1171233 75.7213163 130.9225147 0 0 TSMPS(ph)GDESIDEK ddPTM_HeLa_SAHA_4h_R1 2 TSMPSGDESIDEK 13 0 Q03468 Q03468 ERCC6 DNA excision repair protein ERCC-6 1 0 TS(0.002)MPS(0.998)GDESIDEK;T(0.001)S(0.004)MPS(0.995)GDES(0.001)IDEK ; 178.67 3.39E-18 4564500 2450.4 2268.6 1801.82 2289.1 2600.2 2642.3 2140.38 2605.2 3262.7 2428.1 TRUE FALSE FALSE 2708.144315 2342.104128 2047.362646 2333.408841 2400.973238 2417.161175 1899.538809 2538.562756 3239.994605 2532.787274 1.069234808 0.92471411 0.808343704 0.921281019 0.947956926 0.954348279 0.749979609 1.002280287 1.279220975 1 11.3065102 -7.144602457 5.192419724 1.032457153 0.894602266 0.408365996 0.105161588 0.149369135 5.846762122 0.011424861 0.014054556 7.17E-08 7.144602457 -0.137854886 TSNS(ph)LTEDSK ddPTM_HeLa_SAHA_4h_R1 2 TSNSLTEDSK 10 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0;H7C3N7 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 TSNS(0.698)LT(0.299)EDS(0.002)K;TSNS(0.522)LT(0.478)EDSK ; 166.62 0.00013917 64710000 4435.2 4533.1 3687.5 5042.8 5779.5 6613.8 5425.1 5147.3 6083.9 5629.6 TRUE FALSE FALSE 4901.714685 4679.975414 4190.013296 5140.410686 5336.675959 6050.267032 4814.65347 5015.639519 6041.561645 5872.319607 0.834715243 0.79695516 0.713519287 0.875362894 0.908784997 1.030302749 0.819889548 0.854115555 1.028820304 1 12.51971478 -9.205420196 1.000700163 0.998002407 0.854991181 0.394869141 0.078001667 0.526615798 0.966350361 0.051708336 0.015309722 6.23E-10 9.205420196 -0.143011227 TSNSLT(ph)EDSK ddPTM_HeLa_SAHA_4h_R1 1 TSNSLTEDSK 10 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0;H7C3N7 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 TSNS(0.24)LT(0.752)EDS(0.008)K 100.22 0.017946 6967000 1583.6 1708.1 1717.4 2247.4 1876.4 2728.2 2040.2 2206.7 2188.1 2261.8 TRUE FALSE FALSE 1750.170314 1763.443561 1951.438328 2290.901677 1732.630637 2495.742012 1810.631326 2150.255809 2172.872834 2359.317267 0.741812192 0.747438077 0.827119928 0.971001954 0.734377975 1.057823823 0.767438679 0.911389002 0.92097526 1 11.20415372 -9.557838477 1.361264182 0.999073165 0.832677603 0.141796542 0.105157846 0.459209279 1.538250242 0.068919313 0.016649825 2.77E-10 9.557838477 -0.166395562 TSPDTLRR ddPTM_HeLa_SAHA_4h_R1 4 TSPDTLRR 8 1 Q01130-2;Q01130;J3QL05;J3KP15 Q01130-2 SRSF2 Serine/arginine-rich splicing factor 2 0 0 ;;; ;;; 139.97 0.0018385 6577700 2980.37 3376.04 3821.59 3673.34 3575.18 3793.84 3615.56 3345.8 3627.64 3428.9 FALSE FALSE TRUE 3293.858991 3485.425911 4342.376383 3744.442807 3301.250481 3470.583488 3208.727673 3260.219281 3602.394958 3576.73666 0.920911799 0.974470933 1.214060971 1.046888033 0.922978344 0.970321223 0.897110405 0.911506658 1.007173662 1 11.80442819 -5.012796486 1.74225204 0.98702407 0.903459741 0.177509246 0.08030051 0.698396697 3.942455773 0.01325159 0.05925668 9.71E-06 5.012796486 -0.083564328 TSPPGGELS(ph)PGAGR ddPTM_HeLa_SAHA_4h_R1 1 TSPPGGELSPGAGR 14 0 Q99958 Q99958 FOXC2 Forkhead box protein C2 1 0 T(0.001)S(0.001)PPGGELS(0.998)PGAGR 105.58 0.0030629 10754000 816.8 642.77 657.24 840.13 911.1 904.06 748.73 784.97 836.93 849.77 TRUE FALSE FALSE 902.7147716 663.5961697 746.8052444 856.391931 841.2917148 827.0290019 664.4809299 764.891604 831.105736 886.4077434 1.018396757 0.748635348 0.842507582 0.966137692 0.949102398 0.933011933 0.74963349 0.86291169 0.937611096 1 9.791826674 -7.298990081 24.98495932 1.008687375 0.869085121 0.345517282 0.073926658 372.8204283 248061.1835 0.012504549 0.014299662 5.02E-08 7.298990081 -0.139602254 TSPSGGTWSSVVSGVPRLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 TSPSGGTWSSVVSGVPRLSPK 21 1 Q99700;H0YH87;A0A5F9ZHW5;A0A5F9ZHX3;A0A2R8Y5A6;A0A2R8Y7E6;A0A5F9ZI57;V9GY86;F8VQP2;A0A2R8YDM9;A0A2R8Y7P6;Q99700-5;Q99700-2;Q99700-4;A0A5F9ZHH4 Q99700 ATXN2 Ataxin-2 1 0 TSPSGGTWSSVVS(0.005)GVPRLS(0.995)PK;TSPSGGTWSSVVS(0.009)GVPRLS(0.991)PK ; 96.41 0.00021385 29861000 2884.1 2679.11 3681.2 2946.9 3423.4 2858.8 3790.8 2806 2262.38 2506.1 TRUE FALSE FALSE 3187.462871 2765.914922 4182.854765 3003.941511 3161.099832 2615.214157 3364.249207 2734.226583 2246.635913 2614.150236 1.21931128 1.058055074 1.600082011 1.149108215 1.209226535 1.000406986 1.286937974 1.045933224 0.859413466 1 11.35212634 -9.184549594 0.84812429 0.995483322 1.201298662 0.265382376 0.166579277 0.866151777 1.084044144 0.11460717 0.029757957 6.54E-10 9.184549594 0.20581534 TSPTT(ph)PEASATNS(ph)PCTSKPATPAPSEK ddPTM_HeLa_SAHA_4h_R1 1 TSPTTPEASATNSPCTSKPATPAPSEK 27 1 Q12873-2;Q12873;Q12873-3 Q12873-2 CHD3 Chromodomain-helicase-DNA-binding protein 3 2 0 T(0.042)S(0.027)PT(0.129)T(0.717)PEAS(0.274)AT(0.275)NS(0.331)PCT(0.189)S(0.015)KPATPAPSEK 75.71 0.00067489 5633000 896.33 1112.2 815.36 1030.5 1337.6 1296.2 1122.8 963.51 2151.6 1339 TRUE FALSE FALSE 990.6101019 1148.23601 926.4730146 1050.446818 1235.113377 1185.756468 996.459589 938.8648093 2136.62684 1396.730843 0.709234787 0.822088247 0.663315355 0.752075336 0.884288754 0.848951302 0.713422771 0.672187354 1.52973413 1 10.44783832 -9.336876534 0.925867454 1.008527568 0.759066163 0.432112798 0.184606606 0.340500457 0.49372295 0.059842928 0.013750911 4.60E-10 9.336876534 -0.249461405 TSPTTPEASATNS(ph)PCTSKPATPAPSEK ddPTM_HeLa_SAHA_4h_R1 1 TSPTTPEASATNSPCTSKPATPAPSEK 27 1 Q12873-2;Q12873;Q12873-3 Q12873-2 CHD3 Chromodomain-helicase-DNA-binding protein 3 1 0 TSPTTPEAS(0.036)AT(0.007)NS(0.505)PCT(0.123)S(0.321)KPAT(0.009)PAPSEK 111.88 2.81E-07 5238800 744 1052.3 748.86 995.53 1085.5 962.92 999.46 902.35 1550.8 921.92 TRUE FALSE FALSE 822.2573336 1086.39521 850.9107409 1014.799923 1002.329225 880.8737988 886.9981304 879.2691936 1540.007857 961.668483 0.855032008 1.129698258 0.884827522 1.055249226 1.042281454 0.915984889 0.922353333 0.914316325 1.601391627 1 9.909395828 TSPTTPEASATNSPCT(ph)SKPATPAPSEK ddPTM_HeLa_SAHA_4h_R1 1 TSPTTPEASATNSPCTSKPATPAPSEK 27 1 Q12873-2;Q12873;Q12873-3 Q12873-2 CHD3 Chromodomain-helicase-DNA-binding protein 3 1 0 TSPTTPEAS(0.006)AT(0.006)NS(0.239)PCT(0.692)S(0.056)KPATPAPSEK 89.622 1.48E-05 5555300 554.97 1039 668.47 604.47 741.46 924.18 632.07 648.38 1241.3 927.76 TRUE FALSE FALSE 613.3442909 1072.664282 759.5656104 616.1703909 684.649495 845.4346647 560.9478201 631.7953784 1232.661692 967.7602739 0.633777091 1.108398754 0.784869591 0.636697339 0.707457739 0.873599266 0.579635097 0.652842853 1.273726279 1 9.918505908 -6.51712032 24.94089486 0.848248854 0.696647781 0.251205629 0.19192945 367.6670744 1592441.618 0.026541303 0.038243094 3.04E-07 6.51712032 -0.151601073 TSPVTASDPAGPSYAAATLQASSAASSAS(ph)PVSR ddPTM_HeLa_SAHA_4h_R1 2 TSPVTASDPAGPSYAAATLQASSAASSASPVSR 33 0 F5H8D7;P18887;M0QYS5;M0R1U8 F5H8D7 XRCC1 DNA repair protein XRCC1 1 0 TSPVTASDPAGPSYAAAT(0.027)LQAS(0.002)SAAS(0.009)S(0.094)AS(0.656)PVS(0.211)R;TSPVTASDPAGPSYAAATLQASSAAS(0.005)S(0.037)AS(0.768)PVS(0.19)R ; 149.62 9.95E-21 20117400 3772.4 4250.3 3849.3 4063.2 3826.4 3830.4 3912.1 3456.5 4643.9 4352.4 TRUE FALSE FALSE 4169.19834 4388.012509 4373.862558 4141.849111 3533.222059 3504.028371 3471.900212 3368.087735 4611.582722 4540.053264 0.918314852 0.96651124 0.963394547 0.912290863 0.778233614 0.771803362 0.764726758 0.741860841 1.015755202 1 12.14849351 -5.823287134 2.607704687 0.960925302 0.759928308 0.93294717 0.02642059 0.059408774 0.823033613 0.004701779 0.009528645 1.50E-06 5.823287134 -0.200996994 TSQCSSPSLSASPGS(ph)PTRPQIR ddPTM_HeLa_SAHA_4h_R1 1 TSQCSSPSLSASPGSPTRPQIR 22 1 P37275-3;P37275-4;P37275-5;P37275;P37275-2;H0YMD3;H0YND9 P37275-3 ZEB1 Zinc finger E-box-binding homeobox 1 1 0 TSQCSSPSLS(0.007)AS(0.006)PGS(0.762)PT(0.224)RPQIR 94.019 0.00015857 9817300 542.49 564.02 475.52 479.16 509.84 406.58 598.86 584.95 360.28 646.01 TRUE FALSE FALSE 599.5515872 582.2946181 540.3213892 488.4348347 470.7761693 371.9370966 531.4746967 569.987826 357.7727821 673.8626526 0.889723722 0.864114691 0.801827178 0.724828469 0.698623329 0.551947931 0.788698846 0.845851634 0.530928344 1 9.39631076 -7.10609776 0.733474685 0.971134671 0.71021625 0 0.157456895 0.274139666 0.30396563 0.019799922 0.026124078 7.83E-08 7.10609776 -0.260918422 TSQCSSPSLSASPGSPT(ph)RPQIR ddPTM_HeLa_SAHA_4h_R1 2 TSQCSSPSLSASPGSPTRPQIR 22 1 P37275-3;P37275-4;P37275-5;P37275;P37275-2;H0YMD3;H0YND9 P37275-3 ZEB1 Zinc finger E-box-binding homeobox 1 1 0 TSQCSSPSLSASPGS(0.158)PT(0.842)RPQIR;TSQCSSPSLSASPGS(0.049)PT(0.951)RPQIR ; 127.37 8.28E-06 41615400 2190.27 2322.57 1964.91 2252 2334.4 2248.71 2134.21 2328.61 2455.9 2486 TRUE FALSE FALSE 2420.652648 2397.822792 2232.677702 2295.590716 2155.538776 2057.107257 1894.063074 2269.047528 2438.809192 2593.183626 0.933467504 0.92466371 0.860979407 0.885240325 0.831232603 0.793274813 0.730400676 0.875004572 0.940469147 1 11.34050865 -6.582732206 0.428332579 0.992594657 0.773800875 0.701612803 0.040709232 0.358968574 0.141859555 0.014180579 0.031129449 2.61E-07 6.582732206 -0.218793782 TSQEELLAEVVQGQSRT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 TSQEELLAEVVQGQSRTPR 19 1 Q6PJT7;Q6PJT7-5;H0YJA2;Q6PJT7-2;Q6PJT7-9;Q6PJT7-3;Q6PJT7-11;Q6PJT7-4;Q6PJT7-10;G3V256;G3V5I6;A0A087WTC9 Q6PJT7 ZC3H14 Zinc finger CCCH domain-containing protein 14 1 0 TSQEELLAEVVQGQS(0.24)RT(0.76)PR;TSQEELLAEVVQGQS(0.178)RT(0.822)PR ; 120.33 0.00039002 9301900 1410.64 2073.52 1940.15 1086.74 1818.94 1785.06 1672.96 1454.37 1645.55 1662.17 TRUE FALSE FALSE 1559.017587 2140.703408 2204.543538 1107.775424 1679.57321 1632.962846 1484.714138 1417.169321 1634.098484 1733.834283 0.899173354 1.234664367 1.27148457 0.638916553 0.968704579 0.941821754 0.856318365 0.81736146 0.94247674 1 10.7597503 -6.24735254 24.99806023 0.99859618 0.857567407 0.321428842 0.145639663 1157.466578 2054002.971 0.023520394 0.038879319 5.66E-07 6.24735254 -0.141028773 TSQLGDS(ph)PFYPGK ddPTM_HeLa_SAHA_4h_R1 2 TSQLGDSPFYPGK 13 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 T(0.102)S(0.022)QLGDS(0.875)PFYPGK;T(0.106)S(0.04)QLGDS(0.853)PFY(0.001)PGK ; 101.2 0.0049396 31350300 6491.3 6261.5 5470.3 6506.3 7653.3 7317.6 6777.6 6524 6876 6585.6 TRUE FALSE FALSE 7174.084717 6464.376708 6215.763996 6632.238845 7066.905807 6694.099312 6014.96661 6357.125527 6828.149356 6869.537445 1.04433301 0.941020667 0.904830063 0.965456393 1.028730954 0.974461434 0.875599945 0.92540809 0.993975127 1 12.74599724 -7.252545706 24.52287119 1.020935033 0.945984667 0.358602519 0.041043085 384.0939688 1059077.855 0.007425022 0.009019747 5.59E-08 7.252545706 -0.074950366 TSQLGDSPFY(ph)PGK ddPTM_HeLa_SAHA_4h_R1 1 TSQLGDSPFYPGK 13 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 T(0.007)S(0.001)QLGDS(0.375)PFY(0.616)PGK 91.658 0.02301 25370000 5841.5 5091.5 4950.1 5423.2 6595 6682.8 5835.3 5633.1 6305.2 6130.7 TRUE FALSE FALSE 6455.935772 5256.467941 5624.673849 5528.173878 6089.692525 6113.387844 5178.696686 5489.013459 6261.3216 6395.02448 1.009524794 0.82196213 0.879539065 0.864449213 0.952254764 0.955960038 0.809800917 0.858325637 0.979092671 1 12.64273417 -7.277526996 24.81172461 1.004497825 0.880341511 0.586317388 0.045500152 348.4655639 537432.7497 0.007866911 0.009010771 5.28E-08 7.277526996 -0.124156313 TSQVGAASAPAKES(ph)PR ddPTM_HeLa_SAHA_4h_R1 8 TSQVGAASAPAKESPR 16 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;A0A2R8Y857;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 TSQVGAASAPAKES(1)PR;TSQVGAASAPAKES(1)PR;TSQVGAASAPAKES(1)PR;TSQVGAASAPAKES(1)PR;TSQVGAASAPAKES(1)PR;TSQVGAASAPAKES(1)PR;TSQVGAASAPAKES(1)PR;TSQVGAASAPAKES(1)PR ;;;;;;; 149.18 3.92E-05 4006029100 35743.93 51590.1 30239.1 37778.8 35853.69 38475.81 38951.65 36057.84 38926.87 36361.4 TRUE FALSE FALSE 39503.64056 53261.65309 34359.92707 38510.0633 33106.58802 35197.45453 34568.70783 35135.53266 38655.97474 37929.1179 1.04151224 1.404241808 0.905898396 1.015316607 0.872854151 0.927979781 0.911402894 0.926347213 1.019163558 1 15.2110182 TSQVGAASAPAKES(ph)PRK ddPTM_HeLa_SAHA_4h_R1 2 TSQVGAASAPAKESPRK 17 2 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;A0A2R8Y857;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 TSQVGAASAPAKES(1)PRK;TSQVGAASAPAKES(1)PRK ; 88.108 0.002214 124851000 9703.1 9853.5 8369.8 9944.8 9349.3 10622.4 10435 9925.8 11240.1 9334.5 TRUE FALSE FALSE 10723.71658 10172.75987 9510.392756 10137.29598 8632.958654 9717.31176 9260.826337 9671.912408 11161.87923 9736.955977 1.101341795 1.044757714 0.976731617 1.04111552 0.886617817 0.997982509 0.951100771 0.993319928 1.146341758 1 13.2492551 -6.43369709 1.602567033 1.048406611 0.964978756 0.415891428 0.053649281 0.314271381 1.596347674 0.008441403 0.014249727 3.68E-07 6.43369709 -0.083427855 TSRDTS(ph)PSSGSAVSSSK ddPTM_HeLa_SAHA_4h_R1 2 TSRDTSPSSGSAVSSSK 17 1 F8WF16;B7Z8L1;F8W6A0;F8W0Q9;Q8NEY8-5;Q8NEY8-6;Q8NEY8-9;Q8NEY8-8;Q8NEY8-2;Q8NEY8-3;Q8NEY8;Q8NEY8-7 F8WF16 PPHLN1 Periphilin-1 1 0 T(0.018)S(0.018)RDT(0.078)S(0.844)PS(0.029)S(0.008)GS(0.002)AVS(0.001)S(0.001)SK;T(0.046)S(0.047)RDT(0.178)S(0.668)PS(0.047)S(0.013)GS(0.001)AVSSSK ; 71.651 0.010095 3722600 2169.74 587.28 2022.79 1576.21 1226.42 1002.79 1942.14 2476.7 287.06 1041.09 TRUE FALSE FALSE 2397.963208 606.3082573 2298.445287 1606.719824 1132.451965 917.3466505 1723.605296 2413.3496 285.0623261 1085.976485 2.208117065 0.558306985 2.116477952 1.47951622 1.042796028 0.844720547 1.587147898 2.22228532 0.262494014 1 10.08477715 TSRPENAIIYNNNEDFQVGQAK ddPTM_HeLa_SAHA_4h_R1 2 TSRPENAIIYNNNEDFQVGQAK 22 1 P29401;P29401-2;A0A0B4J1R6 P29401 TKT Transketolase 0 0 ; ; 223.82 1.19E-52 8295800 1332.71 1301.69 1184.08 1321.12 1486.52 1416.73 1341.78 1104.82 1082.74 1109.67 FALSE FALSE TRUE 1472.890552 1343.86561 1345.440256 1346.692188 1372.623159 1296.016634 1190.799383 1076.560304 1075.205124 1157.513304 1.272461014 1.160993662 1.162354032 1.163435602 1.185837911 1.119655929 1.028756541 0.930063007 0.928892238 1 10.17681306 -4.540421701 2.103721621 1.142844251 0.922684953 0.294252479 0.092842287 0.387348435 2.760533865 0.014380344 0.129150745 2.88E-05 4.540421701 -0.220159298 TSS(ph)DDES(ph)EEDEDDLLQR ddPTM_HeLa_SAHA_4h_R1 2 TSSDDESEEDEDDLLQR 17 0 Q9Y5J1 Q9Y5J1 UTP18 U3 small nucleolar RNA-associated protein 18 homolog 2 0 T(0.43)S(0.133)S(0.437)DDES(1)EEDEDDLLQR;T(0.27)S(0.073)S(0.657)DDES(1)EEDEDDLLQR ; 193.3 3.73E-11 4799900 771.57 1025.47 707.8 877.22 907.37 715.88 1036.83 1019.83 981.46 883.46 TRUE FALSE FALSE 852.7272727 1058.695901 804.2552979 894.1998616 837.8475066 654.8829966 920.1631596 993.7442253 974.6299399 921.5502841 0.925318224 1.148820546 0.872719928 0.970321291 0.909171774 0.710631864 0.998494792 1.078339666 1.05759822 1 9.847919078 TSS(ph)DPNLNNHCQEVR ddPTM_HeLa_SAHA_4h_R1 2 TSSDPNLNNHCQEVR 15 0 J3QR65;Q9NYA4 J3QR65 MTMR4 Myotubularin-related protein 4 1 0 T(0.031)S(0.011)S(0.958)DPNLNNHCQEVR;T(0.149)S(0.149)S(0.702)DPNLNNHCQEVR ; 144.25 8.26E-05 11474300 3156.5 2747.7 2378 2870.8 3087.2 3250.1 3253.4 3212 2995.2 3131.3 TRUE FALSE FALSE 3488.515153 2836.727283 2702.061456 2926.368485 2850.659403 2973.173195 2887.31887 3129.841691 2974.356159 3266.305667 1.06803083 0.868481879 0.82725309 0.895926096 0.872747285 0.910255652 0.883970811 0.958220696 0.910617824 1 11.67344409 -7.257082006 24.996173 1.03212567 0.886181515 0.406004304 0.051885226 130.638346 749410.2447 0.006621047 0.007960693 5.53E-08 7.257082006 -0.145944156 TSS(ph)EASMDAAYLDK ddPTM_HeLa_SAHA_4h_R1 1 TSSEASMDAAYLDK 14 0 Q5W0B1 Q5W0B1 RNF219 RING finger protein 219 1 0 T(0.004)S(0.109)S(0.887)EASMDAAYLDK 146.84 0.00010391 5884700 1126.6 1490.9 1221.1 1410.8 1358.9 1848.2 1554.2 1438.5 1946.9 1626.7 TRUE FALSE FALSE 1245.100957 1539.206138 1387.505149 1438.108074 1254.781376 1690.722962 1379.317326 1401.705253 1933.351364 1696.834998 0.733778451 0.907104191 0.817701869 0.847523817 0.739483437 0.996397979 0.812876519 0.826070452 1.13938678 1 10.72863057 -9.553038428 1.320080074 1.000074664 0.82556355 0.501944693 0.086260541 0.332512028 1.037434645 0.051687643 0.012197306 2.80E-10 9.553038428 -0.174511114 TSS(ph)EDNLYLAVLR ddPTM_HeLa_SAHA_4h_R1 4 TSSEDNLYLAVLR 13 0 Q15149-4 Q15149-4 PLEC Plectin 1 0 T(0.039)S(0.006)S(0.955)EDNLYLAVLR;T(0.047)S(0.008)S(0.945)EDNLYLAVLR;T(0.332)S(0.332)S(0.337)EDNLYLAVLR;T(0.009)S(0.001)S(0.99)EDNLYLAVLR ;;; 252.52 5.66E-42 725306000 4879.12 7161.72 6119.13 6308.62 6764.2 7309.59 6916.2 5909 6446.88 7016.73 TRUE FALSE FALSE 5392.328228 7393.764427 6953.013169 6430.732463 6245.928457 6686.771809 6137.970974 5757.856336 6402.015637 7319.255569 0.736731786 1.010179841 0.949961796 0.878604716 0.8533557 0.913586327 0.838605909 0.786672399 0.874681254 1 12.83748121 -4.498024404 3.324315849 0.888722506 0.790075701 0.182343366 0.075046412 0.503268285 10.6444551 0.014442496 0.092833106 3.18E-05 4.498024404 -0.098646806 TSS(ph)GLGGSTTDFLEEWK ddPTM_HeLa_SAHA_4h_R1 1 TSSGLGGSTTDFLEEWK 17 0 Q96IZ0;A0A0B4J260;F8W1M8 Q96IZ0 PAWR PRKC apoptosis WT1 regulator protein 1 0 T(0.37)S(0.086)S(0.543)GLGGS(0.001)TTDFLEEWK 109.72 0.0015853 2430000 236.42 372.54 350.68 361.97 458.41 314.46 499.24 521.63 302.16 376.83 TRUE FALSE FALSE 261.2877403 384.6105404 398.4688441 368.9764528 423.2867248 287.6662389 443.0642013 508.2874599 300.057244 393.0769855 0.664724087 0.978461102 1.013717055 0.9386875 1.076854511 0.731831803 1.127169022 1.293099008 0.763354903 1 8.618668087 -1.000000452 0.644854619 0.867679913 38.64016288 0.44020706 0.137092829 152.7034202 0.931154732 0.027754272 8242.414119 0.099999896 1.000000452 37.77248297 TSS(ph)IADEGTYTLDSILR ddPTM_HeLa_SAHA_4h_R1 1 TSSIADEGTYTLDSILR 17 0 E7ERV5;A0A087WY00;G3V394;F8WE88;F8W6H6;Q9Y4I1-2;Q9Y4I1;Q9Y4I1-3 E7ERV5 MYO5A Unconventional myosin-Va 1 0 T(0.037)S(0.071)S(0.892)IADEGTYTLDSILR 273.84 1.78E-59 16639000 858.11 954.67 936.94 753.93 1269.3 1062.6 1156.4 1077.8 1254.4 937.6 TRUE FALSE FALSE 948.3699469 985.6019344 1064.621304 768.5234054 1172.046508 972.060502 1026.278829 1050.231437 1245.670528 978.0245245 0.969679106 1.007747669 1.088542544 0.785791548 1.198381512 0.99390197 1.049338542 1.073829347 1.273659808 1 9.933726832 -5.723472975 24.99999411 0.983265374 1.070685079 0 0.125753706 194.2356974 127898.732 0.01122264 0.022444897 1.89E-06 5.723472975 0.087419705 TSS(ph)KES(ph)SPIPSPTSDRK ddPTM_HeLa_SAHA_4h_R1 1 TSSKESSPIPSPTSDRK 17 2 A0A087WUZ3;Q01082 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 2 0 T(0.019)S(0.024)S(0.954)KES(0.564)S(0.438)PIPS(0.001)PTSDRK 107.02 0.0015068 28109000 2550.9 2261.9 1915.1 2076.7 2202.4 2292.3 2089.2 2521.9 2181.5 2014.9 TRUE FALSE FALSE 2819.215366 2335.187044 2176.079855 2116.897531 2033.652588 2096.983144 1854.117718 2457.39345 2166.318764 2101.7722 1.341351535 1.111056205 1.035354762 1.007196466 0.967589441 0.99772142 0.882168733 1.169200663 1.030710542 1 11.0373906 -6.773602224 3.269329824 1.163558533 0.998566337 0.167850795 0.109942113 0.273168702 6.096802699 0.022753808 0.031568684 1.68E-07 6.773602224 -0.164992196 TSS(ph)KESSPIPSPTSDR ddPTM_HeLa_SAHA_4h_R1 1 TSSKESSPIPSPTSDR 16 1 A0A087WUZ3;Q01082 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 T(0.165)S(0.035)S(0.8)KESSPIPSPTSDR 139 1.72E-07 0 400.33 532.27 461.62 574.58 476.92 654.22 396.66 661.35 565.29 349.81 TRUE FALSE FALSE 442.4385462 549.5158972 524.5271696 585.7018268 440.3784926 598.4767755 352.0267728 644.4336246 561.3561009 364.892021 1.212519103 1.505968521 1.437485994 1.605137391 1.206873451 1.640147608 0.964742314 1.766094043 1.538417034 1 8.511325794 -7.761803066 1.135318557 1.053572648 1.432730628 0 0.267337064 0.306703818 0.826100672 0.047291695 0.044009164 1.73E-08 7.761803066 0.379157979 TSS(ph)LDTITGPYLTGQWPR ddPTM_HeLa_SAHA_4h_R1 2 TSSLDTITGPYLTGQWPR 18 0 Q86VQ1;H7C2L5;H7C0Q2 Q86VQ1 GLCCI1 Glucocorticoid-induced transcript 1 protein 1 0 T(0.028)S(0.04)S(0.932)LDTITGPYLTGQWPR;TS(0.004)S(0.996)LDTITGPYLTGQWPR ; 197.73 9.87E-15 44560000 2122.9 2059.87 1752.74 2202 2439.8 2347.57 2239.64 2329.5 2882.7 2190.64 TRUE FALSE FALSE 2346.196362 2126.61114 1991.594279 2244.622894 2252.863051 2147.543829 1987.629813 2269.914763 2862.639056 2285.089211 1.026741692 0.930646878 0.871560843 0.982291143 0.985897198 0.939807434 0.869825915 0.993359363 1.252747176 1 11.15803477 -7.257964827 24.86579992 1.012628022 0.937290339 0.289840916 0.086295766 198.5507311 1420938.996 0.006835612 0.008189614 5.52E-08 7.257964827 -0.075337683 TSS(ph)LTQFPPSQSEER ddPTM_HeLa_SAHA_4h_R1 7 TSSLTQFPPSQSEER 15 0 B7Z7F3;Q9H6Z4-3;Q9H6Z4-2;Q9H6Z4 B7Z7F3 RANBP3 Ran-binding protein 3 1 0 T(0.031)S(0.031)S(0.908)LT(0.031)QFPPSQSEER;TS(0.008)S(0.873)LT(0.119)QFPPSQSEER;T(0.001)S(0.021)S(0.692)LT(0.286)QFPPSQSEER;T(0.001)S(0.004)S(0.898)LT(0.097)QFPPSQSEER;TS(0.003)S(0.991)LT(0.006)QFPPSQSEER;TS(0.009)S(0.982)LT(0.009)QFPPSQSEER;T(0.001)S(0.006)S(0.886)LT(0.107)QFPPSQSEER ;;;;;; 202.01 1.78E-12 33034200 5464.73 5909.53 4998.42 5974.3 6115.1 6784.1 6449.22 6984.95 6624.64 6034.65 TRUE FALSE FALSE 6039.535374 6101.002649 5679.578647 6089.941215 5646.562359 6206.056514 5723.536792 6806.285093 6578.538591 6294.833294 0.95944326 0.969207978 0.902260375 0.967450754 0.897015393 0.985896881 0.909243585 1.081249459 1.045069549 1 12.61995246 -8.826198676 0.783522189 0.998986157 0.954769329 0.152418864 0.052775791 1.083966265 1.276870344 0.026555336 0.009691043 1.49E-09 8.826198676 -0.044216827 TSS(ph)PHSETQGWK ddPTM_HeLa_SAHA_4h_R1 2 TSSPHSETQGWK 12 0 H7C1N2;J3KR05;O75128-2;O75128-6;O75128-3;O75128;O75128-7 H7C1N2;O75128-3 COBL Protein cordon-bleu 1 0 TS(0.027)S(0.972)PHSETQGWK;T(0.016)S(0.028)S(0.956)PHSETQGWK ; 171.26 2.36E-16 5522400 2597.8 3428 2157.3 2968.3 3955.9 4806.8 3743.4 3380.9 4228.3 3589.9 TRUE FALSE FALSE 2871.048523 3539.069449 2451.285609 3025.755739 3652.799797 4397.233598 3322.18278 3294.421473 4198.874916 3744.678158 0.766701009 0.94509309 0.654605151 0.808014898 0.975464284 1.174262089 0.887174449 0.879760913 1.121291267 1 11.87062601 -5.677731241 7.854466151 0.867232868 0.987607327 0.092430106 0.142718704 0.373746433 30.58662964 0.019837058 0.039740678 2.10E-06 5.677731241 0.120374459 TSS(ph)PLFNK ddPTM_HeLa_SAHA_4h_R1 3 TSSPLFNK 8 0 Q9BY89 Q9BY89 KIAA1671 Uncharacterized protein KIAA1671 1 0 T(0.323)S(0.049)S(0.628)PLFNK;T(0.009)S(0.001)S(0.99)PLFNK;T(0.018)S(0.016)S(0.966)PLFNK ;; 128.86 0.002156 150994200 12536.4 12793.5 13141.5 11513.3 12469.5 12656 14999.6 11784.5 12806.8 11222.1 TRUE FALSE FALSE 13855.03607 13208.01779 14932.35518 11736.15657 11514.0896 11577.6376 13311.80553 11483.06955 12717.67644 11705.93965 1.183590253 1.128317605 1.275622088 1.002581332 0.98361088 0.989039577 1.137183851 0.980960939 1.086429353 1 13.51495313 TSS(ph)PSSTGSVSLGR ddPTM_HeLa_SAHA_4h_R1 2 TSSPSSTGSVSLGR 14 0 D6RAL0;F5GYR0;Q6H8Q1-4;Q6H8Q1-6;Q6H8Q1-8;Q6H8Q1-3;Q6H8Q1-7;Q6H8Q1-2;Q6H8Q1-5;Q6H8Q1;Q6H8Q1-9 D6RAL0 ABLIM2 Actin-binding LIM protein 2 1 0 T(0.089)S(0.089)S(0.709)PS(0.061)S(0.017)T(0.017)GS(0.017)VSLGR;T(0.042)S(0.042)S(0.686)PS(0.19)S(0.019)T(0.019)GS(0.001)VS(0.001)LGR ; 120.9 0.00088986 9055000 1720.38 1840.64 1656.68 2020.68 2010.15 1985.97 2001.04 2100.47 2006.92 1850.21 TRUE FALSE FALSE 1901.337462 1900.277944 1882.443723 2059.793183 1856.132741 1816.754183 1775.877713 2046.743019 1992.95368 1929.981608 0.985158332 0.984609354 0.975368737 1.067260525 0.961735974 0.941332382 0.920152661 1.060498717 1.032628328 1 10.91437138 TSS(ph)RESLNR ddPTM_HeLa_SAHA_4h_R1 1 TSSRESLNR 9 1 Q13439-3;Q13439-4;Q13439;Q13439-5;E7EVX2;Q86W71 Q13439-3 GOLGA4 Golgin subfamily A member 4 1 0 TS(0.002)S(0.998)RESLNR 135.8 0.0065413 8153800 1723.3 1724 1343.8 2259.7 2029.9 2595.9 2551.7 2319.1 2445.2 2292.5 TRUE FALSE FALSE 1904.564601 1779.858731 1526.926066 2303.439761 1874.369501 2374.714716 2264.576 2259.78078 2428.183654 2391.340894 0.796442116 0.744293185 0.63852296 0.963241906 0.783815267 0.993047341 0.946990036 0.944984793 1.015406737 1 11.22360409 -5.240333031 24.64293676 0.866762229 0.960205659 0.158956578 0.113823408 1287.123273 1502790.797 0.01778217 0.045281327 5.75E-06 5.240333031 0.09344343 TSS(ph)SSPANS(ph)DVEIDGIGR ddPTM_HeLa_SAHA_4h_R1 1 TSSSSPANSDVEIDGIGR 18 0 O60293-2;O60293 O60293-2 ZFC3H1 Zinc finger C3H1 domain-containing protein 2 0 T(0.135)S(0.045)S(0.336)S(0.337)S(0.169)PANS(0.979)DVEIDGIGR 115.91 0.0084064 2749500 889.77 672.33 531.03 906.36 674.86 975.3 952.44 867.33 982.09 838.58 TRUE FALSE FALSE 983.360091 694.1139331 603.3960029 923.9039084 623.1523726 892.1989531 845.2689445 845.1449545 975.2555557 874.7352877 1.1241802 0.793513127 0.689804117 1.056209714 0.712389658 1.019964515 0.966313988 0.966172242 1.114915071 1 9.772702685 -7.267119174 24.95128746 1.058640651 0.886837849 0.342932432 0.121607932 416.6339805 1830266.483 0.020607179 0.023908423 5.41E-08 7.267119174 -0.171802802 TSS(ph)T(ph)CSNESLSVGGTSVTPR ddPTM_HeLa_SAHA_4h_R1 1 TSSTCSNESLSVGGTSVTPR 20 0 A0A3B3IRT3;O60343-2;O60343-3;O60343;Q5JU47 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 2 0 T(0.013)S(0.01)S(0.978)T(0.983)CS(0.015)NESLSVGGTSVTPR 133.04 0.00091025 8472000 730.54 663.93 591.34 859.7 622.36 645.61 787.67 871.89 680.12 708.28 TRUE FALSE FALSE 807.381549 685.4417676 671.9247356 876.3407366 574.6749113 590.6003959 699.0392986 849.5883163 675.3869895 738.817417 1.092802539 0.927755291 0.909459794 1.186139791 0.777830758 0.79938613 0.946159745 1.149930005 0.914146004 1 9.529074067 -7.250812933 23.71707597 1.043823422 0.950344641 0 0.130888591 619.1302192 1381830.034 0.020909316 0.025449924 5.61E-08 7.250812933 -0.09347878 TSS(ph)TCS(ph)NESLSVGGTSVTPR ddPTM_HeLa_SAHA_4h_R1 2 TSSTCSNESLSVGGTSVTPR 20 0 A0A3B3IRT3;O60343-2;O60343-3;O60343;Q5JU47 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 2 0 T(0.412)S(0.122)S(0.43)T(0.054)CS(0.981)NESLSVGGTSVTPR;T(0.057)S(0.08)S(0.817)T(0.051)CS(0.99)NES(0.004)LSVGGTSVTPR ; 159.18 3.06E-05 15569900 1093.83 1297.91 1291.55 1545.9 1535.15 1536.2 1244.79 1512.82 1794.77 1345.38 TRUE FALSE FALSE 1208.884058 1339.963136 1467.555708 1575.82313 1417.527139 1405.307118 1104.722953 1474.124255 1782.280049 1403.385916 0.861405294 0.954807313 1.045724979 1.122872271 1.010076503 1.001368976 0.78718401 1.050405479 1.269985703 1 10.45469607 -6.986456547 22.84037921 0.933160596 0.998955482 0 0.137198396 160.6181059 270871.04 0.015649949 0.020558844 1.03E-07 6.986456547 0.065794886 TSS(ph)TDEVLSLEEKDLR ddPTM_HeLa_SAHA_4h_R1 1 TSSTDEVLSLEEKDLR 16 1 K7ENH8;A0A0A0MRB7;P15923-2;K7EMM4 K7ENH8 TCF3 Transcription factor E2-alpha 1 0 T(0.237)S(0.124)S(0.606)T(0.032)DEVLSLEEKDLR 70.334 0.0139 6896600 1389.5 1092.2 1857.6 1275.5 1628.9 1375.4 2498.9 2711.9 649.7 1315.3 TRUE FALSE FALSE 1535.653985 1127.587997 2110.744054 1300.189147 1504.094034 1258.208182 2217.717195 2642.533525 645.1786848 1372.00902 1.119273972 0.821851737 1.538433074 0.947653498 1.096271243 0.917055328 1.616401323 1.926032181 0.470243763 1 10.42207425 -4.608728786 3.980042447 1.063244775 1.869186839 0.585312401 0.262504987 0.074376033 2.167670761 0.023486624 0.104525945 2.46E-05 4.608728786 0.805942064 TSS(ph)TNEDEDLNPEQKIER ddPTM_HeLa_SAHA_4h_R1 2 TSSTNEDEDLNPEQKIER 18 1 Q99081;Q99081-3;B4DZP2;F5GY10;B4DGI9;Q99081-4;Q99081-2 Q99081 TCF12 Transcription factor 12 1 0 T(0.372)S(0.088)S(0.519)T(0.021)NEDEDLNPEQKIER;T(0.113)S(0.113)S(0.751)T(0.023)NEDEDLNPEQKIER ; 157.53 4.88E-06 19380000 2122 1216.3 2033.35 1393.98 1672.99 1558.57 2108.14 2616.9 966.17 1400.09 TRUE FALSE FALSE 2345.201696 1255.708918 2310.444349 1420.962499 1544.805868 1425.771068 1870.926539 2549.963487 959.4463443 1460.454732 1.605802388 0.859806806 1.582003398 0.972958947 1.057756762 0.976251462 1.281057535 1.746006522 0.656950416 1 10.51220193 -4.273715397 4.687698177 1.224378499 1.772314791 0.211019832 0.305243976 0.201126966 11.86632999 0.039524946 0.351857885 5.32E-05 4.273715397 0.547936292 TSS(ph)VLGMSVESAPAVEEEKGEELEQK ddPTM_HeLa_SAHA_4h_R1 2 TSSVLGMSVESAPAVEEEKGEELEQK 26 1 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 T(0.023)S(0.023)S(0.954)VLGMSVESAPAVEEEKGEELEQK;T(0.025)S(0.025)S(0.951)VLGMSVESAPAVEEEKGEELEQK ; 199.87 1.52E-24 33681000 1405.33 2068.31 1489.93 1795.91 1506.07 2298.1 1704.76 1841.34 2080.24 1766.83 TRUE FALSE FALSE 1553.149057 2135.324601 1692.969901 1830.672435 1390.675242 2102.288951 1512.935918 1794.241189 2065.76344 1843.006688 0.842725676 1.158609252 0.918591296 0.993307538 0.754568744 1.140684385 0.820906364 0.973540249 1.120865949 1 10.84784559 TSS(ph)VLGMSVESAPAVEEEKGEELEQKEK ddPTM_HeLa_SAHA_4h_R1 1 TSSVLGMSVESAPAVEEEKGEELEQKEK 28 2 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 T(0.039)S(0.186)S(0.775)VLGMSVESAPAVEEEKGEELEQKEK 99.093 4.59E-07 6282100 1478.4 961.82 1137.2 1317.3 1476.7 1028.1 1339.9 1269.6 880.08 1207.6 TRUE FALSE FALSE 1633.904895 992.9835991 1292.171694 1342.798246 1363.555565 940.5000961 1189.130926 1237.12547 873.9554516 1259.665546 1.297094217 0.788291465 1.02580538 1.065995852 1.082474288 0.746626832 0.944005279 0.982106301 0.6937996 1 10.29882502 -7.262853989 24.999537 1.140294489 0.952723996 0 0.186838538 131.3786929 2321766.002 0.025043253 0.029474331 5.46E-08 7.262853989 -0.187570493 TSS(ph)VPEYVYNLHLVENDFVGGR ddPTM_HeLa_SAHA_4h_R1 2 TSSVPEYVYNLHLVENDFVGGR 22 0 Q99959-2;Q99959 Q99959-2 PKP2 Plakophilin-2 1 0 T(0.038)S(0.038)S(0.923)VPEYVYNLHLVENDFVGGR;T(0.042)S(0.042)S(0.65)VPEY(0.265)VY(0.002)NLHLVENDFVGGR ; 152.4 1.27E-06 9779600 812.89 923.34 995.77 1084.66 1443.38 1468.34 1446.07 1379.34 1024.66 1233.14 TRUE FALSE FALSE 898.3934999 953.2568218 1131.46835 1105.655163 1332.788536 1343.229171 1283.354398 1344.05848 1017.529308 1286.3067 0.698428687 0.741080507 0.879625636 0.85955796 1.036135889 1.044252643 0.997704822 1.044897364 0.791047195 1 10.32901896 -5.779933587 6.171509679 0.846157137 1.029855004 0.607707759 0.078935566 0.140208808 18.50739788 0.017614868 0.033164124 1.66E-06 5.779933587 0.183697867 TSSAFVGK(ac)TPEASPEPK ddPTM_HeLa_SAHA_4h_R1 1 TSSAFVGKTPEASPEPK 17 1 A0A087WW66;Q99460-2;Q99460 A0A087WW66 PSMD1 26S proteasome non-ATPase regulatory subunit 1 0 1 TSSAFVGK(1)TPEASPEPK 173.71 6.18E-08 0 0 72.549 66.351 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 74.8996352 75.39296874 0 0 0 0 0 0 0 0 TSSAVST(ph)PSK ddPTM_HeLa_SAHA_4h_R1 2 TSSAVSTPSK 10 0 Q9P2N5;U3KPZ7 Q9P2N5 RBM27 RNA-binding protein 27 1 0 TSSAVS(0.264)T(0.567)PS(0.168)K;TSSAVS(0.322)T(0.657)PS(0.021)K ; 124.39 0.0042769 14767200 8937.7 10213.9 6572.7 11035.9 14222.4 15150.5 13073.5 12757.5 16699.3 13499.3 TRUE FALSE FALSE 9877.808294 10544.83706 7468.393327 11249.5158 13132.68278 13859.59217 11602.43537 12431.18162 16583.08821 14081.32089 0.701483076 0.748852835 0.530375906 0.798896346 0.932631455 0.984253699 0.823959305 0.882813603 1.177665671 1 13.78149505 -4.252056458 20.82993614 0.834643574 0.882813826 0 0.172062292 833.5016408 1849898.139 0.022391785 0.324535641 5.60E-05 4.252056458 0.048170253 TSSAVST(ph)PSKVK ddPTM_HeLa_SAHA_4h_R1 1 TSSAVSTPSKVK 12 1 Q9P2N5;U3KPZ7 Q9P2N5 RBM27 RNA-binding protein 27 1 0 TSSAVS(0.055)T(0.945)PSKVK 97.631 0.0086658 18459000 5232.7 3444.7 3910.7 4227.4 4935.8 4018 5354.6 4982.9 3295 3540 TRUE FALSE FALSE 5783.099394 3556.31054 4443.62983 4309.22744 4557.62007 3675.643795 4752.086315 4855.444633 3272.069827 3692.626724 1.566120766 0.963084223 1.203379102 1.166981599 1.234248791 0.995400854 1.286912182 1.314902641 0.886109014 1 11.85043172 TSSAVSTPS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 TSSAVSTPSK 10 0 Q9P2N5;U3KPZ7 Q9P2N5 RBM27 RNA-binding protein 27 1 0 TSS(0.001)AVS(0.094)T(0.266)PS(0.639)K 110.84 0.0053999 2573500 2576.4 3580 2154.4 3451 4317.7 4669.4 4231.5 3745.2 4697.3 4035.4 TRUE FALSE FALSE 2847.397573 3695.994349 2447.990412 3517.799095 3986.878759 4271.540851 3755.360483 3649.403207 4664.611107 4209.385843 0.676440146 0.878036485 0.581555244 0.835703646 0.94714025 1.014765814 0.892139762 0.866968091 1.108145293 1 12.03939404 -5.79422596 7.234555716 0.823187326 0.933597584 0.060701787 0.144374054 0.333244924 55.22785047 0.021782863 0.040162828 1.61E-06 5.79422596 0.110410258 TSSAVWNS(ph)PPLQGAR ddPTM_HeLa_SAHA_4h_R1 3 TSSAVWNSPPLQGAR 15 0 Q9NQS7-2;Q9NQS7 Q9NQS7-2 INCENP Inner centromere protein 1 0 TSS(0.001)AVWNS(0.999)PPLQGAR;T(0.019)S(0.003)S(0.001)AVWNS(0.978)PPLQGAR;TSSAVWNS(1)PPLQGAR ;; 100.41 0.0043152 27587000 2295.87 2097.21 2133.11 2316.23 2471.9 2474.43 2561.85 2370.2 2562.98 2411.96 TRUE FALSE FALSE 2537.36014 2165.16098 2423.799122 2361.063981 2282.503556 2263.594643 2273.583896 2309.573716 2545.144014 2515.951399 1.008509203 0.860573452 0.963372791 0.938437834 0.907212896 0.899697285 0.903667653 0.917972309 1.011603012 1 11.29688834 -7.283431414 24.86327617 1.00401824 0.914815043 0.742736527 0.025243729 259.1506934 292984.2129 0.004125302 0.004719435 5.21E-08 7.283431414 -0.089203197 TSSFT(ph)EQLDEGTPNR ddPTM_HeLa_SAHA_4h_R1 3 TSSFTEQLDEGTPNR 15 0 Q13439-3;Q13439-4;Q13439;Q13439-5;E7EVX2;Q86W71;C9J0Y3;C9JHJ5 Q13439-3 GOLGA4 Golgin subfamily A member 4 1 0 T(0.001)SS(0.073)FT(0.926)EQLDEGTPNR;TSS(0.068)FT(0.932)EQLDEGTPNR;TS(0.001)S(0.246)FT(0.752)EQLDEGTPNR ;; 290.63 6.03E-70 133895000 5100.6 6243.3 5091.9 6035 7635.8 5235.77 6993.7 6700.5 9176.8 6633.5 TRUE FALSE FALSE 5637.10451 6445.587016 5785.797615 6151.816152 7050.746654 4789.65294 6206.75047 6529.110912 9112.937902 6919.502649 0.81466903 0.93151016 0.836158017 0.889054671 1.01896726 0.692196128 0.896993727 0.943580954 1.316993195 1 12.75645263 -9.496981576 1.21537799 1.000709626 0.870906786 0.292037033 0.131439476 0.520579744 1.363989476 0.056788106 0.013482187 3.18E-10 9.496981576 -0.12980284 TSSGDPPS(ph)PLVK ddPTM_HeLa_SAHA_4h_R1 3 TSSGDPPSPLVK 12 0 F5GX58;F8WDL1;Q99618 F5GX58 CDCA3 Cell division cycle-associated protein 3 1 0 TSSGDPPS(1)PLVK;TSSGDPPS(1)PLVK;TSSGDPPS(1)PLVK ;; 143.94 0.00047892 69777000 7745.5 8528.1 7618.2 7806.1 8213.1 9008.5 9417.8 9225.5 7498.3 7535.8 TRUE FALSE FALSE 8560.207228 8804.416035 8656.368622 7957.198353 7583.814052 8240.92512 8358.084358 8989.525068 7446.11872 7860.705217 1.088987183 1.120054218 1.101220359 1.012275379 0.964775277 1.048369694 1.063274112 1.143602873 0.947258358 1 12.94044303 -9.404018089 1.18022685 1.000687921 1.066545216 0.310787672 0.052323824 0.662308101 1.676375701 0.034604603 0.00918178 3.94E-10 9.404018089 0.065857295 TSSISGPLS(ph)PAYTGQVPYNYNQLEGR ddPTM_HeLa_SAHA_4h_R1 2 TSSISGPLSPAYTGQVPYNYNQLEGR 26 0 Q01082-3 Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 TSSIS(0.003)GPLS(0.995)PAYTGQVPYNYNQLEGR;TSSIS(0.003)GPLS(0.992)PAY(0.002)T(0.002)GQVPYNYNQLEGR ; 128.92 1.27E-08 16539600 2002.66 2111.65 2252.12 2126.36 2510.48 3079.8 2959.8 2825.6 2322.08 2462.8 TRUE FALSE FALSE 2213.308967 2180.068846 2559.027185 2167.518773 2318.127565 2817.383714 2626.755514 2753.325243 2305.920456 2568.983361 0.861550527 0.848611509 0.996124469 0.843726279 0.902352113 1.096692083 1.022488333 1.071756745 0.897600386 1 11.32698183 -5.265782284 24.99138686 0.922477207 1.059529984 0.618122514 0.055434729 240.2537713 1382552.955 0.009610154 0.022245306 5.42E-06 5.265782284 0.137052777 TSSLAPVVGTTTTTPS(ph)PSAIK ddPTM_HeLa_SAHA_4h_R1 1 TSSLAPVVGTTTTTPSPSAIK 21 0 Q92733 Q92733 PRCC Proline-rich protein PRCC 1 0 TSSLAPVVGTT(0.001)T(0.001)T(0.036)T(0.365)PS(0.583)PS(0.015)AIK 178.72 2.22E-10 3069300 1108.6 1057.6 1070.7 860.12 1117.6 1069.9 1144 1060 1067.5 934.02 TRUE FALSE FALSE 1225.207634 1091.866934 1216.60942 876.7688664 1031.969729 978.7385009 1015.274109 1032.886735 1060.071181 974.2901732 1.257538738 1.120679407 1.248713631 0.899905275 1.05920162 1.004565711 1.042065431 1.060142823 1.088044619 1 9.928207704 -6.261894841 24.99996743 1.133285357 1.016859745 0.38349784 0.081770595 49.9045002 2739261.647 0.016524028 0.026245081 5.47E-07 6.261894841 -0.116425613 TSSLT(ph)QFPPSQSEER ddPTM_HeLa_SAHA_4h_R1 3 TSSLTQFPPSQSEER 15 0 B7Z7F3;Q9H6Z4-3;Q9H6Z4-2;Q9H6Z4 B7Z7F3 RANBP3 Ran-binding protein 3 1 0 TS(0.009)S(0.34)LT(0.651)QFPPSQSEER;T(0.056)S(0.056)S(0.271)LT(0.617)QFPPSQSEER;T(0.001)S(0.017)S(0.314)LT(0.668)QFPPSQSEER ;; 142.57 1.89E-05 16262700 2880.11 2626.32 2329.84 2819.79 2730.84 2793.04 3014.35 3051.81 3005.38 2570.48 TRUE FALSE FALSE 3183.053184 2711.414491 2647.338462 2874.371113 2521.603629 2555.057279 2675.167405 2973.749119 2984.465316 2681.305972 1.187127921 1.01122905 0.987331729 1.072004144 0.940438598 0.952915223 0.997710605 1.109067428 1.113064062 1 11.38872014 -7.046393153 24.96993806 1.088935056 1.005834634 0.28902498 0.063760778 518.3836131 279005.9967 0.013657525 0.016727299 8.99E-08 7.046393153 -0.083100423 TSSS(ph)S(ph)PANSDVEIDGIGR ddPTM_HeLa_SAHA_4h_R1 1 TSSSSPANSDVEIDGIGR 18 0 O60293-2;O60293 O60293-2 ZFC3H1 Zinc finger C3H1 domain-containing protein 2 0 T(0.106)S(0.033)S(0.346)S(0.519)S(0.985)PANS(0.011)DVEIDGIGR 149.31 0.0010218 5702500 1573.4 1321.8 845.79 1100.6 1027.7 1483.1 1272.9 1328.4 1568 1440 TRUE FALSE FALSE 1738.897431 1364.627187 961.0498565 1121.903704 948.957848 1356.731536 1129.669942 1294.421452 1557.08816 1502.085447 1.157655468 0.908488388 0.639810377 0.746897393 0.63176023 0.903231929 0.752067696 0.861749546 1.036617566 1 10.55275117 -7.012488918 5.069763675 1.073341767 0.756608025 0.716407099 0.08725892 0.073058456 5.470716094 0.015674538 0.019958501 9.72E-08 7.012488918 -0.316733742 TSSSS(ph)PANSDVEIDGIGR ddPTM_HeLa_SAHA_4h_R1 2 TSSSSPANSDVEIDGIGR 18 0 O60293-2;O60293 O60293-2 ZFC3H1 Zinc finger C3H1 domain-containing protein 1 0 TSSS(0.034)S(0.917)PANS(0.049)DVEIDGIGR;T(0.001)S(0.004)S(0.017)S(0.251)S(0.689)PANS(0.038)DVEIDGIGR ; 173.49 7.07E-09 16139000 1744.15 1792.15 1562.29 1875.76 1688.44 1897.34 1644.28 2042.78 2256.11 1997.13 TRUE FALSE FALSE 1927.607699 1850.216836 1775.190745 1912.068047 1559.072092 1735.675958 1459.261287 1990.528646 2240.409547 2083.236048 0.925294904 0.888145555 0.85213135 0.917835523 0.748389552 0.833163366 0.700478128 0.955498369 1.075446803 1 11.0246106 -7.197593251 0.490164278 0.992635246 0.803293251 0.520361945 0.073763141 0.471946763 0.271619609 0.025031871 0.031224549 6.34E-08 7.197593251 -0.189341994 TSSSSPANS(ph)DVEIDGIGR ddPTM_HeLa_SAHA_4h_R1 1 TSSSSPANSDVEIDGIGR 18 0 O60293-2;O60293 O60293-2 ZFC3H1 Zinc finger C3H1 domain-containing protein 1 0 TSSSSPANS(1)DVEIDGIGR 132.9 0.00010471 1717400 380.67 291.78 299.69 386.52 285.86 442.12 347.69 486.18 377.3 350.43 TRUE FALSE FALSE 420.7106172 301.2338634 340.5301925 394.0016535 263.9574686 404.4488887 308.5670061 473.7442196 374.6743386 365.5387523 1.150933012 0.824081883 0.931584382 1.077865619 0.722105295 1.106445996 0.844143074 1.296016405 1.024992114 1 8.51388055 -7.284269631 24.96207451 1.071273917 0.964956606 0.056696053 0.158261781 1388.507362 1518157.936 0.025339101 0.028985882 5.20E-08 7.284269631 -0.106317311 GLPLEGSAK(ac)GK ddPTM_HeLa_SAHA_4h_R1 1 GLPLEGSAKGK 11 1 Q15291 Q15291 RBBP5 Retinoblastoma-binding protein 5 0 1 GLPLEGSAK(1)GK 104.52 0.0089114 915260 334.59 300.15 238.45 337.68 291.02 539.02 463.28 605.84 284.28 261.23 FALSE TRUE FALSE 369.7837114 309.8750569 270.9447242 344.2162847 268.7221105 493.0924636 411.1505151 590.34349 282.3016723 272.4929037 1.357039785 1.137185786 0.994318459 1.263211922 0.986161866 1.809560751 1.508848522 2.166454546 1.035996419 1 8.090074849 -4.334444568 0.853762913 1.150732247 2.567909309 0.734835559 0.194731235 0.878384849 0.500806598 0.032233549 1.137383052 4.63E-05 4.334444568 1.417177062 TSSSTS(ph)PLEPPSDR ddPTM_HeLa_SAHA_4h_R1 1 TSSSTSPLEPPSDR 14 0 A0A2R8Y549;Q8NI35-4;Q8NI35-3;Q8NI35-2;Q8NI35;A0A0U1RR46;A0A0X1KG69;A0A087WUZ6 A0A2R8Y549 INADL InaD-like protein 1 0 T(0.291)S(0.009)S(0.005)S(0.031)T(0.205)S(0.459)PLEPPSDR 109.15 0.0024405 2967200 656.86 1285.4 815.51 955.21 1110.2 1450.4 1146.3 1088.8 1457 1159.9 TRUE FALSE FALSE 725.9515486 1327.047803 926.6434558 973.6994708 1025.136716 1326.81776 1017.315307 1060.950073 1446.860618 1209.908965 0.600005099 1.096816241 0.765878659 0.804770854 0.847284172 1.096626108 0.840819711 0.876884214 1.195842547 1 10.24068279 -5.496903765 24.07144551 0.826344763 0.935643349 0 0.182633624 1022.23676 947321.4109 0.024921758 0.055508872 3.18E-06 5.496903765 0.109298585 TSST(ph)CSNESLSVGGTSVTPR ddPTM_HeLa_SAHA_4h_R1 1 TSSTCSNESLSVGGTSVTPR 20 0 A0A3B3IRT3;O60343-2;O60343-3;O60343;Q5JU47 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 1 0 TSS(0.052)T(0.866)CS(0.075)NES(0.007)LSVGGTSVTPR 192.22 4.77E-14 18609000 1057.7 851.08 979.21 856.82 765.57 907.94 649.63 726.02 1394.6 951.29 TRUE FALSE FALSE 1168.953739 878.6555504 1112.651639 873.4049901 706.912192 830.5784041 576.5319227 707.4494597 1384.894865 992.3047674 1.178018868 0.885469444 1.121280151 0.880178166 0.712394231 0.837019464 0.581002875 0.712935665 1.395634598 1 9.954639475 -5.94483665 1.314234632 1.075886732 0.68486334 0.647136433 0.139208706 0.16397592 0.563840944 0.016661945 0.038519181 1.14E-06 5.94483665 -0.391023392 TSST(ph)NEDEDLNPEQK ddPTM_HeLa_SAHA_4h_R1 1 TSSTNEDEDLNPEQK 15 0 Q99081;Q99081-3;B4DZP2;F5GY10;B4DGI9;Q99081-4;Q99081-2 Q99081 TCF12 Transcription factor 12 1 0 T(0.001)S(0.008)S(0.143)T(0.848)NEDEDLNPEQK 164.7 7.91E-06 10630000 633.39 939.57 573.8 768.41 737.72 795.29 721.76 836.98 771.37 815.19 TRUE FALSE FALSE 700.0128663 970.0126845 651.9944758 783.2836867 681.196053 727.5268178 640.5456652 815.5712635 766.0019734 850.3368303 0.823218331 1.140739352 0.766748484 0.921145197 0.801089673 0.855574864 0.753284631 0.959115534 0.900821823 1 9.731890616 TSSTCS(ph)NESLSVGGTSVTPR ddPTM_HeLa_SAHA_4h_R1 1 TSSTCSNESLSVGGTSVTPR 20 0 A0A3B3IRT3;O60343-2;O60343-3;O60343;Q5JU47 A0A3B3IRT3 TBC1D4 TBC1 domain family member 4 1 0 T(0.002)S(0.006)S(0.1)T(0.1)CS(0.792)NESLSVGGTSVTPR 191.97 2.84E-14 17284000 446.23 376.47 418.03 475.04 354.67 438.62 280.56 471.02 477.24 498.02 TRUE FALSE FALSE 493.1665188 388.667875 474.9969514 484.2350861 327.4952612 401.2471084 248.9906504 458.9719904 473.918848 519.4920795 0.949324423 0.74816901 0.914348784 0.932131798 0.630414349 0.772383496 0.479296336 0.883501421 0.912273482 1 9.020957943 -6.305024134 0.50697486 0.992329477 0.652083857 0.353743816 0.125199069 0.619399042 0.306799849 0.032459329 0.090062485 4.95E-07 6.305024134 -0.34024562 TSSVSNPQDSVGS(ph)PCSR ddPTM_HeLa_SAHA_4h_R1 5 TSSVSNPQDSVGSPCSR 17 0 A0A1B0GTU4;F5GZ78;P49023;P49023-2;P49023-3;A0A1B0GU60;F5H836 A0A1B0GTU4 PXN Paxillin 1 0 TSSVSNPQDS(0.028)VGS(0.971)PCS(0.002)R;TSSVSNPQDSVGS(1)PCSR;TSSVSNPQDSVGS(0.999)PCS(0.001)R;TSSVSNPQDSVGS(0.999)PCS(0.001)R;TSSVSNPQDSVGS(0.996)PCS(0.004)R ;;;; 340.85 7.81E-139 118343500 3666.96 3710.36 3557.1 3674.99 4471 4901.26 4222.84 4167.46 3688.09 3356.18 TRUE FALSE FALSE 4052.667677 3830.578098 4041.843063 3746.124746 4128.432946 4483.645074 3747.674929 4060.862408 3662.424281 3500.881345 1.157613549 1.094175358 1.154521581 1.070051903 1.179255319 1.280718948 1.070494701 1.159954311 1.046143505 1 11.77350245 -10.16677772 0.377071049 0.881637371 1.156194324 0.397987414 0.05959518 3.231152719 0.359156225 0.392571331 0.019567775 6.81E-11 10.16677772 0.274556953 TSSVSSISQVS(ph)PER ddPTM_HeLa_SAHA_4h_R1 4 TSSVSSISQVSPER 14 0 P42356 P42356 PI4KA Phosphatidylinositol 4-kinase alpha 1 0 TSSVSSISQVS(1)PER;TSSVSSISQVS(1)PER;TSSVSSISQVS(1)PER;TSSVSSISQVS(1)PER ;;; 241.27 5.40E-33 27420500 2961.8 3474.2 3079.96 2977.27 3983.12 4454.26 3911.32 3862.06 3936.15 3447.86 TRUE FALSE FALSE 3273.335713 3586.76636 3499.680909 3034.899366 3677.934206 4074.731989 3471.20798 3763.274097 3908.758012 3596.514118 0.910141211 0.997289665 0.973075816 0.843844697 1.022638612 1.13296705 0.965159003 1.046367114 1.086818481 1 11.81238355 -5.541669647 24.97900634 0.953240416 1.046187044 0.192062025 0.070911669 195.5344993 259926.1742 0.008589132 0.017180297 2.87E-06 5.541669647 0.092946628 TSSVVT(ph)LEVAK ddPTM_HeLa_SAHA_4h_R1 2 TSSVVTLEVAK 11 0 A8MQ02;J3KN01;P55196-6;P55196-3;P55196;P55196-5;Q5TIG5;P55196-2;P55196-1 A8MQ02 MLLT4 Afadin 1 0 T(0.039)S(0.244)S(0.23)VVT(0.488)LEVAK;T(0.19)S(0.003)S(0.007)VVT(0.801)LEVAK ; 185.25 2.34E-06 10882000 3301.7 3818.6 3476 3548.7 3807 3801.3 4450.7 4076.1 3066.7 3117.9 TRUE FALSE FALSE 3648.987955 3942.325145 3949.691178 3617.39022 3515.308482 3477.407854 3949.895522 3971.839264 3045.358585 3252.327928 1.12196188 1.212154873 1.214419722 1.112246459 1.080859176 1.069205791 1.214482552 1.22122964 0.936362708 1 11.66725701 -8.624354558 0.753045313 1.005108345 1.155539598 0.590214932 0.060340718 0.406493914 0.46411039 0.031412344 0.013529023 2.37E-09 8.624354558 0.150431253 TSTPSPQPSK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 TSTPSPQPSKR 11 1 Q8IY18 Q8IY18 SMC5 Structural maintenance of chromosomes protein 5 0 1 TSTPSPQPSK(1)R 85.807 0.0059123 0 0 0 0 0 0 161.07 140.17 174.26 0 0 FALSE TRUE FALSE 0 0 0 0 0 147.3459298 124.3977027 169.8026815 0 0 0 TSTS(ph)PPPEK ddPTM_HeLa_SAHA_4h_R1 2 TSTSPPPEK 9 0 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 T(0.264)S(0.008)T(0.079)S(0.649)PPPEK;T(0.095)S(0.016)T(0.417)S(0.472)PPPEK ; 104.42 0.0079874 118704000 8580.3 12248.1 7356.9 12255.6 12459.5 17486.1 13891.8 10724.8 19329.3 16438.5 TRUE FALSE FALSE 9482.815322 12644.94648 8359.460019 12492.82486 11504.8558 15996.18591 12328.6581 10450.47515 19194.78583 17147.24418 0.553022703 0.737433161 0.487510409 0.72856167 0.670944886 0.932872113 0.718987726 0.609455084 1.119409371 1 14.06568911 -9.446379718 1.159142845 1.001348269 0.673846081 0.595102743 0.121958522 0.318743026 0.760975143 0.084110357 0.020589469 3.58E-10 9.446379718 -0.327502188 TSTS(ph)SSSVQAR ddPTM_HeLa_SAHA_4h_R1 1 TSTSSSSVQAR 11 0 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 T(0.072)S(0.002)T(0.032)S(0.794)S(0.048)S(0.048)S(0.003)VQAR 101.56 0.0071466 1321200 473.3 529.76 479.48 434.04 755.94 812.21 621.52 622.72 682.97 529.42 TRUE FALSE FALSE 523.0838656 546.9245716 544.8210374 442.4414718 698.0200405 743.0051386 551.5849338 606.7917241 678.2171562 552.2458871 0.947193773 0.990364228 0.986555174 0.801167527 1.263966028 1.345424486 0.998803154 1.098770925 1.228107211 1 9.109166959 -5.748134017 24.99999632 0.965847244 1.176080104 0.310384876 0.131243806 150.3221674 282444.7707 0.014808657 0.029480113 1.79E-06 5.748134017 0.210232861 TSTTGVATTQS(ph)PTPR ddPTM_HeLa_SAHA_4h_R1 8 TSTTGVATTQSPTPR 15 0 E9PMS6;Q8WWI1-3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 TSTTGVAT(0.003)T(0.017)QS(0.862)PT(0.118)PR;TSTTGVAT(0.01)T(0.043)QS(0.88)PT(0.068)PR;TSTTGVATT(0.001)QS(0.717)PT(0.282)PR;TSTTGVAT(0.037)T(0.167)QS(0.535)PT(0.261)PR;TSTTGVATTQS(0.964)PT(0.036)PR;TSTTGVATTQS(0.993)PT(0.007)PR;TSTTGVATT(0.002)QS(0.714)PT(0.283)PR;TSTTGVATTQS(0.5)PT(0.5)PR ;;;;;;; 238.65 2.51E-33 360195900 11622.57 10850.07 10033.07 12047.83 12340.97 13163.22 12099.87 11348.33 12681.67 11914.64 TRUE FALSE FALSE 12845.08524 11201.61939 11400.32453 12281.03317 11395.40754 12041.6396 10738.36078 11058.05615 12593.41723 12428.33844 1.03353198 0.901296617 0.917284687 0.98814763 0.91688906 0.968885717 0.864022237 0.889745335 1.01328245 1 13.60134581 -7.262880137 24.99965124 1.015834547 0.922847814 0.60969832 0.034700337 65.66104331 1139331.09 0.006083048 0.007163415 5.46E-08 7.262880137 -0.092986734 TSVLFSK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 TSVLFSKK 8 1 A0A5F9ZH11;P55201-3;P55201;P55201-2 A0A5F9ZH11 BRPF1 Peregrin 0 1 ; TSVLFSK(1)K;TSVLFSK(1)K 144.09 3.08E-05 21059600 3144 2945.7 8133.1 10616.2 10625.3 3440.6 18266.6 4838.3 1023.58 1383.35 FALSE TRUE FALSE 3474.700345 3041.142613 9241.436513 10821.6919 9811.191809 3147.441524 16211.19409 4714.543292 1016.456823 1442.992988 2.407981448 2.107524179 6.404353026 7.499476428 6.79919576 2.181189756 11.23442333 3.267197644 0.704408706 1 10.49484857 -6.781522298 5.401974403 1.700056268 6.37124325 0.490823138 2.331096298 0.105028762 8.69540477 0.340305 0.460521267 1.65E-07 6.781522298 4.671186982 TSVLFSK(ac)KNPK ddPTM_HeLa_SAHA_4h_R1 1 TSVLFSKKNPK 11 2 A0A5F9ZH11;P55201-3;P55201;P55201-2 A0A5F9ZH11 BRPF1 Peregrin 0 1 TSVLFSK(0.99)K(0.01)NPK 93.959 0.012505 0 300.54 71.797 478.27 456.91 602.4 369.41 815.99 1103.4 212.8 240.14 FALSE TRUE FALSE 332.1521761 74.12326991 543.4461449 465.7541538 556.2442421 337.9341898 724.1726576 1075.176626 211.3191075 250.4936106 1.325990612 0.295908825 2.169501025 1.859345444 2.220592536 1.349073092 2.890982552 4.292231738 0.843610769 1 7.968629995 -1 0.458453023 1.133928312 75.57381488 0.763679335 0.531578306 26.74665275 0.283486514 0.108183136 1888.843134 0.1 1 74.43988657 TSVLGGGEDGIEPVS(ph)PPEGMTEPGHSR ddPTM_HeLa_SAHA_4h_R1 6 TSVLGGGEDGIEPVSPPEGMTEPGHSR 27 0 C9JE98;C9J0Q5;Q9Y618-5;Q9Y618-4;Q9Y618;C9J7T7;A0A384DVL6;Q9Y618-2 C9JE98;Q9Y618-2 NCOR2 Nuclear receptor corepressor 2 1 0 TSVLGGGEDGIEPVS(0.988)PPEGMT(0.009)EPGHS(0.003)R;TSVLGGGEDGIEPVS(0.999)PPEGMTEPGHSR;TSVLGGGEDGIEPVS(0.994)PPEGMT(0.006)EPGHSR;TSVLGGGEDGIEPVS(1)PPEGMTEPGHSR;TSVLGGGEDGIEPVS(0.998)PPEGMT(0.002)EPGHSR;TSVLGGGEDGIEPVS(0.977)PPEGMT(0.023)EPGHS(0.001)R ;;;;; 178.66 4.08E-14 89295700 3866.214 5183.52 3914.39 4676.9 5528.16 6367.1 5383.19 5175.03 6667.08 4617.25 TRUE FALSE FALSE 4272.880127 5351.469449 4447.822684 4767.428162 5104.593575 5824.58726 4777.459293 5042.660226 6620.683247 4816.322244 0.887166579 1.111111171 0.92348943 0.989848254 1.059852999 1.209343346 0.99193099 1.046993945 1.37463461 1 12.23371621 -5.799593176 3.533059582 0.958797709 1.082157118 0 0.151672668 0.204689673 5.302044997 0.011853312 0.023237325 1.59E-06 5.799593176 0.123359409 TSVPS(ph)PEQPQPYR ddPTM_HeLa_SAHA_4h_R1 1 TSVPSPEQPQPYR 13 0 Q8TEH3 Q8TEH3 DENND1A DENN domain-containing protein 1A 1 0 TS(0.002)VPS(0.998)PEQPQPYR 169.58 2.75E-05 9950300 1004.1 884.33 959.26 1130.4 1021.6 1175.5 1081.6 1031.5 1094.6 1188.9 TRUE FALSE FALSE 1109.715845 912.9828722 1089.982957 1152.280527 943.3252287 1075.340787 959.8955214 1005.115724 1086.982589 1240.159297 0.89481718 0.736181936 0.878905605 0.929139127 0.760648435 0.86709892 0.774009858 0.810473079 0.876486264 1 10.27630973 -8.352752338 0.422913301 1.019538411 0.811243046 0.204599747 0.069541069 0.646427776 0.252176192 0.057353821 0.023462368 4.44E-09 8.352752338 -0.208295365 TSVS(ph)PAPDK ddPTM_HeLa_SAHA_4h_R1 2 TSVSPAPDK 9 0 O75362 O75362 ZNF217 Zinc finger protein 217 1 0 T(0.119)S(0.011)VS(0.87)PAPDK;T(0.001)SVS(0.998)PAPDK ; 131.42 0.0018816 29609000 7612.1 8495.5 6318.1 7567.1 8418.3 9589.4 9797.9 8183.9 8508.6 7845.6 TRUE FALSE FALSE 8412.775604 8770.759774 7179.097765 7713.572163 7773.291673 8772.329172 8695.414505 7974.567688 8449.38796 8183.862211 1.027971316 1.071714008 0.877226129 0.942534462 0.94983169 1.071905776 1.062507442 0.974425947 1.032445041 1 12.99856614 -3.922655172 0.003175207 1.32961818 0.671868844 0.002142627 0.061245816 911818.0456 414.843505 41896.59562 44061.43213 0.000119494 3.922655172 -0.657749336 TSVSQNVIPSS(ph)AQK ddPTM_HeLa_SAHA_4h_R1 2 TSVSQNVIPSSAQK 14 0 H0Y8J2;Q03188;Q03188-2 H0Y8J2 CENPC Centromere protein C 1 0 TSVS(0.021)QNVIPS(0.227)S(0.753)AQK;TSVSQNVIPS(0.062)S(0.938)AQK ; 236.12 6.37E-25 20345200 4349.5 4321.5 3116.3 4107.2 4139.3 4100.8 4161.9 4462.5 4250.9 4026.7 TRUE FALSE FALSE 4807.000366 4461.519435 3540.973135 4186.700795 3822.147728 3751.38877 3693.592058 4348.355712 4221.317641 4200.310743 1.144439224 1.062187945 0.843026469 0.996759776 0.909967848 0.893121723 0.87936162 1.035246194 1.005001272 1 12.03628035 -6.82945716 9.635615173 1.069834668 0.925153934 0.470549291 0.064837006 0.224672866 30.06552922 0.011528639 0.015166121 1.48E-07 6.82945716 -0.144680735 TSVSSVSAS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 2 TSVSSVSASPSR 12 0 P12036-2;P12036 P12036-2 NEFH Neurofilament heavy polypeptide 1 0 TSVSSVSAS(0.995)PS(0.005)R;TSVSSVSAS(0.993)PS(0.007)R ; 194.06 3.06E-07 24721000 2786.4 3590.4 2811.7 3337.7 3543.6 3683.2 3518.1 2683.5 3693.7 2994.1 TRUE FALSE FALSE 3079.486336 3706.731316 3194.863833 3402.30601 3272.090134 3369.370639 3122.234129 2614.859956 3667.995241 3123.190304 0.986006627 1.186841324 1.022948819 1.08936878 1.047675555 1.078823354 0.999693847 0.837240034 1.174438598 1 11.60880476 -4.276440948 4.043001417 1.024893399 0.823349228 0.359339615 0.076408474 0.162678028 5.584256123 0.009163154 0.093070806 5.29E-05 4.276440948 -0.201544171 TT(ph)KSPSDSGYSYETIGK ddPTM_HeLa_SAHA_4h_R1 1 TTKSPSDSGYSYETIGK 17 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.289)T(0.351)KS(0.289)PS(0.019)DS(0.047)GYS(0.005)YETIGK 97.69 0.003677 72006000 2349.4 2291.8 2149.9 2430 2557.7 2654.4 2753.4 2688.3 2576.3 1873.1 TRUE FALSE FALSE 2596.520671 2366.055824 2442.877176 2477.036164 2361.729579 2428.230187 2443.580185 2619.537179 2558.371319 1953.858508 1.3289195 1.210965796 1.250283563 1.267766399 1.20875159 1.24278712 1.250643368 1.340699528 1.309394364 1 10.93211028 -9.37421851 0.972724857 0.991725773 1.263128842 0 0.103139545 0.178238518 0.286783395 0.035306173 0.008070998 4.22E-10 9.37421851 0.271403069 TT(ph)PDQELAPASEPVWERPWSVEEIR ddPTM_HeLa_SAHA_4h_R1 1 TTPDQELAPASEPVWERPWSVEEIR 25 1 E7ESD2;Q641Q2-2;Q641Q2;A0A087WYF6;Q5T1D7 E7ESD2 FAM21A WASH complex subunit FAM21A 1 0 T(0.45)T(0.55)PDQELAPASEPVWERPWSVEEIR 116.2 3.81E-07 3152000 149.55 245.5 57.334 173.79 143.05 180.77 328.44 0 0 118.17 TRUE FALSE FALSE 165.2803552 253.4543611 65.14717894 177.1539568 132.0895399 165.367379 291.4830668 0 0 123.264887 1.340855122 2.056176477 0.528513679 1.437181026 1.071590971 1.341561113 2.364688549 0 0 1 6.945618085 -9.156531898 1.081417132 1.01187189 1.304433055 0.070281051 0.715031702 1.557193898 3.451967525 0.312602724 0.105326552 6.97E-10 9.156531898 0.292561165 TT(ph)PNSGDVQVTEDAVR ddPTM_HeLa_SAHA_4h_R1 1 TTPNSGDVQVTEDAVR 16 0 P35269;M0QXD6 P35269 GTF2F1 General transcription factor IIF subunit 1 1 0 T(0.216)T(0.784)PNSGDVQVTEDAVR 167.35 2.54E-06 13247000 846.2 988.12 743.09 1170.1 1101.3 1612.1 1179.5 886.58 1759.8 1263.6 TRUE FALSE FALSE 935.2071985 1020.135736 844.3544354 1192.748977 1016.918632 1474.740011 1046.779556 863.9025674 1747.553409 1318.07998 0.709522345 0.773955869 0.640594234 0.904913962 0.771515119 1.118854723 0.794169983 0.655424997 1.325832601 1 10.3642222 -9.470328446 1.221901299 0.999455029 0.794114196 0.354334111 0.167960533 0.530741409 1.423567951 0.090477275 0.022513297 3.39E-10 9.470328446 -0.205340833 TT(ph)SPPEVSGYSYEK ddPTM_HeLa_SAHA_4h_R1 1 TTSPPEVSGYSYEK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.026)T(0.904)S(0.065)PPEVS(0.004)GYS(0.001)YEK 102.5 0.0040416 0 1134.5 1220.1 892.32 1082.8 1405.2 1383.9 1248 1183.1 1196.8 865.6 TRUE FALSE FALSE 1253.831915 1259.632041 1013.920723 1103.75916 1297.53388 1265.983934 1107.571755 1152.838015 1188.471371 902.9202521 1.388640816 1.395064556 1.122934966 1.222432609 1.437041507 1.40209939 1.226655126 1.276788301 1.316252868 1 9.818454761 -9.35334927 0.999345805 0.994027268 1.312727578 0 0.134547511 0.324344947 0.562529797 0.075600724 0.018307647 4.43E-10 9.35334927 0.31870031 TT(ph)SSANNPNLMYQDECDR ddPTM_HeLa_SAHA_4h_R1 1 TTSSANNPNLMYQDECDR 18 0 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 1 0 T(0.203)T(0.675)S(0.114)S(0.008)ANNPNLMYQDECDR 120.79 0.00013643 0 153.72 217.08 219.92 282.71 418.43 416.13 316.41 240.62 248 335.56 TRUE FALSE FALSE 169.8889749 224.1135344 249.8895523 288.1822609 386.3699838 380.6733829 280.8067141 234.4652888 246.2741478 350.0276338 0.48535875 0.640273832 0.713913783 0.823312885 1.103827088 1.087552371 0.802241557 0.669847938 0.703584872 1 8.451325013 -5.996713445 24.74732746 0.738620011 0.925458803 0.24365933 0.168101032 146.3208001 1101750.884 0.033974576 0.061355727 1.01E-06 5.996713445 0.186838792 TT(ph)SSSDLTTSSSSSGPR ddPTM_HeLa_SAHA_4h_R1 1 TTSSSDLTTSSSSSGPR 17 0 Q5QP82;A0A0A0MQT4 Q5QP82 DCAF10 DDB1- and CUL4-associated factor 10 1 0 T(0.012)T(0.49)S(0.49)S(0.008)SDLTTSSSSSGPR 160.63 9.22E-06 2572800 921.11 811.09 797.63 860.59 1240.2 1114.8 1105.6 1351.9 983.61 832.73 TRUE FALSE FALSE 1017.996576 837.3698482 906.3268625 877.2479639 1145.176144 1019.812768 981.1949782 1317.320356 976.7649779 868.6330656 1.171952366 0.964008718 1.043394384 1.009917765 1.31836582 1.174043228 1.129585111 1.516544106 1.124485144 1 9.762603062 -1 0.636935979 1.072817709 33.44539682 0.608676183 0.099438741 105.54129 0.662149818 0.018230532 4813.914858 0.1 1 32.37257911 TTAAHSLVGTPYYMS(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 TTAAHSLVGTPYYMSPER 18 0 Q8TDX7 Q8TDX7 NEK7 Serine/threonine-protein kinase Nek7 1 0 TTAAHSLVGTPYYMS(1)PER 114.75 0.00021637 0 1207.8 1294.3 843.9 1467.7 1335.4 1467.6 1551.5 1114.8 1506.6 1233.6 TRUE FALSE FALSE 1334.841946 1336.236169 958.9022972 1496.109456 1233.08194 1342.552224 1376.921137 1086.28503 1496.115448 1286.786533 1.037345287 1.03842878 0.74519143 1.162671055 0.958264567 1.043337173 1.070046275 0.844184332 1.162675712 1 10.32955703 -4.248136591 24.01470633 1.011232099 0.844184142 0.18057115 0.11202218 1499.671807 2707182.945 0.012549977 0.306654735 5.65E-05 4.248136591 -0.167047957 TTAGS(ph)VDWTDQLGLR ddPTM_HeLa_SAHA_4h_R1 3 TTAGSVDWTDQLGLR 15 0 Q9C0C2;Q9C0C2-2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 T(0.027)T(0.097)AGS(0.865)VDWT(0.012)DQLGLR;T(0.043)T(0.043)AGS(0.698)VDWT(0.216)DQLGLR;TT(0.002)AGS(0.956)VDWT(0.042)DQLGLR ;; 153.94 3.46E-05 21913600 2210.06 2798.44 2693.48 2619.01 2737.36 3109.7 3127.82 2791.28 2623.92 3162.58 TRUE FALSE FALSE 2442.524251 2889.111292 3060.533427 2669.704726 2527.624068 2844.736065 2775.869462 2719.883099 2605.659927 3298.934301 0.740397967 0.875771091 0.927733973 0.809262775 0.766194121 0.862319709 0.841444299 0.824473254 0.78984899 1 11.68778433 -9.518689537 1.25444597 1.000620807 0.823327899 0 0.081610253 0.268872353 0.753204701 0.040963886 0.009702326 3.03E-10 9.518689537 -0.177292908 TTAS(ph)PSVR ddPTM_HeLa_SAHA_4h_R1 1 TTASPSVR 8 0 Q9Y3P9;Q9Y3P9-2 Q9Y3P9 RABGAP1 Rab GTPase-activating protein 1 1 0 T(0.001)TAS(0.992)PS(0.007)VR 128.6 0.0021974 24178000 3491 3821.5 2244.4 3943.3 4430.4 6326.9 3860.9 3536.8 4847 4774.8 TRUE FALSE FALSE 3858.199397 3945.319107 2550.255144 4019.628274 4090.943709 5787.812526 3426.461371 3446.333777 4813.269332 4980.664995 0.774635395 0.792126977 0.512031053 0.807046504 0.821364961 1.162056177 0.687952587 0.691942498 0.966390901 1 12.28212266 -9.101261019 0.886578393 0.998959846 0.785167351 0.212882419 0.154304147 0.754520135 1.080458889 0.102181105 0.030704565 7.92E-10 9.101261019 -0.213792496 TTDGYLLR ddPTM_HeLa_SAHA_4h_R1 1 TTDGYLLR 8 0 D6R9B6;H0Y9Y4;D6RAT0;P61247;D6RG13;D6RB09;E9PFI5;D6RAS7;H0Y8L7;D6RED7 D6R9B6 RPS3A 40S ribosomal protein S3a 0 0 129.68 0.012137 8786300 2299.4 2118.7 2554.3 2682.3 2371.3 1815.2 2287.8 1765 1635.7 1915.8 FALSE FALSE TRUE 2541.261442 2187.34727 2902.386702 2734.219795 2189.611506 1660.534748 2030.370723 1719.853856 1624.317031 1998.399514 1.271648349 1.094549541 1.452355589 1.368204794 1.095682566 0.830932322 1.015998407 0.86061563 0.81280896 1 10.96462932 -5.434316151 5.510370082 1.172675714 0.916966339 0.306982443 0.176780923 0.202346542 9.762108344 0.023605192 0.053309186 3.68E-06 5.434316151 -0.255709375 TTEEQVQAS(ph)TPCPR ddPTM_HeLa_SAHA_4h_R1 1 TTEEQVQASTPCPR 14 0 Q14137 Q14137 BOP1 Ribosome biogenesis protein BOP1 1 0 TTEEQVQAS(0.5)T(0.5)PCPR 217.19 2.27E-17 6380700 1000.1 1123.4 1028.9 983.71 1162.2 1384.1 1503.4 1403.5 1143.4 1046 TRUE FALSE FALSE 1105.295107 1159.798897 1169.113134 1002.75113 1073.152487 1266.166893 1334.233475 1367.600502 1135.442986 1091.098179 1.013011595 1.062964745 1.071501315 0.919029239 0.983552633 1.160451844 1.222835397 1.253416538 1.040642362 1 10.09156521 -5.084815579 3.12978207 1.007744766 1.234455629 0.829717703 0.042170069 0.071122117 1.335231461 0.006044638 0.018236567 8.23E-06 5.084815579 0.226710863 TTEEQVQAST(ph)PCPR ddPTM_HeLa_SAHA_4h_R1 3 TTEEQVQASTPCPR 14 0 Q14137 Q14137 BOP1 Ribosome biogenesis protein BOP1 1 0 TTEEQVQAS(0.043)T(0.957)PCPR;TTEEQVQAS(0.002)T(0.998)PCPR;TTEEQVQAST(1)PCPR ;; 222.56 1.15E-17 22514500 4857.5 4631.1 3962.48 4399.88 5257.5 5143.2 5253.6 5147.4 4268.39 4476.54 TRUE FALSE FALSE 5368.434137 4781.150679 4502.466139 4485.04604 4854.671486 4704.970425 4662.451101 5015.736961 4238.685926 4669.545547 1.149669509 1.023900641 0.964219343 0.960488766 1.039645387 1.007586365 0.998480699 1.074138138 0.90772986 1 12.18906643 -7.016819705 24.31999168 1.071525049 1.005333216 0 0.069076845 629.4910019 910195.4655 0.010316899 0.012813371 9.62E-08 7.016819705 -0.066191833 TTFDEAMADLHTLSEDSYK ddPTM_HeLa_SAHA_4h_R1 2 TTFDEAMADLHTLSEDSYK 19 0 P31947-2;P31947 P31947-2 SFN 14-3-3 protein sigma 0 0 ; ; 149.74 7.30E-11 4069100 3091.9 2687.8 2465.5 2874.5 2824.6 3599.1 2864.3 2773.8 3780.1 2992.2 FALSE FALSE TRUE 3417.120228 2774.886484 2801.4855 2930.140104 2608.179758 3292.436432 2542.001426 2702.850212 3753.793976 3121.208385 1.09480682 0.889042365 0.89756439 0.938783875 0.835631408 1.054859537 0.814428616 0.865962755 1.202673296 1 11.60788897 -7.252003671 24.89698125 1.044769888 0.901157174 0.525085559 0.082277279 382.1591415 1008362.669 0.011128172 0.013531878 5.60E-08 7.252003671 -0.143612713 TTFS(ph)PPVVAATVK ddPTM_HeLa_SAHA_4h_R1 2 TTFSPPVVAATVK 13 0 A0A1B0GV05;Q684P5-3;Q684P5-2;Q684P5 A0A1B0GV05 RAP1GAP2 Rap1 GTPase-activating protein 2 1 0 T(0.007)TFS(0.993)PPVVAATVK;T(0.077)T(0.05)FS(0.873)PPVVAATVK ; 133.04 0.00063362 5471000 2023.41 2296.7 1954.29 2224.89 2166.7 2259.8 2791.4 1932.51 2216.29 2159.12 TRUE FALSE FALSE 2236.241548 2371.114587 2220.610464 2267.955963 2000.687914 2067.252327 2477.304325 1883.079192 2200.866657 2252.21023 0.992909773 1.05279452 0.985969442 1.006991236 0.888322008 0.917877159 1.099943643 0.836102761 0.977203029 1 11.13712578 -5.822087243 24.99974314 1.001008511 0.946038826 0.192221334 0.065934839 97.6451048 40249.8819 0.008845598 0.016034014 1.51E-06 5.822087243 -0.054969684 TTGFYSGFSEVAEK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 TTGFYSGFSEVAEKR 15 1 Q4LE39-2;Q4LE39;H7C5R6;Q4LE39-3;H0Y7Y8;Q4LE39-4 Q4LE39-2 ARID4B AT-rich interactive domain-containing protein 4B 0 1 TTGFYSGFSEVAEK(1)R 113.69 0.0031075 0 0 0 0 0 0 379.32 0 610.81 0 0 FALSE TRUE FALSE 0 0 0 0 0 346.999802 0 595.1863646 0 0 0 TTGIVMDSGDGVTHTVPIYEGYALPHAILR ddPTM_HeLa_SAHA_4h_R1 3 TTGIVMDSGDGVTHTVPIYEGYALPHAILR 30 0 P60709;A0A2R8Y793;A0A2R8YEA7;P63261;I3L3I0;I3L1U9;I3L4N8 P60709;P63261 ACTB;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;; ;; 173.68 3.52E-35 183908900 2013.81 2360.43 1811.38 2120.18 2865.31 1735.67 2477.66 1035.45 1996.7 1941.98 FALSE FALSE TRUE 2225.631775 2436.909481 2058.225433 2161.21915 2645.770567 1587.781151 2198.867176 1008.964688 1982.804802 2025.708262 1.098693142 1.202991332 1.016052248 1.06689556 1.306096548 0.783815311 1.085480677 0.498079959 0.978820514 1 10.9842107 -4.017993108 1.967775787 1.063449795 7.79E-20 0.605772201 0.13402642 0.910036257 2.047322458 0.017328887 2.1905779 9.59E-05 4.017993108 -1.063449795 TTGQVVAMK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 TTGQVVAMKK 10 1 E5RIU6;A0A087WZZ9;A0A024QZP7;P06493-2;P06493 E5RIU6 CDK1;CDC2 Cyclin-dependent kinase 1 0 1 ; TTGQVVAMK(1)K;TTGQVVAMK(1)K 155.06 1.25E-07 22738000 6992.1 8310.5 8206.6 9174.1 8878.7 7720.4 9661.2 6488.6 4807 6595.6 FALSE TRUE FALSE 7727.561159 8579.765653 9324.95271 9351.677971 8198.415924 7062.578486 8574.096349 6322.631007 4773.547696 6879.968594 1.123197156 1.247064654 1.35537722 1.359261724 1.191635661 1.026542257 1.246240623 0.91899126 0.693832774 1 12.74818626 -8.073297994 1.183000669 1.027271217 1.196429303 0.294828425 0.166872064 0.443337411 1.291494328 0.034527963 0.02756366 8.45E-09 8.073297994 0.169158086 TTGT(ph)PPDSSLVTYELHSRPEQDK ddPTM_HeLa_SAHA_4h_R1 1 TTGTPPDSSLVTYELHSRPEQDK 23 1 Q13561;Q13561-3;Q13561-2;H0YI98;F8VW18;F8W1I6 Q13561 DCTN2 Dynactin subunit 2 1 0 T(0.3)T(0.3)GT(0.4)PPDSSLVTYELHSRPEQDK 76.796 0.00032867 7386000 2829.5 3217.8 2241.3 2757.3 3769.7 4764.1 3697.8 3158.6 4733.9 3073.7 TRUE FALSE FALSE 3127.119792 3322.058831 2546.732692 2810.671529 3480.8664 4358.171878 3281.713812 3077.807586 4700.956404 3206.222249 0.975328455 1.036128681 0.794309469 0.876630286 1.085659736 1.359285645 1.023545331 0.959948296 1.466197924 1 11.64665872 -5.578577226 9.004868976 0.969241294 1.124563548 0 0.195960748 0.310072382 46.78155608 0.01716113 0.034388347 2.64E-06 5.578577226 0.155322254 TTHLAGALS(ph)PGEAWPFESV ddPTM_HeLa_SAHA_4h_R1 2 TTHLAGALSPGEAWPFESV 19 0 Q9Y3X0 Q9Y3X0 CCDC9 Coiled-coil domain-containing protein 9 1 0 TTHLAGALS(1)PGEAWPFESV;T(0.001)T(0.001)HLAGALS(0.997)PGEAWPFES(0.002)V ; 118.21 0.00041833 209243000 753.4 715.79 660.33 641.91 883.64 151.338 854.26 922.53 785.66 881.89 TRUE FALSE FALSE 832.6460687 738.9820656 750.3163335 654.3350963 815.9356941 138.443151 758.1364165 898.9330184 780.1925281 919.9125938 0.905136069 0.803317696 0.815638723 0.711301379 0.886970892 0.150495984 0.824139621 0.977193947 0.848115933 1 9.845352979 -7.031107308 0.746806126 0.975789077 0.685476693 0.137439343 0.212251051 0.634800757 0.723743616 0.049716666 0.068816008 9.31E-08 7.031107308 -0.290312384 TTHS(ph)PYEER ddPTM_HeLa_SAHA_4h_R1 2 TTHSPYEER 9 0 Q8NDT2;Q8NDT2-2 Q8NDT2 RBM15B Putative RNA-binding protein 15B 1 0 T(0.227)T(0.227)HS(0.547)PYEER;T(0.002)THS(0.997)PYEER ; 115.57 0.0045728 56955000 6434.8 5963.6 4235.5 6093.2 6458.4 319.34 6992.4 6814.2 6436.3 6136.9 TRUE FALSE FALSE 7111.641788 6156.824553 4812.691882 6211.142697 5963.558787 292.1304354 6205.596749 6639.902631 6391.509264 6401.491792 1.110935079 0.961779653 0.751807866 0.970264885 0.931588914 0.045634743 0.969398532 1.037243012 0.998440593 1 12.64419243 -6.571698949 1.13038939 1.052602585 0.740148594 0.147775562 0.268276063 0.5618476 1.436144397 0.048625799 0.082316416 2.68E-07 6.571698949 -0.312453991 TTIPEEEEEEEEAAGVVVEEELFHQQGT(ph)PR ddPTM_HeLa_SAHA_4h_R1 8 TTIPEEEEEEEEAAGVVVEEELFHQQGTPR 30 0 P20700 P20700 LMNB1 Lamin-B1 1 0 TTIPEEEEEEEEAAGVVVEEELFHQQGT(1)PR;TTIPEEEEEEEEAAGVVVEEELFHQQGT(1)PR;TTIPEEEEEEEEAAGVVVEEELFHQQGT(1)PR;TTIPEEEEEEEEAAGVVVEEELFHQQGT(1)PR;TTIPEEEEEEEEAAGVVVEEELFHQQGT(1)PR;TTIPEEEEEEEEAAGVVVEEELFHQQGT(1)PR;TTIPEEEEEEEEAAGVVVEEELFHQQGT(1)PR;TTIPEEEEEEEEAAGVVVEEELFHQQGT(1)PR ;;;;;;; 156.7 5.17E-15 173975700 4869.7 6102.88 5626.38 5812 7308.23 7189.29 7476.12 6196.42 6833.32 6065.49 TRUE FALSE FALSE 5381.917389 6300.617316 6393.113765 5924.499664 6748.274996 6576.722046 6634.887302 6037.924549 6785.76637 6327.002958 0.850626659 0.995829678 1.010448993 0.936383261 1.06658319 1.03946878 1.048661957 0.954310372 1.072508803 1 12.62730655 -7.027028763 23.7510567 0.929134452 1.011039408 0 0.06770707 397.8023176 349561.4274 0.010855853 0.013321334 9.40E-08 7.027028763 0.081904956 TTIPEEEEEEEEAAGVVVEEELFHQQGTPR ddPTM_HeLa_SAHA_4h_R1 4 TTIPEEEEEEEEAAGVVVEEELFHQQGTPR 30 0 P20700 P20700 LMNB1 Lamin-B1 0 0 ;;; ;;; 251.1 2.16E-59 20872600 2973 2497.36 2236.54 2876.21 3172.35 3387.82 3020.75 3554.87 3364.82 2554.78 FALSE FALSE TRUE 3285.713781 2578.276103 2541.324024 2931.883204 2929.285228 3099.158677 2680.84726 3463.941573 3341.403944 2664.929069 1.232946054 0.96748395 0.953617886 1.100173073 1.099198197 1.162942276 1.005973214 1.299825055 1.253843482 1 11.37988142 -4.246417669 24.10554296 1.089076837 1.299825304 0.287631447 0.100748663 1825.407876 2929177.831 0.014693325 0.433770206 5.67E-05 4.246417669 0.210748467 KADGYNQPDSK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 KADGYNQPDSKR 12 2 O43390;B4DT28;O43390-4;O43390-3;O43390-2;O60506-2;O60506 O43390;O60506-2 HNRNPR;SYNCRIP Heterogeneous nuclear ribonucleoprotein R;Heterogeneous nuclear ribonucleoprotein Q 0 1 KADGYNQPDSK(1)R 102.33 0.0046346 590330 203.04 235.05 179.47 287.94 272.13 218.33 379.17 646.94 208.8 203.57 FALSE TRUE FALSE 224.3966788 242.6657742 203.927237 293.5134951 251.2794582 199.7270557 336.5047937 630.3922116 207.3469438 212.3468989 1.05674573 1.14277993 0.960349494 1.382235844 1.183344138 0.940569684 1.584693703 2.968690453 0.976453835 1 7.73027923 -4.288789991 2.37675048 1.06250373 3.354524782 0.949183806 0.131545157 0.07588855 0.534489027 0.018286884 0.347504222 5.14E-05 4.288789991 2.292021052 up TTKPPYPGS(ph)PVK ddPTM_HeLa_SAHA_4h_R1 1 TTKPPYPGSPVK 12 1 Q96T17-2;Q96T17;Q96T17-5;Q96T17-4 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 TTKPPY(0.001)PGS(0.999)PVK 88.133 0.0084586 73809000 6955 8249.1 5759.8 8222.4 8340.8 9905.4 8540.2 7108.6 9253.6 7684.1 TRUE FALSE FALSE 7686.558811 8516.376252 6544.715548 8381.556442 7701.729706 9061.404194 7579.234219 6926.772305 9189.203444 8015.399156 0.958973928 1.062501828 0.816517733 1.045681728 0.960866646 1.130499432 0.945584128 0.864183077 1.146443647 1 12.96855865 -9.610752042 1.389305859 1.000111026 0.974617531 0.048334637 0.098661174 2.488501504 8.560180045 0.05943228 0.013410669 2.45E-10 9.610752042 -0.025493495 TTKPPYPGS(ph)PVKYR ddPTM_HeLa_SAHA_4h_R1 1 TTKPPYPGSPVKYR 14 2 Q96T17-2;Q96T17;Q96T17-5;Q96T17-4 Q96T17-2 MAP7D2 MAP7 domain-containing protein 2 1 0 TTKPPY(0.004)PGS(0.985)PVKY(0.011)R 53.519 0.02177 9176200 3194 2713.6 3164.3 3159.2 3008 3340.1 3486 3496.3 3330.8 3129.6 TRUE FALSE FALSE 3529.959575 2801.52242 3595.514325 3220.350884 2777.52769 3055.504689 3093.746105 3406.869709 3307.620692 3264.532372 1.081306347 0.858169594 1.101387248 0.986466212 0.850819466 0.9359701 0.947684309 1.043601141 1.013198926 1 11.67266063 -5.998410506 24.99934643 1.02800452 0.940947817 0.126965243 0.075368729 61.34117724 964726.5196 0.011071164 0.019967676 1.00E-06 5.998410506 -0.087056703 TTKS(ph)PSDSGYSYETIGK ddPTM_HeLa_SAHA_4h_R1 3 TTKSPSDSGYSYETIGK 17 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.045)T(0.045)KS(0.883)PS(0.023)DS(0.004)GYSYETIGK;T(0.17)T(0.113)KS(0.615)PS(0.102)DSGYSYETIGK;T(0.174)T(0.087)KS(0.712)PS(0.017)DS(0.011)GYSYETIGK ;; 123.6 0.00026742 225102000 14373.9 13669.3 12942.8 13120.3 15008.2 15982.3 15379.9 16263 13646 13025.7 TRUE FALSE FALSE 15885.81275 14112.19429 14706.57738 13374.26238 13858.27496 14620.51813 13649.31317 15847.01601 13551.03637 13587.30167 1.169166118 1.038631115 1.082376599 0.984320706 1.019943127 1.076042799 1.004563931 1.16631075 0.997330942 1 13.72997136 TTKT(ph)PEDGDYSYEIIEK ddPTM_HeLa_SAHA_4h_R1 2 TTKTPEDGDYSYEIIEK 17 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.234)T(0.047)KT(0.72)PEDGDYSYEIIEK;T(0.082)T(0.021)KT(0.897)PEDGDYSYEIIEK ; 95.624 0.0040975 103336000 8912.5 8444.1 8562.2 7577.5 9163.4 9520.1 9489.8 8280.4 8739.3 8331.9 TRUE FALSE FALSE 9849.957642 8717.69438 9729.012026 7724.17347 8461.302272 8708.933921 8421.982728 8068.599358 8678.4825 8691.128984 1.133334652 1.00305661 1.119418667 0.888742243 0.973556173 1.002048633 0.969032072 0.928371834 0.998544897 1 13.08532788 -6.265410296 24.97282143 1.062966049 0.957216097 0.457381124 0.052706572 247.650397 1557455.988 0.009142524 0.0142901 5.43E-07 6.265410296 -0.105749952 TTLTAAITK ddPTM_HeLa_SAHA_4h_R1 1 TTLTAAITK 9 0 P49411;H3BNU3 P49411 TUFM "Elongation factor Tu, mitochondrial" 0 0 101.11 0.011623 2547300 836.26 947.23 1633.3 760.89 1243.1 320.61 1263.6 352.19 171.87 422.99 FALSE FALSE TRUE 924.2216637 977.9208735 1855.877618 775.6181262 1147.853947 293.2922243 1121.416402 343.1814898 170.6739427 441.227169 2.094661727 2.21636595 4.206172577 1.757865745 2.601503324 0.664719321 2.541585109 0.777788663 0.386816485 1 8.785377819 -5.265846297 24.96587696 1.869808406 1.449386468 0.06684415 1.067363265 1239.593953 7022513.592 0.150992181 0.34882374 5.42E-06 5.265846297 -0.420421938 TTNS(ph)SHANGAAQAPR ddPTM_HeLa_SAHA_4h_R1 1 TTNSSHANGAAQAPR 15 0 E7EMW7;O95071-2;O95071 E7EMW7 UBR5 E3 ubiquitin-protein ligase UBR5 1 0 T(0.046)T(0.007)NS(0.934)S(0.013)HANGAAQAPR 101.2 0.0040414 271930 0 0 0 0 0 0 0 0 0 118.43 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 123.5360969 0 0 0 0 0 0 0 0 0 1 6.948788844 -9.157829429 0.677150941 1.083625666 2.50E-23 0 0.307667284 0.066591669 0.049088893 0.041658111 0.0090835 6.95E-10 9.157829429 -1.083625666 TTPATGEQS(ph)PGAR ddPTM_HeLa_SAHA_4h_R1 6 TTPATGEQSPGAR 13 0 O00308-4;O00308-2;O00308 O00308-4 WWP2 NEDD4-like E3 ubiquitin-protein ligase WWP2 1 0 TTPATGEQS(1)PGAR;TTPATGEQS(1)PGAR;TTPATGEQS(1)PGAR;TTPATGEQS(1)PGAR;TTPATGEQS(1)PGAR;TTPATGEQS(1)PGAR ;;;;; 160.46 5.96E-05 124582500 6117.64 5917.43 6445.69 6482.82 6306.71 7078.97 7479.93 6546.84 6056.29 5978.65 TRUE FALSE FALSE 6761.121444 6109.158615 7324.075065 6608.304355 5823.491242 6475.801931 6638.26859 6379.381313 6014.143785 6236.41886 1.084135238 0.979594019 1.17440397 1.059631257 0.933787703 1.038384701 1.064435975 1.022923805 0.96435854 1 12.60650211 -4.900689242 15.77181043 1.03962658 1.045603425 0 0.065923033 16.96551249 2628.622903 0.008863195 0.02659249 1.26E-05 4.900689242 0.005976844 TTPES(ph)PPYSSGSYDSIK ddPTM_HeLa_SAHA_4h_R1 2 TTPESPPYSSGSYDSIK 17 0 A0A087WTU5;A0A087X0N3;Q96MY1-2;Q96MY1 A0A087WTU5 NOL4L Nucleolar protein 4-like 1 0 TTPES(1)PPYSSGSYDSIK;T(0.005)T(0.006)PES(0.98)PPYS(0.005)S(0.004)GSYDSIK ; 193.54 3.14E-12 96892000 3606.1 4171.5 3455.8 3675.5 3845.7 4783.7 4677.4 4024.2 4729 3637.8 TRUE FALSE FALSE 3985.406143 4306.659337 3926.738427 3746.644617 3551.043297 4376.101848 4151.086642 3921.266791 4696.090504 3794.643361 1.050271597 1.134931251 1.03481093 0.987350921 0.935804227 1.153231393 1.093933276 1.033368994 1.237557804 1 11.88974859 -8.919831611 0.964182049 1.002611545 1.052679342 0 0.095841634 1.030818351 1.860925019 0.031065818 0.012264889 1.20E-09 8.919831611 0.050067797 VIGAK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 VIGAKK 6 1 Q9UQE7 Q9UQE7 SMC3 Structural maintenance of chromosomes protein 3 0 1 ; VIGAK(1)K;VIGAK(1)K 91.26 0.013338 98427000 14649.9 11453.8 12628.7 20948.1 17140 27372 37522 50815 11486.3 15228.2 FALSE TRUE FALSE 16190.8437 11824.91064 14349.67347 21353.58077 15826.7369 25039.75161 33299.92581 49515.22588 11406.3659 15884.76223 1.019268873 0.744418485 0.903360923 1.344280793 0.996347108 1.576337829 2.096343989 3.117152474 0.718069666 1 13.95535587 -4.123137654 0.891336379 0.986757261 4.761732534 0.946761534 0.164026179 0.340465997 0.170609253 0.021228153 1.322095331 7.53E-05 4.123137654 3.774975274 up TTPPTQKPPS(ph)PPMSGK ddPTM_HeLa_SAHA_4h_R1 2 TTPPTQKPPSPPMSGK 16 1 H7C3Q7;H0Y6B5;B7Z836;E7EW77;E7EP65;A0A0C4DG21;F8WAL6;Q9NYB9-3;Q9NYB9-2;Q9NYB9-4;Q9NYB9;E9PEZ7 H7C3Q7 ABI2 Abl interactor 2 1 0 TT(0.001)PPT(0.003)QKPPS(0.994)PPMS(0.002)GK;TTPPTQKPPS(0.965)PPMS(0.035)GK ; 78.401 0.00824 204062000 5834.3 6541.4 5886.8 5962.6 6466.8 6749.3 6961.3 7173.7 6804 6420.3 TRUE FALSE FALSE 6447.978443 6753.345652 6689.022447 6078.014745 5971.315181 6174.221669 6177.996203 6990.207141 6756.65041 6697.110553 0.96280006 1.00839692 0.998792299 0.907557774 0.891625595 0.921923212 0.922486818 1.043764633 1.00889038 1 12.70932307 -6.269839015 24.90075868 0.985462856 0.933228317 0.318824538 0.04102274 588.4333868 1744413.132 0.006240077 0.009631044 5.37E-07 6.269839015 -0.052234539 TTPQQGASGPGRS(ph)PVGQAR ddPTM_HeLa_SAHA_4h_R1 2 TTPQQGASGPGRSPVGQAR 19 1 A0A2R8YFR7;Q12774;A0A2R8YF49;H0Y895 A0A2R8YFR7 ARHGEF5 Rho guanine nucleotide exchange factor 5 1 0 TTPQQGAS(0.023)GPGRS(0.977)PVGQAR;TTPQQGASGPGRS(1)PVGQAR ; 103.24 0.00072575 9454800 700.99 577.49 754.8 568.18 722.07 760.16 827.12 758.06 625.83 752.19 TRUE FALSE FALSE 774.7233445 596.2010549 857.6602132 579.1779455 666.7451526 695.3900915 734.0502807 738.6699229 621.4747981 784.620592 0.987385945 0.759859046 1.093089095 0.738163071 0.849767594 0.886275607 0.93554807 0.94143581 0.792070466 1 9.615851389 -7.476813337 24.94965309 0.994435048 0.887946524 0 0.113355541 414.3329516 224409.853 0.014704 0.016746163 3.34E-08 7.476813337 -0.106488524 TTPS(ph)YVAFTDTER ddPTM_HeLa_SAHA_4h_R1 2 TTPSYVAFTDTER 13 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;P11142;E9PKE3;P11142-2;E9PNE6;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;P54652;E9PN25;E9PI65;P17066;P48741 A0A0G2JIW1;P11142;P17066 HSPA1B;HSPA1A;HSPA8;HSPA2;HSPA6;HSPA7 Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A;Heat shock cognate 71 kDa protein;Heat shock-related 70 kDa protein 2;Heat shock 70 kDa protein 6;Putative heat shock 70 kDa protein 7 1 0 TT(0.002)PS(0.998)YVAFTDTER;T(0.002)T(0.006)PS(0.925)Y(0.012)VAFT(0.039)DT(0.016)ER ; 164.13 4.67E-05 13770400 1075.74 973.75 1272.61 1165.93 1306.68 1647.07 1174.75 1487.08 1623.82 1287.03 TRUE FALSE FALSE 1188.891269 1005.300139 1446.034663 1188.498261 1206.562461 1506.73037 1042.564038 1449.042647 1612.519704 1342.520162 0.885566789 0.748815673 1.077104616 0.88527405 0.89872949 1.122314892 0.776572351 1.079345166 1.201113957 1 10.39072804 TTPSVVAFTADGER ddPTM_HeLa_SAHA_4h_R1 3 TTPSVVAFTADGER 14 0 P38646;D6RJI2;A0A3B3ITI4;D6RA73 P38646 HSPA9 "Stress-70 protein, mitochondrial" 0 0 ;; ;; 164.48 5.13E-05 12419300 321.636 767.067 867.34 514.43 852.05 825.87 696.57 503.67 526.12 517.81 FALSE FALSE TRUE 355.4671502 791.9204741 985.5365783 524.3875365 786.7661131 755.5012298 618.1901103 490.7868507 522.4586881 540.1353232 0.65810758 1.466151981 1.824610493 0.970844738 1.456609259 1.398725833 1.144509688 0.908636835 0.967273692 1 9.077177089 -7.258997862 24.99846073 0.8385508 1.31944487 0.359976363 0.264177537 161.9382614 1658070.871 0.046355867 0.055357972 5.51E-08 7.258997862 0.48089407 TTPSYVAFTDTER ddPTM_HeLa_SAHA_4h_R1 6 TTPSYVAFTDTER 13 0 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;P11142;E9PKE3;P11142-2;E9PNE6;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;P54652;E9PN25;E9PI65;P17066;P48741 A0A0G2JIW1;P11142;P17066 HSPA1B;HSPA1A;HSPA8;HSPA2;HSPA6;HSPA7 Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A;Heat shock cognate 71 kDa protein;Heat shock-related 70 kDa protein 2;Heat shock 70 kDa protein 6;Putative heat shock 70 kDa protein 7 0 0 ;;;;; ;;;;; 296.65 6.47E-117 399499700 6635.42 6269.02 5871.49 6585.28 6727.96 7591.64 7177.68 7075.55 7081.19 6301.82 FALSE FALSE TRUE 7333.36392 6472.140361 6671.62608 6712.747617 6212.465158 6944.789563 6370.028556 6894.567676 7031.911422 6573.522301 1.115591244 0.984577227 1.014924081 1.021179713 0.945074022 1.056479197 0.969043424 1.04883917 1.069732649 1 12.6824509 -7.221360709 24.99505666 1.054584787 1.004886573 0.27268999 0.041431076 679.6736462 423879.0046 0.008387069 0.010271914 6.01E-08 7.221360709 -0.049698214 TTQIINITMTK ddPTM_HeLa_SAHA_4h_R1 1 TTQIINITMTK 11 0 A0A087WY61;Q14980-5;Q14980-2;Q14980;H0YFY6 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 0 0 151.98 6.94E-06 0 67.54 0 185.24 154.18 94.155 50.229 143.94 66.408 0 112.9 FALSE FALSE TRUE 74.64416708 0 210.4835425 157.1643768 86.94086424 45.94920662 127.7434924 64.70937952 0 117.7676715 0.633825617 0 1.78727778 1.334529033 0.738240496 0.390168253 1.084707634 0.549466409 0 1 6.879799748 -5.540927916 24.91559914 0.872686546 0.690511675 0 0.539601045 779.5636029 1076129.663 0.0690434 0.138107062 2.88E-06 5.540927916 -0.182174871 TTQPSINES(ph)ESDPFEVVRDDFK ddPTM_HeLa_SAHA_4h_R1 1 TTQPSINESESDPFEVVRDDFK 22 1 Q76FK4-2;Q76FK4-4;Q76FK4;F5GWN9;F8WE42;F5H101 Q76FK4-2 NOL8 Nucleolar protein 8 1 0 TTQPS(0.042)INES(0.784)ES(0.173)DPFEVVRDDFK 71.071 0.0019041 3439400 597.04 476.33 808.67 659.53 553.08 802.68 733.97 652.48 501.88 645.07 TRUE FALSE FALSE 659.8394065 491.7634045 918.8713362 672.2961568 510.7031299 734.2871482 651.3817639 635.7905064 498.3873762 672.8821246 0.980616638 0.730831429 1.365575489 0.999129167 0.758978596 1.091256732 0.968047359 0.944876499 0.740675607 1 9.394209986 TTQPSINESES(ph)DPFEVVRDDFK ddPTM_HeLa_SAHA_4h_R1 1 TTQPSINESESDPFEVVRDDFK 22 1 Q76FK4-2;Q76FK4-4;Q76FK4;F5GWN9;F8WE42;F5H101 Q76FK4-2 NOL8 Nucleolar protein 8 1 0 T(0.001)T(0.001)QPS(0.071)INES(0.216)ES(0.711)DPFEVVRDDFK 72.755 0.0015562 2731700 617.59 633.33 461.95 445.38 855.55 829.38 636.43 696.47 513.76 614.69 TRUE FALSE FALSE 682.5509498 653.8503075 524.9021403 454.0009739 789.9979438 758.712158 564.8172214 678.6553059 510.1847023 641.1922941 1.064502734 1.019741369 0.818634511 0.708057439 1.232076479 1.183283338 0.880885854 1.058427109 0.795681275 1 9.324613277 -6.977604912 24.99337021 1.031073483 0.978615578 0 0.166835402 895.1529383 999006.3096 0.025054707 0.032926951 1.05E-07 6.977604912 -0.052457905 TTQSMQDFPVVDS(ph)EEEAEEEFQK ddPTM_HeLa_SAHA_4h_R1 2 TTQSMQDFPVVDSEEEAEEEFQK 23 0 Q9UBB9 Q9UBB9 TFIP11 Tuftelin-interacting protein 11 1 0 TTQSMQDFPVVDS(1)EEEAEEEFQK;T(0.001)T(0.001)QS(0.002)MQDFPVVDS(0.997)EEEAEEEFQK ; 114.03 2.42E-05 8574000 2687.23 2970.76 2768.22 3185.9 3572.9 4496.9 3349.23 3032.89 3957 3220.59 TRUE FALSE FALSE 2969.885181 3067.014573 3145.458605 3247.567701 3299.145174 4113.738821 2972.365826 2955.313065 3929.462915 3359.445396 0.884040319 0.912952649 0.936302941 0.96669757 0.982050543 1.224529152 0.884778728 0.879702664 1.169676078 1 11.71400737 -5.897656025 3.210985009 0.940661584 1.001394798 0 0.117682952 0.547954069 11.2795867 0.014751051 0.028169204 1.27E-06 5.897656025 0.060733214 TTRT(ph)PDTSTYCYETAEK ddPTM_HeLa_SAHA_4h_R1 1 TTRTPDTSTYCYETAEK 17 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.015)T(0.003)RT(0.98)PDT(0.002)STYCYETAEK 238.45 1.09E-34 53987000 2782.7 2374 2152.4 2389.5 2331.2 2253.7 2534 2753.7 2021.5 1926.4 TRUE FALSE FALSE 3075.397153 2450.919158 2445.717863 2435.752228 2152.58396 2061.672081 2248.867651 2683.264341 2007.432217 2009.456532 1.530462145 1.219692548 1.21710414 1.212144771 1.071226934 1.025984911 1.119142224 1.33531843 0.998992606 1 10.97258965 -5.955258256 4.601526299 1.250624912 1.128654951 0 0.162281893 0.470625152 22.18417971 0.031179512 0.056997783 1.11E-06 5.955258256 -0.121969961 TTRT(ph)PEEGGYSYDISEK ddPTM_HeLa_SAHA_4h_R1 4 TTRTPEEGGYSYDISEK 17 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 TTRT(1)PEEGGYSYDISEK;T(0.003)TRT(0.997)PEEGGYSYDISEK;T(0.015)T(0.003)RT(0.975)PEEGGYSYDIS(0.007)EK;TTRT(0.956)PEEGGYSYDIS(0.043)EK ;;; 202.07 9.06E-14 304837000 7847.1 6489.6 5684.9 6846 7472.5 7830.4 7877.9 8108.9 6820.2 6751.3 TRUE FALSE FALSE 8672.493982 6699.867298 6459.608566 6978.514229 6899.958664 7163.205867 6991.457959 7901.48608 6772.737673 7042.381583 1.231471751 0.951363856 0.917247736 0.990931001 0.979776313 1.017156736 0.992768977 1.12199062 0.961711261 1 12.78184768 -7.23176303 24.98872111 1.109306124 0.992753323 0.048329175 0.085755607 747.0509676 629048.6748 0.016199335 0.019838553 5.86E-08 7.23176303 -0.1165528 TTRTS(ph)DVGGYYYEK ddPTM_HeLa_SAHA_4h_R1 3 TTRTSDVGGYYYEK 14 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.001)TRT(0.059)S(0.429)DVGGY(0.405)Y(0.105)YEK;T(0.132)T(0.045)RT(0.205)S(0.618)DVGGYYYEK;T(0.165)T(0.048)RT(0.209)S(0.578)DVGGYYYEK ;; 115.26 0.0061061 37709000 8589.3 6673.4 7204.3 8276.1 9010.4 8266.9 9184.1 8795.6 6823.5 7513 TRUE FALSE FALSE 9492.761983 6889.622539 8186.064486 8436.295883 8320.025099 7562.513612 8150.680897 8570.621288 6776.014708 7836.922198 1.211287001 0.879123509 1.044550945 1.07648075 1.061644468 0.964985159 1.040035959 1.093620821 0.864627023 1 12.93607146 -7.279340193 24.99813991 1.099774409 1.025731605 0 0.105783411 1342.712988 1875067.151 0.016228303 0.018576283 5.26E-08 7.279340193 -0.074042804 TTRTSDVGGY(ph)YYEK ddPTM_HeLa_SAHA_4h_R1 1 TTRTSDVGGYYYEK 14 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.001)TRT(0.004)S(0.023)DVGGY(0.747)Y(0.222)Y(0.003)EK 100.09 0.017166 22363000 2552 2212.1 2449.2 2766.2 3103.9 2981.6 2748.9 2995.4 2536.6 2416.6 TRUE FALSE FALSE 2820.431069 2283.773491 2782.964221 2819.743801 2866.079853 2727.550906 2439.586537 2918.782005 2518.947594 2520.791453 1.118867277 0.905974784 1.104004148 1.118594637 1.136976186 1.082021642 0.967785945 1.157883173 0.99926854 1 11.29966105 -9.582926391 1.310971633 0.999198132 1.076276006 0.136450295 0.074535939 0.7807413 2.364746007 0.054394325 0.0121196 2.61E-10 9.582926391 0.077077874 TTS(ph)FFSR ddPTM_HeLa_SAHA_4h_R1 1 TTSFFSR 7 0 Q9BZ67-2;Q9BZ67-3;Q9BZ67 Q9BZ67-2 FRMD8 FERM domain-containing protein 8 1 0 T(0.042)T(0.224)S(0.734)FFSR 94.85 0.016957 3019000 1781.6 2134.5 1696.6 1990.5 2403.6 2779.1 2584.8 2685 2127.7 2013.1 TRUE FALSE FALSE 1968.996862 2203.6592 1927.803812 2029.029006 2219.436687 2542.305045 2293.951501 2616.321588 2112.893162 2099.894593 0.937664618 1.049414198 0.918047896 0.966252788 1.056927664 1.210682219 1.09241269 1.245929961 1.006190106 1 11.0361012 -5.491536272 3.168937384 0.972013069 1.173605522 0.760169084 0.050773642 0.084458612 1.712719173 0.00697918 0.016139558 3.22E-06 5.491536272 0.201592454 TTS(ph)FKGTSPSSK ddPTM_HeLa_SAHA_4h_R1 1 TTSFKGTSPSSK 12 1 F8W8I7;F5H6V0;F5H497;F5GWA4;Q9H3F6-2;Q9H3F6 F8W8I7 KCTD10 BTB/POZ domain-containing adapter for CUL3-mediated RhoA degradation protein 3 1 0 T(0.043)T(0.032)S(0.925)FKGTSPSSK 107.99 0.015686 15155000 2076.5 1917.7 1853.6 1581.5 2279.5 1676.3 2195.3 2009 1593.7 1839.2 TRUE FALSE FALSE 2294.915797 1979.834738 2106.198955 1612.112219 2104.845202 1533.469809 1948.279066 1957.612689 1582.609312 1918.496913 1.196205103 1.031971813 1.097838074 0.840299616 1.097132442 0.799307937 1.015523691 1.020388762 0.82492148 1 10.90576073 -6.302523399 24.53964186 1.089843051 0.957217824 0 0.125917731 398.1173681 237796.2586 0.015820073 0.024165761 4.98E-07 6.302523399 -0.132625226 TTS(ph)PLEEEER ddPTM_HeLa_SAHA_4h_R1 2 TTSPLEEEER 10 0 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 T(0.003)T(0.053)S(0.944)PLEEEER;T(0.002)T(0.004)S(0.994)PLEEEER ; 218.07 1.78E-15 69960000 3692.3 5374.8 3893.7 4831.1 5407.2 5665.9 4833.4 4142.6 7412.8 4822.4 TRUE FALSE FALSE 4080.673055 5548.947047 4424.313158 4924.612926 4992.901504 5183.133445 4289.533111 4036.63829 7361.213721 5030.317264 0.811215842 1.10310081 0.879529645 0.978986547 0.992561948 1.030379034 0.852736097 0.802461968 1.463369671 1 12.29643368 -4.538171963 23.10453348 0.93780784 0.81503043 0 0.184458082 99.28292918 149994.4559 0.013055686 0.048903029 2.90E-05 4.538171963 -0.12277741 TTS(ph)PLEEEEREIK ddPTM_HeLa_SAHA_4h_R1 1 TTSPLEEEEREIK 13 1 S4R3H4;E7EQT4;Q9UKV3;Q9UKV3-5 S4R3H4;Q9UKV3-5 ACIN1 Apoptotic chromatin condensation inducer in the nucleus 1 0 TT(0.027)S(0.973)PLEEEEREIK 163.71 0.00021415 20361000 2848 2562.8 2540.3 2571 2675.1 3316.7 3088.6 3133.5 2387.9 2654.9 TRUE FALSE FALSE 3147.565707 2645.836402 2886.478855 2620.765423 2470.134416 3034.098501 2741.062599 3053.349607 2371.282409 2769.365732 1.136565558 0.95539436 1.042288789 0.946341392 0.891949513 1.095593285 0.989779922 1.102544735 0.856254695 1 11.43533988 -7.246154679 24.94548058 1.064489294 1.001447268 0 0.095263384 1253.062296 2045069.851 0.012823971 0.01567724 5.67E-08 7.246154679 -0.063042026 TTS(ph)PPEVSGYSYEK ddPTM_HeLa_SAHA_4h_R1 5 TTSPPEVSGYSYEK 14 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 T(0.002)T(0.178)S(0.82)PPEVSGYSYEK;T(0.383)T(0.081)S(0.536)PPEVSGYSYEK;T(0.012)T(0.002)S(0.985)PPEVS(0.001)GYSYEK;T(0.398)T(0.068)S(0.534)PPEVSGYSYEK;T(0.114)T(0.157)S(0.729)PPEVSGYSYEK ;;;; 121.76 0.0008521 562187000 10124.68 11118.85 9218.2 11136.66 12025.58 12478.29 11032.32 11926.3 13549.7 10279.54 TRUE FALSE FALSE 11189.6403 11479.10804 10474.40829 11352.22616 11104.18266 11415.06949 9790.934318 11621.24252 13455.40653 10722.74128 1.043542878 1.070538563 0.976840532 1.058705593 1.035573122 1.064566345 0.913099931 1.083793987 1.254847635 1 13.38838616 TTS(ph)PSSDTDLLDR ddPTM_HeLa_SAHA_4h_R1 2 TTSPSSDTDLLDR 13 0 Q96QT6;C9J9G2;Q96QT6-2;Q96QT6-5;Q96QT6-3;K7ENU0;K7ERZ4;K7EJ43 Q96QT6 PHF12 PHD finger protein 12 1 0 T(0.12)T(0.017)S(0.862)PS(0.001)SDTDLLDR;T(0.008)T(0.001)S(0.99)PSSDTDLLDR ; 281.32 2.03E-67 65415000 3320.7 3017.6 3052.9 3391.5 3426.9 4093.6 3480.7 3838.4 3885.7 3384.8 TRUE FALSE FALSE 3669.986462 3115.37222 3468.933313 3457.147387 3164.331662 3744.80225 3089.042475 3740.219286 3858.659097 3530.735293 1.039439708 0.882357912 0.982496003 0.979157909 0.896224554 1.060629568 0.874900614 1.059331549 1.092876916 1 11.78575295 TTS(ph)RSPVLSR ddPTM_HeLa_SAHA_4h_R1 1 TTSRSPVLSR 10 1 O95819-3;E7EX83;G5E948;C9J840;H7C360;E7ENQ1;H7C0P6;G3XAA2;A0A0D9SG62;A0A0D9SEY1;O95819-4;O95819-2;O95819;O95819-5;O95819-6;E7EN19;H7C3Z6 O95819-3 MAP4K4 Mitogen-activated protein kinase kinase kinase kinase 4 1 0 T(0.05)T(0.05)S(0.897)RS(0.004)PVLSR 72.731 0.02058 40245000 1620 1772.2 1248.1 1284 2075.2 1812.8 1825.6 1537.7 1483.3 1570.4 TRUE FALSE FALSE 1790.399033 1829.620443 1418.184568 1308.853677 1916.198624 1658.339241 1620.178683 1498.367861 1472.977595 1638.107629 1.092967886 1.116911008 0.865745658 0.799003468 1.169763567 1.0123506 0.989055087 0.914694391 0.899194637 1 10.67781443 -6.775299291 24.99945065 1.050603866 0.964636848 0.071527418 0.107858632 351.2078013 633480.5202 0.0164344 0.021660382 1.68E-07 6.775299291 -0.085967018 TTS(ph)SANNPNLMYQDECDRR ddPTM_HeLa_SAHA_4h_R1 1 TTSSANNPNLMYQDECDRR 19 1 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 1 0 T(0.155)T(0.155)S(0.562)S(0.127)ANNPNLMYQDECDRR 63.374 0.008226 7143900 142.69 146.22 237.92 170.19 119.49 177.05 181.2 249.86 279.56 104.81 TRUE FALSE FALSE 157.6987889 150.9576239 270.3424986 173.4842735 110.334702 161.9643439 160.8108991 243.468943 277.6145192 109.328872 1.442425829 1.380766317 2.472745703 1.586811154 1.00920004 1.481441644 1.470891413 2.226940958 2.539260801 1 6.772530634 -8.332648439 0.722779594 1.035942262 1.64095796 0 0.615888302 0.636774228 0.711629939 0.178441823 0.096703104 4.65E-09 8.332648439 0.605015697 TTS(ph)SSDLTTSSSSSGPR ddPTM_HeLa_SAHA_4h_R1 1 TTSSSDLTTSSSSSGPR 17 0 Q5QP82;A0A0A0MQT4 Q5QP82 DCAF10 DDB1- and CUL4-associated factor 10 1 0 T(0.003)T(0.1)S(0.894)S(0.002)SDLTTSSSSSGPR 188 7.45E-28 0 388.15 409.43 454.1 416.05 526.53 575.88 568.96 503.01 230.35 347.81 TRUE FALSE FALSE 428.9773979 422.6958006 515.9823831 424.1032494 486.1873852 526.8117842 504.9391234 490.1437325 228.7469756 362.8057912 1.182388507 1.165074568 1.422199964 1.168953913 1.340076142 1.452048994 1.391761476 1.350981005 0.630494279 1 8.503053675 -7.395607826 0.269714649 0.945338049 1.460185399 0.638707827 0.141965919 0.560508448 0.148356153 0.104912147 0.104953063 4.02E-08 7.395607826 0.514847349 TTSFFLNS(ph)PEKEHQEMDEGSQSLEK ddPTM_HeLa_SAHA_4h_R1 1 TTSFFLNSPEKEHQEMDEGSQSLEK 25 1 Q8WYP5;Q8WYP5-3;Q8WYP5-2 Q8WYP5 AHCTF1 Protein ELYS 1 0 T(0.022)T(0.023)S(0.022)FFLNS(0.909)PEKEHQEMDEGS(0.02)QS(0.003)LEK 56.709 0.0041422 7398800 1371.5 1147.8 953.25 1090.3 1038.5 1060.5 1073.9 992.57 1503.7 1133.2 TRUE FALSE FALSE 1515.760663 1184.989473 1083.153946 1111.404333 958.9303544 970.1394338 953.0619457 967.1814966 1493.235629 1182.057798 1.282306724 1.002480146 0.91632909 0.940228418 0.811238127 0.82072081 0.806273557 0.818218448 1.263250944 1 10.20708486 -6.727551367 1.878503421 1.13255592 0.835398226 0.741021592 0.086128141 0.172073918 1.241905183 0.019097292 0.0278813 1.87E-07 6.727551367 -0.297157694 TTSSANNPNLMYQDECDRR ddPTM_HeLa_SAHA_4h_R1 1 TTSSANNPNLMYQDECDRR 19 1 A0A1X7SBZ2;A0A5H1ZRQ2;Q92841;Q92841-1;Q92841-3;Q92841-2 A0A1X7SBZ2 DDX17 Probable ATP-dependent RNA helicase DDX17 0 0 91.401 0.0022847 17970000 1917.4 1754.2 1644.4 2049.7 1897.9 1978.6 2022.3 2447.7 2217.8 2134.9 FALSE FALSE TRUE 2119.080929 1811.037231 1868.490268 2089.374907 1752.483312 1810.012149 1794.745482 2385.091378 2202.366149 2226.945987 0.951563685 0.813238059 0.839037085 0.93822433 0.786944687 0.81277775 0.805922322 1.071014471 0.988962535 1 11.12085085 -7.437737283 4.177410009 0.97960217 0.861121669 0.298073351 0.080254315 0.196562163 5.994896654 0.013517349 0.015178433 3.65E-08 7.437737283 -0.118480501 TTSVSLTIGSS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 TTSVSLTIGSSSPK 14 0 Q8WX93-3;Q8WX93;Q8WX93-8;Q8WX93-2;Q8WX93-9;Q8WX93-5;D6R9Z5;D6RBH5;D6RBB1;H0Y952;Q8WX93-6 Q8WX93-3 PALLD Palladin 1 0 TTSVSLTIGS(0.002)S(0.917)S(0.081)PK 217.2 2.26E-17 6734400 4600 5412.4 4730.1 5139.4 6731.8 5541 5852.2 4001.3 6117.8 5823.3 TRUE FALSE FALSE 5083.849106 5587.765311 5374.693395 5238.880519 6216.010938 5068.875627 5193.695054 3898.95254 6075.225732 6074.370962 0.83693425 0.91989201 0.884814811 0.862456467 1.023317637 0.834469225 0.85501776 0.64186935 1.000140717 1 12.5685193 -1.000000082 0.031191472 1.459753937 2.33E-08 0.406411894 0.081611739 1082.470825 2.613828711 38.59124826 95.93455045 0.099999981 1.000000082 -1.459753914 TTSVSLTIGSSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 TTSVSLTIGSSSPK 14 0 Q8WX93-3;Q8WX93;Q8WX93-8;Q8WX93-2;Q8WX93-9;Q8WX93-5;D6R9Z5;D6RBH5;D6RBB1;H0Y952;Q8WX93-6 Q8WX93-3 PALLD Palladin 1 0 TTSVSLTIGS(0.063)S(0.434)S(0.503)PK 159.5 1.37E-05 6600900 869.22 1907.9 1644.8 1408.5 1767.6 1664.9 1901.4 1435.4 1607.7 1351.2 TRUE FALSE FALSE 960.6485477 1969.717212 1868.944778 1435.763554 1632.16687 1523.041154 1687.449468 1398.684546 1596.511885 1409.456845 0.68157358 1.397500902 1.326003549 1.018664431 1.158011241 1.080587291 1.197233867 0.992357128 1.132714273 1 10.46092359 -7.268634175 24.99189535 0.84963197 1.165060601 0.242812389 0.164438389 374.9321843 1302365.114 0.028032 0.032402547 5.39E-08 7.268634175 0.315428631 TTTAAAVASTGPS(ph)SR ddPTM_HeLa_SAHA_4h_R1 2 TTTAAAVASTGPSSR 15 0 E7EVA0;P27816;P27816-6;P27816-2;P27816-4;B5MEG9;P27816-5;H0Y2V1;H7C4C5;F8W9U4 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 TTTAAAVASTGPS(0.915)S(0.085)R;TTTAAAVAS(0.016)T(0.005)GPS(0.825)S(0.153)R ; 140.77 0.00014435 5812000 1298.84 1397.1 995.32 1471.26 1530.26 1685.05 1612.02 1554.92 1849.49 1438.81 TRUE FALSE FALSE 1435.45795 1442.366957 1130.957026 1499.738365 1413.011809 1541.47426 1430.631267 1515.147398 1836.619249 1500.84414 0.956433724 0.961037138 0.753547284 0.999263231 0.941478046 1.027071512 0.953217745 1.009530142 1.223724169 1 10.55155845 -3.282538947 14.56695475 0.965419645 0.956092757 0 0.109782076 0 0 0.009474695 0 0.000521748 3.282538947 -0.009326888 TTTAAAVASTGPSSRS(ph)PSTLLPK ddPTM_HeLa_SAHA_4h_R1 4 TTTAAAVASTGPSSRSPSTLLPK 23 1 E7EVA0;P27816;P27816-6;P27816-2;P27816-4;B5MEG9;P27816-5;H0Y2V1;H7C4C5;F8W9U4 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 TTTAAAVASTGPS(0.001)S(0.001)RS(0.555)PS(0.222)T(0.222)LLPK;TTTAAAVASTGPS(0.001)S(0.007)RS(0.969)PS(0.018)T(0.005)LLPK;TTTAAAVAS(0.001)T(0.008)GPS(0.022)S(0.309)RS(0.625)PS(0.018)T(0.018)LLPK;TTTAAAVASTGPSS(0.001)RS(0.855)PS(0.106)T(0.038)LLPK ;;; 130.43 8.65E-07 180752000 16968.2 13861.1 13505.3 15114.3 16930.8 15824.5 16184.4 16816.1 12438.38 15142.3 TRUE FALSE FALSE 18752.99313 14310.20873 15345.73195 15406.85913 15633.56576 14476.16357 14363.28872 16385.96851 12351.8203 15795.15866 1.187262093 0.905987021 0.971546553 0.975416548 0.989769467 0.916493711 0.909347543 1.03740449 0.782000394 1 13.94719481 -7.248156841 24.95645242 1.088429323 0.956941146 0 0.112290043 579.5810914 1088970.762 0.012791907 0.015619725 5.65E-08 7.248156841 -0.131488177 TTTLS(ph)GTAPAAGVVPSR ddPTM_HeLa_SAHA_4h_R1 1 TTTLSGTAPAAGVVPSR 17 0 E7EVA0;P27816;P27816-6;P27816-2;P27816-4;B5MEG9;P27816-5;H0Y2V1;H7C4C5;F8W9U4 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 T(0.091)T(0.082)T(0.091)LS(0.734)GT(0.003)APAAGVVPSR 151.48 5.91E-05 10235000 446.66 269.18 508.73 566.74 606.17 527.62 371.53 419.86 368.49 346.24 TRUE FALSE FALSE 493.6417481 277.9016086 578.057075 577.7100722 559.7253856 482.6638077 329.7244666 409.1205891 365.9256481 361.1681009 1.366792214 0.769452252 1.600520848 1.599560069 1.54976418 1.33639656 0.91293906 1.132770552 1.013172667 1 8.496526666 -9.526378095 0.727485387 0.949281168 1.29711272 0.148026235 0.265617228 1.788336106 1.269336579 0.408857366 0.055815385 2.98E-10 9.526378095 0.347831552 TTTLSGT(ph)APAAGVVPSR ddPTM_HeLa_SAHA_4h_R1 1 TTTLSGTAPAAGVVPSR 17 0 E7EVA0;P27816;P27816-6;P27816-2;P27816-4;B5MEG9;P27816-5;H0Y2V1;H7C4C5;F8W9U4 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 T(0.298)T(0.041)T(0.207)LS(0.136)GT(0.318)APAAGVVPSR 187 1.39E-11 10569000 588.87 686.4 581.45 711.72 758.64 807.47 683.62 849.8 511.6 554.29 TRUE FALSE FALSE 650.8100484 708.6398104 660.6869779 725.4963698 700.5131671 738.6690133 606.6972784 828.0633465 508.0397339 578.1881545 1.125602528 1.22562146 1.142685081 1.254775568 1.211566099 1.277558192 1.049307693 1.432169338 0.878675445 1 9.175395242 -8.209908644 0.249464521 0.924595709 1.285184469 0.574000186 0.097318746 1.582410757 0.268276591 0.212050649 0.10451189 6.17E-09 8.209908644 0.36058876 TTTS(ph)PFFSEDTFR ddPTM_HeLa_SAHA_4h_R1 1 TTTSPFFSEDTFR 13 0 A0A5F9ZHK5;A0A5F9ZGT0;H0Y9K9;G5E9Z1;A0A590UJE4;A0A494C0H4;H0Y9M2;Q17R98-3;Q17R98-2;Q17R98 A0A5F9ZHK5 ZNF827 Zinc finger protein 827 1 0 TTT(0.026)S(0.948)PFFS(0.026)EDTFR 140.01 0.00039346 10618000 1317.4 1443.9 1244.5 1429.6 1247.9 1407.5 1471.7 1330.3 1451.9 1288.2 TRUE FALSE FALSE 1455.970176 1490.683307 1414.093979 1457.271975 1152.286172 1287.573082 1306.100443 1296.272852 1441.79611 1343.740606 1.083520264 1.109353472 1.052356364 1.084489051 0.857521285 0.95820062 0.97198852 0.964674913 1.072972048 1 10.39203895 -5.778832829 24.99999882 1.050076488 0.941953202 0.68350421 0.042029375 140.2307593 201556.6646 0.007278698 0.013216183 1.66E-06 5.778832829 -0.108123286 TTTSPFFS(ph)EDTFR ddPTM_HeLa_SAHA_4h_R1 1 TTTSPFFSEDTFR 13 0 A0A5F9ZHK5;A0A5F9ZGT0;H0Y9K9;G5E9Z1;A0A590UJE4;A0A494C0H4;H0Y9M2;Q17R98-3;Q17R98-2;Q17R98 A0A5F9ZHK5 ZNF827 Zinc finger protein 827 1 0 T(0.009)T(0.014)T(0.155)S(0.134)PFFS(0.632)EDT(0.056)FR 138.89 0.00043179 12107000 1396.9 1590 1716.6 1482.7 1465.6 1658 1667.4 1305.8 1704.3 1438.3 TRUE FALSE FALSE 1543.832351 1641.517043 1950.529308 1511.399803 1353.306045 1516.729072 1479.779764 1272.399527 1692.439638 1500.312152 1.02900743 1.094117008 1.300082323 1.007390229 0.902016319 1.010942337 0.986314589 0.848089863 1.128058341 1 10.55104698 -3.131410115 0.776890096 1.036501035 3.87E-12 0.285096078 0.099979712 14.22719282 1.639337726 0.016384522 19.288634 0.000738907 3.131410115 -1.036501035 TTVISAVGTIVK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 TTVISAVGTIVKK 13 1 J3QQJ0;Q9UHR5-2;Q9UHR5 J3QQJ0 SAP30BP SAP30-binding protein 0 1 TTVISAVGTIVK(1)K 159.99 1.37E-05 0 140.26 188.29 248.91 450.24 290.7 351.36 494.17 306.39 206.23 166.67 FALSE TRUE FALSE 155.0131903 194.3907195 282.8301585 458.9550463 268.4266288 321.4221513 438.564691 298.5529874 204.7948286 173.8559594 0.891618504 1.11811364 1.626807385 2.639858006 1.543959895 1.848784203 2.522574967 1.717243335 1.17795691 1 7.44174871 -6.673076735 3.030544277 0.953651825 2.047464668 0.674264817 0.327031596 0.092454927 1.715874888 0.048003895 0.069013228 2.12E-07 6.673076735 1.093812843 TTWDIDR ddPTM_HeLa_SAHA_4h_R1 3 TTWDIDR 7 0 Q2M2H8 Q2M2H8 Probable maltase-glucoamylase-like protein LOC93432;Glucoamylase 0 0 ;; ;; 148.07 0.00097451 26380800 6399.4 8042 5406.7 9424.2 9273.7 10492.7 7407.1 6773 10194.9 8817.5 FALSE FALSE TRUE 7072.518253 8302.566077 6143.496919 9606.619019 8563.151109 9598.66293 6573.633614 6599.756467 10123.95286 9197.665577 0.768947098 0.902681882 0.667940889 1.044462743 0.931013531 1.043597731 0.714706744 0.717546905 1.100708954 1 13.16705203 -9.531613787 1.295776371 0.999864447 0.845473122 0.252186106 0.131209557 0.661016699 1.990292805 0.089274146 0.021405204 2.94E-10 9.531613787 -0.154391325 TTWGDGGENS(ph)PCNVVSK ddPTM_HeLa_SAHA_4h_R1 2 TTWGDGGENSPCNVVSK 17 0 H3BM38;H3BV99;H3BP15;H3BQY9;O00161 H3BM38 SNAP23 Synaptosomal-associated protein;Synaptosomal-associated protein 23 1 0 TTWGDGGENS(0.989)PCNVVS(0.011)K;TTWGDGGENS(0.98)PCNVVS(0.02)K ; 140.75 0.0001221 16988000 2550.3 4828.6 3468.6 2674.5 4226.6 3437.6 4606.5 2806.5 3401.3 3154.9 TRUE FALSE FALSE 2818.552255 4985.049808 3941.282744 2726.268815 3902.758821 3144.697141 4088.164496 2734.713794 3377.630076 3290.923179 0.856462489 1.514787656 1.197622226 0.828420679 1.185916112 0.955566864 1.242254612 0.830986822 1.026347287 1 11.68427663 TTYDS(ph)AEEENKENLYAGK ddPTM_HeLa_SAHA_4h_R1 3 TTYDSAEEENKENLYAGK 18 1 E7ESG2;Q9HAW4-2;Q9HAW4-3;Q9HAW4 E7ESG2 CLSPN Claspin 1 0 T(0.024)T(0.008)Y(0.214)DS(0.754)AEEENKENLYAGK;T(0.029)T(0.001)Y(0.012)DS(0.958)AEEENKENLYAGK;T(0.119)T(0.031)Y(0.132)DS(0.719)AEEENKENLYAGK ;; 87.352 0.0024111 60974000 3739.38 3521.78 3325.7 3586.41 3767.24 3950.52 3350.65 3873.19 5211.1 3747.82 TRUE FALSE FALSE 4132.705145 3635.887983 3778.909076 3655.830152 3478.594885 3613.913471 2973.626044 3774.119408 5174.835531 3909.406862 1.0571182 0.930035709 0.966619544 0.935136782 0.889801192 0.924414777 0.760633556 0.965394379 1.323688149 1 11.93273402 -6.391718632 0.895122043 1.025561456 0.872641844 0.367357614 0.10920163 0.291181788 0.463950009 0.010244014 0.020852198 4.06E-07 6.391718632 -0.152919612 TTYLVLDEADR ddPTM_HeLa_SAHA_4h_R1 1 TTYLVLDEADR 11 0 P17844-2;P17844;J3KTA4;J3QSF1;J3KRZ1 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 0 0 204.34 1.45E-09 18232000 1592.9 1806.7 1615.8 1931.5 1750 1606.8 2076.4 1267.4 1644.1 1904.2 FALSE FALSE TRUE 1760.44853 1865.238265 1835.992809 1968.886975 1615.915378 1469.8916 1842.758007 1234.981743 1632.658574 1986.299381 0.886295665 0.939051929 0.92432834 0.991233746 0.813530626 0.740015133 0.927734271 0.621750052 0.821959967 1 10.95586737 -2.566923264 0.321669317 0.961473002 1.78E-16 0.416300143 0.086037882 11.26430919 0.353994564 0.026134129 5.316149299 0.002710671 2.566923264 -0.961473002 TVAISDAAQLPHDYCT(ph)TPGGT(ph)LFSTTPGGTRIIYDRK ddPTM_HeLa_SAHA_4h_R1 1 TVAISDAAQLPHDYCTTPGGTLFSTTPGGTRIIYDRK 37 2 Q13542 Q13542 EIF4EBP2 Eukaryotic translation initiation factor 4E-binding protein 2 2 0 TVAISDAAQLPHDY(0.028)CT(0.397)T(0.397)PGGT(0.229)LFS(0.229)T(0.229)T(0.229)PGGT(0.057)RIIY(0.205)DRK 56.22 0.0011163 17114000 982.35 680.71 855.8 1357.2 1150.7 872.95 1176.8 1148.2 493.61 947.86 TRUE FALSE FALSE 1085.67808 702.7654506 972.4239672 1383.470569 1062.533615 798.5697489 1044.383367 1118.830707 490.1749278 988.7268833 1.0980566 0.710778135 0.983511204 1.399244414 1.07464825 0.807674761 1.056291059 1.131587221 0.49576373 1 9.949428249 TVAISDAAQLPHDYCT(ph)TPGGTLFS(ph)TTPGGTRIIYDR ddPTM_HeLa_SAHA_4h_R1 1 TVAISDAAQLPHDYCTTPGGTLFSTTPGGTRIIYDR 36 1 Q13542 Q13542 EIF4EBP2 Eukaryotic translation initiation factor 4E-binding protein 2 2 0 TVAISDAAQLPHDY(0.24)CT(0.272)T(0.272)PGGT(0.195)LFS(0.314)T(0.314)T(0.314)PGGT(0.051)RIIY(0.029)DR 53.28 0.0021262 5942300 608.64 518.64 865.86 708.36 895.43 1008.8 598.27 954.12 615.66 872.18 TRUE FALSE FALSE 672.6595477 535.4442763 983.8548916 722.0713321 826.8223468 922.8445646 530.951085 929.7149919 611.3755719 909.7839481 0.739361855 0.588540035 1.081415971 0.793673414 0.908811755 1.014355734 0.583601289 1.021907447 0.672000834 1 9.82938017 -9.530760829 1.337862762 0.998507195 0.82687589 0 0.1926754 0.686161264 2.229214612 0.1040064 0.025791162 2.95E-10 9.530760829 -0.171631306 TVAISDAAQLPHDYCT(ph)TPGGTLFSTTPGGTRIIY(ph)DRK ddPTM_HeLa_SAHA_4h_R1 1 TVAISDAAQLPHDYCTTPGGTLFSTTPGGTRIIYDRK 37 2 Q13542 Q13542 EIF4EBP2 Eukaryotic translation initiation factor 4E-binding protein 2 2 0 TVAISDAAQLPHDY(0.124)CT(0.406)T(0.406)PGGT(0.176)LFS(0.176)T(0.176)T(0.176)PGGT(0.172)RIIY(0.189)DRK 53.987 0.0016232 17271000 863.12 900.07 1037.3 953.45 1031.9 936.45 1114.1 1416.4 558.69 931.58 TRUE FALSE FALSE 953.9069217 929.2328586 1178.657842 971.9054035 952.8360449 856.6591917 988.7385358 1380.170539 554.8020308 971.7449728 0.981643279 0.956251779 1.212929189 1.000165095 0.980541265 0.881567917 1.017487678 1.420301188 0.57093378 1 9.924433929 -4.264010973 5.585300915 0.996925214 1.434394484 0.424006556 0.156092066 0.05486561 6.840347279 0.010581465 0.091289522 5.44E-05 4.264010973 0.437469271 TVAISDAAQLPHDYCTTPGGTLFS(ph)TTPGGTR ddPTM_HeLa_SAHA_4h_R1 1 TVAISDAAQLPHDYCTTPGGTLFSTTPGGTR 31 0 Q13542 Q13542 EIF4EBP2 Eukaryotic translation initiation factor 4E-binding protein 2 1 0 TVAISDAAQLPHDY(0.005)CT(0.005)T(0.005)PGGT(0.094)LFS(0.223)T(0.223)T(0.223)PGGT(0.223)R 51.978 0.006768 6214200 821.73 695.65 641.63 841.34 680.07 998.23 944.33 676.72 1015.5 920.6 TRUE FALSE FALSE 908.1633316 718.1895164 729.0679949 857.6253523 627.9631835 913.1751881 838.0715031 659.4104823 1008.433053 960.2915713 0.945716237 0.747886931 0.759215239 0.893088493 0.653929705 0.950935336 0.872726085 0.686677361 1.05013215 1 9.907328705 -7.385863448 4.582751984 0.976643408 0.801210281 0.513016915 0.090369456 0.143896139 4.688521757 0.014535264 0.016497118 4.11E-08 7.385863448 -0.175433127 TVAISDAAQLPHDYCTTPGGTLFSTT(ph)PGGTR ddPTM_HeLa_SAHA_4h_R1 1 TVAISDAAQLPHDYCTTPGGTLFSTTPGGTR 31 0 Q13542 Q13542 EIF4EBP2 Eukaryotic translation initiation factor 4E-binding protein 2 1 0 TVAISDAAQLPHDY(0.006)CT(0.019)T(0.019)PGGT(0.083)LFS(0.19)T(0.19)T(0.443)PGGT(0.051)R 60.516 0.0026828 4548800 729.01 908.53 611.18 713.45 971.06 1012.1 951.02 836.79 719 730.14 TRUE FALSE FALSE 805.6906166 937.9669681 694.4684275 727.2598564 896.6575926 925.8633861 844.0087267 815.3861235 713.9964205 761.6199086 1.057864438 1.231542082 0.911830717 0.954885565 1.177303249 1.215650189 1.108175767 1.07059455 0.937470794 1 9.572927381 -6.610020332 0.060282215 0.79620764 1.355154196 0.196459248 0.098621337 64.37941319 2.077257565 8.515455384 10.48029379 2.45E-07 6.610020332 0.558946555 ESPSVK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 ESPSVKR 7 1 Q02078-3;Q02078-5;Q02078;Q02078-8;Q02078-7;Q02078-4;Q02078-6;Q02078-2;Q06413-5;A0A0D9SFD0;Q06413-6;A0A0D9SGI5;Q06413;Q06413-2;Q06413-3;Q06413-4;A0A1B0GV32;A0A0R4J2G5;A0A0D9SGF3;D8L7E9 Q02078-3;Q06413-5 MEF2A;MEF2C Myocyte-specific enhancer factor 2A;Myocyte-specific enhancer factor 2C 0 1 ; ESPSVK(1)R;ESPSVK(1)R 130.77 0.00017087 19873500 3450.4 3386.5 2861.9 5449.5 6122.7 7498.3 7487.7 9380.9 4740.3 2749.8 FALSE TRUE FALSE 3813.328903 3496.224822 3251.904828 5554.982953 5653.580049 6859.402656 6645.164289 9140.950161 4707.311866 2868.357335 1.329446947 1.218894445 1.133716775 1.936642581 1.971016644 2.391404506 2.316714242 3.186824058 1.641117656 1 11.48600905 -3.286990772 0.319695068 1.040943529 6.456003191 0.840627105 0.260398919 2.299946728 0.104322723 0.070399875 5.474900733 0.000516427 3.286990772 5.415059662 up TVANLLSGKS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 TVANLLSGKSPR 12 1 E7ETY2;Q13428-6;Q13428-7;A0A3B3IS06;H0Y8Y7;Q13428-5;A0A2R8Y857;Q13428;Q13428-3;Q13428-4;Q13428-2;Q13428-8 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 TVANLLS(0.006)GKS(0.994)PR;TVANLLS(0.006)GKS(0.994)PR;TVANLLS(0.001)GKS(0.999)PR ;; 127.03 0.0019661 265717000 18687.7 16476.5 14414.3 16757 17908.7 18867.3 20310.2 19067.8 19877.6 18984.7 TRUE FALSE FALSE 20653.35803 17010.34941 16378.60574 17081.35597 16536.53927 17259.6999 18024.84284 18580.07329 19739.27016 19803.22333 1.042929107 0.858968721 0.827067668 0.862554327 0.835042811 0.87156013 0.910197423 0.9382348 0.996770568 1 14.27344765 -7.258722405 24.98690568 1.02027208 0.86989615 0.791495977 0.033160368 75.37959563 693235.8364 0.006096253 0.00729139 5.51E-08 7.258722405 -0.150375929 TVAT(ph)PLNQVANPNSAIFGGAR ddPTM_HeLa_SAHA_4h_R1 1 TVATPLNQVANPNSAIFGGAR 21 0 Q15056-2;Q15056 Q15056-2 EIF4H Eukaryotic translation initiation factor 4H 1 0 T(0.027)VAT(0.973)PLNQVANPNSAIFGGAR 152.09 5.88E-06 4049100 893.2 944.43 459.91 637.13 929.65 897.52 1022 618.04 912.55 827.14 TRUE FALSE FALSE 987.1508741 975.0301517 522.5841397 649.4625725 858.4204178 821.0462467 907.0018702 602.2314317 906.1994903 862.8020533 1.144122073 1.130073982 0.605682541 0.752736471 0.994921621 0.951604419 1.051228224 0.697994899 1.050298254 1 9.7528858 -6.817413516 24.99998477 1.07461062 0.859678179 0.428853055 0.13401155 71.0695066 31741.75129 0.022829486 0.030003834 1.52E-07 6.817413516 -0.214932441 TVATPLNQVANPNSAIFGGARPR ddPTM_HeLa_SAHA_4h_R1 2 TVATPLNQVANPNSAIFGGARPR 23 1 Q15056-2;Q15056 Q15056-2 EIF4H Eukaryotic translation initiation factor 4H 0 0 ; ; 185.23 8.96E-26 3402500 131.01 156.08 150.73 148.61 286.23 225.29 0 239.48 322.1 0 FALSE FALSE TRUE 144.7902329 161.1370944 171.2706994 151.4865614 264.2991192 206.0940246 0 233.3544484 319.8584799 0 0 TVCDAAEK(ac)GVR ddPTM_HeLa_SAHA_4h_R1 2 TVCDAAEKGVR 11 1 O60664-4;O60664-3;O60664;K7EL96;K7ER39 O60664-4 PLIN3 Perilipin-3 0 1 ; TVCDAAEK(1)GVR;TVCDAAEK(1)GVR 182.46 2.13E-14 7772600 1329.87 1333.11 1218.8 1622.56 1736.4 2014.92 1811.02 1936.74 1625.56 1144.1 FALSE TRUE FALSE 1469.751828 1376.303639 1384.891717 1653.966995 1603.357407 1843.23748 1607.239263 1887.200995 1614.247596 1193.42775 1.231538171 1.153235827 1.160431971 1.385896209 1.343489295 1.544490213 1.34674199 1.581328233 1.35261443 1 10.22089551 -1 0.103205198 0.821724969 2.961031236 0.413532043 0.129929711 34.05688192 0.249269116 0.576793478 10.37849592 0.1 1 2.139306267 TVDGPSGK(ac)LWR ddPTM_HeLa_SAHA_4h_R1 1 TVDGPSGKLWR 11 1 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 1 TVDGPSGK(1)LWR 125.68 0.0013352 72374000 2560.8 2593.3 2159.4 2811.3 2830.1 2826.2 2884 3193.5 2454.4 2557.2 FALSE TRUE FALSE 2830.156693 2677.324622 2453.671786 2865.716777 2613.258349 2585.39186 2559.48473 3111.814894 2437.319631 2667.453407 1.060995737 1.003700614 0.919855537 1.074326835 0.979682848 0.969235996 0.959523688 1.16658641 0.913725287 1 11.38124736 -7.117756659 18.51089175 1.028992122 1.004656563 0 0.075719336 10.0214782 1536.691861 0.010666583 0.013063897 7.63E-08 7.117756659 -0.024335558 TVDLGIS(ph)DLEDDC ddPTM_HeLa_SAHA_4h_R1 1 TVDLGISDLEDDC 13 0 F5H5U2;Q8NHQ9-2;Q8NHQ9 F5H5U2 DDX55 ATP-dependent RNA helicase DDX55 1 0 TVDLGIS(1)DLEDDC 110.93 0.0024249 668770 601.31 526.71 643.45 544.62 675.73 643.9 835.96 831.98 727.11 640.5 TRUE FALSE FALSE 664.5585447 543.7757496 731.1360151 555.1619076 623.9557134 589.0360975 741.8955807 810.6991563 722.0499823 668.1150895 0.994676748 0.813895327 1.094326451 0.830937538 0.933904537 0.881638668 1.110430811 1.213412433 1.080726949 1 9.383952833 -4.565398036 5.029191702 0.968783494 1.192277714 0.466481761 0.090809424 0.104696523 6.038144408 0.0113095 0.047680282 2.72E-05 4.565398036 0.22349422 TVDLK(ac)PDWGK ddPTM_HeLa_SAHA_4h_R1 1 TVDLKPDWGK 10 1 P31948-3;P31948;P31948-2;F5GXD8;F5H783 P31948-3 STIP1 Stress-induced-phosphoprotein 1 0 1 TVDLK(1)PDWGK 131.52 0.0008224 1298200 876.21 2469.3 1178.1 1485 1882.2 1750.7 2073.9 1792.6 1629.8 599.82 FALSE TRUE FALSE 968.373788 2549.30694 1338.645333 1513.744322 1737.986243 1601.530511 1840.539314 1746.747888 1618.458089 625.6811756 1.54771124 4.074450438 2.139500731 2.419354108 2.777750571 2.559659093 2.941656846 2.791753941 2.586713732 1 9.289283889 -7.461233998 9.389582579 1.240617266 2.771728349 0.32136569 0.645404071 0.192501498 28.34617859 0.081829169 0.093044257 3.46E-08 7.461233998 1.531111083 TVDLKPDWGK ddPTM_HeLa_SAHA_4h_R1 1 TVDLKPDWGK 10 1 P31948-3;P31948;P31948-2;F5GXD8;F5H783 P31948-3 STIP1 Stress-induced-phosphoprotein 1 0 0 91.087 0.011726 2017400 1341.7 1529.7 1524.5 1799.3 1983.6 1936.8 1798.3 1887.3 1681.6 1682.7 FALSE FALSE TRUE 1482.826162 1579.263284 1732.250921 1834.128053 1831.616997 1771.773744 1595.950551 1839.025599 1669.897609 1755.249432 0.844795124 0.899737242 0.986897297 1.044938696 1.043508098 1.009414224 0.909244306 1.047728924 0.951373394 1 10.77746035 -6.635637917 5.280997819 0.922791493 1.007778704 0.381131461 0.052365903 0.225043896 9.632731203 0.010971208 0.015586544 2.31E-07 6.635637917 0.084987211 TVDNFVALATGEK ddPTM_HeLa_SAHA_4h_R1 2 TVDNFVALATGEK 13 0 P23284 P23284 PPIB Peptidyl-prolyl cis-trans isomerase B 0 0 ; ; 187.62 3.76E-16 3317000 1034.98 1103.36 1094.7 904.99 1655.45 1077.37 1454.57 1010.51 1084.06 1104.77 FALSE FALSE TRUE 1143.843945 1139.109588 1243.880015 922.5073901 1528.609779 985.5720149 1290.897955 984.6626174 1076.515938 1152.402041 0.992573689 0.988465437 1.07938026 0.800508292 1.326455285 0.855232792 1.120180205 0.85444366 0.934149628 1 10.17042841 TVDSQGPT(ph)PVCTPTFLER ddPTM_HeLa_SAHA_4h_R1 1 TVDSQGPTPVCTPTFLER 18 0 H7BZL0;Q9BYG3;C9J808 H7BZL0 NIFK MKI67 FHA domain-interacting nucleolar phosphoprotein 1 0 TVDS(0.004)QGPT(0.58)PVCT(0.32)PT(0.096)FLER 70.54 0.023806 5573200 684.33 900.56 698.87 941.63 925.25 1104.9 1236.1 829.45 1188.9 893.04 TRUE FALSE FALSE 756.3109692 929.7387349 794.108364 959.8566103 854.3575449 1010.756304 1097.010775 808.23387 1180.626348 931.5433248 0.811890278 0.998062795 0.852465304 1.030393955 0.91714204 1.085034133 1.177627219 0.867628857 1.267387481 1 9.863479058 -5.697365367 1.453777783 0.914226188 1.048726109 0 0.148284323 0.467502515 1.97509284 0.016382839 0.042880511 2.01E-06 5.697365367 0.134499921 TVDSQGPTPVCT(ph)PTFLER ddPTM_HeLa_SAHA_4h_R1 2 TVDSQGPTPVCTPTFLER 18 0 H7BZL0;Q9BYG3;C9J808 H7BZL0 NIFK MKI67 FHA domain-interacting nucleolar phosphoprotein 1 0 TVDSQGPT(0.102)PVCT(0.88)PT(0.017)FLER;TVDSQGPT(0.01)PVCT(0.97)PT(0.02)FLER ; 123.63 0.00066928 9605300 1096.69 1175.26 1191.41 1325.91 1349.59 1631.63 1415.14 1372.46 1583.05 1273.73 TRUE FALSE FALSE 1212.044886 1213.339195 1353.76915 1351.574905 1246.184706 1492.605945 1255.904723 1337.35446 1572.033426 1328.646734 0.912240143 0.913214299 1.018908274 1.017256785 0.937935325 1.123403164 0.945251052 1.006553831 1.183183901 1 10.37574185 -6.739867331 24.99473789 0.953999132 1.007807811 0 0.089677664 318.9181015 369517.6961 0.00881199 0.01245558 1.82E-07 6.739867331 0.053808679 TVDVPASLPT(ph)PPHNNQEELR ddPTM_HeLa_SAHA_4h_R1 1 TVDVPASLPTPPHNNQEELR 20 0 Q8NEZ4;Q8NEZ4-3;H0Y765;H7BY37;Q8NEZ4-2;H7C2V8 Q8NEZ4 KMT2C Histone-lysine N-methyltransferase 2C 1 0 T(0.001)VDVPAS(0.245)LPT(0.754)PPHNNQEELR 110.6 0.00052505 3366800 1554.5 1351.7 1040.8 1166.3 1415.3 1611.5 1688.4 1348.4 1361.8 1451.5 TRUE FALSE FALSE 1718.009442 1395.495967 1182.634804 1188.875423 1306.86002 1474.191134 1498.416788 1313.90988 1352.323123 1514.081268 1.134687733 0.921678377 0.781090704 0.785212424 0.863137301 0.973653901 0.989654135 0.867793498 0.893164159 1 10.56422693 -7.11414341 5.5695752 1.063176506 0.879306149 0.250641779 0.088430976 0.140389052 5.997060375 0.014236847 0.017526961 7.69E-08 7.11414341 -0.183870357 TVEIPDPVEAGEEVK ddPTM_HeLa_SAHA_4h_R1 1 TVEIPDPVEAGEEVK 15 0 P21980 P21980 TGM2 Protein-glutamine gamma-glutamyltransferase 2 0 0 176.05 2.68E-06 7802800 4400.6 4540.4 4146.8 5212.4 4476.9 5025.9 4272.4 4811.1 5605.3 4272.1 FALSE FALSE TRUE 4863.475299 4687.511939 4711.904308 5313.293539 4133.880889 4597.665045 3791.658308 4688.039028 5566.292261 4456.291138 1.091372881 1.051886377 1.05736007 1.192312929 0.927650542 1.031724567 0.85085516 1.052004657 1.249086312 1 12.12162777 TVEIVHIDIADR ddPTM_HeLa_SAHA_4h_R1 2 TVEIVHIDIADR 12 0 B3KYB6;B3KYB7;A0A0A0MSW4;P48739;P48739-2;P48739-3 B3KYB6 PITPNB Phosphatidylinositol transfer protein beta isoform 0 0 ; ; 110.38 0.003315 6330900 3836.5 4340.2 4855.3 6232.9 5319.1 5352.5 5103.5 5377.8 5782.3 5444.6 FALSE FALSE TRUE 4240.040672 4480.825328 5516.954999 6353.546792 4911.551707 4896.436888 4529.240748 5240.243663 5742.060504 5679.343351 0.746572343 0.788968909 0.971407196 1.118711513 0.864809786 0.862148418 0.797493736 0.922684779 1.011043029 1 12.47150842 -5.544958074 24.99899697 0.89638922 0.855952501 0.026535975 0.109922164 980.5584835 1110220.223 0.019110723 0.038223427 2.85E-06 5.544958074 -0.040436719 TVESEAASYLDQISR ddPTM_HeLa_SAHA_4h_R1 1 TVESEAASYLDQISR 15 0 A0A087WTV2;K7ENH2;B3KQ25;K7ESG5;K9J957;P61289;P61289-3;P61289-2 A0A087WTV2 PSME3 Proteasome activator complex subunit 3 0 0 133.98 0.0013347 1411200 373.07 630.82 458.16 413.55 668.23 873.02 568.46 630.18 537.13 468.34 FALSE FALSE TRUE 412.3112143 651.2589819 520.5956588 421.5548583 617.0303618 798.6337845 504.4953847 614.0609081 533.3920686 488.5324294 0.843979211 1.333092632 1.065631732 0.86290046 1.26302846 1.634761044 1.032675324 1.256950145 1.091825305 1 8.932310523 -6.198529169 0.781356811 0.939510742 1.292829299 0.152398499 0.208776382 0.603312896 0.718924059 0.041227791 0.103654061 6.33E-07 6.198529169 0.353318557 TVESITDIR ddPTM_HeLa_SAHA_4h_R1 2 TVESITDIR 9 0 P11279 P11279 LAMP1 Lysosome-associated membrane glycoprotein 1 0 0 ; ; 148.99 0.0028725 7248500 3945.5 4812.6 4159.8 4277.4 5252.5 5354.5 5171 4754.5 4310.6 4976.6 FALSE FALSE TRUE 4360.505793 4968.531398 4726.675881 4360.195262 4850.054585 4898.266476 4589.145471 4632.886774 4280.602184 5191.165581 0.839985881 0.957112872 0.910523043 0.839926062 0.934290095 0.943577391 0.884029877 0.892455982 0.824593652 1 12.34184279 -9.550159256 1.307975785 1.000196117 0.894688453 0 0.065762959 0.30728579 0.938985444 0.028745355 0.006751464 2.82E-10 9.550159256 -0.105507664 TVFPGAVPVLPAS(ph)PPPK ddPTM_HeLa_SAHA_4h_R1 2 TVFPGAVPVLPASPPPK 17 0 M0R2S2;M0R165;Q9UBC2-4;Q9UBC2-3;Q9UBC2;Q9UBC2-2 M0R2S2 EPS15L1 Epidermal growth factor receptor substrate 15-like 1 1 0 TVFPGAVPVLPAS(1)PPPK;TVFPGAVPVLPAS(1)PPPK ; 145.1 0.00011503 9945800 3151.1 3874.1 2433.3 3139.9 3570.9 4586.6 3882.6 3570.7 5119.4 3418.2 TRUE FALSE FALSE 3482.547156 3999.623382 2764.897452 3200.677305 3297.298413 4195.795876 3445.71963 3479.366664 5083.773679 3565.57533 0.976713947 1.121732964 0.775442165 0.897660828 0.92475915 1.176751432 0.966385312 0.975821948 1.425793373 1 11.79991917 TVFPGAVPVLPAS(ph)PPPKDSLR ddPTM_HeLa_SAHA_4h_R1 1 TVFPGAVPVLPASPPPKDSLR 21 1 M0R2S2;M0R165;Q9UBC2-4;Q9UBC2-3;Q9UBC2;Q9UBC2-2 M0R2S2 EPS15L1 Epidermal growth factor receptor substrate 15-like 1 1 0 TVFPGAVPVLPAS(0.999)PPPKDS(0.001)LR 113.6 5.55E-05 1319300 492.02 305.89 612.47 590 605.55 676.01 567.81 299.7 722.86 667.98 TRUE FALSE FALSE 543.7729211 315.8010367 695.934222 601.4203032 559.1528898 618.4101449 503.9185244 292.034108 717.8295584 696.7798868 0.780408464 0.453229266 0.998786324 0.863142457 0.802481387 0.887525826 0.723210491 0.419119601 1.03020993 1 9.44455917 -13.52287875 0.153529878 1.942673883 0.669533665 0.298049924 0.170799407 72.55507969 0.753766765 20.56719027 0.379887923 3.00E-14 13.52287875 -1.273140219 TVFS(ph)PTLPAAR ddPTM_HeLa_SAHA_4h_R1 4 TVFSPTLPAAR 11 0 C9J6P4;Q7Z2W4;Q7Z2W4-3;Q7Z2W4-2 C9J6P4 ZC3HAV1 Zinc finger CCCH-type antiviral protein 1 1 0 T(0.11)VFS(0.69)PT(0.2)LPAAR;T(0.002)VFS(0.542)PT(0.455)LPAAR;T(0.095)VFS(0.72)PT(0.185)LPAAR;T(0.137)VFS(0.477)PT(0.386)LPAAR ;;; 187.31 1.12E-06 447088000 11307.1 11788 10700.2 9819.5 12284.8 14243.2 12729.7 11359.3 11712.6 11497.5 TRUE FALSE FALSE 12496.43266 12169.93893 12158.36753 10009.57062 11343.54128 13029.59923 11297.32065 11068.74555 11631.09106 11993.21349 1.04195866 1.014735454 1.013770624 0.834602888 0.945830013 1.086414349 0.941976115 0.922917412 0.969806055 1 13.54993065 -6.481805975 24.94158254 1.019713575 0.950890812 0.195149519 0.060146584 549.7799661 333855.8518 0.009140597 0.013961432 3.30E-07 6.481805975 -0.068822763 TVGVEPAADGK ddPTM_HeLa_SAHA_4h_R1 2 TVGVEPAADGK 11 0 H0YMF4;H0YKD8;P46779-4;P46779-5;P46779;P46779-2;P46779-3;H0YLP6 H0YMF4 RPL28 60S ribosomal protein L28 0 0 ; ; 161.17 0.0011996 14346100 4545.7 4869.8 4378.6 4768.7 4959.7 5325 4940.5 5444.1 5232.4 4706.1 FALSE FALSE TRUE 5023.837582 5027.584715 4975.292805 4861.005084 4579.688857 4871.280042 4384.581937 5304.847805 5195.987302 4909.003002 1.023392648 1.024155967 1.01350372 0.990222471 0.932916288 0.992315556 0.893171574 1.080636496 1.058460812 1 12.26121433 -6.02701726 5.465390151 1.012371102 0.969136717 0.171698947 0.047546173 0.229663708 20.25617675 0.006052837 0.010449665 9.40E-07 6.02701726 -0.043234385 TVHPNS(ph)PGIPYR ddPTM_HeLa_SAHA_4h_R1 1 TVHPNSPGIPYR 12 0 J3KPH8;Q8WUI4-8;Q8WUI4-5;Q8WUI4-6;Q8WUI4-7;Q8WUI4;Q8WUI4-4;Q8WUI4-3;F8VWY3;C9J102;C9JNI4 J3KPH8 HDAC7 Histone deacetylase;Histone deacetylase 7 1 0 T(0.001)VHPNS(0.999)PGIPYR 78.069 0.018292 7917200 2738.7 3328.7 2729.2 2662.4 3639.9 1921.4 3049.7 2625.2 2813.5 3230.5 TRUE FALSE FALSE 3026.769032 3436.552064 3101.121163 2713.934602 3361.011648 1757.68591 2706.53973 2558.051185 2793.920624 3369.782665 0.898208975 1.019814156 0.920273344 0.80537378 0.997397157 0.521602158 0.803179314 0.75911459 0.829110035 1 11.71843983 -5.282878043 24.9980591 0.945034584 0.705486727 0.535073639 0.096611477 380.9803068 444232.7567 0.012623221 0.028251214 5.21E-06 5.282878043 -0.239547857 TVIESSPES(ph)PVTITEPYR ddPTM_HeLa_SAHA_4h_R1 1 TVIESSPESPVTITEPYR 18 0 Q8TEQ6 Q8TEQ6 GEMIN5 Gem-associated protein 5 1 0 TVIES(0.004)S(0.179)PES(0.817)PVTITEPYR 166.48 2.72E-06 3234000 349.29 453.08 391.28 401.21 395.52 424.9 630.28 388.13 510.45 442.54 TRUE FALSE FALSE 386.0299248 467.7600893 444.6016007 408.9759997 365.215343 388.6961296 559.3592356 378.2021966 506.8977369 461.6200651 0.836250315 1.013301034 0.963133179 0.885958022 0.791160027 0.842026071 1.211730767 0.819293235 1.09808428 1 8.850562124 -5.950965308 0.00425218 1.839623282 5.19E-07 0.010407163 0.128927839 111066.2031 154.3160928 32916.95481 33844.8533 1.12E-06 5.950965308 -1.839622763 TVIIEQS(ph)WGSPK ddPTM_HeLa_SAHA_4h_R1 2 TVIIEQSWGSPK 12 0 P10809;E7EXB4;E7ESH4;P10809-2;C9JL25;C9JL19;C9JCQ4 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 1 0 T(0.352)VIIEQS(0.466)WGS(0.183)PK;T(0.081)VIIEQS(0.672)WGS(0.246)PK ; 164.93 0.00012126 35822000 5188.1 9073.4 7739.4 5599.9 8656.4 6623.1 9029.7 7778.5 9127.4 7977.9 TRUE FALSE FALSE 5733.808162 9367.384113 8794.085127 5708.294162 7993.148502 6058.774619 8013.654391 7579.537233 9063.88168 8321.866312 0.68900508 1.125635015 1.05674434 0.685939181 0.960499508 0.728054789 0.962963606 0.910797764 1.089164538 1 13.0226914 TVIIEQSWGS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 TVIIEQSWGSPK 12 0 P10809;E7EXB4;E7ESH4;P10809-2;C9JL25;C9JL19;C9JCQ4 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 1 0 T(0.089)VIIEQS(0.206)WGS(0.706)PK;TVIIEQS(0.039)WGS(0.961)PK ; 193.98 3.12E-07 46155900 4012.92 7430.5 6836.8 4457.4 6958.4 6386.2 7648.8 5796.8 7088.7 7207.9 TRUE FALSE FALSE 4435.017338 7671.253075 7768.483499 4543.679423 6425.248895 5842.059832 6788.136893 5648.52625 7039.36916 7518.667844 0.589867438 1.020294184 1.033226053 0.604319743 0.854572782 0.777007304 0.902837715 0.751266896 0.93625218 1 12.87626135 -6.25232683 24.95189055 0.836328838 0.789135089 0.064026155 0.149357321 3407.765979 9331098.18 0.028426061 0.046717379 5.59E-07 6.25232683 -0.047193749 TVIIEQSWGSPK ddPTM_HeLa_SAHA_4h_R1 4 TVIIEQSWGSPK 12 0 P10809;E7EXB4;E7ESH4;P10809-2;C9JL25;C9JL19;C9JCQ4 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ;;; ;;; 245.13 5.61E-56 21839000 6143.83 7375.2 6478.9 6003.5 7439.8 7594.76 7380.9 6615.65 6883.3 6684.4 FALSE FALSE TRUE 6790.066228 7614.161319 7361.810751 6119.706424 6869.764131 6947.643721 6550.381707 6446.431252 6835.398555 6972.597197 0.973821667 1.092012216 1.055820456 0.877679615 0.985251828 0.996421208 0.939446453 0.924538027 0.980323165 1 12.76748042 -6.273594881 24.99777101 1.001461367 0.949507268 0.363826588 0.046615201 930.9088425 1914411.268 0.007608999 0.011677952 5.33E-07 6.273594881 -0.051954099 TVIPGMPTVIPPGLTR ddPTM_HeLa_SAHA_4h_R1 1 TVIPGMPTVIPPGLTR 16 0 Q15637-6;Q15637-4;Q15637-3;Q15637-2;Q15637;Q15637-7;Q15637-5;F8WEV5;C9J792 Q15637-6 SF1 Splicing factor 1 0 0 112.51 0.012729 0 0 0 0 0 0 0 0 136.78 145.58 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 133.2813657 144.5668969 0 0 TVIRLPS(ph)GSGAASPTGSAVDIR ddPTM_HeLa_SAHA_4h_R1 1 TVIRLPSGSGAASPTGSAVDIR 22 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 TVIRLPS(0.594)GS(0.33)GAAS(0.076)PTGSAVDIR 155.71 3.22E-06 11198000 953.42 501.72 1050 605.33 858.73 782.13 966.38 851.97 528.03 828.16 TRUE FALSE FALSE 1053.70509 517.9760572 1193.088532 617.0470375 792.9342929 715.4881239 857.640379 830.177841 524.3553962 863.8660305 1.219755208 0.599602298 1.381103655 0.714285567 0.91789035 0.828239679 0.992793267 0.961002993 0.606986937 1 9.754663784 TVIRLPSGSGAAS(ph)PTGSAVDIR ddPTM_HeLa_SAHA_4h_R1 2 TVIRLPSGSGAASPTGSAVDIR 22 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 TVIRLPSGSGAAS(0.529)PT(0.281)GS(0.19)AVDIR;TVIRLPS(0.012)GS(0.019)GAAS(0.943)PT(0.023)GS(0.004)AVDIR ; 116.87 0.00011745 43821000 1694.72 1274.41 2284.8 1294.52 1629.05 1550.08 1763.19 1305.27 695.4 1924.36 TRUE FALSE FALSE 1872.978425 1315.70172 2596.160645 1319.577307 1504.232541 1418.004463 1564.791221 1271.883083 690.5606548 2007.328577 0.933070174 0.655449105 1.293341147 0.657379824 0.749370361 0.706413728 0.779539154 0.633619776 0.34401974 1 10.97106107 TVIRLPSGSGAASPT(ph)GSAVDIR ddPTM_HeLa_SAHA_4h_R1 1 TVIRLPSGSGAASPTGSAVDIR 22 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 TVIRLPS(0.001)GSGAAS(0.359)PT(0.548)GS(0.092)AVDIR 87.92 0.00050988 37533000 1305.1 616.59 1338 923.14 921.57 887.48 1349.5 1288.2 486.55 1077.4 TRUE FALSE FALSE 1442.376406 636.5679206 1520.335672 941.0087096 850.9595057 811.8617112 1197.650708 1255.249709 483.1640589 1123.851987 1.283422037 0.566416155 1.352789949 0.837306621 0.75718112 0.722392024 1.065665873 1.116917285 0.429917876 1 10.13423633 -7.33826921 25 1.133838066 0.922720996 0 0.313158395 162.4001047 52843.14992 0.038386188 0.043896271 4.59E-08 7.33826921 -0.211117069 TVKEEAEK(ac)PER ddPTM_HeLa_SAHA_4h_R1 2 TVKEEAEKPER 11 2 K7ELL7;P14314-2;P14314 K7ELL7 PRKCSH Glucosidase 2 subunit beta 0 1 ; TVKEEAEK(1)PER;TVKEEAEK(1)PER 110.8 0.0028385 6059000 1444.93 4292 2314.5 2352.05 4693.7 4800.9 4990 4411 4045.6 1081.25 FALSE TRUE FALSE 1596.914367 4431.063616 2629.908007 2397.577329 4334.06972 4391.836311 4428.512067 4298.173007 4017.44634 1127.867979 1.415869939 3.928707702 2.331751637 2.125760615 3.84271014 3.893927652 3.926445426 3.810883088 3.561982798 1 10.13938249 -6.746366917 0.450777443 0.915167884 4.140951367 0.085531516 1.044101827 0.38171649 0.173848534 0.255163616 0.478547465 1.79E-07 6.746366917 3.225783483 TVKQEQINTEPLEDTVLS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 2 TVKQEQINTEPLEDTVLSPTK 21 1 O15446;O15446-2 O15446 CD3EAP DNA-directed RNA polymerase I subunit RPA34 1 0 TVKQEQINTEPLEDT(0.004)VLS(0.654)PT(0.341)K;TVKQEQINTEPLEDT(0.023)VLS(0.749)PT(0.229)K ; 121.23 1.91E-05 35220000 6177.6 2770.5 4653.8 4626.1 3703.1 3563.3 5029.9 6256.3 1792.85 3735.9 TRUE FALSE FALSE 6827.388312 2860.266018 5287.995628 4715.644855 3419.369278 3259.686793 4463.922414 6096.272905 1780.373411 3896.972932 1.751972218 0.73397123 1.35694954 1.210078935 0.877442399 0.836466368 1.145484583 1.564361111 0.456860605 1 11.9281382 -7.257220608 24.99812508 1.355097988 1.100026337 0 0.40487435 655.5359841 3884345.509 0.0595678 0.07157347 5.53E-08 7.257220608 -0.255071651 TVLCGTCGQPADK ddPTM_HeLa_SAHA_4h_R1 2 TVLCGTCGQPADK 13 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5 P02545 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 174.21 0.00010365 7892600 1330.64 1315.51 1331.44 1456.83 1345.73 2031.04 1345.77 1754.34 1554.99 1360.16 FALSE FALSE TRUE 1470.60282 1358.133387 1512.881709 1485.029051 1242.620458 1857.983966 1194.340418 1709.466523 1544.168698 1418.803154 1.03650941 0.957238771 1.066308392 1.046677298 0.875823016 1.30954316 0.841794307 1.204865184 1.088360069 1 10.47045873 -3.781336952 8.538364976 1.020150896 14.80498523 0.163498565 0.121864693 35146.01461 15056.60885 0.013811163 9294336.804 0.000165449 3.781336952 13.78483434 TVLDPVTGDLSDTR ddPTM_HeLa_SAHA_4h_R1 1 TVLDPVTGDLSDTR 14 0 Q15393 Q15393 SF3B3 Splicing factor 3B subunit 3 0 0 147.62 0.00058465 3130700 713.91 678.04 505.01 710.82 587.96 923.84 686.46 808.02 479.32 553.16 FALSE FALSE TRUE 789.0023293 700.0089409 573.8301328 724.578949 542.9106318 845.1236346 609.2177141 787.3520184 475.9843731 577.0094347 1.367399356 1.213167236 0.994490035 1.255748876 0.940904254 1.464661726 1.055819329 1.364539245 0.824916101 1 9.172451098 -9.627145201 1.460173468 1.00059081 1.221632927 0.285519132 0.17165318 0.512469944 1.971113754 0.108904305 0.025151197 2.36E-10 9.627145201 0.221042117 TVLEGSTAST(ph)SPADHSALPNQSLTVR ddPTM_HeLa_SAHA_4h_R1 1 TVLEGSTASTSPADHSALPNQSLTVR 26 0 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 TVLEGS(0.006)T(0.021)AS(0.059)T(0.854)S(0.059)PADHSALPNQSLTVR 95.867 1.38E-05 17628000 343.93 410.4 333.82 363.55 546.32 514.06 398.27 331.51 424.19 583.75 TRUE FALSE FALSE 380.1061354 423.6972293 379.3112511 370.587036 504.4610796 470.259196 353.4556114 323.0304542 421.2380273 608.9183193 0.624231729 0.695819482 0.622926325 0.608598927 0.828454431 0.772286169 0.580464736 0.530498827 0.691780841 1 9.250104907 -9.26949721 0.778073834 1.023430614 0.659617418 0.084385195 0.126461283 0.363511407 0.354977442 0.08416542 0.017948873 5.38E-10 9.26949721 -0.363813196 TVLEGSTASTS(ph)PADHSALPNQSLTVR ddPTM_HeLa_SAHA_4h_R1 1 TVLEGSTASTSPADHSALPNQSLTVR 26 0 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 TVLEGSTAST(0.017)S(0.983)PADHSALPNQSLTVR 140.69 1.74E-09 18001000 386.73 443.39 259.25 342.95 778.58 661.26 524.3 457.47 734.88 437.93 TRUE FALSE FALSE 427.4080358 457.7561269 294.5792399 349.5882932 718.9253686 604.9169279 465.3043841 445.7685798 729.7659102 456.8113055 0.935633665 1.002068297 0.644859784 0.765279425 1.573790666 1.324216193 1.018592094 0.975826505 1.597521562 1 8.835454546 -5.789902117 24.99997762 0.931769947 1.21572095 0.119254027 0.282713409 187.2940214 164507.5178 0.029312031 0.053139673 1.62E-06 5.789902117 0.283951003 TVLPTVPES(ph)PEEEVK ddPTM_HeLa_SAHA_4h_R1 4 TVLPTVPESPEEEVK 15 0 E9PBY7;E9PQ61;O75152;A0A1W2PPR9 E9PBY7 ZC3H11A Zinc finger CCCH domain-containing protein 11A 1 0 TVLPTVPES(1)PEEEVK;TVLPTVPES(1)PEEEVK;TVLPT(0.025)VPES(0.975)PEEEVK;TVLPT(0.007)VPES(0.993)PEEEVK ;;; 198.74 2.41E-12 57916300 6915.2 8545.5 4939.6 7222.7 8410.9 9644.2 8710.3 7993.9 9282.1 7395.6 TRUE FALSE FALSE 7642.572464 8822.379807 5612.742964 7362.505803 7766.458659 8822.459903 7730.19412 7789.427613 9217.50511 7714.460509 0.99068139 1.143615914 0.727561306 0.954377275 1.006740348 1.143626297 1.002039496 1.009717738 1.1948347 1 12.91334955 -5.511693162 24.37308457 0.982824464 1.051546394 0.019269043 0.122395572 757.3085311 1650152.026 0.014297236 0.0302934 3.08E-06 5.511693162 0.068721931 TVMDGGLES(ph)DGPNMTENGLEDESRPQR ddPTM_HeLa_SAHA_4h_R1 1 TVMDGGLESDGPNMTENGLEDESRPQR 27 1 P51116 P51116 FXR2 Fragile X mental retardation syndrome-related protein 2 1 0 TVMDGGLES(1)DGPNMTENGLEDESRPQR 129.54 3.58E-09 10621000 750.8 1021 598.15 1006.1 1357 1462.3 1269.1 955.21 1017.5 566.97 TRUE FALSE FALSE 829.7725888 1054.08107 679.662767 1025.57452 1253.026953 1337.703813 1126.297528 930.7771113 1010.419135 591.4148514 1.403029678 1.782304025 1.149214913 1.734103427 2.118693757 2.261870513 1.90441198 1.573814234 1.708477784 1 9.208026662 -7.176215666 0.414994187 1.017195063 2.012424045 0.221421847 0.333089888 0.50347629 0.225775612 0.141728472 0.179140778 6.66E-08 7.176215666 0.995228982 TVNCLLVGAIAIPHCVLK ddPTM_HeLa_SAHA_4h_R1 1 TVNCLLVGAIAIPHCVLK 18 0 Q5SY16 Q5SY16 NOL9 Polynucleotide 5-hydroxyl-kinase NOL9 0 0 136.63 1.87E-06 271340 203.33 326.66 314.71 440.75 283.34 153.86 341.19 0 150.55 281.55 FALSE FALSE TRUE 224.7171823 337.2439983 357.5970399 449.2813536 261.6305504 140.7502624 302.7984032 0 149.5023103 293.6889984 0.765153559 1.148303138 1.217604479 1.529786121 0.89084219 0.479249353 1.031017181 0 0.509049747 1 8.198145413 -4.25841094 24.91050383 0.948815951 3.60E-07 0.472830899 0.301649726 177.5239156 1460148.782 0.039331913 0.371170921 5.52E-05 4.25841094 -0.948815591 TVNESASLRER ddPTM_HeLa_SAHA_4h_R1 1 TVNESASLRER 11 1 P06213-2;P06213 P06213-2 INSR Insulin receptor;Insulin receptor subunit alpha;Insulin receptor subunit beta 0 0 123.21 0.0089908 6581500 1515.4 1385.7 1500.2 1738.8 1725.9 1439.1 1949.1 1398.6 1541.7 1205.3 FALSE FALSE TRUE 1674.796725 1430.597589 1704.639443 1772.456988 1593.661915 1316.480584 1729.782138 1362.825837 1530.971184 1257.266382 1.332093779 1.137863551 1.355829972 1.409770447 1.267561066 1.047097579 1.375827878 1.083959499 1.217698339 1 10.29607464 -9.389718512 1.009834007 0.993458808 1.260305907 0.063023308 0.135878816 0.448975184 0.786240949 0.089352579 0.020728378 4.08E-10 9.389718512 0.266847099 TVNLSVTPS(ph)PAPR ddPTM_HeLa_SAHA_4h_R1 1 TVNLSVTPSPAPR 13 0 Q8IZ21-3;Q8IZ21;Q8IZ21-2 Q8IZ21-3 PHACTR4 Phosphatase and actin regulator 4 1 0 TVNLS(0.003)VT(0.124)PS(0.873)PAPR 121.92 0.00027682 0 1240.8 1400.1 1097.8 860.57 1074.4 972.04 1189.4 832.05 1165.4 1381.1 TRUE FALSE FALSE 1371.313037 1445.464159 1247.402467 877.2275768 992.0797041 889.2167235 1055.565582 810.7673658 1157.289887 1440.64598 0.951873712 1.003344457 0.865863289 0.608912661 0.688635319 0.617234724 0.732702965 0.562780431 0.803313168 1 10.49250014 -6.432334625 3.28012837 0.978047877 0.648280181 0.790337702 0.07227563 0.045032626 0.92655604 0.006858916 0.010649249 3.70E-07 6.432334625 -0.329767696 TVNS(ph)NCEINNR ddPTM_HeLa_SAHA_4h_R1 1 TVNSNCEINNR 11 0 A0A5H1ZRS1;A0A4W8VX11;Q15154-5;Q15154-4;Q15154-2;Q15154;E7EV93 A0A5H1ZRS1 PCM1 Pericentriolar material 1 protein 1 0 T(0.001)VNS(0.999)NCEINNR 156.52 0.00027807 2118200 396.4 430.72 378.59 568.05 417.08 755.8 478.71 539.85 567.22 497.82 TRUE FALSE FALSE 438.0951707 444.6756106 430.1822736 579.0454292 385.1234205 691.401588 424.8442909 526.0414187 563.2726698 519.2834565 0.84365324 0.856325394 0.828415133 1.115085455 0.741643924 1.331453139 0.818135617 1.013014014 1.084711371 1 9.020378454 -6.276583988 24.83859591 0.911279671 0.997179408 0.053675811 0.166028992 1637.013663 2684853.691 0.022920923 0.035099426 5.29E-07 6.276583988 0.085899737 TVPEELVKPEELSK ddPTM_HeLa_SAHA_4h_R1 1 TVPEELVKPEELSK 14 1 H0YGF3;F5GY56;Q9UMS4 H0YGF3 PRPF19 Pre-mRNA-processing factor 19 0 0 90.759 0.013306 946050 287.98 320.74 124.48 154.34 380.1 360.53 342.21 270.83 156.98 358.62 FALSE FALSE TRUE 318.2710577 331.1321864 141.4434861 157.3274739 350.9768201 329.8108157 303.7036302 263.9025608 155.8875634 374.0818632 0.850805904 0.885186423 0.378108377 0.420569638 0.938235329 0.881654119 0.811864086 0.705467403 0.416720453 1 8.547210211 -7.505173799 1.476028775 0.948612493 0.710032732 0 0.244375131 0.409009042 1.771546023 0.039360921 0.042258193 3.12E-08 7.505173799 -0.23857976 TVPST(ph)PTLVVPHR ddPTM_HeLa_SAHA_4h_R1 4 TVPSTPTLVVPHR 13 0 P12270 P12270 TPR Nucleoprotein TPR 1 0 TVPS(0.003)T(0.997)PTLVVPHR;TVPS(0.003)T(0.997)PTLVVPHR;T(0.001)VPS(0.042)T(0.957)PTLVVPHR;TVPST(1)PTLVVPHR ;;; 203.85 6.48E-11 99388900 7800.9 25736.8 12863.6 6982.7 18775.8 14493.9 15050.2 9591.6 16356.8 20338.9 TRUE FALSE FALSE 8621.434454 26570.68921 14616.58442 7117.860256 17337.20226 13258.93818 13356.71189 9346.26076 16242.9717 21215.80952 0.406368395 1.252400442 0.688947759 0.335497934 0.81718316 0.624955563 0.629564094 0.440532837 0.765606973 1 14.37285211 -6.516293328 24.95940122 0.762218566 0.581967453 0.206294861 0.237413127 616.6066078 2337004.464 0.044713204 0.064608652 3.05E-07 6.516293328 -0.180251113 TVPVEAVTSK ddPTM_HeLa_SAHA_4h_R1 2 TVPVEAVTSK 10 0 Q14247;Q14247-3;Q14247-2 Q14247 CTTN Src substrate cortactin 0 0 ; ; 131.52 0.0091463 7441800 3919.1 3774.4 3710.8 3640.6 3649.2 4101 3491.4 3620.1 3650.8 3372.4 FALSE FALSE TRUE 4331.328919 3896.693036 4216.488499 3711.069077 3369.599084 3751.571728 3098.538483 3527.503084 3625.393786 3517.800668 1.231260474 1.107707174 1.198614958 1.054940125 0.957870955 1.066453754 0.880816958 1.002758091 1.030585337 1 11.78045802 -5.960857389 4.662215616 1.118395968 0.97776655 0.409420872 0.077113918 0.186276304 9.35038278 0.014449187 0.026344203 1.09E-06 5.960857389 -0.140629418 TVQIEASTVEIEER ddPTM_HeLa_SAHA_4h_R1 1 TVQIEASTVEIEER 14 0 B5MCX3;Q15019;Q15019-3;Q15019-2;C9J2Q4;C9IY94;C9J938;H7C310;C9JB25;B5MD47;C9JZI2;C9IZU3;C9JQJ4 B5MCX3 2-Sep Septin-2 0 0 150.9 0.00042108 3849800 237.17 364.98 338.09 403.15 453.45 478.74 496.04 416.33 369.92 406.37 FALSE FALSE TRUE 262.1166288 376.8055915 384.1631445 410.9535512 418.706759 437.9486587 440.2242737 405.6808814 367.3456966 423.8905994 0.618359145 0.888921793 0.90627899 0.969480219 0.987770806 1.033164357 1.038532759 0.957041468 0.866604962 1 8.727548162 -6.48182393 1.873462107 0.819685484 1.004572259 0.387955272 0.09131006 0.362086713 2.526504482 0.023657552 0.038150074 3.30E-07 6.48182393 0.184886775 TVQS(ph)LEIDLDSMR ddPTM_HeLa_SAHA_4h_R1 2 TVQSLEIDLDSMR 13 0 P05783;F8VZY9;CON__H-INV:HIT000015463 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 TVQS(1)LEIDLDSMR;T(0.007)VQS(0.993)LEIDLDSMR ; 257.48 3.43E-42 14933100 1240.44 1203.73 1335.42 1658.04 1348.88 2076.22 1603.61 1805.79 1422.25 1495.6 TRUE FALSE FALSE 1370.915171 1242.731642 1517.404083 1690.133762 1245.529106 1899.314376 1423.167582 1759.600507 1412.352446 1560.082635 0.878745228 0.796580651 0.972643403 1.083361691 0.798373803 1.217444725 0.912238589 1.127889297 0.905306177 1 10.60740673 -5.264643339 24.993047 0.935055358 1.068495637 0.317310528 0.109392915 297.6521789 2321896.911 0.015150145 0.035236713 5.44E-06 5.264643339 0.133440279 TVQSLEIDLDSMR ddPTM_HeLa_SAHA_4h_R1 7 TVQSLEIDLDSMR 13 0 P05783;F8VZY9;CON__H-INV:HIT000015463 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 ;;;;;; ;;;;;; 274.59 7.70E-54 227728800 7375.464 7254.29 7285.91 7912.73 7652.2 8419.33 8027.94 8720.66 8135.83 7346.78 FALSE FALSE TRUE 8151.249143 7489.333756 8278.795871 8065.892331 7065.890089 7701.955718 7124.615063 8497.598145 8079.212097 7663.53564 1.063640795 0.977268732 1.080284122 1.052502749 0.922014384 1.005013362 0.929677292 1.108835209 1.05424082 1 12.90379443 TVS(ph)ASSTGDLPK ddPTM_HeLa_SAHA_4h_R1 1 TVSASSTGDLPK 12 0 P78362;H7C5L6;P78362-2 P78362 SRPK2 SRSF protein kinase 2;SRSF protein kinase 2 N-terminal;SRSF protein kinase 2 C-terminal 1 0 T(0.042)VS(0.72)AS(0.215)S(0.013)T(0.011)GDLPK 122.52 0.0014141 6533400 2088.5 1966.9 1844.7 2396.7 2499.6 2428.9 3290.1 2467.5 2365.2 1931.4 TRUE FALSE FALSE 2308.178012 2030.628851 2096.086109 2443.091594 2308.081188 2221.944055 2919.889289 2404.384923 2348.740381 2014.672106 1.145684206 1.007920269 1.040410548 1.212649734 1.145636146 1.102881232 1.449312412 1.193437342 1.16581769 1 10.97632934 -1 0.199242135 1.019563613 2.418102656 0.309981529 0.102571478 35.05867374 0.401433659 0.090585998 15.40742045 0.1 1 1.398539044 TVS(ph)EPNLK ddPTM_HeLa_SAHA_4h_R1 2 TVSEPNLK 8 0 J3KPH8;Q8WUI4-8;Q8WUI4-5;Q8WUI4-6;Q8WUI4-7;Q8WUI4;Q8WUI4-4;Q8WUI4-3;F8VWY3;C9JEB6;H0YI41;C9JAH2;C9JF80 J3KPH8 HDAC7 Histone deacetylase;Histone deacetylase 7 1 0 T(0.112)VS(0.888)EPNLK;T(0.387)VS(0.613)EPNLK ; 125.75 0.0026594 142955000 6699.7 6471.8 5458.3 6046.7 6979.6 7001.2 6874.7 5872.1 6547 6338.2 TRUE FALSE FALSE 7404.405185 6681.490566 6202.128698 6163.742622 6444.824556 6404.658372 6101.140663 5721.900185 6501.438894 6611.47082 1.119933126 1.010590646 0.938086073 0.932280092 0.974794373 0.968719147 0.922811403 0.865450418 0.983357421 1 12.69075554 -6.895752138 3.741355845 1.057013038 0.936526804 0.495019772 0.045392736 0.133387364 3.594856578 0.008611159 0.011477681 1.27E-07 6.895752138 -0.120486234 TVS(ph)FEALPIMR ddPTM_HeLa_SAHA_4h_R1 2 TVSFEALPIMR 11 0 O15084-2;O15084;O15084-4;O15084-1 O15084-2 ANKRD28 Serine/threonine-protein phosphatase 6 regulatory ankyrin repeat subunit A 1 0 T(0.085)VS(0.915)FEALPIMR;T(0.422)VS(0.578)FEALPIMR ; 150.09 0.00052105 10399000 1183.43 1153.28 1025.58 1484.77 1448.37 1387.95 1333.95 1599.5 1011.13 1220.47 TRUE FALSE FALSE 1307.908597 1190.647029 1165.340701 1513.50987 1337.396204 1269.688852 1183.850435 1558.587106 1004.093464 1273.090435 1.027349324 0.935241517 0.915363646 1.188847099 1.050511548 0.99732809 0.929902859 1.224254824 0.788705529 1 10.31411919 -6.287403521 24.99216415 0.999530572 1.06390426 0.196974139 0.109694856 1263.950962 1216631.112 0.013071782 0.019972129 5.16E-07 6.287403521 0.064373688 TVS(ph)LSTRSSR ddPTM_HeLa_SAHA_4h_R1 1 TVSLSTRSSR 10 1 M0QX37 M0QX37 MAP1S 1 0 TVS(0.464)LS(0.464)T(0.014)RS(0.057)S(0.002)R 87.216 0.012203 3114000 929.44 678.98 979.44 1023.8 1229.8 330.1 1051.5 447.05 265.72 601.55 TRUE FALSE FALSE 1027.202764 700.9793975 1112.912982 1043.617129 1135.57299 301.9736229 933.1824526 435.6151083 263.8708329 627.4857644 1.637013653 1.117123985 1.773606742 1.663172599 1.809719127 0.481243783 1.487177089 0.694223093 0.420520827 1 9.293438919 -5.264876062 24.99485123 1.386750309 0.947510915 0.160104271 0.468644287 354.3667788 2577303.902 0.055558084 0.129074386 5.43E-06 5.264876062 -0.439239394 TVS(ph)PPIR ddPTM_HeLa_SAHA_4h_R1 1 TVSPPIR 7 0 Q9UHB6;F8VQE1;Q9UHB6-2;F8VS07;Q9UHB6-3;Q9UHB6-4;Q9UHB6-5 Q9UHB6;Q9UHB6-4 LIMA1 LIM domain and actin-binding protein 1 1 0 TVS(1)PPIR 93.598 0.013825 11188000 6274.2 5583.3 5598.9 5466.5 6267 5633.2 6227.5 5752.1 6182 5613.4 TRUE FALSE FALSE 6934.149143 5764.202583 6361.888934 5572.312012 5786.823814 5153.219668 5526.76531 5604.969611 6138.978959 5855.421145 1.184227227 0.98442152 1.086495536 0.951650082 0.988284817 0.880076691 0.943871529 0.957227409 1.048426545 1 12.51555722 -6.213146992 1.451576646 1.083074 0.933281277 0.470486018 0.059020182 0.289310404 1.195239953 0.012660463 0.024244754 6.12E-07 6.213146992 -0.149792724 TVS(ph)PSTIR ddPTM_HeLa_SAHA_4h_R1 1 TVSPSTIR 8 0 Q96JH7 Q96JH7 VCPIP1 Deubiquitinating protein VCIP135 1 0 T(0.013)VS(0.927)PS(0.046)T(0.013)IR 96.665 0.013337 99785000 2705.7 2889.6 2512.5 3376 3050.9 3362.8 3411.6 3281.4 3354 2982.5 TRUE FALSE FALSE 2990.29794 2983.224936 2854.890415 3441.347362 2817.140701 3076.270521 3027.717789 3197.466539 3330.659241 3111.090171 0.961173664 0.958900184 0.917649524 1.106154812 0.905515606 0.988807894 0.973201554 1.02776402 1.070576248 1 11.60320449 TVS(ph)QQS(ph)FDGVSLDSSGPEDR ddPTM_HeLa_SAHA_4h_R1 1 TVSQQSFDGVSLDSSGPEDR 20 0 H7C1J4;Q6BDS2 H7C1J4 UHRF1BP1 UHRF1-binding protein 1 2 0 T(0.012)VS(0.845)QQS(0.993)FDGVS(0.149)LDS(0.001)SGPEDR 104.41 0.0076072 5694100 775.05 614.72 626.83 913.75 851.11 1076 809.41 872.33 810.71 850.26 TRUE FALSE FALSE 856.5733151 634.6373313 712.251128 931.4369526 785.8981357 984.3187466 718.3330565 850.0170617 805.0682031 886.9188697 0.965785422 0.715552857 0.803062323 1.050194087 0.886099239 1.109818249 0.809919691 0.958393254 0.907713468 1 9.792658331 -7.501250256 23.22611597 0.984905508 0.904983984 0.031025869 0.113025698 148.5558726 159533.7019 0.019168726 0.020585652 3.15E-08 7.501250256 -0.079921524 TVS(ph)SPIPYTPSPSSSR ddPTM_HeLa_SAHA_4h_R1 1 TVSSPIPYTPSPSSSR 16 0 Q16204 Q16204 CCDC6 Coiled-coil domain-containing protein 6 1 0 T(0.241)VS(0.38)S(0.38)PIPYTPSPSSSR 216.15 1.71E-20 7848600 574.85 728.9 429.7 474.41 569.42 1173.9 509.74 888.56 1387.2 654.77 TRUE FALSE FALSE 635.3153605 752.5168382 488.2572782 483.5928916 525.7911626 1073.877116 452.3827136 865.8319218 1377.546362 683.0003391 0.930183082 1.101781061 0.714871209 0.708041949 0.769825625 1.572293679 0.66234625 1.267688861 2.016904361 1 9.415742484 TVS(ph)TSSQPEENVDR ddPTM_HeLa_SAHA_4h_R1 1 TVSTSSQPEENVDR 14 0 P42684-2;P42684-6;P42684-3;P42684;P42684-4;P42684-7;P42684-10;P42684-5 P42684-2 ABL2 Abelson tyrosine-protein kinase 2 1 0 TVS(0.372)T(0.372)S(0.238)S(0.019)QPEENVDR 204.18 3.67E-12 5282800 1635 1671.7 1271 1368.2 1767.6 2104.2 1969.3 1617 1640.4 1798.5 TRUE FALSE FALSE 1806.976802 1725.864177 1444.205261 1394.683489 1632.16687 1924.910322 1747.709181 1575.639481 1628.984323 1876.042137 0.963185616 0.919949581 0.769814938 0.743417998 0.870005443 1.026048554 0.931593778 0.839874249 0.868309027 1 10.87347652 -7.162900943 3.162949586 0.983313399 0.867811081 0.107023473 0.083352035 0.2470713 4.719281858 0.014178803 0.017430137 6.87E-08 7.162900943 -0.115502318 TVSAS(ph)STGDLPK ddPTM_HeLa_SAHA_4h_R1 1 TVSASSTGDLPK 12 0 P78362;H7C5L6;P78362-2 P78362 SRPK2 SRSF protein kinase 2;SRSF protein kinase 2 N-terminal;SRSF protein kinase 2 C-terminal 1 0 TVSAS(0.965)S(0.035)TGDLPK 215.77 1.36E-15 35573000 3552.3 3434.4 3620.2 3795 3690.8 4594.1 5023.5 4468.3 4560.2 3881.5 TRUE FALSE FALSE 3925.947213 3545.676813 4113.542003 3868.457713 3408.011701 4202.656834 4458.242559 4354.007356 4528.465197 4048.850461 0.969644903 0.875724319 1.015977755 0.955445935 0.841723283 1.037987665 1.101113168 1.075368774 1.118457014 1 11.98329664 -5.007863789 24.0450903 0.967538538 1.083568392 0.320783378 0.071387352 150.8833183 461365.1844 0.007625651 0.021504384 9.82E-06 5.007863789 0.116029854 TVSDNS(ph)LSNSR ddPTM_HeLa_SAHA_4h_R1 1 TVSDNSLSNSR 11 0 B7ZL14;H0Y7W6;Q96RU3-4;Q96RU3-3;Q96RU3-5;Q96RU3-2;Q96RU3 B7ZL14 FNBP1 Formin-binding protein 1 1 0 T(0.008)VS(0.445)DNS(0.534)LS(0.013)NSR 159.66 0.00021742 74756000 1293 1442.8 1017.1 1073.7 1428 1539 1509.3 1098.7 1552.2 1039.5 TRUE FALSE FALSE 1429.003672 1489.547667 1155.705091 1094.483016 1318.586949 1407.868542 1339.469592 1070.596845 1541.398114 1084.317932 1.317882542 1.373718558 1.065836003 1.009374634 1.216051962 1.298390905 1.235310744 0.987345882 1.421537049 1 10.08257212 -9.554823122 1.359350686 1.001241522 1.206561238 0 0.180393925 0.488824501 1.633933107 0.090326537 0.021897774 2.79E-10 9.554823122 0.205319716 TVSDNS(ph)LSNSRGEGKPDLK ddPTM_HeLa_SAHA_4h_R1 1 TVSDNSLSNSRGEGKPDLK 19 2 B7ZL14;H0Y7W6;Q96RU3-4;Q96RU3-3;Q96RU3-5;Q96RU3-2;Q96RU3 B7ZL14 FNBP1 Formin-binding protein 1 1 0 T(0.02)VS(0.388)DNS(0.456)LS(0.114)NS(0.022)RGEGKPDLK 57.525 0.019137 9779300 1693 722.55 1482.6 1506.7 1400 1468 1537.1 1602.2 654.26 1285.2 TRUE FALSE FALSE 1871.077508 745.9610941 1684.641007 1535.864357 1292.732302 1342.918141 1364.141463 1561.218044 649.7069514 1340.611262 1.395689833 0.556433558 1.256621554 1.145644827 0.964285725 1.001720767 1.017551845 1.164556862 0.48463486 1 10.38867524 TVSGPGT(ph)PEPR ddPTM_HeLa_SAHA_4h_R1 2 TVSGPGTPEPR 11 0 Q9H3U1 Q9H3U1 UNC45A Protein unc-45 homolog A 1 0 T(0.002)VS(0.001)GPGT(0.998)PEPR;T(0.009)VSGPGT(0.991)PEPR ; 115.92 0.0047505 17514300 3115.1 3666.1 2530.4 3587 4013.7 4579.1 4095.1 3468.2 4886.3 3354.7 TRUE FALSE FALSE 3442.760511 3784.884045 2875.229734 3656.431572 3706.171173 4188.934919 3634.30857 3379.488466 4852.29584 3499.337535 0.983832076 1.081600162 0.821649728 1.044892508 1.059106513 1.197065124 1.038570454 0.965750926 1.386632696 1 11.77286611 -6.014904058 24.64386138 0.986236294 1.070069629 0 0.149939367 685.3770545 1133273.178 0.011489161 0.019496899 9.66E-07 6.014904058 0.083833334 TVSGPGTPEPRPAT(ph)PGASSVEQLR ddPTM_HeLa_SAHA_4h_R1 2 TVSGPGTPEPRPATPGASSVEQLR 24 1 Q9H3U1 Q9H3U1 UNC45A Protein unc-45 homolog A 1 0 TVSGPGTPEPRPAT(0.911)PGAS(0.053)S(0.036)VEQLR;TVSGPGTPEPRPAT(0.937)PGAS(0.031)S(0.031)VEQLR ; 86.707 0.00017018 40162000 2072.2 1819.79 1519.06 1941.09 2111.75 2472.4 2145.8 2177.7 1874.37 2045.74 TRUE FALSE FALSE 2290.163504 1878.75239 1726.069586 1978.662604 1949.948171 2261.737611 1904.348937 2121.997587 1861.326107 2133.941863 1.073208012 0.880414046 0.808864391 0.927233604 0.913777552 1.059887174 0.892409006 0.994402717 0.872247805 1 11.05930516 -7.263111966 24.98841146 1.03457045 0.92435143 0 0.082898689 120.8551314 1805568.699 0.011645214 0.013680623 5.46E-08 7.263111966 -0.11021902 TVSGPGTPEPRPAT(ph)PGASSVEQLRK ddPTM_HeLa_SAHA_4h_R1 2 TVSGPGTPEPRPATPGASSVEQLRK 25 2 Q9H3U1 Q9H3U1 UNC45A Protein unc-45 homolog A 1 0 TVSGPGT(0.003)PEPRPAT(0.9)PGAS(0.049)S(0.049)VEQLRK;TVSGPGT(0.006)PEPRPAT(0.981)PGAS(0.006)S(0.006)VEQLRK ; 62.099 0.0058212 127230000 3744.4 3036 3600.7 3267.9 3426.2 3775.8 4033.6 4396.6 2450.6 3483.5 TRUE FALSE FALSE 4138.253172 3134.368392 4091.384644 3331.15493 3163.685296 3454.080598 3579.728712 4284.141338 2433.546075 3633.690733 1.138856737 0.86258535 1.125958411 0.916741455 0.870653429 0.95057088 0.985149528 1.179005494 0.669717445 1 11.82721992 -7.282661338 24.9699985 1.065571232 0.981579497 0 0.160572517 1265.066808 1488488.274 0.017838864 0.020409959 5.22E-08 7.282661338 -0.083991735 TVSLGAGAKDELHIVEAEAMNYEGS(ph)PIK ddPTM_HeLa_SAHA_4h_R1 3 TVSLGAGAKDELHIVEAEAMNYEGSPIK 28 1 P06748;P06748-3;P06748-2 P06748 NPM1 Nucleophosmin 1 0 TVSLGAGAKDELHIVEAEAMNY(0.001)EGS(0.999)PIK;TVSLGAGAKDELHIVEAEAMNY(0.128)EGS(0.872)PIK;TVSLGAGAKDELHIVEAEAMNY(0.137)EGS(0.863)PIK ;; 90.799 1.31E-06 15052500 4189.94 6455.46 4343.37 6117.2 6935.56 7277.49 7720.9 4806.2 8160.5 5906.68 TRUE FALSE FALSE 4630.657113 6664.62114 4935.261844 6235.607252 6404.158891 6657.40691 6852.124012 4683.264363 8103.710416 6161.345881 0.751565843 1.081682682 0.801003862 1.012052784 1.039409086 1.080511797 1.112114811 0.760104116 1.31525004 1 12.58902981 -6.21020002 17.0590698 0.892226 1.013593151 0 0.182667819 16.07533105 5350.865754 0.020388275 0.033809745 6.16E-07 6.21020002 0.121367151 TVSLPLS(ph)SPNIK ddPTM_HeLa_SAHA_4h_R1 1 TVSLPLSSPNIK 12 0 Q8IWZ3;Q8IWZ3-4;Q8IWZ3-6;H0Y785;H0Y472;H0Y4P6;A0A0A0MQZ8;H0Y7Y3 Q8IWZ3 ANKHD1 Ankyrin repeat and KH domain-containing protein 1 1 0 TVSLPLS(0.932)S(0.068)PNIK 225.79 1.95E-22 14526000 5417.3 5558.8 5370.2 5813 5806.7 5539.4 5068.7 5011 5665.7 5218.7 TRUE FALSE FALSE 5987.116469 5738.908767 6102.022889 5925.519021 5361.7919 5067.411956 4498.356536 4882.825876 5626.271932 5443.703697 1.099824091 1.054228718 1.120932224 1.088508734 0.984952929 0.930875786 0.82634118 0.896967607 1.033537504 1 12.41037283 -5.275829728 2.044631997 1.057102534 0.864282807 0.811915881 0.03930445 0.127879333 1.025313734 0.007197279 0.022071104 5.30E-06 5.275829728 -0.192819727 TVSLPLSS(ph)PNIK ddPTM_HeLa_SAHA_4h_R1 1 TVSLPLSSPNIK 12 0 Q8IWZ3;Q8IWZ3-4;Q8IWZ3-6;H0Y785;H0Y472;H0Y4P6;A0A0A0MQZ8;H0Y7Y3 Q8IWZ3 ANKHD1 Ankyrin repeat and KH domain-containing protein 1 1 0 TVSLPLS(0.204)S(0.796)PNIK 202.61 2.07E-10 18201000 3242.6 3426.9 2969.1 3275.8 3414.4 3589.2 3035.2 2856.7 3722.7 2975.9 TRUE FALSE FALSE 3583.671546 3537.933808 3373.713486 3339.207846 3152.78941 3283.379968 2693.671308 2783.62975 3696.793428 3104.205613 1.154456886 1.139722766 1.086820239 1.075704468 1.01565096 1.057719873 0.867748997 0.896728535 1.190898378 1 11.6000084 -4.793666836 5.588656253 1.075975133 0.881098179 0.668188468 0.057963724 0.083653951 6.942807221 0.009007651 0.029412571 1.61E-05 4.793666836 -0.194876953 TVSLSTRSS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 TVSLSTRSSR 10 1 M0QX37 M0QX37 MAP1S 1 0 TVS(0.167)LS(0.167)T(0.005)RS(0.239)S(0.42)R 85.672 0.012956 5774500 1246.5 1199.1 1367.9 1502.9 1474.1 383.92 1785.6 565.03 663.49 886.44 TRUE FALSE FALSE 1377.612589 1237.951627 1554.310288 1531.990803 1361.154776 351.2078561 1584.679589 550.5773508 658.8727191 924.6587665 1.489860518 1.338819975 1.680955553 1.656817475 1.472061722 0.379824286 1.713799345 0.595438415 0.712557695 1 9.852777246 -4.234496023 23.52530403 1.284546712 0.595436299 0.18663138 0.422718059 4890.485312 4269926.659 0.053284941 5.399142675 5.83E-05 4.234496023 -0.689110413 TVSLTPSPT(ph)TQVETPDLVDHDNTSPLFR ddPTM_HeLa_SAHA_4h_R1 2 TVSLTPSPTTQVETPDLVDHDNTSPLFR 28 0 Q05209-2;Q05209-3;Q05209;H3BM04 Q05209-2 PTPN12 Tyrosine-protein phosphatase non-receptor type 12 1 0 TVSLT(0.005)PS(0.043)PT(0.475)T(0.475)QVETPDLVDHDNTSPLFR;TVSLT(0.001)PS(0.016)PT(0.491)T(0.491)QVETPDLVDHDNTSPLFR ; 129.08 2.44E-09 23526000 2451.7 2842.4 2187.4 2661.3 3012.3 3600.8 3276.2 2867.2 3932.2 2959.1 TRUE FALSE FALSE 2709.581055 2934.495625 2485.487481 2712.81331 2781.498225 3293.991582 2907.553354 2793.861176 3904.8355 3086.681282 0.877829878 0.950696025 0.805229712 0.87887704 0.901129067 1.067162846 0.941967468 0.905134324 1.265059507 1 11.59184081 -4.249798063 21.18721041 0.933986983 0.90513417 0 0.124857611 1099.290644 2000357.563 0.010454177 0.186136915 5.63E-05 4.249798063 -0.028852812 TVSLTPSPTTQVET(ph)PDLVDHDNTSPLFR ddPTM_HeLa_SAHA_4h_R1 1 TVSLTPSPTTQVETPDLVDHDNTSPLFR 28 0 Q05209-2;Q05209-3;Q05209;H3BM04 Q05209-2 PTPN12 Tyrosine-protein phosphatase non-receptor type 12 1 0 TVSLTPSPT(0.008)T(0.008)QVET(0.984)PDLVDHDNTSPLFR 109.42 1.96E-07 5933700 462.46 734.99 304.19 316.71 516.82 580.04 258.81 408.49 561.01 511.72 TRUE FALSE FALSE 511.1036646 758.8041582 345.643429 322.84038 477.2213633 530.6173288 229.6880176 398.0414173 557.1058857 533.7827535 0.957512511 1.421559901 0.647535775 0.604816057 0.894036685 0.994069826 0.430302433 0.745699284 1.043694054 1 9.060108883 TVSPGSVS(ph)PIHGQGQVVENLK ddPTM_HeLa_SAHA_4h_R1 3 TVSPGSVSPIHGQGQVVENLK 21 0 A0A087WVF7;Q9NZM3-4;Q9NZM3-3;Q9NZM3-2;Q9NZM3 A0A087WVF7 ITSN2 Intersectin-2 1 0 T(0.015)VS(0.023)PGS(0.236)VS(0.725)PIHGQGQVVENLK;T(0.003)VS(0.009)PGS(0.435)VS(0.553)PIHGQGQVVENLK;TVSPGS(0.005)VS(0.994)PIHGQGQVVENLK ;; 106.72 0.00014926 38445700 5249.03 5809.86 4167.95 5107.89 6219.58 6139.63 6689.39 5588.78 5950.31 5583.49 TRUE FALSE FALSE 5801.147059 5998.103276 4735.93652 5206.760597 5743.037124 5616.498983 5936.682232 5445.8271 5908.901308 5824.221579 0.99603818 1.029854925 0.813144977 0.893983947 0.986060892 0.964334702 1.01930913 0.935030892 1.014539236 1 12.50784953 TVSQQS(ph)FDGVSLDSSGPEDR ddPTM_HeLa_SAHA_4h_R1 1 TVSQQSFDGVSLDSSGPEDR 20 0 H7C1J4;Q6BDS2 H7C1J4 UHRF1BP1 UHRF1-binding protein 1 1 0 T(0.001)VS(0.001)QQS(0.995)FDGVS(0.002)LDSSGPEDR 229.48 8.65E-33 6150800 523.07 616.22 509.51 627.53 626.11 834.26 589.8 869.65 628 806.16 TRUE FALSE FALSE 578.0889025 636.1859323 578.9433694 639.6767506 578.1375871 763.1763546 523.4341517 847.4056122 623.6296969 840.9175029 0.687450196 0.756537865 0.688466309 0.760689067 0.687508091 0.907551992 0.622456008 1.007715512 0.741606275 1 9.715820463 -9.3688781 1.049645837 1.002445845 0.754217511 0 0.134058191 0.378810744 0.735042591 0.070519604 0.017536025 4.28E-10 9.3688781 -0.248228334 TVSQQSFDGVS(ph)LDSSGPEDR ddPTM_HeLa_SAHA_4h_R1 1 TVSQQSFDGVSLDSSGPEDR 20 0 H7C1J4;Q6BDS2 H7C1J4 UHRF1BP1 UHRF1-binding protein 1 1 0 TVSQQS(0.05)FDGVS(0.95)LDSSGPEDR 261.76 2.01E-52 7301700 578.8 492.11 615.97 452.28 555.01 652.1 695.58 532.1 570.36 574.33 TRUE FALSE FALSE 639.6808396 508.0546869 699.9111838 461.0345334 512.4852537 596.5374114 617.3115077 518.4896525 566.3908183 599.092177 1.06775028 0.84804093 1.168286302 0.769555256 0.855436398 0.995735605 1.030411565 0.865458893 0.945415147 1 9.226634185 -6.26155928 25 1.025375626 0.912854267 0.182268308 0.10366825 12.23839322 2551770.265 0.014945263 0.023739174 5.48E-07 6.26155928 -0.112521359 TVSS(ph)DGCSTPSR ddPTM_HeLa_SAHA_4h_R1 1 TVSSDGCSTPSR 12 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 T(0.006)VS(0.192)S(0.802)DGCSTPSR 128.57 0.0011209 5611600 227.42 345.04 294.05 296.23 454.08 495.19 286.49 500.35 538.25 227.68 TRUE FALSE FALSE 251.341079 356.2195224 334.1216027 301.96396 419.2884885 452.9970261 254.2533912 487.5517715 534.5042744 237.496399 1.058294273 1.499894415 1.406849131 1.271446478 1.765451982 1.907384819 1.070556826 2.05288069 2.250578437 1 7.891761829 -6.859387789 0.712213058 0.998564516 1.657569152 0 0.477775286 0.367652765 0.381317583 0.060020723 0.094221883 1.38E-07 6.859387789 0.659004636 TVSS(ph)PPT(ph)SPRPGSAATVSASTSNIIPPR ddPTM_HeLa_SAHA_4h_R1 3 TVSSPPTSPRPGSAATVSASTSNIIPPR 28 1 O76094-2;O76094 O76094-2 SRP72 Signal recognition particle subunit SRP72 2 0 T(0.029)VS(0.159)S(0.764)PPT(0.55)S(0.497)PRPGS(0.001)AATVSASTSNIIPPR;T(0.006)VS(0.059)S(0.828)PPT(0.554)S(0.553)PRPGSAATVSASTSNIIPPR;T(0.002)VS(0.046)S(0.873)PPT(0.541)S(0.537)PRPGS(0.001)AATVSASTSNIIPPR ;; 106.99 9.59E-07 361149000 5727.79 6017.19 6195.32 6671.22 6575.89 6379 7074.9 6476.66 6341.18 6690.8 TRUE FALSE FALSE 6330.265232 6212.150904 7039.585946 6800.35111 6072.046729 5835.473313 6278.813632 6310.996415 6297.051212 6979.273132 0.907009242 0.890085656 1.008641704 0.974363803 0.870011334 0.836114765 0.899637185 0.904248379 0.902250291 1 12.76886108 -13.52287875 0.147002482 1.328810534 0.875348188 0.00237079 0.053587067 60.21431332 0.607167691 5.766404535 0.123626242 3.00E-14 13.52287875 -0.453462346 TVSS(ph)PPTSPRPGSAATVSASTSNIIPPR ddPTM_HeLa_SAHA_4h_R1 1 TVSSPPTSPRPGSAATVSASTSNIIPPR 28 1 O76094-2;O76094 O76094-2 SRP72 Signal recognition particle subunit SRP72 1 0 T(0.092)VS(0.106)S(0.395)PPT(0.328)S(0.079)PRPGSAATVSASTSNIIPPR 77.719 1.47E-05 19763000 806.92 849.01 773.82 1015.9 1035.8 1144.5 859.26 1198 1093.8 1022 TRUE FALSE FALSE 891.7955479 876.5184811 879.2721597 1035.564214 956.4372278 1046.982161 762.5738034 1167.356895 1086.188157 1066.063422 0.83653142 0.822201065 0.8247841 0.971390813 0.897167287 0.982101196 0.715317483 1.095016367 1.018877615 1 10.05807755 -9.4572859 1.225562022 0.999228635 0.883160133 0.167766238 0.100426218 0.638949324 1.734419828 0.061205165 0.015580834 3.49E-10 9.4572859 -0.116068502 TVSSDGCST(ph)PSR ddPTM_HeLa_SAHA_4h_R1 2 TVSSDGCSTPSR 12 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 TVSSDGCS(0.002)T(0.9)PS(0.098)R;TVSSDGCS(0.183)T(0.814)PS(0.003)R ; 150.09 0.00065081 5642500 2762.5 3928.7 2214.2 3263.7 3559.5 4392.8 3440.3 2865.7 4967.8 3991.5 TRUE FALSE FALSE 3053.072425 4055.992458 2515.939645 3326.873633 3286.771879 4018.508727 3053.18839 2792.399543 4933.228675 4163.593099 0.733278289 0.974156783 0.604271259 0.799039088 0.789407562 0.965154046 0.733306141 0.670670615 1.184848893 1 12.02361337 -9.406318277 0.873098699 1.015378567 0.783904419 0.459135624 0.125054258 0.624109431 0.755470688 0.10161114 0.019855934 3.92E-10 9.406318277 -0.231474148 TVSSPIPYTPSPSS(ph)SR ddPTM_HeLa_SAHA_4h_R1 1 TVSSPIPYTPSPSSSR 16 0 Q16204 Q16204 CCDC6 Coiled-coil domain-containing protein 6 1 0 TVSS(0.047)PIPYT(0.001)PS(0.017)PS(0.002)S(0.595)S(0.339)R 209.53 6.62E-16 9467400 820.1 1423 910.37 1140.7 1052.4 1649.5 999.67 1527.8 2049.9 1344.7 TRUE FALSE FALSE 906.3618808 1469.106134 1034.430483 1162.779898 971.7653394 1508.95332 887.1845006 1488.721088 2035.634579 1402.676598 0.646165967 1.047359125 0.737468982 0.828972195 0.692793578 1.075767089 0.632493978 1.061343071 1.451250119 1 10.4539667 -4.204705551 21.6784036 0.834298573 1.061351134 0 0.248462271 18514.23731 7073176.69 0.022672669 35.29044549 6.24E-05 4.204705551 0.22705256 TVSSPPT(ph)S(ph)PRPGSAATVSASTSNIIPPR ddPTM_HeLa_SAHA_4h_R1 1 TVSSPPTSPRPGSAATVSASTSNIIPPR 28 1 O76094-2;O76094 O76094-2 SRP72 Signal recognition particle subunit SRP72 2 0 T(0.001)VS(0.013)S(0.123)PPT(0.863)S(0.869)PRPGS(0.015)AAT(0.001)VS(0.004)AS(0.008)T(0.079)S(0.024)NIIPPR 89.923 1.45E-05 47052000 1434.8 1122.1 1326.8 1457.3 1377.8 1285.8 1592.5 1307.4 1433.9 1326 TRUE FALSE FALSE 1585.718847 1158.456776 1507.609394 1485.508149 1272.233262 1176.242606 1413.307709 1273.958601 1423.921373 1383.170349 1.146437854 0.837537312 1.089966536 1.073987849 0.919795065 0.850396053 1.02178861 0.921042446 1.029462043 1 10.43376313 -5.758377244 24.99892284 1.053497093 0.929375065 0.219379932 0.08683622 79.8697205 652035.8038 0.013654644 0.026409987 1.74E-06 5.758377244 -0.124122028 TVSSPPT(ph)SPRPGSAATVSASTSNIIPPR ddPTM_HeLa_SAHA_4h_R1 2 TVSSPPTSPRPGSAATVSASTSNIIPPR 28 1 O76094-2;O76094 O76094-2 SRP72 Signal recognition particle subunit SRP72 1 0 T(0.01)VS(0.038)S(0.13)PPT(0.405)S(0.405)PRPGS(0.001)AAT(0.003)VS(0.001)AS(0.001)T(0.004)S(0.001)NIIPPR;T(0.018)VS(0.02)S(0.066)PPT(0.447)S(0.447)PRPGSAAT(0.001)VSAST(0.001)S(0.001)NIIPPR ; 71.427 0.00038547 31857000 1321.27 1273.12 1148.9 1343.29 1357.18 1524.25 1898.28 1363.82 1562.45 1227.71 TRUE FALSE FALSE 1460.247241 1314.369923 1305.466109 1369.29132 1253.193162 1394.375325 1684.680538 1328.935459 1551.576783 1280.642586 1.14024573 1.026336261 1.019383646 1.069222073 0.978565897 1.088809118 1.315496264 1.037709876 1.211561133 1 10.32265218 -13.52275883 0.012552625 1.29E-06 1.975744895 0 0.104469868 12253.15488 12.43048995 1167.473298 818.3277369 3.00E-14 13.52275883 1.975743609 TVSTS(ph)SQPEENVDR ddPTM_HeLa_SAHA_4h_R1 1 TVSTSSQPEENVDR 14 0 P42684-2;P42684-6;P42684-3;P42684;P42684-4;P42684-7;P42684-10;P42684-5 P42684-2 ABL2 Abelson tyrosine-protein kinase 2 1 0 TVSTS(0.5)S(0.5)QPEENVDR 176.87 1.08E-06 6553100 953.16 1217.5 774.44 1087.6 971.34 1386.2 1352.7 1019.7 1106 1299.4 TRUE FALSE FALSE 1053.417742 1256.947799 879.9766501 1108.652071 896.916139 1268.087961 1200.490636 993.6175505 1098.303256 1355.423493 0.777187165 0.927346918 0.649226352 0.817937771 0.661723914 0.935565871 0.885694133 0.733067971 0.810302656 1 10.40452797 -9.3019695 0.726391421 1.019792056 0.797871868 0.018161553 0.110915256 0.70815107 0.573809021 0.097461945 0.018633409 4.99E-10 9.3019695 -0.221920188 TVT(ph)PAYNR ddPTM_HeLa_SAHA_4h_R1 2 TVTPAYNR 8 0 G3V1L9;Q07157;A0A087X0K9;G5E9E7;Q07157-2 G3V1L9 TJP1 Tight junction protein ZO-1 1 0 T(0.003)VT(0.997)PAYNR;T(0.001)VT(0.998)PAYNR ; 107.21 0.0066204 0 5269.6 5115.1 5124.6 5399.6 5820.7 5959.2 5661.3 5295.5 5727.7 5623.3 TRUE FALSE FALSE 5823.880706 5280.832596 5822.9538 5504.117066 5374.719224 5451.442634 5024.275624 5160.048778 5687.840469 5865.747983 0.992862415 0.900282899 0.992704395 0.938348712 0.916288807 0.92936871 0.856544747 0.879691523 0.969670106 1 12.51809937 -4.694803035 0.292132369 1.006928937 0.77743544 0.610414225 0.029836975 2.298727123 0.178185425 0.013973629 0.18312011 2.02E-05 4.694803035 -0.229493497 TVTAMDVVYALKR ddPTM_HeLa_SAHA_4h_R1 1 TVTAMDVVYALKR 13 1 P62805 P62805 HIST1H4A Histone H4 0 0 126.12 0.0003379 526790 152.86 237.92 318.15 451.31 500.38 206.69 421.88 0 62.96 216.96 FALSE FALSE TRUE 168.9385161 245.6287641 361.5058251 460.0457577 462.0409925 189.0788492 374.4089521 0 62.52185623 226.3142074 0.746477732 1.085343987 1.597362487 2.032774535 2.041590751 0.835470523 1.654376702 0 0.276261296 1 7.822183346 -6.96051647 5.293056381 0.881429094 1.409467565 0.181622331 0.599922248 0.262513753 18.03650426 0.090281882 0.118281677 1.10E-07 6.96051647 0.52803847 TVTCVTVVEPEAPPS(ph)PDVLQAATHR ddPTM_HeLa_SAHA_4h_R1 4 TVTCVTVVEPEAPPSPDVLQAATHR 25 0 A0A0J9YX88;E9PJ24;B7ZM65;F8WEF5;A0A0J9YYB5;A0A0J9YWD5;Q9P1Y6-2;Q9P1Y6-3;Q9P1Y6 A0A0J9YX88 PHRF1 PHD and RING finger domain-containing protein 1 1 0 TVTCVTVVEPEAPPS(1)PDVLQAATHR;TVTCVTVVEPEAPPS(1)PDVLQAATHR;TVTCVTVVEPEAPPS(1)PDVLQAATHR;TVTCVTVVEPEAPPS(1)PDVLQAATHR ;;; 223.39 2.57E-33 257879000 5205.59 5309.64 5230.25 6517.81 6824.98 6765.24 6781.56 6913.52 6350.38 5827.26 TRUE FALSE FALSE 5753.13784 5481.67582 5943.001232 6643.971637 6302.051507 6188.803492 6018.481021 6736.682169 6306.187189 6078.501697 0.946473017 0.901813653 0.977708246 1.093027849 1.036777124 1.018146214 0.990125745 1.108280051 1.037457502 1 12.56950004 -6.405306626 7.492372585 0.967235725 1.043361557 0.408336101 0.045738421 0.199211071 11.65519082 0.006616421 0.010116214 3.93E-07 6.405306626 0.076125832 TVTDVSTIDGNAAELVS(ph)GRPVSDTTEPSSPEGK ddPTM_HeLa_SAHA_4h_R1 1 TVTDVSTIDGNAAELVSGRPVSDTTEPSSPEGK 33 1 C9JA33;B1ALY0;Q8IXS6;Q8IXS6-2 C9JA33 PALM2;PALM2-AKAP2 Paralemmin-2 1 0 TVTDVSTIDGNAAELVS(0.393)GRPVS(0.089)DT(0.348)T(0.048)EPS(0.111)S(0.011)PEGK 99.254 2.02E-11 8706100 1333.8 1926.3 1572.9 1567.2 1756.9 2374 1601 1418.2 2310.7 1637.2 TRUE FALSE FALSE 1474.095204 1988.713384 1787.246621 1597.535422 1622.286702 2171.721844 1420.851266 1381.924498 2294.619651 1707.787704 0.863160684 1.164496839 1.046527397 0.935441459 0.949934642 1.271657969 0.831983544 0.809189862 1.343621133 1 10.73791293 -3.281891275 13.94965523 0.965072333 0.980916478 0 0.183963051 0 0 0.018497129 0 0.000522527 3.281891275 0.015844145 TVTDVSTIDGNAAELVSGRPVS(ph)DTTEPSSPEGK ddPTM_HeLa_SAHA_4h_R1 1 TVTDVSTIDGNAAELVSGRPVSDTTEPSSPEGK 33 1 C9JA33;B1ALY0;Q8IXS6;Q8IXS6-2 C9JA33 PALM2;PALM2-AKAP2 Paralemmin-2 1 0 TVTDVSTIDGNAAELVS(0.023)GRPVS(0.508)DT(0.383)T(0.081)EPS(0.003)S(0.001)PEGK 84.561 1.08E-07 9545200 1126.2 1702.8 1241.8 1371.4 1460.4 1834.4 1844.2 1242 2200.8 1609.5 TRUE FALSE FALSE 1244.658883 1757.971837 1411.026037 1397.94543 1348.504468 1678.0988 1636.685762 1210.231438 2185.484454 1678.893422 0.741356698 1.04710151 0.840450036 0.832658829 0.803210287 0.999526699 0.974859834 0.720850664 1.301741031 1 10.71329493 -9.699794716 1.590570105 0.999897346 0.856355769 0.271307537 0.141920262 0.514362685 2.349353622 0.076433343 0.01692798 2.00E-10 9.699794716 -0.143541577 TVTELVTK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 TVTELVTKK 9 1 Q8IY81 Q8IY81 FTSJ3 pre-rRNA processing protein FTSJ3 0 1 ; TVTELVTK(1)K;TVTELVTK(1)K 185.6 3.46E-17 23238000 5903.9 7236.6 7707.5 10419.5 10313.5 8067 13060.6 9705.8 4565.5 4766.1 FALSE TRUE FALSE 6524.89929 7471.070588 8757.837961 10621.18449 9523.281858 7379.646216 11590.98691 9457.53969 4533.728314 4971.589896 1.312437153 1.50275279 1.761576909 2.13637583 1.915540513 1.484363427 2.3314447 1.902316943 0.911927252 1 12.27949158 -7.136275119 0.790583391 1.077712954 1.977046042 0.759450468 0.217801663 0.198047618 0.251619167 0.050865143 0.065450931 7.31E-08 7.136275119 0.899333089 TVTIVVR ddPTM_HeLa_SAHA_4h_R1 2 TVTIVVR 7 0 P50991-2;P50991 P50991-2 CCT4 T-complex protein 1 subunit delta 0 0 ; ; 143.02 2.06E-05 27737000 5077.7 5397.6 6425.9 5720.6 6235 6932 6915.9 5924.6 6309.9 5654.4 FALSE FALSE TRUE 5611.795783 5572.485781 7301.588187 5831.330485 5757.275647 6341.354602 6137.70473 5773.057311 6265.988892 5898.188856 0.951443896 0.944779138 1.237937334 0.988664593 0.976109071 1.075135903 1.040608377 0.978784751 1.062358131 1 12.5260563 TVTLELLDNGAGADAT(ph)K ddPTM_HeLa_SAHA_4h_R1 2 TVTLELLDNGAGADATK 17 0 A8K7I4 A8K7I4 CLCA1 Calcium-activated chloride channel regulator 1 1 0 TVTLELLDNGAGADAT(1)K;TVTLELLDNGAGADAT(1)K ; 148.41 0.00015062 96764000 6326 6536.5 6452.2 6579.5 7286.1 7390.2 7399.9 6217 5781.3 6155.2 TRUE FALSE FALSE 6991.397705 6748.286889 7331.472214 6706.855737 6727.840592 6760.513384 6567.243777 6057.978142 5741.067463 6420.580795 1.088904248 1.051039946 1.141870564 1.044587079 1.047855452 1.052944212 1.022842635 0.943524945 0.894166376 1 12.64848809 -4.253188359 2.106257705 1.051894887 0.911793024 0.162859599 0.060932311 0.607992889 2.890120822 0.006167646 0.16225903 5.58E-05 4.253188359 -0.140101863 TVTNAVVTVPAYFNDSQR ddPTM_HeLa_SAHA_4h_R1 3 TVTNAVVTVPAYFNDSQR 18 0 P11142;P11142-2;E9PN89;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PI65 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ;; ;; 288.06 4.72E-103 18358300 3537.97 3703.05 3707.41 3912.84 4146.5 4251.69 4020.23 3581.27 3863.12 4056.1 FALSE FALSE TRUE 3910.109917 3823.03125 4212.636527 3988.578676 3828.796066 3889.422093 3567.86314 3489.666299 3836.236233 4230.978321 0.924162125 0.903580912 0.995664881 0.94270837 0.904943437 0.919272517 0.84327143 0.824789454 0.906701936 1 12.04677558 -1 0.240317218 0.978944709 0.053519994 0.530954228 0.036344754 21.98883885 0.27134007 0.020768927 8.210752552 0.1 1 -0.925424715 QGVGK(ac)YINPAATKR ddPTM_HeLa_SAHA_4h_R1 2 QGVGKYINPAATKR 14 2 Q13356 Q13356 PPIL2 Peptidyl-prolyl cis-trans isomerase-like 2 0 1 ; QGVGK(1)YINPAATKR;QGVGK(1)YINPAATKR 136.33 0.00017067 15797300 4077.8 3324.6 4193.2 6008 6374.1 6344.6 8006.2 7634.7 3608.7 3251.2 FALSE TRUE FALSE 4506.721714 3432.319221 4764.627459 6124.293528 5885.717835 5804.004386 7105.321305 7439.415429 3583.586763 3391.375143 1.32887738 1.012073002 1.404924922 1.805843727 1.735495953 1.711401464 2.09511511 2.193627987 1.056676602 1 11.72765466 -3.061629691 0.223219304 0.980554892 4.228383158 0.877597445 0.145941248 5.157403106 0.13743943 0.128707747 5.064746078 0.000867701 3.061629691 3.247828266 up TVTPAK(ac)AVTTPGK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 TVTPAKAVTTPGKK 14 2 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 0 2 TVTPAK(1)AVTTPGK(1)K 144.51 0.0029566 1103800 0 129.07 203.01 467.84 629.36 727.92 802.27 737.18 44.813 145.28 FALSE TRUE FALSE 0 133.2519527 230.6751456 476.8957197 581.1385728 665.8971208 711.9964681 718.324003 44.50114268 151.5437318 0 0.879297026 1.522168834 3.146918148 3.834791224 4.394092141 4.698290452 4.740044306 0.29365215 1 7.24359037 -6.138394097 1.253922618 0.517518435 4.620590609 0.97733179 0.271695546 0.062681109 0.194339184 0.06773604 0.141734623 7.27E-07 6.138394097 4.103072174 TVTPASS(ph)AKTSPAK ddPTM_HeLa_SAHA_4h_R1 1 TVTPASSAKTSPAK 14 1 A0A1C7CYX9;Q16555-2;Q16555 A0A1C7CYX9 DPYSL2 Dihydropyrimidinase-related protein 2 1 0 TVTPAS(0.06)S(0.776)AKT(0.082)S(0.082)PAK 64.537 0.022443 41045000 3356.6 1538.4 3512.1 2471.2 2161.4 1733.1 3174.9 3566.1 577.14 1818.5 TRUE FALSE FALSE 3709.662589 1588.245169 3990.710698 2519.033649 1995.793999 1585.43013 2817.651896 3474.884326 573.1236357 1896.904435 1.955640211 0.837282649 2.10380166 1.327970774 1.052132075 0.835798631 1.485394754 1.831871054 0.302136273 1 10.88943128 -6.014711461 24.84026734 1.462909372 1.269805312 0 0.566105539 2109.232741 3561440.007 0.074054724 0.12586471 9.67E-07 6.014711461 -0.19310406 TVTPASSAKT(ph)SPAK ddPTM_HeLa_SAHA_4h_R1 1 TVTPASSAKTSPAK 14 1 A0A1C7CYX9;Q16555-2;Q16555 A0A1C7CYX9 DPYSL2 Dihydropyrimidinase-related protein 2 1 0 TVTPAS(0.001)S(0.007)AKT(0.76)S(0.232)PAK 130.61 0.023639 3871100 3059.2 1030.1 2590.4 1903.3 1872.7 1629 2056.8 2682.8 665.5 1733.6 TRUE FALSE FALSE 3380.980692 1063.475916 2943.406222 1940.141124 1729.214131 1490.200035 1825.363451 2614.177861 660.8687313 1808.34398 1.869655734 0.588093818 1.627680493 1.072882784 0.956241816 0.824068901 1.009411633 1.445619799 0.365455211 1 10.82045342 -6.094425866 9.474291671 1.361013057 1.035566004 0 0.47629466 0.682564542 64.24376398 0.063351769 0.105187557 8.05E-07 6.094425866 -0.325447053 TVVTGIEMFHK ddPTM_HeLa_SAHA_4h_R1 2 TVVTGIEMFHK 11 0 P49411 P49411 TUFM "Elongation factor Tu, mitochondrial" 0 0 ; ; 115 0.0017755 4693300 2679.9 3983.5 3418 2706 4093.5 2846.1 4643.7 2406.38 3150 3851.9 FALSE FALSE TRUE 2961.784178 4112.568014 3883.78724 2758.378543 3779.856914 2603.596268 4121.178654 2344.828284 3128.078894 4017.97426 0.737133686 1.023542648 0.966603315 0.68650976 0.940736966 0.647987294 1.025685678 0.583584695 0.778521387 1 11.97225261 -6.273141859 24.59873104 0.892326971 0.79266239 0.141929548 0.149500291 1167.331545 2453739.947 0.023274117 0.035743188 5.33E-07 6.273141859 -0.099664581 YTDNSEKPSGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 YTDNSEKPSGKR 12 2 Q6W2J9-4;Q6W2J9-2;Q6W2J9;H7C231;H7C2V9;H7BZ37 Q6W2J9-4 BCOR BCL-6 corepressor 0 1 ; YTDNSEK(0.001)PSGK(0.999)R;YTDNSEKPSGK(1)R 88.338 0.013721 2423000 860.91 890.49 521.65 1253.74 1267.13 1194.75 1220.85 2637.53 1046.17 797.38 FALSE TRUE FALSE 951.4644638 919.3424603 592.7377454 1278.007951 1170.042773 1092.950579 1083.476745 2570.065802 1038.889618 831.7589541 1.14391851 1.105299144 0.712631637 1.536512405 1.40670896 1.314023219 1.3026331 3.089916603 1.249027272 1 9.700021682 -2.280490209 1.161061129 1.099190076 200 0.855630148 0.231031009 38.92597992 0.661584162 0.033753797 20002.27148 0.005242154 2.280490209 198.9008099 TWDDDS(ph)DPESETDPDAQAK ddPTM_HeLa_SAHA_4h_R1 2 TWDDDSDPESETDPDAQAK 19 0 K7EL01;Q5XUX1;Q5XUX1-2 K7EL01 FBXW9 F-box/WD repeat-containing protein 9 1 0 T(0.293)WDDDS(0.703)DPES(0.004)ETDPDAQAK;T(0.07)WDDDS(0.93)DPESETDPDAQAK ; 201.48 5.93E-20 22130000 4522 4723.8 4551.6 5028.4 5099.6 5479.9 5507 5107.7 5782.3 4991.5 TRUE FALSE FALSE 4997.644708 4876.854219 5171.868344 5125.731953 4708.86975 5012.981691 4887.337866 4977.05243 5742.060504 5206.707993 0.959847319 0.936648306 0.993308699 0.984447747 0.904385219 0.962792939 0.938661794 0.955892367 1.102819769 1 12.34615578 TWSAPYDGERPS(ph)PEPSPFGSR ddPTM_HeLa_SAHA_4h_R1 1 TWSAPYDGERPSPEPSPFGSR 21 1 Q8N612;Q8N612-2;E9PJK5;Q8N612-3 Q8N612 FAM160A2 FTS and Hook-interacting protein 1 0 T(0.003)WS(0.007)APY(0.167)DGERPS(0.805)PEPS(0.016)PFGS(0.002)R 56.131 0.012636 6996400 887.33 871.35 739.77 887.76 1021.6 1234.8 929.7 1213.4 1055.6 1107.6 TRUE FALSE FALSE 980.6634406 899.5823117 840.582003 904.9438785 943.3252287 1129.588093 825.0877092 1182.362985 1048.253994 1155.354056 0.848799063 0.778620464 0.7275536 0.783261091 0.816481514 0.977698643 0.714142738 1.023377188 0.907301089 1 10.17411932 -8.783456981 0.852467603 0.992417489 0.828214831 0.172373466 0.097845825 0.494130508 0.704780694 0.045118263 0.018430597 1.65E-09 8.783456981 -0.164202658 TWTTPEVT(ph)SPPPSPR ddPTM_HeLa_SAHA_4h_R1 1 TWTTPEVTSPPPSPR 15 0 Q5T1S5;Q7Z6M1-2;Q7Z6M1 Q5T1S5 RABEPK Rab9 effector protein with kelch motifs 1 0 T(0.001)WT(0.004)T(0.034)PEVT(0.48)S(0.48)PPPSPR 132.65 0.000416 5746100 817.22 727.84 663.48 648.96 852.32 996.84 820.95 861.81 746.65 787.74 TRUE FALSE FALSE 903.1789491 751.4224936 753.8955991 661.5215592 787.0154257 911.9036239 728.5745454 839.7661481 741.4540019 821.7033265 1.099154549 0.914469334 0.917479064 0.805061313 0.957785371 1.109772341 0.886663741 1.021982169 0.902337836 1 9.682473797 -7.253286559 24.91359078 1.046822982 0.942938531 0.000794165 0.091511994 613.187609 1873795.051 0.014040572 0.017033381 5.58E-08 7.253286559 -0.103884451 TWTTPEVTS(ph)PPPSPR ddPTM_HeLa_SAHA_4h_R1 1 TWTTPEVTSPPPSPR 15 0 Q5T1S5;Q7Z6M1-2;Q7Z6M1 Q5T1S5 RABEPK Rab9 effector protein with kelch motifs 1 0 TWTTPEVT(0.215)S(0.784)PPPS(0.001)PR 123.1 0.00065614 5836500 1219.2 1349.5 975.81 1370.7 1522.6 2115.5 1483 1639.1 1704.3 1447.9 TRUE FALSE FALSE 1347.44105 1393.224685 1108.788305 1397.231881 1405.938717 1935.247499 1316.128937 1597.174195 1692.439638 1510.326055 0.892152423 0.922466166 0.734138368 0.925119365 0.930884237 1.281344179 0.871420401 1.057502908 1.120578985 1 10.56064432 -5.464883896 24.999891 0.926330036 1.059537659 0.191859093 0.128791473 312.2264745 134591.1784 0.016166775 0.036149922 3.43E-06 5.464883896 0.133207623 TYADYESVNECMEGVCK ddPTM_HeLa_SAHA_4h_R1 2 TYADYESVNECMEGVCK 17 0 P84090;G3V279 P84090 ERH Enhancer of rudimentary homolog 0 0 ; ; 232.78 2.30E-27 18180200 3280.4 3399.5 3200 3886.4 4058.6 4004.6 4277 3635.9 3967.6 3474.2 FALSE FALSE TRUE 3625.447523 3509.64603 3636.079335 3961.626892 3747.630945 3663.385551 3795.740704 3542.898943 3939.989149 3623.989764 1.000402252 0.968448108 1.003335984 1.093167241 1.03411742 1.010870833 1.047392777 0.977623882 1.087196544 1 11.82336317 -6.494838721 24.99746867 0.997246875 1.033920036 0.00219317 0.040410587 702.8712044 626604.4105 0.004201847 0.006409629 3.20E-07 6.494838721 0.036673161 TYAGGTASAT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 TYAGGTASATK 11 0 P20810-6;P20810-10;P20810-7;P20810-9;P20810-5;A0A0C4DGB5;F8W7E0;E9PSG1;H0YA91;H0Y944;E7EN75;D6RBR1;D6RGF7 P20810-6 CAST Calpastatin 1 0 T(0.001)YAGGT(0.008)AS(0.135)AT(0.856)K 120.03 0.0038228 7511600 1979.2 1934.5 1337.4 1881.3 2164.4 2942.5 2211.3 1805 2058.3 2633.4 TRUE FALSE FALSE 2187.381337 1997.179069 1519.653907 1917.715282 1998.56414 2691.782446 1962.478704 1758.830714 2043.976123 2746.938762 0.796297816 0.727056277 0.55321725 0.698128152 0.7275605 0.979920806 0.7144239 0.640287559 0.744092352 1 11.42360903 -8.485481795 0.763456433 0.98550375 0.726521109 0.061808109 0.127264519 0.396041176 0.479060534 0.050388231 0.024834564 3.27E-09 8.485481795 -0.258982641 TYEDMTLEELEDHEDEFNEEDER ddPTM_HeLa_SAHA_4h_R1 2 TYEDMTLEELEDHEDEFNEEDER 23 0 Q9H2J4 Q9H2J4 PDCL3 Phosducin-like protein 3 0 0 ; ; 207.1 5.02E-22 6145800 1011.17 1109.42 948.29 1012.87 1375.07 1261.84 1130.19 840.43 1543.99 1182.5 FALSE FALSE TRUE 1117.5295 1145.365936 1077.518023 1032.475563 1269.712434 1154.324133 1003.018047 818.9330175 1533.245248 1233.483362 0.90599479 0.928562128 0.873556998 0.837040527 1.02937135 0.935824648 0.813158959 0.663918982 1.243020616 1 10.26852254 -4.462961694 2.266971105 0.942941635 0.647562448 0.43232299 0.108966597 0.182176102 1.442051837 0.008666908 0.089500555 3.44E-05 4.462961694 -0.295379186 TYGGDT(ph)GSPEISFTK ddPTM_HeLa_SAHA_4h_R1 1 TYGGDTGSPEISFTK 15 0 H0Y9X0;A0A286YEZ9;A0A2C9F2R7;O94915 H0Y9X0 FRYL Protein furry homolog-like 1 0 T(0.041)YGGDT(0.6)GS(0.352)PEIS(0.002)FT(0.004)K 227.91 2.04E-24 17856000 1324.8 1218.4 1060 1062.7 1264.1 1747.1 1441.6 1440.5 1010.5 1241.9 TRUE FALSE FALSE 1464.148542 1257.876959 1204.45128 1083.270095 1167.244931 1598.237251 1279.387374 1403.654096 1003.467848 1295.444387 1.130228791 0.971000355 0.929759156 0.836215052 0.901038241 1.233736676 0.987605016 1.083530957 0.774612834 1 10.33923137 TYGGDTGS(ph)PEISFTK ddPTM_HeLa_SAHA_4h_R1 3 TYGGDTGSPEISFTK 15 0 H0Y9X0;A0A286YEZ9;A0A2C9F2R7;O94915 H0Y9X0 FRYL Protein furry homolog-like 1 0 TYGGDT(0.117)GS(0.442)PEIS(0.442)FTK;TYGGDT(0.383)GS(0.605)PEIS(0.012)FTK;T(0.004)YGGDT(0.238)GS(0.515)PEIS(0.238)FT(0.004)K ;; 166.64 3.33E-06 36052800 4880.89 5469.06 5392.24 6138.7 6111.45 7301.4 5950.12 6635.56 5586.54 5483.63 TRUE FALSE FALSE 5394.284405 5646.261132 6127.066386 6257.523415 5643.192021 6679.279643 5280.596838 6465.831983 5547.662813 5720.056126 0.943047461 0.987098904 1.071154942 1.093961891 0.986562351 1.167694774 0.923172207 1.130379115 0.969861605 1 12.48181359 -6.829788823 5.342122754 0.972849709 1.058607736 0.294712606 0.066107967 0.186738867 9.9717702 0.009788867 0.013022617 1.48E-07 6.829788823 0.085758027 TYS(ph)LTTPAR ddPTM_HeLa_SAHA_4h_R1 3 TYSLTTPAR 9 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 T(0.011)YS(0.972)LT(0.017)TPAR;T(0.002)YS(0.99)LT(0.007)T(0.001)PAR;T(0.001)YS(0.994)LT(0.004)T(0.001)PAR ;; 119.53 0.0037224 160414000 4481.3 5081.3 4691.5 5094.3 6143.4 6389.5 5932.8 5611.6 5502.5 5308.3 TRUE FALSE FALSE 4952.663695 5245.937454 5330.833188 5192.907543 5672.694019 5845.078654 5265.22573 5468.063397 5464.207654 5537.166791 0.894440042 0.94740463 0.96273661 0.937827546 1.024475916 1.055608197 0.950888049 0.987520081 0.986823742 1 12.43493226 -5.767031209 24.99366556 0.949041005 1.004426643 0.298270767 0.036736018 147.1124186 657547.6672 0.006824598 0.012622313 1.71E-06 5.767031209 0.055385638 TYSAK(ac)LDNAR ddPTM_HeLa_SAHA_4h_R1 2 TYSAKLDNAR 10 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;P02545-2;Q3BDU5;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 1 ; TYSAK(1)LDNAR;TYSAK(1)LDNAR 175.65 9.06E-12 12038400 2482.9 2136 2313.9 2199.9 2219.16 2293.1 2735.6 2319.8 1255.75 1805.01 FALSE TRUE FALSE 2744.062814 2205.207801 2629.226242 2242.482246 2049.12844 2097.714979 2427.783088 2260.462875 1247.011134 1882.832815 1.457411828 1.171218063 1.396420448 1.191015064 1.088322035 1.114127055 1.289431047 1.200564839 0.662305821 1 10.87868919 -3.971661038 17.40846101 1.216711478 1.150305284 0 0.218994743 22523.13862 7056.075889 0.024163124 45403.99684 0.000106743 3.971661038 -0.066406194 TYSAPAINAIQGGSFES(ph)PKK ddPTM_HeLa_SAHA_4h_R1 1 TYSAPAINAIQGGSFESPKK 20 1 Q9H4L5-7;Q9H4L5-5;Q9H4L5-3;Q9H4L5 Q9H4L5-7 OSBPL3 Oxysterol-binding protein-related protein 3 1 0 TYSAPAINAIQGGS(0.197)FES(0.803)PKK 78.057 0.0018012 6557500 1825.6 1898.3 1647.6 1793.3 1672.3 2295.8 1755.8 1971.7 1889.6 1893 TRUE FALSE FALSE 2017.624984 1959.806166 1872.126348 1828.011915 1544.168735 2100.184924 1558.232763 1921.266769 1876.45012 1974.616494 1.02178068 0.992499643 0.948096176 0.925755416 0.782009438 1.0635913 0.789131848 0.972982235 0.950285853 1 10.94735677 -6.587267189 2.047019463 1.010122603 0.902145102 0.190005082 0.079123307 0.275247141 2.333694887 0.011277327 0.017246057 2.59E-07 6.587267189 -0.107977501 TYSLGS(ph)ALRPSTSR ddPTM_HeLa_SAHA_4h_R1 1 TYSLGSALRPSTSR 14 1 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 TYSLGS(0.706)ALRPS(0.193)T(0.089)S(0.012)R 124.81 0.0031975 13409000 2004.6 1684.5 1495.6 1610.4 2108.9 2161.3 1309.3 1718.5 1296.9 1648.3 TRUE FALSE FALSE 2215.453025 1739.078905 1699.412579 1641.571621 1947.316538 1977.145081 1161.974118 1674.543258 1287.874767 1719.36628 1.288528833 1.011465053 0.988394736 0.954753877 1.132578067 1.149926635 0.675815347 0.973930499 0.749040378 1 10.7476612 -4.775184566 24.99919239 1.107001192 0.824872904 0.095157948 0.163047406 153.0727575 278404.1659 0.019839836 0.059969932 1.68E-05 4.775184566 -0.282128288 TYSLGSALRPS(ph)TSR ddPTM_HeLa_SAHA_4h_R1 1 TYSLGSALRPSTSR 14 1 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 1 0 TYSLGSALRPS(0.709)T(0.237)S(0.053)R 65.298 0.021778 6492200 500.1 477.33 567.25 690.2 488.47 539.25 528.89 636.93 568.35 483.15 TRUE FALSE FALSE 552.7028125 492.7958052 644.5518759 703.559819 451.0435341 493.3028663 469.3779052 620.6382529 564.3948061 503.980961 1.096673992 0.977806392 1.278921082 1.396004757 0.894961455 0.978812504 0.93134055 1.231471625 1.119873269 1 8.977225423 -4.222562395 22.10587146 1.060669648 1.231473648 0.082027364 0.150438577 8584.621652 4880868.523 0.020891703 6.034390242 5.99E-05 4.222562395 0.170804 TYSLGSALRPSTSR ddPTM_HeLa_SAHA_4h_R1 1 TYSLGSALRPSTSR 14 1 P08670;B0YJC4;A0A1B0GTT5;A0A1B0GVG8 P08670 VIM Vimentin 0 0 92.781 0.011961 12683000 1403.9 946.11 1172.5 1225.6 1305.1 1180.2 1582.6 1062.5 1042.7 1150.7 FALSE FALSE TRUE 1551.568643 976.7645848 1332.282194 1249.32326 1205.10352 1079.64032 1404.521683 1035.322788 1035.443766 1200.312308 1.292637452 0.813758701 1.10994629 1.040831833 1.003991637 0.899466175 1.170130201 0.862544507 0.862645295 1 10.22919411 -7.268678458 24.99707546 1.138189902 0.997168237 0 0.149923798 715.1933412 2469610.899 0.023910766 0.027631544 5.39E-08 7.268678458 -0.141021666 TYSVEYLPK ddPTM_HeLa_SAHA_4h_R1 1 TYSVEYLPK 9 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 105.1 0.010156 722730 280.23 423.06 241.68 260.83 464.2 439.33 483.91 351.77 279.81 413.04 FALSE FALSE TRUE 309.7058771 436.7674216 274.6148918 265.8787418 428.6330963 401.8966124 429.4591732 342.7722328 277.8627794 430.8481758 0.718828336 1.013738589 0.637382046 0.617105414 0.994858793 0.932803328 0.996776121 0.795575453 0.644920404 1 8.751035765 TYSYLTPDLWK ddPTM_HeLa_SAHA_4h_R1 1 TYSYLTPDLWK 11 0 H0YEN5;P15880;E9PQD7 H0YEN5 RPS2 40S ribosomal protein S2 0 0 137.95 0.00039071 293420 217.13 220.03 165.03 159.44 193.1 60.458 238.04 0 0 229.85 FALSE FALSE TRUE 239.9687296 227.1591164 187.519429 162.5261918 178.3047197 55.30663827 211.2551127 0 0 239.7599584 1.000870751 0.947443927 0.782113203 0.677870454 0.743680141 0.230675041 0.8811109 0 0 1 7.905446928 -4.936192796 0.408960452 1.025618408 8.94E-12 0 0.382221489 1.521423308 0.250069309 0.053014679 0.694294411 1.16E-05 4.936192796 -1.025618408 TYT(ph)HEVVTLWYR ddPTM_HeLa_SAHA_4h_R1 2 TYTHEVVTLWYR 12 0 G3V5T9;P24941;Q00526;K7EJ83 G3V5T9 CDK2;CDK3 Cyclin-dependent kinase 2;Cyclin-dependent kinase 3 1 0 T(0.022)Y(0.003)T(0.976)HEVVTLWYR;T(0.019)YT(0.98)HEVVTLWYR ; 118.52 0.0018215 18628000 3141.9 3710.8 4687 4977 4947.5 3450.3 4679 2448.8 3351.3 3503.1 TRUE FALSE FALSE 3472.379458 3831.032355 5325.719951 5073.337032 4568.423619 3156.315029 4152.506606 2386.163242 3327.97803 3654.135785 0.950260106 1.048409961 1.457449932 1.388382187 1.250206311 0.863765119 1.136385414 0.653003441 0.910742848 1 11.83531453 -3.204047025 14.115303 1.041282624 1.073792194 0 0.235737345 0 0 0.031722402 0 0.000625105 3.204047025 0.03250957 TYYMSGGLQPVPIVFR ddPTM_HeLa_SAHA_4h_R1 1 TYYMSGGLQPVPIVFR 16 0 P11177-2;P11177;F8WF02;C9J634 P11177-2 PDHB "Pyruvate dehydrogenase E1 component subunit beta, mitochondrial" 0 0 117.2 0.0066559 0 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 VAAAAGS(ph)GPSPPGS(ph)PGHDR ddPTM_HeLa_SAHA_4h_R1 1 VAAAAGSGPSPPGSPGHDR 19 0 Q9BTU6 Q9BTU6 PI4K2A Phosphatidylinositol 4-kinase type 2-alpha 2 0 VAAAAGS(0.845)GPS(0.155)PPGS(1)PGHDR 71.428 0.0041682 0 497.06 777.23 571.58 900.41 790.53 928.06 796.46 874.38 685.4 794.86 TRUE FALSE FALSE 549.3430514 802.412762 649.4719457 917.8387376 729.9597622 848.9840669 706.8402246 852.0146257 680.6302456 829.1303046 0.662553339 0.967776425 0.7833171 1.106989737 0.880392091 1.023945286 0.852508008 1.027600392 0.820896597 1 9.695455041 -6.286978869 24.96419543 0.84425039 0.968397363 0.256185165 0.111248557 1080.87888 1056529.05 0.021780979 0.033278549 5.16E-07 6.286978869 0.124146974 VAADLQLS(ph)TPQK ddPTM_HeLa_SAHA_4h_R1 1 VAADLQLSTPQK 12 0 Q9H582-2;Q9H582 Q9H582-2 ZNF644 Zinc finger protein 644 1 0 VAADLQLS(0.5)T(0.5)PQK 97.86 0.0078131 2377900 2185.8 1779.4 1300.5 1780.7 1848 1684.6 1680.6 1804 2111.1 1875.7 TRUE FALSE FALSE 2415.712473 1837.053728 1477.725367 1815.168023 1706.406639 1541.062603 1491.494465 1757.856292 2096.408683 1956.570606 1.234666648 0.938915121 0.75526299 0.927729374 0.87214161 0.787634547 0.762300353 0.898437443 1.07147101 1 10.93411146 -7.038633916 5.788436884 1.110317655 0.835043398 0.715245041 0.075621131 0.093668838 8.552537777 0.016481374 0.020561177 9.15E-08 7.038633916 -0.275274258 VAAETQSPS(ph)LFGSTK ddPTM_HeLa_SAHA_4h_R1 3 VAAETQSPSLFGSTK 15 0 Q9UKX7-2;Q9UKX7 Q9UKX7-2 NUP50 Nuclear pore complex protein Nup50 1 0 VAAET(0.025)QS(0.041)PS(0.921)LFGS(0.005)T(0.007)K;VAAETQS(0.004)PS(0.996)LFGSTK;VAAETQS(0.031)PS(0.969)LFGSTK ;; 205.33 1.14E-12 22158800 2913.68 3877.32 2489.2 3331.69 3861.4 4601.31 3247.51 3039.63 5098.5 3415.96 TRUE FALSE FALSE 3220.154231 4002.947712 2828.415213 3396.179678 3565.540366 4209.252502 2882.091628 2961.880666 5063.019123 3563.238753 0.903715539 1.123401487 0.793776508 0.953115947 1.000645933 1.181299597 0.808840448 0.831232727 1.420903699 1 11.79897344 -1.492737488 0.006589369 1.828198836 2.33E-07 0.005066301 0.185069277 112729.3211 62.91792451 7982.30313 9539.314217 0.032156036 1.492737488 -1.828198603 VAAGLQIK ddPTM_HeLa_SAHA_4h_R1 2 VAAGLQIK 8 0 Q14974;J3QR48 Q14974 KPNB1 Importin subunit beta-1 0 0 ; ; 122.79 0.0026457 7040100 7329.2 6698.8 8890.5 8168.6 8598.3 6806.4 9248.5 5208.7 3337.9 6016.8 FALSE FALSE TRUE 8100.118884 6915.845515 10102.05104 8326.715065 7939.500112 6226.456428 8207.834439 5075.468996 3314.671282 6276.213694 1.290605973 1.101913646 1.609577292 1.326709936 1.265014306 0.992072089 1.30776848 0.808683267 0.528132317 1 12.61567876 -2.962708995 11.95376837 1.172961524 0.650108576 0 0.295118041 0 0 0.028753098 0 0.00108966 2.962708995 -0.522852948 VAASVLNPYVK ddPTM_HeLa_SAHA_4h_R1 2 VAASVLNPYVK 11 0 A0A494C0K9;H7C0C1;P48047 A0A494C0K9 ATP5O "ATP synthase subunit O, mitochondrial" 0 0 ; ; 150.08 3.85E-05 1484040 760.87 1035.79 763.85 895.55 862.1 643.19 999.86 873.73 432.69 1047.91 FALSE FALSE TRUE 840.9017976 1069.350276 867.9435 912.8846652 796.0460842 588.3865935 887.3531213 851.3812517 429.6788751 1093.090528 0.76928834 0.978281531 0.794027098 0.835140953 0.728252659 0.538278009 0.811783744 0.778875335 0.393086267 1 10.09419717 -6.103507789 1.553040162 0.893365863 0.710294692 0 0.183780536 0.333517451 1.584139625 0.018233663 0.036206707 7.88E-07 6.103507789 -0.183071172 VAAYDK(ac)LEK ddPTM_HeLa_SAHA_4h_R1 2 VAAYDKLEK 9 1 P35579 P35579 MYH9 Myosin-9 0 1 ; VAAYDK(1)LEK;VAAYDK(1)LEK 100.02 0.0071552 3393400 1288.39 4336.9 2582.88 1886.73 4189.9 2366.42 4567.3 2029.67 1392.22 878.08 FALSE TRUE FALSE 1423.908772 4477.418406 2934.861435 1923.250387 3868.870767 2164.787703 4053.375384 1977.75398 1382.531428 915.938326 1.554590229 4.88834049 3.204212939 2.099759703 4.223942439 2.363464484 4.425380256 2.159265448 1.509415414 1 9.839106649 -7.429409449 7.763987152 1.242899889 3.323155904 0.49753147 0.916295294 0.152436816 11.29755106 0.143718144 0.163751949 3.72E-08 7.429409449 2.080256015 VADAKGDS(ph)ES(ph)EEDEDLEVPVPSR ddPTM_HeLa_SAHA_4h_R1 1 VADAKGDSESEEDEDLEVPVPSR 23 1 P13861-2;P13861 P13861-2 PRKAR2A cAMP-dependent protein kinase type II-alpha regulatory subunit 2 0 VADAKGDS(1)ES(1)EEDEDLEVPVPSR 72.231 0.010539 7598100 687.68 788.69 722.48 817.46 846.11 1018.7 914.05 865.37 903.87 1015.3 TRUE FALSE FALSE 760.0133376 814.2440735 820.9358119 833.2831204 781.2812346 931.901029 811.1986884 843.2350884 897.5798951 1059.074552 0.717620243 0.768826021 0.775144498 0.786803081 0.73770183 0.879920141 0.765950506 0.796199934 0.84751342 1 10.04858843 -9.36267478 1.024534622 1.003302336 0.775665702 0.400332679 0.060815893 0.187581265 0.344202914 0.031652317 0.007752549 4.34E-10 9.36267478 -0.227636634 VADAKGDS(ph)ESEEDEDLEVPVPSR ddPTM_HeLa_SAHA_4h_R1 3 VADAKGDSESEEDEDLEVPVPSR 23 1 P13861-2;P13861 P13861-2 PRKAR2A cAMP-dependent protein kinase type II-alpha regulatory subunit 1 0 VADAKGDS(0.946)ES(0.054)EEDEDLEVPVPSR;VADAKGDS(0.767)ES(0.233)EEDEDLEVPVPSR;VADAKGDS(0.969)ES(0.031)EEDEDLEVPVPSR ;; 105.04 4.78E-05 39210000 4165.5 3207.02 2899.68 3170.79 4140 4447.5 3653.71 3835.2 3670.5 3403.92 TRUE FALSE FALSE 4603.646402 3310.929552 3294.83329 3232.165225 3822.794094 4068.547979 3242.584935 3737.101137 3644.956692 3550.67965 1.296553577 0.932477688 0.927944398 0.910294801 1.076637284 1.14585048 0.913229369 1.052503043 1.02655183 1 11.79387949 -7.234353906 24.8526971 1.140039211 0.994260289 0.176185785 0.105818721 799.3406611 733448.376 0.021855992 0.02676417 5.83E-08 7.234353906 -0.145778922 VADAKGDSES(ph)EEDEDLEVPVPSR ddPTM_HeLa_SAHA_4h_R1 1 VADAKGDSESEEDEDLEVPVPSR 23 1 P13861-2;P13861 P13861-2 PRKAR2A cAMP-dependent protein kinase type II-alpha regulatory subunit 1 0 VADAKGDS(0.256)ES(0.744)EEDEDLEVPVPSR 101.71 6.14E-05 17913000 2809.8 2509.6 3041.4 2577.5 3077.8 3392.2 3230.6 3199.7 3303.9 3405.5 TRUE FALSE FALSE 3105.347656 2590.912687 3455.866153 2627.39124 2841.979629 3103.165476 2867.084386 3117.856307 3280.907891 3552.327771 0.874172615 0.729356313 0.972845519 0.739625229 0.800033052 0.873558319 0.807100181 0.877693869 0.923593796 1 11.79454899 -8.544403195 0.660013515 0.998267253 0.827714212 0.323305558 0.071253756 0.436891237 0.388452556 0.036452809 0.015358575 2.85E-09 8.544403195 -0.170553041 VADNS(ph)FDAK ddPTM_HeLa_SAHA_4h_R1 1 VADNSFDAK 9 0 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 1 0 VADNS(1)FDAK 97.957 0.012128 14854000 2357.2 2489.1 2109.1 2453.8 2433.8 2484.8 2829 2553 2827 2881.8 TRUE FALSE FALSE 2605.141111 2569.748473 2396.517164 2501.296847 2247.32277 2273.081061 2510.673474 2487.697957 2807.326677 3006.048501 0.866633093 0.854859285 0.797231702 0.832087987 0.747600303 0.756169124 0.835207241 0.827564145 0.933892675 1 11.55365257 -8.33082359 0.440127177 1.013714471 0.789351535 0.763414656 0.035316156 0.303139979 0.128962433 0.02919673 0.012335724 4.67E-09 8.33082359 -0.224362936 VADNS(ph)FDAKR ddPTM_HeLa_SAHA_4h_R1 1 VADNSFDAKR 10 1 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 1 0 VADNS(1)FDAKR 140.45 0.0028819 92351000 2307.9 1835.1 1646.9 2164.5 2280.3 2161.8 2023.2 1826.2 1931.4 1937.3 TRUE FALSE FALSE 2550.655511 1894.558444 1871.330955 2206.397027 2105.583907 1977.602478 1795.544211 1779.488448 1917.95923 2020.826484 1.262184325 0.937516634 0.92602258 1.091829034 1.04194196 0.978610729 0.888519735 0.880574588 0.949096444 1 10.98072974 -4.933810037 0.547275839 1.107281856 0.801058775 0.053051374 0.105643086 2.059222702 0.642837533 0.02586624 0.349257892 1.16E-05 4.933810037 -0.306223081 VADPDHDHTGFLT(ph)EY(ph)VATR ddPTM_HeLa_SAHA_4h_R1 1 VADPDHDHTGFLTEYVATR 19 0 P28482-2;P28482 P28482-2 MAPK1 Mitogen-activated protein kinase 1 2 0 VADPDHDHT(0.082)GFLT(0.906)EY(0.852)VAT(0.159)R 104.3 0.00085549 4142900 766.08 1456.7 1480.8 573.56 868.1 636.11 986.84 973.5 574.66 682.36 TRUE FALSE FALSE 846.6598093 1503.898036 1682.595712 584.6620832 801.5863655 581.9098493 875.798166 948.5992796 570.6608943 711.779879 1.189496689 2.112869554 2.363927054 0.821408557 1.126171713 0.817541864 1.230434003 1.332714379 0.801737884 1 9.47528734 VADPDHDHTGFLTEY(ph)VATR ddPTM_HeLa_SAHA_4h_R1 3 VADPDHDHTGFLTEYVATR 19 0 P28482-2;P28482 P28482-2 MAPK1 Mitogen-activated protein kinase 1 1 0 VADPDHDHTGFLTEY(1)VATR;VADPDHDHTGFLT(0.009)EY(0.983)VAT(0.008)R;VADPDHDHTGFLTEY(1)VATR ;; 203.92 2.67E-19 44749300 3761.2 7924 6091.2 3850.07 5732.1 3343.94 6769.2 5808.8 4422.35 6665.3 TRUE FALSE FALSE 4156.820273 8180.742799 6921.277014 3924.593672 5292.907736 3059.0175 6007.5118 5660.219307 4391.574506 6952.673702 0.597873631 1.176632638 0.995484228 0.564472581 0.761276591 0.439977141 0.864057779 0.814106853 0.631638229 1 12.76335217 -6.257139514 24.97480527 0.851243377 0.688721358 0.183135858 0.197553763 645.4714288 3749071.608 0.033225859 0.053850921 5.53E-07 6.257139514 -0.162522018 VADPDHDHTGFLTEYVATR ddPTM_HeLa_SAHA_4h_R1 2 VADPDHDHTGFLTEYVATR 19 0 P28482-2;P28482 P28482-2 MAPK1 Mitogen-activated protein kinase 1 0 0 ; ; 93.427 0.00076087 16361800 3003.2 3243.5 3086.9 3478.6 4031.5 1209.74 3993.8 2977.1 3519.6 3422.6 FALSE FALSE TRUE 3319.090355 3348.591528 3507.566656 3545.933333 3722.607341 1106.663346 3544.407113 2900.950093 3495.106817 3570.165036 0.929674209 0.937937461 0.98246625 0.993212722 1.042698952 0.309975403 0.992785229 0.812553499 0.978976261 1 11.80177505 VADTLPAT(ph)RATMLMS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 VADTLPATRATMLMSR 16 1 F8WBJ1 F8WBJ1 NPRL3 2 0 VADT(0.01)LPAT(0.9)RAT(0.09)MLMS(1)R 108.9 0.012697 2640500 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 VAEFHTELER ddPTM_HeLa_SAHA_4h_R1 2 VAEFHTELER 10 0 K7EJC1;K7EJR3;R4GMR5;P48556;K7ERW6 K7EJC1 PSMD8 26S proteasome non-ATPase regulatory subunit 8 0 0 ; ; 163.66 0.00019251 7596000 6793.1 6143.4 5964.5 7621.6 7052.7 8933.8 7982.6 6914.7 9851.3 7837.6 FALSE FALSE TRUE 7507.629426 6342.450191 6777.310998 7769.127089 6512.32365 8172.58998 7084.376839 6737.831986 9782.744001 8175.517292 0.918306348 0.775785796 0.828976413 0.950291806 0.796564109 0.999641942 0.866535607 0.824147481 1.196590216 1 12.9970943 -8.126061958 1.146683693 0.983249122 0.869441808 0.390614875 0.094435333 0.331533364 0.906561594 0.017514911 0.013483256 7.48E-09 8.126061958 -0.113807314 VAFQFPTK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 VAFQFPTKK 9 1 Q96GN5-5;Q96GN5-2;Q96GN5;C9IZR6;Q96GN5-4 Q96GN5-5 CDCA7L Cell division cycle-associated 7-like protein 0 1 VAFQFPTK(1)K 131.5 0.0005448 1410400 268.83 0 121.51 166.25 226.89 374.97 410.76 357.42 201.32 0 FALSE TRUE FALSE 297.1067728 0 138.06875 169.4680092 209.5057372 343.0204465 364.5402037 348.2777139 199.9189977 0 0 VAFQGIPSICGCPPR ddPTM_HeLa_SAHA_4h_R1 1 VAFQGIPSICGCPPR 15 0 A0A2R8YH69 A0A2R8YH69 0 0 101.39 0.0043345 15446000 478.33 443.9 287.8 563.9 533.45 658.35 519.4 462.6 529.42 409.45 FALSE FALSE TRUE 528.6429441 458.2826513 327.0198852 574.8150999 492.5771762 602.2548762 460.955745 450.7673618 525.7357231 427.1033933 1.237739977 1.073001663 0.765669134 1.345845313 1.153297267 1.410091527 1.07926032 1.055405714 1.230933145 1 8.73844155 VAGGAAPSKPAS(ph)AK ddPTM_HeLa_SAHA_4h_R1 2 VAGGAAPSKPASAK 14 1 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 1 0 VAGGAAPSKPAS(1)AK;VAGGAAPS(0.005)KPAS(0.995)AK ; 163.8 4.11E-05 142826000 5055.9 4568.6 4050.1 4968.8 6573.5 7065.4 6249.3 5723 6110.6 6308.4 TRUE FALSE FALSE 5587.702759 4716.625638 4602.026536 5064.978309 6069.83985 6463.388171 5546.112317 5576.613947 6068.075837 6580.385997 0.849145136 0.71677036 0.699355104 0.76970839 0.922413952 0.982220218 0.84282477 0.847460005 0.92214588 1 12.6839565 -8.774132772 0.958554304 0.988479162 0.830341912 0.268695996 0.084271357 0.454619645 0.829404723 0.040719117 0.018367626 1.68E-09 8.774132772 -0.15813725 VAGGAAPSKPASAK(ac)K ddPTM_HeLa_SAHA_4h_R1 3 VAGGAAPSKPASAKK 15 2 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 1 ;; VAGGAAPSKPASAK(1)K;VAGGAAPSKPASAK(1)K;VAGGAAPSKPASAK(1)K 182.72 1.01E-16 59666100 14788.62 15004.22 14302.54 15566.42 17606.97 17486.04 18781.45 16664.24 12423.88 13827.07 FALSE TRUE FALSE 16344.1549 15490.36657 16251.61567 15867.73057 16257.92776 15996.13102 16668.11182 16237.99287 12337.42121 14423.22266 1.13318329 1.073987897 1.126767301 1.100151537 1.127204935 1.109053878 1.155644076 1.125822797 0.855385894 1 13.81610593 -9.621456483 0.528574753 0.958814412 1.123176473 0.658609547 0.049989224 0.569195225 0.175978468 0.050411158 0.00491935 2.39E-10 9.621456483 0.164362061 VAGPADAPMDS(ph)GAEEEKAGAATVK ddPTM_HeLa_SAHA_4h_R1 5 VAGPADAPMDSGAEEEKAGAATVK 24 1 Q8TEK3-1;Q8TEK3 Q8TEK3-1 DOT1L "Histone-lysine N-methyltransferase, H3 lysine-79 specific" 1 0 VAGPADAPMDS(1)GAEEEKAGAATVK;VAGPADAPMDS(1)GAEEEKAGAATVK;VAGPADAPMDS(0.999)GAEEEKAGAAT(0.001)VK;VAGPADAPMDS(1)GAEEEKAGAATVK;VAGPADAPMDS(1)GAEEEKAGAATVK ;;;; 101.86 2.10E-05 38972500 7532.7 7201.3 6734.8 7053.8 7782.6 7441.5 8410.2 8027.1 7367.2 7616.9 TRUE FALSE FALSE 8325.023947 7434.626845 7652.583471 7190.336499 7186.298869 6807.442335 7463.862162 7821.778405 7315.931055 7945.301835 1.047792031 0.935726169 0.963158308 0.904979653 0.904471475 0.856788386 0.939405741 0.984453274 0.920787052 1 12.95588631 -7.175832568 5.086914992 1.022495033 0.923454778 0.181166005 0.047194227 0.11343616 5.011936544 0.006365331 0.007810548 6.67E-08 7.175832568 -0.099040256 VAGQDGSVVQFK ddPTM_HeLa_SAHA_4h_R1 2 VAGQDGSVVQFK 12 0 P61956-2;P61956;A8MUA9;A8MU27;Q6EEV6;P55854;P55854-2 P61956-2 SUMO2;SUMO3;SUMO4 Small ubiquitin-related modifier 2;Small ubiquitin-related modifier 4;Small ubiquitin-related modifier 3 0 0 ; ; 175.49 9.77E-11 3517900 2625.5 5417.4 2237.2 3048.4 3622.8 4086.2 5698.8 4210.4 4413.6 2480.6 FALSE FALSE TRUE 2901.662136 5592.927314 2542.073965 3107.40619 3345.221847 3738.032772 5057.556026 4102.704065 4382.885398 2587.550806 1.1213933 2.161475362 0.982424755 1.200906349 1.292813977 1.444621981 1.954572646 1.585554979 1.693835494 1 11.33737147 -1 0.117602271 0.77472834 3.824395988 0 0.40227389 82.85309421 0.673253374 1.599140691 41.4627679 0.1 1 3.049667648 VAIDVGYR ddPTM_HeLa_SAHA_4h_R1 2 VAIDVGYR 8 0 P15121;E9PEF9;E9PCX2 P15121 AKR1B1 Aldose reductase 0 0 ; ; 111.01 0.0074418 15170900 12091.3 13137.4 12986.7 11993.7 13103.1 13572 14754.2 10798 9984.2 12730.3 FALSE FALSE TRUE 13363.11841 13563.06038 14756.45984 12225.85541 12099.14331 12415.58925 13094.01859 10521.8028 9914.719139 13279.16553 1.00632215 1.021378967 1.111249032 0.920679494 0.911137321 0.934967579 0.986057336 0.792354216 0.746637213 1 13.69687687 -6.046023543 24.92132336 1.012282412 0.914149413 0.04996368 0.100537646 273.7718794 148244.5657 0.007827529 0.012980803 8.99E-07 6.046023543 -0.098132999 VALIGFPSVGK ddPTM_HeLa_SAHA_4h_R1 1 VALIGFPSVGK 11 0 J3QL90;J3KRL5;J3QR71;J3QKV7;J3QRI9;J3QKW7;A8MZF9;P55039 J3QL90 DRG2 Developmentally-regulated GTP-binding protein 2 0 0 105.4 0.0066048 0 259.43 246.45 114.17 366.52 331.73 266.27 261.8 327.77 221.39 223.85 FALSE FALSE TRUE 286.7180377 254.4351417 129.728493 373.6145246 306.3129191 243.582298 232.341575 319.386118 219.849329 233.501269 1.227907835 1.089652073 0.555579392 1.600053508 1.3118255 1.043173337 0.995033457 1.3678132 0.941533765 1 7.86728658 -6.206442065 24.99985112 1.071081119 1.239095634 0.226227494 0.237195644 567.443732 257939.7474 0.036200086 0.060031024 6.22E-07 6.206442065 0.168014514 VALS(ph)DDETKETENMR ddPTM_HeLa_SAHA_4h_R1 6 VALSDDETKETENMR 15 1 H0YD46;Q15054-3;Q15054-2;Q15054 H0YD46 POLD3 DNA polymerase delta subunit 3 1 0 VALS(0.991)DDET(0.008)KETENMR;VALS(1)DDETKETENMR;VALS(0.997)DDET(0.003)KETENMR;VALS(1)DDETKETENMR;VALS(1)DDETKETENMR;VALS(1)DDETKETENMR ;;;;; 200.63 9.10E-12 414011000 8293.48 9335.6 8188.6 8934.06 9818.2 10897 9749.2 10125.01 9665.5 9229.9 TRUE FALSE FALSE 9165.826278 9638.079565 9304.499764 9106.99165 9065.931637 9968.514295 8652.194358 9866.026905 9598.236999 9627.846159 0.952012125 1.001062897 0.9664155 0.945901243 0.941636529 1.035383629 0.898663545 1.024738736 0.996924633 1 13.23299737 -9.527904992 1.241517109 1.000277459 0.967478723 0.070318142 0.038901753 0.899513955 2.448255811 0.02538889 0.005861525 2.97E-10 9.527904992 -0.032798736 VALSS(ph)ETEVALAR ddPTM_HeLa_SAHA_4h_R1 2 VALSSETEVALAR 13 0 E7EVA0;P27816;P27816-6;P27816-2 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 VALS(0.045)S(0.95)ET(0.004)EVALAR;VALS(0.173)S(0.653)ET(0.173)EVALAR ; 174.46 1.69E-05 5608000 1985.02 1955.31 1652.75 1635.01 2294.1 2203.82 1850.37 2191.8 2317.4 1907.4 TRUE FALSE FALSE 2193.813511 2018.663327 1877.978163 1666.657983 2118.326554 2016.042138 1642.161498 2135.73693 2301.273025 1989.637349 1.102619788 1.014588577 0.943879629 0.837669229 1.064679729 1.013271157 0.825357193 1.073430257 1.156629386 1 10.95828978 -6.920186008 4.598179032 1.048936118 0.955703208 0.265398117 0.087794424 0.244964426 9.649120647 0.013322874 0.017608949 1.20E-07 6.920186008 -0.09323291 VALTGLTVAEYFR ddPTM_HeLa_SAHA_4h_R1 1 VALTGLTVAEYFR 13 0 P06576;H0YH81;F8W0P7 P06576 ATP5B "ATP synthase subunit beta, mitochondrial;ATP synthase subunit beta" 0 0 94.616 0.023376 0 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 VALVYGQMNEPPGAR ddPTM_HeLa_SAHA_4h_R1 2 VALVYGQMNEPPGAR 15 0 P06576;H0YH81;F8W0P7 P06576 ATP5B "ATP synthase subunit beta, mitochondrial;ATP synthase subunit beta" 0 0 ; ; 135.1 0.00040233 2347670 492.23 680.74 485.32 317.193 498.93 554.9 587.51 395.01 402.44 550.76 FALSE FALSE TRUE 544.0050098 702.7964226 551.4568822 323.3327292 460.7020912 507.6193982 521.4018286 384.9062162 399.6393873 574.505959 0.946909255 1.223305715 0.959880178 0.56280135 0.801910031 0.883575514 0.907565571 0.669977761 0.695622702 1 9.166178047 -6.495587189 24.90531758 0.997558802 0.77966114 0.291246985 0.152121589 493.7966047 450621.7622 0.018261165 0.027846644 3.19E-07 6.495587189 -0.217897662 VANPSGNLTETYVQDR ddPTM_HeLa_SAHA_4h_R1 4 VANPSGNLTETYVQDR 16 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ;;; ;;; 280.97 1.69E-100 38675500 1494.26 1494.42 1051.77 1720.64 1678.205 1378.41 1647.43 1621.65 1268.5 1574.356 FALSE FALSE TRUE 1651.433123 1542.840189 1195.099738 1753.945475 1549.621295 1260.961713 1462.056841 1580.170541 1259.672405 1642.234192 1.005601473 0.939476352 0.72772796 1.068023966 0.943605549 0.767833065 0.890285227 0.962207795 0.767047971 1 10.68144416 -7.081339734 5.126154025 1.001957088 0.893075046 0 0.116829081 0.233658773 10.67501379 0.014506576 0.017951309 8.29E-08 7.081339734 -0.108882043 VANS(ph)PTMVNLLLGK ddPTM_HeLa_SAHA_4h_R1 1 VANSPTMVNLLLGK 14 0 Q6UB99;A0A087WTN8;A0A2R8Y438 Q6UB99 ANKRD11 Ankyrin repeat domain-containing protein 11 1 0 VANS(0.749)PT(0.251)MVNLLLGK 123.76 0.00076489 21811000 4301.2 4097.8 3460.4 4316.2 4708.7 4891.4 4855.7 4177.5 4651.3 4537.5 TRUE FALSE FALSE 4753.619951 4230.571409 3931.965291 4399.746292 4347.920423 4474.625202 4309.323856 4070.645599 4618.931225 4733.133831 1.004328236 0.893820365 0.830731906 0.929563044 0.918613455 0.945383199 0.910458907 0.860031798 0.975871672 1 12.20858 -7.262780627 24.86944906 1.002043891 0.90002148 0.640268241 0.032431537 45.54817544 844551.4535 0.005413284 0.006369442 5.46E-08 7.262780627 -0.102022411 VANVSLLALYK ddPTM_HeLa_SAHA_4h_R1 1 VANVSLLALYK 11 0 P62266 P62266 RPS23 40S ribosomal protein S23 0 0 164.64 1.64E-07 905170 395.95 386.06 1360.2 780.32 805.03 94.758 898.39 0 0 180.87 FALSE FALSE TRUE 437.5978377 398.5685973 1545.560972 795.424222 743.3487753 86.68408531 797.3007928 0 0 188.6681909 2.31940443 2.112537336 8.191953108 4.215995385 3.939979347 0.459452571 4.225941793 0 0 1 7.559707397 -4.230731334 24.55837558 2.485112913 0.000223108 0.0997894 2.310022068 22479.83008 17977603.47 0.323866555 58.00097088 5.88E-05 4.230731334 -2.484889805 VAPEEHPVLLT(ph)EAPLNPK ddPTM_HeLa_SAHA_4h_R1 2 VAPEEHPVLLTEAPLNPK 18 0 P60709;A0A2R8Y793;A0A2R8YGF8;E7EVS6;G5E9R0;P63261;I3L3I0;I3L1U9;I3L4N8;K7EM38;I3L3R2;J3KT65 P60709;P63261 ACTB;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 1 0 VAPEEHPVLLT(1)EAPLNPK;VAPEEHPVLLT(1)EAPLNPK ; 121.47 0.0005347 10577900 5080.2 5318.3 4759 4284.3 4959.7 5226.1 5506.5 4268.1 4207.6 4804.4 TRUE FALSE FALSE 5614.558745 5490.616409 5407.531736 4367.228822 4579.688857 4780.806879 4886.894128 4158.928182 4178.318969 5011.541196 1.120325769 1.095594388 1.079015721 0.871434286 0.913828437 0.953959409 0.975127997 0.829870098 0.833739324 1 12.29103863 -6.268153514 24.92042362 1.063302015 0.915309806 0.262527324 0.08691767 263.8887056 979458.2425 0.009081152 0.014066557 5.39E-07 6.268153514 -0.147992209 VAPEEHPVLLTEAPLNPK ddPTM_HeLa_SAHA_4h_R1 7 VAPEEHPVLLTEAPLNPK 18 0 P60709;A0A2R8Y793;A0A2R8YGF8;E7EVS6;G5E9R0;P63261;I3L3I0;I3L1U9;I3L4N8;K7EM38;I3L3R2;J3KT65 P60709;P63261 ACTB;ACTG1 "Actin, cytoplasmic 1;Actin, cytoplasmic 1, N-terminally processed;Actin, cytoplasmic 2;Actin, cytoplasmic 2, N-terminally processed" 0 0 ;;;;;; ;;;;;; 244.56 1.13E-58 994583600 23990 22448.3 20851.8 22859 24414.5 23382.1 25124.8 23169.1 23636.8 22457.2 FALSE FALSE TRUE 26513.37827 23175.63965 23693.37471 23301.469 22543.86628 21389.81354 22297.69138 22576.46797 23472.30958 23425.43979 1.131819872 0.989336373 1.011437775 0.994707856 0.962366832 0.913101898 0.951857962 0.963758553 1.002000807 1 14.51578851 -6.369110866 1.222022194 1.059600004 0.946049704 0.405344208 0.041967161 0.301630362 0.891574851 0.009375215 0.017391254 4.27E-07 6.369110866 -0.1135503 VAPGPSSGSTPGQVPGSS(ph)ALSSPRR ddPTM_HeLa_SAHA_4h_R1 1 VAPGPSSGSTPGQVPGSSALSSPRR 25 1 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-5 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 VAPGPSSGSTPGQVPGS(0.043)S(0.319)ALS(0.319)S(0.319)PRR 90.435 1.47E-05 15538000 1474 1517.3 1746.8 1481.2 1544.6 1724.8 1867 1960.7 1434.9 1480.7 TRUE FALSE FALSE 1629.042083 1566.461516 1984.844807 1509.870768 1426.253082 1577.837337 1656.920246 1910.548133 1424.914414 1544.540223 1.054710041 1.014192762 1.28507162 0.977553543 0.923415953 1.021557945 1.072759531 1.236968843 0.922549243 1 10.59296173 VAPGPSSGSTPGQVPGSSALS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 VAPGPSSGSTPGQVPGSSALSSPR 24 0 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-5 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 VAPGPSSGST(0.001)PGQVPGS(0.124)S(0.124)ALS(0.375)S(0.375)PR 111.66 3.39E-07 0 460.54 169.8 304.43 249.82 480.66 351.81 355.29 411.44 290.4 368.47 TRUE FALSE FALSE 508.9817102 175.3016314 345.916135 254.6556273 443.8319346 321.8338088 315.3118341 400.9159606 288.3790828 384.3565449 1.32424364 0.456091183 0.899987627 0.662550516 1.154740151 0.837331413 0.820362859 1.043083475 0.750290548 1 8.586301425 -7.292462413 24.99029431 1.153115046 0.846054267 0.040466769 0.232054788 571.7056844 460530.3075 0.034976776 0.039999621 5.10E-08 7.292462413 -0.307060779 VAPGPSSGSTPGQVPGSSALS(ph)SPRR ddPTM_HeLa_SAHA_4h_R1 1 VAPGPSSGSTPGQVPGSSALSSPRR 25 1 Q8NEY1-2;Q8NEY1-3;Q8NEY1;A0A0A0MRJ3;Q8NEY1-7;Q8NEY1-4;Q8NEY1-5 Q8NEY1-2 NAV1 Neuron navigator 1 1 0 VAPGPSSGSTPGQVPGS(0.056)S(0.305)ALS(0.319)S(0.319)PRR 90.592 1.45E-05 18704000 1045.3 1026.5 1071.6 1182.5 1227.2 1289.7 1332.4 1095.7 1279.5 926.09 TRUE FALSE FALSE 1155.24945 1059.759274 1217.632067 1205.388997 1133.172201 1179.810304 1182.474845 1067.673581 1270.595855 966.0182721 1.195887783 1.097038539 1.260464841 1.247791095 1.173033921 1.221312617 1.224070889 1.105231248 1.315291741 1 9.915906667 -9.273507742 0.546101944 0.962646826 1.200306313 0 0.111180626 0.618770904 0.256223212 0.076925134 0.012313208 5.33E-10 9.273507742 0.237659487 VAPSK(ac)LEALQK ddPTM_HeLa_SAHA_4h_R1 2 VAPSKLEALQK 11 1 A0A5H1ZRP4;Q8WX92;Q8WX92-2 A0A5H1ZRP4 NELFB Negative elongation factor B 0 1 ; VAPSK(1)LEALQK;VAPSK(1)LEALQK 106.62 0.0081266 1649400 190 285.19 358.61 450.03 265.804 257.815 458.34 297.4 0 127.94 FALSE TRUE FALSE 209.9850718 294.4303431 407.4795032 458.7409814 245.4381549 235.8477116 406.7663769 289.7929386 0 133.4561195 1.573439064 2.206195895 3.053284516 3.437391879 1.839092548 1.767230401 3.047940989 2.171447362 0 1 7.06022165 -7.372927984 1.823564376 1.213994305 2.549126676 0.569253352 0.643277067 0.186976911 1.188063972 0.103910431 0.11816995 4.24E-08 7.372927984 1.335132371 VAPVINNGS(ph)PTILGK ddPTM_HeLa_SAHA_4h_R1 4 VAPVINNGSPTILGK 15 0 H0Y4T7;E7ESY4;Q13330-3;Q13330;F8W9Y9 H0Y4T7 MTA1 Metastasis-associated protein MTA1 1 0 VAPVINNGS(0.913)PT(0.087)ILGK;VAPVINNGS(0.96)PT(0.04)ILGK;VAPVINNGS(0.995)PT(0.005)ILGK;VAPVINNGS(0.682)PT(0.318)ILGK ;;; 169.15 1.79E-06 86933000 10344.1 10356.2 7962.7 9953.5 10659.7 12105.3 10603.1 10526.9 12776.5 10987.4 TRUE FALSE FALSE 11432.1399 10691.74767 9047.815288 10146.16439 9842.956089 11073.86034 9410.011282 10257.63714 12687.5873 11461.12059 0.997471392 0.932871057 0.789435485 0.885268095 0.858812715 0.966210961 0.82103763 0.89499426 1.107011064 1 13.48446049 -7.054291819 4.120381338 0.998266653 0.87087575 0.61730864 0.055953567 0.096420041 3.363533823 0.00691745 0.008694348 8.82E-08 7.054291819 -0.127390903 VAPVINNGSPT(ph)ILGKR ddPTM_HeLa_SAHA_4h_R1 1 VAPVINNGSPTILGKR 16 1 H0Y4T7;E7ESY4;Q13330-3;Q13330;F8W9Y9 H0Y4T7 MTA1 Metastasis-associated protein MTA1 1 0 VAPVINNGS(0.216)PT(0.784)ILGKR 90.765 0.0087513 8139400 1282.5 763.41 1087.8 1010.5 914.08 986.74 1093.2 1300.5 727.87 1199.2 TRUE FALSE FALSE 1417.399234 788.1449849 1236.039719 1030.059689 844.0433879 902.6642008 970.1902589 1267.235093 722.8046934 1250.903381 1.133100491 0.63006064 0.988117658 0.823452638 0.674747067 0.72160985 0.775591683 1.013055934 0.577826157 1 10.28875465 -7.275860435 24.95832146 1.062853013 0.802439431 0 0.194084409 460.6829347 797295.847 0.020517026 0.023517468 5.30E-08 7.275860435 -0.260413582 VAQGATEKS(ph)PEDK ddPTM_HeLa_SAHA_4h_R1 1 VAQGATEKSPEDK 13 1 P49321-4;P49321;P49321-3 P49321-4 NASP Nuclear autoantigenic sperm protein 1 0 VAQGAT(0.185)EKS(0.815)PEDK 116.87 0.0058424 3867300 493.95 879.59 393.39 839.98 712.9 769.14 649.09 613.11 840.01 669.92 TRUE FALSE FALSE 545.9059273 908.0892931 446.9991405 856.2390275 658.277756 703.6049449 576.0526849 597.427534 834.164302 698.8035297 0.781200873 1.299491566 0.639663541 1.225292934 0.942006913 1.006870909 0.824341407 0.854929188 1.193703618 1 9.448743085 -4.739629359 24.64338504 0.937643724 0.839635202 0.009660382 0.200418743 563.5689475 636770.4253 0.024222392 0.09046408 1.82E-05 4.739629359 -0.098008522 VAQGATEKS(ph)PEDKVQIAANEETQER ddPTM_HeLa_SAHA_4h_R1 2 VAQGATEKSPEDKVQIAANEETQER 25 2 P49321-4;P49321;P49321-3 P49321-4 NASP Nuclear autoantigenic sperm protein 1 0 VAQGAT(0.05)EKS(0.95)PEDKVQIAANEETQER;VAQGAT(0.148)EKS(0.851)PEDKVQIAANEET(0.001)QER ; 60.991 0.0019187 30833000 1667.14 1806.34 1786.51 1856.99 2218.82 2601 1879.12 1791.89 3053.9 2536.2 TRUE FALSE FALSE 1842.497434 1864.866601 2029.966279 1892.934727 2048.814491 2379.380167 1667.676472 1746.056048 3032.647661 2645.547994 0.696452092 0.704907492 0.7673141 0.715517062 0.774438602 0.899390286 0.630370901 0.659997873 1.146321166 1 11.36935088 -9.268377159 0.854819977 1.010987572 0.732410493 0.698431394 0.086273342 0.324120675 0.398820125 0.059966118 0.014026704 5.39E-10 9.268377159 -0.278577079 VAQILK(ac)EPK ddPTM_HeLa_SAHA_4h_R1 1 VAQILKEPK 9 1 A0A494C0K9;H7C0C1;P48047 A0A494C0K9 ATP5O "ATP synthase subunit O, mitochondrial" 0 1 VAQILK(1)EPK 91.867 0.020864 1099400 700.67 1586 1122.6 761.79 1304.3 669.41 1357.8 604.57 416.34 701.04 FALSE TRUE FALSE 774.3696854 1637.387441 1275.582082 776.535547 1204.364816 612.372502 1205.01677 589.1059748 413.442656 731.2652652 1.058944985 2.239115569 1.744349339 1.061906785 1.646960239 0.837415 1.647851782 0.805598191 0.565379864 1 9.514251026 -7.480571965 24.99897032 1.026004574 1.435219076 0.227402066 0.440211731 561.196333 331611.7831 0.068437128 0.077570892 3.31E-08 7.480571965 0.409214502 VAQRS(ph)PVDSGTILR ddPTM_HeLa_SAHA_4h_R1 1 VAQRSPVDSGTILR 14 1 P49454 P49454 CENPF Centromere protein F 1 0 VAQRS(1)PVDSGTILR 90.259 0.0051867 11244000 664.67 704.78 555.05 840.03 970.55 1011.8 962.13 1047.9 1207.2 727.06 TRUE FALSE FALSE 734.5830402 727.6153344 630.6893234 856.2899954 896.1866687 925.5889478 853.8686002 1021.096235 1198.798997 758.4071147 0.968586694 0.959399405 0.831597319 1.129063769 1.181669648 1.220438113 1.125871031 1.346369536 1.580680051 1 9.566828688 -6.043107863 5.246632796 0.971759741 1.206847764 0.007588751 0.204574438 0.075737325 5.075403211 0.010036472 0.017185849 9.06E-07 6.043107863 0.235088023 VAS(ph)DTEEADRTSSK ddPTM_HeLa_SAHA_4h_R1 2 VASDTEEADRTSSK 14 1 A0A590UJ84;B1AKN3;Q9P2R6-2;Q9P2R6;D6RA28 A0A590UJ84 RERE Arginine-glutamic acid dipeptide repeats protein 1 0 VAS(0.972)DT(0.027)EEADRTSSK;VAS(0.997)DT(0.003)EEADRTSSK ; 107.35 0.012252 15183400 1901.2 1439.35 1529.32 1856.33 1579.95 1717.36 1850.35 1699.87 1506.53 1556.2 TRUE FALSE FALSE 2101.176939 1485.985884 1737.727765 1892.261951 1458.894572 1571.031266 1642.143748 1656.389787 1496.045935 1623.295398 1.294389759 0.915413107 1.070493865 1.165691687 0.898724024 0.967803684 1.011611165 1.020387164 0.921610409 1 10.66470984 -6.217947339 1.089405345 1.127125516 0.985021697 0 0.125071812 0.680008029 1.5943813 0.023730751 0.050048951 6.05E-07 6.217947339 -0.142103818 VAS(ph)ETHSEGSEYEELPK ddPTM_HeLa_SAHA_4h_R1 1 VASETHSEGSEYEELPK 17 0 Q5JSZ5;A0A494C0D3 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 VAS(0.943)ET(0.053)HS(0.005)EGSEYEELPK 65.887 0.018329 8731100 1391.3 1616.9 1222 1487.5 1658.3 2374.9 2345.4 1879.5 2008.7 1850.9 TRUE FALSE FALSE 1537.643318 1669.288621 1388.527796 1516.292713 1531.241412 2172.545159 2081.489419 1831.425111 1994.721293 1930.701357 0.796416966 0.86460219 0.719183105 0.785358496 0.793101122 1.12526215 1.078100148 0.948580217 1.033158901 1 10.91490931 -5.260667416 24.9980045 0.869065075 1.053392771 0.435992087 0.1006835 58.2858034 1887389.034 0.01592899 0.038117786 5.49E-06 5.260667416 0.184327696 VAS(ph)PTSGVK ddPTM_HeLa_SAHA_4h_R1 2 VASPTSGVK 9 0 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 VAS(0.939)PT(0.04)S(0.021)GVK;VAS(0.435)PT(0.19)S(0.375)GVK ; 91.469 0.016597 72170000 9112.9 10023 7888 9646.7 10752.7 12039.7 11475.6 11084.9 11207.9 9154.1 TRUE FALSE FALSE 10071.43663 10347.75178 8962.935561 9833.425828 9928.830449 11013.84983 10184.33529 10801.36431 11129.90331 9548.77805 1.054735651 1.083672876 0.938647387 1.029809864 1.039801155 1.153430289 1.066559012 1.131177649 1.165584042 1 13.22110041 -5.401748968 5.684097986 1.024640152 1.111568657 0.185940399 0.060402633 0.151964894 6.466932594 0.005963646 0.013490923 3.97E-06 5.401748968 0.086928505 VAS(ph)SPAPPEGPSHPR ddPTM_HeLa_SAHA_4h_R1 1 VASSPAPPEGPSHPR 15 0 H7BYJ3;O14578;O14578-4;O14578-3 H7BYJ3 CIT Citron Rho-interacting kinase 1 0 VAS(0.5)S(0.5)PAPPEGPSHPR 102.03 0.0029388 8664100 1431.2 1927.6 1338.8 1481.6 1759.3 2090.6 1733.7 1380.5 1754.3 1696.6 TRUE FALSE FALSE 1581.740183 1990.055505 1521.244692 1510.27851 1624.502814 1912.469119 1538.619513 1345.188809 1742.091683 1769.748729 0.893765401 1.124484777 0.859582305 0.853385843 0.91792851 1.080644437 0.869399982 0.760101582 0.984372332 1 10.78932882 -4.226382267 0.014282928 1.782597636 3.18E-07 0.145182293 0.098286209 5082.364361 11.36553423 638.935564 785.5686538 5.94E-05 4.226382267 -1.782597318 VAS(ph)SPVMVSNPATR ddPTM_HeLa_SAHA_4h_R1 1 VASSPVMVSNPATR 14 0 P51610-2;P51610;A6NEM2;P51610-4 P51610-2 HCFC1 Host cell factor 1;HCF N-terminal chain 1;HCF N-terminal chain 2;HCF N-terminal chain 3;HCF N-terminal chain 4;HCF N-terminal chain 5;HCF N-terminal chain 6;HCF C-terminal chain 1;HCF C-terminal chain 2;HCF C-terminal chain 3;HCF C-terminal chain 4;HCF C-terminal chain 5;HCF C-terminal chain 6 1 0 VAS(0.5)S(0.5)PVMVS(0.001)NPATR 155.06 3.56E-05 43627000 1828 1717.6 1501.7 1617.3 1508.9 2024.1 1848.3 1706.2 1504.7 1693.7 TRUE FALSE FALSE 2020.277427 1773.251367 1706.343855 1648.60518 1393.288408 1851.635293 1640.32442 1662.557875 1494.22867 1766.723696 1.143516347 1.003694789 0.965823835 0.933142621 0.788628358 1.048061617 0.928455549 0.941040118 0.845762512 1 10.78686071 -6.835913184 2.645872597 1.0677366 0.929773206 0 0.09748823 0.205945222 2.946510064 0.012864306 0.01767085 1.46E-07 6.835913184 -0.137963394 VASDT(ph)EEADR ddPTM_HeLa_SAHA_4h_R1 3 VASDTEEADR 10 0 A0A590UJ84;B1AKN3;Q9P2R6-2;Q9P2R6;D6RA28 A0A590UJ84 RERE Arginine-glutamic acid dipeptide repeats protein 1 0 VAS(0.044)DT(0.956)EEADR;VAS(0.438)DT(0.562)EEADR;VAS(0.151)DT(0.849)EEADR ;; 137.01 0.002227 27807300 3108.43 3975.5 2666.14 3686.2 4077.8 4653.9 4166.5 3665.9 5136.7 3568 TRUE FALSE FALSE 3435.388929 4104.308808 3029.467675 3757.551731 3765.359845 4257.361538 3697.674454 3572.131586 5100.953286 3721.833941 0.923036595 1.102765162 0.813971747 1.009596825 1.011694746 1.143888095 0.993508714 0.959777261 1.370548328 1 11.86179797 -6.014272141 24.73438969 0.962852246 1.030330951 0 0.151821803 871.2033603 1509846.723 0.011623058 0.019801691 9.68E-07 6.014272141 0.067478705 VASEAPLEHKPQVEAS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 VASEAPLEHKPQVEASSPR 19 1 Q8TD19 Q8TD19 NEK9 Serine/threonine-protein kinase Nek9 1 0 VASEAPLEHKPQVEAS(0.644)S(0.356)PR 122.3 0.00017945 30359000 3158.3 3283.1 2994.3 2967.9 3448.3 3988.5 3225.3 3419.3 3219.3 4174.4 TRUE FALSE FALSE 3490.504485 3389.474594 3402.34761 3025.347996 3184.091999 3648.657361 2862.380755 3331.839257 3196.896629 4354.378813 0.801607907 0.778406 0.781362338 0.694782913 0.73123909 0.837928329 0.657356854 0.765169821 0.734179723 1 12.08825121 -8.899734048 0.397400402 1.05569414 0.72973263 0 0.09432483 0.53972106 0.138324826 0.074282976 0.016816449 1.26E-09 8.899734048 -0.325961509 VASEAPLEHKPQVEASS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 VASEAPLEHKPQVEASSPR 19 1 Q8TD19 Q8TD19 NEK9 Serine/threonine-protein kinase Nek9 1 0 VASEAPLEHKPQVEAS(0.252)S(0.748)PR 121 0.00020155 22309000 1578 1464.2 1625.4 1373.8 2038 1982.7 1904.4 1827.5 1576.9 1859.5 TRUE FALSE FALSE 1743.98128 1511.641041 1846.901047 1400.391886 1881.84888 1813.762806 1690.1119 1780.755196 1565.926225 1939.672145 0.89911137 0.779328117 0.952171764 0.721973499 0.970189155 0.935087309 0.871338955 0.918070201 0.8073149 1 10.9215971 -8.70685511 0.883562161 0.993020609 0.880409524 0 0.093434388 0.516015967 0.804537956 0.031604008 0.014254616 1.96E-09 8.70685511 -0.112611085 VASET(ph)HSEGS(ph)EYEELPK ddPTM_HeLa_SAHA_4h_R1 1 VASETHSEGSEYEELPK 17 0 Q5JSZ5;A0A494C0D3 Q5JSZ5 PRRC2B Protein PRRC2B 2 0 VAS(0.305)ET(0.694)HS(0.094)EGS(0.905)EY(0.003)EELPK 122.12 0.012453 2454400 843.16 895.14 467.11 652.83 1132.1 1226.9 1300.7 945.36 965.16 818.89 TRUE FALSE FALSE 931.8474374 924.1431233 530.7653182 665.4664687 1045.358743 1122.361218 1154.341813 921.1790601 958.443373 854.1963555 1.090905424 1.081886053 0.62136219 0.779055617 1.223792089 1.313938195 1.351377591 1.078416051 1.122041047 1 9.738423932 -5.59727761 10.76640953 0.995606852 1.260019559 0.422134782 0.1623955 0.377606583 52.44998139 0.024936815 0.049894297 2.53E-06 5.59727761 0.264412706 VASETHS(ph)EGSEYEELPK ddPTM_HeLa_SAHA_4h_R1 1 VASETHSEGSEYEELPK 17 0 Q5JSZ5;A0A494C0D3 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 VASETHS(0.871)EGS(0.129)EYEELPK 131.31 8.96E-05 9164500 1905 2778.1 1254.3 2185 3706.3 5011.3 2456.2 2782.3 3464.6 2778.6 TRUE FALSE FALSE 2105.37664 2868.112263 1425.229472 2227.293835 3422.324095 4584.309047 2179.821912 2711.132795 3440.489567 2898.399044 0.726392953 0.989550514 0.4917299 0.768456586 1.180763602 1.58166939 0.752077916 0.935389763 1.187031018 1 11.50104052 -5.760110342 24.99744115 0.839699256 1.120246405 0.177223317 0.263454206 41.89203462 787903.9055 0.036750246 0.07040336 1.74E-06 5.760110342 0.280547149 VASGSTATAAAGPSCALK(ac)AGK ddPTM_HeLa_SAHA_4h_R1 2 VASGSTATAAAGPSCALKAGK 21 1 P41134-2;P41134 P41134-2 ID1 DNA-binding protein inhibitor ID-1 0 1 ; VASGSTATAAAGPSCALK(1)AGK;VASGSTATAAAGPSCALK(1)AGK 364.06 2.58E-237 5267700 822.01 558.21 396.81 670.97 654.97 714.74 947.287 969.27 354.41 321.84 FALSE TRUE FALSE 908.4727833 576.2963703 450.8852003 683.9575946 604.7863401 653.840131 840.6957736 944.4774769 351.943632 335.7160974 2.706074538 1.716618222 1.343055051 2.0373095 1.801481504 1.94759839 2.504186663 2.813321983 1.048337076 1 8.391097905 -9.534577187 1.278162828 0.99631015 2.142437771 0.497103686 0.434742677 0.346943734 1.009806608 0.346852399 0.081616706 2.92E-10 9.534577187 1.146127621 VASS(ph)PAPPEGPSHPR ddPTM_HeLa_SAHA_4h_R1 1 VASSPAPPEGPSHPR 15 0 H7BYJ3;O14578;O14578-4;O14578-3 H7BYJ3 CIT Citron Rho-interacting kinase 1 0 VAS(0.229)S(0.771)PAPPEGPSHPR 77.468 0.013354 8271600 889.94 1190.3 766.67 945.02 1180.7 1065.3 1096.3 1087.3 1293.9 1020.7 TRUE FALSE FALSE 983.5479724 1228.866501 871.147795 963.3122286 1090.235021 974.5304468 972.9414387 1059.48844 1284.895645 1064.707372 0.923773046 1.154182391 0.818203966 0.904767125 1.023976211 0.915303559 0.913811122 0.995098248 1.206806375 1 10.05624125 VASS(ph)PVMVSNPATR ddPTM_HeLa_SAHA_4h_R1 2 VASSPVMVSNPATR 14 0 P51610-2;P51610;A6NEM2;P51610-4 P51610-2 HCFC1 Host cell factor 1;HCF N-terminal chain 1;HCF N-terminal chain 2;HCF N-terminal chain 3;HCF N-terminal chain 4;HCF N-terminal chain 5;HCF N-terminal chain 6;HCF C-terminal chain 1;HCF C-terminal chain 2;HCF C-terminal chain 3;HCF C-terminal chain 4;HCF C-terminal chain 5;HCF C-terminal chain 6 1 0 VAS(0.069)S(0.931)PVMVSNPATR;VAS(0.108)S(0.891)PVMVS(0.001)NPATR ; 184.76 2.54E-08 69332000 3354.5 3473 3407.8 3414.2 3807.2 4254.8 4242.2 3351.2 3989.3 3930.2 TRUE FALSE FALSE 3707.341701 3585.527479 3872.197237 3480.286778 3515.493159 3892.267103 3764.856491 3265.481156 3961.538136 4099.650156 0.904306846 0.874593524 0.944518944 0.84892287 0.857510525 0.949414451 0.91833604 0.796526785 0.966311267 1 12.00128509 -9.52742757 0.332961696 1.057996552 0.877121192 0.434886822 0.044203837 2.418874576 0.305616414 0.166566404 0.01963805 2.97E-10 9.52742757 -0.180875359 VATLNS(ph)EEESDPPTYK ddPTM_HeLa_SAHA_4h_R1 1 VATLNSEEESDPPTYK 16 0 A0A024R4E5;Q00341-2;Q00341;C9JT62;C9JHS7;C9JK79;C9JHZ8;C9JES8;C9JZI8;C9J5E5;C9JIZ1;C9JQ82;C9JBS3;C9JEJ8;C9JHN6;C9JMQ6 A0A024R4E5 HDLBP Vigilin 1 0 VAT(0.024)LNS(0.85)EEES(0.126)DPPTYK 175.19 5.01E-09 19617000 2179.5 2783.1 2121 2277.2 2614.5 2886.7 3247.9 2361.4 2790.6 2259.9 TRUE FALSE FALSE 2408.74981 2873.274266 2410.038834 2321.278499 2414.177575 2640.73692 2882.437744 2300.998807 2771.179987 2357.335349 1.021810415 1.218865304 1.022357229 0.984704404 1.024112915 1.120221152 1.222752523 0.976101601 1.175556116 1 11.20294129 -7.494293549 24.49367646 1.009622169 1.082934614 0 0.097588537 375.6363615 321873.8162 0.014224523 0.015439284 3.20E-08 7.494293549 0.073312445 VATLNSEEES(ph)DPPTYK ddPTM_HeLa_SAHA_4h_R1 3 VATLNSEEESDPPTYK 16 0 A0A024R4E5;Q00341-2;Q00341;C9JT62;C9JHS7;C9JK79;C9JHZ8;C9JES8;C9JZI8;C9J5E5;C9JIZ1;C9JQ82;C9JBS3;C9JEJ8;C9JHN6;C9JMQ6 A0A024R4E5 HDLBP Vigilin 1 0 VATLNSEEES(0.999)DPPT(0.001)YK;VATLNS(0.003)EEES(0.997)DPPTYK;VATLNSEEES(0.993)DPPT(0.007)YK ;; 242.01 3.06E-36 136099000 7889.9 9515.7 7496.2 7955.7 8752.1 10717.9 9506.6 7307.8 11025.1 7770.2 TRUE FALSE FALSE 8719.795882 9824.014923 8517.743097 8109.694078 8081.515989 9804.674623 8436.892348 7120.877058 10948.37543 8105.211348 1.075825849 1.212061537 1.0508971 1.000553068 0.997076528 1.209675381 1.040921943 0.878555383 1.350782226 1 12.98463409 -6.491750062 24.08773557 1.053904962 1.033973548 0 0.131942571 2769.561544 2143116.542 0.015047796 0.022969077 3.22E-07 6.491750062 -0.019931414 VATLNSEEESDPPT(ph)YKDAFPPLPEK ddPTM_HeLa_SAHA_4h_R1 1 VATLNSEEESDPPTYKDAFPPLPEK 25 1 A0A024R4E5;Q00341-2;Q00341;C9JT62;C9JHS7;C9JK79;C9JHZ8;C9JES8;C9JZI8;C9J5E5;C9JIZ1;C9JQ82;C9JBS3;C9JEJ8;C9JHN6 A0A024R4E5 HDLBP Vigilin 1 0 VAT(0.003)LNS(0.13)EEES(0.025)DPPT(0.454)Y(0.389)KDAFPPLPEK 76.21 0.00025538 42021000 1973.1 1342.9 2141 1707.6 1744.8 1658.5 1843 1899.5 1336.4 1995.1 TRUE FALSE FALSE 2180.639711 1386.410841 2432.76433 1740.653067 1611.113801 1517.18647 1635.620789 1850.91354 1327.099884 2081.118525 1.047821008 0.666185431 1.16896962 0.836402659 0.774157638 0.729024537 0.785933511 0.889384011 0.637685873 1 11.02314342 -6.392194113 0.772499444 1.017699366 0.78283318 0 0.178123238 0.524701314 0.621559296 0.025929545 0.0560957 4.05E-07 6.392194113 -0.234866186 TSGSEMANK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 TSGSEMANKR 10 1 Q86T24 Q86T24 ZBTB33 Transcriptional regulator Kaiso 0 1 ; TSGSEMANK(1)R;TSGSEMANK(1)R 204.79 1.25E-25 1995500 654.87 616.29 741.03 838.43 1171.38 1089.52 1278.81 1212.09 427.27 372.16 FALSE TRUE FALSE 723.7522313 636.2582004 842.0137093 854.659025 1081.629117 996.6867665 1134.914933 1181.086493 424.2965933 388.2056389 1.864352701 1.638972072 2.168988868 2.201562624 2.786227218 2.567419601 2.923489047 3.042424876 1.092968651 1 8.600677264 -2.048036228 0.095419475 1.16E-13 7.829023669 0.949431482 0.155061457 15.16164889 0.130174179 1.660449677 15.63669335 0.008952901 2.048036228 7.829023669 up VAVEELS(ph)PGGQPR ddPTM_HeLa_SAHA_4h_R1 1 VAVEELSPGGQPR 13 0 Q9H611-2;Q9H611;Q9H611-3 Q9H611-2 PIF1 ATP-dependent DNA helicase PIF1 1 0 VAVEELS(1)PGGQPR 104.17 0.0036902 2178700 378.79 439.98 454.47 412.15 529.79 568.11 766.59 448.85 451.11 494.55 TRUE FALSE FALSE 418.6328702 454.2356407 516.4028048 420.1277592 489.1976047 519.7038319 680.3312756 437.3690669 447.9706888 515.8724708 0.811504575 0.880519249 1.001028033 0.814402363 0.948291743 1.007426954 1.318797405 0.84782401 0.868374868 1 9.01087065 -5.154148782 3.527848658 0.908071648 1.096550514 0.252069377 0.123496274 0.22979748 5.267462501 0.017258361 0.048206151 7.01E-06 5.154148782 0.188478865 VAVEEVDEEGK ddPTM_HeLa_SAHA_4h_R1 1 VAVEEVDEEGK 11 0 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 185.61 7.80E-06 6052400 1967.1 1157.3 1170.1 1496.4 1134.5 1927.2 1500.7 1463.3 2091.6 1508.7 FALSE FALSE TRUE 2174.008603 1194.797279 1329.555134 1525.364986 1047.574855 1762.991718 1331.837286 1425.870905 2077.044385 1573.74744 1.381421534 0.759205225 0.844833866 0.969256532 0.665656273 1.120250729 0.846284005 0.906035408 1.319807951 1 10.61998832 -7.251535249 24.98676172 1.180115726 0.876186442 0.544233521 0.148823639 503.3877389 1269978.842 0.028839826 0.035094429 5.60E-08 7.251535249 -0.303929284 VAVEEVDEEGK(ac)FVR ddPTM_HeLa_SAHA_4h_R1 1 VAVEEVDEEGKFVR 14 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 1 VAVEEVDEEGK(1)FVR 207.95 2.27E-32 1140600 0 334.12 243.63 235.37 494.59 339.98 257.18 330.17 247.13 0 FALSE TRUE FALSE 0 344.9457072 276.8306276 239.9259267 456.6946211 311.0117913 228.2414295 321.7247295 245.4102022 0 0 VAVEEVDEEGKFVR ddPTM_HeLa_SAHA_4h_R1 2 VAVEEVDEEGKFVR 14 1 P02545;P02545-3;P02545-6;P02545-5;P02545-4;A0A0C4DGC5;P02545-2;Q5TCI8 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 0 ; ; 213.99 4.89E-17 88120000 5128.3 5211.1 5360.3 5870.2 5656.6 6150.7 5288.6 5646.8 5645.5 4617.9 FALSE FALSE TRUE 5667.718123 5379.943059 6090.773769 5983.826209 5223.19253 5626.625757 4693.512809 5502.363032 5606.212506 4817.000268 1.176607392 1.116865842 1.264432931 1.242230823 1.084324733 1.168076696 0.974364241 1.142279993 1.163838944 1 12.23391929 -9.302702269 0.981061481 0.998314494 1.146876732 0 0.091445773 0.540967724 0.915974441 0.057139475 0.014595607 4.98E-10 9.302702269 0.148562238 VAVEYLDPS(ph)PEVQK ddPTM_HeLa_SAHA_4h_R1 2 VAVEYLDPSPEVQK 14 0 J3QT28;O43684-2;O43684 J3QT28 BUB3 Mitotic checkpoint protein BUB3 1 0 VAVEYLDPS(1)PEVQK;VAVEYLDPS(1)PEVQK ; 140.31 0.00022104 10501200 4285.6 3902.6 4237.6 4593.5 4814 5202 4576.6 4760.1 4671.6 4640.6 TRUE FALSE FALSE 4736.379071 4029.046801 4815.07806 4682.413835 4445.15236 4758.760334 4061.628923 4638.343535 4639.089955 4840.678977 0.978453455 0.832330923 0.994711296 0.967305177 0.918291087 0.983077035 0.839061822 0.95820102 0.958355218 1 12.24099371 -7.495768429 22.85626621 0.990494293 0.928291638 0.157639905 0.05312565 113.0783579 95336.79827 0.008562642 0.009274445 3.19E-08 7.495768429 -0.062202655 VAVLLLAGGQGTR ddPTM_HeLa_SAHA_4h_R1 2 VAVLLLAGGQGTR 13 0 Q16222-2;Q3KQV9;Q16222-3;Q16222 Q16222-2 UAP1;UAP1L1 UDP-N-acetylhexosamine pyrophosphorylase;UDP-N-acetylgalactosamine pyrophosphorylase;UDP-N-acetylglucosamine pyrophosphorylase;UDP-N-acetylhexosamine pyrophosphorylase-like protein 1 0 0 ; ; 153.1 1.55E-05 2260000 640.61 1173.4 955.68 728.81 994.28 1031.65 992.83 548.04 625.17 951.81 FALSE FALSE TRUE 707.992299 1211.41893 1085.915093 742.9171714 918.0984812 943.7476161 881.1141554 534.0219304 620.8193911 992.8471871 0.713092919 1.220146409 1.0937384 0.748269402 0.924712779 0.950546699 0.887462005 0.537869208 0.625291988 1 9.955427874 -4.262713449 5.326967631 0.904664589 0.52329536 0.300475299 0.169142114 0.147483309 14.92349212 0.022714334 0.204795122 5.46E-05 4.262713449 -0.381369229 VAVPTGPTPLDS(ph)TPPGGAPHPLTGQEEAR ddPTM_HeLa_SAHA_4h_R1 2 VAVPTGPTPLDSTPPGGAPHPLTGQEEAR 29 0 A0A0A0MR08;E7ESU0;O94966-2;O94966-4;O94966-3;O94966;O94966-7;O94966-6;O94966-5 A0A0A0MR08 USP19 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 19 1 0 VAVPT(0.02)GPT(0.059)PLDS(0.46)T(0.46)PPGGAPHPLTGQEEAR;VAVPT(0.015)GPT(0.08)PLDS(0.762)T(0.143)PPGGAPHPLTGQEEAR ; 82.541 4.08E-06 14046600 2521.9 2233.9 2010.71 2428.1 2729.7 2515.1 2407.08 2420.2 2462.2 2507.95 TRUE FALSE FALSE 2787.165013 2306.279826 2284.719087 2475.099387 2520.550976 2300.79933 2136.229023 2358.294788 2445.06535 2616.079998 1.065397471 0.881578479 0.873336859 0.946109977 0.963483906 0.879483553 0.816576337 0.901461267 0.934629427 1 11.35319094 -7.255957253 24.98674447 1.03088214 0.894810834 0.442637885 0.050787019 201.7459415 919529.3343 0.007832106 0.009446638 5.55E-08 7.255957253 -0.136071306 VAVPTGPTPLDST(ph)PPGGAPHPLTGQEEAR ddPTM_HeLa_SAHA_4h_R1 1 VAVPTGPTPLDSTPPGGAPHPLTGQEEAR 29 0 A0A0A0MR08;E7ESU0;O94966-2;O94966-4;O94966-3;O94966;O94966-7;O94966-6;O94966-5 A0A0A0MR08 USP19 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 19 1 0 VAVPT(0.002)GPT(0.007)PLDS(0.16)T(0.831)PPGGAPHPLTGQEEAR 92.349 1.13E-07 7426000 746.11 844.43 908.5 715.95 1001.4 1012.2 865.01 1008.2 1029.9 894.67 TRUE FALSE FALSE 824.5892731 871.7900861 1032.305649 729.8082475 924.6729483 925.9548655 767.6767982 982.4117039 1022.732842 933.2436021 0.883573454 0.934150616 1.106148112 0.782012591 0.990816274 0.992189888 0.82258994 1.052685174 1.095890547 1 9.866109903 VAVVAGYGDVGK ddPTM_HeLa_SAHA_4h_R1 1 VAVVAGYGDVGK 12 0 P23526-2;P23526 P23526-2 AHCY Adenosylhomocysteinase 0 0 163.38 4.98E-07 4861500 2339.6 2509.2 2116.4 2238.3 2289.9 2651.4 2907.3 2379 2445.6 2180.2 FALSE FALSE TRUE 2585.689862 2590.499726 2404.81197 2281.625533 2114.448357 2425.485804 2580.162952 2318.148625 2428.58087 2274.199092 1.136967239 1.13908221 1.057432473 1.00326552 0.929755167 1.066523073 1.134536973 1.01932528 1.067884021 1 11.15114284 -6.514962722 24.54754142 1.073313607 1.032586558 0.142540905 0.060775911 714.3599132 2215225.305 0.011860363 0.017237651 3.06E-07 6.514962722 -0.040727049 VAY(ph)QDPSS(ph)GCT(ph)SK ddPTM_HeLa_SAHA_4h_R1 1 VAYQDPSSGCTSK 13 0 E9PNR2;Q13671-2;Q13671 E9PNR2 RIN1 Ras and Rab interactor 1 3 0 VAY(0.696)QDPS(0.311)S(0.992)GCT(0.761)S(0.239)K 58.63 0.0088562 0 197.49 0 172.34 188.74 120.05 170.32 195.8 248.8 189.43 193.56 TRUE FALSE FALSE 218.2629043 0 195.8255977 192.3933356 110.8517949 155.8077778 173.7680687 242.4360563 188.1117412 201.9053189 1.08101612 0 0.969888257 0.952888892 0.549028602 0.771687337 0.860641362 1.200741306 0.931682941 1 7.657535106 VAYGGTGDAATR ddPTM_HeLa_SAHA_4h_R1 2 VAYGGTGDAATR 12 0 I3L3I9;P30838;C9JMC5;E9PNN6 I3L3I9 ALDH3A1 "Aldehyde dehydrogenase, dimeric NADP-preferring" 0 0 ; ; 122.94 0.008364 10132100 3023.3 2586.67 2380.77 3810.9 2590 4033.6 2731.7 4215.9 4660.2 3752.8 FALSE FALSE TRUE 3341.304565 2670.479805 2705.208937 3884.66548 2391.55476 3689.914588 2424.321927 4108.063383 4627.769289 3914.601574 0.853549078 0.682184318 0.691056008 0.99235271 0.610931844 0.942602847 0.619302343 1.049420562 1.182181431 1 11.93464976 -8.396476042 0.920932295 0.981617658 0.795643651 0.288466828 0.160876308 0.521446714 0.919429388 0.047283127 0.028108142 4.01E-09 8.396476042 -0.185974008 VCEEIAIIPSK ddPTM_HeLa_SAHA_4h_R1 1 VCEEIAIIPSK 11 0 H0YN88;A0A075B716;H3BNC9;P08708;H0YN73 H0YN88 RPS17 40S ribosomal protein S17 0 0 106.88 0.01349 476720 280.6 186.77 124.7 315.22 278.98 332.02 304.78 354 512.61 298.24 FALSE FALSE TRUE 310.1147954 192.8214705 141.6934666 321.3215389 257.6046127 303.7300281 270.4853523 344.9451926 509.0427053 311.098586 0.996837689 0.619808251 0.455461622 1.032860815 0.828048163 0.976314396 0.869452207 1.108797044 1.636274571 1 8.281228027 -4.251083975 23.00708762 0.920023469 1.108797343 0.028485601 0.292946591 1089.425862 2420272.561 0.027938553 0.484236899 5.61E-05 4.251083975 0.188773873 VCEEIAIIPSKK ddPTM_HeLa_SAHA_4h_R1 2 VCEEIAIIPSKK 12 1 H0YN88;A0A075B716;H3BNC9;P08708;H0YN73 H0YN88 RPS17 40S ribosomal protein S17 0 0 ; ; 122.55 0.0006739 3780100 1881.37 1898.18 1997.54 2430.52 2225.7 2557.4 2344.8 1907.5 2017.3 2268.56 FALSE FALSE TRUE 2079.261129 1959.682277 2269.754348 2477.566229 2055.167347 2339.495132 2080.956933 1858.708912 2003.261445 2366.368724 0.878671657 0.828139021 0.959171885 1.046990777 0.868489905 0.988643532 0.879388285 0.785468847 0.846555072 1 11.20845917 -9.383800228 1.123755091 0.999697203 0.906962857 0 0.086698213 0.691379485 1.569970144 0.049573949 0.012907671 4.13E-10 9.383800228 -0.092734346 VCENIPIVLCGNK ddPTM_HeLa_SAHA_4h_R1 2 VCENIPIVLCGNK 13 0 F5H018;B5MDF5;J3KQE5;P62826;B4DV51 F5H018 RAN GTP-binding nuclear protein Ran 0 0 ; ; 176.18 1.10E-10 834850 1723.72 1566.76 1307.31 1766 1456.22 2060 1895.67 1535.42 1699.72 1638.59 FALSE FALSE TRUE 1905.028778 1617.524052 1485.463399 1800.183484 1344.644738 1884.476411 1682.364222 1496.14618 1687.89151 1709.237634 1.114548814 0.946342404 0.869079506 1.053208429 0.786692682 1.102524525 0.984277545 0.875329533 0.987511319 1 10.73913727 -7.237118389 22.29856962 1.054092491 0.948005596 0.152432579 0.092091897 214.9241213 197051.5217 0.014765075 0.018075161 5.79E-08 7.237118389 -0.106086895 VCENIPIVLCGNKVDIK ddPTM_HeLa_SAHA_4h_R1 2 VCENIPIVLCGNKVDIK 17 1 F5H018;B5MDF5;J3KQE5;P62826;B4DV51 F5H018 RAN GTP-binding nuclear protein Ran 0 0 ; ; 190.19 1.96E-18 4336690 1440.73 1421.68 1431.35 1539.83 1460.19 1279.16 1558.58 1270.22 1227.24 1611.31 FALSE FALSE TRUE 1592.272592 1467.743365 1626.406924 1569.635636 1348.310558 1170.168372 1383.204476 1237.729612 1218.699537 1680.78146 0.947340645 0.873250568 0.967649253 0.933872531 0.802192665 0.69620495 0.822953197 0.736401276 0.725079117 1 10.71491644 -5.741491976 3.050793133 0.964378177 0.75716129 0.30165064 0.087074231 0.077734974 1.488091453 0.006881418 0.014133202 1.81E-06 5.741491976 -0.207216887 VCFEMK ddPTM_HeLa_SAHA_4h_R1 1 VCFEMK 6 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;Q5RI18;A0A1W2PP34;A0A1W2PPH7;A0A1W2PPL4;A0A1W2PQL0;A0A1W2PQ74;M0QYM5;M0QYG9;M0R3F1;A0A0A0MRA5;B7Z4B8;Q9BUJ2-3;Q9BUJ2-4;Q9BUJ2-2;Q9BUJ2;M0QYI8;M0QYZ0 Q00839;M0R3F1 HNRNPU;HNRNPUL1 Heterogeneous nuclear ribonucleoprotein U;Heterogeneous nuclear ribonucleoprotein U-like protein 1 0 0 106.84 0.020663 853100 383.64 537.74 538.83 661.77 607.27 386.62 614.6 256.21 279.19 477.49 FALSE FALSE TRUE 423.9930154 555.1631288 612.2589463 674.5795153 560.7411038 353.6778009 545.4435905 249.6565192 277.2470941 498.0769307 0.851260095 1.114613215 1.229245742 1.354368118 1.125812238 0.710086694 1.095099084 0.50124088 0.556635084 1 8.960224781 -4.254230426 24.5419585 0.995741384 0.501240578 0.304113259 0.227895647 584.4966233 1989778.961 0.027583176 0.372544773 5.57E-05 4.254230426 -0.494500806 VCNPIITK ddPTM_HeLa_SAHA_4h_R1 3 VCNPIITK 8 0 P11142;E9PKE3;E9PNE6;A8K7Q2;E9PS65 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 0 ;; ;; 122.52 0.0074208 15826000 8627 8143.8 8663.5 8420.9 8856.9 8300.7 9638.3 7912.8 6140.9 6830.7 FALSE FALSE TRUE 9534.427442 8407.664463 9844.116662 8583.898696 8178.286235 7593.433662 8553.773117 7710.402034 6098.164977 7125.204906 1.338126772 1.179989148 1.381590676 1.204723066 1.147796638 1.065714427 1.200495036 1.082130568 0.85585819 1 12.79871579 -4.251340974 21.99200774 1.176783712 1.082130298 0 0.147225303 808.7147021 1760984.745 0.019504183 0.315848771 5.61E-05 4.251340974 -0.094653414 VCTLAIIDPGDSDIIR ddPTM_HeLa_SAHA_4h_R1 2 VCTLAIIDPGDSDIIR 16 0 E5RI99;P62888;A0A0C4DH44;A0A0B4J213 E5RI99 RPL30 60S ribosomal protein L30 0 0 ; ; 198.32 2.94E-24 1926570 761.42 607.07 730.2 733.79 899.5 769.4 548.26 734.05 636.48 659.28 FALSE FALSE TRUE 841.5096491 626.7394663 829.7078533 747.9935665 830.5805043 703.8427915 486.5683419 715.2740639 632.0506839 687.7047872 1.223649544 0.911349576 1.206488407 1.087666656 1.20775734 1.023466471 0.707525018 1.040088825 0.919072683 1 9.425645578 -4.988831782 23.86950846 1.105596415 0.871728925 0.25992304 0.131854308 97.65441213 208707.7988 0.016779764 0.050262731 1.03E-05 4.988831782 -0.233867489 VDALGEALQTTVS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 VDALGEALQTTVSR 14 0 Q8TF42 Q8TF42 UBASH3B Ubiquitin-associated and SH3 domain-containing protein B 1 0 VDALGEALQT(0.058)T(0.095)VS(0.847)R 80.69 0.012971 690320 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 VDATEESDLAQQYGVR ddPTM_HeLa_SAHA_4h_R1 3 VDATEESDLAQQYGVR 16 0 P07237;H7BZ94;I3NI03;I3L3U6 P07237 P4HB Protein disulfide-isomerase 0 0 ;; ;; 205.31 1.35E-14 23260000 1514.57 1935.5 1895.47 1833.83 2900.47 2254.21 2162.81 2001.96 2963.54 1654.37 FALSE FALSE TRUE 1673.879422 1998.21147 2153.77478 1869.326431 2678.236615 2062.138626 1919.444927 1950.752762 2942.916484 1725.697987 0.969972402 1.157914934 1.248060087 1.083229189 1.551972961 1.194959165 1.112271638 1.130413767 1.705348506 1 10.75296429 -7.139865351 3.468973826 0.985575016 1.222211994 0 0.258664132 0.169811081 3.774256578 0.020593426 0.025466707 7.25E-08 7.139865351 0.236636977 VDCTANTNTCNK ddPTM_HeLa_SAHA_4h_R1 3 VDCTANTNTCNK 12 0 H7BZJ3;P30101 H7BZJ3;P30101 PDIA3 Protein disulfide-isomerase A3 0 0 ;; ;; 242.45 1.76E-30 7966150 1997.53 1909.32 1545.08 1740.45 1727.49 1592.12 1857.61 2107.62 1794.22 1555.81 FALSE FALSE TRUE 2207.63937 1971.183221 1755.635456 1774.138926 1595.130089 1456.462419 1648.586834 2053.710132 1781.733877 1622.888583 1.360314807 1.214614017 1.081796664 1.09319823 0.982895626 0.897450653 1.015834883 1.265465882 1.097878126 1 10.66434824 -6.479491858 2.576965779 1.177564216 1.035751046 0.15771004 0.123293523 0.437735539 5.779387816 0.025891706 0.040274941 3.32E-07 6.479491858 -0.14181317 VDDDS(ph)LGEFPVTNSR ddPTM_HeLa_SAHA_4h_R1 3 VDDDSLGEFPVTNSR 15 0 J3KMZ8;Q92785;Q92785-2 J3KMZ8 DPF2 Zinc finger protein ubi-d4 1 0 VDDDS(0.999)LGEFPVT(0.001)NSR;VDDDS(1)LGEFPVTNSR;VDDDS(1)LGEFPVTNSR ;; 191.15 4.83E-09 76075100 1927.88 2037.17 2155.23 3488.08 3881.93 3964.78 3975.98 4421.86 2750.73 2371.64 TRUE FALSE FALSE 2130.663264 2103.175645 2448.93352 3555.596832 3584.497362 3626.958439 3528.592266 4308.755224 2731.587446 2473.893007 0.861259261 0.850148183 0.989910846 1.437247618 1.448929825 1.466093493 1.4263318 1.741690207 1.104165555 1 11.27256739 -6.253880467 3.252888139 0.925325799 1.50510089 0.866083387 0.106914097 0.056514673 1.244781548 0.014968295 0.024812281 5.57E-07 6.253880467 0.579775091 VDDFLANEAK ddPTM_HeLa_SAHA_4h_R1 1 VDDFLANEAK 10 0 P52209-2;P52209;K7EMN2;K7EM49;K7EPF6 P52209-2 PGD "6-phosphogluconate dehydrogenase, decarboxylating" 0 0 133.81 0.0085158 5024100 1618.9 1512.6 1294.6 1315.5 1328.6 1955.1 1644.1 1546.8 1720 1544.8 FALSE FALSE TRUE 1789.18333 1561.609232 1471.021346 1340.963405 1226.802955 1788.514481 1459.101541 1507.235096 1708.03038 1611.403888 1.110325812 0.969098588 0.91288184 0.832170888 0.761325552 1.109910739 0.905484684 0.935355256 1.059964167 1 10.65410243 -7.008504943 3.998243653 1.052028338 0.909204 0.364797578 0.086706671 0.185742931 6.78949591 0.015247846 0.019564754 9.81E-08 7.008504943 -0.142824338 VDDKPS(ph)SPGDSSK ddPTM_HeLa_SAHA_4h_R1 2 VDDKPSSPGDSSK 13 1 Q9HC52;C9J6K3;C9JM54 Q9HC52 CBX8 Chromobox protein homolog 8 1 0 VDDKPS(0.741)S(0.256)PGDS(0.002)SK;VDDKPS(0.615)S(0.384)PGDSSK ; 183.28 9.66E-06 34721200 5160.8 4934.8 3901.9 6013.8 6498.1 7835.3 7543.1 7840.9 6123 6255.8 TRUE FALSE FALSE 5703.636623 5094.690758 4433.630612 6130.205795 6000.216982 7167.68836 6694.330536 7640.341131 6080.389544 6525.518153 0.874051146 0.78073352 0.679429665 0.939420541 0.919500466 1.098409075 1.025869575 1.17084053 0.931786473 1 12.67187675 -5.287538278 4.615466103 0.904941722 1.092585897 0.525395601 0.094312036 0.164909058 9.055900609 0.015966575 0.03843358 5.16E-06 5.287538278 0.187644174 VDDKPSS(ph)PGDSSK ddPTM_HeLa_SAHA_4h_R1 3 VDDKPSSPGDSSK 13 1 Q9HC52;C9J6K3;C9JM54 Q9HC52 CBX8 Chromobox protein homolog 8 1 0 VDDKPS(0.198)S(0.787)PGDS(0.013)S(0.002)K;VDDKPS(0.008)S(0.991)PGDS(0.001)SK;VDDKPS(0.008)S(0.992)PGDSSK ;; 198.81 4.27E-10 49202600 9669.3 9137.7 7745 11521 11106 13727.3 13671.4 14277.9 10534.3 10738.5 TRUE FALSE FALSE 10686.36134 9433.767475 8800.448266 11744.00561 10255.06068 12557.65681 12133.05809 13912.69199 10460.99095 11201.48929 0.954012548 0.84218868 0.78564984 1.048432518 0.915508681 1.121070287 1.083164727 1.242039486 0.933892867 1 13.45140294 -4.738480931 1.169655917 0.953411381 1.244167548 0.606213275 0.080955301 0.481604686 0.894874012 0.012900325 0.138263793 1.83E-05 4.738480931 0.290756166 VDDLLIIEEK ddPTM_HeLa_SAHA_4h_R1 2 VDDLLIIEEK 10 0 Q14204 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 ; ; 159.4 1.23E-08 1857200 2781.8 2007.89 1665.93 2200.5 1900 3565.8 2881.8 2693.6 3180 2701.1 FALSE FALSE TRUE 3074.402487 2072.946953 1892.954265 2243.093859 1754.42241 3261.973779 2557.53228 2624.701612 3157.870121 2817.55764 1.091158684 0.735724772 0.67184225 0.796112856 0.622674896 1.157730984 0.907712497 0.931552056 1.120782793 1 11.46022941 -7.269538342 24.76514498 1.04304716 0.831774015 0.356443913 0.145594872 486.5859162 1487888.53 0.025400931 0.029316676 5.38E-08 7.269538342 -0.211273144 VDDS(ph)PSTSGGSSDGDQR ddPTM_HeLa_SAHA_4h_R1 1 VDDSPSTSGGSSDGDQR 17 0 C9J180;Q96LR5;F8WF15;F8W8F0 C9J180 UBE2E2 Ubiquitin-conjugating enzyme E2 E2 1 0 VDDS(0.936)PS(0.044)T(0.02)S(0.001)GGSSDGDQR 133.9 0.0001165 2552100 354.47 343.7 192.95 489.84 531.88 742.27 404.36 395.34 744.94 413.56 TRUE FALSE FALSE 391.754781 354.8361055 219.2442212 499.3215615 491.1274693 679.0244201 358.8603486 385.2277752 739.7559019 431.3905955 0.908120819 0.822540197 0.508226706 1.157469743 1.138475142 1.574036215 0.831868734 0.892990666 1.714816942 1 8.752850915 VDDSPSTSGGSS(ph)DGDQR ddPTM_HeLa_SAHA_4h_R1 3 VDDSPSTSGGSSDGDQR 17 0 C9J180;Q96LR5;F8WF15;F8W8F0 C9J180 UBE2E2 Ubiquitin-conjugating enzyme E2 E2 1 0 VDDS(0.037)PS(0.001)T(0.003)S(0.016)GGS(0.067)S(0.875)DGDQR;VDDSPSTSGGS(0.039)S(0.961)DGDQR;VDDSPSTSGGS(0.208)S(0.792)DGDQR ;; 233.48 4.56E-28 15313100 2605.04 3814.71 1867.04 3430.91 3536.33 4378.32 2872.77 2778.47 5605.4 3382.55 TRUE FALSE FALSE 2879.05006 3938.309107 2121.470488 3497.320224 3265.377159 4005.262504 2549.518359 2707.400761 5566.391565 3528.388284 0.815967469 1.116177923 0.601257661 0.99119483 0.925458565 1.135153555 0.722573071 0.767319394 1.577601759 1 11.78479362 -9.570280835 1.313516483 1.000760535 0.880845546 0.129170248 0.243867859 1.025762975 3.139228675 0.110462794 0.025198742 2.69E-10 9.570280835 -0.119914989 VDDSSGS(ph)IGRR ddPTM_HeLa_SAHA_4h_R1 1 VDDSSGSIGRR 11 1 P41250 P41250 GARS Glycine--tRNA ligase 1 0 VDDS(0.149)S(0.022)GS(0.829)IGRR 77.894 0.013556 2072800 538.14 544.97 631.29 724.32 761.26 726.13 756.9 749.43 941.31 647.21 TRUE FALSE FALSE 594.7440343 562.6273856 717.3189136 738.340261 702.9324233 664.2596389 671.7316199 730.2606658 934.7593471 675.1143905 0.88095298 0.833380822 1.062514625 1.093652085 1.041204918 0.983921611 0.994989337 1.081684343 1.384594019 1 9.398988161 -6.728677727 24.9995415 0.933932356 1.040348616 0 0.151875531 151.2638954 115425.0875 0.010307081 0.014575825 1.87E-07 6.728677727 0.10641626 VDDST(ph)GTVISDVEEDAGELSR ddPTM_HeLa_SAHA_4h_R1 1 VDDSTGTVISDVEEDAGELSR 21 0 Q9Y2D8-2;Q9Y2D8-3;Q9Y2D8;S4R403 Q9Y2D8-2 SSX2IP Afadin- and alpha-actinin-binding protein 1 0 VDDS(0.004)T(0.924)GT(0.025)VIS(0.047)DVEEDAGELSR 305.55 3.31E-108 4256100 655.36 816.26 723.49 629.34 711.6 689.9 738.22 711.57 861.04 726.85 TRUE FALSE FALSE 724.2937717 842.7073596 822.0834494 641.5217857 657.0773617 631.1166387 655.1535427 693.3690697 855.0479525 758.1880606 0.95529567 1.111475376 1.0842738 0.846124885 0.866641663 0.832401183 0.864104273 0.91450803 1.127751803 1 9.566411928 -6.241469454 24.9818236 0.997591932 0.863027058 0.632754618 0.065656454 459.9227984 575350.8651 0.008718442 0.014444792 5.73E-07 6.241469454 -0.134564874 VDDSTGTVIS(ph)DVEEDAGELSR ddPTM_HeLa_SAHA_4h_R1 1 VDDSTGTVISDVEEDAGELSR 21 0 Q9Y2D8-2;Q9Y2D8-3;Q9Y2D8;S4R403 Q9Y2D8-2 SSX2IP Afadin- and alpha-actinin-binding protein 1 0 VDDSTGTVIS(1)DVEEDAGELSR 202.97 7.79E-41 0 131.12 205.42 124.59 0 140.45 76.202 230.04 0 66.152 139.08 TRUE FALSE FALSE 144.9118032 212.0757428 141.5684764 0 129.6887513 69.7091609 204.1552938 0 65.69164285 145.0764194 0.998865314 1.461820905 0.975820033 0 0.893934051 0.480499596 1.407225892 0 0.452807169 1 7.180669234 -6.493135602 24.95563745 1.042920981 0.605122883 0.1719147 0.447454363 750.9961666 630115.0138 0.057163261 0.087234111 3.21E-07 6.493135602 -0.437798099 VDEFPLCGHMVSDEYEQLSSEALEAAR ddPTM_HeLa_SAHA_4h_R1 4 VDEFPLCGHMVSDEYEQLSSEALEAAR 27 0 X1WI28;P27635;B8A6G2;A6QRI9 X1WI28 RPL10 60S ribosomal protein L10 0 0 ;;; ;;; 169.88 8.16E-12 24435000 3642.04 4036.48 3610.36 4566.52 4843.2 5214.5 4791.8 4281.04 5147.6 4367.19 FALSE FALSE TRUE 4025.126477 4167.2646 4102.361059 4654.911598 4472.115062 4770.195264 4252.614053 4171.537196 5111.777432 4555.480933 0.883578822 0.914780385 0.900533032 1.021826601 0.981699875 1.047133186 0.933515937 0.915718287 1.122115866 1 12.15338766 -6.264081704 24.99090166 0.937844079 0.981223925 0 0.074329061 405.1375431 3831774.679 0.00891477 0.013994892 5.44E-07 6.264081704 0.043379846 VDENENCSSLGS(ph)PSEPPQTLDLVR ddPTM_HeLa_SAHA_4h_R1 1 VDENENCSSLGSPSEPPQTLDLVR 24 0 A0A0C4DGQ6;Q96P16-3;Q96P16 A0A0C4DGQ6 RPRD1A Regulation of nuclear pre-mRNA domain-containing protein 1A 1 0 VDENENCS(0.001)S(0.006)LGS(0.948)PS(0.044)EPPQTLDLVR 101.3 1.92E-05 0 280.01 306.3 256.71 342.46 459.9 333.24 350.58 389.21 283.27 228.79 TRUE FALSE FALSE 309.4627365 316.224321 291.6931019 349.0888085 424.6625614 304.8460772 311.1318157 379.2545718 281.298701 238.6542566 1.296699003 1.325031137 1.222241355 1.462738664 1.779404933 1.277354453 1.303692715 1.5891381 1.178687131 1 7.898778258 -8.469751491 0.314644621 0.902079879 1.494654521 0.433761722 0.15656807 1.24403273 0.262509972 0.283930041 0.103080685 3.39E-09 8.469751491 0.592574642 VDENMTASTYS(ph)LNKIPER ddPTM_HeLa_SAHA_4h_R1 1 VDENMTASTYSLNKIPER 18 1 Q9HCD6;Q9HCD6-2;Q9HCD6-3;Q9HCD6-4;J3KRP9 Q9HCD6 TANC2 Protein TANC2 1 0 VDENMT(0.008)AS(0.006)T(0.283)YS(0.703)LNKIPER 80.002 0.0037599 0 687.24 415.22 370.95 605.72 500.47 630.53 557.81 789.06 418.85 423.34 TRUE FALSE FALSE 759.5270564 428.6734004 421.5011342 617.4445865 462.1240967 576.8052967 495.0437507 768.8769877 415.9351887 441.5922592 1.719973665 0.970744825 0.954502996 1.398223301 1.046495012 1.306194311 1.121042637 1.741146888 0.941898731 1 8.786571073 -4.249479852 23.13172502 1.267121597 1.741147728 0.235754386 0.256222167 883.7071239 1709144.274 0.042091029 0.85666677 5.63E-05 4.249479852 0.47402613 VDFNVPMK ddPTM_HeLa_SAHA_4h_R1 1 VDFNVPMK 8 0 P00558;P07205 P00558;P07205 PGK1;PGK2 Phosphoglycerate kinase 1;Phosphoglycerate kinase 2 0 0 98.392 0.01847 2861900 3079.8 2844.8 2824.9 3178.7 3694.3 3955.9 3125.3 3233.7 3888 3169.4 FALSE FALSE TRUE 3403.747495 2936.973387 3209.862661 3240.228335 3411.243532 3618.835065 2773.633019 3150.986636 3860.943091 3306.048345 1.02955164 0.888363714 0.970906147 0.980091032 1.031819011 1.09461045 0.838957187 0.953097568 1.167842297 1 11.69089211 -4.750904076 24.99951712 1.005365725 0.896027393 0.284460752 0.075964844 164.1888799 389600.3911 0.007654694 0.028042549 1.77E-05 4.750904076 -0.109338333 VDFNVPMK(ac)NNQITNNQR ddPTM_HeLa_SAHA_4h_R1 1 VDFNVPMKNNQITNNQR 17 1 P00558 P00558 PGK1 Phosphoglycerate kinase 1 0 1 VDFNVPMK(1)NNQITNNQR 222.88 8.55E-45 959050 193.38 183.36 280.35 131.17 291.47 250.65 296.32 58.93 0 216.54 FALSE TRUE FALSE 213.7205957 189.3009843 318.554638 133.708985 269.1376316 229.2932099 262.9772937 57.42265593 0 225.8760991 0.946185083 0.838074436 1.410306975 0.591957208 1.191527712 1.015128253 1.164254628 0.254221921 0 1 7.819387811 -4.253250916 24.63424925 0.995201229 0.254221469 0.180036907 0.376826051 443.3817202 1333836.235 0.024782215 0.368584994 5.58E-05 4.253250916 -0.740979761 VDFPQDQLTALTGR ddPTM_HeLa_SAHA_4h_R1 1 VDFPQDQLTALTGR 14 0 P40926;P40926-2;G3XAL0 P40926 MDH2 "Malate dehydrogenase, mitochondrial;Malate dehydrogenase" 0 0 117.27 0.0062903 19830000 755.91 720.2 587.15 647.61 702.99 722.97 852.46 861.57 669.76 662.04 FALSE FALSE TRUE 835.420082 743.5349525 667.1637443 660.145428 649.1270581 661.3688887 756.5389572 839.5322869 665.0990856 690.5837843 1.209730233 1.076675951 0.966086606 0.955923731 0.939968578 0.957695364 1.095506403 1.215684912 0.963096876 1 9.431672648 -6.961131569 10.29359265 1.101353957 1.015947555 0 0.101298176 0.786408615 202.7795696 0.018179425 0.023882938 1.09E-07 6.961131569 -0.085406402 VDHGAEIITQS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 5 VDHGAEIITQSPGR 14 0 A0A669KB77;P11137-3;P11137;P11137-2;P11137-4 A0A669KB77 MAP2 Microtubule-associated protein 2 1 0 VDHGAEIITQS(1)PGR;VDHGAEIIT(0.051)QS(0.949)PGR;VDHGAEIITQS(1)PGR;VDHGAEIIT(0.094)QS(0.906)PGR;VDHGAEIIT(0.058)QS(0.942)PGR ;;;; 252.25 2.27E-43 260273800 8072.16 9207.4 8124.54 9347.38 10531.26 2062.89 10186.82 9769.44 11586.91 9103.27 TRUE FALSE FALSE 8921.226825 9505.725801 9231.71 9528.312056 9724.357134 1887.120166 9040.572203 9519.551871 11506.27575 9495.75652 0.939496164 1.001049867 0.972193209 1.00342843 1.024073976 0.198732999 0.952064449 1.002505893 1.211728178 1 13.21306723 VDIDAPDVDVHGPDWHLK ddPTM_HeLa_SAHA_4h_R1 3 VDIDAPDVDVHGPDWHLK 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ;; ;; 171.15 3.53E-09 65386000 13264.3 14638.3 13463.5 14667.8 14716.2 7606.34 15397.5 12527.2 15470.3 13341.4 FALSE FALSE TRUE 14659.49993 15112.59052 15298.23567 14951.71648 13588.64794 6958.23704 13664.93278 12206.77236 15362.64092 13916.61305 1.053381299 1.085938833 1.099278655 1.074378976 0.976433554 0.499995007 0.981915121 0.877136723 1.103906595 1 13.76452052 -5.504451186 24.94752684 1.039513667 0.794623671 0.522276705 0.118968639 458.3144074 620472.8979 0.015862402 0.034874884 3.13E-06 5.504451186 -0.244889996 VDIDAPDVEVHDPDWHLK ddPTM_HeLa_SAHA_4h_R1 3 VDIDAPDVEVHDPDWHLK 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ;; ;; 184.48 5.24E-13 60673700 14353.5 15166.6 14819.8 15557.6 16410.8 13875.6 16474.6 13406.5 17521.6 15682.7 FALSE FALSE TRUE 15863.26699 15658.00779 16839.36517 15858.73984 15153.40805 12693.32082 14620.83465 13063.58114 17399.66576 16358.85795 0.969705039 0.957157758 1.029372907 0.9694283 0.926312099 0.775929521 0.893756441 0.798563151 1.063623501 1 13.99778441 -5.504557228 3.327270797 0.98535297 0.830074272 0.76991186 0.042400759 0.070895543 1.619883251 0.0046794 0.010653307 3.13E-06 5.504557228 -0.155278697 VDIDAPDVS(ph)IEGPDAK ddPTM_HeLa_SAHA_4h_R1 1 VDIDAPDVSIEGPDAK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VDIDAPDVS(1)IEGPDAK 127.83 1.50E-05 0 597.16 729.47 484.63 667.99 655 865.7 661.02 733.76 1068.8 791.36 TRUE FALSE FALSE 659.9720287 753.1053066 550.6728526 680.9199124 604.8140415 791.9374897 586.6402899 714.9914817 1061.362134 825.4794024 0.79950151 0.912324771 0.667094601 0.824878138 0.732682172 0.959366748 0.710666176 0.866153025 1.285752413 1 9.689088407 -9.233598227 0.633738522 1.024244064 0.803216945 0.461164507 0.125353896 0.740163361 0.446570255 0.092735328 0.01732817 5.84E-10 9.233598227 -0.221027119 VDIDAPDVSIEGPDAK ddPTM_HeLa_SAHA_4h_R1 2 VDIDAPDVSIEGPDAK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ; ; 202.61 1.96E-14 8030400 2489.26 1998.46 2108.91 2098.79 1918.21 2882.41 2240.74 2488.6 3006.67 2264.07 FALSE FALSE TRUE 2751.091788 2063.211415 2396.301272 2139.415115 1771.237164 2636.812452 1988.606038 2424.945215 2985.746339 2361.685138 1.164885083 0.873618325 1.014657388 0.905884989 0.749988699 1.116496187 0.842028434 1.026785991 1.264244031 1 11.20560092 -7.254396402 24.92797621 1.077862401 0.931439836 0.358101691 0.119812696 504.5422348 1785781.359 0.017847806 0.021603634 5.57E-08 7.254396402 -0.146422565 VDIDT(ph)PDIDIHGPEGK ddPTM_HeLa_SAHA_4h_R1 4 VDIDTPDIDIHGPEGK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VDIDT(1)PDIDIHGPEGK;VDIDT(1)PDIDIHGPEGK;VDIDT(1)PDIDIHGPEGK;VDIDT(1)PDIDIHGPEGK ;;; 178.14 5.96E-09 155050100 9749.2 21336.5 14448.3 6781.6 13933.5 18742.4 15350.8 6548.9 12135.8 16360.3 TRUE FALSE FALSE 10774.66559 22027.8166 16417.23908 6912.867674 12865.91824 17145.44208 13623.48758 6381.388621 12051.34598 17065.6726 0.631364836 1.290767561 0.962003635 0.405074434 0.753906309 1.004674265 0.798297723 0.37393127 0.706174685 1 14.05880966 VDIDT(ph)PDINIEGSEGK ddPTM_HeLa_SAHA_4h_R1 4 VDIDTPDINIEGSEGK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VDIDT(1)PDINIEGSEGK;VDIDT(1)PDINIEGSEGK;VDIDT(0.999)PDINIEGS(0.001)EGK;VDIDT(1)PDINIEGSEGK ;;; 238.45 7.34E-36 87916000 9619 19443.2 13487 6689.25 13509.2 17937.4 15043.1 6216.27 10559.4 14617.3 TRUE FALSE FALSE 10630.77055 20073.17244 15324.93812 6818.730107 12474.12801 16409.03261 13350.4108 6057.266814 10485.91628 15247.52334 0.697212939 1.316487405 1.005077204 0.447202471 0.818108472 1.076176914 0.875578971 0.397262341 0.687712755 1 13.8962873 VDIDT(ph)PDINIEGSEGKFK ddPTM_HeLa_SAHA_4h_R1 2 VDIDTPDINIEGSEGKFK 18 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VDIDT(1)PDINIEGSEGKFK;VDIDT(1)PDINIEGSEGKFK ; 120.77 0.00054667 8831800 2448.02 2398.32 3436.9 1639.31 2844.2 2673.98 3302 1757.91 1272.84 3208.6 TRUE FALSE FALSE 2705.513976 2476.027142 3905.262833 1671.041216 2626.27801 2446.141861 2930.45027 1712.945208 1263.982203 3346.938449 0.808354864 0.739788669 1.166816448 0.499274558 0.784680702 0.73085953 0.875561447 0.511794655 0.377653256 1 11.7086263 -13.52287875 0.037796103 2.264112197 3.63E-11 0 0.254582651 710.7580037 2.147516205 108.6164744 37.51410825 3.00E-14 13.52287875 -2.264112197 VDIDVPDVNIEGPDAK ddPTM_HeLa_SAHA_4h_R1 2 VDIDVPDVNIEGPDAK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ; ; 229.97 9.24E-27 15069500 7416.9 4854.3 4938.2 6082.3 4992.5 7571.6 6114.9 6105.1 8018.5 5959 FALSE FALSE TRUE 8197.043572 5011.582505 5611.152179 6200.031712 4609.975729 6926.457083 5426.835358 5948.940382 7962.698606 6215.921653 1.318717325 0.806249304 0.902706387 0.997443671 0.741639935 1.114308942 0.873054015 0.957048804 1.281016565 1 12.6017526 -7.252541802 24.98136614 1.150505404 0.915634852 0.507953299 0.126522419 511.9235099 1437307.015 0.024121421 0.029311935 5.59E-08 7.252541802 -0.234870552 VDIDVPDVNLEAPEGK ddPTM_HeLa_SAHA_4h_R1 2 VDIDVPDVNLEAPEGK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ; ; 124.07 0.0029536 6908400 1343.14 1478.48 1206.24 1358.3 1466.35 1827.08 1649.68 1218.19 1900.58 1447.15 FALSE FALSE TRUE 1484.417628 1526.383722 1370.620105 1384.591861 1353.99858 1671.402505 1464.053665 1187.030464 1887.353709 1509.543719 0.983355175 1.011155691 0.907969798 0.917225413 0.896958838 1.107223649 0.96986503 0.786350504 1.25028092 1 10.55989682 -6.769686985 24.99865355 0.993346507 0.938547846 0.152355028 0.110540578 314.3925633 952929.3268 0.011910105 0.015798404 1.70E-07 6.769686985 -0.054798661 VDIEAPDVS(ph)LEGPEGK ddPTM_HeLa_SAHA_4h_R1 2 VDIEAPDVSLEGPEGK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VDIEAPDVS(1)LEGPEGK;VDIEAPDVS(1)LEGPEGK ; 133.71 6.76E-06 2121000 1442.15 1897.11 1458.32 1146.62 1559.05 1890.88 1767.49 1326.37 1585.4 1397.55 TRUE FALSE FALSE 1593.841954 1958.577609 1657.052255 1168.814488 1439.595926 1729.766386 1568.607373 1292.443376 1574.367072 1457.80522 1.093316125 1.343511178 1.136676033 0.801763138 0.987509103 1.186555215 1.076006144 0.886567944 1.079957083 1 10.50958226 VDIEAPDVSLEGPEGK ddPTM_HeLa_SAHA_4h_R1 1 VDIEAPDVSLEGPEGK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 139.78 9.81E-08 0 870.58 893.47 674.88 999.63 878.79 1111.6 760.92 1143.6 791.67 970.44 FALSE FALSE TRUE 962.1515988 922.4190142 766.8491318 1018.979284 811.4573001 1016.885426 675.299279 1114.348368 786.160704 1012.280418 0.950479316 0.911228745 0.757546149 1.0066176 0.801613156 1.004549143 0.667106927 1.100829719 0.776623444 1 9.983393279 -7.458607913 1.88383902 0.981774309 0.883822331 0 0.137688111 0.479314496 3.321415242 0.020512325 0.022592005 3.48E-08 7.458607913 -0.097951978 VDIEGPDVNIEGPEGK ddPTM_HeLa_SAHA_4h_R1 2 VDIEGPDVNIEGPEGK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ; ; 220.21 5.43E-20 11637800 3731 2704.95 2636.4 3762.6 2624.1 3753 3539.8 3154.8 4143.3 3099.3 FALSE FALSE TRUE 4123.443698 2792.592155 2995.674862 3835.430564 2423.042025 3433.223286 3141.492388 3074.104784 4114.466438 3232.925991 1.27545255 0.863797118 0.926614117 1.186365099 0.749488863 1.061955422 0.971718003 0.95087385 1.272675728 1 11.65862477 -7.251490262 24.91923965 1.130074817 0.962637655 0.35651 0.132297986 718.4795938 1799553.686 0.023428762 0.028500971 5.60E-08 7.251490262 -0.167437162 VDIET(ph)PNLEGTLTGPR ddPTM_HeLa_SAHA_4h_R1 1 VDIETPNLEGTLTGPR 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VDIET(0.892)PNLEGT(0.095)LT(0.013)GPR 86.777 0.015227 2044400 784.86 957.16 772.92 780.38 1106.8 1263.2 1180.7 1223.6 846.22 1063.7 TRUE FALSE FALSE 867.4151759 988.172612 878.2495124 795.4853833 1021.997223 1155.568253 1047.844529 1192.302084 840.3310861 1109.561313 0.781764077 0.890597573 0.7915286 0.716936842 0.921082243 1.041464082 0.944377311 1.074570707 0.757354349 1 10.11577368 -5.444686921 5.517960429 0.872013513 1.010045769 0.449008827 0.088438136 0.238096223 12.53223273 0.015147968 0.034148598 3.59E-06 5.444686921 0.138032256 VDINAPDVDVR ddPTM_HeLa_SAHA_4h_R1 2 VDINAPDVDVR 11 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ; ; 136.49 4.29E-05 5677000 2860.8 3122.3 2445.4 2785.6 3010.5 3273.1 3169 3112.9 2999.6 3083.6 FALSE FALSE TRUE 3161.71207 3223.464569 2778.646377 2839.519316 2779.83614 2994.213466 2812.41578 3033.276525 2978.725539 3216.549087 0.9829516 1.002149969 0.863859466 0.882784388 0.864229354 0.930877591 0.87435811 0.943021991 0.926062516 1 11.65129799 -6.768011258 24.99999066 0.992489474 0.892256459 0.603297826 0.032747461 46.84853211 178215.8357 0.003816294 0.005081753 1.71E-07 6.768011258 -0.100233015 VDINT(ph)PDVDVHGPDWHLK ddPTM_HeLa_SAHA_4h_R1 2 VDINTPDVDVHGPDWHLK 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VDINT(1)PDVDVHGPDWHLK;VDINT(1)PDVDVHGPDWHLK ; 159.53 7.88E-06 935200000 7769.7 14186.3 11854.8 4620.2 10667.6 6930.6 11537.8 4714.6 7162.6 11859 TRUE FALSE FALSE 8586.952695 14645.94543 13470.31041 4709.630652 9850.250793 6340.07389 10239.53638 4594.007359 7112.754883 12370.29953 0.694158834 1.183960453 1.088923544 0.380720826 0.796282319 0.512523878 0.827751693 0.371373979 0.574986472 1 13.59459281 -6.264739383 24.99053439 0.897669803 0.600139779 0.363636156 0.217482692 257.6846749 1951415.622 0.031370865 0.049156728 5.44E-07 6.264739383 -0.297530025 VDKGVVPLAGTNGETTTQGLDGLSER ddPTM_HeLa_SAHA_4h_R1 1 VDKGVVPLAGTNGETTTQGLDGLSER 26 1 P04075;H3BQN4;J3KPS3;P04075-2;H3BPS8;H3BUH7;H3BR04;H3BMQ8;H3BU78 P04075 ALDOA Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase 0 0 220.55 1.74E-49 2477000 483.58 305.93 255.13 356.77 361.73 429.95 630.01 381.81 339.94 379.15 FALSE FALSE TRUE 534.4451631 315.8423327 289.8977877 363.6757992 334.0143255 393.3158412 559.1196167 372.0438531 337.5743299 395.497012 1.351325413 0.798596002 0.732996152 0.919541206 0.844543234 0.994484988 1.413713883 0.940699529 0.853544577 1 8.627522985 -7.256673571 24.97127387 1.165903666 0.95534633 0.002007274 0.214217243 547.6982579 2869761.024 0.037432226 0.04504646 5.54E-08 7.256673571 -0.210557336 VDLEPVS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 VDLEPVSPR 9 0 Q9HCH0;H7C1V4;Q9HCH0-2 Q9HCH0 NCKAP5L Nck-associated protein 5-like 1 0 VDLEPVS(1)PR 96.113 0.013398 2354100 664.12 885.25 783.15 909 1056.3 1072.2 1072.7 1002.9 950.51 951.12 TRUE FALSE FALSE 733.9751887 913.9326808 889.8736035 926.5950094 975.3665222 980.842528 951.9969728 977.2472702 943.8953235 992.1274379 0.739799305 0.921184765 0.896934778 0.93394757 0.983106086 0.988625544 0.959551098 0.985001758 0.951385162 1 9.954381635 -6.145866168 1.7823057 0.877770752 0.978834733 0.202854343 0.064704902 0.471654962 2.934909927 0.015496271 0.029130066 7.15E-07 6.145866168 0.101063982 VDLPDK(ac)YPFK ddPTM_HeLa_SAHA_4h_R1 1 VDLPDKYPFK 10 1 H7C4M9;C9JZG9;C9JZY6;C9J8Q9;P62256-2;P62256 H7C4M9 UBE2H Ubiquitin-conjugating enzyme E2 H 0 1 VDLPDK(1)YPFK 83 0.016571 0 0 0 0 0 0 0 88.439 0 0 75.101 FALSE TRUE FALSE 0 0 0 0 0 0 78.48761096 0 0 78.33897165 0 0 0 0 0 0 1.001897387 0 0 1 6.291658285 -9.24941968 0.926273573 1.012685003 0.129080156 0 0.42505053 0.366049202 0.551365576 0.220305045 0.057201031 5.63E-10 9.24941968 -0.883604847 VDLTLDPDTAHPALMLS(ph)PDRR ddPTM_HeLa_SAHA_4h_R1 2 VDLTLDPDTAHPALMLSPDRR 21 1 H0YAD6;D6REK2;Q8WV44-3;Q8WV44-2;Q8WV44 H0YAD6 TRIM41 E3 ubiquitin-protein ligase TRIM41 1 0 VDLTLDPDTAHPALMLS(1)PDRR;VDLTLDPDTAHPALMLS(1)PDRR ; 87.468 0.00038269 10324800 1874.11 1792 1476 1753.76 2060.8 2144.52 1839.5 1635.3 2016.09 1893.12 TRUE FALSE FALSE 2071.237489 1850.061976 1677.141593 1787.706561 1902.901949 1961.794831 1632.514619 1593.471394 2002.059866 1974.741668 1.048865035 0.936862784 0.849296706 0.905286291 0.9636207 0.993443782 0.826697813 0.806926506 1.013833808 1 10.94744822 -7.097544382 4.42228587 1.022775226 0.896251781 0.522957513 0.055254946 0.142164163 4.757603459 0.009953488 0.012342957 7.99E-08 7.097544382 -0.126523445 VDLTLLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 VDLTLLSPK 9 0 E7EVA0;P27816-4;B5MEG9 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 VDLT(0.002)LLS(0.998)PK 107.34 0.0070931 8293000 2483.6 2373.8 2216.5 2413.9 2607.3 2470.1 2797.9 2380.1 2688.4 2394 TRUE FALSE FALSE 2744.836443 2450.712678 2518.553077 2460.624525 2407.529237 2259.633584 2483.072928 2319.220488 2669.691206 2497.217056 1.099158136 0.981377518 1.008543919 0.985346676 0.964084893 0.904860704 0.994336044 0.928722028 1.069066543 1 11.28610551 -6.390408876 1.207006146 1.044556145 0.948571341 0.567195749 0.036198258 0.297673458 0.859614198 0.007808609 0.014368905 4.07E-07 6.390408876 -0.095984804 VDLVDENFTELR ddPTM_HeLa_SAHA_4h_R1 2 VDLVDENFTELR 12 0 P61086;D6RDM7;P61086-3 P61086 UBE2K Ubiquitin-conjugating enzyme E2 K 0 0 ; ; 175.74 0.00026822 6712200 2486.2 1427.69 1343.18 1764.44 1427.97 2613.1 2408.82 2085.1 3066.1 2241.99 FALSE FALSE TRUE 2747.709923 1473.948093 1526.221575 1798.593288 1318.559247 2390.449179 2137.773234 2031.766161 3044.76276 2338.653161 1.174911256 0.630255105 0.652607065 0.769072267 0.563811372 1.022147798 0.914104438 0.868776181 1.301930022 1 11.1914622 -7.267599736 24.99771199 1.082596984 0.776310215 0.556779003 0.152730888 312.2750908 1267158.673 0.025411332 0.029446895 5.40E-08 7.267599736 -0.30628677 VDLYQQAS(ph)PPDALR ddPTM_HeLa_SAHA_4h_R1 3 VDLYQQASPPDALR 14 0 P48634;P48634-2;P48634-3;P48634-4 P48634 PRRC2A Protein PRRC2A 1 0 VDLYQQAS(1)PPDALR;VDLYQQAS(1)PPDALR;VDLYQQAS(1)PPDALR ;; 151.38 6.62E-05 19544700 2921.46 2949.48 2924.67 3311.72 2976.26 3105.21 3590.12 3308.56 3461.95 3385.04 TRUE FALSE FALSE 3228.752567 3045.045087 3323.228797 3375.823129 2748.219602 2840.628639 3186.150249 3223.931826 3437.858008 3530.98564 0.914405465 0.862378213 0.941161799 0.956056884 0.778315145 0.804486035 0.902340189 0.913040197 0.973625599 1 11.78585524 -8.537465027 0.33372183 1.026857333 0.860184167 0.399441743 0.052432069 1.4760784 0.332694141 0.096475477 0.032385756 2.90E-09 8.537465027 -0.166673165 VDNDENEHQLSLR ddPTM_HeLa_SAHA_4h_R1 7 VDNDENEHQLSLR 13 0 P06748;P06748-3;P06748-2;E5RGW4 P06748 NPM1 Nucleophosmin 0 0 ;;;;;; ;;;;;; 264.28 4.18E-43 208626700 14879.85 17078.3 13547.95 17931.9 19220.8 20545 19122.3 16661.5 23820.6 18493.4 FALSE FALSE TRUE 16444.98089 17631.64813 15394.19407 18278.99785 17748.10646 18794.45042 16970.60848 16235.32296 23654.83051 19290.74098 0.85248052 0.91399538 0.798009475 0.947552915 0.920032386 0.974273121 0.879728181 0.8416122 1.226227159 1 14.23562094 -9.426687781 1.129348433 1.000621525 0.890234203 0.394584358 0.088289129 0.406568678 0.919109053 0.03549138 0.008719368 3.74E-10 9.426687781 -0.110387322 VDNLTYRT(ph)SPDTLR ddPTM_HeLa_SAHA_4h_R1 1 VDNLTYRTSPDTLR 14 1 Q01130-2;Q01130;J3QL05;J3KP15 Q01130-2 SRSF2 Serine/arginine-rich splicing factor 2 1 0 VDNLT(0.004)YRT(0.884)S(0.11)PDT(0.002)LR 158.65 0.00073626 275470000 2105.6 1697.6 1798.8 1956.9 1986.8 1963.2 2055.1 1816.9 1512.4 1661.4 TRUE FALSE FALSE 2327.076669 1752.603354 2043.931096 1994.778629 1834.571813 1795.924315 1823.854739 1770.426329 1501.875085 1733.031085 1.342778378 1.011293663 1.179396673 1.151034535 1.058591406 1.036290884 1.052407401 1.021577942 0.866617511 1 10.75908182 -5.718464889 4.012794278 1.154154505 1.039758282 0 0.127907544 0.341380048 11.56589151 0.019340454 0.039056624 1.91E-06 5.718464889 -0.114396223 VDNLTYRTS(ph)PDTLR ddPTM_HeLa_SAHA_4h_R1 2 VDNLTYRTSPDTLR 14 1 Q01130-2;Q01130;J3QL05;J3KP15 Q01130-2 SRSF2 Serine/arginine-rich splicing factor 2 1 0 VDNLT(0.001)YRT(0.112)S(0.807)PDT(0.081)LR;VDNLTYRT(0.093)S(0.906)PDT(0.001)LR ; 186.08 1.02E-07 154913000 4034.7 4243.5 3954.6 4265.3 4364.5 4732.3 4711.1 4564.1 3727.3 3913.7 TRUE FALSE FALSE 4459.088258 4380.992184 4493.512293 4347.861049 4030.092953 4329.081417 4180.994629 4447.356931 3701.361416 4082.43876 1.092260906 1.073131146 1.100693129 1.06501562 0.98717781 1.060415519 1.02414142 1.089387298 0.906654486 1 11.99521553 -4.236566857 22.88490808 1.047980893 1.089387439 0.031705547 0.05688347 5483.336272 5044906.295 0.005984483 0.487399374 5.80E-05 4.236566857 0.041406546 VDS(ph)EGDFS(ph)ENDDAAGDFR ddPTM_HeLa_SAHA_4h_R1 2 VDSEGDFSENDDAAGDFR 18 0 M0QYL4;O43823 M0QYL4 AKAP8 A-kinase anchor protein 8 2 0 VDS(1)EGDFS(1)ENDDAAGDFR;VDS(1)EGDFS(1)ENDDAAGDFR ; 136.33 0.0013184 35870000 2161.47 2441.8 2444.11 2281.88 2423.5 2699.32 2189.33 2617.41 3385.8 2364.64 TRUE FALSE FALSE 2388.823332 2520.915922 2777.180582 2326.049087 2237.811954 2469.32275 1942.980826 2550.460442 3362.237942 2466.591203 0.96847152 1.022024209 1.125918466 0.943021723 0.907248818 1.001107418 0.787719029 1.034002083 1.363111138 1 11.26830292 -6.021911003 24.69220654 0.99928869 0.926833042 0.089387039 0.136604216 812.8851527 916066.1714 0.010462032 0.017454639 9.51E-07 6.021911003 -0.072455648 VDS(ph)PGRTEPCTAALDLGVQLTPETLVEAK ddPTM_HeLa_SAHA_4h_R1 1 VDSPGRTEPCTAALDLGVQLTPETLVEAK 29 1 H9KVB4;O15417-2;O15417;O15417-3 H9KVB4 TNRC18 Trinucleotide repeat-containing gene 18 protein 1 0 VDS(0.374)PGRT(0.313)EPCT(0.313)AALDLGVQLTPETLVEAK 121.62 1.73E-11 5539500 847.06 627.2 626.74 738.86 609.17 799.49 773.98 736.25 928.44 606.65 TRUE FALSE FALSE 936.1576573 647.5216915 712.1488633 753.1617037 562.4955262 731.3689542 686.8897334 717.4177911 921.9789104 632.8056504 1.479376261 1.02325523 1.125383224 1.19019434 0.888891441 1.155756043 1.08546713 1.133709521 1.456970098 1 9.305618672 VDS(ph)PSHGLVTSSLCIPS(ph)PAR ddPTM_HeLa_SAHA_4h_R1 1 VDSPSHGLVTSSLCIPSPAR 20 0 Q9UER7-3;Q9UER7 Q9UER7-3 DAXX Death domain-associated protein 6 2 0 VDS(0.91)PS(0.09)HGLVTSS(0.003)LCIPS(0.997)PAR 106.36 0.0011933 4061100 562.02 780.67 486.34 667.92 704.19 399.05 841.77 763.9 1236.5 658.61 TRUE FALSE FALSE 621.1358422 805.9642202 552.6158825 680.8485574 650.2351143 365.048695 747.0518242 744.3605441 1227.895096 687.0059003 0.904120099 1.173154728 0.804383022 0.991037424 0.946476754 0.531361805 1.087402341 1.083484936 1.787313756 1 9.424178679 VDS(ph)PSHGLVTSSLCIPSPAR ddPTM_HeLa_SAHA_4h_R1 3 VDSPSHGLVTSSLCIPSPAR 20 0 Q9UER7-3;Q9UER7 Q9UER7-3 DAXX Death domain-associated protein 6 1 0 VDS(0.863)PS(0.135)HGLVT(0.001)SSLCIPSPAR;VDS(0.5)PS(0.5)HGLVTSSLCIPSPAR;VDS(0.939)PS(0.061)HGLVTSSLCIPSPAR ;; 90.442 0.00096527 13642100 1720.68 2240.618 1394.25 1839.76 2454.07 1008.633 2193.14 1850.83 3293.2 2623.56 TRUE FALSE FALSE 1901.669017 2313.215493 1584.251129 1875.371215 2266.039687 922.691794 1946.362115 1803.488449 3270.282353 2736.674511 0.694883155 0.845265114 0.578896439 0.685273754 0.828026745 0.337158033 0.711214325 0.659007288 1.194984036 1 11.41820814 -12.13062925 0.182702132 1.850475779 0.5728803 0.594846465 0.141226438 19.00059466 0.347108481 6.099720585 0.178581953 7.40E-13 12.13062925 -1.277595479 VDS(ph)PTVTTTLK ddPTM_HeLa_SAHA_4h_R1 3 VDSPTVTTTLK 11 0 Q07866-6;Q07866-4;G3V5R9;Q07866-7;H0YG16;Q07866-9;G3V3H3;H0YJT3;F8W6L3;E7EVH7;G5E9S8;H0YJU9;H0YJL0;G3V2E7;Q07866-8;Q07866-2;Q07866-3;Q07866-5;Q07866-10;Q07866 Q07866-6 KLC1 Kinesin light chain 1 1 0 VDS(0.832)PT(0.168)VTTTLK;VDS(0.974)PT(0.024)VT(0.001)T(0.001)TLK;VDS(0.953)PT(0.047)VTTTLK ;; 152.4 0.0004337 63316000 5970.3 7341.5 5594 6815.6 7834.4 8901.4 7501.6 6138.3 9320.5 6462.7 TRUE FALSE FALSE 6598.283547 7579.369417 6356.321188 6947.525794 7234.129965 8142.950642 6657.500225 5981.291174 9255.637882 6741.338625 0.978779426 1.124312223 0.942887094 1.030585494 1.073099924 1.207913012 0.987563538 0.887255708 1.372967358 1 12.71881938 VDS(ph)TTCLFPVEEK ddPTM_HeLa_SAHA_4h_R1 2 VDSTTCLFPVEEK 13 0 A0A6I8PRN4;A0A6I8PTT9;Q06210-2;Q06210 A0A6I8PRN4 GFPT1 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] 1 1 0 VDS(0.984)T(0.016)T(0.001)CLFPVEEK;VDS(0.504)T(0.131)T(0.364)CLFPVEEK ; 195.94 5.00E-08 284459000 10381.8 8150.1 8699.1 10428.6 9772 11121.4 9839.1 11136.7 8970 8584.4 TRUE FALSE FALSE 11473.80536 8414.168587 9884.568045 10630.46063 9023.271471 10173.79415 8731.978573 10851.83934 8907.57704 8954.515495 1.281342956 0.939656489 1.103864084 1.187162012 1.007678358 1.136163554 0.975148078 1.21188459 0.994758125 1 13.12839966 -7.256361986 24.96363171 1.132856394 1.080564917 0 0.112823945 1289.639394 6340676.552 0.021141737 0.025480353 5.54E-08 7.256361986 -0.052291477 VDSEGDFS(ph)ENDDAAGDFR ddPTM_HeLa_SAHA_4h_R1 3 VDSEGDFSENDDAAGDFR 18 0 M0QYL4;O43823 M0QYL4 AKAP8 A-kinase anchor protein 8 1 0 VDSEGDFS(1)ENDDAAGDFR;VDSEGDFS(1)ENDDAAGDFR;VDSEGDFS(1)ENDDAAGDFR ;; 244.18 1.41E-37 24949200 2101.28 1989.03 1909.31 2305.16 2440.63 2353.61 1963.74 2211.49 2516.6 1908.66 TRUE FALSE FALSE 2322.302271 2053.475877 2169.500824 2349.779705 2253.629457 2153.069187 1742.774807 2154.923288 2499.086776 1990.951673 1.166428248 1.031404179 1.089680303 1.180229403 1.131935791 1.081427147 0.875347619 1.08235841 1.255222218 1 10.95924249 -4.951016774 23.02044711 1.08907657 0.978735449 0.241680583 0.087419263 54.72620206 25717.99101 0.011232152 0.03369645 1.12E-05 4.951016774 -0.110341121 VDSETNIEASKLPT(ph)SEPEADAEIEPK ddPTM_HeLa_SAHA_4h_R1 1 VDSETNIEASKLPTSEPEADAEIEPK 26 1 Q9BYW2;H7C3H4;A0A1W2PPX9 Q9BYW2 SETD2 Histone-lysine N-methyltransferase SETD2 1 0 VDSETNIEASKLPT(0.5)S(0.5)EPEADAEIEPK 63.701 0.001737 11753000 2858.1 2441.5 2536.1 2780.3 3559 3641.6 3354.1 3008.2 2786.8 2826.6 TRUE FALSE FALSE 3158.728071 2520.606202 2881.706501 2834.116727 3286.310189 3331.315193 2976.68784 2931.2546 2767.406432 2948.468559 1.071311431 0.85488658 0.977357039 0.961216533 1.11458207 1.129845927 1.009570827 0.994161729 0.938591128 1 11.52575009 -5.762970234 24.99980988 1.010338124 1.063135595 0.168640232 0.071667089 77.61936903 1267611.262 0.011165071 0.021040772 1.73E-06 5.762970234 0.052797471 VDSETNIEASKLPTS(ph)EPEADAEIEPK ddPTM_HeLa_SAHA_4h_R1 2 VDSETNIEASKLPTSEPEADAEIEPK 26 1 Q9BYW2;H7C3H4;A0A1W2PPX9 Q9BYW2 SETD2 Histone-lysine N-methyltransferase SETD2 1 0 VDSETNIEASKLPT(0.049)S(0.951)EPEADAEIEPK;VDSETNIEASKLPT(0.182)S(0.818)EPEADAEIEPK ; 106.11 9.66E-07 21230600 2761.9 2582.3 2526.8 3184 3268.7 3698.3 3273 3056.9 3020.5 3017.1 TRUE FALSE FALSE 3052.409314 2665.968214 2871.139145 3245.630924 3018.252912 3383.184034 2904.713426 2978.708924 2999.480095 3147.181946 0.96988651 0.847096946 0.912288897 1.031281629 0.959033498 1.074988384 0.922956942 0.946468611 0.953068537 1 11.61984487 -8.349183341 1.52841856 0.993576684 0.959210594 0 0.060561507 0.841437195 3.947532427 0.015677431 0.011571445 4.48E-09 8.349183341 -0.03436609 VDSLLENLEK ddPTM_HeLa_SAHA_4h_R1 1 VDSLLENLEK 10 0 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V2D6;G3V5V7;G3V576;A0A0G2JPF8;B7ZW38;P0DMR1;B4DY08;A0A0G2JNQ3;B2RXH8;O60812 P07910;B4DY08;A0A0G2JNQ3 HNRNPC;HNRNPCL3;HNRNPCL4;HNRNPCL2;HNRNPCL1 Heterogeneous nuclear ribonucleoproteins C1/C2;Heterogeneous nuclear ribonucleoprotein C-like 3;Heterogeneous nuclear ribonucleoprotein C-like 4;Heterogeneous nuclear ribonucleoprotein C-like 2;Heterogeneous nuclear ribonucleoprotein C-like 1 0 0 127.42 0.0019758 870760 343.3 542.31 483.6 589.56 533.59 475.78 691.83 673.24 646.6 656.39 FALSE FALSE TRUE 379.4098691 559.8811998 549.5024895 600.9717863 492.7064495 435.2408673 613.9834676 656.0194956 642.100258 684.6901852 0.554133647 0.817714657 0.802556399 0.877728058 0.719604954 0.635675634 0.896731808 0.95812604 0.93779679 1 9.419307522 -9.681751734 1.562352505 0.999454541 0.747324035 0.235256395 0.120421728 0.381047631 1.681281033 0.097710951 0.021960018 2.08E-10 9.681751734 -0.252130506 VDSLVS(ph)LSEEDLESDQR ddPTM_HeLa_SAHA_4h_R1 3 VDSLVSLSEEDLESDQR 17 0 Q12802-2;Q12802;Q12802-4;A8MYJ1;A0A087WTD7;A0A087WY36;H0YMW2;H0YLH1 Q12802-2 AKAP13 A-kinase anchor protein 13 1 0 VDS(0.001)LVS(0.994)LS(0.005)EEDLESDQR;VDSLVS(0.785)LS(0.215)EEDLESDQR;VDS(0.209)LVS(0.694)LS(0.097)EEDLESDQR ;; 168.55 1.21E-06 5543400 1022.773 1482.631 945.78 1098.688 1656.79 1721.76 1784.05 1305.02 1878.7 1579.17 TRUE FALSE FALSE 1130.352957 1530.669217 1074.665973 1119.954695 1529.847108 1575.056362 1583.303999 1271.639478 1865.625974 1647.255747 0.686203681 0.929223783 0.652397768 0.679891205 0.928724705 0.956169899 0.961176795 0.771974528 1.132566074 1 10.68584884 -3.972257199 16.6647321 0.847644896 0.552572895 0.003410768 0.153171271 15069247.44 239577377.3 0.020641619 123509249.5 0.000106596 3.972257199 -0.295072001 VDST(ph)TCLFPVEEK ddPTM_HeLa_SAHA_4h_R1 2 VDSTTCLFPVEEK 13 0 A0A6I8PRN4;A0A6I8PTT9;Q06210-2;Q06210 A0A6I8PRN4 GFPT1 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] 1 1 0 VDS(0.324)T(0.338)T(0.338)CLFPVEEK;VDS(0.033)T(0.483)T(0.483)CLFPVEEK ; 267.77 6.07E-54 291820000 9809.1 8587.8 7722 9895.1 9549.7 11049.8 9406.9 10624.8 9553.4 8561 TRUE FALSE FALSE 10840.86614 8866.050355 8774.313946 10086.63397 8818.004049 10108.29488 8348.410854 10353.033 9486.917112 8930.106607 1.213968278 0.992826933 0.982554222 1.129508797 0.987446672 1.131934401 0.934861276 1.159340359 1.062352056 1 13.12446168 VDTFPQPLAAPQCHTLLAPEMEDNEMS(ph)CSP ddPTM_HeLa_SAHA_4h_R1 1 VDTFPQPLAAPQCHTLLAPEMEDNEMSCSP 30 0 B7Z4K4;Q9UET6-2;Q9UET6 B7Z4K4 FTSJ1 Putative tRNA (cytidine(32)/guanosine(34)-2-O)-methyltransferase 1 0 VDTFPQPLAAPQCHT(0.001)LLAPEMEDNEMS(0.5)CS(0.5)P 51.114 0.0074733 4109900 353.16 455.27 383.8 478.24 478.86 612.12 623.47 489.28 450.86 462.52 TRUE FALSE FALSE 390.3069892 470.0210467 436.1022653 487.4970267 442.1698503 559.9639323 553.3155147 476.7649261 447.7224286 482.4615007 0.808990953 0.974214618 0.903911016 1.010437156 0.916487325 1.160639619 1.146859416 0.988192686 0.927996178 1 8.914270013 -5.272251507 24.0802687 0.920491345 1.103393456 0.531385713 0.069652927 267.9494825 596765.3123 0.012330224 0.027854594 5.34E-06 5.272251507 0.18290211 VDTNAPDLSLEGPEGK ddPTM_HeLa_SAHA_4h_R1 1 VDTNAPDLSLEGPEGK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 193.96 2.55E-34 0 773.99 973.89 909.54 1275.7 1154.8 1197.7 951.96 1295.1 1157.5 1195.8 FALSE FALSE TRUE 855.4018194 1005.444675 1033.487375 1300.393018 1066.319473 1095.649222 844.8429554 1261.973217 1149.444863 1247.35679 0.685771566 0.806060209 0.828541908 1.042518892 0.854863245 0.878376765 0.677306575 1.01171792 0.921504474 1 10.28465847 -9.681115789 1.564602633 0.999521861 0.821887437 0.087872652 0.115625495 0.467732246 2.071385156 0.084501338 0.019042126 2.08E-10 9.681115789 -0.177634423 VDVADQAQDKDRDDR ddPTM_HeLa_SAHA_4h_R1 2 VDVADQAQDKDRDDR 15 2 E7EX17;P23588-2;P23588;F8VP89;F8W0K0;F8VSC7 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 0 0 ; ; 79.886 0.0080596 64337000 8199.9 9216.4 8159.6 8851.5 9433 10809.3 10442 8502 10919.8 9224.1 FALSE FALSE TRUE 9062.403104 9515.017407 9271.547795 9022.833582 8710.245578 9888.286829 9267.038678 8284.531151 10843.80822 9621.796093 0.941861895 0.988902417 0.963598449 0.937749407 0.905261917 1.027696569 0.963129814 0.861017119 1.127004576 1 13.23209051 VDVDVPDVNIEGPDAK ddPTM_HeLa_SAHA_4h_R1 2 VDVDVPDVNIEGPDAK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ; ; 154.6 0.00015773 11661800 3916.4 2676.35 2763.54 3552 3224.52 4031.34 3455.21 3314.3 3899.2 3155.47 FALSE FALSE TRUE 4328.344921 2763.065496 3140.140839 3620.754096 2977.457974 3687.847152 3066.420677 3229.525005 3872.06515 3291.517754 1.314999719 0.839450279 0.954009996 1.100025692 0.904585117 1.120409315 0.931612984 0.981165908 1.176376808 1 11.68453726 -7.256274496 24.99644828 1.148749867 0.980939273 0.393044089 0.106381246 453.5314765 2194953.237 0.022765626 0.027422542 5.54E-08 7.256274496 -0.167810593 VDVEVPDVS(ph)LEGPEGK ddPTM_HeLa_SAHA_4h_R1 2 VDVEVPDVSLEGPEGK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VDVEVPDVS(1)LEGPEGK;VDVEVPDVS(1)LEGPEGK ; 157.74 5.35E-06 10215600 2699.7 4364.2 3412.2 2337.34 3595.7 4157.9 4014.9 3086.23 4026.1 3138.84 TRUE FALSE FALSE 2983.666833 4505.602943 3877.196846 2382.582596 3320.198243 3803.623528 3563.132885 3007.288705 3998.082042 3274.170754 0.911274047 1.376105061 1.184176739 0.727690391 1.014057755 1.161705914 1.088255059 0.918488659 1.221097598 1 11.67691385 VDVEVPDVSLEGPEGK ddPTM_HeLa_SAHA_4h_R1 1 VDVEVPDVSLEGPEGK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 209.21 3.18E-33 641750 169.07 226.29 256.45 157.49 342.82 356.97 271.7 357.15 417.47 206.85 FALSE FALSE TRUE 186.8535583 233.6219445 291.3976705 160.5384467 316.5532057 326.5541477 241.1276009 348.0146201 414.5647923 215.7683158 0.865991643 1.082744441 1.350511864 0.744031607 1.467097727 1.513448101 1.117530162 1.612908822 1.921342301 1 7.75333922 -5.846253441 0.734003802 0.942884894 1.456582838 0 0.376217628 0.51923743 0.50662275 0.039479929 0.142752705 1.42E-06 5.846253441 0.513697945 VDVGKDQEFTVK(ac)SK ddPTM_HeLa_SAHA_4h_R1 2 VDVGKDQEFTVKSK 14 2 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 1 ; VDVGKDQEFTVK(1)SK;VDVGKDQEFTVK(1)SK 191.06 4.94E-17 3348300 1816.45 1885.87 1767.99 2322.8 2198.31 2307.31 2509.65 2615.3 1559.64 1968.22 FALSE TRUE FALSE 2007.512545 1946.973425 2008.92247 2367.761153 2029.875963 2110.714207 2227.257577 2548.404413 1548.786338 2053.079596 0.977805512 0.94831853 0.978492248 1.153272945 0.988698132 1.028072273 1.084837422 1.241259432 0.754372281 1 11.00357385 -1.000000002 0.614146156 0.991515774 17.8283448 0.452331177 0.091048134 73.83296549 0.501706809 0.008929205 1679.555006 0.099999999 1.000000002 16.83682902 VDVS(ph)CEPLEGVEK ddPTM_HeLa_SAHA_4h_R1 2 VDVSCEPLEGVEK 13 0 Q12888;Q12888-3;Q12888-2;A6NNK5;C9JXV0;H7C3N7 Q12888 TP53BP1 Tumor suppressor p53-binding protein 1 1 0 VDVS(1)CEPLEGVEK;VDVS(1)CEPLEGVEK ; 170.56 2.40E-05 54875000 4045.5 3387 2954 3773 4038.9 4356.8 3980.8 3862.4 4150.7 3881.7 TRUE FALSE FALSE 4471.024251 3496.741022 3356.555736 3846.031871 3729.440355 3985.576129 3532.869907 3763.605401 4121.814941 4049.059084 1.104213142 0.863593479 0.828971785 0.949858175 0.921063456 0.984321554 0.872516265 0.929501231 1.017968584 1 11.98337098 -7.258811958 24.9999427 1.049211762 0.907931117 0.607196204 0.049100726 120.4621706 1146199.712 0.009543761 0.011398688 5.51E-08 7.258811958 -0.141280645 VDVSAPDVEAHGPEWNLK ddPTM_HeLa_SAHA_4h_R1 1 VDVSAPDVEAHGPEWNLK 18 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 142.4 0.00015141 3341700 1417.5 1404.7 1441.9 1413.3 1366.4 1719.4 1433.9 1498.3 1679.2 1543.7 FALSE FALSE TRUE 1566.599154 1450.213202 1638.394623 1440.656465 1261.706727 1572.897447 1272.553798 1459.975656 1667.51431 1610.256462 0.972887978 0.900610081 1.017474335 0.894675165 0.783543962 0.976799339 0.7902802 0.906672751 1.035558217 1 10.65307477 -6.114256619 5.223225217 0.980837285 0.864007409 0.470104908 0.061468572 0.139960822 5.525773689 0.00814752 0.013705812 7.69E-07 6.114256619 -0.116829875 VEAEAGGSGART(ph)PPLSR ddPTM_HeLa_SAHA_4h_R1 1 VEAEAGGSGARTPPLSR 17 1 Q9Y3Q8 Q9Y3Q8 TSC22D4 TSC22 domain family protein 4 1 0 VEAEAGGS(0.001)GART(0.997)PPLS(0.002)R 71.545 0.018606 108790000 536.34 682.28 533.16 544.27 670.09 724.3 700.3 564.06 516.94 668.19 TRUE FALSE FALSE 592.754702 704.3863197 605.8162682 554.8051329 618.747849 662.5855652 621.5004009 549.6321619 513.3425725 696.9989409 0.850438454 1.010598838 0.869178176 0.795991357 0.887731405 0.950626359 0.891680553 0.78856958 0.736504092 1 9.445012654 -9.549737855 0.739949128 1.021047343 0.880190156 0 0.10352176 0.98968516 0.721760484 0.093167119 0.012418807 2.82E-10 9.549737855 -0.140857186 VEAFEHR ddPTM_HeLa_SAHA_4h_R1 2 VEAFEHR 7 0 P42285 P42285 SKIV2L2 Superkiller viralicidic activity 2-like 2 0 0 ; ; 135.84 0.00091918 1415600 3585.7 4095.6 3381.1 4187 4905.1 4982.6 4238.5 3883.4 4059.5 3835 FALSE FALSE TRUE 3962.860378 4228.300127 3841.8587 4268.04544 4529.272298 4558.054449 3761.572825 3784.068251 4031.249609 4000.345618 0.9906295 1.056983704 0.960381694 1.066919173 1.132220245 1.139415162 0.940311959 0.94593533 1.00772533 1 11.96590893 -6.245511179 23.54780614 0.9986457 1.049241833 0.088791394 0.065485174 673.7621091 996068.7705 0.010294143 0.017026793 5.68E-07 6.245511179 0.050596132 VEAGALLQAKQQAEVAHMSQT(ph)QEEK ddPTM_HeLa_SAHA_4h_R1 1 VEAGALLQAKQQAEVAHMSQTQEEK 25 1 Q13515 Q13515 BFSP2 Phakinin 1 0 VEAGALLQAKQQAEVAHMS(0.039)QT(0.961)QEEK 40.197 0.0088408 0 0 0 0 122.99 0 0 0 59.387 0 0 TRUE FALSE FALSE 0 0 0 125.3706493 0 0 0 57.86796653 0 0 0 VEAK(ac)FINYVK ddPTM_HeLa_SAHA_4h_R1 2 VEAKFINYVK 10 1 P06748;P06748-2 P06748 NPM1 Nucleophosmin 0 1 ; VEAK(1)FINYVK;VEAK(1)FINYVK 157.24 2.14E-07 219741000 6187.5 6060.5 6631.3 6718.7 6057.1 6264.4 8392.8 5511.9 5392.3 5620.4 FALSE TRUE FALSE 6838.329639 6256.864176 7534.97903 6848.750154 5593.006307 5730.637877 7448.420055 5370.913579 5354.774545 5862.72295 1.166408459 1.067228356 1.285235392 1.168185878 0.953994646 0.977470354 1.270471097 0.916112466 0.913359644 1 12.51735517 -4.056078878 13.82266001 1.093587217 0.886341106 0.148264904 0.124011853 35818.52015 1985934.015 0.015904141 41589.22559 8.79E-05 4.056078878 -0.207246111 VEANS(ph)PLPK ddPTM_HeLa_SAHA_4h_R1 2 VEANSPLPK 9 0 Q9H7C4-2;Q9H7C4 Q9H7C4-2 SYNC Syncoilin 1 0 VEANS(1)PLPK;VEANS(1)PLPK ; 105.46 0.0076699 49705000 9347.3 9709.8 9335.1 9618.2 11054 10977.1 10231 9701 9899.7 8608.9 TRUE FALSE FALSE 10330.4919 10024.40389 10607.23881 9804.374169 10207.04491 10041.78932 9079.780953 9452.862467 9830.807182 8980.07181 1.150379654 1.116294402 1.181197549 1.091792402 1.136632883 1.118230404 1.011103379 1.052648873 1.094735921 1 13.13251127 -2.712490802 14.02776769 1.085710261 0.60923907 0 0.056577346 0 0 0.009471759 0 0.001938694 2.712490802 -0.476471191 VEAPEYIPISDDPKAS(ph)AK ddPTM_HeLa_SAHA_4h_R1 2 VEAPEYIPISDDPKASAK 18 1 Q1ED39;H3BPL4 Q1ED39 KNOP1 Lysine-rich nucleolar protein 1 1 0 VEAPEY(0.002)IPIS(0.059)DDPKAS(0.939)AK;VEAPEYIPIS(0.009)DDPKAS(0.991)AK ; 80.412 0.0039131 14391500 1899.34 2367.6 1618.09 2179.8 2790.6 2828 2706.8 2393.1 2676.1 2224.9 TRUE FALSE FALSE 2099.121296 2444.311793 1838.594879 2221.993181 2576.784831 2587.03849 2402.22374 2331.887967 2657.476802 2320.826327 0.904471511 1.053207543 0.792215625 0.957414674 1.110287659 1.114705766 1.0350726 1.004766251 1.145056298 1 11.18042285 -5.807268943 9.2607689 0.948541479 1.067381338 0.149902572 0.093657957 0.261357686 50.05988369 0.010668637 0.019415711 1.56E-06 5.807268943 0.118839859 VEAPSLDVHMDS(ph)PDINIEGPDVK ddPTM_HeLa_SAHA_4h_R1 5 VEAPSLDVHMDSPDINIEGPDVK 23 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VEAPS(0.003)LDVHMDS(0.997)PDINIEGPDVK;VEAPS(0.002)LDVHMDS(0.998)PDINIEGPDVK;VEAPS(0.001)LDVHMDS(0.999)PDINIEGPDVK;VEAPSLDVHMDS(1)PDINIEGPDVK;VEAPSLDVHMDS(1)PDINIEGPDVK ;;;; 87.958 0.0002296 84823300 6162.73 9805.21 7630.45 6013.51 9645.63 11082.86 9607.45 6560.11 7890.52 8422.58 TRUE FALSE FALSE 6810.954217 10122.90524 8670.287988 6129.910182 8906.583913 10138.53798 8526.394441 6392.311885 7835.609229 8785.718643 0.775230177 1.152200025 0.986861558 0.697713008 1.013757016 1.15397936 0.970483439 0.727579854 0.891857519 1 13.10094458 VEARIREEGT(ph)DLEVT(ph)ANR ddPTM_HeLa_SAHA_4h_R1 1 VEARIREEGTDLEVTANR 18 2 P20742;P20742-2 P20742 PZP Pregnancy zone protein 2 0 VEARIREEGT(1)DLEVT(1)ANR 54.237 0.0084512 0 1073.6 1096.1 801.33 1091.5 1070.1 1238.5 1114.4 1166.8 979.3 1289.7 TRUE FALSE FALSE 1186.526174 1131.614359 910.5310793 1112.627561 988.1091692 1132.972832 989.0047791 1136.954946 972.4849716 1345.305279 0.881975409 0.841158046 0.67682116 0.82704467 0.734486949 0.842167834 0.735152679 0.845127841 0.722873081 1 10.39371787 -7.838871273 0.76824411 0.980521273 0.777389435 0 0.097959056 0.214633007 0.27707265 0.016746163 0.013623625 1.45E-08 7.838871273 -0.203131838 VEDMAELTCLNEASVLHNLK ddPTM_HeLa_SAHA_4h_R1 1 VEDMAELTCLNEASVLHNLK 20 0 P35579;Q5BKV1;B1AH99;E7ERA5;P35580;P35580-5;P35580-2;P35580-3;P35580-4 P35579;P35580 MYH9;MYH10 Myosin-9;Myosin-10 0 0 51.524 0.023788 268030 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 DISENK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 DISENKR 7 1 P11142;E9PKE3;P11142-2;E9PNE6;E9PN89;A8K7Q2 P11142 HSPA8 Heat shock cognate 71 kDa protein 0 1 ; DISENK(1)R;DISENK(1)R 109.01 0.0037213 2077050 1379.63 1435.11 1507.04 1395.67 1575.78 1762.09 2070.1 2844.4 1143.48 1168.15 FALSE TRUE FALSE 1524.745813 1481.608506 1712.411563 1422.685211 1455.044077 1611.950019 1837.1669 2771.644367 1135.52243 1218.514663 1.251315113 1.215913563 1.405327005 1.167556907 1.194112899 1.322881101 1.507710129 2.274608956 0.931890657 1 10.2509079 -1.174670934 0.79486437 1.149418107 200 0.881251755 0.122367016 83.47180572 0.383100002 0.020741522 29744.72723 0.066885051 1.174670934 198.8505819 up VEEEQEADEEDVS(ph)EEEAESK ddPTM_HeLa_SAHA_4h_R1 1 VEEEQEADEEDVSEEEAESK 20 0 Q9H3N1 Q9H3N1 TMX1 Thioredoxin-related transmembrane protein 1 1 0 VEEEQEADEEDVS(0.998)EEEAES(0.002)K 124.51 9.97E-05 4769400 1023.1 3218.5 1266.3 1222.6 1650.3 1568.6 1657.2 1267.5 1627.1 1494.9 TRUE FALSE FALSE 1130.714352 3322.781512 1438.864769 1246.265191 1523.854371 1434.946455 1470.727494 1235.079185 1615.776879 1559.352455 0.725117884 2.130872659 0.922732231 0.799219693 0.977235368 0.920219448 0.943165536 0.792046199 1.036184522 1 10.60673134 -6.536500768 24.98997865 0.988055682 0.892911258 0.029209604 0.375094606 1255.0118 2302347.335 0.062868432 0.088936297 2.91E-07 6.536500768 -0.095144424 VEEIAASK(ac)CR ddPTM_HeLa_SAHA_4h_R1 2 VEEIAASKCR 10 1 M0R3D6;M0R1A7;M0R117;Q02543;M0R0P7 M0R3D6 RPL18A 60S ribosomal protein L18a 0 1 ; VEEIAASK(1)CR;VEEIAASK(1)CR 142.36 6.36E-05 3998400 1381.99 1464.49 1708.29 1688.54 2041.68 1765.05 1977.25 1472.59 1322.71 1357.78 FALSE TRUE FALSE 1527.354049 1511.940437 1941.086865 1721.224133 1885.246919 1614.65781 1754.764626 1434.92328 1313.505153 1416.320541 1.078395748 1.067512892 1.370513813 1.215278663 1.331087748 1.140036993 1.238960091 1.013134555 0.927406696 1 10.4679321 -6.936730598 11.49008639 1.038906058 1.220578938 0.486796584 0.100042484 0.397124916 70.74833878 0.014715561 0.019343371 1.16E-07 6.936730598 0.18167288 VEENPDADS(ph)DFDAK ddPTM_HeLa_SAHA_4h_R1 2 VEENPDADSDFDAK 14 0 A0A024QZ33;Q9H0G5 A0A024QZ33 CCDC55;NSRP1 Nuclear speckle splicing regulatory protein 1 1 0 VEENPDADS(1)DFDAK;VEENPDADS(1)DFDAK ; 173.51 1.56E-06 25087000 2814 3973.7 2809.4 3353.2 3591.1 4255.6 3290.1 2653.2 5769.2 3755.2 TRUE FALSE FALSE 3109.989431 4102.450487 3192.250401 3418.106035 3315.950694 3892.998939 2919.889289 2585.334986 5729.051667 3917.10505 0.79395099 1.047316943 0.81495144 0.872610255 0.846530959 0.993845937 0.745420215 0.660011655 1.462572894 1 11.9355721 -13.52287875 0.022268011 2.080674071 1.58E-08 0.233976546 0.186681933 2410.276841 4.324851013 276.0300627 147.1171207 3.00E-14 13.52287875 -2.080674055 VEEPSQCLASGTAISELIIEDNNAS(ph)PQK ddPTM_HeLa_SAHA_4h_R1 1 VEEPSQCLASGTAISELIIEDNNASPQK 28 0 Q5UIP0;Q5UIP0-2;H7C2B5 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 VEEPSQCLASGTAISELIIEDNNAS(1)PQK 105.66 1.96E-07 2591000 410.34 522.73 214.38 422.62 643.32 618.33 530.44 316.13 619.47 417.86 TRUE FALSE FALSE 453.5014439 539.666795 243.59459 430.8004212 594.0289606 565.6448054 470.7534952 308.0438524 615.1590578 435.8759896 1.040436855 1.238120034 0.558862144 0.988355476 1.362839374 1.297719578 1.080017038 0.706723609 1.411316688 1 8.767773924 VEEPSQCLASGTAISELIIEDNNAS(ph)PQKLR ddPTM_HeLa_SAHA_4h_R1 1 VEEPSQCLASGTAISELIIEDNNASPQKLR 30 1 Q5UIP0;Q5UIP0-2;H7C2B5 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 VEEPSQCLASGTAIS(0.008)ELIIEDNNAS(0.992)PQKLR 144.39 2.02E-14 15381000 2686.4 2887.9 2121.5 2560.8 3338.9 3006.1 3191.5 3208.3 2596.6 2725.8 TRUE FALSE FALSE 2968.967878 2981.469855 2410.606972 2610.367987 3083.074203 2749.963368 2832.38402 3126.236332 2578.530049 2843.322578 1.044189604 1.048586565 0.847813396 0.918069588 1.084320938 0.967165453 0.996152896 1.09950111 0.906872146 1 11.47336207 -4.258352862 23.58732955 1.004128254 1.099501191 0.123619077 0.072634976 202.3729401 1546353.617 0.009342629 0.087966673 5.52E-05 4.258352862 0.095372937 VEEQEPELTSTPNFVVEVIK ddPTM_HeLa_SAHA_4h_R1 2 VEEQEPELTSTPNFVVEVIK 20 0 I3L3Q7;I3L3B0;Q07021 I3L3Q7 C1QBP "Complement component 1 Q subcomponent-binding protein, mitochondrial" 0 0 ; ; 201.22 4.38E-20 12530100 5512.4 4551.2 4260.9 4835.7 4888.7 6350 5594.1 5397.5 6746.2 5308.9 FALSE FALSE TRUE 6092.219524 4698.661866 4841.553262 4929.301966 4514.128862 5808.944276 4964.637145 5259.439765 6699.252645 5537.79266 1.100116941 0.848471973 0.874274925 0.890120355 0.81514949 1.048963844 0.896501088 0.949735768 1.209733382 1 12.43509532 -7.262002863 24.99999847 1.047277445 0.903640847 0.528075327 0.081629092 31.17935219 1383313.047 0.011479793 0.013548316 5.47E-08 7.262002863 -0.143636599 VEESSWLIEDGK ddPTM_HeLa_SAHA_4h_R1 2 VEESSWLIEDGK 12 0 Q9Y266 Q9Y266 NUDC Nuclear migration protein nudC 0 0 ; ; 183 4.81E-05 7548200 3708.9 2364.25 2263.93 3329.7 2365.74 3694.7 2851.66 2751.3 3814.3 3030 FALSE FALSE TRUE 4099.019119 2440.853251 2572.44659 3394.151158 2184.477512 3379.890774 2530.783712 2680.92573 3787.755976 3160.638128 1.296896055 0.772265964 0.813901018 1.073881609 0.691150781 1.06936974 0.800719225 0.848222929 1.198414947 1 11.62600015 -7.253883006 24.98613527 1.140200915 0.871444467 0.507681236 0.133771643 415.920773 1375296.861 0.02493104 0.030220277 5.57E-08 7.253883006 -0.268756449 VEET(ph)SPLGNAR ddPTM_HeLa_SAHA_4h_R1 1 VEETSPLGNAR 11 0 A0A087WYW3;P30414 A0A087WYW3 NKTR NK-tumor recognition protein;Putative peptidyl-prolyl cis-trans isomerase 1 0 VEET(0.863)S(0.137)PLGNAR 123.01 0.003386 11061000 1720.4 1766.4 1139 1390.9 2057.9 1949.8 1804.4 1650.7 2096 1736.7 TRUE FALSE FALSE 1901.359565 1823.632519 1294.216988 1417.822881 1900.224147 1783.666071 1601.364163 1608.477484 2081.413765 1811.577636 1.049560078 1.006654356 0.714414311 0.782645387 1.048933321 0.984592675 0.883961102 0.887887691 1.148950905 1 10.82303092 -6.966346229 24.99982666 1.02365102 0.888687646 0.40822812 0.096667626 165.1395036 122674.1144 0.015062031 0.019795327 1.08E-07 6.966346229 -0.134963374 VEETVKHDWDR ddPTM_HeLa_SAHA_4h_R1 3 VEETVKHDWDR 11 1 Q16881;A0A087WSY9;A0A087WSW9;E9PIR7;A0A182DWI3;Q16881-5;F8W809;Q16881-2;Q16881-4;Q16881-3;Q16881-6;E2QRB9;Q16881-7;E9PKD3;A0A0B4J225 Q16881 TXNRD1 "Thioredoxin reductase 1, cytoplasmic" 0 0 ;; ;; 96.756 0.012121 118738000 7937.3 7012.7 8617.8 8334.6 7991.9 8255.4 9388.8 7122.5 7230.5 8889.2 FALSE FALSE TRUE 8772.181632 7239.916081 9792.188904 8495.928235 7379.562349 7551.993476 8332.347514 6940.316763 7180.182362 9272.456915 0.946047171 0.780798029 1.056051163 0.916254269 0.795858359 0.814454415 0.898612697 0.748487356 0.774355969 1 13.17873594 -1 0.13090682 1.043705678 0.17891001 0 0.103519692 55.50626043 0.489172512 0.247414122 8.905815734 0.1 1 -0.864795669 VEFMDDTSR ddPTM_HeLa_SAHA_4h_R1 2 VEFMDDTSR 9 0 P62857 P62857 RPS28 40S ribosomal protein S28 0 0 ; ; 195.05 5.90E-07 35963800 3533.37 3658.34 3118.26 3698.65 3779.53 4528.32 4170.41 3892.27 3616.77 3174.34 FALSE FALSE TRUE 3905.026068 3776.872616 3543.200234 3770.242719 3489.943228 4142.48166 3701.144491 3792.711369 3591.600603 3311.201332 1.179338154 1.140635146 1.070064873 1.138632883 1.053980981 1.251050977 1.117764859 1.145418532 1.084682036 1 11.69313902 -9.397948273 1.039539484 0.99725248 1.138921504 0.260773407 0.057409345 0.357367987 0.669240958 0.038325382 0.009043064 4.00E-10 9.397948273 0.141669024 VEGDNIY(ph)VR ddPTM_HeLa_SAHA_4h_R1 1 VEGDNIYVR 9 0 O43491;E9PMV8;H0Y5B0;Q6ZSX4;E9PPC9 O43491 EPB41L2 Band 4.1-like protein 2 1 0 VEGDNIY(1)VR 140.11 0.0025869 39965000 1396 2482.2 1257.7 2112.7 3632.8 2303.2 3083 4311.2 4020.3 2402.4 TRUE FALSE FALSE 1542.837685 2562.624909 1429.092806 2153.594364 3354.455649 2106.954403 2736.092726 4200.925747 3992.322405 2505.979221 0.615662601 1.022604213 0.570273207 0.859382371 1.338580791 0.840770899 1.091825783 1.676360966 1.593118718 1 11.29115874 -1.000000026 0.661062528 0.827382752 79.17865502 0.216461467 0.315861228 122.6367884 0.704713137 0.037385453 14123.58482 0.099999994 1.000000026 78.35127227 VEGQATDEKK(ac)EPK ddPTM_HeLa_SAHA_4h_R1 1 VEGQATDEKKEPK 13 2 F8VXC8;Q8TAQ2-2;Q8TAQ2-3;Q8TAQ2 F8VXC8 SMARCC2 SWI/SNF complex subunit SMARCC2 0 1 VEGQATDEK(0.333)K(0.667)EPK 103.13 0.0046583 1239600 445.52 489.97 491.64 590.48 499.28 907.28 679.17 728.45 671.89 524.17 FALSE TRUE FALSE 492.3818377 505.8453495 558.6381388 601.9095942 461.0252743 829.9746398 602.7480041 709.8173038 667.2142628 546.7695339 0.900529029 0.925152771 1.021706778 1.100846987 0.843180254 1.517960655 1.102380376 1.298202002 1.220284272 1 9.094789048 -5.274290513 24.98065051 0.96019018 1.28580096 0.476943169 0.141058808 327.2003118 636027.4842 0.01538191 0.034605221 5.32E-06 5.274290513 0.32561078 VEGVHT(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 VEGVHTPR 8 0 Q6VY07-2;Q6VY07;B4DF77 Q6VY07-2 PACS1 Phosphofurin acidic cluster sorting protein 1 1 0 VEGVHT(1)PR 90.149 0.020151 4449100 2812.1 3727.6 3035.5 3008.9 3023.5 2958.3 2535 2567.2 5297.2 3639.6 TRUE FALSE FALSE 3107.88958 3848.376686 3449.162132 3067.14161 2791.840083 2706.236197 2249.755128 2501.534741 5260.336354 3796.520968 0.81861515 1.013658747 0.908506014 0.807882173 0.735368014 0.712820032 0.592583354 0.658901864 1.385567576 1 11.89046226 -5.695029937 1.124948366 0.922396334 0.63019147 0.48067367 0.157101223 0.204094387 0.500582166 0.012444993 0.038107014 2.02E-06 5.695029937 -0.292204864 VEHS(ph)PGPPLADAECQEGLSENSACR ddPTM_HeLa_SAHA_4h_R1 1 VEHSPGPPLADAECQEGLSENSACR 25 0 A0A087WUE6;Q3T8J9-2;Q3T8J9-3;Q3T8J9 A0A087WUE6 GON4L GON-4-like protein 1 0 VEHS(1)PGPPLADAECQEGLSENSACR 136.1 2.28E-09 4426100 1091.8 1166.1 1113 1023 1246.3 511.38 1401.7 1300 1162.7 1198.1 TRUE FALSE FALSE 1206.640533 1203.882405 1264.673844 1042.801644 1150.808763 467.8075471 1243.977027 1266.747882 1154.608676 1249.755954 0.965500928 0.963293994 1.011936642 0.834404222 0.92082679 0.374319118 0.995375955 1.013596197 0.923867313 1 10.28743069 -6.104130146 2.476672233 0.983584753 0.807384612 0.14835042 0.168776022 0.369931802 4.441965121 0.025220446 0.045613152 7.87E-07 6.104130146 -0.17620014 VEIAGPGFINVHLR ddPTM_HeLa_SAHA_4h_R1 2 VEIAGPGFINVHLR 14 0 P54136-2;P54136 P54136-2 RARS "Arginine--tRNA ligase, cytoplasmic" 0 0 ; ; 174.05 3.91E-11 2466600 968.1 1078.93 658.79 1099.02 1130.15 1029.08 1250.78 708.54 1081.9 996 FALSE FALSE TRUE 1069.9292 1113.88804 748.5664704 1120.293121 1043.558151 941.3965946 1110.038943 690.4165728 1074.37097 1038.942434 1.029825296 1.072136437 0.72050813 1.078301438 1.004442707 0.906110448 1.068431615 0.664537851 1.034100576 1 10.0209 -4.253904216 24.80449893 0.997802447 0.664537674 0.47599678 0.102315991 500.5025885 1647526.409 0.012911367 0.180088563 5.57E-05 4.253904216 -0.333264774 VEIGQK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 VEIGQKR 7 1 H0YER7;G3V1C3;Q9BZZ5-1;Q9BZZ5-5;Q9BZZ5-2;Q9BZZ5-6;Q9BZZ5 H0YER7 API5 Apoptosis inhibitor 5 0 1 ; VEIGQK(1)R;VEIGQK(1)R 139.68 1.58E-05 8394000 3964.5 4024.3 3610.5 4676.4 5806.6 6516 6046 6338.6 3707.6 3412.1 FALSE TRUE FALSE 4381.5043 4154.68996 4102.520137 4766.918484 5361.699562 5960.800142 5365.688168 6176.46779 3681.79851 3559.212329 1.231032008 1.167306015 1.152648327 1.339318378 1.506428689 1.674752611 1.507549331 1.735346818 1.034441941 1 11.79734229 -3.725427628 0.220199697 0.989956333 2.56068693 0.888768027 0.082347166 3.988719564 0.134790976 0.085096325 1.78221797 0.00018818 3.725427628 1.570730597 VEILANDQGNR ddPTM_HeLa_SAHA_4h_R1 6 VEILANDQGNR 11 0 P17066;P48741 P17066 HSPA6;HSPA7 Heat shock 70 kDa protein 6;Putative heat shock 70 kDa protein 7 0 0 ;;;;; ;;;;; 202.96 2.52E-16 222815000 9800.8 9427.12 8409.22 10001.48 10369.3 11367.1 11105.6 10635.26 10923.6 9745.3 FALSE FALSE TRUE 10831.69311 9732.564873 9555.184708 10195.07311 9574.806474 10398.55913 9855.96866 10363.22545 10847.58178 10165.46758 1.06553811 0.957414384 0.939965096 1.002912363 0.941895334 1.022929743 0.969553893 1.019453889 1.067101114 1 13.31138896 -7.252236985 24.93575773 1.030948552 0.978447328 0.430384075 0.033254217 559.058209 1514880.199 0.005827204 0.007090607 5.59E-08 7.252236985 -0.052501224 VEKIPGGIIEDSCVLR ddPTM_HeLa_SAHA_4h_R1 1 VEKIPGGIIEDSCVLR 16 1 B4DUR8;P49368-2;P49368;E9PQ35;E9PRC8;Q5SZX6 B4DUR8 CCT3 T-complex protein 1 subunit gamma 0 0 80.387 0.013138 943820 244.89 247.67 158.93 223.71 259.07 293.07 462.59 166.15 200.4 387.51 FALSE FALSE TRUE 270.6486538 255.6946705 180.5881527 228.0402305 239.2201126 268.0987872 410.5381557 161.9001236 199.0054001 404.2174525 0.669562019 0.632567122 0.44675991 0.564152362 0.59181045 0.663253864 1.015636888 0.400527297 0.492322632 1 8.658987803 -8.846149702 0.735733551 0.999220678 0.626958271 0 0.219401897 0.486075708 0.495666972 0.09921503 0.033596383 1.43E-09 8.846149702 -0.372262407 VELDNMPLR ddPTM_HeLa_SAHA_4h_R1 2 VELDNMPLR 9 0 Q15233;Q15233-2;C9JYS8;C9IZL7;C9J4X2 Q15233 NONO Non-POU domain-containing octamer-binding protein 0 0 ; ; 155.42 0.0011524 9610200 3816.1 3773.6 3642.7 5136.6 4792.7 3946.4 4356.5 3987.3 3603.3 3216 FALSE FALSE TRUE 4217.494907 3895.867116 4139.108186 5236.026321 4425.484361 3610.144518 3866.295154 3885.31064 3578.224342 3354.657499 1.257205813 1.161330812 1.233839278 1.560822922 1.319206018 1.076158898 1.152515616 1.158184 1.066643716 1 11.71194976 -9.188368791 0.739018227 0.984729445 1.244772491 0.293223948 0.126781357 0.779620915 0.698944994 0.123010541 0.027885173 6.48E-10 9.188368791 0.260043046 VELLLK ddPTM_HeLa_SAHA_4h_R1 1 VELLLK 6 0 E9PBS1;P22234;P22234-2;D6RF62 E9PBS1 PAICS Multifunctional protein ADE2;Phosphoribosylaminoimidazole-succinocarboxamide synthase;Phosphoribosylaminoimidazole carboxylase 0 0 118.06 0.006274 1802100 2084 3040.9 3402.6 2099 2162.3 3050 2732.3 1981.1 2533.4 2167.1 FALSE FALSE TRUE 2303.204682 3139.427155 3866.288608 2139.62918 1996.625041 2790.122841 2424.854413 1930.426331 2515.769863 2260.534287 1.018876243 1.388798734 1.71034283 0.94651481 0.883253598 1.234275834 1.072690836 0.853969056 1.112909403 1 11.14244808 -7.477475377 24.91229048 1.008327582 1.161581803 0.036103382 0.243988716 842.666082 462363.6994 0.042987486 0.048929694 3.33E-08 7.477475377 0.153254221 VELQELNDR ddPTM_HeLa_SAHA_4h_R1 3 VELQELNDR 9 0 P08670;B0YJC4;A0A1B0GTT5;P17661 P08670 VIM;DES Vimentin;Desmin 0 0 ;; ;; 200.56 8.75E-10 87055100 3732.79 5027.25 3950.74 4715.16 5251.3 5593 4810.55 3621.14 5705.2 4817.48 FALSE FALSE TRUE 4125.421979 5190.136198 4489.126273 4806.42874 4848.946528 5116.444935 4269.254253 3528.516482 5665.497049 5025.185139 0.820949252 1.032824872 0.893325549 0.956467992 0.964928932 1.018160484 0.849571535 0.702166464 1.127420561 1 12.29496103 -13.52286442 0.010998246 1.984527501 7.72E-06 0.167159583 0.106160811 20024.89454 17.80476983 1875.749365 1373.846222 3.00E-14 13.52286442 -1.984519782 VELS(ph)PGPPKPAGR ddPTM_HeLa_SAHA_4h_R1 1 VELSPGPPKPAGR 13 1 A0A087WXE2;Q8IZ73-2;Q8IZ73 A0A087WXE2 RPUSD2 RNA pseudouridylate synthase domain-containing protein 2 1 0 VELS(1)PGPPKPAGR 109.84 0.011691 5565300 1188.3 1716.1 1061.7 1268.8 1323.5 1865.7 1596 1260.9 1579.5 1351.4 TRUE FALSE FALSE 1313.290846 1771.702766 1206.382947 1293.359459 1222.093716 1706.731864 1416.41388 1228.648004 1568.508131 1409.665468 0.931632984 1.256824975 0.855793786 0.917493894 0.866938819 1.210735386 1.004787244 0.871588353 1.112681106 1 10.46113712 VEMY(ph)S(ph)GSDDDDDFNKLPK ddPTM_HeLa_SAHA_4h_R1 1 VEMYSGSDDDDDFNKLPK 18 1 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 2 0 VEMY(0.742)S(0.629)GS(0.629)DDDDDFNKLPK 60.246 0.014686 8441200 2454.2 2610 2480.1 2875.5 2749.1 3050.1 2502.4 2483.3 3045.6 2387.7 TRUE FALSE FALSE 2712.344016 2694.565712 2818.075112 2931.159461 2538.464552 2790.214321 2220.823366 2419.780782 3024.405422 2490.645432 1.089012503 1.081874472 1.131463787 1.176867419 1.019199489 1.120277613 0.891665806 0.971547676 1.214305891 1 11.28230394 -4.757219144 24.99981319 1.064297832 0.931606719 0.396809567 0.072868196 76.66675785 454139.8932 0.008860631 0.0309387 1.75E-05 4.757219144 -0.132691113 VEMYKQNK ddPTM_HeLa_SAHA_4h_R1 1 VEMYKQNK 8 1 Q9BXG8 Q9BXG8 SPZ1 Spermatogenic leucine zipper protein 1 0 0 83.843 0.017341 0 0 205.36 233.04 210.31 192.16 128.69 195.88 0 285.22 193.4 FALSE FALSE TRUE 0 212.0137987 264.7974776 214.3808542 177.4367423 117.724888 173.8390669 0 283.2351308 201.7384205 0 1.050934166 1.312578323 1.062667456 0.879538671 0.583552145 0.861705304 0 1.403972184 1 7.656342057 -4.251875956 23.83636282 0.685703314 1.71E-05 0.1413878 0.428057615 1028.78059 2564079.606 0.066905811 1.109292249 5.60E-05 4.251875956 -0.685686203 VEMYS(ph)GSDDDDDFNKLPK ddPTM_HeLa_SAHA_4h_R1 1 VEMYSGSDDDDDFNKLPK 18 1 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 1 0 VEMY(0.082)S(0.459)GS(0.459)DDDDDFNKLPK 59.884 0.015935 17527000 608.77 550.89 655.97 689.27 564.34 873.59 654.79 751.1 531.29 549.13 TRUE FALSE FALSE 672.8032217 568.7391975 745.3621755 702.6118176 521.1003911 799.1552173 581.1113059 731.8879496 527.5927096 572.8056817 1.174574979 0.992900761 1.301247874 1.22661461 0.909733279 1.395159376 1.014499898 1.277724668 0.921067522 1 9.161901993 -11.09927436 0.302261689 0.729838783 1.174972201 0.234907102 0.144586483 15.66052938 0.75436962 2.79197404 0.060079926 7.96E-12 11.09927436 0.445133418 VENMSSNQDGNDS(ph)DEFM ddPTM_HeLa_SAHA_4h_R1 11 VENMSSNQDGNDSDEFM 17 0 Q86WR0-2;Q86WR0 Q86WR0-2 CCDC25 Coiled-coil domain-containing protein 25 1 0 VENMSSNQDGNDS(1)DEFM;VENMSSNQDGNDS(1)DEFM;VENMSSNQDGNDS(1)DEFM;VENMSSNQDGNDS(1)DEFM;VENMSSNQDGNDS(1)DEFM;VENMSSNQDGNDS(1)DEFM;VENMSSNQDGNDS(1)DEFM;VENMSSNQDGNDS(1)DEFM;VENMSSNQDGNDS(1)DEFM;VENMSSNQDGNDS(1)DEFM;VENMSSNQDGNDS(1)DEFM ;;;;;;;;;; 189.1 1.13E-11 116688900 14599.45 15160.76 14766.07 15491.48 17329.57 18527.24 17090.93 17249.92 17535.41 15919.28 TRUE FALSE FALSE 16135.08714 15651.97857 16778.31312 15791.34 16001.78209 16948.61492 15167.81358 16808.69202 17413.37965 16605.63807 0.971663183 0.942570138 1.01039858 0.950962555 0.963635485 1.020654241 0.913413475 1.012228013 1.048642611 1 14.01938554 -9.065303836 0.87244438 0.999839438 0.972153577 0.180220167 0.03579064 1.059575639 1.478986792 0.018237987 0.005634639 8.60E-10 9.065303836 -0.02768586 VEPAS(ph)PPYYSEK ddPTM_HeLa_SAHA_4h_R1 1 VEPASPPYYSEK 12 0 E7EU07;E7EUD1;A0A499FIV4;E9PFX5;A0A494C0D9;E9PFV2;P37231-3;P37231-2;P37231 E7EU07 PPARG Peroxisome proliferator-activated receptor gamma 1 0 VEPAS(0.985)PPYYS(0.015)EK 117.93 0.0016366 3552300 854.38 856.76 738.06 891.78 955.33 1242.8 1245.6 1012.2 867.89 590.3 TRUE FALSE FALSE 944.2476084 884.5195861 838.6389731 909.0416914 882.1328218 1136.906448 1105.44181 986.3093896 861.8502828 615.7507219 1.533490055 1.436489727 1.361978059 1.476314455 1.432613541 1.846374528 1.795274891 1.601799811 1.399674011 1 9.266202604 -11.26594334 0.152504879 5.91E-14 1.819425562 0.432127351 0.169437192 12.33382404 0.248046666 4.555286738 0.383980283 5.42E-12 11.26594334 1.819425562 VEPEVLSTDTQTS(ph)PEPGTR ddPTM_HeLa_SAHA_4h_R1 2 VEPEVLSTDTQTSPEPGTR 19 0 P29375-2;P29375 P29375-2 KDM5A Lysine-specific demethylase 5A 1 0 VEPEVLS(0.033)T(0.033)DT(0.008)QT(0.195)S(0.731)PEPGTR;VEPEVLST(0.001)DT(0.001)QT(0.081)S(0.917)PEPGTR ; 192.23 5.08E-14 5659600 1504.85 969.68 804.47 921.84 1422.52 1254.42 1576.85 1332.44 1150.98 989.77 TRUE FALSE FALSE 1663.137027 1001.098268 914.0989821 939.6835462 1313.526825 1147.536359 1399.418688 1298.358114 1142.970236 1032.443829 1.610874104 0.969639452 0.885374058 0.910154645 1.272250159 1.111475828 1.35544293 1.257558114 1.107053193 1 10.01184758 VEPGLGADNSVVR ddPTM_HeLa_SAHA_4h_R1 1 VEPGLGADNSVVR 13 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 102.05 0.01945 1483400 258.57 490.33 203.98 277.69 276.36 322.7 238.49 377.78 497.85 323.19 FALSE FALSE TRUE 285.767579 506.2170137 231.7773321 283.0650915 255.1853565 295.2041445 211.6544775 368.1169346 494.3854213 337.1243026 0.847662351 1.501573781 0.687512975 0.839646057 0.756947377 0.875653705 0.627823257 1.091932358 1.466478143 1 8.397136822 VEPS(ph)SQSPGRSPR ddPTM_HeLa_SAHA_4h_R1 1 VEPSSQSPGRSPR 13 1 X6RM00;G8JLD3;X6RLX0;Q8IUD2-5;Q8IUD2-4;Q8IUD2-2;Q8IUD2-3;Q8IUD2;K7EKH8;K7EIZ7 X6RM00 ERC1 ELKS/Rab6-interacting/CAST family member 1 1 0 VEPS(0.461)S(0.461)QS(0.063)PGRS(0.015)PR 137.62 0.0021153 21910000 2367.4 2700.8 2211.1 2427.8 2703.6 3526.5 3185.6 2937.2 2957 2672.5 TRUE FALSE FALSE 2616.413994 2788.307692 2512.417193 2474.79358 2496.450752 3226.02236 2827.147904 2862.070677 2936.421996 2787.724554 0.938548247 1.000209181 0.901242983 0.88774681 0.895515573 1.157224216 1.014141767 1.026669107 1.053340077 1 11.4448723 -5.273724861 24.99961417 0.956484829 1.06082471 0.411417544 0.061351979 544.0546386 1107092.175 0.008207073 0.01847914 5.32E-06 5.273724861 0.104339881 VEPSSQS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 1 VEPSSQSPGR 10 0 X6RM00;G8JLD3;X6RLX0;Q8IUD2-5;Q8IUD2-4;Q8IUD2-2;Q8IUD2-3;Q8IUD2;K7EKH8;K7EIZ7 X6RM00 ERC1 ELKS/Rab6-interacting/CAST family member 1 1 0 VEPSS(0.001)QS(0.999)PGR 84.821 0.02245 19756000 1050.1 1187.5 774.35 1138.1 1063.3 1573.7 1131.5 863.8 1460.2 1183.6 TRUE FALSE FALSE 1160.554336 1225.975779 879.8743854 1160.129571 981.8301837 1439.611907 1004.180642 841.7052468 1450.038349 1234.630788 0.94000113 0.9929898 0.71266195 0.939657088 0.79524194 1.166026249 0.813344889 0.681746523 1.174471237 1 10.26986396 -1 0.14604089 1.018411329 0.26282483 0.241571418 0.141625793 96.9532047 0.923524862 0.299575636 15.49259532 0.1 1 -0.7555865 VEPSSQSPGRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 5 VEPSSQSPGRSPR 13 1 X6RM00;G8JLD3;X6RLX0;Q8IUD2-5;Q8IUD2-4;Q8IUD2-2;Q8IUD2-3;Q8IUD2;K7EKH8;K7EIZ7 X6RM00 ERC1 ELKS/Rab6-interacting/CAST family member 1 1 0 VEPSSQS(0.002)PGRS(0.998)PR;VEPSSQSPGRS(1)PR;VEPSSQSPGRS(1)PR;VEPSSQS(0.009)PGRS(0.991)PR;VEPSSQS(0.006)PGRS(0.994)PR ;;;; 122.34 0.00063083 284616500 14161.1 16111.9 13613.2 14943.3 16034.4 18472.2 16464.5 15349.1 18948.6 16260.7 TRUE FALSE FALSE 15650.62947 16633.93613 15468.336 15232.54918 14805.84774 16898.26464 14611.87113 14956.49225 18816.73515 16961.77835 0.922699799 0.980671707 0.91195249 0.898051423 0.872894777 0.99625548 0.861458676 0.881776187 1.109360985 1 14.04999982 -13.52287873 0.116790564 1.293918686 0.865073684 0.492793496 0.052279454 64.5297852 0.547349662 4.48298501 0.196400456 3.00E-14 13.52287873 -0.428845002 VEQATKPS(ph)FER ddPTM_HeLa_SAHA_4h_R1 2 VEQATKPSFER 11 1 Q96E39;A0A1B0GUK8 Q96E39 RBMXL1 "RNA binding motif protein, X-linked-like-1" 1 0 VEQATKPS(1)FER;VEQATKPS(1)FER ; 118.52 0.010281 15501000 1559.46 1959.56 1600.5 1865.12 2028.94 2352.46 2290.7 2094.3 2471.5 1950.55 TRUE FALSE FALSE 1723.491158 2023.05103 1818.607805 1901.222095 1873.483056 2152.017173 2032.944407 2040.730839 2454.30063 2034.647756 0.847071024 0.994300376 0.893819483 0.934423213 0.920789876 1.057685374 0.999162829 1.002989747 1.206253329 1 10.99056334 -5.274616388 24.59971473 0.928842697 1.017867667 0 0.098219462 549.5794072 1025991.026 0.008570076 0.019270661 5.31E-06 5.274616388 0.08902497 VEQATKPS(ph)FESGR ddPTM_HeLa_SAHA_4h_R1 2 VEQATKPSFESGR 13 1 P38159;P38159-2;H0Y6E7;H3BT71 P38159 RBMX "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed" 1 0 VEQAT(0.001)KPS(0.998)FES(0.001)GR;VEQAT(0.469)KPS(0.53)FES(0.001)GR ; 158.93 0.00028929 28563000 2679.7 2887.1 1751.34 3016.1 2902.6 3256.2 2990.8 2910.6 3196.3 2376.66 TRUE FALSE FALSE 2961.563141 2980.643934 1990.003495 3074.480977 2680.203415 2978.753441 2654.267313 2836.151066 3174.056688 2479.129444 1.194598027 1.202294597 0.802702537 1.240145401 1.081106685 1.201532033 1.070644907 1.144010884 1.280310996 1 11.27561789 -9.57352242 1.373284135 1.000413997 1.124350002 0 0.146332862 0.690790381 2.348051754 0.078151537 0.018564026 2.67E-10 9.57352242 0.123936005 VERADGYEPPVQES(ph)V ddPTM_HeLa_SAHA_4h_R1 2 VERADGYEPPVQESV 15 1 D6R9B6;H0Y9Y4;D6RAT0;P61247 D6R9B6 RPS3A 40S ribosomal protein S3a 1 0 VERADGYEPPVQES(1)V;VERADGYEPPVQES(1)V ; 109.55 0.0098769 14070700 2958.4 1908.42 2855.3 2725.3 2311.37 2310.1 2570 2612.8 1584.26 2877.7 TRUE FALSE FALSE 3269.578086 1970.25406 3244.405414 2778.052122 2134.27333 2113.266484 2280.816836 2545.968359 1573.235006 3001.77173 1.089216096 0.65636372 1.080830158 0.925470813 0.711004541 0.704006391 0.759823545 0.848155219 0.524102146 1 11.55159856 -6.409677775 0.751823939 1.036463074 0.751041198 0 0.20552618 0.448879455 0.504094132 0.026729036 0.057706087 3.89E-07 6.409677775 -0.285421876 VESGYFS(ph)LEK ddPTM_HeLa_SAHA_4h_R1 2 VESGYFSLEK 10 0 A0A494BZV2;Q6WCQ1;Q6WCQ1-2;A0A1W2PPU9;J3KSW8;Q6WCQ1-3 A0A494BZV2 MPRIP Myosin phosphatase Rho-interacting protein 1 0 VESGYFS(1)LEK;VES(0.005)GYFS(0.995)LEK ; 158.56 0.00024099 43906000 3047.5 3279.1 3329.8 3444.3 3193.8 4232.3 4506.2 4464.5 3154.6 3475 TRUE FALSE FALSE 3368.050032 3385.344991 3783.567803 3510.969407 2949.091734 3871.68423 3999.150516 4350.304555 3132.646882 3624.824256 0.929162297 0.933933552 1.043793446 0.968590243 0.813581991 1.068102605 1.103267423 1.200142199 0.864220348 1 11.82369533 -4.844893267 2.615537436 0.960419964 1.166535506 0.607920751 0.068669316 0.137094125 1.842844527 0.008766987 0.036584264 1.43E-05 4.844893267 0.206115542 VETFSGVYK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 VETFSGVYKK 10 1 P62081;A0A2R8Y623 P62081 RPS7 40S ribosomal protein S7 0 1 VETFSGVYK(1)K 117.7 0.0021801 1780900 345.92 561.91 440.15 523.46 502.94 685.81 725.98 508.19 604.99 408.96 FALSE TRUE FALSE 382.3054527 580.1162527 500.1313498 533.5923252 464.4048459 627.3751297 644.2908197 495.1912357 600.7798253 426.592267 0.896184676 1.359884596 1.172387285 1.250825124 1.088638688 1.470666907 1.51031997 1.160806873 1.408323291 1 8.736714003 -7.263014623 24.99470536 0.950976093 1.289747169 0.012589708 0.193192646 71.14768618 1128909.452 0.022290645 0.026212891 5.46E-08 7.263014623 0.338771076 VETGVLKPGMVVTFAPVNVTTEVK ddPTM_HeLa_SAHA_4h_R1 4 VETGVLKPGMVVTFAPVNVTTEVK 24 1 Q5VTE0;P68104;A0A087WVQ9 Q5VTE0 EEF1A1P5;EEF1A1 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1 0 0 ;;; ;;; 196.98 2.30E-33 199382500 1493.14 1476.77 1293.02 1308.82 1579.15 1818.392 1867.63 1509.34 1384.69 1546.05 FALSE FALSE TRUE 1650.195316 1524.618317 1469.226032 1334.154104 1458.155868 1663.454772 1657.479357 1470.733268 1375.05383 1612.707782 1.023245088 0.945377913 0.911030534 0.82727579 0.904166201 1.031466947 1.027761741 0.911965134 0.852636693 1 10.65526933 -7.215689695 6.253233127 1.010973522 0.937353183 0 0.075481504 0.237669074 24.13285953 0.01032412 0.012595395 6.09E-08 7.215689695 -0.07362034 VETLS(ph)PESALQGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 4 VETLSPESALQGSPR 15 0 Q99958 Q99958 FOXC2 Forkhead box protein C2 2 0 VET(0.026)LS(0.973)PES(0.001)ALQGS(1)PR;VET(0.007)LS(0.988)PES(0.005)ALQGS(1)PR;VET(0.094)LS(0.906)PESALQGS(1)PR;VET(0.014)LS(0.629)PES(0.357)ALQGS(1)PR ;;; 195.45 1.94E-08 74197000 6537.61 7853.5 6649.84 7437.8 7963.3 9333 7678.2 7285.46 9258.5 7923.48 TRUE FALSE FALSE 7225.265815 8107.958553 7556.045564 7581.769374 7353.153674 8537.775894 6814.228728 7099.108482 9194.069345 8265.099999 0.874189764 0.980987351 0.914211028 0.917323369 0.889663002 1.03299124 0.82445811 0.858925903 1.112396625 1 13.01281656 -7.912634016 0.012291033 1.869540764 3.04E-06 0.27789897 0.07191059 1124.317975 8.79013294 678.2893618 657.8146455 1.22E-08 7.912634016 -1.869537725 VETLSPESALQGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 VETLSPESALQGSPR 15 0 Q99958 Q99958 FOXC2 Forkhead box protein C2 1 0 VETLSPESALQGS(1)PR;VETLSPESALQGS(1)PR ; 233.84 4.96E-25 47640000 1977.13 1952.56 1564.95 1908.57 2295.4 2712.9 2202.27 2301.2 2432.7 2396.7 TRUE FALSE FALSE 2185.093605 2015.824225 1778.213236 1945.513132 2119.526948 2481.745658 1954.464784 2242.338636 2415.770643 2500.033466 0.874025742 0.806318896 0.711275773 0.778194836 0.84779943 0.992684975 0.781775448 0.896923448 0.966295322 1 11.28773169 -8.469048454 0.870593023 0.98673614 0.832445735 0.392940245 0.072973016 0.392681647 0.616005621 0.030099567 0.016394271 3.40E-09 8.469048454 -0.154290405 VETPS(ph)HPGGVSEEFWER ddPTM_HeLa_SAHA_4h_R1 1 VETPSHPGGVSEEFWER 17 0 Q92620;H3BQT9 Q92620 DHX38 Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16 1 0 VET(0.128)PS(0.626)HPGGVS(0.245)EEFWER 92.38 0.0035725 0 158.3 195.61 157.54 243.29 161.81 150.66 194.05 245.62 217.57 168.57 TRUE FALSE FALSE 174.9507203 201.9478923 179.0087308 247.9992298 149.4121528 137.8229204 172.2149833 239.3373961 216.0559127 175.8378777 0.994954686 1.148489137 1.018032822 1.410385709 0.849715401 0.783806778 0.979396394 1.361125369 1.22872225 1 7.458102068 -5.892533676 0.01041174 5.69E-06 2.097332846 0 0.202900838 10437.95426 34.32147454 3334.609531 3579.375609 1.28E-06 5.892533676 2.097327154 VETTEDLVAK ddPTM_HeLa_SAHA_4h_R1 1 VETTEDLVAK 10 0 P38117-2;P38117 P38117-2 ETFB Electron transfer flavoprotein subunit beta 0 0 120.99 0.001692 0 699.91 807.21 784.55 679.85 727.28 1105.5 780.43 1127.4 927.43 766.62 FALSE FALSE TRUE 773.5297451 833.3641336 891.4643882 693.0094798 671.5559635 1011.305181 692.6139624 1098.56274 920.9759391 799.6727399 0.967307883 1.042131477 1.114786517 0.866616361 0.839788491 1.264648812 0.866121762 1.373765399 1.151691052 1 9.643265898 -4.249434174 24.78984122 0.992029898 1.37376566 0.396661112 0.131463185 1049.163751 2166400.607 0.015115662 0.336218562 5.63E-05 4.249434174 0.381735762 VEVAAPAHRGT(ph)PDTDLEVQR ddPTM_HeLa_SAHA_4h_R1 1 VEVAAPAHRGTPDTDLEVQR 20 1 P0C7T5 P0C7T5 ATXN1L Ataxin-1-like 1 0 VEVAAPAHRGT(0.886)PDT(0.114)DLEVQR 71.428 0.0073845 9739900 1851.2 1564.7 1835.6 1734.1 1865.3 1448.5 1727.6 1637.8 1452 1843 TRUE FALSE FALSE 2045.91771 1615.397307 2085.746009 1767.666013 1722.381117 1325.079651 1533.205901 1595.907448 1441.895414 1922.460749 1.064218195 0.840275832 1.084935549 0.919480938 0.895925245 0.689262265 0.797522603 0.830137857 0.750025931 1 10.90873843 -5.732541057 1.878383465 1.017414646 0.776449695 0.181711608 0.112901348 0.146449549 1.049467802 0.011168629 0.025660603 1.85E-06 5.732541057 -0.240964952 VEVERDNLAEDIMR ddPTM_HeLa_SAHA_4h_R1 8 VEVERDNLAEDIMR 14 1 P08670;B0YJC4 P08670 VIM Vimentin 0 0 ;;;;;;; ;;;;;;; 206.46 3.78E-12 150917100 14261.5 9762.73 14305.45 13488.2 13418.58 12565.07 15237.87 13686.83 8594.15 13108.09 FALSE FALSE TRUE 15761.59 10079.04886 16254.92223 13749.28362 12390.4513 11494.45535 13523.26476 13336.74071 8534.34261 13673.24391 1.152732308 0.737136624 1.188812423 1.005561205 0.906182277 0.840653134 0.989031195 0.975389658 0.624163707 1 13.73906794 -5.929200039 5.278264668 1.05325599 0.927319762 0 0.181495182 0.266732158 13.81608105 0.018170098 0.0332944 1.18E-06 5.929200039 -0.125936228 VEVGKDQEFTVDTR ddPTM_HeLa_SAHA_4h_R1 2 VEVGKDQEFTVDTR 14 1 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 ; ; 115.37 0.0020509 18959100 6015.2 6118.1 5760.3 6610.6 7024.2 6875.7 6597.8 6437.9 7128.5 5736.3 FALSE FALSE TRUE 6647.906335 6316.330454 6545.283686 6738.557722 6486.007314 6289.851678 5855.39818 6273.22784 7078.892188 5983.619966 1.111017473 1.055603546 1.093866877 1.126167397 1.083960437 1.051178336 0.978571202 1.048400112 1.183045085 1 12.54680283 -4.954679884 9.892829137 1.064591196 1.013674886 0.143253265 0.052822053 0.596452435 124.467793 0.006991794 0.021005315 1.11E-05 4.954679884 -0.05091631 VEVKEEEESSSNGTASQSTS(ph)PSQPR ddPTM_HeLa_SAHA_4h_R1 1 VEVKEEEESSSNGTASQSTSPSQPR 25 1 Q92793;Q92793-2;I3L466 Q92793 CREBBP CREB-binding protein 1 0 VEVKEEEESSSNGT(0.002)AS(0.006)QS(0.031)T(0.16)S(0.641)PS(0.16)QPR 79.69 8.13E-05 4982800 551.86 577.45 540.31 737.31 670.17 852.85 781.82 1061.2 792.28 714.88 TRUE FALSE FALSE 609.9071668 596.1597589 613.940633 751.5817012 618.8217194 780.182382 693.847556 1034.056041 786.766459 745.7019753 0.817896676 0.79946115 0.823305628 1.00788482 0.829851254 1.046238857 0.930462274 1.38668808 1.055068224 1 9.542455353 -1.740124502 1.157189008 0.901313555 200 0.666187385 0.09735905 277.3910295 1.155470255 0.014172996 145663.7512 0.018191793 1.740124502 199.0986864 VEVS(ph)EDEPASK ddPTM_HeLa_SAHA_4h_R1 3 VEVSEDEPASK 11 0 O75683 O75683 SURF6 Surfeit locus protein 6 1 0 VEVS(1)EDEPASK;VEVS(0.998)EDEPAS(0.002)K;VEVS(1)EDEPASK ;; 142.89 3.38E-07 14101500 3542.55 4368 3466.89 4132.79 3875.2 5533.8 4193.05 3268.25 5093.3 3834 TRUE FALSE FALSE 3915.171663 4509.526066 3939.339714 4212.786127 3578.283013 5062.289108 3721.236978 3184.652897 5057.855311 3999.302503 0.978963622 1.127578137 0.985006688 1.053380214 0.894726771 1.265792999 0.930471495 0.796302079 1.264684356 1 11.96553269 -4.519806587 24.99910135 1.014788892 0.829844351 0.246305404 0.125535113 85.30830866 694165.1977 0.012492118 0.048687293 3.02E-05 4.519806587 -0.184944541 VEVT(ph)PTVPR ddPTM_HeLa_SAHA_4h_R1 1 VEVTPTVPR 9 0 Q8IXS8 Q8IXS8 FAM126B Protein FAM126B 1 0 VEVT(0.937)PT(0.063)VPR 111.27 0.010313 2517700 694.63 995.69 971.86 612.72 823.76 876.78 1048.7 864.5 872.2 970.72 TRUE FALSE FALSE 767.6943705 1027.951009 1104.30002 624.5800816 760.6436868 802.0734114 930.697516 842.3873418 866.1302892 1012.57249 0.758162382 1.015187574 1.090588605 0.616825055 0.751199242 0.792114559 0.919141617 0.831927936 0.855376082 1 9.983809479 -6.258501496 24.99957111 0.908623611 0.788671157 0.314875607 0.113195169 383.8062418 3265948.007 0.020525387 0.033096669 5.51E-07 6.258501496 -0.119952454 VEVTEFEDIK ddPTM_HeLa_SAHA_4h_R1 6 VEVTEFEDIK 10 0 Q01105;A0A0C4DFV9;Q01105-3;Q01105-4;A0A087X027;P0DME0;Q01105-2 Q01105;Q01105-2 SET;SETSIP Protein SET;Protein SETSIP 0 0 ;;;;; ;;;;; 209.6 3.56E-17 133740800 12301.7 12117.33 10970.6 12472.1 12163.2 12076 12747.8 11809.97 12574.6 11270.7 FALSE FALSE TRUE 13595.64925 12509.93944 12465.61624 12713.51553 11231.25824 11047.05686 11313.38399 11507.88807 12487.09233 11756.63503 1.156423518 1.064074831 1.060304772 1.081390678 0.955312316 0.93964445 0.962297797 0.978841993 1.062131494 1 13.52118757 -5.760027616 24.98961606 1.074110708 0.957873689 0.687862319 0.036815389 24.71902614 437533.2368 0.008506411 0.016298721 1.74E-06 5.760027616 -0.116237019 VEVTEFEDIKS(ph)GYR ddPTM_HeLa_SAHA_4h_R1 1 VEVTEFEDIKSGYR 14 1 Q01105;A0A0C4DFV9;Q01105-3;Q01105-4;A0A087X027;P0DME0;Q01105-2 Q01105;Q01105-2 SET;SETSIP Protein SET;Protein SETSIP 1 0 VEVTEFEDIKS(0.997)GY(0.003)R 81.01 0.0075498 0 883.64 1047.7 686.25 865.97 1003.6 1179.3 1019.2 589.58 1232 898.49 TRUE FALSE FALSE 976.5853095 1081.646167 779.7685762 882.7321016 926.7043848 1078.817005 904.5169336 574.4993973 1223.426412 937.228301 1.041992979 1.154090381 0.83199427 0.941853869 0.988771235 1.151071734 0.96509776 0.612977005 1.305366484 1 9.872256709 -4.275927329 4.196056913 1.016794218 0.58575756 0.500582047 0.127266341 0.092371354 3.610577298 0.011881518 0.116184863 5.30E-05 4.275927329 -0.431036657 VEVTS(ph)PNLDVSLPSMEVDIQAPGAK ddPTM_HeLa_SAHA_4h_R1 1 VEVTSPNLDVSLPSMEVDIQAPGAK 25 0 Q8IVF2;Q8IVF2-3 Q8IVF2 AHNAK2 Protein AHNAK2 1 0 VEVT(0.17)S(0.83)PNLDVSLPSMEVDIQAPGAK 151.12 1.37E-09 2595700 955.38 1713 1590.5 869.66 1965.2 2364.4 2119.4 1436.6 1138.6 1367.6 TRUE FALSE FALSE 1055.871252 1768.502324 1807.245057 886.4935268 1814.626801 2162.939818 1880.919534 1399.853852 1130.67639 1426.563929 0.740149972 1.239693706 1.266851783 0.621418717 1.272026275 1.516188496 1.318496491 0.981276635 0.792587256 1 10.47832868 -6.098745914 0.797111081 0.896343463 1.279122473 0.211495418 0.246198101 0.69105001 0.848711818 0.049381347 0.133584032 7.97E-07 6.098745914 0.38277901 VEYISS(ph)PLK ddPTM_HeLa_SAHA_4h_R1 1 VEYISSPLK 9 0 Q15697 Q15697 ZNF174 Zinc finger protein 174 1 0 VEYIS(0.117)S(0.883)PLK 94.309 0.007655 0 2048.2 2482.9 2225.4 1847.4 2318.3 1692.2 2181.2 1228.1 1165 1807.1 TRUE FALSE FALSE 2263.639073 2563.347589 2528.665923 1883.159098 2140.672355 1548.01504 1935.765635 1196.68698 1156.89267 1885.012925 1.200861301 1.359856771 1.341458135 0.999016544 1.135627415 0.821222507 1.02692433 0.634842852 0.613731956 1 10.8803587 -3.911492915 0.76443355 1.131694607 0.155772293 0.247846849 0.215647679 2.848651044 0.827168988 0.025706522 2.685328742 0.000122605 3.911492915 -0.975922314 VEYSEEELK ddPTM_HeLa_SAHA_4h_R1 1 VEYSEEELK 9 0 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 0 134.26 0.00969 6881000 1035.7 667.59 607.2 800.14 551.31 1170.6 788.28 1000.9 1054.9 1061.8 FALSE FALSE TRUE 1144.639678 689.220354 689.9460538 815.6278667 509.0687469 1070.858294 699.5806598 975.2984273 1047.558865 1107.579394 1.033460611 0.622276252 0.622931464 0.736405779 0.459622804 0.966845627 0.631630259 0.880567508 0.945809276 1 10.1131944 -7.268054251 24.85447065 1.015800852 0.699164422 0.486299497 0.136041134 245.2364495 921440.6606 0.02097848 0.024288765 5.39E-08 7.268054251 -0.31663643 VEYTLGEESEAPGQR ddPTM_HeLa_SAHA_4h_R1 2 VEYTLGEESEAPGQR 15 0 Q04637-9;Q04637;E7EX73;E9PGM1;Q04637-3;Q04637-8;E7EUU4;Q04637-7;Q04637-4;Q04637-5;Q04637-6;H7C0V6 Q04637-9 EIF4G1 Eukaryotic translation initiation factor 4 gamma 1 0 0 ; ; 205.02 7.22E-12 7798100 531.04 552.12 561.51 556.67 648.51 910.14 731.54 639.24 853.34 500.79 FALSE FALSE TRUE 586.8972237 570.0090503 638.0296586 567.4451528 598.8213039 832.5909517 649.2251939 622.8891664 847.4015375 522.3815077 1.123503062 1.091173868 1.22138638 1.086265774 1.146329445 1.593836955 1.242818102 1.192402788 1.622189004 1 9.028960016 -6.410444634 0.380198983 1.01683053 1.348769358 0 0.22505038 1.131380908 0.336615564 0.056768095 0.14737401 3.89E-07 6.410444634 0.331938828 VFASELNAGIIK ddPTM_HeLa_SAHA_4h_R1 1 VFASELNAGIIK 12 0 A0A6I8PL42;B4DER1;A0A6I8PIT3;A0A6I8PIV1;Q9P2J5;A0A6I8PLB3;A0A6I8PS05;A0A6I8PLB8;A0A6I8PRS0;Q9P2J5-2;Q9P2J5-3 A0A6I8PL42 LARS "Leucine--tRNA ligase, cytoplasmic" 0 0 125.74 0.0017608 321740 189.18 390.17 58.441 39.379 344.11 521.52 199.17 349.57 576.77 270.77 FALSE FALSE TRUE 209.0788204 402.811764 66.40503513 40.14123749 317.7443661 477.083562 176.7588674 340.6285056 572.7562106 282.4442198 0.740248183 1.426163949 0.235108494 0.142120938 1.124980948 1.689124891 0.625818675 1.206002749 2.027856017 1 8.141822166 -5.55772734 24.99966526 0.813260446 1.166898754 0.015789796 0.569455915 273.1409753 195944.9208 0.061493502 0.122987387 2.77E-06 5.55772734 0.353638308 VFCVEEEDS(ph)ESSLQK ddPTM_HeLa_SAHA_4h_R1 2 VFCVEEEDSESSLQK 15 0 Q14684-2;Q14684 Q14684-2 RRP1B Ribosomal RNA processing protein 1 homolog B 1 0 VFCVEEEDS(0.916)ES(0.081)S(0.004)LQK;VFCVEEEDS(0.985)ES(0.007)S(0.007)LQK ; 123.76 0.00062104 8331800 484.65 680.16 584.28 459.9 472.64 615.67 743.57 667.89 555.68 740.08 TRUE FALSE FALSE 535.6277107 702.1976303 663.9026356 468.8020295 436.4264253 563.2114523 659.9015466 650.8063409 551.8129776 771.9884707 0.69382864 0.909596007 0.859990351 0.607265584 0.565327647 0.729559409 0.854807516 0.843025985 0.714794325 1 9.592435491 -9.448085821 0.804591318 1.027497937 0.750321487 0 0.139011435 0.70522826 0.678300832 0.133488564 0.022582536 3.56E-10 9.448085821 -0.27717645 VFCVEEEDS(ph)ESSLQKR ddPTM_HeLa_SAHA_4h_R1 1 VFCVEEEDSESSLQKR 16 1 Q14684-2;Q14684 Q14684-2 RRP1B Ribosomal RNA processing protein 1 homolog B 1 0 VFCVEEEDS(0.961)ES(0.019)S(0.019)LQKR 66.261 0.015099 5718200 734.15 690.86 740.98 777.49 750.98 924.37 868.54 774.02 607.2 713.54 TRUE FALSE FALSE 811.3712654 713.2443173 841.9568955 792.5394432 693.4400746 845.6084756 770.8095933 754.2216892 602.9744458 744.3042014 1.090107061 0.958269906 1.131199977 1.064805817 0.93166218 1.136106009 1.035610966 1.013324509 0.810118289 1 9.539748569 VFDDES(ph)DEKEDEEYADEK ddPTM_HeLa_SAHA_4h_R1 1 VFDDESDEKEDEEYADEK 18 1 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 VFDDES(0.965)DEKEDEEY(0.035)ADEK 62.203 0.013292 39402000 632.85 1006.9 733.25 907.08 758.93 1229.8 520.64 677.9 1863.9 709.24 TRUE FALSE FALSE 699.4160666 1039.524221 833.1734914 924.6378451 700.7809474 1125.014121 462.056217 660.5602996 1850.928968 739.8188073 0.94538833 1.405106508 1.126185876 1.249816625 0.947233215 1.520661695 0.624553218 0.892867677 2.501867957 1 9.531028166 -3.051323319 10.86501593 1.034215961 1.052166716 0 0.527973837 0 0 0.031926138 0 0.000888539 3.051323319 0.017950755 VFDDES(ph)DEKEDEEYADEKGLEAADK ddPTM_HeLa_SAHA_4h_R1 1 VFDDESDEKEDEEYADEKGLEAADK 25 2 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 VFDDES(0.53)DEKEDEEY(0.47)ADEKGLEAADK 42.705 0.018184 28371000 735.22 1002.2 785.83 903.64 1047.6 1190.2 694.79 651.12 1086.9 625.97 TRUE FALSE FALSE 812.5538129 1034.671938 892.91882 921.1312589 967.3331143 1088.788264 616.6104006 634.4652932 1079.336174 652.9586301 1.244418521 1.58459034 1.367496774 1.410703858 1.481461565 1.667468985 0.944333028 0.971677628 1.652993198 1 9.350847779 -8.336418225 0.999957856 1.037027704 1.348044529 0 0.295683171 0.503525896 1.04454403 0.075713492 0.048897645 4.61E-09 8.336418225 0.311016825 VFDGIPPPYDK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 VFDGIPPPYDKK 12 1 Q8J015;M0QYS1;P40429;Q6NVV1 Q8J015 RPL13a;RPL13A;RPL13AP3 60S ribosomal protein L13a;Putative 60S ribosomal protein L13a protein RPL13AP3 0 1 ; VFDGIPPPYDK(1)K;VFDGIPPPYDK(1)K 135.8 0.0001741 1472070 655.05 1620.98 911.45 735.6 1642.06 1179.68 1630.96 1111.63 1440.14 465.48 FALSE TRUE FALSE 723.9511645 1673.500816 1035.657659 749.8386017 1516.245718 1079.164627 1447.440088 1083.196114 1430.117948 485.5491208 1.490994697 3.446614861 2.132961661 1.544310492 3.122744234 2.2225653 2.981037399 2.230868243 2.945362039 1 8.923473444 -7.449809131 6.865706749 1.213814106 2.50356306 0.011378215 0.75884885 0.132338376 10.41150014 0.088715016 0.100604591 3.55E-08 7.449809131 1.289748954 VFDK(ac)DGNGYISAAELR ddPTM_HeLa_SAHA_4h_R1 2 VFDKDGNGYISAAELR 16 1 P0DP25;P0DP24;P0DP23;E7EMB3;G3V361;A0A590UJI2;Q96HY3 P0DP25 CALM2;CALM1 0 1 ; VFDK(1)DGNGYISAAELR;VFDK(1)DGNGYISAAELR 208.47 2.01E-33 1707660 0 185 143.19 185.92 172.93 162.78 256.48 0 227.49 0 FALSE TRUE FALSE 0 190.9941214 162.7031875 189.5187504 159.6801408 148.9102282 227.6201954 0 225.9068786 0 0 VFDKDGNGY(ph)ISAAELR ddPTM_HeLa_SAHA_4h_R1 2 VFDKDGNGYISAAELR 16 1 P0DP25;P0DP24;P0DP23;E7EMB3;G3V361;A0A590UJI2;Q96HY3 P0DP25 CALM2;CALM1 1 0 VFDKDGNGY(0.984)IS(0.016)AAELR;VFDKDGNGY(0.952)IS(0.048)AAELR ; 161.49 5.36E-06 85665000 3282.4 4098.1 3022.9 2881.3 4950.8 4392.4 4956.3 2876.53 3195.99 4171.9 TRUE FALSE FALSE 3627.657892 4230.881129 3434.845069 2937.071728 4571.470774 4018.142809 4398.60408 2802.952528 3173.748845 4351.771026 0.833604955 0.972220529 0.789298207 0.674914124 1.050485135 0.923335071 1.010761838 0.644094671 0.729300514 1 12.08738693 -9.390411839 0.951067877 1.005517181 0.867503424 0 0.152632388 1.027742274 1.552476338 0.103206574 0.0225118 4.07E-10 9.390411839 -0.138013757 VFDKDGNGYISAAELR ddPTM_HeLa_SAHA_4h_R1 2 VFDKDGNGYISAAELR 16 1 P0DP25;P0DP24;P0DP23;E7EMB3;G3V361;A0A590UJI2;Q96HY3 P0DP25 CALM2;CALM1 0 0 ; ; 116.9 0.00043339 10116200 5647.3 5084.3 6303 5784.1 6674.5 4890.9 6219.1 4408.3 4086.4 5169.5 FALSE FALSE TRUE 6241.308925 5249.034656 7161.940015 5896.059619 6163.101252 4474.167805 5519.3105 4295.542069 4057.96241 5392.382444 1.157430689 0.973416613 1.328158767 1.093405314 1.142927327 0.829720045 1.0235384 0.796594476 0.752536092 1 12.39670711 -5.264607947 24.96727641 1.093124177 0.897309714 0.211330366 0.152152848 204.1594982 1608717.08 0.015679125 0.036482126 5.44E-06 5.264607947 -0.195814463 VFDKEGNGTVMGAELR ddPTM_HeLa_SAHA_4h_R1 1 VFDKEGNGTVMGAELR 16 1 P05976-2;P05976;P08590 P05976-2 MYL1;MYL3 "Myosin light chain 1/3, skeletal muscle isoform;Myosin light chain 3" 0 0 82.663 0.012675 2278000 947.57 1173.9 976.4 1116.8 1174.1 1167.4 1113.4 1324.9 859.93 1286.1 FALSE FALSE TRUE 1047.23976 1211.93513 1109.458707 1138.417279 1084.140712 1067.930952 988.1173017 1291.010976 853.9456771 1341.550065 0.780619216 0.903384198 0.826997617 0.848583522 0.808125421 0.796042563 0.736548957 0.96232784 0.63653657 1 10.38968518 -9.401398513 0.94828659 1.007957648 0.826061187 0 0.128040266 0.37003857 0.551939907 0.049122196 0.010506633 3.97E-10 9.401398513 -0.181896461 VFDLQFSTDS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 VFDLQFSTDSPR 12 0 C9J470;E9PHA2;Q15003;C9JZP1 C9J470 NCAPH Condensin complex subunit 2 1 0 VFDLQFSTDS(1)PR;VFDLQFS(0.001)T(0.001)DS(0.998)PR ; 198.81 2.97E-10 31868000 1820.47 2113.86 1867.44 1879.33 2558.1 2152.08 2579.2 1760.45 2185.37 1816.45 TRUE FALSE FALSE 2011.955387 2182.350451 2121.924998 1915.70715 2362.098931 1968.710677 2288.981628 1715.420238 2170.161832 1894.766049 1.061848975 1.151778317 1.119887597 1.011052077 1.246644108 1.03902573 1.208055015 0.905346726 1.145345534 1 10.88780401 -8.104517747 0.989956923 1.011185519 1.101902252 0 0.102514313 0.607162591 1.257761522 0.024502622 0.018234521 7.86E-09 8.104517747 0.090716733 VFDQQSS(ph)PMVTR ddPTM_HeLa_SAHA_4h_R1 1 VFDQQSSPMVTR 12 0 A0A0A0MTP6;O15357 A0A0A0MTP6 INPPL1 "Phosphatidylinositol 3,4,5-trisphosphate 5-phosphatase 2" 1 0 VFDQQS(0.08)S(0.92)PMVTR 142.39 0.00058468 5300300 797.94 710.29 677.28 610.52 985.15 837.16 737.61 654.37 648.22 866.42 TRUE FALSE FALSE 881.8709903 733.303862 769.5761913 622.3374974 909.6680198 765.8292583 654.6121815 637.6321629 643.7089842 903.7756064 0.975763214 0.811378241 0.851512462 0.688597361 1.006519775 0.847366595 0.724308309 0.705520439 0.712244256 1 9.819820808 -7.276644227 4.067911931 0.989689747 0.807603158 0 0.123188177 0.136586766 5.273650377 0.014862362 0.017440923 5.29E-08 7.276644227 -0.182086589 VFEGNRPTNSIVFTK ddPTM_HeLa_SAHA_4h_R1 2 VFEGNRPTNSIVFTK 15 1 A0A2U3TZU2;P06744-2;P06744;CON__Q3ZBD7 A0A2U3TZU2 GPI Glucose-6-phosphate isomerase 0 0 ; ; 113.65 0.00088627 4709000 1414.77 1176.76 1319.29 1907.73 1389.82 1875.8 1544.63 786.16 1608.18 1332.26 FALSE FALSE TRUE 1563.582 1214.887796 1499.075971 1944.656873 1283.332292 1715.971287 1370.824167 766.0511655 1596.988544 1389.700249 1.125121767 0.874208519 1.078704542 1.399335486 0.923459784 1.234777995 0.986417156 0.551234819 1.149160437 1 10.44055802 -4.284808498 3.778374377 1.073468554 0.509353576 0.5564135 0.144628113 0.129953684 3.527591874 0.018777446 0.195395924 5.19E-05 4.284808498 -0.564114978 VFGFSLITNK ddPTM_HeLa_SAHA_4h_R1 1 VFGFSLITNK 10 0 P00491 P00491 PNP Purine nucleoside phosphorylase 0 0 152.06 1.52E-05 262370 149.24 407.18 368.74 163.41 256.54 1336.9 275.09 1851.2 971.75 636.42 FALSE FALSE TRUE 164.9377479 420.3728992 418.9899669 166.5730368 236.8839606 1222.988599 244.1361492 1803.848985 964.9875126 663.8591808 0.248452914 0.633226008 0.631142837 0.250916221 0.356828628 1.842240997 0.367752915 2.717216296 1.453602723 1 9.374733436 -2.450318182 1.284710592 0.630653399 199.9999984 0.519278913 0.539249088 77.2871342 1.619390721 0.070171859 44032.81728 0.003545535 2.450318182 199.369345 VFGS(ph)LER ddPTM_HeLa_SAHA_4h_R1 1 VFGSLER 7 0 Q14680-3;Q14680-4;Q14680-5;Q14680-2;Q14680-8;Q14680-7;Q14680-6;Q14680 Q14680-3 MELK Maternal embryonic leucine zipper kinase 1 0 VFGS(1)LER 85.862 0.023476 88471000 3223.8 2550.7 2042.6 3042.2 2783 3038.5 2913.1 3404.7 2561.9 2619.7 TRUE FALSE FALSE 3562.894075 2633.344354 2320.954891 3101.08618 2569.767141 2779.602706 2585.310321 3317.612704 2544.071529 2732.648088 1.303824701 0.963660255 0.849342768 1.134828226 0.940394467 1.017182827 0.946082422 1.214065111 0.930991276 1 11.41608397 -7.216272043 24.95887807 1.143472895 1.003249942 0 0.136333914 558.6409961 308697.9795 0.023611048 0.028917472 6.08E-08 7.216272043 -0.140222953 VFIDQNLS(ph)PGK ddPTM_HeLa_SAHA_4h_R1 1 VFIDQNLSPGK 11 0 F5H452;Q5JSB6;Q5JSB5;Q14186 F5H452 TFDP1 Transcription factor Dp-1 1 0 VFIDQNLS(1)PGK 91.093 0.014352 2953000 1527.3 1641 1219.2 1221.8 1725.5 1602.5 1435.9 1453.7 2682.8 1840.6 TRUE FALSE FALSE 1687.948422 1694.169477 1385.346227 1245.449706 1593.292563 1465.957985 1274.328753 1416.516459 2664.130176 1919.957274 0.879159367 0.882399572 0.72155055 0.648686157 0.829858344 0.763536775 0.663727662 0.737785407 1.387598679 1 10.90685849 -7.399186705 0.56352978 0.984821106 0.713405933 0.531876185 0.141148352 0.258458581 0.189492724 0.021725109 0.02304647 3.99E-08 7.399186705 -0.271415173 VFIGNLNTLVVK ddPTM_HeLa_SAHA_4h_R1 2 VFIGNLNTLVVK 12 0 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V576;G3V575;A0A0G2JPF8;G3V555;B7ZW38;P0DMR1;B4DSU6;G3V251;G3V3K6;G3V5X6;G3V4M8;G3V2H6;B4DY08;A0A0G2JNQ3;B2RXH8;O60812 P07910;B4DY08;A0A0G2JNQ3 HNRNPC;HNRNPCL3;HNRNPCL4;HNRNPCL2;HNRNPCL1 Heterogeneous nuclear ribonucleoproteins C1/C2;Heterogeneous nuclear ribonucleoprotein C-like 3;Heterogeneous nuclear ribonucleoprotein C-like 4;Heterogeneous nuclear ribonucleoprotein C-like 2;Heterogeneous nuclear ribonucleoprotein C-like 1 0 0 ; ; 254.24 4.93E-63 0 285.791 327.061 491.94 407.288 603.18 271.52 695.55 447.7 231.52 418.3 FALSE FALSE TRUE 315.8518086 337.657991 558.9790213 415.1716482 556.9644787 248.3849685 617.2848834 436.2484823 229.9088335 436.3349601 0.723874632 0.773850417 1.281077778 0.951497556 1.276460815 0.569252962 1.41470416 0.999801809 0.526909037 1 8.76929226 -6.782783885 24.99975998 0.858782361 1.076831924 0.252276545 0.251097686 307.3393596 359970.11 0.035923386 0.047237559 1.65E-07 6.782783885 0.218049563 VFIGNLNTLVVKK ddPTM_HeLa_SAHA_4h_R1 2 VFIGNLNTLVVKK 13 1 P07910;P07910-2;G3V2Q1;G3V4C1;P07910-4;P07910-3;B2R5W2;G3V4W0;G3V576;G3V575;A0A0G2JPF8;G3V555;B7ZW38;P0DMR1;B4DSU6;G3V251;G3V3K6;G3V5X6;G3V4M8;G3V2H6;B4DY08;A0A0G2JNQ3;B2RXH8;O60812 P07910;B4DY08;A0A0G2JNQ3 HNRNPC;HNRNPCL3;HNRNPCL4;HNRNPCL2;HNRNPCL1 Heterogeneous nuclear ribonucleoproteins C1/C2;Heterogeneous nuclear ribonucleoprotein C-like 3;Heterogeneous nuclear ribonucleoprotein C-like 4;Heterogeneous nuclear ribonucleoprotein C-like 2;Heterogeneous nuclear ribonucleoprotein C-like 1 0 0 ; ; 147.33 3.51E-05 1105370 332.61 361.652 705.2 697.37 358.671 320.96 606.85 421.35 287.97 520.532 FALSE FALSE TRUE 367.5954459 373.3697621 801.3009835 710.8686048 331.1897055 293.6124023 538.5656409 410.5724771 285.9659933 542.9746819 0.677002921 0.687637517 1.475761228 1.309211329 0.609954233 0.540747869 0.99187984 0.756153999 0.526665428 1 9.084741119 VFKS(ph)S(ph)KT(ph)SSCDK ddPTM_HeLa_SAHA_4h_R1 1 VFKSSKTSSCDK 12 2 H7C4F8;P42081-2;P42081-5;P42081-6;P42081-4;P42081-3;P42081 H7C4F8 CD86 T-lymphocyte activation antigen CD86 3 0 VFKS(1)S(0.998)KT(0.631)S(0.316)S(0.055)CDK 64.121 0.0083398 0 1083.4 1123.4 1020.4 1263.3 1325.2 1472.6 1224.9 1337.9 1684 1419.2 TRUE FALSE FALSE 1197.356983 1159.798897 1159.454798 1287.752998 1223.663462 1347.126195 1087.071028 1303.678455 1672.280907 1480.388657 0.808812589 0.783442167 0.783209728 0.869874943 0.826582571 0.909981435 0.734314616 0.880632561 1.129622886 1 10.53176027 -9.177126815 0.856201221 1.003508922 0.823076781 0.648892205 0.066250986 0.301594704 0.387247307 0.035020322 0.009264655 6.65E-10 9.177126815 -0.180432141 VFLENVIR ddPTM_HeLa_SAHA_4h_R1 2 VFLENVIR 8 0 P62805 P62805 HIST1H4A Histone H4 0 0 ; ; 107.9 0.0096191 2684400 1492.66 1255.96 1208.52 989.48 2281.08 1576.37 1527.98 529.17 1589.41 2017.95 FALSE FALSE TRUE 1649.664827 1296.653928 1373.210812 1008.632816 2106.304143 1442.054408 1356.047669 515.6345976 1578.349166 2104.9537 0.783705992 0.616001163 0.652371029 0.479171022 1.000641555 0.685076545 0.644217338 0.244962442 0.749826073 1 11.03957279 -9.323955055 0.071256489 1.817622432 3.23E-10 0.241781607 0.186000715 44.66929229 0.806720902 13.68683303 7.332223411 4.74E-10 9.323955055 -1.817622431 VFLQDGPARPAS(ph)PEAGNTLR ddPTM_HeLa_SAHA_4h_R1 1 VFLQDGPARPASPEAGNTLR 20 1 Q9UJX6-2;Q9UJX6 Q9UJX6-2 ANAPC2 Anaphase-promoting complex subunit 2 1 0 VFLQDGPARPAS(0.991)PEAGNT(0.009)LR 59.912 0.010696 7576500 1079.2 1023.7 605.29 958.1 1056.3 1386.5 1262.5 1011.5 1206.5 1218.7 TRUE FALSE FALSE 1192.715208 1056.868552 687.775769 976.6454109 975.3665222 1268.3624 1120.440177 985.6272946 1198.103868 1271.244121 0.938226724 0.831365537 0.541025722 0.76825953 0.767253516 0.997733149 0.881372947 0.775324958 0.942465612 1 10.31202539 -7.288353031 3.405194031 0.973069671 0.792696935 0.334728075 0.108279605 0.20838146 4.942866888 0.020185946 0.023610023 5.15E-08 7.288353031 -0.180372735 VFLQGPAPVGT(ph)PSFNR ddPTM_HeLa_SAHA_4h_R1 2 VFLQGPAPVGTPSFNR 16 0 Q8IWZ3;Q8IWZ3-4;Q8IWZ3-6;H0Y785;H0Y472;H0Y4P6;H7C0V5 Q8IWZ3 ANKHD1;ANKHD1-EIF4EBP3 Ankyrin repeat and KH domain-containing protein 1 1 0 VFLQGPAPVGT(0.993)PS(0.007)FNR;VFLQGPAPVGT(0.859)PS(0.141)FNR ; 120.54 0.00033672 0 628.82 551.62 464.03 510.358 692.56 653.83 488.7 604.6 657.91 650.95 TRUE FALSE FALSE 694.9621727 569.4928499 527.2655918 520.2367171 639.4962024 598.1200057 433.7101898 589.1352075 653.3315507 679.0156402 1.023484779 0.838703582 0.77651465 0.766163084 0.941798929 0.880863371 0.638733726 0.867631278 0.962174525 1 9.407300995 -7.213633433 4.777808339 1.011305026 0.811261575 0.523732087 0.078144221 0.104902991 5.464929387 0.012723113 0.015472187 6.11E-08 7.213633433 -0.20004345 VFQFLNAK ddPTM_HeLa_SAHA_4h_R1 2 VFQFLNAK 8 0 C9JXB8;C9JNW5;P83731 C9JXB8 RPL24 60S ribosomal protein L24 0 0 ; ; 120.49 0.0034254 1345450 801.28 806.13 2130 1037.53 1035.02 245.69 1347.38 60.987 48.959 369.75 FALSE FALSE TRUE 885.5623068 832.2491409 2420.265307 1057.612893 955.7169912 224.7558298 1195.769256 59.42704085 48.61829033 385.691732 2.296036532 2.157809131 6.275128831 2.742119692 2.477929683 0.582734373 3.1003238 0.154079115 0.12605479 1 8.591304409 -5.300047109 24.89324506 2.162743799 1.46117195 0.072529309 1.674262826 1600.030256 1031654.898 0.242439766 0.542120811 5.01E-06 5.300047109 -0.701571849 VFS(ph)LSEADSHGGHWV ddPTM_HeLa_SAHA_4h_R1 1 VFSLSEADSHGGHWV 15 0 H7BXG1 H7BXG1 CLEC16A 1 0 VFS(0.997)LS(0.003)EADSHGGHWV 193.98 2.18E-09 2009300 583.64 641.34 437.85 883.42 1117.7 875.89 1000 1115 907.01 945.26 TRUE FALSE FALSE 645.029933 662.1198368 497.5179178 900.5198715 1032.062067 801.2592444 887.4773681 1086.479915 900.6980436 986.0147846 0.654178764 0.671511064 0.504574501 0.913292463 1.046700398 0.812623966 0.900064971 1.101890085 0.913473163 1 9.945465469 -6.019437417 24.80806478 0.791148968 0.953532536 0.303257062 0.15072663 1024.089668 1307050.87 0.027948255 0.046819286 9.56E-07 6.019437417 0.162383568 VFSGLVSTGLK ddPTM_HeLa_SAHA_4h_R1 2 VFSGLVSTGLK 11 0 P13639 P13639 EEF2 Elongation factor 2 0 0 ; ; 211.79 1.19E-32 6977300 2333.1 2865.6 4093.9 3069.3 2692.1 1737.1 3374.6 1465.47 1238.62 1622.45 FALSE FALSE TRUE 2578.506163 2958.44732 4651.795372 3128.71074 2485.83188 1589.089307 2994.881127 1427.985399 1230.000343 1692.40176 1.523578044 1.748076249 2.748635391 1.84868086 1.468819012 0.938955126 1.76960412 0.843762653 0.726777986 1 10.72485638 -5.412747629 22.60696886 1.465651215 1.236184971 0.067599358 0.562630993 44.17966811 9019.99612 0.085793828 0.191840798 3.87E-06 5.412747629 -0.229466244 VFSIGPVFR ddPTM_HeLa_SAHA_4h_R1 1 VFSIGPVFR 9 0 P14868-2;P14868 P14868-2 DARS "Aspartate--tRNA ligase, cytoplasmic" 0 0 131.03 0.0019956 1775300 494.95 507.38 606.53 456.38 637.48 508.77 610.93 457.15 393.97 653.25 FALSE FALSE TRUE 547.0111119 523.8194449 689.1847497 465.2138948 588.6364201 465.4199337 542.1865485 445.4567649 391.2283307 681.4148044 0.802757892 0.768723311 1.011402666 0.682717622 0.863844484 0.683019991 0.795677677 0.653723345 0.574141225 1 9.412389482 -13.52287875 0.100400772 1.729634619 0.617870759 0 0.158885939 71.91801387 0.538600137 11.04788702 0.725893702 3.00E-14 13.52287875 -1.11176386 VFSWGFGGYGR ddPTM_HeLa_SAHA_4h_R1 2 VFSWGFGGYGR 11 0 Q9P258 Q9P258 RCC2 Protein RCC2 0 0 ; ; 134.77 0.00074791 3202100 494.27 636.56 568.66 305.31 572.76 331.67 424.78 124.11 332.083 334.55 FALSE FALSE TRUE 546.2595864 657.1849617 646.1540233 311.2197165 528.8752525 303.4098501 376.9826364 120.9354459 329.7720074 348.9740877 1.565329936 1.883191288 1.851581668 0.891813253 1.515514392 0.869433751 1.08025968 0.346545632 0.944975627 1 8.446976106 -4.281929073 1.004753624 1.350871014 4.27E-11 0.422661491 0.35444758 1.561794049 1.234077192 0.05799568 2.250126882 5.22E-05 4.281929073 -1.350871014 VFVVHIPR ddPTM_HeLa_SAHA_4h_R1 2 VFVVHIPR 8 0 Q8N726 Q8N726 CDKN2A Tumor suppressor ARF 0 0 ; ; 119.89 0.00076155 2315100 1545.61 1582.44 1994.56 1853.4 2158.62 1437.87 1751.33 777.62 1003.65 1302.77 FALSE FALSE TRUE 1708.184351 1633.712094 2266.36825 1889.275237 1993.227002 1315.355387 1554.265739 757.7296064 996.6655179 1358.93879 1.256998743 1.202196969 1.667748589 1.390257788 1.466752599 0.967928354 1.143734913 0.55758921 0.733414577 1 10.40826476 -4.029623002 1.656474697 1.206068715 1.62E-16 0.372803337 0.252830577 1.549169206 2.516425212 0.033935127 3.567450013 9.34E-05 4.029623002 -1.206068715 VGAEDADGIDMAYR ddPTM_HeLa_SAHA_4h_R1 2 VGAEDADGIDMAYR 14 0 P49588;P49588-2 P49588 AARS "Alanine--tRNA ligase, cytoplasmic" 0 0 ; ; 175.74 7.45E-06 8914100 1417.28 1394.63 894.02 1227.45 1441.3 1535.34 1414.64 1298.89 1263.47 1070.02 FALSE FALSE TRUE 1566.356013 1439.816927 1015.85239 1251.20907 1330.867905 1404.520394 1255.460984 1265.666275 1254.677409 1116.153799 1.403351415 1.289980761 0.91013657 1.121000592 1.192369642 1.258357402 1.124810027 1.133953292 1.124107996 1 10.12432012 VGALDVPAS(ph)QFLGSATSPGPR ddPTM_HeLa_SAHA_4h_R1 1 VGALDVPASQFLGSATSPGPR 21 0 H3BMQ0;P49815;A0A2R8Y5F1;A0A2R8YGD6;A0A2R8Y7C8;A0A2R8YDR3;A0A2R8Y7X5;A0A2R8YDZ2;X5D2U8;A0A2R8YGU4;A0A2R8Y6C9;P49815-5;P49815-3;P49815-2;P49815-6;P49815-7;P49815-4 H3BMQ0 TSC2 Tuberin 1 0 VGALDVPAS(0.615)QFLGS(0.264)AT(0.094)S(0.027)PGPR 94.387 0.00046472 0 356.46 378 543.71 419.52 528.11 601.62 600.31 335.82 360 586.33 TRUE FALSE FALSE 393.9540983 390.247448 617.8039673 427.6404162 487.6463259 550.3585914 532.7615389 327.2302107 357.4947307 611.6095557 0.644126787 0.638066303 1.010128049 0.699204929 0.797316395 0.899852833 0.871081123 0.535031226 0.584514626 1 9.256467137 -9.514605591 1.284412399 0.999218106 0.758468874 0 0.184749267 0.442344985 1.313086845 0.092018694 0.02246985 3.06E-10 9.514605591 -0.240749232 VGDAIPAVEVFEGEPGNK ddPTM_HeLa_SAHA_4h_R1 1 VGDAIPAVEVFEGEPGNK 18 0 P30044-2;P30044-3;P30044 P30044-2 PRDX5 "Peroxiredoxin-5, mitochondrial" 0 0 150.26 0.00048607 2723900 2421.2 1317.9 1015.3 1806.6 1315.5 2179.9 1681.4 1898.1 2488.8 1750 FALSE FALSE TRUE 2675.872925 1360.600825 1153.659797 1841.569355 1214.706674 1994.160256 1492.204447 1849.54935 2471.480238 1825.451064 1.465869438 0.745350479 0.631986154 1.008829758 0.665428232 1.09242055 0.817444234 1.013201278 1.353901119 1 10.83403728 -7.247541953 24.93818777 1.219993905 0.851541955 0.522004111 0.181923433 578.4931325 1038075.692 0.035804507 0.043727784 5.66E-08 7.247541953 -0.36845195 VGDDVEFEVSSDRR ddPTM_HeLa_SAHA_4h_R1 3 VGDDVEFEVSSDRR 14 1 O75534-2;O75534;O75534-3;O75534-4;E9PLD4 O75534-2 CSDE1 Cold shock domain-containing protein E1 0 0 ;; ;; 196.02 7.20E-09 35291700 5565.68 5625.59 5601.83 6296.45 6068.97 7057.88 6858.96 5642.64 5860.16 6244.49 FALSE FALSE TRUE 6151.103759 5807.862807 6365.218219 6418.326895 5603.96683 6456.508917 6087.171769 5498.309439 5819.378669 6513.720524 0.944330316 0.891635247 0.977201616 0.985354971 0.86033271 0.991216755 0.934515343 0.844111966 0.893403186 1 12.66926611 -8.450875337 0.011908898 1.931941831 1.44E-06 0 0.055765314 1361.784313 6.64462488 554.7360045 522.8509532 3.54E-09 8.450875337 -1.931940394 VGDGDLS(ph)AEEIPENEVSLR ddPTM_HeLa_SAHA_4h_R1 3 VGDGDLSAEEIPENEVSLR 19 0 Q14684-2;Q14684 Q14684-2 RRP1B Ribosomal RNA processing protein 1 homolog B 1 0 VGDGDLS(1)AEEIPENEVSLR;VGDGDLS(1)AEEIPENEVSLR;VGDGDLS(1)AEEIPENEVSLR ;; 191.61 5.64E-14 110728600 2881.08 3397.34 2987.1 3461.23 3446.5 3858.75 3676.33 3389.83 3174.74 3054.15 TRUE FALSE FALSE 3184.125213 3507.416045 3394.166432 3528.227112 3182.429915 3529.962791 3262.659673 3303.123057 3152.646726 3185.829353 0.999465088 1.100942849 1.065394927 1.107475235 0.99893295 1.108020048 1.02411627 1.036817322 0.989584305 1 11.63745328 -7.286851592 23.91293263 0.999747395 1.062655315 0.440117593 0.034434078 283.5346754 266805.6048 0.0054152 0.006194374 5.17E-08 7.286851592 0.06290792 VGDGDLS(ph)AEEIPENEVSLRR ddPTM_HeLa_SAHA_4h_R1 3 VGDGDLSAEEIPENEVSLRR 20 1 Q14684-2;Q14684 Q14684-2 RRP1B Ribosomal RNA processing protein 1 homolog B 1 0 VGDGDLS(1)AEEIPENEVSLRR;VGDGDLS(1)AEEIPENEVSLRR;VGDGDLS(1)AEEIPENEVSLRR ;; 138.77 2.44E-05 148770000 2291.07 1921.75 2380.49 2124.45 2509.87 2892.54 2977.74 2353.96 1808.29 2034.07 TRUE FALSE FALSE 2532.055254 1984.015961 2704.89078 2165.571802 2317.564303 2646.079319 2642.676858 2293.749112 1795.705963 2121.768712 1.19337006 0.935076453 1.27482829 1.020644611 1.092279422 1.24711016 1.245506564 1.081055206 0.846325027 1 11.05105169 -9.491516211 1.012832008 0.992496247 1.142236932 0.310560052 0.114439154 0.759233436 1.273709221 0.088615609 0.017579495 3.22E-10 9.491516211 0.149740685 VGDK(ac)VLLPEYGGTK ddPTM_HeLa_SAHA_4h_R1 1 VGDKVLLPEYGGTK 14 1 P61604;B8ZZL8;B8ZZ54 P61604 HSPE1 "10 kDa heat shock protein, mitochondrial" 0 1 VGDK(1)VLLPEYGGTK 143.93 0.00017062 1475000 1105.8 1031.5 958.14 788.9 1178.5 777.73 1267.1 746.91 796.39 878.27 FALSE TRUE FALSE 1222.113118 1064.921277 1088.710329 804.1703003 1088.203585 711.4630286 1124.522573 727.8051237 790.8478571 916.1365178 1.333985813 1.162404572 1.188371283 0.877784353 1.187818151 0.776590622 1.227461793 0.794428679 0.863242368 1 9.839418787 -6.280484556 24.35448213 1.164238115 0.988006739 0.083127744 0.183998425 722.8566599 924368.9612 0.026301043 0.040219534 5.24E-07 6.280484556 -0.176231376 VGDPPQPLPEEPMEVQGAERAS(ph)PEPQR ddPTM_HeLa_SAHA_4h_R1 2 VGDPPQPLPEEPMEVQGAERASPEPQR 27 1 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6;P46379-5;A0A0G2JL47;H0Y710 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 1 0 VGDPPQPLPEEPMEVQGAERAS(1)PEPQR;VGDPPQPLPEEPMEVQGAERAS(1)PEPQR ; 104.32 6.30E-07 44099000 2504.6 2884.91 2508.5 2662.8 3377.8 3949.2 3098.8 2921.4 3885.2 2948.2 TRUE FALSE FALSE 2768.04532 2978.382977 2850.345316 2714.342344 3118.993694 3612.705942 2750.114868 2846.674818 3858.162577 3075.31133 0.90008621 0.968481775 0.926847727 0.882623596 1.014204209 1.174744783 0.894255759 0.92565419 1.254559998 1 11.58651675 -5.702365142 24.99991121 0.946473464 1.006827166 0 0.123447426 134.8810805 57079.79865 0.011648011 0.023296017 1.98E-06 5.702365142 0.060353701 VGDSTPVSEKPVSAAVDANASES(ph)P ddPTM_HeLa_SAHA_4h_R1 4 VGDSTPVSEKPVSAAVDANASESP 24 1 Q9H8Y8-2;Q9H8Y8;Q9H8Y8-3 Q9H8Y8-2 GORASP2 Golgi reassembly-stacking protein 2 1 0 VGDSTPVSEKPVSAAVDANAS(0.008)ES(0.992)P;VGDSTPVSEKPVSAAVDANAS(0.005)ES(0.995)P;VGDSTPVSEKPVSAAVDANAS(0.004)ES(0.996)P;VGDSTPVSEKPVSAAVDANAS(0.008)ES(0.992)P ;;; 136.26 3.07E-07 154781200 10627.09 11306.8 8454.9 10146.3 11949.9 12248.8 11869.4 10523.8 11155.3 10286.1 TRUE FALSE FALSE 11744.89609 11673.14774 9607.089741 10342.69631 11034.30124 11205.13333 10533.82387 10254.61643 11077.66936 10729.58411 1.094627337 1.087940373 0.895383236 0.963941957 1.028399715 1.04432131 0.981755096 0.95573289 1.032441635 1 13.38930654 -6.79441418 24.99993036 1.049177824 0.983046234 0.391973942 0.04569007 197.915792 150049.6853 0.008842889 0.011622231 1.61E-07 6.79441418 -0.066131589 VGDVT(ph)PQVK ddPTM_HeLa_SAHA_4h_R1 3 VGDVTPQVK 9 0 E7ETY2;Q13428-6;Q13428-7;H0Y8Y7;Q13428-5;Q13428;Q13428-3;Q13428-4;A0A6I8PRA0 E7ETY2;Q13428 TCOF1 Treacle protein 1 0 VGDVT(1)PQVK;VGDVT(1)PQVK;VGDVT(1)PQVK ;; 122.51 0.0056812 85512000 7785.8 7989.2 7025.4 8042.5 9903.5 9382.5 9025.4 9466.4 9785.6 8406.4 TRUE FALSE FALSE 8604.746167 8248.055322 7982.784925 8198.174217 9144.69597 8583.058215 8009.838238 9224.263195 9717.501213 8768.841044 0.981286595 0.940609515 0.910358038 0.934921066 1.042862554 0.978813297 0.913443202 1.051936413 1.108185354 1 13.09817046 -7.742860181 2.270903808 0.993554862 0.965467093 0.109216554 0.058512655 0.58638371 6.313927507 0.008964155 0.00889753 1.81E-08 7.742860181 -0.028087769 VGEDEDGS(ph)DEEVVHNEDIHFEPIVSLPEVEVK ddPTM_HeLa_SAHA_4h_R1 6 VGEDEDGSDEEVVHNEDIHFEPIVSLPEVEVK 32 0 P49792 P49792 RANBP2 E3 SUMO-protein ligase RanBP2 1 0 VGEDEDGS(0.999)DEEVVHNEDIHFEPIVS(0.001)LPEVEVK;VGEDEDGS(1)DEEVVHNEDIHFEPIVSLPEVEVK;VGEDEDGS(1)DEEVVHNEDIHFEPIVSLPEVEVK;VGEDEDGS(1)DEEVVHNEDIHFEPIVSLPEVEVK;VGEDEDGS(0.999)DEEVVHNEDIHFEPIVS(0.001)LPEVEVK;VGEDEDGS(1)DEEVVHNEDIHFEPIVSLPEVEVK ;;;;; 73.912 2.51E-05 354411000 14271.5 16946.5 16598.7 18103.5 19011.6 16430.1 19377.1 18332.5 18581.1 18100.6 TRUE FALSE FALSE 15772.64185 17495.57772 18860.68439 18453.91942 17554.93532 15030.16305 17196.73771 17863.5812 18451.79261 18881.00545 0.835370865 0.926623202 0.99892373 0.977380123 0.929766975 0.796046751 0.910795654 0.946113873 0.97726748 1 14.20464797 -6.397511324 0.008647252 1.823187702 1.92E-06 0.090472797 0.061561014 6042.187621 23.17068067 2394.830878 2489.42929 4.00E-07 6.397511324 -1.823185785 VGEEEHVY(ph)SFPNK ddPTM_HeLa_SAHA_4h_R1 4 VGEEEHVYSFPNK 13 0 A0A1B0GTU4;F5GZ78;P49023;P49023-2;P49023-3;A0A1B0GU60;F5H836 A0A1B0GTU4 PXN Paxillin 1 0 VGEEEHVY(0.804)S(0.196)FPNK;VGEEEHVY(0.996)S(0.004)FPNK;VGEEEHVY(0.844)S(0.156)FPNK;VGEEEHVY(0.755)S(0.245)FPNK ;;; 155 0.00025264 52926000 9064.9 7860.33 6399.59 13563 13651.2 11417.9 10525.8 15140.2 14006 7713.3 TRUE FALSE FALSE 10018.38777 8115.009849 7271.692798 13825.53148 12605.24801 10445.03068 9341.409282 14752.93561 13908.53111 8045.858111 1.245160881 1.0085947 0.903780889 1.718341448 1.566675404 1.298187284 1.161020882 1.833606236 1.728657269 1 12.97403058 -6.265084027 24.99523488 1.094514031 1.486632073 0.236569088 0.282762746 216.1668973 1482487.086 0.031669379 0.049554531 5.43E-07 6.265084027 0.392118043 VGEEEHVYS(ph)FPNK ddPTM_HeLa_SAHA_4h_R1 1 VGEEEHVYSFPNK 13 0 A0A1B0GTU4;F5GZ78;P49023;P49023-2;P49023-3;A0A1B0GU60;F5H836 A0A1B0GTU4 PXN Paxillin 1 0 VGEEEHVY(0.018)S(0.982)FPNK 177.21 1.23E-05 15496000 1109.5 888.04 501.27 1203.5 1701.9 1102.2 1066.7 1306.9 1262.1 631.32 TRUE FALSE FALSE 1226.202301 916.8130787 569.5804651 1226.795483 1571.50079 1008.286359 946.6721086 1273.47139 1253.316943 658.5392948 1.86200324 1.39219191 0.864914925 1.862903994 2.386343233 1.531095209 1.437533213 1.933781933 1.903177158 1 9.363125718 VGEFCHNR ddPTM_HeLa_SAHA_4h_R1 4 VGEFCHNR 8 0 P22314-2;P22314;Q5JRR9;Q5JRS0;Q5JRS2 P22314-2 UBA1 Ubiquitin-like modifier-activating enzyme 1 0 0 ;;; ;;; 180.93 3.78E-07 29430500 20100.3 18447.9 21369.6 22742.9 22447.9 19506.6 23514.6 13851.5 12610 17213.5 FALSE FALSE TRUE 22214.54178 19045.62406 24281.7378 23183.12172 20727.94675 17844.52794 20868.67532 13497.19869 12522.24598 17955.65823 1.237188941 1.060703196 1.352316774 1.291131822 1.154396374 0.993810849 1.162233935 0.751696124 0.697398326 1 14.13215092 -3.842961643 1.846764966 1.138649809 5.67E-13 0.232947541 0.180155132 2.877356611 3.492085359 0.018979861 8.351780405 0.000143562 3.842961643 -1.138649809 VGEFSGANK ddPTM_HeLa_SAHA_4h_R1 3 VGEFSGANK 9 0 P10599;P10599-2 P10599 TXN Thioredoxin 0 0 ;; ;; 167.23 1.27E-10 91048900 7004.2 7570.2 7567.8 7361.9 8233.7 7956.7 8846.4 7198.5 6981 7273.6 FALSE FALSE TRUE 7740.933892 7815.479447 8599.100373 7504.40022 7602.835685 7278.744397 7850.97979 7014.372793 6932.418653 7587.200492 1.020262203 1.030087376 1.133369335 0.989086848 1.002060733 0.959345203 1.034766354 0.924500783 0.913699152 1 12.88935195 -6.033099088 24.99898232 1.021905069 0.984204829 0.099080706 0.056338406 971.3097367 733606.2691 0.006801659 0.011283987 9.27E-07 6.033099088 -0.03770024 VGEFSGANK(ac)EK ddPTM_HeLa_SAHA_4h_R1 2 VGEFSGANKEK 11 1 P10599;P10599-2 P10599 TXN Thioredoxin 0 1 ; VGEFSGANK(1)EK;VGEFSGANK(1)EK 136.96 0.00029888 4242900 1445.91 2291.6 2272.21 2028.87 2819 2219.76 3626.6 2832.2 1674.43 816.92 FALSE TRUE FALSE 1597.997448 2365.849344 2581.854946 2068.141713 2603.008829 2030.62396 3218.525423 2759.756425 1662.777505 852.1414191 1.875272592 2.776357645 3.029843272 2.426993532 3.054667653 2.382965919 3.776985077 3.238613173 1.951292905 1 9.734949066 -7.524286813 0.355832262 0.828294864 3.388080488 0.607782102 0.475929533 0.339483064 0.127838675 0.311559588 0.280728284 2.99E-08 7.524286813 2.559785624 VGEPVALSEEER ddPTM_HeLa_SAHA_4h_R1 1 VGEPVALSEEER 12 0 E9PPJ0;Q13435;E9PJ04;H0YCG1;E9PIL8;E9PJT3 E9PPJ0 SF3B2 Splicing factor 3B subunit 2 0 0 132.25 0.005771 1947200 371.16 521.38 474.47 321.98 639.71 694.13 576.28 527.52 806.56 714.84 FALSE FALSE TRUE 410.2003117 538.2730541 539.1283007 328.2123885 590.695558 634.9862189 511.4354577 514.0268022 800.9470833 745.6602507 0.550116908 0.721874411 0.723021376 0.44016345 0.792177882 0.851575792 0.685882689 0.689357924 1.074144803 1 9.542374627 -9.452446551 1.156883556 1.002021141 0.67287232 0.601204743 0.113818668 0.31134646 0.738037105 0.082765783 0.020033994 3.53E-10 9.452446551 -0.329148821 VGEVIVTK ddPTM_HeLa_SAHA_4h_R1 2 VGEVIVTK 8 0 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ; ; 124.98 0.0019028 7766000 4536.8 8163.2 5231.7 4965.3 7247.8 6582.6 7978.6 5504.4 8832.9 6823.3 FALSE FALSE TRUE 5014.00144 8427.693036 5944.64883 5061.410561 6692.47513 6021.725447 7080.826929 5363.605418 8771.43113 7117.485855 0.704462438 1.184082864 0.835217512 0.711123375 0.940286397 0.846046704 0.994849456 0.753581465 1.23237774 1 12.79715201 VGFQYEGTYK ddPTM_HeLa_SAHA_4h_R1 2 VGFQYEGTYK 10 0 P11413-3;P11413;P11413-2 P11413-3 G6PD Glucose-6-phosphate 1-dehydrogenase 0 0 ; ; 163.94 1.15E-07 5035700 1632.56 1760.26 1794.89 1525.32 1647.2 1474.63 2220.3 1434.53 1544.28 1491.68 FALSE FALSE TRUE 1804.280151 1817.293579 2039.488262 1554.844774 1520.991892 1348.983228 1970.466 1397.8368 1533.53323 1555.993625 1.15956783 1.16793125 1.310730474 0.999261661 0.977505221 0.866959354 1.266371513 0.89835638 0.98556524 1 10.60362043 VGGS(ph)DEEASGIPSR ddPTM_HeLa_SAHA_4h_R1 6 VGGSDEEASGIPSR 14 0 H7C446;A8MV53;A0A0A6YYI3;A0A0B4J1V8;Q9NQ55-2;Q9NQ55;Q9NQ55-3 H7C446 PPAN;PPAN-P2RY11 Suppressor of SWI4 1 homolog 1 0 VGGS(1)DEEASGIPSR;VGGS(0.998)DEEAS(0.002)GIPSR;VGGS(1)DEEASGIPSR;VGGS(0.891)DEEAS(0.106)GIPS(0.003)R;VGGS(1)DEEASGIPSR;VGGS(1)DEEASGIPSR ;;;;; 174.47 1.42E-06 101550100 3529.26 3384.09 3060.91 3660.21 4098.48 3655.75 3987.03 3701.21 4088.2 3224.94 TRUE FALSE FALSE 3900.48376 3493.736736 3478.034874 3731.058657 3784.455348 3344.259533 3538.398891 3606.538407 4059.749883 3363.982946 1.159483809 1.038571477 1.033903837 1.109119373 1.12499243 0.994136887 1.051848047 1.072103654 1.206828319 1 11.71595468 -5.259366211 24.99872916 1.076385857 1.040611385 0.092231787 0.063009477 446.548143 5384512.285 0.009241299 0.022283452 5.50E-06 5.259366211 -0.035774472 VGGS(ph)SVDLHR ddPTM_HeLa_SAHA_4h_R1 3 VGGSSVDLHR 10 0 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-8;O60716-9;O60716-17;O60716-7;O60716-4;O60716-6;A0A669KB62;O60716-11;O60716-13;O60716-19;O60716-21;O60716-20;O60716-22;O60716-23;O60716-14;O60716-24;O60716-16;O60716-15;O60716-12 O60716 CTNND1 Catenin delta-1 1 0 VGGS(0.5)S(0.5)VDLHR;VGGS(0.948)S(0.052)VDLHR;VGGS(0.947)S(0.053)VDLHR ;; 123.26 0.002039 79719000 10306.7 12475.1 8943.8 13041.6 16207.7 12976.7 13383.9 16588.1 12759.8 12721.9 TRUE FALSE FALSE 11390.80599 12879.30143 10162.61449 13294.03903 14965.86953 11871.01216 11877.90835 16163.80042 12671.00351 13270.40337 0.8583617 0.970528255 0.765810519 1.001781081 1.127762971 0.894547952 0.895067619 1.218033844 0.954831828 1 13.6959246 -6.025568862 24.83853441 0.921687973 1.020337322 0.220346645 0.10957386 988.3614634 960129.6286 0.016668749 0.027714365 9.43E-07 6.025568862 0.098649349 VGGSS(ph)VDLHR ddPTM_HeLa_SAHA_4h_R1 2 VGGSSVDLHR 10 0 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-18;O60716-10;O60716-8;O60716-9;O60716-17;O60716-7;O60716-4;O60716-6;A0A669KB62;O60716-11;O60716-13;O60716-19;O60716-21;O60716-20;O60716-22;O60716-23;O60716-14;O60716-24;O60716-16;O60716-15;O60716-12 O60716 CTNND1 Catenin delta-1 1 0 VGGS(0.196)S(0.804)VDLHR;VGGS(0.25)S(0.75)VDLHR ; 138.63 0.00093797 64955000 6302.2 7921.3 5895.7 8272.1 10619.8 8584 8822.3 11580.8 7488.5 8717.5 TRUE FALSE FALSE 6965.094312 8177.955317 6699.135293 8432.218457 9806.113218 7852.594908 7829.591585 11284.5799 7436.386919 9093.354087 0.765954371 0.89933321 0.736706745 0.927294635 1.078382423 0.863553188 0.861023502 1.240970031 0.817782619 1 13.15059682 -5.996387923 24.87273062 0.875187676 0.991377589 0.265762222 0.124001145 158.9878047 1094766.279 0.019900241 0.035950464 1.01E-06 5.996387923 0.116189913 VGGTSDVEVNEK ddPTM_HeLa_SAHA_4h_R1 5 VGGTSDVEVNEK 12 0 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ;;;; ;;;; 205.52 6.95E-11 59464000 6930.38 8951.35 7281.23 6786.99 8989.84 9567.25 9720.95 8583.08 8248.03 7097.88 FALSE FALSE TRUE 7659.349166 9241.379613 8273.478105 6918.362006 8301.040401 8752.066476 8627.123122 8363.537242 8190.631288 7403.904343 1.034501367 1.248176528 1.117448001 0.934420771 1.121170671 1.182088 1.165212666 1.129611736 1.106258389 1 12.85407054 -7.101423971 0.204585392 0.953137919 1.198911596 0.000726633 0.087244508 2.765752707 0.48977651 0.217714923 0.27091964 7.92E-08 7.101423971 0.245773676 VGGTSDVEVNEK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 VGGTSDVEVNEKK 13 1 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 1 ; VGGTSDVEVNEK(1)K;VGGTSDVEVNEK(1)K 263.07 8.18E-84 7526800 1037.41 4459.6 1783.49 1392.75 3228 2710.7 4046.5 2555.23 2623.76 1140.68 FALSE TRUE FALSE 1146.529544 4604.093966 2026.534729 1419.70869 2980.671337 2479.73311 3591.17717 2489.870917 2605.501041 1189.860297 0.963583327 3.869440788 1.703170308 1.193172588 2.505059917 2.084053999 3.018150264 2.092574164 2.189753744 1 10.21657648 -7.40759805 21.27005378 0.982552294 2.311972661 0.193190966 0.783729032 4.345531821 790.6938682 0.112273264 0.128388107 3.91E-08 7.40759805 1.329420367 VGIDT(ph)PDIDIHGPEGK ddPTM_HeLa_SAHA_4h_R1 4 VGIDTPDIDIHGPEGK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VGIDT(1)PDIDIHGPEGK;VGIDT(1)PDIDIHGPEGK;VGIDT(1)PDIDIHGPEGK;VGIDT(1)PDIDIHGPEGK ;;; 208.59 1.15E-15 278732000 15374.1 23843.5 19372.7 9794 18959.6 19502.7 20635.6 9830.6 13817.2 21183.2 TRUE FALSE FALSE 16991.21838 24616.04504 22012.71067 9983.577032 17506.91954 17840.96024 18313.62798 9579.147487 13721.04498 22096.51142 0.768954794 1.114024046 0.996207512 0.451816888 0.792293372 0.807410722 0.828801779 0.43351402 0.620959785 1 14.431531 -6.290175794 24.93735492 0.915588754 0.687223059 0.294787043 0.180727071 631.951624 548404.008 0.025326803 0.038691303 5.13E-07 6.290175794 -0.228365695 VGINYQPPTVVPGGDLAK ddPTM_HeLa_SAHA_4h_R1 4 VGINYQPPTVVPGGDLAK 18 0 Q9BQE3;F5H5D3;P0DPH7;P0DPH8;A0A1W2PQM2;P0DPH7-2;Q6PEY2;Q9NY65;C9J2C0;Q9NY65-2;V9GZ17;P68363;P68363-2;P68366-2;P68366 Q9BQE3;P68363;P68366-2 TUBA1C;TUBA3E;TUBA8;TUBA1B;TUBA4A Tubulin alpha-1C chain;Tubulin alpha-3E chain;Tubulin alpha-8 chain;Tubulin alpha-1B chain;Tubulin alpha-4A chain 0 0 ;;; ;;; 311.26 7.20E-139 40249700 12149.5 11011.3 10893 11062.5 11170.7 12332.4 11501.1 12060.3 11421.8 11686.3 FALSE FALSE TRUE 13427.44015 11368.07334 12377.44131 11276.63068 10314.80338 11281.61014 10206.96596 11751.81499 11342.31476 12190.15358 1.10149885 0.932561946 1.015363853 0.925060591 0.846158607 0.925469073 0.837312335 0.964041586 0.930448881 1 13.57342868 -6.486506041 1.307076283 1.044556639 0.890728272 0.27098361 0.063473313 0.2195007 0.747306676 0.009871482 0.016930235 3.26E-07 6.486506041 -0.153828367 VGK(ac)FPFAANSR ddPTM_HeLa_SAHA_4h_R1 2 VGKFPFAANSR 11 1 E9PEX6;P09622-2;P09622-3;P09622 E9PEX6 DLD "Dihydrolipoyl dehydrogenase;Dihydrolipoyl dehydrogenase, mitochondrial" 0 1 ; VGK(1)FPFAANSR;VGK(1)FPFAANSR 129.89 0.00077033 4462800 561.19 857.73 850.95 356.87 900.84 449.18 845 342.44 196.43 378.19 FALSE TRUE FALSE 620.218539 885.5210148 966.9130344 363.7777349 831.8178338 410.907337 749.9183761 333.6808806 195.0630276 394.4956217 1.572181046 2.244691616 2.451010813 0.92213377 2.108560369 1.041601768 1.900954877 0.845841784 0.494461832 1 8.623865478 -4.2280183 22.34505942 1.467901921 0.845836793 0.091668907 0.618455352 6612.424622 4420692.964 0.078314129 13.30594556 5.92E-05 4.2280183 -0.622065128 VGLQVVAVK ddPTM_HeLa_SAHA_4h_R1 2 VGLQVVAVK 9 0 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 ; ; 166.96 1.26E-08 40019000 7278.9 11737.8 10136.3 6786.4 10641.8 7908.9 11631.2 6692.1 8095.1 9164.8 FALSE FALSE TRUE 8044.528099 12118.11242 11517.62218 6917.760585 9826.427583 7235.017226 10322.42676 6520.925772 8038.76554 9559.939379 0.84148317 1.267593019 1.204779834 0.723619713 1.027875512 0.756805764 1.0797586 0.682109532 0.840880389 1 13.22278575 -5.276992908 24.62301258 0.961813341 0.863578011 0.105100643 0.183101577 1581.454885 2503622.966 0.025885583 0.058077275 5.28E-06 5.276992908 -0.09823533 VGLVEDSPSTAGDGDDSPVVSLTVPSTS(ph)PPSSSGLSR ddPTM_HeLa_SAHA_4h_R1 3 VGLVEDSPSTAGDGDDSPVVSLTVPSTSPPSSSGLSR 37 0 Q6VY07-2;Q6VY07;B4DF77 Q6VY07-2 PACS1 Phosphofurin acidic cluster sorting protein 1 1 0 VGLVEDSPSTAGDGDDS(0.001)PVVSLT(0.017)VPS(0.041)T(0.111)S(0.82)PPS(0.006)S(0.002)S(0.002)GLSR;VGLVEDSPSTAGDGDDSPVVSLTVPS(0.012)T(0.105)S(0.875)PPS(0.006)S(0.001)SGLSR;VGLVEDSPSTAGDGDDSPVVS(0.003)LT(0.012)VPS(0.065)T(0.247)S(0.584)PPS(0.044)S(0.015)S(0.015)GLS(0.015)R ;; 165.5 1.62E-22 6924400 3196.34 3564.42 2906.19 3405.51 4180.48 3963.47 4036.17 3822.09 3047.52 3173.84 TRUE FALSE FALSE 3532.545707 3679.909547 3302.230438 3471.428571 3860.172526 3625.760058 3582.009529 3724.326472 3026.31206 3310.679775 1.067015219 1.111526876 0.997447855 1.048554619 1.165975808 1.095170873 1.081955904 1.124943131 0.914105944 1 11.69291176 -13.52287872 0.075247201 0.678889735 1.194577073 0.519112558 0.048441144 134.5007833 0.781399375 7.339859274 0.920491823 3.00E-14 13.52287872 0.515687338 VGMKEY(ph)ELER ddPTM_HeLa_SAHA_4h_R1 1 VGMKEYELER 10 1 A0A494C194 A0A494C194 1 0 VGMKEY(1)ELER 66.435 0.017219 5280800 1442.1 1049.6 1043.8 1212.6 1580 1500.9 1441.3 1533.6 1003 1258.2 TRUE FALSE FALSE 1593.786695 1083.607729 1186.043628 1236.071626 1458.940741 1373.014876 1279.121131 1494.372733 996.0200413 1312.447159 1.214362562 0.825639128 0.90368867 0.941806775 1.111618651 1.04614869 0.974607718 1.138615541 0.758902965 1 10.35804362 -7.280238272 24.9949339 1.101226757 0.992470983 0 0.147400471 1136.808544 1511493.007 0.020253526 0.023180648 5.25E-08 7.280238272 -0.108755774 VGMVETNS(ph)QDRPVDDVK ddPTM_HeLa_SAHA_4h_R1 1 VGMVETNSQDRPVDDVK 17 1 Q9Y3C6 Q9Y3C6 PPIL1 Peptidyl-prolyl cis-trans isomerase-like 1 1 0 VGMVET(0.104)NS(0.896)QDRPVDDVK 72.383 0.0096059 6546500 1177.4 1301.1 1085.1 1364.1 1314.4 1896.4 1669.6 1648.8 1768.7 1350 TRUE FALSE FALSE 1301.244334 1343.256494 1232.971777 1390.504128 1213.690956 1734.816051 1481.732214 1606.626083 1756.391473 1408.205107 0.924044607 0.953878442 0.875562637 0.987430113 0.861870867 1.231934214 1.052213351 1.140903463 1.247255435 1 10.45964176 -5.263247694 24.99985582 0.951651929 1.132736643 0.292956882 0.110456898 70.66765178 976984.4716 0.008304828 0.019504215 5.45E-06 5.263247694 0.181084714 VGNES(ph)PVQELK ddPTM_HeLa_SAHA_4h_R1 4 VGNESPVQELK 11 0 Q5JSH3-2;Q5JSH3 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 VGNES(1)PVQELK;VGNES(1)PVQELK;VGNES(1)PVQELK;VGNES(1)PVQELK ;;; 225.72 3.12E-22 366396000 11052.1 16312.3 11109.5 13977.8 15693.3 17592.7 15027 12704.5 20989.4 12768.4 TRUE FALSE FALSE 12214.61059 16840.82922 12623.4448 14248.36053 14490.88274 16093.70299 13336.12241 12379.53729 20843.33306 13318.90821 0.917087977 1.264430159 0.947783753 1.069784423 1.087993289 1.208335002 1.001292463 0.929470876 1.564943066 1 13.7011882 VGNES(ph)PVQELKQDVSK ddPTM_HeLa_SAHA_4h_R1 2 VGNESPVQELKQDVSK 16 1 Q5JSH3-2;Q5JSH3 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 VGNES(1)PVQELKQDVSK;VGNES(1)PVQELKQDVSK ; 111.64 0.00099897 50682000 4091.4 3708.3 4074.1 3960.3 4621.5 4359.6 4543 4241.9 3089.2 4231 TRUE FALSE FALSE 4521.752224 3828.451353 4629.297131 4036.957333 4267.401668 3988.137554 4031.809683 4133.39834 3067.702006 4413.419116 1.0245463 0.867457011 1.048914007 0.91470065 0.966915119 0.903638981 0.913534287 0.936552417 0.695085131 1 12.10768104 -6.556913898 0.641374281 1.011416796 0.918925099 0 0.111246454 0.586364286 0.487626513 0.011157321 0.022757956 2.77E-07 6.556913898 -0.092491697 VGNLGLATSFFNER ddPTM_HeLa_SAHA_4h_R1 2 VGNLGLATSFFNER 14 0 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;F6S8Q4;A0A2R8YDT5;A0A2R8Y7T2;A0A0J9YVQ7;A0A087WVZ1 A0A2R8Y5G6 DDX3X ATP-dependent RNA helicase DDX3X 0 0 ; ; 179.67 2.49E-11 1150360 218.55 0 68.942 126.1 251.53 0 137.99 0 0 0 FALSE FALSE TRUE 241.5380917 0 78.33705673 128.5408478 232.2578257 0 122.463002 0 0 0 0 VGPCSS(ph)PPAAR ddPTM_HeLa_SAHA_4h_R1 3 VGPCSSPPAAR 11 0 Q8TDM6-4;Q8TDM6;A0A0J9YYG8;A0A0A0MSL1;Q8TDM6-2 Q8TDM6-4 DLG5 Disks large homolog 5 1 0 VGPCS(0.054)S(0.946)PPAAR;VGPCS(0.146)S(0.854)PPAAR;VGPCS(0.152)S(0.848)PPAAR ;; 105.13 0.0053596 47016000 6215.3 6431.9 6578.5 8280.7 7023.2 7317.7 7022.8 7866.4 6791.4 6058.3 TRUE FALSE FALSE 6869.053771 6640.29778 7474.983721 8440.984923 6485.083933 6694.190792 6232.576061 7665.188878 6744.138094 6319.502962 1.086961081 1.050762666 1.182843614 1.335703927 1.026201581 1.059290712 0.986244662 1.212941734 1.067194388 1 12.62559538 -8.361824292 0.738867117 1.007899955 1.119435987 0.102805174 0.098837822 0.837336249 0.971593793 0.043797323 0.023475508 4.35E-09 8.361824292 0.111536032 VGQAVDVVGQAGKPK ddPTM_HeLa_SAHA_4h_R1 1 VGQAVDVVGQAGKPK 15 1 Q13200;Q13200-2;Q13200-3 Q13200 PSMD2 26S proteasome non-ATPase regulatory subunit 2 0 0 100.18 0.0062152 952630 129.83 146.51 111.62 159.6 146.68 224.87 199.84 204.81 184.38 170.52 FALSE FALSE TRUE 143.4861151 151.2570201 126.8309923 162.6892888 135.4414101 205.7098109 177.3534772 199.5712568 183.0968846 177.8719517 0.806682075 0.850370273 0.713046611 0.914642737 0.761454568 1.156505053 0.997085125 1.121993967 1.029374687 1 7.474695222 -5.253868172 24.99953283 0.87917076 1.08238376 0.509410653 0.100148097 421.6840317 1392363.365 0.014902159 0.037194232 5.57E-06 5.253868172 0.203213 VGRPTASK(ac)ASK ddPTM_HeLa_SAHA_4h_R1 2 VGRPTASKASK 11 2 Q9H1E3;Q9H1E3-2 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 0 1 ; VGRPTASK(1)ASK;VGRPTASK(1)ASK 118.61 0.0016386 89012000 2552.2 3516.7 6096.8 8271.3 10023.1 7249.2 13383.2 5241.6 528.66 1405.85 FALSE TRUE FALSE 2820.652106 3630.643387 6927.640153 8431.402972 9255.132243 6631.527377 11877.28711 5107.527462 524.981012 1466.463074 1.92343889 2.475782345 4.724046775 5.74948195 6.311193517 4.522123671 8.099274593 3.482888559 0.357991293 1 10.51812503 -6.793706557 1.564163252 1.392857427 5.789406826 0.745024093 1.184075127 0.119554603 0.592563055 0.181058942 0.261263588 1.61E-07 6.793706557 4.396549399 VGS(ph)AQPSPPDDLDAGGLAQR ddPTM_HeLa_SAHA_4h_R1 1 VGSAQPSPPDDLDAGGLAQR 20 0 Q8N3D4;E9PIH6;H0YDZ9;A0A0U1RQH4 Q8N3D4 EHBP1L1 EH domain-binding protein 1-like protein 1 1 0 VGS(0.958)AQPS(0.042)PPDDLDAGGLAQR 191.61 3.02E-14 4291400 1798.5 1914.8 1499.4 1850.7 1833.2 2168.8 1914.2 2072.2 2108.4 1947.3 TRUE FALSE FALSE 1987.674482 1976.840776 1703.730423 1886.522975 1692.740612 1984.006039 1698.809178 2019.196125 2093.727473 2031.257633 0.97854376 0.973210264 0.838756441 0.928746282 0.833346093 0.976737764 0.836333683 0.994062049 1.030754267 1 10.98815752 -6.917489937 8.005165528 0.989143963 0.900057474 0.418251125 0.054569135 0.169025295 14.42432056 0.00748833 0.009853485 1.21E-07 6.917489937 -0.089086489 VGS(ph)DPVLMR ddPTM_HeLa_SAHA_4h_R1 1 VGSDPVLMR 9 0 A0A2R8Y8D8;A0A2R8Y5E1;A0A2R8YFD4;Q13191-3;Q13191-2;Q13191;A0A2R8Y582 A0A2R8Y8D8 CBLB E3 ubiquitin-protein ligase CBL-B 1 0 VGS(1)DPVLMR 131.09 0.0019126 4527600 2344.1 2770.2 2486.6 2905.1 2554.2 6881.7 2450.8 3108.1 2436.1 2582.6 TRUE FALSE FALSE 2590.663193 2859.956298 2825.460898 2961.332411 2358.497748 6295.340445 2175.029534 3028.599302 2419.146982 2693.948525 0.961660243 1.061622474 1.048817701 1.099253525 0.875479886 2.336845113 0.807376056 1.124223152 0.897993024 1 11.39550657 VGS(ph)LDNVGHLPAGGAVK ddPTM_HeLa_SAHA_4h_R1 8 VGSLDNVGHLPAGGAVK 17 0 E7EVA0;P27816;P27816-6;P27816-2;P27816-4;P27816-5;H0Y2V1;H7C4C5;F8W9U4 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 VGS(1)LDNVGHLPAGGAVK;VGS(1)LDNVGHLPAGGAVK;VGS(1)LDNVGHLPAGGAVK;VGS(1)LDNVGHLPAGGAVK;VGS(1)LDNVGHLPAGGAVK;VGS(1)LDNVGHLPAGGAVK;VGS(1)LDNVGHLPAGGAVK;VGS(1)LDNVGHLPAGGAVK ;;;;;;; 169.72 6.15E-07 221995100 33626.92 29865.01 26730.03 34282.27 31998.24 31617.94 32137.79 36802.67 33369.72 31013.27 TRUE FALSE FALSE 37163.95373 30832.65592 30372.65928 34945.85291 29546.54176 28923.91363 28521.56129 35861.31099 33137.4974 32350.40384 1.14879412 0.953084112 0.938864919 1.080229263 0.913328375 0.894081996 0.881644675 1.10852746 1.024330254 1 14.9814961 -7.234324949 24.41336038 1.070263893 0.962208896 0.209291933 0.079184103 568.6049437 511962.1863 0.014347072 0.017569095 5.83E-08 7.234324949 -0.108054997 VGS(ph)PATVTFQQNK ddPTM_HeLa_SAHA_4h_R1 1 VGSPATVTFQQNK 13 0 E7ETD6;E9PE19;A0A2R8Y7Q1;Q12830-4;Q12830;F5GXF5;Q12830-2;J3QQK4 E7ETD6 BPTF Nucleosome-remodeling factor subunit BPTF 1 0 VGS(0.998)PAT(0.002)VTFQQNK 124.47 0.00097107 4644100 637.6 767.5 481.87 733.2 860.1 589.69 642.12 891.17 632.32 642.52 TRUE FALSE FALSE 704.6656934 792.3675036 547.5367341 747.3921462 794.1993238 539.4450945 569.8669676 868.3751618 627.9196336 670.2221816 1.051391185 1.182246015 0.816948094 1.115140869 1.184979169 0.804875024 0.850265753 1.295652674 0.936882799 1 9.388495624 -5.27082747 24.98828326 1.037256124 0.970264603 0.023965214 0.160230864 1885.704961 5019183.566 0.020988501 0.047519249 5.36E-06 5.27082747 -0.06699152 VGS(ph)PLDYSLVDLPSTNGQS(ph)PGK ddPTM_HeLa_SAHA_4h_R1 2 VGSPLDYSLVDLPSTNGQSPGK 22 0 Q96T23-3;Q96T23-2;Q96T23 Q96T23-3 RSF1 Remodeling and spacing factor 1 2 0 VGS(0.999)PLDYS(0.001)LVDLPSTNGQS(1)PGK;VGS(0.999)PLDYS(0.001)LVDLPSTNGQS(1)PGK ; 216.97 2.06E-29 11213500 2610.85 3851.4 2591.74 3183.4 3772 3573.6 3717 3081.41 4192.8 3521.8 TRUE FALSE FALSE 2885.471182 3976.187887 2944.92883 3245.01931 3482.990175 3269.109175 3298.753377 3002.591994 4163.621963 3673.642033 0.785452463 1.082355834 0.801637395 0.883324853 0.948102767 0.889882342 0.897951773 0.817333852 1.133377157 1 11.84299534 -9.672348866 1.530220821 0.999976591 0.876795788 0.316534896 0.092176427 0.469589626 1.980214908 0.05809252 0.012996198 2.13E-10 9.672348866 -0.123180803 VGS(ph)PLTLTDAQTR ddPTM_HeLa_SAHA_4h_R1 4 VGSPLTLTDAQTR 13 0 A0A0D9SF60;Q99569-2;Q99569 A0A0D9SF60 PKP4 Plakophilin-4 1 0 VGS(0.998)PLT(0.001)LTDAQTR;VGS(0.987)PLT(0.002)LT(0.011)DAQTR;VGS(0.999)PLTLT(0.001)DAQTR;VGS(0.945)PLT(0.038)LT(0.005)DAQT(0.011)R ;;; 127.3 0.00085392 75826000 3409.36 3912.16 3754.31 3738.05 3827.12 4230.77 4637.21 3777.49 4245.14 3559.88 TRUE FALSE FALSE 3767.972128 4038.916551 4265.927815 3810.405363 3533.886892 3870.284594 4115.418926 3680.867276 4215.597725 3713.363848 1.014705879 1.087670564 1.148804154 1.026133048 0.951667285 1.042258381 1.108272471 0.991248751 1.135250381 1 11.85851097 -7.447107479 8.185836264 1.006443491 1.051792891 0 0.067053787 0.518858374 51.47003476 0.00942339 0.010726402 3.57E-08 7.447107479 0.0453494 VGS(ph)PQPSSSGGEK ddPTM_HeLa_SAHA_4h_R1 3 VGSPQPSSSGGEK 13 0 V9GYB6;O94761 V9GYB6 RECQL4 ATP-dependent DNA helicase Q4 1 0 VGS(0.991)PQPS(0.006)S(0.002)S(0.001)GGEK;VGS(0.876)PQPS(0.097)S(0.026)S(0.002)GGEK;VGS(0.766)PQPS(0.178)S(0.052)S(0.005)GGEK ;; 161.49 5.60E-05 68611700 14472.5 12937 10085.3 13686.3 12844.6 15112.6 12494.7 13187.3 13529.8 16289.9 TRUE FALSE FALSE 15994.78395 13356.16729 11459.67216 13951.21813 11860.44952 13824.92146 11088.76347 12849.98796 13435.64502 16992.23731 0.941299469 0.786015817 0.674406316 0.821034798 0.697992225 0.813602188 0.65257819 0.75622696 0.790693113 1 14.0525882 -7.256654451 2.581768134 0.975984454 0.736664115 0.444844372 0.078239964 0.07827805 1.004053757 0.008718493 0.010348607 5.54E-08 7.256654451 -0.239320339 VGS(ph)PQPSSSGGEKR ddPTM_HeLa_SAHA_4h_R1 1 VGSPQPSSSGGEKR 14 1 V9GYB6;O94761 V9GYB6 RECQL4 ATP-dependent DNA helicase Q4 1 0 VGS(1)PQPSSSGGEKR 77.894 0.009912 3589500 1829.8 1729.3 1808.8 2017.4 2051 2295.2 2238.3 2000.5 1679.5 2572.9 TRUE FALSE FALSE 2022.266759 1785.330455 2055.293844 2056.449694 1893.852823 2099.636048 1986.440593 1949.330107 1667.812223 2683.83031 0.753500231 0.665217338 0.765806182 0.766236854 0.705652968 0.782328167 0.740151337 0.726323903 0.621429833 1 11.39007774 -9.006438443 0.69203456 1.011757459 0.736096331 0 0.121097302 0.183835173 0.153319169 0.028461178 0.007626516 9.85E-10 9.006438443 -0.275661127 VGS(ph)PSGDAASSTPPSTR ddPTM_HeLa_SAHA_4h_R1 3 VGSPSGDAASSTPPSTR 17 0 F8WEJ1;C9JF34;C9J222;F8WB78;F8WDE4;Q9H980;Q6PIY2;Q9NP87-2;Q9NP87;Q9NP87-3 F8WEJ1 POLM DNA-directed DNA/RNA polymerase mu 1 0 VGS(0.821)PS(0.149)GDAAS(0.029)S(0.002)TPPSTR;VGS(0.981)PS(0.019)GDAASSTPPSTR;VGS(0.973)PS(0.027)GDAASSTPPSTR ;; 197.73 7.59E-14 17717700 1715.08 2229.98 1562.65 1980.54 2166.1 2399.58 2091.64 2198.75 2446.1 2400.29 TRUE FALSE FALSE 1895.479983 2302.232815 1775.599804 2018.876216 2000.133886 2195.122284 1856.283162 2142.509159 2429.077391 2503.778249 0.757047867 0.919503481 0.709168156 0.806331877 0.798846258 0.876723921 0.741392798 0.855710429 0.970164747 1 11.28989108 -9.383686561 0.923863527 1.009447125 0.803996654 0.57204455 0.060978135 0.330823878 0.466595836 0.048698092 0.010421294 4.13E-10 9.383686561 -0.205450471 VGSAQPS(ph)PPDDLDAGGLAQR ddPTM_HeLa_SAHA_4h_R1 1 VGSAQPSPPDDLDAGGLAQR 20 0 Q8N3D4;E9PIH6;H0YDZ9;A0A0U1RQH4 Q8N3D4 EHBP1L1 EH domain-binding protein 1-like protein 1 1 0 VGS(0.393)AQPS(0.607)PPDDLDAGGLAQR 156.61 6.30E-06 4438300 1622.4 1433.2 1502.2 1829.1 1952.9 2106.4 2141.2 1976.5 1734.3 2053.4 TRUE FALSE FALSE 1793.051476 1479.63662 1706.911993 1864.504875 1803.269224 1926.92287 1900.266541 1925.943992 1722.230865 2141.932123 0.837118719 0.690795289 0.796902934 0.87047804 0.841889061 0.899619016 0.887174024 0.899162009 0.804054828 1 11.06469705 -9.027922462 0.974707172 0.993923053 0.840740758 0 0.083163135 0.360400372 0.652182502 0.034862887 0.012408404 9.38E-10 9.027922462 -0.153182295 VGSGQGGS(ph)PCWK ddPTM_HeLa_SAHA_4h_R1 2 VGSGQGGSPCWK 12 0 A0A669KBI7;Q9UMN6;Q9UMN6-2 A0A669KBI7 KMT2B Histone-lysine N-methyltransferase 2B 1 0 VGSGQGGS(1)PCWK;VGS(0.01)GQGGS(0.99)PCWK ; 104.41 0.0042566 9121800 1755.18 1657.74 1510.51 1966.11 1851.15 1785.02 1701.13 1706.36 2032.01 1828.38 TRUE FALSE FALSE 1939.797885 1711.451864 1716.354436 2004.166902 1709.315287 1632.926254 1509.714375 1662.713782 2017.869077 1907.21041 1.017086461 0.897358705 0.899929251 1.05083681 0.896238442 0.856185686 0.791582495 0.871804062 1.058021216 1 10.8972483 -5.382249773 0.504430106 1.007141077 0.783181091 0.559608203 0.05725118 0.919188378 0.305055608 0.013253001 0.100614995 4.15E-06 5.382249773 -0.223959986 VGSPGDAGLS(ph)IIGPR ddPTM_HeLa_SAHA_4h_R1 1 VGSPGDAGLSIIGPR 15 0 Q5TAT6-9;Q5TAT6-4;Q5TAT6-3;Q5TAT6-8;Q5TAT6-7;Q5TAT6-2;Q5TAT6-5;Q5TAT6-6;Q5TAT6 Q5TAT6-9 COL13A1 Collagen alpha-1(XIII) chain 1 0 VGS(0.008)PGDAGLS(0.992)IIGPR 76.927 0.017448 1314500 427.42 271.46 339.33 336.34 341.28 484.51 330.63 417.38 552.44 264.43 TRUE FALSE FALSE 472.3779967 280.2554821 385.5721252 342.8503471 315.1312001 443.2270222 293.4266422 406.704024 548.5955251 275.8308714 1.712563914 1.016041028 1.397857039 1.242973077 1.142479805 1.60687968 1.063791884 1.474468836 1.988883704 1 8.107640124 -3.933000685 18.67685725 1.309366226 4.419694291 0 0.315431494 524.1278646 156226.9232 0.038592687 4597.973523 0.000116681 3.933000685 3.110328065 TTPKEPTEK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 TTPKEPTEKK 10 2 P26358;P26358-2 P26358 DNMT1 DNA (cytosine-5)-methyltransferase 1 0 1 TTPKEPTEK(1)K 100.93 0.0037909 1784500 560.88 636.79 765.09 979.33 898.38 1023.8 1227.4 1307.4 475.42 362.6 FALSE TRUE FALSE 619.8759318 657.4224138 869.3524808 998.2863483 829.5463185 936.5664803 1089.289722 1273.958601 472.1115135 378.2334605 1.638871217 1.738139225 2.298454715 2.639339066 2.193212407 2.476159774 2.879940131 3.368180592 1.248201343 1 8.563133187 -1.000000002 0.114610834 0.321187005 9.506391311 0.911084971 0.209858299 17.70167514 0.140969242 1.07787296 25.92752668 0.099999999 1.000000002 9.185204306 VGTEGLVDS(ph)FSQGLER ddPTM_HeLa_SAHA_4h_R1 1 VGTEGLVDSFSQGLER 16 0 T1ECW5;O75170-6;O75170-2;O75170-4;O75170-3;O75170-5;O75170 T1ECW5 PPP6R2 Serine/threonine-protein phosphatase 6 regulatory subunit 2 1 0 VGTEGLVDS(0.986)FS(0.014)QGLER 102.29 0.0022426 0 401.08 445.29 347.2 345.7 494.69 691.23 505.56 576.64 490.43 399.54 TRUE FALSE FALSE 443.2674346 459.7176882 394.5146079 352.3915234 456.7869591 632.3333152 448.6730582 561.8903838 487.0170577 416.7661247 1.063587965 1.103059152 0.946609104 0.845537827 1.096027081 1.517237793 1.076558366 1.348215103 1.168562004 1 8.703094208 -5.507052837 24.86276822 1.016428693 1.292988119 0.504499939 0.129383738 369.743116 580872.0398 0.016136002 0.035099792 3.11E-06 5.507052837 0.276559425 VGTPLATEDS(ph)GR ddPTM_HeLa_SAHA_4h_R1 1 VGTPLATEDSGR 12 0 A0A0C4DFL8;F5GX28;O94953 A0A0C4DFL8 KDM4B Lysine-specific demethylase 4B 1 0 VGT(0.052)PLAT(0.071)EDS(0.877)GR 100.38 0.0063273 2209700 996.26 882.51 920.05 920.55 1158.4 931.33 1253.9 972.29 1002.9 947.05 TRUE FALSE FALSE 1101.051198 911.103903 1045.429623 938.3685764 1069.643642 851.9754445 1112.807872 947.4202297 995.9207372 987.8819603 1.114557449 0.92228013 1.058253582 0.949879251 1.082764627 0.862426361 1.126458339 0.959041938 1.008137386 1 9.948194858 -7.271701309 24.83679606 1.05409657 0.998580569 0.057300478 0.079993502 1137.92839 2754104.359 0.013122434 0.015097462 5.35E-08 7.271701309 -0.055516001 VGVAAPPFLGS(ph)PVPFGGFR ddPTM_HeLa_SAHA_4h_R1 1 VGVAAPPFLGSPVPFGGFR 19 0 Q5T171;Q9BRQ0 Q5T171 PYGO2 Pygopus homolog 2 1 0 VGVAAPPFLGS(1)PVPFGGFR 123.92 0.00025474 30527000 2311.4 2860.7 2754.3 2287.8 2798 2504.7 2792.9 1662.7 2494.2 2899.6 TRUE FALSE FALSE 2554.523657 2953.388557 3129.64166 2332.083677 2583.617844 2291.285469 2478.635541 1620.170542 2476.842659 3024.615946 0.844577858 0.976450766 1.034723653 0.771034643 0.854196992 0.75754592 0.819487692 0.535661575 0.818894929 1 11.56253625 -3.419110983 0.457003219 0.939042336 8.27E-17 0.602120524 0.086346366 4.524950283 0.363469237 0.018823537 2.724751851 0.000380968 3.419110983 -0.939042336 VGVEVPDVNIEGPEGK ddPTM_HeLa_SAHA_4h_R1 2 VGVEVPDVNIEGPEGK 16 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 ; ; 198.33 2.94E-24 4368490 1664.35 1630.78 1200.37 1740.95 1519.58 1639.384 1433.23 1963.68 1949.2 1437.63 FALSE FALSE TRUE 1839.413969 1683.618342 1363.950172 1774.648605 1403.150109 1499.69926 1271.959188 1913.451909 1935.635358 1499.613265 1.226592224 1.122701687 0.909534614 1.183404179 0.935674645 1.000057345 0.848191476 1.275963579 1.29075636 1 10.55037478 VGVNGFGR ddPTM_HeLa_SAHA_4h_R1 2 VGVNGFGR 8 0 P04406 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ; ; 146.94 7.58E-05 36132000 3975.3 3646.7 3204.9 3845.2 3602.9 3940 3899.5 3557.4 3737.4 3539.5 FALSE FALSE TRUE 4393.440293 3764.855473 3641.647082 3919.629406 3326.84658 3604.289834 3460.717997 3466.406859 3711.391129 3692.105167 1.189955349 1.019704289 0.986333519 1.061624528 0.901070373 0.976215376 0.937329204 0.938870022 1.005223568 1 11.85022793 -6.327842655 1.197262817 1.086703037 0.944408734 0.308259319 0.063599168 0.362497574 1.027182183 0.013812781 0.026373646 4.70E-07 6.327842655 -0.142294302 VGVSSKPDSS(ph)PVLSPGNK ddPTM_HeLa_SAHA_4h_R1 2 VGVSSKPDSSPVLSPGNK 18 1 Q8N4C8-2;Q8N4C8-3;Q8N4C8;Q8N4C8-5;Q8N4C8-4 Q8N4C8-2 MINK1 Misshapen-like kinase 1 1 0 VGVSSKPDS(0.106)S(0.847)PVLS(0.047)PGNK;VGVSSKPDS(0.118)S(0.879)PVLS(0.002)PGNK ; 99.873 0.0012389 50034000 8870.6 8866 8265.2 8833.6 10020 9262.1 10680.3 10644.2 11386.4 10419.8 TRUE FALSE FALSE 9803.650408 9153.264217 9391.538413 9004.587102 9252.269765 8472.916973 9478.524535 10371.93678 11307.16112 10869.04857 0.90197871 0.842140336 0.864062604 0.828461391 0.851249279 0.779545414 0.872065708 0.954263541 1.04030827 1 13.40793804 -8.283378684 0.662862809 0.994038266 0.850767171 0.65259331 0.045512209 0.317399788 0.302954735 0.020539618 0.011028174 5.21E-09 8.283378684 -0.143271096 VGVVRY(ph)SDRPTTAFELGLFGS(ph)QEEVK ddPTM_HeLa_SAHA_4h_R1 1 VGVVRYSDRPTTAFELGLFGSQEEVK 26 2 Q8NFW1-3;Q8NFW1-2;Q8NFW1 Q8NFW1-3 COL22A1 Collagen alpha-1(XXII) chain 2 0 VGVVRY(0.744)S(0.256)DRPT(0.169)T(0.169)AFELGLFGS(0.661)QEEVK 52.909 0.022349 24421000 719.47 838.62 791.47 926.07 1038.4 688.42 931.37 934.54 654.69 746.58 TRUE FALSE FALSE 795.1471556 865.7918382 899.3274098 943.995424 958.8380163 629.7627431 826.5697964 910.63582 650.133959 778.7687175 1.021031197 1.1117445 1.154806799 1.212164026 1.231223077 0.808664664 1.061380327 1.169327683 0.8348229 1 9.605051123 -7.312469575 4.710505219 1.009292646 1.10456068 0.208522871 0.124258846 0.335677376 16.34238921 0.019798833 0.02277795 4.87E-08 7.312469575 0.095268033 VHAPGLNLS(ph)GVGGK ddPTM_HeLa_SAHA_4h_R1 1 VHAPGLNLSGVGGK 14 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VHAPGLNLS(1)GVGGK 76.574 0.01569 3189300 2000.6 2050.2 1652.1 1647.1 2138.4 979.42 2035.5 2102.6 1953.3 1761.9 TRUE FALSE FALSE 2211.032287 2116.627825 1877.239584 1678.982002 1974.556254 895.9679059 1806.460183 2048.818537 1939.706826 1837.864132 1.203044474 1.151678075 1.021424572 0.913550666 1.074375532 0.487504974 0.982912802 1.114782372 1.055413615 1 10.8438144 -6.295760217 1.895820911 1.102423953 0.89333533 0.214567738 0.167424099 0.387973141 2.720955675 0.027830678 0.048392355 5.06E-07 6.295760217 -0.209088623 VHDRS(ph)EEEEEEEEEEEEEQPR ddPTM_HeLa_SAHA_4h_R1 2 VHDRSEEEEEEEEEEEEEQPR 21 1 Q5TAQ8;V9GY54;Q5TAQ9-2;Q5TAQ9;V9GYQ9 Q5TAQ8 DCAF8 DDB1- and CUL4-associated factor 8 1 0 VHDRS(1)EEEEEEEEEEEEEQPR;VHDRS(1)EEEEEEEEEEEEEQPR ; 135.18 2.25E-06 81217000 1073.31 1460.74 1026.39 886.89 1280.82 197.338 1387.09 1205.06 1431.95 1231.91 TRUE FALSE FALSE 1186.20567 1508.068934 1166.261084 904.0570384 1182.683848 180.5236922 1231.010983 1174.23631 1421.984943 1285.023669 0.92310025 1.173572885 0.907579457 0.703533375 0.920359583 0.140482776 0.957967555 0.913785745 1.106582686 1 10.32757922 -6.356826773 4.078602642 0.980654138 0.717707429 0.286673753 0.229928825 0.256973157 7.676998971 0.033772778 0.052670717 4.40E-07 6.356826773 -0.262946708 VHDYDMR ddPTM_HeLa_SAHA_4h_R1 2 VHDYDMR 7 0 J3QR07;Q96MU7-2;Q96MU7 J3QR07 YTHDC1 YTH domain-containing protein 1 0 0 ; ; 147.69 0.00018411 1677000 1302.13 1183.89 1309.76 1416.27 1796 433.14 1452.11 1536.83 1460.71 1211.25 FALSE FALSE TRUE 1439.094008 1222.248813 1488.247272 1443.683954 1658.390868 396.2340352 1288.714761 1497.520114 1450.5448 1263.472915 1.1389987 0.967372389 1.177901998 1.142631501 1.312565428 0.313607067 1.019978146 1.185241168 1.14806165 1 10.30317902 VHELNEEIGK ddPTM_HeLa_SAHA_4h_R1 1 VHELNEEIGK 10 0 Q9NQ29-3;Q9NQ29;B8ZZ09;B8ZZ10;A8MYV2;Q9NQ29-2;Q96HJ9-2;A0A0A6YYJ8;Q9Y383-3;Q9Y383-2;Q9Y383 Q9NQ29-3;Q96HJ9-2 LUC7L;LUC7L2 Putative RNA-binding protein Luc7-like 1;Putative RNA-binding protein Luc7-like 2 0 0 138.25 0.001325 3930400 5762.8 5322 5498.5 6511.6 6355.6 2043.6 5711.6 6075.3 6658.7 5737.7 FALSE FALSE TRUE 6368.957745 5494.436292 6247.806945 6637.641434 5868.635301 1869.473783 5068.915736 5919.902623 6612.361565 5985.080327 1.064139059 0.918022147 1.043896924 1.109031303 0.980544117 0.312355671 0.846925264 0.98910997 1.104807489 1 12.54715489 -5.493123322 24.99441859 1.028377 0.715416437 0.428497512 0.1677828 476.1217431 399939.7195 0.022419528 0.050058031 3.21E-06 5.493123322 -0.312960563 VHFEESSK ddPTM_HeLa_SAHA_4h_R1 1 VHFEESSK 8 0 P12956;B1AHC9;P12956-2 P12956 XRCC6 X-ray repair cross-complementing protein 6 0 0 80.165 0.0071652 0 2471.8 2212.2 1945.3 1936.1 2155.2 1755.8 2438.2 1705.7 2380.2 2144.3 FALSE FALSE TRUE 2731.795265 2283.876731 2210.395353 1973.576015 1990.069042 1606.195962 2163.847319 1662.070664 2363.635994 2236.751267 1.221322775 1.02106871 0.988216878 0.882340403 0.889714056 0.718093239 0.967406323 0.743073532 1.056727241 1 11.12718912 -6.435734018 1.522700534 1.103168871 0.832537612 0.636451614 0.085081754 0.201168022 0.923466449 0.017064357 0.029059167 3.67E-07 6.435734018 -0.270631258 VHGLPTT(ph)SPSGMNMAELAQQVVK ddPTM_HeLa_SAHA_4h_R1 2 VHGLPTTSPSGMNMAELAQQVVK 23 0 B1AKB5;B0QYS6;B0QYS7;P19484-2;P19484 B1AKB5 TFEB Transcription factor EB 1 0 VHGLPT(0.26)T(0.381)S(0.26)PS(0.1)GMNMAELAQQVVK;VHGLPT(0.069)T(0.31)S(0.31)PS(0.31)GMNMAELAQQVVK ; 70.02 0.0029183 50297000 3341.63 3235.34 3173.34 3459.68 3887.24 1134.36 4159.12 3638.93 3434.22 3136.65 TRUE FALSE FALSE 3693.117975 3340.167139 3605.786249 3526.647109 3589.400511 1037.706146 3691.124871 3545.85144 3410.320983 3271.886332 1.12874275 1.020868942 1.102051197 1.077863578 1.097043157 0.317158373 1.128133589 1.083733076 1.042310349 1 11.67590691 VHGS(ph)PLELK ddPTM_HeLa_SAHA_4h_R1 2 VHGSPLELK 9 0 Q9UPQ0-10;Q9UPQ0-8;Q9UPQ0-5;Q9UPQ0-2;Q9UPQ0-4;Q9UPQ0;G5EA03;E7EPK0;E9PDJ9;H0Y8P3;Q9UPQ0-3;Q9UPQ0-6;Q9UPQ0-9;D6RD46 Q9UPQ0-10 LIMCH1 LIM and calponin homology domains-containing protein 1 1 0 VHGS(1)PLELK;VHGS(1)PLELK ; 97.911 0.0095201 17485700 12809.2 16675.2 12223.5 15050.4 18140.4 570.27 16314.3 13348.5 24367 15693.2 TRUE FALSE FALSE 14156.53043 17215.48742 13889.25492 15341.72226 16750.48647 521.6797877 14478.57203 13007.0647 24197.42806 16369.81065 0.864795001 1.051660754 0.848467659 0.937196073 1.023254748 0.031868407 0.884467899 0.794576368 1.478173974 1 13.99875001 VHIDIGADGR ddPTM_HeLa_SAHA_4h_R1 5 VHIDIGADGR 10 0 P31942-4;P31942-3;P31942;P31942-5;P31942-2;P31942-6 P31942-4 HNRNPH3 Heterogeneous nuclear ribonucleoprotein H3 0 0 ;;;; ;;;; 185.33 1.50E-06 35407500 13749.1 13019 15068.4 15866 15600.1 2723.6 17686.7 12175.2 11869.6 12514.9 FALSE FALSE TRUE 15195.29342 13440.82414 17121.84308 16173.10937 14404.82371 2491.533957 15696.54597 11863.77601 11786.99849 13054.47859 1.163990834 1.029594867 1.311568514 1.238893554 1.103439223 0.190856643 1.202387814 0.908789726 0.902908409 1 13.67225722 VHIEIGPDGR ddPTM_HeLa_SAHA_4h_R1 6 VHIEIGPDGR 10 0 P31943;G8JLB6;E9PCY7;H0YB39;H0YBD7;P55795;H0YBG7;P52597 P31943;P52597 HNRNPH1;HNRNPH2;HNRNPF "Heterogeneous nuclear ribonucleoprotein H;Heterogeneous nuclear ribonucleoprotein H, N-terminally processed;Heterogeneous nuclear ribonucleoprotein H2;Heterogeneous nuclear ribonucleoprotein F;Heterogeneous nuclear ribonucleoprotein F, N-terminally processed" 0 0 ;;;;; ;;;;; 153.1 0.00020742 142546000 26012.1 26696.5 27004.1 28607.2 30925.5 6002.05 32802.8 23491.2 27709 25469.5 FALSE FALSE TRUE 28748.17203 27561.48412 30684.07812 29160.93372 28555.99487 5490.641573 29111.74261 22890.32912 27516.17081 26567.61479 1.082075762 1.037409054 1.154942902 1.097612035 1.074842251 0.206666711 1.09576049 0.861587662 1.035703469 1 14.69738109 VHIGQVIMSIR ddPTM_HeLa_SAHA_4h_R1 2 VHIGQVIMSIR 11 0 X1WI28;P27635;F8W7C6;A0A087WV22;H7C123;H7C2C5;Q96L21 X1WI28 RPL10;RPL10L 60S ribosomal protein L10;60S ribosomal protein L10-like 0 0 ; ; 107.11 0.0028001 2533500 1458.54 1467.88 2972 2433.91 1847.72 397.89 2656.8 423.63 758.77 1166.01 FALSE FALSE TRUE 1611.955929 1515.440275 3377.008682 2481.021848 1706.148093 363.9875335 2357.849872 412.794158 753.4896578 1216.282397 1.325313868 1.245960871 2.776500498 2.039840298 1.402756544 0.299262354 1.938571073 0.339390062 0.61950223 1 10.24826252 VHLVGIDIFTGK ddPTM_HeLa_SAHA_4h_R1 2 VHLVGIDIFTGK 12 0 I3L397;I3L504;P63241;P63241-2;F8WCJ1;C9J7B5;C9J4W5;Q9GZV4;Q6IS14 I3L397 EIF5A;EIF5A2;EIF5AL1 Eukaryotic translation initiation factor 5A;Eukaryotic translation initiation factor 5A-1;Eukaryotic translation initiation factor 5A-2;Eukaryotic translation initiation factor 5A-1-like 0 0 ; ; 196.76 6.00E-24 40506000 10559 12198.3 14179.4 14520.9 14925.7 535.59 17313.6 9381.9 14203 14415.1 FALSE FALSE TRUE 11669.64407 12593.53292 16111.69479 14801.97302 13782.09609 489.9547189 15365.42816 9141.924583 14104.16017 15036.60551 0.776082345 0.837524993 1.071498137 0.984395914 0.91656964 0.032584131 1.021868144 0.607977949 0.937988309 1 13.8761913 VHLVGIDIFTGKK ddPTM_HeLa_SAHA_4h_R1 2 VHLVGIDIFTGKK 13 1 I3L397;I3L504;P63241;P63241-2;F8WCJ1;C9J7B5;C9J4W5;Q9GZV4;Q6IS14 I3L397 EIF5A;EIF5A2;EIF5AL1 Eukaryotic translation initiation factor 5A;Eukaryotic translation initiation factor 5A-1;Eukaryotic translation initiation factor 5A-2;Eukaryotic translation initiation factor 5A-1-like 0 0 ; ; 110.53 0.001055 7383900 7278.4 7066.7 9379.7 9651.6 10098.5 504.8953 10012 5637.1 7305.5 9497.8 FALSE FALSE TRUE 8043.975506 7295.665717 10657.91667 9838.420674 9324.755112 461.87538 8885.42341 5492.911144 7254.660431 9907.296639 0.811924362 0.736393184 1.075764364 0.993047956 0.941200759 0.046619718 0.896856502 0.554430875 0.732254286 1 13.27427573 VHNDAQSFDYDHDAFLGAEEAK ddPTM_HeLa_SAHA_4h_R1 1 VHNDAQSFDYDHDAFLGAEEAK 22 0 O43852-5;O43852;O43852-3;O43852-13;O43852-14;O43852-9;O43852-11;O43852-10;O43852-6;O43852-2;O43852-4;O43852-12;O43852-7;O43852-8 O43852-5 CALU Calumenin 0 0 84.159 0.00029981 7683900 1606.4 2085.8 1709.9 1977.7 2416.3 922.45 2336.3 1728.7 3283.5 2603.6 FALSE FALSE TRUE 1775.368522 2153.381289 1942.916267 2015.981243 2231.163616 843.8520704 2073.413375 1684.482357 3260.649856 2715.853938 0.653705451 0.792892894 0.715397923 0.742301055 0.821532994 0.310713348 0.763448044 0.620240409 1.200598387 1 11.40719018 -13.52287869 0.212132428 2.672512507 0.619172444 0.563943353 0.146405699 31.61903785 0.394462388 21.89524975 0.114903414 3.00E-14 13.52287869 -2.053340063 VHS(ph)PCPTSGSEK ddPTM_HeLa_SAHA_4h_R1 2 VHSPCPTSGSEK 12 0 X6RLP6;Q96LT9-2;Q96LT9 X6RLP6 RNPC3 RNA-binding protein 40 1 0 VHS(0.724)PCPT(0.272)S(0.003)GSEK;VHS(0.944)PCPT(0.045)S(0.009)GS(0.001)EK ; 113.61 0.0023828 4212000 2165.58 2417.1 1552.32 2583.06 2512.3 806.68 2082.6 2360.2 3598.8 2635.8 TRUE FALSE FALSE 2393.36564 2495.415626 1763.862085 2633.058861 2319.808117 737.9463257 1848.260367 2299.829502 3573.755658 2749.442237 0.870491334 0.907607948 0.641534513 0.957670187 0.843737717 0.268398556 0.672231023 0.836471292 1.299811143 1 11.42492326 -6.534414015 0.437209289 0.978582402 0.608446959 0.37609225 0.201321588 1.006178057 0.405322261 0.064919918 0.148934852 2.92E-07 6.534414015 -0.370135443 VHS(ph)PPASLVPR ddPTM_HeLa_SAHA_4h_R1 2 VHSPPASLVPR 11 0 Q9BTE3;Q9BTE3-2;Q9BTE3-3 Q9BTE3 MCMBP Mini-chromosome maintenance complex-binding protein 1 0 VHS(1)PPASLVPR;VHS(1)PPASLVPR ; 130.15 0.0010451 18323500 2152.39 2587.5 2230.36 2833.6 3212.4 510.1 2800.7 3167.6 3245.5 2590.4 TRUE FALSE FALSE 2378.788256 2671.336698 2534.301846 2888.448425 2966.266606 466.6366103 2485.557865 3086.577379 3222.914301 2702.084821 0.880352918 0.988620593 0.937906103 1.068970301 1.097769612 0.172695027 0.919866706 1.142294777 1.192750974 1 11.39985725 VHSEAIS(ph)PAPEEK ddPTM_HeLa_SAHA_4h_R1 1 VHSEAISPAPEEK 13 0 Q9BY89 Q9BY89 KIAA1671 Uncharacterized protein KIAA1671 1 0 VHS(0.003)EAIS(0.997)PAPEEK 83.54 0.012599 18502000 6398 6762.5 6282.4 6073.5 6651.4 259.13 6747.7 6445.7 6775.3 6605.7 TRUE FALSE FALSE 7070.970995 6981.609437 7138.532755 6191.061375 6141.771169 237.0506662 5988.431037 6280.828327 6728.150136 6890.504055 1.026190673 1.013221875 1.035995727 0.898491798 0.891338445 0.034402515 0.869084611 0.91151943 0.97643802 1 12.75039381 -5.506248991 24.72853079 1.003072194 0.603320432 0.373019557 0.224201279 461.2737787 685915.6355 0.030451449 0.06647209 3.12E-06 5.506248991 -0.399751762 VHSPSGALEECYVTEIDQDKYAVR ddPTM_HeLa_SAHA_4h_R1 1 VHSPSGALEECYVTEIDQDKYAVR 24 1 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 151.58 1.92E-07 9006300 2101.3 2026 2163.9 2525.5 2437.4 1437.3 2964.1 2158.8 3536.4 2342 FALSE FALSE TRUE 2322.324375 2091.643729 2458.785023 2574.384704 2250.646939 1314.833954 2630.571667 2103.581022 3511.789904 2442.975081 0.950613206 0.856187091 1.006471593 1.053790816 0.921272982 0.538210137 1.076790217 0.861073466 1.437505413 1 11.25442343 -5.513405407 24.99987997 0.97396218 0.830374575 0.151818186 0.196066077 527.5863344 1392284.036 0.017657119 0.036989495 3.07E-06 5.513405407 -0.143587605 VHVGDEDFVHLR ddPTM_HeLa_SAHA_4h_R1 3 VHVGDEDFVHLR 12 0 P04080 P04080 CSTB Cystatin-B 0 0 ;; ;; 191.53 2.10E-07 60012100 6214.7 6851.2 5435.2 5951.3 8068 1777.41 8018.9 4252.4 8967 7937.4 FALSE FALSE TRUE 6868.39066 7073.183375 6175.880751 6066.496017 7449.831583 1625.964669 7116.592267 4143.629765 8904.597917 8279.620159 0.829553836 0.85428839 0.745913536 0.732702214 0.899779391 0.196381553 0.85953125 0.500461336 1.075483868 1 13.01534887 -5.340848057 0.180757526 1.06931933 0.262964564 0.443941605 0.180418798 7.656963719 0.390458763 0.360981333 1.545407923 4.56E-06 5.340848057 -0.806354766 VHVIFNYK ddPTM_HeLa_SAHA_4h_R1 2 VHVIFNYK 8 0 P27797;K7EJB9 P27797 CALR Calreticulin 0 0 ; ; 135.87 0.00011023 4699200 3524.2 3978 26177 10688.4 8584.3 68.37 11250.7 858.86 683.01 1887.13 FALSE FALSE TRUE 3894.891526 4106.88981 29744.26524 10895.28944 7926.572789 62.54449136 9984.741626 836.8916048 678.2568778 1968.49341 1.978615476 2.086311181 15.11016755 5.534836634 4.026720511 0.031772772 5.072275872 0.425143209 0.344556337 1 10.94287617 -2.378561548 18.05340256 2.864617868 2.168810507 0 4.34168298 0 0 0.586982523 0 0.004182524 2.378561548 -0.69580736 VHVQFFDDS(ph)PTR ddPTM_HeLa_SAHA_4h_R1 4 VHVQFFDDSPTR 12 0 A0A087WWJ1;A0A494C0M1;P52701-2;P52701;C9J7Y7;C9JH55;C9J8Y8;F8WAX8 A0A087WWJ1 MSH6 DNA mismatch repair protein Msh6 1 0 VHVQFFDDS(0.999)PT(0.001)R;VHVQFFDDS(0.961)PT(0.039)R;VHVQFFDDS(0.986)PT(0.014)R;VHVQFFDDS(0.885)PT(0.115)R ;;; 182.72 9.40E-06 53192100 6022.13 6133.52 5950.11 7270.26 7136.03 493.94 7337.76 5729.84 6790.54 7113.37 TRUE FALSE FALSE 6655.565264 6332.250072 6760.960004 7410.986395 6589.268923 451.8535332 6512.095933 5583.27899 6743.284079 7420.062193 0.896968932 0.853395822 0.911172956 0.998776857 0.888034191 0.060896192 0.877633605 0.752457169 0.908790776 1 12.85721556 -5.492251758 24.99871324 0.941737193 0.574960365 0.399693801 0.201458257 479.0171505 390988.5845 0.026932499 0.060151469 3.22E-06 5.492251758 -0.366776828 VIDFDENTALDDAEEESFR ddPTM_HeLa_SAHA_4h_R1 1 VIDFDENTALDDAEEESFR 19 0 Q14257;Q14257-2;H0YL43 Q14257 RCN2 Reticulocalbin-2 0 0 207.08 1.95E-19 2893400 488.52 545.72 467.39 464.18 541.82 685.3 545.61 469.54 490.57 604.65 FALSE FALSE TRUE 539.904775 563.4016861 531.0834751 473.1648751 500.3058687 626.9085846 484.2165268 457.5298467 487.1560834 630.7194206 0.856014192 0.893268334 0.8420281 0.750198677 0.79323048 0.993957954 0.767720972 0.72540948 0.772381613 1 9.300854546 -13.52287797 0.139873067 1.638241457 0.759079974 0 0.100562386 47.0990881 0.458424364 8.239722088 0.208326864 3.00E-14 13.52287797 -0.879161483 VIDPATATSVDLR ddPTM_HeLa_SAHA_4h_R1 4 VIDPATATSVDLR 13 0 P50991-2;P50991 P50991-2 CCT4 T-complex protein 1 subunit delta 0 0 ;;; ;;; 220.5 1.24E-15 18337200 3489.81 3562.9 3468.29 3519.62 3172.69 3403.85 3578.01 3141.74 3568.63 2965.35 FALSE FALSE TRUE 3856.884228 3678.340298 3940.930499 3587.747335 2929.599178 3113.82283 3175.402898 3061.37884 3543.795613 3093.200751 1.246891016 1.189169599 1.274062312 1.159881826 0.947109294 1.006666906 1.026575109 0.989712303 1.145672686 1 11.59488475 -5.768764467 24.97930274 1.141179412 0.995959486 0.561097894 0.074104531 160.3884352 546943.0242 0.016054529 0.029532971 1.70E-06 5.768764467 -0.145219926 VIEEEWQQVDR ddPTM_HeLa_SAHA_4h_R1 1 VIEEEWQQVDR 11 0 P42166 P42166 TMPO "Lamina-associated polypeptide 2, isoform alpha;Thymopoietin;Thymopentin" 0 0 166.86 0.00080556 5204700 365.32 229.22 264.45 278.02 225.42 428.77 269.69 288.43 331.38 210.25 FALSE FALSE TRUE 403.7460337 236.6468784 300.4878688 283.4014791 208.1483683 392.2363838 239.3437714 281.0523782 329.0738996 219.3149064 1.840942051 1.079027788 1.370120589 1.292212571 0.949084454 1.788462035 1.091324686 1.281501485 1.500462987 1 7.776860062 VIEPPAAS(ph)CPSSPR ddPTM_HeLa_SAHA_4h_R1 1 VIEPPAASCPSSPR 14 0 A0A0A0MRX4;Q3MIN7;Q3MIN7-2 A0A0A0MRX4 RGL3 Ral guanine nucleotide dissociation stimulator-like 3 1 0 VIEPPAAS(0.475)CPS(0.182)S(0.343)PR 78.287 0.018554 5819300 614.98 762.4 833.48 743.69 728.56 1002.7 932.27 966.42 1012.5 896.55 TRUE FALSE FALSE 679.666418 787.1022602 947.0623138 758.0851953 672.7378902 917.264319 827.368526 941.7003758 1005.45393 935.2046581 0.726756878 0.841636377 1.012679209 0.810608875 0.71934831 0.98081667 0.884692478 1.006945771 1.075116469 1 9.869138306 -4.080316058 1.269152369 0.866143996 1.106948251 0.037458818 0.118247952 3.963055567 4.01874628 0.018057936 1.378862652 8.31E-05 4.080316058 0.240804254 VIET(ph)PENDFK ddPTM_HeLa_SAHA_4h_R1 4 VIETPENDFK 10 0 A0A024QZ33;Q9H0G5 A0A024QZ33 CCDC55;NSRP1 Nuclear speckle splicing regulatory protein 1 1 0 VIET(1)PENDFK;VIET(1)PENDFK;VIET(1)PENDFK;VIET(1)PENDFK ;;; 157.03 0.0004846 60553400 7685.3 9146.8 6941.5 8356.5 9427.5 10727.8 9300.4 8949.2 10910 7861 TRUE FALSE FALSE 8493.675115 9443.162321 7887.45147 8518.252141 8705.166987 9813.731087 8253.894515 8720.292422 10834.07642 8199.926181 1.035823363 1.151615528 0.961892985 1.038820589 1.061615287 1.196807248 1.006581563 1.063459869 1.321240726 1 13.00139521 -8.15432913 0.360777079 0.9898037 1.076972284 0 0.119664524 2.058824436 0.659742516 0.073033048 0.035816708 7.01E-09 8.15432913 0.087168583 VIEVVIR ddPTM_HeLa_SAHA_4h_R1 1 VIEVVIR 7 0 P28749;P28749-2 P28749 RBL1 Retinoblastoma-like protein 1 0 0 100.07 0.023815 967240 893.1 1173.7 1321.2 1485.1 1357.2 1437.1 2014.6 980.65 1104.2 1155.2 FALSE FALSE TRUE 987.0403557 1211.72865 1501.246255 1513.846258 1253.211629 1314.650995 1787.911906 955.566393 1096.515782 1205.006325 0.819116327 1.005578663 1.245840975 1.256297354 1.040004191 1.090990949 1.483736532 0.792996993 0.909966827 1 10.234825 -6.950186972 5.407632325 0.914304409 1.162593654 0.290868028 0.170963118 0.168634292 11.01780455 0.026589376 0.03493324 1.12E-07 6.950186972 0.248289245 VIFGLFGK ddPTM_HeLa_SAHA_4h_R1 2 VIFGLFGK 8 0 P23284 P23284 PPIB Peptidyl-prolyl cis-trans isomerase B 0 0 ; ; 145.87 8.79E-05 102270000 3486.67 3510.34 3959.06 4047.94 4801.2 3496.35 5223.62 2464.86 2207.77 3821.33 FALSE FALSE TRUE 3853.413948 3624.077319 4498.580079 4126.293732 4433.333093 3198.44131 4635.84453 2401.81245 2192.405949 3986.086237 0.966716152 0.909181865 1.128570686 1.035174225 1.112202002 0.802401433 1.163006582 0.602549044 0.550014681 1 11.96075721 -4.245699541 24.68232226 0.997333854 0.602548694 0.257865247 0.174958732 1288.442258 2020424.372 0.012601496 0.419551469 5.68E-05 4.245699541 -0.39478516 VIFLEDDDVAAVVDGR ddPTM_HeLa_SAHA_4h_R1 1 VIFLEDDDVAAVVDGR 16 0 A0A6I8PRN4;A0A6I8PTT9;Q06210-2;Q06210 A0A6I8PRN4 GFPT1 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] 1 0 0 175.21 3.00E-08 2421400 306.26 208.16 229.51 258.98 254.98 395.06 228.68 156.61 244.75 154.12 FALSE FALSE TRUE 338.473832 214.9045206 260.7864276 263.9929324 235.4434875 361.3986655 202.9483245 152.604143 243.0467648 160.7648674 2.105396766 1.336762963 1.622160561 1.642105869 1.46452077 2.247995294 1.262392261 0.949238135 1.511815166 1 7.328808353 -9.636239204 1.473242882 1.001384648 1.660443305 0.008294609 0.397955638 0.424722471 1.662176418 0.271410393 0.062263542 2.31E-10 9.636239204 0.659058657 TAAPSVRPEK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 TAAPSVRPEKR 11 2 Q14137;A0A075B729 Q14137 BOP1 Ribosome biogenesis protein BOP1 0 1 TAAPSVRPEK(1)R 86.189 0.013968 2801500 746.01 711.81 749.92 1016.4 1147.6 1254.6 1568.4 1319.8 635.82 440.73 FALSE TRUE FALSE 824.4787546 734.873111 852.1151922 1036.073892 1059.671136 1147.701022 1391.919504 1286.041427 631.3952769 459.7320272 1.793389857 1.598481436 1.853504089 2.253647409 2.304975667 2.496456531 3.027675737 2.797371841 1.373398501 1 8.844649365 -1 0.110191409 0.41434595 8.459312467 0.915482508 0.176570543 16.6246307 0.128321335 0.949630865 20.42893712 0.1 1 8.044966517 up VIGAK(ac)K(ac)DQYFLDK ddPTM_HeLa_SAHA_4h_R1 2 VIGAKKDQYFLDK 13 2 Q9UQE7 Q9UQE7 SMC3 Structural maintenance of chromosomes protein 3 0 2 ; VIGAK(1)K(1)DQYFLDK;VIGAK(1)K(1)DQYFLDK 207.66 5.82E-31 4233100 522.9 608.84 412.99 620 733.03 426.75 636.86 888.75 636.14 535.61 FALSE TRUE FALSE 577.9010212 628.5668155 469.2701264 632.0009965 676.8653998 390.3884992 565.1988367 866.0170619 631.7130499 558.7027683 1.034362194 1.125046896 0.83992805 1.131193601 1.211494623 0.698740943 1.011627056 1.550049706 1.130678217 1 9.125937158 -4.261462419 13.87312198 1.011313036 1.550166815 0.546011787 0.144693077 0.026477553 1270.942297 0.017769079 0.136509682 5.48E-05 4.261462419 0.538853779 VIGAK(ac)K(ac)DQYFLDKK ddPTM_HeLa_SAHA_4h_R1 1 VIGAKKDQYFLDKK 14 3 Q9UQE7 Q9UQE7 SMC3 Structural maintenance of chromosomes protein 3 0 2 VIGAK(1)K(1)DQYFLDKK 244 2.30E-69 37198000 3446.2 2577.5 3295.2 3546.8 3242.4 4287 4754.6 5716.5 2918.1 2903.3 FALSE TRUE FALSE 3808.687128 2661.012691 3744.252695 3615.453443 2993.968012 3921.723482 4219.599895 5570.280207 2897.792705 3028.475471 1.257625219 0.878664106 1.236349025 1.193819622 0.988605667 1.294949726 1.393308262 1.839301741 0.956848663 1 11.56437601 -4.107851782 1.141507507 1.111671357 2.379269092 0.769701765 0.127572525 0.802961405 0.674867975 0.019429611 1.316494008 7.80E-05 4.107851782 1.267597735 VIGGDDLSTLTGK ddPTM_HeLa_SAHA_4h_R1 1 VIGGDDLSTLTGK 13 0 P00492 P00492 HPRT1 Hypoxanthine-guanine phosphoribosyltransferase 0 0 205.52 6.14E-24 467560 69.921 188.17 156.91 0 275 175.86 0 0 188.29 143.46 FALSE FALSE TRUE 77.27561159 194.2668315 178.2928776 0 253.9295594 160.8757386 0 0 186.9796746 149.6452627 0.516391967 1.298182301 1.191436832 0 1.696876699 1.07504732 0 0 1.249486093 1 7.225402798 -4.752551953 24.68064485 0.861896084 6.48E-07 0.411691835 0.455313715 126.9831705 352626.2643 0.060508138 0.219599631 1.77E-05 4.752551953 -0.861895436 VIGQDHDFSES(ph)SEEEAPAEASSGALR ddPTM_HeLa_SAHA_4h_R1 1 VIGQDHDFSESSEEEAPAEASSGALR 26 0 P23497;P23497-2;P23497-3;P23497-4;E9PHV6;P23497-7;P23497-6;P23497-5;H7C4B4;H7C1G8 P23497 SP100 Nuclear autoantigen Sp-100 1 0 VIGQDHDFS(0.014)ES(0.724)S(0.262)EEEAPAEASSGALR 135.19 1.54E-09 3212500 523.33 398.54 520.9 356.55 453.78 584.18 472.1 557.09 409.3 466.92 TRUE FALSE FALSE 578.3762505 411.4529575 591.8855393 363.4515408 419.0114744 534.4045775 418.9780655 542.8404445 406.451648 487.0512063 1.187506043 0.844783777 1.215242939 0.746228602 0.860302714 1.097224626 0.860234119 1.114544913 0.834515227 1 8.927929648 -6.749771362 1.561204973 1.081896247 0.949991047 0 0.167611197 0.573027292 2.835082709 0.025783256 0.037945973 1.78E-07 6.749771362 -0.131905199 VIGSGCNLDSAR ddPTM_HeLa_SAHA_4h_R1 4 VIGSGCNLDSAR 12 0 P00338-3;P00338;P00338-2;P00338-5;P00338-4;P07864;F5H155;Q6ZMR3;F5H5G7;A0A087WUM2;G3XAP5;F5H245;A0A5F9ZHM4;P07195;A0A3B3IS95;A8MW50 P00338-3;A0A5F9ZHM4 LDHA;LDHC;LDHAL6A;LDHB L-lactate dehydrogenase A chain;L-lactate dehydrogenase C chain;L-lactate dehydrogenase;L-lactate dehydrogenase A-like 6A;L-lactate dehydrogenase B chain 0 0 ;;; ;;; 218.55 5.63E-15 136308600 3919.14 3469.06 3707.47 5003.94 5292.9 4424.21 5864 4517.73 2337.5 3297.16 FALSE FALSE TRUE 4331.373127 3581.45982 4212.704704 5100.798495 4887.359145 4047.242418 5204.167287 4402.173008 2321.233147 3439.316704 1.259370247 1.041328883 1.224866759 1.483084849 1.4210262 1.176757701 1.513139887 1.279955697 0.674911137 1 11.74790625 -11.42407755 0.121795618 0.35204361 1.513668397 0.548575713 0.161595895 30.13581515 0.455335625 5.830346019 0.696571737 3.77E-12 11.42407755 1.161624786 VIHDNFGIVEGLMTTVHAITATQK ddPTM_HeLa_SAHA_4h_R1 1 VIHDNFGIVEGLMTTVHAITATQK 24 0 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 80.98 0.00040652 16911000 67.788 257.19 0 120.36 202.82 0 158.26 128.73 188.34 144.25 FALSE FALSE TRUE 74.91825286 265.5231247 0 122.6897418 187.2799754 0 140.4521683 125.437273 187.0293266 150.4693234 0.497897187 1.764632941 0 0.815380431 1.244638915 0 0.93342726 0.833640174 1.242973135 1 7.233325581 VIISAPSADAPMFVMGVNHEK ddPTM_HeLa_SAHA_4h_R1 13 VIISAPSADAPMFVMGVNHEK 21 0 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ;;;;;;;;;;;; ;;;;;;;;;;;; 337.9 6.81E-187 140391630 9800.9 12093.86 9537.53 11954.33 12306.51 13880.9 13007.299 8194.6 13959.92 11800.87 FALSE FALSE TRUE 10831.80363 12485.709 10837.25492 12185.72334 11363.58786 12698.16923 11543.68348 7984.993998 13862.77178 12309.66326 0.879943131 1.014301426 0.880385977 0.989931494 0.923143682 1.031561056 0.937774108 0.648676883 1.126169863 1 13.58750368 -4.263503249 5.809676327 0.950491291 0.639841281 0.617582111 0.07494474 0.053088775 7.91291146 0.007662307 0.065129699 5.45E-05 4.263503249 -0.31065001 VIISAPSADAPMFVMGVNHEKYDNSLK ddPTM_HeLa_SAHA_4h_R1 3 VIISAPSADAPMFVMGVNHEKYDNSLK 27 1 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ;; ;; 166.49 6.33E-23 26087900 6794.24 4470.79 6561.96 6657.89 6977.15 5929.45 7439.26 4170.83 3564.87 6716.51 FALSE FALSE TRUE 7508.889336 4615.646529 7456.189736 6786.763088 6442.562274 5424.227502 6602.174886 4064.146208 3540.061779 7006.091616 1.071765793 0.658804763 1.064243824 0.968694596 0.919565805 0.774215897 0.942347781 0.580087505 0.505283398 1 12.77439414 -3.123743718 0.367628464 1.023094614 6.97E-14 0 0.208038221 9.247591372 0.459046736 0.035975379 5.002203726 0.000752067 3.123743718 -1.023094614 VIKDFMIQGGDFTR ddPTM_HeLa_SAHA_4h_R1 1 VIKDFMIQGGDFTR 14 1 P23284 P23284 PPIB Peptidyl-prolyl cis-trans isomerase B 0 0 110.51 0.0024844 1126700 267.84 340.1 398.63 352.92 459.86 312.63 235.29 287.77 242.64 444.51 FALSE FALSE TRUE 296.0126401 351.1194631 452.9532204 359.7512769 424.6256261 285.9921652 208.81455 280.4092601 240.9514485 463.6750015 0.638405433 0.757253382 0.976876517 0.775869468 0.915782875 0.616794445 0.450346793 0.604753888 0.519655896 1 8.856970137 -13.52287875 0.042984978 2.191357586 8.28E-09 0 0.187808666 529.7607763 1.813960904 83.6996994 25.04445444 3.00E-14 13.52287875 -2.191357577 AAASK(ac)LEQGKR ddPTM_HeLa_SAHA_4h_R1 2 AAASKLEQGKR 11 2 P35269;M0QXD6 P35269 GTF2F1 General transcription factor IIF subunit 1 0 1 ; AAASK(1)LEQGKR;AAASK(1)LEQGKR 139.32 6.11E-05 13449500 1983.03 1807.15 1990.92 2585.13 2731.06 3081.2 3316 3205.9 1585.94 1458.18 FALSE TRUE FALSE 2191.614194 1865.702846 2262.232209 2635.168929 2521.806773 2818.664426 2942.874953 3123.89772 1574.903314 1521.049276 1.440856801 1.226589352 1.487283972 1.732467824 1.657938906 1.853105268 1.934766348 2.053778118 1.035405847 1 10.57085118 -1 0.109064071 0.689510636 4.925631913 0.936931763 0.087925468 19.63837546 0.150337721 0.601130511 12.56655802 0.1 1 4.236121278 up VILDLPLVIGS(ph)RSGLSS(ph)RT(ph)SSMASR ddPTM_HeLa_SAHA_4h_R1 1 VILDLPLVIGSRSGLSSRTSSMASR 25 2 Q9H3M7-2;Q9H3M7 Q9H3M7-2 TXNIP Thioredoxin-interacting protein 3 0 VILDLPLVIGS(0.822)RS(0.177)GLS(0.157)S(0.683)RT(0.385)S(0.385)S(0.385)MAS(0.007)R 46.353 0.019493 7160200 883.57 1175.8 850.69 1276.5 1017.4 1638.9 1172.4 1232.4 1157.5 1097.8 TRUE FALSE FALSE 976.5079466 1213.896691 966.617603 1301.208503 939.4470318 1499.2565 1040.478466 1200.876992 1149.444863 1145.131531 0.85274741 1.060050011 0.844110547 1.13629611 0.820383516 1.309243925 0.908610442 1.048680401 1.00376667 1 10.1612976 -6.263595783 24.98751464 0.934590571 1.039326724 0.095341804 0.136768955 302.3113116 3503058.074 0.019393344 0.030565421 5.45E-07 6.263595783 0.104736152 VILHLK ddPTM_HeLa_SAHA_4h_R1 2 VILHLK 6 0 P07900;P07900-2;G3V2J8;Q14568;Q58FF6;P08238;Q58FF7 P07900;P08238 HSP90AA1;HSP90AA2P;HSP90AB4P;HSP90AB1;HSP90AB3P Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-alpha A2;Putative heat shock protein HSP 90-beta 4;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3 0 0 ; ; 81.297 0.015118 88229000 14668.6 20600.3 16851.3 19423.3 19911.7 19298.7 20346.7 14097.6 21160 16643.3 FALSE FALSE TRUE 16211.51065 21267.76324 19147.70741 19799.26606 18386.06985 17654.34219 18057.23577 13737.00381 21012.74584 17360.87411 0.933795761 1.225039886 1.102923003 1.140453293 1.05905208 1.016903992 1.040110979 0.791262221 1.210350683 1 14.08355197 -2.510114038 12.82218015 1.008156076 0.639010453 0 0.130664279 0 0 0.015695778 0 0.003089484 2.510114038 -0.369145624 VIPELNGK ddPTM_HeLa_SAHA_4h_R1 5 VIPELNGK 8 0 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ;;;; ;;;; 130.22 0.0075818 94120000 31245.2 29544.4 28159.5 30224.8 29145 29602.2 32557.3 28505.9 27066.4 25507.3 FALSE FALSE TRUE 34531.71349 30501.65794 31996.93001 30809.84471 26911.9164 27079.92602 28893.86692 27776.76035 26878.04272 26607.04453 1.297841008 1.146375273 1.202573626 1.157958174 1.011458314 1.017772793 1.085948005 1.043962636 1.010185204 1 14.69952065 -5.768910456 24.57892644 1.150641847 1.041510429 0.22835737 0.083847835 182.4613632 600278.07 0.016588673 0.030513482 1.70E-06 5.768910456 -0.109131418 VIPS(ph)PFK ddPTM_HeLa_SAHA_4h_R1 1 VIPSPFK 7 0 G3V2Y4;P34897-3;P34897;H0YIZ0;P34897-2;G3V4W5 G3V2Y4 SHMT2 "Serine hydroxymethyltransferase;Serine hydroxymethyltransferase, mitochondrial" 1 0 VIPS(1)PFK 96.668 0.015815 4452100 2009.8 2818.7 2668.4 1828.4 2759.8 2304.9 3077.6 2709.9 2672.5 3382.5 TRUE FALSE FALSE 2221.199985 2910.027729 3032.035656 1863.791326 2548.34472 2108.509553 2731.300348 2640.584682 2653.901855 3528.336129 0.629531854 0.824759213 0.859338664 0.528235196 0.72225112 0.597593165 0.774104351 0.748393743 0.752168092 1 11.78477229 -9.409666431 0.917396211 1.01703036 0.704687383 0.103535287 0.1226915 0.392495338 0.536821461 0.08840733 0.018058083 3.89E-10 9.409666431 -0.312342977 VIQPMGMS(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 VIQPMGMSPR 10 0 H0YE35;Q9NPQ8-2;Q9NPQ8-4;Q9NPQ8;Q9NPQ8-3 H0YE35 RIC8A Synembryn-A 1 0 VIQPMGMS(1)PR;VIQPMGMS(1)PR ; 101.56 0.0092173 38646000 3359.7 3029.5 3057.2 2965.2 3541.6 3903.8 3624.3 2982.4 2991.9 3411.6 TRUE FALSE FALSE 3713.088661 3127.657788 3473.819295 3022.595734 3270.243373 3571.174278 3216.484225 2906.114526 2971.079124 3558.690772 1.043386149 0.878878775 0.976150927 0.849356105 0.918945641 1.003507893 0.903839201 0.816624628 0.834879824 1 11.79713086 -7.264477983 24.98406173 1.020487905 0.91129651 0 0.078783178 164.8197056 1355181.453 0.008854945 0.010358437 5.44E-08 7.264477983 -0.109191395 VIQYLAYVASSHK ddPTM_HeLa_SAHA_4h_R1 2 VIQYLAYVASSHK 13 0 P35579;P35579-2;Q5BKV1 P35579 MYH9 Myosin-9 0 0 ; ; 184.31 1.20E-16 2566130 330.43 1250.77 454.08 655.41 552.5 264.73 2270.96 269.29 137.957 138.64 FALSE FALSE TRUE 365.1861435 1291.295769 515.9596577 668.0964083 510.1675694 242.1735147 2015.425604 262.4019517 136.996946 144.6174489 2.525187287 8.929045413 3.567755216 4.619749646 3.527704114 1.674580187 13.93625472 1.814455681 0.947305785 1 7.176097822 -7.473132737 10.49182731 1.671070302 5.465183038 0.216787931 3.471277491 0.783759213 163.2708626 0.558986943 0.632876984 3.36E-08 7.473132737 3.794112736 VISGTTLGYLS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 VISGTTLGYLSPK 13 0 H0YBY0;E7EPX0;E7EVJ4;Q9NUL3-4;Q9NUL3-6;Q9NUL3-8;Q9NUL3-3;Q9NUL3-7;Q9NUL3-2;Q9NUL3;E5RJ67;E5RJN7 H0YBY0 STAU2 Double-stranded RNA-binding protein Staufen homolog 2 1 0 VISGTTLGYLS(1)PK;VISGTT(0.002)LGYLS(0.998)PK ; 125.22 0.00094009 5431200 2569.5 2931.9 2722.2 3194.1 3422 3373.1 2991.1 2668.9 3078.5 2955.2 TRUE FALSE FALSE 2839.771799 3026.895484 3093.167239 3255.926424 3159.807099 3085.692903 2654.533556 2600.633403 3057.076468 3082.613134 0.921222247 0.981925189 1.003423753 1.056222848 1.02504173 1.000999077 0.861130943 0.843645728 0.991715903 1 11.58993813 -4.73797597 9.475140143 0.979491371 0.851923241 0.703364089 0.036222426 0.167935164 61.74768639 0.006596456 0.024036936 1.83E-05 4.73797597 -0.12756813 VISPS(ph)EDR ddPTM_HeLa_SAHA_4h_R1 2 VISPSEDR 8 0 P17252 P17252 PRKCA Protein kinase C alpha type 1 0 VIS(0.24)PS(0.76)EDR;VIS(0.26)PS(0.74)EDR ; 108.74 0.0068631 32337000 7064 8051.7 6105.7 6312.5 7735.2 8827.2 7205.2 6688.1 6788.9 7537.7 TRUE FALSE FALSE 7807.023931 8312.580363 6937.752999 6434.687566 7142.530647 8075.0729 6394.451933 6517.028086 6741.655492 7862.687136 0.992920588 1.057218762 0.882364118 0.818382756 0.90840835 1.027011855 0.813265468 0.828855069 0.857423852 1 12.94080673 -6.743238356 24.62350311 1.001105667 0.881905925 0.261899995 0.075617978 134.205442 181561.0991 0.009580267 0.013532687 1.81E-07 6.743238356 -0.119199742 VIVDFSSPNIAK ddPTM_HeLa_SAHA_4h_R1 1 VIVDFSSPNIAK 12 0 P54136-2;P54136 P54136-2 RARS "Arginine--tRNA ligase, cytoplasmic" 0 0 128.01 0.0012481 494510 160.7 222.89 184.69 249.36 258.47 272.11 254.54 207.73 223.33 222.15 FALSE FALSE TRUE 177.6031633 230.1117822 209.8585914 254.1867234 238.6660844 248.9246972 225.8984893 202.4165674 221.7758283 231.7279737 0.766429536 0.99302548 0.905624764 1.096918595 1.029940756 1.074210822 0.974843415 0.873509418 0.957052465 1 7.856288403 -6.671583338 2.155961463 0.891977007 1.009929212 0.128296753 0.087083628 0.379225393 3.602721666 0.017766894 0.026182365 2.13E-07 6.671583338 0.117952205 VIY(ph)DFIEK ddPTM_HeLa_SAHA_4h_R1 2 VIYDFIEK 8 0 O00401 O00401 WASL Neural Wiskott-Aldrich syndrome protein 1 0 VIY(1)DFIEK;VIY(1)DFIEK ; 115.49 0.011153 9409000 2181.89 2251.51 1760.98 2853.17 3121.9 2332.55 2378.27 3377.2 3496.1 2106.2 TRUE FALSE FALSE 2411.391201 2324.460401 2000.957184 2908.397231 2882.700696 2133.803617 2110.6608 3290.816114 3471.770355 2197.008589 1.097579323 1.058011522 0.910764388 1.323798753 1.312102606 0.97123135 0.960697564 1.497862198 1.580226118 1 11.10132479 -6.262417995 24.99994697 1.039108344 1.191172715 0 0.232884398 118.9471071 3038659.374 0.023746854 0.037583013 5.46E-07 6.262417995 0.152064371 VK(ac)LQEMEGTVK ddPTM_HeLa_SAHA_4h_R1 2 VKLQEMEGTVK 11 1 P35579;P35579-2 P35579 MYH9 Myosin-9 0 1 ; VK(1)LQEMEGTVK;VK(1)LQEMEGTVK 181.4 1.61E-16 3558400 1131.52 1405.61 1055 1236.86 1439.4 1491.28 2192.1 1984.48 1655.42 1052.64 FALSE TRUE FALSE 1250.538465 1451.152686 1198.769906 1260.801214 1329.113483 1364.214554 1945.439139 1933.719875 1643.899797 1098.024462 1.138898548 1.32160324 1.091751548 1.148245105 1.210458901 1.242426377 1.771763022 1.761089978 1.497143146 1 10.10069448 -4.834059202 2.581887664 1.10398862 1.798272281 0.649210752 0.152712315 0.071784342 0.938754394 0.015203839 0.064835647 1.47E-05 4.834059202 0.69428366 VK(ac)RVLMGPRSIQK ddPTM_HeLa_SAHA_4h_R1 1 VKRVLMGPRSIQK 13 3 A0A0G2JRB3;A0A0G2JNP1;A6NM11;A0A0G2JMZ2;A0A0G2JQV0;A0A0J9YVT7;A0A0G2JRA3;A0A0J9YWT4;A0A0G2JNC9;A0A0G2JQI7;A0A0G2JRT3;A0A0G2JS48;A0A0J9YVP4;A0A0G2JP19;E9PP10;A8MUI5;A6NMS7 A0A0G2JRB3 LRRC37A2;LRRC37A Leucine-rich repeat-containing protein 37A2;Leucine-rich repeat-containing protein 37A 0 1 VK(1)RVLMGPRSIQK 47.712 0.021316 0 0 0 72.439 192.74 525.37 471.28 490.46 456.37 0 129.33 FALSE TRUE FALSE 0 0 82.31060967 196.4707614 485.1162641 431.1242927 435.27215 444.6967162 0 134.9060492 0 0 0.610132831 1.456352495 3.595956348 3.195737294 3.22648356 3.29634378 0 1 7.07581123 -5.931283479 2.99722325 0.479370667 3.320231341 0.943285014 0.34576102 0.054974234 1.003082412 0.066955277 0.127196187 1.17E-06 5.931283479 2.840860673 VKAEGPGLSR ddPTM_HeLa_SAHA_4h_R1 1 VKAEGPGLSR 10 1 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 92.239 0.010798 1590000 407.64 256.56 388.64 282.06 520.21 522.59 458.69 610.58 428.23 309.3 FALSE FALSE TRUE 450.5174455 264.8727123 441.6018352 287.5196792 480.3516222 478.062392 407.076994 594.9622477 425.2499126 322.6354367 1.396366903 0.820965964 1.368733205 0.891159639 1.488837144 1.481741736 1.261724373 1.844069746 1.318050853 1 8.333761095 -1.000000001 0.497976705 1.158212526 20.24650608 0.42644156 0.222801083 72.06345066 0.695542009 0.044749679 1446.586603 0.1 1.000000001 19.08829355 VKEDPDGEHAR ddPTM_HeLa_SAHA_4h_R1 3 VKEDPDGEHAR 11 1 A0A087X0X3;P52272-2;P52272;M0R019;M0R2T0;M0QYQ7;M0R0N3 A0A087X0X3 HNRNPM Heterogeneous nuclear ribonucleoprotein M 0 0 ;; ;; 98.754 0.0055493 10940110 8662.49 8304.7 9572.24 12925.8 8944.15 12149.88 14443.5 13375.74 9498.2 10707.79 FALSE FALSE TRUE 9573.650443 8573.777729 10876.69502 13175.99755 8258.851159 11114.64187 12818.27937 13033.60794 9432.101253 11169.45523 0.857127787 0.767609302 0.973789213 1.179645496 0.739413963 0.995092566 1.147619029 1.166897371 0.844454905 1 13.4472712 -4.832405499 3.933007431 0.927656171 1.161133168 0.393132833 0.120273122 0.169889908 5.085924953 0.016792375 0.058362339 1.47E-05 4.832405499 0.233476997 VKEEPPS(ph)PPQSPR ddPTM_HeLa_SAHA_4h_R1 1 VKEEPPSPPQSPR 13 1 E9PMQ6;Q00613-2;Q00613 E9PMQ6 HSF1 Heat shock factor protein 1 1 0 VKEEPPS(0.999)PPQS(0.001)PR 84.734 0.0089503 59859000 2842 2866.2 2338.1 3284.7 3445.2 3605.1 3308.9 3899.4 3408.4 2876.4 TRUE FALSE FALSE 3140.9346 2959.066761 2656.724092 3348.280118 3181.22952 3297.925198 2936.573863 3799.658994 3384.680667 3000.415681 1.04683315 0.986218936 0.885452009 1.115938748 1.06026293 1.0991561 0.978722342 1.266377528 1.128070583 1 11.55094667 -4.25505796 24.89697482 1.022787976 1.266377644 0.487752274 0.070877123 375.8375405 1466280.78 0.008446452 0.106451837 5.56E-05 4.25505796 0.243589668 VKEGMNIVEAMER ddPTM_HeLa_SAHA_4h_R1 2 VKEGMNIVEAMER 13 1 P62937;P62937-2 P62937 PPIA "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed" 0 0 ; ; 150.22 2.77E-05 12326900 5190.3 5078.1 5090.9 6099.6 5905.6 8126.8 6225 6388.9 6605.5 5894.9 FALSE FALSE TRUE 5736.239568 5242.633772 5784.66134 6217.666578 5453.114204 7434.35092 5524.546617 6225.481189 6559.531788 6149.057988 0.93286477 0.85259137 0.940739435 1.011157577 0.886821073 1.209022737 0.898437879 1.01242844 1.066753932 1 12.5861497 RCATPVIIDEILPSK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 RCATPVIIDEILPSKK 16 2 Q9ULW0;Q9ULW0-2 Q9ULW0 TPX2 Targeting protein for Xklp2 0 1 ; RCATPVIIDEILPSK(1)K;RCATPVIIDEILPSK(1)K 131.48 2.77E-05 1849100 853.13 912.9 759.7 1869.67 1521.88 1756.9 2355.58 2932 1304.63 872.76 FALSE TRUE FALSE 942.8661277 942.478559 863.2279597 1905.860166 1405.273883 1607.202236 2090.523939 2857.003685 1295.550974 910.3889548 1.035673953 1.035248235 0.948196872 2.09345704 1.543597246 1.76540173 2.296297564 3.138223141 1.423074134 1 9.830339244 -1 0.350695465 0.967099887 26.64549539 0.818151792 0.288302851 12.45645032 0.155929492 0.071494653 214.4455543 0.1 1 25.6783955 up VKEPS(ph)VQEATSTSDILK ddPTM_HeLa_SAHA_4h_R1 1 VKEPSVQEATSTSDILK 17 1 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 VKEPS(0.503)VQEAT(0.291)S(0.115)T(0.046)S(0.046)DILK 66.041 0.013842 14734000 1604.1 1792.2 1607.7 1653.3 2248.5 2264.6 2015.6 1684.3 2650.8 1495.9 TRUE FALSE FALSE 1772.826598 1850.268456 1826.788983 1685.302012 2076.220416 2071.64334 1788.799383 1641.218045 2632.352867 1560.39557 1.136139215 1.185768847 1.170721719 1.080047935 1.330573129 1.32763985 1.146375584 1.051796145 1.686977916 1 10.60769609 -8.463257659 0.492893649 0.989969467 1.199576027 0 0.230906631 0.789381829 0.396829647 0.074346996 0.028544721 3.44E-09 8.463257659 0.20960656 VKESSIIAPAPAEDVDT(ph)PPR ddPTM_HeLa_SAHA_4h_R1 2 VKESSIIAPAPAEDVDTPPR 20 1 Q15910-5;Q15910-3;Q15910-4;Q15910;Q15910-2 Q15910-5 EZH2 Histone-lysine N-methyltransferase EZH2 1 0 VKESSIIAPAPAEDVDT(1)PPR;VKESSIIAPAPAEDVDT(1)PPR ; 157.62 3.35E-06 191530000 10213 9784.5 9002.4 10803.1 11236.9 12511.3 11866.8 11194.4 12251.6 10813.6 TRUE FALSE FALSE 11287.2502 10101.52422 10229.20019 11012.20962 10375.93115 11445.26685 10531.51643 10908.06346 12166.34012 11279.82722 1.000658076 0.895538914 0.906857879 0.976274673 0.919866142 1.014666859 0.933659375 0.967041715 1.078592773 1 13.46145735 -7.318659051 23.99201007 1.000310795 0.945886209 0.410576515 0.04136989 134.1115646 56232.11664 0.00547804 0.00626438 4.80E-08 7.318659051 -0.054424586 VKGDVDISLPK ddPTM_HeLa_SAHA_4h_R1 1 VKGDVDISLPK 11 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 100.55 0.0061187 0 3898.2 3971.5 3394.7 4011.2 4657.8 4619.3 4075.8 3420.8 4705.4 3997.5 FALSE FALSE TRUE 4308.230562 4100.179206 3857.312037 4088.842576 4300.92037 4225.709653 3617.180257 3333.300889 4672.654738 4169.851788 1.033185538 0.983291353 0.925047755 0.98057264 1.031432432 1.013395647 0.86746015 0.799381143 1.120580533 1 12.02578039 -4.64222921 3.392744579 1.005890937 0.810532804 0.695540634 0.047741755 0.073559284 1.584886446 0.004972282 0.023325595 2.28E-05 4.64222921 -0.195358133 VKGDVDVSVPK ddPTM_HeLa_SAHA_4h_R1 1 VKGDVDVSVPK 11 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 98.156 0.0069564 1566700 3070.7 4192.5 3505.4 2806.3 4141.1 3731.6 3971.9 3482.1 4615.6 3318.6 FALSE FALSE TRUE 3393.690315 4328.339751 3983.097657 2860.619994 3823.809813 3413.646687 3524.971359 3393.032924 4583.479664 3461.681087 0.980359031 1.250357743 1.150625247 0.826367283 1.104610655 0.986123967 1.018283103 0.980169126 1.324061792 1 11.7572571 -6.355462389 21.41674661 1.024992169 0.991608168 0 0.141273298 67.61530606 15387.8342 0.017107334 0.026131897 4.41E-07 6.355462389 -0.033384001 VKGGVDVTLPR ddPTM_HeLa_SAHA_4h_R1 1 VKGGVDVTLPR 11 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 86.114 0.017059 1523500 766.21 700.24 1062 619.46 910.88 555.93 813.29 891.41 876.54 1164.5 FALSE FALSE TRUE 846.8034833 722.9282354 1206.723829 631.4505441 841.0885712 508.5616364 721.7764687 868.6090229 870.4400868 1214.707294 0.697125544 0.59514604 0.993427664 0.519837616 0.692420779 0.41867011 0.594197855 0.715076815 0.716584227 1 10.246393 -11.98356167 0.169008566 1.831857882 0.533513836 0.125889963 0.16464756 20.6486057 0.36727347 6.137753412 0.248504728 1.04E-12 11.98356167 -1.298344046 VKLAK(ac)AGK ddPTM_HeLa_SAHA_4h_R1 1 VKLAKAGK 8 2 P19338 P19338 NCL Nucleolin 0 1 VKLAK(1)AGK 82.75 0.022909 0 1758.7 1729.1 6941.2 8264.8 9763.9 3056 15458 3395.4 193.25 937.05 FALSE TRUE FALSE 1943.688135 1785.123975 7887.110588 8424.777155 9015.792091 2795.611607 13718.62516 3308.550584 191.9051575 977.4508113 1.988527824 1.826305686 8.069061375 8.619131579 9.223780867 2.860104647 14.0351054 3.38487681 0.196332291 1 9.932880293 -6.772174372 7.331696506 1.499299832 7.884900576 0.530273385 2.965744699 0.075130424 21.4797422 0.416562829 0.562306064 1.69E-07 6.772174372 6.385600744 VKLEAEIATYRR ddPTM_HeLa_SAHA_4h_R1 1 VKLEAEIATYRR 12 2 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 0 0 80.737 0.014836 2545200 2663 1601.3 3208.7 2867.7 2628.8 1561 2436.7 1280.9 800.91 2207 FALSE FALSE TRUE 2943.106558 1653.183171 3645.964926 2923.20848 2427.381912 1427.994018 2162.516103 1248.136433 795.3364021 2302.154571 1.278413967 0.718102595 1.583718562 1.269770726 1.054395714 0.620285899 0.939344443 0.542160135 0.345474805 1 11.16876899 -5.382291085 4.748428032 1.146836736 0.72642176 0.116963142 0.341059711 0.169786103 5.860748667 0.032597904 0.074791369 4.15E-06 5.382291085 -0.420414976 VKLESPTVSTLTPS(ph)SPGK ddPTM_HeLa_SAHA_4h_R1 1 VKLESPTVSTLTPSSPGK 18 1 A0A087WTV6;A0A087WZR9;Q96C36 A0A087WTV6 PYCR2 Pyrroline-5-carboxylate reductase;Pyrroline-5-carboxylate reductase 2 1 0 VKLESPTVSTLT(0.013)PS(0.494)S(0.494)PGK 80.508 0.0038923 4409000 1003.7 1404.1 902.82 1040.8 1601.5 1020.7 1246 1223.8 1049.1 1461.6 TRUE FALSE FALSE 1109.273771 1449.593761 1025.851608 1060.946189 1478.793416 933.7306177 1105.796801 1192.496968 1041.799228 1524.616729 0.727575495 0.950792244 0.672858685 0.695877311 0.969944372 0.612436293 0.725294941 0.782161802 0.68331877 1 10.5742309 -9.848301571 0.486011541 1.117947006 0.755209611 0 0.147280587 2.018742366 0.447863045 0.383570279 0.026535663 1.42E-10 9.848301571 -0.362737395 VKMDCQECPEGYR ddPTM_HeLa_SAHA_4h_R1 2 VKMDCQECPEGYR 13 1 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 97.779 0.0061037 9535200 2398.4 3581.4 2052.61 2185.1 2533.8 3418.9 2495.7 2229.8 2485.4 3044.1 FALSE FALSE TRUE 2650.674716 3697.43971 2332.329001 2227.39577 2339.660791 3127.590486 2214.877268 2172.764945 2468.103899 3175.346048 0.834767196 1.164421028 0.734511756 0.701465521 0.736820729 0.984960517 0.697523115 0.684260837 0.777270843 1 11.63269811 VKPAPDETSFSEALLK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 VKPAPDETSFSEALLKR 17 2 B4DY09;Q12905;X6R6Z1;A0A0A0MRL0 B4DY09 ILF2 Interleukin enhancer-binding factor 2 0 1 VKPAPDETSFSEALLK(1)R 151.11 5.57E-07 1703700 0 319.98 199.34 172.18 392.75 301.12 462.32 425.61 186.4 163.99 FALSE TRUE FALSE 0 330.3475619 226.5050171 175.5127929 362.6575798 275.4628819 410.2985368 414.7235125 185.1028272 171.0604114 0 1.931174836 1.324122953 1.026028123 2.12005558 1.610325145 2.398559277 2.424427189 1.082090389 1 7.418362105 -6.015763958 0.668655625 0.571427842 2.375292946 0.487395114 0.515000083 0.44028536 0.363638539 0.121133522 0.392938145 9.64E-07 6.015763958 1.803865104 VKPPPQISPS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 VKPPPQISPSK 11 1 K7ESE9;Q9H6U6-6;Q9H6U6-2;Q9H6U6;Q9H6U6-3;Q9H6U6-8;Q9H6U6-7 K7ESE9 BCAS3 Breast carcinoma-amplified sequence 3 1 0 VKPPPQIS(0.188)PS(0.812)K 106.55 0.0029856 7823600 2818.2 2997.5 2536.8 3114.9 3186.9 3279.2 3127.8 3007.6 3355.6 3296.3 TRUE FALSE FALSE 3114.631206 3094.620967 2882.501893 3175.193394 2942.72041 2999.793712 2775.851712 2930.669947 3332.248106 3438.419625 0.905832198 0.900012594 0.838321731 0.923445577 0.85583516 0.872433862 0.807304522 0.852330508 0.969122001 1 11.74752991 -13.52287875 0.093719951 1.473526238 0.753787172 0.756953269 0.027963482 36.37363482 0.256821502 3.3791406 0.2628562 3.00E-14 13.52287875 -0.719739066 VKPPPS(ph)PTTEGPSLQPDLAPEEAAGTQRPK ddPTM_HeLa_SAHA_4h_R1 1 VKPPPSPTTEGPSLQPDLAPEEAAGTQRPK 30 2 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 VKPPPS(0.32)PT(0.32)T(0.32)EGPS(0.041)LQPDLAPEEAAGTQRPK 98 1.47E-08 24564000 3144.6 3513.2 3054.2 2965.6 3412 4428.4 4345.3 4374.6 3489.8 2881.2 TRUE FALSE FALSE 3475.363456 3627.029985 3470.41047 3023.003476 3150.573297 4051.075407 3856.355408 4262.704066 3465.514198 3005.422632 1.156364306 1.206828599 1.15471629 1.005849708 1.048296257 1.34792204 1.283132484 1.418337648 1.153087143 1 11.55335217 -1 0.334755956 1.063763874 4.931875971 0.558642352 0.088707263 28.12267999 0.356054508 0.030102329 68.55658181 0.1 1 3.868112097 VKPPPSPT(ph)TEGPSLQPDLAPEEAAGTQRPK ddPTM_HeLa_SAHA_4h_R1 1 VKPPPSPTTEGPSLQPDLAPEEAAGTQRPK 30 2 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 VKPPPS(0.11)PT(0.405)T(0.405)EGPS(0.081)LQPDLAPEEAAGTQRPK 80.191 8.31E-06 23366000 4605.3 3995.6 4334.9 4590.8 4505.9 5036.4 5322.3 5424.2 4812.7 4066.4 TRUE FALSE FALSE 5089.706584 4125.060062 4925.637597 4679.661572 4160.658915 4607.270386 4723.420796 5285.456818 4779.208029 4241.722404 1.199915058 0.972496469 1.161235255 1.103245598 0.980889016 1.086179138 1.113561979 1.246063819 1.126714003 1 12.05043449 -9.66384214 1.517079995 1.000085915 1.115887754 0 0.089783348 0.515519746 2.137685462 0.059460683 0.013388079 2.17E-10 9.66384214 0.115801839 VKPPPSPTTEGPS(ph)LQPDLAPEEAAGTQRPK ddPTM_HeLa_SAHA_4h_R1 1 VKPPPSPTTEGPSLQPDLAPEEAAGTQRPK 30 2 Q9Y2D5-5;Q9Y2D5-7;Q9Y2D5-6;Q9Y2D5-4;Q9Y2D5 Q9Y2D5-5 AKAP2 A-kinase anchor protein 2 1 0 VKPPPS(0.074)PT(0.293)T(0.074)EGPS(0.558)LQPDLAPEEAAGTQRPK 75.297 2.24E-05 11077000 1218.4 1055.4 1224.6 1303.3 1622.9 1712.3 1672.7 1496.5 1276.1 1435.2 TRUE FALSE FALSE 1346.556902 1089.595652 1391.482111 1328.527256 1498.553753 1566.402407 1484.483394 1458.221697 1267.219516 1497.078496 0.899456445 0.727814644 0.929465031 0.887413225 1.000985424 1.04630613 0.991586879 0.974044916 0.846461638 1 10.54793415 -5.700755572 9.402973065 0.92671866 1.005734518 0.291504106 0.075192726 0.495027232 72.19874107 0.012099229 0.02420076 1.99E-06 5.700755572 0.079015858 VKVDGPRS(ph)PSYGR ddPTM_HeLa_SAHA_4h_R1 1 VKVDGPRSPSYGR 13 2 J3KTL2;Q07955;J3KSR8 J3KTL2 SRSF1 Serine/arginine-rich splicing factor 1 1 0 VKVDGPRS(0.498)PS(0.498)Y(0.004)GR 75.102 0.017551 36848000 848.21 667.17 865.42 846.33 809.55 1035.9 1068.8 1210.2 620.25 708.22 TRUE FALSE FALSE 937.4286195 688.7867457 983.3549307 862.711941 747.5224539 947.6354922 948.5358111 1179.244836 615.9336297 738.7548301 1.268930613 0.932361749 1.331097802 1.167791946 1.01186811 1.282746932 1.28396563 1.596260069 0.833745655 1 9.528951848 -1.00000091 0.736727193 1.124427602 78.33702403 0.511913221 0.150907642 194.6954223 0.832770641 0.02159937 24931.81709 0.09999979 1.00000091 77.21259643 VKVGVNGFGR ddPTM_HeLa_SAHA_4h_R1 2 VKVGVNGFGR 10 1 P04406 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ; ; 81.95 0.022209 27996000 7423.9 4692.2 6537.2 6757.2 6146.9 6378.1 7546.2 6432.8 4460.6 6510.6 FALSE FALSE TRUE 8204.779864 4844.230359 7428.055572 6887.995377 5675.92585 5834.649998 6697.081715 6268.258291 4429.558321 6791.303828 1.20813029 0.713299019 1.093759867 1.014237553 0.835763793 0.859135469 0.986126064 0.922983046 0.652239752 1 12.72947286 -7.28515009 24.99732702 1.098283743 0.925574475 0 0.178337572 694.7539346 732451.4355 0.02052435 0.023477055 5.19E-08 7.28515009 -0.172709269 VLADPSDDTK ddPTM_HeLa_SAHA_4h_R1 3 VLADPSDDTK 10 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;A0A075B730;P58107;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;A0A075B730;P58107;Q15149-3;Q15149-4 PLEC;EPPK1 Plectin;Epiplakin 0 0 ;; ;; 136.57 0.0077564 27616200 10755 9854.6 9174.3 11564.1 10796.1 12992.4 10331.4 10866.8 12598.1 10004.1 FALSE FALSE TRUE 11886.26025 10173.89551 10424.52583 11787.93988 9968.90515 11885.37443 9168.883681 10588.84299 12510.4288 10435.42571 1.139029741 0.974938233 0.998955492 1.129607953 0.955294535 1.138944855 0.878630536 1.014701583 1.198842208 1 13.34920184 -4.756793433 24.99999903 1.056331335 0.946666079 0.236306626 0.084793285 119.3600521 642256.8198 0.010393111 0.036474314 1.75E-05 4.756793433 -0.109665255 VLAEDEELYGDFEDLETGDVHK ddPTM_HeLa_SAHA_4h_R1 1 VLAEDEELYGDFEDLETGDVHK 22 0 Q14692 Q14692 BMS1 Ribosome biogenesis protein BMS1 homolog 0 0 193.85 2.01E-15 1487400 961.46 944.53 644.19 835.45 743.18 843.39 784.06 850.54 760.7 683.29 FALSE FALSE TRUE 1062.590774 975.1333917 731.9768584 851.6213428 686.237709 771.5284272 695.8355053 828.7844184 755.4062268 712.7499758 1.490832424 1.36812827 1.026975634 1.194838824 0.962802851 1.082467139 0.976268718 1.162798241 1.059847425 1 9.477252275 -6.744802243 24.92404614 1.248484218 1.0652196 0.221064749 0.147261645 325.9514865 488305.7744 0.031209183 0.044066458 1.80E-07 6.744802243 -0.183264618 VLAET(ph)PDSFEK ddPTM_HeLa_SAHA_4h_R1 2 VLAETPDSFEK 11 0 Q99567;J3KMX1 Q99567 NUP88 Nuclear pore complex protein Nup88 1 0 VLAET(0.96)PDS(0.04)FEK;VLAET(0.995)PDS(0.005)FEK ; 146.07 0.0011776 30641000 5420.5 5864.2 4957.2 5936.6 5843.9 6746.2 6207.4 6197.9 6170.4 5325.1 TRUE FALSE FALSE 5990.65306 6054.203928 5632.7414 6051.511477 5396.141645 6171.385807 5508.927015 6039.366692 6127.459684 5554.691121 1.078485361 1.089926297 1.014051236 1.089441581 0.971456653 1.111022318 0.991761179 1.08725518 1.103114386 1 12.43949097 -9.480053682 1.245052144 1.000257882 1.055008965 0 0.054643325 0.590434506 1.649681032 0.027140411 0.00677931 3.31E-10 9.480053682 0.054751083 VLAGDKNFITAEELR ddPTM_HeLa_SAHA_4h_R1 1 VLAGDKNFITAEELR 15 1 O43707;O43707-2;F5GXS2;O43707-3;H7C144 O43707 ACTN4 Alpha-actinin-4 0 0 75.89 0.019292 1411700 659.58 820.53 604.15 571.16 868.97 908.55 1037.3 495.24 650.91 640.07 FALSE FALSE TRUE 728.9576507 847.1157104 686.4804157 582.2156277 802.3897063 831.1364286 920.580274 482.5724779 646.3802643 667.6665501 1.091798968 1.268770631 1.028178536 0.872015571 1.201782096 1.244837604 1.378802448 0.722774681 0.968118388 1 9.382983953 VLAGETLS(ph)VNDPPDVLDR ddPTM_HeLa_SAHA_4h_R1 2 VLAGETLSVNDPPDVLDR 18 0 Q12906;Q12906-7;Q12906-5;Q12906-4;Q12906-2;Q12906-6;Q12906-3;K7EQR9;K7EKJ9 Q12906 ILF3 Interleukin enhancer-binding factor 3 1 0 VLAGET(0.005)LS(0.995)VNDPPDVLDR;VLAGET(0.01)LS(0.99)VNDPPDVLDR ; 167.18 1.15E-09 3596400 1057.78 945.6 991.85 1125.08 1082.62 1213.26 1127.36 1106.05 1132.62 1014.45 TRUE FALSE FALSE 1169.042154 976.2380604 1127.014153 1146.85755 999.6698895 1109.883422 1000.506486 1077.758843 1124.738005 1058.187904 1.104758568 0.922556435 1.065041613 1.083793857 0.944699789 1.048852872 0.945490382 1.018494767 1.062890627 1 10.04738012 -5.765053472 24.99433224 1.043488081 0.990496909 0.16252059 0.055720364 135.0628903 934076.5133 0.008779611 0.016374724 1.72E-06 5.765053472 -0.052991172 VLAGETLSVNDPPDVLDR ddPTM_HeLa_SAHA_4h_R1 2 VLAGETLSVNDPPDVLDR 18 0 Q12906;Q12906-7;Q12906-5;Q12906-4;Q12906-2;Q12906-6;Q12906-3;K7EQR9;K7EKJ9 Q12906 ILF3 Interleukin enhancer-binding factor 3 0 0 ; ; 196.24 9.13E-13 6021900 2100.68 2388.08 2059.76 2286.51 2309.86 2753.18 2620.56 2400.08 2506.55 2245.06 FALSE FALSE TRUE 2321.639161 2465.455359 2340.453366 2330.768707 2132.879026 2518.593575 2325.687692 2338.689429 2489.106714 2341.855524 0.991367374 1.052778591 0.999401262 0.995265798 0.910764564 1.075469238 0.993096145 0.99864804 1.062878 1 11.19343636 VLAINILGR ddPTM_HeLa_SAHA_4h_R1 2 VLAINILGR 9 0 O43747;O43747-2 O43747 AP1G1 AP-1 complex subunit gamma-1 0 0 ; ; 147.69 0.00015686 2420200 886.43 1039.2 1005.8 1169.86 1248.75 766.63 1345.74 449.55 691.13 960.5 FALSE FALSE TRUE 979.6687745 1072.870762 1142.865186 1192.504332 1153.071045 701.3088111 1194.313793 438.0511619 686.3203701 1001.911856 0.977799363 1.070823502 1.140684362 1.190228786 1.150870746 0.699970568 1.192034795 0.437215269 0.685010728 1 9.968539876 -4.250737144 24.7361283 1.019780079 0.437214885 0.4893501 0.175964428 677.2369241 1565266.455 0.018520079 0.358741781 5.61E-05 4.250737144 -0.582565195 VLALPEPSPAAPTLR ddPTM_HeLa_SAHA_4h_R1 2 VLALPEPSPAAPTLR 15 0 Q15149;Q15149-7;Q15149-8;Q15149-9;Q15149-5;Q15149-6;Q15149-3;Q15149-2;H0YDN1;Q15149-4 Q15149;Q15149-3;Q15149-4 PLEC Plectin 0 0 ; ; 160.67 6.97E-07 1895260 748.07 710.44 550.05 883.25 662.85 565.95 892.95 750.67 890.32 761.92 FALSE FALSE TRUE 826.7554349 733.4587221 625.0079495 900.346581 612.0625762 517.7278761 792.4729159 731.4689484 884.1241906 794.7700999 1.040244764 0.922856461 0.786400935 1.13283902 0.770112736 0.651418412 0.997109624 0.920352877 1.112427595 1 9.634393788 -7.112692237 4.47214955 1.018684574 0.876839031 0.262163148 0.127349579 0.261630522 8.551235562 0.020432394 0.025273823 7.71E-08 7.112692237 -0.141845543 VLALSVETDYTFPLAEK ddPTM_HeLa_SAHA_4h_R1 1 VLALSVETDYTFPLAEK 17 0 F8VWS0;P05388-2;P05388;F8VW21;F8VZS0;F8W1K8 F8VWS0 RPLP0 60S acidic ribosomal protein P0 0 0 235.73 1.44E-27 29433000 879.95 1013.4 1050.3 975.67 1006.9 1145.5 1022.2 669.67 844.29 956.83 FALSE FALSE TRUE 972.5071784 1046.234825 1193.429414 994.5555037 929.7515395 1047.896956 907.1793657 652.5408111 838.4145171 998.0836239 0.974374446 1.048243654 1.195720865 0.996465106 0.931536714 1.049908976 0.908921201 0.653793726 0.84002432 1 9.963016886 -4.305998529 2.588732962 1.006718862 0.59887394 0.59923463 0.086371974 0.184786746 1.688519673 0.009997107 0.155868573 4.94E-05 4.305998529 -0.407844921 VLANPGNSQVAR ddPTM_HeLa_SAHA_4h_R1 1 VLANPGNSQVAR 12 0 Q14974;J3QR48 Q14974 KPNB1 Importin subunit beta-1 0 0 138.25 0.0044333 3195100 733.89 652.45 550.9 604.14 584.04 769.85 438.46 593.17 514.28 373.37 FALSE FALSE TRUE 811.0839174 673.5898081 625.973783 615.8340033 539.2909814 704.2544489 389.1233268 577.9975703 510.7010836 389.4678079 2.082544182 1.72951344 1.607254233 1.581219271 1.384686925 1.808248165 0.999115508 1.484070207 1.311279323 1 8.605360275 -5.762639825 24.3448383 1.55367758 1.416837577 0.040160966 0.318246886 96.9137112 1965486.539 0.064754292 0.122318172 1.73E-06 5.762639825 -0.136840004 VLAPILPDNFS(ph)TPTGSR ddPTM_HeLa_SAHA_4h_R1 1 VLAPILPDNFSTPTGSR 17 0 Q9NQS7-2;Q9NQS7 Q9NQS7-2 INCENP Inner centromere protein 1 0 VLAPILPDNFS(0.483)T(0.483)PT(0.034)GSR 128.01 0.00023532 44440000 1560.1 1342.3 1437.8 1481.4 1876.7 2069.9 1925.8 1720.8 2000.3 1948.8 TRUE FALSE FALSE 1724.198476 1385.791401 1633.735896 1510.074639 1732.907651 1893.532875 1709.103916 1676.784428 1986.379749 2032.822305 0.848179633 0.681708085 0.803678655 0.742846355 0.85246391 0.931479781 0.840754212 0.824855386 0.977153657 1 10.9892684 -8.660669633 0.91013777 0.987369864 0.816584142 0.533442479 0.064069557 0.32297132 0.538689768 0.029620382 0.01421301 2.18E-09 8.660669633 -0.170785722 VLAPILPDNFST(ph)PTGSR ddPTM_HeLa_SAHA_4h_R1 1 VLAPILPDNFSTPTGSR 17 0 Q9NQS7-2;Q9NQS7 Q9NQS7-2 INCENP Inner centromere protein 1 0 VLAPILPDNFS(0.08)T(0.917)PT(0.003)GSR 198.61 4.31E-15 116740000 2458.6 2338.9 2106.5 2580 2506 2618.5 2518.6 2819.9 2157 2539.3 TRUE FALSE FALSE 2717.206828 2414.681895 2393.56285 2629.939631 2313.990821 2395.389069 2235.200499 2747.771041 2141.989261 2648.78165 1.025832699 0.911619836 0.90364672 0.992886534 0.873605728 0.904336176 0.843859855 1.037371669 0.808669624 1 11.37111321 -7.259432884 24.63900849 1.012198775 0.920012096 0 0.083294339 101.092298 1241376.872 0.008242581 0.009827124 5.50E-08 7.259432884 -0.092186679 VLATAFDTTLGGR ddPTM_HeLa_SAHA_4h_R1 2 VLATAFDTTLGGR 13 0 A0A087WYC1;P34932;A0A087WTS8 A0A087WYC1 HSPA4 Heat shock 70 kDa protein 4 0 0 ; ; 163.66 6.11E-07 1786530 389.83 400.5 406.28 546.22 517.36 507.05 520.84 338.189 451.03 519.48 FALSE FALSE TRUE 430.834108 413.4764628 461.6457226 556.7928779 477.7199886 463.8464874 462.2337124 329.5386151 447.8912455 541.8773251 0.795076834 0.763044408 0.851937701 1.0275257 0.881601732 0.855999072 0.853022799 0.60814247 0.826554692 1 9.081822468 -9.343337652 1.033311676 1.001332347 0.835479137 0 0.112342425 0.586417421 1.106893217 0.07170735 0.018210808 4.54E-10 9.343337652 -0.165853209 VLATVTK(ac)PVGGDK ddPTM_HeLa_SAHA_4h_R1 2 VLATVTKPVGGDK 13 1 Q02878;F8VZ45;U3KQR5;F8VZA3;F8VWR1;F8VU16 Q02878 RPL6 60S ribosomal protein L6 0 1 ; VLATVTK(1)PVGGDK;VLATVTK(1)PVGGDK 135.86 0.0004016 2190680 480.99 1814.18 624.16 693.39 1776.46 1219.5 1771.15 1276.24 1393.53 616.46 FALSE TRUE FALSE 531.5827351 1872.960622 709.2172743 706.8115661 1640.348019 1115.591739 1571.855541 1243.595629 1383.832311 643.0386075 0.826673125 2.912672117 1.102915542 1.099174385 2.5509324 1.73487521 2.444418612 1.933936181 2.152020571 1 9.328761548 -7.308403216 24.99491474 0.918150999 1.933426964 0.072713525 0.675573725 271.8640682 144689.8403 0.090809796 0.103845109 4.92E-08 7.308403216 1.015275966 VLAVNQENEHLMEDYEK ddPTM_HeLa_SAHA_4h_R1 6 VLAVNQENEHLMEDYEK 17 0 O43707;O43707-2;K7EJH8 O43707 ACTN4 Alpha-actinin-4 0 0 ;;;;; ;;;;; 193.32 3.60E-12 65061800 12133.68 10977.7 10836.88 12388.55 11839.44 13378.41 13088.89 12292.2 13994.06 11328.21 FALSE FALSE TRUE 13409.95613 11333.38468 12313.67357 12628.3483 10932.30466 12238.4942 11616.09365 11977.78332 13896.6742 11816.62457 1.13483813 0.959105082 1.042063535 1.068693367 0.92516307 1.035701365 0.983029763 1.013638307 1.176027394 1 13.52853037 -6.408247313 1.159347674 1.058968247 0.997107396 0.20292543 0.065139833 0.687323394 1.834397317 0.011414632 0.021039687 3.91E-07 6.408247313 -0.061860851 VLAVNQENEQLMEDYEK ddPTM_HeLa_SAHA_4h_R1 3 VLAVNQENEQLMEDYEK 17 0 P12814-4;P12814-3;P12814;P12814-2;H9KV75;G3V2N5;G3V2W4 P12814-4 ACTN1 Alpha-actinin-1 0 0 ;; ;; 201.06 1.19E-14 7083000 2607.28 2118.35 2347.94 2345.32 2630.4 2617.19 2155.18 1997.54 2588.31 2132.7 FALSE FALSE TRUE 2881.525673 2186.98593 2667.905036 2390.71706 2428.85932 2394.190688 1912.673474 1946.445819 2570.29774 2224.651134 1.295270808 0.983069164 1.199246477 1.074648075 1.091793353 1.076209501 0.859763333 0.874944295 1.15537115 1 11.1193634 -4.831132611 3.25218217 1.126442691 0.860542687 0.55170329 0.08708619 0.166918326 3.482956041 0.016408155 0.061870766 1.48E-05 4.831132611 -0.265900004 VLDDVSIRS(ph)PETK ddPTM_HeLa_SAHA_4h_R1 3 VLDDVSIRSPETK 13 1 E7ETD6;E9PE19;A0A2R8Y7Q1;Q12830-4;Q12830;F5GXF5;Q12830-2 E7ETD6 BPTF Nucleosome-remodeling factor subunit BPTF 1 0 VLDDVS(0.005)IRS(0.994)PET(0.001)K;VLDDVS(0.009)IRS(0.99)PET(0.001)K;VLDDVSIRS(1)PETK ;; 102.63 0.0025369 45702000 8614.7 7131.5 6405.2 7810.23 9408.4 10581.8 9033.9 8602.6 8058.7 8331.4 TRUE FALSE FALSE 9520.833672 7362.565279 7278.067299 7961.408295 8687.530425 9680.171108 8017.381796 8382.557948 8002.618851 8690.607427 1.09553144 0.847186499 0.83746359 0.916093422 0.999645939 1.113865882 0.922534111 0.964553746 0.920835387 1 13.0852413 -7.279994742 24.90313586 1.045112068 0.945908936 0.043739393 0.086260423 869.1010981 1166416.852 0.014793825 0.016933774 5.25E-08 7.279994742 -0.099203132 VLDEEGS(ph)ER ddPTM_HeLa_SAHA_4h_R1 1 VLDEEGSER 9 0 O43719 O43719 HTATSF1 HIV Tat-specific factor 1 1 0 VLDEEGS(1)ER 109.16 0.0065381 10118000 828.23 1716.2 1093.3 1743.4 1380.9 1663.9 1164 794.42 3430.5 1631.6 TRUE FALSE FALSE 915.3470315 1771.806006 1242.28923 1777.146028 1275.09574 1522.126359 1033.023657 774.0998867 3406.626871 1701.946261 0.537823698 1.041046975 0.729922712 1.044184572 0.749198591 0.894344548 0.606966084 0.454832156 2.001606602 1 10.73296977 -4.567156918 3.907981355 0.814411031 0.478746211 0.050055463 0.405480079 0.206344537 6.447501492 0.02681252 0.128468117 2.71E-05 4.567156918 -0.335664821 VLDILK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 VLDILKK 7 1 A0A1W2PQD2;Q9UBB4 A0A1W2PQD2 ATXN10 Ataxin-10 0 1 VLDILK(1)K 76.899 0.023175 360430 224.17 532.61 409.18 427.95 559.6 688.47 531.85 620.74 491.52 143.02 FALSE TRUE FALSE 247.7492291 549.8669135 464.9409195 436.2335911 516.7235689 629.8084828 472.0048382 604.8623696 488.0994723 149.1862921 1.660670197 3.68577371 3.116512334 2.924086287 3.46361292 4.221624345 3.163861984 4.054409832 3.271744779 1 7.22097117 -7.355944092 3.148440653 1.271707236 3.499924899 0.38685653 0.749899997 0.066939933 1.23391019 0.077369661 0.088429037 4.41E-08 7.355944092 2.228217663 VLDNYLTSPLPEEVDET(ph)SAEDEGVSQR ddPTM_HeLa_SAHA_4h_R1 1 VLDNYLTSPLPEEVDETSAEDEGVSQR 27 0 O00299 O00299 CLIC1 Chloride intracellular channel protein 1 1 0 VLDNYLTSPLPEEVDET(0.543)S(0.455)AEDEGVS(0.002)QR 68.708 0.00087088 2225500 272.97 433.64 295.57 152.46 258.44 392.89 231.97 197.94 424.71 259.77 TRUE FALSE FALSE 301.682237 447.6902205 335.8487403 155.4110838 238.638383 359.4135617 205.8681251 192.8769814 421.7544085 270.969956 1.113342016 1.6521766 1.239431653 0.573536218 0.880682075 1.326396354 0.759745206 0.711802092 1.556461885 1 8.08198909 -6.29411236 24.95422983 1.121980854 0.873517032 0.295609158 0.288594061 880.4380617 672439.2091 0.041892151 0.063994161 5.08E-07 6.29411236 -0.248463822 VLDNYLTSPLPEEVDETSAEDEGVSQR ddPTM_HeLa_SAHA_4h_R1 2 VLDNYLTSPLPEEVDETSAEDEGVSQR 27 0 O00299 O00299 CLIC1 Chloride intracellular channel protein 1 0 0 ; ; 138.78 1.31E-09 6027400 1745.97 1702.11 1401.28 1702.54 1741.62 1798.72 1869.47 1515.39 1938.71 1686.07 FALSE FALSE TRUE 1929.619135 1757.259481 1592.239141 1735.495124 1608.177452 1645.458937 1659.112315 1476.628518 1925.218359 1758.764729 1.097144549 0.999144145 0.905316734 0.986769347 0.914378953 0.935576493 0.943339543 0.839582744 1.094642352 1 10.78034679 -6.93701568 4.417595063 1.046086832 0.925667705 0.677419762 0.043953329 0.111825816 4.418054752 0.007873914 0.010378003 1.16E-07 6.93701568 -0.120419127 VLDPFTIK(ac)PLDR ddPTM_HeLa_SAHA_4h_R1 1 VLDPFTIKPLDR 12 1 P29401;P29401-2;A0A0B4J1R6 P29401 TKT Transketolase 0 1 VLDPFTIK(1)PLDR 133.42 0.00047924 1785000 190.79 769.77 183.32 378.58 799.49 526.22 542.41 287.5 432.44 209.33 FALSE TRUE FALSE 210.8581676 794.7110531 208.3018949 385.9079633 738.2332489 481.3830956 481.3765993 280.1461663 429.4306148 218.3552407 0.965665705 3.639532765 0.953958761 1.767340056 3.380881752 2.204586865 2.204557114 1.282983478 1.966660445 1 7.770533347 VLDSGAPIK(ac)IPVGPETLGR ddPTM_HeLa_SAHA_4h_R1 1 VLDSGAPIKIPVGPETLGR 19 1 P06576;H0YH81;F8W079 P06576 ATP5B "ATP synthase subunit beta, mitochondrial;ATP synthase subunit beta" 0 1 VLDSGAPIK(1)IPVGPETLGR 186.85 1.31E-20 1098200 189.77 315.78 243.73 64.413 276.52 201.94 375.68 316.48 133.67 0 FALSE TRUE FALSE 209.7308793 326.0114792 276.9442551 65.65980676 255.3330973 184.7335759 333.4074977 308.3848999 132.7397796 0 0 VLDSGAPIKIPVGPETLGR ddPTM_HeLa_SAHA_4h_R1 2 VLDSGAPIKIPVGPETLGR 19 1 P06576;H0YH81;F8W079 P06576 ATP5B "ATP synthase subunit beta, mitochondrial;ATP synthase subunit beta" 0 0 ; ; 127.49 2.66E-07 4459700 1666.31 1723.45 1682.19 1208.98 1986.13 1380.2 2217.68 1632.65 1560.2 2270.15 FALSE FALSE TRUE 1841.580131 1779.290911 1911.430093 1232.381556 1833.953148 1262.599195 1968.14081 1590.889177 1549.342441 2368.027276 0.777685354 0.751381088 0.807182464 0.520425406 0.774464537 0.533186086 0.831130971 0.671820461 0.654275589 1 11.20946998 -8.554629506 0.421282221 1.03639391 0.673843556 0 0.143537531 0.671680894 0.235152814 0.104839157 0.034732679 2.79E-09 8.554629506 -0.362550354 VLDSVEAGDT(ph)TPPTK ddPTM_HeLa_SAHA_4h_R1 3 VLDSVEAGDTTPPTK 15 0 Q8IZ21-3 Q8IZ21-3 PHACTR4 Phosphatase and actin regulator 4 1 0 VLDSVEAGDT(0.709)T(0.29)PPT(0.001)K;VLDSVEAGDT(0.616)T(0.384)PPT(0.001)K;VLDSVEAGDT(0.5)T(0.5)PPT(0.001)K ;; 198.48 4.30E-12 39405000 5881.1 6203.5 5792.2 6019.2 6544.1 7154 7324.9 7012.9 6462.3 5867.5 TRUE FALSE FALSE 6499.701081 6404.49747 6581.530852 6135.71032 6042.692472 6544.438953 6500.682974 6833.520173 6417.328328 6120.47664 1.061959952 1.046405018 1.075329789 1.00248897 0.987291158 1.069269493 1.06212038 1.116501308 1.0485014 1 12.57942829 -11.02142749 0.007359971 1.50E-05 2.017462447 0.145941801 0.034995198 13757.75559 13.70225309 1997.21729 1764.812665 9.52E-12 11.02142749 2.017447489 VLDSVEAGDTT(ph)PPTK ddPTM_HeLa_SAHA_4h_R1 1 VLDSVEAGDTTPPTK 15 0 Q8IZ21-3 Q8IZ21-3 PHACTR4 Phosphatase and actin regulator 4 1 0 VLDSVEAGDT(0.229)T(0.769)PPT(0.002)K 173.25 1.04E-06 13800000 3094.1 2751.4 2866.9 2978.1 3398.5 3123.4 3274.6 3454.6 2726.4 2718.8 TRUE FALSE FALSE 3419.551634 2840.547165 3257.586202 3035.745432 3138.107664 2857.268748 2906.13339 3366.236334 2707.42676 2836.020773 1.205756906 1.001596036 1.148646806 1.070424258 1.10651787 1.007492179 1.02472218 1.186957573 0.954656886 1 11.46965238 VLDTSSLTQS(ph)APAS(ph)PTNK ddPTM_HeLa_SAHA_4h_R1 3 VLDTSSLTQSAPASPTNK 18 0 Q8N122;Q8N122-3;I3L436 Q8N122 RPTOR Regulatory-associated protein of mTOR 2 0 VLDTSSLT(0.022)QS(0.978)APAS(0.978)PT(0.022)NK;VLDTSSLT(0.035)QS(0.974)APAS(0.977)PT(0.014)NK;VLDT(0.006)S(0.041)S(0.019)LT(0.006)QS(0.929)APAS(0.984)PT(0.016)NK ;; 176.44 5.81E-08 42978500 5546.24 5339.54 4382.28 5332.09 5517.46 7198.3 5050.66 5072.95 4910.64 5670.44 TRUE FALSE FALSE 6129.61897 5512.544599 4979.474296 5435.300312 5094.713407 6584.964343 4482.346444 4943.191285 4876.466456 5914.920419 1.036297792 0.931972742 0.841849753 0.918913515 0.861332536 1.113280294 0.757803339 0.835715603 0.824434838 1 12.53014304 -7.109396357 4.242494564 1.016904478 0.892201771 0 0.10593811 0.206939045 6.327677423 0.014075424 0.017442508 7.77E-08 7.109396357 -0.124702708 VLDTSSLTQS(ph)APASPTNK ddPTM_HeLa_SAHA_4h_R1 1 VLDTSSLTQSAPASPTNK 18 0 Q8N122;Q8N122-3;I3L436 Q8N122 RPTOR Regulatory-associated protein of mTOR 1 0 VLDTSSLT(0.008)QS(0.704)APAS(0.288)PTNK 194.67 3.02E-13 30268000 1349.6 1319.8 872.92 1372.5 1183.2 1452.3 1360.6 1569.2 1347.8 1185.8 TRUE FALSE FALSE 1491.55712 1362.562386 991.8769916 1399.066722 1092.543472 1328.55587 1207.501707 1529.062136 1338.42055 1236.925641 1.205858356 1.101571785 0.80188894 1.131083936 0.883273364 1.074079011 0.976212043 1.236179513 1.082054172 1 10.27254306 VLDTSSLTQSAPAS(ph)PTNK ddPTM_HeLa_SAHA_4h_R1 2 VLDTSSLTQSAPASPTNK 18 0 Q8N122;Q8N122-3;I3L436 Q8N122 RPTOR Regulatory-associated protein of mTOR 1 0 VLDTSSLTQS(0.002)APAS(0.973)PT(0.025)NK;VLDTSSLTQS(0.003)APAS(0.969)PT(0.027)NK ; 305.55 5.64E-103 27077000 4036.07 5170.7 4259.64 5175.5 5078.9 5610.8 6047.6 5666.8 5605.3 5311.81 TRUE FALSE FALSE 4460.602361 5338.234073 4840.121556 5275.679286 4689.755779 5132.728275 5367.108132 5521.851461 5566.292261 5540.828124 0.805042542 0.963436142 0.873537574 0.952146352 0.846399793 0.926346777 0.968647287 0.996575122 1.004595728 1 12.4358859 -4.730456363 2.979958766 0.906873248 0.990235813 0.111609647 0.062285472 0.383982597 6.721630638 0.010472324 0.047159051 1.86E-05 4.730456363 0.083362565 VLEDEEGS(ph)KDIELSDDPYDCIR ddPTM_HeLa_SAHA_4h_R1 2 VLEDEEGSKDIELSDDPYDCIR 22 1 Q15024 Q15024 EXOSC7 Exosome complex component RRP42 1 0 VLEDEEGS(0.991)KDIELS(0.009)DDPYDCIR;VLEDEEGS(0.992)KDIELS(0.007)DDPY(0.001)DCIR ; 68.134 0.0025109 46328000 2061.03 2284.6 2215.5 3010.1 3188.9 3744.4 3411 3322.3 2062.34 2122.6 TRUE FALSE FALSE 2277.818592 2358.622539 2517.416802 3068.364838 2944.567171 3425.356055 3027.185303 3237.320377 2047.988008 2214.115674 1.028771269 1.065266177 1.136985223 1.385819573 1.329906656 1.547053795 1.367220935 1.462127934 0.924968841 1 11.11251488 -6.339812239 1.352636398 1.012430438 1.441922156 0.914937889 0.060440271 0.065812619 0.23725793 0.00813454 0.014900581 4.57E-07 6.339812239 0.429491718 VLEDSDLK ddPTM_HeLa_SAHA_4h_R1 4 VLEDSDLK 8 0 P11021 P11021 HSPA5 78 kDa glucose-regulated protein 0 0 ;;; ;;; 141.52 0.0044244 28341200 6313.85 6174.57 6211.55 6924.8 7157.11 7642.97 7431.53 7718.65 7394.6 6426.93 FALSE FALSE TRUE 6977.969712 6374.630119 7058.027686 7058.839517 6608.733778 6991.745958 6595.314686 7521.218109 7343.140377 6704.026405 1.040862504 0.950865903 1.052804279 1.052925375 0.985785762 1.042917425 0.983784115 1.121895657 1.095332854 1 12.71081212 -4.249675374 24.35097081 1.01713454 1.121895749 0.338845411 0.040836487 804.7278891 1665708.246 0.004274201 0.090492534 5.63E-05 4.249675374 0.104761208 VLEEEEQRR ddPTM_HeLa_SAHA_4h_R1 1 VLEEEEQRR 9 1 E7EX44;Q05682-3;Q05682-6;Q05682-2;Q05682;Q05682-5;Q05682-4;E9PGZ1;C9J813 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 0 0 104.44 0.0037263 0 1207.3 1101 979.91 1364.5 1830.2 1498.3 1359.1 1085.2 1194.1 1255 FALSE FALSE TRUE 1334.289353 1136.673122 1113.447032 1390.911871 1689.970471 1370.636411 1206.170491 1057.442155 1185.790161 1309.109192 1.019234577 0.868279842 0.850537937 1.062487285 1.290931637 1.046999303 0.921367368 0.807757032 0.905799278 1 10.35436972 -4.476028507 3.323211275 1.013552172 0.814140706 0.209428219 0.1185239 0.299592138 6.110381286 0.016608617 0.113360361 3.34E-05 4.476028507 -0.199411467 VLEEGGFFEEK ddPTM_HeLa_SAHA_4h_R1 1 VLEEGGFFEEK 11 0 Q9NR12-2;Q9NR12 Q9NR12-2 PDLIM7 PDZ and LIM domain protein 7 0 0 120.63 0.012806 5284900 1245 1399.2 1238.8 1192.9 1413.6 1531.8 1641 1257.2 1425 942.4 FALSE FALSE TRUE 1375.954812 1444.534998 1407.617213 1215.990304 1305.290273 1401.282022 1456.350361 1225.042644 1415.083309 983.031476 1.399705753 1.46946973 1.431914691 1.23698003 1.327821443 1.425470147 1.481489044 1.246188626 1.439509663 1 9.941093801 -9.151224355 0.80213917 0.9876891 1.381776558 0 0.156842641 0.267214784 0.296773265 0.065479727 0.016823744 7.06E-10 9.151224355 0.394087458 VLENIELNK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 VLENIELNKK 10 1 B0QY90;B0QY89;Q9Y262-2;Q9Y262 B0QY90 EIF3L Eukaryotic translation initiation factor 3 subunit L 0 1 VLENIELNK(1)K 116.77 0.0023444 633160 0 74.867 69.676 0 177.68 421.91 135.61 502.93 339.92 202.74 FALSE TRUE FALSE 0 77.29273992 79.17108242 0 164.0661968 385.9608944 120.3508059 490.0657788 337.554469 211.4811136 0 0.365482944 0.374364789 0 0.775795975 1.825037176 0.569085361 2.31730281 1.596144749 1 7.724385018 -5.44852747 5.297179054 0.454608413 1.460187212 0.347452345 0.607888922 0.16311932 8.273382548 0.076615205 0.172814421 3.56E-06 5.44852747 1.005578799 VLEQLTGQTPVFSK ddPTM_HeLa_SAHA_4h_R1 2 VLEQLTGQTPVFSK 14 0 P62913;Q5VVC8;P62913-2 P62913 RPL11 60S ribosomal protein L11 0 0 ; ; 188.09 3.85E-16 2195880 1457.37 1309.42 1209.82 1236.9 1328.39 1397.27 1412.61 1147.19 1390.27 1352.39 FALSE FALSE TRUE 1610.662863 1351.846067 1374.687969 1260.841988 1226.609045 1278.214735 1253.659405 1117.846541 1380.594998 1410.698151 1.141748759 0.95828159 0.974473503 0.893771631 0.869504964 0.906086631 0.888680122 0.792406611 0.978660812 1 10.46219361 -6.619508424 1.476234041 1.064982696 0.870081286 0.6083324 0.05597374 0.174515699 0.767410622 0.010949384 0.017220634 2.40E-07 6.619508424 -0.19490141 VLETAEDIQER ddPTM_HeLa_SAHA_4h_R1 2 VLETAEDIQER 11 0 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2;A0A0D9SFF6;A0A1B0GTB7 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 0 0 ; ; 164.97 0.00093663 11733000 2167.7 2017.56 1657.91 2119.5 2165.25 2508.7 2165.8 2125 2227.2 2005.04 FALSE FALSE TRUE 2395.708632 2082.930268 1883.841341 2160.525987 1999.349013 2294.944646 1922.098484 2070.645577 2211.700734 2091.487087 1.145457052 0.995908739 0.90071861 1.03300948 0.955946143 1.097278898 0.919010448 0.990035076 1.057477595 1 11.03031338 -7.031454712 23.80380003 1.068793058 0.982911181 0.278451976 0.061599101 391.4618416 296243.7006 0.011854749 0.014529435 9.30E-08 7.031454712 -0.085881877 VLFASQEIPASPFR ddPTM_HeLa_SAHA_4h_R1 1 VLFASQEIPASPFR 14 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 122.18 0.0022373 417790 148.39 204.08 0 0 0 0 130.64 0 0 0 FALSE FALSE TRUE 163.998341 210.6923259 0 0 0 0 115.9400434 0 0 0 0 VLFSSNGGVVK ddPTM_HeLa_SAHA_4h_R1 1 VLFSSNGGVVK 11 0 A0A0U1RRM4;A0A0D9SF20;A6NLN1;P26599;P26599-2;P26599-3 A0A0U1RRM4;A6NLN1 PTBP1 Polypyrimidine tract-binding protein 1 0 0 110.38 0.011287 2802100 733.7 898.03 1246.9 1173.1 1057.1 796.69 1076.9 631.11 602.2 659.14 FALSE FALSE TRUE 810.8739323 927.1267612 1416.821038 1195.807047 976.1052264 728.8075299 955.7243778 614.96712 598.0092412 687.5587512 1.17935221 1.348432784 2.060654506 1.739207078 1.419668101 1.059993097 1.390025763 0.894421195 0.869757297 1 9.425339185 -7.397922372 2.55942589 1.072616671 1.438898357 0.256661756 0.311801129 0.334908831 4.138442772 0.059235172 0.066863529 4.00E-08 7.397922372 0.366281686 VLGAGGAGPAPAT(ph)PSR ddPTM_HeLa_SAHA_4h_R1 2 VLGAGGAGPAPATPSR 16 0 B7WPE2;Q32P44;H7C355;G3V195 B7WPE2 EML3 Echinoderm microtubule-associated protein-like 3 1 0 VLGAGGAGPAPAT(0.789)PS(0.211)R;VLGAGGAGPAPAT(0.981)PS(0.019)R ; 143.93 0.00018174 14908800 1017.83 1271.57 769.16 1273.25 1110 1527.07 1256.86 1175.64 1520.96 1267.1 TRUE FALSE FALSE 1124.890029 1312.769702 873.9771192 1297.895595 1024.95204 1396.955045 1115.434805 1145.568831 1510.375516 1321.730882 0.851073426 0.993220118 0.661236815 0.981966611 0.775461975 1.056913373 0.843919757 0.866718669 1.142725449 1 10.36821274 -9.358419391 0.912793235 1.005436975 0.877852646 0.257514198 0.117235124 0.918332765 1.272791195 0.082710557 0.018157642 4.38E-10 9.358419391 -0.127584329 VLGLVLLR ddPTM_HeLa_SAHA_4h_R1 1 VLGLVLLR 8 0 J3QLE5;P14678-2;P63162;P14678;P63162-2;P14678-3 J3QLE5 SNRPN;SNRPB Small nuclear ribonucleoprotein-associated proteins B and B;Small nuclear ribonucleoprotein-associated protein N 0 0 100.27 0.014952 5217300 1854.9 1752.5 3312 3009.4 2854.2 1834.7 2855.5 1789.5 1661.5 2082 FALSE FALSE TRUE 2050.006893 1809.28215 3763.342112 3067.651289 2635.511813 1678.373238 2534.191625 1743.727181 1649.937486 2171.765209 0.943935783 0.833092888 1.732849433 1.412515163 1.21353441 0.772815234 1.16688103 0.802907779 0.759721852 1 11.08465243 -3.349963668 14.29870524 1.045723751 1.056943035 0 0.303713059 0 0 0.039104107 0 0.000446721 3.349963668 0.011219284 VLGMTLIQK ddPTM_HeLa_SAHA_4h_R1 1 VLGMTLIQK 9 0 Q04760-2;Q04760 Q04760-2 GLO1 Lactoylglutathione lyase 0 0 126.52 0.0028322 355340 244.17 273.99 635.47 305.4 278.26 106.73 362.29 0 0 144.21 FALSE FALSE TRUE 269.8529209 282.8674558 722.0685422 311.3114586 256.9397789 97.63600355 321.5241757 0 0 150.4275988 1.793905659 1.880422595 4.800106814 2.069510256 1.708062755 0.649056452 2.137401502 0 0 1 7.232925471 -4.252358076 24.99997418 1.702185697 0.000216501 0.162248452 1.202549511 1782.812884 4907813.918 0.157925772 2.611152525 5.59E-05 4.252358076 -1.701969196 VLGS(ph)EGEEEDEALS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 2 VLGSEGEEEDEALSPAK 17 0 M0R0Q7;P18858-2;P18858-3;P18858;B4E135;M0QY71;M0R1G7;F5GZ28 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 2 0 VLGS(1)EGEEEDEALS(1)PAK;VLGS(1)EGEEEDEALS(1)PAK ; 258.13 4.39E-46 98641000 4716.8 5880.7 4759.5 4551.9 5425.2 5687 5396.3 4576.4 5920.3 5138.7 TRUE FALSE FALSE 5212.934665 6071.238538 5408.099874 4640.008607 5009.522348 5202.435606 4789.094122 4459.342315 5879.10015 5360.254505 0.97251626 1.132639977 1.008925951 0.865632145 0.934568003 0.970557573 0.893445286 0.831927348 1.096794965 1 12.38808579 -6.273562878 24.41207387 1.001423422 0.904831219 0.519707206 0.062763737 425.633297 857061.2851 0.008911222 0.013680144 5.33E-07 6.273562878 -0.096592204 VLGS(ph)EGEEEDEALSPAK ddPTM_HeLa_SAHA_4h_R1 4 VLGSEGEEEDEALSPAK 17 0 M0R0Q7;P18858-2;P18858-3;P18858;B4E135;M0QY71;M0R1G7;F5GZ28 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 VLGS(1)EGEEEDEALSPAK;VLGS(1)EGEEEDEALSPAK;VLGS(1)EGEEEDEALSPAK;VLGS(1)EGEEEDEALSPAK ;;; 273.44 1.93E-59 148346000 10497.59 10756.72 10541.38 9875.84 11907.52 13578.03 11017.1 12011.79 11526.92 10488.16 TRUE FALSE FALSE 11601.77468 11105.24479 11977.90437 10067.00116 10995.16839 12421.10546 9777.426913 11704.5458 11446.70323 10940.35591 1.060456788 1.015071619 1.094836811 0.920171268 1.005010119 1.135347475 0.893702819 1.069850552 1.046282527 1 13.41737205 VLGSEGEEEDEALS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 6 VLGSEGEEEDEALSPAK 17 0 M0R0Q7;P18858-2;P18858-3;P18858;B4E135;M0QY71;M0R1G7;F5GZ28 M0R0Q7 LIG1 DNA ligase;DNA ligase 1 1 0 VLGSEGEEEDEALS(1)PAK;VLGSEGEEEDEALS(1)PAK;VLGS(0.023)EGEEEDEALS(0.977)PAK;VLGSEGEEEDEALS(1)PAK;VLGSEGEEEDEALS(1)PAK;VLGSEGEEEDEALS(1)PAK ;;;;; 272.24 2.38E-59 245960200 9803.69 11295.19 8450.42 10492.98 11000.86 12693.21 11334.84 10078.29 12937.95 10138.85 TRUE FALSE FALSE 10834.8871 11661.16157 9601.99923 10696.0868 10157.97648 11611.6771 10059.41397 9820.501935 12847.91375 10575.98544 1.024480145 1.102607566 0.907905867 1.011356044 0.960475649 1.09792862 0.951156186 0.928566136 1.214819538 1 13.36850448 -6.751566674 24.99991558 1.018711636 0.981503752 0.13215685 0.083611217 386.4905781 978680.3558 0.008625739 0.012113443 1.77E-07 6.751566674 -0.037207885 VLGT(ph)SPEAIDSAENR ddPTM_HeLa_SAHA_4h_R1 1 VLGTSPEAIDSAENR 15 0 P27708;F8VPD4 P27708 CAD CAD protein;Glutamine-dependent carbamoyl-phosphate synthase;Aspartate carbamoyltransferase;Dihydroorotase 1 0 VLGT(0.795)S(0.205)PEAIDSAENR 118.52 0.0015735 2858800 762.8 794.97 544.24 714.84 789.47 1007.4 880.81 838.35 825.16 785.52 TRUE FALSE FALSE 843.0348039 820.7275496 618.4061929 728.6767619 728.9809792 921.5638525 781.6989406 816.9062209 819.4176444 819.3876114 1.028859592 1.001635292 0.754717528 0.889294336 0.88966561 1.124698299 0.954003856 0.996971652 1.000036653 1 9.67840227 -6.970358795 24.99997027 1.013713466 0.935086221 0.140864703 0.087998714 305.7517343 257876.3762 0.014649256 0.019252743 1.07E-07 6.970358795 -0.078627245 VLGTTPGIIGQVESAPGIPR ddPTM_HeLa_SAHA_4h_R1 1 VLGTTPGIIGQVESAPGIPR 20 0 H3BM77 H3BM77 MPI 0 0 71.933 0.021788 1890100 75.336 262.79 52.938 144 211.08 141.58 184.73 184.23 145.25 132.3 FALSE FALSE TRUE 83.26018613 271.3045684 60.15211495 146.7873282 194.907096 129.5165875 163.9436942 179.5176634 144.2391934 138.0041005 0.603316755 1.965916719 0.43587194 1.063644687 1.412328296 0.93849811 1.187962486 1.300813981 1.045180491 1 7.108567324 VLGVPIIVQASQAEK(ac)NR ddPTM_HeLa_SAHA_4h_R1 1 VLGVPIIVQASQAEKNR 17 1 Q14498-2;Q14498;G3XAC6;Q14498-3;H0Y4X3;A0A0U1RQH7 Q14498-2 RBM39 RNA-binding protein 39 0 1 VLGVPIIVQASQAEK(1)NR 84.297 0.0055252 0 0 0 0 0 0 0 0 0 0 0 FALSE TRUE FALSE 0 0 0 0 0 0 0 0 0 0 0 VLGYIQLGQK ddPTM_HeLa_SAHA_4h_R1 2 VLGYIQLGQK 10 0 P30837 P30837 ALDH1B1 "Aldehyde dehydrogenase X, mitochondrial" 0 0 ; ; 172.14 2.61E-11 1169100 696.03 701.5 1223.34 700.5 933.77 192.216 1055.22 139.27 0 414.33 FALSE FALSE TRUE 769.2416289 724.2290603 1390.050404 714.0591904 862.2247443 175.8381154 936.4838684 135.7076751 0 432.193794 1.779853481 1.675704442 3.216266461 1.652173632 1.994995662 0.406850163 2.166814705 0.313997278 0 1 8.755534546 -5.282660086 24.94381146 1.599979362 1.082979874 0.096964556 0.891758281 1515.497914 1781385.096 0.110979834 0.248393358 5.22E-06 5.282660086 -0.516999488 VLIEILCTR ddPTM_HeLa_SAHA_4h_R1 1 VLIEILCTR 9 0 P20073-2;P20073 P20073-2 ANXA7 Annexin A7 0 0 106.68 0.0095753 466330 205.9 237.79 388.66 275.04 291.53 241.32 415.62 128.41 342.52 283.44 FALSE FALSE TRUE 227.5575067 245.494552 441.6245607 280.3637969 269.1930344 220.7581784 368.8533437 125.1254581 340.1363754 295.6604855 0.769658165 0.830325877 1.49368814 0.948262655 0.910480255 0.746661083 1.24755712 0.423206564 1.150428928 1 8.207797633 -4.23612402 23.75839529 0.938569832 0.423205286 0.332212199 0.230270997 3727.03568 3497707.271 0.030492294 2.669030299 5.81E-05 4.23612402 -0.515364546 VLIGVGK ddPTM_HeLa_SAHA_4h_R1 2 VLIGVGK 7 0 Q15393;Q15393-3 Q15393 SF3B3 Splicing factor 3B subunit 3 0 0 ; ; 105.42 0.017375 3597600 7735.7 7345.4 6826.8 8411 8236.2 9323.9 8923 8315.1 8611 7829.4 FALSE FALSE TRUE 8549.376419 7583.395779 7757.120752 8573.807068 7605.144135 8529.451265 7918.960556 8102.411782 8551.07535 8166.96375 1.046824338 0.928545297 0.949816969 1.049815737 0.931208264 1.044384612 0.969633367 0.992095965 1.047032363 1 12.99558411 -7.293862155 24.99943999 1.022111491 0.982359962 0.230829971 0.041165947 834.5247299 643454.83 0.006815694 0.007794338 5.08E-08 7.293862155 -0.039751529 VLIIGSGGR ddPTM_HeLa_SAHA_4h_R1 2 VLIIGSGGR 9 0 P22102;C9JZG2;C9JKQ7;C9JBJ1;C9JTV6;F8WD69;P22102-2 P22102 GART Trifunctional purine biosynthetic protein adenosine-3;Phosphoribosylamine--glycine ligase;Phosphoribosylformylglycinamidine cyclo-ligase;Phosphoribosylglycinamide formyltransferase 0 0 ; ; 134.81 0.001316 2884100 1580.62 1599.21 1982.99 2261.91 2052.36 1962.27 2414.1 1525.86 1313.91 1558.15 FALSE FALSE TRUE 1746.876864 1651.025453 2253.22155 2305.692539 1895.10862 1795.073557 2142.459114 1486.830711 1304.766393 1625.329472 1.074783233 1.015809706 1.386316799 1.418600092 1.165984284 1.104436724 1.318169117 0.91478727 0.802770402 1 10.66651648 -6.795713411 24.99402964 1.034838124 1.22418522 0.34528459 0.156012111 164.0804333 119653.6398 0.021815132 0.028671462 1.60E-07 6.795713411 0.189347096 VLISFK ddPTM_HeLa_SAHA_4h_R1 1 VLISFK 6 0 B1ALC0;O15511;O15511-2 B1ALC0 ARPC5 Actin-related protein 2/3 complex subunit 5 0 0 106.76 0.020797 4638300 2876.2 3357.4 3667.8 3844.6 4160.9 2384.3 4093.2 2084.7 1244.3 2262.3 FALSE FALSE TRUE 3178.731912 3466.181963 4167.628683 3919.017792 3842.092741 2181.144226 3632.622363 2031.376393 1235.640815 2359.838824 1.347012296 1.468821483 1.76606497 1.660714178 1.62811659 0.924276778 1.539351894 0.860811498 0.523612376 1 11.20447261 -8.655817791 0.883780851 1.027798118 1.416466421 0.316992948 0.326618971 0.598271915 0.941060956 0.124054728 0.058537202 2.21E-09 8.655817791 0.388668303 VLISVGS(ph)YK ddPTM_HeLa_SAHA_4h_R1 2 VLISVGSYK 9 0 Q8TEV9-2;Q8TEV9 Q8TEV9-2 SMCR8 Smith-Magenis syndrome chromosomal region candidate gene 8 protein 1 0 VLIS(0.006)VGS(0.993)Y(0.001)K;VLIS(0.114)VGS(0.886)YK ; 87.713 0.019867 10869300 4151.7 4792 4506.1 4764 5760.8 6047.8 5480.5 5126.5 4879.6 5182.9 TRUE FALSE FALSE 4588.394855 4947.263944 5120.167841 4856.214109 5319.408749 5532.493416 4863.819716 4995.371553 4845.642466 5406.360183 0.848703138 0.915082195 0.947063767 0.89824095 0.983916825 1.023330527 0.899647739 0.923980531 0.896285542 1 12.40044192 -5.759834839 24.99963333 0.925415901 0.958257506 0.131477321 0.048076008 110.4122731 1720222.937 0.009462204 0.018149647 1.74E-06 5.759834839 0.032841605 VLITTDLLAR ddPTM_HeLa_SAHA_4h_R1 2 VLITTDLLAR 10 0 P60842;Q14240-2;Q14240;E7EQG2 P60842 EIF4A1;EIF4A2 "Eukaryotic initiation factor 4A-I;Eukaryotic initiation factor 4A-II;Eukaryotic initiation factor 4A-II, N-terminally processed" 0 0 ; ; 162.25 1.77E-07 6396700 1805.39 2455.3 3163 2611.18 2496 1910.04 2998.1 1735.64 1452.04 1701.39 FALSE FALSE TRUE 1995.289204 2534.853331 3594.037168 2661.723165 2304.757019 1747.293846 2660.745897 1691.244842 1441.935135 1774.745249 1.12426795 1.428291374 2.025100317 1.499777597 1.298641042 0.984532201 1.499226945 0.952950764 0.81247443 1 10.79339624 -7.372841387 3.882308596 1.053191637 1.398332989 0.278788003 0.292503987 0.266032435 6.939233833 0.05128489 0.058288681 4.24E-08 7.372841387 0.345141352 VLLPEYGGTK ddPTM_HeLa_SAHA_4h_R1 3 VLLPEYGGTK 10 0 P61604;B8ZZL8;B8ZZ54 P61604 HSPE1 "10 kDa heat shock protein, mitochondrial" 0 0 ;; ;; 138.08 0.00042944 64419500 12184.2 14122.3 12690 11002 13982.4 12478.5 14699.2 12177.6 12159.7 12349.5 FALSE FALSE TRUE 13465.79006 14579.87179 14419.32711 11214.95962 12911.07153 11415.2616 13045.20733 11866.11462 12075.07966 12881.94738 1.045322548 1.1318065 1.119343736 0.87059505 1.00226085 0.886144094 1.012673546 0.92114292 0.93736446 1 13.65306308 -6.258528172 24.99998188 1.038660524 0.943307106 0.394120383 0.066572535 216.0888986 1855658.875 0.00929349 0.014982007 5.51E-07 6.258528172 -0.095353418 VLLQASQDENFGNT(ph)TPR ddPTM_HeLa_SAHA_4h_R1 2 VLLQASQDENFGNTTPR 17 0 P57740;G3V1T4 P57740 NUP107 Nuclear pore complex protein Nup107 1 0 VLLQAS(0.001)QDENFGNT(0.5)T(0.5)PR;VLLQASQDENFGNT(0.89)T(0.11)PR ; 186.17 1.49E-11 12736100 1385.42 1084.92 1221.8 1155.79 1898.49 1805.93 1575.67 1261.16 1513.42 1610.36 TRUE FALSE FALSE 1531.144832 1120.07212 1388.300541 1178.161987 1753.028106 1652.054604 1398.371465 1228.901353 1502.887987 1679.790501 0.911509401 0.666792746 0.826472433 0.70137436 1.04359925 0.983488479 0.832467778 0.73158013 0.894687752 1 10.7140656 -7.755898038 2.272987382 0.96977237 0.835471927 0.138646288 0.114900952 0.317782882 3.422620481 0.023338172 0.02305584 1.75E-08 7.755898038 -0.134300443 VLLQASQDENFGNTT(ph)PR ddPTM_HeLa_SAHA_4h_R1 2 VLLQASQDENFGNTTPR 17 0 P57740;G3V1T4 P57740 NUP107 Nuclear pore complex protein Nup107 1 0 VLLQASQDENFGNT(0.022)T(0.978)PR;VLLQASQDENFGNT(0.028)T(0.972)PR ; 214.28 1.88E-20 31255000 5225.7 5367.5 5338 5525.6 7037.2 6703.6 6039.2 5921.3 5618.4 5953.3 TRUE FALSE FALSE 5775.363102 5541.410522 6065.434841 5632.555978 6498.011256 6132.415567 5359.653322 5769.84172 5579.301097 6209.975898 0.930013771 0.892340101 0.976724377 0.907017365 1.046382685 0.987510365 0.863071517 0.929124656 0.898441667 1 12.60037195 -7.834111258 0.007559201 1.91719597 2.94E-05 0 0.056900745 3873.510956 19.931917 2547.24737 2506.504853 1.47E-08 7.834111258 -1.917166589 VLLS(ph)DSNLHDA ddPTM_HeLa_SAHA_4h_R1 4 VLLSDSNLHDA 11 0 H3BV90;Q6FI81-3;Q6FI81;Q6FI81-2 H3BV90 CIAPIN1 Anamorsin 1 0 VLLS(0.916)DS(0.084)NLHDA;VLLS(0.97)DS(0.03)NLHDA;VLLS(0.998)DS(0.002)NLHDA;VLLS(0.931)DS(0.069)NLHDA ;;; 108.98 0.0044152 18087000 6301.1 6809.2 5564.9 5489.9 7160.7 7490.9 7507.2 6810.2 6493 6293.9 TRUE FALSE FALSE 6963.878608 7029.822548 6323.255591 5596.164953 6612.048713 6852.633177 6662.470098 6636.004945 6447.814684 6565.260831 1.060716213 1.070760588 0.963138519 0.852390346 1.007126584 1.043771657 1.014806612 1.010775522 0.98211097 1 12.68063661 -6.747276022 24.96808268 1.032629343 0.98155104 0.147800966 0.054191027 339.7526931 598936.0828 0.009111772 0.012848174 1.79E-07 6.747276022 -0.051078302 VLNNMEIGTSLFDEEGAK ddPTM_HeLa_SAHA_4h_R1 3 VLNNMEIGTSLFDEEGAK 18 0 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 0 0 ;; ;; 305.98 1.70E-138 16677590 1421.37 1515.83 1389.83 1590 1538.56 1417.405 1626.05 1389.01 1642.25 1638.1 FALSE FALSE TRUE 1570.876218 1564.943887 1579.228794 1620.776749 1420.675865 1296.63412 1443.082574 1353.481135 1630.821449 1708.726508 0.919325715 0.91585393 0.924213903 0.948529061 0.831423788 0.758830693 0.844536892 0.792099338 0.954407532 1 10.73870579 -1 0.130400094 1.038560232 0.15837981 0.728294446 0.0385338 29.19888916 0.256593405 0.133502151 4.746616359 0.1 1 -0.880180422 VLNSYWVGEDSTYK ddPTM_HeLa_SAHA_4h_R1 2 VLNSYWVGEDSTYK 14 0 P61313;E7EX53;A0A2R8Y738;A0A2R8YEM3;E7EQV9;E7ENU7 P61313 RPL15 60S ribosomal protein L15;Ribosomal protein L15 0 0 ; ; 179.67 4.95E-24 24848000 1332.98 1210.9 1217.78 1634.73 1400.19 1395.51 1403.88 1473.91 1545.63 1200.73 FALSE FALSE TRUE 1473.188952 1250.133955 1383.732716 1666.372563 1292.907745 1276.604697 1245.911728 1436.209516 1534.873835 1252.499347 1.176199378 0.998111462 1.104777196 1.33043787 1.032262211 1.019245799 0.994740421 1.146674863 1.225448811 1 10.29059414 -3.915485158 18.83059365 1.084460683 3.575381086 0.004282227 0.109008421 741.5219872 176283.7672 0.014560612 5230.255534 0.000121483 3.915485158 2.490920403 VLNTGS(ph)DVEEAVADALK ddPTM_HeLa_SAHA_4h_R1 2 VLNTGSDVEEAVADALK 17 0 E3W994;J3KR49;O75122 E3W994 CLASP2 CLIP-associating protein 2 1 0 VLNT(0.002)GS(0.998)DVEEAVADALK;VLNT(0.057)GS(0.943)DVEEAVADALK ; 172.37 7.19E-09 555280000 316.08 451.98 456.19 552.63 356.75 671.12 459.9 425.49 429.71 356.827 TRUE FALSE FALSE 349.3267446 466.6244486 518.3571975 563.3269528 329.4158921 613.9368004 408.1508416 414.6065819 426.7196131 372.2115582 0.93851665 1.253653838 1.392641325 1.513459054 0.885023274 1.649429704 1.096556065 1.113900342 1.146443746 1 8.539979046 -7.234844677 6.944241144 0.970892527 1.279544086 0.201516536 0.213112177 0.16114887 30.86161118 0.031952077 0.03872203 5.82E-08 7.234844677 0.308651559 VLPPPAGYVPIRT(ph)PAR ddPTM_HeLa_SAHA_4h_R1 4 VLPPPAGYVPIRTPAR 16 1 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 VLPPPAGYVPIRT(1)PAR;VLPPPAGYVPIRT(1)PAR;VLPPPAGYVPIRT(1)PAR;VLPPPAGYVPIRT(1)PAR ;;; 144.4 0.00010978 20987300 8052.1 7870.65 6725.28 8399.09 9243.62 9586.27 8532.17 9896.92 8323.27 7766.86 TRUE FALSE FALSE 8899.056822 8125.664224 7641.766135 8561.666532 8535.375833 8769.465865 7572.107776 9643.771117 8265.347686 8101.727345 1.098414751 1.00295454 0.943226772 1.056770509 1.053525436 1.082419278 0.934628809 1.190335185 1.020195735 1 12.98401382 -4.233298274 24.01755034 1.035515637 1.190335573 0.458816351 0.05308865 5017.56151 4282217.405 0.007860544 0.998049719 5.84E-05 4.233298274 0.154819936 VLPSEQESTKK(ac)PYR ddPTM_HeLa_SAHA_4h_R1 1 VLPSEQESTKKPYR 14 2 Q96T23-3;Q96T23-2;Q96T23 Q96T23-3 RSF1 Remodeling and spacing factor 1 0 1 VLPSEQESTK(0.231)K(0.769)PYR 71.933 0.023576 10471000 767.89 957.59 766.19 851.43 846 996.55 1016.7 863.29 712.09 999.31 FALSE TRUE FALSE 848.6601934 988.6165443 870.6023831 867.9106588 781.1796628 911.6383336 902.2982402 841.2082918 707.1345077 1042.395145 0.814144423 0.948408624 0.835194204 0.832611955 0.749408386 0.874561186 0.865600962 0.806995597 0.678374714 1 10.02568655 -9.6865001 0.544395801 1.057935626 0.835702682 0 0.112616386 1.038734513 0.329134224 0.128461832 0.011488842 2.06E-10 9.6865001 -0.222232944 VLPSFWIPS(ph)LTPEAK ddPTM_HeLa_SAHA_4h_R1 1 VLPSFWIPSLTPEAK 15 0 A0A075B6F9;Q9Y314;A0A075B797;M0R3B2 A0A075B6F9 NOSIP Nitric oxide synthase-interacting protein 1 0 VLPS(0.022)FWIPS(0.793)LT(0.185)PEAK 131.24 0.00025387 28494000 1195.2 1135.3 1166.6 1120.7 1592.4 1560.8 1433.7 1508.6 1656 1266.7 TRUE FALSE FALSE 1320.91662 1172.084465 1325.578173 1142.392769 1470.390656 1427.811059 1272.376303 1470.012196 1644.475761 1321.313636 0.999699529 0.887059993 1.003227498 0.864588647 1.112824855 1.080599655 0.962963121 1.112538429 1.244576394 1 10.36775724 -1.000007334 0.570202471 0.988405941 6.264969675 0.002461439 0.108031299 186.5407935 1.464670573 0.012537392 1219.156285 0.099998311 1.000007334 5.276563734 VLPSFWIPSLT(ph)PEAK ddPTM_HeLa_SAHA_4h_R1 1 VLPSFWIPSLTPEAK 15 0 A0A075B6F9;Q9Y314;A0A075B797;M0R3B2 A0A075B6F9 NOSIP Nitric oxide synthase-interacting protein 1 0 VLPS(0.211)FWIPS(0.093)LT(0.696)PEAK 147.64 0.00014122 22379000 1488.5 1556.7 1562 2029.5 2147.6 2256.2 2108.1 2052 1947 1799.1 TRUE FALSE FALSE 1645.067259 1607.138101 1774.861225 2068.783907 1983.051352 2063.959067 1870.89104 1999.512811 1933.450668 1876.668006 0.876589389 0.856378484 0.94575131 1.102370745 1.056687355 1.099799784 0.99692169 1.065458997 1.03025717 1 10.87395774 -6.32376691 6.86046781 0.932474642 1.061939854 0.548677714 0.05522387 0.15076142 14.07775756 0.009212878 0.0141368 4.74E-07 6.32376691 0.129465212 VLPSITTEILK ddPTM_HeLa_SAHA_4h_R1 1 VLPSITTEILK 11 0 C9JZ20;E7ESE2;E9PCW0;C9JW96;P35232-2;P35232 C9JZ20 PHB Prohibitin 0 0 111.61 0.010516 460700 0 183.13 77.723 0 147.48 144.56 168.21 0 127.49 71.827 FALSE FALSE TRUE 0 189.0635322 88.31468568 0 136.1801143 132.2426747 149.2825681 0 126.6027867 74.92381348 0 2.523410427 1.178726517 0 1.817581193 1.765028615 1.992458221 0 1.689753642 1 6.227352427 -7.30264652 24.99044303 0.527777836 1.330209426 0 0.877638654 645.6485182 391557.8771 0.139803078 0.159871764 4.98E-08 7.30264652 0.80243159 VLQAQGSSDPEEESVLYSNR ddPTM_HeLa_SAHA_4h_R1 1 VLQAQGSSDPEEESVLYSNR 20 0 Q15785 Q15785 TOMM34 Mitochondrial import receptor subunit TOM34 0 0 162.64 9.85E-16 0 306.01 424.4 316.75 271.21 223.85 276.59 329.15 358.41 322.47 193.76 FALSE FALSE TRUE 338.1975358 438.1508385 359.9150404 276.4596617 206.6986614 253.0229759 292.1131757 349.2423912 320.225905 202.1139418 1.67330137 2.167840746 1.780753159 1.367840631 1.022683836 1.251882842 1.445289588 1.727948047 1.584383057 1 7.659025032 -6.016714534 24.54974652 1.440905226 1.33944436 0 0.343957224 3245.901206 4767480.244 0.065577976 0.110656191 9.62E-07 6.016714534 -0.101460866 VLQATVVAVGSGSK ddPTM_HeLa_SAHA_4h_R1 3 VLQATVVAVGSGSK 14 0 P61604;B8ZZL8;S4R3N1 P61604 HSPE1;HSPE1-MOB4 "10 kDa heat shock protein, mitochondrial" 0 0 ;; ;; 234.82 2.31E-55 47178000 6329.3 9132.05 7194.1 7179.7 9344.46 7777.1 10583.25 7250.3 7738.6 8934.87 FALSE FALSE TRUE 6995.044814 9427.934412 8174.474483 7318.673476 8628.489494 7114.447327 9392.394856 7064.847824 7684.746453 9320.095972 0.75053356 1.011570529 0.877080505 0.785257308 0.92579406 0.763344857 1.007757311 0.758023077 0.82453512 1 13.1861291 -9.630872894 1.452136727 0.999959639 0.84975968 0 0.107666032 0.447512555 1.696138204 0.064662443 0.014751608 2.34E-10 9.630872894 -0.150199959 VLQSFTVDSSK ddPTM_HeLa_SAHA_4h_R1 2 VLQSFTVDSSK 11 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 ; ; 167.6 1.17E-10 3077000 1001.86 1193.88 1222.41 1159.71 1205.78 1503.74 1422.4 1252.16 1320.14 1278.17 FALSE FALSE TRUE 1107.240231 1232.562495 1388.993669 1182.157864 1113.393397 1375.612892 1262.347808 1220.13156 1310.953038 1333.278164 0.830464536 0.924460123 1.041788358 0.886655085 0.835079601 1.03175236 0.946800032 0.915136536 0.983255463 1 10.38076209 -5.247184289 24.99255431 0.920484896 0.962786666 0.042906408 0.069869659 2143.120993 3757393.559 0.011494294 0.029143801 5.66E-06 5.247184289 0.04230177 VLQVSIGPGLPK ddPTM_HeLa_SAHA_4h_R1 1 VLQVSIGPGLPK 12 0 Q12965 Q12965 MYO1E Unconventional myosin-Ie 0 0 168.22 1.06E-08 0 625.26 692.38 686.48 629.55 611.21 527.01 782.16 598.92 622.28 755.98 FALSE FALSE TRUE 691.0277156 714.8135663 780.0299194 641.7358506 564.3792218 482.1057831 694.1492983 583.6004936 617.9495028 788.5739975 0.876300408 0.906463526 0.989165154 0.813792812 0.715695957 0.611364038 0.880258924 0.740070679 0.783629063 1 9.623102329 -6.058785674 3.968974987 0.939855651 0.73956288 0.465261497 0.085306584 0.117930785 3.731095992 0.011658446 0.020309488 8.73E-07 6.058785674 -0.200292771 VLRPPGGGSNFSLGFDEPTEQPVRK ddPTM_HeLa_SAHA_4h_R1 2 VLRPPGGGSNFSLGFDEPTEQPVRK 25 2 Q9UK76;J3KT51;Q9UK76-2 Q9UK76 HN1 "Hematological and neurological expressed 1 protein;Hematological and neurological expressed 1 protein, N-terminally processed" 0 0 ; ; 115.88 4.10E-08 2858700 599.84 364.12 758.08 746.66 611.64 535.89 677.05 452.03 544.41 563.21 FALSE FALSE TRUE 662.9339234 375.9177269 861.3871945 761.112684 564.7762753 490.2291572 600.8665521 440.4677271 540.6214065 587.4927394 1.128412113 0.639867868 1.466209089 1.295526962 0.9613332 0.83444292 1.022764218 0.749741567 0.920218022 1 9.198427212 -5.530687639 24.58217746 1.077583342 0.886615498 0.156158607 0.215286724 211.3141721 665210.1804 0.029871323 0.05983706 2.95E-06 5.530687639 -0.190967844 VLS(ph)PEELEDR ddPTM_HeLa_SAHA_4h_R1 2 VLSPEELEDR 10 0 A0A494C179;A0A0A0MRH8;A0A0A0MSH9;A0A494C1F7;Q86WJ1-5;Q86WJ1-3;Q86WJ1-4;Q86WJ1-2;Q86WJ1;A0A494C1P7 A0A494C179 CHD1L Chromodomain-helicase-DNA-binding protein 1-like 1 0 VLS(1)PEELEDR;VLS(1)PEELEDR ; 136.96 0.0012746 3809100 1156.77 1076.93 891.31 924.38 1057.42 1138.25 1398.06 1378.69 964.59 1192.59 TRUE FALSE FALSE 1278.444376 1111.823239 1012.773085 942.2727116 976.400708 1041.264696 1240.746609 1343.425106 957.8773397 1244.008391 1.027681473 0.893742555 0.814120783 0.757448839 0.784882735 0.837023853 0.997378006 1.079916434 0.769992668 1 10.2807805 -7.201336984 4.989003171 1.013116412 0.871271196 0 0.11999981 0.198980362 10.34899283 0.01671739 0.020419165 6.29E-08 7.201336984 -0.141845216 VLS(ph)PLIIK ddPTM_HeLa_SAHA_4h_R1 2 VLSPLIIK 8 0 Q8NCN4 Q8NCN4 RNF169 E3 ubiquitin-protein ligase RNF169 1 0 VLS(1)PLIIK;VLS(1)PLIIK ; 125.48 0.0027026 499730000 12028 11787.8 8806.9 11042.5 12099.5 12669.1 12087.9 12582.4 12449.9 11258.3 TRUE FALSE FALSE 13293.16023 12169.73245 10007.05847 11256.24356 11172.43892 11589.62141 10727.73768 12260.56043 12363.26013 11743.70041 1.131939658 1.036277496 0.852121403 0.958492056 0.951355921 0.986879859 0.913488705 1.044011683 1.052756772 1 13.51959945 -6.979937141 24.82227897 1.063452408 0.950735983 0.469119538 0.054781913 162.7787052 201393.4011 0.010326799 0.013571278 1.05E-07 6.979937141 -0.112716425 VLS(ph)PLR ddPTM_HeLa_SAHA_4h_R1 1 VLSPLR 6 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 VLS(1)PLR 90.777 0.02377 47271000 3937.5 5242.5 4233.1 4633.1 5255.5 3935.1 5017 2740.9 1654.6 2768.8 TRUE FALSE FALSE 4351.664316 5412.36044 4809.964823 4722.78035 4852.824725 3599.807342 4452.473956 2670.791747 1643.085504 2888.176518 1.506716881 1.873971485 1.665398494 1.635211809 1.680238273 1.246394505 1.541621133 0.924732865 0.568900652 1 11.4959432 -8.947806702 0.926151499 1.020527753 1.521852583 0.455467522 0.290320188 0.437251057 0.719611349 0.132277371 0.049089079 1.13E-09 8.947806702 0.50132483 VLS(ph)PLRS(ph)PPLIGSESAYESFLSADDK ddPTM_HeLa_SAHA_4h_R1 1 VLSPLRSPPLIGSESAYESFLSADDK 26 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 VLS(0.989)PLRS(0.966)PPLIGS(0.036)ES(0.008)AY(0.001)ESFLSADDK 69.619 0.0048824 2900400 285.72 273.82 401.5 431.24 363.71 354.99 596.48 345.96 393.39 151.38 TRUE FALSE FALSE 315.7733405 282.6919477 456.2143291 439.5872738 335.8426184 324.7428549 529.3625006 337.1108441 390.652367 157.9067326 1.999745896 1.790246324 2.88913792 2.783841236 2.126841666 2.056548505 3.352374479 2.134873153 2.473943704 1 7.302928874 -8.335829569 0.39265695 0.831857927 2.632903228 0.007239991 0.619040121 0.622626705 0.212665118 0.467812326 0.192301668 4.61E-09 8.335829569 1.801045301 VLS(ph)PLRS(ph)PPLIGSESAYESFLSADDKASGR ddPTM_HeLa_SAHA_4h_R1 2 VLSPLRSPPLIGSESAYESFLSADDKASGR 30 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 VLS(0.938)PLRS(0.834)PPLIGS(0.201)ES(0.015)AY(0.007)ES(0.005)FLSADDKASGR;VLS(0.982)PLRS(0.838)PPLIGS(0.125)ES(0.054)AY(0.001)ESFLSADDKASGR ; 77.646 3.32E-06 39387900 2763.52 2698.59 2899.69 3234.41 3376.33 3149.45 3666.72 3527.18 2507.41 2992.43 TRUE FALSE FALSE 3054.199713 2786.026087 3294.844652 3297.016683 3117.636325 2881.099142 3254.131015 3436.959843 2489.96073 3121.448302 0.978455966 0.892542761 1.055549967 1.056245808 0.998778779 0.923000756 1.042506779 1.101078573 0.797694047 1 11.60799986 VLS(ph)PLRSPPLIGSES(ph)AYESFLSADDKASGR ddPTM_HeLa_SAHA_4h_R1 1 VLSPLRSPPLIGSESAYESFLSADDKASGR 30 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 VLS(0.528)PLRS(0.434)PPLIGS(0.234)ES(0.718)AY(0.073)ES(0.012)FLSADDKASGR 79.332 4.38E-06 7123400 677.43 763.09 349.71 878.24 893.34 758.65 959.7 1001.4 600.37 716.37 TRUE FALSE FALSE 748.6851956 787.8146167 397.3666576 895.2396052 824.8924822 694.008752 851.7120302 975.785638 596.1919763 747.2562165 1.001912301 1.054276431 0.531767617 1.198035674 1.103895108 0.928742694 1.139785808 1.305824718 0.797841441 1 9.545459184 -4.469615769 2.805718503 0.988756763 1.309714397 0.275355011 0.176692011 0.302398433 4.079664201 0.021776905 0.175143461 3.39E-05 4.469615769 0.320957634 VLS(ph)PLRSPPLIGSESAYESFLSADDK ddPTM_HeLa_SAHA_4h_R1 1 VLSPLRSPPLIGSESAYESFLSADDK 26 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 VLS(0.823)PLRS(0.177)PPLIGSESAYESFLSADDK 101.85 2.55E-06 290370000 1949.9 2002.5 1716.5 2376.8 2421.7 2374.4 2810.6 1891.1 2273.7 2052.2 TRUE FALSE FALSE 2154.999428 2067.382314 1950.415681 2422.806401 2236.149869 2172.087762 2494.343891 1842.7284 2257.877137 2140.680385 1.006689015 0.965759451 0.911119518 1.131792685 1.044597729 1.01467168 1.165210794 0.860814353 1.054747431 1 11.06385369 -6.261878507 24.99999991 0.993563607 1.048652325 0.09823902 0.082752457 68.72955932 3912814.03 0.011118129 0.017657693 5.47E-07 6.261878507 0.055088718 VLS(ph)PPKLNEVSSDANR ddPTM_HeLa_SAHA_4h_R1 3 VLSPPKLNEVSSDANR 16 1 B7Z7F3;Q9H6Z4-3;Q9H6Z4-2;Q9H6Z4;K7ESQ0 B7Z7F3 RANBP3 Ran-binding protein 3 1 0 VLS(1)PPKLNEVSSDANR;VLS(1)PPKLNEVSSDANR;VLS(1)PPKLNEVSSDANR ;; 107.73 0.010009 119185700 4292.28 5241.96 4274.96 5163.85 5486.1 5653.05 5082.6 4992.7 6332 5089.83 TRUE FALSE FALSE 4743.761704 5411.802943 4857.529286 5263.803784 5065.756203 5171.378337 4510.692471 4864.993963 6287.935096 5309.27748 0.893485361 1.019310624 0.914913433 0.99143505 0.954132878 0.974026759 0.849586877 0.916319402 1.184329717 1 12.37429983 VLS(ph)PTAAKPSPFEGK ddPTM_HeLa_SAHA_4h_R1 1 VLSPTAAKPSPFEGK 15 1 Q96QC0 Q96QC0 PPP1R10 Serine/threonine-protein phosphatase 1 regulatory subunit 10 1 0 VLS(0.845)PT(0.155)AAKPSPFEGK 144.97 0.00044559 6467100 1025.6 1004.1 1057.2 945.96 1164.1 1246 1196.3 1260.5 1005 961.23 TRUE FALSE FALSE 1133.477314 1036.633499 1201.26971 964.2704237 1074.906909 1139.83379 1061.689176 1228.258235 998.0061232 1002.673329 1.130455234 1.033869625 1.198066883 0.961699484 1.072040991 1.136794763 1.058858498 1.224983451 0.995345237 1 9.969635938 -9.421716405 1.021634732 0.99695205 1.099985711 0.243776406 0.073231615 0.694759628 1.233635243 0.054376886 0.012160476 3.79E-10 9.421716405 0.10303366 VLS(ph)RNSADDEELTNDSLTLSQSK ddPTM_HeLa_SAHA_4h_R1 1 VLSRNSADDEELTNDSLTLSQSK 23 1 A0A0U1RRH6;O94880 A0A0U1RRH6 PHF14 PHD finger protein 14 1 0 VLS(0.498)RNS(0.498)ADDEELT(0.003)NDSLTLSQSK 66.871 0.0043897 0 997.04 924.75 922.61 923.48 691.83 817.64 938.28 1094.8 888.58 810.07 TRUE FALSE FALSE 1101.913242 954.7125068 1048.338486 941.3552908 638.8221349 747.9724721 832.702265 1066.796601 882.3962994 844.9960821 1.304045386 1.129842525 1.240643014 1.114035095 0.756006032 0.885178627 0.985451037 1.262487039 1.044260817 1 9.722800842 -5.97662776 24.85788141 1.153669461 0.963002367 0.244419264 0.143327814 246.9042126 262597.0525 0.02401902 0.043536562 1.06E-06 5.97662776 -0.190667093 VLS(ph)STSEEDEPGVVK ddPTM_HeLa_SAHA_4h_R1 1 VLSSTSEEDEPGVVK 15 0 Q8NI08-2;Q8NI08;Q8NI08-7;Q8NI08-4;Q8NI08-3 Q8NI08-2 NCOA7 Nuclear receptor coactivator 7 1 0 VLS(0.456)S(0.456)T(0.086)S(0.001)EEDEPGVVK 146 9.27E-05 4376700 585.3 1113.3 715.13 327.99 625.54 1108 1072.6 450.1 508.02 782.35 TRUE FALSE FALSE 646.8645395 1149.37165 812.5841922 334.3387207 577.6112603 1013.592167 951.9082251 438.5870937 504.4846475 816.0809372 0.79264753 1.408403993 0.995715198 0.409688188 0.707786733 1.242024069 1.166438501 0.537430877 0.618179674 1 9.672568433 -7.553668547 0.009558579 1.830507175 5.79E-05 0 0.312643181 9467.989242 75.57494029 7261.858938 7203.617725 2.79E-08 7.553668547 -1.830449238 VLSAPPHFHFGQTNR ddPTM_HeLa_SAHA_4h_R1 2 VLSAPPHFHFGQTNR 15 0 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 0 0 ; ; 60.196 0.016351 3115600 1125.13 1577.64 1195.03 1573.72 2119.7 633.7 2606.2 1554.87 1447.29 1446.67 FALSE FALSE TRUE 1243.476336 1628.756571 1357.882465 1604.181626 1957.289044 579.7051949 2312.943517 1515.098677 1437.218191 1509.043024 0.82401649 1.079330772 0.899830186 1.063045653 1.297039921 0.384154186 1.53272205 1.00401291 0.952403721 1 10.55941822 -6.570115486 1.518059569 0.922239913 1.054653108 0.024409615 0.280190837 1.053225419 4.879375533 0.045021683 0.072133029 2.69E-07 6.570115486 0.132413196 VLSEDEEDVDFDIIHNANDTFTVK ddPTM_HeLa_SAHA_4h_R1 2 VLSEDEEDVDFDIIHNANDTFTVK 24 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 ; ; 195.56 1.96E-16 22411000 1226.23 1496.14 1656.8 1556.67 1513.65 1665.36 1731.54 1745.15 1299.87 1484.21 FALSE FALSE TRUE 1355.210498 1544.615918 1882.580076 1586.801599 1397.674464 1523.461959 1536.702562 1700.51159 1290.824099 1548.201557 0.875345004 0.997683997 1.215978674 1.024932181 0.902772935 0.984020428 0.992572676 1.098378685 0.833757138 1 10.59637759 -7.008648327 24.93786822 0.940891945 1.032246973 0.285541115 0.088383061 530.3784847 1529375.293 0.01488511 0.019026679 9.80E-08 7.008648327 0.091355028 VLSEPIGPES(ph)PSSTECPR ddPTM_HeLa_SAHA_4h_R1 2 VLSEPIGPESPSSTECPR 18 0 Q56NI9;Q56NI9-2 Q56NI9 ESCO2 N-acetyltransferase ESCO2 1 0 VLSEPIGPES(0.937)PS(0.048)S(0.013)T(0.002)ECPR;VLSEPIGPES(0.978)PS(0.021)S(0.001)TECPR ; 208.13 7.04E-17 19372200 2984.91 2884.94 3321.09 3552.29 3486.1 4378.8 4405.5 4324.8 2583.52 2825.29 TRUE FALSE FALSE 3298.876529 2978.413949 3773.67085 3621.04971 3218.995771 4005.701606 3909.781545 4214.177878 2565.541074 2947.102079 1.119362832 1.01062463 1.280468321 1.228681468 1.092257983 1.359200156 1.326652909 1.42993957 0.870530102 1 11.52508132 -1.000000001 0.179674649 0.98207255 2.902699171 0.732626914 0.088978781 19.82006415 0.214974304 0.093875051 10.45106863 0.1 1.000000001 1.920626621 VLSGEFQIVNPHLLK ddPTM_HeLa_SAHA_4h_R1 1 VLSGEFQIVNPHLLK 15 0 E9PL69;P23921 E9PL69 RRM1 Ribonucleoside-diphosphate reductase large subunit 0 0 108.23 0.0019757 1085400 637.34 767.52 910.07 904.01 1027.8 836.77 781.56 390.43 498.21 654.69 FALSE FALSE TRUE 704.3783454 792.3881516 1034.0896 921.5084208 949.050186 765.4724885 693.6168118 380.4433659 494.742916 682.9168899 1.03142616 1.160299538 1.514224667 1.349371255 1.389700855 1.120886743 1.015667971 0.557085894 0.724455528 1 9.415566205 -3.05393828 11.6474309 1.084957711 1.095634082 0 0.278839613 0 0 0.035217378 0 0.000883205 3.05393828 0.010676371 VLSLPKPTIILSAYQR ddPTM_HeLa_SAHA_4h_R1 1 VLSLPKPTIILSAYQR 16 1 Q99567;J3KMX1 Q99567 NUP88 Nuclear pore complex protein Nup88 0 0 94.007 0.0082663 327100 167.18 0 138.27 195.05 72.497 0 171.37 0 0 0 FALSE FALSE TRUE 184.7647594 0 157.1127155 198.8254748 66.94229552 0 152.0869966 0 0 0 0 VLSNRR ddPTM_HeLa_SAHA_4h_R1 1 VLSNRR 6 1 Q659A1;H0YK14;H0YMX6;H0YL35;H0YK97;H0YNU9 Q659A1 ICE2 Little elongation complex subunit 2 0 0 38.371 0.02016 326670 238.7 235.62 397.43 653.57 276.02 595.56 327.99 202.82 320.06 512.53 FALSE FALSE TRUE 263.8075612 243.2542426 451.5896907 666.2207924 254.8714072 544.8149375 291.083702 197.6321581 317.8326764 534.6276766 0.493441647 0.454997474 0.84468072 1.246139737 0.476726923 1.01905487 0.544460593 0.369663163 0.594493496 1 9.062390715 -9.557965348 1.359632877 0.998287633 0.671638976 0 0.292620601 0.628815896 2.100323235 0.185209851 0.044680112 2.77E-10 9.557965348 -0.326648658 VLSPLRS(ph)PPLIGS(ph)ESAYESFLSADDK ddPTM_HeLa_SAHA_4h_R1 1 VLSPLRSPPLIGSESAYESFLSADDK 26 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 VLS(0.513)PLRS(0.493)PPLIGS(0.909)ES(0.042)AY(0.039)ES(0.004)FLS(0.001)ADDK 64.377 0.0080381 948110 0 158.17 152.65 211.21 149.65 218.35 230.72 55.631 281.5 266.07 TRUE FALSE FALSE 0 163.2948118 173.452347 215.298275 138.1838493 199.7453516 204.7587784 54.20803957 279.5410186 277.5415798 0 0.588361614 0.624959861 0.775733406 0.497885216 0.719695232 0.737758928 0.195315021 1.007204105 1 8.116560114 -9.711781081 1.621439799 0.999242522 0.453116187 0.371828237 0.240764716 0.366761629 1.744120782 0.21030119 0.046469417 1.94E-10 9.711781081 -0.546126334 VLSPLRS(ph)PPLIGSESAYESFLSADDK ddPTM_HeLa_SAHA_4h_R1 1 VLSPLRSPPLIGSESAYESFLSADDK 26 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 VLS(0.049)PLRS(0.94)PPLIGS(0.005)ES(0.003)AY(0.003)ESFLSADDK 57.662 0.0050972 253070000 621.27 1168.9 947.45 990.34 1124.1 1359.2 1423.6 1293.7 1256.6 1249.6 TRUE FALSE FALSE 686.6180291 1206.773127 1076.563552 1009.509463 1037.971701 1243.388513 1263.412781 1260.609027 1247.855218 1303.476371 0.526759091 0.925811279 0.825917198 0.774474693 0.796310331 0.953901843 0.969264046 0.967113064 0.957328607 1 10.34814872 -5.255625156 4.572525749 0.7875779 0.966571217 0.135696212 0.127565055 0.273566558 15.62749398 0.025167567 0.062984386 5.55E-06 5.255625156 0.178993317 VLSPLRS(ph)PPLIGSESAYESFLSADDKASGR ddPTM_HeLa_SAHA_4h_R1 1 VLSPLRSPPLIGSESAYESFLSADDKASGR 30 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 VLS(0.084)PLRS(0.907)PPLIGS(0.004)ES(0.004)AY(0.001)ESFLSADDKASGR 70.027 9.77E-05 2997800 328.42 260.02 448.07 539.1 453.2 367.68 437.96 423.61 283.55 292.22 TRUE FALSE FALSE 362.9647224 268.4448186 509.1306462 549.5350601 418.4759139 336.3515955 388.6795882 412.7746696 281.5767525 304.8190343 1.190754781 0.880669474 1.67027183 1.802823965 1.37286674 1.103446825 1.27511587 1.354163038 0.923750556 1 8.251809184 -6.766686164 24.99817331 1.076889869 1.422287191 0.502104307 0.204337509 105.4877485 502593.9091 0.035358612 0.047244618 1.71E-07 6.766686164 0.345397321 VLSQSTPGT(ph)PSK ddPTM_HeLa_SAHA_4h_R1 2 VLSQSTPGTPSK 12 0 Q6MZP7;Q6MZP7-3 Q6MZP7 LIN54 Protein lin-54 homolog 1 0 VLSQSTPGT(1)PSK;VLSQS(0.001)T(0.001)PGT(0.987)PS(0.012)K ; 177.38 6.38E-05 7264500 4731.5 6147.4 4178.9 4690.3 5138.9 4841.9 5084.1 5021.2 4746.3 5489.9 TRUE FALSE FALSE 5229.180879 6346.579793 4748.378729 4781.087539 4745.158592 4429.34288 4512.023687 4892.764975 4713.270112 5726.596456 0.913139405 1.108263843 0.829179909 0.834891646 0.828617597 0.773468659 0.787906695 0.854393183 0.823049109 1 12.48346223 -6.587260697 15.24682857 0.969033928 0.814594371 0.498048634 0.070267906 0.914344554 215.9824965 0.008795148 0.012438253 2.59E-07 6.587260697 -0.154439557 VLSSAASLPGSELPS(ph)SRPEGSQGGELSR ddPTM_HeLa_SAHA_4h_R1 1 VLSSAASLPGSELPSSRPEGSQGGELSR 28 1 O15027;O15027-5;A0A0C4DH09;Q8N9G1 O15027 SEC16A Protein transport protein Sec16A 1 0 VLSS(0.001)AAS(0.06)LPGS(0.022)ELPS(0.493)S(0.147)RPEGS(0.265)QGGELS(0.012)R 53.589 0.006857 6081700 225.93 214.67 379.22 272.29 265.68 205.16 403.59 214.29 151.51 231.45 TRUE FALSE FALSE 249.694354 221.6254489 430.8981267 277.5605667 245.3236558 187.6792138 358.176991 208.8087721 150.4556296 241.4289422 1.034235381 0.917973822 1.784782399 1.149657386 1.016131925 0.777368331 1.483571057 0.864887077 0.623188041 1 7.915454825 VLSSAASLPGSELPSSRPEGS(ph)QGGELSR ddPTM_HeLa_SAHA_4h_R1 1 VLSSAASLPGSELPSSRPEGSQGGELSR 28 1 O15027;O15027-5;A0A0C4DH09;Q8N9G1 O15027 SEC16A Protein transport protein Sec16A 1 0 VLS(0.002)S(0.004)AAS(0.127)LPGS(0.025)ELPS(0.25)S(0.213)RPEGS(0.374)QGGELS(0.004)R 48.958 0.011414 28706000 285.01 364.64 386.94 184.82 294.43 487.95 144.28 306.71 182.59 289.47 TRUE FALSE FALSE 314.9886595 376.4545752 439.6701681 188.3974584 271.870837 446.3739149 128.0452347 298.8648023 181.3193413 301.9504683 1.0431799 1.24674281 1.456100302 0.623934976 0.900382233 1.47830178 0.424060394 0.989780887 0.600493658 1 8.2381681 -6.234350093 24.99443727 1.071193493 0.8917848 0.075765244 0.324125212 1517.460014 1400113.48 0.042260952 0.070068639 5.83E-07 6.234350093 -0.179408693 VLSSIEQK ddPTM_HeLa_SAHA_4h_R1 1 VLSSIEQK 8 0 P31947-2;P31947 P31947-2 SFN 14-3-3 protein sigma 0 0 123.98 0.017672 5396200 1587.7 1605.6 1490.4 1613.3 1447.9 1527.9 1520.6 1571.7 1569 1511.6 FALSE FALSE TRUE 1754.701571 1657.622493 1693.50395 1644.527754 1336.962215 1397.714324 1349.498086 1531.49819 1558.081201 1576.772474 1.112843863 1.051275641 1.074031909 1.042970867 0.847910677 0.886440084 0.855861013 0.971286736 0.988145866 1 10.62275878 -5.792466568 9.410480036 1.055536534 0.887657173 0.729231726 0.045836716 0.122271353 35.19572148 0.007430758 0.013579554 1.61E-06 5.792466568 -0.16787936 VLSST(ph)SEEDEPGVVK ddPTM_HeLa_SAHA_4h_R1 2 VLSSTSEEDEPGVVK 15 0 Q8NI08-2;Q8NI08;Q8NI08-7;Q8NI08-4;Q8NI08-3 Q8NI08-2 NCOA7 Nuclear receptor coactivator 7 1 0 VLS(0.053)S(0.174)T(0.599)S(0.174)EEDEPGVVK;VLSST(0.5)S(0.5)EEDEPGVVK ; 335.1 5.09E-135 22908600 3180.7 3590.7 3062.3 2311.68 3326.9 4105.7 3452 2573.05 3042.71 3373.3 TRUE FALSE FALSE 3515.26062 3707.041036 3479.614296 2356.425909 3071.993641 3755.871262 3063.571875 2507.235107 3021.535533 3518.739472 0.999011336 1.053513926 0.988880912 0.669678994 0.873038105 1.067391119 0.870644701 0.712537864 0.85869828 1 11.78084299 -6.485072713 24.96206477 1.004408137 0.852475282 0.272342596 0.111189045 474.2053573 313102.1403 0.015530449 0.023719691 3.27E-07 6.485072713 -0.151932854 VLSSTS(ph)EEDEPGVVK ddPTM_HeLa_SAHA_4h_R1 3 VLSSTSEEDEPGVVK 15 0 Q8NI08-2;Q8NI08;Q8NI08-7;Q8NI08-4;Q8NI08-3 Q8NI08-2 NCOA7 Nuclear receptor coactivator 7 1 0 VLSST(0.182)S(0.818)EEDEPGVVK;VLSST(0.05)S(0.95)EEDEPGVVK;VLSS(0.001)T(0.027)S(0.972)EEDEPGVVK ;; 301.57 9.91E-84 108260000 11539.3 12293.8 11844.9 11486.2 13239.7 14311.9 13417.6 12200.2 12275.4 11474.4 TRUE FALSE FALSE 12753.05652 12692.12719 13459.06129 11708.53201 12225.27705 13092.4456 11907.81633 11888.13655 12189.97449 11969.11754 1.065496807 1.060406262 1.124482339 0.97822851 1.021401704 1.093852204 0.994878386 0.993234172 1.018452234 1 13.54702917 VLST(ph)SPTISK ddPTM_HeLa_SAHA_4h_R1 1 VLSTSPTISK 10 0 A0A087WX19;A0A087WX45;Q6IPM2-2;Q6IPM2-3;Q6IPM2-4;Q6IPM2;H7C427 A0A087WX19 IQCE IQ domain-containing protein E 1 0 VLS(0.008)T(0.487)S(0.487)PT(0.017)ISK 113.38 0.008084 10701000 3231.6 3256.3 2900.6 3990.4 3381.4 4404.7 4225.5 4145.1 3336 3579.2 TRUE FALSE FALSE 3571.514515 3361.806257 3295.878662 4067.639962 3122.317863 4029.39478 3750.035619 4039.074344 3312.784504 3733.516828 0.956608656 0.900439562 0.882781253 1.089492869 0.836294038 1.079249128 1.004424459 1.081841741 0.887309381 1 11.86631952 VLST(ph)STDLEAAVADALLLGDSR ddPTM_HeLa_SAHA_4h_R1 1 VLSTSTDLEAAVADALLLGDSR 22 0 H0Y5T1;Q7Z460-2;Q7Z460-3;F8WA11;Q7Z460-5;Q7Z460-4 H0Y5T1;Q7Z460-4 CLASP1 CLIP-associating protein 1 1 0 VLS(0.036)T(0.583)S(0.361)T(0.02)DLEAAVADALLLGDSR 230.27 1.50E-38 7107600 750.13 735.24 720.22 648.49 628.13 953.41 810.08 475.69 638.8 585.08 TRUE FALSE FALSE 829.0321151 759.0622584 818.3678309 661.0424617 580.0028151 872.1741043 718.9276664 463.5225386 634.3545388 610.3056621 1.358388373 1.243741137 1.340914695 1.083133424 0.950348081 1.429077524 1.177979676 0.759492443 1.039404643 1 9.253388165 VLSVPESTPFTAVLK ddPTM_HeLa_SAHA_4h_R1 1 VLSVPESTPFTAVLK 15 0 H0Y614;P61960 H0Y614 UFM1 Ubiquitin-fold modifier 1 0 0 172.11 1.28E-10 540450 215.05 111.34 97.533 113.21 0 0 181.86 0 0 111.78 FALSE FALSE TRUE 237.6699457 114.9474891 110.8242893 115.4013433 0 0 161.3966342 0 0 116.5993828 2.038346515 0.98583274 0.950470634 0.989725164 0 0 1.384198014 0 0 1 6.865416342 -6.458214841 1.456563467 1.47521482 0.431914836 0.000590625 0.6725215 0.294373705 1.240219192 0.094485729 0.16062971 3.48E-07 6.458214841 -1.043299983 VLT(ph)PEEQLADK ddPTM_HeLa_SAHA_4h_R1 2 VLTPEEQLADK 11 0 O75822-2;O75822;O75822-3 O75822-2 EIF3J Eukaryotic translation initiation factor 3 subunit J 1 0 VLT(1)PEEQLADK;VLT(1)PEEQLADK ; 128.35 0.0026006 22998000 2820.1 4294 2215.6 3312.2 4089.7 4469.4 3083.2 2409.29 7451.7 3249.4 TRUE FALSE FALSE 3116.731057 4433.128417 2517.53043 3376.312421 3776.34807 4088.581976 2736.270221 2347.66385 7399.843013 3389.497536 0.919525984 1.307901354 0.742744434 0.996110009 1.114132118 1.206250169 0.807279012 0.692628871 2.183168135 1 11.72685571 -4.537180663 24.03364845 0.997022433 0.721291313 0.016822161 0.404051047 103.9671487 174712.0144 0.020048993 0.075098147 2.90E-05 4.537180663 -0.275731119 VLT(ph)PEEQLADKLR ddPTM_HeLa_SAHA_4h_R1 2 VLTPEEQLADKLR 13 1 O75822-2;O75822;O75822-3 O75822-2 EIF3J Eukaryotic translation initiation factor 3 subunit J 1 0 VLT(1)PEEQLADKLR;VLT(1)PEEQLADKLR ; 106.28 0.0035934 77860000 7212.8 9178.1 7129.5 8933.9 9844 10477 9218 7849.6 10775.4 9120 TRUE FALSE FALSE 7971.475398 9475.476462 8101.071131 9106.828553 9089.754847 9584.300658 8180.76638 7648.818598 10700.41311 9513.207832 0.83793769 0.996033791 0.851560407 0.957282624 0.955487887 1.007473066 0.859937733 0.804020971 1.124795474 1 13.21571618 -9.636610167 1.468265575 0.999886311 0.903116339 0.320038474 0.077843027 0.518251178 2.011636465 0.048587722 0.011099945 2.31E-10 9.636610167 -0.096769972 VLT(ph)PELYAELR ddPTM_HeLa_SAHA_4h_R1 2 VLTPELYAELR 11 0 P12277;G3V4N7;G3V461 P12277 CKB Creatine kinase B-type 1 0 VLT(1)PELYAELR;VLT(1)PELYAELR ; 136.93 0.0018218 13668200 3069.5 3325.4 2903.1 2966 3469.9 3502.1 3833.2 3439.2 2822.6 3151.3 TRUE FALSE FALSE 3392.364093 3433.145142 3298.719349 3023.411219 3204.037012 3203.701378 3401.878248 3351.230244 2802.957297 3287.167965 1.032002054 1.044408189 1.003514084 0.919761707 0.974710464 0.974608359 1.034896386 1.019488593 0.852696706 1 11.68262946 -6.517604274 24.81690385 1.018028187 0.983894377 0 0.060582518 274.2715956 1290477.097 0.005241071 0.007546284 3.04E-07 6.517604274 -0.03413381 VLT(ph)PPQAAGDGILATTANQR ddPTM_HeLa_SAHA_4h_R1 2 VLTPPQAAGDGILATTANQR 20 0 Q96QT6;C9J9G2;Q96QT6-4;Q96QT6-2;Q96QT6-5;Q96QT6-3;K7EPF7 Q96QT6 PHF12 PHD finger protein 12 1 0 VLT(1)PPQAAGDGILATTANQR;VLT(1)PPQAAGDGILATTANQR ; 162.92 5.24E-16 9580700 2076.59 1856.74 1752.03 1823.4 1964.56 2514.94 1959.8 1969.32 1983.16 1773.63 TRUE FALSE FALSE 2295.015264 1916.899594 1990.787524 1858.694544 1814.035837 2300.652963 1739.278146 1918.947646 1969.359028 1850.099869 1.240481826 1.03610601 1.076043276 1.004645519 0.980506981 1.243529067 0.940099599 1.037213006 1.06446093 1 10.85338743 VLT(ph)PTQVK ddPTM_HeLa_SAHA_4h_R1 1 VLTPTQVK 8 0 P30086 P30086 PEBP1 Phosphatidylethanolamine-binding protein 1;Hippocampal cholinergic neurostimulating peptide 1 0 VLT(0.91)PT(0.09)QVK 101.66 0.017359 4886400 4010.4 4309.7 4011.2 3998.3 4650 5133.6 4672.7 4298.5 5019.1 4133.2 TRUE FALSE FALSE 4432.232272 4449.337108 4557.825447 4075.692878 4293.718005 4696.188399 4146.915498 4188.550594 4984.171674 4311.402479 1.028025635 1.031992983 1.057156104 0.945328787 0.995898208 1.089248434 0.961848382 0.971505355 1.156044164 1 12.07394153 -6.283973367 24.97296426 1.018270489 0.996582347 0.077859157 0.058447123 1799.648247 1994430.08 0.006115532 0.009345977 5.20E-07 6.283973367 -0.021688142 VLTANSNPS(ph)SPSAAK ddPTM_HeLa_SAHA_4h_R1 1 VLTANSNPSSPSAAK 15 0 Q9NV56 Q9NV56 MRGBP MRG/MORF4L-binding protein 1 0 VLTANSNPS(0.896)S(0.101)PS(0.003)AAK 162.7 5.74E-06 25253000 3010.2 3793.5 3043.8 3504.3 3119.7 3597.5 3216.6 3402.3 4542.3 3832.1 TRUE FALSE FALSE 3326.826647 3916.411889 3458.593213 3572.130794 2880.66926 3290.972761 2854.659702 3315.274092 4510.689764 3997.320585 0.832264157 0.979759268 0.865227879 0.893631301 0.720650045 0.823294677 0.714143297 0.829374082 1.128428323 1 11.96481757 -13.52287862 0.064230182 1.653659964 0.555716465 0.593899141 0.077372213 147.3715325 0.739939358 15.09878559 2.536069327 3.00E-14 13.52287862 -1.097943499 VLTANSNPSS(ph)PSAAK ddPTM_HeLa_SAHA_4h_R1 3 VLTANSNPSSPSAAK 15 0 Q9NV56 Q9NV56 MRGBP MRG/MORF4L-binding protein 1 0 VLTANSNPS(0.055)S(0.942)PS(0.002)AAK;VLTANS(0.001)NPS(0.12)S(0.879)PSAAK;VLTANSNPS(0.047)S(0.948)PS(0.004)AAK ;; 243.99 1.48E-33 86980000 11474.4 13881.4 10589.9 11231.8 11945 13503.5 11982.7 10053.4 15562.7 12167.1 TRUE FALSE FALSE 12681.33004 14331.16647 12033.03642 11449.20773 11029.77668 12352.92583 10634.37506 9796.248585 15454.3979 12691.68323 0.999184254 1.129177763 0.948104062 0.902103175 0.869055466 0.97330871 0.837901078 0.771863622 1.217679139 1 13.6315958 -6.344729753 3.020674661 1.009976922 0.872635336 0.496123503 0.089835355 0.158906601 2.823389898 0.009607554 0.015423759 4.52E-07 6.344729753 -0.137341587 VLTANSNPSS(ph)PSAAKR ddPTM_HeLa_SAHA_4h_R1 2 VLTANSNPSSPSAAKR 16 1 Q9NV56 Q9NV56 MRGBP MRG/MORF4L-binding protein 1 0 VLTANS(0.27)NPS(0.057)S(0.672)PSAAKR;VLTANSNPS(0.227)S(0.772)PS(0.001)AAKR ; 273.84 8.94E-59 17515500 5122.6 4520.6 4539.6 5111.1 4996.3 5240.7 4571.4 4381.9 4965.9 5336.9 TRUE FALSE FALSE 5661.418571 4667.070406 5158.233047 5210.032731 4613.484573 4794.162877 4057.014041 4269.817343 4931.341898 5566.999877 1.016960427 0.838345699 0.926573228 0.935878004 0.828720078 0.861175316 0.728761295 0.766987145 0.885816779 1 12.44268434 -5.361557318 0.390863792 1.016348683 0.666605551 0.505576376 0.062432635 0.876736403 0.164069641 0.016349146 0.127154312 4.35E-06 5.361557318 -0.349743132 VLTANSNPSSPSAAK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 VLTANSNPSSPSAAKR 16 1 Q9NV56 Q9NV56 MRGBP MRG/MORF4L-binding protein 0 1 ; VLTANSNPSSPSAAK(1)R;VLTANSNPSSPSAAK(1)R 330.68 8.74E-182 10382000 0 148.22 0 301.08 585.01 608.31 864.17 908.34 64.232 0 FALSE TRUE FALSE 0 153.0224253 0 306.9078388 540.1866602 556.4785657 766.9313172 885.1059781 63.78500428 0 0 VLTEIIASR ddPTM_HeLa_SAHA_4h_R1 2 VLTEIIASR 9 0 P08758;D6RBL5;E9PHT9 P08758 ANXA5 Annexin A5;Annexin 0 0 ; ; 146.79 0.00018068 4774600 1465.25 1497.91 1549.52 1936.69 1801.29 1609.53 1877.09 1347.17 1742.89 1534.74 FALSE FALSE TRUE 1619.371718 1546.443267 1760.680516 1974.177435 1663.275549 1472.388989 1665.874893 1312.711342 1730.761087 1600.910152 1.011531919 0.96597755 1.099799707 1.23315942 1.038956213 0.91971994 1.040579879 0.819978148 1.081110695 1 10.64467663 -3.600195775 1.529831186 1.024685188 1.16E-12 0.36845361 0.083259872 6.930190487 3.417894153 0.012297756 17.67332958 0.000251075 3.600195775 -1.024685188 VLTLS(ph)DDLER ddPTM_HeLa_SAHA_4h_R1 2 VLTLSDDLER 10 0 P55010 P55010 EIF5 Eukaryotic translation initiation factor 5 1 0 VLT(0.158)LS(0.842)DDLER;VLT(0.003)LS(0.997)DDLER ; 107.34 0.006474 4473700 1241.59 1527.83 1415.75 1324.64 1896.85 1602.85 1602.19 1287.85 1635.23 1371.2 TRUE FALSE FALSE 1372.186133 1577.332694 1608.681037 1350.280323 1751.513763 1466.278163 1421.907364 1254.908662 1623.850301 1430.319142 0.959356616 1.102783741 1.124700767 0.944041286 1.224561506 1.025140557 0.99411895 0.877362698 1.135306277 1 10.48212137 -7.283425448 24.24833917 0.98080729 1.045795837 0 0.103899018 963.8719133 1063047.463 0.01534834 0.017559721 5.21E-08 7.283425448 0.064988547 VLTLSDDLER ddPTM_HeLa_SAHA_4h_R1 1 VLTLSDDLER 10 0 P55010 P55010 EIF5 Eukaryotic translation initiation factor 5 0 0 138.66 0.0071804 5899000 1263.7 1318.7 1187.7 1393.7 1215.5 1271.6 1454.6 1444.3 1294.2 1251 FALSE FALSE TRUE 1396.621764 1361.426745 1349.553571 1420.677079 1122.368653 1163.252526 1290.92458 1407.356897 1285.193557 1304.936732 1.070260136 1.043289465 1.034190806 1.088694221 0.860094306 0.891424463 0.989262198 1.07848669 0.984870396 1 10.34976415 -5.780258866 24.99995849 1.038347625 0.952749211 0.30130079 0.061167021 224.9236128 298789.9359 0.009248805 0.016785468 1.66E-06 5.780258866 -0.085598414 VLTPEEQLADK(ac)LR ddPTM_HeLa_SAHA_4h_R1 1 VLTPEEQLADKLR 13 1 O75822-2;O75822;O75822-3 O75822-2 EIF3J Eukaryotic translation initiation factor 3 subunit J 0 1 VLTPEEQLADK(1)LR 97.779 0.016214 785110 0 184.51 60.569 132.93 130.33 110.63 119.48 0 146.84 0 FALSE TRUE FALSE 0 190.4882451 68.82302789 135.5030524 120.3441436 101.2037016 106.0357959 0 145.8181285 0 0 VLTVINQTQK ddPTM_HeLa_SAHA_4h_R1 2 VLTVINQTQK 10 0 F2Z388;P42766 F2Z388 RPL35 60S ribosomal protein L35 0 0 ; ; 170.47 3.13E-11 2678600 1633.55 1621.88 2044.4 1798.35 2214.5 1503.21 2145.4 1459.56 1197.62 1473.02 FALSE FALSE TRUE 1805.374284 1674.429976 2323.000185 1833.159665 2044.825488 1375.128051 1903.993946 1422.226569 1189.285665 1536.529101 1.174969145 1.0897483 1.51184913 1.193052356 1.330808175 0.894957375 1.239152545 0.925609914 0.774007901 1 10.58545938 -3.21061057 14.06273122 1.124441744 1.137038417 0 0.210898322 0 0 0.023591725 0 0.000615729 3.21061057 0.012596672 VLVDVER ddPTM_HeLa_SAHA_4h_R1 2 VLVDVER 7 0 P08621-2;P08621;P08621-4 P08621-2 SNRNP70 U1 small nuclear ribonucleoprotein 70 kDa 0 0 ; ; 124.59 0.016221 8077500 6274.9 5776 5857.7 6085.7 6050.4 7125.4 5945.2 6960.8 7133.2 6273.3 FALSE FALSE TRUE 6934.922772 5963.14619 6655.95685 6203.497524 5586.819659 6518.275834 5276.230449 6782.752815 7083.55948 6543.772664 1.059774404 0.911270378 1.017143656 0.948000159 0.85376127 0.99610365 0.806297945 1.03652024 1.082488626 1 12.67590691 -6.680233533 1.143238864 1.026053643 0.921285865 0.275686226 0.072800778 0.404917287 1.060170759 0.012176948 0.019366711 2.09E-07 6.680233533 -0.104767778 VLVFVMGK ddPTM_HeLa_SAHA_4h_R1 2 VLVFVMGK 8 0 C9J712;P35080 C9J712 PFN2 Profilin-2 0 0 ; ; 149.06 5.20E-05 1425500 1390.18 1845.46 3151.6 2614.41 2475.15 1686.5 2967.07 810.37 960.25 1837.59 FALSE FALSE TRUE 1536.405511 1905.254115 3581.083635 2665.015686 2285.504542 1542.800712 2633.207475 789.6419088 953.5675421 1916.817498 0.801539798 0.993967405 1.868244441 1.390333555 1.192343321 0.804876163 1.373739272 0.411954664 0.497474352 1 10.90449727 -6.985432044 24.99869951 0.905833709 1.197832374 0.155374881 0.384187798 377.4573815 647716.9597 0.057447911 0.075485237 1.03E-07 6.985432044 0.291998665 VLVTGATGLLGR ddPTM_HeLa_SAHA_4h_R1 2 VLVTGATGLLGR 12 0 E5RJR3;Q9NZL9-5;Q9NZL9-3;Q9NZL9-4;Q9NZL9-2;Q9NZL9 E5RJR3 MAT2B Methionine adenosyltransferase 2 subunit beta 0 0 ; ; 117.31 0.0053087 1854060 439.65 652.65 550.77 505.05 943.11 679.08 539.94 586.46 772.34 711.15 FALSE FALSE TRUE 485.8944042 673.7962882 625.8260673 514.8259731 870.8491155 621.2185636 479.1845302 571.4592024 766.9652231 741.8111568 0.655010914 0.908312422 0.84364607 0.694012173 1.173949876 0.837434916 0.645965656 0.77035671 1.033908989 1 9.534908156 -9.650789089 1.499325517 0.999613383 0.797222664 0.219205318 0.146479158 0.540410693 2.191366582 0.107625271 0.024504879 2.23E-10 9.650789089 -0.202390719 VLVTVFR ddPTM_HeLa_SAHA_4h_R1 2 VLVTVFR 7 0 F5H2T0;O95163 F5H2T0 IKBKAP Elongator complex protein 1 0 0 ; ; 132.72 0.00048011 1755920 1072.99 1414.21 1359.04 1341.18 1286.81 1403.74 1310.28 916.95 1067.43 1467.13 FALSE FALSE TRUE 1185.852011 1460.031332 1544.242894 1367.140478 1188.214896 1284.133455 1162.843846 893.4957467 1060.001668 1530.385154 0.774871612 0.954028682 1.009055067 0.893330986 0.776415592 0.839091683 0.75983738 0.583837176 0.692637187 1 10.57967907 -3.557924743 0.659868631 0.904493948 4.56E-16 0.443180088 0.09749506 4.281322214 0.669365842 0.016480074 3.616854728 0.000276742 3.557924743 -0.904493948 VLVVGAGGIGCELLK ddPTM_HeLa_SAHA_4h_R1 1 VLVVGAGGIGCELLK 15 0 U3KQ55;K7ES38;K7EPL2;Q9UBT2 U3KQ55 UBA2 SUMO-activating enzyme subunit 2 0 0 150.46 0.0012298 0 0 0 0 0 0 0 0 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 0 0 0 0 0 VLVVSAK ddPTM_HeLa_SAHA_4h_R1 2 VLVVSAK 7 0 H3BV85;H3BTW0;A0A0B4J295;A0A087WZT3;H3BVE0;Q9H3K6-2;Q9H3K6 H3BV85 BOLA2B;BOLA2 BolA-like protein 2 0 0 ; ; 121.29 0.0037067 4525000 8578.9 9533.2 10269.1 11158.6 10918.7 8986.1 11827.6 7953.7 7720 8697.1 FALSE FALSE TRUE 9481.268063 9842.081935 11668.51947 11374.59084 10082.11156 8220.433726 10496.72732 7750.255871 7666.275891 9072.074544 1.045104735 1.084876661 1.286201895 1.253802621 1.111334736 0.90612502 1.157037155 0.854298081 0.845041104 1 13.14721678 -2.537170716 13.21809112 1.05581644 0.764581813 0 0.147350611 0 0 0.017639975 0 0.002902881 2.537170716 -0.291234627 VMDS(ph)DEDDDY ddPTM_HeLa_SAHA_4h_R1 5 VMDSDEDDDY 10 0 O14737;K7EQA1 O14737 PDCD5 Programmed cell death protein 5 1 0 VMDS(1)DEDDDY;VMDS(1)DEDDDY;VMDS(1)DEDDDY;VMDS(1)DEDDDY;VMDS(1)DEDDDY ;;;; 166.66 0.00024552 98314800 11832.8 13734.6 11610.3 11913.1 13361.5 16386.6 14930.9 12827.2 15018 12572.1 TRUE FALSE FALSE 13077.42819 14179.61005 13192.49122 12143.69528 12337.74476 14990.36949 13250.83584 12499.0988 14913.48852 13114.14476 0.997200232 1.081245504 1.005974195 0.925999789 0.940796749 1.143068783 1.010423179 0.953100567 1.137206336 1 13.6788361 VMEK(ac)PSPLLVGR ddPTM_HeLa_SAHA_4h_R1 1 VMEKPSPLLVGR 12 1 Q9UN86-2;Q9UN86;D6RB17;D6RGJ4;D6R9A4;D6RBM9;D6REX8;D6RBR0;D6RE13;D6RBW8;D6R9X5;D6RAC7;E5RJU8;E5RH00;E5RH42;E5RI46;Q13283-2;E5RIF8;Q13283;E5RIZ6 Q9UN86-2;Q13283 G3BP2;G3BP1 Ras GTPase-activating protein-binding protein 2;Ras GTPase-activating protein-binding protein 1 0 1 VMEK(1)PSPLLVGR 94.82 0.020678 1216100 124.31 65.448 129.87 260.25 179.2 193.88 44.912 167.83 236.02 233.07 FALSE TRUE FALSE 137.3854962 67.56855814 147.5680073 265.2875151 165.4697347 177.3603333 39.85838356 163.5371516 234.3775176 243.1187883 0.56509617 0.277924049 0.606979034 1.091184753 0.680612699 0.729521295 0.163946126 0.672663568 0.964045269 1 7.925517579 -9.155428992 0.922384459 0.998776835 0.598868958 0.289985287 0.238470271 0.614779403 0.948265866 0.161110592 0.04703113 6.99E-10 9.155428992 -0.399907877 VMLGETNPADSKPGTIR ddPTM_HeLa_SAHA_4h_R1 2 VMLGETNPADSKPGTIR 17 1 P15531;P15531-2;E7ERL0;Q32Q12;P22392-2;J3KPD9;P22392;O60361 P15531;Q32Q12 NME1;NME1-NME2;NME2;NME2P1 Nucleoside diphosphate kinase A;Nucleoside diphosphate kinase;Nucleoside diphosphate kinase B;Putative nucleoside diphosphate kinase 0 0 ; ; 111.7 0.0005661 2273600 418.8 300.23 536.4 361.38 469.48 617.45 624.02 248.48 450.69 479.56 FALSE FALSE TRUE 462.8513055 309.957649 609.4977985 368.3750325 433.5085438 564.8397863 553.8036273 242.1242414 447.5536116 500.2361785 0.925265555 0.619622615 1.218420068 0.73640222 0.866607739 1.129146213 1.107084315 0.484019853 0.894684613 1 8.966465591 -13.52287814 0.014840229 2.079115067 2.68E-11 0.009930419 0.21956989 15593.91959 18.69170962 1613.391503 1060.102829 3.00E-14 13.52287814 -2.079115067 VMMFCGMK ddPTM_HeLa_SAHA_4h_R1 1 VMMFCGMK 8 0 Q96MT7-1;Q96MT7 Q96MT7-1 CFAP44 Cilia- and flagella-associated protein 44 0 0 74.743 0.022671 1044000 117.8 139.39 158.45 0 138.84 61.649 244.21 142.34 0 127.29 FALSE FALSE TRUE 130.1907445 143.9063275 180.0427408 0 128.2021092 56.39615837 216.7308481 138.6991489 0 132.7780948 0.980513726 1.083810757 1.355967195 0 0.965536592 0.424739927 1.63227864 1.044593606 0 1 7.052873346 VMPT(ph)KSPPPPGGGNLGMNSR ddPTM_HeLa_SAHA_4h_R1 1 VMPTKSPPPPGGGNLGMNSR 20 1 Q02078-3;Q02078-5;Q02078;Q02078-8;Q02078-7;Q02078-4;Q02078-6;Q02078-2 Q02078-3 MEF2A Myocyte-specific enhancer factor 2A 1 0 VMPT(0.982)KS(0.018)PPPPGGGNLGMNSR 79.92 0.0033731 6811700 946.92 913.02 845.91 927.44 888.74 860.67 695.25 1037.5 919.65 859.93 TRUE FALSE FALSE 1046.52139 942.6024471 961.1862095 945.3919423 820.6449332 787.336074 617.0186402 1010.962252 913.2500808 897.0057907 1.166682981 1.050832065 1.071549615 1.05394185 0.914871388 0.877738006 0.687864724 1.127040943 1.01810946 1 9.808973488 -5.737276283 2.96735193 1.077482247 0.878170343 0.332427171 0.107896704 0.191444458 3.456736922 0.016023218 0.033102305 1.83E-06 5.737276283 -0.199311904 VMPTKS(ph)PPPPGGGNLGMNSR ddPTM_HeLa_SAHA_4h_R1 1 VMPTKSPPPPGGGNLGMNSR 20 1 Q02078-3;Q02078-5;Q02078;Q02078-8;Q02078-7;Q02078-4;Q02078-6;Q02078-2 Q02078-3 MEF2A Myocyte-specific enhancer factor 2A 1 0 VMPT(0.308)KS(0.692)PPPPGGGNLGMNSR 99.414 0.00051919 5514200 1010.2 1247 1226.6 1057.9 831.62 1461.7 1151.7 1144.8 1165.1 1143.2 TRUE FALSE FALSE 1116.457471 1287.403618 1393.75466 1078.377184 767.9014553 1337.154937 1022.107685 1115.517674 1156.991974 1192.488947 0.936241358 1.079593754 1.168777844 0.904307908 0.643948489 1.121314324 0.857121307 0.935453261 0.970232871 1 10.21976018 -6.029256098 24.96232022 0.994568235 0.887512734 0.207255264 0.126020127 1011.853559 863347.5229 0.018686973 0.031025553 9.35E-07 6.029256098 -0.107055501 VMQVLNADAIVVK ddPTM_HeLa_SAHA_4h_R1 1 VMQVLNADAIVVK 13 0 Q7KZF4 Q7KZF4 SND1 Staphylococcal nuclease domain-containing protein 1 0 0 152.85 2.18E-05 410260 75.257 0 171.75 0 144.87 221.46 79.559 193.43 69.336 177.62 FALSE FALSE TRUE 83.17287655 0 195.1551956 0 133.7700919 202.5903621 70.60681193 188.4823407 68.85348513 185.2780675 0.448908377 0 1.053309754 0 0.721996369 1.093439525 0.381085646 1.017294401 0.371622427 1 7.5335483 -2.397029638 11.41909192 0.673930612 37.57147587 0 0.410194451 0 0 0.052510957 0 0.004008394 2.397029638 36.89754526 VMS(ph)SPSAMK ddPTM_HeLa_SAHA_4h_R1 1 VMSSPSAMK 9 0 A0A494C142;Q99728-3;Q99728-2;Q99728 A0A494C142 BARD1 BRCA1-associated RING domain protein 1 1 0 VMS(0.625)S(0.375)PS(0.001)AMK 125.97 0.0026934 4060000 3205.7 2937.5 2808.4 3775.1 3694.5 3684.7 3382.9 3598.4 3437.8 3663 TRUE FALSE FALSE 3542.890234 3032.676927 3191.114126 3848.172519 3411.428208 3370.74283 3002.247189 3506.358138 3413.87607 3820.929856 0.927232472 0.793701283 0.835166896 1.007129852 0.892826704 0.882178673 0.785737321 0.917671423 0.893467349 1 11.89970806 -8.03962027 1.150315523 0.984271323 0.875979658 0.093456228 0.068048758 0.33800591 0.935204039 0.01653273 0.013341259 9.13E-09 8.03962027 -0.108291666 VMTIPY(ph)QPMPASSPVICAGGQDR ddPTM_HeLa_SAHA_4h_R1 1 VMTIPYQPMPASSPVICAGGQDR 23 0 Q15365 Q15365 PCBP1 Poly(rC)-binding protein 1 1 0 VMT(0.002)IPY(0.565)QPMPAS(0.11)S(0.323)PVICAGGQDR 60.332 0.0043504 0 961.45 1019.2 713.44 1231.5 1025.4 959.88 1037.8 831.14 865.58 997.5 TRUE FALSE FALSE 1062.579722 1052.222749 810.6638878 1255.337463 946.8340735 878.0928239 921.0240127 809.8806423 859.5563583 1040.507107 1.021213325 1.01125955 0.779104614 1.206466977 0.909973673 0.843908531 0.885168402 0.77835186 0.826093693 1 10.0230711 -5.530072537 24.99478222 1.005582763 0.846778051 0.197912614 0.114164377 130.3700374 452969.3268 0.013118271 0.026280026 2.95E-06 5.530072537 -0.158804712 VMTIPYQPMPAS(ph)SPVICAGGQDR ddPTM_HeLa_SAHA_4h_R1 4 VMTIPYQPMPASSPVICAGGQDR 23 0 Q15365 Q15365 PCBP1 Poly(rC)-binding protein 1 1 0 VMTIPYQPMPAS(0.709)S(0.291)PVICAGGQDR;VMTIPYQPMPAS(0.835)S(0.165)PVICAGGQDR;VMTIPYQPMPAS(0.5)S(0.5)PVICAGGQDR;VMTIPYQPMPAS(0.639)S(0.361)PVICAGGQDR ;;; 134.53 1.11E-06 20961000 6375.42 5988.29 6021.54 6346.86 6559 7163.26 6434.1 6184.98 6386.83 6323.18 TRUE FALSE FALSE 7046.015927 6182.314525 6842.124112 6469.712653 6056.450837 6552.909949 5710.118134 6026.777167 6342.38353 6595.803235 1.068257447 0.937310333 1.037345092 0.980883211 0.918227943 0.993496882 0.865719903 0.913729072 0.961578644 1 12.68733265 -5.56781839 0.683018443 1.028917196 0.888397156 0.328033194 0.047492407 0.560068462 0.419293206 0.008533654 0.044090941 2.71E-06 5.56781839 -0.14052004 VMTIPYQPMPASS(ph)PVICAGGQDR ddPTM_HeLa_SAHA_4h_R1 4 VMTIPYQPMPASSPVICAGGQDR 23 0 Q15365 Q15365 PCBP1 Poly(rC)-binding protein 1 1 0 VMTIPYQPMPAS(0.114)S(0.886)PVICAGGQDR;VMTIPYQPMPAS(0.415)S(0.585)PVICAGGQDR;VMTIPY(0.002)QPMPAS(0.441)S(0.556)PVICAGGQDR;VMTIPYQPMPAS(0.429)S(0.571)PVICAGGQDR ;;; 108.5 4.18E-05 49775500 6496.68 6350.18 6181.32 6691.88 7874.79 8177.22 7581.03 7107.9 7699.78 7241.05 TRUE FALSE FALSE 7180.03061 6555.929999 7023.678099 6821.411014 7271.425291 7480.474852 6727.992552 6926.09021 7646.196604 7553.247102 0.950588603 0.867961806 0.929888564 0.903109738 0.962688655 0.990365435 0.890741751 0.916968572 1.0123059 1 12.88288127 -8.260504799 1.033146674 0.99173392 0.926132501 0.45109745 0.034385561 0.342488241 0.760618384 0.010644179 0.007317008 5.49E-09 8.260504799 -0.06560142 VMVLDFVTPTPLGTR ddPTM_HeLa_SAHA_4h_R1 1 VMVLDFVTPTPLGTR 15 0 Q16881;A0A087WSY9;A0A087WSW9;E9PIR7;A0A182DWI3;Q16881-5;F8W809;Q16881-2;Q16881-4;Q16881-3;Q16881-6;E9PKD3;A0A0B4J225;E9PIZ5;E9PKI4;E9PLT3;E9PQI3 Q16881 TXNRD1 "Thioredoxin reductase 1, cytoplasmic" 0 0 121.68 0.0019789 1773200 91.584 179.94 146.9 242.07 103.79 194.5 167.33 0 132.2 137.09 FALSE FALSE TRUE 101.2172253 185.7701741 166.918767 246.7556149 95.83763262 177.9275058 148.501588 0 131.2800094 143.0006208 0.707809692 1.299086487 1.167259037 1.725556249 0.670190326 1.244242891 1.038468135 0 0.918038039 1 7.1598776 -4.259665153 25 0.988021988 3.75E-05 0.512988501 0.304239206 111.4116292 1569730.069 0.044707628 0.385423931 5.50E-05 4.259665153 -0.987984494 VMVQPINLIFR ddPTM_HeLa_SAHA_4h_R1 2 VMVQPINLIFR 11 0 P62304 P62304 SNRPE Small nuclear ribonucleoprotein E 0 0 ; ; 125.31 0.0031714 2966800 57.632 0 137.07 221.91 0 0 72.542 0 0 138.73 FALSE FALSE TRUE 63.69399819 0 155.7491858 226.2053889 0 0 64.37938324 0 0 144.7113292 0.440145209 0 1.076274999 1.563149134 0 0 0.444881431 0 0 1 7.177034062 VMVTNVTSLLK ddPTM_HeLa_SAHA_4h_R1 2 VMVTNVTSLLK 11 0 Q9Y490;Q9Y4G6;H0YMT1;A0A1B0GVU7 Q9Y490;Q9Y4G6 TLN1;TLN2 Talin-1;Talin-2 0 0 ; ; 159.09 5.38E-07 908250 129.16 126.09 263.34 286.02 541.24 117.5 355.79 145.26 157.15 213.01 FALSE FALSE TRUE 142.7456414 130.1753987 299.2266038 291.5563307 499.7703081 107.488339 315.7555728 141.5444595 156.0563804 222.1939035 0.642437255 0.585863953 1.346691331 1.312170703 2.249253018 0.483759173 1.421081172 0.637031247 0.702343214 1 7.795675423 -6.750415581 24.94856458 0.808036558 1.264373869 0.218523782 0.461663081 265.386507 600608.8791 0.070485191 0.099133878 1.78E-07 6.750415581 0.456337311 VNASASS(ph)LK ddPTM_HeLa_SAHA_4h_R1 2 VNASASSLK 9 0 Q16658 Q16658 FSCN1 Fascin 1 0 VNASAS(0.088)S(0.912)LK;VNASAS(0.063)S(0.937)LK ; 134.75 0.0015684 51293000 6837.7 8551.2 6121.2 7043.6 7688.6 7215.9 7374.9 5825.3 6717 7016.3 TRUE FALSE FALSE 7556.920658 8828.264491 6955.365258 7179.939063 7099.501129 6601.064724 6545.056842 5676.297261 6670.25585 7318.80703 1.032534487 1.206243648 0.950341392 0.981025874 0.970035294 0.90193179 0.894279193 0.775576844 0.91138567 1 12.83739279 -4.600152209 0.725033726 1.026987063 0.7122836 0.511215294 0.074037032 1.008057986 0.490686649 0.011114771 0.234054628 2.51E-05 4.600152209 -0.314703463 VNASASSLK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 VNASASSLKK 10 1 Q16658 Q16658 FSCN1 Fascin 0 1 ; VNASASSLK(1)K;VNASASSLK(1)K 138.25 0.00011541 4908000 2153.3 2784.5 2408.1 2665.4 3188.7 2473.8 3431.9 1490.68 1292.5 1288.63 FALSE TRUE FALSE 2379.793974 2874.719627 2736.263327 2716.992671 2944.382495 2263.018323 3045.73358 1452.550564 1283.505387 1344.189146 1.770430881 2.138627318 2.035623733 2.021287465 2.190452515 1.683556462 2.265851937 1.08061471 0.954854747 1 10.39252044 -8.705687764 0.733251595 1.018625786 1.936742398 0.552267514 0.327880228 0.358008688 0.378459766 0.172418019 0.067254224 1.97E-09 8.705687764 0.918116612 VNDAEPGS(ph)PEAPQGK ddPTM_HeLa_SAHA_4h_R1 6 VNDAEPGSPEAPQGK 15 0 Q8N8A6 Q8N8A6 DDX51 ATP-dependent RNA helicase DDX51 1 0 VNDAEPGS(1)PEAPQGK;VNDAEPGS(1)PEAPQGK;VNDAEPGS(1)PEAPQGK;VNDAEPGS(1)PEAPQGK;VNDAEPGS(1)PEAPQGK;VNDAEPGS(1)PEAPQGK ;;;;; 218.36 7.11E-18 187355600 22518.3 24722.9 20925.1 22008.5 24312.8 24621.7 26101.7 23490.9 24423.8 22705.5 TRUE FALSE FALSE 24886.87811 25523.93818 23776.66365 22434.50634 22449.95852 22523.79264 23164.66802 22890.03679 24253.83279 23684.44522 1.050768886 1.077666711 1.003893629 0.947225326 0.947877744 0.950995154 0.978054069 0.966458643 1.02404057 1 14.53165226 -6.430873094 4.631070435 1.029157876 0.958725496 0.755369648 0.02123425 0.116677154 4.267222297 0.004226479 0.006484645 3.71E-07 6.430873094 -0.07043238 VNEEKDGPIS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 VNEEKDGPISPK 12 1 Q8WWQ0 Q8WWQ0 PHIP PH-interacting protein 1 0 VNEEKDGPIS(1)PK 135.14 0.0038001 14407000 1127.4 1083 1091.7 654.28 1201.5 1131.7 1000.8 998.83 1069.2 928.31 TRUE FALSE FALSE 1245.985105 1118.089911 1240.471191 666.9445355 1109.44133 1035.272793 888.18735 973.2813749 1061.75935 968.3339871 1.286730737 1.154653173 1.281036509 0.688754649 1.14572177 1.069127808 0.917232444 1.005109175 1.096480516 1 9.919360922 -6.317432566 24.99997574 1.150519866 0.978326211 0.342719363 0.13628997 326.7286985 145878.0062 0.023565848 0.035997438 4.81E-07 6.317432566 -0.172193655 VNFAMNVGK ddPTM_HeLa_SAHA_4h_R1 4 VNFAMNVGK 9 0 P14618;P14618-3;B4DNK4;P14618-2;H3BR70 P14618;P14618-2 PKM Pyruvate kinase PKM;Pyruvate kinase 0 0 ;;; ;;; 176.4 3.94E-11 26903700 8698.36 8379.5 19180.61 13344.63 11071.84 2799.08 13980.61 2274.91 1254.79 3556.73 FALSE FALSE TRUE 9613.293414 8651.001298 21794.44364 13602.93461 10223.51801 2560.582637 12407.47497 2216.721096 1246.057814 3710.078037 2.591129707 2.331757233 5.874389549 3.666482073 2.75560727 0.690169482 3.344262532 0.59748638 0.335857575 1 11.85723382 -4.23291377 22.58159459 2.282445685 0.597477153 0.104425078 1.556787992 5278.034587 4177974.692 0.219714189 23.34204703 5.85E-05 4.23291377 -1.684968532 VNFPENGFLS(ph)PDKLSLLEK ddPTM_HeLa_SAHA_4h_R1 1 VNFPENGFLSPDKLSLLEK 19 1 P31689 P31689 DNAJA1 DnaJ homolog subfamily A member 1 1 0 VNFPENGFLS(0.996)PDKLS(0.004)LLEK 63.443 0.0093011 180530000 1465.5 1682.3 1723.5 1844.1 1867.5 1893.8 2114.9 1722.4 1635.3 1547.2 TRUE FALSE FALSE 1619.648014 1736.807624 1958.369604 1879.795222 1724.412553 1732.437586 1876.925886 1678.343502 1623.919814 1613.907364 1.003556989 1.076150752 1.213433713 1.164747906 1.06847059 1.073443015 1.162970024 1.039925549 1.006203857 1 10.65634206 -7.131669143 3.881974754 1.00170069 1.12139185 0.528154744 0.049222725 0.128916976 3.412489609 0.008199795 0.010143184 7.38E-08 7.131669143 0.11969116 VNGDAS(ph)PAAAESGAK ddPTM_HeLa_SAHA_4h_R1 6 VNGDASPAAAESGAK 15 0 P29966 P29966 MARCKS Myristoylated alanine-rich C-kinase substrate 1 0 VNGDAS(0.77)PAAAES(0.23)GAK;VNGDAS(0.997)PAAAES(0.003)GAK;VNGDAS(1)PAAAESGAK;VNGDAS(1)PAAAESGAK;VNGDAS(0.977)PAAAES(0.023)GAK;VNGDAS(0.999)PAAAES(0.001)GAK ;;;;; 236.75 1.65E-25 427728000 16107.1 21335.8 14955.7 17499.8 21151.5 22132.7 19445.1 15108.2 25952.7 18834.3 TRUE FALSE FALSE 17801.31868 22027.09392 16993.78491 17838.53393 19530.87664 20246.86944 17257.08617 14721.75412 25772.09305 19646.33885 0.906088347 1.121180597 0.864984822 0.907982606 0.994122966 1.030567049 0.878386874 0.749338298 1.311801311 1 14.26197287 -4.420966536 3.300118603 0.963436004 0.749129672 0.229740941 0.130312311 0.179247439 3.251445942 0.009700447 0.076051336 3.79E-05 4.420966536 -0.214306332 VNGDDHHEEDMDMS(ph)D ddPTM_HeLa_SAHA_4h_R1 3 VNGDDHHEEDMDMSD 15 0 Q5T757;Q05519-2;Q05519 Q5T757 SRSF11 Serine/arginine-rich splicing factor 11 1 0 VNGDDHHEEDMDMS(1)D;VNGDDHHEEDMDMS(1)D;VNGDDHHEEDMDMS(1)D ;; 82.663 0.01041 141786000 12721.6 13394.2 11720.7 11957.1 13811.4 7162.9 14809 13441 12870.1 13100.8 TRUE FALSE FALSE 14059.71626 13828.18087 13317.93596 12188.54696 12753.17352 6552.580623 13142.65234 13097.19868 12780.53593 13665.6396 1.028837044 1.011894157 0.974556358 0.891911928 0.933229171 0.479493153 0.961729764 0.958403636 0.935231449 1 13.73826536 -6.054764136 1.717903908 1.013008295 0.815539895 0.243133359 0.131382603 0.31885539 1.861596227 0.01983421 0.039273381 8.82E-07 6.054764136 -0.1974684 VNGTTVS(ph)SPSTSLQR ddPTM_HeLa_SAHA_4h_R1 2 VNGTTVSSPSTSLQR 15 0 A0A075B6G3;P11532-4;A0A087WTU7;A0A5H1ZRP8;A0A087WV90;P11532-11;P11532;P11532-16;A0A5H1ZRQ1;P11532-12;P11532-14;P11532-15;H0Y304;A0A5H1ZRR9;P11532-2;P11532-13;P11532-3;A0A5H1ZRQ8;A0A5H1ZRP9;P11532-8;P11532-9;A0A5H1ZRP7;P11532-7;P11532-5;P11532-6;P11532-17 A0A075B6G3 DMD Dystrophin 1 0 VNGT(0.004)T(0.008)VS(0.578)S(0.254)PS(0.114)T(0.027)S(0.014)LQR;VNGT(0.028)T(0.123)VS(0.418)S(0.418)PS(0.014)TSLQR ; 193.45 3.17E-09 39785000 3870.6 4608.8 4258.9 3635.7 4415.5 4311.2 4044.1 3995.4 4245.8 4348.9 TRUE FALSE FALSE 4277.727467 4758.128144 4839.280713 3706.074231 4077.185344 3943.861506 3589.047225 3893.203453 4216.253132 4536.402362 0.942977965 1.04887701 1.066766201 0.816963297 0.89877066 0.869380886 0.791165981 0.858213876 0.929426624 1 12.14733289 -6.248184414 24.99438123 0.98566841 0.847933419 0.708252557 0.048057249 370.3844575 698419.5235 0.007468314 0.012336645 5.65E-07 6.248184414 -0.137734991 VNGTTVSS(ph)PSTSLQR ddPTM_HeLa_SAHA_4h_R1 2 VNGTTVSSPSTSLQR 15 0 A0A075B6G3;P11532-4;A0A087WTU7;A0A5H1ZRP8;A0A087WV90;P11532-11;P11532;P11532-16;A0A5H1ZRQ1;P11532-12;P11532-14;P11532-15;H0Y304;A0A5H1ZRR9;P11532-2;P11532-13;P11532-3;A0A5H1ZRQ8;A0A5H1ZRP9;P11532-8;P11532-9;A0A5H1ZRP7;P11532-7;P11532-5;P11532-6;P11532-17 A0A075B6G3 DMD Dystrophin 1 0 VNGTT(0.036)VS(0.218)S(0.746)PSTSLQR;VNGTT(0.001)VS(0.224)S(0.762)PS(0.01)T(0.004)SLQR ; 193.98 2.79E-09 36086000 5108.2 5663.1 5021.3 4666.2 5360.7 5444.3 5944 5109.5 5071.3 5423.4 TRUE FALSE FALSE 5645.503913 5846.588156 5705.576614 4756.521048 4949.964324 4980.415011 5275.165476 4978.806388 5036.00841 5657.229315 0.99792736 1.033472011 1.008546109 0.840786325 0.874980321 0.880362936 0.932464495 0.880078588 0.890189902 1 12.46587994 -6.272825941 24.99136936 1.002777704 0.884101431 0.588527892 0.042439616 185.818401 407836.0589 0.003633058 0.005579244 5.34E-07 6.272825941 -0.118676273 VNHEPEPAGGATPGAT(ph)LPKSPSQLR ddPTM_HeLa_SAHA_4h_R1 1 VNHEPEPAGGATPGATLPKSPSQLR 25 1 O00499-6;O00499-2;O00499;O00499-11 O00499-6 BIN1 Myc box-dependent-interacting protein 1 1 0 VNHEPEPAGGAT(0.01)PGAT(0.576)LPKS(0.354)PS(0.06)QLR 100.41 3.69E-06 198190000 802.08 861.79 1235.1 796.64 941.15 310.45 1044.2 851.02 706.12 760.57 TRUE FALSE FALSE 886.4464545 889.7125614 1403.412996 812.0601192 869.0392903 283.9979135 926.7038678 829.2521407 701.2060534 793.3618948 1.117329254 1.121446048 1.768944293 1.023568342 1.095388241 0.357967676 1.168072066 1.045238177 0.883841357 1 9.631835296 -5.481696459 24.99523102 1.11726318 0.861271829 0.160313025 0.297154164 771.3895867 468187.5897 0.041154528 0.09201468 3.30E-06 5.481696459 -0.255991351 VNHEPEPAGGATPGATLPKS(ph)PSQLR ddPTM_HeLa_SAHA_4h_R1 1 VNHEPEPAGGATPGATLPKSPSQLR 25 1 O00499-6;O00499-2;O00499;O00499-11 O00499-6 BIN1 Myc box-dependent-interacting protein 1 1 0 VNHEPEPAGGATPGAT(0.086)LPKS(0.739)PS(0.175)QLR 128.71 1.02E-08 192420000 3563.7 3818.6 3627.7 3276.4 3796.1 345.21 4213.4 3851.6 2947.6 3414.3 TRUE FALSE FALSE 3938.546317 3942.325145 4122.064064 3339.81946 3505.243638 315.7961659 3739.297143 3753.081649 2927.087412 3561.507182 1.10586505 1.106926069 1.157393163 0.93775452 0.984202322 0.088669249 1.049919866 1.05379028 0.821867614 1 11.79827218 -5.500055079 24.97567609 1.053961406 0.724994155 0.190563844 0.265532252 776.2537502 849445.0469 0.034905543 0.077523188 3.16E-06 5.500055079 -0.328967251 VNIAFNYDMPEDSDTYLHR ddPTM_HeLa_SAHA_4h_R1 1 VNIAFNYDMPEDSDTYLHR 19 0 Q13838;Q13838-2;H0Y400;A0A0G2JJZ9;Q5STU3;A0A140T9X3 Q13838 DDX39B Spliceosome RNA helicase DDX39B 0 0 110.37 0.0041183 4499500 1053.5 1136.5 971.73 1132.5 816.44 1230.4 1279.5 775.83 1059.2 1036.6 FALSE FALSE TRUE 1164.311964 1173.323346 1104.152304 1154.421175 753.8845436 1125.562998 1135.527293 755.985392 1051.828941 1081.292899 1.076777592 1.085111487 1.021140807 1.067630404 0.697206598 1.04094182 1.050156987 0.699149502 0.972751178 1 10.07854166 VNIS(ph)PTISSESK ddPTM_HeLa_SAHA_4h_R1 1 VNISPTISSESK 12 0 Q8TAT5 Q8TAT5 NEIL3 Endonuclease 8-like 3 1 0 VNIS(0.569)PT(0.391)IS(0.031)S(0.009)ESK 113.35 0.0024363 5391100 1688.6 1487.1 990.83 1518.2 1687.6 1781.8 1719.1 1584 1743.9 1702.6 TRUE FALSE FALSE 1866.214696 1535.283016 1125.855152 1547.586956 1558.296453 1629.980616 1525.662344 1543.483574 1731.764058 1776.007418 1.050792174 0.864457547 0.633924803 0.871385412 0.877415509 0.917778045 0.859040524 0.869074959 0.975088302 1 10.79442189 -7.212617187 6.085893109 1.023978028 0.839109137 0.507407399 0.074956061 0.116590169 10.63059093 0.012735277 0.015545494 6.13E-08 7.212617187 -0.184868891 VNISPT(ph)ISSESK ddPTM_HeLa_SAHA_4h_R1 1 VNISPTISSESK 12 0 Q8TAT5 Q8TAT5 NEIL3 Endonuclease 8-like 3 1 0 VNIS(0.062)PT(0.612)IS(0.263)S(0.062)ESK 139.48 0.0012131 6017700 1202.7 1016.7 807.97 806.19 1004.5 1136.7 1013.6 917.55 837.57 980.5 TRUE FALSE FALSE 1329.205504 1049.641747 918.0759439 821.7949732 927.535427 1039.846765 899.5470604 894.0803996 831.7412822 1022.774153 1.299608031 1.026269332 0.89763311 0.803496031 0.906881958 1.016692455 0.87951681 0.874171875 0.813220865 1 9.998271892 -6.950468494 4.223745064 1.142602316 0.898720671 0.063485197 0.133551649 0.140202126 5.33937081 0.019861567 0.026091615 1.12E-07 6.950468494 -0.243881645 VNKDDIQK(ac)MNPPK ddPTM_HeLa_SAHA_4h_R1 2 VNKDDIQKMNPPK 13 2 P35579;Q5BKV1;B1AH99 P35579 MYH9 Myosin-9 0 1 ; VNKDDIQK(1)MNPPK;VNKDDIQK(1)MNPPK 143.25 6.83E-05 3865600 4516.1 4696.6 4193.4 4921.5 5293.8 5568 5787.2 5617.9 5203 4695.9 FALSE TRUE FALSE 4991.124119 4848.772922 4764.854714 5016.762749 4888.190188 5093.575075 5136.009025 5474.202253 5166.791899 4898.36323 1.018937119 0.989876147 0.97274426 1.024171241 0.997923175 1.039852464 1.048515348 1.117557436 1.054799666 1 12.25808404 -3.939771849 0.947766516 1.005172894 1.242736087 0.694276445 0.021816109 0.995044729 0.451401867 0.002453034 0.279466643 0.000114876 3.939771849 0.237563193 VNLEESSGVENS(ph)PAGARPK ddPTM_HeLa_SAHA_4h_R1 1 VNLEESSGVENSPAGARPK 19 1 Q8WVM8-2;Q8WVM8-3;Q8WVM8 Q8WVM8-2 SCFD1 Sec1 family domain-containing protein 1 1 0 VNLEESSGVENS(1)PAGARPK 123.87 0.00015262 39330000 1730.7 1549.2 1300.2 1557 1650 2061.8 1893.8 1646.2 1503.8 1716.4 TRUE FALSE FALSE 1912.742967 1599.395096 1477.384485 1587.137986 1523.577356 1886.123041 1680.70464 1604.092588 1493.334933 1790.402404 1.068331322 0.89331599 0.825168957 0.886469982 0.850969231 1.053463197 0.938730107 0.895939697 0.83407782 1 10.80606816 -7.25518982 24.9193759 1.032267569 0.907191264 0 0.086399199 326.0008941 1299890.303 0.010789899 0.013044095 5.56E-08 7.25518982 -0.125076305 VNLLSFTGSTQVGK ddPTM_HeLa_SAHA_4h_R1 2 VNLLSFTGSTQVGK 14 0 A0A0J9YWF7;A0A1B0GUY0;A0A1B0GV49;A0A1B0GTY9;A0A1B0GTJ4;A0A1B0GUA1;A0A1B0GTG2;A0A1B0GW82;A0A1B0GW77;P49419-4;P49419-2;P49419 A0A0J9YWF7 ALDH7A1 Alpha-aminoadipic semialdehyde dehydrogenase 0 0 ; ; 162.32 3.82E-05 0 0 0 0 144.22 0 0 69.812 0 0 80.088 FALSE FALSE TRUE 0 0 0 147.0115866 0 0 61.95657002 0 0 83.54098562 0 0 0 1.759754036 0 0 0.741630824 0 0 1 6.384412259 -9.479814481 1.242629612 0.997016942 0.298626724 0 0.616245374 0.614820327 1.710060674 0.360223692 0.089837071 3.31E-10 9.479814481 -0.698390219 VNNGNTAPEDS(ph)SPAK ddPTM_HeLa_SAHA_4h_R1 1 VNNGNTAPEDSSPAK 15 0 E9PJ27;G3V167;Q9UGN5-2;Q9UGN5 E9PJ27 PARP2 Poly [ADP-ribose] polymerase 2 1 0 VNNGNTAPEDS(0.5)S(0.5)PAK 178.67 3.10E-07 4074800 3205.5 2860.4 2453.9 2893.1 3499.7 3627.2 3180.3 3014 3031.4 3616.4 TRUE FALSE FALSE 3542.669197 2953.078837 2788.304713 2949.100134 3231.553742 3318.142154 2822.444274 2936.906244 3010.304241 3772.320702 0.939121956 0.78282815 0.739148374 0.78177344 0.856648731 0.87960235 0.748198389 0.778540977 0.797997964 1 11.88123662 -7.371256393 3.259021837 0.974709444 0.796096906 0.267089656 0.070150912 0.09103154 1.767437772 0.008566102 0.009744989 4.25E-08 7.371256393 -0.178612538 VNNGNTAPEDSS(ph)PAK ddPTM_HeLa_SAHA_4h_R1 1 VNNGNTAPEDSSPAK 15 0 E9PJ27;G3V167;Q9UGN5-2;Q9UGN5 E9PJ27 PARP2 Poly [ADP-ribose] polymerase 2 1 0 VNNGNTAPEDS(0.198)S(0.802)PAK 159.18 7.89E-06 5668200 2059.8 1909.3 1599 2016 2119.9 2393.5 2225.7 2341 2140.4 1881.4 TRUE FALSE FALSE 2276.459215 1971.162573 1816.903393 2055.022595 1957.47372 2189.560335 1975.258378 2281.12061 2125.504782 1962.516361 1.159969547 1.004405676 0.925802928 1.047136541 0.997430523 1.115690232 1.006492693 1.16234476 1.083050732 1 10.93848897 -4.243604123 23.18505375 1.05434656 1.162345009 0.209788834 0.065799478 2073.112055 2694836.026 0.010969025 0.398468223 5.71E-05 4.243604123 0.107998449 VNNGNTAPEDSS(ph)PAKK ddPTM_HeLa_SAHA_4h_R1 3 VNNGNTAPEDSSPAKK 16 1 E9PJ27;G3V167;Q9UGN5-2;Q9UGN5 E9PJ27 PARP2 Poly [ADP-ribose] polymerase 2 1 0 VNNGNTAPEDS(0.47)S(0.53)PAKK;VNNGNTAPEDS(0.398)S(0.602)PAKK;VNNGNTAPEDS(0.348)S(0.652)PAKK ;; 116.69 0.00049185 44577800 8866.34 8539.97 7055.85 8073.02 9186.99 9299.48 8302.47 8689.7 8514.54 8390.55 TRUE FALSE FALSE 9798.942321 8816.670631 8017.384493 8229.284976 8483.084811 8507.111987 7368.254225 8467.430057 8455.286623 8752.307673 1.11958385 1.007353827 0.916030925 0.940241738 0.969239785 0.971985024 0.841864169 0.967451142 0.966063687 1 13.09544774 -6.940487341 4.537599419 1.056878955 0.934378845 0.371982724 0.053110132 0.124907587 5.284867945 0.009075532 0.011950824 1.15E-07 6.940487341 -0.12250011 VNPTVFFDIAVDGEPLGR ddPTM_HeLa_SAHA_4h_R1 1 VNPTVFFDIAVDGEPLGR 18 0 P62937;F8WE65;C9J5S7;E5RIZ5 P62937 PPIA "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed;Peptidyl-prolyl cis-trans isomerase" 0 0 112.17 0.0062419 3520800 0 214.51 0 179.62 211.17 204.87 0 66.335 166.47 0 FALSE FALSE TRUE 0 221.4602647 0 183.0968048 194.9902002 187.4139234 0 64.63824675 165.3115217 0 0 VNPVTSLSENYTCS(ph)DSEESSEKDK ddPTM_HeLa_SAHA_4h_R1 4 VNPVTSLSENYTCSDSEESSEKDK 24 1 Q14432 Q14432 PDE3A "cGMP-inhibited 3,5-cyclic phosphodiesterase A" 1 0 VNPVTSLSENYT(0.005)CS(0.932)DS(0.063)EESSEKDK;VNPVTSLS(0.007)ENY(0.256)T(0.322)CS(0.414)DSEESSEKDK;VNPVTSLSENYT(0.009)CS(0.985)DS(0.006)EESSEKDK;VNPVTSLS(0.001)ENY(0.011)T(0.049)CS(0.93)DS(0.008)EESSEKDK ;;; 134.51 2.87E-07 390995000 4664.77 5045.57 3652.44 5035.81 5457.64 6394.25 4616.35 5504.65 7255.7 4758.84 TRUE FALSE FALSE 5155.431911 5209.049779 4150.175502 5133.285384 5039.476802 5849.423927 4096.906148 5363.849024 7205.206993 4964.016882 1.038560511 1.049361818 0.836051851 1.034099099 1.015201383 1.178365035 0.825320753 1.080546088 1.451487206 1 12.27729231 -9.68412964 0.004067518 1.235794769 0.790125595 0 0.171018076 617523.4905 527.3555882 29520.14314 28269.47519 2.07E-10 9.68412964 -0.445669174 VNQAIWLLCTGAR ddPTM_HeLa_SAHA_4h_R1 2 VNQAIWLLCTGAR 13 0 M0R0F0;M0R0R2;P46782;M0QZN2 M0R0F0 RPS5 "40S ribosomal protein S5;40S ribosomal protein S5, N-terminally processed" 0 0 ; ; 121.02 0.0030992 1723990 449.774 712.08 557.9 795.17 755.14 415.41 969.2 357.11 350.97 770.43 FALSE FALSE TRUE 497.083293 735.1518592 633.9277066 810.5616652 697.2813363 380.014731 860.1430652 347.9756433 348.5275712 803.6470077 0.618534367 0.914769609 0.788813622 1.008604098 0.86764628 0.472862746 1.070299593 0.432995631 0.43368241 1 9.650418144 -9.606872432 1.41408675 0.999779212 0.764245714 0 0.26666956 0.600902991 2.15987234 0.133032056 0.030781646 2.47E-10 9.606872432 -0.235533497 VNQIGSVTESLQACK ddPTM_HeLa_SAHA_4h_R1 5 VNQIGSVTESLQACK 15 0 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 ;;;; ;;;; 302.63 1.50E-136 24101200 6712.25 7204.78 6873.99 7461.71 6951.9 6516.03 7384.19 7051.79 6787.39 6349.73 FALSE FALSE TRUE 7418.275252 7438.219599 7810.741559 7606.142187 6419.246924 5960.827586 6553.301507 6871.415423 6740.156 6623.497935 1.119993593 1.123004743 1.179247225 1.148357297 0.969162667 0.899951603 0.98940191 1.037429994 1.017612758 1 12.6933776 -5.735189981 24.12532098 1.079457588 0.969799314 0.476513764 0.061822521 137.9017275 126741.5811 0.010906994 0.021807424 1.84E-06 5.735189981 -0.109658274 VNQSALEAVTPS(ph)PSFQQR ddPTM_HeLa_SAHA_4h_R1 4 VNQSALEAVTPSPSFQQR 18 0 Q9UKG1 Q9UKG1 APPL1 DCC-interacting protein 13-alpha 1 0 VNQSALEAVTPS(0.961)PS(0.039)FQQR;VNQSALEAVT(0.001)PS(0.999)PSFQQR;VNQSALEAVT(0.005)PS(0.727)PS(0.268)FQQR;VNQSALEAVT(0.012)PS(0.962)PS(0.026)FQQR ;;; 264.01 7.18E-49 145758000 6780 6492.6 7080.9 7116.7 6991.7 6739.9 7153.9 7109.8 7520.3 7437.1 TRUE FALSE FALSE 7493.151508 6702.9645 8045.848176 7254.454019 6455.997456 6165.622602 6348.924344 6927.941611 7467.96562 7757.749777 0.965892394 0.864034635 1.037136851 0.935123487 0.832199754 0.79476946 0.81839767 0.893034941 0.962645849 1 12.92142253 -5.850085157 3.814990818 0.976543001 0.829909378 0.626821619 0.047677097 0.09941476 2.785726583 0.007042762 0.013403109 1.41E-06 5.850085157 -0.146633623 VNS(ph)GDTEVGSSLLR ddPTM_HeLa_SAHA_4h_R1 1 VNSGDTEVGSSLLR 14 0 A0A499FJI4;O75592-2;O75592 A0A499FJI4 MYCBP2 E3 ubiquitin-protein ligase MYCBP2 1 0 VNS(0.844)GDT(0.089)EVGS(0.024)S(0.043)LLR 87.99 0.010534 3562000 259.38 254.11 382.41 319.9 273 412.55 481.32 316.57 337.45 277.25 TRUE FALSE FALSE 286.6627785 262.3433307 434.5228433 326.0921271 252.082799 377.3984191 427.1606068 308.4725978 335.101658 289.2036043 0.991214405 0.90712331 1.502480733 1.127552085 0.871644735 1.304957523 1.477023801 1.066627778 1.158704985 1 8.175941722 -6.807914002 24.99997183 0.989080682 1.219639774 0.232982005 0.184968059 117.3253752 63112.06992 0.028185868 0.037043556 1.56E-07 6.807914002 0.230559092 VNSGDT(ph)EVGSSLLR ddPTM_HeLa_SAHA_4h_R1 2 VNSGDTEVGSSLLR 14 0 A0A499FJI4;O75592-2;O75592 A0A499FJI4 MYCBP2 E3 ubiquitin-protein ligase MYCBP2 1 0 VNS(0.117)GDT(0.822)EVGS(0.047)S(0.014)LLR;VNS(0.015)GDT(0.984)EVGS(0.002)SLLR ; 217.32 3.89E-17 67251000 1217.06 1302.32 1243.75 1451.94 1732.38 1932.44 1527.82 2302.14 1613.48 1277.14 TRUE FALSE FALSE 1345.075955 1344.516022 1413.241773 1480.044398 1599.645419 1767.78524 1355.905673 2243.254592 1602.251661 1332.203756 1.009662335 1.00924203 1.060830047 1.110974498 1.20075132 1.326963111 1.01779151 1.683867489 1.20270766 1 10.37959904 -1 0.442007931 1.006162793 12.60916638 0.566540927 0.133170673 30.16161088 0.330844196 0.023544802 317.0148273 0.1 1 11.60300359 VNSPGT(ph)LAR ddPTM_HeLa_SAHA_4h_R1 1 VNSPGTLAR 9 0 A0A087WVP4;A0A087X1R1;P53814-5;P53814;P53814-6;P53814-2 A0A087WVP4 SMTN Smoothelin 1 0 VNS(0.368)PGT(0.632)LAR 97.452 0.021837 14543000 3057.7 2791.5 2705.4 2970.5 3473.4 3504.1 3372 3400.7 3207.8 2489.2 TRUE FALSE FALSE 3379.322915 2881.946432 3074.077823 3027.998323 3207.268842 3205.530966 2992.573685 3313.715018 3185.476659 2596.521594 1.301480767 1.109925848 1.183921532 1.166174905 1.235217473 1.234548164 1.152531792 1.276213156 1.226824636 1 11.34236451 -9.488202995 1.184883909 0.997977616 1.212659893 0 0.087921102 0.239551354 0.592598865 0.042645207 0.010003346 3.25E-10 9.488202995 0.214682277 VNTLIRPDGEK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 VNTLIRPDGEKK 12 2 K7EMA7;H7BY10;K7EJV9;K7ERT8;A8MUS3;P62750 K7EMA7 RPL23A 60S ribosomal protein L23a 0 1 ; VNTLIRPDGEK(1)K;VNTLIRPDGEK(1)K 99.669 0.0053762 15473400 5522.1 17635.1 7823.3 8711.2 14606.2 14063.9 16655.8 12898.5 13936.4 4922.5 FALSE TRUE FALSE 6102.939814 18206.48881 8889.418582 8879.817873 13487.07611 12865.5766 14781.64555 12568.57505 13839.41546 5134.733065 1.188560289 3.545751762 1.731232855 1.729363096 2.626636271 2.505597942 2.878756376 2.447756268 2.695255095 1 12.32607356 -7.399846693 8.79145149 1.083036733 2.455715547 0.119646523 0.711226264 0.145986928 9.884835992 0.082900378 0.094632197 3.98E-08 7.399846693 1.372678814 VNVTVDYIRPAS(ph)PATETVPAFSER ddPTM_HeLa_SAHA_4h_R1 2 VNVTVDYIRPASPATETVPAFSER 24 1 Q7KZF4 Q7KZF4 SND1 Staphylococcal nuclease domain-containing protein 1 1 0 VNVTVDY(0.003)IRPAS(0.948)PAT(0.032)ET(0.014)VPAFS(0.001)ER;VNVT(0.003)VDY(0.01)IRPAS(0.762)PAT(0.086)ET(0.135)VPAFS(0.004)ER ; 70.637 0.00090392 54148000 2399.26 2288.06 2329.9 2532.68 2726.6 3545.5 3500.7 2370.32 3057.3 2627.1 TRUE FALSE FALSE 2651.625175 2362.194645 2647.406638 2581.703684 2517.688497 3243.403454 3106.792023 2309.690647 3036.024 2740.367138 0.967616761 0.861999333 0.966077356 0.942101388 0.918741311 1.1835653 1.133713793 0.842839857 1.107889508 1 11.42015347 -5.298173357 24.96560551 0.966423807 1.061407252 0.132531268 0.101406939 672.8077083 457260.8403 0.012608781 0.028194848 5.03E-06 5.298173357 0.094983445 VPAAFPTKVPVPGPGS(ph)GGNGPER ddPTM_HeLa_SAHA_4h_R1 1 VPAAFPTKVPVPGPGSGGNGPER 23 1 J3KPS2;A0A494C1T9;Q6ZRV2 J3KPS2 FAM83H Protein FAM83H 1 0 VPAAFPTKVPVPGPGS(1)GGNGPER 55.852 0.0095645 4892100 630.71 675.79 405.3 606.69 670.25 723.23 587.08 423.46 555.42 680.06 TRUE FALSE FALSE 697.0509716 697.6860394 460.5321733 618.4333622 618.8955898 661.6067352 521.0202133 412.6285064 551.554787 709.3807147 0.982619004 0.983514247 0.64920312 0.871793311 0.872444904 0.932653963 0.734471917 0.581674266 0.777515903 1 9.470416299 -2.795667256 0.239637786 1.018291351 1.75E-11 0.224601365 0.123071966 12.49885681 0.324351117 0.069154995 4.269513337 0.001600784 2.795667256 -1.01829135 VPADTEVVCAPPTAYIDFAR ddPTM_HeLa_SAHA_4h_R1 3 VPADTEVVCAPPTAYIDFAR 20 0 P60174;P60174-3 P60174 TPI1 Triosephosphate isomerase 0 0 ;; ;; 191.06 1.97E-13 67415400 1345.84 1214.45 1147.55 1563.6 1541.15 1620.9 1305.19 1435.06 1456.38 1083.25 FALSE FALSE TRUE 1487.401626 1253.798977 1303.932138 1593.865739 1423.06742 1482.790201 1158.326586 1398.353243 1446.244933 1129.954209 1.316337967 1.109601581 1.153969008 1.410557814 1.259402734 1.312256895 1.025109316 1.237530895 1.279914639 1 10.14204859 -9.451381708 1.092808661 0.995224724 1.233585343 0 0.135348581 0.4348935 0.898437287 0.081952457 0.01875099 3.54E-10 9.451381708 0.238360619 VPAPFS(ph)PPPSKPR ddPTM_HeLa_SAHA_4h_R1 2 VPAPFSPPPSKPR 13 1 Q9P206;Q9P206-3;Q9P206-2 Q9P206 KIAA1522 Uncharacterized protein KIAA1522 1 0 VPAPFS(1)PPPSKPR;VPAPFS(1)PPPSKPR ; 68.413 0.020402 6071700 2273.7 2935.4 2242.63 2289.5 2572.6 3002.2 2377.9 2177.9 2615.2 2612.7 TRUE FALSE FALSE 2512.858198 3030.508886 2548.243937 2333.816583 2375.487944 2746.39567 2110.332434 2122.192472 2597.00061 2725.346283 0.922032629 1.111972047 0.935016571 0.856337632 0.871627932 1.007723564 0.774335521 0.778687275 0.952906655 1 11.41222384 -2.616312001 0.40978206 0.974356245 2.85E-10 0.451467079 0.074000038 12.34959123 0.498275199 0.01812892 7.932511125 0.00241929 2.616312001 -0.974356245 VPAS(ph)PLPGLER ddPTM_HeLa_SAHA_4h_R1 4 VPASPLPGLER 11 0 Q7KZI7;Q7KZI7-12;E9PC69;E7ETY4;Q7KZI7-9;Q7KZI7-8;Q7KZI7-11;Q7KZI7-6;Q7KZI7-3;Q7KZI7-14;Q7KZI7-16;Q7KZI7-4;Q7KZI7-5;Q7KZI7-15;Q7KZI7-2;Q7KZI7-7;Q7KZI7-13;Q7KZI7-10 Q7KZI7 MARK2 Serine/threonine-protein kinase MARK2 1 0 VPAS(1)PLPGLER;VPAS(1)PLPGLER;VPAS(1)PLPGLER;VPAS(1)PLPGLER ;;; 128.57 0.0014682 316986000 5454.15 5382.7 4960.2 4715.6 5562.7 5659.7 6089.2 5277.61 5550.3 5015.04 TRUE FALSE FALSE 6027.842522 5557.103012 5636.150224 4806.877257 5136.487128 5177.461719 5404.02719 5142.616378 5511.67501 5231.262917 1.152272906 1.06228708 1.077397621 0.918875104 0.981882809 0.989715448 1.033025347 0.983054467 1.053603135 1 12.35294356 -6.292649735 23.92622792 1.073233045 0.984682392 0.503880642 0.043400844 350.5638086 268745.655 0.009485513 0.014490676 5.10E-07 6.292649735 -0.088550653 VPCNVEGIS(ph)PELEK ddPTM_HeLa_SAHA_4h_R1 3 VPCNVEGISPELEK 14 0 Q86VQ1;H7C0B2;H7C2L5 Q86VQ1 GLCCI1 Glucocorticoid-induced transcript 1 protein 1 0 VPCNVEGIS(1)PELEK;VPCNVEGIS(1)PELEK;VPCNVEGIS(1)PELEK ;; 149.6 8.10E-05 104491000 4638.13 4867.34 4680.58 5005.22 5699 6551.31 5886.33 5756.26 5732.45 5707.14 TRUE FALSE FALSE 5125.989794 5025.04501 5318.425067 5102.103271 5262.343851 5993.101531 5223.984656 5609.023204 5692.557414 5953.202735 0.86104741 0.844091027 0.893372073 0.857035028 0.883951729 1.006702072 0.877508274 0.942185821 0.956217631 1 12.53945031 -9.377116825 1.116644467 0.999635536 0.892893147 0.316975316 0.046846658 0.381602036 0.855661573 0.031328063 0.008184334 4.20E-10 9.377116825 -0.106742389 VPDEEENEES(ph)DNEKETEK ddPTM_HeLa_SAHA_4h_R1 1 VPDEEENEESDNEKETEK 18 1 P11388;P11388-2;P11388-3;P11388-4 P11388 TOP2A DNA topoisomerase 2-alpha 1 0 VPDEEENEES(1)DNEKETEK 88.872 0.0020822 32957000 1590.9 2236.1 878.34 1244.2 1771.1 2666 1741.9 2289.2 3447.7 1599.9 TRUE FALSE FALSE 1758.238161 2308.551107 998.035601 1268.28329 1635.398701 2438.841801 1545.896828 2230.645579 3423.707175 1668.879519 1.053544094 1.383294049 0.598027353 0.759960965 0.979938145 1.46136481 0.926308227 1.336612712 2.051500505 1 10.70466409 VPEASSEPFDTSS(ph)PQAGR ddPTM_HeLa_SAHA_4h_R1 2 VPEASSEPFDTSSPQAGR 18 0 H0Y6F5;Q9H4I2 H0Y6F5 ZHX3 Zinc fingers and homeoboxes protein 3 1 0 VPEASSEPFDT(0.001)S(0.47)S(0.529)PQAGR;VPEASSEPFDT(0.002)S(0.291)S(0.707)PQAGR ; 239.7 2.25E-37 55956000 1436.35 1494.99 956.81 1126.88 1514.59 1458.88 1431 1185.84 1693.89 1533.02 TRUE FALSE FALSE 1587.431883 1543.428657 1087.199084 1148.692392 1398.542441 1334.575217 1269.980114 1155.50793 1682.102082 1599.115995 0.992693393 0.965176174 0.679875061 0.718329624 0.87457223 0.834570613 0.794176356 0.722591691 1.051894976 1 10.64305888 -6.866063898 6.5405246 0.995476183 0.777462549 0.798983351 0.056989127 0.072300966 4.014011619 0.009103719 0.012011013 1.36E-07 6.866063898 -0.218013635 VPEPEGQTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 VPEPEGQTSPK 11 0 Q504Q3-2;Q504Q3-3;Q504Q3 Q504Q3-2 PAN2 PAB-dependent poly(A)-specific ribonuclease subunit PAN2 1 0 VPEPEGQT(0.226)S(0.774)PK;VPEPEGQT(0.264)S(0.736)PK ; 138.2 0.0009887 26138000 3581.2 3430.9 2925.4 3711 3822.1 4319.3 3826.7 3534.1 4055.3 3739 TRUE FALSE FALSE 3957.887047 3542.063411 3324.058277 3782.831771 3529.251524 3951.27134 3396.109645 3443.702839 4027.078837 3900.206588 1.014789078 0.90817328 0.852277489 0.969905487 0.904888355 1.013092833 0.87075122 0.882953957 1.032529623 1 11.92933483 -7.261462867 24.99999999 1.006983732 0.916040123 0.50931551 0.045255604 1.300442693 1383768.797 0.00727899 0.008612565 5.48E-08 7.261462867 -0.090943609 VPFS(ph)PGPAPPPHMGELDQER ddPTM_HeLa_SAHA_4h_R1 1 VPFSPGPAPPPHMGELDQER 20 0 Q6Y7W6;I1E4Y6;Q6Y7W6-4;Q6Y7W6-5;Q6Y7W6-3;E7ESB6;C9JHW1 Q6Y7W6 GIGYF2 PERQ amino acid-rich with GYF domain-containing protein 2 1 0 VPFS(1)PGPAPPPHMGELDQER 144.25 4.16E-05 9127100 738.38 685.42 497.85 665.81 674.9 702.87 776.94 954.74 722.23 558.19 TRUE FALSE FALSE 816.0461962 707.6280577 565.6944053 678.6977153 623.1893078 642.9815218 689.5166664 930.3191332 717.2039426 582.2563026 1.401524024 1.215320563 0.971555658 1.165633952 1.070300665 1.104292936 1.184215033 1.597782848 1.231766731 1 9.185510541 -4.262826659 5.386231831 1.164196487 1.614374475 0.561629384 0.118319633 0.120673073 12.8106083 0.022342179 0.199793566 5.46E-05 4.262826659 0.450177988 VPGEDGTLPPT(ph)QGSPLR ddPTM_HeLa_SAHA_4h_R1 1 VPGEDGTLPPTQGSPLR 17 0 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 VPGEDGTLPPT(0.836)QGS(0.164)PLR 130.01 0.00024285 6736200 980.31 878.41 699.8 767.42 945.32 719.74 735.73 1078.7 659.38 561.2 TRUE FALSE FALSE 1083.423504 906.8710603 795.1650996 782.2745238 872.8897858 658.4141029 652.9437241 1051.108416 654.7913209 585.3960784 1.850752924 1.549158072 1.358336909 1.336316645 1.491109725 1.124732685 1.115387937 1.795550832 1.118544085 1 9.193269271 -6.56087441 24.92242108 1.425441001 1.3507586 0 0.282066678 968.7895217 635452.5841 0.057012216 0.080627542 2.75E-07 6.56087441 -0.0746824 VPGEDGTLPPTQGS(ph)PLR ddPTM_HeLa_SAHA_4h_R1 4 VPGEDGTLPPTQGSPLR 17 0 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 VPGEDGTLPPT(0.161)QGS(0.839)PLR;VPGEDGTLPPT(0.077)QGS(0.923)PLR;VPGEDGTLPPT(0.037)QGS(0.963)PLR;VPGEDGTLPPT(0.381)QGS(0.618)PLR ;;; 189.44 6.14E-12 73452200 5928.67 5759.69 4658.71 5703.79 6256.77 6342.82 5293.8 6860.71 4569.3 5256.59 TRUE FALSE FALSE 6552.274712 5946.307735 5293.574737 5814.195103 5777.377634 5802.376052 4698.127691 6685.222972 4537.501869 5483.22732 1.19496682 1.084453988 0.965412234 1.060360033 1.053645471 1.058204542 0.856817968 1.219213172 0.827523939 1 12.42080957 -6.969779266 24.18187284 1.09457519 1.029993898 0 0.127507366 294.6948675 235806.2408 0.016846739 0.022140788 1.07E-07 6.969779266 -0.064581293 VPKPEPIPEPKEPS(ph)PEK ddPTM_HeLa_SAHA_4h_R1 4 VPKPEPIPEPKEPSPEK 17 2 A9Z1X7;Q8IYB3;Q8IYB3-2;E9PCT1;M0R088 A9Z1X7 SRRM1 Serine/arginine repetitive matrix protein 1 1 0 VPKPEPIPEPKEPS(1)PEK;VPKPEPIPEPKEPS(1)PEK;VPKPEPIPEPKEPS(1)PEK;VPKPEPIPEPKEPS(1)PEK ;;; 89.831 0.0034712 179657900 7382.7 9746.9 6311.02 9069 8676.8 11221.9 9698.6 8167.3 13058.6 9411.95 TRUE FALSE FALSE 8159.246259 10062.70596 7171.052939 9244.543609 8011.985459 10265.73099 8607.288003 7958.392292 12967.72414 9817.745225 0.831071297 1.024950813 0.730417502 0.941615758 0.816071845 1.045630209 0.876707208 0.810613039 1.320845453 1 13.26117601 -9.50460606 1.193962706 1.001402996 0.882453911 0.257312195 0.138669825 0.638466041 1.597437121 0.063678717 0.014665394 3.13E-10 9.50460606 -0.118949085 VPLAPITDPQQLQLS(ph)PLK ddPTM_HeLa_SAHA_4h_R1 2 VPLAPITDPQQLQLSPLK 18 0 A0A286YFD6;P31350;P31350-2 A0A286YFD6 RRM2 Ribonucleoside-diphosphate reductase subunit M2 1 0 VPLAPITDPQQLQLS(1)PLK;VPLAPITDPQQLQLS(1)PLK ; 217.65 8.38E-22 1020180000 2278.99 3051.8 2223.43 1942.94 2621.72 2169.52 2095 1447.34 3234.2 2359.8 TRUE FALSE FALSE 2518.704625 3150.680322 2526.427461 1980.548413 2420.84438 1984.664691 1859.265086 1410.319139 3211.692939 2461.542527 1.023222064 1.279961767 1.026359461 0.804596464 0.983466405 0.806268699 0.755325194 0.572941204 1.304748102 1 11.26534695 -4.548632713 0.695801247 1.030006391 0.417529623 0.616339387 0.134437955 0.973618775 0.412524051 0.018276692 0.431984905 2.83E-05 4.548632713 -0.612476767 VPLSNENSQVPQS(ph)PEDWR ddPTM_HeLa_SAHA_4h_R1 2 VPLSNENSQVPQSPEDWR 18 0 Q8IZT6-2;Q8IZT6 Q8IZT6-2 ASPM Abnormal spindle-like microcephaly-associated protein 1 0 VPLSNENS(0.085)QVPQS(0.915)PEDWR;VPLSNENS(0.004)QVPQS(0.996)PEDWR ; 113.81 0.00091151 7239000 498.02 477.22 496.89 381.28 490.8 963.02 479.63 510 558.15 431.05 TRUE FALSE FALSE 550.4040286 492.6822411 564.6035815 388.6602257 453.19501 880.9652782 425.6607701 496.9549385 554.2657887 449.634675 1.22411384 1.095738982 1.25569404 0.864391132 1.007918284 1.959291236 0.94668137 1.10524158 1.232702502 1 8.812609488 -13.1433603 0.255127844 8.29E-12 1.211151122 0 0.294149971 93.67510482 1.481929331 47.1616226 0.163329387 7.19E-14 13.1433603 1.211151122 VPLT(ph)PTR ddPTM_HeLa_SAHA_4h_R1 2 VPLTPTR 7 0 Q68CZ2;Q68CZ2-2;E9PCX8 Q68CZ2 TNS3 Tensin-3 1 0 VPLT(1)PTR;VPLT(0.925)PT(0.075)R ; 131.62 0.0020307 68915000 2642.8 2903.1 2692.4 2696.6 3186.8 3105.1 2981.7 2534.9 2571 3022.9 TRUE FALSE FALSE 2920.78183 2997.162345 3059.306251 2748.796592 2942.628072 2840.528011 2646.191269 2470.060928 2553.108202 3153.232013 0.926281928 0.950504857 0.97021286 0.871739403 0.933210135 0.90083064 0.839199671 0.783342589 0.80967978 1 11.62261561 -1.336681153 0.246298983 0.982261424 2.16E-15 0.226905936 0.059318603 13.73088606 0.198061226 0.017588805 5.44113656 0.046059461 1.336681153 -0.982261424 VPLVAEK(ac)PLKEPK ddPTM_HeLa_SAHA_4h_R1 1 VPLVAEKPLKEPK 13 2 P41250 P41250 GARS Glycine--tRNA ligase 0 1 VPLVAEK(0.92)PLK(0.08)EPK 79.639 0.019972 1110800 275.87 1890.4 491.8 808.01 1278.7 1221.4 1153.4 722.23 1309.3 422.53 FALSE TRUE FALSE 304.8872723 1951.6502 558.8199428 823.650202 1180.726282 1117.329849 1023.616396 703.7564024 1300.188475 440.7473361 0.691750687 4.428047637 1.267891822 1.868758208 2.678918704 2.535080208 2.32245623 1.59673433 2.94996332 1 8.78380804 VPMPS(ph)LIAENNCR ddPTM_HeLa_SAHA_4h_R1 1 VPMPSLIAENNCR 13 0 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 VPMPS(1)LIAENNCR 80.014 0.019239 8647400 597.07 878.66 932.88 586.93 734.73 936.9 896.11 783.79 616.71 774.71 TRUE FALSE FALSE 659.8725621 907.1291605 1060.008028 598.2908789 678.4351461 857.0708491 795.2773444 763.7417867 612.4182649 808.1115394 0.816561242 1.122529646 1.31171005 0.740356807 0.839531566 1.060584842 0.984118288 0.945094519 0.757838782 1 9.658410624 -7.273298897 24.89732287 0.913376148 0.998003032 0.116456843 0.159182611 1758.845704 3692431.402 0.027832485 0.031963106 5.33E-08 7.273298897 0.084626884 VPPAPVPCPPPS(ph)PGPSAVPSSPK ddPTM_HeLa_SAHA_4h_R1 1 VPPAPVPCPPPSPGPSAVPSSPK 23 0 O95817 O95817 BAG3 BAG family molecular chaperone regulator 3 1 0 VPPAPVPCPPPS(0.997)PGPS(0.003)AVPSSPK 104.55 6.50E-05 4243900 955.26 1006.7 1099.8 1264.1 1222.8 1412.2 1308 1302.4 1274.9 1145.5 TRUE FALSE FALSE 1055.73863 1039.317741 1249.675016 1288.568483 1129.109328 1291.872615 1160.820398 1269.086494 1266.027867 1194.888111 0.883546016 0.869803399 1.045851076 1.078400958 0.944949839 1.081166181 0.971488784 1.062096511 1.059536751 1 10.22265982 -6.739492729 24.99406368 0.937830955 1.028539373 0.237084608 0.065708009 207.9246294 236795.6097 0.009714456 0.013731815 1.82E-07 6.739492729 0.090708419 VPPAPVPCPPPSPGPSAVPSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 VPPAPVPCPPPSPGPSAVPSSPK 23 0 O95817 O95817 BAG3 BAG family molecular chaperone regulator 3 1 0 VPPAPVPCPPPSPGPS(0.002)AVPS(0.214)S(0.784)PK 105.24 6.20E-05 14532000 1234.5 1189.1 1141.2 1038.8 1482.6 1232.1 1189.6 1139.8 1312.6 1096.1 TRUE FALSE FALSE 1364.350374 1227.62762 1296.716793 1058.907476 1369.003508 1127.118148 1055.743077 1110.645566 1303.46551 1143.358235 1.193283375 1.073703396 1.134129928 0.926137971 1.197353083 0.985796152 0.923370335 0.97138896 1.140032467 1 10.15906178 -5.021926029 20.46700063 1.088707365 0.949180324 0.380953982 0.079447978 64.13036054 59865.28719 0.012636029 0.0327056 9.51E-06 5.021926029 -0.139527041 VPPAVIIPPAAPLS(ph)GR ddPTM_HeLa_SAHA_4h_R1 2 VPPAVIIPPAAPLSGR 16 0 F5GWT4;Q9H4A3-2;Q9H4A3;Q9H4A3-5;Q9H4A3-6;Q9H4A3-7;Q9H4A3-4 F5GWT4 WNK1 Serine/threonine-protein kinase WNK1 1 0 VPPAVIIPPAAPLS(1)GR;VPPAVIIPPAAPLS(1)GR ; 142.4 0.00010709 6653700 184.074 204.01 0 207.955 297 331.48 463.39 350 0 263.13 TRUE FALSE FALSE 203.4357479 210.6200579 0 211.9802697 274.2439242 303.2360391 411.2481376 341.0475068 0 274.474822 0.741181819 0.76735657 0 0.772312259 0.999158765 1.104786359 1.498309151 1.242545689 0 1 8.100530005 -5.216358627 1.998314785 0.789891822 1.361331037 0.365740872 0.368396346 0.275700654 2.101862052 0.044336918 0.145037931 6.08E-06 5.216358627 0.571439215 VPPELLGGS(ph)PPWK ddPTM_HeLa_SAHA_4h_R1 2 VPPELLGGSPPWK 13 0 E7EVA0 E7EVA0 MAP4 Microtubule-associated protein 1 0 VPPELLGGS(1)PPWK;VPPELLGGS(1)PPWK ; 148.18 0.00019831 1307750000 2963.97 2609.1 2840.61 2549.48 2945.5 3012.4 3164.2 3485.6 2675.5 3146.5 TRUE FALSE FALSE 3275.733964 2693.636552 3227.713538 2598.828872 2719.816426 2755.726573 2808.155888 3396.443399 2656.880978 3282.161014 0.998041824 0.820689948 0.983411089 0.791804199 0.828666362 0.839607369 0.855581392 1.03481925 0.809491358 1 11.6804303 -7.279277832 23.71147154 0.999075318 0.875492666 0 0.093198371 292.9923177 389454.3381 0.011532796 0.013206528 5.26E-08 7.279277832 -0.123582652 VPS(ph)PGMEEAGCSR ddPTM_HeLa_SAHA_4h_R1 3 VPSPGMEEAGCSR 13 0 Q96RL1-2;Q96RL1;Q96RL1-3;Q96RL1-4 Q96RL1-2 UIMC1 BRCA1-A complex subunit RAP80 1 0 VPS(1)PGMEEAGCSR;VPS(0.998)PGMEEAGCS(0.002)R;VPS(1)PGMEEAGCSR ;; 143.58 0.00027035 118475000 596.52 451.24 386.29 665.8 705.97 979.51 787.21 544.79 792.23 542.137 TRUE FALSE FALSE 659.2647105 465.8604721 438.9315895 678.6875218 651.8787311 896.0502374 698.631059 530.8550606 786.7168069 565.5111792 1.165785461 0.823786495 0.776167838 1.200131044 1.152724747 1.584496064 1.235397433 0.938717182 1.391160486 1 9.143411734 -6.023687389 24.28895052 1.034436661 1.244172303 0.160402472 0.217791024 639.0273042 655255.89 0.029700022 0.049465678 9.47E-07 6.023687389 0.209735641 VPS(ph)PGPPTLTSYSVLR ddPTM_HeLa_SAHA_4h_R1 2 VPSPGPPTLTSYSVLR 16 0 F8W130;Q12815;F8W1U0 F8W130 TROAP Tastin 1 0 VPS(1)PGPPTLTSYSVLR;VPS(1)PGPPTLTSYSVLR ; 127.66 0.00029182 8428200 187.67 266.636 431.88 564.94 514.96 465.37 283.42 410.73 430.26 380.55 TRUE FALSE FALSE 207.4099917 275.2751813 490.7343573 575.8752306 475.5038761 425.7178579 251.5288357 400.2241213 427.2657856 396.9573729 0.522499406 0.693462825 1.236239432 1.4507231 1.19787138 1.072452326 0.63364193 1.008229469 1.076351807 1 8.632840282 -6.768771144 24.97585431 0.762134429 1.097825534 0.221095217 0.243986764 175.7692773 598762.3476 0.04480173 0.059546178 1.70E-07 6.768771144 0.335691105 VPS(ph)PPDEHQEAENAVSSGNR ddPTM_HeLa_SAHA_4h_R1 1 VPSPPDEHQEAENAVSSGNR 20 0 Q9BXS6-4;Q9BXS6-6;Q9BXS6-3;Q9BXS6-5;Q9BXS6-2;Q9BXS6;Q9BXS6-7 Q9BXS6-4 NUSAP1 Nucleolar and spindle-associated protein 1 1 0 VPS(1)PPDEHQEAENAVSSGNR 85.231 0.0016703 4363400 356.29 397.87 276.38 418.56 411.52 544.49 520.39 534.38 343.43 289.44 TRUE FALSE FALSE 393.7662169 410.7612491 314.0436271 426.661834 379.9894265 498.0963888 461.8343476 520.7113334 341.0400427 301.9191749 1.304210695 1.360500701 1.04015794 1.41316574 1.258579971 1.649767323 1.529662194 1.724671292 1.129573976 1 8.238018575 -1 0.148119513 0.963085489 3.619829334 0.710650319 0.125387461 27.65586645 0.265983206 0.291121929 15.80971801 0.1 1 2.656743845 VPS(ph)PYVR ddPTM_HeLa_SAHA_4h_R1 1 VPSPYVR 7 0 A0A087WVB5;Q75MD7;A0A2R8Y8C6;Q8WXX7-2;Q8WXX7;A0A2R8Y568;A0A024RDL5;A0A2R8Y522;Q8WXX7-5 A0A087WVB5 AUTS2 Autism susceptibility gene 2 protein 1 0 VPS(1)PYVR 104.2 0.011152 17885000 1941.6 1705.8 1780.3 1669.8 1980.1 1744.3 1934.3 1926.1 1915.9 1518.2 TRUE FALSE FALSE 2145.826396 1761.069039 2022.910013 1702.121394 1828.385166 1595.675827 1716.647473 1876.833151 1902.567096 1583.657032 1.354981763 1.112026786 1.27736623 1.074804304 1.154533544 1.007589266 1.083976795 1.185126017 1.201375713 1 10.62904421 -5.490923848 21.3037772 1.168019971 1.089681256 0.10484913 0.101960958 268.3701425 178914.6656 0.020084676 0.044841288 3.23E-06 5.490923848 -0.078338715 VPS(ph)S(ph)DEEVVEEPQSR ddPTM_HeLa_SAHA_4h_R1 2 VPSSDEEVVEEPQSR 15 0 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 2 0 VPS(1)S(0.987)DEEVVEEPQS(0.013)R;VPS(1)S(1)DEEVVEEPQSR ; 132.51 0.0026951 28943000 717.57 508.61 563.3 737.61 846.31 711.38 932.84 541.81 940.49 727.76 TRUE FALSE FALSE 793.0473049 525.0892977 640.0635905 751.8875082 781.4659106 650.7664219 827.8743881 527.9512847 933.9450535 759.1372952 1.04466914 0.691692137 0.843146022 0.990449966 1.029413145 0.857244699 1.090546326 0.695462189 1.230271598 1 9.56821702 VPS(ph)SDEEVVEEPQSR ddPTM_HeLa_SAHA_4h_R1 3 VPSSDEEVVEEPQSR 15 0 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 VPS(0.777)S(0.223)DEEVVEEPQSR;VPS(0.611)S(0.389)DEEVVEEPQSR;VPS(0.737)S(0.263)DEEVVEEPQSR ;; 194.67 2.29E-09 37387600 173.84 320.44 0 71.515 233.958 410.76 226.528 313.18 0 207.923 TRUE FALSE FALSE 192.1252888 330.8224662 0 72.89927624 216.0321886 375.7609371 201.0384733 305.1693091 0 216.8875781 0.885828919 1.525317721 0 0.336115498 0.99605607 1.732514792 0.926924792 1.40703913 0 1 7.760803617 -5.506604102 24.81377245 0.867734195 1.32124437 0.219959506 0.507027957 850.9504762 1297433.588 0.061431951 0.133907625 3.11E-06 5.506604102 0.453510175 VPS(ph)TPPPK ddPTM_HeLa_SAHA_4h_R1 1 VPSTPPPK 8 0 Q9H7N4 Q9H7N4 SCAF1 "Splicing factor, arginine/serine-rich 19" 1 0 VPS(0.609)T(0.391)PPPK 86.136 0.021663 89202000 4392.7 4831 3842.6 4639.3 4620.9 5169 5178.2 4425.2 4753.8 4420.5 TRUE FALSE FALSE 4854.74434 4987.52757 4366.249517 4729.10036 4266.84764 4728.57212 4595.535308 4312.009792 4720.717919 4611.089388 1.052841082 1.081637581 0.946901946 1.025592861 0.925344811 1.025478303 0.99662681 0.935139059 1.023774974 1 12.17089192 -6.747310255 24.99984199 1.02990131 0.979013376 0.389212419 0.038222756 234.5916178 415081.1661 0.00618422 0.008721265 1.79E-07 6.747310255 -0.050887934 VPS(ph)VESLFR ddPTM_HeLa_SAHA_4h_R1 2 VPSVESLFR 9 0 Q13439-3;Q13439-4;Q13439;Q13439-5;E7EVX2;Q86W71 Q13439-3 GOLGA4 Golgin subfamily A member 4 1 0 VPS(0.99)VES(0.01)LFR;VPS(0.999)VES(0.001)LFR ; 155.53 0.00018687 231762000 1228.32 1402.4 1229.32 1235.58 1431.21 1457.25 1813.89 1457.71 1185.03 1234.81 TRUE FALSE FALSE 1357.520333 1447.83868 1396.845328 1259.496438 1321.550999 1333.084102 1609.786323 1420.423889 1176.78328 1288.048702 1.053935562 1.124055851 1.084466236 0.977832931 1.026010117 1.03496405 1.249786845 1.10277188 0.913617069 1 10.33097143 -1 0.305322242 1.022168649 2.31779094 0.294540556 0.073242676 44.74440054 0.572273672 0.023904415 32.29905995 0.1 1 1.295622291 VPS(ph)WGLEDNVVCSQPAR ddPTM_HeLa_SAHA_4h_R1 3 VPSWGLEDNVVCSQPAR 17 0 H7C3L5;B8ZZD4;Q86VP1-3;Q86VP1-4;Q86VP1-2;Q86VP1 H7C3L5 TAX1BP1 Tax1-binding protein 1 1 0 VPS(1)WGLEDNVVCSQPAR;VPS(1)WGLEDNVVCSQPAR;VPS(1)WGLEDNVVCSQPAR ;; 137.91 4.82E-06 14842500 378.72 393.765 559.16 523.054 571.89 595.07 659.869 436.54 698.22 550.51 TRUE FALSE FALSE 418.5555072 406.5232444 635.3594128 533.1784665 528.0719118 544.3666882 585.6188034 425.3739389 693.3610302 574.2451802 0.728879443 0.707926263 1.10642533 0.928485749 0.919593111 0.947969103 1.019806214 0.740753172 1.2074303 1 9.165523033 -6.766350866 24.99997069 0.856090238 0.945679638 0 0.160185902 242.0712519 1232167.77 0.02221847 0.029719525 1.71E-07 6.766350866 0.089589401 VPSPLEGS(ph)EGDGDTD ddPTM_HeLa_SAHA_4h_R1 1 VPSPLEGSEGDGDTD 15 0 F5H168;F5H1S9;Q9Y606-2;Q9Y606 F5H168 PUS1 "tRNA pseudouridine synthase;tRNA pseudouridine synthase A, mitochondrial" 1 0 VPSPLEGS(0.973)EGDGDT(0.026)D 92.039 0.0072223 2362300 451.2 400.86 444.47 482.08 486.15 564.4 492.46 651.75 720.81 388.81 TRUE FALSE FALSE 498.6592862 413.848127 505.0400569 491.4113555 448.901292 516.3099448 437.0471047 635.0791787 715.7938245 405.5735019 1.229516435 1.020402282 1.245249146 1.211645616 1.10683092 1.273036681 1.07760271 1.565879368 1.764892975 1 8.663819587 -1.000000152 0.024633696 4.53E-11 2.817897156 0 0.262887521 1579.436288 3.022963407 120.20768 247.082654 0.099999965 1.000000152 2.817897156 VPSS(ph)DEEVVEEPQSR ddPTM_HeLa_SAHA_4h_R1 1 VPSSDEEVVEEPQSR 15 0 Q9C0C2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 VPS(0.212)S(0.788)DEEVVEEPQSR 149.35 6.82E-05 15333000 252.87 288.96 311.01 233.43 243.24 315.02 255.45 222.5 255.01 283.69 TRUE FALSE FALSE 279.4680268 298.3224936 353.3928231 237.9483752 224.6030037 288.1785237 226.7060937 216.8087722 253.2353646 295.9212642 0.944399949 1.00811442 1.194212332 0.804093534 0.758995824 0.973835133 0.766102748 0.732656954 0.85575251 1 8.209069559 VPTANVSVVDLT(ph)CR ddPTM_HeLa_SAHA_4h_R1 2 VPTANVSVVDLTCR 14 0 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 1 0 VPTANVSVVDLT(1)CR;VPTANVSVVDLT(1)CR ; 105.63 0.0032384 3574800 497.66 412.05 451.43 738.42 520.22 530.67 468.24 571.26 850.73 474.18 TRUE FALSE FALSE 550.0061621 425.4006904 512.9485295 752.7131869 480.360856 485.4539305 415.5524029 556.6479964 844.8097007 494.6242204 1.111967711 0.86004824 1.03704693 1.521787967 0.971163231 0.981460087 0.840137595 1.125395752 1.70798288 1 8.950189076 -5.589522147 24.99999628 1.073241782 0.969408504 0.02331905 0.264367921 115.8816357 43469.55173 0.024966985 0.049933975 2.57E-06 5.589522147 -0.103833278 VPTANVSVVDLTCR ddPTM_HeLa_SAHA_4h_R1 8 VPTANVSVVDLTCR 14 0 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ;;;;;;; ;;;;;;; 237.41 3.44E-32 210116400 1927.061 2374.254 1758.63 2540 2353.351 2417.774 2409.53 2281.27 2186.84 2122.795 FALSE FALSE TRUE 2129.758118 2451.181387 1998.286938 2589.165373 2173.037755 2211.766053 2138.403343 2222.918417 2171.621602 2214.319081 0.961811753 1.106968462 0.902438567 1.169282871 0.981357101 0.998847037 0.96571599 1.003883512 0.980717558 1 11.11264741 -1.035766089 7.303122034 0.997232709 0.694042137 0 0.073113852 0 0 0.008727011 0 0.092094546 1.035766089 -0.303190572 VPTANVSVVDLTCRLEKPAK ddPTM_HeLa_SAHA_4h_R1 1 VPTANVSVVDLTCRLEKPAK 20 2 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 72.207 0.0038591 2315500 1769 765.83 1884.9 1621.2 1646.3 1258.1 1769.5 1398.2 515.31 1227.4 FALSE FALSE TRUE 1955.071536 790.6433945 2141.764356 1652.58067 1520.16085 1150.902802 1570.391203 1362.436069 511.7239158 1280.319221 1.527018813 0.617536144 1.672836212 1.290756745 1.187329554 0.898918632 1.226562233 1.064137792 0.399684631 1 10.32228785 -5.508344239 23.04098166 1.239963709 1.073472182 0 0.384372136 580.7677049 920663.3531 0.042427316 0.091570088 3.10E-06 5.508344239 -0.166491527 VPVHDVTDASK ddPTM_HeLa_SAHA_4h_R1 2 VPVHDVTDASK 11 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ; ; 129.82 0.001486 15916700 12281.7 10508.2 9534.4 12989.8 12004.9 14033.2 12251.8 11360.9 14477.9 11466.3 FALSE FALSE TRUE 13573.54556 10848.67257 10833.69838 13241.23636 11085.08716 12837.49241 10873.19522 11070.30463 14377.14712 11960.66831 1.134848422 0.907028963 0.90577701 1.107064925 0.926794964 1.073308956 0.909079237 0.925559036 1.202035434 1 13.54601038 -7.257946134 24.98094179 1.063678421 0.968687092 0.343864308 0.085606319 329.6714814 2357555.819 0.013494726 0.016164845 5.52E-08 7.257946134 -0.094991329 VPVPGPGS(ph)GGNGPER ddPTM_HeLa_SAHA_4h_R1 2 VPVPGPGSGGNGPER 15 0 J3KPS2;A0A494C1T9;Q6ZRV2 J3KPS2 FAM83H Protein FAM83H 1 0 VPVPGPGS(1)GGNGPER;VPVPGPGS(1)GGNGPER ; 109.07 0.0022999 12061900 517.81 520.65 587.95 763.79 712 973.69 845.48 567.99 1002.07 563.55 TRUE FALSE FALSE 572.2756316 537.5194016 668.0727641 778.5742599 657.4467138 890.7261342 750.3443652 553.4616382 995.0965133 587.8473984 0.973510529 0.91438595 1.136473115 1.324449614 1.11839691 1.515233607 1.276427126 0.941505635 1.69278033 1 9.199297879 -6.559946467 4.660344507 0.982213335 1.245944552 0 0.264365759 0.132677353 6.716539951 0.021006415 0.030417874 2.75E-07 6.559946467 0.263731217 VQAGPGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 VQAGPGSPR 9 0 I3L4F6;I3L0U5;Q6PK04 I3L4F6 CCDC137 Coiled-coil domain-containing protein 137 1 0 VQAGPGS(1)PR;VQAGPGS(1)PR;VQAGPGS(1)PR ;; 123.62 0.0030689 176427000 9544.9 10226.9 7473 8827.7 11024.6 10527.7 12304.4 10567.5 9959.4 11477.2 TRUE FALSE FALSE 10548.87638 10558.25827 8491.381522 8998.572899 10179.89753 9630.680733 10919.87653 10297.19865 9890.091725 11972.03826 0.881126183 0.881909834 0.709267824 0.751632488 0.850306131 0.804431169 0.912115071 0.860104055 0.826099241 1 13.54738117 -8.222411383 0.753623312 0.986627898 0.821916017 0.042264105 0.076135464 0.332792508 0.408989754 0.024503898 0.014880226 5.99E-09 8.222411383 -0.164711881 VQAQGPGLK ddPTM_HeLa_SAHA_4h_R1 1 VQAQGPGLK 9 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 119.41 0.022455 4818800 1618.6 1619.4 1453.6 1544 1417.3 1580.6 1485.2 1521.8 1606.8 1345.1 FALSE FALSE TRUE 1788.851774 1671.869623 1651.689038 1573.886353 1308.70678 1445.923988 1318.081387 1482.87456 1595.618148 1403.093844 1.274933806 1.191559374 1.177176456 1.121725649 0.93272933 1.030525502 0.939410712 1.05686057 1.137214132 1 10.45439579 -5.850306968 6.447779786 1.142122485 0.989612647 0.534891927 0.073247422 0.200895434 12.0139011 0.016143817 0.029536913 1.41E-06 5.850306968 -0.152509839 VQAYEEPS(ph)VASSPNGKESDLR ddPTM_HeLa_SAHA_4h_R1 1 VQAYEEPSVASSPNGKESDLR 21 1 Q99575 Q99575 POP1 Ribonucleases P/MRP protein subunit POP1 1 0 VQAYEEPS(0.848)VAS(0.063)S(0.063)PNGKES(0.026)DLR 65.951 0.0038393 30931000 2227.9 1118.7 1859.2 1528.2 1399.4 1368.8 1778.9 2100.7 774.08 1591.6 TRUE FALSE FALSE 2462.240744 1154.946614 2112.562094 1557.780521 1292.178274 1252.170539 1578.73349 2046.967136 768.6931143 1660.221665 1.483079516 0.695658079 1.272457852 0.938296707 0.778316716 0.754218889 0.950917292 1.232948093 0.463006314 1 10.69716016 -7.260716034 24.99999858 1.228120879 0.944717249 0 0.319221434 73.88564352 2553616.76 0.041389027 0.049112569 5.49E-08 7.260716034 -0.28340363 VQAYEEPSVAS(ph)SPNGK ddPTM_HeLa_SAHA_4h_R1 4 VQAYEEPSVASSPNGK 16 0 Q99575 Q99575 POP1 Ribonucleases P/MRP protein subunit POP1 1 0 VQAYEEPSVAS(0.5)S(0.5)PNGK;VQAYEEPSVAS(0.5)S(0.5)PNGK;VQAYEEPSVAS(0.961)S(0.039)PNGK;VQAYEEPS(0.001)VAS(0.76)S(0.24)PNGK ;;; 292.2 3.56E-86 378926000 21322.9 20771.6 15847.4 22236.8 22403.9 23304.6 23476.6 21520.5 23497.7 20076.4 TRUE FALSE FALSE 23565.74045 21444.61347 18007.00114 22667.22542 20687.31802 21318.91697 20834.95118 20970.03677 23334.17759 20941.99186 1.125286487 1.024000659 0.859851406 1.082381541 0.987839083 1.017998532 0.994888706 1.001339171 1.114229141 1 14.35411105 -7.001851659 24.99989055 1.05997783 0.991660642 0.283231427 0.061009921 91.61032523 1236890.905 0.010705046 0.01394472 9.96E-08 7.001851659 -0.068317188 VQAYEEPSVAS(ph)SPNGKESDLR ddPTM_HeLa_SAHA_4h_R1 1 VQAYEEPSVASSPNGKESDLR 21 1 Q99575 Q99575 POP1 Ribonucleases P/MRP protein subunit POP1 1 0 VQAYEEPS(0.011)VAS(0.532)S(0.456)PNGKES(0.001)DLR 90.468 0.00027497 30627000 3838.9 2120.5 3274.5 3142.8 2984.2 2454.5 3589.4 3720.1 1425.5 2938.3 TRUE FALSE FALSE 4242.693116 2189.205591 3720.731807 3203.633439 2755.551241 2245.362791 3185.511265 3624.945229 1415.579829 3064.984493 1.384246193 0.714263187 1.213948004 1.045236427 0.899042474 0.732585368 1.039323779 1.182696107 0.461855462 1 11.58166406 -7.272030184 24.97671264 1.181449582 0.977362382 0 0.288741745 911.4787152 2149572.158 0.035060485 0.040315004 5.35E-08 7.272030184 -0.2040872 VQDLSAGGQGSLTDS(ph)GPERRPEGPGAQAPSSPR ddPTM_HeLa_SAHA_4h_R1 2 VQDLSAGGQGSLTDSGPERRPEGPGAQAPSSPR 33 2 P40222 P40222 TXLNA Alpha-taxilin 1 0 VQDLSAGGQGS(0.004)LT(0.093)DS(0.901)GPERRPEGPGAQAPS(0.001)SPR;VQDLS(0.002)AGGQGS(0.038)LT(0.104)DS(0.852)GPERRPEGPGAQAPS(0.003)S(0.001)PR ; 83.747 1.48E-07 81412000 889.06 485.45 810.75 554.2 680.07 578.71 687.22 868.55 373 651.4 TRUE FALSE FALSE 982.57541 501.1788985 921.2347878 564.9273424 627.9631835 529.4006523 609.8921969 846.3337486 370.4042626 679.4850419 1.446058926 0.73758636 1.355783764 0.831405119 0.92417514 0.779120392 0.897580019 1.245551699 0.545124969 1 9.408297982 -6.488402979 1.418497882 1.192434004 0.931007917 0 0.303750128 0.529559484 2.12300759 0.042292738 0.071248429 3.25E-07 6.488402979 -0.261426087 VQDTS(ph)NTGLGEDIIHQLSK ddPTM_HeLa_SAHA_4h_R1 2 VQDTSNTGLGEDIIHQLSK 19 0 Q8IWA0 Q8IWA0 WDR75 WD repeat-containing protein 75 1 0 VQDT(0.203)S(0.685)NT(0.112)GLGEDIIHQLSK;VQDT(0.019)S(0.97)NT(0.011)GLGEDIIHQLSK ; 186.4 8.12E-14 94722000 9798.5 11632.2 8653.2 10689.9 13951.9 13114.5 12190.3 12388.2 11166.3 11839.6 TRUE FALSE FALSE 10829.15119 12009.09091 9832.413032 10896.81847 12882.90844 11997.07082 10818.61536 12071.32778 11088.59281 12350.0631 0.876849867 0.972391057 0.796142737 0.882328972 1.043145151 0.971417775 0.875996768 0.977430454 0.897857179 1 13.59223079 -3.869576683 18.2742282 0.934297044 11.40743175 0.032054882 0.069862829 929.6950603 129903.0073 0.010152353 1131.873954 0.000135028 3.869576683 10.47313471 VQEHEDS(ph)GDS(ph)EVENEAK ddPTM_HeLa_SAHA_4h_R1 1 VQEHEDSGDSEVENEAK 17 0 Q9Y5J1 Q9Y5J1 UTP18 U3 small nucleolar RNA-associated protein 18 homolog 2 0 VQEHEDS(1)GDS(1)EVENEAK 147.06 0.0011019 41399000 1140.7 1337.5 1054.8 1267.8 1382.2 1593.4 1547 1428.3 1486.7 1237.1 TRUE FALSE FALSE 1260.68406 1380.835878 1198.542651 1292.340102 1276.296135 1457.633356 1372.927489 1391.766154 1476.353934 1290.437435 0.976943186 1.070052557 0.928787881 1.001474436 0.989041467 1.129565306 1.063924101 1.078522768 1.144072462 1 10.33364448 -5.276709209 24.49585127 0.99141079 1.08799606 0.173668807 0.060165543 274.9022477 440997.9137 0.004753819 0.010670126 5.29E-06 5.276709209 0.09658527 VQEHEDS(ph)GDSEVENEAK ddPTM_HeLa_SAHA_4h_R1 2 VQEHEDSGDSEVENEAK 17 0 Q9Y5J1 Q9Y5J1 UTP18 U3 small nucleolar RNA-associated protein 18 homolog 1 0 VQEHEDS(0.961)GDS(0.039)EVENEAK;VQEHEDS(0.998)GDS(0.002)EVENEAK ; 157.62 6.81E-06 30523200 4287.3 3950.16 3280.02 4244.27 4349.04 5125.94 5838.3 4854.36 5932.64 4829 TRUE FALSE FALSE 4738.257885 4078.147776 3727.004044 4326.423983 4015.817495 4689.181074 5181.359118 4730.1925 5891.354275 5037.201823 0.940652777 0.809605793 0.739895715 0.85889431 0.797231804 0.930909906 1.028618527 0.939051614 1.169568837 1 12.29840682 -7.562717915 3.029680227 0.976863388 0.871963207 0.322508071 0.099046091 0.266893846 5.118863255 0.016152911 0.017250255 2.74E-08 7.562717915 -0.104900181 VQEKPDSPGGS(ph)TQIQR ddPTM_HeLa_SAHA_4h_R1 3 VQEKPDSPGGSTQIQR 16 1 M0R300;M0R0P8;Q13459-2;Q13459 M0R300 MYO9B Unconventional myosin-IXb 1 0 VQEKPDS(0.053)PGGS(0.704)T(0.243)QIQR;VQEKPDS(0.313)PGGS(0.505)T(0.183)QIQR;VQEKPDS(0.086)PGGS(0.457)T(0.457)QIQR ;; 91.355 0.0037503 71314000 8642.9 9067.6 7788.6 8841.9 9901.4 10080.6 10311.3 10022.7 8192 9945.1 TRUE FALSE FALSE 9551.999877 9361.396189 8849.989847 9013.04776 9142.756871 9221.676168 9151.045386 9766.333847 8134.991205 10373.88193 0.920773915 0.902400495 0.853103005 0.868821124 0.881324554 0.888932054 0.882123534 0.941434837 0.784180046 1 13.34066823 -8.356494599 0.660020858 0.995906461 0.885094967 0 0.069593556 0.234730336 0.218954772 0.012026416 0.006035354 4.40E-09 8.356494599 -0.110811494 VQESTKGPDEAK(ac)IK ddPTM_HeLa_SAHA_4h_R1 2 VQESTKGPDEAKIK 14 2 O43390;B4DT28;O43390-4;O43390-3;O43390-2 O43390 HNRNPR Heterogeneous nuclear ribonucleoprotein R 0 1 ; VQESTKGPDEAK(1)IK;VQESTKGPDEAK(1)IK 97.273 0.0073925 34226000 3596.2 2953.33 2861.31 4064.82 4734.2 5742.4 6329.2 6720 2593.09 3364.17 FALSE TRUE FALSE 3974.464816 3049.01983 3251.234426 4143.500469 4371.466619 5253.115214 5617.021758 6548.11213 2575.044476 3509.215833 1.132579187 0.86886073 0.9264846 1.180748254 1.245710389 1.496948454 1.600648699 1.865975888 0.733794841 1 11.77693297 -4.998406274 0.969108657 1.038098941 1.889805432 0.85361517 0.129225195 0.188457241 0.254292066 0.015743184 0.127800009 1.00E-05 4.998406274 0.85170649 VQEY(ph)LEVR ddPTM_HeLa_SAHA_4h_R1 1 VQEYLEVR 8 0 Q5VYV7 Q5VYV7 SLX4IP Protein SLX4IP 1 0 VQEY(1)LEVR 84.568 0.0086524 0 273.03 240.5 306.47 270.86 366.43 159.77 347.08 286.9 281.14 171.77 TRUE FALSE FALSE 301.7485481 248.2923578 348.2341356 276.102887 338.3542126 146.1566972 308.0256449 279.5615134 279.1835238 179.1758453 1.684091667 1.38574682 1.943532818 1.540960426 1.888391887 0.815716521 1.719124832 1.560263399 1.558153798 1 7.485232351 -9.319640053 0.931294648 0.98325396 1.571142431 0.000641355 0.34172991 0.537690238 0.797012554 0.22176008 0.05253631 4.79E-10 9.319640053 0.587888472 VQFDGTNS(ph)AFK ddPTM_HeLa_SAHA_4h_R1 1 VQFDGTNSAFK 11 0 Q8WWK9-6;Q8WWK9-5;Q8WWK9 Q8WWK9-6 CKAP2 Cytoskeleton-associated protein 2 1 0 VQFDGT(0.22)NS(0.78)AFK 85.672 0.0087582 0 775.71 811.1 852.96 1219.6 1116.7 1254.3 927.05 909.48 1094 870.98 TRUE FALSE FALSE 857.3027369 837.3801722 969.1969468 1243.207122 1031.138687 1147.426584 822.7358941 886.2168185 1086.386765 908.5322103 0.943612926 0.921684628 1.066772246 1.36836879 1.134950061 1.262945409 0.905566016 0.975437974 1.195760318 1 9.827393853 -6.53705217 11.53511391 0.969936006 1.134004494 0.092533151 0.142759466 0.477007603 382.1988992 0.019978525 0.028414676 2.90E-07 6.53705217 0.164068488 VQFQGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 VQFQGKK 7 1 P05455 P05455 SSB Lupus La protein 0 1 ; VQFQGK(1)K;VQFQGK(1)K 117.93 0.0015634 57771000 10615.1 12237.8 18362.4 18975.4 18672.6 11767.4 21350.9 9958.6 2447.48 5509 FALSE TRUE FALSE 11731.64492 12634.31275 20864.73224 19342.69631 17241.90942 10764.75132 18948.44054 9703.873432 2430.447787 5746.51995 2.041521655 2.198602434 3.630846569 3.365984365 3.000408868 1.873264412 3.297376622 1.688652178 0.422942548 1 12.48847282 -7.945026094 0.817950468 1.178887267 2.789916647 0.565389306 0.66633249 0.300424399 0.43656902 0.195915574 0.151172499 1.13E-08 7.945026094 1.61102938 VQGEAVSNIQENTQT(ph)PTVQEESEEEEVDETGVEVK ddPTM_HeLa_SAHA_4h_R1 1 VQGEAVSNIQENTQTPTVQEESEEEEVDETGVEVK 35 0 F8VZJ2;F8W0W4;H0YHX9;Q13765;E9PAV3-2;E9PAV3 F8VZJ2 NACA "Nascent polypeptide-associated complex subunit alpha;Nascent polypeptide-associated complex subunit alpha, muscle-specific form" 1 0 VQGEAVSNIQENT(0.111)QT(0.633)PT(0.111)VQEES(0.143)EEEEVDET(0.002)GVEVK 103.15 1.16E-12 4601100 928.58 1346 1321.4 1119.9 1177.8 1405.3 1606.2 1254 1688.8 1426.4 TRUE FALSE FALSE 1026.252305 1389.611283 1501.47351 1141.577284 1087.557218 1285.560534 1425.466149 1221.924496 1677.047503 1487.899085 0.689732466 0.93394189 1.009123217 0.767241069 0.730934799 0.864010569 0.958039536 0.821241513 1.127124494 1 10.53906096 VQGEAVSNIQENTQTPTVQEES(ph)EEEEVDETGVEVK ddPTM_HeLa_SAHA_4h_R1 2 VQGEAVSNIQENTQTPTVQEESEEEEVDETGVEVK 35 0 F8VZJ2;F8W0W4;H0YHX9;Q13765;E9PAV3-2;E9PAV3 F8VZJ2 NACA "Nascent polypeptide-associated complex subunit alpha;Nascent polypeptide-associated complex subunit alpha, muscle-specific form" 1 0 VQGEAVSNIQENTQT(0.001)PT(0.124)VQEES(0.875)EEEEVDETGVEVK;VQGEAVSNIQENTQT(0.014)PT(0.173)VQEES(0.814)EEEEVDETGVEVK ; 153.11 2.25E-21 23901000 3265.1 4758.6 3270.7 3914.7 3995 5344 4627.7 4081.4 5465.6 3970.7 TRUE FALSE FALSE 3608.538199 4912.781762 3716.413963 3990.474679 3688.903963 4888.661135 4106.979017 3977.003698 5427.564445 4141.896309 0.871228522 1.186118965 0.89727354 0.963441473 0.890631655 1.180295394 0.991569733 0.960189102 1.310405679 1 12.01607572 -5.317280012 24.99999174 0.95271817 1.038775474 0 0.150588318 436.295972 195330.1264 0.014373291 0.032139665 4.82E-06 5.317280012 0.086057304 VQGGVPAGS(ph)DEYEDECPHLIALSSLNR ddPTM_HeLa_SAHA_4h_R1 4 VQGGVPAGSDEYEDECPHLIALSSLNR 27 0 Q9BVS4-2;Q9BVS4;H0Y919;H0Y8R4 Q9BVS4-2 RIOK2 Serine/threonine-protein kinase RIO2 1 0 VQGGVPAGS(0.948)DEY(0.052)EDECPHLIALSSLNR;VQGGVPAGS(0.984)DEY(0.016)EDECPHLIALSSLNR;VQGGVPAGS(0.994)DEY(0.006)EDECPHLIALSSLNR;VQGGVPAGS(0.993)DEY(0.007)EDECPHLIALSSLNR ;;; 116.96 6.09E-08 34149000 5255.58 5489.75 4294.09 6121.08 6782.9 8017.46 6893.55 6614.7 6177.07 6600.01 TRUE FALSE FALSE 5808.386018 5667.621502 4879.266223 6239.562355 6263.195667 7334.327303 6117.869611 6445.505552 6134.083267 6884.568731 0.843681899 0.823235518 0.708725036 0.906311288 0.909744083 1.065328503 0.888635127 0.936225028 0.8909902 1 12.74915057 -4.222422249 19.79033355 0.908425964 0.936225882 0 0.092214842 8379.058262 4248731.085 0.014452015 2.819686436 5.99E-05 4.222422249 0.027799918 VQGLLENGDSVT(ph)SPEK ddPTM_HeLa_SAHA_4h_R1 1 VQGLLENGDSVTSPEK 16 0 P41229-4;P41229-3;P41229-2;P41229-5;P41229 P41229-4 KDM5C Lysine-specific demethylase 5C 1 0 VQGLLENGDSVT(0.5)S(0.5)PEK 140.77 0.0001935 4093800 1151.9 1346.1 801.79 1231.9 1369 1809 1132.7 1083.8 1668.5 1407.1 TRUE FALSE FALSE 1273.062127 1389.714523 911.0537657 1255.745206 1264.107516 1654.863023 1005.245615 1056.077965 1656.888773 1467.766967 0.867346217 0.946822319 0.620707364 0.855548077 0.861245378 1.127469864 0.684880936 0.719513376 1.128850022 1 10.51940722 -8.794757272 0.486572884 1.01909433 0.828061679 0.276718153 0.140824272 1.715425647 0.715549044 0.152332034 0.040765384 1.60E-09 8.794757272 -0.191032651 VQGVDPGCMS(ph)PDVK ddPTM_HeLa_SAHA_4h_R1 1 VQGVDPGCMSPDVK 14 0 E9PC47;P53667-4;P53667-2;P53667;P53667-3 E9PC47 LIMK1 LIM domain kinase 1 1 0 VQGVDPGCMS(1)PDVK 82.942 0.014707 3323700 1205.3 1316.5 1318.9 1426.7 1612.9 1502.9 1330.3 1267.6 1193.4 1295.7 TRUE FALSE FALSE 1332.078984 1359.155464 1498.632823 1454.315842 1489.31995 1374.844465 1180.611143 1235.176627 1185.095032 1351.563968 0.98558338 1.005616823 1.108813833 1.076024425 1.101923391 1.017224858 0.87351481 0.913886917 0.876832366 1 10.40041408 -4.767159966 24.98237221 1.01717303 0.89370085 0.388016577 0.064016384 83.48195538 364581.8201 0.007728352 0.024145274 1.71E-05 4.767159966 -0.123472181 VQIAVANAQELLQR ddPTM_HeLa_SAHA_4h_R1 1 VQIAVANAQELLQR 14 0 Q9Y5L4 Q9Y5L4 TIMM13 Mitochondrial import inner membrane translocase subunit Tim13 0 0 160.52 1.34E-06 491110 0 184.97 106.89 99.388 159.94 148.65 207.79 166.05 245.72 134.07 FALSE FALSE TRUE 0 190.9631494 121.4564125 101.3117985 147.6854318 135.9841837 184.4089223 161.8026814 244.0100145 139.8504138 0 1.365481475 0.868473744 0.724429737 1.056024274 0.972354532 1.318615493 1.156969629 1.744792939 1 7.127740713 -7.246285138 24.8089382 0.527777758 1.05103631 0 0.480685176 732.4315182 1199061.077 0.067584662 0.082601109 5.67E-08 7.246285138 0.523258552 VQIPVSRPDPEPVSDNEEDS(ph)YDEEIHDPR ddPTM_HeLa_SAHA_4h_R1 2 VQIPVSRPDPEPVSDNEEDSYDEEIHDPR 29 1 G3V1L9;Q07157;A0A087X0K9;G5E9E7;Q07157-2;H0YKB1 G3V1L9 TJP1 Tight junction protein ZO-1 1 0 VQIPVSRPDPEPVS(0.028)DNEEDS(0.523)Y(0.448)DEEIHDPR;VQIPVSRPDPEPVS(0.083)DNEEDS(0.698)Y(0.219)DEEIHDPR ; 83.733 1.72E-06 30373000 1918.83 1849.49 1781.68 2039.08 2116 2370.99 2266 2042 2471.4 1915.74 TRUE FALSE FALSE 2120.661343 1909.414689 2024.478072 2078.549342 1953.872537 2168.968313 2011.023716 1989.768597 2454.201326 1998.336927 1.061213109 0.95550188 1.01308145 1.040139585 0.977749303 1.085386695 1.006348674 0.99571227 1.228121891 1 10.96458413 VQIS(ph)PDSGGLPER ddPTM_HeLa_SAHA_4h_R1 2 VQISPDSGGLPER 13 0 A0A087WTP3;Q92945;M0QXW7;M0QYH3 A0A087WTP3 KHSRP Far upstream element-binding protein 2 1 0 VQIS(0.765)PDS(0.235)GGLPER;VQIS(0.753)PDS(0.247)GGLPER ; 139 0.00042799 58526000 4434.8 4754.6 5117.3 4394.3 5598.7 5924.3 5479.5 5241.7 5106.6 4768.4 TRUE FALSE FALSE 4901.272612 4908.65216 5814.658994 4479.358031 5169.728816 5419.516311 4862.932239 5107.624904 5071.062755 4973.98906 0.985380658 0.986864285 1.169013225 0.90055647 1.039352671 1.089571418 0.977672484 1.026866936 1.019516266 1 12.28018762 VQISSQNPPPS(ph)PMPGR ddPTM_HeLa_SAHA_4h_R1 2 VQISSQNPPPSPMPGR 16 0 Q9C0D5;Q9C0D5-2 Q9C0D5 TANC1 Protein TANC1 1 0 VQISS(0.001)QNPPPS(0.999)PMPGR;VQISS(0.001)QNPPPS(0.999)PMPGR ; 103.5 0.0028849 9387000 1211 1585.46 1458.12 1045.39 1326.99 1490.6 1406.37 1480.8 1500.32 1341.47 TRUE FALSE FALSE 1338.378536 1636.829944 1656.825 1065.625035 1225.316313 1363.592494 1248.121546 1442.92328 1489.879151 1399.307337 0.956457885 1.169742987 1.18403224 0.761537517 0.875659178 0.97447677 0.891956694 1.031169667 1.064726177 1 10.45049715 -6.251922923 24.99719596 1.010166152 0.908138466 0.322764987 0.101982826 934.8873936 2455699.116 0.016202493 0.026640031 5.60E-07 6.251922923 -0.102027686 VQMTS(ph)PSSTGSPMFK ddPTM_HeLa_SAHA_4h_R1 1 VQMTSPSSTGSPMFK 15 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 VQMT(0.171)S(0.595)PS(0.17)S(0.049)T(0.014)GSPMFK 108.06 0.0024673 7670600 1168.3 1244.7 1012.1 830.99 1305.8 1509.6 1317.2 971.4 1189.7 1005.2 TRUE FALSE FALSE 1291.187154 1285.029097 1150.023717 847.0750131 1205.749886 1380.973587 1168.985189 946.5529946 1181.420781 1048.539091 1.231415371 1.225542383 1.096786688 0.80786212 1.149933175 1.3170454 1.114870393 0.902735055 1.126730315 1 10.03416493 -6.521343187 24.99223649 1.122962686 1.068191818 0.066167272 0.142602501 228.6084123 3720762.248 0.025444788 0.036303136 3.01E-07 6.521343187 -0.054770869 VQMTSPS(ph)STGSPMFK ddPTM_HeLa_SAHA_4h_R1 1 VQMTSPSSTGSPMFK 15 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 VQMT(0.142)S(0.142)PS(0.536)S(0.142)T(0.038)GSPMFK 164.66 4.54E-06 5112400 2876.4 2606.9 2341.3 2564.5 3316.8 3714.5 3350.5 2860 2642.2 2637.9 TRUE FALSE FALSE 3178.952949 2691.36527 2660.360171 2614.139606 3062.667501 3398.003703 2973.492922 2786.845341 2623.812715 2751.632779 1.155296947 0.978097547 0.966829655 0.95003215 1.113036421 1.234904501 1.080628544 1.01279697 0.953547557 1 11.42607223 -5.567804389 24.99994536 1.04976436 1.117797206 0.166792247 0.084233473 229.1188837 127497.9351 0.01374485 0.027489714 2.71E-06 5.567804389 0.068032846 VQMTSPSSTGS(ph)PMFK ddPTM_HeLa_SAHA_4h_R1 2 VQMTSPSSTGSPMFK 15 0 P49790-2;P49790;P49790-3 P49790-2 NUP153 Nuclear pore complex protein Nup153 1 0 VQMT(0.007)S(0.003)PS(0.117)S(0.075)T(0.049)GS(0.749)PMFK;VQMTSPSS(0.003)T(0.002)GS(0.995)PMFK ; 165.58 3.97E-06 10710300 2606.6 2487.9 2221.8 1813.41 2196 2418.42 1906.39 1879.73 2987.5 2745.1 TRUE FALSE FALSE 2880.774148 2568.509592 2524.575333 1848.511173 2027.742954 2212.35701 1691.87798 1831.649228 2966.709744 2863.454695 1.006048446 0.896996763 0.881653667 0.645552792 0.708145639 0.772618129 0.590852016 0.63966412 1.036059606 1 11.48354106 -6.553182278 1.321349092 1.003455286 0.66610402 0.884800122 0.054049904 0.089669319 0.313604532 0.009044195 0.014964946 2.80E-07 6.553182278 -0.337351267 VQNHLPASGPTQPPVVSSTNEGS(ph)PSPPEPTGK ddPTM_HeLa_SAHA_4h_R1 2 VQNHLPASGPTQPPVVSSTNEGSPSPPEPTGK 32 0 O43294;O43294-2;H3BQC4 O43294 TGFB1I1 Transforming growth factor beta-1-induced transcript 1 protein 1 0 VQNHLPASGPTQPPVVS(0.117)S(0.117)T(0.117)NEGS(0.584)PS(0.064)PPEPTGK;VQNHLPASGPTQPPVVS(0.017)S(0.017)T(0.017)NEGS(0.899)PS(0.05)PPEPTGK ; 120.3 5.79E-12 24408000 3859.6 4547.7 3288.5 3791.4 5279.6 4703.3 3653.1 3565.7 4279.1 4184.8 TRUE FALSE FALSE 4265.570436 4695.048464 3736.639654 3864.788029 4875.078189 4302.55238 3242.043574 3474.494557 4249.321395 4365.227208 0.977170313 1.075556492 0.856001183 0.885357817 1.116798269 0.985642253 0.742697555 0.795948158 0.973447931 1 12.09184103 -4.765953828 24.99522498 0.987158002 0.769322821 0.576107718 0.073524851 50.25140564 278235.4919 0.00989181 0.03120853 1.71E-05 4.765953828 -0.21783518 VQNLLGHYLIHGFR ddPTM_HeLa_SAHA_4h_R1 1 VQNLLGHYLIHGFR 14 0 V9GZ65;C9JFP6;V9GYU1;C9K020;E9PDU5;A0A087X295;Q9NNW5 V9GZ65 WDR6 WD repeat-containing protein 6 0 0 129.74 0.00014837 1574400 932.73 934.92 1221.3 990.87 928.59 394.72 1319 471.41 773.6 1080.4 FALSE FALSE TRUE 1030.838821 965.2120214 1387.732404 1010.049722 857.4416348 361.0876354 1170.582649 459.3520148 768.2164546 1126.981331 0.914690237 0.856457862 1.231371244 0.896243526 0.76083038 0.320402499 1.038688589 0.407595052 0.681658545 1 10.1382479 -5.68600837 3.414294158 0.9701274 0.623450067 0.312015228 0.220550155 0.172231465 4.003111698 0.026736702 0.055470224 2.06E-06 5.68600837 -0.346677332 VQNS(ph)PPVGR ddPTM_HeLa_SAHA_4h_R1 3 VQNSPPVGR 9 0 D6RAA5;Q4VXL8;E7EMZ9;E9PBC6;O95359-6;O95359-1;O95359-5;O95359-3;O95359;E9PGB3;H0Y8P9;H0YA73 D6RAA5 TACC2 Transforming acidic coiled-coil-containing protein 2 1 0 VQNS(1)PPVGR;VQNS(1)PPVGR;VQNS(1)PPVGR ;; 100.82 0.010157 30290700 7865.9 7528 6192.8 7258.7 6976 7922.8 7850.5 7780.8 8870 6642.7 TRUE FALSE FALSE 8693.271452 7771.912139 7036.722533 7399.202635 6441.500387 7247.732868 6967.141079 7581.778402 8808.272948 6929.099306 1.254603386 1.121633822 1.015532066 1.067844796 0.92963026 1.045984846 1.005490147 1.09419393 1.271200276 1 12.75845212 -6.765358202 23.1363803 1.12369408 1.023862634 0.349929669 0.08417648 51.04833682 301387.4461 0.016250283 0.021827578 1.72E-07 6.765358202 -0.099831447 VQPNEAVYTK ddPTM_HeLa_SAHA_4h_R1 2 VQPNEAVYTK 10 0 P11413-3;P11413;P11413-2 P11413-3 G6PD Glucose-6-phosphate 1-dehydrogenase 0 0 ; ; 166.97 0.00080884 33417000 7164.8 6946.4 5984 6617.1 5850.8 7583.4 6852.6 7064.7 6693.2 6212.5 FALSE FALSE TRUE 7918.426537 7171.467918 6799.468357 6745.183539 5402.512968 6937.251657 6081.527413 6883.995204 6646.621476 6480.351278 1.221913164 1.106648021 1.049243793 1.040866961 0.833675944 1.070505496 0.938456443 1.062287353 1.02565759 1 12.6618563 -6.342444927 2.311476845 1.106921989 0.979425863 0.2268351 0.085013506 0.327770105 3.423481345 0.016032917 0.026554918 4.55E-07 6.342444927 -0.127496126 VQPQWS(ph)PPAGTQPCR ddPTM_HeLa_SAHA_4h_R1 2 VQPQWSPPAGTQPCR 15 0 B4DKY1;P49589-2;P49589;P49589-3;C9JLN0;E9PRS8;E9PLP0 B4DKY1 CARS "Cysteine--tRNA ligase, cytoplasmic" 1 0 VQPQWS(0.998)PPAGT(0.002)QPCR;VQPQWS(1)PPAGTQPCR ; 143.93 0.00010806 9844100 1205.74 900.65 1105.33 1011.34 1274.51 1510.68 1256.36 1121.85 1266.07 1073.14 TRUE FALSE FALSE 1332.565265 929.8316509 1255.958616 1030.915948 1176.857319 1381.961565 1114.991066 1093.154701 1257.259316 1119.408317 1.1904193 0.830645651 1.121984353 0.920947193 1.051320864 1.234546451 0.996053941 0.976546882 1.123146305 1 10.12852066 VQPYLDDFQK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 VQPYLDDFQKK 11 1 F8W696;P02647 F8W696 APOA1 Apolipoprotein A-I;Proapolipoprotein A-I;Truncated apolipoprotein A-I 0 1 ; VQPYLDDFQK(1)K;VQPYLDDFQK(1)K 114.4 0.0025127 20043800 2948.3 1746.76 3971.7 5553 2900.1 3389.8 2592.7 2011.66 2483.6 2541.8 FALSE TRUE FALSE 3258.415721 1803.35617 4512.942592 5660.486345 2677.894965 3100.96997 2300.962572 1960.20465 2466.316425 2651.389437 1.228946482 0.680155146 1.702104764 2.134913214 1.009996844 1.169564126 0.867832745 0.739312235 0.930197726 1 11.37253287 -4.674362774 2.423677034 1.19459244 0.741867515 0.15783062 0.393734439 0.503245704 5.50124633 0.057436546 0.328828053 2.12E-05 4.674362774 -0.452724925 VQQLVPK ddPTM_HeLa_SAHA_4h_R1 1 VQQLVPK 7 0 O43707;O43707-2;F5GXS2;O43707-3;H7C144 O43707 ACTN4 Alpha-actinin-4 0 0 114.02 0.0075517 1365300 2442.4 2412.5 2172.9 2203.9 2591.2 2522.6 2600.3 2250.4 2003.4 2458.3 FALSE FALSE TRUE 2699.302838 2490.666583 2469.011496 2246.559671 2392.662816 2307.660288 2307.7074 2192.838027 1989.458176 2564.289344 1.052651428 0.971289215 0.962844346 0.876094454 0.93307053 0.899921958 0.899940331 0.855144538 0.775832174 1 11.32434334 -6.661043268 1.675075914 1.024279013 0.895170674 0 0.082592343 0.108981605 0.621333216 0.004883322 0.007414484 2.18E-07 6.661043268 -0.129108339 VQRPHS(ph)SPPR ddPTM_HeLa_SAHA_4h_R1 2 VQRPHSSPPR 10 1 R4GNF5;E9PP52;E9PMB0;E9PJ55;Q9NUJ3 R4GNF5 TCP11L1 T-complex protein 11-like protein 1 1 0 VQRPHS(0.5)S(0.5)PPR;VQRPHS(0.794)S(0.206)PPR ; 77.674 0.016859 41401800 1303.209 1097.4 1303.79 1419.34 1822.88 1725.82 1706.34 1363.28 1592.5 1402.4 TRUE FALSE FALSE 1440.286502 1132.95648 1481.463711 1446.813378 1683.211328 1578.770427 1514.338132 1328.409272 1581.417663 1462.864327 0.984566016 0.774478165 1.01271436 0.989027725 1.150627093 1.079232296 1.035186999 0.908087816 1.081041921 1 10.51458026 -5.974672803 24.98977542 0.97521707 1.04834231 0.121296826 0.092121335 353.5295824 348817.7546 0.012844305 0.023281735 1.06E-06 5.974672803 0.07312524 VQS(ph)PEPPAPER ddPTM_HeLa_SAHA_4h_R1 2 VQSPEPPAPER 11 0 A0A0G2JMS7;A0A0G2JNZ2;A0A669KB89;Q14160-2;Q14160;A0A0G2JPP5;Q14160-3;H0YCG0 A0A0G2JMS7 SCRIB Protein scribble homolog 1 0 VQS(1)PEPPAPER;VQS(1)PEPPAPER ; 113.07 0.0034136 17801700 1915.88 2506.8 1859.79 1701.88 2109.41 2295.1 2055.29 1595.8 2076 1832.34 TRUE FALSE FALSE 2117.401049 2588.021965 2113.232496 1734.822348 1947.787462 2099.544568 1824.02336 1554.981747 2061.552947 1911.341145 1.107809066 1.354034559 1.105628109 0.90764663 1.019068452 1.098466683 0.95431596 0.813555315 1.078589739 1 10.90036958 -6.274357267 24.44776401 1.083490588 0.969500567 0.324055688 0.113461377 816.7577638 1545753.168 0.019463806 0.029851842 5.32E-07 6.274357267 -0.113990021 VQS(ph)SPNLLAAGR ddPTM_HeLa_SAHA_4h_R1 3 VQSSPNLLAAGR 12 0 O94875-11;O94875-9;O94875-12;C9J4Z9;C9IZT7;C9JWC3;C9JN77;C9JI79;C9J372;C9JZ60;C9JDX2;C9JBB0;C9JEA9;C9JG84;C9J9D3 O94875-11 SORBS2 Sorbin and SH3 domain-containing protein 2 1 0 VQS(0.958)S(0.042)PNLLAAGR;VQS(0.5)S(0.5)PNLLAAGR;VQS(0.883)S(0.117)PNLLAAGR ;; 127.3 0.0011823 25160700 2592.97 2134.86 1864.95 3463.85 3386.43 2823.16 2991.79 3650.55 3180.58 2218.86 TRUE FALSE FALSE 2865.710482 2204.030865 2119.095674 3530.897826 3126.962465 2582.610885 2655.145915 3557.174217 3158.446085 2314.525913 1.238141455 0.952260181 0.915563598 1.525538256 1.351016399 1.115827164 1.147166208 1.536891074 1.36461902 1 11.176501 -6.267704297 24.94174317 1.087324497 1.313518171 0.309897051 0.1783302 476.5431371 1897201.631 0.026150072 0.040560043 5.40E-07 6.267704297 0.226193674 VQSLEGEKLS(ph)PKS(ph)DISPLTPR ddPTM_HeLa_SAHA_4h_R1 1 VQSLEGEKLSPKSDISPLTPR 21 2 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 VQS(0.001)LEGEKLS(0.707)PKS(0.813)DIS(0.446)PLT(0.033)PR 70.704 0.0034977 4603700 1442.5 1359.1 1310.6 1409.9 1336.8 1698.4 1202.1 1580.6 1190.6 1254 TRUE FALSE FALSE 1594.228768 1403.135732 1489.201743 1437.190653 1234.374673 1553.686765 1066.836544 1540.170541 1182.314518 1308.066077 1.218767765 1.072679551 1.138475929 1.098714108 0.943663852 1.187773915 0.815583068 1.177440932 0.903864521 1 10.35321971 -5.959655374 24.56768151 1.106112115 1.026194902 0 0.12929508 247.0681892 150449.7182 0.017393386 0.031528151 1.10E-06 5.959655374 -0.079917213 VQSWS(ph)PPVR ddPTM_HeLa_SAHA_4h_R1 1 VQSWSPPVR 9 0 Q7Z6J0;Q7Z6J0-3 Q7Z6J0 SH3RF1 E3 ubiquitin-protein ligase SH3RF1 1 0 VQSWS(1)PPVR 108.31 0.003604 0 1777.2 1700.9 1422.8 1557.3 1838.1 1702.1 1985.4 1579.4 1696.9 1767.9 TRUE FALSE FALSE 1964.13405 1756.010276 1616.691774 1587.443793 1697.265175 1557.071504 1761.997567 1539.001235 1685.091135 1844.122821 1.065077677 0.952219807 0.876672506 0.860812401 0.920364498 0.844342625 0.955466494 0.834543783 0.913762964 1 10.84871903 -7.004482552 3.592683343 1.030477354 0.884971066 0.438523469 0.051987554 0.080906153 2.252511011 0.006337703 0.008166988 9.90E-08 7.004482552 -0.145506288 VQT(ph)PEVDVK ddPTM_HeLa_SAHA_4h_R1 4 VQTPEVDVK 9 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VQT(1)PEVDVK;VQT(1)PEVDVK;VQT(1)PEVDVK;VQT(1)PEVDVK ;;; 149.41 0.00080476 130823000 14369.7 16670.4 16117.6 10709 16532.4 16578.5 15394.9 10981.6 14526.8 15987.4 TRUE FALSE FALSE 15881.17098 17210.5319 18314.02259 10916.28818 15265.69108 15165.91853 13662.62533 10700.70657 14425.70682 16676.69505 0.952297258 1.03201095 1.098180577 0.654583426 0.915390671 0.909407918 0.819264566 0.641656308 0.865021922 1 14.02554579 -6.269192953 24.99752947 0.990089457 0.803609544 0.493247687 0.101479317 378.6689956 1220828.126 0.014223643 0.021976291 5.38E-07 6.269192953 -0.186479913 VQT(ph)TPPPAVQGQK ddPTM_HeLa_SAHA_4h_R1 3 VQTTPPPAVQGQK 13 0 Q2M2I8-2;Q2M2I8;E9PG46 Q2M2I8-2 AAK1 AP2-associated protein kinase 1 1 0 VQT(0.962)T(0.038)PPPAVQGQK;VQT(0.5)T(0.5)PPPAVQGQK;VQT(0.872)T(0.128)PPPAVQGQK ;; 113.99 0.003244 64830000 8160.3 7502.9 7024 6609 8080.2 8153.8 7593.1 7600.5 7529.5 6914.1 TRUE FALSE FALSE 9018.637795 7745.998883 7981.194141 6736.926752 7461.096822 7459.050368 6738.704404 7406.090215 7477.101596 7212.200688 1.250469612 1.07401322 1.106623968 0.934101399 1.034510428 1.034226679 0.934347877 1.026883546 1.036729553 1 12.81622383 -6.352981728 6.872217853 1.116848245 0.994376358 0.306690061 0.071634431 0.265442495 17.12414487 0.015071878 0.023080684 4.44E-07 6.352981728 -0.122471888 VQTT(ph)PSKPGGDR ddPTM_HeLa_SAHA_4h_R1 1 VQTTPSKPGGDR 12 1 Q12834 Q12834 CDC20 Cell division cycle protein 20 homolog 1 0 VQT(0.003)T(0.921)PS(0.076)KPGGDR 152.4 0.015871 83843000 4700.5 4986.9 4215.5 4719.7 5409 4642.7 5439.2 4694.5 5344 5042.5 TRUE FALSE FALSE 5194.920157 5148.478832 4789.966387 4811.056618 4994.563589 4247.115841 4827.166901 4574.421488 5306.810669 5259.906852 0.987644896 0.978815591 0.910656124 0.914665745 0.949553619 0.807450771 0.91772859 0.869677281 1.008917233 1 12.36082154 -6.439362686 0.736972786 0.997906257 0.874042028 0.681023555 0.034088455 0.258673471 0.279728697 0.006697975 0.014244359 3.64E-07 6.439362686 -0.123864229 VQTTPS(ph)KPGGDR ddPTM_HeLa_SAHA_4h_R1 1 VQTTPSKPGGDR 12 1 Q12834 Q12834 CDC20 Cell division cycle protein 20 homolog 1 0 VQT(0.064)T(0.244)PS(0.692)KPGGDR 93.243 0.0062776 70175000 4824.9 4818 3890.8 4167.5 4970.2 5138 5243.8 5305.7 5008.1 4418.6 TRUE FALSE FALSE 5332.405119 4974.106361 4421.017962 4248.167989 4589.38435 4700.213494 4653.753823 5169.987877 4973.248224 4609.10747 1.15692792 1.079190796 0.959191772 0.92168994 0.995720837 1.019766522 1.009686551 1.121689592 1.079004613 1 12.17027169 -6.78207752 24.59694859 1.076556889 1.001368162 0.270448523 0.059479151 253.7342425 302404.527 0.012247327 0.016106654 1.65E-07 6.78207752 -0.075188727 VQVAALQAS(ph)PPLDQDDR ddPTM_HeLa_SAHA_4h_R1 1 VQVAALQASPPLDQDDR 17 0 Q9UDY2-7;A0A3B3ITE1;A0A1B0GTW1;A0A2R8YDH4;Q9UDY2-3;Q9UDY2;A0A3B3IRI3;Q9UDY2-6;Q9UDY2-2;Q9UDY2-4;A0A3B3IU51;A0A3B3ISZ5;Q9UDY2-5;A0A3B3IRV6;A0A3B3ISF1;B1AN86;A0A3B3IU26;U3KQJ2 Q9UDY2-7 TJP2 Tight junction protein ZO-2 1 0 VQVAALQAS(1)PPLDQDDR 121.72 0.00053991 4543100 677.63 875.07 705.68 892.51 1194.1 1334.4 980.32 706.76 1196.5 1072.3 TRUE FALSE FALSE 748.9062325 903.4228422 801.8463954 909.7858216 1102.608316 1220.701613 870.0118135 688.6821026 1188.173459 1118.532101 0.669543799 0.807686111 0.716873834 0.813374798 0.985763677 1.091342494 0.777815686 0.615701688 1.062261386 1 10.12739095 -9.618710041 1.451260901 0.999266829 0.798976289 0.287418808 0.135483369 0.538535941 2.04866674 0.102957021 0.023976154 2.41E-10 9.618710041 -0.20029054 VQVEYK ddPTM_HeLa_SAHA_4h_R1 1 VQVEYK 6 0 P11142;E9PKE3;P11142-2;E9PN89;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;P54652;E9PN25 P11142 HSPA8;HSPA2 Heat shock cognate 71 kDa protein;Heat shock-related 70 kDa protein 2 0 0 119.57 0.0052761 3774300 3782.3 4275 3450.8 4013 4627.2 4737 4890.8 3199.9 4922.3 3858.7 FALSE FALSE TRUE 4180.139668 4413.512805 3921.057053 4090.677418 4272.664936 4333.38095 4340.474312 3118.051191 4888.045314 4025.067441 1.038526616 1.096506548 0.974159343 1.016300342 1.061513875 1.076598346 1.078360643 0.774658124 1.214400848 1 11.97479724 -4.254855346 24.98511511 1.030481248 0.774658007 0.576963068 0.06923518 254.6126741 966179.3108 0.005543662 0.070476015 5.56E-05 4.254855346 -0.25582324 VQVEYK(ac)GETK ddPTM_HeLa_SAHA_4h_R1 2 VQVEYKGETK 10 1 P11142;E9PKE3;P11142-2;E9PN89;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;P54652;E9PN25 P11142 HSPA8;HSPA2 Heat shock cognate 71 kDa protein;Heat shock-related 70 kDa protein 2 0 1 ; VQVEYK(1)GETK;VQVEYK(1)GETK 188.28 1.68E-17 7369100 2210.07 4518.8 2657.1 2858.2 4591.8 2984 4928.4 3248.7 2426.81 1529.45 FALSE TRUE FALSE 2442.535303 4665.212085 3019.19575 2913.524594 4239.977276 2729.746412 4373.843461 3165.602958 2409.921632 1595.392074 1.530993755 2.924179053 1.892447505 1.826212278 2.657639676 1.711019163 2.741547693 1.984216299 1.510551337 1 10.6396953 -7.510704115 3.781528308 1.217033339 2.235417516 0.499560263 0.413500766 0.112600691 3.379665139 0.070635803 0.07712172 3.09E-08 7.510704115 1.018384177 VQVEYKGETK ddPTM_HeLa_SAHA_4h_R1 2 VQVEYKGETK 10 1 P11142;E9PKE3;P11142-2;E9PN89;E9PLF4;E9PQQ4;E9PQK7;E9PK54;E9PPY6;P54652;E9PN25 P11142 HSPA8;HSPA2 Heat shock cognate 71 kDa protein;Heat shock-related 70 kDa protein 2 0 0 ; ; 99.343 0.005077 17403900 10136.9 7794.4 10343.1 10391.2 10040 7824.8 11174.9 7798.9 4984 7469.9 FALSE FALSE TRUE 11203.14565 8046.943674 11752.6038 10592.3367 9270.737369 7158.083019 9917.470841 7599.415431 4949.315938 7791.963946 1.437782019 1.032723422 1.508298022 1.359392417 1.189781862 0.918649402 1.272781921 0.975288834 0.635182089 1 12.92777129 -4.251471596 22.77071552 1.212230043 0.975288367 0 0.257059395 738.1056536 1686023.777 0.028908962 0.477479717 5.60E-05 4.251471596 -0.236941676 VQVQDNEGCPVEALVK ddPTM_HeLa_SAHA_4h_R1 3 VQVQDNEGCPVEALVK 16 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ;; ;; 253.16 7.76E-46 13679000 2730.16 2304.52 2212.01 2785.51 2419.9 2643.44 2567.39 2331.94 2763.71 2658.86 FALSE FALSE TRUE 3017.330755 2379.18796 2513.451203 2839.427574 2234.487785 2418.20404 2278.50052 2272.292351 2744.477117 2773.496467 1.087915846 0.857829815 0.906239194 1.023771837 0.80565734 0.871897285 0.821526383 0.819287992 0.989536908 1 11.43749017 -6.316185151 0.687871527 1.038796632 0.821420925 0.475845853 0.068475189 0.38527793 0.357553475 0.015745774 0.038212809 4.83E-07 6.316185151 -0.217375707 VRASLS(ph)DLSSLDDVEGMSVR ddPTM_HeLa_SAHA_4h_R1 1 VRASLSDLSSLDDVEGMSVR 20 1 A0A087WTM5;H7BYJ1;Q969K3;Q969K3-2 A0A087WTM5 RNF34 E3 ubiquitin-protein ligase RNF34 1 0 VRAS(0.265)LS(0.708)DLS(0.021)S(0.006)LDDVEGMSVR 70.295 0.004432 3802700 329.34 266.07 244.36 293.2 316.09 511.7 406.75 356.54 426 235.48 TRUE FALSE FALSE 363.9814923 274.6908426 277.6601082 298.87531 291.8712525 468.1002813 360.9814195 347.4202231 423.0354313 245.6326952 1.481812069 1.118299184 1.130387418 1.216757035 1.188242682 1.905692078 1.469598415 1.414389167 1.722227698 1 7.940358795 -12.64771615 0.168006993 2.41E-34 1.501934503 0 0.302377873 47.21902676 0.678939647 16.70574707 0.424384639 2.25E-13 12.64771615 1.501934503 VREEEIEVDSR ddPTM_HeLa_SAHA_4h_R1 2 VREEEIEVDSR 11 1 Q14978;Q14978-3;Q14978-2;A0A0A0MRM9 Q14978 NOLC1 Nucleolar and coiled-body phosphoprotein 1 0 0 ; ; 180.66 7.33E-05 23532600 4146.5 3766.82 4153.45 3793.43 4707.4 5782.9 4991.8 4082.3 4982.6 4340.3 FALSE FALSE TRUE 4582.647895 3888.86744 4719.460536 3866.857323 4346.720029 5290.164386 4430.109526 3977.880677 4947.925681 4527.431574 1.012195948 0.858956646 1.042414548 0.854095144 0.960085196 1.168469208 0.978503916 0.878617515 1.092876966 1 12.14447712 VREEFK(ac)ELK ddPTM_HeLa_SAHA_4h_R1 2 VREEFKELK 9 2 P02545;P02545-3;P02545-6;P02545-2;Q3BDU5 P02545;P02545-2 LMNA Prelamin-A/C;Lamin-A/C 0 1 ; VREEFK(1)ELK;VREEFK(1)ELK 106.4 0.0024925 3595000 1985.33 1590.73 1822.42 2215.69 2215.61 1850.67 2473.1 2293.2 1859.46 1644.08 FALSE TRUE FALSE 2194.156118 1642.270696 2070.769907 2258.577884 2045.85044 1692.982504 2194.820279 2234.543265 1846.519866 1714.964335 1.27941793 0.957612157 1.20747112 1.316982422 1.192940517 0.98718234 1.279805203 1.302967776 1.07671036 1 10.74396286 -9.510735228 1.171692708 0.996408492 1.194587669 0.194542469 0.120542201 0.553670179 1.319654783 0.091655985 0.020497267 3.09E-10 9.510735228 0.198179177 VREEYPDR ddPTM_HeLa_SAHA_4h_R1 4 VREEYPDR 8 1 A0A0B4J269;Q13509;Q13509-2;G3V2A3 A0A0B4J269 TUBB3 Tubulin beta-3 chain 0 0 ;;; ;;; 134.77 0.0021875 24506800 6146.83 6307.11 5931.79 7611.7 8560.6 8168.1 8591.5 6917.79 6117.52 6482.83 FALSE FALSE TRUE 6793.381782 6511.464502 6740.14345 7759.03546 7904.688677 7472.131928 7624.761808 6740.842949 6074.94768 6762.336527 1.004590906 0.962901576 0.996718135 1.147389727 1.168928616 1.10496304 1.127533624 0.996821575 0.898350393 1 12.7233061 -6.27168658 24.70260554 0.998281747 1.113240834 0.595534284 0.054200334 284.8517017 686682.4901 0.006561028 0.010092439 5.35E-07 6.27168658 0.114959087 VRELELELDR ddPTM_HeLa_SAHA_4h_R1 1 VRELELELDR 10 1 O94992 O94992 HEXIM1 Protein HEXIM1 0 0 131.42 0.0023175 2063200 932.31 1268.2 1305.8 1878.4 1653.1 1208.6 1340.2 1792 1532.4 1195.3 FALSE FALSE TRUE 1030.374643 1309.290512 1483.747624 1914.759148 1526.439835 1105.620481 1189.397169 1746.163235 1521.735904 1246.835233 0.826391985 1.050091045 1.190010985 1.535695414 1.224251445 0.886741449 0.953932916 1.400476333 1.220478748 1 10.28405511 -6.967484713 3.806458702 0.918267955 1.188403977 0.094856331 0.204944738 0.215526646 6.769990164 0.032311036 0.042225604 1.08E-07 6.967484713 0.270136022 VREYELR ddPTM_HeLa_SAHA_4h_R1 1 VREYELR 7 1 P62913;Q5VVC8;P62913-2 P62913 RPL11 60S ribosomal protein L11 0 0 101.33 0.019536 40644000 2853.5 2401.3 2843.4 3090.7 3083.5 3331.6 3307.1 3250.4 3679.4 2952.6 FALSE FALSE TRUE 3153.644222 2479.103696 3230.883744 3150.524968 2847.242896 3047.728937 2934.976404 3167.259475 3653.794756 3079.901036 1.023943362 0.804929661 1.049021935 1.022930585 0.924459216 0.989554178 0.952945036 1.028364041 1.186335117 1 11.58866828 VRGEVAPDAK ddPTM_HeLa_SAHA_4h_R1 6 VRGEVAPDAK 10 1 P09382;F8WEI7 P09382 LGALS1 Galectin-1 0 0 ;;;;; ;;;;; 129.82 0.00050887 97309200 32177.6 31720.4 29475.3 34547.5 33688.2 34363.7 36475.9 33482 30464.6 31957.5 FALSE FALSE TRUE 35562.1876 32748.16177 33492.04038 35216.21682 31107.01739 31435.71944 32371.53573 32625.57892 30252.59437 33335.34422 1.066801272 0.982385589 1.004700601 1.056422774 0.933154228 0.943014694 0.97108749 0.978708325 0.907523083 1 15.024765 -5.758737385 24.99999947 1.02750075 0.956571167 0.068206071 0.046389748 43.25440007 400199.1047 0.004784489 0.009230355 1.74E-06 5.758737385 -0.070929583 VRGGAPDPSPGATATPGAPAQPS(ph)SPDAR ddPTM_HeLa_SAHA_4h_R1 2 VRGGAPDPSPGATATPGAPAQPSSPDAR 28 1 O95365 O95365 ZBTB7A Zinc finger and BTB domain-containing protein 7A 1 0 VRGGAPDPSPGATATPGAPAQPS(0.632)S(0.368)PDAR;VRGGAPDPSPGATATPGAPAQPS(0.5)S(0.5)PDAR ; 173.57 1.51E-14 75589000 4850.5 4106.5 3751.3 3737.5 4680.3 4025.9 4811.1 4143.9 2965.5 4270.3 TRUE FALSE FALSE 5360.697845 4239.553294 4262.507628 3809.844717 4321.696425 3682.870671 4269.742366 4037.905038 2944.862844 4454.413531 1.203457606 0.951764641 0.956917807 0.855296593 0.970205482 0.826791371 0.95854198 0.906495324 0.661111238 1 12.12101978 -7.09003042 5.98007819 1.095942263 0.913869528 0 0.151008694 0.139537628 7.533191592 0.013886756 0.017100064 8.13E-08 7.09003042 -0.182072735 VRGPVS(ph)GSPDSMNASR ddPTM_HeLa_SAHA_4h_R1 2 VRGPVSGSPDSMNASR 16 1 A0A499FJS7;O14920-4;O14920-2;O14920 A0A499FJS7 IKBKB Inhibitor of nuclear factor kappa-B kinase subunit beta 1 0 VRGPVS(0.499)GS(0.499)PDS(0.002)MNASR;VRGPVS(0.791)GS(0.208)PDS(0.001)MNASR ; 218.83 5.25E-20 13853600 1605.05 1560.7 1750.24 1652.7 1866 1927.96 1823.99 1910.33 1105.41 1751.84 TRUE FALSE FALSE 1773.876523 1611.267704 1988.753592 1684.690398 1723.027483 1763.686962 1618.749845 1861.466525 1097.717362 1827.370396 0.970726311 0.881741166 1.088314442 0.921920593 0.942899966 0.965150232 0.885835651 1.018658576 0.600708737 1 10.83555337 VRHFS(ph)QSEETGNEVFGALNEEQPLPR ddPTM_HeLa_SAHA_4h_R1 1 VRHFSQSEETGNEVFGALNEEQPLPR 26 1 A0A1B0GUI1;Q6GYQ0-3;Q6GYQ0-4;Q6GYQ0;Q6GYQ0-7;Q6GYQ0-5;Q6GYQ0-6;Q6GYQ0-2 A0A1B0GUI1 RALGAPA1 Ral GTPase-activating protein subunit alpha-1 1 0 VRHFS(0.446)QS(0.446)EET(0.107)GNEVFGALNEEQPLPR 68.634 0.00040252 4676500 448.76 349.51 367.2 362.68 607.69 216.62 525.33 564.03 262.69 449.05 TRUE FALSE FALSE 495.9626358 360.8343533 417.2401037 369.7001958 561.1289235 198.1627573 466.2184858 549.6029293 260.8619189 468.4107431 1.058819942 0.770337484 0.890756905 0.78926498 1.197942045 0.4230534 0.995319797 1.173335448 0.556908488 1 8.871630355 -7.285581693 24.28802038 1.027776089 0.885244883 0 0.25542336 947.1133951 952826.682 0.033310412 0.038103246 5.18E-08 7.285581693 -0.142531206 VRIGLEDIWNS(ph)LSS(ph)VFTEMQPIDRNQR ddPTM_HeLa_SAHA_4h_R1 1 VRIGLEDIWNSLSSVFTEMQPIDRNQR 27 2 Q9BUN1 Q9BUN1 MENT Protein MENT 2 0 VRIGLEDIWNS(0.656)LS(0.656)S(0.663)VFT(0.024)EMQPIDRNQR 51.39 0.012074 2143100 83.212 183.49 166.25 157.56 134.42 407.13 185 250.69 281.62 171.36 TRUE FALSE FALSE 91.96461995 189.4351964 188.9056842 160.6098016 124.1207686 372.4402335 164.1833131 244.2777128 279.6601835 178.7481682 0.514492657 1.059788183 1.056825847 0.898525581 0.694389038 2.083603078 0.918517458 1.366602608 1.564548528 1 7.481784647 -5.326500309 24.9998888 0.815472788 1.402481315 0.174160256 0.390472926 139.7028641 53681.0278 0.045826022 0.102470116 4.72E-06 5.326500309 0.587008527 VRMADNEVMDAFR ddPTM_HeLa_SAHA_4h_R1 1 VRMADNEVMDAFR 13 1 O75528 O75528 TADA3 Transcriptional adapter 3 0 0 77.74 0.019773 13207000 2629.8 3483.9 2194.2 3002.7 3483.7 3415.5 3594.3 3032.1 4314.9 2712.7 FALSE FALSE TRUE 2906.41443 3596.780646 2493.214149 3060.8216 3216.779659 3124.480185 3189.859904 2954.543272 4284.87226 2829.657773 1.027125774 1.271100937 0.881100949 1.08169321 1.13680873 1.10419013 1.127295299 1.044134489 1.514272256 1 11.46641186 -7.497154803 24.47172583 1.011967167 1.091724501 0 0.182978277 291.0424909 276878.6797 0.014952384 0.016128345 3.18E-08 7.497154803 0.079757334 VRPASTGGLS(ph)LLPPPPGGK ddPTM_HeLa_SAHA_4h_R1 1 VRPASTGGLSLLPPPPGGK 19 1 D6RB24;Q9NVZ3-4;Q9NVZ3;Q9NVZ3-2 D6RB24 NECAP2 Adaptin ear-binding coat-associated protein 2 1 0 VRPAS(0.21)T(0.149)GGLS(0.64)LLPPPPGGK 65.16 0.0085335 6760600 1224.8 1232.4 1273 1668.6 1757.9 1516.4 1741 2295.7 1838.4 1497.5 TRUE FALSE FALSE 1353.630084 1272.330569 1446.477811 1700.898166 1623.210082 1387.194189 1545.098098 2236.979318 1825.606425 1562.064554 0.866564753 0.814518559 0.926003863 1.088878281 1.039144047 0.888051768 0.989138441 1.43206586 1.168713816 1 10.60923836 -6.267660963 22.50182699 0.9235057 1.068231638 0.127069895 0.159208462 159.7239392 577681.1986 0.021636946 0.033628588 5.40E-07 6.267660963 0.144725938 VRPFNSRET(ph)SK ddPTM_HeLa_SAHA_4h_R1 2 VRPFNSRETSK 11 2 A0A087WWA3;Q4R9M9;O60333-2;O60333;O60333-4;O60333-3 A0A087WWA3;O60333-3 KIF1B;KIF1Bbeta Kinesin-like protein;Kinesin-like protein KIF1B 1 0 VRPFNSRET(0.5)S(0.5)K;VRPFNSRET(0.5)S(0.5)K ; 123.79 0.0043089 18614300 1759.16 1813.94 1936.88 1782.51 2031.28 2076.05 2057.96 1712.22 1446.24 1734.7 TRUE FALSE FALSE 1944.19652 1872.712846 2200.82792 1817.013059 1875.643765 1899.15886 1826.392925 1668.423892 1436.175498 1809.491406 1.074443633 1.03493879 1.216268788 1.004156777 1.036558537 1.049553954 1.00934048 0.922040241 0.793690146 1 10.82136854 -4.245461544 1.89108504 1.047693541 0.878687391 0.056991629 0.099072224 0.869317941 3.068188139 0.008596709 0.261057679 5.68E-05 4.245461544 -0.16900615 VRPGFCFHLCSR ddPTM_HeLa_SAHA_4h_R1 2 VRPGFCFHLCSR 12 1 Q08211 Q08211 DHX9 ATP-dependent RNA helicase A 0 0 ; ; 110.66 0.0096767 6466500 1440.52 2328.2 4550.6 2915.3 3557 757.26 6205.5 341.36 307.57 966.72 FALSE FALSE TRUE 1592.040503 2403.635208 5170.732069 2971.729847 3284.463428 692.7371878 5507.240808 332.6285055 305.4295953 1008.40003 1.578778714 2.383612788 5.127659574 2.946975167 3.257103659 0.686966647 5.461365176 0.329857691 0.302885349 1 9.977852351 -7.219395265 3.28860256 1.257941157 3.031764761 0.240080604 1.559718745 0.262103653 5.711557615 0.240050267 0.289465679 6.03E-08 7.219395265 1.773823605 VRS(ph)LETENR ddPTM_HeLa_SAHA_4h_R1 2 VRSLETENR 9 1 P05783;F8VZY9 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 VRS(0.999)LET(0.001)ENR;VRS(0.962)LET(0.038)ENR ; 87.713 0.011834 8094000 1012.88 776.83 903.61 1032.98 1143.04 1221.08 896.06 1143.22 962.58 840.05 TRUE FALSE FALSE 1119.419366 801.9998017 1026.749265 1052.974822 1055.460522 1117.037114 795.2329705 1113.978088 955.8813274 876.2686666 1.277484188 0.915244185 1.171728836 1.201657507 1.204494195 1.274765556 0.90752186 1.271274588 1.090854168 1 9.775229462 -9.642846232 1.471125833 0.999969634 1.164940493 0.076973135 0.132121898 0.563449176 2.191338056 0.090467627 0.020481852 2.28E-10 9.642846232 0.164970859 VRTAS(ph)EGDGGAAAGAAAAGAR ddPTM_HeLa_SAHA_4h_R1 2 VRTASEGDGGAAAGAAAAGAR 21 1 Q9Y4H2 Q9Y4H2 IRS2 Insulin receptor substrate 2 1 0 VRT(0.002)AS(0.998)EGDGGAAAGAAAAGAR;VRT(0.156)AS(0.844)EGDGGAAAGAAAAGAR ; 163.78 5.15E-16 0 438.1 404.11 319.64 633.76 495.09 693.35 550.05 776.06 267.65 543.53 TRUE FALSE FALSE 484.1813681 417.2034291 363.1988746 646.0273412 457.1563112 634.2726793 488.1569263 756.2095089 265.7874019 566.9642383 0.853989256 0.735854929 0.640602793 1.139449894 0.80632301 1.11871726 0.861001265 1.333786962 0.468790417 1 9.147113929 -2.046190226 1.370317067 0.907477916 199.9999994 0.290656893 0.205571603 552.4501036 2.766939178 0.021886876 343946.2932 0.008991037 2.046190226 199.0925214 VRTELADK(ac)VTK ddPTM_HeLa_SAHA_4h_R1 1 VRTELADKVTK 11 2 P35579 P35579 MYH9 Myosin-9 0 1 VRTELADK(1)VTK 97.957 0.0058676 1772100 1182 3180 1661.4 1864.3 2910.3 2015 3209.8 2777.3 1719.1 925.66 FALSE TRUE FALSE 1306.328183 3283.034086 1887.80694 1900.386222 2687.313443 1843.310664 2848.624856 2706.260687 1707.136643 965.5697327 1.352909209 3.400100454 1.955122324 1.968150158 2.783137615 1.909039401 2.950201068 2.80276048 1.768009689 1 9.915236643 -7.417875975 6.938174357 1.154224429 2.493946101 0.519619013 0.502087373 0.111839116 6.455716557 0.077372475 0.088086169 3.82E-08 7.417875975 1.339721673 VRVELSNGEK ddPTM_HeLa_SAHA_4h_R1 2 VRVELSNGEK 10 1 P84103;P84103-2 P84103 SRSF3 Serine/arginine-rich splicing factor 3 0 0 ; ; 152.64 3.05E-06 14785900 4392.6 4541.7 3575.7 5346.1 5071.1 5703.2 5639.4 5057.5 5728.8 5370.2 FALSE FALSE TRUE 4854.633822 4688.85406 4062.977775 5449.581496 4682.553414 5217.255275 5004.83987 4928.136473 5688.932814 5601.735603 0.866630303 0.837035946 0.725306952 0.972838042 0.835911179 0.931364071 0.893444501 0.87975171 1.015566106 1 12.45165818 -9.039739521 0.888051039 0.997920391 0.868411135 0.438284081 0.062536646 0.461017904 0.675262014 0.036956885 0.011953619 9.13E-10 9.039739521 -0.129509256 VRVELSNGEK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 VRVELSNGEKR 11 2 P84103;P84103-2 P84103 SRSF3 Serine/arginine-rich splicing factor 3 0 1 ; VRVELSNGEK(1)R;VRVELSNGEK(1)R 161.19 6.06E-07 2450000 1621.65 2463 2105.79 2917.9 3312.6 2718 3771.9 2495.1 2108.02 1859 FALSE TRUE FALSE 1792.222587 2542.802816 2392.756095 2974.380174 3058.789304 2486.411109 3347.475885 2431.278955 2093.350117 1939.150588 0.924230742 1.311297241 1.233919691 1.533857243 1.577386162 1.282216618 1.726258861 1.253785534 1.07951911 1 10.92120913 -6.912452997 1.491705254 0.962313596 1.475676492 0.622756124 0.150383958 0.136060459 0.603077947 0.024042259 0.033030033 1.22E-07 6.912452997 0.513362896 VRVELSNGEKR ddPTM_HeLa_SAHA_4h_R1 2 VRVELSNGEKR 11 2 P84103;P84103-2 P84103 SRSF3 Serine/arginine-rich splicing factor 3 0 0 ; ; 103.31 0.0028889 23447000 7563.5 5454.4 8097.3 7980.8 7252 7169.3 8544 5208 4403 6532.9 FALSE FALSE TRUE 8359.063633 5631.126139 9200.757875 8135.279924 6696.353327 6558.435307 7582.606633 5074.786901 4372.359165 6814.56529 1.226646642 0.826336809 1.350160646 1.193807613 0.982653044 0.962414333 1.112705846 0.744697084 0.641619675 1 12.73440591 -3.698168927 1.229602667 1.100941295 1.41E-38 0.06311641 0.20522922 4.908953997 2.353703527 0.021946156 9.650127526 0.000200369 3.698168927 -1.100941295 VRVELSTGMPR ddPTM_HeLa_SAHA_4h_R1 2 VRVELSTGMPR 11 1 A0A0B4J1Z1;C9JAB2;Q16629-3;Q16629-2;Q16629-4;Q16629 A0A0B4J1Z1 SRSF7 Serine/arginine-rich splicing factor 7 0 0 ; ; 100.93 0.005386 13898900 1814.43 1673.84 2086.69 1696.98 1916.95 1915.87 2170.43 1427.57 1257.78 1945.84 FALSE FALSE TRUE 2005.280072 1728.073514 2371.053246 1729.827502 1770.073705 1752.627098 1926.207504 1391.054826 1249.027007 2029.734685 0.987951818 0.851379014 1.1681592 0.85224316 0.872071467 0.863475956 0.948994722 0.685338255 0.615364666 1 10.98707544 -2.650944679 0.376844249 0.996920689 6.22E-12 0 0.152464069 12.27525514 0.469959251 0.023381672 7.219142783 0.002233857 2.650944679 -0.996920689 VRVS(ph)GQGLHEGHTFEPAEFIIDTR ddPTM_HeLa_SAHA_4h_R1 2 VRVSGQGLHEGHTFEPAEFIIDTR 24 1 P21333-2;P21333;Q60FE5;H0Y5C6 P21333-2 FLNA Filamin-A 1 0 VRVS(0.997)GQGLHEGHT(0.003)FEPAEFIIDTR;VRVS(0.927)GQGLHEGHT(0.073)FEPAEFIIDTR ; 54.711 0.0058616 10432700 1052.12 1018.87 1046.15 1166.83 1337.02 746.09 1496.1 1035.6 1086.58 1017.74 TRUE FALSE FALSE 1162.786809 1051.882057 1188.713874 1189.415682 1234.577816 682.5189346 1327.75489 1009.110852 1079.018401 1061.619752 1.095295002 0.990827511 1.119717179 1.120378252 1.162919034 0.642903387 1.250687817 0.950538881 1.016388777 1 10.0520514 VRVS(ph)PQDANPLMANGTLTR ddPTM_HeLa_SAHA_4h_R1 3 VRVSPQDANPLMANGTLTR 19 1 O60716;O60716-2;O60716-5;O60716-3;A0A669KB05;C9JZR2;O60716-8;O60716-7;O60716-4;O60716-6;A0A669KB62 O60716 CTNND1 Catenin delta-1 1 0 VRVS(1)PQDANPLMANGTLTR;VRVS(1)PQDANPLMANGTLTR;VRVS(1)PQDANPLMANGTLTR ;; 106.69 0.00061029 21449300 4046.29 4235.5 3705.04 4034.77 4618.38 5153.47 4424.49 5039.66 4588.7 4016.28 TRUE FALSE FALSE 4471.897347 4372.732979 4209.943556 4112.868808 4264.520722 4714.365363 3926.634741 4910.752795 4556.766863 4189.441486 1.067420887 1.043750818 1.004893748 0.981722461 1.017921061 1.125296863 0.937269265 1.172173621 1.087678842 1 12.03254221 -9.244125669 0.005098836 4.35E-07 2.048013495 0 0.067065068 35600.29292 46.35996185 9516.246622 9106.733547 5.70E-10 9.244125669 2.04801306 VRYDS(ph)SNQVK ddPTM_HeLa_SAHA_4h_R1 3 VRYDSSNQVK 10 1 A0A087WZ12;A0A087WT34;A0A087X1H1;A0A0A0MTS6;K7EIE8;O95983-2;O95983 A0A087WZ12 MBD3 Methyl-CpG-binding domain protein 3 1 0 VRYDS(0.61)S(0.39)NQVK;VRYDS(0.773)S(0.227)NQVK;VRYDS(0.789)S(0.211)NQVK ;; 153.74 0.000785 53578000 8393.8 8328.7 8086.3 9884.3 10586.1 13680.9 12882.6 12851.4 8541.4 8347.6 TRUE FALSE FALSE 9276.698396 8598.555345 9188.258852 10075.62492 9774.995305 12515.21035 11433.01594 12522.6798 8481.959702 8707.505888 1.06536803 0.987487744 1.055211328 1.157119507 1.122594165 1.43728991 1.313006972 1.438147727 0.974097498 1 13.08804383 -5.489671652 1.20745977 1.029255024 1.411011633 0.877040816 0.059578791 0.111367154 0.305901655 0.008537691 0.030109016 3.24E-06 5.489671652 0.38175661 VS(ph)EGGPAEIAGLQIGDK ddPTM_HeLa_SAHA_4h_R1 1 VSEGGPAEIAGLQIGDK 17 0 O14907 O14907 TAX1BP3 Tax1-binding protein 3 1 0 VS(1)EGGPAEIAGLQIGDK 143.39 0.00012427 1732100 305.33 499.33 256.2 449.85 487.82 845.26 550.19 270.32 631.44 608.27 TRUE FALSE FALSE 337.4460103 515.5086196 291.1136018 458.5574972 450.443337 773.2390927 488.2811732 263.4056058 627.0457576 634.4954965 0.531833578 0.8124701 0.45881114 0.722711981 0.709923616 1.218667582 0.769558139 0.415141805 0.988258799 1 9.309466114 -9.559981304 1.343497979 0.999433592 0.696147439 0.225848088 0.213435632 0.562453119 1.824733417 0.153419851 0.036442801 2.75E-10 9.559981304 -0.303286154 VS(ph)GRTSPPLLDR ddPTM_HeLa_SAHA_4h_R1 3 VSGRTSPPLLDR 12 1 Q9UQ35 Q9UQ35 SRRM2 Serine/arginine repetitive matrix protein 2 1 0 VS(0.62)GRT(0.092)S(0.287)PPLLDR;VS(0.808)GRT(0.166)S(0.026)PPLLDR;VS(0.49)GRT(0.129)S(0.381)PPLLDR ;; 96.135 0.0052605 1892180000 10997.2 7643.7 9794.6 8394.8 10120.1 9578.3 9844.1 10446.8 6244.8 9115.5 TRUE FALSE FALSE 12153.93595 7891.360895 11129.35708 8557.293493 9344.700124 8762.174954 8736.41596 10179.58598 6201.341928 9508.513815 1.278216153 0.829925796 1.170462314 0.899961199 0.982771893 0.921508358 0.918799313 1.070575926 0.652188349 1 13.21500415 -7.260429617 24.99970043 1.131379848 0.972135291 0 0.186661148 95.21803921 2357410.86 0.02169011 0.025754586 5.49E-08 7.260429617 -0.159244558 VS(ph)KSPSPASTSTVPNMTDAPTAPK ddPTM_HeLa_SAHA_4h_R1 2 VSKSPSPASTSTVPNMTDAPTAPK 24 1 Q659A1 Q659A1 ICE2 Little elongation complex subunit 2 1 0 VS(0.416)KS(0.367)PS(0.145)PAS(0.008)T(0.009)S(0.009)T(0.043)VPNMTDAPTAPK;VS(0.38)KS(0.343)PS(0.091)PAS(0.036)T(0.135)S(0.009)T(0.006)VPNMTDAPTAPK ; 60.093 0.0043943 7061000 2473.51 2324.78 2095.79 2596.07 2463.93 2604.44 2446.05 2489.9 2338.32 2441.91 TRUE FALSE FALSE 2733.685131 2400.104397 2381.393347 2646.320689 2275.144216 2382.52706 2170.814016 2426.211963 2322.047441 2547.192691 1.073214893 0.942254744 0.93490899 1.038916568 0.893196743 0.935354074 0.852237848 0.952504289 0.911610437 1 11.31469239 -6.234806969 0.77184502 1.031578828 0.902126804 0.030124919 0.06247021 0.417807021 0.487248566 0.010556578 0.025920288 5.82E-07 6.234806969 -0.129452024 VS(ph)LDVNHFAPDELTVK ddPTM_HeLa_SAHA_4h_R1 2 VSLDVNHFAPDELTVK 16 0 P04792;F8WE04 P04792 HSPB1 Heat shock protein beta-1 1 0 VS(1)LDVNHFAPDELTVK;VS(1)LDVNHFAPDELTVK ; 113.49 0.0011013 3380700 1685.08 1546.3 1322.41 1472 1536.62 1551.59 1777.13 1157.36 1566.87 1486.39 TRUE FALSE FALSE 1862.324446 1596.401135 1502.621148 1500.492689 1418.884508 1419.385803 1577.162655 1127.756407 1555.966024 1550.475547 1.20113113 1.029620324 0.969135663 0.967762885 0.915128594 0.915451911 1.017212208 0.727361621 1.003541157 1 10.59849506 -6.672861446 1.927785481 1.094922476 0.914842727 0.379406446 0.088386012 0.243926515 1.850306647 0.016451273 0.024485117 2.12E-07 6.672861446 -0.180079748 VS(ph)LERLDLDLTADSQPPVFK ddPTM_HeLa_SAHA_4h_R1 1 VSLERLDLDLTADSQPPVFK 20 1 Q13263;Q13263-2;M0R0K9 Q13263 TRIM28 Transcription intermediary factor 1-beta 1 0 VS(0.959)LERLDLDLT(0.032)ADS(0.009)QPPVFK 59.429 0.011248 2851700 921.43 830.1 1003.5 1204 1518.5 1472.1 1306 1265.5 1400.9 1155 TRUE FALSE FALSE 1018.350235 856.9957846 1140.251754 1227.305161 1402.152858 1346.668798 1159.045443 1233.130342 1391.151023 1204.797702 0.845245831 0.711319239 0.946425903 1.018681525 1.163807712 1.117755118 0.962024944 1.023516512 1.154676026 1 10.23457521 -6.237884967 3.600868907 0.906047208 1.06431326 0.215258152 0.117790245 0.210826133 5.889716466 0.016099482 0.026712155 5.78E-07 6.237884967 0.158266052 VS(ph)PAHS(ph)PPENGLDK ddPTM_HeLa_SAHA_4h_R1 2 VSPAHSPPENGLDK 14 0 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726;A0A0D9SES8 H0YKH0 TLE3 Transducin-like enhancer protein 3 2 0 VS(1)PAHS(1)PPENGLDK;VS(1)PAHS(1)PPENGLDK ; 88.19 0.020329 24520000 3710.7 5297.6 3526.4 4494 5021.1 6391.7 4690.8 4492.2 7727.6 5177.2 TRUE FALSE FALSE 4101.008451 5469.245716 4006.959427 4580.987868 4636.384403 5847.091201 4162.978838 4377.296029 7673.823002 5400.414429 0.75938773 1.012745557 0.74197258 0.848265986 0.858523816 1.082711573 0.770862846 0.810548169 1.42096928 1 12.39885441 -9.604376369 1.403881239 1.000009083 0.850740142 0.255614329 0.170812682 0.523733838 1.852240766 0.073202339 0.016883615 2.49E-10 9.604376369 -0.149268941 VS(ph)PECQQLIR ddPTM_HeLa_SAHA_4h_R1 1 VSPECQQLIR 10 0 Q86V86 Q86V86 PIM3 Serine/threonine-protein kinase pim-3 1 0 VS(1)PECQQLIR 86.833 0.020801 2688400 124.44 168.64 152.91 137 263.3 443.57 334.04 187.99 428.19 336.64 TRUE FALSE FALSE 137.5291702 174.1040466 173.7477785 139.6518331 243.1260109 405.7753405 296.4529401 183.181488 425.2101909 351.1541979 0.391648942 0.495805113 0.494790549 0.397693759 0.692362536 1.155547457 0.844224394 0.521655413 1.210893088 1 8.455960872 -4.191497038 17.80244537 0.692119073 0.521589008 0.02396529 0.292620137 6958.618208 1768463.197 0.041792291 70.77455664 6.43E-05 4.191497038 -0.170530065 VS(ph)PENLVDK ddPTM_HeLa_SAHA_4h_R1 3 VSPENLVDK 9 0 A0A088AWL3;O75376;O75376-2;E7EVK1;J3KS29;J3QKP0 A0A088AWL3 NCOR1 Nuclear receptor corepressor 1 1 0 VS(1)PENLVDK;VS(1)PENLVDK;VS(1)PENLVDK ;; 125.82 0.0027175 122468700 7263.2 8614.8 6239.4 8291.7 9250.9 9709.4 8549.5 7617.8 11551.2 7717.1 TRUE FALSE FALSE 8027.176701 8893.925172 7089.672939 8452.197843 8542.098041 8882.104496 7587.487759 7422.947706 11470.81426 8049.821948 0.997186864 1.104859863 0.880724193 1.049985689 1.061153662 1.103391423 0.942565911 0.922125701 1.424977389 1 12.97474116 -4.549248937 24.8619255 1.011937748 0.927235612 0 0.144593602 188.7859251 177987.8823 0.008171967 0.03057839 2.82E-05 4.549248937 -0.084702137 VS(ph)PGQAAPAMAR ddPTM_HeLa_SAHA_4h_R1 3 VSPGQAAPAMAR 12 0 Q96HA7-2;Q96HA7 Q96HA7-2 TONSL Tonsoku-like protein 1 0 VS(1)PGQAAPAMAR;VS(1)PGQAAPAMAR;VS(1)PGQAAPAMAR ;; 143.56 0.00054122 22288900 1581.58 2204.75 1863.93 1923.15 2384.18 2512.51 2123.99 1971.85 2397.81 2050.76 TRUE FALSE FALSE 1747.937841 2276.185347 2117.936673 1960.375349 2201.504643 2298.430013 1884.993055 1921.412932 2381.123445 2139.1783 0.81710713 1.064046577 0.990070194 0.916415125 1.029135647 1.074445273 0.881176223 0.898201395 1.113101907 1 11.06284102 -7.255310462 24.98802003 0.913633923 0.978912063 0 0.097753655 893.1780354 3641550.034 0.015292348 0.018475729 5.56E-08 7.255310462 0.06527814 VS(ph)PGQAAPAMARPR ddPTM_HeLa_SAHA_4h_R1 2 VSPGQAAPAMARPR 14 1 Q96HA7-2;Q96HA7 Q96HA7-2 TONSL Tonsoku-like protein 1 0 VS(1)PGQAAPAMARPR;VS(1)PGQAAPAMARPR ; 148.89 5.18E-05 27195000 1793.46 1611.72 1405.03 1662.39 1594.89 1524.79 2152.21 1672.83 1363.46 1327.3 TRUE FALSE FALSE 1982.104351 1663.940785 1596.500171 1694.567962 1472.689873 1394.869314 1910.037666 1630.041431 1353.971571 1384.526399 1.431611816 1.201812249 1.153102009 1.223933299 1.063677713 1.007470363 1.379560309 1.177327809 0.977931206 1 10.43517685 -6.849228505 7.186767647 1.209547014 1.167816223 0 0.152230896 1.287348706 89.82629907 0.029744203 0.039211537 1.42E-07 6.849228505 -0.041730791 VS(ph)PMLY(ph)K ddPTM_HeLa_SAHA_4h_R1 1 VSPMLYK 7 0 A0A087WWN2;Q13619 A0A087WWN2 CUL4A Cullin-4A 2 0 VS(1)PMLY(1)K 50.966 0.0076986 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 VS(ph)PPASPT(ph)LEVELGSAELPLQGAVGPELPPGGGHGR ddPTM_HeLa_SAHA_4h_R1 1 VSPPASPTLEVELGSAELPLQGAVGPELPPGGGHGR 36 0 Q7Z6J0 Q7Z6J0 SH3RF1 E3 ubiquitin-protein ligase SH3RF1 2 0 VS(0.779)PPAS(0.373)PT(0.756)LEVELGS(0.092)AELPLQGAVGPELPPGGGHGR 51.858 0.0035542 8356200 928.75 1080 595.93 731.9 943.28 969.98 1246.5 914.99 1128.6 987.51 TRUE FALSE FALSE 1026.440186 1114.992709 677.1402369 746.0669828 871.0060902 887.332247 1106.240539 891.5858807 1120.745981 1030.086389 0.996460294 1.082426407 0.657362571 0.72427613 0.845566061 0.861415369 1.073929868 0.865544764 1.088011639 1 10.00854962 -6.790749757 24.99997712 1.00458911 0.844975785 0.447086549 0.107696818 181.3113232 154646.9356 0.017819941 0.023421936 1.62E-07 6.790749757 -0.159613326 VS(ph)PPASPTLEVELGSAELPLQGAVGPELPPGGGHGR ddPTM_HeLa_SAHA_4h_R1 2 VSPPASPTLEVELGSAELPLQGAVGPELPPGGGHGR 36 0 Q7Z6J0 Q7Z6J0 SH3RF1 E3 ubiquitin-protein ligase SH3RF1 1 0 VS(0.77)PPAS(0.109)PT(0.12)LEVELGS(0.001)AELPLQGAVGPELPPGGGHGR;VS(0.919)PPAS(0.037)PT(0.044)LEVELGSAELPLQGAVGPELPPGGGHGR ; 136.49 1.42E-19 14222500 268.59 270.567 366.83 140.6 243.63 486.44 381.77 225.06 346.54 304.6 TRUE FALSE FALSE 296.8415285 279.3335483 416.819682 143.3215163 224.963122 444.9925754 338.8122348 219.3032911 344.1283999 317.7327967 0.93424894 0.879146098 1.31185602 0.451075614 0.708026129 1.400524529 1.066343287 0.690212951 1.083074846 1 8.311670204 -9.23669217 0.668972705 1.006670405 0.936862395 0.021059077 0.270570265 7.312553436 5.020180693 0.298220409 0.058014328 5.80E-10 9.23669217 -0.069808011 VS(ph)PQPMISR ddPTM_HeLa_SAHA_4h_R1 1 VSPQPMISR 9 0 Q9P270;D6RIF6 Q9P270 SLAIN2 SLAIN motif-containing protein 2 1 0 VS(1)PQPMISR 101.35 0.009792 8115800 515.05 501.64 520.8 560.07 573.24 690.68 682.62 611.16 754.51 400.64 TRUE FALSE FALSE 569.2253221 517.8934651 591.7719118 570.9109647 529.318475 631.8301783 605.809801 595.5274121 749.2593035 417.9135511 1.362064764 1.239235875 1.416015131 1.366098235 1.266574089 1.511868128 1.449605545 1.42500144 1.792857163 1 8.707060729 -12.16472754 0.198318967 3.37E-16 1.46725962 0 0.260473232 8.511760513 0.165866508 3.45288194 0.07739466 6.84E-13 12.16472754 1.46725962 VS(ph)PSFSAELK ddPTM_HeLa_SAHA_4h_R1 1 VSPSFSAELK 10 0 Q13416 Q13416 ORC2 Origin recognition complex subunit 2 1 0 VS(0.99)PS(0.009)FSAELK 91.313 0.01718 7508700 1405.6 1227.1 1254.3 1413.6 1368.4 1515.5 1578.4 1114 1415.7 1291.8 TRUE FALSE FALSE 1553.447457 1266.858845 1425.229472 1440.962272 1263.553488 1386.370874 1400.794278 1085.505493 1405.848028 1347.49582 1.152840279 0.940157904 1.05768749 1.069363074 0.93770494 1.028849851 1.039553709 0.805572438 1.043304185 1 10.39606508 -3.625839219 1.391666682 1.053195171 6.73E-25 0.494445906 0.063783232 4.345777084 2.083648738 0.011099985 9.938513006 0.00023668 3.625839219 -1.053195171 VS(ph)PSPTTYR ddPTM_HeLa_SAHA_4h_R1 1 VSPSPTTYR 9 0 P11274-2;P11274 P11274-2 BCR Breakpoint cluster region protein 1 0 VS(0.859)PS(0.135)PT(0.006)TYR 107.55 0.0070286 7298300 1684.1 1892.9 1458.3 1572.1 1878.6 2256.2 1868.6 1407.5 1687.4 1592.9 TRUE FALSE FALSE 1861.241365 1954.231202 1657.02953 1602.530269 1734.662074 2063.959067 1658.34021 1371.498188 1675.657246 1661.577714 1.120165099 1.176129882 0.997262731 0.964463025 1.043984918 1.242168241 0.998051548 0.825419224 1.008473592 1 10.69833806 VS(ph)PSTSYT(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 VSPSTSYTPSR 11 0 Q9BTE3;Q9BTE3-2 Q9BTE3 MCMBP Mini-chromosome maintenance complex-binding protein 2 0 VS(0.998)PS(0.005)T(0.017)S(0.012)YT(0.933)PS(0.035)R 100.73 0.0061149 0 1508.3 1482.1 1243.5 1397.8 1941.3 1891.4 1742.1 1765.7 1587.5 1373.6 TRUE FALSE FALSE 1666.949914 1530.121012 1412.957704 1424.85644 1792.558013 1730.242079 1546.074323 1720.535951 1576.452458 1432.822618 1.163402848 1.067906797 0.986135818 0.99444022 1.251067641 1.207575912 1.079040981 1.20080178 1.100242583 1 10.4846443 -13.52287875 0.274435221 0.109957883 1.134117403 0.051933649 0.089184614 57.66666047 0.776111743 28.19095967 0.044595897 3.00E-14 13.52287875 1.02415952 VS(ph)PSTSYTPSR ddPTM_HeLa_SAHA_4h_R1 4 VSPSTSYTPSR 11 0 Q9BTE3;Q9BTE3-2 Q9BTE3 MCMBP Mini-chromosome maintenance complex-binding protein 1 0 VS(0.983)PS(0.005)T(0.002)S(0.002)YT(0.008)PSR;VS(0.971)PS(0.029)TSYTPSR;VS(0.97)PS(0.029)TSYTPSR;VS(0.537)PS(0.364)T(0.048)S(0.048)YT(0.003)PSR ;;; 114.76 0.0029978 184292100 2915.58 3039.34 3009.65 3085.3 3616.85 3013.23 3526.45 3096.45 2914.35 3205.09 TRUE FALSE FALSE 3222.254082 3137.81661 3419.789428 3145.020443 3339.727734 2756.485852 3129.644565 3017.247293 2894.068801 3343.277115 0.963801076 0.938545176 1.022885424 0.940699898 0.998938353 0.824486202 0.936100855 0.902481963 0.865638325 1 11.70704723 -5.283474716 24.99137015 0.979879933 0.892530782 0.258768307 0.050791998 397.452297 450769.8691 0.004846056 0.01084341 5.21E-06 5.283474716 -0.087349151 VS(ph)SGYVPPPVATPFSSK ddPTM_HeLa_SAHA_4h_R1 2 VSSGYVPPPVATPFSSK 17 0 Q15942;Q15942-2;H7C3R3 Q15942 ZYX Zyxin 1 0 VS(0.863)S(0.136)GY(0.001)VPPPVATPFSSK;VS(0.69)S(0.31)GYVPPPVATPFSSK ; 110.12 0.0014579 13224000 1534.94 1602.31 1383.84 1384.14 1951.25 1657.8 1450.94 1721.47 1554.97 1131.04 TRUE FALSE FALSE 1696.392032 1654.225895 1572.422508 1410.932031 1801.745647 1516.546113 1287.676413 1677.43729 1544.148837 1179.80467 1.437858381 1.402118451 1.332782069 1.195903074 1.527155887 1.285421352 1.091431866 1.421792381 1.308817364 1 10.20433231 -9.384239324 1.081563519 0.997912148 1.338596134 0.060326235 0.150663257 0.326594652 0.676866196 0.084936064 0.021279971 4.13E-10 9.384239324 0.340683986 VS(ph)SPLPSPSAMTDAANSQAAAK ddPTM_HeLa_SAHA_4h_R1 2 VSSPLPSPSAMTDAANSQAAAK 22 0 A0A0U1RRM1;Q8WXI9;A0A0U1RR30 A0A0U1RRM1 GATAD2B Transcriptional repressor p66-beta 1 0 VS(0.549)S(0.444)PLPS(0.007)PSAMTDAANSQAAAK;VS(0.495)S(0.495)PLPS(0.006)PS(0.003)AMTDAANSQAAAK ; 96.128 0.00018852 5937400 1851.23 2215.26 2251.91 1993.15 2275.7 2166.85 2007.44 1940.41 2226.18 2620.5 TRUE FALSE FALSE 2045.950865 2287.035877 2558.788567 2031.7303 2101.336358 1982.22219 1781.557568 1890.777122 2210.687832 2733.482579 0.748477741 0.836674759 0.936091046 0.743275379 0.768739619 0.725163645 0.651753767 0.691709959 0.808744072 1 11.41652447 -13.52287875 0.127191723 1.815492454 0.638104837 0.343339277 0.08315318 39.67118268 0.359727757 8.322639541 0.283757883 3.00E-14 13.52287875 -1.177387617 VS(ph)SPTVNTTLR ddPTM_HeLa_SAHA_4h_R1 1 VSSPTVNTTLR 11 0 Q9NSK0-5;Q9NSK0;Q9NSK0-3 Q9NSK0-5 KLC4 Kinesin light chain 4 1 0 VS(0.603)S(0.376)PT(0.021)VNTTLR 109.39 0.004316 17192000 1739.6 2040.1 1912.8 1751.4 2041.1 2385.6 1950.8 2158.9 1735.6 1728.3 TRUE FALSE FALSE 1922.57911 2106.200579 2173.466423 1785.30088 1884.711359 2182.333459 1731.29085 2103.678464 1723.521818 1802.815471 1.066431446 1.16828406 1.205595613 0.990284867 1.045426661 1.210514051 0.960326155 1.166885074 0.956016767 1 10.81603602 -8.204949641 1.162088262 1.013082433 1.100397308 0.235665492 0.084574085 0.527295048 1.470283357 0.021999437 0.01628541 6.24E-09 8.204949641 0.087314875 VSAEAEVAPVS(ph)PEVTQEVVEEHCAS(ph)PEDK ddPTM_HeLa_SAHA_4h_R1 6 VSAEAEVAPVSPEVTQEVVEEHCASPEDK 29 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 VSAEAEVAPVS(0.841)PEVT(0.162)QEVVEEHCAS(0.997)PEDK;VSAEAEVAPVS(0.949)PEVT(0.087)QEVVEEHCAS(0.963)PEDK;VSAEAEVAPVS(0.956)PEVT(0.061)QEVVEEHCAS(0.983)PEDK;VSAEAEVAPVS(0.98)PEVT(0.023)QEVVEEHCAS(0.998)PEDK;VSAEAEVAPVS(0.998)PEVT(0.078)QEVVEEHCAS(0.924)PEDK;VSAEAEVAPVS(0.846)PEVT(0.154)QEVVEEHCAS(1)PEDK ;;;;; 122.48 5.14E-11 123509700 5781.97 8320.41 5917 7719.28 8520.04 9162.4 7422.45 7441.64 11865.5 7569.24 TRUE FALSE FALSE 6390.144133 8589.996743 6723.337946 7868.697827 7867.236376 8381.711974 6587.256391 7251.293624 11782.92702 7895.586979 0.809331105 1.087949099 0.85153111 0.996594407 0.99640931 1.061569203 0.834295969 0.918398296 1.492343388 1 12.94683081 -7.281552963 24.9945791 0.90996192 0.960793949 0 0.203964044 2049.249329 2546536.861 0.017132454 0.019604188 5.23E-08 7.281552963 0.050832029 VSAEAEVAPVS(ph)PEVTQEVVEEHCASPEDK ddPTM_HeLa_SAHA_4h_R1 3 VSAEAEVAPVSPEVTQEVVEEHCASPEDK 29 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 VSAEAEVAPVS(0.884)PEVT(0.116)QEVVEEHCASPEDK;VSAEAEVAPVS(0.9)PEVT(0.1)QEVVEEHCASPEDK;VSAEAEVAPVS(0.99)PEVT(0.01)QEVVEEHCASPEDK ;; 138.84 6.42E-14 290820000 10104.2 11906.6 8856.9 11726.6 12395.3 13856.6 13033.4 11822.4 13797.5 11510.2 TRUE FALSE FALSE 11167.00612 12292.38165 10063.87221 11953.5853 11445.57479 12675.93972 11566.84753 11520.00013 13701.48207 12006.46105 0.930083067 1.023813895 0.83820471 0.995596059 0.953284631 1.055759867 0.963385254 0.959483405 1.14117574 1 13.55152335 VSAEAEVAPVSPEVTQEVVEEHCAS(ph)PEDK ddPTM_HeLa_SAHA_4h_R1 2 VSAEAEVAPVSPEVTQEVVEEHCASPEDK 29 0 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 1 0 VSAEAEVAPVS(0.048)PEVT(0.129)QEVVEEHCAS(0.822)PEDK;VSAEAEVAPVSPEVT(0.008)QEVVEEHCAS(0.992)PEDK ; 114.21 9.05E-10 49000900 2217.62 2742.42 2178.29 2861.55 3029.87 3342.16 2670.46 2247.62 4042.87 2702.26 TRUE FALSE FALSE 2450.879446 2831.276207 2475.136017 2916.939438 2797.722015 3057.389166 2369.972813 2190.129135 4014.735339 2818.767653 0.869486154 1.004437597 0.878091536 1.03482791 0.992533745 1.084654552 0.840783315 0.77698108 1.424287431 1 11.46084885 -4.538505724 24.51046419 0.956374422 0.792931593 0.113958039 0.161556889 112.7861626 176902.0676 0.010136596 0.037955238 2.89E-05 4.538505724 -0.163442829 VSAGEPGSHPS(ph)PAPR ddPTM_HeLa_SAHA_4h_R1 3 VSAGEPGSHPSPAPR 15 0 A0A1B0GV68;C9JME2;Q9Y4F1;Q9Y4F1-2 A0A1B0GV68 FARP1 "FERM, RhoGEF and pleckstrin domain-containing protein 1" 1 0 VSAGEPGSHPS(1)PAPR;VSAGEPGS(0.101)HPS(0.899)PAPR;VSAGEPGS(0.001)HPS(0.999)PAPR ;; 212.43 1.37E-17 26933000 1271.26 2883.11 1759.85 1301.45 2507.27 2159.23 2696.75 2139.18 1466.33 1957.18 TRUE FALSE FALSE 1404.97696 2976.524656 1999.673193 1326.641447 2315.163514 1975.251457 2393.304593 2084.462873 1456.12569 2041.563608 0.688186718 1.457963222 0.97948121 0.649816367 1.134014882 0.967518939 1.172289995 1.021012946 0.713240422 1 10.9954588 -5.460609001 0.520617229 0.88433782 1.125143071 0.061364397 0.228589504 3.23631553 1.203381352 0.056213065 0.384190748 3.46E-06 5.460609001 0.240805251 VSAS(ph)SPSLAVASQSDSK ddPTM_HeLa_SAHA_4h_R1 3 VSASSPSLAVASQSDSK 17 0 D6RDA9;Q3MSN4;A0A494C0P1;P04150-7;P04150-5;P04150-2;P04150-6;P04150-10;P04150;P04150-3;P04150-9;P04150-8 D6RDA9 NR3C1 Glucocorticoid receptor 1 0 VS(0.002)AS(0.497)S(0.497)PS(0.004)LAVASQSDSK;VSAS(0.496)S(0.496)PS(0.003)LAVAS(0.004)QSDSK;VS(0.006)AS(0.495)S(0.495)PS(0.004)LAVASQSDSK ;; 262.82 1.29E-47 36770200 5621 5595.2 5308.5 4784.7 5891.4 6601.1 5756.5 5976.1 5372.3 5789 TRUE FALSE FALSE 6212.24257 5776.488151 6031.914735 4877.314787 5440.002205 6038.649143 5108.76347 5823.240015 5334.913727 6038.592121 1.028756777 0.956595186 0.998894215 0.807690715 0.900872603 1.000009443 0.846018967 0.964337365 0.883469792 1 12.55999651 -6.480811621 23.8466662 1.008164224 0.905513604 0.123719721 0.066497324 184.6122753 104651.3249 0.007861705 0.012008058 3.31E-07 6.480811621 -0.10265062 VSAS(ph)SPTTK ddPTM_HeLa_SAHA_4h_R1 2 VSASSPTTK 9 0 Q5JWZ0;Q5JXL1;Q9BVI0 Q5JWZ0 PHF20 PHD finger protein 20 1 0 VSAS(0.632)S(0.366)PT(0.001)T(0.001)K;VSAS(0.665)S(0.334)PT(0.001)TK ; 166.66 5.07E-05 25338000 6111 7363.6 4095.4 6941.1 8190.7 11493.1 7810.4 6873.6 10770.1 9715.5 TRUE FALSE FALSE 6753.783018 7602.185471 4653.499784 7075.455027 7563.130336 10513.82322 6931.553236 6697.783265 10695.15 10134.38275 0.66642273 0.750137986 0.459179399 0.698163391 0.74628426 1.037440906 0.683964027 0.660897011 1.055333143 1 13.3069706 -9.266877094 0.945708265 1.003679775 0.714081172 0.456069759 0.135644074 0.500436914 0.786865112 0.10017003 0.025924195 5.41E-10 9.266877094 -0.289598602 VSASS(ph)PSLAVASQSDSK ddPTM_HeLa_SAHA_4h_R1 1 VSASSPSLAVASQSDSK 17 0 D6RDA9;Q3MSN4;A0A494C0P1;P04150-7;P04150-5;P04150-2;P04150-6;P04150-10;P04150;P04150-3;P04150-9;P04150-8 D6RDA9 NR3C1 Glucocorticoid receptor 1 0 VSAS(0.003)S(0.997)PS(0.001)LAVASQSDSK 236.31 1.83E-28 6573400 1080.6 1249.5 738.13 1074.8 1053.8 1393.1 918.46 850.87 1096.4 839.74 TRUE FALSE FALSE 1194.262466 1289.98462 838.7185124 1095.604308 973.0580717 1274.400043 815.1124635 829.1059774 1088.770063 875.945301 1.36339845 1.472677139 0.957501012 1.25076795 1.11086625 1.454885415 0.930551785 0.946527114 1.242965813 1 9.774696972 -4.693326809 24.999955 1.197734312 0.93853501 0.315302727 0.16688562 58.78739274 21575.55868 0.025975556 0.097191619 2.03E-05 4.693326809 -0.259199302 VSAVPTNMAAK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 VSAVPTNMAAKK 12 1 Q96KR1 Q96KR1 ZFR Zinc finger RNA-binding protein 0 1 VSAVPTNMAAK(1)K 148.28 2.89E-05 1196600 751.33 894.61 745.18 907.02 1105.9 693.97 1070.6 908.97 251.02 550.04 FALSE TRUE FALSE 830.3583366 923.595951 846.7292497 924.5766837 1021.166181 634.8398518 950.1332703 885.7198636 249.2731314 573.7549162 1.447235245 1.609739498 1.475768182 1.611448822 1.779795087 1.106465206 1.65599151 1.543725097 0.434459251 1 9.1642908 -8.794262517 0.616854503 0.979101051 1.543523928 0.579768836 0.250588775 0.43708112 0.307507564 0.126180097 0.039120754 1.61E-09 8.794262517 0.564422876 VSCHDS(ph)DDDIMR ddPTM_HeLa_SAHA_4h_R1 1 VSCHDSDDDIMR 12 0 Q76FK4-2;Q76FK4-4;Q76FK4;F5GWN9;F8WE42;F5H101 Q76FK4-2 NOL8 Nucleolar protein 8 1 0 VSCHDS(1)DDDIMR 155.39 0.00023844 3781500 377.47 596.29 336.63 595.14 708.21 1126.4 568.54 788.48 686.03 649.61 TRUE FALSE FALSE 417.1740265 615.6101872 382.5041833 606.6597953 653.9471028 1030.424383 504.5663829 768.3118233 681.2558614 677.6178662 0.615647915 0.908491671 0.564483616 0.895283058 0.965067681 1.520657046 0.744617886 1.133842334 1.005368801 1 9.404328103 -5.690550349 3.396252322 0.803958694 1.110841576 0.257839248 0.22305802 0.244159511 5.640361487 0.033507211 0.069437249 2.04E-06 5.690550349 0.306882881 VSDEVGFGLEHVS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 VSDEVGFGLEHVSR 14 0 Q6VY07-2;Q6VY07 Q6VY07-2 PACS1 Phosphofurin acidic cluster sorting protein 1 1 0 VSDEVGFGLEHVS(1)R;VSDEVGFGLEHVS(1)R ; 95.814 0.0050904 6233600 2818.9 4086.3 3143.2 5756.5 7318.3 5708.6 5681.9 5772.7 5420.1 3620.6 TRUE FALSE FALSE 3115.404836 4218.698801 3571.538927 5867.925382 6757.573435 5222.195164 5042.557658 5625.042693 5382.381083 3776.701785 0.824900936 1.117032544 0.945676712 1.553716898 1.789279064 1.382739613 1.335174961 1.489406104 1.425153848 1 11.88291116 -6.264882918 24.39939479 0.935304012 1.508785768 0.501874647 0.204097856 71.06618839 503544.2147 0.022315449 0.034959144 5.43E-07 6.264882918 0.573481757 VSDQNS(ph)PVLPK ddPTM_HeLa_SAHA_4h_R1 3 VSDQNSPVLPK 11 0 Q9UPU5 Q9UPU5 USP24 Ubiquitin carboxyl-terminal hydrolase 24 1 0 VS(0.002)DQNS(0.998)PVLPK;VSDQNS(1)PVLPK;VS(0.494)DQNS(0.506)PVLPK ;; 143.56 0.00076899 354236000 18409.4 17500.1 16057.8 18569.3 20422.3 18816.9 19779.4 20647.5 20543.2 17966.4 TRUE FALSE FALSE 20345.78516 18067.11472 18246.07336 18928.73565 18857.54779 17213.59426 17553.76986 20119.36685 20400.2382 18741.01943 1.085628518 0.964041193 0.973590227 1.010016329 1.006217824 0.918498288 0.93664968 1.073547089 1.088534072 1 14.19391181 -7.242955668 24.54653116 1.040435691 0.9804867 0.326110764 0.047188434 695.3667049 923454.0124 0.008272423 0.010119809 5.72E-08 7.242955668 -0.059948991 VSDQNS(ph)PVLPKK ddPTM_HeLa_SAHA_4h_R1 2 VSDQNSPVLPKK 12 1 Q9UPU5 Q9UPU5 USP24 Ubiquitin carboxyl-terminal hydrolase 24 1 0 VS(0.024)DQNS(0.976)PVLPKK;VS(0.007)DQNS(0.993)PVLPKK ; 77.746 0.012421 40838000 10949.2 7432.9 10313.7 10169.7 10370.1 8288.9 10227.6 11207.2 6527.8 9173.3 TRUE FALSE FALSE 12100.88709 7673.730837 11719.19732 10366.54925 9575.545178 7582.639088 9076.76353 10920.53605 6482.372508 9568.805856 1.26461831 0.80195282 1.224729345 1.083369169 1.000704301 0.792433163 0.948578503 1.141264251 0.67744843 1 13.22412318 -5.706040157 3.884542027 1.107115974 0.951592695 0 0.197490516 0.30476599 9.360967088 0.022870166 0.046527307 1.97E-06 5.706040157 -0.155523279 VSDS(ph)LTDLALK ddPTM_HeLa_SAHA_4h_R1 1 VSDSLTDLALK 11 0 Q8N3C0 Q8N3C0 ASCC3 Activating signal cointegrator 1 complex subunit 3 1 0 VS(0.029)DS(0.502)LT(0.469)DLALK 120.87 0.0021138 3258200 755.81 846.06 627.06 742.79 971.01 818.69 936.58 1038.1 940.23 913.99 TRUE FALSE FALSE 835.3095636 873.4728991 712.5124712 757.1677745 896.6114236 748.9330062 831.1935535 1011.546905 933.6868629 953.3965819 0.876140716 0.916169531 0.747341122 0.794179242 0.9404391 0.785541946 0.871823509 1.060992796 0.979326841 1 9.896932643 -8.927823662 0.74510437 1.000822493 0.86699351 0.224522413 0.084921389 0.750533481 0.765406553 0.056678995 0.017751207 1.18E-09 8.927823662 -0.133828984 VSDS(ph)PSHIATK ddPTM_HeLa_SAHA_4h_R1 1 VSDSPSHIATK 11 0 Q9P2D3 Q9P2D3 HEATR5B HEAT repeat-containing protein 5B 1 0 VS(0.011)DS(0.603)PS(0.385)HIATK 116.71 0.00058021 0 589.63 752.35 553.61 807.25 971.37 1094.3 1004.4 1019.2 883.37 749.84 TRUE FALSE FALSE 651.6499887 776.7266336 629.0530877 822.8754911 896.9438405 1001.059484 891.3822686 993.1303398 877.2225562 782.169272 0.833131666 0.993041611 0.804241627 1.052042723 1.146738785 1.27985018 1.139628339 1.269712804 1.121525209 1 9.61133705 -5.85844243 2.491357505 0.917811032 1.217271278 0.611585674 0.095505079 0.104859444 1.323209137 0.012078861 0.024284283 1.39E-06 5.85844243 0.299460246 VSEDEEKLPAS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 VSEDEEKLPASPK 13 1 Q7RTP6;J3QR21;J3QLA3 Q7RTP6 MICAL3 Protein-methionine sulfoxide oxidase MICAL3 1 0 VSEDEEKLPAS(1)PK;VSEDEEKLPAS(1)PK ; 69.805 0.019195 23725000 6608.1 6908 5616.9 7598.5 8196.8 8633.3 8241.2 6953.5 7437.7 6994.9 TRUE FALSE FALSE 7303.170277 7131.823733 6382.34188 7745.579955 7568.762955 7897.69427 7313.878486 6775.639539 7385.94044 7296.484371 1.000916319 0.97743288 0.874714665 1.061549585 1.037316407 1.082397202 1.002383904 0.928617015 1.01226016 1 12.83298579 VSEEAESQQQWDTSKGEQVSQNGLPAEQGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 VSEEAESQQQWDTSKGEQVSQNGLPAEQGSPR 32 1 A0A087WUZ3;Q01082;Q01082-2;Q01082-3 A0A087WUZ3;Q01082-3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 1 0 VSEEAESQQQWDTSKGEQVSQNGLPAEQGS(1)PR 140.93 5.89E-15 14606000 893.24 819.07 829.59 1190.6 1206.5 992.36 1161.4 1344 953.97 1136.5 TRUE FALSE FALSE 987.1950815 845.6084054 942.6422049 1213.645785 1114.058231 907.8053451 1030.716215 1309.622426 947.3312451 1185.500077 0.832724604 0.713292577 0.795143099 1.023741633 0.939736954 0.765757306 0.869435806 1.104700414 0.799098426 1 10.21128004 -4.257481017 23.89714148 0.892467274 1.104700567 0.304295582 0.100736801 239.2736702 1444410.984 0.015389751 0.154052138 5.53E-05 4.257481017 0.212233293 VSEEIEDIIK ddPTM_HeLa_SAHA_4h_R1 2 VSEEIEDIIK 10 0 M0QZK8;O75223-3;O75223 M0QZK8 GGCT Gamma-glutamylcyclotransferase 0 0 ; ; 129.85 0.0099956 7573900 2602.76 2357.72 2449.83 2739.63 2704.1 2903.06 2625.1 2980.8 2938.2 2741.73 FALSE FALSE TRUE 2876.530239 2434.111675 2783.680074 2792.6595 2496.912442 2655.702956 2329.716839 2904.555452 2917.752827 2859.939398 1.005801116 0.851106033 0.973335336 0.976475062 0.873064808 0.928587143 0.814603568 1.015600349 1.020214914 1 11.48176886 -7.296138668 24.37784299 1.002739429 0.917860875 0.332938849 0.057989945 361.2436519 253789.2323 0.009067748 0.010369681 5.06E-08 7.296138668 -0.084878554 VSEEQTQPPS(ph)PAGAGMSTAMGR ddPTM_HeLa_SAHA_4h_R1 17 VSEEQTQPPSPAGAGMSTAMGR 22 0 H3BM18;X6RHM1;Q16666-3;Q16666-2;Q16666 H3BM18 IFI16 Gamma-interferon-inducible protein 16 1 0 VSEEQTQPPS(0.427)PAGAGMS(0.146)T(0.427)AMGR;VSEEQT(0.006)QPPS(0.988)PAGAGMS(0.003)T(0.003)AMGR;VSEEQT(0.039)QPPS(0.493)PAGAGMS(0.355)T(0.113)AMGR;VSEEQT(0.001)QPPS(0.999)PAGAGMSTAMGR;VSEEQTQPPS(0.93)PAGAGMS(0.035)T(0.035)AMGR;VSEEQT(0.01)QPPS(0.716)PAGAGMS(0.137)T(0.137)AMGR;VSEEQT(0.004)QPPS(0.979)PAGAGMS(0.017)TAMGR;VSEEQT(0.002)QPPS(0.976)PAGAGMS(0.012)T(0.01)AMGR;VSEEQTQPPS(0.981)PAGAGMS(0.018)TAMGR;VSEEQTQPPS(0.397)PAGAGMS(0.235)T(0.368)AMGR;VSEEQTQPPS(0.998)PAGAGMS(0.002)TAMGR;VSEEQT(0.001)QPPS(0.988)PAGAGMS(0.006)T(0.005)AMGR;VSEEQTQPPS(1)PAGAGMSTAMGR;VSEEQTQPPS(1)PAGAGMSTAMGR;VSEEQTQPPS(1)PAGAGMSTAMGR;VSEEQTQPPS(1)PAGAGMSTAMGR;VSEEQT(0.001)QPPS(0.999)PAGAGMSTAMGR ;;;;;;;;;;;;;;;; 279.97 2.26E-83 379365100 36120.27 27056.22 21220.76 30416.72 32759.81 38156.41 36581.38 41914.97 28761.3 28594 TRUE FALSE FALSE 39919.56572 27932.85928 24112.61466 31005.4796 30249.76044 34905.26921 32465.14685 40842.84576 28561.14777 29826.82728 1.338377876 0.936501191 0.808420367 1.039516517 1.014179623 1.170264235 1.088454583 1.36933256 0.957565735 1 14.8643229 -9.701018176 0.003797709 0.000286401 2.211415845 0 0.170413477 329177.3483 260.3780759 77354.83053 74264.13888 1.99E-10 9.701018176 2.211129444 VSEFNVSS(ph)EGSGEK ddPTM_HeLa_SAHA_4h_R1 1 VSEFNVSSEGSGEK 14 0 Q9BVJ6-3;Q9BVJ6 Q9BVJ6-3 UTP14A U3 small nucleolar RNA-associated protein 14 homolog A 1 0 VSEFNVS(0.377)S(0.62)EGS(0.003)GEK 119.56 0.00094828 3018000 392.87 641.71 483.9 499.61 556.01 628.59 569.12 634.82 745.49 484.1 TRUE FALSE FALSE 434.1938692 662.501825 549.843372 509.280674 513.4086339 575.0305956 505.0811198 618.5822236 740.3020744 504.9719201 0.85983765 1.311957752 1.088859301 1.00853266 1.016707293 1.138737765 1.000216249 1.224983408 1.466026218 1 8.980059356 -7.301689494 24.99985015 0.933812222 1.100886187 0 0.195034172 401.8624322 249600.9347 0.017471823 0.019979939 4.99E-08 7.301689494 0.167073965 VSEMPAAK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 VSEMPAAKR 9 1 P35269;M0QXD6 P35269 GTF2F1 General transcription factor IIF subunit 1 0 1 VSEMPAAK(1)R 77.677 0.0092077 0 716.31 674.67 924.67 815.09 798.45 703.51 1107.2 670.2 438.2 564.9 FALSE TRUE FALSE 791.6547723 696.5297507 1050.679212 830.8672456 737.2729335 643.5669902 982.614942 653.0572544 435.1505305 589.2556036 1.343482807 1.182050279 1.783061893 1.410028586 1.251193759 1.092169487 1.667552987 1.108275001 0.738474998 1 9.202749763 -8.974220452 0.689930995 0.986916176 1.367896619 0.383611943 0.231045341 0.767214126 0.644269439 0.162602071 0.045131068 1.06E-09 8.974220452 0.380980442 VSEQGLIEILK ddPTM_HeLa_SAHA_4h_R1 1 VSEQGLIEILK 11 0 O14737;K7EQA1 O14737 PDCD5 Programmed cell death protein 5 0 0 99.215 0.01945 204090 0 0 0 134.2 145.1 54.883 140.27 116.36 173.34 112.61 FALSE FALSE TRUE 0 0 0 136.7976351 133.9824693 50.20665964 124.4864504 113.3836797 172.1337128 117.4651682 0 0 0 1.164580421 1.14061446 0.427417424 1.059773313 0.965253627 1.465402174 1 6.876089209 -6.246193743 24.58156469 0.43181817 0.938929047 0.179074933 0.481566565 809.9793939 1305983.608 0.072392552 0.119737687 5.67E-07 6.246193743 0.507110877 VSFELFADK(ac)VPK ddPTM_HeLa_SAHA_4h_R1 1 VSFELFADKVPK 12 1 P62937;F8WE65;C9J5S7 P62937 PPIA "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed;Peptidyl-prolyl cis-trans isomerase" 0 1 VSFELFADK(1)VPK 130.56 0.00061857 934040 158.69 410.82 215.74 338.52 415.84 355.9 593.12 146.35 199.5 124.83 FALSE TRUE FALSE 175.3817423 424.1308375 245.1399237 345.0725441 383.978429 325.5753178 526.3805766 142.6065789 198.1116633 130.2120322 1.346893519 3.257232303 1.882621134 2.650081857 2.948870565 2.500347412 4.042487992 1.095187415 1.521454353 1 7.024718956 -7.368633955 5.60551443 1.152143321 2.657424487 0.398047148 0.748596125 0.133795025 5.895670404 0.115421237 0.13140513 4.28E-08 7.368633955 1.505281166 VSFELFADKVPK ddPTM_HeLa_SAHA_4h_R1 2 VSFELFADKVPK 12 1 P62937;F8WE65;C9J5S7 P62937 PPIA "Peptidyl-prolyl cis-trans isomerase A;Peptidyl-prolyl cis-trans isomerase A, N-terminally processed;Peptidyl-prolyl cis-trans isomerase" 0 0 ; ; 120.55 0.0012328 126230000 5268.5 5466.9 6750.3 6980.5 6385.9 5884 7981.3 3981 5675.4 5684.3 FALSE FALSE TRUE 5822.665003 5644.031147 7670.19573 7115.617671 5896.613722 5382.650098 7083.223118 3879.171784 5635.904429 5929.377991 0.982002667 0.951875754 1.293591966 1.200061403 0.994474248 0.907793382 1.194598005 0.654229127 0.950505169 1 12.53366505 -4.244096365 24.12397149 1.027517148 0.654228631 0.464176345 0.12585317 1619.789295 2253054.832 0.017393756 0.661033521 5.70E-05 4.244096365 -0.373288517 VSFPSYLAS(ph)PAGSR ddPTM_HeLa_SAHA_4h_R1 1 VSFPSYLASPAGSR 14 0 Q96PE2 Q96PE2 ARHGEF17 Rho guanine nucleotide exchange factor 17 1 0 VSFPS(0.001)YLAS(0.916)PAGS(0.082)R 92.939 0.0076434 2832900 625.51 546.81 612.75 490.83 484.48 635.45 626.14 564.7 481.26 523.5 TRUE FALSE FALSE 691.3040117 564.5270028 696.2523789 500.3307244 447.3592471 581.3060851 555.6850793 550.2557917 477.9108725 546.0706469 1.265960761 1.033798476 1.275022532 0.916238086 0.81923328 1.06452542 1.017606572 1.007664109 0.875181399 1 9.092943799 -6.238523519 24.9038489 1.130626262 0.965398197 0.15403894 0.129990722 751.1834206 816350.1706 0.018780988 0.031130943 5.77E-07 6.238523519 -0.165228064 VSGAGFS(ph)PSSK ddPTM_HeLa_SAHA_4h_R1 3 VSGAGFSPSSK 11 0 Q9C0C2;Q9C0C2-2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 VSGAGFS(0.976)PS(0.024)SK;VSGAGFS(0.931)PS(0.058)S(0.011)K;VSGAGFS(0.965)PS(0.035)SK ;; 190.78 7.50E-07 138646000 10786.1 10657 9856.3 10844.9 11490.5 11426.1 11703.5 10657.8 11433.6 10173.6 TRUE FALSE FALSE 11920.63149 11002.29379 11199.46523 11054.81872 10610.10037 10452.532 10386.59138 10385.18891 11354.03265 10612.23368 1.123291462 1.036755703 1.055335339 1.041705173 0.999798976 0.984951171 0.978737529 0.978605373 1.069900361 1 13.37344073 -5.728327052 1.745264653 1.057829231 0.979319045 0.590903447 0.028700462 0.297831233 1.837307939 0.007032912 0.016624531 1.87E-06 5.728327052 -0.078510185 VSGEEELHTGPPAPQGPLSVPQGLPTQSLAS(ph)PPAR ddPTM_HeLa_SAHA_4h_R1 1 VSGEEELHTGPPAPQGPLSVPQGLPTQSLASPPAR 35 0 Q9UPN7 Q9UPN7 PPP6R1 Serine/threonine-protein phosphatase 6 regulatory subunit 1 1 0 VSGEEELHTGPPAPQGPLSVPQGLPT(0.063)QS(0.063)LAS(0.874)PPAR 73.288 1.82E-05 9920600 671.07 552.5 537.21 602.52 653.44 745.95 790.17 603.36 695.64 664.94 TRUE FALSE FALSE 741.6562216 570.4013625 610.4181811 614.1826459 603.3735684 682.3908634 701.257992 587.9269249 690.7989846 693.6088175 1.069271617 0.822367519 0.880061161 0.885488521 0.869904697 0.983826685 1.011028081 0.847634733 0.995948966 1 9.437978429 -7.27467229 24.83347531 1.032711598 0.905047819 0.476564737 0.057939919 441.1619745 827902.6753 0.010472025 0.012013882 5.31E-08 7.27467229 -0.127663779 VSGGLEVLAEK ddPTM_HeLa_SAHA_4h_R1 1 VSGGLEVLAEK 11 0 P39687;H0YN26;O43423 P39687 ANP32A;ANP32C Acidic leucine-rich nuclear phosphoprotein 32 family member A;Acidic leucine-rich nuclear phosphoprotein 32 family member C 0 0 120.06 0.0055162 1814400 350.68 471.96 558.39 437.04 467.26 520.23 598.85 456 663.4 576.68 FALSE FALSE TRUE 387.5661314 487.2518137 634.4844812 445.4995412 431.4586397 475.9034773 531.4658219 444.3361803 658.7833454 601.543497 0.644286129 0.810002628 1.054760769 0.740594061 0.717252604 0.791137265 0.883503561 0.738660101 1.095154962 1 9.232525251 -9.612075327 1.4306267 0.999521355 0.781691952 0.424099978 0.111263561 0.395271345 1.457420991 0.081485344 0.01891257 2.44E-10 9.612075327 -0.217829404 VSGS(ph)PEQAVEENLSSYSLDR ddPTM_HeLa_SAHA_4h_R1 1 VSGSPEQAVEENLSSYSLDR 20 0 A0A494BZT8;Q9Y6A5;E7EMT0;C9JA91 A0A494BZT8 TACC3 Transforming acidic coiled-coil-containing protein 3 1 0 VS(0.01)GS(0.989)PEQAVEENLSSYSLDR 171.39 3.17E-09 3355500 175.77 448.34 335.57 254.4 369.68 555.96 467.05 393.59 653.67 391.13 TRUE FALSE FALSE 194.2582951 462.8665102 381.299732 259.3242799 341.3551983 508.5890803 414.4963048 383.5225377 649.1210572 407.9935284 0.476130824 1.134494736 0.934572991 0.635608807 0.836668169 1.246561636 1.01593843 0.94002113 1.591008219 1 8.672402458 -5.437189 7.726466172 0.784564486 1.06094369 0 0.317835247 0.352437329 28.42846878 0.034195163 0.076629445 3.65E-06 5.437189 0.276379205 VSGS(ph)PEQAVEENLSSYSLDRR ddPTM_HeLa_SAHA_4h_R1 1 VSGSPEQAVEENLSSYSLDRR 21 1 A0A494BZT8;Q9Y6A5;E7EMT0;C9JA91 A0A494BZT8 TACC3 Transforming acidic coiled-coil-containing protein 3 1 0 VS(0.263)GS(0.726)PEQAVEENLS(0.002)S(0.001)Y(0.004)S(0.004)LDRR 55.177 0.012097 10932000 882.39 853.57 860.43 706.28 1007.1 1324.1 1151.7 872.02 1095.9 825.48 TRUE FALSE FALSE 975.2038288 881.226228 977.6849195 719.9510707 929.9362156 1211.279231 1022.107685 849.7149911 1088.273543 861.0704826 1.132548204 1.023407777 1.135429607 0.83611166 1.079976883 1.40671322 1.187019768 0.986812355 1.263861164 1 9.749987523 -13.52287875 0.097408018 0.675140675 1.191010796 0 0.158634417 281.3425737 2.053465997 19.45612509 1.378420541 3.00E-14 13.52287875 0.515870121 VSGTLDT(ph)PEKTVDSQGPTPVCTPTFLER ddPTM_HeLa_SAHA_4h_R1 2 VSGTLDTPEKTVDSQGPTPVCTPTFLER 28 1 H7BZL0;Q9BYG3;C9J808 H7BZL0 NIFK MKI67 FHA domain-interacting nucleolar phosphoprotein 1 0 VS(0.002)GT(0.016)LDT(0.458)PEKT(0.458)VDS(0.063)QGPT(0.002)PVCTPTFLER;VS(0.004)GT(0.013)LDT(0.695)PEKT(0.2)VDS(0.065)QGPT(0.02)PVCT(0.002)PT(0.001)FLER ; 60.797 0.0038663 20510000 2936 3173.1 2614.4 2676.3 3215.6 2904.2 2855.8 2363 3348.8 2828.4 TRUE FALSE FALSE 3244.821951 3275.910522 2970.676817 2728.103656 2969.221423 2656.745821 2534.457868 2302.557882 3325.495428 2950.346166 1.099810588 1.11034785 1.006890937 0.924672395 1.006397641 0.900486137 0.859037457 0.780436516 1.127154321 1 11.52666852 -4.859662476 0.680408929 1.050416715 0.726182338 0.788089784 0.050140281 0.626425019 0.314657327 0.009693121 0.133764697 1.38E-05 4.859662476 -0.324234377 VSGTLDTPEKT(ph)VDSQGPTPVCTPTFLER ddPTM_HeLa_SAHA_4h_R1 2 VSGTLDTPEKTVDSQGPTPVCTPTFLER 28 1 H7BZL0;Q9BYG3;C9J808 H7BZL0 NIFK MKI67 FHA domain-interacting nucleolar phosphoprotein 1 0 VSGTLDT(0.06)PEKT(0.813)VDS(0.114)QGPT(0.013)PVCTPTFLER;VSGT(0.001)LDT(0.443)PEKT(0.554)VDS(0.001)QGPTPVCTPTFLER ; 96.41 1.89E-06 78978000 2020.16 2080.06 1807.7 1976.85 2140.14 2062.5 2340.26 1719.33 2307.36 1690.77 TRUE FALSE FALSE 2232.649698 2147.455309 2054.043942 2015.11479 1976.162936 1886.763397 2076.927786 1675.352028 2291.302894 1763.667369 1.26591314 1.217607893 1.164643616 1.142570774 1.120485059 1.06979549 1.177618763 0.949925172 1.299169523 1 10.78436278 -4.253078307 23.39860229 1.136328403 0.949924935 0.3133005 0.087019816 502.6448459 1406577.373 0.014107177 0.203910117 5.58E-05 4.253078307 -0.186403468 VSHLLGINVTDFTR ddPTM_HeLa_SAHA_4h_R1 2 VSHLLGINVTDFTR 14 0 P35579;P35579-2 P35579 MYH9 Myosin-9 0 0 ; ; 152 1.05E-05 6759900 2027.79 2259.87 2268.8 2780.78 2798.43 518.94 2965.38 1471.46 1983.29 2359.09 FALSE FALSE TRUE 2241.082256 2333.091271 2577.980249 2834.606018 2584.014898 474.7233925 2631.707638 1433.822184 1969.488123 2460.801915 0.910712172 0.948102022 1.047617946 1.15190337 1.050070256 0.192914102 1.069451231 0.582664608 0.800344031 1 11.26491282 VSHVLAALQAGNR ddPTM_HeLa_SAHA_4h_R1 1 VSHVLAALQAGNR 13 0 Q9Y490 Q9Y490 TLN1 Talin-1 0 0 80.014 0.015856 0 577.83 438.79 752.24 798.1 779.55 145.02 692.43 292.82 368.7 469.76 FALSE FALSE TRUE 638.6088106 453.0070839 854.7513497 813.5483796 719.8210474 132.6634801 614.515954 285.3300884 366.1341867 490.0136525 1.303246975 0.924478495 1.744341908 1.660256557 1.468981616 0.270734253 1.25407925 0.582290079 0.747191807 1 8.936678135 -5.281888462 24.99498644 1.234263426 0.75753889 0.315555719 0.374677177 776.4933577 949109.5027 0.050744836 0.11358988 5.23E-06 5.281888462 -0.476724535 VSIAVK ddPTM_HeLa_SAHA_4h_R1 1 VSIAVK 6 0 F8WDD7;H7C0A3;F8WCF6;A0A0A6YYG9;P59998;P59998-3;P59998-2 F8WDD7 ARPC4;ARPC4-TTLL3 Actin-related protein 2/3 complex subunit 4 0 0 106.76 0.020797 2149000 3840.4 3507.1 3509.1 4400.4 4521.5 4498.4 4252.4 3437.5 2908.8 3696.7 FALSE FALSE TRUE 4244.350892 3620.732341 3987.301873 4485.576105 4175.063647 4115.111013 3773.90876 3349.573727 2888.557424 3856.082828 1.100689763 0.938966434 1.034029104 1.163246825 1.082721464 1.067173916 0.978689755 0.868646727 0.749091125 1 11.91292033 -4.406396273 2.563756945 1.051505575 0.856575949 0.075955275 0.111134586 0.262108691 2.633181046 0.008825491 0.094463194 3.92E-05 4.406396273 -0.194929627 VSIGNITLS(ph)PAISR ddPTM_HeLa_SAHA_4h_R1 2 VSIGNITLSPAISR 14 0 Q0JRZ9-3;Q0JRZ9 Q0JRZ9-3 FCHO2 F-BAR domain only protein 2 1 0 VSIGNIT(0.015)LS(0.985)PAISR;VSIGNIT(0.024)LS(0.965)PAIS(0.01)R ; 115.26 0.0013728 18257700 1013.95 1247.55 1071.61 1004.74 1294.62 1364.01 1345.68 831.59 1606.67 1395.41 TRUE FALSE FALSE 1120.601913 1287.971439 1217.64343 1024.188196 1195.426495 1247.788674 1194.260545 810.3191319 1595.489053 1455.572954 0.769869975 0.884855297 0.836538922 0.703632334 0.821275562 0.857249148 0.820474536 0.556701146 1.096124415 1 10.50737143 -13.52287875 0.198309692 2.014087826 0.74155598 0.591784046 0.089845068 32.55330784 0.393533147 12.77904175 0.089127473 3.00E-14 13.52287875 -1.272531846 VSIS(ph)FENYR ddPTM_HeLa_SAHA_4h_R1 1 VSISFENYR 9 0 B4E1Q4;O14730-2;O14730 B4E1Q4 RIOK3 Serine/threonine-protein kinase RIO3 1 0 VSIS(1)FENYR 94.402 0.014577 2897100 360.59 542.61 636.42 591.65 645 813.85 802.47 783.05 521.83 485.32 TRUE FALSE FALSE 398.5185106 560.19092 723.1480033 603.1022413 595.5802393 744.5054014 712.1739636 763.0207148 518.1985425 506.2445203 0.787205579 1.106561943 1.428455962 1.191325964 1.176467528 1.470643872 1.406778612 1.507217726 1.023613139 1 8.983690577 -6.973726674 3.996596161 0.90032631 1.352597768 0.720380861 0.11970834 0.083862977 2.998197527 0.021725169 0.028313678 1.06E-07 6.973726674 0.452271458 VSISEGDDKIEYR ddPTM_HeLa_SAHA_4h_R1 2 VSISEGDDKIEYR 13 1 M0R0P1;M0R299;M0QXL5;M0R2Q4;P22087;M0R2U2;M0R1H0;M0R2B0 M0R0P1 FBL rRNA 2-O-methyltransferase fibrillarin 0 0 ; ; 118.76 0.0018307 13214500 3767 3093.1 3196.1 3454.5 3711 4363.2 3655.5 4149.1 3915.1 3330.6 FALSE FALSE TRUE 4163.230344 3193.318469 3631.647863 3521.366843 3426.663982 3991.430813 3244.173519 4042.97203 3887.8545 3474.198466 1.198328301 0.919152576 1.045319633 1.013576765 0.986317856 1.148878181 0.933790499 1.163713608 1.119065171 1 11.76246446 -7.264364412 24.99635398 1.093655028 1.029235782 0.131735668 0.087376192 496.8071525 4245537.678 0.016571219 0.019362612 5.44E-08 7.264364412 -0.064419245 VSLDVNHFAPDELTVK ddPTM_HeLa_SAHA_4h_R1 2 VSLDVNHFAPDELTVK 16 0 P04792;F8WE04 P04792 HSPB1 Heat shock protein beta-1 0 0 ; ; 175.27 2.81E-12 10942900 8913.8 10497.5 8482.3 10562.8 12175.7 11345 12354.9 8553 9640.2 11010.7 FALSE FALSE TRUE 9851.394382 10837.62589 9638.22367 10767.25827 11242.8005 10378.34217 10964.69414 8334.226645 9573.113063 11485.42516 0.857730057 0.943598146 0.839169951 0.937471458 0.97887543 0.903609751 0.95466158 0.725635014 0.833500974 1 13.48751664 -9.447539154 1.121416974 1.001334652 0.895392074 0 0.086156489 0.572954123 1.26251199 0.048366341 0.011429671 3.57E-10 9.447539154 -0.105942578 VSLEPHQGPGT(ph)PESK ddPTM_HeLa_SAHA_4h_R1 4 VSLEPHQGPGTPESK 15 0 A0A087WY61;Q14980-5;Q14980-2;Q14980;H0YFY6 A0A087WY61 NUMA1 Nuclear mitotic apparatus protein 1 1 0 VSLEPHQGPGT(0.961)PES(0.039)K;VSLEPHQGPGT(0.696)PES(0.304)K;VSLEPHQGPGT(0.989)PES(0.011)K;VSLEPHQGPGT(0.922)PES(0.078)K ;;; 239.19 4.22E-33 98284500 6861.64 8674.5 3911.84 8000.96 10778.6 13191 8089.27 8780.9 10234.1 8517.1 TRUE FALSE FALSE 7583.378778 8955.559492 4444.925183 8155.83015 9952.745997 12067.05259 7179.04405 8556.297293 10162.88006 8884.313863 0.853569437 1.008019261 0.500311589 0.918003379 1.120260512 1.358242491 0.808058356 0.963079133 1.143912768 1 13.11704465 -5.823209363 7.591700962 0.898640796 1.065115201 0.128322162 0.202185969 0.351409868 36.95097919 0.028299729 0.051625677 1.50E-06 5.823209363 0.166474405 VSLNTYT(ph)PAK ddPTM_HeLa_SAHA_4h_R1 1 VSLNTYTPAK 10 0 A0A087WWN8;A0A087WZV0;O43314-2;O43314;K7ENU7;H0Y9S9 A0A087WWN8 PPIP5K2 Inositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 1 0 VSLNT(0.11)YT(0.89)PAK 113.07 0.008251 3610200 1029 997.67 780.58 659.08 1305.9 1366.1 1176.1 1260 1005.1 1088.2 TRUE FALSE FALSE 1137.234941 1029.995163 886.9533773 671.8374464 1205.842224 1249.700595 1043.762133 1227.771024 998.1054273 1135.117628 1.001865281 0.907390686 0.781375741 0.591865927 1.062305963 1.100943694 0.919518918 1.08162449 0.879296914 1 10.14862609 VSLPSS(ph)PVPASPASSSGADQR ddPTM_HeLa_SAHA_4h_R1 1 VSLPSSPVPASPASSSGADQR 21 0 Q5T6S3-2 Q5T6S3-2 1 0 VSLPS(0.055)S(0.944)PVPAS(0.001)PASSSGADQR 201.22 4.40E-21 5473100 1292.9 1479.6 1239.2 1454 1502.5 1703.6 1593.5 1331 2023.3 1628.1 TRUE FALSE FALSE 1428.893154 1527.540011 1408.071723 1482.144273 1387.378775 1558.443696 1414.195186 1296.954947 2009.219691 1698.295359 0.841369051 0.899454858 0.829108856 0.872724679 0.816924316 0.917651743 0.832714509 0.76368044 1.183080246 1 10.72987167 -13.52286255 0.227799917 1.863129593 0.827036352 0.635450766 0.068703036 19.54167737 0.250860825 7.510735062 0.028799251 3.00E-14 13.52286255 -1.036093242 VSMPDVELNLKS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 VSMPDVELNLKSPK 14 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VSMPDVELNLKS(1)PK;VSMPDVELNLKS(1)PK ; 113.67 0.0014731 312530000 2244.9 3262.6 3085 1498.86 3085.4 3683.1 3172 1969.36 2025.3 3308.7 TRUE FALSE FALSE 2481.028882 3368.310381 3505.407734 1527.872603 2848.997319 3369.279159 2815.078212 1918.986623 2011.205772 3451.354249 0.718856629 0.975938758 1.015661529 0.442687853 0.825472297 0.976219454 0.815644529 0.556009753 0.582729453 1 11.75294685 VSNGS(ph)PSLER ddPTM_HeLa_SAHA_4h_R1 1 VSNGSPSLER 10 0 E7ES52;P46527 E7ES52 CDKN1B Cyclin-dependent kinase inhibitor 1B 1 0 VS(0.003)NGS(0.964)PS(0.033)LER 96.866 0.012863 12867000 483.88 438.4 512.33 531.02 535.41 463.38 505.06 715.66 530.04 471.95 TRUE FALSE FALSE 534.7767185 452.6044476 582.1476643 541.29866 494.3870015 423.8974171 448.2293196 697.3544535 526.3514085 492.2980742 1.086286432 0.919370746 1.182510546 1.099534384 1.004243216 0.861058451 0.910483593 1.416528908 1.069172187 1 8.943388286 -9.618472817 1.410144135 0.999838328 1.052865204 0 0.152988005 2.079431696 7.387616897 0.104286816 0.02358106 2.41E-10 9.618472817 0.053026876 VSNLQVS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 VSNLQVSPK 9 0 A0A0C4DGF9;O00443-2;O00443 A0A0C4DGF9 PIK3C2A Phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit alpha 1 0 VSNLQVS(1)PK;VSNLQVS(1)PK ; 127.56 0.0024394 40758000 8099.2 6949.5 7314.3 8391.6 8628.2 9614.8 9303.3 10876.8 7220 6680.1 TRUE FALSE FALSE 8951.111016 7174.66836 8311.054713 8554.031552 7967.10918 8795.564949 8256.468199 10598.58721 7169.755432 6968.111803 1.284582003 1.029643118 1.192726946 1.227596772 1.143367013 1.262259447 1.184893187 1.521012795 1.028938059 1 12.76655206 -13.52287874 0.192868074 2.26E-11 1.281564394 0.414926696 0.112169833 43.41029983 0.517408031 16.54735865 0.129344977 3.00E-14 13.52287874 1.281564394 VSNS(ph)PEPQK ddPTM_HeLa_SAHA_4h_R1 1 VSNSPEPQK 9 0 O60271-3;O60271;D6RHI8 O60271-3 SPAG9 C-Jun-amino-terminal kinase-interacting protein 4 1 0 VS(0.027)NS(0.973)PEPQK 88.187 0.019408 2594100 1170.7 1374.9 1010.5 1720.2 1777.7 2353.2 1879.2 1832.2 1818.5 2042 TRUE FALSE FALSE 1293.839597 1419.447662 1148.205678 1753.496958 1641.49301 2152.694121 1667.74747 1785.334977 1805.84491 2130.040613 0.607424849 0.666394647 0.53905342 0.823222312 0.770639301 1.010635247 0.782965104 0.838169454 0.847798347 1 11.05666522 VSNS(ph)PEPQKAVEQEDELSDVSQGGSK ddPTM_HeLa_SAHA_4h_R1 2 VSNSPEPQKAVEQEDELSDVSQGGSK 26 1 O60271-3;O60271;D6RHI8 O60271-3 SPAG9 C-Jun-amino-terminal kinase-interacting protein 4 1 0 VS(0.068)NS(0.832)PEPQKAVEQEDELS(0.096)DVS(0.004)QGGSK;VS(0.251)NS(0.749)PEPQKAVEQEDELSDVSQGGSK ; 94.838 8.05E-06 27189000 2885.15 2392.93 2401.1 2624.01 3011.61 2718.92 3290.4 3450.1 2034.33 2526.8 TRUE FALSE FALSE 3188.623315 2470.462502 2728.309404 2674.801508 2780.861092 2487.25272 2920.155532 3361.851438 2020.172932 2635.742714 1.209762735 0.937292737 1.035119774 1.014818895 1.05505787 0.943662941 1.107906138 1.275485433 0.766453008 1 11.36399383 -4.299337397 4.055102674 1.066375644 1.286782561 0.188179761 0.122792205 0.204812276 6.685673393 0.013774254 0.120832931 5.02E-05 4.299337397 0.220406917 VSNS(ph)PPLGR ddPTM_HeLa_SAHA_4h_R1 1 VSNSPPLGR 9 0 H0Y9Y2 H0Y9Y2 BOD1L1 1 0 VS(0.001)NS(0.999)PPLGR 91.123 0.016835 14348000 848.77 917.12 737.47 1030.7 898.17 1234.6 991.38 1065.6 985.05 1037 TRUE FALSE FALSE 938.0475229 946.8352897 837.968571 1050.650689 829.3524086 1129.405134 879.8273132 1038.343495 978.1949568 1081.710145 0.867189355 0.875313312 0.77467016 0.971286711 0.766704845 1.044092209 0.813366979 0.959909177 0.904304135 1 10.07909825 -9.21190637 0.924612728 1.000802475 0.881874649 0.04512632 0.08852202 0.649708983 0.988335781 0.051823838 0.01411423 6.14E-10 9.21190637 -0.118927826 VSPAS(ph)PAGS(ph)PSADFAVHGESLGDR ddPTM_HeLa_SAHA_4h_R1 2 VSPASPAGSPSADFAVHGESLGDR 24 0 A0A0A0MRP9;Q96C92-4;Q96C92-3;Q96C92-2;Q96C92 A0A0A0MRP9 SDCCAG3 Serologically defined colon cancer antigen 3 2 0 VS(0.064)PAS(0.864)PAGS(0.971)PS(0.101)ADFAVHGESLGDR;VS(0.008)PAS(0.992)PAGS(0.968)PS(0.032)ADFAVHGESLGDR ; 122.31 5.51E-06 18231900 1604.39 1530.33 1172.73 1699.87 1716.17 2129.26 1874.31 1984.43 1908.68 1649.92 TRUE FALSE FALSE 1773.147101 1579.913696 1332.543537 1732.773442 1584.677425 1947.835069 1663.407706 1933.671154 1895.39734 1721.056126 1.030266866 0.917990804 0.774259199 1.006808213 0.920758714 1.131767314 0.966504044 1.123537533 1.101298971 1 10.74907843 -1.000007605 0.916713464 0.987203169 72.20738559 0.158411482 0.095716675 1498.759431 2.931389421 0.014141468 223550.4639 0.099998249 1.000007605 71.22018242 VSPAS(ph)PAGSPSADFAVHGESLGDR ddPTM_HeLa_SAHA_4h_R1 2 VSPASPAGSPSADFAVHGESLGDR 24 0 A0A0A0MRP9;Q96C92-4;Q96C92-3;Q96C92-2;Q96C92 A0A0A0MRP9 SDCCAG3 Serologically defined colon cancer antigen 3 1 0 VS(0.02)PAS(0.975)PAGS(0.005)PSADFAVHGESLGDR;VS(0.073)PAS(0.92)PAGS(0.007)PSADFAVHGESLGDR ; 148.04 3.34E-07 29722000 1599.56 1726.65 1096.62 1168.86 1764 2504.3 1695.11 1906.79 1704.25 1664.73 TRUE FALSE FALSE 1767.80906 1782.594593 1246.061663 1191.484975 1628.842701 2290.919551 1504.371762 1858.017073 1692.389985 1736.504657 1.018027249 1.026541786 0.717568857 0.68613981 0.938000767 1.319270606 0.866321755 1.069975289 0.974595708 1 10.76197056 VSPASESPFS(ph)EEESR ddPTM_HeLa_SAHA_4h_R1 1 VSPASESPFSEEESR 15 0 E9PPC2;E9PJ11;E9PI48;E9PRH8;E9PLB9;E9PN31;E9PL66;E9PNN9;A0A0C4DG86;Q9NX95-4;Q9NX95-3;Q9NX95 E9PPC2 SYBU Syntabulin 1 0 VSPASES(0.002)PFS(0.985)EEES(0.013)R 103.77 0.0031789 2485500 550.13 444.41 189.55 315.57 561.42 816.49 467.7 776.77 780.03 437.8 TRUE FALSE FALSE 607.9951975 458.8091756 215.3808869 321.6783137 518.4041209 746.9204586 415.0731651 756.9013481 774.6017077 456.6757005 1.331350008 1.004671751 0.471627649 0.704391132 1.135169049 1.63555989 0.90890136 1.65741542 1.696174565 1 8.835026217 -1.472948574 1.023428864 1.079772297 199.9621705 0.156459871 0.365646268 897.4532239 3.132700247 0.05105368 416097.0573 0.033655142 1.472948574 198.8823982 VSPGRTS(ph)DPNPAAPDSESVIVAMER ddPTM_HeLa_SAHA_4h_R1 1 VSPGRTSDPNPAAPDSESVIVAMER 25 1 P42858 P42858 HTT Huntingtin 1 0 VS(0.022)PGRT(0.285)S(0.693)DPNPAAPDSESVIVAMER 86.073 4.20E-05 4294600 0 160.92 0 55.905 178.53 153.75 215.22 178.08 74.577 208.98 TRUE FALSE FALSE 0 166.1339136 0 56.98712211 164.85107 140.649635 191.0028792 173.5249715 74.05801258 217.9901505 0 0.762116606 0 0.261420628 0.756231736 0.645210963 0.876199584 0.796022073 0.339731003 1 7.768119141 -5.669057001 10.04175556 0.475755206 0.768727635 0.247499958 0.300263669 0.63835246 64.29877461 0.059867616 0.119790379 2.14E-06 5.669057001 0.292972429 VSPLNLSSVT(ph)P ddPTM_HeLa_SAHA_4h_R1 3 VSPLNLSSVTP 11 0 Q9UJX2-3;Q9UJX2 Q9UJX2-3 CDC23 Cell division cycle protein 23 homolog 1 0 VSPLNLSSVT(1)P;VSPLNLSSVT(1)P;VSPLNLSSVT(1)P ;; 113.38 0.0015734 9637200 4523.31 4427.85 3879.21 4306.22 4941.99 4673.47 4633.32 4663.96 4022.89 3758.41 TRUE FALSE FALSE 4999.092499 4571.315245 4407.848537 4389.573115 4563.335794 4275.264064 4111.966639 4544.662657 3994.894381 3920.453448 1.275131197 1.166016969 1.124321101 1.119659543 1.16398163 1.090502443 1.048849755 1.159218625 1.018987837 1 11.93680481 -5.236644252 22.63907278 1.13623648 1.094456199 0.002276001 0.077435496 823.4022386 751795.8998 0.014627788 0.037262654 5.80E-06 5.236644252 -0.041780281 VSPPAPGS(ph)APETPEDK ddPTM_HeLa_SAHA_4h_R1 2 VSPPAPGSAPETPEDK 16 0 M0R300;M0R0P8;Q13459-2;Q13459 M0R300 MYO9B Unconventional myosin-IXb 1 0 VSPPAPGS(1)APETPEDK;VSPPAPGS(1)APETPEDK ; 161.08 4.00E-06 15650300 1830.24 1741.16 1511.09 1812.2 2168.55 2310.5 1888.17 2099.9 1820.01 2417.12 TRUE FALSE FALSE 2022.753041 1797.574726 1717.013476 1847.277751 2002.396167 2113.632401 1675.708142 2046.187599 1807.344402 2521.333872 0.802255133 0.712945932 0.680994094 0.73265892 0.794181282 0.838299293 0.66461176 0.811549641 0.716820736 1 11.29997146 -8.630320497 0.699012319 0.995652638 0.747499627 0 0.10093862 0.257019649 0.251051167 0.032360219 0.013090242 2.34E-09 8.630320497 -0.248153011 VSPSKS(ph)PSLS(ph)PSPPSPLEK ddPTM_HeLa_SAHA_4h_R1 1 VSPSKSPSLSPSPPSPLEK 19 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 VS(0.048)PS(0.29)KS(0.533)PS(0.222)LS(0.869)PS(0.035)PPS(0.002)PLEK 86.825 0.015653 7180900 1400.1 1485 1276.2 1514.7 1481.1 1540.7 1254.8 1188 1587.9 1520.6 TRUE FALSE FALSE 1547.368942 1533.114974 1450.11389 1544.019209 1367.618438 1409.423692 1113.606602 1157.61268 1576.849675 1586.160508 0.975543732 0.966557273 0.914228972 0.973431882 0.862219448 0.888575706 0.702076868 0.729820642 0.994129955 1 10.63132305 -4.508404521 0.528877145 0.990324606 0.539437971 0.872960491 0.036397364 0.652822082 0.144165571 0.006638304 0.172032986 3.10E-05 4.508404521 -0.450886635 VSPSKS(ph)PSLSPSPPS(ph)PLEK ddPTM_HeLa_SAHA_4h_R1 1 VSPSKSPSLSPSPPSPLEK 19 1 P46821 P46821 MAP1B Microtubule-associated protein 1B;MAP1B heavy chain;MAP1 light chain LC1 2 0 VS(0.057)PS(0.363)KS(0.533)PS(0.044)LS(0.003)PS(0.002)PPS(0.997)PLEK 92.38 0.010169 12959000 2108.8 2490.4 2205.7 2551.9 2816.5 3345 3218.1 2884.4 2520.6 2262.9 TRUE FALSE FALSE 2330.61326 2571.090594 2506.281309 2601.295715 2600.700378 3059.987182 2855.990918 2810.621225 2503.058939 2360.464693 0.987353577 1.089230693 1.061774538 1.102026953 1.101774742 1.296349482 1.209927404 1.190706742 1.060409396 1 11.20485519 -5.984993956 0.72888966 0.994047317 1.238845047 0.724015594 0.048066608 0.212759416 0.211198461 0.008416151 0.026672627 1.04E-06 5.984993956 0.24479773 VSPSTSYT(ph)PSR ddPTM_HeLa_SAHA_4h_R1 2 VSPSTSYTPSR 11 0 Q9BTE3;Q9BTE3-2 Q9BTE3 MCMBP Mini-chromosome maintenance complex-binding protein 1 0 VSPSTSYT(0.934)PS(0.066)R;VSPSTSYT(0.983)PS(0.017)R ; 129.74 0.0023969 28086000 1849.71 1956.18 2075.98 2116.41 2191.57 1971.78 2570.27 2180.75 1983.62 1883.43 TRUE FALSE FALSE 2044.270985 2019.561515 2358.883743 2157.376176 2023.65238 1803.773251 2281.056455 2124.969573 1969.815827 1964.633885 1.040535339 1.027958202 1.200673449 1.098105959 1.030040455 0.918121827 1.161059306 1.081610976 1.002637612 1 10.94004477 -7.656554697 1.331947319 1.012448359 1.074647728 0.135623453 0.072666871 0.631770593 2.305182935 0.016232912 0.016190952 2.21E-08 7.656554697 0.062199369 VSQGSAESLS(ph)PSFR ddPTM_HeLa_SAHA_4h_R1 2 VSQGSAESLSPSFR 14 0 Q86YV5 Q86YV5 SGK223 Tyrosine-protein kinase SgK223 1 0 VSQGSAES(0.012)LS(0.947)PS(0.04)FR;VSQGSAES(0.387)LS(0.541)PS(0.072)FR ; 144.4 0.00012419 41515000 1667.4 1936.97 1494.2 1608.24 2143.8 2562.2 2530.9 2310.6 1858.28 1836.29 TRUE FALSE FALSE 1842.784782 1999.729099 1697.821795 1639.369811 1979.542507 2343.886145 2246.116471 2251.498198 1845.348078 1915.461448 0.962057881 1.043993394 0.886377429 0.855861553 1.033454632 1.223666573 1.172624212 1.175433836 0.963396094 1 10.90347627 -5.39716409 4.445036025 0.970137732 1.187469027 0.7940149 0.053716777 0.083228355 2.630539296 0.00813632 0.018738551 4.01E-06 5.39716409 0.217331295 VSQGVEDGPDTK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 VSQGVEDGPDTKR 13 1 M0QYM8;M0R054;M0QX65;A0A590UK93;A0A590UKC5;B3KNJ4;Q9UBE0-2;Q9UBE0-3;Q9UBE0 M0QYM8 SAE1 "SUMO-activating enzyme subunit 1;SUMO-activating enzyme subunit 1, N-terminally processed" 0 1 VSQGVEDGPDTK(1)R 84.352 0.017708 750220 384.72 571.83 308.37 472.04 477.62 447.66 477.92 397.04 478.42 282.44 FALSE TRUE FALSE 425.1866148 590.3576672 350.3930577 481.1770168 441.0248588 409.5168495 424.1431838 386.8842917 475.0906363 294.6173706 1.443182436 2.003811472 1.189315677 1.633226906 1.496941127 1.389995602 1.439640789 1.313175428 1.612568313 1 8.202698684 -8.840799862 0.897450974 1.022357696 1.488933793 0 0.275884514 0.371261741 0.583627528 0.099487675 0.04007356 1.44E-09 8.840799862 0.466576096 VSQLLAVTGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 VSQLLAVTGKK 11 1 J3KS23;Q13951 J3KS23 CBFB Core-binding factor subunit beta 0 1 ; VSQLLAVTGK(1)K;VSQLLAVTGK(1)K 172.11 2.17E-11 13838200 2366 2576.2 2549.3 2996.6 3962.4 4002.6 4802.3 4077.8 1995.02 2224.9 FALSE TRUE FALSE 2614.866736 2659.67057 2896.705328 3054.603526 3658.801768 3661.555962 4261.932565 3973.495781 1981.136493 2320.826327 1.126696429 1.146001551 1.248135327 1.316170663 1.576508214 1.577694944 1.836385823 1.712103889 0.8536341 1 11.18042285 -5.715777234 0.576563133 1.038682729 1.871658601 0.92831614 0.082156148 0.144447164 0.07685818 0.012414953 0.06016969 1.92E-06 5.715777234 0.832975872 VSS(ph)PAGPTEDNDLSR ddPTM_HeLa_SAHA_4h_R1 1 VSSPAGPTEDNDLSR 15 0 H3BN63;Q86YC2 H3BN63 PALB2 Partner and localizer of BRCA2 1 0 VS(0.003)S(0.997)PAGPTEDNDLSR 167.03 3.09E-06 3912700 514.56 754.97 429.29 595.23 807.46 936.31 688.95 677.11 692.08 616.19 TRUE FALSE FALSE 568.6837817 779.4315234 487.7914056 606.7515374 745.5925892 856.5311205 611.4275328 659.7905066 687.2637589 642.7569665 0.884757088 1.212638002 0.758904891 0.943982826 1.159991456 1.3325894 0.95125773 1.026500748 1.069243579 1 9.328129531 -5.768072153 24.92573221 0.950911398 1.121061801 0.166697066 0.144996062 157.0199459 590078.1476 0.020349567 0.037518006 1.71E-06 5.768072153 0.170150403 VSS(ph)PAPMEGGEEEEELLGPK ddPTM_HeLa_SAHA_4h_R1 2 VSSPAPMEGGEEEEELLGPK 20 0 O14497;O14497-2;H0Y488;A0A1B0GTU5;O14497-3 O14497 ARID1A AT-rich interactive domain-containing protein 1A 1 0 VS(0.15)S(0.85)PAPMEGGEEEEELLGPK;VS(0.066)S(0.934)PAPMEGGEEEEELLGPK ; 98.684 0.00070543 8258900 4425.6 5441.4 4237.9 5346.4 6110.6 7157.2 5721.2 5670.7 8579.5 6295 TRUE FALSE FALSE 4891.104913 5617.70493 4815.418942 5449.887303 5642.407148 6547.366295 5077.435519 5525.651705 8519.794561 6566.408257 0.744867624 0.855521727 0.733341387 0.829964737 0.859283634 0.997100095 0.773243959 0.841502917 1.297481702 1 12.68088873 -9.49206105 1.234550667 1.000067787 0.822360926 0.439968395 0.119931094 0.345123388 0.940674642 0.05168024 0.012563164 3.22E-10 9.49206105 -0.177706861 VSS(ph)PLSPLSPGIK ddPTM_HeLa_SAHA_4h_R1 1 VSSPLSPLSPGIK 13 0 Q9P2B4 Q9P2B4 CTTNBP2NL CTTNBP2 N-terminal-like protein 1 0 VS(0.417)S(0.581)PLS(0.002)PLSPGIK 80.905 0.018444 10461000 1475.3 1493.4 1341 1549.3 1708.5 1726.9 1410.1 1465.6 1731 1609.4 TRUE FALSE FALSE 1630.478823 1541.78714 1523.744496 1579.288942 1577.595099 1579.758405 1251.431837 1428.112074 1718.95383 1678.78911 0.971223135 0.918392388 0.907644973 0.94073099 0.939722023 0.941010634 0.74543719 0.850679853 1.023924816 1 10.71320529 -1.257747816 0.223690345 1.003663447 1.41E-16 0.624411834 0.046011618 19.30082841 0.25751062 0.031529233 6.932654672 0.055239811 1.257747816 -1.003663447 VSS(ph)PSPELGTTPASIFR ddPTM_HeLa_SAHA_4h_R1 2 VSSPSPELGTTPASIFR 17 0 A0A5E8;Q99501 A0A5E8 GAS2L1 GAS2-like protein 1 1 0 VS(0.002)S(0.978)PS(0.019)PELGTTPASIFR;VS(0.035)S(0.963)PS(0.001)PELGTTPASIFR ; 160.63 5.27E-06 44426000 1720.22 1594.02 1483.18 1433.74 1261.18 1747.66 1572.38 1740.28 1656.41 1560.73 TRUE FALSE FALSE 1901.160632 1645.667294 1685.300046 1461.492111 1164.548661 1598.749536 1395.451664 1695.766157 1644.882908 1628.020708 1.167774232 1.010839288 1.035183421 0.897711008 0.715315631 0.982020393 0.857146139 1.041612154 1.010357485 1 10.66890334 -6.378993443 2.854956428 1.075327684 0.890445082 0.368417761 0.092552288 0.196712831 3.096936863 0.015604901 0.024895176 4.18E-07 6.378993443 -0.184882601 VSS(ph)PTVNTTLR ddPTM_HeLa_SAHA_4h_R1 2 VSSPTVNTTLR 11 0 Q9NSK0-5;Q9NSK0;Q9NSK0-3 Q9NSK0-5 KLC4 Kinesin light chain 4 1 0 VS(0.147)S(0.757)PT(0.096)VNTTLR;VS(0.14)S(0.836)PT(0.024)VNTTLR ; 150.51 0.00050502 35153000 2925.4 3012.5 2773.89 2979.4 3190.1 3631.2 3060 2902.9 3051.1 3094.7 TRUE FALSE FALSE 3233.106994 3110.106977 3151.901283 3037.070595 2945.675227 3321.801331 2715.680747 2828.648021 3029.867147 3228.127662 1.001542483 0.963439895 0.976386814 0.940814897 0.912502706 1.029017957 0.841255685 0.876250359 0.938583434 1 11.65648192 -1.300949453 0.29037327 1.004802091 5.23E-11 0.338340907 0.045378301 21.06187533 0.316452633 0.015260901 10.67614854 0.050009274 1.300949453 -1.004802091 VSS(ph)PVFGATSSIK ddPTM_HeLa_SAHA_4h_R1 2 VSSPVFGATSSIK 13 0 F6Q6H0;I6L8A6;Q99708-3;Q99708;Q99708-2 F6Q6H0 RBBP8 DNA endonuclease RBBP8 1 0 VS(0.027)S(0.973)PVFGATSSIK;VS(0.198)S(0.8)PVFGAT(0.002)SSIK ; 161.21 5.70E-05 25708000 5649.2 6006.5 5534.3 5143.3 5710.9 5592.6 5882.5 5495.1 6439.4 6076.5 TRUE FALSE FALSE 6243.408775 6201.114541 6288.485583 5242.856009 5273.332076 5116.079017 5220.585618 5354.543299 6394.587691 6338.487653 0.984999754 0.978327147 0.992111356 0.827146205 0.831954303 0.807145063 0.823632687 0.8447667 1.008850698 1 12.62992294 -6.260416679 10.41528695 0.991368976 0.825889415 0.980866974 0.011585826 0.00872881 30.94214749 0.001701533 0.002712928 5.49E-07 6.260416679 -0.16547956 VSS(ph)QAEDTSSSFDNLFIDR ddPTM_HeLa_SAHA_4h_R1 1 VSSQAEDTSSSFDNLFIDR 19 0 H8Y6P7;P0CAP2-3;P0CAP2;Q9BZD3 H8Y6P7 GCOM1;POLR2M;GCOM2 DNA-directed RNA polymerase II subunit GRINL1A;Putative GRINL1B complex locus protein 2 1 0 VS(0.338)S(0.658)QAEDT(0.003)S(0.001)SSFDNLFIDR 143.69 0.00010202 2717900 249.88 149.77 292.7 298.42 245.46 300.78 367.04 312.34 331.75 309.67 TRUE FALSE FALSE 276.1635249 154.6226463 332.5876317 304.1963506 226.6529078 275.1518519 325.7396932 304.3507951 329.4413247 323.0213892 0.854938819 0.478676185 1.029614889 0.941722006 0.701665324 0.851806911 1.008415245 0.942200131 1.019874645 1 8.335485887 -8.923205644 1.107708096 0.988719671 0.851847149 0.140560211 0.153657697 0.772210868 1.86781607 0.065517484 0.028635321 1.19E-09 8.923205644 -0.136872521 VSSAQRS(ph)PETIAAEEDTDSKFK ddPTM_HeLa_SAHA_4h_R1 1 VSSAQRSPETIAAEEDTDSKFK 22 2 S4R3C8;Q9NRE2-2;Q9NRE2 S4R3C8 TSHZ2 Teashirt homolog 2 1 0 VS(0.168)S(0.168)AQRS(0.661)PET(0.003)IAAEEDTDSKFK 52.318 0.0095945 8034400 1371 1175.9 1165.8 1447.2 1260.7 1595.2 1207.7 1406.8 1199.2 1507.9 TRUE FALSE FALSE 1515.20807 1213.999932 1324.669153 1475.212649 1164.105438 1459.279986 1071.806418 1370.816093 1190.85467 1572.912948 0.963313368 0.77181635 0.842175757 0.937885755 0.740095273 0.927756356 0.681414962 0.871514278 0.757101447 1 10.61922311 -7.358997484 5.412547865 0.98387962 0.82512607 0 0.104068642 0.129742365 5.758962232 0.011945992 0.013607648 4.38E-08 7.358997484 -0.15875355 VSSGY(ph)VPPPVATPFSSK ddPTM_HeLa_SAHA_4h_R1 2 VSSGYVPPPVATPFSSK 17 0 Q15942;Q15942-2;H7C3R3 Q15942 ZYX Zyxin 1 0 VS(0.065)S(0.414)GY(0.521)VPPPVATPFSSK;VS(0.002)S(0.004)GY(0.994)VPPPVATPFSSK ; 136.01 0.00028711 13924500 3405.49 3535.9 2821.48 3487.61 5284.3 3884.36 4374.9 4273.2 3983.6 3277.5 TRUE FALSE FALSE 3763.695063 3650.46548 3205.976601 3555.117735 4879.418076 3553.390675 3882.624738 4163.897732 3955.877803 3418.809065 1.100878988 1.06775939 0.937746607 1.03987022 1.42722743 1.039365056 1.13566586 1.217938075 1.157092347 1 11.73927814 VSSGYSS(ph)PTTSEMSIK ddPTM_HeLa_SAHA_4h_R1 1 VSSGYSSPTTSEMSIK 16 0 Q96AY4;A0A087WW06 Q96AY4 TTC28 Tetratricopeptide repeat protein 28 1 0 VSSGY(0.001)S(0.012)S(0.907)PT(0.06)T(0.016)S(0.004)EMSIK 106.3 0.0024604 3599400 880.18 1007.6 627.18 861.61 931.03 1174.9 934.86 901.79 1097.5 965.88 TRUE FALSE FALSE 972.7613708 1040.246901 712.6488242 878.2877075 859.6946825 1074.79191 829.6670924 878.7235176 1089.862408 1007.523814 0.96549715 1.032478724 0.707327027 0.871728981 0.853274802 1.066765763 0.823471447 0.872161537 1.08172372 1 9.976598223 VSSPLS(ph)PLSPGIKSPTIPR ddPTM_HeLa_SAHA_4h_R1 1 VSSPLSPLSPGIKSPTIPR 19 1 Q9P2B4 Q9P2B4 CTTNBP2NL CTTNBP2 N-terminal-like protein 1 0 VS(0.029)S(0.115)PLS(0.475)PLS(0.237)PGIKS(0.105)PT(0.038)IPR 74.444 0.0043809 342240000 842.81 943.24 802.98 523.21 569.93 700.63 808.08 618.3 606.02 725.34 TRUE FALSE FALSE 931.4606228 973.8015949 912.4059327 533.3374861 526.2620865 640.9323824 717.1527116 602.4847813 601.8026575 756.6129571 1.231092613 1.287053818 1.205908416 0.704901338 0.695549926 0.847107331 0.947846194 0.796291916 0.795390367 1 9.563411673 -6.26433322 24.99880124 1.134672902 0.803644084 0.515230012 0.146633045 131.0039164 1131693.451 0.019849272 0.031159907 5.44E-07 6.26433322 -0.331028818 VSSPLSPLSPGIKS(ph)PTIPR ddPTM_HeLa_SAHA_4h_R1 3 VSSPLSPLSPGIKSPTIPR 19 1 Q9P2B4 Q9P2B4 CTTNBP2NL CTTNBP2 N-terminal-like protein 1 0 VSSPLS(0.001)PLS(0.252)PGIKS(0.547)PT(0.2)IPR;VS(0.002)S(0.006)PLS(0.058)PLS(0.062)PGIKS(0.836)PT(0.036)IPR;VSSPLS(0.001)PLS(0.038)PGIKS(0.721)PT(0.239)IPR ;; 87.729 0.0016145 473489800 1278.49 1280.38 1438.36 1330.08 1420.78 1361.4 1760.14 1759.63 1401.89 1530.91 TRUE FALSE FALSE 1412.967444 1321.865152 1634.37221 1355.825622 1311.920143 1245.401061 1562.084415 1714.621213 1392.134133 1596.915022 0.884810666 0.827761737 1.023455968 0.849028034 0.821534099 0.779879357 0.978188816 1.073708487 0.871764693 1 10.64107183 -9.242631553 0.939766502 1.000976584 0.89948364 0 0.097749859 0.926269502 1.447997091 0.064200154 0.017059274 5.72E-10 9.242631553 -0.101492944 VSSS(ph)PGVK ddPTM_HeLa_SAHA_4h_R1 1 VSSSPGVK 8 0 A0A0U1RRL5;P32519-2;P32519 A0A0U1RRL5 ELF1 ETS-related transcription factor Elf-1 1 0 VS(0.006)S(0.041)S(0.953)PGVK 133.99 0.0015236 2968100 1558.5 1868 1264.7 1869.1 2159.5 3521.7 2740.6 2002.4 2289 3150.3 TRUE FALSE FALSE 1722.430181 1928.524426 1437.04673 1905.279133 1994.039577 3221.631347 2432.220475 1951.181507 2273.070663 3286.12485 0.524152386 0.586868885 0.437307405 0.579795114 0.606805787 0.980373995 0.740148529 0.593763657 0.691717682 1 11.68217158 -9.367248462 1.082191564 1.000702095 0.628246028 0.116573129 0.165681931 0.371589833 0.776224568 0.104838912 0.026934742 4.29E-10 9.367248462 -0.372456067 VST(ph)PVVK ddPTM_HeLa_SAHA_4h_R1 1 VSTPVVK 7 0 A0A0A0MRT2;Q9BTA9-5;Q9BTA9-2;Q9BTA9 A0A0A0MRT2 WAC WW domain-containing adapter protein with coiled-coil 1 0 VS(0.074)T(0.926)PVVK 101.64 0.022207 531380000 6820.7 6609.9 6135.2 6351.5 6599.6 7308.7 7073.4 5991.6 7277.5 6803.1 TRUE FALSE FALSE 7538.13252 6824.065097 6971.273105 6474.442467 6093.940074 6685.957642 6277.482416 5838.343548 7226.855285 7096.414935 1.062245175 0.961621489 0.982365486 0.912353988 0.858735027 0.942159908 0.884599121 0.82271733 1.018381162 1 12.79287465 -6.430459561 1.247276238 1.028062061 0.878950606 0.75509773 0.035321512 0.161064308 0.497541346 0.006751373 0.012052386 3.71E-07 6.430459561 -0.149111456 VSTAVLSITAK ddPTM_HeLa_SAHA_4h_R1 1 VSTAVLSITAK 11 0 A0A087WW66;Q99460-2;Q99460 A0A087WW66 PSMD1 26S proteasome non-ATPase regulatory subunit 1 0 0 128.81 0.0014152 624450 444.03 614.45 620.65 498.34 674.95 615.51 807.73 543.06 289.69 548.01 FALSE FALSE TRUE 490.7351127 634.3585832 705.2289498 507.9860913 623.2354768 563.0650852 716.8420946 529.1693115 287.6740237 571.637393 0.858472729 1.109721986 1.233699822 0.888650913 1.090263661 0.985003942 1.254015401 0.925708007 0.503245637 1 9.158956482 -7.251612433 24.90148215 0.933167677 1.073570192 0.245056208 0.178484959 682.7903001 1730191.544 0.018996441 0.023116779 5.60E-08 7.251612433 0.140402515 VSTLPAITLK ddPTM_HeLa_SAHA_4h_R1 1 VSTLPAITLK 10 0 H7C1V0;H7C469;A0A1B0GW44;A0A1B0GV23;A0A1B0GVD5;A0A1B0GWE8;A0A1B0GU92;A0A1B0GU03;P07339 H7C1V0 CTSD Cathepsin D;Cathepsin D light chain;Cathepsin D heavy chain 0 0 145.17 8.04E-05 837820 1085.5 811.49 937.33 1084.5 1120.5 858.1 1424.8 644.53 644.05 1077 FALSE FALSE TRUE 1199.67787 837.7828084 1065.064451 1105.492066 1034.647532 784.9850525 1264.477754 628.0438559 639.5680036 1123.434741 1.067866096 0.7457334 0.948043008 0.984028734 0.920968076 0.698736672 1.125546245 0.559039019 0.569296979 1 10.13370061 -2.308113867 0.260230853 1.034475134 7.12E-15 0 0.208286533 24.93526769 0.571139028 0.075203611 10.06070611 0.004919105 2.308113867 -1.034475134 VSTSGS(ph)S(ph)VDS(ph)SKK ddPTM_HeLa_SAHA_4h_R1 1 VSTSGSSVDSSKK 13 1 Q15648 Q15648 MED1 Mediator of RNA polymerase II transcription subunit 1 3 0 VSTSGS(0.797)S(0.797)VDS(0.797)S(0.609)KK 76.827 0.0047177 0 439.84 596.87 393.36 520.56 550.14 731.79 551.41 467.87 834.03 561.95 TRUE FALSE FALSE 486.1043893 616.2089796 446.9650523 530.6361915 507.9883921 669.4373751 489.3638956 455.9025629 828.2259173 586.1784146 0.829277191 1.0512311 0.762506843 0.905246898 0.866610539 1.142036892 0.834837796 0.777753925 1.412924626 1 9.195196033 -9.591358525 1.370677976 1.000221527 0.892377116 0.176253354 0.17336467 0.781438085 2.624645263 0.077698569 0.017875358 2.56E-10 9.591358525 -0.107844411 VSTVTS(ph)PSR ddPTM_HeLa_SAHA_4h_R1 1 VSTVTSPSR 9 0 Q8WYP5;Q8WYP5-3;Q8WYP5-2 Q8WYP5 AHCTF1 Protein ELYS 1 0 VST(0.001)VT(0.029)S(0.952)PS(0.017)R 91.265 0.016737 7734900 5166.8 4147.7 3674.5 3967.4 4221 4064.5 4136.1 3675.2 3613 4283.5 TRUE FALSE FALSE 5710.26773 4282.088201 4175.241724 4044.194764 3897.587892 3718.181734 3670.695142 3581.193706 3587.856839 4468.182648 1.277984402 0.9583512 0.934438463 0.905109545 0.872298247 0.832146317 0.821518598 0.801487761 0.802979001 1 12.12547245 -6.931336777 2.699868408 1.130825623 0.857370448 0.112650405 0.127736815 0.147390945 2.18488007 0.018551844 0.024689722 1.17E-07 6.931336777 -0.273455175 VSVFFGGLSIKK ddPTM_HeLa_SAHA_4h_R1 1 VSVFFGGLSIKK 12 1 O00148;O00148-2;O00148-3;K7EQN7;A0A0D9SEM9 O00148 DDX39A ATP-dependent RNA helicase DDX39A 0 0 103.46 0.0038437 0 0 168.64 86.051 0 224.59 81.354 137.06 0 0 0 FALSE FALSE TRUE 0 174.1040466 97.77758215 0 207.3819627 74.42218151 121.6376481 0 0 0 0 VSVGAPDLSLEASEGS(ph)IKLPK ddPTM_HeLa_SAHA_4h_R1 1 VSVGAPDLSLEASEGSIKLPK 21 1 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 1 0 VSVGAPDLSLEAS(0.021)EGS(0.979)IKLPK 60.472 0.0076843 1404600 307.98 287.13 258.51 281.62 274.99 346.84 302.1 333.07 276.02 328.17 TRUE FALSE FALSE 340.3747495 296.4332004 293.7383965 287.0711623 253.9203256 317.2872807 268.1069129 324.5505517 274.0991543 342.3190147 0.994320312 0.865955987 0.858083787 0.838607118 0.74176518 0.926876005 0.783207772 0.948093847 0.800712618 1 8.419197621 -7.223418533 3.546334054 0.998061066 0.845535019 0.003872677 0.084263074 0.107103858 2.794505256 0.008778719 0.010578302 5.98E-08 7.223418533 -0.152526048 VSYFPTVPGVYIVSTK ddPTM_HeLa_SAHA_4h_R1 1 VSYFPTVPGVYIVSTK 16 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4;H7C5L4 O75369-8 FLNB Filamin-B 0 0 234.49 2.08E-56 1029300 753.59 867.93 1042.5 1054.7 1273.3 668.42 1097.1 407.99 670.11 880.85 FALSE FALSE TRUE 832.8560538 896.0515015 1184.566471 1075.115244 1175.740029 611.4668556 973.6514206 397.5542066 665.4466499 918.8277543 0.906433279 0.975211619 1.289214943 1.170094437 1.279608745 0.665485835 1.059666968 0.432675444 0.724234381 1 9.843650625 -4.257724497 24.5779041 1.000221041 0.432675168 0.431430998 0.197889801 199.048271 1316843.662 0.024861997 0.247654413 5.52E-05 4.257724497 -0.567545873 VSYLVFDEADR ddPTM_HeLa_SAHA_4h_R1 2 VSYLVFDEADR 11 0 A0A0A0MSJ0;Q86XP3-2;Q86XP3 A0A0A0MSJ0 DDX42 ATP-dependent RNA helicase DDX42 0 0 ; ; 169.37 0.00063166 4337100 1487.22 1639.81 1394.7 1666.59 1519.52 1507.48 1253.03 1246.14 1391.37 1312.89 FALSE FALSE TRUE 1643.652623 1692.94092 1584.762453 1698.849259 1403.094706 1379.034223 1112.035767 1214.265543 1381.687343 1369.495113 1.200188747 1.236178869 1.157187373 1.240493115 1.024534292 1.006965421 0.812004188 0.886651972 1.008902719 1 10.4194284 -5.074587785 1.944448953 1.121583409 0.847653126 0.619089862 0.086068415 0.208902582 1.501258922 0.014970144 0.0573741 8.42E-06 5.074587785 -0.273930283 VSYS(ph)PAHAR ddPTM_HeLa_SAHA_4h_R1 1 VSYSPAHAR 9 0 C9J965;P23769-2;P23769 C9J965 GATA2 Endothelial transcription factor GATA-2 1 0 VSYS(1)PAHAR 85.813 0.016998 1512200 423.25 635.6 392.14 238.93 437.12 674.48 589 510.07 530.76 565.25 TRUE FALSE FALSE 467.7693769 656.193857 445.578797 243.5548356 403.62796 617.0105095 522.7241698 497.023148 527.0663979 589.6206938 0.793339484 1.112908458 0.755704136 0.413070366 0.684555282 1.046453281 0.886543121 0.842954044 0.893907564 1 9.203643349 -9.490076854 0.517442378 1.053094076 0.806245927 0.065227054 0.18431144 3.267622835 1.046417004 0.419884274 0.048991838 3.24E-10 9.490076854 -0.246848149 VT(ph)AT(ph)VAGLT(ph)LLAVGVY(ph)S(ph)AKNATLVAGR ddPTM_HeLa_SAHA_4h_R1 1 VTATVAGLTLLAVGVYSAKNATLVAGR 27 1 Q9NVI7-3;Q9NVI7-2;Q9NVI7 Q9NVI7-3 ATAD3A ATPase family AAA domain-containing protein 3A 5 0 VT(0.999)AT(0.999)VAGLT(0.999)LLAVGVY(0.839)S(0.847)AKNAT(0.315)LVAGR 41.749 0.013994 59231000 339.74 336.22 340.69 302.72 309.4 221.73 394 271.52 294.3 224.24 TRUE FALSE FALSE 375.475412 347.1137486 387.117459 308.5795833 285.6938388 202.8373566 349.666083 264.5749116 292.2519423 233.9080838 1.605226317 1.483975 1.654998206 1.319234369 1.22139361 0.867166937 1.494886698 1.131106319 1.249430706 1 7.869797912 -4.002832239 14.88194512 1.309546656 0.969307719 0.051785957 0.239695037 2707809.581 81260285.5 0.040179525 15105498.76 9.93E-05 4.002832239 -0.340238938 VT(ph)NDISPESSPGVGR ddPTM_HeLa_SAHA_4h_R1 2 VTNDISPESSPGVGR 15 0 A0A5H1ZRS1;A0A4W8VX11;Q15154-5;Q15154-4;Q15154-2;Q15154;E7EV93;E9PGW9;E5RGQ4;Q15154-3 A0A5H1ZRS1 PCM1 Pericentriolar material 1 protein 1 0 VT(0.993)NDIS(0.003)PES(0.004)SPGVGR;VT(0.692)NDIS(0.183)PES(0.124)S(0.001)PGVGR ; 174.24 9.50E-07 43632800 2623.5 3100.4 2365.7 2955.7 3011.1 3480.6 2588.2 2682 2638.7 2608.2 TRUE FALSE FALSE 2899.451767 3200.854994 2688.085276 3012.911848 2780.390169 3184.033299 2296.968924 2613.398323 2620.337072 2720.652266 1.065719351 1.176502795 0.988029712 1.107422615 1.021957199 1.17031983 0.84427141 0.960577857 0.963128256 1 11.40973686 -4.746330374 24.99999011 1.051242098 0.902424619 0.418102253 0.074325271 168.4066317 278647.7403 0.009316986 0.034587913 1.79E-05 4.746330374 -0.148817479 VT(ph)T(ph)PDT(ph)S(ph)TTQHNK ddPTM_HeLa_SAHA_4h_R1 1 VTTPDTSTTQHNK 13 0 Q92954-5;Q92954-4;Q92954-3;Q92954-6;Q92954-2;Q92954;E9PLR3;J3KP74 Q92954-5 PRG4 Proteoglycan 4;Proteoglycan 4 C-terminal part 4 0 VT(1)T(1)PDT(0.853)S(0.853)T(0.169)T(0.124)QHNK 89.747 0.0070315 3388100 744.72 938.16 716.8 575.33 899.9 1447.7 947.5 941.46 1199 751.67 TRUE FALSE FALSE 823.0530665 968.5569995 814.4817711 586.4663441 830.9498564 1324.347815 840.8848063 917.3788164 1190.656061 784.0781723 1.049707919 1.235281167 1.038776234 0.747969227 1.059779351 1.689050738 1.072450217 1.17000938 1.518542543 1 9.614853687 -5.491165528 24.99664944 1.02085254 1.301317646 0.098500186 0.242834946 573.0364485 451672.2398 0.025293924 0.056507058 3.23E-06 5.491165528 0.280465107 VTAAAMAGNKST(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 VTAAAMAGNKSTPR 14 1 P12270 P12270 TPR Nucleoprotein TPR 1 0 VTAAAMAGNKS(0.251)T(0.749)PR 120.53 0.00037647 0 787.39 670.41 483.76 1139.3 1038.7 1025.8 736.72 740.58 702.73 847.24 TRUE FALSE FALSE 870.2112929 692.1317239 549.6842935 1161.352799 959.1150304 938.396069 653.8223267 721.6370359 697.8396447 883.7686627 0.984659594 0.783159387 0.621977579 1.3140914 1.085255759 1.061811884 0.739811621 0.816545173 0.789618001 1 9.787524966 -4.754783598 24.99856602 0.984415088 0.77817833 0.113320959 0.183805142 198.4647177 745395.7317 0.023940608 0.085572076 1.76E-05 4.754783598 -0.206236758 VTAEADSS(ph)SPTGILATSESK ddPTM_HeLa_SAHA_4h_R1 1 VTAEADSSSPTGILATSESK 20 0 A0MZ66-7;A0MZ66-8;A0MZ66-4;A0MZ66-5;A0MZ66-6;A0MZ66;A0MZ66-3 A0MZ66-7 KIAA1598 Shootin-1 1 0 VTAEADS(0.029)S(0.767)S(0.198)PT(0.005)GILATSESK 144.17 1.12E-10 0 157.43 317.05 453.78 342.22 324.17 340.57 350.36 288.24 291.46 200.77 TRUE FALSE FALSE 173.9892097 327.322628 515.6187752 348.844163 299.3321646 311.55152 310.9365707 280.8672382 289.4317061 209.4261772 0.830790172 1.562949925 2.46205504 1.665714227 1.429296798 1.487643637 1.484707283 1.341127656 1.382022582 1 7.710297973 -7.223156417 6.410920309 0.919994126 1.649762328 0.353452757 0.330246639 0.11723353 14.33309871 0.052122575 0.063450274 5.98E-08 7.223156417 0.729768202 VTAEADSSS(ph)PTGILATSESK ddPTM_HeLa_SAHA_4h_R1 1 VTAEADSSSPTGILATSESK 20 0 A0MZ66-7;A0MZ66-8;A0MZ66-4;A0MZ66-5;A0MZ66-6;A0MZ66;A0MZ66-3 A0MZ66-7 KIAA1598 Shootin-1 1 0 VTAEADSS(0.13)S(0.861)PT(0.007)GILATSESK 233.37 4.80E-33 18700000 886.64 782.11 766.19 915.35 930.77 1186.3 1006 756.78 1129.6 760.47 TRUE FALSE FALSE 979.9008633 807.4508772 870.6023831 933.0679229 859.4546037 1085.220566 892.8022324 737.4226634 1121.739022 793.2575833 1.235287104 1.017892415 1.097502755 1.176248349 1.08344959 1.36805571 1.12548843 0.929613128 1.414091772 1 9.631645598 -6.285938141 22.68382998 1.104528311 1.145864418 0 0.152570073 980.4475082 907810.6731 0.020389305 0.031158664 5.18E-07 6.285938141 0.041336107 VTAPDVDLHLK ddPTM_HeLa_SAHA_4h_R1 1 VTAPDVDLHLK 11 0 Q09666 Q09666 AHNAK Neuroblast differentiation-associated protein AHNAK 0 0 82.417 0.014993 764120 795.87 992.01 951.63 928 1009.4 884.93 998.38 785.68 906.96 915.31 FALSE FALSE TRUE 879.5832582 1024.151775 1081.313181 945.9627819 932.0599901 809.5289855 886.0396548 765.5834433 900.6483915 954.7734935 0.921248091 1.07266465 1.132533724 0.990771935 0.976210584 0.847875429 0.92801032 0.801848238 0.943311055 1 9.899014705 -5.29872978 6.413807757 0.986636652 0.866063739 0.492981246 0.065893687 0.167441939 21.04205053 0.010586829 0.024263335 5.03E-06 5.29872978 -0.120572913 VTAYK(ac)AVQEK ddPTM_HeLa_SAHA_4h_R1 2 VTAYKAVQEK 10 1 Q9Y2W1;A0A3B3ITZ9 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 0 1 ; VTAYK(1)AVQEK;VTAYK(1)AVQEK 147.72 3.35E-05 3179900 1636.29 1700.47 2203.2 1938.98 2100.86 1265.46 2032.98 1258.79 575.09 1282.23 FALSE TRUE FALSE 1808.40249 1755.566344 2503.440622 1976.511762 1939.892561 1157.635689 1804.22374 1226.591975 571.0879019 1337.51321 1.352063274 1.312560003 1.87171282 1.477751208 1.450372636 0.865513462 1.348939006 0.917069054 0.426977392 1 10.38533743 -3.157284111 14.28387805 1.240557399 1.183730489 0 0.386404964 0 0 0.040830173 0 0.000696171 3.157284111 -0.05682691 VTDALNATR ddPTM_HeLa_SAHA_4h_R1 1 VTDALNATR 9 0 P10809 P10809 HSPD1 "60 kDa heat shock protein, mitochondrial" 0 0 122.28 0.019699 19300000 1396.8 1701.6 1564.9 1615.4 1611.3 1475.6 2076.6 1629.5 1407.2 1286.2 FALSE FALSE TRUE 1543.721833 1756.732956 1778.156422 1646.668403 1487.842542 1349.870579 1842.935503 1587.819749 1397.407181 1341.654377 1.150610664 1.309378173 1.32534612 1.22734173 1.108961122 1.006123933 1.373629107 1.183478977 1.041555266 1 10.38979735 -8.355187124 0.936185706 1.020434505 1.213734253 0.349423131 0.103537967 0.398912717 0.728838084 0.037130021 0.02292829 4.41E-09 8.355187124 0.193299748 VTDALPEPEPPGAMAAS(ph)EDEEEEEEALEAMQSR ddPTM_HeLa_SAHA_4h_R1 3 VTDALPEPEPPGAMAASEDEEEEEEALEAMQSR 33 0 Q9Y3E7-2;Q9Y3E7-4;Q9Y3E7;Q9Y3E7-3 Q9Y3E7-2 CHMP3 Charged multivesicular body protein 3 1 0 VTDALPEPEPPGAMAAS(1)EDEEEEEEALEAMQSR;VTDALPEPEPPGAMAAS(1)EDEEEEEEALEAMQSR;VTDALPEPEPPGAMAAS(1)EDEEEEEEALEAMQSR ;; 127.64 1.44E-16 5584700 5471.3 5607.5 5026.4 5018 5893.7 6331.7 5645.7 5833.5 5886.3 5306.5 TRUE FALSE FALSE 6046.796437 5789.186679 5711.371616 5115.130646 5442.125979 5792.203539 5010.430977 5684.287517 5845.336759 5535.289184 1.092408406 1.045868876 1.031810882 0.924094564 0.983169225 1.046413899 0.905179623 1.026917895 1.056012896 1 12.43444298 -6.458501641 9.661400242 1.044736111 0.977317485 0.373467193 0.04439369 0.505872034 73.76996034 0.00757394 0.011563724 3.48E-07 6.458501641 -0.067418626 VTDDLVCLVYK ddPTM_HeLa_SAHA_4h_R1 1 VTDDLVCLVYK 11 0 P49458 P49458 SRP9 Signal recognition particle 9 kDa protein 0 0 120.45 0.0052887 640000 353.72 267.8 197.16 331.17 466.73 346.71 345.69 570.8 454.18 405.96 FALSE FALSE TRUE 390.9258925 276.4768957 224.027938 337.5802742 430.9692482 317.1683575 306.7920514 556.1997625 451.0193244 423.4629223 0.923164395 0.652895168 0.529037907 0.797189686 1.017726052 0.748987316 0.724483857 1.313455637 1.065073943 1 8.726091845 -7.484532951 10.11740701 0.966221413 0.812284342 0.121553431 0.205395194 0.921507476 238.4267772 0.03452303 0.038607631 3.28E-08 7.484532951 -0.153937071 VTDKVLTANSNPSS(ph)PSAAK ddPTM_HeLa_SAHA_4h_R1 2 VTDKVLTANSNPSSPSAAK 19 1 Q9NV56 Q9NV56 MRGBP MRG/MORF4L-binding protein 1 0 VTDKVLTANS(0.009)NPS(0.217)S(0.761)PS(0.013)AAK;VTDKVLTANS(0.002)NPS(0.314)S(0.673)PS(0.011)AAK ; 115.96 0.00030506 12314800 6620.8 4575.2 6462.6 5373.3 4954.3 4384.2 5258.2 5855.4 3740.5 5639.9 TRUE FALSE FALSE 7317.206121 4723.439482 7343.289472 5477.307991 4574.702604 4010.641495 4666.533497 5705.627347 3714.469556 5883.06369 1.243774759 0.802887701 1.248208393 0.931029865 0.777605487 0.681726683 0.793214853 0.969839466 0.631383536 1 12.52235194 -6.00694385 4.626528094 1.098983021 0.799442919 0.016786477 0.200838626 0.127668821 7.173877829 0.021856372 0.038742418 9.84E-07 6.00694385 -0.299540103 VTEGLTDVILYHQPDDK ddPTM_HeLa_SAHA_4h_R1 2 VTEGLTDVILYHQPDDK 17 0 O60506-2;O60506;O60506-4;O60506-3;B7Z645;O60506-5 O60506-2 SYNCRIP Heterogeneous nuclear ribonucleoprotein Q 0 0 ; ; 135.61 5.17E-06 2729760 858.96 949.86 827.82 1045.4 1465.42 1353.57 1218.46 946.41 1588.95 1086.92 FALSE FALSE TRUE 949.3093538 980.6360872 940.6309985 1065.635229 1353.139836 1238.238221 1081.355674 922.2022026 1577.892368 1133.78244 0.837294105 0.864924391 0.829639766 0.939893926 1.193473975 1.092130357 0.953759412 0.813385505 1.391706478 1 10.14692812 -5.983508141 24.99599484 0.908466169 1.021094089 0 0.1837151 329.9544549 500094.7994 0.017008347 0.030824839 1.04E-06 5.983508141 0.11262792 VTEGLVDVILYHQPDDK ddPTM_HeLa_SAHA_4h_R1 1 VTEGLVDVILYHQPDDK 17 0 O43390;B4DT28;O43390-3 O43390 HNRNPR Heterogeneous nuclear ribonucleoprotein R 0 0 143.97 1.70E-06 377490 310.21 379.04 208.69 403.78 371.89 396.71 367.14 215.3 421.26 250.73 FALSE FALSE TRUE 342.8393111 391.3211447 237.1291864 411.5957458 343.3958685 362.9080762 325.8284409 209.7929378 418.3284174 261.5401973 1.31084749 1.496217976 0.906664401 1.573737995 1.312975489 1.387580494 1.245806359 0.802144144 1.599480392 1 8.030888888 -9.244243981 0.976653052 0.999912712 1.268489821 0 0.292501718 0.776044596 1.328385076 0.144364793 0.039730616 5.70E-10 9.244243981 0.268577109 VTENLASLT(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 VTENLASLTPK 11 0 Q96DF8 Q96DF8 DGCR14 Protein DGCR14 1 0 VTENLAS(0.007)LT(0.993)PK 103.11 0.010635 11465000 2524 2655 3202.8 3074.6 2727.2 3450.5 2993.1 3036.4 2845.2 3181.1 TRUE FALSE FALSE 2789.485901 2741.023742 3639.260905 3134.113329 2518.242525 3156.497988 2656.308511 2958.733285 2825.400022 3318.252789 0.840649004 0.826044282 1.096740103 0.944507103 0.758906173 0.95125302 0.80051421 0.891653974 0.851472206 1 11.69620808 VTFLIGDSMS(ph)PDSDTELR ddPTM_HeLa_SAHA_4h_R1 1 VTFLIGDSMSPDSDTELR 18 0 A0A087WX11;J3KNG8;Q8TF40-3;Q8TF40 A0A087WX11 FNIP1 Folliculin-interacting protein 1 1 0 VTFLIGDS(0.195)MS(0.792)PDS(0.013)DT(0.001)ELR 79.347 0.012309 6289300 294.09 592.39 427.55 664.64 750.4 602.63 732.22 751.78 599.03 558.32 TRUE FALSE FALSE 325.0237355 611.5838247 485.8142874 677.5050683 692.9045141 551.2825337 649.8286785 732.5505562 594.8613015 582.3919076 0.558084224 1.050124181 0.834170738 1.163314702 1.189756425 0.946583437 1.115792768 1.257830933 1.021410658 1 9.185846499 -6.500049149 1.717222333 0.799776093 1.126483202 0.269703848 0.164224571 0.289612254 1.702999205 0.032067451 0.051984219 3.16E-07 6.500049149 0.326707109 VTGGAASK(ac)LSK ddPTM_HeLa_SAHA_4h_R1 2 VTGGAASKLSK 11 1 F2Z388;P42766 F2Z388 RPL35 60S ribosomal protein L35 0 1 ; VTGGAASK(1)LSK;VTGGAASK(1)LSK 178.67 1.01E-11 33358000 7863.1 7180.8 7882.5 7595.7 8177.4 7426.5 9610.9 7556.4 5715.3 6372.5 FALSE TRUE FALSE 8690.176935 7413.462631 8956.68605 7742.725757 7550.849379 6793.72042 8529.456237 7363.11823 5675.526762 6647.249661 1.307334218 1.115267668 1.347427358 1.164801407 1.135935878 1.022034791 1.283155692 1.107693949 0.853815796 1 12.69854183 -9.558952292 1.339344915 1.000285404 1.199763815 0.437854261 0.108348921 0.380611089 1.226244735 0.068176218 0.016170532 2.76E-10 9.558952292 0.199478411 VTGPQATT(ph)GTPLVTMRPAS(ph)QAGK ddPTM_HeLa_SAHA_4h_R1 1 VTGPQATTGTPLVTMRPASQAGK 23 1 P51610-2;P51610;A6NEM2;P51610-4 P51610-2 HCFC1 Host cell factor 1;HCF N-terminal chain 1;HCF N-terminal chain 2;HCF N-terminal chain 3;HCF N-terminal chain 4;HCF N-terminal chain 5;HCF N-terminal chain 6;HCF C-terminal chain 1;HCF C-terminal chain 2;HCF C-terminal chain 3;HCF C-terminal chain 4;HCF C-terminal chain 5;HCF C-terminal chain 6 2 0 VT(0.269)GPQAT(0.332)T(0.357)GT(0.043)PLVT(0.004)MRPAS(0.996)QAGK 61.101 0.014017 12018000 670.47 1728.5 614.34 395.74 526.22 7936.8 0 10109 3808.5 3604.3 TRUE FALSE FALSE 740.9931108 1784.504534 698.0590559 403.4001199 485.9011373 7260.539989 0 9850.426418 3781.996338 3759.699012 0.197088413 0.474640265 0.185668867 0.107295855 0.129239371 1.931149266 0 2.620003991 1.005930615 1 11.87640145 -5.26946349 24.81232361 0.500110183 1.365345987 0.329335805 0.689014289 537.7326484 1662790.319 0.092998509 0.211448143 5.38E-06 5.26946349 0.865235804 VTGSLSS(ph)AKR ddPTM_HeLa_SAHA_4h_R1 1 VTGSLSSAKR 10 1 P39748;P39748-2 P39748 FEN1 Flap endonuclease 1 1 0 VTGS(0.001)LS(0.027)S(0.972)AKR 66.023 0.022983 4032900 2177.6 1830 2047.2 2205.2 2618.4 2639.5 2677.9 2395.7 2508.6 2318.7 TRUE FALSE FALSE 2406.649959 1889.293201 2326.181755 2247.884835 2417.778758 2414.599751 2376.575644 2334.421463 2491.142448 2418.670504 0.995030102 0.781128805 0.9617605 0.929388617 0.999631307 0.998316946 0.982595868 0.96516721 1.029963546 1 11.23999853 -7.473221413 24.9999573 0.99780771 0.946493593 0.181098113 0.060059413 547.3804329 275580.0347 0.010245246 0.01169432 3.36E-08 7.473221413 -0.051314117 VTIAQGGVLPNIQAVLLPK ddPTM_HeLa_SAHA_4h_R1 3 VTIAQGGVLPNIQAVLLPK 19 0 A0A0U1RR32;A0A0U1RRH7;Q99878;Q96KK5;Q16777;Q6FI13;P20671;P0C0S8;Q9BTM1;H0YFX9;Q93077;Q7L7L0;P04908 A0A0U1RR32;Q93077 HIST1H2AJ;HIST1H2AH;HIST2H2AC;HIST2H2AA3;HIST1H2AD;HIST1H2AG;H2AFJ;HIST1H2AC;HIST3H2A;HIST1H2AB Histone H2A type 1-J;Histone H2A type 1-H;Histone H2A type 2-C;Histone H2A type 2-A;Histone H2A type 1-D;Histone H2A type 1;Histone H2A.J;Histone H2A;Histone H2A type 1-C;Histone H2A type 3;Histone H2A type 1-B/E 0 0 ;; ;; 245.4 1.03E-60 219153000 3883.7 3580.38 3184.71 3919.2 3956.8 3897.74 4388.7 3761.56 3871.75 3895.92 FALSE FALSE TRUE 4292.205385 3696.386661 3618.705694 3995.061783 3653.630839 3565.630624 3894.871926 3665.344742 3844.806177 4063.892177 1.056180922 0.909568094 0.890453175 0.983062938 0.899047189 0.877393018 0.958409268 0.901929624 0.946089613 1 11.98864641 -7.254555817 24.99405102 1.02652988 0.917998286 0.427194928 0.041250514 225.770669 819767.7796 0.005833446 0.007061959 5.56E-08 7.254555817 -0.108531594 VTKNEEPS(ph)EEEIDAPKPK ddPTM_HeLa_SAHA_4h_R1 2 VTKNEEPSEEEIDAPKPK 18 2 Q9NR30;Q9NR30-2 Q9NR30 DDX21 Nucleolar RNA helicase 2 1 0 VT(0.003)KNEEPS(0.997)EEEIDAPKPK;VT(0.004)KNEEPS(0.996)EEEIDAPKPK ; 57.826 0.011779 29598000 6443.7 4456.4 4102.06 5333.1 5499.9 5945.2 6249.4 7903.7 5153.5 5143.4 TRUE FALSE FALSE 7121.477931 4600.790284 4661.067374 5436.329862 5078.49885 5438.635513 5546.201064 7701.534798 5117.636374 5365.157145 1.327356821 0.857531319 0.868766235 1.013265728 0.946570382 1.013695474 1.033744383 1.435472362 0.95386514 1 12.38940471 -7.257547402 24.94033086 1.154585163 1.014737695 0 0.179467444 581.0987962 3723758.375 0.031873658 0.038269679 5.53E-08 7.257547402 -0.139847469 VTLATLK ddPTM_HeLa_SAHA_4h_R1 1 VTLATLK 7 0 P06748;P06748-3;P06748-2;E5RI98 P06748 NPM1 Nucleophosmin 0 0 127.12 0.00082183 1552000 1908.7 1689.3 5640.1 3126.6 2846.3 1134.3 3222.9 817.27 403.77 1061.6 FALSE FALSE TRUE 2109.465823 1744.034428 6408.703456 3187.119864 2628.217109 1037.651259 2860.25081 796.3654168 400.9601317 1107.370771 1.904931824 1.574932691 5.787314982 2.87809643 2.373384937 0.937040498 2.582920629 0.719149753 0.362083001 1 10.11292263 -5.276635468 24.41908214 1.9494289 1.530025197 0.035211946 1.464669942 2804.01868 4505866.512 0.219244397 0.492126694 5.29E-06 5.276635468 -0.419403703 VTLELGGK ddPTM_HeLa_SAHA_4h_R1 1 VTLELGGK 8 0 H0Y2X5;P47895;H0YMG7;O94788-4;P05091-2;O94788-2;O94788-3;P05091;O94788;P00352;P30837 H0Y2X5;P00352;P30837 ALDH1A3;ALDH1A2;ALDH2;ALDH1A1;ALDH1B1 "Aldehyde dehydrogenase family 1 member A3;Retinal dehydrogenase 2;Aldehyde dehydrogenase, mitochondrial;Retinal dehydrogenase 1;Aldehyde dehydrogenase X, mitochondrial" 0 0 103.74 0.012527 969800 1176.4 1361 1307.2 883.44 1464.7 1260.6 1523.3 1043.4 1056.3 1239 FALSE FALSE TRUE 1300.13915 1405.097293 1485.338408 900.5402587 1352.475002 1153.189788 1351.894275 1016.711339 1048.949122 1292.419354 1.005973136 1.08718373 1.149269704 0.696786423 1.046467618 0.892272144 1.046018284 0.786672945 0.811616693 1 10.33585854 -6.297121926 24.99461744 1.020546811 0.910522544 0.165484755 0.127863824 694.9695668 486805.2873 0.015626919 0.023871097 5.05E-07 6.297121926 -0.110024268 VTLLEGDHVR ddPTM_HeLa_SAHA_4h_R1 1 VTLLEGDHVR 10 0 O75534-2;O75534;O75534-3;O75534-4;E9PLT0 O75534-2 CSDE1 Cold shock domain-containing protein E1 0 0 108.31 0.0067335 2225600 1078.2 1170.6 848.32 1122.1 925.01 2263.1 977.02 2515.2 2705.3 1888.8 FALSE FALSE TRUE 1191.610023 1208.528208 963.9246317 1143.819868 854.1359336 2070.271148 867.0831382 2450.864826 2686.473597 1970.235412 0.604805911 0.613392796 0.48924338 0.580549848 0.433519735 1.050773494 0.440091135 1.243945171 1.363529242 1 10.9441523 -4.237587654 23.47175463 0.731278288 1.243946546 0.216388171 0.29303109 2984.54406 2936894.499 0.033556178 2.40934279 5.79E-05 4.237587654 0.512668258 VTLTLPVLNAAR ddPTM_HeLa_SAHA_4h_R1 1 VTLTLPVLNAAR 12 0 M0R261;O95336 M0R261 PGLS 6-phosphogluconolactonase 0 0 105.4 0.012805 0 0 0 0 0 0 0 132.18 0 0 0 FALSE FALSE TRUE 0 0 0 0 0 0 117.3067585 0 0 0 0 VTLTSEEEAR ddPTM_HeLa_SAHA_4h_R1 4 VTLTSEEEAR 10 0 P00338-3;P00338;P00338-4 P00338-3 LDHA L-lactate dehydrogenase A chain 0 0 ;;; ;;; 164.68 8.77E-08 45282400 6022.66 6035.93 4971.55 6471.82 6617.92 7673.37 6595.67 7479.92 6504.85 6130.12 FALSE FALSE TRUE 6656.151012 6231.498092 5649.046943 6597.091435 6110.856399 7019.555707 5853.507853 7288.594477 6459.582219 6394.419473 1.040931243 0.974521318 0.883433902 1.031695131 0.955654602 1.097762781 0.915408799 1.139836776 1.010190565 1 12.64259767 -4.232849261 23.83399744 1.004254331 1.13983716 0.334080094 0.060524751 5116.485655 4265204.202 0.007915033 0.982951409 5.85E-05 4.232849261 0.13558283 VTLYNTDQDGSDS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 VTLYNTDQDGSDSPR 15 0 C9JXI1;C9JVP0;Q9UPW0-2;Q9UPW0 C9JXI1 FOXJ3 Forkhead box protein J3 1 0 VTLYNT(0.011)DQDGS(0.084)DS(0.905)PR 103.75 0.0031812 2457800 317.9 247.71 330.08 290 342.03 535.49 396.16 536.93 781.83 412.93 TRUE FALSE FALSE 351.3381806 255.7359665 375.0615834 295.6133693 315.8237353 489.8632394 351.5830342 523.1961081 776.3891814 430.7334331 0.815674275 0.593722119 0.870751037 0.686302355 0.733223175 1.13727703 0.816242732 1.214663334 1.802481817 1 8.750651498 -1.698985064 1.204845011 0.864967997 199.9897008 0.011799155 0.332255837 972.423306 3.071613773 0.023813802 533189.1065 0.019999306 1.698985064 199.1247328 VTMLFLGLHNVR ddPTM_HeLa_SAHA_4h_R1 3 VTMLFLGLHNVR 12 0 P14868-2;P14868;H7BZ35 P14868-2 DARS "Aspartate--tRNA ligase, cytoplasmic" 0 0 ;; ;; 144.17 3.74E-05 2416550 512.1 1223.84 1897.93 1336.049 1474.803 509.062 1714.7 313.55 348.584 473.27 FALSE FALSE TRUE 565.9650276 1263.493219 2156.570016 1361.91016 1361.803913 465.6870537 1521.757443 305.529845 346.1581756 493.6749858 1.146432458 2.559362445 4.368400422 2.758718184 2.758502966 0.943306967 3.082508709 0.618888649 0.701186379 1 8.947417736 -2.389869928 15.51530847 1.677744517 1.747855253 0 1.252304072 0 0 0.179319649 0 0.004075023 2.389869928 0.070110736 VTNDIS(ph)PESS(ph)PGVGR ddPTM_HeLa_SAHA_4h_R1 2 VTNDISPESSPGVGR 15 0 A0A5H1ZRS1;A0A4W8VX11;Q15154-5;Q15154-4;Q15154-2;Q15154;E7EV93;E9PGW9;E5RGQ4;Q15154-3 A0A5H1ZRS1 PCM1 Pericentriolar material 1 protein 2 0 VTNDIS(1)PES(0.015)S(0.985)PGVGR;VT(0.001)NDIS(1)PES(0.459)S(0.54)PGVGR ; 135.55 0.0023015 40399000 6658.1 7177.7 6898.7 6854.4 7736.2 8399 7989.3 7611.7 8112.6 6768.1 TRUE FALSE FALSE 7358.429506 7410.262189 7838.818909 6987.076824 7143.454027 7683.357949 7090.322937 7417.003736 8056.143756 7059.905913 1.042284359 1.049626196 1.11032909 0.989684127 1.011834168 1.088308831 1.004308418 1.050581102 1.141112057 1 12.78543324 -8.995180491 0.88067946 1.000907666 1.042798256 0 0.055856165 0.774809166 1.127727452 0.019702762 0.00665041 1.01E-09 8.995180491 0.04189059 VTNDISPES(ph)SPGVGR ddPTM_HeLa_SAHA_4h_R1 4 VTNDISPESSPGVGR 15 0 A0A5H1ZRS1;A0A4W8VX11;Q15154-5;Q15154-4;Q15154-2;Q15154;E7EV93;E9PGW9;E5RGQ4;Q15154-3 A0A5H1ZRS1 PCM1 Pericentriolar material 1 protein 1 0 VTNDIS(0.001)PES(0.992)S(0.006)PGVGR;VT(0.005)NDIS(0.006)PES(0.977)S(0.012)PGVGR;VT(0.039)NDIS(0.048)PES(0.913)S(0.001)PGVGR;VT(0.057)NDIS(0.122)PES(0.643)S(0.177)PGVGR ;;; 225.37 1.46E-24 227680400 7457 7567.37 6542 7279.92 8229.4 8824.4 8820.6 8654.7 8351.8 6981.99 TRUE FALSE FALSE 8241.361474 7812.557753 7433.509691 7420.833379 7598.86515 8072.511475 7828.082873 8433.325306 8293.679144 7283.017758 1.131586074 1.072708871 1.020663403 1.018922873 1.043367654 1.108402004 1.074840558 1.157943807 1.13876959 1 12.83032065 -9.596962509 1.404026246 1.000170057 1.082106754 0 0.060387919 0.434597452 1.542160544 0.033194904 0.00775466 2.53E-10 9.596962509 0.081936698 VTNGAFTGEIS(ph)PGMIK ddPTM_HeLa_SAHA_4h_R1 1 VTNGAFTGEISPGMIK 16 0 P60174;P60174-3 P60174 TPI1 Triosephosphate isomerase 1 0 VTNGAFT(0.082)GEIS(0.918)PGMIK 176.94 4.06E-09 4158900 372.37 367.04 577.99 447.32 537.96 526.44 557.59 325.03 553.58 422.8 TRUE FALSE FALSE 411.5375851 378.9323368 656.7554672 455.9785254 496.741621 481.5843503 494.8485057 316.7162032 549.7275917 441.0289771 0.933130489 0.859200543 1.489143574 1.033896975 1.126324225 1.091956255 1.122031729 0.718130145 1.246465924 1 8.784729639 VTNGAFTGEISPGMIK ddPTM_HeLa_SAHA_4h_R1 1 VTNGAFTGEISPGMIK 16 0 P60174;P60174-3 P60174 TPI1 Triosephosphate isomerase 0 0 184.51 5.63E-17 764650 353.53 348.21 587.48 205.76 489.38 474.1 410.92 401.59 227.71 368.9 FALSE FALSE TRUE 390.7159075 359.4922325 667.5387149 209.7427823 451.8838101 433.7040128 364.6822001 391.3179093 226.1253476 384.8050844 1.015360564 0.93421903 1.734745049 0.545062399 1.17431871 1.127074538 0.947706293 1.016924997 0.58763607 1 8.587984051 VTPDIEES(ph)LLEPENEK ddPTM_HeLa_SAHA_4h_R1 1 VTPDIEESLLEPENEK 16 0 Q14151 Q14151 SAFB2 Scaffold attachment factor B2 1 0 VTPDIEES(1)LLEPENEK 120.24 0.00070529 2614900 465.86 522.08 467.95 463.47 515.56 652.88 498.22 605.54 427.7 402.24 TRUE FALSE FALSE 514.8612922 538.9957345 531.719789 472.441132 476.0579042 597.250951 442.1589744 590.0511636 424.7236009 419.5825349 1.227079893 1.284600024 1.267259108 1.125979021 1.134598951 1.423440924 1.053806909 1.406281517 1.012252812 1 8.712810817 -9.086139695 0.662444626 0.982135054 1.237864267 0.412458608 0.111303154 0.671674933 0.487088813 0.096503142 0.022605073 8.20E-10 9.086139695 0.255729212 VTPLPSLAS(ph)PAVPAPGYCSR ddPTM_HeLa_SAHA_4h_R1 2 VTPLPSLASPAVPAPGYCSR 20 0 C9JWC4;Q8NCD3-3;Q8NCD3-2;Q8NCD3;H7C3V8 C9JWC4 HJURP Holliday junction recognition protein 1 0 VT(0.003)PLPS(0.004)LAS(0.994)PAVPAPGYCSR;VTPLPS(0.015)LAS(0.848)PAVPAPGY(0.055)CS(0.082)R ; 135.81 4.21E-05 9511200 1792.2 1349.1 1410.55 1427.8 1934.68 1822.45 1617.57 1707.34 2004.83 2011.9 TRUE FALSE FALSE 1980.711819 1392.811725 1602.772408 1455.437134 1786.445236 1667.167007 1435.556766 1663.668715 1990.878225 2098.642855 0.943806048 0.663672583 0.763718517 0.693513491 0.851238329 0.794402441 0.684040528 0.79273551 0.948650324 1 11.03524096 -7.374628458 5.415159404 0.975445885 0.751041046 0.75889921 0.055624261 0.073815209 3.039926611 0.009535027 0.010848625 4.22E-08 7.374628458 -0.224404839 VTPPEGY(ph)EVVTVFPK ddPTM_HeLa_SAHA_4h_R1 1 VTPPEGYEVVTVFPK 15 0 O00151 O00151 PDLIM1 PDZ and LIM domain protein 1 1 0 VTPPEGY(1)EVVTVFPK 168.83 7.83E-18 0 305.29 346.85 358.2 616.06 750.85 499.97 674.29 609.27 479.41 539.54 TRUE FALSE FALSE 337.4018029 358.0881676 407.0136306 627.9847321 693.3200352 457.3697432 598.4171146 593.6857556 476.0737468 562.8022098 0.599503337 0.636259349 0.723191245 1.115817815 1.231907095 0.812665152 1.063281387 1.054874599 0.845898858 1 9.136484183 -6.261746804 24.99917844 0.784219798 1.052416214 0.512520828 0.142808886 25.51039744 2074466.623 0.02864992 0.045513524 5.47E-07 6.261746804 0.268196416 VTPRPQQTSAS(ph)SPSSVNSR ddPTM_HeLa_SAHA_4h_R1 1 VTPRPQQTSASSPSSVNSR 19 1 Q9ULD2;H0YC63;Q9ULD2-5;Q9ULD2-2 Q9ULD2 MTUS1 Microtubule-associated tumor suppressor 1 1 0 VT(0.004)PRPQQT(0.013)S(0.013)AS(0.569)S(0.193)PS(0.193)S(0.016)VNSR 96.805 0.0041796 0 0 145.24 0 130.3 198.59 66.701 188.45 182.27 140.45 153.79 TRUE FALSE FALSE 0 149.9458713 0 132.8221449 183.3740771 61.01769955 167.24511 177.6077973 139.472597 160.4206395 0 0.934704361 0 0.827961697 1.143082821 0.380360655 1.0425411 1.107138071 0.869418034 1 7.325715959 -4.715461032 9.229962538 0.567288899 1.078055947 0.142801297 0.386472922 0.464959963 86.73558817 0.062007336 0.231618633 1.93E-05 4.715461032 0.510767048 VTPTEEHVEGPLPS(ph)PVTNGTSPAQLNGGSACSSR ddPTM_HeLa_SAHA_4h_R1 1 VTPTEEHVEGPLPSPVTNGTSPAQLNGGSACSSR 34 0 H3BN50;Q15599-3;H3BQS0;Q15599;H3BUQ9;Q15599-2 H3BN50;Q15599-2 SLC9A3R2 Na(+)/H(+) exchange regulatory cofactor NHE-RF2 1 0 VTPTEEHVEGPLPS(0.438)PVT(0.438)NGT(0.055)S(0.055)PAQLNGGS(0.013)ACS(0.001)SR 57.563 0.0021003 7215900 481.47 708.16 481.03 494.92 706.25 577.23 660.23 586.75 624.43 624.88 TRUE FALSE FALSE 532.1132237 731.1048486 546.5822633 504.4998923 652.1372776 528.0467566 585.9391828 571.7417846 620.0845408 651.8216349 0.816347901 1.121633296 0.838545752 0.773984577 1.000484247 0.810109282 0.898925644 0.877144535 0.951310155 1 9.348333428 VTPTEEHVEGPLPSPVTNGTS(ph)PAQLNGGSACSSR ddPTM_HeLa_SAHA_4h_R1 1 VTPTEEHVEGPLPSPVTNGTSPAQLNGGSACSSR 34 0 H3BN50;Q15599-3;H3BQS0;Q15599;H3BUQ9;Q15599-2 H3BN50;Q15599-2 SLC9A3R2 Na(+)/H(+) exchange regulatory cofactor NHE-RF2 1 0 VTPTEEHVEGPLPSPVTNGT(0.257)S(0.74)PAQLNGGS(0.003)ACSSR 147.06 1.00E-20 5618600 455.5 436.83 430.17 396 458.36 469.67 486.12 328.59 312.68 527.44 TRUE FALSE FALSE 503.4115799 450.9835786 488.7913274 403.6651526 423.2405558 429.6514737 431.4204982 320.1851436 310.5040344 550.1805196 0.914993465 0.819701103 0.888419909 0.733695829 0.769275794 0.780928183 0.784143536 0.581963796 0.564367555 1 9.103761248 -2.492096459 0.133860359 1.085004779 3.96E-16 0 0.146945524 14.33976688 0.189020837 0.174477037 2.816722239 0.003220353 2.492096459 -1.085004779 VTQDELK ddPTM_HeLa_SAHA_4h_R1 1 VTQDELK 7 0 P19338;H7BY16 P19338 NCL Nucleolin 0 0 101.54 0.02204 1669700 1273.2 1498.9 1176.4 1243.8 1637.9 1645.8 1699.7 1043.2 1142.1 1645.8 FALSE FALSE TRUE 1407.121018 1547.465343 1336.713666 1267.875548 1512.404456 1505.568581 1508.445283 1016.516455 1134.152033 1716.758492 0.819638303 0.901387907 0.778626505 0.738528776 0.880965181 0.876983331 0.87865899 0.592113835 0.660635749 1 10.74547138 -13.52287875 0.182557779 1.822170802 0.769621975 0 0.136838072 38.56682229 0.446198007 11.24235627 0.109415881 3.00E-14 13.52287875 -1.052548827 VTQDELKEVFEDAAEIR ddPTM_HeLa_SAHA_4h_R1 1 VTQDELKEVFEDAAEIR 17 1 P19338;H7BY16 P19338 NCL Nucleolin 0 0 102.39 0.0037826 1634700 497.81 250.39 445.58 398.94 462.96 455.79 480.83 513.48 260.93 287.53 FALSE FALSE TRUE 550.1719398 258.5028003 506.3013219 406.6620606 427.4881048 416.9541278 426.7257429 500.3459251 259.1141669 299.9268254 1.834353893 0.861886228 1.688082822 1.355870919 1.425308004 1.39018618 1.422766177 1.668226656 0.863924614 1 8.228466752 -9.642057209 1.472672128 1.000139465 1.496179498 0.385906495 0.255110484 0.377297006 1.471545759 0.182119029 0.041334974 2.28E-10 9.642057209 0.496040033 VTQGAAS(ph)PGHGIQEK ddPTM_HeLa_SAHA_4h_R1 2 VTQGAASPGHGIQEK 15 0 G5E9C0;Q9HB58-2;Q9HB58-5;Q9HB58-3;Q9HB58-7;Q9HB58;Q9HB58-6;Q9HB58-4 G5E9C0 SP110 Sp110 nuclear body protein 1 0 VTQGAAS(1)PGHGIQEK;VTQGAAS(1)PGHGIQEK ; 84.653 0.011855 8021300 1623.49 1259.51 1302.46 2244.7 2096.11 2276 2163.8 2060.05 2219.33 1365.17 TRUE FALSE FALSE 1794.256127 1300.31895 1479.952466 2288.149414 1935.506505 2082.071996 1920.323529 2007.356904 2203.885502 1424.02916 1.259985524 0.913126632 1.039271181 1.606813596 1.359176174 1.462099271 1.34851419 1.409631882 1.547640711 1 10.47576297 -6.274252333 24.94016621 1.10113771 1.429360834 0.37390711 0.178441771 380.42472 740488.4725 0.020091248 0.030811586 5.32E-07 6.274252333 0.328223124 VTQHES(ph)DNENEIQIQNK ddPTM_HeLa_SAHA_4h_R1 3 VTQHESDNENEIQIQNK 17 0 Q5VZL5-2;Q5VZL5-4;Q5VZL5 Q5VZL5-2 ZMYM4 Zinc finger MYM-type protein 4 1 0 VT(0.015)QHES(0.985)DNENEIQIQNK;VT(0.019)QHES(0.981)DNENEIQIQNK;VT(0.001)QHES(0.999)DNENEIQIQNK ;; 171.3 6.13E-09 73913700 9024.3 8504.9 8001.4 10342 10278.7 10499 9569.7 10364.5 10749.3 9518.1 TRUE FALSE FALSE 9973.517279 8780.46434 9091.789123 10542.18436 9491.148227 9604.426134 8492.89217 10099.3911 10674.49475 9928.471871 1.004536993 0.884372183 0.91572895 1.061813389 0.955952573 0.967361973 0.855407789 1.017215059 1.075139748 1 13.27735597 VTQVDGNS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 2 VTQVDGNSPVR 11 0 B0YIW6;P48444;P48444-2 B0YIW6 ARCN1 Coatomer subunit delta 1 0 VTQVDGNS(1)PVR;VTQVDGNS(1)PVR ; 150.9 0.00049017 11244100 2235.61 2745.9 2033.47 2544.2 2884.2 2595.4 2307.94 2287.5 2775.9 2768.4 TRUE FALSE FALSE 2470.761717 2834.868962 2310.580702 2593.44667 2663.213219 2374.257319 2048.244517 2228.989062 2756.582286 2887.759272 0.855598228 0.981684654 0.800129264 0.898082709 0.922242115 0.822179792 0.709285063 0.771874956 0.954574819 1 11.49573477 -1 0.091179581 1.084103344 0.175461224 0.580080715 0.058984616 81.82500885 0.539745067 0.710403964 9.343064512 0.1 1 -0.90864212 VTRS(ph)PPTQVAISSDSAR ddPTM_HeLa_SAHA_4h_R1 2 VTRSPPTQVAISSDSAR 17 1 H0YM82;Q6ZUT6-3;Q6ZUT6-4;Q6ZUT6 H0YM82 C15orf52 Uncharacterized protein C15orf52 1 0 VTRS(0.768)PPT(0.231)QVAIS(0.001)SDSAR;VT(0.003)RS(0.895)PPT(0.101)QVAISSDSAR ; 196.01 5.93E-12 39567000 3170.7 2630.8 2387.3 2904.2 2876.3 2999.1 3053.7 2932.9 2582.7 2540.8 TRUE FALSE FALSE 3504.208774 2716.039646 2712.628811 2960.414991 2655.918515 2743.559808 2710.089639 2857.880665 2564.72678 2650.346322 1.322170142 1.024786694 1.023499755 1.116991755 1.00210244 1.035170304 1.022541702 1.078304613 0.967694961 1 11.37196517 VTS(ph)GGVSESPSGFSK ddPTM_HeLa_SAHA_4h_R1 3 VTSGGVSESPSGFSK 15 0 E7EPP6;O14757-2;O14757-3;O14757 E7EPP6 CHEK1 Serine/threonine-protein kinase Chk1 1 0 VT(0.006)S(0.994)GGVSESPSGFSK;VT(0.051)S(0.949)GGVSESPSGFSK;VT(0.007)S(0.993)GGVSESPSGFSK ;; 249.58 4.03E-34 29661600 3758.1 3302.8 3233.67 4531.8 5210.3 5244.7 5180.5 5118.9 3695.35 3716.9 TRUE FALSE FALSE 4153.394201 3409.812887 3674.337707 4619.519542 4811.08794 4797.822054 4597.576506 4987.96595 3669.633758 3877.153749 1.071248258 0.879462902 0.947689451 1.191471848 1.240881392 1.237459839 1.185812274 1.286501974 0.946476203 1 11.92078223 -6.142509234 5.037715425 1.014895137 1.231686071 0.812990427 0.060460696 0.089811927 3.36835936 0.009654563 0.016227828 7.20E-07 6.142509234 0.216790933 VTS(ph)PTKV ddPTM_HeLa_SAHA_4h_R1 1 VTSPTKV 7 1 E7EX44;Q05682-3;Q05682-6;Q05682-2;Q05682;Q05682-5;Q05682-4 E7EX44;Q05682;Q05682-5 CALD1 Caldesmon 1 0 VT(0.003)S(0.997)PT(0.001)KV 152.06 2.86E-05 12112000 7201.4 9144.6 5869.9 6699.9 9607.9 9157 7848.1 6471.9 12306 8244.6 TRUE FALSE FALSE 7958.876293 9440.89104 6669.819403 6829.586253 8871.744778 8376.772084 6965.011133 6306.358169 12220.36154 8600.065054 0.925443731 1.097769724 0.775554529 0.794131929 1.031590427 0.974035898 0.809878889 0.733291915 1.420961524 1 13.07013186 -4.624906511 3.754245263 0.953105395 0.747381023 0.181656491 0.175158119 0.172342498 4.451265594 0.013256687 0.059833506 2.37E-05 4.624906511 -0.205724372 VTS(ph)PTTYVLDEDEPR ddPTM_HeLa_SAHA_4h_R1 1 VTSPTTYVLDEDEPR 15 0 J3KNS1;Q9UPW5-2;Q9UPW5;Q9UPW5-3 J3KNS1 AGTPBP1 Cytosolic carboxypeptidase 1 1 0 VT(0.006)S(0.978)PT(0.014)T(0.002)YVLDEDEPR 161.49 6.48E-06 2362600 350.4 455.76 446.71 352.92 370.97 428.03 506.59 437.12 285.49 373.1 TRUE FALSE FALSE 387.2566797 470.526923 507.5853124 359.7512769 342.5463587 391.559436 449.5871599 425.9391033 283.5032518 389.1861669 0.995042251 1.209002177 1.304222389 0.924368098 0.880160673 1.00609803 1.155198201 1.094435362 0.728451512 1 8.604316622 DDSDSTLK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 DDSDSTLKK 9 1 Q92797;M0R3C7;A0A087WUE9;Q92797-2 Q92797 SYMPK Symplekin 0 1 ; DDSDSTLK(1)K;DDSDSTLK(1)K 128.36 0.00070592 15885100 6330.2 5917.4 5732.2 8038.9 9246.2 9487.6 9801.2 12011 5235.1 5375.8 FALSE TRUE FALSE 6996.03948 6109.127643 6513.354364 8194.504534 8537.758154 8679.203104 8698.343181 11703.77601 5198.668513 5607.577047 1.2476047 1.089441588 1.161527396 1.461327141 1.522539607 1.547763505 1.551176758 2.087136015 0.927079284 1 12.45316182 -1 0.253613738 1.04160872 7.118814886 0.879116866 0.114231626 11.77489997 0.147455602 0.060486295 31.045723 0.1 1 6.077206166 up VTSFSTPPT(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 VTSFSTPPTPER 12 0 B0QY16;Q6ICG6-3;Q6ICG6;Q6ICG6-2 B0QY16 KIAA0930 Uncharacterized protein KIAA0930 1 0 VTSFSTPPT(1)PER 140.01 0.0011786 11587000 1341.2 1645.5 1391.5 1254.8 1730.6 1762.3 1537.3 1888.5 1818.3 1409.4 TRUE FALSE FALSE 1482.27357 1698.81528 1581.126373 1279.088468 1598.001802 1612.142126 1364.318958 1840.194905 1805.646302 1470.166131 1.008235422 1.155526062 1.075474628 0.870029884 1.086953214 1.096571395 0.928003257 1.251691809 1.228192014 1 10.52176348 -4.247032751 24.41418444 1.017841136 1.251692034 0.202675074 0.103841599 1303.376254 2208715.28 0.010499574 0.295080328 5.66E-05 4.247032751 0.233850898 VTSGGVSESPS(ph)GFSK ddPTM_HeLa_SAHA_4h_R1 1 VTSGGVSESPSGFSK 15 0 E7EPP6;O14757-2;O14757-3;O14757 E7EPP6 CHEK1 Serine/threonine-protein kinase Chk1 1 0 VTSGGVS(0.004)ES(0.299)PS(0.695)GFS(0.002)K 141.06 0.00014101 5243200 1234.5 1247.9 894.63 1237.4 1476.7 1305.7 1334.5 1391.2 1245.2 1343.1 TRUE FALSE FALSE 1364.350374 1288.332779 1016.545517 1261.351666 1363.555565 1194.447014 1184.338548 1355.615118 1236.534552 1401.007614 0.973835089 0.919575858 0.725581722 0.900317496 0.973267776 0.852562829 0.845347688 0.967600108 0.882603734 1 10.45224908 -7.181695483 3.802335629 0.988003944 0.876831795 0.113911106 0.073861658 0.184334895 5.091763906 0.011024791 0.013493657 6.58E-08 7.181695483 -0.111172149 VTSSITIYPSDSS(ph)SPR ddPTM_HeLa_SAHA_4h_R1 2 VTSSITIYPSDSSSPR 16 0 Q86V48-2;Q86V48-3;Q86V48 Q86V48-2 LUZP1 Leucine zipper protein 1 1 0 VTSSITIYPS(0.005)DS(0.171)S(0.797)S(0.026)PR;VTSSITIYPS(0.002)DS(0.314)S(0.682)S(0.002)PR ; 251.28 1.25E-37 27645800 2281.84 3013.76 2149.6 2604.31 3205.3 3902.8 3106.58 2740.27 3573.35 2891.66 TRUE FALSE FALSE 2521.854401 3111.407801 2442.536293 2654.720186 2959.710606 3570.259483 2757.019442 2670.177861 3548.482766 3016.333614 0.83606614 1.031519785 0.809769941 0.88011491 0.98122787 1.18364211 0.91403001 0.885239567 1.176422512 1 11.55858029 -5.608820311 7.127849835 0.918024081 1.001816419 0 0.126740061 0.368905427 25.78774412 0.015205061 0.030545967 2.46E-06 5.608820311 0.083792338 VTSSITIYPSDSSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 VTSSITIYPSDSSSPR 16 0 Q86V48-2;Q86V48-3;Q86V48 Q86V48-2 LUZP1 Leucine zipper protein 1 1 0 VTSSITIYPS(0.036)DS(0.022)S(0.132)S(0.81)PR 244.18 2.37E-36 15586000 811.21 1387.1 838.75 1196.5 1419.1 1677.3 1122 1005.6 1438.6 1105.4 TRUE FALSE FALSE 896.5367898 1432.04295 953.050482 1219.659988 1310.368865 1534.384604 995.7496071 979.8782081 1428.588665 1153.059204 0.777528844 1.24195093 0.826540805 1.057760073 1.136428087 1.330707564 0.863571969 0.849807369 1.238955173 1 10.17125087 -7.282639734 24.97016654 0.894944184 1.043665752 0 0.197696304 1196.326065 1409051.342 0.029886747 0.034196606 5.22E-08 7.282639734 0.148721569 VTSSMS(ph)SPSMQPK ddPTM_HeLa_SAHA_4h_R1 5 VTSSMSSPSMQPK 13 0 A0A2R8Y7R9;Q13136-2;Q13136 A0A2R8Y7R9 PPFIA1 Liprin-alpha-1 1 0 VTS(0.001)S(0.01)MS(0.494)S(0.494)PSMQPK;VTSS(0.004)MS(0.497)S(0.497)PS(0.002)MQPK;VTSSMS(0.499)S(0.499)PS(0.002)MQPK;VTS(0.001)S(0.011)MS(0.844)S(0.095)PS(0.048)MQPK;VTSSMS(0.918)S(0.081)PS(0.001)MQPK ;;;; 234.87 1.69E-23 88884000 14813.9 15807.2 15063.8 15055.8 15892 15643.5 15774.9 15860.9 15115.2 15970.7 TRUE FALSE FALSE 16372.09397 16319.36365 17116.61622 15347.22678 14674.35839 14310.58579 13999.86673 15455.20114 15010.01209 16659.27504 0.982761491 0.979596268 1.027452646 0.921242176 0.88085216 0.859016119 0.840364704 0.927723512 0.901000317 1 14.024038 -6.01803245 3.293547118 0.992882481 0.873651862 0.597970141 0.038049896 0.065476749 1.471571872 0.003543872 0.006415591 9.59E-07 6.01803245 -0.119230619 VTSSMSS(ph)PSMQPK ddPTM_HeLa_SAHA_4h_R1 4 VTSSMSSPSMQPK 13 0 A0A2R8Y7R9;Q13136-2;Q13136 A0A2R8Y7R9 PPFIA1 Liprin-alpha-1 1 0 VTSSMS(0.061)S(0.938)PS(0.001)MQPK;VTS(0.002)S(0.01)MS(0.093)S(0.448)PS(0.448)MQPK;VTSSMS(0.066)S(0.717)PS(0.217)MQPK;VTS(0.002)S(0.013)MS(0.213)S(0.708)PS(0.064)MQPK ;;; 260.5 2.08E-42 60750200 20161.9 17879.1 18572.1 18884.4 19851.9 20035.5 20939 20236.9 18315 19804.7 TRUE FALSE FALSE 22282.62115 18458.39457 21103.00907 19249.93487 18330.85171 18328.36268 18582.88861 19719.2694 18187.54442 20658.57754 1.078613525 0.893497848 1.021513172 0.931813182 0.887324003 0.887203519 0.899524112 0.95453181 0.880387064 1 14.3344533 -6.658321487 1.108672824 1.03428374 0.907149284 0 0.067874421 0.26751819 0.65827138 0.009556725 0.01547572 2.20E-07 6.658321487 -0.127134456 VTSSMSSPS(ph)MQPK ddPTM_HeLa_SAHA_4h_R1 1 VTSSMSSPSMQPK 13 0 A0A2R8Y7R9;Q13136-2;Q13136 A0A2R8Y7R9 PPFIA1 Liprin-alpha-1 1 0 VTS(0.001)S(0.003)MS(0.081)S(0.292)PS(0.623)MQPK 96.067 0.0066907 9730300 2159.8 1874.1 1580.5 1584.7 1601 2034.5 1711 1890.2 1676.6 1773.1 TRUE FALSE FALSE 2386.977674 1934.82207 1795.882309 1615.37416 1478.331726 1861.149154 1518.473777 1841.851421 1664.932404 1849.547018 1.290574205 1.046105912 0.970984945 0.873389075 0.799293941 1.006272961 0.820997662 0.995839199 0.900183876 1 10.85295626 -6.771337959 2.672603102 1.137670304 0.898331466 0.208855766 0.118333063 0.184942429 2.71668677 0.02002714 0.028086726 1.69E-07 6.771337959 -0.239338838 VTSSVPLPSGSTSS(ph)PGR ddPTM_HeLa_SAHA_4h_R1 4 VTSSVPLPSGSTSSPGR 17 0 Q15036-2;Q15036 Q15036-2 SNX17 Sorting nexin-17 1 0 VTSSVPLPS(0.001)GS(0.001)T(0.001)S(0.321)S(0.675)PGR;VTSSVPLPSGST(0.001)S(0.15)S(0.849)PGR;VTSSVPLPS(0.057)GS(0.057)T(0.057)S(0.19)S(0.64)PGR;VTSSVPLPSGST(0.009)S(0.291)S(0.7)PGR ;;; 206.13 1.00E-15 146069000 7380.9 9160.8 7513.3 8679.4 8243.3 10499.6 9505.4 9629.9 11725.4 8565.7 TRUE FALSE FALSE 8157.256927 9457.615931 8537.173396 8847.402338 7611.700135 9604.975011 8435.827375 9383.581102 11643.80199 8935.009247 0.912954503 1.058489775 0.955474489 0.990195096 0.851896168 1.074982101 0.944131913 1.050203849 1.303166193 1 13.12525351 -5.20319363 24.99999687 0.96164382 1.015208437 0 0.123533718 413.7700935 177595.7083 0.008361124 0.021316754 6.26E-06 5.20319363 0.053564617 VTTEIQLPSQS(ph)PVEEQSPASLSSLR ddPTM_HeLa_SAHA_4h_R1 4 VTTEIQLPSQSPVEEQSPASLSSLR 25 0 E9PMS6;Q8WWI1-3;E9PMP7;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 1 0 VTTEIQLPS(0.002)QS(0.998)PVEEQSPASLSSLR;VTTEIQLPS(0.008)QS(0.992)PVEEQSPASLSSLR;VTTEIQLPS(0.001)QS(0.999)PVEEQSPASLSSLR;VTTEIQLPSQS(0.999)PVEEQSPASLSSLR ;;; 165.3 8.07E-11 78205300 8176.4 8287.6 7220.6 8240.9 10020.6 11112.9 9623.8 9551.4 8477.1 8437.9 TRUE FALSE FALSE 9036.431267 8556.123678 8204.585765 8400.414536 9252.823793 10166.0184 8540.904696 9307.089018 8418.107171 8801.699163 1.026668953 0.972099082 0.932159304 0.954408277 1.051254266 1.155006347 0.970369986 1.057419578 0.956418416 1 13.10356635 -5.607615438 9.305309524 0.999227766 1.06034935 0.333018956 0.051860913 0.33811468 33.90013269 0.007540843 0.015096939 2.47E-06 5.607615438 0.061121585 VTTMDAELEFAIQPNTTGK ddPTM_HeLa_SAHA_4h_R1 1 VTTMDAELEFAIQPNTTGK 19 0 E7EQR4;P15311;P35241-3;E9PNP4;A0A2R8Y7M3;A0A2R8Y5S7;P35241;P35241-5;P26038 E7EQR4;A0A2R8Y7M3;P26038 EZR;RDX;MSN Ezrin;Radixin;Moesin 0 0 114.21 0.0036548 15617000 541.05 901.64 582.73 701.42 709.3 796.13 627.39 793.04 617.41 648.34 FALSE FALSE TRUE 597.9601214 930.8537276 662.1414097 714.9969984 654.9535872 728.2952451 556.794426 772.7551851 613.1133935 676.2931103 0.88417302 1.376405753 0.979074605 1.057229458 0.96844634 1.076892895 0.823303413 1.142633532 0.906579387 1 9.401504846 VTVDTGVIPASEEKAET(ph)PTAAEDDNEGDKK ddPTM_HeLa_SAHA_4h_R1 1 VTVDTGVIPASEEKAETPTAAEDDNEGDKK 30 2 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 1 0 VTVDT(0.002)GVIPAS(0.12)EEKAET(0.847)PT(0.031)AAEDDNEGDKK 65.836 0.00067479 18268000 1610.5 1606 1471.1 1858.7 1789.2 2162 1780.9 1358.8 1866.5 1440.8 TRUE FALSE FALSE 1779.899779 1658.035454 1671.573847 1894.677826 1652.111883 1977.785437 1580.508445 1324.043864 1853.510875 1502.919939 1.184294474 1.103209433 1.112217493 1.260664508 1.099268058 1.315961939 1.051625176 0.880980968 1.233273195 1 10.55355244 -4.337638207 4.037669156 1.118900763 0.875321857 0.392954483 0.096044327 0.189202468 5.237582894 0.01431368 0.109622658 4.60E-05 4.337638207 -0.243578906 VTVHST(ph)PVRR ddPTM_HeLa_SAHA_4h_R1 2 VTVHSTPVRR 10 1 Q9NYZ3 Q9NYZ3 GTSE1 G2 and S phase-expressed protein 1 1 0 VTVHS(0.048)T(0.952)PVRR;VTVHS(0.235)T(0.765)PVRR ; 66.538 0.007941 5620900 4109.3 3901.7 3606.6 4331.3 5152.5 5284.2 4460.1 4348.8 4389.8 4078.7 TRUE FALSE FALSE 4541.535028 4028.11764 4098.088666 4415.138575 4757.716563 4833.956432 3958.23781 4237.563993 4359.251024 4254.552718 1.067452992 0.946778171 0.963224324 1.037744475 1.118264805 1.136184401 0.930353452 0.996006931 1.024608534 1 12.05479175 -9.812910349 1.840688859 0.999886733 1.032438933 0 0.066181903 1.355627131 8.310568841 0.05189806 0.010720312 1.54E-10 9.812910349 0.0325522 VTVLFAGQHIAK ddPTM_HeLa_SAHA_4h_R1 2 VTVLFAGQHIAK 12 0 P21333-2;P21333;Q60FE5;A0A087WWY3;F8WE98 P21333-2 FLNA Filamin-A 0 0 ; ; 137.01 0.00010732 33719000 10195.7 12547 13011.3 11550.8 15854 10929.3 16173.7 6134.5 8245.5 11166.6 FALSE FALSE TRUE 11268.13051 12953.53103 14784.4122 11774.38244 14639.26995 9998.062153 14353.79271 5977.588373 8188.118894 11648.04677 0.967383693 1.112077525 1.269261061 1.010846081 1.256800409 0.858346669 1.232291816 0.513183754 0.702960681 1 13.50780043 -4.247581096 24.80863128 1.035651813 0.513183363 0.461456311 0.172236932 1201.462658 2150778.445 0.018371603 0.496986599 5.65E-05 4.247581096 -0.52246845 VTYTPMAPGSYLISIK ddPTM_HeLa_SAHA_4h_R1 3 VTYTPMAPGSYLISIK 16 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 0 0 ;; ;; 174.9 1.85E-11 2680020 414.913 584.022 332.49 199.81 797.87 585.65 651.99 252.1 619.614 410.9 FALSE FALSE TRUE 458.555453 602.944696 377.8000057 203.6776115 736.737373 535.7493252 578.6263693 245.651647 615.3020557 428.6159099 1.069851684 1.406724954 0.881441862 0.475198439 1.718875469 1.249952027 1.34998808 0.573127692 1.435555801 1 8.743541593 -8.686095368 0.477776724 0.985714964 1.112413972 0 0.383676464 6.460772447 2.741567107 0.373660602 0.111802154 2.06E-09 8.686095368 0.126699008 VVDALGNAIDGK ddPTM_HeLa_SAHA_4h_R1 1 VVDALGNAIDGK 12 0 P25705-2;P25705;K7EK77;K7EQH4;K7EJP1;K7ERX7;K7ENJ4 P25705-2 ATP5A1 "ATP synthase subunit alpha, mitochondrial" 0 0 148.18 0.00010327 1147200 689.81 1069 900.63 491.58 934.7 863.59 960 853.72 1030.3 1318.1 FALSE FALSE TRUE 762.3673808 1103.636301 1023.363166 501.0952417 863.0834879 790.0072736 851.9782734 831.8830786 1023.130058 1374.929742 0.554477336 0.802685598 0.744302152 0.364451525 0.627729157 0.574580104 0.619652225 0.605036791 0.744132611 1 10.42514218 -9.713206953 0.511418587 1.157818739 0.595076851 0.29632318 0.135645095 1.083878072 0.293206411 0.32538143 0.027550915 1.94E-10 9.713206953 -0.562741888 VVDES(ph)DETENQEEK ddPTM_HeLa_SAHA_4h_R1 1 VVDESDETENQEEK 14 0 O75717-2;O75717 O75717-2 WDHD1 WD repeat and HMG-box DNA-binding protein 1 1 0 VVDES(0.999)DET(0.001)ENQEEK 134.04 0.00038007 2998200 397.5 446.33 360.64 483.75 446.84 416.63 516.01 433.27 511.27 463.24 TRUE FALSE FALSE 439.3108738 460.7913848 409.7861411 493.1136808 412.6032157 381.1307801 457.9471967 422.1875808 507.7120304 483.2125434 0.909146254 0.9535998 0.84804533 1.020490232 0.853875218 0.788743557 0.947713802 0.873709895 1.050701265 1 8.916514095 -13.52287875 0.139006014 1.374315759 0.855954958 0.407636911 0.061718675 65.09118749 0.630695511 6.664836966 0.171949225 3.00E-14 13.52287875 -0.5183608 VVDLMAHMASK ddPTM_HeLa_SAHA_4h_R1 2 VVDLMAHMASK 11 0 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ; ; 99.752 0.0037827 7225800 4804 6888.4 4694.4 6817.5 7061.4 6240 6660.7 3149.4 5886.1 5000.6 FALSE FALSE TRUE 5309.306762 7111.58868 5334.128385 6949.462571 6520.357058 5708.316895 5911.220506 3068.842908 5845.138151 5216.200338 1.017849472 1.36336571 1.022608036 1.332284445 1.250020443 1.094343876 1.133242614 0.588329188 1.120573937 1 12.34878356 -2.697774138 9.000785533 1.060465593 0.713364114 0 0.210104845 0 0 0.026690083 0 0.002005515 2.697774138 -0.347101479 VVDLMAHMASKE ddPTM_HeLa_SAHA_4h_R1 2 VVDLMAHMASKE 12 1 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 ; ; 98.105 0.0055038 21709300 9449.5 10207.6 9198.7 11763.4 12057.2 9370 12465.5 7521.8 6251.5 9152.6 FALSE FALSE TRUE 10443.44177 10538.33294 10452.25093 11991.09762 11133.37994 8571.623286 11062.84913 7329.403247 6207.995303 9547.213378 1.093873296 1.103812445 1.094795991 1.255978802 1.166139218 0.897814152 1.158751637 0.767700789 0.6502416 1 13.22086399 -4.250918802 24.71592186 1.070668944 0.767700589 0.196933059 0.162807852 901.8128064 2118574.832 0.013453456 0.253452583 5.61E-05 4.250918802 -0.302968355 VVDNS(ph)PPPALPPK ddPTM_HeLa_SAHA_4h_R1 2 VVDNSPPPALPPK 13 0 Q13905-2;Q13905;Q13905-4;Q13905-3 Q13905-2 RAPGEF1 Rap guanine nucleotide exchange factor 1 1 0 VVDNS(1)PPPALPPK;VVDNS(1)PPPALPPK ; 119.77 0.0011655 21603700 11817.3 12158.1 10546.2 11990.5 13334.6 17164.3 13679.7 16345.3 14742.5 12203.9 TRUE FALSE FALSE 13060.29783 12552.03042 11983.38121 12222.59347 12312.90583 15701.80508 12140.42415 15927.21089 14639.90574 12730.06985 1.025940783 0.986014261 0.941344498 0.960135616 0.967230029 1.233442177 0.953680875 1.251148743 1.150025562 1 13.63595272 -1.000000005 0.780917069 1.003450394 48.33543607 0.306763164 0.093905359 319.6203579 1.138907046 0.0121339 26731.4197 0.099999999 1.000000005 47.33198568 VVDRDSEEAEIIR ddPTM_HeLa_SAHA_4h_R1 3 VVDRDSEEAEIIR 13 1 P09874 P09874 PARP1 Poly [ADP-ribose] polymerase 1 0 0 ;; ;; 164.13 7.08E-05 16051100 4220 4418.2 3928 4125.8 4079.9 5149.4 4439.6 4235 5269.4 4083.6 FALSE FALSE TRUE 4663.878962 4561.352579 4463.287384 4205.660825 3767.298943 4710.64215 3940.044524 4126.674832 5232.729816 4259.663981 1.094893631 1.070824506 1.047802692 0.987322203 0.884412235 1.105871771 0.92496604 0.968779427 1.228437229 1 12.05652391 -6.220464763 4.900554638 1.048599398 0.973040386 0.275073989 0.080777024 0.220053212 12.91339125 0.009194 0.015231753 6.02E-07 6.220464763 -0.075559012 VVDVEEQQLEES(ph)GPHDLTETSYLPR ddPTM_HeLa_SAHA_4h_R1 1 VVDVEEQQLEESGPHDLTETSYLPR 25 0 P38398-8;P38398-4;P38398;P38398-7;K7EPC7;H0Y8B8;B7ZA85;E7EUM2;A0A2R8Y7V5;P38398-6;P38398-5;P38398-3 P38398-8 BRCA1 Breast cancer type 1 susceptibility protein 1 0 VVDVEEQQLEES(0.999)GPHDLTETSYLPR 104.09 2.16E-06 8749700 435.33 286.01 373.89 531.95 415.14 644.63 419.47 503.49 637.96 521 TRUE FALSE FALSE 481.1200068 295.2769117 424.8417821 542.2466615 383.3320629 589.7038974 372.2701316 490.6114548 633.5203844 543.4628597 0.8852859 0.543324914 0.781731032 0.997762132 0.705350984 1.085085921 0.684996454 0.902750659 1.165710541 1 9.086037635 -8.095085669 1.554924827 0.97093091 0.820264471 0.241294067 0.161508574 0.441413853 2.173314545 0.033798168 0.028198743 8.03E-09 8.095085669 -0.150666439 VVDYSQFQES(ph)DDADEDYGR ddPTM_HeLa_SAHA_4h_R1 16 VVDYSQFQESDDADEDYGR 19 0 Q9H1E3 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 VVDYSQFQES(1)DDADEDYGR;VVDYS(0.005)QFQES(0.994)DDADEDYGR;VVDYSQFQES(0.999)DDADEDYGR;VVDYS(0.001)QFQES(0.999)DDADEDYGR;VVDYSQFQES(1)DDADEDYGR;VVDYSQFQES(1)DDADEDYGR;VVDYSQFQES(1)DDADEDYGR;VVDYSQFQES(1)DDADEDYGR;VVDYSQFQES(1)DDADEDYGR;VVDYSQFQES(1)DDADEDYGR;VVDYSQFQES(1)DDADEDYGR;VVDYSQFQES(1)DDADEDYGR;VVDYSQFQES(1)DDADEDYGR;VVDYSQFQES(1)DDADEDYGR;VVDYSQFQES(1)DDADEDYGR;VVDYSQFQES(1)DDADEDYGR ;;;;;;;;;;;;;;; 297.7 2.23E-91 910463000 17231.081 23900.903 18696.46 22781.09 22932.33 28425.64 23109.968 21644.76 33692.59 22760.944 TRUE FALSE FALSE 19043.52516 24675.30794 21244.3162 23222.05094 21175.25983 26003.61555 20509.57358 21091.11838 33458.12052 23742.27969 0.802093371 1.039298175 0.894788389 0.978088509 0.891879807 1.095245103 0.863841798 0.888335857 1.409221059 1 14.53517085 -7.249262805 24.92884539 0.906544089 0.949164473 0 0.178842586 2124.256753 4348949.721 0.015972273 0.019479002 5.63E-08 7.249262805 0.042620384 VVDYSQFQES(ph)DDADEDYGRDSGPPTK ddPTM_HeLa_SAHA_4h_R1 7 VVDYSQFQESDDADEDYGRDSGPPTK 26 1 Q9H1E3 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 VVDY(0.048)S(0.15)QFQES(0.798)DDADEDY(0.002)GRDS(0.001)GPPTK;VVDY(0.004)S(0.013)QFQES(0.98)DDADEDY(0.003)GRDSGPPTK;VVDY(0.001)S(0.003)QFQES(0.449)DDADEDY(0.387)GRDS(0.159)GPPT(0.001)K;VVDYS(0.002)QFQES(0.996)DDADEDYGRDS(0.001)GPPTK;VVDY(0.003)S(0.016)QFQES(0.98)DDADEDY(0.001)GRDSGPPTK;VVDYS(0.003)QFQES(0.995)DDADEDY(0.001)GRDSGPPTK;VVDYS(0.003)QFQES(0.995)DDADEDY(0.001)GRDSGPPTK ;;;;;; 98.446 5.22E-06 532285300 8005 9713.68 9659.65 9815.8 10003.9 10917.05 10739.56 10349.93 9472.44 9187.15 TRUE FALSE FALSE 8847.002628 10028.40961 10976.0168 10005.799 9237.403343 9986.855922 9531.116444 10085.19378 9406.520519 9583.252997 0.923173231 1.046451514 1.145333093 1.044092127 0.963911038 1.042115441 0.994559618 1.052376868 0.981558195 1 13.22629974 -7.24419603 24.51406795 0.963720692 1.04063579 0.331642198 0.047366128 572.4331299 813802.0522 0.008856532 0.010831702 5.70E-08 7.24419603 0.076915098 VVDYSQFQES(ph)DDADEDYGRDSGPPTKK ddPTM_HeLa_SAHA_4h_R1 4 VVDYSQFQESDDADEDYGRDSGPPTKK 27 2 Q9H1E3 Q9H1E3 NUCKS1 Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 1 0 VVDYS(0.021)QFQES(0.975)DDADEDY(0.001)GRDS(0.001)GPPT(0.003)KK;VVDYS(0.003)QFQES(0.997)DDADEDYGRDSGPPTKK;VVDYS(0.03)QFQES(0.97)DDADEDYGRDSGPPTKK;VVDY(0.001)S(0.067)QFQES(0.932)DDADEDYGRDSGPPTKK ;;; 128.71 7.30E-09 1395623900 6815.3 4886.15 6160.48 6127.02 5680.08 5402.25 6999.7 6744.01 4279.92 5768.56 TRUE FALSE FALSE 7532.164524 5044.464466 6999.998132 6245.617332 5244.873498 4941.947908 6212.075334 6571.507989 4250.135688 6017.270852 1.251757601 0.838330963 1.163317774 1.037948513 0.871636598 0.82129391 1.032374225 1.092107726 0.706322815 1 12.55489358 -5.982395052 8.668313592 1.099504613 0.950735974 0 0.175961202 0.254602585 103.767281 0.020971355 0.037707539 1.04E-06 5.982395052 -0.148768638 VVFEQTK ddPTM_HeLa_SAHA_4h_R1 1 VVFEQTK 7 0 P60174;P60174-3;P60174-4;U3KPZ0;U3KQF3 P60174 TPI1 Triosephosphate isomerase 0 0 126.28 0.013733 17786000 4032 3892.5 3758.5 4053.1 4037.1 4030.8 4109.3 4269.9 3783.6 3410.3 FALSE FALSE TRUE 4456.104259 4018.619554 4270.688807 4131.553611 3727.77827 3687.353163 3646.910749 4160.682141 3757.26962 3557.334723 1.252652507 1.129671472 1.200530493 1.16141829 1.047913272 1.036549397 1.025180657 1.169606592 1.056203566 1 11.79658101 -5.754857406 24.96588238 1.132350164 1.064248551 0.143963657 0.075464509 308.4183692 1169838.726 0.014936187 0.029314865 1.76E-06 5.754857406 -0.068101613 VVFPPGS(ph)PIPLRR ddPTM_HeLa_SAHA_4h_R1 1 VVFPPGSPIPLRR 13 1 A0A1B0GTU4;A0A1B0GV30 A0A1B0GTU4 1 0 VVFPPGS(1)PIPLRR 143.64 0.00014089 10985000 1229.9 1450.4 1445.3 1199.8 1557.1 1152 1257.1 730.51 1580.6 1406.4 TRUE FALSE FALSE 1359.266525 1497.393912 1642.257957 1223.023864 1437.795334 1053.843119 1115.647799 711.824612 1569.600476 1467.036787 0.926538814 1.020692818 1.119438839 0.833669527 0.980067676 0.718348121 0.760477044 0.485212517 1.069912145 1 10.51868933 -4.167259975 0.729014057 0.97800372 0.16031123 0.787011109 0.08470693 0.98945441 0.33671885 0.012858298 0.682982654 6.80E-05 4.167259975 -0.81769249 VVFVFGPDK ddPTM_HeLa_SAHA_4h_R1 1 VVFVFGPDK 9 0 P30041 P30041 PRDX6 Peroxiredoxin-6 0 0 105.57 0.0099848 158720 146.83 154.25 596.44 400.07 240.71 0 266.12 0 0 0 FALSE FALSE TRUE 162.2742531 159.2478012 677.7197371 407.8139334 222.2668518 0 236.1754772 0 0 0 0 VVFVFGPDK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 VVFVFGPDKK 10 1 P30041 P30041 PRDX6 Peroxiredoxin-6 0 1 ; VVFVFGPDK(1)K;VVFVFGPDK(1)K 131.44 0.00039721 1642110 696.84 2826.9 2953.2 1968.58 3258.2 1069.05 3339.5 780.33 634.04 427.4 FALSE TRUE FALSE 770.1368284 2918.493415 3355.646716 2006.684713 3008.55742 977.9609257 2963.730671 760.3702885 629.627664 445.8273056 1.727433064 6.546241959 7.526785986 4.50103591 6.748257412 2.193586874 6.647710074 1.70552651 1.41226806 1 8.80034117 -7.341406874 6.154373874 1.325452509 5.196547036 0.466658162 1.834855776 0.135565028 8.425724699 0.2950708 0.336634815 4.56E-08 7.341406874 3.871094528 VVGFHVLGPNAGEVTQGFAAALK ddPTM_HeLa_SAHA_4h_R1 1 VVGFHVLGPNAGEVTQGFAAALK 23 0 Q16881;A0A087WSY9;A0A087WSW9;E9PIR7;A0A182DWI3;Q16881-5;F8W809;Q16881-2;Q16881-4;Q16881-3;Q16881-6;E2QRB9;Q16881-7 Q16881 TXNRD1 "Thioredoxin reductase 1, cytoplasmic" 0 0 176.46 8.71E-21 1745800 399.22 343.99 473.82 469.13 464.09 482.77 538.57 153.79 317.04 459.51 FALSE FALSE TRUE 441.2117913 355.1355017 538.3897221 478.2106895 428.5315245 441.63528 477.9686862 149.8562745 314.8336928 479.3217249 0.920491954 0.740912592 1.123232464 0.997682068 0.894037349 0.921375471 0.99717718 0.312642358 0.656831678 1 8.90485052 -4.259121081 24.95489284 0.954489113 0.312642129 0.644305934 0.132043588 62.27575632 670310.8977 0.012386361 0.110775231 5.51E-05 4.259121081 -0.641846983 VVGQT(ph)TPESFEK ddPTM_HeLa_SAHA_4h_R1 1 VVGQTTPESFEK 12 0 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 VVGQT(0.481)T(0.481)PES(0.038)FEK 105.17 0.0071789 8606300 2366.3 2787.6 2626.2 2461 3230.6 3489 3011.4 2743.3 4027 3005.8 TRUE FALSE FALSE 2615.198291 2877.920069 2984.084859 2508.636214 2983.072126 3191.717571 2672.549346 2673.130358 3998.975779 3135.394748 0.834089007 0.917881256 0.951741359 0.800102193 0.951418359 1.017963551 0.852380501 0.852565808 1.275429763 1 11.61443138 -9.560687798 1.339330795 0.999898979 0.892295041 0.304205217 0.108365556 0.465686938 1.499240359 0.045041408 0.010652584 2.75E-10 9.560687798 -0.107603938 VVGQTT(ph)PESFEK ddPTM_HeLa_SAHA_4h_R1 1 VVGQTTPESFEK 12 0 Q02952-3;Q02952-2;Q02952 Q02952-3 AKAP12 A-kinase anchor protein 12 1 0 VVGQT(0.007)T(0.913)PES(0.08)FEK 121.21 0.0025864 7357400 2470.1 3078.2 2120 2999.5 3021.7 2948.1 2574.2 2780.9 4030.6 2764.4 TRUE FALSE FALSE 2729.916451 3177.9357 2408.90256 3057.55966 2790.177999 2696.905294 2284.544241 2709.768605 4002.550726 2883.586813 0.946708606 1.102077345 0.835384095 1.0603321 0.967606727 0.935260656 0.792257834 0.939721528 1.388045856 1 11.49364874 -4.973670176 6.494168592 0.978591706 0.864504999 0.097007259 0.149194403 0.146804306 21.04553709 0.009249825 0.027679601 1.06E-05 4.973670176 -0.114086706 VVGVLLGSWQK ddPTM_HeLa_SAHA_4h_R1 1 VVGVLLGSWQK 11 0 H3BNT7;H3BTM8;P51665 H3BNT7 PSMD7 26S proteasome non-ATPase regulatory subunit 7 0 0 108.57 0.0036804 0 147.44 65.761 321.09 136.42 219.22 0 207.56 0 0 167.44 FALSE FALSE TRUE 162.9484157 67.89169955 364.846473 139.0606064 202.423411 0 184.2048025 0 0 174.6591578 0.932950884 0.388709647 2.088905486 0.796182737 1.158962481 0 1.054652987 0 0 1 7.448398479 -5.279015151 24.65602679 1.007022986 0.42186115 0.14412489 0.582778779 666.6375534 935186.3067 0.063206849 0.141644362 5.26E-06 5.279015151 -0.585161836 VVIGMDVAASEFFR ddPTM_HeLa_SAHA_4h_R1 1 VVIGMDVAASEFFR 14 0 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 236.22 3.64E-24 9517900 194.14 155.42 203.45 242.49 0 231.55 203.51 203.25 270.62 301.95 FALSE FALSE TRUE 214.5605359 160.45571 231.1751065 247.1837446 0 211.8206373 180.6105192 198.0511593 268.7367334 314.9685422 0.681212589 0.509434081 0.733962525 0.784788674 0 0.672513629 0.573423993 0.628796634 0.853217694 1 8.299063935 -8.542952925 0.419976567 1.055160436 0.519454477 0.324160381 0.207760081 1.009915654 0.353528876 0.232529985 0.077941616 2.86E-09 8.542952925 -0.53570596 VVIIGAGKPAAVVLQTK ddPTM_HeLa_SAHA_4h_R1 2 VVIIGAGKPAAVVLQTK 17 1 Q14697;Q14697-2;F5H6X6;E9PKU7 Q14697 GANAB Neutral alpha-glucosidase AB 0 0 ; ; 171.08 1.99E-12 10959100 1742.85 2747.59 2290.88 2906.28 3536.2 3263.4 2913.87 2796.63 3141.88 3093.8 FALSE FALSE TRUE 1926.170959 2836.613719 2603.069196 2962.535252 3265.25712 2985.339961 2585.993679 2725.096254 3120.015401 3227.188859 0.596857217 0.878973572 0.806605783 0.917992526 1.011796106 0.925058957 0.80131464 0.844417967 0.96679046 1 11.65606229 -6.266274371 22.67895153 0.810889576 0.902217237 0 0.116975081 253.233829 1187820.289 0.024286155 0.037899679 5.42E-07 6.266274371 0.091327661 VVINVPIFK ddPTM_HeLa_SAHA_4h_R1 2 VVINVPIFK 9 0 A0A0C4DGB2;B4E2I4;E1CEI4;A0A2R8YEL6;P48506 A0A0C4DGB2 GCLC Glutamate--cysteine ligase catalytic subunit 0 0 ; ; 141.78 0.00031193 2587600 1189.99 1229.76 1307.85 1672.09 1527.59 1480.23 1741.35 1374.69 988.14 1352.63 FALSE FALSE TRUE 1315.158608 1269.605031 1486.076987 1704.45572 1410.546384 1354.106076 1545.408715 1339.52742 981.2634533 1410.948499 0.932109577 0.899823794 1.053246797 1.208021215 0.999715004 0.959713326 1.095297749 0.949380804 0.695463693 1 10.46244961 -6.73333136 24.56736851 0.96193609 1.04813059 0.231027177 0.111773475 198.4982351 173493.5886 0.011837865 0.0167391 1.85E-07 6.73333136 0.0861945 VVLAYEPVWAIGTGK ddPTM_HeLa_SAHA_4h_R1 3 VVLAYEPVWAIGTGK 15 0 P60174;P60174-3;P60174-4;U3KPZ0;U3KQF3 P60174 TPI1 Triosephosphate isomerase 0 0 ;; ;; 174.05 3.32E-06 132960000 1381.8 1457.7 1404.1 1490.2 1120.5 1577.4 1638.6 1646.5 1518.572 1318.2 FALSE FALSE TRUE 1527.144064 1504.930436 1595.443436 1519.044976 1034.647532 1442.996646 1454.220415 1604.384914 1508.004134 1375.034053 1.110622723 1.094467757 1.160293763 1.104732623 0.752452297 1.049426116 1.057588655 1.166796495 1.096703118 1 10.42525163 VVLEGPAPWGFR ddPTM_HeLa_SAHA_4h_R1 1 VVLEGPAPWGFR 12 0 Q9NR12-2;Q9NR12;D6RAN1;D6RF83;H7BYK4;D6RH06;Q9NR12-3;Q9NR12-5;Q9NR12-6;Q9NR12-4 Q9NR12-2 PDLIM7 PDZ and LIM domain protein 7 0 0 103.55 0.016776 340250 67.407 0 0 0 0 0 84.546 0 0 0 FALSE FALSE TRUE 74.49717753 0 0 0 0 0 75.03266157 0 0 0 0 VVLEHEEVR ddPTM_HeLa_SAHA_4h_R1 1 VVLEHEEVR 9 0 Q9Y678 Q9Y678 COPG1 Coatomer subunit gamma-1 0 0 158.76 8.92E-09 0 986.61 907.78 958.1 1142.9 1288 1248.7 1207.7 1199.3 1505.1 1165.7 FALSE FALSE TRUE 1090.386167 937.1926676 1088.664878 1165.022482 1189.313718 1142.303735 1071.806418 1168.623643 1494.625887 1215.959032 0.896729362 0.770743621 0.895313781 0.958109979 0.978086997 0.939426169 0.881449448 0.961071559 1.229174542 1 10.24787891 -9.181364523 1.086113348 0.996720389 0.909424815 0.302472426 0.093068423 0.542945677 1.208636229 0.032938534 0.010820405 6.59E-10 9.181364523 -0.087295574 VVLGDGVQLPPGDY(ph)S(ph)TTPGGTLFSTTPGGTR ddPTM_HeLa_SAHA_4h_R1 1 VVLGDGVQLPPGDYSTTPGGTLFSTTPGGTR 31 0 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 2 0 VVLGDGVQLPPGDY(0.525)S(0.521)T(0.241)T(0.242)PGGT(0.261)LFS(0.06)T(0.06)T(0.069)PGGT(0.021)R 51.025 0.006167 0 290.54 332.43 252.36 275.21 355.44 505.7 290.56 339.61 382.55 333.34 TRUE FALSE FALSE 321.1003302 343.2009501 286.7503066 280.5370875 328.206264 462.611515 257.8654241 330.9232679 379.8878034 347.7119187 0.923466562 0.987026707 0.824677818 0.806808948 0.94390283 1.330444802 0.741606514 0.951716781 1.092536042 1 8.44174871 VVLGDGVQLPPGDYSTT(ph)PGGTLFSTT(ph)PGGTR ddPTM_HeLa_SAHA_4h_R1 4 VVLGDGVQLPPGDYSTTPGGTLFSTTPGGTR 31 0 Q13541 Q13541 EIF4EBP1 Eukaryotic translation initiation factor 4E-binding protein 1 2 0 VVLGDGVQLPPGDY(0.162)S(0.101)T(0.391)T(0.407)PGGT(0.254)LFS(0.142)T(0.137)T(0.33)PGGT(0.076)R;VVLGDGVQLPPGDY(0.065)S(0.103)T(0.39)T(0.443)PGGT(0.04)LFS(0.307)T(0.2)T(0.427)PGGT(0.026)R;VVLGDGVQLPPGDY(0.152)S(0.144)T(0.17)T(0.534)PGGT(0.003)LFS(0.154)T(0.249)T(0.569)PGGT(0.026)R;VVLGDGVQLPPGDY(0.077)S(0.261)T(0.305)T(0.356)PGGT(0.003)LFS(0.054)T(0.292)T(0.637)PGGT(0.014)R ;;; 109.27 1.10E-09 157350200 16485.55 20356.51 16721.03 17658.34 19331.86 22891.3 18762.86 16704.96 23503.24 18534.3 TRUE FALSE FALSE 18219.57579 21016.07428 18999.68489 18000.14271 17850.65706 20940.83246 16651.61361 16277.67131 23339.67904 19333.40438 0.942388388 1.08703433 0.982738711 0.931038443 0.923306455 1.083142526 0.861287194 0.841945422 1.207220342 1 14.23880808 -4.623762902 9.206265196 0.98046986 0.846877368 0.29006861 0.089941759 0.159612476 12.91129039 0.007396815 0.0277914 2.38E-05 4.623762902 -0.133592492 VVLIGGKPDR ddPTM_HeLa_SAHA_4h_R1 2 VVLIGGKPDR 10 1 P61978;P61978-2;P61978-3;Q5T6W2 P61978 HNRNPK Heterogeneous nuclear ribonucleoprotein K 0 0 ; ; 128.86 0.00055247 13866900 5503.3 5628.5 5859.1 6344.4 6164 6643.7 6244.2 5313.2 6427.7 5641.3 FALSE FALSE TRUE 6082.162344 5810.867093 6657.547635 6467.205036 5691.715652 6077.619384 5541.586182 5177.296037 6382.969112 5884.524051 1.033586114 0.987482937 1.131365524 1.099019221 0.967234665 1.032814095 0.941722072 0.879815596 1.084704397 1 12.52271002 -4.50490805 1.890159421 1.026563626 0.864847958 0.513099837 0.050810748 0.332092658 1.734118072 0.007031138 0.079086669 3.13E-05 4.50490805 -0.161715668 VVLVLAGR ddPTM_HeLa_SAHA_4h_R1 2 VVLVLAGR 8 0 P61353;K7EQQ9;K7ERY7 P61353 RPL27 60S ribosomal protein L27 0 0 ; ; 150.07 4.07E-05 4151300 455.327 706.33 3377.59 1519.95 1526.89 247.575 1738.89 241 245.364 200.53 FALSE FALSE TRUE 503.220383 729.2155554 3837.870375 1549.37083 1409.900018 226.4802172 1543.225521 234.835569 243.6564919 209.1758297 2.405729112 3.48613679 18.34758051 7.407026101 6.740262583 1.082726515 7.377647423 1.122670671 1.164840567 1 7.708572347 -1.190951047 17.19881668 3.803697754 3.537782634 0 5.266650457 0 0 0.7405548 0 0.064424188 1.190951047 -0.26591512 VVNAVLTQIDQIKR ddPTM_HeLa_SAHA_4h_R1 1 VVNAVLTQIDQIKR 14 1 Q15645 Q15645 TRIP13 Pachytene checkpoint protein 2 homolog 0 0 93.716 0.0043056 0 0 134.97 0 126.02 0 145.76 195.9 0 156.62 0 FALSE FALSE TRUE 0 139.3431166 0 128.4592993 0 133.340428 173.8568164 0 155.5300687 0 0 VVNGAAASQPPS(ph)KR ddPTM_HeLa_SAHA_4h_R1 4 VVNGAAASQPPSKR 14 1 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 VVNGAAASQPPS(1)KR;VVNGAAAS(0.008)QPPS(0.992)KR;VVNGAAAS(0.003)QPPS(0.997)KR;VVNGAAASQPPS(1)KR ;;; 106.44 0.0015297 89325000 7286.5 6638.9 5731.4 7751.5 7795.6 8248.6 7033.7 8673.1 7227.3 7587.4 TRUE FALSE FALSE 8052.927502 6854.004716 6512.445344 7901.541491 7198.302812 7545.772875 6242.249564 8451.25466 7177.004631 7914.529946 1.017486516 0.866002752 0.822846763 0.99835891 0.909504779 0.953407584 0.788707555 1.067815109 0.906813756 1 12.95028795 -7.275223109 24.57898589 1.008257525 0.911259844 0.054215988 0.083188733 586.9813408 1046696.172 0.011931224 0.013684054 5.31E-08 7.275223109 -0.09699768 AKDDATLSGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 AKDDATLSGKR 11 2 Q13442 Q13442 PDAP1 28 kDa heat- and acid-stable phosphoprotein 0 1 ; AKDDATLSGK(1)R;AKDDATLSGK(1)R 177.44 6.33E-11 50504700 6232.8 6186.9 5925.7 10213.2 10266.4 9482.4 12373.9 13691.6 5612.6 4614.6 FALSE TRUE FALSE 6888.394501 6387.359619 6733.223536 10410.89125 9479.79065 8674.446173 10981.55621 13341.3887 5573.54146 4813.557989 1.431040099 1.326951838 1.398803868 2.162826599 1.969393673 1.802086148 2.281380266 2.771627293 1.157883934 1 12.23288796 -1 0.180665258 0.921710255 8.435976568 0.864590929 0.196811857 13.95911976 0.151871478 0.254891073 29.00326364 0.1 1 7.514266313 up VVNLGVLAQK ddPTM_HeLa_SAHA_4h_R1 1 VVNLGVLAQK 10 0 A0A0A0MTB8;Q8NI36 A0A0A0MTB8 WDR36 WD repeat-containing protein 36 0 0 99.139 0.012734 0 176.9 145.69 0 0 0 197.29 153.45 0 0 0 FALSE FALSE TRUE 195.5071536 150.4104516 0 0 0 180.4797821 136.1834021 0 0 0 0 VVNTDHGS(ph)PEQLQIPVTDSGR ddPTM_HeLa_SAHA_4h_R1 4 VVNTDHGSPEQLQIPVTDSGR 21 0 Q6IQ49-3;Q6IQ49-2;Q6IQ49 Q6IQ49-3 SDE2 Protein SDE2 homolog 1 0 VVNTDHGS(1)PEQLQIPVTDSGR;VVNT(0.001)DHGS(0.999)PEQLQIPVTDSGR;VVNTDHGS(1)PEQLQIPVTDSGR;VVNTDHGS(0.997)PEQLQIPVT(0.002)DSGR ;;; 127.16 1.15E-05 119779000 5162.65 5233.76 4565.08 5629.9 5672.97 7007.5 6519.1 7028.5 5912.9 5433.3 TRUE FALSE FALSE 5705.681214 5403.337258 5187.185328 5738.874855 5238.308264 6410.421577 5785.553711 6848.721147 5871.751647 5667.556153 1.006726896 0.953380454 0.915241982 1.012583678 0.924262261 1.131073324 1.02081983 1.208408168 1.036028844 1 12.46851106 -2.660569807 0.81594114 0.991218291 3.803155122 0.583500853 0.055251349 13.68096571 0.793815819 0.008018012 60.99426652 0.002184893 2.660569807 2.811936831 VVPCLVT(ph)PVTGR ddPTM_HeLa_SAHA_4h_R1 1 VVPCLVTPVTGR 12 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 1 0 VVPCLVT(0.771)PVT(0.229)GR 97.463 0.014085 2169000 691.58 626.45 569.02 505.17 665.2 659.24 704.03 597.94 572.93 565.42 TRUE FALSE FALSE 764.3235575 646.747391 646.5630823 514.9482958 614.2325197 603.0690432 624.8106915 582.6455606 568.9429335 589.7980233 1.295907289 1.096557407 1.096244912 0.873092611 1.041428583 1.022500957 1.059363828 0.98787303 0.964640285 1 9.204077177 -6.500701048 15.71501353 1.138306564 1.002269106 0.111394028 0.098977815 8.000983928 5668.276908 0.018253466 0.027555005 3.16E-07 6.500701048 -0.136037457 VVPEDGS(ph)PEKR ddPTM_HeLa_SAHA_4h_R1 4 VVPEDGSPEKR 11 1 Q02040 Q02040 AKAP17A A-kinase anchor protein 17A 1 0 VVPEDGS(1)PEKR;VVPEDGS(1)PEKR;VVPEDGS(1)PEKR;VVPEDGS(1)PEKR ;;; 124.6 0.0026648 287222900 10178.6 9045.7 8427.7 9511 10912.4 12266.6 11498.9 11918.9 10686 9670.5 TRUE FALSE FALSE 11249.23185 9338.786615 9576.183066 9695.099158 10076.29427 11221.41667 10205.01351 11614.0318 10611.63526 10087.44258 1.115171835 0.925783373 0.949317232 0.961105759 0.998894833 1.112414428 1.011655177 1.151335604 1.051964873 1 13.30027284 -1.834886141 1.410390823 1.030409781 135.0494664 0.259930572 0.062936752 1883.298279 4.354451169 0.010727004 816195.7329 0.014625606 1.834886141 134.0190566 VVPGQFDDADS(ph)SDSENR ddPTM_HeLa_SAHA_4h_R1 1 VVPGQFDDADSSDSENR 17 0 E9PFQ8;Q9BRS2 E9PFQ8 RIOK1 Serine/threonine-protein kinase RIO1 1 0 VVPGQFDDADS(0.685)S(0.315)DSENR 171.78 7.54E-09 18572000 509.39 763.82 473.94 785.71 778.54 980.19 588.36 658.11 964.61 639.26 TRUE FALSE FALSE 562.9699774 788.5682692 538.526075 800.9185532 718.8884334 896.6722976 522.1561843 641.2764991 957.8972005 666.8216271 0.844258726 1.182577525 0.807601393 1.201098646 1.07808206 1.344695884 0.783052263 0.961691213 1.436511897 1 9.381157086 -7.276685063 24.93931583 0.926455513 1.049651053 0 0.231988818 1347.675691 2204561.115 0.02827358 0.032400499 5.29E-08 7.276685063 0.12319554 VVPGQFDDADSS(ph)DSENR ddPTM_HeLa_SAHA_4h_R1 1 VVPGQFDDADSSDSENR 17 0 E9PFQ8;Q9BRS2 E9PFQ8 RIOK1 Serine/threonine-protein kinase RIO1 1 0 VVPGQFDDADS(0.048)S(0.934)DS(0.018)ENR 265.37 4.96E-59 19721000 945.77 1352.8 979.32 1229.4 829.74 1479 1192.8 953.66 1698 1026.1 TRUE FALSE FALSE 1045.250428 1396.631608 1112.77663 1253.196815 766.1655005 1352.980879 1058.583005 929.2667581 1686.18348 1070.340193 0.976559075 1.304848325 1.039647616 1.170839723 0.71581494 1.264066218 0.989015466 0.868197574 1.575371542 1 10.06385369 -4.310613983 4.721294269 1.026053629 0.86454159 0 0.236050652 0.332622681 15.68291496 0.020509606 0.146395714 4.89E-05 4.310613983 -0.161512039 VVPGQFDDADSS(ph)DSENRDLK ddPTM_HeLa_SAHA_4h_R1 4 VVPGQFDDADSSDSENRDLK 20 1 E9PFQ8;Q9BRS2 E9PFQ8 RIOK1 Serine/threonine-protein kinase RIO1 1 0 VVPGQFDDADS(0.086)S(0.914)DSENRDLK;VVPGQFDDADS(0.286)S(0.703)DS(0.011)ENRDLK;VVPGQFDDADS(0.165)S(0.78)DS(0.055)ENRDLK;VVPGQFDDADS(0.06)S(0.732)DS(0.208)ENRDLK ;;; 141.91 2.83E-05 183716000 9138.3 8555.7 8581.2 8689.2 9306.6 10220.9 10081.5 10941.6 8575.7 8495.8 TRUE FALSE FALSE 10099.50832 8832.910294 9750.601247 8857.392031 8593.530319 9350.021819 8947.103087 10661.72972 8516.021005 8862.095515 1.139629821 0.996706736 1.100259101 0.999469258 0.969695069 1.055057667 1.009592265 1.203070955 0.960948908 1 13.11343216 VVPQQIT(ph)HTSPR ddPTM_HeLa_SAHA_4h_R1 1 VVPQQITHTSPR 12 0 H7BXF5;A0A2R8YDB8;Q9H0E3;Q9H0E3-3 H7BXF5 SAP130 Histone deacetylase complex subunit SAP130 1 0 VVPQQIT(0.71)HT(0.145)S(0.145)PR 132.24 0.0010894 13494000 3235.7 3114.6 3064.5 3038.2 2824.8 3290.6 3571.4 3085.8 3226.1 3285.7 TRUE FALSE FALSE 3576.045772 3215.515084 3482.114101 3097.008754 2608.364434 3010.222368 3169.536673 3006.869704 3203.649307 3427.362607 1.043381218 0.938189346 1.015974818 0.903612809 0.761041283 0.878291186 0.924774247 0.877312981 0.934727274 1 11.74288312 -6.177441244 3.928375199 1.013429173 0.863044368 0.533112421 0.052885738 0.102497366 2.972911909 0.007416884 0.012540294 6.65E-07 6.177441244 -0.150384806 VVPQQITHTS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 VVPQQITHTSPR 12 0 H7BXF5;A0A2R8YDB8;Q9H0E3;Q9H0E3-3 H7BXF5 SAP130 Histone deacetylase complex subunit SAP130 1 0 VVPQQITHT(0.037)S(0.963)PR 148.18 2.80E-07 0 2593.3 2464.2 2695.5 2996.4 2845.9 3342.9 3210 2769.2 2551.6 3110.9 TRUE FALSE FALSE 2866.075192 2544.041697 3062.828702 3054.399655 2627.847757 3058.066113 2848.802352 2698.367874 2533.843208 3245.026123 0.883220992 0.783981885 0.943853327 0.941255798 0.80980789 0.942385669 0.877898126 0.831539646 0.780839078 1 11.66401438 -9.002778561 0.794801775 1.000858925 0.878600737 0 0.085965503 0.485420083 0.558516757 0.035026961 0.010680631 9.94E-10 9.002778561 -0.122258188 VVPS(ph)PLQFCAATPK ddPTM_HeLa_SAHA_4h_R1 4 VVPSPLQFCAATPK 14 0 Q9Y2F5 Q9Y2F5 ICE1 Little elongation complex subunit 1 1 0 VVPS(0.999)PLQFCAAT(0.001)PK;VVPS(1)PLQFCAATPK;VVPS(1)PLQFCAATPK;VVPS(1)PLQFCAATPK ;;; 99.344 0.0051002 28542600 8887.05 8527.83 7350.16 7740.54 7861.94 8688.69 8347.34 7568.68 8888.49 9265.8 TRUE FALSE FALSE 9821.830694 8804.137287 8351.801527 7890.369345 7259.559856 7948.364731 7408.075334 7375.084125 8826.634274 9665.293984 1.016195753 0.910902172 0.864102172 0.816361029 0.751095607 0.822361404 0.76646146 0.763048091 0.913229778 1 13.2385979 -6.745745443 1.289241575 1.009148971 0.77909981 0.827477922 0.037775245 0.057265786 0.191312757 0.004080548 0.00615294 1.80E-07 6.745745443 -0.230049161 SGADPVTSVGK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 SGADPVTSVGKR 12 1 Q92994-9;Q92994-3;Q92994-7;Q92994-8;Q92994-5;Q92994 Q92994-9 BRF1 Transcription factor IIIB 90 kDa subunit 0 1 ; SGADPVTSVGK(1)R;SGADPVTSVGK(1)R 164.66 9.28E-08 23465000 3806.8 3394.1 3462.2 5306.9 6102.5 7137.2 7385.7 9029.1 4635.9 2996.5 FALSE TRUE FALSE 4207.21669 3504.071067 3934.010586 5409.622723 5634.927768 6529.070407 6554.641598 8798.148696 4603.638394 3125.69378 1.346010514 1.121053857 1.258603965 1.730695041 1.802776652 2.088838788 2.097019753 2.814782674 1.472837302 1 11.60996073 -1 0.265547862 1.041343589 13.13268475 0.878520198 0.182869931 8.102945691 0.102466633 0.070023603 45.22689067 0.1 1 12.09134116 up VVQVYR ddPTM_HeLa_SAHA_4h_R1 1 VVQVYR 6 0 P61254;J3QRI7;J3QQQ9;J3QQV1;E5RIT6;Q9UNX3;J3QRC4;J3KS10;H7C1F9;Q2PPJ7-3;Q2PPJ7-2;Q2PPJ7 P61254 RPL26;RPL26L1;RALGAPA2 60S ribosomal protein L26;60S ribosomal protein L26-like 1;Ral GTPase-activating protein subunit alpha-2 0 0 137.2 0.0015045 15643000 3325.3 3238.6 3375.8 3355.7 3497.3 3510.7 3968.1 2996.7 2694.7 2555.5 FALSE FALSE TRUE 3675.070311 3343.532765 3835.836444 3420.654426 3229.33763 3211.568609 3521.598945 2920.048753 2675.947363 2665.680111 1.378661414 1.254288821 1.438971026 1.283220148 1.211449797 1.204783948 1.321088352 1.095423543 1.003851644 1 11.38028795 -9.414828454 1.118996778 0.998570323 1.284602049 0.582991029 0.091199001 0.290142892 0.644616914 0.065044815 0.016116461 3.85E-10 9.414828454 0.286031725 VVS(ph)DADDSDS(ph)DAVSDK ddPTM_HeLa_SAHA_4h_R1 1 VVSDADDSDSDAVSDK 16 0 Q96ST2-3;Q96ST2;Q96ST2-2 Q96ST2-3 IWS1 Protein IWS1 homolog 2 0 VVS(0.999)DADDS(0.394)DS(0.58)DAVS(0.026)DK 153.92 0.0003512 4621600 1110.5 1204.3 804.24 1186.8 920.05 1098.7 1172.9 975.39 1368.1 1157.2 TRUE FALSE FALSE 1227.307485 1243.32011 913.8376389 1209.77223 849.5559678 1005.084579 1040.922205 950.4409361 1358.579281 1207.092555 1.016746794 1.030012243 0.75705681 1.002219942 0.703803502 0.832649141 0.862338352 0.787380331 1.125497191 1 10.23732059 -6.771656222 24.99919435 1.009786989 0.828970688 0.61994852 0.082251194 97.26813439 238001.3056 0.010779434 0.014255953 1.69E-07 6.771656222 -0.180816301 VVS(ph)ETNDTK ddPTM_HeLa_SAHA_4h_R1 2 VVSETNDTK 9 0 P05783 P05783 KRT18 "Keratin, type I cytoskeletal 18" 1 0 VVS(0.797)ET(0.129)NDT(0.074)K;VVS(0.909)ET(0.091)NDTK ; 139.86 0.0010892 15559000 2858.4 3550 2507.1 3473.9 4160 5386.5 4141.1 3684.1 4376.1 4085 TRUE FALSE FALSE 3159.059627 3665.022329 2848.754532 3541.142358 3841.261699 4927.539896 3675.132529 3589.866057 4345.646364 4261.124342 0.741367624 0.860106872 0.668545272 0.83103474 0.9014667 1.156394299 0.862479532 0.84246921 1.019835615 1 12.05701844 -4.522534839 24.99469313 0.877194607 0.847471692 0.000831541 0.133566645 83.57253862 6072852.329 0.020262702 0.077610499 3.00E-05 4.522534839 -0.029722915 VVSDADDS(ph)DSDAVSDK ddPTM_HeLa_SAHA_4h_R1 1 VVSDADDSDSDAVSDK 16 0 Q96ST2-3;Q96ST2;Q96ST2-2 Q96ST2-3 IWS1 Protein IWS1 homolog 1 0 VVSDADDS(0.799)DS(0.199)DAVS(0.002)DK 187.56 1.45E-11 3283200 1915.5 2215.6 1773.1 1984.4 2514.1 2370.8 2462 2241.7 2819.6 2402.4 TRUE FALSE FALSE 2116.981079 2287.386894 2014.728834 2022.810931 2321.470201 2168.794502 2184.96928 2184.36056 2799.978174 2505.979221 0.844772 0.912771692 0.803968691 0.807193816 0.926372486 0.865447919 0.871902393 0.871659486 1.117318991 1 11.29115874 -9.281646827 0.797115749 1.008867346 0.861664911 0.649179941 0.053540826 0.359802115 0.370617414 0.034225152 0.007344009 5.23E-10 9.281646827 -0.147202435 VVSQSQPGS(ph)R ddPTM_HeLa_SAHA_4h_R1 2 VVSQSQPGSR 10 0 Q7Z460-4 Q7Z460-4 CLASP1 CLIP-associating protein 1 1 0 VVSQSQPGS(1)R;VVSQSQPGS(1)R ; 122.66 0.0026889 18816700 1779.37 2501.65 1642.77 2128.83 2470.17 3060.2 3184.6 2425.63 2860.4 3017 TRUE FALSE FALSE 1966.532301 2582.705101 1866.63814 2170.036583 2280.906108 2799.453744 2826.260427 2363.585897 2840.494244 3147.077635 0.624875687 0.820667744 0.593133808 0.689540213 0.724769571 0.889540732 0.898058693 0.751041497 0.902581561 1 11.61979705 -9.494002655 1.232544665 1.00033133 0.739081401 0.384505499 0.099603171 0.337561954 0.915790166 0.074348118 0.017988984 3.21E-10 9.494002655 -0.261249929 VVSS(ph)VSSSPR ddPTM_HeLa_SAHA_4h_R1 1 VVSSVSSSPR 10 0 P29375-2;P29375 P29375-2 KDM5A Lysine-specific demethylase 5A 1 0 VVS(0.008)S(0.502)VS(0.211)S(0.14)S(0.14)PR 110.38 0.0055402 6490100 3444.5 2992.6 2620.5 2780.8 3427.3 3891 4088.8 3868.4 2531 3410.1 TRUE FALSE FALSE 3806.808314 3089.562204 2977.608093 2834.626405 3164.701014 3559.46491 3628.717463 3769.451929 2513.386565 3557.1261 1.070192118 0.868555715 0.837082524 0.796886679 0.889679175 1.0006575 1.020126181 1.059690273 0.706577865 1 11.7964964 -7.266504354 24.82344946 1.033146278 0.921633315 0 0.130641591 408.2927933 2001040.593 0.015428661 0.017934381 5.41E-08 7.266504354 -0.111512963 VVSSIEQK ddPTM_HeLa_SAHA_4h_R1 1 VVSSIEQK 8 0 E7EX29;P63104;E7ESK7;E5RIR4;E9PD24;E7EVZ2 E7EX29 YWHAZ 14-3-3 protein zeta/delta 0 0 137.9 0.0066907 5908600 2093.2 1935.8 1841.4 2011 1500.5 2116.2 1793.9 1771.1 1912 1803.4 FALSE FALSE TRUE 2313.37238 1998.52119 2092.336402 2049.925813 1385.532014 1935.887855 1592.045651 1725.797827 1898.694236 1881.1534 1.229762751 1.062391398 1.11226251 1.089717518 0.736533243 1.029096221 0.846313571 0.917414724 1.009324512 1 10.87740178 -5.874439029 8.84943463 1.10698525 0.890594998 0.529668683 0.09150222 0.164420552 12.16202667 0.015198766 0.027604744 1.34E-06 5.874439029 -0.216390252 VVSSVSSS(ph)PR ddPTM_HeLa_SAHA_4h_R1 3 VVSSVSSSPR 10 0 P29375-2;P29375 P29375-2 KDM5A Lysine-specific demethylase 5A 1 0 VVSS(0.009)VS(0.031)S(0.103)S(0.856)PR;VVSS(0.004)VS(0.016)S(0.024)S(0.956)PR;VVSS(0.003)VS(0.008)S(0.027)S(0.962)PR ;; 149.94 0.00064368 87666000 11693.9 9718.6 8127.1 9631.2 11425.5 12569.6 12676.6 12246.6 8625.3 10046 TRUE FALSE FALSE 12923.91806 10033.48902 9234.618864 9817.625803 10550.08066 11498.59937 11250.19561 11933.3497 8565.275835 10479.13222 1.233300409 0.957473272 0.881238891 0.936873931 1.006770449 1.097285455 1.073580843 1.138772701 0.817364993 1 13.35523163 -11.63847549 12.01216792 0.701323063 1.069197187 0 0.130385424 0 0 0 0.017193493 2.30E-12 11.63847549 0.367874124 VVT(ph)DTDETELAR ddPTM_HeLa_SAHA_4h_R1 1 VVTDTDETELAR 12 0 P05198 P05198 EIF2S1 Eukaryotic translation initiation factor 2 subunit 1 1 0 VVT(0.986)DT(0.013)DETELAR 162.93 0.00024286 4829000 611.91 620.24 381.08 570.27 592.08 685.88 448.7 663.68 673.42 551.37 TRUE FALSE FALSE 676.2735013 640.336183 433.0115978 581.3084005 546.7149583 627.4391653 398.2110951 646.7040266 668.7336154 575.142259 1.175836918 1.113352693 0.752877381 1.010721072 0.950573445 1.090928645 0.692369738 1.124424464 1.162727316 1 9.167775035 VVT(ph)SENEAGK ddPTM_HeLa_SAHA_4h_R1 1 VVTSENEAGK 10 0 P49321-4;P49321;P49321-3;E9PPR5 P49321-4 NASP Nuclear autoantigenic sperm protein 1 0 VVT(0.5)S(0.5)ENEAGK 145.46 0.0015333 5254400 1960.7 3041.1 2419.1 2729.1 3186.1 3810.8 2772.5 2871 3930.4 2842.2 TRUE FALSE FALSE 2166.935422 3139.633635 2748.76235 2781.925677 2941.981706 3486.098401 2460.531003 2797.563977 3903.048026 2964.741151 0.730902062 1.058990811 0.927150874 0.938336784 0.992323294 1.175852536 0.82993114 0.943611545 1.316488633 1 11.53369043 -7.237873182 24.75289555 0.872925954 0.979314822 0 0.174986147 1079.233208 1133580.312 0.021285756 0.026061622 5.78E-08 7.237873182 0.106388867 VVTDTDETELAR ddPTM_HeLa_SAHA_4h_R1 2 VVTDTDETELAR 12 0 P05198 P05198 EIF2S1 Eukaryotic translation initiation factor 2 subunit 1 0 0 ; ; 143.5 0.0032612 19779500 1847.27 1954.14 1632.03 2285.1 1759.68 1966.87 2137.05 2171.2 2141.52 1774.8 FALSE FALSE TRUE 2041.574334 2017.455418 1854.434549 2329.331415 1624.853699 1799.281611 1896.58351 2115.663848 2126.616988 1851.320314 1.102766668 1.089738714 1.00168217 1.258200106 0.877672916 0.971891032 1.024449143 1.142786493 1.148702886 1 10.85433882 -4.253311857 23.2504456 1.045331454 1.142786622 0.064072485 0.099583472 763.2425374 2183267.804 0.012636335 0.17815706 5.58E-05 4.253311857 0.097455168 VVTS(ph)ENEAGK ddPTM_HeLa_SAHA_4h_R1 3 VVTSENEAGK 10 0 P49321-4;P49321;P49321-3;E9PPR5 P49321-4 NASP Nuclear autoantigenic sperm protein 1 0 VVT(0.209)S(0.791)ENEAGK;VVT(0.053)S(0.947)ENEAGK;VVT(0.038)S(0.962)ENEAGK ;; 174.77 6.11E-05 27686900 9150.8 11159.8 7052.3 9478.2 11416.5 13775.7 10233.6 10454.9 14580.6 11024.4 TRUE FALSE FALSE 10113.32313 11521.38484 8013.350717 9661.664267 10541.77024 12601.93286 9082.088395 10187.4788 14479.13242 11499.71584 0.879441133 1.001884308 0.696830324 0.840165479 0.916698324 1.095847327 0.789766332 0.885889612 1.259086105 1 13.48931059 -9.217567793 0.734608516 1.007968039 0.887087085 0.247300339 0.132209628 1.320910527 1.150377193 0.097384232 0.021120881 6.06E-10 9.217567793 -0.120880955 VVTVHLEK ddPTM_HeLa_SAHA_4h_R1 1 VVTVHLEK 8 0 Q9Y266 Q9Y266 NUDC Nuclear migration protein nudC 0 0 101.72 0.002925 6083400 6256 8566.1 6111.7 8022 7961.6 8578.3 8513.9 5610.7 9546 7168.5 FALSE FALSE TRUE 6914.034784 8843.64726 6944.570648 8177.27741 7351.583928 7847.38058 7555.893565 5467.186418 9479.568609 7477.569117 0.924636693 1.182690139 0.928720355 1.0935743 0.983151585 1.049456108 1.010474587 0.731144886 1.267734 1 12.86835363 -4.259190495 24.61905272 0.993754239 0.731144774 0.322670689 0.115440923 103.738577 1135553.574 0.01057548 0.093797238 5.51E-05 4.259190495 -0.262609465 VVTVSSRS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 VVTVSSRSPR 10 1 Q96RY5 Q96RY5 CRAMP1L Protein cramped-like 1 0 VVTVS(0.079)S(0.32)RS(0.601)PR 69.846 0.022943 1739800 965.3 868.66 1093 1239.8 1237.2 1281.5 1421.6 1421.2 980.9 1132.3 TRUE FALSE FALSE 1066.834683 896.8051539 1241.948348 1263.798122 1142.406003 1172.30899 1261.637827 1384.847762 974.073837 1181.118994 0.903240646 0.759284338 1.051501461 1.070000675 0.967223462 0.992540968 1.068171651 1.172487928 0.824704235 1 10.2059386 ISICSSDK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 ISICSSDKR 9 1 Q13547 Q13547 HDAC1 Histone deacetylase 1 0 1 ; ISICSSDK(1)R;ISICSSDK(1)R 122.28 0.0012023 10480300 4910.3 4310.7 4961.5 6953.2 7530.5 5456.9 12136.8 8246.2 1625.27 2353.53 FALSE TRUE FALSE 5426.787883 4450.369508 5637.627382 7087.78924 6953.514717 4991.94142 10771.13532 8035.274144 1613.959614 2455.002196 2.210502252 1.812776182 2.296383845 2.887080611 2.832386353 2.033375542 4.387423905 3.273021163 0.65741677 1 11.2615086 -1 0.096179496 6.85E-15 10.56808165 0.728929667 0.536580502 50.00649625 0.345155337 4.669211237 70.02018731 0.1 1 10.56808165 VVVFIKPTCPYCR ddPTM_HeLa_SAHA_4h_R1 2 VVVFIKPTCPYCR 13 1 P35754 P35754 GLRX Glutaredoxin-1 0 0 ; ; 140.63 0.0001036 11891900 1581.46 1879.39 2188.25 2739.48 2379.79 2255.2 2581.88 1668.46 2046.91 2306.15 FALSE FALSE TRUE 1747.805219 1940.283469 2486.453314 2792.506597 2197.451004 2063.044273 2291.360067 1625.783209 2032.665387 2405.579413 0.726563093 0.806576353 1.033619302 1.160845733 0.913480965 0.857608051 0.952518988 0.675838511 0.844979541 1 11.23216871 -4.25288748 24.00833105 0.900403571 0.67583831 0.261252612 0.119293914 881.222224 2473816.382 0.020085796 0.304013825 5.59E-05 4.25288748 -0.224565262 VVVS(ph)PTK ddPTM_HeLa_SAHA_4h_R1 3 VVVSPTK 7 0 P19338;C9J1H7;C9JWL1;C9JYW2;C9JLB1 P19338 NCL Nucleolin 1 0 VVVS(0.99)PT(0.01)K;VVVS(0.993)PT(0.007)K;VVVS(0.994)PT(0.006)K ;; 100.25 0.013567 176815000 13380.1 13292.2 11290.4 11934.4 13285.5 14428.2 13224.3 12537 14533.4 11830.6 TRUE FALSE FALSE 14787.48031 13722.876 12828.99691 12165.40757 12267.56786 13198.83619 11736.26696 12216.32169 14432.26089 12340.67506 1.198271588 1.112003673 1.039570108 0.985797576 0.994075915 1.069539237 0.951023092 0.989923293 1.169487148 1 13.59113369 -6.567474023 3.894472395 1.097435311 0.99983984 0.486715812 0.057199604 0.238216873 7.68039336 0.012513688 0.018271842 2.71E-07 6.567474023 -0.097595471 VVVTT(ph)PLHR ddPTM_HeLa_SAHA_4h_R1 1 VVVTTPLHR 9 0 P10244-2;P10244 P10244-2 MYBL2 Myb-related protein B 1 0 VVVT(0.028)T(0.972)PLHR 91.549 0.018734 3382900 1227.5 851.35 862.7 1481.9 1478.1 1132.5 1279.2 1398.5 913.69 986.35 TRUE FALSE FALSE 1356.614082 878.9342986 980.2642633 1510.584317 1364.848297 1036.004629 1135.261049 1362.728395 907.3315569 1028.876376 1.318539442 0.854266187 0.952752232 1.468188359 1.326542556 1.006928192 1.103398889 1.324482151 0.88186645 1 10.00685393 -6.289958331 24.98869449 1.11384164 1.229194031 0.198342139 0.185176738 1559.565142 1366509.038 0.030629792 0.046792493 5.13E-07 6.289958331 0.115352391 VWAHYEEQPVEEVMPVLEEK ddPTM_HeLa_SAHA_4h_R1 2 VWAHYEEQPVEEVMPVLEEK 20 0 Q7KZF4 Q7KZF4 SND1 Staphylococcal nuclease domain-containing protein 1 0 0 ; ; 167.99 7.40E-07 6463600 1287.73 1109.38 1085.72 1342.22 1383.9 1973.63 1367.01 1351.66 1723.52 1457.31 FALSE FALSE TRUE 1423.17935 1145.32464 1233.676267 1368.200609 1277.865881 1805.465621 1213.190437 1317.086494 1711.525884 1520.141766 0.936214886 0.753432782 0.811553432 0.900048035 0.840622835 1.187695556 0.798077169 0.866423464 1.125898862 1 10.56999016 -7.775048698 2.327503889 0.978239879 0.884219729 0.197727511 0.121702085 0.427724153 4.814614432 0.022374492 0.021975952 1.68E-08 7.775048698 -0.09402015 VWDPDNPLTDR ddPTM_HeLa_SAHA_4h_R1 1 VWDPDNPLTDR 11 0 O94776-2;O94776 O94776-2 MTA2 Metastasis-associated protein MTA2 0 0 106.88 0.006169 0 1297.5 1203.9 881.69 1070.4 1068.2 1157 1365.8 1261.6 1317.3 1112.1 FALSE FALSE TRUE 1433.977003 1242.90715 1001.842122 1091.11914 986.3547468 1058.417091 1212.116589 1229.330099 1308.132802 1160.048073 1.236135843 1.071427278 0.863621211 0.940580968 0.850270579 0.912390715 1.044884792 1.059723409 1.127653958 1 10.17996888 -6.918492401 6.587434443 1.113631442 0.94440268 0.49167566 0.082478147 0.180805873 11.96263043 0.017650034 0.023251446 1.21E-07 6.918492401 -0.169228763 VWDYETGDFER ddPTM_HeLa_SAHA_4h_R1 2 VWDYETGDFER 11 0 P43034 P43034 PAFAH1B1 Platelet-activating factor acetylhydrolase IB subunit alpha 0 0 ; ; 251.56 4.01E-32 34991000 1746.85 1979.37 1641.47 1326.07 1884.78 1620.25 1999.54 1694.39 1765.54 1607.56 FALSE FALSE TRUE 1930.591698 2043.502887 1865.160983 1351.738002 1740.368564 1482.195585 1774.546497 1651.049957 1753.253463 1676.869779 1.151306871 1.218641371 1.112287315 0.806107916 1.037867451 0.883906194 1.058249435 0.984602369 1.045551351 1 10.71155494 VWLDPNETNEIANANSR ddPTM_HeLa_SAHA_4h_R1 1 VWLDPNETNEIANANSR 17 0 J3QR09;J3KTE4;P84098 J3QR09 RPL19 Ribosomal protein L19;60S ribosomal protein L19 0 0 153.7 0.00023821 12733000 928.89 1053.1 1209.5 1134.3 1250.5 1458.4 1509 1339 1344.9 1289.9 FALSE FALSE TRUE 1026.594912 1087.221131 1374.324361 1156.256017 1154.68696 1334.136115 1339.203349 1304.750319 1335.540731 1345.513902 0.762976072 0.808034112 1.021412235 0.859341561 0.858175422 0.99154391 0.995309931 0.969704079 0.992587836 1 10.39394158 -5.253050168 23.6583023 0.885831677 0.986498388 0.172807198 0.081124028 416.4996289 1174556.058 0.014102311 0.035254305 5.58E-06 5.253050168 0.100666712 VWQVTIGTR ddPTM_HeLa_SAHA_4h_R1 2 VWQVTIGTR 9 0 P63244;H0YAF8;J3KPE3;D6RAC2;D6RHH4;H0Y8R5;D6RF23;D6RHJ5 P63244 GNB2L1 "Guanine nucleotide-binding protein subunit beta-2-like 1;Guanine nucleotide-binding protein subunit beta-2-like 1, N-terminally processed" 0 0 ; ; 129.42 0.0022851 29607000 1646.42 2241.35 2703.62 2450.64 2618.9 2310.38 2515.2 1194.07 1490.19 2077.9 FALSE FALSE TRUE 1819.59801 2313.971211 3072.055254 2498.075681 2418.240448 2113.522626 2232.183076 1163.527418 1479.819646 2167.488438 0.839496063 1.067581801 1.41733409 1.15252088 1.115687819 0.975102145 1.029847743 0.536809054 0.682734736 1 11.08180858 -2.780427654 11.3183934 0.980525846 0.697969495 0 0.235483774 0 0 0.029485385 0 0.001657954 2.780427654 -0.282556352 VWS(ph)PLVTEEGK ddPTM_HeLa_SAHA_4h_R1 1 VWSPLVTEEGK 11 0 O00151 O00151 PDLIM1 PDZ and LIM domain protein 1 1 0 VWS(1)PLVTEEGK 125.28 0.0017436 10734000 1957.5 2681.5 1979.2 2475.3 2811.8 3371.8 2747.9 2299.8 3685.4 2327.3 TRUE FALSE FALSE 2163.398831 2768.382359 2248.915069 2523.213011 2596.360491 3084.503671 2438.69906 2240.974446 3659.753001 2427.641293 0.891152592 1.140358902 0.926378652 1.039368138 1.069499229 1.270576374 1.004554943 0.923107731 1.5075345 1 11.24533955 -6.672143402 1.112566845 0.953608319 1.068939293 0 0.203358612 0.615099423 1.524188363 0.020045295 0.032188439 2.13E-07 6.672143402 0.115330974 VY(ph)ENVGLMQQQK ddPTM_HeLa_SAHA_4h_R1 4 VYENVGLMQQQK 12 0 Q06124;Q06124-1 Q06124 PTPN11 Tyrosine-protein phosphatase non-receptor type 11 1 0 VY(1)ENVGLMQQQK;VY(1)ENVGLMQQQK;VY(1)ENVGLMQQQK;VY(1)ENVGLMQQQK ;;; 230.95 2.77E-22 29296400 3492.73 3242.46 2350 4580.86 5363.77 4219.62 4385.75 5809.82 4356.76 3362.15 TRUE FALSE FALSE 3860.111367 3347.517831 2670.245762 4669.529169 4952.799101 3860.084637 3892.253867 5661.213217 4326.440952 3507.10874 1.100653459 0.954495021 0.761380943 1.331446931 1.412217147 1.100645838 1.109818416 1.614210917 1.233620419 1 11.77606645 -6.22190663 24.99666294 1.020770076 1.295983349 0.422092711 0.176817436 408.4216269 258246.1165 0.024394668 0.040453555 6.00E-07 6.22190663 0.275213273 VY(ph)RY(ph)DGVHFSVNDS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 VYRYDGVHFSVNDSK 15 1 O15047 O15047 SETD1A Histone-lysine N-methyltransferase SETD1A 3 0 VY(1)RY(0.998)DGVHFS(0.065)VNDS(0.938)K 68.283 0.0060262 0 437.58 565.69 430.44 493.39 526.97 575.41 577.22 657.89 844.94 475.76 TRUE FALSE FALSE 483.6066721 584.0187272 489.0981216 502.9402769 486.5936724 526.3818308 512.2696864 641.0621264 839.0599937 496.2723419 0.974478389 1.176810952 0.985543784 1.01343604 0.980497262 1.060671302 1.032235011 1.291754692 1.690724876 1 8.954988243 VYAILTHGIFSGPAISR ddPTM_HeLa_SAHA_4h_R1 2 VYAILTHGIFSGPAISR 17 0 B1ALA9;A0A2R8Y7H4;P60891;A0A0B4J207;P60891-2;P21108;P11908;P11908-2;B7ZB02;H7C540 B1ALA9 PRPS1;PRPS1L1;PRPS2 Ribose-phosphate pyrophosphokinase 1;Ribose-phosphate pyrophosphokinase 3;Ribose-phosphate pyrophosphokinase 2 0 0 ; ; 133.23 6.64E-06 7868100 953.99 1421.9 1422.2 1253 1456.4 865.68 2156 508.13 684.04 1200.1 FALSE FALSE TRUE 1054.335045 1467.970493 1616.01001 1277.253627 1344.810947 791.9191938 1913.401206 495.1327704 679.2797099 1251.842184 0.842226807 1.172648207 1.290905539 1.020299238 1.074265561 0.632603058 1.528468388 0.395523315 0.542624077 1 10.28983698 -2.633286067 14.32568706 0.972242612 0.648605898 0 0.333769463 0 0 0.035519961 0 0.002326558 2.633286067 -0.323636713 VYALPEDLVEVK(ac)PK ddPTM_HeLa_SAHA_4h_R1 1 VYALPEDLVEVKPK 14 1 P13797-3;P13797;A0A0A0MSQ0;P13797-2 P13797-3 PLS3 Plastin-3 0 1 VYALPEDLVEVK(1)PK 165.7 1.68E-07 294480 0 0 0 0 0 74.524 0 0 74.344 0 FALSE TRUE FALSE 0 0 0 0 0 68.17413594 0 0 73.82663405 0 0 VYALPEDLVEVKPK ddPTM_HeLa_SAHA_4h_R1 2 VYALPEDLVEVKPK 14 1 P13797-3;P13797;A0A0A0MSQ0;P13797-2 P13797-3 PLS3 Plastin-3 0 0 ; ; 212.59 7.67E-33 3639400 2212.8 2193.09 2176.14 2415.68 2707.5 2676.2 2624.5 2060.7 2200.56 2122.83 FALSE FALSE TRUE 2445.552457 2264.147555 2472.693026 2462.43898 2500.051935 2448.172704 2329.184353 2007.990278 2185.246124 2214.35559 1.104408193 1.022485984 1.116664838 1.112034124 1.129020084 1.105591494 1.051856514 0.906805703 0.986854204 1 11.1126712 -4.26843129 4.500394153 1.066729221 0.897047578 0.498760968 0.049158728 0.137278985 7.005241343 0.00751464 0.072855661 5.39E-05 4.26843129 -0.169681644 VYEDSGIPLPAES(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 VYEDSGIPLPAESPK 15 0 F8W038;F8W1H0;H0YIS7;Q8IXM2-2;Q8IXM2;Q8IXM2-3 F8W038 C17orf49;RNASEK-C17orf49;BAP18 Chromatin complexes subunit BAP18 1 0 VYEDSGIPLPAES(1)PK 248.67 5.78E-34 45145000 3002.3 3982.5 2662.5 3168.7 3470.5 3718.5 3054.1 2956.7 4665.4 3633.3 TRUE FALSE FALSE 3318.095689 4111.535613 3025.331634 3230.034771 3204.59104 3401.66288 2710.44463 2881.071895 4632.933102 3789.949344 0.875498691 1.084852392 0.798251206 0.852263309 0.845549834 0.897548376 0.715166453 0.760187442 1.222426128 1 11.88796285 -1 0.156593435 1.005967545 1.75E-12 0.4625082 0.108190705 40.99086467 0.409038696 0.143700018 9.505041081 0.1 1 -1.005967545 VYFQS(ph)PPGAAGEGPGGADDEGPVRR ddPTM_HeLa_SAHA_4h_R1 3 VYFQSPPGAAGEGPGGADDEGPVRR 25 1 Q96C90 Q96C90 PPP1R14B Protein phosphatase 1 regulatory subunit 14B 1 0 VY(0.026)FQS(0.974)PPGAAGEGPGGADDEGPVRR;VY(0.013)FQS(0.987)PPGAAGEGPGGADDEGPVRR;VY(0.023)FQS(0.977)PPGAAGEGPGGADDEGPVRR ;; 63.297 0.0010772 98462000 3142.35 2937.78 3130.04 3183.08 3457.52 3742.98 3464.9 2888.43 3225.02 3010.61 TRUE FALSE FALSE 3472.876791 3032.966 3556.585551 3244.693116 3192.605565 3424.057047 3075.020333 2814.548143 3202.576823 3140.412131 1.10586657 0.965785978 1.132521912 1.033206147 1.016619931 1.090320921 0.97917732 0.896235279 1.019795075 1 11.61673819 -4.471941012 3.305356897 1.049398384 0.899882855 0.475188624 0.048775897 0.175309512 3.503511912 0.00718761 0.049791017 3.37E-05 4.471941012 -0.149515529 VYIASSSGSTAIK ddPTM_HeLa_SAHA_4h_R1 2 VYIASSSGSTAIK 13 0 O75368 O75368 SH3BGRL SH3 domain-binding glutamic acid-rich-like protein 0 0 ; ; 192.3 1.00E-16 2965000 592.12 474.79 710.16 927.12 907.64 980.02 765.77 910.68 791.66 725.53 FALSE FALSE TRUE 654.4018983 490.1735075 806.9369064 945.0657482 838.0968193 896.5167826 679.6035442 887.3861242 786.1507736 756.811149 0.864683216 0.647682725 1.066232848 1.248747127 1.107405487 1.184597748 0.897982998 1.172533102 1.038767432 1 9.563789532 -6.542424791 24.99853784 0.910030026 1.116938335 0.4200611 0.129855613 191.7369897 245222.351 0.020386293 0.028832804 2.87E-07 6.542424791 0.206908309 VYNVTQHAVGIVVNK ddPTM_HeLa_SAHA_4h_R1 2 VYNVTQHAVGIVVNK 15 0 G3V1B3;M0R181;P46778 G3V1B3 RPL21 60S ribosomal protein L21 0 0 ; ; 151.54 7.11E-06 12804200 7943 11060.3 10467.3 11869.6 12506.3 12022.5 12918.5 10428.8 10785.4 12746.8 FALSE FALSE TRUE 8778.481184 11418.66098 11893.72913 12099.35327 11548.07 10998.11536 11464.87638 10162.0464 10710.34352 13296.37693 0.66021603 0.858779879 0.894509023 0.909973697 0.868512532 0.827151293 0.862255669 0.764271835 0.805508416 1 13.69874557 -9.690532249 1.578474911 0.99965322 0.809380808 0 0.092277913 0.33236798 1.496925183 0.064903601 0.014507797 2.04E-10 9.690532249 -0.190272411 VYQWDDPDPR ddPTM_HeLa_SAHA_4h_R1 2 VYQWDDPDPR 10 0 A0A0U1RQF0;P49327 A0A0U1RQF0 FASN Fatty acid synthase;[Acyl-carrier-protein] S-acetyltransferase;[Acyl-carrier-protein] S-malonyltransferase;3-oxoacyl-[acyl-carrier-protein] synthase;3-oxoacyl-[acyl-carrier-protein] reductase;3-hydroxyacyl-[acyl-carrier-protein] dehydratase;Enoyl-[acyl-carrier-protein] reductase;Oleoyl-[acyl-carrier-protein] hydrolase 0 0 ; ; 129.38 0.010396 22739000 3710.8 3779.5 3501.4 3525.8 4687.6 5070.8 3865.7 4328.6 3824.2 3966.1 FALSE FALSE TRUE 4101.11897 3901.95828 3978.552557 3594.046957 4328.437101 4638.739312 3430.721262 4217.88068 3797.587081 4137.097981 0.991303322 0.94316313 0.961677141 0.868736243 1.046249598 1.1212544 0.829257919 1.019526417 0.917935011 1 12.01440341 -7.477403297 14.51264071 0.996164868 0.968971519 0 0.082546154 13.45876701 4294.426688 0.013075622 0.014806525 3.33E-08 7.477403297 -0.027193349 VYREELK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 VYREELKR 8 2 P04083;Q5T3N1 P04083 ANXA1 Annexin A1;Annexin 0 1 ; VYREELK(1)R;VYREELK(1)R 98.629 0.0046163 11067300 1942.61 4201 3002.7 2536.8 4517.6 3653.1 4603.5 1953.01 2000.15 1358.5 FALSE TRUE FALSE 2146.942633 4337.115156 3411.892319 2585.903432 4171.462464 3341.835328 4085.502064 1903.054832 1986.230793 1417.071583 1.515055879 3.060618255 2.407706399 1.824822022 2.943720355 2.358268536 2.883059764 1.342948976 1.401644643 1 10.46869692 -7.45175705 4.708948866 1.218776584 2.418176238 0.505680516 0.501658088 0.116449909 4.665950686 0.084056305 0.094332876 3.53E-08 7.45175705 1.199399653 VYS(ph)PYNHR ddPTM_HeLa_SAHA_4h_R1 2 VYSPYNHR 8 0 Q9NS56-2;Q9NS56 Q9NS56-2 TOPORS E3 ubiquitin-protein ligase Topors 1 0 VY(0.001)S(0.955)PY(0.044)NHR;VY(0.002)S(0.973)PY(0.025)NHR ; 90.149 0.017793 50975000 4792.1 4672.7 3923.3 4934.9 5528.9 6011.6 5030.3 5327.6 4705.8 4823.1 TRUE FALSE FALSE 5296.155065 4824.098546 4457.946892 5030.422125 5105.276876 5499.37786 4464.277405 5191.327706 4673.051955 5031.047445 1.052694319 0.958865644 0.88608723 0.999875708 1.01475427 1.093088054 0.887345519 1.031858229 0.928842752 1 12.29664308 -7.256640631 24.82360292 1.024883428 0.980645183 0 0.067480548 659.378719 3410907.955 0.010174919 0.012250289 5.54E-08 7.256640631 -0.044238245 VYS(ph)SSEFLAVQPTPTFAER ddPTM_HeLa_SAHA_4h_R1 1 VYSSSEFLAVQPTPTFAER 19 0 O60307;V9GYV0 O60307 MAST3 Microtubule-associated serine/threonine-protein kinase 3 1 0 VYS(0.574)S(0.338)S(0.088)EFLAVQPTPTFAER 256.89 9.88E-52 5669300 302.39 246.42 212.13 294.82 268.43 363.99 315.74 280.57 267.75 198.5 TRUE FALSE FALSE 334.1967676 254.4041697 241.0379717 300.5266674 247.8629514 332.9760042 280.2121042 273.3934257 265.8867059 207.0583064 1.614022511 1.22865957 1.164106748 1.451410825 1.19706838 1.608126764 1.353300474 1.320369274 1.284115139 1 7.693893269 -9.573104181 1.353288337 0.999994599 1.393861697 0.132698756 0.171530632 0.316302062 1.038447254 0.113166954 0.026498547 2.67E-10 9.573104181 0.393867098 VYSTSVTGSR ddPTM_HeLa_SAHA_4h_R1 1 VYSTSVTGSR 10 0 Q5T123;Q9H299 Q5T123 SH3BGRL3 SH3 domain-binding glutamic acid-rich-like protein 3 0 0 120.15 0.018277 8120900 486.75 643.75 412.05 611.97 532.28 653.35 715.37 603.78 543.82 389.36 FALSE FALSE TRUE 537.9485983 664.6079224 468.2020281 623.8155643 491.4968214 597.6809044 634.8746848 588.3361819 540.0355123 406.1472151 1.32451628 1.63637198 1.152788966 1.53593461 1.210144507 1.471586859 1.56316395 1.448578643 1.329654599 1 8.665858942 -9.069172905 0.365970394 0.865203865 1.460843761 0.13638233 0.17767863 1.297792477 0.255190558 0.311542824 0.058840391 8.53E-10 9.069172905 0.595639896 VYTY(ph)IQSR ddPTM_HeLa_SAHA_4h_R1 2 VYTYIQSR 8 0 Q92630;A0A0A0MTH5;Q9NR20-5;Q9NR20-2;Q9NR20;Q92630-2;Q9NR20-3;Q9NR20-4 Q92630 DYRK2;DYRK4 Dual specificity tyrosine-phosphorylation-regulated kinase 2;Dual specificity tyrosine-phosphorylation-regulated kinase 4 1 0 VY(0.002)T(0.461)Y(0.537)IQSR;VYT(0.077)Y(0.923)IQSR ; 112.41 0.0034275 7121200 932.57 784.93 898.83 927.42 883.24 865.43 710.77 993.16 841.46 979.68 TRUE FALSE FALSE 1030.661991 810.362247 1021.317871 945.3715552 815.566342 791.6904952 630.792289 967.7564053 835.6042113 1021.918799 1.008555662 0.792981054 0.999411961 0.925094593 0.798073529 0.774709787 0.617262633 0.946999317 0.817681612 1 9.99706485 -6.110020102 0.705617108 1.0021559 0.752337436 0.124794814 0.114030902 0.446029523 0.422748695 0.018936439 0.054448938 7.76E-07 6.110020102 -0.249818464 VYVGNLGNNGNKTELER ddPTM_HeLa_SAHA_4h_R1 1 VYVGNLGNNGNKTELER 17 1 P84103;P84103-2;A0A087X2D0 P84103 SRSF3 Serine/arginine-rich splicing factor 3 0 0 135.61 0.014781 0 409.15 287.44 359.94 418.64 325.95 553.09 584.71 290.93 281.22 338.54 FALSE FALSE TRUE 452.1862742 296.7532446 408.9907487 426.7433826 300.9757814 505.9636204 518.9168919 283.4884319 279.2629671 353.1361162 1.280487193 0.840336717 1.158167432 1.208438795 0.852293967 1.432772229 1.469452905 0.802773828 0.790808287 1 8.464080567 -5.242077906 24.9892449 1.104488893 1.258444936 0.073283032 0.238726843 1595.844871 2059703.754 0.030219477 0.076919431 5.73E-06 5.242077906 0.153956043 VYYS(ph)PPVAR ddPTM_HeLa_SAHA_4h_R1 2 VYYSPPVAR 9 0 O94964-2;H0YDM2;O94964;O94964-3 O94964-2 SOGA1 Protein SOGA1;N-terminal form;C-terminal 80 kDa form 1 0 VYYS(1)PPVAR;VY(0.001)Y(0.001)S(0.999)PPVAR ; 101.38 0.0097702 79929000 3365.6 3496.7 2985.9 3127.9 3488.7 3732.9 3546.3 3379.4 3281.1 3200.9 TRUE FALSE FALSE 3719.60925 3609.995374 3392.802902 3188.445028 3221.39656 3414.835919 3147.260991 3292.959841 3258.266558 3338.906464 1.114020201 1.081190927 1.016141943 0.954936912 0.964805871 1.022740815 0.942602323 0.986239021 0.975848408 1 11.70515996 -6.519696604 4.643178286 1.057275838 0.975170964 0.353070528 0.042074594 0.149601588 8.484904852 0.007441543 0.011017126 3.02E-07 6.519696604 -0.082104874 VYYT(ph)AGYNSPVK ddPTM_HeLa_SAHA_4h_R1 1 VYYTAGYNSPVK 12 0 Q9Y5Z4-2;Q9Y5Z4 Q9Y5Z4-2 HEBP2 Heme-binding protein 2 1 0 VYY(0.307)T(0.687)AGYNS(0.005)PVK 140.63 0.0011381 7930000 2666.8 2944.3 2915.2 3052.9 3076.8 3028.3 2959 2202.9 2764.8 2649.4 TRUE FALSE FALSE 2947.30626 3039.697252 3312.468274 3111.993294 2841.056249 2770.271803 2626.045532 2146.553008 2745.559532 2763.6286 1.066462498 1.099893543 1.198593861 1.126053368 1.028016662 1.002403797 0.950216513 0.776715441 0.993461832 1 11.43234803 -4.191317472 1.257633351 1.056636983 0.620641642 0.696945266 0.05955763 0.853146369 1.010410163 0.01019188 0.499219929 6.44E-05 4.191317472 -0.435995341 VYYTAGYNS(ph)PVK ddPTM_HeLa_SAHA_4h_R1 1 VYYTAGYNSPVK 12 0 Q9Y5Z4-2;Q9Y5Z4 Q9Y5Z4-2 HEBP2 Heme-binding protein 2 1 0 VYYT(0.002)AGYNS(0.998)PVK 167.89 9.55E-05 8068000 1905 2330.5 1647.8 2004.1 2046 2123.3 2033 1190.1 1826.9 1591.3 TRUE FALSE FALSE 2105.37664 2406.009729 1872.353603 2042.892253 1889.235922 1942.382895 1804.241489 1159.658965 1814.186454 1659.908731 1.268368918 1.449483146 1.127985875 1.230725651 1.138156507 1.170174515 1.086952226 0.69862815 1.092943498 1 10.6968882 -4.249166357 2.786753156 1.162844366 0.604294337 0.612799535 0.11458942 0.299736096 3.07548456 0.019644476 0.385808532 5.63E-05 4.249166357 -0.558550028 WAAHGAS(ph)PEDFSLTLGAR ddPTM_HeLa_SAHA_4h_R1 2 WAAHGASPEDFSLTLGAR 18 0 Q86UU1-3;Q86UU1-2;Q86UU1 Q86UU1-3 PHLDB1 Pleckstrin homology-like domain family B member 1 1 0 WAAHGAS(0.979)PEDFS(0.017)LT(0.003)LGAR;WAAHGAS(1)PEDFSLTLGAR ; 110.32 0.00035824 4793100 1901.42 1873.21 2105.97 2150.49 2418.95 2019.33 2261.04 1505.99 2382 2254.2 TRUE FALSE FALSE 2101.42008 1933.903233 2392.960624 2192.115844 2233.610574 1847.271724 2006.621828 1467.468956 2365.423468 2351.389594 0.893692855 0.822451217 1.017679346 0.93226399 0.949910887 0.785608531 0.853377013 0.624085843 1.005968332 1 11.19929788 -3.506156944 0.687695236 0.945160178 1.00E-15 0.683351735 0.065316044 3.259626129 0.5136513 0.011257626 3.06715222 0.000311776 3.506156944 -0.945160178 WADPQISESNFS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 WADPQISESNFSPK 14 0 D6RAW2;Q9BW91-2;Q9BW91 D6RAW2 NUDT9 "ADP-ribose pyrophosphatase, mitochondrial" 1 0 WADPQIS(0.009)ES(0.06)NFS(0.931)PK 127.75 0.00059043 10235000 2313.1 2671.2 2322.3 2792.4 2949 2832.5 2618.6 2425.9 3603 2689.5 TRUE FALSE FALSE 2556.402471 2757.748633 2638.77095 2846.45094 2723.048257 2591.155065 2323.948236 2363.848991 3577.92643 2805.457507 0.911224805 0.982994262 0.940584893 1.014612031 0.970625379 0.923612301 0.828366935 0.842589483 1.27534508 1 11.45402035 -4.8863207 3.32295563 0.962559533 0.834106995 0.239036329 0.102864944 0.108428837 2.325412008 0.005261173 0.018665571 1.30E-05 4.8863207 -0.128452537 WAHDKFS(ph)GEEGEIEDDESGTENR ddPTM_HeLa_SAHA_4h_R1 4 WAHDKFSGEEGEIEDDESGTENR 23 1 Q9Y2W1 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 WAHDKFS(0.997)GEEGEIEDDES(0.002)GT(0.001)ENR;WAHDKFS(1)GEEGEIEDDESGTENR;WAHDKFS(0.996)GEEGEIEDDES(0.004)GT(0.001)ENR;WAHDKFS(0.963)GEEGEIEDDES(0.023)GT(0.013)ENR ;;; 71.946 0.0012294 125407800 3006.6 3842.8 3182.13 3194.81 3557.41 1031.92 3787.38 2763.02 6183.7 4127.87 TRUE FALSE FALSE 3322.847983 3967.309241 3615.774105 3256.650167 3284.842014 943.9946106 3361.214035 2692.345949 6140.667128 4305.842677 0.771706779 0.921378122 0.839736696 0.756332828 0.762880175 0.219235741 0.78061701 0.625277362 1.426124359 1 12.07207989 -5.783059237 1.975526868 0.886962583 0.565487801 0.375737881 0.226189214 0.222556367 1.768466165 0.023658787 0.05200067 1.65E-06 5.783059237 -0.321474782 WAHDKFS(ph)GEEGEIEDDESGTENREEK ddPTM_HeLa_SAHA_4h_R1 1 WAHDKFSGEEGEIEDDESGTENREEK 26 2 Q9Y2W1 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 WAHDKFS(0.996)GEEGEIEDDES(0.001)GT(0.003)ENREEK 43.888 0.016133 13459000 1340.7 1271 1072.6 1618.3 1386 325.79 1210.8 1055.3 2049.6 1237.2 TRUE FALSE FALSE 1481.720977 1312.181234 1218.768342 1649.624537 1279.804979 298.0308592 1074.557597 1028.306954 2035.336667 1290.541747 1.148138742 1.016767755 0.944385058 1.278241902 0.991680418 0.230934691 0.832640711 0.79680255 1.577118037 1 10.3337611 -5.496799335 24.69723823 1.07231514 0.636365708 0.491160469 0.235860187 331.6207901 314045.0075 0.023562294 0.052505185 3.19E-06 5.496799335 -0.435949432 WAHDKFSGEEGEIEDDES(ph)GTENR ddPTM_HeLa_SAHA_4h_R1 1 WAHDKFSGEEGEIEDDESGTENR 23 1 Q9Y2W1 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 WAHDKFSGEEGEIEDDES(0.858)GT(0.142)ENR 82.479 0.00043613 0 362.56 315.39 311.27 385.56 288.66 139.35 334.02 268.49 363.18 386.64 TRUE FALSE FALSE 400.6957243 325.6088429 353.6882546 393.0230713 266.5429332 127.476596 296.4351905 261.6224146 360.6526008 403.3099426 0.993518091 0.807341473 0.876963886 0.974493881 0.660888575 0.316076007 0.735005908 0.648688234 0.894231862 1 8.655745162 -5.696714409 4.299349547 0.970216809 0.57041194 0.647388758 0.119139696 0.086217779 3.148644138 0.017300503 0.035083639 2.01E-06 5.696714409 -0.399804869 WAHDKFSGEEGEIEDDES(ph)GTENREEKDNIQPTTE ddPTM_HeLa_SAHA_4h_R1 4 WAHDKFSGEEGEIEDDESGTENREEKDNIQPTTE 34 3 Q9Y2W1 Q9Y2W1 THRAP3 Thyroid hormone receptor-associated protein 3 1 0 WAHDKFSGEEGEIEDDES(0.781)GT(0.199)ENREEKDNIQPT(0.019)T(0.002)E;WAHDKFS(0.004)GEEGEIEDDES(0.489)GT(0.489)ENREEKDNIQPT(0.013)T(0.005)E;WAHDKFSGEEGEIEDDES(0.416)GT(0.416)ENREEKDNIQPT(0.157)T(0.011)E;WAHDKFSGEEGEIEDDES(0.825)GT(0.174)ENREEKDNIQPT(0.001)TE ;;; 87.739 2.58E-08 118785000 3854.99 3080.37 3994.73 4718.17 4192.24 756.747 4571.27 4014.9 3167.48 4303.44 TRUE FALSE FALSE 4260.475536 3180.176009 4539.111001 4809.497003 3871.031477 692.2678983 4056.898669 3912.204672 3145.437249 4488.982359 0.949096075 0.7084403 1.011167039 1.07140029 0.862340541 0.154214885 0.903745737 0.871512597 0.700701628 1 12.13217271 -5.509150984 24.97967458 0.962202022 0.642393404 0.194083744 0.225348323 550.375061 1001487.118 0.02878805 0.061944785 3.10E-06 5.509150984 -0.319808618 WCNVQSTQDEFEELT(ph)MSQK ddPTM_HeLa_SAHA_4h_R1 1 WCNVQSTQDEFEELTMSQK 19 0 D6RCP9;D6RFG8;P27707 D6RCP9 DCK Deoxycytidine kinase 1 0 WCNVQSTQDEFEELT(0.621)MS(0.379)QK 158.37 6.21E-06 6095400 1516.2 1612.8 1446 1471.3 1711.1 2004.5 1836.4 2000.5 1720.8 1868 TRUE FALSE FALSE 1675.680873 1665.055778 1643.05335 1499.779139 1579.995888 1833.705323 1629.763439 1949.330107 1708.824813 1948.538622 0.859968006 0.854515153 0.843223394 0.769694335 0.810861981 0.941066963 0.836402944 1.000406194 0.876977646 1 10.92817681 -9.058525607 0.792192926 1.00217852 0.860015738 0.044348329 0.071758626 0.510629709 0.57139082 0.043589433 0.012411555 8.74E-10 9.058525607 -0.142162782 WCNVQSTQDEFEELTMS(ph)QK ddPTM_HeLa_SAHA_4h_R1 1 WCNVQSTQDEFEELTMSQK 19 0 D6RCP9;D6RFG8;P27707 D6RCP9 DCK Deoxycytidine kinase 1 0 WCNVQSTQDEFEELT(0.384)MS(0.616)QK 151.85 3.61E-05 5096500 1005.3 1228.6 850.13 1144.6 1196.4 1410.5 1347.4 1156.6 1415.4 1235.5 TRUE FALSE FALSE 1111.042066 1268.407446 965.9812891 1166.755388 1104.73209 1290.317465 1195.787006 1127.015847 1405.550116 1288.768451 0.862095953 0.984201192 0.749538281 0.905325846 0.857199825 1.001201933 0.927852482 0.874490562 1.090614931 1 10.33177737 -9.409701033 1.038233533 1.002416871 0.894068533 0.36600406 0.073258798 0.604569721 1.122894277 0.049819868 0.011534658 3.89E-10 9.409701033 -0.108348338 WDAADDIHR ddPTM_HeLa_SAHA_4h_R1 2 WDAADDIHR 9 0 Q9HD15;R4GMW4 Q9HD15 SRA1 Steroid receptor RNA activator 1 0 0 ; ; 117.7 0.0043771 9264000 9172.8 11337.2 9684.4 10947.2 12089.9 7607.2 11899.8 9013.9 12724.2 10166 FALSE FALSE TRUE 10137.63719 11704.53272 11004.1396 11159.09889 11163.57447 6959.023763 10560.80319 8783.33749 12635.65126 10604.30601 0.955992517 1.103752825 1.037704833 1.052317698 1.052739751 0.656245091 0.995897626 0.828280274 1.191558528 1 13.37236259 -5.306971894 24.99994085 1.002715123 0.84371612 0.442823199 0.106203064 294.0135645 161429.7176 0.012132592 0.027129395 4.93E-06 5.306971894 -0.158999004 WDDPYYDIAR ddPTM_HeLa_SAHA_4h_R1 1 WDDPYYDIAR 10 0 E9PNR6;Q07960;H0YE29 E9PNR6 ARHGAP1 Rho GTPase-activating protein 1 0 0 130.66 0.0002977 0 933.95 1061.3 529.1 919.18 1081.9 1176.6 1286.9 806.01 930.56 934.96 FALSE FALSE TRUE 1032.187146 1095.686816 601.2029926 936.9720581 999.0050557 1076.347061 1142.094625 785.3934313 924.0841572 975.2707012 1.058359638 1.123469428 0.616447302 0.960730243 1.024336171 1.103639286 1.171053969 0.805308137 0.947515552 1 9.929658906 -4.223781599 22.29533534 1.014635409 0.805306003 0.132917826 0.14574568 6742.770854 3991747.62 0.019565937 5.157849766 5.97E-05 4.223781599 -0.209329406 WDEAFR ddPTM_HeLa_SAHA_4h_R1 1 WDEAFR 6 0 G3V5Q1;G3V3M6;P27695;H7C4A8 G3V5Q1 APEX1 "DNA-(apurinic or apyrimidinic site) lyase;DNA-(apurinic or apyrimidinic site) lyase, mitochondrial" 0 0 134.12 0.0021421 3665100 2608.8 2000.5 1899.9 2408.2 2770.8 3340.9 2761.3 2858 2446.2 2369.1 FALSE FALSE TRUE 2883.205554 2065.317513 2158.808478 2454.814193 2558.501903 3056.236525 2450.591257 2784.896498 2429.176695 2471.243495 1.166702334 0.835740192 0.873571739 0.993351808 1.035309514 1.236720109 0.991642977 1.126921124 0.982977477 1 11.27102145 -5.420648112 17.57799428 1.036828216 1.110799608 0.13144699 0.109737933 8.284280071 1414.401905 0.018153952 0.040593736 3.80E-06 5.420648112 0.073971392 WDEQTSNTKGDDDEES(ph)DEEAVKK ddPTM_HeLa_SAHA_4h_R1 2 WDEQTSNTKGDDDEESDEEAVKK 23 2 O43395 O43395 PRPF3 U4/U6 small nuclear ribonucleoprotein Prp3 1 0 WDEQT(0.001)S(0.003)NT(0.002)KGDDDEES(0.994)DEEAVKK;WDEQTSNTKGDDDEES(1)DEEAVKK ; 99.954 8.38E-05 30209200 3108.29 2901.51 2405.18 3056.47 3178.07 3262.67 3319.76 3539.92 4097.03 2973.16 TRUE FALSE FALSE 3435.234204 2995.520828 2732.945405 3115.632397 2934.566963 2984.672161 2946.211868 3449.373972 4068.518435 3101.347478 1.107658599 0.965877203 0.881212255 1.004606036 0.946223209 0.962379154 0.949977998 1.112217833 1.311855077 1 11.59867946 -7.233231884 24.04528231 1.050838784 0.969687668 0.242392932 0.102133054 464.4709106 395935.1248 0.010787764 0.013210682 5.84E-08 7.233231884 -0.081151116 WDET(ph)PGR ddPTM_HeLa_SAHA_4h_R1 1 WDETPGR 7 0 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 WDET(1)PGR 126.31 0.0012078 14235000 2298.3 2208.2 1677 1760.9 2815.6 2184.3 2075.2 2148.8 2245.7 2545.8 TRUE FALSE FALSE 2540.045739 2279.747129 1905.532827 1794.984766 2599.869336 1998.185351 1841.693034 2093.836807 2230.071991 2655.561897 0.956500295 0.858480132 0.717562949 0.675934072 0.979027956 0.752452938 0.693522918 0.788472229 0.839774058 1 11.37480144 -7.132542635 2.555957377 0.981198627 0.769561812 0.362002381 0.091286159 0.144655188 1.823662013 0.01383555 0.017187751 7.37E-08 7.132542635 -0.211636816 WDGS(ph)EEDEDNSK ddPTM_HeLa_SAHA_4h_R1 8 WDGSEEDEDNSK 12 0 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 1 0 WDGS(1)EEDEDNSK;WDGS(1)EEDEDNSK;WDGS(1)EEDEDNSK;WDGS(1)EEDEDNSK;WDGS(1)EEDEDNSK;WDGS(1)EEDEDNSK;WDGS(1)EEDEDNSK;WDGS(1)EEDEDNSK ;;;;;;; 240.37 3.60E-31 448073800 11404.59 12429.47 8314.25 9516.82 11270.7 14842.5 10980.6 13656.21 19993.17 14477.68 TRUE FALSE FALSE 12604.1771 12832.19298 9447.272691 9701.031813 10407.1414 13577.8355 9745.033989 13306.90392 19854.0359 15101.88364 0.834609603 0.849708109 0.625569162 0.642372306 0.689128698 0.899082249 0.645285994 0.881141998 1.314672817 1 13.88244089 -8.086931921 0.69361638 0.981475781 0.735444487 0.485840775 0.143749986 0.365543865 0.389915197 0.037963419 0.024626007 8.19E-09 8.086931921 -0.246031294 WDGS(ph)EEDEDNSKK ddPTM_HeLa_SAHA_4h_R1 4 WDGSEEDEDNSKK 13 1 A0A087WUT6;O60841 A0A087WUT6 EIF5B Eukaryotic translation initiation factor 5B 1 0 WDGS(0.991)EEDEDNS(0.009)KK;WDGS(1)EEDEDNSKK;WDGS(1)EEDEDNSKK;WDGS(1)EEDEDNSKK ;;; 180.3 1.33E-07 231894000 9755.96 9289.81 7889.5 8997.53 9881.25 7720.56 10219.14 10359.47 9677.03 9094.53 TRUE FALSE FALSE 10782.13663 9590.805939 8964.639973 9171.690204 9124.15076 7062.724853 9069.255472 10094.48976 9609.68676 9486.639696 1.13656015 1.01098031 0.944975277 0.966800732 0.961789533 0.744491736 0.956002943 1.064074328 1.012970564 1 13.21168144 -6.878366359 3.266574985 1.064849306 0.932971916 0.26288481 0.082259523 0.222699434 4.730977731 0.014789543 0.019881917 1.32E-07 6.878366359 -0.13187739 WDKDDFES(ph)EEEDVK ddPTM_HeLa_SAHA_4h_R1 1 WDKDDFESEEEDVK 14 1 A0A2R8Y880;Q7Z6E9-2;Q7Z6E9;Q7Z6E9-4 A0A2R8Y880 RBBP6 E3 ubiquitin-protein ligase RBBP6 1 0 WDKDDFES(1)EEEDVK 138.98 0.0011326 13742000 1177.7 1431.8 1228.6 1154 1305.6 1513.6 1545.3 1072.7 1981 1382.8 TRUE FALSE FALSE 1301.575889 1478.191259 1396.02721 1176.337339 1205.56521 1384.632765 1371.418777 1045.261887 1967.21406 1442.419275 0.90235614 1.02479999 0.967837323 0.815530795 0.835793885 0.959937785 0.950776796 0.724658846 1.36382957 1 10.49427487 -6.28003285 23.84829918 0.960116425 0.867033488 0.197304527 0.145498441 451.6836652 579336.216 0.011257998 0.017219204 5.25E-07 6.28003285 -0.093082937 WDLPDSDWDNDSSSAR ddPTM_HeLa_SAHA_4h_R1 2 WDLPDSDWDNDSSSAR 16 0 O15020-2;O15020;E9PJZ2;A4QPE4 O15020-2 SPTBN2 "Spectrin beta chain, non-erythrocytic 2" 0 0 ; ; 147.33 3.74E-08 1636400 978.41 1111.65 949.93 997.92 1461.1 1384.68 1017.96 1230.76 1442.12 1069.5 FALSE FALSE TRUE 1081.323653 1147.668189 1079.381513 1017.236185 1349.150834 1266.697474 903.4164617 1199.278941 1432.08417 1115.611379 0.969265529 1.028734747 0.967524654 0.911819477 1.209337641 1.135428966 0.809794951 1.07499705 1.283676553 1 10.12361884 WDLS(ph)PEQIK ddPTM_HeLa_SAHA_4h_R1 1 WDLSPEQIK 9 0 Q9BYT8 Q9BYT8 NLN "Neurolysin, mitochondrial" 1 0 WDLS(1)PEQIK 103.91 0.0081449 3291300 2219.5 2480.3 2193.8 1921.3 2665.8 2410.5 2413.4 2181 1673.5 2071.6 TRUE FALSE FALSE 2452.957193 2560.663347 2492.759639 1958.48954 2461.54698 2205.111839 2141.83788 2125.213178 1661.853977 2160.916814 1.135146516 1.184989321 1.153565756 0.90632343 1.139121582 1.020451979 0.991170908 0.983477552 0.769050417 1 11.07742782 -6.283481202 24.9792428 1.08257481 1.015132242 0 0.123379725 1287.787551 1459403.128 0.013215481 0.02019662 5.21E-07 6.283481202 -0.067442568 WDNGPDGRR ddPTM_HeLa_SAHA_4h_R1 2 WDNGPDGRR 9 1 Q14166;V9GY16 Q14166 TTLL12 Tubulin--tyrosine ligase-like protein 12 0 0 ; ; 126.07 0.0054759 3661700 2344 2397.5 2619.2 2570.95 2595.2 2490.4 2548.2 1773.24 1405.68 2187.25 FALSE FALSE TRUE 2590.552675 2475.180573 2976.130936 2620.714455 2396.356337 2278.203909 2261.46983 1727.883088 1395.897758 2281.553052 1.135433898 1.084866544 1.304432055 1.148653744 1.050318043 0.998532078 0.991197565 0.757327596 0.61181911 1 11.15580048 -3.872314414 1.05189455 1.089838253 0.314607113 0.167056594 0.171187214 2.181292232 1.094511904 0.014396973 2.298128872 0.000134179 3.872314414 -0.77523114 WDQTADQT(ph)PGATPK ddPTM_HeLa_SAHA_4h_R1 2 WDQTADQTPGATPK 14 0 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 WDQT(0.003)ADQT(0.942)PGAT(0.055)PK;WDQTADQT(0.999)PGAT(0.001)PK ; 147.53 0.00017182 69803000 3636.9 3507.36 3611.9 3360.4 4128.5 4180.1 4170.4 4430.6 4121.4 3697.1 TRUE FALSE FALSE 4019.445829 3621.000765 4104.110922 3425.445401 3812.175222 3823.931963 3701.135616 4317.271667 4092.718842 3856.500074 1.042252237 0.938934447 1.064206105 0.888226458 0.988506456 0.991555008 0.959713612 1.119479213 1.06125211 1 11.91307642 WDQTADQTPGAT(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 WDQTADQTPGATPK 14 0 O75533 O75533 SF3B1 Splicing factor 3B subunit 1 1 0 WDQTADQT(0.004)PGAT(0.996)PK;WDQTADQT(0.006)PGAT(0.994)PK ; 209.23 1.86E-12 118102000 6507.6 6571.3 5865.1 6739.3 7384.6 7112.6 6758.3 7998 7324.1 6237.2 TRUE FALSE FALSE 7192.099226 6784.214432 6664.365284 6869.748897 6818.793543 6506.566466 5997.838297 7793.422741 7273.130992 6506.116216 1.105436636 1.04274412 1.024323123 1.055890898 1.048058983 1.000069204 0.921876907 1.197860979 1.117891343 1 12.66758088 -5.463634475 24.82197537 1.048755062 1.027452176 0 0.072103244 1048.397482 439249.9669 0.009886593 0.022107052 3.44E-06 5.463634475 -0.021302887 WDS(ph)YENLSADGEVLHTQGPVDGSLYAK ddPTM_HeLa_SAHA_4h_R1 3 WDSYENLSADGEVLHTQGPVDGSLYAK 27 0 Q68CZ2;E9PCX8;C9JHU5;Q68CZ2-3 Q68CZ2 TNS3 Tensin-3 1 0 WDS(0.692)Y(0.016)ENLS(0.291)ADGEVLHT(0.002)QGPVDGSLYAK;WDS(0.92)Y(0.035)ENLS(0.045)ADGEVLHTQGPVDGSLYAK;WDS(0.931)Y(0.002)ENLS(0.067)ADGEVLHTQGPVDGSLYAK ;; 165.73 2.90E-11 273411600 2274.66 3034.82 1789.55 2489.47 2997.93 1738.793 3139.94 1761.11 3171.45 2486.51 TRUE FALSE FALSE 2513.919175 3133.150159 2033.420554 2537.657292 2768.229251 1590.638054 2786.625687 1716.063356 3149.379621 2593.715615 0.9692347 1.207977521 0.783979764 0.978386866 1.067283258 0.613266175 1.074375954 0.661623559 1.214234746 1 11.34080459 -2.850899821 0.435208585 0.996301374 2.00E-15 0.246400306 0.172070535 16.84965354 0.849984669 0.032274553 11.42259537 0.001409614 2.850899821 -0.996301374 WDSYENLSADGEVLHT(ph)QGPVDGSLYAK ddPTM_HeLa_SAHA_4h_R1 1 WDSYENLSADGEVLHTQGPVDGSLYAK 27 0 Q68CZ2;E9PCX8;C9JHU5;Q68CZ2-3 Q68CZ2 TNS3 Tensin-3 1 0 WDS(0.23)YENLS(0.135)ADGEVLHT(0.635)QGPVDGSLYAK 131.33 1.14E-09 11924000 742.32 1008 614.54 754.96 879.99 732.31 900.97 606.8 1056 663.18 TRUE FALSE FALSE 820.4006235 1040.659861 698.2863108 769.5733425 812.5653563 669.9130681 799.5904844 591.2789346 1048.65121 691.7729353 1.185939174 1.504337346 1.009415482 1.112465237 1.174612817 0.968400228 1.155856848 0.854729788 1.515889328 1 9.434154761 -5.257995512 24.81928915 1.122607997 1.009281746 0.10130441 0.195471956 530.8878818 3825972.578 0.022646505 0.055213735 5.52E-06 5.257995512 -0.113326251 WDVDDWDNENSSAR ddPTM_HeLa_SAHA_4h_R1 1 WDVDDWDNENSSAR 14 0 A0A087WUZ3;Q01082;Q01082-2;F8W6C1 A0A087WUZ3 SPTBN1 "Spectrin beta chain, non-erythrocytic 1" 0 0 236.08 3.90E-24 5841400 1100.7 1406.7 1239.1 1733.3 1297.1 1796.1 1417 1410.4 2448.5 1497 FALSE FALSE TRUE 1216.476676 1452.278003 1407.958095 1766.850528 1197.716478 1643.062175 1257.555431 1374.32401 2431.460689 1561.542996 0.77902221 0.930027547 0.901645423 1.131477348 0.767008325 1.052204249 0.805328725 0.880106416 1.55708853 1 10.60875658 -5.558068722 0.006135796 1.787304017 4.51E-07 0 0.229405186 46572.07373 75.18343439 10671.11454 11231.91689 2.77E-06 5.558068722 -1.787303566 WDYLTQVEK ddPTM_HeLa_SAHA_4h_R1 2 WDYLTQVEK 9 0 Q9HB71;Q9HB71-3 Q9HB71 CACYBP Calcyclin-binding protein 0 0 ; ; 120.12 0.0049224 1158660 393.17 439.7 572.05 527.81 623.72 606.12 665.86 125.18 484.35 643.75 FALSE FALSE TRUE 434.5254245 453.9465685 650.0059949 538.0265258 575.9307083 554.4751661 590.9356804 121.9780769 480.9793689 671.5052129 0.647091662 0.676013469 0.967983543 0.801224645 0.85767124 0.825719824 0.88001652 0.181648742 0.716270491 1 9.391254789 -9.44340924 1.144966628 1.001689788 0.741068528 0 0.222521601 0.672167166 1.559931118 0.140342912 0.034085265 3.60E-10 9.44340924 -0.26062126 WEETRTPESQPDT(ph)PPGTPLVSQDEKR ddPTM_HeLa_SAHA_4h_R1 3 WEETRTPESQPDTPPGTPLVSQDEKR 26 2 A0A0D9SEV0;M0R000;M0QYI1;A0A0D9SFD6;M0R3C8;A0A0D9SFL2;M0QYH2;Q96T60-2;Q96T60 A0A0D9SEV0 PNKP Bifunctional polynucleotide phosphatase/kinase;Polynucleotide 3-phosphatase;Polynucleotide 5-hydroxyl-kinase 1 0 WEETRTPESQPDT(0.999)PPGTPLVSQDEKR;WEETRTPES(0.018)QPDT(0.982)PPGTPLVSQDEKR;WEETRTPES(0.008)QPDT(0.963)PPGT(0.028)PLVS(0.001)QDEKR ;; 93.388 2.54E-05 46732000 3908.2 2914.92 3101.33 3332.9 3407.84 3336.79 4127.2 3716.35 1920.26 3049.11 TRUE FALSE FALSE 4319.282407 3009.365321 3523.963101 3397.413099 3146.732035 3052.47672 3662.796594 3621.291148 1906.896754 3180.572054 1.358020612 0.946171088 1.107965184 1.068176743 0.989360399 0.959725693 1.151615663 1.138565983 0.599545214 1 11.63507056 -7.230671247 24.99624591 1.169065348 1.052368707 0 0.208108604 1094.830599 889449.553 0.024240657 0.029686605 5.88E-08 7.230671247 -0.116696641 WENPPHCLEIT(ph)PPSSEK ddPTM_HeLa_SAHA_4h_R1 1 WENPPHCLEITPPSSEK 17 0 Q5BJF6-4;S4R462;S4R411;Q5BJF6-6;Q5BJF6-10;Q5BJF6-7;Q5BJF6 Q5BJF6-4 ODF2 Outer dense fiber protein 2 1 0 WENPPHCLEIT(0.997)PPS(0.002)S(0.001)EK 80.277 0.01083 5075600 810.34 1008.5 752.33 702.37 955.89 938.23 973.64 1260.2 861.4 951.65 TRUE FALSE FALSE 895.5752792 1041.176062 854.8536144 715.965387 882.6499147 858.2875257 864.0834647 1227.965909 855.4054473 992.6802888 0.902178969 1.048853365 0.861157035 0.72124469 0.889158297 0.864616267 0.870454944 1.237020542 0.861712937 1 9.955185335 -4.25543129 24.5189954 0.923178414 1.237020724 0.558213768 0.088263967 338.1524427 1379946.276 0.013247739 0.158598854 5.55E-05 4.25543129 0.31384231 WERS(ph)IPLR ddPTM_HeLa_SAHA_4h_R1 3 WERSIPLR 8 1 Q9H977;Q9H977-4 Q9H977 WDR54 WD repeat-containing protein 54 1 0 WERS(1)IPLR;WERS(1)IPLR;WERS(1)IPLR ;; 89.171 0.011159 22573100 464.26 261.33 256.11 455.22 472.847 179.33 318.45 412.52 341.148 201.91 TRUE FALSE FALSE 513.0929969 269.7972635 291.011337 464.0314414 436.617565 164.0500751 282.6171679 401.9683357 338.7739233 210.6153282 2.436161704 1.280995385 1.381719647 2.203217806 2.073056927 0.778908527 1.341864195 1.908542646 1.608496049 1 7.718466627 -3.917487896 14.34417483 1.629006441 6.175197908 0.026768102 0.506147065 1907317.234 6301623.153 2.530623875 263671921.1 0.000120924 3.917487896 4.546191467 WFLTCINQPQFR ddPTM_HeLa_SAHA_4h_R1 2 WFLTCINQPQFR 12 0 P26641;P26641-2 P26641 EEF1G Elongation factor 1-gamma 0 0 ; ; 251.56 5.46E-69 2233860 0 191.76 218.304 210.55 321.26 0 223.03 0 101.2 200.48 FALSE FALSE TRUE 0 197.9731498 248.0533322 214.6254997 296.6451282 0 197.9340774 0 100.495741 209.1236739 0 0.946679762 1.186156151 1.026308957 1.418515286 0 0.946492923 0 0.480556501 1 7.708212582 WGDAGAEYVVESTGVFTTMEK ddPTM_HeLa_SAHA_4h_R1 1 WGDAGAEYVVESTGVFTTMEK 21 0 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 0 124.2 0.0001168 1053400 412.17 419.05 385.81 436.1 460.44 582.14 517.69 530.56 527.03 410.41 FALSE FALSE TRUE 455.5239317 432.6274949 438.3861776 444.5413461 425.1611867 532.538397 459.4381587 516.9890434 523.3623553 428.1047836 1.06404775 1.010564496 1.024016069 1.038393784 0.99312412 1.243944047 1.073190902 1.207622674 1.222509945 1 8.741820146 -5.273239584 24.99821503 1.0273871 1.164746379 0.328998632 0.076321363 301.0638815 637790.6313 0.006171505 0.013906832 5.33E-06 5.273239584 0.13735928 WGDYDSHDIER ddPTM_HeLa_SAHA_4h_R1 2 WGDYDSHDIER 11 0 Q6P2Q9 Q6P2Q9 PRPF8 Pre-mRNA-processing-splicing factor 8 0 0 ; ; 204.17 2.70E-10 22098000 8685.7 6621.2 6834.9 9980.4 8508.6 7274.3 8830.2 8133.1 10481.4 8360.4 FALSE FALSE TRUE 9599.301777 6835.731224 7766.324577 10173.58507 7856.672906 6654.488716 7836.602656 7925.067079 10408.45908 8720.857759 1.100729085 0.783837028 0.890545952 1.166580783 0.90090598 0.763054381 0.898604572 0.908748577 1.193513227 1 13.09025433 -6.162982858 0.562782992 1.040591999 0.857565472 0.244137883 0.123912854 1.119472462 0.660224636 0.030236695 0.092745961 6.87E-07 6.162982858 -0.183026527 WGLGGTCVNVGCIPK ddPTM_HeLa_SAHA_4h_R1 2 WGLGGTCVNVGCIPK 15 0 Q16881;A0A087WSY9;A0A087WSW9;E9PIR7;A0A182DWI3;Q16881-5;F8W809;Q16881-2;Q16881-4;Q16881-3;Q16881-6;E2QRB9;Q16881-7;E9PKD3;A0A0B4J225;E9PIZ5;E9PKI4;E9PLT3;A0A182DWF2;E7EWK1;D3YTF8;A0A182DWF3;A0A096LPK7;Q9NNW7-2;Q9NNW7;A0A096LPD9 Q16881 TXNRD1;TXNRD2 "Thioredoxin reductase 1, cytoplasmic;Thioredoxin reductase 2, mitochondrial" 0 0 ; ; 117.03 0.0022881 2525550 552.07 905.35 621.47 633.71 727.73 776.82 660.44 723.74 667.73 723.29 FALSE FALSE TRUE 610.1392556 934.683934 706.1606951 645.9763734 671.9714846 710.6305657 586.125553 705.2277788 663.0832126 754.4745716 0.80869426 1.238854123 0.935963546 0.856193698 0.890648287 0.941888027 0.776865881 0.934727034 0.878867542 1 9.559328468 -6.282710584 18.07376528 0.93908659 0.878354085 0.106400642 0.115050348 63.46692474 53926.51941 0.019422722 0.029735333 5.22E-07 6.282710584 -0.060732505 WGLGLDDEGSSQGEPQS(ph)KSPQESR ddPTM_HeLa_SAHA_4h_R1 2 WGLGLDDEGSSQGEPQSKSPQESR 24 1 Q92793;Q92793-2 Q92793 CREBBP CREB-binding protein 1 0 WGLGLDDEGS(0.001)S(0.002)QGEPQS(0.732)KS(0.179)PQES(0.087)R;WGLGLDDEGSSQGEPQS(0.712)KS(0.254)PQES(0.033)R ; 92.664 4.24E-05 6122400 2641.99 2658 2614.25 2978.38 3062.69 3419 3323.1 2848.64 3099.34 2524.39 TRUE FALSE FALSE 2919.88663 2744.120944 2970.506376 3036.030852 2828.027354 3127.681965 2949.176042 2775.775914 3077.771441 2633.228807 1.108861722 1.04211261 1.128085174 1.152968874 1.073977068 1.187774476 1.119984725 1.054133961 1.168820359 1 11.36261717 -9.574051855 0.383891266 0.948897031 1.120089707 0 0.067204777 1.905952501 0.307526815 0.138242591 0.014404582 2.67E-10 9.574051855 0.171192677 WGRDDIENIAR ddPTM_HeLa_SAHA_4h_R1 2 WGRDDIENIAR 11 1 O60264 O60264 SMARCA5 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5 0 0 ; ; 100.82 0.011603 11263900 4183.3 3336 3738.7 3556.5 4145.4 4189.4 4421.4 3433.9 2970.1 3979.3 FALSE FALSE TRUE 4623.318688 3444.088589 4248.190566 3625.3412 3827.780348 3832.439551 3923.892436 3346.06581 2949.430832 4150.867097 1.113819975 0.829727502 1.023446539 0.873393707 0.922164034 0.923286499 0.945318735 0.80611249 0.710557761 1 12.01919703 -7.266332424 24.99937797 1.053748322 0.909921463 0 0.125414642 244.3178132 1248258.233 0.011203205 0.013026412 5.42E-08 7.266332424 -0.143826859 WGSDFSPASTVS(ph)APVSR ddPTM_HeLa_SAHA_4h_R1 2 WGSDFSPASTVSAPVSR 17 0 A0A1B0GV45 A0A1B0GV45 1 0 WGSDFSPAST(0.002)VS(0.987)APVS(0.011)R;WGSDFSPAS(0.072)T(0.451)VS(0.468)APVS(0.009)R ; 145.8 0.00010892 8276000 1195.27 1033.34 866.55 786.04 816.28 1070.54 979.78 1156.8 966.13 765.19 TRUE FALSE FALSE 1320.993983 1066.820894 984.6389212 801.2549408 753.7368027 979.3239693 869.5325758 1127.210731 959.4066227 798.1810856 1.65500537 1.336564989 1.233603425 1.003851075 0.944318045 1.226944596 1.08939261 1.412224308 1.201991177 1 9.640572282 -6.515192312 5.657400772 1.318880747 1.12597733 0.134347212 0.192389239 0.309738384 35.00856515 0.04207338 0.062123637 3.05E-07 6.515192312 -0.192903417 WHY(ph)MKNIK ddPTM_HeLa_SAHA_4h_R1 1 WHYMKNIK 8 1 H7C298;B6ZDN3;M0R2J8 H7C298 DCDC1 1 0 WHY(1)MKNIK 69.198 0.0068082 0 4303.7 5376.7 4886 4648.5 5342.9 5981.7 5236.1 5519.5 5585.7 5250.9 TRUE FALSE FALSE 4756.382912 5550.908608 5551.838635 4738.478439 4933.528156 5472.025508 4646.920247 5378.319182 5546.828659 5477.291996 0.868382207 1.01344033 1.013610127 0.865113352 0.900723964 0.999038487 0.848397392 0.981930338 1.012695446 1 12.41924708 -6.246740639 24.96104532 0.948306171 0.91854281 0.095188504 0.063484856 2439.149976 4142108.924 0.010465959 0.017308005 5.67E-07 6.246740639 -0.029763361 WIDNPTVDDR ddPTM_HeLa_SAHA_4h_R1 4 WIDNPTVDDR 10 0 P18206;P18206-2 P18206 VCL Vinculin 0 0 ;;; ;;; 219.72 8.07E-15 38819800 6130.4 7763.2 6548 5770.9 7210.2 8008.4 7751.1 6500.2 7994.9 7058.1 FALSE FALSE TRUE 6775.223599 8014.732774 7440.327339 5882.604114 6657.756034 7326.039266 6878.925828 6333.934296 7939.26284 7362.409233 0.92024545 1.088601913 1.010583235 0.799005316 0.904290406 0.995060046 0.934330816 0.860307285 1.078351201 1 12.84596223 WIFVGGK ddPTM_HeLa_SAHA_4h_R1 1 WIFVGGK 7 0 O43681 O43681 ASNA1 ATPase ASNA1 0 0 128 0.00076785 644520 1186.5 1109.6 1818.8 1450.5 1636.3 1426.3 1571.5 1037.4 1415.2 1400.3 FALSE FALSE TRUE 1311.301514 1145.551768 2066.656592 1478.576525 1510.927048 1304.771216 1394.670684 1010.86481 1405.351508 1460.673786 0.897737419 0.784262564 1.414865257 1.012256494 1.034404165 0.893266675 0.95481325 0.692053777 0.962125508 1 10.5124183 -3.733492614 1.426110114 0.980257844 4.68E-15 0.248445341 0.156910511 5.629965823 3.573613103 0.022664475 11.44647431 0.000184717 3.733492614 -0.980257844 WIGLDLSNGKPR ddPTM_HeLa_SAHA_4h_R1 2 WIGLDLSNGKPR 12 1 P17987;E7EQR6;F5H282 P17987 TCP1 T-complex protein 1 subunit alpha 0 0 ; ; 99.539 0.0066413 9931000 5650.8 4113.1 5836.4 5666 6161.4 4942.7 6107.6 3053 4694.2 5087.4 FALSE FALSE TRUE 6245.177071 4246.367139 6631.754197 5775.673623 5689.314863 4521.554153 5420.356774 2974.908681 4661.53268 5306.742711 1.176838112 0.800183346 1.249684516 1.088365112 1.072091709 0.852039452 1.021409378 0.560590336 0.878416937 1 12.37361089 -3.885405604 1.058629162 1.07247366 2.39E-17 0.441760428 0.143277916 2.012018375 1.041909601 0.019201533 2.931212186 0.000130195 3.885405604 -1.07247366 WISIMTER ddPTM_HeLa_SAHA_4h_R1 3 WISIMTER 8 0 P07355;P07355-2;H0YN42;A6NMY6;H0YMU9;H0YMD0;H0YM50;H0YN28;H0YNP5;H0YL33 P07355 ANXA2;ANXA2P2 Annexin A2;Annexin;Putative annexin A2-like protein 0 0 ;; ;; 163.67 1.71E-07 53689100 4397.5 4270.94 5223.1 5357.5 5876.4 5038.6 7014.7 3012.53 3447.86 4630.6 FALSE FALSE TRUE 4860.049226 4409.321258 5934.876867 5461.20216 5426.151502 4609.282934 6225.387494 2935.473845 3423.866062 4830.247828 1.006169745 0.912856113 1.22868993 1.130625664 1.123369172 0.954253922 1.288833972 0.607727377 0.70883859 1 12.2378815 -1.968237488 5.976940252 1.023259118 0.44984404 0 0.205813481 0 0 0.020822542 0 0.010758767 1.968237488 -0.573415079 WIYEDVER ddPTM_HeLa_SAHA_4h_R1 3 WIYEDVER 8 0 O43852-5;O43852;O43852-3;O43852-13;O43852-14;O43852-11;O43852-10;O43852-6 O43852-5 CALU Calumenin 0 0 ;; ;; 157.33 0.00014712 53526000 5451.8 5627.8 6045.4 7208.8 6561.5 6234.7 7485.5 5447.2 5477.9 5451.4 FALSE FALSE TRUE 6025.245338 5810.144413 6869.235629 7348.336748 6058.759288 5703.468485 6643.211839 5307.868511 5439.778848 5686.436533 1.05958192 1.021754904 1.208003569 1.292256883 1.065475584 1.002995189 1.168255691 0.933426142 0.956623505 1 12.47330914 -6.844982629 24.99992316 1.028442991 1.11547439 0.19407452 0.098931361 36.90442739 11039.37764 0.015716209 0.02065515 1.43E-07 6.844982629 0.087031399 WKGYT(ph)SDDDTWEPEIHLEDCK ddPTM_HeLa_SAHA_4h_R1 2 WKGYTSDDDTWEPEIHLEDCK 21 1 Q99549-2;Q99549 Q99549-2 MPHOSPH8 M-phase phosphoprotein 8 1 0 WKGY(0.239)T(0.277)S(0.277)DDDT(0.207)WEPEIHLEDCK;WKGY(0.162)T(0.572)S(0.196)DDDT(0.07)WEPEIHLEDCK ; 80.813 0.00056842 17543200 4244.1 3994.2 4157 3901.6 4147.3 4119.3 5204.4 3488.7 4754.5 4519.1 TRUE FALSE FALSE 4690.513911 4123.614701 4723.494311 3977.12111 3829.53477 3768.312465 4618.787215 3399.464106 4721.413047 4713.940517 0.995030356 0.874770203 1.002026711 0.843693529 0.812385043 0.799397543 0.979814488 0.721151252 1.001585198 1 12.20271784 -6.54914374 0.882067661 0.999073293 0.830588301 0.484585379 0.071660187 0.321601736 0.500053065 0.013091361 0.024045872 2.82E-07 6.54914374 -0.168484991 WLAES(ph)PVGLPPEEEDKLTR ddPTM_HeLa_SAHA_4h_R1 4 WLAESPVGLPPEEEDKLTR 19 1 E9PGC8;P78559;P78559-2 E9PGC8 MAP1A Microtubule-associated protein 1A;MAP1A heavy chain;MAP1 light chain LC2 1 0 WLAES(1)PVGLPPEEEDKLTR;WLAES(1)PVGLPPEEEDKLTR;WLAES(0.999)PVGLPPEEEDKLT(0.001)R;WLAES(1)PVGLPPEEEDKLTR ;;; 151.22 3.02E-05 64045600 8531.3 8487.4 7783.6 9434.2 9684.1 10992.9 10183 10895.6 8582.4 8603.5 TRUE FALSE FALSE 9428.661277 8762.397329 8844.308473 9616.812583 8942.10635 10056.24308 9037.18204 10616.90633 8522.67438 8974.43899 1.050612889 0.976372711 0.985499872 1.071578134 0.996397252 1.120542809 1.006991306 1.183016157 0.949660964 1 13.13160604 -1.000007675 0.872724631 1.021290846 61.65996779 0.494703614 0.048975524 452.2102946 1.071686679 0.006443556 54549.08599 0.099998233 1.000007675 60.63867694 WLDDLLAS(ph)PPPSGGGAR ddPTM_HeLa_SAHA_4h_R1 4 WLDDLLASPPPSGGGAR 17 0 Q9C0C2;Q9C0C2-2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 WLDDLLAS(0.999)PPPS(0.001)GGGAR;WLDDLLAS(1)PPPSGGGAR;WLDDLLAS(0.991)PPPS(0.009)GGGAR;WLDDLLAS(0.999)PPPS(0.001)GGGAR ;;; 209.23 3.99E-16 333898000 5342.62 5984.95 5332.46 6032.59 6418.55 6962.74 7585.9 6555.82 6536.76 5907.46 TRUE FALSE FALSE 5904.581284 6178.866307 6059.139879 6149.359503 5926.762086 6369.475381 6732.314567 6388.131617 6491.270155 6162.159511 0.958200007 1.002711192 0.983281895 0.997922805 0.961799524 1.033643379 1.092525202 1.036670928 1.053408329 1 12.58922031 -5.062193536 4.488922424 0.982247306 1.064822554 0.457177045 0.02941876 0.076826331 3.08805831 0.002933707 0.008122055 8.67E-06 5.062193536 0.082575248 WLDES(ph)DAEMELR ddPTM_HeLa_SAHA_4h_R1 5 WLDESDAEMELR 12 0 H3BPZ1;H3BS72;Q9P035 H3BPZ1 HACD3 Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 3 1 0 WLDES(1)DAEMELR;WLDES(1)DAEMELR;WLDES(1)DAEMELR;WLDES(1)DAEMELR;WLDES(1)DAEMELR ;;;; 193 3.91E-07 16599000 1777.18 8256.4 3734.97 2336.79 3609.02 3653.09 3998.36 2214.3 3559.57 3275.26 TRUE FALSE FALSE 1964.111946 8523.912777 4243.952261 2382.02195 3332.497667 3341.82618 3548.45401 2157.661412 3534.798663 3416.472487 0.574894706 2.494945535 1.242202967 0.697216781 0.975420607 0.978151059 1.038630934 0.63154655 1.03463402 1 11.73829179 -4.252623405 21.36993853 0.966929083 0.631545253 0.004814444 0.514593294 495.7379538 1201441.458 0.074277265 1.048201641 5.59E-05 4.252623405 -0.335383829 WLEASEEER ddPTM_HeLa_SAHA_4h_R1 1 WLEASEEER 9 0 Q14137;Q14137-2 Q14137 BOP1 Ribosome biogenesis protein BOP1 0 0 162.25 0.0004501 5186200 856.83 846.14 655.35 748.39 692.36 985.27 1082.9 715.92 875.1 666.17 FALSE FALSE TRUE 946.9553107 873.5554912 744.6576851 762.8761706 639.3115264 901.319453 961.049242 697.607803 869.0101078 694.8918489 1.362737687 1.257109999 1.071616664 1.097834392 0.920015866 1.297064363 1.383019881 1.003908456 1.250568861 1 9.440644648 WLHNEDQMAVEK ddPTM_HeLa_SAHA_4h_R1 1 WLHNEDQMAVEK 12 0 P37837 P37837 TALDO1 Transaldolase 0 0 152.96 0.0015022 5926100 4964.5 4573.5 4819.9 5315.8 5240.6 860.95 5076.9 4346.5 4423.8 4877.8 FALSE FALSE TRUE 5486.688888 4721.684401 5476.730871 5418.694996 4839.06636 787.5922164 4505.63385 4235.322824 4393.014416 5088.105829 1.078336236 0.927984708 1.076379119 1.064972934 0.951054581 0.154790848 0.885522825 0.832396763 0.863388963 1 12.31291296 -5.499318735 24.98553887 1.032769098 0.634124923 0.429167942 0.194430523 456.0080664 483599.0868 0.024863659 0.055273695 3.17E-06 5.499318735 -0.398644175 WLITLNK ddPTM_HeLa_SAHA_4h_R1 2 WLITLNK 7 0 D6RBW1;P06730;P06730-3;P06730-2;H0Y8J7 D6RBW1 EIF4E Eukaryotic translation initiation factor 4E 0 0 ; ; 149.4 3.11E-14 971590 2236.5 1899.79 3733.1 3075.7 2929 833.19 3727.9 357.92 330.68 1466.47 FALSE FALSE TRUE 2471.745331 1961.344442 4241.827427 3135.234621 2704.580653 762.1975246 3308.426881 348.7649247 328.378771 1529.696698 1.615840143 1.282178647 2.772985933 2.049579256 1.768050265 0.498267091 2.162799256 0.227996128 0.214669203 1 10.57902991 -2.988808459 14.47525041 1.420389428 1.139625646 0 0.828090616 0 0 0.093993668 0 0.001026104 2.988808459 -0.280763782 WLLLTGISAQQNR ddPTM_HeLa_SAHA_4h_R1 2 WLLLTGISAQQNR 13 0 A0A087WVQ6;Q00610-2;Q00610 A0A087WVQ6 CLTC Clathrin heavy chain;Clathrin heavy chain 1 0 0 ; ; 125.75 0.0016688 585360 194.089 342.16 444.12 444.01 513.68 234.72 518.91 149.18 0 291.3 FALSE FALSE TRUE 214.5041715 353.2462085 504.6423607 452.6044556 474.3219494 214.7205355 460.5208811 145.3641916 0 303.8593686 0.705932394 1.162531898 1.660776046 1.489519503 1.56099169 0.706644447 1.515572428 0.478392989 0 1 8.247259963 -7.106649573 5.895056974 0.862316629 1.262607314 0.237018276 0.455551081 0.270816364 12.77631725 0.059110913 0.072731906 7.82E-08 7.106649573 0.400290684 WLNSGRGDEASEEGQNGS(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 WLNSGRGDEASEEGQNGSSPK 21 1 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;H0Y9H2 E7EV99 ADD1 Alpha-adducin 1 0 WLNSGRGDEASEEGQNGS(0.834)S(0.166)PK 115.99 3.54E-05 11506000 1820.3 1648.3 1545.1 1577.4 1760.6 1927 1701.4 2054.2 948.85 1593.9 TRUE FALSE FALSE 2011.767506 1701.706001 1755.658181 1607.932858 1625.703208 1762.808759 1509.953994 2001.656538 942.2468756 1662.620829 1.209997776 1.023508169 1.05595825 0.96710737 0.977795526 1.060259037 0.908176998 1.203916433 0.566723849 1 10.69924348 -7.061960901 24.99929028 1.100091291 1.021351409 0 0.189807253 368.3926574 148634.3186 0.01667209 0.020419073 8.67E-08 7.061960901 -0.078739882 WLNSGRGDEASEEGQNGSS(ph)PK ddPTM_HeLa_SAHA_4h_R1 4 WLNSGRGDEASEEGQNGSSPK 21 1 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;H0Y9H2 E7EV99 ADD1 Alpha-adducin 1 0 WLNSGRGDEASEEGQNGS(0.042)S(0.958)PK;WLNSGRGDEASEEGQNGS(0.335)S(0.665)PK;WLNSGRGDEASEEGQNGS(0.369)S(0.631)PK;WLNSGRGDEASEEGQNGS(0.363)S(0.637)PK ;;; 136.26 3.58E-06 131162500 4641.7 3655.31 4539.26 4587.3 4380.25 4428.82 4510.89 4793.37 3079.98 4398.26 TRUE FALSE FALSE 5129.935303 3773.744442 5157.846713 4676.093825 4044.636191 4051.45962 4003.312785 4670.762536 3058.546168 4587.890513 1.118146845 0.822544573 1.124230558 1.019225243 0.881589519 0.883076788 0.872582459 1.018063209 0.666656312 1 12.16361525 -5.838275462 5.661523552 1.04176922 0.908936539 0 0.147643263 0.182838367 10.01590509 0.013260226 0.024447392 1.45E-06 5.838275462 -0.132832681 WLPSS(ph)PSGVAK ddPTM_HeLa_SAHA_4h_R1 2 WLPSSPSGVAK 11 0 Q8IWI9-3;Q8IWI9;H3BP52;H3BTF4 Q8IWI9-3 MGA MAX gene-associated protein 1 0 WLPS(0.032)S(0.894)PS(0.074)GVAK;WLPS(0.192)S(0.788)PS(0.02)GVAK ; 124.21 0.0018339 13021500 7581.4 5312.5 4972.4 5555.6 5648.9 6014.9 6590.5 7338.9 6757.3 6007.9 TRUE FALSE FALSE 8378.846437 5484.628486 5650.012777 5663.136672 5216.082502 5502.396681 5848.919595 7151.181565 6710.275399 6266.929971 1.336993787 0.875169902 0.901559903 0.903654054 0.83231862 0.878005133 0.933299019 1.141098049 1.070743638 1 12.61354316 -7.239319488 24.94310988 1.15913596 0.917082709 0.423816621 0.112297244 600.1468847 676745.8168 0.024032277 0.029421237 5.76E-08 7.239319488 -0.242053251 WLREAEEES(ph)DHN ddPTM_HeLa_SAHA_4h_R1 1 WLREAEEESDHN 12 1 Q04637-9;Q04637;E7EX73;E9PGM1;Q04637-3;Q04637-8;E7EUU4;Q04637-7;Q04637-4;Q04637-5;Q04637-6 Q04637-9 EIF4G1 Eukaryotic translation initiation factor 4 gamma 1 1 0 WLREAEEES(1)DHN 118.76 0.0071005 6621600 1958.1 725.34 1474.3 1428.3 1173.3 1408.7 1614.3 1813.1 656.07 1322.9 TRUE FALSE FALSE 2164.061942 748.8414919 1675.209926 1455.946812 1083.402007 1288.670835 1432.654715 1766.723527 651.5043555 1379.936693 1.56823277 0.542663657 1.213975927 1.055082323 0.785109935 0.933862286 1.038203218 1.280293173 0.472126264 1 10.43038637 -7.280315303 24.99277667 1.268332121 0.983607848 0 0.343711387 1012.40788 1340481.512 0.04718431 0.054004526 5.24E-08 7.280315303 -0.284724273 WLTPVIPALWEAEAGRS(ph)PEVR ddPTM_HeLa_SAHA_4h_R1 1 WLTPVIPALWEAEAGRSPEVR 21 1 H7C552;B4DKL7 H7C552 METTL2B;TMEM104 1 0 WLTPVIPALWEAEAGRS(1)PEVR 57.936 0.010577 3751900 1561.4 1569 1277.7 1663.7 1414.9 1796.2 1965.1 1523.1 1424.8 1411.3 TRUE FALSE FALSE 1725.635216 1619.836629 1451.818302 1695.903319 1306.490668 1643.153655 1743.981776 1484.141307 1414.884701 1472.14805 1.172188637 1.100321825 0.986190419 1.151992369 0.887472335 1.116160603 1.184651079 1.008146774 0.961102181 1 10.52370705 WLTS(ph)PVR ddPTM_HeLa_SAHA_4h_R1 1 WLTSPVR 7 0 E7EPJ7;O75962-5;O75962-4;O75962;E7EWP2;O75962-2;A0A1W2PRD7;C9J1B4;H7BXZ5;O60229-5;O60229-6;O60229-4;O60229 E7EPJ7 TRIO;KALRN Triple functional domain protein;Kalirin 1 0 WLT(0.219)S(0.781)PVR 101.25 0.012934 10418000 7179.1 7199.6 9743.2 6093.4 8722.9 4710.3 9076.1 3415.6 1895.1 4144.8 TRUE FALSE FALSE 7934.230677 7432.871764 11070.95256 6211.346568 8054.553286 4308.955941 8054.833341 3328.233898 1881.911845 4323.502612 1.835139559 1.719178275 2.560644355 1.436646887 1.862969451 0.996635443 1.863034226 0.769800367 0.435274825 1 12.07798485 -5.256728416 24.90597858 1.54783266 1.275144482 0.062270305 0.588712625 1037.135077 5483107.224 0.076286279 0.187662644 5.54E-06 5.256728416 -0.272688179 WMDEAQSLDTADR ddPTM_HeLa_SAHA_4h_R1 3 WMDEAQSLDTADR 13 0 Q6N069-3;Q6N069-2;Q6N069 Q6N069-3 NAA16 "N-alpha-acetyltransferase 16, NatA auxiliary subunit" 0 0 ;; ;; 231.92 1.91E-22 10620300 1948.26 2326.46 1704.03 2125.36 2621.6 2607.98 2533.06 2369.87 2950.22 2251.48 FALSE FALSE TRUE 2153.186926 2401.83883 1936.246334 2166.499416 2420.733574 2385.765432 2248.033422 2309.252157 2929.689179 2348.552321 0.916814544 1.022689088 0.824442494 0.922482926 1.03073436 1.015845127 0.957199634 0.983266217 1.247444714 1 11.19755602 -4.255168196 21.23649505 0.960650612 0.983266281 0 0.108420065 488.3637511 1653338.583 0.008480503 0.097009001 5.56E-05 4.255168196 0.022615669 WNDNCPSWNTIDPEER ddPTM_HeLa_SAHA_4h_R1 1 WNDNCPSWNTIDPEER 16 0 P17655;P17655-2 P17655 CAPN2 Calpain-2 catalytic subunit 0 0 112.72 0.0091146 6569700 934.34 1537 1160.1 1025.2 1297.9 1635 1264.9 1007 1580.6 1341.1 FALSE FALSE TRUE 1032.618168 1586.799808 1318.192386 1045.044228 1198.455182 1495.688802 1122.570123 981.2423981 1569.600476 1398.921384 0.738153108 1.134302346 0.94229197 0.747035709 0.856699451 1.069172878 0.802454045 0.701427835 1.122007636 1 10.45009917 WNS(ph)IEER ddPTM_HeLa_SAHA_4h_R1 1 WNSIEER 7 0 H3BS86;Q9UNE7;H3BTA3;H3BUD0;Q9UNE7-2 H3BS86 STUB1 E3 ubiquitin-protein ligase CHIP 1 0 WNS(1)IEER 99.788 0.013854 3411300 1041.7 1118.1 1089 1329.1 1450.9 1496.4 2239.9 1596.9 1453.8 1266.7 TRUE FALSE FALSE 1151.270785 1154.327174 1237.403249 1354.826652 1339.732355 1368.898301 1987.860557 1556.05361 1443.682887 1321.313636 0.87130773 0.873620874 0.936494724 1.025363408 1.013939703 1.036013149 1.504457763 1.177656514 1.092611813 1 10.36775724 -4.907189474 5.478490985 0.946307453 1.33775777 0.670412817 0.100273489 0.070506137 3.308551773 0.012718552 0.039548506 1.24E-05 4.907189474 0.391450317 WPTETDVSS(ph)AK ddPTM_HeLa_SAHA_4h_R1 1 WPTETDVSSAK 11 0 E7EVA0;P27816;P27816-6;P27816-2 E7EVA0 MAP4 Microtubule-associated protein;Microtubule-associated protein 4 1 0 WPTETDVS(0.2)S(0.8)AK 88.187 0.0078331 0 699.62 979.32 828.16 1321.3 870.39 1270.2 1074.1 967.54 1194.8 717 TRUE FALSE FALSE 773.2092416 1011.050611 941.0173319 1346.875672 803.7009062 1161.971814 953.2394411 942.7917278 1186.48529 747.9133789 1.033821915 1.351828486 1.258190264 1.80084447 1.074590894 1.553618169 1.274531875 1.260562726 1.58639399 1 9.546727381 -7.252705522 3.375394617 1.013291694 1.376578646 0 0.25875482 0.151645924 3.588964433 0.029242872 0.034763307 5.59E-08 7.252705522 0.363286953 CSK(ac)LPSSTK(ac)SGWPR ddPTM_HeLa_SAHA_4h_R1 2 CSKLPSSTKSGWPR 14 2 D6R9B8;C9J929;B5MBX1;A0A0C4DFT8;G3XAA4;Q9NQC1-3;Q9NQC1-2;Q9NQC1 D6R9B8 JADE2 Protein Jade-2 0 2 ; CSK(1)LPSSTK(1)SGWPR;CSK(1)LPSSTK(1)SGWPR 276.12 2.41E-98 62027000 2027.7 2256.71 2290.7 2467.7 3564.3 2967.8 4069.7 4224.2 2068.01 1687.46 FALSE TRUE FALSE 2240.982789 2329.828885 2602.864667 2515.465902 3291.204104 2714.926744 3611.766645 4116.151081 2053.61855 1760.214659 1.273130398 1.323604978 1.478720026 1.429067693 1.869774284 1.542383896 2.05188988 2.338436997 1.166686426 1 10.78153566 -1 0.20757158 0.977664381 7.609281884 0.894098509 0.129059546 9.257106252 0.108044973 0.100421049 20.36464994 0.1 1 6.631617503 up WQHWHEECER ddPTM_HeLa_SAHA_4h_R1 1 WQHWHEECER 10 0 J3QLV0;J3QLD4;J3QL54;J3KT10;Q9BW27-2;Q9BW27-3;Q9BW27 J3QLV0 NUP85 Nuclear pore complex protein Nup85 0 0 70.399 0.015522 2210800 520.05 450.77 519.37 543.9 622.8 422.49 564.66 537.61 525.37 600.02 FALSE FALSE TRUE 574.7512451 465.3752438 590.1470388 554.427971 575.0811985 386.4914751 501.1229707 523.8587146 521.7139074 625.8897986 0.918294636 0.743541826 0.942892886 0.885823626 0.918821811 0.617507229 0.800656876 0.83698235 0.833555537 1 9.289764852 -7.057291882 0.231099075 1.042002638 0.72283103 0.063167759 0.101548219 1.675227954 0.335325928 0.159644671 0.210005896 8.76E-08 7.057291882 -0.319171608 WQPDT(ph)EEEYEDSSGNVVNKK ddPTM_HeLa_SAHA_4h_R1 2 WQPDTEEEYEDSSGNVVNKK 20 1 Q12874 Q12874 SF3A3 Splicing factor 3A subunit 3 1 0 WQPDT(0.984)EEEY(0.015)EDSSGNVVNKK;WQPDT(1)EEEYEDSSGNVVNKK ; 138.24 6.19E-05 36655000 4157 4088.1 4117.9 3935.4 4023.7 4343.1 4973.9 4322.3 4167.1 4245.5 TRUE FALSE FALSE 4594.252333 4220.557122 4679.065967 4011.575358 3715.404975 3973.043446 4414.223681 4211.741825 4138.100812 4428.544282 1.037418176 0.95303487 1.056569759 0.90584515 0.838967557 0.897144342 0.996766296 0.951044306 0.934415589 1 12.11261683 -6.249978594 24.56619976 1.014894908 0.916787835 0.335836036 0.051866369 372.5869798 798640.1331 0.007152224 0.011791662 5.62E-07 6.249978594 -0.098107072 WQRPS(ph)SPPPFLPAASEEAEPAEGLR ddPTM_HeLa_SAHA_4h_R1 2 WQRPSSPPPFLPAASEEAEPAEGLR 25 1 H3BLU1;Q4KMQ1-2;Q4KMQ1-4;Q4KMQ1-3;Q4KMQ1 H3BLU1 TPRN Taperin 1 0 WQRPS(0.5)S(0.5)PPPFLPAASEEAEPAEGLR;WQRPS(0.5)S(0.5)PPPFLPAASEEAEPAEGLR ; 136.56 1.75E-09 25518100 793.36 964.64 771.78 1115.55 1052.73 1503.87 1325.99 1167.65 1310.91 1044.09 TRUE FALSE FALSE 876.8092449 995.8949689 876.9541591 1137.143083 972.0700548 1375.731815 1176.786115 1137.783204 1301.787271 1089.10583 0.805072584 0.91441524 0.805205642 1.044107058 0.892539576 1.263175513 1.080506672 1.044694806 1.195280785 1 10.08892843 -5.283916264 24.92889891 0.908150704 1.124563768 0.254334344 0.125858313 453.4957259 502967.2649 0.014195007 0.031763329 5.20E-06 5.283916264 0.216413064 WQS(ph)PVTK ddPTM_HeLa_SAHA_4h_R1 2 WQSPVTK 7 0 A9Z1X7;M0R088 A9Z1X7 SRRM1 1 0 WQS(0.84)PVT(0.16)K;WQS(0.988)PVT(0.012)K ; 104.05 0.011228 793210000 13458 12307.1 11623.3 12489.9 12864.1 14302.7 14795.6 13069.6 13748 11564.3 TRUE FALSE FALSE 14873.57419 12705.85811 13207.26279 12731.66008 11878.45544 13084.0295 13130.76015 12735.29856 13652.32655 12062.89357 1.23300219 1.053301021 1.094866892 1.055439974 0.984710291 1.084650994 1.088524911 1.0557416 1.131762166 1 13.55828839 WQSPVT(ph)K ddPTM_HeLa_SAHA_4h_R1 1 WQSPVTK 7 0 A9Z1X7;M0R088 A9Z1X7 SRRM1 1 0 WQS(0.238)PVT(0.762)K 109.48 0.014782 523420000 4348.1 4635.5 4423.6 4397 4512.8 5282.5 5347.7 4782.4 5560.6 4222.2 TRUE FALSE FALSE 4805.453108 4785.693241 5026.425171 4482.110293 4167.030239 4832.401281 4745.962722 4660.073133 5521.903332 4404.239705 1.091097086 1.08661053 1.141269665 1.017680824 0.946140655 1.097215775 1.077589559 1.058087989 1.253769936 1 12.10467728 -9.438857682 1.198021875 1.000376343 1.066296674 0 0.093410068 0.652498183 1.68990118 0.034904668 0.008930991 3.64E-10 9.438857682 0.065920331 WREEQMER ddPTM_HeLa_SAHA_4h_R1 4 WREEQMER 8 1 P09496-2;P09496-4;P09496-3;P09496;F8WF69 P09496-2 CLTA Clathrin light chain A 0 0 ;;; ;;; 121.09 0.0051736 49067600 8755 6523.1 9647.1 9601.8 9802.2 7134 10724 5485.7 5059.43 6172.5 FALSE FALSE TRUE 9675.891069 6734.45272 10961.75655 9787.656723 9051.157554 6526.143065 9517.307296 5345.383737 5024.221015 6438.626682 1.502788024 1.045945518 1.702499165 1.520146641 1.405759023 1.013592399 1.478157962 0.83020557 0.780324945 1 12.65253729 -3.252288477 13.23821667 1.268829983 1.268171262 0 0.314110644 0 0 0.037864841 0 0.000559386 3.252288477 -0.000658722 WRPHS(ph)PDGPR ddPTM_HeLa_SAHA_4h_R1 1 WRPHSPDGPR 10 1 Q6Y7W6;I1E4Y6;Q6Y7W6-3;C9JH78;C9IYH5 Q6Y7W6 GIGYF2 PERQ amino acid-rich with GYF domain-containing protein 2 1 0 WRPHS(1)PDGPR 71.933 0.021233 114870000 2999.5 2086 2787.8 2999.8 3083.6 3123.4 3033.8 2371.2 2759.5 2562.1 TRUE FALSE FALSE 3315.001172 2153.587769 3167.706866 3057.865467 2847.335234 2857.268748 2692.428839 2310.548137 2740.296415 2672.56467 1.240382023 0.805813155 1.185268556 1.144168933 1.065394326 1.069111173 1.007432625 0.864543397 1.025343351 1 11.38400914 -4.0706901 1.179384488 1.097653995 0.671562325 0.191761672 0.114461195 2.507040456 2.138246665 0.018515115 1.452676102 8.50E-05 4.0706901 -0.42609167 WRS(ph)LQQLAEER ddPTM_HeLa_SAHA_4h_R1 2 WRSLQQLAEER 11 1 A0A0D9SF54;A0A0D9SGF6;Q13813-3;Q13813;Q13813-2 A0A0D9SF54 SPTAN1 "Spectrin alpha chain, non-erythrocytic 1" 1 0 WRS(1)LQQLAEER;WRS(1)LQQLAEER ; 85.924 0.011158 9826500 1770.58 1922.41 2342.6 2252.68 2199.8 2354.5 2349.01 2097.08 1796.72 1730.26 TRUE FALSE FALSE 1956.817728 1984.697345 2661.837328 2296.283879 2031.251799 2153.883354 2084.693213 2043.43973 1784.216479 1804.859976 1.084193651 1.099640621 1.47481653 1.272278132 1.125434563 1.193379754 1.155044291 1.132187403 0.988562272 1 10.8176712 -6.986462887 24.99311267 1.042503305 1.224167335 0.465274597 0.097738558 170.8186242 315375.4473 0.016495847 0.021673826 1.03E-07 6.986462887 0.18166403 WS(ph)GNEPTDEFSDLPLR ddPTM_HeLa_SAHA_4h_R1 1 WSGNEPTDEFSDLPLR 16 0 E9PD99;Q96II8-3;Q96II8-4;Q96II8;Q96II8-2 E9PD99 LRCH3 Leucine-rich repeat and calponin homology domain-containing protein 3 1 0 WS(0.525)GNEPT(0.249)DEFS(0.225)DLPLR 167.14 1.54E-06 6809600 926.48 1283.9 850.26 955.01 1067.6 1124.5 1224.2 1088.3 1462.9 883.22 TRUE FALSE FALSE 1023.931417 1325.499202 966.1290048 973.4955995 985.8007186 1028.686274 1086.449794 1060.462862 1452.71956 921.2999366 1.111398554 1.438727118 1.048658495 1.056654365 1.070010623 1.116559584 1.179257429 1.151050619 1.576815 1 9.847527103 -8.501811116 1.179469767 1.017124187 1.14372908 0 0.206349126 0.505233879 1.422313649 0.033882946 0.021168416 3.15E-09 8.501811116 0.126604893 WSEPNEEELIK ddPTM_HeLa_SAHA_4h_R1 2 WSEPNEEELIK 11 0 P39748;P39748-2;I3L3E9 P39748 FEN1 Flap endonuclease 1 0 0 ; ; 113.69 0.019575 7739500 2060.18 2178.24 1680.86 2038.57 2124.3 2204.7 2250.6 2384.9 2070.02 1975.54 FALSE FALSE TRUE 2276.879185 2248.816405 1909.918847 2078.02947 1961.536593 2016.847157 1997.356565 2323.897711 2055.614562 2060.715197 1.104897556 1.091279575 0.926823294 1.00840207 0.951871756 0.978712225 0.969254057 1.127714162 0.997524823 1 11.00892941 -6.77707308 24.99580192 1.054049865 0.990753295 0.164847772 0.059467475 298.7326651 477624.7803 0.010069764 0.013259533 1.67E-07 6.77707308 -0.06329657 WSLELEDQER ddPTM_HeLa_SAHA_4h_R1 2 WSLELEDQER 10 0 P37198 P37198 NUP62 Nuclear pore glycoprotein p62 0 0 ; ; 156.16 0.00084902 3061800 1311.46 1185.5 1108.71 1563.36 1404.03 1657.57 1239.48 1342.94 1837.86 1549.29 FALSE FALSE TRUE 1449.40538 1223.910978 1259.799225 1593.621093 1296.453525 1516.335711 1100.010448 1308.589539 1825.070183 1616.087474 0.896860723 0.75732966 0.779536532 0.986098289 0.802217421 0.938275765 0.680662691 0.809726924 1.129313983 1 10.65828957 -13.52287875 0.09628224 1.609718985 0.694163549 0.483314182 0.092979349 93.02307409 0.672234674 11.28667791 0.822717929 3.00E-14 13.52287875 -0.915555436 WSS(ph)SPENACGLPSPISTNR ddPTM_HeLa_SAHA_4h_R1 1 WSSSPENACGLPSPISTNR 19 0 A0A0A0MRP0;Q8IWC1-2;Q8IWC1-4;Q8IWC1;Q8IWC1-3 A0A0A0MRP0 MAP7D3 MAP7 domain-containing protein 3 1 0 WS(0.011)S(0.584)S(0.405)PENACGLPSPISTNR 160.76 4.44E-06 5103300 509.4 531.75 508.38 539.66 577.56 724.8 732.44 628.06 555.56 614.12 TRUE FALSE FALSE 562.9810292 548.9790489 577.6593789 550.1058997 533.3074776 663.0429624 650.0239235 611.9951346 551.6938127 640.5977186 0.878837081 0.856979401 0.901750603 0.858738462 0.832515418 1.03503797 1.014714703 0.955350163 0.861217261 1 9.32327485 -5.234592548 24.94953752 0.918970908 1.003002324 0.404724641 0.054943704 836.2918767 777189.1405 0.009636956 0.024562015 5.83E-06 5.234592548 0.084031416 WT(ph)YVLFY(ph)SPR ddPTM_HeLa_SAHA_4h_R1 1 WTYVLFYSPR 10 0 C9JZ99;F8WD41;Q15166 C9JZ99 PON3 Serum paraoxonase/lactonase 3 2 0 WT(0.99)Y(0.009)VLFY(0.86)S(0.14)PR 73.841 0.0079024 0 491.13 618.36 618.75 616.76 562.05 739.02 689.09 608.94 659.06 632.2 TRUE FALSE FALSE 542.7893068 638.3952697 703.0700277 628.6982816 518.9858504 676.0513384 611.5517796 593.3641965 654.4735478 659.4572359 0.823084921 0.968061665 1.066134374 0.953357166 0.786989394 1.025163273 0.927356235 0.899776611 0.992442743 1 9.365135297 -3.401339118 15.66797946 0.928486044 0.905688991 0 0.084639981 0 0 0.012190294 0 0.000396882 3.401339118 -0.022797053 WTDGSLS(ph)PPAKEPLASDSR ddPTM_HeLa_SAHA_4h_R1 1 WTDGSLSPPAKEPLASDSR 19 1 O15085;O15085-2 O15085 ARHGEF11 Rho guanine nucleotide exchange factor 11 1 0 WTDGS(0.021)LS(0.972)PPAKEPLAS(0.005)DS(0.001)R 78.166 0.023464 4130100 584.97 738.65 725.57 614.6 765.29 565 584.29 623.26 529.76 561.82 TRUE FALSE FALSE 646.4998285 762.5827446 824.446901 626.4964717 706.6536455 516.8588214 518.5441514 607.3179117 526.073357 586.0428097 1.103161438 1.301240681 1.406803202 1.06902851 1.205805504 0.881947211 0.884822991 1.036302983 0.897670526 1 9.194862245 -5.251103427 24.77128929 1.107357923 0.929404247 0.279945458 0.144775075 740.4294811 1774519.518 0.021214799 0.053433767 5.61E-06 5.251103427 -0.177953676 WVWDQEEER ddPTM_HeLa_SAHA_4h_R1 1 WVWDQEEER 9 0 E9PMS6;Q8WWI1-3;E9PMP7;H0YDG6;U3KQE6;H0YDQ3;F8WD26;J3KP06;Q8WWI1-4;Q8WWI1-2;Q8WWI1;A0A0A0MTE2;E9PMT2;Q8WWI1-5;H0Y424 E9PMS6;F8WD26 LMO7 LIM domain only protein 7 0 0 140.45 0.0062048 2395200 952.49 888.11 712.58 1049 864.92 1089.5 1050.6 762.3 884.41 786.56 FALSE FALSE TRUE 1052.677268 916.8853467 809.6866914 1069.304912 798.6500165 996.6684706 932.383723 742.8014698 878.2553188 820.4724509 1.283013546 1.117508998 0.986854209 1.303279483 0.973402599 1.214749465 1.136398574 0.905333834 1.070426335 1 9.680311083 -4.260629155 23.44459458 1.131443645 0.905333713 0.243188026 0.112491421 33.84949665 979010.4403 0.017328241 0.139209585 5.49E-05 4.260629155 -0.226109933 WWLQTAALQDPGSVPR ddPTM_HeLa_SAHA_4h_R1 1 WWLQTAALQDPGSVPR 16 0 A4D1S0-2 A4D1S0-2 0 0 87.447 0.0076509 1880400 1408.2 1003.1 2341.1 3645.8 2932.7 4798 2238 1721.6 2823.2 3495.3 FALSE FALSE TRUE 1556.320937 1035.601098 2660.132916 3716.369731 2707.99716 4389.183407 1986.17435 1677.563965 2803.553121 3645.999489 0.426857146 0.284037642 0.729603206 1.019300673 0.742731086 1.203835442 0.544754424 0.460110861 0.768939527 1 11.83209864 -9.621575437 1.471615827 0.997917599 0.653258804 0.058569562 0.270859525 0.595222827 2.337454627 0.197001303 0.046309814 2.39E-10 9.621575437 -0.344658795 Y(ph)EET(ph)TGPREALSRLR ddPTM_HeLa_SAHA_4h_R1 1 YEETTGPREALSRLR 15 2 A0A087WXH0;A0A024RCN4;Q16670 A0A087WXH0 ZSCAN26;ZNF187 Zinc finger and SCAN domain-containing protein 26 2 0 Y(0.999)EET(0.967)T(0.025)GPREALS(0.009)RLR 50.108 0.022767 846320 0 0 0 159.21 64.252 148.9 141.72 61.802 0 141.89 TRUE FALSE FALSE 0 0 0 162.2917398 59.32902564 136.2128823 125.7732926 60.22119433 0 148.0075723 0 0 0 1.096509707 0.400851286 0.920310226 0.849776067 0.406879144 0 1 7.209527178 -3.966070678 14.83684874 0.523817195 0.034473824 0 0.439413373 8067500.572 106036772.7 0.067916846 99572806.81 0.000108126 3.966070678 -0.489343371 Y(ph)ET(ph)PIKK ddPTM_HeLa_SAHA_4h_R1 1 YETPIKK 7 1 P51587 P51587 BRCA2 Breast cancer type 2 susceptibility protein 2 0 Y(1)ET(1)PIKK 54.525 0.0082989 0 275.04 373.9 530.88 623.65 480.3 646.33 271.84 399.09 620.49 525.34 TRUE FALSE FALSE 303.9699691 386.0146053 603.2255617 635.7216476 443.4995178 591.2590478 241.2518478 388.8818557 616.1719596 547.9899784 0.554699869 0.704419096 1.100796703 1.160097215 0.80932049 1.0789596 0.440248649 0.709651401 1.124421949 1 9.098005699 -4.748040929 24.99639928 0.845000199 0.574950061 0.232676112 0.215210586 318.3636178 593934.208 0.033065504 0.122287364 1.79E-05 4.748040929 -0.270050138 Y(ph)ETLQMALS(ph)YIMALTR ddPTM_HeLa_SAHA_4h_R1 1 YETLQMALSYIMALTR 16 0 Q8N100 Q8N100 ATOH7 Protein atonal homolog 7 2 0 Y(0.871)ET(0.129)LQMALS(0.347)Y(0.306)IMALT(0.347)R 46.964 0.017032 4489200 2321.7 2571.4 2107.6 2200.9 2278.5 2683.7 2669.2 2672.9 2548.8 1893.3 TRUE FALSE FALSE 2565.907058 2654.715047 2394.812752 2243.501602 2103.921822 2455.033662 2368.854591 2604.531088 2531.062693 1974.929429 1.299239872 1.344207549 1.212606748 1.13599077 1.065314938 1.243099438 1.199462906 1.318797042 1.281596525 1 10.94758539 -9.392986851 1.127705793 1.000462504 1.227822489 0 0.116719526 0.335917849 0.766599704 0.059386168 0.015311617 4.05E-10 9.392986851 0.227359985 Y(ph)FPGQES(ph)QMKLIYQGR ddPTM_HeLa_SAHA_4h_R1 1 YFPGQESQMKLIYQGR 16 1 K7EKW3;E7ESS3;Q71RG4-2;Q71RG4 K7EKW3 TMUB2 Transmembrane and ubiquitin-like domain-containing protein 2 2 0 Y(1)FPGQES(1)QMKLIYQGR 61.167 0.0073602 0 2201.4 2955.8 1808.6 2435 2813.3 3662.2 2528.1 2776 3808 2911.4 TRUE FALSE FALSE 2432.953352 3051.569859 2055.066589 2482.132946 2597.745562 3350.159957 2243.631534 2704.99394 3781.499818 3036.924702 0.801124029 1.004822364 0.676693297 0.817317909 0.855386885 1.103142253 0.738784051 0.890701682 1.245174046 1 11.56839542 -9.466276929 1.129058989 1.002282078 0.855897119 0.276741467 0.140818275 0.710664564 1.579070651 0.08385298 0.019380424 3.42E-10 9.466276929 -0.146384958 Y(ph)GY(ph)RLDYHEK ddPTM_HeLa_SAHA_4h_R1 1 YGYRLDYHEK 10 1 A0A0A0MQZ6;O95478 A0A0A0MQZ6 NSA2 Ribosome biogenesis protein NSA2 homolog 2 0 Y(0.971)GY(0.849)RLDY(0.18)HEK 48.794 0.0087064 0 131.47 224.52 417.81 154.11 277.01 328.5 368.39 287.99 169.83 284.21 TRUE FALSE FALSE 145.2986178 231.7945953 474.7469709 157.0930219 255.7855536 300.5099519 326.9377877 280.6236328 168.6481392 296.463684 0.490105958 0.781865057 1.601366361 0.529889597 0.862788825 1.013648444 1.102792029 0.946570012 0.568866098 1 8.211711579 -6.96482807 24.99989457 0.752730229 1.002646398 0.211056897 0.279059017 274.3951778 195037.0906 0.048398858 0.063608439 1.08E-07 6.96482807 0.24991617 Y(ph)ILAPS(ph)S(ph)S(ph)LQSIFK ddPTM_HeLa_SAHA_4h_R1 1 YILAPSSSLQSIFK 14 0 A6NC97 A6NC97 FAM172BP Putative protein FAM172B 4 0 Y(1)ILAPS(0.969)S(0.993)S(0.983)LQS(0.055)IFK 61.167 0.013044 7691600 810.74 1071.8 967.16 1153.6 1023.8 884.7 1016.4 1092.8 963.33 1068.9 TRUE FALSE FALSE 896.017353 1106.527023 1098.959528 1175.929596 945.3566652 809.3185828 902.031997 1064.847758 956.6261081 1114.98551 0.803613451 0.992413815 0.985626735 1.054659083 0.84786453 0.725855695 0.80900782 0.955032822 0.857971785 1 10.12280925 -5.54210624 24.95956665 0.928874111 0.821034718 0.276720075 0.087186847 289.854489 376264.5437 0.014959093 0.029921414 2.87E-06 5.54210624 -0.107839393 Y(ph)IS(ph)MSVWTSPRR ddPTM_HeLa_SAHA_4h_R1 1 YISMSVWTSPRR 12 1 B5MD04;A0A0G2JRX8;B5MCY4;E7EMH2;H7C2P3;E7EW99;P78395 B5MD04 PRAME Melanoma antigen preferentially expressed in tumors 2 0 Y(0.982)IS(0.98)MS(0.038)VWTSPRR 52.693 0.0083818 0 392.2 532.41 420.58 460.41 365.15 770.85 730.21 533.04 776.57 499.6 TRUE FALSE FALSE 433.4533955 549.6604333 477.8944521 469.3219013 337.1722859 705.1692433 648.044849 519.4056086 771.1657861 521.140201 0.83174047 1.054726602 0.917017055 0.900567449 0.646989592 1.353127703 1.243513449 0.996671544 1.479766452 1 9.025527739 -5.247075751 24.99838899 0.911568104 1.202345146 0.13090682 0.222355747 511.3170362 889892.1914 0.018625641 0.047245995 5.66E-06 5.247075751 0.290777042 Y(ph)ISS(ph)IS(ph)LS(ph)R ddPTM_HeLa_SAHA_4h_R1 1 YISSISLSR 9 0 A0A1W2PR01 A0A1W2PR01 4 0 Y(0.999)IS(0.609)S(0.699)IS(0.699)LS(0.994)R 42.243 0.02179 6296900 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 Y(ph)KIKLT(ph)PT(ph)AEK ddPTM_HeLa_SAHA_4h_R1 1 YKIKLTPTAEK 11 2 F8W0V1;Q4VB95;F8VNX0;P42357-2;P42357 F8W0V1 HAL Histidine ammonia-lyase 3 0 Y(1)KIKLT(1)PT(1)AEK 49.298 0.021385 7118200 883.69 534.28 886.27 696.44 463.4 655.17 958.45 646.8 505.9 900.98 TRUE FALSE FALSE 976.6405687 551.5910226 1007.04626 709.9206033 427.8943921 599.3458301 850.6026835 630.2557926 502.3794007 939.8256571 1.039172065 0.586907815 1.071524546 0.755374785 0.455291244 0.637720226 0.905064335 0.670609264 0.534545314 1 9.876249343 -6.908015589 0.932121992 1.021573519 0.693705531 0 0.227584931 0.380542519 0.656734886 0.034831799 0.050419769 1.24E-07 6.908015589 -0.327867988 Y(ph)KSTTSVSEEDVSSR ddPTM_HeLa_SAHA_4h_R1 1 YKSTTSVSEEDVSSR 15 1 Q96IZ0 Q96IZ0 PAWR PRKC apoptosis WT1 regulator protein 1 0 Y(0.741)KS(0.062)T(0.014)T(0.173)S(0.009)VS(0.001)EEDVSSR 81.128 0.020164 15895000 1695.4 1483.8 1615.5 949.58 1976.9 1968.2 1802.7 1073.5 602.13 1460.6 TRUE FALSE FALSE 1873.729951 1531.876094 1835.651927 967.960494 1825.430349 1800.498287 1599.855452 1046.041424 597.9397283 1523.573614 1.229825677 1.005449346 1.204833104 0.635322432 1.198124155 1.181759956 1.050067707 0.686570977 0.392458706 1 10.57324349 Y(ph)KVVQDT(ph)YQIMK ddPTM_HeLa_SAHA_4h_R1 1 YKVVQDTYQIMK 12 1 I3L165;I3L1P5;O14964-2;O14964 I3L165 HGS Hepatocyte growth factor-regulated tyrosine kinase substrate 2 0 Y(1)KVVQDT(1)YQIMK 72.29 0.0081467 0 716.11 823.48 782.84 591.39 868.04 894.95 669.03 782.74 717.11 822.66 TRUE FALSE FALSE 791.4337354 850.1612923 889.5213583 602.8372086 801.5309627 818.6952251 593.7489836 762.7186442 712.1195731 858.1288986 0.922278386 0.99071514 1.036582453 0.702501931 0.934044948 0.954046911 0.691911186 0.888815941 0.829851523 1 9.745050559 -6.281856178 24.98674728 0.969854973 0.838553638 0.279315181 0.09625934 656.2556323 803145.6373 0.012901783 0.019722053 5.23E-07 6.281856178 -0.131301335 Y(ph)LLGDAPVSPSSQK ddPTM_HeLa_SAHA_4h_R1 1 YLLGDAPVSPSSQK 14 0 Q9NYB0;A0A590UJT3;H3BMI8 Q9NYB0 TERF2IP Telomeric repeat-binding factor 2-interacting protein 1 1 0 Y(0.995)LLGDAPVS(0.004)PS(0.001)SQK 167.09 1.42E-05 78310000 5976.3 5730.1 5743.5 6675.4 6060.1 6657.9 7244.5 5990.3 6581.3 5963.2 TRUE FALSE FALSE 6604.914654 5915.759 6526.194269 6804.61202 5595.776447 6090.609464 6429.329794 5837.0768 6535.500197 6220.302735 1.061831704 0.951040368 1.04917631 1.093935827 0.899598731 0.979150007 1.033604001 0.938391112 1.050672367 1 12.60276908 -5.764025445 24.99999982 1.029075931 0.968927548 0.342310576 0.048074583 71.81578715 694267.8227 0.007156695 0.013419119 1.72E-06 5.764025445 -0.060148383 Y(ph)LS(ph)S(ph)FS(ph)DLK ddPTM_HeLa_SAHA_4h_R1 1 YLSSFSDLK 9 0 A0A1B0GVH6 A0A1B0GVH6 4 0 Y(1)LS(1)S(1)FS(1)DLK 40.715 0.022303 9879400 1380.7 1680.3 1470.3 1570.5 1329.7 1599.1 1553.7 1724.4 1709 1504.5 TRUE FALSE FALSE 1525.928361 1734.742822 1670.664827 1600.899298 1227.818673 1462.847684 1378.873587 1680.292345 1697.10693 1569.366358 0.972321315 1.105377858 1.064547369 1.020092785 0.782365868 0.932126317 0.878618036 1.070682022 1.081396273 1 10.61596646 Y(ph)LT(ph)S(ph)GLKVYYLPLK ddPTM_HeLa_SAHA_4h_R1 1 YLTSGLKVYYLPLK 14 1 A0A0U1RRE8;A8K382;A0A0U1RQW8;A0A1B0GU19;P37287-2;P37287 A0A0U1RRE8 PIGA Phosphatidylinositol N-acetylglucosaminyltransferase subunit A 3 0 Y(0.948)LT(0.555)S(0.555)GLKVY(0.668)Y(0.275)LPLK 51.218 0.022758 4231900 1002.3 1445 1099.6 1251 1569.5 1585.8 1546.5 1330.9 1383.9 1326.1 TRUE FALSE FALSE 1107.726513 1491.818948 1249.447762 1275.214914 1449.245249 1450.680919 1372.48375 1296.857505 1374.269327 1383.274661 0.800800119 1.078469078 0.90325356 0.921881207 1.047691605 1.048729482 0.992199011 0.937527117 0.993489844 1 10.43387193 -5.780803915 22.89476442 0.918894467 1.008526406 0.033302229 0.077629991 118.4763596 140075.0983 0.013594041 0.024678798 1.66E-06 5.780803915 0.089631939 Y(ph)LT(ph)SGLKVY(ph)YLPLK ddPTM_HeLa_SAHA_4h_R1 1 YLTSGLKVYYLPLK 14 1 A0A0U1RRE8;A8K382;A0A0U1RQW8;A0A1B0GU19;P37287-2;P37287 A0A0U1RRE8 PIGA Phosphatidylinositol N-acetylglucosaminyltransferase subunit A 3 0 Y(0.967)LT(0.569)S(0.509)GLKVY(0.886)Y(0.069)LPLK 60.448 0.014818 5858400 2323.6 2281.9 2438.5 2207 2549.8 2661.3 2863.8 2092 2538.1 2154.9 TRUE FALSE FALSE 2568.006909 2355.835057 2770.806081 2249.719676 2354.434875 2434.542268 2541.557687 2038.489669 2520.437155 2247.808285 1.142449259 1.048058713 1.232670108 1.000850336 1.047435803 1.083073803 1.130682587 0.906878795 1.121286532 1 11.13430328 Y(ph)LY(ph)FSS(ph)T(ph)K ddPTM_HeLa_SAHA_4h_R1 1 YLYFSSTK 8 0 A0A0D9SEI0;Q9P0P8 A0A0D9SEI0 C6orf203 Uncharacterized protein C6orf203 4 0 Y(1)LY(0.562)FS(0.562)S(0.912)T(0.965)K 56.013 0.019204 15705000 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 Y(ph)NPNVLPVQCT(ph)GK ddPTM_HeLa_SAHA_4h_R1 2 YNPNVLPVQCTGK 13 0 P05026-2;P05026 P05026-2 ATP1B1 Sodium/potassium-transporting ATPase subunit beta-1 2 0 Y(1)NPNVLPVQCT(1)GK;Y(1)NPNVLPVQCT(1)GK ; 108.43 0.019855 8645700 4099.7 4739.4 4675.1 5641.5 5584.2 5407.3 5503.7 5081.96 5700.5 4090.1 TRUE FALSE FALSE 4530.925256 4892.95967 5312.198281 5750.69939 5156.339802 4946.567619 4884.409191 4951.970822 5660.829756 4266.444227 1.061990973 1.146847213 1.245111385 1.347890441 1.20858015 1.159412231 1.14484309 1.160678672 1.326826147 1 12.05881847 -7.237030249 2.039359057 1.02486492 1.211267026 0 0.110559136 0.147884218 1.166333848 0.011528899 0.013794452 5.79E-08 7.237030249 0.186402106 Y(ph)NS(ph)Y(ph)NRPRPK ddPTM_HeLa_SAHA_4h_R1 1 YNSYNRPRPK 10 2 M0QY97;Q9UPT8 M0QY97 ZC3H4 Zinc finger CCCH domain-containing protein 4 3 0 Y(1)NS(1)Y(1)NRPRPK 60.598 0.019082 3686400 458.15 566.3 983.59 1751.1 606.19 604.81 615.38 1053.5 1222.8 516.26 TRUE FALSE FALSE 506.3403191 584.6484916 1117.628523 1784.995073 559.7438532 553.2767854 546.1358228 1026.552995 1214.290435 538.5184951 0.940246851 1.085660932 2.075376302 3.314640238 1.039414353 1.027405355 1.01414497 1.906253926 2.254872295 1 9.072852084 -6.881326405 6.738065197 0.974259415 1.704074523 0 0.761073537 0.262642384 14.59432925 0.109420974 0.144250937 1.31E-07 6.881326405 0.729815109 Y(ph)NVTTS(ph)KQLYTVAVS(ph)CLLLAS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 YNVTTSKQLYTVAVSCLLLASK 22 1 E5RFJ6;E7EN43;B4DZA8 E5RFJ6 CCNJL 4 0 Y(0.591)NVT(0.344)T(0.403)S(0.429)KQLY(0.217)T(0.022)VAVS(0.997)CLLLAS(0.997)K 42.057 0.016945 5189400 639.51 619.91 625.39 724.16 778.68 831.04 1048.2 967.43 910.02 837.33 TRUE FALSE FALSE 706.776596 639.9954907 710.6148923 738.177164 719.0177066 760.2307167 930.2537773 942.6845414 903.6870967 873.4313941 0.809195319 0.73273699 0.813589822 0.845146132 0.823210285 0.870395456 1.065056493 1.079288594 1.034640045 1 9.770550577 -4.753816266 8.251993853 0.875577594 1.073070584 0.478665356 0.085569673 0.096867075 49.10892105 0.013581585 0.04692998 1.76E-05 4.753816266 0.19749299 Y(ph)QKHLSEHKS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 YQKHLSEHKSPK 12 2 H7C4C9;Q3B820-2;Q3B820;Q3B820-3 H7C4C9 FAM161A Protein FAM161A 2 0 Y(0.998)QKHLS(0.018)EHKS(0.984)PK 49.31 0.0227 10873000 4656.7 4885.5 4107.8 4641.9 4989.2 6152.3 4461.8 4463.3 6269.6 5135.3 TRUE FALSE FALSE 5146.513072 5043.793405 4667.589591 4731.750687 4606.928574 5628.089428 3959.746521 4349.135249 6225.969343 5356.707915 0.960760444 0.941584549 0.871354135 0.883331845 0.860029826 1.050661996 0.7392127 0.811904498 1.162275308 1 12.38713092 -1 0.163843861 1.019760896 0.166307132 0.434583199 0.087469734 42.48410664 0.436292284 0.113279605 8.846730604 0.1 1 -0.853453765 Y(ph)QRLS(ph)ETCT(ph)FAK ddPTM_HeLa_SAHA_4h_R1 1 YQRLSETCTFAK 12 1 A1A5B4 A1A5B4 ANO9 Anoctamin-9 3 0 Y(1)QRLS(1)ET(0.034)CT(0.966)FAK 56.774 0.018909 3792700 1996.1 2417 1975.7 1663.4 1881.2 2560 2190 2131.4 2421.4 2284.4 TRUE FALSE FALSE 2206.058956 2495.312386 2244.938107 1695.597512 1737.062862 2341.873598 1943.575436 2076.881874 2404.54928 2382.891664 0.925790706 1.047178277 0.94210666 0.711571381 0.728972655 0.982786433 0.815637348 0.871580486 1.009088796 1 11.21849765 -6.496831695 23.0647831 0.971310772 0.825635914 0.52684609 0.077032376 196.4604611 173966.3857 0.011988612 0.018260426 3.19E-07 6.496831695 -0.145674859 Y(ph)QS(ph)VIYPFLS(ph)QRR ddPTM_HeLa_SAHA_4h_R1 1 YQSVIYPFLSQRR 13 1 P50052 P50052 AGTR2 Type-2 angiotensin II receptor 3 0 Y(0.997)QS(0.995)VIY(0.312)PFLS(0.695)QRR 54.982 0.02334 4378900 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 Y(ph)RFQLQAT(ph)T(ph)K ddPTM_HeLa_SAHA_4h_R1 1 YRFQLQATTK 10 1 P32004-3;P32004-2;P32004 P32004-3 L1CAM Neural cell adhesion molecule L1 3 0 Y(1)RFQLQAT(1)T(1)K 95.909 0.011422 13384000 1772.1 1685.3 2627.4 5928.4 1612.5 1178.6 2266.9 5030.5 3827.4 2463.1 TRUE FALSE FALSE 1958.497609 1739.904826 2985.448389 6043.152755 1488.950598 1078.176649 2011.822446 4901.827094 3800.764812 2569.296295 0.762270047 0.677191194 1.161971235 2.352065336 0.57951689 0.419638892 0.783024694 1.907848115 1.479301869 1 11.32715756 -6.715196276 15.03234047 0.868817208 1.170330048 0.017840877 0.586606929 6.030151316 1957.70484 0.088725283 0.125460095 1.93E-07 6.715196276 0.30151284 Y(ph)RSPEPDPYLSYR ddPTM_HeLa_SAHA_4h_R1 4 YRSPEPDPYLSYR 13 1 H3BRT8;H3BQR7;H3BV35;H3BRK0;H3BUL5;H3BVF8;H3BQG1;P49761-2;P49761-3;P49761-1;P49761 H3BRT8 CLK3 Dual specificity protein kinase CLK3 1 0 Y(0.961)RS(0.039)PEPDPYLSYR;Y(0.988)RS(0.012)PEPDPYLSYR;Y(0.87)RS(0.13)PEPDPYLSYR;Y(0.604)RS(0.396)PEPDPYLSYR ;;; 133.88 0.00084637 144205400 5302.39 5180.3 4596.9 5178.6 6149.8 6273.9 5612.5 5449.9 4819.86 5430.1 TRUE FALSE FALSE 5860.119708 5348.145119 5223.341592 5278.839291 5678.603653 5739.328424 4980.966729 5310.499449 4786.318202 5664.218185 1.034585801 0.944198289 0.922164617 0.931962562 1.002539709 1.013260478 0.879374093 0.937552064 0.845009504 1 12.46766112 -7.253716852 24.44107808 1.016332184 0.9477868 0 0.065529313 325.2776285 1029473.302 0.00653883 0.007927776 5.58E-08 7.253716852 -0.068545384 Y(ph)RT(ph)T(ph)EES(ph)K ddPTM_HeLa_SAHA_4h_R1 1 YRTTEESK 8 1 C9JQN2;Q96BT7-3;Q96BT7-2;Q96BT7;Q96BT7-4 C9JQN2 ALKBH8 Alkylated DNA repair protein alkB homolog 8 4 0 Y(1)RT(1)T(1)EES(1)K 47.849 0.0081059 0 970.29 1089.5 841.59 917.42 943.31 1535.7 1076.4 1280.4 985.66 884.9 TRUE FALSE FALSE 1072.349554 1124.800515 956.2775024 935.1779907 871.0337916 1404.84972 955.2806391 1247.649222 978.8007118 923.0523696 1.161742919 1.218566304 1.035994851 1.013136439 0.943645041 1.521961014 1.034914887 1.351655944 1.060395644 1 9.850268692 Y(ph)S(ph)HFAQDLWSEQS(ph)IK ddPTM_HeLa_SAHA_4h_R1 1 YSHFAQDLWSEQSIK 15 0 K7ERD0 K7ERD0 ZNF506 3 0 Y(1)S(1)HFAQDLWS(0.001)EQS(1)IK 70.784 0.022902 10138000 243.34 227.75 578.4 1552.8 389.28 5193.1 403.13 715.12 860.07 769.01 TRUE FALSE FALSE 268.9356177 235.1292494 657.2213398 1582.856689 359.4534505 4750.618664 357.7687514 696.8282659 854.0847028 802.1657845 0.335261891 0.293118024 0.819308617 1.973228876 0.448103693 5.922240459 0.446003505 0.868683605 1.064723427 1 9.647756621 -6.077983761 1.739099326 0.645416211 2.124416105 0.143486381 1.485891621 0.478849616 2.856936025 0.225300432 0.439737127 8.36E-07 6.077983761 1.478999893 Y(ph)S(ph)TKPDAVFAGAMPTMASVK ddPTM_HeLa_SAHA_4h_R1 1 YSTKPDAVFAGAMPTMASVK 20 1 A0A1B0GW05;Q2PZI1 A0A1B0GW05 DPY19L1 Probable C-mannosyltransferase DPY19L1 2 0 Y(0.919)S(0.927)T(0.153)KPDAVFAGAMPT(0.001)MASVK 44.5 0.0087107 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 Y(ph)S(ph)Y(ph)GHLPT(ph)HS(ph)ITAHPMVTIRISDRQR ddPTM_HeLa_SAHA_4h_R1 1 YSYGHLPTHSITAHPMVTIRISDRQR 26 2 O43149;I3L141;O43149-2 O43149 ZZEF1 Zinc finger ZZ-type and EF-hand domain-containing protein 1 5 0 Y(0.982)S(0.983)Y(0.982)GHLPT(0.921)HS(0.562)IT(0.562)AHPMVT(0.004)IRIS(0.004)DRQR 45.784 0.01057 9757900 0 0 0 126.65 0 118.41 0 65.34 123.59 0 TRUE FALSE FALSE 0 0 0 129.1014939 0 108.3208018 0 63.66869741 122.7299271 0 0 Y(ph)SDCLHS(ph)RPWYHGK ddPTM_HeLa_SAHA_4h_R1 1 YSDCLHSRPWYHGK 14 1 A0A2R8YH03 A0A2R8YH03 2 0 Y(0.944)S(0.056)DCLHS(1)RPWYHGK 92.939 0.0034964 0 1105.5 1103.1 1019.3 1193.7 1378.2 1845.2 1055.4 1041.2 1800 1295.1 TRUE FALSE FALSE 1221.781562 1138.841164 1158.204896 1216.80579 1272.602614 1687.978579 936.6436143 1014.567612 1787.473653 1350.938099 0.904394926 0.843000256 0.857333801 0.900711728 0.942014008 1.24948625 0.693328299 0.751009696 1.323135127 1 10.39974586 -13.5228673 0.01521058 2.072957738 6.58E-05 0.146685978 0.175605237 9983.125221 12.26377832 1035.028708 673.0076832 3.00E-14 13.5228673 -2.072891946 Y(ph)SYLTEPGMIERS(ph)T(ph)GATR ddPTM_HeLa_SAHA_4h_R1 1 YSYLTEPGMIERSTGATR 18 1 Q12955 Q12955 ANK3 Ankyrin-3 3 0 Y(0.52)S(0.231)Y(0.218)LT(0.031)EPGMIERS(0.953)T(0.896)GAT(0.151)R 52.464 0.015823 12079000 61.01 119.63 128.83 292.56 295.96 275.73 150.01 277.29 114.11 199.85 TRUE FALSE FALSE 67.42731172 123.5060905 146.3862815 298.2229218 273.2836087 252.2362528 133.13048 270.1973233 113.3158992 208.4665115 0.323444333 0.592450507 0.702205263 1.430555535 1.310923307 1.20996054 0.638618064 1.296118601 0.543568837 1 7.703671835 -6.354463578 7.576777356 0.664664788 1.155884117 0.535049431 0.252807818 0.238946869 17.26543071 0.049338167 0.075474956 4.42E-07 6.354463578 0.491219329 Y(ph)T(ph)EPVILNLEKTWEESDTR ddPTM_HeLa_SAHA_4h_R1 1 YTEPVILNLEKTWEESDTR 19 1 H0Y7V4;A0A075B6F3;Q96JB1-2;Q96JB1 H0Y7V4 DNAH8 "Dynein heavy chain 8, axonemal" 2 0 Y(1)T(1)EPVILNLEKTWEESDTR 56.215 0.008732 0 223.91 295.44 142.73 294.58 338.44 267.43 259.2 305.01 305.84 320.11 TRUE FALSE FALSE 247.4618811 305.0124498 162.1805011 300.2820219 312.5088003 244.6434595 230.0341338 297.2082858 303.7116345 333.9115087 0.741100186 0.913452942 0.485699046 0.89928623 0.935903053 0.732659561 0.688907474 0.890080989 0.909557253 1 8.383322008 -9.319436679 0.8856122 1.009451458 0.780882077 0.195956404 0.131961998 0.662722409 0.868553396 0.10402229 0.023450327 4.79E-10 9.319436679 -0.22856938 Y(ph)VKES(ph)HGK ddPTM_HeLa_SAHA_4h_R1 1 YVKESHGK 8 1 X1WI25;Q8IXN7 X1WI25 RIMKLA N-acetylaspartylglutamate synthase A 2 0 Y(1)VKES(1)HGK 79.906 0.023633 6147500 2232.3 2747.1 2205.8 3426.7 2920.6 2891.7 2777.3 2909.9 3669.7 2485.5 TRUE FALSE FALSE 2467.103556 2836.107842 2506.394937 3493.028734 2696.824259 2645.310892 2464.790895 2835.468971 3644.162259 2592.662069 0.951571586 1.093897996 0.966726426 1.347274979 1.040175768 1.020306859 0.950679583 1.093651581 1.405567776 1 11.34021846 -7.26021233 24.91565717 0.977131026 1.071665508 0 0.170573063 149.70575 3039848.164 0.017234634 0.020495097 5.49E-08 7.26021233 0.094534482 Y(ph)WECMT(ph)TRQRPGK ddPTM_HeLa_SAHA_4h_R1 1 YWECMTTRQRPGK 13 2 F5H8F7;Q9UBL3-2;Q9UBL3-3;Q9UBL3 F5H8F7 ASH2L Set1/Ash2 histone methyltransferase complex subunit ASH2 2 0 Y(0.996)WECMT(0.502)T(0.502)RQRPGK 59.757 0.0073435 0 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 Y(ph)Y(ph)DAKTEDKVR ddPTM_HeLa_SAHA_4h_R1 1 YYDAKTEDKVR 11 2 E9PMT1;P49662-3;P49662-5;P49662-4;P49662 E9PMT1 CASP4 Caspase-4;Caspase-4 subunit 1;Caspase-4 subunit 2 2 0 Y(0.998)Y(0.993)DAKT(0.009)EDKVR 48.188 0.02348 4343400 495.83 507.85 559.52 484.01 438.52 1265.2 444.26 1260.9 1075.4 396.75 TRUE FALSE FALSE 547.9836743 524.3046732 635.7684717 493.3787134 404.9206923 1157.397842 394.2706956 1228.648004 1067.916204 413.8558341 1.324093148 1.266877569 1.536207586 1.192151162 0.978410014 2.79662082 0.952676423 2.968782611 2.580406305 1 8.692984485 -1 0.412436706 1.146147583 26.17077283 0.139570166 0.703628637 45.83069884 0.530713178 0.113484001 950.7711319 0.1 1 25.02462525 Y(ph)Y(ph)KINGTT(ph)T(ph)R ddPTM_HeLa_SAHA_4h_R1 1 YYKINGTTTR 10 1 Q32MC3;Q9UBL9-7;Q9UBL9-5;Q9UBL9-6;Q9UBL9-2;Q9UBL9-3;Q9UBL9;Q9UBL9-4 Q32MC3 P2RX2 P2X purinoceptor;P2X purinoceptor 2 4 0 Y(0.986)Y(0.986)KINGT(0.055)T(0.986)T(0.986)R 44.425 0.022812 202880000 1292.2 2187.1 1385.8 4496.7 1057.5 1336.6 1591.3 2531.7 5330.2 1735 TRUE FALSE FALSE 1428.119525 2257.963475 1574.649607 4583.740131 976.4745785 1222.71416 1412.242736 2466.94278 5293.106704 1809.804341 0.789101613 1.2476285 0.870066212 2.532726896 0.539547042 0.675605718 0.780328958 1.363099162 2.9246845 1 10.82161802 -4.237755006 21.88119413 0.983451914 1.363101374 0 0.813781803 3180.60077 2938190.887 0.070674623 4.232714985 5.78E-05 4.237755006 0.37964946 Y(ph)YRLKT(ph)AGFTDDVGAFHK ddPTM_HeLa_SAHA_4h_R1 1 YYRLKTAGFTDDVGAFHK 18 2 D6RH05;A0A2R8YFM9;Q9ULG3-2;Q9ULG3 D6RH05 KIAA1257 Uncharacterized protein KIAA1257 2 0 Y(0.49)Y(0.49)RLKT(0.51)AGFT(0.51)DDVGAFHK 55.763 0.007838 0 0 220.33 129.76 126.27 122.12 132.84 218.48 64.754 270.32 157.63 TRUE FALSE FALSE 0 227.4688366 147.443017 128.7141384 112.763192 121.5212847 193.8960554 63.09768644 268.4388211 164.4262007 0 1.383409916 0.896712424 0.782807958 0.685798197 0.739062778 1.17922846 0.383744721 1.632579357 1 7.361296395 -7.260683809 24.99996829 0.527777788 0.862919335 0 0.487542028 114.8160452 3798998.532 0.073039162 0.086663262 5.49E-08 7.260683809 0.335141547 YAALS(ph)VDGEDENEGEDYAE ddPTM_HeLa_SAHA_4h_R1 2 YAALSVDGEDENEGEDYAE 19 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 1 0 YAALS(1)VDGEDENEGEDYAE;YAALS(1)VDGEDENEGEDYAE ; 147.12 8.03E-05 23440000 3824.2 4284.9 4118.7 3291.6 4560.7 4311.4 4780.9 5189.5 4509.4 4088.6 TRUE FALSE FALSE 4226.446902 4423.733571 4679.974987 3355.313678 4211.260151 3944.044465 4242.940549 5056.760104 4478.018718 4264.879555 0.990988572 1.037247011 1.097328758 0.786731169 0.987427686 0.924772766 0.994855891 1.185674774 1.049975424 1 12.05828928 -4.263957794 5.742243228 0.985708933 1.19172874 0.365322522 0.079242822 0.105904336 14.96638016 0.010022032 0.085211022 5.45E-05 4.263957794 0.206019808 YAALSVDGEDENEGEDYAE ddPTM_HeLa_SAHA_4h_R1 1 YAALSVDGEDENEGEDYAE 19 0 E7EX17;P23588-2;P23588 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 0 0 131.43 0.0004085 2915100 1037 1144.7 1001.8 1280.3 948.56 1205.6 1324.1 1269.3 1173.9 1035.7 FALSE FALSE TRUE 1146.076418 1181.789031 1138.320087 1305.082058 875.8815377 1102.876097 1175.108783 1236.833144 1165.730734 1080.354096 1.060834057 1.093890453 1.053654623 1.208013246 0.810735611 1.02084687 1.087707066 1.144840519 1.079026533 1 10.07728853 -9.113286258 0.962040913 1.001219392 1.056773324 0 0.100290839 1.562087045 2.688570513 0.056618445 0.018084229 7.70E-10 9.113286258 0.055553932 YACGLWGLS(ph)PASR ddPTM_HeLa_SAHA_4h_R1 2 YACGLWGLSPASR 13 0 Q15637-6;H7C0N4;H7C561 Q15637-6 SF1 Splicing factor 1 1 0 YACGLWGLS(0.98)PAS(0.02)R;YACGLWGLS(0.923)PAS(0.077)R ; 115.34 0.0016001 8296800 1612.51 1385.49 1369.22 1698.3 1758.8 1710.73 1823.64 1707.01 1783.51 1674.2 TRUE FALSE FALSE 1782.1212 1430.380785 1555.810171 1731.173052 1624.041124 1564.96618 1618.439228 1663.347156 1771.098409 1746.382955 1.020464151 0.819053336 0.890875719 0.991290626 0.929945588 0.89611856 0.926737874 0.952452697 1.014152367 1 10.77015424 -7.325214569 24.99998595 1.009663672 0.917476227 0.519306936 0.042419562 124.4584467 48787.60524 0.00730519 0.008353805 4.73E-08 7.325214569 -0.092187445 YADEEIPRS(ph)PFK ddPTM_HeLa_SAHA_4h_R1 3 YADEEIPRSPFK 12 1 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 1 0 YADEEIPRS(1)PFK;YADEEIPRS(1)PFK;Y(0.008)ADEEIPRS(0.992)PFK ;; 141.73 0.0027107 154491500 5645.6 5328.5 5065.59 5924.9 7301.8 6051.7 6964.4 5998.7 7430.7 6014.2 TRUE FALSE FALSE 6239.430111 5501.146896 5755.902225 6039.585007 6742.337661 5536.061114 6180.747383 5845.26194 7378.989154 6273.501595 0.994568985 0.876886188 0.917494343 0.962713553 1.074732756 0.882451535 0.985214922 0.931738337 1.176215395 1 12.6150552 -7.475912305 24.93109095 0.997604028 0.949562751 0.195806726 0.077557206 534.4972448 283727.5899 0.008861905 0.010100061 3.34E-08 7.475912305 -0.048041277 YADSPGAS(ph)SPEQPK ddPTM_HeLa_SAHA_4h_R1 3 YADSPGASSPEQPK 14 0 A0A0U1RRL5;P32519-2;P32519 A0A0U1RRL5 ELF1 ETS-related transcription factor Elf-1 1 0 YADSPGAS(0.5)S(0.5)PEQPK;YADSPGAS(0.5)S(0.5)PEQPK;YADSPGAS(0.5)S(0.5)PEQPK ;; 166.62 1.24E-07 22586000 9818 9405.4 8478.3 8981.4 9814.7 8773 10678.3 10203.8 8811.4 8826.6 TRUE FALSE FALSE 10850.70229 9710.141131 9633.678571 9155.247984 9062.699806 8025.491044 9476.74958 9942.801571 8750.08075 9207.157922 1.178507242 1.054629584 1.046324898 0.994362002 0.984310238 0.871657803 1.02928066 1.079899102 0.950356323 1 13.16854018 -6.467678273 2.147725413 1.084498656 0.986005628 0.024177606 0.076432123 0.359507055 3.286573597 0.013399458 0.021342189 3.41E-07 6.467678273 -0.098493028 YADSPGAS(ph)SPEQPKR ddPTM_HeLa_SAHA_4h_R1 1 YADSPGASSPEQPKR 15 1 A0A0U1RRL5;P32519-2;P32519 A0A0U1RRL5 ELF1 ETS-related transcription factor Elf-1 1 0 YADSPGAS(0.505)S(0.495)PEQPKR 93.427 0.0035389 10756000 2261.4 1882.8 1914.7 1843.8 2079.4 2157.4 2052.6 2378.9 1781.7 2253.6 TRUE FALSE FALSE 2499.264428 1943.803955 2175.625345 1879.489415 1920.076821 1973.577383 1821.636046 2318.051183 1769.301005 2350.763725 1.063171258 0.826881892 0.925497242 0.799522893 0.816788519 0.839547319 0.774912437 0.986084292 0.752649442 1 11.19891383 -7.25921026 24.99385387 1.029830874 0.848614311 0 0.106324653 82.96212804 930207.9062 0.009789163 0.01168787 5.51E-08 7.25921026 -0.181216562 YAEAVTR ddPTM_HeLa_SAHA_4h_R1 1 YAEAVTR 7 0 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 0 0 112.17 0.0092501 2719100 2594.7 2147.9 1715 2131.3 2697.2 2218.3 2561.8 2178.7 2225.4 2138.4 FALSE FALSE TRUE 2867.622451 2217.493369 1948.711269 2172.554393 2490.541119 2029.28836 2273.539522 2122.972009 2209.91326 2230.596889 1.285585246 0.994125555 0.873627717 0.97397894 1.116535727 0.909751273 1.019251633 0.951750636 0.990727312 1 11.1232141 -7.036975851 24.03676206 1.135122662 0.975914935 0.18607209 0.099411963 343.5315193 223317.6988 0.019781304 0.02423201 9.18E-08 7.036975851 -0.159207727 YAELLEEHR ddPTM_HeLa_SAHA_4h_R1 2 YAELLEEHR 9 0 P40222 P40222 TXLNA Alpha-taxilin 0 0 ; ; 134.59 0.0017264 6588200 8473.1 9690.4 9298.4 10286.4 11635.4 11093.9 11334.9 7973.1 10225.5 10464.1 FALSE FALSE TRUE 9364.339534 10004.37532 10565.53753 10485.50815 10743.89817 10148.63731 10059.46722 7769.159647 10154.33991 10915.25856 0.857912754 0.91654955 0.967960353 0.960628471 0.98430084 0.929766093 0.921596787 0.711770555 0.930288537 1 13.41405868 -13.52283865 0.011642462 2.012828625 2.11E-07 0.174887972 0.071453976 12703.96079 11.95505524 1217.711896 875.7712424 3.00E-14 13.52283865 -2.012828414 YAEYS(ph)FTSLPVPESNLR ddPTM_HeLa_SAHA_4h_R1 2 YAEYSFTSLPVPESNLR 17 0 Q5UIP0;Q5UIP0-2 Q5UIP0 RIF1 Telomere-associated protein RIF1 1 0 YAEYS(0.774)FT(0.113)S(0.113)LPVPESNLR;YAEYS(0.712)FT(0.053)S(0.235)LPVPESNLR ; 113.69 0.0011427 4592600 1002.12 1015.26 1059.85 844.26 1379.38 1297.15 1256.5 1029.63 769.59 1076.74 TRUE FALSE FALSE 1107.527579 1048.15509 1204.280839 860.6018731 1273.692202 1186.625522 1115.115313 1003.293555 764.2343605 1123.163531 0.986078651 0.933216812 1.07222217 0.76623025 1.134022043 1.056502895 0.992834331 0.893274691 0.680430177 1 10.13335228 -8.532625048 1.2235251 0.997842716 0.982460362 0 0.139461368 3.410338873 10.29680782 0.028332393 0.017624131 2.93E-09 8.532625048 -0.015382355 YAGALRAS(ph)GEMASAQYITAALR ddPTM_HeLa_SAHA_4h_R1 1 YAGALRASGEMASAQYITAALR 22 1 A6NJA2;P54578-2;P54578-3;P54578 A6NJA2 USP14 Ubiquitin carboxyl-terminal hydrolase;Ubiquitin carboxyl-terminal hydrolase 14 1 0 Y(0.001)AGALRAS(0.874)GEMAS(0.108)AQY(0.008)IT(0.009)AALR 54.419 0.0127 1755700 0 0 134.32 107.73 0 202.58 139.3 182.64 177.87 0 TRUE FALSE FALSE 0 0 152.6244301 109.8152699 0 185.3190443 123.6255974 177.9683333 176.6321882 0 0 YAHVVLR ddPTM_HeLa_SAHA_4h_R1 2 YAHVVLR 7 0 P62269 P62269 RPS18 40S ribosomal protein S18 0 0 ; ; 97.596 0.0058841 18697400 6434 5425.9 5767.4 6079.4 7135.8 1987.21 6521.4 3985.4 5503.4 5733.3 FALSE FALSE TRUE 7110.75764 5601.70272 6553.351237 6197.075578 6589.056546 1817.888528 5787.594909 3883.459239 5465.101391 5980.490621 1.188992357 0.936662738 1.095788231 1.036215249 1.101758528 0.303969798 0.967745838 0.649354624 0.91382158 1 12.54604813 -5.305406277 24.99045755 1.076573182 0.67309545 0.524421055 0.170538303 220.8177945 125510.8634 0.021968419 0.049123116 4.95E-06 5.305406277 -0.403477732 YALTGDEVK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 YALTGDEVKK 10 1 P62701;C9JEH7;Q8TD47;P22090 P62701 RPS4X;RPS4Y1;RPS4Y2 "40S ribosomal protein S4, X isoform;40S ribosomal protein S4, Y isoform 2;40S ribosomal protein S4, Y isoform 1" 0 1 ; YALTGDEVK(1)K;YALTGDEVK(1)K 123.75 0.0011134 3794600 1552.03 4343.2 1724.37 1986.15 3263 3300.2 3781 2729 3122.6 1442.11 FALSE TRUE FALSE 1715.279636 4483.92253 1959.358163 2024.594805 3012.989645 3019.004394 3355.551929 2659.196132 3100.869572 1504.28642 1.140261332 2.980763817 1.302516687 1.345883855 2.002936147 2.006934553 2.230660255 1.767745887 2.061355824 1 10.55486357 -7.482834639 24.99519906 1.061879561 1.925795843 0.088491541 0.545066082 293.3791512 183126.1739 0.073473148 0.082875111 3.29E-08 7.482834639 0.863916283 YALYDASFETK ddPTM_HeLa_SAHA_4h_R1 3 YALYDASFETK 11 0 P60981;P60981-2;F6RFD5 P60981 DSTN Destrin 0 0 ;; ;; 211.79 1.19E-32 3379700 2820.49 2821.7 2987.78 2926.99 2832.37 3153.55 2960.11 2676.77 2920.71 2734.37 FALSE FALSE TRUE 3117.162079 2913.124931 3394.939099 2983.646124 2615.354423 2884.849799 2627.030632 2608.302099 2900.384541 2852.262072 1.092873656 1.021338453 1.190261979 1.046063106 0.916940434 1.011425222 0.9210341 0.914467897 1.016871686 1 11.47789083 -5.799018213 8.574846356 1.055441775 0.944616516 0.517966783 0.056636199 0.187862636 39.01786133 0.009013684 0.016469396 1.59E-06 5.799018213 -0.11082526 YALYDATYETK ddPTM_HeLa_SAHA_4h_R1 9 YALYDATYETK 11 0 P23528;G3V1A4;E9PP50;E9PK25;E9PQB7;E9PLJ3;Q9Y281-3;Q9Y281 P23528;Q9Y281 CFL1;CFL2 Cofilin-1;Cofilin-2 0 0 ;;;;;;;; ;;;;;;;; 232.79 3.38E-44 104791400 18340.2 18811.72 18601.2 19286.23 19015.2 19978.7 20858.33 19658.19 20809.72 17355.66 FALSE FALSE TRUE 20269.30638 19421.23207 21136.07467 19659.54287 17558.25948 18276.40236 18511.29581 19155.36196 20664.90346 18103.94744 1.119607006 1.072762288 1.167484314 1.085925759 0.969858068 1.009525819 1.022500528 1.058076534 1.141458432 1 14.14401668 -5.78228677 24.99880593 1.07024354 1.015136353 0.313026681 0.051117718 329.9543034 395658.9119 0.008889343 0.01612536 1.65E-06 5.78228677 -0.055107188 YAPS(ph)EAGLHEMDIR ddPTM_HeLa_SAHA_4h_R1 3 YAPSEAGLHEMDIR 14 0 P21333-2;P21333;Q60FE5;A0A087WWY3;H0Y5F3 P21333-2 FLNA Filamin-A 1 0 Y(0.004)APS(0.996)EAGLHEMDIR;YAPS(1)EAGLHEMDIR;YAPS(1)EAGLHEMDIR ;; 111.33 0.0016126 8955400 3351.72 2683.36 2858.62 2976.69 3427.89 2701.43 3451.77 2411.69 2752.26 2462.26 TRUE FALSE FALSE 3704.269288 2770.302625 3248.177847 3034.308139 3165.245809 2471.252966 3063.367755 2350.002462 2733.106799 2568.420079 1.44223654 1.078601841 1.264659887 1.181390912 1.232370762 0.962168528 1.192705111 0.914960322 1.064119854 1 11.32666547 -5.27314612 24.21007147 1.206845784 1.040220699 0.200000366 0.135899575 657.1521018 1359021.936 0.024756885 0.055827913 5.33E-06 5.27314612 -0.166625085 YAPSEAGLHEMDIR ddPTM_HeLa_SAHA_4h_R1 6 YAPSEAGLHEMDIR 14 0 P21333-2;P21333;Q60FE5;A0A087WWY3;H0Y5F3 P21333-2 FLNA Filamin-A 0 0 ;;;;; ;;;;; 201.48 5.53E-12 59039600 10099.42 12929.23 7777.01 10388.36 15057.26 16530.74 13825.62 9774.37 14730.59 12826.76 FALSE FALSE TRUE 11161.72333 13348.14554 8836.820422 10589.44173 13903.57599 15122.22795 12269.92485 9524.355769 14628.07862 13379.7844 0.834222959 0.997635324 0.660460599 0.79145085 1.039147985 1.130229569 0.917049519 0.71184673 1.093297036 1 13.70776725 -4.262624666 8.26059781 0.920764917 0.710440467 0.185032121 0.138498964 0.120018956 116.3810312 0.018664496 0.144095058 5.46E-05 4.262624666 -0.21032445 YASICQQNGIVPIVEPEILPDGDHDLKR ddPTM_HeLa_SAHA_4h_R1 1 YASICQQNGIVPIVEPEILPDGDHDLKR 28 1 P04075;H3BQN4;P04075-2;H3BPS8;P09972 P04075;P09972 ALDOA;ALDOC Fructose-bisphosphate aldolase A;Fructose-bisphosphate aldolase;Fructose-bisphosphate aldolase C 0 0 43.684 0.015221 2449900 445.93 372.19 329.29 540.37 646.27 594.92 606.97 401.55 568.98 490.71 FALSE FALSE TRUE 492.8349634 384.2492002 374.1639263 550.8296427 596.7529322 544.2294691 538.6721381 391.2789324 565.0204219 511.8669096 0.962818565 0.750681853 0.730978931 1.076118875 1.165836121 1.063224559 1.052367575 0.764415369 1.103842447 1 8.999624934 YASS(ph)PKPNNSYMFK ddPTM_HeLa_SAHA_4h_R1 2 YASSPKPNNSYMFK 14 1 Q86VQ1;H7C0B2 Q86VQ1 GLCCI1 Glucocorticoid-induced transcript 1 protein 1 0 Y(0.002)AS(0.181)S(0.817)PKPNNSY(0.001)MFK;YAS(0.279)S(0.72)PKPNNS(0.001)YMFK ; 84.859 0.0078161 11378700 2815.1 3211.8 2677.7 3010.3 3392.5 2936.4 3054.8 3181 2539.1 2445.9 TRUE FALSE FALSE 3111.205134 3315.864427 3042.603011 3068.568709 3132.567383 2686.2022 2711.065864 3099.634626 2521.430196 2551.354719 1.219432606 1.299648537 1.192544098 1.202721318 1.22780551 1.052853286 1.062598565 1.214897561 0.988271124 1 11.31704778 -9.277050334 1.040092648 1.001524321 1.183049145 0.527604564 0.071311331 0.384048304 0.753892378 0.050008531 0.013999018 5.28E-10 9.277050334 0.181524823 YAT(ph)PAPSAK ddPTM_HeLa_SAHA_4h_R1 1 YATPAPSAK 9 0 E9PD68;Q14194;Q14194-2 E9PD68 CRMP1 Dihydropyrimidinase-related protein 1 1 0 Y(0.002)AT(0.998)PAPSAK 100.82 0.017777 11465000 4399 4868.1 4615.5 4389.5 4996.1 4974.7 5223.5 4180.7 4394.8 4884.1 TRUE FALSE FALSE 4861.707003 5025.829634 5244.476304 4474.46512 4613.299897 4550.827573 4635.738033 4073.763748 4364.216229 5094.677453 0.954271796 0.986486324 1.02940301 0.878262689 0.905513635 0.893251362 0.909917865 0.799611709 0.856622675 1 12.3147751 -6.245019679 24.85272819 0.982069242 0.881575249 0.39563103 0.052280709 345.6024122 523101.0966 0.005243591 0.00867952 5.69E-07 6.245019679 -0.100493993 YAVLYQPLFDK ddPTM_HeLa_SAHA_4h_R1 1 YAVLYQPLFDK 11 0 P55209;F8W118;P55209-2;F8W0J6;H0YIV4;B7Z9C2;H0YHC3;F8VV59;F5H4R6;F8VY35;F8W020;H0YH88;F8VRJ2;F8VXI6;F8VUX1;F8W543;P55209-3;F8VVB5 P55209 NAP1L1 Nucleosome assembly protein 1-like 1 0 0 121.83 0.00044087 0 0 68.016 65.393 0 198.86 72.329 0 0 0 0 FALSE FALSE TRUE 0 70.21976303 74.30441749 0 183.6233898 66.16616229 0 0 0 0 0 YAYYDTER ddPTM_HeLa_SAHA_4h_R1 1 YAYYDTER 8 0 O00303 O00303 EIF3F Eukaryotic translation initiation factor 3 subunit F 0 0 122.18 0.019427 9567900 2425 2686.8 2900.4 2816 2539.9 2431.6 3048.4 1963.8 1839 2500 FALSE FALSE TRUE 2680.072626 2773.854083 3295.651407 2870.507752 2345.293411 2224.414 2705.386009 1913.56884 1826.202249 2607.787235 1.027719053 1.063681134 1.263773119 1.100744614 0.899342316 0.852989067 1.037425896 0.733790247 0.700288055 1 11.34861045 -5.730461782 12.95343469 1.04397554 0.890023039 0.1801253 0.148268591 1.103698169 459.307406 0.015188681 0.030302502 1.86E-06 5.730461782 -0.153952501 YCDPDSYHR ddPTM_HeLa_SAHA_4h_R1 2 YCDPDSYHR 9 0 P26368;P26368-2;K7ENG2 P26368 U2AF2 Splicing factor U2AF 65 kDa subunit 0 0 ; ; 152.06 0.00037249 5478300 3174 4949.7 2508 4780.4 6084.5 7656.5 5465.4 5009.6 6415.2 4898.1 FALSE FALSE TRUE 3507.855883 5110.073528 2849.777179 4872.931555 5618.306924 7004.123126 4850.418808 4881.461686 6370.556101 5109.281062 0.686565456 1.000155103 0.55776481 0.953741142 1.099627689 1.370862758 0.949334896 0.955410678 1.246859592 1 12.31890459 -5.924397173 4.564000827 0.838482775 1.100776069 0.13125678 0.209597197 0.198084248 7.828422229 0.027082918 0.049954708 1.19E-06 5.924397173 0.262293294 YCGS(ph)YRR ddPTM_HeLa_SAHA_4h_R1 1 YCGSYRR 7 1 B1AVT0;P49760-2;P49760-3;P49760 B1AVT0 CLK2 Dual specificity protein kinase CLK2 1 0 YCGS(1)YRR 62.582 0.023233 1540600 452.42 456.16 475.24 597.17 515.86 522.17 546.3 498.73 497.69 521.39 TRUE FALSE FALSE 500.0076114 470.9398833 540.0032323 608.7290889 476.3349182 477.6781784 484.8288862 485.9732088 494.2265348 543.8696745 0.919351887 0.865905759 0.992890866 1.119255435 0.875825479 0.878295299 0.891443132 0.89354717 0.908722361 1 9.087117175 YCLDNGAK ddPTM_HeLa_SAHA_4h_R1 1 YCLDNGAK 8 0 P07205 P07205 PGK2 Phosphoglycerate kinase 2 0 0 133.6 0.0093901 35902000 2133.4 1789 1467.7 1990.8 2081 2153.7 2121.4 1644.9 1736.3 1665.1 FALSE FALSE TRUE 2357.8008 1846.964774 1667.710513 2029.334813 1921.55423 1970.192644 1882.694489 1602.82584 1724.216947 1736.89061 1.357483763 1.063374264 0.960170147 1.168372263 1.106318509 1.134321662 1.083945344 0.922813349 0.992703246 1 10.76229118 YDDIK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 YDDIKK 6 1 P04406;P04406-2;E7EUT5 P04406 GAPDH Glyceraldehyde-3-phosphate dehydrogenase 0 1 YDDIK(1)K 91.906 0.01304 5059300 4298.4 6357.9 5128 6134.5 8684.6 10116 8385.3 8259.9 7145.6 4557.6 FALSE TRUE FALSE 4750.525434 6563.900132 5826.817135 6253.242118 8019.187824 9254.059889 7441.763975 8048.623718 7095.873188 4754.10044 0.999248016 1.380681837 1.225640309 1.31533656 1.686793942 1.94654278 1.565335876 1.692985628 1.492579569 1 12.21495667 -6.301174877 0.796371599 0.995510398 1.756029354 0.492970466 0.207836233 0.17474234 0.218675725 0.027359237 0.062691038 5.00E-07 6.301174877 0.760518956 YDDMAACMK ddPTM_HeLa_SAHA_4h_R1 3 YDDMAACMK 9 0 E7EX29;P63104;E7ESK7;E5RIR4;E9PD24;E7EVZ2;E5RGE1 E7EX29 YWHAZ 14-3-3 protein zeta/delta 0 0 ;; ;; 131.06 0.0084022 38766000 6069.5 6309.8 6136.9 6566.5 7652.9 6908.8 7173.7 6130.1 6285.5 5488.1 FALSE FALSE TRUE 6707.917858 6514.24166 6973.204772 6693.604103 7066.536455 6320.131372 6366.496396 5973.300918 6241.758694 5724.718849 1.171746252 1.137914687 1.218086854 1.16924591 1.234390132 1.104007295 1.112106387 1.043422581 1.090317072 1 12.48298913 -9.235211434 0.882775342 0.996363657 1.152450006 0.284767631 0.059159627 0.39995806 0.539782383 0.041518958 0.010483904 5.82E-10 9.235211434 0.15608635 YDDMATCMK ddPTM_HeLa_SAHA_4h_R1 4 YDDMATCMK 9 0 P27348;E9PG15 P27348 YWHAQ 14-3-3 protein theta 0 0 ;;; ;;; 136.8 0.0060399 29946200 3788.18 3916.47 3406.71 4210.41 4439.47 4872.86 4390.07 4320.73 4904.89 4365.62 FALSE FALSE TRUE 4186.638153 4043.366198 3870.958697 4291.908574 4099.318768 4457.664914 3896.08777 4210.211983 4870.756471 4553.843243 0.919363696 0.887901929 0.850042149 0.942480526 0.900188818 0.978879745 0.855560361 0.924540385 1.069592476 1 12.15286892 -8.786285311 0.762896121 0.998306935 0.906308938 0.541740626 0.043655548 0.410282302 0.461361622 0.020503567 0.007620952 1.64E-09 8.786285311 -0.091997997 YDDYRDYDS(ph)PER ddPTM_HeLa_SAHA_4h_R1 1 YDDYRDYDSPER 12 1 P52756;C9JR02;C9J9P7;C9JFQ5;F8W910;P52756-3;P52756-4;P52756-2;P52756-5 P52756 RBM5 RNA-binding protein 5 1 0 YDDYRDYDS(1)PER 116.9 0.0076154 2810900 436.16 788.63 447.75 842.83 594.14 891.38 575.65 325.92 1004.7 560.32 TRUE FALSE FALSE 482.03731 814.1821294 508.7670382 859.1441934 548.6171216 815.4294092 510.876347 317.5834383 997.7082109 584.4781373 0.824731122 1.393006988 0.870463762 1.469933841 0.938644385 1.395140994 0.874072637 0.543362391 1.707006896 1 9.191005251 YDDYS(ph)SSRDGYGGSR ddPTM_HeLa_SAHA_4h_R1 1 YDDYSSSRDGYGGSR 15 1 P38159;P38159-2;H3BUY5;Q96E39 P38159;Q96E39 RBMX;RBMXL1 "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed;RNA binding motif protein, X-linked-like-1" 1 0 YDDYS(0.718)S(0.141)S(0.141)RDGYGGSR 122.12 0.00315 9258700 1108.7 1023.4 1095 1308.2 1625.5 1260.8 1682.1 1958.2 961.63 914.02 TRUE FALSE FALSE 1225.318153 1056.558831 1244.220897 1333.522103 1500.954541 1153.372747 1492.825681 1908.112079 954.9379385 953.4278753 1.285171311 1.108168598 1.304997399 1.398660703 1.57427172 1.209711586 1.565745789 2.001317697 1.001583825 1 9.896979996 -1 0.230718898 1.057277096 5.451588947 0.750995098 0.145608111 19.50713721 0.237530658 0.10035082 32.74489277 0.1 1 4.394311851 YDDYSSSR ddPTM_HeLa_SAHA_4h_R1 1 YDDYSSSR 8 0 P38159;P38159-2;H3BUY5;Q96E39 P38159;Q96E39 RBMX;RBMXL1 "RNA-binding motif protein, X chromosome;RNA-binding motif protein, X chromosome, N-terminally processed;RNA binding motif protein, X-linked-like-1" 0 0 148.99 0.0018534 18747000 3431.1 2589.8 2479.5 3112.3 3149.8 3284.8 3399.2 3575.4 2832 2732.5 FALSE FALSE TRUE 3791.99884 2673.711219 2817.393347 3172.543067 2908.463004 3004.91656 3016.71307 3483.946445 2812.291881 2850.311448 1.330380525 0.938041778 0.988451051 1.113051372 1.020401826 1.05424148 1.058380154 1.222303776 0.986661259 1 11.47690385 -7.238926917 24.98835918 1.156013048 1.05458233 0 0.115806369 1397.897366 1551638.408 0.023002344 0.028160841 5.77E-08 7.238926917 -0.101430719 YDEFHDYLER ddPTM_HeLa_SAHA_4h_R1 2 YDEFHDYLER 10 0 Q96K76-2;Q96K76-4;Q96K76 Q96K76-2 USP47 Ubiquitin carboxyl-terminal hydrolase 47 0 0 ; ; 139.86 0.0012446 11609300 7281.4 7519.5 7195.3 7891 8744.1 6466.1 9258.2 6031.7 10219.2 8182.2 FALSE FALSE TRUE 8047.29106 7763.136734 8175.838012 8043.741716 8074.128947 5915.151903 8216.44297 5877.417848 10148.08376 8534.974685 0.942860566 0.909567634 0.957921765 0.942444707 0.946005026 0.693048559 0.962679243 0.688627449 1.188999866 1 13.05917116 -2.054305146 0.270672277 0.988474669 5.03E-12 0.458367038 0.101115479 16.6876479 0.351718494 0.033827637 6.960959198 0.008824596 2.054305146 -0.988474669 YDFGIYDDDPEIITLER ddPTM_HeLa_SAHA_4h_R1 2 YDFGIYDDDPEIITLER 17 0 Q71S60;A0A087WXH7;E7EP04;A0A494C1G5;Q8IXB1-3;Q8IXB1-2;Q8IXB1 Q71S60 DNAJC10 DnaJ homolog subfamily C member 10 0 0 ; ; 137.62 0.00071742 5293100 782.08 654.88 584.62 744.3 607.39 1146.11 957.81 874.02 1009.65 914.92 FALSE FALSE TRUE 864.3427627 676.0985417 664.288969 758.7070028 560.8519094 1048.45498 850.034698 851.663834 1002.623763 954.3666787 0.905671564 0.708426391 0.69605214 0.7949848 0.587669207 1.098587161 0.890679355 0.892386389 1.050564511 1 9.898399863 -7.665008206 2.282457908 0.966528778 0.811162185 0.262459692 0.134450208 0.321459756 3.50613184 0.026436109 0.027014574 2.16E-08 7.665008206 -0.155366593 YDGIILPGK ddPTM_HeLa_SAHA_4h_R1 2 YDGIILPGK 9 0 P62913;Q5VVC8;P62913-2 P62913 RPL11 60S ribosomal protein L11 0 0 ; ; 109.21 0.0086459 4479700 5892.8 6100.2 5671 6357.4 7259.1 6164.3 7300.9 5336.5 4825.5 5598.8 FALSE FALSE TRUE 6512.631741 6297.850482 6443.814347 6480.45667 6702.909326 5639.066961 6479.383517 5200.000057 4791.918953 5840.191668 1.115140069 1.078363663 1.103356656 1.10963082 1.147720778 0.965561968 1.109447067 0.890381747 0.820507138 1 12.5118 -4.252587908 24.0610618 1.066989967 0.89038159 0.185092936 0.094571521 502.2942464 1365340.941 0.008363689 0.129715441 5.59E-05 4.252587908 -0.176608377 YDLDFKSPDDPSR ddPTM_HeLa_SAHA_4h_R1 1 YDLDFKSPDDPSR 13 1 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 85.522 0.021713 19795000 3347.7 4268 4069.5 3975.6 4453.9 3643.9 4271.7 3271 3059.5 3200 FALSE FALSE TRUE 3699.826446 4406.286 4624.070267 4052.553487 4112.643144 3333.41922 3791.037074 3187.332556 3038.20869 3337.96766 1.108406918 1.320050536 1.385295107 1.214078116 1.232079985 0.998637362 1.135732116 0.95487221 0.910197162 1 11.70475426 -7.985925805 1.579023076 1.029555587 1.178303383 0.268557294 0.130339137 0.410932259 2.106279811 0.030342374 0.026602689 1.03E-08 7.985925805 0.148747796 YDPSYIEFGFVAVIDGEVLKPQCIICGDVLANEAMKPSK ddPTM_HeLa_SAHA_4h_R1 1 YDPSYIEFGFVAVIDGEVLKPQCIICGDVLANEAMKPSK 39 2 A0A140T9Y6;A0A2R8Y5N3;Q6R2W3 A0A140T9Y6 ZBED9 SCAN domain-containing protein 3 0 0 11.725 0.019603 9392100 168.33 216.59 535.75 1317.4 1713.6 2449.8 2115.2 2514.7 104.2 104.39 FALSE FALSE TRUE 186.0357217 223.6076581 608.7592199 1342.900182 1582.304338 2241.063258 1877.192129 2450.377615 103.4748637 108.8907638 1.708461905 2.053504359 5.590549637 12.33254443 14.53111617 20.58083882 17.23922272 22.50308043 0.950262999 1 6.766737778 -6.032329566 1.007308276 1.180972695 20.39854527 0.970558119 1.394680059 0.051103097 0.101852218 0.214802368 0.534911457 9.28E-07 6.032329566 19.21757258 YDQDLCYTDILFTEQER ddPTM_HeLa_SAHA_4h_R1 1 YDQDLCYTDILFTEQER 17 0 Q15029-3;Q15029;Q15029-2 Q15029-3 EFTUD2 116 kDa U5 small nuclear ribonucleoprotein component 0 0 179.41 6.71E-27 0 309.96 172.84 178.86 272.01 270.79 287.46 219.92 185.78 359.62 363.13 FALSE FALSE TRUE 342.5630149 178.4401294 203.2341093 277.2751469 250.0421287 262.9667908 195.1740228 181.0280166 357.1173751 378.7863114 0.904370102 0.471083891 0.536540269 0.732009417 0.660113951 0.6942352 0.515261552 0.477915941 0.942793772 1 8.565240385 -7.370710426 5.116798154 0.958307146 0.592913958 0.790370655 0.086327403 0.077045326 2.997169145 0.016322827 0.018570529 4.26E-08 7.370710426 -0.365393188 YDSDGDKS(ph)DDLVVDVSNEDPATPR ddPTM_HeLa_SAHA_4h_R1 1 YDSDGDKSDDLVVDVSNEDPATPR 24 1 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726;A0A0D9SES8 H0YKH0 TLE3 Transducin-like enhancer protein 3 1 0 Y(0.021)DS(0.103)DGDKS(0.876)DDLVVDVS(0.001)NEDPATPR 105.95 1.44E-05 5294000 465.24 956.17 614.51 618.62 993.03 873.03 1067.3 939.41 1020.3 777.66 TRUE FALSE FALSE 514.1760778 987.1505354 698.2522226 630.5942846 916.9442559 798.6429325 947.204595 915.3812524 1013.199649 811.1887284 0.633855057 1.216918457 0.860776535 0.77737062 1.130371052 0.98453406 1.167674749 1.128444245 1.24903073 1 9.663893796 -5.448107309 0.871742214 0.849927985 1.161415541 0 0.201836933 0.763021023 0.980037541 0.031541678 0.153655535 3.56E-06 5.448107309 0.311487556 YDSDGDKSDDLVVDVS(ph)NEDPATPR ddPTM_HeLa_SAHA_4h_R1 1 YDSDGDKSDDLVVDVSNEDPATPR 24 1 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726;A0A0D9SES8 H0YKH0 TLE3 Transducin-like enhancer protein 3 1 0 Y(0.005)DS(0.15)DGDKS(0.029)DDLVVDVS(0.807)NEDPAT(0.009)PR 78.419 0.00020068 3611100 460.77 782.88 525.83 880.9 745.08 948.65 524.94 416.55 808.98 619.69 TRUE FALSE FALSE 509.2359027 808.2458257 597.487374 897.9510933 687.9921314 867.819683 465.8723696 405.8952542 803.3502423 646.4078686 0.787793478 1.250365079 0.924319463 1.389140103 1.064331307 1.342526484 0.72070962 0.627924371 1.242791558 1 9.33630095 -2.783504071 13.51506321 0.966087874 1.001485858 0 0.263999624 0 0 0.033682429 0 0.001646251 2.783504071 0.035397984 YDSDGDKSDDLVVDVSNEDPAT(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 YDSDGDKSDDLVVDVSNEDPATPR 24 1 H0YKH0;H0YLI3;H0YKT5;Q04726-7;Q04726-3;Q04726-5;H0YLW9;H0YNT2;H0YKN8;H0YL70;Q04726-2;Q04726-6;Q04726-4;Q04726;A0A0D9SES8 H0YKH0 TLE3 Transducin-like enhancer protein 3 1 0 YDSDGDKSDDLVVDVS(0.325)NEDPAT(0.675)PR 69.726 0.002483 0 313.78 437.88 172.16 214.87 276.5 467.3 282.38 235.99 408.79 324.76 TRUE FALSE FALSE 346.7848201 452.0675993 195.6210682 219.0291196 255.3146297 427.483411 250.6058592 229.9537175 405.9451971 338.7619929 1.023682784 1.334469653 0.577458724 0.646557536 0.753669641 1.261898973 0.739769704 0.67880613 1.198319781 1 8.404128212 -6.748697425 24.99994986 1.035742502 0.789835414 0.392083709 0.205356035 241.8316439 474476.9719 0.031792977 0.044790882 1.78E-07 6.748697425 -0.245907088 YDTNNNEEEEGEQFDFDS(ph)GDEIPEADR ddPTM_HeLa_SAHA_4h_R1 2 YDTNNNEEEEGEQFDFDSGDEIPEADR 27 0 O15013-7;O15013-4;O15013-5;O15013-6;O15013 O15013-7 ARHGEF10 Rho guanine nucleotide exchange factor 10 1 0 YDTNNNEEEEGEQFDFDS(1)GDEIPEADR;YDTNNNEEEEGEQFDFDS(1)GDEIPEADR ; 154.25 3.07E-10 8058300 744.97 1016.61 836.15 896.34 815.49 1106.76 1171.43 964.7 1232.43 1027.72 TRUE FALSE FALSE 823.3293626 1049.548831 950.0961675 913.6899568 753.0073324 1012.457822 1039.617613 940.0243709 1223.853419 1072.030039 0.768009601 0.979029312 0.886258904 0.852298838 0.702412531 0.944430459 0.969765376 0.876863835 1.141622319 1 10.06612962 -9.627651798 1.450590174 0.999865135 0.859883007 0.356138329 0.09476369 0.462966849 1.752678888 0.062198043 0.014254027 2.36E-10 9.627651798 -0.139982129 YEAQGDK(ac)AK ddPTM_HeLa_SAHA_4h_R1 2 YEAQGDKAK 9 1 O75351;K7EKZ3;K7EL71 O75351 VPS4B Vacuolar protein sorting-associated protein 4B 0 1 ; YEAQGDK(1)AK;YEAQGDK(1)AK 121.73 0.002616 4140300 3395 3831.5 3137.1 4006 4673.8 4891.9 4773.5 3414 2617.7 2426.1 FALSE TRUE FALSE 3752.101677 3955.643114 3564.607651 4083.541923 4315.694454 4475.082599 4236.373217 3326.674823 2599.483213 2530.701044 1.482633314 1.563062189 1.408545533 1.613601074 1.705335549 1.768317364 1.673991966 1.314526989 1.027179097 1 11.30532137 -8.952902094 0.415343958 0.874422439 1.627867337 0.758895055 0.125986725 0.651837721 0.177502262 0.212720798 0.045539376 1.11E-09 8.952902094 0.753444898 YEAVS(ph)PERLELER ddPTM_HeLa_SAHA_4h_R1 2 YEAVSPERLELER 13 1 Q92585 Q92585 MAML1 Mastermind-like protein 1 1 0 Y(0.005)EAVS(0.995)PERLELER;YEAVS(1)PERLELER ; 78.508 0.012261 44170000 2689.3 3161.7 3172.7 3547.2 3511.2 3743.5 3895.9 3681.3 3383.3 3456.4 TRUE FALSE FALSE 2972.172913 3264.141154 3605.059033 3615.861185 3242.172615 3424.53274 3457.523079 3587.137676 3359.75534 3605.422319 0.824361933 0.90534225 0.999899239 1.002895324 0.899249055 0.949828463 0.958978664 0.994928571 0.931861802 1 11.81595254 -6.781530337 24.80655603 0.913863533 0.964922253 0.213229946 0.048957556 388.5687114 479769.2309 0.011521769 0.015153577 1.65E-07 6.781530337 0.05105872 YEAWLAEAESR ddPTM_HeLa_SAHA_4h_R1 1 YEAWLAEAESR 11 0 M0R0F9;W4VSQ9;Q15642-4;Q15642-2;Q15642-3;Q15642 M0R0F9 TRIP10 Cdc42-interacting protein 4 0 0 132.88 0.0072448 1444200 257.46 189.04 347.69 472.81 436.92 437.3 355.85 227.18 404.82 376.62 FALSE FALSE TRUE 284.5408241 195.16502 395.0713825 481.9619212 403.443284 400.0395798 315.8088215 221.3690646 402.0028247 392.8579313 0.72428428 0.49678269 1.005634228 1.226809701 1.02694448 1.018280523 0.803875387 0.563483761 1.023277864 1 8.617863877 -9.702024414 1.617138888 0.999419269 0.847781342 0.073815048 0.212594597 1.028680908 4.882005658 0.16253115 0.036477159 1.99E-10 9.702024414 -0.151637927 YEDDGIS(ph)DDEIEGK ddPTM_HeLa_SAHA_4h_R1 2 YEDDGISDDEIEGK 14 0 I3VM54;Q9Y2K7-3;Q9Y2K7 I3VM54 KDM2A Lysine-specific demethylase 2A 1 0 YEDDGIS(1)DDEIEGK;YEDDGIS(1)DDEIEGK ; 187.37 2.03E-08 10049100 3036.1 3804.8 2523.5 3167.7 3803 4140.6 3118.8 3438.9 3725.1 3259.3 TRUE FALSE FALSE 3355.450928 3928.078016 2867.389438 3229.015414 3511.614962 3787.797586 2767.864416 3350.937917 3699.176726 3399.824374 0.986948312 1.155376744 0.8433934 0.949759476 1.032881283 1.114115663 0.814119823 0.985620888 1.088049358 1 11.73124451 YEDEVFGDSEPELDEES(ph)EDEVEEEQEER ddPTM_HeLa_SAHA_4h_R1 1 YEDEVFGDSEPELDEESEDEVEEEQEER 28 0 Q9UN86-2;Q9UN86;D6RB17 Q9UN86-2 G3BP2 Ras GTPase-activating protein-binding protein 2 1 0 YEDEVFGDS(0.067)EPELDEES(0.933)EDEVEEEQEER 115.05 4.61E-08 3840400 510.03 870.61 728.35 650.71 889.36 882.58 655.53 687.26 1232.8 596.79 TRUE FALSE FALSE 563.6772955 898.8183352 827.6057449 663.305433 821.2174289 807.3792187 581.7680391 669.6808843 1224.220844 622.5205375 0.905475822 1.443837241 1.329443279 1.065515743 1.319181263 1.29695194 0.934536299 1.075757094 1.96655495 1 9.281977624 -7.295558419 24.99393563 0.955363566 1.205434555 0 0.350755813 473.1249002 346586.9709 0.025577939 0.029250164 5.06E-08 7.295558419 0.250070989 YEDFKEEGSENAVK ddPTM_HeLa_SAHA_4h_R1 1 YEDFKEEGSENAVK 14 1 J3KQ32;Q9NTK5;Q9NTK5-2 J3KQ32 OLA1 Obg-like ATPase 1 0 0 153.39 7.50E-05 5829000 1034.9 997.29 763.58 1107.7 1193.4 866.83 1039.9 984.45 1106.4 856.78 FALSE FALSE TRUE 1143.75553 1029.60285 867.6367058 1129.141135 1101.96195 792.9712073 922.8877151 959.2691945 1098.700472 893.7199788 1.279769455 1.152041886 0.970814938 1.263417135 1.233005836 0.887270315 1.032636326 1.073344243 1.229356508 1 9.803679065 -5.266729811 24.99323305 1.139999298 1.001238899 0.307919627 0.109061724 548.5926113 2591685.952 0.018624886 0.042850902 5.41E-06 5.266729811 -0.138760399 YEDKPEPEVDALGS(ph)PPALLK ddPTM_HeLa_SAHA_4h_R1 1 YEDKPEPEVDALGSPPALLK 20 1 Q68DQ2 Q68DQ2 CRYBG3 Very large A-kinase anchor protein 1 0 YEDKPEPEVDALGS(1)PPALLK 68.567 0.0050378 2783400 681.16 1078 889.78 973.84 1531.6 1271.1 1311.9 1423.1 1340.9 1090.2 TRUE FALSE FALSE 752.8075341 1112.927907 1011.034585 992.6900814 1414.249139 1162.795129 1164.281559 1386.699163 1331.568568 1137.203857 0.661981165 0.978652948 0.889053074 0.872921838 1.243619717 1.02250368 1.023810772 1.21939365 1.170914572 1 10.15127518 -5.83784529 8.20033376 0.853755988 1.112038644 0.213302852 0.148483847 0.187051338 17.76931463 0.02126092 0.038677244 1.45E-06 5.83784529 0.258282657 YEDRYDR ddPTM_HeLa_SAHA_4h_R1 1 YEDRYDR 7 1 E7EX17;P23588-2;P23588;F8VP89;F8VX11 E7EX17 EIF4B Eukaryotic translation initiation factor 4B 0 0 102.77 0.018158 16790000 1240.7 1795.2 1567 1872.2 1595.9 1813.4 1994.2 1262.7 2372.1 1798.9 FALSE FALSE TRUE 1371.202519 1853.365658 1780.542599 1908.439138 1473.622487 1658.888118 1769.807368 1230.401962 2355.592363 1876.459383 0.730739248 0.987692926 0.948884168 1.017042605 0.785320748 0.884052239 0.943163164 0.655704021 1.25533885 1 10.87379735 -4.25339697 24.20188698 0.891246112 0.655703837 0.180277616 0.145797667 669.3985112 2014334.893 0.015707729 0.226276292 5.58E-05 4.25339697 -0.235542275 YEDSDKPFVDS(ph)PASR ddPTM_HeLa_SAHA_4h_R1 1 YEDSDKPFVDSPASR 15 1 O94913;E9PKN0;E9PQ01 O94913;E9PQ01 PCF11 Pre-mRNA cleavage complex 2 protein Pcf11 1 0 YEDSDKPFVDS(0.997)PAS(0.003)R 174.4 1.96E-17 0 365.14 485.44 489.74 529.65 532.9 474.49 465.38 380.12 627.81 482.24 TRUE FALSE FALSE 403.5471005 501.1685745 556.4792167 539.9021416 492.0693171 434.0607826 413.0142176 370.3970808 623.4410191 503.0317264 0.802229918 0.996296154 1.106250734 1.073296401 0.97820732 0.862889476 0.821050037 0.736329463 1.239367194 1 8.974505584 -4.768076043 2.002167336 0.943142059 0.751101292 0.26546357 0.126876095 0.387788595 2.855814499 0.016384683 0.094120732 1.71E-05 4.768076043 -0.192040767 YEDYDYR ddPTM_HeLa_SAHA_4h_R1 2 YEDYDYR 7 0 Q13595;Q13595-4;Q13595-3 Q13595 TRA2A Transformer-2 protein homolog alpha 0 0 ; ; 149.4 0.00083906 24630000 7656.6 9061.2 6981.7 7909.2 9042.7 9262.9 9382 7190 11840 8115.9 FALSE FALSE TRUE 8461.956318 9354.788825 7933.129717 8062.294003 8349.85028 8473.648808 8326.312668 7006.090211 11757.60448 8465.816167 0.999544066 1.105007319 0.937077957 0.952335114 0.986301866 1.000925208 0.983521553 0.827574102 1.388832954 1 13.04743345 -4.258934516 3.908665851 0.998418962 0.810911783 0.130679455 0.130318753 0.127121644 3.876845715 0.005562141 0.067957062 5.51E-05 4.258934516 -0.187507179 YEEEEEQSR ddPTM_HeLa_SAHA_4h_R1 1 YEEEEEQSR 9 0 Q9Y5B9 Q9Y5B9 SUPT16H FACT complex subunit SPT16 0 0 125.57 0.016546 2702900 493.7 880.32 637.14 643.07 830.32 963.97 729.85 528.25 817.98 806.84 FALSE FALSE TRUE 545.6296312 908.8429456 723.9661211 655.5175497 766.701061 881.8343329 647.7253571 514.7381299 812.2876106 841.626821 0.648303521 1.079864523 0.860198491 0.778869605 0.91097508 1.047773563 0.769611116 0.611599009 0.965139882 1 9.717036871 -9.748123908 1.692142902 1.000097815 0.815932914 0.122263717 0.144412568 0.561392348 2.906177331 0.112851113 0.024320949 1.79E-10 9.748123908 -0.184164901 YEEIDNAPEER ddPTM_HeLa_SAHA_4h_R1 1 YEEIDNAPEER 11 0 P49411 P49411 TUFM "Elongation factor Tu, mitochondrial" 0 0 115.91 0.016296 5781700 1677.2 1741.6 1783.3 1276.5 1833.7 1220.4 2036.7 1965.8 1437.2 1547.5 FALSE FALSE TRUE 1853.615591 1798.028983 2026.318837 1301.208503 1693.202302 1116.415054 1807.525156 1915.517682 1427.198408 1614.220298 1.148303979 1.113868401 1.255292626 0.80609103 1.048928888 0.691612573 1.119751225 1.186651961 0.884141037 1 10.65662177 -6.259937846 24.99486539 1.088427795 0.967744437 0.102019328 0.161748862 220.0706691 3663336.938 0.022855893 0.036596686 5.50E-07 6.259937846 -0.120683358 YEEIVK ddPTM_HeLa_SAHA_4h_R1 2 YEEIVK 6 0 Q5VTE0;P68104;A0A087WVQ9;A0A087WV01 Q5VTE0 EEF1A1P5;EEF1A1 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha 0 0 ; ; 129.96 0.00042695 30598000 9229.7 9363.9 8406.9 8701.8 9604.4 11242 10792.6 9451.7 9630.3 9620 FALSE FALSE TRUE 10200.52219 9667.296504 9552.548551 8870.235922 8868.512947 10284.11835 9578.188243 9209.9392 9563.281958 10034.76528 1.016518265 0.963380431 0.95194539 0.883950514 0.883778813 1.02484892 0.954500477 0.917803152 0.953015013 1 13.29271925 -7.0201782 2.590199569 1.007789174 0.936174959 0.21767997 0.041745805 0.207384103 2.78176545 0.006719346 0.008677493 9.55E-08 7.0201782 -0.071614215 YEESNLGLLES(ph)SVGDSRLPLVLR ddPTM_HeLa_SAHA_4h_R1 1 YEESNLGLLESSVGDSRLPLVLR 23 1 Q86TU7 Q86TU7 SETD3 Histone-lysine N-methyltransferase setd3 1 0 YEES(0.001)NLGLLES(0.55)S(0.446)VGDS(0.003)RLPLVLR 48.641 0.017672 2839200 224.67 196.76 301.31 231.79 317.41 247.56 247.71 124.6 271.24 309.78 TRUE FALSE FALSE 248.3018214 203.1351531 342.3709576 236.2766306 293.0901144 226.4664953 219.8370189 121.4129124 269.3524188 323.1361318 0.768412434 0.628636457 1.059525457 0.731198425 0.907017463 0.700839284 0.680323236 0.375733013 0.833557106 1 8.335998266 -4.065294727 0.853331741 0.874086133 1.16E-21 0.56042206 0.123909525 1.74877616 0.748226886 0.021282985 1.546918234 8.60E-05 4.065294727 -0.874086133 YEEVSVSGFEEFHR ddPTM_HeLa_SAHA_4h_R1 2 YEEVSVSGFEEFHR 14 0 I3L0K2;I3L3M7;Q9BRA2;I3L2R6 I3L0K2 TXNDC17 Thioredoxin domain-containing protein 17 0 0 ; ; 189.99 1.66E-08 21949000 6289.3 6868.5 5725.1 7587 8276.2 8656.1 8448.2 6320.1 8664.2 7234.2 FALSE FALSE TRUE 6950.83743 7091.043907 6505.286813 7733.857356 7642.079344 7918.551582 7497.586302 6158.440993 8603.905127 7546.101765 0.921116312 0.9396963 0.8620725 1.024881137 1.012718829 1.049356585 0.993570791 0.816108924 1.140178783 1 12.88151584 YEFTDALLCHDDELEGR ddPTM_HeLa_SAHA_4h_R1 1 YEFTDALLCHDDELEGR 17 0 H3BR79;A0A0A0MTR2;Q8N543;H3BUA6;Q8N543-2 H3BR79 OGFOD1 Prolyl 3-hydroxylase OGFOD1 0 0 147.64 0.00010115 2451200 471.61 499.03 486.27 441 613.44 554.96 691.05 501.41 722.4 468.67 FALSE FALSE TRUE 521.2161036 515.1988994 552.5363432 449.5361927 566.4383597 507.6742859 613.2912353 488.5846582 717.3727596 488.8766573 1.066150522 1.053842297 1.130216252 0.919528855 1.158652906 1.038450657 1.254490731 0.999402714 1.467390085 1 8.933326712 YEFTDALLCHDDELEGRR ddPTM_HeLa_SAHA_4h_R1 1 YEFTDALLCHDDELEGRR 18 1 H3BR79;A0A0A0MTR2;Q8N543;H3BUA6;Q8N543-2 H3BR79 OGFOD1 Prolyl 3-hydroxylase OGFOD1 0 0 66.568 0.007885 2542400 1517.3 1204.9 1999.5 2061.9 1634.1 1693.7 1773.7 1165.1 1626.8 1586.2 FALSE FALSE TRUE 1676.896576 1243.939551 2271.981447 2101.811056 1508.895611 1549.387232 1574.118608 1135.298429 1615.478966 1654.588845 1.013482341 0.75181188 1.37313959 1.27029205 0.911945959 0.936418275 0.951365418 0.686151386 0.976362781 1 10.69225705 -3.714669057 1.091486881 1.026753636 2.13E-09 0.284903017 0.166060296 5.039986642 2.090572782 0.024787554 7.979867457 0.000192899 3.714669057 -1.026753634 YEKFGESEEVEMEVES(ph)DEEDDKQEK ddPTM_HeLa_SAHA_4h_R1 1 YEKFGESEEVEMEVESDEEDDKQEK 25 2 Q15459;Q15459-2;H7C1L2 Q15459 SF3A1 Splicing factor 3A subunit 1 1 0 YEKFGESEEVEMEVES(0.999)DEEDDKQEK 50.752 0.0070859 8842900 1148.4 841.05 1447.4 1284.1 1633.9 1766.6 1505.9 2360.3 1291.5 1523.7 TRUE FALSE FALSE 1269.193981 868.3005718 1644.644134 1308.955612 1508.710935 1616.075741 1336.452169 2299.926944 1282.512346 1589.394164 0.798539475 0.546309148 1.034761654 0.823556322 0.949236489 1.016787263 0.840856346 1.4470463 0.806918998 1 10.63426124 -4.258356064 24.71990153 0.889648048 1.44704654 0.606610181 0.138825756 138.0544879 1106759.319 0.019623045 0.185596857 5.52E-05 4.258356064 0.557398492 YEPQS(ph)PGYEPR ddPTM_HeLa_SAHA_4h_R1 4 YEPQSPGYEPR 11 0 H3BS42;Q9H5H4 H3BS42 ZNF768 Zinc finger protein 768 1 0 YEPQS(1)PGYEPR;YEPQS(1)PGYEPR;YEPQS(1)PGYEPR;YEPQS(1)PGYEPR ;;; 195.94 2.01E-07 140316400 4396.96 4567.69 3391.41 4425.48 4724.34 5440.31 4271.23 4481.2 5016.23 4550.13 TRUE FALSE FALSE 4859.452427 4715.686153 3853.573693 4511.141565 4362.36209 4976.764982 3790.619959 4366.577393 4981.321647 4746.308372 1.023838328 0.993548203 0.811909676 0.950452691 0.919106334 1.048554917 0.79864595 0.919994457 1.049514961 1 12.21259012 -6.973126623 24.9654955 1.011122067 0.911175375 0.388140764 0.066957069 172.7534524 160488.3629 0.010053427 0.013212624 1.06E-07 6.973126623 -0.099946691 YEQGTGCWQGPNR ddPTM_HeLa_SAHA_4h_R1 1 YEQGTGCWQGPNR 13 0 K7ELL7;P14314-2;P14314;A0A0C4DGP4 K7ELL7 PRKCSH Glucosidase 2 subunit beta 0 0 155.47 0.00058527 7599800 662.76 635.72 692.94 636.96 853.73 541.85 775.28 630.16 603.67 582.22 FALSE FALSE TRUE 732.4721377 656.3177451 787.3702545 649.2892819 788.3173918 495.6813316 688.043454 614.0414197 599.4690113 607.3223535 1.206068134 1.080674441 1.296461838 1.06910157 1.298021368 0.816175016 1.132913106 1.011063426 0.987068906 1 9.246318661 -4.250019679 22.3535132 1.105828377 1.011063176 0.031723524 0.139730084 1143.348174 2237850.242 0.018527466 0.343932372 5.62E-05 4.250019679 -0.0947652 YESGPDGGEEDGTGS(ph)LKR ddPTM_HeLa_SAHA_4h_R1 2 YESGPDGGEEDGTGSLKR 18 1 Q07866-6;G3V5R9;G3V3H3 Q07866-6 KLC1 Kinesin light chain 1 1 0 YESGPDGGEEDGT(0.066)GS(0.934)LKR;YESGPDGGEEDGT(0.089)GS(0.911)LKR ; 118.23 0.00031859 15822600 2965.1 3693 2720.9 3307 3230.5 4003.8 3978.3 3516.4 3920.4 3100.6 TRUE FALSE FALSE 3276.982822 3812.655623 3091.690082 3371.011767 2982.979788 3662.653715 3530.651214 3426.45558 3893.117617 3234.28204 1.013202554 1.178825958 0.95591233 1.04227514 0.922300452 1.132447223 1.091633683 1.059417681 1.203703811 1 11.65922978 -1 0.1586959 0.992298469 1.337446895 0 0.095848021 110.3225286 1.110377451 0.128550564 8.92474838 0.1 1 0.345148426 YESLTDPSK ddPTM_HeLa_SAHA_4h_R1 3 YESLTDPSK 9 0 P07900;P07900-2;G3V2J8;Q58FF6;P08238;Q58FF7;Q58FF8 P07900;P08238;Q58FF8 HSP90AA1;HSP90AB4P;HSP90AB1;HSP90AB3P;HSP90AB2P Heat shock protein HSP 90-alpha;Putative heat shock protein HSP 90-beta 4;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3;Putative heat shock protein HSP 90-beta 2 0 0 ;; ;; 168.25 0.0002512 63819500 18846.3 12388.2 11955.1 15548.6 13458.4 18753.2 16530.9 14572.6 19609.3 15259.9 FALSE FALSE TRUE 20828.6403 12789.58581 13584.27877 15849.56564 12427.2203 17155.32186 14670.79963 14199.85399 19472.83728 15917.82897 1.308510121 0.803475514 0.853400222 0.995711517 0.780710757 1.077742567 0.921658327 0.892072281 1.223334999 1 13.95835596 -7.252715627 24.98761248 1.145685336 0.907828344 0.560770397 0.109913724 470.5032222 1347672.061 0.022664578 0.027532076 5.59E-08 7.252715627 -0.237856992 YESLTDPSK(ac)LDSGK ddPTM_HeLa_SAHA_4h_R1 3 YESLTDPSKLDSGK 14 1 P07900;P07900-2;G3V2J8;P08238;Q58FF7;Q58FF8 P07900;P08238;Q58FF8 HSP90AA1;HSP90AB1;HSP90AB3P;HSP90AB2P Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3;Putative heat shock protein HSP 90-beta 2 0 1 ;; YESLTDPSK(1)LDSGK;YESLTDPSK(1)LDSGK;YESLTDPSK(1)LDSGK 279.62 1.24E-99 9667500 3173.81 10103.37 4260.75 4245.7 9346.98 8749.08 9983.75 7193.67 7289.14 2765.61 FALSE TRUE FALSE 3507.645898 10430.72582 4841.382821 4327.881663 8630.816412 8003.609163 8860.352174 7009.666338 7238.414281 2884.848982 1.215885448 3.61569215 1.678210143 1.500210822 2.991774081 2.774359841 3.071340036 2.429820896 2.509113762 1 11.49428008 -7.39340878 8.123813751 1.095099408 2.545076717 0.205664431 0.744461535 0.153962521 9.482179397 0.101996541 0.116376012 4.04E-08 7.39340878 1.449977309 YESLTDPSKLDSGK ddPTM_HeLa_SAHA_4h_R1 2 YESLTDPSKLDSGK 14 1 P07900;P07900-2;G3V2J8;P08238;Q58FF7;Q58FF8 P07900;P08238;Q58FF8 HSP90AA1;HSP90AB1;HSP90AB3P;HSP90AB2P Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta-3;Putative heat shock protein HSP 90-beta 2 0 0 ; ; 117.48 0.00099347 19651100 13431.9 13024.7 11730 13045.2 14030.4 15786.2 14158.3 14330.7 13167.9 12965.6 FALSE FALSE TRUE 14844.72887 13446.70883 13328.50331 13297.70871 12955.39378 14441.12695 12565.17082 13964.14144 13076.26351 13524.61047 1.097608608 0.994240008 0.985499978 0.983223047 0.957912526 1.067766571 0.929059721 1.032498605 0.966849548 1 13.72329942 -7.083428984 14.54317552 1.046091524 0.991065973 0 0.048676272 2.327508 403.9491392 0.007864358 0.009632247 8.25E-08 7.083428984 -0.055025551 YESQEPLAGQES(ph)PLPLATR ddPTM_HeLa_SAHA_4h_R1 5 YESQEPLAGQESPLPLATR 19 0 Q9C0C2;Q9C0C2-2 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 YESQEPLAGQES(1)PLPLATR;YESQEPLAGQES(1)PLPLATR;YESQEPLAGQES(1)PLPLATR;YESQEPLAGQES(0.995)PLPLAT(0.005)R;YES(0.007)QEPLAGQES(0.985)PLPLAT(0.008)R ;;;; 272.51 4.21E-64 202216000 11211.53 15018.61 12215.07 13282.02 14800.78 17606.1 15550.06 13182.44 17773.12 15208.23 TRUE FALSE FALSE 12390.81017 15505.22282 13879.67613 13539.1127 13666.74743 16105.96123 13800.32632 12845.25227 17649.43541 15863.93122 0.781068071 0.977388429 0.874920342 0.853452559 0.861498152 1.015256622 0.869918441 0.809714319 1.112551181 1 13.95346271 -9.643560986 1.482386073 0.999819753 0.870178907 0.41007925 0.076615561 0.401033625 1.587763498 0.050743522 0.011565447 2.27E-10 9.643560986 -0.129640846 YESQLS(ph)TNEEKVDTDDRTEGYLR ddPTM_HeLa_SAHA_4h_R1 1 YESQLSTNEEKVDTDDRTEGYLR 23 2 K7EQ91;Q13433-2;Q13433 K7EQ91 SLC39A6 Zinc transporter ZIP6 1 0 Y(0.002)ES(0.024)QLS(0.431)T(0.431)NEEKVDT(0.107)DDRT(0.004)EGY(0.001)LR 48.968 0.02041 6938400 122.3 718.08 383.94 248.07 313.65 537.13 554.97 291.27 248.77 389.26 TRUE FALSE FALSE 135.1640751 741.3462631 436.2613437 252.8717536 289.6182048 491.3635022 492.523315 283.8197352 247.0387893 406.0429036 0.332881264 1.82578308 1.074421791 0.622771021 0.713269958 1.210127053 1.212983433 0.698989522 0.608405632 1 8.665488364 YESQQNGT(ph)PLK ddPTM_HeLa_SAHA_4h_R1 2 YESQQNGTPLK 11 0 Q5JSZ5;A0A494C0D3;H0Y412;A0A494C065 Q5JSZ5 PRRC2B Protein PRRC2B 1 0 YESQQNGT(1)PLK;YES(0.001)QQNGT(0.999)PLK ; 177.36 8.10E-05 10836300 2529.7 2379.7 1796.95 2771.26 2694.6 2836.5 2719.4 2768.16 3395.5 2867.3 TRUE FALSE FALSE 2795.785453 2456.803841 2041.828988 2824.901745 2488.14033 2594.814242 2413.405955 2697.354475 3371.870439 2990.923335 0.934756642 0.821419865 0.682675134 0.944491526 0.83189706 0.86756294 0.806910002 0.901846745 1.127367726 1 11.54637522 -7.459816637 2.735065504 0.974149638 0.835155332 0.49631959 0.081535929 0.167917074 2.417716671 0.011928393 0.013201362 3.47E-08 7.459816637 -0.138994307 YESSS(ph)YTDQFSR ddPTM_HeLa_SAHA_4h_R1 1 YESSSYTDQFSR 12 0 G3V1L9;Q07157;A0A087X0K9;G5E9E7;Q07157-2 G3V1L9 TJP1 Tight junction protein ZO-1 1 0 YES(0.032)S(0.277)S(0.686)YT(0.005)DQFSR 109.6 0.0011564 0 840.94 898.3 861.08 971.57 1380.3 1268.7 1171.1 1433.9 1193.5 1280 TRUE FALSE FALSE 929.3939276 927.4055094 978.4234981 990.3761423 1274.541712 1160.599622 1039.324746 1397.222914 1185.194336 1335.187064 0.69607769 0.694588447 0.732798815 0.741750852 0.954579135 0.869241212 0.778411336 1.046462291 0.887661638 1 10.38282617 -4.252479946 23.91523149 0.830607771 1.0464625 0.30196938 0.102760173 867.1659271 2314613.376 0.018710414 0.292694836 5.59E-05 4.252479946 0.215854729 YEYDPDIS(ph)PPR ddPTM_HeLa_SAHA_4h_R1 3 YEYDPDISPPR 11 0 Q9BRD0;H7C462 Q9BRD0 BUD13 BUD13 homolog 1 0 YEYDPDIS(1)PPR;YEYDPDIS(1)PPR;YEYDPDIS(1)PPR ;; 101.56 0.0071466 31834900 1446.67 1593.74 1295.92 1368.14 1714.19 2376.98 1572.15 1622.07 1985.52 1727.99 TRUE FALSE FALSE 1598.837388 1645.378222 1472.521229 1394.622328 1582.849133 2174.447931 1395.247544 1580.579798 1971.702605 1802.492105 0.887014919 0.912835189 0.816936299 0.773718966 0.878144835 1.206356424 0.774065828 0.876885837 1.093875861 1 10.81577723 -9.106633499 0.833586213 1.001225363 0.891301192 0.188856494 0.119706754 1.193897436 1.478164633 0.081572 0.022982716 7.82E-10 9.106633499 -0.109924171 YFDDEFTAQSITIT(ph)PPDR ddPTM_HeLa_SAHA_4h_R1 2 YFDDEFTAQSITITPPDR 18 0 P31751;P31751-2;M0R0P9;M0R283 P31751 AKT2 RAC-beta serine/threonine-protein kinase 1 0 YFDDEFTAQS(0.001)IT(0.036)IT(0.963)PPDR;YFDDEFTAQS(0.008)IT(0.001)IT(0.991)PPDR ; 143.83 5.89E-05 3446800 593.48 1024.05 813.78 982 1108.16 837.02 1034.07 697.66 1065.76 967.26 TRUE FALSE FALSE 655.9049494 1057.229892 924.6777004 1001.00803 1023.25302 765.7011871 917.7137221 679.8148674 1058.343289 1008.963312 0.650078096 1.047837795 0.916463155 0.99211539 1.014162763 0.758898939 0.909561042 0.673775606 1.048941301 1 9.978658001 -4.25440591 23.32826874 0.872466685 0.673775361 0.149109544 0.13350006 539.0423962 1787744.975 0.021318101 0.273987198 5.57E-05 4.25440591 -0.198691323 YFDEHYEYR ddPTM_HeLa_SAHA_4h_R1 2 YFDEHYEYR 9 0 P33552 P33552 CKS2 Cyclin-dependent kinases regulatory subunit 2 0 0 ; ; 134.23 0.0017638 14888300 8614.3 9005.6 7778.5 10341.2 11272.9 9280.7 11516.2 6994.4 13793.6 8577.3 FALSE FALSE TRUE 9520.391598 9297.387349 8838.513471 10541.36888 10409.17284 8489.932148 10220.36687 6815.493376 13697.60921 8947.109379 1.064074574 1.039149848 0.987862459 1.178187103 1.163411823 0.948902242 1.142309369 0.761753667 1.530953589 1 13.12720594 -4.249352042 24.77821423 1.047505405 0.761753468 0.194904095 0.170030272 942.2786514 1931567.845 0.010136462 0.227093339 5.63E-05 4.249352042 -0.285751937 YFDNKDDDS(ph)DTETSNDLPK ddPTM_HeLa_SAHA_4h_R1 2 YFDNKDDDSDTETSNDLPK 19 1 C9J3R1;C9IZP0;J3KR59;J3KR68;Q9UID6 C9J3R1 ZNF639 Zinc finger protein 639 1 0 YFDNKDDDS(0.683)DT(0.21)ET(0.054)S(0.054)NDLPK;YFDNKDDDS(0.664)DT(0.169)ET(0.118)S(0.05)NDLPK ; 94.276 0.0010699 46385000 4927 4318.3 4302.4 3784.3 4584.5 3626.2 4293.8 4454.8 4718.8 4410.8 TRUE FALSE FALSE 5445.244466 4458.215753 4888.708666 3857.550599 4233.2366 3317.22736 3810.650323 4340.852666 4685.961487 4600.971174 1.183498931 0.968972764 1.062538425 0.838420945 0.920074576 0.720984165 0.828227385 0.943464434 1.018472255 1 12.1677227 -6.325104253 1.686508177 1.08235254 0.837368366 0.565417254 0.082172946 0.190225466 1.058647927 0.015090721 0.02647092 4.73E-07 6.325104253 -0.244984174 YFDPANGK ddPTM_HeLa_SAHA_4h_R1 1 YFDPANGK 8 0 P13639 P13639 EEF2 Elongation factor 2 0 0 96.253 0.023369 1873400 2311.4 2631.9 2124.8 2245.4 2675.2 3070.7 2927.9 2636.7 2707.3 2409.2 FALSE FALSE TRUE 2554.523657 2717.175287 2414.356679 2288.862964 2470.226754 2809.059085 2598.444986 2569.257032 2688.459679 2513.072402 1.016494254 1.081216476 0.960719109 0.910782738 0.98295089 1.117778812 1.033971398 1.022356948 1.069789982 1 11.29523652 -5.300312915 24.98389396 1.001088893 1.055629381 0.189155137 0.051895442 614.7811096 395117.0075 0.007002944 0.01565931 5.01E-06 5.300312915 0.054540488 YFDPANGK(ac)FSK ddPTM_HeLa_SAHA_4h_R1 2 YFDPANGKFSK 11 1 P13639 P13639 EEF2 Elongation factor 2 0 1 ; YFDPANGK(1)FSK;YFDPANGK(1)FSK 138.76 0.00017856 3616400 2476.21 2828.2 2343.33 2838.5 3054.8 2992.2 2924.3 2940.3 2776.2 2557.3 FALSE TRUE FALSE 2736.669129 2919.835536 2662.666809 2893.443272 2820.741884 2737.247726 2595.250068 2865.091384 2756.880198 2667.557718 1.025908122 1.094572581 0.998166522 1.084678788 1.057424874 1.026125024 0.972893688 1.074050381 1.033484741 1 11.38130377 -8.135722608 1.277132609 1.005697574 1.040989844 0.052446504 0.037216568 0.529497691 1.777704882 0.008977424 0.007071631 7.32E-09 8.135722608 0.035292269 YFDRVDENNPEYLR ddPTM_HeLa_SAHA_4h_R1 1 YFDRVDENNPEYLR 14 1 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;A0A0A0MSR2;D6RJE2;D6RAH3;D6RF25 E7EV99 ADD1 Alpha-adducin 0 0 133.98 0.00057878 4426100 696.99 591.93 759.17 711.75 718.77 788.7 919.4 736.2 618.36 753.89 FALSE FALSE TRUE 770.3026061 611.1089204 862.625734 725.5269505 663.6979979 721.4983229 815.9466923 717.36907 614.0567824 786.3938873 0.979537886 0.777102836 1.096938504 0.922599936 0.843976547 0.917477023 1.037580156 0.912226152 0.780851418 1 9.619108297 -7.497847874 24.68194294 0.990972658 0.932104164 0 0.107247042 385.029569 379667.4777 0.014070832 0.015158782 3.18E-08 7.497847874 -0.058868495 YFDS(ph)GDYNMAK ddPTM_HeLa_SAHA_4h_R1 7 YFDSGDYNMAK 11 0 O43768;O43768-3;A6NMQ3;Q5T5H1;O43768-2;O43768-9;O43768-4;O43768-5;O43768-7;H3BQ52;H3BMD8;O43768-6;H3BTD3;P56211-2;P56211 O43768;H3BTD3;P56211 ENSA;ARPP19 Alpha-endosulfine;cAMP-regulated phosphoprotein 19 1 0 YFDS(1)GDYNMAK;YFDS(1)GDYNMAK;YFDS(1)GDYNMAK;YFDS(1)GDYNMAK;Y(0.007)FDS(0.985)GDY(0.008)NMAK;Y(0.279)FDS(0.72)GDY(0.001)NMAK;YFDS(0.889)GDY(0.111)NMAK ;;;;;; 198.52 4.45E-10 2015644400 25447.32 18982.38 22009.82 23671.5 20184.1 22687.24 18898.12 19562.94 19087.78 18433.5 TRUE FALSE FALSE 28123.98587 19597.42157 25009.20365 24129.69611 18637.59862 20754.15952 16771.6538 19062.54832 18954.94658 19228.2584 1.462638232 1.019198992 1.300648407 1.254908043 0.969281681 1.079357219 0.87223988 0.991381951 0.98578593 1 14.23094048 -5.756903085 24.53421836 1.216075045 0.977741318 0.24976951 0.15154199 92.40241327 499743.4514 0.026687504 0.051955128 1.75E-06 5.756903085 -0.238333727 YFDSGDY(ph)NMAK ddPTM_HeLa_SAHA_4h_R1 2 YFDSGDYNMAK 11 0 O43768;O43768-3;A6NMQ3;Q5T5H1;O43768-2;O43768-9;O43768-4;O43768-5;O43768-7;H3BQ52;H3BMD8;O43768-6;H3BTD3;P56211-2;P56211 O43768;H3BTD3;P56211 ENSA;ARPP19 Alpha-endosulfine;cAMP-regulated phosphoprotein 19 1 0 YFDS(0.001)GDY(0.999)NMAK;YFDS(0.034)GDY(0.966)NMAK ; 112.41 0.0065398 320712000 11679.3 8975.3 10522.4 10989 9438.7 10318.7 9003.1 8995 9129 9149.7 TRUE FALSE FALSE 12907.78236 9266.105609 11956.33787 11201.70799 8715.508845 9439.488709 7990.047493 8764.920925 9065.470546 9544.188345 1.352423265 0.970863658 1.252734904 1.173667952 0.91317444 0.989030012 0.837163644 0.91835163 0.949841958 1 13.2204068 -5.759882848 24.72098375 1.161646194 0.914239439 0.344048491 0.127975947 27.64209313 438997.3503 0.021040162 0.040354311 1.74E-06 5.759882848 -0.247406755 YFEADPPGQVAAS(ph)PDPTT ddPTM_HeLa_SAHA_4h_R1 3 YFEADPPGQVAASPDPTT 18 0 H0Y8X4;O43598 H0Y8X4 DNPH1 2-deoxynucleoside 5-phosphate N-hydrolase 1 1 0 YFEADPPGQVAAS(0.981)PDPT(0.01)T(0.01);YFEADPPGQVAAS(0.999)PDPTT;YFEADPPGQVAAS(0.975)PDPT(0.012)T(0.012) ;; 137.32 0.00012062 28060500 9119.5 10479.36 8975.66 11621.4 12195.5 14746.3 12556 11548.7 13386 11707.8 TRUE FALSE FALSE 10078.73085 10818.89814 10198.8162 11846.349 11261.08342 13489.83228 11143.16583 11253.30098 13292.84574 12212.58055 0.825274462 0.885881415 0.835107384 0.970011944 0.922088773 1.104584917 0.912433354 0.921451525 1.088455112 1 13.57608046 -6.121569039 19.10786905 0.906710476 0.968409242 0.021555849 0.089419261 5.643361181 862.1530549 0.012810563 0.021244036 7.56E-07 6.121569039 0.061698766 YFGGTEDR ddPTM_HeLa_SAHA_4h_R1 2 YFGGTEDR 8 0 Q16658 Q16658 FSCN1 Fascin 0 0 ; ; 145.04 0.0026597 104249000 5085.9 4492.1 4237.1 4739.1 5438.5 5103.4 5152.2 4329.9 5004.9 4287.9 FALSE FALSE TRUE 5620.858297 4637.646987 4814.509922 4830.832133 5021.803305 4668.561609 4572.460896 4219.147428 4970.070493 4472.772353 1.256683295 1.036861843 1.076403971 1.080053209 1.122749585 1.043773579 1.022287864 0.943295812 1.111183423 1 12.12695362 -4.107221779 0.755623062 1.113296152 0.807048176 0.3457908 0.064950361 3.649256113 1.2651093 0.01601072 0.994759049 7.81E-05 4.107221779 -0.306247976 YFGTDAVPDGS(ph)DEEEVAYTG ddPTM_HeLa_SAHA_4h_R1 1 YFGTDAVPDGSDEEEVAYTG 20 0 Q9NWZ5;Q9NWZ5-4 Q9NWZ5 UCKL1 Uridine-cytidine kinase-like 1 1 0 YFGTDAVPDGS(0.999)DEEEVAYTG 88.311 0.0015765 4395300 1250.8 1264.3 1036.8 1242.1 1129.1 1561 1283 1208.5 1284.1 1112.5 TRUE FALSE FALSE 1382.364883 1305.26415 1178.089705 1266.142642 1042.588602 1427.994018 1138.633463 1177.58832 1275.163844 1160.465319 1.191216023 1.124776525 1.015187343 1.09106461 0.898422886 1.230535712 0.981186981 1.014755288 1.09883839 1 10.18048769 -6.758964345 24.99119274 1.09540545 1.040666758 0.106691551 0.09101552 157.9982674 1595341.868 0.016234965 0.0223451 1.74E-07 6.758964345 -0.054738692 YFNAWLEAPPEK ddPTM_HeLa_SAHA_4h_R1 1 YFNAWLEAPPEK 12 0 Q9NZJ5 Q9NZJ5 EIF2AK3 Eukaryotic translation initiation factor 2-alpha kinase 3 0 0 78.342 0.018917 2550400 0 0 58.731 172.86 59.423 52.383 0 0 0 0 FALSE FALSE TRUE 0 0 66.73455482 176.2059553 54.87002258 47.9196737 0 0 0 0 0 YFPSSCLDLNSPTS(ph)PTPTR ddPTM_HeLa_SAHA_4h_R1 1 YFPSSCLDLNSPTSPTPTR 19 0 A0A096LNR9;A0A1B0GUM4;A0A669KBC2;O76039;O76039-1 A0A096LNR9 CDKL5 Cyclin-dependent kinase-like 5 1 0 YFPSS(0.001)CLDLNS(0.087)PT(0.033)S(0.652)PT(0.194)PT(0.033)R 111.58 8.19E-05 0 547.73 544.73 498.09 477.73 630.72 623.41 602.52 459.9 508.76 429 TRUE FALSE FALSE 605.3427545 562.3796094 565.9671113 486.977155 582.3943699 570.2919608 534.7228639 448.1364239 505.2194977 447.4962895 1.352732455 1.256724631 1.264741462 1.088226129 1.301450724 1.27440601 1.194921336 1.00143048 1.128991479 1 8.80573191 -9.531505926 1.305985717 1.000655804 1.235479793 0.20252381 0.106301181 0.348233376 1.068318443 0.071708639 0.017334208 2.94E-10 9.531505926 0.234823989 YFQINQDEEEEEDED ddPTM_HeLa_SAHA_4h_R1 12 YFQINQDEEEEEDED 15 0 K7ERI7;P35268 K7ERI7 RPL22 60S ribosomal protein L22 0 0 ;;;;;;;;;;; ;;;;;;;;;;; 196.88 4.13E-09 403761800 22942.08 24060.13 20531.86 24319.74 26463.3 28337.65 28075.5 28309.99 27154.42 22651.66 FALSE FALSE TRUE 25355.23324 24839.694 23329.83496 24790.48373 24435.68767 25923.1228 24916.37085 27585.86145 26965.45018 23628.28392 1.073088224 1.051269491 0.987368995 1.049186806 1.03417107 1.097122537 1.054514621 1.167493227 1.141236083 1 14.52822723 -1.000000001 0.67632988 1.033559306 14.45950486 0.322252679 0.044456964 133.3633995 0.723787355 0.005697551 2700.489499 0.1 1.000000001 13.42594556 YGDFRADDADEFGYSR ddPTM_HeLa_SAHA_4h_R1 1 YGDFRADDADEFGYSR 16 1 Q7KZF4 Q7KZF4 SND1 Staphylococcal nuclease domain-containing protein 1 0 0 141.34 0.00016576 8055900 4099.7 1336.5 3402.5 2299.7 2253.3 1595.7 3159 2950.4 719.02 2232.2 FALSE FALSE TRUE 4530.925256 1379.803477 3866.174981 2344.214019 2080.652641 1459.737383 2803.541006 2874.93304 714.0162813 2328.441066 1.945905062 0.592586816 1.6604135 1.00677404 0.893581835 0.626916182 1.204042072 1.234702944 0.306649926 1 11.18514865 -6.157014255 7.857637016 1.394734332 0.976337764 0 0.510436589 0.412191941 27.88738505 0.06803208 0.11309693 6.97E-07 6.157014255 -0.418396568 YGEAGEGPGWGGAHPR ddPTM_HeLa_SAHA_4h_R1 2 YGEAGEGPGWGGAHPR 16 0 A2ABF4;A0A0G2JJT9;A0A140T954;P26640 A2ABF4 VARS Valine--tRNA ligase 0 0 ; ; 136.14 0.00013129 7123600 3263.2 3410.4 2633.7 3340.3 3821.3 3092.7 3826.8 3401.8 3837 3109.3 FALSE FALSE TRUE 3606.438348 3520.899198 2992.60692 3404.956337 3528.51282 2829.184561 3396.198392 3314.786882 3810.298005 3243.35714 1.111946108 1.085572463 0.922688064 1.049824669 1.087919914 0.872301273 1.047124398 1.022023397 1.174800628 1 11.66327218 YGEHEAS(ph)PDNGQNEFSDIIK ddPTM_HeLa_SAHA_4h_R1 1 YGEHEASPDNGQNEFSDIIK 20 0 P46939;Q5SYY2 P46939 UTRN Utrophin 1 0 Y(0.019)GEHEAS(0.981)PDNGQNEFS(0.001)DIIK 58.123 0.016744 5063800 1389.5 1308.3 1088.5 1199.5 1399.6 1220.9 1362.5 1035.4 1355.5 1015.2 TRUE FALSE FALSE 1535.653985 1350.689778 1236.835111 1222.718057 1292.36295 1116.872451 1209.187914 1008.915967 1346.066965 1058.97024 1.450138943 1.275474727 1.167960217 1.15462929 1.22039591 1.054677845 1.141852592 0.952733069 1.271109342 1 10.04844633 -4.260828044 0.759601582 1.217089876 0.835577817 0.341929921 0.112636358 3.738396106 1.518915491 0.028273503 1.210663579 5.48E-05 4.260828044 -0.381512059 YGEPGEVFINK ddPTM_HeLa_SAHA_4h_R1 1 YGEPGEVFINK 11 0 P23246;P23246-2 P23246 SFPQ "Splicing factor, proline- and glutamine-rich" 0 0 104.05 0.015272 1847500 382.8 473.54 501.7 402.22 460.46 463.83 380.27 428.56 521.22 389.99 FALSE FALSE TRUE 423.0646603 488.8830067 570.0690633 410.0055497 425.1796543 424.3090746 337.4810188 417.5980557 517.5927876 406.8043775 1.039970767 1.201764371 1.401334634 1.00786907 1.045169811 1.043029766 0.829590431 1.026532847 1.272338294 1 8.668191393 -4.911657112 8.666586291 1.062728069 0.928502065 0.130827158 0.143212191 0.403531942 35.44804219 0.01913217 0.057712047 1.23E-05 4.911657112 -0.134226005 YGEYFPGTGDLR ddPTM_HeLa_SAHA_4h_R1 2 YGEYFPGTGDLR 12 0 Q92769;Q92769-3;Q5TEE2;Q13547 Q92769;Q13547 HDAC2;HDAC1 Histone deacetylase 2;Histone deacetylase 1 0 0 ; ; 169.76 0.00047493 19153600 3269.1 3024.4 2893.2 3168 3168.6 3790.8 3724.9 3288.4 3431.8 3182.6 FALSE FALSE TRUE 3612.958937 3122.392544 3287.470229 3229.321221 2925.822553 3467.802514 3305.764449 3204.28749 3407.917824 3319.817461 1.08830048 0.940531394 0.990256322 0.972740598 0.88132031 1.044576262 0.995766932 0.965199902 1.026537713 1 11.6968882 -7.253515963 24.98624285 1.041697449 0.971378292 0.332224256 0.044217043 541.9910835 1709150.025 0.008287633 0.01004859 5.58E-08 7.253515963 -0.070319158 YGGDEIPFS(ph)PYR ddPTM_HeLa_SAHA_4h_R1 3 YGGDEIPFSPYR 12 0 P21333-2;P21333;Q60FE5;A0A087WWY3 P21333-2 FLNA Filamin-A 1 0 YGGDEIPFS(1)PYR;YGGDEIPFS(1)PYR;YGGDEIPFS(1)PYR ;; 195.72 1.71E-07 42981800 5073.44 6149.5 4951.21 5092.8 6828.2 6707.9 6365.6 6044.4 6856.1 5485.69 TRUE FALSE FALSE 5607.087697 6348.747835 5625.935114 5191.378508 6305.024791 6136.349182 5649.325935 5889.793 6808.387842 5722.204942 0.979882362 1.109493263 0.983176096 0.907233935 1.10185232 1.07237494 0.987263824 1.029287322 1.189818944 1 12.48235545 -5.737382614 24.99998342 0.994380418 1.045140952 0 0.081833979 325.4149094 338171.83 0.007768326 0.015530357 1.83E-06 5.737382614 0.050760534 YGGSVGSQPPPVAPEPGPVPS(ph)SPSQEPPTKR ddPTM_HeLa_SAHA_4h_R1 3 YGGSVGSQPPPVAPEPGPVPSSPSQEPPTKR 31 1 A0A087WTZ5;E9PJ81;E9PRQ7;Q04323;Q04323-2;E9PS08 A0A087WTZ5 UBXN1 UBX domain-containing protein 1 1 0 YGGSVGSQPPPVAPEPGPVPS(0.48)S(0.48)PS(0.038)QEPPT(0.003)KR;YGGSVGSQPPPVAPEPGPVPS(0.472)S(0.472)PS(0.05)QEPPT(0.005)KR;YGGSVGSQPPPVAPEPGPVPS(0.493)S(0.493)PS(0.013)QEPPTKR ;; 164.77 4.31E-16 78991000 4987.8 5242.6 5190.7 4880.4 5632.7 6421.9 5986.1 5900.8 5347.6 5530.2 TRUE FALSE FALSE 5512.439689 5412.46368 5898.061564 4974.867199 5201.123743 5874.717991 5312.528273 5749.86608 5310.385616 5768.633986 0.955588394 0.938257427 1.022436434 0.862399523 0.901621381 1.018389797 0.920933498 0.99674656 0.920562065 1 12.49401401 -8.914967054 0.596764964 1.00340192 0.949047254 0 0.053973582 1.522617407 0.941509426 0.04282026 0.011311714 1.22E-09 8.914967054 -0.054354666 YGGSVGSQPPPVAPEPGPVPSS(ph)PSQEPPTKR ddPTM_HeLa_SAHA_4h_R1 1 YGGSVGSQPPPVAPEPGPVPSSPSQEPPTKR 31 1 A0A087WTZ5;E9PJ81;E9PRQ7;Q04323;Q04323-2;E9PS08 A0A087WTZ5 UBXN1 UBX domain-containing protein 1 1 0 YGGSVGSQPPPVAPEPGPVPS(0.172)S(0.815)PS(0.013)QEPPTKR 168.92 1.41E-16 13517000 1478.2 1188.5 1426.1 1349.8 1743.8 1697.6 1763.1 1763.4 1580.2 1522.6 TRUE FALSE FALSE 1633.683858 1227.00818 1620.441481 1375.927331 1610.190421 1552.95493 1564.711348 1718.294781 1569.20326 1588.246737 1.028608351 0.77255514 1.020270619 0.866318374 1.013816294 0.977779392 0.985181528 1.081881512 0.988009748 1 10.63321934 -3.137711981 22.32771292 0.989129379 0.978582693 0 0.086018337 0 0 0.010954943 0 0.000728263 3.137711981 -0.010546686 YGISLDENVK ddPTM_HeLa_SAHA_4h_R1 1 YGISLDENVK 10 0 A0A1B0GTF2;A0A0U1RRH1;A0A0X1KG73;A0A087X080;Q15413-3;Q15413-2;Q15413 A0A1B0GTF2 RYR3 Ryanodine receptor 3 0 0 136.27 0.0078385 100520000 1043.5 1361.2 1333.3 1298.8 1349.8 1307 1319 1169.8 1048.4 1195.2 FALSE FALSE TRUE 1153.260118 1405.303773 1514.99518 1323.940152 1246.378616 1195.636247 1170.582649 1139.87821 1041.104099 1246.730921 0.925027284 1.127190919 1.215174144 1.061929346 0.999717417 0.95901708 0.938921646 0.914293686 0.8350672 1 10.28393441 -5.014514195 2.363892912 1.005065799 0.92513033 0.124642643 0.098942755 0.60499054 6.600199725 0.014687533 0.053440871 9.67E-06 5.014514195 -0.079935469 YGLQDS(ph)DEEEEEHPSK ddPTM_HeLa_SAHA_4h_R1 4 YGLQDSDEEEEEHPSK 16 0 P52948-6;P52948-2;P52948-5;P52948;A0A3B3ITD8;P52948-4;P52948-3 P52948-6 NUP98 Nuclear pore complex protein Nup98-Nup96;Nuclear pore complex protein Nup98;Nuclear pore complex protein Nup96 1 0 YGLQDS(1)DEEEEEHPSK;YGLQDS(1)DEEEEEHPSK;YGLQDS(1)DEEEEEHPSK;YGLQDS(1)DEEEEEHPSK ;;; 127.37 0.0002415 38907000 6171.56 9773.49 5033.9 8204.97 11778.55 19271.11 9892.23 11395.22 10220.87 9998.85 TRUE FALSE FALSE 6820.712997 10090.15749 5719.893677 8363.789059 10876.08004 17629.10301 8779.130245 11103.74677 10149.74213 10429.94936 0.653954565 0.967421523 0.548410494 0.801901215 1.042774003 1.690238601 0.84172319 1.064602175 0.973134364 1 13.34844453 -5.61158547 4.843972607 0.818493773 1.192857798 0.333927335 0.238626166 0.183725183 7.485073358 0.035445799 0.072514605 2.45E-06 5.61158547 0.374364024 YGMGTS(ph)VER ddPTM_HeLa_SAHA_4h_R1 3 YGMGTSVER 9 0 P08559-3;P08559;P08559-2;P08559-4 P08559-3 PDHA1 "Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial" 1 0 YGMGT(0.028)S(0.972)VER;YGMGT(0.027)S(0.973)VER;YGMGT(0.028)S(0.972)VER ;; 112.3 0.0055768 103021000 12913.7 22826.2 17803.8 6445.2 10917 13110 13278.8 7062.2 13294 22862.1 TRUE FALSE FALSE 14272.02222 23565.78386 20230.00915 6569.956166 10080.54182 11992.95425 11784.63448 6881.55915 13201.48597 23847.79702 0.598462919 0.988174457 0.848296769 0.275495307 0.422703272 0.502895686 0.494160298 0.288561629 0.553572557 1 14.54156838 -6.27091725 24.90563867 0.824316388 0.409511546 0.632220215 0.152069249 333.032745 875131.6376 0.025997131 0.040032881 5.36E-07 6.27091725 -0.414804842 YGPADVEDT(ph)TGSGATDSKDDDDIDLFGSDDEEESEEAKR ddPTM_HeLa_SAHA_4h_R1 3 YGPADVEDTTGSGATDSKDDDDIDLFGSDDEEESEEAKR 39 2 P24534;C9JZW3 P24534 EEF1B2 Elongation factor 1-beta 1 0 Y(0.001)GPADVEDT(0.226)T(0.226)GS(0.207)GAT(0.226)DS(0.053)KDDDDIDLFGS(0.063)DDEEESEEAKR;Y(0.001)GPADVEDT(0.32)T(0.32)GS(0.08)GAT(0.066)DS(0.189)KDDDDIDLFGS(0.024)DDEEESEEAKR;Y(0.003)GPADVEDT(0.364)T(0.364)GS(0.081)GAT(0.026)DS(0.087)KDDDDIDLFGS(0.075)DDEEES(0.001)EEAKR ;; 55.527 0.0032562 19994900 817.07 907.93 991.465 1053.74 1256.76 1200.46 1235.66 1117.47 1032.505 839.29 TRUE FALSE FALSE 903.0131715 937.3475277 1126.576687 1074.136661 1160.46732 1098.174054 1096.620285 1088.886735 1025.319714 875.4758993 1.031454061 1.070671995 1.286816334 1.226917454 1.325527432 1.254373827 1.252599056 1.243765518 1.171156984 1 9.773923653 -6.856565769 3.75071904 1.016136947 1.265541584 0.72751759 0.056161209 0.034418768 0.93460406 0.004606052 0.006190248 1.39E-07 6.856565769 0.249404637 YGPADVEDTT(ph)GSGATDSKDDDDIDLFGSDDEEESEEAKR ddPTM_HeLa_SAHA_4h_R1 1 YGPADVEDTTGSGATDSKDDDDIDLFGSDDEEESEEAKR 39 2 P24534;C9JZW3 P24534 EEF1B2 Elongation factor 1-beta 1 0 YGPADVEDT(0.071)T(0.333)GS(0.062)GAT(0.059)DS(0.235)KDDDDIDLFGS(0.235)DDEEES(0.005)EEAKR 52.465 0.0045407 8707100 589.09 548.96 432.06 660.08 799.42 784.91 622.11 702.77 666.08 592.33 TRUE FALSE FALSE 651.053189 566.7466642 490.9388867 672.8568029 738.1686123 718.0312522 552.1085455 684.794161 661.444695 617.8682451 1.053708771 0.917261356 0.794568892 1.088997223 1.194702298 1.162110625 0.893570029 1.108317455 1.070527091 1 9.271155419 YGPADVEDTTGSGATDS(ph)KDDDDIDLFGSDDEEESEEAKR ddPTM_HeLa_SAHA_4h_R1 2 YGPADVEDTTGSGATDSKDDDDIDLFGSDDEEESEEAKR 39 2 P24534;C9JZW3 P24534 EEF1B2 Elongation factor 1-beta 1 0 YGPADVEDT(0.053)T(0.053)GS(0.045)GAT(0.045)DS(0.648)KDDDDIDLFGS(0.154)DDEEES(0.001)EEAKR;YGPADVEDT(0.159)T(0.159)GS(0.131)GAT(0.131)DS(0.377)KDDDDIDLFGS(0.043)DDEEESEEAKR ; 61.372 0.00018788 348330000 1655.84 1826.26 1648.57 1554.58 1857.71 2101.51 1798.1 1856.21 1746.83 1637.23 TRUE FALSE FALSE 1830.008848 1885.432022 1873.228534 1584.671144 1715.372661 1922.449525 1595.773056 1808.730836 1734.673668 1707.818998 1.071547307 1.103999911 1.096854255 0.927891741 1.004422988 1.12567522 0.934392379 1.059088134 1.015724541 1 10.73793936 YGPADVEDTTGSGATDSKDDDDIDLFGS(ph)DDEEESEEAKR ddPTM_HeLa_SAHA_4h_R1 2 YGPADVEDTTGSGATDSKDDDDIDLFGSDDEEESEEAKR 39 2 P24534;C9JZW3 P24534 EEF1B2 Elongation factor 1-beta 1 0 YGPADVEDT(0.002)T(0.002)GS(0.004)GAT(0.01)DS(0.023)KDDDDIDLFGS(0.957)DDEEES(0.002)EEAKR;YGPADVEDT(0.283)T(0.283)GS(0.065)GAT(0.018)DS(0.051)KDDDDIDLFGS(0.298)DDEEESEEAKR ; 67.409 4.42E-06 191616000 1929.59 2181.4 1881.01 1927.86 1973.7 2319.89 2367.95 2377 2492.21 2037.77 TRUE FALSE FALSE 2132.553129 2252.078791 2137.344247 1965.176518 1822.475532 2122.222321 2101.502034 2316.199782 2474.866508 2125.628237 1.00325781 1.059488556 1.005511787 0.924515625 0.857382067 0.998397689 0.988649848 1.089654221 1.164298848 1 11.05367358 -6.468254594 24.78735791 1.007193034 0.967512743 0.096467139 0.076013814 539.1177249 244640.6664 0.009044366 0.013815466 3.40E-07 6.468254594 -0.039680291 YGQFSGLNPGGRPIT(ph)PPR ddPTM_HeLa_SAHA_4h_R1 2 YGQFSGLNPGGRPITPPR 18 1 P62136-3;P62136;P62136-2 P62136-3 PPP1CA Serine/threonine-protein phosphatase PP1-alpha catalytic subunit 1 0 YGQFSGLNPGGRPIT(1)PPR;YGQFSGLNPGGRPIT(1)PPR ; 77.13 0.0084627 23326000 3767.3 4370.4 3604.9 4874.2 5243.1 5963.9 4953.1 4420.7 5625.3 4387.7 TRUE FALSE FALSE 4163.561899 4512.003828 4096.156998 4968.547189 4841.374811 5455.742168 4395.764152 4307.624895 5586.153079 4576.87522 0.909695305 0.98582627 0.89496803 1.085576283 1.057790431 1.192023358 0.960429101 0.941171583 1.220516796 1 12.16014724 -6.252123026 24.94720313 0.954607378 1.051178621 0 0.10987177 662.4528861 1773906.51 0.011267622 0.01852223 5.60E-07 6.252123026 0.096571242 YGQNCHK(ac)GPPHSK ddPTM_HeLa_SAHA_4h_R1 2 YGQNCHKGPPHSK 13 1 O15355 O15355 PPM1G Protein phosphatase 1G 0 1 ; YGQNCHK(1)GPPHSK;YGQNCHK(1)GPPHSK 88.163 0.0058943 2177600 1175.03 1275.67 924.14 1175.43 1538.25 765.05 1479.35 1317.99 912.7 1018.05 FALSE TRUE FALSE 1298.625047 1317.002545 1050.076986 1198.182147 1420.389617 699.8634359 1312.889645 1284.277724 906.3484464 1061.943118 1.222876277 1.240181817 0.98882602 1.12829221 1.337538324 0.659040418 1.236308822 1.209365834 0.853481162 1 10.05249078 YGS(ph)FEEAEASYPILNR ddPTM_HeLa_SAHA_4h_R1 2 YGSFEEAEASYPILNR 16 0 O95425-3;O95425-2;O95425-4;O95425;A0A6I8PIX7 O95425-3 SVIL Supervillin 1 0 YGS(1)FEEAEASYPILNR;YGS(0.954)FEEAEAS(0.046)YPILNR ; 186.42 1.61E-11 10549300 818.05 891.35 782.2 672.55 1001.66 1150.5 1126.93 1168 1010.86 809.36 TRUE FALSE FALSE 904.0962523 920.2303248 888.7941425 685.5681778 924.9130272 1052.470927 1000.12487 1138.124251 1003.825343 844.2554705 1.070879946 1.089990361 1.05275497 0.812038775 1.095536907 1.246626127 1.1846235 1.348080399 1.189006619 1 9.721535812 -5.345887695 3.935469039 1.024621777 1.253730647 0.508862838 0.097472458 0.117321222 3.383129773 0.011908882 0.028321063 4.51E-06 5.345887695 0.229108869 YGS(ph)IVDDERLSAEEMDER ddPTM_HeLa_SAHA_4h_R1 1 YGSIVDDERLSAEEMDER 18 1 Q13576 Q13576 IQGAP2 Ras GTPase-activating-like protein IQGAP2 1 0 Y(0.038)GS(0.956)IVDDERLS(0.006)AEEMDER 81.357 0.0037086 4293800 406.11 583.56 520.83 407.9 497 664.56 713.28 766.21 360.39 569.65 TRUE FALSE FALSE 448.8265131 602.4677269 591.806 415.7954943 458.9199674 607.9357493 633.0198571 746.6114577 357.8820166 594.2103993 0.755332646 1.013896303 0.995953623 0.69974456 0.772318976 1.023098468 1.065312653 1.256476592 0.602281645 1 9.214830044 -4.609950258 1.707868223 0.881342613 1.261462188 0.46757797 0.139270995 0.352035339 1.579472512 0.018413299 0.175037489 2.45E-05 4.609950258 0.380119575 YGTSPCSSAVT(ph)R ddPTM_HeLa_SAHA_4h_R1 1 YGTSPCSSAVTR 12 0 A0A0J9YYK1;O14640 A0A0J9YYK1 DVL1 Segment polarity protein dishevelled homolog DVL-1 1 0 YGT(0.03)S(0.23)PCS(0.044)S(0.017)AVT(0.679)R 108.68 0.005926 3655400 883.63 723.59 655.38 657.06 946.06 935.41 913.97 819.75 773.31 718.5 TRUE FALSE FALSE 976.5742576 747.0347908 744.6917733 669.7783464 873.5730872 855.7078055 811.1276902 798.781982 767.9284727 749.4780513 1.303005813 0.996740051 0.993613852 0.893659721 1.165575277 1.141738313 1.082256764 1.065784356 1.024617694 1 9.549742419 YGVIILDEAHER ddPTM_HeLa_SAHA_4h_R1 4 YGVIILDEAHER 12 0 O43143 O43143 DHX15 Pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15 0 0 ;;; ;;; 155.99 4.36E-11 16392700 11462.3 13677.7 12082.3 14775.8 14865.3 16527.6 15450.5 12958.8 17366.3 14554.9 FALSE FALSE TRUE 12667.9573 14120.86645 13728.81292 15061.80698 13726.32393 15119.3555 13711.96908 12627.33266 17245.4465 15182.43297 0.834382561 0.930079289 0.904256449 0.992054897 0.90409251 0.995845365 0.903147019 0.831706795 1.135881617 1 13.89011538 -5.461775329 0.007690518 1.810675772 7.50E-07 0.109208139 0.081521546 14035.21035 27.09927502 3083.188293 3298.750361 3.45E-06 5.461775329 -1.810675022 YGVSGYPTLK ddPTM_HeLa_SAHA_4h_R1 1 YGVSGYPTLK 10 0 H7BZJ3;P30101 H7BZJ3;P30101 PDIA3 Protein disulfide-isomerase A3 0 0 140.83 0.00012138 1459900 947.94 914.24 781.03 650.5 960.6 1175.2 928.18 911.02 970.48 746.38 FALSE FALSE TRUE 1047.648679 943.8619759 887.464701 663.0913681 886.9990355 1075.066349 823.7387436 887.7174275 963.7263507 778.5600945 1.345623396 1.212317434 1.139879513 0.851689385 1.139281401 1.380839265 1.058028467 1.14020412 1.237831681 1 9.60466459 -9.724261067 1.649190999 1.000248059 1.186103696 0 0.158517521 0.563981076 2.776690446 0.111593822 0.024514561 1.89E-10 9.724261067 0.185855637 YGVYEDENYEVGS(ph)DDEEIPFK ddPTM_HeLa_SAHA_4h_R1 2 YGVYEDENYEVGSDDEEIPFK 21 0 O15541 O15541 RNF113A RING finger protein 113A 1 0 YGVYEDENY(0.001)EVGS(0.999)DDEEIPFK;YGVYEDENYEVGS(1)DDEEIPFK ; 111.62 9.50E-05 20935700 2872.7 3918.6 2976.7 3158.2 3459.8 3918.7 3779.1 3237.9 4078.7 3493.6 TRUE FALSE FALSE 3174.863766 4045.565211 3382.349174 3219.331528 3194.710871 3584.804714 3353.865722 3155.079206 4050.315995 3644.226193 0.871203816 1.110130106 0.928139197 0.883406067 0.876649994 0.983694349 0.920323148 0.865774801 1.111433753 1 11.83139679 -6.527901976 24.999204 0.953579236 0.909087878 0.149699162 0.082247779 299.2660381 1489354.51 0.011715119 0.016600358 2.97E-07 6.527901976 -0.044491358 YHDAS(ph)RWGLTLQTYVQLTMLDR ddPTM_HeLa_SAHA_4h_R1 1 YHDASRWGLTLQTYVQLTMLDR 22 1 J3QL12;J3KS73;O00142-5 J3QL12 TK2 1 0 Y(0.171)HDAS(0.826)RWGLT(0.002)LQTYVQLTMLDR 55.453 0.0089437 23862000 1217.7 1520.9 2026.2 2839.6 1261.6 619.33 1907.3 2878.6 1582.8 1584.9 TRUE FALSE FALSE 1345.783273 1570.178158 2302.319984 2894.564564 1164.936481 566.5595997 1692.685584 2804.96958 1571.785166 1653.232795 0.814031319 0.949762285 1.392616932 1.750851164 0.704641527 0.342698016 1.023864025 1.696657354 0.950734325 1 10.69107417 -6.97413135 24.73655531 0.910587454 1.120767577 0.066171721 0.401176934 513.649299 491168.8405 0.068239448 0.089682636 1.06E-07 6.97413135 0.210180124 YHEEFEK ddPTM_HeLa_SAHA_4h_R1 4 YHEEFEK 7 0 C9J9W2;Q14847;Q14847-2;Q14847-3 C9J9W2 LASP1 LIM and SH3 domain protein 1 0 0 ;;; ;;; 147.69 0.00018411 67118100 32718.6 34391.6 31644.2 35478.7 35354.7 8753.7 36839.6 32485.6 35127.5 30763.3 FALSE FALSE TRUE 36160.09247 35505.91041 35956.50678 36165.44154 32645.83052 8007.835513 32694.31125 31654.66539 34883.04487 32089.65641 1.126845735 1.106459662 1.120501457 1.127012426 1.017331881 0.249545692 1.018842671 0.98644451 1.087049497 1 14.96982072 -5.496302166 24.99693916 1.07432902 0.754184895 0.373268189 0.198250706 599.6596466 564017.0384 0.027120559 0.060464337 3.19E-06 5.496302166 -0.320144125 YHGHS(ph)MSDPGVSYR ddPTM_HeLa_SAHA_4h_R1 5 YHGHSMSDPGVSYR 14 0 P08559-3;P08559;P08559-2;P08559-4;Q5JPU3;P29803 P08559-3 PDHA1;PDHA2 "Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial;Pyruvate dehydrogenase E1 component subunit alpha, testis-specific form, mitochondrial" 1 0 YHGHS(0.735)MS(0.265)DPGVSYR;YHGHS(0.838)MS(0.162)DPGVSYR;Y(0.003)HGHS(0.961)MS(0.036)DPGVSYR;Y(0.01)HGHS(0.96)MS(0.031)DPGVSYR;Y(0.002)HGHS(0.929)MS(0.069)DPGVSYR ;;;; 115.58 0.0010303 321199000 9191 14960.6 8412.8 8197.6 15048.8 3132.53 14875.4 10519.7 12450.3 14056 TRUE FALSE FALSE 10157.75155 15445.33326 9559.252572 8356.276402 13895.7642 2865.620821 13201.58084 10250.62131 12363.65735 14662.02295 0.69279332 1.053424436 0.651973647 0.569926567 0.947738538 0.195445119 0.900392865 0.699127354 0.843243623 1 13.83979655 -13.52287872 0.179946928 2.265474401 0.633088312 0.128425639 0.224858354 62.80317799 0.720677818 27.87057219 0.286927408 3.00E-14 13.52287872 -1.632386089 YHGHSMS(ph)DPGVS(ph)YR ddPTM_HeLa_SAHA_4h_R1 1 YHGHSMSDPGVSYR 14 0 P08559-3;P08559;P08559-2;P08559-4;Q5JPU3;P29803 P08559-3 PDHA1;PDHA2 "Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial;Pyruvate dehydrogenase E1 component subunit alpha, testis-specific form, mitochondrial" 2 0 YHGHS(0.406)MS(0.594)DPGVS(0.995)Y(0.005)R 119.17 0.0013168 3199900 733.27 776.58 508.67 351.84 597.32 0 404.77 353.27 482.8 871.01 TRUE FALSE FALSE 810.398703 801.7417015 577.9888986 358.650372 551.5534706 0 359.2242143 344.2338649 479.4401555 908.5635037 0.891956038 0.882427809 0.636156852 0.394744419 0.607061002 0 0.395376012 0.378877055 0.527690308 1 9.827443544 -6.435844154 0.958629802 0.961648351 0.293942746 0.539978629 0.193784915 0.149711116 0.274025525 0.024308969 0.046820533 3.67E-07 6.435844154 -0.667705604 YHGHSMS(ph)DPGVSYR ddPTM_HeLa_SAHA_4h_R1 2 YHGHSMSDPGVSYR 14 0 P08559-3;P08559;P08559-2;P08559-4;Q5JPU3;P29803 P08559-3 PDHA1;PDHA2 "Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial;Pyruvate dehydrogenase E1 component subunit alpha, testis-specific form, mitochondrial" 1 0 Y(0.002)HGHS(0.003)MS(0.995)DPGVSYR;YHGHS(0.013)MS(0.985)DPGVS(0.001)YR ; 164.22 8.82E-06 32653000 2206.12 3938 2402.79 2338.5 4003.7 1244.08 3806.5 2723.18 3107 3314 TRUE FALSE FALSE 2438.169824 4065.593784 2730.229708 2383.765049 3696.937371 1138.077385 3378.182602 2653.524999 3085.378134 3456.882758 0.705308798 1.176086685 0.789795286 0.689570696 1.069442509 0.329220707 0.977233779 0.767606304 0.892531899 1 11.75525596 -6.54835725 24.99723007 0.885469034 0.767724047 0.112620344 0.21526845 518.5483131 508751.0956 0.033863787 0.047891448 2.83E-07 6.54835725 -0.117744987 YHSDFNR ddPTM_HeLa_SAHA_4h_R1 2 YHSDFNR 7 0 Q15424-2;Q15424;Q15424-4;Q15424-3;K7EII0 Q15424-2 SAFB Scaffold attachment factor B1 0 0 ; ; 114.72 0.0062787 3143600 706.76 844.29 1003.4 1206.54 1003.92 570.38 1109.48 628.16 591.57 907.81 FALSE FALSE TRUE 781.1002595 871.64555 1140.138127 1229.894326 926.9998665 521.7804151 984.6383904 612.0925768 587.4532162 946.9501318 0.824858916 0.920476719 1.204010737 1.298795243 0.978932085 0.551011503 1.039799623 0.646383116 0.620363414 1 9.887144642 -4.249657915 23.76468226 0.946329408 0.646382749 0.135805225 0.219377646 1302.897148 2628006.995 0.027928271 0.573165821 5.63E-05 4.249657915 -0.299946658 YHTINGHNAEVR ddPTM_HeLa_SAHA_4h_R1 5 YHTINGHNAEVR 12 0 P22626;P22626-2;A0A087WUI2 P22626 HNRNPA2B1 Heterogeneous nuclear ribonucleoproteins A2/B1 0 0 ;;;; ;;;; 173.04 2.40E-05 31179600 3970.28 4754.92 3093.3 4594.15 5963.63 1038.09 5983.83 4332.01 5162.25 4927.72 FALSE FALSE TRUE 4387.892267 4908.982528 3514.838815 4683.076417 5506.697958 949.6388919 5310.5137 4221.203457 5126.325482 5140.178125 0.853645955 0.955021871 0.683797084 0.911072788 1.071304889 0.184748246 1.033138069 0.82121735 0.997305027 1 12.32760264 -8.515175986 0.247217425 1.071796025 0.747225625 0.10601376 0.233998737 6.291876788 0.859916098 0.70812908 0.267871651 3.05E-09 8.515175986 -0.3245704 YHTVNGHNCEVR ddPTM_HeLa_SAHA_4h_R1 6 YHTVNGHNCEVR 12 0 F8W6I7;P09651-2;P09651;P09651-3;F8VTQ5;F8VZ49;A0A2R8Y4L2;H0YH80 F8W6I7 HNRNPA1 "Heterogeneous nuclear ribonucleoprotein A1;Heterogeneous nuclear ribonucleoprotein A1, N-terminally processed" 0 0 ;;;;; ;;;;; 147.58 0.00017884 49690580 2289.246 2244.27 2037.536 2730.1 3169.73 318.177 3608.93 2438.81 2870.959 2714.07 FALSE FALSE TRUE 2530.039398 2316.985821 2315.200795 2782.945033 2926.865972 291.0665296 3202.843698 2376.428772 2850.979763 2831.08684 0.89366365 0.818408601 0.817778092 0.982995291 1.033831224 0.10281088 1.131312418 0.839405114 1.007026603 1 11.46714029 -7.746726557 0.352426612 1.014531632 0.777489274 0.077558419 0.261003132 2.618530379 0.9426661 0.240389599 0.175134795 1.79E-08 7.746726557 -0.237042358 YHVLVNLGK ddPTM_HeLa_SAHA_4h_R1 2 YHVLVNLGK 9 0 O75643;A0A494C1A5;O75643-2 O75643 SNRNP200 U5 small nuclear ribonucleoprotein 200 kDa helicase 0 0 ; ; 95.909 0.0048957 3399800 6499.2 7805.1 7570.3 9660.3 10789.7 620.41 9246.9 4584.4 6615.8 7827.3 FALSE FALSE TRUE 7182.815675 8057.990361 8601.94106 9847.289076 9962.995517 567.5475777 8206.414475 4467.137686 6569.760109 8164.773209 0.879732418 0.986921517 1.053543171 1.206070129 1.22024155 0.069511738 1.005100113 0.547123303 0.804646981 1 12.9951971 -5.292468219 24.99995732 0.990039368 0.587030117 0.44278428 0.243832453 483.4069229 389480.5365 0.03219366 0.071993888 5.10E-06 5.292468219 -0.403009251 YIDLEPDTPLS(ph)PEELKEK ddPTM_HeLa_SAHA_4h_R1 1 YIDLEPDTPLSPEELKEK 18 1 Q5VTI5;A0A1B0GUN5;Q9Y2H5 Q5VTI5 PLEKHA6 Pleckstrin homology domain-containing family A member 6 1 0 YIDLEPDT(0.001)PLS(0.999)PEELKEK 100.9 0.0011788 7402000 3399 3613.1 3504.7 3192.3 4064.4 4167.8 4086.1 3559.4 3582 3698.6 TRUE FALSE FALSE 3756.522415 3730.166811 3982.302264 3254.091583 3752.98655 3812.679993 3626.321274 3468.355702 3557.07257 3858.064747 0.973680501 0.966849199 1.03220203 0.843451781 0.972764014 0.988236394 0.939932716 0.898988464 0.921983638 1 11.91366164 YIDQEELNK ddPTM_HeLa_SAHA_4h_R1 3 YIDQEELNK 9 0 P07900;P07900-2;Q14568;P08238;Q58FF8 P07900;P08238;Q58FF8 HSP90AA1;HSP90AA2P;HSP90AB1;HSP90AB2P Heat shock protein HSP 90-alpha;Heat shock protein HSP 90-alpha A2;Heat shock protein HSP 90-beta;Putative heat shock protein HSP 90-beta 2 0 0 ;; ;; 161.27 0.00048274 129468000 6010.3 5831.1 5766.4 6626.9 6514.5 6604.3 6174.8 7176.8 6827.7 6762.1 FALSE FALSE TRUE 6642.49093 6020.031466 6552.214962 6755.173232 6015.360417 6041.576485 5479.995253 6993.227848 6780.18548 7053.647224 0.941710114 0.853463644 0.928911633 0.957685155 0.852801427 0.856518095 0.776902371 0.991434307 0.961231157 1 12.78415371 -7.737996448 0.391584926 1.007168008 0.86554088 0.258690211 0.05964758 0.801973478 0.337964157 0.043269875 0.032082817 1.83E-08 7.737996448 -0.141627127 YIEIDS(ph)DEEPR ddPTM_HeLa_SAHA_4h_R1 4 YIEIDSDEEPR 11 0 E7EW05;Q9NVU7-2;Q9NVU7 E7EW05 SDAD1 Protein SDA1 homolog 1 0 YIEIDS(1)DEEPR;YIEIDS(1)DEEPR;YIEIDS(1)DEEPR;YIEIDS(1)DEEPR ;;; 171.49 8.38E-05 26220900 3569.93 4444.58 3376.02 4813.42 4993.6 5386.22 4745.94 4262.29 6947.75 4456.92 TRUE FALSE FALSE 3945.431617 4588.587308 3836.086424 4906.590704 4610.991447 4927.283754 4211.914341 4153.266794 6899.400042 4649.079633 0.848647889 0.986988323 0.825128139 1.055389688 0.991807371 1.059840687 0.905967347 0.893352474 1.484035677 1 12.18272942 -6.243944866 24.96593194 0.92497726 0.982038217 0 0.190524844 1514.542053 2161360.962 0.012225761 0.020240423 5.70E-07 6.243944866 0.057060956 YIEIDS(ph)DEEPRGELLSLR ddPTM_HeLa_SAHA_4h_R1 11 YIEIDSDEEPRGELLSLR 18 1 E7EW05;Q9NVU7-2;Q9NVU7 E7EW05 SDAD1 Protein SDA1 homolog 1 0 YIEIDS(1)DEEPRGELLSLR;Y(0.002)IEIDS(0.998)DEEPRGELLSLR;Y(0.003)IEIDS(0.981)DEEPRGELLS(0.015)LR;YIEIDS(0.903)DEEPRGELLS(0.097)LR;Y(0.001)IEIDS(0.999)DEEPRGELLSLR;YIEIDS(1)DEEPRGELLSLR;Y(0.001)IEIDS(0.998)DEEPRGELLS(0.002)LR;Y(0.005)IEIDS(0.994)DEEPRGELLSLR;YIEIDS(1)DEEPRGELLSLR;YIEIDS(1)DEEPRGELLSLR;Y(0.043)IEIDS(0.957)DEEPRGELLSLR ;;;;;;;;;; 116.03 0.00057893 61302600 6628.87 6637.872 5658.97 7388.62 7938.68 9073.65 8301.95 6912.1 7903.62 7424.81 TRUE FALSE FALSE 7326.124961 6852.943408 6430.144961 7531.637424 7330.420053 8300.523973 7367.792736 6735.298491 7848.618065 7744.929895 0.945925278 0.884829624 0.830239272 0.972460374 0.946479846 1.071736489 0.951305284 0.869639697 1.013387877 1 12.91903646 -8.693879764 1.053216819 0.994222126 0.937252583 0.168522343 0.062447659 0.781384661 1.740403493 0.024814543 0.012758646 2.02E-09 8.693879764 -0.056969543 YIENMS(ph)RGIYK ddPTM_HeLa_SAHA_4h_R1 1 YIENMSRGIYK 11 1 Q8IWS0-5;Q8IWS0;Q5JRC6;A0A0D9SGE8;Q8IWS0-3 Q8IWS0-5 PHF6 PHD finger protein 6 1 0 YIENMS(0.998)RGIY(0.001)K 94.692 0.005297 0 924.17 1053.7 905.96 1220 966.01 1211.3 1254.6 898.79 1174.5 1068.3 TRUE FALSE FALSE 1021.378441 1087.840571 1029.419511 1243.614864 891.9945225 1108.090425 1113.429106 875.8002532 1166.326559 1114.359641 0.916560869 0.976202414 0.923776735 1.115990582 0.800454799 0.994374154 0.99916496 0.785922445 1.046633884 1 10.1219992 -4.253886875 24.38420034 0.962313088 0.785922324 0.322495219 0.080313376 557.4965677 1799884.6 0.009662231 0.133459309 5.57E-05 4.253886875 -0.176390763 YIES(ph)PDVEK ddPTM_HeLa_SAHA_4h_R1 2 YIESPDVEK 9 0 Q15545 Q15545 TAF7 Transcription initiation factor TFIID subunit 7 1 0 Y(0.002)IES(0.998)PDVEK;Y(0.002)IES(0.998)PDVEK ; 126.71 0.0025754 6571700 3878.4 4629.4 3361.4 3203 4262.4 4999.1 4185.3 3785.8 6215.4 4876.8 TRUE FALSE FALSE 4286.347907 4779.395597 3819.474087 3264.998697 3935.815833 4573.148556 3714.359029 3688.964718 6172.146525 5087.062714 0.842597811 0.939519693 0.750821112 0.641823952 0.773691235 0.898976249 0.7301579 0.72516596 1.213302621 1 12.31261716 -8.356739694 0.339166651 1.038003261 0.743170713 0.582719767 0.102925238 1.018037184 0.262626916 0.119831823 0.048122282 4.40E-09 8.356739694 -0.294832547 YIEVFK ddPTM_HeLa_SAHA_4h_R1 1 YIEVFK 6 0 P52597;A0A1B0GW42 P52597 HNRNPF "Heterogeneous nuclear ribonucleoprotein F;Heterogeneous nuclear ribonucleoprotein F, N-terminally processed" 0 0 106.76 0.020797 2947100 3148.5 3331.2 3521 3882.5 3964.6 4263.8 4964.4 3642.7 3961.8 3840.5 FALSE FALSE TRUE 3479.673676 3439.133066 4000.823543 3957.651402 3660.833205 3900.500253 4405.792646 3549.525009 3934.229511 4006.08275 0.868597554 0.85847779 0.998687195 0.987910547 0.913818669 0.973644454 1.099775746 0.886033872 0.982063965 1 11.96797651 YIFTANK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 YIFTANKK 8 1 F8VRB8;H0YHC1;A0A3B3IS46;A0A3B3IRX3;Q71F56 F8VRB8 MED13L Mediator of RNA polymerase II transcription subunit 13-like 0 1 YIFTANK(1)K 79.474 0.0070735 0 671.73 572.66 975.26 1006.4 1190 635.65 1386.7 582.12 252.14 328.28 FALSE TRUE FALSE 742.3856434 591.2145597 1108.163354 1025.880327 1098.822457 581.4890439 1230.664866 567.2302133 250.3853372 342.4337574 2.167968629 1.726507819 3.236139341 2.995850453 3.208861374 1.69810666 3.59387718 1.656466984 0.731193499 1 8.41968112 -8.328071044 0.519206774 0.979980655 2.722448914 0.507492426 0.667163656 0.551111137 0.323659326 0.426052159 0.192062432 4.70E-09 8.328071044 1.742468259 YIHPDDELVLEDELQR ddPTM_HeLa_SAHA_4h_R1 2 YIHPDDELVLEDELQR 16 0 C9IZD2;C9J8Z7;C9JLE1;F8W8R3;A0A087WWF6;P49005 C9IZD2 POLD2 DNA polymerase delta subunit 2 0 0 ; ; 124.78 0.00049355 3985100 8841.3 7837.7 7423.1 8929.7 9901.6 11469.8 12688.9 14886.9 9600.1 8488.5 FALSE FALSE TRUE 9771.268499 8091.646623 8434.68141 9102.547256 9142.941547 10492.50851 11261.11158 14506.11465 9533.292122 8854.480777 1.103539411 0.91384767 0.952589048 1.028015926 1.032577943 1.184994217 1.271798072 1.638279536 1.076663032 1 13.112192 -4.037808916 1.023547761 1.028700028 2.184920444 0.917034705 0.05753952 0.612094488 0.369444679 0.010109884 0.859280507 9.17E-05 4.037808916 1.156220416 YIMTRLY(ph)K ddPTM_HeLa_SAHA_4h_R1 1 YIMTRLYK 8 1 E9PFK9;Q9UJ41;Q9UJ41-4;Q9UJ41-3;A0A0A0MSJ3;Q3HKR1 E9PFK9 RABGEF1 Rab5 GDP/GTP exchange factor 1 0 YIMT(0.128)RLY(0.872)K 69.176 0.0059165 0 727.12 838.2 616.65 830.45 978.14 925.98 925.87 941.85 978.73 713.59 TRUE FALSE FALSE 803.6018177 865.35823 700.6838506 846.5245606 903.1951245 847.0812946 821.6886708 917.7588408 971.9189382 744.3563571 1.079592872 1.162559064 0.941328497 1.137257111 1.213390758 1.138005052 1.10389152 1.232956274 1.305717253 1 9.53984966 -1 0.083767973 0.896134413 1.695754757 0 0.115956871 115.3118581 0.706782364 0.989651441 10.68932018 0.1 1 0.799620344 YINENLIVNTDELGR ddPTM_HeLa_SAHA_4h_R1 2 YINENLIVNTDELGR 15 0 P17987;E7ERF2;F5H7Y1;F5H136 P17987 TCP1 T-complex protein 1 subunit alpha 0 0 ; ; 234.04 2.84E-24 12516400 1207.65 1242.72 939.04 1107.44 1435.1 1198.99 1589.18 1216.58 1438.99 1453.59 FALSE FALSE TRUE 1334.676168 1282.984943 1067.007481 1128.876103 1325.142948 1096.829307 1410.361284 1185.461645 1428.975951 1516.261379 0.880241485 0.846150249 0.703709463 0.744512865 0.873954166 0.723377461 0.930157098 0.781831986 0.942433786 1 10.56630276 -8.024996174 0.791297215 0.982053479 0.799108262 0.491972242 0.068231256 0.295810148 0.403875674 0.022534267 0.016238452 9.44E-09 8.024996174 -0.182945216 YINPAATK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 YINPAATKR 9 1 Q13356 Q13356 PPIL2 Peptidyl-prolyl cis-trans isomerase-like 2 0 1 YINPAATK(1)R 98.582 0.0044416 1500300 541.34 410.23 408.26 488.64 689.17 576.78 906.87 534.6 422.85 265.13 FALSE TRUE FALSE 598.280625 423.5217212 463.8955467 498.0983338 636.3659435 527.6350991 804.8266008 520.9257061 419.9073524 276.5610518 2.163285904 1.531385994 1.677371212 1.801042954 2.300996251 1.907843117 2.910122722 1.883583038 1.518317021 1 8.111454185 -10.37549495 0.277904199 4.06E-19 2.203678462 0.400720963 0.378639874 5.058342339 0.30601374 3.823985945 0.216866135 4.21E-11 10.37549495 2.203678462 YIS(ph)FEER ddPTM_HeLa_SAHA_4h_R1 1 YISFEER 7 0 Q14192 Q14192 FHL2 Four and a half LIM domains protein 2 1 0 Y(0.003)IS(0.997)FEER 98.582 0.0069126 0 1503.8 1530.9 1441.9 1555.5 1977.2 1790.8 1848.1 1553.5 1566.6 1115.4 TRUE FALSE FALSE 1661.976584 1580.502164 1638.394623 1585.608952 1825.707363 1638.213765 1640.146924 1513.763719 1555.697903 1163.490353 1.428440365 1.358414499 1.408172074 1.362803695 1.569164161 1.40801663 1.409678147 1.30105395 1.337095662 1 10.18424353 -9.253154164 0.648284112 0.948964996 1.416112046 0.203455863 0.122732571 0.288132683 0.181625681 0.077576416 0.014380832 5.58E-10 9.253154164 0.46714705 YIS(ph)PDQLADLYK ddPTM_HeLa_SAHA_4h_R1 1 YISPDQLADLYK 12 0 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 1 0 Y(0.046)IS(0.954)PDQLADLYK 80.318 0.021315 1954500 842.99 857.6 952.49 659.33 752.98 879.08 825.25 697.67 677.63 599.85 TRUE FALSE FALSE 931.659556 885.3868027 1082.290377 672.0922856 695.2868351 804.1774384 732.3906981 679.8246116 672.9143177 625.7124691 1.488957951 1.415005848 1.729692839 1.07412321 1.111192232 1.285218816 1.170490815 1.086480844 1.075436963 1 9.289356044 -4.459181 0.898310156 1.274324316 1.033198111 0.079341433 0.212722244 4.686252052 3.413760288 0.040405836 1.028859147 3.47E-05 4.459181 -0.241126204 YISENES(ph)PRPSQK ddPTM_HeLa_SAHA_4h_R1 2 YISENESPRPSQK 13 1 O94782 O94782 USP1 Ubiquitin carboxyl-terminal hydrolase 1 1 0 YIS(0.002)ENES(0.971)PRPS(0.027)QK;YISENES(0.816)PRPS(0.184)QK ; 175.29 2.61E-16 5175100 1535.18 1948.12 1306.43 1775.33 1640.34 1727.49 1518.36 1685.2 2326.44 1630.03 TRUE FALSE FALSE 1696.657276 2011.240366 1484.463477 1809.694079 1514.657504 1580.298133 1347.510137 1642.095024 2310.250115 1700.30857 0.99785257 1.182867864 0.87305534 1.06433274 0.890813309 0.929418437 0.792509172 0.965762952 1.358724031 1 10.73158087 -5.742704156 24.64791829 1.007875773 0.88981702 0.210336848 0.138581757 176.1441128 231732.2537 0.010936732 0.021841164 1.81E-06 5.742704156 -0.118058753 YISENESPRPS(ph)QK ddPTM_HeLa_SAHA_4h_R1 1 YISENESPRPSQK 13 1 O94782 O94782 USP1 Ubiquitin carboxyl-terminal hydrolase 1 1 0 YISENES(0.279)PRPS(0.721)QK 64.675 0.023643 14878000 1453.3 1733.9 1228.8 1722.5 1553.6 1477.1 1755.2 1706 1904.8 1622.1 TRUE FALSE FALSE 1606.164762 1790.079498 1396.254465 1755.841478 1434.563504 1351.24277 1557.700277 1662.36299 1891.544342 1692.036669 0.949249382 1.057943678 0.825191611 1.037708881 0.847832396 0.798589531 0.920606689 0.982462745 1.117909781 1 10.72454512 -6.422977466 1.155171071 0.979896485 0.894948985 0.22160303 0.088559958 0.575691538 1.526642514 0.013154312 0.024071344 3.78E-07 6.422977466 -0.084947499 YISFEER ddPTM_HeLa_SAHA_4h_R1 1 YISFEER 7 0 Q14192 Q14192 FHL2 Four and a half LIM domains protein 2 0 0 120.62 0.022094 6146200 3182 2854.9 3343.2 3398.9 3520.9 3507.1 3477.5 3103.7 2887 2696.6 FALSE FALSE TRUE 3516.69736 2947.400633 3798.793885 3464.690624 3251.129403 3208.27535 3086.202548 3024.311848 2866.909132 2812.863623 1.250219645 1.047829198 1.350507666 1.231730752 1.155807689 1.140572662 1.09717461 1.075171872 1.019213697 1 11.45782389 -3.285592786 14.02952309 1.137873597 1.15121592 0 0.106657476 0 0 0.015784567 0 0.000518092 3.285592786 0.013342323 YISLIYTNYEAGKDDYVK ddPTM_HeLa_SAHA_4h_R1 1 YISLIYTNYEAGKDDYVK 18 1 P09211 P09211 GSTP1 Glutathione S-transferase P 0 0 219.53 1.35E-35 1990200 643.82 755.6 875.15 1013.1 731.01 830.15 837.19 275.62 855.83 749.5 FALSE FALSE TRUE 711.5399416 780.0819358 994.4108844 1032.710015 675.0001717 759.4165497 742.9871778 268.5700395 849.8742093 781.814613 0.910113382 0.997783775 1.271926705 1.320914189 0.863376254 0.971351184 0.950336775 0.343521386 1.08705337 1 9.61068274 -4.253837098 3.822002016 1.00124832 0.272505022 0.668833648 0.145295324 0.137321749 3.844369775 0.021519586 0.282431872 5.57E-05 4.253837098 -0.728743298 YISPDQLADLYK ddPTM_HeLa_SAHA_4h_R1 4 YISPDQLADLYK 12 0 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 ;;; ;;; 208.17 3.68E-32 424997100 12125.72 11890.31 13149.3 12825.28 12172.9 10886.83 13425.6 10762.4 10047.17 9464.01 FALSE FALSE TRUE 13401.15886 12275.56385 14941.21813 13073.53184 11240.21503 9959.210836 11914.91615 10487.11339 9977.250926 9872.049787 1.357484935 1.243466566 1.51348691 1.3242976 1.138589784 1.008829073 1.206934366 1.062303536 1.010656464 1 13.26913395 -5.535657212 23.67728418 1.217966472 1.099046155 0.158611036 0.151779486 242.3698152 449087.0866 0.026524024 0.053080967 2.91E-06 5.535657212 -0.118920317 YK(ac)AEDEVQR ddPTM_HeLa_SAHA_4h_R1 1 YKAEDEVQR 9 1 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 0 1 YK(1)AEDEVQR 132.88 0.00099037 4602700 1340.5 4658 1801.5 2116.8 4475.9 4308.3 4727.5 3310.1 3821.1 1096.4 FALSE TRUE FALSE 1481.49994 4808.922256 2046.999038 2157.773725 4132.957509 3941.208602 4195.549258 3225.432435 3794.508654 1143.67117 1.295389776 4.204811998 1.789849296 1.886708157 3.613763832 3.446102959 3.668492631 2.820244595 3.317831869 1 10.15945659 -7.169610643 0.606834458 0.953311798 3.318006448 0 1.096996623 0.379242356 0.305400658 0.247486763 0.315544389 6.77E-08 7.169610643 2.364694651 YK(ac)EETIEK ddPTM_HeLa_SAHA_4h_R1 1 YKEETIEK 8 1 P61254 P61254 RPL26 60S ribosomal protein L26 0 1 YK(1)EETIEK 144.77 5.97E-05 2256800 591.85 1801.5 932.12 1035.5 1377.1 1308 1389.5 1458.5 1130 402.94 FALSE TRUE FALSE 654.1034985 1859.869782 1059.144459 1055.5436 1271.586896 1196.551041 1233.149803 1421.193682 1122.136238 420.3127153 1.556230575 4.424966731 2.519896307 2.511329211 3.025335302 2.846811428 2.933886504 3.381276916 2.669765146 1 8.715319291 -7.442974719 8.032552084 1.243648938 3.030884784 0.399592486 0.688152243 0.118375406 10.81821852 0.088415678 0.100669076 3.61E-08 7.442974719 1.787235846 YKAEDEVQR ddPTM_HeLa_SAHA_4h_R1 1 YKAEDEVQR 9 1 A0A0G2JIW1;P0DMV9;P0DMV8;P0DMV8-2;V9GZ37 A0A0G2JIW1 HSPA1B;HSPA1A Heat shock 70 kDa protein 1B;Heat shock 70 kDa protein 1A 0 0 90.15 0.012512 2171400 1836.9 1913.2 1776.2 2104 2196 2198.6 2496.9 2045.4 1941.1 1856.9 FALSE FALSE TRUE 2030.11357 1975.188935 2018.251286 2144.725962 2027.742954 2011.266911 2215.942241 1993.08163 1927.591727 1936.960046 1.048092641 1.01973654 1.041968465 1.107263914 1.046868756 1.038362621 1.144030949 1.028974053 0.99516339 1 10.91957848 -9.396444076 0.139792803 0.929477692 1.104844266 0.374767789 0.034568068 13.89926736 0.517533711 0.532653371 0.16296678 4.01E-10 9.396444076 0.175366574 YKDDDDDQLFYTR ddPTM_HeLa_SAHA_4h_R1 3 YKDDDDDQLFYTR 13 1 H7C2V1;O60568 H7C2V1 PLOD3 "Procollagen-lysine,2-oxoglutarate 5-dioxygenase 3" 0 0 ;; ;; 131.79 0.0010256 28069100 5391.9 5374.6 5226.98 5290.4 6971.2 7005.2 5925.8 5372 6069.2 5274.7 FALSE FALSE TRUE 5959.044781 5548.740566 5939.285613 5392.803342 6437.068162 6408.31755 5259.013388 5234.592019 6026.963943 5502.118131 1.083045591 1.008473543 1.079454398 0.980132235 1.169925474 1.164700102 0.955816154 0.951377614 1.095389775 1 12.4257714 -9.543629002 1.286039986 0.999769317 1.055152267 0 0.079747988 1.111895776 3.271774611 0.054095156 0.012621237 2.86E-10 9.543629002 0.05538295 YKDLDEDELLGNLS(ph)ETELK ddPTM_HeLa_SAHA_4h_R1 1 YKDLDEDELLGNLSETELK 19 1 Q9NYL9;H0YNU8 Q9NYL9 TMOD3 Tropomodulin-3 1 0 YKDLDEDELLGNLS(0.803)ET(0.197)ELK 135.54 4.73E-05 116540000 5032 5876.2 5066.3 5966.1 6454.4 6997.6 6396.9 5436.3 7309.9 6257.9 TRUE FALSE FALSE 5561.288848 6066.592736 5756.70898 6081.582493 5959.865266 6401.365113 5677.103976 5297.247318 7259.029811 6527.708694 0.851951138 0.929360212 0.881888155 0.931656539 0.913010299 0.980645034 0.869693217 0.811501794 1.112033357 1 12.67236096 -9.482789861 1.195235247 1.00061775 0.895409966 0.498285422 0.057954376 0.379242703 0.960208143 0.033094556 0.00789933 3.29E-10 9.482789861 -0.105207784 YKDLDEDELLGNLSET(ph)ELK ddPTM_HeLa_SAHA_4h_R1 1 YKDLDEDELLGNLSETELK 19 1 Q9NYL9;H0YNU8 Q9NYL9 TMOD3 Tropomodulin-3 1 0 YKDLDEDELLGNLS(0.3)ET(0.7)ELK 91.481 0.0021547 133850000 10712 12634 10917 13216 13386 14328 13729 11953 16350 12380 TRUE FALSE FALSE 11838.73731 13043.34989 12404.71191 13471.81479 12360.36757 13107.17379 12184.17679 11647.25957 16236.21902 12913.76239 0.916753534 1.010034837 0.960580777 1.043213774 0.957146895 1.014977154 0.94350325 0.901926117 1.257280298 1 13.65662177 -4.458528503 4.369946952 0.972202513 0.906839211 0 0.096889502 0.264261885 9.535933346 0.00574483 0.034865112 3.48E-05 4.458528503 -0.065363302 YKLDEDEDEDDADLS(ph)KYNLDASEEEDSNK ddPTM_HeLa_SAHA_4h_R1 1 YKLDEDEDEDDADLSKYNLDASEEEDSNK 29 2 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 YKLDEDEDEDDADLS(0.501)KY(0.453)NLDAS(0.043)EEEDS(0.003)NK 53.705 0.0038795 7757900 308.5 435.35 508.37 479.76 626.27 606.02 387.23 518.17 721.17 367.85 TRUE FALSE FALSE 340.9494454 449.4556256 577.6480161 489.0464485 578.2853279 554.3836866 343.6578613 504.9159617 716.1513193 383.7098137 0.88856066 1.171342534 1.505429352 1.274521607 1.507090273 1.444799343 0.895619161 1.315879719 1.866387811 1 8.583871853 -7.067716372 4.482048522 0.948690661 1.318036966 0 0.334240579 0.134125599 5.240170224 0.028287279 0.035279888 8.56E-08 7.067716372 0.369346305 YKPLNTTPNATK(ac)EIK ddPTM_HeLa_SAHA_4h_R1 1 YKPLNTTPNATKEIK 15 2 Q96QC0 Q96QC0 PPP1R10 Serine/threonine-protein phosphatase 1 regulatory subunit 10 0 1 YKPLNTTPNATK(1)EIK 132.59 0.00012796 1960000 597.45 351.84 184.47 524.72 644.74 613.05 507.39 807.43 464.86 356.5 FALSE TRUE FALSE 660.2925322 363.2398469 209.6086109 534.8767144 595.3401605 560.8146911 450.2971418 786.7771097 461.6250014 371.8704597 1.775598236 0.976791346 0.563660289 1.438341499 1.600934264 1.508091532 1.210897855 2.115728984 1.241359698 1 8.538656339 -1.000000027 0.029481567 2.12E-09 3.461420316 0.138131311 0.39102255 2828.920632 6.463336956 245.538003 580.9044158 0.099999994 1.000000027 3.461420314 YKPVCNQVECHPYFNQR ddPTM_HeLa_SAHA_4h_R1 1 YKPVCNQVECHPYFNQR 17 1 B4DK69;P52895;S4R3P0;Q04828;H0Y804 B4DK69;Q04828 AKR1C2;AKR1C1 Aldo-keto reductase family 1 member C2;Aldo-keto reductase family 1 member C1 0 0 112.24 0.0022825 2306200 1064.5 815.26 837.15 1164.6 1013 1158.9 1198.2 657.56 1072.3 1030.4 FALSE FALSE TRUE 1176.468994 841.6749589 951.2324423 1187.142517 935.3841588 1060.1552 1063.375383 640.7405673 1064.837777 1074.825587 1.09456735 0.783080501 0.885010977 1.10449782 0.870265995 0.986350914 0.989346919 0.596134457 0.990707507 1 10.06988686 -4.26045324 5.338708206 1.003685975 0.579512941 0.529656108 0.099728736 0.088722995 9.028998254 0.014815742 0.137182954 5.49E-05 4.26045324 -0.424173034 YKSTT(ph)SVSEEDVSSR ddPTM_HeLa_SAHA_4h_R1 1 YKSTTSVSEEDVSSR 15 1 Q96IZ0 Q96IZ0 PAWR PRKC apoptosis WT1 regulator protein 1 0 YKS(0.003)T(0.035)T(0.471)S(0.471)VS(0.021)EEDVSSR 151.38 0.0026989 6991700 2450.4 2238 3038.8 1482.3 2269.4 2935.3 2612.1 2023.3 1420 2192.4 TRUE FALSE FALSE 2708.144315 2310.512668 3452.911839 1510.99206 2095.519062 2685.195926 2318.179633 1971.546916 1410.118104 2286.925093 1.184185841 1.0103141 1.50984912 0.66070903 0.916304197 1.174151237 1.013666622 0.862095099 0.61660004 1 11.1591934 -6.231833288 24.9985289 1.111048946 0.943605671 0.058018109 0.240172748 1004.45848 848136.2575 0.027522437 0.045636517 5.86E-07 6.231833288 -0.167443276 YKSTTSVS(ph)EEDVSSR ddPTM_HeLa_SAHA_4h_R1 1 YKSTTSVSEEDVSSR 15 1 Q96IZ0 Q96IZ0 PAWR PRKC apoptosis WT1 regulator protein 1 0 YKS(0.001)T(0.012)T(0.13)S(0.13)VS(0.727)EEDVSSR 153.41 0.00017102 7967700 2393.8 2182.5 2674.2 1698.9 2512.6 2833.2 3102.7 1966.3 1157.8 2633 TRUE FALSE FALSE 2645.590867 2253.214432 3038.626049 1731.784666 2320.085131 2591.795421 2753.57603 1916.004893 1149.742776 2746.521516 0.963251463 0.820388415 1.106354358 0.630537448 0.84473583 0.943664707 1.002568527 0.697611463 0.418617793 1 11.42338988 -7.19099064 0.869129528 0.99078496 0.857761322 0 0.222599936 0.714666094 1.082095014 0.028457537 0.035263074 6.44E-08 7.19099064 -0.133023638 YLAADK(ac)DGNVTCER ddPTM_HeLa_SAHA_4h_R1 2 YLAADKDGNVTCER 14 1 Q16658 Q16658 FSCN1 Fascin 0 1 ; YLAADK(1)DGNVTCER;YLAADK(1)DGNVTCER 226.42 2.44E-43 4766500 1147.27 3353.6 1701.55 1468.19 2822 2816 3105.8 2422.4 2325.8 972.43 FALSE TRUE FALSE 1267.945122 3462.25884 1933.428373 1496.60894 2605.77897 2576.060958 2756.32721 2360.438516 2309.614568 1014.356216 1.249999854 3.413257379 1.906064499 1.475427386 2.568899296 2.539601884 2.717316822 2.327031153 2.276926519 1 9.986348664 -7.420463883 8.738772124 1.109840554 2.386201167 0.259084126 0.604951184 0.163712025 12.81148194 0.081928693 0.093492228 3.80E-08 7.420463883 1.276360613 YLAADKDGNVTCER ddPTM_HeLa_SAHA_4h_R1 2 YLAADKDGNVTCER 14 1 Q16658 Q16658 FSCN1 Fascin 0 0 ; ; 116.9 0.001646 37305000 2965.3 2994.8 2596.6 2769.6 2858.1 2898.9 2700.4 2906.4 3203.4 2831.7 FALSE FALSE TRUE 3277.203859 3091.833485 2950.451125 2823.209613 2639.112995 2651.897411 2396.543885 2832.058496 3181.107279 2953.788445 1.109491732 1.046734911 0.998870156 0.955792761 0.893467168 0.89779531 0.811345812 0.958788535 1.0769584 1 11.52835079 -6.157756678 1.501848283 1.052466341 0.882240572 0.755313395 0.042794858 0.16560071 0.733161536 0.008322093 0.01623094 6.95E-07 6.157756678 -0.170225769 YLAEFATGNDR ddPTM_HeLa_SAHA_4h_R1 1 YLAEFATGNDR 11 0 P62258;P62258-2;K7EM20 P62258 YWHAE 14-3-3 protein epsilon 0 0 162.36 0.0011176 13057000 871.39 660.77 554.4 844.25 873.56 1158.2 968.48 696.72 1013.4 969.56 FALSE FALSE TRUE 963.0467983 682.1793815 629.9507448 860.5916796 806.6280215 1059.514844 859.5040815 678.8989112 1006.347667 1011.362477 0.95222714 0.674515218 0.622873361 0.850923086 0.7975657 1.047611384 0.849847707 0.671271603 0.995041531 1 9.982084442 -7.416909893 6.915810095 0.979120189 0.79680806 0.379128653 0.114176626 0.218330406 12.46591653 0.020618876 0.023474111 3.83E-08 7.416909893 -0.18231213 YLAEFATGNDRK ddPTM_HeLa_SAHA_4h_R1 2 YLAEFATGNDRK 12 1 P62258;P62258-2;K7EM20 P62258 YWHAE 14-3-3 protein epsilon 0 0 ; ; 132.56 0.00019004 9788800 3093.3 2701.7 3087.7 3230.4 2992.1 3652.9 3684.5 2952.1 3181.3 3227.4 FALSE FALSE TRUE 3418.667487 2789.236853 3508.475676 3292.929063 2762.845944 3341.652369 3269.910363 2876.589557 3159.161074 3366.549009 1.015481277 0.828515149 1.042157909 0.978131925 0.820675991 0.9926047 0.971294449 0.854462403 0.938397471 1 11.71705475 YLAEVAAGDDK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 YLAEVAAGDDKK 12 1 E7EX29;P63104;B0AZS6;P63104-2;B7Z2E6;H0YB80 E7EX29 YWHAZ 14-3-3 protein zeta/delta 0 1 ; YLAEVAAGDDK(1)K;YLAEVAAGDDK(1)K 181.4 1.69E-16 8266100 2038.55 7723.3 3478.8 3668.1 6405.6 6846.7 7983.6 5744.7 6275.7 2106.73 FALSE TRUE FALSE 2252.974042 7973.539987 3952.872747 3739.10138 5914.804312 6263.322642 7085.264316 5597.758892 6232.026893 2197.56144 1.025215496 3.628358161 1.798754144 1.701477515 2.691530805 2.850124018 3.224148452 2.547259335 2.835882892 1 11.10168779 -7.290165251 23.77409437 1.011907053 2.599653476 0.141818773 0.793568915 170.9890229 141513.3708 0.093606419 0.107056495 5.13E-08 7.290165251 1.587746423 YLAEVACGDDR ddPTM_HeLa_SAHA_4h_R1 3 YLAEVACGDDR 11 0 P27348;E9PG15 P27348 YWHAQ 14-3-3 protein theta 0 0 ;; ;; 202.2 1.90E-09 52187000 4186.35 4624.26 4300.64 4013.22 5175.61 5019.15 4990.06 4294.64 4254 4217.48 FALSE FALSE TRUE 4626.689501 4774.089058 4886.708822 4090.901676 4779.05588 4591.490183 4428.565316 4184.789327 4224.396068 4399.316203 1.051683782 1.085188888 1.110788267 0.929894895 1.086317887 1.043682693 1.006648559 0.951236314 0.960239245 1 12.10306358 -4.360046975 2.783571097 1.034009803 0.944527114 0.176266344 0.053989426 0.42697489 4.993537279 0.006828921 0.077034055 4.36E-05 4.360046975 -0.08948269 YLAEVATGDDK(ac)KR ddPTM_HeLa_SAHA_4h_R1 1 YLAEVATGDDKKR 13 2 P31947-2;P31947 P31947-2 SFN 14-3-3 protein sigma 0 1 YLAEVATGDDK(0.963)K(0.037)R 117.27 0.0010906 2677800 447.18 1313.5 833.22 877.77 1380 1131 1536.7 1257 1122.4 456.16 FALSE TRUE FALSE 494.2164441 1356.058262 946.7668824 894.7605076 1274.264698 1034.632437 1363.786472 1224.84776 1114.589127 475.82729 1.038646699 2.84989594 1.989728001 1.880431254 2.677998351 2.174386503 2.866137568 2.574143572 2.342423712 1 8.894294206 -7.273576561 24.69080493 1.018249772 2.408724809 0.333753411 0.526068697 185.4204526 377202.1784 0.053502067 0.06143149 5.33E-08 7.273576561 1.390475037 YLAEVATGDDKK(ac)R ddPTM_HeLa_SAHA_4h_R1 1 YLAEVATGDDKKR 13 2 P31947-2;P31947 P31947-2 SFN 14-3-3 protein sigma 0 1 YLAEVATGDDK(0.033)K(0.967)R 133.88 0.00021309 3306700 280.45 930.76 490.95 540.2 751.62 843.16 862.3 627.34 657.17 378.51 FALSE TRUE FALSE 309.9490178 960.9172347 557.8541092 550.6563521 694.031038 771.3180245 765.2717346 611.2935512 652.5967005 394.8294185 0.78502007 2.433752881 1.412899047 1.394669005 1.757799712 1.953547503 1.938233826 1.548247224 1.652857335 1 8.625085678 -7.288420167 24.91874179 0.898481651 1.760561452 0.315131038 0.376044108 300.716987 277733.455 0.048889488 0.055914938 5.15E-08 7.288420167 0.862079802 YLAIAPPIIK ddPTM_HeLa_SAHA_4h_R1 1 YLAIAPPIIK 10 0 F5GY55;Q16531 F5GY55 DDB1 DNA damage-binding protein 1 0 0 165.9 8.05E-12 0 645.94 899.68 698.16 794.71 978.76 1029.5 902.45 657.78 1041.8 726.17 FALSE FALSE TRUE 713.8829329 928.8302223 793.3016089 810.0927612 903.7676203 941.7808082 800.9039509 640.9549401 1034.550029 757.4787425 0.942446161 1.226212922 1.04729224 1.0694594 1.19312605 1.243309885 1.057328617 0.846168881 1.36578094 1 9.565061592 -7.293444867 24.78522423 0.972821791 1.102277343 0 0.164710124 633.4694042 490560.6033 0.018541326 0.021203575 5.09E-08 7.293444867 0.129455551 YLAPSGPSGTLK ddPTM_HeLa_SAHA_4h_R1 3 YLAPSGPSGTLK 12 0 Q16658 Q16658 FSCN1 Fascin 0 0 ;; ;; 202.96 1.42E-11 8241700 6291.3 6304.5 6083.4 6103.3 6769.1 6454.2 6675.5 6757.4 6257.3 6038.1 FALSE FALSE TRUE 6953.0478 6508.769937 6912.414071 6221.438197 6250.45302 5904.26585 5924.355171 6584.555493 6213.75494 6298.432041 1.10393313 1.033395279 1.097481727 0.987775713 0.992382387 0.937418362 0.940607937 1.045427727 0.986555844 1 12.62077701 -6.110471562 6.252189524 1.052137935 0.975223835 0.328555811 0.044696803 0.197692895 9.770198888 0.007292651 0.012186408 7.75E-07 6.110471562 -0.0769141 YLDEDTIYHLQPSGR ddPTM_HeLa_SAHA_4h_R1 2 YLDEDTIYHLQPSGR 15 0 P31153-2;P31153 P31153-2 MAT2A S-adenosylmethionine synthase isoform type-2 0 0 ; ; 212.55 1.48E-17 36024000 5260.7 5202.3 4898.3 5664.5 5799.4 6930.6 6038.1 5213.2 5825.3 5680.5 FALSE FALSE TRUE 5814.044563 5370.857933 5565.814815 5774.144589 5355.051225 6340.07389 5358.677097 5079.853893 5784.761263 5925.414155 0.981204758 0.906410555 0.93931237 0.974471056 0.903742943 1.069979874 0.904354861 0.857299382 0.976262775 1 12.53270028 -1 0.143426498 1.012342279 0.6456463 0.15655996 0.053528296 84.90449068 0.798751128 0.132491871 6.44123435 0.1 1 -0.366695979 YLDPEYIDR ddPTM_HeLa_SAHA_4h_R1 2 YLDPEYIDR 9 0 X6RA56;X6RCK5;A0A0A0MRV8;X6RLR1;O75935-3;O75935-2;O75935 X6RA56 DCTN3 Dynactin subunit 3 0 0 ; ; 152.63 0.001898 8895800 4398.1 4288.2 4059.6 4815.8 4696.3 4877.4 4746.8 4614.9 4559.5 3982.8 FALSE FALSE TRUE 4860.712337 4427.140494 4612.821147 4909.016773 4336.470509 4461.81808 4212.677571 4496.85754 4527.770068 4154.517999 1.169982255 1.065620728 1.110314397 1.18160922 1.043796298 1.073967686 1.013999114 1.082401747 1.089842448 1 12.02046539 YLEES(ph)DEDDLF ddPTM_HeLa_SAHA_4h_R1 4 YLEESDEDDLF 11 0 P11388;P11388-2;P11388-3;P11388-4;J3QR57 P11388 TOP2A DNA topoisomerase 2-alpha 1 0 YLEES(1)DEDDLF;YLEES(1)DEDDLF;YLEES(1)DEDDLF;YLEES(1)DEDDLF ;;; 151.22 0.00047839 14302090 3709.56 2406.02 2088.45 1994.95 3160.93 3621.29 3402.81 3794.76 2310.9 2702.79 TRUE FALSE FALSE 4099.748541 2483.976627 2373.05309 2033.565142 2918.740226 3312.735719 3019.916863 3697.695534 2294.818259 2819.320504 1.454161928 0.881055071 0.841711003 0.721296191 1.035263718 1.175012105 1.071150605 1.311555578 0.813961469 1 11.46113178 -7.239076499 24.94847285 1.214465376 0.998291021 0 0.226910006 1093.256489 1219659.752 0.039165844 0.047950168 5.77E-08 7.239076499 -0.216174355 YLELMY(ph)AGAALK ddPTM_HeLa_SAHA_4h_R1 1 YLELMYAGAALK 12 0 A6NFN9-1;A6NFN9;A6NFN9-3 A6NFN9-1 ANKUB1 Protein ANKUB1 1 0 Y(0.001)LELMY(0.999)AGAALK 88.177 0.0044481 0 707.37 690.91 879.97 770.32 599.18 969.2 801.59 849.57 908.65 585.78 TRUE FALSE FALSE 781.7744221 713.2959373 999.8877289 785.2306575 553.2709578 886.6187074 711.3929835 827.8392296 902.3266307 611.0358425 1.279424819 1.167355313 1.636381468 1.285081173 0.905464 1.451009328 1.164241005 1.35481288 1.476716369 1 9.255113199 -9.081092947 0.75043226 0.990363615 1.279596281 0 0.233379592 0.812653103 0.793594174 0.139229849 0.036683986 8.30E-10 9.081092947 0.289232666 YLGPSNS(ph)QVDFLLR ddPTM_HeLa_SAHA_4h_R1 1 YLGPSNSQVDFLLR 14 0 H7BYZ6 H7BYZ6 GPR75-ASB3 1 0 YLGPS(0.14)NS(0.86)QVDFLLR 85.554 0.012548 10797000 885.26 962.8 1269.6 3055 643.23 719.17 1132 2133.6 1803.3 1123.9 TRUE FALSE FALSE 978.3757085 993.9953517 1442.614476 3114.133943 593.9458564 657.8926701 1004.624381 2079.025601 1790.750688 1172.356829 0.834537475 0.84786076 1.230525076 2.65630213 0.506625493 0.561171014 0.856927137 1.773372705 1.527479214 1 10.19519603 -6.752205652 22.8000475 0.914131457 1.242536372 0.007307877 0.618827851 155.3397037 383561.7434 0.093806708 0.131423128 1.77E-07 6.752205652 0.328404915 YLGQVT(ph)LT(ph)HKK ddPTM_HeLa_SAHA_4h_R1 1 YLGQVTLTHKK 11 1 A0A0M3HEQ9;Q8N859 A0A0M3HEQ9 ZNF713 Zinc finger protein 713 2 0 Y(0.056)LGQVT(0.972)LT(0.972)HKK 67.519 0.0069085 0 585.39 737.99 477.29 606.8 759.36 997.61 706.93 679.95 881.64 820.58 TRUE FALSE FALSE 646.9640061 761.9013602 542.3325956 618.5454914 701.1780009 912.6080156 627.3843759 662.5578636 875.5045955 855.9592196 0.755835081 0.890114088 0.633596301 0.7226343 0.819172204 1.066181653 0.732960591 0.774053072 1.022834471 1 9.741398254 -9.332544711 0.946245678 1.005662513 0.798589741 0.368450636 0.110222724 0.59457173 0.911056552 0.087376952 0.020646749 4.65E-10 9.332544711 -0.207072771 YLHDESGLNRR ddPTM_HeLa_SAHA_4h_R1 3 YLHDESGLNRR 11 1 B5MCX3;Q15019;Q15019-3;Q15019-2;C9J2Q4;C9IY94;C9J938;H7C310;C9JB25 B5MCX3 2-Sep Septin-2 0 0 ;; ;; 99.013 0.0040621 17184500 4101.57 3011.41 3445.92 3994.48 4510.84 1211.74 4024 3139.81 2942.97 3702.08 FALSE FALSE TRUE 4532.991951 3108.98166 3915.512032 4071.798937 4165.220414 1108.492935 3571.208929 3059.498207 2922.489632 3861.694786 1.173834858 0.805082181 1.013936173 1.054407239 1.078599072 0.287048303 0.924777624 0.792268259 0.756789388 1 11.91501843 YLHVGYIVPPAPEK ddPTM_HeLa_SAHA_4h_R1 1 YLHVGYIVPPAPEK 14 0 O60749;D6RC15;O60749-2 O60749 SNX2 Sorting nexin-2 0 0 81.494 0.0136 1235900 444.35 680.37 534.19 483.01 571.25 497.01 884.26 396.24 609.97 570.95 FALSE FALSE TRUE 491.0887718 702.4144344 606.9866313 492.359357 527.4809484 454.6619519 784.7607376 386.1047545 605.7251691 595.5664487 0.824574274 1.17940565 1.019175329 0.82670768 0.885679423 0.763410956 1.317671167 0.648298364 1.017057241 1 9.218118672 -6.265830777 24.79199942 0.945851939 0.905114688 0.041808515 0.18584858 1924.32176 10863926.16 0.027622925 0.04309179 5.42E-07 6.265830777 -0.040737252 YLKLPEPSASLPNPPSK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 YLKLPEPSASLPNPPSKK 18 2 A0A2R8Y7R8;A0A2R8Y4Y9;A0A2R8YEB4;A0A2R8YEH2;A0A2R8Y6Y1;A0A2R8YGP2;A0A2R8Y6Q6;A0A2R8YCJ4;A0A087WZJ6;A0A2R8Y761;A0A087WXR7;A0A2R8YCX2;A0A2R8Y6M7;A0A2R8Y687;A0A2R8Y4S2;A0A2R8Y459;Q5TBB1 A0A2R8Y7R8 RNASEH2B Ribonuclease H2 subunit B 0 1 YLKLPEPSASLPNPPSK(1)K 102.69 0.0024286 1336100 420.14 326.26 321.54 572.02 342.29 413.18 527.26 528.45 284.4 235.63 FALSE TRUE FALSE 464.3322529 336.8310381 365.3577967 583.0922743 316.0638141 377.9747395 467.9313171 514.9330142 282.4208372 245.7891624 1.889148603 1.370406387 1.486468293 2.372327032 1.285914363 1.537800673 1.903791495 2.095019199 1.149036981 1 7.941277494 -9.445359685 0.753462033 0.902029018 1.745354606 0.404728549 0.322583288 0.708368902 0.578366916 0.392705951 0.062804183 3.59E-10 9.445359685 0.843325588 YLLGDAPVS(ph)PSSQK ddPTM_HeLa_SAHA_4h_R1 3 YLLGDAPVSPSSQK 14 0 Q9NYB0;A0A590UJT3;H3BMI8 Q9NYB0 TERF2IP Telomeric repeat-binding factor 2-interacting protein 1 1 0 YLLGDAPVS(0.814)PS(0.184)S(0.002)QK;YLLGDAPVS(0.724)PS(0.273)S(0.003)QK;YLLGDAPVS(0.817)PS(0.183)SQK ;; 253.46 2.06E-43 184125000 10946.7 9720.2 9688.5 10664.9 11154.4 11587.5 12021.5 11414.2 9999.8 9269.7 TRUE FALSE FALSE 12098.12413 10035.14086 11008.79832 10871.33456 10299.75228 10600.17981 10668.80918 11122.24129 9930.210578 9669.362132 1.251181202 1.03782863 1.138523739 1.124307313 1.065194595 1.096264641 1.103362252 1.150255947 1.0269768 1 13.23920501 YLLSQS(ph)SPAPLTAAEEELR ddPTM_HeLa_SAHA_4h_R1 6 YLLSQSSPAPLTAAEEELR 19 0 F8VS81;Q12792-4;Q12792;Q12792-3 F8VS81 TWF1 Twinfilin-1 1 0 YLLS(0.001)QS(0.689)S(0.31)PAPLTAAEEELR;YLLSQS(0.491)S(0.491)PAPLT(0.017)AAEEELR;YLLS(0.256)QS(0.676)S(0.068)PAPLTAAEEELR;YLLS(0.002)QS(0.765)S(0.232)PAPLT(0.001)AAEEELR;YLLS(0.001)QS(0.606)S(0.359)PAPLT(0.035)AAEEELR;YLLSQS(0.949)S(0.05)PAPLTAAEEELR ;;;;; 231.93 1.25E-32 48690000 7027.75 7781.68 7411.71 6614.61 9031.74 9569.12 8186.82 6967.03 7431.88 7763.92 TRUE FALSE FALSE 7766.960989 8033.811538 8421.73924 6742.645341 8339.730032 8753.777142 7265.617467 6788.823461 7380.160942 8098.660587 0.95904266 0.99199262 1.03989285 0.832563023 1.029766582 1.080891963 0.897138161 0.838264968 0.91128167 1 12.98346761 -4.534952292 24.25449005 0.983798878 0.852983227 0.332040791 0.066314984 95.0095471 190864.8926 0.008189364 0.030692699 2.92E-05 4.534952292 -0.130815651 YLLSQSS(ph)PAPLTAAEEELR ddPTM_HeLa_SAHA_4h_R1 2 YLLSQSSPAPLTAAEEELR 19 0 F8VS81;Q12792-4;Q12792;Q12792-3 F8VS81 TWF1 Twinfilin-1 1 0 YLLS(0.042)QS(0.102)S(0.855)PAPLT(0.001)AAEEELR;YLLSQS(0.226)S(0.774)PAPLTAAEEELR ; 268.82 6.76E-64 36897900 1444.09 1533.17 1123.1 1110.12 1794.18 1949.11 1802.87 1532.78 1578.58 1659.06 TRUE FALSE FALSE 1595.986012 1582.845714 1276.150219 1131.607978 1656.710316 1783.034863 1600.006323 1493.573707 1567.594533 1730.590196 0.922220648 0.91462769 0.737407517 0.653885582 0.957309431 1.030304498 0.924543735 0.863042973 0.905814986 1 10.75704842 -7.916084895 1.135155768 0.981137976 0.869824318 0.08151786 0.104615182 0.587128417 1.590429858 0.028178894 0.024197031 1.21E-08 7.916084895 -0.111313658 YLMEEDEDAYKK ddPTM_HeLa_SAHA_4h_R1 2 YLMEEDEDAYKK 12 1 P46777;A0A2R8Y6J3 P46777 RPL5 60S ribosomal protein L5 0 0 ; ; 162.68 0.00028806 41330000 4531.2 4710.8 4919.1 5061.3 4683.2 6785.2 5116.4 7274.2 5644.9 4863.6 FALSE FALSE TRUE 5007.812406 4863.433011 5589.44933 5159.26878 4324.374228 6207.062788 4540.689206 7088.136497 5605.616681 5073.293598 0.987092962 0.958634252 1.101739772 1.016946621 0.852380045 1.223477938 0.895018023 1.397146915 1.104926528 1 12.30870694 -4.251851874 24.87015971 1.001090698 1.397147141 0.549247845 0.102949294 568.0573631 1473518.897 0.01166177 0.201574265 5.60E-05 4.251851874 0.396056442 YLNFFTK ddPTM_HeLa_SAHA_4h_R1 2 YLNFFTK 7 0 P12004 P12004 PCNA Proliferating cell nuclear antigen 0 0 ; ; 108.46 0.013715 6811300 2235.02 1915.05 2769.54 2382.19 2637.93 1690.83 3042.6 808.2 697.12 1770.82 FALSE FALSE TRUE 2470.109658 1977.098877 3146.958488 2428.300732 2435.812373 1546.761772 2700.23864 787.5274143 692.2686852 1847.168716 1.337240955 1.070340169 1.703665973 1.314606896 1.318673466 0.837368973 1.461825667 0.42634298 0.37477285 1 10.85109993 -4.249493668 24.60265553 1.2072406 0.426342385 0.269635158 0.352646373 1003.485571 2066671.016 0.033213807 0.728944668 5.63E-05 4.249493668 -0.780898215 YLPHSAGR ddPTM_HeLa_SAHA_4h_R1 3 YLPHSAGR 8 0 M0R0F0;M0R0R2;P46782 M0R0F0 RPS5 "40S ribosomal protein S5;40S ribosomal protein S5, N-terminally processed" 0 0 ;; ;; 161.9 1.54E-05 9320800 6936.36 7180.48 5652.72 6924.07 7102.6 6933.26 8262.95 6203.91 5427.65 6086.5 FALSE FALSE TRUE 7665.95817 7413.132263 6423.043243 7058.095387 6558.400322 6342.507243 7333.181119 6045.222965 5389.878542 6348.918802 1.207443095 1.167621212 1.011675128 1.111700371 1.032994834 0.998990134 1.155028336 0.952165739 0.848944318 1 12.63229521 -6.745699876 24.99931337 1.105920992 1.049380794 0 0.109587988 517.4056855 821801.3377 0.014749224 0.020818839 1.80E-07 6.745699876 -0.056540198 YLQDQLS(ph)PLTR ddPTM_HeLa_SAHA_4h_R1 1 YLQDQLSPLTR 11 0 H0YC17;E7EMV7;A0A0A0MRZ4;Q15025-7;Q15025-8;Q15025-5;Q15025-6;Q15025-4;Q15025-3;Q15025-2;Q15025 H0YC17 TNIP1 TNFAIP3-interacting protein 1 1 0 YLQDQLS(0.999)PLT(0.001)R 124.48 0.0018106 7014100 796.93 766.68 752.67 951.41 753.63 1105.5 872.88 875.77 1148.6 890 TRUE FALSE FALSE 880.7547538 791.520935 855.2399479 969.8259163 695.8870322 1011.305181 774.6612451 853.3690715 1140.606799 928.3722556 0.948708612 0.852590036 0.921225233 1.044651981 0.749577584 1.089331542 0.834429552 0.919210011 1.228609313 1 9.858559598 -8.205919109 0.946538809 0.992081728 0.918408262 0.17603506 0.11922243 0.788076998 1.489823605 0.026551833 0.018223286 6.22E-09 8.205919109 -0.073673465 YLS(ph)FTPPEK ddPTM_HeLa_SAHA_4h_R1 3 YLSFTPPEK 9 0 Q13177 Q13177 PAK2 Serine/threonine-protein kinase PAK 2;PAK-2p27;PAK-2p34 1 0 YLS(0.9)FT(0.1)PPEK;YLS(0.893)FT(0.107)PPEK;YLS(0.918)FT(0.082)PPEK ;; 121.36 0.0034297 84410000 6679.2 7831.6 5805.8 6063.1 9101.1 9648.7 7390.6 6490.1 8764.9 6458.8 TRUE FALSE FALSE 7381.748901 8085.348979 6596.984189 6180.460068 8403.775684 8826.576478 6558.990237 6324.09264 8703.904347 6737.270477 1.095658684 1.200092679 0.979177578 0.91735371 1.247356138 1.310111641 0.97353821 0.938672814 1.291903654 1 12.7179485 -5.760588853 24.99999329 1.045645809 1.120906131 0 0.147198212 52.29802262 1537123.741 0.019195497 0.036678026 1.74E-06 5.760588853 0.075260322 YLSEVASGDNK ddPTM_HeLa_SAHA_4h_R1 3 YLSEVASGDNK 11 0 P31946-2;P31946 P31946-2 YWHAB "14-3-3 protein beta/alpha;14-3-3 protein beta/alpha, N-terminally processed" 0 0 ;; ;; 162.36 0.0011176 12240500 4277.36 4810 3920.99 4515.1 4484.6 7703.6 4449.1 8353.7 10059.6 6882.4 FALSE FALSE TRUE 4727.27235 4965.847156 4455.322098 4602.496289 4140.990917 7047.209941 3948.475559 8140.02445 9989.594425 7179.133946 0.658473903 0.6917056 0.620593254 0.641093525 0.576809257 0.981623967 0.549993298 1.133844905 1.391476256 1 12.8095941 -9.305614037 1.002055186 1.001949422 0.717723038 0.347976222 0.218133792 0.556200637 0.989643168 0.113400758 0.029456745 4.95E-10 9.305614037 -0.284226384 YLSFT(ph)PPEK ddPTM_HeLa_SAHA_4h_R1 1 YLSFTPPEK 9 0 Q13177 Q13177 PAK2 Serine/threonine-protein kinase PAK 2;PAK-2p27;PAK-2p34 1 0 Y(0.002)LS(0.406)FT(0.592)PPEK 102.52 0.015723 17382000 2710.7 3310.9 2101.8 2883.5 3308.4 3923.2 2806.7 2753.2 3433.3 2969.2 TRUE FALSE FALSE 2995.823863 3418.175332 2388.222358 2939.314312 3054.911107 3588.921289 2490.882729 2682.777131 3409.407386 3097.216743 0.967263228 1.103628069 0.77108661 0.949017959 0.986340757 1.158756905 0.804232618 0.866189664 1.100797157 1 11.59675663 -4.693965858 24.99998483 0.98441895 0.835209617 0.284299055 0.10362092 50.73235184 18795.70314 0.012555286 0.046977573 2.02E-05 4.693965858 -0.149209333 YLSFT(ph)PPEKDGFPSGTPALNAK ddPTM_HeLa_SAHA_4h_R1 2 YLSFTPPEKDGFPSGTPALNAK 22 1 Q13177 Q13177 PAK2 Serine/threonine-protein kinase PAK 2;PAK-2p27;PAK-2p34 1 0 Y(0.013)LS(0.202)FT(0.784)PPEKDGFPSGTPALNAK;YLS(0.162)FT(0.838)PPEKDGFPSGTPALNAK ; 117.27 2.65E-05 1472300000 3605.8 4146.8 3428 3983.8 4175.2 4105.7 3690 4370.9 3894.4 3892.7 TRUE FALSE FALSE 3985.074588 4281.159041 3895.149988 4060.91221 3855.297078 3755.871262 3274.791488 4259.098707 3867.298553 4060.533347 0.98141654 1.054334166 0.959270533 1.000093304 0.949455835 0.924969934 0.806492943 1.0489013 0.952411475 1 11.98745352 -5.544023541 2.67123265 0.994281511 0.915463036 0.182640474 0.060533564 0.262867705 3.772733171 0.00781375 0.018131887 2.86E-06 5.544023541 -0.078818474 YLSPGWGS(ph)ASEEEPSR ddPTM_HeLa_SAHA_4h_R1 1 YLSPGWGSASEEEPSR 16 0 Q9BRS8;H0YMC6;Q9BRS8-2 Q9BRS8 LARP6 La-related protein 6 1 0 YLSPGWGS(0.595)AS(0.405)EEEPSR 187.75 4.22E-26 0 503.77 408.95 473.86 352.03 570.09 530.8 443.79 321.01 497.26 344.58 TRUE FALSE FALSE 556.75884 422.2002483 538.435173 358.8440497 526.4098274 485.5728538 393.8535812 312.799029 493.7995272 359.4365301 1.548976783 1.174616971 1.497997916 0.998351641 1.464541813 1.350927947 1.095752791 0.870248299 1.373815641 1 8.48959323 -4.461687332 3.117613043 1.275985183 0.874405676 0.34605122 0.184474734 0.312283234 5.347302386 0.031617757 0.235886609 3.45E-05 4.461687332 -0.401579506 YLSVPPS(ph)PNISTSESR ddPTM_HeLa_SAHA_4h_R1 2 YLSVPPSPNISTSESR 16 0 Q9BTC0;Q9BTC0-1 Q9BTC0 DIDO1 Death-inducer obliterator 1 1 0 YLSVPPS(0.539)PNIS(0.121)T(0.121)S(0.2)ES(0.019)R;YLSVPPS(0.995)PNIS(0.001)T(0.001)S(0.001)ES(0.002)R ; 119 0.00024568 0 2171.8 2449.27 1508.86 1986.39 2314.35 2171.89 2391.92 1935.85 2366.26 2553.77 TRUE FALSE FALSE 2400.239889 2528.627955 1714.479583 2024.839451 2137.025003 1986.832753 2122.774866 1886.33376 2349.793004 2663.875523 0.901033051 0.949229021 0.64360349 0.760110386 0.802224047 0.745842941 0.796874647 0.708116331 0.882095648 1 11.37931095 -6.78203083 24.96118515 0.951657088 0.748880356 0.754390326 0.05270085 80.04270004 97028.35431 0.008789017 0.011558298 1.65E-07 6.78203083 -0.202776731 YLSVPPSPNISTS(ph)ESRSPPEGDTTLFLSR ddPTM_HeLa_SAHA_4h_R1 1 YLSVPPSPNISTSESRSPPEGDTTLFLSR 29 1 Q9BTC0;Q9BTC0-1 Q9BTC0 DIDO1 Death-inducer obliterator 1 1 0 YLSVPPS(0.164)PNIS(0.204)T(0.204)S(0.272)ES(0.038)RS(0.107)PPEGDT(0.009)T(0.003)LFLSR 74.471 6.74E-05 146660000 3557.1 3562.6 2931.5 3409.6 3687.1 4119.8 4212.7 4367.1 3419.1 4047.9 TRUE FALSE FALSE 3931.252099 3678.030578 3330.989553 3475.597738 3404.595195 3768.769863 3738.675909 4255.395905 3395.306205 4222.424779 0.931041358 0.871070716 0.788880733 0.823128397 0.806312811 0.892560569 0.885433395 1.007808576 0.804112893 1 12.04385601 -7.705707617 1.318296205 0.980040623 0.863028003 0 0.080738716 0.278656149 1.003111179 0.013690243 0.013332496 1.97E-08 7.705707617 -0.11701262 YLTAEAFGFK ddPTM_HeLa_SAHA_4h_R1 2 YLTAEAFGFK 10 0 Q16658 Q16658 FSCN1 Fascin 0 0 ; ; 211.48 1.40E-33 6251600 3331.8 3231.1 4303.6 3763.7 3968.5 3039.04 4230.5 2412.35 2521.77 2917.2 FALSE FALSE TRUE 3682.254011 3335.78976 4890.072196 3836.551856 3664.434387 2780.096695 3754.473006 2350.64558 2504.220797 3042.974768 1.210083649 1.096226559 1.607003859 1.260789901 1.204227661 0.913611484 1.233816673 0.772482771 0.822951548 1 11.57126666 -4.252805804 23.80847702 1.146839893 0.772482392 0.232420725 0.205673627 623.3151573 1718814.946 0.026236532 0.397006943 5.59E-05 4.252805804 -0.374357501 YLTNQK(ac)NSNSK ddPTM_HeLa_SAHA_4h_R1 2 YLTNQKNSNSK 11 1 B1AK63;Q9HAF1-2;Q9HAF1;Q9HAF1-4;Q9HAF1-3 B1AK63 MEAF6 Chromatin modification-related protein MEAF6 0 1 ; YLTNQK(1)NSNSK;YLTNQK(1)NSNSK 237.68 5.74E-56 33023000 6921.5 6732.2 5812.4 4106.8 3635.2 3752.3 2975.3 2637.2 6288.5 6467.8 FALSE TRUE FALSE 7649.535127 6950.327697 6604.483602 4186.293053 3356.671761 3432.58293 2640.511413 2569.744243 6244.737816 6746.658511 1.133825747 1.030188157 0.978926619 0.620498732 0.497531001 0.50878267 0.391380623 0.380891406 0.92560455 1 12.71995742 -6.155221792 1.687497952 1.064830559 0.432104724 0.947126893 0.064013557 0.049472745 0.275967555 0.00987957 0.018720322 6.99E-07 6.155221792 -0.632725835 down EK(ac)EMNGETR ddPTM_HeLa_SAHA_4h_R1 1 EKEMNGETR 9 1 Q9NR30;Q9NR30-2 Q9NR30 DDX21 Nucleolar RNA helicase 2 0 1 EK(1)EMNGETR 99.973 0.0071648 683940 253.72 204.07 264.5 373.8 341.5 309.69 406.07 518.01 197.6 199.01 FALSE TRUE FALSE 280.4074337 210.6820019 300.5446825 381.0354395 315.3343438 283.3026697 360.3779349 504.7600543 196.2248855 207.590295 1.350773328 1.014893311 1.447778098 1.835516634 1.519022572 1.364720204 1.736005697 2.431520482 0.945250767 1 7.697595188 -1 0.245887219 1.074339208 7.921492825 0.719881992 0.228268673 20.85746695 0.259103737 0.134664972 59.42991333 0.1 1 6.847153616 EQQSNIAVFQGK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 EQQSNIAVFQGKK 13 1 Q8NEF9 Q8NEF9 SRFBP1 Serum response factor-binding protein 1 0 1 ; EQQSNIAVFQGK(1)K;EQQSNIAVFQGK(1)K 225.13 1.34E-43 5947400 2467.3 2180.87 1908.1 3232.7 3376.7 3190 3654.2 4322.7 2385.2 1915.14 FALSE TRUE FALSE 2726.821934 2251.531619 2168.125931 3295.273583 3117.977976 2918.194054 3243.019799 4212.131593 2368.601199 1997.711058 1.364973139 1.127055692 1.085305066 1.649524625 1.56077525 1.460768834 1.623367797 2.10847889 1.18565755 1 10.96413222 -1 0.223622618 1.065601411 5.963274918 0.749819373 0.159869184 19.71809379 0.237380064 0.125193714 35.3783524 0.1 1 4.897673507 YLTTAVITNK ddPTM_HeLa_SAHA_4h_R1 1 YLTTAVITNK 10 0 E5RGA2;P60228;E5RHS5 E5RGA2 EIF3E Eukaryotic translation initiation factor 3 subunit E 0 0 148.94 4.47E-05 1117600 467.15 615.09 575.68 722.1 445.67 522.9 614.64 473.27 629.3 529.09 FALSE FALSE TRUE 516.2869804 635.0193196 654.1306724 736.0772897 411.5228609 478.3459782 545.4790896 461.1644387 624.9206501 551.9016592 0.935469158 1.150602302 1.185230487 1.333710956 0.745645269 0.866723211 0.988362837 0.835591687 1.132304351 1 9.108267413 YLTVAAVFR ddPTM_HeLa_SAHA_4h_R1 2 YLTVAAVFR 9 0 P68371;P04350;P07437;Q5JP53;Q5ST81 P68371;P04350;P07437 TUBB4B;TUBB4A;TUBB Tubulin beta-4B chain;Tubulin beta-4A chain;Tubulin beta chain 0 0 ; ; 110.12 0.0083135 4106100 345.89 482.35 3984.1 958.71 872.63 139.68 1468.22 0 143.1 153.87 FALSE FALSE TRUE 382.2722972 497.9784565 4527.0324 977.2672184 805.7692779 127.7784782 1303.012021 0 142.1041554 160.5040887 2.381698188 3.102590473 28.20509082 6.088737216 5.020241443 0.796107309 8.118248151 0 0.885361592 1 7.326466239 -2.532025034 18.64451515 4.174916099 3.796626338 0 8.071489938 0 0 1.083092221 0 0.00293748 2.532025034 -0.378289761 YLVLDEADR ddPTM_HeLa_SAHA_4h_R1 4 YLVLDEADR 9 0 A0A2R8Y5G6;A0A2R8Y4A4;A0A2R8YFS5;A0A2R8YCW1;A0A2R8YFR4;A0A0D9SFB3;A0A2R8Y645;A0A2U3TZJ9;O00571-2;O00571;A0A2R8YF78;A0A0D9SF53;A0A0D9SG12;F6S8Q4;A0A2R8YDT5;A0A2R8Y7T2;A0A2R8YDH3;O15523-2;O15523;D6RCM4;Q9NQI0-2;Q9NQI0-4;Q9NQI0;Q9NQI0-3 A0A2R8Y5G6 DDX3X;DDX3Y;DDX4 ATP-dependent RNA helicase DDX3X;ATP-dependent RNA helicase DDX3Y;Probable ATP-dependent RNA helicase DDX4 0 0 ;;; ;;; 154.12 0.0014999 33196000 8177.8 8718.1 7090.1 8728.3 9448 9196.3 9403.3 6772.7 7903.3 8210.4 FALSE FALSE TRUE 9037.978525 9000.57216 8056.301904 8897.248868 8724.096281 8412.723503 8345.215936 6599.464141 7848.300292 8564.390525 1.055297338 1.050929676 0.940674282 1.038865386 1.01864765 0.982290973 0.974408618 0.770570202 0.916387485 1 13.06413487 -3.589316847 1.185038897 1.022325405 2.52E-19 0.668932648 0.046488877 1.897891156 0.700561699 0.005111666 3.537636095 0.000257444 3.589316847 -1.022325405 YLYTLVITDKEK ddPTM_HeLa_SAHA_4h_R1 2 YLYTLVITDKEK 12 1 J3KT73;J3QL01;P63173 J3KT73 RPL38 60S ribosomal protein L38 0 0 ; ; 142.1 6.78E-05 3122340 1020.19 1202.01 1750.1 1703.26 1722.52 903.02 1678 519.24 360.44 1003.88 FALSE FALSE TRUE 1127.498265 1240.955913 1988.594514 1736.22906 1590.54089 826.0776157 1489.187024 505.9585927 357.9316687 1047.16218 1.076717902 1.185065634 1.899032024 1.658032628 1.518905973 0.788872662 1.422116891 0.483171186 0.341811112 1 10.03226918 -3.018795887 14.14733979 1.151852173 1.089774994 0 0.478239498 0 0 0.054194211 0 0.000957644 3.018795887 -0.062077178 YMACCLLYR ddPTM_HeLa_SAHA_4h_R1 1 YMACCLLYR 9 0 Q9BQE3;F5H5D3;A0A1W2PQM2;A6NHL2-2;A6NHL2;P68363;P68363-2;P68366-2;P68366 Q9BQE3;P68363;P68366-2 TUBA1C;TUBAL3;TUBA1B;TUBA4A Tubulin alpha-1C chain;Tubulin alpha chain-like 3;Tubulin alpha-1B chain;Tubulin alpha-4A chain 0 0 163.84 0.00039732 74273000 684.57 798.81 802.33 610.53 656.63 715.14 830.38 820.12 756.78 631.68 FALSE FALSE TRUE 756.5762135 824.6919681 911.667354 622.347691 606.3191513 654.2060487 736.943457 799.1425179 751.5135064 658.9148162 1.148215513 1.251591174 1.383589095 0.944504017 0.920178354 0.992853754 1.118419921 1.212816131 1.140532111 1 9.363948157 YMEAFKPFLGIGLK ddPTM_HeLa_SAHA_4h_R1 1 YMEAFKPFLGIGLK 14 1 Q14974;Q14974-2;J3KTM9 Q14974 KPNB1 Importin subunit beta-1 0 0 105.65 0.00358 648580 373.63 397.41 566.65 403.29 375.95 417.57 588.54 157.65 375.35 362.04 FALSE FALSE TRUE 412.9301177 410.2863448 643.870111 411.0962611 347.1447922 381.9906868 522.3159302 153.6175413 372.7379088 377.6493162 1.093422125 1.086421522 1.704941816 1.088566147 0.919225264 1.011495773 1.383071299 0.406772989 0.986994793 1 8.560903364 -4.245967375 24.17589856 1.101223567 0.406772179 0.480849522 0.225571054 1280.598723 2000957.978 0.030823501 0.960597544 5.68E-05 4.245967375 -0.694451388 YMEDSTY(ph)YK ddPTM_HeLa_SAHA_4h_R1 2 YMEDSTYYK 9 0 Q05397-5;Q05397;Q05397-7;Q05397-2;E7ESA6;H0YBP1;H0YB16;H0YBZ1;E9PEI4;Q05397-3;Q05397-4 Q05397-5 PTK2 Focal adhesion kinase 1 1 0 YMEDS(0.173)T(0.363)Y(0.46)Y(0.004)K;YMEDS(0.001)TY(0.987)Y(0.011)K ; 164.57 0.00015109 36535000 2869.2 2946.7 2505.09 3496.6 3683.6 3746.4 3670.9 4049.6 3390.1 2415.91 TRUE FALSE FALSE 3170.99562 3042.175013 2846.470619 3564.281749 3401.363364 3427.185643 3257.840671 3946.017096 3366.508018 2520.071703 1.258295792 1.207177958 1.129519694 1.414357276 1.349708962 1.359955607 1.292757133 1.565835246 1.33587787 1 11.29924907 -9.000869177 0.050441358 9.37E-10 2.236980753 0.243754332 0.128933736 40.64655997 0.603447666 15.91227881 10.9519509 9.98E-10 9.000869177 2.236980752 YMLTHQELAS(ph)DGEIETK ddPTM_HeLa_SAHA_4h_R1 10 YMLTHQELASDGEIETK 17 0 Q02241-2;H7BYN4;Q02241-3;Q02241;A0A2U3TZL8 Q02241-2 KIF23 Kinesin-like protein KIF23;Kinesin-like protein 1 0 YMLTHQELAS(1)DGEIETK;YMLTHQELAS(1)DGEIETK;YMLTHQELAS(0.997)DGEIET(0.003)K;YMLTHQELAS(1)DGEIETK;YMLTHQELAS(0.999)DGEIET(0.001)K;YMLTHQELAS(1)DGEIETK;YMLTHQELAS(1)DGEIETK;YMLTHQELAS(1)DGEIETK;YMLTHQELAS(0.992)DGEIET(0.008)K;YMLTHQELAS(1)DGEIETK ;;;;;;;;; 240.13 1.89E-36 173770900 23815.69 20652.16 18180.91 19587.43 23575.71 23759.03 23393.11 23819.04 20940.53 21604.01 TRUE FALSE FALSE 26320.73354 21321.30353 20658.50973 19966.57303 21769.34419 21734.62698 20760.8557 23209.78345 20794.80315 22535.4646 1.167969421 0.946122208 0.916711064 0.886006718 0.966003789 0.96446323 0.921252615 1.029922562 0.922759016 1 14.45990957 -7.22961519 22.159062 1.079318879 0.944072373 0.122255411 0.071814783 110.9925645 77283.45075 0.011641056 0.014255834 5.89E-08 7.22961519 -0.135246507 YMNSDTTS(ph)PELR ddPTM_HeLa_SAHA_4h_R1 4 YMNSDTTSPELR 12 0 Q96ST3 Q96ST3 SIN3A Paired amphipathic helix protein Sin3a 1 0 YMNS(0.007)DT(0.011)T(0.096)S(0.885)PELR;YMNSDT(0.002)T(0.063)S(0.935)PELR;YMNSDT(0.002)T(0.071)S(0.927)PELR;YMNSDT(0.001)T(0.073)S(0.926)PELR ;;; 145.6 0.00048478 77823000 8351.8 8411.5 6551.9 8725.3 9366.5 10372.7 9046.3 8795 9455.8 8756.8 TRUE FALSE FALSE 9230.280643 8684.038119 7444.758811 8894.190798 8648.840794 9488.887605 8028.386515 8570.036635 9389.996318 9134.348503 1.010502352 0.950701423 0.815028987 0.973708283 0.946848129 1.038813836 0.878922729 0.938220896 1.027987526 1 13.15708612 -7.18643638 5.106060112 1.00494178 0.933140075 0.295119659 0.055347503 0.217703357 10.46226801 0.008987125 0.011011867 6.51E-08 7.18643638 -0.071801705 YMS(ph)QMSVPEQAELEK ddPTM_HeLa_SAHA_4h_R1 2 YMSQMSVPEQAELEK 15 0 A0A5H1ZRS1;A0A4W8VX11;Q15154-5;Q15154-4;Q15154-2;Q15154;E7EV93;E9PGW9;E5RGQ4;Q15154-3 A0A5H1ZRS1 PCM1 Pericentriolar material 1 protein 1 0 Y(0.245)MS(0.568)QMS(0.187)VPEQAELEK;Y(0.01)MS(0.926)QMS(0.064)VPEQAELEK ; 99.747 0.0070404 22224900 3791.21 5120.2 4409.7 2060.71 4271 5483 5156.3 2531.48 2616.29 4165.9 TRUE FALSE FALSE 4189.986862 5286.097839 5010.630951 2100.598022 3943.756903 5015.817553 4576.099553 2466.728407 2598.083025 4345.512336 0.964210095 1.216449852 1.153058734 0.48339479 0.90754705 1.154252287 1.053063298 0.567649616 0.597877264 1 12.08531057 YMSQMS(ph)VPEQAELEK ddPTM_HeLa_SAHA_4h_R1 4 YMSQMSVPEQAELEK 15 0 A0A5H1ZRS1;A0A4W8VX11;Q15154-5;Q15154-4;Q15154-2;Q15154;E7EV93;E9PGW9;E5RGQ4;Q15154-3 A0A5H1ZRS1 PCM1 Pericentriolar material 1 protein 1 0 Y(0.003)MS(0.019)QMS(0.978)VPEQAELEK;YMS(0.012)QMS(0.988)VPEQAELEK;YMS(0.22)QMS(0.78)VPEQAELEK;YMS(0.231)QMS(0.769)VPEQAELEK ;;; 208.38 5.58E-13 85568400 7393.4 10030.64 7947.53 4575.31 8508.6 11958.1 10834.68 5416.02 5122.63 9232.76 TRUE FALSE FALSE 8171.071734 10355.63932 9030.577999 4663.871741 7856.672906 10939.20261 9615.533291 5277.486051 5086.981201 9630.829468 0.848428659 1.075259338 0.937673959 0.484264804 0.815783618 1.135852591 0.998411749 0.547978351 0.52819762 1 13.23344434 -13.52287875 0.186983849 1.615638124 0.82890508 0 0.2454099 125.1496207 1.467252623 28.12707628 0.249030221 3.00E-14 13.52287875 -0.786733044 YNAPTSHVT(ph)PSVK ddPTM_HeLa_SAHA_4h_R1 2 YNAPTSHVTPSVK 13 0 O60271-3;O60271;A0A087X2D8;O60271-5;O60271-9;O60271-4;O60271-2 O60271-3 SPAG9 C-Jun-amino-terminal kinase-interacting protein 4 1 0 YNAPTS(0.001)HVT(0.703)PS(0.296)VK;YNAPTSHVT(0.978)PS(0.022)VK ; 92.427 0.010318 26534000 9612.5 10360 8470.5 8518.9 12379.6 10053 9357.6 11186.4 10073 10859.3 TRUE FALSE FALSE 10623.58685 10695.6708 9624.815628 8683.795628 11431.07772 9196.427843 8304.65822 10900.26809 10002.90117 11327.49757 0.937858233 0.944221858 0.849685958 0.766612006 1.009144134 0.811867563 0.73314147 0.96228386 0.883063635 1 13.46754156 -7.294500039 0.642296952 0.988513252 0.845288037 0.110679531 0.086614558 0.546518193 0.490496656 0.02306337 0.026773506 5.08E-08 7.294500039 -0.143225215 YNDWS(ph)DDDDDSNESK ddPTM_HeLa_SAHA_4h_R1 4 YNDWSDDDDDSNESK 15 0 Q9UH62;H3BV87 Q9UH62 ARMCX3 Armadillo repeat-containing X-linked protein 3 1 0 YNDWS(0.953)DDDDDS(0.047)NESK;YNDWS(0.998)DDDDDS(0.002)NESK;YNDWS(0.988)DDDDDS(0.011)NESK;YNDWS(0.935)DDDDDS(0.06)NES(0.005)K ;;; 171.29 6.98E-07 129322000 3260.06 4047 3023.38 3638.34 3568.2 3409.16 4151.3 3745.19 3796.38 3711.44 TRUE FALSE FALSE 3602.968068 4178.125455 3435.390481 3708.765332 3294.805287 3118.680389 3684.184798 3649.393463 3769.960682 3871.458342 0.930648802 1.079212298 0.887363411 0.957976298 0.851050172 0.805557005 0.951627132 0.942640509 0.973783094 1 11.9186614 YNGLIHR ddPTM_HeLa_SAHA_4h_R1 1 YNGLIHR 7 0 H0YMF4;H0YKD8;P46779-4;P46779-5;P46779;P46779-2;P46779-3;H0YLP6 H0YMF4 RPL28 60S ribosomal protein L28 0 0 73.039 0.022033 0 565.99 436.37 1129.5 586.47 727.95 356.53 674.25 367.69 413.47 516.64 FALSE FALSE TRUE 625.5234251 450.5086743 1283.422378 597.8219749 672.1746283 326.1516382 598.3816155 358.2850222 410.5926286 538.9148788 1.160709139 0.835955161 2.38149368 1.109306865 1.247274207 0.605200656 1.110345324 0.66482674 0.761887721 1 9.073913608 -5.277638113 23.81086674 1.171954047 0.825146326 0.155055513 0.44031185 679.1039522 998229.6576 0.059842226 0.134262406 5.28E-06 5.277638113 -0.346807721 YNILGTNTIMDK ddPTM_HeLa_SAHA_4h_R1 2 YNILGTNTIMDK 12 0 Q00839;Q00839-2;A0A1W2PPS1;A0A1X7SBS1;A0A1W2PP35;Q5RI18;A0A1W2PP34;A0A1W2PPH7;A0A1W2PPL4;A0A1W2PQL0;A0A1W2PQ74;A0A1W2PQD4;A0A1W2PRZ7 Q00839 HNRNPU Heterogeneous nuclear ribonucleoprotein U 0 0 ; ; 158.3 1.18E-06 1702570 579.25 1002.56 621.42 829.84 774.69 922.28 769.63 656.29 1129.58 989.86 FALSE FALSE TRUE 640.1781727 1035.043602 706.1038814 845.9027532 715.3334196 843.6965554 683.0292068 639.5030521 1121.719161 1032.537709 0.620004642 1.002426926 0.683852876 0.819246354 0.692791569 0.817109679 0.661505339 0.619350796 1.086371133 1 10.01197876 -9.501952332 1.167802459 1.004506727 0.733496913 0.516935906 0.114804799 0.368671053 0.875140483 0.082990596 0.018761341 3.15E-10 9.501952332 -0.271009815 YNLDAS(ph)EEEDSNK ddPTM_HeLa_SAHA_4h_R1 4 YNLDASEEEDSNK 13 0 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 Y(0.001)NLDAS(0.818)EEEDS(0.181)NK;Y(0.025)NLDAS(0.962)EEEDS(0.013)NK;YNLDAS(0.999)EEEDS(0.001)NK;YNLDAS(0.882)EEEDS(0.118)NK ;;; 222.55 1.07E-16 78286000 7462 13548.5 6675.57 10209.1 11856.7 15316.1 10101.1 8645.6 24022.5 11018.8 TRUE FALSE FALSE 8246.887397 13987.48029 7585.281915 10406.71189 10948.24221 14011.08211 8964.497643 8424.458071 23855.32547 11493.87439 0.717502829 1.216950857 0.659941257 0.905413748 0.952528437 1.219004283 0.779936977 0.732951987 2.075481657 1 13.48857757 -6.001428114 24.69921501 0.876696382 0.931884299 0 0.422600818 222.8881311 3855020.59 0.028929342 0.051900598 9.97E-07 6.001428114 0.055187917 YNLDAS(ph)EEEDSNKK ddPTM_HeLa_SAHA_4h_R1 3 YNLDASEEEDSNKK 14 1 O95218-2;O95218 O95218-2 ZRANB2 Zinc finger Ran-binding domain-containing protein 2 1 0 YNLDAS(0.978)EEEDS(0.022)NKK;YNLDAS(1)EEEDSNKK;YNLDAS(0.716)EEEDS(0.284)NKK ;; 212.43 9.54E-17 109244000 5625.5 7528.9 5733.5 7244.4 7329.4 8428.3 6920 6033 10861.2 6201 TRUE FALSE FALSE 6217.215901 7772.8413 6514.831521 7384.625838 6767.822955 7710.161424 6141.343388 5878.684596 10785.61602 6468.355457 0.961174126 1.201671948 1.007185144 1.141654303 1.046297316 1.191981714 0.949444326 0.908837592 1.667443309 1 12.65918325 YNQLLR ddPTM_HeLa_SAHA_4h_R1 1 YNQLLR 6 0 P06733;A0A2R8Y6G6;P06733-2 P06733 ENO1 Alpha-enolase 0 0 105.42 0.023147 6089200 2013.9 2273.2 2426.9 2220.1 2220.2 1495.3 2482.8 1615.2 1227.1 1621.7 FALSE FALSE TRUE 2225.731242 2346.853172 2757.625293 2263.073246 2050.088756 1367.892028 2203.42881 1573.885523 1218.560511 1691.619423 1.315739942 1.387341112 1.630168852 1.337814649 1.211908972 0.808628707 1.30255587 0.930401662 0.720351454 1 10.72418932 -5.479309045 24.85521645 1.226330579 1.03732094 0.128257996 0.255098867 740.3625479 422354.0505 0.033739414 0.075438747 3.32E-06 5.479309045 -0.189009639 YNSNLAT(ph)PIAIK ddPTM_HeLa_SAHA_4h_R1 2 YNSNLATPIAIK 12 0 Q8IX90 Q8IX90 SKA3 Spindle and kinetochore-associated protein 3 1 0 YNSNLAT(1)PIAIK;YNSNLAT(1)PIAIK ; 154.13 0.00014074 2991800 2120 1845.16 1871.91 1861.65 2553.9 2312.4 2432.5 2401.4 2103.8 2260.3 TRUE FALSE FALSE 2342.991327 1904.944395 2127.004146 1897.684928 2358.220734 2115.370511 2158.788698 2339.975665 2089.159485 2357.752595 0.993739263 0.807949231 0.902132035 0.804870253 1.000198553 0.89719783 0.915612903 0.992460223 0.886080876 1 11.20319663 -7.466003606 24.86081961 0.997237948 0.902962917 0.051952264 0.069765163 205.6390322 89887.73299 0.009813817 0.011218402 3.42E-08 7.466003606 -0.094275031 YNTEGRVS(ph)PSPSQESLSSSK ddPTM_HeLa_SAHA_4h_R1 2 YNTEGRVSPSPSQESLSSSK 20 1 Q5JSH3-2;Q5JSH3;Q5JSH3-4;H7BY83;Q5JSH3-3 Q5JSH3-2 WDR44 WD repeat-containing protein 44 1 0 YNT(0.009)EGRVS(0.984)PS(0.003)PS(0.003)QESLSSSK;YNTEGRVS(0.995)PS(0.005)PSQESLSSSK ; 113.23 0.00022262 49491000 2605.7 3256.2 2755.7 3243.2 3014.2 3581.5 3420.7 2935.5 4242.5 3360 TRUE FALSE FALSE 2879.779481 3361.703016 3131.232445 3305.976826 2783.252647 3276.336051 3035.793833 2860.414161 4212.976097 3504.866043 0.821651797 0.959153067 0.893395755 0.943253404 0.794110991 0.934796369 0.866165438 0.81612653 1.202036268 1 11.77514359 -9.503039762 1.197354464 1.001347417 0.875819914 0.439342229 0.084733253 0.369812616 0.932280694 0.038931969 0.009015024 3.14E-10 9.503039762 -0.125527503 YNVST(ph)TPYLQSVK ddPTM_HeLa_SAHA_4h_R1 1 YNVSTTPYLQSVK 13 0 Q8WWK9-6;Q8WWK9-5;Q8WWK9 Q8WWK9-6 CKAP2 Cytoskeleton-associated protein 2 1 0 YNVS(0.089)T(0.901)T(0.01)PYLQSVK 109 0.0048776 4148400 973.88 753.23 712.15 743.74 851.75 933.23 862.95 812.62 933.78 829.84 TRUE FALSE FALSE 1076.317167 777.6351462 809.1980933 758.1361632 786.489099 853.7135538 765.8485948 791.8343571 927.281749 865.6184635 1.243408282 0.898357855 0.934820741 0.875831784 0.908586325 0.986246932 0.88474152 0.914761399 1.071236102 1 9.757587462 -7.239412182 24.86266351 1.114942801 0.915394869 0.654737458 0.06313856 447.4761014 505078.3401 0.015367028 0.018811795 5.76E-08 7.239412182 -0.199547932 YNVTT(ph)S(ph)KQLYTVAVS(ph)CLLLAS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 YNVTTSKQLYTVAVSCLLLASK 22 1 E5RFJ6;E7EN43;B4DZA8 E5RFJ6 CCNJL 4 0 Y(0.087)NVT(0.438)T(0.465)S(0.48)KQLY(0.476)T(0.054)VAVS(1)CLLLAS(1)K 56.156 0.0089093 68189000 3241.7 2619.1 2890.9 3179.6 3698.9 4295.8 3654.6 4041.6 2945.3 2855.6 TRUE FALSE FALSE 3582.676879 2703.960558 3284.856797 3241.145756 3415.491081 3929.773672 3243.37479 3938.221724 2924.803417 2978.718891 1.202757632 0.907759563 1.102775024 1.088100581 1.146630886 1.31928316 1.088848901 1.322119296 0.981899778 1 11.54047626 -5.529999891 4.289994769 1.082952196 1.22959972 0.411935582 0.099622442 0.201959049 8.960329923 0.015235115 0.032942713 2.95E-06 5.529999891 0.146647523 YNVTTS(ph)KQLY(ph)TVAVS(ph)CLLLAS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 YNVTTSKQLYTVAVSCLLLASK 22 1 E5RFJ6;E7EN43;B4DZA8 E5RFJ6 CCNJL 4 0 Y(0.302)NVT(0.397)T(0.421)S(0.439)KQLY(0.392)T(0.049)VAVS(1)CLLLAS(1)K 49.793 0.009067 155970000 1801.8 1816 1597.1 2036.8 2009.8 2707.3 2259.6 2340.5 2265 1828.2 TRUE FALSE FALSE 1991.321591 1874.839592 1814.744471 2076.225209 1855.809558 2476.622809 2005.343861 2280.633399 2249.237681 1907.022649 1.044204479 0.983123925 0.951611388 1.088726036 0.973145001 1.298685577 1.051557443 1.195913116 1.179449904 1 10.89710626 -5.283873219 24.9984192 1.01555694 1.169002609 0.38786555 0.084588568 403.8008731 449961.8535 0.008649898 0.019353984 5.20E-06 5.283873219 0.153445669 YNVTTSKQLY(ph)T(ph)VAVS(ph)CLLLAS(ph)K ddPTM_HeLa_SAHA_4h_R1 2 YNVTTSKQLYTVAVSCLLLASK 22 1 E5RFJ6;E7EN43;B4DZA8 E5RFJ6 CCNJL 4 0 Y(0.05)NVT(0.123)T(0.132)S(0.138)KQLY(0.818)T(0.739)VAVS(1)CLLLAS(1)K;Y(0.28)NVT(0.353)T(0.373)S(0.387)KQLY(0.447)T(0.161)VAVS(1)CLLLAS(1)K ; 59.189 0.0049318 216690000 3965.8 4101.7 3536.9 4315 4830.9 5366.6 5006.1 4839.1 4374.4 3741.7 TRUE FALSE FALSE 4382.94104 4234.597771 4018.890313 4398.523065 4460.757486 4909.335488 4442.800453 4715.322829 4343.958194 3903.022998 1.122960598 1.084953323 1.029686557 1.126952894 1.142898079 1.257828993 1.138297277 1.208120688 1.112972738 1 11.93037625 -1.000000404 0.032299602 0.481660186 2.088651287 0.40127859 0.055502415 505.6127664 1.26341434 19.50817157 50.07307776 0.099999907 1.000000404 1.606991101 YPDVAS(ph)PTLR ddPTM_HeLa_SAHA_4h_R1 3 YPDVASPTLR 10 0 A0A0A0MTL4;A0A0A0MTE8;Q8IVL1-4;Q8IVL1-8;Q8IVL1-9;Q8IVL1-10;Q8IVL1-13;Q8IVL1-12;Q8IVL1-11;Q8IVL1-3;Q8IVL1-2;Q8IVL1;Q8IVL1-5;E9PNV5 A0A0A0MTL4 NAV2 Neuron navigator 2 1 0 YPDVAS(0.69)PT(0.31)LR;YPDVAS(0.871)PT(0.129)LR;YPDVAS(0.725)PT(0.275)LR ;; 132.56 0.0014761 65742300 4874.5 5233.4 3814.6 4919.1 5845.4 6438.8 5530.8 6112.9 5520.7 4973.7 TRUE FALSE FALSE 5387.222275 5402.965594 4334.433822 5014.316294 5397.526715 5890.178016 4908.459828 5956.540869 5482.280999 5188.140548 1.038372462 1.041406944 0.835450347 0.966495847 1.040358615 1.135315815 0.946092301 1.148107075 1.056694773 1 12.34100185 -4.243107646 23.78202039 1.01008486 1.148107309 0.238473257 0.075595641 2274.258168 2950337.197 0.010103214 0.409173775 5.71E-05 4.243107646 0.138022449 YPDVASPT(ph)LRR ddPTM_HeLa_SAHA_4h_R1 1 YPDVASPTLRR 11 1 A0A0A0MTL4;A0A0A0MTE8;Q8IVL1-4;Q8IVL1-8;Q8IVL1-9;Q8IVL1-10;Q8IVL1-13;Q8IVL1-12;Q8IVL1-11;Q8IVL1-3;Q8IVL1-2;Q8IVL1;Q8IVL1-5;E9PNV5 A0A0A0MTL4 NAV2 Neuron navigator 2 1 0 YPDVAS(0.323)PT(0.677)LRR 91.307 0.019238 3656900 1916.6 1917.9 1566.8 2030.8 1898.5 2145.3 2205.8 2182 2122.2 1956.9 TRUE FALSE FALSE 2118.196782 1980.041218 1780.315344 2070.109071 1753.03734 1962.508371 1957.597579 2126.187599 2107.431437 2041.271536 1.037684965 0.970003835 0.872159981 1.014127241 0.85879674 0.961414656 0.959008904 1.041599592 1.032411122 1 10.99525239 -7.091291799 5.622800912 1.017512127 0.948446405 0.267236305 0.053018172 0.217835033 10.66323408 0.008380829 0.010332461 8.10E-08 7.091291799 -0.069065722 YPEGYRT(ph)LPR ddPTM_HeLa_SAHA_4h_R1 1 YPEGYRTLPR 10 1 B4DJX4;Q9HAU0-8;Q9HAU0;Q9HAU0-2;Q9HAU0-4;Q9HAU0-6;A0JP02;Q9HAU0-5;Q9HAU0-3 B4DJX4 PLEKHA5 Pleckstrin homology domain-containing family A member 5 1 0 YPEGY(0.002)RT(0.998)LPR 90.614 0.019323 11027000 1118.3 952.75 1279.5 1243.7 1128.6 1309.3 972.49 1177.6 662.89 776.56 TRUE FALSE FALSE 1235.927925 983.6197251 1453.863597 1267.773612 1042.126912 1197.740274 863.0628657 1147.478697 658.2768945 810.041302 1.525759146 1.214283423 1.794801812 1.565072804 1.286510835 1.478616302 1.065455383 1.416568136 0.812646087 1 9.661851659 -9.357436316 0.986307911 0.990208182 1.422708386 0.491767567 0.201520633 0.465512673 0.780642445 0.146751045 0.034866572 4.39E-10 9.357436316 0.432500204 YPES(ph)NRTPVKPSSVEEEDSFFR ddPTM_HeLa_SAHA_4h_R1 1 YPESNRTPVKPSSVEEEDSFFR 22 2 Q9UHB7;Q9UHB7-2 Q9UHB7 AFF4 AF4/FMR2 family member 4 1 0 Y(0.122)PES(0.434)NRT(0.434)PVKPS(0.007)S(0.003)VEEEDSFFR 56.428 0.0068347 52846000 1335.2 1233 1298.2 1473.4 1768.2 2228.2 1629.1 1418.5 1595.2 1664.3 TRUE FALSE FALSE 1475.642462 1272.950009 1475.111935 1501.919788 1632.720898 2038.344824 1445.78938 1382.216824 1584.098873 1736.056118 0.849996983 0.733242431 0.84969139 0.865133202 0.940477028 1.174123811 0.832801063 0.796182111 0.912469855 1 10.76159787 -4.543028446 24.99829489 0.920403752 0.805336373 0.123279994 0.109224841 326.5798772 405164.2478 0.016510205 0.061789484 2.86E-05 4.543028446 -0.115067379 YPESNRT(ph)PVKPSSVEEEDSFFR ddPTM_HeLa_SAHA_4h_R1 1 YPESNRTPVKPSSVEEEDSFFR 22 2 Q9UHB7;Q9UHB7-2 Q9UHB7 AFF4 AF4/FMR2 family member 4 1 0 Y(0.004)PES(0.052)NRT(0.933)PVKPS(0.009)S(0.002)VEEEDSFFR 65.954 0.0081712 14526000 875.95 938.76 1124.6 1138.9 1176.2 1280.3 1327 955.96 972.88 919.55 TRUE FALSE FALSE 968.08644 969.1764399 1277.854631 1160.945056 1086.07981 1171.211237 1177.682468 931.5079274 966.1096489 959.1963007 1.009268321 1.010404689 1.332213886 1.21033104 1.132281066 1.221033939 1.227780452 0.971133778 1.007207438 1 9.905682284 -6.859987871 11.20297841 1.004710835 1.185202956 0.500204567 0.086038157 0.230728048 24.57173459 0.013060722 0.017170077 1.38E-07 6.859987871 0.180492121 YPGGS(ph)PIPADPR ddPTM_HeLa_SAHA_4h_R1 1 YPGGSPIPADPR 12 0 Q9BY89 Q9BY89 KIAA1671 Uncharacterized protein KIAA1671 1 0 Y(0.002)PGGS(0.998)PIPADPR 85.522 0.016578 6977700 983.8 1235 734.54 1122.1 1166.6 1428.2 944.67 1027.1 1236 1279.2 TRUE FALSE FALSE 1087.280598 1275.01481 834.6392859 1143.819868 1077.21536 1306.509325 838.3732454 1000.828269 1227.398575 1334.352572 0.814837563 0.955530672 0.625501313 0.857209625 0.807294401 0.979133516 0.628299643 0.750047843 0.919845775 1 10.3819242 -13.52287875 0.164204183 1.803755277 0.74263493 0.252325675 0.111140954 50.1778821 0.544771926 12.88585007 0.187273442 3.00E-14 13.52287875 -1.061120347 YPIEHGIITNWDDMEK ddPTM_HeLa_SAHA_4h_R1 6 YPIEHGIITNWDDMEK 16 0 P63267;P68133;P68032;P62736;A6NL76;F8WB63;B8ZZJ2;C9JFL5;F6UVQ4;F6QUT6 P63267 ACTG2;ACTA1;ACTC1;ACTA2 "Actin, gamma-enteric smooth muscle;Actin, alpha skeletal muscle;Actin, alpha cardiac muscle 1;Actin, aortic smooth muscle" 0 0 ;;;;; ;;;;; 146.84 3.50E-06 619836870 9571.28 9018.47 8939.79 10337.99 10756.11 7358.06 11341.33 4163.04 8527.43 8649.58 FALSE FALSE TRUE 10578.03115 9310.674345 10158.05802 10538.09675 9931.979176 6731.111893 10065.1737 4056.555465 8468.08692 9022.505724 1.172405036 1.031938868 1.125857753 1.167978948 1.10080054 0.746035758 1.115563016 0.449604089 0.938551571 1 13.13931244 -4.052814375 2.084970317 1.073519496 5.21E-77 0.639032146 0.129868295 0.720350763 2.019571521 0.017620811 1.775783979 8.85E-05 4.052814375 -1.073519496 YPRFLS(ph)AEAIGIMR ddPTM_HeLa_SAHA_4h_R1 1 YPRFLSAEAIGIMR 14 1 Q16512;Q16512-2 Q16512 PKN1 Serine/threonine-protein kinase N1 1 0 Y(0.271)PRFLS(0.729)AEAIGIMR 68.944 0.018596 4649300 1321.5 815.43 1291.6 1350.5 1158.5 1352.9 1234.8 1471.8 760.32 1232.7 TRUE FALSE FALSE 1460.501433 841.850467 1467.612522 1376.64088 1069.73598 1237.625309 1095.857054 1434.153487 755.0288712 1285.84773 1.135827672 0.654704634 1.141357944 1.070609566 0.831930528 0.962497565 0.85224481 1.115336952 0.587183734 1 10.32850409 YPS(ph)PQK ddPTM_HeLa_SAHA_4h_R1 1 YPSPQK 6 0 Q9P2N5;U3KPZ7 Q9P2N5 RBM27 RNA-binding protein 27 1 0 Y(0.001)PS(0.999)PQK 93.143 0.02296 20196000 6973.1 6730.8 5148.6 6590.4 7416 8924.2 7915.1 7981.8 7871.3 7887.7 TRUE FALSE FALSE 7706.562652 6948.882336 5850.224395 6717.966722 6847.787682 8163.807954 7024.472117 7777.637114 7816.522982 8227.777348 0.936651823 0.844563731 0.711033387 0.816498361 0.832276737 0.992225191 0.853750876 0.945290178 0.950016347 1 13.00628704 -7.513384658 2.364887823 0.975979195 0.85417288 0.313385289 0.071997689 0.237977179 2.656149295 0.014367156 0.015566045 3.07E-08 7.513384658 -0.121806315 YPSSIS(ph)SSPQKDLTQAK ddPTM_HeLa_SAHA_4h_R1 1 YPSSISSSPQKDLTQAK 17 1 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 Y(0.001)PS(0.007)S(0.006)IS(0.425)S(0.281)S(0.281)PQKDLTQAK 76.118 0.0071104 15599000 1875.6 1958.5 1697.6 1799.3 2033.4 2350.5 2231 2162.4 2428.5 2271.4 TRUE FALSE FALSE 2072.884214 2021.956685 1928.940087 1834.128053 1877.601331 2150.224176 1979.962008 2107.088939 2411.599871 2369.33117 0.874881587 0.853387112 0.814128524 0.774112153 0.792460486 0.907523694 0.835662837 0.889318034 1.017839929 1 11.21026415 -8.561824552 0.648326415 0.998234773 0.835084606 0.733261272 0.040003196 0.311458651 0.265515119 0.024892415 0.010181576 2.74E-09 8.561824552 -0.163150168 YPSSISS(ph)SPQK ddPTM_HeLa_SAHA_4h_R1 2 YPSSISSSPQK 11 0 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 YPSSIS(0.009)S(0.496)S(0.496)PQK;YPSSIS(0.053)S(0.866)S(0.081)PQK ; 126.19 0.0016672 38729000 2333.6 3503.9 2108.88 2746.3 2915.5 3257.4 2830.8 2179.7 3960.1 2573.8 TRUE FALSE FALSE 2579.058755 3617.428659 2396.267184 2799.458608 2692.11502 2979.851194 2512.270934 2123.94643 3932.541342 2684.769114 0.960625903 1.347389107 0.892541251 1.042718569 1.002736141 1.109909667 0.935749343 0.791109529 1.464759603 1 11.39058231 -4.383725302 3.462218726 1.013858842 0.787559203 0.100001234 0.185290702 0.269121807 5.169043921 0.015732481 0.12761889 4.13E-05 4.383725302 -0.226299639 YPSSISS(ph)SPQKDLTQAK ddPTM_HeLa_SAHA_4h_R1 1 YPSSISSSPQKDLTQAK 17 1 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 YPS(0.001)S(0.005)IS(0.169)S(0.636)S(0.189)PQKDLTQAK 86.258 0.0039697 16376000 2197.3 2250.6 2117.3 2339.5 2253.4 3104 2531.5 2412.5 3354.1 2365.3 TRUE FALSE FALSE 2428.422096 2323.520917 2405.834618 2384.784405 2080.744979 2839.521737 2246.648957 2350.791743 3330.758545 2467.279658 0.984250848 0.941733909 0.975096037 0.966564288 0.843335684 1.150871458 0.910577344 0.952786902 1.349972036 1 11.26870553 -7.51507329 3.979165984 0.993528159 0.964060181 0.024945822 0.134244902 0.648617173 22.10699592 0.012167316 0.01326371 3.05E-08 7.51507329 -0.029467978 YPSSISSS(ph)PQKDLTQAK ddPTM_HeLa_SAHA_4h_R1 1 YPSSISSSPQKDLTQAK 17 1 F8W726;Q14157-4;Q14157-1;Q14157-3;Q14157;Q14157-5 F8W726 UBAP2L Ubiquitin-associated protein 2-like 1 0 YPS(0.007)S(0.011)IS(0.177)S(0.177)S(0.627)PQKDLTQAK 69.747 0.011366 13413000 1178.2 1448.9 1056.6 1245.8 1115.1 1387.4 1296.6 1283.7 1284.4 1057.4 TRUE FALSE FALSE 1302.128482 1495.845311 1200.587945 1269.91426 1029.661279 1269.185715 1150.703156 1250.864813 1275.461756 1102.989689 1.180544564 1.356173431 1.088485194 1.151338288 0.933518499 1.150677769 1.043258307 1.134067549 1.156367796 1 10.10720359 -3.964331109 14.90179414 1.101252733 1.245449722 0 0.110079098 8943446.618 112389434.8 0.016306725 33165738.33 0.00010856 3.964331109 0.144196989 YPVNSVNILK ddPTM_HeLa_SAHA_4h_R1 1 YPVNSVNILK 10 0 P17987;E7EQR6;E7ERF2 P17987 TCP1 T-complex protein 1 subunit alpha 0 0 106.88 0.012634 1269300 360.57 458.24 341.21 499.42 449.95 552.09 569.86 391.36 529.44 432.19 FALSE FALSE TRUE 398.496407 473.0872767 387.7083219 509.0869963 415.4749282 505.048826 505.737853 381.3495779 525.7555839 450.823826 0.88392934 1.049383926 0.859999626 1.129237114 0.92159044 1.120279801 1.121808174 0.845894906 1.166210732 1 8.816419954 -6.265374616 24.96651483 0.947460518 1.032228316 0 0.120347523 480.469558 3048268.127 0.014530759 0.022727344 5.43E-07 6.265374616 0.084767798 YQAVTATLEEK ddPTM_HeLa_SAHA_4h_R1 2 YQAVTATLEEK 11 0 Q8J015;M0QYS1;P40429;Q6NVV1 Q8J015 RPL13a;RPL13A;RPL13AP3 60S ribosomal protein L13a;Putative 60S ribosomal protein L13a protein RPL13AP3 0 0 ; ; 187.16 1.47E-16 2630600 1380.58 1459.79 1498 1504.83 1588.26 2009.96 1614.82 1512.7 1388.5 1448.5 FALSE FALSE TRUE 1525.795739 1507.088154 1702.139639 1533.958161 1466.567862 1838.7001 1433.116204 1474.007324 1378.837315 1510.951924 1.009824148 0.997442824 1.126534612 1.01522632 0.9706251 1.216915026 0.948485641 0.975548792 0.912562004 1 10.56124204 YQDEVFGGFVTEPQEES(ph)EEEVEEPEER ddPTM_HeLa_SAHA_4h_R1 10 YQDEVFGGFVTEPQEESEEEVEEPEER 27 0 Q13283 Q13283 G3BP1 Ras GTPase-activating protein-binding protein 1 1 0 YQDEVFGGFVT(0.068)EPQEES(0.932)EEEVEEPEER;YQDEVFGGFVTEPQEES(1)EEEVEEPEER;YQDEVFGGFVT(0.057)EPQEES(0.943)EEEVEEPEER;YQDEVFGGFVTEPQEES(1)EEEVEEPEER;YQDEVFGGFVTEPQEES(1)EEEVEEPEER;YQDEVFGGFVTEPQEES(1)EEEVEEPEER;YQDEVFGGFVTEPQEES(1)EEEVEEPEER;YQDEVFGGFVTEPQEES(1)EEEVEEPEER;YQDEVFGGFVTEPQEES(1)EEEVEEPEER;YQDEVFGGFVTEPQEES(1)EEEVEEPEER ;;;;;;;;; 165.47 1.35E-13 511187200 18301.317 24970.71 21063.54 23170.107 24197.57 23688.83 24584.31 23046.05 27039.051 22581.07 TRUE FALSE FALSE 20226.33349 25779.77739 23933.96954 23618.59793 22343.55741 21670.40841 21818.01874 22456.56541 26850.88404 23554.65044 0.858698096 1.094466566 1.016103788 1.002714856 0.948583698 0.92000552 0.926272236 0.953381392 1.139939823 1 14.5237243 -3.822566694 16.60208766 0.95229896 1.919879168 0 0.08648937 18106.43895 1906282.039 0.010231932 83746.84771 0.000150464 3.822566694 0.967580208 YQEDSDPERS(ph)DYEEQQLQKEEEAR ddPTM_HeLa_SAHA_4h_R1 1 YQEDSDPERSDYEEQQLQKEEEAR 24 2 Q6P6C2-3;Q6P6C2;Q6P6C2-1 Q6P6C2-3 ALKBH5 RNA demethylase ALKBH5 1 0 Y(0.001)QEDS(0.039)DPERS(0.731)DY(0.229)EEQQLQKEEEAR 50.776 0.0079237 8462400 1066.7 1233.9 1162.3 1524.7 1136.9 1712.7 1559.4 1206.9 1701.4 1200.3 TRUE FALSE FALSE 1178.9004 1273.87917 1320.692191 1554.212773 1049.790968 1566.768325 1383.932208 1176.029246 1689.559819 1252.050807 0.941575528 1.017434087 1.054823162 1.24133363 0.838457163 1.251361619 1.105332308 0.939282367 1.349433912 1 10.29007739 -6.88032414 3.117854462 0.972694049 1.078999957 0 0.166839843 0.342593769 6.685615868 0.017938026 0.024142647 1.32E-07 6.88032414 0.106305908 YQEQGGEAS(ph)PQR ddPTM_HeLa_SAHA_4h_R1 2 YQEQGGEASPQR 12 0 H0Y5J4;Q9UJU6-5;Q9UJU6 H0Y5J4 DBNL Drebrin-like protein 1 0 YQEQGGEAS(1)PQR;YQEQGGEAS(1)PQR ; 185.2 1.02E-06 65058000 2378.2 2709.7 2278.02 2221.58 2688.7 3343.6 2832.84 1998.52 3883.7 2696.05 TRUE FALSE FALSE 2628.349988 2797.496058 2588.456702 2264.581893 2482.692387 3058.706469 2514.081388 1947.400752 3856.673015 2812.28991 0.934594253 0.994739571 0.920408914 0.805244824 0.882801015 1.087621322 0.893962382 0.692460882 1.371363956 1 11.45752961 -4.313773164 3.736722304 0.956159668 0.677484336 0.245122755 0.149567664 0.135222067 3.352966193 0.010273587 0.093208948 4.86E-05 4.313773164 -0.278675332 YQEQGGEAS(ph)PQRTWEQQQEVVSR ddPTM_HeLa_SAHA_4h_R1 1 YQEQGGEASPQRTWEQQQEVVSR 23 1 H0Y5J4;Q9UJU6-5;Q9UJU6 H0Y5J4 DBNL Drebrin-like protein 1 0 Y(0.006)QEQGGEAS(0.954)PQRT(0.04)WEQQQEVVSR 70.994 0.0013805 28293000 533.49 467.84 446.75 397.64 443.08 383.46 582.41 657.16 374.21 489.9 TRUE FALSE FALSE 589.6049259 482.998323 507.6307634 405.3368972 409.1313061 350.7870507 516.875694 640.3507988 371.6058421 511.0219865 1.153776044 0.945161531 0.993363841 0.793188763 0.800613901 0.686442188 1.011454903 1.253078763 0.72718171 1 8.997241554 -6.927333971 2.374894922 1.071673101 0.90174471 0 0.185662363 0.370544155 4.237049059 0.027177027 0.036354561 1.18E-07 6.927333971 -0.169928392 YQEQGGEAS(ph)PQSR ddPTM_HeLa_SAHA_4h_R1 2 YQEQGGEASPQSR 13 0 B4DDD6;Q9UJU6-4;Q9UJU6-2;Q9UJU6-3;Q9UJU6-6 B4DDD6 DBNL Drebrin-like protein 1 0 YQEQGGEAS(0.946)PQS(0.054)R;YQEQGGEAS(0.954)PQS(0.046)R ; 172.09 2.08E-05 32431000 2217.48 2294.4 2276.41 2408.42 2616.71 2565.52 2526 2418.76 2726.83 2310.92 TRUE FALSE FALSE 2450.724721 2368.740065 2586.6273 2455.038452 2416.218245 2346.923263 2241.767832 2356.891622 2707.853768 2410.555071 1.016664066 0.982653371 1.073042193 1.018453584 1.002349324 0.97360284 0.929979928 0.977738136 1.12333205 1 11.23514967 -5.188531429 2.859606072 1.011905608 0.953559836 0.306337266 0.042962418 0.16568039 2.636844934 0.003467666 0.010015191 6.48E-06 5.188531429 -0.058345773 YQEQGGEASPQRT(ph)WEQQQEVVSR ddPTM_HeLa_SAHA_4h_R1 1 YQEQGGEASPQRTWEQQQEVVSR 23 1 H0Y5J4;Q9UJU6-5;Q9UJU6 H0Y5J4 DBNL Drebrin-like protein 1 0 YQEQGGEAS(0.001)PQRT(0.999)WEQQQEVVSR 79.455 0.00073849 27295000 867.02 635.8 834.12 900.74 738.5 1053.6 1143.2 920.83 638.95 848.76 TRUE FALSE FALSE 958.2171416 656.4003372 947.7895297 918.1751252 681.9162895 963.8273526 1014.564127 897.2765019 634.5034949 885.3541973 1.082298073 0.741398571 1.070520174 1.037070958 0.770218622 1.088634758 1.145941512 1.013466141 0.716666275 1 9.790110929 YQES(ph)PGIQMK ddPTM_HeLa_SAHA_4h_R1 2 YQESPGIQMK 10 0 Q9UHI6;E9PJ60 Q9UHI6 DDX20 Probable ATP-dependent RNA helicase DDX20 1 0 YQES(1)PGIQMK;YQES(1)PGIQMK ; 132.86 0.0014624 52362000 4440.2 4900.3 3371.7 3488.7 4334.5 5134.3 4677.8 3655.2 5514.6 4068.1 TRUE FALSE FALSE 4907.240608 5059.072935 3831.177717 3556.228833 4002.391546 4696.828755 4151.441633 3561.705277 5476.22345 4243.4957 1.156414653 1.192194665 0.902835301 0.838042285 0.943182656 1.106830097 0.97830702 0.839332835 1.290498173 1 12.0510375 -6.743130801 24.99999685 1.084801204 0.940543285 0.457033841 0.108360808 221.0578979 301849.5514 0.016024463 0.022636527 1.81E-07 6.743130801 -0.144257919 YQIS(ph)QPEVYVAAPGESLEMPSHPEMMRMTPMVRK ddPTM_HeLa_SAHA_4h_R1 1 YQISQPEVYVAAPGESLEMPSHPEMMRMTPMVRK 34 2 A0A1B0GWF4 A0A1B0GWF4 1 0 Y(0.412)QIS(0.488)QPEVY(0.072)VAAPGES(0.013)LEMPS(0.013)HPEMMRMT(0.002)PMVRK 43.271 0.018831 12857000 1542.3 1827.1 2020.2 1902.5 1977.6 1236 2056.4 1926.8 2221.3 2028.9 TRUE FALSE FALSE 1704.52619 1886.299239 2295.502335 1939.325639 1826.076715 1130.685846 1825.00846 1877.515246 2205.841792 2116.375808 0.805398637 0.89128747 1.084638336 0.916342755 0.862831973 0.534255704 0.862327217 0.887136981 1.042273203 1 11.04738012 -5.511900816 24.51993827 0.918581646 0.759214553 0.32718595 0.118602953 432.627817 966301.3783 0.017722491 0.037485694 3.08E-06 5.511900816 -0.159367092 YQLDKDGVVLFK ddPTM_HeLa_SAHA_4h_R1 1 YQLDKDGVVLFK 12 1 P07237;H7BZ94;I3L398;I3L312;I3L3U6 P07237 P4HB Protein disulfide-isomerase 0 0 98.902 0.0072105 1355000 1305 1462 1224.9 1444.9 2014.7 1633 1636.1 1048.9 1665.1 1694.6 FALSE FALSE TRUE 1442.265888 1509.369759 1391.822993 1472.868129 1860.334121 1493.859213 1452.001722 1022.070657 1653.512434 1767.662499 0.815917002 0.853878928 0.787380506 0.833229267 1.052426084 0.845104319 0.821424747 0.578204639 0.935423156 1 10.78762713 -13.52287875 0.21076333 1.859047127 0.799784049 0.229743654 0.107779706 51.21143072 0.637071805 18.13727921 0.097870158 3.00E-14 13.52287875 -1.059263078 YQPLASTAS(ph)DNDFVTPEPR ddPTM_HeLa_SAHA_4h_R1 5 YQPLASTASDNDFVTPEPR 19 0 Q15021 Q15021 NCAPD2 Condensin complex subunit 1 1 0 YQPLAST(0.08)AS(0.919)DNDFVT(0.001)PEPR;YQPLAS(0.038)T(0.377)AS(0.585)DNDFVTPEPR;YQPLAS(0.019)T(0.345)AS(0.636)DNDFVTPEPR;YQPLAS(0.002)T(0.023)AS(0.975)DNDFVTPEPR;YQPLAS(0.04)T(0.04)AS(0.92)DNDFVTPEPR ;;;; 236.68 3.04E-33 74672400 4088.74 3816.36 3495.58 3816.28 4658.57 4260.95 5377.87 4529.75 3427.37 4294.08 TRUE FALSE FALSE 4518.812433 3940.012568 3971.939438 3890.149618 4301.631373 3897.893089 4772.737914 4413.885554 3403.518653 4479.218804 1.008839405 0.879620474 0.886748251 0.86848841 0.960353035 0.870217165 1.065529085 0.985414142 0.759846483 1 12.12903143 -7.288428422 24.05430583 1.004174171 0.930786446 0 0.096879389 480.9741872 428672.6454 0.01026936 0.01174543 5.15E-08 7.288428422 -0.073387725 YQPLASTASDNDFVT(ph)PEPR ddPTM_HeLa_SAHA_4h_R1 4 YQPLASTASDNDFVTPEPR 19 0 Q15021 Q15021 NCAPD2 Condensin complex subunit 1 1 0 YQPLASTAS(0.001)DNDFVT(0.999)PEPR;YQPLASTAS(0.001)DNDFVT(0.999)PEPR;YQPLASTASDNDFVT(1)PEPR;YQPLAS(0.019)T(0.001)AS(0.046)DNDFVT(0.934)PEPR ;;; 234.62 1.25E-32 51452100 4291.96 4624.29 3764.84 4897.85 5366.89 6168.2 4691.51 5019.4 4546.62 5024.48 TRUE FALSE FALSE 4743.408045 4774.12003 4277.892789 4992.654969 4955.680048 5642.634659 4163.608947 4891.011016 4514.979701 5241.109922 0.90503884 0.910898665 0.816218864 0.952594974 0.945540185 1.076610631 0.79441359 0.933201381 0.861454877 1 12.35565665 -9.219173581 0.954970365 1.000017451 0.916515868 0 0.084422315 0.843953385 1.382101389 0.047937956 0.013341187 6.04E-10 9.219173581 -0.083501583 YQQGDFGYCPR ddPTM_HeLa_SAHA_4h_R1 2 YQQGDFGYCPR 11 0 Q5SRQ3;Q5SRQ6;N0E472;A0A0G2JM12;P67870 Q5SRQ3 CSNK2B-LY6G5B-1181;CSNK2B;CSNK2B-LY6G5B--991 Casein kinase II subunit beta 0 0 ; ; 141.88 0.0050289 9220100 1442.15 1289.96 1313.05 1574.79 1583.35 1377.99 1482.37 1437.03 1632.86 1691.6 FALSE FALSE TRUE 1593.841954 1331.75555 1491.985616 1605.272338 1462.034065 1260.5775 1315.569826 1400.272853 1621.496794 1764.533154 0.903265518 0.754735351 0.845541277 0.90974337 0.82856707 0.714397174 0.745562543 0.793565624 0.918938128 1 10.78507082 -7.498792061 0.212426802 1.069527001 0.69789226 0.544632796 0.058424405 1.025911314 0.203665576 0.151793536 0.13893983 3.17E-08 7.498792061 -0.371634742 YQT(ph)QPVTLGEVEQVQSGK ddPTM_HeLa_SAHA_4h_R1 2 YQTQPVTLGEVEQVQSGK 18 0 O95425-3;O95425-2;O95425-4;O95425;A0A6I8PIX7 O95425-3 SVIL Supervillin 1 0 YQT(0.86)QPVT(0.14)LGEVEQVQSGK;YQT(0.998)QPVT(0.002)LGEVEQVQSGK ; 257.93 8.07E-48 25476000 3127.1 2602.7 2886.39 2699.2 2966.1 3255.5 2632.9 4337.4 1186.28 2427.95 TRUE FALSE FALSE 3456.022726 2687.029188 3279.732198 2751.446919 2738.838059 2978.113085 2336.639163 4226.455588 1178.024581 2532.630807 1.364597918 1.060963635 1.294990248 1.086398741 1.081420178 1.175897046 0.922613417 1.668800513 0.465138692 1 11.30642107 -9.653124798 1.50320877 1.000384964 1.213756706 0.23263621 0.26022107 0.618074461 2.519223433 0.130070967 0.029571783 2.22E-10 9.653124798 0.213371742 K(ac)FGNPGEK ddPTM_HeLa_SAHA_4h_R1 2 KFGNPGEK 8 1 P17844-2;P17844;J3KTA4;J3QRQ7;X6RLV5;J3QR02;J3KRX8;J3QKN9;J3KTQ4 P17844-2 DDX5 Probable ATP-dependent RNA helicase DDX5 0 1 ; K(1)FGNPGEK;K(1)FGNPGEK 128.36 0.00033572 19489200 4886.1 4916.9 4694 6637.5 7365.4 8828.1 9307.6 9940.3 5497.2 3820.6 FALSE TRUE FALSE 5400.042416 5076.210786 5333.673875 6765.97841 6801.064643 8075.896214 8260.284352 9686.041519 5458.944538 3985.324764 1.354981774 1.273725753 1.338328541 1.697723225 1.706527083 2.02640856 2.072675338 2.430427153 1.369761528 1 11.96048158 -1 0.20415825 0.978786943 8.232436581 0.909712139 0.125929317 6.514232673 0.075457419 0.081240608 15.33423281 0.1 1 7.253649638 up YQYGGLNSGRPVT(ph)PPR ddPTM_HeLa_SAHA_4h_R1 4 YQYGGLNSGRPVTPPR 16 1 P62140 P62140 PPP1CB Serine/threonine-protein phosphatase PP1-beta catalytic subunit 1 0 YQYGGLNSGRPVT(1)PPR;YQYGGLNSGRPVT(1)PPR;YQYGGLNSGRPVT(1)PPR;YQYGGLNSGRPVT(1)PPR ;;; 147.75 0.003857 70555800 3222.98 3894.2 2931.51 3288.83 4526.05 4765.82 4431.19 3797.31 4621.12 3600.18 TRUE FALSE FALSE 3561.987824 4020.374635 3331.000916 3352.49006 4179.265027 4359.745324 3932.580839 3700.180309 4588.96125 3755.401379 0.948497235 1.070557906 0.88698932 0.892711517 1.112867735 1.160926592 1.0471799 0.985295561 1.221962924 1 11.8747514 -5.746214753 24.99994161 0.970443198 1.080494004 0.055841145 0.102633903 192.9141425 316777.257 0.009613888 0.019170386 1.79E-06 5.746214753 0.110050806 YRDLDEDEILGALTEEELR ddPTM_HeLa_SAHA_4h_R1 1 YRDLDEDEILGALTEEELR 19 1 P28289 P28289 TMOD1 Tropomodulin-1 0 0 121.01 0.00051244 1029200 128.62 167.11 113.77 0 234.99 164.62 126.83 117.56 133.1 157.83 FALSE FALSE TRUE 142.1488417 172.5244736 129.2739831 0 216.985117 150.5934499 112.5587546 114.5529854 132.1737463 164.6348237 0.863419042 1.047922121 0.785216519 0 1.317978251 0.914712006 0.6836874 0.695800456 0.802829822 1 7.363125718 -6.552870026 14.31379951 0.940929326 0.726923219 0.089909623 0.309173449 3.714912394 1771.267088 0.047003756 0.066499571 2.80E-07 6.552870026 -0.214006107 YRNEGS(ph)PSPR ddPTM_HeLa_SAHA_4h_R1 1 YRNEGSPSPR 10 1 Q5T200-2;Q5T200 Q5T200-2 ZC3H13 Zinc finger CCCH domain-containing protein 13 1 0 YRNEGS(0.988)PS(0.012)PR 75.088 0.01865 1403600 217.75 286.38 157.92 279.42 253.08 251.14 423.96 354.64 294.79 251.6 TRUE FALSE FALSE 240.6539441 295.6588999 179.4405152 284.8285781 233.6890651 229.7414591 376.254905 345.5688223 292.7385324 262.4477073 0.916959598 1.126544038 0.683719119 1.085277449 0.890421439 0.875379943 1.433637614 1.31671496 1.115416612 1 8.035886184 -4.760003765 24.99999993 0.951343933 1.37517641 0.620099785 0.129245309 13.90603319 242135.3831 0.014792532 0.049958419 1.74E-05 4.760003765 0.423832477 YRPGTVALR ddPTM_HeLa_SAHA_4h_R1 1 YRPGTVALR 9 1 K7EK07;P84243;Q6NXT2;Q71DI3;P68431;K7EMV3;K7EP01;A0A590UJJ6;B4DEB1;Q5TEC6;K7ES00;Q16695 K7EK07 H3F3B;H3F3A;H3F3C;HIST2H3A;HIST1H3A;HIST2H3PS2;HIST3H3 Histone H3;Histone H3.3;Histone H3.3C;Histone H3.2;Histone H3.1;Histone H3.1t 0 0 83.647 0.01951 2559900 527.5 1031.2 826.89 853.71 816.41 731.98 686.96 762.74 641.45 939.14 FALSE FALSE TRUE 582.9848703 1064.611557 939.5742629 870.2347915 753.8568422 669.611186 609.6614528 743.2302152 636.9860972 979.6309214 0.595106644 1.086747604 0.959110459 0.88832924 0.76953149 0.683534147 0.622337902 0.758683907 0.650230697 1 9.936094502 -5.466355163 3.414417953 0.844836299 0.682711259 0.223961932 0.144079754 0.3789193 8.745152947 0.025867649 0.059969724 3.42E-06 5.466355163 -0.16212504 YRPLFDYFLK ddPTM_HeLa_SAHA_4h_R1 2 YRPLFDYFLK 10 1 J3KR24;A0A0A0MSX9;P41252;Q5TCD1 J3KR24 IARS "Isoleucine--tRNA ligase, cytoplasmic" 0 0 ; ; 110.53 0.0035479 1129840 1233.49 1053.77 2070.58 1575.35 1519.47 430.1 2189.42 53.124 288.22 711.97 FALSE FALSE TRUE 1363.234138 1087.912839 2352.747859 1605.843177 1403.048537 393.4530603 1943.060699 51.765165 286.2142536 742.666511 1.835593927 1.464873969 3.167973545 2.16226685 1.889203991 0.529784304 2.616330036 0.069701763 0.385387316 1 9.536570714 YRS(ph)PEPDPYLSYR ddPTM_HeLa_SAHA_4h_R1 2 YRSPEPDPYLSYR 13 1 H3BRT8;H3BQR7;H3BV35;H3BRK0;H3BUL5;H3BVF8;H3BQG1;P49761-2;P49761-3;P49761-1;P49761 H3BRT8 CLK3 Dual specificity protein kinase CLK3 1 0 Y(0.05)RS(0.95)PEPDPYLSYR;YRS(0.94)PEPDPYLS(0.059)YR ; 113.52 0.0011558 128834400 2265.1 2202.38 2106.12 2430.82 2800.82 3073.53 2619.46 2192.29 2033.89 2828 TRUE FALSE FALSE 2503.353611 2273.738557 2393.131065 2477.872036 2586.221777 2811.647953 2324.711467 2136.214396 2019.735994 2949.92892 0.848614892 0.770777405 0.811250417 0.839976862 0.876706472 0.953123966 0.788056774 0.724157922 0.684672766 1 11.52646448 -8.878329223 0.71459597 1.002275705 0.828566224 0 0.113676948 0.452552734 0.427624762 0.043133873 0.013756375 1.32E-09 8.878329223 -0.17370948 YRS(ph)PYSGPK ddPTM_HeLa_SAHA_4h_R1 1 YRSPYSGPK 9 1 Q14498-2;Q14498;G3XAC6;Q5QP22;Q5QP23 Q14498-2 RBM39 RNA-binding protein 39 1 0 YRS(1)PYSGPK 121.29 0.015307 193630000 4000.9 3562.2 3479 3874 3756.3 3677.2 3641.5 3884 3733.7 3234 TRUE FALSE FALSE 4421.733019 3677.617617 3953.100002 3948.986872 3468.493106 3363.881873 3231.748836 3784.652904 3707.716878 3373.433567 1.310751474 1.090170458 1.17183277 1.170613499 1.028178868 0.997168554 0.957999846 1.121899344 1.099092899 1 11.72000204 -5.741057847 10.47132048 1.149029724 1.019234613 0.303672563 0.083763812 0.470299368 232.2976206 0.017386134 0.034345375 1.82E-06 5.741057847 -0.129795111 YRSDS(ph)QDEVEK ddPTM_HeLa_SAHA_4h_R1 2 YRSDSQDEVEK 11 1 H0YBZ4;Q15390-2;Q15390;H7C5V5;H0YF01 H0YBZ4 MTFR1 Mitochondrial fission regulator 1 1 0 YRSDS(1)QDEVEK;Y(0.002)RS(0.089)DS(0.909)QDEVEK ; 110.51 0.0010696 0 2617.19 2954.08 2270.94 3224.78 3695.24 3690.3 3593.74 3641.14 3272.42 2771.32 TRUE FALSE FALSE 2892.478052 3049.79413 2580.411877 3287.20028 3412.11151 3375.865679 3189.362917 3548.004911 3249.646963 2890.805168 1.000578692 1.054998159 0.892627392 1.137122735 1.180332576 1.167794259 1.103278406 1.227341417 1.124132127 1 11.49725566 -6.105994204 6.877697319 0.998062711 1.164071242 0.587859807 0.061877086 0.084355012 4.791070764 0.006367351 0.010615786 7.83E-07 6.105994204 0.166008531 YS(ph)CPESPSQELGGPLPSPGPR ddPTM_HeLa_SAHA_4h_R1 2 YSCPESPSQELGGPLPSPGPR 21 0 A0A494BZV2;A0A1W2PPU9 A0A494BZV2 1 0 Y(0.276)S(0.552)CPES(0.166)PS(0.005)QELGGPLPSPGPR;Y(0.247)S(0.728)CPES(0.024)PS(0.001)QELGGPLPSPGPR ; 153.21 2.76E-06 18485900 989.32 1378.34 1303.17 1142.63 1205.54 1676.12 1220.18 1161.45 1264.91 1369.95 TRUE FALSE FALSE 1093.381217 1422.99912 1480.759221 1164.747256 1113.171786 1533.305146 1082.882135 1131.741791 1256.107388 1429.015249 0.765129146 0.995790018 1.036209531 0.815069858 0.778978242 1.072980255 0.757782071 0.791973208 0.879002089 1 10.4808056 YS(ph)GAYGASVSDEELK ddPTM_HeLa_SAHA_4h_R1 3 YSGAYGASVSDEELK 15 0 A0A286YEX5;C9JRZ6;F8WAR4;Q9NX63 A0A286YEX5 CHCHD3 MICOS complex subunit MIC19 1 0 YS(0.999)GAYGASVSDEELK;YS(1)GAYGASVSDEELK;YS(1)GAYGASVSDEELK ;; 254.72 6.82E-44 101815000 2079.04 2974.69 2001.79 1871.24 2936.2 2830 2762.61 2368.03 2706.33 2277.63 TRUE FALSE FALSE 2297.722966 3071.071908 2274.583516 1907.460556 2711.22899 2588.868079 2451.753852 2307.459221 2687.496429 2375.829776 0.967124408 1.29263129 0.957384885 0.802860784 1.1411714 1.08966901 1.031956867 0.971222452 1.131182232 1 11.21421576 YS(ph)GAYGASVSDEELKR ddPTM_HeLa_SAHA_4h_R1 4 YSGAYGASVSDEELKR 16 1 A0A286YEX5;C9JRZ6;F8WAR4;Q9NX63 A0A286YEX5 CHCHD3 MICOS complex subunit MIC19 1 0 YS(1)GAYGASVSDEELKR;YS(1)GAYGASVSDEELKR;YS(1)GAYGASVSDEELKR;YS(0.982)GAYGAS(0.017)VSDEELKR ;;; 182.15 3.16E-09 28622700 3536.16 4952.22 2957.48 3369.71 4196.78 5162.5 4877.35 3445.07 5381.17 3873.66 TRUE FALSE FALSE 3908.109533 5112.675177 3360.509973 3434.93561 3875.223623 4722.625957 4328.537742 3356.950098 5343.722 4040.67244 0.96719286 1.265303054 0.831670971 0.850090093 0.959054138 1.168772284 1.07124193 0.830789961 1.322483344 1 11.98037969 -4.244185545 23.27031064 0.998712655 0.830789603 0.072034281 0.162061169 2075.465754 2799070.029 0.016882893 0.59516656 5.70E-05 4.244185545 -0.167923052 YS(ph)GRVAKEVMESSAK ddPTM_HeLa_SAHA_4h_R1 1 YSGRVAKEVMESSAK 15 2 B5MC67;Q7Z6J6-2;Q7Z6J6;A0A087WVP2;H0YKW6;H0Y5N1 B5MC67 FRMD5 FERM domain-containing protein 5 1 0 Y(0.114)S(0.886)GRVAKEVMESSAK 62.203 0.023194 3714000 1761.2 1934.2 1274.3 1801.6 1955.7 2195.9 1662.8 1739 2304.6 1754.9 TRUE FALSE FALSE 1946.451097 1996.869349 1447.954968 1836.472573 1805.854689 2008.796966 1475.697368 1694.518898 2288.562101 1830.562327 1.063307743 1.090850237 0.790989166 1.00322865 0.986502706 1.097366059 0.80614429 0.925682165 1.250196219 1 10.83807118 YS(ph)IVSSEEDGMKLAT(ph)MAVANGFGNGK ddPTM_HeLa_SAHA_4h_R1 1 YSIVSSEEDGMKLATMAVANGFGNGK 26 1 P63252 P63252 KCNJ2 Inward rectifier potassium channel 2 2 0 Y(0.23)S(0.257)IVS(0.257)S(0.257)EEDGMKLAT(0.999)MAVANGFGNGK 51.526 0.0066463 0 170.06 74.535 147.64 140.12 169.76 194.13 0 298.38 0 0 TRUE FALSE FALSE 187.9476911 76.9499829 167.7596103 142.8322252 156.7530255 177.5890319 0 290.7478716 0 0 0 YS(ph)PPAISPLVSEK ddPTM_HeLa_SAHA_4h_R1 1 YSPPAISPLVSEK 13 0 Q14694;Q14694-3;Q14694-2 Q14694 USP10 Ubiquitin carboxyl-terminal hydrolase 10 1 0 YS(1)PPAISPLVSEK 99.834 0.0055884 6052400 773.09 1363.2 690.81 1126 744.64 1097.3 838.4 819.6 1009 1024.8 TRUE FALSE FALSE 854.4071533 1407.368574 784.9499892 1147.795358 687.5858441 1003.803867 744.0610255 798.6358188 1001.978287 1068.984143 0.799270184 1.316547662 0.73429526 1.073725336 0.643214259 0.939025965 0.69604496 0.74709791 0.937318194 1 10.06202474 -5.757654691 24.99999783 0.933571061 0.765087177 0.273952034 0.166939199 124.7755552 824200.3033 0.023770947 0.046126768 1.75E-06 5.757654691 -0.168483884 YS(ph)PSQNS(ph)PIHHIPSR ddPTM_HeLa_SAHA_4h_R1 2 YSPSQNSPIHHIPSR 15 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;H0YF00;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 2 0 Y(0.013)S(0.863)PS(0.124)QNS(1)PIHHIPSR;Y(0.005)S(0.965)PS(0.031)QNS(0.999)PIHHIPSR ; 148.19 0.00015027 67129000 2461.5 4223.7 1691.05 3495.6 4089.1 3079.2 3592.8 2880.4 6702.7 3025.8 TRUE FALSE FALSE 2720.411864 4360.550651 1921.497487 3563.262393 3775.794041 2816.834837 3188.528688 2806.723539 6656.055365 3156.257046 0.861910746 1.381557518 0.608789924 1.128951901 1.196288511 0.89246053 1.010224656 0.889256958 2.108844517 1 11.62399899 YS(ph)PTSPTYSPTTPK ddPTM_HeLa_SAHA_4h_R1 1 YSPTSPTYSPTTPK 14 0 P24928 P24928 POLR2A DNA-directed RNA polymerase II subunit RPB1 1 0 YS(0.508)PT(0.233)S(0.233)PT(0.021)YS(0.004)PTTPK 120.29 0.00091643 5798900 1660.7 1488.2 1496.4 1549.6 1381.7 1788.8 1617.6 1881.3 1259.2 1339.1 TRUE FALSE FALSE 1835.380046 1536.418656 1700.321599 1579.594749 1275.834445 1636.384176 1435.583391 1833.17907 1250.437125 1396.835154 1.313956081 1.0999284 1.217267187 1.130838341 0.913375097 1.171494125 1.027740021 1.312380394 0.895193052 1 10.44794606 -5.991819027 24.99632265 1.153278925 1.09490106 0 0.146111844 642.2071957 1962194.302 0.021425852 0.038790965 1.02E-06 5.991819027 -0.058377865 YS(ph)S(ph)SGTPS(ph)S(ph)ASPALSR ddPTM_HeLa_SAHA_4h_R1 1 YSSSGTPSSASPALSR 16 0 Q14934-2;Q14934-9;Q14934-3;Q14934-4;Q14934-5;Q14934-6;Q14934-7;Q14934;Q14934-8;Q14934-10;Q14934-18;Q14934-11;Q14934-12;Q14934-13;Q14934-14;Q14934-15;Q14934-16;Q14934-17 Q14934-2 NFATC4 "Nuclear factor of activated T-cells, cytoplasmic 4" 4 0 Y(0.428)S(0.536)S(0.533)S(0.564)GT(0.532)PS(0.712)S(0.665)AS(0.027)PALS(0.002)R 50.534 0.018877 3128800 0 0 0 0 0 0 0 0 0 0 TRUE FALSE FALSE 0 0 0 0 0 0 0 0 0 0 0 YS(ph)SSQPEPR ddPTM_HeLa_SAHA_4h_R1 1 YSSSQPEPR 9 0 E7EPP6;O14757-2;O14757-3;O14757 E7EPP6 CHEK1 Serine/threonine-protein kinase Chk1 1 0 YS(0.857)S(0.087)S(0.056)QPEPR 105.4 0.0076894 3331600 597.97 846.77 610.34 836.96 981.49 1116.7 765.49 812.65 1121 943.27 TRUE FALSE FALSE 660.8672282 874.2059036 693.5139567 853.1605711 906.2884482 1021.550878 679.3550505 791.8635897 1113.19887 983.938986 0.671654683 0.888475725 0.70483431 0.867086865 0.921081959 1.038225837 0.690444286 0.804789322 1.131369816 1 9.942425047 -9.642177789 1.486990515 0.999509499 0.805221502 0.364375254 0.11813304 0.437749249 1.746973175 0.083015139 0.01902856 2.28E-10 9.642177789 -0.194287997 YSCPESPSQELGGPLPS(ph)PGPR ddPTM_HeLa_SAHA_4h_R1 2 YSCPESPSQELGGPLPSPGPR 21 0 A0A494BZV2;A0A1W2PPU9 A0A494BZV2 1 0 YSCPESPSQELGGPLPS(1)PGPR;YSCPESPSQELGGPLPS(1)PGPR ; 186.58 9.53E-15 12357500 2210.32 2010.16 2236.87 2363.03 2803.35 2944.96 2903.14 2920.51 2598.33 2570.28 TRUE FALSE FALSE 2442.811599 2075.290503 2541.698994 2408.769863 2588.557929 2694.03284 2576.471047 2845.807583 2580.24801 2681.097349 0.911123798 0.774045188 0.948006977 0.898426856 0.965484498 1.0048247 0.960976313 1.061433888 0.962385051 1 11.38860789 -3.743712648 0.858021313 0.939070462 1.243138701 0.297473891 0.061337913 6.086356549 1.78898622 0.010974043 2.155924616 0.000180421 3.743712648 0.304068239 YSDEQLNS(ph)GRQSPSQNER ddPTM_HeLa_SAHA_4h_R1 1 YSDEQLNSGRQSPSQNER 18 1 P25054-2;P25054-3;P25054;A0A2Q2SV78;E9PFT7 P25054-2 APC Adenomatous polyposis coli protein 1 0 Y(0.003)S(0.001)DEQLNS(0.585)GRQS(0.405)PS(0.006)QNER 74.732 0.0057947 19775000 1477.4 1094.9 1366.4 1373.2 1385.3 1015 1627.1 1490.8 965.82 1317.5 TRUE FALSE FALSE 1632.799711 1130.375478 1552.605876 1399.780272 1279.158613 928.5162898 1444.014426 1452.667495 959.09878 1374.303873 1.188092199 0.822507672 1.129739868 1.018537675 0.930768398 0.675626627 1.050724264 1.057020593 0.697879704 1 10.42448532 -5.870594933 3.736934119 1.069759295 0.919053653 0 0.178280891 0.294273038 7.842001383 0.021143628 0.040078728 1.35E-06 5.870594933 -0.150705643 YSDEQLNSGRQS(ph)PSQNER ddPTM_HeLa_SAHA_4h_R1 2 YSDEQLNSGRQSPSQNER 18 1 P25054-2;P25054-3;P25054;A0A2Q2SV78;E9PFT7 P25054-2 APC Adenomatous polyposis coli protein 1 0 YSDEQLNS(0.001)GRQS(0.88)PS(0.119)QNER;YSDEQLNS(0.01)GRQS(0.965)PS(0.024)QNER ; 141.1 0.00059699 27018400 1136.52 1008 1170.72 1206.85 1076.38 1031 1099.48 866.54 840.98 1090.17 TRUE FALSE FALSE 1256.064388 1040.659861 1330.259625 1230.210327 993.9079969 943.1529998 975.7636167 844.3751615 835.1275517 1137.172564 1.104550381 0.915129238 1.169795743 1.081814991 0.874016863 0.829384237 0.858061167 0.742521574 0.734389466 1 10.15123548 -5.652916215 4.19685299 1.051326706 0.819949301 0.290697336 0.121456349 0.092386682 2.931257075 0.010404029 0.021367562 2.22E-06 5.652916215 -0.231377405 YSDVEVPASVTGYSFASDGDSGTCS(ph)PLR ddPTM_HeLa_SAHA_4h_R1 2 YSDVEVPASVTGYSFASDGDSGTCSPLR 28 0 E7EV99;E7ENY0;P35611-5;P35611-2;P35611-6;P35611-4;P35611;P35611-3;H0Y9H2 E7EV99 ADD1 Alpha-adducin 1 0 YSDVEVPASVTGYSFASDGDS(0.015)GT(0.026)CS(0.959)PLR;YSDVEVPASVTGYSFASDGDS(0.004)GT(0.152)CS(0.844)PLR ; 168.92 2.89E-12 21238000 5516 5883.1 5342.3 5619.7 6116.4 4868.9 6778.2 5572.1 5947.4 5986.4 TRUE FALSE FALSE 6096.198188 6073.7163 6070.320822 5728.47742 5647.762753 4454.042328 6015.499097 5429.57375 5906.011559 6244.503001 0.976250342 0.972650073 0.972106318 0.917363226 0.904437511 0.713274111 0.963327121 0.86949654 0.945793694 1 12.60837104 -6.015600924 1.788763673 0.986888478 0.857370736 0.43199842 0.059823937 0.210099262 1.337064252 0.00874081 0.017467078 9.65E-07 6.015600924 -0.129517742 YSEEANNLIEECEQAER ddPTM_HeLa_SAHA_4h_R1 1 YSEEANNLIEECEQAER 17 0 G3V5B3;G3V3E6;Q96HE7 G3V5B3 ERO1L ERO1-like protein alpha 0 0 146.59 0.00061207 2297800 137.6 257.03 236.93 172.06 115.35 334.81 204 116.16 157.48 282.19 FALSE FALSE TRUE 152.0733993 265.3579406 269.2175865 175.3904701 106.5119079 306.2823044 181.0453831 113.1887954 156.3840839 294.3565919 0.516629841 0.901484621 0.914596764 0.595843528 0.361846518 1.040514508 0.615054624 0.384529508 0.531274271 1 8.201421126 -9.504008466 1.182292453 1.004839849 0.662536862 0 0.257928896 0.563450376 1.376935131 0.161097415 0.036762951 3.13E-10 9.504008466 -0.342302986 YSEEGLS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 2 YSEEGLSPSK 10 0 J3KPG5;F8VU39;Q9UIF9-2;Q9UIF9-3;Q9UIF9;A0A0C4DGI9 J3KPG5 BAZ2A Bromodomain adjacent to zinc finger domain protein 2A 1 0 YSEEGLS(0.995)PS(0.005)K;Y(0.022)S(0.015)EEGLS(0.939)PS(0.024)K ; 164.48 0.00016619 78634000 5296.5 4368.1 3368.8 4870.6 4723.9 5369.4 5144.8 5551.2 5552.8 4363.7 TRUE FALSE FALSE 5853.610171 4509.629306 3827.88252 4964.877506 4361.955803 4911.896913 4565.893564 5409.208342 5514.157613 4551.840462 1.285987552 0.990726574 0.840952699 1.090740668 0.958283982 1.079101289 1.003087345 1.188356311 1.211412759 1 12.15223428 YSEEGLS(ph)PSKR ddPTM_HeLa_SAHA_4h_R1 2 YSEEGLSPSKR 11 1 J3KPG5;F8VU39;Q9UIF9-2;Q9UIF9-3;Q9UIF9;A0A0C4DGI9 J3KPG5 BAZ2A Bromodomain adjacent to zinc finger domain protein 2A 1 0 YSEEGLS(0.855)PS(0.145)KR;Y(0.003)S(0.001)EEGLS(0.693)PS(0.303)KR ; 120.55 0.005537 18383400 3951.3 3604.3 3507.6 4160.6 3980 4470.4 4652.5 3958.6 4800 3851.2 TRUE FALSE FALSE 4366.915863 3721.081685 3985.597461 4241.134429 3675.05326 4089.49677 4128.988455 3857.344744 4766.596409 4017.244079 1.087042703 0.926277222 0.992122306 1.055732324 0.91481951 1.017985636 1.027816178 0.960196759 1.186533931 1 11.9719904 -7.272334686 24.87188968 1.041103497 0.988204835 0.276995384 0.064796662 813.5684483 1857217.491 0.008524639 0.009800327 5.34E-08 7.272334686 -0.052898661 YSEK(ac)EDKYEEEIK ddPTM_HeLa_SAHA_4h_R1 1 YSEKEDKYEEEIK 13 2 P67936;A0A2R8Y5V9;A0A2R8YH90;P67936-2;K7ENT6;A0A2R8YE05;A0A2R8YHD2;A0A5F9UN72;K7EPB9 P67936 TPM4 Tropomyosin alpha-4 chain 0 1 YSEK(0.999)EDK(0.001)YEEEIK 149.69 2.62E-05 2567100 804 3242.7 1312.5 1307.6 2861.2 2522.6 2537.3 1525.5 2933 725.27 FALSE TRUE FALSE 888.5684089 3347.765608 1491.360665 1332.910489 2641.975474 2307.660288 2251.796326 1486.479919 2912.589014 756.5399391 1.174516193 4.425100956 1.971291386 1.761850789 3.492182418 3.050282172 2.97644078 1.96483998 3.849881366 1 9.563272437 -7.471041236 23.45450552 1.076991681 2.777773933 0 1.156547255 92.36673141 41792.71695 0.122652463 0.140064768 3.38E-08 7.471041236 1.700782252 YSGGNYRDNYDN ddPTM_HeLa_SAHA_4h_R1 1 YSGGNYRDNYDN 12 1 P98179 P98179 RBM3 RNA-binding protein 3 0 0 152.69 0.010632 16430000 2656.6 2317 3116.8 2425.4 2284.5 2285.3 2781.9 2915.2 1674.3 2369.4 FALSE FALSE TRUE 2936.033377 2392.07232 3541.541272 2472.347124 2109.462104 2090.579583 2468.87329 2840.633405 1662.64841 2471.55643 1.187928927 0.967840463 1.432919447 1.000319918 0.853495424 0.845855493 0.998914393 1.149329779 0.672713109 1 11.27120413 -6.014366482 24.70173393 1.108393045 0.952585628 0.005508329 0.198753424 717.1526754 1233075.147 0.022177066 0.03774906 9.67E-07 6.014366482 -0.155807417 YSGLTASSK(ac)K ddPTM_HeLa_SAHA_4h_R1 2 YSGLTASSKK 10 1 Q96AT1 Q96AT1 KIAA1143 Uncharacterized protein KIAA1143 0 1 ; YSGLTASSK(1)K;YSGLTASSK(1)K 180.09 3.98E-13 4497800 1206.38 1825.7 2912.6 3748.9 4342.3 3345.3 5390.1 2349 349.6 581.75 FALSE TRUE FALSE 1333.272583 1884.853878 3309.51396 3821.465381 4009.593912 3060.26162 4783.591762 2288.915981 347.1671051 606.8320895 2.197102966 3.106055053 5.453755688 6.297401615 6.607419056 5.043012182 7.882891898 3.771909925 0.572097473 1 9.245153568 -6.945470974 1.456607497 1.477016804 6.072153661 0.790802839 1.071031141 0.111973209 0.470153359 0.176239406 0.23896347 1.13E-07 6.945470974 4.595136857 YSGS(ph)YNDYLR ddPTM_HeLa_SAHA_4h_R1 2 YSGSYNDYLR 10 0 Q96PK6 Q96PK6 RBM14 RNA-binding protein 14 1 0 YS(0.009)GS(0.991)YNDYLR;YS(0.013)GS(0.987)YNDYLR ; 128.57 0.0018487 17838300 1765.29 2359.9 2286.8 2366.8 2909.6 2886 2683.5 2312.27 2516.2 2318 TRUE FALSE FALSE 1950.971302 2436.362308 2598.433195 2412.612836 2686.667077 2640.096564 2381.545517 2253.125482 2498.689559 2417.940324 0.806873223 1.007618875 1.074647364 0.997796684 1.111138703 1.091878297 0.984948013 0.931836679 1.033395876 1 11.23956292 -7.024803511 22.35960661 0.908719359 1.03519856 0.146090388 0.077066483 173.9895147 156846.1255 0.014353868 0.017641829 9.44E-08 7.024803511 0.126479202 YSGSEGSTQTLTK ddPTM_HeLa_SAHA_4h_R1 1 YSGSEGSTQTLTK 13 0 P25815 P25815 S100P Protein S100-P 0 0 131.69 0.0040812 3032100 407.59 270.28 369.96 307.55 388.3 567.07 522.91 607.92 404.72 387.06 FALSE FALSE TRUE 450.4621863 279.0372493 420.3762221 313.503075 358.5485379 518.7524458 464.0707906 592.3702867 401.9035206 403.7480508 1.115701204 0.691117267 1.041184524 0.776481953 0.888050201 1.284841982 1.149406888 1.467178072 0.995431482 1 8.657311485 -5.247146997 23.88420294 0.99580591 1.285368847 0.53857471 0.148506509 337.6402254 564232.6763 0.022190678 0.05624194 5.66E-06 5.247146997 0.289562936 YSHSYLS(ph)DSDTEAK ddPTM_HeLa_SAHA_4h_R1 2 YSHSYLSDSDTEAK 14 0 Q92614;A0A0D9SFK2;Q92614-3;Q92614-4;Q92614-2;Q92614-5 Q92614 MYO18A Unconventional myosin-XVIIIa 1 0 YSHS(0.03)YLS(0.725)DS(0.217)DT(0.028)EAK;YSHS(0.013)YLS(0.941)DS(0.046)DTEAK ; 188.09 1.89E-08 20422900 4138.5 5081.6 3655.4 4989.7 5267.8 712.47 5741.2 5817.2 7465.3 4866.2 TRUE FALSE FALSE 4573.806418 5246.247174 4153.538875 5086.282859 4864.182302 651.7635478 5095.185066 5668.404447 7413.348369 5076.005697 0.901064083 1.033538473 0.818269152 1.002024655 0.95826967 0.12840087 1.003778437 1.116705691 1.460468883 1 12.30947797 -5.424503782 21.87467296 0.952155763 0.736433206 0.121809834 0.295999901 23.79635531 5284.668444 0.033921292 0.075850437 3.76E-06 5.424503782 -0.215722557 YSHSYLSDS(ph)DTEAKLTETNA ddPTM_HeLa_SAHA_4h_R1 1 YSHSYLSDSDTEAKLTETNA 20 1 Q92614;A0A0D9SFK2;Q92614-3;Q92614-4;Q92614-2;Q92614-5 Q92614 MYO18A Unconventional myosin-XVIIIa 1 0 YSHSY(0.001)LS(0.079)DS(0.886)DT(0.026)EAKLT(0.007)ET(0.001)NA 66.853 0.0056388 5806500 688.48 706.03 688.47 642.33 725.28 525.91 926.82 918.28 556.77 757.21 TRUE FALSE FALSE 760.8974853 728.9058352 782.2911062 654.763226 669.7092031 481.0995093 822.5317743 894.7917273 552.8953922 789.8570288 0.963335715 0.922832625 0.990421149 0.828964233 0.847886616 0.609096953 1.041367924 1.132852775 0.699994267 1 9.625447726 -6.278225478 23.24927567 0.97733266 0.88215872 0 0.157330835 581.3216884 805147.768 0.020411239 0.031245711 5.27E-07 6.278225478 -0.09517394 YSIAITWGGHHIPK ddPTM_HeLa_SAHA_4h_R1 2 YSIAITWGGHHIPK 14 0 O75369-8;O75369-2;O75369-9;O75369;O75369-6;O75369-3;E7EN95;O75369-7;O75369-5;O75369-4 O75369-8 FLNB Filamin-B 0 0 ; ; 105.17 0.0020692 7400800 3006.2 5857.9 6533.3 5276.7 6292.1 4080.1 9834.5 4493.6 4901.5 4725.1 FALSE FALSE TRUE 3322.405909 6047.699804 7423.6241 5378.838159 5810.000657 3732.452526 8727.896177 4378.660219 4867.390062 4928.822185 0.674077048 1.227007098 1.50616594 1.091302944 1.178780739 0.75727068 1.770787391 0.888378613 0.987536145 1 12.26702722 -7.244618311 23.88404169 0.846091942 1.213976496 0.202631258 0.282798141 437.3979036 621056.2152 0.045325065 0.055419466 5.69E-08 7.244618311 0.367884554 YSLDPENPTK ddPTM_HeLa_SAHA_4h_R1 1 YSLDPENPTK 10 0 A0A087WXM6;J3QQT2;J3KRX5;A0A0A6YYL6;P18621;P18621-3;J3KSJ0;A0A087WY81;J3KRB3;A0A087WWH0;J3QS96 A0A087WXM6 RPL17;RPL17-C18orf32 60S ribosomal protein L17 0 0 110.14 0.011492 1103600 1518.9 1309.2 1357.4 1551.1 1551.5 1777.2 1396.7 1667.2 1741.8 1364.6 FALSE FALSE TRUE 1678.664871 1351.618939 1542.379403 1581.123783 1432.624405 1625.772562 1239.53964 1624.555438 1729.678672 1423.434584 1.179305947 0.949547632 1.083561844 1.110780784 1.006456089 1.142147718 0.870808995 1.141292657 1.215144476 1 10.47516048 -4.835907289 24.99999398 1.075987956 1.00592284 0.086924258 0.099429191 67.38183742 22618.8349 0.012994526 0.038983602 1.46E-05 4.835907289 -0.070065115 YSLEPVAVELK ddPTM_HeLa_SAHA_4h_R1 2 YSLEPVAVELK 11 0 P00558;P00558-2 P00558 PGK1 Phosphoglycerate kinase 1 0 0 ; ; 152.97 6.30E-06 547460 0 446.86 389.24 308.33 366.29 505.52 159.87 254.839 528.91 284.198 FALSE FALSE TRUE 0 461.3385572 442.2836001 314.298173 338.2249393 462.446852 141.8810068 248.3205874 525.2292722 296.4511666 0 1.556204222 1.491927339 1.06020218 1.14091283 1.559942763 0.478598241 0.837644156 1.771722737 1 8.211650664 -7.254191312 24.99375603 0.527777776 1.157995318 0 0.552688508 563.5042864 1943151.815 0.081218395 0.098373485 5.57E-08 7.254191312 0.630217542 YSLS(ph)PSK ddPTM_HeLa_SAHA_4h_R1 4 YSLSPSK 7 0 P49792;A0A1W2PNU4;P0DJD1;P0DJD0;A0A286YES2;F8VYC4;O14715;J3KQ37;F8W705;Q99666-2;J3KNE0;Q7Z3J3;A6NKT7;Q99666 P49792;J3KNE0;Q99666 RANBP2;RGPD2;RGPD1;RGPD8;RGPD5;RGPD3;RGPD4 E3 SUMO-protein ligase RanBP2;RANBP2-like and GRIP domain-containing protein 2;RANBP2-like and GRIP domain-containing protein 1;RANBP2-like and GRIP domain-containing protein 8;RANBP2-like and GRIP domain-containing protein 5/6;RanBP2-like and GRIP domain-containing protein 4;RanBP2-like and GRIP domain-containing protein 3 1 0 Y(0.001)S(0.003)LS(0.979)PS(0.017)K;YS(0.007)LS(0.86)PS(0.133)K;YS(0.008)LS(0.982)PS(0.01)K;YSLS(0.834)PS(0.165)K ;;; 126.24 0.0022971 243573000 14467.8 17590.3 16040.2 16541.7 19545.4 15331.1 21296.1 11897.3 8857.3 13679.4 TRUE FALSE FALSE 15989.58958 18160.23726 18226.07492 16861.88852 18047.83567 14024.80403 18899.80678 11592.98429 8795.661328 14269.18588 1.120567755 1.272689095 1.277303069 1.181699409 1.26481187 0.982873455 1.324518928 0.812448894 0.616409472 1 13.8006154 -8.381134166 1.056814189 1.018782859 1.165618692 0.209496779 0.195610638 0.594010666 1.36410585 0.043275759 0.027839088 4.16E-09 8.381134166 0.146835833 YSPDEMNNS(ph)PNFEEK ddPTM_HeLa_SAHA_4h_R1 1 YSPDEMNNSPNFEEK 15 0 H7C3B5;Q14687-2;Q14687-3;Q14687;H0Y613 H7C3B5 GSE1 Genetic suppressor element 1 1 0 YSPDEMNNS(1)PNFEEK 136.26 0.00019619 5414800 1170 1010.2 883.66 1032.5 1336.7 1325.1 1258 1014.6 1090.4 1020.7 TRUE FALSE FALSE 1293.065968 1042.931143 1004.080583 1052.485531 1234.282335 1212.194025 1116.446529 988.6480011 1082.811818 1064.707372 1.214480149 0.979547217 0.943057791 0.988520938 1.159269079 1.138523182 1.04859472 0.928563122 1.017004151 1 10.05624125 -7.214185293 24.99639736 1.10128249 1.032161316 0.040262544 0.090143641 822.1691909 434910.2306 0.018133376 0.02220875 6.11E-08 7.214185293 -0.069121173 YSPPAIS(ph)PLVSEK ddPTM_HeLa_SAHA_4h_R1 1 YSPPAISPLVSEK 13 0 Q14694;Q14694-3;Q14694-2 Q14694 USP10 Ubiquitin carboxyl-terminal hydrolase 10 1 0 YS(0.048)PPAIS(0.948)PLVS(0.004)EK 103.66 0.0037857 5774900 760.87 805.64 830.19 781.86 862.8 969.2 953.69 824.33 1106.5 761.85 TRUE FALSE FALSE 840.9017976 831.7432646 943.3239698 796.9940309 796.6924504 886.6187074 846.3782912 803.2448322 1098.799776 794.6970819 1.058141293 1.046616734 1.187023322 1.002890345 1.002510854 1.115668759 1.06503259 1.010755986 1.382664919 1 9.634261237 -8.89331103 0.820385033 1.001351038 1.062619056 0 0.13109985 0.86552518 1.106525481 0.030422662 0.010769571 1.28E-09 8.89331103 0.061268018 YSPSQNS(ph)PIHHIPSR ddPTM_HeLa_SAHA_4h_R1 2 YSPSQNSPIHHIPSR 15 0 E9PK91;Q9NYF8-3;A0A1W2PQ43;E9PQN2;E9PKI6;E9PK09;E9PJA7;H0YF00;Q9NYF8-2;Q9NYF8;Q9NYF8-4 E9PK91;Q9NYF8-2 BCLAF1 Bcl-2-associated transcription factor 1 1 0 YS(0.001)PS(0.11)QNS(0.889)PIHHIPSR;YS(0.003)PS(0.444)QNS(0.553)PIHHIPS(0.001)R ; 126.91 0.0003552 30630000 2642.23 3650.97 2106.59 2665.23 3657.5 3485.42 3922.19 3358.74 4676.4 3270.78 TRUE FALSE FALSE 2920.151874 3769.263823 2393.665115 2716.819381 3377.26314 3188.442608 3480.854859 3272.828294 4643.856552 3411.799333 0.855897897 1.104773012 0.701584379 0.796301047 0.989877426 0.934534038 1.020240207 0.959267523 1.361116554 1 11.73631708 YSPT(ph)SPTYSPT(ph)SPK ddPTM_HeLa_SAHA_4h_R1 1 YSPTSPTYSPTSPK 14 0 P24928 P24928 POLR2A DNA-directed RNA polymerase II subunit RPB1 2 0 Y(0.003)S(0.018)PT(0.848)S(0.132)PT(0.042)Y(0.002)S(0.042)PT(0.841)S(0.072)PK 130.47 0.0019625 16117000 4266.2 4045.5 3408.7 4200.1 4425.7 4807 4677 4952.1 4732.6 3813.9 TRUE FALSE FALSE 4714.93849 4176.576854 3873.219884 4281.399009 4086.603822 4397.416557 4150.731651 4825.432453 4699.665451 3978.335894 1.185153445 1.049830121 0.973577895 1.076178363 1.027214376 1.105340694 1.043333635 1.21292736 1.181314393 1 11.95794937 -4.25359988 24.03691372 1.073188812 1.212927477 0.290022248 0.066407417 662.9687553 2032661.452 0.010497892 0.148838682 5.58E-05 4.25359988 0.139738666 YSPTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 2 YSPTSPK 7 0 P24928 P24928 POLR2A DNA-directed RNA polymerase II subunit RPB1 1 0 YSPT(0.096)S(0.904)PK;YSPT(0.096)S(0.904)PK ; 105.1 0.010688 255480000 21015.9 21652.3 18748.3 22332.9 24443.4 24563 24698.2 25662 22340.1 21237.2 TRUE FALSE FALSE 23226.44879 22353.84873 21303.22069 22765.18557 22570.55197 22470.09421 21919.09353 25005.6032 22184.63343 22152.83962 1.048463727 1.00907374 0.961647403 1.027641872 1.018855928 1.01432117 0.989448482 1.128776429 1.001435202 1 14.43520402 -4.252979129 24.76967372 1.016114216 1.128776493 0.699361813 0.023221791 488.1733595 1429224.255 0.00364944 0.055989505 5.58E-05 4.252979129 0.112662277 YSPTS(ph)PTYS(ph)PTSPK ddPTM_HeLa_SAHA_4h_R1 2 YSPTSPTYSPTSPK 14 0 P24928 P24928 POLR2A DNA-directed RNA polymerase II subunit RPB1 2 0 YS(0.004)PT(0.536)S(0.45)PT(0.016)Y(0.007)S(0.43)PT(0.387)S(0.169)PK;YS(0.001)PT(0.256)S(0.741)PT(0.002)YS(0.863)PT(0.125)S(0.011)PK ; 150.12 0.00086349 81664000 7696.3 7605 6316 6910.4 7647.8 7842.1 7992.8 8662 8062.5 7858.4 TRUE FALSE FALSE 8505.832146 7851.40699 7176.711588 7044.160785 7061.827216 7173.908962 7093.429108 8440.438582 8006.392406 8197.214082 1.03764914 0.957814071 0.87550618 0.859335954 0.861491129 0.87516428 0.865346328 1.029671605 0.976721155 1 13.00091796 -6.979466625 3.527415916 1.017480803 0.889446979 0.493271611 0.049866499 0.115270951 3.064268401 0.007859412 0.010233643 1.05E-07 6.979466625 -0.128033824 YSPTS(ph)PTYSPTTPK ddPTM_HeLa_SAHA_4h_R1 3 YSPTSPTYSPTTPK 14 0 P24928 P24928 POLR2A DNA-directed RNA polymerase II subunit RPB1 1 0 YS(0.001)PT(0.004)S(0.985)PT(0.01)YSPTTPK;YSPT(0.023)S(0.878)PT(0.096)YS(0.002)PT(0.001)TPK;YSPT(0.005)S(0.887)PT(0.108)YSPTTPK ;; 153 5.27E-05 182464800 5255.97 5489.8 5207.3 5201.34 6862.05 7272.5 6287.33 6103.42 5825.74 5699.44 TRUE FALSE FALSE 5808.81704 5667.673122 5916.923726 5302.019457 6336.281211 6652.842086 5579.863081 5947.303354 5785.198201 5945.170751 0.977064795 0.953323859 0.995248744 0.891819542 1.065786245 1.119032971 0.938553881 1.000358712 0.973092018 1 12.53750253 YSPTSPTYS(ph)PTSPK ddPTM_HeLa_SAHA_4h_R1 2 YSPTSPTYSPTSPK 14 0 P24928 P24928 POLR2A DNA-directed RNA polymerase II subunit RPB1 1 0 YSPT(0.001)S(0.003)PT(0.036)YS(0.924)PT(0.036)S(0.001)PK;YSPTS(0.007)PT(0.011)YS(0.883)PT(0.098)S(0.002)PK ; 174.95 1.35E-06 112095000 4433.9 3853.4 3843 3972.5 4018.7 4166.4 4296.4 4746.4 4089.08 4161.61 TRUE FALSE FALSE 4900.277945 3978.252688 4366.704027 4049.393482 3710.788074 3811.39928 3812.957764 4624.993961 4060.623759 4341.037374 1.128826482 0.916429034 1.005912562 0.932817005 0.85481597 0.877992736 0.878351748 1.06541215 0.935404008 1 12.08382413 -7.245543484 24.58805921 1.060834728 0.928657055 0.162975958 0.077099816 480.3653891 743038.5751 0.012448324 0.015218172 5.68E-08 7.245543484 -0.132177672 YSPTSPTYSPT(ph)SPK ddPTM_HeLa_SAHA_4h_R1 2 YSPTSPTYSPTSPK 14 0 P24928 P24928 POLR2A DNA-directed RNA polymerase II subunit RPB1 1 0 YSPTS(0.001)PT(0.117)YS(0.063)PT(0.727)S(0.092)PK;YSPTS(0.002)PT(0.006)YS(0.006)PT(0.861)S(0.124)PK ; 206.32 4.50E-12 34562000 4781.4 4363.5 4924.8 4659.4 5563.7 6462.1 5347.7 4994.7 4448 4815.4 TRUE FALSE FALSE 5284.32959 4504.880263 5595.926097 4749.589425 5137.410508 5911.492725 4745.962722 4866.942806 4417.046006 5023.01546 1.052023358 0.89684778 1.114057112 0.945565361 1.022774178 1.176881252 0.944843343 0.968928494 0.87936142 1 12.294338 -9.869732242 1.99006829 0.999838042 1.023099972 0.014218073 0.088630032 1.965415378 14.09191031 0.057684298 0.01144054 1.35E-10 9.869732242 0.02326193 YSPTSPTYSPT(ph)TPK ddPTM_HeLa_SAHA_4h_R1 1 YSPTSPTYSPTTPK 14 0 P24928 P24928 POLR2A DNA-directed RNA polymerase II subunit RPB1 1 0 YSPTSPTYS(0.001)PT(0.968)T(0.031)PK 93.766 0.012804 5583400 1229.7 1422.9 1369.2 1534.7 1743.9 1736.9 1426.3 1561.3 1329.9 1393.3 TRUE FALSE FALSE 1359.045488 1469.002894 1555.787446 1564.406338 1610.282759 1588.906348 1265.80897 1521.364207 1320.645118 1453.371982 0.935098175 1.010754929 1.070467482 1.076397755 1.10796326 1.093255112 0.870946314 1.046782397 0.908676605 1 10.50518828 -7.016537653 6.701336869 0.969448368 1.042919425 0.28053254 0.066365907 0.196794867 40.06964741 0.011138039 0.014057765 9.63E-08 7.016537653 0.073471057 YSPTSPTYSPTSPVYT(ph)PTSPK ddPTM_HeLa_SAHA_4h_R1 1 YSPTSPTYSPTSPVYTPTSPK 21 0 P24928 P24928 POLR2A DNA-directed RNA polymerase II subunit RPB1 1 0 YSPTSPTYSPTSPVYT(0.452)PT(0.119)S(0.428)PK 139.28 7.57E-06 4812100 1547.3 1103.2 1328.5 1621.1 1522.7 1539.3 1560 1382.9 1400 1393.8 TRUE FALSE FALSE 1710.052113 1138.944404 1509.541061 1652.478735 1406.031055 1408.14298 1384.464694 1347.52742 1390.257286 1453.893539 1.176187986 0.78337538 1.038274826 1.13658854 0.967079788 0.968532387 0.952246266 0.926840504 0.956230459 1 10.50570592 -5.094047033 0.543651268 1.066578521 0.891939221 0 0.107885464 2.816290194 0.951409616 0.024427673 0.263783776 8.05E-06 5.094047033 -0.1746393 YSPTSPTYSPTSPVYTPTS(ph)PK ddPTM_HeLa_SAHA_4h_R1 1 YSPTSPTYSPTSPVYTPTSPK 21 0 P24928 P24928 POLR2A DNA-directed RNA polymerase II subunit RPB1 1 0 YSPTSPTYSPTSPVY(0.001)T(0.005)PT(0.206)S(0.788)PK 111.53 9.60E-05 4504200 710.71 760.74 756.54 720.08 1117.4 860.2 858.5 676.21 666.24 790.34 TRUE FALSE FALSE 785.4657387 785.3884751 859.6373313 734.0181897 1031.785053 786.9061206 761.8993206 658.9135273 661.6035816 824.4154252 0.952754782 0.952661063 1.042723492 0.890349898 1.251535357 0.954501937 0.924169172 0.799249392 0.802512376 1 9.687227688 -4.389528357 2.297250528 0.991859792 0.780671063 0.198317159 0.109755921 0.422861597 3.154422059 0.012266831 0.159122444 4.08E-05 4.389528357 -0.211188729 YSQKEDK(ac)YEEEIK ddPTM_HeLa_SAHA_4h_R1 2 YSQKEDKYEEEIK 13 2 J3KN67;A0A2R2Y2Q3;P06753;P06753-7;A0A494C034;P06753-2;P06753-5;P06753-3;P06753-6;P06753-4 J3KN67;P06753-2 TPM3 Tropomyosin alpha-3 chain 0 1 ; YSQK(0.003)EDK(0.997)YEEEIK;YSQKEDK(1)YEEEIK 145.43 5.41E-05 6626700 1287.49 4190.6 2018.58 1956 4169.7 4305.3 4287.3 3097.63 4011.7 1619.6 FALSE TRUE FALSE 1422.914105 4326.37819 2293.66157 1993.861208 3850.218487 3938.464219 3804.88172 3018.39711 3983.782253 1689.428882 0.842245637 2.560852508 1.357655001 1.180198367 2.279005957 2.331240019 2.2521704 1.786637568 2.358064489 1 10.72231991 -6.941047851 0.727893505 0.897093375 2.09811647 0 0.661918178 0.381763284 0.413684975 0.118358119 0.1747515 1.15E-07 6.941047851 1.201023094 YSS(ph)QDADEQDWEFQKR ddPTM_HeLa_SAHA_4h_R1 1 YSSQDADEQDWEFQKR 16 1 Q9C0C2;Q9C0C2-2;A0A2R8Y5C4 Q9C0C2 TNKS1BP1 182 kDa tankyrase-1-binding protein 1 0 YS(0.128)S(0.871)QDADEQDWEFQKR 103.17 0.0015633 4765900 844.11 679.62 654.25 792.46 1187.1 828.13 660.22 742.37 661.38 668.55 TRUE FALSE FALSE 932.8973627 701.6401339 743.4077828 807.7992092 1096.144654 757.5686651 585.930308 723.3812503 656.7774027 697.3744623 1.337728026 1.006116759 1.066009473 1.158343548 1.571816454 1.086315468 0.840194673 1.03729243 0.941785853 1 9.445789724 -4.990487366 22.02977674 1.17360302 0.944870763 0.175948284 0.18131406 59.12831206 136919.8382 0.026089105 0.078023505 1.02E-05 4.990487366 -0.228732257 YSS(ph)TETLKDDDLWSSR ddPTM_HeLa_SAHA_4h_R1 1 YSSTETLKDDDLWSSR 16 1 Q96PE2 Q96PE2 ARHGEF17 Rho guanine nucleotide exchange factor 17 1 0 YS(0.053)S(0.894)T(0.053)ET(0.001)LKDDDLWSSR 121.45 0.00077151 0 437.33 304.04 453.47 270.72 341.78 446.56 403.1 366.34 444.03 349.74 TRUE FALSE FALSE 483.3303759 313.8910955 515.26653 275.9601771 315.5928902 408.5105757 357.7421271 356.9695533 440.9399591 364.819003 1.32484978 0.860402262 1.412389502 0.75643038 0.865067027 1.119762327 0.98060168 0.978483989 1.208654032 1 8.511037069 -6.248285713 24.99967973 1.148319861 0.948137086 0.298646501 0.168675247 930.3155895 1768144.501 0.027262376 0.045031822 5.65E-07 6.248285713 -0.200182775 YSSEVATES(ph)PLDFTK ddPTM_HeLa_SAHA_4h_R1 2 YSSEVATESPLDFTK 15 0 Q8WTT2 Q8WTT2 NOC3L Nucleolar complex protein 3 homolog 1 0 YSSEVAT(0.044)ES(0.786)PLDFT(0.169)K;YSSEVAT(0.034)ES(0.963)PLDFT(0.003)K ; 165.89 3.79E-06 12302200 2402.45 1980.93 1826.85 2052.47 1833.67 2768.05 2807.7 2662 2546.03 2334.7 TRUE FALSE FALSE 2655.150714 2045.113432 2075.803604 2092.198525 1693.174601 2532.196567 2491.770207 2593.909895 2528.31197 2435.360343 1.090249631 0.839758041 0.852359944 0.859091974 0.695246026 1.039762586 1.023162841 1.065103118 1.038167505 1 11.24991954 -7.266641667 24.92739793 1.042617882 0.907426037 0.241723243 0.107164679 456.7530751 2188584.796 0.019573736 0.022740341 5.41E-08 7.266641667 -0.135191845 YSSSGTPSSAS(ph)PALSR ddPTM_HeLa_SAHA_4h_R1 2 YSSSGTPSSASPALSR 16 0 Q14934-2;Q14934-9;Q14934-3;Q14934-4;Q14934-5;Q14934-6;Q14934-7;Q14934;Q14934-8;Q14934-10;Q14934-18;Q14934-11;Q14934-12;Q14934-13;Q14934-14;Q14934-15;Q14934-16;Q14934-17 Q14934-2 NFATC4 "Nuclear factor of activated T-cells, cytoplasmic 4" 1 0 YSSSGTPSSAS(0.993)PALS(0.007)R;YSSSGTPSS(0.001)AS(0.999)PALSR ; 240.5 3.54E-36 19732000 1920.93 2735.2 2296.28 1818.58 2418.3 2228.9 1915.92 1608.46 2641.6 2554.6 TRUE FALSE FALSE 2122.982231 2823.822275 2609.20508 1853.781246 2233.010376 2038.985181 1700.335639 1567.317922 2623.216891 2664.741308 0.796693557 1.059698465 0.979158867 0.695670248 0.837983924 0.765171904 0.638086569 0.588168884 0.984417092 1 11.37977977 -3.381489225 0.352905264 0.933735376 5.66E-16 0.657157226 0.091889574 6.298428655 0.342721209 0.032762126 2.845644313 0.000415442 3.381489225 -0.933735376 YSSSSIPEPFGS(ph)RGSPR ddPTM_HeLa_SAHA_4h_R1 1 YSSSSIPEPFGSRGSPR 17 1 Q8WUF5;K7EN03 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 YSSSS(0.003)IPEPFGS(0.801)RGS(0.196)PR 98.552 0.014286 3166400 590.44 589.81 385 558.78 548.27 587.63 730.7 508.82 611.86 572.57 TRUE FALSE FALSE 652.5451882 608.920231 437.465795 569.5959949 506.261671 537.5606181 648.4797129 495.8051212 607.6020164 597.2562948 1.09257147 1.019529198 0.732459078 0.953687721 0.847645601 0.900050151 1.085764551 0.830137958 1.017322081 1 9.222206344 -6.972633201 24.99958685 1.044363602 0.899515438 0.376816623 0.08835076 167.8931717 153370.1657 0.014075339 0.018498397 1.07E-07 6.972633201 -0.144848164 YSSSSIPEPFGSRGS(ph)PR ddPTM_HeLa_SAHA_4h_R1 1 YSSSSIPEPFGSRGSPR 17 1 Q8WUF5;K7EN03 Q8WUF5 PPP1R13L RelA-associated inhibitor 1 0 YSSSSIPEPFGS(0.311)RGS(0.689)PR 122.16 0.0023078 26145000 2655.1 2062.8 2037.2 2029.5 2555 1950.2 2333.3 2319.6 2038.2 1959.8 TRUE FALSE FALSE 2934.3756 2129.636073 2314.819007 2068.783907 2359.236452 1784.031988 2070.750943 2260.267991 2024.016 2044.296569 1.435396236 1.041745168 1.132330329 1.011978369 1.154057825 0.872687464 1.012940575 1.105645837 0.990079439 1 10.99738879 YSVDIPLDK ddPTM_HeLa_SAHA_4h_R1 1 YSVDIPLDK 9 0 P61353;K7ELC7 P61353 RPL27 60S ribosomal protein L27 0 0 131.62 0.0018904 2058100 2697.1 2549.7 2543.1 2625.4 2804.3 2952 2773.1 2462.5 2529.4 2372.3 FALSE FALSE TRUE 2980.793353 2632.311953 2889.660424 2676.218413 2589.43514 2700.472993 2461.06349 2399.512816 2511.797699 2474.581463 1.20456465 1.06374027 1.167737037 1.081483254 1.046413375 1.091284742 0.994537269 0.969664104 1.015039407 1 11.27296882 -4.560296022 1.065969411 1.099691133 0.930444923 0.282457385 0.061138723 1.261326128 1.565341688 0.012067887 0.212745634 2.75E-05 4.560296022 -0.169246211 YSVGSLS(ph)PVSASVLK ddPTM_HeLa_SAHA_4h_R1 2 YSVGSLSPVSASVLK 15 0 Q9UBU7 Q9UBU7 DBF4 Protein DBF4 homolog A 1 0 YSVGSLS(0.997)PVS(0.003)ASVLK;YSVGS(0.028)LS(0.918)PVS(0.052)AS(0.002)VLK ; 190.86 5.04E-09 8153300 1184.54 1657.39 1320.5 1548.89 1501.17 1338.38 1485.91 1201.64 1512.07 1423.19 TRUE FALSE FALSE 1309.135352 1711.090523 1500.450863 1578.871006 1386.150679 1224.342494 1318.711496 1170.903789 1501.547382 1484.550686 0.881839444 1.152598251 1.010710431 1.06353459 0.933717314 0.824722595 0.888289978 0.788726043 1.011449051 1 10.53581064 -5.385695762 4.313728093 0.974043573 0.839844822 0.497313547 0.075704789 0.207693859 6.321402359 0.012481678 0.02890774 4.11E-06 5.385695762 -0.134198751 YSVLNNDDYFADVS(ph)PLR ddPTM_HeLa_SAHA_4h_R1 4 YSVLNNDDYFADVSPLR 17 0 Q1ED39;H3BMC9 Q1ED39 KNOP1 Lysine-rich nucleolar protein 1 1 0 YSVLNNDDYFADVS(1)PLR;YSVLNNDDYFADVS(1)PLR;YSVLNNDDYFADVS(1)PLR;YSVLNNDDYFADVS(1)PLR ;;; 303.14 3.28E-87 72988000 5429.14 6574.9 4743.95 5680.08 6287.27 6200.64 6697.53 5006.05 8657.9 7403.6 TRUE FALSE FALSE 6000.201855 6787.931074 5390.430801 5790.026162 5805.540731 5672.310588 5943.906297 4878.00249 8597.648969 7722.805428 0.776945879 0.878946276 0.697988684 0.749730939 0.751739868 0.734488346 0.769656358 0.631636073 1.113280536 1 12.91490931 -13.52287875 0.152660064 1.974505646 0.663143495 0.813655102 0.059914467 18.84301544 0.195006973 5.463619901 0.102929361 3.00E-14 13.52287875 -1.311362151 YSVLNNDDYFADVSPLRAT(ph)S(ph)PSK ddPTM_HeLa_SAHA_4h_R1 1 YSVLNNDDYFADVSPLRATSPSK 23 1 Q1ED39;H3BMC9 Q1ED39 KNOP1 Lysine-rich nucleolar protein 1 2 0 YSVLNNDDYFADVS(0.473)PLRAT(0.677)S(0.571)PS(0.278)K 71.042 0.0099141 18551000 1406.8 1710.8 1404.5 1117.1 1371.5 1068.5 1653.8 1299.5 874.54 1515.2 TRUE FALSE FALSE 1554.773679 1766.231042 1595.897946 1138.723086 1266.415966 977.4577888 1467.710071 1266.260672 868.4540049 1580.527687 0.983705437 1.117494528 1.009724764 0.720470192 0.801261488 0.618437625 0.928620285 0.801163233 0.549470922 1 10.62619059 -6.269196875 24.79003261 1.00467842 0.775454325 0.116876866 0.165194684 232.1692689 741924.9794 0.012095043 0.018692262 5.38E-07 6.269196875 -0.229224096 YSVLNNDDYFADVSPLRATS(ph)PS(ph)K ddPTM_HeLa_SAHA_4h_R1 1 YSVLNNDDYFADVSPLRATSPSK 23 1 Q1ED39;H3BMC9 Q1ED39 KNOP1 Lysine-rich nucleolar protein 1 2 0 YSVLNNDDYFADVS(0.032)PLRAT(0.489)S(0.859)PS(0.62)K 87.319 0.0017076 20850000 2753.6 2341.3 2631.7 1784.3 2658.5 2190.7 2433 2649.7 1878.1 2493.6 TRUE FALSE FALSE 3043.236282 2417.159656 2990.334371 1818.837707 2454.806304 2004.040035 2159.232437 2581.924511 1865.030149 2601.111299 1.169975419 0.929279596 1.149637223 0.699254087 0.943752889 0.770455319 0.830119202 0.992623619 0.71701282 1 11.34491242 -6.272877967 24.99937551 1.07330881 0.847385706 0.085284639 0.150590835 429.4289929 938528.8943 0.015822767 0.024299026 5.33E-07 6.272877967 -0.225923105 YSVQTADHR ddPTM_HeLa_SAHA_4h_R1 2 YSVQTADHR 9 0 Q16658 Q16658 FSCN1 Fascin 0 0 ; ; 154.85 0.00023697 7305200 6366.8 7536.5 6896.6 7828.9 9158.4 7241.5 9383.8 6158.5 4618.7 5748.7 FALSE FALSE TRUE 7036.489236 7780.687545 7836.432732 7980.43968 8456.685371 6624.48346 8327.910127 6000.974487 4586.558091 5996.55459 1.173422026 1.297526342 1.306822545 1.330837493 1.410257381 1.104714943 1.388782509 1.000737073 0.764865561 1 12.5499181 -8.185467304 0.822067008 1.023200527 1.270268468 0.454823519 0.146149035 0.361472423 0.525022008 0.039730724 0.025936986 6.52E-09 8.185467304 0.247067941 YSYYDESQGEIYR ddPTM_HeLa_SAHA_4h_R1 1 YSYYDESQGEIYR 13 0 Q9Y316-2;Q9Y316;Q9Y316-3 Q9Y316-2 MEMO1 Protein MEMO1 0 0 126.34 0.0053615 4911900 512.08 613.34 456.09 468.56 488.05 616.1 684.8 642.9 540.1 571.62 FALSE FALSE TRUE 565.9429239 633.2126184 518.24357 477.6296563 450.6557144 563.6048139 607.7445017 626.4555489 536.3414001 596.2653356 0.94914611 1.061964499 0.869149251 0.801035425 0.755797273 0.945224852 1.019251775 1.050632179 0.899501225 1 9.219810657 -6.737707796 24.99939832 0.981763109 0.902026433 0.122187951 0.092168526 362.1510617 381497.5313 0.01519098 0.021476739 1.83E-07 6.737707796 -0.079736676 YTCGEAPDYDR ddPTM_HeLa_SAHA_4h_R1 2 YTCGEAPDYDR 11 0 P21266;A0A0A0MTN3 P21266 GSTM3 Glutathione S-transferase Mu 3 0 0 ; ; 153.97 0.0022462 24454000 1995.12 1966.03 1568.73 2531.9 2252 2833.2 2304.5 2282.38 2918.4 2020.19 FALSE FALSE TRUE 2204.975876 2029.730662 1782.508355 2580.908586 2079.452247 2591.795421 2045.191595 2224.000024 2898.090617 2107.290277 1.046356024 0.963194622 0.845876989 1.224752287 0.986789655 1.229918559 0.9705315 1.055383802 1.375268822 1 11.04117334 -6.251677056 24.99977327 1.005109496 1.08829816 0 0.151588112 1000.551011 2562251.697 0.013794974 0.022700295 5.60E-07 6.251677056 0.083188664 VGTASVLQPVK(ac)K ddPTM_HeLa_SAHA_4h_R1 1 VGTASVLQPVKK 12 1 Q2TAL8 Q2TAL8 QRICH1 Glutamine-rich protein 1 0 1 VGTASVLQPVK(1)K 81.525 0.022167 1127200 471.22 321.25 408.25 584.37 547.02 643.28 760.96 727.09 336.69 273.72 FALSE TRUE FALSE 520.7850816 331.6587108 463.8841839 595.6813264 505.1074458 588.468925 675.3347781 708.4920906 334.3469469 285.5214088 1.823979098 1.161589641 1.624691423 2.086293035 1.769070305 2.061032577 2.365268443 2.481397433 1.171004824 1 8.157455115 -1 0.081537469 0.30172627 5.988550025 0.788614059 0.224705166 67.78673649 0.40574731 4.285006871 43.59599007 0.1 1 5.686823755 YTGEDFDEDLR ddPTM_HeLa_SAHA_4h_R1 1 YTGEDFDEDLR 11 0 Q14204;A0A2R8Y706;A0A2R8YFZ7;A0A2R8Y6H2 Q14204 DYNC1H1 Cytoplasmic dynein 1 heavy chain 1 0 0 194.94 1.85E-06 6551900 648.44 541.07 534.61 722.65 747.4 939.78 761.54 655.07 561.72 730.87 FALSE FALSE TRUE 716.6458943 558.601023 607.4638667 736.6379357 690.1343735 859.7054569 675.8495149 638.3142579 557.8109448 762.3813825 0.9400097 0.732705488 0.796797877 0.96623285 0.905235082 1.127657989 0.886497927 0.837263701 0.731669159 1 9.574369079 -7.90957808 2.124816046 0.981173451 0.899777062 0 0.127589777 0.489106088 4.511913309 0.021989129 0.020455133 1.23E-08 7.90957808 -0.081396389 YTLENKEEGSLS(ph)DTEADAVSGQLPDPTTNPSAGK ddPTM_HeLa_SAHA_4h_R1 2 YTLENKEEGSLSDTEADAVSGQLPDPTTNPSAGK 34 1 Q8N1G4 Q8N1G4 LRRC47 Leucine-rich repeat-containing protein 47 1 0 YTLENKEEGS(0.003)LS(0.832)DT(0.164)EADAVSGQLPDPTTNPSAGK;YTLENKEEGS(0.006)LS(0.858)DT(0.135)EADAVS(0.001)GQLPDPTTNPSAGK ; 116.52 7.24E-15 35992000 6585.4 8637.7 6196.7 8025.7 8432.8 10102.8 7896.7 7825.6 10539.6 7916 TRUE FALSE FALSE 7278.082587 8917.567147 7041.154005 8181.049029 7786.680686 9241.984603 7008.142533 7625.432483 10466.25407 8257.2975 0.88141218 1.079961955 0.852718944 0.990765929 0.943005952 1.11925053 0.84872109 0.923477988 1.267515681 1 13.01145397 -5.891987856 0.002498135 1.896095575 8.13E-05 0 0.129703762 387052.8908 303.7798332 114295.8092 116265.2762 1.28E-06 5.891987856 -1.89601431 YTLNVLEDLGDGQK ddPTM_HeLa_SAHA_4h_R1 1 YTLNVLEDLGDGQK 14 0 P13797-3;P13797;A0A0A0MSQ0;P13797-2 P13797-3 PLS3 Plastin-3 0 0 162.97 7.49E-07 0 0 0 0 0 72.439 0 85.48 82.049 0 0 FALSE FALSE TRUE 0 0 0 0 66.88873947 0 75.86156543 79.95030539 0 0 0 YTPAS(ph)PSSPDFTTWSCAK ddPTM_HeLa_SAHA_4h_R1 1 YTPASPSSPDFTTWSCAK 18 0 A0A1B0GVE3;O75808-2;O75808 A0A1B0GVE3 CAPN15 Calpain-15 1 0 YTPAS(0.374)PS(0.374)S(0.252)PDFTTWSCAK 167.29 8.11E-20 0 494.72 391.26 461.62 322.14 532.96 384.47 349.64 385.89 296.57 428.87 TRUE FALSE FALSE 546.7569195 403.9370807 524.5271696 328.3754855 492.1247199 351.710993 310.297587 376.0194926 294.5061452 447.3606845 1.222183662 0.902933795 1.172492773 0.734028485 1.100062515 0.78619111 0.693618366 0.840528695 0.658319239 1 8.805294663 -5.740684318 0.797436956 1.09783102 0.75288344 0 0.195141742 0.495697149 0.5684873 0.025636688 0.097229422 1.82E-06 5.740684318 -0.34494758 YTPTSPSYSPS(ph)SPEYTPTSPK ddPTM_HeLa_SAHA_4h_R1 1 YTPTSPSYSPSSPEYTPTSPK 21 0 P24928 P24928 POLR2A DNA-directed RNA polymerase II subunit RPB1 1 0 YT(0.001)PT(0.001)S(0.002)PS(0.014)Y(0.048)S(0.048)PS(0.441)S(0.441)PEY(0.005)T(0.001)PTSPK 77.031 0.0013692 4382600 2809.7 2494.8 2335.2 2539.8 3150.6 3188.7 2930.7 3443.7 2011.3 2944.8 TRUE FALSE FALSE 3105.237137 2575.633157 2653.428895 2588.961502 2909.201709 2917.004821 2600.929923 3355.61514 1997.3032 3071.76474 1.010896797 0.838486465 0.863812538 0.842825451 0.947078294 0.949618564 0.84672172 1.092406296 0.650213597 1 11.58485201 -7.289024863 24.22267793 1.00514572 0.907419404 0 0.13346161 438.3242323 384889.1125 0.011610354 0.013278825 5.14E-08 7.289024863 -0.097726316 YTPTSPSYSPSS(ph)PEYTPTSPK ddPTM_HeLa_SAHA_4h_R1 1 YTPTSPSYSPSSPEYTPTSPK 21 0 P24928 P24928 POLR2A DNA-directed RNA polymerase II subunit RPB1 1 0 YTPTSPS(0.001)Y(0.001)S(0.008)PS(0.129)S(0.86)PEYTPTSPK 135.09 6.75E-08 0 1234.8 1306.8 1028.2 1260.2 1401.5 1348.3 1680.4 1546.1 917.75 1233.1 TRUE FALSE FALSE 1364.681929 1349.141177 1168.317741 1284.592993 1294.117373 1233.417255 1491.316969 1506.553001 911.363303 1286.264976 1.060964852 1.048882775 0.908302538 0.998700126 1.006104805 0.958913815 1.159416604 1.171261777 0.708534649 1 10.32897216 -4.745889902 24.29690591 1.014679821 1.165339406 0.281063761 0.105866673 84.82164269 132535.1165 0.006612753 0.024548306 1.80E-05 4.745889902 0.150659584 YTQVGPDHNR ddPTM_HeLa_SAHA_4h_R1 4 YTQVGPDHNR 10 0 Q08211 Q08211 DHX9 ATP-dependent RNA helicase A 0 0 ;;; ;;; 177.44 4.85E-05 13897300 13727.5 13906 11126.6 13074.5 15229 16452.9 14408 15158.8 13308.5 13700.3 FALSE FALSE TRUE 15171.42143 14356.56352 12642.8751 13327.57585 14062.15731 15051.02036 12786.77392 14771.05985 13215.88506 14290.98698 1.061607673 1.004588664 0.884674734 0.932586103 0.983987833 1.053182707 0.894743935 1.033592702 0.924770632 1 13.80281794 -6.990783625 24.98984947 1.02930334 0.962586164 0 0.061733134 209.8873604 569098.7097 0.00853824 0.011213198 1.02E-07 6.990783625 -0.066717176 YTVQDESHSEWVSCVR ddPTM_HeLa_SAHA_4h_R1 2 YTVQDESHSEWVSCVR 16 0 P63244;H0YAF8;J3KPE3;H0Y8W2;H0YAM7;D6R9L0;D6R9Z1;D6RHH4;D6RFX4;D6RFZ9;D6RBD0 P63244 GNB2L1 "Guanine nucleotide-binding protein subunit beta-2-like 1;Guanine nucleotide-binding protein subunit beta-2-like 1, N-terminally processed" 0 0 ; ; 220.34 9.59E-21 32820000 3187.2 3471.1 3028.4 3827.4 3963 3663.2 4233.9 2613.3 3696 3750.9 FALSE FALSE TRUE 3522.444319 3583.565917 3441.094581 3901.484862 3659.355796 3351.074751 3757.490429 2546.45557 3670.279235 3912.619655 0.900277724 0.91589938 0.879486095 0.997154133 0.935270003 0.856478535 0.96035157 0.65083136 0.938061851 1 11.93391916 -3.819175662 1.910879617 0.941929607 3.18E-09 0.748221952 0.047685096 1.746811341 2.067253608 0.00770691 4.471489995 0.000151644 3.819175662 -0.941929603 YVAAMIRNSK(ac)THEGLTEENFK ddPTM_HeLa_SAHA_4h_R1 1 YVAAMIRNSKTHEGLTEENFK 21 2 Q9UL62 Q9UL62 TRPC5 Short transient receptor potential channel 5 0 1 YVAAMIRNSK(1)THEGLTEENFK 61.276 0.006882 932010 0 215.76 284.09 533.92 460.59 637.63 325.79 289.54 596.85 625.5 FALSE TRUE FALSE 0 222.7507656 322.8043057 544.2547937 425.2996937 583.3003368 289.1312518 282.133986 592.6964723 652.4683661 0 0.341397035 0.494743228 0.834147404 0.651831898 0.893990218 0.443134513 0.432410214 0.908391124 1 9.349764146 -9.69635111 1.594491279 0.998684215 0.443270375 0.309699395 0.247821839 0.3830221 1.762392361 0.219868746 0.049137109 2.01E-10 9.69635111 -0.55541384 YVASYLLAALGGNSS(ph)PSAK ddPTM_HeLa_SAHA_4h_R1 2 YVASYLLAALGGNSSPSAK 19 0 P05387 P05387 RPLP2 60S acidic ribosomal protein P2 1 0 YVASYLLAALGGNS(0.181)S(0.727)PS(0.092)AK;YVASYLLAALGGNS(0.025)S(0.972)PS(0.003)AK ; 205.66 4.34E-20 12949000 546.18 717.13 712.16 733.19 761.62 956.72 675.05 757.39 852.27 992.37 TRUE FALSE FALSE 603.6297184 740.3654825 809.209456 747.3819527 703.2648401 875.2020736 599.0915974 738.0170605 846.3389837 1035.155927 0.583129268 0.715221217 0.781727114 0.721999394 0.679380586 0.845478493 0.578745271 0.712952552 0.81759565 1 10.01563238 -9.445942905 1.140584855 1.00247527 0.694422239 0.390790069 0.09311186 0.234488428 0.538635464 0.057863631 0.013945072 3.58E-10 9.445942905 -0.308053031 YVATLGVEVHPLVFHTNR ddPTM_HeLa_SAHA_4h_R1 2 YVATLGVEVHPLVFHTNR 18 0 F5H018;B5MDF5;J3KQE5;P62826;H0YFC6 F5H018 RAN GTP-binding nuclear protein Ran 0 0 ; ; 135.86 1.31E-06 9017800 2994.97 3225.5 3774.5 4458.7 4287 1144.16 4804.6 550.35 2447.9 3405.9 FALSE FALSE TRUE 3309.994686 3330.008316 4288.869203 4545.004586 3958.530986 1046.671131 4263.973763 536.2728439 2430.864865 3552.745017 0.931672459 0.937305745 1.20719871 1.279293775 1.114217589 0.294609134 1.200191329 0.150946055 0.684221596 1 11.79471843 -4.251719056 24.55830818 0.978352968 0.150945482 0.433239028 0.277301048 676.8442396 1709996.076 0.034157015 0.589913133 5.60E-05 4.251719056 -0.827407486 YVDEENS(ph)DGETSNHR ddPTM_HeLa_SAHA_4h_R1 3 YVDEENSDGETSNHR 15 0 A0A494C108;Q8N9T8;H0YFD2;F8WFC1;H0YH26 A0A494C108 KRI1 Protein KRI1 homolog 1 0 YVDEENS(1)DGETSNHR;YVDEENS(1)DGETSNHR;YVDEENS(1)DGETSNHR ;; 229.92 9.41E-25 46883000 3619.68 4938.5 2229.84 5400.6 7555 14336 5112.7 6629.8 5924.5 5841.2 TRUE FALSE FALSE 4000.41455 5098.51064 2533.710983 5505.136422 6976.137532 13114.49215 4537.40554 6460.219316 5883.270922 6093.042718 0.656554489 0.836775791 0.415836734 0.90351187 1.144934945 2.152371607 0.744686317 1.060261616 0.965571914 1 12.57294714 -5.723503815 4.013468665 0.801008552 1.313563955 0.297317574 0.366608304 0.210277798 7.214176653 0.053601447 0.107995728 1.89E-06 5.723503815 0.512555402 YVDIAIPCNNK ddPTM_HeLa_SAHA_4h_R1 2 YVDIAIPCNNK 11 0 C9J9K3;A0A0C4DG17;P08865 C9J9K3 RPSA 40S ribosomal protein SA 0 0 ; ; 182.65 2.44E-16 7280300 5670.5 5231.9 5128.9 6107.6 6198.8 5991.7 6399.3 4754.5 5152.8 5287.3 FALSE FALSE TRUE 6266.949207 5401.416993 5827.839782 6225.82143 5723.849283 5481.173452 5679.233922 4632.886774 5116.941245 5515.261378 1.136292331 0.979358297 1.056675175 1.128835245 1.03782013 0.993819345 1.029730693 0.840012187 0.927778557 1 12.42921354 -3.428353167 1.044505681 1.060742186 3.65E-11 0.396517772 0.06512432 5.177563067 1.232978708 0.009151422 9.307380422 0.000372947 3.428353167 -1.060742186 YVDTPFGKPSDALILGK ddPTM_HeLa_SAHA_4h_R1 1 YVDTPFGKPSDALILGK 17 1 B4DUC8;Q13126;F2Z2F3;J3QSB7;Q13126-7;Q13126-4;Q13126-6;Q13126-5;Q13126-3;Q13126-2 B4DUC8 MTAP S-methyl-5-thioadenosine phosphorylase;Purine nucleoside phosphorylase 0 0 134.81 8.43E-06 654720 871.42 583.68 628.87 574.14 799.59 762.95 882.32 724.45 902.4 699.11 FALSE FALSE TRUE 963.0799538 602.591615 714.5691286 585.2533099 738.3255869 697.9423678 783.0390315 705.919618 896.1201249 729.2520535 1.320640716 0.826314595 0.979865775 0.802539132 1.012442246 0.95706603 1.073756361 0.968004978 1.228820846 1 9.510273733 -7.253348769 24.94099319 1.151413672 0.949447576 0.500490823 0.107260575 521.1516509 1606558.892 0.022959256 0.02786794 5.58E-08 7.253348769 -0.201966096 YVEVS(ph)PATER ddPTM_HeLa_SAHA_4h_R1 2 YVEVSPATER 10 0 Q9NTZ6 Q9NTZ6 RBM12 RNA-binding protein 12 1 0 YVEVS(0.984)PAT(0.016)ER;YVEVS(0.985)PAT(0.015)ER ; 136.81 0.0012815 9237100 2731.1 3019.7 2253.9 2219.31 2834.8 3137.5 2982.8 2601.5 3117.9 2643.1 TRUE FALSE FALSE 3018.369629 3117.540261 2561.049754 2262.267954 2617.598236 2870.167349 2647.167494 2534.957397 3096.20228 2757.056976 1.094779562 1.130749306 0.928907083 0.820537252 0.949417534 1.041025765 0.96014247 0.919443239 1.1230099 1 11.42891337 -6.737032899 24.98094671 1.052457004 0.937706464 0.54674113 0.064113451 177.2404803 181411.8609 0.010917967 0.015436256 1.83E-07 6.737032899 -0.11475054 YVGFGNT(ph)PPPQK ddPTM_HeLa_SAHA_4h_R1 2 YVGFGNTPPPQK 12 0 F8VWH9;Q8N6T3-5;Q8N6T3;Q8N6T3-2;Q8N6T3-4;E5RHT6;E5RHC5;F8W1U7;Q8N6T3-3 F8VWH9 ARFGAP1 ADP-ribosylation factor GTPase-activating protein 1 1 0 Y(0.009)VGFGNT(0.991)PPPQK;YVGFGNT(1)PPPQK ; 111.39 0.0049623 11051600 4480.1 4719.2 4566.7 4912.9 5519.4 6372.4 4886.4 4395.2 6487.6 4824.9 TRUE FALSE FALSE 4951.337473 4872.105176 5189.026094 5007.996284 5096.504764 5829.43567 4336.569412 4282.777148 6442.452263 5032.925051 0.983789232 0.96804644 1.031015968 0.995046863 1.012632756 1.15825998 0.861639974 0.850951903 1.280061236 1 12.2971814 -4.57284388 24.99999898 1.003963095 0.853622894 0.293418923 0.101313407 46.1196604 23075.79132 0.006820653 0.025520559 2.67E-05 4.57284388 -0.150340201 YVGFGNT(ph)PPPQKK ddPTM_HeLa_SAHA_4h_R1 1 YVGFGNTPPPQKK 13 1 F8VWH9;Q8N6T3-5;Q8N6T3;Q8N6T3-2;Q8N6T3-4;E5RHT6;E5RHC5;F8W1U7;Q8N6T3-3 F8VWH9 ARFGAP1 ADP-ribosylation factor GTPase-activating protein 1 1 0 Y(0.012)VGFGNT(0.988)PPPQKK 67.358 0.0078481 0 2273 2354.8 1877.9 2457 2332.7 2370.4 2269.2 2211.3 2492.1 1842.4 TRUE FALSE FALSE 2512.084569 2431.097065 2133.810432 2504.558788 2153.96903 2168.428584 2013.863644 2154.738148 2474.757273 1921.83488 1.3071282 1.264987481 1.110298525 1.303212265 1.12078777 1.128311598 1.047885885 1.12118797 1.287705462 1 10.90826867 -5.215327993 2.693333556 1.166054625 1.087686364 0.12862813 0.099377897 0.683296328 9.707724426 0.018641213 0.053743987 6.09E-06 5.215327993 -0.078368261 YVIS(ph)DEEEEDDD ddPTM_HeLa_SAHA_4h_R1 1 YVISDEEEEDDD 12 0 Q8WVC0-2;Q8WVC0 Q8WVC0-2 LEO1 RNA polymerase-associated protein LEO1 1 0 YVIS(1)DEEEEDDD 166.29 0.00010941 41313000 3006 3247.7 2815.4 2925.6 3330.9 3656.1 3344.2 3194.3 3214.2 2880 TRUE FALSE FALSE 3322.184872 3352.927611 3199.06805 2982.229218 3075.687162 3344.579711 2967.901815 3112.594431 3191.832121 3004.170894 1.105857486 1.116090838 1.064875522 0.992696262 1.023805659 1.113312068 0.987927092 1.036091002 1.062466894 1 11.55275117 YVIYIER ddPTM_HeLa_SAHA_4h_R1 2 YVIYIER 7 0 P61254;J3QRI7;J3QQQ9;J3QQV1;E5RIT6;Q9UNX3;J3QRC4;J3KS10 P61254 RPL26;RPL26L1 60S ribosomal protein L26;60S ribosomal protein L26-like 1 0 0 ; ; 128.48 0.010324 44048200 4187.01 4425.6 5085.3 5239.3 5594.2 5296.4 5263.3 4096.85 5283.7 4571.5 FALSE FALSE TRUE 4627.418922 4568.992344 5778.298201 5340.714228 5165.573605 4845.116923 4671.059632 3992.058509 5246.930302 4768.599737 0.970393654 0.958141298 1.211738984 1.119975364 1.083247471 1.016046049 0.979545336 0.837155293 1.10030839 1 12.21934998 -4.265637923 2.566947441 1.017845714 0.799937878 0.33677371 0.080782214 0.507309831 4.246860614 0.012137076 0.237419226 5.42E-05 4.265637923 -0.217907836 YVLEEAEQLEPR ddPTM_HeLa_SAHA_4h_R1 1 YVLEEAEQLEPR 12 0 Q8NAV1 Q8NAV1 PRPF38A Pre-mRNA-splicing factor 38A 0 0 112.83 0.0023838 0 0 225.62 195.19 186.89 253.74 270.54 213.3 264.63 300.07 191.48 FALSE FALSE TRUE 0 232.930236 221.7894767 190.5075262 234.298496 247.48847 189.2989226 257.8611478 297.9817884 199.7356399 0 1.166192654 1.110415131 0.953798362 1.173043009 1.239080167 0.947747346 1.2910122 1.491880911 1 7.641947973 -7.221582863 24.72261487 0.527777697 1.117998224 0 0.392044664 375.3137254 232803.7343 0.062280668 0.076277329 6.00E-08 7.221582863 0.590220527 YVVACK(ac)EPK ddPTM_HeLa_SAHA_4h_R1 2 YVVACKEPK 9 1 Q96ES7;H3BN84 Q96ES7 CCDC101 SAGA-associated factor 29 homolog 0 1 ; YVVACK(1)EPK;YVVACK(1)EPK 161.79 3.31E-07 9048300 5836.7 5981.3 6561 6207.3 7001.5 6044.2 7207.7 4123.9 3299.8 5456.8 FALSE TRUE FALSE 6450.630886 6175.098044 7455.098912 6327.451267 6465.046583 5529.200156 6396.670626 4018.416609 3276.836423 5692.069353 1.13326639 1.084859945 1.309734378 1.111625821 1.135798983 0.971386646 1.123786488 0.705967612 0.575684557 1 12.47473752 -4.258062146 24.86054186 1.087062962 0.705967458 0.216619619 0.183988633 164.7709196 1212853.091 0.013234081 0.128388111 5.52E-05 4.258062146 -0.381095504 YVVGLIIK ddPTM_HeLa_SAHA_4h_R1 2 YVVGLIIK 8 0 O14980;C9J673;C9JKM9 O14980 XPO1 Exportin-1 0 0 ; ; 129.16 0.001108 1017310 1188.69 1403.86 1549.6 1620.46 2050.75 1398.77 1683.18 1080.46 1156.14 1394.36 FALSE FALSE TRUE 1313.721868 1449.345985 1760.771418 1651.826347 1893.621978 1279.586927 1493.784157 1052.823398 1148.094328 1454.477683 0.903225868 0.996471793 1.210586754 1.135683528 1.30192577 0.879757002 1.027024459 0.723849812 0.789351628 1 10.50628545 -1.034592287 18.18637501 0.994303317 0.01735649 0 0.17293714 0 0 0.021549643 0 0.092343794 1.034592287 -0.976946827 YVVVTGITPTPLGEGK ddPTM_HeLa_SAHA_4h_R1 2 YVVVTGITPTPLGEGK 16 0 V9GZ78;V9GYY3;A0A384N5Y3;F5H2F4;P11586;A0A494C1T2 V9GZ78 MTHFD1 "C-1-tetrahydrofolate synthase, cytoplasmic;Methylenetetrahydrofolate dehydrogenase;Methenyltetrahydrofolate cyclohydrolase;Formyltetrahydrofolate synthetase;C-1-tetrahydrofolate synthase, cytoplasmic, N-terminally processed" 0 0 ; ; 248.19 5.43E-70 1556800 965.11 857.63 1056.08 1062.75 1019.28 984.15 1130.76 923.03 951.26 983 FALSE FALSE TRUE 1066.624698 885.4177747 1199.997083 1083.321063 941.1829866 900.2948833 1003.523909 899.4202291 944.6401042 1025.381941 1.040221849 0.863500457 1.170292781 1.056504918 0.917885277 0.878009303 0.978683034 0.8771563 0.921256818 1 10.00194568 -5.748143554 24.30699414 1.021430851 0.915135235 0.24104175 0.081268639 149.3512436 273036.5584 0.010378793 0.020653225 1.79E-06 5.748143554 -0.106295616 YVWLVYEQDRPLK ddPTM_HeLa_SAHA_4h_R1 2 YVWLVYEQDRPLK 13 1 P30086 P30086 PEBP1 Phosphatidylethanolamine-binding protein 1;Hippocampal cholinergic neurostimulating peptide 0 0 ; ; 98.407 0.0080275 1730800 843.61 900.66 923.26 1154.76 1045.84 1502.17 1292.74 777.369 1191.58 1320.97 FALSE FALSE TRUE 932.3447704 929.8419749 1049.077065 1177.11205 965.7079651 1374.176665 1147.277493 757.4850266 1183.287698 1377.923481 0.676630294 0.674813941 0.761346387 0.854265179 0.700842956 0.997280824 0.832613355 0.549729384 0.85874703 1 10.42828006 -9.414126439 1.142910769 0.999930882 0.758011182 0.215351959 0.122213285 0.419283453 0.980055584 0.080047955 0.020277493 3.85E-10 9.414126439 -0.2419197 YWGPAS(ph)PTHK ddPTM_HeLa_SAHA_4h_R1 2 YWGPASPTHK 10 0 A0A3B3ISQ4;Q9H6S3-2;Q9H6S3;Q9H6S3-3 A0A3B3ISQ4 EPS8L2 Epidermal growth factor receptor kinase substrate 8-like protein 2 1 0 YWGPAS(0.962)PT(0.038)HK;Y(0.134)WGPAS(0.593)PT(0.273)HK ; 106.26 0.00533 13751900 3123 4372.3 3088.9 3866.9 4702.3 5013.2 5069.5 3966.3 5590.1 3847.8 TRUE FALSE FALSE 3451.491469 4513.965389 3509.839206 3941.749441 4342.01079 4586.047157 4499.066518 3864.847789 5551.198039 4013.697489 0.859928153 1.124640161 0.874465307 0.982074372 1.081798218 1.142599105 1.120928154 0.962914569 1.383063386 1 11.97071617 -5.837697552 3.993251861 0.944926279 1.085545664 0 0.161001021 0.185456362 5.740204224 0.012929274 0.024580854 1.45E-06 5.837697552 0.140619385 YWLCAATGPSIK ddPTM_HeLa_SAHA_4h_R1 1 YWLCAATGPSIK 12 0 P63244;H0YAF8;J3KPE3;H0Y8W2;D6RAC2;H0YAM7;D6REE5;H0Y8R5;D6RF23;H0Y9P0 P63244 GNB2L1 "Guanine nucleotide-binding protein subunit beta-2-like 1;Guanine nucleotide-binding protein subunit beta-2-like 1, N-terminally processed" 0 0 150.1 6.74E-05 3496700 1978.6 1593.6 2516.7 2097.3 2006.7 521.3 2357.2 300.76 357.18 1354.4 FALSE FALSE TRUE 2186.718226 1645.233686 2859.66277 2137.896274 1852.94708 476.8823072 2091.961652 293.0669947 354.6943553 1412.794812 1.547796047 1.164524155 2.024117547 1.513239046 1.3115472 0.337545341 1.480725746 0.207437762 0.251058648 1 10.46433624 -5.362669974 9.033685226 1.339308492 0.756561528 0.184594226 0.536142969 0.337133822 27.59550717 0.059599749 0.133461131 4.34E-06 5.362669974 -0.582746964 YWLEEAECR ddPTM_HeLa_SAHA_4h_R1 3 YWLEEAECR 9 0 P55884;P55884-2;C9JZG1;C9JQN7 P55884 EIF3B Eukaryotic translation initiation factor 3 subunit B 0 0 ;; ;; 174.16 0.00012441 24876100 3796.31 3439.6 3744.81 4447.3 3928.89 4026.23 4303.58 2613.09 3944.3 3715.26 FALSE FALSE TRUE 4195.623304 3551.045297 4255.133205 4533.383922 3627.859297 3683.172553 3819.329852 2546.250942 3916.851295 3875.443041 1.082617719 0.916294024 1.097973357 1.169771785 0.936114725 0.950387482 0.985520833 0.657021898 1.01068478 1 11.92014553 -3.778016798 1.197635881 1.036691799 5.66E-18 0.672870399 0.075229799 1.844653304 0.988756859 0.011113609 3.153356803 0.000166718 3.778016798 -1.036691799 YYDSRPGGYGYGYGR ddPTM_HeLa_SAHA_4h_R1 1 YYDSRPGGYGYGYGR 15 1 P98179 P98179 RBM3 RNA-binding protein 3 0 0 91.202 0.011389 5973800 1523.1 1027.5 1321.9 1254.3 1317.1 1088.7 1405.6 795.42 1132.3 1099.9 FALSE FALSE TRUE 1683.306646 1060.791674 1502.041648 1278.57879 1216.184083 995.9366351 1247.438189 775.0743082 1124.420232 1147.322072 1.467161391 0.924580552 1.309171753 1.114402679 1.060019773 0.868053234 1.087260691 0.675550769 0.980038875 1 10.16405472 -4.664448767 0.654788716 1.207532351 0.635092691 0.270579013 0.179810385 1.86881657 0.746961496 0.036693565 0.717414619 2.17E-05 4.664448767 -0.57243966 YYEDLDEVSS(ph)TSSVSQSLESEDAR ddPTM_HeLa_SAHA_4h_R1 1 YYEDLDEVSSTSSVSQSLESEDAR 24 0 A0A494C1F2;P35658-2;P35658-4;P35658;P35658-3;P35658-5;A0A0A0MSW3 A0A494C1F2 NUP214 Nuclear pore complex protein Nup214 1 0 YYEDLDEVS(0.004)S(0.969)T(0.022)S(0.005)S(0.001)VSQSLESEDAR 207.6 9.43E-23 2703600 580.17 866.05 708.03 653.96 822.24 979.4 751.44 1009.7 633.76 799.7 TRUE FALSE FALSE 641.1949425 894.1105882 804.5166411 666.6183414 759.2401488 895.94961 666.8859935 983.873336 629.3496126 834.1789806 0.768653919 1.071845022 0.964441277 0.79913107 0.910164565 1.074049611 0.799451927 1.179451124 0.754453933 1 9.70421315 -4.245933921 23.91172738 0.90854421 1.179451491 0.338131895 0.115211087 1465.169913 2259442.093 0.016014162 0.492573377 5.68E-05 4.245933921 0.270907281 YYEVLGAAATTDYNNNHEGREEDQR ddPTM_HeLa_SAHA_4h_R1 1 YYEVLGAAATTDYNNNHEGREEDQR 25 1 P46379-3;P46379;P46379-2;A0A0G2JK23;A0A024RCR6;P46379-5;A0A0G2JL47;P46379-4;F6S6P2;X6REW1;A0A0G2JJM1 P46379-3 BAG6;BAT3 Large proline-rich protein BAG6 0 0 75.611 0.00019473 3951000 559.72 602.49 642.06 815.01 714.91 793.77 764.63 693.36 762.09 821.32 FALSE FALSE TRUE 618.5939177 622.0110713 729.5565931 830.7856971 660.1337502 726.1363304 678.59182 675.6248552 756.7865536 856.7311246 0.722039739 0.726028334 0.851558409 0.969715787 0.770526168 0.847566184 0.792070932 0.788607809 0.883341963 1 9.742698692 -9.470640831 1.21940156 0.999594001 0.802906715 0.288149129 0.075900855 0.314081006 0.83824626 0.051260299 0.012722772 3.38E-10 9.470640831 -0.196687286 YYGGAGGS(ph)PGK ddPTM_HeLa_SAHA_4h_R1 2 YYGGAGGSPGK 11 0 A0A1B0GTT1;A0A1B0GVM0;Q9BUH8 A0A1B0GTT1 BEGAIN Brain-enriched guanylate kinase-associated protein 1 0 YYGGAGGS(1)PGK;YYGGAGGS(1)PGK ; 98.182 0.0094697 16323900 4827.7 4240.7 4097 4140.9 4280.7 5066.5 4853.8 5070.8 5038 4709 TRUE FALSE FALSE 5335.499636 4378.101462 4655.317824 4221.053107 3952.713691 4634.805697 4307.637649 4941.096278 5002.940148 4912.028035 1.086211153 0.891302214 0.947738447 0.859330011 0.804700963 0.94356255 0.876957057 1.005917768 1.018508061 1 12.26210308 -7.252140474 24.58813719 1.040710822 0.900800612 0.535808824 0.055601858 288.5731493 763044.2481 0.009774688 0.011879974 5.60E-08 7.252140474 -0.139910211 YYGGGS(ph)EGGRAPK ddPTM_HeLa_SAHA_4h_R1 2 YYGGGSEGGRAPK 13 1 P14866 P14866 HNRNPL Heterogeneous nuclear ribonucleoprotein L 1 0 YYGGGS(1)EGGRAPK;YYGGGS(1)EGGRAPK ; 190.57 8.52E-07 16353700 3367.1 3131.9 2787.4 3436.7 3366.6 3826.3 3452.7 3100.2 2265.55 3241.9 TRUE FALSE FALSE 3721.267027 3233.375615 3167.252356 3503.222298 3108.651835 3500.277714 3064.193109 3020.901373 2249.783853 3381.674174 1.100421518 0.956146408 0.936592999 1.03594318 0.91926415 1.035072433 0.906117193 0.893315328 0.665286996 1 11.72352195 -7.237080863 23.46050749 1.04742127 0.956936328 0 0.131108972 287.4404015 276843.4435 0.009401558 0.011510152 5.79E-08 7.237080863 -0.090484942 YYGGGSEGGR ddPTM_HeLa_SAHA_4h_R1 1 YYGGGSEGGR 10 0 P14866 P14866 HNRNPL Heterogeneous nuclear ribonucleoprotein L 0 0 104.44 0.013491 691680 259.12 282.6 266.86 188.24 325.92 369.55 255.32 220.79 216.27 283.85 FALSE FALSE TRUE 286.3754305 291.7564254 303.2262911 191.8836574 300.94808 338.062261 226.5907216 215.1425115 214.7649595 296.0881626 0.967196486 0.98537011 1.024108118 0.648062576 1.016413751 1.141762163 0.765281258 0.726616389 0.725341255 1 8.209883004 -4.627342197 8.417109819 0.973644382 0.73657729 0.199155301 0.141890649 0.173745131 12.35248976 0.01574819 0.059327351 2.36E-05 4.627342197 -0.237067092 YYGGGSEGGRAPK(ac)R ddPTM_HeLa_SAHA_4h_R1 2 YYGGGSEGGRAPKR 14 2 P14866 P14866 HNRNPL Heterogeneous nuclear ribonucleoprotein L 0 1 ; YYGGGSEGGRAPK(1)R;YYGGGSEGGRAPK(1)R 95.273 0.0084886 4473500 392.38 127.29 463.48 432.51 305.12 168.161 349.85 156.76 0 316.22 FALSE TRUE FALSE 433.6523287 131.4142795 526.6406407 440.8818565 281.7417715 153.8327368 310.4839572 152.7503062 0 329.8537917 1.314680442 0.398401603 1.596588106 1.336597812 0.854141376 0.466366434 0.941277515 0.463084888 0 1 8.365682879 -5.549375312 6.195352709 1.137885526 0.655023534 0 0.47922299 0.145602286 18.13056189 0.04480804 0.091878589 2.82E-06 5.549375312 -0.482861991 YYITIIDAPGHR ddPTM_HeLa_SAHA_4h_R1 1 YYITIIDAPGHR 12 0 A0A2U3TZH3;Q05639;A0A2R8Y488;A0A2R8Y660;A0A2R8YDN5 A0A2U3TZH3 EEF1A2 Elongation factor 1-alpha 2 0 0 119.03 0.00096233 1207200 865.77 1158.1 946.02 1018.8 1204.6 1375.4 1336.5 689.29 1187.5 1096.1 FALSE FALSE TRUE 956.8356609 1195.6232 1074.938679 1038.520347 1112.303808 1258.208182 1186.113503 671.6589599 1179.236091 1143.358235 0.836864275 1.045711801 0.940159126 0.908307051 0.972839285 1.100449661 1.037394463 0.587444022 1.031379365 1 10.15906178 -12.35895538 0.00512414 1.924305806 1.88E-06 0.035978875 0.137108676 220844.5206 112.6635192 22433.97808 19942.67228 4.38E-13 12.35895538 -1.924303925 YYK(ac)VDENGK ddPTM_HeLa_SAHA_4h_R1 2 YYKVDENGK 9 1 P62979;A0A2R8Y422 P62979 RPS27A Ubiquitin-40S ribosomal protein S27a;Ubiquitin;40S ribosomal protein S27a 0 1 ; YYK(1)VDENGK;YYK(1)VDENGK 168.83 6.64E-11 7879300 2286.3 4952.4 3397.1 3226.2 4731.7 3942.2 5106.3 4134.3 3131.6 1760.44 FALSE TRUE FALSE 2526.783524 5112.861009 3860.039097 3288.647766 4369.158168 3606.302382 4531.725685 4028.550592 3109.806941 1836.341184 1.37598805 2.784265285 2.102027189 1.79086969 2.379273638 1.963852041 2.467801586 2.193791997 1.693479931 1 10.84261841 -7.427076414 5.362313769 1.162048526 2.219863568 0.613199926 0.313932953 0.077334263 3.358970993 0.047514214 0.053795259 3.74E-08 7.427076414 1.057815042 YYMSDDISRDS(ph)DGMDEQCR ddPTM_HeLa_SAHA_4h_R1 2 YYMSDDISRDSDGMDEQCR 19 1 P46100-5;P46100-3;P46100-4;P46100;A0A096LNW1;A0A096LNL9;P46100-6;A0A096LNL6;A0A096LNN3 P46100-5 ATRX Transcriptional regulator ATRX 1 0 YYMS(0.002)DDIS(0.117)RDS(0.881)DGMDEQCR;YYMSDDIS(0.011)RDS(0.989)DGMDEQCR ; 86.357 0.0018335 15266000 1398.43 1373.94 1190.8 1456.05 1626.26 1817.19 1780.22 1709 1594.03 1463.02 TRUE FALSE FALSE 1545.523284 1418.456557 1353.076023 1484.233953 1501.65631 1662.355189 1579.90496 1665.286255 1582.937015 1526.097952 1.012728758 0.929466261 0.886624624 0.972567948 0.983984225 1.089284725 1.0352579 1.091205353 1.037244702 1 10.57563185 -5.269340315 24.5411261 0.987225107 1.068250184 0.495533895 0.04365244 354.2542803 1100351.268 0.006784436 0.015450555 5.38E-06 5.269340315 0.081025077 YYS(ph)DSDDELTVEQR ddPTM_HeLa_SAHA_4h_R1 1 YYSDSDDELTVEQR 14 0 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 YYS(0.932)DS(0.068)DDELT(0.001)VEQR 175.01 1.34E-06 4484900 638.68 851.33 647.83 961.75 919.65 1043 1065.9 684.28 739.1 752.63 TRUE FALSE FALSE 705.8592928 878.9136506 736.1128986 980.366062 849.1866157 954.1305322 945.9621267 666.7771084 733.9565429 785.0795626 0.899092686 1.119521756 0.937628406 1.248747399 1.08165676 1.215329729 1.204925172 0.84931151 0.934881734 1 9.616695059 -6.745314827 1.528810545 0.955647478 1.121562286 0.212323781 0.121719258 0.363452096 1.722694622 0.020334043 0.030051427 1.80E-07 6.745314827 0.165914808 YYS(ph)IDDNQNK ddPTM_HeLa_SAHA_4h_R1 4 YYSIDDNQNK 10 0 Q8NI08-2;Q8NI08;Q8NI08-4;Q8NI08-3;Q5TF97;Q5TF96 Q8NI08-2 NCOA7 Nuclear receptor coactivator 7 1 0 YYS(1)IDDNQNK;YYS(1)IDDNQNK;Y(0.001)YS(0.999)IDDNQNK;Y(0.094)Y(0.003)S(0.904)IDDNQNK ;;; 177.04 4.70E-05 62131500 5884.3 10153.48 6449.51 4982.41 9164.33 10492.76 9234.48 5903.13 8595.02 8647.97 TRUE FALSE FALSE 6503.237672 10482.45941 7328.415635 5078.85175 8462.161015 9598.717817 8195.392007 5752.136482 8535.206556 9020.826309 0.720913744 1.162028738 0.812388509 0.563014027 0.938069388 1.064061926 0.908496819 0.63765073 0.946166822 1 13.13904388 -9.673428506 1.527192777 1.000101171 0.83979054 0.068197831 0.174089027 0.786674082 3.300132059 0.126666435 0.028222362 2.12E-10 9.673428506 -0.16031063 YYS(ph)PCEEHPAETNQNEGSESGTIR ddPTM_HeLa_SAHA_4h_R1 1 YYSPCEEHPAETNQNEGSESGTIR 24 0 A0A2R8YFR7;Q12774;A0A5F9ZGZ6 A0A2R8YFR7 ARHGEF5 Rho guanine nucleotide exchange factor 5 1 0 Y(0.124)Y(0.124)S(0.751)PCEEHPAETNQNEGSESGTIR 106.51 9.69E-06 0 161.28 194.99 168.39 213.47 183.9 202.45 222.32 110.03 0 172.5 TRUE FALSE FALSE 178.2441704 201.3078039 191.3373123 217.6020205 169.8096217 185.200121 197.3039685 107.2155919 0 179.9373192 0.990590341 1.118766273 1.063355357 1.209321232 0.943715414 1.029247973 1.096514994 0.595849668 0 1 7.491350624 -4.255690643 24.8697887 1.026296603 0.595849469 0.032680119 0.333231477 233.4843465 1010051.824 0.010811138 0.128432484 5.55E-05 4.255690643 -0.430447135 YYSDS(ph)DDELTVEQR ddPTM_HeLa_SAHA_4h_R1 3 YYSDSDDELTVEQR 14 0 Q8NFC6 Q8NFC6 BOD1L1 Biorientation of chromosomes in cell division protein 1-like 1 1 0 YYS(0.367)DS(0.626)DDELT(0.007)VEQR;YYS(0.216)DS(0.783)DDELTVEQR;YYS(0.201)DS(0.597)DDELT(0.202)VEQR ;; 216.54 2.46E-17 17229300 1833.61 1936.88 1809.1 1868.09 2281.72 2491.43 2386.72 2437.53 1921.23 1849.43 TRUE FALSE FALSE 2026.477513 1999.636183 2055.634727 1904.249583 2106.895107 2279.146148 2118.159984 2375.181512 1907.860004 1929.167978 1.050441193 1.03652777 1.065555073 0.987083346 1.092126311 1.181414047 1.097965552 1.231194763 0.988954837 1 10.91376305 -1.000000004 0.314449984 1.014658418 2.930888942 0.736693152 0.039560273 19.08750427 0.243741195 0.013318117 21.20045313 0.099999999 1.000000004 1.916230524 YYTSASGDEMVSLK ddPTM_HeLa_SAHA_4h_R1 2 YYTSASGDEMVSLK 14 0 P07900;P07900-2 P07900 HSP90AA1 Heat shock protein HSP 90-alpha 0 0 ; ; 213.63 2.00E-16 6316700 1431.03 1316.87 1201.06 1147.8 1222.55 1347.36 1384.86 1427.76 1429.6 1314.19 FALSE FALSE TRUE 1581.552301 1359.537452 1364.734202 1170.017329 1128.878483 1232.557348 1229.031908 1391.239967 1419.651297 1370.851162 1.153700959 0.991746945 0.995537838 0.853496981 0.823487271 0.899118286 0.89654657 1.014873098 1.03559842 1 10.42085623 -6.659353757 2.134749482 1.071111336 0.895283004 0.544805193 0.063080938 0.18135129 1.687245815 0.01256811 0.018621811 2.19E-07 6.659353757 -0.175828332 YYVT(ph)IIDAPGHR ddPTM_HeLa_SAHA_4h_R1 1 YYVTIIDAPGHR 12 0 Q5VTE0;P68104;A0A087WVQ9;A0A087WV01;A6PW80;Q5JR01 Q5VTE0 EEF1A1P5;EEF1A1 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha 1 0 YYVT(1)IIDAPGHR 97.45 0.0091231 2589300 1545.2 1445.3 1508.3 1430.9 1529.4 1393.5 1654.5 1784 1480.5 1330 TRUE FALSE FALSE 1707.731226 1492.128668 1713.843269 1458.597139 1412.217702 1274.76596 1468.331306 1738.367863 1470.19708 1387.342809 1.230936734 1.075529897 1.235342309 1.051360291 1.017929882 0.91885434 1.058376701 1.253019695 1.059721556 1 10.4381086 -6.061677935 24.99293502 1.118515449 1.049440295 0.075237461 0.102570698 503.2711621 203933.0795 0.017984073 0.029823229 8.68E-07 6.061677935 -0.069075154 YYVTIIDAPGHR ddPTM_HeLa_SAHA_4h_R1 3 YYVTIIDAPGHR 12 0 Q5VTE0;P68104;A0A087WVQ9;A0A087WV01;A6PW80;Q5JR01 Q5VTE0 EEF1A1P5;EEF1A1 Putative elongation factor 1-alpha-like 3;Elongation factor 1-alpha 1;Elongation factor 1-alpha 0 0 ;; ;; 169.52 4.47E-11 96355000 6682.1 7128.1 7716.7 7731.3 9196.8 8341.9 8256.4 5289.2 8286.9 7491.1 FALSE FALSE TRUE 7384.953937 7359.055117 8768.291689 7880.950491 8492.143171 7631.12319 7327.368142 5153.909923 8229.230788 7814.077982 0.945083214 0.941768835 1.12211469 1.008557953 1.086774817 0.976586516 0.937713721 0.65956725 1.053128828 1 12.93185994 -4.234920838 2.582113434 0.992288611 0.576690158 0.75949818 0.059021907 0.215199763 1.718940798 0.008425944 0.198959133 5.82E-05 4.234920838 -0.415598453